Query 022557
Match_columns 295
No_of_seqs 137 out of 1441
Neff 7.0
Searched_HMMs 46136
Date Fri Mar 29 04:27:05 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022557.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022557hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 COG0123 AcuC Deacetylases, inc 100.0 7.3E-73 1.6E-77 532.1 24.3 254 33-294 2-265 (340)
2 PTZ00346 histone deacetylase; 100.0 2.5E-72 5.4E-77 536.8 26.5 259 32-294 19-294 (429)
3 PTZ00063 histone deacetylase; 100.0 3.8E-72 8.2E-77 538.4 26.4 259 32-294 3-276 (436)
4 PF00850 Hist_deacetyl: Histon 100.0 1.1E-70 2.3E-75 514.6 16.8 245 40-294 1-266 (311)
5 KOG1342 Histone deacetylase co 100.0 2.1E-59 4.6E-64 432.9 22.1 259 31-293 5-277 (425)
6 KOG1344 Predicted histone deac 100.0 1.6E-52 3.6E-57 365.8 12.6 273 21-294 2-274 (324)
7 KOG1343 Histone deacetylase co 100.0 2E-41 4.4E-46 344.1 12.8 231 53-294 464-714 (797)
8 KOG1343 Histone deacetylase co 100.0 2.9E-33 6.2E-38 284.7 7.7 262 32-294 28-312 (797)
9 KOG0121 Nuclear cap-binding pr 71.1 3.7 7.9E-05 34.0 2.5 48 161-208 70-122 (153)
10 TIGR03018 pepcterm_TyrKin exop 68.6 10 0.00022 33.1 5.1 24 254-277 134-157 (207)
11 PF09754 PAC2: PAC2 family; I 64.6 7.6 0.00016 34.1 3.5 93 178-284 13-114 (219)
12 TIGR02855 spore_yabG sporulati 64.4 9 0.0002 35.5 3.9 26 258-284 143-168 (283)
13 TIGR01969 minD_arch cell divis 62.2 9.9 0.00021 33.6 3.8 19 185-204 25-43 (251)
14 PRK13236 nitrogenase reductase 61.3 9.4 0.0002 35.5 3.6 32 178-211 23-54 (296)
15 COG0683 LivK ABC-type branched 53.2 52 0.0011 31.2 7.3 35 177-211 135-169 (366)
16 TIGR01287 nifH nitrogenase iro 50.7 21 0.00046 32.3 4.0 22 184-207 23-44 (275)
17 PRK10818 cell division inhibit 50.0 21 0.00045 32.2 3.9 19 187-206 29-47 (270)
18 PF02585 PIG-L: GlcNAc-PI de-N 49.4 32 0.0007 27.2 4.5 28 253-280 85-112 (128)
19 CHL00175 minD septum-site dete 47.3 25 0.00054 32.0 4.0 20 187-207 42-61 (281)
20 PRK13232 nifH nitrogenase redu 44.2 23 0.00051 32.1 3.3 21 187-209 27-47 (273)
21 PHA02518 ParA-like protein; Pr 43.0 37 0.00081 28.9 4.2 21 185-207 25-45 (211)
22 cd03110 Fer4_NifH_child This p 42.6 18 0.00038 30.4 2.1 15 191-205 25-39 (179)
23 cd02036 MinD Bacterial cell di 42.1 38 0.00081 28.0 4.0 17 191-207 29-45 (179)
24 cd06355 PBP1_FmdD_like Peripla 42.0 64 0.0014 30.1 6.0 34 177-210 120-153 (348)
25 PF02310 B12-binding: B12 bind 40.9 45 0.00097 25.8 4.1 44 177-222 17-60 (121)
26 PF02701 zf-Dof: Dof domain, z 39.1 11 0.00023 27.0 0.2 9 169-177 16-24 (63)
27 PRK13230 nitrogenase reductase 38.5 35 0.00077 31.0 3.5 24 184-209 24-47 (279)
28 cd02040 NifH NifH gene encodes 37.1 53 0.0012 29.3 4.4 17 191-208 30-46 (270)
29 cd01835 SGNH_hydrolase_like_3 35.9 53 0.0012 27.6 4.1 43 240-283 42-85 (193)
30 COG0455 flhG Antiactivator of 35.8 1.3E+02 0.0029 27.5 6.9 82 189-281 31-125 (262)
31 TIGR01281 DPOR_bchL light-inde 34.9 45 0.00097 30.0 3.6 16 191-207 29-44 (268)
32 PF05582 Peptidase_U57: YabG p 34.7 35 0.00077 31.8 2.8 27 258-285 144-170 (287)
33 TIGR01968 minD_bact septum sit 34.7 50 0.0011 29.1 3.8 14 191-204 31-44 (261)
34 PRK13234 nifH nitrogenase redu 32.4 52 0.0011 30.4 3.7 22 187-210 30-51 (295)
35 cd02117 NifH_like This family 32.3 52 0.0011 28.6 3.4 18 191-209 29-46 (212)
36 PRK13185 chlL protochlorophyll 32.3 57 0.0012 29.3 3.8 17 191-208 31-47 (270)
37 TIGR03407 urea_ABC_UrtA urea A 31.8 98 0.0021 29.0 5.5 34 177-210 121-154 (359)
38 PF06925 MGDG_synth: Monogalac 31.8 54 0.0012 27.5 3.3 25 250-274 71-95 (169)
39 TIGR02016 BchX chlorophyllide 31.4 58 0.0012 30.3 3.8 13 191-203 29-41 (296)
40 PF00977 His_biosynth: Histidi 30.6 70 0.0015 28.5 4.0 49 150-205 10-59 (229)
41 PRK13235 nifH nitrogenase redu 30.2 52 0.0011 29.8 3.2 21 183-204 23-43 (274)
42 TIGR03371 cellulose_yhjQ cellu 30.2 61 0.0013 28.4 3.6 11 191-201 31-41 (246)
43 PF13472 Lipase_GDSL_2: GDSL-l 30.0 60 0.0013 25.9 3.3 36 246-282 40-76 (179)
44 TIGR03446 mycothiol_Mca mycoth 29.9 60 0.0013 30.2 3.6 20 256-275 109-128 (283)
45 PRK10037 cell division protein 29.4 58 0.0013 29.1 3.3 20 185-206 26-45 (250)
46 KOG1069 Exosomal 3'-5' exoribo 29.4 1E+02 0.0022 27.5 4.6 63 200-263 15-82 (217)
47 KOG4184 Predicted sugar kinase 28.8 48 0.0011 32.1 2.7 23 252-275 223-245 (478)
48 PF13050 DUF3911: Protein of u 28.4 22 0.00047 25.7 0.3 10 168-177 25-34 (77)
49 cd01828 sialate_O-acetylestera 28.4 86 0.0019 25.7 4.0 16 266-281 46-62 (169)
50 cd06366 PBP1_GABAb_receptor Li 28.4 2.1E+02 0.0046 26.3 7.1 28 184-211 129-156 (350)
51 COG4671 Predicted glycosyl tra 28.3 85 0.0018 30.5 4.3 31 246-276 84-114 (400)
52 TIGR03445 mycothiol_MshB 1D-my 27.2 81 0.0017 29.3 3.9 25 258-282 113-139 (284)
53 PRK13233 nifH nitrogenase redu 27.2 72 0.0016 28.8 3.6 14 191-204 32-45 (275)
54 cd06334 PBP1_ABC_ligand_bindin 26.8 2.2E+02 0.0048 26.6 7.0 34 178-211 124-161 (351)
55 cd06388 PBP1_iGluR_AMPA_GluR4 26.8 1.7E+02 0.0036 27.9 6.2 40 172-212 106-145 (371)
56 COG1891 Uncharacterized protei 26.6 1.4E+02 0.003 26.2 4.9 48 240-288 85-133 (235)
57 TIGR01007 eps_fam capsular exo 25.2 91 0.002 26.7 3.7 13 191-203 47-59 (204)
58 TIGR03815 CpaE_hom_Actino heli 24.8 85 0.0018 29.2 3.7 14 191-204 123-136 (322)
59 PF01120 Alpha_L_fucos: Alpha- 24.8 2.1E+02 0.0045 27.2 6.3 25 255-279 193-217 (346)
60 cd02037 MRP-like MRP (Multiple 24.7 84 0.0018 26.1 3.3 12 191-202 29-40 (169)
61 TIGR03029 EpsG chain length de 24.5 94 0.002 28.0 3.8 14 191-204 133-146 (274)
62 cd06361 PBP1_GPC6A_like Ligand 23.8 4.5E+02 0.0098 25.2 8.6 31 181-211 163-193 (403)
63 cd03111 CpaE_like This protein 23.6 1.9E+02 0.0042 22.1 5.0 14 191-204 30-43 (106)
64 PRK15404 leucine ABC transport 23.6 2.3E+02 0.005 26.8 6.4 32 179-210 150-181 (369)
65 PF02075 RuvC: Crossover junct 23.2 1.1E+02 0.0024 25.4 3.7 33 243-275 33-65 (149)
66 TIGR03669 urea_ABC_arch urea A 23.1 1.9E+02 0.0041 27.5 5.8 34 177-211 121-154 (374)
67 PF13458 Peripla_BP_6: Peripla 23.0 1.6E+02 0.0035 26.7 5.1 36 175-210 120-155 (343)
68 TIGR03453 partition_RepA plasm 22.9 1E+02 0.0022 29.7 3.8 16 191-207 134-149 (387)
69 cd01832 SGNH_hydrolase_like_1 22.4 1.3E+02 0.0028 24.8 4.1 33 248-281 48-81 (185)
70 PRK00039 ruvC Holliday junctio 22.0 1.7E+02 0.0037 24.8 4.7 23 253-275 46-68 (164)
71 cd04501 SGNH_hydrolase_like_4 21.9 94 0.002 25.8 3.1 30 250-283 45-75 (183)
72 cd02032 Bchl_like This family 21.9 95 0.0021 27.9 3.3 15 191-206 29-43 (267)
73 PRK09822 lipopolysaccharide co 21.9 1.2E+02 0.0027 27.6 3.8 46 166-214 161-206 (269)
74 cd01833 XynB_like SGNH_hydrola 21.7 1E+02 0.0023 24.7 3.3 20 263-282 35-55 (157)
75 CHL00072 chlL photochlorophyll 21.7 98 0.0021 28.6 3.4 23 183-207 22-44 (290)
76 cd06329 PBP1_SBP_like_3 Peripl 21.4 1.7E+02 0.0037 27.0 5.0 33 178-210 131-163 (342)
77 cd04723 HisA_HisF Phosphoribos 21.3 1.2E+02 0.0027 27.0 3.9 37 168-205 28-64 (233)
78 cd02033 BchX Chlorophyllide re 20.9 1E+02 0.0022 29.3 3.4 20 191-211 60-79 (329)
79 cd06343 PBP1_ABC_ligand_bindin 20.8 2.2E+02 0.0048 26.3 5.7 33 178-210 132-164 (362)
80 TIGR00734 hisAF_rel hisA/hisF 20.4 1.6E+02 0.0034 26.2 4.3 36 171-207 32-67 (221)
No 1
>COG0123 AcuC Deacetylases, including yeast histone deacetylase and acetoin utilization protein [Chromatin structure and dynamics / Secondary metabolites biosynthesis, transport, and catabolism]
Probab=100.00 E-value=7.3e-73 Score=532.12 Aligned_cols=254 Identities=30% Similarity=0.433 Sum_probs=231.6
Q ss_pred CceeEEECcccCcccCCCCCCCCCCChHHHHHHHHHHHCCCCCCCeeeCCCCCCHHHHhccCCHHHHHHHhcCCCccccc
Q 022557 33 FKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIII 112 (295)
Q Consensus 33 ~~~~vvy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~i~p~~as~eel~~vHs~~YI~~l~~~~~~~~~~ 112 (295)
+++.++|++.+..|.. +.+|||+|+|++.+.++|++.++...+++++|++++.++|++||+++||++|++.+....
T Consensus 2 ~~~~~~~~~~~~~~~~--~~~Hpe~p~R~~~~~~~l~~~~~~~~~~~~~p~~~~~~~l~~vH~~~yv~~l~~~~~~~~-- 77 (340)
T COG0123 2 MKTALIYHPEFLEHEP--PPGHPENPDRLRLILELLESSGLPDSLELVEPRPATLEELLLVHSPDYVEFLESLSEEEG-- 77 (340)
T ss_pred CcceEeeCHHHhcCCC--CCCCCCChHHHHHHHHHHHhcCccccccccCCCcCCHHHHHhhCCHHHHHHHHHhccccc--
Confidence 6788999999988864 478999999999999999999988888999999999999999999999999999886521
Q ss_pred cCCCccccCCccccccchhhhHhhhcHHHHHHHHHhhc--CceeeccCCCCCCCccCCCcccccccHHHHHHHHHHhcCC
Q 022557 113 EVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNI 190 (295)
Q Consensus 113 e~~~~~~~~d~~~~~~~~~~a~~~ag~~l~a~~~~~~~--~~a~~~~~G~HHA~~~~~~GFC~~NnvAiaa~~l~~~~~~ 190 (295)
...++.||++++++++++++++|++++|++.++++ ..+++..||||||++++++|||+|||+||||++|+++ +.
T Consensus 78 ---~~~~d~d~~~s~~~~~~a~~a~G~al~A~~~v~~g~~~~~~~~rppgHHA~~~~a~GFC~fNn~Aiaa~~l~~~-~~ 153 (340)
T COG0123 78 ---YGNLDGDTPVSPGTYEAARLAAGGALTAVDAVLEGEDNAFALVRPPGHHAGRDRASGFCLFNNVAIAAKYLLKK-GV 153 (340)
T ss_pred ---cccccCCCccChHHHHHHHHHhhHHHHHHHHHHcCccceEEECCCCcccccCCCCceeeeecHHHHHHHHHHHc-CC
Confidence 23567899999999999999999999999999985 3444444455999999999999999999999999998 89
Q ss_pred CeEEEEecCCcCChhhhHhhhCCCCEEEEEeeCC--CCCCCCcc------cCCceeeeccCCCCCChhHHHHHHHHHHHH
Q 022557 191 SRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNP--GIYPRDYE------ARRFIDQKVEVVSGTTTNEYLKKLDEALEV 262 (295)
Q Consensus 191 ~rv~IiD~D~HhGnGtq~if~~d~~Vl~~Sih~~--~~yP~~~~------~~~~~~~NvpL~~g~~d~~y~~~~~~~l~~ 262 (295)
+||+|||||+|||||||+|||+|++|+|+|+|+. .+||+|+. .++++++|||||+|++|++|+.+|++++.|
T Consensus 154 ~RVaIiD~DvHHGnGTqeify~~~~V~~~S~H~~~~~~yPgtg~~~e~g~g~~g~~vNiPLp~g~~d~~y~~a~~~~v~~ 233 (340)
T COG0123 154 KRVAIIDFDVHHGNGTQEIFYDDDDVLTVSLHQDGRPFYPGTGGADEIGEGKEGNNVNIPLPPGTGDDSYLEALEEIVLP 233 (340)
T ss_pred CcEEEEEecCCCChhhHHHHccCCCeEEEeccCCCCCCCCcCCCccccccCcccceEeeecCCCCCcHHHHHHHHHHHHH
Confidence 9999999999999999999999999999999994 79999975 124689999999999999999999999999
Q ss_pred HHhhcCCCEEEEecCCCCCCCCCCCCceeeeC
Q 022557 263 AGHTFDPELVIYNAGTDILEGDPLGMLKVKWG 294 (295)
Q Consensus 263 ~~~~f~PdlIvvsaG~D~~~~Dplg~l~lt~~ 294 (295)
++++|+||+||+|||||+|.+||||.|+||++
T Consensus 234 ~~~~f~PdlvivsaG~D~h~~Dpl~~~~Lt~~ 265 (340)
T COG0123 234 LLEEFKPDLVIVSAGFDAHRGDPLGRLNLTEE 265 (340)
T ss_pred HHHhcCCCEEEEecCcccCCCCccceeecCHH
Confidence 99999999999999999999999999999964
No 2
>PTZ00346 histone deacetylase; Provisional
Probab=100.00 E-value=2.5e-72 Score=536.85 Aligned_cols=259 Identities=26% Similarity=0.410 Sum_probs=228.2
Q ss_pred CCceeEE----ECcccCcccCCCCCCCCCCChHHHHHHHHHHHCCCCCCCeeeCCCCCCHHHHhccCCHHHHHHHhcCCC
Q 022557 32 IFKLPLI----YSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPN 107 (295)
Q Consensus 32 ~~~~~vv----y~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~i~p~~as~eel~~vHs~~YI~~l~~~~~ 107 (295)
...+.+| |.+++..+++ +++|||+|+|++.++++|++.|+...+++++|++|+.++|++||+++||++|++...
T Consensus 19 ~~~~~~~~~~~y~~~~~~~~~--~~~HPe~P~Rl~~~~~ll~~~gl~~~~~~~~p~~At~eeL~~vHs~~YI~~l~~~~~ 96 (429)
T PTZ00346 19 RGRVALIDTSGYASDMNISAF--VPQHAMKPYRVLAAMEIVRSLKIDAHCRTVVPPLVKVEELMAYHTDTYLANLGLHSC 96 (429)
T ss_pred cceeEEEecCccccccccccC--CCcCCCCHHHHHHHHHHHHhcCCcccCeeecCCCCCHHHHHHhCCHHHHHHHHHhcc
Confidence 3566789 5555555543 478999999999999999999998889999999999999999999999999987432
Q ss_pred ccc--cccCCCccccCCccccccchhhhHhhhcHHHHHHHHHhhc--CceeeccCCCCCCCccCCCcccccccHHHHHHH
Q 022557 108 VSI--IIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHY 183 (295)
Q Consensus 108 ~~~--~~e~~~~~~~~d~~~~~~~~~~a~~~ag~~l~a~~~~~~~--~~a~~~~~G~HHA~~~~~~GFC~~NnvAiaa~~ 183 (295)
... ..+.....+++||++++++++++++++||++.|++.++++ .+|++++||+|||++++++|||+|||+||||++
T Consensus 97 ~~~~~~~~~~~~~~d~Dtpv~~~~~~~a~laaGgsl~Aa~~v~~g~~~~Ai~~pGG~HHA~~~~a~GFC~fNdvAIAa~~ 176 (429)
T PTZ00346 97 RSWLWNAETSKVFFSGDCPPVEGLMEHSIATASGTLMGAVLLNSGQVDVAVHWGGGMHHSKCGECSGFCYVNDIVLGILE 176 (429)
T ss_pred cccccccccccccccCCCCCChHHHHHHHHHHHHHHHHHHHHHcCCCCEEEeCCCCcCcCCCCCCCcchHHhHHHHHHHH
Confidence 110 0111223356899999999999999999999999999864 589999999999999999999999999999999
Q ss_pred HHHhcCCCeEEEEecCCcCChhhhHhhhCCCCEEEEEeeCCC--CCCCCcc-------cCCceeeeccCCCCCChhHHHH
Q 022557 184 AFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPG--IYPRDYE-------ARRFIDQKVEVVSGTTTNEYLK 254 (295)
Q Consensus 184 l~~~~~~~rv~IiD~D~HhGnGtq~if~~d~~Vl~~Sih~~~--~yP~~~~-------~~~~~~~NvpL~~g~~d~~y~~ 254 (295)
|+++ .+||+|||||||||||||+|||+|++|+|+|+|+.+ |||+||. .+.++++|||||+|++|++|+.
T Consensus 177 ll~~--~~RVliID~DVHHGnGTqeiF~~dp~Vl~vSiHq~~~~fyPgtG~~~e~G~g~G~g~~vNVPL~~G~~D~~Yl~ 254 (429)
T PTZ00346 177 LLKC--HDRVLYVDIDMHHGDGVDEAFCTSDRVFTLSLHKFGESFFPGTGHPRDVGYGRGRYYSMNLAVWDGITDFYYLG 254 (429)
T ss_pred HHHc--CCeEEEEeCCCCCCchHHHHHcCCCCeEEEEecCCCCCCCCCCCCccccCCCCCceeEEeeeCCCCcCHHHHHH
Confidence 9986 479999999999999999999999999999999864 9999874 2456899999999999999999
Q ss_pred HHHHHHHHHHhhcCCCEEEEecCCCCCCCCCCCCceeeeC
Q 022557 255 KLDEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKVKWG 294 (295)
Q Consensus 255 ~~~~~l~~~~~~f~PdlIvvsaG~D~~~~Dplg~l~lt~~ 294 (295)
+|+++|.|++++|+||+||+|||||+|.+||||+|+||++
T Consensus 255 ~f~~ii~p~l~~F~PdlIvvsaG~Da~~~DpLg~l~LT~~ 294 (429)
T PTZ00346 255 LFEHALHSIVRRYSPDAIVLQCGADSLAGDRLGLLNLSSF 294 (429)
T ss_pred HHHHHHHHHHHhcCCCEEEEECCccCCCCCCCCCceeCHH
Confidence 9999999999999999999999999999999999999964
No 3
>PTZ00063 histone deacetylase; Provisional
Probab=100.00 E-value=3.8e-72 Score=538.43 Aligned_cols=259 Identities=22% Similarity=0.398 Sum_probs=233.4
Q ss_pred CCceeEEECcccCcccCCCCCCCCCCChHHHHHHHHHHHCCCCCCCeeeCCCCCCHHHHhccCCHHHHHHHhcCCCcccc
Q 022557 32 IFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSII 111 (295)
Q Consensus 32 ~~~~~vvy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~i~p~~as~eel~~vHs~~YI~~l~~~~~~~~~ 111 (295)
..+++++|+|+|..|+++ .+|||+|.|++.+.++|+++|+...+++++|++|+.++|.+||+++||++|++..+....
T Consensus 3 ~~~v~~~yd~~~~~h~~g--~~HP~~P~Rl~~~~~ll~~~gl~~~~~~~~p~~At~eeL~~vHs~~YI~~L~~~~~~~~~ 80 (436)
T PTZ00063 3 RKRVSYFYDPDIGSYYYG--PGHPMKPQRIRMAHALILSYDLYKHMEIYRPHKSVEPELVLFHDEEYVDFLSSISPENYR 80 (436)
T ss_pred CceEEEEECccccCcCCc--CcCCcChHHHHHHHHHHHhCCCcccCeEecCCCCCHHHHHHhCCHHHHHHHHHhChhhcc
Confidence 467899999999999755 789999999999999999999999899999999999999999999999999986653211
Q ss_pred ---ccCCCcccc--CCccccccchhhhHhhhcHHHHHHHHHhhc--CceeeccCCCCCCCccCCCcccccccHHHHHHHH
Q 022557 112 ---IEVPPVALF--PNCLVQRKVLYPFRKQVGGTILAAKLAKER--GWAINVGGGFHHCSADEGGGFCAYADISLCIHYA 184 (295)
Q Consensus 112 ---~e~~~~~~~--~d~~~~~~~~~~a~~~ag~~l~a~~~~~~~--~~a~~~~~G~HHA~~~~~~GFC~~NnvAiaa~~l 184 (295)
.......+. +||++++++++++++++||++.|++.++++ ++|++|+||+|||++++++|||+|||+||||++|
T Consensus 81 ~~~~~~~~f~lg~~~D~pv~~gl~~~a~~aaGgsl~Aa~~l~~g~~~iAin~~GG~HHA~~~~A~GFC~~NdiaiAi~~L 160 (436)
T PTZ00063 81 DFTYQLKRFNVGEATDCPVFDGLFEFQQSCAGASIDGAYKLNNHQADICVNWSGGLHHAKRSEASGFCYINDIVLGILEL 160 (436)
T ss_pred cchhhhhhcccCCCCCCCcccHHHHHHHHHHhHHHHHHHHHHcCCCCEEeeCCCCCCCCccCCCCceeeecHHHHHHHHH
Confidence 001111222 599999999999999999999999999863 5899999999999999999999999999999999
Q ss_pred HHhcCCCeEEEEecCCcCChhhhHhhhCCCCEEEEEeeCCC-CCCCCcc-------cCCceeeeccCCCCCChhHHHHHH
Q 022557 185 FVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPG-IYPRDYE-------ARRFIDQKVEVVSGTTTNEYLKKL 256 (295)
Q Consensus 185 ~~~~~~~rv~IiD~D~HhGnGtq~if~~d~~Vl~~Sih~~~-~yP~~~~-------~~~~~~~NvpL~~g~~d~~y~~~~ 256 (295)
++.+ +||+|||||||||||||+|||++++|+|+|+|+.+ |||+||. .++++++|||||+|++|++|+.+|
T Consensus 161 ~~~~--~RVliID~DvHHGdGtqe~F~~~~~VltvS~H~~~~ffPgtG~~~e~G~g~G~g~~vNvPL~~G~~D~~Y~~~f 238 (436)
T PTZ00063 161 LKYH--ARVMYIDIDVHHGDGVEEAFYVTHRVMTVSFHKFGDFFPGTGDVTDIGVAQGKYYSVNVPLNDGIDDDSFVDLF 238 (436)
T ss_pred HHhC--CeEEEEeCCCCCCcchHHHhccCCCeEEEEeccCCCcCCCCCCccccCCCCCCceEEEeeCCCCCCHHHHHHHH
Confidence 9864 79999999999999999999999999999999975 9999974 246789999999999999999999
Q ss_pred HHHHHHHHhhcCCCEEEEecCCCCCCCCCCCCceeeeC
Q 022557 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKVKWG 294 (295)
Q Consensus 257 ~~~l~~~~~~f~PdlIvvsaG~D~~~~Dplg~l~lt~~ 294 (295)
+++|.|++++|+||+||+|||||+|.+||||.|+||.+
T Consensus 239 ~~ii~~~i~~f~Pd~IvvqaG~D~~~~DpLg~l~Lt~~ 276 (436)
T PTZ00063 239 KPVISKCVEVYRPGAIVLQCGADSLTGDRLGRFNLTIK 276 (436)
T ss_pred HHHHHHHHHHhCCCEEEEECCccccCCCCCCCcccCHH
Confidence 99999999999999999999999999999999999964
No 4
>PF00850 Hist_deacetyl: Histone deacetylase domain; InterPro: IPR023801 Regulation of transcription is, in part, modulated by reversible histone acetylation on several lysine. Histone deacetylases (HDA) catalyse the removal of the acetyl group. Histone deacetylases, acetoin utilization proteins and acetylpolyamine amidohydrolases are all members of this ancient protein superfamily []. HDAs function in multi-subunit complexes, reversing the acetylation of histones by histone acetyltransferases [, ], and are also believed to deacetylate general transcription factors such as TFIIF and sequence-specific transcription factors such as p53 []. Thus, HDAs contribute to the regulation of transcription, in particular transcriptional repression []. At N-terminal tails of histones, removal of the acetyl group from the epsilon-amino group of a lysine side chain will restore its positivecharge, which may stabilise the histone-DNA interaction and prevent activating transcription factors binding to promoter elements []. HDAs play important roles in the cell cycle and differentiation, and their deregulation can contribute to the development of cancer [, ]. This entry represents the structural domain found in histone deacetylases. It consists of a 3-layer(alpha-beta-alpha) sandwich.; PDB: 4A69_A 2VQV_A 2VQO_A 2VQJ_A 2VQQ_B 2VQM_A 2VQW_G 3MAX_C 3MEN_D 1T64_B ....
Probab=100.00 E-value=1.1e-70 Score=514.55 Aligned_cols=245 Identities=29% Similarity=0.459 Sum_probs=194.7
Q ss_pred CcccCcccCCCCCCCCCCChHHHHHHHHHHHC-CCCCCCeeeCCCCCCHHHHhccCCHHHHHHHhcCCCcccccc-CCCc
Q 022557 40 SPDYDISFLGIEKLHPFDSSKWGRICQFLSSE-GFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSIIIE-VPPV 117 (295)
Q Consensus 40 ~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~-gl~~~~~~i~p~~as~eel~~vHs~~YI~~l~~~~~~~~~~e-~~~~ 117 (295)
||.|. + ..+++|||+|+|++.+.+.|++. ++++. ++|+.++|++|||++||+.|++.+......+ ....
T Consensus 1 ~~~~~-~--~~~~~Hpe~p~R~~~i~~~L~~~~~l~~~------~~a~~~~L~~vH~~~Yv~~l~~~~~~~~~~~~~~~~ 71 (311)
T PF00850_consen 1 HPQYQ-H--QLGDGHPESPERLESIVEALKESYGLLPR------RPATDEELLRVHDPEYVDFLESASKEAKEEEEAGSP 71 (311)
T ss_dssp ----T-T---CCTTSSSCTHHHHHHHHHHHHTTTGGGG----------HHHHTTTS-HHHHHHHHHHHHHTSGCTHHHHH
T ss_pred CCccc-C--CCCCCcCCCHHHHHHHHHHHHHhcCCCCC------CCCCHHHHHHcCCHHHHHHHHHhccccccccccccc
Confidence 56776 3 25589999999999999999986 76543 8999999999999999999998664332111 0000
Q ss_pred c----c-cCCccccccchhhhHhhhcHHHHHHHHHhh----cCceeeccCCCCCCCccCCCcccccccHHHHHHHHHHhc
Q 022557 118 A----L-FPNCLVQRKVLYPFRKQVGGTILAAKLAKE----RGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQL 188 (295)
Q Consensus 118 ~----~-~~d~~~~~~~~~~a~~~ag~~l~a~~~~~~----~~~a~~~~~G~HHA~~~~~~GFC~~NnvAiaa~~l~~~~ 188 (295)
. + +.||++++++++++++++|+++.|++.+++ ++||+++||| |||.+++++|||+|||+||||++|++++
T Consensus 72 ~~~~~~~~~dt~~~~~~~~~a~~a~g~~l~a~~~v~~g~~~~~~a~~rppg-HHA~~~~a~GFC~~Nnvaiaa~~l~~~~ 150 (311)
T PF00850_consen 72 EFPNILDDGDTPISPGSWEAARLAAGGTLEAADAVLSGEIKNAFALVRPPG-HHAERDRAMGFCYFNNVAIAAKYLRKKY 150 (311)
T ss_dssp HHCCBTSSSSSEBCTTHHHHHHHHHHHHHHHHHHHHTTSSSEEEEEESS---TT-BTTBBBTTBSS-HHHHHHHHHHHTT
T ss_pred ccccccCCCCcceehHHHHHHHHHHHHHHHHHHhhhcccccceeeecCccc-cccCcCcCcceeeeccHHHHHHHHhhcc
Confidence 0 1 579999999999999999999999999995 4689997765 9999999999999999999999999988
Q ss_pred CCCeEEEEecCCcCChhhhHhhhCCCCEEEEEeeC--CCCCC-CCccc-------CCceeeeccCCCCCChhHHHHHHHH
Q 022557 189 NISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFN--PGIYP-RDYEA-------RRFIDQKVEVVSGTTTNEYLKKLDE 258 (295)
Q Consensus 189 ~~~rv~IiD~D~HhGnGtq~if~~d~~Vl~~Sih~--~~~yP-~~~~~-------~~~~~~NvpL~~g~~d~~y~~~~~~ 258 (295)
+++||+|||||+|||||||+|||+|++|+|+|+|+ .++|| ++|.. +.++++|||||++++|++|+.+|++
T Consensus 151 ~~~rV~iiD~DvHhGnGtq~if~~d~~V~~~SiH~~~~~~yP~~tG~~~e~G~~~g~g~~~NipL~~g~~d~~y~~~~~~ 230 (311)
T PF00850_consen 151 GLKRVAIIDFDVHHGNGTQEIFYDDPRVLYISIHQYPGNFYPFGTGFPDEIGEGKGKGYNLNIPLPPGTGDDEYLEAFEE 230 (311)
T ss_dssp TTSSEEEEE-SSS--HHHHHHTTT-SSEEEEEEEE-CTTSTTTSS--TT--ESGGGTTSEEEEEE-TTEBHHHHHHHHHH
T ss_pred ccceEEEEEeCCCCcccchhheeCCCCEEecCccccccccCCCcCCCccccCCCcccceeEecccccccchHHHHHHHhh
Confidence 99999999999999999999999999999999999 78999 77642 4568999999999999999999999
Q ss_pred HHHHHHhhcCCCEEEEecCCCCCCCCCCCCceeeeC
Q 022557 259 ALEVAGHTFDPELVIYNAGTDILEGDPLGMLKVKWG 294 (295)
Q Consensus 259 ~l~~~~~~f~PdlIvvsaG~D~~~~Dplg~l~lt~~ 294 (295)
+|.|++++|+||+||||||||+|++||+|.|+||++
T Consensus 231 ~l~~~~~~f~P~~ivvsaG~D~~~~Dplg~~~lt~~ 266 (311)
T PF00850_consen 231 ILLPALEEFRPDLIVVSAGFDAHAGDPLGGLNLTPE 266 (311)
T ss_dssp HHHHHHHHHT-SEEEEEE-STTBTTSTT-SEBB-HH
T ss_pred ccccchhcccCcEEEEccCcccchhccccCcCCCHH
Confidence 999999999999999999999999999999999974
No 5
>KOG1342 consensus Histone deacetylase complex, catalytic component RPD3 [Chromatin structure and dynamics]
Probab=100.00 E-value=2.1e-59 Score=432.94 Aligned_cols=259 Identities=25% Similarity=0.415 Sum_probs=235.4
Q ss_pred CCCceeEEECcccCcccCCCCCCCCCCChHHHHHHHHHHHCCCCCCCeeeCCCCCCHHHHhccCCHHHHHHHhcCCCccc
Q 022557 31 PIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSI 110 (295)
Q Consensus 31 ~~~~~~vvy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~i~p~~as~eel~~vHs~~YI~~l~~~~~~~~ 110 (295)
...++.+.|+++-...++ +.+||+.|.|++.+..++..+||...+++.+|..|+.+|+.++||++||++|++..+...
T Consensus 5 ~k~~V~y~yd~~vg~~~Y--g~~hpmkP~R~~mth~Lv~~YgL~k~M~i~~p~~a~~~dm~~FHt~eYi~fL~~V~p~n~ 82 (425)
T KOG1342|consen 5 IKRRVSYFYDPDVGNFHY--GQGHPMKPHRIRMTHSLVLNYGLYKKMEIYRPDKASAQDMTRFHTDEYINFLQSVTPENM 82 (425)
T ss_pred CCceEEEEecCccccccc--cCCCCCCcceehhhhHHHHhcchhhceeeccCCCCCHHHHHhhchHHHHHHHhhCCcccc
Confidence 457889999998866554 489999999999999999999999999999999999999999999999999999876433
Q ss_pred cc---cCCCccccCCccccccchhhhHhhhcHHHHHHHHHhh--cCceeeccCCCCCCCccCCCcccccccHHHHHHHHH
Q 022557 111 II---EVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKE--RGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAF 185 (295)
Q Consensus 111 ~~---e~~~~~~~~d~~~~~~~~~~a~~~ag~~l~a~~~~~~--~~~a~~~~~G~HHA~~~~~~GFC~~NnvAiaa~~l~ 185 (295)
.. +.....+..||++..++++..++.+||+|.||+.+-+ ..+|+||.||.|||+++.|+||||+||++++|..|+
T Consensus 83 ~~~~~~~~~fNvg~DCPvF~gL~~fC~~~~GgSl~aa~kLn~~~~dIaINW~GGlHHAKK~eASGFCYvNDIVL~ILeLl 162 (425)
T KOG1342|consen 83 ETFNKELKQFNVGEDCPVFDGLYDYCQLYTGGSLNAAQKLNRGECDIAINWAGGLHHAKKSEASGFCYVNDIVLGILELL 162 (425)
T ss_pred cccchHHHhcCCCCCCccccCHHHHHHHhcccchHHHHHhCCCCceEEEecCcccccccccccCcceeehHHHHHHHHHH
Confidence 21 2233456789999999999999999999999987754 359999999999999999999999999999999999
Q ss_pred HhcCCCeEEEEecCCcCChhhhHhhhCCCCEEEEEeeCC--CCCCCCcc-------cCCceeeeccCCCCCChhHHHHHH
Q 022557 186 VQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNP--GIYPRDYE-------ARRFIDQKVEVVSGTTTNEYLKKL 256 (295)
Q Consensus 186 ~~~~~~rv~IiD~D~HhGnGtq~if~~d~~Vl~~Sih~~--~~yP~~~~-------~~~~~~~NvpL~~g~~d~~y~~~~ 256 (295)
+.+ +||++||+|+|||||+|++||..++|+|+|+|.. +|||+||. .++.|.|||||..|++|+.|..+|
T Consensus 163 K~h--~RVLYIDIDvHHGDGVEeAFy~TDRVmTvSfHKyg~~fFPGTG~l~d~G~~kGkyyavNVPL~dGidD~sy~~if 240 (425)
T KOG1342|consen 163 KYH--KRVLYIDIDVHHGDGVEEAFYTTDRVMTVSFHKYGPGFFPGTGDLSDIGAGKGKYYAVNVPLKDGIDDESYESIF 240 (425)
T ss_pred HhC--CceEEEEecccCCccHHHHHhccceeEEEEEEeccCCCCCCCCcceeccCCCCceEEEccchhccCCcHHHHHHH
Confidence 975 6999999999999999999999999999999974 59999984 356789999999999999999999
Q ss_pred HHHHHHHHhhcCCCEEEEecCCCCCCCCCCCCceeee
Q 022557 257 DEALEVAGHTFDPELVIYNAGTDILEGDPLGMLKVKW 293 (295)
Q Consensus 257 ~~~l~~~~~~f~PdlIvvsaG~D~~~~Dplg~l~lt~ 293 (295)
+.++.++++.|+|++||+|+|.|++.+|+||.|+||.
T Consensus 241 ~pIi~~v~e~f~P~AiVLQCGaDSL~gDRlgcFnLsi 277 (425)
T KOG1342|consen 241 KPIISKVMERFQPEAIVLQCGADSLAGDRLGCFNLSI 277 (425)
T ss_pred HHHHHHHHHHhCCceEEEEcCCccccCCccceeeecc
Confidence 9999999999999999999999999999999999996
No 6
>KOG1344 consensus Predicted histone deacetylase [Chromatin structure and dynamics]
Probab=100.00 E-value=1.6e-52 Score=365.81 Aligned_cols=273 Identities=58% Similarity=0.995 Sum_probs=259.5
Q ss_pred ccccccccccCCCceeEEECcccCcccCCCCCCCCCCChHHHHHHHHHHHCCCCCCCeeeCCCCCCHHHHhccCCHHHHH
Q 022557 21 ILSSKLYFDIPIFKLPLIYSPDYDISFLGIEKLHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLK 100 (295)
Q Consensus 21 ~~~~~~~~~~~~~~~~vvy~~~~~~h~~~~~~~Hpe~p~R~~~i~~~L~~~gl~~~~~~i~p~~as~eel~~vHs~~YI~ 100 (295)
.+..+++++.|..+++++|++.|...+.++++.||++..++..|.+.|.+++++....+++|.++++|+|++|||.+|++
T Consensus 2 v~~~kly~~vp~~k~pIvyS~~Y~i~FmGlEkLHPFDa~Kwg~v~kfL~~~~~l~d~~lvEp~e~t~e~L~rvHtr~YLk 81 (324)
T KOG1344|consen 2 VVWVKLYDAVPAGKLPIVYSRNYAIRFMGLEKLHPFDAAKWGHVHKFLCAMNLLTDETLVEPNEATKEDLLRVHTRKYLK 81 (324)
T ss_pred ceeeeecccCccccccEEecCccceeecchhhcCcCcccchhHHHHHHHHhccccccccccCcccCHHHHHhHhhHHHHH
Confidence 34567899999999999999999999999999999999999999999999999998899999999999999999999999
Q ss_pred HHhcCCCccccccCCCccccCCccccccchhhhHhhhcHHHHHHHHHhhcCceeeccCCCCCCCccCCCcccccccHHHH
Q 022557 101 SLQSSPNVSIIIEVPPVALFPNCLVQRKVLYPFRKQVGGTILAAKLAKERGWAINVGGGFHHCSADEGGGFCAYADISLC 180 (295)
Q Consensus 101 ~l~~~~~~~~~~e~~~~~~~~d~~~~~~~~~~a~~~ag~~l~a~~~~~~~~~a~~~~~G~HHA~~~~~~GFC~~NnvAia 180 (295)
.++..-..+++.|++...+.|+|++.+..+...++.+||++.|+++++++|+|+|.+||||||..++++|||.+-|+.+|
T Consensus 82 slr~s~~vA~I~EiP~v~flPn~~iqrk~LrPlR~QagGtilA~kLAle~GWAINvGGGFHHcss~rGGGFC~yADItl~ 161 (324)
T KOG1344|consen 82 SLRWSIKVAQITEIPFVGFLPNCIIQRKLLRPLRLQAGGTILAAKLALERGWAINVGGGFHHCSSSRGGGFCAYADITLA 161 (324)
T ss_pred HhhccceeeEEEeccccccCchhhhhhhhccceeeccCceeehhhhhhhcCeEEeecCccceeccCCCCceeehhhHHHH
Confidence 99987777778899988999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHHhcCCCeEEEEecCCcCChhhhHhhhCCCCEEEEEeeCCCCCCCCcccCCceeeeccCCCCCChhHHHHHHHHHH
Q 022557 181 IHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDEAL 260 (295)
Q Consensus 181 a~~l~~~~~~~rv~IiD~D~HhGnGtq~if~~d~~Vl~~Sih~~~~yP~~~~~~~~~~~NvpL~~g~~d~~y~~~~~~~l 260 (295)
+..+-++..+.|++|||+|+|+|||.+.-|.++ .|+.+.++..-+||+...+++.....|.|..|+.|++|++.+++.+
T Consensus 162 I~~lFer~~isr~mivDLDAHQGNghErdf~~~-~vyi~d~ynr~iyp~D~~Ak~~Ir~kVEl~~gTeddeYLrkl~r~l 240 (324)
T KOG1344|consen 162 IFFLFERKAISRAMIVDLDAHQGNGHERDFEDD-AVYIFDMYNRFIYPRDHVAKESIRCKVELRNGTEDDEYLRKLKRCL 240 (324)
T ss_pred HHHHHhhhhhhheEEEecccccCCccccccccc-eeehhhhhhhhccchhHHHHHHhhheeeeecCCCchHHHHHHHHHH
Confidence 999999888999999999999999999999888 7888899999999998877777788999999999999999999999
Q ss_pred HHHHhhcCCCEEEEecCCCCCCCCCCCCceeeeC
Q 022557 261 EVAGHTFDPELVIYNAGTDILEGDPLGMLKVKWG 294 (295)
Q Consensus 261 ~~~~~~f~PdlIvvsaG~D~~~~Dplg~l~lt~~ 294 (295)
...+.+|+||+||+.||.|.+++||||.|.+|++
T Consensus 241 ~~sl~ef~Pd~VvYNAGTDiLeGDpLG~L~ISp~ 274 (324)
T KOG1344|consen 241 MQSLAEFRPDMVVYNAGTDILEGDPLGNLAISPE 274 (324)
T ss_pred HHHHHhhCCcEEEEeCCCccccCCCCCCeeeccc
Confidence 9999999999999999999999999999999986
No 7
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]
Probab=100.00 E-value=2e-41 Score=344.12 Aligned_cols=231 Identities=26% Similarity=0.375 Sum_probs=182.4
Q ss_pred CCCCCChHHHHHHHHHHHCCCCCCCeeeCCCCCCHHHHhccCCHHHHHHHhcCCCccc---cccCCCccccCCccccccc
Q 022557 53 LHPFDSSKWGRICQFLSSEGFLDKNCIVEPLEASKEDLLVVHSESYLKSLQSSPNVSI---IIEVPPVALFPNCLVQRKV 129 (295)
Q Consensus 53 ~Hpe~p~R~~~i~~~L~~~gl~~~~~~i~p~~as~eel~~vHs~~YI~~l~~~~~~~~---~~e~~~~~~~~d~~~~~~~ 129 (295)
.||+.|.| ..-.+. .|++.+|+.+ |+.++++.||+..|+..+.+...... ..+.. .....+++.+.+
T Consensus 464 ~~~~~p~r---~~t~~~-~gl~~~c~r~----at~~el~~vHs~~~~~~~~~~~~~~~~~~~~~~~--~~~~~i~~~~dt 533 (797)
T KOG1343|consen 464 RSPESPAR---FTTGLH-TGLLGKCERI----ATLEELQLVHSEAHVLLYGSRKLLGDLSLKFESR--LPCGGIGVDSDT 533 (797)
T ss_pred CCcccchh---hhcccc-cccccccccc----cchhhhhhcccchhhcccchhhhcccccchhhhh--ccccceeecccH
Confidence 68899999 222222 7888888877 99999999999999999653221111 11100 011223334444
Q ss_pred hhhhHhhhcHHHHHHHHHh------hcCceeeccCCCCCCCccCCCcccccccHHHHHHHHHHhcCCCeEEEEecCCcCC
Q 022557 130 LYPFRKQVGGTILAAKLAK------ERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQG 203 (295)
Q Consensus 130 ~~~a~~~ag~~l~a~~~~~------~~~~a~~~~~G~HHA~~~~~~GFC~~NnvAiaa~~l~~~~~~~rv~IiD~D~HhG 203 (295)
|.....++|++..++..++ ..|+|++|+|| |||.+..++|||+|||+|||+++++..+.+.||+|+|||||||
T Consensus 534 ~~~~~~ssga~~~av~~v~~~~~~~~~g~avvRppG-Hha~~~~a~gfc~fn~vaiaak~l~~~~~~~rilivdwDvhhg 612 (797)
T KOG1343|consen 534 WWNELHSSGAARLAVGCVIELAFKVASGFAVVRPPG-HHAEASTAMGFCFFNSVAIAAKLLQQRSKASRILIVDWDVHHG 612 (797)
T ss_pred HHHHHHHHHHHHHhcchhhhhhhhhhcceeEecCCc-cccccCCcceeeeecchhhhhHHhhhhhhhcceEEEeecccCC
Confidence 5555555555555554442 13799999997 9999999999999999999999999998789999999999999
Q ss_pred hhhhHhhhCCCCEEEEEeeC---CCCCCCCcc-------cCCceeeeccCCCCC-ChhHHHHHHHHHHHHHHhhcCCCEE
Q 022557 204 NGHEKDFSSDSRVYILDMFN---PGIYPRDYE-------ARRFIDQKVEVVSGT-TTNEYLKKLDEALEVAGHTFDPELV 272 (295)
Q Consensus 204 nGtq~if~~d~~Vl~~Sih~---~~~yP~~~~-------~~~~~~~NvpL~~g~-~d~~y~~~~~~~l~~~~~~f~PdlI 272 (295)
||||.+||++++|+|+|+|. .++||++|. .+.++|+||+++.+. +|.+|+.++++++.|+.++|.||+|
T Consensus 613 ngtq~~f~~~~~vlyislhr~~~G~~fp~~g~~~e~g~~~g~g~~vNv~~~~~~~~D~ey~~a~~~vv~Pia~~F~pd~V 692 (797)
T KOG1343|consen 613 NGTQQAFYSDPSVLYISLHRHDDGNFFPGSGAPDEVGKGEGVGFNVNVAWTGGLDPDAEYLAAFRTVVMPIAYEFNPDLV 692 (797)
T ss_pred cceeeeeccCccccccccchhccCCcCCCCCCchhcccccccceeecccccCCCCCCHHHHHHHHHhhHHHHHHhCCCeE
Confidence 99999999999999999985 368999842 356789999997654 4699999999999999999999999
Q ss_pred EEecCCCCCCCCCCCCceeeeC
Q 022557 273 IYNAGTDILEGDPLGMLKVKWG 294 (295)
Q Consensus 273 vvsaG~D~~~~Dplg~l~lt~~ 294 (295)
++|+|||+..+||||+..+|.+
T Consensus 693 lvSagfDaa~~dplg~~~vt~~ 714 (797)
T KOG1343|consen 693 LVSAGFDAAEGDPLGGYKVTAE 714 (797)
T ss_pred EEeccccccccCccccccccHh
Confidence 9999999999999999999864
No 8
>KOG1343 consensus Histone deacetylase complex, catalytic component HDA1 [Chromatin structure and dynamics]
Probab=99.98 E-value=2.9e-33 Score=284.75 Aligned_cols=262 Identities=18% Similarity=0.208 Sum_probs=222.0
Q ss_pred CCceeEEECcccCcccCCCCCCCC-CCChHHHHHHHHHHHCCCCCCCeeeCC-CCCCHHHHhccCCHHHHHHHhcCCCcc
Q 022557 32 IFKLPLIYSPDYDISFLGIEKLHP-FDSSKWGRICQFLSSEGFLDKNCIVEP-LEASKEDLLVVHSESYLKSLQSSPNVS 109 (295)
Q Consensus 32 ~~~~~vvy~~~~~~h~~~~~~~Hp-e~p~R~~~i~~~L~~~gl~~~~~~i~p-~~as~eel~~vHs~~YI~~l~~~~~~~ 109 (295)
.+++.++|++.+..|....+..|+ +.++|++++.+.+.+.++.+.+.+..+ +.+++++++.+|+++|++.+.....+.
T Consensus 28 ~~~~~l~~~~~~~~h~~~~~~~~~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~~~v~~ke~~~~~~~t~~~~ 107 (797)
T KOG1343|consen 28 QIQKQLLFAEFQKQHENQQELLEKEEKLERLRQIEEELERHRLEQPLLILRNKREAKESAVASVHVKEKLQEFLLSKKMT 107 (797)
T ss_pred hhhhhhhhhhhhhhhhcccccccchhhhhHHHHHHHHhhccCCccccccccchhhcccchhcccccHHHHHHHHhhhhhc
Confidence 578999999999988643334444 889999999999999998887776665 999999999999999999998765322
Q ss_pred ccccCC-CccccCCccccccchhhhHhhhcHHHHHHHHHh----hcCceeeccCCCCCCCccCCCcccccccHHHHHHHH
Q 022557 110 IIIEVP-PVALFPNCLVQRKVLYPFRKQVGGTILAAKLAK----ERGWAINVGGGFHHCSADEGGGFCAYADISLCIHYA 184 (295)
Q Consensus 110 ~~~e~~-~~~~~~d~~~~~~~~~~a~~~ag~~l~a~~~~~----~~~~a~~~~~G~HHA~~~~~~GFC~~NnvAiaa~~l 184 (295)
...... ...-.+.+|.++.++..+..+.|+.+...+.++ .++.+.++++| |||+++...|||+|||||++++..
T Consensus 108 ~e~~l~~~~~~~~~~~~~~~s~~~a~~a~~~~~~~~~~~~~~~~~n~~a~v~p~~-hhsep~~~~~~cl~n~Va~~~~~~ 186 (797)
T KOG1343|consen 108 AEEGLNHSSSRYPSLYYTSASHSSADQASGSLSGSYKAVLAGKASNGKADFRPPG-HHSEPNLKVGFCLFNNVAERRSSP 186 (797)
T ss_pred chhhhhcccCCCCcceecCCchhhhcccCcccccccccccCCcccCccCcCCCCC-CccccchhcchhHHHHHHHHhhcc
Confidence 211111 112357788899999999999999998776654 35689999887 999999999999999999999999
Q ss_pred HHhcCCCeEEEEecCCcCChhhhHhhhC--CCCEEEEEeeC---CCCCCCCc---------ccCCceeeeccC-CCCCCh
Q 022557 185 FVQLNISRVMIIDLDAHQGNGHEKDFSS--DSRVYILDMFN---PGIYPRDY---------EARRFIDQKVEV-VSGTTT 249 (295)
Q Consensus 185 ~~~~~~~rv~IiD~D~HhGnGtq~if~~--d~~Vl~~Sih~---~~~yP~~~---------~~~~~~~~NvpL-~~g~~d 249 (295)
..++..+||.|+|||+|||+|||-.|++ |++|+++|+|. ..|||... +.+.++++|+|+ .-+++|
T Consensus 187 ~~~~~~rri~i~d~dvh~g~Gtq~~~~~~~d~~vl~~s~~r~e~~~f~P~~~~g~~~~~~~g~~~g~~~nl~~~~~g~~~ 266 (797)
T KOG1343|consen 187 LLRRKKRRILIVDWDVHHGPGTQPSSPNNGDQRVLYFSLHRLETGPFLPNITLGLATLRGGGPGLGQTGNLPWNQVGMTD 266 (797)
T ss_pred ccccccceeEeecccccCCCCCCCccCCCcccccccccchhcccCCcCCCCccchHHHhCcCCCcceeeccchhhcCCcc
Confidence 8887789999999999999999999999 99999999986 46999954 235678999998 468899
Q ss_pred hHHHHHHHHHHHHHHhhcCCCEEEEecCCCCCCCCC-CCCceeeeC
Q 022557 250 NEYLKKLDEALEVAGHTFDPELVIYNAGTDILEGDP-LGMLKVKWG 294 (295)
Q Consensus 250 ~~y~~~~~~~l~~~~~~f~PdlIvvsaG~D~~~~Dp-lg~l~lt~~ 294 (295)
.+|..+|..++.|...+|+||+|++++|||+..+|| +|.|..||.
T Consensus 267 ~dy~~~~~~~~~~~~~efqp~Lv~~sag~dA~lg~~~~~~m~~tP~ 312 (797)
T KOG1343|consen 267 ADYEAAFLHVLLPHASEFQPDLLLVSAGFDALLGDGPVGLMAQTPL 312 (797)
T ss_pred hhhhhhhhccCccchhhcCcceEEeeccccccccCcccCcccCCcc
Confidence 999999999999999999999999999999999997 699999875
No 9
>KOG0121 consensus Nuclear cap-binding protein complex, subunit CBP20 (RRM superfamily) [RNA processing and modification]
Probab=71.14 E-value=3.7 Score=33.96 Aligned_cols=48 Identities=23% Similarity=0.184 Sum_probs=34.9
Q ss_pred CCCCccCCCccccc-----ccHHHHHHHHHHhcCCCeEEEEecCCcCChhhhH
Q 022557 161 HHCSADEGGGFCAY-----ADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEK 208 (295)
Q Consensus 161 HHA~~~~~~GFC~~-----NnvAiaa~~l~~~~~~~rv~IiD~D~HhGnGtq~ 208 (295)
---..-.+.|||++ .++-.|++|+-...--+|+.-+|||.-.=+|-|.
T Consensus 70 Ldr~kktpCGFCFVeyy~~~dA~~AlryisgtrLddr~ir~D~D~GF~eGRQy 122 (153)
T KOG0121|consen 70 LDRFKKTPCGFCFVEYYSRDDAEDALRYISGTRLDDRPIRIDWDAGFVEGRQY 122 (153)
T ss_pred cccCCcCccceEEEEEecchhHHHHHHHhccCcccccceeeeccccchhhhhh
Confidence 33445678999987 3566677877544323899999999988788774
No 10
>TIGR03018 pepcterm_TyrKin exopolysaccharide/PEPCTERM locus tyrosine autokinase. Members of this protein family are related to a known protein-tyrosine autokinase and to numerous homologs from exopolysaccharide biosynthesis region proteins, many of which are designated as chain length determinants. Most members of this family contain a short region, immediately C-terminal to the region modeled here, with an abundance of Tyr residues. These C-terminal tyrosine residues are likely to be autophosphorylation sites. Some members of this family are fusion proteins.
Probab=68.62 E-value=10 Score=33.06 Aligned_cols=24 Identities=8% Similarity=0.313 Sum_probs=19.0
Q ss_pred HHHHHHHHHHHhhcCCCEEEEecC
Q 022557 254 KKLDEALEVAGHTFDPELVIYNAG 277 (295)
Q Consensus 254 ~~~~~~l~~~~~~f~PdlIvvsaG 277 (295)
..+++++..+.++|++|+||+-++
T Consensus 134 ~~l~~~l~~l~~~y~~D~IiiD~p 157 (207)
T TIGR03018 134 QRMRSLLHELARRYPDRIIIIDTP 157 (207)
T ss_pred HHHHHHHHHHHhhCCCCEEEEECC
Confidence 356777777778888899999886
No 11
>PF09754 PAC2: PAC2 family; InterPro: IPR019151 This PAC2 (Proteasome assembly chaperone) family of proteins is found in bacteria, archaea and eukaryotes. Proteins in this family are typically between 247 and 307 amino acids in length. These proteins function as a chaperone for the 26S proteasome, which is about 2000 kilodaltons (kDa) in molecular mass and contains one 20S core particle structure and two 19S regulatory caps. The 26S proteasome mediates ubiquitin-dependent proteolysis in eukaryotic cells. A number of studies including very recent ones have revealed that assembly of its 20S catalytic core particle is an ordered process that involves several conserved proteasome assembly chaperones (PACs). Two heterodimeric chaperones, PAC1-PAC2 and PAC3-PAC4, promote the assembly of rings composed of seven alpha subunits [, , , ].; PDB: 3MNF_A 2P90_B 3E35_A 3GAA_D 2WAM_C.
Probab=64.59 E-value=7.6 Score=34.06 Aligned_cols=93 Identities=19% Similarity=0.141 Sum_probs=50.5
Q ss_pred HHHHHHHHHhcCCCeEEEEecCCcCC-hhhhHhhhCCCCEEEEEeeCC--CCCCCCc---ccCCce---eeeccCCCCCC
Q 022557 178 SLCIHYAFVQLNISRVMIIDLDAHQG-NGHEKDFSSDSRVYILDMFNP--GIYPRDY---EARRFI---DQKVEVVSGTT 248 (295)
Q Consensus 178 Aiaa~~l~~~~~~~rv~IiD~D~HhG-nGtq~if~~d~~Vl~~Sih~~--~~yP~~~---~~~~~~---~~NvpL~~g~~ 248 (295)
-+|+.|+.++.+.++|..||.|-++- .|.. | + +.+++. ..+|... ..+..+ ..+.|.+++
T Consensus 13 ~la~d~Li~~l~~~~vg~i~~~~~~P~~~~~------p-~--~~~~~g~~~~~~~~~iy~~~~~~i~vl~~~~p~~~~-- 81 (219)
T PF09754_consen 13 QLAVDHLIESLNLEKVGYIDSDPLFPYVGPR------P-Y--VVVDDGSNILSPPLEIYYSEDSKILVLQGRSPIPPG-- 81 (219)
T ss_dssp HHHHHHHHHHSCEEEEEEE-HHHHSBTTTS---------E--EEEETTEEEEB-SEEEEEEECTTEEEEEESSE--SC--
T ss_pred HHHHHHHHHhCCCEEEEEEeccccCCCccCC------C-e--EEeccccceeccceEEEEECCCCEEEEEecCCCCch--
Confidence 46899999999999999999855442 2211 1 1 111111 1111100 000011 123466543
Q ss_pred hhHHHHHHHHHHHHHHhhcCCCEEEEecCCCCCCCC
Q 022557 249 TNEYLKKLDEALEVAGHTFDPELVIYNAGTDILEGD 284 (295)
Q Consensus 249 d~~y~~~~~~~l~~~~~~f~PdlIvvsaG~D~~~~D 284 (295)
+...|-+.+...+++++..-||+-.|+++....
T Consensus 82 ---~~~~f~~~l~~~~~~~g~~~vi~l~g~~~~~~~ 114 (219)
T PF09754_consen 82 ---RWYEFAEELLDWIKSFGVKEVIVLGGLPAMEPH 114 (219)
T ss_dssp ---GHHHHHHHHHHHHHHTTECEEEEEEEEEESS-T
T ss_pred ---HHHHHHHHHHHHHHHcCCCEEEEEeCCcCCCCc
Confidence 333444456677899999999999999988755
No 12
>TIGR02855 spore_yabG sporulation peptidase YabG. Members of this family are the protein YabG, demonstrated for Bacillus subtilis to be an endopeptidase able to release N-terminal peptides from a number of sporulation proteins, including CotT, CotF, and SpoIVA. It appears to be expressed under control of sigma-K.
Probab=64.36 E-value=9 Score=35.49 Aligned_cols=26 Identities=15% Similarity=0.298 Sum_probs=20.3
Q ss_pred HHHHHHHhhcCCCEEEEecCCCCCCCC
Q 022557 258 EALEVAGHTFDPELVIYNAGTDILEGD 284 (295)
Q Consensus 258 ~~l~~~~~~f~PdlIvvsaG~D~~~~D 284 (295)
+.+.+++++++||++|+ +|-|+...+
T Consensus 143 ~~i~~Ll~~~~PDIlVi-TGHD~~~K~ 168 (283)
T TIGR02855 143 EKVLDLIEEVRPDILVI-TGHDAYSKN 168 (283)
T ss_pred HHHHHHHHHhCCCEEEE-eCchhhhcC
Confidence 34557789999998765 899998754
No 13
>TIGR01969 minD_arch cell division ATPase MinD, archaeal. This model represents the archaeal branch of the MinD family. MinD, a weak ATPase, works in bacteria with MinC as a generalized cell division inhibitor and, through interaction with MinE, prevents septum placement inappropriate sites. Often several members of this family are found in archaeal genomes, and the function is uncharacterized. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. The exact roles of the various archaeal MinD homologs are unknown.
Probab=62.21 E-value=9.9 Score=33.56 Aligned_cols=19 Identities=26% Similarity=0.517 Sum_probs=14.8
Q ss_pred HHhcCCCeEEEEecCCcCCh
Q 022557 185 FVQLNISRVMIIDLDAHQGN 204 (295)
Q Consensus 185 ~~~~~~~rv~IiD~D~HhGn 204 (295)
+.+.| .||++||+|..+||
T Consensus 25 la~~g-~~VlliD~D~~~~~ 43 (251)
T TIGR01969 25 LAKLG-KKVLALDADITMAN 43 (251)
T ss_pred HHHCC-CeEEEEeCCCCCcc
Confidence 33444 69999999998876
No 14
>PRK13236 nitrogenase reductase; Reviewed
Probab=61.30 E-value=9.4 Score=35.47 Aligned_cols=32 Identities=16% Similarity=0.239 Sum_probs=22.0
Q ss_pred HHHHHHHHHhcCCCeEEEEecCCcCChhhhHhhh
Q 022557 178 SLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFS 211 (295)
Q Consensus 178 Aiaa~~l~~~~~~~rv~IiD~D~HhGnGtq~if~ 211 (295)
|+-+.+++.+.| +||++||+|.+.+| |.-+|.
T Consensus 23 a~NLA~~La~~G-~rVLliD~D~q~~~-~~~l~~ 54 (296)
T PRK13236 23 SQNTLAAMAEMG-QRILIVGCDPKADS-TRLMLH 54 (296)
T ss_pred HHHHHHHHHHCC-CcEEEEEccCCCCc-cchhcc
Confidence 444444555555 69999999999877 555554
No 15
>COG0683 LivK ABC-type branched-chain amino acid transport systems, periplasmic component [Amino acid transport and metabolism]
Probab=53.16 E-value=52 Score=31.19 Aligned_cols=35 Identities=26% Similarity=0.294 Sum_probs=30.4
Q ss_pred HHHHHHHHHHhcCCCeEEEEecCCcCChhhhHhhh
Q 022557 177 ISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFS 211 (295)
Q Consensus 177 vAiaa~~l~~~~~~~rv~IiD~D~HhGnGtq~if~ 211 (295)
.+.++.|+.++.+.+||+||+-|.=.|.|..+.|.
T Consensus 135 ~~~~~~~l~~~~~~k~v~ii~~~~~yg~~~~~~~~ 169 (366)
T COG0683 135 AAAAADYLVKKGGKKRVAIIGDDYAYGEGLADAFK 169 (366)
T ss_pred HHHHHHHHHHhcCCcEEEEEeCCCCcchhHHHHHH
Confidence 45577888888777799999999999999999985
No 16
>TIGR01287 nifH nitrogenase iron protein. This model describes nitrogenase (EC 1.18.6.1) iron protein, also called nitrogenase reductase or nitrogenase component II. This model includes molybdenum-iron nitrogenase reductase (nifH), vanadium-iron nitrogenase reductase (vnfH), and iron-iron nitrogenase reductase (anfH). The model excludes the homologous protein from the light-independent protochlorophyllide reductase.
Probab=50.68 E-value=21 Score=32.35 Aligned_cols=22 Identities=23% Similarity=0.511 Sum_probs=14.9
Q ss_pred HHHhcCCCeEEEEecCCcCChhhh
Q 022557 184 AFVQLNISRVMIIDLDAHQGNGHE 207 (295)
Q Consensus 184 l~~~~~~~rv~IiD~D~HhGnGtq 207 (295)
++.+.| +||++||+|... |.|.
T Consensus 23 ~La~~G-~~VlliD~D~q~-~~~~ 44 (275)
T TIGR01287 23 ALAEMG-KKVMIVGCDPKA-DSTR 44 (275)
T ss_pred HHHHCC-CeEEEEeCCCCC-Cccc
Confidence 333445 699999999874 4444
No 17
>PRK10818 cell division inhibitor MinD; Provisional
Probab=50.03 E-value=21 Score=32.19 Aligned_cols=19 Identities=26% Similarity=0.333 Sum_probs=15.0
Q ss_pred hcCCCeEEEEecCCcCChhh
Q 022557 187 QLNISRVMIIDLDAHQGNGH 206 (295)
Q Consensus 187 ~~~~~rv~IiD~D~HhGnGt 206 (295)
+.| +||++||+|.+.||-+
T Consensus 29 ~~g-~~vllvD~D~~~~~~~ 47 (270)
T PRK10818 29 QKG-KKTVVIDFDIGLRNLD 47 (270)
T ss_pred HCC-CeEEEEECCCCCCChh
Confidence 334 6999999999888743
No 18
>PF02585 PIG-L: GlcNAc-PI de-N-acetylase; InterPro: IPR003737 A number of the members of this family have been characterised as a probable N-acetylglucosaminyl-phosphatidylinositol de-N-acetylase, (3.5.1.89 from EC) that catalyses the second step in glycosylphosphatidylinositol (GPI) biosynthesis [, ]. The family also includes a number of thiol biosynthesis proteins. ; PDB: 2XAD_C 2X9L_A 3DFK_A 3DFM_A 3DFF_A 2IXD_A 1UAN_A 1Q74_B 1Q7T_B 3DFI_A.
Probab=49.37 E-value=32 Score=27.22 Aligned_cols=28 Identities=25% Similarity=0.253 Sum_probs=19.7
Q ss_pred HHHHHHHHHHHHhhcCCCEEEEecCCCC
Q 022557 253 LKKLDEALEVAGHTFDPELVIYNAGTDI 280 (295)
Q Consensus 253 ~~~~~~~l~~~~~~f~PdlIvvsaG~D~ 280 (295)
...+.+.|..++++++|++|+.-...|.
T Consensus 85 ~~~~~~~l~~~i~~~~p~~V~t~~~~~~ 112 (128)
T PF02585_consen 85 WEELVRDLEDLIREFRPDVVFTPDPDDG 112 (128)
T ss_dssp HHHHHHHHHHHHHHH-ESEEEEE-STTS
T ss_pred HHHHHHHHHHHHHHcCCCEEEECCCCCC
Confidence 3344455667789999999999988887
No 19
>CHL00175 minD septum-site determining protein; Validated
Probab=47.32 E-value=25 Score=31.97 Aligned_cols=20 Identities=35% Similarity=0.312 Sum_probs=15.9
Q ss_pred hcCCCeEEEEecCCcCChhhh
Q 022557 187 QLNISRVMIIDLDAHQGNGHE 207 (295)
Q Consensus 187 ~~~~~rv~IiD~D~HhGnGtq 207 (295)
+.| +||++||+|...||-+.
T Consensus 42 ~~g-~~vlliD~D~~~~~l~~ 61 (281)
T CHL00175 42 RLG-YRVALIDADIGLRNLDL 61 (281)
T ss_pred hCC-CeEEEEeCCCCCCChhh
Confidence 344 69999999999988554
No 20
>PRK13232 nifH nitrogenase reductase; Reviewed
Probab=44.18 E-value=23 Score=32.08 Aligned_cols=21 Identities=5% Similarity=0.292 Sum_probs=15.1
Q ss_pred hcCCCeEEEEecCCcCChhhhHh
Q 022557 187 QLNISRVMIIDLDAHQGNGHEKD 209 (295)
Q Consensus 187 ~~~~~rv~IiD~D~HhGnGtq~i 209 (295)
+.| +||++||+|.+..+ |.-+
T Consensus 27 ~~G-~rVllvD~Dpq~~~-~~~l 47 (273)
T PRK13232 27 TMG-NKILLVGCDPKADS-TRML 47 (273)
T ss_pred hhC-CCeEEEeccccccc-chhh
Confidence 334 69999999998665 4433
No 21
>PHA02518 ParA-like protein; Provisional
Probab=42.98 E-value=37 Score=28.92 Aligned_cols=21 Identities=29% Similarity=0.596 Sum_probs=14.3
Q ss_pred HHhcCCCeEEEEecCCcCChhhh
Q 022557 185 FVQLNISRVMIIDLDAHQGNGHE 207 (295)
Q Consensus 185 ~~~~~~~rv~IiD~D~HhGnGtq 207 (295)
+.+.| .||++||+|- +++-+.
T Consensus 25 la~~g-~~vlliD~D~-q~~~~~ 45 (211)
T PHA02518 25 LHADG-HKVLLVDLDP-QGSSTD 45 (211)
T ss_pred HHhCC-CeEEEEeCCC-CCChHH
Confidence 33444 6999999996 455554
No 22
>cd03110 Fer4_NifH_child This protein family's function is unkown. It contains nucleotide binding site. It uses NTP as energy source to transfer electron or ion.
Probab=42.56 E-value=18 Score=30.42 Aligned_cols=15 Identities=27% Similarity=0.299 Sum_probs=12.8
Q ss_pred CeEEEEecCCcCChh
Q 022557 191 SRVMIIDLDAHQGNG 205 (295)
Q Consensus 191 ~rv~IiD~D~HhGnG 205 (295)
+||++||.|...+|-
T Consensus 25 ~~vlliD~D~~~~~~ 39 (179)
T cd03110 25 KNVVLADCDVDAPNL 39 (179)
T ss_pred hCcEEEECCCCCCch
Confidence 599999999998663
No 23
>cd02036 MinD Bacterial cell division requires the formation of a septum at mid-cell. The site is determined by the min operon products MinC, MinD and MinE. MinC is a nonspecific inhibitor of the septum protein FtsZ. MinE is the supressor of MinC. MinD plays a pivotal role, selecting the mid-cell over other sites through the activation and regulation of MinC and MinE. MinD is a membrane-associated ATPase, related to nitrogenase iron protein. More distantly related proteins include flagellar biosynthesis proteins and ParA chromosome partitioning proteins. MinD is a monomer.
Probab=42.12 E-value=38 Score=27.95 Aligned_cols=17 Identities=29% Similarity=0.249 Sum_probs=14.3
Q ss_pred CeEEEEecCCcCChhhh
Q 022557 191 SRVMIIDLDAHQGNGHE 207 (295)
Q Consensus 191 ~rv~IiD~D~HhGnGtq 207 (295)
.||++||+|...||-+.
T Consensus 29 ~~vllvD~D~~~~~~~~ 45 (179)
T cd02036 29 YKVVLIDADLGLRNLDL 45 (179)
T ss_pred CeEEEEeCCCCCCCchh
Confidence 69999999998877554
No 24
>cd06355 PBP1_FmdD_like Periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF). This group includes the periplasmic component (FmdD) of an active transport system for short-chain amides and urea (FmdDEF), found in Methylophilus methylotrophus, and its homologs from other bacteria. FmdD, a type I periplasmic binding protein, is induced by short-chain amides and urea and repressed by excess ammonia, while FmdE and FmdF are hydrophobic transmembrane proteins. FmdDEF is predicted to be an ATP-dependent transporter and closely resembles the periplasmic binding protein and the two transmembrane proteins present in various hydrophobic amino acid-binding transport systems.
Probab=41.97 E-value=64 Score=30.08 Aligned_cols=34 Identities=12% Similarity=0.085 Sum_probs=27.2
Q ss_pred HHHHHHHHHHhcCCCeEEEEecCCcCChhhhHhh
Q 022557 177 ISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDF 210 (295)
Q Consensus 177 vAiaa~~l~~~~~~~rv~IiD~D~HhGnGtq~if 210 (295)
+..+++|+.++.+.+||++|--|.=.|.+..+.|
T Consensus 120 ~~~~~~~~~~~~g~k~vaii~~d~~~g~~~~~~~ 153 (348)
T cd06355 120 IIPAVDWLMSNKGGKRFYLVGSDYVYPRTANKIL 153 (348)
T ss_pred HHHHHHHHHhccCCCeEEEECCcchHHHHHHHHH
Confidence 3566788887778999999988877888877766
No 25
>PF02310 B12-binding: B12 binding domain; InterPro: IPR006158 The cobalamin (vitamin B12) binding domain can bind two different forms of the cobalamin cofactor, with cobalt bonded either to a methyl group (methylcobalamin) or to 5'-deoxyadenosine (adenosylcobalamin). Cobalamin-binding domains are mainly found in two families of enzymes present in animals and prokaryotes, which perform distinct kinds of reactions at the cobalt-carbon bond. Enzymes that require methylcobalamin carry out methyl transfer reactions. Enzymes that require adenosylcobalamin catalyse reactions in which the first step is the cleavage of adenosylcobalamin to form cob(II)alamin and the 5'-deoxyadenosyl radical, and thus act as radical generators. In both types of enzymes the B12-binding domain uses a histidine to bind the cobalt atom of cobalamin cofactors. This histidine is embedded in a DXHXXG sequence, the most conserved primary sequence motif of the domain [, , ]. Proteins containing the cobalamin-binding domain include: Animal and prokaryotic methionine synthase (2.1.1.13 from EC), which catalyse the transfer of a methyl group from methyl-cobalamin to homocysteine, yielding enzyme-bound cob(I)alamin and methionine. Animal and prokaryotic methylmalonyl-CoA mutase (5.4.99.2 from EC), which are involved in the degradation of several amino acids, odd-chain fatty acids and cholesterol via propionyl-CoA to the tricarboxylic acid cycle. Prokaryotic lysine 5,6-aminomutase (5.4.3.4 from EC). Prokaryotic glutamate mutase (5.4.99.1 from EC) []. Prokaryotic methyleneglutarate mutase (5.4.99.4 from EC). Prokaryotic isobutyryl-CoA mutase (5.4.99.13 from EC). The core structure of the cobalamin-binding domain is characterised by a five-stranded alpha/beta (Rossmann) fold, which consists of 5 parallel beta-sheets surrounded by 4-5 alpha helices in three layers (alpha/beta/alpha) []. Upon binding cobalamin, important elements of the binding site appear to become structured, including an alpha-helix that forms on one side of the cleft accommodating the nucleotide 'tail' of the cofactor. In cobalamin, the cobalt atom can be either free (dmb-off) or bound to dimethylbenzimidazole (dmb-on) according to the pH. When bound to the cobalamin-binding domain, the dimethylbenzimidazole ligand is replaced by the active histidine (His-on) of the DXHXXG motif. The replacement of dimethylbenzimidazole by histidine allows switching between the catalytic and activation cycles []. In methionine synthase the cobalamin cofactor is sandwiched between the cobalamin-binding domain and an approximately 90 residues N-terminal domain forming a helical bundle comprising two pairs of antiparallel helices []. In methionine synthase, there is a second, adjacent domain involved in cobalamin binding that forms a 4-helical bundle cap (IPR003759 from INTERPRO); in the conversion to the active conformation of this enzyme, the 4-helical cap rotates to allow the cobalamin cofactor to bind the activation domain (IPR004223 from INTERPRO) [].; GO: 0031419 cobalamin binding, 0046872 metal ion binding; PDB: 1Y80_A 3BUL_A 1K7Y_A 1BMT_A 3IV9_A 1K98_A 3IVA_A 3KP1_A 3KOW_A 3KOZ_A ....
Probab=40.94 E-value=45 Score=25.84 Aligned_cols=44 Identities=14% Similarity=0.003 Sum_probs=33.7
Q ss_pred HHHHHHHHHHhcCCCeEEEEecCCcCChhhhHhhhCCCCEEEEEee
Q 022557 177 ISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMF 222 (295)
Q Consensus 177 vAiaa~~l~~~~~~~rv~IiD~D~HhGnGtq~if~~d~~Vl~~Sih 222 (295)
+.+.+.+++++ |. .|-++|.+++..+-.+.+-..+|++..+|.+
T Consensus 17 l~~la~~l~~~-G~-~v~~~d~~~~~~~l~~~~~~~~pd~V~iS~~ 60 (121)
T PF02310_consen 17 LLYLAAYLRKA-GH-EVDILDANVPPEELVEALRAERPDVVGISVS 60 (121)
T ss_dssp HHHHHHHHHHT-TB-EEEEEESSB-HHHHHHHHHHTTCSEEEEEES
T ss_pred HHHHHHHHHHC-CC-eEEEECCCCCHHHHHHHHhcCCCcEEEEEcc
Confidence 44555666554 54 8889999999988888888899999999974
No 26
>PF02701 zf-Dof: Dof domain, zinc finger; InterPro: IPR003851 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry consists of proteins containing a Dof domain, which is a zinc finger DNA-binding domain that shows resemblance to the Cys2 zinc finger, although it has a longer putative loop where an extra Cys residue is conserved []. AOBP, a DNA-binding protein in pumpkin (Cucurbita maxima), contains a 52 amino acid Dof domain, which is highly conserved in several DNA-binding proteins of higher plants. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0003677 DNA binding, 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent
Probab=39.09 E-value=11 Score=27.01 Aligned_cols=9 Identities=33% Similarity=0.855 Sum_probs=7.3
Q ss_pred CcccccccH
Q 022557 169 GGFCAYADI 177 (295)
Q Consensus 169 ~GFC~~Nnv 177 (295)
.=|||+||-
T Consensus 16 TKFcYyNNy 24 (63)
T PF02701_consen 16 TKFCYYNNY 24 (63)
T ss_pred CEEEeecCC
Confidence 469999994
No 27
>PRK13230 nitrogenase reductase-like protein; Reviewed
Probab=38.49 E-value=35 Score=31.01 Aligned_cols=24 Identities=13% Similarity=0.300 Sum_probs=16.4
Q ss_pred HHHhcCCCeEEEEecCCcCChhhhHh
Q 022557 184 AFVQLNISRVMIIDLDAHQGNGHEKD 209 (295)
Q Consensus 184 l~~~~~~~rv~IiD~D~HhGnGtq~i 209 (295)
++.+.| +||++||+|.. ||=|+.+
T Consensus 24 ~La~~G-~rVLliD~Dpq-~n~t~~l 47 (279)
T PRK13230 24 ALAESG-KKVLVVGCDPK-ADCTRNL 47 (279)
T ss_pred HHHhCC-CEEEEEeeCCc-ccccccc
Confidence 334445 59999999994 6655544
No 28
>cd02040 NifH NifH gene encodes component II (iron protein) of nitrogenase. Nitrogenase is responsible for the biological nitrogen fixation, i.e. reduction of molecular nitrogen to ammonia. NifH consists of two oxygen-sensitive metallosulfur proteins: the mollybdenum-iron (alternatively, vanadium-iron or iron-iron) protein (commonly referred to as component 1), and the iron protein (commonly referred to as component 2). The iron protein is a homodimer, with an Fe4S4 cluster bound between the subunits and two ATP-binding domains. It supplies energy by ATP hydrolysis, and transfers electrons from reduced ferredoxin or flavodoxin to component 1 for the reduction of molecular nitrogen to ammonia.
Probab=37.06 E-value=53 Score=29.32 Aligned_cols=17 Identities=24% Similarity=0.450 Sum_probs=13.1
Q ss_pred CeEEEEecCCcCChhhhH
Q 022557 191 SRVMIIDLDAHQGNGHEK 208 (295)
Q Consensus 191 ~rv~IiD~D~HhGnGtq~ 208 (295)
+||++||+|-. ||-|..
T Consensus 30 ~kVlliD~Dpq-~n~~~~ 46 (270)
T cd02040 30 KKVMIVGCDPK-ADSTRL 46 (270)
T ss_pred CeEEEEEcCCC-CCchhh
Confidence 59999999984 665543
No 29
>cd01835 SGNH_hydrolase_like_3 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=35.91 E-value=53 Score=27.59 Aligned_cols=43 Identities=16% Similarity=0.301 Sum_probs=28.0
Q ss_pred eccCCCCCChhHHHHHHHHHHHHHHhhcCCCEEEEecCC-CCCCC
Q 022557 240 KVEVVSGTTTNEYLKKLDEALEVAGHTFDPELVIYNAGT-DILEG 283 (295)
Q Consensus 240 NvpL~~g~~d~~y~~~~~~~l~~~~~~f~PdlIvvsaG~-D~~~~ 283 (295)
|... .|.+-..++..+++.+.+.....+||+|+|..|. |....
T Consensus 42 N~gi-~G~t~~~~~~r~~~~~~~~~~~~~pd~V~i~~G~ND~~~~ 85 (193)
T cd01835 42 NLGV-RGDGSEDVAARWRAEWSRRGELNVPNRLVLSVGLNDTARG 85 (193)
T ss_pred eecC-CCCCHHHHHHHHHHHHHhhcccCCCCEEEEEecCcccccc
Confidence 4443 3344556666666655444455899999999999 66554
No 30
>COG0455 flhG Antiactivator of flagellar biosynthesis FleN, an ATPase [Cell motility]
Probab=35.83 E-value=1.3e+02 Score=27.52 Aligned_cols=82 Identities=18% Similarity=0.268 Sum_probs=42.5
Q ss_pred CCCeEEEEecCCcCChhhhHhhhCCCCEEEEEeeC--CC-------CCCCCcccCCceeeeccCCCCCChhHHHHHHHH-
Q 022557 189 NISRVMIIDLDAHQGNGHEKDFSSDSRVYILDMFN--PG-------IYPRDYEARRFIDQKVEVVSGTTTNEYLKKLDE- 258 (295)
Q Consensus 189 ~~~rv~IiD~D~HhGnGtq~if~~d~~Vl~~Sih~--~~-------~yP~~~~~~~~~~~NvpL~~g~~d~~y~~~~~~- 258 (295)
+-++|++||.|+=-|| ...+|--++.-.+ +|. .+ .|... ..++.+ ||.+.+-+++..+-.+
T Consensus 31 ~~k~V~~iDaD~g~~n-L~~~~g~~~~~~~--l~dvL~~~~~~~Di~~~~~-----~~gl~v-ipg~~~~~~~~~~~~~~ 101 (262)
T COG0455 31 GGKVVLLIDADLGLGN-LSLLLGVESKPTT--LHDVLAGEASIEDIIYETP-----QDGLYV-LPGGSGLEDLAKLDPED 101 (262)
T ss_pred CCCeEEEEecCCCCCc-HHHHhCCCCCccc--HHHHHhCCCCHhHeeeecC-----cCCEEE-eeCCCChHHHhhcCHHH
Confidence 3578899999996554 2223333332221 221 01 11111 023333 5666666666654433
Q ss_pred ---HHHHHHhhcCCCEEEEecCCCCC
Q 022557 259 ---ALEVAGHTFDPELVIYNAGTDIL 281 (295)
Q Consensus 259 ---~l~~~~~~f~PdlIvvsaG~D~~ 281 (295)
++..+.+.+ |+||+-+|....
T Consensus 102 ~~~~~~~l~~~~--D~iliD~~aGl~ 125 (262)
T COG0455 102 LEDVIKELEELY--DYILIDTGAGLS 125 (262)
T ss_pred HHHHHHHHHhcC--CEEEEeCCCCcc
Confidence 444443333 999999986543
No 31
>TIGR01281 DPOR_bchL light-independent protochlorophyllide reductase, iron-sulfur ATP-binding protein. The BchL peptide (ChlL in chloroplast and cyanobacteria) is an ATP-binding iron-sulfur protein of the dark form protochlorophyllide reductase, an enzyme similar to nitrogenase. This subunit resembles the nitrogenase NifH subunit.
Probab=34.87 E-value=45 Score=30.01 Aligned_cols=16 Identities=25% Similarity=0.318 Sum_probs=12.7
Q ss_pred CeEEEEecCCcCChhhh
Q 022557 191 SRVMIIDLDAHQGNGHE 207 (295)
Q Consensus 191 ~rv~IiD~D~HhGnGtq 207 (295)
+||++||+|. +||-|+
T Consensus 29 ~rVLliD~D~-q~~~~~ 44 (268)
T TIGR01281 29 KRVLQIGCDP-KHDSTF 44 (268)
T ss_pred CeEEEEecCc-cccccc
Confidence 6999999997 466554
No 32
>PF05582 Peptidase_U57: YabG peptidase U57; InterPro: IPR008764 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. The peptidases families associated with clan U- have an unknown catalytic mechanism as the protein fold of the active site domain and the active site residues have not been reported. This is a group of peptidases belong to MEROPS peptidase family U57 (clan U-). The type example is the YabG protein of Bacillus subtilis. This is a protease involved in the synthesis and maturation of the spore coat proteins SpoIVA and YrbA of B. subtilis [].
Probab=34.73 E-value=35 Score=31.79 Aligned_cols=27 Identities=15% Similarity=0.284 Sum_probs=20.7
Q ss_pred HHHHHHHhhcCCCEEEEecCCCCCCCCC
Q 022557 258 EALEVAGHTFDPELVIYNAGTDILEGDP 285 (295)
Q Consensus 258 ~~l~~~~~~f~PdlIvvsaG~D~~~~Dp 285 (295)
+.+..++++++||++|+ +|-|+...+.
T Consensus 144 ~~i~~Ll~~~~PDIlVi-TGHD~~~K~~ 170 (287)
T PF05582_consen 144 EKIYRLLEEYRPDILVI-TGHDGYLKNK 170 (287)
T ss_pred HHHHHHHHHcCCCEEEE-eCchhhhcCC
Confidence 34556789999998765 8999986653
No 33
>TIGR01968 minD_bact septum site-determining protein MinD. This model describes the bacterial and chloroplast form of MinD, a multifunctional cell division protein that guides correct placement of the septum. The homologous archaeal MinD proteins, with many archaeal genomes having two or more forms, are described by a separate model.
Probab=34.68 E-value=50 Score=29.11 Aligned_cols=14 Identities=36% Similarity=0.520 Sum_probs=12.1
Q ss_pred CeEEEEecCCcCCh
Q 022557 191 SRVMIIDLDAHQGN 204 (295)
Q Consensus 191 ~rv~IiD~D~HhGn 204 (295)
.||++||+|...||
T Consensus 31 ~~vlliD~D~~~~~ 44 (261)
T TIGR01968 31 KKVVLIDADIGLRN 44 (261)
T ss_pred CeEEEEECCCCCCC
Confidence 59999999997665
No 34
>PRK13234 nifH nitrogenase reductase; Reviewed
Probab=32.42 E-value=52 Score=30.43 Aligned_cols=22 Identities=9% Similarity=0.335 Sum_probs=15.5
Q ss_pred hcCCCeEEEEecCCcCChhhhHhh
Q 022557 187 QLNISRVMIIDLDAHQGNGHEKDF 210 (295)
Q Consensus 187 ~~~~~rv~IiD~D~HhGnGtq~if 210 (295)
+.| +||++||+|.+..+ |+-+|
T Consensus 30 ~~g-~kVLliD~D~q~~~-~~~~~ 51 (295)
T PRK13234 30 EMG-QKILIVGCDPKADS-TRLIL 51 (295)
T ss_pred HCC-CeEEEEeccccccc-ccccc
Confidence 344 69999999998655 54443
No 35
>cd02117 NifH_like This family contains the NifH (iron protein) of nitrogenase, L subunit (BchL/ChlL) of the protochlorophyllide reductase and the BchX subunit of the Chlorophyllide reductase. Members of this family use energey from ATP hydrolysis and transfer electrons through a Fe4-S4 cluster to other subunit for reduction of substrate.
Probab=32.32 E-value=52 Score=28.58 Aligned_cols=18 Identities=11% Similarity=0.215 Sum_probs=13.2
Q ss_pred CeEEEEecCCcCChhhhHh
Q 022557 191 SRVMIIDLDAHQGNGHEKD 209 (295)
Q Consensus 191 ~rv~IiD~D~HhGnGtq~i 209 (295)
+||++||.|.. ||-|..+
T Consensus 29 ~rvLliD~D~q-~~~~~~~ 46 (212)
T cd02117 29 KKVLQVGCDPK-ADSTRLL 46 (212)
T ss_pred CcEEEEeCCCC-CCccccc
Confidence 59999999965 5555543
No 36
>PRK13185 chlL protochlorophyllide reductase iron-sulfur ATP-binding protein; Provisional
Probab=32.26 E-value=57 Score=29.35 Aligned_cols=17 Identities=18% Similarity=0.262 Sum_probs=12.9
Q ss_pred CeEEEEecCCcCChhhhH
Q 022557 191 SRVMIIDLDAHQGNGHEK 208 (295)
Q Consensus 191 ~rv~IiD~D~HhGnGtq~ 208 (295)
+||++||+|- +||=|+.
T Consensus 31 ~kVLliD~Dp-q~~~t~~ 47 (270)
T PRK13185 31 KKVLQIGCDP-KHDSTFT 47 (270)
T ss_pred CeEEEEeccC-Ccchhhh
Confidence 5999999997 4665543
No 37
>TIGR03407 urea_ABC_UrtA urea ABC transporter, urea binding protein. Members of this protein family are ABC transporter substrate-binding proteins associated with urea transport and metabolism. This protein is found in a conserved five-gene transport operon typically found adjacent to urease genes. It was shown in Cyanobacteria that disruption leads to the loss of high-affinity urea transport activity. Members of this protein family tend to have the twin-arginine signal for Sec-independent transport across the plasma membrane.
Probab=31.81 E-value=98 Score=29.00 Aligned_cols=34 Identities=15% Similarity=0.165 Sum_probs=25.4
Q ss_pred HHHHHHHHHHhcCCCeEEEEecCCcCChhhhHhh
Q 022557 177 ISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDF 210 (295)
Q Consensus 177 vAiaa~~l~~~~~~~rv~IiD~D~HhGnGtq~if 210 (295)
++.+++|+.++.|.+||++|--|.=.|.+..+.|
T Consensus 121 ~~~~~~~~~~~~g~k~v~~l~~d~~~g~~~~~~~ 154 (359)
T TIGR03407 121 IIPAVDYLLSKKGAKRFFLLGSDYVFPRTANKII 154 (359)
T ss_pred HHHHHHHHHhccCCceEEEecCccHHHHHHHHHH
Confidence 4556688887778899999987766677666655
No 38
>PF06925 MGDG_synth: Monogalactosyldiacylglycerol (MGDG) synthase; InterPro: IPR009695 This entry represents a conserved region of approximately 180 residues found towirds the N terminus of a number of plant and bacterial diacylglycerol glucosyltransferases, such as monogalactosyldiacylglycerol synthase [].; GO: 0016758 transferase activity, transferring hexosyl groups, 0009247 glycolipid biosynthetic process
Probab=31.76 E-value=54 Score=27.47 Aligned_cols=25 Identities=20% Similarity=0.301 Sum_probs=19.2
Q ss_pred hHHHHHHHHHHHHHHhhcCCCEEEE
Q 022557 250 NEYLKKLDEALEVAGHTFDPELVIY 274 (295)
Q Consensus 250 ~~y~~~~~~~l~~~~~~f~PdlIvv 274 (295)
.-+...+.+.+.+.+++++||+||-
T Consensus 71 ~~~~~~~~~~l~~~l~~~~PD~IIs 95 (169)
T PF06925_consen 71 SALSRLFARRLIRLLREFQPDLIIS 95 (169)
T ss_pred HHHHHHHHHHHHHHHhhcCCCEEEE
Confidence 3456666677788889999999873
No 39
>TIGR02016 BchX chlorophyllide reductase iron protein subunit X. This model represents the X subunit of the three-subunit enzyme, (bacterio)chlorophyllide reductase. This enzyme is responsible for the reduction of the chlorin B-ring and is closely related to the protochlorophyllide reductase complex which reduces the D-ring. Both of these complexes in turn are homologous to nitrogenase. This subunit is homologous to the nitrogenase component II, or "iron" protein.
Probab=31.44 E-value=58 Score=30.29 Aligned_cols=13 Identities=23% Similarity=0.447 Sum_probs=11.3
Q ss_pred CeEEEEecCCcCC
Q 022557 191 SRVMIIDLDAHQG 203 (295)
Q Consensus 191 ~rv~IiD~D~HhG 203 (295)
+||++||+|...+
T Consensus 29 ~rVLlID~Dpq~~ 41 (296)
T TIGR02016 29 KRVLQLGCDPKHD 41 (296)
T ss_pred CeEEEEEecCCCC
Confidence 6999999999864
No 40
>PF00977 His_biosynth: Histidine biosynthesis protein; InterPro: IPR006062 Histidine is formed by several complex and distinct biochemical reactions catalysed by eight enzymes. Proteins involved in steps 4 and 6 of the histidine biosynthesis pathway are contained in one family. These enzymes are called His6 and His7 in eukaryotes and HisA and HisF in prokaryotes. HisA is a phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (5.3.1.16 from EC), involved in the fourth step of histidine biosynthesis. The bacterial HisF protein is a cyclase which catalyzes the cyclization reaction that produces D-erythro-imidazole glycerol phosphate during the sixth step of histidine biosynthesis. The yeast His7 protein is a bifunctional protein which catalyzes an amido-transferase reaction that generates imidazole-glycerol phosphate and 5-aminoimidazol-4-carboxamide. The latter is the ribonucleotide used for purine biosynthesis. The enzyme also catalyzes the cyclization reaction that produces D-erythro-imidazole glycerol phosphate, and is involved in the fifth and sixth steps in histidine biosynthesis.; GO: 0000105 histidine biosynthetic process; PDB: 2VEP_A 2X30_A 1VZW_A 2WJZ_A 2LLE_A 2A0N_A 1THF_D 1GPW_E 1VH7_A 1KA9_F ....
Probab=30.61 E-value=70 Score=28.51 Aligned_cols=49 Identities=22% Similarity=0.249 Sum_probs=36.0
Q ss_pred cCceeeccCCCCCCCccCCCcccccccHHHHHHHHHHhcCCCeEEEEecCCc-CChh
Q 022557 150 RGWAINVGGGFHHCSADEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAH-QGNG 205 (295)
Q Consensus 150 ~~~a~~~~~G~HHA~~~~~~GFC~~NnvAiaa~~l~~~~~~~rv~IiD~D~H-hGnG 205 (295)
+|.++....| ++....|+..|..=.|+.. +..|++++.|+|+|.= .|.+
T Consensus 10 ~G~~Vr~~~G------~~~~~~~~~~dP~~~a~~~-~~~g~~~l~ivDLdaa~~g~~ 59 (229)
T PF00977_consen 10 NGRVVRLVKG------DRFSETVYSGDPVEVAKAF-NEQGADELHIVDLDAAKEGRG 59 (229)
T ss_dssp TTEEEEESTT------CCSCEECECCCHHHHHHHH-HHTT-SEEEEEEHHHHCCTHH
T ss_pred CCEEEECCCe------ecceeeEECcCHHHHHHHH-HHcCCCEEEEEEccCcccCch
Confidence 4566666666 4567788988888788777 5678999999999965 4665
No 41
>PRK13235 nifH nitrogenase reductase; Reviewed
Probab=30.19 E-value=52 Score=29.81 Aligned_cols=21 Identities=14% Similarity=0.430 Sum_probs=14.2
Q ss_pred HHHHhcCCCeEEEEecCCcCCh
Q 022557 183 YAFVQLNISRVMIIDLDAHQGN 204 (295)
Q Consensus 183 ~l~~~~~~~rv~IiD~D~HhGn 204 (295)
+++.+.| +||++||+|....+
T Consensus 23 ~~La~~G-~rVLlID~Dpq~~~ 43 (274)
T PRK13235 23 AGLAEMG-KKVMVVGCDPKADS 43 (274)
T ss_pred HHHHHCC-CcEEEEecCCcccc
Confidence 3334444 59999999986543
No 42
>TIGR03371 cellulose_yhjQ cellulose synthase operon protein YhjQ. Members of this family are the YhjQ protein, found immediately upsteam of bacterial cellulose synthase (bcs) genes in a broad range of bacteria, including both copies of the bcs locus in Klebsiella pneumoniae. In several species it is seen clearly as part of the bcs operon. It is identified as a probable component of the bacterial cellulose metabolic process not only by gene location, but also by partial phylogenetic profiling, or Haft-Selengut algorithm (PubMed:16930487), based on a bacterial cellulose biosynthesis genome property profile. Cellulose plays an important role in biofilm formation and structural integrity in some bacteria. Mutants in yhjQ in Escherichia coli, show altered morphology an growth, but the function of YhjQ has not yet been determined.
Probab=30.15 E-value=61 Score=28.43 Aligned_cols=11 Identities=45% Similarity=0.715 Sum_probs=9.8
Q ss_pred CeEEEEecCCc
Q 022557 191 SRVMIIDLDAH 201 (295)
Q Consensus 191 ~rv~IiD~D~H 201 (295)
+||++||+|..
T Consensus 31 ~~VlliD~D~q 41 (246)
T TIGR03371 31 EPVLAIDLDPQ 41 (246)
T ss_pred CcEEEEeCCCc
Confidence 69999999984
No 43
>PF13472 Lipase_GDSL_2: GDSL-like Lipase/Acylhydrolase family; PDB: 1ES9_A 1WAB_A 3DT9_A 1BWQ_A 1FXW_A 3DT6_A 1BWR_A 3DT8_A 1BWP_A 2WAA_A ....
Probab=30.00 E-value=60 Score=25.90 Aligned_cols=36 Identities=31% Similarity=0.564 Sum_probs=22.7
Q ss_pred CCChhHHHHHHHHHHHHHHhhcCCCEEEEecCC-CCCC
Q 022557 246 GTTTNEYLKKLDEALEVAGHTFDPELVIYNAGT-DILE 282 (295)
Q Consensus 246 g~~d~~y~~~~~~~l~~~~~~f~PdlIvvsaG~-D~~~ 282 (295)
|.+-..++..++..+.+ +...+||+||++.|. |...
T Consensus 40 G~~~~~~~~~~~~~~~~-~~~~~~d~vvi~~G~ND~~~ 76 (179)
T PF13472_consen 40 GATSSDFLARLQRDVLR-FKDPKPDLVVISFGTNDVLN 76 (179)
T ss_dssp T-BHHHHHHHHHHHCHH-HCGTTCSEEEEE--HHHHCT
T ss_pred CccHhHHHHHHHHHHhh-hccCCCCEEEEEcccccccc
Confidence 44445566666665555 489999999999997 5544
No 44
>TIGR03446 mycothiol_Mca mycothiol conjugate amidase Mca. Mycobacterium tuberculosis, Corynebacterium glutamicum, and related species use the thiol mycothiol in place of glutathione. This enzyme, homologous to the (dispensible) MshB enzyme of mycothiol biosynthesis, is described as an amidase that acts on conjugates to mycothiol. It is a detoxification enzyme.
Probab=29.95 E-value=60 Score=30.21 Aligned_cols=20 Identities=20% Similarity=0.240 Sum_probs=14.5
Q ss_pred HHHHHHHHHhhcCCCEEEEe
Q 022557 256 LDEALEVAGHTFDPELVIYN 275 (295)
Q Consensus 256 ~~~~l~~~~~~f~PdlIvvs 275 (295)
+.+.|..++++++||+||.-
T Consensus 109 ~~~~L~~iIr~~~PdvVvT~ 128 (283)
T TIGR03446 109 AAEPLVRVIREFRPHVITTY 128 (283)
T ss_pred HHHHHHHHHHHcCCEEEEec
Confidence 33455667899999988764
No 45
>PRK10037 cell division protein; Provisional
Probab=29.41 E-value=58 Score=29.09 Aligned_cols=20 Identities=20% Similarity=0.207 Sum_probs=13.7
Q ss_pred HHhcCCCeEEEEecCCcCChhh
Q 022557 185 FVQLNISRVMIIDLDAHQGNGH 206 (295)
Q Consensus 185 ~~~~~~~rv~IiD~D~HhGnGt 206 (295)
+.+.| +||++||+|-. ||-+
T Consensus 26 La~~G-~rVLlID~D~q-~~~s 45 (250)
T PRK10037 26 LQMLG-ENVLVIDACPD-NLLR 45 (250)
T ss_pred HHhcC-CcEEEEeCChh-hhHH
Confidence 33434 59999999994 5543
No 46
>KOG1069 consensus Exosomal 3'-5' exoribonuclease complex, subunit Rrp46 [Translation, ribosomal structure and biogenesis]
Probab=29.41 E-value=1e+02 Score=27.48 Aligned_cols=63 Identities=14% Similarity=0.115 Sum_probs=37.4
Q ss_pred CcCChhhhHhhhCCCCEEEEEeeCCCCCCCCcccCCceeeeccCCCCCChhHHH-----HHHHHHHHHH
Q 022557 200 AHQGNGHEKDFSSDSRVYILDMFNPGIYPRDYEARRFIDQKVEVVSGTTTNEYL-----KKLDEALEVA 263 (295)
Q Consensus 200 ~HhGnGtq~if~~d~~Vl~~Sih~~~~yP~~~~~~~~~~~NvpL~~g~~d~~y~-----~~~~~~l~~~ 263 (295)
+||.||..+.-++|-+|+ +|+|+..----..+..+.-++.|-+++..|..... ..++.+|.++
T Consensus 15 Lsr~dGSs~fsqgdT~V~-c~V~GP~dvk~r~E~~~katleVi~rp~~G~~~~~eK~~e~iI~~tl~~~ 82 (217)
T KOG1069|consen 15 LSRPDGSSEFSQGDTKVI-CSVYGPIDVKARQEDPEKATLEVIWRPKSGVNGTVEKVLERIIRKTLSKA 82 (217)
T ss_pred ecCCCCccceecCCcEEE-EEeeCCcchhhcccCchhceEEEEEecccCcchHHHHHHHHHHHHHHHHh
Confidence 479999999999999888 78877310000011122346777777766655444 4444444443
No 47
>KOG4184 consensus Predicted sugar kinase [Carbohydrate transport and metabolism; General function prediction only]
Probab=28.77 E-value=48 Score=32.05 Aligned_cols=23 Identities=22% Similarity=0.502 Sum_probs=16.7
Q ss_pred HHHHHHHHHHHHHhhcCCCEEEEe
Q 022557 252 YLKKLDEALEVAGHTFDPELVIYN 275 (295)
Q Consensus 252 y~~~~~~~l~~~~~~f~PdlIvvs 275 (295)
-+.+++. +...+++|+||+||++
T Consensus 223 ~m~~~E~-f~~Al~~fqPdLvVvs 245 (478)
T KOG4184|consen 223 HMRAVEQ-FTDALKMFQPDLVVVS 245 (478)
T ss_pred HHHHHHH-HHHHHHHhCCCEEEEe
Confidence 3455544 4556799999999986
No 48
>PF13050 DUF3911: Protein of unknown function (DUF3911)
Probab=28.44 E-value=22 Score=25.72 Aligned_cols=10 Identities=30% Similarity=0.959 Sum_probs=7.9
Q ss_pred CCcccccccH
Q 022557 168 GGGFCAYADI 177 (295)
Q Consensus 168 ~~GFC~~Nnv 177 (295)
.-|||-|||-
T Consensus 25 tkgfckf~ny 34 (77)
T PF13050_consen 25 TKGFCKFNNY 34 (77)
T ss_pred cccccccCCE
Confidence 3589999993
No 49
>cd01828 sialate_O-acetylesterase_like2 sialate_O-acetylesterase_like subfamily of the SGNH-hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=28.38 E-value=86 Score=25.67 Aligned_cols=16 Identities=19% Similarity=0.497 Sum_probs=13.2
Q ss_pred hcCCCEEEEecCC-CCC
Q 022557 266 TFDPELVIYNAGT-DIL 281 (295)
Q Consensus 266 ~f~PdlIvvsaG~-D~~ 281 (295)
.++||+||++.|. |..
T Consensus 46 ~~~pd~vvl~~G~ND~~ 62 (169)
T cd01828 46 ALQPKAIFIMIGINDLA 62 (169)
T ss_pred ccCCCEEEEEeeccCCC
Confidence 6799999999997 553
No 50
>cd06366 PBP1_GABAb_receptor Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). Ligand-binding domain of GABAb receptors, which are metabotropic transmembrane receptors for gamma-aminobutyric acid (GABA). GABA is the major inhibitory neurotransmitter in the mammalian CNS and, like glutamate and other transmitters, acts via both ligand gated ion channels (GABAa receptors) and G-protein coupled receptors (GABAb). GABAa receptors are members of the ionotropic receptor superfamily which includes alpha-adrenergic and glycine receptors. The GABAb receptor is a member of a receptor superfamily which includes the mGlu receptors. The GABAb receptor is coupled to G alpha_i proteins, and activation causes a decrease in calcium, an increase in potassium membrane conductance, and inhibition of cAMP formation. The response is thus inhibitory and leads to hyperpolarization and decreased neurotransmitter release, for example.
Probab=28.36 E-value=2.1e+02 Score=26.27 Aligned_cols=28 Identities=25% Similarity=0.291 Sum_probs=20.4
Q ss_pred HHHhcCCCeEEEEecCCcCChhhhHhhh
Q 022557 184 AFVQLNISRVMIIDLDAHQGNGHEKDFS 211 (295)
Q Consensus 184 l~~~~~~~rv~IiD~D~HhGnGtq~if~ 211 (295)
+.++++.+||++|=-|--.|.+..+.|.
T Consensus 129 ~~~~~~~~~v~ii~~~~~~g~~~~~~~~ 156 (350)
T cd06366 129 LLKKFGWRRVATIYEDDDYGSGGLPDLV 156 (350)
T ss_pred HHHHCCCcEEEEEEEcCcccchhHHHHH
Confidence 3456788999999766667877766664
No 51
>COG4671 Predicted glycosyl transferase [General function prediction only]
Probab=28.33 E-value=85 Score=30.48 Aligned_cols=31 Identities=19% Similarity=0.287 Sum_probs=26.2
Q ss_pred CCChhHHHHHHHHHHHHHHhhcCCCEEEEec
Q 022557 246 GTTTNEYLKKLDEALEVAGHTFDPELVIYNA 276 (295)
Q Consensus 246 g~~d~~y~~~~~~~l~~~~~~f~PdlIvvsa 276 (295)
..+.+++++.=+++|...++.|+||++||-.
T Consensus 84 ~~~l~e~~~~Rs~lil~t~~~fkPDi~IVd~ 114 (400)
T COG4671 84 DGDLEETKKLRSQLILSTAETFKPDIFIVDK 114 (400)
T ss_pred CCCHHHHHHHHHHHHHHHHHhcCCCEEEEec
Confidence 3457888888889999999999999999853
No 52
>TIGR03445 mycothiol_MshB 1D-myo-inosityl-2-acetamido-2-deoxy-alpha-D-glucopyranoside deacetylase. Members of this protein family are 1D-myo-inosityl-2-acetamido-2-deoxy-alpha-D-glucopyranoside deacetylase, the MshB protein of mycothiol biosynthesis in Mycobacterium tuberculosis and related species.
Probab=27.22 E-value=81 Score=29.31 Aligned_cols=25 Identities=20% Similarity=0.118 Sum_probs=17.5
Q ss_pred HHHHHHHhhcCCCEEEE--ecCCCCCC
Q 022557 258 EALEVAGHTFDPELVIY--NAGTDILE 282 (295)
Q Consensus 258 ~~l~~~~~~f~PdlIvv--saG~D~~~ 282 (295)
+.|..++++++||+||. ..|.|.|-
T Consensus 113 ~~l~~~Ir~~~PdvViT~~p~g~~~Hp 139 (284)
T TIGR03445 113 GALVAVIREVRPHVVVTYDPNGGYGHP 139 (284)
T ss_pred HHHHHHHHHhCCcEEEecCCCCCCCCc
Confidence 45566789999998886 44555554
No 53
>PRK13233 nifH nitrogenase reductase; Reviewed
Probab=27.20 E-value=72 Score=28.82 Aligned_cols=14 Identities=21% Similarity=0.349 Sum_probs=11.7
Q ss_pred CeEEEEecCCcCCh
Q 022557 191 SRVMIIDLDAHQGN 204 (295)
Q Consensus 191 ~rv~IiD~D~HhGn 204 (295)
+||++||+|.+..+
T Consensus 32 ~rvLliD~Dpq~~~ 45 (275)
T PRK13233 32 KKVFIHGCDPKADS 45 (275)
T ss_pred CeEEEeccCcCcCh
Confidence 59999999998644
No 54
>cd06334 PBP1_ABC_ligand_binding_like_1 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in transport of amino acids, peptides, or inorganic ions. Members of this group are sequence-similar to members of the family of ABC-type hydrophobic amino acid transporters, such as leucine-isoleucine-valine-binding protein (LIVBP); however their ligand specificity has not been determined experimentally.
Probab=26.76 E-value=2.2e+02 Score=26.64 Aligned_cols=34 Identities=12% Similarity=0.146 Sum_probs=27.1
Q ss_pred HHHHHHHHHhc----CCCeEEEEecCCcCChhhhHhhh
Q 022557 178 SLCIHYAFVQL----NISRVMIIDLDAHQGNGHEKDFS 211 (295)
Q Consensus 178 Aiaa~~l~~~~----~~~rv~IiD~D~HhGnGtq~if~ 211 (295)
...++|+.++. +.+||++|=-|.-.|.++.+.|.
T Consensus 124 ~~l~~~~~~~~~~~~~~~kvaiv~~~~~~g~~~~~~~~ 161 (351)
T cd06334 124 RALVQYIAEQEGGKLKGKKIALVYHDSPFGKEPIEALK 161 (351)
T ss_pred HHHHHHHHHhcccCCCCCeEEEEeCCCccchhhHHHHH
Confidence 45567887766 58999999999999988888774
No 55
>cd06388 PBP1_iGluR_AMPA_GluR4 N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA receptor. N-terminal leucine/isoleucine/valine-binding protein (LIVBP)-like domain of the GluR4 subunit of the AMPA (alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid) receptor. The AMPA receptor is a member of the glutamate-receptor ion channels (iGluRs) which are the major mediators of excitatory synaptic transmission in the central nervous system. AMPA receptors are composed of four types of subunits (GluR1, GluR2, GluR3, and GluR4) which combine to form a tetramer and play an important role in mediating the rapid excitatory synaptic current. Furthermore, this N-terminal domain of the iGluRs has homology with LIVBP, a bacterial periplasmic binding protein, as well as with the structurally related glutamate-binding domain of the G-protein-coupled metabotropic receptors (mGluRs).
Probab=26.75 E-value=1.7e+02 Score=27.94 Aligned_cols=40 Identities=8% Similarity=0.072 Sum_probs=28.5
Q ss_pred cccccHHHHHHHHHHhcCCCeEEEEecCCcCChhhhHhhhC
Q 022557 172 CAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSS 212 (295)
Q Consensus 172 C~~NnvAiaa~~l~~~~~~~rv~IiD~D~HhGnGtq~if~~ 212 (295)
|+-.+..-|+.-+.+.++.++|+||- |.-.|-|+-+.|.+
T Consensus 106 ~~~p~~~~a~~~~i~~~~wk~vaiiY-d~~~~~~~lq~l~~ 145 (371)
T cd06388 106 QLRPSLRGALLSLLDHYEWNRFVFLY-DTDRGYSILQAIME 145 (371)
T ss_pred EeChhhhhHHHHHHHhcCceEEEEEe-cCCccHHHHHHHHH
Confidence 77666665555577888999999997 65566676666643
No 56
>COG1891 Uncharacterized protein conserved in archaea [Function unknown]
Probab=26.61 E-value=1.4e+02 Score=26.20 Aligned_cols=48 Identities=23% Similarity=0.295 Sum_probs=31.7
Q ss_pred eccCCCCCChhHHHHHHHHHHHHHHhhcCCCEEEEecCC-CCCCCCCCCC
Q 022557 240 KVEVVSGTTTNEYLKKLDEALEVAGHTFDPELVIYNAGT-DILEGDPLGM 288 (295)
Q Consensus 240 NvpL~~g~~d~~y~~~~~~~l~~~~~~f~PdlIvvsaG~-D~~~~Dplg~ 288 (295)
.|.|=.--+.++-++.+..++. +.++|+|+-+|+.+|+ |+|.--...-
T Consensus 85 KVGLYg~kn~~eA~e~m~~vvr-AVkd~d~~k~VVAaGYaDa~Rvgsv~P 133 (235)
T COG1891 85 KVGLYGTKNEEEALEVMKNVVR-AVKDFDPSKKVVAAGYADAHRVGSVSP 133 (235)
T ss_pred EEeecccccHHHHHHHHHHHHH-HHhccCCCceEEeccccchhhccCcCc
Confidence 4444322335556666666554 5699999999999998 8876543333
No 57
>TIGR01007 eps_fam capsular exopolysaccharide family. This model describes the capsular exopolysaccharide proteins in bacteria. The exopolysaccharide gene cluster consists of several genes which encode a number of proteins which regulate the exoploysaccharide biosynthesis(EPS). Atleast 13 genes espA to espM in streptococcus species seem to direct the EPS proteins and all of which share high homology. Functional roles were characterized by gene disruption experiments which resulted in exopolysaccharide-deficient phenotypes.
Probab=25.15 E-value=91 Score=26.68 Aligned_cols=13 Identities=23% Similarity=0.422 Sum_probs=11.0
Q ss_pred CeEEEEecCCcCC
Q 022557 191 SRVMIIDLDAHQG 203 (295)
Q Consensus 191 ~rv~IiD~D~HhG 203 (295)
+||++||+|...+
T Consensus 47 ~rVllID~D~~~~ 59 (204)
T TIGR01007 47 YKTLLIDGDMRNS 59 (204)
T ss_pred CeEEEEeCCCCCh
Confidence 6999999998654
No 58
>TIGR03815 CpaE_hom_Actino helicase/secretion neighborhood CpaE-like protein. Members of this protein family belong to the MinD/ParA family of P-loop NTPases, and in particular show homology to the CpaE family of pilus assembly proteins (see PubMed:12370432). Nearly all members are found, not only in a gene context consistent with pilus biogenesis or a pilus-like secretion apparatus, but also near a DEAD/DEAH-box helicase, suggesting an involvement in DNA transfer activity. The model describes a clade restricted to the Actinobacteria.
Probab=24.79 E-value=85 Score=29.22 Aligned_cols=14 Identities=29% Similarity=0.596 Sum_probs=11.5
Q ss_pred CeEEEEecCCcCCh
Q 022557 191 SRVMIIDLDAHQGN 204 (295)
Q Consensus 191 ~rv~IiD~D~HhGn 204 (295)
+||++||+|...|+
T Consensus 123 ~~VlLvD~D~~~~~ 136 (322)
T TIGR03815 123 LRTLLVDADPWGGG 136 (322)
T ss_pred CCEEEEecCCCCCC
Confidence 69999999977653
No 59
>PF01120 Alpha_L_fucos: Alpha-L-fucosidase; InterPro: IPR000933 O-Glycosyl hydrolases 3.2.1. from EC are a widespread group of enzymes that hydrolyse the glycosidic bond between two or more carbohydrates, or between a carbohydrate and a non-carbohydrate moiety. A classification system for glycosyl hydrolases, based on sequence similarity, has led to the definition of 85 different families [, ]. This classification is available on the CAZy (CArbohydrate-Active EnZymes) web site. Family 29 (GH29 from CAZY) encompasses alpha-L-fucosidases (3.2.1.51 from EC) [], which is a lysosomal enzyme responsible for hydrolyzing the alpha-1,6-linked fucose joined to the reducing-end N-acetylglucosamine of the carbohydrate moieties of glycoproteins. Alpha-L-fucosidase is responsible for hydrolysing the alpha-1,6-linked fucose joined to the reducing-end N-acetylglucosamine of the carbohydrate moieties of glycoproteins. Fucosylated glycoconjugates are involved in numerous biological events, making alpha-l-fucosidases, the enzymes responsible for their processing, critically important. Deficiency in alpha-l-fucosidase activity is associated with fucosidosis, a lysosomal storage disorder characterised by rapid neurodegeneration, resulting in severe mental and motor deterioration []. The enzyme is a hexamer and displays a two-domain fold, composed of a catalytic (beta/alpha)(8)-like domain and a C-terminal beta-sandwich domain []. Drosophila melanogaster spermatozoa contains an alpha-l-fucosidase that might be involved in fertilisation by interacting with alpha-l-fucose residues on the micropyle of the eggshell []. In human sperm, membrane-associated alpha-l-fucosidase is stable for extended periods of time, which is made possible by membrane domains and compartmentalisation. These help preserve protein integrity []. ; GO: 0004560 alpha-L-fucosidase activity, 0005975 carbohydrate metabolic process; PDB: 3EYP_B 2ZX6_A 2ZWY_B 2ZX8_B 2WSP_A 2ZXA_A 2ZWZ_B 1ODU_B 1HL9_A 2ZX5_B ....
Probab=24.78 E-value=2.1e+02 Score=27.23 Aligned_cols=25 Identities=12% Similarity=0.246 Sum_probs=17.9
Q ss_pred HHHHHHHHHHhhcCCCEEEEecCCC
Q 022557 255 KLDEALEVAGHTFDPELVIYNAGTD 279 (295)
Q Consensus 255 ~~~~~l~~~~~~f~PdlIvvsaG~D 279 (295)
.+...|..++.+|+||+|-.-.|..
T Consensus 193 ~~~~ql~EL~~~Y~~d~lWfDg~~~ 217 (346)
T PF01120_consen 193 YWLAQLRELLTRYKPDILWFDGGWP 217 (346)
T ss_dssp HHHHHHHHHHHCSTESEEEEESTTS
T ss_pred hhHHHHHHHHhCCCcceEEecCCCC
Confidence 5666677777888888887766654
No 60
>cd02037 MRP-like MRP (Multiple Resistance and pH adaptation) is a homologue of the Fer4_NifH superfamily. Like the other members of the superfamily, MRP contains a ATP-binding domain at the N-termini. It is found in bacteria as a membrane-spanning protein and functions as a Na+/H+ antiporter.
Probab=24.68 E-value=84 Score=26.06 Aligned_cols=12 Identities=25% Similarity=0.293 Sum_probs=10.4
Q ss_pred CeEEEEecCCcC
Q 022557 191 SRVMIIDLDAHQ 202 (295)
Q Consensus 191 ~rv~IiD~D~Hh 202 (295)
.||++||.|.-.
T Consensus 29 ~~vllvD~D~q~ 40 (169)
T cd02037 29 YKVGLLDADIYG 40 (169)
T ss_pred CcEEEEeCCCCC
Confidence 699999999854
No 61
>TIGR03029 EpsG chain length determinant protein tyrosine kinase EpsG. The proteins in this family are homologs of the EpsG protein found in Methylobacillus strain 12S and are generally found in operons with other Eps homologs. The protein is believed to function as the protein tyrosine kinase component of the chain length regulator (along with the transmembrane component EpsF).
Probab=24.53 E-value=94 Score=28.03 Aligned_cols=14 Identities=14% Similarity=0.351 Sum_probs=12.1
Q ss_pred CeEEEEecCCcCCh
Q 022557 191 SRVMIIDLDAHQGN 204 (295)
Q Consensus 191 ~rv~IiD~D~HhGn 204 (295)
+||++||+|.+..+
T Consensus 133 ~~VllID~D~~~~~ 146 (274)
T TIGR03029 133 EKTLLIDANLRDPV 146 (274)
T ss_pred CeEEEEeCCCCCcc
Confidence 69999999997754
No 62
>cd06361 PBP1_GPC6A_like Ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor. This family includes the ligand-binding domain of the promiscuous L-alpha-amino acid receptor GPRC6A which is a broad-spectrum amino acid-sensing receptor, and its fish homolog, the 5.24 chemoreceptor. GPRC6A is a member of the family C of G-protein-coupled receptors that transduce extracellular signals into G-protein activation and ultimately into cellular responses.
Probab=23.81 E-value=4.5e+02 Score=25.24 Aligned_cols=31 Identities=19% Similarity=0.119 Sum_probs=23.8
Q ss_pred HHHHHHhcCCCeEEEEecCCcCChhhhHhhh
Q 022557 181 IHYAFVQLNISRVMIIDLDAHQGNGHEKDFS 211 (295)
Q Consensus 181 a~~l~~~~~~~rv~IiD~D~HhGnGtq~if~ 211 (295)
+..+.++.+.++|++|--|--.|.+..+.|.
T Consensus 163 i~~li~~~~w~~Vaii~~~d~yG~~~~~~f~ 193 (403)
T cd06361 163 MAHLIKKSGWNWVGIIITDDDYGRSALETFI 193 (403)
T ss_pred HHHHHHHcCCcEEEEEEecCchHHHHHHHHH
Confidence 3334455689999999888888988888774
No 63
>cd03111 CpaE_like This protein family consists of proteins similar to the cpaE protein of the Caulobacter pilus assembly and the orf4 protein of Actinobacillus pilus formation gene cluster. The function of these proteins are unkown. The Caulobacter pilus assembly contains 7 genes: pilA, cpaA, cpaB, cpaC, cpaD, cpaE and cpaF. These genes are clustered together on chromosome.
Probab=23.63 E-value=1.9e+02 Score=22.10 Aligned_cols=14 Identities=43% Similarity=0.862 Sum_probs=13.1
Q ss_pred CeEEEEecCCcCCh
Q 022557 191 SRVMIIDLDAHQGN 204 (295)
Q Consensus 191 ~rv~IiD~D~HhGn 204 (295)
.+|+++|.|.++++
T Consensus 30 ~~~~l~d~d~~~~~ 43 (106)
T cd03111 30 RRVLLVDLDLQFGD 43 (106)
T ss_pred CcEEEEECCCCCCC
Confidence 69999999999987
No 64
>PRK15404 leucine ABC transporter subunit substrate-binding protein LivK; Provisional
Probab=23.59 E-value=2.3e+02 Score=26.76 Aligned_cols=32 Identities=13% Similarity=0.339 Sum_probs=24.7
Q ss_pred HHHHHHHHhcCCCeEEEEecCCcCChhhhHhh
Q 022557 179 LCIHYAFVQLNISRVMIIDLDAHQGNGHEKDF 210 (295)
Q Consensus 179 iaa~~l~~~~~~~rv~IiD~D~HhGnGtq~if 210 (295)
..++|+.++.+.+||++|--|.-.|+...+.|
T Consensus 150 ~~~~~~~~~~~~k~va~i~~d~~~g~~~~~~~ 181 (369)
T PRK15404 150 TAAKYILEKVKPKRIAVLHDKQQYGEGLARSV 181 (369)
T ss_pred HHHHHHHHhcCCCEEEEEeCCCchhHHHHHHH
Confidence 45688877777899999988877787766655
No 65
>PF02075 RuvC: Crossover junction endodeoxyribonuclease RuvC; InterPro: IPR002176 The Escherichia coli ruvC gene is involved in DNA repair and in the late step of RecE and RecF pathway recombination []. RuvC protein (3.1.22.4 from EC) cleaves cruciform junctions, which are formed by the extrusion of inverted repeat sequences from a super-coiled plasmid and which are structurally analogous to Holliday junctions, by introducing nicks into strands with the same polarity. The nicks leave a 5'terminal phosphate and a 3'terminal hydroxyl group which are ligated by E. coli or Bacteriophage T4 DNA ligases. Analysis of the cleavage sites suggests that DNA topology rather than a particular sequence determines the cleavage site. RuvC protein also cleaves Holliday junctions that are formed between gapped circular and linear duplex DNA by the function of RecA protein. The active form of RuvC protein is a dimer. This is mechanistically suited for an endonuclease involved in swapping DNA strands at the crossover junctions. It is inferred that RuvC protein is an endonuclease that resolves Holliday structures in vivo []. RucC is a small protein of about 20 kD. It requires and binds a magnesium ion. The structure of E. coli ruvC is a 3-layer alpha-beta sandwich containing a 5-stranded beta-sheet sandwiched between 5 alpha-helices [].; GO: 0004520 endodeoxyribonuclease activity, 0006281 DNA repair, 0006310 DNA recombination; PDB: 1HJR_A.
Probab=23.15 E-value=1.1e+02 Score=25.38 Aligned_cols=33 Identities=27% Similarity=0.316 Sum_probs=19.4
Q ss_pred CCCCCChhHHHHHHHHHHHHHHhhcCCCEEEEe
Q 022557 243 VVSGTTTNEYLKKLDEALEVAGHTFDPELVIYN 275 (295)
Q Consensus 243 L~~g~~d~~y~~~~~~~l~~~~~~f~PdlIvvs 275 (295)
.++..+..+=+..+.+.|..++++|+||.+++-
T Consensus 33 t~~~~~~~~Rl~~I~~~l~~li~~~~P~~vaiE 65 (149)
T PF02075_consen 33 TSSKDSLPERLKEIYEELEELIEEYNPDEVAIE 65 (149)
T ss_dssp ---S--HHHHHHHHHHHHHHHHHHH--SEEEEE
T ss_pred CCCCCCHHHHHHHHHHHHHHHHHhhCCCEEEee
Confidence 344444555556666778888999999999873
No 66
>TIGR03669 urea_ABC_arch urea ABC transporter, substrate-binding protein, archaeal type. Members of this protein family are identified as the substrate-binding protein of a urea ABC transport system by similarity to a known urea transporter from Corynebacterium glutamicum, operon structure, proximity of its operons to urease (urea-utilization protein) operons, and by Partial Phylogenetic Profiling vs. urea utilization.
Probab=23.08 E-value=1.9e+02 Score=27.53 Aligned_cols=34 Identities=12% Similarity=0.178 Sum_probs=26.3
Q ss_pred HHHHHHHHHHhcCCCeEEEEecCCcCChhhhHhhh
Q 022557 177 ISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFS 211 (295)
Q Consensus 177 vAiaa~~l~~~~~~~rv~IiD~D~HhGnGtq~if~ 211 (295)
++.+++|+.++.+ +||++|--|.=.|.+..+.|.
T Consensus 121 ~~~~~~~~~~~~g-~~va~l~~d~~~g~~~~~~~~ 154 (374)
T TIGR03669 121 LGTVVPYMVEEYG-KKIYTIAADYNFGQLSADWVR 154 (374)
T ss_pred HHHHHHHHHHcCC-CeEEEEcCCcHHHHHHHHHHH
Confidence 4566788887765 799999999888887766653
No 67
>PF13458 Peripla_BP_6: Periplasmic binding protein; PDB: 4EVS_A 4EY3_A 4EYG_B 4EYK_A 3H5L_B 3TD9_A 3EAF_A 1Z18_A 1Z17_A 2LIV_A ....
Probab=22.99 E-value=1.6e+02 Score=26.74 Aligned_cols=36 Identities=19% Similarity=0.261 Sum_probs=26.0
Q ss_pred ccHHHHHHHHHHhcCCCeEEEEecCCcCChhhhHhh
Q 022557 175 ADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDF 210 (295)
Q Consensus 175 NnvAiaa~~l~~~~~~~rv~IiD~D~HhGnGtq~if 210 (295)
..+...++|++++.+.+||+||--|.=.|+...+.|
T Consensus 120 ~~~~~~~~~~~~~~g~~~v~iv~~~~~~g~~~~~~~ 155 (343)
T PF13458_consen 120 QQAAALAEYLAKKLGAKKVAIVYPDDPYGRSLAEAF 155 (343)
T ss_dssp HHHHHHHHHHHHTTTTSEEEEEEESSHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHcCCcEEEEEecCchhhhHHHHHH
Confidence 345667788888788999999987755555555555
No 68
>TIGR03453 partition_RepA plasmid partitioning protein RepA. Members of this family are the RepA (or ParA) protein involved in replicon partitioning. All known examples occur in bacterial species with two or more replicons, on a plasmid or the smaller chromosome. Note that an apparent exception may be seen as a pseudomolecule from assembly of an incompletely sequenced genome. Members of this family belong to a larger family that also includes the enzyme cobyrinic acid a,c-diamide synthase, but assignment of that name to members of this family would be in error.
Probab=22.92 E-value=1e+02 Score=29.71 Aligned_cols=16 Identities=44% Similarity=0.530 Sum_probs=12.7
Q ss_pred CeEEEEecCCcCChhhh
Q 022557 191 SRVMIIDLDAHQGNGHE 207 (295)
Q Consensus 191 ~rv~IiD~D~HhGnGtq 207 (295)
.||++||+|. +||=|+
T Consensus 134 ~rVLlID~Dp-Q~~ls~ 149 (387)
T TIGR03453 134 YRVLAIDLDP-QASLSA 149 (387)
T ss_pred CCEEEEecCC-CCCHHH
Confidence 5999999997 676444
No 69
>cd01832 SGNH_hydrolase_like_1 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid. Myxobacterial members of this subfamily have been reported to be involved in adventurous gliding motility.
Probab=22.44 E-value=1.3e+02 Score=24.80 Aligned_cols=33 Identities=36% Similarity=0.419 Sum_probs=20.0
Q ss_pred ChhHHHHHHHHHHHHHHhhcCCCEEEEecCC-CCC
Q 022557 248 TTNEYLKKLDEALEVAGHTFDPELVIYNAGT-DIL 281 (295)
Q Consensus 248 ~d~~y~~~~~~~l~~~~~~f~PdlIvvsaG~-D~~ 281 (295)
+.......+...+..++ .++||+||+..|. |..
T Consensus 48 ~G~~~~~~~~~~~~~~~-~~~~d~vii~~G~ND~~ 81 (185)
T cd01832 48 RGRRTAQILAEQLPAAL-ALRPDLVTLLAGGNDIL 81 (185)
T ss_pred CcchHHHHHHHHHHHHH-hcCCCEEEEeccccccc
Confidence 33333333344444443 4699999999998 554
No 70
>PRK00039 ruvC Holliday junction resolvase; Reviewed
Probab=22.02 E-value=1.7e+02 Score=24.80 Aligned_cols=23 Identities=22% Similarity=0.365 Sum_probs=16.9
Q ss_pred HHHHHHHHHHHHhhcCCCEEEEe
Q 022557 253 LKKLDEALEVAGHTFDPELVIYN 275 (295)
Q Consensus 253 ~~~~~~~l~~~~~~f~PdlIvvs 275 (295)
+..+.+-|..++++|+||.+++-
T Consensus 46 l~~I~~~l~~~i~~~~Pd~vaiE 68 (164)
T PRK00039 46 LKQIYDGLSELIDEYQPDEVAIE 68 (164)
T ss_pred HHHHHHHHHHHHHHhCCCEEEEe
Confidence 44444567778899999998864
No 71
>cd04501 SGNH_hydrolase_like_4 Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid.
Probab=21.95 E-value=94 Score=25.75 Aligned_cols=30 Identities=30% Similarity=0.457 Sum_probs=18.4
Q ss_pred hHHHHHHHHHHHHHHhhcCCCEEEEecCC-CCCCC
Q 022557 250 NEYLKKLDEALEVAGHTFDPELVIYNAGT-DILEG 283 (295)
Q Consensus 250 ~~y~~~~~~~l~~~~~~f~PdlIvvsaG~-D~~~~ 283 (295)
.+++..+++. +...+||+|+++.|. |...+
T Consensus 45 ~~~l~~l~~~----~~~~~~d~v~i~~G~ND~~~~ 75 (183)
T cd04501 45 SQMLVRFYED----VIALKPAVVIIMGGTNDIIVN 75 (183)
T ss_pred HHHHHHHHHH----HHhcCCCEEEEEeccCccccC
Confidence 3455444432 345689999999987 55433
No 72
>cd02032 Bchl_like This family of proteins contains bchL and chlL. Protochlorophyllide reductase catalyzes the reductive formation of chlorophyllide from protochlorophyllide during biosynthesis of chlorophylls and bacteriochlorophylls. Three genes, bchL, bchN and bchB, are involved in light-independent protochlorophyllide reduction in bacteriochlorophyll biosynthesis. In cyanobacteria, algae, and gymnosperms, three similar genes, chlL, chlN and chlB are involved in protochlorophyllide reduction during chlorophylls biosynthesis. BchL/chlL, bchN/chlN and bchB/chlB exhibit significant sequence similarity to the nifH, nifD and nifK subunits of nitrogenase, respectively. Nitrogenase catalyzes the reductive formation of ammonia from dinitrogen.
Probab=21.94 E-value=95 Score=27.88 Aligned_cols=15 Identities=20% Similarity=0.381 Sum_probs=11.3
Q ss_pred CeEEEEecCCcCChhh
Q 022557 191 SRVMIIDLDAHQGNGH 206 (295)
Q Consensus 191 ~rv~IiD~D~HhGnGt 206 (295)
+||++||+|- +||=+
T Consensus 29 ~rvlliD~Dp-q~~~~ 43 (267)
T cd02032 29 KKVLQIGCDP-KHDST 43 (267)
T ss_pred CcEEEEecCC-CCCcc
Confidence 6999999996 35433
No 73
>PRK09822 lipopolysaccharide core biosynthesis protein; Provisional
Probab=21.91 E-value=1.2e+02 Score=27.61 Aligned_cols=46 Identities=22% Similarity=0.308 Sum_probs=38.5
Q ss_pred cCCCcccccccHHHHHHHHHHhcCCCeEEEEecCCcCChhhhHhhhCCC
Q 022557 166 DEGGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDFSSDS 214 (295)
Q Consensus 166 ~~~~GFC~~NnvAiaa~~l~~~~~~~rv~IiD~D~HhGnGtq~if~~d~ 214 (295)
|-..|||---.||..|.++.-..|.++|.+.-+|.-. .+-=||+++
T Consensus 161 DI~~G~fDagTVaY~ALQIaY~LGF~~I~iaGLDMnN---s~PRFYEt~ 206 (269)
T PRK09822 161 DISIGYCSCHTIAYTAIQVAYSLKYGRIICSGLDLTG---SCPRFYDES 206 (269)
T ss_pred ccccCeeeccchHHHHHHHHHHcCCCEEEEEeeccCC---CCCccccCC
Confidence 3456999999999999999999999999999999954 477777654
No 74
>cd01833 XynB_like SGNH_hydrolase subfamily, similar to Ruminococcus flavefaciens XynB. Most likely a secreted hydrolase with xylanase activity. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=21.73 E-value=1e+02 Score=24.74 Aligned_cols=20 Identities=25% Similarity=0.400 Sum_probs=15.2
Q ss_pred HHhhcCCCEEEEecCC-CCCC
Q 022557 263 AGHTFDPELVIYNAGT-DILE 282 (295)
Q Consensus 263 ~~~~f~PdlIvvsaG~-D~~~ 282 (295)
.+..++||+|++..|. |...
T Consensus 35 ~~~~~~pd~vvi~~G~ND~~~ 55 (157)
T cd01833 35 WVLAAKPDVVLLHLGTNDLVL 55 (157)
T ss_pred ccccCCCCEEEEeccCccccc
Confidence 4456899999999998 5443
No 75
>CHL00072 chlL photochlorophyllide reductase subunit L
Probab=21.72 E-value=98 Score=28.62 Aligned_cols=23 Identities=17% Similarity=0.231 Sum_probs=15.1
Q ss_pred HHHHhcCCCeEEEEecCCcCChhhh
Q 022557 183 YAFVQLNISRVMIIDLDAHQGNGHE 207 (295)
Q Consensus 183 ~l~~~~~~~rv~IiD~D~HhGnGtq 207 (295)
+++.+.| +||++||+|-. ||=|.
T Consensus 22 ~~La~~G-~rVLlID~DpQ-~n~t~ 44 (290)
T CHL00072 22 IALARRG-KKVLQIGCDPK-HDSTF 44 (290)
T ss_pred HHHHHCC-CeEEEEeccCC-Ccccc
Confidence 3344445 58999999986 44443
No 76
>cd06329 PBP1_SBP_like_3 Periplasmic solute-binding domain of active transport proteins. Periplasmic solute-binding domain of active transport proteins found in bacteria and Archaea. Members of this group are initial receptors in the process of active transport across cellular membrane, but their substrate specificities are not known in detail. However, they closely resemble the group of AmiC and active transport systems for short-chain amides and urea (FmdDEF), and thus are likely to exhibit a ligand-binding mode similar to that of the amide sensor protein AmiC from Pseudomonas aeruginosa. Moreover, this binding domain has high sequence identity to the family of hydrophobic amino acid transporters (HAAT), and thus it may also be involved in transport of amino acids.
Probab=21.41 E-value=1.7e+02 Score=26.98 Aligned_cols=33 Identities=21% Similarity=0.217 Sum_probs=23.9
Q ss_pred HHHHHHHHHhcCCCeEEEEecCCcCChhhhHhh
Q 022557 178 SLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDF 210 (295)
Q Consensus 178 Aiaa~~l~~~~~~~rv~IiD~D~HhGnGtq~if 210 (295)
...+.++.++.+.+||++|--|-=.|....+.|
T Consensus 131 ~~l~~~~~~~~~~k~v~i~~~~~~~g~~~~~~~ 163 (342)
T cd06329 131 EALASYIKKQPDGKKVYLINQDYSWGQDVAAAF 163 (342)
T ss_pred HHHHHHHHhcccCceEEEEeCChHHHHHHHHHH
Confidence 344567766555899999988877777676666
No 77
>cd04723 HisA_HisF Phosphoribosylformimino-5-aminoimidazole carboxamide ribonucleotide (ProFAR) isomerase (HisA) and the cyclase subunit of imidazoleglycerol phosphate synthase (HisF). The ProFAR isomerase catalyzes the fourth step in histidine biosynthesis, an isomerisation of the aminoaldose moiety of ProFAR to the aminoketose of PRFAR (N-(5'-phospho-D-1'-ribulosylformimino)-5-amino-1-(5''-phospho-ribosyl)-4-imidazolecarboxamide). In bacteria and archaea, ProFAR isomerase is encoded by the HisA gene. The Imidazole glycerol phosphate synthase (IGPS) catalyzes the fifth step of histidine biosynthesis, the formation of the imidazole ring. IGPS converts N1-(5'-phosphoribulosyl)-formimino-5-aminoimidazole-4-carboxamide ribonucleotide (PRFAR) to imidazole glycerol phosphate (ImGP) and 5'-(5-aminoimidazole-4-carboxamide) ribonucleotide (AICAR). This conversion involves two tightly coupled reactions in distinct active sites of IGPS. The two catalytic domains can be fused, like in fungi and pl
Probab=21.31 E-value=1.2e+02 Score=26.96 Aligned_cols=37 Identities=24% Similarity=0.265 Sum_probs=28.7
Q ss_pred CCcccccccHHHHHHHHHHhcCCCeEEEEecCCcCChh
Q 022557 168 GGGFCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNG 205 (295)
Q Consensus 168 ~~GFC~~NnvAiaa~~l~~~~~~~rv~IiD~D~HhGnG 205 (295)
.+.||+..|..=.|+...++ |++++.|+|+|.--|.+
T Consensus 28 ~~~~~~~~dp~~~a~~~~~~-g~~~l~i~DLd~~~~~~ 64 (233)
T cd04723 28 TSNLCSTSDPLDVARAYKEL-GFRGLYIADLDAIMGRG 64 (233)
T ss_pred ccCcccCCCHHHHHHHHHHC-CCCEEEEEeCccccCCC
Confidence 36789887777777766655 89999999999875544
No 78
>cd02033 BchX Chlorophyllide reductase converts chlorophylls into bacteriochlorophylls by reducing the chlorin B-ring. This family contains the X subunit of this three-subunit enzyme. Sequence and structure similarity between bchX, protochlorophyllide reductase L subunit (bchL and chlL) and nitrogenase Fe protein (nifH gene) suggest their functional similarity. Members of the BchX family serve as the unique electron donors to their respective catalytic subunits (bchN-bchB, bchY-bchZ and nitrogenase component 1). Mechanistically, they hydrolyze ATP and transfer electrons through a Fe4-S4 cluster.
Probab=20.93 E-value=1e+02 Score=29.34 Aligned_cols=20 Identities=25% Similarity=0.401 Sum_probs=15.9
Q ss_pred CeEEEEecCCcCChhhhHhhh
Q 022557 191 SRVMIIDLDAHQGNGHEKDFS 211 (295)
Q Consensus 191 ~rv~IiD~D~HhGnGtq~if~ 211 (295)
+||++||.|.++++ +..+|-
T Consensus 60 ~rVllid~D~~~~~-~~~~~g 79 (329)
T cd02033 60 KRVLLIGCDPKSDT-TSLLFG 79 (329)
T ss_pred CcEEEEEeeecccc-cchhcc
Confidence 69999999999864 666664
No 79
>cd06343 PBP1_ABC_ligand_binding_like_8 Type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup includes the type I periplasmic ligand-binding domain of uncharacterized ABC (ATPase Binding Cassette)-type active transport systems that are predicted to be involved in uptake of amino acids, peptides, or inorganic ions. This subgroup has high sequence similarity to members of the family of hydrophobic amino acid transporters (HAAT), such as leucine/isoleucine/valine binding protein (LIVBP); however its ligand specificity has not been determined experimentally.
Probab=20.79 E-value=2.2e+02 Score=26.29 Aligned_cols=33 Identities=9% Similarity=0.182 Sum_probs=26.4
Q ss_pred HHHHHHHHHhcCCCeEEEEecCCcCChhhhHhh
Q 022557 178 SLCIHYAFVQLNISRVMIIDLDAHQGNGHEKDF 210 (295)
Q Consensus 178 Aiaa~~l~~~~~~~rv~IiD~D~HhGnGtq~if 210 (295)
...++++.++.+.+||++|=-|-..|+...+.|
T Consensus 132 ~~~~~~~~~~~g~~~v~ii~~~~~~g~~~~~~~ 164 (362)
T cd06343 132 RIYAKYLVEEKPNAKIAVLYQNDDFGKDYLKGL 164 (362)
T ss_pred HHHHHHHHHhCCCceEEEEEeccHHHHHHHHHH
Confidence 456688888878899999988888888777665
No 80
>TIGR00734 hisAF_rel hisA/hisF family protein. This alignment models a family of proteins found so far in three archaeal species: Methanobacterium thermoautotrophicum, Methanococcus jannaschii, and Archaeoglobus fulgidus. This protein is homologous to phosphoribosylformimino-5-aminoimidazole carboxamide ribotide isomerase (HisA) and, with lower similarity, to the cyclase HisF, both of which are enzymes of histidine biosynthesis. Each species with this protein also encodes HisA. The function of this protein is unknown.
Probab=20.42 E-value=1.6e+02 Score=26.16 Aligned_cols=36 Identities=17% Similarity=0.088 Sum_probs=27.8
Q ss_pred ccccccHHHHHHHHHHhcCCCeEEEEecCCcCChhhh
Q 022557 171 FCAYADISLCIHYAFVQLNISRVMIIDLDAHQGNGHE 207 (295)
Q Consensus 171 FC~~NnvAiaa~~l~~~~~~~rv~IiD~D~HhGnGtq 207 (295)
.|+..|..-.|++.. +.|++.+-|+|+|..-|.+.+
T Consensus 32 ~~~~~dP~~~a~~~~-~~g~~~l~ivDLd~~~~~~~n 67 (221)
T TIGR00734 32 SRLSSSPDDAAKVIE-EIGARFIYIADLDRIVGLGDN 67 (221)
T ss_pred eecCCCHHHHHHHHH-HcCCCEEEEEEcccccCCcch
Confidence 688888777777665 458999999999998765543
Done!