Query 022156
Match_columns 302
No_of_seqs 198 out of 1441
Neff 6.2
Searched_HMMs 46136
Date Fri Mar 29 08:27:52 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022156.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022156hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02856 fumarylacetoacetase 100.0 1.4E-71 3.1E-76 541.2 31.7 302 1-302 121-424 (424)
2 TIGR01266 fum_ac_acetase fumar 100.0 4.1E-70 8.8E-75 530.2 29.7 301 1-301 114-415 (415)
3 COG0179 MhpD 2-keto-4-pentenoa 100.0 4.1E-55 8.9E-60 405.4 21.6 203 8-300 61-265 (266)
4 KOG2843 Fumarylacetoacetase [C 100.0 1.2E-54 2.7E-59 396.9 17.2 301 1-301 115-417 (420)
5 TIGR02303 HpaG-C-term 4-hydrox 100.0 2.9E-49 6.2E-54 363.5 21.6 204 3-299 38-244 (245)
6 KOG1535 Predicted fumarylaceto 100.0 1.9E-46 4.2E-51 328.8 16.5 195 7-259 12-210 (217)
7 PRK15203 4-hydroxyphenylacetat 100.0 3.1E-45 6.7E-50 360.4 21.2 197 10-299 6-205 (429)
8 PRK10691 hypothetical protein; 100.0 1.2E-44 2.5E-49 327.9 21.1 198 8-297 17-218 (219)
9 PRK15203 4-hydroxyphenylacetat 100.0 1E-42 2.2E-47 342.6 21.5 200 8-300 223-425 (429)
10 PRK12764 hypothetical protein; 100.0 3.2E-42 6.9E-47 344.6 21.1 211 2-301 16-230 (500)
11 TIGR02305 HpaG-N-term 4-hydrox 100.0 6E-41 1.3E-45 300.6 20.6 200 10-297 4-205 (205)
12 PF01557 FAA_hydrolase: Fumary 100.0 1.4E-41 3E-46 306.3 15.4 212 10-298 3-218 (218)
13 TIGR03220 catechol_dmpE 2-oxop 99.9 1.2E-24 2.7E-29 201.2 15.6 170 49-261 80-253 (255)
14 PRK11342 mhpD 2-keto-4-penteno 99.9 1.3E-23 2.8E-28 195.1 17.6 136 80-246 100-242 (262)
15 TIGR02312 HpaH 2-oxo-hepta-3-e 99.9 4.5E-21 9.7E-26 178.7 15.7 152 80-261 101-264 (267)
16 TIGR03218 catechol_dmpH 4-oxal 99.8 1.4E-17 3E-22 155.0 16.0 151 80-261 104-261 (263)
17 COG3971 2-keto-4-pentenoate hy 99.7 2.6E-17 5.7E-22 150.5 11.3 150 81-261 102-259 (264)
18 COG3970 Fumarylacetoacetate (F 99.6 1.3E-14 2.8E-19 135.1 14.4 187 33-300 167-356 (379)
19 PF11010 DUF2848: Protein of u 98.2 2.3E-05 4.9E-10 69.8 12.3 169 15-254 10-182 (194)
20 COG3802 GguC Uncharacterized p 98.1 1.9E-05 4.1E-10 72.8 10.3 178 34-300 139-323 (333)
21 PRK11342 mhpD 2-keto-4-penteno 86.1 1.1 2.3E-05 41.9 4.5 56 228-300 188-262 (262)
22 PRK10691 hypothetical protein; 84.6 1.4 3E-05 40.1 4.4 13 267-280 180-192 (219)
23 cd05790 S1_Rrp40 S1_Rrp40: Rrp 70.4 13 0.00028 29.0 5.4 30 264-293 45-86 (86)
24 TIGR03220 catechol_dmpE 2-oxop 61.8 9.2 0.0002 35.5 3.6 35 243-295 218-253 (255)
25 PRK06488 sulfur carrier protei 60.3 38 0.00082 24.4 6.0 15 264-278 45-59 (65)
26 KOG1535 Predicted fumarylaceto 47.1 20 0.00044 32.6 3.2 39 243-299 177-216 (217)
27 PRK12442 translation initiatio 44.1 37 0.0008 26.7 3.9 17 264-280 42-58 (87)
28 TIGR00008 infA translation ini 42.9 42 0.0009 25.2 3.8 17 264-280 40-56 (68)
29 smart00652 eIF1a eukaryotic tr 41.7 47 0.001 25.7 4.1 17 264-280 39-55 (83)
30 COG1096 Predicted RNA-binding 40.4 94 0.002 27.9 6.3 56 225-280 7-73 (188)
31 COG0361 InfA Translation initi 38.4 39 0.00085 25.9 3.1 17 264-280 42-58 (75)
32 PF03143 GTP_EFTU_D3: Elongati 38.3 46 0.001 26.0 3.7 45 240-296 54-98 (99)
33 KOG1004 Exosomal 3'-5' exoribo 33.8 75 0.0016 29.2 4.7 71 221-296 58-148 (230)
34 PF01176 eIF-1a: Translation i 32.7 29 0.00063 25.3 1.6 18 263-280 36-53 (65)
35 TIGR03218 catechol_dmpH 4-oxal 32.1 74 0.0016 29.6 4.6 58 221-295 184-261 (263)
36 cd05793 S1_IF1A S1_IF1A: Trans 31.6 75 0.0016 24.2 3.8 16 265-280 35-50 (77)
37 PF11604 CusF_Ec: Copper bindi 31.1 58 0.0013 24.1 3.0 21 265-285 39-59 (70)
38 PF01557 FAA_hydrolase: Fumary 31.1 35 0.00076 30.4 2.2 24 238-261 191-215 (218)
39 PF09356 Phage_BR0599: Phage c 29.1 63 0.0014 24.7 3.0 46 246-296 18-63 (80)
40 cd03701 IF2_IF5B_II IF2_IF5B_I 28.7 91 0.002 24.4 3.9 19 222-240 23-41 (95)
41 cd04454 S1_Rrp4_like S1_Rrp4_l 28.4 35 0.00076 25.4 1.5 51 225-280 3-62 (82)
42 cd04456 S1_IF1A_like S1_IF1A_l 27.8 1.1E+02 0.0024 23.3 4.2 16 265-280 35-50 (78)
43 COG2049 DUR1 Allophanate hydro 27.7 95 0.0021 28.6 4.4 56 221-279 151-210 (223)
44 KOG1379 Serine/threonine prote 27.4 39 0.00083 32.8 1.8 42 196-237 198-254 (330)
45 PF11305 DUF3107: Protein of u 27.0 50 0.0011 25.2 2.1 28 264-292 46-74 (74)
46 PRK04012 translation initiatio 26.9 99 0.0021 24.8 3.9 16 265-280 56-71 (100)
47 KOG0666 Cyclin C-dependent kin 24.7 70 0.0015 31.5 3.0 74 201-282 130-206 (438)
48 COG5449 Uncharacterized conser 24.3 33 0.00071 30.7 0.7 33 262-299 162-194 (225)
49 COG1566 EmrA Multidrug resista 23.9 1.3E+02 0.0028 29.6 4.8 49 224-280 222-270 (352)
50 TIGR02305 HpaG-N-term 4-hydrox 23.8 64 0.0014 28.7 2.5 16 245-260 187-202 (205)
51 cd03696 selB_II selB_II: this 23.6 85 0.0019 23.4 2.8 22 258-279 46-67 (83)
52 TIGR02312 HpaH 2-oxo-hepta-3-e 23.3 1.1E+02 0.0025 28.5 4.2 53 228-297 195-266 (267)
53 TIGR03177 pilus_cpaB Flp pilus 23.2 1.2E+02 0.0026 28.0 4.3 69 206-282 68-144 (261)
54 PHA02872 EFc gene family prote 23.2 1.6E+02 0.0034 24.3 4.4 35 244-278 57-101 (124)
55 PF01472 PUA: PUA domain; Int 22.9 1E+02 0.0022 22.8 3.0 23 269-294 31-53 (74)
56 TIGR02303 HpaG-C-term 4-hydrox 22.5 69 0.0015 29.6 2.5 16 245-260 224-239 (245)
57 PLN00208 translation initiatio 22.2 1.1E+02 0.0024 26.3 3.5 16 265-280 67-82 (145)
58 cd03694 GTPBP_II Domain II of 22.1 82 0.0018 24.0 2.5 20 260-279 52-71 (87)
59 COG1917 Uncharacterized conser 22.1 1.8E+02 0.0038 23.5 4.6 32 246-278 64-95 (131)
60 cd05694 S1_Rrp5_repeat_hs2_sc2 22.1 68 0.0015 23.8 2.0 60 226-288 2-64 (74)
61 TIGR00370 conserved hypothetic 22.0 1.2E+02 0.0026 27.3 3.9 50 225-277 148-201 (202)
62 PRK05933 type III secretion sy 21.1 7.8E+02 0.017 24.3 9.3 63 81-148 208-278 (372)
63 cd03702 IF2_mtIF2_II This fami 21.1 1.5E+02 0.0032 23.4 3.8 18 222-239 23-40 (95)
64 cd03698 eRF3_II_like eRF3_II_l 21.1 1E+02 0.0022 23.1 2.8 21 259-279 47-67 (83)
65 cd04487 RecJ_OBF2_like RecJ_OB 20.2 1.9E+02 0.0042 21.4 4.1 18 265-282 40-57 (73)
66 TIGR02381 cspD cold shock doma 20.1 1.4E+02 0.0031 21.8 3.3 21 266-286 39-59 (68)
No 1
>PLN02856 fumarylacetoacetase
Probab=100.00 E-value=1.4e-71 Score=541.16 Aligned_cols=302 Identities=77% Similarity=1.336 Sum_probs=279.2
Q ss_pred CCCCcccCCeeeecchHHHHHHhccccCCCCCCCCCccccccceeccCCceeeeCCCeeecCCCCCCC-CCCCCCCCCCC
Q 022156 1 MLLPMEIGDYTDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAP-SGNSPPPFGPS 79 (302)
Q Consensus 1 ~~~p~~~~~~~~~~ny~~H~~~~g~~~~~~~~~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~-~~~~~~~~~~~ 79 (302)
|++|+++++|+||+||.+|+.|+|+.|++..++.+|.|++.|++|+|++||++++|++|.+|.++..+ .+...|.+.++
T Consensus 121 l~~P~~~~~~~df~~~~~Ha~n~g~~fr~~~~~l~p~~~~~Pv~y~gr~sSvv~sg~~I~rP~gq~~~~~~~~~p~f~~s 200 (424)
T PLN02856 121 MLLPAVIGDYTDFFSSREHATNVGTMFRGPENALNPNWLHLPIGYHGRASSVVPSGTDIRRPRGQLHPNDGSSRPYFGPS 200 (424)
T ss_pred EcCCCccceEEEEecHHHHHHHhhhhccCCccCCCcccccCCCEEcCCCceEEcCCCceeCCCCCccCCCCCCCCcccCc
Confidence 78999999999999999999999998877666778999999999999999999999999999875432 22334667779
Q ss_pred CCceeceEEEEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcCCCCcccccCCCCCCCceecccccCccc
Q 022156 80 QKLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTTLSPWIVTLDALEPFA 159 (302)
Q Consensus 80 ~~ld~E~ELavvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~~lGP~ivt~d~l~~~~ 159 (302)
+.+|||+||++||||++++|++++++||.+||+||+++||||+||+|.|++.+++|+++|+|++++||||+|.+++++++
T Consensus 201 ~~lDyE~ELavVIGk~~~~g~~I~~~~A~d~IfGytl~ND~SARDiQ~wE~~plgpf~gKsF~t~igPwIVt~dal~p~r 280 (424)
T PLN02856 201 AKLDFELEMAAFVGPGNELGKPIPVNEAKDHIFGLVLMNDWSARDIQKWEYVPLGPFLGKSFATTISPWIVTLDALEPFR 280 (424)
T ss_pred CceEEEEEEEEEECcCccccCCCCHHHHHhhheEEEEeeechhhhhhhhhcccCCcccccCCCCCCcCeEEccccccccc
Confidence 99999999999999987778999999999999999999999999999999988999999999999999999999999999
Q ss_pred CCCCCCCCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHHHcCcccCCCCEEecCCCCC
Q 022156 160 CDSPKQDPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISG 239 (302)
Q Consensus 160 ~~~~~~~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~G 239 (302)
...|++++++++||.+++..+++|.|+|+++.++..||+++|++++++|+|+++++|+|++|++|+|+|||||+||||+|
T Consensus 281 ~~~~~~dp~~l~yl~~~~~~~~~i~l~v~v~~nG~~ng~~~q~~nt~~M~ws~~qlIah~~s~g~tL~pGDLi~TGTpsG 360 (424)
T PLN02856 281 CDAPAQDPPPLPYLAEKNRKSYDISLEVAIKPAGQSKASVVCRSNFKHLYWTLAQQLAHHTVNGCNLRPGDLLGSGTISG 360 (424)
T ss_pred ccccccCcccccccccccccceeEEEEEEEeeCCcccceeEEcCCHHHcCCCHHHHHHHHHhCCeecCCCCEEEeCCCCC
Confidence 98899999999999999888999999998775566688999999999999999999998669999999999999999999
Q ss_pred CccCCCCcEEEEEecCccceee-CCCCCCCCCCCCEEEEEEEecCCCceeeeeeeeeEEeeCCC
Q 022156 240 PEPESLGCLLELTWNGQKPLSL-DGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIVPSTP 302 (302)
Q Consensus 240 v~~~~~Gd~le~~~~g~g~l~~-~~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~~vv~~~~ 302 (302)
+++.+.||.+|++++|..++++ ++..++||++||+|+++++|..||.+||||+|+.+|.+|.+
T Consensus 361 ~~~~~~G~llElt~~G~~p~~l~~g~~r~fL~dGD~V~l~g~~~~~g~~igfG~~~g~v~pa~~ 424 (424)
T PLN02856 361 PEPGSLGCLLELTWAGSREVSLEGGTRRKFLEDGDEVVLSGWCKGDGYRVGFGTCSGKVLPALP 424 (424)
T ss_pred CccCCCCCEEEEEeCCccceEeccCCccccCCCCCEEEEEEEECCCCccEeeeeeeeEEecCCC
Confidence 9999999999999999999999 46679999999999999999999999999999999999864
No 2
>TIGR01266 fum_ac_acetase fumarylacetoacetase. This enzyme catalyzes the final step in the breakdown of tyrosine or phenylalanine to fumarate and acetoacetate.
Probab=100.00 E-value=4.1e-70 Score=530.24 Aligned_cols=301 Identities=63% Similarity=1.182 Sum_probs=272.3
Q ss_pred CCCCcccCCeeeecchHHHHHHhccccCCCCCCCCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCC
Q 022156 1 MLLPMEIGDYTDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQ 80 (302)
Q Consensus 1 ~~~p~~~~~~~~~~ny~~H~~~~g~~~~~~~~~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~ 80 (302)
|+||++++||+||++|.+|+.++|+.|+++.++.+|.|++.|++|+|+++|++++|++|.+|.++..+.+...|.+.+++
T Consensus 114 l~lP~~i~dytDf~~~~~Ha~n~g~~fr~~~~~l~p~~~~~Pv~y~g~~sSvv~sg~~I~rP~gq~~~~~~~~p~f~ps~ 193 (415)
T TIGR01266 114 MHLPAQIGDYTDFYSSIQHATNVGIMFRGKENALLPNWKHLPVGYHGRASSIVVSGTPLRRPMGQTLPDNAKPPVFGPCK 193 (415)
T ss_pred ecCCccchhhhhhhchHHHHHHHHhhccCCCCCCCcccccCCcEeccCCceEEcCCCceeCCCccccCCcccCCcccccC
Confidence 79999999999999999999999998887778889999999999999999999999999999887544444557788899
Q ss_pred CceeceEEEEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcCCCCcccccCCCCCCCceecccccCcccC
Q 022156 81 KLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTTLSPWIVTLDALEPFAC 160 (302)
Q Consensus 81 ~ld~E~ELavvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~~lGP~ivt~d~l~~~~~ 160 (302)
.+|||+||++||||..++|+++++++|.+||+||+++||||+||+|.|++.+++|+++|+|++++||||||.|++.+++.
T Consensus 194 ~lD~E~ELavvIGk~~~~g~~vs~e~A~~~IfGy~l~ND~SARDiQ~wE~~plgpf~~KsF~tsigPwIVT~daL~p~r~ 273 (415)
T TIGR01266 194 LLDMELEMAFFVGPGNRLGEPIPISKAEEHIFGVVLMNDWSARDIQAWEYVPLGPFLAKSFGTTISPWVVPIDALEPFRV 273 (415)
T ss_pred ceEEEEEEEEEECcCcccCCcCCHHHHHhhheEEEEeeEcchhhhhhhhccccCccccccCCCCCcCeEecccccccccc
Confidence 99999999999999877789999999999999999999999999999999889999999999999999999999999888
Q ss_pred CCCCCCCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHHHcCcccCCCCEEecCCCCCC
Q 022156 161 DSPKQDPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGP 240 (302)
Q Consensus 161 ~~~~~~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~Gv 240 (302)
..+++++++++||.+.+...++|.|+|++|....-+.+++|++++++|+|+++|+|+|+++++|+|+|||||+||||+|+
T Consensus 274 ~~~~~dp~pl~yL~~~~~~~~~l~l~v~vnge~~~~~~~~q~~~~~~M~ws~~qlIah~S~~g~tL~pGDLi~TGTpsG~ 353 (415)
T TIGR01266 274 PNPKQDPKPLPYLCHDAPYTFDINLEVSLKGEGMSEPATICRSNFKHMYWTMLQQLAHHSVNGCNLRPGDLLGSGTISGS 353 (415)
T ss_pred ccccccccccccccccCCCcceeEEEEEEecCcCcccceEEcCCHHhcCcCHHHHHHHHhcCCcccCCCCEEEeCCCCCC
Confidence 87888889999999888776777777654311111123899999999999999999998448999999999999999999
Q ss_pred ccCCCCcEEEEEecCccceee-CCCCCCCCCCCCEEEEEEEecCCCceeeeeeeeeEEeeCC
Q 022156 241 EPESLGCLLELTWNGQKPLSL-DGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIVPST 301 (302)
Q Consensus 241 ~~~~~Gd~le~~~~g~g~l~~-~~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~~vv~~~ 301 (302)
++.+.||.+|++++|...+.+ ++..+.||++||+|+++++|..||++||||+|+++|++|.
T Consensus 354 ~~~~~G~~lE~t~~g~~~v~l~~g~~r~fL~dGD~V~~~~~~~~~g~~igfGe~~g~i~pa~ 415 (415)
T TIGR01266 354 EPGSFGSMLELSWKGKKPIDVGQGETRTFLEDGDEVILRGHCQGEGYRVGFGECAGKVLPAL 415 (415)
T ss_pred cccCCCcEEEEEeCCeeeeecCCCCCCCCCCCCCEEEEEEEECCCCCcEeeeeeeeEEecCC
Confidence 999999999999999999988 4777899999999999999999999999999999999874
No 3
>COG0179 MhpD 2-keto-4-pentenoate hydratase/2-oxohepta-3-ene-1,7-dioic acid hydratase (catechol pathway) [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=100.00 E-value=4.1e-55 Score=405.42 Aligned_cols=203 Identities=31% Similarity=0.372 Sum_probs=181.1
Q ss_pred CCeeeecchHHHHHHhccccCCCCCCCCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCCCceeceE
Q 022156 8 GDYTDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFELE 87 (302)
Q Consensus 8 ~~~~~~~ny~~H~~~~g~~~~~~~~~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~~ld~E~E 87 (302)
.-|+++.||.+|++||+... +.|.+ |++|.|+++++++++++|.+|.. +.++|||+|
T Consensus 61 ki~cvG~NY~~Ha~E~~~~~---~~p~~------P~~F~K~~~a~~~~~~~i~~P~~--------------s~~~dyE~E 117 (266)
T COG0179 61 KIVCVGRNYADHAEEMGKDR---DIPEE------PVFFLKPPTAVIGPNDPIPLPPG--------------SKGLDYEGE 117 (266)
T ss_pred cEEEEechHHHHHHHhccCC---CCCCC------CeeeccCcccccCCCCceECCCC--------------CCCcceeEE
Confidence 56888999999999999751 23445 55666669999999999999987 788999999
Q ss_pred EEEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcCCCCcccccCCCC--CCCceecccccCcccCCCCCC
Q 022156 88 MAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTT--LSPWIVTLDALEPFACDSPKQ 165 (302)
Q Consensus 88 Lavvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~~--lGP~ivt~d~l~~~~~~~~~~ 165 (302)
|||||||+ ++++++++|++||+|||++||+|+||+|.+++ ..+|+++|+||++ +|||+++.+++.
T Consensus 118 LavvIGk~---~~~v~~e~A~d~I~GYti~nD~T~Rd~Q~~~~-~~~w~~aK~~d~~~Pigp~iv~~~e~~--------- 184 (266)
T COG0179 118 LAVVIGKR---GKDVSVEDALDYIAGYTIGNDVTARDLQMEEK-GRPWTRAKGFDTFAPVGPWIVTKDEIS--------- 184 (266)
T ss_pred EEEEECCc---CCCCCHHHHHhhheEEeeeeecchhcchhhhh-cCCcccccccCCCCCceeEEeccccCC---------
Confidence 99999999 89999999999999999999999999997633 3589999999984 999999988764
Q ss_pred CCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHHHcCcccCCCCEEecCCCCCCccCCC
Q 022156 166 DPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEPESL 245 (302)
Q Consensus 166 ~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~Gv~~~~~ 245 (302)
+++++.|+++| |||++|+++|++|+|+++++|+|+ |++++|+|||||+||||+|++
T Consensus 185 -----------d~~~l~l~~~v--------NGe~~Q~g~t~~Mi~~i~~lI~~l-S~~~tL~pGDvI~TGTP~Gvg---- 240 (266)
T COG0179 185 -----------DPQNLPLSLRV--------NGEVRQRGNTSDMIFSIPELIAYL-SRFMTLEPGDVILTGTPSGVG---- 240 (266)
T ss_pred -----------CCccceEEEEE--------CCEEEecCcHHHcccCHHHHHHHH-hCCcccCCCCEEEeCCCCCcc----
Confidence 35668899887 999999999999999999999998 999999999999999999974
Q ss_pred CcEEEEEecCccceeeCCCCCCCCCCCCEEEEEEEecCCCceeeeeeeeeEEeeC
Q 022156 246 GCLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIVPS 300 (302)
Q Consensus 246 Gd~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~~vv~~ 300 (302)
||++||+|+++++ |||+|+|+|+++
T Consensus 241 ----------------------~l~~GD~v~~~ie--------giG~l~n~v~~~ 265 (266)
T COG0179 241 ----------------------FLKPGDVVEVEIE--------GIGELENTVVKE 265 (266)
T ss_pred ----------------------cCCCCCEEEEEec--------ceeEEEEEEeeC
Confidence 7899999999988 999999999976
No 4
>KOG2843 consensus Fumarylacetoacetase [Carbohydrate transport and metabolism]
Probab=100.00 E-value=1.2e-54 Score=396.91 Aligned_cols=301 Identities=62% Similarity=1.145 Sum_probs=281.5
Q ss_pred CCCCcccCCeeeecchHHHHHHhccccCCCCCCCCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCC
Q 022156 1 MLLPMEIGDYTDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQ 80 (302)
Q Consensus 1 ~~~p~~~~~~~~~~ny~~H~~~~g~~~~~~~~~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~ 80 (302)
|+||.+||||+||+.+.+|+-++|..|++.++..-|.|.+-|+.|++++||++.+|.+|++|-++-.+.+.-.|.+..++
T Consensus 115 mHLPAqIGDYTDFYSSihHATNVGIMFRgkeNALMPNW~hLPVGYHGRASSvVVSGTpirRP~GQtkpddae~PvfGacK 194 (420)
T KOG2843|consen 115 MHLPAQIGDYTDFYSSIHHATNVGIMFRGKENALMPNWRHLPVGYHGRASSVVVSGTPIRRPLGQTKPDDAEKPVFGACK 194 (420)
T ss_pred eccchhhcchhhhhhhhhhccceeEEEeccccccCCccccccccccCceeeEEEcCCcccCcccCCCCCCCCCCcccchh
Confidence 89999999999999999999999999999998889999999999999999999999999999887544444447889999
Q ss_pred CceeceEEEEEec-CCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcCCCCcccccCCCCCCCceecccccCccc
Q 022156 81 KLDFELEMAAVVG-PGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTTLSPWIVTLDALEPFA 159 (302)
Q Consensus 81 ~ld~E~ELavvig-k~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~~lGP~ivt~d~l~~~~ 159 (302)
.+|+|.|+|+.+| +....|..+..++|+++|+|+++.||||+||+|.|++.+++++.||||.|.++||+|..+++.+|-
T Consensus 195 LlDfELEMAFFvGgpgN~LGepipi~kA~~~iFG~vLMNDWSARDIQkWEYVPLGPFlaKsfgTTvSPWVVp~~AL~Pf~ 274 (420)
T KOG2843|consen 195 LLDFELEMAFFVGGPGNQLGEPIPIDKAWKNIFGFVLMNDWSARDIQKWEYVPLGPFLAKSFGTTVSPWVVPTAALKPFV 274 (420)
T ss_pred hccceeeeeeEecCCccccCCccchhhhhhheeeEEEecccchhhcccceeecccchhhhhcccccccceeeHhhcCccc
Confidence 9999999999998 445568899999999999999999999999999999999999999999999999999999999999
Q ss_pred CCCCCCCCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHHHcCcccCCCCEEecCCCCC
Q 022156 160 CDSPKQDPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISG 239 (302)
Q Consensus 160 ~~~~~~~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~G 239 (302)
..-|+++|.+++||-+.++-+++|.|+|.+++.+.--...++.++...|+|++.+.++|+.-.+|.|+|||++.+||.+|
T Consensus 275 v~Np~QdP~plpYL~hd~PftfDINL~Vslkpeg~~~~a~icKsNFKhlYWT~lQQlaHHtVnGCNLRpGDLlaSGTiSG 354 (420)
T KOG2843|consen 275 VDNPPQDPEPLPYLRHDIPFTFDINLEVSLKPEGQNEDALICKSNFKHLYWTPLQQLAHHTVNGCNLRPGDLLASGTISG 354 (420)
T ss_pred cCCCCCCCCCCcccccCCCceeeeeeEEEeccCCccccceeecccchhhhhhHHHHhhhcccccccCCccceeccccccC
Confidence 99999999999999999999999999998887776455788999999999999999999878999999999999999999
Q ss_pred CccCCCCcEEEEEecCccceeeC-CCCCCCCCCCCEEEEEEEecCCCceeeeeeeeeEEeeCC
Q 022156 240 PEPESLGCLLELTWNGQKPLSLD-GFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIVPST 301 (302)
Q Consensus 240 v~~~~~Gd~le~~~~g~g~l~~~-~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~~vv~~~ 301 (302)
..+-.-|..+|.+|.|.++++++ ++.++||++||+|.+++.|+.||+++|||+|+.+|.+|-
T Consensus 355 pep~~yGSmLELsWkGtK~~~lg~g~tRKFL~DgDEVii~G~CeknG~RIGFGeC~GkVLPA~ 417 (420)
T KOG2843|consen 355 PEPDSYGSMLELSWKGTKTLELGGGKTRKFLQDGDEVIIRGHCEKNGLRIGFGECVGKVLPAH 417 (420)
T ss_pred CCCcchhhhhhhhhcCceeeecCCchhhhhhhcCCeEEEEeeecCCceEEecccccccccccc
Confidence 99999999999999999999995 778999999999999999999999999999999999873
No 5
>TIGR02303 HpaG-C-term 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit. This model represents one of two subunits/domains of the bifunctional isomerase/decarboxylase involved in 4-hydroxyphenylacetate degradation. In E. coli and some other species this enzyme is encoded by a single polypeptide containing both this domain and the closely related N-terminal domain (TIGR02305). In other species such as Pasteurella multocida these domains are found as two separate proteins (usually as tandem genes). Together, these domains carry out the decarboxylation of 5-oxopent-3-ene-1,2,5-tricarboxylic acid (OPET) to 2-hydroxy-2,4-diene-1,7-dioate (HHDD) and the subsequent isomerization to 2-oxohept-3-ene-1,7-dioate (OHED).
Probab=100.00 E-value=2.9e-49 Score=363.48 Aligned_cols=204 Identities=24% Similarity=0.314 Sum_probs=179.0
Q ss_pred CCcccCCeee-ecchHHHHHHhccccCCCCCCCCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCCC
Q 022156 3 LPMEIGDYTD-FFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQK 81 (302)
Q Consensus 3 ~p~~~~~~~~-~~ny~~H~~~~g~~~~~~~~~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~~ 81 (302)
-|+.++++.+ +.||.+|++|++.. .| ..|++|.|++++++++|++|.+|.. +..
T Consensus 38 ~P~~p~ki~~vg~Ny~~h~~e~~~~-----~p------~~P~~F~Kp~~s~~g~~~~i~~P~~--------------~~~ 92 (245)
T TIGR02303 38 PPFEPGTIFALGLNYADHASELGFS-----PP------EEPLVFLKGNNTLTGHKGVTYRPKD--------------VRF 92 (245)
T ss_pred CCCCCCeEEEEeCCHHHHHHHhCCC-----CC------CCCEEEEcCcceeeCCCCcEECCCC--------------CCc
Confidence 4677777655 79999999999753 22 2477778889999999999999976 678
Q ss_pred ceeceEEEEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcCCCCcccccCCCC--CCCceecccccCccc
Q 022156 82 LDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTT--LSPWIVTLDALEPFA 159 (302)
Q Consensus 82 ld~E~ELavvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~~--lGP~ivt~d~l~~~~ 159 (302)
+|||+|||+||||+ +++++++||++||+||+++||+|+||+|...+ .+|.++|+||++ +|||+++++++.
T Consensus 93 ld~E~EL~vvigk~---~~~v~~~~A~~~I~Gytv~nD~T~Rd~q~~~~--~~~~~aK~~D~~~plGp~i~t~~~~~--- 164 (245)
T TIGR02303 93 MHYECELAVVVGKT---AKNVKREDAMDYVLGYTIANDYAIRDYLENYY--RPNLRVKNRDTFTPIGPWIVDKEDVE--- 164 (245)
T ss_pred eeEEEEEEEEECCC---CCCCCHHHHhhheeEEEEEeecchHHHHhhhc--CCcccccCCCCCEeeCCcCCCHHHcC---
Confidence 99999999999999 89999999999999999999999999997543 479999999995 999999888773
Q ss_pred CCCCCCCCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHHHcCcccCCCCEEecCCCCC
Q 022156 160 CDSPKQDPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISG 239 (302)
Q Consensus 160 ~~~~~~~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~G 239 (302)
++.+++++++| ||+++|++++++|+|++.++|+|+ |++++|+|||||+||||.|
T Consensus 165 -----------------d~~~l~i~l~v--------NGe~~q~g~t~~ml~~v~~Li~~l-s~~~tL~pGDvIlTGTp~g 218 (245)
T TIGR02303 165 -----------------DPMNLWLRTYV--------NGELTQEGNTSDMIFSVAELIEYL-SEFMTLEPGDVILTGTPKG 218 (245)
T ss_pred -----------------CccccEEEEEE--------CCEEEEecCHHHhccCHHHHHHHH-hcCCCcCCCCEEEcCCCCC
Confidence 24667888886 999999999999999999999998 8899999999999999998
Q ss_pred CccCCCCcEEEEEecCccceeeCCCCCCCCCCCCEEEEEEEecCCCceeeeeeeeeEEee
Q 022156 240 PEPESLGCLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIVP 299 (302)
Q Consensus 240 v~~~~~Gd~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~~vv~ 299 (302)
++ .|++||+|++++. |+|+|+|+|+.
T Consensus 219 ~~--------------------------~l~~GD~v~~~i~--------glG~l~n~v~~ 244 (245)
T TIGR02303 219 LS--------------------------DVKPGDVVRLEIE--------GVGALENPIVS 244 (245)
T ss_pred Ce--------------------------EcCCCCEEEEEEc--------CceeEEEEEEe
Confidence 63 3789999999977 99999999984
No 6
>KOG1535 consensus Predicted fumarylacetoacetate hydralase [General function prediction only]
Probab=100.00 E-value=1.9e-46 Score=328.83 Aligned_cols=195 Identities=24% Similarity=0.244 Sum_probs=166.7
Q ss_pred cCCeee-ecchHHHHHHhccccCCCCCCCCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCCCceec
Q 022156 7 IGDYTD-FFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFE 85 (302)
Q Consensus 7 ~~~~~~-~~ny~~H~~~~g~~~~~~~~~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~~ld~E 85 (302)
.++.++ +.||.+|++|++.+ .|. +|+||.|+.||++++|++|.+|++ ++.+|||
T Consensus 12 ~~KIVcVg~NY~dh~~E~~~~-----~Pk------eP~~FlKptss~v~~g~~i~~p~~--------------~~~lh~E 66 (217)
T KOG1535|consen 12 PTKIVCVGRNYADHCKELNNP-----VPK------EPFFFLKPTSSIVGPGGPIVIPPG--------------SKGLHHE 66 (217)
T ss_pred CCeEEEecccHHHHHHHhCCC-----CCC------CCeEEeecchhhcCCCCceEcCCC--------------cCcccee
Confidence 455655 79999999999865 243 466666669999999999999987 7889999
Q ss_pred eEEEEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcC-CCCcccccCCCC--CCCceecccccCcccCCC
Q 022156 86 LEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVP-LGPFLGKSFGTT--LSPWIVTLDALEPFACDS 162 (302)
Q Consensus 86 ~ELavvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~-~~~~~aK~~d~~--lGP~ivt~d~l~~~~~~~ 162 (302)
+||++||||. ++++++.+|++||+||+++.|+||||+|...+.. ++|+.||+||++ +|.++ ..+.+.
T Consensus 67 vEL~vVigK~---~~~v~~~~amd~v~Gy~valDmtARd~q~~ak~~g~pw~l~K~~Dtf~Pis~~v-pk~~v~------ 136 (217)
T KOG1535|consen 67 VELAVVIGKK---GSSVKKKDAMDYVGGYAVALDMTARDWQDEAKKKGLPWTLGKGFDTFTPISAIV-PKEKVP------ 136 (217)
T ss_pred EEEEEEeccc---cccCChhhcccccccEEEEeeccchhhhhhhhhcCCCeeeccccCccCcccccc-cHHHCC------
Confidence 9999999999 8999999999999999999999999999987654 899999999995 99644 555553
Q ss_pred CCCCCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHHHcCcccCCCCEEecCCCCCCcc
Q 022156 163 PKQDPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEP 242 (302)
Q Consensus 163 ~~~~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~Gv~~ 242 (302)
|+.++.|.|+| ||+++|+|+|++|+|++..+|+|+ |+.++|.+||||+||||.|+++
T Consensus 137 --------------Dp~nl~L~l~V--------nG~~~Q~g~T~~mifkip~li~~i-s~~~tL~~GDvILTGTP~GVg~ 193 (217)
T KOG1535|consen 137 --------------DPHNLWLWLRV--------NGETRQTGNTSLMIFKIPDLISRL-SQIMTLEPGDVILTGTPEGVGE 193 (217)
T ss_pred --------------CccceEEEEEE--------ccEEEecCchhhheecHHHHHHHH-hhheeecCCCEEEecCCCcccc
Confidence 56888898887 999999999999999999999998 9999999999999999999998
Q ss_pred CCCCcEEEEEecCccce
Q 022156 243 ESLGCLLELTWNGQKPL 259 (302)
Q Consensus 243 ~~~Gd~le~~~~g~g~l 259 (302)
+.+||.+++++.+++.+
T Consensus 194 v~~Gd~i~~ei~~l~~~ 210 (217)
T KOG1535|consen 194 VKPGDVIQCELLELSDV 210 (217)
T ss_pred ccCCCEEEeccccccce
Confidence 75555555555444433
No 7
>PRK15203 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase; Provisional
Probab=100.00 E-value=3.1e-45 Score=360.39 Aligned_cols=197 Identities=20% Similarity=0.209 Sum_probs=162.5
Q ss_pred eeeecchHHHHHHhccccCCC-CCCCCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCCCceeceEE
Q 022156 10 YTDFFSSMHHAKNCGTIFRGP-ANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFELEM 88 (302)
Q Consensus 10 ~~~~~ny~~H~~~~g~~~~~~-~~~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~~ld~E~EL 88 (302)
|+-+.||++|++++++.+... .+. .| ..|++|+|++++++++|++|.+|.+ ..+|||+||
T Consensus 6 ~~vg~Ny~~~~~~~~~~~~~~~~~~-~p---~~P~~F~Kp~~al~g~~~~i~~P~~---------------~~~~~E~EL 66 (429)
T PRK15203 6 FAVALNHRSQLDAWQEAFQQSPYKA-PP---KTAVWFIKPRNTVIRCGEPIPFPQG---------------EKVLSGATV 66 (429)
T ss_pred EEEeCchHHHHHhhhhhccccccCC-CC---CCCEEEecCcceeeCCCCcEECCCC---------------CCceEEEEE
Confidence 344799999999987542110 011 11 3477788889999999999999974 369999999
Q ss_pred EEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcCCCCcccccCCCC--CCCceecccccCcccCCCCCCC
Q 022156 89 AAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTT--LSPWIVTLDALEPFACDSPKQD 166 (302)
Q Consensus 89 avvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~~--lGP~ivt~d~l~~~~~~~~~~~ 166 (302)
++||||+ +++++++||++||+||+++||+|+||+|.. .+|.++|+||++ +|||+...+
T Consensus 67 ~vvIGk~---~~~v~~~~A~~~V~Gyti~nD~t~rd~q~~----~~~~~~K~~D~~~p~Gp~i~~~~------------- 126 (429)
T PRK15203 67 ALIVGKT---ATKVREEDAAEYIAGYALANDVSLPEESFY----RPAIKAKCRDGFCPIGETVALSN------------- 126 (429)
T ss_pred EEEECCc---cCCCCHHHHhhheeEEEEEEEeechhhccc----CCcccccCCCCCcccCCeEECCC-------------
Confidence 9999999 899999999999999999999999998852 369999999995 999996421
Q ss_pred CCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHHHcCcccCCCCEEecCCCCCCccCCCC
Q 022156 167 PQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEPESLG 246 (302)
Q Consensus 167 ~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~Gv~~~~~G 246 (302)
+.+++|+++| ||+++|++++++|+|+++++|+|+ |++++|+|||||+||||+|++
T Consensus 127 -----------~~~l~i~~~v--------NGe~~Q~~~t~~Mi~~~~~lis~l-S~~~tL~pGDvI~TGTP~g~~----- 181 (429)
T PRK15203 127 -----------VDNLTIYTEI--------NGRPADHWNTADLQRNAAQLLSAL-SEFATLNPGDAILLGTPQARV----- 181 (429)
T ss_pred -----------ccceEEEEEE--------CCEEEecCCHHHcCCCHHHHHHHH-hCCCCcCCCCEEEcCCCCCce-----
Confidence 3567888886 999999999999999999999998 999999999999999999864
Q ss_pred cEEEEEecCccceeeCCCCCCCCCCCCEEEEEEEecCCCceeeeeeeeeEEee
Q 022156 247 CLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIVP 299 (302)
Q Consensus 247 d~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~~vv~ 299 (302)
+||+||+|++++. |+|+|+|+|+.
T Consensus 182 ---------------------~l~~GD~v~~~i~--------gig~l~n~v~~ 205 (429)
T PRK15203 182 ---------------------EIQPGDRVRVLAE--------GFPPLENPVVD 205 (429)
T ss_pred ---------------------ECCCCCEEEEEEe--------CeeEEEEEEEE
Confidence 4667777776655 67777777763
No 8
>PRK10691 hypothetical protein; Provisional
Probab=100.00 E-value=1.2e-44 Score=327.91 Aligned_cols=198 Identities=21% Similarity=0.234 Sum_probs=166.9
Q ss_pred CCe-eeecchHHHHHHhccccCCCCCCCCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCCCceece
Q 022156 8 GDY-TDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFEL 86 (302)
Q Consensus 8 ~~~-~~~~ny~~H~~~~g~~~~~~~~~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~~ld~E~ 86 (302)
+++ +.+.||.+|+++++.. .|. .|++|.|+++++++++++|.+|.. +.++|||+
T Consensus 17 ~ki~~vg~Ny~~h~~e~~~~-----~p~------~P~~F~K~~~~~~~~~~~i~~P~~--------------~~~ld~E~ 71 (219)
T PRK10691 17 SKVVCVGSNYAKHIKEMGSA-----TPE------EPVLFIKPETALCDLRQPLAIPKD--------------FGSVHHEV 71 (219)
T ss_pred CcEEEEecCHHHHHHHhCCC-----CCC------CCEEEECCcceeeCCCCcEECCCC--------------CCCeeEEE
Confidence 444 4479999999998753 232 477777879999999999999976 67899999
Q ss_pred EEEEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcC-CCCcccccCCCC--CCCceecccccCcccCCCC
Q 022156 87 EMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVP-LGPFLGKSFGTT--LSPWIVTLDALEPFACDSP 163 (302)
Q Consensus 87 ELavvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~-~~~~~aK~~d~~--lGP~ivt~d~l~~~~~~~~ 163 (302)
|||+||||+ +++++++||++||+||+++||+|+|++|.+.... .+|.++|+||++ +|||+++.+...
T Consensus 72 ELavvigk~---~~~v~~~~a~~~V~gyt~~nDvt~r~~q~~~~~~~~~~~~~K~~D~~~~~gp~i~~~~~~~------- 141 (219)
T PRK10691 72 ELAVLIGAT---LRQATEEHVRKAIAGYGVALDLTLRDLQGKMKKAGQPWEKAKAFDNSCPISGFIPVAEFTG------- 141 (219)
T ss_pred EEEEEECCC---CCCCCHHHHhhhheEEEEEEEeEhhhhhhhhccccCCccccccCCCCcCcCCcEEchhccC-------
Confidence 999999999 7899999999999999999999999999876433 468899999995 899997643211
Q ss_pred CCCCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHHHcCcccCCCCEEecCCCCCCccC
Q 022156 164 KQDPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEPE 243 (302)
Q Consensus 164 ~~~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~Gv~~~ 243 (302)
++.+++++++| ||+++|++++++|+|++.++|+|+ |++++|+|||||+||||+|+++
T Consensus 142 -------------d~~~l~i~l~v--------NG~~~q~g~~~~mi~~~~~lia~l-s~~~tL~aGDvI~TGTp~g~~~- 198 (219)
T PRK10691 142 -------------DPQNTTLGLSV--------NGEVRQQGNTADMIHPIVPLIAYM-SRFFTLRAGDVVLTGTPEGVGP- 198 (219)
T ss_pred -------------CccccEEEEEE--------CCEEEEecCHHHhccCHHHHHHHH-hcCCccCCCCEEEcCCCCCCEE-
Confidence 34667788876 999999999999999999999998 8999999999999999998644
Q ss_pred CCCcEEEEEecCccceeeCCCCCCCCCCCCEEEEEEEecCCCceeeeeeeeeEE
Q 022156 244 SLGCLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKI 297 (302)
Q Consensus 244 ~~Gd~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~~v 297 (302)
|++||+|++++. |+ +|+|+|
T Consensus 199 -------------------------l~~GD~v~~~i~--------gl-~~~~~~ 218 (219)
T PRK10691 199 -------------------------LQSGDELTVTFN--------GH-SLTTRV 218 (219)
T ss_pred -------------------------CCCCCEEEEEEe--------CE-EEEEEe
Confidence 577777777755 67 777776
No 9
>PRK15203 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase; Provisional
Probab=100.00 E-value=1e-42 Score=342.58 Aligned_cols=200 Identities=22% Similarity=0.270 Sum_probs=174.4
Q ss_pred CC-eeeecchHHHHHHhccccCCCCCCCCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCCCceece
Q 022156 8 GD-YTDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFEL 86 (302)
Q Consensus 8 ~~-~~~~~ny~~H~~~~g~~~~~~~~~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~~ld~E~ 86 (302)
++ |+.+.||.+|++|++.. .| .+|++|+|+++++++++++|.+|.. +..+|||+
T Consensus 223 ~ki~~vg~Ny~~h~~e~~~~-----~p------~~P~~F~K~~~s~~g~~~~i~~P~~--------------~~~ld~E~ 277 (429)
T PRK15203 223 GTLFALGLNYADHASELEFK-----PP------EEPLVFLKAPNTLTGDNQTSVRPNN--------------IEYMHYEA 277 (429)
T ss_pred CeEEEEcCCHHHHHHHhCCC-----CC------CCCEEEEcCcceeeCCCCCEECCCC--------------CCceEEEE
Confidence 44 44589999999998743 23 2477777779999999999999976 67899999
Q ss_pred EEEEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcCCCCcccccCCCC--CCCceecccccCcccCCCCC
Q 022156 87 EMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTT--LSPWIVTLDALEPFACDSPK 164 (302)
Q Consensus 87 ELavvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~~--lGP~ivt~d~l~~~~~~~~~ 164 (302)
|||+||||+ +++++++||++||+||+++||+|+||+|.... .+|+.+|+||++ +|||+++.+++.
T Consensus 278 ELavVigk~---~~~v~~~ea~~~V~Gy~~~nD~t~rd~q~~~~--~~w~~~K~~d~~~plGp~~v~~d~~~-------- 344 (429)
T PRK15203 278 ELVVVIGKQ---ARKVSEADAMDYVAGYTVCNDYAIRDYLENYY--RPNLRVKSRDGLTPILSTIVPKEAIP-------- 344 (429)
T ss_pred EEEEEECCC---CCCCCHHHHhhheeEEEEEEeccchhhhhhhc--CCceEeccCCCCcCCCCCEeChhhcC--------
Confidence 999999999 89999999999999999999999999996543 468999999995 999999887653
Q ss_pred CCCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHHHcCcccCCCCEEecCCCCCCccCC
Q 022156 165 QDPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEPES 244 (302)
Q Consensus 165 ~~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~Gv~~~~ 244 (302)
++.+++++++| ||+++|++++++|+|++.++|+|+ |++++|+|||+|+||||.|++
T Consensus 345 ------------d~~~l~i~l~v--------NG~~vq~g~t~~m~~~v~~li~~l-s~~~tL~aGDvI~TGTp~g~~--- 400 (429)
T PRK15203 345 ------------DPHNLTLRTFV--------NGELRQQGTTADLIFSVPFLIAYL-SEFMTLNPGDMIATGTPKGLS--- 400 (429)
T ss_pred ------------CccceEEEEEE--------CCEEEEeeCHHHhccCHHHHHHHH-hcCCCcCCCCEEEeCCCCCCe---
Confidence 34678888886 999999999999999999999998 899999999999999999864
Q ss_pred CCcEEEEEecCccceeeCCCCCCCCCCCCEEEEEEEecCCCceeeeeeeeeEEeeC
Q 022156 245 LGCLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIVPS 300 (302)
Q Consensus 245 ~Gd~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~~vv~~ 300 (302)
.|++||+|++++. |+|+|+|+|+.+
T Consensus 401 -----------------------~l~pGD~v~~~i~--------glG~l~n~v~~~ 425 (429)
T PRK15203 401 -----------------------DVVPGDEVVVEVE--------GVGRLVNRIVSE 425 (429)
T ss_pred -----------------------ECCCCCEEEEEEc--------CceEEEEEEEec
Confidence 3689999998876 899999999865
No 10
>PRK12764 hypothetical protein; Provisional
Probab=100.00 E-value=3.2e-42 Score=344.61 Aligned_cols=211 Identities=22% Similarity=0.282 Sum_probs=179.2
Q ss_pred CCCcccCCeeee-cchHHHHHHhccccCCCCCCCCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCC
Q 022156 2 LLPMEIGDYTDF-FSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQ 80 (302)
Q Consensus 2 ~~p~~~~~~~~~-~ny~~H~~~~g~~~~~~~~~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~ 80 (302)
.+|.+++++.+. .||.+|+++++.. |.. |++|+|++++++++|.+|.+|.+ +.
T Consensus 16 ~~~~~p~kIi~vg~Ny~~ha~e~~~~------p~~------P~~f~K~~~sl~~~g~~I~~p~~--------------~~ 69 (500)
T PRK12764 16 PLLARPGKVIAVHLNYPSRAAQRGRT------PAQ------PSYFLKPSSSLALSGGTVERPAG--------------TE 69 (500)
T ss_pred CCCCCCCcEEEECCCCHHHHHHhCCC------CCC------CEEEEeccceEeCCCCeEECCCC--------------CC
Confidence 467888888884 8999999998642 333 66777779999999999999976 56
Q ss_pred CceeceEEEEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcCCCCcccccCCCC--CCCceecccccCcc
Q 022156 81 KLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTT--LSPWIVTLDALEPF 158 (302)
Q Consensus 81 ~ld~E~ELavvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~~--lGP~ivt~d~l~~~ 158 (302)
.++||+|||+||||+ +++++++||++||+||+++||+|+||+|..+. ..|+++|+||++ +|||++++++++
T Consensus 70 ~l~~E~ELavVIgr~---~~~v~~eea~~~I~Gyt~~nDvt~rD~~~~d~--~~~~~~K~~Dg~~plGp~iv~~~~~d-- 142 (500)
T PRK12764 70 LLAFEGEIALVIGRP---ARRVSPEDAWSHVAAVTAANDLGVYDLRYADK--GSNLRSKGGDGFTPIGPALISARGVD-- 142 (500)
T ss_pred ceeEEEEEEEEECCc---CCCCCHHHHHhhheEEEEecceeeehhhhhhc--CCcccccccCccEecCCCccCccccC--
Confidence 899999999999999 78999999999999999999999999998654 257899999995 999999988764
Q ss_pred cCCCCCCCCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHHHcCcccCCCCEEecCCCC
Q 022156 159 ACDSPKQDPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTIS 238 (302)
Q Consensus 159 ~~~~~~~~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~ 238 (302)
+.+++++++| ||+++|++++++|+|++.+||+|+ |++++|+|||||+||||.
T Consensus 143 -------------------~~~l~i~~~v--------NGe~~Q~g~t~dmi~~v~~LI~~l-S~~~tL~pGDvIlTGTp~ 194 (500)
T PRK12764 143 -------------------PAQLRVRTWV--------NGELVQDDTTEDLLFPFAQLVADL-SQLLTLEEGDVILTGTPA 194 (500)
T ss_pred -------------------ccceEEEEEE--------CCEEEEeccHHHhcCCHHHHHHHH-hcCCCcCCCCEEEeCCCC
Confidence 3667888886 999999999999999999999998 899999999999999999
Q ss_pred CCccCCCCcEEEEEecCccceeeCCCCCCCCCCCCEEEEEEEec-CCCceeeeeeeeeEEeeCC
Q 022156 239 GPEPESLGCLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCK-GNGYTVGFGTCSGKIVPST 301 (302)
Q Consensus 239 Gv~~~~~Gd~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~~~-~~~~~~~~G~l~~~vv~~~ 301 (302)
|++ +|++||+|++++. + .||... ||+|+|+|+...
T Consensus 195 g~~--------------------------~l~pGD~v~~~i~-gi~~~~~~-~G~L~n~v~~~~ 230 (500)
T PRK12764 195 GSS--------------------------VAAPGDVVEVEVD-APADGAPS-TGRLVTRVVEGT 230 (500)
T ss_pred CCe--------------------------ecCCCCEEEEEEc-CCccCCCC-cceEEEEEEeCC
Confidence 864 4688888888865 1 333333 499999998653
No 11
>TIGR02305 HpaG-N-term 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, N-terminal subunit. This model represents one of two subunits/domains of the bifunctional isomerase/decarboxylase involved in 4-hydroxyphenylacetate degradation. In E. coli and some other species this enzyme is encoded by a single polypeptide containing both this domain and the closely related C-terminal domain (TIGR02303). In other species such as Pasteurella multocida these domains are found as two separate proteins (usually as tandem genes). Together, these domains carry out the decarboxylation of 5-oxopent-3-ene-1,2,5-tricarboxylic acid (OPET) to 2-hydroxy-2,4-diene-1,7-dioate (HHDD) and the subsequent isomerization to 2-oxohept-3-ene-1,7-dioate (OHED).
Probab=100.00 E-value=6e-41 Score=300.64 Aligned_cols=200 Identities=21% Similarity=0.227 Sum_probs=164.5
Q ss_pred eeeecchHHHHHHhccccCCCCCCCCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCCCceeceEEE
Q 022156 10 YTDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFELEMA 89 (302)
Q Consensus 10 ~~~~~ny~~H~~~~g~~~~~~~~~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~~ld~E~ELa 89 (302)
|+-+.||.+|+++++..+........| ..|++|+|++++++++|++|.+|.. ...++||+|||
T Consensus 4 ~~vg~ny~~h~~~~~~~~~~~~~~~~p---~~P~~f~k~~~~~~~~g~~i~~p~~--------------~~~~~~E~ELa 66 (205)
T TIGR02305 4 FGVALNYREQLDRLQEAFQQAPYKAPP---KTPVLYIKPRNTHNGCGQPIPLPAG--------------VEKLRSGATLA 66 (205)
T ss_pred EEEeCcHHHHHHHhcccccccccCCCC---CCCEEEEcCcceEeCCCCeEECCCC--------------CCCccEEEEEE
Confidence 345799999999998532110001112 4588888889999999999999875 56899999999
Q ss_pred EEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcCCCCcccccCCCC--CCCceecccccCcccCCCCCCCC
Q 022156 90 AVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTT--LSPWIVTLDALEPFACDSPKQDP 167 (302)
Q Consensus 90 vvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~~--lGP~ivt~d~l~~~~~~~~~~~~ 167 (302)
+||||+ ++++++++|++||+||+++||+|+|+.+.+. .|..+|+++++ +||| ++.+++.
T Consensus 67 ~vigr~---~~~~~~~~a~~~v~g~~~~~dit~~~~~~~~----~~~~~k~~dg~~~lGp~-v~~~~~~----------- 127 (205)
T TIGR02305 67 LVVGRT---ACRVREEEALDYVAGYALVNDVSLPEDSYYR----PAIKAKCRDGFCPIGPE-VPLSAIG----------- 127 (205)
T ss_pred EEECCC---CCCCCHHHHHHhhheeEEeeeeehhhhhccC----cchhhcccCCccccCCc-ccHHHcC-----------
Confidence 999999 6789999999999999999999999876432 57899999985 9999 5655542
Q ss_pred CCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHHHcCcccCCCCEEecCCCCCCccCCCCc
Q 022156 168 QPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEPESLGC 247 (302)
Q Consensus 168 ~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~Gv~~~~~Gd 247 (302)
++.+++++++| ||+++|++++++|+|++.++++|+ |++++|+|||||+||||.|+.
T Consensus 128 ---------d~~~~~~~l~v--------ng~~~~~g~~~~~~~~~~~li~~l-s~~~~L~aGdvI~TGT~~g~~------ 183 (205)
T TIGR02305 128 ---------NPDELTIYTYI--------NGKPAQSNNTSNLVRSAAQLISEL-SEFMTLNPGDVLLLGTPEARV------ 183 (205)
T ss_pred ---------CccccEEEEEE--------CCEEEEeeCHHHhCcCHHHHHHHH-hCCCCcCCCCEEEeCCCCCCe------
Confidence 24677888886 999999999999999999999998 889999999999999998853
Q ss_pred EEEEEecCccceeeCCCCCCCCCCCCEEEEEEEecCCCceeeeeeeeeEE
Q 022156 248 LLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKI 297 (302)
Q Consensus 248 ~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~~v 297 (302)
+|++||+|++++. |+|+|+|+|
T Consensus 184 --------------------~l~~Gd~v~~~i~--------glG~l~n~v 205 (205)
T TIGR02305 184 --------------------EVGPGDRVRVEAE--------GLGELENPV 205 (205)
T ss_pred --------------------ecCCCCEEEEEEc--------CceeEEEeC
Confidence 4688888888765 788888875
No 12
>PF01557 FAA_hydrolase: Fumarylacetoacetate (FAA) hydrolase family Mutations in Swiss:P16930 cause inherited tyrosinemia type I.; InterPro: IPR002529 Fumarylacetoacetase (3.7.1.2 from EC; also known as fumarylacetoacetate hydrolase or FAH) catalyses the hydrolytic cleavage of a carbon-carbon bond in fumarylacetoacetate to yield fumarate and acetoacetate as the final step in phenylalanine and tyrosine degradation []. This is an essential metabolic function in humans, the lack of FAH causing type I tyrosinaemia, which is associated with liver and kidney abnormalities and neurological disorders [, ]. The enzyme mechanism involves a catalytic metal ion, a Glu/His catalytic dyad, and a charged oxyanion hole []. FAH folds into two domains: an N-terminal domain SH3-like beta-barrel, and a C-terminal with an unusual fold consisting of three layers of beta-sheet structures []. This entry represents the C-terminal domain of fumarylacetoacetase, as well as other domains that share a homologous sequence, including: 5-carboxymethyl-2-hydroxymuconate delta-isomerase (CHM isomerase; 5.3.3.10 from EC), which catalyses the conversion of 5-carboxymethyl-2-hydroxymuconate to 5-carboxy-2-oxohept-3-enedioate []. 5-oxopent-3-ene-1,2,5-tricarboxylate decarboxylase (OPET decarboxylase; 4.1.1.68 from EC), which catalyses the conversion of 5-oxopent-3-ene-1,2,5-tricarboxylate to 2-oxohept-3-enedioate and carbon dioxide. Bifunctional enzyme HpcE (OPET decarboxylase 4.1.1.68 from EC/HHDD isomerase 5.3.3.10 from EC), which is a duplication consisting of a tandem repeat of two FAH C-terminal-like domains. This enzyme is responsible for the degradation of 4-hydroxyphenylacetate, a product of tyrosine and phenylalanine metabolism also released by lignin catabolism []. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1SAW_B 3LZK_B 3S52_B 2WQT_Q 1SV6_C 2DFU_B 1WZO_D 3QDF_A 1GTT_B 1I7O_C ....
Probab=100.00 E-value=1.4e-41 Score=306.29 Aligned_cols=212 Identities=30% Similarity=0.346 Sum_probs=177.0
Q ss_pred eeeecchHHHHHHhccccCCCCCCCCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCCCceeceEEE
Q 022156 10 YTDFFSSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFELEMA 89 (302)
Q Consensus 10 ~~~~~ny~~H~~~~g~~~~~~~~~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~~ld~E~ELa 89 (302)
|..+.||.+|+++++... ...| .-.+...|++|.|+++++.++|++|.+|.. +..++||+|||
T Consensus 3 ~~~~~n~~~~~~~~~~~~--~~~p-~~~~~~~p~~~~~~~~~~~~~g~~i~~p~~--------------~~~~~~E~Ela 65 (218)
T PF01557_consen 3 VGVGLNYTSHAEEAGAGD--VDEP-DYGVPVEPVFFMKPPSSLVGSGAPIPLPRG--------------SRRLDYEAELA 65 (218)
T ss_dssp EEEESEBHHHHHHTTTTC--SSTT-SEECECSGEEEEEEGGGEEETTSEEEECTT--------------SSSEEEEEEEE
T ss_pred EEEeEchHHHHHHhCcCC--CCCC-ccccccCCeEEecCCceeecCCCceecCcc--------------ccccCcceEEE
Confidence 567899999999988541 1111 112334677889999999999999999986 67899999999
Q ss_pred EEecCCCCCCCCC-CHHHHhhhheeEEEEeecchhhhhhhhhcCCCCcccccCCCC--CCCceecccccCcccCCCCCCC
Q 022156 90 AVVGPGNELGKPI-DVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTT--LSPWIVTLDALEPFACDSPKQD 166 (302)
Q Consensus 90 vvigk~l~~g~~v-~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~~--lGP~ivt~d~l~~~~~~~~~~~ 166 (302)
++|||+ ++++ +++||++||.||+++|||++|++|.+...+++|+.+|+++++ +|||+++++++..
T Consensus 66 ~vig~~---~~~~~~~~ea~~~i~g~~~~~d~~~r~~~~~~~~~~~~~~~k~~~~~~~~Gp~~v~~~~~~~--------- 133 (218)
T PF01557_consen 66 FVIGRP---LRNVYTPEEALDAIAGYTPANDVTARDLQWRERPGLPWIADKSFDGSLVLGPWVVPPDELPD--------- 133 (218)
T ss_dssp EEESS----BSSTH-HHHHGGGEEEEEEEEEEEEHHHHHHHHHTHSSHHHHSSTTCEEEEEEEEEHSSHSG---------
T ss_pred EEEecC---CCCCCCHHHHHHHhhEEeeecccchhhhhhhhhcccchhhccCcCcceeecccccccccccC---------
Confidence 999998 6777 999999999999999999999999887644678889999985 9999999888752
Q ss_pred CCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHHHcCcccCCCCEEecCCCCCCccCCCC
Q 022156 167 PQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEPESLG 246 (302)
Q Consensus 167 ~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~Gv~~~~~G 246 (302)
+++++++|++ ||+++|++++++|+|++.++|+|+ |+..+|+|||+|+||||+|+..
T Consensus 134 -----------~~~~~~~l~v--------nG~~~~~~~~~~~~~~~~~ll~~l-s~~~~L~aGdvI~TGt~~G~~~---- 189 (218)
T PF01557_consen 134 -----------LRDLRLRLRV--------NGEVVQSGSTSDMLGDPAELLAWL-SRGLTLRAGDVILTGTPTGVGA---- 189 (218)
T ss_dssp -----------TTSEEEEEEE--------TTEEEEEEEGGGBSSSHHHHHHHH-HTTS-B-TTEEEEEEESSTSEG----
T ss_pred -----------cceEEEEEEE--------CCEEEEeccchhHHhhHHHHHHHH-hCCCCCCcceEEEcCCcCCCCc----
Confidence 4678888886 999999999999999999999997 9999999999999999998631
Q ss_pred cEEEEEecCccceeeCCCCCCCCCCCCEEEEEE-EecCCCceeeeeeeeeEEe
Q 022156 247 CLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTG-FCKGNGYTVGFGTCSGKIV 298 (302)
Q Consensus 247 d~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~-~~~~~~~~~~~G~l~~~vv 298 (302)
+.+..+|++||+|++++ . |||+|+|+|+
T Consensus 190 ----------------~~~~~~l~~Gd~v~~~~~~--------glG~l~~~v~ 218 (218)
T PF01557_consen 190 ----------------RPPPVPLQPGDRVEAEIDE--------GLGSLENTVA 218 (218)
T ss_dssp ----------------SSCCEEEBTT-EEEEEEET--------TTEEEEEEEE
T ss_pred ----------------ccccccCCCCcEEEEEEEC--------CEeEEEEEEC
Confidence 24578999999999996 6 9999999985
No 13
>TIGR03220 catechol_dmpE 2-oxopent-4-enoate hydratase. Members of this protein family are 2-oxopent-4-enoate hydratase, which is also called 2-hydroxypent-2,4-dienoate hydratase. It is closely related to another gene found in the same operon, 4-oxalocrotonate decarboxylase, with which it interacts closely.
Probab=99.92 E-value=1.2e-24 Score=201.17 Aligned_cols=170 Identities=15% Similarity=0.128 Sum_probs=122.4
Q ss_pred CceeeeCCCeeecCCCCCCCCCCCCCCCCCCCCceeceEEEEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhh
Q 022156 49 ASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAW 128 (302)
Q Consensus 49 ~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~~ld~E~ELavvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~ 128 (302)
.+.+..+|.++.++.. ..+++|+||||+|||+++ +++++++|++++|.++..+.++.+++++.|
T Consensus 80 ~~~~~~~g~~i~~~~~---------------~~~~vE~Elafvlg~~l~-~~~~t~~ev~~ai~~v~~~~El~D~r~~~~ 143 (255)
T TIGR03220 80 DGMVYNEGEPIPTDTL---------------IQPKAEGEIAFVLKKDLM-GPGVTAADVLAATECVMPCFEIVDSRIRDW 143 (255)
T ss_pred ccccccCCCeeccccC---------------ccceeeeEEEEEECCCCC-CCCCCHHHHHHHHhheeeeEEEcccccccC
Confidence 4555567777776653 379999999999999976 578999988877666655444444444433
Q ss_pred hhcCCCCcccccCCCCCCCceecccccCcccCCCCCCCCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhh
Q 022156 129 EYVPLGPFLGKSFGTTLSPWIVTLDALEPFACDSPKQDPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYL 208 (302)
Q Consensus 129 ~~~~~~~~~aK~~d~~lGP~ivt~d~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~m 208 (302)
.. ...+..+|+.. .|.++.. +++.. + .+-+...+.+++++ ||+++|++++++|
T Consensus 144 ~~-~~~~~~Ad~~~--~~~~V~g-~~~~~-~--------------~~~~l~~~~~~l~v--------nG~~~~~g~~~~~ 196 (255)
T TIGR03220 144 KI-KIQDTVADNAS--CGVFVLG-DTRVD-P--------------RKLDLALCGMVLEK--------NGEIVSTGAGAAA 196 (255)
T ss_pred CC-CccceeeecCC--cceEEEC-CCcCC-c--------------cccChhhCceEEEE--------CCEEEeecchhhc
Confidence 22 23677888844 3333322 22110 0 00023455667775 9999999999999
Q ss_pred ccCHHHHHHHHH----HcCcccCCCCEEecCCCCCCccCCCCcEEEEEecCccceee
Q 022156 209 YWTLTQQLAHHT----INGCNLRSGDLLGTGTISGPEPESLGCLLELTWNGQKPLSL 261 (302)
Q Consensus 209 i~~~~~lia~l~----s~~~~L~~GDvI~TGTp~Gv~~~~~Gd~le~~~~g~g~l~~ 261 (302)
++++.++|+||+ .++.+|+|||+|+|||+.|+.++++||.++++++|+|++++
T Consensus 197 lg~p~~~l~~L~~~l~~~g~~L~aGdiV~TGt~~g~~~v~~Gd~v~~~~~glG~v~~ 253 (255)
T TIGR03220 197 LGSPVNAVAWLANTLGRLGIPLKAGEVILSGSLAALVPVKAGDNLRVSIGGIGSCSV 253 (255)
T ss_pred cCCHHHHHHHHHHHHHHcCCCCCCCCEEECCCCCCCeeCCCCCEEEEEEcCCceEEE
Confidence 999999999983 14889999999999999999998888888888888887764
No 14
>PRK11342 mhpD 2-keto-4-pentenoate hydratase; Provisional
Probab=99.91 E-value=1.3e-23 Score=195.08 Aligned_cols=136 Identities=16% Similarity=0.106 Sum_probs=109.1
Q ss_pred CCceeceEEEEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcCCCCcccccCCCC---CCCceecccccC
Q 022156 80 QKLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTT---LSPWIVTLDALE 156 (302)
Q Consensus 80 ~~ld~E~ELavvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~~---lGP~ivt~d~l~ 156 (302)
....+|+||||++||+++ +..++.+|+.++|.++..++|+.+++++.|.. ......|++..+. +|+.+..++++
T Consensus 100 ~~~~iE~Eiaf~l~~dl~-~~~~t~~ev~~ai~~v~paiEivdsr~~~~~~-~~~~~iAD~~~~~~~VlG~~~~~~~~~- 176 (262)
T PRK11342 100 LQPRIEAEIALVLNRDLP-ATDITFDELYNAIEWVLPALEVVGSRIRDWSI-QFVDTVADNASCGVYVIGGPAQRPAGL- 176 (262)
T ss_pred CCcceeeEEEEEECCCCC-CCCCCHHHHHHhhceEeeeEEecCCcccCCCC-chhheeecccccceEEECCCcCCcccC-
Confidence 457899999999999986 56789999999999999999999999998753 2345677776542 67765444333
Q ss_pred cccCCCCCCCCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHH----HcCcccCCCCEE
Q 022156 157 PFACDSPKQDPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHT----INGCNLRSGDLL 232 (302)
Q Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~----s~~~~L~~GDvI 232 (302)
++.++++++++ ||+++|++++++|++++.++|+|++ +++++|+|||||
T Consensus 177 --------------------d~~~~~~~l~v--------ng~~~q~g~~~~~lg~p~~~l~~L~~~l~~~g~~L~aGdvV 228 (262)
T PRK11342 177 --------------------DLKNCAMKMTR--------NNEEVSSGRGSECLGHPLNAAVWLARKMASLGEPLRAGDII 228 (262)
T ss_pred --------------------ChhhCEEEEEE--------CCEEEEEEcHHHhccCHHHHHHHHHHHHHHcCCCcCCCCEE
Confidence 24667788886 9999999999999999999999873 455799999999
Q ss_pred ecCCCCCCccCCCC
Q 022156 233 GTGTISGPEPESLG 246 (302)
Q Consensus 233 ~TGTp~Gv~~~~~G 246 (302)
+||||.++.++++|
T Consensus 229 ~TGt~~~~~~l~~G 242 (262)
T PRK11342 229 LTGALGPMVAVNAG 242 (262)
T ss_pred EcCCCCCCeeCCCC
Confidence 99999876444333
No 15
>TIGR02312 HpaH 2-oxo-hepta-3-ene-1,7-dioic acid hydratase. This model represents the enzyme which hydrates the double bond of 2-oxo-hepta-3-ene-1,7-dioic acid to form 4-hydroxy-2-oxo-heptane-1,7-dioic acid in the catabolism of 4-hydroxyphenylacetic acid. The gene for this enzyme is generally found adjacent to other genes of this pathway in an apparent operon.
Probab=99.86 E-value=4.5e-21 Score=178.66 Aligned_cols=152 Identities=15% Similarity=0.081 Sum_probs=125.4
Q ss_pred CCceeceEEEEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhc-----CCCCcccccCCCC---CCCceec
Q 022156 80 QKLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYV-----PLGPFLGKSFGTT---LSPWIVT 151 (302)
Q Consensus 80 ~~ld~E~ELavvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~-----~~~~~~aK~~d~~---lGP~ivt 151 (302)
....+|+||||++|++++ +...+.+|++++|.+|++++|+.+++++.|... ++....+++..+. +|+....
T Consensus 101 ~~p~vE~Eiaf~l~~~l~-~~~~t~~ev~~ai~~v~paiEi~dsr~~~~~~~~~~~~~~~d~iADn~~~~~~v~G~~~~~ 179 (267)
T TIGR02312 101 IQPRVEVELAFVLKKDLE-GPNVTIFDVLNATDYVVPALEIIDARIERVDPETGATRKVFDTISDNAANAGIVLGGRPVR 179 (267)
T ss_pred cccccceEEEEEECCCCC-CCCCCHHHHHHHhheEEeeEEEeeccccccccccCCccccccEecCCccceEEEECCCCCC
Confidence 457899999999999986 567899999999999999999999999987532 1234466665542 7776554
Q ss_pred ccccCcccCCCCCCCCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHH----HHcCcccC
Q 022156 152 LDALEPFACDSPKQDPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHH----TINGCNLR 227 (302)
Q Consensus 152 ~d~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l----~s~~~~L~ 227 (302)
++.+ ++..+.++|++ ||+++++|.+++|+.+|.+.++|| ..++.+|+
T Consensus 180 ~~~~---------------------dl~~~~~~l~~--------nG~~~~~g~~~~~lg~P~~al~wL~~~l~~~G~~L~ 230 (267)
T TIGR02312 180 PDAL---------------------DLRWVGAILYR--------NGVVEETGLAAGVLNHPANGVAWLANKLAPWGETLE 230 (267)
T ss_pred cccc---------------------ChhhcccEEEE--------CCEEEEEechhhhcCCHHHHHHHHHHHHHHcCCCCC
Confidence 4433 24556777775 999999999999999999999998 36678999
Q ss_pred CCCEEecCCCCCCccCCCCcEEEEEecCccceee
Q 022156 228 SGDLLGTGTISGPEPESLGCLLELTWNGQKPLSL 261 (302)
Q Consensus 228 ~GDvI~TGTp~Gv~~~~~Gd~le~~~~g~g~l~~ 261 (302)
+||+|+|||+.++.++.+|+.++++++|+|++++
T Consensus 231 aGdiV~TGs~~~~~~v~~G~~~~~~~~glG~v~~ 264 (267)
T TIGR02312 231 AGQVVLAGSFTRPVAARSGDTFHADYGPLGTISV 264 (267)
T ss_pred CCCEEECCCCCCceecCCCCEEEEEEcCCceEEE
Confidence 9999999999999999999999999999988764
No 16
>TIGR03218 catechol_dmpH 4-oxalocrotonate decarboxylase. Members of this protein family are 4-oxalocrotonate decarboxylase. Note that this protein, as characterized (indirectly) in Pseudomonas sp. strain CF600, was inactive except when coexpressed with DmpE, 2-oxopent-4-enoate hydratase, a homologous protein from the same operon. Both of these enzymes are active in the degradation of catechol, a common intermediate in the degradation of aromatic compounds such as benzoate, toluene, phenol, dimethylphenol (dmp), salicylate, etc.
Probab=99.76 E-value=1.4e-17 Score=154.97 Aligned_cols=151 Identities=13% Similarity=0.144 Sum_probs=127.8
Q ss_pred CCceeceEEEEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcCCCCcccccCCCC---CCCceecccccC
Q 022156 80 QKLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTT---LSPWIVTLDALE 156 (302)
Q Consensus 80 ~~ld~E~ELavvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~~---lGP~ivt~d~l~ 156 (302)
.....|+||||+++++++ +...+.+|++++|..+.+++++.++++..|.. .+....|+|..+. +||....++.+
T Consensus 104 ~~p~vE~Eiaf~l~~~l~-~~~~t~~ev~~ai~~v~paiEivdsR~~~~~~-~~~~~iADn~~~~~~vlG~~~~~~~~~- 180 (263)
T TIGR03218 104 IHPKVEAEIAFVTKAPLK-GPGCHIGDVLAATDFVMPAVEVIDSRYRDFKF-DLKSVIADNTSSARFVTGGRAANVEDL- 180 (263)
T ss_pred CcceeeeEEEEEECCCCC-CCCCCHHHHHHhhcEEEeeEEeccCcccCCCC-ChhheeeeccccceEEECCCCCCcccc-
Confidence 357899999999999986 67799999999999999999999999998752 3456788887652 78876544332
Q ss_pred cccCCCCCCCCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHH----HHcCcccCCCCEE
Q 022156 157 PFACDSPKQDPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHH----TINGCNLRSGDLL 232 (302)
Q Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l----~s~~~~L~~GDvI 232 (302)
|+.++.++|++ ||++++++..++.+.+|...+.|| ..++..|++||+|
T Consensus 181 --------------------dl~~~~~~l~~--------~g~~v~~g~g~~~lG~P~~al~wL~~~l~~~G~~L~aG~iV 232 (263)
T TIGR03218 181 --------------------DLRTLGVVMEK--------NGEVVAMGAGAAVLGHPAAAVAMLANHLAERGEEIPAGSFI 232 (263)
T ss_pred --------------------CHhhCcEEEEE--------CCEEEEeecccccCCCHHHHHHHHHHHHHHcCCCCCCCCEE
Confidence 24666788875 999999999999999999999888 4788899999999
Q ss_pred ecCCCCCCccCCCCcEEEEEecCccceee
Q 022156 233 GTGTISGPEPESLGCLLELTWNGQKPLSL 261 (302)
Q Consensus 233 ~TGTp~Gv~~~~~Gd~le~~~~g~g~l~~ 261 (302)
+|||..++.++.+|+.+.++++|+|++++
T Consensus 233 ~tGs~t~~~~v~~G~~~~~~~~glG~v~~ 261 (263)
T TIGR03218 233 MSGGITEAVAVAPGDSVTVRYQGLGSVSM 261 (263)
T ss_pred ECCcCcCceecCCCCEEEEEECCCceEEE
Confidence 99999999999999999999999998764
No 17
>COG3971 2-keto-4-pentenoate hydratase [Secondary metabolites biosynthesis, transport, and catabolism]
Probab=99.72 E-value=2.6e-17 Score=150.48 Aligned_cols=150 Identities=18% Similarity=0.218 Sum_probs=130.0
Q ss_pred CceeceEEEEEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhh-hhhhcCCCCcccccCCCC---CCCceecccccC
Q 022156 81 KLDFELEMAAVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQ-AWEYVPLGPFLGKSFGTT---LSPWIVTLDALE 156 (302)
Q Consensus 81 ~ld~E~ELavvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q-~~~~~~~~~~~aK~~d~~---lGP~ivt~d~l~ 156 (302)
...+|+||+++++|+++ +.++|..|+++||..+.++.++-+.+++ .|.. ++..+.++|..+. +||-.+.+++++
T Consensus 102 ~prvE~EiafvL~kdlp-a~~~T~~d~l~a~~~v~palElidsri~~d~~~-~~~dtiaDnaan~G~ViG~~~~~~~~ld 179 (264)
T COG3971 102 QPRVEVEIAFVLKKDLP-APDCTVADVLNATDYVLPALELIDSRIKQDWQV-KFPDTIADNAANAGFVIGGRAVKPDDLD 179 (264)
T ss_pred ceeeeeeEEEEecCCCC-CCCCCHHHHHHHHHhhhhhhhhccchhhhCCCC-CcceEEecccccCceEECCCCCCchhhh
Confidence 45999999999999998 7899999999999999999999888887 4443 3467788887763 998777776654
Q ss_pred cccCCCCCCCCCCCccccccCCceeeEEEEEEeecCCCCCCeEEEecchhhhccCHHHHHHHHH----HcCcccCCCCEE
Q 022156 157 PFACDSPKQDPQPLPYLAEKISKNYDISLEVQIKPAGKEDSCVVTRSNFKYLYWTLTQQLAHHT----INGCNLRSGDLL 232 (302)
Q Consensus 157 ~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~V~~~~~~~~NGe~~q~~~t~~mi~~~~~lia~l~----s~~~~L~~GDvI 232 (302)
...+..+|.. ||++++.+..+..+.+|..-++|++ +++.+|++||||
T Consensus 180 ---------------------~~~~~~~l~r--------ng~~~e~g~~aavLghP~~a~~wLAn~~a~~G~~Lk~G~IV 230 (264)
T COG3971 180 ---------------------LRNVGATLYR--------NGVEEETGVGAAVLGHPAAALAWLANKLAAYGVPLKAGDIV 230 (264)
T ss_pred ---------------------hhhccceeee--------cCEEEEeeechhhcCCcHHHHHHHHHHHHHcCCCcccCcEE
Confidence 3556677774 9999999999999999999999984 789999999999
Q ss_pred ecCCCCCCccCCCCcEEEEEecCccceee
Q 022156 233 GTGTISGPEPESLGCLLELTWNGQKPLSL 261 (302)
Q Consensus 233 ~TGTp~Gv~~~~~Gd~le~~~~g~g~l~~ 261 (302)
+||+..+..+..+||.+++.++|+|.++.
T Consensus 231 l~Gs~t~~v~~~~gd~~h~~~~~lG~v~~ 259 (264)
T COG3971 231 LTGSFTGPVPARPGDTFHADFGGLGAVSC 259 (264)
T ss_pred ecCccCccccCCCCCEEEEEecCcCceEE
Confidence 99999999999999999999999998874
No 18
>COG3970 Fumarylacetoacetate (FAA) hydrolase family protein [General function prediction only]
Probab=99.61 E-value=1.3e-14 Score=135.08 Aligned_cols=187 Identities=22% Similarity=0.153 Sum_probs=139.2
Q ss_pred CCCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCCCceeceEEEEEecCCCCCCCCCCHHHHhhhhe
Q 022156 33 AVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFELEMAAVVGPGNELGKPIDVNEAADHIF 112 (302)
Q Consensus 33 ~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~~ld~E~ELavvigk~l~~g~~v~~~eA~~~I~ 112 (302)
|.+..|++.+ +.+-+++|+.|-+.+. |.|-..|.|+++++... |+ |.
T Consensus 167 pdaEIFtKaq------pmssVG~Ga~Igv~~~--------------S~WnnPEPEvvl~~dS~---G~----------I~ 213 (379)
T COG3970 167 PDAEIFTKAQ------PMSSVGHGAQIGVRPD--------------SEWNNPEPEVVLAVDSS---GK----------IV 213 (379)
T ss_pred CChhheecCC------ccccccccceeeeccc--------------cccCCCCCeEEEEEcCC---Cc----------EE
Confidence 4454555544 7888899999987665 78999999999999877 74 89
Q ss_pred eEEEEeecchhhhhhhhhcCCCCcccccCCC--CCCCceecccccCcccCCCCCCCCCCCccccccCCceeeEEEEEEee
Q 022156 113 GVMLMNDWSARDIQAWEYVPLGPFLGKSFGT--TLSPWIVTLDALEPFACDSPKQDPQPLPYLAEKISKNYDISLEVQIK 190 (302)
Q Consensus 113 Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~--~lGP~ivt~d~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~V~~~ 190 (302)
|||++||++.||+..+. ++-..++|.... ++||+|++.|+.- .. .|.+..+++|.|..
T Consensus 214 GaTlgnDVnlRD~Egrs--aLlL~kaKdnnasCaiGPfIrlfDe~f--~~---------------~dv~~a~vtLkv~g- 273 (379)
T COG3970 214 GATLGNDVNLRDFEGRS--ALLLSKAKDNNASCAIGPFIRLFDETF--TI---------------DDVKSAEVTLKVTG- 273 (379)
T ss_pred eeeecCccccccccccc--chhcccccccCccccccceEEeecCCC--Ch---------------hhhhhceEEEEEEc-
Confidence 99999999999998754 234456777665 4999999987742 11 13455668888842
Q ss_pred cCCCCCCeEE-EecchhhhccCHHHHHHHHHHcCcccCCCCEEecCCCCCCccCCCCcEEEEEecCccceeeCCCCCCCC
Q 022156 191 PAGKEDSCVV-TRSNFKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEPESLGCLLELTWNGQKPLSLDGFTRKFL 269 (302)
Q Consensus 191 ~~~~~NGe~~-q~~~t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~Gv~~~~~Gd~le~~~~g~g~l~~~~~~~~~L 269 (302)
.+|-.. ..++++.|-.++.+++..+.-+.....-|-++++||.-.++.-+.+ .......
T Consensus 274 ----edgf~l~G~snm~~isR~p~~l~~Q~l~~~hqyPDG~~lflGTmfaP~kDr~~----------------~g~gfth 333 (379)
T COG3970 274 ----EDGFFLEGSSNMAEISRSPEELVIQALNRDHQYPDGFALFLGTMFAPGKDRGL----------------KGLGFTH 333 (379)
T ss_pred ----cCceEEeccccHHhhccCHHHHHHHHhccCCCCCCceeEEeeeeeccccccCC----------------CCCCccc
Confidence 244333 3446899999999998776678889999999999998654331111 1225678
Q ss_pred CCCCEEEEEEEecCCCceeeeeeeeeEEeeC
Q 022156 270 EDGDEVTFTGFCKGNGYTVGFGTCSGKIVPS 300 (302)
Q Consensus 270 ~~GD~V~~~~~~~~~~~~~~~G~l~~~vv~~ 300 (302)
++||+|+++.. -||+|.|.|...
T Consensus 334 ~~gD~VeIStp--------~lG~Lin~V~~~ 356 (379)
T COG3970 334 EVGDIVEISTP--------KLGTLINPVTTS 356 (379)
T ss_pred CCCCEEEEecc--------ccceeeeeeecc
Confidence 99999999976 799999999754
No 19
>PF11010 DUF2848: Protein of unknown function (DUF2848); InterPro: IPR021269 This bacterial family of proteins has no known function.
Probab=98.21 E-value=2.3e-05 Score=69.82 Aligned_cols=169 Identities=15% Similarity=0.142 Sum_probs=115.9
Q ss_pred chHHHHHHhccccCCCCCCCCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCCCceeceEEEEEecC
Q 022156 15 SSMHHAKNCGTIFRGPANAVPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFELEMAAVVGP 94 (302)
Q Consensus 15 ny~~H~~~~g~~~~~~~~~~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~~ld~E~ELavvigk 94 (302)
.-.+|+.|+.+- |.++|. ..|.+|-..++-++.. ..|.+.. ..---|+|.+++..+
T Consensus 10 av~~HI~EL~~l--GVp~Ps-----~vP~~Y~v~~~lltq~-~~i~v~g----------------~~tSGE~E~vli~~~ 65 (194)
T PF11010_consen 10 AVEHHIEELAAL--GVPPPS-----SVPLFYRVAPYLLTQA-DEIEVLG----------------EDTSGEAEPVLIRHG 65 (194)
T ss_pred HHHHHHHHHHHh--CCCCCC-----CCCEEEEechhhCccc-CeEEecc----------------CCCCceEEEEEEEEC
Confidence 346899887642 433332 3588887766666543 3444432 234458999877764
Q ss_pred CCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhhcCCCCcccccCCC-CCCCceecccccCcccCCCCCCCCCCCccc
Q 022156 95 GNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEYVPLGPFLGKSFGT-TLSPWIVTLDALEPFACDSPKQDPQPLPYL 173 (302)
Q Consensus 95 ~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~-~lGP~ivt~d~l~~~~~~~~~~~~~~~~~~ 173 (302)
. + .-++++.|=|+|++.... -..+|+... ++++-+...+++.+.|
T Consensus 66 g----~-----------~~v~vgSDHTDR~lE~~s-----Va~SKq~c~Kpva~~~W~~~dV~dhW-------------- 111 (194)
T PF11010_consen 66 G----E-----------LYVGVGSDHTDRKLEAYS-----VAVSKQACPKPVAREAWRLDDVADHW-------------- 111 (194)
T ss_pred C----e-----------EEEEecCCCccchhhhcC-----chhhhhcCCccchhhcCcHHHHHhhh--------------
Confidence 4 2 258899999999987643 345677653 6888776667776544
Q ss_pred cccCCceeeEEEEEEeecCCCCCCe--EEEecchhhhccCHHHHHHHHHH-cCcccCCCCEEecCCCCCCccCCCCcEEE
Q 022156 174 AEKISKNYDISLEVQIKPAGKEDSC--VVTRSNFKYLYWTLTQQLAHHTI-NGCNLRSGDLLGTGTISGPEPESLGCLLE 250 (302)
Q Consensus 174 ~~~~~~~~~i~l~V~~~~~~~~NGe--~~q~~~t~~mi~~~~~lia~l~s-~~~~L~~GDvI~TGTp~Gv~~~~~Gd~le 250 (302)
+.+.|+..+. .||+ ..|+|+.++|+ ++.++++.+ . ....+.+|-++++||.+-.+.+.+|+.++
T Consensus 112 -----D~l~Lrsw~~------~dg~~~lYQeGtla~ll-~p~~ll~~~-~~~~~~~~~g~~m~~GT~~~~g~~~~a~~f~ 178 (194)
T PF11010_consen 112 -----DELELRSWIT------EDGERVLYQEGTLAALL-PPADLLERL-GEGRGDLPEGTAMFCGTVPAIGGIRPADRFE 178 (194)
T ss_pred -----hheeEEEEEe------eCCCEEEEeecchhhcC-CHHHHHHhh-hccCCCCCCCEEEEEeccccccCccccceEE
Confidence 5567777653 3554 56999998875 688999887 5 56789999999999998887777777777
Q ss_pred EEec
Q 022156 251 LTWN 254 (302)
Q Consensus 251 ~~~~ 254 (302)
+++.
T Consensus 179 ~eL~ 182 (194)
T PF11010_consen 179 MELE 182 (194)
T ss_pred EEEE
Confidence 6653
No 20
>COG3802 GguC Uncharacterized protein conserved in bacteria [Function unknown]
Probab=98.13 E-value=1.9e-05 Score=72.85 Aligned_cols=178 Identities=22% Similarity=0.278 Sum_probs=112.6
Q ss_pred CCCccccccceeccCCceeeeCCCeeecCCCCCCCCCCCCCCCCCCCCceeceEEE--EEecCCCCCCCCCCHHHHhhhh
Q 022156 34 VPANWFHLPIAYHGRASSVVISGTDIVRPRGQFAPSGNSPPPFGPSQKLDFELEMA--AVVGPGNELGKPIDVNEAADHI 111 (302)
Q Consensus 34 ~~p~~f~~P~~f~k~~ss~~~~g~~i~~P~~~~~~~~~~~~~~~~~~~ld~E~ELa--vvigk~l~~g~~v~~~eA~~~I 111 (302)
..|.|| |.++-+.++.+|.++..|.+ ...---|.||+ .+||.+ |.. +-
T Consensus 139 vQPEWF-----yKG~G~~~vapGa~l~sPaF--------------AedggEEpEiaGiYlig~d---g~p--------~R 188 (333)
T COG3802 139 VQPEWF-----YKGDGTVAVAPGAPLPSPAF--------------AEDGGEEPEIAGIYLIGDD---GTP--------YR 188 (333)
T ss_pred cCcceE-----EeCCCcEEecCCCCCCChhh--------------hhccCCCceeeEEEEECCC---Cce--------eE
Confidence 355555 66788888999999998876 45566789987 567877 542 56
Q ss_pred eeEEEEeecchhhhhhhhhcCCCCcccccCCCCCCCceecccccCcccCCCCCCCCCCCccccccCCceeeEEEEEEeec
Q 022156 112 FGVMLMNDWSARDIQAWEYVPLGPFLGKSFGTTLSPWIVTLDALEPFACDSPKQDPQPLPYLAEKISKNYDISLEVQIKP 191 (302)
Q Consensus 112 ~Gy~~~nD~taRd~q~~~~~~~~~~~aK~~d~~lGP~ivt~d~l~~~~~~~~~~~~~~~~~~~~~~~~~~~i~l~V~~~~ 191 (302)
.||+++|++|+--..+..+ +-...+|--..++||-+..-+ +.. +.+...-.+
T Consensus 189 lGfal~NEfSDHvtEr~NY--L~LAHSKLR~as~GPEl~vG~-lP~-------------------~vrG~SRI~------ 240 (333)
T COG3802 189 LGFALANEFSDHVTERVNY--LYLAHSKLRNASFGPELLVGA-LPE-------------------DVRGVSRIL------ 240 (333)
T ss_pred Eeeeecchhhhhhhhccce--EEeehhhhhccccCcceeecc-Cch-------------------hhcCceeee------
Confidence 8999999999875554333 112356666668999875432 211 112222222
Q ss_pred CCCCCCeEEEecc----hhhhccCHHHHHHHHHHcCcccCCCCEEecCCCCCCccCCCCcEEEEEecCccceeeCCCCCC
Q 022156 192 AGKEDSCVVTRSN----FKYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPEPESLGCLLELTWNGQKPLSLDGFTRK 267 (302)
Q Consensus 192 ~~~~NGe~~q~~~----t~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~Gv~~~~~Gd~le~~~~g~g~l~~~~~~~~ 267 (302)
.+|++.-+-. -++|-.+++.+=.++-....-.+||||=. -+=|..+++|. ...
T Consensus 241 ---Rdg~viwek~FlSGE~nMsHs~aNLEhhHFkY~lfrrpGDvHv------------------h~FGtatlSfa--dGi 297 (333)
T COG3802 241 ---RDGEVIWEKPFLSGEANMSHSIANLEHHHFKYALFRRPGDVHV------------------HFFGTATLSFA--DGI 297 (333)
T ss_pred ---cCCEEEEecccccCccchhhhhhhhhhhhhhhhhhcCCCceEE------------------EEeccEEEeec--ccc
Confidence 3888875542 37899999887666545556778998631 11122333331 123
Q ss_pred CCCCCCEEEEEEEecCCCceeeee-eeeeEEeeC
Q 022156 268 FLEDGDEVTFTGFCKGNGYTVGFG-TCSGKIVPS 300 (302)
Q Consensus 268 ~L~~GD~V~~~~~~~~~~~~~~~G-~l~~~vv~~ 300 (302)
--++||+-+++.. .|| .|+|++..+
T Consensus 298 kte~GDvfEIea~--------~Fg~PlrN~la~~ 323 (333)
T COG3802 298 KTEAGDVFEIEAA--------PFGLPLRNPLAIA 323 (333)
T ss_pred cCCCCCEEEEecc--------ccCCcccCccccC
Confidence 3478998888755 677 478877554
No 21
>PRK11342 mhpD 2-keto-4-pentenoate hydratase; Provisional
Probab=86.05 E-value=1.1 Score=41.85 Aligned_cols=56 Identities=16% Similarity=0.151 Sum_probs=40.3
Q ss_pred CCCEEecCCCCCCc-------------------cCCCCcEEEEEecCccceeeCCCCCCCCCCCCEEEEEEEecCCCcee
Q 022156 228 SGDLLGTGTISGPE-------------------PESLGCLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTV 288 (302)
Q Consensus 228 ~GDvI~TGTp~Gv~-------------------~~~~Gd~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~~~~~~~~~ 288 (302)
-|.++-+|+-..+. .+++||.+-. |++ .+..++++||+|++++.
T Consensus 188 ng~~~q~g~~~~~lg~p~~~l~~L~~~l~~~g~~L~aGdvV~T-----Gt~----~~~~~l~~Gd~v~~~i~-------- 250 (262)
T PRK11342 188 NNEEVSSGRGSECLGHPLNAAVWLARKMASLGEPLRAGDIILT-----GAL----GPMVAVNAGDRFEAHIE-------- 250 (262)
T ss_pred CCEEEEEEcHHHhccCHHHHHHHHHHHHHHcCCCcCCCCEEEc-----CCC----CCCeeCCCCCEEEEEEC--------
Confidence 35677777754432 4778887653 121 24689999999999976
Q ss_pred eeeeeeeEEeeC
Q 022156 289 GFGTCSGKIVPS 300 (302)
Q Consensus 289 ~~G~l~~~vv~~ 300 (302)
|+|++++++..+
T Consensus 251 glG~v~~~~~~~ 262 (262)
T PRK11342 251 GIGSVAATFSSA 262 (262)
T ss_pred CCceEEEEEecC
Confidence 999999998653
No 22
>PRK10691 hypothetical protein; Provisional
Probab=84.64 E-value=1.4 Score=40.07 Aligned_cols=13 Identities=38% Similarity=0.317 Sum_probs=10.3
Q ss_pred CCCCCCCEEEEEEE
Q 022156 267 KFLEDGDEVTFTGF 280 (302)
Q Consensus 267 ~~L~~GD~V~~~~~ 280 (302)
..|++||.|.. ++
T Consensus 180 ~tL~aGDvI~T-GT 192 (219)
T PRK10691 180 FTLRAGDVVLT-GT 192 (219)
T ss_pred CccCCCCEEEc-CC
Confidence 58999999974 44
No 23
>cd05790 S1_Rrp40 S1_Rrp40: Rrp40 S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein is a subunit of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=70.37 E-value=13 Score=29.05 Aligned_cols=30 Identities=33% Similarity=0.433 Sum_probs=19.6
Q ss_pred CCCCCCCCCCEEEEEEE-----------e-cCCCceeeeeee
Q 022156 264 FTRKFLEDGDEVTFTGF-----------C-KGNGYTVGFGTC 293 (302)
Q Consensus 264 ~~~~~L~~GD~V~~~~~-----------~-~~~~~~~~~G~l 293 (302)
+.+++|+.||.|-.++. | +..|++.|||.|
T Consensus 45 ~~rp~L~~GDlV~ArV~~~~~~~~~eLtc~~~~~k~~g~G~L 86 (86)
T cd05790 45 RNRPNLNVGDLVYARVVKANRDMEPELSCVDSSGKADGFGPL 86 (86)
T ss_pred cccccCCCCCEEEEEEEecCCCCCeEEEEeCCCCcccccccC
Confidence 45788999998876642 3 245566666654
No 24
>TIGR03220 catechol_dmpE 2-oxopent-4-enoate hydratase. Members of this protein family are 2-oxopent-4-enoate hydratase, which is also called 2-hydroxypent-2,4-dienoate hydratase. It is closely related to another gene found in the same operon, 4-oxalocrotonate decarboxylase, with which it interacts closely.
Probab=61.82 E-value=9.2 Score=35.46 Aligned_cols=35 Identities=20% Similarity=0.262 Sum_probs=25.2
Q ss_pred CCCCcEEEE-EecCccceeeCCCCCCCCCCCCEEEEEEEecCCCceeeeeeeee
Q 022156 243 ESLGCLLEL-TWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSG 295 (302)
Q Consensus 243 ~~~Gd~le~-~~~g~g~l~~~~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~ 295 (302)
+++||.+.. ++. ...+++|||+|++++. |+|+++=
T Consensus 218 L~aGdiV~TGt~~----------g~~~v~~Gd~v~~~~~--------glG~v~~ 253 (255)
T TIGR03220 218 LKAGEVILSGSLA----------ALVPVKAGDNLRVSIG--------GIGSCSV 253 (255)
T ss_pred CCCCCEEECCCCC----------CCeeCCCCCEEEEEEc--------CCceEEE
Confidence 677886643 222 2456999999999976 8998863
No 25
>PRK06488 sulfur carrier protein ThiS; Validated
Probab=60.32 E-value=38 Score=24.35 Aligned_cols=15 Identities=20% Similarity=0.383 Sum_probs=12.0
Q ss_pred CCCCCCCCCCEEEEE
Q 022156 264 FTRKFLEDGDEVTFT 278 (302)
Q Consensus 264 ~~~~~L~~GD~V~~~ 278 (302)
.....|++||+|++=
T Consensus 45 ~~~~~L~dgD~Ieiv 59 (65)
T PRK06488 45 RAQFVLHEGDRIEIL 59 (65)
T ss_pred cCccccCCCCEEEEE
Confidence 346789999999973
No 26
>KOG1535 consensus Predicted fumarylacetoacetate hydralase [General function prediction only]
Probab=47.08 E-value=20 Score=32.58 Aligned_cols=39 Identities=15% Similarity=0.092 Sum_probs=29.0
Q ss_pred CCCCcEEE-EEecCccceeeCCCCCCCCCCCCEEEEEEEecCCCceeeeeeeeeEEee
Q 022156 243 ESLGCLLE-LTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIVP 299 (302)
Q Consensus 243 ~~~Gd~le-~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~~vv~ 299 (302)
+.+||.+- .+=+|.|. +++||+|+.++. +++.+.++|+.
T Consensus 177 L~~GDvILTGTP~GVg~----------v~~Gd~i~~ei~--------~l~~~~f~V~~ 216 (217)
T KOG1535|consen 177 LEPGDVILTGTPEGVGE----------VKPGDVIQCELL--------ELSDVCFKVEA 216 (217)
T ss_pred ecCCCEEEecCCCcccc----------ccCCCEEEeccc--------cccceeEEEec
Confidence 66788653 44455543 469999999987 89999999864
No 27
>PRK12442 translation initiation factor IF-1; Reviewed
Probab=44.13 E-value=37 Score=26.72 Aligned_cols=17 Identities=29% Similarity=0.155 Sum_probs=14.2
Q ss_pred CCCCCCCCCCEEEEEEE
Q 022156 264 FTRKFLEDGDEVTFTGF 280 (302)
Q Consensus 264 ~~~~~L~~GD~V~~~~~ 280 (302)
....|+.+||.|.+|.+
T Consensus 42 ~~rIrIl~GD~V~VE~s 58 (87)
T PRK12442 42 KHRIRILAGDRVTLELS 58 (87)
T ss_pred eeeEEecCCCEEEEEEC
Confidence 34789999999999966
No 28
>TIGR00008 infA translation initiation factor IF-1. This family consists of translation initiation factor IF-1 as found in bacteria and chloroplasts. This protein, about 70 residues in length, consists largely of an S1 RNA binding domain (pfam00575).
Probab=42.87 E-value=42 Score=25.17 Aligned_cols=17 Identities=18% Similarity=0.047 Sum_probs=14.6
Q ss_pred CCCCCCCCCCEEEEEEE
Q 022156 264 FTRKFLEDGDEVTFTGF 280 (302)
Q Consensus 264 ~~~~~L~~GD~V~~~~~ 280 (302)
....|+.+||.|.+|.+
T Consensus 40 ~~rI~I~~GD~V~Ve~s 56 (68)
T TIGR00008 40 MHYIRILPGDKVKVELS 56 (68)
T ss_pred hccEEECCCCEEEEEEC
Confidence 45889999999999965
No 29
>smart00652 eIF1a eukaryotic translation initiation factor 1A.
Probab=41.65 E-value=47 Score=25.67 Aligned_cols=17 Identities=18% Similarity=0.339 Sum_probs=14.5
Q ss_pred CCCCCCCCCCEEEEEEE
Q 022156 264 FTRKFLEDGDEVTFTGF 280 (302)
Q Consensus 264 ~~~~~L~~GD~V~~~~~ 280 (302)
....|++.||.|.++.+
T Consensus 39 Rk~iwI~~GD~VlVe~~ 55 (83)
T smart00652 39 RKKVWIRRGDIVLVDPW 55 (83)
T ss_pred cccEEEcCCCEEEEEec
Confidence 35899999999999855
No 30
>COG1096 Predicted RNA-binding protein (consists of S1 domain and a Zn-ribbon domain) [Translation, ribosomal structure and biogenesis]
Probab=40.40 E-value=94 Score=27.90 Aligned_cols=56 Identities=18% Similarity=0.045 Sum_probs=37.9
Q ss_pred ccCCCCEEecCCC--CCCccCCCCcEEEEEecCccceee--------CCCC-CCCCCCCCEEEEEEE
Q 022156 225 NLRSGDLLGTGTI--SGPEPESLGCLLELTWNGQKPLSL--------DGFT-RKFLEDGDEVTFTGF 280 (302)
Q Consensus 225 ~L~~GDvI~TGTp--~Gv~~~~~Gd~le~~~~g~g~l~~--------~~~~-~~~L~~GD~V~~~~~ 280 (302)
-..|||+|.+.-. .|-+-...|..+.+...|.-..+. ...+ +..+|+||.|--.+.
T Consensus 7 ~v~PGd~~a~~EE~~~G~gt~~~~g~i~Aa~~G~~~~d~~n~~~~V~p~~~~~~~~K~GdiV~grV~ 73 (188)
T COG1096 7 FVLPGDVLAVIEEFLPGEGTYEEGGEIRAAATGVVRRDDKNRVISVKPGKKTPPLPKGGDIVYGRVT 73 (188)
T ss_pred EEcCcceeeeeeeeecCCCeEeECCEEEEeecccEEEcccceEEEeccCCCCCCCCCCCCEEEEEEe
Confidence 3568999988877 555555556677776666544422 3334 889999999987754
No 31
>COG0361 InfA Translation initiation factor 1 (IF-1) [Translation, ribosomal structure and biogenesis]
Probab=38.35 E-value=39 Score=25.86 Aligned_cols=17 Identities=24% Similarity=0.006 Sum_probs=14.4
Q ss_pred CCCCCCCCCCEEEEEEE
Q 022156 264 FTRKFLEDGDEVTFTGF 280 (302)
Q Consensus 264 ~~~~~L~~GD~V~~~~~ 280 (302)
....|+.|||.|.++.+
T Consensus 42 ~~~i~I~~GD~V~Ve~~ 58 (75)
T COG0361 42 KNRIRILPGDVVLVELS 58 (75)
T ss_pred heeEEeCCCCEEEEEec
Confidence 34789999999999965
No 32
>PF03143 GTP_EFTU_D3: Elongation factor Tu C-terminal domain; InterPro: IPR004160 Translation elongation factors are responsible for two main processes during protein synthesis on the ribosome [, , ]. EF1A (or EF-Tu) is responsible for the selection and binding of the cognate aminoacyl-tRNA to the A-site (acceptor site) of the ribosome. EF2 (or EF-G) is responsible for the translocation of the peptidyl-tRNA from the A-site to the P-site (peptidyl-tRNA site) of the ribosome, thereby freeing the A-site for the next aminoacyl-tRNA to bind. Elongation factors are responsible for achieving accuracy of translation and both EF1A and EF2 are remarkably conserved throughout evolution. EF1A (also known as EF-1alpha or EF-Tu) is a G-protein. It forms a ternary complex of EF1A-GTP-aminoacyltRNA. The binding of aminoacyl-tRNA stimulates GTP hydrolysis by EF1A, causing a conformational change in EF1A that causes EF1A-GDP to detach from the ribosome, leaving the aminoacyl-tRNA attached at the A-site. Only the cognate aminoacyl-tRNA can induce the required conformational change in EF1A through its tight anticodon-codon binding [, ]. EF1A-GDP is returned to its active state, EF1A-GTP, through the action of another elongation factor, EF1B (also known as EF-Ts or EF-1beta/gamma/delta). EF1A consists of three structural domains. This entry represents the C-terminal domain, which adopts a beta-barrel structure, and is involved in binding to both charged tRNA and to EF1B (or EF-Ts, IPR001816 from INTERPRO) []. More information about these proteins can be found at Protein of the Month: Elongation Factors [].; GO: 0005525 GTP binding; PDB: 1TUI_C 1OB5_E 1TTT_B 1B23_P 1EFT_A 3E20_E 1R5B_A 1R5O_A 1R5N_A 3AGJ_C ....
Probab=38.29 E-value=46 Score=26.02 Aligned_cols=45 Identities=13% Similarity=0.048 Sum_probs=30.4
Q ss_pred CccCCCCcEEEEEecCccceeeCCCCCCCCCCCCEEEEEEEecCCCceeeeeeeeeE
Q 022156 240 PEPESLGCLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGK 296 (302)
Q Consensus 240 v~~~~~Gd~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~~ 296 (302)
+..+.+||...+++. .+.+.++++++++. +.++|+++|.|.+.+-
T Consensus 54 p~~l~~g~~a~v~l~--------~~~pi~ve~~~Rf~----lR~~~~Tia~G~V~~v 98 (99)
T PF03143_consen 54 PKFLKPGDRAVVELE--------FQKPICVEPFSRFI----LRDGGKTIAVGVVTKV 98 (99)
T ss_dssp -SEB-TTEEEEEEEE--------EEEEEEETTTTEEE----EEETTEEEEEEEEEEE
T ss_pred cccccccccccccee--------eccceeeecCceEE----EccCCeEEEEEEEEEe
Confidence 456788988777653 22367788888444 4567889999988763
No 33
>KOG1004 consensus Exosomal 3'-5' exoribonuclease complex subunit Rrp40 [Translation, ribosomal structure and biogenesis]
Probab=33.84 E-value=75 Score=29.19 Aligned_cols=71 Identities=23% Similarity=0.301 Sum_probs=44.4
Q ss_pred HcCcccCCCCEEecCCCCCCccCCCCcEEEEEecCccc-----eee---CCCCCCCCCCCCEEEEEE-----------Ee
Q 022156 221 INGCNLRSGDLLGTGTISGPEPESLGCLLELTWNGQKP-----LSL---DGFTRKFLEDGDEVTFTG-----------FC 281 (302)
Q Consensus 221 s~~~~L~~GDvI~TGTp~Gv~~~~~Gd~le~~~~g~g~-----l~~---~~~~~~~L~~GD~V~~~~-----------~~ 281 (302)
+...-=..||.|. |..-...||...+.++|-.. +.| ...+++-||.||.|-..+ +|
T Consensus 58 ~kRYiP~~~D~VI-----GiV~~~~gd~ykVDigg~~~a~L~~laFe~AtkrNrPnl~vGdliyakv~~a~~~~Epel~C 132 (230)
T KOG1004|consen 58 QKRYIPVKGDHVI-----GIVTSKSGDIYKVDIGGSEPASLSYLAFEGATKRNRPNLQVGDLIYAKVVDANKDMEPELTC 132 (230)
T ss_pred cceecCCCCCEEE-----EEEEeccCceEEEecCCCCeeeeeeccccCccccCCCccccccEEEEEEEecCCCcCcceEE
Confidence 3344456777664 33333457777777776222 233 245788899999885543 24
Q ss_pred cCC-CceeeeeeeeeE
Q 022156 282 KGN-GYTVGFGTCSGK 296 (302)
Q Consensus 282 ~~~-~~~~~~G~l~~~ 296 (302)
-++ |+..|||.|..-
T Consensus 133 ids~graaGfG~LkdG 148 (230)
T KOG1004|consen 133 IDSTGRAAGFGVLKDG 148 (230)
T ss_pred EcccCcccCcccccCc
Confidence 333 999999999843
No 34
>PF01176 eIF-1a: Translation initiation factor 1A / IF-1; InterPro: IPR006196 The S1 domain of around 70 amino acids, originally identified in ribosomal protein S1, is found in a large number of RNA-associated proteins. It has been shown that S1 proteins bind RNA through their S1 domains with some degree of sequence specificity. This type of S1 domain is found in translation initiation factor 1. The solution structure of one S1 RNA-binding domain from Escherichia coli polynucleotide phosphorylase has been determined []. It displays some similarity with the cold shock domain (CSD) (IPR002059 from INTERPRO). Both the S1 and the CSD domain consist of an antiparallel beta barrel of the same topology with 5 beta strands. This fold is also shared by many other proteins of unrelated function and is known as the OB fold. However, the S1 and CSD fold can be distinguished from the other OB folds by the presence of a short 3(10) helix at the end of strand 3. This unique feature is likely to form a part of the DNA/RNA-binding site. This entry is specific for bacterial, chloroplastic and eukaryotic IF-1 type S1 domains.; GO: 0003723 RNA binding, 0003743 translation initiation factor activity, 0006413 translational initiation; PDB: 1JT8_A 3I4O_A 1AH9_A 1ZO1_W 1D7Q_A 2OQK_A 2DGY_A 1HR0_W.
Probab=32.69 E-value=29 Score=25.31 Aligned_cols=18 Identities=22% Similarity=0.126 Sum_probs=12.2
Q ss_pred CCCCCCCCCCCEEEEEEE
Q 022156 263 GFTRKFLEDGDEVTFTGF 280 (302)
Q Consensus 263 ~~~~~~L~~GD~V~~~~~ 280 (302)
+....|+++||.|.++.+
T Consensus 36 ~r~~iwI~~GD~V~V~~~ 53 (65)
T PF01176_consen 36 FRKRIWIKRGDFVLVEPS 53 (65)
T ss_dssp HHTCC---TTEEEEEEES
T ss_pred eeeeEecCCCCEEEEEec
Confidence 346899999999999864
No 35
>TIGR03218 catechol_dmpH 4-oxalocrotonate decarboxylase. Members of this protein family are 4-oxalocrotonate decarboxylase. Note that this protein, as characterized (indirectly) in Pseudomonas sp. strain CF600, was inactive except when coexpressed with DmpE, 2-oxopent-4-enoate hydratase, a homologous protein from the same operon. Both of these enzymes are active in the degradation of catechol, a common intermediate in the degradation of aromatic compounds such as benzoate, toluene, phenol, dimethylphenol (dmp), salicylate, etc.
Probab=32.08 E-value=74 Score=29.63 Aligned_cols=58 Identities=19% Similarity=0.192 Sum_probs=38.5
Q ss_pred HcCcccCC-CCEEecCCCCCCc-------------------cCCCCcEEEEEecCccceeeCCCCCCCCCCCCEEEEEEE
Q 022156 221 INGCNLRS-GDLLGTGTISGPE-------------------PESLGCLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGF 280 (302)
Q Consensus 221 s~~~~L~~-GDvI~TGTp~Gv~-------------------~~~~Gd~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~ 280 (302)
+..++|.- |.+|.+|+-..+. .+++|+.|.. |+ -....++++||+|++++.
T Consensus 184 ~~~~~l~~~g~~v~~g~g~~~lG~P~~al~wL~~~l~~~G~~L~aG~iV~t-----Gs----~t~~~~v~~G~~~~~~~~ 254 (263)
T TIGR03218 184 TLGVVMEKNGEVVAMGAGAAVLGHPAAAVAMLANHLAERGEEIPAGSFIMS-----GG----ITEAVAVAPGDSVTVRYQ 254 (263)
T ss_pred hCcEEEEECCEEEEeecccccCCCHHHHHHHHHHHHHHcCCCCCCCCEEEC-----Cc----CcCceecCCCCEEEEEEC
Confidence 33455544 6688888865541 3677876643 11 134688999999999855
Q ss_pred ecCCCceeeeeeeee
Q 022156 281 CKGNGYTVGFGTCSG 295 (302)
Q Consensus 281 ~~~~~~~~~~G~l~~ 295 (302)
|||+++=
T Consensus 255 --------glG~v~~ 261 (263)
T TIGR03218 255 --------GLGSVSM 261 (263)
T ss_pred --------CCceEEE
Confidence 8998763
No 36
>cd05793 S1_IF1A S1_IF1A: Translation initiation factor IF1A, also referred to as eIF1A in eukaryotes and aIF1A in archaea, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=31.60 E-value=75 Score=24.17 Aligned_cols=16 Identities=25% Similarity=0.553 Sum_probs=14.0
Q ss_pred CCCCCCCCCEEEEEEE
Q 022156 265 TRKFLEDGDEVTFTGF 280 (302)
Q Consensus 265 ~~~~L~~GD~V~~~~~ 280 (302)
...|+++||.|.++.+
T Consensus 35 k~iwI~~GD~V~Ve~~ 50 (77)
T cd05793 35 KRVWINEGDIVLVAPW 50 (77)
T ss_pred ccEEEcCCCEEEEEec
Confidence 4799999999999855
No 37
>PF11604 CusF_Ec: Copper binding periplasmic protein CusF; InterPro: IPR021647 CusF is a periplasmic protein involved in copper and silver resistance in Escherichia coil. CusF forms a five-stranded beta-barrel OB fold. Cu(I) binds to H36, M47 and M49 which are conserved residues in the protein []. ; PDB: 2L55_A 2VB3_X 1ZEQ_X 2QCP_X 3E6Z_X 2VB2_X.
Probab=31.13 E-value=58 Score=24.11 Aligned_cols=21 Identities=33% Similarity=0.313 Sum_probs=15.2
Q ss_pred CCCCCCCCCEEEEEEEecCCC
Q 022156 265 TRKFLEDGDEVTFTGFCKGNG 285 (302)
Q Consensus 265 ~~~~L~~GD~V~~~~~~~~~~ 285 (302)
...-|++||.|+++....++|
T Consensus 39 ~l~~l~~Gd~V~F~~~~~~~~ 59 (70)
T PF11604_consen 39 DLAGLKPGDKVRFTFERTDDG 59 (70)
T ss_dssp EESS-STT-EEEEEEEEETTC
T ss_pred hhhcCCCCCEEEEEEEECCCC
Confidence 457799999999998766666
No 38
>PF01557 FAA_hydrolase: Fumarylacetoacetate (FAA) hydrolase family Mutations in Swiss:P16930 cause inherited tyrosinemia type I.; InterPro: IPR002529 Fumarylacetoacetase (3.7.1.2 from EC; also known as fumarylacetoacetate hydrolase or FAH) catalyses the hydrolytic cleavage of a carbon-carbon bond in fumarylacetoacetate to yield fumarate and acetoacetate as the final step in phenylalanine and tyrosine degradation []. This is an essential metabolic function in humans, the lack of FAH causing type I tyrosinaemia, which is associated with liver and kidney abnormalities and neurological disorders [, ]. The enzyme mechanism involves a catalytic metal ion, a Glu/His catalytic dyad, and a charged oxyanion hole []. FAH folds into two domains: an N-terminal domain SH3-like beta-barrel, and a C-terminal with an unusual fold consisting of three layers of beta-sheet structures []. This entry represents the C-terminal domain of fumarylacetoacetase, as well as other domains that share a homologous sequence, including: 5-carboxymethyl-2-hydroxymuconate delta-isomerase (CHM isomerase; 5.3.3.10 from EC), which catalyses the conversion of 5-carboxymethyl-2-hydroxymuconate to 5-carboxy-2-oxohept-3-enedioate []. 5-oxopent-3-ene-1,2,5-tricarboxylate decarboxylase (OPET decarboxylase; 4.1.1.68 from EC), which catalyses the conversion of 5-oxopent-3-ene-1,2,5-tricarboxylate to 2-oxohept-3-enedioate and carbon dioxide. Bifunctional enzyme HpcE (OPET decarboxylase 4.1.1.68 from EC/HHDD isomerase 5.3.3.10 from EC), which is a duplication consisting of a tandem repeat of two FAH C-terminal-like domains. This enzyme is responsible for the degradation of 4-hydroxyphenylacetate, a product of tyrosine and phenylalanine metabolism also released by lignin catabolism []. ; GO: 0003824 catalytic activity, 0008152 metabolic process; PDB: 1SAW_B 3LZK_B 3S52_B 2WQT_Q 1SV6_C 2DFU_B 1WZO_D 3QDF_A 1GTT_B 1I7O_C ....
Probab=31.12 E-value=35 Score=30.40 Aligned_cols=24 Identities=25% Similarity=0.239 Sum_probs=19.1
Q ss_pred CCCccCCCCcEEEEEe-cCccceee
Q 022156 238 SGPEPESLGCLLELTW-NGQKPLSL 261 (302)
Q Consensus 238 ~Gv~~~~~Gd~le~~~-~g~g~l~~ 261 (302)
....++++||++++++ +|+|+++.
T Consensus 191 ~~~~~l~~Gd~v~~~~~~glG~l~~ 215 (218)
T PF01557_consen 191 PPPVPLQPGDRVEAEIDEGLGSLEN 215 (218)
T ss_dssp SCCEEEBTT-EEEEEEETTTEEEEE
T ss_pred cccccCCCCcEEEEEEECCEeEEEE
Confidence 4556789999999999 99999863
No 39
>PF09356 Phage_BR0599: Phage conserved hypothetical protein BR0599; InterPro: IPR018964 This entry describes the C-terminal region of a family of proteins found almost exclusively in phage or in prophage regions of bacterial genomes, including the phage-like Rhodobacter capsulatus (Rhodopseudomonas capsulata) gene transfer agent, which packages DNA. An apparent exception is Wolbachia pipientis wMel, a bacterial endosymbiont of the fruit fly, which has several candidate phage-related genes physically separate from obvious prophage regions.
Probab=29.11 E-value=63 Score=24.71 Aligned_cols=46 Identities=30% Similarity=0.283 Sum_probs=30.3
Q ss_pred CcEEEEEecCccceeeCCCCCCCCCCCCEEEEEEEecCCCceeeeeeeeeE
Q 022156 246 GCLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGK 296 (302)
Q Consensus 246 Gd~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~~ 296 (302)
|...++.-..-..+++-...+..+..||.|++..=|+. .+-+|++|
T Consensus 18 g~~~~I~~h~~~~l~L~~p~~~~~~~G~~v~l~~GCDk-----t~~tC~~k 63 (80)
T PF09356_consen 18 GERREIKSHEGGTLTLWRPLPAGLAVGDTVTLYPGCDK-----TFATCRAK 63 (80)
T ss_pred CCEEEEEEccCCEEEEeccCcccCCCCCEEEEEeCCCC-----CHHHHHHH
Confidence 44555544444555555555668999999999877775 56777554
No 40
>cd03701 IF2_IF5B_II IF2_IF5B_II: This family represents the domain II of prokaryotic Initiation Factor 2 (IF2) and its archeal and eukaryotic homologue aeIF5B. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Disruption of the eIF5B gene (FUN12) in yeast causes a severe slow-growth phenotype, associated with a defect in translation. eIF5B has a function analogous to prokaryotic IF2 in mediating the joining of the 60S ribosomal subunit. The eIF5B consists of three N-terminal domains (I, II, II) connected by a long helix to domain IV. Domain I is a G domain, domain II and IV are beta-barrels and domain III has a novel alpha-beta-alpha sandwich fold. The G domain and the beta-barrel domain II display a similar structure and arrangement to the homologous domains in EF1A, eEF1A and aeIF2gamma.
Probab=28.66 E-value=91 Score=24.43 Aligned_cols=19 Identities=26% Similarity=0.503 Sum_probs=16.1
Q ss_pred cCcccCCCCEEecCCCCCC
Q 022156 222 NGCNLRSGDLLGTGTISGP 240 (302)
Q Consensus 222 ~~~~L~~GDvI~TGTp~Gv 240 (302)
+.-+|+.||.|.+|+-.|.
T Consensus 23 ~~GtL~~Gd~iv~G~~~Gk 41 (95)
T cd03701 23 QNGTLKKGDVIVAGGTYGK 41 (95)
T ss_pred EcCeEecCCEEEECCccce
Confidence 4468999999999998774
No 41
>cd04454 S1_Rrp4_like S1_Rrp4_like: Rrp4-like, S1-like RNA-binding domain. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. Rrp4 protein, and Rrp40 and Csl4 proteins, also represented in this group, are subunits of the exosome complex. The exosome plays a central role in 3' to 5' RNA processing and degradation in eukarytes and archaea. Its functions include the removal of incorrectly processed RNA and the maintenance of proper levels of mRNA, rRNA and a number of small RNA species. In Saccharomyces cerevisiae, the exosome includes nine core components, six of which are homologous to bacterial RNase PH. These form a hexameric ring structure. The other three subunits (RrP4, Rrp40, and Csl4) contain an S1 RNA binding domain and are part of the "S1 pore structure".
Probab=28.36 E-value=35 Score=25.41 Aligned_cols=51 Identities=18% Similarity=0.178 Sum_probs=28.6
Q ss_pred ccCCCCEEecCCCCCCccCCCCcEEEEEecCc--cceee-------CCCCCCCCCCCCEEEEEEE
Q 022156 225 NLRSGDLLGTGTISGPEPESLGCLLELTWNGQ--KPLSL-------DGFTRKFLEDGDEVTFTGF 280 (302)
Q Consensus 225 ~L~~GDvI~TGTp~Gv~~~~~Gd~le~~~~g~--g~l~~-------~~~~~~~L~~GD~V~~~~~ 280 (302)
..+.||+| +|+...+.. +.+.+.+.+. +.+.. ..+...++++||.|.+.+.
T Consensus 3 ~p~~GdiV-~G~V~~v~~----~~~~V~i~~~~~g~l~~~~~~~~~~~~~~~~~~~GD~i~~~V~ 62 (82)
T cd04454 3 LPDVGDIV-IGIVTEVNS----RFWKVDILSRGTARLEDSSATEKDKKEIRKSLQPGDLILAKVI 62 (82)
T ss_pred CCCCCCEE-EEEEEEEcC----CEEEEEeCCCceEEeechhccCcchHHHHhcCCCCCEEEEEEE
Confidence 34788887 777765532 2333333211 11211 1123577899999999875
No 42
>cd04456 S1_IF1A_like S1_IF1A_like: Translation initiation factor IF1A-like, S1-like RNA-binding domain. IF1A is also referred to as eIF1A in eukaryotes and aIF1A in archaea. S1-like RNA-binding domains are found in a wide variety of RNA-associated proteins. IF1A is essential for translation initiation. eIF1A acts synergistically with eIF1 to mediate assembly of ribosomal initiation complexes at the initiation codon and maintain the accuracy of this process by recognizing and destabilizing aberrant preinitiation complexes from the mRNA. Without eIF1A and eIF1, 43S ribosomal preinitiation complexes can bind to the cap-proximal region, but are unable to reach the initiation codon. eIF1a also enhances the formation of 5'-terminal complexes in the presence of other translation initiation factors. This protein family is only found in eukaryotes and archaea.
Probab=27.76 E-value=1.1e+02 Score=23.27 Aligned_cols=16 Identities=13% Similarity=0.287 Sum_probs=13.8
Q ss_pred CCCCCCCCCEEEEEEE
Q 022156 265 TRKFLEDGDEVTFTGF 280 (302)
Q Consensus 265 ~~~~L~~GD~V~~~~~ 280 (302)
...|+++||.|.++..
T Consensus 35 k~iwI~~GD~VlV~~~ 50 (78)
T cd04456 35 KNIWIKRGDFLIVDPI 50 (78)
T ss_pred cCEEEcCCCEEEEEec
Confidence 4699999999999854
No 43
>COG2049 DUR1 Allophanate hydrolase subunit 1 [Amino acid transport and metabolism]
Probab=27.75 E-value=95 Score=28.60 Aligned_cols=56 Identities=29% Similarity=0.404 Sum_probs=38.8
Q ss_pred HcCcccCCCCEEecCCCCCCccC-CCCcEEEEEecCccceee---CCCCCCCCCCCCEEEEEE
Q 022156 221 INGCNLRSGDLLGTGTISGPEPE-SLGCLLELTWNGQKPLSL---DGFTRKFLEDGDEVTFTG 279 (302)
Q Consensus 221 s~~~~L~~GDvI~TGTp~Gv~~~-~~Gd~le~~~~g~g~l~~---~~~~~~~L~~GD~V~~~~ 279 (302)
+......+|.|-.-|--+|+.+. .||.-=-+ |..++.+ .+.++..|++||.|+...
T Consensus 151 ~PR~~iPaGSVgIag~qtgIYp~~sPGGWqlI---GrTp~~lfdp~~~~p~ll~~Gd~VrF~~ 210 (223)
T COG2049 151 EPRTSIPAGSVGIAGAQTGIYPSASPGGWQLI---GRTPLPLFDPDREPPALLRPGDQVRFVP 210 (223)
T ss_pred CCccccCCCceEEcCceeEEeccCCCCceeEe---ccccccccCCCCCCCeeccCCCEEEEEe
Confidence 34456888888888888888775 46653222 2223333 678899999999999864
No 44
>KOG1379 consensus Serine/threonine protein phosphatase [Signal transduction mechanisms]
Probab=27.38 E-value=39 Score=32.80 Aligned_cols=42 Identities=24% Similarity=0.319 Sum_probs=29.8
Q ss_pred CCeEEEecchhhhccCHHHHHHHH--------H-------HcCcccCCCCEEecCCC
Q 022156 196 DSCVVTRSNFKYLYWTLTQQLAHH--------T-------INGCNLRSGDLLGTGTI 237 (302)
Q Consensus 196 NGe~~q~~~t~~mi~~~~~lia~l--------~-------s~~~~L~~GDvI~TGTp 237 (302)
||++++++.-..-.|+.+--|+-- . ...+.|+.||||+.+|=
T Consensus 198 ~G~vv~~S~~Q~H~FN~PyQLs~~p~~~~~~~~d~p~~ad~~~~~v~~GDvIilATD 254 (330)
T KOG1379|consen 198 EGKVVFRSPEQQHYFNTPYQLSSPPEGYSSYISDVPDSADVTSFDVQKGDVIILATD 254 (330)
T ss_pred CCEEEEcCchheeccCCceeeccCCccccccccCCccccceEEEeccCCCEEEEecc
Confidence 999999998777766644332211 0 23468999999999997
No 45
>PF11305 DUF3107: Protein of unknown function (DUF3107); InterPro: IPR021456 Some members in this family of proteins are annotated as ATP-binding proteins however this cannot be confirmed. Currently no function is known.
Probab=27.04 E-value=50 Score=25.19 Aligned_cols=28 Identities=25% Similarity=0.328 Sum_probs=21.4
Q ss_pred CCCCCCCCCCEEEEEEEec-CCCceeeeee
Q 022156 264 FTRKFLEDGDEVTFTGFCK-GNGYTVGFGT 292 (302)
Q Consensus 264 ~~~~~L~~GD~V~~~~~~~-~~~~~~~~G~ 292 (302)
+-+++|-|++.+-. ++++ ++.++||||+
T Consensus 46 kGr~~lVp~~~iaY-VeiG~~~~r~VGF~~ 74 (74)
T PF11305_consen 46 KGRRVLVPAASIAY-VEIGSEEKRRVGFGT 74 (74)
T ss_pred CCCEEEEECCcEEE-EEEcCCCCCccCCCC
Confidence 44788899998876 3455 7888999985
No 46
>PRK04012 translation initiation factor IF-1A; Provisional
Probab=26.94 E-value=99 Score=24.84 Aligned_cols=16 Identities=25% Similarity=0.580 Sum_probs=14.0
Q ss_pred CCCCCCCCCEEEEEEE
Q 022156 265 TRKFLEDGDEVTFTGF 280 (302)
Q Consensus 265 ~~~~L~~GD~V~~~~~ 280 (302)
...|+++||.|.++.+
T Consensus 56 k~IwI~~GD~VlVe~~ 71 (100)
T PRK04012 56 KRMWIREGDVVIVAPW 71 (100)
T ss_pred ccEEecCCCEEEEEec
Confidence 4899999999999865
No 47
>KOG0666 consensus Cyclin C-dependent kinase CDK8 [Transcription]
Probab=24.65 E-value=70 Score=31.52 Aligned_cols=74 Identities=19% Similarity=0.122 Sum_probs=51.2
Q ss_pred EecchhhhccCHHHHHHHHHHcC---cccCCCCEEecCCCCCCccCCCCcEEEEEecCccceeeCCCCCCCCCCCCEEEE
Q 022156 201 TRSNFKYLYWTLTQQLAHHTING---CNLRSGDLLGTGTISGPEPESLGCLLELTWNGQKPLSLDGFTRKFLEDGDEVTF 277 (302)
Q Consensus 201 q~~~t~~mi~~~~~lia~l~s~~---~~L~~GDvI~TGTp~Gv~~~~~Gd~le~~~~g~g~l~~~~~~~~~L~~GD~V~~ 277 (302)
-++-...++|.+..-++||.|.+ ..|+|--|+.||+-.--|-+ .|+.+|-.+.=.+|-.-|-.+|.|.|
T Consensus 130 p~~mvKsilwQil~Gv~YLH~NWvlHRDLKPaNIlvmgdgperG~V--------KIaDlGlaR~~~~plkpl~s~d~VVV 201 (438)
T KOG0666|consen 130 PRSMVKSILWQILDGVHYLHSNWVLHRDLKPANILVMGDGPERGRV--------KIADLGLARLFNNPLKPLASLDPVVV 201 (438)
T ss_pred CHHHHHHHHHHHHhhhHHHhhhheeeccCCcceEEEeccCCccCee--------EeecccHHHHhhccccccccCCceEE
Confidence 34557788888888888885443 47999999999995433333 33334433333567777889999999
Q ss_pred EEEec
Q 022156 278 TGFCK 282 (302)
Q Consensus 278 ~~~~~ 282 (302)
++|-.
T Consensus 202 TiWYR 206 (438)
T KOG0666|consen 202 TIWYR 206 (438)
T ss_pred EEEec
Confidence 99843
No 48
>COG5449 Uncharacterized conserved protein [Function unknown]
Probab=24.31 E-value=33 Score=30.72 Aligned_cols=33 Identities=27% Similarity=0.569 Sum_probs=26.1
Q ss_pred CCCCCCCCCCCCEEEEEEEecCCCceeeeeeeeeEEee
Q 022156 262 DGFTRKFLEDGDEVTFTGFCKGNGYTVGFGTCSGKIVP 299 (302)
Q Consensus 262 ~~~~~~~L~~GD~V~~~~~~~~~~~~~~~G~l~~~vv~ 299 (302)
..-.+.|.+|||++.++.-|++ -|-+|.||.-.
T Consensus 162 ~~i~p~~va~gd~f~itagCDK-----sfaTC~akF~N 194 (225)
T COG5449 162 EDIIPDYVAPGDEFKITAGCDK-----SFATCKAKFGN 194 (225)
T ss_pred cccccccCCCcceeeEeecccc-----cHHHHHHHhCC
Confidence 3456899999999999988876 68888777643
No 49
>COG1566 EmrA Multidrug resistance efflux pump [Defense mechanisms]
Probab=23.95 E-value=1.3e+02 Score=29.56 Aligned_cols=49 Identities=12% Similarity=-0.010 Sum_probs=30.8
Q ss_pred cccCCCCEEecCCCCCCccCCCCcEEEEEecCccceeeCCCCCCCCCCCCEEEEEEE
Q 022156 224 CNLRSGDLLGTGTISGPEPESLGCLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGF 280 (302)
Q Consensus 224 ~~L~~GDvI~TGTp~Gv~~~~~Gd~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~ 280 (302)
..+++||.|..|||-- .+.+=+.+-+. .-|....-..+++|+.|+++..
T Consensus 222 ~~v~~G~~V~~G~~l~--alVp~~~~yV~------AnFkETqL~~~r~Gq~a~I~~d 270 (352)
T COG1566 222 LSVRVGQYVSAGTPLM--ALVPLDSFYVV------ANFKETQLARVRPGQPAEITLD 270 (352)
T ss_pred ecccCCCeecCCCceE--EEecccceEEE------eeeeeeecCcccCCCeEEEEEE
Confidence 4789999999998732 12222222221 0112446889999999999855
No 50
>TIGR02305 HpaG-N-term 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, N-terminal subunit. This model represents one of two subunits/domains of the bifunctional isomerase/decarboxylase involved in 4-hydroxyphenylacetate degradation. In E. coli and some other species this enzyme is encoded by a single polypeptide containing both this domain and the closely related C-terminal domain (TIGR02303). In other species such as Pasteurella multocida these domains are found as two separate proteins (usually as tandem genes). Together, these domains carry out the decarboxylation of 5-oxopent-3-ene-1,2,5-tricarboxylic acid (OPET) to 2-hydroxy-2,4-diene-1,7-dioate (HHDD) and the subsequent isomerization to 2-oxohept-3-ene-1,7-dioate (OHED).
Probab=23.84 E-value=64 Score=28.74 Aligned_cols=16 Identities=19% Similarity=0.162 Sum_probs=13.2
Q ss_pred CCcEEEEEecCcccee
Q 022156 245 LGCLLELTWNGQKPLS 260 (302)
Q Consensus 245 ~Gd~le~~~~g~g~l~ 260 (302)
+||+++++++|+|+++
T Consensus 187 ~Gd~v~~~i~glG~l~ 202 (205)
T TIGR02305 187 PGDRVRVEAEGLGELE 202 (205)
T ss_pred CCCEEEEEEcCceeEE
Confidence 3778889999999876
No 51
>cd03696 selB_II selB_II: this subfamily represents the domain of elongation factor SelB, homologous to domain II of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation.
Probab=23.61 E-value=85 Score=23.41 Aligned_cols=22 Identities=18% Similarity=0.270 Sum_probs=16.6
Q ss_pred ceeeCCCCCCCCCCCCEEEEEE
Q 022156 258 PLSLDGFTRKFLEDGDEVTFTG 279 (302)
Q Consensus 258 ~l~~~~~~~~~L~~GD~V~~~~ 279 (302)
.++....+..+..+||.|.+.+
T Consensus 46 sI~~~~~~~~~a~aGd~v~i~l 67 (83)
T cd03696 46 SIQVHGKDVEEAKAGDRVALNL 67 (83)
T ss_pred EEEECCcCcCEEcCCCEEEEEE
Confidence 3444566778899999999874
No 52
>TIGR02312 HpaH 2-oxo-hepta-3-ene-1,7-dioic acid hydratase. This model represents the enzyme which hydrates the double bond of 2-oxo-hepta-3-ene-1,7-dioic acid to form 4-hydroxy-2-oxo-heptane-1,7-dioic acid in the catabolism of 4-hydroxyphenylacetic acid. The gene for this enzyme is generally found adjacent to other genes of this pathway in an apparent operon.
Probab=23.31 E-value=1.1e+02 Score=28.46 Aligned_cols=53 Identities=19% Similarity=0.110 Sum_probs=35.4
Q ss_pred CCCEEecCCCCCCc-------------------cCCCCcEEEEEecCccceeeCCCCCCCCCCCCEEEEEEEecCCCcee
Q 022156 228 SGDLLGTGTISGPE-------------------PESLGCLLELTWNGQKPLSLDGFTRKFLEDGDEVTFTGFCKGNGYTV 288 (302)
Q Consensus 228 ~GDvI~TGTp~Gv~-------------------~~~~Gd~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~~~~~~~~~~~ 288 (302)
-|.++.+|+-+.+. .+++||.|.. |++ .....+++||++++++.
T Consensus 195 nG~~~~~g~~~~~lg~P~~al~wL~~~l~~~G~~L~aGdiV~T-----Gs~----~~~~~v~~G~~~~~~~~-------- 257 (267)
T TIGR02312 195 NGVVEETGLAAGVLNHPANGVAWLANKLAPWGETLEAGQVVLA-----GSF----TRPVAARSGDTFHADYG-------- 257 (267)
T ss_pred CCEEEEEechhhhcCCHHHHHHHHHHHHHHcCCCCCCCCEEEC-----CCC----CCceecCCCCEEEEEEc--------
Confidence 46678888665441 3678886653 111 24677899999999865
Q ss_pred eeeeeeeEE
Q 022156 289 GFGTCSGKI 297 (302)
Q Consensus 289 ~~G~l~~~v 297 (302)
|+|+++=.+
T Consensus 258 glG~v~~~f 266 (267)
T TIGR02312 258 PLGTISVRF 266 (267)
T ss_pred CCceEEEEE
Confidence 899876543
No 53
>TIGR03177 pilus_cpaB Flp pilus assembly protein CpaB. Members of this protein family are the CpaB protein of Flp-type pilus assembly. Similar proteins include the FlgA protein of bacterial flagellum biosynthesis.
Probab=23.21 E-value=1.2e+02 Score=27.95 Aligned_cols=69 Identities=13% Similarity=0.075 Sum_probs=40.2
Q ss_pred hhhccCHHHHHHHHHHcCcccCCCCEEecCCCCCCc-------cCCCCcEEE-EEecCccceeeCCCCCCCCCCCCEEEE
Q 022156 206 KYLYWTLTQQLAHHTINGCNLRSGDLLGTGTISGPE-------PESLGCLLE-LTWNGQKPLSLDGFTRKFLEDGDEVTF 277 (302)
Q Consensus 206 ~~mi~~~~~lia~l~s~~~~L~~GDvI~TGTp~Gv~-------~~~~Gd~le-~~~~g~g~l~~~~~~~~~L~~GD~V~~ 277 (302)
.+++.++.+++-..+ ...+.+|++|...-....+ .+.+|.+.. +.++.. .....+|+|||.|.+
T Consensus 68 ~~~~~~~~~l~G~~a--~~~i~aG~~i~~~~l~~~~~~~~ls~~l~~g~rav~i~v~~~------~~v~g~i~pGD~VDV 139 (261)
T TIGR03177 68 AGAFDDIAQLVGRIV--RRPLEAGEPILEAKLAPPGASGGLAALIPPGMRAVAIRVDEV------TGVGGFILPGDRVDV 139 (261)
T ss_pred CccccCHHHhCCchh--hcccCCCCcccHHHccCCCCccchhhhcCCCCEEEEEEeccc------ccccccccCCCEEEE
Confidence 444567777765542 3578899888766554322 244555432 222211 123589999999998
Q ss_pred EEEec
Q 022156 278 TGFCK 282 (302)
Q Consensus 278 ~~~~~ 282 (302)
=....
T Consensus 140 ~~~~~ 144 (261)
T TIGR03177 140 LLTRR 144 (261)
T ss_pred EEEec
Confidence 65543
No 54
>PHA02872 EFc gene family protein; Provisional
Probab=23.17 E-value=1.6e+02 Score=24.35 Aligned_cols=35 Identities=17% Similarity=0.366 Sum_probs=26.3
Q ss_pred CCCcEEEEE-ecCccceee---------CCCCCCCCCCCCEEEEE
Q 022156 244 SLGCLLELT-WNGQKPLSL---------DGFTRKFLEDGDEVTFT 278 (302)
Q Consensus 244 ~~Gd~le~~-~~g~g~l~~---------~~~~~~~L~~GD~V~~~ 278 (302)
..||.+.+. ++|.|.|-+ +.+...|+..|+.|+++
T Consensus 57 ~~gdtvkIYflEGkG~LIfSv~dv~sp~~eedSgyv~eG~~Vef~ 101 (124)
T PHA02872 57 DAGDTVKIYFLEGKGGLIFSVSDVGSPDNEEDSGYVNEGECVEFE 101 (124)
T ss_pred cCCCeEEEEEEecCCcEEEEEEecCCCCccccccceecccEEEEe
Confidence 467777765 488888755 23468899999999987
No 55
>PF01472 PUA: PUA domain; InterPro: IPR002478 The PUA (PseudoUridine synthase and Archaeosine transglycosylase) domain was named after the proteins in which it was first found []. PUA is a highly conserved RNA-binding motif found in a wide range of archaeal, bacterial and eukaryotic proteins, including enzymes that catalyse tRNA and rRNA post-transcriptional modifications, proteins involved in ribosome biogenesis and translation, as well as in enzymes involved in proline biosynthesis [, ]. The structures of several PUA-RNA complexes reveal a common RNA recognition surface, but also some versatility in the way in which the motif binds to RNA []. PUA motifs are involved in dyskeratosis congenita and cancer, pointing to links between RNA metabolism and human diseases [].; GO: 0003723 RNA binding; PDB: 1ZE2_A 1ZE1_A 1R3E_A 2AB4_A 3R90_D 2J5T_A 2J5V_B 1Q7H_A 2APO_A 2RFK_A ....
Probab=22.89 E-value=1e+02 Score=22.79 Aligned_cols=23 Identities=26% Similarity=0.582 Sum_probs=17.1
Q ss_pred CCCCCEEEEEEEecCCCceeeeeeee
Q 022156 269 LEDGDEVTFTGFCKGNGYTVGFGTCS 294 (302)
Q Consensus 269 L~~GD~V~~~~~~~~~~~~~~~G~l~ 294 (302)
+++||.|.+ +..||+-++.|...
T Consensus 31 f~~gd~V~i---~~~~g~~ia~G~a~ 53 (74)
T PF01472_consen 31 FRKGDEVAI---VDEDGEVIAVGRAN 53 (74)
T ss_dssp --TTSEEEE---EETTSSEEEEEEES
T ss_pred cCCCCEEEE---EcCCCeEEEEEEEe
Confidence 499999997 45689999888753
No 56
>TIGR02303 HpaG-C-term 4-hydroxyphenylacetate degradation bifunctional isomerase/decarboxylase, C-terminal subunit. This model represents one of two subunits/domains of the bifunctional isomerase/decarboxylase involved in 4-hydroxyphenylacetate degradation. In E. coli and some other species this enzyme is encoded by a single polypeptide containing both this domain and the closely related N-terminal domain (TIGR02305). In other species such as Pasteurella multocida these domains are found as two separate proteins (usually as tandem genes). Together, these domains carry out the decarboxylation of 5-oxopent-3-ene-1,2,5-tricarboxylic acid (OPET) to 2-hydroxy-2,4-diene-1,7-dioate (HHDD) and the subsequent isomerization to 2-oxohept-3-ene-1,7-dioate (OHED).
Probab=22.45 E-value=69 Score=29.57 Aligned_cols=16 Identities=25% Similarity=0.347 Sum_probs=12.4
Q ss_pred CCcEEEEEecCcccee
Q 022156 245 LGCLLELTWNGQKPLS 260 (302)
Q Consensus 245 ~Gd~le~~~~g~g~l~ 260 (302)
+||.++++++|+|+++
T Consensus 224 ~GD~v~~~i~glG~l~ 239 (245)
T TIGR02303 224 PGDVVRLEIEGVGALE 239 (245)
T ss_pred CCCEEEEEEcCceeEE
Confidence 3677888888888776
No 57
>PLN00208 translation initiation factor (eIF); Provisional
Probab=22.19 E-value=1.1e+02 Score=26.34 Aligned_cols=16 Identities=13% Similarity=0.189 Sum_probs=14.1
Q ss_pred CCCCCCCCCEEEEEEE
Q 022156 265 TRKFLEDGDEVTFTGF 280 (302)
Q Consensus 265 ~~~~L~~GD~V~~~~~ 280 (302)
...|+++||.|.++.+
T Consensus 67 KrIWI~~GD~VlVel~ 82 (145)
T PLN00208 67 KKVWIAAGDIILVGLR 82 (145)
T ss_pred eeEEecCCCEEEEEcc
Confidence 4799999999999865
No 58
>cd03694 GTPBP_II Domain II of the GP-1 family of GTPase. This group includes proteins similar to GTPBP1 and GTPBP2. GTPB1 is structurally, related to elongation factor 1 alpha, a key component of protein biosynthesis machinery. Immunohistochemical analyses on mouse tissues revealed that GTPBP1 is expressed in some neurons and smooth muscle cells of various organs as well as macrophages. Immunofluorescence analyses revealed that GTPBP1 is localized exclusively in cytoplasm and shows a diffuse granular network forming a gradient from the nucleus to the periphery of the cells in smooth muscle cell lines and macrophages. No significant difference was observed in the immune response to protein antigen between mutant mice and wild-type mice, suggesting normal function of antigen-presenting cells of the mutant mice. The absence of an eminent phenotype in GTPBP1-deficient mice may be due to functional compensation by GTPBP2, which is similar to GTPBP1 in structure and tissue distribution.
Probab=22.07 E-value=82 Score=23.96 Aligned_cols=20 Identities=5% Similarity=0.107 Sum_probs=15.9
Q ss_pred eeCCCCCCCCCCCCEEEEEE
Q 022156 260 SLDGFTRKFLEDGDEVTFTG 279 (302)
Q Consensus 260 ~~~~~~~~~L~~GD~V~~~~ 279 (302)
+....+..+..+||.|.+..
T Consensus 52 ~~~~~~~~~a~aGd~v~l~l 71 (87)
T cd03694 52 HRNRSPVRVVRAGQSASLAL 71 (87)
T ss_pred EECCeECCEECCCCEEEEEE
Confidence 34566788899999999975
No 59
>COG1917 Uncharacterized conserved protein, contains double-stranded beta-helix domain [Function unknown]
Probab=22.07 E-value=1.8e+02 Score=23.50 Aligned_cols=32 Identities=22% Similarity=0.302 Sum_probs=26.6
Q ss_pred CcEEEEEecCccceeeCCCCCCCCCCCCEEEEE
Q 022156 246 GCLLELTWNGQKPLSLDGFTRKFLEDGDEVTFT 278 (302)
Q Consensus 246 Gd~le~~~~g~g~l~~~~~~~~~L~~GD~V~~~ 278 (302)
++..-..++|.+.+..+ .+..-|++||.|.+.
T Consensus 64 ~~~~~~Vl~G~~~~~~~-g~~~~l~~Gd~i~ip 95 (131)
T COG1917 64 GEQTIYVLEGEGTVQLE-GEKKELKAGDVIIIP 95 (131)
T ss_pred cceEEEEEecEEEEEec-CCceEecCCCEEEEC
Confidence 77777888888888888 777889999999865
No 60
>cd05694 S1_Rrp5_repeat_hs2_sc2 S1_Rrp5_repeat_hs2_sc2: Rrp5 is a trans-acting factor important for biogenesis of both the 40S and 60S eukaryotic ribosomal subunits. Rrp5 has two distinct regions, an N-terminal region containing tandemly repeated S1 RNA-binding domains (12 S1 repeats in Saccharomyces cerevisiae Rrp5 and 14 S1 repeats in Homo sapiens Rrp5) and a C-terminal region containing tetratricopeptide repeat (TPR) motifs thought to be involved in protein-protein interactions. Mutational studies have shown that each region represents a specific functional domain. Deletions within the S1-containing region inhibit pre-rRNA processing at either site A3 or A2, whereas deletions within the TPR region confer an inability to support cleavage of A0-A2. This CD includes H. sapiens S1 repeat 2 (hs2) and S. cerevisiae S1 repeat 2 (sc2). Rrp5 is found in eukaryotes but not in prokaryotes or archaea.
Probab=22.06 E-value=68 Score=23.82 Aligned_cols=60 Identities=23% Similarity=0.240 Sum_probs=35.4
Q ss_pred cCCCCEEecCCCCCCccCCCCcEEEEEecCccc-eeeCCCC-CCCCCCCCEEEEEEE-ecCCCcee
Q 022156 226 LRSGDLLGTGTISGPEPESLGCLLELTWNGQKP-LSLDGFT-RKFLEDGDEVTFTGF-CKGNGYTV 288 (302)
Q Consensus 226 L~~GDvI~TGTp~Gv~~~~~Gd~le~~~~g~g~-l~~~~~~-~~~L~~GD~V~~~~~-~~~~~~~~ 288 (302)
|..|++ ++|+...+. ..|..++..++|+.- +....-. ...+++||.|.+.+. .+.+++.+
T Consensus 2 l~~G~~-v~g~V~si~--d~G~~v~~g~~gv~Gfl~~~~~~~~~~~~~Gq~v~~~V~~vd~~~~~v 64 (74)
T cd05694 2 LVEGMV-LSGCVSSVE--DHGYILDIGIPGTTGFLPKKDAGNFSKLKVGQLLLCVVEKVKDDGRVV 64 (74)
T ss_pred CCCCCE-EEEEEEEEe--CCEEEEEeCCCCcEEEEEHHHCCcccccCCCCEEEEEEEEEECCCCEE
Confidence 566765 677776654 367777775555422 2221111 177999999999854 23444443
No 61
>TIGR00370 conserved hypothetical protein TIGR00370.
Probab=22.03 E-value=1.2e+02 Score=27.31 Aligned_cols=50 Identities=28% Similarity=0.412 Sum_probs=26.8
Q ss_pred ccCCCCEEecCCCCCCccC-CCCcEEEEEecCccceee---CCCCCCCCCCCCEEEE
Q 022156 225 NLRSGDLLGTGTISGPEPE-SLGCLLELTWNGQKPLSL---DGFTRKFLEDGDEVTF 277 (302)
Q Consensus 225 ~L~~GDvI~TGTp~Gv~~~-~~Gd~le~~~~g~g~l~~---~~~~~~~L~~GD~V~~ 277 (302)
...+|.|-+.|.-.|+-+. .||--=-+ |..++.+ +++++..|++||+|+.
T Consensus 148 ~vPaGSVgIag~qt~IYp~~sPGGW~iI---GrTp~~lfd~~~~~p~ll~~GD~VrF 201 (202)
T TIGR00370 148 SVPAGSVGIGGLQTGVYPISTPGGWQLI---GKTPLALFDPQENPPTLLRAGDIVKF 201 (202)
T ss_pred ccCCceeEEcccceEEEccCCCCcceEe---eecchhhhCCCCCCCcccCCCCEEEe
Confidence 4455555555555555543 23331111 1112222 4667889999999985
No 62
>PRK05933 type III secretion system protein; Validated
Probab=21.13 E-value=7.8e+02 Score=24.29 Aligned_cols=63 Identities=17% Similarity=0.167 Sum_probs=40.7
Q ss_pred CceeceEEE--EEecCCCCCCCCCCHHHHhhhheeEEEEeecchhhhhhhhh------cCCCCcccccCCCCCCCc
Q 022156 81 KLDFELEMA--AVVGPGNELGKPIDVNEAADHIFGVMLMNDWSARDIQAWEY------VPLGPFLGKSFGTTLSPW 148 (302)
Q Consensus 81 ~ld~E~ELa--vvigk~l~~g~~v~~~eA~~~I~Gy~~~nD~taRd~q~~~~------~~~~~~~aK~~d~~lGP~ 148 (302)
++|+-.+|. +=+|+. .++.+|+...+-|=.+..|-..-|-+..+- +..+++.||-.+.+-|-+
T Consensus 208 ~~~~~tpi~~~vEvG~~-----ql~~~eW~qv~~G~fi~LDsC~~dP~~~~~~~~Ltiq~~~ff~GRil~~~SGE~ 278 (372)
T PRK05933 208 KIDLQTPITLSVEVGYC-----QLTQEEWHQVVPGSFILLDSCLYDPDTEESGALLTIQRHQFFGGRFLDKQSGEF 278 (372)
T ss_pred ccCCCCceEEEEEeeeE-----EecHHHHhhhccCcEEEEeecccCCCccccceEEEEccccccCceEeeccCccE
Confidence 445544444 444654 589999999999999999987665544221 234566777666544443
No 63
>cd03702 IF2_mtIF2_II This family represents the domain II of bacterial Initiation Factor 2 (IF2) and its eukaryotic mitochondrial homologue mtIF2. IF2, the largest initiation factor is an essential GTP binding protein. In E. coli three natural forms of IF2 exist in the cell, IF2alpha, IF2beta1, and IF2beta2. Bacterial IF-2 is structurally and functionally related to eukaryotic mitochondrial mtIF-2.
Probab=21.12 E-value=1.5e+02 Score=23.41 Aligned_cols=18 Identities=39% Similarity=0.610 Sum_probs=15.2
Q ss_pred cCcccCCCCEEecCCCCC
Q 022156 222 NGCNLRSGDLLGTGTISG 239 (302)
Q Consensus 222 ~~~~L~~GDvI~TGTp~G 239 (302)
+.-+|+.||.|.+|+-.|
T Consensus 23 ~~GtL~~Gd~iv~G~~~g 40 (95)
T cd03702 23 QNGTLKVGDVLVAGTTYG 40 (95)
T ss_pred EcCeEeCCCEEEEccccc
Confidence 445899999999999866
No 64
>cd03698 eRF3_II_like eRF3_II_like: domain similar to domain II of the eukaryotic class II release factor (eRF3). In eukaryotes, translation termination is mediated by two interacting release factors, eRF1 and eRF3, which act as class I and II factors, respectively. eRF1 functions as an omnipotent release factor, decoding all three stop codons and triggering the release of the nascent peptide catalyzed by the ribsome. eRF3 is a GTPase, which enhances the termination efficiency by stimulating the eRF1 activity in a GTP-dependent manner. Sequence comparison of class II release factors with elongation factors shows that eRF3 is more similar to eEF1alpha whereas prokaryote RF3 is more similar to EF-G, implying that their precise function may differ. Only eukaryote RF3s are found in this group. Saccharomyces cerevisiae eRF3 (Sup35p) is a translation termination factor which is divided into three regions N, M and a C-terminal eEF1a-like region essential for translation termination. Sup35NM
Probab=21.11 E-value=1e+02 Score=23.10 Aligned_cols=21 Identities=14% Similarity=0.237 Sum_probs=16.0
Q ss_pred eeeCCCCCCCCCCCCEEEEEE
Q 022156 259 LSLDGFTRKFLEDGDEVTFTG 279 (302)
Q Consensus 259 l~~~~~~~~~L~~GD~V~~~~ 279 (302)
++....+..+..+||.|.+..
T Consensus 47 i~~~~~~~~~a~aGd~v~~~l 67 (83)
T cd03698 47 IYVDDEEVDYAVAGENVRLKL 67 (83)
T ss_pred EEECCeECCEECCCCEEEEEE
Confidence 333566788899999999874
No 65
>cd04487 RecJ_OBF2_like RecJ_OBF2_like: A subfamily of OB folds corresponding to the second OB fold (OBF2) of archaeal-specific proteins with similarity to eubacterial RecJ. RecJ is an ssDNA-specific exonuclease. Although the overall sequence similarity of these proteins to eubacterial RecJ proteins is marginal, they appear to carry motifs, which have been shown to be essential for nuclease function in Escherichia coli RecJ. In addition to this OB fold, most proteins in this subfamily contain: i) an N-terminal OB fold belonging to a different domain family (the ribosomal S1-like RNA-binding family); and ii) a domain, C-terminal to OBF2, characteristic of DHH family proteins. DHH family proteins include E. coli RecJ, and are predicted to have a phosphoesterase function.
Probab=20.20 E-value=1.9e+02 Score=21.45 Aligned_cols=18 Identities=33% Similarity=0.281 Sum_probs=14.2
Q ss_pred CCCCCCCCCEEEEEEEec
Q 022156 265 TRKFLEDGDEVTFTGFCK 282 (302)
Q Consensus 265 ~~~~L~~GD~V~~~~~~~ 282 (302)
-...|++||+|++.+..+
T Consensus 40 ~~~~l~~Gd~V~v~G~v~ 57 (73)
T cd04487 40 AYPEVEVGDIVRVTGEVE 57 (73)
T ss_pred CcCCCCCCCEEEEEEEEe
Confidence 357799999999987643
No 66
>TIGR02381 cspD cold shock domain protein CspD. This model represents what appears to be a phylogenetically distinct clade, containing E. coli CspD and related proteobacterial proteins within the larger family of cold shock domain proteins described by pfam model pfam00313. The gene symbol cspD may have been used idependently for other subfamilies of cold shock domain proteins, such as for B. subtilis CspD. These proteins typically are shorter than 70 amino acids. In E. coli, CspD is a stress response protein induced in stationary phase. This homodimer binds single-stranded DNA and appears to inhibit DNA replication.
Probab=20.11 E-value=1.4e+02 Score=21.80 Aligned_cols=21 Identities=24% Similarity=0.311 Sum_probs=17.0
Q ss_pred CCCCCCCCEEEEEEEecCCCc
Q 022156 266 RKFLEDGDEVTFTGFCKGNGY 286 (302)
Q Consensus 266 ~~~L~~GD~V~~~~~~~~~~~ 286 (302)
.+.|++||+|+.++..+++|.
T Consensus 39 ~~~l~~G~~V~f~~~~~~~G~ 59 (68)
T TIGR02381 39 YRTLKAGQKVQFEVVQGPKGA 59 (68)
T ss_pred CCCCCCCCEEEEEEEECCCCc
Confidence 467999999999988666554
Done!