Query 033982
Match_columns 107
No_of_seqs 172 out of 1029
Neff 9.5
Searched_HMMs 46136
Date Fri Mar 29 08:28:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033982.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033982hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd01989 STK_N The N-terminal d 99.7 9E-16 2E-20 94.5 9.0 92 1-107 3-95 (146)
2 PRK15005 universal stress prot 99.5 9.4E-14 2E-18 85.2 6.7 92 1-107 6-99 (144)
3 PRK09982 universal stress prot 99.5 9E-14 2E-18 85.6 6.5 89 1-107 7-95 (142)
4 PRK15456 universal stress prot 99.4 5.2E-13 1.1E-17 82.0 7.2 90 1-107 6-97 (142)
5 PRK12652 putative monovalent c 99.4 8.5E-13 1.8E-17 92.0 7.7 83 1-107 9-105 (357)
6 PRK15118 universal stress glob 99.4 3.1E-12 6.8E-17 78.6 6.9 35 1-37 7-41 (144)
7 cd01988 Na_H_Antiporter_C The 99.3 2.9E-11 6.3E-16 72.7 7.1 82 1-106 3-85 (132)
8 PRK10116 universal stress prot 99.3 5E-11 1.1E-15 72.9 7.8 87 1-107 7-94 (142)
9 PRK11175 universal stress prot 99.2 1.4E-10 3E-15 79.1 8.1 92 1-107 7-99 (305)
10 cd01987 USP_OKCHK USP domain i 99.2 1.2E-10 2.7E-15 69.6 6.5 36 1-38 3-38 (124)
11 cd00293 USP_Like Usp: Universa 99.1 1.4E-09 3E-14 64.5 8.2 81 1-105 3-83 (130)
12 PF00582 Usp: Universal stress 99.0 1E-09 2.2E-14 65.7 6.0 39 1-41 6-44 (140)
13 PRK11175 universal stress prot 98.5 3.2E-07 6.9E-12 62.6 6.1 38 1-40 156-201 (305)
14 COG0589 UspA Universal stress 98.4 5.6E-06 1.2E-10 50.4 8.5 91 1-104 9-101 (154)
15 PRK10490 sensor protein KdpD; 97.6 0.00021 4.6E-09 55.7 6.7 36 1-38 254-289 (895)
16 COG2205 KdpD Osmosensitive K+ 96.6 0.019 4.2E-07 44.5 8.2 37 1-39 252-288 (890)
17 cd01984 AANH_like Adenine nucl 94.9 0.055 1.2E-06 30.0 3.6 33 1-36 2-34 (86)
18 TIGR02432 lysidine_TilS_N tRNA 89.1 3.9 8.4E-05 25.9 7.1 34 1-36 3-36 (189)
19 TIGR00591 phr2 photolyase PhrI 78.7 17 0.00038 26.6 7.3 28 10-39 37-64 (454)
20 cd01992 PP-ATPase N-terminal d 68.0 27 0.00058 21.8 7.3 34 1-36 3-36 (185)
21 PHA02135 hypothetical protein 66.7 23 0.00051 20.7 4.7 35 73-107 71-105 (122)
22 PF01261 AP_endonuc_2: Xylose 58.9 42 0.00092 21.0 7.6 25 10-36 69-93 (213)
23 TIGR00169 leuB 3-isopropylmala 58.0 13 0.00028 26.6 2.9 28 8-37 163-190 (349)
24 TIGR02088 LEU3_arch isopropylm 55.4 15 0.00034 25.9 2.9 26 8-35 141-166 (322)
25 PRK09856 fructoselysine 3-epim 54.2 63 0.0014 21.6 7.1 23 10-34 88-110 (275)
26 PRK08194 tartrate dehydrogenas 54.2 17 0.00036 26.1 2.9 28 8-37 161-188 (352)
27 PRK00772 3-isopropylmalate deh 51.9 19 0.00041 25.9 2.9 29 8-38 166-194 (358)
28 COG2086 FixA Electron transfer 50.7 26 0.00056 24.0 3.3 33 5-39 34-67 (260)
29 PRK08997 isocitrate dehydrogen 50.5 21 0.00046 25.4 3.0 29 8-37 147-175 (334)
30 COG0473 LeuB Isocitrate/isopro 50.1 22 0.00047 25.5 2.9 30 8-38 156-185 (348)
31 PF03102 NeuB: NeuB family; I 48.9 25 0.00055 23.7 3.1 27 11-38 125-151 (241)
32 PRK08417 dihydroorotase; Provi 48.7 19 0.00042 25.7 2.6 24 12-37 182-205 (386)
33 TIGR02089 TTC tartrate dehydro 47.0 25 0.00054 25.2 2.9 28 8-37 164-191 (352)
34 PRK03437 3-isopropylmalate deh 46.9 26 0.00057 25.0 3.0 29 8-37 160-188 (344)
35 PLN02329 3-isopropylmalate deh 46.6 25 0.00053 25.8 2.9 28 8-37 211-238 (409)
36 PF01012 ETF: Electron transfe 46.5 32 0.0007 21.2 3.1 29 7-37 14-42 (164)
37 COG2179 Predicted hydrolase of 46.1 38 0.00082 21.8 3.3 31 1-34 39-69 (175)
38 PLN00118 isocitrate dehydrogen 44.5 30 0.00064 25.1 3.0 29 8-37 184-212 (372)
39 TIGR00175 mito_nad_idh isocitr 44.3 30 0.00066 24.6 3.0 29 8-37 145-173 (333)
40 PRK12342 hypothetical protein; 43.7 42 0.0009 22.9 3.5 31 6-39 33-63 (254)
41 PRK03359 putative electron tra 42.9 46 0.001 22.7 3.6 33 6-39 34-66 (256)
42 PRK08299 isocitrate dehydrogen 42.8 27 0.00058 25.6 2.6 26 9-36 186-211 (402)
43 PRK07627 dihydroorotase; Provi 42.5 29 0.00063 25.3 2.8 25 11-37 212-236 (425)
44 PF05198 IF3_N: Translation in 42.0 7.1 0.00015 21.5 -0.3 32 1-34 17-48 (76)
45 PF00180 Iso_dh: Isocitrate/is 41.8 34 0.00074 24.4 3.0 27 8-35 160-186 (348)
46 PLN00123 isocitrate dehydrogen 41.2 38 0.00082 24.4 3.1 29 8-37 168-196 (360)
47 cd00019 AP2Ec AP endonuclease 40.8 1.1E+02 0.0024 20.5 6.4 24 10-35 83-106 (279)
48 TIGR03556 photolyase_8HDF deox 40.7 67 0.0014 23.8 4.4 24 10-39 15-38 (471)
49 PRK14025 multifunctional 3-iso 40.2 39 0.00085 24.0 3.0 28 8-36 140-171 (330)
50 PRK07575 dihydroorotase; Provi 39.2 35 0.00076 24.9 2.8 23 12-36 212-234 (438)
51 PF14587 Glyco_hydr_30_2: O-Gl 39.0 62 0.0014 23.6 3.9 79 13-103 105-183 (384)
52 PRK09222 isocitrate dehydrogen 38.8 40 0.00088 25.3 3.0 29 8-37 149-177 (482)
53 PF08285 DPM3: Dolichol-phosph 37.8 70 0.0015 18.3 3.3 19 76-94 73-91 (91)
54 COG1242 Predicted Fe-S oxidore 37.7 86 0.0019 22.1 4.2 26 81-106 171-196 (312)
55 cd03364 TOPRIM_DnaG_primases T 36.9 69 0.0015 17.1 3.2 24 2-25 48-71 (79)
56 PRK04250 dihydroorotase; Provi 36.1 42 0.0009 24.3 2.7 25 11-37 183-207 (398)
57 TIGR00127 nadp_idh_euk isocitr 36.0 43 0.00093 24.6 2.8 26 8-35 186-211 (409)
58 COG1785 PhoA Alkaline phosphat 36.0 49 0.0011 24.9 3.1 25 11-37 329-353 (482)
59 TIGR02924 ICDH_alpha isocitrat 35.9 48 0.001 24.9 3.0 29 8-37 145-173 (473)
60 PF01171 ATP_bind_3: PP-loop f 35.9 1.1E+02 0.0024 19.2 7.3 36 1-38 3-38 (182)
61 PF09954 DUF2188: Uncharacteri 35.8 54 0.0012 16.8 2.5 24 9-34 27-50 (62)
62 PF02878 PGM_PMM_I: Phosphoglu 35.4 38 0.00082 20.4 2.1 35 1-37 44-78 (137)
63 PRK13404 dihydropyrimidinase; 35.3 44 0.00094 24.8 2.8 26 10-37 219-244 (477)
64 PRK07369 dihydroorotase; Provi 35.2 40 0.00088 24.5 2.6 25 11-37 213-237 (418)
65 cd01297 D-aminoacylase D-amino 34.8 64 0.0014 23.3 3.5 30 6-37 222-251 (415)
66 cd04795 SIS SIS domain. SIS (S 34.6 68 0.0015 17.0 3.0 30 2-34 52-81 (87)
67 PRK07006 isocitrate dehydrogen 34.5 55 0.0012 24.1 3.1 28 9-37 198-225 (409)
68 TIGR00857 pyrC_multi dihydroor 34.4 46 0.001 24.0 2.7 25 11-37 198-222 (411)
69 PHA02031 putative DnaG-like pr 34.1 68 0.0015 22.2 3.3 32 1-34 210-241 (266)
70 COG0492 TrxB Thioredoxin reduc 33.8 49 0.0011 23.1 2.7 25 10-37 152-176 (305)
71 COG2890 HemK Methylase of poly 33.7 45 0.00098 22.9 2.5 22 4-25 137-158 (280)
72 PF06135 DUF965: Bacterial pro 32.1 75 0.0016 17.7 2.7 30 75-104 16-49 (79)
73 KOG0784 Isocitrate dehydrogena 32.0 64 0.0014 23.3 3.0 29 8-37 184-212 (375)
74 cd01318 DHOase_IIb Dihydroorot 31.9 55 0.0012 23.3 2.8 24 12-37 158-181 (361)
75 PTZ00435 isocitrate dehydrogen 31.0 55 0.0012 24.1 2.6 26 8-35 188-213 (413)
76 smart00518 AP2Ec AP endonuclea 30.5 60 0.0013 21.7 2.7 25 9-35 81-105 (273)
77 COG0133 TrpB Tryptophan syntha 30.2 79 0.0017 22.8 3.2 26 9-35 350-375 (396)
78 KOG2584 Dihydroorotase and rel 30.1 62 0.0013 24.3 2.7 25 12-38 233-257 (522)
79 PLN03159 cation/H(+) antiporte 30.1 85 0.0019 25.3 3.7 31 6-38 639-669 (832)
80 PLN00103 isocitrate dehydrogen 29.9 58 0.0013 24.0 2.6 26 8-35 189-214 (410)
81 TIGR00183 prok_nadp_idh isocit 29.9 70 0.0015 23.6 3.0 29 8-37 204-232 (416)
82 PRK09060 dihydroorotase; Valid 29.1 68 0.0015 23.5 2.9 25 11-37 213-237 (444)
83 PRK07362 isocitrate dehydrogen 29.0 69 0.0015 24.0 2.9 31 8-38 211-242 (474)
84 TIGR00587 nfo apurinic endonuc 29.0 64 0.0014 21.9 2.6 25 9-35 85-109 (274)
85 PRK01060 endonuclease IV; Prov 28.5 68 0.0015 21.5 2.7 25 9-35 86-110 (281)
86 PRK06451 isocitrate dehydrogen 28.4 80 0.0017 23.3 3.1 29 8-37 196-224 (412)
87 PF12410 rpo30_N: Poxvirus DNA 28.4 38 0.00082 20.6 1.2 21 4-24 11-31 (136)
88 TIGR02530 flg_new flagellar op 28.1 1.2E+02 0.0025 17.6 3.2 30 4-33 30-59 (96)
89 PRK02382 dihydroorotase; Provi 28.0 68 0.0015 23.4 2.8 24 11-36 213-236 (443)
90 KOG1271 Methyltransferases [Ge 27.8 81 0.0017 20.9 2.7 27 1-30 94-120 (227)
91 PRK10886 DnaA initiator-associ 27.7 1.1E+02 0.0024 19.9 3.4 34 1-37 113-146 (196)
92 smart00493 TOPRIM topoisomeras 27.7 64 0.0014 16.8 2.0 23 1-23 51-73 (76)
93 PF04914 DltD_C: DltD C-termin 27.5 1.5E+02 0.0033 18.0 4.7 56 13-94 37-92 (130)
94 PRK09059 dihydroorotase; Valid 27.4 66 0.0014 23.5 2.6 25 11-37 217-241 (429)
95 PRK04204 RNA 3'-terminal-phosp 26.9 1.6E+02 0.0034 21.2 4.3 37 1-39 2-40 (343)
96 PHA00673 acetyltransferase dom 26.9 1.5E+02 0.0032 18.7 3.8 29 8-38 101-129 (154)
97 PLN02942 dihydropyrimidinase 26.4 76 0.0016 23.6 2.8 25 11-37 221-245 (486)
98 PLN00096 isocitrate dehydrogen 26.4 87 0.0019 23.0 3.0 28 8-37 176-203 (393)
99 KOG0785 Isocitrate dehydrogena 26.3 92 0.002 22.3 3.0 29 8-37 178-206 (365)
100 PF14097 SpoVAE: Stage V sporu 26.2 52 0.0011 21.2 1.6 20 2-21 4-23 (180)
101 COG0290 InfC Translation initi 26.0 66 0.0014 20.8 2.1 34 1-38 23-56 (176)
102 PF09967 DUF2201: VWA-like dom 25.6 1.5E+02 0.0033 17.7 3.6 33 1-35 2-39 (126)
103 PF08350 DUF1724: Domain of un 25.5 61 0.0013 17.1 1.6 15 9-23 42-56 (64)
104 PF06415 iPGM_N: BPG-independe 25.4 69 0.0015 21.5 2.2 32 5-38 7-38 (223)
105 cd05008 SIS_GlmS_GlmD_1 SIS (S 25.2 1.3E+02 0.0028 17.3 3.2 33 1-36 50-82 (126)
106 TIGR02765 crypto_DASH cryptoch 25.2 2.7E+02 0.0059 20.2 5.5 23 11-39 16-38 (429)
107 TIGR00646 MG010 DNA primase-re 25.0 1.2E+02 0.0026 20.3 3.3 31 1-33 158-188 (218)
108 cd02991 UAS_ETEA UAS family, E 24.9 1.2E+02 0.0026 17.8 3.0 23 14-39 6-28 (116)
109 cd02958 UAS UAS family; UAS is 24.5 1.2E+02 0.0026 17.3 2.9 22 14-38 6-27 (114)
110 PF01193 RNA_pol_L: RNA polyme 24.3 96 0.0021 16.1 2.3 21 3-23 43-63 (66)
111 COG0538 Icd Isocitrate dehydro 24.3 87 0.0019 23.0 2.6 25 8-37 198-222 (407)
112 PRK00028 infC translation init 23.7 74 0.0016 20.5 2.0 32 1-34 24-55 (177)
113 TIGR03010 sulf_tusC_dsrF sulfu 23.6 1.6E+02 0.0035 17.1 3.4 28 6-36 12-39 (116)
114 PRK09732 hypothetical protein; 23.5 1.9E+02 0.0041 17.7 4.2 27 74-100 10-36 (134)
115 COG1737 RpiR Transcriptional r 23.3 1.2E+02 0.0025 20.8 3.1 33 1-36 181-213 (281)
116 TIGR03127 RuMP_HxlB 6-phospho 23.2 1.4E+02 0.003 18.6 3.2 33 1-36 76-108 (179)
117 PF13989 YejG: YejG-like prote 23.0 1.7E+02 0.0038 17.2 3.9 30 74-103 49-78 (106)
118 TIGR02810 agaZ_gatZ D-tagatose 22.9 3.3E+02 0.0071 20.3 6.9 33 8-42 20-52 (420)
119 COG1746 CCA1 tRNA nucleotidylt 22.8 3.3E+02 0.0073 20.4 5.7 31 69-99 21-51 (443)
120 PF13662 Toprim_4: Toprim doma 22.7 82 0.0018 16.9 1.9 22 2-23 51-72 (81)
121 COG1490 Dtd D-Tyr-tRNAtyr deac 22.7 1.5E+02 0.0032 18.5 3.1 22 75-96 101-122 (145)
122 PRK15458 tagatose 6-phosphate 22.5 3.4E+02 0.0073 20.3 6.7 33 8-42 24-56 (426)
123 COG3193 GlcG Uncharacterized p 22.4 2.1E+02 0.0045 17.9 4.3 25 75-99 12-36 (141)
124 PRK10696 tRNA 2-thiocytidine b 22.4 1.6E+02 0.0034 19.8 3.5 36 1-36 33-68 (258)
125 PRK15052 D-tagatose-1,6-bispho 22.2 3.4E+02 0.0074 20.2 6.9 33 8-42 21-53 (421)
126 PF08013 Tagatose_6_P_K: Tagat 22.1 3.2E+02 0.007 20.4 5.1 32 9-42 25-56 (424)
127 COG0648 Nfo Endonuclease IV [D 22.1 1E+02 0.0023 21.4 2.6 25 8-34 83-107 (280)
128 PF03358 FMN_red: NADPH-depend 21.7 1.4E+02 0.003 17.9 2.9 35 2-38 4-42 (152)
129 PRK11302 DNA-binding transcrip 21.7 1.3E+02 0.0027 20.3 3.0 32 1-35 179-210 (284)
130 PF04748 Polysacc_deac_2: Dive 21.6 1.3E+02 0.0027 19.9 2.9 26 10-37 160-185 (213)
131 PRK00211 sulfur relay protein 21.3 1.8E+02 0.0038 17.3 3.2 28 6-36 14-41 (119)
132 cd01317 DHOase_IIa Dihydroorot 21.3 1.1E+02 0.0024 21.7 2.7 24 12-37 172-195 (374)
133 KOG2904 Predicted methyltransf 21.2 1.2E+02 0.0026 21.5 2.7 31 2-35 176-206 (328)
134 TIGR03399 RNA_3prim_cycl RNA 3 21.0 2.2E+02 0.0048 20.2 4.1 35 3-39 2-38 (326)
135 cd03027 GRX_DEP Glutaredoxin ( 21.0 1.4E+02 0.0031 15.4 2.8 18 84-101 18-35 (73)
136 TIGR00168 infC translation ini 20.9 98 0.0021 19.7 2.2 32 1-34 12-43 (165)
137 PF10672 Methyltrans_SAM: S-ad 20.8 77 0.0017 22.1 1.8 21 2-25 150-170 (286)
138 PF00120 Gln-synt_C: Glutamine 20.7 2.3E+02 0.005 19.1 4.1 30 76-105 67-96 (259)
139 PF12120 Arr-ms: Rifampin ADP- 20.7 1.5E+02 0.0033 17.2 2.7 23 10-33 38-60 (100)
140 PRK06189 allantoinase; Provisi 20.5 1.2E+02 0.0025 22.3 2.8 25 11-37 218-242 (451)
141 PF02110 HK: Hydroxyethylthiaz 20.4 1.3E+02 0.0028 20.5 2.7 29 3-34 130-158 (246)
142 PHA02998 RNA polymerase subuni 20.3 67 0.0015 20.9 1.3 21 4-24 18-38 (195)
143 cd01316 CAD_DHOase The eukaryo 20.3 1.1E+02 0.0024 21.7 2.6 23 13-37 136-158 (344)
144 PRK09997 hydroxypyruvate isome 20.3 2.7E+02 0.0059 18.4 7.1 21 11-33 84-104 (258)
145 PF01380 SIS: SIS domain SIS d 20.1 1.8E+02 0.0038 16.7 3.1 33 1-36 57-89 (131)
No 1
>cd01989 STK_N The N-terminal domain of Eukaryotic Serine Threonine kinases. The Serine Threonine kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. The N-terminal domain is homologous to the USP family which has a ATP binding fold. The N-terminal domain is predicted to be involved in ATP binding.
Probab=99.66 E-value=9e-16 Score=94.45 Aligned_cols=92 Identities=26% Similarity=0.303 Sum_probs=68.0
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCcccccccccchhhccCccchhHHHHHHHHHHHHHHHHHH
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQPPTKSEFVFTAPFGYARLYSSALTTQGFVNCAEEKQRKLTLAFL 80 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 80 (107)
|||+|||+.|.+||+||+++|++.+ ++|+++||+++...... ... .........+..++..++.+
T Consensus 3 LVavD~S~~s~~al~~a~~~a~~~~--~~l~ll~v~~~~~~~~~----~~~---------~~~~~~~~~~~~~~~~~~~l 67 (146)
T cd01989 3 AVAVDKDKKSKNALKWALDNLATKG--QTIVLVHVHPPITSIPS----SSG---------KLEVASAYKQEEDKEAKELL 67 (146)
T ss_pred EEEecCccccHHHHHHHHHhccCCC--CcEEEEEeccCcccCCC----Ccc---------chHHHHHHHHHHHHHHHHHH
Confidence 6999999999999999999999865 99999999876432210 000 00112233445566778899
Q ss_pred HHHHHHHHhcCCcEEEEEeec-CCCCCC
Q 033982 81 QKVKDILSSQGVKAEMIVEVW-DPTMAI 107 (107)
Q Consensus 81 ~~~~~~~~~~~v~~~~~v~~G-dp~~~I 107 (107)
+++.+.+...+++++..+..| +|++.|
T Consensus 68 ~~~~~~~~~~~~~~~~~~~~g~~~~~~I 95 (146)
T cd01989 68 LPYRCFCSRKGVQCEDVVLEDDDVAKAI 95 (146)
T ss_pred HHHHHHHhhcCCeEEEEEEeCCcHHHHH
Confidence 999888888899999888876 887654
No 2
>PRK15005 universal stress protein F; Provisional
Probab=99.50 E-value=9.4e-14 Score=85.18 Aligned_cols=92 Identities=15% Similarity=0.131 Sum_probs=61.3
Q ss_pred CeeecCCcc--hHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCcccccccccchhhccCccchhHHHHHHHHHHHHHHHH
Q 033982 1 MVAIDESEQ--SHYALMWVLDNLKESISKFPLIIFMAQPPTKSEFVFTAPFGYARLYSSALTTQGFVNCAEEKQRKLTLA 78 (107)
Q Consensus 1 lVavDgS~~--S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (107)
|||+|||++ |.+|++||.++|++.+ ++|+++||+++.+.... .... . .... .. .+..++..++
T Consensus 6 Lv~~D~s~~~~~~~a~~~a~~la~~~~--~~l~ll~v~~~~~~~~~----~~~~------~-~~~~-~~-~~~~~~~~~~ 70 (144)
T PRK15005 6 LVPIDISDSELTQRVISHVEAEAKIDD--AEVHFLTVIPSLPYYAS----LGLA------Y-SAEL-PA-MDDLKAEAKS 70 (144)
T ss_pred EEecCCCchhHHHHHHHHHHHHHhccC--CeEEEEEEEccCccccc----cccc------c-cccc-hH-HHHHHHHHHH
Confidence 689999998 5799999999999866 99999999976443211 1000 0 0001 01 1223444555
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecCCCCCC
Q 033982 79 FLQKVKDILSSQGVKAEMIVEVWDPTMAI 107 (107)
Q Consensus 79 ~l~~~~~~~~~~~v~~~~~v~~Gdp~~~I 107 (107)
.++++.+.+...+++++..+..|+|.+.|
T Consensus 71 ~l~~~~~~~~~~~~~~~~~v~~G~p~~~I 99 (144)
T PRK15005 71 QLEEIIKKFKLPTDRVHVHVEEGSPKDRI 99 (144)
T ss_pred HHHHHHHHhCCCCCceEEEEeCCCHHHHH
Confidence 66666655555678889999999998754
No 3
>PRK09982 universal stress protein UspD; Provisional
Probab=99.49 E-value=9e-14 Score=85.59 Aligned_cols=89 Identities=12% Similarity=0.032 Sum_probs=60.4
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCcccccccccchhhccCccchhHHHHHHHHHHHHHHHHHH
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQPPTKSEFVFTAPFGYARLYSSALTTQGFVNCAEEKQRKLTLAFL 80 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 80 (107)
|||+|||+.|.+|+++|+++|++.+ ++|+++||+++.+.... ... ... .+...+..++..++.+
T Consensus 7 LvavD~S~~s~~al~~A~~lA~~~~--a~l~llhV~~~~~~~~~----~~~-------~~~---~~~~~~~~~~~~~~~l 70 (142)
T PRK09982 7 GVAISGNEEDALLVNKALELARHND--AHLTLIHIDDGLSELYP----GIY-------FPA---TEDILQLLKNKSDNKL 70 (142)
T ss_pred EEEecCCcchHHHHHHHHHHHHHhC--CeEEEEEEccCcchhch----hhh-------ccc---hHHHHHHHHHHHHHHH
Confidence 6999999999999999999999865 99999999875432210 000 000 1122344455566667
Q ss_pred HHHHHHHHhcCCcEEEEEeecCCCCCC
Q 033982 81 QKVKDILSSQGVKAEMIVEVWDPTMAI 107 (107)
Q Consensus 81 ~~~~~~~~~~~v~~~~~v~~Gdp~~~I 107 (107)
+++.+.+. ...++..+..|+|++.|
T Consensus 71 ~~~~~~~~--~~~~~~~v~~G~p~~~I 95 (142)
T PRK09982 71 YKLTKNIQ--WPKTKLRIERGEMPETL 95 (142)
T ss_pred HHHHHhcC--CCcceEEEEecCHHHHH
Confidence 66665442 34577888899998765
No 4
>PRK15456 universal stress protein UspG; Provisional
Probab=99.44 E-value=5.2e-13 Score=81.96 Aligned_cols=90 Identities=13% Similarity=0.000 Sum_probs=62.4
Q ss_pred CeeecCCc--chHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCcccccccccchhhccCccchhHHHHHHHHHHHHHHHH
Q 033982 1 MVAIDESE--QSHYALMWVLDNLKESISKFPLIIFMAQPPTKSEFVFTAPFGYARLYSSALTTQGFVNCAEEKQRKLTLA 78 (107)
Q Consensus 1 lVavDgS~--~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 78 (107)
|||+|||+ .|.+|++||..+|+. + ++|+++||+++..... ... . .. ......+..++..++
T Consensus 6 Lv~vD~S~~~~s~~al~~A~~la~~-~--~~l~llhv~~~~~~~~-----~~~-------~-~~-~~~~~~~~~~~~~~~ 68 (142)
T PRK15456 6 IMPVDVFEMELSDKAVRHAEFLAQD-D--GVIHLLHVLPGSASLS-----LHR-------F-AA-DVRRFEEHLQHEAEE 68 (142)
T ss_pred EEeccCCchhHHHHHHHHHHHHHhc-C--CeEEEEEEecCccccc-----ccc-------c-cc-chhhHHHHHHHHHHH
Confidence 68999995 899999999999876 3 5899999997643211 100 0 00 012233445566667
Q ss_pred HHHHHHHHHHhcCCcEEEEEeecCCCCCC
Q 033982 79 FLQKVKDILSSQGVKAEMIVEVWDPTMAI 107 (107)
Q Consensus 79 ~l~~~~~~~~~~~v~~~~~v~~Gdp~~~I 107 (107)
.++++.+.+...++++++.+..|+|.++|
T Consensus 69 ~l~~~~~~~~~~~~~v~~~v~~G~~~~~I 97 (142)
T PRK15456 69 RLQTMVSHFTIDPSRIKQHVRFGSVRDEV 97 (142)
T ss_pred HHHHHHHHhCCCCcceEEEEcCCChHHHH
Confidence 77777666555678899999999998764
No 5
>PRK12652 putative monovalent cation/H+ antiporter subunit E; Reviewed
Probab=99.42 E-value=8.5e-13 Score=92.04 Aligned_cols=83 Identities=12% Similarity=0.115 Sum_probs=56.4
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCcccccccccchhhccCccchhHHHHHHHHHHHHHHHHHH
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQPPTKSEFVFTAPFGYARLYSSALTTQGFVNCAEEKQRKLTLAFL 80 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 80 (107)
|||+|||+.|++|+++|+++|+..|.+++|+++||++...... . .. ...+..++++
T Consensus 9 LVavDGSe~S~~Al~~AielA~~~g~~AeL~lL~Vv~~~~~~~---------------~-~~--------~~~~~~eell 64 (357)
T PRK12652 9 LVPVADSVTVRQTVAYAVESAEEAAETPTVHLVAAASGRAVDP---------------E-GQ--------DELAAAEELL 64 (357)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHhcCCCCEEEEEEEecCccccc---------------c-hh--------HHHHHHHHHH
Confidence 7999999999999999999998742248999999997543211 0 00 0112233444
Q ss_pred HHHHHHHHh------cCCcEEEEEee--------cCCCCCC
Q 033982 81 QKVKDILSS------QGVKAEMIVEV--------WDPTMAI 107 (107)
Q Consensus 81 ~~~~~~~~~------~~v~~~~~v~~--------Gdp~~~I 107 (107)
+++.+.+++ .|+++++.+.. |+|+++|
T Consensus 65 e~~~~~~~~~l~~~~~gV~ve~~vv~~~~~~~~~G~pae~I 105 (357)
T PRK12652 65 ERVEVWATEDLGDDASSVTIETALLGTDEYLFGPGDYAEVL 105 (357)
T ss_pred HHHHHHHHHhhhcccCCCceEEEEEeccccccCCCCHHHHH
Confidence 444444433 69999988866 8988765
No 6
>PRK15118 universal stress global response regulator UspA; Provisional
Probab=99.36 E-value=3.1e-12 Score=78.56 Aligned_cols=35 Identities=11% Similarity=0.086 Sum_probs=32.1
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
|||+|||+.|.+||+||..+|+..+ ++|+++||.+
T Consensus 7 LvavD~S~~s~~al~~a~~la~~~~--a~l~ll~v~~ 41 (144)
T PRK15118 7 LIAVDLSPESKVLVEKAVSMARPYN--AKVSLIHVDV 41 (144)
T ss_pred EEEccCChhHHHHHHHHHHHHHhhC--CEEEEEEEcc
Confidence 6899999999999999999999865 9999999953
No 7
>cd01988 Na_H_Antiporter_C The C-terminal domain of a subfamily of Na+ /H+ antiporter existed in bacteria and archea . Na+/H+ exchange proteins eject protons from cells, effectively eliminating excess acid from actively metabolising cells. Na+ /H+ exchange activity is also crucial for the regulation of cell volume, and for the reabsorption of NaCl across renal, intestinal, and other epithelia. These antiports exchange Na+ for H+ in an electroneutral manner, and this activity is carried out by a family of Na+ /H+ exchangers, or NHEs, which are known to be present in both prokaryotic and eukaryotic cells. These exchangers are highly-regulated (glyco)phosphoproteins, which, based on their primary structure, appear to contain 10-12 membrane-spanning regions (M) at the N-terminus and a large cytoplasmic region at the C-terminus. The transmembrane regions M3-M12 share identity wit h other members of the family. The M6 and M7 regions are highly conserved. Thus, this is thought to be the regio
Probab=99.26 E-value=2.9e-11 Score=72.71 Aligned_cols=82 Identities=13% Similarity=0.091 Sum_probs=60.5
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCcccccccccchhhccCccchhHHHHHHHHHHHHHHHHHH
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQPPTKSEFVFTAPFGYARLYSSALTTQGFVNCAEEKQRKLTLAFL 80 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 80 (107)
|||+|+|+++.+++++|..+|+..+ ++|+++||++++.... .. . .+...+..++.+
T Consensus 3 Lv~vd~s~~~~~~l~~a~~la~~~~--~~v~ll~v~~~~~~~~-----~~-------------~----~~~~~~~~~~~~ 58 (132)
T cd01988 3 LVPVANPNTARDLLELAAALARAQN--GEIIPLNVIEVPNHSS-----PS-------------Q----LEVNVQRARKLL 58 (132)
T ss_pred EEecCCchhHHHHHHHHHHHhhcCC--CeEEEEEEEecCCCCC-----cc-------------h----hHHHHHHHHHHH
Confidence 6999999999999999999998854 9999999997643221 10 0 011234456777
Q ss_pred HHHHHHHHhcCCcEEEEEee-cCCCCC
Q 033982 81 QKVKDILSSQGVKAEMIVEV-WDPTMA 106 (107)
Q Consensus 81 ~~~~~~~~~~~v~~~~~v~~-Gdp~~~ 106 (107)
+.+.+.+.+.|++++..+.. |+|.+.
T Consensus 59 ~~~~~~~~~~g~~~~~~~~~~~~~~~~ 85 (132)
T cd01988 59 RQAERIAASLGVPVHTIIRIDHDIASG 85 (132)
T ss_pred HHHHHHhhhcCCceEEEEEecCCHHHH
Confidence 88888877889998877754 787654
No 8
>PRK10116 universal stress protein UspC; Provisional
Probab=99.25 E-value=5e-11 Score=72.89 Aligned_cols=87 Identities=13% Similarity=0.110 Sum_probs=57.3
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCcccccccccchhhccCccchhHHHHHHHHHHHHHHHHHH
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQPPTKSEFVFTAPFGYARLYSSALTTQGFVNCAEEKQRKLTLAFL 80 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 80 (107)
||++|+|+.|.+||++|+.+|++++ ++|+++|+++....+. .+. ....+..++..++..++.+
T Consensus 7 Lv~~D~s~~s~~al~~A~~lA~~~~--a~l~ll~v~~~~~~~~----~~~-----------~~~~~~~~~~~~~~~~~~l 69 (142)
T PRK10116 7 LVAVAVTPESQQLLAKAVSIARPVN--GKISLITLASDPEMYN----QFA-----------APMLEDLRSVMQEETQSFL 69 (142)
T ss_pred EEEccCCcchHHHHHHHHHHHHHhC--CEEEEEEEccCcccch----hhh-----------HHHHHHHHHHHHHHHHHHH
Confidence 6899999999999999999999866 8999999986543221 010 1112233334444444555
Q ss_pred HHHHHHHHhcCCcEE-EEEeecCCCCCC
Q 033982 81 QKVKDILSSQGVKAE-MIVEVWDPTMAI 107 (107)
Q Consensus 81 ~~~~~~~~~~~v~~~-~~v~~Gdp~~~I 107 (107)
+++ +...|++.+ ..+..|+|.+.|
T Consensus 70 ~~~---~~~~~~~~~~~~~~~G~~~~~I 94 (142)
T PRK10116 70 DKL---IQDADYPIEKTFIAYGELSEHI 94 (142)
T ss_pred HHH---HHhcCCCeEEEEEecCCHHHHH
Confidence 443 344677654 567789987654
No 9
>PRK11175 universal stress protein UspE; Provisional
Probab=99.18 E-value=1.4e-10 Score=79.07 Aligned_cols=92 Identities=16% Similarity=0.125 Sum_probs=61.7
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCcccccccccchhhccCccchhHHHHHHHHHHHHHHHHHH
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQPPTKSEFVFTAPFGYARLYSSALTTQGFVNCAEEKQRKLTLAFL 80 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 80 (107)
|||+|+|+.|..|++||+.+|++.+ ++|+++||+++...... .. . .....+...+...+..++.+
T Consensus 7 Lv~~D~s~~~~~al~~a~~lA~~~~--a~l~ll~v~~~~~~~~~---~~---------~-~~~~~~~~~~~~~~~~~~~l 71 (305)
T PRK11175 7 LVVIDPNQDDQPALRRAVYLAQRNG--GKITAFLPIYDFSYEMT---TL---------L-SPDEREAMRQGVISQRTAWI 71 (305)
T ss_pred EEEcCCCccccHHHHHHHHHHHhcC--CCEEEEEeccCchhhhh---cc---------c-chhHHHHHHHHHHHHHHHHH
Confidence 6999999999999999999999876 99999999854322110 00 0 01111222233334456667
Q ss_pred HHHHHHHHhcCCcEEEEEe-ecCCCCCC
Q 033982 81 QKVKDILSSQGVKAEMIVE-VWDPTMAI 107 (107)
Q Consensus 81 ~~~~~~~~~~~v~~~~~v~-~Gdp~~~I 107 (107)
+++.+.+...|++++..+. .|+|.+.|
T Consensus 72 ~~~~~~~~~~~~~~~~~v~~~g~~~~~i 99 (305)
T PRK11175 72 REQAKPYLDAGIPIEIKVVWHNRPFEAI 99 (305)
T ss_pred HHHHHHHhhcCCceEEEEecCCCcHHHH
Confidence 7776666677999988766 58887653
No 10
>cd01987 USP_OKCHK USP domain is located between the N-terminal sensor domain and C-terminal catalytic domain of this Osmosensitive K+ channel histidine kinase family. The family of KdpD sensor kinase proteins regulates the kdpFABC operon responsible for potassium transport. The USP domain is homologous to the universal stress protein Usp Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity.
Probab=99.17 E-value=1.2e-10 Score=69.62 Aligned_cols=36 Identities=11% Similarity=0.155 Sum_probs=33.3
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCC
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQPP 38 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~ 38 (107)
|||+|+|+.|++|++||+.+|+..+ ++|+++||.++
T Consensus 3 lv~vd~s~~s~~al~~a~~la~~~~--~~l~ll~v~~~ 38 (124)
T cd01987 3 LVCISGGPNAERLIRRAARLADRLK--APWYVVYVETP 38 (124)
T ss_pred EEEECCCcchHHHHHHHHHHHHHhC--CCEEEEEEecC
Confidence 6999999999999999999999865 99999999864
No 11
>cd00293 USP_Like Usp: Universal stress protein family. The universal stress protein Usp is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. Usp enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae Usp reveals an alpha/beta fold similar to that of the Methanococcus jannaschii MJ0577 protein, which binds ATP, athough Usp lacks ATP-binding activity.
Probab=99.08 E-value=1.4e-09 Score=64.47 Aligned_cols=81 Identities=28% Similarity=0.349 Sum_probs=60.0
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCcccccccccchhhccCccchhHHHHHHHHHHHHHHHHHH
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQPPTKSEFVFTAPFGYARLYSSALTTQGFVNCAEEKQRKLTLAFL 80 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l 80 (107)
||++|+|+.+..+++||..+|+..+ ++|+++||.++..... . ...+...+..++.+
T Consensus 3 lv~i~~~~~~~~~l~~a~~~a~~~~--~~i~~l~v~~~~~~~~---------------~-------~~~~~~~~~~~~~l 58 (130)
T cd00293 3 LVAVDGSEESERALRWAARLARRLG--AELVLLHVVDPPPSSA---------------A-------ELAELLEEEARALL 58 (130)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHhcC--CEEEEEEEecCCCCcc---------------h-------hHHHHHHHHHHHHH
Confidence 6899999999999999999999965 9999999986543221 0 11122233456677
Q ss_pred HHHHHHHHhcCCcEEEEEeecCCCC
Q 033982 81 QKVKDILSSQGVKAEMIVEVWDPTM 105 (107)
Q Consensus 81 ~~~~~~~~~~~v~~~~~v~~Gdp~~ 105 (107)
+.+...+...+++++..+..|++..
T Consensus 59 ~~~~~~~~~~~~~~~~~~~~~~~~~ 83 (130)
T cd00293 59 EALREALAEAGVKVETVVLEGDPAE 83 (130)
T ss_pred HHHHHHHhcCCCceEEEEecCCCHH
Confidence 7777766667899988888888754
No 12
>PF00582 Usp: Universal stress protein family; InterPro: IPR006016 The universal stress protein UspA P28242 from SWISSPROT [] is a small cytoplasmic bacterial protein whose expression is enhanced when the cell is exposed to stress agents. UspA enhances the rate of cell survival during prolonged exposure to such conditions, and may provide a general "stress endurance" activity. The crystal structure of Haemophilus influenzae UspA [] reveals an alpha/beta fold similar to that of the Methanocaldococcus jannaschii (Methanococcus jannaschii) MJ0577 protein, which binds ATP [], though UspA lacks ATP-binding activity.; GO: 0006950 response to stress; PDB: 3DLO_C 3QTB_A 2PFS_A 3TNJ_A 1JMV_D 3FH0_B 3FDX_B 3AB7_A 3AB8_A 2GM3_F ....
Probab=99.02 E-value=1e-09 Score=65.71 Aligned_cols=39 Identities=36% Similarity=0.456 Sum_probs=35.4
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCCCCC
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQPPTKS 41 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~ 41 (107)
|||+|+|+.+..|++||+.+|+..+ ++|+++||.+....
T Consensus 6 lv~~d~~~~~~~al~~a~~la~~~~--~~i~~l~v~~~~~~ 44 (140)
T PF00582_consen 6 LVAIDGSEESRRALRFALELAKRSG--AEITLLHVIPPPPQ 44 (140)
T ss_dssp EEEESSSHHHHHHHHHHHHHHHHHT--CEEEEEEEEESCHC
T ss_pred EEEECCCHHHHHHHHHHHHHHHhhC--CeEEEEEeeccccc
Confidence 6999999999999999999999976 99999999976543
No 13
>PRK11175 universal stress protein UspE; Provisional
Probab=98.51 E-value=3.2e-07 Score=62.56 Aligned_cols=38 Identities=16% Similarity=0.140 Sum_probs=32.1
Q ss_pred CeeecCCcch-------HHHHHHHHHhhhcc-cCCCcEEEEEeeCCCC
Q 033982 1 MVAIDESEQS-------HYALMWVLDNLKES-ISKFPLIIFMAQPPTK 40 (107)
Q Consensus 1 lVavDgS~~S-------~~Al~~A~~~a~~~-g~~~~l~llhV~~~~~ 40 (107)
|+|+|+|+.+ .+|+++|.++|+.. + ++|+++||++..+
T Consensus 156 lva~D~s~~~~~~~~~~~~al~~a~~la~~~~~--a~l~ll~v~~~~~ 201 (305)
T PRK11175 156 LVAVNVASEEPYHDALNEKLVEEAIDLAEQLNH--AEVHLVNAYPVTP 201 (305)
T ss_pred EEEeCCCCCccchhHHHHHHHHHHHHHHhhCcC--CceEEEEEecCcc
Confidence 6899999764 68999999999886 5 8999999986543
No 14
>COG0589 UspA Universal stress protein UspA and related nucleotide-binding proteins [Signal transduction mechanisms]
Probab=98.37 E-value=5.6e-06 Score=50.43 Aligned_cols=91 Identities=23% Similarity=0.230 Sum_probs=63.6
Q ss_pred Ceeec-CCcchHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCcccccccccchhhccCccchhHHHHHHHHHHHHHHHHH
Q 033982 1 MVAID-ESEQSHYALMWVLDNLKESISKFPLIIFMAQPPTKSEFVFTAPFGYARLYSSALTTQGFVNCAEEKQRKLTLAF 79 (107)
Q Consensus 1 lVavD-gS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 79 (107)
|+++| +|+.+..|++++..++...+ ..+.+++|.+........ .... .... ............++.
T Consensus 9 l~~~d~~s~~~~~a~~~a~~~~~~~~--~~~~~~~v~~~~~~~~~~---~~~~------~~~~--~~~~~~~~~~~~~~~ 75 (154)
T COG0589 9 LVAVDVGSEAAEKALEEAVALAKRLG--APLILLVVIDPLEPTALV---SVAL------ADAP--IPLSEEELEEEAEEL 75 (154)
T ss_pred EEEeCCCCHHHHHHHHHHHHHHHhcC--CeEEEEEEeccccccccc---cccc------ccch--hhhhHHHHHHHHHHH
Confidence 57999 99999999999999999866 899999998665433210 0000 0000 111223345566788
Q ss_pred HHHHHHHHHhcCCc-EEEEEeecCCC
Q 033982 80 LQKVKDILSSQGVK-AEMIVEVWDPT 104 (107)
Q Consensus 80 l~~~~~~~~~~~v~-~~~~v~~Gdp~ 104 (107)
++.+++.+...++. ++..+..|+|.
T Consensus 76 ~~~~~~~~~~~~~~~~~~~~~~g~~~ 101 (154)
T COG0589 76 LAEAKALAEAAGVPVVETEVVEGSPS 101 (154)
T ss_pred HHHHHHHHHHcCCCeeEEEEecCCCc
Confidence 88888888888988 58899999993
No 15
>PRK10490 sensor protein KdpD; Provisional
Probab=97.62 E-value=0.00021 Score=55.72 Aligned_cols=36 Identities=8% Similarity=-0.051 Sum_probs=33.6
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCC
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQPP 38 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~ 38 (107)
||||++|++|.+.+++|..+|.+.+ ++++++||..+
T Consensus 254 LV~v~~~~~~~~lIr~~~rlA~~~~--a~~~~l~V~~~ 289 (895)
T PRK10490 254 LLCIGHNTGSEKLVRTAARLAARLG--SVWHAVYVETP 289 (895)
T ss_pred EEEECCCcchHHHHHHHHHHHHhcC--CCEEEEEEecC
Confidence 6999999999999999999999976 99999999854
No 16
>COG2205 KdpD Osmosensitive K+ channel histidine kinase [Signal transduction mechanisms]
Probab=96.60 E-value=0.019 Score=44.45 Aligned_cols=37 Identities=14% Similarity=0.046 Sum_probs=33.9
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCCC
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQPPT 39 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~ 39 (107)
||+|++|+.|.+.+++|..+|.+.+ ++++++||-.+.
T Consensus 252 lvcI~~~~~~e~liR~a~RlA~~~~--a~~~av~v~~~~ 288 (890)
T COG2205 252 LVCISGSPGSEKLIRRAARLASRLH--AKWTAVYVETPE 288 (890)
T ss_pred EEEECCCCchHHHHHHHHHHHHHhC--CCeEEEEEeccc
Confidence 6999999999999999999999976 999999997554
No 17
>cd01984 AANH_like Adenine nucleotide alpha hydrolases superfamily including N type ATP PPases, ATP sulphurylases Universal Stress Response protein and electron transfer flavoprotein (ETF). The domain forms a apha/beta/apha fold which binds to Adenosine nucleotide.
Probab=94.88 E-value=0.055 Score=29.99 Aligned_cols=33 Identities=12% Similarity=0.023 Sum_probs=27.8
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEee
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
||+++|+..|..++.|+.+.+ +.+ .+++.+|+-
T Consensus 2 lv~~sgg~dS~~~l~~~~~~~-~~~--~~~~~~~~~ 34 (86)
T cd01984 2 LVALSGGLDSSVLLHLAKRLK-SGG--PEVVALVVV 34 (86)
T ss_pred EEEeeCCHHHHHHHHHHHHHH-hcC--CCEEEEEeH
Confidence 689999999999999999987 333 688888875
No 18
>TIGR02432 lysidine_TilS_N tRNA(Ile)-lysidine synthetase, N-terminal domain. The only examples in which the wobble position of a tRNA must discriminate between G and A of mRNA are AUA (Ile) vs. AUG (Met) and UGA (stop) vs. UGG (Trp). In all bacteria, the wobble position of the tRNA(Ile) recognizing AUA is lysidine, a lysine derivative of cytidine. This family describes a protein domain found, apparently, in all bacteria in a single copy. Eukaryotic sequences appear to be organellar. The domain archictecture of this protein family is variable; some, including characterized proteins of E. coli and B. subtilis known to be tRNA(Ile)-lysidine synthetase, include a conserved 50-residue domain that many other members lack. This protein belongs to the ATP-binding PP-loop family ( pfam01171). It appears in the literature and protein databases as TilS, YacA, and putative cell cycle protein MesJ (a misnomer).
Probab=89.13 E-value=3.9 Score=25.94 Aligned_cols=34 Identities=21% Similarity=0.130 Sum_probs=28.6
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEee
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
+|++.|...|...+..+.+.+...| .++.++|+-
T Consensus 3 ~va~SGG~DS~~ll~ll~~~~~~~~--~~v~~v~vd 36 (189)
T TIGR02432 3 LVAVSGGVDSMALLHLLLKLQPKLK--IRLIAAHVD 36 (189)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHHcC--CCEEEEEeC
Confidence 5899999999999999988777655 678999874
No 19
>TIGR00591 phr2 photolyase PhrII. All proteins in this family for which functions are known are DNA-photolyases used for the direct repair of UV irradiation induced DNA damage. Some repair 6-4 photoproducts while others repair cyclobutane pyrimidine dimers. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=78.65 E-value=17 Score=26.57 Aligned_cols=28 Identities=14% Similarity=0.145 Sum_probs=20.4
Q ss_pred hHHHHHHHHHhhhcccCCCcEEEEEeeCCC
Q 033982 10 SHYALMWVLDNLKESISKFPLIIFMAQPPT 39 (107)
Q Consensus 10 S~~Al~~A~~~a~~~g~~~~l~llhV~~~~ 39 (107)
-..||..|++.|.+.+ .+|+.++|.++.
T Consensus 37 DN~aL~~A~~~a~~~~--~~vl~vyi~dp~ 64 (454)
T TIGR00591 37 DNWALIAAQTLALKKK--LPLHVCFCLVDF 64 (454)
T ss_pred CCHHHHHHHHHHHHcC--CCEEEEEEeCCC
Confidence 3568888887765544 689999998664
No 20
>cd01992 PP-ATPase N-terminal domain of predicted ATPase of the PP-loop faimly implicated in cell cycle control [Cell division and chromosome partitioning]. This is a subfamily of Adenine nucleotide alpha hydrolases superfamily.Adeninosine nucleotide alpha hydrolases superfamily includes N type ATP PPases and ATP sulphurylases. It forms a apha/beta/apha fold which binds to Adenosine group. This domain has a strongly conserved motif SGGXD at the N terminus.
Probab=67.97 E-value=27 Score=21.83 Aligned_cols=34 Identities=15% Similarity=0.094 Sum_probs=27.8
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEee
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
+|++.|...|.-++.++.+.....+ .++.++|+-
T Consensus 3 ~v~~SGG~DS~vl~~l~~~~~~~~~--~~v~~v~id 36 (185)
T cd01992 3 LVAVSGGPDSMALLHLLSELKPRLG--LRLVAVHVD 36 (185)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHHcC--CcEEEEEec
Confidence 5788999999999999988766543 789999984
No 21
>PHA02135 hypothetical protein
Probab=66.75 E-value=23 Score=20.67 Aligned_cols=35 Identities=11% Similarity=-0.054 Sum_probs=26.6
Q ss_pred HHHHHHHHHHHHHHHHhcCCcEEEEEeecCCCCCC
Q 033982 73 RKLTLAFLQKVKDILSSQGVKAEMIVEVWDPTMAI 107 (107)
Q Consensus 73 ~~~~~~~l~~~~~~~~~~~v~~~~~v~~Gdp~~~I 107 (107)
+....+.-...++.|++..=++-++-+.|+|...|
T Consensus 71 ~ry~~e~~~d~r~wc~~npg~il~iev~g~~~s~~ 105 (122)
T PHA02135 71 QRYNKENNKDWRKWCRENPGKILVIEVVGDAKSEK 105 (122)
T ss_pred HHhhhhhhhHHHHHHhcCCCcEEEEEEecCcccCC
Confidence 44566777888999998766677777889997764
No 22
>PF01261 AP_endonuc_2: Xylose isomerase-like TIM barrel; InterPro: IPR012307 This TIM alpha/beta barrel structure is found in xylose isomerase (P19148 from SWISSPROT) and in endonuclease IV (P12638 from SWISSPROT, 3.1.21.2 from EC). This domain is also found in the N termini of bacterial myo-inositol catabolism proteins. These are involved in the myo-inositol catabolism pathway, and is required for growth on myo-inositol in Rhizobium leguminosarum bv. viciae []. ; PDB: 3KWS_B 3DX5_A 3CQH_B 3CQI_A 3CQK_A 3CQJ_B 2G0W_B 1DXI_A 2ZDS_D 3TVA_B ....
Probab=58.89 E-value=42 Score=20.98 Aligned_cols=25 Identities=16% Similarity=-0.039 Sum_probs=20.6
Q ss_pred hHHHHHHHHHhhhcccCCCcEEEEEee
Q 033982 10 SHYALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 10 S~~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
+..-++.+++.|+..| ++.+.+|.-
T Consensus 69 ~~~~~~~~i~~a~~lg--~~~i~~~~g 93 (213)
T PF01261_consen 69 ALEYLKKAIDLAKRLG--AKYIVVHSG 93 (213)
T ss_dssp HHHHHHHHHHHHHHHT--BSEEEEECT
T ss_pred HHHHHHHHHHHHHHhC--CCceeecCc
Confidence 4678889999999987 899888843
No 23
>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=58.01 E-value=13 Score=26.56 Aligned_cols=28 Identities=0% Similarity=-0.170 Sum_probs=21.8
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
..+++.+++|++.|++++ .+|+++|=.+
T Consensus 163 ~~~eRI~r~AF~~A~~r~--~~Vt~v~KaN 190 (349)
T TIGR00169 163 PEIERIARVAFEMARKRR--KKVTSVDKAN 190 (349)
T ss_pred HHHHHHHHHHHHHHHHcC--CcEEEEECCc
Confidence 467888999999998875 5888888543
No 24
>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=55.37 E-value=15 Score=25.91 Aligned_cols=26 Identities=15% Similarity=0.027 Sum_probs=20.2
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEe
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMA 35 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV 35 (107)
+.+++.+++|.++|++++ .+|+++|=
T Consensus 141 ~~~eRi~r~AF~~A~~r~--~~Vt~v~K 166 (322)
T TIGR02088 141 EGSERIARFAFNLAKERN--RKVTCVHK 166 (322)
T ss_pred HHHHHHHHHHHHHHHHcC--CcEEEEeC
Confidence 567888999999998865 56777774
No 25
>PRK09856 fructoselysine 3-epimerase; Provisional
Probab=54.25 E-value=63 Score=21.58 Aligned_cols=23 Identities=17% Similarity=0.034 Sum_probs=17.9
Q ss_pred hHHHHHHHHHhhhcccCCCcEEEEE
Q 033982 10 SHYALMWVLDNLKESISKFPLIIFM 34 (107)
Q Consensus 10 S~~Al~~A~~~a~~~g~~~~l~llh 34 (107)
+...++.+++.|+..| ++.+++|
T Consensus 88 ~~~~~~~~i~~a~~lG--a~~i~~~ 110 (275)
T PRK09856 88 SLDMIKLAMDMAKEMN--AGYTLIS 110 (275)
T ss_pred HHHHHHHHHHHHHHhC--CCEEEEc
Confidence 4457778889999988 8877765
No 26
>PRK08194 tartrate dehydrogenase; Provisional
Probab=54.16 E-value=17 Score=26.11 Aligned_cols=28 Identities=4% Similarity=-0.025 Sum_probs=21.7
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
+.+++.+++|+++|++++ .+++++|=.+
T Consensus 161 ~~~eRI~r~Af~~A~~r~--~~Vt~v~KaN 188 (352)
T PRK08194 161 KGTERAMRYAFELAAKRR--KHVTSATKSN 188 (352)
T ss_pred HHHHHHHHHHHHHHHHcC--CcEEEEeCcc
Confidence 367888999999998864 5798888543
No 27
>PRK00772 3-isopropylmalate dehydrogenase; Provisional
Probab=51.89 E-value=19 Score=25.88 Aligned_cols=29 Identities=3% Similarity=-0.146 Sum_probs=22.3
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeCC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQPP 38 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~ 38 (107)
+.+++.+++|++.|++++ .+|+++|=.+-
T Consensus 166 ~~~~Ri~r~Af~~A~~r~--~~Vt~v~KaNv 194 (358)
T PRK00772 166 EEIERIARVAFELARKRR--KKVTSVDKANV 194 (358)
T ss_pred HHHHHHHHHHHHHHHHcC--CcEEEEECccc
Confidence 467888999999998865 58888885443
No 28
>COG2086 FixA Electron transfer flavoprotein, beta subunit [Energy production and conversion]
Probab=50.66 E-value=26 Score=24.03 Aligned_cols=33 Identities=12% Similarity=-0.029 Sum_probs=26.2
Q ss_pred cCCcchHHHHHHHHHhhh-cccCCCcEEEEEeeCCC
Q 033982 5 DESEQSHYALMWVLDNLK-ESISKFPLIIFMAQPPT 39 (107)
Q Consensus 5 DgS~~S~~Al~~A~~~a~-~~g~~~~l~llhV~~~~ 39 (107)
.-++..+.|++.|+.+.. ..| .+++++++=|+.
T Consensus 34 ~in~~D~~AvEeAlrLke~~~~--~eV~vlt~Gp~~ 67 (260)
T COG2086 34 SINPFDLNAVEEALRLKEKGYG--GEVTVLTMGPPQ 67 (260)
T ss_pred ccChhhHHHHHHHHHhhccCCC--ceEEEEEecchh
Confidence 345788999999999987 454 899999996543
No 29
>PRK08997 isocitrate dehydrogenase; Provisional
Probab=50.47 E-value=21 Score=25.38 Aligned_cols=29 Identities=0% Similarity=-0.026 Sum_probs=21.6
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
+.+++..++|+++|++++ ..+|+++|=.+
T Consensus 147 ~~~eRi~r~Af~~A~~r~-~~~Vt~v~KaN 175 (334)
T PRK08997 147 KGAERIVRFAYELARKEG-RKKVTAVHKAN 175 (334)
T ss_pred HHHHHHHHHHHHHHHhcC-CCeEEEEeCCC
Confidence 467888999999998864 24688888543
No 30
>COG0473 LeuB Isocitrate/isopropylmalate dehydrogenase [Amino acid transport and metabolism]
Probab=50.12 E-value=22 Score=25.50 Aligned_cols=30 Identities=3% Similarity=-0.060 Sum_probs=24.2
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeCC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQPP 38 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~ 38 (107)
..+++.+++|.++|++++ ..+|+.+|=.+-
T Consensus 156 ~~~eRI~r~AFe~A~~R~-~kkvTsv~KaNV 185 (348)
T COG0473 156 KGSERIARFAFELARKRG-RKKVTSVHKANV 185 (348)
T ss_pred HHHHHHHHHHHHHHHhhC-CCceEEEehhhh
Confidence 467889999999999984 479999996543
No 31
>PF03102 NeuB: NeuB family; InterPro: IPR013132 NeuB is the prokaryotic N-acetylneuraminic acid synthase (Neu5Ac). It catalyses the direct formation of Neu5Ac (the most common sialic acid) by condensation of phosphoenolpyruvate (PEP) and N-acetylmannosamine (ManNAc). This reaction has only been observed in prokaryotes; eukaryotes synthesise the 9-phosphate form, Neu5Ac-9-P, and utilise ManNAc-6-P instead of ManNAc. Such eukaryotic enzymes are not present in this family []. This family also contains SpsE spore coat polysaccharide biosynthesis proteins.; GO: 0016051 carbohydrate biosynthetic process; PDB: 3G8R_B 1XUU_A 1XUZ_A 3CM4_A 2ZDR_A 1VLI_A 2WQP_A.
Probab=48.88 E-value=25 Score=23.74 Aligned_cols=27 Identities=11% Similarity=0.132 Sum_probs=16.5
Q ss_pred HHHHHHHHHhhhcccCCCcEEEEEeeCC
Q 033982 11 HYALMWVLDNLKESISKFPLIIFMAQPP 38 (107)
Q Consensus 11 ~~Al~~A~~~a~~~g~~~~l~llhV~~~ 38 (107)
..=++.|++..++.| +.+|+|+|++..
T Consensus 125 l~EI~~Av~~~~~~~-~~~l~llHC~s~ 151 (241)
T PF03102_consen 125 LEEIERAVEVLREAG-NEDLVLLHCVSS 151 (241)
T ss_dssp HHHHHHHHHHHHHHC-T--EEEEEE-SS
T ss_pred HHHHHHHHHHHHhcC-CCCEEEEecCCC
Confidence 344667777775544 589999999854
No 32
>PRK08417 dihydroorotase; Provisional
Probab=48.68 E-value=19 Score=25.73 Aligned_cols=24 Identities=4% Similarity=-0.248 Sum_probs=20.5
Q ss_pred HHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 12 YALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 12 ~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
.++..++.+|+..| ++|+++|+-.
T Consensus 182 ~~v~~~~~la~~~~--~~lhi~hvS~ 205 (386)
T PRK08417 182 KEVAKMKELAKFYK--NKVLFDTLAL 205 (386)
T ss_pred HHHHHHHHHHHHhC--CCEEEEeCCC
Confidence 47899999999966 9999999953
No 33
>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=47.01 E-value=25 Score=25.22 Aligned_cols=28 Identities=4% Similarity=-0.050 Sum_probs=21.8
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
+.+++.+++|++.|+++. .+|+++|=.+
T Consensus 164 ~~~eRi~r~Af~~A~~rr--~kVt~v~KaN 191 (352)
T TIGR02089 164 KGVERIMRFAFELAQKRR--KHLTSATKSN 191 (352)
T ss_pred HHHHHHHHHHHHHHHHcC--CCEEEEeCCc
Confidence 467888999999998763 6799998543
No 34
>PRK03437 3-isopropylmalate dehydrogenase; Provisional
Probab=46.93 E-value=26 Score=25.02 Aligned_cols=29 Identities=3% Similarity=-0.072 Sum_probs=21.6
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
..+++.+++|+++|++++ ..+++++|=.+
T Consensus 160 ~~~~RIa~~AF~~A~~r~-~k~Vt~v~KaN 188 (344)
T PRK03437 160 FGVERVVRDAFERAQKRP-RKHLTLVHKTN 188 (344)
T ss_pred HHHHHHHHHHHHHHHhCC-CCeEEEEECCc
Confidence 457888999999998864 24688888543
No 35
>PLN02329 3-isopropylmalate dehydrogenase
Probab=46.64 E-value=25 Score=25.82 Aligned_cols=28 Identities=4% Similarity=-0.129 Sum_probs=21.7
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
..+++.+++|+++|++++ .+|+++|=.+
T Consensus 211 ~~~eRI~r~AFe~A~~r~--~kVT~v~KaN 238 (409)
T PLN02329 211 HEIDRIARVAFETARKRR--GKLCSVDKAN 238 (409)
T ss_pred HHHHHHHHHHHHHHHHcC--CeEEEEECCC
Confidence 458889999999998865 5788887543
No 36
>PF01012 ETF: Electron transfer flavoprotein domain; InterPro: IPR014730 Electron transfer flavoproteins (ETFs) serve as specific electron acceptors for primary dehydrogenases, transferring the electrons to terminal respiratory systems. They can be functionally classified into constitutive, "housekeeping" ETFs, mainly involved in the oxidation of fatty acids (Group I), and ETFs produced by some prokaryotes under specific growth conditions, receiving electrons only from the oxidation of specific substrates (Group II) []. ETFs are heterodimeric proteins composed of an alpha and beta subunit, and contain an FAD cofactor and AMP [, , , , ]. ETF consists of three domains: domains I and II are formed by the N- and C-terminal portions of the alpha subunit, respectively, while domain III is formed by the beta subunit. Domains I and III share an almost identical alpha-beta-alpha sandwich fold, while domain II forms an alpha-beta-alpha sandwich similar to that of bacterial flavodoxins. FAD is bound in a cleft between domains II and III, while domain III binds the AMP molecule. Interactions between domains I and III stabilise the protein, forming a shallow bowl where domain II resides. This entry represents the N-terminal domain of both the alpha and beta subunits from Group I and Group II ETFs.; PDB: 1EFP_B 3FET_B 3IH5_B 2A1T_S 1EFV_B 1T9G_S 2A1U_B 1O96_E 1O94_C 3CLU_C ....
Probab=46.46 E-value=32 Score=21.24 Aligned_cols=29 Identities=14% Similarity=-0.145 Sum_probs=24.1
Q ss_pred CcchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 7 SEQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 7 S~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
++.+..++..|.+++...| .+++++.+=+
T Consensus 14 ~~~~~e~l~~A~~La~~~g--~~v~av~~G~ 42 (164)
T PF01012_consen 14 NPVSLEALEAARRLAEALG--GEVTAVVLGP 42 (164)
T ss_dssp -HHHHHHHHHHHHHHHCTT--SEEEEEEEET
T ss_pred CHHHHHHHHHHHHHHhhcC--CeEEEEEEec
Confidence 4789999999999999866 7899988763
No 37
>COG2179 Predicted hydrolase of the HAD superfamily [General function prediction only]
Probab=46.09 E-value=38 Score=21.83 Aligned_cols=31 Identities=10% Similarity=0.249 Sum_probs=24.2
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEE
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFM 34 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llh 34 (107)
|||-|..+.+....+|..++... | ..++++.
T Consensus 39 Lv~wd~~~~tpe~~~W~~e~k~~-g--i~v~vvS 69 (175)
T COG2179 39 LVPWDNPDATPELRAWLAELKEA-G--IKVVVVS 69 (175)
T ss_pred eecccCCCCCHHHHHHHHHHHhc-C--CEEEEEe
Confidence 68999999999999999987542 3 5555554
No 38
>PLN00118 isocitrate dehydrogenase (NAD+)
Probab=44.48 E-value=30 Score=25.08 Aligned_cols=29 Identities=7% Similarity=-0.052 Sum_probs=21.6
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
+.+++.+++|.+.|++++ ..+|+++|=.+
T Consensus 184 ~~~eRIar~AF~~A~~r~-~k~Vt~v~KaN 212 (372)
T PLN00118 184 QASLRVAEYAFHYAKTHG-RKRVSAIHKAN 212 (372)
T ss_pred HHHHHHHHHHHHHHHHcC-CCeEEEEECCc
Confidence 467888999999998864 23588888443
No 39
>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=44.29 E-value=30 Score=24.59 Aligned_cols=29 Identities=3% Similarity=0.053 Sum_probs=21.2
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
+.+++.+++|+++|++++ ..+|+++|=.+
T Consensus 145 ~~~eRi~r~Af~~A~~r~-~k~Vt~v~KaN 173 (333)
T TIGR00175 145 DKSERIARYAFEYARKNG-RKKVTAVHKAN 173 (333)
T ss_pred HHHHHHHHHHHHHHHhcC-CCeEEEEECCc
Confidence 467888899999998864 23588888443
No 40
>PRK12342 hypothetical protein; Provisional
Probab=43.71 E-value=42 Score=22.92 Aligned_cols=31 Identities=6% Similarity=-0.210 Sum_probs=25.4
Q ss_pred CCcchHHHHHHHHHhhhcccCCCcEEEEEeeCCC
Q 033982 6 ESEQSHYALMWVLDNLKESISKFPLIIFMAQPPT 39 (107)
Q Consensus 6 gS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~ 39 (107)
-++...+|++.|+.+. +.| .+++++++=++.
T Consensus 33 iNp~D~~AlE~AlrLk-~~g--~~Vtvls~Gp~~ 63 (254)
T PRK12342 33 ISQFDLNAIEAASQLA-TDG--DEIAALTVGGSL 63 (254)
T ss_pred CChhhHHHHHHHHHHh-hcC--CEEEEEEeCCCh
Confidence 4678899999999997 655 899999987653
No 41
>PRK03359 putative electron transfer flavoprotein FixA; Reviewed
Probab=42.91 E-value=46 Score=22.72 Aligned_cols=33 Identities=6% Similarity=-0.084 Sum_probs=26.1
Q ss_pred CCcchHHHHHHHHHhhhcccCCCcEEEEEeeCCC
Q 033982 6 ESEQSHYALMWVLDNLKESISKFPLIIFMAQPPT 39 (107)
Q Consensus 6 gS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~ 39 (107)
-++..++|++.|+.+..+.| +.+++++++=++.
T Consensus 34 iN~~D~~AlE~Alrlke~~~-g~~Vtvvs~Gp~~ 66 (256)
T PRK03359 34 ISQYDLNAIEAACQLKQQAA-EAQVTALSVGGKA 66 (256)
T ss_pred cChhhHHHHHHHHHHhhhcC-CCEEEEEEECCcc
Confidence 46788999999999977642 3699999997654
No 42
>PRK08299 isocitrate dehydrogenase; Validated
Probab=42.79 E-value=27 Score=25.57 Aligned_cols=26 Identities=4% Similarity=-0.041 Sum_probs=20.7
Q ss_pred chHHHHHHHHHhhhcccCCCcEEEEEee
Q 033982 9 QSHYALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 9 ~S~~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
.|++..++|++.|++++ .+++++|=.
T Consensus 186 ~~eRIa~~AF~~A~~r~--~kVt~v~Ka 211 (402)
T PRK08299 186 SIRDFARASFNYGLDRK--YPVYLSTKN 211 (402)
T ss_pred HHHHHHHHHHHHHHHcC--CCEEEECCC
Confidence 78999999999998875 577777643
No 43
>PRK07627 dihydroorotase; Provisional
Probab=42.47 E-value=29 Score=25.30 Aligned_cols=25 Identities=8% Similarity=0.010 Sum_probs=21.0
Q ss_pred HHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 11 HYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 11 ~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
..|+..++.+|+..| ++++++|+..
T Consensus 212 ~~av~r~~~la~~~~--~~~hi~HvSs 236 (425)
T PRK07627 212 TIALHTIFELMRVTG--ARVHLARLSS 236 (425)
T ss_pred HHHHHHHHHHHHHHC--CcEEEEeCCC
Confidence 348999999999866 9999999953
No 44
>PF05198 IF3_N: Translation initiation factor IF-3, N-terminal domain; InterPro: IPR019814 Initiation factor 3 (IF-3) (gene infC) is one of the three factors required for the initiation of protein biosynthesis in bacteria. IF-3 is thought to function as a fidelity factor during the assembly of the ternary initiation complex which consist of the 30S ribosomal subunit, the initiator tRNA and the messenger RNA. IF-3 is a basic protein that binds to the 30S ribosomal subunit []. The chloroplast initiation factor IF-3(chl) is a protein that enhances the poly(A,U,G)-dependent binding of the initiator tRNA to chloroplast ribosomal 30s subunits in which the central section is evolutionary related to the sequence of bacterial IF-3 []. ; GO: 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1TIF_A.
Probab=42.00 E-value=7.1 Score=21.49 Aligned_cols=32 Identities=19% Similarity=0.115 Sum_probs=19.2
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEE
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFM 34 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llh 34 (107)
||.-||+....-.++.|+.+|.+.| -.|+.+.
T Consensus 17 lI~~~g~~lGv~~~~eAl~~A~~~~--lDLV~v~ 48 (76)
T PF05198_consen 17 LIDEDGEQLGVMSLREALRLAKEKG--LDLVEVS 48 (76)
T ss_dssp EE-TTS-EEEEEEHHHHHHHHHHTT---EEEEEE
T ss_pred EECCCCcEeceEEHHHHHHHHHHcC--CcEEEEc
Confidence 3455666666667788899998855 4444444
No 45
>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=41.82 E-value=34 Score=24.39 Aligned_cols=27 Identities=4% Similarity=0.030 Sum_probs=21.5
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEe
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMA 35 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV 35 (107)
+.+++.+++|.++|+++| ..+|+++|=
T Consensus 160 ~~~eRi~r~AF~~A~~r~-~k~Vt~v~K 186 (348)
T PF00180_consen 160 EGIERIARFAFEYARKRG-RKKVTVVHK 186 (348)
T ss_dssp HHHHHHHHHHHHHHHHTT-TSEEEEEES
T ss_pred chhhHHHHHHHHHHHHhC-CceEEEEec
Confidence 457888899999998874 378999884
No 46
>PLN00123 isocitrate dehydrogenase (NAD+)
Probab=41.16 E-value=38 Score=24.44 Aligned_cols=29 Identities=3% Similarity=-0.145 Sum_probs=21.6
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
+.+++..++|.++|++++ ..+|+++|=.+
T Consensus 168 ~~~eRIar~AF~~A~~r~-rkkVt~v~KaN 196 (360)
T PLN00123 168 FCSERIAKYAFEYAYLNN-RKKVTAVHKAN 196 (360)
T ss_pred HHHHHHHHHHHHHHHhcC-CCcEEEEECCc
Confidence 467888999999997753 24699988543
No 47
>cd00019 AP2Ec AP endonuclease family 2; These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites; the alignment also contains hexulose-6-phosphate isomerases, enzymes that catalyze the epimerization of D-arabino-6-hexulose 3-phosphate to D-fructose 6-phosphate, via cleaving the phosphoesterbond with the sugar.
Probab=40.84 E-value=1.1e+02 Score=20.54 Aligned_cols=24 Identities=21% Similarity=0.151 Sum_probs=17.8
Q ss_pred hHHHHHHHHHhhhcccCCCcEEEEEe
Q 033982 10 SHYALMWVLDNLKESISKFPLIIFMA 35 (107)
Q Consensus 10 S~~Al~~A~~~a~~~g~~~~l~llhV 35 (107)
+..-++++++.|+..| ++.+++|.
T Consensus 83 ~~~~~~~~i~~A~~lG--~~~v~~~~ 106 (279)
T cd00019 83 SIERLKDEIERCEELG--IRLLVFHP 106 (279)
T ss_pred HHHHHHHHHHHHHHcC--CCEEEECC
Confidence 4556888999999987 77666653
No 48
>TIGR03556 photolyase_8HDF deoxyribodipyrimidine photo-lyase, 8-HDF type. This model describes a narrow clade of cyanobacterial deoxyribodipyrimidine photo-lyase. This group, in contrast to several closely related proteins, uses a chromophore that, in other lineages is modified further to become coenzyme F420. This chromophore is called 8-HDF in most articles on the DNA photolyase and FO in most literature on coenzyme F420.
Probab=40.74 E-value=67 Score=23.84 Aligned_cols=24 Identities=8% Similarity=0.083 Sum_probs=15.8
Q ss_pred hHHHHHHHHHhhhcccCCCcEEEEEeeCCC
Q 033982 10 SHYALMWVLDNLKESISKFPLIIFMAQPPT 39 (107)
Q Consensus 10 S~~Al~~A~~~a~~~g~~~~l~llhV~~~~ 39 (107)
-..||..|+. .+ .+|..++|+++.
T Consensus 15 DN~AL~~A~~----~~--~~vl~vfi~dp~ 38 (471)
T TIGR03556 15 DNIGLAAARQ----QS--AKVVGLFCLDPN 38 (471)
T ss_pred hHHHHHHHHh----cC--CCEEEEEEEchh
Confidence 3456666653 23 579999998653
No 49
>PRK14025 multifunctional 3-isopropylmalate dehydrogenase/D-malate dehydrogenase; Provisional
Probab=40.21 E-value=39 Score=24.05 Aligned_cols=28 Identities=7% Similarity=-0.011 Sum_probs=20.4
Q ss_pred cchHHHHHHHHHhhhcc----cCCCcEEEEEee
Q 033982 8 EQSHYALMWVLDNLKES----ISKFPLIIFMAQ 36 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~----g~~~~l~llhV~ 36 (107)
..+++.+++|++.|+++ + ..+|+++|=.
T Consensus 140 ~~~~Ri~r~Af~~A~~r~~~~~-~k~Vt~v~Ka 171 (330)
T PRK14025 140 KASERIFRFAFEMAKRRKKMGK-EGKVTCAHKA 171 (330)
T ss_pred HHHHHHHHHHHHHHHhccccCC-CCeEEEEECC
Confidence 45788889999998776 2 1368888844
No 50
>PRK07575 dihydroorotase; Provisional
Probab=39.17 E-value=35 Score=24.90 Aligned_cols=23 Identities=22% Similarity=0.005 Sum_probs=20.7
Q ss_pred HHHHHHHHhhhcccCCCcEEEEEee
Q 033982 12 YALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 12 ~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
.|++..+++|+..| .+|++.|+.
T Consensus 212 ~av~~~~~la~~~g--~~lhi~HiS 234 (438)
T PRK07575 212 LATRLALKLSKKYQ--RRLHILHLS 234 (438)
T ss_pred HHHHHHHHHHHHHC--CCEEEEECC
Confidence 78899999999976 999999995
No 51
>PF14587 Glyco_hydr_30_2: O-Glycosyl hydrolase family 30; PDB: 3CLW_B.
Probab=38.96 E-value=62 Score=23.60 Aligned_cols=79 Identities=14% Similarity=0.122 Sum_probs=33.7
Q ss_pred HHHHHHHhhhcccCCCcEEEEEeeCCCCCcccccccccchhhccCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 033982 13 ALMWVLDNLKESISKFPLIIFMAQPPTKSEFVFTAPFGYARLYSSALTTQGFVNCAEEKQRKLTLAFLQKVKDILSSQGV 92 (107)
Q Consensus 13 Al~~A~~~a~~~g~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~v 92 (107)
.=+|-++.|+.+| ....+.....|+-.+..-+...+.. ... ..++....+.-...|..+.+..+..||
T Consensus 105 gQrwfL~~Ak~rG--V~~f~aFSNSPP~~MT~NG~~~g~~------~~~----~NLk~d~y~~FA~YLa~Vv~~~~~~GI 172 (384)
T PF14587_consen 105 GQRWFLKAAKERG--VNIFEAFSNSPPWWMTKNGSASGGD------DGS----DNLKPDNYDAFADYLADVVKHYKKWGI 172 (384)
T ss_dssp HHHHHHHHHHHTT-----EEEE-SSS-GGGSSSSSSB-S-------SSS-----SS-TT-HHHHHHHHHHHHHHHHCTT-
T ss_pred HHHHHHHHHHHcC--CCeEEEeecCCCHHHhcCCCCCCCC------ccc----cccChhHHHHHHHHHHHHHHHHHhcCC
Confidence 3456778888887 7777777665544332111001000 001 111222223334455566565577899
Q ss_pred cEEEEEeecCC
Q 033982 93 KAEMIVEVWDP 103 (107)
Q Consensus 93 ~~~~~v~~Gdp 103 (107)
+++.+--...|
T Consensus 173 ~f~~IsP~NEP 183 (384)
T PF14587_consen 173 NFDYISPFNEP 183 (384)
T ss_dssp -EEEEE--S-T
T ss_pred ccceeCCcCCC
Confidence 99988766666
No 52
>PRK09222 isocitrate dehydrogenase; Validated
Probab=38.83 E-value=40 Score=25.31 Aligned_cols=29 Identities=3% Similarity=0.055 Sum_probs=22.0
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
+.+++.+++|.+.|++++ ..+|+.+|=.+
T Consensus 149 ~~~eRI~r~AFe~A~~r~-rkkVt~v~KaN 177 (482)
T PRK09222 149 PGSEKIIRYAFEYARANG-RKKVTCLTKDN 177 (482)
T ss_pred HHHHHHHHHHHHHHHhcC-CCeEEEEECCC
Confidence 468899999999998875 23688888543
No 53
>PF08285 DPM3: Dolichol-phosphate mannosyltransferase subunit 3 (DPM3); InterPro: IPR013174 This family corresponds to subunit 3 of dolichol-phosphate mannosyltransferase, an enzyme which generates mannosyl donors for glycosylphosphatidylinositols, N-glycan and protein O- and C-mannosylation. DPM3 is an integral membrane protein and plays a role in stabilising the dolichol-phosphate mannosyl transferase complex [].
Probab=37.78 E-value=70 Score=18.26 Aligned_cols=19 Identities=21% Similarity=0.239 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHhcCCcE
Q 033982 76 TLAFLQKVKDILSSQGVKA 94 (107)
Q Consensus 76 ~~~~l~~~~~~~~~~~v~~ 94 (107)
-.+-++++++..+++|+++
T Consensus 73 L~~eI~eAK~dLr~kGv~~ 91 (91)
T PF08285_consen 73 LQKEIKEAKADLRKKGVDV 91 (91)
T ss_pred HHHHHHHHHHHHHHcCCCC
Confidence 3445567777777888863
No 54
>COG1242 Predicted Fe-S oxidoreductase [General function prediction only]
Probab=37.65 E-value=86 Score=22.08 Aligned_cols=26 Identities=15% Similarity=0.029 Sum_probs=20.7
Q ss_pred HHHHHHHHhcCCcEEEEEeecCCCCC
Q 033982 81 QKVKDILSSQGVKAEMIVEVWDPTMA 106 (107)
Q Consensus 81 ~~~~~~~~~~~v~~~~~v~~Gdp~~~ 106 (107)
.++...+++.||++-+++..|-|++.
T Consensus 171 ~dav~r~rkrgIkvc~HiI~GLPgE~ 196 (312)
T COG1242 171 VDAVKRLRKRGIKVCTHLINGLPGET 196 (312)
T ss_pred HHHHHHHHHcCCeEEEEEeeCCCCCC
Confidence 34455667789999999999999874
No 55
>cd03364 TOPRIM_DnaG_primases TOPRIM_DnaG_primases: The topoisomerase-primase (TORPIM) nucleotidyl transferase/hydrolase domain found in the active site regions of proteins similar to Escherichia coli DnaG. Primases synthesize RNA primers for the initiation of DNA replication. DnaG type primases are often closely associated with DNA helicases in primosome assemblies. The TOPRIM domain has two conserved motifs, one of which centers at a conserved glutamate and the other one at two conserved aspartates (DxD). This glutamate and two aspartates, cluster together to form a highly acid surface patch. The conserved glutamate may act as a general base in nucleotide polymerization by primases. The DXD motif may co-ordinate Mg2+, a cofactor required for full catalytic function. E. coli DnaG is a single subunit enzyme.
Probab=36.89 E-value=69 Score=17.12 Aligned_cols=24 Identities=25% Similarity=0.213 Sum_probs=17.2
Q ss_pred eeecCCcchHHHHHHHHHhhhccc
Q 033982 2 VAIDESEQSHYALMWVLDNLKESI 25 (107)
Q Consensus 2 VavDgS~~S~~Al~~A~~~a~~~g 25 (107)
++.|..+...+|.+...+...+.|
T Consensus 48 i~~D~D~aG~~a~~~~~~~l~~~g 71 (79)
T cd03364 48 LAFDGDEAGQKAALRALELLLKLG 71 (79)
T ss_pred EEECCCHHHHHHHHHHHHHHHHCC
Confidence 567888888877777777666644
No 56
>PRK04250 dihydroorotase; Provisional
Probab=36.09 E-value=42 Score=24.27 Aligned_cols=25 Identities=24% Similarity=0.113 Sum_probs=20.8
Q ss_pred HHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 11 HYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 11 ~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
..|+..++.+|+..| ++|++.|+..
T Consensus 183 ~~av~r~~~la~~~~--~~lhi~HvSt 207 (398)
T PRK04250 183 VVAIERALEAGKKLK--KPLHICHIST 207 (398)
T ss_pred HHHHHHHHHHHHHhC--CCEEEEeCCC
Confidence 467889999998865 9999999953
No 57
>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=36.02 E-value=43 Score=24.62 Aligned_cols=26 Identities=15% Similarity=0.015 Sum_probs=20.9
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEe
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMA 35 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV 35 (107)
+.+++..++|.+.|++++ .+|+++|=
T Consensus 186 ~~~eRIar~AF~~A~~~~--~~Vt~v~K 211 (409)
T TIGR00127 186 ESIEGFAHSSFQLALEKK--WPLYLSTK 211 (409)
T ss_pred HHHHHHHHHHHHHHHHcC--CCEEEEcC
Confidence 578899999999998865 57877774
No 58
>COG1785 PhoA Alkaline phosphatase [Inorganic ion transport and metabolism]
Probab=35.97 E-value=49 Score=24.90 Aligned_cols=25 Identities=24% Similarity=0.135 Sum_probs=20.1
Q ss_pred HHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 11 HYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 11 ~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
.+|+++|++.|++.+ ..|+|+..=+
T Consensus 329 d~Avq~al~fA~k~~--~TLVIvTADH 353 (482)
T COG1785 329 DEAVQAALDFAEKDG--NTLVIVTADH 353 (482)
T ss_pred HHHHHHHHHHHhcCC--CeEEEEeccc
Confidence 579999999999864 6788887743
No 59
>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=35.89 E-value=48 Score=24.85 Aligned_cols=29 Identities=3% Similarity=0.035 Sum_probs=21.8
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
+.+++.+++|.+.|++++ ..+|+.+|=.+
T Consensus 145 ~g~eRI~r~AFe~A~~r~-rkkVT~v~KaN 173 (473)
T TIGR02924 145 SGSEKICRYAFEYARKHN-RKKVTCLTKDN 173 (473)
T ss_pred HHHHHHHHHHHHHHHhcC-CCeEEEEECCc
Confidence 467888999999998864 24688888543
No 60
>PF01171 ATP_bind_3: PP-loop family; InterPro: IPR011063 This entry represents the PP-loop motif superfamily [,]. The PP-loop motif appears to be a modified version of the P-loop of nucleotide binding domain that is involved in phosphate binding []. Named PP-motif, since it appears to be a part of a previously uncharacterised ATP pyrophophatase domain. ATP sulfurylases, Escherichia coli NtrL, and Bacillus subtilis OutB consist of this domain alone. In other proteins, the pyrophosphatase domain is associated with amidotransferase domains (type I or type II), a putative citrulline-aspartate ligase domain or a nitrilase/amidase domain.; PDB: 3A2K_A 2E89_B 2E21_D 1WY5_B 1NI5_A.
Probab=35.88 E-value=1.1e+02 Score=19.18 Aligned_cols=36 Identities=17% Similarity=0.139 Sum_probs=24.5
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCC
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQPP 38 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~ 38 (107)
+||+=|=..|...+....++....+ -++.++||-..
T Consensus 3 ~va~SGG~DS~~Ll~~l~~~~~~~~--~~~~~~~vdh~ 38 (182)
T PF01171_consen 3 LVAVSGGKDSMALLHLLKELRRRNG--IKLIAVHVDHG 38 (182)
T ss_dssp EEE--SSHHHHHHHHHHHHHHTTTT--TEEEEEEEE-S
T ss_pred EEEEcCCHHHHHHHHHHHHHHHhcC--CCeEEEEEecC
Confidence 4677777788777777777766654 68999999643
No 61
>PF09954 DUF2188: Uncharacterized protein conserved in bacteria (DUF2188); InterPro: IPR018691 This family has no known function.
Probab=35.79 E-value=54 Score=16.84 Aligned_cols=24 Identities=13% Similarity=-0.146 Sum_probs=16.5
Q ss_pred chHHHHHHHHHhhhcccCCCcEEEEE
Q 033982 9 QSHYALMWVLDNLKESISKFPLIIFM 34 (107)
Q Consensus 9 ~S~~Al~~A~~~a~~~g~~~~l~llh 34 (107)
.=..|++.|-++|+..+ ..-+++|
T Consensus 27 Tk~eAi~~Ar~~a~~~~--~~el~Ih 50 (62)
T PF09954_consen 27 TKAEAIEAARELAKNQG--GGELIIH 50 (62)
T ss_pred cHHHHHHHHHHHHHhCC--CcEEEEE
Confidence 34679999999998752 3444555
No 62
>PF02878 PGM_PMM_I: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain I; InterPro: IPR005844 The alpha-D-phosphohexomutase superfamily is composed of four related enzymes, each of which catalyses a phosphoryl transfer on their sugar substrates: phosphoglucomutase (PGM), phosphoglucomutase/phosphomannomutase (PGM/PMM), phosphoglucosamine mutase (PNGM), and phosphoacetylglucosamine mutase (PAGM) []. PGM (5.4.2.2 from EC) converts D-glucose 1-phosphate into D-glucose 6-phosphate, and participates in both the breakdown and synthesis of glucose []. PGM/PMM (5.4.2.2 from EC; 5.4.2.8 from EC) are primarily bacterial enzymes that use either glucose or mannose as substrate, participating in the biosynthesis of a variety of carbohydrates such as lipopolysaccharides and alginate [, ]. Both PNGM (5.4.2.3 from EC) and PAGM (5.4.2.10 from EC) are involved in the biosynthesis of UDP-N-acetylglucosamine [, ]. Despite differences in substrate specificity, these enzymes share a similar catalytic mechanism, converting 1-phospho-sugars to 6-phospho-sugars via a biphosphorylated 1,6-phospho-sugar. The active enzyme is phosphorylated at a conserved serine residue and binds one magnesium ion; residues around the active site serine are well conserved among family members. The reaction mechanism involves phosphoryl transfer from the phosphoserine to the substrate to create a biophosphorylated sugar, followed by a phosphoryl transfer from the substrate back to the enzyme []. The structures of PGM and PGM/PMM have been determined, and were found to be very similar in topology. These enzymes are both composed of four domains and a large central active site cleft, where each domain contains residues essential for catalysis and/or substrate recognition. Domain I contains the catalytic phosphoserine, domain II contains a metal-binding loop to coordinate the magnesium ion, domain III contains the sugar-binding loop that recognises the two different binding orientations of the 1- and 6-phospho-sugars, and domain IV contains a phosphate-binding site required for orienting the incoming phospho-sugar substrate. This entry represents domain I found in alpha-D-phosphohexomutase enzymes. This domain has a 3-layer alpha/beta/alpha topology.; GO: 0016868 intramolecular transferase activity, phosphotransferases, 0005975 carbohydrate metabolic process; PDB: 3I3W_B 1WQA_C 1KFQ_B 1KFI_A 2Z0F_A 2FKM_X 3C04_A 1K2Y_X 1P5G_X 2H4L_X ....
Probab=35.44 E-value=38 Score=20.36 Aligned_cols=35 Identities=17% Similarity=0.081 Sum_probs=26.3
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
+|+-|....|....+..++-+...| ..+..+...+
T Consensus 44 vVg~D~R~~s~~~~~~~~~~l~~~G--~~V~~~g~~~ 78 (137)
T PF02878_consen 44 VVGRDTRPSSPMLAKALAAGLRANG--VDVIDIGLVP 78 (137)
T ss_dssp EEEE-SSTTHHHHHHHHHHHHHHTT--EEEEEEEEB-
T ss_pred EEEEcccCCHHHHHHHHHHHHhhcc--cccccccccC
Confidence 5788999999999999988888765 6777766443
No 63
>PRK13404 dihydropyrimidinase; Provisional
Probab=35.28 E-value=44 Score=24.77 Aligned_cols=26 Identities=12% Similarity=0.042 Sum_probs=21.3
Q ss_pred hHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 10 SHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 10 S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
-..++..++.+|+..| .+++++|+..
T Consensus 219 E~~~v~~~~~la~~~g--~~~hi~Hvs~ 244 (477)
T PRK13404 219 EREATHRAIALAELVD--VPILIVHVSG 244 (477)
T ss_pred HHHHHHHHHHHHHHhC--CCEEEEECCC
Confidence 3467889999999866 9999999953
No 64
>PRK07369 dihydroorotase; Provisional
Probab=35.24 E-value=40 Score=24.51 Aligned_cols=25 Identities=16% Similarity=0.105 Sum_probs=20.3
Q ss_pred HHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 11 HYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 11 ~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
..++..++.+|+..| .++++.|+-.
T Consensus 213 ~~av~r~~~la~~~~--~~~hi~HvSs 237 (418)
T PRK07369 213 TTALAALLELVAAIG--TPVHLMRIST 237 (418)
T ss_pred HHHHHHHHHHHHHHC--CcEEEEeCCC
Confidence 356788889998866 9999999953
No 65
>cd01297 D-aminoacylase D-aminoacylases (N-acyl-D-Amino acid amidohydrolases) catalyze the hydrolysis of N-acyl-D-amino acids to produce the corresponding D-amino acids, which are used as intermediates in the synthesis of pesticides, bioactive peptides, and antibiotics.
Probab=34.76 E-value=64 Score=23.28 Aligned_cols=30 Identities=23% Similarity=0.065 Sum_probs=24.1
Q ss_pred CCcchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 6 ESEQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 6 gS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
.+..-..+++.+++++++.| .++++.|+..
T Consensus 222 ~~~~e~~av~~~~~~a~~~g--~r~~i~H~ss 251 (415)
T cd01297 222 EGDSILEALDELLRLGRETG--RPVHISHLKS 251 (415)
T ss_pred ccccHHHHHHHHHHHHHHhC--CCEEEEEEec
Confidence 33456679999999999865 8999999964
No 66
>cd04795 SIS SIS domain. SIS (Sugar ISomerase) domains are found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars.
Probab=34.65 E-value=68 Score=16.98 Aligned_cols=30 Identities=27% Similarity=0.305 Sum_probs=16.3
Q ss_pred eeecCCcchHHHHHHHHHhhhcccCCCcEEEEE
Q 033982 2 VAIDESEQSHYALMWVLDNLKESISKFPLIIFM 34 (107)
Q Consensus 2 VavDgS~~S~~Al~~A~~~a~~~g~~~~l~llh 34 (107)
+.+..|.++..-++ +++.++..| .+++.+.
T Consensus 52 i~iS~sg~t~~~~~-~~~~a~~~g--~~ii~it 81 (87)
T cd04795 52 IALSYSGRTEELLA-ALEIAKELG--IPVIAIT 81 (87)
T ss_pred EEEECCCCCHHHHH-HHHHHHHcC--CeEEEEe
Confidence 45666666655333 445666654 5555443
No 67
>PRK07006 isocitrate dehydrogenase; Reviewed
Probab=34.48 E-value=55 Score=24.05 Aligned_cols=28 Identities=0% Similarity=-0.052 Sum_probs=20.9
Q ss_pred chHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 9 QSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 9 ~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
.+++.+++|+++|++++ ..+++++|=.+
T Consensus 198 ~~eRi~r~AFe~A~~r~-rkkVt~v~KaN 225 (409)
T PRK07006 198 GTERLVRAAIEYAIDND-RKSVTLVHKGN 225 (409)
T ss_pred HHHHHHHHHHHHHHhcC-CCcEEEEECCC
Confidence 47888888999988764 24699998544
No 68
>TIGR00857 pyrC_multi dihydroorotase, multifunctional complex type. All proteins described by this model should represent active and inactive dihydroorotase per se and functionally equivalent domains of multifunctional proteins from higher eukaryotes, but exclude related proteins such as allantoinase.
Probab=34.37 E-value=46 Score=24.01 Aligned_cols=25 Identities=20% Similarity=0.182 Sum_probs=20.7
Q ss_pred HHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 11 HYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 11 ~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
..++..++.+|+..+ .+++++|+..
T Consensus 198 ~~ai~~~~~la~~~~--~~~~i~Hvs~ 222 (411)
T TIGR00857 198 EVAVARLLELAKHAG--CPVHICHIST 222 (411)
T ss_pred HHHHHHHHHHHHHHC--CCEEEEeCCC
Confidence 358889999998865 9999999964
No 69
>PHA02031 putative DnaG-like primase
Probab=34.13 E-value=68 Score=22.19 Aligned_cols=32 Identities=6% Similarity=0.106 Sum_probs=25.3
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEE
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFM 34 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llh 34 (107)
++..||.+...+|...|++++...+ -.+.++.
T Consensus 210 il~fDgD~AG~~Aa~ra~~~l~~~~--~~v~vv~ 241 (266)
T PHA02031 210 LIFLDGDPAGVDGSAGAMRRLRPLL--IEGQVII 241 (266)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHHcC--CceEEEE
Confidence 4689999999999999999988755 4555444
No 70
>COG0492 TrxB Thioredoxin reductase [Posttranslational modification, protein turnover, chaperones]
Probab=33.83 E-value=49 Score=23.13 Aligned_cols=25 Identities=12% Similarity=-0.106 Sum_probs=19.5
Q ss_pred hHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 10 SHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 10 S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
...|++||+.+++- + .+++++|=.+
T Consensus 152 G~sAve~Al~L~~~-a--~~Vtlv~r~~ 176 (305)
T COG0492 152 GDSAVEEALYLSKI-A--KKVTLVHRRD 176 (305)
T ss_pred CHHHHHHHHHHHHh-c--CeEEEEecCc
Confidence 56799999998764 3 6799999654
No 71
>COG2890 HemK Methylase of polypeptide chain release factors [Translation, ribosomal structure and biogenesis]
Probab=33.70 E-value=45 Score=22.94 Aligned_cols=22 Identities=18% Similarity=0.057 Sum_probs=18.8
Q ss_pred ecCCcchHHHHHHHHHhhhccc
Q 033982 4 IDESEQSHYALMWVLDNLKESI 25 (107)
Q Consensus 4 vDgS~~S~~Al~~A~~~a~~~g 25 (107)
|.+++-|..|++.|..||++.|
T Consensus 137 V~a~Dis~~Al~~A~~Na~~~~ 158 (280)
T COG2890 137 VIAVDISPDALALARENAERNG 158 (280)
T ss_pred EEEEECCHHHHHHHHHHHHHcC
Confidence 5677788899999999999865
No 72
>PF06135 DUF965: Bacterial protein of unknown function (DUF965); InterPro: IPR009309 This family consists of several hypothetical bacterial proteins. The function of the family is unknown.
Probab=32.13 E-value=75 Score=17.72 Aligned_cols=30 Identities=20% Similarity=0.166 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHHHhcCCc----EEEEEeecCCC
Q 033982 75 LTLAFLQKVKDILSSQGVK----AEMIVEVWDPT 104 (107)
Q Consensus 75 ~~~~~l~~~~~~~~~~~v~----~~~~v~~Gdp~ 104 (107)
..+++|...-+.++++|-. .-..++.|||+
T Consensus 16 ~~~~iL~~Vy~AL~EKGYnPinQivGYllSGDPa 49 (79)
T PF06135_consen 16 EIREILKQVYAALEEKGYNPINQIVGYLLSGDPA 49 (79)
T ss_pred hHHHHHHHHHHHHHHcCCChHHHHHhheecCCCc
Confidence 4456676666666667754 33567889996
No 73
>KOG0784 consensus Isocitrate dehydrogenase, gamma subunit [Amino acid transport and metabolism]
Probab=32.02 E-value=64 Score=23.25 Aligned_cols=29 Identities=7% Similarity=-0.017 Sum_probs=21.6
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
..|++-.+||.+.|++.| --+++.+|=.+
T Consensus 184 ~kseRIaryAF~yA~k~g-RKkVTaVHKAn 212 (375)
T KOG0784|consen 184 FKSERIARYAFEYAKKNG-RKKVTAVHKAN 212 (375)
T ss_pred hhhHHHHHHHHHHHHHhC-CceEEEEeccC
Confidence 457777888888887765 35799999754
No 74
>cd01318 DHOase_IIb Dihydroorotase (DHOase), subgroup IIb; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This group contains the archeal members of the DHOase family.
Probab=31.86 E-value=55 Score=23.29 Aligned_cols=24 Identities=17% Similarity=-0.033 Sum_probs=20.3
Q ss_pred HHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 12 YALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 12 ~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
.|+..++.+|+..| .++++.|+..
T Consensus 158 ~av~r~~~la~~~~--~~~hi~Hvs~ 181 (361)
T cd01318 158 VATARALKLARRHG--ARLHICHVST 181 (361)
T ss_pred HHHHHHHHHHHHHC--CCEEEEeCCC
Confidence 67888999998865 9999999954
No 75
>PTZ00435 isocitrate dehydrogenase; Provisional
Probab=30.97 E-value=55 Score=24.13 Aligned_cols=26 Identities=12% Similarity=0.002 Sum_probs=19.9
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEe
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMA 35 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV 35 (107)
+.+++-.++|.+.|++++ .+++++|=
T Consensus 188 ~~~eRIar~AF~~A~~r~--~~Vt~v~K 213 (413)
T PTZ00435 188 ESIEGFARSCFQYALDRK--MPLYLSTK 213 (413)
T ss_pred HHHHHHHHHHHHHHHHcC--CCEEEECC
Confidence 467888889999998865 57777774
No 76
>smart00518 AP2Ec AP endonuclease family 2. These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites
Probab=30.53 E-value=60 Score=21.71 Aligned_cols=25 Identities=16% Similarity=0.122 Sum_probs=19.6
Q ss_pred chHHHHHHHHHhhhcccCCCcEEEEEe
Q 033982 9 QSHYALMWVLDNLKESISKFPLIIFMA 35 (107)
Q Consensus 9 ~S~~Al~~A~~~a~~~g~~~~l~llhV 35 (107)
.+..-++++++.|+..| ++.+++|.
T Consensus 81 ~~~~~l~~~i~~A~~lG--a~~vv~h~ 105 (273)
T smart00518 81 KSIERLIDEIKRCEELG--IKALVFHP 105 (273)
T ss_pred HHHHHHHHHHHHHHHcC--CCEEEEcc
Confidence 34556899999999988 88877773
No 77
>COG0133 TrpB Tryptophan synthase beta chain [Amino acid transport and metabolism]
Probab=30.15 E-value=79 Score=22.85 Aligned_cols=26 Identities=23% Similarity=0.161 Sum_probs=20.3
Q ss_pred chHHHHHHHHHhhhcccCCCcEEEEEe
Q 033982 9 QSHYALMWVLDNLKESISKFPLIIFMA 35 (107)
Q Consensus 9 ~S~~Al~~A~~~a~~~g~~~~l~llhV 35 (107)
.|.+|+.||+++++... ..++++++.
T Consensus 350 ESsHAlA~a~kla~~~~-~~~~ivvnl 375 (396)
T COG0133 350 ESSHALAYALKLAPKLP-KDEIIVVNL 375 (396)
T ss_pred hhHHHHHHHHHhchhcC-CCcEEEEEc
Confidence 57899999999997763 466777765
No 78
>KOG2584 consensus Dihydroorotase and related enzymes [Nucleotide transport and metabolism]
Probab=30.13 E-value=62 Score=24.26 Aligned_cols=25 Identities=12% Similarity=0.097 Sum_probs=21.1
Q ss_pred HHHHHHHHhhhcccCCCcEEEEEeeCC
Q 033982 12 YALMWVLDNLKESISKFPLIIFMAQPP 38 (107)
Q Consensus 12 ~Al~~A~~~a~~~g~~~~l~llhV~~~ 38 (107)
.|...|+.+|++.+ .+|.++||...
T Consensus 233 EA~~rai~ia~~~n--cPlyvvhVmsk 257 (522)
T KOG2584|consen 233 EATNRAITIARQAN--CPLYVVHVMSK 257 (522)
T ss_pred HHHHHHHHHHHhcC--CCcceEEEeeh
Confidence 57889999999854 99999999753
No 79
>PLN03159 cation/H(+) antiporter 15; Provisional
Probab=30.10 E-value=85 Score=25.26 Aligned_cols=31 Identities=13% Similarity=0.144 Sum_probs=26.1
Q ss_pred CCcchHHHHHHHHHhhhcccCCCcEEEEEeeCC
Q 033982 6 ESEQSHYALMWVLDNLKESISKFPLIIFMAQPP 38 (107)
Q Consensus 6 gS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~ 38 (107)
|-+..+.||.+|..++... +-.|+++|-.+.
T Consensus 639 GG~DDREALa~a~rma~~p--~v~lTVirf~~~ 669 (832)
T PLN03159 639 GGPDDREALAYAWRMSEHP--GITLTVMRFIPG 669 (832)
T ss_pred CCcchHHHHHHHHHHhcCC--CeEEEEEEEEcc
Confidence 5677899999999999774 489999999854
No 80
>PLN00103 isocitrate dehydrogenase (NADP+); Provisional
Probab=29.94 E-value=58 Score=23.97 Aligned_cols=26 Identities=12% Similarity=0.075 Sum_probs=19.6
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEe
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMA 35 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV 35 (107)
+.+++..++|++.|++++ .+++++|=
T Consensus 189 ~~~~Riar~AFe~A~~r~--~~vt~v~K 214 (410)
T PLN00103 189 ESIRAFAEASMNTAYQKK--WPLYLSTK 214 (410)
T ss_pred HHHHHHHHHHHHHHHhcC--CcEEEECC
Confidence 458888999999998765 56666663
No 81
>TIGR00183 prok_nadp_idh isocitrate dehydrogenase, NADP-dependent, prokaryotic type. Prokaryotic NADP-dependent isocitrate dehydrogenases resemble their NAD-dependent counterparts and 3-isopropylmalate dehydrogenase (an NAD-dependent enzyme) more closely than they resemble eukaryotic NADP-dependent isocitrate dehydrogenases.
Probab=29.87 E-value=70 Score=23.55 Aligned_cols=29 Identities=7% Similarity=0.004 Sum_probs=21.4
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
+.+++..++|.++|++++ ..+|+++|=.+
T Consensus 204 ~~~~Riar~AFe~A~~r~-rk~Vt~v~KaN 232 (416)
T TIGR00183 204 EGTKRLVRAAIEYAIEND-RKSVTLVHKGN 232 (416)
T ss_pred HHHHHHHHHHHHHHHhcC-CCeEEEEECCC
Confidence 467888899999998763 24688888544
No 82
>PRK09060 dihydroorotase; Validated
Probab=29.11 E-value=68 Score=23.48 Aligned_cols=25 Identities=8% Similarity=-0.011 Sum_probs=21.2
Q ss_pred HHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 11 HYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 11 ~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
..+++.++.+|+..| .++++.|+..
T Consensus 213 ~~av~~~~~la~~~~--~~lhi~h~st 237 (444)
T PRK09060 213 LLATRRLVRLARETG--RRIHVLHVST 237 (444)
T ss_pred HHHHHHHHHHHHHHC--CCEEEEeCCC
Confidence 378899999999866 9999999853
No 83
>PRK07362 isocitrate dehydrogenase; Validated
Probab=29.03 E-value=69 Score=24.04 Aligned_cols=31 Identities=6% Similarity=-0.044 Sum_probs=21.5
Q ss_pred cchHHHHHHHHHhhhccc-CCCcEEEEEeeCC
Q 033982 8 EQSHYALMWVLDNLKESI-SKFPLIIFMAQPP 38 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g-~~~~l~llhV~~~ 38 (107)
..+++.+++|+++|+++. ...+|+++|=.+-
T Consensus 211 ~g~eRI~r~AFe~A~~r~~~rkkVT~VhKaNV 242 (474)
T PRK07362 211 TGSQRHIRRAIEHALRLPGDKRHVTLVHKGNI 242 (474)
T ss_pred HHHHHHHHHHHHHHHhcCCCCCeEEEEECCcc
Confidence 357788889999987762 1246888885443
No 84
>TIGR00587 nfo apurinic endonuclease (APN1). All proteins in this family for which functions are known are 5' AP endonculeases that are used in base excision repair and the repair of abasic sites in DNA.This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=29.02 E-value=64 Score=21.91 Aligned_cols=25 Identities=20% Similarity=-0.076 Sum_probs=21.4
Q ss_pred chHHHHHHHHHhhhcccCCCcEEEEEe
Q 033982 9 QSHYALMWVLDNLKESISKFPLIIFMA 35 (107)
Q Consensus 9 ~S~~Al~~A~~~a~~~g~~~~l~llhV 35 (107)
.|.+.+..+++.|+..| ++.+++|.
T Consensus 85 ~sv~~~~~~i~~A~~lg--a~~vv~H~ 109 (274)
T TIGR00587 85 KSLDVLDEELKRCELLG--IMLYNFHP 109 (274)
T ss_pred HHHHHHHHHHHHHHHcC--CCEEEECC
Confidence 57788999999999988 88888883
No 85
>PRK01060 endonuclease IV; Provisional
Probab=28.51 E-value=68 Score=21.54 Aligned_cols=25 Identities=16% Similarity=0.154 Sum_probs=20.6
Q ss_pred chHHHHHHHHHhhhcccCCCcEEEEEe
Q 033982 9 QSHYALMWVLDNLKESISKFPLIIFMA 35 (107)
Q Consensus 9 ~S~~Al~~A~~~a~~~g~~~~l~llhV 35 (107)
.|...++.+++.|++.| ++.+++|.
T Consensus 86 ~s~~~~~~~i~~A~~lg--a~~vv~h~ 110 (281)
T PRK01060 86 KSRDFLIQEIERCAALG--AKLLVFHP 110 (281)
T ss_pred HHHHHHHHHHHHHHHcC--CCEEEEcC
Confidence 45677999999999987 88888874
No 86
>PRK06451 isocitrate dehydrogenase; Validated
Probab=28.45 E-value=80 Score=23.27 Aligned_cols=29 Identities=3% Similarity=-0.056 Sum_probs=21.2
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
..+++.+++|++.|++++ ..+++++|=.+
T Consensus 196 ~~~eRIar~AF~~A~~r~-~kkVt~v~KaN 224 (412)
T PRK06451 196 FKTQRIARMAIKYAIDHK-RKKVTIMHKGN 224 (412)
T ss_pred HHHHHHHHHHHHHHHhcC-CCcEEEEECCC
Confidence 367788889999998764 24688888543
No 87
>PF12410 rpo30_N: Poxvirus DNA dependent RNA polymerase 30kDa subunit ; InterPro: IPR024394 All three classes of poxvirus genes - early, intermediate and late - are transcribed by the viral RNA polymerase compex []. This complex is composed of nine distinct subunits which total more than 500kDa in mass. The two largest subunits (147 and 136kDa) are homologous to the largest subunits of eukaryotic and prokaryotic RNA polymerases and, like them, are thought to form a claw-shaped structure whose cleft is the site of template interaction and phosphodiester bond formation. While the smaller subunits of poxvirus RNA polymerase show much less similarity, if any, to the smaller subunits of the eukaryotic and prokaryotic enzymes, it is thought that they may play a similar role in interacting with transcription factors. This entry represents the N-terminal domain of the 30kDa subunit of RNA polymerase from the chordopox branch of poxviruses [, ]. This subunit may have a role in RNA chain elongation. The function of this domain is not known, but it contains two conserved sequence motifs, GIEYSKD and LRY, and shows structural similarity to the eukaryotic transcriptional elongation factor SII.
Probab=28.40 E-value=38 Score=20.60 Aligned_cols=21 Identities=19% Similarity=0.476 Sum_probs=17.0
Q ss_pred ecCCcchHHHHHHHHHhhhcc
Q 033982 4 IDESEQSHYALMWVLDNLKES 24 (107)
Q Consensus 4 vDgS~~S~~Al~~A~~~a~~~ 24 (107)
||.......-++||.+.|.++
T Consensus 11 v~d~~~~~~ll~WA~~~a~ky 31 (136)
T PF12410_consen 11 VDDNAEAEDLLKWATDKASKY 31 (136)
T ss_pred cCcHHHHHHHHHHHHHhhhHH
Confidence 566678889999999988763
No 88
>TIGR02530 flg_new flagellar operon protein. Members of this family are found in a subset of bacterial flagellar operons, generally between genes designated flgD and flgE, in species as diverse as Bacillus halodurans and various other Firmicutes, Geobacter sulfurreducens, and Bdellovibrio bacteriovorus. The specific molecular function is unknown.
Probab=28.05 E-value=1.2e+02 Score=17.63 Aligned_cols=30 Identities=17% Similarity=0.164 Sum_probs=22.6
Q ss_pred ecCCcchHHHHHHHHHhhhcccCCCcEEEE
Q 033982 4 IDESEQSHYALMWVLDNLKESISKFPLIIF 33 (107)
Q Consensus 4 vDgS~~S~~Al~~A~~~a~~~g~~~~l~ll 33 (107)
|+.|+.-..-+..|++.|+..|....|+++
T Consensus 30 I~l~~~~~~~i~~av~~A~~KG~kesLvl~ 59 (96)
T TIGR02530 30 ISINPDDWKKLLEAVEEAESKGVKDSLILM 59 (96)
T ss_pred CCCCHHHHHHHHHHHHHHHhcCCCceEEEe
Confidence 567777888899999999988855555543
No 89
>PRK02382 dihydroorotase; Provisional
Probab=28.05 E-value=68 Score=23.40 Aligned_cols=24 Identities=17% Similarity=-0.013 Sum_probs=20.2
Q ss_pred HHHHHHHHHhhhcccCCCcEEEEEee
Q 033982 11 HYALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 11 ~~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
..++..++.+|+..| .++++.|+.
T Consensus 213 ~~av~~~~~la~~~g--~~~hi~h~s 236 (443)
T PRK02382 213 AAAVERALEVASETG--ARIHIAHIS 236 (443)
T ss_pred HHHHHHHHHHHHHhC--CCEEEEECC
Confidence 456788999999876 999999994
No 90
>KOG1271 consensus Methyltransferases [General function prediction only]
Probab=27.82 E-value=81 Score=20.95 Aligned_cols=27 Identities=11% Similarity=0.017 Sum_probs=18.4
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcE
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPL 30 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l 30 (107)
|++||. |.+|++-|.++|.+.+...+|
T Consensus 94 L~GvDY---s~~AV~LA~niAe~~~~~n~I 120 (227)
T KOG1271|consen 94 LTGVDY---SEKAVELAQNIAERDGFSNEI 120 (227)
T ss_pred cccccc---CHHHHHHHHHHHHhcCCCcce
Confidence 455655 567788899999987654333
No 91
>PRK10886 DnaA initiator-associating protein DiaA; Provisional
Probab=27.71 E-value=1.1e+02 Score=19.92 Aligned_cols=34 Identities=9% Similarity=0.155 Sum_probs=24.5
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
++++..|-+++. +..+++.|+..| .+++.+.-.+
T Consensus 113 li~iS~SG~s~~-v~~a~~~Ak~~G--~~vI~IT~~~ 146 (196)
T PRK10886 113 LLAISTRGNSRD-IVKAVEAAVTRD--MTIVALTGYD 146 (196)
T ss_pred EEEEeCCCCCHH-HHHHHHHHHHCC--CEEEEEeCCC
Confidence 356777777766 556678888876 8888887654
No 92
>smart00493 TOPRIM topoisomerases, DnaG-type primases, OLD family nucleases and RecR proteins.
Probab=27.67 E-value=64 Score=16.81 Aligned_cols=23 Identities=17% Similarity=0.176 Sum_probs=18.0
Q ss_pred CeeecCCcchHHHHHHHHHhhhc
Q 033982 1 MVAIDESEQSHYALMWVLDNLKE 23 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~ 23 (107)
+++.|..+..+++.++..+.+..
T Consensus 51 ii~~D~D~~G~~~~~~i~~~l~~ 73 (76)
T smart00493 51 ILATDPDREGEAIAWKLAELLKP 73 (76)
T ss_pred EEEcCCChhHHHHHHHHHHHhhh
Confidence 36889999998888887776654
No 93
>PF04914 DltD_C: DltD C-terminal region; InterPro: IPR006998 The dlt operon (dltA to dltD) of Lactobacillus rhamnosus 7469 encodes four proteins responsible for the esterification of lipoteichoic acid (LTA) by D-alanine. These esters play an important role in controlling the net anionic charge of the poly (GroP) moiety of LTA. DltA and DltC encode the D-alanine-D-alanyl carrier protein ligase (Dcl) and D-alanyl carrier protein (Dcp), respectively. Whereas the functions of DltA and DltC are defined, the functions of DltB and DltD are unknown. In vitro assays showed that DltD bound Dcp for ligation with D-alanine by Dcl in the presence of ATP. In contrast, the homologue of Dcp, the Escherichia coli acyl carrier protein (ACP), involved in fatty acid biosynthesis, was not bound to DltD and thus was not ligated with D-alanine. DltD also catalyzed the hydrolysis of the mischarged D-alanyl-ACP. The hydrophobic N-terminal sequence of DltD was required for anchoring the protein in the membrane. It is hypothesized that this membrane-associated DltD facilitates the binding of Dcp and Dcl for ligation of Dcp with D-alanine and that the resulting D-alanyl-Dcp is translocated to the primary site of D-alanylation []. These sequences contain the C-terminal region of DltD.; PDB: 3BMA_C.
Probab=27.50 E-value=1.5e+02 Score=18.03 Aligned_cols=56 Identities=25% Similarity=0.483 Sum_probs=27.7
Q ss_pred HHHHHHHhhhcccCCCcEEEEEeeCCCCCcccccccccchhhccCccchhHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 033982 13 ALMWVLDNLKESISKFPLIIFMAQPPTKSEFVFTAPFGYARLYSSALTTQGFVNCAEEKQRKLTLAFLQKVKDILSSQGV 92 (107)
Q Consensus 13 Al~~A~~~a~~~g~~~~l~llhV~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~v 92 (107)
=|+.-++.++..| +-++.|++|..... ... ..+ -++..++..++.+.+|+.+|+
T Consensus 37 Dl~l~L~~~k~~g----~~~lfVi~PvNg~w-----ydy----------tG~-------~~~~r~~~y~kI~~~~~~~gf 90 (130)
T PF04914_consen 37 DLQLLLDVCKELG----IDVLFVIQPVNGKW-----YDY----------TGL-------SKEMRQEYYKKIKYQLKSQGF 90 (130)
T ss_dssp HHHHHHHHHHHTT-----EEEEEE----HHH-----HHH----------TT---------HHHHHHHHHHHHHHHHTTT-
T ss_pred HHHHHHHHHHHcC----CceEEEecCCcHHH-----HHH----------hCC-------CHHHHHHHHHHHHHHHHHCCC
Confidence 4677788888754 66666666655432 111 001 122335667777788888888
Q ss_pred cE
Q 033982 93 KA 94 (107)
Q Consensus 93 ~~ 94 (107)
++
T Consensus 91 ~v 92 (130)
T PF04914_consen 91 NV 92 (130)
T ss_dssp -E
T ss_pred EE
Confidence 64
No 94
>PRK09059 dihydroorotase; Validated
Probab=27.44 E-value=66 Score=23.51 Aligned_cols=25 Identities=8% Similarity=-0.338 Sum_probs=20.7
Q ss_pred HHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 11 HYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 11 ~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
..|+..++.+|+..| +++++.|+..
T Consensus 217 ~~av~r~~~la~~~~--~~~hi~hvs~ 241 (429)
T PRK09059 217 VIPLERDLRLAALTR--GRYHAAQISC 241 (429)
T ss_pred HHHHHHHHHHHHHHC--CcEEEEecCC
Confidence 457888899998865 9999999954
No 95
>PRK04204 RNA 3'-terminal-phosphate cyclase; Provisional
Probab=26.93 E-value=1.6e+02 Score=21.15 Aligned_cols=37 Identities=24% Similarity=0.105 Sum_probs=31.5
Q ss_pred CeeecCC--cchHHHHHHHHHhhhcccCCCcEEEEEeeCCC
Q 033982 1 MVAIDES--EQSHYALMWVLDNLKESISKFPLIIFMAQPPT 39 (107)
Q Consensus 1 lVavDgS--~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~ 39 (107)
++-+||| |..-.-|+.++.++.-.| -++.|-++....
T Consensus 2 mi~idGs~~eGGgQilR~alaLS~ltg--kpv~I~nIR~~r 40 (343)
T PRK04204 2 MIEIDGSYGEGGGQILRTALALSAITG--KPFRITNIRANR 40 (343)
T ss_pred eEEEeCCcccccHHHHHHHHHHHHhhC--CCEEEEEeccCC
Confidence 3569999 999999999999999866 899999987443
No 96
>PHA00673 acetyltransferase domain containing protein
Probab=26.90 E-value=1.5e+02 Score=18.67 Aligned_cols=29 Identities=3% Similarity=-0.238 Sum_probs=21.7
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeCC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQPP 38 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~ 38 (107)
--...-++||.+.|+..| +.-.-||..|.
T Consensus 101 GIG~~Ll~~A~~~Ar~~G--c~~lyis~~p~ 129 (154)
T PHA00673 101 GAGMALLRATEALARDLG--ATGLYVSGPTE 129 (154)
T ss_pred CHHHHHHHHHHHHHHHCC--CCEEEEecCCC
Confidence 345678999999999977 77766666443
No 97
>PLN02942 dihydropyrimidinase
Probab=26.41 E-value=76 Score=23.56 Aligned_cols=25 Identities=16% Similarity=-0.015 Sum_probs=20.5
Q ss_pred HHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 11 HYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 11 ~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
..|+.+++.++...| .+++++|+..
T Consensus 221 ~~av~~~~~la~~~g--~~~~i~H~s~ 245 (486)
T PLN02942 221 GEATARAIRLAKFVN--TPLYVVHVMS 245 (486)
T ss_pred HHHHHHHHHHHHHhC--CCEEEEECCC
Confidence 356888888988866 8999999964
No 98
>PLN00096 isocitrate dehydrogenase (NADP+); Provisional
Probab=26.38 E-value=87 Score=22.96 Aligned_cols=28 Identities=4% Similarity=-0.015 Sum_probs=19.5
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
+++++-.++|++.|..++ -+|+++|=-+
T Consensus 176 ~si~RiAr~AF~~A~~r~--~~Vt~v~KaN 203 (393)
T PLN00096 176 DNVHHLARIFFGRCLDAG--IVPYVVTKKT 203 (393)
T ss_pred HHHHHHHHHHHHHHHHhC--CcEEEEeCcc
Confidence 466777777777777654 5688888543
No 99
>KOG0785 consensus Isocitrate dehydrogenase, alpha subunit [Amino acid transport and metabolism]
Probab=26.25 E-value=92 Score=22.26 Aligned_cols=29 Identities=3% Similarity=0.048 Sum_probs=20.9
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
+.|.+..++|.+.|+..+ -..++++|=.+
T Consensus 178 ~AS~Ria~~AF~yAr~~~-R~~vtvvHKaN 206 (365)
T KOG0785|consen 178 AASRRIAEYAFEYARQNG-RKRVTVVHKAN 206 (365)
T ss_pred HHHHHHHHHHHHHHHHcC-CCceEEEehhh
Confidence 357777888888887754 35788888644
No 100
>PF14097 SpoVAE: Stage V sporulation protein AE1
Probab=26.21 E-value=52 Score=21.24 Aligned_cols=20 Identities=20% Similarity=0.233 Sum_probs=16.9
Q ss_pred eeecCCcchHHHHHHHHHhh
Q 033982 2 VAIDESEQSHYALMWVLDNL 21 (107)
Q Consensus 2 VavDgS~~S~~Al~~A~~~a 21 (107)
+-+||.+.+++|++.|..+.
T Consensus 4 lvTDGD~~A~ravE~aa~~i 23 (180)
T PF14097_consen 4 LVTDGDEYAKRAVEIAAKNI 23 (180)
T ss_pred EEECChHHHHHHHHHHHHHh
Confidence 56899999999999997654
No 101
>COG0290 InfC Translation initiation factor 3 (IF-3) [Translation, ribosomal structure and biogenesis]
Probab=25.98 E-value=66 Score=20.77 Aligned_cols=34 Identities=15% Similarity=0.144 Sum_probs=24.7
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCC
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQPP 38 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~ 38 (107)
|++-||+....--.+-|+++|... .|-||-|.+.
T Consensus 23 lIg~~GeqlGiv~~~eAL~lA~e~----~LDLV~Ispn 56 (176)
T COG0290 23 LIGEDGEQLGIVSIEEALKLAEEA----GLDLVEISPN 56 (176)
T ss_pred EECCCCcEEcceeHHHHHHHHHHc----CCCEEEECCC
Confidence 466788888888888999999874 4555555543
No 102
>PF09967 DUF2201: VWA-like domain (DUF2201); InterPro: IPR018698 This family of various hypothetical bacterial proteins has no known function.
Probab=25.64 E-value=1.5e+02 Score=17.66 Aligned_cols=33 Identities=27% Similarity=0.128 Sum_probs=19.7
Q ss_pred CeeecCCc-chHHHH----HHHHHhhhcccCCCcEEEEEe
Q 033982 1 MVAIDESE-QSHYAL----MWVLDNLKESISKFPLIIFMA 35 (107)
Q Consensus 1 lVavDgS~-~S~~Al----~~A~~~a~~~g~~~~l~llhV 35 (107)
+|++|-|- -+...| .....++++.+ .+++++.+
T Consensus 2 ~vaiDtSGSis~~~l~~fl~ev~~i~~~~~--~~v~vi~~ 39 (126)
T PF09967_consen 2 VVAIDTSGSISDEELRRFLSEVAGILRRFP--AEVHVIQF 39 (126)
T ss_pred EEEEECCCCCCHHHHHHHHHHHHHHHHhCC--CCEEEEEE
Confidence 37888883 233344 44444555543 78888876
No 103
>PF08350 DUF1724: Domain of unknown function (DUF1724); InterPro: IPR013561 This domain of unknown function has so far only been found at the C terminus of archaean proteins, including several transcriptional regulators of the ArsR family (see IPR001845 from INTERPRO).
Probab=25.48 E-value=61 Score=17.05 Aligned_cols=15 Identities=20% Similarity=0.184 Sum_probs=11.6
Q ss_pred chHHHHHHHHHhhhc
Q 033982 9 QSHYALMWVLDNLKE 23 (107)
Q Consensus 9 ~S~~Al~~A~~~a~~ 23 (107)
....|++|+.++..-
T Consensus 42 ~~~~Al~WG~eLF~y 56 (64)
T PF08350_consen 42 FDPSALKWGEELFEY 56 (64)
T ss_pred CCHHHHHHHHHHHHH
Confidence 357899999998753
No 104
>PF06415 iPGM_N: BPG-independent PGAM N-terminus (iPGM_N); InterPro: IPR011258 This family represents the N-terminal region of the 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (or phosphoglyceromutase or BPG-independent PGAM) protein (5.4.2.1 from EC). The family is found in conjunction with Metalloenzyme (located in the C-terminal region of the protein). ; GO: 0004619 phosphoglycerate mutase activity, 0030145 manganese ion binding, 0006007 glucose catabolic process, 0005737 cytoplasm; PDB: 1EQJ_A 1EJJ_A 1O99_A 1O98_A 3IGZ_B 3IGY_B 3NVL_A 2IFY_A.
Probab=25.42 E-value=69 Score=21.50 Aligned_cols=32 Identities=16% Similarity=0.006 Sum_probs=21.7
Q ss_pred cCCcchHHHHHHHHHhhhcccCCCcEEEEEeeCC
Q 033982 5 DESEQSHYALMWVLDNLKESISKFPLIIFMAQPP 38 (107)
Q Consensus 5 DgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~ 38 (107)
|||=....+|..+++.+++.+ ..|+|+=-+..
T Consensus 7 ~g~~~~n~~l~~~~~~~k~~~--~~lHl~GLlSd 38 (223)
T PF06415_consen 7 DGSFFKNPVLLEAIEHAKKNG--GRLHLMGLLSD 38 (223)
T ss_dssp TTGGGTSHHHHHHHHHHCCTT----EEEEEEESS
T ss_pred CCCcccCHHHHHHHHHHHhcC--CeEEEEEEecC
Confidence 566666788888888888754 67877766543
No 105
>cd05008 SIS_GlmS_GlmD_1 SIS (Sugar ISomerase) domain repeat 1 found in Glucosamine 6-phosphate synthase (GlmS) and Glucosamine-6-phosphate deaminase (GlmD). The SIS domain is found in many phosphosugar isomerases and phosphosugar binding proteins. GlmS contains a N-terminal glutaminase domain and two C-terminal SIS domains and catalyzes the first step in hexosamine metabolism, converting fructose 6-phosphate into glucosamine 6-phosphate using glutamine as nitrogen source. The glutaminase domain hydrolyzes glutamine to glutamate and ammonia. Ammonia is transferred through a channel to the isomerase domain for glucosamine 6-phosphate synthesis. The end product of the pathway is N-acetylglucosamine, which plays multiple roles in eukaryotic cells including being a building block of bacterial and fungal cell walls. In the absence of glutamine, GlmS catalyzes the isomerization of fructose 6-phosphate into glucose 6- phosphate (PGI-like activity). Glucosamine-6-phosphate deaminase (GlmD) cont
Probab=25.22 E-value=1.3e+02 Score=17.32 Aligned_cols=33 Identities=21% Similarity=0.135 Sum_probs=22.1
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEee
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
++++-.|-.+...++. ++.|+..| ++++.+.-.
T Consensus 50 ~I~iS~sG~t~e~~~~-~~~a~~~g--~~vi~iT~~ 82 (126)
T cd05008 50 VIAISQSGETADTLAA-LRLAKEKG--AKTVAITNV 82 (126)
T ss_pred EEEEeCCcCCHHHHHH-HHHHHHcC--CeEEEEECC
Confidence 3567777777775554 46677766 777777754
No 106
>TIGR02765 crypto_DASH cryptochrome, DASH family. Photolyases and cryptochromes are related flavoproteins. Photolyases harness the energy of blue light to repair DNA damage by removing pyrimidine dimers. Cryptochromes do not repair DNA and are presumed to act instead in some other (possibly unknown) process such as entraining circadian rhythms. This model describes the cryptochrome DASH subfamily, one of at least five major subfamilies, which is found in plants, animals, marine bacteria, etc. Members of this family bind both folate and FAD. They may show weak photolyase activity in vitro but have not been shown to affect DNA repair in vivo. Rather, DASH family cryptochromes have been shown to bind RNA (Vibrio cholerae VC1814), or DNA, and seem likely to act in light-responsive regulatory processes.
Probab=25.18 E-value=2.7e+02 Score=20.22 Aligned_cols=23 Identities=22% Similarity=0.086 Sum_probs=15.2
Q ss_pred HHHHHHHHHhhhcccCCCcEEEEEeeCCC
Q 033982 11 HYALMWVLDNLKESISKFPLIIFMAQPPT 39 (107)
Q Consensus 11 ~~Al~~A~~~a~~~g~~~~l~llhV~~~~ 39 (107)
..||..|++. + .+|..|+|.++.
T Consensus 16 N~aL~~A~~~----~--~~vl~vfi~dp~ 38 (429)
T TIGR02765 16 NPALYKASSS----S--DTLIPLYCFDPR 38 (429)
T ss_pred HHHHHHHHhc----C--CeEEEEEEECch
Confidence 4566666542 2 479999998753
No 107
>TIGR00646 MG010 DNA primase-related protein. The DNA primase DnaG of E. coli and its apparent orthologs in other eubacterial species are approximately 600 residues in length. Within this set, a conspicuous outlier in percent identity, as seen in a UPGMA difference tree, is the branch containing the Mycoplasmas. This lineage is also unique in containing the small, DNA primase-related protein modelled by this alignment, which is homologous to the central third of DNA primase. Several small regions of sequence similarity specifically to Mycoplasma sequences rather than to all DnaG homologs suggests that the divergence of this protein from DnaG post-dated the separation of bacterial lineages. The function of this DNA primase-related protein is unknown.
Probab=25.02 E-value=1.2e+02 Score=20.30 Aligned_cols=31 Identities=16% Similarity=0.149 Sum_probs=24.4
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEE
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIF 33 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~ll 33 (107)
+++.|+.+..++|...+++++...| -.+.++
T Consensus 158 il~~D~D~AG~~Aa~r~~~~L~~~G--~~v~vv 188 (218)
T TIGR00646 158 FICFDNDFAGKNAAANLEEILKKAG--FITKVI 188 (218)
T ss_pred EEEeCCCHHHHHHHHHHHHHHHHCC--CeEEEE
Confidence 3689999999999999999988755 444443
No 108
>cd02991 UAS_ETEA UAS family, ETEA subfamily; composed of proteins similar to human ETEA protein, the translation product of a highly expressed gene in the T-cells and eosinophils of atopic dermatitis patients compared with those of normal individuals. ETEA shows homology to Fas-associated factor 1 (FAF1); both containing UAS and UBX (ubiquitin-associated) domains. Compared to FAF1, however, ETEA lacks the ubiquitin-associated UBA domain and a nuclear targeting domain. The function of ETEA is still unknown. A yeast two-hybrid assay showed that it can interact with Fas. Because of its homology to FAF1, it is postulated that ETEA could be involved in modulating Fas-mediated apoptosis of T-cells and eosinophils of atopic dermatitis patients, making them more resistant to apoptosis.
Probab=24.86 E-value=1.2e+02 Score=17.84 Aligned_cols=23 Identities=9% Similarity=0.213 Sum_probs=17.3
Q ss_pred HHHHHHhhhcccCCCcEEEEEeeCCC
Q 033982 14 LMWVLDNLKESISKFPLIIFMAQPPT 39 (107)
Q Consensus 14 l~~A~~~a~~~g~~~~l~llhV~~~~ 39 (107)
++.|++.|++. .++.+|+.+.+.
T Consensus 6 ~~eAl~~ak~e---~K~llVylhs~~ 28 (116)
T cd02991 6 YSQALNDAKQE---LRFLLVYLHGDD 28 (116)
T ss_pred HHHHHHHHHhh---CCEEEEEEeCCC
Confidence 56677888774 589999998664
No 109
>cd02958 UAS UAS family; UAS is a domain of unknown function. Most members of this family are uncharacterized proteins with similarity to FAS-associated factor 1 (FAF1) and ETEA because of the presence of a UAS domain N-terminal to a ubiquitin-associated UBX domain. FAF1 is a longer protein, compared to the other members of this family, having additional N-terminal domains, a ubiquitin-associated UBA domain and a nuclear targeting domain. FAF1 is an apoptotic signaling molecule that acts downstream in the Fas signal transduction pathway. It interacts with the cytoplasmic domain of Fas, but not to a Fas mutant that is deficient in signal transduction. ETEA is the protein product of a highly expressed gene in T-cells and eosinophils of atopic dermatitis patients. The presence of the ubiquitin-associated UBX domain in the proteins of this family suggests the possibility of their involvement in ubiquitination. Recently, FAF1 has been shown to interact with valosin-containing protein (VCP),
Probab=24.52 E-value=1.2e+02 Score=17.33 Aligned_cols=22 Identities=9% Similarity=-0.008 Sum_probs=16.3
Q ss_pred HHHHHHhhhcccCCCcEEEEEeeCC
Q 033982 14 LMWVLDNLKESISKFPLIIFMAQPP 38 (107)
Q Consensus 14 l~~A~~~a~~~g~~~~l~llhV~~~ 38 (107)
++.|++.|++. .++.+||+..+
T Consensus 6 ~~~a~~~Ak~~---~K~llv~~~~~ 27 (114)
T cd02958 6 FEDAKQEAKSE---KKWLLVYLQSE 27 (114)
T ss_pred HHHHHHHHHhh---CceEEEEEecC
Confidence 46677888875 48899998754
No 110
>PF01193 RNA_pol_L: RNA polymerase Rpb3/Rpb11 dimerisation domain; InterPro: IPR011261 DNA-directed RNA polymerases 2.7.7.6 from EC (also known as DNA-dependent RNA polymerases) are responsible for the polymerisation of ribonucleotides into a sequence complementary to the template DNA. In eukaryotes, there are three different forms of DNA-directed RNA polymerases transcribing different sets of genes. Most RNA polymerases are multimeric enzymes and are composed of a variable number of subunits. The core RNA polymerase complex consists of five subunits (two alpha, one beta, one beta-prime and one omega) and is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. The core RNA polymerase complex forms a "crab claw"-like structure with an internal channel running along the full length []. The key functional sites of the enzyme, as defined by mutational and cross-linking analysis, are located on the inner wall of this channel. RNA synthesis follows after the attachment of RNA polymerase to a specific site, the promoter, on the template DNA strand. The RNA synthesis process continues until a termination sequence is reached. The RNA product, which is synthesised in the 5' to 3'direction, is known as the primary transcript. Eukaryotic nuclei contain three distinct types of RNA polymerases that differ in the RNA they synthesise: RNA polymerase I: located in the nucleoli, synthesises precursors of most ribosomal RNAs. RNA polymerase II: occurs in the nucleoplasm, synthesises mRNA precursors. RNA polymerase III: also occurs in the nucleoplasm, synthesises the precursors of 5S ribosomal RNA, the tRNAs, and a variety of other small nuclear and cytosolic RNAs. Eukaryotic cells are also known to contain separate mitochondrial and chloroplast RNA polymerases. Eukaryotic RNA polymerases, whose molecular masses vary in size from 500 to 700 kDa, contain two non-identical large (>100 kDa) subunits and an array of up to 12 different small (less than 50 kDa) subunits. RNA polymerase (RNAP) II, which is responsible for all mRNA synthesis in eukaryotes, consists of 12 subunits. Subunits Rpb3 and Rpb11 form a heterodimer that is functionally analogous to the archaeal RNAP D/L heterodimer, and to the prokaryotic RNAP alpha subunit (RpoA) homodimer. In each case, they play a key role in RNAP assembly by forming a platform on which the catalytic subunits (eukaryotic Rpb1/Rpb2, and prokaryotic beta/beta') can interact []. These different subunits share regions of homology required for dimerisation. In eukaryotic Rpb11 and archaeal L subunits, the dimerisation domain consists of a contiguous Rpb11-like domain, whereas in eukaryotic Rpb3, archaeal D and bacterial RpoA subunits (IPR011263 from INTERPRO), the dimerisation domain consists of the Rpb11-like domain interrupted by an insert domain. In the prokaryotic alpha subunit, this dimerisation domain is the N-terminal domain [].; GO: 0003899 DNA-directed RNA polymerase activity, 0046983 protein dimerization activity, 0006351 transcription, DNA-dependent; PDB: 1HQM_B 1YNJ_A 1YNN_A 1I6V_A 2GHO_A 3HKZ_V 2PMZ_X 2PA8_L 3GTK_C 1TWH_C ....
Probab=24.35 E-value=96 Score=16.10 Aligned_cols=21 Identities=33% Similarity=0.289 Sum_probs=16.7
Q ss_pred eecCCcchHHHHHHHHHhhhc
Q 033982 3 AIDESEQSHYALMWVLDNLKE 23 (107)
Q Consensus 3 avDgS~~S~~Al~~A~~~a~~ 23 (107)
=.|||-..+.+|..|++..+.
T Consensus 43 eT~g~~~p~~~l~~A~~~l~~ 63 (66)
T PF01193_consen 43 ETDGSLTPKEALLKAIKILKE 63 (66)
T ss_dssp EEBSSS-HHHHHHHHHHHHHH
T ss_pred EECCCCCHHHHHHHHHHHHHH
Confidence 368999999999999987654
No 111
>COG0538 Icd Isocitrate dehydrogenases [Energy production and conversion]
Probab=24.29 E-value=87 Score=22.96 Aligned_cols=25 Identities=8% Similarity=0.150 Sum_probs=17.9
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
...++|++||+++-+ -.++++|==+
T Consensus 198 Rlvr~ai~yAi~~~r-----~~VtlvhKgn 222 (407)
T COG0538 198 RLVRAAIEYAIENKR-----KSVTLVHKGN 222 (407)
T ss_pred HHHHHHHHHHHHcCC-----ceEEEEecCe
Confidence 356788888888732 4799999533
No 112
>PRK00028 infC translation initiation factor IF-3; Reviewed
Probab=23.66 E-value=74 Score=20.48 Aligned_cols=32 Identities=13% Similarity=0.075 Sum_probs=23.8
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEE
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFM 34 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llh 34 (107)
||.-||+.....-+..|+.+|...| -.|+.+.
T Consensus 24 li~~dG~~lgv~~~~eAl~~A~~~~--lDLV~v~ 55 (177)
T PRK00028 24 LIGDDGEQLGIVSTREALELAEEAG--LDLVEIS 55 (177)
T ss_pred EECCCCcCCCceeHHHHHHHHHHcC--CCEEEEC
Confidence 4566888778888999999999865 4555543
No 113
>TIGR03010 sulf_tusC_dsrF sulfur relay protein TusC/DsrF. The three proteins TusB, TusC, and TusD form a heterohexamer responsible for a sulfur relay reaction. In large numbers of proteobacterial species, this complex acts on a Cys-derived persulfide moiety, delivered by the cysteine desulfurase IscS to TusA, then to TusBCD. The activated sulfur group is then transferred to TusE (DsrC), then by MnmA (TrmU) for modification of an anticodon nucleotide in tRNAs for Glu, Lys, and Gln. The sulfur relay complex TusBCD is also found, under the designation DsrEFH, in phototrophic and chemotrophic sulfur bacteria, such as Chromatium vinosum. In these organisms, it seems the primary purpose is related to sulfur flux, such as oxidation from sulfide to molecular sulfur to sulfate.
Probab=23.63 E-value=1.6e+02 Score=17.15 Aligned_cols=28 Identities=11% Similarity=0.025 Sum_probs=21.5
Q ss_pred CCcchHHHHHHHHHhhhcccCCCcEEEEEee
Q 033982 6 ESEQSHYALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 6 gS~~S~~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
||+.+..+|+.|+..+... .++.++..-
T Consensus 12 g~~~~~e~l~~al~~aa~~---~eV~vff~~ 39 (116)
T TIGR03010 12 GTASGREGLDALLAASAFD---EDIGVFFID 39 (116)
T ss_pred CcchHHHHHHHHHHHHhcc---CCeEEEEec
Confidence 7888999999999877643 577777763
No 114
>PRK09732 hypothetical protein; Provisional
Probab=23.46 E-value=1.9e+02 Score=17.72 Aligned_cols=27 Identities=7% Similarity=0.086 Sum_probs=20.0
Q ss_pred HHHHHHHHHHHHHHHhcCCcEEEEEee
Q 033982 74 KLTLAFLQKVKDILSSQGVKAEMIVEV 100 (107)
Q Consensus 74 ~~~~~~l~~~~~~~~~~~v~~~~~v~~ 100 (107)
+.++++++.+.+.|++.|+.+...++.
T Consensus 10 ~~A~~~~~aA~~~A~~~g~~v~iaVvD 36 (134)
T PRK09732 10 QMASAIIAAGQEEAQKNNWSVSIAVAD 36 (134)
T ss_pred HHHHHHHHHHHHHHHHhCCCEEEEEEc
Confidence 345678888888888889887766543
No 115
>COG1737 RpiR Transcriptional regulators [Transcription]
Probab=23.31 E-value=1.2e+02 Score=20.84 Aligned_cols=33 Identities=18% Similarity=0.056 Sum_probs=25.8
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEee
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
+|++..|.+.+..++.+ +.|++.| ++++.+.-.
T Consensus 181 ~i~iS~sG~t~e~i~~a-~~ak~~g--a~vIaiT~~ 213 (281)
T COG1737 181 VIAISFSGYTREIVEAA-ELAKERG--AKVIAITDS 213 (281)
T ss_pred EEEEeCCCCcHHHHHHH-HHHHHCC--CcEEEEcCC
Confidence 47888998888887766 5778866 888888765
No 116
>TIGR03127 RuMP_HxlB 6-phospho 3-hexuloisomerase. Members of this protein family are 6-phospho 3-hexuloisomerase (PHI), or the PHI domain of a fusion protein. This enzyme is part of the ribulose monophosphate (RuMP) pathway, which in one direction removes the toxic metabolite formaldehyde by assimilation into fructose-6-phosphate. In the other direction, in species lacking a complete pentose phosphate pathway, the RuMP pathway yields ribulose-5-phosphate, necessary for nucleotide biosynthesis, at the cost of also yielding formaldehyde. These latter species tend usually have a formaldehyde-activating enzyme to attach formaldehyde to the C1 carrier tetrahydromethanopterin.
Probab=23.21 E-value=1.4e+02 Score=18.63 Aligned_cols=33 Identities=15% Similarity=0.132 Sum_probs=23.4
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEee
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
+|++..|-.+...++.+ +.|++.| ++++.+.-.
T Consensus 76 ~I~iS~sG~t~~~i~~~-~~ak~~g--~~ii~IT~~ 108 (179)
T TIGR03127 76 LIAISGSGETESLVTVA-KKAKEIG--ATVAAITTN 108 (179)
T ss_pred EEEEeCCCCcHHHHHHH-HHHHHCC--CeEEEEECC
Confidence 46778887777777665 4577766 888887754
No 117
>PF13989 YejG: YejG-like protein
Probab=23.01 E-value=1.7e+02 Score=17.19 Aligned_cols=30 Identities=13% Similarity=0.196 Sum_probs=20.7
Q ss_pred HHHHHHHHHHHHHHHhcCCcEEEEEeecCC
Q 033982 74 KLTLAFLQKVKDILSSQGVKAEMIVEVWDP 103 (107)
Q Consensus 74 ~~~~~~l~~~~~~~~~~~v~~~~~v~~Gdp 103 (107)
+.+.+++.++.+.+.+-.|++..+-.+|.|
T Consensus 49 ~~aw~im~~L~~sL~eiqv~~~vvE~eGep 78 (106)
T PF13989_consen 49 ESAWQIMQQLSQSLAEIQVDCAVVEWEGEP 78 (106)
T ss_pred hHHHHHHHHHHHHHHHhcccceEEEecCCc
Confidence 345567777777776666777777777877
No 118
>TIGR02810 agaZ_gatZ D-tagatose-bisphosphate aldolase, class II, non-catalytic subunit. Aldolases specific for D-tagatose-bisphosphate occur in distinct pathways in Escherichia coli and other bacteria, one for the degradation of galactitol (formerly dulcitol) and one for degradation of N-acetyl-galactosamine and D-galactosamine. This family represents a protein of both systems that behaves as a non-catalytic subunit of D-tagatose-bisphosphate aldolase, required both for full activity and for good stability of the aldolase. Note that members of this protein family appear in public databases annotated as putative tagatose 6-phosphate kinases, possibly in error.
Probab=22.91 E-value=3.3e+02 Score=20.32 Aligned_cols=33 Identities=12% Similarity=0.058 Sum_probs=23.1
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCc
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQPPTKSE 42 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~ 42 (107)
..+...++-|++.++..+ ..|.+.-..++....
T Consensus 20 sahp~VieAAl~~a~~~~--~pvLiEAT~NQVnq~ 52 (420)
T TIGR02810 20 SAHPLVLEAAIRRARASG--TPVLIEATSNQVNQF 52 (420)
T ss_pred CCCHHHHHHHHHHHhhcC--CcEEEEecccccccc
Confidence 356778888999999865 777776665554433
No 119
>COG1746 CCA1 tRNA nucleotidyltransferase (CCA-adding enzyme) [Translation, ribosomal structure and biogenesis]
Probab=22.82 E-value=3.3e+02 Score=20.40 Aligned_cols=31 Identities=16% Similarity=0.473 Sum_probs=24.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhcCCcEEEEEe
Q 033982 69 EEKQRKLTLAFLQKVKDILSSQGVKAEMIVE 99 (107)
Q Consensus 69 ~~~~~~~~~~~l~~~~~~~~~~~v~~~~~v~ 99 (107)
.+..++.++++.+++.+.+++.|++++..++
T Consensus 21 ~~~~~~~~e~l~~~~~~~~~e~~~~aev~lV 51 (443)
T COG1746 21 RKKLKEVAEELRERINEIIEELGIDAEVVLV 51 (443)
T ss_pred HHHHHHHHHHHHHHHHHHHHhcCCcceEEEE
Confidence 4556677788888999999989998887655
No 120
>PF13662 Toprim_4: Toprim domain; PDB: 1EQN_E 1DD9_A 3B39_B 1DDE_A.
Probab=22.68 E-value=82 Score=16.92 Aligned_cols=22 Identities=18% Similarity=0.208 Sum_probs=14.8
Q ss_pred eeecCCcchHHHHHHHHHhhhc
Q 033982 2 VAIDESEQSHYALMWVLDNLKE 23 (107)
Q Consensus 2 VavDgS~~S~~Al~~A~~~a~~ 23 (107)
+++|.....+.+..+..+....
T Consensus 51 i~~D~D~~G~~~a~~i~~~l~~ 72 (81)
T PF13662_consen 51 IAFDNDKAGEKAAQKIAKKLLP 72 (81)
T ss_dssp EEEESSHHHHHHHHHHHHHHG-
T ss_pred EEeCcCHHHHHHHHHHHHHHHh
Confidence 5677777777777777765554
No 121
>COG1490 Dtd D-Tyr-tRNAtyr deacylase [Translation, ribosomal structure and biogenesis]
Probab=22.68 E-value=1.5e+02 Score=18.52 Aligned_cols=22 Identities=18% Similarity=0.306 Sum_probs=15.0
Q ss_pred HHHHHHHHHHHHHHhcCCcEEE
Q 033982 75 LTLAFLQKVKDILSSQGVKAEM 96 (107)
Q Consensus 75 ~~~~~l~~~~~~~~~~~v~~~~ 96 (107)
.++++.+.+.+.|++.++++++
T Consensus 101 ~A~~lYe~f~~~lr~~~~~V~t 122 (145)
T COG1490 101 QAEELYEYFVELLRELGIKVET 122 (145)
T ss_pred HHHHHHHHHHHHHHhcCCccee
Confidence 4566777777777777776553
No 122
>PRK15458 tagatose 6-phosphate aldolase subunit KbaZ; Provisional
Probab=22.53 E-value=3.4e+02 Score=20.31 Aligned_cols=33 Identities=12% Similarity=-0.000 Sum_probs=22.8
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCc
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQPPTKSE 42 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~ 42 (107)
..+...++-|++.++..+ ..|.|.-..++....
T Consensus 24 sahp~VieAAl~~a~~~~--~pvLiEAT~NQVnq~ 56 (426)
T PRK15458 24 SAHPLVLEAAIRYALAND--SPLLIEATSNQVDQF 56 (426)
T ss_pred CCCHHHHHHHHHHHhhcC--CcEEEEecccccccc
Confidence 346678888899998865 777776665554433
No 123
>COG3193 GlcG Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]
Probab=22.39 E-value=2.1e+02 Score=17.86 Aligned_cols=25 Identities=16% Similarity=0.123 Sum_probs=18.3
Q ss_pred HHHHHHHHHHHHHHhcCCcEEEEEe
Q 033982 75 LTLAFLQKVKDILSSQGVKAEMIVE 99 (107)
Q Consensus 75 ~~~~~l~~~~~~~~~~~v~~~~~v~ 99 (107)
.+.++++.+...|++.++.+..-++
T Consensus 12 ~a~~ii~aA~a~a~~~g~~VtvaVV 36 (141)
T COG3193 12 LANKIIAAAVAEAQQLGVPVTVAVV 36 (141)
T ss_pred HHHHHHHHHHHHHHHhCCceEEEEE
Confidence 3467777888888888888776554
No 124
>PRK10696 tRNA 2-thiocytidine biosynthesis protein TtcA; Provisional
Probab=22.36 E-value=1.6e+02 Score=19.84 Aligned_cols=36 Identities=22% Similarity=0.226 Sum_probs=23.7
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEee
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
+||+-|-..|...+.+..++..+.+.+-++..+|+-
T Consensus 33 lVa~SGG~DS~~LL~ll~~l~~~~~~~~~l~av~vd 68 (258)
T PRK10696 33 MVCLSGGKDSYTLLDILLNLQKRAPINFELVAVNLD 68 (258)
T ss_pred EEEecCCHHHHHHHHHHHHHHHhCCCCeEEEEEEec
Confidence 477888888887777776654443212467888874
No 125
>PRK15052 D-tagatose-1,6-bisphosphate aldolase subunit GatZ; Provisional
Probab=22.18 E-value=3.4e+02 Score=20.24 Aligned_cols=33 Identities=9% Similarity=-0.097 Sum_probs=23.2
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCc
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFMAQPPTKSE 42 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~ 42 (107)
..+...++-|++.++..+ ..|.+.-..++....
T Consensus 21 sahp~VieAAl~~a~~~~--~pvLiEAT~NQVdq~ 53 (421)
T PRK15052 21 SAHPLVIEAALAFDLNST--RKVLIEATSNQVNQF 53 (421)
T ss_pred CCCHHHHHHHHHHHhhcC--CcEEEEecccccccc
Confidence 356778888999999865 777776665554433
No 126
>PF08013 Tagatose_6_P_K: Tagatose 6 phosphate kinase; InterPro: IPR012062 Escherichia coli and other enteric bacteria contain two closely related D-tagatose 1,6-bisphosphate (TagBP)-specific aldolases involved in catabolism of galactitol (genes gatY gatZ) and of N-acetyl-galactosamine and D-galactosamine (genes kbaY, kbaZ, also called agaY, agaZ). The catalytic subunits GatY/KbaY alone are sufficient to show aldolase activity and contain most or all of the residues that have been identified as essential in substrate/product recognition and catalysis for class II aldolases [, ]. However, these aldolases differ from other Class II aldolases (which are homodimeric enzymes) in that they require subunits GatZ/KbaZ for full activity and for good in vivo and in vitro stability. The Z subunits alone do not show any aldolase activity []. It should be noted that the previous suggestion of a tagatose 6P-kinase function for AgaZ [] and other members of this family turned out to be erroneous [, ].; GO: 0019402 galactitol metabolic process; PDB: 2FIQ_A 3TXV_A.
Probab=22.11 E-value=3.2e+02 Score=20.38 Aligned_cols=32 Identities=16% Similarity=0.115 Sum_probs=20.8
Q ss_pred chHHHHHHHHHhhhcccCCCcEEEEEeeCCCCCc
Q 033982 9 QSHYALMWVLDNLKESISKFPLIIFMAQPPTKSE 42 (107)
Q Consensus 9 ~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~~~~ 42 (107)
.+...++-|+..|+..+ ..|.|--..++...+
T Consensus 25 ahp~VieAAl~~a~~~~--~pvLiEAT~NQVnq~ 56 (424)
T PF08013_consen 25 AHPLVIEAALERAKEDD--SPVLIEATSNQVNQF 56 (424)
T ss_dssp --HHHHHHHHHHCCCS---S-EEEEEETTTCSTT
T ss_pred CCHHHHHHHHHHHHhcC--CeEEEEecccccccc
Confidence 45678999999999865 777776666655443
No 127
>COG0648 Nfo Endonuclease IV [DNA replication, recombination, and repair]
Probab=22.07 E-value=1e+02 Score=21.44 Aligned_cols=25 Identities=24% Similarity=0.222 Sum_probs=22.2
Q ss_pred cchHHHHHHHHHhhhcccCCCcEEEEE
Q 033982 8 EQSHYALMWVLDNLKESISKFPLIIFM 34 (107)
Q Consensus 8 ~~S~~Al~~A~~~a~~~g~~~~l~llh 34 (107)
+.|...|.+.++.+...| +...++|
T Consensus 83 ekS~~~l~~e~~r~~~lG--~~~lv~H 107 (280)
T COG0648 83 EKSIERLIDEIDRCEQLG--AKLLVFH 107 (280)
T ss_pred HHHHHHHHHHHHHHHHcC--CcEEEEC
Confidence 468899999999999987 8888888
No 128
>PF03358 FMN_red: NADPH-dependent FMN reductase; InterPro: IPR005025 NADPH-dependent FMN reductase (1.5.1.29 from EC) reduces FMN and also reduces riboflavin and FAD, although more slowly. Members of this entry catalyse the reaction NAD(P)H + FMN = NAD(P)(+) + FMNH(2).; PDB: 3SVL_B 3GFS_F 3GFQ_A 1NNI_1 2GSW_B 3GFR_D 1T0I_B 3D7N_A 2R97_A 3B6K_A ....
Probab=21.73 E-value=1.4e+02 Score=17.91 Aligned_cols=35 Identities=14% Similarity=0.040 Sum_probs=27.2
Q ss_pred eeecCCc----chHHHHHHHHHhhhcccCCCcEEEEEeeCC
Q 033982 2 VAIDESE----QSHYALMWVLDNLKESISKFPLIIFMAQPP 38 (107)
Q Consensus 2 VavDgS~----~S~~Al~~A~~~a~~~g~~~~l~llhV~~~ 38 (107)
+.+-||. ++.+.++++.+.++..| .++.+++..+.
T Consensus 4 lii~gS~r~~~~t~~l~~~~~~~l~~~g--~e~~~i~l~~~ 42 (152)
T PF03358_consen 4 LIINGSPRKNSNTRKLAEAVAEQLEEAG--AEVEVIDLADY 42 (152)
T ss_dssp EEEESSSSTTSHHHHHHHHHHHHHHHTT--EEEEEEECTTS
T ss_pred EEEECcCCCCCHHHHHHHHHHHHHHHcC--CEEEEEecccc
Confidence 4567775 58889999999998865 88999987543
No 129
>PRK11302 DNA-binding transcriptional regulator HexR; Provisional
Probab=21.69 E-value=1.3e+02 Score=20.30 Aligned_cols=32 Identities=13% Similarity=0.148 Sum_probs=24.2
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEe
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMA 35 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV 35 (107)
++++..|..+...++ +++.|++.| ++++++.-
T Consensus 179 vI~iS~sG~t~~~~~-~~~~ak~~g--~~vI~IT~ 210 (284)
T PRK11302 179 VVLISHTGRTKSLVE-LAQLARENG--ATVIAITS 210 (284)
T ss_pred EEEEeCCCCCHHHHH-HHHHHHHcC--CeEEEECC
Confidence 467788888877666 667788876 88888884
No 130
>PF04748 Polysacc_deac_2: Divergent polysaccharide deacetylase; InterPro: IPR006837 This is a family of uncharacterised proteins that includes YibQ.; PDB: 2QV5_A 2NLY_A.
Probab=21.60 E-value=1.3e+02 Score=19.92 Aligned_cols=26 Identities=12% Similarity=-0.053 Sum_probs=18.9
Q ss_pred hHHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 10 SHYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 10 S~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
=++-|+.+...|++.| .-|.|-|..+
T Consensus 160 I~~ql~~~~~~A~~~G--~aI~Igh~~p 185 (213)
T PF04748_consen 160 IRRQLDQAARIARKQG--SAIAIGHPRP 185 (213)
T ss_dssp HHHHHHHHHHHHHCCS--EEEEEEE-SC
T ss_pred HHHHHHHHHHhhhhcC--cEEEEEcCCH
Confidence 3566788889999876 6788888654
No 131
>PRK00211 sulfur relay protein TusC; Validated
Probab=21.30 E-value=1.8e+02 Score=17.26 Aligned_cols=28 Identities=11% Similarity=0.046 Sum_probs=21.0
Q ss_pred CCcchHHHHHHHHHhhhcccCCCcEEEEEee
Q 033982 6 ESEQSHYALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 6 gS~~S~~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
||+.++.||+.|+..+... .++.++..-
T Consensus 14 g~~~~~eaLd~ala~~a~~---~~v~vff~~ 41 (119)
T PRK00211 14 GTASGREGLDALLATSAFT---EDIGVFFID 41 (119)
T ss_pred CCHHHHHHHHHHHHHhccc---CCeeEEEEh
Confidence 7888999999999876642 367777663
No 132
>cd01317 DHOase_IIa Dihydroorotase (DHOase), subgroup IIa; DHOases catalyze the reversible interconversion of carbamoyl aspartate to dihydroorotate, a key reaction in pyrimidine biosynthesis. This subgroup also contains proteins that lack the active site, like unc-33, a C.elegans protein involved in axon growth.
Probab=21.27 E-value=1.1e+02 Score=21.69 Aligned_cols=24 Identities=4% Similarity=-0.157 Sum_probs=20.5
Q ss_pred HHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 12 YALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 12 ~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
.++..++++|++.+ .++++.|+..
T Consensus 172 ~~v~~~~~la~~~~--~~i~i~h~ss 195 (374)
T cd01317 172 IMVARDLELAEATG--ARVHFQHLST 195 (374)
T ss_pred HHHHHHHHHHHHhC--CcEEEEeCCC
Confidence 48889999999976 9999999853
No 133
>KOG2904 consensus Predicted methyltransferase [General function prediction only]
Probab=21.22 E-value=1.2e+02 Score=21.46 Aligned_cols=31 Identities=19% Similarity=0.093 Sum_probs=22.6
Q ss_pred eeecCCcchHHHHHHHHHhhhcccCCCcEEEEEe
Q 033982 2 VAIDESEQSHYALMWVLDNLKESISKFPLIIFMA 35 (107)
Q Consensus 2 VavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV 35 (107)
.|||- |++|+.-|.+|+++.+-...+-+.|-
T Consensus 176 ~AiD~---S~~Ai~La~eN~qr~~l~g~i~v~~~ 206 (328)
T KOG2904|consen 176 TAIDV---SKAAIKLAKENAQRLKLSGRIEVIHN 206 (328)
T ss_pred EEEec---cHHHHHHHHHHHHHHhhcCceEEEec
Confidence 45665 56788888899888665567777765
No 134
>TIGR03399 RNA_3prim_cycl RNA 3'-phosphate cyclase. Members of this protein family are RNA 3'-phosphate cyclase (6.5.1.4), an enzyme whose function is conserved from E. coli to human. The modification this enzyme performs enables certain RNA ligations to occur, although the full biological roll for this enzyme is not fully described. This model separates this enzyme from a related protein, present only in eukaryotes, localized to the nucleolus, and involved in ribosomal modification.
Probab=21.04 E-value=2.2e+02 Score=20.23 Aligned_cols=35 Identities=23% Similarity=0.115 Sum_probs=30.3
Q ss_pred eecCC--cchHHHHHHHHHhhhcccCCCcEEEEEeeCCC
Q 033982 3 AIDES--EQSHYALMWVLDNLKESISKFPLIIFMAQPPT 39 (107)
Q Consensus 3 avDgS--~~S~~Al~~A~~~a~~~g~~~~l~llhV~~~~ 39 (107)
-+||| |..=.-|+.++.++.-.| -++.|-++....
T Consensus 2 ~iDGs~~eGGGQilR~alaLS~ltg--kpv~I~nIR~~R 38 (326)
T TIGR03399 2 EIDGSYGEGGGQILRTALSLSALTG--KPVRIYNIRANR 38 (326)
T ss_pred EecCCCccCcHHHHHHHHHHHHhhC--CCEEEEEeccCC
Confidence 48999 999999999999999866 899999997443
No 135
>cd03027 GRX_DEP Glutaredoxin (GRX) family, Dishevelled, Egl-10, and Pleckstrin (DEP) subfamily; composed of uncharacterized proteins containing a GRX domain and additional domains DEP and DUF547, both of which have unknown functions. GRX is a glutathione (GSH) dependent reductase containing a redox active CXXC motif in a TRX fold. It has preference for mixed GSH disulfide substrates, in which it uses a monothiol mechanism where only the N-terminal cysteine is required. By altering the redox state of target proteins, GRX is involved in many cellular functions.
Probab=21.02 E-value=1.4e+02 Score=15.40 Aligned_cols=18 Identities=17% Similarity=0.027 Sum_probs=9.4
Q ss_pred HHHHHhcCCcEEEEEeec
Q 033982 84 KDILSSQGVKAEMIVEVW 101 (107)
Q Consensus 84 ~~~~~~~~v~~~~~v~~G 101 (107)
++.+++.|++++.+-+..
T Consensus 18 ~~~L~~~gi~~~~~di~~ 35 (73)
T cd03027 18 RLFLREKGLPYVEINIDI 35 (73)
T ss_pred HHHHHHCCCceEEEECCC
Confidence 333344677766554433
No 136
>TIGR00168 infC translation initiation factor IF-3. render its expression particularly sensitive to excess of its gene product IF-3 thereby regulating its own expression
Probab=20.94 E-value=98 Score=19.68 Aligned_cols=32 Identities=9% Similarity=0.099 Sum_probs=22.5
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEE
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFM 34 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llh 34 (107)
||.-||+....--+..|+.+|...| -.|+.+.
T Consensus 12 li~~dG~~lgv~~~~eAl~~A~~~~--lDLVev~ 43 (165)
T TIGR00168 12 LIDENGEQLGIVSREEALEIAEEAG--LDLVLIS 43 (165)
T ss_pred EECCCCcCCCcccHHHHHHHHHHcC--CcEEEEC
Confidence 4566888777778889999998854 4444443
No 137
>PF10672 Methyltrans_SAM: S-adenosylmethionine-dependent methyltransferase; InterPro: IPR019614 Members of this entry are S-adenosylmethionine-dependent methyltransferases from gamma-proteobacterial species. The diversity in the roles of methylation is matched by the almost bewildering number of methyltransferase enzymes that catalyse the methylation reaction. Although several classes of methyltransferase enzymes are known, the great majority of methylation reactions are catalysed by the S-adenosylmethionine-dependent methyltransferases. SAM (S-adenosylmethionine, also known as AdoMet) is well known as the methyl donor for the majority of methyltransferases that modify DNA, RNA, histones and other proteins, dictating replicational, transcriptional and translational fidelity, mismatch repair, chromatin modelling, epigenetic modifications and imprinting [].; GO: 0008168 methyltransferase activity; PDB: 2IGT_B 1WXX_A 1WXW_D 2CWW_B 2AS0_B 3V8V_B 3V97_A 3C0K_A 2B78_A 3LDF_A.
Probab=20.78 E-value=77 Score=22.06 Aligned_cols=21 Identities=33% Similarity=0.455 Sum_probs=15.6
Q ss_pred eeecCCcchHHHHHHHHHhhhccc
Q 033982 2 VAIDESEQSHYALMWVLDNLKESI 25 (107)
Q Consensus 2 VavDgS~~S~~Al~~A~~~a~~~g 25 (107)
+.||. |..|++||.++++..|
T Consensus 150 ~~VD~---S~~al~~a~~N~~lNg 170 (286)
T PF10672_consen 150 VSVDS---SKRALEWAKENAALNG 170 (286)
T ss_dssp EEEES----HHHHHHHHHHHHHTT
T ss_pred EEEeC---CHHHHHHHHHHHHHcC
Confidence 34554 7889999999998865
No 138
>PF00120 Gln-synt_C: Glutamine synthetase, catalytic domain; InterPro: IPR008146 Glutamine synthetase (6.3.1.2 from EC) (GS) [] plays an essential role in the metabolism of nitrogen by catalyzing the condensation of glutamate and ammonia to form glutamine. There seem to be three different classes of GS [, , ]: Class I enzymes (GSI) are specific to prokaryotes, and are oligomers of 12 identical subunits. The activity of GSI-type enzyme is controlled by the adenylation of a tyrosine residue. The adenylated enzyme is inactive (see IPR001637 from INTERPRO). Class II enzymes (GSII) are found in eukaryotes and in bacteria belonging to the Rhizobiaceae, Frankiaceae, and Streptomycetaceae families (these bacteria have also a class-I GS). GSII are octamer of identical subunits. Plants have two or more isozymes of GSII, one of the isozymes is translocated into the chloroplast. Class III enzymes (GSIII) have been found in Bacteroides fragilis. in Butyrivibrio fibrisolvens. It is a hexamer of identical chains and in some protozoa. It is much larger (about 700 amino acids) than the GSI (450 to 470 amino acids) or GSII (350 to 420 amino acids) enzymes. While the three classes of GS's are clearly structurally related, the sequence similarities are not so extensive.; GO: 0004356 glutamate-ammonia ligase activity, 0006807 nitrogen compound metabolic process; PDB: 2J9I_E 3ZXV_D 1HTQ_D 1HTO_F 2BVC_F 2WGS_G 3ZXR_B 2WHI_D 3NG0_A 1LGR_C ....
Probab=20.70 E-value=2.3e+02 Score=19.06 Aligned_cols=30 Identities=27% Similarity=0.385 Sum_probs=20.4
Q ss_pred HHHHHHHHHHHHHhcCCcEEEEEeecCCCC
Q 033982 76 TLAFLQKVKDILSSQGVKAEMIVEVWDPTM 105 (107)
Q Consensus 76 ~~~~l~~~~~~~~~~~v~~~~~v~~Gdp~~ 105 (107)
.+.++++..+.|.+.||+++..-.+.-|++
T Consensus 67 ~~~~~~~i~~~l~~~Gi~ve~~h~E~gpgQ 96 (259)
T PF00120_consen 67 GEDFLEEIVDALEQAGIPVEQIHHEVGPGQ 96 (259)
T ss_dssp THHHHHHHHHHHHHCT--EEEEEEESSTTE
T ss_pred HHHHHHHHHHHHHHhhccccccccccchHh
Confidence 356777777888889999988766665653
No 139
>PF12120 Arr-ms: Rifampin ADP-ribosyl transferase; InterPro: IPR021975 This domain is part of the beta subunit of bacterial DNA dependent RNA polymerase. This domain is the binding site for the antibacterial drug rifampin (and its analogues) which blocks the DNA/RNA tunnel and prevents initiation of transcription. ; PDB: 2HW2_A.
Probab=20.70 E-value=1.5e+02 Score=17.17 Aligned_cols=23 Identities=13% Similarity=0.047 Sum_probs=13.9
Q ss_pred hHHHHHHHHHhhhcccCCCcEEEE
Q 033982 10 SHYALMWVLDNLKESISKFPLIIF 33 (107)
Q Consensus 10 S~~Al~~A~~~a~~~g~~~~l~ll 33 (107)
...+.-|+.++|.-.|. .++.+|
T Consensus 38 ~ld~A~w~AELA~G~g~-~RiYiV 60 (100)
T PF12120_consen 38 TLDAAIWGAELAAGEGR-GRIYIV 60 (100)
T ss_dssp BHHHHHHHHHHS-SSS---EEEEE
T ss_pred ccchhHHHHHHhcCCCC-CcEEEE
Confidence 35678899999997652 344443
No 140
>PRK06189 allantoinase; Provisional
Probab=20.47 E-value=1.2e+02 Score=22.25 Aligned_cols=25 Identities=20% Similarity=0.066 Sum_probs=20.3
Q ss_pred HHHHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 11 HYALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 11 ~~Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
..+++.++.+|+..| .++++.|+..
T Consensus 218 ~~~v~~~l~la~~~g--~~~hi~HiSt 242 (451)
T PRK06189 218 LEAVQRALLYAQETG--CPLHFVHISS 242 (451)
T ss_pred HHHHHHHHHHHHHhC--CCEEEEECCC
Confidence 457888899998866 8999999853
No 141
>PF02110 HK: Hydroxyethylthiazole kinase family; InterPro: IPR000417 Thiamine pyrophosphate (TPP), a required cofactor for many enzymes in the cell, is synthesised de novo in Salmonella typhimurium []. Five kinase activities have been implicated in TPP synthesis, which involves joining a 4-methyl-5-(beta-hydroxyethyl)thiazole (THZ) moiety and a 4-amino-5- hydroxymethyl-2-methylpyrimidine (HMP) moiety [, ]. THZ kinase (2.7.1.50 from EC) activity is involved in the salvage synthesis of TH-P from the thiazole: 2-methyl-4-amino-5-hydroxymethylpyrimidine diphosphate + 4-4-methyl-5-(2-phosphonooxyethyl)-thiazole = pyrophosphate + thiamin monophosphate Hydroxyethylthiazole kinase expression is regulated at the mRNA level by intracellular thiamin pyrophosphate [].; GO: 0004417 hydroxyethylthiazole kinase activity, 0009228 thiamine biosynthetic process; PDB: 1EKK_A 1ESQ_C 1C3Q_B 1ESJ_A 1EKQ_B 3HPD_A 3DZV_A 3NL5_A 3NL2_A 3NM1_A ....
Probab=20.43 E-value=1.3e+02 Score=20.54 Aligned_cols=29 Identities=7% Similarity=0.078 Sum_probs=22.7
Q ss_pred eecCCcchHHHHHHHHHhhhcccCCCcEEEEE
Q 033982 3 AIDESEQSHYALMWVLDNLKESISKFPLIIFM 34 (107)
Q Consensus 3 avDgS~~S~~Al~~A~~~a~~~g~~~~l~llh 34 (107)
+||.......+++.+.++|++++ .++++.
T Consensus 130 GVDs~~~~~~~~~~a~~lA~k~~---~vVvvT 158 (246)
T PF02110_consen 130 GVDSGDSDEDAIEAAKQLAQKYN---CVVVVT 158 (246)
T ss_dssp SSSSSCGSHHHHHHHHHHHHHTT---SEEEEE
T ss_pred CcCcCCcchHHHHHHHHHHHhcC---CEEEEe
Confidence 68888888889999999999975 354443
No 142
>PHA02998 RNA polymerase subunit; Provisional
Probab=20.34 E-value=67 Score=20.92 Aligned_cols=21 Identities=19% Similarity=0.465 Sum_probs=17.1
Q ss_pred ecCCcchHHHHHHHHHhhhcc
Q 033982 4 IDESEQSHYALMWVLDNLKES 24 (107)
Q Consensus 4 vDgS~~S~~Al~~A~~~a~~~ 24 (107)
||.+.....-++||.+.|.++
T Consensus 18 v~~~~~~~~l~~wa~~~a~~~ 38 (195)
T PHA02998 18 VDDEAEAEDLLKWATDKASKY 38 (195)
T ss_pred cCcHHHHHHHHHHHHhhhhHH
Confidence 566678889999999988764
No 143
>cd01316 CAD_DHOase The eukaryotic CAD protein is a trifunctional enzyme of carbamoylphosphate synthetase-aspartate transcarbamoylase-dihydroorotase, which catalyzes the first three steps of de novo pyrimidine nucleotide biosynthesis. Dihydroorotase (DHOase) catalyzes the third step, the reversible interconversion of carbamoyl aspartate to dihydroorotate.
Probab=20.30 E-value=1.1e+02 Score=21.68 Aligned_cols=23 Identities=17% Similarity=-0.081 Sum_probs=17.4
Q ss_pred HHHHHHHhhhcccCCCcEEEEEeeC
Q 033982 13 ALMWVLDNLKESISKFPLIIFMAQP 37 (107)
Q Consensus 13 Al~~A~~~a~~~g~~~~l~llhV~~ 37 (107)
.+..++.+++..| ++|++.|+-.
T Consensus 136 ~~~~~l~la~~~g--~~lhi~HiSt 158 (344)
T cd01316 136 TLAAVLLLASLHN--RSIHICHVSS 158 (344)
T ss_pred HHHHHHHHHHHHC--CCEEEEeCCC
Confidence 3445688888865 9999999953
No 144
>PRK09997 hydroxypyruvate isomerase; Provisional
Probab=20.27 E-value=2.7e+02 Score=18.43 Aligned_cols=21 Identities=5% Similarity=-0.211 Sum_probs=15.8
Q ss_pred HHHHHHHHHhhhcccCCCcEEEE
Q 033982 11 HYALMWVLDNLKESISKFPLIIF 33 (107)
Q Consensus 11 ~~Al~~A~~~a~~~g~~~~l~ll 33 (107)
...++.+++.|+..| ++.+.+
T Consensus 84 ~~~~~~~i~~a~~lg--a~~i~~ 104 (258)
T PRK09997 84 RDGVAAAIRYARALG--NKKINC 104 (258)
T ss_pred HHHHHHHHHHHHHhC--CCEEEE
Confidence 455789999999987 776544
No 145
>PF01380 SIS: SIS domain SIS domain web page.; InterPro: IPR001347 The SIS (Sugar ISomerase) domain is a phosphosugar-binding domain [] found in many phosphosugar isomerases and phosphosugar binding proteins. SIS domains are also found in proteins that regulate the expression of genes involved in synthesis of phosphosugars possibly by binding to the end-product of the pathway.; GO: 0005529 sugar binding, 0005975 carbohydrate metabolic process; PDB: 3TBF_C 2V4M_A 2ZJ4_A 2ZJ3_A 3FKJ_A 3ODP_A 3EUA_H 1VIV_A 1M3S_B 1TZB_A ....
Probab=20.13 E-value=1.8e+02 Score=16.65 Aligned_cols=33 Identities=18% Similarity=0.210 Sum_probs=23.0
Q ss_pred CeeecCCcchHHHHHHHHHhhhcccCCCcEEEEEee
Q 033982 1 MVAIDESEQSHYALMWVLDNLKESISKFPLIIFMAQ 36 (107)
Q Consensus 1 lVavDgS~~S~~Al~~A~~~a~~~g~~~~l~llhV~ 36 (107)
++.+..|..+..-++..- .|++.| .+++++...
T Consensus 57 vi~is~sg~~~~~~~~~~-~ak~~g--~~vi~iT~~ 89 (131)
T PF01380_consen 57 VIIISYSGETRELIELLR-FAKERG--APVILITSN 89 (131)
T ss_dssp EEEEESSSTTHHHHHHHH-HHHHTT--SEEEEEESS
T ss_pred eEeeeccccchhhhhhhH-HHHhcC--CeEEEEeCC
Confidence 355667777777776665 788866 788777654
Done!