Query psy1207
Match_columns 113
No_of_seqs 120 out of 742
Neff 4.4
Searched_HMMs 46136
Date Fri Aug 16 17:52:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1207.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1207hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PRK03980 flap endonuclease-1; 99.9 5.9E-26 1.3E-30 183.3 11.3 89 2-105 57-145 (292)
2 TIGR03674 fen_arch flap struct 99.9 6.3E-25 1.4E-29 179.7 11.1 90 2-106 104-193 (338)
3 PTZ00217 flap endonuclease-1; 99.9 5.5E-25 1.2E-29 183.8 10.8 87 2-103 112-198 (393)
4 KOG2518|consensus 99.9 5.8E-24 1.3E-28 184.0 7.8 91 2-107 102-192 (556)
5 cd00128 XPG Xeroderma pigmento 99.9 2.9E-23 6.2E-28 166.2 10.9 88 3-105 103-190 (316)
6 TIGR00600 rad2 DNA excision re 99.9 2E-23 4.3E-28 191.1 9.4 83 14-112 758-840 (1034)
7 smart00484 XPGI Xeroderma pigm 99.9 1.1E-23 2.3E-28 141.0 5.3 55 38-107 1-55 (73)
8 PF00867 XPG_I: XPG I-region; 99.9 1.2E-23 2.7E-28 143.9 3.8 50 38-102 1-50 (94)
9 KOG2519|consensus 99.9 5.9E-23 1.3E-27 174.9 5.0 96 2-112 106-203 (449)
10 KOG2520|consensus 99.8 1.5E-21 3.2E-26 175.4 5.9 76 19-109 457-532 (815)
11 smart00475 53EXOc 5'-3' exonuc 98.7 3.6E-08 7.7E-13 78.8 6.7 55 30-99 86-145 (259)
12 COG0258 Exo 5'-3' exonuclease 98.7 1.6E-08 3.4E-13 81.5 4.1 75 8-100 83-158 (310)
13 cd00008 53EXOc 5'-3' exonuclea 98.6 1E-07 2.3E-12 74.7 6.6 54 28-96 85-143 (240)
14 PF12813 XPG_I_2: XPG domain c 98.5 4.2E-07 9.2E-12 72.1 6.3 51 28-94 4-57 (246)
15 PRK05755 DNA polymerase I; Pro 98.1 6.2E-06 1.4E-10 74.9 6.4 55 28-97 86-145 (880)
16 PRK14976 5'-3' exonuclease; Pr 98.1 1.1E-05 2.5E-10 65.1 6.5 55 28-97 90-149 (281)
17 TIGR00593 pola DNA polymerase 97.9 2.5E-05 5.3E-10 71.9 6.2 53 30-97 86-143 (887)
18 PRK09482 flap endonuclease-lik 96.3 0.012 2.6E-07 47.6 5.9 47 30-91 86-137 (256)
19 PHA00439 exonuclease 91.1 0.63 1.4E-05 38.5 5.8 52 27-93 96-153 (286)
20 PHA02567 rnh RnaseH; Provision 91.1 0.62 1.4E-05 38.9 5.8 47 31-92 110-161 (304)
21 PF02739 5_3_exonuc_N: 5'-3' e 90.4 0.34 7.5E-06 36.4 3.4 53 29-95 87-143 (169)
22 PRK00124 hypothetical protein; 87.9 1.7 3.7E-05 32.9 5.6 57 29-87 12-76 (151)
23 cd03041 GST_N_2GST_N GST_N fam 87.1 1.2 2.6E-05 28.3 3.9 62 29-102 12-74 (77)
24 TIGR00321 dhys deoxyhypusine s 86.5 5.4 0.00012 33.2 8.3 69 11-89 12-84 (301)
25 PRK00805 putative deoxyhypusin 86.3 4.2 9.2E-05 34.3 7.6 78 9-96 11-97 (329)
26 PRK02492 deoxyhypusine synthas 85.4 4.9 0.00011 34.1 7.6 77 10-96 24-110 (347)
27 PF03159 XRN_N: XRN 5'-3' exon 82.9 0.96 2.1E-05 36.1 2.3 33 62-94 182-223 (237)
28 PRK03971 putative deoxyhypusin 82.1 11 0.00023 31.9 8.3 68 11-88 30-104 (334)
29 PRK02301 putative deoxyhypusin 81.8 9.8 0.00021 31.9 7.9 76 11-96 24-108 (316)
30 cd01422 MGS Methylglyoxal synt 79.1 4.4 9.5E-05 28.5 4.4 37 37-85 40-77 (115)
31 PF08544 GHMP_kinases_C: GHMP 78.8 7.8 0.00017 24.4 5.1 70 4-77 2-83 (85)
32 PF10454 DUF2458: Protein of u 74.6 2.4 5.2E-05 31.9 2.1 39 11-49 88-126 (150)
33 PRK01221 putative deoxyhypusin 72.6 23 0.0005 29.7 7.6 70 11-89 21-93 (312)
34 cd08556 GDPD Glycerophosphodie 72.2 8 0.00017 27.5 4.3 40 31-86 150-189 (189)
35 cd00532 MGS-like MGS-like doma 67.9 8.7 0.00019 26.5 3.6 38 35-85 36-75 (112)
36 PRK00770 deoxyhypusine synthas 67.8 24 0.00053 30.3 6.9 67 11-88 19-90 (384)
37 COG0788 PurU Formyltetrahydrof 67.1 12 0.00027 31.3 4.8 44 31-83 128-171 (287)
38 PRK00994 F420-dependent methyl 66.7 15 0.00032 30.5 5.2 48 32-96 78-125 (277)
39 cd01424 MGS_CPS_II Methylglyox 60.4 22 0.00048 24.0 4.4 37 36-85 38-74 (110)
40 smart00088 PINT motif in prote 58.4 26 0.00056 22.5 4.3 32 65-96 40-71 (88)
41 smart00753 PAM PCI/PINT associ 58.4 26 0.00056 22.5 4.3 32 65-96 40-71 (88)
42 PF02639 DUF188: Uncharacteriz 58.1 15 0.00032 26.8 3.5 53 33-87 2-60 (130)
43 PF01399 PCI: PCI domain; Int 57.9 23 0.0005 22.7 4.0 32 62-93 73-104 (105)
44 COG1899 DYS1 Deoxyhypusine syn 55.7 68 0.0015 27.3 7.4 68 12-88 22-92 (318)
45 cd08555 PI-PLCc_GDPD_SF Cataly 55.3 26 0.00056 25.7 4.4 41 26-86 138-179 (179)
46 TIGR00305 probable toxin-antit 54.4 50 0.0011 22.3 5.4 29 63-91 85-113 (114)
47 cd08568 GDPD_TmGDE_like Glycer 54.3 36 0.00077 25.8 5.1 42 31-89 184-225 (226)
48 TIGR00114 lumazine-synth 6,7-d 54.0 37 0.00081 25.1 5.0 46 24-84 13-65 (138)
49 PRK05234 mgsA methylglyoxal sy 53.6 21 0.00045 26.3 3.6 20 66-85 63-82 (142)
50 COG0655 WrbA Multimeric flavod 53.4 25 0.00055 26.5 4.1 66 23-102 13-91 (207)
51 PF06792 UPF0261: Uncharacteri 52.6 45 0.00097 29.0 6.0 50 22-84 192-241 (403)
52 cd08562 GDPD_EcUgpQ_like Glyce 52.4 28 0.0006 25.9 4.2 39 32-86 190-228 (229)
53 COG0138 PurH AICAR transformyl 51.2 19 0.00041 32.4 3.6 53 33-85 35-101 (515)
54 smart00851 MGS MGS-like domain 50.8 20 0.00044 23.5 2.9 40 35-86 24-63 (90)
55 PF02879 PGM_PMM_II: Phosphogl 50.7 47 0.001 22.0 4.7 56 31-88 35-93 (104)
56 PF11553 DUF3231: Protein of u 50.6 13 0.00028 27.2 2.1 41 6-46 39-79 (166)
57 PF01993 MTD: methylene-5,6,7, 50.3 41 0.00089 28.0 5.1 48 32-96 77-124 (276)
58 PF01916 DS: Deoxyhypusine syn 49.2 26 0.00056 29.1 3.9 46 33-87 25-74 (299)
59 PF00205 TPP_enzyme_M: Thiamin 49.2 43 0.00092 23.2 4.5 66 28-93 26-95 (137)
60 PRK09454 ugpQ cytoplasmic glyc 48.7 27 0.00058 27.0 3.7 44 31-90 199-242 (249)
61 cd08582 GDPD_like_2 Glyceropho 47.4 39 0.00084 25.5 4.4 41 32-88 192-232 (233)
62 KOG2520|consensus 46.9 5 0.00011 37.7 -0.7 62 26-102 224-285 (815)
63 TIGR00289 conserved hypothetic 46.8 57 0.0012 25.8 5.3 44 31-88 48-95 (222)
64 COG1671 Uncharacterized protei 46.1 83 0.0018 24.0 5.9 57 29-87 13-75 (150)
65 cd08575 GDPD_GDE4_like Glycero 45.4 36 0.00078 26.7 4.0 22 67-89 242-263 (264)
66 PF03009 GDPD: Glycerophosphor 44.9 31 0.00066 25.1 3.4 42 32-88 213-255 (256)
67 PRK02399 hypothetical protein; 44.5 68 0.0015 28.0 5.8 48 24-84 195-242 (406)
68 cd08565 GDPD_pAtGDE_like Glyce 44.1 43 0.00093 25.8 4.2 23 67-90 212-234 (235)
69 cd08601 GDPD_SaGlpQ_like Glyce 44.0 28 0.0006 26.8 3.1 44 31-90 208-251 (256)
70 COG1109 {ManB} Phosphomannomut 44.0 59 0.0013 27.8 5.4 57 31-89 192-250 (464)
71 PF14229 DUF4332: Domain of un 43.6 77 0.0017 22.5 5.2 44 3-46 19-62 (122)
72 PF07719 TPR_2: Tetratricopept 43.2 8.8 0.00019 19.9 0.2 22 6-27 11-32 (34)
73 PRK13010 purU formyltetrahydro 42.7 59 0.0013 26.6 5.0 44 32-84 132-175 (289)
74 PRK12419 riboflavin synthase s 42.6 57 0.0012 24.9 4.6 46 24-84 23-75 (158)
75 cd08581 GDPD_like_1 Glyceropho 42.1 35 0.00077 26.2 3.5 19 67-86 210-228 (229)
76 cd08579 GDPD_memb_like Glycero 41.9 50 0.0011 24.7 4.2 18 68-86 202-219 (220)
77 TIGR00970 leuA_yeast 2-isoprop 40.8 97 0.0021 27.7 6.4 47 21-78 41-88 (564)
78 PF02142 MGS: MGS-like domain 40.7 56 0.0012 21.6 3.9 42 34-84 23-66 (95)
79 KOG4044|consensus 40.6 42 0.0009 26.7 3.6 36 16-51 24-62 (201)
80 TIGR01684 viral_ppase viral ph 40.4 54 0.0012 27.6 4.5 57 23-90 144-200 (301)
81 TIGR01489 DKMTPPase-SF 2,3-dik 40.0 1.3E+02 0.0028 21.0 6.1 53 23-87 71-123 (188)
82 PF04422 FrhB_FdhB_N: Coenzyme 40.0 30 0.00066 22.9 2.5 25 62-86 19-43 (82)
83 PF00885 DMRL_synthase: 6,7-di 39.3 62 0.0013 23.9 4.2 46 25-83 17-67 (144)
84 cd08609 GDPD_GDE3 Glycerophosp 38.8 54 0.0012 27.0 4.2 22 67-89 256-277 (315)
85 PRK06027 purU formyltetrahydro 38.6 72 0.0016 25.9 4.9 44 32-84 128-171 (286)
86 PLN02404 6,7-dimethyl-8-ribity 38.5 80 0.0017 23.5 4.8 46 24-84 20-72 (141)
87 cd08564 GDPD_GsGDE_like Glycer 38.5 59 0.0013 25.3 4.3 48 31-90 213-260 (265)
88 PRK14320 glmM phosphoglucosami 37.9 1.1E+02 0.0023 25.9 5.9 57 30-88 185-241 (443)
89 TIGR03504 FimV_Cterm FimV C-te 37.8 85 0.0018 18.9 4.0 36 4-39 7-43 (44)
90 PHA02542 41 41 helicase; Provi 37.6 28 0.00061 30.3 2.5 52 28-92 331-383 (473)
91 PRK00061 ribH 6,7-dimethyl-8-r 37.3 81 0.0018 23.7 4.7 46 24-84 25-77 (154)
92 PRK13011 formyltetrahydrofolat 36.5 75 0.0016 25.9 4.7 45 32-85 128-172 (286)
93 KOG4015|consensus 36.5 24 0.00051 26.3 1.6 49 31-103 15-63 (133)
94 PF04309 G3P_antiterm: Glycero 36.2 88 0.0019 24.1 4.8 53 30-91 33-85 (175)
95 PF13417 GST_N_3: Glutathione 35.8 18 0.00039 22.6 0.8 60 29-102 9-68 (75)
96 TIGR00355 purH phosphoribosyla 35.8 72 0.0016 28.7 4.8 70 13-85 15-98 (511)
97 PHA03398 viral phosphatase sup 35.4 78 0.0017 26.6 4.7 59 23-92 146-204 (303)
98 PLN03228 methylthioalkylmalate 35.1 99 0.0022 27.4 5.5 46 21-76 99-144 (503)
99 cd08567 GDPD_SpGDE_like Glycer 34.9 84 0.0018 23.9 4.5 42 31-88 221-262 (263)
100 cd08583 PI-PLCc_GDPD_SF_unchar 34.6 74 0.0016 24.2 4.2 19 67-86 216-234 (237)
101 cd08574 GDPD_GDE_2_3_6 Glycero 34.1 73 0.0016 24.8 4.1 17 68-85 235-251 (252)
102 TIGR01544 HAD-SF-IE haloacid d 34.0 2.3E+02 0.0049 23.3 7.1 46 5-51 99-147 (277)
103 PRK05753 nucleoside diphosphat 33.9 1.1E+02 0.0023 22.3 4.8 66 20-104 4-69 (137)
104 PRK12757 cell division protein 33.8 1.3E+02 0.0028 24.7 5.6 68 18-86 185-254 (256)
105 PF02617 ClpS: ATP-dependent C 33.7 94 0.002 20.3 4.1 53 12-77 19-71 (82)
106 cd03040 GST_N_mPGES2 GST_N fam 33.3 77 0.0017 19.4 3.5 60 28-101 11-72 (77)
107 TIGR00655 PurU formyltetrahydr 32.8 1E+02 0.0022 25.1 4.8 44 32-84 123-166 (280)
108 COG1569 Predicted nucleic acid 32.7 34 0.00074 25.9 2.0 31 64-94 90-120 (142)
109 PRK10927 essential cell divisi 32.4 1.2E+02 0.0025 25.9 5.3 67 16-83 246-314 (319)
110 TIGR00977 LeuA_rel 2-isopropyl 32.3 1.4E+02 0.0031 26.4 6.0 47 21-78 16-63 (526)
111 PF00701 DHDPS: Dihydrodipicol 32.1 69 0.0015 25.2 3.7 49 2-51 216-269 (289)
112 PLN02891 IMP cyclohydrolase 31.9 74 0.0016 28.9 4.2 53 33-85 55-121 (547)
113 smart00028 TPR Tetratricopepti 31.7 29 0.00063 15.7 1.0 22 6-27 11-32 (34)
114 TIGR02313 HpaI-NOT-DapA 2,4-di 31.4 33 0.00072 27.5 1.8 43 2-44 217-264 (294)
115 TIGR01162 purE phosphoribosyla 31.1 2.2E+02 0.0048 21.7 6.1 47 27-83 11-58 (156)
116 cd07942 DRE_TIM_LeuA Mycobacte 31.0 1.9E+02 0.0041 23.5 6.2 47 21-78 16-63 (284)
117 PF10087 DUF2325: Uncharacteri 30.8 1.6E+02 0.0034 19.6 4.9 26 22-47 56-81 (97)
118 COG0329 DapA Dihydrodipicolina 30.6 71 0.0015 25.9 3.6 51 2-52 220-275 (299)
119 TIGR00126 deoC deoxyribose-pho 30.4 1.8E+02 0.0039 22.7 5.8 65 13-84 25-92 (211)
120 cd07948 DRE_TIM_HCS Saccharomy 30.3 1.1E+02 0.0024 24.4 4.6 28 22-49 16-43 (262)
121 PF13181 TPR_8: Tetratricopept 30.2 14 0.0003 19.3 -0.4 22 5-26 10-31 (34)
122 PRK12344 putative alpha-isopro 30.2 1.7E+02 0.0037 25.9 6.1 46 22-77 21-66 (524)
123 smart00052 EAL Putative diguan 30.1 1.2E+02 0.0025 22.0 4.4 36 28-78 190-225 (241)
124 PRK13600 putative ribosomal pr 29.9 97 0.0021 21.2 3.7 25 22-46 36-60 (84)
125 TIGR00160 MGSA methylglyoxal s 29.9 1.3E+02 0.0028 22.7 4.7 33 39-83 46-78 (143)
126 cd08561 GDPD_cytoplasmic_ScUgp 29.8 63 0.0014 24.7 3.1 44 31-90 202-245 (249)
127 PRK07742 phosphate butyryltran 29.4 1.2E+02 0.0025 24.7 4.7 24 65-88 77-100 (299)
128 PF00515 TPR_1: Tetratricopept 29.3 17 0.00036 19.1 -0.2 24 5-28 10-33 (34)
129 cd08563 GDPD_TtGDE_like Glycer 29.3 1.2E+02 0.0025 22.9 4.4 40 31-86 190-229 (230)
130 COG0009 SUA5 Putative translat 29.2 2E+02 0.0044 22.6 5.9 61 32-102 127-187 (211)
131 cd08570 GDPD_YPL206cp_fungi Gl 29.1 1.1E+02 0.0023 23.2 4.2 17 69-86 217-233 (234)
132 PRK09461 ansA cytoplasmic aspa 29.0 1.5E+02 0.0032 24.6 5.3 25 27-52 251-275 (335)
133 COG2200 Rtn c-di-GMP phosphodi 28.9 1.3E+02 0.0027 23.6 4.7 37 27-78 192-228 (256)
134 PRK07564 phosphoglucomutase; V 28.9 1.8E+02 0.0039 25.5 6.1 54 32-88 241-304 (543)
135 PF01973 MAF_flag10: Protein o 28.8 43 0.00092 24.3 1.9 60 32-92 14-82 (170)
136 TIGR00290 MJ0570_dom MJ0570-re 28.8 2.1E+02 0.0045 22.7 5.9 44 33-88 50-95 (223)
137 PF04007 DUF354: Protein of un 28.5 41 0.00089 28.1 2.0 76 22-100 29-110 (335)
138 TIGR00519 asnASE_I L-asparagin 28.2 1.3E+02 0.0027 25.0 4.8 28 24-52 248-275 (336)
139 PF12651 RHH_3: Ribbon-helix-h 27.8 66 0.0014 19.1 2.3 25 20-44 4-28 (44)
140 cd01980 Chlide_reductase_Y Chl 27.7 92 0.002 26.2 4.0 53 26-79 169-228 (416)
141 PF08828 DSX_dimer: Doublesex 27.7 39 0.00084 22.4 1.3 18 27-44 4-21 (62)
142 TIGR02329 propionate_PrpR prop 27.5 83 0.0018 27.8 3.8 59 13-83 91-150 (526)
143 cd03084 phosphohexomutase The 27.4 2.3E+02 0.0049 23.0 6.1 58 29-88 124-184 (355)
144 TIGR02647 DNA conserved hypoth 27.2 1.7E+02 0.0037 20.1 4.5 43 24-80 2-50 (77)
145 cd01421 IMPCH Inosine monophos 26.9 1.1E+02 0.0025 23.9 4.1 69 14-85 16-98 (187)
146 PF14252 DUF4347: Domain of un 26.8 36 0.00077 25.7 1.2 15 82-96 87-101 (165)
147 PF09286 Pro-kuma_activ: Pro-k 26.5 95 0.0021 21.9 3.3 34 62-95 58-93 (143)
148 PF11032 ApoM: Apolipoprotein 26.5 55 0.0012 25.5 2.3 29 18-46 146-174 (186)
149 PRK00881 purH bifunctional pho 26.4 1.5E+02 0.0032 26.8 5.1 71 13-85 19-103 (513)
150 PRK15424 propionate catabolism 26.4 83 0.0018 28.0 3.6 58 14-83 102-160 (538)
151 cd01994 Alpha_ANH_like_IV This 26.3 1.8E+02 0.0039 22.1 5.0 20 29-48 46-65 (194)
152 PF14528 LAGLIDADG_3: LAGLIDAD 26.3 65 0.0014 20.1 2.2 23 24-46 28-50 (77)
153 COG1927 Mtd Coenzyme F420-depe 26.1 1.8E+02 0.0039 24.1 5.2 48 32-96 78-125 (277)
154 PLN02321 2-isopropylmalate syn 26.1 1.9E+02 0.0042 26.5 5.9 46 21-76 101-146 (632)
155 PRK08273 thiamine pyrophosphat 25.9 1.8E+02 0.004 25.5 5.6 34 28-61 221-258 (597)
156 COG2378 Predicted transcriptio 25.9 3.7E+02 0.008 22.0 7.5 67 6-74 16-89 (311)
157 cd08607 GDPD_GDE5 Glycerophosp 25.8 1.2E+02 0.0026 23.7 4.1 40 33-86 250-289 (290)
158 PRK13561 putative diguanylate 25.8 1.1E+02 0.0024 26.6 4.2 43 21-78 584-626 (651)
159 TIGR02201 heptsyl_trn_III lipo 25.7 2.4E+02 0.0051 22.4 5.8 11 79-89 261-271 (344)
160 cd08605 GDPD_GDE5_like_1_plant 25.2 1.3E+02 0.0027 23.6 4.1 19 67-86 263-281 (282)
161 TIGR01459 HAD-SF-IIA-hyp4 HAD- 25.1 1.4E+02 0.003 22.7 4.2 16 37-52 36-51 (242)
162 PRK14487 cbb3-type cytochrome 25.0 2E+02 0.0043 23.2 5.2 16 63-78 193-208 (217)
163 smart00062 PBPb Bacterial peri 25.0 2E+02 0.0043 19.1 4.5 40 30-85 27-66 (219)
164 PRK05254 uracil-DNA glycosylas 24.9 78 0.0017 25.2 2.9 41 22-62 39-79 (224)
165 PF13592 HTH_33: Winged helix- 24.9 1.5E+02 0.0032 18.3 3.6 31 15-46 10-40 (60)
166 PF08442 ATP-grasp_2: ATP-gras 24.9 70 0.0015 24.8 2.6 35 31-75 5-39 (202)
167 PRK07004 replicative DNA helic 24.8 88 0.0019 27.0 3.4 54 27-93 350-406 (460)
168 PRK04147 N-acetylneuraminate l 24.7 75 0.0016 25.3 2.8 42 2-43 218-264 (293)
169 PF13428 TPR_14: Tetratricopep 24.7 49 0.0011 18.7 1.3 26 5-30 10-35 (44)
170 PRK06321 replicative DNA helic 24.6 1.1E+02 0.0024 26.7 3.9 52 28-92 366-420 (472)
171 cd08606 GDPD_YPL110cp_fungi Gl 24.5 86 0.0019 24.5 3.0 21 69-90 260-280 (286)
172 cd01948 EAL EAL domain. This d 24.5 1.6E+02 0.0035 21.2 4.3 37 27-78 188-224 (240)
173 cd03051 GST_N_GTT2_like GST_N 24.4 77 0.0017 18.7 2.2 60 29-99 11-71 (74)
174 cd08608 GDPD_GDE2 Glycerophosp 24.3 82 0.0018 26.5 3.0 22 68-90 235-256 (351)
175 PF01902 ATP_bind_4: ATP-bindi 24.3 1.4E+02 0.003 23.5 4.1 46 33-88 50-95 (218)
176 COG0119 LeuA Isopropylmalate/h 24.0 2.5E+02 0.0055 24.2 6.0 28 22-49 18-45 (409)
177 PRK08840 replicative DNA helic 23.6 1.2E+02 0.0027 26.2 4.1 52 28-92 356-410 (464)
178 PRK14317 glmM phosphoglucosami 23.5 2.4E+02 0.0053 24.0 5.8 57 30-88 201-257 (465)
179 cd08612 GDPD_GDE4 Glycerophosp 23.5 99 0.0021 24.7 3.3 42 33-90 253-294 (300)
180 TIGR03600 phage_DnaB phage rep 23.5 1.4E+02 0.0031 24.8 4.3 55 28-95 331-388 (421)
181 cd00408 DHDPS-like Dihydrodipi 23.4 68 0.0015 24.9 2.3 42 2-43 212-258 (281)
182 COG4274 Uncharacterized conser 23.4 87 0.0019 22.7 2.6 27 20-46 22-48 (104)
183 PRK08506 replicative DNA helic 23.4 1.2E+02 0.0027 26.2 4.0 51 29-92 330-383 (472)
184 PRK11921 metallo-beta-lactamas 23.2 2.3E+02 0.005 23.5 5.5 43 13-55 185-229 (394)
185 COG1663 LpxK Tetraacyldisaccha 23.1 1.3E+02 0.0029 25.6 4.0 34 39-87 117-150 (336)
186 cd03030 GRX_SH3BGR Glutaredoxi 23.1 56 0.0012 22.3 1.5 21 26-46 15-35 (92)
187 PRK09165 replicative DNA helic 23.0 1.2E+02 0.0026 26.5 3.9 50 29-92 371-424 (497)
188 TIGR02223 ftsN cell division p 22.9 2.3E+02 0.0051 23.4 5.4 67 18-84 228-297 (298)
189 cd07944 DRE_TIM_HOA_like 4-hyd 22.9 1.2E+02 0.0027 24.0 3.7 28 21-48 13-40 (266)
190 PF13838 Clathrin_H_link: Clat 22.8 2.1E+02 0.0045 18.9 4.2 34 2-35 12-48 (66)
191 PRK11590 hypothetical protein; 22.7 3.1E+02 0.0068 20.3 5.7 30 23-52 94-123 (211)
192 TIGR03662 Chlor_Arch_YYY Chlor 22.6 87 0.0019 29.1 3.1 46 30-86 670-715 (723)
193 PF06014 DUF910: Bacterial pro 22.6 1.7E+02 0.0036 19.3 3.6 36 30-80 4-44 (62)
194 TIGR00665 DnaB replicative DNA 22.4 1.3E+02 0.0027 25.1 3.8 24 29-52 333-356 (434)
195 cd01172 RfaE_like RfaE encodes 22.4 2.5E+02 0.0053 21.4 5.2 44 9-52 186-229 (304)
196 PRK10826 2-deoxyglucose-6-phos 22.4 1.7E+02 0.0037 21.6 4.2 46 30-86 97-142 (222)
197 PRK03739 2-isopropylmalate syn 22.4 2.8E+02 0.0061 24.8 6.1 47 21-78 45-92 (552)
198 TIGR00674 dapA dihydrodipicoli 22.3 79 0.0017 25.0 2.5 42 2-43 213-259 (285)
199 TIGR00182 plsX fatty acid/phos 22.3 1.7E+02 0.0037 24.3 4.5 31 68-98 73-104 (322)
200 PF04505 Dispanin: Interferon- 22.2 81 0.0017 21.1 2.2 23 2-24 43-65 (82)
201 cd05805 MPG1_transferase GTP-m 22.2 2E+02 0.0043 24.2 4.9 56 30-88 181-238 (441)
202 PRK05636 replicative DNA helic 22.1 1.5E+02 0.0034 26.0 4.4 53 28-93 402-457 (505)
203 PF13419 HAD_2: Haloacid dehal 22.0 1.4E+02 0.003 20.0 3.3 53 22-86 75-127 (176)
204 PRK10551 phage resistance prot 22.0 1.4E+02 0.003 26.0 4.1 39 26-79 452-490 (518)
205 TIGR02432 lysidine_TilS_N tRNA 21.9 78 0.0017 22.9 2.2 23 27-49 44-66 (189)
206 PF03796 DnaB_C: DnaB-like hel 21.9 74 0.0016 24.4 2.2 25 28-52 157-181 (259)
207 TIGR00683 nanA N-acetylneurami 21.8 1.5E+02 0.0034 23.6 4.1 42 2-43 216-262 (290)
208 cd08610 GDPD_GDE6 Glycerophosp 21.7 1.1E+02 0.0024 25.3 3.3 22 68-90 257-278 (316)
209 PRK01906 tetraacyldisaccharide 21.7 1.9E+02 0.004 24.3 4.6 40 33-87 119-158 (338)
210 PF06888 Put_Phosphatase: Puta 21.6 2.2E+02 0.0048 22.6 4.9 44 8-51 55-99 (234)
211 PRK06904 replicative DNA helic 21.6 1.4E+02 0.0031 25.9 4.1 55 27-94 360-417 (472)
212 PRK08760 replicative DNA helic 21.6 1.4E+02 0.0031 25.9 4.1 52 28-92 366-420 (476)
213 PF09413 DUF2007: Domain of un 21.6 1.3E+02 0.0027 18.5 2.8 20 27-46 9-28 (67)
214 TIGR00591 phr2 photolyase PhrI 21.4 1.8E+02 0.0039 24.5 4.6 16 31-46 81-96 (454)
215 PLN02746 hydroxymethylglutaryl 21.4 3E+02 0.0065 23.3 5.8 28 21-48 61-88 (347)
216 PRK08978 acetolactate synthase 21.3 3E+02 0.0065 23.7 6.0 53 28-83 211-267 (548)
217 PRK00010 rplE 50S ribosomal pr 21.3 38 0.00082 26.1 0.4 22 23-44 156-177 (179)
218 COG1412 Uncharacterized protei 21.1 3.5E+02 0.0077 20.0 6.5 22 66-88 87-108 (136)
219 cd00758 MoCF_BD MoCF_BD: molyb 21.0 2.6E+02 0.0056 19.5 4.7 42 31-86 22-66 (133)
220 PRK08006 replicative DNA helic 21.0 1.3E+02 0.0029 26.1 3.8 53 27-93 362-418 (471)
221 smart00685 DM14 Repeats in fly 21.0 97 0.0021 20.0 2.2 18 4-21 16-33 (59)
222 cd03045 GST_N_Delta_Epsilon GS 21.0 1.1E+02 0.0024 18.3 2.5 60 30-100 12-71 (74)
223 PRK00507 deoxyribose-phosphate 20.9 3E+02 0.0065 21.5 5.4 64 13-83 29-95 (221)
224 PTZ00386 formyl tetrahydrofola 20.8 1.8E+02 0.0038 27.0 4.6 40 37-85 433-475 (625)
225 PRK14683 hypothetical protein; 20.7 66 0.0014 23.4 1.6 18 74-92 41-58 (122)
226 cd03089 PMM_PGM The phosphoman 20.7 3.3E+02 0.0071 22.9 5.9 57 30-88 176-235 (443)
227 TIGR03457 sulphoacet_xsc sulfo 20.7 3.5E+02 0.0076 23.6 6.3 55 27-84 210-268 (579)
228 PRK09552 mtnX 2-hydroxy-3-keto 20.7 1.9E+02 0.0041 21.5 4.1 39 13-52 63-101 (219)
229 PF02606 LpxK: Tetraacyldisacc 20.6 2.2E+02 0.0049 23.5 4.9 40 32-87 98-137 (326)
230 cd08602 GDPD_ScGlpQ1_like Glyc 20.6 1.3E+02 0.0027 24.5 3.4 17 68-85 291-307 (309)
231 PHA03202 uracil DNA glycosylas 20.5 96 0.0021 26.3 2.7 43 21-63 127-169 (313)
232 cd07945 DRE_TIM_CMS Leptospira 20.5 2.1E+02 0.0046 23.0 4.6 27 22-48 13-40 (280)
233 COG0692 Ung Uracil DNA glycosy 20.5 1.3E+02 0.0028 24.5 3.3 42 21-62 35-76 (223)
234 PRK14316 glmM phosphoglucosami 20.5 2.7E+02 0.0059 23.4 5.4 56 30-88 186-242 (448)
235 cd07939 DRE_TIM_NifV Streptomy 20.5 3.6E+02 0.0078 20.9 5.8 27 22-48 14-40 (259)
236 cd07909 YciF YciF bacterial st 20.4 1E+02 0.0023 22.9 2.6 42 5-46 24-65 (147)
237 TIGR00252 conserved hypothetic 20.4 72 0.0016 22.9 1.7 18 74-92 34-51 (119)
238 TIGR01545 YfhB_g-proteo haloac 20.3 3.7E+02 0.008 20.3 5.7 29 24-52 94-122 (210)
239 TIGR01449 PGP_bact 2-phosphogl 20.3 2E+02 0.0043 20.7 4.1 20 32-51 92-111 (213)
240 cd04922 ACT_AKi-HSDH-ThrA_2 AC 20.3 2E+02 0.0042 16.8 3.5 48 26-74 14-61 (66)
241 PF13986 DUF4224: Domain of un 20.2 1.2E+02 0.0025 18.5 2.4 15 67-81 18-32 (47)
242 TIGR00147 lipid kinase, YegS/R 20.2 3.3E+02 0.0071 21.2 5.5 50 27-88 18-67 (293)
243 PRK06749 replicative DNA helic 20.2 1.6E+02 0.0035 25.1 4.1 52 28-93 327-382 (428)
244 COG4943 Predicted signal trans 20.1 1.6E+02 0.0034 26.8 4.0 55 11-80 438-495 (524)
245 TIGR02667 moaB_proteo molybden 20.1 2.7E+02 0.0059 20.5 4.8 44 32-87 26-72 (163)
246 PF13414 TPR_11: TPR repeat; P 20.1 36 0.00077 20.2 0.1 28 4-31 11-38 (69)
247 cd08573 GDPD_GDE1 Glycerophosp 20.1 1.7E+02 0.0036 22.9 3.8 37 33-86 220-257 (258)
248 smart00518 AP2Ec AP endonuclea 20.0 3.3E+02 0.0072 20.7 5.4 37 24-66 41-77 (273)
249 cd00952 CHBPH_aldolase Trans-o 20.0 1.2E+02 0.0026 24.6 3.1 41 2-42 225-278 (309)
250 PRK02261 methylaspartate mutas 20.0 3.4E+02 0.0075 19.5 6.5 52 27-88 68-122 (137)
No 1
>PRK03980 flap endonuclease-1; Provisional
Probab=99.93 E-value=5.9e-26 Score=183.32 Aligned_cols=89 Identities=38% Similarity=0.585 Sum_probs=85.5
Q ss_pred hhhHHHHcCCHHHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeE
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYA 81 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~ 81 (113)
++++++++||.++++++++|++++|++|+..++++|+.|||||++ ||+|||||||+|++.|+||+
T Consensus 57 ~~~~~~~~g~~~~a~k~~~~~~~vt~~~~~~~k~lL~~~GIp~i~---------------AP~EAEAq~A~L~~~g~vd~ 121 (292)
T PRK03980 57 KYEEAKEEGDLEEARKYAQRSSRLTDEIVEDSKKLLDLMGIPYVQ---------------APSEGEAQAAYMAKKGDAWA 121 (292)
T ss_pred HHHHHHHcCCHHHHHHHHhccccCCHHHHHHHHHHHHHCCCCEEe---------------cCchHHHHHHHHHHCCCeEE
Confidence 467788999999999999999999999999999999999999999 99999999999999999999
Q ss_pred EEcCCCceeeecCCeeeeccccCC
Q psy1207 82 TATEDMDALTFGTNILLRQQLSWA 105 (113)
Q Consensus 82 V~SeDsD~l~fGa~~vlr~~~~~~ 105 (113)
|+|+|+|+|+||++.++|+++..+
T Consensus 122 V~S~D~D~l~fg~~~vir~l~~~~ 145 (292)
T PRK03980 122 VGSQDYDSLLFGAPRLVRNLTISG 145 (292)
T ss_pred EecCCcCeeeecCCEEEEeecccc
Confidence 999999999999999999998764
No 2
>TIGR03674 fen_arch flap structure-specific endonuclease. Endonuclease that cleaves the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA
Probab=99.92 E-value=6.3e-25 Score=179.69 Aligned_cols=90 Identities=40% Similarity=0.566 Sum_probs=85.7
Q ss_pred hhhHHHHcCCHHHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeE
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYA 81 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~ 81 (113)
+++++++.||.++++++.+|+.++|++++..++++|+.|||||++ ||+|||||||+|++.|.||+
T Consensus 104 ~~~~~~~~g~~~~a~~~~~r~~~~~~~~~~~~k~lL~~~Gip~i~---------------AP~EAeaq~a~L~~~g~vd~ 168 (338)
T TIGR03674 104 KWEEALEKGDLEEARKYAQRSSRLTSEIVESSKKLLDLMGIPYVQ---------------APSEGEAQAAYMAKKGDVDY 168 (338)
T ss_pred HHHHHHHcCCHHHHHHHHhhcCCCCHHHHHHHHHHHHHcCCeEEE---------------CCccHHHHHHHHHHCCCeeE
Confidence 367788999999999999999999999999999999999999999 99999999999999999999
Q ss_pred EEcCCCceeeecCCeeeeccccCCc
Q psy1207 82 TATEDMDALTFGTNILLRQQLSWAT 106 (113)
Q Consensus 82 V~SeDsD~l~fGa~~vlr~~~~~~~ 106 (113)
|+|+|+|+|+||++.++|+++..++
T Consensus 169 v~S~D~D~l~fg~~~vi~~~~~~~~ 193 (338)
T TIGR03674 169 VGSQDYDSLLFGAPRLVRNLTISGK 193 (338)
T ss_pred EecCCcCeeeecCCEEEEecccccc
Confidence 9999999999999999999887553
No 3
>PTZ00217 flap endonuclease-1; Provisional
Probab=99.92 E-value=5.5e-25 Score=183.82 Aligned_cols=87 Identities=61% Similarity=0.877 Sum_probs=84.1
Q ss_pred hhhHHHHcCCHHHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeE
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYA 81 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~ 81 (113)
+++++.+.||.++++++++|++++|++|+..++++|+.||||||+ ||+|||||||+|++.|+||+
T Consensus 112 ~l~~a~~~g~~~~a~k~~~r~~~vt~~~~~~~~~lL~~~Gip~i~---------------AP~EAdaq~A~L~~~g~v~~ 176 (393)
T PTZ00217 112 ELEKAIEEGDDEEIKKQSKRTVRVTKEQNEDAKKLLRLMGIPVIE---------------APCEAEAQCAELVKKGKVYA 176 (393)
T ss_pred HHHHHHhcCCHHHHHHHHhhcccCCHHHHHHHHHHHHHcCCceEE---------------CCcCHHHHHHHHHHCCCeEE
Confidence 467789999999999999999999999999999999999999999 99999999999999999999
Q ss_pred EEcCCCceeeecCCeeeecccc
Q psy1207 82 TATEDMDALTFGTNILLRQQLS 103 (113)
Q Consensus 82 V~SeDsD~l~fGa~~vlr~~~~ 103 (113)
|+|+|+|+|+||++++||+++.
T Consensus 177 ViS~D~D~l~fg~~~vi~~l~~ 198 (393)
T PTZ00217 177 VATEDMDALTFGTPVLLRNLNF 198 (393)
T ss_pred EeCCCcCeeecCCcEEEEcccc
Confidence 9999999999999999999874
No 4
>KOG2518|consensus
Probab=99.90 E-value=5.8e-24 Score=183.96 Aligned_cols=91 Identities=27% Similarity=0.328 Sum_probs=86.1
Q ss_pred hhhHHHHcCCHHHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeE
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYA 81 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~ 81 (113)
..++++..|+..+|+.+++|++.||++|++.++..++.+||+||+ ||||||||+|||++.|+||+
T Consensus 102 ~a~~ll~~G~~~~A~~~fqr~VdIT~~ma~~lI~~~r~~nVe~IV---------------APyEADAQlayL~~~~~i~~ 166 (556)
T KOG2518|consen 102 AAEQLLAEGKESNARECFQRCVDITPEMAHKLIQYLRSQNVEYIV---------------APYEADAQLAYLEREGIVDA 166 (556)
T ss_pred HHHHHHHcCCHHHHHHHHHHhccCcHHHHHHHHHHHHHcCCceEe---------------cCccccchhHHHHhcCcceE
Confidence 356788999999999999999999999999999999999999999 99999999999999999999
Q ss_pred EEcCCCceeeecCCeeeeccccCCce
Q psy1207 82 TATEDMDALTFGTNILLRQQLSWATF 107 (113)
Q Consensus 82 V~SeDsD~l~fGa~~vlr~~~~~~~~ 107 (113)
|||||||+|+|||+.+|.++...+.+
T Consensus 167 IITEDSDLl~fGc~~vifK~d~~G~~ 192 (556)
T KOG2518|consen 167 IITEDSDLLVFGCKKVIFKMDSFGNG 192 (556)
T ss_pred EEeccccccccCchhheeeccCCCCc
Confidence 99999999999999999999875544
No 5
>cd00128 XPG Xeroderma pigmentosum G N- and I-regions (XPGN, XPGI); contains the HhH2 motif; domain in nucleases. XPG is a eukaryotic enzyme that functions in nucleotide-excision repair and transcription-coupled repair of oxidative DNA damage. Functionally/structurally related to FEN-1; divalent metal ion-dependent exo- and endonuclease, and bacterial and bacteriophage 5'3' exonucleases.
Probab=99.90 E-value=2.9e-23 Score=166.22 Aligned_cols=88 Identities=48% Similarity=0.631 Sum_probs=83.3
Q ss_pred hhHHHHcCCHHHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEE
Q psy1207 3 LTLFLLTGDAQEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYAT 82 (113)
Q Consensus 3 ~~~~~~~gd~~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V 82 (113)
...+.++||.+++.++.+++.++|+.++..++++|+.|||||++ ||+|||||||+|+++|.||+|
T Consensus 103 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~lL~~~gi~~i~---------------ap~EAdaq~a~l~~~g~v~~i 167 (316)
T cd00128 103 AKEALEKGLEEEAKKLERRAVRVTPQMIEEAKELLRLMGIPYIV---------------APYEAEAQCAYLAKKGLVDAI 167 (316)
T ss_pred HHHHHHhCCHHHHHHHHhccCcCCHHHHHHHHHHHHHcCCCEEE---------------CCcCHHHHHHHHHhCCCeeEE
Confidence 34577889999999999999999999999999999999999999 999999999999999999999
Q ss_pred EcCCCceeeecCCeeeeccccCC
Q psy1207 83 ATEDMDALTFGTNILLRQQLSWA 105 (113)
Q Consensus 83 ~SeDsD~l~fGa~~vlr~~~~~~ 105 (113)
+|+|||+|+||++.++++++..+
T Consensus 168 ~S~DsD~l~fg~~~vi~~~~~~~ 190 (316)
T cd00128 168 ITEDSDLLLFGAPRVYRNLFDSG 190 (316)
T ss_pred EecCCCeeeecCceEEEecccCC
Confidence 99999999999999999988654
No 6
>TIGR00600 rad2 DNA excision repair protein (rad2). All proteins in this family for which functions are known are flap endonucleases that generate the 3' incision next to DNA damage as part of nucleotide excision repair. This family is related to many other flap endonuclease families including the fen1 family. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=99.89 E-value=2e-23 Score=191.13 Aligned_cols=83 Identities=34% Similarity=0.518 Sum_probs=75.7
Q ss_pred HHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeec
Q psy1207 14 EIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFG 93 (113)
Q Consensus 14 ~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fG 93 (113)
+..+..|++.+||++|+.+|++||++||||||+ ||+|||||||+|++.|+||+|+|+|||+|+||
T Consensus 758 ~~~~~~r~~~~vt~~m~~~~~~LL~~~GIP~i~---------------AP~EAEAqcA~L~~~G~vd~V~TeDsD~llFG 822 (1034)
T TIGR00600 758 QKQQQKRIAAEVTGQMILESQELLRLFGIPYIV---------------APMEAEAQCAILDLLDQTSGTITDDSDIWLFG 822 (1034)
T ss_pred HHHHhccccccCCHHHHHHHHHHHHHCCCCeee---------------CCccHHHHHHHHHhCCCeEEEEccccceeccC
Confidence 344558899999999999999999999999999 99999999999999999999999999999999
Q ss_pred CCeeeeccccCCceeeccc
Q psy1207 94 TNILLRQQLSWATFSMHCW 112 (113)
Q Consensus 94 a~~vlr~~~~~~~~~~~~~ 112 (113)
|++|+||+++.+++ +.||
T Consensus 823 a~~v~rn~~~~~~~-ve~~ 840 (1034)
T TIGR00600 823 ARHVYKNFFNQNKF-VEYY 840 (1034)
T ss_pred CceeeecccCCCCc-eEEe
Confidence 99999999876654 4454
No 7
>smart00484 XPGI Xeroderma pigmentosum G I-region. domain in nucleases
Probab=99.89 E-value=1.1e-23 Score=140.96 Aligned_cols=55 Identities=53% Similarity=0.684 Sum_probs=51.8
Q ss_pred HhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeecCCeeeeccccCCce
Q psy1207 38 SLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFGTNILLRQQLSWATF 107 (113)
Q Consensus 38 ~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~vlr~~~~~~~~ 107 (113)
+.|||||++ ||+|||||||+|+++|+||+|+|+|+|+|+||++++||+++..++.
T Consensus 1 ~~~gi~~i~---------------AP~eAeAq~A~L~~~g~vdav~s~D~D~llfG~~~vi~~~~~~~~~ 55 (73)
T smart00484 1 RLMGIPYIV---------------APYEAEAQCAYLAKSGLVDAIITEDSDLLLFGAPRLYRNLFFSGKK 55 (73)
T ss_pred CcCCCeEEE---------------cCCcHHHHHHHHHhCCCeeEEEcCccceEecCCcEEEEecccCCCc
Confidence 368999999 9999999999999999999999999999999999999999877653
No 8
>PF00867 XPG_I: XPG I-region; InterPro: IPR006086 This entry represents endonucleases that cleave the 5'-overhanging flap structure that is generated by displacement synthesis when DNA polymerase encounters the 5'-end of a downstream Okazaki fragment. Has 5'-endo-/exonuclease and 5'-pseudo-Y-endonuclease activities. Cleaves the junction between single and double-stranded regions of flap DNA. The endonuclease binds 2 magnesium ions per subunit. which probably participate in the reaction catalyzed by the enzyme. May bind an additional third magnesium ion after substrate binding.; GO: 0004518 nuclease activity, 0006281 DNA repair; PDB: 1UL1_Z 3Q8K_A 3Q8M_A 3Q8L_A 2IZO_A 1A77_A 1A76_A 3QEA_Z 3QE9_Y 3QEB_Z ....
Probab=99.88 E-value=1.2e-23 Score=143.90 Aligned_cols=50 Identities=52% Similarity=0.767 Sum_probs=43.8
Q ss_pred HhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeecCCeeeeccc
Q psy1207 38 SLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFGTNILLRQQL 102 (113)
Q Consensus 38 ~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~vlr~~~ 102 (113)
+.|||||++ ||||||||||||+++|+||+|+|+|||+|+||++++||+++
T Consensus 1 ~~~gv~~i~---------------AP~EAeAq~A~L~~~g~vd~V~t~DsD~l~fG~~~vi~~~~ 50 (94)
T PF00867_consen 1 RLMGVPYIV---------------APYEAEAQCAYLERNGLVDAVITEDSDLLLFGAPKVIRKLS 50 (94)
T ss_dssp HHHT-EEEE----------------SS-HHHHHHHHHHTTSSSEEE-SSSHHHHTT-SEEEESST
T ss_pred CCCCCeEEE---------------cCchHHHHHHHHHHhcceeEEEecCCCEEeeCCCEEEEecc
Confidence 579999999 99999999999999999999999999999999999999998
No 9
>KOG2519|consensus
Probab=99.87 E-value=5.9e-23 Score=174.89 Aligned_cols=96 Identities=51% Similarity=0.734 Sum_probs=88.7
Q ss_pred hhhHHHHcCCHHHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeE
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYA 81 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~ 81 (113)
+++.+.+.|+.++.+++.+|.+.+|.+++.+|++||..|||||++ ||+|||||||+|+++|.|++
T Consensus 106 ~~~~~~e~~~~~~~~k~~~r~vkvtk~~~dEak~LL~lmGIp~i~---------------ap~EAEAqCA~Lnk~g~V~~ 170 (449)
T KOG2519|consen 106 ELKPAKEAGAKENMEKFFSRLVKVTKQHNDEAKRLLSLMGIPVLD---------------APGEAEAQCAALNKAGKVYA 170 (449)
T ss_pred hhhhHHHhhhHHHHHHHHHHHhhhcchhhHHHHHHHHHcCCeeec---------------CCchHHHHHHHHhhcCceee
Confidence 456788899999999999999999999999999999999999999 99999999999999999999
Q ss_pred EEcCCCceeeecCCeeeecccc--CCceeeccc
Q psy1207 82 TATEDMDALTFGTNILLRQQLS--WATFSMHCW 112 (113)
Q Consensus 82 V~SeDsD~l~fGa~~vlr~~~~--~~~~~~~~~ 112 (113)
++|+|||+|.||++.++|++.. ..+..+.||
T Consensus 171 ~at~DsD~l~fg~~~~lr~l~~s~~~~~pv~e~ 203 (449)
T KOG2519|consen 171 VATEDSDALTFGAPVKLRHLIHSLASGLPVSEY 203 (449)
T ss_pred eeccccchhhccCHHHHHHhccchhcCCCeEEe
Confidence 9999999999999999999984 445555555
No 10
>KOG2520|consensus
Probab=99.84 E-value=1.5e-21 Score=175.45 Aligned_cols=76 Identities=39% Similarity=0.527 Sum_probs=72.1
Q ss_pred hhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeecCCeee
Q psy1207 19 NRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFGTNILL 98 (113)
Q Consensus 19 ~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~vl 98 (113)
.+.+-.+|+.|+.+|++||+.||||||+ ||.|||||||.|.+.|+||+|||+|||+|+||++.|+
T Consensus 457 ~r~~~evt~~m~~e~QElL~~fGIPyI~---------------APmEAEAQCa~Le~~~LvdGiITDDSDV~LFGg~~VY 521 (815)
T KOG2520|consen 457 SRGADEVTSDMFKELQELLRLFGIPYII---------------APMEAEAQCAFLEQLNLVDGIITDDSDVFLFGGTRVY 521 (815)
T ss_pred hccCchhHHHHHHHHHHHHHHcCCceec---------------ccccHHHHHHHHHHcCCcceeecccccceeeccchhh
Confidence 4556779999999999999999999999 9999999999999999999999999999999999999
Q ss_pred eccccCCceee
Q psy1207 99 RQQLSWATFSM 109 (113)
Q Consensus 99 r~~~~~~~~~~ 109 (113)
||+++.+++.+
T Consensus 522 rn~F~knk~ve 532 (815)
T KOG2520|consen 522 RNFFNKNKYVE 532 (815)
T ss_pred HHHhhcCccce
Confidence 99999998855
No 11
>smart00475 53EXOc 5'-3' exonuclease.
Probab=98.71 E-value=3.6e-08 Score=78.75 Aligned_cols=55 Identities=29% Similarity=0.371 Sum_probs=48.7
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcc-hHHHHHHHHHHC----CCeeEEEcCCCceeeecCCeeee
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPC-EAEAQCAAMVKA----GKVYATATEDMDALTFGTNILLR 99 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~-EAEAqcA~L~k~----G~vd~V~SeDsD~l~fGa~~vlr 99 (113)
...++++|+.||||++. +|+ |||.+||.|.++ |....|+|+|.|.+.++++.+..
T Consensus 86 ~~~~~~~l~~~gi~~i~---------------~~g~EADD~iatla~~~~~~g~~~~IvS~DkDl~ql~~~~v~~ 145 (259)
T smart00475 86 IPLIKELLDALGIPVLE---------------VEGYEADDVIATLAKKAEAEGYEVRIVSGDKDLLQLVSDKVSV 145 (259)
T ss_pred HHHHHHHHHHCCCCEEe---------------eCCcCHHHHHHHHHHHHHhCCCeEEEEeCCCcHhhcCCCCEEE
Confidence 46799999999999999 786 999999999885 78899999999999999876543
No 12
>COG0258 Exo 5'-3' exonuclease (including N-terminal domain of PolI) [DNA replication, recombination, and repair]
Probab=98.69 E-value=1.6e-08 Score=81.49 Aligned_cols=75 Identities=27% Similarity=0.266 Sum_probs=66.8
Q ss_pred HcCCHH-HHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCC
Q psy1207 8 LTGDAQ-EIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 8 ~~gd~~-~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeD 86 (113)
+.+..+ ....+..+...+++.+....+.+++.+|+| +. +|.|++||+|+ +.|.+++|+|+|
T Consensus 83 K~~R~~~~p~~l~~q~~~i~~~~~~~~~~~l~~~G~e-ad---------------d~i~t~A~~a~--~~g~~~~I~S~D 144 (310)
T COG0258 83 KANREKEMPDELAPQIPILTELLVALGIPLLELMGIE-AD---------------DPIETLAQKAY--KKGDVVLIISGD 144 (310)
T ss_pred HhCCCccCHHHHHHHHHHHHHHHHHhCcHhhhcCCCC-cc---------------hhHHHHHHHHH--hcCCeEEEEeCC
Confidence 344445 788899999999999999999999999999 77 89999999999 999999999999
Q ss_pred CceeeecCCeeeec
Q psy1207 87 MDALTFGTNILLRQ 100 (113)
Q Consensus 87 sD~l~fGa~~vlr~ 100 (113)
+|+|.||++.+...
T Consensus 145 kD~lql~~~~~~~~ 158 (310)
T COG0258 145 KDLLQLVSPNVLVI 158 (310)
T ss_pred cchhhhcCCCcEEE
Confidence 99999999995443
No 13
>cd00008 53EXOc 5'-3' exonuclease; T5 type 5'-3' exonuclease domains may co-occur with DNA polymerase I (Pol I) domains, or be part of Pol I containing complexes. They digest dsDNA and ssDNA, releasing mono-,di- and tri-nucleotides, as well as oligonucleotides, and have also been reported to possess RNase H activity. Also called 5' nuclease family, involved in structure-specific cleavage of flaps formed by Pol I activity (similar to mammalian flap endonuclease I, FEN-1). A single nucleic acid strand may be threaded through the 5' nuclease enzyme before cleavage occurs. The domain binds two divalent metal ions which are necessary for activity.
Probab=98.61 E-value=1e-07 Score=74.75 Aligned_cols=54 Identities=28% Similarity=0.372 Sum_probs=47.4
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcc-hHHHHHHHHHH----CCCeeEEEcCCCceeeecCCe
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPC-EAEAQCAAMVK----AGKVYATATEDMDALTFGTNI 96 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~-EAEAqcA~L~k----~G~vd~V~SeDsD~l~fGa~~ 96 (113)
.++..++++|+.||||++. +|+ |||.++|.|.+ .|....|+|+|.|.+.+.++.
T Consensus 85 ~q~~~~~~~l~~~gi~~i~---------------~~~~EADD~ia~la~~~~~~g~~~~I~S~DkD~~ql~~~~ 143 (240)
T cd00008 85 EQIPLIKELLEALGIPVLE---------------IEGYEADDVIGTLAKKAEAEGYKVVIVSGDKDLLQLVSDN 143 (240)
T ss_pred HHHHHHHHHHHHCCCCEEe---------------cCCcCHHHHHHHHHHHHHHcCCeEEEEeCCCChhhhCCCC
Confidence 4567899999999999999 875 99999999985 677889999999999996654
No 14
>PF12813 XPG_I_2: XPG domain containing
Probab=98.45 E-value=4.2e-07 Score=72.12 Aligned_cols=51 Identities=29% Similarity=0.417 Sum_probs=46.2
Q ss_pred HHHHHHHHHHHhh---CCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeecC
Q psy1207 28 VHVKECKELLSLM---GIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFGT 94 (113)
Q Consensus 28 ~~v~~~~~lL~~~---Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa 94 (113)
-++.-+.+.|+.+ |+++++ .|+|||..||.+.++.-+ .|+|.|||.++|.-
T Consensus 4 f~~~~~~e~L~~~~~~~~~~~~---------------~~~EAD~~~A~~A~~~~~-~VLt~DSDf~I~dl 57 (246)
T PF12813_consen 4 FLVPAFIEALRESWRYGVPVVQ---------------CPGEADRECAALARKWGC-PVLTNDSDFLIHDL 57 (246)
T ss_pred chHHHHHHHHHHHhhcCCcEEE---------------cCccchHHHHHHHHHcCC-eEEccCCCEEEecc
Confidence 3567788889988 999999 999999999999987766 99999999999988
No 15
>PRK05755 DNA polymerase I; Provisional
Probab=98.10 E-value=6.2e-06 Score=74.88 Aligned_cols=55 Identities=27% Similarity=0.356 Sum_probs=48.7
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcc-hHHHHHHHHH----HCCCeeEEEcCCCceeeecCCee
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPC-EAEAQCAAMV----KAGKVYATATEDMDALTFGTNIL 97 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~-EAEAqcA~L~----k~G~vd~V~SeDsD~l~fGa~~v 97 (113)
.....++++|+.||||++. +|+ |||.++|.|. +.|....|+|.|.|.+.++++.+
T Consensus 86 ~q~~~~~~~l~~~gi~~~~---------------~~g~EADD~ia~la~~~~~~~~~~~i~S~DkD~~ql~~~~v 145 (880)
T PRK05755 86 EQIPLIRELLRALGIPLLE---------------LEGYEADDVIGTLAKQAEAAGYEVLIVTGDKDLLQLVDDNV 145 (880)
T ss_pred HHHHHHHHHHHHCCCCEEe---------------eCCccHHHHHHHHHHHHHhCCCcEEEEcCCCChhhhCCCCE
Confidence 3466799999999999999 996 9999999998 46889999999999999998753
No 16
>PRK14976 5'-3' exonuclease; Provisional
Probab=98.06 E-value=1.1e-05 Score=65.11 Aligned_cols=55 Identities=24% Similarity=0.293 Sum_probs=47.1
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcc-hHHHHHHHHHHC----CCeeEEEcCCCceeeecCCee
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPC-EAEAQCAAMVKA----GKVYATATEDMDALTFGTNIL 97 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~-EAEAqcA~L~k~----G~vd~V~SeDsD~l~fGa~~v 97 (113)
.....++++|+.||||++. +|+ |||..+|.|.++ |.--.|+|.|.|.+.+.++.+
T Consensus 90 ~q~~~i~~~l~~~gi~~~~---------------~~g~EADDviatla~~~~~~g~~v~IvS~DkDl~ql~~~~v 149 (281)
T PRK14976 90 SQIPLLKKILKLAGIKWEE---------------QPGYEADDLIGSLAKKLSKQNITVLIYSSDKDLLQLVNENT 149 (281)
T ss_pred HHHHHHHHHHHHCCCCEEe---------------cCCcCHHHHHHHHHHHHHHCCCeEEEEeCCCCcCccCCCCe
Confidence 3567789999999999999 996 999999999765 555579999999999998754
No 17
>TIGR00593 pola DNA polymerase I. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=97.88 E-value=2.5e-05 Score=71.88 Aligned_cols=53 Identities=30% Similarity=0.404 Sum_probs=47.2
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcc-hHHHHHHHHHHC----CCeeEEEcCCCceeeecCCee
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPC-EAEAQCAAMVKA----GKVYATATEDMDALTFGTNIL 97 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~-EAEAqcA~L~k~----G~vd~V~SeDsD~l~fGa~~v 97 (113)
+..++++|+.||||++. +|+ |||.++|.|.++ |+...|+|.|.|.+-+.++.+
T Consensus 86 ~~~i~~~l~~~gi~~i~---------------~~g~EADDiIatla~~~~~~g~~v~IvS~DkDllQLv~~~v 143 (887)
T TIGR00593 86 IPLIKELLDALGIPILE---------------VEGYEADDVIATLAKQAEKEGYEVRIISGDKDLLQLVSDNV 143 (887)
T ss_pred HHHHHHHHHHCCCcEEe---------------eCCccHHHHHHHHHHHHHhCCCcEEEEECCCChhhcCCCCE
Confidence 46689999999999999 886 999999999874 888899999999999988753
No 18
>PRK09482 flap endonuclease-like protein; Provisional
Probab=96.27 E-value=0.012 Score=47.57 Aligned_cols=47 Identities=17% Similarity=0.174 Sum_probs=38.3
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcc-hHHHHHHHHHHC----CCeeEEEcCCCceee
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPC-EAEAQCAAMVKA----GKVYATATEDMDALT 91 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~-EAEAqcA~L~k~----G~vd~V~SeDsD~l~ 91 (113)
+..++++++.||||++. +|+ |||-.+|.|.++ |.==.|+|.|-|.+-
T Consensus 86 ~~~i~~~l~~~gi~~~~---------------~~g~EADDvIatla~~~~~~~~~v~I~S~DKDl~Q 137 (256)
T PRK09482 86 LPAIRAAFEELGIDSWH---------------ADGNEADDLIATLAVKVAQAGHQATIVSTDKGYCQ 137 (256)
T ss_pred HHHHHHHHHhCCCCEec---------------cCCcCHHHHHHHHHHHHHHCCCeEEEEECCCCccc
Confidence 45689999999999999 887 999999988764 432357999999863
No 19
>PHA00439 exonuclease
Probab=91.13 E-value=0.63 Score=38.46 Aligned_cols=52 Identities=19% Similarity=0.019 Sum_probs=38.9
Q ss_pred HHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcc-hHHHHHHHHHH----CCC-eeEEEcCCCceeeec
Q psy1207 27 SVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPC-EAEAQCAAMVK----AGK-VYATATEDMDALTFG 93 (113)
Q Consensus 27 ~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~-EAEAqcA~L~k----~G~-vd~V~SeDsD~l~fG 93 (113)
..+..-++++++.+|||++. .|+ |||--++.|.+ .|. -=.|+|.|-|.+-.-
T Consensus 96 ~~~~~~i~el~~~~gi~~i~---------------~~G~EADDvIgtla~~~~~~g~~~vvIvS~DKDl~QLv 153 (286)
T PHA00439 96 VGYRKFLEELMAREEWKSIL---------------EPGLEGDDVMGIIGTNPSLFGFKKAVLVSCDKDFKTIP 153 (286)
T ss_pred hhhHHHHHHHHHhCCCCEEe---------------eCCccHHHHHHHHHHHHHHCCCCeEEEEeCCCCHhhcC
Confidence 44556678999999999998 555 99987777764 454 336899999976543
No 20
>PHA02567 rnh RnaseH; Provisional
Probab=91.07 E-value=0.62 Score=38.89 Aligned_cols=47 Identities=21% Similarity=0.192 Sum_probs=34.9
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcc-hHHHHHHHHHH----CCCeeEEEcCCCceeee
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPC-EAEAQCAAMVK----AGKVYATATEDMDALTF 92 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~-EAEAqcA~L~k----~G~vd~V~SeDsD~l~f 92 (113)
.-++++++.||||++. .|+ |||=-.|.|.+ .|.-=.|+|.|.|.+=.
T Consensus 110 ~ii~el~~~~gi~~l~---------------~~g~EADDvIgTLA~k~~~~g~~VvIvS~DKDl~QL 161 (304)
T PHA02567 110 KIVDEIKENMPYKVMK---------------IDKAEADDIIAVLTKKFSAEGRPVLIVSSDGDFTQL 161 (304)
T ss_pred HHHHHHHHHCCCCEEE---------------eCCccHHHHHHHHHHHHHhCCCcEEEEeCCCChhhc
Confidence 3467888899999999 665 99966555554 55444789999998654
No 21
>PF02739 5_3_exonuc_N: 5'-3' exonuclease, N-terminal resolvase-like domain; InterPro: IPR020046 The N-terminal and internal 5'3'-exonuclease domains are commonly found together, and are most often associated with 5' to 3' nuclease activities. The XPG protein signatures (PDOC00658 from PROSITEDOC) are never found outside the '53EXO' domains. The latter are found in more diverse proteins [, , ]. The number of amino acids that separate the two 53EXO domains, and the presence of accompanying motifs allow the diagnosis of several protein families. In the eubacterial type A DNA-polymerases, the N-terminal and internal domains are separated by a few amino acids, usually four. The pattern DNA_POLYMERASE_A (IPR001098 from INTERPRO) is always present towards the C terminus. Several eukaryotic structure-dependent endonucleases and exonucleases have the 53EXO domains separated by 24 to 27 amino acids, and the XPG protein signatures are always present. In several proteins from herpesviridae, the two 53EXO domains are separated by 50 to 120 amino acids. These proteins are implicated in the inhibition of the expression of the host genes. Eukaryotic DNA repair proteins with 600 to 700 amino acids between the 53_EXO domains all carry the XPG protein signatures. This entry represents the N-terminal resolvase-like domain, which has a 3-layer alpha/beta/alpha core structure and contains an alpha-helical arch [, ].; GO: 0003677 DNA binding, 0008409 5'-3' exonuclease activity; PDB: 1TAQ_A 1BGX_T 1TAU_A 1XO1_B 1EXN_A 1UT8_A 1UT5_B 3H7I_A 3H8J_A 3H8S_A ....
Probab=90.36 E-value=0.34 Score=36.38 Aligned_cols=53 Identities=30% Similarity=0.384 Sum_probs=37.0
Q ss_pred HHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHH----CCCeeEEEcCCCceeeecCC
Q psy1207 29 HVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVK----AGKVYATATEDMDALTFGTN 95 (113)
Q Consensus 29 ~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k----~G~vd~V~SeDsD~l~fGa~ 95 (113)
.+..++++++.+|||++. . .-+|||=..|.|.+ .|.==.|+|.|.|.+=.=..
T Consensus 87 q~~~i~~~l~~~gi~~~~---~-----------~g~EADDvIatla~~~~~~~~~v~IvS~DkD~~QLv~~ 143 (169)
T PF02739_consen 87 QLPYIKELLEALGIPVLE---V-----------PGYEADDVIATLAKKASEEGFEVIIVSGDKDLLQLVDE 143 (169)
T ss_dssp HHHHHHHHHHHTTSEEEE---E-----------TTB-HHHHHHHHHHHHHHTTCEEEEE-SSGGGGGGTCS
T ss_pred HHHHHHHHHHHCCCCEec---C-----------CCCcHHHHHHHHHhhhccCCCEEEEEcCCCCHHHhcCC
Confidence 355689999999999998 1 34799966666654 44434778999998765555
No 22
>PRK00124 hypothetical protein; Validated
Probab=87.93 E-value=1.7 Score=32.88 Aligned_cols=57 Identities=16% Similarity=0.077 Sum_probs=42.9
Q ss_pred HHHHHHHHHHhhCCcEEEec--CCCCCCCC------ccCCCCcchHHHHHHHHHHCCCeeEEEcCCC
Q psy1207 29 HVKECKELLSLMGIPYIEVS--RSPRLLPN------FLGVLAPCEAEAQCAAMVKAGKVYATATEDM 87 (113)
Q Consensus 29 ~v~~~~~lL~~~Gip~i~~~--~~~~~~~~------~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDs 87 (113)
..+++.++-+..|+|++.|. ..+.-.|. ..+-..|..||-..+.+.+.| |.|+|.|-
T Consensus 12 Vk~~i~r~a~r~~i~v~~Vas~n~~~~~~~~~~v~~v~V~~g~D~AD~~Iv~~~~~g--DiVIT~Di 76 (151)
T PRK00124 12 VKDIIIRVAERHGIPVTLVASFNHFLRVPYSPFIRTVYVDAGFDAADNEIVQLAEKG--DIVITQDY 76 (151)
T ss_pred HHHHHHHHHHHHCCeEEEEEeCCcccCCCCCCceEEEEeCCCCChHHHHHHHhCCCC--CEEEeCCH
Confidence 45667788889999999877 44433333 233457889999999999998 99999994
No 23
>cd03041 GST_N_2GST_N GST_N family, 2 repeats of the N-terminal domain of soluble GSTs (2 GST_N) subfamily; composed of uncharacterized proteins. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens, therapeutic drugs, environmental toxins, and products of oxidative stress. GSTs also show GSH peroxidase activity and are involved in the synthesis of prostaglandins and leukotrienes. The GST fold contains an N-terminal TRX-fold domain and a C-terminal alpha helical domain, with an active site located in a cleft between the two domains.
Probab=87.10 E-value=1.2 Score=28.29 Aligned_cols=62 Identities=8% Similarity=0.038 Sum_probs=44.9
Q ss_pred HHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcch-HHHHHHHHHHCCCeeEEEcCCCceeeecCCeeeeccc
Q psy1207 29 HVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCE-AEAQCAAMVKAGKVYATATEDMDALTFGTNILLRQQL 102 (113)
Q Consensus 29 ~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~E-AEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~vlr~~~ 102 (113)
....++.+|+..||||-.+.- .+++ +......++-.|.|..++.+|.|..+|++..+++.+.
T Consensus 12 ~~~kv~~~L~~~gi~y~~~~v------------~~~~~~~~~~~~~~p~~~vP~l~~~~~~~~l~es~~I~~yL~ 74 (77)
T cd03041 12 FCRLVREVLTELELDVILYPC------------PKGSPKRDKFLEKGGKVQVPYLVDPNTGVQMFESADIVKYLF 74 (77)
T ss_pred hHHHHHHHHHHcCCcEEEEEC------------CCChHHHHHHHHhCCCCcccEEEeCCCCeEEEcHHHHHHHHH
Confidence 456788899999999966322 3444 2344556777788999887777899999887776553
No 24
>TIGR00321 dhys deoxyhypusine synthase. This family of apparent orthologs has an unusual UPGMA difference tree, in which the members from the archaea M. jannaschii and P. horikoshii cluster with the known eukaryotic deoxyhypusine synthases. Separated by a fairly deep branch, although still strongly related, is a small cluster of proteins from Methanobacterium thermoautotrophicum and Archeoglobus fulgidus, the latter of which has two.
Probab=86.46 E-value=5.4 Score=33.22 Aligned_cols=69 Identities=14% Similarity=0.104 Sum_probs=52.7
Q ss_pred CHHHHHHHhhhccCCCHHHHHHHHHHHHhh----CCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCC
Q psy1207 11 DAQEIDKFNRRLVRVSSVHVKECKELLSLM----GIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 11 d~~~a~~~~~r~~~vt~~~v~~~~~lL~~~----Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeD 86 (113)
+..+.-+-+.++ ......+.++.++++.| +..++....|+- .|..---..++|.++|+||+|+|.-
T Consensus 12 ~v~~lv~~~~~~-gF~a~~l~~A~~i~~~m~~~~~~~ifLt~tg~m---------vsaGlr~ii~~Li~~g~Vd~ivtTg 81 (301)
T TIGR00321 12 TVCELIDSMGRT-GFQGRRIGEADKIWKEMCFDEEITIFMGYAGNL---------VPSGMREIIAYLIQHGMIDALVTTG 81 (301)
T ss_pred cHHHHHHHHHhc-CccHHHHHHHHHHHHHHHhCCCCeEEEEecccc---------chhhHHHHHHHHHHcCCeeEEEeCC
Confidence 445555555565 77888888888888877 577777666655 7888888899999999999999987
Q ss_pred Cce
Q psy1207 87 MDA 89 (113)
Q Consensus 87 sD~ 89 (113)
.-+
T Consensus 82 anl 84 (301)
T TIGR00321 82 ANL 84 (301)
T ss_pred Cch
Confidence 643
No 25
>PRK00805 putative deoxyhypusine synthase; Provisional
Probab=86.32 E-value=4.2 Score=34.28 Aligned_cols=78 Identities=8% Similarity=0.002 Sum_probs=56.7
Q ss_pred cCCHHHHHHHhhhccCCCHHHHHHHHHHHHhh----CCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEc
Q psy1207 9 TGDAQEIDKFNRRLVRVSSVHVKECKELLSLM----GIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATAT 84 (113)
Q Consensus 9 ~gd~~~a~~~~~r~~~vt~~~v~~~~~lL~~~----Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~S 84 (113)
.++..+.-+-+.++ ......+.++.++++.| +..++....|+- .|..---..++|.++|+||+|+|
T Consensus 11 ~~~~~~lv~~~~~~-gF~A~~l~~A~~i~~~Ml~d~~~~ifL~~tg~m---------vsaGlr~~i~~Li~~g~VD~iVT 80 (329)
T PRK00805 11 ERSISELLDAMADT-GFQGRKLGESVRVWTEMLKDPDNTIFMGLSGAM---------VPAGMRKIIKWLIRNRYVDVLVS 80 (329)
T ss_pred CCCHHHHHHHHHHh-CccHHHHHHHHHHHHHHHhCCCCeEEEEeccch---------HHHHHHHHHHHHHHcCCeeEEEe
Confidence 34566666666666 77777777777777766 666666555544 77777789999999999999999
Q ss_pred CCCce----e-eecCCe
Q psy1207 85 EDMDA----L-TFGTNI 96 (113)
Q Consensus 85 eDsD~----l-~fGa~~ 96 (113)
.-.-+ + ++|.+.
T Consensus 81 Tgani~hD~~~~lg~~~ 97 (329)
T PRK00805 81 TGANIFHDIHEALGFKH 97 (329)
T ss_pred CCCchHHHHHHHcCCCe
Confidence 87643 3 566554
No 26
>PRK02492 deoxyhypusine synthase-like protein; Provisional
Probab=85.40 E-value=4.9 Score=34.14 Aligned_cols=77 Identities=14% Similarity=0.118 Sum_probs=56.3
Q ss_pred CCHHHHHHHhhhccCCCHHHHHHHHHHHHhh----CCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcC
Q psy1207 10 GDAQEIDKFNRRLVRVSSVHVKECKELLSLM----GIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATE 85 (113)
Q Consensus 10 gd~~~a~~~~~r~~~vt~~~v~~~~~lL~~~----Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~Se 85 (113)
.+..+.-+-+.++ -.....+.++.++++.| +..++....|+- .|..---..++|.++|+||+++|.
T Consensus 24 ~~v~~Lv~~~~~~-gF~A~~L~~A~~i~~~Ml~~~~~~ifL~~tgam---------vsaGlr~~i~~Li~~~~VD~iVTT 93 (347)
T PRK02492 24 FDAVPIIDAMGKM-AFQSRDLARAADIYDMMLQDKECAVILTLAGSL---------SSAGCMQVYIDLVRNNMVDAIVAT 93 (347)
T ss_pred CCHHHHHHHHHHh-CccHHHHHHHHHHHHHHHhCCCCeEEEEeccch---------HHHHHHHHHHHHHHcCCeeEEEEC
Confidence 3556666666666 77777777777777766 566666444444 777778899999999999999999
Q ss_pred CC-----cee-eecCCe
Q psy1207 86 DM-----DAL-TFGTNI 96 (113)
Q Consensus 86 Ds-----D~l-~fGa~~ 96 (113)
-. |++ ++|.+.
T Consensus 94 ganl~eeD~~k~~g~~~ 110 (347)
T PRK02492 94 GANIVDQDFFEALGFKH 110 (347)
T ss_pred CCCchHHHHHHHcCCCe
Confidence 77 555 777665
No 27
>PF03159 XRN_N: XRN 5'-3' exonuclease N-terminus; InterPro: IPR004859 Signatures of this entry align residues towards the N terminus of several proteins with multiple functions. The members of this family all appear to possess 5'-3' exonuclease activity 3.1.11 from EC. Thus, the aligned region may be necessary for 5'-3' exonuclease function.; GO: 0003676 nucleic acid binding, 0004527 exonuclease activity, 0005622 intracellular; PDB: 2Y35_A 3PIE_B 3PIF_C 3FQD_A.
Probab=82.88 E-value=0.96 Score=36.13 Aligned_cols=33 Identities=15% Similarity=0.251 Sum_probs=23.3
Q ss_pred CcchHHHHHHHHHHC---------CCeeEEEcCCCceeeecC
Q psy1207 62 APCEAEAQCAAMVKA---------GKVYATATEDMDALTFGT 94 (113)
Q Consensus 62 AP~EAEAqcA~L~k~---------G~vd~V~SeDsD~l~fGa 94 (113)
-|||+|-.+....+. +...+|.+.|+|++++|=
T Consensus 182 vpGEGE~KI~~~IR~~~~~~~~~~n~~h~i~g~DaDlIll~L 223 (237)
T PF03159_consen 182 VPGEGEHKIMDFIRSQRSQPDYDPNTSHCIYGSDADLILLSL 223 (237)
T ss_dssp SSS-HHHHHHHHHHHHHHSTTS-TT--EEEE-SSTHHHHHHH
T ss_pred CCCccHHHHHHHHHHhhhcCCCCCCceEEEEecCHhHHHHHH
Confidence 599999877665543 678999999999998873
No 28
>PRK03971 putative deoxyhypusine synthase; Provisional
Probab=82.07 E-value=11 Score=31.94 Aligned_cols=68 Identities=15% Similarity=0.116 Sum_probs=50.3
Q ss_pred CHHHHHHHhhhccCCCHHHHHHHHHHHHhh-------CCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEE
Q psy1207 11 DAQEIDKFNRRLVRVSSVHVKECKELLSLM-------GIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATA 83 (113)
Q Consensus 11 d~~~a~~~~~r~~~vt~~~v~~~~~lL~~~-------Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~ 83 (113)
+..+.-+.+.++ ......+.++.++++.| +..++....|+- .|..---..++|.++|+||+|+
T Consensus 30 ~~~~l~~~~~~~-gF~A~~l~~A~~i~~~M~~~~~~~~~~ifL~~tg~m---------isaGlr~~i~~Li~~~~Vd~iV 99 (334)
T PRK03971 30 DLEEVLDYYAKI-GFQATHLGKAIKIWKKIEEKRKKEEATVFLGYTSNI---------VSSGLREIIAYLVKEKKVDVIV 99 (334)
T ss_pred CHHHHHHHHHHc-CccHHHHHHHHHHHHHHHhhcccCCCeEEEEccccc---------cchhHHHHHHHHHHcCCeeEEE
Confidence 345555555555 77777777777777766 566666455444 7888889999999999999999
Q ss_pred cCCCc
Q psy1207 84 TEDMD 88 (113)
Q Consensus 84 SeDsD 88 (113)
|.-.-
T Consensus 100 tTgan 104 (334)
T PRK03971 100 TTAGG 104 (334)
T ss_pred eCCCc
Confidence 98763
No 29
>PRK02301 putative deoxyhypusine synthase; Provisional
Probab=81.77 E-value=9.8 Score=31.94 Aligned_cols=76 Identities=9% Similarity=0.133 Sum_probs=54.0
Q ss_pred CHHHHHHHhhhccCCCHHHHHHHHHHHHhh----CCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCC
Q psy1207 11 DAQEIDKFNRRLVRVSSVHVKECKELLSLM----GIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 11 d~~~a~~~~~r~~~vt~~~v~~~~~lL~~~----Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeD 86 (113)
+..+.-+-+.++ ......+.++.++++.| +..++....|+- .|..---..++|.++|+||+|+|.-
T Consensus 24 ~v~~l~~~~~~~-gF~A~~l~~A~~i~~~ml~~~~~~ifL~~tg~m---------vsaGlr~ii~~Li~~~~VD~iVtTg 93 (316)
T PRK02301 24 TVGELVREYGGA-GFGAGRLAEAVDIYEEMLADDDVTKFFGLAGAM---------VPAGMRGIVSDLIRDGHIDVLVTTG 93 (316)
T ss_pred cHHHHHHHHHhc-CccHHHHHHHHHHHHHHHhCCCCeEEEEcccch---------hHHHHHHHHHHHHHcCCeeEEEcCC
Confidence 345555555555 67777777777776665 566666555554 7888889999999999999999987
Q ss_pred Cce----e-eecCCe
Q psy1207 87 MDA----L-TFGTNI 96 (113)
Q Consensus 87 sD~----l-~fGa~~ 96 (113)
.-+ + ++|.+.
T Consensus 94 aniehD~~~~lg~~~ 108 (316)
T PRK02301 94 ANLTHDVIEAIGGHH 108 (316)
T ss_pred CchHHHHHHHcCCCe
Confidence 643 3 666554
No 30
>cd01422 MGS Methylglyoxal synthase catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The first part of the catalytic mechanism is believed to be similar to TIM (triosephosphate isomerase) in that both enzymes utilize DHAP to form an ene-diolate phosphate intermediate. In MGS, the second catalytic step is characterized by the elimination of phosphate and collapse of the enediolate to form methylglyoxal instead of reprotonation to form the isomer glyceraldehyde 3-phosphate, as in TIM. This is the first reaction in the methylglyoxal bypass of the Embden-Myerhoff glycolytic pathway and is believed to provide physiological benefits under non-ideal growth conditions in bacteria.
Probab=79.05 E-value=4.4 Score=28.51 Aligned_cols=37 Identities=19% Similarity=0.312 Sum_probs=29.6
Q ss_pred HHh-hCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcC
Q psy1207 37 LSL-MGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATE 85 (113)
Q Consensus 37 L~~-~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~Se 85 (113)
|+. .|+++-.+ .. .|.|++.++..+.++|-+|+||..
T Consensus 40 L~~~~Gi~v~~v-k~-----------~~~~g~~~i~~~i~~g~i~~VInt 77 (115)
T cd01422 40 IQEATGLTVNRM-KS-----------GPLGGDQQIGALIAEGEIDAVIFF 77 (115)
T ss_pred HHHhhCCcEEEE-ec-----------CCCCchhHHHHHHHcCceeEEEEc
Confidence 444 78888774 32 468999999999999999999765
No 31
>PF08544 GHMP_kinases_C: GHMP kinases C terminal ; InterPro: IPR013750 This domain is found in homoserine kinases (2.7.1.39 from EC), galactokinases (2.7.1.6 from EC) and mevalonate kinases (2.7.1.36 from EC). These kinases make up the GHMP kinase superfamily of ATP-dependent enzymes []. These enzymes are involved in the biosynthesis of isoprenes and amino acids as well as in carbohydrate metabolism. The C-terminal domain of homoserine kinase has a central alpha-beta plait fold and an insertion of four helices, which, together with the N-terminal fold, create a novel nucleotide binding fold [].; PDB: 2R3V_C 4EMD_A 4DXL_A 4ED4_A 2GS8_A 1K47_E 3GON_A 3K17_B 1PIE_A 2AJ4_A ....
Probab=78.79 E-value=7.8 Score=24.38 Aligned_cols=70 Identities=17% Similarity=0.151 Sum_probs=47.6
Q ss_pred hHHHHcCCHHHHHHHhhh--------ccCCCHHHHHHHHHHHHhhC-CcEEEecC--CCCCCCCccCCC-CcchHHHHHH
Q psy1207 4 TLFLLTGDAQEIDKFNRR--------LVRVSSVHVKECKELLSLMG-IPYIEVSR--SPRLLPNFLGVL-APCEAEAQCA 71 (113)
Q Consensus 4 ~~~~~~gd~~~a~~~~~r--------~~~vt~~~v~~~~~lL~~~G-ip~i~~~~--~~~~~~~~~~~~-AP~EAEAqcA 71 (113)
.+++.+||.+...+.... ...+....+.++++.++..| ...-..+. +| +..+++ -+..++....
T Consensus 2 ~~al~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~i~~~~~~~~~~Ga~~~~~sGsG~G~----~v~~l~~~~~~~~~v~~ 77 (85)
T PF08544_consen 2 IKALAEGDLELLGELMNENQENEPENYREVLTPEIDELKEAAEENGALGAKMSGSGGGP----TVFALCKDEDDAERVAE 77 (85)
T ss_dssp HHHHHTTCHHHHHHHHHHHHHHHHHHHTTHHHHHHHHHHHHHHHTTESEEEEETTSSSS----EEEEEESSHHHHHHHHH
T ss_pred HHHHHCcCHHHHHHHHHHhhhhcchHHHHHcCHHHHHHHHHHHHCCCCceecCCCCCCC----eEEEEECCHHHHHHHHH
Confidence 578999999988877552 44456667888888999999 44555455 43 344455 5667777777
Q ss_pred HHHHCC
Q psy1207 72 AMVKAG 77 (113)
Q Consensus 72 ~L~k~G 77 (113)
.|.+.+
T Consensus 78 ~l~~~~ 83 (85)
T PF08544_consen 78 ALREHY 83 (85)
T ss_dssp HHHHHT
T ss_pred HHHHhC
Confidence 776543
No 32
>PF10454 DUF2458: Protein of unknown function (DUF2458); InterPro: IPR018858 This entry represents a family of uncharacterised proteins.
Probab=74.64 E-value=2.4 Score=31.85 Aligned_cols=39 Identities=28% Similarity=0.553 Sum_probs=33.3
Q ss_pred CHHHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecC
Q psy1207 11 DAQEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSR 49 (113)
Q Consensus 11 d~~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~ 49 (113)
+..|.++|-.+...-...|+.....-|+.+|||++.+..
T Consensus 88 ~~~EL~~fD~kV~~a~~~m~~~~~~~L~~LgVPfF~~~~ 126 (150)
T PF10454_consen 88 DEAELDKFDEKVYKASKQMSKEQQAELKELGVPFFYIKE 126 (150)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCCCeeeCCC
Confidence 345778888888888999999999999999999998433
No 33
>PRK01221 putative deoxyhypusine synthase; Provisional
Probab=72.55 E-value=23 Score=29.70 Aligned_cols=70 Identities=13% Similarity=0.064 Sum_probs=47.8
Q ss_pred CHHHHHHHhhhccCCCHHHHHHHHHHHHhh---CCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCC
Q psy1207 11 DAQEIDKFNRRLVRVSSVHVKECKELLSLM---GIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDM 87 (113)
Q Consensus 11 d~~~a~~~~~r~~~vt~~~v~~~~~lL~~~---Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDs 87 (113)
+..+.-.-+.++.......+.++.++++.| +-.++....|+- -|.=---..++|.++|+||+++|.-.
T Consensus 21 ~~~~lv~~~~~~~gF~a~~l~~A~~i~~~ml~d~~~ifL~~tg~m---------vs~Glr~ii~~Li~~~~VD~iVtTga 91 (312)
T PRK01221 21 SISDLIEVYRKIGGFMAGHIVRASEILKEMISDADLRFLSFTANL---------VSTGLRGLIADLIKRGLFNVVITTCG 91 (312)
T ss_pred CHHHHHHHhhccCCcchHHHHHHHHHHHHHHcCCCeEEEEecchh---------HHHHHHHHHHHHHHcCCeeEEEeCCC
Confidence 345555556666677777888888888877 224444333332 34446678999999999999999876
Q ss_pred ce
Q psy1207 88 DA 89 (113)
Q Consensus 88 D~ 89 (113)
-+
T Consensus 92 ni 93 (312)
T PRK01221 92 TL 93 (312)
T ss_pred ch
Confidence 43
No 34
>cd08556 GDPD Glycerophosphodiester phosphodiesterase domain as found in prokaryota and eukaryota, and similar proteins. The typical glycerophosphodiester phosphodiesterase domain (GDPD) consists of a TIM barrel and a small insertion domain named the GDPD-insertion (GDPD-I) domain, which is specific for GDPD proteins. This family corresponds to both typical GDPD domain and GDPD-like domain which lacks the GDPD-I region. Members in this family mainly consist of a large family of prokaryotic and eukaryotic glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46), and a number of uncharacterized homologs. Sphingomyelinases D (SMases D) (sphingomyelin phosphodiesterase D, EC 3.1.4.41) from spider venom, SMases D-like proteins, and phospholipase D (PLD) from several pathogenic bacteria are also included in this family. GDPD plays an essential role in glycerol metabolism and catalyzes the hydrolysis of glycerophosphodiesters to sn-glycerol-3-phosphate (G3P) and the corresponding alcoho
Probab=72.23 E-value=8 Score=27.48 Aligned_cols=40 Identities=15% Similarity=0.142 Sum_probs=27.7
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCC
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeD 86 (113)
.+..+.++..|++++. -.-.-.++..++.+.| ||+|+|++
T Consensus 150 ~~~i~~~~~~g~~v~~---------------wtvn~~~~~~~~~~~G-VdgI~TD~ 189 (189)
T cd08556 150 PELVRAAHAAGLKVYV---------------WTVNDPEDARRLLALG-VDGIITDD 189 (189)
T ss_pred HHHHHHHHHcCCEEEE---------------EcCCCHHHHHHHHHCC-CCEEecCC
Confidence 4556666778999776 2222356777788888 89999974
No 35
>cd00532 MGS-like MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase, which catalyzes the enolization of dihydroxyacetone phosphate (DHAP) to produce methylglyoxal. The family also includes the C-terminal domain in carbamoyl phosphate synthetase (CPS) where it catalyzes the last phosphorylation of a coaboxyphosphate intermediate to form the product carbamoyl phosphate and may also play a regulatory role. This family also includes inosine monophosphate cyclohydrolase. The known structures in this family show a common phosphate binding site.
Probab=67.91 E-value=8.7 Score=26.46 Aligned_cols=38 Identities=29% Similarity=0.322 Sum_probs=28.1
Q ss_pred HHHHhhCCcEEEecCCCCCCCCccCCCCcch-HHHHHHHHHHC-CCeeEEEcC
Q psy1207 35 ELLSLMGIPYIEVSRSPRLLPNFLGVLAPCE-AEAQCAAMVKA-GKVYATATE 85 (113)
Q Consensus 35 ~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~E-AEAqcA~L~k~-G~vd~V~Se 85 (113)
+.|+..|+++..+. .+.| .+.+...+.++ |.+|+||.-
T Consensus 36 ~~L~~~Gi~~~~v~-------------~~~~~g~~~i~~~i~~~g~idlVIn~ 75 (112)
T cd00532 36 RVLADAGIPVRAVS-------------KRHEDGEPTVDAAIAEKGKFDVVINL 75 (112)
T ss_pred HHHHHcCCceEEEE-------------ecCCCCCcHHHHHHhCCCCEEEEEEc
Confidence 34555788876533 3455 67899999999 999999873
No 36
>PRK00770 deoxyhypusine synthase-like protein; Provisional
Probab=67.78 E-value=24 Score=30.34 Aligned_cols=67 Identities=15% Similarity=0.166 Sum_probs=46.9
Q ss_pred CHHHHHHHhhhccCCCHHHHHHHHHHHH-hh---CCcEEEecCCCCCCCCccCCCCcchHH-HHHHHHHHCCCeeEEEcC
Q psy1207 11 DAQEIDKFNRRLVRVSSVHVKECKELLS-LM---GIPYIEVSRSPRLLPNFLGVLAPCEAE-AQCAAMVKAGKVYATATE 85 (113)
Q Consensus 11 d~~~a~~~~~r~~~vt~~~v~~~~~lL~-~~---Gip~i~~~~~~~~~~~~~~~~AP~EAE-AqcA~L~k~G~vd~V~Se 85 (113)
+..+.-.-+.++ .......++.++++ .| +.+++....|+- .|..-- --+++|.++|+||+|+|.
T Consensus 19 sv~~ll~~~~~~--F~A~~L~~A~~il~~~m~~~~~tvfLtltgam---------isaGLr~~ii~~LIr~g~VD~IVTT 87 (384)
T PRK00770 19 SVVDLIDVYFTA--YNSARLREACQLLAQRMIDDGVTVGLTLSGAM---------TPAGFGVSALAPLIEAGFIDWIIST 87 (384)
T ss_pred CHHHHHHHHHHH--hchHHHHHHHHHHHHHHHhcCCcEEEEeccch---------hhhhcChHHHHHHHHcCCccEEEcC
Confidence 344433333343 67777777777776 44 688877555544 677777 789999999999999998
Q ss_pred CCc
Q psy1207 86 DMD 88 (113)
Q Consensus 86 DsD 88 (113)
-.-
T Consensus 88 GAn 90 (384)
T PRK00770 88 GAN 90 (384)
T ss_pred Ccc
Confidence 764
No 37
>COG0788 PurU Formyltetrahydrofolate hydrolase [Nucleotide transport and metabolism]
Probab=67.09 E-value=12 Score=31.25 Aligned_cols=44 Identities=16% Similarity=0.262 Sum_probs=33.9
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEE
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATA 83 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~ 83 (113)
.+.+.+.+.+||||+.++-.+- ..-|+|++...|..+--+|+|+
T Consensus 128 ~dl~~~v~~~~IPfhhip~~~~---------~k~e~E~~~~~ll~~~~~DlvV 171 (287)
T COG0788 128 DDLRPLVERFDIPFHHIPVTKE---------NKAEAEARLLELLEEYGADLVV 171 (287)
T ss_pred HHHHHHHHHcCCCeeeccCCCC---------cchHHHHHHHHHHHHhCCCEEe
Confidence 4678889999999999555433 3578999988888776688775
No 38
>PRK00994 F420-dependent methylenetetrahydromethanopterin dehydrogenase; Provisional
Probab=66.70 E-value=15 Score=30.53 Aligned_cols=48 Identities=27% Similarity=0.434 Sum_probs=38.2
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeecCCe
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFGTNI 96 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~ 96 (113)
..+++|+.-|||+|++|++ |+.-.. -.|..+|+-+.++.-|+ +-|+++
T Consensus 78 ~ARE~l~~~~iP~IvI~D~------------p~~K~~--d~l~~~g~GYIivk~Dp---MIGArR 125 (277)
T PRK00994 78 KAREILKAAGIPCIVIGDA------------PGKKVK--DAMEEQGLGYIIVKADP---MIGARR 125 (277)
T ss_pred HHHHHHHhcCCCEEEEcCC------------CccchH--HHHHhcCCcEEEEecCc---cccchh
Confidence 3788999999999999994 555443 67999999999999887 446654
No 39
>cd01424 MGS_CPS_II Methylglyoxal synthase-like domain from type II glutamine-dependent carbamoyl phosphate synthetase (CSP). CSP, a CarA and CarB heterodimer, catalyzes the production of carbamoyl phosphate which is subsequently employed in the metabolic pathways responsible for the synthesis of pyrimidine nucleotides or arginine. The MGS-like domain is the C-terminal domain of CarB and appears to play a regulatory role in CPS function by binding allosteric effector molecules, including UMP and ornithine.
Probab=60.37 E-value=22 Score=24.04 Aligned_cols=37 Identities=22% Similarity=0.326 Sum_probs=27.3
Q ss_pred HHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcC
Q psy1207 36 LLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATE 85 (113)
Q Consensus 36 lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~Se 85 (113)
.|+..|+++-.+. .|.+++.+...+.++|.+|+|+.-
T Consensus 38 ~l~~~gi~~~~v~-------------~~~~~~~~i~~~i~~~~id~vIn~ 74 (110)
T cd01424 38 YLQEAGIPVEVVN-------------KVSEGRPNIVDLIKNGEIQLVINT 74 (110)
T ss_pred HHHHcCCeEEEEe-------------ecCCCchhHHHHHHcCCeEEEEEC
Confidence 4555777754422 355788899999999999999883
No 40
>smart00088 PINT motif in proteasome subunits, Int-6, Nip-1 and TRIP-15. Also called the PCI (Proteasome, COP9, Initiation factor 3) domain. Unknown function.
Probab=58.39 E-value=26 Score=22.46 Aligned_cols=32 Identities=16% Similarity=0.202 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHCCCeeEEEcCCCceeeecCCe
Q psy1207 65 EAEAQCAAMVKAGKVYATATEDMDALTFGTNI 96 (113)
Q Consensus 65 EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~ 96 (113)
|+|..+..+.+.|.+++-+.....++.|+...
T Consensus 40 ~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~ 71 (88)
T smart00088 40 EVEKLVSKAIRDGEISAKIDQVNGIVEFEEVD 71 (88)
T ss_pred HHHHHHHHHHHCCCeEEEEcCcCCEEEECCCc
Confidence 79999999999999999999999999998763
No 41
>smart00753 PAM PCI/PINT associated module.
Probab=58.39 E-value=26 Score=22.46 Aligned_cols=32 Identities=16% Similarity=0.202 Sum_probs=29.9
Q ss_pred hHHHHHHHHHHCCCeeEEEcCCCceeeecCCe
Q psy1207 65 EAEAQCAAMVKAGKVYATATEDMDALTFGTNI 96 (113)
Q Consensus 65 EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~ 96 (113)
|+|..+..+.+.|.+++-+.....++.|+...
T Consensus 40 ~vE~~i~~~i~~~~l~~~ID~~~~~v~~~~~~ 71 (88)
T smart00753 40 EVEKLVSKAIRDGEISAKIDQVNGIVEFEEVD 71 (88)
T ss_pred HHHHHHHHHHHCCCeEEEEcCcCCEEEECCCc
Confidence 79999999999999999999999999998763
No 42
>PF02639 DUF188: Uncharacterized BCR, YaiI/YqxD family COG1671; InterPro: IPR003791 This entry describes proteins of unknown function.
Probab=58.13 E-value=15 Score=26.85 Aligned_cols=53 Identities=21% Similarity=0.093 Sum_probs=34.0
Q ss_pred HHHHHHhhCCcEEEecCCCCCCCC---ccC---CCCcchHHHHHHHHHHCCCeeEEEcCCC
Q psy1207 33 CKELLSLMGIPYIEVSRSPRLLPN---FLG---VLAPCEAEAQCAAMVKAGKVYATATEDM 87 (113)
Q Consensus 33 ~~~lL~~~Gip~i~~~~~~~~~~~---~~~---~~AP~EAEAqcA~L~k~G~vd~V~SeDs 87 (113)
+.++-+..|+|++.|...+--.+. ... -..+..||-..+..++. -|.|||.|.
T Consensus 2 i~~~a~r~~i~vi~Van~~h~~~~~~~~~~i~Vd~g~DaaD~~I~~~~~~--gDiVITqDi 60 (130)
T PF02639_consen 2 IIRVAKRYGIPVIFVANYSHRLPRSPYVEMIVVDSGFDAADFYIVNHAKP--GDIVITQDI 60 (130)
T ss_pred HHHHHHHHCCEEEEEeCCCccCCCCCCeEEEEECCCCChHHHHHHHcCCC--CCEEEECCH
Confidence 456677889998888776654444 111 22455566555555555 588999994
No 43
>PF01399 PCI: PCI domain; InterPro: IPR000717 A homology domain of unclear function, occurs in the C-terminal region of several regulatory components of the 26S proteasome as well as in other proteins. This domain has also been called the PINT motif (Proteasome, Int-6, Nip-1 and TRIP-15) []. Apparently, all of the characterised proteins containing PCI domains are parts of larger multi-protein complexes. Proteins with PCI domains include budding yeast proteasome regulatory components Rpn3(Sun2), Rpn5, Rpn6, Rpn7and Rpn9 []; mammalian proteasome regulatory components p55, p58 and p44.5, and translation initiation factor 3 complex subunits p110 and INT6 [, ]; Arabidopsis COP9 and FUS6/COP11 []; mammalian G-protein pathway suppressor GPS1, and several uncharacterised ORFs from plant, nematodes and mammals. The complete homology domain comprises approx. 200 residues, the highest conservation is found in the C-terminal half. Several of the proteins mentioned above have no detectable homology to the N-terminal half of the domain.; GO: 0005515 protein binding; PDB: 3TXM_A 3TXN_A 1UFM_A 3CHM_A 3T5X_A 3T5V_B.
Probab=57.94 E-value=23 Score=22.72 Aligned_cols=32 Identities=16% Similarity=0.214 Sum_probs=28.8
Q ss_pred CcchHHHHHHHHHHCCCeeEEEcCCCceeeec
Q psy1207 62 APCEAEAQCAAMVKAGKVYATATEDMDALTFG 93 (113)
Q Consensus 62 AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fG 93 (113)
...|.|.-++.|...|.+.|-|..-.-++.|+
T Consensus 73 ~~~~vE~~l~~~I~~~~i~~~ID~~~~~v~~~ 104 (105)
T PF01399_consen 73 SEEEVESILIDLISNGLIKAKIDQVNGVVVFS 104 (105)
T ss_dssp CHHHHHHHHHHHHHTTSSEEEEETTTTEEEE-
T ss_pred chHHHHHHHHHHHHCCCEEEEEECCCCEEEec
Confidence 45899999999999999999999999999886
No 44
>COG1899 DYS1 Deoxyhypusine synthase [Posttranslational modification, protein turnover, chaperones]
Probab=55.75 E-value=68 Score=27.28 Aligned_cols=68 Identities=12% Similarity=0.043 Sum_probs=43.6
Q ss_pred HHHHHHHhhhccCCCHHHHHHHHHHHHhhC---CcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 12 AQEIDKFNRRLVRVSSVHVKECKELLSLMG---IPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 12 ~~~a~~~~~r~~~vt~~~v~~~~~lL~~~G---ip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
..+.-..+.+..-.....+.++-++++.|= +.+.....|+. -|.=----.|+|.|+|+||+|+|.-+-
T Consensus 22 ~~eli~~~~~~~gF~a~~l~eA~~I~~~m~~~~~tvfl~~tg~~---------vssGlR~iia~LIr~~~idvvVTTgg~ 92 (318)
T COG1899 22 VSELIDEMYKTGGFQARRLAEAVEILREMLESRVTVFLGLTGNL---------VSSGLREIIADLIRNGLIDVVVTTGGN 92 (318)
T ss_pred HHHHHHHHHhhccccchhHHHHHHHHHHHHhhcCEEEEeccccc---------cchhHHHHHHHHHHcCCeEEEEecCCc
Confidence 344555455666667777777666666442 33444333332 444446678999999999999998664
No 45
>cd08555 PI-PLCc_GDPD_SF Catalytic domain of phosphoinositide-specific phospholipase C-like phosphodiesterases superfamily. The PI-PLC-like phosphodiesterases superfamily represents the catalytic domains of bacterial phosphatidylinositol-specific phospholipase C (PI-PLC, EC 4.6.1.13), eukaryotic phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11), glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46), sphingomyelinases D (SMases D) (sphingomyelin phosphodiesterase D, EC 3.1.4.41) from spider venom, SMases D-like proteins, and phospholipase D (PLD) from several pathogenic bacteria, as well as their uncharacterized homologs found in organisms ranging from bacteria and archaea to metazoans, plants, and fungi. PI-PLCs are ubiquitous enzymes hydrolyzing the membrane lipid phosphoinositides to yield two important second messengers, inositol phosphates and diacylglycerol (DAG). GP-GDEs play essential roles in glycerol metabolism and catalyze the hydrolysis of glycerophosph
Probab=55.29 E-value=26 Score=25.68 Aligned_cols=41 Identities=10% Similarity=0.058 Sum_probs=26.0
Q ss_pred CHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcch-HHHHHHHHHHCCCeeEEEcCC
Q psy1207 26 SSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCE-AEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 26 t~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~E-AEAqcA~L~k~G~vd~V~SeD 86 (113)
++++++.+ +..|.+++. -+-. ......+|.+.| ||+|+|+.
T Consensus 138 ~~~~v~~~----~~~g~~v~~---------------wtvn~~~~~~~~l~~~G-vd~i~TD~ 179 (179)
T cd08555 138 DTELIASA----NKLGLLSRI---------------WTVNDNNEIINKFLNLG-VDGLITDF 179 (179)
T ss_pred CHHHHHHH----HHCCCEEEE---------------EeeCChHHHHHHHHHcC-CCEEeCCC
Confidence 45555544 447888766 2222 255566777888 99999873
No 46
>TIGR00305 probable toxin-antitoxin system toxin component, PIN family. This uncharacterized protein family, part of the PIN domain superfamily, is restricted to bacteria and archaea. A comprehensive in silico study of toxin-antitoxin systems by Makarova, et al. (2009) finds evidence this family represents the toxin-like component of one class of type 2 toxin-antitoxin systems.
Probab=54.37 E-value=50 Score=22.31 Aligned_cols=29 Identities=24% Similarity=0.163 Sum_probs=25.3
Q ss_pred cchHHHHHHHHHHCCCeeEEEcCCCceee
Q psy1207 63 PCEAEAQCAAMVKAGKVYATATEDMDALT 91 (113)
Q Consensus 63 P~EAEAqcA~L~k~G~vd~V~SeDsD~l~ 91 (113)
|-..|+-...+...|-+|+++|.|-|.|.
T Consensus 85 ~D~~D~~~l~~A~~~~ad~iVT~Dkdll~ 113 (114)
T TIGR00305 85 RDKKDNKFLNTAYASKANALITGDTDLLV 113 (114)
T ss_pred CCchhHHHHHHHHhcCCCEEEECCHHHhh
Confidence 77888888888899999999999999763
No 47
>cd08568 GDPD_TmGDE_like Glycerophosphodiester phosphodiesterase domain of Thermotoga maritime and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Thermotoga maritime glycerophosphodiester phosphodiesterase (TmGDE, EC 3.1.4.46) and its uncharacterized homologs. Members in this family show high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. TmGDE exists as a monomer that might be the biologically relevant form.
Probab=54.25 E-value=36 Score=25.77 Aligned_cols=42 Identities=17% Similarity=0.175 Sum_probs=25.6
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCce
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDA 89 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~ 89 (113)
.+..+.++..|++++.- -.-+ +.+...|. .+ ||+|+|++-|.
T Consensus 184 ~~~v~~~~~~G~~v~~W--------------Tvn~-~~~~~~l~-~~-vdgiiTD~p~~ 225 (226)
T cd08568 184 VELLRLLRKLGLKIVLW--------------TVND-PELVPKLK-GL-VDGVITDDVEK 225 (226)
T ss_pred HHHHHHHHHCCCEEEEE--------------cCCC-HHHHHHHH-hh-CCEEEccCccc
Confidence 35555677789997661 1111 12333454 46 99999998764
No 48
>TIGR00114 lumazine-synth 6,7-dimethyl-8-ribityllumazine synthase. Archaeal members of this family are considered putative, although included in the seed and scoring above the trusted cutoff.
Probab=54.05 E-value=37 Score=25.09 Aligned_cols=46 Identities=20% Similarity=0.254 Sum_probs=35.2
Q ss_pred CCCHHHHHHHHHHHHhhCCc-----EEEecCCCCCCCCccCCCCcchHH--HHHHHHHHCCCeeEEEc
Q psy1207 24 RVSSVHVKECKELLSLMGIP-----YIEVSRSPRLLPNFLGVLAPCEAE--AQCAAMVKAGKVYATAT 84 (113)
Q Consensus 24 ~vt~~~v~~~~~lL~~~Gip-----~i~~~~~~~~~~~~~~~~AP~EAE--AqcA~L~k~G~vd~V~S 84 (113)
.+|..+.+.+.+.|+..|++ .+. -||-=| .-+..|.++|-.|+|+.
T Consensus 13 ~i~~~L~~ga~~~l~~~g~~~~~i~v~~---------------VPGa~EiP~a~~~l~~~~~~DavI~ 65 (138)
T TIGR00114 13 DITDMLLKGAIDALKRLGAEVDNIDVIW---------------VPGAFELPLAVKKLAETGKYDAVIA 65 (138)
T ss_pred HHHHHHHHHHHHHHHHcCCCccceEEEE---------------CCcHHHHHHHHHHHHhcCCCCEEEE
Confidence 46788999999999999986 444 566555 55567888888898864
No 49
>PRK05234 mgsA methylglyoxal synthase; Validated
Probab=53.65 E-value=21 Score=26.27 Aligned_cols=20 Identities=20% Similarity=0.238 Sum_probs=18.1
Q ss_pred HHHHHHHHHHCCCeeEEEcC
Q psy1207 66 AEAQCAAMVKAGKVYATATE 85 (113)
Q Consensus 66 AEAqcA~L~k~G~vd~V~Se 85 (113)
++.+++.+.++|.+|+||.-
T Consensus 63 g~~~i~~~I~~g~i~lVInt 82 (142)
T PRK05234 63 GDQQIGALIAEGKIDMLIFF 82 (142)
T ss_pred CchhHHHHHHcCceeEEEEe
Confidence 67999999999999999874
No 50
>COG0655 WrbA Multimeric flavodoxin WrbA [General function prediction only]
Probab=53.44 E-value=25 Score=26.47 Aligned_cols=66 Identities=14% Similarity=0.192 Sum_probs=44.0
Q ss_pred cCCCHHHHHHHHHHHHhhCCcEEE--ecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCC-----------Cce
Q psy1207 23 VRVSSVHVKECKELLSLMGIPYIE--VSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATED-----------MDA 89 (113)
Q Consensus 23 ~~vt~~~v~~~~~lL~~~Gip~i~--~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeD-----------sD~ 89 (113)
..-|..+++.+.+-++..|+.+-. +.+-. +.|+++...|..-.. .++-+| +|.
T Consensus 13 ~G~t~~l~~~~~~g~~~~G~E~~~i~v~~~~---------i~~c~~c~~c~~~~~-----c~~~dD~~~~i~~~l~~aD~ 78 (207)
T COG0655 13 NGNTAKLAEAVLEGAEEAGAEVEIIRLPEKN---------IKPCTGCFACWKKKP-----CVIKDDDMNEIYEKLLEADG 78 (207)
T ss_pred CCcHHHHHHHHHHHHHHcCCEEEEEEecCCC---------cccchHHHhhhccCC-----CCCCcccHHHHHHHHHHCCE
Confidence 455778888898888888887444 33322 267887777654332 555555 699
Q ss_pred eeecCCeeeeccc
Q psy1207 90 LTFGTNILLRQQL 102 (113)
Q Consensus 90 l~fGa~~vlr~~~ 102 (113)
++||+|.=.-+++
T Consensus 79 iI~gsPvy~g~vs 91 (207)
T COG0655 79 IIFGSPVYFGNVS 91 (207)
T ss_pred EEEeCCeecCCch
Confidence 9999997444443
No 51
>PF06792 UPF0261: Uncharacterised protein family (UPF0261); InterPro: IPR008322 The proteins in this entry are functionally uncharacterised.
Probab=52.60 E-value=45 Score=29.04 Aligned_cols=50 Identities=14% Similarity=0.175 Sum_probs=41.0
Q ss_pred ccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEc
Q psy1207 22 LVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATAT 84 (113)
Q Consensus 22 ~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~S 84 (113)
+.-+|..-+..+++.|+.-|+.+++ +=|-|-+-.-.-.|.++|.+|+|+.
T Consensus 192 mfGvTTp~V~~~~~~Le~~G~Ev~V-------------FHAtG~GG~aME~Li~~G~~~~VlD 241 (403)
T PF06792_consen 192 MFGVTTPCVDAIRERLEEEGYEVLV-------------FHATGTGGRAMERLIREGQFDGVLD 241 (403)
T ss_pred CCCCcHHHHHHHHHHHHhcCCeEEE-------------EcCCCCchHHHHHHHHcCCcEEEEE
Confidence 4557788899999999999998776 2277788888899999999998873
No 52
>cd08562 GDPD_EcUgpQ_like Glycerophosphodiester phosphodiesterase domain in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase UgpQ and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Escherichia coli cytosolic glycerophosphodiester phosphodiesterase (GP-GDE, EC 3.1.4.46), UgpQ, and similar proteins. GP-GDE plays an essential role in the metabolic pathway of E. coli. It catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols, which are major sources of carbon and phosphate. E. coli possesses two major G3P uptake systems: Glp and Ugp, which contain genes coding for two distinct GP-GDEs. UgpQ gene from the E. coli ugp operon codes for a cytosolic phosphodiesterase GlpQ, which is the prototype of this family. Various glycerophosphodiesters, such as glycerophosphocholine (GPC), glycerophosphoethanolanmine (GPE), glycerophosphoglycerol (GPG)
Probab=52.42 E-value=28 Score=25.95 Aligned_cols=39 Identities=23% Similarity=0.204 Sum_probs=25.5
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCC
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeD 86 (113)
+..+.++..|+++.. ----.+++..+|.+.| ||+|+|++
T Consensus 190 ~~v~~~~~~g~~v~~---------------wTvn~~~~~~~~~~~g-VdgiiTD~ 228 (229)
T cd08562 190 EQVKALKDAGYKLLV---------------YTVNDPARAAELLEWG-VDAIFTDR 228 (229)
T ss_pred HHHHHHHHCCCEEEE---------------EeCCCHHHHHHHHHCC-CCEEEcCC
Confidence 455566677888764 1111235667777777 89999975
No 53
>COG0138 PurH AICAR transformylase/IMP cyclohydrolase PurH (only IMP cyclohydrolase domain in Aful) [Nucleotide transport and metabolism]
Probab=51.19 E-value=19 Score=32.35 Aligned_cols=53 Identities=30% Similarity=0.424 Sum_probs=45.7
Q ss_pred HHHHHHhhCCcEEEecCCCC-----------CCCCccC-CCCcchHHHHHHHHHHCCC--eeEEEcC
Q psy1207 33 CKELLSLMGIPYIEVSRSPR-----------LLPNFLG-VLAPCEAEAQCAAMVKAGK--VYATATE 85 (113)
Q Consensus 33 ~~~lL~~~Gip~i~~~~~~~-----------~~~~~~~-~~AP~EAEAqcA~L~k~G~--vd~V~Se 85 (113)
..++|+.-|||+..||.-+. |||++-+ +++.-.-+-.++.|..+|+ +|.|+.+
T Consensus 35 Tak~l~eaGi~V~~Vs~~TgfpE~ldGRVKTLHP~ihgGiL~~r~~~~h~~~l~e~~I~~iDlVvvN 101 (515)
T COG0138 35 TAKLLAEAGIPVTEVSDITGFPEMLDGRVKTLHPKIHGGILARRDKDEHMAALEEHGIEPIDLVVVN 101 (515)
T ss_pred HHHHHHhCCCCCCchhhccCChhHhCCcceeeccccccceeeccccHHHHHHHHHcCCCCccEEEEc
Confidence 56788899999999988665 8898877 8899999999999999998 8888865
No 54
>smart00851 MGS MGS-like domain. This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in Carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. This family also includes inosicase. The known structures in this family show a common phosphate binding site PUBMED:10526357.
Probab=50.77 E-value=20 Score=23.47 Aligned_cols=40 Identities=13% Similarity=0.146 Sum_probs=27.1
Q ss_pred HHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCC
Q psy1207 35 ELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 35 ~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeD 86 (113)
+.|+..||++-... -.++|.......+.++|.+|+||..-
T Consensus 24 ~~L~~~Gi~~~~~~------------~ki~~~~~~i~~~i~~g~id~VIn~~ 63 (90)
T smart00851 24 KFLREAGLPVKTLH------------PKVHGGILAILDLIKNGEIDLVINTL 63 (90)
T ss_pred HHHHHCCCcceecc------------CCCCCCCHHHHHHhcCCCeEEEEECC
Confidence 45666788762100 14566555688899999999999853
No 55
>PF02879 PGM_PMM_II: Phosphoglucomutase/phosphomannomutase, alpha/beta/alpha domain II; InterPro: IPR005845 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 II 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: 2F7L_A 3PDK_B 1KFQ_B 1KFI_A 1C47_A 1VKL_B 1LXT_A 1JDY_B 3PMG_A 1C4G_B ....
Probab=50.65 E-value=47 Score=22.03 Aligned_cols=56 Identities=23% Similarity=0.280 Sum_probs=35.1
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccC--CCCcc-hHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLG--VLAPC-EAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~--~~AP~-EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
.-+..+++.+|+.++.....|. ++|.. .--|. |+=.++..+.+..-.|+.+.-|+|
T Consensus 35 ~~~~~ll~~lg~~~~~~n~~~d--~~f~~~~~p~p~~~~l~~~~~~v~~~~ad~g~~~DgD 93 (104)
T PF02879_consen 35 DILPRLLERLGCDVIELNCDPD--PDFPNQHAPNPEEESLQRLIKIVRESGADLGIAFDGD 93 (104)
T ss_dssp HHHHHHHHHTTCEEEEESSS-S--TTGTTTSTSSTSTTTTHHHHHHHHHSTTSEEEEE-TT
T ss_pred HHHHHHHHHcCCcEEEEecccc--cccccccccccccchhHHHHHHhhccCceEEEEECCc
Confidence 4467789999998888666554 33433 33454 344666666666666888777776
No 56
>PF11553 DUF3231: Protein of unknown function (DUF3231); InterPro: IPR021617 This bacterial family of proteins has no known function. ; PDB: 2RBD_B.
Probab=50.64 E-value=13 Score=27.18 Aligned_cols=41 Identities=24% Similarity=0.437 Sum_probs=29.2
Q ss_pred HHHcCCHHHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEE
Q psy1207 6 FLLTGDAQEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIE 46 (113)
Q Consensus 6 ~~~~gd~~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~ 46 (113)
++..-.-++.+++.++...++..+++.+.++|+..|+|.=.
T Consensus 39 f~~~~~D~dik~~l~~~~~~~~~~i~~l~~ll~~e~ip~P~ 79 (166)
T PF11553_consen 39 FLQVAEDKDIKKLLKKGLDLSQKQIEQLEKLLKEEGIPVPP 79 (166)
T ss_dssp HHHH---HHHHHHHHHHHHHHHHHHHHHHHHHHHTT-----
T ss_pred HHHHcCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCCC
Confidence 34444456789999999999999999999999999999766
No 57
>PF01993 MTD: methylene-5,6,7,8-tetrahydromethanopterin dehydrogenase; InterPro: IPR002844 This archaeal enzyme family is involved in formation of methane from carbon dioxide 1.5.99.9 from EC. The enzyme requires coenzyme F420 [].; GO: 0008901 ferredoxin hydrogenase activity, 0015948 methanogenesis, 0055114 oxidation-reduction process; PDB: 1U6I_D 3IQF_G 1QV9_C 3IQE_F 1U6J_G 3IQZ_D 1U6K_B.
Probab=50.27 E-value=41 Score=28.01 Aligned_cols=48 Identities=29% Similarity=0.445 Sum_probs=32.3
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeecCCe
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFGTNI 96 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~ 96 (113)
..+++|+.-|||+|++|++ |+.-. --.|..+|+-+.++.-|+ +-|+++
T Consensus 77 ~ARE~l~~~~iP~IvI~D~------------p~~k~--kd~l~~~g~GYIivk~Dp---MIGArR 124 (276)
T PF01993_consen 77 KAREMLSAKGIPCIVISDA------------PTKKA--KDALEEEGFGYIIVKADP---MIGARR 124 (276)
T ss_dssp HHHHHHHHSSS-EEEEEEG------------GGGGG--HHHHHHTT-EEEEETTS---------T
T ss_pred HHHHHHHhCCCCEEEEcCC------------Cchhh--HHHHHhcCCcEEEEecCc---cccccc
Confidence 4889999999999999995 54432 246999999999999886 345553
No 58
>PF01916 DS: Deoxyhypusine synthase; InterPro: IPR002773 Eukaryotic initiation factor 5A (eIF-5A), now considered to be an elongation factor (see IPR001884 from INTERPRO), contains an unusual amino acid, hypusine [N epsilon-(4-aminobutyl-2-hydroxy)lysine]. The first step in the post-translational formation of hypusine is catalysed by the enzyme deoxyhypusine synthase (DS) 2.5.1.46 from EC. The enzyme catalyses the following reaction: Spermidine + [eIF-5A]-lysine = 1,3-diaminopropane + [eIF-5A]-deoxyhypusine The modified version of eIF-5A, and DS, are required for eukaryotic cell proliferation []. The structure is known for this enzyme [] in complex with its NAD+ cofactor.; GO: 0008612 peptidyl-lysine modification to hypusine; PDB: 1RQD_A 1RLZ_A 1DHS_A 1ROZ_B.
Probab=49.23 E-value=26 Score=29.08 Aligned_cols=46 Identities=17% Similarity=0.099 Sum_probs=29.5
Q ss_pred HHHHHHhh----CCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCC
Q psy1207 33 CKELLSLM----GIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDM 87 (113)
Q Consensus 33 ~~~lL~~~----Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDs 87 (113)
++++++.- +..++....|+- .|.+----.++|.++|+||+|+|.-.
T Consensus 25 ~~~M~~~~~~~~~~tifLt~aGam---------vsaGLr~ii~~LIr~g~Vd~IvtTga 74 (299)
T PF01916_consen 25 LKEMLSDDRSKQDCTIFLTFAGAM---------VSAGLRGIIADLIRNGYVDVIVTTGA 74 (299)
T ss_dssp HHHHHHHHS---SSEEEEEE-THH---------HHSTHHHHHHHHHHTT--SEEEE-HH
T ss_pred HHHHHhhcccccCCeEEEEccccc---------ccccHHHHHHHHHhCCceEEEEeCCC
Confidence 44444444 566666444444 67777778999999999999999743
No 59
>PF00205 TPP_enzyme_M: Thiamine pyrophosphate enzyme, central domain; InterPro: IPR012000 A number of enzymes require thiamine pyrophosphate (TPP) (vitamin B1) as a cofactor. It has been shown [] that some of these enzymes are structurally related. This central domain of TPP enzymes contains a 2-fold Rossman fold. ; GO: 0000287 magnesium ion binding, 0030976 thiamine pyrophosphate binding; PDB: 1OZH_C 1OZF_B 1OZG_B 2Q29_B 2Q28_A 2Q27_B 1OVM_B 1PVD_A 1PYD_B 2VK1_C ....
Probab=49.16 E-value=43 Score=23.18 Aligned_cols=66 Identities=30% Similarity=0.314 Sum_probs=41.2
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCC----CCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeec
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPR----LLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFG 93 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~----~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fG 93 (113)
....+++++.+..|+|++.+..+.- -||.+.|+....-..+...+|....+|=++-+.=+|...+|
T Consensus 26 ~a~~~l~~lae~~~~Pv~~t~~~kg~i~~~hp~~~G~~g~~~~~~~~~~l~~aDlvl~iG~~~~~~~~~~ 95 (137)
T PF00205_consen 26 GAAEELRELAEKLGIPVATTPMGKGVIPEDHPLFLGYLGLFGSPAANEALEQADLVLAIGTRLSDFNTYG 95 (137)
T ss_dssp TCHHHHHHHHHHHTSEEEEEGGGTTSSTTTSTTEEEESCGGSCHHHHHHHHHSSEEEEESSSSSTTTTTT
T ss_pred hHHHHHHHHHHHHCCCEEecCccccccCCCCchhcccCCccCCHHHHHHhcCCCEEEEECCCCccccccc
Confidence 3457799999999999999766543 46777775554444555566666555533333333334444
No 60
>PRK09454 ugpQ cytoplasmic glycerophosphodiester phosphodiesterase; Provisional
Probab=48.74 E-value=27 Score=27.02 Aligned_cols=44 Identities=18% Similarity=0.320 Sum_probs=27.8
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCcee
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDAL 90 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l 90 (113)
.+..+.++..|++++.-. +=.|. +..+|.+.| ||+|+|++-|.+
T Consensus 199 ~~~v~~~~~~g~~v~~WT-----------vn~~~----~~~~l~~~G-VdgIiTD~p~~~ 242 (249)
T PRK09454 199 EARVAALKAAGLRILVYT-----------VNDPA----RARELLRWG-VDCICTDRIDLI 242 (249)
T ss_pred HHHHHHHHHCCCEEEEEe-----------CCCHH----HHHHHHHcC-CCEEEeCChHhc
Confidence 345566677788866410 11233 345677777 999999988854
No 61
>cd08582 GDPD_like_2 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized bacterial glycerophosphodiester phosphodiesterase and similar proteins. They show high sequence similarity to Escherichia coli glycerophosphodiester phosphodiesterase, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=47.37 E-value=39 Score=25.55 Aligned_cols=41 Identities=12% Similarity=0.121 Sum_probs=25.3
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
+..+.++..|++++. =.---.++..+|.+.| ||+|+|++-|
T Consensus 192 ~~v~~~~~~G~~v~~---------------wTvn~~~~~~~l~~~G-Vdgi~TD~p~ 232 (233)
T cd08582 192 AFIKALRDAGLKLNV---------------WTVDDAEDAKRLIELG-VDSITTNRPG 232 (233)
T ss_pred HHHHHHHHCCCEEEE---------------EeCCCHHHHHHHHHCC-CCEEEcCCCC
Confidence 344456667888764 1111134566777777 8999998643
No 62
>KOG2520|consensus
Probab=46.95 E-value=5 Score=37.72 Aligned_cols=62 Identities=26% Similarity=0.320 Sum_probs=56.1
Q ss_pred CHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeecCCeeeeccc
Q psy1207 26 SSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFGTNILLRQQL 102 (113)
Q Consensus 26 t~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~vlr~~~ 102 (113)
+.+..+..+.++..++.+.+. ++++.+++|-...-.+++|..+..|+|.+.||....|.+..
T Consensus 224 d~s~~k~~r~l~~~~~d~~~~---------------~~~~~~~~~d~~~~~~~~~~~~e~~~~~~~~~~e~~i~~~~ 285 (815)
T KOG2520|consen 224 DESVIKITRKLVDLENDAPIE---------------AKDKSETLCDGNSVSGLVDFIIESDSDILKFGGENLIKEDS 285 (815)
T ss_pred ChHHHHHHHHHHHhhccchhh---------------hcccccccCCcccccchhhcccccchHHhhcccccccccch
Confidence 466777889999999999999 99999999999999999999999999999999998877643
No 63
>TIGR00289 conserved hypothetical protein TIGR00289. Homologous proteins related to MJ0570 of Methanococcus jannaschii include both the apparent orthologs found by this model above the trusted cutoff, the much longer protein YLR143W from Saccharomyces cerevisiae, and second homologous proteins from Archaeoglobus fulgidus and Pyrococcus horikoshii that appear to represent a second orthologous group.
Probab=46.75 E-value=57 Score=25.81 Aligned_cols=44 Identities=18% Similarity=0.226 Sum_probs=26.8
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcc--hH--HHHHHHHHHCCCeeEEEcCCCc
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPC--EA--EAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~--EA--EAqcA~L~k~G~vd~V~SeDsD 88 (113)
+.++..-+.||||.+.+- .|+ |+ |.....|.+.| |++|++.|-+
T Consensus 48 ~~~~~qA~algiPl~~~~-------------~~~~~e~~~~~l~~~l~~~g-v~~vv~GdI~ 95 (222)
T TIGR00289 48 HLTDLVAEAVGIPLIKLY-------------TSGEEEKEVEDLAGQLGELD-VEALCIGAIE 95 (222)
T ss_pred HHHHHHHHHcCCCeEEEE-------------cCCchhHHHHHHHHHHHHcC-CCEEEECccc
Confidence 345667889999976521 233 33 34445555555 7777777655
No 64
>COG1671 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.10 E-value=83 Score=24.04 Aligned_cols=57 Identities=18% Similarity=0.138 Sum_probs=37.9
Q ss_pred HHHHHHHHHHhhCCcEEEecCCCCCCCCccC----CCCc--chHHHHHHHHHHCCCeeEEEcCCC
Q psy1207 29 HVKECKELLSLMGIPYIEVSRSPRLLPNFLG----VLAP--CEAEAQCAAMVKAGKVYATATEDM 87 (113)
Q Consensus 29 ~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~----~~AP--~EAEAqcA~L~k~G~vd~V~SeDs 87 (113)
...++.+.-..+|++++.|+..|.-.++... ++.+ .-||-..+.+++. -|.|+|.|-
T Consensus 13 Vk~~i~r~A~r~~~~v~~Van~~~~~~~~~~i~~v~V~~g~DaaD~~Iv~~a~~--gDlVVT~Di 75 (150)
T COG1671 13 VKDEIYRVAERMGLKVTFVANFPHRVPPSPEIRTVVVDAGFDAADDWIVNLAEK--GDLVVTADI 75 (150)
T ss_pred hHHHHHHHHHHhCCeEEEEeCCCccCCCCCceeEEEecCCcchHHHHHHHhCCC--CCEEEECch
Confidence 4566788889999999999887763333322 3333 3355556655555 588999984
No 65
>cd08575 GDPD_GDE4_like Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE4-like proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE4 (also known as glycerophosphodiester phosphodiesterase domain-containing protein 1 (GDPD1)) and similar proteins. Mammalian GDE4 is a transmembrane protein whose cellular function is not elucidated. It is expressed widely, including in placenta, liver, kidney, pancreas, spleen, thymus, ovary, small intestine and peripheral blood leukocytes. It is also expressed in the growth cones in neuroblastoma Neuro2a cells, which suggests mammalian GDE4 may play some distinct role from other members of mammalian GDEs family. Also included in this subfamily are uncharacterized mammalian glycerophosphodiester phosphodiesterase domain-containing protein 3 (GDPD3) and similar proteins which display very high sequence homology to mammalian GDE4.
Probab=45.38 E-value=36 Score=26.66 Aligned_cols=22 Identities=14% Similarity=0.138 Sum_probs=16.9
Q ss_pred HHHHHHHHHCCCeeEEEcCCCce
Q psy1207 67 EAQCAAMVKAGKVYATATEDMDA 89 (113)
Q Consensus 67 EAqcA~L~k~G~vd~V~SeDsD~ 89 (113)
..+...|.+.| ||+|+|++-|.
T Consensus 242 ~~~~~~l~~~G-VdgIiTD~P~~ 263 (264)
T cd08575 242 EEDFEEAFDLG-ADGVMTDSPTK 263 (264)
T ss_pred HHHHHHHHhcC-CCEEEeCCccc
Confidence 34556778888 99999998764
No 66
>PF03009 GDPD: Glycerophosphoryl diester phosphodiesterase family; InterPro: IPR004129 Glycerophosphoryl diester phosphodiesterases display broad specificity for glycerophosphodiesters; glycerophosphocholine, glycerophosphoethanolamine, glycerophosphoglycerol, and bis(glycerophosphoglycerol) all of which are are hydrolysed by this enzyme.; GO: 0008889 glycerophosphodiester phosphodiesterase activity, 0006071 glycerol metabolic process; PDB: 3I10_A 2P76_H 2OOG_F 3KS6_D 3KS5_A 2PZ0_B 1YDY_B 1T8Q_A 1O1Z_A 3L12_B ....
Probab=44.94 E-value=31 Score=25.14 Aligned_cols=42 Identities=12% Similarity=0.040 Sum_probs=24.8
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchH-HHHHHHHHHCCCeeEEEcCCCc
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEA-EAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EA-EAqcA~L~k~G~vd~V~SeDsD 88 (113)
+..+.++..|++++.- -..+. .++..+|.+.| ||+|+|++-|
T Consensus 213 ~~v~~~~~~g~~v~~w--------------tvn~~~~~~~~~l~~~g-vdgIiTD~P~ 255 (256)
T PF03009_consen 213 RLVQEAHKAGLKVYVW--------------TVNDPDVEDMKRLLDLG-VDGIITDFPD 255 (256)
T ss_dssp HHHHHHHHTT-EEEEB--------------SB-SHSHHHHHHHHHHT--SEEEES-HH
T ss_pred HHHHHHHHCCCEEEEE--------------ecCCcHHHHHHHHHhCC-CCEEEEcCCC
Confidence 3556677889887761 11121 36666777776 9999998754
No 67
>PRK02399 hypothetical protein; Provisional
Probab=44.48 E-value=68 Score=28.04 Aligned_cols=48 Identities=15% Similarity=0.183 Sum_probs=39.7
Q ss_pred CCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEc
Q psy1207 24 RVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATAT 84 (113)
Q Consensus 24 ~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~S 84 (113)
-+|..-+..+++.|+..|+.+++ +=|-|-+-.-...|.++|.+|+|+.
T Consensus 195 GvTtp~v~~~~~~Le~~GyEvlV-------------FHATG~GGraME~Li~~G~~~gVlD 242 (406)
T PRK02399 195 GVTTPCVQAAREELEARGYEVLV-------------FHATGTGGRAMEKLIDSGLIAGVLD 242 (406)
T ss_pred CCcHHHHHHHHHHHHhCCCeEEE-------------EcCCCCchHHHHHHHHcCCceEEEE
Confidence 56778899999999999988766 2267778888899999999998873
No 68
>cd08565 GDPD_pAtGDE_like Glycerophosphodiester phosphodiesterase domain of putative Agrobacterium tumefaciens glycerophosphodiester phosphodiesterase and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in putative Agrobacterium tumefaciens glycerophosphodiester phosphodiesterase (pAtGDE, EC 3.1.4.46) and its uncharacterized homologs. Members in this family show high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=44.08 E-value=43 Score=25.82 Aligned_cols=23 Identities=17% Similarity=0.166 Sum_probs=18.3
Q ss_pred HHHHHHHHHCCCeeEEEcCCCcee
Q psy1207 67 EAQCAAMVKAGKVYATATEDMDAL 90 (113)
Q Consensus 67 EAqcA~L~k~G~vd~V~SeDsD~l 90 (113)
+++...|.+.| ||+|+|+.-|.+
T Consensus 212 ~~~~~~l~~~G-VdgIiTD~P~~~ 234 (235)
T cd08565 212 DSLIRYWLACG-VRQLTTDRPDLA 234 (235)
T ss_pred HHHHHHHHHcC-CCEEEeCCcccc
Confidence 45667888888 999999987754
No 69
>cd08601 GDPD_SaGlpQ_like Glycerophosphodiester phosphodiesterase domain of Staphylococcus aureus and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in uncharacterized glycerophosphodiester phosphodiesterase (GP-GDE, EC 3.1.4.46) from Staphylococcus aureus, Bacillus subtilis and similar proteins. Members in this family show very high sequence similarity to Escherichia coli periplasmic phosphodiesterase GlpQ, which catalyzes the Ca2+-dependent degradation of periplasmic glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=44.01 E-value=28 Score=26.80 Aligned_cols=44 Identities=18% Similarity=0.112 Sum_probs=28.8
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCcee
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDAL 90 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l 90 (113)
.+..+.++..|++++. =----.++...|.+.| ||+|+|+..|.+
T Consensus 208 ~~~v~~~~~~g~~v~~---------------wTvn~~~~~~~l~~~G-vd~IiTD~p~~~ 251 (256)
T cd08601 208 PWMVHLIHKKGLLVHP---------------YTVNEKADMIRLINWG-VDGMFTNYPDRL 251 (256)
T ss_pred HHHHHHHHHCCCEEEE---------------EecCCHHHHHHHHhcC-CCEEEeCCHHHH
Confidence 4566677888998766 1111234445666777 899999988754
No 70
>COG1109 {ManB} Phosphomannomutase [Carbohydrate transport and metabolism]
Probab=44.01 E-value=59 Score=27.78 Aligned_cols=57 Identities=28% Similarity=0.297 Sum_probs=40.2
Q ss_pred HHHHHHHHhhCCcEEEecCCCC-CCCCccCCCCcchHHH-HHHHHHHCCCeeEEEcCCCce
Q psy1207 31 KECKELLSLMGIPYIEVSRSPR-LLPNFLGVLAPCEAEA-QCAAMVKAGKVYATATEDMDA 89 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~-~~~~~~~~~AP~EAEA-qcA~L~k~G~vd~V~SeDsD~ 89 (113)
.-..++|+.+|+.++....-|. ++|+.- -.|.+.+. +++..++.+-+|+-+.-|+|.
T Consensus 192 ~~~~~ll~~lG~~vv~~~~~pDg~fp~~~--p~p~~~~~~~l~~~v~~~~aDlgia~DgDa 250 (464)
T COG1109 192 LVAPRLLKELGAEVVSINCDPDGLFPNIN--PNPGETELLDLAKAVKEHGADLGIAFDGDA 250 (464)
T ss_pred HHHHHHHHHcCCEEEEecCCCCCCCCCCC--CCCCCccHHHHHHHHHhcCCCEEEEecCCC
Confidence 4578899999988888765555 232222 45666663 588888887889888888774
No 71
>PF14229 DUF4332: Domain of unknown function (DUF4332)
Probab=43.56 E-value=77 Score=22.50 Aligned_cols=44 Identities=23% Similarity=0.152 Sum_probs=37.5
Q ss_pred hhHHHHcCCHHHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEE
Q psy1207 3 LTLFLLTGDAQEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIE 46 (113)
Q Consensus 3 ~~~~~~~gd~~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~ 46 (113)
..++++.|+.+..++-..+...++...+.+...+-+++-||-|-
T Consensus 19 ~~~Ll~~~~~~~~r~~La~~~~i~~~~l~~w~~~AdL~ri~gi~ 62 (122)
T PF14229_consen 19 TGDLLEAGDTPLGRKALAKKLGISERNLLKWVNQADLMRIPGIG 62 (122)
T ss_pred HHHHHHcCCCHHHHHHHHHhcCCCHHHHHHHHhHHHhhhcCCCC
Confidence 46788899999999888888999999999999888888777665
No 72
>PF07719 TPR_2: Tetratricopeptide repeat; InterPro: IPR013105 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. This repeat includes outlying Tetratricopeptide-like repeats (TPR) that are not matched by IPR001440 from INTERPRO.; PDB: 1XNF_B 3Q15_A 4ABN_A 1OUV_A 3U4T_A 3MA5_C 2KCV_A 2KCL_A 2XEV_A 3NF1_A ....
Probab=43.19 E-value=8.8 Score=19.88 Aligned_cols=22 Identities=9% Similarity=0.297 Sum_probs=17.3
Q ss_pred HHHcCCHHHHHHHhhhccCCCH
Q psy1207 6 FLLTGDAQEIDKFNRRLVRVSS 27 (113)
Q Consensus 6 ~~~~gd~~~a~~~~~r~~~vt~ 27 (113)
....|+.++|.+++++++.+.|
T Consensus 11 ~~~~~~~~~A~~~~~~al~l~p 32 (34)
T PF07719_consen 11 YYQLGNYEEAIEYFEKALELDP 32 (34)
T ss_dssp HHHTT-HHHHHHHHHHHHHHST
T ss_pred HHHhCCHHHHHHHHHHHHHHCc
Confidence 5678999999999999877654
No 73
>PRK13010 purU formyltetrahydrofolate deformylase; Reviewed
Probab=42.71 E-value=59 Score=26.60 Aligned_cols=44 Identities=16% Similarity=0.268 Sum_probs=31.3
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEc
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATAT 84 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~S 84 (113)
+++++.+..|||++.++..|. ...|.|++...+.+.--+|+++.
T Consensus 132 ~~~~~A~~~gIp~~~~~~~~~---------~~~~~~~~~~~~l~~~~~Dlivl 175 (289)
T PRK13010 132 DLQPLAVQHDIPFHHLPVTPD---------TKAQQEAQILDLIETSGAELVVL 175 (289)
T ss_pred hHHHHHHHcCCCEEEeCCCcc---------cccchHHHHHHHHHHhCCCEEEE
Confidence 456888999999998655432 45566777776666666788754
No 74
>PRK12419 riboflavin synthase subunit beta; Provisional
Probab=42.62 E-value=57 Score=24.87 Aligned_cols=46 Identities=15% Similarity=0.180 Sum_probs=34.5
Q ss_pred CCCHHHHHHHHHHHHhhCCc-----EEEecCCCCCCCCccCCCCcchHH--HHHHHHHHCCCeeEEEc
Q psy1207 24 RVSSVHVKECKELLSLMGIP-----YIEVSRSPRLLPNFLGVLAPCEAE--AQCAAMVKAGKVYATAT 84 (113)
Q Consensus 24 ~vt~~~v~~~~~lL~~~Gip-----~i~~~~~~~~~~~~~~~~AP~EAE--AqcA~L~k~G~vd~V~S 84 (113)
.||..+++-+.+.|+..|++ ++. -||-=| ..+..|.+.|..|+|+.
T Consensus 23 ~It~~Ll~gA~~~l~~~G~~~~~i~v~~---------------VPGA~EiP~~a~~l~~~~~yDaiIa 75 (158)
T PRK12419 23 DIVDQARKGFVAEIAARGGAASQVDIFD---------------VPGAFEIPLHAQTLAKTGRYAAIVA 75 (158)
T ss_pred HHHHHHHHHHHHHHHHcCCCccceEEEE---------------CCcHHHHHHHHHHHHhcCCCCEEEE
Confidence 46788899999999999964 444 566555 55567888888888853
No 75
>cd08581 GDPD_like_1 Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized bacterial glycerophosphodiester phosphodiesterase and similar proteins. They show high sequence similarity to Escherichia coli glycerophosphodiester phosphodiesterase, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=42.15 E-value=35 Score=26.19 Aligned_cols=19 Identities=26% Similarity=0.363 Sum_probs=13.7
Q ss_pred HHHHHHHHHCCCeeEEEcCC
Q psy1207 67 EAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 67 EAqcA~L~k~G~vd~V~SeD 86 (113)
+++...|...| ||+++|+.
T Consensus 210 ~~~~~~l~~~G-VdgiiTD~ 228 (229)
T cd08581 210 PAEALALAARG-VALIETDN 228 (229)
T ss_pred HHHHHHHHHhC-CcEEEcCC
Confidence 34556777777 89999874
No 76
>cd08579 GDPD_memb_like Glycerophosphodiester phosphodiesterase domain of uncharacterized bacterial glycerophosphodiester phosphodiesterases. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in uncharacterized bacterial glycerophosphodiester phosphodiesterases. In addition to a C-terminal GDPD domain, most members in this family have an N-terminus that functions as a membrane anchor.
Probab=41.89 E-value=50 Score=24.70 Aligned_cols=18 Identities=17% Similarity=0.152 Sum_probs=10.8
Q ss_pred HHHHHHHHCCCeeEEEcCC
Q psy1207 68 AQCAAMVKAGKVYATATED 86 (113)
Q Consensus 68 AqcA~L~k~G~vd~V~SeD 86 (113)
.+...|...| ||+|+|+.
T Consensus 202 ~~~~~~~~~G-vd~i~TD~ 219 (220)
T cd08579 202 DDMQRYLAMG-VDGIITDY 219 (220)
T ss_pred HHHHHHHHcC-CCEEeCCC
Confidence 3345555555 77777763
No 77
>TIGR00970 leuA_yeast 2-isopropylmalate synthase, yeast type. A larger family of homologous proteins includes homocitrate synthase, distinct lineages of 2-isopropylmalate synthase, several distinct, uncharacterized, orthologous sets in the Archaea, and other related enzymes. This model describes a family of 2-isopropylmalate synthases as found in yeasts and in a minority of studied bacteria.
Probab=40.79 E-value=97 Score=27.71 Aligned_cols=47 Identities=19% Similarity=0.299 Sum_probs=32.9
Q ss_pred hccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHH-HHHHHHCCC
Q psy1207 21 RLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQ-CAAMVKAGK 78 (113)
Q Consensus 21 r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAq-cA~L~k~G~ 78 (113)
-.+.+|.+.--++.+.|..+||.+|.++ -| +|.++|++ +..+.+.|+
T Consensus 41 ~g~~~s~e~Ki~ia~~L~~~Gvd~IE~G-fp----------~~s~~D~e~v~~i~~~~l 88 (564)
T TIGR00970 41 LPDPMSPARKRRYFDLLVRIGFKEIEVG-FP----------SASQTDFDFVREIIEQGA 88 (564)
T ss_pred CCCCCCHHHHHHHHHHHHHcCCCEEEEe-CC----------CCCHHHHHHHHHHHHhcC
Confidence 3567788888889999999999999966 33 55556644 333444544
No 78
>PF02142 MGS: MGS-like domain This is a subfamily of this family; InterPro: IPR011607 This domain composes the whole protein of methylglyoxal synthetase and the domain is also found in carbamoyl phosphate synthetase (CPS) where it forms a regulatory domain that binds to the allosteric effector ornithine. The known structures in this domain show a common phosphate binding site []. ; PDB: 4A1O_A 3ZZM_A 1ZCZ_A 1M6V_C 1CS0_C 1C30_E 1C3O_G 1BXR_A 1T36_E 1A9X_A ....
Probab=40.68 E-value=56 Score=21.62 Aligned_cols=42 Identities=21% Similarity=0.248 Sum_probs=26.7
Q ss_pred HHHHHhhCCcEEEecCCCCCCCCccCCCCc--chHHHHHHHHHHCCCeeEEEc
Q psy1207 34 KELLSLMGIPYIEVSRSPRLLPNFLGVLAP--CEAEAQCAAMVKAGKVYATAT 84 (113)
Q Consensus 34 ~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP--~EAEAqcA~L~k~G~vd~V~S 84 (113)
-+.|+..||++..+..-.- .| -..+.+...+.+.|.+|+||.
T Consensus 23 a~~L~~~Gi~~~~v~~~~~---------~~~~~~g~~~i~~~i~~~~IdlVIn 66 (95)
T PF02142_consen 23 AKFLKEHGIEVTEVVNKIG---------EGESPDGRVQIMDLIKNGKIDLVIN 66 (95)
T ss_dssp HHHHHHTT--EEECCEEHS---------TG-GGTHCHHHHHHHHTTSEEEEEE
T ss_pred HHHHHHcCCCceeeeeecc---------cCccCCchhHHHHHHHcCCeEEEEE
Confidence 3567889999665332111 22 244568999999999999884
No 79
>KOG4044|consensus
Probab=40.61 E-value=42 Score=26.72 Aligned_cols=36 Identities=17% Similarity=0.260 Sum_probs=28.9
Q ss_pred HHHhhhccCCCHHHHHHHHHHHH---hhCCcEEEecCCC
Q psy1207 16 DKFNRRLVRVSSVHVKECKELLS---LMGIPYIEVSRSP 51 (113)
Q Consensus 16 ~~~~~r~~~vt~~~v~~~~~lL~---~~Gip~i~~~~~~ 51 (113)
+.-||-++..-++++....+||+ .++||+|++-+=|
T Consensus 24 QEKFrpai~yf~~iIs~~~rLl~aaril~vP~ivTEqYP 62 (201)
T KOG4044|consen 24 QEKFRPAIPYFPSIISVTTRLLAAARILQVPVIVTEQYP 62 (201)
T ss_pred HhhhcccchhhHHHHHHHHHHHHhhhhhCCcEEeecccc
Confidence 34567788889999999988886 7999999965533
No 80
>TIGR01684 viral_ppase viral phosphatase. These proteins also include an N-terminal domain (ca. 125 aas) that is unique to this clade.
Probab=40.40 E-value=54 Score=27.55 Aligned_cols=57 Identities=11% Similarity=-0.044 Sum_probs=34.9
Q ss_pred cCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCcee
Q psy1207 23 VRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDAL 90 (113)
Q Consensus 23 ~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l 90 (113)
+++...-+.++-+-|+..|+++..+|-++ ..+++..+..+.-.++-|.|++.+.=.=
T Consensus 144 v~irdPgV~EaL~~LkekGikLaIaTS~~-----------Re~v~~~L~~lGLd~YFdvIIs~Gdv~~ 200 (301)
T TIGR01684 144 VRIRDPRIYDSLTELKKRGCILVLWSYGD-----------RDHVVESMRKVKLDRYFDIIISGGHKAE 200 (301)
T ss_pred cccCCHHHHHHHHHHHHCCCEEEEEECCC-----------HHHHHHHHHHcCCCcccCEEEECCcccc
Confidence 44554555667777888899988877654 3455544444443333477887776433
No 81
>TIGR01489 DKMTPPase-SF 2,3-diketo-5-methylthio-1-phosphopentane phosphatase. Note that SP|P53981 from S. cerevisiae, a member of this family, is annotated as a "probable membrane protein" due to a predicted transmembrane helix. The region in question contains the second of the three conserved HAD superfamily catalytic motifs and thus, considering the fold of the HAD catalytic domain, is unlikely to be a transmembrane region in fact.
Probab=40.03 E-value=1.3e+02 Score=21.02 Aligned_cols=53 Identities=11% Similarity=0.109 Sum_probs=28.9
Q ss_pred cCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCC
Q psy1207 23 VRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDM 87 (113)
Q Consensus 23 ~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDs 87 (113)
..+.+. +.++.+-|+..|+++..+|.+++ .-.+..+..+.-.++.|.|+|.+.
T Consensus 71 ~~l~~g-~~~ll~~l~~~g~~~~i~S~~~~-----------~~~~~~l~~~~l~~~f~~i~~~~~ 123 (188)
T TIGR01489 71 APIDPG-FKEFIAFIKEHGIDFIVISDGND-----------FFIDPVLEGIGEKDVFIEIYSNPA 123 (188)
T ss_pred CCCCcc-HHHHHHHHHHcCCcEEEEeCCcH-----------HHHHHHHHHcCChhheeEEeccCc
Confidence 355554 33445556677999888777632 233443333322334566776544
No 82
>PF04422 FrhB_FdhB_N: Coenzyme F420 hydrogenase/dehydrogenase, beta subunit N-term; InterPro: IPR007516 Coenzyme F420 hydrogenase (1.12.99.1 from EC) reduces the low-potential two-electron acceptor coenzyme F420. This entry contains the N termini of F420 hydrogenase and dehydrogenase beta subunits [, ]. The N terminus of Methanobacterium formicicum formate dehydrogenase beta chain (1.2.1.2 from EC, P06130 from SWISSPROT) is also represented in this entry []. This region is often found in association with the 4Fe-4S binding domain, fer4 (IPR001450 from INTERPRO), and the C terminus IPR007525 from INTERPRO.
Probab=39.98 E-value=30 Score=22.88 Aligned_cols=25 Identities=16% Similarity=0.081 Sum_probs=20.4
Q ss_pred CcchHHHHHHHHHHCCCeeEEEcCC
Q psy1207 62 APCEAEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 62 AP~EAEAqcA~L~k~G~vd~V~SeD 86 (113)
+-|=.-|-+++|-++|+||+|+.-.
T Consensus 19 sGG~vTaLl~~lLe~g~Vd~vv~~~ 43 (82)
T PF04422_consen 19 SGGVVTALLAYLLESGLVDGVVVVG 43 (82)
T ss_pred cHHHHHHHHHHHHHcCCceEEEEEe
Confidence 4555678999999999999998644
No 83
>PF00885 DMRL_synthase: 6,7-dimethyl-8-ribityllumazine synthase; InterPro: IPR002180 6,7-dimethyl-8-ribityllumazine synthase (riboflavin synthase) catalyses the biosynthesis of riboflavin according to the reaction: 2 6,7-dimethyl-8-(1-D-ribityl)lumazine = riboflavin + 4-(1-D-ribitylamino)-5-amino-2,6-dihydroxypyrimidine. The biosynthesis of one riboflavin molecule requires one molecule of GTP and two molecules of ribulose 5-phosphate as substrates. The final step in the biosynthesis of the vitamin involves the dismutation of 6,7-dimethyl-8-ribityllumazine catalyzed by riboflavin synthase. The second product, 5-amino-6-ribitylamino-2,4(1H,3H)-pyrimidinedione, is recycled in the biosynthetic pathway by 6,7-dimethyl-8-ribityllumazine synthase []. N-[2,4-dioxo-6-d-ribitylamino-1,2,3,4-tetrahydropyrimidin-5-yl]oxalamic acid derivatives inhibit riboflavin synthase []. This family includes the beta chain of 6,7-dimethyl-8-ribityllumazine synthase 2.5.1.9 from EC. The family also includes a subfamily of distant archaebacterial proteins that may also have the same function for example O28856 from SWISSPROT.; GO: 0009231 riboflavin biosynthetic process, 0009349 riboflavin synthase complex; PDB: 2O6H_D 1C41_C 2OBX_H 1VSX_H 1VSW_3 3JV8_C 3MK3_r 3NQ4_G 2A58_A 2A57_D ....
Probab=39.27 E-value=62 Score=23.86 Aligned_cols=46 Identities=17% Similarity=0.252 Sum_probs=35.6
Q ss_pred CCHHHHHHHHHHHHhhCC-----cEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEE
Q psy1207 25 VSSVHVKECKELLSLMGI-----PYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATA 83 (113)
Q Consensus 25 vt~~~v~~~~~lL~~~Gi-----p~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~ 83 (113)
++..+++.+.+.|+..|+ ..+. -| ..+|-=.-+..|.+.|-.|+|+
T Consensus 17 i~~~ll~~a~~~l~~~g~~~~~i~~~~---VP----------Ga~ElP~a~~~l~~~~~~Davi 67 (144)
T PF00885_consen 17 ITDRLLEGALEELKRHGVAEENIEVIR---VP----------GAFELPLAAKRLAESGRYDAVI 67 (144)
T ss_dssp HHHHHHHHHHHHHHHTTTTGGCEEEEE---ES----------SGGGHHHHHHHHHHCSTESEEE
T ss_pred HHHHHHHHHHHHHHHcCCCccceEEEE---cC----------CHHHHHHHHHHHhcccCccEEE
Confidence 567788889999999998 3444 12 3567778888999999999985
No 84
>cd08609 GDPD_GDE3 Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE3 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE3 (also known as glycerophosphodiester phosphodiesterase domain-containing protein 2 (GDPD2), Osteoblast differentiation promoting factor) and their metazoan homologs. Mammalian GDE3 is a transmembrane protein specifically expressed in bone tissues and spleen. It is a mammalian homolog of bacterial glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46), which catalyzes the hydrolysis of various glycerophosphodiesters, and produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. Mammalian GDE3 has been characterized as glycerophosphoinositol inositolphosphodiesterase (EC 3.1.4.43) that selectively hydrolyzes extracellular glycerophosphoinositol (GPI) to generate inositol 1-phosphate (Ins1P) and glycerol. Mammalia
Probab=38.77 E-value=54 Score=27.01 Aligned_cols=22 Identities=14% Similarity=0.057 Sum_probs=17.3
Q ss_pred HHHHHHHHHCCCeeEEEcCCCce
Q psy1207 67 EAQCAAMVKAGKVYATATEDMDA 89 (113)
Q Consensus 67 EAqcA~L~k~G~vd~V~SeDsD~ 89 (113)
+.+..+|.+.| ||+|+|++=|.
T Consensus 256 ~~~~~~l~~~G-VDgIiTD~P~~ 277 (315)
T cd08609 256 PWLFSLLWCSG-VSSVTTNACQL 277 (315)
T ss_pred HHHHHHHHhcC-CCEEEcCCHHH
Confidence 55677888888 79999998653
No 85
>PRK06027 purU formyltetrahydrofolate deformylase; Reviewed
Probab=38.61 E-value=72 Score=25.86 Aligned_cols=44 Identities=20% Similarity=0.322 Sum_probs=31.7
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEc
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATAT 84 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~S 84 (113)
+++.+.+..|||++.+...+. ...+.|++...+.+.--+|+++.
T Consensus 128 ~~~~lA~~~gIp~~~~~~~~~---------~~~~~~~~~~~~l~~~~~Dlivl 171 (286)
T PRK06027 128 DLRSLVERFGIPFHHVPVTKE---------TKAEAEARLLELIDEYQPDLVVL 171 (286)
T ss_pred hHHHHHHHhCCCEEEeccCcc---------ccchhHHHHHHHHHHhCCCEEEE
Confidence 577789999999998554332 45667887777777666888753
No 86
>PLN02404 6,7-dimethyl-8-ribityllumazine synthase
Probab=38.53 E-value=80 Score=23.53 Aligned_cols=46 Identities=15% Similarity=0.148 Sum_probs=34.3
Q ss_pred CCCHHHHHHHHHHHHhhCCc-----EEEecCCCCCCCCccCCCCcchHH--HHHHHHHHCCCeeEEEc
Q psy1207 24 RVSSVHVKECKELLSLMGIP-----YIEVSRSPRLLPNFLGVLAPCEAE--AQCAAMVKAGKVYATAT 84 (113)
Q Consensus 24 ~vt~~~v~~~~~lL~~~Gip-----~i~~~~~~~~~~~~~~~~AP~EAE--AqcA~L~k~G~vd~V~S 84 (113)
.+|..+++.+.+.|+..|++ ++. -||-=| .-+..|.++|-.|+|+.
T Consensus 20 ~I~~~Ll~ga~~~l~~~gv~~~~i~v~~---------------VPGa~EiP~a~~~l~~s~~~DavIa 72 (141)
T PLN02404 20 IITKNLLEGALETFKRYSVKEENIDVVW---------------VPGSFEIPVVAQRLAKSGKYDAILC 72 (141)
T ss_pred HHHHHHHHHHHHHHHHcCCCccceEEEE---------------cCcHHHHHHHHHHHHhcCCCCEEEE
Confidence 46788999999999999975 444 455444 56677888888888753
No 87
>cd08564 GDPD_GsGDE_like Glycerophosphodiester phosphodiesterase domain of putative Galdieria sulphuraria glycerophosphodiester phosphodiesterase and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in putative Galdieria sulphuraria glycerophosphodiester phosphodiesterase (GsGDE, EC 3.1.4.46) and its uncharacterized eukaryotic homologs. Members in this family show high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=38.51 E-value=59 Score=25.28 Aligned_cols=48 Identities=17% Similarity=0.166 Sum_probs=30.7
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCcee
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDAL 90 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l 90 (113)
.+..+.++..|++++.-.+++ --..+++..+|...| ||+|+|+.-|.+
T Consensus 213 ~~~v~~~~~~Gl~v~~wT~~~-----------~~n~~~~~~~l~~~G-vdgiiTD~p~~~ 260 (265)
T cd08564 213 EEFVKKAHENGLKVMTYFDEP-----------VNDNEEDYKVYLELG-VDCICPNDPVLL 260 (265)
T ss_pred HHHHHHHHHcCCEEEEecCCC-----------CCCCHHHHHHHHHcC-CCEEEcCCHHHH
Confidence 445667788899977621110 012345666677778 799999987754
No 88
>PRK14320 glmM phosphoglucosamine mutase; Provisional
Probab=37.94 E-value=1.1e+02 Score=25.91 Aligned_cols=57 Identities=21% Similarity=0.242 Sum_probs=36.5
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
..-+..+|+.+|+.++.+...|. +++..--.+-|.-..+..+++..-+|..+.-|+|
T Consensus 185 ~~~~~~ll~~lg~~v~~i~~~~d--g~~~~~~~~~~~l~~l~~~v~~~~adlGia~DgD 241 (443)
T PRK14320 185 SHNFEALLDKFGINYVSIASNPD--GLNINVGCGATCVSNIKKAVKEQKADLGISLDGD 241 (443)
T ss_pred HHHHHHHHHHcCCcEEEECCcCC--CCCCCCCCchHhHHHHHHHHHHcCCCEEEEECCC
Confidence 34467789999998887655443 2332211222556677777777778888777766
No 89
>TIGR03504 FimV_Cterm FimV C-terminal domain. This protein is found at the extreme C-terminus of FimV from Pseudomonas aeruginosa, and of TspA of Neisseria meningitidis. Disruption of the former blocks twitching motility from type IV pili; Semmler, et al. suggest a role in peptidoglycan layer remodelling required by type IV fimbrial systems.
Probab=37.75 E-value=85 Score=18.85 Aligned_cols=36 Identities=14% Similarity=0.309 Sum_probs=27.2
Q ss_pred hHHHHcCCHHHHHHHhhhccCC-CHHHHHHHHHHHHh
Q psy1207 4 TLFLLTGDAQEIDKFNRRLVRV-SSVHVKECKELLSL 39 (113)
Q Consensus 4 ~~~~~~gd~~~a~~~~~r~~~v-t~~~v~~~~~lL~~ 39 (113)
...++.||.+.|+......+.- +.....+++.||+.
T Consensus 7 ~ayie~Gd~e~Ar~lL~evl~~~~~~q~~eA~~LL~~ 43 (44)
T TIGR03504 7 RAYIEMGDLEGARELLEEVIEEGDEAQRQEARALLAQ 43 (44)
T ss_pred HHHHHcCChHHHHHHHHHHHHcCCHHHHHHHHHHHhc
Confidence 3467899999999987765543 67777888888874
No 90
>PHA02542 41 41 helicase; Provisional
Probab=37.62 E-value=28 Score=30.33 Aligned_cols=52 Identities=10% Similarity=0.112 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcch-HHHHHHHHHHCCCeeEEEcCCCceeee
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCE-AEAQCAAMVKAGKVYATATEDMDALTF 92 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~E-AEAqcA~L~k~G~vd~V~SeDsD~l~f 92 (113)
++...+|.+-+.++||++.+++-.| .... .+.+++-|--+ +-|-+|.|+++|
T Consensus 331 ~Isr~LK~lAkel~vpVi~lsQLnR---------~~e~r~dP~lsDLreS----G~IEqdAD~vl~ 383 (473)
T PHA02542 331 AIAEELRGLAVEHDVVVWTAAQTTR---------SGWDSSDVDMSDTAES----AGLPATADFMLA 383 (473)
T ss_pred HHHHHHHHHHHHhCCeEEEEEeeCc---------cccccCCCcchhcccc----cchHhhcCEEEE
Confidence 3556788888899999999998776 3322 13666666666 456677787665
No 91
>PRK00061 ribH 6,7-dimethyl-8-ribityllumazine synthase; Provisional
Probab=37.32 E-value=81 Score=23.67 Aligned_cols=46 Identities=15% Similarity=0.247 Sum_probs=33.7
Q ss_pred CCCHHHHHHHHHHHHhhCCc-----EEEecCCCCCCCCccCCCCcchHH--HHHHHHHHCCCeeEEEc
Q psy1207 24 RVSSVHVKECKELLSLMGIP-----YIEVSRSPRLLPNFLGVLAPCEAE--AQCAAMVKAGKVYATAT 84 (113)
Q Consensus 24 ~vt~~~v~~~~~lL~~~Gip-----~i~~~~~~~~~~~~~~~~AP~EAE--AqcA~L~k~G~vd~V~S 84 (113)
.++..++..+.+.|+..|++ ++. -||=-| .-+..|.+.|-.|+|+.
T Consensus 25 ~i~~~l~~ga~~~l~~~gv~~~~i~v~~---------------VPGa~EiP~a~~~l~~~~~~DavIa 77 (154)
T PRK00061 25 FITDALLEGALDALKRHGVSEENIDVVR---------------VPGAFEIPLAAKKLAESGKYDAVIA 77 (154)
T ss_pred HHHHHHHHHHHHHHHHcCCCccceEEEE---------------CCCHHHHHHHHHHHHHcCCCCEEEE
Confidence 35678889999999999964 333 465555 55567888888898864
No 92
>PRK13011 formyltetrahydrofolate deformylase; Reviewed
Probab=36.54 E-value=75 Score=25.86 Aligned_cols=45 Identities=20% Similarity=0.285 Sum_probs=29.4
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcC
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATE 85 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~Se 85 (113)
+++.+.+.+|||++.....+. ...+.|++...+.+.--+|.++.-
T Consensus 128 ~~~~lA~~~gIp~~~~~~~~~---------~~~~~~~~~~~~l~~~~~Dlivla 172 (286)
T PRK13011 128 DLEPLAAWHGIPFHHFPITPD---------TKPQQEAQVLDVVEESGAELVVLA 172 (286)
T ss_pred cHHHHHHHhCCCEEEeCCCcC---------chhhhHHHHHHHHHHhCcCEEEEe
Confidence 577789999999988543222 334567766655555557887543
No 93
>KOG4015|consensus
Probab=36.47 E-value=24 Score=26.35 Aligned_cols=49 Identities=20% Similarity=0.251 Sum_probs=38.2
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeecCCeeeecccc
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFGTNILLRQQLS 103 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~vlr~~~~ 103 (113)
++.-+.|+.+||++.. -+.|.+.+ -...|+.|+|.+.+-.....|+...
T Consensus 15 ENFdeymk~lGV~~~~---------------------Rk~a~~~k---p~~~i~~~G~~~~~~t~Stfknt~~ 63 (133)
T KOG4015|consen 15 ENFDEYLKALGVGWAT---------------------RKIAKLAK---PVLEITQDGDKFTIKTLSTFKNTEI 63 (133)
T ss_pred cCHHHHHHhcCCcHhH---------------------HHHHhhcC---CeEEEEEcCCEEEEEEeecccceEE
Confidence 4577889999999988 35666666 5689999999999888777776543
No 94
>PF04309 G3P_antiterm: Glycerol-3-phosphate responsive antiterminator; InterPro: IPR006699 Glycerol enters bacterial cells via facilitated diffusion, an energy-independent transport process catalysed by the glycerol transport facilitator GlpF, an integral membrane protein of the aquaporin family. Intracellular glycerol is usually converted to glycerol-3-P in an ATP-requiring phosphorylation reaction catalysed by glycerol kinase (GlpK). Glycerol-3-P, the inducer of the glpFK operon, is not a substrate for GlpF and hence remains entrapped in the cell where it is metabolized further. In some bacterial species, for example Bacillus firmus, glycerol-3-P activates the antiterminator GlpP []. In B. subtilis, glpF and glpK are organised in an operon followed by the glycerol-3-P dehydrogenase-encoding glpD gene and preceded by glpP coding for an antiterminator regulating the expression of glpFK, glpD and glpTQ. Their induction requires the inducer glycerol-3-P, which activates the antiterminator GlpP by allowing it to bind to the leader region of glpD and presumably also of glpFK and glpTQ mRNAs.; GO: 0006355 regulation of transcription, DNA-dependent, 0009607 response to biotic stimulus; PDB: 1VKF_A 3KTS_G.
Probab=36.23 E-value=88 Score=24.09 Aligned_cols=53 Identities=15% Similarity=0.115 Sum_probs=36.3
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceee
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALT 91 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~ 91 (113)
+.+..+.++..|-.+++ |-.+...+++- ++-..||.+.+.+|+|+|.-+-++-
T Consensus 33 l~~~v~~~~~~gK~vfV-------HiDli~Gl~~D--~~~i~~L~~~~~~dGIISTk~~~i~ 85 (175)
T PF04309_consen 33 LKDIVKRLKAAGKKVFV-------HIDLIEGLSRD--EAGIEYLKEYGKPDGIISTKSNLIK 85 (175)
T ss_dssp HHHHHHHHHHTT-EEEE-------ECCGEETB-SS--HHHHHHHHHTT--SEEEESSHHHHH
T ss_pred HHHHHHHHHHcCCEEEE-------EehhcCCCCCC--HHHHHHHHHcCCCcEEEeCCHHHHH
Confidence 45666777888888888 44445555666 5678899999999999998876553
No 95
>PF13417 GST_N_3: Glutathione S-transferase, N-terminal domain; PDB: 3ERG_B 3IBH_A 3ERF_A 3UBL_A 3UBK_A 3IR4_A 3M8N_B 2R4V_A 2PER_A 2R5G_A ....
Probab=35.80 E-value=18 Score=22.57 Aligned_cols=60 Identities=20% Similarity=0.239 Sum_probs=44.8
Q ss_pred HHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeecCCeeeeccc
Q psy1207 29 HVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFGTNILLRQQL 102 (113)
Q Consensus 29 ~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~vlr~~~ 102 (113)
....+.-.|+..||+|-.+.- -+.+.++....++..|.|-+.. .| +..++.+..+++.+.
T Consensus 9 ~~~kv~~~l~~~~i~~~~~~v------------~~~~~~~~~~~~~p~~~vPvL~-~~-g~~l~dS~~I~~yL~ 68 (75)
T PF13417_consen 9 YSQKVRLALEEKGIPYELVPV------------DPEEKRPEFLKLNPKGKVPVLV-DD-GEVLTDSAAIIEYLE 68 (75)
T ss_dssp HHHHHHHHHHHHTEEEEEEEE------------BTTSTSHHHHHHSTTSBSSEEE-ET-TEEEESHHHHHHHHH
T ss_pred HHHHHHHHHHHcCCeEEEecc------------CcccchhHHHhhcccccceEEE-EC-CEEEeCHHHHHHHHH
Confidence 345677889999999877332 3556688889999999999998 44 557788777666554
No 96
>TIGR00355 purH phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase. Involved in purine ribonucleotide biosynthesis. The IMP cyclohydrolase activity is in the N-terminal region.
Probab=35.78 E-value=72 Score=28.71 Aligned_cols=70 Identities=23% Similarity=0.259 Sum_probs=48.2
Q ss_pred HHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCC-----------CCCCccC-CCCcchHHHHHHHHHHCCC--
Q psy1207 13 QEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPR-----------LLPNFLG-VLAPCEAEAQCAAMVKAGK-- 78 (113)
Q Consensus 13 ~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~-----------~~~~~~~-~~AP~EAEAqcA~L~k~G~-- 78 (113)
+-++++....+.+- --....+.|+..|||+..|+.=+. |||.+-| ++|--+-+. .+.|.+.|+
T Consensus 15 ~lAk~L~~lGfeIi--ATgGTak~L~e~GI~v~~Vsk~TgfPEil~GRVKTLHP~IhgGiLarr~~~~-~~~l~~~~I~~ 91 (511)
T TIGR00355 15 EFAQGLVERGVELL--STGGTAKLLAEAGVPVTEVSDYTGFPEMMDGRVKTLHPKVHGGILARRGDDD-DADLEEHGIEP 91 (511)
T ss_pred HHHHHHHHCCCEEE--EechHHHHHHHCCCeEEEeecccCCchhhCCccccCCchhhhhhhcCCCchH-HHHHHHcCCCc
Confidence 44555555555551 112356678899999988877664 8888776 677666566 889999988
Q ss_pred eeEEEcC
Q psy1207 79 VYATATE 85 (113)
Q Consensus 79 vd~V~Se 85 (113)
+|.|+-+
T Consensus 92 IDlVvvN 98 (511)
T TIGR00355 92 IDLVVVN 98 (511)
T ss_pred eeEEEEe
Confidence 8888754
No 97
>PHA03398 viral phosphatase superfamily protein; Provisional
Probab=35.44 E-value=78 Score=26.61 Aligned_cols=59 Identities=14% Similarity=0.005 Sum_probs=40.1
Q ss_pred cCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeee
Q psy1207 23 VRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTF 92 (113)
Q Consensus 23 ~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~f 92 (113)
+++...-+.++-+-|+..|+++..+|-++ ...++..+..+.-.++.|.|++.|.=.--.
T Consensus 146 v~irdp~V~EtL~eLkekGikLaIvTNg~-----------Re~v~~~Le~lgL~~yFDvII~~g~i~~k~ 204 (303)
T PHA03398 146 VRIRDPFVYDSLDELKERGCVLVLWSYGN-----------REHVVHSLKETKLEGYFDIIICGGRKAGEY 204 (303)
T ss_pred cccCChhHHHHHHHHHHCCCEEEEEcCCC-----------hHHHHHHHHHcCCCccccEEEECCCccccc
Confidence 44554555667777888999998877653 345666676666666678888887644333
No 98
>PLN03228 methylthioalkylmalate synthase; Provisional
Probab=35.06 E-value=99 Score=27.44 Aligned_cols=46 Identities=17% Similarity=0.109 Sum_probs=34.5
Q ss_pred hccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHC
Q psy1207 21 RLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKA 76 (113)
Q Consensus 21 r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~ 76 (113)
..+.+|.+.-.++.+.|..+||++|.++--.. .|.|.|+ +..+.+.
T Consensus 99 ~gv~fs~eeKi~Ia~~L~~~GVd~IEvG~Pa~---------s~~e~e~-i~~i~~~ 144 (503)
T PLN03228 99 PGGSLTPPQKLEIARQLAKLRVDIMEVGFPGS---------SEEEFEA-VKTIAKT 144 (503)
T ss_pred CCCCCCHHHHHHHHHHHHHcCCCEEEEeCCCC---------CHHHHHH-HHHHHHh
Confidence 35677899999999999999999999754222 5788887 4555543
No 99
>cd08567 GDPD_SpGDE_like Glycerophosphodiester phosphodiesterase domain of putative Silicibacter pomeroyi glycerophosphodiester phosphodiesterase and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized bacterial glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46) and similar proteins. The prototype of this CD is a putative GP-GDE from Silicibacter pomeroyi (SpGDE). It shows high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=34.86 E-value=84 Score=23.86 Aligned_cols=42 Identities=19% Similarity=0.235 Sum_probs=25.6
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
.+..+.++..|++++.- ..... .+..+|.+.| ||+|+|++=|
T Consensus 221 ~~~i~~~~~~G~~v~vw--------------tvn~~-~~~~~~~~~G-vdgi~TD~P~ 262 (263)
T cd08567 221 KELVDEAHALGLKVVPW--------------TVNDP-EDMARLIDLG-VDGIITDYPD 262 (263)
T ss_pred HHHHHHHHHCCCEEEEe--------------cCCCH-HHHHHHHHcC-CCEEEcCCCC
Confidence 34556677788887651 11111 2445666666 8999998754
No 100
>cd08583 PI-PLCc_GDPD_SF_unchar1 Uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipaseand Glycerophosphodiester phosphodiesterases. This subfamily corresponds to a group of uncharacterized hypothetical proteins similar to the catalytic domains of Phosphoinositide-specific phospholipase C (PI-PLC), and glycerophosphodiester phosphodiesterases (GP-GDE), and also sphingomyelinases D (SMases D) and similar proteins. They hydrolyze the 3'-5' phosphodiester bonds in different substrates, utilizing a similar mechanism of general base and acid catalysis involving two conserved histidine residues.
Probab=34.64 E-value=74 Score=24.20 Aligned_cols=19 Identities=26% Similarity=0.253 Sum_probs=11.8
Q ss_pred HHHHHHHHHCCCeeEEEcCC
Q psy1207 67 EAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 67 EAqcA~L~k~G~vd~V~SeD 86 (113)
.++...|.+.| ||+++|+.
T Consensus 216 ~~~~~~l~~~G-VdgiiTD~ 234 (237)
T cd08583 216 LKDAQEYKKLG-VYGIYTDF 234 (237)
T ss_pred HHHHHHHHHcC-CCEEEeCC
Confidence 44555666666 77777654
No 101
>cd08574 GDPD_GDE_2_3_6 Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE2, GDE3, GDE6-like proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian glycerophosphodiester phosphodiesterase domain-containing protein subtype 5 (GDE2), subtype 2 (GDE3), subtype 1 (GDE6), and their eukaryotic homologs. Mammalian GDE2, GDE3, and GDE6 show very high sequence similarity to each other and have been classified into the same family. Although they are all transmembrane proteins, based on different pattern of tissue distribution, these enzymes might display diverse cellular functions. Mammalian GDE2 is primarily expressed in mature neurons. It selectively hydrolyzes glycerophosphocholine (GPC) and mainly functions in a complex with an antioxidant scavenger peroxiredoxin1 (Prdx1) to control motor neuron differentiation in the spinal cord. Mammalian GDE3 is specifically expressed in bo
Probab=34.09 E-value=73 Score=24.79 Aligned_cols=17 Identities=18% Similarity=0.122 Sum_probs=11.3
Q ss_pred HHHHHHHHCCCeeEEEcC
Q psy1207 68 AQCAAMVKAGKVYATATE 85 (113)
Q Consensus 68 AqcA~L~k~G~vd~V~Se 85 (113)
++..+|.+.| ||+|+|+
T Consensus 235 ~~~~~l~~~G-VdgIiTD 251 (252)
T cd08574 235 WLYSLLWCSG-VQSVTTN 251 (252)
T ss_pred HHHHHHHHcC-CCEEecC
Confidence 3455666666 7888875
No 102
>TIGR01544 HAD-SF-IE haloacid dehalogenase superfamily, subfamily IE hydrolase, TIGR01544. This group of sequences was found during searches for members of the haloacid dehalogenase (HAD) superfamily. All of the conserved catalytic motifs are found. The placement of the variable domain between motifs 1 and 2 indicates membership in subfamily I of the superfamily, but these sequences are sufficiently different from any of the branches (IA, TIGR01493, TIGR01509, TIGR01549; IB, TIGR01488; IC, TIGR01494; ID, TIGR01658; IF TIGR01545) of that subfamily as to constitute a separate branch to now be called IE. Considering that the closest identifiable hit outside of the noise range is to a phosphoserine phosphatase, this group may be considered to be most closely allied to subfamily IB.
Probab=34.05 E-value=2.3e+02 Score=23.28 Aligned_cols=46 Identities=15% Similarity=0.095 Sum_probs=30.7
Q ss_pred HHHHcC--CHHHHHHHhhh-ccCCCHHHHHHHHHHHHhhCCcEEEecCCC
Q psy1207 5 LFLLTG--DAQEIDKFNRR-LVRVSSVHVKECKELLSLMGIPYIEVSRSP 51 (113)
Q Consensus 5 ~~~~~g--d~~~a~~~~~r-~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~ 51 (113)
+++... +.+.+..+.++ .+.+.+ -+.++.+.|+..|||+..+|.|+
T Consensus 99 ~l~~~~~~~~e~i~~~v~~~~l~l~p-G~~efl~~L~~~GIpv~IvS~G~ 147 (277)
T TIGR01544 99 GLLVQQAFPKAKIKEIVAESDVMLKD-GYENFFDKLQQHSIPVFIFSAGI 147 (277)
T ss_pred HHHhcCCCCHHHHHHHHhhcCCccCc-CHHHHHHHHHHCCCcEEEEeCCc
Confidence 345555 55666776653 444443 35566667788999999999975
No 103
>PRK05753 nucleoside diphosphate kinase regulator; Provisional
Probab=33.91 E-value=1.1e+02 Score=22.26 Aligned_cols=66 Identities=20% Similarity=0.223 Sum_probs=45.8
Q ss_pred hhccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeecCCeeee
Q psy1207 20 RRLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFGTNILLR 99 (113)
Q Consensus 20 ~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~vlr 99 (113)
+..+.+|......++.++... +. . .|.+++---..|.+.-++|.- .-++|.+.||+...++
T Consensus 4 ~~~i~lt~~D~~~L~~~~~~~--~~-~---------------~~~~~~~L~~~L~~A~Ivd~~-~~~~d~V~~Gs~V~~~ 64 (137)
T PRK05753 4 KPTIIINELDAERLDRLLEQP--AF-A---------------GPPIAEALNAELDRAQVVPPA-EMPADVVTMNSRVRFR 64 (137)
T ss_pred CCceEEcHHHHHHHHHHHhhh--hc-c---------------CcHHHHHHHHHhcCCEEECCc-cCCCCEEEeCCEEEEE
Confidence 346678888888888888844 11 2 577887666666666555421 1266999999999998
Q ss_pred ccccC
Q psy1207 100 QQLSW 104 (113)
Q Consensus 100 ~~~~~ 104 (113)
+....
T Consensus 65 ~~~~~ 69 (137)
T PRK05753 65 DLSSG 69 (137)
T ss_pred ECCCC
Confidence 86553
No 104
>PRK12757 cell division protein FtsN; Provisional
Probab=33.79 E-value=1.3e+02 Score=24.72 Aligned_cols=68 Identities=12% Similarity=0.074 Sum_probs=48.5
Q ss_pred HhhhccCC-CHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccC-CCCcchHHHHHHHHHHCCCeeEEEcCC
Q psy1207 18 FNRRLVRV-SSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLG-VLAPCEAEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 18 ~~~r~~~v-t~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~-~~AP~EAEAqcA~L~k~G~vd~V~SeD 86 (113)
|+-+.-.+ +.+-.+....-|...|++....+.+ .+|+=.+| +-...+|++.+..|...|+-++++-.+
T Consensus 185 ~~VQVGAF~~~~nAe~L~arL~~~G~~a~I~~~g-g~yRVrVGPf~sr~~A~~~~~rLk~~G~~~~iiva~ 254 (256)
T PRK12757 185 WMVQCGSFKGTEQAESVRAQLAFAGIESRITTGG-GWNRVVLGPYNSKAAADKMLQRLKGAGHSGCIPLAA 254 (256)
T ss_pred EEEEEeeCCCHHHHHHHHHHHHhcCCceEEeecC-CEEEEEeCCCCCHHHHHHHHHHHHHcCCCCeEEecc
Confidence 33344444 4566677777777889886554443 36777777 557889999999999999988877554
No 105
>PF02617 ClpS: ATP-dependent Clp protease adaptor protein ClpS; InterPro: IPR003769 In the bacterial cytosol, ATP-dependent protein degradation is performed by several different chaperone-protease pairs, including ClpAP. ClpS directly influences the ClpAP machine by binding to the N-terminal domain of the chaperone ClpA. The degradation of ClpAP substrates, both SsrA-tagged proteins and ClpA itself, is specifically inhibited by ClpS. ClpS modifies ClpA substrate specificity, potentially redirecting degradation by ClpAP toward aggregated proteins []. ClpS is a small alpha/beta protein that consists of three alpha-helices connected to three antiparallel beta-strands []. The protein has a globular shape, with a curved layer of three antiparallel alpha-helices over a twisted antiparallel beta-sheet. Dimerization of ClpS may occur through its N-terminal domain. This short extended N-terminal region in ClpS is followed by the central seven-residue beta-strand, which is flanked by two other beta-strands in a small beta-sheet. ; GO: 0030163 protein catabolic process; PDB: 3O2O_B 1MBU_D 3O2B_C 2WA9_D 3O1F_A 2W9R_A 1MG9_A 1MBX_C 2WA8_C 1R6O_D ....
Probab=33.66 E-value=94 Score=20.27 Aligned_cols=53 Identities=17% Similarity=0.190 Sum_probs=41.0
Q ss_pred HHHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCC
Q psy1207 12 AQEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAG 77 (113)
Q Consensus 12 ~~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G 77 (113)
.+......++.+..|.+....+....+..|-.++.++ ...+||..+..|.+.|
T Consensus 19 ~~~Vi~~L~~~~~~s~~~A~~~a~~v~~~G~avv~~~-------------~~e~ae~~~~~l~~~g 71 (82)
T PF02617_consen 19 FEQVIDVLRRVFGCSEEQARQIAMEVHREGRAVVGTG-------------SREEAEEYAEKLQRAG 71 (82)
T ss_dssp HHHHHHHHHHHC---HHHHHHHHHHHHHHSEEEEEEE-------------EHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHCCCHHHHHHHHHHHhHcCCEeeeeC-------------CHHHHHHHHHHHHHHh
Confidence 3455666778889999999999999999999877633 3679999999999887
No 106
>cd03040 GST_N_mPGES2 GST_N family; microsomal Prostaglandin E synthase Type 2 (mPGES2) subfamily; mPGES2 is a membrane-anchored dimeric protein containing a CXXC motif which catalyzes the isomerization of PGH2 to PGE2. Unlike cytosolic PGE synthase (cPGES) and microsomal PGES Type 1 (mPGES1), mPGES2 does not require glutathione (GSH) for its activity, although its catalytic rate is increased two- to four-fold in the presence of DTT, GSH or other thiol compounds. PGE2 is widely distributed in various tissues and is implicated in the sleep/wake cycle, relaxation/contraction of smooth muscle, excretion of sodium ions, maintenance of body temperature and mediation of inflammation. mPGES2 contains an N-terminal hydrophobic domain which is membrane associated, and a C-terminal soluble domain with a GST-like structure.
Probab=33.34 E-value=77 Score=19.40 Aligned_cols=60 Identities=17% Similarity=0.208 Sum_probs=38.7
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCC--CceeeecCCeeeecc
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATED--MDALTFGTNILLRQQ 101 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeD--sD~l~fGa~~vlr~~ 101 (113)
-....++.+|...||||-.+.- .|...+. . .++-.|.|..+..+| .+..++.+..+++.+
T Consensus 11 p~c~kv~~~L~~~gi~y~~~~~------------~~~~~~~-~-~~~~~~~vP~l~~~~~~~~~~l~eS~~I~~yL 72 (77)
T cd03040 11 PFCCKVRAFLDYHGIPYEVVEV------------NPVSRKE-I-KWSSYKKVPILRVESGGDGQQLVDSSVIISTL 72 (77)
T ss_pred HHHHHHHHHHHHCCCceEEEEC------------CchhHHH-H-HHhCCCccCEEEECCCCCccEEEcHHHHHHHH
Confidence 4467788899999999877432 2322222 2 457778898887553 256777777666544
No 107
>TIGR00655 PurU formyltetrahydrofolate deformylase. This model describes formyltetrahydrofolate deformylases. The enzyme is a homohexamer. Sequences from a related enzyme formyl tetrahydrofolate-specific enzyme, phosphoribosylglycinamide formyltransferase, serve as an outgroup for phylogenetic analysis. Putative members of this family, scoring below the trusted cutoff, include a sequence from Rhodobacter capsulatus that lacks an otherwise conserved C-terminal region.
Probab=32.79 E-value=1e+02 Score=25.09 Aligned_cols=44 Identities=18% Similarity=0.257 Sum_probs=29.7
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEc
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATAT 84 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~S 84 (113)
++..+.+.+|||++...... .+..|.|++...+.+.--+|.++.
T Consensus 123 ~~~~~A~~~gIp~~~~~~~~---------~~~~~~e~~~~~~l~~~~~Dlivl 166 (280)
T TIGR00655 123 DLRSLVERFGIPFHYIPATK---------DNRVEHEKRQLELLKQYQVDLVVL 166 (280)
T ss_pred hHHHHHHHhCCCEEEcCCCC---------cchhhhHHHHHHHHHHhCCCEEEE
Confidence 45667899999999833211 134567777777666666888764
No 108
>COG1569 Predicted nucleic acid-binding protein, contains PIN domain [General function prediction only]
Probab=32.72 E-value=34 Score=25.94 Aligned_cols=31 Identities=19% Similarity=0.128 Sum_probs=26.3
Q ss_pred chHHHHHHHHHHCCCeeEEEcCCCceeeecC
Q psy1207 64 CEAEAQCAAMVKAGKVYATATEDMDALTFGT 94 (113)
Q Consensus 64 ~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa 94 (113)
-+=|+..-.+...|.+|+++|-|.|.|.-..
T Consensus 90 Dp~Dn~~L~~A~~~kA~~lvTgD~dLL~lr~ 120 (142)
T COG1569 90 DPKDNKLLALAYESKADYLVTGDQDLLVLRD 120 (142)
T ss_pred CchHHHHHHHHHhccCCEEEEcchhhheecc
Confidence 3458899999999999999999999986544
No 109
>PRK10927 essential cell division protein FtsN; Provisional
Probab=32.42 E-value=1.2e+02 Score=25.91 Aligned_cols=67 Identities=10% Similarity=0.105 Sum_probs=50.9
Q ss_pred HHHhhhccCC-CHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccC-CCCcchHHHHHHHHHHCCCeeEEE
Q psy1207 16 DKFNRRLVRV-SSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLG-VLAPCEAEAQCAAMVKAGKVYATA 83 (113)
Q Consensus 16 ~~~~~r~~~v-t~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~-~~AP~EAEAqcA~L~k~G~vd~V~ 83 (113)
.+|+-++-++ +.+-.+..+.=|...|++-.+...+. +|+=++| +....|||+....|...|+-++|.
T Consensus 246 ~~~~VQvGSF~n~~nAE~LrAkLa~~G~~A~I~~~g~-~~RVrVGPf~sr~eAe~a~~rLk~aGis~ci~ 314 (319)
T PRK10927 246 RRWMVQCGSFRGAEQAETVRAQLAFEGFDSKITTNNG-WNRVVIGPVKGKENADSTLNRLKMAGHTNCIR 314 (319)
T ss_pred CcEEEEeCccCCHHHHHHHHHHHHHcCCeeEEccCCc-EEEEEeCCCCCHHHHHHHHHHHHHCCCCceee
Confidence 3455555555 57778889999999999976644443 6666666 667889999999999999977775
No 110
>TIGR00977 LeuA_rel 2-isopropylmalate synthase/homocitrate synthase family protein. This model represents uncharacterized proteins related to 2-isopropylmalate synthases and homocitrate synthases but phylogenetically distint. Each species represented in the seed alignment also has a member of a known family of 2-isopropylmalate synthases.
Probab=32.31 E-value=1.4e+02 Score=26.43 Aligned_cols=47 Identities=21% Similarity=0.144 Sum_probs=34.9
Q ss_pred hccCCCHHHHHHHHHHHHhhCCcEEEec-CCCCCCCCccCCCCcchHHHHHHHHHHCCC
Q psy1207 21 RLVRVSSVHVKECKELLSLMGIPYIEVS-RSPRLLPNFLGVLAPCEAEAQCAAMVKAGK 78 (113)
Q Consensus 21 r~~~vt~~~v~~~~~lL~~~Gip~i~~~-~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~ 78 (113)
-.+++|.+.-.++.+.|..+||++|.++ ++. +|.|-| ++..+.+.++
T Consensus 16 ~g~~~s~eeKl~Ia~~L~~~GVd~IE~G~p~~----------s~~d~~-~v~~i~~~~~ 63 (526)
T TIGR00977 16 EGVSFSLEDKIRIAERLDDLGIHYIEGGWPGA----------NPKDVQ-FFWQLKEMNF 63 (526)
T ss_pred CCCCCCHHHHHHHHHHHHHcCCCEEEEeCCCC----------ChHHHH-HHHHHHHhCC
Confidence 3567889998999999999999999976 432 677766 4455555554
No 111
>PF00701 DHDPS: Dihydrodipicolinate synthetase family; InterPro: IPR002220 Dihydropicolinate synthase (DHDPS) is the key enzyme in lysine biosynthesis via the diaminopimelate pathway of prokaryotes, some phycomycetes and higher plants. The enzyme catalyses the condensation of L-aspartate-beta- semialdehyde and pyruvate to dihydropicolinic acid via a ping-pong mechanism in which pyruvate binds to the enzyme by forming a Schiff-base with a lysine residue []. Three other proteins are structurally related to DHDPS and probably also act via a similar catalytic mechanism. These are Escherichia coli N-acetylneuraminate lyase (4.1.3.3 from EC) (gene nanA), which catalyzes the condensation of N-acetyl-D-mannosamine and pyruvate to form N-acetylneuraminate; Rhizobium meliloti (Sinorhizobium meliloti) protein mosA [], which is involved in the biosynthesis of the rhizopine 3-o-methyl-scyllo-inosamine; and E. coli hypothetical protein yjhH. The sequences of DHDPS from different sources are well-conserved. The structure takes the form of a homotetramer, in which 2 monomers are related by an approximate 2-fold symmetry []. Each monomer comprises 2 domains: an 8-fold alpha-/beta-barrel, and a C-terminal alpha-helical domain. The fold resembles that of N-acetylneuraminate lyase. The active site lysine is located in the barrel domain, and has access via 2 channels on the C-terminal side of the barrel.; GO: 0016829 lyase activity, 0008152 metabolic process; PDB: 3B4U_B 3S8H_A 3QZE_B 1XXX_F 3L21_F 3IRD_A 3A5F_B 3G0S_B 3DAQ_C 3UQN_A ....
Probab=32.05 E-value=69 Score=25.18 Aligned_cols=49 Identities=24% Similarity=0.327 Sum_probs=34.9
Q ss_pred hhhHHHHcCCHHHHHHHhhhccCCCHH-----HHHHHHHHHHhhCCcEEEecCCC
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVRVSSV-----HVKECKELLSLMGIPYIEVSRSP 51 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~vt~~-----~v~~~~~lL~~~Gip~i~~~~~~ 51 (113)
++-++..+||.++|+.+..+...+... .+.-+|.++++.|++.-. .+.|
T Consensus 216 ~i~~~~~~Gd~~~A~~l~~~l~~~~~~~~~~~~~~~~K~~l~~~G~~~g~-~R~P 269 (289)
T PF00701_consen 216 EIYDAFQAGDWEEARELQQRLLPLREALFSGGNIAAIKYALELRGLIAGP-VRPP 269 (289)
T ss_dssp HHHHHHHTTCHHHHHHHHHHHHHHHHHHTSSSTTHHHHHHHHHTTSSSSB---TT
T ss_pred HHHHHHHcCcHHHHHHHHHHHhHHHHHHHccCCHHHHHHHHHHCCCCCCC-CCCC
Confidence 466788999999999988776554433 345689999999997555 3444
No 112
>PLN02891 IMP cyclohydrolase
Probab=31.90 E-value=74 Score=28.93 Aligned_cols=53 Identities=21% Similarity=0.302 Sum_probs=41.9
Q ss_pred HHHHHHhhCCcEEEecCCCC-----------CCCCccC-CCCcchHHHHHHHHHHCCC--eeEEEcC
Q psy1207 33 CKELLSLMGIPYIEVSRSPR-----------LLPNFLG-VLAPCEAEAQCAAMVKAGK--VYATATE 85 (113)
Q Consensus 33 ~~~lL~~~Gip~i~~~~~~~-----------~~~~~~~-~~AP~EAEAqcA~L~k~G~--vd~V~Se 85 (113)
..+.|+..|||+..||+=+- |||.+-+ ++|.-+-+...+.|.+.|+ +|.|+-+
T Consensus 55 Tak~L~e~Gi~v~~Vsd~TgfPEiL~GRVKTLHPkIhgGILa~r~~~~h~~~l~~~~I~~IDlVvVN 121 (547)
T PLN02891 55 TASALEAAGVSVTKVEELTNFPEMLDGRVKTLHPAVHGGILARRDQEHHMEALNEHGIGTIDVVVVN 121 (547)
T ss_pred HHHHHHHcCCceeeHHhccCCchhhCCcccccCchhhhhhhcCCCCHHHHHHHHHcCCCceeeEEEe
Confidence 45677888999998887554 7888766 7888888888888999988 8888754
No 113
>smart00028 TPR Tetratricopeptide repeats. Repeats present in 4 or more copies in proteins. Contain a minimum of 34 amino acids each and self-associate via a "knobs and holes" mechanism.
Probab=31.66 E-value=29 Score=15.72 Aligned_cols=22 Identities=18% Similarity=0.398 Sum_probs=16.2
Q ss_pred HHHcCCHHHHHHHhhhccCCCH
Q psy1207 6 FLLTGDAQEIDKFNRRLVRVSS 27 (113)
Q Consensus 6 ~~~~gd~~~a~~~~~r~~~vt~ 27 (113)
....|+.+++...+++++.+.+
T Consensus 11 ~~~~~~~~~a~~~~~~~~~~~~ 32 (34)
T smart00028 11 YLKLGDYDEALEYYEKALELDP 32 (34)
T ss_pred HHHHhhHHHHHHHHHHHHccCC
Confidence 4567888888888888776543
No 114
>TIGR02313 HpaI-NOT-DapA 2,4-dihydroxyhept-2-ene-1,7-dioic acid aldolase. This model represents a subset of the DapA (dihydrodipicolinate synthase) family which has apparently evolved a separate function. The product of DapA, dihydrodipicolinate, results from the non-enzymatic cyclization and dehydration of 6-amino-2,4-dihydroxyhept-2-ene-1,7-dioic acid, which is different from the substrate of this reaction only in the presence of the amino group. In the absence of this amino group, and running the reaction in the opposite direction, the reaction corresponds to the HpaI aldolase component of the 4-hydroxyphenylacetic acid catabolism pathway (see TIGR02311). At present, this variant of DapA is found only in Oceanobacillus iheyensis HTE831 and Thermus thermophilus HB27. In both of these cases, one or more other DapA genes can be found and the one identified by this model is part of an operon for 4-hydroxyphenylacetic acid catabolism.
Probab=31.41 E-value=33 Score=27.53 Aligned_cols=43 Identities=21% Similarity=0.233 Sum_probs=30.3
Q ss_pred hhhHHHHcCCHHHHHHHhhhccCCCHHH-----HHHHHHHHHhhCCcE
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVRVSSVH-----VKECKELLSLMGIPY 44 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~vt~~~-----v~~~~~lL~~~Gip~ 44 (113)
++-++...||.++|++...+...+...+ ...+|..|+.+|++.
T Consensus 217 ~l~~~~~~gd~~~A~~l~~~~~~~~~~~~~~~~~~~~K~al~~~G~~~ 264 (294)
T TIGR02313 217 ELCEAAEAGDIKGAQDLHFELLEANDAIFKDTNPAPLKAALGMMGLIE 264 (294)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHHHHHccCCCcHHHHHHHHHcCCCC
Confidence 4567888999999998876654443221 123899999999863
No 115
>TIGR01162 purE phosphoribosylaminoimidazole carboxylase, PurE protein. Phosphoribosylaminoimidazole carboxylase is a fusion protein in plants and fungi, but consists of two non-interacting proteins in bacteria, PurK and PurE. This model represents PurK, an N5-CAIR mutase.
Probab=31.05 E-value=2.2e+02 Score=21.67 Aligned_cols=47 Identities=21% Similarity=0.244 Sum_probs=31.9
Q ss_pred HHHHHHHHHHHHhhCCcEEE-ecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEE
Q psy1207 27 SVHVKECKELLSLMGIPYIE-VSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATA 83 (113)
Q Consensus 27 ~~~v~~~~~lL~~~Gip~i~-~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~ 83 (113)
-.+.+++.+.|+.|||||-. |.-.-| .|.+.+.........|. +.+|
T Consensus 11 ~~~~~~a~~~L~~~gi~~dv~V~SaHR---------tp~~~~~~~~~a~~~g~-~viI 58 (156)
T TIGR01162 11 LPTMKKAADILEEFGIPYELRVVSAHR---------TPELMLEYAKEAEERGI-KVII 58 (156)
T ss_pred HHHHHHHHHHHHHcCCCeEEEEECccc---------CHHHHHHHHHHHHHCCC-eEEE
Confidence 35678899999999999754 222223 67777777777776774 4444
No 116
>cd07942 DRE_TIM_LeuA Mycobacterium tuberculosis LeuA3 and related proteins, N-terminal catalytic TIM barrel domain. Alpha-isopropylmalate synthase (LeuA), a key enzyme in leucine biosynthesis, catalyzes the first committed step in the pathway, converting acetyl-CoA and alpha-ketoisovalerate to alpha-isopropyl malate and CoA. Although the reaction catalyzed by LeuA is similar to that of the Arabidopsis thaliana IPMS1 protein, the two fall into phylogenetically distinct families within the same superfamily. LeuA has and N-terminal TIM barrel catalytic domain, a helical linker domain, and a C-terminal regulatory domain. LeuA forms a homodimer in which the linker domain of one monomer sits over the catalytic domain of the other, inserting residues into the active site that may be important for catalysis. Homologs of LeuA are found in bacteria as well as fungi. This family includes alpha-isopropylmalate synthases I (LEU4) and II (LEU9) from Saccharomyces cerevisiae. This family belong
Probab=31.04 E-value=1.9e+02 Score=23.55 Aligned_cols=47 Identities=17% Similarity=0.184 Sum_probs=34.3
Q ss_pred hccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHH-HHHHHHHHCCC
Q psy1207 21 RLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAE-AQCAAMVKAGK 78 (113)
Q Consensus 21 r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAE-AqcA~L~k~G~ 78 (113)
-.+.+|.+.--++.++|..+||+.|.++ -| +-.++| .-+..+.+.|+
T Consensus 16 ~g~~~s~~~Ki~ia~~L~~~Gv~~IE~g-fP----------~~~~~e~e~~~~i~~~~~ 63 (284)
T cd07942 16 LAEPMSVEQKLRFFKLLVKIGFKEIEVG-FP----------SASQTDFDFVRELIEEDL 63 (284)
T ss_pred CCCCCCHHHHHHHHHHHHHcCCCEEEEe-CC----------CCCHHHHHHHHHHHHccC
Confidence 3567888888889999999999999966 34 345666 45566655543
No 117
>PF10087 DUF2325: Uncharacterized protein conserved in bacteria (DUF2325); InterPro: IPR016772 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=30.78 E-value=1.6e+02 Score=19.55 Aligned_cols=26 Identities=27% Similarity=0.173 Sum_probs=23.0
Q ss_pred ccCCCHHHHHHHHHHHHhhCCcEEEe
Q psy1207 22 LVRVSSVHVKECKELLSLMGIPYIEV 47 (113)
Q Consensus 22 ~~~vt~~~v~~~~~lL~~~Gip~i~~ 47 (113)
+-.+++.+...+++..+..|+|++.+
T Consensus 56 t~~vsH~~~~~vk~~akk~~ip~~~~ 81 (97)
T PF10087_consen 56 TDYVSHNAMWKVKKAAKKYGIPIIYS 81 (97)
T ss_pred eCCcChHHHHHHHHHHHHcCCcEEEE
Confidence 34678999999999999999999993
No 118
>COG0329 DapA Dihydrodipicolinate synthase/N-acetylneuraminate lyase [Amino acid transport and metabolism / Cell envelope biogenesis, outer membrane]
Probab=30.58 E-value=71 Score=25.95 Aligned_cols=51 Identities=25% Similarity=0.256 Sum_probs=39.7
Q ss_pred hhhHHHHcCCHHHHHHHhhhccCCCHHH-----HHHHHHHHHhhCCcEEEecCCCC
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVRVSSVH-----VKECKELLSLMGIPYIEVSRSPR 52 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~vt~~~-----v~~~~~lL~~~Gip~i~~~~~~~ 52 (113)
++-++..+||.++|++..++...+.+-. ...+|..++.+|++.--..+.|.
T Consensus 220 ~l~~~~~~g~~~~A~~l~~~l~~l~~~~~~~~~~~~iK~~l~~~G~~~~~~~R~Pl 275 (299)
T COG0329 220 ELYRAAKAGDIEEARELQDRLLPLIRLLFREGNPIPIKAALRLLGLIDGGTVRLPL 275 (299)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHCCCCCCCcCCCCC
Confidence 5677888999999999998877765444 45579999999998776556554
No 119
>TIGR00126 deoC deoxyribose-phosphate aldolase. Deoxyribose-phosphate aldolase is involved in the catabolism of nucleotides and deoxyriibonucleotides. The catalytic process is as follows: 2-deoxy-D-ribose 5-phosphate = D-glyceraldehyde 3-phosphate + acetaldehyde. It is found in both gram-postive and gram-negative bacteria.
Probab=30.39 E-value=1.8e+02 Score=22.71 Aligned_cols=65 Identities=18% Similarity=0.128 Sum_probs=43.5
Q ss_pred HHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHH-HHHHHHHHCCC--eeEEEc
Q psy1207 13 QEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAE-AQCAAMVKAGK--VYATAT 84 (113)
Q Consensus 13 ~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAE-AqcA~L~k~G~--vd~V~S 84 (113)
++|.+|.-+++-+.|.++..++++|+.-++.+..|-. |=....|-|.- ++.....+.|- +|.|+.
T Consensus 25 ~~A~~~~~~avcv~p~~v~~a~~~l~~~~v~v~tVig-------FP~G~~~~~~K~~E~~~Av~~GAdEiDvv~n 92 (211)
T TIGR00126 25 AQAKTYKFAAVCVNPSYVPLAKELLKGTEVRICTVVG-------FPLGASTTDVKLYETKEAIKYGADEVDMVIN 92 (211)
T ss_pred HHHHhhCCcEEEeCHHHHHHHHHHcCCCCCeEEEEeC-------CCCCCCcHHHHHHHHHHHHHcCCCEEEeecc
Confidence 5788888889999999999999999866677666332 22233454443 44555666663 666653
No 120
>cd07948 DRE_TIM_HCS Saccharomyces cerevisiae homocitrate synthase and related proteins, catalytic TIM barrel domain. Homocitrate synthase (HCS) catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate, the first step in the lysine biosynthesis pathway. This family includes the Yarrowia lipolytica LYS1 protein as well as the Saccharomyces cerevisiae LYS20 and LYS21 proteins. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. Th
Probab=30.32 E-value=1.1e+02 Score=24.42 Aligned_cols=28 Identities=21% Similarity=0.301 Sum_probs=24.0
Q ss_pred ccCCCHHHHHHHHHHHHhhCCcEEEecC
Q psy1207 22 LVRVSSVHVKECKELLSLMGIPYIEVSR 49 (113)
Q Consensus 22 ~~~vt~~~v~~~~~lL~~~Gip~i~~~~ 49 (113)
.+.+|.+...++.+.|...||+.|.++-
T Consensus 16 ~~~~s~~~k~~i~~~L~~~Gv~~IEvG~ 43 (262)
T cd07948 16 NAFFDTEDKIEIAKALDAFGVDYIELTS 43 (262)
T ss_pred CCCCCHHHHHHHHHHHHHcCCCEEEEEC
Confidence 4677888888899999999999999863
No 121
>PF13181 TPR_8: Tetratricopeptide repeat; PDB: 3GW4_B 3MA5_C 2KCV_A 2KCL_A 3FP3_A 3LCA_A 3FP4_A 3FP2_A 1W3B_B 1ELW_A ....
Probab=30.20 E-value=14 Score=19.31 Aligned_cols=22 Identities=14% Similarity=0.332 Sum_probs=17.4
Q ss_pred HHHHcCCHHHHHHHhhhccCCC
Q psy1207 5 LFLLTGDAQEIDKFNRRLVRVS 26 (113)
Q Consensus 5 ~~~~~gd~~~a~~~~~r~~~vt 26 (113)
-....||.++|.+++++++.+.
T Consensus 10 ~y~~~~~~~~A~~~~~~a~~~~ 31 (34)
T PF13181_consen 10 IYEQLGDYEEALEYFEKALELN 31 (34)
T ss_dssp HHHHTTSHHHHHHHHHHHHHHH
T ss_pred HHHHcCCHHHHHHHHHHHHhhC
Confidence 3456899999999998877654
No 122
>PRK12344 putative alpha-isopropylmalate/homocitrate synthase family transferase; Provisional
Probab=30.18 E-value=1.7e+02 Score=25.86 Aligned_cols=46 Identities=17% Similarity=0.122 Sum_probs=33.3
Q ss_pred ccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCC
Q psy1207 22 LVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAG 77 (113)
Q Consensus 22 ~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G 77 (113)
.+++|.+...++.+.|..+||++|.++-.. .+|.|.|+ ...+.+.+
T Consensus 21 g~~~s~e~Kl~ia~~L~~~Gvd~IEvG~p~---------as~~d~~~-~~~i~~~~ 66 (524)
T PRK12344 21 GISFSVEDKLRIARKLDELGVDYIEGGWPG---------SNPKDTEF-FKRAKELK 66 (524)
T ss_pred CCCCCHHHHHHHHHHHHHcCCCEEEEcCCc---------CChhHHHH-HHHHHHhC
Confidence 467899999999999999999999974211 16777666 44454434
No 123
>smart00052 EAL Putative diguanylate phosphodiesterase. Putative diguanylate phosphodiesterase, present in a variety of bacteria.
Probab=30.09 E-value=1.2e+02 Score=22.02 Aligned_cols=36 Identities=19% Similarity=0.220 Sum_probs=30.9
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCC
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGK 78 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~ 78 (113)
..+..+..+.+.+|+++|. .-=|-++|..+|...|+
T Consensus 190 ~~l~~l~~~~~~~~~~via---------------~gVe~~~~~~~l~~~Gi 225 (241)
T smart00052 190 AIVQSIIELAQKLGLQVVA---------------EGVETPEQLDLLRSLGC 225 (241)
T ss_pred HHHHHHHHHHHHCCCeEEE---------------ecCCCHHHHHHHHHcCC
Confidence 4566678889999999999 77789999999999987
No 124
>PRK13600 putative ribosomal protein L7Ae-like; Provisional
Probab=29.95 E-value=97 Score=21.16 Aligned_cols=25 Identities=12% Similarity=0.012 Sum_probs=22.2
Q ss_pred ccCCCHHHHHHHHHHHHhhCCcEEE
Q psy1207 22 LVRVSSVHVKECKELLSLMGIPYIE 46 (113)
Q Consensus 22 ~~~vt~~~v~~~~~lL~~~Gip~i~ 46 (113)
+-.+++..+..+..+.+..||||+.
T Consensus 36 A~Da~~~vv~~l~~lceek~Ip~v~ 60 (84)
T PRK13600 36 AEDVEVYLMTRVLSQINQKNIPVSF 60 (84)
T ss_pred eCCCCHHHHHHHHHHHHHcCCCEEE
Confidence 3456788999999999999999999
No 125
>TIGR00160 MGSA methylglyoxal synthase. Methylglyoxal synthase (MGS) generates methylglyoxal (MG), a toxic metabolite (that may also be a regulatory metabolite and) that is detoxified, prinicipally, through a pathway involving glutathione and glyoxylase I. Totemeyer, et al. (MUID:98149311) propose that, during a loss of control over carbon flux, with accumulation of phosphorylated sugars and depletion of phosphate, as might happen during a rapid shift to a richer medium, MGS aids the cell by converting some dihydroxyacetone phosphate (DHAP) to MG and phosphate. This is therefore an alternative to triosephosphate isomerase and the remainder of the glycolytic pathway for the disposal of DHAP during the stress of a sudden increase in available sugars.
Probab=29.94 E-value=1.3e+02 Score=22.74 Aligned_cols=33 Identities=21% Similarity=0.341 Sum_probs=26.9
Q ss_pred hhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEE
Q psy1207 39 LMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATA 83 (113)
Q Consensus 39 ~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~ 83 (113)
..|.++..... .|-=+|.|.+.+.-.|-+|+||
T Consensus 46 ~tgL~V~~~~S------------GplGGDqQIga~Ia~g~id~vI 78 (143)
T TIGR00160 46 ATGLNINAMLS------------GPMGGDQQIGALIAEGKIDAVI 78 (143)
T ss_pred HHCCCeEEecc------------CCccHHHHHHHHHHhCCCCEEE
Confidence 45777766555 5778999999999999999986
No 126
>cd08561 GDPD_cytoplasmic_ScUgpQ2_like Glycerophosphodiester phosphodiesterase domain of Streptomyces coelicolor cytoplasmic phosphodiesterases UgpQ2 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized cytoplasmic phosphodiesterases which predominantly exist in bacteria. The prototype of this family is a putative cytoplasmic phosphodiesterase encoded by gene ulpQ2 (SCO1419) in the Streptomyces coelicolor genome. It is distantly related to the Escherichia coli cytoplasmic phosphodiesterases UgpQ that catalyzes the hydrolysis of glycerophosphodiesters at the inner side of the cytoplasmic membrane to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols.
Probab=29.81 E-value=63 Score=24.71 Aligned_cols=44 Identities=16% Similarity=0.121 Sum_probs=25.2
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCcee
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDAL 90 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l 90 (113)
.+..+.++..|+++.. -----......|.+.| ||+|+|+..+.+
T Consensus 202 ~~~v~~~~~~G~~v~v---------------WTVN~~~~~~~l~~~g-VdgIiTD~p~~~ 245 (249)
T cd08561 202 PRFVRAAHAAGLEVHV---------------WTVNDPAEMRRLLDLG-VDGIITDRPDLL 245 (249)
T ss_pred HHHHHHHHHCCCEEEE---------------EecCCHHHHHHHHhcC-CCEEEcCCHHHH
Confidence 3455556666888664 1111124445555554 889999877643
No 127
>PRK07742 phosphate butyryltransferase; Validated
Probab=29.43 E-value=1.2e+02 Score=24.67 Aligned_cols=24 Identities=17% Similarity=0.214 Sum_probs=18.4
Q ss_pred hHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 65 EAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 65 EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
++=.....|+++|.+|+++|--..
T Consensus 77 ~s~~~a~~lV~~G~aD~lvsG~~t 100 (299)
T PRK07742 77 EAAELAVKAVRNGEADVLMKGNVP 100 (299)
T ss_pred HHHHHHHHHHHCCCCCEEEECCcC
Confidence 333566789999999999986653
No 128
>PF00515 TPR_1: Tetratricopeptide repeat; InterPro: IPR001440 The tetratrico peptide repeat (TPR) is a structural motif present in a wide range of proteins [, , ]. It mediates protein-protein interactions and the assembly of multiprotein complexes []. The TPR motif consists of 3-16 tandem-repeats of 34 amino acids residues, although individual TPR motifs can be dispersed in the protein sequence. Sequence alignment of the TPR domains reveals a consensus sequence defined by a pattern of small and large amino acids. TPR motifs have been identified in various different organisms, ranging from bacteria to humans. Proteins containing TPRs are involved in a variety of biological processes, such as cell cycle regulation, transcriptional control, mitochondrial and peroxisomal protein transport, neurogenesis and protein folding. The X-ray structure of a domain containing three TPRs from protein phosphatase 5 revealed that TPR adopts a helix-turn-helix arrangement, with adjacent TPR motifs packing in a parallel fashion, resulting in a spiral of repeating anti-parallel alpha-helices []. The two helices are denoted helix A and helix B. The packing angle between helix A and helix B is ~24 degrees; within a single TPR and generates a right-handed superhelical shape. Helix A interacts with helix B and with helix A' of the next TPR. Two protein surfaces are generated: the inner concave surface is contributed to mainly by residue on helices A, and the other surface presents residues from both helices A and B. ; GO: 0005515 protein binding; PDB: 3SF4_C 2LNI_A 1ELW_A 2C0M_A 1FCH_B 3R9A_B 2J9Q_A 2C0L_A 1KT1_A 3FWV_A ....
Probab=29.31 E-value=17 Score=19.11 Aligned_cols=24 Identities=17% Similarity=0.342 Sum_probs=18.0
Q ss_pred HHHHcCCHHHHHHHhhhccCCCHH
Q psy1207 5 LFLLTGDAQEIDKFNRRLVRVSSV 28 (113)
Q Consensus 5 ~~~~~gd~~~a~~~~~r~~~vt~~ 28 (113)
-....|+.++|..++++++.+.|.
T Consensus 10 ~~~~~~~~~~A~~~~~~al~~~p~ 33 (34)
T PF00515_consen 10 AYFQLGDYEEALEYYQRALELDPD 33 (34)
T ss_dssp HHHHTT-HHHHHHHHHHHHHHSTT
T ss_pred HHHHhCCchHHHHHHHHHHHHCcC
Confidence 356789999999999998876553
No 129
>cd08563 GDPD_TtGDE_like Glycerophosphodiester phosphodiesterase domain of Thermoanaerobacter tengcongensis and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Thermoanaerobacter tengcongensis glycerophosphodiester phosphodiesterase (TtGDE, EC 3.1.4.46) and its uncharacterized homologs. Members in this family show high sequence similarity to Escherichia coli GP-GDE, which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. Despite the fact that most of GDPD family members exist as the monomer, TtGDE can function as a dimeric unit. Its catalytic mechanism is based on the general base-acid catalysis, which is similar to that of phosphoinositide-specific phospholipases C (PI-PLCs, EC 3.1.4.11). A divalent metal cation is required for the enzyme activity of TtGDE.
Probab=29.30 E-value=1.2e+02 Score=22.91 Aligned_cols=40 Identities=25% Similarity=0.172 Sum_probs=22.5
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCC
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeD 86 (113)
.+..+.++..|.+++.- ..- -..+...|.+.| ||+|+|++
T Consensus 190 ~~~i~~~~~~g~~v~~W--------------tvn-~~~~~~~~~~~G-Vdgi~TD~ 229 (230)
T cd08563 190 EEVVEELKKRGIPVRLW--------------TVN-EEEDMKRLKDLG-VDGIITNY 229 (230)
T ss_pred HHHHHHHHHCCCEEEEE--------------ecC-CHHHHHHHHHCC-CCEEeCCC
Confidence 34555566668886640 111 124445566666 48998875
No 130
>COG0009 SUA5 Putative translation factor (SUA5) [Translation, ribosomal structure and biogenesis]
Probab=29.25 E-value=2e+02 Score=22.59 Aligned_cols=61 Identities=20% Similarity=0.104 Sum_probs=43.2
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeecCCeeeeccc
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFGTNILLRQQL 102 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~vlr~~~ 102 (113)
-+.+|++.+|.|.+.+|+ |.-|--+|--+|.--.+|..+ +|+|+.. +..- +|-+-.+.+++
T Consensus 127 i~~~Li~~~G~Pl~stSA------NlsG~ps~tt~~ev~~~~~~~--v~~iidg-g~~~-~g~pSTIiDlt 187 (211)
T COG0009 127 IALALIEALGEPLASTSA------NLSGQPSPTTAEEVRADFGGQ--VDLIIDG-GPCR-GGLPSTIIDLT 187 (211)
T ss_pred HHHHHHHHhCCceEEcCc------CcCCCCCCCCHHHHHHHhccc--CeEEEeC-CccC-CCCCceEEECC
Confidence 367899999999998665 344444677777777777644 8888766 3443 77777777776
No 131
>cd08570 GDPD_YPL206cp_fungi Glycerophosphodiester phosphodiesterase domain of Saccharomyces cerevisiae YPL206cp and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Saccharomyces cerevisiae YPL206cp and uncharacterized hypothetical homologs existing in fungi. The product of S. cerevisiae ORF YPL206c (PGC1), YPL206cp (Pgc1p), displays homology to bacterial and mammalian glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46), which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. S. cerevisiae YPL206cp is an integral membrane protein with a single GDPD domain following by a short hydrophobic C-terminal tail that may function as a membrane anchor. This protein plays an essential role in the regulation of the cardiolipin (CL) biosynthetic pathway in yeast by removing the excess phosphatidylglycerol (PG) content of membranes via a phospholip
Probab=29.08 E-value=1.1e+02 Score=23.25 Aligned_cols=17 Identities=24% Similarity=0.352 Sum_probs=11.6
Q ss_pred HHHHHHHCCCeeEEEcCC
Q psy1207 69 QCAAMVKAGKVYATATED 86 (113)
Q Consensus 69 qcA~L~k~G~vd~V~SeD 86 (113)
+...|.+.| ||+|+|+.
T Consensus 217 ~~~~l~~~g-vdgiiTD~ 233 (234)
T cd08570 217 DMRYAIRLG-VDGVITDD 233 (234)
T ss_pred HHHHHHHCC-CCEEEeCC
Confidence 345666667 68888874
No 132
>PRK09461 ansA cytoplasmic asparaginase I; Provisional
Probab=29.01 E-value=1.5e+02 Score=24.56 Aligned_cols=25 Identities=20% Similarity=0.262 Sum_probs=19.8
Q ss_pred HHHHHHHHHHHHhhCCcEEEecCCCC
Q psy1207 27 SVHVKECKELLSLMGIPYIEVSRSPR 52 (113)
Q Consensus 27 ~~~v~~~~~lL~~~Gip~i~~~~~~~ 52 (113)
+.+...++++.+. |||++.+||-++
T Consensus 251 ~~~~~~l~~~~~~-Gi~VV~~Sr~~~ 275 (335)
T PRK09461 251 PALLQELKEASER-GIVVVNLTQCMS 275 (335)
T ss_pred HHHHHHHHHHHHC-CCEEEEeCCCCC
Confidence 7778777777754 999999988764
No 133
>COG2200 Rtn c-di-GMP phosphodiesterase class I (EAL domain) [Signal transduction mechanisms]
Probab=28.91 E-value=1.3e+02 Score=23.60 Aligned_cols=37 Identities=19% Similarity=0.242 Sum_probs=33.2
Q ss_pred HHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCC
Q psy1207 27 SVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGK 78 (113)
Q Consensus 27 ~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~ 78 (113)
..++..+..+.+.+|+.++. =--|.+.|+++|.+.|+
T Consensus 192 ~~iv~~iv~la~~l~~~vva---------------EGVEt~~ql~~L~~~G~ 228 (256)
T COG2200 192 QAIVRAIVALAHKLGLTVVA---------------EGVETEEQLDLLRELGC 228 (256)
T ss_pred HHHHHHHHHHHHHCCCEEEE---------------eecCCHHHHHHHHHcCC
Confidence 45788899999999999999 77899999999999986
No 134
>PRK07564 phosphoglucomutase; Validated
Probab=28.86 E-value=1.8e+02 Score=25.47 Aligned_cols=54 Identities=17% Similarity=0.130 Sum_probs=33.0
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCcc---------CCCCcchHHHHHHHHHH-CCCeeEEEcCCCc
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFL---------GVLAPCEAEAQCAAMVK-AGKVYATATEDMD 88 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~---------~~~AP~EAEAqcA~L~k-~G~vd~V~SeDsD 88 (113)
-+.++|+.+|+.++.+...|. +++- ..--|.+.++ ++.+.+ ..-+|+.+.-|.|
T Consensus 241 ~~~~ll~~lG~~v~~l~~~~d--~~f~~~~~~~~~~~~p~P~~~~~-L~~l~~~~~~adlGia~DgD 304 (543)
T PRK07564 241 YWKAIAERYGLDLTVVNAPVD--PTFNFMPLDDDGKIRMDCSSPYA-MAGLLALKDAFDLAFANDPD 304 (543)
T ss_pred HHHHHHHHcCCcEEEeCCcCC--CCCCCCCCCccCCcCCCCChHHH-HHHHHhhccCCCEEEEECCC
Confidence 367788999998887654432 2221 1123455555 777776 4457888777666
No 135
>PF01973 MAF_flag10: Protein of unknown function DUF115; InterPro: IPR002826 The prokaryotic proteins in this family have no known function.
Probab=28.83 E-value=43 Score=24.25 Aligned_cols=60 Identities=22% Similarity=0.216 Sum_probs=38.9
Q ss_pred HHHHHHHhh--CCcEEEecCCCCCCCCccCC------CCcchHHHHHHHHHHCCC-eeEEEcCCCceeee
Q psy1207 32 ECKELLSLM--GIPYIEVSRSPRLLPNFLGV------LAPCEAEAQCAAMVKAGK-VYATATEDMDALTF 92 (113)
Q Consensus 32 ~~~~lL~~~--Gip~i~~~~~~~~~~~~~~~------~AP~EAEAqcA~L~k~G~-vd~V~SeDsD~l~f 92 (113)
.++.+.. + |.|++.++.||-|-.++..+ .---=++.-+..|.+.|+ -|+|++-|.....+
T Consensus 14 ~~~~l~~-~k~~~~~~IvgaGPSL~~~i~~lk~~~~~~~iia~~sa~~~L~~~gI~Pd~~v~~D~~~~~~ 82 (170)
T PF01973_consen 14 PIKNLFN-FKGGKPAIIVGAGPSLDKNIELLKENRNKAIIIAVNSALKALLKNGIKPDFVVSIDPQFWNY 82 (170)
T ss_pred CHHHHhc-CCCCCeEEEEecCCCHHHHHHHHHhcccCcEEEEecHHHHHHHHcCceEEEEEEcCCCcchH
Confidence 4455555 3 69999999999843321111 000114567888999999 79999999944443
No 136
>TIGR00290 MJ0570_dom MJ0570-related uncharacterized domain. Proteins with this uncharacterized domain include two apparent ortholog families in the Archaea, one of which is universal among the first four completed archaeal genomes, and YLR143W, a much longer protein from Saccharomyces cerevisiae. The domain comprises the full length of the archaeal proteins and the first third of the yeast protein.
Probab=28.79 E-value=2.1e+02 Score=22.67 Aligned_cols=44 Identities=18% Similarity=0.138 Sum_probs=24.4
Q ss_pred HHHHHHhhCCcEEEecCCCCCCCCccCCCCcc--hHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 33 CKELLSLMGIPYIEVSRSPRLLPNFLGVLAPC--EAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 33 ~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~--EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
++..-++||+|.+.+..+ .+. |-|.--..|.+.| +++|++.|-+
T Consensus 50 ~~~qA~algipl~~~~~~-----------~~~e~~~e~l~~~l~~~g-v~~vv~GdI~ 95 (223)
T TIGR00290 50 TDLQAESIGIPLIKLYTE-----------GTEEDEVEELKGILHTLD-VEAVVFGAIY 95 (223)
T ss_pred HHHHHHHcCCCeEEeecC-----------CCccHHHHHHHHHHHHcC-CCEEEECCcc
Confidence 455667999998762111 122 2233334455555 7777776654
No 137
>PF04007 DUF354: Protein of unknown function (DUF354); InterPro: IPR007152 Members of this family are around 350 amino acids in length. They are found in archaea and some bacteria and have no known function.
Probab=28.49 E-value=41 Score=28.08 Aligned_cols=76 Identities=22% Similarity=0.294 Sum_probs=50.4
Q ss_pred ccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccC-CCCcchHHHHHHHHHHCCCeeEEEcCCC-----ceeeecCC
Q psy1207 22 LVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLG-VLAPCEAEAQCAAMVKAGKVYATATEDM-----DALTFGTN 95 (113)
Q Consensus 22 ~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~-~~AP~EAEAqcA~L~k~G~vd~V~SeDs-----D~l~fGa~ 95 (113)
.+.+|..-...+.+||+..|++|+.++... .+..+ +.+--+=..++..+.++-.-|.++|-.| =.+..|.|
T Consensus 29 eV~it~R~~~~~~~LL~~yg~~y~~iG~~g---~~~~~Kl~~~~~R~~~l~~~~~~~~pDv~is~~s~~a~~va~~lgiP 105 (335)
T PF04007_consen 29 EVLITARDKDETEELLDLYGIDYIVIGKHG---DSLYGKLLESIERQYKLLKLIKKFKPDVAISFGSPEAARVAFGLGIP 105 (335)
T ss_pred EEEEEEeccchHHHHHHHcCCCeEEEcCCC---CCHHHHHHHHHHHHHHHHHHHHhhCCCEEEecCcHHHHHHHHHhCCC
Confidence 566677778899999999999999987632 22222 3333455677888888777777777665 22345555
Q ss_pred eeeec
Q psy1207 96 ILLRQ 100 (113)
Q Consensus 96 ~vlr~ 100 (113)
.+...
T Consensus 106 ~I~f~ 110 (335)
T PF04007_consen 106 SIVFN 110 (335)
T ss_pred eEEEe
Confidence 54443
No 138
>TIGR00519 asnASE_I L-asparaginases, type I. Two related families of asparaginase are designated type I and type II according to the terminology in E. coli, which has both: L-asparaginase I is a low-affinity enzyme found in the cytoplasm, while L-asparaginase II is a high-affinity secreted enzyme synthesized with a cleavable signal sequence. This model describes L-asparaginases related to type I of E. coli. Archaeal putative asparaginases are of this type but contain an extra ~ 80 residues in a conserved N-terminal region. These archaeal homologs are included in this model.
Probab=28.16 E-value=1.3e+02 Score=25.01 Aligned_cols=28 Identities=11% Similarity=0.177 Sum_probs=19.5
Q ss_pred CCCHHHHHHHHHHHHhhCCcEEEecCCCC
Q psy1207 24 RVSSVHVKECKELLSLMGIPYIEVSRSPR 52 (113)
Q Consensus 24 ~vt~~~v~~~~~lL~~~Gip~i~~~~~~~ 52 (113)
++++.++..++++.+ -|||++.+||-+.
T Consensus 248 n~p~~~~~~l~~a~~-~Gi~VV~~Sq~~~ 275 (336)
T TIGR00519 248 HAPQNKLQELQEASD-RGVVVVMTTQCLN 275 (336)
T ss_pred CCCHHHHHHHHHHHH-CCCEEEEeCCCCC
Confidence 445566666666554 4999999988654
No 139
>PF12651 RHH_3: Ribbon-helix-helix domain
Probab=27.78 E-value=66 Score=19.12 Aligned_cols=25 Identities=28% Similarity=0.270 Sum_probs=21.4
Q ss_pred hhccCCCHHHHHHHHHHHHhhCCcE
Q psy1207 20 RRLVRVSSVHVKECKELLSLMGIPY 44 (113)
Q Consensus 20 ~r~~~vt~~~v~~~~~lL~~~Gip~ 44 (113)
+-+++++++.++..+++-+..|||-
T Consensus 4 r~t~~l~~el~~~L~~ls~~t~i~~ 28 (44)
T PF12651_consen 4 RFTFSLDKELYEKLKELSEETGIPK 28 (44)
T ss_pred EEEEecCHHHHHHHHHHHHHHCCCH
Confidence 3467889999999999999999984
No 140
>cd01980 Chlide_reductase_Y Chlide_reductase_Y : Y subunit of chlorophyllide (chlide) reductase (BchY). Chlide reductase participates in photosynthetic pigment synthesis playing a role in the conversion of chlorophylls(Chl) into bacteriochlorophylls (BChl). Chlide reductase catalyzes the reduction of the B-ring of the tetrapyrolle. Chlide reductase is a three subunit enzyme (subunits are designated BchX, BchY and BchZ). The similarity between these three subunits and the subunits for nitrogenase suggests that BchX serves as an electron donor for the BchY-BchY catalytic subunits.
Probab=27.72 E-value=92 Score=26.20 Aligned_cols=53 Identities=15% Similarity=0.144 Sum_probs=35.0
Q ss_pred CHHHHHHHHHHHHhhCCcEEEecCCCC------CCCCcc-CCCCcchHHHHHHHHHHCCCe
Q psy1207 26 SSVHVKECKELLSLMGIPYIEVSRSPR------LLPNFL-GVLAPCEAEAQCAAMVKAGKV 79 (113)
Q Consensus 26 t~~~v~~~~~lL~~~Gip~i~~~~~~~------~~~~~~-~~~AP~EAEAqcA~L~k~G~v 79 (113)
++..+.+++++|+.||+.++.+.++.. ..+-.+ ..+.|.-..+ +.+|.+.|.=
T Consensus 169 ~~~d~~ei~~lL~~~Gl~~~~~l~~~~~~el~~~~~A~~~i~~~~~~~~~-a~~Le~~GvP 228 (416)
T cd01980 169 FPADPVAIGSVLERMGLAAVPVVPTREWRELYAAGDAAAVAALHPFYTAT-IRELEEAGRP 228 (416)
T ss_pred CCCCHHHHHHHHHHcCCceeeEeCCCCHHHHhhcccCcEEEEeChhHHHH-HHHHHHcCCc
Confidence 455667999999999999986455433 111112 2566766655 8888887654
No 141
>PF08828 DSX_dimer: Doublesex dimerisation domain; InterPro: IPR014932 Doublesex (DSX) is a transcription factor that regulates somatic sexual differences in Drosophila. The structure has revealed a novel dimeric arrangement of ubiquitin-associated folds that has not previously been identified in a transcription factor []. ; PDB: 1ZV1_B 2JZ0_A 2JZ1_B.
Probab=27.66 E-value=39 Score=22.41 Aligned_cols=18 Identities=22% Similarity=0.588 Sum_probs=13.4
Q ss_pred HHHHHHHHHHHHhhCCcE
Q psy1207 27 SVHVKECKELLSLMGIPY 44 (113)
Q Consensus 27 ~~~v~~~~~lL~~~Gip~ 44 (113)
...++.|.+||+.|+.||
T Consensus 4 e~Ll~~cqkLlEkf~YpW 21 (62)
T PF08828_consen 4 EELLERCQKLLEKFRYPW 21 (62)
T ss_dssp HHHHHHHHHHHHHTT--G
T ss_pred HHHHHHHHHHHHHhCCCH
Confidence 356788999999999985
No 142
>TIGR02329 propionate_PrpR propionate catabolism operon regulatory protein PrpR. At least five distinct pathways exists for the catabolism of propionate by way of propionyl-CoA. Members of this family represent the transcriptional regulatory protein PrpR, whose gene is found in most cases divergently transcribed from an operon for the methylcitric acid cycle of propionate catabolism. 2-methylcitric acid, a catabolite by this pathway, is a coactivator of PrpR.
Probab=27.47 E-value=83 Score=27.83 Aligned_cols=59 Identities=7% Similarity=0.058 Sum_probs=41.1
Q ss_pred HHHHHHhhhccCC-CHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEE
Q psy1207 13 QEIDKFNRRLVRV-SSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATA 83 (113)
Q Consensus 13 ~~a~~~~~r~~~v-t~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~ 83 (113)
..|+++..+-.-| -+.+...++.+-+.+|++.-+ ..+..+.|++.++..|.++|+ +.|+
T Consensus 91 ~~a~~~~~~ia~vg~~~~~~~~~~~~~ll~~~i~~-----------~~~~~~~e~~~~~~~l~~~G~-~~vi 150 (526)
T TIGR02329 91 ARARRIASSIGVVTHQDTPPALRRFQAAFNLDIVQ-----------RSYVTEEDARSCVNDLRARGI-GAVV 150 (526)
T ss_pred HHHHhcCCcEEEEecCcccHHHHHHHHHhCCceEE-----------EEecCHHHHHHHHHHHHHCCC-CEEE
Confidence 3455664443333 466677788888888888654 223389999999999999995 5655
No 143
>cd03084 phosphohexomutase The alpha-D-phosphohexomutase superfamily includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this family include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional phosphomannomutase/phosphoglucomutase (PMM/PGM). These enzymes play important and diverse roles in carbohydrate metabolism in organisms from bacteria to humans. Each of these enzymes has four domains with a centrally located active site formed by four loops, one from each domain. All four domains are included in this alignment model.
Probab=27.41 E-value=2.3e+02 Score=22.98 Aligned_cols=58 Identities=28% Similarity=0.219 Sum_probs=35.5
Q ss_pred HHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCC-cc--hHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 29 HVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLA-PC--EAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 29 ~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~A-P~--EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
...-+.++|+.+|+.++.+...|. ++|-+... |. |.=..+..+++..-.|..+.-|+|
T Consensus 124 ~~~~~~~ll~~lg~~v~~~n~~~d--~~F~~~~p~p~~~~~l~~l~~~v~~~~adlG~a~DgD 184 (355)
T cd03084 124 GGPIAPQLLEKLGAEVIPLNCEPD--GNFGNINPDPGSETNLKQLLAVVKAEKADFGVAFDGD 184 (355)
T ss_pred HHHHHHHHHHHcCCcEEEEcCcCC--CCCCCCCCCCCchhhHHHHHHHHHhcCCCEEEEEcCC
Confidence 344577889999998888766543 44422222 34 444667777776666766555544
No 144
>TIGR02647 DNA conserved hypothetical protein TIGR02647. Members of this family are found, so far, only in the Gammaproteobacteria. The function is unknown. The location on the chromosome usually is not far from housekeeping genes rather than in what is clearly, say, a prophage region. Some members have been annotated in public databases as DNA-binding protein inhibitor Id-2-related protein, putative transcriptional regulator, or hypothetical DNA binding protein.
Probab=27.23 E-value=1.7e+02 Score=20.11 Aligned_cols=43 Identities=21% Similarity=0.123 Sum_probs=34.2
Q ss_pred CCCHHHHHHHHHHHH------hhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCee
Q psy1207 24 RVSSVHVKECKELLS------LMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVY 80 (113)
Q Consensus 24 ~vt~~~v~~~~~lL~------~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd 80 (113)
+.|++++.+..-|++ ..||.++. + |.-|+=+-...|-.+|+++
T Consensus 2 ~~t~~~i~ElnlL~~F~~~S~~~GIKvH~--d------------A~p~~i~a~~RLheKGLI~ 50 (77)
T TIGR02647 2 KYTPELIAELELLALFNLSSTQEGIKVHS--T------------ASPAAVAAAARLHEKGLTT 50 (77)
T ss_pred CCCHHHHHHHHHHHhCCchhhhcCccccc--c------------CCHHHHHHHHHHHHcCCcc
Confidence 568899998877764 56888886 2 6777888888999999876
No 145
>cd01421 IMPCH Inosine monophosphate cyclohydrolase domain. This is the N-terminal domain in the purine biosynthesis pathway protein ATIC (purH). The bifunctional ATIC protein contains a C-terminal ATIC formylase domain that formylates 5-aminoimidazole-4-carboxamide-ribonucleotide. The IMPCH domain then converts the formyl-5-aminoimidazole-4-carboxamide-ribonucleotide to inosine monophosphate. This is the final step in de novo purine production.
Probab=26.86 E-value=1.1e+02 Score=23.88 Aligned_cols=69 Identities=22% Similarity=0.258 Sum_probs=42.3
Q ss_pred HHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCC-----------CCCCccC-CCCcchHHHHHHHHHHCCC--e
Q psy1207 14 EIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPR-----------LLPNFLG-VLAPCEAEAQCAAMVKAGK--V 79 (113)
Q Consensus 14 ~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~-----------~~~~~~~-~~AP~EAEAqcA~L~k~G~--v 79 (113)
-|+++......+-. -.-..+.|+..|||+-.|+.=+. |||.+-+ +.|.-+-+... .|.+.|+ +
T Consensus 16 lAk~L~~lGf~I~A--T~GTAk~L~e~GI~v~~V~k~TgfpE~l~GRVKTLHP~ihggiL~~~~~~~~~-~~~~~~i~~i 92 (187)
T cd01421 16 FAKELVELGVEILS--TGGTAKFLKEAGIPVTDVSDITGFPEILGGRVKTLHPKIHGGILARRDNEEHK-DLEEHGIEPI 92 (187)
T ss_pred HHHHHHHCCCEEEE--ccHHHHHHHHcCCeEEEhhhccCCcHhhCCccccCChhhhhhhhcCCCChhHH-HHHHcCCCCe
Confidence 35555555554410 12255677888888877665443 7777666 66655444444 7888876 8
Q ss_pred eEEEcC
Q psy1207 80 YATATE 85 (113)
Q Consensus 80 d~V~Se 85 (113)
|.|+-+
T Consensus 93 dlVvvN 98 (187)
T cd01421 93 DLVVVN 98 (187)
T ss_pred eEEEEc
Confidence 888754
No 146
>PF14252 DUF4347: Domain of unknown function (DUF4347)
Probab=26.76 E-value=36 Score=25.75 Aligned_cols=15 Identities=33% Similarity=0.636 Sum_probs=13.2
Q ss_pred EEcCCCceeeecCCe
Q psy1207 82 TATEDMDALTFGTNI 96 (113)
Q Consensus 82 V~SeDsD~l~fGa~~ 96 (113)
-.++|+|+++|||..
T Consensus 87 ~L~~~~~IlLyGC~v 101 (165)
T PF14252_consen 87 ALADDGDILLYGCNV 101 (165)
T ss_pred HhCCCCcEEEEcCcc
Confidence 458999999999985
No 147
>PF09286 Pro-kuma_activ: Pro-kumamolisin, activation domain ; InterPro: IPR015366 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Proteolytic enzymes that exploit serine in their catalytic activity are ubiquitous, being found in viruses, bacteria and eukaryotes []. They include a wide range of peptidase activity, including exopeptidase, endopeptidase, oligopeptidase and omega-peptidase activity. Over 20 families (denoted S1 - S66) of serine protease have been identified, these being grouped into clans on the basis of structural similarity and other functional evidence []. Structures are known for members of the clans and the structures indicate that some appear to be totally unrelated, suggesting different evolutionary origins for the serine peptidases []. Not withstanding their different evolutionary origins, there are similarities in the reaction mechanisms of several peptidases. Chymotrypsin, subtilisin and carboxypeptidase C have a catalytic triad of serine, aspartate and histidine in common: serine acts as a nucleophile, aspartate as an electrophile, and histidine as a base []. The geometric orientations of the catalytic residues are similar between families, despite different protein folds []. The linear arrangements of the catalytic residues commonly reflect clan relationships. For example the catalytic triad in the chymotrypsin clan (PA) is ordered HDS, but is ordered DHS in the subtilisin clan (SB) and SDH in the carboxypeptidase clan (SC) [, ]. This domain is found at the N terminus of peptidases belonging to MEROPS peptidase family S53 (sedolisin, clan SB). The domain adopts a ferredoxin-like fold, with an alpha+beta sandwich. Cleavage of the domain results in activation of the peptidase []. ; GO: 0008236 serine-type peptidase activity; PDB: 1T1E_A 3EDY_A 3EE6_A.
Probab=26.51 E-value=95 Score=21.90 Aligned_cols=34 Identities=18% Similarity=0.155 Sum_probs=25.2
Q ss_pred CcchH--HHHHHHHHHCCCeeEEEcCCCceeeecCC
Q psy1207 62 APCEA--EAQCAAMVKAGKVYATATEDMDALTFGTN 95 (113)
Q Consensus 62 AP~EA--EAqcA~L~k~G~vd~V~SeDsD~l~fGa~ 95 (113)
+|.++ ++..+||.+.|+-...++.++|.+.+.++
T Consensus 58 ~p~~~~v~~V~~wL~~~G~~~~~~~~~~~~i~~~~t 93 (143)
T PF09286_consen 58 APSPEDVAAVKSWLKSHGLTVVEVSANGDWITVSGT 93 (143)
T ss_dssp S--HHHHHHHHHHHHHCT-EEEEEETTTTEEEEEEE
T ss_pred CCCHHHHHHHHHHHHHcCCceeEEeCCCCEEEEEEe
Confidence 45444 78899999999877778999999977665
No 148
>PF11032 ApoM: Apolipoprotein M (ApoM); InterPro: IPR022734 ApoM is a 25 kDa plasma protein associated with high-density lipoproteins (HDLs). ApoM is important in the formation of pre-ss-HDL and also in increasing cholesterol efflux from macrophage foam cells []. Lipoproteins consist of lipids solubilized by apolipoproteins. ApoM lacks an external amphipathic motif and is uniquely secreted to plasma without cleavage of its terminal signal peptide []. ; PDB: 2XKL_A 2WEX_A 2YG2_B 2WEW_A.
Probab=26.48 E-value=55 Score=25.51 Aligned_cols=29 Identities=14% Similarity=0.281 Sum_probs=22.1
Q ss_pred HhhhccCCCHHHHHHHHHHHHhhCCcEEE
Q psy1207 18 FNRRLVRVSSVHVKECKELLSLMGIPYIE 46 (113)
Q Consensus 18 ~~~r~~~vt~~~v~~~~~lL~~~Gip~i~ 46 (113)
++.|.-.++++.+++.+...+++|++.+.
T Consensus 146 LysR~~~~~~~~lEeFk~q~~Cl~~~~l~ 174 (186)
T PF11032_consen 146 LYSRSPKLEEEELEEFKAQTECLGFKFLL 174 (186)
T ss_dssp EEESSSS--HHHHHHHHHHHHHTT--EEE
T ss_pred EEeCCCCCCHHHHHHHHHhhhccCcEEEE
Confidence 46788899999999999999999999555
No 149
>PRK00881 purH bifunctional phosphoribosylaminoimidazolecarboxamide formyltransferase/IMP cyclohydrolase; Provisional
Probab=26.41 E-value=1.5e+02 Score=26.76 Aligned_cols=71 Identities=25% Similarity=0.291 Sum_probs=49.9
Q ss_pred HHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCC-----------CCCCccC-CCCcchHHHHHHHHHHCCC--
Q psy1207 13 QEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPR-----------LLPNFLG-VLAPCEAEAQCAAMVKAGK-- 78 (113)
Q Consensus 13 ~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~-----------~~~~~~~-~~AP~EAEAqcA~L~k~G~-- 78 (113)
+-++++....+.+-.. ....+.|+..|||+..|+.=+. |||.+-+ +.|.-+-+...+.|.+.|+
T Consensus 19 ~lAk~L~~lGfeI~AT--~GTak~L~e~GI~v~~V~k~TgfpEil~GRVKTLHP~IhgGiLa~r~~~~h~~~l~~~~i~~ 96 (513)
T PRK00881 19 EFAKALVELGVEILST--GGTAKLLAEAGIPVTEVSDVTGFPEILDGRVKTLHPKIHGGILARRDNPEHVAALEEHGIEP 96 (513)
T ss_pred HHHHHHHHCCCEEEEc--chHHHHHHHCCCeeEEeecccCCchhcCCccccCCchhhhhhccCCCCHHHHHHHHHcCCCc
Confidence 4455555555555211 3456778889999888877333 7888776 7787777888888988888
Q ss_pred eeEEEcC
Q psy1207 79 VYATATE 85 (113)
Q Consensus 79 vd~V~Se 85 (113)
+|.|+-+
T Consensus 97 IDlVvvN 103 (513)
T PRK00881 97 IDLVVVN 103 (513)
T ss_pred eeEEEEe
Confidence 8888754
No 150
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=26.41 E-value=83 Score=28.02 Aligned_cols=58 Identities=10% Similarity=0.062 Sum_probs=40.2
Q ss_pred HHHHHhhhccCC-CHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEE
Q psy1207 14 EIDKFNRRLVRV-SSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATA 83 (113)
Q Consensus 14 ~a~~~~~r~~~v-t~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~ 83 (113)
.|+++..+-.-| -+.+...++.+-+.+|++.-+ ..+..+.|++.++..|.++|+ +.|+
T Consensus 102 ~a~~~~~~iavv~~~~~~~~~~~~~~~l~~~i~~-----------~~~~~~~e~~~~v~~lk~~G~-~~vv 160 (538)
T PRK15424 102 RARKLTSSIGVVTYQETIPALVAFQKTFNLRIEQ-----------RSYVTEEDARGQINELKANGI-EAVV 160 (538)
T ss_pred HHHhcCCcEEEEecCcccHHHHHHHHHhCCceEE-----------EEecCHHHHHHHHHHHHHCCC-CEEE
Confidence 455554443333 456667788888888888655 223379999999999999995 5665
No 151
>cd01994 Alpha_ANH_like_IV 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 subfamily of proteins is predicted to bind ATP. This domainhas a strongly conserved motif SGGKD at the N terminus.
Probab=26.35 E-value=1.8e+02 Score=22.06 Aligned_cols=20 Identities=25% Similarity=0.350 Sum_probs=15.6
Q ss_pred HHHHHHHHHHhhCCcEEEec
Q psy1207 29 HVKECKELLSLMGIPYIEVS 48 (113)
Q Consensus 29 ~v~~~~~lL~~~Gip~i~~~ 48 (113)
..+.++.+.+.+|||.+.+.
T Consensus 46 ~~e~~~~~A~~lgipl~~i~ 65 (194)
T cd01994 46 NHELLELQAEAMGIPLIRIE 65 (194)
T ss_pred CHHHHHHHHHHcCCcEEEEe
Confidence 35677888899999988743
No 152
>PF14528 LAGLIDADG_3: LAGLIDADG-like domain; PDB: 2CW7_A 2CW8_A 2VS8_F 2VS7_G 1B24_A 1DQ3_A 2DCH_X.
Probab=26.30 E-value=65 Score=20.14 Aligned_cols=23 Identities=22% Similarity=0.216 Sum_probs=17.2
Q ss_pred CCCHHHHHHHHHHHHhhCCcEEE
Q psy1207 24 RVSSVHVKECKELLSLMGIPYIE 46 (113)
Q Consensus 24 ~vt~~~v~~~~~lL~~~Gip~i~ 46 (113)
+.+.+.+++++.+|..+||+.-.
T Consensus 28 ~~s~~ll~~v~~lL~~lGi~~~i 50 (77)
T PF14528_consen 28 SKSKELLEDVQKLLLRLGIKASI 50 (77)
T ss_dssp ES-HHHHHHHHHHHHHTT--EEE
T ss_pred ECCHHHHHHHHHHHHHCCCeeEE
Confidence 45788999999999999999754
No 153
>COG1927 Mtd Coenzyme F420-dependent N(5),N(10)-methenyltetrahydromethanopterin dehydrogenase [Energy production and conversion]
Probab=26.14 E-value=1.8e+02 Score=24.12 Aligned_cols=48 Identities=21% Similarity=0.294 Sum_probs=34.5
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeecCCe
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFGTNI 96 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~ 96 (113)
..+++|+.-|+|+|.+|++|- --.--.|.++|+-+.++--|. +.|+++
T Consensus 78 kARE~l~~s~~PaiiigDaPg--------------~~vkdeleeqGlGYIivk~Dp---miGArR 125 (277)
T COG1927 78 KAREILSDSDVPAIIIGDAPG--------------LKVKDELEEQGLGYIIVKADP---MIGARR 125 (277)
T ss_pred HHHHHHhhcCCCEEEecCCcc--------------chhHHHHHhcCCeEEEecCCc---ccchhh
Confidence 467888889999999999542 122345788999998888876 345553
No 154
>PLN02321 2-isopropylmalate synthase
Probab=26.06 E-value=1.9e+02 Score=26.48 Aligned_cols=46 Identities=22% Similarity=0.309 Sum_probs=35.6
Q ss_pred hccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHC
Q psy1207 21 RLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKA 76 (113)
Q Consensus 21 r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~ 76 (113)
-.+.+|.+.-.++.+.|..+||++|.++- | ..+|.|.|+ +..+.+.
T Consensus 101 ~g~~~s~eeKl~Ia~~L~~lGVd~IEvGf-P--------~~Sp~D~e~-vr~i~~~ 146 (632)
T PLN02321 101 PGATLTSKEKLDIARQLAKLGVDIIEAGF-P--------IASPDDLEA-VKTIAKE 146 (632)
T ss_pred CCCCCCHHHHHHHHHHHHHcCCCEEEEeC-c--------CCCccHHHH-HHHHHHh
Confidence 35667888888999999999999999753 1 137899988 7777654
No 155
>PRK08273 thiamine pyrophosphate protein; Provisional
Probab=25.90 E-value=1.8e+02 Score=25.45 Aligned_cols=34 Identities=18% Similarity=0.174 Sum_probs=25.0
Q ss_pred HHHHHHHHHHHhhCCcEEEecCC----CCCCCCccCCC
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRS----PRLLPNFLGVL 61 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~----~~~~~~~~~~~ 61 (113)
...+++.+|.+.+|+|++.+..+ |.-||.++|..
T Consensus 221 ~a~~~l~~lae~~~~PV~tt~~gkg~~~e~hp~~~G~~ 258 (597)
T PRK08273 221 GATDEVIAVAERLGAGVAKALLGKAALPDDLPWVTGSI 258 (597)
T ss_pred hHHHHHHHHHHHhCCceeecccCcccCCCCCccceecC
Confidence 44667888999999999986555 44667777743
No 156
>COG2378 Predicted transcriptional regulator [Transcription]
Probab=25.86 E-value=3.7e+02 Score=21.96 Aligned_cols=67 Identities=25% Similarity=0.247 Sum_probs=43.6
Q ss_pred HHHcCCHHHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCC----CCCCccC---CCCcchHHHHHHHHH
Q psy1207 6 FLLTGDAQEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPR----LLPNFLG---VLAPCEAEAQCAAMV 74 (113)
Q Consensus 6 ~~~~gd~~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~----~~~~~~~---~~AP~EAEAqcA~L~ 74 (113)
.+..+..-.+..+. ....||...+..=+.-|..+||| |...+|+. |.+.+.. .+.|.|++|-+..+.
T Consensus 16 ~L~~~~~vta~~lA-~~~~VS~RTi~RDi~~L~~~gvP-I~~e~G~~~gy~~~~~~~L~pl~ft~~E~~Al~~~l~ 89 (311)
T COG2378 16 ILRAKETVTAAELA-DEFEVSVRTIYRDIATLRAAGVP-IEGERGKGGGYRLRPGFKLPPLMFTEEEAEALLLALR 89 (311)
T ss_pred HHHhCccchHHHHH-HhcCCCHHHHHHHHHHHHHCCCC-eEeecCCCccEEEccCCCCCcccCCHHHHHHHHHHHH
Confidence 33444443444443 34458999998888999999999 44444532 4455543 678999998876654
No 157
>cd08607 GDPD_GDE5 Glycerophosphodiester phosphodiesterase domain of putative mammalian glycerophosphodiester phosphodiesterase GDE5 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in putative mammalian GDE5 and similar proteins. Mammalian GDE5 is widely expressed in mammalian tissues, with highest expression in the spinal chord. Although its biological function remains unclear, mammalian GDE5 shows higher sequence homology to fungal and plant glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46) than to other bacterial and mammalian GP-GDEs. It may also hydrolyze glycerophosphodiesters to sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. In addition to C-terminal GDPD domain, all members in this subfamily have a starch binding domain (CBM20) in the N-terminus, which suggests these proteins may play a distinct role in glycerol metabolism.
Probab=25.80 E-value=1.2e+02 Score=23.71 Aligned_cols=40 Identities=13% Similarity=0.065 Sum_probs=22.4
Q ss_pred HHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCC
Q psy1207 33 CKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 33 ~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeD 86 (113)
..+.++..|++++.-. -+-.-+.....|.+.| ||+|+|+.
T Consensus 250 ~v~~~~~~Gl~v~~wT-------------v~~n~~~~~~~l~~~G-VdgIiTD~ 289 (290)
T cd08607 250 QIELAKSLGLVVFCWG-------------DDLNDPENRKKLKELG-VDGLIYDR 289 (290)
T ss_pred HHHHHHHcCCEEEEEC-------------CCCCCHHHHHHHHHcC-CCEEEecC
Confidence 3444566888876611 1101123344666666 89999874
No 158
>PRK13561 putative diguanylate cyclase; Provisional
Probab=25.79 E-value=1.1e+02 Score=26.56 Aligned_cols=43 Identities=23% Similarity=0.162 Sum_probs=36.4
Q ss_pred hccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCC
Q psy1207 21 RLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGK 78 (113)
Q Consensus 21 r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~ 78 (113)
+.+.-.+.+++.+..+.+.+|+.+|- --=|-++|+.+|.+.|+
T Consensus 584 ~~i~~~~~~v~~i~~~a~~l~i~viA---------------egVE~~~~~~~l~~~g~ 626 (651)
T PRK13561 584 DGLPEDDSMVAAIIMLAQSLNLQVIA---------------EGVETEAQRDWLLKAGV 626 (651)
T ss_pred hcCCCCHHHHHHHHHHHHHCCCcEEE---------------ecCCCHHHHHHHHhcCC
Confidence 34445667888899999999999999 67799999999999886
No 159
>TIGR02201 heptsyl_trn_III lipopolysaccharide heptosyltransferase III, putative. This family consists of examples of the putative ADP-heptose:LPS heptosyltransferase III, an enzyme of LPS inner core region biosynthesis. LPS, composed of lipid A, a core region, and O antigen, is found in the outer membrane of Gram-negative bacteria. This enzyme may be less widely distributed than heptosyltransferases I and II.
Probab=25.73 E-value=2.4e+02 Score=22.37 Aligned_cols=11 Identities=9% Similarity=-0.245 Sum_probs=8.8
Q ss_pred eeEEEcCCCce
Q psy1207 79 VYATATEDMDA 89 (113)
Q Consensus 79 vd~V~SeDsD~ 89 (113)
+|+++|.||-.
T Consensus 261 a~l~Vs~DSGp 271 (344)
T TIGR02201 261 ARLFIGVDSVP 271 (344)
T ss_pred CCEEEecCCHH
Confidence 67889999863
No 160
>cd08605 GDPD_GDE5_like_1_plant Glycerophosphodiester phosphodiesterase domain of uncharacterized plant glycerophosphodiester phosphodiesterase-like proteins similar to mammalian GDE5. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of uncharacterized plant glycerophosphodiester phosphodiesterase (GP-PDE)-like proteins. Members in this family show very high sequence homology to mammalian glycerophosphodiester phosphodiesterase GDE5 and are distantly related to plant GP-PDEs.
Probab=25.20 E-value=1.3e+02 Score=23.62 Aligned_cols=19 Identities=11% Similarity=0.136 Sum_probs=13.7
Q ss_pred HHHHHHHHHCCCeeEEEcCC
Q psy1207 67 EAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 67 EAqcA~L~k~G~vd~V~SeD 86 (113)
.....+|.+.| ||+|||+.
T Consensus 263 ~~~~~~l~~~G-VdgIiTD~ 281 (282)
T cd08605 263 AEAVERQADLG-VDGVIVDH 281 (282)
T ss_pred HHHHHHHHHcC-CCEEEeCC
Confidence 34555777778 79999875
No 161
>TIGR01459 HAD-SF-IIA-hyp4 HAD-superfamily class IIA hydrolase, TIGR01459. This hypothetical equivalog is a member of the Class IIA subfamily of the haloacid dehalogenase superfamily of aspartate-nucleophile hydrolases. The sequences modelled by this equivalog are all gram negative and primarily alpha proteobacteria. Only one sequence hase been annotated as other than "hypothetical." That one, from Brucella, is annotated as related to NagD, but only by sequence similarity and should be treated with some skepticism. (See comments for Class IIA subfamily)
Probab=25.14 E-value=1.4e+02 Score=22.74 Aligned_cols=16 Identities=44% Similarity=0.534 Sum_probs=7.5
Q ss_pred HHhhCCcEEEecCCCC
Q psy1207 37 LSLMGIPYIEVSRSPR 52 (113)
Q Consensus 37 L~~~Gip~i~~~~~~~ 52 (113)
|+..|+++..++.+++
T Consensus 36 L~~~G~~~~ivTN~~~ 51 (242)
T TIGR01459 36 IIAQGKPVYFVSNSPR 51 (242)
T ss_pred HHHCCCEEEEEeCCCC
Confidence 3344555555444433
No 162
>PRK14487 cbb3-type cytochrome c oxidase subunit II; Provisional
Probab=24.99 E-value=2e+02 Score=23.22 Aligned_cols=16 Identities=25% Similarity=0.196 Sum_probs=14.2
Q ss_pred cchHHHHHHHHHHCCC
Q psy1207 63 PCEAEAQCAAMVKAGK 78 (113)
Q Consensus 63 P~EAEAqcA~L~k~G~ 78 (113)
..|.+|-.|||++.|-
T Consensus 193 ~te~~AliAYLq~LG~ 208 (217)
T PRK14487 193 ITEMDALIAYLQSLGT 208 (217)
T ss_pred ccHHHHHHHHHHHhcc
Confidence 4799999999999885
No 163
>smart00062 PBPb Bacterial periplasmic substrate-binding proteins. bacterial proteins, eukaryotic ones are in PBPe
Probab=24.95 E-value=2e+02 Score=19.14 Aligned_cols=40 Identities=18% Similarity=0.173 Sum_probs=29.3
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcC
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATE 85 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~Se 85 (113)
+.-++.+.+.+|+++-. -|. .-..+....++|-+|+.++.
T Consensus 27 ~~~~~~~~~~~g~~~~~---------------~~~-~~~~~~~~l~~g~~D~~~~~ 66 (219)
T smart00062 27 VDLAKAIAKELGLKVEF---------------VEV-SFDNLLTALKSGKIDVVAAG 66 (219)
T ss_pred HHHHHHHHHHhCCeEEE---------------Eec-cHHHHHHHHHCCcccEEecc
Confidence 34456777788988777 444 45677788889999998874
No 164
>PRK05254 uracil-DNA glycosylase; Provisional
Probab=24.93 E-value=78 Score=25.20 Aligned_cols=41 Identities=10% Similarity=0.068 Sum_probs=32.6
Q ss_pred ccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCC
Q psy1207 22 LVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLA 62 (113)
Q Consensus 22 ~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~A 62 (113)
.+.+.++.+-.+-++...-.|.|+.++|-||+-++++..+|
T Consensus 39 ~i~P~~~~iF~a~~~~p~~~vKVVIlGQDPY~~~gqA~GLa 79 (224)
T PRK05254 39 TIYPPGEDIFRAFNLTPFDDVKVVILGQDPYHGPGQAHGLS 79 (224)
T ss_pred eECCCHHHHHHHHhcCCHhHeEEEEEecCCCCCCCCcceEe
Confidence 46777778888877777888999999999998777666444
No 165
>PF13592 HTH_33: Winged helix-turn helix
Probab=24.92 E-value=1.5e+02 Score=18.27 Aligned_cols=31 Identities=19% Similarity=0.256 Sum_probs=19.3
Q ss_pred HHHHhhhccCCCHHHHHHHHHHHHhhCCcEEE
Q psy1207 15 IDKFNRRLVRVSSVHVKECKELLSLMGIPYIE 46 (113)
Q Consensus 15 a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~ 46 (113)
+..+-.+...++- ....+-.+|+.||+.|..
T Consensus 10 i~~~I~~~fgv~y-s~~~v~~lL~r~G~s~~k 40 (60)
T PF13592_consen 10 IAAYIEEEFGVKY-SPSGVYRLLKRLGFSYQK 40 (60)
T ss_pred HHHHHHHHHCCEE-cHHHHHHHHHHcCCcccc
Confidence 3344333333332 344567889999999998
No 166
>PF08442 ATP-grasp_2: ATP-grasp domain; InterPro: IPR013650 The ATP-grasp superfamily currently includes 17 groups of enzymes, catalyzing ATP-dependent ligation of a carboxylate containing molecule to an amino or thiol group-containing molecule []. They contribute predominantly to macromolecular synthesis. ATP-hydrolysis is used to activate a substrate. For example, DD-ligase transfers phosphate from ATP to D-alanine on the first step of catalysis. On the second step the resulting acylphosphate is attacked by a second D-alanine to produce a DD dipeptide following phosphate elimination []. The ATP-grasp domain contains three conserved motifs, corresponding to the phosphate binding loop and the Mg(2+) binding site []. The fold is characterised by two alpha-beta subdomains that grasp the ATP molecule between them. Each subdomain provides a variable loop that forms a part of the active site, completed by region of other domains not conserved between the various ATP-grasp enzymes []. The ATP-grasp domain represented by this entry is found primarily in succinyl-CoA synthetases (6.2.1.5 from EC).; PDB: 3PFF_A 3MWD_A 3MWE_A 1CQI_E 1SCU_B 2NU9_G 2NU6_E 1CQJ_E 2NU7_B 1JLL_E ....
Probab=24.90 E-value=70 Score=24.81 Aligned_cols=35 Identities=29% Similarity=0.285 Sum_probs=22.3
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHH
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVK 75 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k 75 (113)
.+.|+||+..|||+-. ....-+|.||...+..|..
T Consensus 5 yqaK~ll~~~gi~vp~----------g~~a~s~eea~~~~~~l~~ 39 (202)
T PF08442_consen 5 YQAKELLRKYGIPVPR----------GVVATSPEEAREAAKELGG 39 (202)
T ss_dssp HHHHHHHHCTT----S----------EEEESSHHHHHHHHHHHTT
T ss_pred HHHHHHHHHcCCCCCC----------eeecCCHHHHHHHHHHhCC
Confidence 4678999999999432 2222379999988888743
No 167
>PRK07004 replicative DNA helicase; Provisional
Probab=24.84 E-value=88 Score=26.98 Aligned_cols=54 Identities=20% Similarity=0.281 Sum_probs=36.9
Q ss_pred HHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcch---HHHHHHHHHHCCCeeEEEcCCCceeeec
Q psy1207 27 SVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCE---AEAQCAAMVKAGKVYATATEDMDALTFG 93 (113)
Q Consensus 27 ~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~E---AEAqcA~L~k~G~vd~V~SeDsD~l~fG 93 (113)
..+...+|.+-+.++||++..+|=.| .... -...++-|--+| -|.+|.|+++|=
T Consensus 350 ~~Isr~LK~lAkel~ipVi~lsQLnR---------~~e~r~~krP~lsDLreSg----~IeqdAD~v~~l 406 (460)
T PRK07004 350 SEISRSLKSLAKELDVPVIALSQLNR---------GLEQRPNKRPVMSDLRESG----AIEQDADVILFI 406 (460)
T ss_pred HHHHHHHHHHHHHhCCeEEEEeccCh---------hhhccCCCCCChHHHhcch----hhhhcCCEEEEe
Confidence 35667788899999999999888554 1111 134566676664 477888877763
No 168
>PRK04147 N-acetylneuraminate lyase; Provisional
Probab=24.74 E-value=75 Score=25.27 Aligned_cols=42 Identities=24% Similarity=0.295 Sum_probs=29.2
Q ss_pred hhhHHHHcCCHHHHHHHhhhccCCCHHH-----HHHHHHHHHhhCCc
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVRVSSVH-----VKECKELLSLMGIP 43 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~vt~~~-----v~~~~~lL~~~Gip 43 (113)
++-++..+||.++|++...+...+.... ...+|..|+..|++
T Consensus 218 ~l~~~~~~gd~~~a~~l~~~~~~~~~~~~~~~~~~~~K~~l~~~G~~ 264 (293)
T PRK04147 218 QIFEAAKAGDIQEAQELQHECNDVIDLLIKNGVYPGLKEILHYMGVD 264 (293)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHHHHHhhcCCcHHHHHHHHHcCCC
Confidence 3556778999999988766654443221 23479999999975
No 169
>PF13428 TPR_14: Tetratricopeptide repeat
Probab=24.67 E-value=49 Score=18.66 Aligned_cols=26 Identities=15% Similarity=0.282 Sum_probs=21.2
Q ss_pred HHHHcCCHHHHHHHhhhccCCCHHHH
Q psy1207 5 LFLLTGDAQEIDKFNRRLVRVSSVHV 30 (113)
Q Consensus 5 ~~~~~gd~~~a~~~~~r~~~vt~~~v 30 (113)
-....|+.++|.+.+++.+...|+..
T Consensus 10 ~~~~~G~~~~A~~~~~~~l~~~P~~~ 35 (44)
T PF13428_consen 10 AYRRLGQPDEAERLLRRALALDPDDP 35 (44)
T ss_pred HHHHcCCHHHHHHHHHHHHHHCcCCH
Confidence 35678999999999999988776544
No 170
>PRK06321 replicative DNA helicase; Provisional
Probab=24.59 E-value=1.1e+02 Score=26.66 Aligned_cols=52 Identities=17% Similarity=0.243 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcch---HHHHHHHHHHCCCeeEEEcCCCceeee
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCE---AEAQCAAMVKAGKVYATATEDMDALTF 92 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~E---AEAqcA~L~k~G~vd~V~SeDsD~l~f 92 (113)
.+...+|.+-+.+|||+|.+++=+| .... -...++-|--+ +-|.+|.|+++|
T Consensus 366 ~Isr~LK~lAkel~vpVi~lsQLnR---------~~e~r~~krP~lsDLReS----G~IEqdAD~v~~ 420 (472)
T PRK06321 366 EISRMLKNLARELNIPILCLSQLSR---------KVEDRANHRPMMSDLRES----GSIEQDSDLVMF 420 (472)
T ss_pred HHHHHHHHHHHHhCCcEEEEeecCh---------hhhccCCCCCCHHHHhhc----ccccccCCEEEE
Confidence 3556677778899999999888655 2211 12456666655 556788887776
No 171
>cd08606 GDPD_YPL110cp_fungi Glycerophosphodiester phosphodiesterase domain of Saccharomyces cerevisiae YPL110cp and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in Saccharomyces cerevisiae YPL110cp and other uncharacterized fungal homologs. The product of S. cerevisiae ORF YPL110c (GDE1), YPL110cp (Gde1p), displays homology to bacterial and mammalian glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46), which catalyzes the degradation of glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. S. cerevisiae YPL110cp has been characterized as a cytoplasmic glycerophosphocholine (GPC)-specific phosphodiesterase that selectively hydrolyzes GPC, not glycerophosphoinositol (GPI), to generate choline and glycerolphosphate. YPL110cp has multi-domain architecture, including not only C-terminal GDPD, but also an SPX N-terminal domain along with several ankyrin repeats, which imp
Probab=24.52 E-value=86 Score=24.55 Aligned_cols=21 Identities=33% Similarity=0.385 Sum_probs=14.4
Q ss_pred HHHHHHHCCCeeEEEcCCCcee
Q psy1207 69 QCAAMVKAGKVYATATEDMDAL 90 (113)
Q Consensus 69 qcA~L~k~G~vd~V~SeDsD~l 90 (113)
....|.+.| ||+++|+.-|.+
T Consensus 260 ~~~~l~~~G-VdgIiTD~p~~~ 280 (286)
T cd08606 260 NAKTQVKAG-VDAVIVDSVLAI 280 (286)
T ss_pred HHHHHHHcC-CCEEEECCHHHH
Confidence 334555556 899999987654
No 172
>cd01948 EAL EAL domain. This domain is found in diverse bacterial signaling proteins. It is called EAL after its conserved residues and is also known as domain of unknown function 2 (DUF2). The EAL domain has been shown to stimulate degradation of a second messenger, cyclic di-GMP, and is a good candidate for a diguanylate phosphodiesterase function. Together with the GGDEF domain, EAL might be involved in regulating cell surface adhesiveness in bacteria.
Probab=24.52 E-value=1.6e+02 Score=21.24 Aligned_cols=37 Identities=19% Similarity=0.232 Sum_probs=31.1
Q ss_pred HHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCC
Q psy1207 27 SVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGK 78 (113)
Q Consensus 27 ~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~ 78 (113)
...+..+..+.+.+|+++|. ..=|-+++...+.+.|+
T Consensus 188 ~~~l~~l~~~~~~~~~~via---------------~gVe~~~~~~~~~~~gi 224 (240)
T cd01948 188 RAIVRAIIALAHSLGLKVVA---------------EGVETEEQLELLRELGC 224 (240)
T ss_pred HHHHHHHHHHHHHCCCeEEE---------------EecCCHHHHHHHHHcCC
Confidence 44566678888899999999 67799999999999887
No 173
>cd03051 GST_N_GTT2_like GST_N family, Saccharomyces cerevisiae GTT2-like subfamily; composed of predominantly uncharacterized proteins with similarity to the S. cerevisiae GST protein, GTT2. GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens, therapeutic drugs, environmental toxins and products of oxidative stress. GSTs also show GSH peroxidase activity and are involved in the synthesis of prostaglandins and leukotrienes. The GST fold contains an N-terminal TRX-fold domain and a C-terminal alpha helical domain, with an active site located in a cleft between the two domains. GTT2, a homodimer, exhibits GST activity with standard substrates. Strains with deleted GTT2 genes are viable but exhibit increased sensitivity to heat shock.
Probab=24.43 E-value=77 Score=18.71 Aligned_cols=60 Identities=18% Similarity=0.156 Sum_probs=36.4
Q ss_pred HHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcc-hHHHHHHHHHHCCCeeEEEcCCCceeeecCCeeee
Q psy1207 29 HVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPC-EAEAQCAAMVKAGKVYATATEDMDALTFGTNILLR 99 (113)
Q Consensus 29 ~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~-EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~vlr 99 (113)
....++-+|+..|++|-.+.-.+ .++ ...+....++-.|.+-++..+| +..++.+.-+++
T Consensus 11 ~~~~~~~~L~~~~l~~~~~~v~~----------~~~~~~~~~~~~~~p~~~vP~l~~~~-~~~l~es~aI~~ 71 (74)
T cd03051 11 NPRRVRIFLAEKGIDVPLVTVDL----------AAGEQRSPEFLAKNPAGTVPVLELDD-GTVITESVAICR 71 (74)
T ss_pred chHHHHHHHHHcCCCceEEEeec----------ccCccCCHHHHhhCCCCCCCEEEeCC-CCEEecHHHHHH
Confidence 45567788999999974421110 122 2334567788888898887655 345566554443
No 174
>cd08608 GDPD_GDE2 Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE2 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE2 (also known as glycerophosphodiester phosphodiesterase domain-containing protein 5 (GDPD5)) and their metazoan homologs. Mammalian GDE2 is transmembrane protein primarily expressed in mature neurons. It is a mammalian homolog of bacterial glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46), which catalyze the hydrolysis of various glycerophosphodiesters, and produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. Mammalian GDE2 selectively hydrolyzes glycerophosphocholine (GPC) and has been characterized as GPC-GDE (EC 3.1.4.2) that contributes to osmotic regulation of cellular GPC. Mammalian GDE2 functions in a complex with an antioxidant scavenger peroxiredoxin1 (Prdx1) to control motor neuron differenti
Probab=24.30 E-value=82 Score=26.51 Aligned_cols=22 Identities=14% Similarity=0.128 Sum_probs=17.0
Q ss_pred HHHHHHHHCCCeeEEEcCCCcee
Q psy1207 68 AQCAAMVKAGKVYATATEDMDAL 90 (113)
Q Consensus 68 AqcA~L~k~G~vd~V~SeDsD~l 90 (113)
.+...|...| ||+|+|+.-|.+
T Consensus 235 ~~~~~l~~~G-VdgIiTD~P~~l 256 (351)
T cd08608 235 WLYSLLWCSG-VPSVTSDASHVL 256 (351)
T ss_pred HHHHHHHHCC-CCEEEECCHHHH
Confidence 4556777777 999999988855
No 175
>PF01902 ATP_bind_4: ATP-binding region; InterPro: IPR002761 This domain is about 200 amino acids long with a strongly conserved motif SGGKD at the N-terminal. The structure of Q8U2K6 from SWISSPROT from Pyrococcus furiosus has been resolved to 2.7A and is suggested to be a putative N-type pytophosphatase. In some members of the family e.g. Q12429 from SWISSPROT, this domain is associated with IPR006175 from INTERPRO, another domain of unknown function. Proteins with this uncharacterised domain include two apparent ortholog families in the archaea, one of which is universal among the first four completed archaeal genomes. The domain comprises the full length of the archaeal proteins and the first third of fungal proteins.; PDB: 3RK0_A 3RK1_A 3RJZ_A 2D13_D.
Probab=24.25 E-value=1.4e+02 Score=23.50 Aligned_cols=46 Identities=26% Similarity=0.260 Sum_probs=21.1
Q ss_pred HHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 33 CKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 33 ~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
++..-++||+|.+.+.-+.. .-.|-++-...|.+.| |++|++.|-+
T Consensus 50 ~~~qA~algipl~~~~~~g~---------~~~~~~~l~~~l~~~~-v~~vv~GdI~ 95 (218)
T PF01902_consen 50 IEAQAEALGIPLIEIPTSGD---------EEDYVEDLKEALKELK-VEAVVFGDID 95 (218)
T ss_dssp HHHHHHHHT--EEEEEE------------CCCHHHHHHHHHCTC---SEEE--TTS
T ss_pred HHHHHHHCCCCEEEEEccCc---------cchhhHHHHHHHHHcC-CCEEEECcCC
Confidence 44556899999887332210 1222234445555555 8887777754
No 176
>COG0119 LeuA Isopropylmalate/homocitrate/citramalate synthases [Amino acid transport and metabolism]
Probab=23.96 E-value=2.5e+02 Score=24.19 Aligned_cols=28 Identities=25% Similarity=0.224 Sum_probs=24.7
Q ss_pred ccCCCHHHHHHHHHHHHhhCCcEEEecC
Q psy1207 22 LVRVSSVHVKECKELLSLMGIPYIEVSR 49 (113)
Q Consensus 22 ~~~vt~~~v~~~~~lL~~~Gip~i~~~~ 49 (113)
.+++|.+.--++...|+.+||++|.++-
T Consensus 18 g~~~s~e~Ki~Ia~~Ld~lGv~~IE~g~ 45 (409)
T COG0119 18 GVSFSVEEKIRIAKALDDLGVDYIEAGF 45 (409)
T ss_pred CCcCCHHHHHHHHHHHHHcCCCEEEEeC
Confidence 5778899999999999999999999654
No 177
>PRK08840 replicative DNA helicase; Provisional
Probab=23.56 E-value=1.2e+02 Score=26.22 Aligned_cols=52 Identities=15% Similarity=0.261 Sum_probs=35.3
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchH---HHHHHHHHHCCCeeEEEcCCCceeee
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEA---EAQCAAMVKAGKVYATATEDMDALTF 92 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EA---EAqcA~L~k~G~vd~V~SeDsD~l~f 92 (113)
.+...+|.+-+.+|||+|.++|=-| ....- -..++-|--+ +-|.+|.|+++|
T Consensus 356 ~isr~LK~lAkel~ipVi~LsQLnR---------~~e~r~~krP~lsDLreS----G~IEqdAD~v~~ 410 (464)
T PRK08840 356 EISRSLKALAKELNVPVVALSQLNR---------SLEQRADKRPVNSDLRES----GSIEQDADLIMF 410 (464)
T ss_pred HHHHHHHHHHHHhCCeEEEEEecCc---------cccccCCCCCchHhhhhc----ccccccCCEEEE
Confidence 4566788999999999999887554 22111 1345556655 456788888776
No 178
>PRK14317 glmM phosphoglucosamine mutase; Provisional
Probab=23.53 E-value=2.4e+02 Score=23.95 Aligned_cols=57 Identities=18% Similarity=0.082 Sum_probs=34.2
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
..-+.++|+.+|+.++.....|. +++..--.+.|.-.++..+++..-+|..+.-|+|
T Consensus 201 ~~~~~~ll~~LG~~v~~l~~~~d--g~~~~~~~~~~~l~~l~~~v~~~~adlGia~DgD 257 (465)
T PRK14317 201 VACAPEVFKALGAEVICLHDQPD--GDRINVNCGSTHLEPLQAAVLEHGADMGFAFDGD 257 (465)
T ss_pred HHHHHHHHHHcCCeEEEEecccC--CCCCCCCCchHhHHHHHHHHHhcCCCEEEEECCC
Confidence 44467889999998887655443 2222111112455667777777667777666655
No 179
>cd08612 GDPD_GDE4 Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE4 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE4 (also known as glycerophosphodiester phosphodiesterase domain-containing protein 1 (GDPD1)) and similar proteins. Mammalian GDE4 is a transmembrane protein whose cellular function has not yet been elucidated. It is expressed widely, including in placenta, liver, kidney, pancreas, spleen, thymus, ovary, small intestine and peripheral blood leukocytes. It is also expressed in the growth cones in neuroblastoma Neuro2a cells, which suggests GDE4 may play some distinct role from other members of the GDE family.
Probab=23.51 E-value=99 Score=24.72 Aligned_cols=42 Identities=17% Similarity=0.052 Sum_probs=26.2
Q ss_pred HHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCcee
Q psy1207 33 CKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDAL 90 (113)
Q Consensus 33 ~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l 90 (113)
..+.++..|+++.. =----+++..+|.+.| ||+|+|+.=|.+
T Consensus 253 ~v~~~~~~G~~v~v---------------WTVNd~~~~~~l~~~G-VdgIiTD~P~~l 294 (300)
T cd08612 253 LFRHLQKRGIQVYG---------------WVLNDEEEFERAFELG-ADGVMTDYPTKL 294 (300)
T ss_pred HHHHHHHCCCEEEE---------------eecCCHHHHHHHHhcC-CCEEEeCCHHHH
Confidence 33445667888655 1111135566777777 899999976643
No 180
>TIGR03600 phage_DnaB phage replicative helicase, DnaB family, HK022 subfamily. Members of this family are phage (or prophage-region) homologs of the bacterial homohexameric replicative helicase DnaB. Some phage may rely on host DnaB, while others encode their own verions. This model describes the largest phage-specific clade among the close homologs of DnaB, but there are, or course, other DnaB homologs from phage that fall outside the scope of this model.
Probab=23.49 E-value=1.4e+02 Score=24.77 Aligned_cols=55 Identities=11% Similarity=0.158 Sum_probs=35.6
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcch---HHHHHHHHHHCCCeeEEEcCCCceeeecCC
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCE---AEAQCAAMVKAGKVYATATEDMDALTFGTN 95 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~E---AEAqcA~L~k~G~vd~V~SeDsD~l~fGa~ 95 (113)
.+...+|.+-+.++||++.+++=.| .... -...++-|--+ +-|.+|.|+++|=-+
T Consensus 331 ~i~~~Lk~lAke~~i~Vi~lsQlnr---------~~~~r~~krp~lsdlr~S----g~Ieq~AD~v~~l~R 388 (421)
T TIGR03600 331 GISRGLKALAKELDVPVVLLAQLNR---------GSEKRTDKRPIMSDLRDS----GAIEQDADVIGLIHR 388 (421)
T ss_pred HHHHHHHHHHHHhCCcEEEecccCc---------chhhcCCCCCChHHHhhc----CCccccCcEEEEecc
Confidence 3556788888899999999888554 2111 11445666655 456678887776443
No 181
>cd00408 DHDPS-like Dihydrodipicolinate synthase family. A member of the class I aldolases, which use an active-site lysine which stablilzes a reaction intermediate via Schiff base formation, and have TIM beta/alpha barrel fold. The dihydrodipicolinate synthase family comprises several pyruvate-dependent class I aldolases that use the same catalytic step to catalyze different reactions in different pathways and includes such proteins as N-acetylneuraminate lyase, MosA protein, 5-keto-4-deoxy-glucarate dehydratase, trans-o-hydroxybenzylidenepyruvate hydratase-aldolase, trans-2'-carboxybenzalpyruvate hydratase-aldolase, and 2-keto-3-deoxy- gluconate aldolase. The family is also referred to as the N-acetylneuraminate lyase (NAL) family.
Probab=23.43 E-value=68 Score=24.93 Aligned_cols=42 Identities=24% Similarity=0.321 Sum_probs=31.2
Q ss_pred hhhHHHHcCCHHHHHHHhhhccCCCHHHH-----HHHHHHHHhhCCc
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVRVSSVHV-----KECKELLSLMGIP 43 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~vt~~~v-----~~~~~lL~~~Gip 43 (113)
++-++..+||.++|++...+...+...+. .-.|.+++..|++
T Consensus 212 ~~~~~~~~g~~~~a~~~~~~~~~~~~~~~~~~~~~~~K~~l~~~G~~ 258 (281)
T cd00408 212 ALYEAARAGDLEEARALQDRLLPLIEALFKEGNPAPVKAALALLGLD 258 (281)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHHHhcCCCcHHHHHHHHHcCCC
Confidence 45678889999999988877666644332 3478999999965
No 182
>COG4274 Uncharacterized conserved protein [Function unknown]
Probab=23.41 E-value=87 Score=22.67 Aligned_cols=27 Identities=19% Similarity=0.235 Sum_probs=23.3
Q ss_pred hhccCCCHHHHHHHHHHHHhhCCcEEE
Q psy1207 20 RRLVRVSSVHVKECKELLSLMGIPYIE 46 (113)
Q Consensus 20 ~r~~~vt~~~v~~~~~lL~~~Gip~i~ 46 (113)
-+++.-+|+-+..++.+++.||+.++.
T Consensus 22 aktlke~p~R~~av~~~les~G~k~~~ 48 (104)
T COG4274 22 AKTLKETPKRAAAVRALLESMGGKVKE 48 (104)
T ss_pred HHHHhhCHHHHHHHHHHHHHcCcEEEE
Confidence 456777899999999999999999765
No 183
>PRK08506 replicative DNA helicase; Provisional
Probab=23.39 E-value=1.2e+02 Score=26.16 Aligned_cols=51 Identities=22% Similarity=0.292 Sum_probs=34.6
Q ss_pred HHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcch---HHHHHHHHHHCCCeeEEEcCCCceeee
Q psy1207 29 HVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCE---AEAQCAAMVKAGKVYATATEDMDALTF 92 (113)
Q Consensus 29 ~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~E---AEAqcA~L~k~G~vd~V~SeDsD~l~f 92 (113)
+...+|.+-+.++||+|.+++=.| .... -..+++-|--+| -|.+|.|+++|
T Consensus 330 isr~LK~lAkel~ipVi~lsQLnR---------~~e~r~~krP~lsDLreSg----~IeqdAD~vl~ 383 (472)
T PRK08506 330 ISRGLKLLARELDIPIIALSQLNR---------SLESRADKRPMLSDLRESG----AIEQDADIILF 383 (472)
T ss_pred HHHHHHHHHHHhCCcEEEEeecCc---------chhhccCCCCChHHhhcch----hhhhcCCEEEE
Confidence 445688888999999999888655 2211 124566666553 47788887776
No 184
>PRK11921 metallo-beta-lactamase/flavodoxin domain-containing protein; Provisional
Probab=23.15 E-value=2.3e+02 Score=23.50 Aligned_cols=43 Identities=19% Similarity=0.015 Sum_probs=31.3
Q ss_pred HHHHHHhhhccCCCHHHHHHHHHHHHhh--CCcEEEecCCCCCCC
Q psy1207 13 QEIDKFNRRLVRVSSVHVKECKELLSLM--GIPYIEVSRSPRLLP 55 (113)
Q Consensus 13 ~~a~~~~~r~~~vt~~~v~~~~~lL~~~--Gip~i~~~~~~~~~~ 55 (113)
+++++|+.+....-..++.+..+-|+.+ .+.+|..+-+|.+-+
T Consensus 185 ~~~~~y~~~i~~p~~~~v~~~l~~l~~~~l~~~~i~p~HG~i~~~ 229 (394)
T PRK11921 185 QEAIKYYANILTPFSPLVIKKIEEILSLNLPVDMICPSHGVIWRD 229 (394)
T ss_pred HHHHHHHHHHHhhhHHHHHHHHHHHHhcCCCCCEEEcCCccEEeC
Confidence 5778888777777777777777777745 678888777887433
No 185
>COG1663 LpxK Tetraacyldisaccharide-1-P 4'-kinase [Cell envelope biogenesis, outer membrane]
Probab=23.07 E-value=1.3e+02 Score=25.64 Aligned_cols=34 Identities=18% Similarity=0.103 Sum_probs=29.2
Q ss_pred hhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCC
Q psy1207 39 LMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDM 87 (113)
Q Consensus 39 ~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDs 87 (113)
.-+.|+++ +|...+|--+.+.++.-+|.|+.+|+
T Consensus 117 ~t~~pv~v---------------~~~R~~~~~~l~~~~~~~diIi~DDG 150 (336)
T COG1663 117 RTGAPVAV---------------SPDRKDAAKALLAAHLGCDIIVLDDG 150 (336)
T ss_pred hcCCcEEE---------------ehhHHHHHHHHHhhCCCCCEEEEcCc
Confidence 34888888 89999998888888888999999997
No 186
>cd03030 GRX_SH3BGR Glutaredoxin (GRX) family, SH3BGR (SH3 domain binding glutamic acid-rich protein) subfamily; a recently-identified subfamily composed of SH3BGR and similar proteins possessing significant sequence similarity to GRX, but without a redox active CXXC motif. The SH3BGR gene was cloned in an effort to identify genes mapping to chromosome 21, which could be involved in the pathogenesis of congenital heart disease affecting Down syndrome newborns. Several human SH3BGR-like (SH3BGRL) genes have been identified since, mapping to different locations in the chromosome. Of these, SH3BGRL3 was identified as a tumor necrosis factor (TNF) alpha inhibitory protein and was also named TIP-B1. Upregulation of expression of SH3BGRL3 is associated with differentiation. It has been suggested that it functions as a regulator of differentiation-related signal transduction pathways.
Probab=23.06 E-value=56 Score=22.29 Aligned_cols=21 Identities=19% Similarity=0.159 Sum_probs=17.3
Q ss_pred CHHHHHHHHHHHHhhCCcEEE
Q psy1207 26 SSVHVKECKELLSLMGIPYIE 46 (113)
Q Consensus 26 t~~~v~~~~~lL~~~Gip~i~ 46 (113)
+.+..+.++.+|+..||+|-.
T Consensus 15 ~k~~~~~v~~lL~~k~I~f~e 35 (92)
T cd03030 15 IKKRQQEVLGFLEAKKIEFEE 35 (92)
T ss_pred HHHHHHHHHHHHHHCCCceEE
Confidence 455667789999999999877
No 187
>PRK09165 replicative DNA helicase; Provisional
Probab=23.03 E-value=1.2e+02 Score=26.45 Aligned_cols=50 Identities=24% Similarity=0.358 Sum_probs=34.7
Q ss_pred HHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchH----HHHHHHHHHCCCeeEEEcCCCceeee
Q psy1207 29 HVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEA----EAQCAAMVKAGKVYATATEDMDALTF 92 (113)
Q Consensus 29 ~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EA----EAqcA~L~k~G~vd~V~SeDsD~l~f 92 (113)
+...+|.+-+.++||++.++|=.| .. |. -.+++-|--+ +-|-+|.|+++|
T Consensus 371 is~~LK~lAkel~ipVi~lsQLnR---------~~-e~r~~krP~lsDLr~S----g~IEqdAD~v~~ 424 (497)
T PRK09165 371 ITQGLKALAKELNIPVIALSQLSR---------QV-EQRDDKRPQLSDLRES----GSIEQDADVVMF 424 (497)
T ss_pred HHHHHHHHHHHhCCeEEEeecccc---------hh-hccCCCCCchhhhhhc----cchhccCCEEEE
Confidence 456678888899999999888555 22 21 2455666655 566788887776
No 188
>TIGR02223 ftsN cell division protein FtsN. FtsN is a poorly conserved protein active in cell division in a number of Proteobacteria. The N-terminal 30 residue region tends to by Lys/Arg-rich, and is followed by a membrane-spanning region. This is followed by an acidic low-complexity region of variable length and a well-conserved C-terminal domain of two tandem regions matched by Pfam model pfam05036 (Sporulation related repeat), found in several cell division and sporulation proteins. The role of FtsN as a suppressor for other cell division mutations is poorly understood; it may involve cell wall hydrolysis.
Probab=22.93 E-value=2.3e+02 Score=23.43 Aligned_cols=67 Identities=12% Similarity=0.064 Sum_probs=46.8
Q ss_pred HhhhccCC-CHHHHHHHHHHHHhhCCcEEEe-cCCCCCCCCccC-CCCcchHHHHHHHHHHCCCeeEEEc
Q psy1207 18 FNRRLVRV-SSVHVKECKELLSLMGIPYIEV-SRSPRLLPNFLG-VLAPCEAEAQCAAMVKAGKVYATAT 84 (113)
Q Consensus 18 ~~~r~~~v-t~~~v~~~~~lL~~~Gip~i~~-~~~~~~~~~~~~-~~AP~EAEAqcA~L~k~G~vd~V~S 84 (113)
|+-++-.. +.+-.+....-|...|++..++ +.+-.+|+=++| +-...+|+.....|-..|+-.+|+.
T Consensus 228 ~~lQvGAF~~~~~Ae~l~akL~~~G~~~~i~~~~g~~~yRV~vGPf~sr~~A~~~~~~Lk~~Gi~~~iv~ 297 (298)
T TIGR02223 228 AALQCGAYANKEQAESVRAKLAFLGISSKITTTDGGKWYRVVSGPYKNKDDAEKDLNKLKVAGVAGCIIN 297 (298)
T ss_pred EEEEEeecCCHHHHHHHHHHHHhcCCceEEEecCCceEEEEEeCCCCCHHHHHHHHHHHHHcCCCCeEee
Confidence 44444434 5667778888888899864443 222237777777 4456899999999999998877763
No 189
>cd07944 DRE_TIM_HOA_like 4-hydroxy-2-oxovalerate aldolase-like, N-terminal catalytic TIM barrel domain. This family of bacterial enzymes is sequence-similar to 4-hydroxy-2-oxovalerate aldolase (HOA) but its exact function is unknown. This family includes the Bacteroides vulgatus Bvu_2661 protein and belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center containing a divalent cation-binding site formed by a cluster of invariant residues t
Probab=22.90 E-value=1.2e+02 Score=24.01 Aligned_cols=28 Identities=25% Similarity=0.324 Sum_probs=25.2
Q ss_pred hccCCCHHHHHHHHHHHHhhCCcEEEec
Q psy1207 21 RLVRVSSVHVKECKELLSLMGIPYIEVS 48 (113)
Q Consensus 21 r~~~vt~~~v~~~~~lL~~~Gip~i~~~ 48 (113)
..+..|.+...++.+.|+..||++|.++
T Consensus 13 ~~~~f~~~~~~~ia~~L~~~GVd~IEvG 40 (266)
T cd07944 13 NNWDFGDEFVKAIYRALAAAGIDYVEIG 40 (266)
T ss_pred cCccCCHHHHHHHHHHHHHCCCCEEEee
Confidence 4667899999999999999999999976
No 190
>PF13838 Clathrin_H_link: Clathrin-H-link; PDB: 2XZG_A 3GD1_I 1BPO_C 1C9I_B 1C9L_A.
Probab=22.83 E-value=2.1e+02 Score=18.85 Aligned_cols=34 Identities=12% Similarity=0.202 Sum_probs=25.8
Q ss_pred hhhHHHHcCCHHHHHHHhhhc---cCCCHHHHHHHHH
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRL---VRVSSVHVKECKE 35 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~---~~vt~~~v~~~~~ 35 (113)
++++.+..||.++|.+...++ +-=|++.++..|.
T Consensus 12 ~F~~l~~~g~y~eAA~~AA~sP~giLRt~~Ti~rFk~ 48 (66)
T PF13838_consen 12 QFNELFSQGQYEEAAKVAANSPRGILRTPETINRFKQ 48 (66)
T ss_dssp HHHHHHHTT-HHHHHHHHHHSGGGTT-SHHHHHHHHT
T ss_pred HHHHHHHcCCHHHHHHHHHhCccchhcCHHHHHHHHc
Confidence 578899999999999997665 3338888888874
No 191
>PRK11590 hypothetical protein; Provisional
Probab=22.66 E-value=3.1e+02 Score=20.35 Aligned_cols=30 Identities=17% Similarity=0.081 Sum_probs=21.3
Q ss_pred cCCCHHHHHHHHHHHHhhCCcEEEecCCCC
Q psy1207 23 VRVSSVHVKECKELLSLMGIPYIEVSRSPR 52 (113)
Q Consensus 23 ~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~ 52 (113)
+.+-+...+-+++.++..|+++..+|.+|+
T Consensus 94 ~~~~pga~e~L~~~l~~~G~~l~IvSas~~ 123 (211)
T PRK11590 94 VTAFPVVQERLTTYLLSSDADVWLITGSPQ 123 (211)
T ss_pred CcCCccHHHHHHHHHHhCCCEEEEEeCCcH
Confidence 344456666666677788999999998653
No 192
>TIGR03662 Chlor_Arch_YYY Chlor_Arch_YYY domain. Members of this highly hydrophobic probable integral membrane family belong to two classes. In one, a single copy of the region modeled by This model represents essentially the full length of a strongly hydrophobic protein of about 700 to 900 residues (variable because of long inserts in some). The domain architecture of the other class consists of an additional N-terminal region, two copies of the region represented by this model, and three to four repeats of TPR, or tetratricopeptide repeat. The unusual species range includes several Archaea, several Chloroflexi, and Clostridium phytofermentans. An unusual motif YYYxG is present, and we suggest the name Chlor_Arch_YYY protein. The function is unknown.
Probab=22.63 E-value=87 Score=29.14 Aligned_cols=46 Identities=22% Similarity=0.299 Sum_probs=32.1
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCC
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeD 86 (113)
.++.+++++..||.||.+++.-| .-+..+ .+.+...+...-|.++|
T Consensus 670 ~~~~~~Ll~kY~V~YVyVG~~ER---------~~Y~~~--~~~l~~~~~le~Vy~~g 715 (723)
T TIGR03662 670 PTEARELLERYGVDYVYVGPLER---------QRYGLS--TDALEDLGDLEPVFEQG 715 (723)
T ss_pred HHHHHHHHHHcCCeEEEECchhh---------hhcccc--HHhhcccCCceEEEEcC
Confidence 55678999999999999887655 334332 25566666666777654
No 193
>PF06014 DUF910: Bacterial protein of unknown function (DUF910); InterPro: IPR009256 This family consists of several short bacterial proteins of unknown function.; PDB: 2NN4_A.
Probab=22.60 E-value=1.7e+02 Score=19.27 Aligned_cols=36 Identities=17% Similarity=0.202 Sum_probs=20.5
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHH-----HHHHHHHHCCCee
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAE-----AQCAAMVKAGKVY 80 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAE-----AqcA~L~k~G~vd 80 (113)
..+++.+|+.+|+=+.. .--++| -.+-.|.+.|++|
T Consensus 4 lyDVqQLLK~fG~~IY~---------------gdr~~DielM~~El~~Ly~~~lid 44 (62)
T PF06014_consen 4 LYDVQQLLKKFGIIIYV---------------GDRLWDIELMEIELKELYKSGLID 44 (62)
T ss_dssp HHHHHHHHHTTS--------------------S-HHHHHHHHHHHHHHHHHTTSS-
T ss_pred HHHHHHHHHHCCEEEEe---------------CChHHHHHHHHHHHHHHHHcCCCC
Confidence 45789999999998877 444555 3455677777765
No 194
>TIGR00665 DnaB replicative DNA helicase. This model describes the helicase DnaB, a homohexameric protein required for DNA replication. The homohexamer can form a ring around a single strand of DNA near a replication fork. An intein of 400 residues is found at a conserved location in DnaB of Synechocystis PCC6803, Rhodothermus marinus (both experimentally confirmed), and Mycobacterium tuberculosis. The intein removes itself by a self-splicing reaction. The seed alignment contains inteins so that the model built from the seed alignment will model a low cost at common intein insertion sites.
Probab=22.42 E-value=1.3e+02 Score=25.11 Aligned_cols=24 Identities=25% Similarity=0.374 Sum_probs=18.8
Q ss_pred HHHHHHHHHHhhCCcEEEecCCCC
Q psy1207 29 HVKECKELLSLMGIPYIEVSRSPR 52 (113)
Q Consensus 29 ~v~~~~~lL~~~Gip~i~~~~~~~ 52 (113)
+...++.+-+.+|||++.+++=+|
T Consensus 333 i~~~Lk~lA~e~~i~vi~lsqlnr 356 (434)
T TIGR00665 333 ISRSLKALAKELNVPVIALSQLSR 356 (434)
T ss_pred HHHHHHHHHHHhCCeEEEEeccCc
Confidence 345677777899999999998655
No 195
>cd01172 RfaE_like RfaE encodes a bifunctional ADP-heptose synthase involved in the biosynthesis of the lipopolysaccharide (LPS) core precursor ADP-L-glycero-D-manno-heptose. LPS plays an important role in maintaining the structural integrity of the bacterial outer membrane of gram-negative bacteria. RfaE consists of two domains, a sugar kinase domain, represented here, and a domain belonging to the cytidylyltransferase superfamily.
Probab=22.39 E-value=2.5e+02 Score=21.43 Aligned_cols=44 Identities=14% Similarity=0.102 Sum_probs=25.7
Q ss_pred cCCHHHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCC
Q psy1207 9 TGDAQEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPR 52 (113)
Q Consensus 9 ~gd~~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~ 52 (113)
..|.+|+..+......-..+..+.++.+++.+|++++.+..++.
T Consensus 186 ~~n~~E~~~l~~~~~~~~~~~~~~~~~l~~~~g~~~vvvt~G~~ 229 (304)
T cd01172 186 TPNEKEAREALGDEINDDDELEAAGEKLLELLNLEALLVTLGEE 229 (304)
T ss_pred CCCHHHHHHHhCCCCCChHHHHHHHHHHHHHhCCCeEEEEcCCC
Confidence 34666777766543332233333445566677888888777664
No 196
>PRK10826 2-deoxyglucose-6-phosphatase; Provisional
Probab=22.38 E-value=1.7e+02 Score=21.56 Aligned_cols=46 Identities=24% Similarity=0.117 Sum_probs=27.5
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCC
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeD 86 (113)
+.++.+.|+..|+|+..+|.++ +...+.-+..+.-.++.|.+++.|
T Consensus 97 ~~~~l~~l~~~g~~~~i~S~~~-----------~~~~~~~l~~~~l~~~f~~~~~~~ 142 (222)
T PRK10826 97 VREALALCKAQGLKIGLASASP-----------LHMLEAVLTMFDLRDYFDALASAE 142 (222)
T ss_pred HHHHHHHHHHCCCeEEEEeCCc-----------HHHHHHHHHhCcchhcccEEEEcc
Confidence 3444455667799988877763 444555555554455566666553
No 197
>PRK03739 2-isopropylmalate synthase; Validated
Probab=22.35 E-value=2.8e+02 Score=24.77 Aligned_cols=47 Identities=19% Similarity=0.273 Sum_probs=33.8
Q ss_pred hccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHH-HHHHHHHHCCC
Q psy1207 21 RLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAE-AQCAAMVKAGK 78 (113)
Q Consensus 21 r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAE-AqcA~L~k~G~ 78 (113)
-.+.+|.+.--++.+.|..+||++|.++ -| +-.++| .-+..+.+.|+
T Consensus 45 ~gv~~s~~~Ki~ia~~L~~~GV~~IE~G-fP----------~~s~~e~e~v~~i~~~~~ 92 (552)
T PRK03739 45 LIEPMSPERKLRMFDLLVKIGFKEIEVG-FP----------SASQTDFDFVRELIEEGL 92 (552)
T ss_pred CCCCCCHHHHHHHHHHHHHcCCCEEEEE-CC----------CcChHHHHHHHHHHHhcC
Confidence 3567788888889999999999999976 34 445555 34455555554
No 198
>TIGR00674 dapA dihydrodipicolinate synthase. Dihydrodipicolinate synthase is a homotetrameric enzyme of lysine biosynthesis. E. coli has several paralogs closely related to dihydrodipicoline synthase (DapA), as well as the more distant N-acetylneuraminate lyase. In Pyrococcus horikoshii, the bidirectional best hit with E. coli is to an uncharacterized paralog of DapA, not DapA itself, and it is omitted from the seed. The putative members from the Chlamydias (pathogens with a parasitic metabolism) are easily the most divergent members of the multiple alignment.
Probab=22.30 E-value=79 Score=24.96 Aligned_cols=42 Identities=24% Similarity=0.355 Sum_probs=28.9
Q ss_pred hhhHHHHcCCHHHHHHHhhhccCCCHHHH-----HHHHHHHHhhCCc
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVRVSSVHV-----KECKELLSLMGIP 43 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~vt~~~v-----~~~~~lL~~~Gip 43 (113)
++-++..+||.++|++...+...+...+. ...|..++..|++
T Consensus 213 ~l~~a~~~gd~~~A~~lq~~l~~l~~~~~~~~~~~~~K~~l~~~G~~ 259 (285)
T TIGR00674 213 EMVNNALEGDFAEAREIHQKLMPLHKALFIETNPIPVKTALALLGLI 259 (285)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHHHhccCCcHHHHHHHHHcCCC
Confidence 34567789999999888766554432211 2278899999986
No 199
>TIGR00182 plsX fatty acid/phospholipid synthesis protein PlsX. This protein of fatty acid/phospholipid biosynthesis, called PlsX after the member in Streptococcus pneumoniae, is proposed to be a phosphate acyltransferase that partners with PlsY (TIGR00023) in a two-step 1-acylglycerol-3-phosphate biosynthesis pathway alternative to the one-step PlsB (EC 2.3.1.15) pathway.
Probab=22.26 E-value=1.7e+02 Score=24.34 Aligned_cols=31 Identities=23% Similarity=0.167 Sum_probs=23.0
Q ss_pred HHHHHHHHCCCeeEEEc-CCCceeeecCCeee
Q psy1207 68 AQCAAMVKAGKVYATAT-EDMDALTFGTNILL 98 (113)
Q Consensus 68 AqcA~L~k~G~vd~V~S-eDsD~l~fGa~~vl 98 (113)
...+.|++.|.+|+++| -.+..++-.+..++
T Consensus 73 ~~A~~lVk~G~ADa~VSgg~Tga~m~aal~ii 104 (322)
T TIGR00182 73 QLAMNLVKEGRADAVISAGNSGALMGLALLRL 104 (322)
T ss_pred HHHHHHHHCCCCCEEEeCCcHHHHHHHHHHHh
Confidence 56788999999999998 55666655554433
No 200
>PF04505 Dispanin: Interferon-induced transmembrane protein; InterPro: IPR007593 This family includes the human leukocyte antigen CD225, which is an interferon inducible transmembrane protein, and is associated with interferon induced cell growth suppression [].; GO: 0009607 response to biotic stimulus, 0016021 integral to membrane
Probab=22.25 E-value=81 Score=21.07 Aligned_cols=23 Identities=13% Similarity=0.209 Sum_probs=18.3
Q ss_pred hhhHHHHcCCHHHHHHHhhhccC
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVR 24 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~ 24 (113)
+.+.+...||.+.|+++.+++-.
T Consensus 43 kv~~~~~~Gd~~~A~~aS~~Ak~ 65 (82)
T PF04505_consen 43 KVRSRYAAGDYEGARRASRKAKK 65 (82)
T ss_pred hhHHHHHCCCHHHHHHHHHHhHH
Confidence 45678889999999999877643
No 201
>cd05805 MPG1_transferase GTP-mannose-1-phosphate guanyltransferase (MPG1 transferase), also known as GDP-mannose pyrophosphorylase, is a bifunctional enzyme with both phosphomannose isomerase (PMI) activity and GDP-mannose phosphorylase (GMP) activity. The protein contains an N-terminal NTP transferase domain, an L-beta-H domain, and a C-terminal PGM-like domain that belongs to the alpha-D-phosphohexomutase superfamily. This subfamily is limited to bacteria and archaea. The alpha-D-phosphohexomutases include several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Members of this group appear to lack conserved residues necessary for metal binding and catalytic activity. Other members of this superfamily include the phosphoglucomutases (PGM1 and PGM2), phosphoglucosamine mutase (PNGM), phosphoacetylglucosamine mutase (PAGM), the bacterial phosphomannomutase ManB, the bacterial phosphoglucosamine mutase GlmM, and the bifunctional
Probab=22.17 E-value=2e+02 Score=24.16 Aligned_cols=56 Identities=14% Similarity=-0.025 Sum_probs=35.3
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCc--chHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAP--CEAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP--~EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
..-+.++|+.+|+.++.+...|. +.+ ..-.| -|+-..+..++++.-+|+.+--|.|
T Consensus 181 ~~~~~~ll~~lG~~v~~i~~~~d--~~~-~~~~~~~~~~l~~l~~~v~~~~adlgia~DgD 238 (441)
T cd05805 181 GIVLPGLLSRLGCDVVILNARLD--EDA-PRTDTERQRSLDRLGRIVKALGADFGVIIDPN 238 (441)
T ss_pred HHHHHHHHHHcCCEEEEEecccC--Ccc-CCCCccchhHHHHHHHHHHhCCCCEEEEEcCC
Confidence 34467888999998877554433 110 01122 2555788888888778887776666
No 202
>PRK05636 replicative DNA helicase; Provisional
Probab=22.12 E-value=1.5e+02 Score=26.02 Aligned_cols=53 Identities=21% Similarity=0.308 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcch-H--HHHHHHHHHCCCeeEEEcCCCceeeec
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCE-A--EAQCAAMVKAGKVYATATEDMDALTFG 93 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~E-A--EAqcA~L~k~G~vd~V~SeDsD~l~fG 93 (113)
.+...+|.|-+.++||+|.++|=-| .... + -.+++-|-.+ +-|-+|.|+++|=
T Consensus 402 ~isr~LK~lAkel~ipVi~lsQLnR---------~~e~r~dkrP~lsDLreS----G~IEqdAD~vl~l 457 (505)
T PRK05636 402 EFSRQLKLLAKELDVPLIAISQLNR---------GPESRTDKRPQLADLRES----GSLEQDADMVMLL 457 (505)
T ss_pred HHHHHHHHHHHHhCCeEEEEeecCc---------cccccCCCCCcHHHHhhc----ccccccCCEEEEE
Confidence 4566788899999999999888555 2111 1 1566667766 4567888877764
No 203
>PF13419 HAD_2: Haloacid dehalogenase-like hydrolase; PDB: 2FI1_A 2I6X_A 3SD7_A 4F71_A 4DFD_B 4F72_B 4DCC_A 3DDH_A 3KZX_A 2B0C_A ....
Probab=21.99 E-value=1.4e+02 Score=20.02 Aligned_cols=53 Identities=17% Similarity=0.063 Sum_probs=30.1
Q ss_pred ccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCC
Q psy1207 22 LVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATED 86 (113)
Q Consensus 22 ~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeD 86 (113)
...+.+.... +.+-|+..|+|...+|.+ .+...+..+..+.-.++.|.+++.+
T Consensus 75 ~~~~~~~~~~-~L~~l~~~~~~~~i~Sn~-----------~~~~~~~~l~~~~~~~~f~~i~~~~ 127 (176)
T PF13419_consen 75 KLQPYPGVRE-LLERLKAKGIPLVIVSNG-----------SRERIERVLERLGLDDYFDEIISSD 127 (176)
T ss_dssp GEEESTTHHH-HHHHHHHTTSEEEEEESS-----------EHHHHHHHHHHTTHGGGCSEEEEGG
T ss_pred ccchhhhhhh-hhhhcccccceeEEeecC-----------Ccccccccccccccccccccccccc
Confidence 4444454444 444446779999887775 2333444555554445567776554
No 204
>PRK10551 phage resistance protein; Provisional
Probab=21.97 E-value=1.4e+02 Score=25.99 Aligned_cols=39 Identities=13% Similarity=0.092 Sum_probs=33.5
Q ss_pred CHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCe
Q psy1207 26 SSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKV 79 (113)
Q Consensus 26 t~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~v 79 (113)
+..++..+..+.+.+|+.+|- --=|-+.|..+|.+.|+-
T Consensus 452 ~~~il~~ii~la~~lgi~vVA---------------EGVEt~~q~~~L~~~Gv~ 490 (518)
T PRK10551 452 TSPVLDAVLTLAKRLNMLTVA---------------EGVETPEQARWLRERGVN 490 (518)
T ss_pred HHHHHHHHHHHHHHCCCEEEE---------------EeCCcHHHHHHHHHcCCC
Confidence 345778899999999999998 677999999999999863
No 205
>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=21.90 E-value=78 Score=22.88 Aligned_cols=23 Identities=9% Similarity=0.059 Sum_probs=18.7
Q ss_pred HHHHHHHHHHHHhhCCcEEEecC
Q psy1207 27 SVHVKECKELLSLMGIPYIEVSR 49 (113)
Q Consensus 27 ~~~v~~~~~lL~~~Gip~i~~~~ 49 (113)
+...+.++.+.+.+|||+..+.-
T Consensus 44 ~~~~~~~~~~~~~~gi~~~~~~~ 66 (189)
T TIGR02432 44 DEEAEFVQQFCKKLNIPLEIKKV 66 (189)
T ss_pred HHHHHHHHHHHHHcCCCEEEEEe
Confidence 45678899999999999887544
No 206
>PF03796 DnaB_C: DnaB-like helicase C terminal domain; InterPro: IPR007694 The hexameric helicase DnaB unwinds the DNA duplex at the Escherichia coli chromosome replication fork. Although the mechanism by which DnaB both couples ATP hydrolysis to translocation along DNA and denatures the duplex is unknown, a change in the quaternary structure of the protein involving dimerization of the N-terminal domain has been observed and may occur during the enzymatic cycle. This C-terminal domain contains an ATP-binding site and is therefore probably the site of ATP hydrolysis. ; GO: 0003678 DNA helicase activity, 0005524 ATP binding, 0006260 DNA replication; PDB: 1Q57_E 1E0K_D 1E0J_B 1CR2_A 1CR4_A 1CR1_A 1CR0_A 1MI8_A 2R6D_B 2R6C_C ....
Probab=21.86 E-value=74 Score=24.43 Aligned_cols=25 Identities=32% Similarity=0.373 Sum_probs=20.6
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCC
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPR 52 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~ 52 (113)
.+...++.+-+.+|||++.+++=.|
T Consensus 157 ~i~~~Lk~lA~~~~i~vi~~sQlnr 181 (259)
T PF03796_consen 157 EISRELKALAKELNIPVIALSQLNR 181 (259)
T ss_dssp HHHHHHHHHHHHHTSEEEEEEEBSG
T ss_pred HHHHHHHHHHHHcCCeEEEccccCh
Confidence 3466789999999999999888655
No 207
>TIGR00683 nanA N-acetylneuraminate lyase. N-acetylneuraminate lyase is also known as N-acetylneuraminic acid aldolase, sialic acid aldolase, or sialate lyase. It is an intracellular enzyme. The structure of this homotetrameric enzyme related to dihydrodipicolinate synthase is known. In Clostridium tertium, the enzyme appears to be in an operon with a secreted sialidase that releases sialic acid from host sialoglycoconjugates. In several E. coli strains, however, this enzyme is responsible for N-acetyl-D-neuraminic acid synthesis for capsule production by condensing N-acetyl-D-mannosamine and pyruvate.
Probab=21.84 E-value=1.5e+02 Score=23.63 Aligned_cols=42 Identities=21% Similarity=0.161 Sum_probs=29.9
Q ss_pred hhhHHHHcCCHHHHHHHhhhccCCCHHH-----HHHHHHHHHhhCCc
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVRVSSVH-----VKECKELLSLMGIP 43 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~vt~~~-----v~~~~~lL~~~Gip 43 (113)
++-++..+||.++|++...+...+.... ...+|.+++..|++
T Consensus 216 ~i~~~~~~gd~~~A~~lq~~~~~~~~~~~~~~~~~~~K~~l~~~G~~ 262 (290)
T TIGR00683 216 QIFELTKAGKLQEALEIQHVTNDLIEGILANGLYLTIKELLKLEGVD 262 (290)
T ss_pred HHHHHHHCCCHHHHHHHHHHHHHHHHHHhhcCCCHHHHHHHHHcCCC
Confidence 3557788999999988776655443322 23489999999986
No 208
>cd08610 GDPD_GDE6 Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE6 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE6 (also known as glycerophosphodiester phosphodiesterase domain-containing protein 4 (GDPD4)) and their metazoan homologs. Mammalian GDE6 is a transmembrane protein predominantly expressed in the spermatocytes of testis. Although the specific physiological function of mammalian GDE6 has not been elucidated, its different pattern of tissue distribution suggests it might play a critical role in the completion of meiosis during male germ cell differentiation.
Probab=21.73 E-value=1.1e+02 Score=25.26 Aligned_cols=22 Identities=14% Similarity=0.144 Sum_probs=16.7
Q ss_pred HHHHHHHHCCCeeEEEcCCCcee
Q psy1207 68 AQCAAMVKAGKVYATATEDMDAL 90 (113)
Q Consensus 68 AqcA~L~k~G~vd~V~SeDsD~l 90 (113)
++...|.+.| ||+++|+.-|.+
T Consensus 257 ~~~~~l~~~G-VDgIiTD~P~~l 278 (316)
T cd08610 257 WLFSLAWCSG-IHSVTTNNIHLL 278 (316)
T ss_pred HHHHHHHhCC-cCEEEeCCHHHH
Confidence 4455677777 999999988865
No 209
>PRK01906 tetraacyldisaccharide 4'-kinase; Provisional
Probab=21.68 E-value=1.9e+02 Score=24.28 Aligned_cols=40 Identities=15% Similarity=0.033 Sum_probs=27.6
Q ss_pred HHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCC
Q psy1207 33 CKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDM 87 (113)
Q Consensus 33 ~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDs 87 (113)
-..+-+..|+|+++ +|-=.+|-.+.+.+.--+|.++.+|+
T Consensus 119 pllla~~~~~~V~V---------------~~dR~~aa~~l~~~~~~~dviIlDDG 158 (338)
T PRK01906 119 PLLIARRTDAPVWV---------------CPDRVAAAQALLAAHPGVDVIVSDDG 158 (338)
T ss_pred HHHhhhcCCCeEEE---------------eCcHHHHHHHHHHhCCCCCEEEECCC
Confidence 33344445899999 77777765555555434899999987
No 210
>PF06888 Put_Phosphatase: Putative Phosphatase; InterPro: IPR016965 This group represents phosphatases related to PHOSPHO1 and PHOSPHO2 []. It includes plant phosphatases with homology to the haloacid dehalogenase (HAD) superfamily [, ]. PHOSPHO1 is a phosphoethanolamine/phosphocholine phosphatase [], while PHOSPHO2 has high activity toward pyridoxal 5'-phosphate (PLP), and it is active at much lower level toward pyrophosphate, phosphoethanolamine (PEA)and phosphocholine (PCho) []. ; GO: 0016791 phosphatase activity
Probab=21.63 E-value=2.2e+02 Score=22.64 Aligned_cols=44 Identities=16% Similarity=0.034 Sum_probs=30.3
Q ss_pred HcCCHHHHHHHhhhccCCCHHHHHHHHHHHH-hhCCcEEEecCCC
Q psy1207 8 LTGDAQEIDKFNRRLVRVSSVHVKECKELLS-LMGIPYIEVSRSP 51 (113)
Q Consensus 8 ~~gd~~~a~~~~~r~~~vt~~~v~~~~~lL~-~~Gip~i~~~~~~ 51 (113)
+.|-..+.-.-.-+.+++++.|.+-++.+-+ ..|++++.+|+|-
T Consensus 55 ~~gvt~~~I~~~l~~ip~~pgm~~~l~~l~~~~~~~~~~IiSDaN 99 (234)
T PF06888_consen 55 EQGVTPEDIRDALRSIPIDPGMKELLRFLAKNQRGFDLIIISDAN 99 (234)
T ss_pred HcCCCHHHHHHHHHcCCCCccHHHHHHHHHhcCCCceEEEEeCCc
Confidence 3443333334445788888988876666654 7799999999973
No 211
>PRK06904 replicative DNA helicase; Validated
Probab=21.60 E-value=1.4e+02 Score=25.86 Aligned_cols=55 Identities=15% Similarity=0.199 Sum_probs=36.7
Q ss_pred HHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcch---HHHHHHHHHHCCCeeEEEcCCCceeeecC
Q psy1207 27 SVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCE---AEAQCAAMVKAGKVYATATEDMDALTFGT 94 (113)
Q Consensus 27 ~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~E---AEAqcA~L~k~G~vd~V~SeDsD~l~fGa 94 (113)
..+...+|.+-+.++||+|.+++=-| .+.. -...++-|--+ +-|.+|.|+++|=-
T Consensus 360 ~~isr~LK~lAkel~ipVi~lsQLnR---------~~e~r~~krP~lsDLreS----G~IEqdAD~v~~l~ 417 (472)
T PRK06904 360 AEISRSLKALAKELKVPVVALSQLNR---------TLENRGDKRPVNSDLRES----GSIEQDADLIMFIY 417 (472)
T ss_pred HHHHHHHHHHHHHhCCeEEEEEecCc---------hhhccCCCCCchHHHhhc----CccccCCcEEEEEe
Confidence 34556788889999999999887554 2211 12356667666 45678888776643
No 212
>PRK08760 replicative DNA helicase; Provisional
Probab=21.55 E-value=1.4e+02 Score=25.85 Aligned_cols=52 Identities=19% Similarity=0.266 Sum_probs=35.2
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcch---HHHHHHHHHHCCCeeEEEcCCCceeee
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCE---AEAQCAAMVKAGKVYATATEDMDALTF 92 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~E---AEAqcA~L~k~G~vd~V~SeDsD~l~f 92 (113)
.+...+|.+-+.++||+|.++|=.| .... -...++-|--+ +-|-+|.|+++|
T Consensus 366 ~Isr~LK~lAkel~ipVi~lsQLnR---------~~e~r~~krP~lsDLreS----g~IeqdAD~vl~ 420 (476)
T PRK08760 366 EISRSLKGLAKELNVPVIALSQLNR---------SLETRTDKRPVMADLRES----GAIEQDADMIVF 420 (476)
T ss_pred HHHHHHHHHHHHhCCEEEEeeccCc---------cccccCCCCCCHHHHhhc----cchhcCCCEEEE
Confidence 4567788889999999999888655 2211 12456666666 456677777765
No 213
>PF09413 DUF2007: Domain of unknown function (DUF2007); InterPro: IPR018551 This is a family of proteins with unknown function. ; PDB: 2HFV_A.
Probab=21.55 E-value=1.3e+02 Score=18.46 Aligned_cols=20 Identities=30% Similarity=0.368 Sum_probs=13.1
Q ss_pred HHHHHHHHHHHHhhCCcEEE
Q psy1207 27 SVHVKECKELLSLMGIPYIE 46 (113)
Q Consensus 27 ~~~v~~~~~lL~~~Gip~i~ 46 (113)
+-..+-++.+|+.-|||++.
T Consensus 9 ~~ea~~i~~~L~~~gI~~~v 28 (67)
T PF09413_consen 9 PIEAELIKGLLEENGIPAFV 28 (67)
T ss_dssp HHHHHHHHHHHHHTT--EE-
T ss_pred HHHHHHHHHHHHhCCCcEEE
Confidence 44566788888888998888
No 214
>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=21.44 E-value=1.8e+02 Score=24.54 Aligned_cols=16 Identities=19% Similarity=0.175 Sum_probs=8.2
Q ss_pred HHHHHHHHhhCCcEEE
Q psy1207 31 KECKELLSLMGIPYIE 46 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~ 46 (113)
.+..+-|+.+|++.++
T Consensus 81 ~~L~~~L~~~g~~L~v 96 (454)
T TIGR00591 81 DEVANECERLIIPFHL 96 (454)
T ss_pred HHHHHHHHHcCCceEE
Confidence 3344445555666555
No 215
>PLN02746 hydroxymethylglutaryl-CoA lyase
Probab=21.37 E-value=3e+02 Score=23.26 Aligned_cols=28 Identities=21% Similarity=0.190 Sum_probs=23.9
Q ss_pred hccCCCHHHHHHHHHHHHhhCCcEEEec
Q psy1207 21 RLVRVSSVHVKECKELLSLMGIPYIEVS 48 (113)
Q Consensus 21 r~~~vt~~~v~~~~~lL~~~Gip~i~~~ 48 (113)
-.+.+|.+.-.++.+.|..+||++|.++
T Consensus 61 ~g~~~s~e~Ki~ia~~L~~~GV~~IEvG 88 (347)
T PLN02746 61 EKNIVPTSVKVELIQRLVSSGLPVVEAT 88 (347)
T ss_pred CCCCCCHHHHHHHHHHHHHcCCCEEEEC
Confidence 3466788888889999999999999977
No 216
>PRK08978 acetolactate synthase 2 catalytic subunit; Reviewed
Probab=21.29 E-value=3e+02 Score=23.66 Aligned_cols=53 Identities=21% Similarity=0.255 Sum_probs=32.6
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCC----CCCCccCCCCcchHHHHHHHHHHCCCeeEEE
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPR----LLPNFLGVLAPCEAEAQCAAMVKAGKVYATA 83 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~----~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~ 83 (113)
...+++.++.+.+|+|++.+..+-- -||.++|........+.-..|.+ +|.|+
T Consensus 211 ~a~~~l~~lae~l~~Pv~tt~~gkg~~~~~hp~~~G~~g~~~~~~~~~~l~~---aD~vl 267 (548)
T PRK08978 211 GAVPALREFLAATGMPAVATLKGLGAVEADHPYYLGMLGMHGTKAANLAVQE---CDLLI 267 (548)
T ss_pred chHHHHHHHHHHHCCCEEEccccCCCCCCCCccccCCCCCCCCHHHHHHHHh---CCEEE
Confidence 4567889999999999998654432 45667775543333333333433 56664
No 217
>PRK00010 rplE 50S ribosomal protein L5; Validated
Probab=21.28 E-value=38 Score=26.10 Aligned_cols=22 Identities=23% Similarity=0.540 Sum_probs=17.1
Q ss_pred cCCCHHHHHHHHHHHHhhCCcE
Q psy1207 23 VRVSSVHVKECKELLSLMGIPY 44 (113)
Q Consensus 23 ~~vt~~~v~~~~~lL~~~Gip~ 44 (113)
+..|....++++.||+.+|+|+
T Consensus 156 ivtta~t~~ea~~LLs~~g~Pf 177 (179)
T PRK00010 156 IVTTAKTDEEARALLKAFGFPF 177 (179)
T ss_pred EEeccCCHHHHHHHHHHcCCCC
Confidence 3346667788899999999986
No 218
>COG1412 Uncharacterized proteins of PilT N-term./Vapc superfamily [General function prediction only]
Probab=21.08 E-value=3.5e+02 Score=20.03 Aligned_cols=22 Identities=36% Similarity=0.456 Sum_probs=19.2
Q ss_pred HHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 66 AEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 66 AEAqcA~L~k~G~vd~V~SeDsD 88 (113)
.|+-..+..+.| .+.|+|+|-.
T Consensus 87 De~i~~~a~~~~-~~iVaTnD~e 108 (136)
T COG1412 87 DECLLEAALKHG-RYIVATNDKE 108 (136)
T ss_pred HHHHHHHHHHcC-CEEEEeCCHH
Confidence 778889999999 7899999965
No 219
>cd00758 MoCF_BD MoCF_BD: molybdenum cofactor (MoCF) binding domain (BD). This domain is found a variety of proteins involved in biosynthesis of molybdopterin cofactor, like MoaB, MogA, and MoeA. The domain is presumed to bind molybdopterin.
Probab=21.05 E-value=2.6e+02 Score=19.48 Aligned_cols=42 Identities=19% Similarity=0.164 Sum_probs=23.1
Q ss_pred HHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHH---HHHHHHHHCCCeeEEEcCC
Q psy1207 31 KECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAE---AQCAAMVKAGKVYATATED 86 (113)
Q Consensus 31 ~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAE---AqcA~L~k~G~vd~V~SeD 86 (113)
.-++.+|+..|..+....- .|-+.+ .++..+.+. +|.|+|.-
T Consensus 22 ~~l~~~l~~~G~~v~~~~~------------v~Dd~~~i~~~i~~~~~~--~DlvittG 66 (133)
T cd00758 22 PALEALLEDLGCEVIYAGV------------VPDDADSIRAALIEASRE--ADLVLTTG 66 (133)
T ss_pred HHHHHHHHHCCCEEEEeee------------cCCCHHHHHHHHHHHHhc--CCEEEECC
Confidence 3456668888877655222 344433 334333333 78887763
No 220
>PRK08006 replicative DNA helicase; Provisional
Probab=21.00 E-value=1.3e+02 Score=26.08 Aligned_cols=53 Identities=17% Similarity=0.259 Sum_probs=36.4
Q ss_pred HHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchH----HHHHHHHHHCCCeeEEEcCCCceeeec
Q psy1207 27 SVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEA----EAQCAAMVKAGKVYATATEDMDALTFG 93 (113)
Q Consensus 27 ~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EA----EAqcA~L~k~G~vd~V~SeDsD~l~fG 93 (113)
..+...+|.+-+.+|||+|.++|=-| .. |. -..++-|--+ +-|..|.|+++|=
T Consensus 362 ~~isr~LK~lAkel~ipVi~LsQLnR---------~~-e~r~dkrP~lsDLreS----G~IEqdAD~v~~l 418 (471)
T PRK08006 362 AEISRSLKALAKELQVPVVALSQLNR---------SL-EQRADKRPVNSDLRES----GSIEQDADLIMFI 418 (471)
T ss_pred HHHHHHHHHHHHHhCCeEEEEEecCc---------cc-cccCCCCCchhhhhhc----CcccccCCEEEEE
Confidence 34566788999999999999887554 22 21 1456666665 4567888877763
No 221
>smart00685 DM14 Repeats in fly CG4713, worm Y37H9A.3 and human FLJ20241.
Probab=21.00 E-value=97 Score=20.05 Aligned_cols=18 Identities=17% Similarity=0.115 Sum_probs=15.0
Q ss_pred hHHHHcCCHHHHHHHhhh
Q psy1207 4 TLFLLTGDAQEIDKFNRR 21 (113)
Q Consensus 4 ~~~~~~gd~~~a~~~~~r 21 (113)
.+|...||.++|+.|.|-
T Consensus 16 ~~AK~~gd~~kAr~~~R~ 33 (59)
T smart00685 16 LQAKRAGDEEKARRHLRI 33 (59)
T ss_pred HHHHHcCCHHHHHHHHHH
Confidence 467889999999999764
No 222
>cd03045 GST_N_Delta_Epsilon GST_N family, Class Delta and Epsilon subfamily; GSTs are cytosolic dimeric proteins involved in cellular detoxification by catalyzing the conjugation of glutathione (GSH) with a wide range of endogenous and xenobiotic alkylating agents, including carcinogens, therapeutic drugs, environmental toxins and products of oxidative stress. GSTs also show GSH peroxidase activity and are involved in the synthesis of prostaglandins and leukotrienes. The GST fold contains an N-terminal TRX-fold domain and a C-terminal alpha helical domain, with an active site located in a cleft between the two domains. The class Delta and Epsilon subfamily is made up primarily of insect GSTs, which play major roles in insecticide resistance by facilitating reductive dehydrochlorination of insecticides or conjugating them with GSH to produce water-soluble metabolites that are easily excreted. They are also implicated in protection against cellular damage by oxidative stress.
Probab=20.96 E-value=1.1e+02 Score=18.31 Aligned_cols=60 Identities=5% Similarity=-0.033 Sum_probs=35.2
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCceeeecCCeeeec
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMDALTFGTNILLRQ 100 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD~l~fGa~~vlr~ 100 (113)
...++.+|+..|++|-.+.-.+. .+....+....++-.|.|.+...+ |..++.+.-+++.
T Consensus 12 ~~~v~~~l~~~gi~~e~~~i~~~---------~~~~~~~~~~~~~p~~~vP~l~~~--~~~l~es~aI~~y 71 (74)
T cd03045 12 CRAVLLTAKALGLELNLKEVNLM---------KGEHLKPEFLKLNPQHTVPTLVDN--GFVLWESHAILIY 71 (74)
T ss_pred HHHHHHHHHHcCCCCEEEEecCc---------cCCcCCHHHHhhCcCCCCCEEEEC--CEEEEcHHHHHHH
Confidence 34677889999999744211110 122223555567778888888543 5667776655443
No 223
>PRK00507 deoxyribose-phosphate aldolase; Provisional
Probab=20.91 E-value=3e+02 Score=21.54 Aligned_cols=64 Identities=17% Similarity=0.119 Sum_probs=42.2
Q ss_pred HHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHH-HHHHHHHHCC--CeeEEE
Q psy1207 13 QEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAE-AQCAAMVKAG--KVYATA 83 (113)
Q Consensus 13 ~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAE-AqcA~L~k~G--~vd~V~ 83 (113)
++|.+|.-+++-+.|.++..++++|+.-++.+..|-.-| ....+.+.- ++.....+.| .+|.|+
T Consensus 29 ~~A~~~~~~avcv~p~~v~~a~~~l~~~~v~v~tVigFP-------~G~~~~~~K~~e~~~Ai~~GA~EiD~Vi 95 (221)
T PRK00507 29 DEAKEYGFASVCVNPSYVKLAAELLKGSDVKVCTVIGFP-------LGANTTAVKAFEAKDAIANGADEIDMVI 95 (221)
T ss_pred HHHHHhCCeEEEECHHHHHHHHHHhCCCCCeEEEEeccc-------CCCChHHHHHHHHHHHHHcCCceEeeec
Confidence 578888888999999999999999987777776644322 233455544 2333333444 366554
No 224
>PTZ00386 formyl tetrahydrofolate synthetase; Provisional
Probab=20.81 E-value=1.8e+02 Score=27.05 Aligned_cols=40 Identities=15% Similarity=0.243 Sum_probs=22.3
Q ss_pred HHhhCCcEEEecCCCCCCCCccCCCCcchHH--HHHHHHH-HCCCeeEEEcC
Q psy1207 37 LSLMGIPYIEVSRSPRLLPNFLGVLAPCEAE--AQCAAMV-KAGKVYATATE 85 (113)
Q Consensus 37 L~~~Gip~i~~~~~~~~~~~~~~~~AP~EAE--AqcA~L~-k~G~vd~V~Se 85 (113)
++.+|+|++++-.. +-...++| +-..+.. ..|.+++++|+
T Consensus 433 ~~~fgvpvVVAIN~---------F~tDT~~Ei~~i~~~~~~~~ga~~~~~s~ 475 (625)
T PTZ00386 433 IRKFGVPVVVALNK---------FSTDTDAELELVKELALQEGGAADVVVTD 475 (625)
T ss_pred HHHcCCCeEEEecC---------CCCCCHHHHHHHHHHHHHhcCCccEEEec
Confidence 45699999993332 11223333 2223334 56777888764
No 225
>PRK14683 hypothetical protein; Provisional
Probab=20.72 E-value=66 Score=23.36 Aligned_cols=18 Identities=22% Similarity=0.322 Sum_probs=14.0
Q ss_pred HHCCCeeEEEcCCCceeee
Q psy1207 74 VKAGKVYATATEDMDALTF 92 (113)
Q Consensus 74 ~k~G~vd~V~SeDsD~l~f 92 (113)
++.|-+|.|+.+ +|.|+|
T Consensus 41 ~~~GEIDIIa~~-~~~lVF 58 (122)
T PRK14683 41 CPLGEIDIIAHK-NKQLVF 58 (122)
T ss_pred CCCCcEEEEEEe-CCEEEE
Confidence 457889999985 577877
No 226
>cd03089 PMM_PGM The phosphomannomutase/phosphoglucomutase (PMM/PGM) bifunctional enzyme catalyzes the reversible conversion of 1-phospho to 6-phospho-sugars (e.g. between mannose-1-phosphate and mannose-6-phosphate or glucose-1-phosphate and glucose-6-phosphate) via a bisphosphorylated sugar intermediate. The reaction involves two phosphoryl transfers, with an intervening 180 degree reorientation of the reaction intermediate during catalysis. Reorientation of the intermediate occurs without dissociation from the active site of the enzyme and is thus, a simple example of processivity, as defined by multiple rounds of catalysis without release of substrate. Glucose-6-phosphate and glucose-1-phosphate are known to be utilized for energy metabolism and cell surface construction, respectively. PMM/PGM belongs to the alpha-D-phosphohexomutase superfamily which includes several related enzymes that catalyze a reversible intramolecular phosphoryl transfer on their sugar substrates. Other membe
Probab=20.71 E-value=3.3e+02 Score=22.90 Aligned_cols=57 Identities=23% Similarity=0.157 Sum_probs=35.7
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccC-CCCcc--hHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLG-VLAPC--EAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~-~~AP~--EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
..-..++|+.+|+.++.....|. ++|-+ .-.|. |+=.++..+++..-+|..+.-|.|
T Consensus 176 ~~~~~~ll~~lG~~v~~i~~~~d--~~F~~~~p~p~~~~~l~~l~~~v~~~~adlgia~D~D 235 (443)
T cd03089 176 GPIAPQLLEALGCEVIPLFCEPD--GTFPNHHPDPTDPENLEDLIAAVKENGADLGIAFDGD 235 (443)
T ss_pred HHHHHHHHHHCCCEEEEecCCCC--CCCCCCCcCCCCHHHHHHHHHHHHHcCCCEEEEecCC
Confidence 44467889999998877655543 33322 12343 334667777777777877766665
No 227
>TIGR03457 sulphoacet_xsc sulfoacetaldehyde acetyltransferase. Members of this protein family are sulfoacetaldehyde acetyltransferase, an enzyme of taurine utilization. Taurine, or 2-aminoethanesulfonate, can be used by bacteria as a source of carbon, nitrogen, and sulfur.
Probab=20.67 E-value=3.5e+02 Score=23.56 Aligned_cols=55 Identities=20% Similarity=0.261 Sum_probs=33.8
Q ss_pred HHHHHHHHHHHHhhCCcEEEecCCCC----CCCCccCCCCcchHHHHHHHHHHCCCeeEEEc
Q psy1207 27 SVHVKECKELLSLMGIPYIEVSRSPR----LLPNFLGVLAPCEAEAQCAAMVKAGKVYATAT 84 (113)
Q Consensus 27 ~~~v~~~~~lL~~~Gip~i~~~~~~~----~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~S 84 (113)
.....++.++.+.+|+|++.+..+-- -||.++|.....-..+-..+|.. +|.|+.
T Consensus 210 ~~a~~~l~~lae~~~~PV~tt~~gkg~~p~~hp~~~G~~g~~g~~~~~~~l~~---aDlil~ 268 (579)
T TIGR03457 210 GDAVEECKALAERLGAPVVNSYLHNDSFPASHPLWVGPLGYQGSKAAMKLISD---ADVVLA 268 (579)
T ss_pred cChHHHHHHHHHHhCCCEEEcccccccCCCCCchhccCCcCcchHHHHHHHHh---CCEEEE
Confidence 34567899999999999998543322 46667776544333333334443 455544
No 228
>PRK09552 mtnX 2-hydroxy-3-keto-5-methylthiopentenyl-1-phosphate phosphatase; Reviewed
Probab=20.65 E-value=1.9e+02 Score=21.47 Aligned_cols=39 Identities=18% Similarity=0.178 Sum_probs=26.7
Q ss_pred HHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEEecCCCC
Q psy1207 13 QEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIEVSRSPR 52 (113)
Q Consensus 13 ~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~ 52 (113)
++...+++..+.+.+.+.+-+. .|+..|+|+..+|.+++
T Consensus 63 ~~~~~~~~~~~~l~pG~~e~l~-~l~~~g~~~~IvS~~~~ 101 (219)
T PRK09552 63 EEIIQFLLETAEIREGFHEFVQ-FVKENNIPFYVVSGGMD 101 (219)
T ss_pred HHHHHHHHhCCCcCcCHHHHHH-HHHHcCCeEEEECCCcH
Confidence 5566666666666665544444 46789999999999754
No 229
>PF02606 LpxK: Tetraacyldisaccharide-1-P 4'-kinase; InterPro: IPR003758 Tetraacyldisaccharide 4'-kinase phosphorylates the 4'-position of a tetraacyldisaccharide 1-phosphate precursor (DS-1-P) of lipid A, but the enzyme has not yet been purified because of instability []. This enzyme is involved in the synthesis of lipid A portion of the bacterial lipopolysaccharide layer (LPS).; GO: 0005524 ATP binding, 0009029 tetraacyldisaccharide 4'-kinase activity, 0009245 lipid A biosynthetic process
Probab=20.65 E-value=2.2e+02 Score=23.50 Aligned_cols=40 Identities=23% Similarity=0.137 Sum_probs=30.6
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCC
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDM 87 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDs 87 (113)
+-..+-+..++|+++ ++-=.+|--+.+.+.+ +|.|+.+|+
T Consensus 98 Ep~lla~~~~~~V~V---------------~~dR~~~~~~~~~~~~-~dviilDDG 137 (326)
T PF02606_consen 98 EPLLLARKLPVPVIV---------------GPDRVAAARAALKEFP-ADVIILDDG 137 (326)
T ss_pred HHHHHHHhcCCcEEE---------------eCcHHHHHHHHHHHCC-CCEEEEcCC
Confidence 344555566788888 7877888777777777 999999986
No 230
>cd08602 GDPD_ScGlpQ1_like Glycerophosphodiester phosphodiesterase domain of Streptomycin coelicolor (GlpQ1) and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in a group of putative bacterial and eukaryotic glycerophosphodiester phosphodiesterases (GP-GDE, EC 3.1.4.46) similar to Escherichia coli periplasmic phosphodiesterase GlpQ, as well as plant glycerophosphodiester phosphodiesterases (GP-PDEs), all of which catalyzes the Ca2+-dependent degradation of periplasmic glycerophosphodiesters to produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. The prototypes of this family include putative secreted phosphodiesterase encoded by gene glpQ1 (SCO1565) from the pho regulon in Streptomyces coelicolor genome, and in plants, two distinct Arabidopsis thaliana genes, AT5G08030 and AT1G74210, coding putative GP-PDEs from the cell walls and vacuoles, respectively.
Probab=20.60 E-value=1.3e+02 Score=24.52 Aligned_cols=17 Identities=35% Similarity=0.413 Sum_probs=12.9
Q ss_pred HHHHHHHHCCCeeEEEcC
Q psy1207 68 AQCAAMVKAGKVYATATE 85 (113)
Q Consensus 68 AqcA~L~k~G~vd~V~Se 85 (113)
++..+|.+.| ||+|+|+
T Consensus 291 ~~~~~l~~~G-VdgiiTD 307 (309)
T cd08602 291 AEYRAFLDAG-VDGLFTD 307 (309)
T ss_pred HHHHHHHHhC-CCEEeCC
Confidence 5666777766 8999987
No 231
>PHA03202 uracil DNA glycosylase; Provisional
Probab=20.53 E-value=96 Score=26.26 Aligned_cols=43 Identities=14% Similarity=0.013 Sum_probs=34.4
Q ss_pred hccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCc
Q psy1207 21 RLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAP 63 (113)
Q Consensus 21 r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP 63 (113)
..+...++.+..+-++...-.|.||.++|-|||-++++..+|.
T Consensus 127 ~~I~P~~e~IF~af~~tp~~~VKVVIlGQDPYh~~gqA~GLAF 169 (313)
T PHA03202 127 EEVFPPKEDIFAWTRFSPPEKVRVVIVGQDPYHAPGQAHGLAF 169 (313)
T ss_pred CcccCCHHHHHHHhhcCCHHHeEEEEEeCCCCCCCCccceEEE
Confidence 3467788888888888778889999999999988777765443
No 232
>cd07945 DRE_TIM_CMS Leptospira interrogans citramalate synthase (CMS) and related proteins, N-terminal catalytic TIM barrel domain. Citramalate synthase (CMS) catalyzes the conversion of pyruvate and acetyl-CoA to (R)-citramalate in the first dedicated step of the citramalate pathway. Citramalate is only found in Leptospira interrogans and a few other microorganisms. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarboxylase 5S, pyruvate carboxylase, AksA, and FrbC. These members all share a conserved triose-phosphate isomerase (TIM) barrel domain consisting of a core beta(8)-alpha(8) motif with the eight parallel beta strands forming an enclosed barrel surrounded by eight alpha helices. The domain has a catalytic center con
Probab=20.53 E-value=2.1e+02 Score=23.01 Aligned_cols=27 Identities=26% Similarity=0.218 Sum_probs=19.0
Q ss_pred ccCCCHHHHHHHHH-HHHhhCCcEEEec
Q psy1207 22 LVRVSSVHVKECKE-LLSLMGIPYIEVS 48 (113)
Q Consensus 22 ~~~vt~~~v~~~~~-lL~~~Gip~i~~~ 48 (113)
...+|.+.-.++.+ |++.+||+.|.++
T Consensus 13 ~~~~s~e~K~~i~~~L~~~~Gv~~IEvg 40 (280)
T cd07945 13 GVSFSPSEKLNIAKILLQELKVDRIEVA 40 (280)
T ss_pred CCccCHHHHHHHHHHHHHHhCCCEEEec
Confidence 45566665555555 5699999999966
No 233
>COG0692 Ung Uracil DNA glycosylase [DNA replication, recombination, and repair]
Probab=20.53 E-value=1.3e+02 Score=24.47 Aligned_cols=42 Identities=10% Similarity=0.086 Sum_probs=34.4
Q ss_pred hccCCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCC
Q psy1207 21 RLVRVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLA 62 (113)
Q Consensus 21 r~~~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~A 62 (113)
+.+....+.+-++-.+-..-.|.+|..+|-|||=|+++...|
T Consensus 35 ~~i~P~~~~iF~af~~tp~~~vKVVIlGQDPYh~p~qAhGLs 76 (223)
T COG0692 35 KTIYPPKEDIFNAFRLTPFDDVKVVILGQDPYHGPGQAHGLS 76 (223)
T ss_pred CeeCCCHHHHhHHHhcCChhheEEEEEecCCCCCCCccceee
Confidence 456777788888888878888999999999999998877544
No 234
>PRK14316 glmM phosphoglucosamine mutase; Provisional
Probab=20.52 E-value=2.7e+02 Score=23.41 Aligned_cols=56 Identities=13% Similarity=0.047 Sum_probs=33.5
Q ss_pred HHHHHHHHHhhCCcEEEecCCCCCCCCccCC-CCcchHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 30 VKECKELLSLMGIPYIEVSRSPRLLPNFLGV-LAPCEAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 30 v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~-~AP~EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
..-+.++|+.+|+.++.+...|. +++..- +.| |--.++..+++..-+|.-+.-|+|
T Consensus 186 ~~~~~~ll~~lg~~v~~in~~~d--g~~~~~~~~~-~~~~~l~~~v~~~~adlGia~DgD 242 (448)
T PRK14316 186 SSLAPRLFADLGADVTVIGTSPD--GLNINDGVGS-THPEALQELVVEKGADLGLAFDGD 242 (448)
T ss_pred hHHHHHHHHHcCCeEEEEccCCC--CCCCCCCCCC-CCHHHHHHHHhhcCCCEEEEEcCC
Confidence 44477889999998887655433 112111 111 222357778887778877766665
No 235
>cd07939 DRE_TIM_NifV Streptomyces rubellomurinus FrbC and related proteins, catalytic TIM barrel domain. FrbC (NifV) of Streptomyces rubellomurinus catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate and CoA, a reaction similar to one catalyzed by homocitrate synthase. The gene encoding FrbC is one of several genes required for the biosynthesis of FR900098, a potent antimalarial antibiotic. This protein is also required for assembly of the nitrogenase MoFe complex but its exact role is unknown. This family also includes the NifV proteins of Heliobacterium chlorum and Gluconacetobacter diazotrophicus, which appear to be orthologous to FrbC. This family belongs to the DRE-TIM metallolyase superfamily. DRE-TIM metallolyases include 2-isopropylmalate synthase (IPMS), alpha-isopropylmalate synthase (LeuA), 3-hydroxy-3-methylglutaryl-CoA lyase, homocitrate synthase, citramalate synthase, 4-hydroxy-2-oxovalerate aldolase, re-citrate synthase, transcarbox
Probab=20.51 E-value=3.6e+02 Score=20.94 Aligned_cols=27 Identities=26% Similarity=0.145 Sum_probs=24.0
Q ss_pred ccCCCHHHHHHHHHHHHhhCCcEEEec
Q psy1207 22 LVRVSSVHVKECKELLSLMGIPYIEVS 48 (113)
Q Consensus 22 ~~~vt~~~v~~~~~lL~~~Gip~i~~~ 48 (113)
...+|.+....+.+.|..+||+.|.++
T Consensus 14 ~~~~~~~~k~~i~~~L~~~Gv~~iE~g 40 (259)
T cd07939 14 GVAFSREEKLAIARALDEAGVDEIEVG 40 (259)
T ss_pred CCCCCHHHHHHHHHHHHHcCCCEEEEe
Confidence 457899999999999999999999965
No 236
>cd07909 YciF YciF bacterial stress response protein, ferritin-like iron-binding domain. YciF is a bacterial protein of unknown function that is up-regulated when bacteria experience stress conditions, and is highly conserved in a broad range of bacterial species. YciF has a ferritin-like domain. Ferritin-like, diiron-carboxylate proteins participate in a range of functions including iron regulation, mono-oxygenation, and reactive radical production. These proteins are characterized by the fact that they catalyze dioxygen-dependent oxidation-hydroxylation reactions within diiron centers; one exception is manganese catalase, which catalyzes peroxide-dependent oxidation-reduction within a dimanganese center. Diiron-carboxylate proteins are further characterized by the presence of duplicate metal ligands, glutamates and histidines (ExxH) and two additional glutamates within a four-helix bundle. Outside of these conserved residues there is little obvious homology. Members include bacterio
Probab=20.39 E-value=1e+02 Score=22.86 Aligned_cols=42 Identities=7% Similarity=0.080 Sum_probs=34.8
Q ss_pred HHHHcCCHHHHHHHhhhccCCCHHHHHHHHHHHHhhCCcEEE
Q psy1207 5 LFLLTGDAQEIDKFNRRLVRVSSVHVKECKELLSLMGIPYIE 46 (113)
Q Consensus 5 ~~~~~gd~~~a~~~~~r~~~vt~~~v~~~~~lL~~~Gip~i~ 46 (113)
+..+.-+..+.+..+.+-+.-|..+++.+..+++.+|.+.-.
T Consensus 24 ~m~~~a~~peLk~~l~~H~~eT~~qi~rLe~if~~lg~~~~~ 65 (147)
T cd07909 24 KMAKAATSEELKEAFESHLEETEGQVERLEQIFESLGEKPEG 65 (147)
T ss_pred HHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHHHHHcCCCCcc
Confidence 344566677888888889999999999999999999998554
No 237
>TIGR00252 conserved hypothetical protein TIGR00252. the scores for Mycobacterium tuberculosis and Treponema pallidum are low considering the alignment
Probab=20.35 E-value=72 Score=22.88 Aligned_cols=18 Identities=17% Similarity=0.292 Sum_probs=13.8
Q ss_pred HHCCCeeEEEcCCCceeee
Q psy1207 74 VKAGKVYATATEDMDALTF 92 (113)
Q Consensus 74 ~k~G~vd~V~SeDsD~l~f 92 (113)
++.|-+|.|+. |+|.|+|
T Consensus 34 ~~~GEIDiIa~-~~~~lvF 51 (119)
T TIGR00252 34 SPWGEIDLIMH-DTKTIAF 51 (119)
T ss_pred CCCCcEEEEEe-eCCEEEE
Confidence 45788999987 4678877
No 238
>TIGR01545 YfhB_g-proteo haloacid dehalogenase superfamily, subfamily IF hydrolase, YfhB. The gene name comes from the E. coli gene. There is currently no information regarding the function of this gene.
Probab=20.32 E-value=3.7e+02 Score=20.34 Aligned_cols=29 Identities=10% Similarity=0.126 Sum_probs=20.3
Q ss_pred CCCHHHHHHHHHHHHhhCCcEEEecCCCC
Q psy1207 24 RVSSVHVKECKELLSLMGIPYIEVSRSPR 52 (113)
Q Consensus 24 ~vt~~~v~~~~~lL~~~Gip~i~~~~~~~ 52 (113)
.+-|...+.+++-++..|.+++.||.+|.
T Consensus 94 ~l~pga~e~L~~~l~~~G~~v~IvSas~~ 122 (210)
T TIGR01545 94 TAFPLVAERLRQYLESSDADIWLITGSPQ 122 (210)
T ss_pred CCCccHHHHHHHHHHhCCCEEEEEcCCcH
Confidence 34455555565667778999999998653
No 239
>TIGR01449 PGP_bact 2-phosphoglycolate phosphatase, prokaryotic. This enzyme is a member of the Haloacid Dehalogenase (HAD) superfamily of aspartate-nucleophile hydrolase enzymes (pfam00702).
Probab=20.32 E-value=2e+02 Score=20.66 Aligned_cols=20 Identities=20% Similarity=0.180 Sum_probs=13.0
Q ss_pred HHHHHHHhhCCcEEEecCCC
Q psy1207 32 ECKELLSLMGIPYIEVSRSP 51 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~ 51 (113)
+.-+.|+..|+++..+|.++
T Consensus 92 ~~L~~l~~~g~~~~i~S~~~ 111 (213)
T TIGR01449 92 ATLGALRAKGLRLGLVTNKP 111 (213)
T ss_pred HHHHHHHHCCCeEEEEeCCC
Confidence 34444556788888877753
No 240
>cd04922 ACT_AKi-HSDH-ThrA_2 ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). This CD includes the second of two ACT domains of the bifunctional enzyme aspartokinase (AK) - homoserine dehydrogenase (HSDH). The ACT domains are positioned between the N-terminal catalytic domain of AK and the C-terminal HSDH domain found in bacteria (Escherichia coli (EC) ThrA) and higher plants (Zea mays AK-HSDH). AK and HSDH are the first and third enzymes in the biosynthetic pathway of the aspartate family of amino acids. AK catalyzes the phosphorylation of Asp to P-aspartyl phosphate. HSDH catalyzes the NADPH-dependent conversion of Asp 3-semialdehyde to homoserine. HSDH is the first committed reaction in the branch of the pathway that leads to Thr and Met. In E. coli, ThrA is subject to allosteric regulation by the end product L-threonine and the native enzyme is reported to be tetrameric. As with bacteria, plant AK and HSDH are feedback inhibited by pathwa
Probab=20.30 E-value=2e+02 Score=16.76 Aligned_cols=48 Identities=10% Similarity=0.039 Sum_probs=30.1
Q ss_pred CHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHH
Q psy1207 26 SSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMV 74 (113)
Q Consensus 26 t~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~ 74 (113)
++....++-+.|...||++..+++++. -.++..++...+.+..+..|.
T Consensus 14 ~~~~~~~i~~~l~~~~I~v~~i~~~~s-~~~is~~v~~~~~~~~~~~lh 61 (66)
T cd04922 14 TPGVAATFFSALAKANVNIRAIAQGSS-ERNISAVIDEDDATKALRAVH 61 (66)
T ss_pred CccHHHHHHHHHHHCCCCEEEEEecCc-ccEEEEEEeHHHHHHHHHHHH
Confidence 456677788888999999977766542 234444555555554444443
No 241
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=20.22 E-value=1.2e+02 Score=18.48 Aligned_cols=15 Identities=13% Similarity=0.186 Sum_probs=11.4
Q ss_pred HHHHHHHHHCCCeeE
Q psy1207 67 EAQCAAMVKAGKVYA 81 (113)
Q Consensus 67 EAqcA~L~k~G~vd~ 81 (113)
-+||.+|.++|+-..
T Consensus 18 ~~Q~~~L~~~Gi~~~ 32 (47)
T PF13986_consen 18 SKQIRWLRRNGIPFV 32 (47)
T ss_pred HHHHHHHHHCCCeeE
Confidence 478888888887643
No 242
>TIGR00147 lipid kinase, YegS/Rv2252/BmrU family. The E. coli member of this family, YegS has been purified and shown to have phosphatidylglycerol kinase activity. The member from M. tuberculosis, Rv2252, has diacylglycerol kinase activity. BmrU from B. subtilis is in an operon with multidrug efflux transporter Bmr, but is uncharacterized.
Probab=20.21 E-value=3.3e+02 Score=21.20 Aligned_cols=50 Identities=18% Similarity=0.062 Sum_probs=29.6
Q ss_pred HHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 27 SVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 27 ~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
.....++++.|+..|+.+...... .+++++.++......+ .|.|+.--+|
T Consensus 18 ~~~~~~i~~~l~~~~~~~~~~~t~-----------~~~~~~~~~~~~~~~~-~d~ivv~GGD 67 (293)
T TIGR00147 18 NKPLREVIMLLREEGMEIHVRVTW-----------EKGDAARYVEEARKFG-VDTVIAGGGD 67 (293)
T ss_pred HHHHHHHHHHHHHCCCEEEEEEec-----------CcccHHHHHHHHHhcC-CCEEEEECCC
Confidence 455677888899999987652221 4556665554444444 4555544444
No 243
>PRK06749 replicative DNA helicase; Provisional
Probab=20.16 E-value=1.6e+02 Score=25.14 Aligned_cols=52 Identities=13% Similarity=0.175 Sum_probs=36.0
Q ss_pred HHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchH----HHHHHHHHHCCCeeEEEcCCCceeeec
Q psy1207 28 VHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEA----EAQCAAMVKAGKVYATATEDMDALTFG 93 (113)
Q Consensus 28 ~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EA----EAqcA~L~k~G~vd~V~SeDsD~l~fG 93 (113)
.+...+|.+-+.++||+|.++|=.| .. |. ...++-|--+ +-|.+|.|+++|=
T Consensus 327 ~isr~LK~lAkel~vpVi~lsQLnR---------~~-e~r~~krP~lsDLR~S----G~IEqdAD~vl~l 382 (428)
T PRK06749 327 EISRKLKLLARELNVCVVALSQLSR---------SV-ESRQDKRPLLSDLRET----GQIEQDADVIMLM 382 (428)
T ss_pred HHHHHHHHHHHHhCCeEEEEEecCc---------cc-cccCCCCCchHhhhhc----ccccccCCEEEEE
Confidence 3667788999999999999887555 21 21 2345666655 5567888887763
No 244
>COG4943 Predicted signal transduction protein containing sensor and EAL domains [Signal transduction mechanisms]
Probab=20.10 E-value=1.6e+02 Score=26.79 Aligned_cols=55 Identities=25% Similarity=0.271 Sum_probs=42.7
Q ss_pred CHHHHHHHhhhccCC---CHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCee
Q psy1207 11 DAQEIDKFNRRLVRV---SSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVY 80 (113)
Q Consensus 11 d~~~a~~~~~r~~~v---t~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd 80 (113)
|.-+++|-|.+++.- |..+...+.++-|.+|+..|. =--|-|+|.-||-+.|.-.
T Consensus 438 DaLKIDKsFvdtlg~~~a~~~I~~hII~MAk~L~L~iVa---------------EGVEteeQ~~~LR~~Gv~~ 495 (524)
T COG4943 438 DALKIDKSFVDTLGTDSASHLIAPHIIEMAKSLGLKIVA---------------EGVETEEQVDWLRKRGVHY 495 (524)
T ss_pred cceeccHHHHHhhccCcccchhHHHHHHHHHHcCCcEEe---------------ecccHHHHHHHHHHcCCcc
Confidence 334566666666544 456778899999999999998 5679999999999999654
No 245
>TIGR02667 moaB_proteo molybdenum cofactor biosynthesis protein B, proteobacterial. This model represents the MoaB protein molybdopterin biosynthesis regions in Proteobacteria. This crystallized but incompletely characterized protein is thought to be involved in, though not required for, early steps in molybdopterin biosynthesis. It may bind a molybdopterin precursor. A distinctive conserved motif PCN near the C-terminus helps distinguish this clade from other homologs, including sets of proteins designated MogA.
Probab=20.10 E-value=2.7e+02 Score=20.47 Aligned_cols=44 Identities=11% Similarity=-0.090 Sum_probs=28.8
Q ss_pred HHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHH---CCCeeEEEcCCC
Q psy1207 32 ECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVK---AGKVYATATEDM 87 (113)
Q Consensus 32 ~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k---~G~vd~V~SeDs 87 (113)
-+..+|+.+|+.+....- .|-+.|+-...|.+ ..-+|.|+|.-+
T Consensus 26 ~l~~~L~~~G~~v~~~~i------------v~Dd~~~i~~~l~~~~~~~~~DlVIttGG 72 (163)
T TIGR02667 26 YLVERLTEAGHRLADRAI------------VKDDIYQIRAQVSAWIADPDVQVILITGG 72 (163)
T ss_pred HHHHHHHHCCCeEEEEEE------------cCCCHHHHHHHHHHHHhcCCCCEEEECCC
Confidence 356678999998776333 57777765555554 245888887643
No 246
>PF13414 TPR_11: TPR repeat; PDB: 2HO1_B 2FI7_B 2DBA_A 3Q4A_B 2C2L_D 3Q47_B 3Q49_B 2PL2_B 3IEG_B 2FBN_A ....
Probab=20.08 E-value=36 Score=20.23 Aligned_cols=28 Identities=11% Similarity=0.355 Sum_probs=22.4
Q ss_pred hHHHHcCCHHHHHHHhhhccCCCHHHHH
Q psy1207 4 TLFLLTGDAQEIDKFNRRLVRVSSVHVK 31 (113)
Q Consensus 4 ~~~~~~gd~~~a~~~~~r~~~vt~~~v~ 31 (113)
..+...||.++|..++.+++.+.|....
T Consensus 11 ~~~~~~~~~~~A~~~~~~ai~~~p~~~~ 38 (69)
T PF13414_consen 11 QIYFQQGDYEEAIEYFEKAIELDPNNAE 38 (69)
T ss_dssp HHHHHTTHHHHHHHHHHHHHHHSTTHHH
T ss_pred HHHHHcCCHHHHHHHHHHHHHcCCCCHH
Confidence 3567789999999999999988766543
No 247
>cd08573 GDPD_GDE1 Glycerophosphodiester phosphodiesterase domain of mammalian glycerophosphodiester phosphodiesterase GDE1 and similar proteins. This subfamily corresponds to the glycerophosphodiester phosphodiesterase domain (GDPD) present in mammalian GDE1 (also known as MIR16, membrane interacting protein of RGS16) and their metazoan homologs. GDE1 is widely expressed in mammalian tissues, including the heart, brain, liver, and kidney. It shows sequence homology to bacterial glycerophosphodiester phosphodiesterases (GP-GDEs, EC 3.1.4.46), which catalyzes the hydrolysis of various glycerophosphodiesters, and produce sn-glycerol-3-phosphate (G3P) and the corresponding alcohols. GDE1 has been characterized as GPI-GDE (EC 3.1.4.44) that selectively hydrolyzes extracellular glycerophosphoinositol (GPI) to generate glycerol phosphate and inositol. It functions as an integral membrane-bound glycoprotein interacting with regulator of G protein signaling protein RGS16, and is modulated by G
Probab=20.06 E-value=1.7e+02 Score=22.95 Aligned_cols=37 Identities=16% Similarity=0.083 Sum_probs=21.7
Q ss_pred HHHHHHhhCCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHH-CCCeeEEEcCC
Q psy1207 33 CKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVK-AGKVYATATED 86 (113)
Q Consensus 33 ~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k-~G~vd~V~SeD 86 (113)
..+.++..|++++. =--.-+++..+|.+ .| || +||++
T Consensus 220 ~v~~~~~~G~~v~v---------------WTVn~~~~~~~l~~~~G-Vd-iiTD~ 257 (258)
T cd08573 220 YVRYWRARGIRVIA---------------WTVNTPTEKQYFAKTLN-VP-YITDS 257 (258)
T ss_pred HHHHHHHCCCEEEE---------------EecCCHHHHHHHHHHhC-CC-eecCC
Confidence 33445566888655 12222455667777 78 58 88764
No 248
>smart00518 AP2Ec AP endonuclease family 2. These endonucleases play a role in DNA repair. Cleave phosphodiester bonds at apurinic or apyrimidinic sites
Probab=20.05 E-value=3.3e+02 Score=20.70 Aligned_cols=37 Identities=22% Similarity=0.266 Sum_probs=26.1
Q ss_pred CCCHHHHHHHHHHHHhhCCcEEEecCCCCCCCCccCCCCcchH
Q psy1207 24 RVSSVHVKECKELLSLMGIPYIEVSRSPRLLPNFLGVLAPCEA 66 (113)
Q Consensus 24 ~vt~~~v~~~~~lL~~~Gip~i~~~~~~~~~~~~~~~~AP~EA 66 (113)
+.++..+.+++++++..|+++..- +|+ ..++.+|.+.
T Consensus 41 ~~~~~~~~~l~~~~~~~gl~ls~h--~p~----~~nl~s~d~~ 77 (273)
T smart00518 41 RLSEETAEKFKEALKENNIDVSVH--APY----LINLASPDKE 77 (273)
T ss_pred CCCHHHHHHHHHHHHHcCCCEEEE--CCc----eecCCCCCHH
Confidence 578888999999999999986552 232 2455677554
No 249
>cd00952 CHBPH_aldolase Trans-o-hydroxybenzylidenepyruvate hydratase-aldolase (HBPHA) and trans-2'-carboxybenzalpyruvate hydratase-aldolase (CBPHA). HBPHA catalyzes HBP to salicyaldehyde and pyruvate. This reaction is part of the degradative pathways for naphthalene and naphthalenesulfonates by bacteria. CBPHA is homologous to HBPHA and catalyzes the cleavage of CBP to 2-carboxylbenzaldehyde and pyruvate during the degradation of phenanthrene. They are member of the DHDPS family of Schiff-base-dependent class I aldolases.
Probab=20.01 E-value=1.2e+02 Score=24.58 Aligned_cols=41 Identities=17% Similarity=0.146 Sum_probs=29.1
Q ss_pred hhhHHHHcCCHHHHHHHhhhccCCCHHH-------------HHHHHHHHHhhCC
Q psy1207 2 ELTLFLLTGDAQEIDKFNRRLVRVSSVH-------------VKECKELLSLMGI 42 (113)
Q Consensus 2 ~~~~~~~~gd~~~a~~~~~r~~~vt~~~-------------v~~~~~lL~~~Gi 42 (113)
++-++..+||.++|+...++...+...+ +.-.|.+++..|+
T Consensus 225 ~l~~a~~~Gd~~~A~~lq~~~~~~~~~~~~~~~~~~~~~~~~~~~K~al~~~G~ 278 (309)
T cd00952 225 ALRDAVATGDWTDARALTDRMRWAAEPLFPRGDFSEFSKYNIALEKARFDAAGY 278 (309)
T ss_pred HHHHHHHcCCHHHHHHHHHHHHHHHHHHhccCccccccccchHHHHHHHHhcCC
Confidence 4567889999999998877665443322 2235888999996
No 250
>PRK02261 methylaspartate mutase subunit S; Provisional
Probab=20.01 E-value=3.4e+02 Score=19.47 Aligned_cols=52 Identities=10% Similarity=-0.031 Sum_probs=30.6
Q ss_pred HHHHHHHHHHHHhh---CCcEEEecCCCCCCCCccCCCCcchHHHHHHHHHHCCCeeEEEcCCCc
Q psy1207 27 SVHVKECKELLSLM---GIPYIEVSRSPRLLPNFLGVLAPCEAEAQCAAMVKAGKVYATATEDMD 88 (113)
Q Consensus 27 ~~~v~~~~~lL~~~---Gip~i~~~~~~~~~~~~~~~~AP~EAEAqcA~L~k~G~vd~V~SeDsD 88 (113)
.....++.+.|+.. +++++.-+.-+. .+...+---..|-+.| +|.|.+-+++
T Consensus 68 ~~~~~~~~~~L~~~~~~~~~i~vGG~~~~---------~~~~~~~~~~~l~~~G-~~~vf~~~~~ 122 (137)
T PRK02261 68 EIDCRGLREKCIEAGLGDILLYVGGNLVV---------GKHDFEEVEKKFKEMG-FDRVFPPGTD 122 (137)
T ss_pred HHHHHHHHHHHHhcCCCCCeEEEECCCCC---------CccChHHHHHHHHHcC-CCEEECcCCC
Confidence 34566677777766 555555222111 3333444456788889 7988886654
Done!