Query 016557
Match_columns 387
No_of_seqs 294 out of 2062
Neff 6.4
Searched_HMMs 46136
Date Fri Mar 29 07:55:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/016557.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/016557hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd02669 Peptidase_C19M A subfa 100.0 1.6E-65 3.5E-70 526.2 20.4 270 106-381 1-307 (440)
2 KOG2026 Spindle pole body prot 100.0 5.6E-61 1.2E-65 467.0 15.7 265 100-381 8-307 (442)
3 KOG0944 Ubiquitin-specific pro 100.0 6.2E-39 1.3E-43 329.9 12.8 230 123-377 181-487 (763)
4 KOG1873 Ubiquitin-specific pro 100.0 3.2E-34 7E-39 297.6 8.9 212 104-322 44-350 (877)
5 COG5207 UBP14 Isopeptidase T [ 100.0 3.6E-33 7.8E-38 279.9 13.6 250 103-377 153-475 (749)
6 cd02658 Peptidase_C19B A subfa 100.0 1.5E-29 3.2E-34 247.4 12.2 161 193-377 1-192 (311)
7 cd02663 Peptidase_C19G A subfa 100.0 3E-29 6.4E-34 245.0 13.7 145 193-377 1-161 (300)
8 cd02660 Peptidase_C19D A subfa 100.0 6.9E-29 1.5E-33 244.0 14.5 162 193-377 2-190 (328)
9 cd02668 Peptidase_C19L A subfa 100.0 1.6E-28 3.5E-33 242.3 14.2 156 193-377 1-170 (324)
10 COG5560 UBP12 Ubiquitin C-term 100.0 1.8E-29 3.9E-34 258.7 7.5 152 193-368 267-457 (823)
11 cd02657 Peptidase_C19A A subfa 100.0 1.6E-28 3.5E-33 239.3 13.9 161 193-377 1-174 (305)
12 cd02671 Peptidase_C19O A subfa 99.9 3E-27 6.5E-32 234.9 13.9 153 190-377 23-194 (332)
13 cd02661 Peptidase_C19E A subfa 99.9 4.4E-27 9.6E-32 227.3 13.9 162 192-377 2-176 (304)
14 cd02666 Peptidase_C19J A subfa 99.9 3.3E-26 7.1E-31 228.3 12.5 157 192-377 2-203 (343)
15 cd02659 peptidase_C19C A subfa 99.9 6.4E-26 1.4E-30 223.5 12.6 162 191-377 2-165 (334)
16 cd02664 Peptidase_C19H A subfa 99.9 1.7E-25 3.7E-30 221.4 12.5 146 193-377 1-148 (327)
17 cd02667 Peptidase_C19K A subfa 99.9 1.4E-25 3.1E-30 217.1 10.4 121 193-377 1-125 (279)
18 KOG1865 Ubiquitin carboxyl-ter 99.9 8E-26 1.7E-30 230.7 8.7 163 191-377 108-280 (545)
19 KOG1867 Ubiquitin-specific pro 99.9 1.6E-24 3.4E-29 224.5 9.6 215 123-362 45-323 (492)
20 COG5533 UBP5 Ubiquitin C-termi 99.9 1.1E-22 2.4E-27 194.8 7.5 172 186-383 66-282 (415)
21 cd02662 Peptidase_C19F A subfa 99.9 3E-22 6.4E-27 190.1 8.5 104 193-377 1-110 (240)
22 PF00443 UCH: Ubiquitin carbox 99.9 1.6E-21 3.4E-26 182.2 10.0 131 191-322 1-149 (269)
23 KOG1868 Ubiquitin C-terminal h 99.8 3E-19 6.4E-24 189.2 8.4 158 185-365 295-493 (653)
24 cd02674 Peptidase_C19R A subfa 99.7 8.6E-18 1.9E-22 156.7 6.8 92 193-377 1-98 (230)
25 COG5077 Ubiquitin carboxyl-ter 99.7 6.3E-18 1.4E-22 176.8 3.5 168 185-382 187-355 (1089)
26 KOG1863 Ubiquitin carboxyl-ter 99.7 6E-17 1.3E-21 182.4 8.5 159 192-377 171-332 (1093)
27 KOG1870 Ubiquitin C-terminal h 99.7 7.9E-17 1.7E-21 177.3 8.7 150 191-364 246-431 (842)
28 PF02148 zf-UBP: Zn-finger in 99.6 1.7E-16 3.7E-21 121.0 3.5 61 124-184 1-62 (63)
29 cd02673 Peptidase_C19Q A subfa 99.6 9.2E-16 2E-20 146.7 7.6 105 194-370 2-117 (245)
30 cd02665 Peptidase_C19I A subfa 99.6 9.1E-16 2E-20 145.2 7.4 98 193-375 1-105 (228)
31 cd02257 Peptidase_C19 Peptidas 99.6 2.6E-15 5.6E-20 137.7 7.1 102 193-377 1-113 (255)
32 KOG1866 Ubiquitin carboxyl-ter 99.5 1.7E-14 3.6E-19 151.2 8.0 167 185-377 89-260 (944)
33 PF13423 UCH_1: Ubiquitin carb 99.5 9.5E-14 2.1E-18 135.6 10.3 160 192-376 1-176 (295)
34 KOG1871 Ubiquitin-specific pro 99.3 4.2E-12 9.1E-17 125.8 8.2 165 189-377 26-279 (420)
35 KOG2026 Spindle pole body prot 99.1 8.5E-12 1.8E-16 123.3 -1.3 166 1-176 1-181 (442)
36 cd02672 Peptidase_C19P A subfa 99.1 1.6E-11 3.5E-16 119.0 0.6 115 187-376 11-130 (268)
37 smart00290 ZnF_UBP Ubiquitin C 99.0 1.7E-10 3.6E-15 83.6 3.5 49 123-171 1-49 (50)
38 KOG0804 Cytoplasmic Zn-finger 98.9 2.9E-10 6.3E-15 114.3 2.5 62 121-182 228-289 (493)
39 KOG4598 Putative ubiquitin-spe 98.9 1E-10 2.3E-15 122.3 -0.9 147 183-382 79-231 (1203)
40 KOG1872 Ubiquitin-specific pro 98.9 4.2E-10 9.1E-15 114.1 3.2 126 192-322 106-246 (473)
41 KOG1864 Ubiquitin-specific pro 98.9 2.2E-09 4.7E-14 114.0 6.3 164 191-376 232-434 (587)
42 cd02670 Peptidase_C19N A subfa 97.1 0.00063 1.4E-08 65.3 4.5 69 275-376 22-93 (241)
43 KOG1864 Ubiquitin-specific pro 97.0 0.001 2.2E-08 71.3 5.9 102 194-295 34-153 (587)
44 KOG1275 PAB-dependent poly(A) 97.0 0.00045 9.7E-09 75.5 2.9 153 187-364 495-676 (1118)
45 PF09416 UPF1_Zn_bind: RNA hel 92.7 0.067 1.5E-06 47.7 1.9 57 123-179 2-68 (152)
46 PF05408 Peptidase_C28: Foot-a 84.3 0.45 9.7E-06 43.7 1.0 23 190-212 32-54 (193)
47 PF08715 Viral_protease: Papai 77.1 3 6.5E-05 41.8 4.2 74 195-293 106-180 (320)
48 KOG3362 Predicted BBOX Zn-fing 52.6 4.3 9.4E-05 35.9 -0.2 24 121-145 118-141 (156)
49 cd00729 rubredoxin_SM Rubredox 51.4 8.6 0.00019 25.5 1.2 14 133-146 2-15 (34)
50 KOG1867 Ubiquitin-specific pro 46.0 15 0.00033 38.9 2.7 145 121-291 31-181 (492)
51 PRK14890 putative Zn-ribbon RN 39.4 12 0.00027 28.2 0.5 21 123-145 38-58 (59)
52 cd00350 rubredoxin_like Rubred 38.8 16 0.00035 23.9 1.0 14 133-146 1-14 (33)
53 PF08790 zf-LYAR: LYAR-type C2 38.2 18 0.0004 23.2 1.1 19 134-152 1-19 (28)
54 PF04438 zf-HIT: HIT zinc fing 37.6 15 0.00032 23.8 0.6 23 122-145 3-25 (30)
55 PF15499 Peptidase_C98: Ubiqui 37.5 65 0.0014 31.5 5.2 28 195-222 6-33 (275)
56 COG2888 Predicted Zn-ribbon RN 35.7 15 0.00032 27.9 0.4 21 123-145 40-60 (61)
57 PF03117 Herpes_UL49_1: UL49 f 33.7 42 0.0009 32.4 3.2 47 131-179 103-160 (245)
58 PF08792 A2L_zn_ribbon: A2L zi 33.5 28 0.00061 23.0 1.5 22 122-143 4-31 (33)
59 KOG1074 Transcriptional repres 33.1 72 0.0016 36.0 5.2 31 129-159 377-408 (958)
60 KOG0944 Ubiquitin-specific pro 33.0 22 0.00047 39.0 1.3 43 123-169 26-72 (763)
61 KOG1802 RNA helicase nonsense 27.0 43 0.00093 37.1 2.3 58 122-179 61-128 (935)
62 COG1592 Rubrerythrin [Energy p 26.3 33 0.00072 31.2 1.1 13 133-145 134-146 (166)
63 PF08271 TF_Zn_Ribbon: TFIIB z 26.2 75 0.0016 21.8 2.7 23 163-185 11-33 (43)
64 PF03048 Herpes_UL92: UL92 fam 26.2 59 0.0013 30.3 2.8 46 129-174 16-67 (192)
65 PF07754 DUF1610: Domain of un 25.4 49 0.0011 20.5 1.4 12 129-140 12-23 (24)
66 smart00154 ZnF_AN1 AN1-like Zi 24.4 60 0.0013 22.2 1.9 23 124-146 1-25 (39)
67 PHA00626 hypothetical protein 23.4 48 0.001 24.9 1.3 22 123-144 13-34 (59)
68 KOG3556 Familial cylindromatos 22.7 1.6E+02 0.0034 31.8 5.3 29 193-221 370-398 (724)
69 COG1997 RPL43A Ribosomal prote 21.3 65 0.0014 26.3 1.8 25 123-147 37-67 (89)
70 COG5207 UBP14 Isopeptidase T [ 20.7 32 0.00069 36.7 -0.1 44 123-166 24-72 (749)
No 1
>cd02669 Peptidase_C19M A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=100.00 E-value=1.6e-65 Score=526.17 Aligned_cols=270 Identities=64% Similarity=1.034 Sum_probs=242.0
Q ss_pred CchhhhcccccCCCCCccccccCCCCceEEecccCcccccCCCCCcccccccccCCceEEecCCCceeecCCCcccCCCC
Q 016557 106 PYLDTVNRQVLDFDFEKFCSVSLSNLNVYACLVCGKYYQGRGQKSHAYTHSLEAGHHVYINLRTEKVYCLPDGYEINDPS 185 (387)
Q Consensus 106 ~~l~ti~~~~Ldfd~ek~Cs~c~s~~nl~~CL~CG~~~cGr~~~sHa~~H~~~~~H~v~inl~t~~vyC~~c~~eV~D~s 185 (387)
|||+||||.+|||||||+|++|+++.|+|+||+||+|||||+.++||+.|+.+++|++||++.|++||||||+++|.|++
T Consensus 1 ~yl~ti~r~~ldfd~e~~C~~~~~~~n~~~CL~cg~~~~g~~~~~ha~~H~~~~~H~~~v~l~t~~~yc~~~~~~v~d~~ 80 (440)
T cd02669 1 PYLDTINRSVLDFDFEKVCSVSLSNLNVYACLVCGKYFQGRGKGSHAYTHSLEDNHHVFLNLETLKFYCLPDNYEIIDSS 80 (440)
T ss_pred CchhhhhhhhccccccccccccCCCCcEEEEcccCCeecCCCCCcHHHHHhhccCCCEEEECCCCCEEEeCCCCEEeCcc
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999999998
Q ss_pred cchhcc---------------------------------cccccCCCCcchhhHhhHhhccchhhhhhccCCCcC---CC
Q 016557 186 LEDIRH---------------------------------VGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYR---HC 229 (387)
Q Consensus 186 L~~i~~---------------------------------vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~---~~ 229 (387)
|++|++ +||+|+|||||||||||+|+|+|+||++|+...+.. ..
T Consensus 81 l~~i~~~~~~~~~~~~i~~~~~~~~~~~~~~~~~~~~G~vGL~NlGnTCYmNsvLQ~L~~~p~lr~~~l~~~~~~~~~~~ 160 (440)
T cd02669 81 LDDIKYVLNPTYTKEQISDLDRDPKLSRDLDGKPYLPGFVGLNNIKNNDYANVIIQALSHVKPIRNFFLLYENYENIKDR 160 (440)
T ss_pred HHHHHHHhcCCCCHHHHHHhhhccccccccCCCCccCCccCccCCCCchHHHHHHHHHHCCHHHHHHHhhccccccccCC
Confidence 877652 399999999999999999999999999999765432 24
Q ss_pred CChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhcCCCCCCCccCHHHHHHHHHHHHHHHhhcC-CCCCccccccc
Q 016557 230 KSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASKKRFRIGVQSNPVEFMSWLLNTLHSDLRNT-KKNTSIIYECF 308 (387)
Q Consensus 230 ~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~-~~~~siI~~~F 308 (387)
..+++++|..+++++|+++.++.+++|.+|+++++..+++.|.++.||||||||+||||.||+++... +...++|+++|
T Consensus 161 ~~~l~~~l~~l~~kl~~~~~~~~~isP~~fl~~l~~~~~~~f~~~~QqDA~EFl~~LLd~L~~~l~~~~~~~~~ii~~~F 240 (440)
T cd02669 161 KSELVKRLSELIRKIWNPRNFKGHVSPHELLQAVSKVSKKKFSITEQSDPVEFLSWLLNTLHKDLGGSKKPNSSIIHDCF 240 (440)
T ss_pred CcHHHHHHHHHHHHHhccccCCCccCHHHHHHHHHhhcccccCCcccCCHHHHHHHHHHHHHHHhccCCCCCCCcceecc
Confidence 56899999999999999887888999999999999886678999999999999999999999998753 45689999999
Q ss_pred ceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecceeeeecCCCCCChhHHhhhcCccccccCC
Q 016557 309 QGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPFLMLGLDLPPPPLFKDVMEKNIIPQLQRLS 381 (387)
Q Consensus 309 ~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epFl~LSLdLP~~p~fkd~le~n~iPqv~l~~ 381 (387)
+|+++++++|..|.... ..+...|..|+...+++.+|||+|||+||+.|+|+|+...++|||++|.+
T Consensus 241 ~G~l~~~~~c~~~~~~~------~~~~~~~~~c~~~~s~~~~pF~~LsLdip~~~~~~~~~~~~~l~~~~l~e 307 (440)
T cd02669 241 QGKVQIETQKIKPHAEE------EGSKDKFFKDSRVKKTSVSPFLLLTLDLPPPPLFKDGNEENIIPQVPLKQ 307 (440)
T ss_pred CceEEEEEEeecccccc------cccccccccccccceeeeccceEEEecCCCCccccccccccccCcccHHH
Confidence 99999999999886221 11122456677678899999999999999999999999999999998753
No 2
>KOG2026 consensus Spindle pole body protein - Sad1p [Cytoskeleton]
Probab=100.00 E-value=5.6e-61 Score=467.01 Aligned_cols=265 Identities=68% Similarity=1.109 Sum_probs=245.5
Q ss_pred CCCCCCCchhhhcccccCCCCCccccccCCCCceEEecccCcccccCCCCCcccccccccCCceEEecCC-CceeecCCC
Q 016557 100 EVRRDCPYLDTVNRQVLDFDFEKFCSVSLSNLNVYACLVCGKYYQGRGQKSHAYTHSLEAGHHVYINLRT-EKVYCLPDG 178 (387)
Q Consensus 100 ~~~~~c~~l~ti~~~~Ldfd~ek~Cs~c~s~~nl~~CL~CG~~~cGr~~~sHa~~H~~~~~H~v~inl~t-~~vyC~~c~ 178 (387)
.....|+||+||+|++||||++|.|++++++.|+|+||+||+||+||+++|||+.|+.+++||+|+|+.| ++.|+++.+
T Consensus 8 ~~~~~~~yldtv~r~vldfd~ek~c~vslsnLnvyAclvcg~y~qgr~~kS~A~~h~l~~ghhvf~nl~telkfyvlpe~ 87 (442)
T KOG2026|consen 8 KQEPNYAYLETVVRRVLDFDFEKPCSVSLSNLNVYACLVCGKYFQGRGEKSHAYTHSLEEGHHVFLNLSTELKFYVLPEN 87 (442)
T ss_pred ccCcchHhhhhhhhhhccccCCCCCcccccccceeeeeeeCchhhCcCccccchhccccccccceeccccceeEEecchh
Confidence 3456789999999999999999999999999999999999999999999999999999999999999999 899999999
Q ss_pred cccCCCCcchhcc----------------------------------cccccCCCCcchhhHhhHhhccchhhhhhccCC
Q 016557 179 YEINDPSLEDIRH----------------------------------VGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPE 224 (387)
Q Consensus 179 ~eV~D~sL~~i~~----------------------------------vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~ 224 (387)
+++.|+++.+|++ |||+|+.++.|.|+|||+|+|++|+|+||+...
T Consensus 88 ~ei~d~s~~~ikhslkptftr~~cp~lD~~nr~~~raLd~~tYLpG~VGLnNik~~dy~n~vl~~ls~v~PlRnyFl~~~ 167 (442)
T KOG2026|consen 88 YEIDDPSLGDIKHSLKPTFTKTDCPNLDKVNRKLSRALDGSTYLPGFVGLNNIKANDYANAVLQALSHVVPLRNYFLLEE 167 (442)
T ss_pred ccccCchhhhhhccccceeehhhcccccccchhhhhhhcCCcceeeeeccchhhhHHHHHHHHHHHhccchhhhhhcccc
Confidence 9999998888864 399999999999999999999999999999987
Q ss_pred CcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhcCCCCCCCccCHHHHHHHHHHHHHHHhhcCCCCCccc
Q 016557 225 NYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASKKRFRIGVQSNPVEFMSWLLNTLHSDLRNTKKNTSII 304 (387)
Q Consensus 225 ~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI 304 (387)
++.++...++.+|..|++++|++++|+++|||++|++++...+.++|.+++|.||.|||+||||.||..++++++.+|||
T Consensus 168 n~~d~~~~lv~rl~~l~rklw~~r~fk~hvSphe~lqaV~~~s~k~f~i~~q~DpveFlswllntlhs~l~~~k~~~SIi 247 (442)
T KOG2026|consen 168 NYFDNLTELVQRLGELIRKLWNPRNFKGHVSPHEFLQAVMKLSKKRFRIGQQSDPVEFLSWLLNTLHSDLRGSKKASSII 247 (442)
T ss_pred cccchhHHHHHHHHHHHHHhcChhhhcccCCHHHHHHHHHHHhhhheecCCCCCHHHHHHHHHHHHHHHhCCCCCchhHh
Confidence 77778889999999999999999999999999999999999999999999999999999999999999999888888999
Q ss_pred ccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecceeeeecCCCCCChhHHhhhcCccccccCC
Q 016557 305 YECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPFLMLGLDLPPPPLFKDVMEKNIIPQLQRLS 381 (387)
Q Consensus 305 ~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epFl~LSLdLP~~p~fkd~le~n~iPqv~l~~ 381 (387)
++.|+|.+++.+.-..-. ..++...+...|||.|+||||++|+|+|.+++||||||+||+
T Consensus 248 ~~~fqG~~ri~k~~~~~~-----------------~~~~~~~i~~~~Fl~LtLDLP~~plfkD~~e~niiPQV~l~~ 307 (442)
T KOG2026|consen 248 HKSFQGEVRIVKEKQGEA-----------------SENENKEISVMPFLYLTLDLPPPPLFKDVMEKNIIPQVALFD 307 (442)
T ss_pred hHhhcceEEeeeeccccc-----------------cccccceEEEEeeEEEEecCCCCCcccchhhhcccccchHHH
Confidence 999999999987633300 013367888999999999999999999999999999999974
No 3
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=6.2e-39 Score=329.86 Aligned_cols=230 Identities=24% Similarity=0.365 Sum_probs=199.2
Q ss_pred cccccCCCCceEEecccCcccccCCC------CCcccccccccCCceEEecCC-----CceeecCCCcccCCCCcchh--
Q 016557 123 FCSVSLSNLNVYACLVCGKYYQGRGQ------KSHAYTHSLEAGHHVYINLRT-----EKVYCLPDGYEINDPSLEDI-- 189 (387)
Q Consensus 123 ~Cs~c~s~~nl~~CL~CG~~~cGr~~------~sHa~~H~~~~~H~v~inl~t-----~~vyC~~c~~eV~D~sL~~i-- 189 (387)
.|+.|....|+|+||+||.+.|||.+ ++||+.||.+++|+++|.+.| .+||||+|+++|.|+.|...
T Consensus 181 kCs~CDL~~NLWlcLtcG~v~CGR~qfg~~GgNgHA~~HYr~tghPLaVKLgsIs~dg~DvycY~cDd~v~dPnl~~hl~ 260 (763)
T KOG0944|consen 181 KCSKCDLTENLWLCLTCGSVGCGRKQFGGSGGNGHALSHYRETGHPLAVKLGSISPDGADVYCYDCDDEVRDPNLESHLS 260 (763)
T ss_pred eecccCcccceEEEeccCceeecceeecCCCCCcchHHhhhhcCCceEEEecccCCCccceeeecccccccCccHHHHHH
Confidence 59999999999999999999999964 799999999999999999986 69999999999999855321
Q ss_pred ---------------------------------------------cccccccCCCCcchhhHhhHhhccchhhhhhccCC
Q 016557 190 ---------------------------------------------RHVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPE 224 (387)
Q Consensus 190 ---------------------------------------------~~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~ 224 (387)
.|+||+|+||+||||||||+|+.+|.|..+++...
T Consensus 261 hfGId~~~m~kteksl~elel~~N~i~Ew~~~~esg~~l~p~~gpgytGl~NlGNSCYlnSVmQ~Lf~i~~fq~~~~~~~ 340 (763)
T KOG0944|consen 261 HFGIDMAKMDKTEKSLVELELDQNRIWEWEALEESGAPLEPLFGPGYTGLINLGNSCYLNSVMQSLFSIPSFQRRYLEQE 340 (763)
T ss_pred hcCccHHHhccchhHHHHHHHHhhcccCceeeccCCCccccccCCCccceeecCcchhHHHHHHHheecccHHHhhcccc
Confidence 13499999999999999999999999998887653
Q ss_pred Cc-----CCCCChHHHHHHHHHHHHHhccCCC--------CCCchHHHHHHHHHhhcCCCCCCCccCHHHHHHHHHHHHH
Q 016557 225 NY-----RHCKSPLVHRFGDLTRKIWHARNFK--------GQVSPHEFLQAVMKASKKRFRIGVQSNPVEFMSWLLNTLH 291 (387)
Q Consensus 225 ~~-----~~~~~~l~~~L~~L~~~l~s~~~~~--------~~vsP~~ll~~l~~~s~~~F~~~~QqDA~EFL~~LLn~L~ 291 (387)
+. ......|.++|.+|+.+|.+++..+ ..|+|..|+..+++. .+.|+..+||||+|||++||+.|.
T Consensus 341 ~~f~~~~~~P~ndf~cQ~~Kl~~gm~sgkys~p~~~~~~qngIsP~mFK~~igkn-HpeFst~~QQDA~EFllfLl~ki~ 419 (763)
T KOG0944|consen 341 RIFNCYPKDPTNDFNCQLAKLLHGMLSGKYSKPLMDPSNQNGISPLMFKALIGKN-HPEFSTNRQQDAQEFLLFLLEKIR 419 (763)
T ss_pred ceeecCCCCcchhHHHHHHHHHHHhhcCcccCccCCccccCCcCHHHHHHHHcCC-CccccchhhhhHHHHHHHHHHHHh
Confidence 22 2345679999999999999886555 389999999999998 599999999999999999999999
Q ss_pred HHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecceeeeecCCCCC------Ch
Q 016557 292 SDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPFLMLGLDLPPPP------LF 365 (387)
Q Consensus 292 ~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epFl~LSLdLP~~p------~f 365 (387)
+...... .-++++|.-.+..++.|..|. .++++.++-+.+.|+||... -|
T Consensus 420 ~n~rs~~---~nptd~frF~ve~Rv~C~~c~---------------------kVrYs~~~~~~i~lpv~~~~~v~~~v~~ 475 (763)
T KOG0944|consen 420 ENSRSSL---PNPTDLFRFEVEDRVSCLGCR---------------------KVRYSYESEYLIQLPVPMTNEVREKVPI 475 (763)
T ss_pred hcccccC---CCHHHHHHhhhhhhhhhhccc---------------------cccccchhheeeEeeccccccccccCCH
Confidence 8543221 457899999999999999987 78889999999999999633 56
Q ss_pred hHHhhhcCcccc
Q 016557 366 KDVMEKNIIPQL 377 (387)
Q Consensus 366 kd~le~n~iPqv 377 (387)
..+++..+.|||
T Consensus 476 ~~cleaff~pq~ 487 (763)
T KOG0944|consen 476 SACLEAFFEPQV 487 (763)
T ss_pred HHHHHHhcCCcc
Confidence 889999999987
No 4
>KOG1873 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.2e-34 Score=297.58 Aligned_cols=212 Identities=25% Similarity=0.361 Sum_probs=162.2
Q ss_pred CCCch-hhhcccccC----CCCCccccccCC---------------CCceEEecccCcccccC-CCCCcccccccc---c
Q 016557 104 DCPYL-DTVNRQVLD----FDFEKFCSVSLS---------------NLNVYACLVCGKYYQGR-GQKSHAYTHSLE---A 159 (387)
Q Consensus 104 ~c~~l-~ti~~~~Ld----fd~ek~Cs~c~s---------------~~nl~~CL~CG~~~cGr-~~~sHa~~H~~~---~ 159 (387)
.|-|| ..|+...|. --.+-.|+.|.. ...+|+||.||.++||| +...||+.|++. +
T Consensus 44 ~C~Hi~Kav~l~~lk~~iks~~~~~C~eC~e~~~~k~g~s~~~~~~~~~iWLCLkCG~q~CG~~~~~~halkH~~~~r~~ 123 (877)
T KOG1873|consen 44 ECQHIKKAVDLSHLKRAIKSLLWIKCSECNEEVKVKDGGSSDQFEFDNAIWLCLKCGYQGCGRNSESQHALKHFLTPRSE 123 (877)
T ss_pred ccchHHhhhcHHHHHHHHHHHHHHHHHHhhhcceeccCCCccccccccceeeecccCCeeeCCCcccchhhhhhcccCCC
Confidence 39999 456544431 112347998862 46899999999999999 789999999965 6
Q ss_pred CCceEEecCCCceeecCCCc-ccC-CCC--cch-----------------------------------hc----------
Q 016557 160 GHHVYINLRTEKVYCLPDGY-EIN-DPS--LED-----------------------------------IR---------- 190 (387)
Q Consensus 160 ~H~v~inl~t~~vyC~~c~~-eV~-D~s--L~~-----------------------------------i~---------- 190 (387)
.|+++||+.++.+|||.|+. .+. +.. +.+ |+
T Consensus 124 ~Hclvin~~n~~~WCy~Cd~kl~~~~~kn~l~e~vd~l~k~a~~~~~~~spn~~~~s~~~ek~e~~ski~~ggie~~~~~ 203 (877)
T KOG1873|consen 124 PHCLVINLINWLIWCYSCDAKLVPFDKKNLLGEKVDLLIKVASKTSLTRSPNTLKISSEEEKLEKGSKIKKGGIEKRRGY 203 (877)
T ss_pred CeeEEEEeeeeeeEEEeccchhccccchhHHHHHHHHHHHHHhccccccCCCcccchhhHHhhhhcccccccCccccccc
Confidence 89999999999999999998 332 211 100 00
Q ss_pred -ccccccCCCCcchhhHhhHhhccchhhhhhccCCCc--------------------CCCCChHHHHHHHHHHHHHhccC
Q 016557 191 -HVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENY--------------------RHCKSPLVHRFGDLTRKIWHARN 249 (387)
Q Consensus 191 -~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~--------------------~~~~~~l~~~L~~L~~~l~s~~~ 249 (387)
.-||.|+|||||+|||||.|+.+|.||+.|....-. .....+++.+|..|+ .|...
T Consensus 204 ~VrGL~NLGNTCFFNavMQnL~qt~~L~d~l~e~~~Sgt~v~I~~~~~s~l~~L~~el~~~g~lt~al~~~~-e~~e~-- 280 (877)
T KOG1873|consen 204 IVRGLTNLGNTCFFNAVMQNLAQTPALRDVLKEEKESGTSVKIRPPLDSSLSPLFSELSSPGPLTYALANLL-EMSET-- 280 (877)
T ss_pred cccccccccchhhHHHHHHHHhhcHHHHHHHHhhccCCceeEecCccccchhhHHHhccCCcchhHHHHhhh-hhhhc--
Confidence 029999999999999999999999999999754311 023356667777643 34333
Q ss_pred CCCCCchHHHHHHHHHhhcCCCCCCCccCHHHHHHHHHHHHHHHh-hcCCCCCcccccccceEEEEEEEccCCC
Q 016557 250 FKGQVSPHEFLQAVMKASKKRFRIGVQSNPVEFMSWLLNTLHSDL-RNTKKNTSIIYECFQGELEVVKEIPKNT 322 (387)
Q Consensus 250 ~~~~vsP~~ll~~l~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el-~~~~~~~siI~~~F~G~l~~~~~C~~c~ 322 (387)
.++.++|..|+..+... .|+|+++.||||||+|++||+.|..|- ...+ ..|...|+|+......|..|+
T Consensus 281 ~ksv~~Pr~lF~~~C~k-~pqF~g~~QhDsHELLR~LLD~l~~EE~~~~k---k~Il~~fG~~t~~l~scle~~ 350 (877)
T KOG1873|consen 281 TKSVITPRTLFGQFCSK-APQFRGYDQHDSHELLRCLLDSLRSEESRRRK---KNILSNFGGETSSLVSCLECG 350 (877)
T ss_pred cCCccCHHHHHHHHHHh-CCcccccccccHHHHHHHHHHhhhHHHHHHHH---HhHHHhhCccccchhhhhhcc
Confidence 38899999999999998 699999999999999999999998873 2222 238889999999988888885
No 5
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=3.6e-33 Score=279.86 Aligned_cols=250 Identities=22% Similarity=0.277 Sum_probs=197.0
Q ss_pred CCCCchhhhccccc---CCCCCccccccCCCCceEEecccCcccccCCC-----CCcccccccccCCceEEecCC-----
Q 016557 103 RDCPYLDTVNRQVL---DFDFEKFCSVSLSNLNVYACLVCGKYYQGRGQ-----KSHAYTHSLEAGHHVYINLRT----- 169 (387)
Q Consensus 103 ~~c~~l~ti~~~~L---dfd~ek~Cs~c~s~~nl~~CL~CG~~~cGr~~-----~sHa~~H~~~~~H~v~inl~t----- 169 (387)
..|+|.-....... ..+.. .||.|....|+|+||+||.+.|||.+ ++||+.||.+++|+++|.+.+
T Consensus 153 ~tC~H~~n~~~~s~~~~ni~~~-~Cs~CDl~~nLW~Cl~CG~vgCGR~QyG~~GngHAlsHY~~t~Hplavkl~Sls~~~ 231 (749)
T COG5207 153 VTCVHGCNEGPSSIEMGNIGGL-KCSLCDLKTNLWVCLSCGYVGCGRMQYGAEGNGHALSHYEETQHPLAVKLPSLSKED 231 (749)
T ss_pred ccccccCCCCCCcccccccCCc-eeccccchhceEEEEecCcccccceeecCCCCcchhhhhhccCCceEEEcccccccc
Confidence 57998743322222 12223 69999999999999999999999954 899999999999999998875
Q ss_pred CceeecCCCcccCC-C-----------------------Ccchh--------------------------cccccccCCC
Q 016557 170 EKVYCLPDGYEIND-P-----------------------SLEDI--------------------------RHVGLNNIKE 199 (387)
Q Consensus 170 ~~vyC~~c~~eV~D-~-----------------------sL~~i--------------------------~~vGL~NlGN 199 (387)
.++|||.|+.++.- . +|.++ +++||.|+||
T Consensus 232 ~diyCY~CD~e~R~~~n~n~~s~~~~fGinIa~~~~~Eksl~~lq~eqn~nw~F~~~~~~~~sk~~~~ps~~~GliNlGN 311 (749)
T COG5207 232 CDIYCYLCDSEIRSRYNSNENSVTIDFGINIADGKTEEKSLRKLQSEQNANWEFLEKKRAPESKGESVPSPYVGLINLGN 311 (749)
T ss_pred ccEEEEecCcccccCCcccccceeeeeccchhhccchHHHHHHHHHhhhcCcchhccccCchhhcccCCCCccceEecCC
Confidence 58999999998632 1 11111 1359999999
Q ss_pred CcchhhHhhHhhccchhhhhhccCCCcC-----CCCChHHHHHHHHHHHHHhcc--CCCCCCchHHHHHHHHHhhcCCCC
Q 016557 200 TDFVNVTIQSLMRVTPLRNFFLIPENYR-----HCKSPLVHRFGDLTRKIWHAR--NFKGQVSPHEFLQAVMKASKKRFR 272 (387)
Q Consensus 200 TCYmNSVLQ~L~~ip~fr~~~l~~~~~~-----~~~~~l~~~L~~L~~~l~s~~--~~~~~vsP~~ll~~l~~~s~~~F~ 272 (387)
+||+|||||+|+....+..-+....+.. .+..+|.|+|.+|+.+|.... .+...++|..|...|+.. .+.|.
T Consensus 312 sCYl~SviqSlv~~~v~~~~~d~l~~~~~~~~~~P~~~l~CQl~kll~~mk~~p~~~y~ngi~p~~fk~~igq~-h~eFg 390 (749)
T COG5207 312 SCYLSSVIQSLVGYAVSKEEFDLLQHFEICYMKNPLECLFCQLMKLLSKMKETPDNEYVNGISPLDFKMLIGQD-HPEFG 390 (749)
T ss_pred eeeHHHHHHHHhccccchhhhhhhccceeeeecCCchhHHHHHHHHHhhccCCCCccccCCcChhhHHHHHcCC-chhhh
Confidence 9999999999999988876554433322 234678999999999987653 456689999999999998 59999
Q ss_pred CCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecc
Q 016557 273 IGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPF 352 (387)
Q Consensus 273 ~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epF 352 (387)
..+||||+|||++||+.|.+... +-..+.|.++|.-++.....|..|. ..++++++.
T Consensus 391 ~~~QQDA~EFLlfLL~kirk~~~--S~~~~~It~lf~Fe~e~rlsC~~C~---------------------~v~ySye~~ 447 (749)
T COG5207 391 KFAQQDAHEFLLFLLEKIRKGER--SYLIPPITSLFEFEVERRLSCSGCM---------------------DVSYSYESM 447 (749)
T ss_pred hhhhhhHHHHHHHHHHHHhhccc--hhcCCCcchhhhhhhcceecccccc---------------------cccccccce
Confidence 99999999999999999998442 2235678999999999999999998 678889999
Q ss_pred eeeeecCCCCC---ChhHHhhhcCcccc
Q 016557 353 LMLGLDLPPPP---LFKDVMEKNIIPQL 377 (387)
Q Consensus 353 l~LSLdLP~~p---~fkd~le~n~iPqv 377 (387)
.++.+.+...- -...+++..+.||.
T Consensus 448 ~~i~i~le~n~E~~di~~~v~a~f~pdt 475 (749)
T COG5207 448 LMICIFLEGNDEPQDIRKSVEAFFLPDT 475 (749)
T ss_pred EEEEeecccCcchhhHHHHHHheECccc
Confidence 99999887542 24557778888874
No 6
>cd02658 Peptidase_C19B A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.96 E-value=1.5e-29 Score=247.42 Aligned_cols=161 Identities=17% Similarity=0.212 Sum_probs=135.1
Q ss_pred ccccCCCCcchhhHhhHhhccchhhhhhccCCC-----cCCCCChHHHHHHHHHHHHHhccC------------CCCCCc
Q 016557 193 GLNNIKETDFVNVTIQSLMRVTPLRNFFLIPEN-----YRHCKSPLVHRFGDLTRKIWHARN------------FKGQVS 255 (387)
Q Consensus 193 GL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~-----~~~~~~~l~~~L~~L~~~l~s~~~------------~~~~vs 255 (387)
||.|+|||||||||||+|+++|+||++|+...+ ......++.++|.+|+..|++.+. ++.+++
T Consensus 1 GL~NlGNTCY~NsvLQ~L~~~~~f~~~l~~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~i~ 80 (311)
T cd02658 1 GLRNLGNSCYLNSVLQVLFSIPSFQWRYDDLENKFPSDVVDPANDLNCQLIKLADGLLSGRYSKPASLKSENDPYQVGIK 80 (311)
T ss_pred CcccCCcchHHHHHHHHHHCCHHHHHHHhhhccccCCCcCCccccHHHHHHHHHHHhcCCCcCCCccccccccccccccC
Confidence 999999999999999999999999999976321 112345799999999999987532 245799
Q ss_pred hHHHHHHHHHhhcCCCCCCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCC
Q 016557 256 PHEFLQAVMKASKKRFRIGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSD 335 (387)
Q Consensus 256 P~~ll~~l~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~ 335 (387)
|..|+.+++.. .+.|..+.||||||||++||+.|++++... ..+.+.++|+|.++++++|..|+
T Consensus 81 p~~~~~~l~~~-~~~f~~~~QqDa~Efl~~ll~~l~~~~~~~--~~~~~~~~f~~~~~~~i~C~~C~------------- 144 (311)
T cd02658 81 PSMFKALIGKG-HPEFSTMRQQDALEFLLHLIDKLDRESFKN--LGLNPNDLFKFMIEDRLECLSCK------------- 144 (311)
T ss_pred cHHHHHHHhcc-ChhhcccccccHHHHHHHHHHHHHHhhccc--ccCCchhheEEEeeEEEEcCCCC-------------
Confidence 99999999877 599999999999999999999999988532 23568899999999999999997
Q ss_pred CCCCCCCCccceeeecceeeeecCCCCC--------------ChhHHhhhcCcccc
Q 016557 336 GGDDHDNITTETSRMPFLMLGLDLPPPP--------------LFKDVMEKNIIPQL 377 (387)
Q Consensus 336 ~~~~~~~~~~s~~~epFl~LSLdLP~~p--------------~fkd~le~n~iPqv 377 (387)
..+.+.++|++|+|+||..+ .+.++++...-|+.
T Consensus 145 --------~~s~~~e~~~~lsL~l~~~~~~~~~~~~~~~~~~sl~~~L~~~~~~e~ 192 (311)
T cd02658 145 --------KVKYTSELSEILSLPVPKDEATEKEEGELVYEPVPLEDCLKAYFAPET 192 (311)
T ss_pred --------CEEEeecceeEEeeecccccccccccccccCCCCCHHHHHHHHcCccc
Confidence 67888999999999999765 56777777666643
No 7
>cd02663 Peptidase_C19G A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.96 E-value=3e-29 Score=245.02 Aligned_cols=145 Identities=22% Similarity=0.330 Sum_probs=130.5
Q ss_pred ccccCCCCcchhhHhhHhhccchhhhhhccCCCcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhcCCCC
Q 016557 193 GLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASKKRFR 272 (387)
Q Consensus 193 GL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~~~F~ 272 (387)
||.|+|||||||||||+|+| .++.++|+.||+.||.+....+.++|..|+++++.. .+.|.
T Consensus 1 Gl~NlGnTCY~NsvLQ~L~~------------------~~l~~~L~~lf~~l~~~~~~~~~isP~~f~~~l~~~-~~~f~ 61 (300)
T cd02663 1 GLENFGNTCYCNSVLQALYF------------------ENLLTCLKDLFESISEQKKRTGVISPKKFITRLKRE-NELFD 61 (300)
T ss_pred CccCCCcceehhHHHHHhhh------------------HHHHHHHHHHHHHHHhCCCCCeeECHHHHHHHHHhh-cCCCC
Confidence 99999999999999999988 568889999999999875455689999999999887 58999
Q ss_pred CCCccCHHHHHHHHHHHHHHHhhcC----------------CCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCC
Q 016557 273 IGVQSNPVEFMSWLLNTLHSDLRNT----------------KKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDG 336 (387)
Q Consensus 273 ~~~QqDA~EFL~~LLn~L~~el~~~----------------~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~ 336 (387)
++.||||||||++||+.||++++.. ....++|.++|+|++.++++|..|+
T Consensus 62 ~~~QqDA~EFl~~lLd~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~i~~~F~G~~~~~~~C~~C~-------------- 127 (300)
T cd02663 62 NYMHQDAHEFLNFLLNEIAEILDAERKAEKANRKLNNNNNAEPQPTWVHEIFQGILTNETRCLTCE-------------- 127 (300)
T ss_pred CCccccHHHHHHHHHHHHHHHHHHHhhcccccccccccccCCcCCCChhhhCceEEEeeEEeCCCC--------------
Confidence 9999999999999999999998632 2346789999999999999999998
Q ss_pred CCCCCCCccceeeecceeeeecCCCCCChhHHhhhcCcccc
Q 016557 337 GDDHDNITTETSRMPFLMLGLDLPPPPLFKDVMEKNIIPQL 377 (387)
Q Consensus 337 ~~~~~~~~~s~~~epFl~LSLdLP~~p~fkd~le~n~iPqv 377 (387)
..+.+.++|++|+|+||+...+.++++...-|+.
T Consensus 128 -------~~s~~~e~f~~Lsl~i~~~~sl~~~L~~~~~~E~ 161 (300)
T cd02663 128 -------TVSSRDETFLDLSIDVEQNTSITSCLRQFSATET 161 (300)
T ss_pred -------CCccccceeEEeccCCCCcCCHHHHHHHhhcccc
Confidence 6788899999999999999899999998887776
No 8
>cd02660 Peptidase_C19D A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.96 E-value=6.9e-29 Score=243.98 Aligned_cols=162 Identities=26% Similarity=0.399 Sum_probs=138.7
Q ss_pred ccccCCCCcchhhHhhHhhccchhhhhhccCCCcC-----CCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhh
Q 016557 193 GLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYR-----HCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKAS 267 (387)
Q Consensus 193 GL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~-----~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s 267 (387)
||.|+|||||||||||+|+|+|+||++++...+.. ....++.++|..|+..+|.. .....++|..|+.+++..
T Consensus 2 Gl~N~gntCY~NsvLQ~L~~~~~f~~~ll~~~~~~~~~~~~~~~~~~~~l~~l~~~l~~~-~~~~~~~~~~~l~~~~~~- 79 (328)
T cd02660 2 GLINLGATCFMNVILQALLHNPLLRNYFLSDRHSCTCLSCSPNSCLSCAMDEIFQEFYYS-GDRSPYGPINLLYLSWKH- 79 (328)
T ss_pred CccccCcchHHHHHHHHHhcCHHHHHHHhcCccccccccCCccccHHHHHHHHHHHHhcC-CCCCCcCHHHHHHHHHhh-
Confidence 99999999999999999999999999998764321 23457999999999999643 225689999999999887
Q ss_pred cCCCCCCCccCHHHHHHHHHHHHHHHhhcC-------CCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCC
Q 016557 268 KKRFRIGVQSNPVEFMSWLLNTLHSDLRNT-------KKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDH 340 (387)
Q Consensus 268 ~~~F~~~~QqDA~EFL~~LLn~L~~el~~~-------~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~ 340 (387)
.+.|.++.||||||||.+||+.||+++... ....++|+++|+|++.++++|..|+
T Consensus 80 ~~~f~~~~QqDa~Efl~~ll~~l~~~~~~~~~~~~~~~~~~~~i~~~F~g~~~~~~~C~~C~------------------ 141 (328)
T cd02660 80 SRNLAGYSQQDAHEFFQFLLDQLHTHYGGDKNEANDESHCNCIIHQTFSGSLQSSVTCQRCG------------------ 141 (328)
T ss_pred chhhcccccccHHHHHHHHHHHHHHHhhcccccccccccCCceeEEecccEEEeeeEcCCCC------------------
Confidence 478999999999999999999999998643 2235799999999999999999998
Q ss_pred CCCccceeeecceeeeecCCCC---------------CChhHHhhhcCcccc
Q 016557 341 DNITTETSRMPFLMLGLDLPPP---------------PLFKDVMEKNIIPQL 377 (387)
Q Consensus 341 ~~~~~s~~~epFl~LSLdLP~~---------------p~fkd~le~n~iPqv 377 (387)
..+.+.++|+.|+|+||.. ..+.+.+++..-|+.
T Consensus 142 ---~~s~~~e~f~~lsl~i~~~~~~~~~~~~~~~~~~~sl~~~L~~~~~~e~ 190 (328)
T cd02660 142 ---GVSTTVDPFLDLSLDIPNKSTPSWALGESGVSGTPTLSDCLDRFTRPEK 190 (328)
T ss_pred ---CccceecccceeeeeccccccccccccccCCCCCCCHHHHHHHhcCccc
Confidence 6777799999999999986 677888888877765
No 9
>cd02668 Peptidase_C19L A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.96 E-value=1.6e-28 Score=242.26 Aligned_cols=156 Identities=19% Similarity=0.284 Sum_probs=135.4
Q ss_pred ccccCCCCcchhhHhhHhhccchhhhhhccCCCcCC------------CCChHHHHHHHHHHHHHhccCCCCCCchHHHH
Q 016557 193 GLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRH------------CKSPLVHRFGDLTRKIWHARNFKGQVSPHEFL 260 (387)
Q Consensus 193 GL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~------------~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll 260 (387)
||.|+|||||||||||+|+|+|+||++++....... ...+++++|+.|+..||.+. ...++|..|+
T Consensus 1 GL~NlGnTCY~NsvLQ~L~~~~~fr~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~lf~~l~~~~--~~~i~p~~f~ 78 (324)
T cd02668 1 GLKNLGATCYVNSFLQLWFMNLEFRKAVYECNSTEDAELKNMPPDKPHEPQTIIDQLQLIFAQLQFGN--RSVVDPSGFV 78 (324)
T ss_pred CcccCCceeHHHHHHHHHHCCHHHHHHHHccCcccccccccccccCCcccchHHHHHHHHHHHHHhCC--CceEChHHHH
Confidence 899999999999999999999999999986532110 13579999999999999875 6789999999
Q ss_pred HHHHHhhcCCCCCCCccCHHHHHHHHHHHHHHHhhcC--CCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCC
Q 016557 261 QAVMKASKKRFRIGVQSNPVEFMSWLLNTLHSDLRNT--KKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGD 338 (387)
Q Consensus 261 ~~l~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~--~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~ 338 (387)
+++. |..++||||+|||.+||+.|++++... ....++|.++|+|++.++++|..|+
T Consensus 79 ~~l~------~~~~~QqDa~EFl~~lLd~L~~~l~~~~~~~~~~~i~~~F~G~~~~~~~C~~C~---------------- 136 (324)
T cd02668 79 KALG------LDTGQQQDAQEFSKLFLSLLEAKLSKSKNPDLKNIVQDLFRGEYSYVTQCSKCG---------------- 136 (324)
T ss_pred HHhC------CCCccccCHHHHHHHHHHHHHHHHhhccCCcccchhhhhcceEEEEEEEeCCCC----------------
Confidence 9883 567899999999999999999998642 3346899999999999999999998
Q ss_pred CCCCCccceeeecceeeeecCCCCCChhHHhhhcCcccc
Q 016557 339 DHDNITTETSRMPFLMLGLDLPPPPLFKDVMEKNIIPQL 377 (387)
Q Consensus 339 ~~~~~~~s~~~epFl~LSLdLP~~p~fkd~le~n~iPqv 377 (387)
..+.+.++|+.|+|+||+...+.++++...-|+.
T Consensus 137 -----~~s~~~e~f~~l~l~i~~~~sl~~~L~~~~~~e~ 170 (324)
T cd02668 137 -----RESSLPSKFYELELQLKGHKTLEECIDEFLKEEQ 170 (324)
T ss_pred -----CccccccccEEEEEEecccCCHHHHHHHhhCcee
Confidence 5677889999999999998899999999888876
No 10
>COG5560 UBP12 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.96 E-value=1.8e-29 Score=258.66 Aligned_cols=152 Identities=29% Similarity=0.469 Sum_probs=136.0
Q ss_pred ccccCCCCcchhhHhhHhhccchhhhhhccCC--------CcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHH
Q 016557 193 GLNNIKETDFVNVTIQSLMRVTPLRNFFLIPE--------NYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVM 264 (387)
Q Consensus 193 GL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~--------~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~ 264 (387)
||+|+||||||||.||||.|++.||+||+... +..+..+.++.++..|+++++.++ -..++|..|...|+
T Consensus 267 GL~NlGNTCyMNSaLQCL~ht~eLrdyFlsdeye~~iNe~Nplgmhg~vAsayadLik~ly~~~--~haf~Ps~fK~tIG 344 (823)
T COG5560 267 GLRNLGNTCYMNSALQCLMHTWELRDYFLSDEYEESINEENPLGMHGSVASAYADLIKQLYDGN--LHAFTPSGFKKTIG 344 (823)
T ss_pred ceecCCcceecchHHHHHhccHHHHHHhhhhhhHhhhcccCccchhhhHHHHHHHHHHHHhCcc--ccccChHHHHHHHh
Confidence 89999999999999999999999999998643 233455678999999999999876 66899999999999
Q ss_pred HhhcCCCCCCCccCHHHHHHHHHHHHHHHhhc-------------------------------CCCCCcccccccceEEE
Q 016557 265 KASKKRFRIGVQSNPVEFMSWLLNTLHSDLRN-------------------------------TKKNTSIIYECFQGELE 313 (387)
Q Consensus 265 ~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~-------------------------------~~~~~siI~~~F~G~l~ 313 (387)
.. +..|.||.|||++||+.+||+.||++|++ .+++.|||.++|+|..+
T Consensus 345 ~f-n~~fsGy~QQDSqEFiaflLDgLHEdLnRI~~KpytskPdL~~~d~~~vKk~a~ecW~~H~kRNdSiItdLFqgmyK 423 (823)
T COG5560 345 SF-NEEFSGYDQQDSQEFIAFLLDGLHEDLNRIIKKPYTSKPDLSPGDDVVVKKKAKECWWEHLKRNDSIITDLFQGMYK 423 (823)
T ss_pred hh-HHHhcCccchhHHHHHHHHHHHHHHHHHHhhcCcccCCCCCCCcchHHHHHHHHHHHHHHHhcCcccHHHHHHHHhh
Confidence 98 69999999999999999999999999973 15678999999999999
Q ss_pred EEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecceeeeecCCCCCChhHH
Q 016557 314 VVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPFLMLGLDLPPPPLFKDV 368 (387)
Q Consensus 314 ~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epFl~LSLdLP~~p~fkd~ 368 (387)
++.+|+.|+ .+|++++||++||||||-....++.
T Consensus 424 STL~Cp~C~---------------------~vsitfDPfmdlTLPLPvs~vw~ht 457 (823)
T COG5560 424 STLTCPGCG---------------------SVSITFDPFMDLTLPLPVSMVWKHT 457 (823)
T ss_pred ceeeccCcC---------------------ceeeeecchhhccccCchhhccccc
Confidence 999999998 8999999999999999976655544
No 11
>cd02657 Peptidase_C19A A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.96 E-value=1.6e-28 Score=239.26 Aligned_cols=161 Identities=25% Similarity=0.258 Sum_probs=136.3
Q ss_pred ccccCCCCcchhhHhhHhhccchhhhhhccCCCc----CCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhc
Q 016557 193 GLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENY----RHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASK 268 (387)
Q Consensus 193 GL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~----~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~ 268 (387)
||.|+|||||||||||+|+++|+||++++..... .....++.++|+.|+..|+.+. ..++|.+|+..++.. .
T Consensus 1 Gl~N~GntCy~NsvLQ~L~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~l~~L~~~l~~~~---~~i~p~~~~~~l~~~-~ 76 (305)
T cd02657 1 GLTNLGNTCYLNSTLQCLRSVPELRDALKNYNPARRGANQSSDNLTNALRDLFDTMDKKQ---EPVPPIEFLQLLRMA-F 76 (305)
T ss_pred CcccccchhHHHHHHHHHhCCHHHHHHHHhccccccccccchhHHHHHHHHHHHHHHhCC---CcCCcHHHHHHHHHH-C
Confidence 8999999999999999999999999999875432 1234689999999999999763 479999999999887 4
Q ss_pred CCCC------CCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCC
Q 016557 269 KRFR------IGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDN 342 (387)
Q Consensus 269 ~~F~------~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~ 342 (387)
+.|. +++||||+|||.+||+.|++++.......++|+++|+|++.+.++|..|+.
T Consensus 77 ~~f~~~~~~~~~~QqDA~EFl~~lld~L~~~~~~~~~~~~~i~~~F~g~~~~~~~C~~C~~------------------- 137 (305)
T cd02657 77 PQFAEKQNQGGYAQQDAEECWSQLLSVLSQKLPGAGSKGSFIDQLFGIELETKMKCTESPD------------------- 137 (305)
T ss_pred cCcccccCCCCccccCHHHHHHHHHHHHHHHhcccCCCCcHHHHhhceEEEEEEEcCCCCC-------------------
Confidence 7884 559999999999999999999875555678999999999999999999961
Q ss_pred CccceeeecceeeeecCCCC---CChhHHhhhcCcccc
Q 016557 343 ITTETSRMPFLMLGLDLPPP---PLFKDVMEKNIIPQL 377 (387)
Q Consensus 343 ~~~s~~~epFl~LSLdLP~~---p~fkd~le~n~iPqv 377 (387)
..+.+.++|++|+|+||.. ..+.++++...-+++
T Consensus 138 -~~~~~~e~f~~Lsl~i~~~~~~~~l~~~L~~~~~~~~ 174 (305)
T cd02657 138 -EEEVSTESEYKLQCHISITTEVNYLQDGLKKGLEEEI 174 (305)
T ss_pred -CCccccccceEEEeecCCCcccccHHHHHHHhhhhhh
Confidence 3677889999999999986 457888876655544
No 12
>cd02671 Peptidase_C19O A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.95 E-value=3e-27 Score=234.93 Aligned_cols=153 Identities=16% Similarity=0.182 Sum_probs=125.1
Q ss_pred cccccccCCCCcchhhHhhHhhccchhhhhhccCCCcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhcC
Q 016557 190 RHVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASKK 269 (387)
Q Consensus 190 ~~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~~ 269 (387)
.++||.|+|||||||||||+|+|+|+||++++....... .....+.+..+++.+|+.. ...++|..|++++++. ++
T Consensus 23 ~~~GL~NlGnTCYmNSvLQ~L~~~p~fr~~l~~~~~~~~-~~~~~q~~~~~l~~~~~~~--~~~~~P~~~~~~l~~~-~~ 98 (332)
T cd02671 23 PFVGLNNLGNTCYLNSVLQVLYFCPGFKHGLKHLVSLIS-SVEQLQSSFLLNPEKYNDE--LANQAPRRLLNALREV-NP 98 (332)
T ss_pred CCcceeccCceEeHHHHHHHHHcChHHHHHHHhhhcccC-cHHHHHHHHHHHHHHHhhc--ccccCHHHHHHHHHHh-cc
Confidence 357999999999999999999999999999875431111 1112233444556677653 3456799999999987 69
Q ss_pred CCCCCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceee
Q 016557 270 RFRIGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSR 349 (387)
Q Consensus 270 ~F~~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~ 349 (387)
.|.++.||||||||++||+.|+. +|.++|+|++.++++|..|+ +.+.+.
T Consensus 99 ~f~~~~QQDA~EFl~~LLd~L~~----------~i~~~F~g~~~~~~~C~~C~---------------------~~s~~~ 147 (332)
T cd02671 99 MYEGYLQHDAQEVLQCILGNIQE----------LVEKDFQGQLVLRTRCLECE---------------------TFTERR 147 (332)
T ss_pred ccCCccccCHHHHHHHHHHHHHH----------HHHhhhceEEEEEEEeCCCC---------------------Ceecee
Confidence 99999999999999999999994 68899999999999999998 788899
Q ss_pred ecceeeeecCCCCC-------------------ChhHHhhhcCcccc
Q 016557 350 MPFLMLGLDLPPPP-------------------LFKDVMEKNIIPQL 377 (387)
Q Consensus 350 epFl~LSLdLP~~p-------------------~fkd~le~n~iPqv 377 (387)
++|++|+|+||... .+.++++...-|+.
T Consensus 148 E~f~~lsL~i~~~~~~~~~~~~~~~~~~~~~~~tL~~~L~~f~~~E~ 194 (332)
T cd02671 148 EDFQDISVPVQESELSKSEESSEISPDPKTEMKTLKWAISQFASVER 194 (332)
T ss_pred cccEEEEEEeCCCcccccccccccccccccccCCHHHHHHHhCCcce
Confidence 99999999999763 57888888888876
No 13
>cd02661 Peptidase_C19E A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.94 E-value=4.4e-27 Score=227.30 Aligned_cols=162 Identities=23% Similarity=0.386 Sum_probs=138.6
Q ss_pred cccccCCCCcchhhHhhHhhccchhhhhhccCCCcC---CCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhc
Q 016557 192 VGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYR---HCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASK 268 (387)
Q Consensus 192 vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~---~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~ 268 (387)
+||.|+|||||||||||+|+|+|+||++++...+.. ....++.++|..++..++..+ ...++|..|..++... .
T Consensus 2 ~GL~N~gntCY~NsvLQ~L~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~--~~~~~p~~~~~~l~~~-~ 78 (304)
T cd02661 2 AGLQNLGNTCFLNSVLQCLTHTPPLANYLLSREHSKDCCNEGFCMMCALEAHVERALASS--GPGSAPRIFSSNLKQI-S 78 (304)
T ss_pred CCccccCchhHHHHHHHHhhCCHHHHHHHhcchhhhhccCCcchHHHHHHHHHHHHHhCC--CCccChHHHHHHHHHH-H
Confidence 699999999999999999999999999998644221 223478899999998887654 5678999999999887 5
Q ss_pred CCCCCCCccCHHHHHHHHHHHHHHHhhcC----------CCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCC
Q 016557 269 KRFRIGVQSNPVEFMSWLLNTLHSDLRNT----------KKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGD 338 (387)
Q Consensus 269 ~~F~~~~QqDA~EFL~~LLn~L~~el~~~----------~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~ 338 (387)
+.|..+.||||+|||.+||+.|+.++... ....++|.++|+|++.++++|..|+
T Consensus 79 ~~f~~~~qqDa~Efl~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~F~g~~~~~~~C~~C~---------------- 142 (304)
T cd02661 79 KHFRIGRQEDAHEFLRYLLDAMQKACLDRFKKLKAVDPSSQETTLVQQIFGGYLRSQVKCLNCK---------------- 142 (304)
T ss_pred HhhcCcchhhHHHHHHHHHHHHHHHHhhhcccccccCccccCCChhhhcCCcEEeeeEEeCCCC----------------
Confidence 89999999999999999999999886432 2236799999999999999999998
Q ss_pred CCCCCccceeeecceeeeecCCCCCChhHHhhhcCcccc
Q 016557 339 DHDNITTETSRMPFLMLGLDLPPPPLFKDVMEKNIIPQL 377 (387)
Q Consensus 339 ~~~~~~~s~~~epFl~LSLdLP~~p~fkd~le~n~iPqv 377 (387)
..+.+.++|+.|+|+||....+.++++..+-|+.
T Consensus 143 -----~~s~~~e~~~~l~l~i~~~~~l~~~l~~~~~~e~ 176 (304)
T cd02661 143 -----HVSNTYDPFLDLSLDIKGADSLEDALEQFTKPEQ 176 (304)
T ss_pred -----CCcCccccceeeeeecCCCCcHHHHHHHhcCcee
Confidence 5677889999999999999899999998888765
No 14
>cd02666 Peptidase_C19J A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.93 E-value=3.3e-26 Score=228.29 Aligned_cols=157 Identities=20% Similarity=0.286 Sum_probs=128.0
Q ss_pred cccccCCCCcchhhHhhHhhccchhhhhhccCCCcCC--------------C---------CChHHHHHHHHHHHHHhcc
Q 016557 192 VGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRH--------------C---------KSPLVHRFGDLTRKIWHAR 248 (387)
Q Consensus 192 vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~--------------~---------~~~l~~~L~~L~~~l~s~~ 248 (387)
+||.|+||||||||+||+|+++|+||++++....... . ..+++.+|+.||..|+.+.
T Consensus 2 vGL~NlGNTCYmNSlLQ~L~~i~~lR~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~LF~~l~~s~ 81 (343)
T cd02666 2 AGLDNIGNTCYLNSLLQYFFTIKPLRDLVLNFDESKAELASDYPTERRIGGREVSRSELQRSNQFVYELRSLFNDLIHSN 81 (343)
T ss_pred CCcccCCceeHHHHHHHHHHccHHHHHHHHcCCccccccccccccccccCccccchhhhhhHHHHHHHHHHHHHHHHhCC
Confidence 6999999999999999999999999999987541100 0 1158899999999999775
Q ss_pred CCCCCCchHHHHHHHHHhhcCCCCCCCccCHHHHHHHHHHHHHHHhhcCC------------CCCcccccccceEEEEEE
Q 016557 249 NFKGQVSPHEFLQAVMKASKKRFRIGVQSNPVEFMSWLLNTLHSDLRNTK------------KNTSIIYECFQGELEVVK 316 (387)
Q Consensus 249 ~~~~~vsP~~ll~~l~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~~------------~~~siI~~~F~G~l~~~~ 316 (387)
...++|..++..+. | .||||+||+..||+.|+.+++... ...++|+++|.|++++++
T Consensus 82 --~~~v~P~~~l~~l~------~---~QQDa~Ef~~~lld~Le~~lk~~~~~~~~~~~~~~~~~~~~I~~lF~G~~~~~i 150 (343)
T cd02666 82 --TRSVTPSKELAYLA------L---RQQDVTECIDNVLFQLEVALEPISNAFAGPDTEDDKEQSDLIKRLFSGKTKQQL 150 (343)
T ss_pred --CCccCcHHHHHhcc------c---cccchHHHHHHHHHHHHHHhcCccccccCcccccccchhhhhhHhceeeEEEEE
Confidence 57899999998663 2 899999999999999999997432 236789999999999999
Q ss_pred EccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecceeeeecCCC----------CCChhHHhhhcCcccc
Q 016557 317 EIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPFLMLGLDLPP----------PPLFKDVMEKNIIPQL 377 (387)
Q Consensus 317 ~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epFl~LSLdLP~----------~p~fkd~le~n~iPqv 377 (387)
+|..|+ .....+.+.|+|++|+|+|+. ...+.|+++..+-+++
T Consensus 151 ~c~~~~------------------~~~~~s~~~E~F~~L~l~I~~~~~~~~~~~~~~~L~d~L~~~~~~e~ 203 (343)
T cd02666 151 VPESMG------------------NQPSVRTKTERFLSLLVDVGKKGREIVVLLEPKDLYDALDRYFDYDS 203 (343)
T ss_pred EecccC------------------CCCCCccccceeEEEEEecCcccccccccCCCCCHHHHHHHhcChhh
Confidence 987774 012577889999999999985 5667889887765443
No 15
>cd02659 peptidase_C19C A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.93 E-value=6.4e-26 Score=223.45 Aligned_cols=162 Identities=15% Similarity=0.111 Sum_probs=133.6
Q ss_pred ccccccCCCCcchhhHhhHhhccchhhhhhccCC--CcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhc
Q 016557 191 HVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPE--NYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASK 268 (387)
Q Consensus 191 ~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~--~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~ 268 (387)
++||.|+|||||||||||+|+++|+||++++... .......++.++|..|+..|+.+. ...+.|..+. .+....+
T Consensus 2 ~~GL~N~GntCY~NsvLQ~L~~~~~f~~~~l~~~~~~~~~~~~~~~~~l~~lf~~~~~~~--~~~~~~~~~~-~~~~~~~ 78 (334)
T cd02659 2 YVGLKNQGATCYMNSLLQQLYMTPEFRNAVYSIPPTEDDDDNKSVPLALQRLFLFLQLSE--SPVKTTELTD-KTRSFGW 78 (334)
T ss_pred CCCcccCCcchHHHHHHHHHhcCHHHHHHHHcCCCcccCcccccHHHHHHHHHHHHHhCC--ccccCcchhh-eeccCCC
Confidence 5799999999999999999999999999998742 112245678999999999998764 2345555444 2222224
Q ss_pred CCCCCCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCcccee
Q 016557 269 KRFRIGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETS 348 (387)
Q Consensus 269 ~~F~~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~ 348 (387)
..|..+.||||+|||.+||+.|+++++.. ...++|.++|+|++...++|..|+ ..+.+
T Consensus 79 ~~~~~~~QqDa~Efl~~ll~~l~~~~~~~-~~~~~i~~lF~g~~~~~~~C~~C~---------------------~~s~~ 136 (334)
T cd02659 79 DSLNTFEQHDVQEFFRVLFDKLEEKLKGT-GQEGLIKNLFGGKLVNYIICKECP---------------------HESER 136 (334)
T ss_pred CCCCcccchhHHHHHHHHHHHHHHHhccC-cccchhhhhCceEEEeEEEecCCC---------------------ceecc
Confidence 67888999999999999999999988542 235689999999999999999997 67888
Q ss_pred eecceeeeecCCCCCChhHHhhhcCcccc
Q 016557 349 RMPFLMLGLDLPPPPLFKDVMEKNIIPQL 377 (387)
Q Consensus 349 ~epFl~LSLdLP~~p~fkd~le~n~iPqv 377 (387)
.++|++|+|++|+...+.++++..+.|+.
T Consensus 137 ~e~f~~l~l~i~~~~~l~~~l~~~~~~e~ 165 (334)
T cd02659 137 EEYFLDLQVAVKGKKNLEESLDAYVQGET 165 (334)
T ss_pred cccceEEEEEcCCCCCHHHHHHHhcCeeE
Confidence 99999999999998889999999998876
No 16
>cd02664 Peptidase_C19H A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.93 E-value=1.7e-25 Score=221.39 Aligned_cols=146 Identities=23% Similarity=0.371 Sum_probs=122.4
Q ss_pred ccccCCCCcchhhHhhHhhccchhhhhhccCCCc-CCCCChHHHHHHHHHHHHHhccCCCCCCchHH-HHHHHHHhhcCC
Q 016557 193 GLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENY-RHCKSPLVHRFGDLTRKIWHARNFKGQVSPHE-FLQAVMKASKKR 270 (387)
Q Consensus 193 GL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~-~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~-ll~~l~~~s~~~ 270 (387)
||.|+||||||||+||+|+++|+||++++..... ......+..+|..|+..|.... ...+.|.. |+..++ .+.
T Consensus 1 GL~NlGnTCY~NS~LQ~L~~~~~fr~~ll~~~~~~~~~~~~~~~~L~~lf~~l~~~~--~~~~~~~~~~l~~~~---~~~ 75 (327)
T cd02664 1 GLINLGNTCYMNSVLQALFMAKDFRRQVLSLNLPRLGDSQSVMKKLQLLQAHLMHTQ--RRAEAPPDYFLEASR---PPW 75 (327)
T ss_pred CCcCCcccHHHHHHHHHHHCcHHHHHHHHcCCccccCCcchHHHHHHHHHHHHhhcC--CcccCCHHHHHHHhc---ccc
Confidence 8999999999999999999999999999986532 1234567788888887775442 44566665 776653 368
Q ss_pred CCCCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeee
Q 016557 271 FRIGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRM 350 (387)
Q Consensus 271 F~~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~e 350 (387)
|..+.||||||||.+||+.|+ ++|.++|+|++.++++|..|+ ..+.+.+
T Consensus 76 f~~~~QqDa~EFl~~lLd~l~----------~~i~~~F~G~~~~~i~C~~C~---------------------~~s~~~e 124 (327)
T cd02664 76 FTPGSQQDCSEYLRYLLDRLH----------TLIEKMFGGKLSTTIRCLNCN---------------------STSARTE 124 (327)
T ss_pred cCCCCcCCHHHHHHHHHHHHH----------HHHHhhCcEEeEeEEEcCCCC---------------------CEecccc
Confidence 999999999999999999999 479999999999999999998 6788999
Q ss_pred cceeeeecCCCCCChhHHhhhcCcccc
Q 016557 351 PFLMLGLDLPPPPLFKDVMEKNIIPQL 377 (387)
Q Consensus 351 pFl~LSLdLP~~p~fkd~le~n~iPqv 377 (387)
+|+.|+|+|| .+.+.++...-|++
T Consensus 125 ~f~~l~L~i~---sl~~~l~~~~~~E~ 148 (327)
T cd02664 125 RFRDLDLSFP---SVQDLLNYFLSPEK 148 (327)
T ss_pred cceeeecCCC---CHHHHHHHhcCeeE
Confidence 9999999999 67889988887876
No 17
>cd02667 Peptidase_C19K A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.92 E-value=1.4e-25 Score=217.09 Aligned_cols=121 Identities=25% Similarity=0.357 Sum_probs=110.0
Q ss_pred ccccCCCCcchhhHhhHhhccchhhhhhccCCCcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhcCCCC
Q 016557 193 GLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASKKRFR 272 (387)
Q Consensus 193 GL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~~~F~ 272 (387)
||.|+|||||||||||+|+|+|+||++++. +|..|+..++.. .+.|.
T Consensus 1 Gl~N~GntCy~NsvLQ~L~~~~~~~~~~l~--------------------------------~P~~~~~~l~~~-~~~f~ 47 (279)
T cd02667 1 GLSNLGNTCFFNAVMQNLSQTPALRELLSE--------------------------------TPKELFSQVCRK-APQFK 47 (279)
T ss_pred CCcCCCCchHHHHHHHHHhcCHHHHHHHHH--------------------------------CHHHHHHHHHHh-hHhhc
Confidence 999999999999999999999999999976 788889988877 58999
Q ss_pred CCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecc
Q 016557 273 IGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPF 352 (387)
Q Consensus 273 ~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epF 352 (387)
++.||||+|||++||+.|+ ++|+++|+|+++++++|..|+ ..+.+.++|
T Consensus 48 ~~~QqDA~Efl~~lld~l~----------~~i~~~F~G~~~~~i~C~~C~---------------------~~s~~~E~f 96 (279)
T cd02667 48 GYQQQDSHELLRYLLDGLR----------TFIDSIFGGELTSTIMCESCG---------------------TVSLVYEPF 96 (279)
T ss_pred CCchhhHHHHHHHHHHHHH----------HhhhhhcceEEEEEEEcCCCC---------------------CEeCccccc
Confidence 9999999999999999999 478999999999999999998 678889999
Q ss_pred eeeeecCCC----CCChhHHhhhcCcccc
Q 016557 353 LMLGLDLPP----PPLFKDVMEKNIIPQL 377 (387)
Q Consensus 353 l~LSLdLP~----~p~fkd~le~n~iPqv 377 (387)
+.|+|++|. ...++++++...-|+.
T Consensus 97 ~~L~Lp~~~~~~~~~sL~~~L~~~~~~E~ 125 (279)
T cd02667 97 LDLSLPRSDEIKSECSIESCLKQFTEVEI 125 (279)
T ss_pred eEEecCCCcccCCCCCHHHHHHhhcCeeE
Confidence 999999875 3457899998888877
No 18
>KOG1865 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=8e-26 Score=230.74 Aligned_cols=163 Identities=22% Similarity=0.377 Sum_probs=143.7
Q ss_pred ccccccCCCCcchhhHhhHhhccchhhhhhccCCCcCCC---CChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhh
Q 016557 191 HVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRHC---KSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKAS 267 (387)
Q Consensus 191 ~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~~---~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s 267 (387)
..||.|+|||||+|||||||.++|||.+||+...+...| .-|+.|+|...+....... ...|+|..|+.-|...
T Consensus 108 ~~GL~NlGNtCfaNsvlQcLt~T~PLv~yLls~~hs~~C~~~~~C~lc~~q~hi~~A~~~~--g~pisP~~i~s~L~~I- 184 (545)
T KOG1865|consen 108 GAGLQNLGNTCFANSVLQCLTYTPPLVNYLLSREHSRSCHRAKFCMLCTFQAHITRALHNP--GHPISPSQILSNLRNI- 184 (545)
T ss_pred CcceecCCccHHHHHHHHHhcccHHHHHHHHHhhhhhhccccCeeeehHHHHHHHHHhcCC--CCccChHHHHHhhhhh-
Confidence 459999999999999999999999999999987765543 4588999998887765542 3389999999999988
Q ss_pred cCCCCCCCccCHHHHHHHHHHHHHHHhhc-------CCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCC
Q 016557 268 KKRFRIGVQSNPVEFMSWLLNTLHSDLRN-------TKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDH 340 (387)
Q Consensus 268 ~~~F~~~~QqDA~EFL~~LLn~L~~el~~-------~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~ 340 (387)
...|..+.|.||||||+++++.|+.-.-. .....++|+++|+|.|++.++|..|.
T Consensus 185 ~~~f~~grQEDAHEFLr~~vd~mqk~cL~g~~~~~~~sq~ttlv~~iFGG~LrS~vkC~~C~------------------ 246 (545)
T KOG1865|consen 185 SAHFGRGRQEDAHEFLRFTVDAMQKACLPGHKQVDPRSQDTTLVHQIFGGYLRSQIKCLHCK------------------ 246 (545)
T ss_pred cccccCCchhhHHHHHHHHHHHHHHhhcCCCccCCcccccceehhhhhccchhhceecccCC------------------
Confidence 59999999999999999999999987521 23467899999999999999999998
Q ss_pred CCCccceeeecceeeeecCCCCCChhHHhhhcCcccc
Q 016557 341 DNITTETSRMPFLMLGLDLPPPPLFKDVMEKNIIPQL 377 (387)
Q Consensus 341 ~~~~~s~~~epFl~LSLdLP~~p~fkd~le~n~iPqv 377 (387)
.++.++|+.++|+|+|-....+.++|+.+.-|.+
T Consensus 247 ---~vS~tyE~~~dltvei~d~~sl~~AL~qFt~~E~ 280 (545)
T KOG1865|consen 247 ---GVSDTYEPYLDLTLEIQDASSLQQALEQFTKPEK 280 (545)
T ss_pred ---CcccccccccceEEEeccchhHHHHHHHhhhHHh
Confidence 8999999999999999999999999999988877
No 19
>KOG1867 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.91 E-value=1.6e-24 Score=224.49 Aligned_cols=215 Identities=27% Similarity=0.386 Sum_probs=179.8
Q ss_pred cccccC-CCCceEE-ecccCcccccCCCCCcccccccccCCceEEecCCCceeecCCCcccCCCCcchhc----------
Q 016557 123 FCSVSL-SNLNVYA-CLVCGKYYQGRGQKSHAYTHSLEAGHHVYINLRTEKVYCLPDGYEINDPSLEDIR---------- 190 (387)
Q Consensus 123 ~Cs~c~-s~~nl~~-CL~CG~~~cGr~~~sHa~~H~~~~~H~v~inl~t~~vyC~~c~~eV~D~sL~~i~---------- 190 (387)
.|-.|. ....+++ |+.|+ ++++..++|...|+...+|-+.+++.++..||++|.++|++..+..+.
T Consensus 45 ~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~c~~~i~~~~~~~~~~~~~~~~~~~ 122 (492)
T KOG1867|consen 45 NCGTCGVLQIRLAVPCLICD--SLGCLSNSHKLEHSGNKKHNNTIDVNNGLLYCFACPDFIYDAELLKLADIKKYKEQPF 122 (492)
T ss_pred eeEEechhhhhhcccceech--hcccccccccccccccccccccceeehhhheeccCCcEeeccchhhHHHHHhhhccch
Confidence 455554 2344555 89999 888888999999999999999999999999999999999764322110
Q ss_pred --------------------------------------ccccccCCCCcchhhHhhHhhccchhhhhhccCCCcCC---C
Q 016557 191 --------------------------------------HVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRH---C 229 (387)
Q Consensus 191 --------------------------------------~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~---~ 229 (387)
..||+|+|+|||||+|||+|.+.+..+...+...+... .
T Consensus 123 ~~~~~~~~~~~~~~~~~~~t~~~~~~~~~~~~~~~~~~l~g~~n~g~tcfmn~ilqsl~~~~~~~~~~l~~~h~~~~~~~ 202 (492)
T KOG1867|consen 123 HQLDSTLLTHLAEATVCQQTLLKENPKDRLVLSTTALGLRGLRNLGSTCFMNVILQSLLHDPLSRSSFLSGIHSKEPSSS 202 (492)
T ss_pred hhccchhhhhhhhhhccchhcccCCcccccccceeeecccccccccHHHHHHHHHHHhhccchhhccchhhhcccCCCCC
Confidence 01999999999999999999999999988876554321 2
Q ss_pred -CChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhcCCCCCCCccCHHHHHHHHHHHHHHHhhc----------CC
Q 016557 230 -KSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASKKRFRIGVQSNPVEFMSWLLNTLHSDLRN----------TK 298 (387)
Q Consensus 230 -~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~----------~~ 298 (387)
..++.+++..+++.+|++.. ...++|..+++.+|+.+ +.|.++.|||||||+..+++.+|.+.+. .+
T Consensus 203 ~~~~l~~~~~~~~~~~~s~~~-~~~~sp~~~l~~~~k~~-~~~~g~~Qqda~eF~~~~~~~~~~~~~~~~k~~~~~~~~~ 280 (492)
T KOG1867|consen 203 GSSCLVCDLDRLFQALYSGHN-RTPYSPFELLNLVWKHS-PNLAGYEQQDAHEFLIALLDRLHREKDDCGKSLIASQSNK 280 (492)
T ss_pred CCcchhhhhhhhhhHhhcCCC-CCCcChHHHHHHHHHhC-cccccccccchHHHHHHhcccccccccccccccccccCCc
Confidence 45799999999999999854 66899999999999994 9999999999999999999999998821 12
Q ss_pred CCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecceeeeecCCCC
Q 016557 299 KNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPFLMLGLDLPPP 362 (387)
Q Consensus 299 ~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epFl~LSLdLP~~ 362 (387)
...++++.+|.|.|.+.++|..|. ..+++++|||+|+|+||+.
T Consensus 281 ~c~~iv~~~F~G~L~~~v~c~~c~---------------------~~S~~~dpf~disL~i~~~ 323 (492)
T KOG1867|consen 281 QCPCIVHTIFSGTLQSDVTCQTCG---------------------SKSTTYDPFMDISLDIPDQ 323 (492)
T ss_pred ccccccceeecceeccceeehhhc---------------------ceeeeccCccceeeecchh
Confidence 347899999999999999999998 5669999999999999965
No 20
>COG5533 UBP5 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.87 E-value=1.1e-22 Score=194.82 Aligned_cols=172 Identities=20% Similarity=0.268 Sum_probs=132.9
Q ss_pred cchhcccccccCCCCcchhhHhhHhhccchhhhhhc-----cCCCc---CCCCC-hHHHHHHHHHHHHHhccCCCCCCch
Q 016557 186 LEDIRHVGLNNIKETDFVNVTIQSLMRVTPLRNFFL-----IPENY---RHCKS-PLVHRFGDLTRKIWHARNFKGQVSP 256 (387)
Q Consensus 186 L~~i~~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l-----~~~~~---~~~~~-~l~~~L~~L~~~l~s~~~~~~~vsP 256 (387)
++-...+||.|+|||||||++||||+.+..|...|+ ..-+. .+..+ .+...|..|...+-.-. ...|+|
T Consensus 66 ~dn~~p~GL~N~GNtCymNc~lQCl~~~~dL~~M~~~~~ylq~INtd~prg~~g~~~~k~F~~l~~~~~~Hg--~~sis~ 143 (415)
T COG5533 66 KDNLPPNGLRNKGNTCYMNCALQCLLSIGDLNTMLQGRFYLQNINTDFPRGKPGSNAFKQFIALYETPGCHG--PKSISP 143 (415)
T ss_pred hcccCCccccccCceehHHHHHHHHHhhhHHHHHhhhhhhhhhccCCCCCCCcchhHHHHHHHHHhccccCC--Ccccch
Confidence 344445799999999999999999999999887332 22222 22333 34455555555554332 346999
Q ss_pred HHHHHHHHHhhcCCCCCCCccCHHHHHHHHHHHHHHHhhcC----------------------------------CCCCc
Q 016557 257 HEFLQAVMKASKKRFRIGVQSNPVEFMSWLLNTLHSDLRNT----------------------------------KKNTS 302 (387)
Q Consensus 257 ~~ll~~l~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~----------------------------------~~~~s 302 (387)
..|+..+... ++.|++.+|||+|||+.++||.||++++.. ..+.|
T Consensus 144 ~nF~~i~~~~-n~~fs~dmQqD~qEFl~fflD~LHedln~N~Srs~i~~l~de~e~~Reel~l~~~S~~EWn~~L~sn~S 222 (415)
T COG5533 144 RNFIDILSGR-NKLFSGDMQQDSQEFLIFFLDLLHEDLNGNKSRSPILELKDEFEEVREELPLSHFSHHEWNLHLRSNKS 222 (415)
T ss_pred HHHHHHHccc-cccccccchhhHHHHHHHHHHHHHhhhcCCcccccccccchHHHHHHhhcCcchhhhhhhHHhhccchH
Confidence 9999999888 799999999999999999999999998731 23458
Q ss_pred ccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecceeeeecCCCCCC--hhHHhhhcCccccccC
Q 016557 303 IIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPFLMLGLDLPPPPL--FKDVMEKNIIPQLQRL 380 (387)
Q Consensus 303 iI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epFl~LSLdLP~~p~--fkd~le~n~iPqv~l~ 380 (387)
+|-+.|.|+..++++|..|+ ..|+++.+|..|++++|.... +++++.+..-|.- .
T Consensus 223 ~v~~~f~gq~~srlqC~~C~---------------------~TStT~a~fs~l~vp~~~v~~~~l~eC~~~f~~~e~--L 279 (415)
T COG5533 223 LVAKTFFGQDKSRLQCEACN---------------------YTSTTIAMFSTLLVPPYEVVQLGLQECIDRFYEEEK--L 279 (415)
T ss_pred HHHHHHhhhhhhhhhhhhcC---------------------CceeEEeccceeeeccchheeecHHHHHHHhhhHHh--h
Confidence 99999999999999999998 899999999999999997533 6788887777664 4
Q ss_pred CCC
Q 016557 381 SGH 383 (387)
Q Consensus 381 ~~~ 383 (387)
.||
T Consensus 280 ~g~ 282 (415)
T COG5533 280 EGK 282 (415)
T ss_pred cCc
Confidence 554
No 21
>cd02662 Peptidase_C19F A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.86 E-value=3e-22 Score=190.12 Aligned_cols=104 Identities=22% Similarity=0.299 Sum_probs=92.4
Q ss_pred ccccCCCCcchhhHhhHhhccchhhhhhccCCCcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhcCCCC
Q 016557 193 GLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASKKRFR 272 (387)
Q Consensus 193 GL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~~~F~ 272 (387)
||+|+||||||||+||+|+|+|+||++++...
T Consensus 1 Gl~N~g~tCy~ns~lQ~L~~~~~f~~~~~~~~------------------------------------------------ 32 (240)
T cd02662 1 GLVNLGNTCFMNSVLQALASLPSLIEYLEEFL------------------------------------------------ 32 (240)
T ss_pred CCcCCCCccHHHHHHHHHHCCHHHHHHHHHHH------------------------------------------------
Confidence 99999999999999999999999999887521
Q ss_pred CCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccce-eeec
Q 016557 273 IGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTET-SRMP 351 (387)
Q Consensus 273 ~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~-~~ep 351 (387)
.||||||||++||+.|+. .+.++|.|++..+++|..|+ ..+. +.++
T Consensus 33 --~QqDa~EFl~~ll~~l~~----------~i~~~F~g~~~~~i~C~~C~---------------------~~s~~~~e~ 79 (240)
T cd02662 33 --EQQDAHELFQVLLETLEQ----------LLKFPFDGLLASRIVCLQCG---------------------ESSKVRYES 79 (240)
T ss_pred --hhcCHHHHHHHHHHHHHH----------hccCccccEEEEEEEeCCCC---------------------CccCcceee
Confidence 999999999999999993 57889999999999999997 4433 5899
Q ss_pred ceeeeecCCCC-----CChhHHhhhcCcccc
Q 016557 352 FLMLGLDLPPP-----PLFKDVMEKNIIPQL 377 (387)
Q Consensus 352 Fl~LSLdLP~~-----p~fkd~le~n~iPqv 377 (387)
|++|+|+||.. ..++++++...-|++
T Consensus 80 f~~LsL~ip~~~~~~~~sl~~~L~~~~~~E~ 110 (240)
T cd02662 80 FTMLSLPVPNQSSGSGTTLEHCLDDFLSTEI 110 (240)
T ss_pred eeeeEecccccCCCCCCCHHHHHHHhcCccc
Confidence 99999999986 378999998888876
No 22
>PF00443 UCH: Ubiquitin carboxyl-terminal hydrolase; InterPro: IPR001394 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to the MEROPS peptidase family C19 (ubiquitin-specific protease family, clan CA). Families within the CA clan are loosely termed papain-like as protein fold of the peptidase unit resembles that of papain, the type example for clan CA. Predicted active site residues for members of this family and family C1 occur in the same order in the sequence: N/Q, C, H. The type example is human ubiquitin-specific protease 14. Ubiquitin is highly conserved, commonly found conjugated to proteins in eukaryotic cells, where it may act as a marker for rapid degradation, or it may have a chaperone function in protein assembly []. The ubiquitin is released by cleavage from the bound protein by a protease []. A number of deubiquitinising proteases are known: all are activated by thiol compounds [, ], and inhibited by thiol-blocking agents and ubiquitin aldehyde [, ], and as such have the properties of cysteine proteases []. The deubiquitinsing proteases can be split into 2 size ranges (20-30 kDa, IPR001578 from INTERPRO, and 100-200 kDa) []: this family are the 100-200 kDa peptides which includes the Ubp1 ubiquitin peptidase from yeast. Only one conserved cysteine can be identified, along with two conserved histidines. The spacing between the cysteine and the second histidine is thought to be more representative of the cysteine/histidine spacing of a cysteine protease catalytic dyad [].; GO: 0004221 ubiquitin thiolesterase activity, 0006511 ubiquitin-dependent protein catabolic process; PDB: 2LBC_A 3MHH_A 3MHS_A 3M99_A 2Y6E_D 2VHF_A 2HD5_A 3NHE_A 2IBI_A 1NBF_B ....
Probab=99.85 E-value=1.6e-21 Score=182.19 Aligned_cols=131 Identities=27% Similarity=0.515 Sum_probs=111.5
Q ss_pred ccccccCCCCcchhhHhhHhhccchhhhhhccCC--------CcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHH
Q 016557 191 HVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPE--------NYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQA 262 (387)
Q Consensus 191 ~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~--------~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~ 262 (387)
++||.|+||||||||+||+|+++|+||++++... ........+..+|..|+..||........+.|..|+.+
T Consensus 1 ~~Gl~N~gntCylNs~lQ~L~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~l~~l~~~~~~~~~~~~~i~~~~~~~~ 80 (269)
T PF00443_consen 1 PVGLQNIGNTCYLNSVLQCLFHIPPFRNYLLSYNSEKENNESNPSKKIKEFLQQLQNLFRSLWSSNSSDSSISPSDFINA 80 (269)
T ss_dssp --EESBSSSTHHHHHHHHHHHTSHHHHHHHHTTCHHHHHHCSSTTSCTCHHHHHHHHHHHHHHSSCSSSSEEHCHHHHHH
T ss_pred CCCcEeCCCchHHhHHHHhhhhhhhhhhhhhhcccchhhccccccccccchhhhhhhhhhhhhhhcccccceeecccccc
Confidence 3699999999999999999999999999998751 11223457999999999999988444779999999999
Q ss_pred HHHhhcCCCCCCCccCHHHHHHHHHHHHHHHhhcC----------CCCCcccccccceEEEEEEEccCCC
Q 016557 263 VMKASKKRFRIGVQSNPVEFMSWLLNTLHSDLRNT----------KKNTSIIYECFQGELEVVKEIPKNT 322 (387)
Q Consensus 263 l~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~----------~~~~siI~~~F~G~l~~~~~C~~c~ 322 (387)
+.... +.|..+.||||+|||..||+.|++++... ....+++.++|.|++...+.|..|+
T Consensus 81 l~~~~-~~~~~~~qqDa~E~l~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~c~~c~ 149 (269)
T PF00443_consen 81 LSSIN-PSFSNGEQQDAHEFLSFLLDWLDEEFNSSFKRKSWKNTNSSEDSLISDLFGGQFESSIKCSSCK 149 (269)
T ss_dssp HHHHC-GGGGSSSTEEHHHHHHHHHHHHHHHHTSCSSHHHHHHHHCCEESHHHHHH-EEEEEEEEETTTT
T ss_pred ccccc-cccccccccchhhhhcccccccchhhcccccccccccccccccccccccccccccccccccccc
Confidence 99884 67999999999999999999999997653 2457889999999999999999997
No 23
>KOG1868 consensus Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.78 E-value=3e-19 Score=189.22 Aligned_cols=158 Identities=27% Similarity=0.377 Sum_probs=129.4
Q ss_pred CcchhcccccccCCCCcchhhHhhHhhccchhhhhhccCC-----C--cCCCCChHHHHHHHHHHHHHhccCCCCCCchH
Q 016557 185 SLEDIRHVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPE-----N--YRHCKSPLVHRFGDLTRKIWHARNFKGQVSPH 257 (387)
Q Consensus 185 sL~~i~~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~-----~--~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~ 257 (387)
..+....+||.|+|||||||++||||+.++.||..||... + .......+..++..++.++|.... ...+.|.
T Consensus 295 ~~~~~~~~GL~NlGntC~mn~ilQCl~~t~~lr~~~L~~~~~~~i~~~~~~~~~~l~~~~~~~l~~~~~~~~-~~s~~P~ 373 (653)
T KOG1868|consen 295 STDVFGCPGLRNLGNTCFMNSILQCLFSTGELRDNFLSIKLPQFINLDLFFGAEELESACAKLLQKLWHGHG-QFSVLPR 373 (653)
T ss_pred cccccCCceeccCCcchHHHHHHHHHhhccccchhhhhHHHHHHcccCCcccchhHHHHHHHhhhhhccCCC-ceecCcH
Confidence 3344445799999999999999999999999998777542 1 112345788899999999887632 4468999
Q ss_pred HHHHHHHHhhcCCCCCCCccCHHHHHHHHHHHHHHHhhcC----------------------------------CCCCcc
Q 016557 258 EFLQAVMKASKKRFRIGVQSNPVEFMSWLLNTLHSDLRNT----------------------------------KKNTSI 303 (387)
Q Consensus 258 ~ll~~l~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~----------------------------------~~~~si 303 (387)
.|+..+... .+.|.++.|||+|||+.++++.||+++... ....+.
T Consensus 374 ~f~~~~~~y-~~~~~~~~Qqd~qEfl~~lld~Lhe~ln~~~~~~~~~p~~~~~~~~~~~~~~s~~s~~~w~~~~~~~d~~ 452 (653)
T KOG1868|consen 374 RFIRVLKRY-SPNFSGYSQQDAQEFLIFLLDRLHEELNENTRPLKLSPLMGSYLLSELELSDSKKSLAEWLRYLEEEDSK 452 (653)
T ss_pred HHHHHHhhc-ccccccccccchHHHHHHHHHhhhHhhhccCCCCccCccccccccccccccccchhHHHHHhhccccchH
Confidence 999999888 599999999999999999999999998631 012344
Q ss_pred cccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecceeeeecCCCCCCh
Q 016557 304 IYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPFLMLGLDLPPPPLF 365 (387)
Q Consensus 304 I~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epFl~LSLdLP~~p~f 365 (387)
|-++|+|++++..+|..|+ ..++++++|++|+|+||.....
T Consensus 453 i~~lf~gQ~ks~Lkc~~cg---------------------~~s~t~~~f~~lslpIp~~~~~ 493 (653)
T KOG1868|consen 453 IGDLFVGQLKSYLKCQACG---------------------YTSTTFETFTDLSLPIPKKGFA 493 (653)
T ss_pred HHHHHHHHHHhheehhhcC---------------------CcceeeecceeeEEeccccccc
Confidence 8899999999999999988 7899999999999999986553
No 24
>cd02674 Peptidase_C19R A subfamily of peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.71 E-value=8.6e-18 Score=156.71 Aligned_cols=92 Identities=32% Similarity=0.450 Sum_probs=84.0
Q ss_pred ccccCCCCcchhhHhhHhhccchhhhhhccCCCcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhcCCCC
Q 016557 193 GLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASKKRFR 272 (387)
Q Consensus 193 GL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~~~F~ 272 (387)
||.|.|||||+||+||+|.+
T Consensus 1 gl~n~~~~cy~n~~~Q~l~~------------------------------------------------------------ 20 (230)
T cd02674 1 GLRNLGNTCYMNSILQCLSA------------------------------------------------------------ 20 (230)
T ss_pred CccccCcchhhhHHHHHHHH------------------------------------------------------------
Confidence 89999999999999999999
Q ss_pred CCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecc
Q 016557 273 IGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPF 352 (387)
Q Consensus 273 ~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epF 352 (387)
.||||+||+++||+.|+ ++|.++|+|++..+++|..|+ ..+.+.++|
T Consensus 21 --~QqDa~Ef~~~ll~~l~----------~~i~~~F~~~~~~~~~C~~C~---------------------~~~~~~e~~ 67 (230)
T cd02674 21 --DQQDAQEFLLFLLDGLH----------SIIVDLFQGQLKSRLTCLTCG---------------------KTSTTFEPF 67 (230)
T ss_pred --hhhhHHHHHHHHHHHHh----------hhHHheeCCEEeCcEEcCCCc---------------------CCcceecce
Confidence 89999999999999999 468999999999999999998 667788999
Q ss_pred eeeeecCCCCC------ChhHHhhhcCcccc
Q 016557 353 LMLGLDLPPPP------LFKDVMEKNIIPQL 377 (387)
Q Consensus 353 l~LSLdLP~~p------~fkd~le~n~iPqv 377 (387)
+.|+|+||+.. .+.+.++...-|+.
T Consensus 68 ~~l~l~ip~~~~~~~~~sl~~~L~~~~~~e~ 98 (230)
T cd02674 68 TYLSLPIPSGSGDAPKVTLEDCLRLFTKEET 98 (230)
T ss_pred eEEEEecccccCCCCCCCHHHHHHHhcCccc
Confidence 99999999765 78899988777764
No 25
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.69 E-value=6.3e-18 Score=176.82 Aligned_cols=168 Identities=18% Similarity=0.183 Sum_probs=140.2
Q ss_pred CcchhcccccccCCCCcchhhHhhHhhccchhhhhhccCC-CcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHH
Q 016557 185 SLEDIRHVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPE-NYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAV 263 (387)
Q Consensus 185 sL~~i~~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~-~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l 263 (387)
|-+..+||||+|.|.||||||+||+|+.+..||+..+... ......+.++.+|+++|..|..+ ..+|+..+|...+
T Consensus 187 SKkeTGYVGlrNqGATCYmNSLlQslffi~~FRk~Vy~ipTd~p~grdSValaLQr~Fynlq~~---~~PvdTteltrsf 263 (1089)
T COG5077 187 SKKETGYVGLRNQGATCYMNSLLQSLFFIAKFRKDVYGIPTDHPRGRDSVALALQRLFYNLQTG---EEPVDTTELTRSF 263 (1089)
T ss_pred cccceeeeeeccCCceeeHHHHHHHHHHHHHHHHHhhcCCCCCCCccchHHHHHHHHHHHHhcc---CCCcchHHhhhhc
Confidence 4455678999999999999999999999999999988654 12234567889999999999876 5689999999999
Q ss_pred HHhhcCCCCCCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCC
Q 016557 264 MKASKKRFRIGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNI 343 (387)
Q Consensus 264 ~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~ 343 (387)
.+.+ +...+|||.|||-+.|.+.|+..++.... ...+..+|-|+|++.+.|.+-.
T Consensus 264 gWds---~dsf~QHDiqEfnrVl~DnLEksmrgt~V-Enaln~ifVgkmksyikCvnvn--------------------- 318 (1089)
T COG5077 264 GWDS---DDSFMQHDIQEFNRVLQDNLEKSMRGTVV-ENALNGIFVGKMKSYIKCVNVN--------------------- 318 (1089)
T ss_pred Cccc---chHHHHHhHHHHHHHHHHHHHHhhcCChh-hhHHhHHHHHHhhceeeEEEec---------------------
Confidence 7764 45559999999999999999997754432 4568899999999999999877
Q ss_pred ccceeeecceeeeecCCCCCChhHHhhhcCccccccCCC
Q 016557 344 TTETSRMPFLMLGLDLPPPPLFKDVMEKNIIPQLQRLSG 382 (387)
Q Consensus 344 ~~s~~~epFl~LSLdLP~~p~fkd~le~n~iPqv~l~~~ 382 (387)
..|.+.+-||++.|++....-++++.+..| ||-+.+|
T Consensus 319 yEsarvedfwdiqlNvK~~knLqeSfr~yI--qvE~l~G 355 (1089)
T COG5077 319 YESARVEDFWDIQLNVKGMKNLQESFRRYI--QVETLDG 355 (1089)
T ss_pred hhhhhHHHHHHHHhcccchhhHHHHHHHhh--hheeccC
Confidence 677889999999999999999999998766 4545555
No 26
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.67 E-value=6e-17 Score=182.35 Aligned_cols=159 Identities=18% Similarity=0.203 Sum_probs=135.9
Q ss_pred cccccCCCCcchhhHhhHhhccchhhhhhccCC---CcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhc
Q 016557 192 VGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPE---NYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASK 268 (387)
Q Consensus 192 vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~---~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~ 268 (387)
+||.|+|+||||||+||+|+.++.||..++... ........+..+|+.||..|..++ ...|.|.++...+.+..
T Consensus 171 vGL~N~GaTCY~NsllQ~lf~~~~FR~~Vy~~~~~~~~~~~~~~v~~~lq~lF~~LQ~s~--~k~Vdt~~~~~~~~~~~- 247 (1093)
T KOG1863|consen 171 VGLKNLGATCYVNSLLQVLFLIPEFRRAVYSIPPFTGHEDPRRSIPLALQRLFYELQMSK--RKYVDTSELTKSLGWDS- 247 (1093)
T ss_pred ccccCCCceeeehHHHHHHHccHHHHHHHhcCCCCCCcccccchHHHHHHHHHHHHhhcC--CCCcCchhhhhhhhccc-
Confidence 899999999999999999999999999998876 223345568899999999999875 56999999999998874
Q ss_pred CCCCCCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCcccee
Q 016557 269 KRFRIGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETS 348 (387)
Q Consensus 269 ~~F~~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~ 348 (387)
....+|||++||++.|++.|+..+.... ....|.++|.|++.+.+.|..|. ..+.+
T Consensus 248 --~~~~~QqDvqEf~~~l~d~LE~~~~~~~-~~~~l~~lf~g~~~~~i~c~~~~---------------------~~s~r 303 (1093)
T KOG1863|consen 248 --NDSFEQQDVQEFLTKLLDWLEDSMIDAK-VENTLQDLFTGKMKSVIKCIDVD---------------------FESSR 303 (1093)
T ss_pred --ccHHhhhhHHHHHHHHHHHHHhhccchh-hhhhhhhhhcCCcceEEEEEeee---------------------eeccc
Confidence 4556999999999999999999886554 46789999999999999999987 56678
Q ss_pred eecceeeeecCCCCCChhHHhhhcCcccc
Q 016557 349 RMPFLMLGLDLPPPPLFKDVMEKNIIPQL 377 (387)
Q Consensus 349 ~epFl~LSLdLP~~p~fkd~le~n~iPqv 377 (387)
.+.|++|.|++-...-+.+++...+-+.+
T Consensus 304 ~e~f~d~ql~~~g~~nl~~sf~~y~~~E~ 332 (1093)
T KOG1863|consen 304 SESFLDLQLNGKGVKNLEDSLHLYFEAEI 332 (1093)
T ss_pred cccccCccccccchhhHHHHHHHhhhHHH
Confidence 89999999999988778888876554443
No 27
>KOG1870 consensus Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.67 E-value=7.9e-17 Score=177.26 Aligned_cols=150 Identities=28% Similarity=0.467 Sum_probs=131.1
Q ss_pred ccccccCCCCcchhhHhhHhhccchhhhhhccCC--------CcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHH
Q 016557 191 HVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPE--------NYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQA 262 (387)
Q Consensus 191 ~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~--------~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~ 262 (387)
..||.|+|||||||+.+|+|.+.+++++||+... +.....+.+...+..++..+|+.. +..|.|..+...
T Consensus 246 ~~Gl~nlGntcfmns~~q~l~~~~~l~e~f~~~~~~~ein~~n~~~~~~~~~~~~~~l~~~~~s~~--~~~v~~~~~~~~ 323 (842)
T KOG1870|consen 246 ETGLSNLGNTCFMNSALQCLSNTPELLEYFLSDLYDREINESNPLGSAGEVASSFADLIKQLWSGN--KSAVAPTSFRTS 323 (842)
T ss_pred ccccccCCccccchhhhhhhccCcchhHHHHhHhhHhhhcccCCCcccceechhhhhHHHHhccCC--ccccCchhhhhh
Confidence 4699999999999999999999999999997532 223455678889999999999985 347999999999
Q ss_pred HHHhhcCCCCCCCccCHHHHHHHHHHHHHHHhhcC----------------------------CCCCcccccccceEEEE
Q 016557 263 VMKASKKRFRIGVQSNPVEFMSWLLNTLHSDLRNT----------------------------KKNTSIIYECFQGELEV 314 (387)
Q Consensus 263 l~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~----------------------------~~~~siI~~~F~G~l~~ 314 (387)
+... ++.|.++.|||.+||+.+||+.||+.+... .+..++|.++|.|.+++
T Consensus 324 ~~~~-a~~~~g~~q~d~~E~lafllDglhedl~~~~~kpy~~~~d~~~rp~~~~~~~~~~~~~~~~~s~i~d~~~~~~~S 402 (842)
T KOG1870|consen 324 LASF-ASEFSGYGQQDSQELLAFLLDGLHEDLNRVSSKPYVEGKDSDLRPDQEVAAEVWDYHLKRNRSVIVDLFDGTYKS 402 (842)
T ss_pred hhhc-cccccCcccccchhhhhHHhhhhhHHhhccCCcCcccccccccchhhhhhHHHHHhhhhhccceeeeeecceecc
Confidence 9888 589999999999999999999999998631 34568999999999999
Q ss_pred EEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecceeeeecCCCCCC
Q 016557 315 VKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPFLMLGLDLPPPPL 364 (387)
Q Consensus 315 ~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epFl~LSLdLP~~p~ 364 (387)
...|..|+ ..+++++||..|+|++|....
T Consensus 403 ~~~c~~C~---------------------~~svt~d~f~~Lslp~p~~~~ 431 (842)
T KOG1870|consen 403 TLQCPTCG---------------------KVSVTFDPFGYLSLPLPGKEI 431 (842)
T ss_pred cccCccCC---------------------CceEEeeccccccccCCCCcc
Confidence 99999998 799999999999999997655
No 28
>PF02148 zf-UBP: Zn-finger in ubiquitin-hydrolases and other protein; InterPro: IPR001607 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents UBP-type zinc finger domains, which display some similarity with the Zn-binding domain of the insulinase family. The UBP-type zinc finger domain is found only in a small subfamily of ubiquitin C-terminal hydrolases (deubiquitinases or UBP) [, ], All members of this subfamily are isopeptidase-T, which are known to cleave isopeptide bonds between ubiquitin moieties. Some of the proteins containing an UBP zinc finger include: Homo sapiens (Human) deubiquitinating enzyme 13 (UBPD) Human deubiquitinating enzyme 5 (UBP5) Dictyostelium discoideum (Slime mold) deubiquitinating enzyme A (UBPA) Saccharomyces cerevisiae (Baker's yeast) deubiquitinating enzyme 8 (UBP8) Yeast deubiquitinating enzyme 14 (UBP14) More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding; PDB: 3GV4_A 3PHD_B 3C5K_A 2UZG_A 3IHP_B 2G43_B 2G45_D 2I50_A 3MHH_A 3MHS_A ....
Probab=99.62 E-value=1.7e-16 Score=120.96 Aligned_cols=61 Identities=36% Similarity=0.625 Sum_probs=54.1
Q ss_pred ccccCCC-CceEEecccCcccccCCCCCcccccccccCCceEEecCCCceeecCCCcccCCC
Q 016557 124 CSVSLSN-LNVYACLVCGKYYQGRGQKSHAYTHSLEAGHHVYINLRTEKVYCLPDGYEINDP 184 (387)
Q Consensus 124 Cs~c~s~-~nl~~CL~CG~~~cGr~~~sHa~~H~~~~~H~v~inl~t~~vyC~~c~~eV~D~ 184 (387)
|+.|... .++|+||+||.++||++.++||+.|+++++|+++|++.+..||||+|+++|.|+
T Consensus 1 C~~C~~~~~~lw~CL~Cg~~~C~~~~~~Ha~~H~~~~~H~l~v~~~~~~i~C~~C~~~v~~~ 62 (63)
T PF02148_consen 1 CSVCGSTNSNLWLCLTCGYVGCGRYSNGHALKHYKETGHPLAVSLSTGSIWCYACDDYVYDP 62 (63)
T ss_dssp -SSSHTCSSSEEEETTTS-EEETTTSTSHHHHHHHHHT--EEEETTTTCEEETTTTEEEEST
T ss_pred CCCCCCcCCceEEeCCCCcccccCCcCcHHHHhhcccCCeEEEECCCCeEEEcCCCcEEeCC
Confidence 7788776 899999999999999999999999999999999999999999999999999876
No 29
>cd02673 Peptidase_C19Q A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.61 E-value=9.2e-16 Score=146.70 Aligned_cols=105 Identities=17% Similarity=0.140 Sum_probs=83.3
Q ss_pred cccCCCCcchhhHhhHhhccchhhhhhccCCCcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhcCCCCC
Q 016557 194 LNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASKKRFRI 273 (387)
Q Consensus 194 L~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~~~F~~ 273 (387)
|+|.||+||+|+.+|+|..+- +. .+.|.+
T Consensus 2 ~~~~~~~~~~~~~~~~~~~i~--------------------------------------------------~~-~~~F~~ 30 (245)
T cd02673 2 LVNTGNSCYFNSTMQALSSIG--------------------------------------------------KI-NTEFDN 30 (245)
T ss_pred ceecCCeeeehhHHHHHHHHh--------------------------------------------------hh-hhhcCC
Confidence 789999999999999876421 11 478999
Q ss_pred CCccCHHHHHHHHHHHHHHHhhcCC---------CCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCc
Q 016557 274 GVQSNPVEFMSWLLNTLHSDLRNTK---------KNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNIT 344 (387)
Q Consensus 274 ~~QqDA~EFL~~LLn~L~~el~~~~---------~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~ 344 (387)
+.||||||||++||+.|++++.... .......++|+|++++.++|..|+ .
T Consensus 31 ~~QQDAhEFL~~LLd~l~~~~~~~~~~~~~~~~~~~~~~~~~~F~~~l~s~i~C~~C~---------------------~ 89 (245)
T cd02673 31 DDQQDAHEFLLTLLEAIDDIMQVNRTNVPPSNIEIKRLNPLEAFKYTIESSYVCIGCS---------------------F 89 (245)
T ss_pred CchhhHHHHHHHHHHHHHHHHHhhcccCCCCcccccccCHhHheeeEEEeEEEecCCC---------------------C
Confidence 9999999999999999999775321 011123578999999999999998 7
Q ss_pred cceeeecceeeeecCCCC--CChhHHhh
Q 016557 345 TETSRMPFLMLGLDLPPP--PLFKDVME 370 (387)
Q Consensus 345 ~s~~~epFl~LSLdLP~~--p~fkd~le 370 (387)
.+.+.++|++|+|+||.. ..+++.++
T Consensus 90 ~s~~~e~~~~L~L~i~~~~~~~le~l~~ 117 (245)
T cd02673 90 EENVSDVGNFLDVSMIDNKLDIDELLIS 117 (245)
T ss_pred eeeeccccceeccccccCCcchHHHHHH
Confidence 888999999999999984 44445443
No 30
>cd02665 Peptidase_C19I A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.61 E-value=9.1e-16 Score=145.20 Aligned_cols=98 Identities=20% Similarity=0.269 Sum_probs=85.8
Q ss_pred ccccCCCCcchhhHhhHhhccchhhhhhccCCCcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhcCCCC
Q 016557 193 GLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASKKRFR 272 (387)
Q Consensus 193 GL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~~~F~ 272 (387)
||.|.||||++|+|.|+|++
T Consensus 1 ~~~~~~~~~~~~~~~~~~~~------------------------------------------------------------ 20 (228)
T cd02665 1 GLKNVGNTCWFSAVIQSLFS------------------------------------------------------------ 20 (228)
T ss_pred CccccCcchhHHHHHHHHHH------------------------------------------------------------
Confidence 89999999999999999988
Q ss_pred CCCccCHHHHHHHHHHHHHHHhhcC-------CCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCcc
Q 016557 273 IGVQSNPVEFMSWLLNTLHSDLRNT-------KKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITT 345 (387)
Q Consensus 273 ~~~QqDA~EFL~~LLn~L~~el~~~-------~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~ 345 (387)
.||||+||++.||+.|+++++.. .+..++|.++|+|++.+++.| |+ ..
T Consensus 21 --~QQDa~Ef~~~Lld~Le~~l~~~~~~~~~~~~~~~~i~~lF~G~~~~~~~~--~~---------------------~~ 75 (228)
T cd02665 21 --QQQDVSEFTHLLLDWLEDAFQAAAEAISPGEKSKNPMVQLFYGTFLTEGVL--EG---------------------KP 75 (228)
T ss_pred --HHHHHHHHHHHHHHHHHHHhccccccccccccccchHhhceEEEEEEEEEE--CC---------------------Cc
Confidence 89999999999999999998632 235678999999999987665 44 45
Q ss_pred ceeeecceeeeecCCCCCChhHHhhhcCcc
Q 016557 346 ETSRMPFLMLGLDLPPPPLFKDVMEKNIIP 375 (387)
Q Consensus 346 s~~~epFl~LSLdLP~~p~fkd~le~n~iP 375 (387)
+.+.|+|++|+|+|.....+.++++....+
T Consensus 76 s~~~E~F~~L~l~i~~~~~L~e~L~~~~~e 105 (228)
T cd02665 76 FCNCETFGQYPLQVNGYGNLHECLEAAMFE 105 (228)
T ss_pred ccccCccEEEEEEECCCCCHHHHHHHhhhh
Confidence 678999999999999989999999987666
No 31
>cd02257 Peptidase_C19 Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyse bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.58 E-value=2.6e-15 Score=137.75 Aligned_cols=102 Identities=31% Similarity=0.479 Sum_probs=87.3
Q ss_pred ccccCCCCcchhhHhhHhhccchhhhhhccCCCcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhcCCCC
Q 016557 193 GLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASKKRFR 272 (387)
Q Consensus 193 GL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~~~F~ 272 (387)
||.|+|||||+||+||+|++
T Consensus 1 Gl~N~~n~Cy~ns~lq~l~~------------------------------------------------------------ 20 (255)
T cd02257 1 GLNNLGNTCYLNSVLQALFS------------------------------------------------------------ 20 (255)
T ss_pred CccccCcchHHhHHHHHHHH------------------------------------------------------------
Confidence 89999999999999999999
Q ss_pred CCCccCHHHHHHHHHHHHHHHhhcC-------CCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCcc
Q 016557 273 IGVQSNPVEFMSWLLNTLHSDLRNT-------KKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITT 345 (387)
Q Consensus 273 ~~~QqDA~EFL~~LLn~L~~el~~~-------~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~ 345 (387)
.||||+|||.++|+.|+.++... ....+.|.++|.|.+...+.|..|+ ..
T Consensus 21 --~q~Da~E~l~~ll~~l~~~~~~~~~~~~~~~~~~~~i~~~F~~~~~~~~~c~~c~---------------------~~ 77 (255)
T cd02257 21 --EQQDAHEFLLFLLDKLHEELKKSSKRTSDSSSLKSLIHDLFGGKLESTIVCLECG---------------------HE 77 (255)
T ss_pred --HHHHHHHHHHHHHHHHHHHHHhhcccccccccCCchhhhhcccEEeeEEECCCCC---------------------CC
Confidence 89999999999999999998642 2346789999999999999999997 45
Q ss_pred ceeeecceeeeecCCCC----CChhHHhhhcCcccc
Q 016557 346 ETSRMPFLMLGLDLPPP----PLFKDVMEKNIIPQL 377 (387)
Q Consensus 346 s~~~epFl~LSLdLP~~----p~fkd~le~n~iPqv 377 (387)
+.+...+..|+|++|.. ..+.+.++...-+++
T Consensus 78 ~~~~~~~~~l~l~~~~~~~~~~~l~~~l~~~~~~e~ 113 (255)
T cd02257 78 SVSTEPELFLSLPLPVKGLPQVSLEDCLEKFFKEEI 113 (255)
T ss_pred ccCcccceeEEeeccCCCCCCCcHHHHHHHhhhhhc
Confidence 56666788888888864 688999887776654
No 32
>KOG1866 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.52 E-value=1.7e-14 Score=151.23 Aligned_cols=167 Identities=18% Similarity=0.233 Sum_probs=136.1
Q ss_pred CcchhcccccccCCCCcchhhHhhHhhccchhhhhhccCCCcCC-C----CChHHHHHHHHHHHHHhccCCCCCCchHHH
Q 016557 185 SLEDIRHVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRH-C----KSPLVHRFGDLTRKIWHARNFKGQVSPHEF 259 (387)
Q Consensus 185 sL~~i~~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~-~----~~~l~~~L~~L~~~l~s~~~~~~~vsP~~l 259 (387)
+-.-+.++||+|-|+|||||+++|-|.++|.+|.-++...+... . ...+.+.++.+|..+..++ -..+.|..|
T Consensus 89 sRpp~gfVGLKNagatcyMNav~QQlymIP~Lrh~ll~~~~~td~pd~s~~e~vl~~lQ~iF~hL~~s~--lQyyVPeg~ 166 (944)
T KOG1866|consen 89 SRPPEGFVGLKNAGATCYMNAVIQQLYMIPGLRHLLLAFVGTTDLPDMSGDEKVLRHLQVIFGHLAASQ--LQYYVPEGF 166 (944)
T ss_pred CCCCcceeeecCCCchHHHhhhhhhhhhcccccchhhhhcccccchhhcchHHHHHHHHHHHHHHHHHh--hhhhcchhH
Confidence 44445678999999999999999999999999987765544311 1 2238899999999887665 568999999
Q ss_pred HHHHHHhhcCCCCCCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCC
Q 016557 260 LQAVMKASKKRFRIGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDD 339 (387)
Q Consensus 260 l~~l~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~ 339 (387)
.+.++-. +......+||||-||+..||+.+.+.++.-. ...++...|+|......+|..|.
T Consensus 167 Wk~Fr~~-~~pln~reqhDA~eFf~sLld~~De~LKklg-~p~lf~n~f~G~ysdqKIC~~Cp----------------- 227 (944)
T KOG1866|consen 167 WKQFRLW-GEPLNLREQHDALEFFNSLLDSLDEALKKLG-HPQLFSNTFGGSYSDQKICQGCP----------------- 227 (944)
T ss_pred HHHhhcc-CCccchHhhhhHHHHHHHHHHHHHHHHHHhC-CcHHHHHHhcCccchhhhhccCC-----------------
Confidence 9999776 4667788999999999999999999986433 35788999999999999999998
Q ss_pred CCCCccceeeecceeeeecCCCCCChhHHhhhcCcccc
Q 016557 340 HDNITTETSRMPFLMLGLDLPPPPLFKDVMEKNIIPQL 377 (387)
Q Consensus 340 ~~~~~~s~~~epFl~LSLdLP~~p~fkd~le~n~iPqv 377 (387)
+.-...|+|..|+|+|- ...+.++++...--.|
T Consensus 228 ----HRY~~eE~F~~l~l~i~-~~nLeesLeqfv~gev 260 (944)
T KOG1866|consen 228 ----HRYECEESFTTLNLDIR-HQNLEESLEQFVKGEV 260 (944)
T ss_pred ----cccCccccceeeeeecc-cchHHHHHHHHHHHHH
Confidence 55577899999999999 6666889887654443
No 33
>PF13423 UCH_1: Ubiquitin carboxyl-terminal hydrolase
Probab=99.49 E-value=9.5e-14 Score=135.56 Aligned_cols=160 Identities=24% Similarity=0.288 Sum_probs=130.5
Q ss_pred cccccCCCCcchhhHhhHhhccchhhhhhccCCCcCCCCChHHHHHHHHHHHHH-hccCCCCCCchHHHHHHHHHhhcCC
Q 016557 192 VGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRHCKSPLVHRFGDLTRKIW-HARNFKGQVSPHEFLQAVMKASKKR 270 (387)
Q Consensus 192 vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~~~~~l~~~L~~L~~~l~-s~~~~~~~vsP~~ll~~l~~~s~~~ 270 (387)
+||.|-+++||+||+||+|+.+|++|+.++... ......+|.++|+-||+.|- .++ .....+..|+.+++... ..
T Consensus 1 ~GlEn~~~nsY~NslLQ~l~f~~~~r~~~l~h~-~c~~e~cL~cELgfLf~ml~~~~~--g~~cq~sNflr~l~~~~-~a 76 (295)
T PF13423_consen 1 SGLENHIPNSYCNSLLQVLYFIPPLRNFLLSHL-ECPKEFCLLCELGFLFDMLDSKAK--GINCQASNFLRALSWIP-EA 76 (295)
T ss_pred CCCcCCCCcchHHHHHHHHHhCHHHHHHHHhCc-CCCccccHHHHHHHHHHHhhhhcC--CCcChHHHHHHHHhcCH-HH
Confidence 499999999999999999999999999998755 23456799999999999998 543 44678889999998762 33
Q ss_pred CCCCCccCHHHHHHHHHHHHHHHhhcCCC------------CCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCC
Q 016557 271 FRIGVQSNPVEFMSWLLNTLHSDLRNTKK------------NTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGD 338 (387)
Q Consensus 271 F~~~~QqDA~EFL~~LLn~L~~el~~~~~------------~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~ 338 (387)
...+.|+|.++|+++||++|+.++..... ..+.|.++|+......++|..|+
T Consensus 77 ~~l~~~~~iq~~~~Fll~~l~~~~~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~c~~c~---------------- 140 (295)
T PF13423_consen 77 AALGLQQDIQSLNRFLLEQLSMELLTFKPDIFHTSENSSSSPESSISQLFGTSFETTIRCTSCG---------------- 140 (295)
T ss_pred HhcchhHHHHHHHHHHHHHHhHHHHhcCcccccccccccCCCcchHHHHhCcceeeeecccccC----------------
Confidence 44566999999999999999999874432 36789999999999999999998
Q ss_pred CCCCCccceeeecceeeeecCCC---CCChhHHhhhcCccc
Q 016557 339 DHDNITTETSRMPFLMLGLDLPP---PPLFKDVMEKNIIPQ 376 (387)
Q Consensus 339 ~~~~~~~s~~~epFl~LSLdLP~---~p~fkd~le~n~iPq 376 (387)
..+.+.++.+.+.|..|+ ...|.+.++..+.-+
T Consensus 141 -----~~~~~~~~~~~~~l~yp~~~~~~tf~~~Le~sl~~e 176 (295)
T PF13423_consen 141 -----HESVKESSTLVLDLPYPPSNSNVTFSQVLEHSLNRE 176 (295)
T ss_pred -----CeEEeecceeeeeccCCCCCccchHHHHHHHHHhhc
Confidence 566777788888888887 466788877765533
No 34
>KOG1871 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=99.31 E-value=4.2e-12 Score=125.75 Aligned_cols=165 Identities=23% Similarity=0.312 Sum_probs=114.5
Q ss_pred hcccccccCCCCcchhhHhhHhhccchhhhhhccCC---Cc-CCCCChHHHHHHHHHHHHHhc-----------------
Q 016557 189 IRHVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPE---NY-RHCKSPLVHRFGDLTRKIWHA----------------- 247 (387)
Q Consensus 189 i~~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~---~~-~~~~~~l~~~L~~L~~~l~s~----------------- 247 (387)
|+.-|+.|-||.|||||+||+|+.++||.+.+-... .. .....+++.++..+++..-+-
T Consensus 26 i~Prg~ink~n~c~~ns~Lqal~~c~pfy~l~~~i~~~~~~~~~~stp~lda~~~~~~df~n~~~~k~~r~N~~~~~~~~ 105 (420)
T KOG1871|consen 26 IDPRGSINKCNICFMNSILQALLYCSPFYNLLELIKRADGTVKEGSTPLLDASRPASSDFNNDSDAKLPRKNSLRVPEHV 105 (420)
T ss_pred cCCccccccceeEeeHHHHHHHHhCccHHHHHHhhhhhcCceecccchhHHHHHHHHhhccccchhhhhhhccCCccccc
Confidence 445699999999999999999999999998774322 11 122345666655554433210
Q ss_pred ---------cCCCCCCchHHHHHHHHHhhcCCCC---CCCccCHHHHHHHHHHHHHHHhhcC------------------
Q 016557 248 ---------RNFKGQVSPHEFLQAVMKASKKRFR---IGVQSNPVEFMSWLLNTLHSDLRNT------------------ 297 (387)
Q Consensus 248 ---------~~~~~~vsP~~ll~~l~~~s~~~F~---~~~QqDA~EFL~~LLn~L~~el~~~------------------ 297 (387)
......+-|..+...++.. ++|. .|.|.||.|||..+||.||+++-..
T Consensus 106 ~~~ses~~~d~~~dav~~d~~~~~l~t~--~~~e~~~~g~qedAeefl~~~ld~lhee~~~v~~~~~~~n~e~t~~~~i~ 183 (420)
T KOG1871|consen 106 VEKSESNKSDLQGDAVKPDPIYLDLLTM--SRFESLQVGKQEDAEEFLLDNLDFLHEESSEVPTELVPPNDEFTPRGLIN 183 (420)
T ss_pred cchhhhhhhcccCccccCCchhhhcccC--CchhhccccccccHHHHHHHHHhhhhHHHHhhhhhhcCCccccccccccc
Confidence 0112345566666666654 3443 5889999999999999999997420
Q ss_pred ------------------------------------CCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCC
Q 016557 298 ------------------------------------KKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHD 341 (387)
Q Consensus 298 ------------------------------------~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~ 341 (387)
.-..+.|+++|+|++++++..++-
T Consensus 184 ~~n~~n~~s~~e~~~~~~~~~~~~gk~~k~~i~r~~~~~~spiS~ifgg~~rs~l~~~~n-------------------- 243 (420)
T KOG1871|consen 184 NGNLCNLDSTEEAGLSESSGVQLLGKIQKTDIPRADSFVRSPISEIFGGQLRSVLYQPSN-------------------- 243 (420)
T ss_pred ccccccccchhhcccccCchhhhcCCcccCccCCCCCcccCcHHHhhccccccceecccc--------------------
Confidence 112578999999999998876554
Q ss_pred CCccceeeecceeeeecCCC--CCChhHHhhhcCcccc
Q 016557 342 NITTETSRMPFLMLGLDLPP--PPLFKDVMEKNIIPQL 377 (387)
Q Consensus 342 ~~~~s~~~epFl~LSLdLP~--~p~fkd~le~n~iPqv 377 (387)
+.+.+.+||..|.|||-. ....+++++...-+.+
T Consensus 244 --keS~tlqPF~tlqldiq~~~i~sv~~ales~~~re~ 279 (420)
T KOG1871|consen 244 --KESATLQPFFTLQLDIQSEKIHSVQDALESLVARES 279 (420)
T ss_pred --ccccccCccceeeeeeeccccCCHHHHhhccChhhc
Confidence 466889999999999944 4445677765544443
No 35
>KOG2026 consensus Spindle pole body protein - Sad1p [Cytoskeleton]
Probab=99.10 E-value=8.5e-12 Score=123.30 Aligned_cols=166 Identities=19% Similarity=0.043 Sum_probs=131.3
Q ss_pred Cccccc-CCCCCccccccccccccCCCCCCCCCCCCCCCCCcCCCCCCCChHHhhhcCCC--------CCCCCcCCCCCC
Q 016557 1 MTKKRK-NNGSADEDRHVKSVKVVEQSSPSPPRLGFENPLLPLANTYDDDDEEEEYGGRG--------DSGAKVGQNGRT 71 (387)
Q Consensus 1 ~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~--------~~~~~~~~~~~~ 71 (387)
|+++|. ..+.-....++++.++.+.++++|+++++.| |.|+|+.|+|++++-+++.+- |++.. +...
T Consensus 1 m~~k~~~~~~~~~~yldtv~r~vldfd~ek~c~vslsn-LnvyAclvcg~y~qgr~~kS~A~~h~l~~ghhvf---~nl~ 76 (442)
T KOG2026|consen 1 MKVKKIKKQEPNYAYLETVVRRVLDFDFEKPCSVSLSN-LNVYACLVCGKYFQGRGEKSHAYTHSLEEGHHVF---LNLS 76 (442)
T ss_pred CccchhcccCcchHhhhhhhhhhccccCCCCCcccccc-cceeeeeeeCchhhCcCccccchhccccccccce---eccc
Confidence 666766 5544555888899999999999999999999 999999999888883333221 44444 3355
Q ss_pred CCCCCCCCC--CcchhhcCCCCCCCCCcCcCCCC-CCCchhhhcc---cccCCCCCccccccCCCCceEEecccCccccc
Q 016557 72 GEDDDEDKD--EDEDDLANGYGQGQRSRLVEVRR-DCPYLDTVNR---QVLDFDFEKFCSVSLSNLNVYACLVCGKYYQG 145 (387)
Q Consensus 72 ~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~-~c~~l~ti~~---~~Ldfd~ek~Cs~c~s~~nl~~CL~CG~~~cG 145 (387)
+|.....++ +++++++. +..+.....+.++ .||+||+++| ..||++..-.|.+.+++.+.+.|..|+.++.+
T Consensus 77 telkfyvlpe~~ei~d~s~--~~ikhslkptftr~~cp~lD~~nr~~~raLd~~tYLpG~VGLnNik~~dy~n~vl~~ls 154 (442)
T KOG2026|consen 77 TELKFYVLPENYEIDDPSL--GDIKHSLKPTFTKTDCPNLDKVNRKLSRALDGSTYLPGFVGLNNIKANDYANAVLQALS 154 (442)
T ss_pred cceeEEecchhccccCchh--hhhhccccceeehhhcccccccchhhhhhhcCCcceeeeeccchhhhHHHHHHHHHHHh
Confidence 654444433 44556666 8888999999998 9999999999 88999999999999999999999999999999
Q ss_pred CCCCCcccccccccCCceEEecCCCceeecC
Q 016557 146 RGQKSHAYTHSLEAGHHVYINLRTEKVYCLP 176 (387)
Q Consensus 146 r~~~sHa~~H~~~~~H~v~inl~t~~vyC~~ 176 (387)
+-...+.+.|..+. +.+..+..|+|++
T Consensus 155 ~v~PlRnyFl~~~n----~~d~~~~lv~rl~ 181 (442)
T KOG2026|consen 155 HVVPLRNYFLLEEN----YFDNLTELVQRLG 181 (442)
T ss_pred ccchhhhhhccccc----ccchhHHHHHHHH
Confidence 98888888887654 6666677778876
No 36
>cd02672 Peptidase_C19P A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.10 E-value=1.6e-11 Score=118.97 Aligned_cols=115 Identities=23% Similarity=0.270 Sum_probs=86.4
Q ss_pred chhcccccccCCCCcchhhHhhHhhccchhhhhhccCCCcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHh
Q 016557 187 EDIRHVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKA 266 (387)
Q Consensus 187 ~~i~~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~ 266 (387)
...+++||.|.|.|||+||+||+|.++|+||+++....+......+|.++|+-|| ..+
T Consensus 11 n~t~~~gl~~~~~~~y~n~~lq~~~~~~~~~~~~~~~~~~~~~~~~l~~el~~lf---------------s~~------- 68 (268)
T cd02672 11 NKTNYAGLENHITNSYCNSLLQLLYFIPPFRNFTAIILVACPKESCLLCELGYLF---------------STL------- 68 (268)
T ss_pred ccccccccccCCccchHHHHHHHHHhcHHHHHHHHhhcccCCcCccHHHHHHHHH---------------HHH-------
Confidence 4556889999999999999999999999999974333333344679999999999 001
Q ss_pred hcCCCCCCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccc
Q 016557 267 SKKRFRIGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTE 346 (387)
Q Consensus 267 s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s 346 (387)
.+-|-.+|++.++.+..... ..|+ ..+
T Consensus 69 ------------iq~F~~fll~~i~~~~~~~~--------------------~~C~---------------------~~s 95 (268)
T cd02672 69 ------------IQNFTRFLLETISQDQLGTP--------------------FSCG---------------------TSR 95 (268)
T ss_pred ------------HHHHHHHHHHHHHHHhcccC--------------------CCCC---------------------cee
Confidence 13466888888886542111 4565 688
Q ss_pred eeeecceeeeecCCCC-----CChhHHhhhcCccc
Q 016557 347 TSRMPFLMLGLDLPPP-----PLFKDVMEKNIIPQ 376 (387)
Q Consensus 347 ~~~epFl~LSLdLP~~-----p~fkd~le~n~iPq 376 (387)
.+.++|+.|+|++|+. ..|.+.++...-++
T Consensus 96 ~~~~~~~~LsLpip~~~~~~~~sl~~cL~~~~~~E 130 (268)
T cd02672 96 NSVSLLYTLSLPLGSTKTSKESTFLQLLKRSLDLE 130 (268)
T ss_pred eccccceeeeeecCccccccCCCHHHHHHHHhhhh
Confidence 8899999999999964 47888888776665
No 37
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=99.03 E-value=1.7e-10 Score=83.56 Aligned_cols=49 Identities=39% Similarity=0.605 Sum_probs=45.9
Q ss_pred cccccCCCCceEEecccCcccccCCCCCcccccccccCCceEEecCCCc
Q 016557 123 FCSVSLSNLNVYACLVCGKYYQGRGQKSHAYTHSLEAGHHVYINLRTEK 171 (387)
Q Consensus 123 ~Cs~c~s~~nl~~CL~CG~~~cGr~~~sHa~~H~~~~~H~v~inl~t~~ 171 (387)
.|+.|.+..++|+||+||.++||+...+|++.|+.+++|++++++.+++
T Consensus 1 ~C~~C~~~~~l~~CL~C~~~~c~~~~~~h~~~H~~~t~H~~~~~~~~~~ 49 (50)
T smart00290 1 RCSVCGTIENLWLCLTCGQVGCGRYQLGHALEHFEETGHPLVVKLGTQR 49 (50)
T ss_pred CcccCCCcCCeEEecCCCCcccCCCCCcHHHHHhhhhCCCEEEEccccc
Confidence 4899999889999999999999999889999999999999999998875
No 38
>KOG0804 consensus Cytoplasmic Zn-finger protein BRAP2 (BRCA1 associated protein) [General function prediction only]
Probab=98.95 E-value=2.9e-10 Score=114.28 Aligned_cols=62 Identities=26% Similarity=0.493 Sum_probs=58.5
Q ss_pred CccccccCCCCceEEecccCcccccCCCCCcccccccccCCceEEecCCCceeecCCCcccC
Q 016557 121 EKFCSVSLSNLNVYACLVCGKYYQGRGQKSHAYTHSLEAGHHVYINLRTEKVYCLPDGYEIN 182 (387)
Q Consensus 121 ek~Cs~c~s~~nl~~CL~CG~~~cGr~~~sHa~~H~~~~~H~v~inl~t~~vyC~~c~~eV~ 182 (387)
.+.|..|....|+|+||.||.+.|||+..+||..|+.+++|++.+.+.|.+||-|+-+.+|.
T Consensus 228 ~~~c~~c~~~~~LwicliCg~vgcgrY~eghA~rHweet~H~yalel~tqrVWDYAGDnYVh 289 (493)
T KOG0804|consen 228 SSLCLACGCTEDLWICLICGNVGCGRYKEGHARRHWEETGHCYALELETQRVWDYAGDNYVH 289 (493)
T ss_pred hhhhhhhcccccEEEEEEccceecccccchhHHHHHHhhcceEEEeecceeeeecccchhhh
Confidence 56899999999999999999999999999999999999999999999999999999777773
No 39
>KOG4598 consensus Putative ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.94 E-value=1e-10 Score=122.29 Aligned_cols=147 Identities=18% Similarity=0.191 Sum_probs=116.9
Q ss_pred CCCcchhcccccccCCCCcchhhHhhHhhccchhhhhhccCCCcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHH
Q 016557 183 DPSLEDIRHVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQA 262 (387)
Q Consensus 183 D~sL~~i~~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~ 262 (387)
..++.-.+||||+|...|||+|+.+|+|+..|.||+.++... +..+....|.+.
T Consensus 79 ~~~~~~~~yvglvnqa~~~~l~~~~~a~~~~~~~~~~~yts~--------------------------~~~~et~dlt~s 132 (1203)
T KOG4598|consen 79 PVDENGHRYVGLVNQASNDLLFEQSCAISLHDSGISKCYTSE--------------------------NDSLETKDLTQS 132 (1203)
T ss_pred ccccCCcceEeehhhHHHHHHHHHhhhhccChhhhhhhhCCC--------------------------cccccchhhHhh
Confidence 345666789999999999999999999999999998876322 334556667777
Q ss_pred HHHhhcCCCCCCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCC
Q 016557 263 VMKASKKRFRIGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDN 342 (387)
Q Consensus 263 l~~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~ 342 (387)
+.+.++ ..++|||.+|+.+.+++.|+-.++..+ ....|++++.|+|...+.|..|+
T Consensus 133 fgw~s~---ea~~qhdiqelcr~mfdalehk~k~t~-~~~li~~ly~g~m~d~v~cl~c~-------------------- 188 (1203)
T KOG4598|consen 133 FGWTSN---EAYDQHDVQELCRLMFDALEHKWKGTE-HEKLIQDLYRGTMEDFVACLKCG-------------------- 188 (1203)
T ss_pred cCCCcc---hhhhhhhHHHHHHHHHHHHHhhhcCch-HHHHHHHHhcchHHHHHHHHHcC--------------------
Confidence 766543 346999999999999999998776543 35689999999999999999998
Q ss_pred CccceeeecceeeeecCCCCC------ChhHHhhhcCccccccCCC
Q 016557 343 ITTETSRMPFLMLGLDLPPPP------LFKDVMEKNIIPQLQRLSG 382 (387)
Q Consensus 343 ~~~s~~~epFl~LSLdLP~~p------~fkd~le~n~iPqv~l~~~ 382 (387)
..+++.+.|++|.|++.|-. ..+.++.++.-|+. .+|
T Consensus 189 -~e~~~~d~fld~pl~v~pfg~~~ay~sieeal~afvqpe~--ldg 231 (1203)
T KOG4598|consen 189 -RESVKTDYFLDLPLAVKPFGAIHAYKSVEEALTAFVQPEL--LDG 231 (1203)
T ss_pred -ccccccceeecccccccCCcchhhhhhHHHHHHHhcChhh--cCC
Confidence 67888999999999998742 24577777777765 444
No 40
>KOG1872 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.93 E-value=4.2e-10 Score=114.12 Aligned_cols=126 Identities=20% Similarity=0.192 Sum_probs=99.7
Q ss_pred cccccCCCCcchhhHhhHhhccchhhhhhccCCCcCC------CCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHH
Q 016557 192 VGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRH------CKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMK 265 (387)
Q Consensus 192 vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~------~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~ 265 (387)
+|+.|+|||||||+.+|+|-.+|+++..+....-... ....++.+++.+|+.+.+. ..+.|..+++.+++
T Consensus 106 ~gl~nlgNtcymnrtVq~lk~v~el~~~~s~~~~~~~~~~t~~~a~~i~~~mR~~f~~~~~~----~~v~pi~llqtl~~ 181 (473)
T KOG1872|consen 106 VGLPNLGNTCYMNRTVQCLKGVPELPDALSLYKRKRGRGDTWERRRRISIETRTCFRPLCEK----GAVAPINLLQTLSS 181 (473)
T ss_pred ccccchhHHHHhhhhhhhhhcCccCcchhhccchhccCCchhhhhhhHHHHHHHHHHhhhcc----CCcchHHHHHHHHH
Confidence 5999999999999999999999999987754331111 1234667777777777653 68999999999998
Q ss_pred hhcCCCCC------CCccCHHHHHHHHHHHHHHHhhcC---CCCCcccccccceEEEEEEEccCCC
Q 016557 266 ASKKRFRI------GVQSNPVEFMSWLLNTLHSDLRNT---KKNTSIIYECFQGELEVVKEIPKNT 322 (387)
Q Consensus 266 ~s~~~F~~------~~QqDA~EFL~~LLn~L~~el~~~---~~~~siI~~~F~G~l~~~~~C~~c~ 322 (387)
.+ |.|.- +.||||.|++..++-.++..+... +.....|...|+..+..+..|..-.
T Consensus 182 ~~-Pqfa~~~~~g~~~qqda~ec~~~~m~~l~~~~~~~~~~~~~~~~~d~~f~~~~~~t~~~~e~e 246 (473)
T KOG1872|consen 182 QY-PQFAEWVEYGIYMQQDAAECWMEEPGMLTEALTVATEAPCLEAEAAAGFGAEFSTTMSCSEGE 246 (473)
T ss_pred Hh-HHHHHHhhhhhHHHHHHhHhHHHhhhheeccccccccccchhHHHHHhhccccccceeeccCc
Confidence 85 77765 899999999999999999877532 2445678889999999888876654
No 41
>KOG1864 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=98.88 E-value=2.2e-09 Score=113.97 Aligned_cols=164 Identities=22% Similarity=0.307 Sum_probs=122.9
Q ss_pred ccccccCCCCcchh--hHhhHhhccchhhhhhccCCCcCCC----CChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHH
Q 016557 191 HVGLNNIKETDFVN--VTIQSLMRVTPLRNFFLIPENYRHC----KSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVM 264 (387)
Q Consensus 191 ~vGL~NlGNTCYmN--SVLQ~L~~ip~fr~~~l~~~~~~~~----~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~ 264 (387)
..|..|.+++|+.| +|.|.+....+++...+........ +..+...+..++...-......+.++|..++..++
T Consensus 232 ~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~i~p~~~~~~~~ 311 (587)
T KOG1864|consen 232 VFGTNNFSNTCCCNFQSVEEALYFCRPFREAVLLYLTSLKRSYIIKEELLTCLLDLFSSISSRKKLVGRISPTRFISDLI 311 (587)
T ss_pred ccCccccCccccccchhhHHHHHhhhhhcccccchhhcccchhhhhHHHHHHhhhhccchhhhcccccccCcchhhhhhh
Confidence 35999999999999 9999999999988666544322211 22233333333333333323355799999999999
Q ss_pred HhhcCCCCCCCccCHHHHHHHHHHHHHHHhhcC-------------------------------CCCCcccccccceEEE
Q 016557 265 KASKKRFRIGVQSNPVEFMSWLLNTLHSDLRNT-------------------------------KKNTSIIYECFQGELE 313 (387)
Q Consensus 265 ~~s~~~F~~~~QqDA~EFL~~LLn~L~~el~~~-------------------------------~~~~siI~~~F~G~l~ 313 (387)
+. +..|..++|||||||+.++++.+.+.+... .....+++.+|+|++.
T Consensus 312 ~~-~~~f~~~~qQda~eF~~~l~~~~~e~~~~~~~~~~~~~~~~~~~gn~~~~~~~~~~~~~~~~~~~~~v~~lf~g~l~ 390 (587)
T KOG1864|consen 312 KE-NELFTNGMQQDAHEFLNFLLNEISETLERESSGTTTKVSPKESDGNSSTSAASWTNKGHHKSLRENWVSKLFQGILT 390 (587)
T ss_pred hc-CCccCchhhccHHHHhhhhccchhhhhhhhccCCcccccccCCCCccccccccccccccccccchhHHHHhhcCeee
Confidence 98 699999999999999999999999876421 0135689999999999
Q ss_pred EEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecceeeeecCC--CCCChhHHhhhcCccc
Q 016557 314 VVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPFLMLGLDLP--PPPLFKDVMEKNIIPQ 376 (387)
Q Consensus 314 ~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epFl~LSLdLP--~~p~fkd~le~n~iPq 376 (387)
.++.|..|. +.+.+.+.|.+++++++ ......+.+..++-+.
T Consensus 391 ~et~Clsc~---------------------t~T~~de~f~D~~~~v~~de~~si~~~l~~~~~~e 434 (587)
T KOG1864|consen 391 NETRCLSCE---------------------TITSRDEGFLDLSVAVEIDENTSITNLLKSFSSTE 434 (587)
T ss_pred eeeeecccc---------------------ccccccccccccceeccccccccHHHHHHHhcchh
Confidence 999999998 78889999999999999 4555566665555443
No 42
>cd02670 Peptidase_C19N A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=97.06 E-value=0.00063 Score=65.26 Aligned_cols=69 Identities=13% Similarity=0.153 Sum_probs=44.0
Q ss_pred CccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEEccCCCCCCCCCCCCCCCCCCCCCCCCccceeeeccee
Q 016557 275 VQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKEIPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPFLM 354 (387)
Q Consensus 275 ~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epFl~ 354 (387)
.||||.||+.+|+++|..-+- +..-++|.|--...- ..+...+.|+.
T Consensus 22 ~q~D~~e~~~~l~~~~~~~~~------~~~~~~~~~g~~~~~---------------------------~~~~~~e~~l~ 68 (241)
T cd02670 22 EQQDPEEFFNFITDKLLMPLL------EPKVDIIHGGKKDQD---------------------------DDKLVNERLLQ 68 (241)
T ss_pred HhcCHHHHHHHHHHHHhhhhh------hHHHHHHhcCccccc---------------------------cccccccceEE
Confidence 899999999999999887432 223345544211100 11445667777
Q ss_pred eeecCCC---CCChhHHhhhcCccc
Q 016557 355 LGLDLPP---PPLFKDVMEKNIIPQ 376 (387)
Q Consensus 355 LSLdLP~---~p~fkd~le~n~iPq 376 (387)
|.++.+. ...++++|+...-.+
T Consensus 69 l~ip~~~~~~~~tLedcLe~~~~~e 93 (241)
T cd02670 69 IPVPDDDDGGGITLEQCLEQYFNNS 93 (241)
T ss_pred eecccCCCCCcCCHHHHHHHHhchh
Confidence 7777653 467899998765443
No 43
>KOG1864 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=97.00 E-value=0.001 Score=71.30 Aligned_cols=102 Identities=16% Similarity=0.139 Sum_probs=59.7
Q ss_pred cccCCCCcchhhHhhHhhccchhhhhhccCCC-----cC------CCCChHHHHHHHHHHHHH-----hccCCCCCCchH
Q 016557 194 LNNIKETDFVNVTIQSLMRVTPLRNFFLIPEN-----YR------HCKSPLVHRFGDLTRKIW-----HARNFKGQVSPH 257 (387)
Q Consensus 194 L~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~-----~~------~~~~~l~~~L~~L~~~l~-----s~~~~~~~vsP~ 257 (387)
|+|.||+||.|++||+|..+|+|+-.+..... .. ......++....+...+. +.....-.++-.
T Consensus 34 l~n~gn~cy~ns~~Q~~~~~~~~~~r~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~s~~ 113 (587)
T KOG1864|consen 34 LVNTGNSCYYNSTLQALSSCPPFVSRVEQLPRLVRPKIEALKDSLNRKKTRIFDEKSLEAVTLNFSKNSSSNESFNLSVT 113 (587)
T ss_pred EeecCCchhhhhHHHHHhhccHHHHHHHHHHHhcccccccCchhhccccccchhHHHHHHHHHhhhccCCccccccchHH
Confidence 99999999999999999999999866643210 00 011111111111111111 111111123444
Q ss_pred HHHHHHHHhh--cCCCCCCCccCHHHHHHHHHHHHHHHhh
Q 016557 258 EFLQAVMKAS--KKRFRIGVQSNPVEFMSWLLNTLHSDLR 295 (387)
Q Consensus 258 ~ll~~l~~~s--~~~F~~~~QqDA~EFL~~LLn~L~~el~ 295 (387)
.+.+.+.... ...|....|+||++|+.-|+-.+..-+.
T Consensus 114 ~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~l~~~~~~~~~ 153 (587)
T KOG1864|consen 114 QLVQSRLNNGKKYAEFNNNDQRDAHNFLLELMAMVDDVMG 153 (587)
T ss_pred HHHHHHhhhhhhhhhhhcccHhhhhhhhhhhhHHHhhhcc
Confidence 4444444331 1357788999999999999999887765
No 44
>KOG1275 consensus PAB-dependent poly(A) ribonuclease, subunit PAN2 [Replication, recombination and repair]
Probab=96.97 E-value=0.00045 Score=75.48 Aligned_cols=153 Identities=14% Similarity=0.117 Sum_probs=98.6
Q ss_pred chhcccccccCCCCcchhhHhhHhhccchhhhhhccCCCcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHh
Q 016557 187 EDIRHVGLNNIKETDFVNVTIQSLMRVTPLRNFFLIPENYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKA 266 (387)
Q Consensus 187 ~~i~~vGL~NlGNTCYmNSVLQ~L~~ip~fr~~~l~~~~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~ 266 (387)
....|.||.--+-+-|.||+||.|+.+|++|.+++.. ......||.|.|.=||..|-.+. ...-....|+.+++..
T Consensus 495 NqT~yaGLe~~i~N~YcNamiQllyfl~~~r~~vl~H--~C~~e~CL~CELGFLF~Ml~~S~--G~~Cqa~NFlraf~t~ 570 (1118)
T KOG1275|consen 495 NQTTYAGLETDIPNSYCNAMIQLLYFLPPIRSIVLRH--ICTKEFCLLCELGFLFTMLDSST--GDPCQANNFLRAFRTN 570 (1118)
T ss_pred ccceeeccCCCCchHHHHHHHHHHHhccHHHHHHHcC--ccchhHHHHHHHHHHHHHHhhhc--CCccchhHHHHHHhhC
Confidence 3445779999999999999999999999999999875 34456799999999999887654 3355666777776543
Q ss_pred hcC-----CCC------------------------CCCccCHHHHHHHHHHHHHHHhhcCCCCCcccccccceEEEEEEE
Q 016557 267 SKK-----RFR------------------------IGVQSNPVEFMSWLLNTLHSDLRNTKKNTSIIYECFQGELEVVKE 317 (387)
Q Consensus 267 s~~-----~F~------------------------~~~QqDA~EFL~~LLn~L~~el~~~~~~~siI~~~F~G~l~~~~~ 317 (387)
.-. -+. ....+|.++|..........+-..+-....++.+.|.-.++....
T Consensus 571 ~~a~~LG~vl~d~~~~~~~~~~~liq~~~~~~~set~~~~d~~~~~~~~~s~~~~~~~~~vn~~~~l~q~F~~~~e~~~~ 650 (1118)
T KOG1275|consen 571 PEASALGLVLSDTQISGTVNDDVLIQDAEGFISSETSRHLDCQDCRGLQQSESVDGESFKVNYAPVLQQSFCQEIEKSLR 650 (1118)
T ss_pred hHhhhhcccccchhhccccchHHHhhhhhhccchhhhhhhhHHHhhhhhhhhcccCceeeecchhHHHHHhhhHHHHhhh
Confidence 210 000 011233333333333322221111122356889999999988888
Q ss_pred ccCCCCCCCCCCCCCCCCCCCCCCCCccceeeecceeeeecCCCCCC
Q 016557 318 IPKNTISGNDQNTEKGSDGGDDHDNITTETSRMPFLMLGLDLPPPPL 364 (387)
Q Consensus 318 C~~c~~~~~~~~~~~~~~~~~~~~~~~~s~~~epFl~LSLdLP~~p~ 364 (387)
|..|+ ..+++....+.++|..|+..+
T Consensus 651 Cg~C~---------------------~~~~~~k~l~~~~lsyp~~~~ 676 (1118)
T KOG1275|consen 651 CGECG---------------------DEKQKSKSLLRKVLSYPNVLL 676 (1118)
T ss_pred ccccc---------------------chhhhhhhhhheeecCCCccc
Confidence 88887 222223356777777777655
No 45
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=92.66 E-value=0.067 Score=47.72 Aligned_cols=57 Identities=25% Similarity=0.448 Sum_probs=32.2
Q ss_pred cccccC--CCCceEEecccCcccc-cCC--CCCcccccccccCCce-EEecC----CCceeecCCCc
Q 016557 123 FCSVSL--SNLNVYACLVCGKYYQ-GRG--QKSHAYTHSLEAGHHV-YINLR----TEKVYCLPDGY 179 (387)
Q Consensus 123 ~Cs~c~--s~~nl~~CL~CG~~~c-Gr~--~~sHa~~H~~~~~H~v-~inl~----t~~vyC~~c~~ 179 (387)
.|+-|. ....|-.|+.|++.|| |++ ..||...|-..++|.- .+.-. ...+.||.|+.
T Consensus 2 aC~YCG~~~p~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~ 68 (152)
T PF09416_consen 2 ACAYCGIHDPSCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGS 68 (152)
T ss_dssp S-TTT----CCCEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT--
T ss_pred CccccCCCCcccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCC
Confidence 377776 6778999999999999 443 3789999988888864 33332 23678999864
No 46
>PF05408 Peptidase_C28: Foot-and-mouth virus L-proteinase; InterPro: IPR008739 In the MEROPS database peptidases and peptidase homologues are grouped into clans and families. Clans are groups of families for which there is evidence of common ancestry based on a common structural fold: Each clan is identified with two letters, the first representing the catalytic type of the families included in the clan (with the letter 'P' being used for a clan containing families of more than one of the catalytic types serine, threonine and cysteine). Some families cannot yet be assigned to clans, and when a formal assignment is required, such a family is described as belonging to clan A-, C-, M-, N-, S-, T- or U-, according to the catalytic type. Some clans are divided into subclans because there is evidence of a very ancient divergence within the clan, for example MA(E), the gluzincins, and MA(M), the metzincins. Peptidase families are grouped by their catalytic type, the first character representing the catalytic type: A, aspartic; C, cysteine; G, glutamic acid; M, metallo; N, asparagine; S, serine; T, threonine; and U, unknown. The serine, threonine and cysteine peptidases utilise the amino acid as a nucleophile and form an acyl intermediate - these peptidases can also readily act as transferases. In the case of aspartic, glutamic and metallopeptidases, the nucleophile is an activated water molecule. In the case of the asparagine endopeptidases, the nucleophile is asparagine and all are self-processing endopeptidases. In many instances the structural protein fold that characterises the clan or family may have lost its catalytic activity, yet retain its function in protein recognition and binding. Cysteine peptidases have characteristic molecular topologies, which can be seen not only in their three-dimensional structures, but commonly also in the two-dimensional structures. These are peptidases in which the nucleophile is the sulphydryl group of a cysteine residue. Cysteine proteases are divided into clans (proteins which are evolutionary related), and further sub-divided into families, on the basis of the architecture of their catalytic dyad or triad []. This group of cysteine peptidases belong to MEROPS peptidase family C28 (clan CA).The protein fold of the peptidase unit for members of this family resembles that of papain. The leader peptidase of Foot-and-mouth disease virus cleaves itself from the growing polyprotein and also cleaves the host translation initiation factor 4GI (eIF4G), thus inhibiting 5'-cap dependent translation [].; GO: 0004197 cysteine-type endopeptidase activity, 0016032 viral reproduction, 0019082 viral protein processing; PDB: 2JQF_R 1QMY_B 1QOL_G 2JQG_R.
Probab=84.26 E-value=0.45 Score=43.72 Aligned_cols=23 Identities=22% Similarity=0.313 Sum_probs=15.9
Q ss_pred cccccccCCCCcchhhHhhHhhc
Q 016557 190 RHVGLNNIKETDFVNVTIQSLMR 212 (387)
Q Consensus 190 ~~vGL~NlGNTCYmNSVLQ~L~~ 212 (387)
++.|+.|.+|||++||++|.+-.
T Consensus 32 eft~~PN~~dnCWlNaL~QL~~~ 54 (193)
T PF05408_consen 32 EFTGLPNNHDNCWLNALLQLFRY 54 (193)
T ss_dssp EEE----SSSTHHHHHHHHHHHH
T ss_pred EEecCCCCCCChHHHHHHHHHHH
Confidence 35699999999999999997644
No 47
>PF08715 Viral_protease: Papain like viral protease; InterPro: IPR014827 This family of viral proteases are similar to the papain protease and are required for proteolytic processing of the replicase polyprotein. The structure of this protein has shown it adopts a fold similar to that of de-ubiquitinating enzymes []. ; GO: 0004197 cysteine-type endopeptidase activity, 0008242 omega peptidase activity, 0016740 transferase activity; PDB: 3MP2_A 3EWP_B 3EWO_B 2FE8_A 3MJ5_B 3EKE_A 3EJF_A 3JZT_H 3ETI_E 3E9S_A.
Probab=77.06 E-value=3 Score=41.78 Aligned_cols=74 Identities=16% Similarity=0.211 Sum_probs=42.8
Q ss_pred ccCCCCcchhhHhhHhhccch-hhhhhccCCCcCCCCChHHHHHHHHHHHHHhccCCCCCCchHHHHHHHHHhhcCCCCC
Q 016557 195 NNIKETDFVNVTIQSLMRVTP-LRNFFLIPENYRHCKSPLVHRFGDLTRKIWHARNFKGQVSPHEFLQAVMKASKKRFRI 273 (387)
Q Consensus 195 ~NlGNTCYmNSVLQ~L~~ip~-fr~~~l~~~~~~~~~~~l~~~L~~L~~~l~s~~~~~~~vsP~~ll~~l~~~s~~~F~~ 273 (387)
.=.-|+||+||++-+|=++.+ |+ .+ .+..+..++..+ .|..|...+-.. ..+..
T Consensus 106 kq~dNNCwVna~~~~LQ~~~~~f~-------------~~---~l~~aw~~f~~G-------~~~~fVa~~Ya~--~~~~~ 160 (320)
T PF08715_consen 106 KQSDNNCWVNAACLQLQALKIKFK-------------SP---GLDEAWNEFKAG-------DPAPFVAWCYAS--TNAKK 160 (320)
T ss_dssp ---TTTHHHHHHHHHHTTST--BS-------------SH---HHHHHHHHHHTT---------HHHHHHHHHH--TT--T
T ss_pred EecCCCcHHHHHHHHHHhcCCccC-------------CH---HHHHHHHHHhCC-------ChHHHHHHHHHH--cCCCC
Confidence 334689999999877655431 11 11 344455555444 577788877665 35667
Q ss_pred CCccCHHHHHHHHHHHHHHH
Q 016557 274 GVQSNPVEFMSWLLNTLHSD 293 (387)
Q Consensus 274 ~~QqDA~EFL~~LLn~L~~e 293 (387)
++--||+++|..||+.++.+
T Consensus 161 G~~gDa~~~L~~ll~~~~~~ 180 (320)
T PF08715_consen 161 GDPGDAEYVLSKLLKDADLD 180 (320)
T ss_dssp TS---HHHHHHHHHTTB-TT
T ss_pred CCCcCHHHHHHHHHHhcccc
Confidence 89999999999999988754
No 48
>KOG3362 consensus Predicted BBOX Zn-finger protein [General function prediction only]
Probab=52.64 E-value=4.3 Score=35.93 Aligned_cols=24 Identities=38% Similarity=0.805 Sum_probs=21.3
Q ss_pred CccccccCCCCceEEecccCccccc
Q 016557 121 EKFCSVSLSNLNVYACLVCGKYYQG 145 (387)
Q Consensus 121 ek~Cs~c~s~~nl~~CL~CG~~~cG 145 (387)
-+.|++|. ...+|.|..||.-+|.
T Consensus 118 r~fCaVCG-~~S~ysC~~CG~kyCs 141 (156)
T KOG3362|consen 118 RKFCAVCG-YDSKYSCVNCGTKYCS 141 (156)
T ss_pred chhhhhcC-CCchhHHHhcCCceee
Confidence 46899999 8899999999988884
No 49
>cd00729 rubredoxin_SM Rubredoxin, Small Modular nonheme iron binding domain containing a [Fe(SCys)4] center, present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=51.44 E-value=8.6 Score=25.54 Aligned_cols=14 Identities=43% Similarity=0.999 Sum_probs=11.7
Q ss_pred eEEecccCcccccC
Q 016557 133 VYACLVCGKYYQGR 146 (387)
Q Consensus 133 l~~CL~CG~~~cGr 146 (387)
.|.|.+||.++-|.
T Consensus 2 ~~~C~~CG~i~~g~ 15 (34)
T cd00729 2 VWVCPVCGYIHEGE 15 (34)
T ss_pred eEECCCCCCEeECC
Confidence 69999999777764
No 50
>KOG1867 consensus Ubiquitin-specific protease [Posttranslational modification, protein turnover, chaperones]
Probab=46.00 E-value=15 Score=38.94 Aligned_cols=145 Identities=14% Similarity=0.036 Sum_probs=74.5
Q ss_pred CccccccCCCCceEEecccCcccccCCCCCcccccccccCCceEEecCCCceeecCCCcccCCCCcchhcccccccCCCC
Q 016557 121 EKFCSVSLSNLNVYACLVCGKYYQGRGQKSHAYTHSLEAGHHVYINLRTEKVYCLPDGYEINDPSLEDIRHVGLNNIKET 200 (387)
Q Consensus 121 ek~Cs~c~s~~nl~~CL~CG~~~cGr~~~sHa~~H~~~~~H~v~inl~t~~vyC~~c~~eV~D~sL~~i~~vGL~NlGNT 200 (387)
-+.++++.....-+.|..|+-+.++.... |..|+..+.-..-......|+.+.++|
T Consensus 31 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~------------------------~~~~~~~~~~~~~~~~~~~~~~~~~~~ 86 (492)
T KOG1867|consen 31 PKRKDARILPLKTINCGTCGVLQIRLAVP------------------------CLICDSLGCLSNSHKLEHSGNKKHNNT 86 (492)
T ss_pred ccccchhhcccccceeEEechhhhhhccc------------------------ceechhccccccccccccccccccccc
Confidence 35678888888889999998444432211 333332221111111234599999999
Q ss_pred cchhhHhhHhhccchhhhhhccCCC---cCCCCChHHHHHHHHHHHHHhcc---CCCCCCchHHHHHHHHHhhcCCCCCC
Q 016557 201 DFVNVTIQSLMRVTPLRNFFLIPEN---YRHCKSPLVHRFGDLTRKIWHAR---NFKGQVSPHEFLQAVMKASKKRFRIG 274 (387)
Q Consensus 201 CYmNSVLQ~L~~ip~fr~~~l~~~~---~~~~~~~l~~~L~~L~~~l~s~~---~~~~~vsP~~ll~~l~~~s~~~F~~~ 274 (387)
|+||+.+|.++.++.|.-..-.... ......++...+..+....|... .......|. .....+.. .-.+.+.
T Consensus 87 ~~~~~g~~~~~~c~~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~t~~~~~~~-~~~~~~~~-~~~l~g~ 164 (492)
T KOG1867|consen 87 IDVNNGLLYCFACPDFIYDAELLKLADIKKYKEQPFHQLDSTLLTHLAEATVCQQTLLKENPK-DRLVLSTT-ALGLRGL 164 (492)
T ss_pred ceeehhhheeccCCcEeeccchhhHHHHHhhhccchhhccchhhhhhhhhhccchhcccCCcc-ccccccee-eeccccc
Confidence 9999999999999865422211100 00001122222222222222211 001111222 11111111 2345667
Q ss_pred CccCHHHHHHHHHHHHH
Q 016557 275 VQSNPVEFMSWLLNTLH 291 (387)
Q Consensus 275 ~QqDA~EFL~~LLn~L~ 291 (387)
.-.++.+|+..+|..|.
T Consensus 165 ~n~g~tcfmn~ilqsl~ 181 (492)
T KOG1867|consen 165 RNLGSTCFMNVILQSLL 181 (492)
T ss_pred ccccHHHHHHHHHHHhh
Confidence 78999999999999986
No 51
>PRK14890 putative Zn-ribbon RNA-binding protein; Provisional
Probab=39.43 E-value=12 Score=28.16 Aligned_cols=21 Identities=33% Similarity=0.838 Sum_probs=17.2
Q ss_pred cccccCCCCceEEecccCccccc
Q 016557 123 FCSVSLSNLNVYACLVCGKYYQG 145 (387)
Q Consensus 123 ~Cs~c~s~~nl~~CL~CG~~~cG 145 (387)
+|..|....|.|.|-.|| |.|
T Consensus 38 RC~~CRk~~~~Y~CP~CG--F~G 58 (59)
T PRK14890 38 RCEKCRKQSNPYTCPKCG--FEG 58 (59)
T ss_pred echhHHhcCCceECCCCC--CcC
Confidence 588888888999999998 665
No 52
>cd00350 rubredoxin_like Rubredoxin_like; nonheme iron binding domain containing a [Fe(SCys)4] center. The family includes rubredoxins, a small electron transfer protein, and a slightly smaller modular rubredoxin domain present in rubrerythrin and nigerythrin and detected either N- or C-terminal to such proteins as flavin reductase, NAD(P)H-nitrite reductase, and ferredoxin-thioredoxin reductase. In rubredoxin, the iron atom is coordinated by four cysteine residues (Fe(S-Cys)4), but iron can also be replaced by cobalt, nickel or zinc and believed to be involved in electron transfer. Rubrerythrins and nigerythrins are small homodimeric proteins, generally consisting of 2 domains: a rubredoxin domain C-terminal to a non-sulfur, oxo-bridged diiron site in the N-terminal rubrerythrin domain. Rubrerythrins and nigerythrins have putative peroxide activity.
Probab=38.83 E-value=16 Score=23.90 Aligned_cols=14 Identities=50% Similarity=1.184 Sum_probs=11.1
Q ss_pred eEEecccCcccccC
Q 016557 133 VYACLVCGKYYQGR 146 (387)
Q Consensus 133 l~~CL~CG~~~cGr 146 (387)
.|.|.+||.++-+.
T Consensus 1 ~~~C~~CGy~y~~~ 14 (33)
T cd00350 1 KYVCPVCGYIYDGE 14 (33)
T ss_pred CEECCCCCCEECCC
Confidence 49999999777654
No 53
>PF08790 zf-LYAR: LYAR-type C2HC zinc finger ; InterPro: IPR014898 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This C2HC zinc finger domain is found in LYAR proteins such as Q08288 from SWISSPROT, which are involved in cell growth regulation. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 1WJV_A.
Probab=38.18 E-value=18 Score=23.20 Aligned_cols=19 Identities=37% Similarity=0.927 Sum_probs=14.0
Q ss_pred EEecccCcccccCCCCCcc
Q 016557 134 YACLVCGKYYQGRGQKSHA 152 (387)
Q Consensus 134 ~~CL~CG~~~cGr~~~sHa 152 (387)
+.|+.|++.|.|....+|.
T Consensus 1 ~sCiDC~~~F~~~~y~~Ht 19 (28)
T PF08790_consen 1 FSCIDCSKDFDGDSYKSHT 19 (28)
T ss_dssp EEETTTTEEEEGGGTTT--
T ss_pred CeeecCCCCcCcCCcCCCC
Confidence 5799999999887666554
No 54
>PF04438 zf-HIT: HIT zinc finger; InterPro: IPR007529 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents the HIT-type zinc finger, which contains 7 conserved cysteines and one histidine that can potentially coordinate two zinc atoms. It has been named after the first protein that originally defined the domain: the yeast HIT1 protein (P46973 from SWISSPROT) []. The HIT-type zinc finger displays some sequence similarities to the MYND-type zinc finger. The function of this domain is unknown but it is mainly found in nuclear proteins involved in gene regulation and chromatin remodeling. This domain is also found in the thyroid receptor interacting protein 3 (TRIP-3) Q15649 from SWISSPROT, that specifically interacts with the ligand binding domain of the thyroid receptor. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; PDB: 2YQP_A 2YQQ_A 1X4S_A.
Probab=37.63 E-value=15 Score=23.84 Aligned_cols=23 Identities=39% Similarity=0.735 Sum_probs=17.2
Q ss_pred ccccccCCCCceEEecccCccccc
Q 016557 122 KFCSVSLSNLNVYACLVCGKYYQG 145 (387)
Q Consensus 122 k~Cs~c~s~~nl~~CL~CG~~~cG 145 (387)
+.|++|.. ...|.|..||..+|.
T Consensus 3 ~~C~vC~~-~~kY~Cp~C~~~~CS 25 (30)
T PF04438_consen 3 KLCSVCGN-PAKYRCPRCGARYCS 25 (30)
T ss_dssp EEETSSSS-EESEE-TTT--EESS
T ss_pred CCCccCcC-CCEEECCCcCCceeC
Confidence 57999988 899999999988773
No 55
>PF15499 Peptidase_C98: Ubiquitin-specific peptidase-like, SUMO isopeptidase
Probab=37.46 E-value=65 Score=31.47 Aligned_cols=28 Identities=14% Similarity=0.273 Sum_probs=25.3
Q ss_pred ccCCCCcchhhHhhHhhccchhhhhhcc
Q 016557 195 NNIKETDFVNVTIQSLMRVTPLRNFFLI 222 (387)
Q Consensus 195 ~NlGNTCYmNSVLQ~L~~ip~fr~~~l~ 222 (387)
+|.-|-|++-++|-+|.|...+++..-.
T Consensus 6 ~N~~aLCWLDciLsaLVh~~~Lk~~~~~ 33 (275)
T PF15499_consen 6 KNSNALCWLDCILSALVHLESLKNAVTE 33 (275)
T ss_pred cCccccHHHHHHHHHHHHHHHHHHHHhh
Confidence 5888999999999999999999998754
No 56
>COG2888 Predicted Zn-ribbon RNA-binding protein with a function in translation [Translation, ribosomal structure and biogenesis]
Probab=35.75 E-value=15 Score=27.85 Aligned_cols=21 Identities=33% Similarity=0.738 Sum_probs=16.0
Q ss_pred cccccCCCCceEEecccCccccc
Q 016557 123 FCSVSLSNLNVYACLVCGKYYQG 145 (387)
Q Consensus 123 ~Cs~c~s~~nl~~CL~CG~~~cG 145 (387)
+|..|....|.|.|-.|| |.|
T Consensus 40 Rc~~CRk~g~~Y~Cp~CG--F~G 60 (61)
T COG2888 40 RCAKCRKLGNPYRCPKCG--FEG 60 (61)
T ss_pred hhhhHHHcCCceECCCcC--ccC
Confidence 577777777888888888 654
No 57
>PF03117 Herpes_UL49_1: UL49 family; InterPro: IPR004339 UL49 proteins are present in the viral tegument at the surface of the nucleocapsid []. Many of the nonconserved tegument proteins of alpha-herpes viruses play important roles during different steps of the viral replication cycle, such as the shutoff of host cell functions by the vhs protein encoded by UL41 and the transcriptional activation of viral immediate-early genes by the UL48 gene product, VP16. UL49 of Human herpesvirus 1 (HHV-1) has been shown to directly interact with VP16. The UL49 gene products of HHV-1 and Bovine herpesvirus 1 exhibit virus-independent intercellular trafficking of unknown biological function but are dispensable for productive viral replication. Envelope glycoprotein M (gM) and the complex formed by glycoproteins E (gE) and I (gI) are involved in the secondary envelopment of Suid herpesvirus 1 (Pseudorabies virus, PrV) particles in the cytoplasm of infected cells. In the absence of the gE-gI complex and gM, envelopment is blocked and capsids surrounded by tegument proteins accumulate in the cytoplasm. The cytoplasmic domains of gE and gM specifically interact with the C-terminal part of the UL49 gene product of PrV suggesting a role for the protein in secondary envelopment during herpesvirus virion maturation [].; GO: 0016032 viral reproduction, 0019033 viral tegument
Probab=33.75 E-value=42 Score=32.44 Aligned_cols=47 Identities=21% Similarity=0.443 Sum_probs=29.2
Q ss_pred CceEEecccCcccc---cCCC--C------CcccccccccCCceEEecCCCceeecCCCc
Q 016557 131 LNVYACLVCGKYYQ---GRGQ--K------SHAYTHSLEAGHHVYINLRTEKVYCLPDGY 179 (387)
Q Consensus 131 ~nl~~CL~CG~~~c---Gr~~--~------sHa~~H~~~~~H~v~inl~t~~vyC~~c~~ 179 (387)
.-.-+|+.|| +| |++. . +|.+.=--.....+.+...|+.+||.-|+.
T Consensus 103 ~~aVvC~~CG--hCLN~GK~K~~~~~~F~pts~FY~RDqkEK~v~~c~~tgriyCS~CGS 160 (245)
T PF03117_consen 103 YRAVVCMECG--HCLNFGKGKLKCGQNFPPTSMFYYRDQKEKQVIYCATTGRIYCSLCGS 160 (245)
T ss_pred eEEEEeccCC--chhhccchhhccccCcCCcceeEeccccceeEEEeccCCCEEEccCCC
Confidence 4566799999 55 5543 1 222111112334577788999999999975
No 58
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=33.53 E-value=28 Score=23.05 Aligned_cols=22 Identities=27% Similarity=0.594 Sum_probs=13.7
Q ss_pred ccccccCC------CCceEEecccCccc
Q 016557 122 KFCSVSLS------NLNVYACLVCGKYY 143 (387)
Q Consensus 122 k~Cs~c~s------~~nl~~CL~CG~~~ 143 (387)
+.|+.|.. ....+.|..||..+
T Consensus 4 ~~C~~C~~~~i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 4 KKCSKCGGNGIVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred eEcCCCCCCeEEEecCCeEEcccCCcEe
Confidence 45776653 34556788777554
No 59
>KOG1074 consensus Transcriptional repressor SALM [Transcription]
Probab=33.12 E-value=72 Score=36.02 Aligned_cols=31 Identities=26% Similarity=0.556 Sum_probs=24.2
Q ss_pred CCCceEEecccCcccccCCC-CCccccccccc
Q 016557 129 SNLNVYACLVCGKYYQGRGQ-KSHAYTHSLEA 159 (387)
Q Consensus 129 s~~nl~~CL~CG~~~cGr~~-~sHa~~H~~~~ 159 (387)
....-|.|-+||..|--+|. +-|...|....
T Consensus 377 TGERPfqCnvCG~~FSTkGNLKvH~~rH~e~~ 408 (958)
T KOG1074|consen 377 TGERPFQCNVCGNRFSTKGNLKVHFQRHREKY 408 (958)
T ss_pred CCCCCeeecccccccccccceeeeeeeccccC
Confidence 35688999999999998887 66777776554
No 60
>KOG0944 consensus Ubiquitin-specific protease UBP14 [Posttranslational modification, protein turnover, chaperones]
Probab=33.02 E-value=22 Score=39.00 Aligned_cols=43 Identities=26% Similarity=0.523 Sum_probs=34.4
Q ss_pred cccccC----CCCceEEecccCcccccCCCCCcccccccccCCceEEecCC
Q 016557 123 FCSVSL----SNLNVYACLVCGKYYQGRGQKSHAYTHSLEAGHHVYINLRT 169 (387)
Q Consensus 123 ~Cs~c~----s~~nl~~CL~CG~~~cGr~~~sHa~~H~~~~~H~v~inl~t 169 (387)
-|..|. +...+|+||.|=.-|+ .-|...|+.+++|.+|+.+..
T Consensus 26 eC~ycf~sp~~e~glyicl~~f~afg----~~~v~~~f~~tg~~~yl~i~r 72 (763)
T KOG0944|consen 26 ECAYCFDSPESEGGLYICLNCFLAFG----REHVEEYFRKTGHSVYLHIAR 72 (763)
T ss_pred hceeeccCCCCCCCEEeehhhhhhhh----hHHHHHHHhhcCceEEEEecc
Confidence 466664 5678999999965565 478899999999999998864
No 61
>KOG1802 consensus RNA helicase nonsense mRNA reducing factor (pNORF1) [RNA processing and modification]
Probab=26.96 E-value=43 Score=37.05 Aligned_cols=58 Identities=28% Similarity=0.482 Sum_probs=39.5
Q ss_pred ccccccCCCC--ceEEecccCccccc-CC--CCCcccccccccCCceE-Ee----cCCCceeecCCCc
Q 016557 122 KFCSVSLSNL--NVYACLVCGKYYQG-RG--QKSHAYTHSLEAGHHVY-IN----LRTEKVYCLPDGY 179 (387)
Q Consensus 122 k~Cs~c~s~~--nl~~CL~CG~~~cG-r~--~~sHa~~H~~~~~H~v~-in----l~t~~vyC~~c~~ 179 (387)
..|.-|.... ++--|.+|||-||- |+ ..+|...|-..+.|... ++ +....+-||.|+.
T Consensus 61 ~~c~Ycgi~~p~~v~kc~~c~Kwfcn~r~gtsgshIv~hlvra~hk~v~lh~ds~lget~lecyncg~ 128 (935)
T KOG1802|consen 61 HACAYCGISEPACVIKCNTCGKWFCNSRGGTSGSHIVNHLVRAKHKEVSLHKDSPLGETVLECYNCGS 128 (935)
T ss_pred hhhhhccCCCchheeeccccCceeecCCCCCchhHHHHHHHHhhhheeEeccCCCCCcceEEeeccCc
Confidence 3577776544 78889999999993 33 26788899877777542 22 2233568998874
No 62
>COG1592 Rubrerythrin [Energy production and conversion]
Probab=26.28 E-value=33 Score=31.23 Aligned_cols=13 Identities=46% Similarity=1.035 Sum_probs=11.4
Q ss_pred eEEecccCccccc
Q 016557 133 VYACLVCGKYYQG 145 (387)
Q Consensus 133 l~~CL~CG~~~cG 145 (387)
+|+|.+||..+-|
T Consensus 134 ~~vC~vCGy~~~g 146 (166)
T COG1592 134 VWVCPVCGYTHEG 146 (166)
T ss_pred EEEcCCCCCcccC
Confidence 9999999977766
No 63
>PF08271 TF_Zn_Ribbon: TFIIB zinc-binding; InterPro: IPR013137 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This entry represents a zinc finger motif found in transcription factor IIB (TFIIB). In eukaryotes the initiation of transcription of protein encoding genes by the polymerase II complexe (Pol II) is modulated by general and specific transcription factors. The general transcription factors operate through common promoters elements (such as the TATA box). At least seven different proteins associate to form the general transcription factors: TFIIA, -IIB, -IID, -IIE, -IIF, -IIG, and -IIH []. TFIIB and TFIID are responsible for promoter recognition and interaction with pol II; together with Pol II, they form a minimal initiation complex capable of transcription under certain conditions. The TATA box of a Pol II promoter is bound in the initiation complex by the TBP subunit of TFIID, which bends the DNA around the C-terminal domain of TFIIB whereas the N-terminal zinc finger of TFIIB interacts with Pol II [, ]. The TFIIB zinc finger adopts a zinc ribbon fold characterised by two beta-hairpins forming two structurally similar zinc-binding sub-sites []. The zinc finger contacts the rbp1 subunit of Pol II through its dock domain, a conserved region of about 70 amino acids located close to the polymerase active site []. In the Pol II complex this surface is located near the RNA exit groove. Interestingly this sequence is best conserved in the three polymerases that utilise a TFIIB-like general transcription factor (Pol II, Pol III, and archaeal RNA polymerase) but not in Pol I []. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1VD4_A 1PFT_A 3K1F_M 3K7A_M 1RO4_A 1RLY_A 1DL6_A.
Probab=26.21 E-value=75 Score=21.83 Aligned_cols=23 Identities=9% Similarity=0.258 Sum_probs=15.4
Q ss_pred eEEecCCCceeecCCCcccCCCC
Q 016557 163 VYINLRTEKVYCLPDGYEINDPS 185 (387)
Q Consensus 163 v~inl~t~~vyC~~c~~eV~D~s 185 (387)
+..+..++.++|..|+..+.+..
T Consensus 11 ~~~D~~~g~~vC~~CG~Vl~e~~ 33 (43)
T PF08271_consen 11 IVFDPERGELVCPNCGLVLEENI 33 (43)
T ss_dssp EEEETTTTEEEETTT-BBEE-TT
T ss_pred eEEcCCCCeEECCCCCCEeeccc
Confidence 45667788889999988775543
No 64
>PF03048 Herpes_UL92: UL92 family; InterPro: IPR004289 Members of this family are functionally uncharacterised proteins from herpesviruses. The N terminus of these proteins contain 6 conserved cysteines and histidines that might form a zinc binding domain.
Probab=26.19 E-value=59 Score=30.33 Aligned_cols=46 Identities=22% Similarity=0.298 Sum_probs=28.1
Q ss_pred CCCceEEecccCcccccCCCCCcccccc------cccCCceEEecCCCceee
Q 016557 129 SNLNVYACLVCGKYYQGRGQKSHAYTHS------LEAGHHVYINLRTEKVYC 174 (387)
Q Consensus 129 s~~nl~~CL~CG~~~cGr~~~sHa~~H~------~~~~H~v~inl~t~~vyC 174 (387)
.-.++|+|..||+++..-+...-...+. .-+|+++..++......+
T Consensus 16 ~v~~vfvC~~c~~~HVCD~~~eC~iv~T~Eg~VC~~TG~c~~~~l~~~~~~~ 67 (192)
T PF03048_consen 16 QVGNVFVCEKCGRYHVCDGGCECVIVNTGEGLVCTITGLCFDRNLQPSEMEP 67 (192)
T ss_pred cCceEEEeCCCCCEEecCCCCCEEEEeCCCcCEEEecccCcccccCccccCC
Confidence 3469999999999997554433333332 235666666665554433
No 65
>PF07754 DUF1610: Domain of unknown function (DUF1610); InterPro: IPR011668 This domain is found in archaeal species. It is likely to bind zinc via its four well-conserved cysteine residues.
Probab=25.36 E-value=49 Score=20.46 Aligned_cols=12 Identities=25% Similarity=0.728 Sum_probs=8.8
Q ss_pred CCCceEEecccC
Q 016557 129 SNLNVYACLVCG 140 (387)
Q Consensus 129 s~~nl~~CL~CG 140 (387)
.....|.|-.||
T Consensus 12 ~~~v~f~CPnCG 23 (24)
T PF07754_consen 12 EQAVPFPCPNCG 23 (24)
T ss_pred ccCceEeCCCCC
Confidence 345778888888
No 66
>smart00154 ZnF_AN1 AN1-like Zinc finger. Zinc finger at the C-terminus of An1, a ubiquitin-like protein in Xenopus laevis.
Probab=24.39 E-value=60 Score=22.19 Aligned_cols=23 Identities=22% Similarity=0.720 Sum_probs=15.7
Q ss_pred ccccCCCCc--eEEecccCcccccC
Q 016557 124 CSVSLSNLN--VYACLVCGKYYQGR 146 (387)
Q Consensus 124 Cs~c~s~~n--l~~CL~CG~~~cGr 146 (387)
|.+|..... .+.|-.|+++||..
T Consensus 1 C~~C~~~~~l~~f~C~~C~~~FC~~ 25 (39)
T smart00154 1 CHFCRKKVGLTGFKCRHCGNLFCGE 25 (39)
T ss_pred CcccCCcccccCeECCccCCccccc
Confidence 445543333 47899999999963
No 67
>PHA00626 hypothetical protein
Probab=23.36 E-value=48 Score=24.85 Aligned_cols=22 Identities=18% Similarity=0.172 Sum_probs=17.6
Q ss_pred cccccCCCCceEEecccCcccc
Q 016557 123 FCSVSLSNLNVYACLVCGKYYQ 144 (387)
Q Consensus 123 ~Cs~c~s~~nl~~CL~CG~~~c 144 (387)
.|..|....+.|.|-.||..|.
T Consensus 13 rcg~cr~~snrYkCkdCGY~ft 34 (59)
T PHA00626 13 KEKTMRGWSDDYVCCDCGYNDS 34 (59)
T ss_pred eeceecccCcceEcCCCCCeec
Confidence 4666666689999999997775
No 68
>KOG3556 consensus Familial cylindromatosis protein [General function prediction only]
Probab=22.71 E-value=1.6e+02 Score=31.80 Aligned_cols=29 Identities=10% Similarity=0.241 Sum_probs=22.3
Q ss_pred ccccCCCCcchhhHhhHhhccchhhhhhc
Q 016557 193 GLNNIKETDFVNVTIQSLMRVTPLRNFFL 221 (387)
Q Consensus 193 GL~NlGNTCYmNSVLQ~L~~ip~fr~~~l 221 (387)
|+.---|.||+||.|=+++.-....+-.+
T Consensus 370 giqgh~nscyldstlf~~f~f~sv~dS~l 398 (724)
T KOG3556|consen 370 GIQGHPNSCYLDSTLFKPFEFDSVTDSTL 398 (724)
T ss_pred cccCCcchhhccccccccccccccccccc
Confidence 88888899999999988877655544443
No 69
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=21.25 E-value=65 Score=26.28 Aligned_cols=25 Identities=20% Similarity=0.632 Sum_probs=20.1
Q ss_pred cccccCC------CCceEEecccCcccccCC
Q 016557 123 FCSVSLS------NLNVYACLVCGKYYQGRG 147 (387)
Q Consensus 123 ~Cs~c~s------~~nl~~CL~CG~~~cGr~ 147 (387)
.|..|.+ ..-+|.|-.||..|-|-.
T Consensus 37 ~Cp~C~~~~VkR~a~GIW~C~kCg~~fAGga 67 (89)
T COG1997 37 VCPFCGRTTVKRIATGIWKCRKCGAKFAGGA 67 (89)
T ss_pred cCCCCCCcceeeeccCeEEcCCCCCeecccc
Confidence 6888874 468999999998888643
No 70
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=20.66 E-value=32 Score=36.72 Aligned_cols=44 Identities=14% Similarity=0.269 Sum_probs=32.8
Q ss_pred cccccCC----CCceEEecccCcccccCCCCCcc-cccccccCCceEEe
Q 016557 123 FCSVSLS----NLNVYACLVCGKYYQGRGQKSHA-YTHSLEAGHHVYIN 166 (387)
Q Consensus 123 ~Cs~c~s----~~nl~~CL~CG~~~cGr~~~sHa-~~H~~~~~H~v~in 166 (387)
.|.-|.. ...+-+||.|+..+||+...-|. ..|+-.+=|.+++.
T Consensus 24 eC~yCf~S~~~e~si~vClnCfqs~C~~h~~~H~~~~~~c~tvh~i~~t 72 (749)
T COG5207 24 ECCYCFRSIGDEHSISVCLNCFQSFCEKHRGIHLGTKSGCRTVHDIKET 72 (749)
T ss_pred hhheeeccCCCCcceehHHHHhHhhhhhccceeecchhhhhhhhhhhhh
Confidence 4666653 34688999999999998887777 57777777777553
Done!