Query 029560
Match_columns 191
No_of_seqs 115 out of 1105
Neff 8.5
Searched_HMMs 46136
Date Fri Mar 29 14:52:40 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029560.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029560hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd03750 proteasome_alpha_type_ 100.0 2E-44 4.4E-49 286.2 23.9 179 2-184 48-226 (227)
2 KOG0176 20S proteasome, regula 100.0 7.6E-45 1.6E-49 271.9 16.4 182 1-186 54-240 (241)
3 KOG0182 20S proteasome, regula 100.0 2.3E-43 5E-48 266.5 20.3 190 2-191 57-246 (246)
4 PRK03996 proteasome subunit al 100.0 9.9E-43 2.1E-47 278.8 24.1 182 3-187 58-239 (241)
5 PTZ00246 proteasome subunit al 100.0 1.2E-42 2.6E-47 280.1 24.5 184 3-188 53-242 (253)
6 COG0638 PRE1 20S proteasome, a 100.0 8.6E-43 1.9E-47 277.8 23.3 180 5-190 55-235 (236)
7 KOG0181 20S proteasome, regula 100.0 2.4E-43 5.2E-48 263.3 14.6 181 2-187 53-233 (233)
8 TIGR03690 20S_bact_beta protea 100.0 5.1E-42 1.1E-46 271.0 21.9 182 3-189 25-216 (219)
9 cd03758 proteasome_beta_type_2 100.0 4.3E-42 9.3E-47 266.6 20.7 166 3-174 24-190 (193)
10 KOG0183 20S proteasome, regula 100.0 5.8E-43 1.2E-47 264.7 15.0 184 2-188 51-234 (249)
11 cd03760 proteasome_beta_type_4 100.0 1.9E-41 4.1E-46 263.8 20.3 169 3-175 25-195 (197)
12 cd03754 proteasome_alpha_type_ 100.0 4.4E-41 9.6E-46 264.9 20.9 164 2-165 50-215 (215)
13 TIGR03633 arc_protsome_A prote 100.0 7.1E-41 1.5E-45 265.4 21.5 173 3-179 51-224 (224)
14 PTZ00488 Proteasome subunit be 100.0 1.6E-40 3.4E-45 266.2 21.8 175 3-188 62-239 (247)
15 cd03759 proteasome_beta_type_3 100.0 1.3E-40 2.8E-45 258.7 20.1 166 3-174 25-193 (195)
16 cd03761 proteasome_beta_type_5 100.0 1.6E-40 3.5E-45 256.8 20.3 163 4-175 24-187 (188)
17 cd03755 proteasome_alpha_type_ 100.0 2.4E-40 5.3E-45 259.4 20.8 159 3-165 49-207 (207)
18 cd03749 proteasome_alpha_type_ 100.0 5.2E-40 1.1E-44 258.2 20.8 157 9-166 53-211 (211)
19 cd03751 proteasome_alpha_type_ 100.0 5.4E-40 1.2E-44 258.2 20.2 161 2-165 51-212 (212)
20 KOG0178 20S proteasome, regula 100.0 3.5E-40 7.7E-45 249.0 18.3 187 2-189 52-242 (249)
21 cd03752 proteasome_alpha_type_ 100.0 8.5E-40 1.8E-44 257.4 21.0 161 3-165 51-213 (213)
22 KOG0863 20S proteasome, regula 100.0 1.4E-39 3E-44 248.7 18.4 177 9-187 58-236 (264)
23 TIGR03691 20S_bact_alpha prote 100.0 3.5E-39 7.7E-44 255.6 21.2 173 9-184 48-228 (228)
24 cd03756 proteasome_alpha_arche 100.0 5.1E-39 1.1E-43 252.6 21.4 161 3-166 50-210 (211)
25 cd03757 proteasome_beta_type_1 100.0 3.4E-39 7.4E-44 253.7 20.1 165 3-171 30-203 (212)
26 TIGR03634 arc_protsome_B prote 100.0 5.3E-39 1.2E-43 247.6 20.1 160 3-169 24-184 (185)
27 cd03765 proteasome_beta_bacter 100.0 5E-39 1.1E-43 255.2 20.0 166 2-170 21-202 (236)
28 cd03764 proteasome_beta_archea 100.0 1.1E-38 2.5E-43 246.4 20.9 163 4-175 24-187 (188)
29 cd03763 proteasome_beta_type_7 100.0 2.4E-38 5.3E-43 244.8 20.5 163 4-176 24-187 (189)
30 cd03762 proteasome_beta_type_6 100.0 3.9E-38 8.5E-43 243.4 20.4 159 4-169 24-183 (188)
31 cd01911 proteasome_alpha prote 100.0 4.9E-38 1.1E-42 246.7 20.4 161 3-165 49-209 (209)
32 cd03753 proteasome_alpha_type_ 100.0 5.5E-38 1.2E-42 247.1 20.6 160 3-165 49-213 (213)
33 PF00227 Proteasome: Proteasom 100.0 3.7E-37 8.1E-42 237.8 20.6 161 3-165 28-190 (190)
34 cd01912 proteasome_beta protea 100.0 4.7E-37 1E-41 237.4 20.5 160 4-169 23-184 (189)
35 KOG0184 20S proteasome, regula 100.0 3.6E-37 7.7E-42 234.4 17.1 185 1-188 54-239 (254)
36 cd01906 proteasome_protease_Hs 100.0 7.5E-36 1.6E-40 229.0 20.4 154 8-165 28-182 (182)
37 KOG0175 20S proteasome, regula 100.0 3.9E-33 8.5E-38 216.3 12.9 177 3-188 94-271 (285)
38 KOG0177 20S proteasome, regula 100.0 2.2E-32 4.8E-37 203.7 14.6 168 3-176 24-192 (200)
39 KOG0179 20S proteasome, regula 100.0 1.8E-31 3.9E-36 201.6 15.9 166 6-175 55-230 (235)
40 KOG0185 20S proteasome, regula 100.0 3.9E-29 8.4E-34 191.9 12.4 173 5-181 66-241 (256)
41 KOG0174 20S proteasome, regula 100.0 2.4E-28 5.2E-33 182.8 12.0 175 4-185 43-218 (224)
42 KOG0173 20S proteasome, regula 100.0 2.8E-27 6E-32 183.4 14.0 162 3-172 60-222 (271)
43 KOG0180 20S proteasome, regula 99.9 8.5E-26 1.9E-30 166.2 14.1 158 7-170 35-194 (204)
44 cd01901 Ntn_hydrolase The Ntn 99.9 7.8E-25 1.7E-29 163.4 18.4 135 8-148 28-163 (164)
45 PRK05456 ATP-dependent proteas 99.9 6.4E-25 1.4E-29 166.8 15.8 144 3-164 24-171 (172)
46 cd01913 protease_HslV Protease 99.9 2E-24 4.3E-29 163.1 15.8 142 3-164 23-170 (171)
47 TIGR03692 ATP_dep_HslV ATP-dep 99.9 3E-24 6.6E-29 162.1 15.1 144 3-164 23-170 (171)
48 COG5405 HslV ATP-dependent pro 99.0 3.7E-09 8E-14 77.9 9.8 140 9-166 33-176 (178)
49 COG3484 Predicted proteasome-t 97.4 0.0037 8E-08 48.2 11.1 146 21-169 45-202 (255)
50 KOG3361 Iron binding protein i 87.4 1.3 2.8E-05 32.1 4.4 44 97-142 71-114 (157)
51 PF09894 DUF2121: Uncharacteri 79.3 9 0.0002 29.6 6.3 49 118-168 131-180 (194)
52 PF03646 FlaG: FlaG protein; 74.7 11 0.00024 26.0 5.4 32 157-188 65-97 (107)
53 cd06404 PB1_aPKC PB1 domain is 72.2 26 0.00056 23.3 6.9 55 132-191 18-73 (83)
54 COG4079 Uncharacterized protei 68.2 16 0.00034 29.5 5.4 64 118-183 132-196 (293)
55 PF07499 RuvA_C: RuvA, C-termi 66.4 4.7 0.0001 23.6 1.7 34 112-146 12-45 (47)
56 PRK08868 flagellar protein Fla 63.3 46 0.001 24.6 6.7 33 157-189 99-132 (144)
57 PF00178 Ets: Ets-domain; Int 61.8 20 0.00043 23.9 4.2 27 162-188 21-47 (85)
58 smart00413 ETS erythroblast tr 54.7 20 0.00044 24.1 3.3 27 161-187 20-46 (87)
59 PRK07738 flagellar protein Fla 54.5 76 0.0016 22.6 6.6 32 157-188 74-106 (117)
60 PF14804 Jag_N: Jag N-terminus 51.1 24 0.00052 21.2 3.0 29 133-167 4-32 (52)
61 PRK08452 flagellar protein Fla 49.8 95 0.002 22.3 6.7 31 158-188 82-113 (124)
62 PF11211 DUF2997: Protein of u 47.6 43 0.00093 19.7 3.6 32 97-128 3-34 (48)
63 COG4728 Uncharacterized protei 46.7 22 0.00049 24.6 2.6 30 13-42 9-38 (124)
64 PF03928 DUF336: Domain of unk 45.6 25 0.00054 25.1 3.0 35 133-170 2-36 (132)
65 PRK02260 S-ribosylhomocysteina 45.0 1.2E+02 0.0027 22.7 6.5 62 92-153 70-150 (158)
66 COG4245 TerY Uncharacterized p 44.8 57 0.0012 25.4 4.8 46 138-183 22-68 (207)
67 PF10632 He_PIG_assoc: He_PIG 43.7 33 0.00072 18.0 2.4 23 81-104 4-26 (29)
68 PRK09732 hypothetical protein; 40.7 76 0.0016 23.1 4.8 36 132-170 5-40 (134)
69 KOG3806 Predicted transcriptio 37.1 50 0.0011 25.2 3.5 25 162-186 88-112 (177)
70 COG1334 FlaG Uncharacterized f 36.8 1.6E+02 0.0034 21.1 5.8 32 158-189 78-110 (120)
71 PF06057 VirJ: Bacterial virul 36.2 62 0.0013 25.1 3.9 34 52-89 43-76 (192)
72 PF01242 PTPS: 6-pyruvoyl tetr 35.3 68 0.0015 22.5 3.8 46 26-71 43-98 (123)
73 PF04539 Sigma70_r3: Sigma-70 34.6 97 0.0021 19.5 4.2 32 36-67 3-34 (78)
74 PRK14603 ruvA Holliday junctio 33.4 67 0.0015 24.9 3.8 38 110-147 159-196 (197)
75 COG3193 GlcG Uncharacterized p 32.7 1.1E+02 0.0024 22.5 4.6 37 131-170 5-41 (141)
76 COG0822 IscU NifU homolog invo 32.1 2.1E+02 0.0045 21.1 6.4 88 98-188 48-142 (150)
77 PF08529 NusA_N: NusA N-termin 31.4 1.9E+02 0.0041 20.4 6.0 43 131-174 12-55 (122)
78 PRK14602 ruvA Holliday junctio 30.9 99 0.0022 24.1 4.4 39 110-148 162-200 (203)
79 PF05593 RHS_repeat: RHS Repea 30.7 78 0.0017 17.2 2.8 20 95-114 7-26 (38)
80 PF00564 PB1: PB1 domain; Int 30.4 1.5E+02 0.0032 18.8 6.1 51 132-188 20-70 (84)
81 PF03681 UPF0150: Uncharacteri 30.3 62 0.0013 18.5 2.5 18 134-151 29-46 (48)
82 PHA03324 nuclear egress membra 30.0 59 0.0013 25.7 2.9 68 50-118 49-119 (274)
83 cd06402 PB1_p62 The PB1 domain 29.3 1.8E+02 0.0039 19.5 5.4 50 133-187 26-75 (87)
84 PF06018 CodY: CodY GAF-like d 27.6 2.8E+02 0.0061 21.2 7.3 67 35-127 2-68 (177)
85 PF01592 NifU_N: NifU-like N t 27.2 2.3E+02 0.0049 20.0 5.5 63 87-152 29-96 (126)
86 PRK09570 rpoH DNA-directed RNA 26.0 76 0.0016 20.9 2.5 20 170-189 13-32 (79)
87 PF12481 DUF3700: Aluminium in 25.5 3.1E+02 0.0067 21.9 6.2 27 11-37 67-93 (228)
88 KOG2201 Pantothenate kinase Pa 25.3 2.2E+02 0.0047 24.3 5.5 56 84-146 177-232 (371)
89 PRK12413 phosphomethylpyrimidi 24.8 1.3E+02 0.0028 23.6 4.2 39 112-153 204-242 (253)
90 COG1754 Uncharacterized C-term 24.8 44 0.00096 27.6 1.5 56 85-144 77-134 (298)
91 PRK07105 pyridoxamine kinase; 23.0 76 0.0017 25.6 2.6 27 11-37 4-30 (284)
92 PF11773 PulG: Type II secreto 23.0 1.1E+02 0.0024 20.3 2.8 41 134-176 34-74 (82)
93 COG4537 ComGC Competence prote 22.7 2E+02 0.0044 19.9 4.1 28 32-59 49-77 (107)
94 PRK12412 pyridoxal kinase; Rev 22.2 1.5E+02 0.0032 23.8 4.1 38 113-153 209-246 (268)
95 PF01191 RNA_pol_Rpb5_C: RNA p 21.8 1E+02 0.0022 20.0 2.5 19 170-188 10-28 (74)
96 cd01947 Guanosine_kinase_like 21.6 4E+02 0.0086 20.8 7.0 61 80-147 189-255 (265)
97 PRK02487 hypothetical protein; 21.6 2.7E+02 0.0058 20.7 5.1 33 131-166 20-52 (163)
98 TIGR00687 pyridox_kin pyridoxa 21.5 1.6E+02 0.0034 23.8 4.2 38 113-153 219-256 (286)
99 PF14593 PH_3: PH domain; PDB: 21.5 76 0.0016 22.0 1.9 16 92-107 36-51 (104)
100 PRK11325 scaffold protein; Pro 21.4 3.1E+02 0.0067 19.4 5.5 51 98-151 46-97 (127)
101 PF01458 UPF0051: Uncharacteri 21.0 1.4E+02 0.0031 23.3 3.7 48 93-147 182-229 (229)
102 COG0771 MurD UDP-N-acetylmuram 20.9 1E+02 0.0022 27.3 3.0 62 81-147 346-411 (448)
103 KOG3219 Transcription initiati 20.5 3.6E+02 0.0077 21.0 5.5 49 17-67 130-179 (195)
104 PF05589 DUF768: Protein of un 20.0 2.4E+02 0.0053 17.7 3.9 37 116-152 5-41 (64)
No 1
>cd03750 proteasome_alpha_type_2 proteasome_alpha_type_2. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=2e-44 Score=286.16 Aligned_cols=179 Identities=35% Similarity=0.583 Sum_probs=170.9
Q ss_pred CCccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc
Q 029560 2 QDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV 81 (191)
Q Consensus 2 ~s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v 81 (191)
.++|+.+++.+||++|++|++|++||+.+|++.+.+++|.+++.|++++|++++++.++++|++.+|+|+++++.|||+|
T Consensus 48 ~~~l~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~l~~~~~~~t~~~~~rP~~v 127 (227)
T cd03750 48 PSPLIDESSVHKVEQITPHIGMVYSGMGPDFRVLVKKARKIAQQYYLVYGEPIPVSQLVREIASVMQEYTQSGGVRPFGV 127 (227)
T ss_pred CccccCCCCcceEEEEcCCEEEEEeEcHHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCCCChhe
Confidence 36788889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCCeEE
Q 029560 82 VAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKASEIE 161 (191)
Q Consensus 82 ~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~~ie 161 (191)
++||+|||+ .||+||.+||+|++.+++++|+|+|++.++++||++|+ ++||++||++++++||+.+.+|++...+++
T Consensus 128 ~~li~G~D~-~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~--~~ms~eeai~l~~~~l~~~~~~~l~~~~ie 204 (227)
T cd03750 128 SLLIAGWDE-GGPYLYQVDPSGSYFTWKATAIGKNYSNAKTFLEKRYN--EDLELEDAIHTAILTLKEGFEGQMTEKNIE 204 (227)
T ss_pred EEEEEEEeC-CCCEEEEECCCCCEEeeeEEEECCCCHHHHHHHHhhcc--CCCCHHHHHHHHHHHHHHHhcccCCCCcEE
Confidence 999999997 68999999999999999999999999999999999984 789999999999999999999888777999
Q ss_pred EEEEEeCCCcEEEcCHHHHHHHH
Q 029560 162 VGVVSKENPEFRVLSIEEIDEHL 184 (191)
Q Consensus 162 i~iv~~~~~~~~~~~~~~i~~~~ 184 (191)
|+++++++ ++++++++||++++
T Consensus 205 v~iv~~~~-~~~~~~~~ei~~~~ 226 (227)
T cd03750 205 IGICGETK-GFRLLTPAEIKDYL 226 (227)
T ss_pred EEEEECCC-CEEECCHHHHHHHh
Confidence 99999874 49999999999986
No 2
>KOG0176 consensus 20S proteasome, regulatory subunit alpha type PSMA5/PUP2 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=7.6e-45 Score=271.94 Aligned_cols=182 Identities=30% Similarity=0.544 Sum_probs=172.1
Q ss_pred CCCccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhh-----cC
Q 029560 1 MQDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH-----AY 75 (191)
Q Consensus 1 ~~s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~-----~~ 75 (191)
+.|+|++++.++||++|++||+|++||+.+|++.+++++|.+|++|++.||++|+++.+++.++++..+|-.. ..
T Consensus 54 itSpLm~p~sveKi~eid~HIgca~SGl~aDarTlve~arv~~qnh~f~Y~e~i~VEs~tq~v~~LaLrFGe~~~~~~~m 133 (241)
T KOG0176|consen 54 ITSPLMEPSSVEKIVEIDDHIGCAMSGLIADARTLVERARVETQNHWFTYGEPISVESLTQAVSDLALRFGEGDDEEAIM 133 (241)
T ss_pred ccCcccCchhhhhheehhhceeeeccccccchHHHHHHHHHHhhhceeecCCcccHHHHHHHHHHHHhHhCCCcchhhhh
Confidence 4799999999999999999999999999999999999999999999999999999999999999999877543 23
Q ss_pred cccccceeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccC
Q 029560 76 MRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDF 155 (191)
Q Consensus 76 ~rP~~v~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~ 155 (191)
.|||||++|+||+|+ .||+||..||+|++++|++.|||+|+..|...|++.| .++|+++||+.+++..|+.+++..+
T Consensus 134 sRPFGValliAG~D~-~gpqL~h~dPSGtf~~~~AKAIGSgsEga~~~L~~e~--~~~ltL~ea~~~~L~iLkqVMeeKl 210 (241)
T KOG0176|consen 134 SRPFGVALLIAGHDE-TGPQLYHLDPSGTFIRYKAKAIGSGSEGAESSLQEEY--HKDLTLKEAEKIVLKILKQVMEEKL 210 (241)
T ss_pred cCCcceEEEEeeccC-CCceEEEeCCCCceEEecceeccccchHHHHHHHHHH--hhcccHHHHHHHHHHHHHHHHHHhc
Confidence 599999999999997 8999999999999999999999999999999999998 4889999999999999999999999
Q ss_pred CCCeEEEEEEEeCCCcEEEcCHHHHHHHHHH
Q 029560 156 KASEIEVGVVSKENPEFRVLSIEEIDEHLTA 186 (191)
Q Consensus 156 ~~~~iei~iv~~~~~~~~~~~~~~i~~~~~~ 186 (191)
++.|+++++|++++ +|+.++++|++.++.+
T Consensus 211 ~~~Nvev~~vt~e~-~f~~~t~EE~~~~i~~ 240 (241)
T KOG0176|consen 211 NSNNVEVAVVTPEG-EFHIYTPEEVEQVIKR 240 (241)
T ss_pred CccceEEEEEcccC-ceEecCHHHHHHHHhc
Confidence 99999999999987 4999999999998865
No 3
>KOG0182 consensus 20S proteasome, regulatory subunit alpha type PSMA6/SCL1 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.3e-43 Score=266.46 Aligned_cols=190 Identities=67% Similarity=1.008 Sum_probs=186.1
Q ss_pred CCccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc
Q 029560 2 QDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV 81 (191)
Q Consensus 2 ~s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v 81 (191)
|.||++++++..+|+|..+|+|+++|+.+|++..+.++|.++.++++.||.+||++.|+++++++.|.|||+..+||+||
T Consensus 57 pDKLld~~tvt~~f~itk~ig~v~tG~~aDar~~v~rar~eAa~~~yk~Gyemp~DiL~k~~Ad~~QvytQ~a~mRplg~ 136 (246)
T KOG0182|consen 57 PDKLLDSSTVTHLFRITKKIGCVITGMIADARSQVQRARYEAAEFRYKYGYEMPCDILAKRMADKSQVYTQNAAMRPLGV 136 (246)
T ss_pred cccccccccceeEEEeeccceEEEecCCcchHHHHHHHHHHHHhhhhhcCCCCCHHHHHHHHhhHHHHHhhhhhhcccce
Confidence 78999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCCeEE
Q 029560 82 VAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKASEIE 161 (191)
Q Consensus 82 ~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~~ie 161 (191)
.+++.|+|++.||.+|.+||.|-+..++++|.|...+.+..+||++++++.++|.+|++++++.||..++..|..+..+|
T Consensus 137 ~~~~i~~D~E~gP~vYk~DpAGyy~g~kAtaaG~Kq~e~tsfLEKk~Kk~~~~t~~e~ve~ai~al~~sl~~Dfk~se~E 216 (246)
T KOG0182|consen 137 AATLIGVDEERGPSVYKTDPAGYYYGFKATAAGVKQQEATSFLEKKYKKDIDLTFEETVETAISALQSSLGIDFKSSELE 216 (246)
T ss_pred eEEEEEeccccCcceEeecCccccccceeeecccchhhHHHHHHHhhccCccchHHHHHHHHHHHHHHHHhcccCCcceE
Confidence 99999999999999999999999999999999999999999999999877779999999999999999999999999999
Q ss_pred EEEEEeCCCcEEEcCHHHHHHHHHHhhccC
Q 029560 162 VGVVSKENPEFRVLSIEEIDEHLTAISERD 191 (191)
Q Consensus 162 i~iv~~~~~~~~~~~~~~i~~~~~~~~~~~ 191 (191)
|+++++++++|++|+.+||+++|..|+|||
T Consensus 217 Vgvv~~~~p~f~~Ls~~eie~hL~~IAEkd 246 (246)
T KOG0182|consen 217 VGVVTVDNPEFRILSAEEIEEHLQAIAEKD 246 (246)
T ss_pred EEEEEcCCcceeeccHHHHHHHHHHhhhcC
Confidence 999999999999999999999999999998
No 4
>PRK03996 proteasome subunit alpha; Provisional
Probab=100.00 E-value=9.9e-43 Score=278.78 Aligned_cols=182 Identities=34% Similarity=0.623 Sum_probs=172.6
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccce
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVV 82 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~ 82 (191)
+.++.+++.+||++|++|++|++||+.+|++.+.++++.++..|++.++++++++.+++++++.+|.|+++++.|||+|+
T Consensus 58 ~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~~~~~~rP~~~~ 137 (241)
T PRK03996 58 SPLIEPSSIEKIFKIDDHIGAASAGLVADARVLIDRARVEAQINRLTYGEPIGVETLTKKICDHKQQYTQHGGVRPFGVA 137 (241)
T ss_pred CcccCCCccceEEEEcCCEEEEEcccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhcCCCCccchheE
Confidence 56777889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCCeEEE
Q 029560 83 AMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKASEIEV 162 (191)
Q Consensus 83 ~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~~iei 162 (191)
+||||||. .||+||.+||+|++.+++++|+|+|+..++++||+.| +++|+++||++++++||..+.+++....+++|
T Consensus 138 ~ilaG~d~-~gp~Ly~id~~G~~~~~~~~a~G~g~~~~~~~Le~~~--~~~~s~eeai~l~~~al~~~~~~~~~~~~i~i 214 (241)
T PRK03996 138 LLIAGVDD-GGPRLFETDPSGAYLEYKATAIGAGRDTVMEFLEKNY--KEDLSLEEAIELALKALAKANEGKLDPENVEI 214 (241)
T ss_pred EEEEEEeC-CcCEEEEECCCCCeecceEEEECCCcHHHHHHHHHhc--ccCCCHHHHHHHHHHHHHHHhccCCCCCcEEE
Confidence 99999997 6899999999999999999999999999999999998 48899999999999999999887655558999
Q ss_pred EEEEeCCCcEEEcCHHHHHHHHHHh
Q 029560 163 GVVSKENPEFRVLSIEEIDEHLTAI 187 (191)
Q Consensus 163 ~iv~~~~~~~~~~~~~~i~~~~~~~ 187 (191)
+++++++++|+.++++||++++.++
T Consensus 215 ~ii~~~~~~~~~~~~~ei~~~~~~~ 239 (241)
T PRK03996 215 AYIDVETKKFRKLSVEEIEKYLEKL 239 (241)
T ss_pred EEEECCCCcEEECCHHHHHHHHHHh
Confidence 9999998789999999999999875
No 5
>PTZ00246 proteasome subunit alpha; Provisional
Probab=100.00 E-value=1.2e-42 Score=280.06 Aligned_cols=184 Identities=33% Similarity=0.510 Sum_probs=172.0
Q ss_pred CccccC-CCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc
Q 029560 3 DKLLDH-TSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV 81 (191)
Q Consensus 3 s~l~~~-~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v 81 (191)
++++.+ ++++|||+|++|++|+++|+.+|++.+.+.+|.++..|++.++++++++.+++.++..+|.|+|++++|||+|
T Consensus 53 ~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~l~~~l~~~~q~~~~~~~~rP~~v 132 (253)
T PTZ00246 53 SKLLDPGKINEKIYKIDSHIFCAVAGLTADANILINQCRLYAQRYRYTYGEPQPVEQLVVQICDLKQSYTQFGGLRPFGV 132 (253)
T ss_pred CcCccCCCCcccEEEecCCEEEEEEEcHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccccCcccCCE
Confidence 445554 4689999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eE
Q 029560 82 VAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EI 160 (191)
Q Consensus 82 ~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~i 160 (191)
++||+|||+++||+||.+||+|++.+++++|+|+|++.++++||++| +++||++||++++++||+.+.++|..++ ++
T Consensus 133 ~~li~G~D~~~gp~Ly~~D~~Gs~~~~~~~a~G~gs~~~~~~Le~~~--~~~ms~eeai~l~~~al~~~~~~d~~s~~~v 210 (253)
T PTZ00246 133 SFLFAGYDENLGYQLYHTDPSGNYSGWKATAIGQNNQTAQSILKQEW--KEDLTLEQGLLLAAKVLTKSMDSTSPKADKI 210 (253)
T ss_pred EEEEEEEeCCCCcEEEEECCCCCEecceEEEECCCcHHHHHHHHHhc--cCCCCHHHHHHHHHHHHHHHHhccCCCCCcE
Confidence 99999999757899999999999999999999999999999999998 4799999999999999999999987765 89
Q ss_pred EEEEEEeCC----CcEEEcCHHHHHHHHHHhh
Q 029560 161 EVGVVSKEN----PEFRVLSIEEIDEHLTAIS 188 (191)
Q Consensus 161 ei~iv~~~~----~~~~~~~~~~i~~~~~~~~ 188 (191)
+|+++++++ +.|+.++++||++++.++.
T Consensus 211 ev~ii~~~~~~~~~~~~~l~~~ei~~~l~~~~ 242 (253)
T PTZ00246 211 EVGILSHGETDGEPIQKMLSEKEIAELLKKVT 242 (253)
T ss_pred EEEEEecCCcCCCCCeEECCHHHHHHHHHHHh
Confidence 999999874 3599999999999999886
No 6
>COG0638 PRE1 20S proteasome, alpha and beta subunits [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=8.6e-43 Score=277.78 Aligned_cols=180 Identities=37% Similarity=0.620 Sum_probs=169.5
Q ss_pred cccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccceeE
Q 029560 5 LLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAM 84 (191)
Q Consensus 5 l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~i 84 (191)
++.+++++|||+|+|||+|++||+.+|++.+++++|.+++.|++.++++|+++.+++.+++++|.|+++ .|||+|++|
T Consensus 55 ~~~~~~~~Ki~~I~d~i~~~~sG~~aDa~~lv~~~r~~a~~~~~~~~~~i~v~~la~~ls~~l~~~~~~--~rP~gv~~i 132 (236)
T COG0638 55 LIASSNVEKIFKIDDHIGMAIAGLAADAQVLVRYARAEAQLYRLRYGEPISVEALAKLLSNILQEYTQS--GRPYGVSLL 132 (236)
T ss_pred eecccccceEEEecCCEEEEeccCcHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhccC--cccceEEEE
Confidence 455567999999999999999999999999999999999999999999999999999999999999987 899999999
Q ss_pred EEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEEEE
Q 029560 85 VLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIEVG 163 (191)
Q Consensus 85 v~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~iei~ 163 (191)
|||+|+ ++|+||++||+|++.+++++|+|+|++.++++||+.| +++|++|||++++++||+.+.+||..++ +++|+
T Consensus 133 iaG~d~-~~p~Ly~~Dp~G~~~~~~~~a~Gsgs~~a~~~Le~~y--~~~m~~eeai~la~~al~~a~~rd~~s~~~~~v~ 209 (236)
T COG0638 133 VAGVDD-GGPRLYSTDPSGSYNEYKATAIGSGSQFAYGFLEKEY--REDLSLEEAIELAVKALRAAIERDAASGGGIEVA 209 (236)
T ss_pred EEEEcC-CCCeEEEECCCCceeecCEEEEcCCcHHHHHHHHhhc--cCCCCHHHHHHHHHHHHHHHHhccccCCCCeEEE
Confidence 999998 8999999999999999999999999999999999998 5889999999999999999999999665 88999
Q ss_pred EEEeCCCcEEEcCHHHHHHHHHHhhcc
Q 029560 164 VVSKENPEFRVLSIEEIDEHLTAISER 190 (191)
Q Consensus 164 iv~~~~~~~~~~~~~~i~~~~~~~~~~ 190 (191)
++++++ +++.++++++..++..+..+
T Consensus 210 vi~~~~-~~~~~~~~~~~~~~~~~~~~ 235 (236)
T COG0638 210 VITKDE-GFRKLDGEEIKKLLDDLSEK 235 (236)
T ss_pred EEEcCC-CeEEcCHHHHHHHHHHHhhc
Confidence 999974 49999999999999887654
No 7
>KOG0181 consensus 20S proteasome, regulatory subunit alpha type PSMA2/PRE8 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.4e-43 Score=263.30 Aligned_cols=181 Identities=34% Similarity=0.557 Sum_probs=173.6
Q ss_pred CCccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc
Q 029560 2 QDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV 81 (191)
Q Consensus 2 ~s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v 81 (191)
.|.|++...++|++.|.+||+|.+||+.+|++.+++..|+.++.|...|++++|+..|++.++..+|+|||+++.|||||
T Consensus 53 ~s~L~~~~sv~KV~~i~~~IG~vYSGmgpD~RvlV~~~rkiAe~Yy~vY~e~~pt~qlv~~~asvmQEyTqsgGvrPFGv 132 (233)
T KOG0181|consen 53 VSPLVDEESVRKVEKITPHIGCVYSGMGPDYRVLVHKSRKIAEQYYRVYGEPIPTTQLVQEVASVMQEYTQSGGVRPFGV 132 (233)
T ss_pred CCccchhhhhhhHhhccCCcceEEecCCCceeehhhHHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhhcCCccccce
Confidence 47788899999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCCeEE
Q 029560 82 VAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKASEIE 161 (191)
Q Consensus 82 ~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~~ie 161 (191)
+++|||||+ ++|.||++||+|+++.|+++|+|.+...++++||++| .++|.+++++..|+.+|++..+..+++.++|
T Consensus 133 slliaG~~~-~~p~LyQvdPSGsyf~wkatA~Gkn~v~aktFlEkR~--~edleldd~ihtailtlkE~fege~~~~nie 209 (233)
T KOG0181|consen 133 SLLIAGWDE-GGPLLYQVDPSGSYFAWKATAMGKNYVNAKTFLEKRY--NEDLELDDAIHTAILTLKESFEGEMTAKNIE 209 (233)
T ss_pred EEEEeecCC-CceeEEEECCccceeehhhhhhccCcchHHHHHHHHh--ccccccchHHHHHHHHHHHHhccccccCceE
Confidence 999999998 7999999999999999999999999999999999998 5889999999999999999999999999999
Q ss_pred EEEEEeCCCcEEEcCHHHHHHHHHHh
Q 029560 162 VGVVSKENPEFRVLSIEEIDEHLTAI 187 (191)
Q Consensus 162 i~iv~~~~~~~~~~~~~~i~~~~~~~ 187 (191)
|+++... +|+.+++.||+.++..+
T Consensus 210 igv~~~~--~F~~lt~~eI~d~l~~l 233 (233)
T KOG0181|consen 210 IGVCGEN--GFRRLTPAEIEDYLASL 233 (233)
T ss_pred EEEecCC--ceeecCHHHHHHHHhcC
Confidence 9999955 49999999999998753
No 8
>TIGR03690 20S_bact_beta proteasome, beta subunit, bacterial type. Members of this family are the beta subunit of the 20S proteasome as found in Actinobacteria such as Mycobacterium, Rhodococcus, and Streptomyces. In Streptomyces, maturation during proteasome assembly was shown to remove a 53-amino acid propeptide. Most of the length of the propeptide is not included in this model.
Probab=100.00 E-value=5.1e-42 Score=270.98 Aligned_cols=182 Identities=21% Similarity=0.263 Sum_probs=167.1
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccce
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVV 82 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~ 82 (191)
++++.+++++|||+|++|++|+++|+.+|++.+.+++|.+++.|+++++++++++.++++|++++|.++ ...+|||+|+
T Consensus 25 g~~~~~~~~~KI~~i~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~~~-~~~~rp~~v~ 103 (219)
T TIGR03690 25 GNMIASRDVEKVYPTDEYSAVGIAGTAGLAIELVRLFQVELEHYEKIEGVPLTLDGKANRLAAMVRGNL-PAAMQGLAVV 103 (219)
T ss_pred CcEEEcCCcceEEEcCCcEEEEecccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhhh-hhccCCceEE
Confidence 378888999999999999999999999999999999999999999999999999999999999998877 4558999999
Q ss_pred eEEEEEcCC-CCCeEEEECCCcc-eeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCCe-
Q 029560 83 AMVLSIDEE-CGPRLFKCDPAGH-FFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKASE- 159 (191)
Q Consensus 83 ~iv~G~d~~-~~p~Ly~~d~~G~-~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~~- 159 (191)
+||||||++ ++|+||.+||+|+ +..++++|+|+|++.++++||++| +++||.+||++++++||..+.+||..+++
T Consensus 104 ~iiaG~D~~~~~~~Ly~~Dp~G~~~~~~~~~a~G~g~~~a~~~Le~~~--~~~ms~eeai~l~~~al~~~~~~d~~s~~~ 181 (219)
T TIGR03690 104 PLLAGYDLDAGAGRIFSYDVTGGRYEERGYHAVGSGSVFAKGALKKLY--SPDLDEDDALRVAVEALYDAADDDSATGGP 181 (219)
T ss_pred EEEEEECCCCCCcEEEEEeCCCCeeecCCeEEEeccHHHHHHHHHhcC--CCCcCHHHHHHHHHHHHHHHHhcccccCCc
Confidence 999999964 6799999999995 767789999999999999999998 48999999999999999999999986542
Q ss_pred -------EEEEEEEeCCCcEEEcCHHHHHHHHHHhhc
Q 029560 160 -------IEVGVVSKENPEFRVLSIEEIDEHLTAISE 189 (191)
Q Consensus 160 -------iei~iv~~~~~~~~~~~~~~i~~~~~~~~~ 189 (191)
++|+++++++ |+.++++||++++.++.+
T Consensus 182 ~~~~~~~~ei~ii~~~g--~~~l~~~ei~~~~~~~~~ 216 (219)
T TIGR03690 182 DLVRGIYPTVVVITADG--ARRVPESELEELARAIVE 216 (219)
T ss_pred ccccccccEEEEEccCc--eEEcCHHHHHHHHHHHHh
Confidence 3999998664 999999999999998874
No 9
>cd03758 proteasome_beta_type_2 proteasome beta type-2 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis.Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=4.3e-42 Score=266.61 Aligned_cols=166 Identities=16% Similarity=0.255 Sum_probs=155.7
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccce
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVV 82 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~ 82 (191)
+.++.+++++|||+|++|++|++||+.+|++.|.+++|.+++.|++.++++++++.+++++++.+|.|++.+ |||+++
T Consensus 24 ~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~~~~~~~~~~~~~~~i~~~~la~~l~~~~~~~~~~~--rP~~~~ 101 (193)
T cd03758 24 SILVLKDDEDKIYKLSDHKLMACSGEAGDRLQFAEYIQKNIQLYKMRNGYELSPKAAANFTRRELAESLRSR--TPYQVN 101 (193)
T ss_pred CcEEEecCcccEEEeCCCeEEEEccchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhhcC--CCeEEE
Confidence 456888999999999999999999999999999999999999999999999999999999999999886543 899999
Q ss_pred eEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEE
Q 029560 83 AMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIE 161 (191)
Q Consensus 83 ~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~ie 161 (191)
+||+|||++++|+||.+||+|++.+++++|+|+|++.++++||+.|+ ++||.|||++++++||+.+.+||..++ +++
T Consensus 102 ~li~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~--~~ms~eeai~l~~~a~~~~~~rd~~~~~~i~ 179 (193)
T cd03758 102 LLLAGYDKVEGPSLYYIDYLGTLVKVPYAAHGYGAYFCLSILDRYYK--PDMTVEEALELMKKCIKELKKRFIINLPNFT 179 (193)
T ss_pred EEEEEEcCCCCcEEEEECCCcceEECCeeEEeecHHHHHHHHHhccC--CCCCHHHHHHHHHHHHHHHHHhccccCCceE
Confidence 99999997678999999999999999999999999999999999984 899999999999999999999998776 899
Q ss_pred EEEEEeCCCcEEE
Q 029560 162 VGVVSKENPEFRV 174 (191)
Q Consensus 162 i~iv~~~~~~~~~ 174 (191)
|++|+++| ++.
T Consensus 180 i~ii~~~g--~~~ 190 (193)
T cd03758 180 VKVVDKDG--IRD 190 (193)
T ss_pred EEEEcCCC--eEe
Confidence 99999886 554
No 10
>KOG0183 consensus 20S proteasome, regulatory subunit alpha type PSMA7/PRE6 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=5.8e-43 Score=264.72 Aligned_cols=184 Identities=32% Similarity=0.481 Sum_probs=173.9
Q ss_pred CCccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc
Q 029560 2 QDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV 81 (191)
Q Consensus 2 ~s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v 81 (191)
-.+|++.+++.||..+++|++|+++|+.+|++.+++++|.+|+.|+++.+.|+++++++++|+.+.|.|||..+.||||+
T Consensus 51 v~~Lq~~r~~rkI~~ld~hV~mafaGl~aDArilinrArvecqShrlt~edpvtveyitRyiA~~kQrYTqs~grRPFGv 130 (249)
T KOG0183|consen 51 VPKLQDERTVRKISMLDDHVVMAFAGLTADARILINRARVECQSHRLTLEDPVTVEYITRYIAGLKQRYTQSNGRRPFGV 130 (249)
T ss_pred hhhhhhhhhhhhheeecceeeEEecCCCccceeehhhHhHhhhhhhcccCCCcHHHHHHHHHHHhhhhhhccCCcccccc
Confidence 35899999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCCeEE
Q 029560 82 VAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKASEIE 161 (191)
Q Consensus 82 ~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~~ie 161 (191)
+.||+|||+.+.|+||++||+|.+.+|++.|+|.+++.++.+||+.|.+.+-.|..++++|++++|.++.. ....++|
T Consensus 131 s~Li~GfD~~g~p~lyqtePsG~f~ewka~aiGr~sk~VrEflEK~y~e~~~~~~~~~ikL~ir~LleVvq--s~~~nie 208 (249)
T KOG0183|consen 131 STLIGGFDPDGTPRLYQTEPSGIFSEWKANAIGRSSKTVREFLEKNYKEEAIATEGETIKLAIRALLEVVQ--SGGKNIE 208 (249)
T ss_pred eEEEEeeCCCCCeeeEeeCCCcchhhhhccccccccHHHHHHHHHhcccccccccccHHHHHHHHHHHHhh--cCCCeeE
Confidence 99999999988899999999999999999999999999999999999766678999999999999999974 3455999
Q ss_pred EEEEEeCCCcEEEcCHHHHHHHHHHhh
Q 029560 162 VGVVSKENPEFRVLSIEEIDEHLTAIS 188 (191)
Q Consensus 162 i~iv~~~~~~~~~~~~~~i~~~~~~~~ 188 (191)
++++...++ ++.++.++|+.++..++
T Consensus 209 ~aVm~~~~~-~~~l~~~~I~~~v~~ie 234 (249)
T KOG0183|consen 209 VAVMKRRKD-LKMLESEEIDDIVKEIE 234 (249)
T ss_pred EEEEecCCc-eeecCHHHHHHHHHHHH
Confidence 999999875 99999999999998775
No 11
>cd03760 proteasome_beta_type_4 proteasome beta type-4 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis.Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=1.9e-41 Score=263.82 Aligned_cols=169 Identities=19% Similarity=0.231 Sum_probs=156.0
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHH-HHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAA-EFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV 81 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~-~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v 81 (191)
++++.+++++|||+|++|++|+++|+.+|++.+.+++|.+++ .|++.++.+++++.++++|++++ |++++++|||+|
T Consensus 25 ~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~~la~~i~~~~--y~~~~~~rP~~v 102 (197)
T cd03760 25 GSLARFKNVERIFKVGDNTLLGASGDYADFQYLKRLLDQLVIDDECLDDGHSLSPKEIHSYLTRVL--YNRRSKMNPLWN 102 (197)
T ss_pred cceeecCCCCcEEEecCcEEEEeCcchHHHHHHHHHHHHHHHHHHHHhCCCCCCHHHHHHHHHHHH--HHHhhcCCCceE
Confidence 578888999999999999999999999999999999999987 57788999999999999999986 899989999999
Q ss_pred eeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eE
Q 029560 82 VAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EI 160 (191)
Q Consensus 82 ~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~i 160 (191)
++||||||++++|+||.+||+|++.+++++|+|+|+..++++||+.|++.++||.+||++++++||+.+.+||..++ ++
T Consensus 103 ~~iiaG~D~~~gp~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~ms~eea~~l~~~~l~~~~~rd~~~~~~~ 182 (197)
T cd03760 103 TLVVGGVDNEGEPFLGYVDLLGTAYEDPHVATGFGAYLALPLLREAWEKKPDLTEEEARALIEECMKVLYYRDARSINKY 182 (197)
T ss_pred EEEEEEEcCCCCEEEEEEcCCccEEECCEeEEccHHHHHHHHHHhhcCCCCCCCHHHHHHHHHHHHHHHHHhccccCCce
Confidence 99999999767899999999999999999999999999999999999533389999999999999999999997665 89
Q ss_pred EEEEEEeCCCcEEEc
Q 029560 161 EVGVVSKENPEFRVL 175 (191)
Q Consensus 161 ei~iv~~~~~~~~~~ 175 (191)
+|++|+++| +++-
T Consensus 183 ~i~ii~~~g--~~~~ 195 (197)
T cd03760 183 QIAVVTKEG--VEIE 195 (197)
T ss_pred EEEEECCCC--EEeC
Confidence 999999986 5543
No 12
>cd03754 proteasome_alpha_type_6 proteasome_alpha_type_6. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=4.4e-41 Score=264.93 Aligned_cols=164 Identities=68% Similarity=1.057 Sum_probs=154.4
Q ss_pred CCccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc
Q 029560 2 QDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV 81 (191)
Q Consensus 2 ~s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v 81 (191)
+++++.+++.+|||+|++|++|++||+.+|++.+.+++|.++..|+++++++|+++.+++.+++++|.|+++++.|||+|
T Consensus 50 ~~~~i~~~~~~Ki~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~q~yt~~~~~RP~~v 129 (215)
T cd03754 50 PDKLIDPSTVTHLFRITDEIGCVMTGMIADSRSQVQRARYEAAEFKYKYGYEMPVDVLAKRIADINQVYTQHAYMRPLGV 129 (215)
T ss_pred cccccCCcccCceEEEcCCEEEEEEechhhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhCCCCCcCCee
Confidence 35677777899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCC--CHHHHHHHHHHHHHhhhcccCCCCe
Q 029560 82 VAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAF--TFQETVQTAISTLQSVLQEDFKASE 159 (191)
Q Consensus 82 ~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~--s~eea~~l~~~~l~~~~~~d~~~~~ 159 (191)
++||||||+++||+||.+||+|++.+++++|+|+|++.++++||++|+...+| |.|||++++++||..+.+||....+
T Consensus 130 ~~ii~G~D~~~gp~Ly~~Dp~Gs~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~~~s~eeai~l~~~al~~~~~rd~~~~~ 209 (215)
T cd03754 130 SMILIGIDEELGPQLYKCDPAGYFAGYKATAAGVKEQEATNFLEKKLKKKPDLIESYEETVELAISCLQTVLSTDFKATE 209 (215)
T ss_pred EEEEEEEeCCCCeEEEEEcCCccEEeEEEEEECCCcHHHHHHHHHHhccccccCCCHHHHHHHHHHHHHHHhcccCCCCc
Confidence 99999999767999999999999999999999999999999999999644468 9999999999999999999988669
Q ss_pred EEEEEE
Q 029560 160 IEVGVV 165 (191)
Q Consensus 160 iei~iv 165 (191)
+||+||
T Consensus 210 ~ei~~~ 215 (215)
T cd03754 210 IEVGVV 215 (215)
T ss_pred EEEEEC
Confidence 999985
No 13
>TIGR03633 arc_protsome_A proteasome endopeptidase complex, archaeal, alpha subunit. This protein family describes the archaeal proteasome alpha subunit, homologous to both the beta subunit and to the alpha and beta subunits of eukaryotic proteasome subunits. This family is universal in the first 29 complete archaeal genomes but occasionally is duplicated.
Probab=100.00 E-value=7.1e-41 Score=265.36 Aligned_cols=173 Identities=38% Similarity=0.640 Sum_probs=163.3
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccce
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVV 82 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~ 82 (191)
+.++.+++.+||++|+++++|++||+.+|++.+.+.++.++..|++.++++++++.++++|++.+|.|+++++.|||+|+
T Consensus 51 ~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~la~~ls~~l~~~~~~~~~rP~~v~ 130 (224)
T TIGR03633 51 SKLVEPSSIEKIFKIDDHIGAATSGLVADARVLIDRARIEAQINRLTYGEPIDVETLAKKICDLKQQYTQHGGVRPFGVA 130 (224)
T ss_pred ccccCCCccceEEEECCCEEEEEeecHHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCccccceE
Confidence 56777789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEE
Q 029560 83 AMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIE 161 (191)
Q Consensus 83 ~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~ie 161 (191)
+||+|||+ ++|+||.+||.|++.+++++|+|+|+..++++|++.| +++|+.+||++++++||..+.+ |..++ +++
T Consensus 131 ~ll~G~d~-~~~~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~--~~~~~~eeai~l~~~al~~~~~-d~~~~~~i~ 206 (224)
T TIGR03633 131 LLIAGVDD-GGPRLFETDPSGALLEYKATAIGAGRQAVTEFLEKEY--REDLSLDEAIELALKALYSAVE-DKLTPENVE 206 (224)
T ss_pred EEEEEEeC-CcCEEEEECCCCCeecceEEEECCCCHHHHHHHHHhc--cCCCCHHHHHHHHHHHHHHHhc-ccCCCCcEE
Confidence 99999996 7899999999999999999999999999999999998 4889999999999999999997 65554 899
Q ss_pred EEEEEeCCCcEEEcCHHH
Q 029560 162 VGVVSKENPEFRVLSIEE 179 (191)
Q Consensus 162 i~iv~~~~~~~~~~~~~~ 179 (191)
|++|+++|+.|+.++++|
T Consensus 207 i~ii~~~g~~~~~~~~~~ 224 (224)
T TIGR03633 207 VAYITVEDKKFRKLSVEE 224 (224)
T ss_pred EEEEEcCCCcEEECCCCC
Confidence 999999987799998875
No 14
>PTZ00488 Proteasome subunit beta type-5; Provisional
Probab=100.00 E-value=1.6e-40 Score=266.19 Aligned_cols=175 Identities=18% Similarity=0.205 Sum_probs=163.3
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc-
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV- 81 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v- 81 (191)
+.++.+++++|||+|++|++|++||+.+|++.+.+++|.+++.|+++++++|+++.++++|+++++.+ |||++
T Consensus 62 g~li~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~lr~~~~~y~~~~g~~isv~~la~~ls~~l~~~------R~~~~~ 135 (247)
T PTZ00488 62 GPYIASQSVKKVIEINPTLLGTMAGGAADCSFWERELAMQCRLYELRNGELISVAAASKILANIVWNY------KGMGLS 135 (247)
T ss_pred CCEEEcCCcCceEEcCCCEEEEeCcCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhc------CCCCee
Confidence 47888899999999999999999999999999999999999999999999999999999999998644 55554
Q ss_pred -eeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-e
Q 029560 82 -VAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-E 159 (191)
Q Consensus 82 -~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~ 159 (191)
++||||||+ .||+||++||+|++.+++++|+|+|+..++++||+.|+ ++||.+||++++++||+.+.+||..++ +
T Consensus 136 v~~iiaG~D~-~gp~Ly~vDp~Gs~~~~~~~a~G~gs~~~~~~Le~~~k--~dms~eEai~l~~kal~~~~~Rd~~sg~~ 212 (247)
T PTZ00488 136 MGTMICGWDK-KGPGLFYVDNDGTRLHGNMFSCGSGSTYAYGVLDAGFK--WDLNDEEAQDLGRRAIYHATFRDAYSGGA 212 (247)
T ss_pred EEEEEEEEeC-CCCEEEEEcCCcceeecCCEEEccCHHHHHHHHHhcCc--CCCCHHHHHHHHHHHHHHHHHhccccCCC
Confidence 589999996 68999999999999999999999999999999999984 789999999999999999999998775 8
Q ss_pred EEEEEEEeCCCcEEEcCHHHHHHHHHHhh
Q 029560 160 IEVGVVSKENPEFRVLSIEEIDEHLTAIS 188 (191)
Q Consensus 160 iei~iv~~~~~~~~~~~~~~i~~~~~~~~ 188 (191)
++|++|+++| ++.++++||++++.++.
T Consensus 213 ~ei~iI~k~g--~~~l~~~ei~~~l~~~~ 239 (247)
T PTZ00488 213 INLYHMQKDG--WKKISADDCFDLHQKYA 239 (247)
T ss_pred eEEEEEcCCc--cEECCHHHHHHHHHHHh
Confidence 9999999875 99999999999999886
No 15
>cd03759 proteasome_beta_type_3 proteasome beta type-3 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=1.3e-40 Score=258.73 Aligned_cols=166 Identities=19% Similarity=0.241 Sum_probs=151.5
Q ss_pred Ccccc-CCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc
Q 029560 3 DKLLD-HTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV 81 (191)
Q Consensus 3 s~l~~-~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v 81 (191)
++++. +++++|||+|++|++|++||..+|++.+.+++|.+++.|+++++++++++.++++|++++ |+++ .+||+|
T Consensus 25 ~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~~~~la~~l~~~l--y~~r--~~P~~v 100 (195)
T cd03759 25 VQQQTVSTDFQKVFRIGDRLYIGLAGLATDVQTLAQKLRFRVNLYRLREEREIKPKTFSSLISSLL--YEKR--FGPYFV 100 (195)
T ss_pred cCCEeEecCCCeEEEeCCCEEEEccchHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH--HHhc--CCCceE
Confidence 45555 457899999999999999999999999999999999999999999999999999999998 6653 589999
Q ss_pred eeEEEEEcCCCCCeEEEECCCcceecee-eeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-e
Q 029560 82 VAMVLSIDEECGPRLFKCDPAGHFFGHK-ATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-E 159 (191)
Q Consensus 82 ~~iv~G~d~~~~p~Ly~~d~~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~ 159 (191)
++||||||++++|+||.+||+|++..++ ++|+|+|++.++++||+.| +++||.+||++++++||+.+.+||..++ +
T Consensus 101 ~~ii~G~D~~~~p~Ly~~D~~G~~~~~~~~~a~G~g~~~~~~~Le~~~--~~~~s~~ea~~l~~~~l~~~~~rd~~~~~~ 178 (195)
T cd03759 101 EPVVAGLDPDGKPFICTMDLIGCPSIPSDFVVSGTASEQLYGMCESLW--RPDMEPDELFETISQALLSAVDRDALSGWG 178 (195)
T ss_pred EEEEEEEcCCCCEEEEEEcCCCcccccCCEEEEcccHHHHHHHHHhcc--CCCCCHHHHHHHHHHHHHHHHhhCcccCCc
Confidence 9999999976789999999999998887 9999999999999999998 4789999999999999999999998775 8
Q ss_pred EEEEEEEeCCCcEEE
Q 029560 160 IEVGVVSKENPEFRV 174 (191)
Q Consensus 160 iei~iv~~~~~~~~~ 174 (191)
++|++|+++|...+.
T Consensus 179 ~~i~ii~~~g~~~~~ 193 (195)
T cd03759 179 AVVYIITKDKVTTRT 193 (195)
T ss_pred eEEEEEcCCcEEEEe
Confidence 999999998754443
No 16
>cd03761 proteasome_beta_type_5 proteasome beta type-5 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=1.6e-40 Score=256.77 Aligned_cols=163 Identities=17% Similarity=0.231 Sum_probs=153.1
Q ss_pred ccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCccccccee
Q 029560 4 KLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVA 83 (191)
Q Consensus 4 ~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~ 83 (191)
.++.+++.+|||+|++|++|+++|+.+|++.|.+++|.+++.|++.++++++++.+++++++++|.|++ .||+|++
T Consensus 24 ~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~y~~~~~~~i~~~~la~~ls~~l~~~~~----~~~~v~~ 99 (188)
T cd03761 24 SYIASQTVKKVIEINPYLLGTMAGGAADCQYWERVLGRECRLYELRNKERISVAAASKLLSNMLYQYKG----MGLSMGT 99 (188)
T ss_pred cEEEcCCcceEEEccCcEEEEeCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhcCC----CCeEEEE
Confidence 577788999999999999999999999999999999999999999999999999999999999987743 5899999
Q ss_pred EEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEEE
Q 029560 84 MVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIEV 162 (191)
Q Consensus 84 iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~iei 162 (191)
||||||+ .||+||++||+|++.+++++|+|+|++.++++||++| +++||.+||++++++||+.+.+||..++ +++|
T Consensus 100 li~G~D~-~g~~L~~~dp~G~~~~~~~~a~G~g~~~~~~~Le~~~--~~~~s~eea~~l~~~~l~~~~~rd~~sg~~~~v 176 (188)
T cd03761 100 MICGWDK-TGPGLYYVDSDGTRLKGDLFSVGSGSTYAYGVLDSGY--RYDLSVEEAYDLARRAIYHATHRDAYSGGNVNL 176 (188)
T ss_pred EEEEEeC-CCCEEEEEcCCceEEEcCeEEEcccHHHHHHHHHhcC--CCCCCHHHHHHHHHHHHHHHHHhcccCCCCeEE
Confidence 9999996 7899999999999999999999999999999999998 4899999999999999999999998776 8999
Q ss_pred EEEEeCCCcEEEc
Q 029560 163 GVVSKENPEFRVL 175 (191)
Q Consensus 163 ~iv~~~~~~~~~~ 175 (191)
++|+++| ++++
T Consensus 177 ~ii~~~g--~~~~ 187 (188)
T cd03761 177 YHVREDG--WRKI 187 (188)
T ss_pred EEEcCCc--eEEc
Confidence 9999886 5654
No 17
>cd03755 proteasome_alpha_type_7 proteasome_alpha_type_7. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=2.4e-40 Score=259.40 Aligned_cols=159 Identities=31% Similarity=0.522 Sum_probs=150.6
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccce
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVV 82 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~ 82 (191)
++++.+++.+||++|++|++|++||+.+|++.+.+++|.+++.|++.++++|+++.++++|++++|+|+++++.|||+|+
T Consensus 49 ~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~la~~ls~~~~~y~~~~~~rP~~vs 128 (207)
T cd03755 49 AKLQDPRTVRKICMLDDHVCLAFAGLTADARVLINRARLECQSHRLTVEDPVTVEYITRYIAGLQQRYTQSGGVRPFGIS 128 (207)
T ss_pred CcccCCCccCcEEEECCCEEEEEecchhhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcccCcccceeE
Confidence 56777888999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCCeEEE
Q 029560 83 AMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKASEIEV 162 (191)
Q Consensus 83 ~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~~iei 162 (191)
+||+|||++++|+||.+||+|++.+++++|+|+|++.++++||++| +++||.+||++++++||..+.+ ....++||
T Consensus 129 ~ii~G~D~~~~p~Ly~iD~~G~~~~~~~~a~G~gs~~~~~~Le~~~--~~~ms~eeai~l~~~~l~~~~~--~~~~~~e~ 204 (207)
T cd03755 129 TLIVGFDPDGTPRLYQTDPSGTYSAWKANAIGRNSKTVREFLEKNY--KEEMTRDDTIKLAIKALLEVVQ--SGSKNIEL 204 (207)
T ss_pred EEEEEEeCCCCeEEEEECCCcCEEcceEEEECCCCHHHHHHHHhhc--cCCCCHHHHHHHHHHHHHHHhC--CCCCeEEE
Confidence 9999999767999999999999999999999999999999999998 4889999999999999999986 44458999
Q ss_pred EEE
Q 029560 163 GVV 165 (191)
Q Consensus 163 ~iv 165 (191)
+++
T Consensus 205 ~~~ 207 (207)
T cd03755 205 AVM 207 (207)
T ss_pred EEC
Confidence 875
No 18
>cd03749 proteasome_alpha_type_1 proteasome_alpha_type_1. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=5.2e-40 Score=258.21 Aligned_cols=157 Identities=31% Similarity=0.559 Sum_probs=149.0
Q ss_pred CCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccceeEEEEE
Q 029560 9 TSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSI 88 (191)
Q Consensus 9 ~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~iv~G~ 88 (191)
++.+|||+|++|++|++||+.+|++.+.+++|.+++.|+++++++++++.+++.+++.+|.||++.+.|||+|++||+||
T Consensus 53 ~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~~~v~~la~~is~~~~~~t~~~~~rP~~v~~ii~G~ 132 (211)
T cd03749 53 SYQKKIFKVDDHIGIAIAGLTADARVLSRYMRQECLNYRFVYDSPIPVSRLVSKVAEKAQINTQRYGRRPYGVGLLIAGY 132 (211)
T ss_pred CccccEEEeCCCEEEEEEeChHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCCCCceEEEEEEEE
Confidence 46699999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhccc--CCCCeEEEEEEE
Q 029560 89 DEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQED--FKASEIEVGVVS 166 (191)
Q Consensus 89 d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d--~~~~~iei~iv~ 166 (191)
|+ .||+||.+||+|++.+++++|+|+|++.++++||++|+++++||++||+++++++|+.+.++| ....+|||++++
T Consensus 133 D~-~gp~Ly~~Dp~G~~~~~~~~a~G~g~~~a~~~Le~~~~~~~~ms~ee~i~~~~~~l~~~~~~~~~~~~~~iei~ii~ 211 (211)
T cd03749 133 DE-SGPHLFQTCPSGNYFEYKATSIGARSQSARTYLERHFEEFEDCSLEELIKHALRALRETLPGEQELTIKNVSIAIVG 211 (211)
T ss_pred cC-CCCeEEEECCCcCEeeeeEEEECCCcHHHHHHHHHhhccccCCCHHHHHHHHHHHHHHHhccCCCCCCCcEEEEEEC
Confidence 97 689999999999999999999999999999999999975579999999999999999999887 445699999984
No 19
>cd03751 proteasome_alpha_type_3 proteasome_alpha_type_3. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=5.4e-40 Score=258.16 Aligned_cols=161 Identities=33% Similarity=0.468 Sum_probs=151.6
Q ss_pred CCccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc
Q 029560 2 QDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV 81 (191)
Q Consensus 2 ~s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v 81 (191)
.++++.+++++|||+|++|++|++||+.+|++.+.+++|.+++.|++.++++++++.++++|++.+|.|++++++|||+|
T Consensus 51 ~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~y~~~~~~~~~v~~la~~ls~~~~~~t~~~~~rP~~v 130 (212)
T cd03751 51 TSKLYEPGSNKRIFNVDRHIGIAVAGLLADGRHLVSRAREEAENYRDNYGTPIPVKVLADRVAMYMHAYTLYSSVRPFGC 130 (212)
T ss_pred cccccCcchhcceeEecCcEEEEEEEChHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhccCCCcCCceE
Confidence 35777788999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcc-cCCCCeE
Q 029560 82 VAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQE-DFKASEI 160 (191)
Q Consensus 82 ~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~-d~~~~~i 160 (191)
++||+|||+ +||+||.+||+|++.+++++|+|+|+..++++||++| +++||++||+++++++|+.+++. +....++
T Consensus 131 s~li~G~D~-~gp~Ly~~D~~Gs~~~~~~~a~G~g~~~a~~~Lek~~--~~dms~eeai~l~~~~L~~~~~~~~~~~~~i 207 (212)
T cd03751 131 SVLLGGYDS-DGPQLYMIEPSGVSYGYFGCAIGKGKQAAKTELEKLK--FSELTCREAVKEAAKIIYIVHDEIKDKAFEL 207 (212)
T ss_pred EEEEEEEeC-CcCEEEEECCCCCEEeeEEEEECCCCHHHHHHHHHhc--cCCCCHHHHHHHHHHHHHHHhhccCCCCccE
Confidence 999999996 6899999999999999999999999999999999998 48899999999999999999974 3566699
Q ss_pred EEEEE
Q 029560 161 EVGVV 165 (191)
Q Consensus 161 ei~iv 165 (191)
||+++
T Consensus 208 ei~~~ 212 (212)
T cd03751 208 ELSWV 212 (212)
T ss_pred EEEEC
Confidence 99874
No 20
>KOG0178 consensus 20S proteasome, regulatory subunit alpha type PSMA4/PRE9 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.5e-40 Score=249.03 Aligned_cols=187 Identities=29% Similarity=0.498 Sum_probs=172.9
Q ss_pred CCccccC-CCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCccccc
Q 029560 2 QDKLLDH-TSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLG 80 (191)
Q Consensus 2 ~s~l~~~-~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~ 80 (191)
+|||+++ ...+||++|+||++|+++|+++|+..|++.+|..+++|.++||++||++.|++.++++.|.|||+.+.||||
T Consensus 52 t~kll~t~~~~EKiY~l~d~iaC~vaGlt~DAnvL~n~aRi~AQ~yl~~y~e~iP~eqLv~~lcdiKQayTQygG~RPFG 131 (249)
T KOG0178|consen 52 TSKLLDTSIPMEKIYKLNDNIACAVAGLTSDANVLKNYARIIAQRYLFRYGEEIPCEQLVTFLCDIKQAYTQYGGKRPFG 131 (249)
T ss_pred chhhhhccccHHHhhhcCCceEEEEecccccHHHHHHHHHHHHHHHHHHhCCCCcHHHHHHHHHHHHHHHhhccCcCCCc
Confidence 5778776 678999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhccc-CCCCe
Q 029560 81 VVAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQED-FKASE 159 (191)
Q Consensus 81 v~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d-~~~~~ 159 (191)
||+|.+|||...|.+||+.||+|++..|++.++|.+++.+...|..-|+ ...++++||.++|++.|...++.. +.+..
T Consensus 132 VSfLYaGwd~~~gyqLy~SdPSGny~gWka~ciG~N~~Aa~s~Lkqdyk-dd~~~~~eA~~laikvL~kt~d~~~lt~ek 210 (249)
T KOG0178|consen 132 VSFLYAGWDDRYGYQLYQSDPSGNYGGWKATCIGANSGAAQSMLKQDYK-DDENDLEEAKALAIKVLSKTLDSGSLTAEK 210 (249)
T ss_pred eeeeeeceecCcceEEEecCCCCCccccceeeeccchHHHHHHHHhhhc-cccccHHHHHHHHHHHHHhhcccCCCChhh
Confidence 9999999999789999999999999999999999999999999999885 345679999999999999999875 55679
Q ss_pred EEEEEEEeCCC--cEEEcCHHHHHHHHHHhhc
Q 029560 160 IEVGVVSKENP--EFRVLSIEEIDEHLTAISE 189 (191)
Q Consensus 160 iei~iv~~~~~--~~~~~~~~~i~~~~~~~~~ 189 (191)
+|++.++++.. .+++++++||.++|+++.+
T Consensus 211 lEia~~~k~~~k~v~~i~~~~ev~kll~k~~~ 242 (249)
T KOG0178|consen 211 LEIATITKDCNKTVLKILKKDEVLKLLEKYHE 242 (249)
T ss_pred eEEEEEEecCCceEEEecCHHHHHHHHHHhhh
Confidence 99999998753 3789999999999998863
No 21
>cd03752 proteasome_alpha_type_4 proteasome_alpha_type_4. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=8.5e-40 Score=257.36 Aligned_cols=161 Identities=29% Similarity=0.486 Sum_probs=151.1
Q ss_pred CccccC-CCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc
Q 029560 3 DKLLDH-TSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV 81 (191)
Q Consensus 3 s~l~~~-~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v 81 (191)
++++.+ ++.+||++|++|++|++||+.+|++.+.+++|.+++.|+++++++|+++.+++.|+..+|.|||+++.|||+|
T Consensus 51 ~~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~v~~la~~ls~~~~~~t~~~~~RP~~v 130 (213)
T cd03752 51 SKLLDQSFSSEKIYKIDDHIACAVAGITSDANILINYARLIAQRYLYSYQEPIPVEQLVQRLCDIKQGYTQYGGLRPFGV 130 (213)
T ss_pred CcccCCCcCcceEEEecCCEEEEEecChHhHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHhcCCCccccee
Confidence 445554 4999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCC-CeE
Q 029560 82 VAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKA-SEI 160 (191)
Q Consensus 82 ~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~-~~i 160 (191)
++||+|||++.||+||.+||+|++.+++++|+|+|+..++++||+.| +++||++||++++++||..+.+||... .++
T Consensus 131 ~~li~G~D~~~g~~ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~y--~~~ms~eea~~l~~~al~~~~~r~~~~~~~~ 208 (213)
T cd03752 131 SFLYAGWDKHYGFQLYQSDPSGNYSGWKATAIGNNNQAAQSLLKQDY--KDDMTLEEALALAVKVLSKTMDSTKLTSEKL 208 (213)
T ss_pred EEEEEEEeCCCCCEEEEECCCCCeeeeeEEEECCCcHHHHHHHHHhc--cCCCCHHHHHHHHHHHHHHHHhccCCCCCcE
Confidence 99999999757899999999999999999999999999999999998 489999999999999999999988655 489
Q ss_pred EEEEE
Q 029560 161 EVGVV 165 (191)
Q Consensus 161 ei~iv 165 (191)
+|+++
T Consensus 209 ei~~~ 213 (213)
T cd03752 209 EFATL 213 (213)
T ss_pred EEEEC
Confidence 99875
No 22
>KOG0863 consensus 20S proteasome, regulatory subunit alpha type PSMA1/PRE5 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.4e-39 Score=248.70 Aligned_cols=177 Identities=31% Similarity=0.516 Sum_probs=168.1
Q ss_pred CCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccceeEEEEE
Q 029560 9 TSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSI 88 (191)
Q Consensus 9 ~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~iv~G~ 88 (191)
..++|||+||+|++++++|+++|++.|.+++|.+|..+++.|++++|+..|...|.+.+|..||+.+.|||||.++++||
T Consensus 58 s~QkKi~~iD~h~g~siAGLt~Darvl~~Ylr~ec~~~~~~~~r~~pv~rl~~~l~~k~q~~Tq~ygrRpYGVGllv~gY 137 (264)
T KOG0863|consen 58 SHQKKIFKIDDHIGISIAGLTADARVLSRYLRQECLNSRFIYGRPLPVLRLVEDLGDKAQENTQRYGRRPYGVGLLVAGY 137 (264)
T ss_pred HhhheeEecccccceEEeccCcchHHHHHHHHHHHhhhhhccCCcccHHHHHHHHHHHHhhhhhhhCCccccceEEEEee
Confidence 36799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcc--cCCCCeEEEEEEE
Q 029560 89 DEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQE--DFKASEIEVGVVS 166 (191)
Q Consensus 89 d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~--d~~~~~iei~iv~ 166 (191)
|+ .||+||+++|+|++.++++.+||+.||.++++||++...+++++.||.+..+++||+.+... ++...+++|+|+.
T Consensus 138 De-~G~hl~e~~Psg~v~e~~g~sIGsRSQsARTyLEr~~e~f~~~~~eELI~~gi~Alr~tlp~de~lt~~nvsI~Ivg 216 (264)
T KOG0863|consen 138 DE-SGPHLYEFCPSGNVFECKGMSIGSRSQSARTYLERNLEEFEDSSPEELIKHGIMALRETLPEDEDLTGENVSIAIVG 216 (264)
T ss_pred cC-CCceeEEEcCCccEEEEeeeecccchhhHHHHHHHHHHHHhcCCHHHHHHHHHHHHHhhcCcccccccceeEEEEEe
Confidence 98 79999999999999999999999999999999999988789999999999999999999874 4556699999999
Q ss_pred eCCCcEEEcCHHHHHHHHHHh
Q 029560 167 KENPEFRVLSIEEIDEHLTAI 187 (191)
Q Consensus 167 ~~~~~~~~~~~~~i~~~~~~~ 187 (191)
++.+ |..++.+++.+++...
T Consensus 217 kd~p-f~~~d~~~~~k~~~~~ 236 (264)
T KOG0863|consen 217 KDEP-FTILDQKDVAKYVDLF 236 (264)
T ss_pred CCCc-eEeecHHHHHHHHHHh
Confidence 9987 9999999999887544
No 23
>TIGR03691 20S_bact_alpha proteasome, alpha subunit, bacterial type. Members of this family are the alpha subunit of the 20S proteasome as found in Actinobacteria such as Mycobacterium, Rhodococcus, and Streptomyces. In most Actinobacteria (an exception is Propionibacterium acnes), the proteasome is accompanied by a system of tagging proteins for degradation with Pup.
Probab=100.00 E-value=3.5e-39 Score=255.59 Aligned_cols=173 Identities=16% Similarity=0.220 Sum_probs=155.1
Q ss_pred CCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhC-CCCCHHHHHHHHHHHHHHhhhhcCcccccceeEEEE
Q 029560 9 TSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYG-YEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLS 87 (191)
Q Consensus 9 ~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~-~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~iv~G 87 (191)
++++|||+|+||++|+++|+.+|++.++++++.+++.|++.++ .+++++.+++++++.+..++ +++.|||+|++||+|
T Consensus 48 ~~~~KI~~I~d~ig~~~sG~~~D~~~lv~~~r~~a~~~~~~~~~~~~~v~~la~~~tq~~~~~~-~~~~RP~gvs~Li~G 126 (228)
T TIGR03691 48 RSLHKISELYDRIGFAAVGKYNEFENLRRAGIRYADMRGYSYDRRDVTGRGLANAYAQTLGTIF-TEQQKPYEVEICVAE 126 (228)
T ss_pred CCcCcEEEecCCEEEEEcCCHHHHHHHHHHHHHHHHHHhhhcCCCCccHHHHHHHHHhhccccc-ccccCcceEEEEEEE
Confidence 5789999999999999999999999999999999999999998 68999999988777776555 567899999999999
Q ss_pred EcC-CCCCeEEEECCCcceecee-eeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhc--cc-CCCCeEEE
Q 029560 88 IDE-ECGPRLFKCDPAGHFFGHK-ATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQ--ED-FKASEIEV 162 (191)
Q Consensus 88 ~d~-~~~p~Ly~~d~~G~~~~~~-~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~--~d-~~~~~iei 162 (191)
||+ +.||+||.+||+|++.+++ ++|+|+|++.+.++||++| +++||++||++++++||+.+.+ |+ +...++||
T Consensus 127 ~d~~~~gp~Ly~vDpsG~~~~~~~~~aiG~gs~~a~~~Lek~y--~~~ms~eeai~la~~aL~~~~~~~r~~~~~~~iEv 204 (228)
T TIGR03691 127 VGETPDQDQLYRITFDGSIVDERGFVVMGGTTEPIATALKESY--RDGLSLADALGLAVQALRAGGNGEKRELDAASLEV 204 (228)
T ss_pred EcCCCCCCEEEEECCCCCceeccceEEECCChHHHHHHHHHhc--CCCCCHHHHHHHHHHHHHHHhccccccCCccceEE
Confidence 985 4789999999999999976 8999999999999999998 4799999999999999999964 43 55569999
Q ss_pred EEEEeCC--CcEEEcCHHHHHHHH
Q 029560 163 GVVSKEN--PEFRVLSIEEIDEHL 184 (191)
Q Consensus 163 ~iv~~~~--~~~~~~~~~~i~~~~ 184 (191)
+++++++ +.|+.++++||+++|
T Consensus 205 ~ii~k~~~~~~f~~l~~~ei~~~l 228 (228)
T TIGR03691 205 AVLDRSRPRRAFRRITGEALERLL 228 (228)
T ss_pred EEEeCCCCccceEECCHHHHHhhC
Confidence 9999753 459999999999874
No 24
>cd03756 proteasome_alpha_archeal proteasome_alpha_archeal. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=5.1e-39 Score=252.58 Aligned_cols=161 Identities=36% Similarity=0.625 Sum_probs=153.5
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccce
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVV 82 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~ 82 (191)
+.++.+++.+||++|++|++|++||+.+|++.+.+.++.+++.|+++++++++++.+++.|++.+|.|+++++.|||+|+
T Consensus 50 ~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~ 129 (211)
T cd03756 50 SKLVEPESIEKIYKIDDHVGAATSGLVADARVLIDRARVEAQIHRLTYGEPIDVEVLVKKICDLKQQYTQHGGVRPFGVA 129 (211)
T ss_pred CcccCCCccceEEEEcCCEEEEEecCHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcCCCCeechhEE
Confidence 46777889999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCCeEEE
Q 029560 83 AMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKASEIEV 162 (191)
Q Consensus 83 ~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~~iei 162 (191)
+||+|||+ .+|+||.+||+|++.+++++|+|+|++.++++||+.| +++||++||++++++||..+.+++....+++|
T Consensus 130 ~ll~G~D~-~~~~ly~vd~~G~~~~~~~~a~G~g~~~~~~~Le~~~--~~~m~~~ea~~l~~~~l~~~~~~~~~~~~~~v 206 (211)
T cd03756 130 LLIAGVDD-GGPRLFETDPSGAYNEYKATAIGSGRQAVTEFLEKEY--KEDMSLEEAIELALKALYAALEENETPENVEI 206 (211)
T ss_pred EEEEEEeC-CCCEEEEECCCCCeeeeEEEEECCCCHHHHHHHHhhc--cCCCCHHHHHHHHHHHHHHHhcccCCCCcEEE
Confidence 99999997 7899999999999999999999999999999999998 48999999999999999999988885559999
Q ss_pred EEEE
Q 029560 163 GVVS 166 (191)
Q Consensus 163 ~iv~ 166 (191)
++|+
T Consensus 207 ~ii~ 210 (211)
T cd03756 207 AYVT 210 (211)
T ss_pred EEEe
Confidence 9987
No 25
>cd03757 proteasome_beta_type_1 proteasome beta type-1 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=3.4e-39 Score=253.73 Aligned_cols=165 Identities=18% Similarity=0.327 Sum_probs=151.3
Q ss_pred Ccc-ccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc
Q 029560 3 DKL-LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV 81 (191)
Q Consensus 3 s~l-~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v 81 (191)
+++ +.+++++|||+|++|++|++||..+|++.+.+++|.+++.|+++++++++++.++++|++++ |++ +.|||+|
T Consensus 30 ~~~~~~~~~~~KI~~I~~~i~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~i~~~~la~~ls~~l--y~~--R~~P~~~ 105 (212)
T cd03757 30 EGYSILSRDSPKIFKLTDKCVLGSSGFQADILALTKRLKARIKMYKYSHNKEMSTEAIAQLLSTIL--YSR--RFFPYYV 105 (212)
T ss_pred cCCEeEeCCCCeEEEcCCCEEEEccchHHHHHHHHHHHHHHHHHHhHHhCCCCCHHHHHHHHHHHH--Hhh--cCCCeEE
Confidence 344 44689999999999999999999999999999999999999999999999999999999998 543 3579999
Q ss_pred eeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhc-------CCCCCCHHHHHHHHHHHHHhhhccc
Q 029560 82 VAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMK-------NDPAFTFQETVQTAISTLQSVLQED 154 (191)
Q Consensus 82 ~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~-------~~~~~s~eea~~l~~~~l~~~~~~d 154 (191)
++||||||++++|+||.+||+|++.+++++|+|+|+..++++||+.|+ +.++||++||++++++||+.+.+||
T Consensus 106 ~~iiaG~D~~~~p~Ly~~D~~G~~~~~~~~a~G~g~~~~~~~Le~~~~~~~~~~~~~~~ms~eea~~l~~~~l~~~~~rd 185 (212)
T cd03757 106 FNILAGIDEEGKGVVYSYDPVGSYERETYSAGGSASSLIQPLLDNQVGRKNQNNVERTPLSLEEAVSLVKDAFTSAAERD 185 (212)
T ss_pred EEEEEEEcCCCCEEEEEEcCccCeeecCEEEEeecHHHHHHHHHHHHHhhccCcCCCCCCCHHHHHHHHHHHHHHHHHhC
Confidence 999999997678999999999999999999999999999999999984 2489999999999999999999999
Q ss_pred CCCC-eEEEEEEEeCCCc
Q 029560 155 FKAS-EIEVGVVSKENPE 171 (191)
Q Consensus 155 ~~~~-~iei~iv~~~~~~ 171 (191)
+.++ +++|++|+++|..
T Consensus 186 ~~sg~~i~i~iit~~g~~ 203 (212)
T cd03757 186 IYTGDSLEIVIITKDGIE 203 (212)
T ss_pred cccCCCEEEEEEcCCCEE
Confidence 8776 8999999999753
No 26
>TIGR03634 arc_protsome_B proteasome endopeptidase complex, archaeal, beta subunit. This protein family describes the archaeal proteasome beta subunit, homologous to both the alpha subunit and to the alpha and beta subunits of eukaryotic proteasome subunits. This family is universal in the first 29 complete archaeal genomes but occasionally is duplicated.
Probab=100.00 E-value=5.3e-39 Score=247.63 Aligned_cols=160 Identities=25% Similarity=0.445 Sum_probs=151.5
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccce
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVV 82 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~ 82 (191)
++++.+++++|||+|++|++|++||..+|++.+.++++.+++.|+..++++++++.++++|++.+|.+ ++|||+|+
T Consensus 24 ~~~i~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~----~~rP~~v~ 99 (185)
T TIGR03634 24 GNFVASKNAKKVFQIDDYIAMTIAGSVGDAQSLVRILKAEAKLYELRRGRPMSVKALATLLSNILNSN----RFFPFIVQ 99 (185)
T ss_pred CCEEecCCcccEEEcCCCEEEEcCchHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhc----CCCCeEEE
Confidence 46778889999999999999999999999999999999999999999999999999999999999754 68999999
Q ss_pred eEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEE
Q 029560 83 AMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIE 161 (191)
Q Consensus 83 ~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~ie 161 (191)
+||||||+ .||+||.+||+|++.+++++|+|+|+..++++||++|+ ++||++||++++++||+.+.+||..++ +++
T Consensus 100 ~ivaG~d~-~g~~Ly~~d~~G~~~~~~~~a~G~g~~~~~~~Le~~~~--~~~s~~ea~~l~~~~l~~~~~r~~~~~~~~~ 176 (185)
T TIGR03634 100 LLVGGVDE-EGPHLYSLDPAGGIIEDDYTATGSGSPVAYGVLEDEYR--EDMSVEEAKKLAVRAIKSAIERDVASGNGID 176 (185)
T ss_pred EEEEEEeC-CCCEEEEECCCCCeEECCEEEEcCcHHHHHHHHHhcCC--CCCCHHHHHHHHHHHHHHHHHhcccCCCCEE
Confidence 99999997 68999999999999999999999999999999999984 899999999999999999999998775 899
Q ss_pred EEEEEeCC
Q 029560 162 VGVVSKEN 169 (191)
Q Consensus 162 i~iv~~~~ 169 (191)
|++++++|
T Consensus 177 v~ii~~~g 184 (185)
T TIGR03634 177 VAVITKDG 184 (185)
T ss_pred EEEEcCCC
Confidence 99999886
No 27
>cd03765 proteasome_beta_bacterial Bacterial proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=5e-39 Score=255.23 Aligned_cols=166 Identities=13% Similarity=0.209 Sum_probs=150.6
Q ss_pred CCccccCCCCcceEEec----CcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCC-CCCHHHHHHHHHHHHH-HhhhhcC
Q 029560 2 QDKLLDHTSVTHLFPIT----KYLGLLATGMTADARTLVQQARYEAAEFRFKYGY-EMPVDVLAKWIADKSQ-VYTQHAY 75 (191)
Q Consensus 2 ~s~l~~~~~~~Ki~~i~----~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~-~~~~~~l~~~l~~~~~-~~t~~~~ 75 (191)
+++|+..++.+||++|+ +|++|++||+.+|++.+++++|.+++.|++++|+ +++++.++++++++++ .++|+.+
T Consensus 21 ~~~l~~~~~~~KI~~I~~~~d~~I~~~~sG~~aD~~~l~~~~r~~~~~~~~~~g~~~~~v~~la~~i~~~l~~~~~q~~~ 100 (236)
T cd03765 21 NAGVDNISTYRKMFVFSVPGERVIVLLTAGNLATTQAVISLLQRDLEDPEETNLLNAPTMFDAARYVGETLREVQEQDRE 100 (236)
T ss_pred cCCCccccccceEEEecCCCCCEEEEEcCCcHHHHHHHHHHHHHHHHhhHHhhCCCCCCHHHHHHHHHHHHHHHHhhccc
Confidence 45677777899999998 9999999999999999999999999999999999 8999999999999854 4556554
Q ss_pred -----cccccceeEEEEEcCCCCCeEEEECCCcceecee----eeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 029560 76 -----MRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHK----ATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAIST 146 (191)
Q Consensus 76 -----~rP~~v~~iv~G~d~~~~p~Ly~~d~~G~~~~~~----~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~ 146 (191)
.|||+|++||||||++.||+||.+||+|++.+++ ++|+|+ ++.++++||++|+ ++||+|||++++++|
T Consensus 101 ~~~~~~rp~gvslIigG~D~~~Gp~LY~idpsG~~~e~~a~~~~~AiG~-~~~a~~~Lek~yk--~~ms~eeai~la~~a 177 (236)
T cd03765 101 ALKKAGIDFSASFILGGQIKGEEPRLFLIYPQGNFIEATPDTPFLQIGE-TKYGKPILDRVIT--PDTSLEDAAKCALVS 177 (236)
T ss_pred ccccCCcceEEEEEEEeEECCCCCEEEEECCCCCEEeecCCCceeeeCC-chhhHHHHHHhcC--CCCCHHHHHHHHHHH
Confidence 4899999999999965789999999999999995 479996 7999999999984 799999999999999
Q ss_pred HHhhhcccCCCC-eEEEEEEEeCCC
Q 029560 147 LQSVLQEDFKAS-EIEVGVVSKENP 170 (191)
Q Consensus 147 l~~~~~~d~~~~-~iei~iv~~~~~ 170 (191)
|..+++||..++ +|+|++|+++|.
T Consensus 178 l~~a~~rd~~sg~~iev~vI~k~G~ 202 (236)
T cd03765 178 MDSTMRSNLSVGPPLDLLVYERDSL 202 (236)
T ss_pred HHHHHHhcCCCCCCEEEEEEECCCe
Confidence 999999998776 899999999974
No 28
>cd03764 proteasome_beta_archeal Archeal proteasome, beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme for non-lysosomal protein degradation in both the cytosol and the nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are both members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=1.1e-38 Score=246.43 Aligned_cols=163 Identities=25% Similarity=0.421 Sum_probs=153.7
Q ss_pred ccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCccccccee
Q 029560 4 KLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVA 83 (191)
Q Consensus 4 ~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~ 83 (191)
.++.+++.+||++|++|++++++|+.+|++.+.++++.+++.|++.++++++++.+++++++.+|.+ ++|||+|++
T Consensus 24 ~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~i~~~~~~~----~~~P~~~~~ 99 (188)
T cd03764 24 NFIASKNVKKIFQIDDKIAMTIAGSVGDAQSLVRILKAEARLYELRRGRPMSIKALATLLSNILNSS----KYFPYIVQL 99 (188)
T ss_pred CEEecCCcccEEEccCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHhc----CCCCcEEEE
Confidence 6777899999999999999999999999999999999999999999999999999999999999654 579999999
Q ss_pred EEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEEE
Q 029560 84 MVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIEV 162 (191)
Q Consensus 84 iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~iei 162 (191)
||||||+ ++|+||.+||+|++.+++++|+|+|++.+.++|++.| +++||++||++++++||+.+.+||..++ +++|
T Consensus 100 lvaG~d~-~~~~ly~~D~~G~~~~~~~~a~G~g~~~~~~~L~~~~--~~~~~~~ea~~l~~~~l~~~~~rd~~~~~~i~i 176 (188)
T cd03764 100 LIGGVDE-EGPHLYSLDPLGSIIEDKYTATGSGSPYAYGVLEDEY--KEDMTVEEAKKLAIRAIKSAIERDSASGDGIDV 176 (188)
T ss_pred EEEEEeC-CCCEEEEECCCCCEEEcCEEEEcCcHHHHHHHHHhcC--CCCCCHHHHHHHHHHHHHHHHhhcCCCCCcEEE
Confidence 9999997 7899999999999999999999999999999999998 4889999999999999999999998775 8999
Q ss_pred EEEEeCCCcEEEc
Q 029560 163 GVVSKENPEFRVL 175 (191)
Q Consensus 163 ~iv~~~~~~~~~~ 175 (191)
++++++| ++++
T Consensus 177 ~iv~~~g--~~~~ 187 (188)
T cd03764 177 VVITKDG--YKEL 187 (188)
T ss_pred EEECCCC--eEeC
Confidence 9999886 7776
No 29
>cd03763 proteasome_beta_type_7 proteasome beta type-7 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=2.4e-38 Score=244.82 Aligned_cols=163 Identities=16% Similarity=0.253 Sum_probs=151.3
Q ss_pred ccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCccccccee
Q 029560 4 KLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVA 83 (191)
Q Consensus 4 ~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~ 83 (191)
.++.+++++|||+|++|++|+++|..+|++.+.++++.+++.|+++++++++++.++++|++.++.|. .||+|++
T Consensus 24 ~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~~a~~l~~~l~~~~-----~p~~v~~ 98 (189)
T cd03763 24 PIVADKNCEKIHYIAPNIYCCGAGTAADTEAVTNMISSNLELHRLNTGRKPRVVTALTMLKQHLFRYQ-----GHIGAAL 98 (189)
T ss_pred ceEEcCCccceEEecCCEEEEcCccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHcC-----CccceeE
Confidence 46667899999999999999999999999999999999999999999999999999999999997652 3999999
Q ss_pred EEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEEE
Q 029560 84 MVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIEV 162 (191)
Q Consensus 84 iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~iei 162 (191)
||||||+ .||+||.+||+|++.+++++|+|+|+..++++|+++| +++||++||++++++||+.+.+||+.++ +++|
T Consensus 99 ivaG~d~-~g~~ly~~d~~G~~~~~~~~a~G~~~~~~~~~L~~~~--~~~ls~~ea~~l~~~~l~~~~~rd~~~~~~~~v 175 (189)
T cd03763 99 VLGGVDY-TGPHLYSIYPHGSTDKLPFVTMGSGSLAAMSVLEDRY--KPDMTEEEAKKLVCEAIEAGIFNDLGSGSNVDL 175 (189)
T ss_pred EEEeEcC-CCCEEEEECCCCCEEecCEEEEcCCHHHHHHHHHhhc--CCCCCHHHHHHHHHHHHHHHHHhcCcCCCceEE
Confidence 9999997 6899999999999999999999999999999999998 4899999999999999999999998765 8999
Q ss_pred EEEEeCCCcEEEcC
Q 029560 163 GVVSKENPEFRVLS 176 (191)
Q Consensus 163 ~iv~~~~~~~~~~~ 176 (191)
++|+++| +++..
T Consensus 176 ~ii~~~g--~~~~~ 187 (189)
T cd03763 176 CVITKDG--VEYLR 187 (189)
T ss_pred EEEcCCc--EEEec
Confidence 9999987 56544
No 30
>cd03762 proteasome_beta_type_6 proteasome beta type-6 subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=3.9e-38 Score=243.43 Aligned_cols=159 Identities=15% Similarity=0.236 Sum_probs=150.0
Q ss_pred ccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCccccccee
Q 029560 4 KLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVA 83 (191)
Q Consensus 4 ~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~ 83 (191)
.++.+++++|||+|++|++|++||+.+|++.+.++++.+++.|+++++++++++.++++++++++.+ .|||+|++
T Consensus 24 ~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~~a~~l~~~~~~~-----~~~~~~~~ 98 (188)
T cd03762 24 SYVANRVTDKLTQLHDRIYCCRSGSAADTQAIADYVRYYLDMHSIELGEPPLVKTAASLFKNLCYNY-----KEMLSAGI 98 (188)
T ss_pred ceEEcCCcccEEEccCCEEEEecccHHHHHHHHHHHHHHHHHhHHhhCCCCCHHHHHHHHHHHHHhc-----cccceeeE
Confidence 5677889999999999999999999999999999999999999999999999999999999998655 37999999
Q ss_pred EEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEEE
Q 029560 84 MVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIEV 162 (191)
Q Consensus 84 iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~iei 162 (191)
||||||++.||+||.+||.|++.+++++++|+|+..++++||+.| +++||++||++++++||+.+.+||+.++ +++|
T Consensus 99 ii~G~d~~~gp~ly~~d~~G~~~~~~~~~~G~g~~~~~~~Le~~~--~~~~s~~ea~~l~~~al~~~~~rd~~~~~~~~i 176 (188)
T cd03762 99 IVAGWDEQNGGQVYSIPLGGMLIRQPFAIGGSGSTYIYGYVDANY--KPGMTLEECIKFVKNALSLAMSRDGSSGGVIRL 176 (188)
T ss_pred EEEEEcCCCCcEEEEECCCCCEEecCEEEEcccHHHHHHHHHhcC--CCCCCHHHHHHHHHHHHHHHHHhccccCCCEEE
Confidence 999999757899999999999999999999999999999999998 4889999999999999999999998776 8999
Q ss_pred EEEEeCC
Q 029560 163 GVVSKEN 169 (191)
Q Consensus 163 ~iv~~~~ 169 (191)
++|+++|
T Consensus 177 ~~i~~~g 183 (188)
T cd03762 177 VIITKDG 183 (188)
T ss_pred EEECCCC
Confidence 9999887
No 31
>cd01911 proteasome_alpha proteasome alpha subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 different alpha and 10 different beta proteasome subunit genes while archaea have one of each.
Probab=100.00 E-value=4.9e-38 Score=246.65 Aligned_cols=161 Identities=48% Similarity=0.766 Sum_probs=151.8
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccce
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVV 82 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~ 82 (191)
+.++.+++.+||++|+++++|++||..+|++.+.+.++.++..|+++++++++++.+++++++.+|.|+++++.|||+|+
T Consensus 49 ~~~~~~~~~~KI~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~g~~~~~~~la~~ls~~~~~~~~~~~~rP~~v~ 128 (209)
T cd01911 49 SKLLDPSSVEKIFKIDDHIGCAVAGLTADARVLVNRARVEAQNYRYTYGEPIPVEVLVKRIADLAQVYTQYGGVRPFGVS 128 (209)
T ss_pred ccccCCcccceEEEecCCeEEEeccCcHhHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhcccCccChhhe
Confidence 34566789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCCeEEE
Q 029560 83 AMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKASEIEV 162 (191)
Q Consensus 83 ~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~~iei 162 (191)
+||+|||++++|+||.+||.|++.+++++|+|+|+..++++|++.| .++||.+||++++++||..+.+||+...+++|
T Consensus 129 ~iv~G~d~~~~~~Ly~iD~~G~~~~~~~~a~G~g~~~~~~~L~~~~--~~~ms~~ea~~l~~~~l~~~~~~d~~~~~~~i 206 (209)
T cd01911 129 LLIAGYDEEGGPQLYQTDPSGTYFGYKATAIGKGSQEAKTFLEKRY--KKDLTLEEAIKLALKALKEVLEEDKKAKNIEI 206 (209)
T ss_pred EEEEEEcCCCCcEEEEECCCCCeeeeeEEEeCCCcHHHHHHHHHhc--ccCCCHHHHHHHHHHHHHHHHhccCCCCcEEE
Confidence 9999999866999999999999999999999999999999999999 48899999999999999999999993348999
Q ss_pred EEE
Q 029560 163 GVV 165 (191)
Q Consensus 163 ~iv 165 (191)
+++
T Consensus 207 ~i~ 209 (209)
T cd01911 207 AVV 209 (209)
T ss_pred EEC
Confidence 874
No 32
>cd03753 proteasome_alpha_type_5 proteasome_alpha_type_5. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=5.5e-38 Score=247.08 Aligned_cols=160 Identities=32% Similarity=0.563 Sum_probs=149.8
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhh-----cCcc
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQH-----AYMR 77 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~-----~~~r 77 (191)
++++..++++||++|++|++|++||+.+|++.+.+.+|.+++.|+++++++++++.++++|++.+|.|++. .+.|
T Consensus 49 ~~~~~~~~~~KI~~I~~~i~~~~sG~~~D~~~l~~~~r~~~~~~~~~~~~~i~~~~~~~~ls~~~~~~~~~~~~~~~~~r 128 (213)
T cd03753 49 SPLMEPSSVEKIMEIDDHIGCAMSGLIADARTLIDHARVEAQNHRFTYNEPMTVESVTQAVSDLALQFGEGDDGKKAMSR 128 (213)
T ss_pred CcCcCCCccceEEEEcCCEEEEEecCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHHhCcccccccccc
Confidence 46777788999999999999999999999999999999999999999999999999999999999999874 3469
Q ss_pred cccceeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCC
Q 029560 78 PLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKA 157 (191)
Q Consensus 78 P~~v~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~ 157 (191)
||+|++||+|||+ +||+||.+||+|++.+++++|+|++++.++++|+++|+ ++||++||++++++||+.+.+++...
T Consensus 129 P~~v~~ii~G~D~-~gp~Ly~vd~~G~~~~~~~~a~G~~~~~~~~~L~~~~~--~~ls~eeai~l~~~~l~~~~~~~~~~ 205 (213)
T cd03753 129 PFGVALLIAGVDE-NGPQLFHTDPSGTFTRCDAKAIGSGSEGAQSSLQEKYH--KDMTLEEAEKLALSILKQVMEEKLNS 205 (213)
T ss_pred cceEEEEEEEEcC-CCCEEEEECCCCCeecccEEEECCCcHHHHHHHHhhcc--CCCCHHHHHHHHHHHHHHHhcccCCC
Confidence 9999999999997 78999999999999999999999999999999999984 78999999999999999998887777
Q ss_pred CeEEEEEE
Q 029560 158 SEIEVGVV 165 (191)
Q Consensus 158 ~~iei~iv 165 (191)
.+++|+++
T Consensus 206 ~~~ei~~~ 213 (213)
T cd03753 206 TNVELATV 213 (213)
T ss_pred CcEEEEEC
Confidence 79999875
No 33
>PF00227 Proteasome: Proteasome subunit; InterPro: IPR001353 ATP-dependent protease complexes are present in all three kingdoms of life, where they rid the cell of misfolded or damaged proteins and control the level of certain regulatory proteins. They include the proteasome in Eukaryotes, Archaea, and Actinomycetales and the HslVU (ClpQY, clpXP) complex in other eubacteria. Genes homologous to eubacterial HslV (ClpQ) and HslU (ClpY, clpX) have also been demonstrated in to be present in the genome of trypanosomatid protozoa []. The proteasome (or macropain) (3.4.25.1 from EC) [, , , , ] is a eukaryotic and archaeal multicatalytic proteinase complex that seems to be involved in an ATP/ubiquitin-dependent nonlysosomal proteolytic pathway. In eukaryotes the proteasome is composed of about 28 distinct subunits which form a highly ordered ring-shaped structure (20S ring) of about 700 kDa. Most proteasome subunits can be classified, on the basis on sequence similarities into two groups, alpha (A) and beta (B). The prokaryotic ATP-dependent proteasome is coded for by the heat-shock locus VU (HslVU). It consists of HslV, the protease (MEROPS peptidase subfamily T1B), and HslU, IPR004491 from INTERPRO, the ATPase and chaperone belonging to the AAA/Clp/Hsp100 family. The crystal structure of Thermotoga maritima HslV has been determined to 2.1-A resolution. The structure of the dodecameric enzyme is well conserved compared to those from Escherichia coli and Haemophilus influenzae [, ]. This entry contains threonine peptidases and non-peptidase homologs belong to MEROPS peptidase family T1 (proteasome family, clan PB(T)). The family consists of the protease components of the archaeal and bacterial proteasomes and the alpha and beta subunits of the eukaryotic proteasome. ; GO: 0004298 threonine-type endopeptidase activity, 0051603 proteolysis involved in cellular protein catabolic process, 0005839 proteasome core complex; PDB: 3KRD_1 3H6F_M 2FHH_F 3HF9_F 2FHG_D 3HFA_B 3H6I_K 3MI0_A 3MFE_1 3MKA_F ....
Probab=100.00 E-value=3.7e-37 Score=237.76 Aligned_cols=161 Identities=33% Similarity=0.538 Sum_probs=152.0
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccce
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVV 82 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~ 82 (191)
+.++.+++++|||+|++|+++++||..+|++.+.++++.++..|++.++.+++++.+++.+++.++.+++++++|||+++
T Consensus 28 ~~~~~~~~~~ki~~i~~~i~~~~sG~~~D~~~l~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~p~~~~ 107 (190)
T PF00227_consen 28 SKLRSPNTVDKIFKINDNIIIGFSGLTADFQYLIRRLREEAQEYRFSYGRPISPEYLAKAIASLIQNYTYRSGRRPYGVS 107 (190)
T ss_dssp TEEEESSTSSSEEEEETTEEEEEEESHHHHHHHHHHHHHHHHHHHHHHSSGTCHHHHHHHHHHHHHHHHHHTTTSTTSEE
T ss_pred cccccccccceeeeccCcceeeccccccchHHHHhhhcccchhhhhccCccccchhhhhhhHHHHhhhcccccccCcccc
Confidence 44556666899999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred eEEEEEcCCCCCeEEEECCCcceece-eeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eE
Q 029560 83 AMVLSIDEECGPRLFKCDPAGHFFGH-KATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EI 160 (191)
Q Consensus 83 ~iv~G~d~~~~p~Ly~~d~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~i 160 (191)
+|+||||++++|+||.+||+|++.++ +++|+|+|++.++++|++.| .++||++||++++++||+.+.++|..++ ++
T Consensus 108 ~li~G~d~~~~~~l~~vd~~G~~~~~~~~~aiG~g~~~~~~~l~~~~--~~~~~~~ea~~~~~~~l~~~~~~d~~~~~~~ 185 (190)
T PF00227_consen 108 LLIAGYDEDGGPQLYSVDPSGSYIECKRFAAIGSGSQFAQPILEKLY--KPDLSLEEAIELALKALKEAIDRDILSGDNI 185 (190)
T ss_dssp EEEEEEETTTEEEEEEEETTSEEEEBSSEEEESTTHHHHHHHHHHHH--TTTSSHHHHHHHHHHHHHHHHHHBTTSTSEE
T ss_pred ceeeeeccccccceeeeccccccccccccccchhcchhhhHHHHhhc--cCCCCHHHHHHHHHHHHHHHHhhCCccCCeE
Confidence 99999998667999999999999999 69999999999999999999 5899999999999999999999997665 89
Q ss_pred EEEEE
Q 029560 161 EVGVV 165 (191)
Q Consensus 161 ei~iv 165 (191)
+|+||
T Consensus 186 ~v~vi 190 (190)
T PF00227_consen 186 EVAVI 190 (190)
T ss_dssp EEEEE
T ss_pred EEEEC
Confidence 99986
No 34
>cd01912 proteasome_beta proteasome beta subunit. The 20S proteasome, multisubunit proteolytic complex, is the central enzyme of nonlysosomal protein degradation in both the cytosol and nucleus. It is composed of 28 subunits arranged as four homoheptameric rings that stack on top of one another forming an elongated alpha-beta-beta-alpha cylinder with a central cavity. The proteasome alpha and beta subunits are members of the N-terminal nucleophile (Ntn)-hydrolase superfamily. Their N-terminal threonine residues are exposed as a nucleophile in peptide bond hydrolysis. Mammals have 7 alpha and 7 beta proteasome subunits while archaea have one of each.
Probab=100.00 E-value=4.7e-37 Score=237.36 Aligned_cols=160 Identities=22% Similarity=0.382 Sum_probs=149.7
Q ss_pred cccc-CCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccce
Q 029560 4 KLLD-HTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVV 82 (191)
Q Consensus 4 ~l~~-~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~ 82 (191)
.++. +++++|||+|+++++|++||+.+|++.+.++++.++..|++.++++++++.+++++++.++.+++ |||+++
T Consensus 23 ~~~~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~----~P~~~~ 98 (189)
T cd01912 23 GSLVASRNFDKIFKISDNILLGTAGSAADTQALTRLLKRNLRLYELRNGRELSVKAAANLLSNILYSYRG----FPYYVS 98 (189)
T ss_pred CcEEEcCCcCcEEEccCCEEEEccccHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHhcCC----CCeEEE
Confidence 3444 78999999999999999999999999999999999999999999999999999999999976543 899999
Q ss_pred eEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEE
Q 029560 83 AMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIE 161 (191)
Q Consensus 83 ~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~ie 161 (191)
+||||||++++|+||.+||+|++.+++++|+|++++.+.++||+.| +++||++||++++.+||..+.+||..++ +++
T Consensus 99 ~iv~G~d~~~~~~l~~id~~G~~~~~~~~a~G~~~~~~~~~Le~~~--~~~~s~~ea~~~~~~~l~~~~~~d~~~~~~~~ 176 (189)
T cd01912 99 LIVGGVDKGGGPFLYYVDPLGSLIEAPFVATGSGSKYAYGILDRGY--KPDMTLEEAVELVKKAIDSAIERDLSSGGGVD 176 (189)
T ss_pred EEEEEEcCCCCeEEEEECCCCCeEecCEEEEcccHHHHHHHHHhcc--CCCCCHHHHHHHHHHHHHHHHHhcCccCCcEE
Confidence 9999999767899999999999999999999999999999999998 4889999999999999999999997765 899
Q ss_pred EEEEEeCC
Q 029560 162 VGVVSKEN 169 (191)
Q Consensus 162 i~iv~~~~ 169 (191)
|++++++|
T Consensus 177 v~vi~~~g 184 (189)
T cd01912 177 VAVITKDG 184 (189)
T ss_pred EEEECCCC
Confidence 99999886
No 35
>KOG0184 consensus 20S proteasome, regulatory subunit alpha type PSMA3/PRE10 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.6e-37 Score=234.36 Aligned_cols=185 Identities=30% Similarity=0.440 Sum_probs=167.2
Q ss_pred CCCccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCccccc
Q 029560 1 MQDKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLG 80 (191)
Q Consensus 1 ~~s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~ 80 (191)
+.|||..++..+|||.|++||+|+++|+.+|.+.+.+.+|.++..|+.+|+.|+|...++..+++++|.||.++..||||
T Consensus 54 i~SkLy~p~sn~ri~~V~r~iG~avaGl~~Dg~~l~~~ar~ea~~~~~~y~~piP~~~la~rva~yvh~~Tly~~vRpfG 133 (254)
T KOG0184|consen 54 ITSKLYEPGSNERIFSVDRHIGMAVAGLIPDGRHLVNRARDEAASWRKNYGDPIPGKHLADRVADYVHAFTLYSSVRPFG 133 (254)
T ss_pred ecccccccCCCCceEeecccccEEEeccccchHHHHHHHHHHHHHHHHhcCCCCchHHHHHHHHhhhheeehhhcccccc
Confidence 46999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred ceeEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCC-CCe
Q 029560 81 VVAMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFK-ASE 159 (191)
Q Consensus 81 v~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~-~~~ 159 (191)
++.|+++||. +||+||.++|+|..+.|+++|+|.|.|.|++.|||+- ...|+.+|+++.+.+.|..+.+..-. ...
T Consensus 134 ~~~~~~~yd~-~g~~LymiepSG~~~~Y~~aaiGKgrq~aKtElEKL~--~~~mt~~e~VkeaakIiY~~HDe~KdK~fe 210 (254)
T KOG0184|consen 134 ASTILGSYDD-EGPQLYMIEPSGSSYGYKGAAIGKGRQAAKTELEKLK--IDEMTCKELVKEAAKIIYKVHDENKDKEFE 210 (254)
T ss_pred ceEEEEEEeC-CCceEEEEcCCCCccceeeeeccchhHHHHHHHHhcc--cccccHHHHHHHHHheeEeecccccCcceE
Confidence 9999999996 8999999999999999999999999999999999983 56899999999999999999865333 347
Q ss_pred EEEEEEEeCCCcEEEcCHHHHHHHHHHhh
Q 029560 160 IEVGVVSKENPEFRVLSIEEIDEHLTAIS 188 (191)
Q Consensus 160 iei~iv~~~~~~~~~~~~~~i~~~~~~~~ 188 (191)
+||.|+..++++.+..-|+||-+...++.
T Consensus 211 iEm~wvg~eTnG~h~~vp~el~~ea~~~a 239 (254)
T KOG0184|consen 211 IEMGWVGEETNGLHEKVPSELLEEAEKYA 239 (254)
T ss_pred EEEEEEEeecCCccccCcHHHHHHHHHHH
Confidence 99999997765555555557766655543
No 36
>cd01906 proteasome_protease_HslV proteasome_protease_HslV. This group contains the eukaryotic proteosome alpha and beta subunits and the prokaryotic protease hslV subunit. Proteasomes are large multimeric self-compartmentalizing proteases, involved in the clearance of misfolded proteins, the breakdown of regulatory proteins, and the processing of proteins such as the preparation of peptides for immune presentation. Two main proteasomal types are distinguished by their different tertiary structures: the eukaryotic/archeal 20S proteasome and the prokaryotic proteasome-like heat shock protein encoded by heat shock locus V, hslV. The proteasome core particle is a highly conserved cylindrical structure made up of non-identical subunits that have their active sites on the inner walls of a large central cavity. The proteasome subunits of bacteria, archaea, and eukaryotes all share a conserved Ntn (N terminal nucleophile) hydrolase fold and a catalytic mechanism involving an N-terminal nucleo
Probab=100.00 E-value=7.5e-36 Score=229.03 Aligned_cols=154 Identities=41% Similarity=0.684 Sum_probs=146.3
Q ss_pred CCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccceeEEEE
Q 029560 8 HTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLS 87 (191)
Q Consensus 8 ~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~iv~G 87 (191)
+++++|||+|+++++|+++|..+|++.+.+.++.++..|++.++++++++.++++|++.+|.++++ .|||++++||+|
T Consensus 28 ~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~~~~--~~p~~~~~lv~G 105 (182)
T cd01906 28 SSTVEKIFKIDDHIGCAFAGLAADAQTLVERLRKEAQLYRLRYGEPIPVEALAKLLANLLYEYTQS--LRPLGVSLLVAG 105 (182)
T ss_pred CCCcceEEEECCCEEEEEeeCHHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhCCC--ccChheEEEEEE
Confidence 678999999999999999999999999999999999999999999999999999999999988875 899999999999
Q ss_pred EcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEEEEEE
Q 029560 88 IDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIEVGVV 165 (191)
Q Consensus 88 ~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~iei~iv 165 (191)
||++++|+||.+||+|++.+++++|+|+|++.++++||+.|+ ++||.+||++++++||..+.++|..++ +++|+++
T Consensus 106 ~d~~~~~~Ly~id~~G~~~~~~~~a~G~g~~~~~~~L~~~~~--~~~s~~ea~~l~~~~l~~~~~~~~~~~~~~~i~ii 182 (182)
T cd01906 106 VDEEGGPQLYSVDPSGSYIEYKATAIGSGSQYALGILEKLYK--PDMTLEEAIELALKALKSALERDLYSGGNIEVAVI 182 (182)
T ss_pred EeCCCCcEEEEECCCCCEeeccEEEECCCcHHHHHHHHHHcc--CCCCHHHHHHHHHHHHHHHHcccCCCCCCEEEEEC
Confidence 997678999999999999999999999999999999999984 789999999999999999999998665 8999875
No 37
>KOG0175 consensus 20S proteasome, regulatory subunit beta type PSMB5/PSMB8/PRE2 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.9e-33 Score=216.31 Aligned_cols=177 Identities=17% Similarity=0.183 Sum_probs=165.7
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccce
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVV 82 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~ 82 (191)
-.+|.+++++||++||++++-+++|-+||++.+.+.+.++|+.|++++++.|++...++.|++++.+| +++ .+.+.
T Consensus 94 G~YIasqtv~KVIeIn~ylLGTmAGgAADCqfWer~L~kecRL~eLRnkeriSVsaASKllsN~~y~Y---kGm-GLsmG 169 (285)
T KOG0175|consen 94 GSYIASQTVKKVIEINPYLLGTMAGGAADCQFWERVLAKECRLHELRNKERISVSAASKLLSNMVYQY---KGM-GLSMG 169 (285)
T ss_pred cceeechhhceeeeechhhhhcccCcchhhHHHHHHHHHHHHHHHHhcCcceehHHHHHHHHHHHhhc---cCc-chhhe
Confidence 35889999999999999999999999999999999999999999999999999999999999999655 444 67899
Q ss_pred eEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEE
Q 029560 83 AMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIE 161 (191)
Q Consensus 83 ~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~ie 161 (191)
.+|||||+ .||.||.||..|+..+-+-.++|+||.+|+++|+..| ++|||.|||.+|+++++..|..||..|+ -+.
T Consensus 170 tMi~G~Dk-~GP~lyYVDseG~Rl~G~~FSVGSGs~yAYGVLDsgY--r~dls~eEA~~L~rrAI~hAThRDaySGG~vn 246 (285)
T KOG0175|consen 170 TMIAGWDK-KGPGLYYVDSEGTRLSGDLFSVGSGSTYAYGVLDSGY--RYDLSDEEAYDLARRAIYHATHRDAYSGGVVN 246 (285)
T ss_pred eeEeeccC-CCCceEEEcCCCCEecCceEeecCCCceeEEeeccCC--CCCCCHHHHHHHHHHHHHHHHhcccccCceEE
Confidence 99999998 8999999999999999999999999999999999997 5889999999999999999999999998 589
Q ss_pred EEEEEeCCCcEEEcCHHHHHHHHHHhh
Q 029560 162 VGVVSKENPEFRVLSIEEIDEHLTAIS 188 (191)
Q Consensus 162 i~iv~~~~~~~~~~~~~~i~~~~~~~~ 188 (191)
++.|+++| |..+++.++.+++.++.
T Consensus 247 lyHv~edG--W~~v~~~Dv~~L~~~~~ 271 (285)
T KOG0175|consen 247 LYHVKEDG--WVKVSNTDVSELHYHYY 271 (285)
T ss_pred EEEECCcc--ceecCCccHHHHHHHHH
Confidence 99999996 99999999999976654
No 38
>KOG0177 consensus 20S proteasome, regulatory subunit beta type PSMB2/PRE1 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=2.2e-32 Score=203.67 Aligned_cols=168 Identities=15% Similarity=0.240 Sum_probs=155.5
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccce
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVV 82 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~ 82 (191)
|-++-.++.+|++.|++|+.|+++|..+|+..+.+++.+.++.|+.++|.+++|+..++++++.+.++. ++.+||.|+
T Consensus 24 si~~~k~~~dK~~~ls~~~lm~~~Ge~GDt~qF~eyi~~Ni~LYkirnGyeLSp~~aahFtR~~La~~L--Rsr~~yqV~ 101 (200)
T KOG0177|consen 24 SILVLKDDHDKIHRLSDHILMATVGEAGDTVQFTEYIQKNIQLYKIRNGYELSPSAAAHFTRRELAESL--RSRTPYQVN 101 (200)
T ss_pred ceEEecccccceEEeccceeeeeecCCCceehHHHHHHhhhhHHhhhcCCcCCHHHHHHHHHHHHHHHH--hcCCCceEE
Confidence 456667899999999999999999999999999999999999999999999999999999999998874 446899999
Q ss_pred eEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccC-CCCeEE
Q 029560 83 AMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDF-KASEIE 161 (191)
Q Consensus 83 ~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~-~~~~ie 161 (191)
+|+||+|++.||.||++|..|+..+.++++.|.++.++.++|++.| +|+||.+||+++..+|+.++..|-. +-.+|.
T Consensus 102 ~LvaGYd~~~gp~L~~iDyla~~~~vpy~~hGy~~~f~~sIlDr~Y--~pdmt~eea~~lmkKCv~El~kRlvin~~~f~ 179 (200)
T KOG0177|consen 102 ILVAGYDPEEGPELYYIDYLATLVSVPYAAHGYGSYFCLSILDRYY--KPDMTIEEALDLMKKCVLELKKRLVINLPGFI 179 (200)
T ss_pred EEEeccCCCCCCceeeehhhhhcccCCcccccchhhhhHHHHHhhh--CCCCCHHHHHHHHHHHHHHHHHhcccCCCCcE
Confidence 9999999988999999999999999999999999999999999998 5999999999999999999998854 446999
Q ss_pred EEEEEeCCCcEEEcC
Q 029560 162 VGVVSKENPEFRVLS 176 (191)
Q Consensus 162 i~iv~~~~~~~~~~~ 176 (191)
|.||+|+| .+.++
T Consensus 180 v~IVdkdG--ir~~~ 192 (200)
T KOG0177|consen 180 VKIVDKDG--IRKLD 192 (200)
T ss_pred EEEEcCCC--ceecc
Confidence 99999997 55554
No 39
>KOG0179 consensus 20S proteasome, regulatory subunit beta type PSMB1/PRE7 [Posttranslational modification, protein turnover, chaperones]
Probab=99.98 E-value=1.8e-31 Score=201.62 Aligned_cols=166 Identities=17% Similarity=0.337 Sum_probs=154.1
Q ss_pred ccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccceeEE
Q 029560 6 LDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMV 85 (191)
Q Consensus 6 ~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~iv 85 (191)
+.++..+|||+++|+++++.||.++|+..|...++.+.+.|++.++..|++..+|+.|+.++ | ..++.||.+..++
T Consensus 55 I~sR~~~Ki~~l~D~~vl~~sGF~aD~l~L~k~i~~r~~~Y~~~h~k~ms~~s~A~lls~~L--Y--~kRFFPYYv~~il 130 (235)
T KOG0179|consen 55 INSRDQSKIFKLGDNIVLGSSGFYADTLALVKVIKSRIKQYEHDHNKKMSIHSAAQLLSTIL--Y--SKRFFPYYVFNIL 130 (235)
T ss_pred eeccccchheeccCceEEecccchhhHHHHHHHHHHHHHHHhhcccccccHHHHHHHHHHHH--h--hcccccceeeeee
Confidence 56799999999999999999999999999999999999999999999999999999999999 5 5678999999999
Q ss_pred EEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhc---------CCCCCCHHHHHHHHHHHHHhhhcccCC
Q 029560 86 LSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMK---------NDPAFTFQETVQTAISTLQSVLQEDFK 156 (191)
Q Consensus 86 ~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~---------~~~~~s~eea~~l~~~~l~~~~~~d~~ 156 (191)
+|+|+++++.+|.+||.|++.+..+.|-|+++..++|+|+.++. +...+|+|+|+.++.+++..|.+||..
T Consensus 131 aGiDeeGKG~VySyDPvGsyer~~~~AgGsa~~mI~PfLDnQi~~kn~~~e~~~~~~Ls~e~ai~lv~d~F~SAaERdI~ 210 (235)
T KOG0179|consen 131 AGIDEEGKGAVYSYDPVGSYERVTCRAGGSAASMIQPFLDNQIGHKNQNLENAERTPLSLERAIRLVKDAFTSAAERDIY 210 (235)
T ss_pred ecccccCceeEEeecCCcceeeeeeecCCcchhhhhhhhhhhccCcCcccccCcccccCHHHHHHHHHHHhhhhhhcccc
Confidence 99999999999999999999999999999999999999998853 134689999999999999999999999
Q ss_pred CC-eEEEEEEEeCCCcEEEc
Q 029560 157 AS-EIEVGVVSKENPEFRVL 175 (191)
Q Consensus 157 ~~-~iei~iv~~~~~~~~~~ 175 (191)
.+ +++|+|++++|...+.+
T Consensus 211 tGD~l~i~I~tk~gV~~e~~ 230 (235)
T KOG0179|consen 211 TGDKLEICIITKDGVEVETL 230 (235)
T ss_pred cCCcEEEEEEecCCEEEEee
Confidence 87 89999999998654444
No 40
>KOG0185 consensus 20S proteasome, regulatory subunit beta type PSMB4/PRE4 [Posttranslational modification, protein turnover, chaperones]
Probab=99.96 E-value=3.9e-29 Score=191.90 Aligned_cols=173 Identities=17% Similarity=0.215 Sum_probs=157.4
Q ss_pred cccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHH-HHhCCCCCHHHHHHHHHHHHHHhhhhcCccccccee
Q 029560 5 LLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFR-FKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVA 83 (191)
Q Consensus 5 l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~-~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~ 83 (191)
|..-++++|||+++||+++|+||..+|+|.+.+.+.....+.. +..|..+.|+.++.+|++.+ |..++.+.|++..+
T Consensus 66 laR~~nVeRi~kVgdntllG~sGdisD~Q~i~r~L~~l~iedn~~~Dg~~l~Pk~ih~yltrvl--Y~rRsKmnPlwntl 143 (256)
T KOG0185|consen 66 LARYKNVERIFKVGDNTLLGASGDISDFQYIQRVLEQLVIEDNRLDDGQSLGPKAIHSYLTRVL--YARRSKMNPLWNTL 143 (256)
T ss_pred hhhhcCceeeEEecCceEEecCccHHHHHHHHHHHHHHHhcccccccccccChHHHHHHHHHHH--HHhhhccCchhhhe
Confidence 4456799999999999999999999999999999998887744 55678999999999999999 88899999999999
Q ss_pred EEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhc-CCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEE
Q 029560 84 MVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMK-NDPAFTFQETVQTAISTLQSVLQEDFKAS-EIE 161 (191)
Q Consensus 84 iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~-~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~ie 161 (191)
+|||+|.++.|+|..+|..|..++.+..|+|.|+..|.++|++.|. +.++++.+||.+++.+||+...+||+.+. +|+
T Consensus 144 vVgGv~~~g~~~lg~V~~~G~~Y~~~~vATGfg~hLa~P~lR~~~~~k~~~~s~eeA~~li~~cMrVL~YRD~ra~n~fq 223 (256)
T KOG0185|consen 144 VVGGVDNTGEPFLGYVDLLGVAYESPVVATGFGAHLALPLLRDEWEKKGEDLSREEAEALIEKCMRVLYYRDARASNEFQ 223 (256)
T ss_pred eEeeecCCCCeeEEEEeeccccccCchhhhhhHHHhhhHHHHHhhhccchhhHHHHHHHHHHHHHHHHhccccccccceE
Confidence 9999998788999999999999999999999999999999999996 45799999999999999999999999886 799
Q ss_pred EEEEEeCCCcEEEcCHHHHH
Q 029560 162 VGVVSKENPEFRVLSIEEID 181 (191)
Q Consensus 162 i~iv~~~~~~~~~~~~~~i~ 181 (191)
|++||++| +.+-.|..|+
T Consensus 224 va~v~~eG--v~i~~p~qv~ 241 (256)
T KOG0185|consen 224 VATVDEEG--VTISKPYQVK 241 (256)
T ss_pred EEEEcccc--eEecCceeee
Confidence 99999986 5665555544
No 41
>KOG0174 consensus 20S proteasome, regulatory subunit beta type PSMB6/PSMB9/PRE3 [Posttranslational modification, protein turnover, chaperones]
Probab=99.96 E-value=2.4e-28 Score=182.76 Aligned_cols=175 Identities=17% Similarity=0.227 Sum_probs=159.4
Q ss_pred ccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCccccccee
Q 029560 4 KLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVA 83 (191)
Q Consensus 4 ~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~ 83 (191)
.++.++..+|+-+|.|+|+||-||.++|.|.+.+.++.....|..+.+.++++...++.++.+..+| ..-+..++
T Consensus 43 ayvanRvtDKlT~itD~i~cCRSGSAADtQaiaD~~~Y~L~~~~~q~~~~p~v~~aA~l~r~~~Y~~-----re~L~Agl 117 (224)
T KOG0174|consen 43 AYVANRVTDKLTPITDNIYCCRSGSAADTQAIADIVRYHLELYTIQENKPPLVHTAASLFREICYNY-----REMLSAGL 117 (224)
T ss_pred HHHHhhhcccceeccccEEEecCCchhhHHHHHHHHHHHHHHhhhhcCCCchHHHHHHHHHHHHHhC-----HHhhhcce
Confidence 4677889999999999999999999999999999999999999999999999999999999988544 23478999
Q ss_pred EEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEEE
Q 029560 84 MVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIEV 162 (191)
Q Consensus 84 iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~iei 162 (191)
||||||++.|.++|.+-.-|+..+-.++.-|+||.+++++++.+| +|+||+||++++..+|+..++.||-.|+ -|.+
T Consensus 118 iVAGwD~~~gGqVY~iplGG~l~rq~~aIgGSGStfIYGf~D~~~--r~nMt~EE~~~fvk~Av~lAi~rDGsSGGviR~ 195 (224)
T KOG0174|consen 118 IVAGWDEKEGGQVYSIPLGGSLTRQPFAIGGSGSTFIYGFCDANW--RPNMTLEECVRFVKNAVSLAIERDGSSGGVIRL 195 (224)
T ss_pred EEeecccccCceEEEeecCceEeecceeeccCCceeeeeeehhhc--CCCCCHHHHHHHHHHHHHHHHhccCCCCCEEEE
Confidence 999999988999999977777877788888999999999999999 5999999999999999999999999987 6899
Q ss_pred EEEEeCCCcEEEcCHHHHHHHHH
Q 029560 163 GVVSKENPEFRVLSIEEIDEHLT 185 (191)
Q Consensus 163 ~iv~~~~~~~~~~~~~~i~~~~~ 185 (191)
.+++++|...+.+.++++.++..
T Consensus 196 ~~I~~~Gver~~~~~d~~~~~~v 218 (224)
T KOG0174|consen 196 VIINKAGVERRFFPGDKLGQFAV 218 (224)
T ss_pred EEEccCCceEEEecCCccccccc
Confidence 99999999889999998876643
No 42
>KOG0173 consensus 20S proteasome, regulatory subunit beta type PSMB7/PSMB10/PUP1 [Posttranslational modification, protein turnover, chaperones]
Probab=99.95 E-value=2.8e-27 Score=183.38 Aligned_cols=162 Identities=17% Similarity=0.282 Sum_probs=149.5
Q ss_pred CccccCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccce
Q 029560 3 DKLLDHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVV 82 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~ 82 (191)
...++.++.+||+.|.++|+||.+|-++|...+.+.+..+...++++.++.+++-...+.|.+.+..| ..-.|+.
T Consensus 60 G~IvaDKnC~KIH~ia~~IyccGAGtAADte~vt~m~ss~l~Lh~l~t~R~~rVv~A~~mlkQ~LFrY-----qG~IgA~ 134 (271)
T KOG0173|consen 60 GPIVADKNCEKIHFIAPNIYCCGAGTAADTEMVTRMISSNLELHRLNTGRKPRVVTALRMLKQHLFRY-----QGHIGAA 134 (271)
T ss_pred CCeeecchhHHHhhcccceEEccCCchhhHHHHHHHHHHHHHHHHhccCCCCceeeHHHHHHHHHHHh-----cCcccce
Confidence 35678899999999999999999999999999999999999999999999999988889999888655 2358999
Q ss_pred eEEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEE
Q 029560 83 AMVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIE 161 (191)
Q Consensus 83 ~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~ie 161 (191)
+|++|+|. .||+||.+-|.|+....++.++|||+..|+.+||.+| .|+|+.|||++|+.+|+...+..|+.|+ |++
T Consensus 135 LiiGGvD~-TGpHLy~i~phGStd~~Pf~alGSGslaAmsvlEsr~--k~dlt~eea~~Lv~eAi~AGi~nDLgSGsnvd 211 (271)
T KOG0173|consen 135 LILGGVDP-TGPHLYSIHPHGSTDKLPFTALGSGSLAAMSVLESRW--KPDLTKEEAIKLVCEAIAAGIFNDLGSGSNVD 211 (271)
T ss_pred eEEccccC-CCCceEEEcCCCCcCccceeeeccchHHHHHHHHHhc--CcccCHHHHHHHHHHHHHhhhccccCCCCcee
Confidence 99999998 8999999999999999999999999999999999999 5999999999999999999999999997 999
Q ss_pred EEEEEeCCCcE
Q 029560 162 VGVVSKENPEF 172 (191)
Q Consensus 162 i~iv~~~~~~~ 172 (191)
++||++.+..|
T Consensus 212 lcVI~~~~~~~ 222 (271)
T KOG0173|consen 212 LCVITKKGVEY 222 (271)
T ss_pred EEEEeCCCccc
Confidence 99999765433
No 43
>KOG0180 consensus 20S proteasome, regulatory subunit beta type PSMB3/PUP3 [Posttranslational modification, protein turnover, chaperones]
Probab=99.94 E-value=8.5e-26 Score=166.22 Aligned_cols=158 Identities=18% Similarity=0.265 Sum_probs=149.2
Q ss_pred cCCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccceeEEE
Q 029560 7 DHTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVL 86 (191)
Q Consensus 7 ~~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~iv~ 86 (191)
.+.+.+|||+|.|++++|.+|+..|++.+.++++..-+.|+++.++.|.|+.+++.+|.++ | ..++.||.+..+||
T Consensus 35 istdf~ki~~igdr~y~GL~glatDvqtl~~~~~fr~nLy~lre~R~i~P~~~s~mvS~~l--Y--ekRfgpYf~~PvVA 110 (204)
T KOG0180|consen 35 ISTDFQKIFKIGDRLYLGLTGLATDVQTLLERLRFRKNLYELREEREIKPETFSSMVSSLL--Y--EKRFGPYFTEPVVA 110 (204)
T ss_pred eeccchhheecCCeeEEeccccchhHHHHHHHHHHHHhHHHhhhhcccCcHHHHHHHHHHH--H--HhhcCCcccceeEe
Confidence 3678999999999999999999999999999999999999999999999999999999999 5 34678999999999
Q ss_pred EEcCCCCCeEEEECCCcceece-eeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEEEEE
Q 029560 87 SIDEECGPRLFKCDPAGHFFGH-KATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIEVGV 164 (191)
Q Consensus 87 G~d~~~~p~Ly~~d~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~iei~i 164 (191)
|.|+.++|+|..+|..|+.... ++.+.|.++...++.-|..| +|+|..|++++.+.++|..+.+||+-|| +..|.+
T Consensus 111 Gl~~~~kPfIc~mD~IGc~~~~~DFVvsGTa~e~L~GmCE~ly--~pnmepd~LFetisQa~Lna~DRDalSGwGa~vyi 188 (204)
T KOG0180|consen 111 GLDDDNKPFICGMDLIGCIDAPKDFVVSGTASEQLYGMCEALY--EPNMEPDELFETISQALLNAVDRDALSGWGAVVYI 188 (204)
T ss_pred ccCCCCCeeEeecccccCcCccCCeEEecchHHHHHHHHHHhc--CCCCCHHHHHHHHHHHHHhHhhhhhhccCCeEEEE
Confidence 9999889999999999998776 89999999999999999999 5999999999999999999999999998 999999
Q ss_pred EEeCCC
Q 029560 165 VSKENP 170 (191)
Q Consensus 165 v~~~~~ 170 (191)
|+|+..
T Consensus 189 I~kdkv 194 (204)
T KOG0180|consen 189 ITKDKV 194 (204)
T ss_pred Eccchh
Confidence 999864
No 44
>cd01901 Ntn_hydrolase The Ntn hydrolases (N-terminal nucleophile) are a diverse superfamily of of enzymes that are activated autocatalytically via an N-terminally lcated nucleophilic amino acid. N-terminal nucleophile (NTN-) hydrolase superfamily, which contains a four-layered alpha, beta, beta, alpha core structure. This family of hydrolases includes penicillin acylase, the 20S proteasome alpha and beta subunits, and glutamate synthase. The mechanism of activation of these proteins is conserved, although they differ in their substrate specificities. All known members catalyze the hydrolysis of amide bonds in either proteins or small molecules, and each one of them is synthesized as a preprotein. For each, an autocatalytic endoproteolytic process generates a new N-terminal residue. This mature N-terminal residue is central to catalysis and acts as both a polarizing base and a nucleophile during the reaction. The N-terminal amino group acts as the proton acceptor and activates either t
Probab=99.94 E-value=7.8e-25 Score=163.39 Aligned_cols=135 Identities=36% Similarity=0.505 Sum_probs=129.4
Q ss_pred CCCCcceEEecCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccceeEEEE
Q 029560 8 HTSVTHLFPITKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLS 87 (191)
Q Consensus 8 ~~~~~Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~iv~G 87 (191)
.....|++.++++++++++|..+|++.+.++++.+++.|++.++.++++..+++.+++.++.+++ .||+++++||+|
T Consensus 28 ~~~~~ki~~~~~~~~~~~sG~~~d~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~---~~p~~~~~iiag 104 (164)
T cd01901 28 GSPVIKIGKNEDGIAWGLAGLAADAQTLVRRLREALQLYRLRYGEPISVVALAKELAKLLQVYTQ---GRPFGVNLIVAG 104 (164)
T ss_pred CCCcceEEEecCCeEEEEecChHHHHHHHHHHHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHhcC---CCCcceEEEEEE
Confidence 56889999999999999999999999999999999999999999999999999999999998876 799999999999
Q ss_pred EcCCCCCeEEEECCCcceece-eeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHH
Q 029560 88 IDEECGPRLFKCDPAGHFFGH-KATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQ 148 (191)
Q Consensus 88 ~d~~~~p~Ly~~d~~G~~~~~-~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~ 148 (191)
+|+ ++|+||.+||.|++.++ .++++|.++..+.++|++.|+ ++|+.+|+++++.+||.
T Consensus 105 ~~~-~~~~l~~id~~g~~~~~~~~~~~G~~~~~~~~~l~~~~~--~~~~~~~~~~~~~~~l~ 163 (164)
T cd01901 105 VDE-GGGNLYYIDPSGPVIENPGAVATGSRSQRAKSLLEKLYK--PDMTLEEAVELALKALK 163 (164)
T ss_pred EcC-CCCEEEEECCCcCEeecCcEEEECCCCHHHHHHHHHHhc--CCCCHHHHHHHHHHHHh
Confidence 998 88999999999999999 999999999999999999984 77999999999999986
No 45
>PRK05456 ATP-dependent protease subunit HslV; Provisional
Probab=99.93 E-value=6.4e-25 Score=166.76 Aligned_cols=144 Identities=14% Similarity=0.112 Sum_probs=119.5
Q ss_pred CccccCCCCcceEEe-cCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc
Q 029560 3 DKLLDHTSVTHLFPI-TKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV 81 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v 81 (191)
+.++.+++.+||++| ++|++|++||..+|++.|.+.++.+++.|+. +. ++..++.+..+. .....+|+.+
T Consensus 24 g~~v~~~~~~KI~~i~~d~i~~~~aG~~aD~q~l~~~l~~~~~~y~~--~~---~~~~a~l~~~l~----~~~~~~~l~~ 94 (172)
T PRK05456 24 GNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEHQG--NL---LRAAVELAKDWR----TDRYLRRLEA 94 (172)
T ss_pred CcEEEcCCCceEEEeCCCCEEEEEeccHHHHHHHHHHHHHHHHHccC--cc---HHHHHHHHHHHH----hccCCCccEE
Confidence 457788999999999 9999999999999999999999999999882 22 455554433221 1233468889
Q ss_pred eeEEEEEcCCCCCeEEEECCCcceece--eeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-
Q 029560 82 VAMVLSIDEECGPRLFKCDPAGHFFGH--KATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS- 158 (191)
Q Consensus 82 ~~iv~G~d~~~~p~Ly~~d~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~- 158 (191)
++|++ |+ |+||.+||.|+..+. ++.|+|+|+.+++++|+++|+ .++| ||++++++|++.+.+||..++
T Consensus 95 ~~lv~--d~---~~ly~id~~G~~~~~~~~~~a~GSGs~~a~g~ld~~y~-~~~m---eA~~la~kai~~A~~Rd~~sg~ 165 (172)
T PRK05456 95 MLIVA--DK---EHSLIISGNGDVIEPEDGIIAIGSGGNYALAAARALLE-NTDL---SAEEIAEKALKIAADICIYTNH 165 (172)
T ss_pred EEEEE--cC---CcEEEECCCCcEeccCCCeEEEecCHHHHHHHHHHhhh-cCCC---CHHHHHHHHHHHHHHhCeeCCC
Confidence 99994 54 689999999999777 799999999999999999983 2889 999999999999999999886
Q ss_pred eEEEEE
Q 029560 159 EIEVGV 164 (191)
Q Consensus 159 ~iei~i 164 (191)
+|+|-.
T Consensus 166 ~i~v~~ 171 (172)
T PRK05456 166 NITIEE 171 (172)
T ss_pred cEEEEE
Confidence 777654
No 46
>cd01913 protease_HslV Protease HslV and the ATPase/chaperone HslU are part of an ATP-dependent proteolytic system that is the prokaryotic homolog of the proteasome. HslV is a dimer of hexamers (a dodecamer) that forms a central proteolytic chamber with active sites on the interior walls of the cavity. HslV shares significant sequence and structural similarity with the proteasomal beta-subunit and both are members of the Ntn-family of hydrolases. HslV has a nucleophilic threonine residue at its N-terminus that is exposed after processing of the propeptide and is directly involved in active site catalysis.
Probab=99.93 E-value=2e-24 Score=163.13 Aligned_cols=142 Identities=11% Similarity=0.023 Sum_probs=116.7
Q ss_pred CccccCCCCcceEEecC-cEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCccccc-
Q 029560 3 DKLLDHTSVTHLFPITK-YLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLG- 80 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i~~-~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~- 80 (191)
+.++.+++.+||++|+| |++|+++|..+|++.|.++++.+++.|+.+.++ .+++.+..+. .+ +.+|+.
T Consensus 23 G~~v~~~~~~Ki~~i~d~~i~~~~aG~~aD~~~l~~~~~~~~~~y~~~~~~-----~aa~l~~~l~----~~-~~~~~l~ 92 (171)
T cd01913 23 GNTVMKGNARKVRRLYNGKVIAGFAGSTADAFTLFERFEAKLEQYPGNLLR-----AAVELAKDWR----TD-RYLRRLE 92 (171)
T ss_pred ccEEEcCCcceEEEeCCCCEEEEecccHHHHHHHHHHHHHHHHHhhchHHH-----HHHHHHHHHH----hc-cCcCceE
Confidence 45788999999999999 999999999999999999999999999988774 3334333322 11 335555
Q ss_pred ceeEEEEEcCCCCCeEEEECCCcceecee--eeecCCChHHHHHHHHHhhcCCC-CCCHHHHHHHHHHHHHhhhcccCCC
Q 029560 81 VVAMVLSIDEECGPRLFKCDPAGHFFGHK--ATSAGLKEQEAINFLEKKMKNDP-AFTFQETVQTAISTLQSVLQEDFKA 157 (191)
Q Consensus 81 v~~iv~G~d~~~~p~Ly~~d~~G~~~~~~--~~a~G~gs~~~~~~Le~~~~~~~-~~s~eea~~l~~~~l~~~~~~d~~~ 157 (191)
+.+++++|| +||.+||.|+..+.+ +.|+||||.+|+++||.+|+ + +|| +.++|++|++.|.+||..+
T Consensus 93 a~~iv~~~~-----~ly~id~~G~~ie~~~~~~a~GSGS~ya~g~ld~~yk--~~~ms---~~~la~~Av~~A~~rd~~t 162 (171)
T cd01913 93 AMLIVADKE-----HTLLISGNGDVIEPDDGIAAIGSGGNYALAAARALLD--HTDLS---AEEIARKALKIAADICIYT 162 (171)
T ss_pred EEEEEeCCC-----cEEEECCCCCEeccCCCeEEEeCCHHHHHHHHHHhhc--cCCCC---HHHHHHHHHHHHHhhCccc
Confidence 666665443 799999999999984 99999999999999999984 6 498 6699999999999999988
Q ss_pred C-eEEEEE
Q 029560 158 S-EIEVGV 164 (191)
Q Consensus 158 ~-~iei~i 164 (191)
+ +|.|-.
T Consensus 163 g~~i~~~~ 170 (171)
T cd01913 163 NHNITVEE 170 (171)
T ss_pred CCCEEEEe
Confidence 7 777654
No 47
>TIGR03692 ATP_dep_HslV ATP-dependent protease HslVU, peptidase subunit. The ATP-dependent protease HslVU, a complex of hexameric HslU active as a protein-unfolding ATPase and dodecameric HslV, the catalytic threonine protease.
Probab=99.92 E-value=3e-24 Score=162.14 Aligned_cols=144 Identities=13% Similarity=0.131 Sum_probs=115.5
Q ss_pred CccccCCCCcceEEe-cCcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccc
Q 029560 3 DKLLDHTSVTHLFPI-TKYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGV 81 (191)
Q Consensus 3 s~l~~~~~~~Ki~~i-~~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v 81 (191)
+.++.+++.+||++| ++|++|+++|..+|++.|.++++.+++.|+... .+.+++.+++ +..+...+.+.+
T Consensus 23 g~~v~~~~~~Ki~~i~~d~i~~~~aG~~aD~q~l~~~~~~~~~~y~~~~-----~~~~a~l~~~----~~~~~~~~~l~a 93 (171)
T TIGR03692 23 GNTVMKGNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEEYQGNL-----TRAAVELAKD----WRTDRYLRRLEA 93 (171)
T ss_pred ceEEEcCCCCeEEEeCCCCEEEEecchHHHHHHHHHHHHHHHHHccCch-----HHHHHHHHHH----HhhcccccccEE
Confidence 457789999999999 599999999999999999999999999987743 2444444443 211222223336
Q ss_pred eeEEEEEcCCCCCeEEEECCCcceece--eeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-
Q 029560 82 VAMVLSIDEECGPRLFKCDPAGHFFGH--KATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS- 158 (191)
Q Consensus 82 ~~iv~G~d~~~~p~Ly~~d~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~- 158 (191)
.+|++|| |+||.+||.|.+.++ ++.++||||.+++++||..|+ .++|+ |+++|+++++.|.+||..++
T Consensus 94 ~~iv~~~-----~~ly~i~~~G~~ie~~~~~~a~GSGS~~a~g~ld~~y~-~~~~s---a~~la~~Av~~A~~rd~~sg~ 164 (171)
T TIGR03692 94 MLIVADK-----ETSLLISGTGDVIEPEDGIAAIGSGGNYALAAARALLR-NTDLS---AEEIAREALKIAADICIYTNH 164 (171)
T ss_pred EEEEEcC-----CCEEEEcCCCcEeccCCCeEEEeCCHHHHHHHHHHhhh-cCCCC---HHHHHHHHHHHHHhhCccCCC
Confidence 6666544 379999999999997 599999999999999999984 36676 99999999999999999887
Q ss_pred eEEEEE
Q 029560 159 EIEVGV 164 (191)
Q Consensus 159 ~iei~i 164 (191)
+|.|-.
T Consensus 165 ~i~v~~ 170 (171)
T TIGR03692 165 NITIEE 170 (171)
T ss_pred CEEEEe
Confidence 777653
No 48
>COG5405 HslV ATP-dependent protease HslVU (ClpYQ), peptidase subunit [Posttranslational modification, protein turnover, chaperones]
Probab=99.01 E-value=3.7e-09 Score=77.88 Aligned_cols=140 Identities=15% Similarity=0.152 Sum_probs=102.3
Q ss_pred CCCcceEEec-CcEEEEEecchHHHHHHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccceeEEEE
Q 029560 9 TSVTHLFPIT-KYLGLLATGMTADARTLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLS 87 (191)
Q Consensus 9 ~~~~Ki~~i~-~~i~~~~sG~~~D~~~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~iv~G 87 (191)
.+..|+.+|. .+++.|++|.++|+..|.+.+..+++.|. ..|.+..-++.+.+......|.+-.-++|+
T Consensus 33 ~narKvRkl~~gkvlaGFAGstADaftLfe~fe~kle~~~---------g~L~raavelaKdwr~Dk~lr~LEAmllVa- 102 (178)
T COG5405 33 GNARKVRRLYNGKVLAGFAGSTADAFTLFERFEAKLEQYQ---------GDLFRAAVELAKDWRTDKYLRKLEAMLLVA- 102 (178)
T ss_pred ccHHHHHHHcCCcEEEEecccchhHHHHHHHHHHHHHHcc---------CcHHHHHHHHHHhhhhhhHHHHHhhheeEe-
Confidence 4455555554 49999999999999999999999998873 334444445555554445567777778887
Q ss_pred EcCCCCCeEEEECCCcceece--eeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEEEEE
Q 029560 88 IDEECGPRLFKCDPAGHFFGH--KATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIEVGV 164 (191)
Q Consensus 88 ~d~~~~p~Ly~~d~~G~~~~~--~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~iei~i 164 (191)
|+ -.+|-+...|.+.+. ...|||||..+|.......++ .+++ +|.+++.++|..+-+-+.++. ++.|-.
T Consensus 103 -d~---~~il~isG~gdV~epe~~~~aIGSGgnyAl~AarAl~~-~~~l---sA~eIa~~sl~iA~eiciyTN~ni~ve~ 174 (178)
T COG5405 103 -DK---THILIITGNGDVIEPEDDIIAIGSGGNYALSAARALME-NTEL---SAREIAEKSLKIAGDICIYTNHNIVVEE 174 (178)
T ss_pred -CC---CcEEEEecCcceecCCCCeEEEcCCchHHHHHHHHHHh-ccCC---CHHHHHHHHHhhhheEEEecCCcEEEEE
Confidence 44 348889999998876 589999999999999998874 4566 566778888888775555543 666655
Q ss_pred EE
Q 029560 165 VS 166 (191)
Q Consensus 165 v~ 166 (191)
+.
T Consensus 175 l~ 176 (178)
T COG5405 175 LR 176 (178)
T ss_pred ee
Confidence 43
No 49
>COG3484 Predicted proteasome-type protease [Posttranslational modification, protein turnover, chaperones]
Probab=97.42 E-value=0.0037 Score=48.24 Aligned_cols=146 Identities=12% Similarity=0.106 Sum_probs=102.5
Q ss_pred EEEEEecchHHHHHHHHHHHHHHHHHHHH-hCCCCCHHHHHHHHHHHHHHhhhhc------CcccccceeEEEEEcCCCC
Q 029560 21 LGLLATGMTADARTLVQQARYEAAEFRFK-YGYEMPVDVLAKWIADKSQVYTQHA------YMRPLGVVAMVLSIDEECG 93 (191)
Q Consensus 21 i~~~~sG~~~D~~~l~~~~~~~~~~~~~~-~~~~~~~~~l~~~l~~~~~~~t~~~------~~rP~~v~~iv~G~d~~~~ 93 (191)
++++-+|-.+-.|.+.+.+....+.-.-. --.-.+.-..+..+...+.+-.-+. .---|.|++|++|-=...-
T Consensus 45 lvl~taGNLA~tQaV~~ll~e~~~~d~~~~L~n~~sm~eattlvgetvrEv~~rds~~leka~~dfn~sfllGGQI~G~p 124 (255)
T COG3484 45 LVLCTAGNLAITQAVLHLLDERIQRDDGDSLLNIPSMYEATTLVGETVREVQARDSPALEKAGIDFNCSFLLGGQIKGEP 124 (255)
T ss_pred EEEEecCccHHHHHHHHHHHHHhhccchhhhhcchhHHHHHHHHHHHHHHHHhccCchhhccCcceeEEEEEcceecCCC
Confidence 56677999999999999888776522211 1122345555666666654332111 1235889999999876445
Q ss_pred CeEEEECCCcceece----eeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccCCCC-eEEEEEEEeC
Q 029560 94 PRLFKCDPAGHFFGH----KATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDFKAS-EIEVGVVSKE 168 (191)
Q Consensus 94 p~Ly~~d~~G~~~~~----~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~~~~-~iei~iv~~~ 168 (191)
|.||.+-|.|++.+. .+.-+|.. .+-+++|++.+. .+++++||.+.++-.+-..+..++.-| -+++-++.++
T Consensus 125 p~Ly~IYpqGNFIqaT~etpf~QiGEt-KYGKPildR~i~--~~~pLeea~kcaLvS~DSTlkSNiSVGlPldLl~~e~d 201 (255)
T COG3484 125 PRLYLIYPQGNFIQATPETPFLQIGET-KYGKPILDRTIT--YDTPLEEAAKCALVSFDSTLKSNISVGLPLDLLVYEAD 201 (255)
T ss_pred ceeEEEccCCCeeecCCCCceeEcccc-ccCchhhhhhhh--ccCCHHHHhhheEEecchhhhccccccCCceeEEEecc
Confidence 899999999999874 57777754 567899999874 679999999999888877776565555 5777777766
Q ss_pred C
Q 029560 169 N 169 (191)
Q Consensus 169 ~ 169 (191)
-
T Consensus 202 s 202 (255)
T COG3484 202 S 202 (255)
T ss_pred c
Confidence 3
No 50
>KOG3361 consensus Iron binding protein involved in Fe-S cluster formation [Energy production and conversion]
Probab=87.39 E-value=1.3 Score=32.06 Aligned_cols=44 Identities=20% Similarity=0.160 Sum_probs=39.2
Q ss_pred EEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHH
Q 029560 97 FKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQT 142 (191)
Q Consensus 97 y~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l 142 (191)
..+|-+|.+...++-..|.||..|-.-+-..| -..+|+|||.++
T Consensus 71 Ikvd~~g~I~dakFKTFGCGSAIASSS~aTew--vkgkt~dea~kI 114 (157)
T KOG3361|consen 71 IKVDDSGVIEDAKFKTFGCGSAIASSSLATEW--VKGKTLDEALKI 114 (157)
T ss_pred EEECCCCcEEEeeeeecccchHhhhhHHHHHH--HccccHHHHHhc
Confidence 57888999999999999999999999999888 477999999865
No 51
>PF09894 DUF2121: Uncharacterized protein conserved in archaea (DUF2121); InterPro: IPR016754 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function. They do show distant similarity to NTPases and to nucleic acid binding enzymes.
Probab=79.33 E-value=9 Score=29.61 Aligned_cols=49 Identities=16% Similarity=0.208 Sum_probs=39.6
Q ss_pred HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcccC-CCCeEEEEEEEeC
Q 029560 118 QEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQEDF-KASEIEVGVVSKE 168 (191)
Q Consensus 118 ~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d~-~~~~iei~iv~~~ 168 (191)
+.|...|.++|+ +.|+++++..+...+|..+...-. .|..+++...++.
T Consensus 131 ~ia~~~lkk~~~--~k~~l~~i~~i~~~i~~~~a~~tpsvS~~~d~~~~~~~ 180 (194)
T PF09894_consen 131 EIANKELKKYWK--PKMSLKDIENIFEKIMEEVASKTPSVSKEYDIYITTKK 180 (194)
T ss_pred HHHHHHHHHhcC--CCCCHHHHHHHHHHHHHHHhhcCCCccCcEEEEEeccc
Confidence 677888888885 889999999999999999975443 3458888887754
No 52
>PF03646 FlaG: FlaG protein; InterPro: IPR005186 Although these proteins are known to be important for flagellar their exact function is unknown.; PDB: 2HC5_A.
Probab=74.73 E-value=11 Score=25.95 Aligned_cols=32 Identities=25% Similarity=0.358 Sum_probs=24.3
Q ss_pred CCeEEEEEEEeCCCc-EEEcCHHHHHHHHHHhh
Q 029560 157 ASEIEVGVVSKENPE-FRVLSIEEIDEHLTAIS 188 (191)
Q Consensus 157 ~~~iei~iv~~~~~~-~~~~~~~~i~~~~~~~~ 188 (191)
++.+-|.|++++++. ++.++++++-.+..+|.
T Consensus 65 ~~~~vVkViD~~T~eVIRqIP~Ee~l~l~~~l~ 97 (107)
T PF03646_consen 65 SGRVVVKVIDKETGEVIRQIPPEELLDLAKRLR 97 (107)
T ss_dssp TTEEEEEEEETTT-SEEEEE-HHHHHHHHHHHH
T ss_pred CCcEEEEEEECCCCcEEEeCCcHHHHHHHHHHH
Confidence 356889999987654 58999999998887775
No 53
>cd06404 PB1_aPKC PB1 domain is an essential modular domain of the atypical protein kinase C (aPKC) which in complex with Par6 and Par3 proteins is crucial for establishment of apical-basal polarity of animal cells. PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi,
Probab=72.18 E-value=26 Score=23.32 Aligned_cols=55 Identities=13% Similarity=0.220 Sum_probs=39.9
Q ss_pred CCCCHHHHHHHHHHHHHhhhcccCCCCeEEEEEEEeCCCcEEEcCHHHHHHHHHHhh-ccC
Q 029560 132 PAFTFQETVQTAISTLQSVLQEDFKASEIEVGVVSKENPEFRVLSIEEIDEHLTAIS-ERD 191 (191)
Q Consensus 132 ~~~s~eea~~l~~~~l~~~~~~d~~~~~iei~iv~~~~~~~~~~~~~~i~~~~~~~~-~~~ 191 (191)
+..|.++..+.+++..... ....|.|.+++.+|.-+.+-+.+|++.-+.=+. +||
T Consensus 18 ~~~s~e~L~~~v~~~c~~~-----~~q~ft~kw~DEEGDp~tiSS~~EL~EA~rl~~~n~~ 73 (83)
T cd06404 18 PSISLEELCNEVRDMCRFH-----NDQPFTLKWIDEEGDPCTISSQMELEEAFRLYELNKD 73 (83)
T ss_pred CCcCHHHHHHHHHHHhCCC-----CCCcEEEEEECCCCCceeecCHHHHHHHHHHHHhcCc
Confidence 5688888888876665442 234799999999987688888889887665443 443
No 54
>COG4079 Uncharacterized protein conserved in archaea [Function unknown]
Probab=68.17 E-value=16 Score=29.47 Aligned_cols=64 Identities=17% Similarity=0.223 Sum_probs=45.7
Q ss_pred HHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhccc-CCCCeEEEEEEEeCCCcEEEcCHHHHHHH
Q 029560 118 QEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQED-FKASEIEVGVVSKENPEFRVLSIEEIDEH 183 (191)
Q Consensus 118 ~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~d-~~~~~iei~iv~~~~~~~~~~~~~~i~~~ 183 (191)
+.+..+|.+.| .+.++++++.+....+|..+.... ..+..+.+..+.+.-..+..+-..+|+.+
T Consensus 132 e~aneflk~~l--~~k~~lqd~~dal~elfe~vss~tpsVskeydiy~vs~~~d~~~rl~kkDie~L 196 (293)
T COG4079 132 EVANEFLKDNL--TKKSKLQDAVDALMELFETVSSKTPSVSKEYDIYQVSSNVDPVLRLVKKDIETL 196 (293)
T ss_pred HHHHHHHHhhc--cCCCCHHHHHHHHHHHHHHhhcCCCcccceeEEEEecCCcCHHHHHHHHHHHHH
Confidence 45677888888 477999999999999998887443 34568999988865322555555655544
No 55
>PF07499 RuvA_C: RuvA, C-terminal domain; InterPro: IPR011114 In prokaryotes, RuvA, RuvB, and RuvC process the universal DNA intermediate of homologous recombination, termed Holliday junction. The tetrameric DNA helicase RuvA specifically binds to the Holliday junction and facilitates the isomerization of the junction from the stacked folded configuration to the square-planar structure []. In the RuvA tetramer, each subunit consists of three domains, I, II and III, where I and II form the major core that is responsible for Holliday junction binding and base pair rearrangements of Holliday junction executed at the crossover point, whereas domain III regulates branch migration through direct contact with RuvB. The domain represents the C-terminal domain III of RuvA. This domain plays a significant role in the ATP-dependent branch migration of the hetero-duplex through direct contact with RuvB []. Within the Holliday junction, this domain makes no interaction with the DNA.; GO: 0005524 ATP binding, 0009378 four-way junction helicase activity, 0006281 DNA repair, 0006310 DNA recombination, 0009379 Holliday junction helicase complex; PDB: 1HJP_A 1CUK_A 1C7Y_A 1IXS_A 1IXR_B 1BVS_E 2ZTC_A 2ZTD_B 2H5X_A.
Probab=66.42 E-value=4.7 Score=23.56 Aligned_cols=34 Identities=24% Similarity=0.406 Sum_probs=25.7
Q ss_pred ecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 029560 112 SAGLKEQEAINFLEKKMKNDPAFTFQETVQTAIST 146 (191)
Q Consensus 112 a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~ 146 (191)
+.|+....+...+.+... .++++.++.++.+++.
T Consensus 12 ~LGy~~~e~~~av~~~~~-~~~~~~e~~ik~aLk~ 45 (47)
T PF07499_consen 12 SLGYSKAEAQKAVSKLLE-KPGMDVEELIKQALKL 45 (47)
T ss_dssp HTTS-HHHHHHHHHHHHH-STTS-HHHHHHHHHCC
T ss_pred HcCCCHHHHHHHHHHhhc-CCCCCHHHHHHHHHhh
Confidence 568999999999998864 5889999988877653
No 56
>PRK08868 flagellar protein FlaG; Provisional
Probab=63.33 E-value=46 Score=24.56 Aligned_cols=33 Identities=21% Similarity=0.187 Sum_probs=26.4
Q ss_pred CCeEEEEEEEeCCC-cEEEcCHHHHHHHHHHhhc
Q 029560 157 ASEIEVGVVSKENP-EFRVLSIEEIDEHLTAISE 189 (191)
Q Consensus 157 ~~~iei~iv~~~~~-~~~~~~~~~i~~~~~~~~~ 189 (191)
++.+-|.|++++++ -++.++++++-++..+|.+
T Consensus 99 tgr~VVkViD~~T~EVIRQIP~Ee~L~la~~l~e 132 (144)
T PRK08868 99 SGRDVVTIYEASTGDIIRQIPDEEMLEVLRRLAE 132 (144)
T ss_pred CCCEEEEEEECCCCceeeeCCCHHHHHHHHHHHH
Confidence 34677999997654 4789999999999988764
No 57
>PF00178 Ets: Ets-domain; InterPro: IPR000418 Transcription factors are protein molecules that bind to specific DNA sequences in the genome, resulting in the induction or inhibition of gene transcription []. The ets oncogene is such a factor, possessing a region of 85-90 amino acids known as the ETS (erythroblast transformation specific) domain [, , ]. This domain is rich in positively-charged and aromatic residues, and binds to purine-rich segments of DNA. The ETS domain has been identified in other transcription factors such as PU.1, human erg, human elf-1, human elk-1, GA binding protein, and a number of others [, , ]. It is generally localized at the C terminus of the protein, with the exception of ELF-1, ELK-1, ELK-3, ELK-4 and ERF where it is found at the N terminus. NMR-analysis of the structure of the Ets domains revealed that it contains three alpha-helixes (1-3) and four-stranded beta-sheets (1-4) arranged in the order alpha1-beta1-beta2-alpha2-alpha3-beta3-beta4 forming a winged helix-turn-helix (wHTH) topology []. The third alpha-helix is responsive to contact to the major groove of the DNA. Different members of the Ets family proteins display distinct DNA binding specificities. The Ets domains and the flanking amino acid sequences of the proteins influence the binding affinity, and the alteration of a single amino acid in the Ets domain can change its DNA binding specificities. Avian leukemia virus E26 is a replication defective retrovirus that induces a mixed erythroid/myeloid leukemia in chickens.This virus carries two distinct oncogenes: v-myb and v-ets. The ets portion of this oncogene is required for the induction of erythroblastosis. V-ets and c-ets-1, its cellular progenitor, have been shown [] to be nuclear DNA-binding proteins. Ets-1 differs slightly from v-ets at its carboxy-terminal region. In most species where it has been sequenced, c-ets-1 exists in various isoforms generated by alternative splicing and differential phosphorylation.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0043565 sequence-specific DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1DUX_F 4AVP_B 1HBX_G 1BC7_C 1K6O_A 1BC8_C 1PUE_E 1FLI_A 2DAO_A 1WWX_A ....
Probab=61.78 E-value=20 Score=23.94 Aligned_cols=27 Identities=15% Similarity=0.255 Sum_probs=22.2
Q ss_pred EEEEEeCCCcEEEcCHHHHHHHHHHhh
Q 029560 162 VGVVSKENPEFRVLSIEEIDEHLTAIS 188 (191)
Q Consensus 162 i~iv~~~~~~~~~~~~~~i~~~~~~~~ 188 (191)
|.+.++++..|+.++|++|..+...-.
T Consensus 21 I~Wt~~~~~eFki~d~~~vA~lWG~~k 47 (85)
T PF00178_consen 21 IAWTGKRGGEFKIVDPEAVARLWGKHK 47 (85)
T ss_dssp EEEEETSTTEEEESSHHHHHHHHHHHT
T ss_pred eEeeccCCCeEEecCHHHHHHHHHHHc
Confidence 677887777899999999998876543
No 58
>smart00413 ETS erythroblast transformation specific domain. variation of the helix-turn-helix motif
Probab=54.67 E-value=20 Score=24.08 Aligned_cols=27 Identities=15% Similarity=0.254 Sum_probs=21.9
Q ss_pred EEEEEEeCCCcEEEcCHHHHHHHHHHh
Q 029560 161 EVGVVSKENPEFRVLSIEEIDEHLTAI 187 (191)
Q Consensus 161 ei~iv~~~~~~~~~~~~~~i~~~~~~~ 187 (191)
-|.+.+++++.|+.+++++|..+...-
T Consensus 20 ~I~W~~k~~g~Fkl~~~~~vA~lWG~~ 46 (87)
T smart00413 20 IIRWTDRDGGEFKLVDPEEVARLWGQR 46 (87)
T ss_pred eEEeeCCCCCEEEecCHHHHHHHHhhh
Confidence 477888776689999999999987543
No 59
>PRK07738 flagellar protein FlaG; Provisional
Probab=54.47 E-value=76 Score=22.56 Aligned_cols=32 Identities=19% Similarity=0.210 Sum_probs=25.8
Q ss_pred CCeEEEEEEEeCCC-cEEEcCHHHHHHHHHHhh
Q 029560 157 ASEIEVGVVSKENP-EFRVLSIEEIDEHLTAIS 188 (191)
Q Consensus 157 ~~~iei~iv~~~~~-~~~~~~~~~i~~~~~~~~ 188 (191)
++.+-|.|++++++ -++.++|+++-.++.++.
T Consensus 74 t~~~vVkVvD~~T~EVIRQIPpEe~L~l~~~m~ 106 (117)
T PRK07738 74 LNEYYVQVVDERTNEVIREIPPKKLLDMYAAMM 106 (117)
T ss_pred CCcEEEEEEECCCCeeeeeCCCHHHHHHHHHHH
Confidence 34688999997654 478999999999988775
No 60
>PF14804 Jag_N: Jag N-terminus; PDB: 3GKU_B.
Probab=51.10 E-value=24 Score=21.18 Aligned_cols=29 Identities=24% Similarity=0.378 Sum_probs=19.9
Q ss_pred CCCHHHHHHHHHHHHHhhhcccCCCCeEEEEEEEe
Q 029560 133 AFTFQETVQTAISTLQSVLQEDFKASEIEVGVVSK 167 (191)
Q Consensus 133 ~~s~eea~~l~~~~l~~~~~~d~~~~~iei~iv~~ 167 (191)
.-|++||++.|..-|.. ....+++-|+.+
T Consensus 4 gkt~eeAi~~A~~~l~~------~~~~~~~eVi~~ 32 (52)
T PF14804_consen 4 GKTVEEAIEKALKELGV------PREELEYEVIEE 32 (52)
T ss_dssp ESSHHHHHHHHHHHTT--------GGGEEEEEEE-
T ss_pred ECCHHHHHHHHHHHhCC------ChHHEEEEEEEc
Confidence 35899999998777644 334688888886
No 61
>PRK08452 flagellar protein FlaG; Provisional
Probab=49.84 E-value=95 Score=22.30 Aligned_cols=31 Identities=16% Similarity=0.144 Sum_probs=24.7
Q ss_pred CeEEEEEEEeCCC-cEEEcCHHHHHHHHHHhh
Q 029560 158 SEIEVGVVSKENP-EFRVLSIEEIDEHLTAIS 188 (191)
Q Consensus 158 ~~iei~iv~~~~~-~~~~~~~~~i~~~~~~~~ 188 (191)
+.+-|.|++++++ -++.+||+++-++..++.
T Consensus 82 ~~~vVkVvD~~T~eVIRqIP~Ee~L~l~~~m~ 113 (124)
T PRK08452 82 KGLVVSVKEANGGKVIREIPSKEAIELMEYMR 113 (124)
T ss_pred CcEEEEEEECCCCceeeeCCCHHHHHHHHHHH
Confidence 3578899997754 478999999988887775
No 62
>PF11211 DUF2997: Protein of unknown function (DUF2997); InterPro: IPR021375 This family of proteins has no known function.
Probab=47.63 E-value=43 Score=19.75 Aligned_cols=32 Identities=25% Similarity=0.226 Sum_probs=27.2
Q ss_pred EEECCCcceeceeeeecCCChHHHHHHHHHhh
Q 029560 97 FKCDPAGHFFGHKATSAGLKEQEAINFLEKKM 128 (191)
Q Consensus 97 y~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~ 128 (191)
|.+.|+|.+...--...|.....+...||+..
T Consensus 3 ~~I~~dG~V~~~v~G~~G~~C~~~t~~lE~~L 34 (48)
T PF11211_consen 3 FTIYPDGRVEEEVEGFKGSSCLEATAALEEAL 34 (48)
T ss_pred EEECCCcEEEEEEEeccChhHHHHHHHHHHHh
Confidence 67899999988777888999888888888765
No 63
>COG4728 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=46.72 E-value=22 Score=24.60 Aligned_cols=30 Identities=30% Similarity=0.332 Sum_probs=26.9
Q ss_pred ceEEecCcEEEEEecchHHHHHHHHHHHHH
Q 029560 13 HLFPITKYLGLLATGMTADARTLVQQARYE 42 (191)
Q Consensus 13 Ki~~i~~~i~~~~sG~~~D~~~l~~~~~~~ 42 (191)
-+|+|.+++++.+.|..+|.-.+.++++..
T Consensus 9 ~~~~i~~~~gl~~v~~~~~~s~~~~k~~~~ 38 (124)
T COG4728 9 IIFKIKDKLGLTFVSKSADMSIQVEKAERL 38 (124)
T ss_pred EEEEEhhhcCcEEEEecchhHHHHHHHHHh
Confidence 479999999999999999999998888765
No 64
>PF03928 DUF336: Domain of unknown function (DUF336); InterPro: IPR005624 This entry contains uncharacterised proteins, including GlcG P45504 from SWISSPROT. The alignment contains many conserved motifs that are suggestive of cofactor binding and enzymatic activity.; PDB: 2A2L_D 3FPW_A 3FPV_E.
Probab=45.58 E-value=25 Score=25.14 Aligned_cols=35 Identities=9% Similarity=0.251 Sum_probs=25.5
Q ss_pred CCCHHHHHHHHHHHHHhhhcccCCCCeEEEEEEEeCCC
Q 029560 133 AFTFQETVQTAISTLQSVLQEDFKASEIEVGVVSKENP 170 (191)
Q Consensus 133 ~~s~eea~~l~~~~l~~~~~~d~~~~~iei~iv~~~~~ 170 (191)
.+|.++|.+++..++..+.++.. .+-|+|++..|.
T Consensus 2 ~l~~~~A~~l~~~a~~~a~~~g~---~v~iaVvd~~G~ 36 (132)
T PF03928_consen 2 SLTLEDAWKLGDAAVEEARERGL---PVSIAVVDAGGH 36 (132)
T ss_dssp EE-HHHHHHHHHHHHHHHHHTT------EEEEEETTS-
T ss_pred CcCHHHHHHHHHHHHHHHHHhCC---CeEEEEEECCCC
Confidence 47899999999999999986533 388888998763
No 65
>PRK02260 S-ribosylhomocysteinase; Provisional
Probab=44.96 E-value=1.2e+02 Score=22.71 Aligned_cols=62 Identities=15% Similarity=0.214 Sum_probs=47.6
Q ss_pred CCCeEEEECCCcceeceeeeecC-CChHHHHHHHHHhhcC------------------CCCCCHHHHHHHHHHHHHhhhc
Q 029560 92 CGPRLFKCDPAGHFFGHKATSAG-LKEQEAINFLEKKMKN------------------DPAFTFQETVQTAISTLQSVLQ 152 (191)
Q Consensus 92 ~~p~Ly~~d~~G~~~~~~~~a~G-~gs~~~~~~Le~~~~~------------------~~~~s~eea~~l~~~~l~~~~~ 152 (191)
++-.+..+.|-|+...+.....| ..++.+...+++.+++ ..++|++.|.+.|.+-|.....
T Consensus 70 ~~~~iI~~sPMGCrTGFYli~~g~~~~~~i~~l~~~~l~~i~~~~~eVPga~~~~CGny~~hsL~~Ak~~a~~~L~~~~~ 149 (158)
T PRK02260 70 GGVEIIDISPMGCRTGFYLILIGTPDEEDVADALKATLEDVLDDQEEVPGANEYQCGNYKDHSLEGAKEIARKILDQGIS 149 (158)
T ss_pred CCceEEEECCCccccccEEEEeCCCCHHHHHHHHHHHHHHHHhhcCCCCCCChhcCCChhhCCHHHHHHHHHHHHHhhcc
Confidence 34568889999999999988889 7777777776655331 2478999999999999877654
Q ss_pred c
Q 029560 153 E 153 (191)
Q Consensus 153 ~ 153 (191)
.
T Consensus 150 ~ 150 (158)
T PRK02260 150 V 150 (158)
T ss_pred c
Confidence 3
No 66
>COG4245 TerY Uncharacterized protein encoded in toxicity protection region of plasmid R478, contains von Willebrand factor (vWF) domain [General function prediction only]
Probab=44.83 E-value=57 Score=25.36 Aligned_cols=46 Identities=15% Similarity=0.285 Sum_probs=31.4
Q ss_pred HHHHHHHHHHHhhhcccCCCC-eEEEEEEEeCCCcEEEcCHHHHHHH
Q 029560 138 ETVQTAISTLQSVLQEDFKAS-EIEVGVVSKENPEFRVLSIEEIDEH 183 (191)
Q Consensus 138 ea~~l~~~~l~~~~~~d~~~~-~iei~iv~~~~~~~~~~~~~~i~~~ 183 (191)
|++...++.|...+..|..+- .++|+|||-+++-..+.+--++.+|
T Consensus 22 ealN~Glq~m~~~Lkqdp~Ale~v~lsIVTF~~~a~~~~pf~~~~nF 68 (207)
T COG4245 22 EALNAGLQMMIDTLKQDPYALERVELSIVTFGGPARVIQPFTDAANF 68 (207)
T ss_pred HHHHHHHHHHHHHHHhChhhhheeEEEEEEecCcceEEechhhHhhc
Confidence 667777777777777777764 7999999988753334444455544
No 67
>PF10632 He_PIG_assoc: He_PIG associated, NEW1 domain of bacterial glycohydrolase; InterPro: IPR019599 This domain has been named NEW1 but its actual function is not known. It is found on proteins which are bacterial galactosidases []. The domain is associated with IPR008009 from INTERPRO, a putative Ig-containing domain.
Probab=43.68 E-value=33 Score=17.98 Aligned_cols=23 Identities=22% Similarity=0.286 Sum_probs=17.6
Q ss_pred ceeEEEEEcCCCCCeEEEECCCcc
Q 029560 81 VVAMVLSIDEECGPRLFKCDPAGH 104 (191)
Q Consensus 81 v~~iv~G~d~~~~p~Ly~~d~~G~ 104 (191)
.+..|.|.-+ +.|+||.+-.+|.
T Consensus 4 N~~~v~G~rP-g~pfl~~IpatG~ 26 (29)
T PF10632_consen 4 NSPRVFGARP-GSPFLFTIPATGE 26 (29)
T ss_pred ccCcEEcccC-CCcEEEEeeccCc
Confidence 3456677777 7799999988885
No 68
>PRK09732 hypothetical protein; Provisional
Probab=40.73 E-value=76 Score=23.05 Aligned_cols=36 Identities=6% Similarity=0.062 Sum_probs=29.9
Q ss_pred CCCCHHHHHHHHHHHHHhhhcccCCCCeEEEEEEEeCCC
Q 029560 132 PAFTFQETVQTAISTLQSVLQEDFKASEIEVGVVSKENP 170 (191)
Q Consensus 132 ~~~s~eea~~l~~~~l~~~~~~d~~~~~iei~iv~~~~~ 170 (191)
+.||++.|.+++..++..+.+.. ..+.|+|+|..|.
T Consensus 5 ~~Ltl~~A~~~~~aA~~~A~~~g---~~v~iaVvD~~G~ 40 (134)
T PRK09732 5 VILSQQMASAIIAAGQEEAQKNN---WSVSIAVADDGGH 40 (134)
T ss_pred ccCCHHHHHHHHHHHHHHHHHhC---CCEEEEEEcCCCC
Confidence 56999999999999999987542 2699999998874
No 69
>KOG3806 consensus Predicted transcription factor [Transcription]
Probab=37.10 E-value=50 Score=25.22 Aligned_cols=25 Identities=20% Similarity=0.380 Sum_probs=20.3
Q ss_pred EEEEEeCCCcEEEcCHHHHHHHHHH
Q 029560 162 VGVVSKENPEFRVLSIEEIDEHLTA 186 (191)
Q Consensus 162 i~iv~~~~~~~~~~~~~~i~~~~~~ 186 (191)
|++..++|.+|+.++|+||..++..
T Consensus 88 I~Wtg~~g~EFkl~dp~eVArlWG~ 112 (177)
T KOG3806|consen 88 IAWTGKDGLEFKLVDPDEVARLWGA 112 (177)
T ss_pred eEEeCCCCceEEecCHHHHHHHHhh
Confidence 5666667768999999999998754
No 70
>COG1334 FlaG Uncharacterized flagellar protein FlaG [Cell motility and secretion]
Probab=36.78 E-value=1.6e+02 Score=21.08 Aligned_cols=32 Identities=22% Similarity=0.309 Sum_probs=25.4
Q ss_pred CeEEEEEEEeCCC-cEEEcCHHHHHHHHHHhhc
Q 029560 158 SEIEVGVVSKENP-EFRVLSIEEIDEHLTAISE 189 (191)
Q Consensus 158 ~~iei~iv~~~~~-~~~~~~~~~i~~~~~~~~~ 189 (191)
+.+-|.|++++++ -++.+||+++-.+..++.+
T Consensus 78 g~~vVkI~d~~TgeVIRqIPpee~L~l~~r~~d 110 (120)
T COG1334 78 GELVVKIIDKDTGEVIRQIPPEEALELAARMRD 110 (120)
T ss_pred CcEEEEEEECCCCcchhhCChHHHHHHHHHHHH
Confidence 4577889998875 3678999999988887753
No 71
>PF06057 VirJ: Bacterial virulence protein (VirJ); InterPro: IPR010333 This entry contains several bacterial VirJ virulence proteins. VirJ is thought to be involved in the type IV secretion system. It is thought that the substrate proteins localised to the periplasm may associate with the pilus in a manner that is mediated by VirJ, and suggest a two-step process for type IV secretion in Agrobacterium [].
Probab=36.15 E-value=62 Score=25.11 Aligned_cols=34 Identities=12% Similarity=0.044 Sum_probs=27.8
Q ss_pred CCCCHHHHHHHHHHHHHHhhhhcCcccccceeEEEEEc
Q 029560 52 YEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSID 89 (191)
Q Consensus 52 ~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~iv~G~d 89 (191)
..-+|+..+..|+++++.|.++++.+.+ +++||.
T Consensus 43 ~~rtP~~~a~Dl~~~i~~y~~~w~~~~v----vLiGYS 76 (192)
T PF06057_consen 43 SERTPEQTAADLARIIRHYRARWGRKRV----VLIGYS 76 (192)
T ss_pred hhCCHHHHHHHHHHHHHHHHHHhCCceE----EEEeec
Confidence 4668899999999999999988776544 778885
No 72
>PF01242 PTPS: 6-pyruvoyl tetrahydropterin synthase; InterPro: IPR007115 The complex organic chemistry involved in the transformation of GTP to tetrahydrobiopterin is catalysed by only three enzymes: GTP cyclohydrolase I, 6-pyruvoyltetrahydropterin synthase and sepiapterin reductase. Tetrahydrobiopterin is the cofactor for several aromatic amino acid monooxygenases and the nitric oxide synthases. 6-Pyruvoyl tetrahydropterin synthase (PTPS) [] is a Zn-dependent metalloprotein, transforms dihydroneopterin triphosphate into 6-pyruvoyltetrahydropterin in the presence of Mg(II) and for which the crystal structure is known. The enzyme is a homohexameric, composed of a dimer of trimers. A transition metal binding site formed by the three histidine residues 23, 48 and 50 is present in each subunit, and bound Zn(II) is responsible for the enzymatic activity. Site-directed mutagenesis of each of these three histidine residues results in a complete loss of metal binding and enzymatic activity [, ]. The function of the bacterial branch of the sequence lineage appears not to have been established.; GO: 0003874 6-pyruvoyltetrahydropterin synthase activity, 0046872 metal ion binding, 0006729 tetrahydrobiopterin biosynthetic process; PDB: 3QNA_E 3QN9_A 3QN0_B 1Y13_C 3D7J_A 3I2B_J 2OBA_D 3M0N_A 2A0S_A 3LZE_A ....
Probab=35.28 E-value=68 Score=22.46 Aligned_cols=46 Identities=20% Similarity=0.279 Sum_probs=29.4
Q ss_pred ecchHHHHHHHHHHHHHHHHHHHHhC---C-------CCCHHHHHHHHHHHHHHhh
Q 029560 26 TGMTADARTLVQQARYEAAEFRFKYG---Y-------EMPVDVLAKWIADKSQVYT 71 (191)
Q Consensus 26 sG~~~D~~~l~~~~~~~~~~~~~~~~---~-------~~~~~~l~~~l~~~~~~~t 71 (191)
.|..-|+..+.+.++..+..+-..+= . .+|++.+|.++.+.+....
T Consensus 43 ~g~v~DF~~lk~~~~~i~~~lDh~~Ln~~~~~~~~~~~pT~E~lA~~i~~~l~~~l 98 (123)
T PF01242_consen 43 DGMVVDFGDLKKIIKEIDDQLDHKFLNEDDPEFDDINNPTAENLARWIFERLKEKL 98 (123)
T ss_dssp TSSSS-HHHHHHHHHHHHHHHTTEEGGHHSGCGCSSTS--HHHHHHHHHHHHHHHH
T ss_pred CCEEEEHHHHHHHHHHHHHHhCcccccCCChhhhccCCCCHHHHHHHHHHHHHHHh
Confidence 46677888888888875554432221 1 1789999999999986553
No 73
>PF04539 Sigma70_r3: Sigma-70 region 3; InterPro: IPR007624 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. Region 3 forms a discrete compact three helical domain within the sigma-factor. Region is not normally involved in the recognition of promoter DNA, but in some specific bacterial promoters containing an extended -10 promoter element, residues within region 3 play an important role. Region 3 primarily is involved in binding the core RNA polymerase in the holoenzyme [].; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1L0O_C 1KU2_B 1RP3_C 1SC5_A 1TTY_A 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P ....
Probab=34.60 E-value=97 Score=19.48 Aligned_cols=32 Identities=13% Similarity=0.114 Sum_probs=21.7
Q ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Q 029560 36 VQQARYEAAEFRFKYGYEMPVDVLAKWIADKS 67 (191)
Q Consensus 36 ~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 67 (191)
.+++++-........|++++.+.+|..+.--.
T Consensus 3 l~~i~~a~~~L~~~lgr~Pt~eEiA~~lgis~ 34 (78)
T PF04539_consen 3 LRKIERARRELEQELGREPTDEEIAEELGISV 34 (78)
T ss_dssp HHHHHHHHHHHHHHHSS--BHHHHHHHHTS-H
T ss_pred HHHHHHHHHHHHHHhCCCCCHHHHHHHHcccH
Confidence 44566666677788999999999999865433
No 74
>PRK14603 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=33.40 E-value=67 Score=24.92 Aligned_cols=38 Identities=16% Similarity=0.337 Sum_probs=29.5
Q ss_pred eeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 029560 110 ATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTL 147 (191)
Q Consensus 110 ~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l 147 (191)
-.+.|.....+...+.+.....++++.+|.++.|++.|
T Consensus 159 L~~LGy~~~ea~~al~~i~~~~~~~~~e~lir~aLk~l 196 (197)
T PRK14603 159 LLALGFREAQVRSVVAELLAQNPEASAQTLIRKALKRL 196 (197)
T ss_pred HHHcCCCHHHHHHHHHHHHhcCCCCCHHHHHHHHHHhc
Confidence 35679999999999988753345788898888888765
No 75
>COG3193 GlcG Uncharacterized protein, possibly involved in utilization of glycolate and propanediol [General function prediction only]
Probab=32.67 E-value=1.1e+02 Score=22.50 Aligned_cols=37 Identities=14% Similarity=0.214 Sum_probs=30.5
Q ss_pred CCCCCHHHHHHHHHHHHHhhhcccCCCCeEEEEEEEeCCC
Q 029560 131 DPAFTFQETVQTAISTLQSVLQEDFKASEIEVGVVSKENP 170 (191)
Q Consensus 131 ~~~~s~eea~~l~~~~l~~~~~~d~~~~~iei~iv~~~~~ 170 (191)
.+.+|+++|.+++..++..+.+. -..+.++++|..|.
T Consensus 5 ~~~Ls~e~a~~ii~aA~a~a~~~---g~~VtvaVVD~~G~ 41 (141)
T COG3193 5 KPVLSLELANKIIAAAVAEAQQL---GVPVTVAVVDAGGH 41 (141)
T ss_pred ccccCHHHHHHHHHHHHHHHHHh---CCceEEEEECCCCC
Confidence 47899999999999999998743 23799999998873
No 76
>COG0822 IscU NifU homolog involved in Fe-S cluster formation [Energy production and conversion]
Probab=32.13 E-value=2.1e+02 Score=21.14 Aligned_cols=88 Identities=11% Similarity=0.081 Sum_probs=50.0
Q ss_pred EECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhh--cccCCC--CeEEEEE---EEeCCC
Q 029560 98 KCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVL--QEDFKA--SEIEVGV---VSKENP 170 (191)
Q Consensus 98 ~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~--~~d~~~--~~iei~i---v~~~~~ 170 (191)
.+| .|.+....+-..|.+...|-+-+=..+ -.+.|++||+++.......+. ..+... +.+.+.. ..+...
T Consensus 48 kv~-~~~I~d~~F~~~GC~is~ASss~~te~--v~Gkti~EAl~i~~~~~~m~~~~~~~~~~~l~d~~~l~~v~~~p~r~ 124 (150)
T COG0822 48 KVD-NGVIEDAKFKGFGCAISIASSSMMTEL--VKGKTLDEALKITEAFTDMAKELGGDPDDRLGDLVALAGVALPPARI 124 (150)
T ss_pred EEc-CCEEEEEEeeecCcHHHHHHHHHHHHH--HcCCCHHHHHHHHHHHHHHHHHcCCCccchhhhhHhhhhhccccccc
Confidence 455 777777788888877776655554443 367999999999944444433 321111 1111110 112222
Q ss_pred cEEEcCHHHHHHHHHHhh
Q 029560 171 EFRVLSIEEIDEHLTAIS 188 (191)
Q Consensus 171 ~~~~~~~~~i~~~~~~~~ 188 (191)
.+-.+..+-++.-+.++.
T Consensus 125 ~C~~L~~~al~~ai~~~~ 142 (150)
T COG0822 125 KCSLLAWDALKAAIKDYK 142 (150)
T ss_pred cchhccHHHHHHHHHHhh
Confidence 345677777776666654
No 77
>PF08529 NusA_N: NusA N-terminal domain; InterPro: IPR013735 This entry represents the N-terminal RNA polymerase-binding domain of bacterial transcription factors such as NusA (N-utilising substance A). NusA is involved in transcriptional pausing, termination and anti-termination. NusA from Thermotoga maritima contains an N-terminal domain and three RNA-binding domains (one S1 domain and two KH domains). The N-terminal domain consists of a bifurcated coiled beta-sheet within an alpha/beta(3)/alpha/beta/alpha fold, which can be divided into two subdomains: a globular head and a helical body. The globular head subdomain may interact with RNA polymerase, while the helical body displays a similar structure to that of the helical domain in sigma70 [].; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0031554 regulation of transcription termination, DNA-dependent; PDB: 1K0R_B 1HH2_P 1L2F_A 2KWP_A.
Probab=31.35 E-value=1.9e+02 Score=20.36 Aligned_cols=43 Identities=12% Similarity=0.292 Sum_probs=30.6
Q ss_pred CCCCCHHHHHHHHHHHHHhhhcccCCCC-eEEEEEEEeCCCcEEE
Q 029560 131 DPAFTFQETVQTAISTLQSVLQEDFKAS-EIEVGVVSKENPEFRV 174 (191)
Q Consensus 131 ~~~~s~eea~~l~~~~l~~~~~~d~~~~-~iei~iv~~~~~~~~~ 174 (191)
..+++.+..++....+|..+..+...+. +++|. ++.+++.++.
T Consensus 12 ek~i~~e~v~~ale~al~~a~kK~~~~~~~~~v~-id~~~g~i~v 55 (122)
T PF08529_consen 12 EKGIDKEVVIEALEEALIKAYKKKYGPEANIRVE-IDEDTGEIKV 55 (122)
T ss_dssp CCTB-HHHHHHHHHHHHHHHHHCCTTSSSSEEEE-EETTTTEEEE
T ss_pred HhCcCHHHHHHHHHHHHHHHHHHhhCCCCCEEEE-EECCCCeEEE
Confidence 5689999999999999999998776544 66665 4544444443
No 78
>PRK14602 ruvA Holliday junction DNA helicase RuvA; Provisional
Probab=30.94 E-value=99 Score=24.07 Aligned_cols=39 Identities=21% Similarity=0.401 Sum_probs=30.9
Q ss_pred eeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHH
Q 029560 110 ATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQ 148 (191)
Q Consensus 110 ~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~ 148 (191)
-.+.|.....+...+.+.....++++.+|.++.|++.|.
T Consensus 162 L~~LGy~~~ea~~av~~~~~~~~~~~~e~lir~ALk~l~ 200 (203)
T PRK14602 162 LANLGYGEEEARPVLKEVLEEEPDLDVGGALRAALKALA 200 (203)
T ss_pred HHHcCCCHHHHHHHHHHHhhcCCCCCHHHHHHHHHHHhc
Confidence 456799999999999987533468899988888888763
No 79
>PF05593 RHS_repeat: RHS Repeat; InterPro: IPR006530 These sequences contain two tandem copies of a 21-residue extracellular repeat that is found in Gram-negative, Gram-positive, and animal proteins. The repeat is named for a YD dipeptide, the most strongly conserved motif of the repeat. These repeats appear in general to be involved in binding carbohydrate; the chicken teneurin-1 YD-repeat region has been shown to bind heparin [, , ].
Probab=30.72 E-value=78 Score=17.21 Aligned_cols=20 Identities=25% Similarity=0.187 Sum_probs=10.0
Q ss_pred eEEEECCCcceeceeeeecC
Q 029560 95 RLFKCDPAGHFFGHKATSAG 114 (191)
Q Consensus 95 ~Ly~~d~~G~~~~~~~~a~G 114 (191)
-+-.+||.|....+.+-+.|
T Consensus 7 l~~~~d~~G~~~~y~YD~~g 26 (38)
T PF05593_consen 7 LTSVTDPDGRTTRYTYDAAG 26 (38)
T ss_pred EEEEEcCCCCEEEEEECCCC
Confidence 34444555555555444444
No 80
>PF00564 PB1: PB1 domain; InterPro: IPR000270 The Phox and Bem1p domain, is present in many eukaryotic cytoplasmic signalling proteins. The domain adopts a beta-grasp fold, similar to that found in ubiquitin and Ras-binding domains. A motif, variously termed OPR, PC and AID, represents the most conserved region of the majority of PB1 domains, and is necessary for PB1 domain function. This function is the formation of PB1 domain heterodimers, although not all PB1 domain pairs associate.; GO: 0005515 protein binding; PDB: 1IPG_A 1IP9_A 2KFK_A 1WMH_A 1VD2_A 1WI0_A 1OEY_C 1PQS_A 1Q1O_A 1TZ1_A ....
Probab=30.44 E-value=1.5e+02 Score=18.82 Aligned_cols=51 Identities=8% Similarity=0.169 Sum_probs=37.8
Q ss_pred CCCCHHHHHHHHHHHHHhhhcccCCCCeEEEEEEEeCCCcEEEcCHHHHHHHHHHhh
Q 029560 132 PAFTFQETVQTAISTLQSVLQEDFKASEIEVGVVSKENPEFRVLSIEEIDEHLTAIS 188 (191)
Q Consensus 132 ~~~s~eea~~l~~~~l~~~~~~d~~~~~iei~iv~~~~~~~~~~~~~~i~~~~~~~~ 188 (191)
.++|.++....+...+... ...+.+...+.+|..+.+.+.+++...++...
T Consensus 20 ~~~s~~~L~~~i~~~~~~~------~~~~~l~Y~D~dgD~V~i~sd~Dl~~a~~~~~ 70 (84)
T PF00564_consen 20 SDVSFDDLRSKIREKFGLL------DEDFQLKYKDEDGDLVTISSDEDLQEAIEQAK 70 (84)
T ss_dssp STSHHHHHHHHHHHHHTTS------TSSEEEEEEETTSSEEEESSHHHHHHHHHHHH
T ss_pred CCCCHHHHHHHHHHHhCCC------CccEEEEeeCCCCCEEEeCCHHHHHHHHHHHH
Confidence 4567777777776665443 45799999999987677777888988887654
No 81
>PF03681 UPF0150: Uncharacterised protein family (UPF0150); InterPro: IPR005357 This family of small proteins is uncharacterised. In Q9A3L8 from SWISSPROT this domain is found next to a DNA binding helix-turn-helix domain IPR002145 from INTERPRO, which suggests that this is some kind of ligand binding domain.; PDB: 2DSY_C 2YZT_A 3KWR_A.
Probab=30.27 E-value=62 Score=18.52 Aligned_cols=18 Identities=28% Similarity=0.298 Sum_probs=13.0
Q ss_pred CCHHHHHHHHHHHHHhhh
Q 029560 134 FTFQETVQTAISTLQSVL 151 (191)
Q Consensus 134 ~s~eea~~l~~~~l~~~~ 151 (191)
-|++||++.+..+|....
T Consensus 29 ~t~eea~~~~~eal~~~l 46 (48)
T PF03681_consen 29 DTLEEALENAKEALELWL 46 (48)
T ss_dssp SSHHHHHHHHHHHHHHHC
T ss_pred CCHHHHHHHHHHHHHHHh
Confidence 377788888888776654
No 82
>PHA03324 nuclear egress membrane protein UL34; Provisional
Probab=30.02 E-value=59 Score=25.74 Aligned_cols=68 Identities=12% Similarity=0.101 Sum_probs=41.0
Q ss_pred hCCCCCHHHHHHHHHHHHHHhhhhcCcccccceeEEEEEcCC--C-CCeEEEECCCcceeceeeeecCCChH
Q 029560 50 YGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEE--C-GPRLFKCDPAGHFFGHKATSAGLKEQ 118 (191)
Q Consensus 50 ~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~iv~G~d~~--~-~p~Ly~~d~~G~~~~~~~~a~G~gs~ 118 (191)
.|-++|++++.+.+++.++.-.-+-+..-=|+++|+.|+=.. + +-..+..| .-++.-...-++|-...
T Consensus 49 dgp~fP~EYILrlM~swa~v~dpylRIQNTGvSVLfqG~Ftrp~~ap~~a~ta~-~nnViLaSt~StglSlS 119 (274)
T PHA03324 49 DGPPIPAEYILEAMNSFLNIGEAWLRIQNTGQAVIVAGCFTKNAHCGDQIWEAP-APTISLAAAKSLWVSAS 119 (274)
T ss_pred cCCCCcHHHHHHHHHhhhcCCCceEEEecCceEEEEEeeecCCCCCCcceeecC-CCceEeeechhccccHH
Confidence 688899999999999988643222333345899999999542 1 12233333 22333334455665443
No 83
>cd06402 PB1_p62 The PB1 domain is an essential part of p62 scaffold protein (alias sequestosome 1,SQSTM) involved in cell signaling, receptor internalization, and protein turnover. The PB1 domain is a modular domain mediating specific protein-protein interaction which play roles in many critical cell processes. A canonical PB1-PB1 interaction, which involves heterodimerization of two PB1 domains, is required for the formation of macromolecular signaling complexes ensuring specificity and fidelity during cellular signaling. The interaction between two PB1 domain depends on the type of PB1. There are three types of PB1 domains: type I which contains an OPCA motif, acidic aminoacid cluster, type II which contains a basic cluster, and type I/II which contains both an OPCA motif and a basic cluster. Interactions of PB1 domains with other protein domains have been described as noncanonical PB1-interactions. The PB1 domain module is conserved in amoebas, fungi, animals, and plants.
Probab=29.34 E-value=1.8e+02 Score=19.48 Aligned_cols=50 Identities=14% Similarity=0.157 Sum_probs=36.3
Q ss_pred CCCHHHHHHHHHHHHHhhhcccCCCCeEEEEEEEeCCCcEEEcCHHHHHHHHHHh
Q 029560 133 AFTFQETVQTAISTLQSVLQEDFKASEIEVGVVSKENPEFRVLSIEEIDEHLTAI 187 (191)
Q Consensus 133 ~~s~eea~~l~~~~l~~~~~~d~~~~~iei~iv~~~~~~~~~~~~~~i~~~~~~~ 187 (191)
..|.++..+.+.+.+.. +....|.|.+.+.+|.-+.+-+.+|+..-+..+
T Consensus 26 ~~s~~~L~~~V~~~f~~-----l~~~~ftlky~DeeGDlvtIssdeEL~~A~~~~ 75 (87)
T cd06402 26 STSYEYLVEKVAAVFPS-----LRGKNFQLFWKDEEGDLVAFSSDEELVMALGSL 75 (87)
T ss_pred CcCHHHHHHHHHHHccc-----cCCCcEEEEEECCCCCEEeecCHHHHHHHHHcC
Confidence 46677777776555432 223589999999999878888888988776654
No 84
>PF06018 CodY: CodY GAF-like domain; InterPro: IPR010312 This family consists of several bacterial GTP-sensing transcriptional pleiotropic repressor CodY proteins. CodY has been found to repress the dipeptide transport operon (dpp) of Bacillus subtilis in nutrient-rich conditions []. The CodY protein also has a repressor effect on many genes in Lactococcus lactis during growth in milk [].; GO: 0003677 DNA binding, 0005525 GTP binding; PDB: 2HGV_A 2GX5_D 2B0L_C 2B18_A.
Probab=27.60 E-value=2.8e+02 Score=21.19 Aligned_cols=67 Identities=15% Similarity=0.229 Sum_probs=40.8
Q ss_pred HHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHHHHhhhhcCcccccceeEEEEEcCCCCCeEEEECCCcceeceeeeecC
Q 029560 35 LVQQARYEAAEFRFKYGYEMPVDVLAKWIADKSQVYTQHAYMRPLGVVAMVLSIDEECGPRLFKCDPAGHFFGHKATSAG 114 (191)
Q Consensus 35 l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~~~~t~~~~~rP~~v~~iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G 114 (191)
|.++.|+.-+.-+..-+.+++.+.+|..|++.+. ..+|-++..|.+..+... -+
T Consensus 2 LLeKtRkIN~lLQ~~~~~~v~F~~ia~vL~dvl~-------------------------aNvyIis~kGkiLGy~~~-~~ 55 (177)
T PF06018_consen 2 LLEKTRKINRLLQKSAGEPVDFNDIAEVLSDVLE-------------------------ANVYIISRKGKILGYSFI-DD 55 (177)
T ss_dssp HHHHHHHHHHHHHSHTTSS--HHHHHHHHHHHHT-------------------------SEEEEEETTSBEEEEE-S-S-
T ss_pred hHHHHHHHHHHHhhcCCCCCCHHHHHHHHHHhhc-------------------------CcEEEEeCCccEEEEecc-CC
Confidence 5667777666666668899999999999999882 126666666776654332 45
Q ss_pred CChHHHHHHHHHh
Q 029560 115 LKEQEAINFLEKK 127 (191)
Q Consensus 115 ~gs~~~~~~Le~~ 127 (191)
........+++..
T Consensus 56 ~~~~~~~~~~~~~ 68 (177)
T PF06018_consen 56 FECDRMEEMLEEK 68 (177)
T ss_dssp ---HHHHHHHHHT
T ss_pred CCcHHHHHHHhcC
Confidence 5555555566543
No 85
>PF01592 NifU_N: NifU-like N terminal domain; InterPro: IPR002871 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents the N-terminal of NifU and homologous proteins. NifU contains two domains: an N-terminal and a C-terminal domain (IPR001075 from INTERPRO) []. These domains exist either together or on different polypeptides, both domains being found in organisms that do not fix nitrogen (e.g. yeast), so they have a broader significance in the cell than nitrogen fixation. ; GO: 0005506 iron ion binding, 0051536 iron-sulfur cluster binding, 0016226 iron-sulfur cluster assembly; PDB: 3LVL_A 4EB5_C 4EB7_C 1WFZ_A 2Z7E_C 2AZH_A 1XJS_A 1Q48_A 1R9P_A 2KQK_A ....
Probab=27.16 E-value=2.3e+02 Score=19.98 Aligned_cols=63 Identities=17% Similarity=0.275 Sum_probs=41.8
Q ss_pred EEcCCCCCeE---EEECCC-cceeceeeeecCCChHHHH-HHHHHhhcCCCCCCHHHHHHHHHHHHHhhhc
Q 029560 87 SIDEECGPRL---FKCDPA-GHFFGHKATSAGLKEQEAI-NFLEKKMKNDPAFTFQETVQTAISTLQSVLQ 152 (191)
Q Consensus 87 G~d~~~~p~L---y~~d~~-G~~~~~~~~a~G~gs~~~~-~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~ 152 (191)
+.++.-|-.+ ..+|.. |.+....+.+.|.+...+- .++-+.. .+.|++||.++..+-+...+.
T Consensus 29 ~~n~~CGD~i~i~l~i~~~~~~I~d~~f~~~GC~~~~Asas~~~~~i---~gk~l~ea~~i~~~~i~~~l~ 96 (126)
T PF01592_consen 29 AGNPSCGDEIRIYLKIDDDGGRIKDAKFQGFGCAISIASASMMCELI---KGKTLEEALKITAEDIEEALG 96 (126)
T ss_dssp EEETTTTEEEEEEEEESSSTSBEEEEEEEEESSHHHHHHHHHHHHHH---TTSBHHHHHCHHHHHHHHHHT
T ss_pred ecCCCCCCEEEEEEEEecCCCeEEEEEEEeecChHHHHHHHHHHHHH---cCCCHHHHHHHHHHHHHHHHh
Confidence 3444345454 567887 7888889988887665554 4444443 678999998887666655553
No 86
>PRK09570 rpoH DNA-directed RNA polymerase subunit H; Reviewed
Probab=25.98 E-value=76 Score=20.91 Aligned_cols=20 Identities=35% Similarity=0.424 Sum_probs=17.4
Q ss_pred CcEEEcCHHHHHHHHHHhhc
Q 029560 170 PEFRVLSIEEIDEHLTAISE 189 (191)
Q Consensus 170 ~~~~~~~~~~i~~~~~~~~~ 189 (191)
|++..++++|.+++|.++..
T Consensus 13 PkH~iLs~eE~~~lL~~y~i 32 (79)
T PRK09570 13 PEHEILSEEEAKKLLKEYGI 32 (79)
T ss_pred CCeEECCHHHHHHHHHHcCC
Confidence 46899999999999999864
No 87
>PF12481 DUF3700: Aluminium induced protein ; InterPro: IPR024286 This entry represents a domain found in plant proteins that is approximately 120 amino acids in length. There are two conserved sequence motifs: YGL and LRDR.
Probab=25.53 E-value=3.1e+02 Score=21.88 Aligned_cols=27 Identities=19% Similarity=0.094 Sum_probs=22.4
Q ss_pred CcceEEecCcEEEEEecchHHHHHHHH
Q 029560 11 VTHLFPITKYLGLLATGMTADARTLVQ 37 (191)
Q Consensus 11 ~~Ki~~i~~~i~~~~sG~~~D~~~l~~ 37 (191)
.+|.|..-|+|+|-+.|.....-.|.+
T Consensus 67 ~pR~F~~~DdIfCiF~G~L~Nl~~L~q 93 (228)
T PF12481_consen 67 HPRLFAGVDDIFCIFLGSLENLCSLRQ 93 (228)
T ss_pred ccccccccCCEEEEEecchhhHHHHHH
Confidence 578999999999999999876666553
No 88
>KOG2201 consensus Pantothenate kinase PanK and related proteins [Coenzyme transport and metabolism]
Probab=25.29 E-value=2.2e+02 Score=24.30 Aligned_cols=56 Identities=20% Similarity=0.224 Sum_probs=45.7
Q ss_pred EEEEEcCCCCCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHH
Q 029560 84 MVLSIDEECGPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAIST 146 (191)
Q Consensus 84 iv~G~d~~~~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~ 146 (191)
|+..+- .|-++..|+..+.+.+.-.+++|.|.-.-..-|=. +.-|.||++++|.+.
T Consensus 177 LLVNIG--SGVSIlkV~~~~~feRvgGsSlGGGTf~GL~~LLT-----g~~sfdE~LelA~~G 232 (371)
T KOG2201|consen 177 LLVNIG--SGVSILKVDGPDNFERVGGSSLGGGTFLGLGSLLT-----GCKSFDELLELASRG 232 (371)
T ss_pred EEEEcC--CCeEEEEEecCCceeEecccccCCcchhhhHhHhc-----CCCCHHHHHHHHhcC
Confidence 565563 47889999999999999999999998877665543 567999999999764
No 89
>PRK12413 phosphomethylpyrimidine kinase; Provisional
Probab=24.81 E-value=1.3e+02 Score=23.64 Aligned_cols=39 Identities=13% Similarity=0.064 Sum_probs=32.8
Q ss_pred ecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcc
Q 029560 112 SAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQE 153 (191)
Q Consensus 112 a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~ 153 (191)
.+|.|..++-.++-... .+++++||++.|..++..+.+.
T Consensus 204 ~~GaGDaf~a~~~~~l~---~g~~l~ea~~~A~~~~~~~l~~ 242 (253)
T PRK12413 204 NIGAGCTFASSIASQLV---KGKSPLEAVKNSKDFVYQAIQQ 242 (253)
T ss_pred CCChHHHHHHHHHHHHH---cCCCHHHHHHHHHHHHHHHHHH
Confidence 58999999988888775 4689999999998888887754
No 90
>COG1754 Uncharacterized C-terminal domain of topoisomerase IA [General function prediction only]
Probab=24.75 E-value=44 Score=27.56 Aligned_cols=56 Identities=23% Similarity=0.264 Sum_probs=35.2
Q ss_pred EEEEcCCCC-CeEEEECCCcceeceeeeecCCC-hHHHHHHHHHhhcCCCCCCHHHHHHHHH
Q 029560 85 VLSIDEECG-PRLFKCDPAGHFFGHKATSAGLK-EQEAINFLEKKMKNDPAFTFQETVQTAI 144 (191)
Q Consensus 85 v~G~d~~~~-p~Ly~~d~~G~~~~~~~~a~G~g-s~~~~~~Le~~~~~~~~~s~eea~~l~~ 144 (191)
+.|.|+..| +-....-..|-+... ..|.. -.-.+.-|-+.|. -+++|+|+|++|..
T Consensus 77 ~LG~DP~tG~eI~~k~GryGPYVq~---~lg~~~~kpkraSLpkg~~-~e~ItLE~AL~LLs 134 (298)
T COG1754 77 VLGIDPETGEEIYLKNGRYGPYVQE---QLGDPKPKPKRASLPKGWK-PETITLEKALKLLS 134 (298)
T ss_pred ccccCCCCCceeEEeccCCCceeee---ecCCCCCCcccccCCCCCC-hhhCcHHHHHHHHc
Confidence 446786544 445555566666543 45555 4444555667774 56899999998863
No 91
>PRK07105 pyridoxamine kinase; Validated
Probab=23.03 E-value=76 Score=25.62 Aligned_cols=27 Identities=19% Similarity=0.224 Sum_probs=24.6
Q ss_pred CcceEEecCcEEEEEecchHHHHHHHH
Q 029560 11 VTHLFPITKYLGLLATGMTADARTLVQ 37 (191)
Q Consensus 11 ~~Ki~~i~~~i~~~~sG~~~D~~~l~~ 37 (191)
.+||..++|+.+.|.+|+.+|...+..
T Consensus 4 ~~~vl~~~d~~~~G~aG~~adi~~~~~ 30 (284)
T PRK07105 4 VKRVAAIHDLSGFGRVALTASIPIMSS 30 (284)
T ss_pred CCeEEEEecccccceehHhhHHHHHHH
Confidence 469999999999999999999999875
No 92
>PF11773 PulG: Type II secretory pathway pseudopilin ; InterPro: IPR021749 The secreton (type II secretion) and type IV pilus biogenesis branches of the general secretory pathway in Gram-negative bacteria share many features that suggest a common evolutionary origin. Five components of the secreton, the pseudopilins, are similar to subunits of type IV pili. Pseudopilin PulG is one of the secreton pseudopilins, and is found to assemble into pilus-like bundles []. PulG interacts with proteins H, I and J within the multi-protein complex as well as blocking extracellular secretion and reducing the amount of PulE protein as well as the amounts of PulL, PulM, PulC and PulD when G is over-expressed []. In Klebsiella the pilus-like structure is composed largely of PulG [].
Probab=23.03 E-value=1.1e+02 Score=20.28 Aligned_cols=41 Identities=20% Similarity=0.219 Sum_probs=30.0
Q ss_pred CCHHHHHHHHHHHHHhhhcccCCCCeEEEEEEEeCCCcEEEcC
Q 029560 134 FTFQETVQTAISTLQSVLQEDFKASEIEVGVVSKENPEFRVLS 176 (191)
Q Consensus 134 ~s~eea~~l~~~~l~~~~~~d~~~~~iei~iv~~~~~~~~~~~ 176 (191)
.-.+|++.+|..|+..-. +.+.-.+++|.+...++. ..+..
T Consensus 34 l~qqEvLnvA~MAvQT~Q-~~L~lNGv~V~v~~~~~~-i~V~~ 74 (82)
T PF11773_consen 34 LQQQEVLNVAQMAVQTGQ-DHLSLNGVEVQVERTQKG-IIVYE 74 (82)
T ss_pred HHHHHHHHHHHHHHHhCc-ceEEEcCeEEEEEEcCCe-EEEEe
Confidence 456799999999998876 345556899998887763 55543
No 93
>COG4537 ComGC Competence protein ComGC [Intracellular trafficking and secretion]
Probab=22.67 E-value=2e+02 Score=19.91 Aligned_cols=28 Identities=11% Similarity=0.183 Sum_probs=21.2
Q ss_pred HHHHHHHHHHHHHHHHHHhCC-CCCHHHH
Q 029560 32 ARTLVQQARYEAAEFRFKYGY-EMPVDVL 59 (191)
Q Consensus 32 ~~~l~~~~~~~~~~~~~~~~~-~~~~~~l 59 (191)
+..++...+.++..|++..++ +++.+.|
T Consensus 49 c~A~vkmV~sQ~~~YeLdh~~~~pSl~~L 77 (107)
T COG4537 49 CEAVVKMVESQAEAYELDHNRLPPSLSDL 77 (107)
T ss_pred HHHHHHHHHHHHHHHHhccCCCCCCHHHH
Confidence 345677788889999999888 6676554
No 94
>PRK12412 pyridoxal kinase; Reviewed
Probab=22.20 E-value=1.5e+02 Score=23.81 Aligned_cols=38 Identities=13% Similarity=0.087 Sum_probs=32.3
Q ss_pred cCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcc
Q 029560 113 AGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQE 153 (191)
Q Consensus 113 ~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~ 153 (191)
+|.|..++-.++-... .+++++||++.|..++..+..+
T Consensus 209 ~GaGD~f~aa~aa~l~---~g~~l~eA~~~A~~~~~~~i~~ 246 (268)
T PRK12412 209 HGAGCTYSAAITAELA---KGKPVKEAVKTAKEFITAAIRY 246 (268)
T ss_pred CchHHHHHHHHHHHHH---CCCCHHHHHHHHHHHHHHHHHH
Confidence 6999999998888775 5689999999999888887764
No 95
>PF01191 RNA_pol_Rpb5_C: RNA polymerase Rpb5, C-terminal domain; InterPro: IPR000783 Prokaryotes contain a single DNA-dependent RNA polymerase (RNAP; 2.7.7.6 from EC) that is responsible for the transcription of all genes, while eukaryotes have three classes of RNAPs (I-III) that transcribe different sets of genes. Each class of RNA polymerase is an assemblage of ten to twelve different polypeptides. Certain subunits of RNAPs, including RPB5 (POLR2E in mammals), are common to all three eukaryotic polymerases. RPB5 plays a role in the transcription activation process. Eukaryotic RPB5 has a bipartite structure consisting of a unique N-terminal region (IPR005571 from INTERPRO), plus a C-terminal region that is structurally homologous to the prokaryotic RPB5 homologue, subunit H (gene rpoH) [, , , ]. This entry represents prokaryotic subunit H and the C-terminal domain of eukaryotic RPB5, which share a two-layer alpha/beta fold, with a core structure of beta/alpha/beta/alpha/beta(2). ; GO: 0003677 DNA binding, 0003899 DNA-directed RNA polymerase activity, 0006351 transcription, DNA-dependent; PDB: 1EIK_A 2Y0S_Z 1DZF_A 3GTG_E 2VUM_E 3GTP_E 3GTO_E 3S17_E 3S1R_E 1I3Q_E ....
Probab=21.80 E-value=1e+02 Score=20.01 Aligned_cols=19 Identities=37% Similarity=0.473 Sum_probs=15.3
Q ss_pred CcEEEcCHHHHHHHHHHhh
Q 029560 170 PEFRVLSIEEIDEHLTAIS 188 (191)
Q Consensus 170 ~~~~~~~~~~i~~~~~~~~ 188 (191)
|++..++++|.+++|.++.
T Consensus 10 PkH~ils~eE~~~lL~~y~ 28 (74)
T PF01191_consen 10 PKHEILSEEEKKELLKKYN 28 (74)
T ss_dssp -EEEEE-HHHHHHHHHHTT
T ss_pred CCeEEcCHHHHHHHHHHhC
Confidence 4688999999999999886
No 96
>cd01947 Guanosine_kinase_like Guanosine kinase-like sugar kinases. Found in bacteria and archaea, the guanosine kinase-like group is part of the ribokinase/pfkB sugar kinase superfamily. Its oligomerization state is unknown at this time.
Probab=21.64 E-value=4e+02 Score=20.80 Aligned_cols=61 Identities=15% Similarity=0.205 Sum_probs=40.8
Q ss_pred cceeEEEEEcCCCCCeEEEECCCcceece------eeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 029560 80 GVVAMVLSIDEECGPRLFKCDPAGHFFGH------KATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTL 147 (191)
Q Consensus 80 ~v~~iv~G~d~~~~p~Ly~~d~~G~~~~~------~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l 147 (191)
++..++..... .|..++. . +..... ..-.+|.|..++-+++-... .+.++++|++++..+=
T Consensus 189 ~~~~viit~G~-~Ga~~~~--~-~~~~~~~~~~~~vvDttGAGDaF~ag~l~~l~---~g~~~~~al~~a~~~A 255 (265)
T cd01947 189 FPRYLIVTEGE-LGAILYP--G-GRYNHVPAKKAKVPDSTGAGDSFAAGFIYGLL---KGWSIEEALELGAQCG 255 (265)
T ss_pred cCCEEEEEeCC-CCeEEEE--C-CeeEECCCCCCCCCCCCCchHHHHHHHHHHHH---cCCCHHHHHHHHHHHH
Confidence 56667777765 3444433 2 222222 23478999999999999875 4689999999996643
No 97
>PRK02487 hypothetical protein; Provisional
Probab=21.64 E-value=2.7e+02 Score=20.68 Aligned_cols=33 Identities=12% Similarity=0.119 Sum_probs=26.8
Q ss_pred CCCCCHHHHHHHHHHHHHhhhcccCCCCeEEEEEEE
Q 029560 131 DPAFTFQETVQTAISTLQSVLQEDFKASEIEVGVVS 166 (191)
Q Consensus 131 ~~~~s~eea~~l~~~~l~~~~~~d~~~~~iei~iv~ 166 (191)
.+.+|.++|.+++..++..+..+. ..+-|.|++
T Consensus 20 ~~~l~~~~A~~l~~~a~~~A~~~g---~~v~IaVv~ 52 (163)
T PRK02487 20 FPHFDNDDAWQLGSLLVELARERG---LPIAIDITL 52 (163)
T ss_pred CCCCCHHHHHHHHHHHHHHHHHcC---CCEEEEEEE
Confidence 578999999999999999987432 258888885
No 98
>TIGR00687 pyridox_kin pyridoxal kinase. ThiD and related proteins form an outgroup.
Probab=21.55 E-value=1.6e+02 Score=23.76 Aligned_cols=38 Identities=18% Similarity=0.260 Sum_probs=32.2
Q ss_pred cCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhcc
Q 029560 113 AGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQE 153 (191)
Q Consensus 113 ~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~~ 153 (191)
+|.|..++-.++-... .+.+.++|++.|..++..+...
T Consensus 219 ~GaGD~f~A~~l~~l~---~g~~~~~al~~A~~~v~~~l~~ 256 (286)
T TIGR00687 219 VGTGDLIAALLLATLL---HGNSLKEALEKTVSAVYHVLVT 256 (286)
T ss_pred CChHHHHHHHHHHHHh---cCCCHHHHHHHHHHHHHHHHHH
Confidence 7999999999998875 5689999999999987777654
No 99
>PF14593 PH_3: PH domain; PDB: 1W1H_D 1W1D_A 1W1G_A 2VKI_A.
Probab=21.47 E-value=76 Score=21.98 Aligned_cols=16 Identities=44% Similarity=0.731 Sum_probs=13.5
Q ss_pred CCCeEEEECCCcceec
Q 029560 92 CGPRLFKCDPAGHFFG 107 (191)
Q Consensus 92 ~~p~Ly~~d~~G~~~~ 107 (191)
.+|+||.+||.+....
T Consensus 36 d~PrL~Yvdp~~~~~K 51 (104)
T PF14593_consen 36 DGPRLFYVDPKKMVLK 51 (104)
T ss_dssp TTTEEEEEETTTTEEE
T ss_pred cCCEEEEEECCCCeEC
Confidence 4699999999988754
No 100
>PRK11325 scaffold protein; Provisional
Probab=21.36 E-value=3.1e+02 Score=19.44 Aligned_cols=51 Identities=16% Similarity=0.146 Sum_probs=34.9
Q ss_pred EECCCcceeceeeeecCCChHHHH-HHHHHhhcCCCCCCHHHHHHHHHHHHHhhh
Q 029560 98 KCDPAGHFFGHKATSAGLKEQEAI-NFLEKKMKNDPAFTFQETVQTAISTLQSVL 151 (191)
Q Consensus 98 ~~d~~G~~~~~~~~a~G~gs~~~~-~~Le~~~~~~~~~s~eea~~l~~~~l~~~~ 151 (191)
.+|+.|.+....+.+.|.+...+- ..+-... .+.|++||..+....+....
T Consensus 46 ~v~~~~~I~d~~f~~~GC~is~Asas~~~e~~---~Gktl~ea~~i~~~~i~~~l 97 (127)
T PRK11325 46 KVNDEGIIEDAKFKTYGCGSAIASSSLVTEWV---KGKTLDEALAIKNTDIAEEL 97 (127)
T ss_pred EECCCCeEEEEEEEeeCCHHHHHHHHHHHHHH---cCCCHHHHHhcCHHHHHHHc
Confidence 455568888888888886655554 3444443 67899999999876665443
No 101
>PF01458 UPF0051: Uncharacterized protein family (UPF0051); InterPro: IPR000825 Iron-sulphur (FeS) clusters are important cofactors for numerous proteins involved in electron transfer, in redox and non-redox catalysis, in gene regulation, and as sensors of oxygen and iron. These functions depend on the various FeS cluster prosthetic groups, the most common being [2Fe-2S] and [4Fe-4S] []. FeS cluster assembly is a complex process involving the mobilisation of Fe and S atoms from storage sources, their assembly into [Fe-S] form, their transport to specific cellular locations, and their transfer to recipient apoproteins. So far, three FeS assembly machineries have been identified, which are capable of synthesising all types of [Fe-S] clusters: ISC (iron-sulphur cluster), SUF (sulphur assimilation), and NIF (nitrogen fixation) systems. The ISC system is conserved in eubacteria and eukaryotes (mitochondria), and has broad specificity, targeting general FeS proteins [, ]. It is encoded by the isc operon (iscRSUA-hscBA-fdx-iscX). IscS is a cysteine desulphurase, which obtains S from cysteine (converting it to alanine) and serves as a S donor for FeS cluster assembly. IscU and IscA act as scaffolds to accept S and Fe atoms, assembling clusters and transfering them to recipient apoproteins. HscA is a molecular chaperone and HscB is a co-chaperone. Fdx is a [2Fe-2S]-type ferredoxin. IscR is a transcription factor that regulates expression of the isc operon. IscX (also known as YfhJ) appears to interact with IscS and may function as an Fe donor during cluster assembly []. The SUF system is an alternative pathway to the ISC system that operates under iron starvation and oxidative stress. It is found in eubacteria, archaea and eukaryotes (plastids). The SUF system is encoded by the suf operon (sufABCDSE), and the six encoded proteins are arranged into two complexes (SufSE and SufBCD) and one protein (SufA). SufS is a pyridoxal-phosphate (PLP) protein displaying cysteine desulphurase activity. SufE acts as a scaffold protein that accepts S from SufS and donates it to SufA []. SufC is an ATPase with an unorthodox ATP-binding cassette (ABC)-like component. No specific functions have been assigned to SufB and SufD. SufA is homologous to IscA [], acting as a scaffold protein in which Fe and S atoms are assembled into [FeS] cluster forms, which can then easily be transferred to apoproteins targets. In the NIF system, NifS and NifU are required for the formation of metalloclusters of nitrogenase in Azotobacter vinelandii, and other organisms, as well as in the maturation of other FeS proteins. Nitrogenase catalyses the fixation of nitrogen. It contains a complex cluster, the FeMo cofactor, which contains molybdenum, Fe and S. NifS is a cysteine desulphurase. NifU binds one Fe atom at its N-terminal, assembling an FeS cluster that is transferred to nitrogenase apoproteins []. Nif proteins involved in the formation of FeS clusters can also be found in organisms that do not fix nitrogen []. This entry represents SufB and SufD proteins that form part of the SufBCD complex in the SUF system. No specific functions have been assigned to these proteins.; GO: 0016226 iron-sulfur cluster assembly; PDB: 1VH4_B 2ZU0_A 4DN7_A.
Probab=21.00 E-value=1.4e+02 Score=23.31 Aligned_cols=48 Identities=13% Similarity=0.149 Sum_probs=33.3
Q ss_pred CCeEEEECCCcceeceeeeecCCChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHH
Q 029560 93 GPRLFKCDPAGHFFGHKATSAGLKEQEAINFLEKKMKNDPAFTFQETVQTAISTL 147 (191)
Q Consensus 93 ~p~Ly~~d~~G~~~~~~~~a~G~gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l 147 (191)
.|.|--....= ....++++|.=.+...-||.. ..++.+||.++++++|
T Consensus 182 ~P~LeI~~~dV--~a~H~AtvG~idee~LFYL~S-----RGl~~~eA~~Liv~gF 229 (229)
T PF01458_consen 182 IPELEIDEDDV--KASHGATVGQIDEEQLFYLMS-----RGLSEEEARKLIVKGF 229 (229)
T ss_dssp EEEEEE-SSSE--EEEEEEEEEES-HHHHHHHHC-----TT--HHHHHHHHHHHH
T ss_pred EEhHhcccCCc--EEEEeeEeecCCHHHHHHHHH-----cCCCHHHHHHHHHhhC
Confidence 36665544333 334788899999999999997 4699999999998875
No 102
>COG0771 MurD UDP-N-acetylmuramoylalanine-D-glutamate ligase [Cell envelope biogenesis, outer membrane]
Probab=20.86 E-value=1e+02 Score=27.26 Aligned_cols=62 Identities=18% Similarity=0.082 Sum_probs=42.3
Q ss_pred ceeEEEEEcCCCCCeEEEECCCccee---ceeeeecCCChHHHHHHHHHhhc-CCCCCCHHHHHHHHHHHH
Q 029560 81 VVAMVLSIDEECGPRLFKCDPAGHFF---GHKATSAGLKEQEAINFLEKKMK-NDPAFTFQETVQTAISTL 147 (191)
Q Consensus 81 v~~iv~G~d~~~~p~Ly~~d~~G~~~---~~~~~a~G~gs~~~~~~Le~~~~-~~~~~s~eea~~l~~~~l 147 (191)
+-+|++|.|+ ++. ++|..... .-....+|.........|++.-. ....-++++|+..+....
T Consensus 346 v~lI~GG~~K-g~d----f~~L~~~~~~~~~~~~~~G~~~~~i~~~l~~~~~~~~~~~~le~Av~~a~~~a 411 (448)
T COG0771 346 VILIAGGDDK-GAD----FSPLAEILAKVIKKLVLIGEDAEKIAAALKEAGPSLVICETLEEAVQLARELA 411 (448)
T ss_pred EEEEECCCCC-CCC----hhHHHHHhhhcceEEEEeCCCHHHHHHHHHhcCCceeecCcHHHHHHHHHHhh
Confidence 6788899987 333 33333333 33578999999999999988732 235678888888775543
No 103
>KOG3219 consensus Transcription initiation factor TFIID, subunit TAF11 [Transcription]
Probab=20.51 E-value=3.6e+02 Score=21.02 Aligned_cols=49 Identities=8% Similarity=0.053 Sum_probs=34.7
Q ss_pred ecCcEEEEEecchHHHH-HHHHHHHHHHHHHHHHhCCCCCHHHHHHHHHHHH
Q 029560 17 ITKYLGLLATGMTADAR-TLVQQARYEAAEFRFKYGYEMPVDVLAKWIADKS 67 (191)
Q Consensus 17 i~~~i~~~~sG~~~D~~-~l~~~~~~~~~~~~~~~~~~~~~~~l~~~l~~~~ 67 (191)
|++++.++++|++-=+- .+++.++..+..+.- ..|+.|..+-....++.
T Consensus 130 v~~nv~Ia~~GiaKvFVGEvVEeAl~V~~~~~e--~~PLqP~HIREA~rrL~ 179 (195)
T KOG3219|consen 130 VSENVAIAMAGIAKVFVGEVVEEALDVREEWGE--SGPLQPKHIREAYRRLK 179 (195)
T ss_pred cCcceeeeecchhhHhHHHHHHHHHHHHHHhcc--CCCCCcHHHHHHHHHHH
Confidence 79999999999962221 356666666555442 67889988888877765
No 104
>PF05589 DUF768: Protein of unknown function (DUF768); InterPro: IPR008486 This family consists of several uncharacterised hypothetical proteins from Rhizobium loti (Mesorhizobium loti).
Probab=20.01 E-value=2.4e+02 Score=17.71 Aligned_cols=37 Identities=5% Similarity=0.045 Sum_probs=25.1
Q ss_pred ChHHHHHHHHHhhcCCCCCCHHHHHHHHHHHHHhhhc
Q 029560 116 KEQEAINFLEKKMKNDPAFTFQETVQTAISTLQSVLQ 152 (191)
Q Consensus 116 gs~~~~~~Le~~~~~~~~~s~eea~~l~~~~l~~~~~ 152 (191)
|..+....+.++....+.-+.-.+-+|+.+|+..|..
T Consensus 5 ~~~Fl~~WI~e~V~~~~~~d~is~~~La~kl~adA~a 41 (64)
T PF05589_consen 5 GIEFLDSWIAENVPDTPKADIISAAELAEKLFADAEA 41 (64)
T ss_pred HHHHHHHHHHhcCCCccccchhhHHHHHHHHHHHHHH
Confidence 4567777777776444444455667888888887764
Done!