Query psy9878
Match_columns 338
No_of_seqs 216 out of 1896
Neff 7.8
Searched_HMMs 46136
Date Fri Aug 16 21:57:38 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9878.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9878hhsearch_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 7.3E-59 1.6E-63 458.4 24.0 255 12-321 1-255 (440)
2 KOG0944|consensus 100.0 2.6E-43 5.7E-48 344.1 15.5 237 14-291 166-422 (763)
3 KOG2026|consensus 100.0 3.6E-41 7.9E-46 311.2 11.9 253 8-319 10-264 (442)
4 COG5207 UBP14 Isopeptidase T [ 100.0 1.4E-39 3.1E-44 309.1 12.1 257 7-307 151-425 (749)
5 KOG1873|consensus 100.0 1.6E-35 3.4E-40 292.2 15.0 235 36-312 90-342 (877)
6 COG5560 UBP12 Ubiquitin C-term 99.9 8E-26 1.7E-30 220.4 8.4 132 179-313 263-425 (823)
7 cd02658 Peptidase_C19B A subfa 99.9 3.4E-25 7.3E-30 209.5 11.7 132 183-320 1-144 (311)
8 cd02657 Peptidase_C19A A subfa 99.9 1.1E-24 2.4E-29 205.3 12.9 135 183-325 1-142 (305)
9 cd02660 Peptidase_C19D A subfa 99.9 9.3E-25 2E-29 207.8 12.5 134 182-319 1-140 (328)
10 cd02663 Peptidase_C19G A subfa 99.9 1.5E-24 3.2E-29 204.4 10.2 115 183-323 1-130 (300)
11 KOG1865|consensus 99.9 5E-24 1.1E-28 206.9 10.6 126 181-313 108-239 (545)
12 cd02671 Peptidase_C19O A subfa 99.9 2E-23 4.4E-28 199.1 11.8 128 174-323 17-144 (332)
13 cd02666 Peptidase_C19J A subfa 99.9 1.9E-23 4.1E-28 199.5 10.3 127 181-318 1-154 (343)
14 cd02661 Peptidase_C19E A subfa 99.9 3.6E-23 7.9E-28 194.1 12.0 133 181-320 1-142 (304)
15 cd02668 Peptidase_C19L A subfa 99.9 4E-23 8.6E-28 196.7 12.3 129 183-319 1-135 (324)
16 KOG1867|consensus 99.9 6.5E-22 1.4E-26 195.8 11.1 239 30-313 46-297 (492)
17 cd02659 peptidase_C19C A subfa 99.9 1.3E-21 2.8E-26 186.6 10.3 131 180-320 1-131 (334)
18 cd02664 Peptidase_C19H A subfa 99.9 2E-21 4.2E-26 185.3 10.9 116 183-320 1-117 (327)
19 PF00443 UCH: Ubiquitin carbox 99.8 6.2E-21 1.3E-25 173.9 11.3 137 181-318 1-147 (269)
20 cd02667 Peptidase_C19K A subfa 99.8 2.9E-21 6.3E-26 180.2 7.9 86 183-319 1-86 (279)
21 COG5533 UBP5 Ubiquitin C-termi 99.8 1.1E-20 2.3E-25 171.5 7.5 131 180-313 70-235 (415)
22 PF02148 zf-UBP: Zn-finger in 99.8 3.2E-20 6.9E-25 134.2 5.1 60 30-89 1-61 (63)
23 KOG1868|consensus 99.7 1.4E-16 3.1E-21 161.2 9.7 116 177-294 297-412 (653)
24 cd02662 Peptidase_C19F A subfa 99.7 1.1E-16 2.4E-21 146.2 8.0 71 183-321 1-71 (240)
25 KOG1863|consensus 99.6 2.1E-15 4.6E-20 162.9 7.7 132 178-320 166-298 (1093)
26 COG5077 Ubiquitin carboxyl-ter 99.5 5.2E-15 1.1E-19 147.6 6.4 136 176-325 188-323 (1089)
27 KOG1870|consensus 99.5 1.5E-14 3.3E-19 152.7 7.5 134 176-313 241-403 (842)
28 KOG0804|consensus 99.4 2.7E-13 6E-18 128.7 4.0 62 27-88 228-289 (493)
29 KOG1871|consensus 99.3 1.3E-12 2.8E-17 122.5 6.5 139 179-322 26-246 (420)
30 smart00290 ZnF_UBP Ubiquitin C 99.3 1.4E-12 3E-17 89.7 3.7 48 30-77 2-49 (50)
31 KOG1866|consensus 99.3 1.9E-12 4E-17 129.4 5.9 153 178-337 92-267 (944)
32 cd02673 Peptidase_C19Q A subfa 99.3 2.7E-12 5.9E-17 117.5 5.1 82 184-323 2-91 (245)
33 PF13423 UCH_1: Ubiquitin carb 99.3 7.7E-12 1.7E-16 117.6 7.8 130 182-322 1-142 (295)
34 cd02674 Peptidase_C19R A subfa 99.3 2.1E-12 4.6E-17 116.5 3.3 55 183-317 1-55 (230)
35 cd02665 Peptidase_C19I A subfa 99.2 9.1E-12 2E-16 112.5 5.8 45 272-316 21-71 (228)
36 cd02257 Peptidase_C19 Peptidas 99.2 2.2E-11 4.9E-16 109.1 4.1 68 183-319 1-74 (255)
37 KOG1872|consensus 99.0 9.4E-11 2E-15 112.8 2.1 138 179-323 103-248 (473)
38 KOG1864|consensus 98.2 1.4E-06 3.1E-11 88.5 4.3 141 179-323 230-402 (587)
39 cd02672 Peptidase_C19P A subfa 98.1 4.3E-06 9.2E-11 77.7 4.9 55 179-240 13-67 (268)
40 KOG4598|consensus 97.9 5.4E-06 1.2E-10 83.3 2.1 96 178-311 84-179 (1203)
41 cd02669 Peptidase_C19M A subfa 97.4 6.2E-05 1.3E-09 74.9 1.4 45 101-145 1-45 (440)
42 KOG1864|consensus 96.9 0.0015 3.3E-08 66.8 6.1 109 184-292 34-153 (587)
43 KOG2026|consensus 96.6 0.00085 1.8E-08 63.8 1.3 48 98-145 11-58 (442)
44 cd02670 Peptidase_C19N A subfa 95.0 0.023 5E-07 51.9 3.6 20 183-202 1-21 (241)
45 KOG1275|consensus 93.6 0.18 4E-06 53.2 6.8 72 180-262 498-569 (1118)
46 PF09416 UPF1_Zn_bind: RNA hel 90.4 0.28 6E-06 41.4 3.2 56 30-85 3-68 (152)
47 PF05408 Peptidase_C28: Foot-a 89.4 0.23 5E-06 43.0 2.0 22 181-202 33-54 (193)
48 PF08715 Viral_protease: Papai 77.8 5.2 0.00011 38.1 5.8 79 179-289 100-179 (320)
49 PHA00616 hypothetical protein 56.6 2 4.3E-05 28.4 -1.2 25 40-64 2-27 (44)
50 PF04438 zf-HIT: HIT zinc fing 54.2 4.1 8.8E-05 24.6 -0.1 24 27-51 2-25 (30)
51 COG5207 UBP14 Isopeptidase T [ 53.7 2.7 5.9E-05 42.1 -1.4 64 10-73 2-73 (749)
52 KOG3362|consensus 49.7 4.8 0.0001 33.5 -0.3 25 26-51 117-141 (156)
53 smart00105 ArfGap Putative GTP 46.9 20 0.00044 28.5 2.9 43 27-73 3-45 (112)
54 PF01412 ArfGap: Putative GTPa 46.5 19 0.00041 28.8 2.7 50 26-79 12-61 (116)
55 KOG0944|consensus 46.1 15 0.00032 38.2 2.4 43 29-75 26-72 (763)
56 cd00729 rubredoxin_SM Rubredox 43.1 12 0.00025 23.2 0.8 14 39-52 2-15 (34)
57 KOG1802|consensus 39.9 29 0.00064 36.4 3.4 57 30-86 63-129 (935)
58 cd00350 rubredoxin_like Rubred 39.3 13 0.00027 22.8 0.5 14 39-52 1-14 (33)
59 KOG1871|consensus 38.8 13 0.00028 36.2 0.7 33 180-212 177-209 (420)
60 PF00096 zf-C2H2: Zinc finger, 36.8 10 0.00023 20.5 -0.2 13 40-52 1-13 (23)
61 PF14369 zf-RING_3: zinc-finge 35.4 18 0.00039 22.6 0.7 12 77-88 2-13 (35)
62 PF10571 UPF0547: Uncharacteri 34.6 15 0.00032 21.4 0.2 22 28-49 1-24 (26)
63 PF08792 A2L_zn_ribbon: A2L zi 33.4 34 0.00073 21.1 1.7 22 28-49 4-31 (33)
64 KOG0826|consensus 32.6 58 0.0012 31.1 3.8 48 2-52 277-326 (357)
65 KOG0704|consensus 31.7 29 0.00063 33.3 1.8 22 25-46 17-46 (386)
66 PF15616 TerY-C: TerY-C metal 31.7 31 0.00067 28.5 1.7 21 30-51 80-100 (131)
67 COG1997 RPL43A Ribosomal prote 30.6 32 0.0007 26.2 1.5 24 29-52 37-66 (89)
68 PF13894 zf-C2H2_4: C2H2-type 27.7 19 0.00041 19.2 -0.1 12 40-51 1-12 (24)
69 PHA00626 hypothetical protein 27.5 33 0.00071 23.9 1.0 21 30-50 14-34 (59)
70 COG5574 PEX10 RING-finger-cont 27.3 22 0.00047 32.8 0.1 24 27-50 215-238 (271)
71 PF07754 DUF1610: Domain of un 27.2 35 0.00075 19.5 0.9 13 35-47 12-24 (24)
72 PF05715 zf-piccolo: Piccolo Z 25.6 38 0.00082 23.9 1.1 10 37-46 47-56 (61)
73 PF07282 OrfB_Zn_ribbon: Putat 22.8 56 0.0012 23.2 1.6 24 25-48 26-55 (69)
74 PF13923 zf-C3HC4_2: Zinc fing 22.3 56 0.0012 20.3 1.3 22 30-51 1-23 (39)
75 PF06221 zf-C2HC5: Putative zi 22.2 29 0.00062 24.3 -0.1 13 39-51 18-30 (57)
76 PF08882 Acetone_carb_G: Aceto 22.2 74 0.0016 25.4 2.2 47 44-90 28-87 (112)
77 PLN03119 putative ADP-ribosyla 21.5 62 0.0013 33.2 2.1 30 25-54 21-50 (648)
78 PF01780 Ribosomal_L37ae: Ribo 21.1 40 0.00087 25.9 0.5 24 30-53 38-67 (90)
79 TIGR03544 DivI1A_domain DivIVA 21.0 75 0.0016 19.4 1.7 31 252-285 2-32 (34)
80 PF08790 zf-LYAR: LYAR-type C2 20.8 48 0.001 19.7 0.7 19 40-58 1-19 (28)
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=7.3e-59 Score=458.41 Aligned_cols=255 Identities=67% Similarity=1.144 Sum_probs=227.2
Q ss_pred CCcccccccccCCCccccccccCCCCCeeEEeeeCceecccCCchhHhhhhhhcCccEEEeecCCeEEEecCCeEEeccc
Q psy9878 12 PYLDTINRQLLDFDFEKLCSVSLSRINVYACLVCGKYFQGRGTNTFAYTHSVAESHHVFLNLHTLKFYCLPDNYEIVGTV 91 (338)
Q Consensus 12 ~~l~~~~~~~~~~~~~k~C~~c~~~~~lw~CL~Cg~~~CGr~~~~Ha~~H~~~~~H~l~v~l~t~~v~Cy~Cd~~v~~~~ 91 (338)
|||++|+|.++|||+||.|++|.++.|+|+||+||+++|||+.++||+.|+.+++|+++|++.|++||||+|+++|+
T Consensus 1 ~yl~ti~r~~ldfd~e~~C~~~~~~~n~~~CL~cg~~~~g~~~~~ha~~H~~~~~H~~~v~l~t~~~yc~~~~~~v~--- 77 (440)
T cd02669 1 PYLDTINRSVLDFDFEKVCSVSLSNLNVYACLVCGKYFQGRGKGSHAYTHSLEDNHHVFLNLETLKFYCLPDNYEII--- 77 (440)
T ss_pred CchhhhhhhhccccccccccccCCCCcEEEEcccCCeecCCCCCcHHHHHhhccCCCEEEECCCCCEEEeCCCCEEe---
Confidence 79999999999999999999999999999999999999999999999999999999999999999999999999997
Q ss_pred CCccccccchhHHHHHhhhccccccceeeeecccccchhhhccCcccCCCChhhhhhhcCCCCChHHhhhcCcccccccc
Q psy9878 92 AGPVVNRLCPYLDTINRQLLDFDFEKLCSVSLSRINVYACLVCGKYFQDSSLDDIKYVLNPTFTTDQIKQLDLSDKMSRA 171 (338)
Q Consensus 92 ~~~~~~~~~~~~~~i~~~~~~~~~ek~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~i~~~~~~~~~~~~ 171 (338)
+.+++++++.+.|+++++.+..++.+..+.++
T Consensus 78 ------------------------------------------------d~~l~~i~~~~~~~~~~~~i~~~~~~~~~~~~ 109 (440)
T cd02669 78 ------------------------------------------------DSSLDDIKYVLNPTYTKEQISDLDRDPKLSRD 109 (440)
T ss_pred ------------------------------------------------CccHHHHHHHhcCCCCHHHHHHhhhccccccc
Confidence 34455677788888888888877766665567
Q ss_pred cCCCcccCCccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCcc
Q psy9878 172 IDGTLYLPGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHV 251 (338)
Q Consensus 172 ~~~~~~~~g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~i 251 (338)
+++..+.+|++||.|+|||||||||||+|+|+|+||++|+...+....+ ....+++++|+.+++++|++..++.++
T Consensus 110 ~~~~~~~~G~vGL~NlGnTCYmNsvLQ~L~~~p~lr~~~l~~~~~~~~~----~~~~~l~~~l~~l~~kl~~~~~~~~~i 185 (440)
T cd02669 110 LDGKPYLPGFVGLNNIKNNDYANVIIQALSHVKPIRNFFLLYENYENIK----DRKSELVKRLSELIRKIWNPRNFKGHV 185 (440)
T ss_pred cCCCCccCCccCccCCCCchHHHHHHHHHHCCHHHHHHHhhcccccccc----CCCcHHHHHHHHHHHHHhccccCCCcc
Confidence 7888999999999999999999999999999999999999865432211 123579999999999999987767899
Q ss_pred CHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEEEEEEeCCCCC
Q psy9878 252 SPHEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPPVE 321 (338)
Q Consensus 252 sP~~l~~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~s~t~~~~~~~ 321 (338)
+|.+|++.++....+.|++++||||||||++|||.||+++.+..+...++|+++|+|++++++..+....
T Consensus 186 sP~~fl~~l~~~~~~~f~~~~QqDA~EFl~~LLd~L~~~l~~~~~~~~~ii~~~F~G~l~~~~~c~~~~~ 255 (440)
T cd02669 186 SPHELLQAVSKVSKKKFSITEQSDPVEFLSWLLNTLHKDLGGSKKPNSSIIHDCFQGKVQIETQKIKPHA 255 (440)
T ss_pred CHHHHHHHHHhhcccccCCcccCCHHHHHHHHHHHHHHHhccCCCCCCCcceeccCceEEEEEEeecccc
Confidence 9999999999875678999999999999999999999999876667889999999999999988776543
No 2
>KOG0944|consensus
Probab=100.00 E-value=2.6e-43 Score=344.06 Aligned_cols=237 Identities=20% Similarity=0.309 Sum_probs=180.3
Q ss_pred cccccccccCCCcccc-ccccCCCCCeeEEeeeCceecccC------CchhHhhhhhhcCccEEEeecC-----CeEEEe
Q psy9878 14 LDTINRQLLDFDFEKL-CSVSLSRINVYACLVCGKYFQGRG------TNTFAYTHSVAESHHVFLNLHT-----LKFYCL 81 (338)
Q Consensus 14 l~~~~~~~~~~~~~k~-C~~c~~~~~lw~CL~Cg~~~CGr~------~~~Ha~~H~~~~~H~l~v~l~t-----~~v~Cy 81 (338)
|.+++.++.. -...| |+.|+.+.|||+||+||.++|||. .|+||+.||.+++|||||+|.| .+||||
T Consensus 166 l~q~dng~~~-~~~gwkCs~CDL~~NLWlcLtcG~v~CGR~qfg~~GgNgHA~~HYr~tghPLaVKLgsIs~dg~DvycY 244 (763)
T KOG0944|consen 166 LSQIDNGKRI-PPSGWKCSKCDLTENLWLCLTCGSVGCGRKQFGGSGGNGHALSHYRETGHPLAVKLGSISPDGADVYCY 244 (763)
T ss_pred hhhcccCccc-CCCcceecccCcccceEEEeccCceeecceeecCCCCCcchHHhhhhcCCceEEEecccCCCccceeee
Confidence 4455554421 12333 999999999999999999999994 3899999999999999999976 799999
Q ss_pred cCCeEEecccCCccccccchhHHHHHhhhccccccceeeeecccccchhhhccCcccCCCChhhhhhhcCCCCChHHhhh
Q psy9878 82 PDNYEIVGTVAGPVVNRLCPYLDTINRQLLDFDFEKLCSVSLSRINVYACLVCGKYFQDSSLDDIKYVLNPTFTTDQIKQ 161 (338)
Q Consensus 82 ~Cd~~v~~~~~~~~~~~~~~~~~~i~~~~~~~~~ek~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~i~~ 161 (338)
.||+.|.++ .+++++.+| +|++. +.-.+++++.+++...+-.|..+.++.
T Consensus 245 ~cDd~v~dP--------------nl~~hl~hf------GId~~----------~m~kteksl~elel~~N~i~Ew~~~~e 294 (763)
T KOG0944|consen 245 DCDDEVRDP--------------NLESHLSHF------GIDMA----------KMDKTEKSLVELELDQNRIWEWEALEE 294 (763)
T ss_pred cccccccCc--------------cHHHHHHhc------CccHH----------HhccchhHHHHHHHHhhcccCceeecc
Confidence 999999853 356777777 33330 111234555555555555555444332
Q ss_pred cCcccccccccCCCcccCCccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHH
Q psy9878 162 LDLSDKMSRAIDGTLYLPGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKL 241 (338)
Q Consensus 162 ~~~~~~~~~~~~~~~~~~g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l 241 (338)
-.. . -.+.+.||++||+|+||+||||||||+|+.+|.|...++... ......+.+...+|.++|.+|...|
T Consensus 295 sg~------~-l~p~~gpgytGl~NlGNSCYlnSVmQ~Lf~i~~fq~~~~~~~--~~f~~~~~~P~ndf~cQ~~Kl~~gm 365 (763)
T KOG0944|consen 295 SGA------P-LEPLFGPGYTGLINLGNSCYLNSVMQSLFSIPSFQRRYLEQE--RIFNCYPKDPTNDFNCQLAKLLHGM 365 (763)
T ss_pred CCC------c-cccccCCCccceeecCcchhHHHHHHHheecccHHHhhcccc--ceeecCCCCcchhHHHHHHHHHHHh
Confidence 111 1 123678999999999999999999999999999999887652 1122233344688999999999999
Q ss_pred hCCCCCC--------CccCHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHh
Q psy9878 242 WNPRNFK--------SHVSPHEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRAL 291 (338)
Q Consensus 242 ~~~~~~~--------~~isP~~l~~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~ 291 (338)
.++..-+ ..|+|..|...+|+. +|.|+..+||||+|||++||+.|.+..
T Consensus 366 ~sgkys~p~~~~~~qngIsP~mFK~~igkn-HpeFst~~QQDA~EFllfLl~ki~~n~ 422 (763)
T KOG0944|consen 366 LSGKYSKPLMDPSNQNGISPLMFKALIGKN-HPEFSTNRQQDAQEFLLFLLEKIRENS 422 (763)
T ss_pred hcCcccCccCCccccCCcCHHHHHHHHcCC-CccccchhhhhHHHHHHHHHHHHhhcc
Confidence 9876333 479999999999997 999999999999999999999998753
No 3
>KOG2026|consensus
Probab=100.00 E-value=3.6e-41 Score=311.21 Aligned_cols=253 Identities=64% Similarity=1.032 Sum_probs=231.0
Q ss_pred CCCCCCcccccccccCCCccccccccCCCCCeeEEeeeCceecccCCchhHhhhhhhcCccEEEeecC-CeEEEecCCeE
Q psy9878 8 NRLCPYLDTINRQLLDFDFEKLCSVSLSRINVYACLVCGKYFQGRGTNTFAYTHSVAESHHVFLNLHT-LKFYCLPDNYE 86 (338)
Q Consensus 8 ~~~c~~l~~~~~~~~~~~~~k~C~~c~~~~~lw~CL~Cg~~~CGr~~~~Ha~~H~~~~~H~l~v~l~t-~~v~Cy~Cd~~ 86 (338)
.+.|++|+++++.+++||++|.|++..++-++|+||.||.++.||++++||+.|+.+++|.+++|+.| +..|+.+.+++
T Consensus 10 ~~~~~yldtv~r~vldfd~ek~c~vslsnLnvyAclvcg~y~qgr~~kS~A~~h~l~~ghhvf~nl~telkfyvlpe~~e 89 (442)
T KOG2026|consen 10 EPNYAYLETVVRRVLDFDFEKPCSVSLSNLNVYACLVCGKYFQGRGEKSHAYTHSLEEGHHVFLNLSTELKFYVLPENYE 89 (442)
T ss_pred CcchHhhhhhhhhhccccCCCCCcccccccceeeeeeeCchhhCcCccccchhccccccccceeccccceeEEecchhcc
Confidence 46789999999999999999999999999999999999999999999999999999999999999999 88888887776
Q ss_pred EecccCCccccccchhHHHHHhhhccccccceeeeecccccchhhhccCcccCCCChhhhhhhcCCCCChHHhhhcCc-c
Q psy9878 87 IVGTVAGPVVNRLCPYLDTINRQLLDFDFEKLCSVSLSRINVYACLVCGKYFQDSSLDDIKYVLNPTFTTDQIKQLDL-S 165 (338)
Q Consensus 87 v~~~~~~~~~~~~~~~~~~i~~~~~~~~~ek~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~i~~~~~-~ 165 (338)
+. +.+.+++++.+.|++++..+..++. +
T Consensus 90 i~---------------------------------------------------d~s~~~ikhslkptftr~~cp~lD~~n 118 (442)
T KOG2026|consen 90 ID---------------------------------------------------DPSLGDIKHSLKPTFTKTDCPNLDKVN 118 (442)
T ss_pred cc---------------------------------------------------Cchhhhhhccccceeehhhcccccccc
Confidence 64 4555667888999999988887776 7
Q ss_pred cccccccCCCcccCCccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCC
Q psy9878 166 DKMSRAIDGTLYLPGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPR 245 (338)
Q Consensus 166 ~~~~~~~~~~~~~~g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~ 245 (338)
++++.++++..|.+|++||.|+-++-|.|++||+|++.+++|+|++.... .++....++..|..+++++|+++
T Consensus 119 r~~~raLd~~tYLpG~VGLnNik~~dy~n~vl~~ls~v~PlRnyFl~~~n-------~~d~~~~lv~rl~~l~rklw~~r 191 (442)
T KOG2026|consen 119 RKLSRALDGSTYLPGFVGLNNIKANDYANAVLQALSHVVPLRNYFLLEEN-------YFDNLTELVQRLGELIRKLWNPR 191 (442)
T ss_pred hhhhhhhcCCcceeeeeccchhhhHHHHHHHHHHHhccchhhhhhccccc-------ccchhHHHHHHHHHHHHHhcChh
Confidence 78889999999999999999999999999999999999999999998653 23345779999999999999999
Q ss_pred CCCCccCHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEEEEEEeCCC
Q psy9878 246 NFKSHVSPHEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPP 319 (338)
Q Consensus 246 ~~~~~isP~~l~~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~s~t~~~~~ 319 (338)
.+++++||.++++++...+...|...+|-|+.||+.||||.||..+.+.+ ...+||++.|+|.+++.++....
T Consensus 192 ~fk~hvSphe~lqaV~~~s~k~f~i~~q~DpveFlswllntlhs~l~~~k-~~~SIi~~~fqG~~ri~k~~~~~ 264 (442)
T KOG2026|consen 192 NFKGHVSPHEFLQAVMKLSKKRFRIGQQSDPVEFLSWLLNTLHSDLRGSK-KASSIIHKSFQGEVRIVKEKQGE 264 (442)
T ss_pred hhcccCCHHHHHHHHHHHhhhheecCCCCCHHHHHHHHHHHHHHHhCCCC-CchhHhhHhhcceEEeeeecccc
Confidence 99999999999999999889999999999999999999999999998776 56799999999999999988873
No 4
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=100.00 E-value=1.4e-39 Score=309.07 Aligned_cols=257 Identities=19% Similarity=0.248 Sum_probs=181.4
Q ss_pred CCCCCCCcccccccc---cCCCccccccccCCCCCeeEEeeeCceecccCC-----chhHhhhhhhcCccEEEeecC---
Q psy9878 7 VNRLCPYLDTINRQL---LDFDFEKLCSVSLSRINVYACLVCGKYFQGRGT-----NTFAYTHSVAESHHVFLNLHT--- 75 (338)
Q Consensus 7 ~~~~c~~l~~~~~~~---~~~~~~k~C~~c~~~~~lw~CL~Cg~~~CGr~~-----~~Ha~~H~~~~~H~l~v~l~t--- 75 (338)
+...|||.-...... -+++..+ |+.|+...|||+||+||+++|||-+ ++||+.||.+++||+||++.+
T Consensus 151 E~~tC~H~~n~~~~s~~~~ni~~~~-Cs~CDl~~nLW~Cl~CG~vgCGR~QyG~~GngHAlsHY~~t~Hplavkl~Sls~ 229 (749)
T COG5207 151 EEVTCVHGCNEGPSSIEMGNIGGLK-CSLCDLKTNLWVCLSCGYVGCGRMQYGAEGNGHALSHYEETQHPLAVKLPSLSK 229 (749)
T ss_pred hcccccccCCCCCCcccccccCCce-eccccchhceEEEEecCcccccceeecCCCCcchhhhhhccCCceEEEcccccc
Confidence 456899988444332 2456555 9999999999999999999999943 899999999999999999965
Q ss_pred --CeEEEecCCeEEecccCCccccccchhHHHHHhhhccccccceeeeecccccchhhhccCcccCCCChhhhhhhcCCC
Q psy9878 76 --LKFYCLPDNYEIVGTVAGPVVNRLCPYLDTINRQLLDFDFEKLCSVSLSRINVYACLVCGKYFQDSSLDDIKYVLNPT 153 (338)
Q Consensus 76 --~~v~Cy~Cd~~v~~~~~~~~~~~~~~~~~~i~~~~~~~~~ek~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~ 153 (338)
.+||||.||+++..+. --.+..++.+| ++++.. ....++++.+++..-+..
T Consensus 230 ~~~diyCY~CD~e~R~~~-----------n~n~~s~~~~f------GinIa~----------~~~~Eksl~~lq~eqn~n 282 (749)
T COG5207 230 EDCDIYCYLCDSEIRSRY-----------NSNENSVTIDF------GINIAD----------GKTEEKSLRKLQSEQNAN 282 (749)
T ss_pred ccccEEEEecCcccccCC-----------cccccceeeee------ccchhh----------ccchHHHHHHHHHhhhcC
Confidence 7999999999975321 11234455555 233210 111245555554443444
Q ss_pred CChHHhhhcCcccccccccCCCcccCC-ccccccCCChhHHHHHHHHHhcChHHHHHHhchhhh--hccCCCCCCChhHH
Q psy9878 154 FTTDQIKQLDLSDKMSRAIDGTLYLPG-IVGLNNIKANDYCNVILQALCHVTPLRDYFLREINY--ARVKRPPGDSSFLL 230 (338)
Q Consensus 154 ~~~~~i~~~~~~~~~~~~~~~~~~~~g-~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~--~~~~~~~~~~~~~l 230 (338)
|......+.+. ......|+ ++||.|+||+||+|||||+|+....+..-+....+. ..+..| ..+|
T Consensus 283 w~F~~~~~~~~--------sk~~~~ps~~~GliNlGNsCYl~SviqSlv~~~v~~~~~d~l~~~~~~~~~~P----~~~l 350 (749)
T COG5207 283 WEFLEKKRAPE--------SKGESVPSPYVGLINLGNSCYLSSVIQSLVGYAVSKEEFDLLQHFEICYMKNP----LECL 350 (749)
T ss_pred cchhccccCch--------hhcccCCCCccceEecCCeeeHHHHHHHHhccccchhhhhhhccceeeeecCC----chhH
Confidence 43222211111 11222344 799999999999999999999988777665554433 223333 3789
Q ss_pred HHHHHHHHHHHhCCC--CCCCccCHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccce
Q psy9878 231 VQRFGELMRKLWNPR--NFKSHVSPHEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFL 307 (338)
Q Consensus 231 ~~~l~~l~~~l~~~~--~~~~~isP~~l~~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~ 307 (338)
-|++.+|+.+|.... .+...++|..|...+|+. ++.|...+||||+|||.|||+.|.+...... .+.|.++|.
T Consensus 351 ~CQl~kll~~mk~~p~~~y~ngi~p~~fk~~igq~-h~eFg~~~QQDA~EFLlfLL~kirk~~~S~~---~~~It~lf~ 425 (749)
T COG5207 351 FCQLMKLLSKMKETPDNEYVNGISPLDFKMLIGQD-HPEFGKFAQQDAHEFLLFLLEKIRKGERSYL---IPPITSLFE 425 (749)
T ss_pred HHHHHHHHhhccCCCCccccCCcChhhHHHHHcCC-chhhhhhhhhhHHHHHHHHHHHHhhccchhc---CCCcchhhh
Confidence 999999999998743 456789999999999997 9999999999999999999999998433222 244556665
No 5
>KOG1873|consensus
Probab=100.00 E-value=1.6e-35 Score=292.20 Aligned_cols=235 Identities=20% Similarity=0.277 Sum_probs=156.2
Q ss_pred CCCeeEEeeeCceeccc-CCchhHhhhhhh---cCccEEEeecCCeEEEecCCeEEecccCCccccccchhHHHHHhhhc
Q psy9878 36 RINVYACLVCGKYFQGR-GTNTFAYTHSVA---ESHHVFLNLHTLKFYCLPDNYEIVGTVAGPVVNRLCPYLDTINRQLL 111 (338)
Q Consensus 36 ~~~lw~CL~Cg~~~CGr-~~~~Ha~~H~~~---~~H~l~v~l~t~~v~Cy~Cd~~v~~~~~~~~~~~~~~~~~~i~~~~~ 111 (338)
...+|+||.||+++||| +...||++||+. +.|+|+|++.++.+|||.||..+..- .....+.+..|.+.++..
T Consensus 90 ~~~iWLCLkCG~q~CG~~~~~~halkH~~~~r~~~Hclvin~~n~~~WCy~Cd~kl~~~---~~kn~l~e~vd~l~k~a~ 166 (877)
T KOG1873|consen 90 DNAIWLCLKCGYQGCGRNSESQHALKHFLTPRSEPHCLVINLINWLIWCYSCDAKLVPF---DKKNLLGEKVDLLIKVAS 166 (877)
T ss_pred ccceeeecccCCeeeCCCcccchhhhhhcccCCCCeeEEEEeeeeeeEEEeccchhccc---cchhHHHHHHHHHHHHHh
Confidence 45799999999999999 778999999995 58999999999999999999944311 111234445555544432
Q ss_pred cccccceeeeecccccchhhhccCcccCCCChhhhhhhcCCCCChHHhhhcCcccccccccCCCcccCCccccccCCChh
Q psy9878 112 DFDFEKLCSVSLSRINVYACLVCGKYFQDSSLDDIKYVLNPTFTTDQIKQLDLSDKMSRAIDGTLYLPGIVGLNNIKAND 191 (338)
Q Consensus 112 ~~~~ek~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~i~~~~~~~~~~~~~~~~~~~~g~~GL~NlGNTC 191 (338)
... .+. .... +...+..+... +..+....--...+.+-++||.||||||
T Consensus 167 ~~~------~~~----------------spn~------~~~s~~~ek~e---~~ski~~ggie~~~~~~VrGL~NLGNTC 215 (877)
T KOG1873|consen 167 KTS------LTR----------------SPNT------LKISSEEEKLE---KGSKIKKGGIEKRRGYIVRGLTNLGNTC 215 (877)
T ss_pred ccc------ccc----------------CCCc------ccchhhHHhhh---hcccccccCccccccccccccccccchh
Confidence 210 000 0000 00000000000 0000001101234456788999999999
Q ss_pred HHHHHHHHHhcChHHHHHHhchhhhhc--cCCCCC-----------CChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHH
Q psy9878 192 YCNVILQALCHVTPLRDYFLREINYAR--VKRPPG-----------DSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQ 258 (338)
Q Consensus 192 y~NsvLQ~L~~~~~~r~~ll~~~~~~~--~~~~~~-----------~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~ 258 (338)
|+|||||.|+.+|.||+.|........ .-.++. ...+++.-+|.. +.+|..+. +++++|+.|+.
T Consensus 216 FFNavMQnL~qt~~L~d~l~e~~~Sgt~v~I~~~~~s~l~~L~~el~~~g~lt~al~~-~~e~~e~~--ksv~~Pr~lF~ 292 (877)
T KOG1873|consen 216 FFNAVMQNLAQTPALRDVLKEEKESGTSVKIRPPLDSSLSPLFSELSSPGPLTYALAN-LLEMSETT--KSVITPRTLFG 292 (877)
T ss_pred hHHHHHHHHhhcHHHHHHHHhhccCCceeEecCccccchhhHHHhccCCcchhHHHHh-hhhhhhcc--CCccCHHHHHH
Confidence 999999999999999999987554310 001111 123556667777 55565555 78999999999
Q ss_pred HHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHH-hcccCCCccccccccceeEEEE
Q psy9878 259 AVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRA-LNGTKKKDSSIVYKTFLGSMKV 312 (338)
Q Consensus 259 ~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e-~~~~~~~~~~ii~~iF~G~l~s 312 (338)
.++.+ +|+|++|.||||||+|++|||.|..| ....++ .|...|+|...+
T Consensus 293 ~~C~k-~pqF~g~~QhDsHELLR~LLD~l~~EE~~~~kk----~Il~~fG~~t~~ 342 (877)
T KOG1873|consen 293 QFCSK-APQFRGYDQHDSHELLRCLLDSLRSEESRRRKK----NILSNFGGETSS 342 (877)
T ss_pred HHHHh-CCcccccccccHHHHHHHHHHhhhHHHHHHHHH----hHHHhhCccccc
Confidence 99998 99999999999999999999999865 333222 266777776554
No 6
>COG5560 UBP12 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.92 E-value=8e-26 Score=220.36 Aligned_cols=132 Identities=27% Similarity=0.462 Sum_probs=117.7
Q ss_pred CCccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCC-CCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHH
Q psy9878 179 PGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKR-PPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEML 257 (338)
Q Consensus 179 ~g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~-~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~ 257 (338)
.|.+||+|+||||||||.||||.|++.||+||++..+...++. ++....+.++.+++.|++.++.++ -.+++|..|.
T Consensus 263 ~GtcGL~NlGNTCyMNSaLQCL~ht~eLrdyFlsdeye~~iNe~Nplgmhg~vAsayadLik~ly~~~--~haf~Ps~fK 340 (823)
T COG5560 263 AGTCGLRNLGNTCYMNSALQCLMHTWELRDYFLSDEYEESINEENPLGMHGSVASAYADLIKQLYDGN--LHAFTPSGFK 340 (823)
T ss_pred ccccceecCCcceecchHHHHHhccHHHHHHhhhhhhHhhhcccCccchhhhHHHHHHHHHHHHhCcc--ccccChHHHH
Confidence 3889999999999999999999999999999999887766654 233356789999999999999888 6899999999
Q ss_pred HHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccC------------------------------CCccccccccce
Q psy9878 258 QAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTK------------------------------KKDSSIVYKTFL 307 (338)
Q Consensus 258 ~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~------------------------------~~~~~ii~~iF~ 307 (338)
..|+.. +..|+||.|||+|||+.+|||.||+.++++. +++.++|.++|+
T Consensus 341 ~tIG~f-n~~fsGy~QQDSqEFiaflLDgLHEdLnRI~~KpytskPdL~~~d~~~vKk~a~ecW~~H~kRNdSiItdLFq 419 (823)
T COG5560 341 KTIGSF-NEEFSGYDQQDSQEFIAFLLDGLHEDLNRIIKKPYTSKPDLSPGDDVVVKKKAKECWWEHLKRNDSIITDLFQ 419 (823)
T ss_pred HHHhhh-HHHhcCccchhHHHHHHHHHHHHHHHHHHhhcCcccCCCCCCCcchHHHHHHHHHHHHHHHhcCcccHHHHHH
Confidence 999986 9999999999999999999999999998542 268899999999
Q ss_pred eEEEEE
Q psy9878 308 GSMKVK 313 (338)
Q Consensus 308 G~l~s~ 313 (338)
|-++|+
T Consensus 420 gmyKST 425 (823)
T COG5560 420 GMYKST 425 (823)
T ss_pred HHhhce
Confidence 999986
No 7
>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=99.92 E-value=3.4e-25 Score=209.48 Aligned_cols=132 Identities=17% Similarity=0.146 Sum_probs=107.0
Q ss_pred ccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCC------------CCCc
Q psy9878 183 GLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRN------------FKSH 250 (338)
Q Consensus 183 GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~------------~~~~ 250 (338)
||.|+|||||||||||+|+++|+||++++...+... ........++.++|++++..|++++. ++.+
T Consensus 1 GL~NlGNTCY~NsvLQ~L~~~~~f~~~l~~~~~~~~--~~~~~~~~~~~~~l~~l~~~l~~~~~~~~~~~~~~~~~~~~~ 78 (311)
T cd02658 1 GLRNLGNSCYLNSVLQVLFSIPSFQWRYDDLENKFP--SDVVDPANDLNCQLIKLADGLLSGRYSKPASLKSENDPYQVG 78 (311)
T ss_pred CcccCCcchHHHHHHHHHHCCHHHHHHHhhhccccC--CCcCCccccHHHHHHHHHHHhcCCCcCCCccccccccccccc
Confidence 899999999999999999999999999987432211 11122346799999999999987542 2457
Q ss_pred cCHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEEEEEEeCCCC
Q psy9878 251 VSPHEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPPV 320 (338)
Q Consensus 251 isP~~l~~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~s~t~~~~~~ 320 (338)
++|..|+.+++.. .|.|..++||||||||++|||.|++++... ....+.++|+|.++++++.....
T Consensus 79 i~p~~~~~~l~~~-~~~f~~~~QqDa~Efl~~ll~~l~~~~~~~---~~~~~~~~f~~~~~~~i~C~~C~ 144 (311)
T cd02658 79 IKPSMFKALIGKG-HPEFSTMRQQDALEFLLHLIDKLDRESFKN---LGLNPNDLFKFMIEDRLECLSCK 144 (311)
T ss_pred cCcHHHHHHHhcc-ChhhcccccccHHHHHHHHHHHHHHhhccc---ccCCchhheEEEeeEEEEcCCCC
Confidence 9999999999986 899999999999999999999999987532 23568899999999877665544
No 8
>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=99.92 E-value=1.1e-24 Score=205.28 Aligned_cols=135 Identities=27% Similarity=0.254 Sum_probs=111.4
Q ss_pred ccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHHHHh
Q psy9878 183 GLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQAVVL 262 (338)
Q Consensus 183 GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~l~~ 262 (338)
||.|+|||||||||||+|+++|+||++++....... .......++.++|++|+..|+.+. .+++|.+|+..++.
T Consensus 1 Gl~N~GntCy~NsvLQ~L~~~~~f~~~~~~~~~~~~---~~~~~~~~~~~~l~~L~~~l~~~~---~~i~p~~~~~~l~~ 74 (305)
T cd02657 1 GLTNLGNTCYLNSTLQCLRSVPELRDALKNYNPARR---GANQSSDNLTNALRDLFDTMDKKQ---EPVPPIEFLQLLRM 74 (305)
T ss_pred CcccccchhHHHHHHHHHhCCHHHHHHHHhcccccc---ccccchhHHHHHHHHHHHHHHhCC---CcCCcHHHHHHHHH
Confidence 899999999999999999999999999987653211 111234689999999999999865 48999999999998
Q ss_pred hcCCCCC------CCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEEEEEEeCCCC-CccHH
Q psy9878 263 WSRKQFQ------FTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPPV-ELEEK 325 (338)
Q Consensus 263 ~~~~~F~------~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~s~t~~~~~~-~~~~~ 325 (338)
. .+.|. +++||||||||++|||.|++++.. .+...++|+++|+|++++++...... ..+..
T Consensus 75 ~-~~~f~~~~~~~~~~QqDA~EFl~~lld~L~~~~~~-~~~~~~~i~~~F~g~~~~~~~C~~C~~~~~~~ 142 (305)
T cd02657 75 A-FPQFAEKQNQGGYAQQDAEECWSQLLSVLSQKLPG-AGSKGSFIDQLFGIELETKMKCTESPDEEEVS 142 (305)
T ss_pred H-CcCcccccCCCCccccCHHHHHHHHHHHHHHHhcc-cCCCCcHHHHhhceEEEEEEEcCCCCCCCccc
Confidence 7 88884 559999999999999999999864 23456899999999999988877766 34433
No 9
>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=99.92 E-value=9.3e-25 Score=207.76 Aligned_cols=134 Identities=26% Similarity=0.378 Sum_probs=109.7
Q ss_pred cccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHHHH
Q psy9878 182 VGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQAVV 261 (338)
Q Consensus 182 ~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~l~ 261 (338)
+||.|+|||||||||||+|+|+|+||++++...+..... ......++.++|.++|..|+.... ..+++|..|+..+|
T Consensus 1 rGl~N~gntCY~NsvLQ~L~~~~~f~~~ll~~~~~~~~~--~~~~~~~~~~~l~~l~~~l~~~~~-~~~~~~~~~l~~~~ 77 (328)
T cd02660 1 RGLINLGATCFMNVILQALLHNPLLRNYFLSDRHSCTCL--SCSPNSCLSCAMDEIFQEFYYSGD-RSPYGPINLLYLSW 77 (328)
T ss_pred CCccccCcchHHHHHHHHHhcCHHHHHHHhcCccccccc--cCCccccHHHHHHHHHHHHhcCCC-CCCcCHHHHHHHHH
Confidence 699999999999999999999999999999865432101 111246899999999999954432 56899999999999
Q ss_pred hhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCC------CccccccccceeEEEEEEEeCCC
Q psy9878 262 LWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKK------KDSSIVYKTFLGSMKVKTRKIPP 319 (338)
Q Consensus 262 ~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~------~~~~ii~~iF~G~l~s~t~~~~~ 319 (338)
.. .+.|.++.||||||||.+|||.|++++....+ ...++|+++|+|++.++......
T Consensus 78 ~~-~~~f~~~~QqDa~Efl~~ll~~l~~~~~~~~~~~~~~~~~~~~i~~~F~g~~~~~~~C~~C 140 (328)
T cd02660 78 KH-SRNLAGYSQQDAHEFFQFLLDQLHTHYGGDKNEANDESHCNCIIHQTFSGSLQSSVTCQRC 140 (328)
T ss_pred hh-chhhcccccccHHHHHHHHHHHHHHHhhcccccccccccCCceeEEecccEEEeeeEcCCC
Confidence 87 78999999999999999999999999865432 34579999999999987665443
No 10
>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=99.91 E-value=1.5e-24 Score=204.37 Aligned_cols=115 Identities=23% Similarity=0.381 Sum_probs=99.0
Q ss_pred ccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHHHHh
Q psy9878 183 GLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQAVVL 262 (338)
Q Consensus 183 GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~l~~ 262 (338)
||.|+|||||||||||+|+| .++.++|+.||..||.+....++++|..|+++++.
T Consensus 1 Gl~NlGnTCY~NsvLQ~L~~-------------------------~~l~~~L~~lf~~l~~~~~~~~~isP~~f~~~l~~ 55 (300)
T cd02663 1 GLENFGNTCYCNSVLQALYF-------------------------ENLLTCLKDLFESISEQKKRTGVISPKKFITRLKR 55 (300)
T ss_pred CccCCCcceehhHHHHHhhh-------------------------HHHHHHHHHHHHHHHhCCCCCeeECHHHHHHHHHh
Confidence 89999999999999999988 24788999999999987644578999999999998
Q ss_pred hcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccC---------------CCccccccccceeEEEEEEEeCCCCCcc
Q psy9878 263 WSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTK---------------KKDSSIVYKTFLGSMKVKTRKIPPVELE 323 (338)
Q Consensus 263 ~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~---------------~~~~~ii~~iF~G~l~s~t~~~~~~~~~ 323 (338)
. .+.|.+++||||||||++|||.|++++.... ....++|.++|+|+++++++.......+
T Consensus 56 ~-~~~f~~~~QqDA~EFl~~lLd~l~~~l~~~~~~~~~~~~~~~~~~~~~~~~~i~~~F~G~~~~~~~C~~C~~~s 130 (300)
T cd02663 56 E-NELFDNYMHQDAHEFLNFLLNEIAEILDAERKAEKANRKLNNNNNAEPQPTWVHEIFQGILTNETRCLTCETVS 130 (300)
T ss_pred h-cCCCCCCccccHHHHHHHHHHHHHHHHHHHhhcccccccccccccCCcCCCChhhhCceEEEeeEEeCCCCCCc
Confidence 7 8999999999999999999999999986432 2356889999999999988766554443
No 11
>KOG1865|consensus
Probab=99.90 E-value=5e-24 Score=206.87 Aligned_cols=126 Identities=21% Similarity=0.379 Sum_probs=109.7
Q ss_pred ccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHHH
Q psy9878 181 IVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQAV 260 (338)
Q Consensus 181 ~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~l 260 (338)
..||.|+|||||+|||||||.++|||.+||++..|...+-+ ...|+.|+|+..+.....+. ..+|+|..|+.-|
T Consensus 108 ~~GL~NlGNtCfaNsvlQcLt~T~PLv~yLls~~hs~~C~~----~~~C~lc~~q~hi~~A~~~~--g~pisP~~i~s~L 181 (545)
T KOG1865|consen 108 GAGLQNLGNTCFANSVLQCLTYTPPLVNYLLSREHSRSCHR----AKFCMLCTFQAHITRALHNP--GHPISPSQILSNL 181 (545)
T ss_pred CcceecCCccHHHHHHHHHhcccHHHHHHHHHhhhhhhccc----cCeeeehHHHHHHHHHhcCC--CCccChHHHHHhh
Confidence 36999999999999999999999999999999888754432 34799999999988888776 4599999999999
Q ss_pred HhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccC------CCccccccccceeEEEEE
Q psy9878 261 VLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTK------KKDSSIVYKTFLGSMKVK 313 (338)
Q Consensus 261 ~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~------~~~~~ii~~iF~G~l~s~ 313 (338)
... ...|..++|.||||||++++|.|+.-..... ....++|++||||.|+|+
T Consensus 182 ~~I-~~~f~~grQEDAHEFLr~~vd~mqk~cL~g~~~~~~~sq~ttlv~~iFGG~LrS~ 239 (545)
T KOG1865|consen 182 RNI-SAHFGRGRQEDAHEFLRFTVDAMQKACLPGHKQVDPRSQDTTLVHQIFGGYLRSQ 239 (545)
T ss_pred hhh-cccccCCchhhHHHHHHHHHHHHHHhhcCCCccCCcccccceehhhhhccchhhc
Confidence 886 8999999999999999999999998753222 256799999999999997
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=99.90 E-value=2e-23 Score=199.10 Aligned_cols=128 Identities=22% Similarity=0.248 Sum_probs=99.6
Q ss_pred CCcccCCccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCH
Q psy9878 174 GTLYLPGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSP 253 (338)
Q Consensus 174 ~~~~~~g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP 253 (338)
.+.+..|++||.|+|||||||||||+|+|+|+||+.+...... .. ...-.+.+..++++++... ...++|
T Consensus 17 ~~~~~~~~~GL~NlGnTCYmNSvLQ~L~~~p~fr~~l~~~~~~------~~--~~~~~q~~~~~l~~~~~~~--~~~~~P 86 (332)
T cd02671 17 KRENLLPFVGLNNLGNTCYLNSVLQVLYFCPGFKHGLKHLVSL------IS--SVEQLQSSFLLNPEKYNDE--LANQAP 86 (332)
T ss_pred ccccCCCCcceeccCceEeHHHHHHHHHcChHHHHHHHhhhcc------cC--cHHHHHHHHHHHHHHHhhc--ccccCH
Confidence 3456789999999999999999999999999999998754311 00 0112223334456666654 346789
Q ss_pred HHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEEEEEEeCCCCCcc
Q psy9878 254 HEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPPVELE 323 (338)
Q Consensus 254 ~~l~~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~s~t~~~~~~~~~ 323 (338)
..|++.++.. +|.|.+++||||||||++|||.|++ +|+++|+|++++++........+
T Consensus 87 ~~~~~~l~~~-~~~f~~~~QQDA~EFl~~LLd~L~~-----------~i~~~F~g~~~~~~~C~~C~~~s 144 (332)
T cd02671 87 RRLLNALREV-NPMYEGYLQHDAQEVLQCILGNIQE-----------LVEKDFQGQLVLRTRCLECETFT 144 (332)
T ss_pred HHHHHHHHHh-ccccCCccccCHHHHHHHHHHHHHH-----------HHHhhhceEEEEEEEeCCCCCee
Confidence 9999999987 8999999999999999999999983 58899999999988765554443
No 13
>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=99.89 E-value=1.9e-23 Score=199.53 Aligned_cols=127 Identities=25% Similarity=0.322 Sum_probs=100.5
Q ss_pred ccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhc------c--CCCCCC--------ChhHHHHHHHHHHHHHhCC
Q psy9878 181 IVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYAR------V--KRPPGD--------SSFLLVQRFGELMRKLWNP 244 (338)
Q Consensus 181 ~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~------~--~~~~~~--------~~~~l~~~l~~l~~~l~~~ 244 (338)
++||.|+||||||||+||+|+++|+||++++....... . .+..+. ...+++.+|+.||..|+.+
T Consensus 1 PvGL~NlGNTCYmNSlLQ~L~~i~~lR~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~L~~LF~~l~~s 80 (343)
T cd02666 1 PAGLDNIGNTCYLNSLLQYFFTIKPLRDLVLNFDESKAELASDYPTERRIGGREVSRSELQRSNQFVYELRSLFNDLIHS 80 (343)
T ss_pred CCCcccCCceeHHHHHHHHHHccHHHHHHHHcCCccccccccccccccccCccccchhhhhhHHHHHHHHHHHHHHHHhC
Confidence 47999999999999999999999999999997542210 0 000000 1236999999999999987
Q ss_pred CCCCCccCHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCC-----------CccccccccceeEEEEE
Q psy9878 245 RNFKSHVSPHEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKK-----------KDSSIVYKTFLGSMKVK 313 (338)
Q Consensus 245 ~~~~~~isP~~l~~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~-----------~~~~ii~~iF~G~l~s~ 313 (338)
. ..+++|..++..+. | .||||+||+..||+.|+++++.... ...++|+++|+|+++++
T Consensus 81 ~--~~~v~P~~~l~~l~------~---~QQDa~Ef~~~lld~Le~~lk~~~~~~~~~~~~~~~~~~~~I~~lF~G~~~~~ 149 (343)
T cd02666 81 N--TRSVTPSKELAYLA------L---RQQDVTECIDNVLFQLEVALEPISNAFAGPDTEDDKEQSDLIKRLFSGKTKQQ 149 (343)
T ss_pred C--CCccCcHHHHHhcc------c---cccchHHHHHHHHHHHHHHhcCccccccCcccccccchhhhhhHhceeeEEEE
Confidence 6 67999999987652 2 9999999999999999999875432 34679999999999988
Q ss_pred EEeCC
Q psy9878 314 TRKIP 318 (338)
Q Consensus 314 t~~~~ 318 (338)
.....
T Consensus 150 i~c~~ 154 (343)
T cd02666 150 LVPES 154 (343)
T ss_pred EEecc
Confidence 76443
No 14
>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=99.89 E-value=3.6e-23 Score=194.09 Aligned_cols=133 Identities=19% Similarity=0.339 Sum_probs=109.6
Q ss_pred ccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHHH
Q psy9878 181 IVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQAV 260 (338)
Q Consensus 181 ~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~l 260 (338)
++||.|+|||||||||||+|+++|+||+++++..+...... ...++.++|..++..++... ...++|..|.+.+
T Consensus 1 ~~GL~N~gntCY~NsvLQ~L~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~l~~~~~~~~~~~--~~~~~p~~~~~~l 74 (304)
T cd02661 1 GAGLQNLGNTCFLNSVLQCLTHTPPLANYLLSREHSKDCCN----EGFCMMCALEAHVERALASS--GPGSAPRIFSSNL 74 (304)
T ss_pred CCCccccCchhHHHHHHHHhhCCHHHHHHHhcchhhhhccC----CcchHHHHHHHHHHHHHhCC--CCccChHHHHHHH
Confidence 37999999999999999999999999999987554332221 23579999999999988766 5789999999999
Q ss_pred HhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccC---------CCccccccccceeEEEEEEEeCCCC
Q psy9878 261 VLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTK---------KKDSSIVYKTFLGSMKVKTRKIPPV 320 (338)
Q Consensus 261 ~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~---------~~~~~ii~~iF~G~l~s~t~~~~~~ 320 (338)
... .+.|..+.||||+|||++|||.|++++.... ....++|.++|+|++++++......
T Consensus 75 ~~~-~~~f~~~~qqDa~Efl~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~i~~~F~g~~~~~~~C~~C~ 142 (304)
T cd02661 75 KQI-SKHFRIGRQEDAHEFLRYLLDAMQKACLDRFKKLKAVDPSSQETTLVQQIFGGYLRSQVKCLNCK 142 (304)
T ss_pred HHH-HHhhcCcchhhHHHHHHHHHHHHHHHHhhhcccccccCccccCCChhhhcCCcEEeeeEEeCCCC
Confidence 887 8999999999999999999999998864332 2346799999999999987654433
No 15
>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=99.89 E-value=4e-23 Score=196.69 Aligned_cols=129 Identities=23% Similarity=0.287 Sum_probs=102.9
Q ss_pred ccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhcc--CC-CC--CCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHH
Q psy9878 183 GLNNIKANDYCNVILQALCHVTPLRDYFLREINYARV--KR-PP--GDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEML 257 (338)
Q Consensus 183 GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~--~~-~~--~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~ 257 (338)
||.|+||||||||+||+|+++|+||++++........ .+ +. .....+++++|+.||..|+.+. ..+++|..|+
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 8999999999999999999999999999875432210 00 00 0123579999999999999887 6799999999
Q ss_pred HHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccC-CCccccccccceeEEEEEEEeCCC
Q psy9878 258 QAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTK-KKDSSIVYKTFLGSMKVKTRKIPP 319 (338)
Q Consensus 258 ~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~-~~~~~ii~~iF~G~l~s~t~~~~~ 319 (338)
+.+. |..++||||||||.+|||.|++++.... ....++|.++|+|++.+++.....
T Consensus 79 ~~l~------~~~~~QqDa~EFl~~lLd~L~~~l~~~~~~~~~~~i~~~F~G~~~~~~~C~~C 135 (324)
T cd02668 79 KALG------LDTGQQQDAQEFSKLFLSLLEAKLSKSKNPDLKNIVQDLFRGEYSYVTQCSKC 135 (324)
T ss_pred HHhC------CCCccccCHHHHHHHHHHHHHHHHhhccCCcccchhhhhcceEEEEEEEeCCC
Confidence 8873 5678999999999999999999986532 235689999999999987665433
No 16
>KOG1867|consensus
Probab=99.86 E-value=6.5e-22 Score=195.84 Aligned_cols=239 Identities=26% Similarity=0.350 Sum_probs=166.2
Q ss_pred ccccCC-CCCeeE-EeeeCceecccCCchhHhhhhhhcCccEEEeecCCeEEEecCCeEEecccCCccccccchhHHHHH
Q psy9878 30 CSVSLS-RINVYA-CLVCGKYFQGRGTNTFAYTHSVAESHHVFLNLHTLKFYCLPDNYEIVGTVAGPVVNRLCPYLDTIN 107 (338)
Q Consensus 30 C~~c~~-~~~lw~-CL~Cg~~~CGr~~~~Ha~~H~~~~~H~l~v~l~t~~v~Cy~Cd~~v~~~~~~~~~~~~~~~~~~i~ 107 (338)
|..|.. .....+ |+.|+.+ ++..+.|...|....+|-+.+++.++..||++|.++|++... ..+.
T Consensus 46 ~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~c~~~i~~~~~-----------~~~~ 112 (492)
T KOG1867|consen 46 CGTCGVLQIRLAVPCLICDSL--GCLSNSHKLEHSGNKKHNNTIDVNNGLLYCFACPDFIYDAEL-----------LKLA 112 (492)
T ss_pred eEEechhhhhhcccceechhc--ccccccccccccccccccccceeehhhheeccCCcEeeccch-----------hhHH
Confidence 666653 334455 7888754 446678899999999999999999999999999999985311 1111
Q ss_pred hhhccc--cccceeeeecccccchhhhccCcccCCCChhhhhhhcCCCCChHHhhhcCcccccccccCCCcccCCccccc
Q psy9878 108 RQLLDF--DFEKLCSVSLSRINVYACLVCGKYFQDSSLDDIKYVLNPTFTTDQIKQLDLSDKMSRAIDGTLYLPGIVGLN 185 (338)
Q Consensus 108 ~~~~~~--~~ek~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~p~~~~~~i~~~~~~~~~~~~~~~~~~~~g~~GL~ 185 (338)
..+..+ .+.+. +.......+ .+.-..+.. .+..++ .......+..+++||+
T Consensus 113 ~~~~~~~~~~~~~---------------------~~~~~~~~~--~~~~~~~t~--~~~~~~--~~~~~~~~~~~l~g~~ 165 (492)
T KOG1867|consen 113 DIKKYKEQPFHQL---------------------DSTLLTHLA--EATVCQQTL--LKENPK--DRLVLSTTALGLRGLR 165 (492)
T ss_pred HHHhhhccchhhc---------------------cchhhhhhh--hhhccchhc--ccCCcc--cccccceeeecccccc
Confidence 111111 00000 000000000 000000000 000000 0112345667899999
Q ss_pred cCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHHHHhhcC
Q psy9878 186 NIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQAVVLWSR 265 (338)
Q Consensus 186 NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~l~~~~~ 265 (338)
|+|+|||||++||+|.+.+..+...+...+.. .+......++.+++.++++.+|++.. +.+++|..+++.+|+. .
T Consensus 166 n~g~tcfmn~ilqsl~~~~~~~~~~l~~~h~~---~~~~~~~~~l~~~~~~~~~~~~s~~~-~~~~sp~~~l~~~~k~-~ 240 (492)
T KOG1867|consen 166 NLGSTCFMNVILQSLLHDPLSRSSFLSGIHSK---EPSSSGSSCLVCDLDRLFQALYSGHN-RTPYSPFELLNLVWKH-S 240 (492)
T ss_pred cccHHHHHHHHHHHhhccchhhccchhhhccc---CCCCCCCcchhhhhhhhhhHhhcCCC-CCCcChHHHHHHHHHh-C
Confidence 99999999999999999999999999877762 22222257899999999999999875 5799999999999998 9
Q ss_pred CCCCCCCCCCHHHHHHHHHHHHHHHhc---------ccCCCccccccccceeEEEEE
Q psy9878 266 KQFQFTEQSDPIDFLSWFLNTLHRALN---------GTKKKDSSIVYKTFLGSMKVK 313 (338)
Q Consensus 266 ~~F~~~~QqDA~Efl~~lLd~L~~e~~---------~~~~~~~~ii~~iF~G~l~s~ 313 (338)
|.|.+++|||||||+..+++.+|.+.+ ...+.+.++++.+|.|.+.+.
T Consensus 241 ~~~~g~~Qqda~eF~~~~~~~~~~~~~~~~k~~~~~~~~~~c~~iv~~~F~G~L~~~ 297 (492)
T KOG1867|consen 241 PNLAGYEQQDAHEFLIALLDRLHREKDDCGKSLIASQSNKQCPCIVHTIFSGTLQSD 297 (492)
T ss_pred cccccccccchHHHHHHhcccccccccccccccccccCCcccccccceeecceeccc
Confidence 999999999999999999999998871 112345899999999999964
No 17
>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=99.86 E-value=1.3e-21 Score=186.58 Aligned_cols=131 Identities=19% Similarity=0.166 Sum_probs=100.5
Q ss_pred CccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHH
Q psy9878 180 GIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQA 259 (338)
Q Consensus 180 g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~ 259 (338)
|++||.|+||||||||+||+|+++|+||++++...... ......++.++|+.+|..|..+. ...+.|..+. .
T Consensus 1 g~~GL~N~GntCY~NsvLQ~L~~~~~f~~~~l~~~~~~-----~~~~~~~~~~~l~~lf~~~~~~~--~~~~~~~~~~-~ 72 (334)
T cd02659 1 GYVGLKNQGATCYMNSLLQQLYMTPEFRNAVYSIPPTE-----DDDDNKSVPLALQRLFLFLQLSE--SPVKTTELTD-K 72 (334)
T ss_pred CCCCcccCCcchHHHHHHHHHhcCHHHHHHHHcCCCcc-----cCcccccHHHHHHHHHHHHHhCC--ccccCcchhh-e
Confidence 78999999999999999999999999999999752111 01123568999999999999765 3445554443 2
Q ss_pred HHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEEEEEEeCCCC
Q psy9878 260 VVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPPV 320 (338)
Q Consensus 260 l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~s~t~~~~~~ 320 (338)
+.....+.|..++||||+|||.+|||.|++++... ...++|.++|+|+++.++......
T Consensus 73 ~~~~~~~~~~~~~QqDa~Efl~~ll~~l~~~~~~~--~~~~~i~~lF~g~~~~~~~C~~C~ 131 (334)
T cd02659 73 TRSFGWDSLNTFEQHDVQEFFRVLFDKLEEKLKGT--GQEGLIKNLFGGKLVNYIICKECP 131 (334)
T ss_pred eccCCCCCCCcccchhHHHHHHHHHHHHHHHhccC--cccchhhhhCceEEEeEEEecCCC
Confidence 22222467889999999999999999999988643 344689999999999877665543
No 18
>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=99.85 E-value=2e-21 Score=185.34 Aligned_cols=116 Identities=24% Similarity=0.315 Sum_probs=93.8
Q ss_pred ccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHH-HHHHHH
Q psy9878 183 GLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHE-MLQAVV 261 (338)
Q Consensus 183 GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~-l~~~l~ 261 (338)
||.|+||||||||+||+|+++|+||++++....... .....+..+|+.++..|.... ..++.|.. ++..++
T Consensus 1 GL~NlGnTCY~NS~LQ~L~~~~~fr~~ll~~~~~~~------~~~~~~~~~L~~lf~~l~~~~--~~~~~~~~~~l~~~~ 72 (327)
T cd02664 1 GLINLGNTCYMNSVLQALFMAKDFRRQVLSLNLPRL------GDSQSVMKKLQLLQAHLMHTQ--RRAEAPPDYFLEASR 72 (327)
T ss_pred CCcCCcccHHHHHHHHHHHCcHHHHHHHHcCCcccc------CCcchHHHHHHHHHHHHhhcC--CcccCCHHHHHHHhc
Confidence 899999999999999999999999999998654211 123457889999988887654 45677766 766542
Q ss_pred hhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEEEEEEeCCCC
Q psy9878 262 LWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPPV 320 (338)
Q Consensus 262 ~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~s~t~~~~~~ 320 (338)
.+.|..++||||||||++|||.|+ ++|.++|+|++.++++.....
T Consensus 73 ---~~~f~~~~QqDa~EFl~~lLd~l~-----------~~i~~~F~G~~~~~i~C~~C~ 117 (327)
T cd02664 73 ---PPWFTPGSQQDCSEYLRYLLDRLH-----------TLIEKMFGGKLSTTIRCLNCN 117 (327)
T ss_pred ---ccccCCCCcCCHHHHHHHHHHHHH-----------HHHHhhCcEEeEeEEEcCCCC
Confidence 578999999999999999999998 468999999999987765543
No 19
>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=99.84 E-value=6.2e-21 Score=173.94 Aligned_cols=137 Identities=28% Similarity=0.478 Sum_probs=108.8
Q ss_pred ccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhc-cCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHH
Q psy9878 181 IVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYAR-VKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQA 259 (338)
Q Consensus 181 ~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~-~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~ 259 (338)
++||.|.||||||||+||+|+++|+|+++++....... ..........++.++|..++..|+.+......+.|..|+..
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 47999999999999999999999999999997521110 01111122357999999999999998333689999999999
Q ss_pred HHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCC---------CccccccccceeEEEEEEEeCC
Q psy9878 260 VVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKK---------KDSSIVYKTFLGSMKVKTRKIP 318 (338)
Q Consensus 260 l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~---------~~~~ii~~iF~G~l~s~t~~~~ 318 (338)
++.. .+.|..+.||||+|||..||+.|++++..... ...+++.++|+|++........
T Consensus 81 l~~~-~~~~~~~~qqDa~E~l~~ll~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~c~~ 147 (269)
T PF00443_consen 81 LSSI-NPSFSNGEQQDAHEFLSFLLDWLDEEFNSSFKRKSWKNTNSSEDSLISDLFGGQFESSIKCSS 147 (269)
T ss_dssp HHHH-CGGGGSSSTEEHHHHHHHHHHHHHHHHTSCSSHHHHHHHHCCEESHHHHHH-EEEEEEEEETT
T ss_pred cccc-ccccccccccchhhhhcccccccchhhcccccccccccccccccccccccccccccccccccc
Confidence 9987 77899999999999999999999998876432 5678999999999988765443
No 20
>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=99.84 E-value=2.9e-21 Score=180.19 Aligned_cols=86 Identities=23% Similarity=0.395 Sum_probs=78.0
Q ss_pred ccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHHHHh
Q psy9878 183 GLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQAVVL 262 (338)
Q Consensus 183 GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~l~~ 262 (338)
||.|+|||||||||||+|+|+|+||++++. +|..|+..++.
T Consensus 1 Gl~N~GntCy~NsvLQ~L~~~~~~~~~~l~---------------------------------------~P~~~~~~l~~ 41 (279)
T cd02667 1 GLSNLGNTCFFNAVMQNLSQTPALRELLSE---------------------------------------TPKELFSQVCR 41 (279)
T ss_pred CCcCCCCchHHHHHHHHHhcCHHHHHHHHH---------------------------------------CHHHHHHHHHH
Confidence 899999999999999999999999999884 78889999988
Q ss_pred hcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEEEEEEeCCC
Q psy9878 263 WSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPP 319 (338)
Q Consensus 263 ~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~s~t~~~~~ 319 (338)
. .+.|.+++||||||||++|||.|+ ++|+++|+|++.++.+....
T Consensus 42 ~-~~~f~~~~QqDA~Efl~~lld~l~-----------~~i~~~F~G~~~~~i~C~~C 86 (279)
T cd02667 42 K-APQFKGYQQQDSHELLRYLLDGLR-----------TFIDSIFGGELTSTIMCESC 86 (279)
T ss_pred h-hHhhcCCchhhHHHHHHHHHHHHH-----------HhhhhhcceEEEEEEEcCCC
Confidence 7 899999999999999999999998 46899999999987665443
No 21
>COG5533 UBP5 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.82 E-value=1.1e-20 Score=171.46 Aligned_cols=131 Identities=27% Similarity=0.372 Sum_probs=100.7
Q ss_pred CccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccC--CCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHH
Q psy9878 180 GIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVK--RPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEML 257 (338)
Q Consensus 180 g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~--~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~ 257 (338)
.++||.|+|||||||++||||+.+..+...|+...+..+++ .+.|....-....|..+...+.... ...|+|..|+
T Consensus 70 ~p~GL~N~GNtCymNc~lQCl~~~~dL~~M~~~~~ylq~INtd~prg~~g~~~~k~F~~l~~~~~~Hg--~~sis~~nF~ 147 (415)
T COG5533 70 PPNGLRNKGNTCYMNCALQCLLSIGDLNTMLQGRFYLQNINTDFPRGKPGSNAFKQFIALYETPGCHG--PKSISPRNFI 147 (415)
T ss_pred CCccccccCceehHHHHHHHHHhhhHHHHHhhhhhhhhhccCCCCCCCcchhHHHHHHHHHhccccCC--CcccchHHHH
Confidence 45799999999999999999999999988555544443332 3333332244555655555555444 3469999999
Q ss_pred HHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccC---------------------------------CCccccccc
Q psy9878 258 QAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTK---------------------------------KKDSSIVYK 304 (338)
Q Consensus 258 ~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~---------------------------------~~~~~ii~~ 304 (338)
+.+... ++.|++.+|||||||++++||.||+++++-. ..++++|.+
T Consensus 148 ~i~~~~-n~~fs~dmQqD~qEFl~fflD~LHedln~N~Srs~i~~l~de~e~~Reel~l~~~S~~EWn~~L~sn~S~v~~ 226 (415)
T COG5533 148 DILSGR-NKLFSGDMQQDSQEFLIFFLDLLHEDLNGNKSRSPILELKDEFEEVREELPLSHFSHHEWNLHLRSNKSLVAK 226 (415)
T ss_pred HHHccc-cccccccchhhHHHHHHHHHHHHHhhhcCCcccccccccchHHHHHHhhcCcchhhhhhhHHhhccchHHHHH
Confidence 999887 9999999999999999999999999986532 146699999
Q ss_pred cceeEEEEE
Q psy9878 305 TFLGSMKVK 313 (338)
Q Consensus 305 iF~G~l~s~ 313 (338)
+|.|++.++
T Consensus 227 ~f~gq~~sr 235 (415)
T COG5533 227 TFFGQDKSR 235 (415)
T ss_pred HHhhhhhhh
Confidence 999999873
No 22
>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=99.80 E-value=3.2e-20 Score=134.19 Aligned_cols=60 Identities=30% Similarity=0.459 Sum_probs=53.5
Q ss_pred ccccCCC-CCeeEEeeeCceecccCCchhHhhhhhhcCccEEEeecCCeEEEecCCeEEec
Q psy9878 30 CSVSLSR-INVYACLVCGKYFQGRGTNTFAYTHSVAESHHVFLNLHTLKFYCLPDNYEIVG 89 (338)
Q Consensus 30 C~~c~~~-~~lw~CL~Cg~~~CGr~~~~Ha~~H~~~~~H~l~v~l~t~~v~Cy~Cd~~v~~ 89 (338)
|++|... .++|+||+||+++||++.++||+.|+++++|+|+|++.++.||||+|+++|++
T Consensus 1 C~~C~~~~~~lw~CL~Cg~~~C~~~~~~Ha~~H~~~~~H~l~v~~~~~~i~C~~C~~~v~~ 61 (63)
T PF02148_consen 1 CSVCGSTNSNLWLCLTCGYVGCGRYSNGHALKHYKETGHPLAVSLSTGSIWCYACDDYVYD 61 (63)
T ss_dssp -SSSHTCSSSEEEETTTS-EEETTTSTSHHHHHHHHHT--EEEETTTTCEEETTTTEEEES
T ss_pred CCCCCCcCCceEEeCCCCcccccCCcCcHHHHhhcccCCeEEEECCCCeEEEcCCCcEEeC
Confidence 7788877 89999999999999999999999999999999999999999999999999985
No 23
>KOG1868|consensus
Probab=99.67 E-value=1.4e-16 Score=161.21 Aligned_cols=116 Identities=27% Similarity=0.349 Sum_probs=98.8
Q ss_pred ccCCccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHH
Q psy9878 177 YLPGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEM 256 (338)
Q Consensus 177 ~~~g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l 256 (338)
-..|.+||.|+|||||||++||||+.++.||+.+++..+...++.........+..++.+++.++|.... ...+.|..|
T Consensus 297 ~~~~~~GL~NlGntC~mn~ilQCl~~t~~lr~~~L~~~~~~~i~~~~~~~~~~l~~~~~~~l~~~~~~~~-~~s~~P~~f 375 (653)
T KOG1868|consen 297 DVFGCPGLRNLGNTCFMNSILQCLFSTGELRDNFLSIKLPQFINLDLFFGAEELESACAKLLQKLWHGHG-QFSVLPRRF 375 (653)
T ss_pred cccCCceeccCCcchHHHHHHHHHhhccccchhhhhHHHHHHcccCCcccchhHHHHHHHhhhhhccCCC-ceecCcHHH
Confidence 3568899999999999999999999999999999988776665522223345688888899999988754 457999999
Q ss_pred HHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhccc
Q psy9878 257 LQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGT 294 (338)
Q Consensus 257 ~~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~ 294 (338)
+..+.+. .+.|+++.|||||||+.++++.||++++..
T Consensus 376 ~~~~~~y-~~~~~~~~Qqd~qEfl~~lld~Lhe~ln~~ 412 (653)
T KOG1868|consen 376 IRVLKRY-SPNFSGYSQQDAQEFLIFLLDRLHEELNEN 412 (653)
T ss_pred HHHHhhc-ccccccccccchHHHHHHHHHhhhHhhhcc
Confidence 9999998 899999999999999999999999998653
No 24
>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=99.67 E-value=1.1e-16 Score=146.19 Aligned_cols=71 Identities=27% Similarity=0.384 Sum_probs=61.6
Q ss_pred ccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHHHHh
Q psy9878 183 GLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQAVVL 262 (338)
Q Consensus 183 GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~l~~ 262 (338)
||+|+||||||||+||+|+++|+||+++.+..
T Consensus 1 Gl~N~g~tCy~ns~lQ~L~~~~~f~~~~~~~~------------------------------------------------ 32 (240)
T cd02662 1 GLVNLGNTCFMNSVLQALASLPSLIEYLEEFL------------------------------------------------ 32 (240)
T ss_pred CCcCCCCccHHHHHHHHHHCCHHHHHHHHHHH------------------------------------------------
Confidence 89999999999999999999999999987411
Q ss_pred hcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEEEEEEeCCCCC
Q psy9878 263 WSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPPVE 321 (338)
Q Consensus 263 ~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~s~t~~~~~~~ 321 (338)
+||||||||++||+.|+. .+.++|.|++.++........
T Consensus 33 ---------~QqDa~EFl~~ll~~l~~-----------~i~~~F~g~~~~~i~C~~C~~ 71 (240)
T cd02662 33 ---------EQQDAHELFQVLLETLEQ-----------LLKFPFDGLLASRIVCLQCGE 71 (240)
T ss_pred ---------hhcCHHHHHHHHHHHHHH-----------hccCccccEEEEEEEeCCCCC
Confidence 999999999999999992 478899999998776554443
No 25
>KOG1863|consensus
Probab=99.58 E-value=2.1e-15 Score=162.88 Aligned_cols=132 Identities=24% Similarity=0.275 Sum_probs=108.2
Q ss_pred cCCc-cccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHH
Q psy9878 178 LPGI-VGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEM 256 (338)
Q Consensus 178 ~~g~-~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l 256 (338)
..|+ +||.|+||||||||+||+|+.++.||+.+........ ..+....+..+|+.||..|..++ ..++.|.++
T Consensus 166 ~tg~~vGL~N~GaTCY~NsllQ~lf~~~~FR~~Vy~~~~~~~----~~~~~~~v~~~lq~lF~~LQ~s~--~k~Vdt~~~ 239 (1093)
T KOG1863|consen 166 LTGFPVGLKNLGATCYVNSLLQVLFLIPEFRRAVYSIPPFTG----HEDPRRSIPLALQRLFYELQMSK--RKYVDTSEL 239 (1093)
T ss_pred cCCCCccccCCCceeeehHHHHHHHccHHHHHHHhcCCCCCC----cccccchHHHHHHHHHHHHhhcC--CCCcCchhh
Confidence 4566 9999999999999999999999999999998663211 11223458889999999999987 679999999
Q ss_pred HHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEEEEEEeCCCC
Q psy9878 257 LQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPPV 320 (338)
Q Consensus 257 ~~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~s~t~~~~~~ 320 (338)
...+...+ ....+|||+|||++.|+|.|++.+.+.. ....|.++|.|.+.+....+...
T Consensus 240 ~~~~~~~~---~~~~~QqDvqEf~~~l~d~LE~~~~~~~--~~~~l~~lf~g~~~~~i~c~~~~ 298 (1093)
T KOG1863|consen 240 TKSLGWDS---NDSFEQQDVQEFLTKLLDWLEDSMIDAK--VENTLQDLFTGKMKSVIKCIDVD 298 (1093)
T ss_pred hhhhhccc---ccHHhhhhHHHHHHHHHHHHHhhccchh--hhhhhhhhhcCCcceEEEEEeee
Confidence 99997762 4566999999999999999999887654 46789999999988765555543
No 26
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.55 E-value=5.2e-15 Score=147.59 Aligned_cols=136 Identities=20% Similarity=0.183 Sum_probs=110.4
Q ss_pred cccCCccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHH
Q psy9878 176 LYLPGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHE 255 (338)
Q Consensus 176 ~~~~g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~ 255 (338)
+...|++||+|.|.||||||+||+|+.+..||+.+...... .+. ....++-+|+++|..|..++ .+++..+
T Consensus 188 KkeTGYVGlrNqGATCYmNSLlQslffi~~FRk~Vy~ipTd----~p~--grdSValaLQr~Fynlq~~~---~PvdTte 258 (1089)
T COG5077 188 KKETGYVGLRNQGATCYMNSLLQSLFFIAKFRKDVYGIPTD----HPR--GRDSVALALQRLFYNLQTGE---EPVDTTE 258 (1089)
T ss_pred ccceeeeeeccCCceeeHHHHHHHHHHHHHHHHHhhcCCCC----CCC--ccchHHHHHHHHHHHHhccC---CCcchHH
Confidence 34579999999999999999999999999999988865422 111 23568889999999999875 7999999
Q ss_pred HHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEEEEEEeCCCCCccHH
Q psy9878 256 MLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKIPPVELEEK 325 (338)
Q Consensus 256 l~~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~s~t~~~~~~~~~~~ 325 (338)
|...++.. .+...+|||.|||=+-|.|.|++.+.++. -...+..+|-|+++|.-..++....+.+
T Consensus 259 ltrsfgWd---s~dsf~QHDiqEfnrVl~DnLEksmrgt~--VEnaln~ifVgkmksyikCvnvnyEsar 323 (1089)
T COG5077 259 LTRSFGWD---SDDSFMQHDIQEFNRVLQDNLEKSMRGTV--VENALNGIFVGKMKSYIKCVNVNYESAR 323 (1089)
T ss_pred hhhhcCcc---cchHHHHHhHHHHHHHHHHHHHHhhcCCh--hhhHHhHHHHHHhhceeeEEEechhhhh
Confidence 99998654 45566999999999999999999876653 2345789999999998888877655544
No 27
>KOG1870|consensus
Probab=99.52 E-value=1.5e-14 Score=152.73 Aligned_cols=134 Identities=26% Similarity=0.465 Sum_probs=113.9
Q ss_pred cccCCccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhcc--CCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCH
Q psy9878 176 LYLPGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARV--KRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSP 253 (338)
Q Consensus 176 ~~~~g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~--~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP 253 (338)
...+|.+||.|+|||||||+.+|+|.+.+.+++|++...+...+ .++. ...+.+..++..++..+|++. ...+.|
T Consensus 241 ~~~~g~~Gl~nlGntcfmns~~q~l~~~~~l~e~f~~~~~~~ein~~n~~-~~~~~~~~~~~~l~~~~~s~~--~~~v~~ 317 (842)
T KOG1870|consen 241 PSERGETGLSNLGNTCFMNSALQCLSNTPELLEYFLSDLYDREINESNPL-GSAGEVASSFADLIKQLWSGN--KSAVAP 317 (842)
T ss_pred CCcccccccccCCccccchhhhhhhccCcchhHHHHhHhhHhhhcccCCC-cccceechhhhhHHHHhccCC--ccccCc
Confidence 34579999999999999999999999999999999987665522 2332 245678889999999999987 458999
Q ss_pred HHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCC---------------------------Cccccccccc
Q psy9878 254 HEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKK---------------------------KDSSIVYKTF 306 (338)
Q Consensus 254 ~~l~~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~---------------------------~~~~ii~~iF 306 (338)
..+...+... .++|.|+.|||.+||+-+|+|.+|+.+....+ ++.++|.++|
T Consensus 318 ~~~~~~~~~~-a~~~~g~~q~d~~E~lafllDglhedl~~~~~kpy~~~~d~~~rp~~~~~~~~~~~~~~~~~s~i~d~~ 396 (842)
T KOG1870|consen 318 TSFRTSLASF-ASEFSGYGQQDSQELLAFLLDGLHEDLNRVSSKPYVEGKDSDLRPDQEVAAEVWDYHLKRNRSVIVDLF 396 (842)
T ss_pred hhhhhhhhhc-cccccCcccccchhhhhHHhhhhhHHhhccCCcCcccccccccchhhhhhHHHHHhhhhhccceeeeee
Confidence 9999999987 89999999999999999999999998865431 4668999999
Q ss_pred eeEEEEE
Q psy9878 307 LGSMKVK 313 (338)
Q Consensus 307 ~G~l~s~ 313 (338)
.|.++|.
T Consensus 397 ~~~~~S~ 403 (842)
T KOG1870|consen 397 DGTYKST 403 (842)
T ss_pred cceeccc
Confidence 9999984
No 28
>KOG0804|consensus
Probab=99.37 E-value=2.7e-13 Score=128.71 Aligned_cols=62 Identities=23% Similarity=0.357 Sum_probs=59.4
Q ss_pred cccccccCCCCCeeEEeeeCceecccCCchhHhhhhhhcCccEEEeecCCeEEEecCCeEEe
Q psy9878 27 EKLCSVSLSRINVYACLVCGKYFQGRGTNTFAYTHSVAESHHVFLNLHTLKFYCLPDNYEIV 88 (338)
Q Consensus 27 ~k~C~~c~~~~~lw~CL~Cg~~~CGr~~~~Ha~~H~~~~~H~l~v~l~t~~v~Cy~Cd~~v~ 88 (338)
++.|..|....+||+||.||+++||||..+||..||++++|+.++++.|..||=|+-|.||.
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 55699999999999999999999999999999999999999999999999999999999985
No 29
>KOG1871|consensus
Probab=99.34 E-value=1.3e-12 Score=122.54 Aligned_cols=139 Identities=19% Similarity=0.125 Sum_probs=97.0
Q ss_pred CCccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhC---------------
Q psy9878 179 PGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWN--------------- 243 (338)
Q Consensus 179 ~g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~--------------- 243 (338)
.-++|+.|-||.|||||+||+|..+++|.+.+-...-...... ....+++.++..+...+-+
T Consensus 26 i~Prg~ink~n~c~~ns~Lqal~~c~pfy~l~~~i~~~~~~~~---~~stp~lda~~~~~~df~n~~~~k~~r~N~~~~~ 102 (420)
T KOG1871|consen 26 IDPRGSINKCNICFMNSILQALLYCSPFYNLLELIKRADGTVK---EGSTPLLDASRPASSDFNNDSDAKLPRKNSLRVP 102 (420)
T ss_pred cCCccccccceeEeeHHHHHHHHhCccHHHHHHhhhhhcCcee---cccchhHHHHHHHHhhccccchhhhhhhccCCcc
Confidence 3457999999999999999999999999998765442111111 1235566666666555542
Q ss_pred -----------CCCCCCccCHHHHHHHHHhhcCCCC---CCCCCCCHHHHHHHHHHHHHHHhcccCC-------------
Q psy9878 244 -----------PRNFKSHVSPHEMLQAVVLWSRKQF---QFTEQSDPIDFLSWFLNTLHRALNGTKK------------- 296 (338)
Q Consensus 244 -----------~~~~~~~isP~~l~~~l~~~~~~~F---~~~~QqDA~Efl~~lLd~L~~e~~~~~~------------- 296 (338)
......++-|..+...++. .+.| ..++|.||.|||.++||.||+|+....+
T Consensus 103 ~~~~~~ses~~~d~~~dav~~d~~~~~l~t--~~~~e~~~~g~qedAeefl~~~ld~lhee~~~v~~~~~~~n~e~t~~~ 180 (420)
T KOG1871|consen 103 EHVVEKSESNKSDLQGDAVKPDPIYLDLLT--MSRFESLQVGKQEDAEEFLLDNLDFLHEESSEVPTELVPPNDEFTPRG 180 (420)
T ss_pred ccccchhhhhhhcccCccccCCchhhhccc--CCchhhccccccccHHHHHHHHHhhhhHHHHhhhhhhcCCcccccccc
Confidence 0111345666667666655 4566 3689999999999999999999754320
Q ss_pred ----------------------------------------CccccccccceeEEEEEEEeCCCCCc
Q psy9878 297 ----------------------------------------KDSSIVYKTFLGSMKVKTRKIPPVEL 322 (338)
Q Consensus 297 ----------------------------------------~~~~ii~~iF~G~l~s~t~~~~~~~~ 322 (338)
...+.|+++|+|++++.......++.
T Consensus 181 ~i~~~n~~n~~s~~e~~~~~~~~~~~~gk~~k~~i~r~~~~~~spiS~ifgg~~rs~l~~~~nkeS 246 (420)
T KOG1871|consen 181 LINNGNLCNLDSTEEAGLSESSGVQLLGKIQKTDIPRADSFVRSPISEIFGGQLRSVLYQPSNKES 246 (420)
T ss_pred cccccccccccchhhcccccCchhhhcCCcccCccCCCCCcccCcHHHhhccccccceeccccccc
Confidence 24589999999999997666555443
No 30
>smart00290 ZnF_UBP Ubiquitin Carboxyl-terminal Hydrolase-like zinc finger.
Probab=99.31 E-value=1.4e-12 Score=89.71 Aligned_cols=48 Identities=31% Similarity=0.464 Sum_probs=45.6
Q ss_pred ccccCCCCCeeEEeeeCceecccCCchhHhhhhhhcCccEEEeecCCe
Q psy9878 30 CSVSLSRINVYACLVCGKYFQGRGTNTFAYTHSVAESHHVFLNLHTLK 77 (338)
Q Consensus 30 C~~c~~~~~lw~CL~Cg~~~CGr~~~~Ha~~H~~~~~H~l~v~l~t~~ 77 (338)
|..|.+..++|+||+||+++||++..+|+..|+++++|++++++.++.
T Consensus 2 C~~C~~~~~l~~CL~C~~~~c~~~~~~h~~~H~~~t~H~~~~~~~~~~ 49 (50)
T smart00290 2 CSVCGTIENLWLCLTCGQVGCGRYQLGHALEHFEETGHPLVVKLGTQR 49 (50)
T ss_pred cccCCCcCCeEEecCCCCcccCCCCCcHHHHHhhhhCCCEEEEccccc
Confidence 899999889999999999999999999999999999999999998864
No 31
>KOG1866|consensus
Probab=99.31 E-value=1.9e-12 Score=129.36 Aligned_cols=153 Identities=25% Similarity=0.390 Sum_probs=117.3
Q ss_pred cCCccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHH
Q psy9878 178 LPGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEML 257 (338)
Q Consensus 178 ~~g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~ 257 (338)
..|++||+|-|+|||||+++|-|.++|.+|.-++...+.+....-.++ .-+.++++.+|..+..+. -..+-|..|-
T Consensus 92 p~gfVGLKNagatcyMNav~QQlymIP~Lrh~ll~~~~~td~pd~s~~--e~vl~~lQ~iF~hL~~s~--lQyyVPeg~W 167 (944)
T KOG1866|consen 92 PEGFVGLKNAGATCYMNAVIQQLYMIPGLRHLLLAFVGTTDLPDMSGD--EKVLRHLQVIFGHLAASQ--LQYYVPEGFW 167 (944)
T ss_pred CcceeeecCCCchHHHhhhhhhhhhcccccchhhhhcccccchhhcch--HHHHHHHHHHHHHHHHHh--hhhhcchhHH
Confidence 468999999999999999999999999999988876655322222222 228899999999998776 5789999999
Q ss_pred HHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEEEE-------------------EEeCC
Q psy9878 258 QAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVK-------------------TRKIP 318 (338)
Q Consensus 258 ~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~s~-------------------t~~~~ 318 (338)
+.++.+ +......+||||-|||..|||++.+.++... ...++...|+|.+.-+ +-.+.
T Consensus 168 k~Fr~~-~~pln~reqhDA~eFf~sLld~~De~LKklg--~p~lf~n~f~G~ysdqKIC~~CpHRY~~eE~F~~l~l~i~ 244 (944)
T KOG1866|consen 168 KQFRLW-GEPLNLREQHDALEFFNSLLDSLDEALKKLG--HPQLFSNTFGGSYSDQKICQGCPHRYECEESFTTLNLDIR 244 (944)
T ss_pred HHhhcc-CCccchHhhhhHHHHHHHHHHHHHHHHHHhC--CcHHHHHHhcCccchhhhhccCCcccCccccceeeeeecc
Confidence 999888 6777789999999999999999999886542 3457788888887631 22223
Q ss_pred CCC----ccHHHHHhHhhccCCC
Q psy9878 319 PVE----LEEKVRQRLLLTDNSY 337 (338)
Q Consensus 319 ~~~----~~~~~~~~~~~~~~~~ 337 (338)
... +++=++.+.+.|.|-|
T Consensus 245 ~~nLeesLeqfv~gevlEG~nAY 267 (944)
T KOG1866|consen 245 HQNLEESLEQFVKGEVLEGANAY 267 (944)
T ss_pred cchHHHHHHHHHHHHHhcCcchh
Confidence 332 2334577778888877
No 32
>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=99.28 E-value=2.7e-12 Score=117.54 Aligned_cols=82 Identities=20% Similarity=0.171 Sum_probs=62.0
Q ss_pred cccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHHHHhh
Q psy9878 184 LNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQAVVLW 263 (338)
Q Consensus 184 L~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~l~~~ 263 (338)
|.|.||.||+|+.+|+|+.+ ++.
T Consensus 2 ~~~~~~~~~~~~~~~~~~~i---------------------------------------------------------~~~ 24 (245)
T cd02673 2 LVNTGNSCYFNSTMQALSSI---------------------------------------------------------GKI 24 (245)
T ss_pred ceecCCeeeehhHHHHHHHH---------------------------------------------------------hhh
Confidence 78999999999999998552 122
Q ss_pred cCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCC--------CccccccccceeEEEEEEEeCCCCCcc
Q psy9878 264 SRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKK--------KDSSIVYKTFLGSMKVKTRKIPPVELE 323 (338)
Q Consensus 264 ~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~--------~~~~ii~~iF~G~l~s~t~~~~~~~~~ 323 (338)
+|.|++++||||||||++|||.|++++..... .......++|+|+++++.........+
T Consensus 25 -~~~F~~~~QQDAhEFL~~LLd~l~~~~~~~~~~~~~~~~~~~~~~~~~~F~~~l~s~i~C~~C~~~s 91 (245)
T cd02673 25 -NTEFDNDDQQDAHEFLLTLLEAIDDIMQVNRTNVPPSNIEIKRLNPLEAFKYTIESSYVCIGCSFEE 91 (245)
T ss_pred -hhhcCCCchhhHHHHHHHHHHHHHHHHHhhcccCCCCcccccccCHhHheeeEEEeEEEecCCCCee
Confidence 78999999999999999999999997744311 111223578999999987765554444
No 33
>PF13423 UCH_1: Ubiquitin carboxyl-terminal hydrolase
Probab=99.28 E-value=7.7e-12 Score=117.62 Aligned_cols=130 Identities=24% Similarity=0.313 Sum_probs=105.5
Q ss_pred cccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHh-CCCCCCCccCHHHHHHHH
Q psy9878 182 VGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLW-NPRNFKSHVSPHEMLQAV 260 (338)
Q Consensus 182 ~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~-~~~~~~~~isP~~l~~~l 260 (338)
.||.|-+++||+||+||+|+.+|++|+.++... . + ....||.|+|.-||..|- .+. .....+..|+..+
T Consensus 1 ~GlEn~~~nsY~NslLQ~l~f~~~~r~~~l~h~-~--c-----~~e~cL~cELgfLf~ml~~~~~--g~~cq~sNflr~l 70 (295)
T PF13423_consen 1 SGLENHIPNSYCNSLLQVLYFIPPLRNFLLSHL-E--C-----PKEFCLLCELGFLFDMLDSKAK--GINCQASNFLRAL 70 (295)
T ss_pred CCCcCCCCcchHHHHHHHHHhCHHHHHHHHhCc-C--C-----CccccHHHHHHHHHHHhhhhcC--CCcChHHHHHHHH
Confidence 499999999999999999999999999999755 1 1 135799999999999998 655 5678899999999
Q ss_pred HhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCC-----------CccccccccceeEEEEEEEeCCCCCc
Q psy9878 261 VLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKK-----------KDSSIVYKTFLGSMKVKTRKIPPVEL 322 (338)
Q Consensus 261 ~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~-----------~~~~ii~~iF~G~l~s~t~~~~~~~~ 322 (338)
... .....-+.|+|.++|+++|+++|+.++..... ...+.|.++|+......++.......
T Consensus 71 ~~~-~~a~~l~~~~~iq~~~~Fll~~l~~~~~~~~~~~~~~~~~~~~~~~~~i~~~f~~~~~~~~~c~~c~~~ 142 (295)
T PF13423_consen 71 SWI-PEAAALGLQQDIQSLNRFLLEQLSMELLTFKPDIFHTSENSSSSPESSISQLFGTSFETTIRCTSCGHE 142 (295)
T ss_pred hcC-HHHHhcchhHHHHHHHHHHHHHHhHHHHhcCcccccccccccCCCcchHHHHhCcceeeeecccccCCe
Confidence 765 33455667999999999999999998865543 24678999999888887777444433
No 34
>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=99.27 E-value=2.1e-12 Score=116.47 Aligned_cols=55 Identities=38% Similarity=0.633 Sum_probs=50.0
Q ss_pred ccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHHHHh
Q psy9878 183 GLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQAVVL 262 (338)
Q Consensus 183 GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~l~~ 262 (338)
||.|.|||||+||+||+|.+
T Consensus 1 gl~n~~~~cy~n~~~Q~l~~------------------------------------------------------------ 20 (230)
T cd02674 1 GLRNLGNTCYMNSILQCLSA------------------------------------------------------------ 20 (230)
T ss_pred CccccCcchhhhHHHHHHHH------------------------------------------------------------
Confidence 89999999999999999988
Q ss_pred hcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEEEEEEeC
Q psy9878 263 WSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMKVKTRKI 317 (338)
Q Consensus 263 ~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~s~t~~~ 317 (338)
+||||+||+++||+.|+ ++|.++|+|++.++.+..
T Consensus 21 ---------~QqDa~Ef~~~ll~~l~-----------~~i~~~F~~~~~~~~~C~ 55 (230)
T cd02674 21 ---------DQQDAQEFLLFLLDGLH-----------SIIVDLFQGQLKSRLTCL 55 (230)
T ss_pred ---------hhhhHHHHHHHHHHHHh-----------hhHHheeCCEEeCcEEcC
Confidence 89999999999999998 368899999999876553
No 35
>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=99.24 E-value=9.1e-12 Score=112.53 Aligned_cols=45 Identities=20% Similarity=0.316 Sum_probs=37.9
Q ss_pred CCCCHHHHHHHHHHHHHHHhcccC------CCccccccccceeEEEEEEEe
Q psy9878 272 EQSDPIDFLSWFLNTLHRALNGTK------KKDSSIVYKTFLGSMKVKTRK 316 (338)
Q Consensus 272 ~QqDA~Efl~~lLd~L~~e~~~~~------~~~~~ii~~iF~G~l~s~t~~ 316 (338)
.|||||||++.|||.|++++.... ....++|.++|+|++.+++..
T Consensus 21 ~QQDa~Ef~~~Lld~Le~~l~~~~~~~~~~~~~~~~i~~lF~G~~~~~~~~ 71 (228)
T cd02665 21 QQQDVSEFTHLLLDWLEDAFQAAAEAISPGEKSKNPMVQLFYGTFLTEGVL 71 (228)
T ss_pred HHHHHHHHHHHHHHHHHHHhccccccccccccccchHhhceEEEEEEEEEE
Confidence 899999999999999999987543 245678999999999986654
No 36
>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=99.15 E-value=2.2e-11 Score=109.06 Aligned_cols=68 Identities=32% Similarity=0.478 Sum_probs=58.6
Q ss_pred ccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHHHHh
Q psy9878 183 GLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQAVVL 262 (338)
Q Consensus 183 GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~l~~ 262 (338)
||.|.|||||+||+||+|++
T Consensus 1 Gl~N~~n~Cy~ns~lq~l~~------------------------------------------------------------ 20 (255)
T cd02257 1 GLNNLGNTCYLNSVLQALFS------------------------------------------------------------ 20 (255)
T ss_pred CccccCcchHHhHHHHHHHH------------------------------------------------------------
Confidence 89999999999999999988
Q ss_pred hcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccC------CCccccccccceeEEEEEEEeCCC
Q psy9878 263 WSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTK------KKDSSIVYKTFLGSMKVKTRKIPP 319 (338)
Q Consensus 263 ~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~------~~~~~ii~~iF~G~l~s~t~~~~~ 319 (338)
.||||+|||..+|+.|++++.... ....+++.++|+|.+..+......
T Consensus 21 ---------~q~Da~E~l~~ll~~l~~~~~~~~~~~~~~~~~~~~i~~~F~~~~~~~~~c~~c 74 (255)
T cd02257 21 ---------EQQDAHEFLLFLLDKLHEELKKSSKRTSDSSSLKSLIHDLFGGKLESTIVCLEC 74 (255)
T ss_pred ---------HHHHHHHHHHHHHHHHHHHHHhhcccccccccCCchhhhhcccEEeeEEECCCC
Confidence 899999999999999999886522 234578999999999988765443
No 37
>KOG1872|consensus
Probab=99.02 E-value=9.4e-11 Score=112.76 Aligned_cols=138 Identities=21% Similarity=0.086 Sum_probs=101.7
Q ss_pred CCccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHH
Q psy9878 179 PGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQ 258 (338)
Q Consensus 179 ~g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~ 258 (338)
+-.+||.|+|||||||+.+|+|-..|+++..+............. .....+..+|+.+|+.|.+. .++.|..++.
T Consensus 103 ~lp~gl~nlgNtcymnrtVq~lk~v~el~~~~s~~~~~~~~~~t~-~~a~~i~~~mR~~f~~~~~~----~~v~pi~llq 177 (473)
T KOG1872|consen 103 PLPVGLPNLGNTCYMNRTVQCLKGVPELPDALSLYKRKRGRGDTW-ERRRRISIETRTCFRPLCEK----GAVAPINLLQ 177 (473)
T ss_pred cCCccccchhHHHHhhhhhhhhhcCccCcchhhccchhccCCchh-hhhhhHHHHHHHHHHhhhcc----CCcchHHHHH
Confidence 345699999999999999999999999888776543221111111 11345778899999999875 6899999999
Q ss_pred HHHhhcCCCCCC------CCCCCHHHHHHHHHHHHHHHhcccCC--CccccccccceeEEEEEEEeCCCCCcc
Q psy9878 259 AVVLWSRKQFQF------TEQSDPIDFLSWFLNTLHRALNGTKK--KDSSIVYKTFLGSMKVKTRKIPPVELE 323 (338)
Q Consensus 259 ~l~~~~~~~F~~------~~QqDA~Efl~~lLd~L~~e~~~~~~--~~~~ii~~iF~G~l~s~t~~~~~~~~~ 323 (338)
.+.++ .|+|.. +.||||-|++..++-.+++.+..... .....++..|+..+.. |.+....+..
T Consensus 178 tl~~~-~Pqfa~~~~~g~~~qqda~ec~~~~m~~l~~~~~~~~~~~~~~~~~d~~f~~~~~~-t~~~~e~e~~ 248 (473)
T KOG1872|consen 178 TLSSQ-YPQFAEWVEYGIYMQQDAAECWMEEPGMLTEALTVATEAPCLEAEAAAGFGAEFST-TMSCSEGEDE 248 (473)
T ss_pred HHHHH-hHHHHHHhhhhhHHHHHHhHhHHHhhhheeccccccccccchhHHHHHhhcccccc-ceeeccCccc
Confidence 99998 899965 99999999999999999987654332 2345566667666655 6665555443
No 38
>KOG1864|consensus
Probab=98.17 E-value=1.4e-06 Score=88.51 Aligned_cols=141 Identities=21% Similarity=0.315 Sum_probs=98.6
Q ss_pred CCccccccCCChhHHH--HHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHH
Q psy9878 179 PGIVGLNNIKANDYCN--VILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEM 256 (338)
Q Consensus 179 ~g~~GL~NlGNTCy~N--svLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l 256 (338)
...-|..|.+++|+-| +|.|.+....+++...+..... ..+ .......+...+..++............+.|..+
T Consensus 230 ~~~~~~~~~~~~~~~~~~~v~~~~~~~~~~~~~~~~~~~~--~~~-~~~~~~~~~~~l~~~~~~~~~~~~~~~~i~p~~~ 306 (587)
T KOG1864|consen 230 ERVFGTNNFSNTCCCNFQSVEEALYFCRPFREAVLLYLTS--LKR-SYIIKEELLTCLLDLFSSISSRKKLVGRISPTRF 306 (587)
T ss_pred ccccCccccCccccccchhhHHHHHhhhhhcccccchhhc--ccc-hhhhhHHHHHHhhhhccchhhhcccccccCcchh
Confidence 3456999999999999 9999999988887544432211 111 1111223333444444444333333467999999
Q ss_pred HHHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccC------------C------------------Cccccccccc
Q psy9878 257 LQAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTK------------K------------------KDSSIVYKTF 306 (338)
Q Consensus 257 ~~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~------------~------------------~~~~ii~~iF 306 (338)
+..+++. +..|..+.|||||||+.++++.+.+.+.... . ...++|+.+|
T Consensus 307 ~~~~~~~-~~~f~~~~qQda~eF~~~l~~~~~e~~~~~~~~~~~~~~~~~~~gn~~~~~~~~~~~~~~~~~~~~~v~~lf 385 (587)
T KOG1864|consen 307 ISDLIKE-NELFTNGMQQDAHEFLNFLLNEISETLERESSGTTTKVSPKESDGNSSTSAASWTNKGHHKSLRENWVSKLF 385 (587)
T ss_pred hhhhhhc-CCccCchhhccHHHHhhhhccchhhhhhhhccCCcccccccCCCCccccccccccccccccccchhHHHHhh
Confidence 9999997 9999999999999999999999998653321 0 1458899999
Q ss_pred eeEEEEEEEeCCCCCcc
Q psy9878 307 LGSMKVKTRKIPPVELE 323 (338)
Q Consensus 307 ~G~l~s~t~~~~~~~~~ 323 (338)
+|++..+|+.......+
T Consensus 386 ~g~l~~et~Clsc~t~T 402 (587)
T KOG1864|consen 386 QGILTNETRCLSCETIT 402 (587)
T ss_pred cCeeeeeeeeccccccc
Confidence 99999988776654333
No 39
>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=98.07 E-value=4.3e-06 Score=77.72 Aligned_cols=55 Identities=27% Similarity=0.452 Sum_probs=42.6
Q ss_pred CCccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHH
Q psy9878 179 PGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRK 240 (338)
Q Consensus 179 ~g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~ 240 (338)
.+++||.|.|.|||+||+||+|.++|+||++ +. +.... .....|+.++|.-||..
T Consensus 13 t~~~gl~~~~~~~y~n~~lq~~~~~~~~~~~-~~--~~~~~----~~~~~~l~~el~~lfs~ 67 (268)
T cd02672 13 TNYAGLENHITNSYCNSLLQLLYFIPPFRNF-TA--IILVA----CPKESCLLCELGYLFST 67 (268)
T ss_pred ccccccccCCccchHHHHHHHHHhcHHHHHH-HH--hhccc----CCcCccHHHHHHHHHHH
Confidence 4689999999999999999999999999998 32 11111 11347899999888843
No 40
>KOG4598|consensus
Probab=97.88 E-value=5.4e-06 Score=83.34 Aligned_cols=96 Identities=17% Similarity=0.166 Sum_probs=73.5
Q ss_pred cCCccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHH
Q psy9878 178 LPGIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEML 257 (338)
Q Consensus 178 ~~g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~ 257 (338)
+.|++||.|...|||+|+.+|+|+..|.+++.+.... +.++....|.
T Consensus 84 ~~~yvglvnqa~~~~l~~~~~a~~~~~~~~~~~yts~---------------------------------~~~~et~dlt 130 (1203)
T KOG4598|consen 84 GHRYVGLVNQASNDLLFEQSCAISLHDSGISKCYTSE---------------------------------NDSLETKDLT 130 (1203)
T ss_pred CcceEeehhhHHHHHHHHHhhhhccChhhhhhhhCCC---------------------------------cccccchhhH
Confidence 4688999999999999999999999999887766211 2345555566
Q ss_pred HHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHHHhcccCCCccccccccceeEEE
Q psy9878 258 QAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHRALNGTKKKDSSIVYKTFLGSMK 311 (338)
Q Consensus 258 ~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~e~~~~~~~~~~ii~~iF~G~l~ 311 (338)
+.++..+.. -++|||.||+-+.++|.|+-..++++ ....|.+++.|++.
T Consensus 131 ~sfgw~s~e---a~~qhdiqelcr~mfdalehk~k~t~--~~~li~~ly~g~m~ 179 (1203)
T KOG4598|consen 131 QSFGWTSNE---AYDQHDVQELCRLMFDALEHKWKGTE--HEKLIQDLYRGTME 179 (1203)
T ss_pred hhcCCCcch---hhhhhhHHHHHHHHHHHHHhhhcCch--HHHHHHHHhcchHH
Confidence 666544333 45999999999999999987776654 34578888888765
No 41
>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=97.38 E-value=6.2e-05 Score=74.87 Aligned_cols=45 Identities=76% Similarity=1.328 Sum_probs=41.3
Q ss_pred hhHHHHHhhhccccccceeeeecccccchhhhccCcccCCCChhh
Q psy9878 101 PYLDTINRQLLDFDFEKLCSVSLSRINVYACLVCGKYFQDSSLDD 145 (338)
Q Consensus 101 ~~~~~i~~~~~~~~~ek~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 145 (338)
+++|+|++.++||||||++++...+.|+|+||+||+++.+.+...
T Consensus 1 ~yl~ti~r~~ldfd~e~~C~~~~~~~n~~~CL~cg~~~~g~~~~~ 45 (440)
T cd02669 1 PYLDTINRSVLDFDFEKVCSVSLSNLNVYACLVCGKYFQGRGKGS 45 (440)
T ss_pred CchhhhhhhhccccccccccccCCCCcEEEEcccCCeecCCCCCc
Confidence 479999999999999999999999999999999999998876554
No 42
>KOG1864|consensus
Probab=96.92 E-value=0.0015 Score=66.82 Aligned_cols=109 Identities=17% Similarity=0.188 Sum_probs=58.9
Q ss_pred cccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccC-CCC------CCChhHHHHHHHHHHHHHh--CCCCCCCccCHH
Q psy9878 184 LNNIKANDYCNVILQALCHVTPLRDYFLREINYARVK-RPP------GDSSFLLVQRFGELMRKLW--NPRNFKSHVSPH 254 (338)
Q Consensus 184 L~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~-~~~------~~~~~~l~~~l~~l~~~l~--~~~~~~~~isP~ 254 (338)
|+|.||+||.|++||+|..+|+|+--+.......... .+. .....+-.+.+........ +.....-.++-.
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 9999999999999999999999987665321100000 000 0000111111111111111 111101123333
Q ss_pred HHHHHHHhhc--CCCCCCCCCCCHHHHHHHHHHHHHHHhc
Q psy9878 255 EMLQAVVLWS--RKQFQFTEQSDPIDFLSWFLNTLHRALN 292 (338)
Q Consensus 255 ~l~~~l~~~~--~~~F~~~~QqDA~Efl~~lLd~L~~e~~ 292 (338)
.+...+.... ...|.-..|+||++|+.-|+-.+..-+.
T Consensus 114 ~~~~~~~~~~~~~~~~~~~~~~~~~n~~~~l~~~~~~~~~ 153 (587)
T KOG1864|consen 114 QLVQSRLNNGKKYAEFNNNDQRDAHNFLLELMAMVDDVMG 153 (587)
T ss_pred HHHHHHhhhhhhhhhhhcccHhhhhhhhhhhhHHHhhhcc
Confidence 4444433221 3457788999999999998888877554
No 43
>KOG2026|consensus
Probab=96.58 E-value=0.00085 Score=63.80 Aligned_cols=48 Identities=63% Similarity=1.081 Sum_probs=43.2
Q ss_pred ccchhHHHHHhhhccccccceeeeecccccchhhhccCcccCCCChhh
Q psy9878 98 RLCPYLDTINRQLLDFDFEKLCSVSLSRINVYACLVCGKYFQDSSLDD 145 (338)
Q Consensus 98 ~~~~~~~~i~~~~~~~~~ek~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 145 (338)
.-.+++|++++.++|||+|+.+++++++.+++||++||+|+++.+..+
T Consensus 11 ~~~~yldtv~r~vldfd~ek~c~vslsnLnvyAclvcg~y~qgr~~kS 58 (442)
T KOG2026|consen 11 PNYAYLETVVRRVLDFDFEKPCSVSLSNLNVYACLVCGKYFQGRGEKS 58 (442)
T ss_pred cchHhhhhhhhhhccccCCCCCcccccccceeeeeeeCchhhCcCccc
Confidence 346789999999999999999999999999999999999999866544
No 44
>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=94.99 E-value=0.023 Score=51.94 Aligned_cols=20 Identities=25% Similarity=0.313 Sum_probs=15.2
Q ss_pred ccccCCC-hhHHHHHHHHHhc
Q psy9878 183 GLNNIKA-NDYCNVILQALCH 202 (338)
Q Consensus 183 GL~NlGN-TCy~NsvLQ~L~~ 202 (338)
|..|.+| +||+-|+|=+++.
T Consensus 1 g~~~~~~~~cy~d~~~~~~f~ 21 (241)
T cd02670 1 GAQNHCNVSCYLDALLFAMFA 21 (241)
T ss_pred CCccccCceeehHHHHHHHHH
Confidence 6778888 8888888766654
No 45
>KOG1275|consensus
Probab=93.56 E-value=0.18 Score=53.18 Aligned_cols=72 Identities=28% Similarity=0.445 Sum_probs=58.1
Q ss_pred CccccccCCChhHHHHHHHHHhcChHHHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHHHH
Q psy9878 180 GIVGLNNIKANDYCNVILQALCHVTPLRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEMLQA 259 (338)
Q Consensus 180 g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~~~ 259 (338)
-+.||.--+-.-|-||+||.|+.+|++|..+++..- ....||.|+|.=||..|-.+. ..+.....|+.+
T Consensus 498 ~yaGLe~~i~N~YcNamiQllyfl~~~r~~vl~H~C---------~~e~CL~CELGFLF~Ml~~S~--G~~Cqa~NFlra 566 (1118)
T KOG1275|consen 498 TYAGLETDIPNSYCNAMIQLLYFLPPIRSIVLRHIC---------TKEFCLLCELGFLFTMLDSST--GDPCQANNFLRA 566 (1118)
T ss_pred eeeccCCCCchHHHHHHHHHHHhccHHHHHHHcCcc---------chhHHHHHHHHHHHHHHhhhc--CCccchhHHHHH
Confidence 356888888888999999999999999999997631 135899999999999987765 456777777777
Q ss_pred HHh
Q psy9878 260 VVL 262 (338)
Q Consensus 260 l~~ 262 (338)
++.
T Consensus 567 f~t 569 (1118)
T KOG1275|consen 567 FRT 569 (1118)
T ss_pred Hhh
Confidence 764
No 46
>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=90.40 E-value=0.28 Score=41.37 Aligned_cols=56 Identities=21% Similarity=0.350 Sum_probs=33.5
Q ss_pred ccccC--CCCCeeEEeeeCceecccC---CchhHhhhhhhcCcc-EEEeecC----CeEEEecCCe
Q psy9878 30 CSVSL--SRINVYACLVCGKYFQGRG---TNTFAYTHSVAESHH-VFLNLHT----LKFYCLPDNY 85 (338)
Q Consensus 30 C~~c~--~~~~lw~CL~Cg~~~CGr~---~~~Ha~~H~~~~~H~-l~v~l~t----~~v~Cy~Cd~ 85 (338)
|+-|+ ....+-.|++|++-||... ..+|...|-....|. +.+.-++ -.+.||.|..
T Consensus 3 C~YCG~~~p~~vv~C~~c~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~ 68 (152)
T PF09416_consen 3 CAYCGIHDPSCVVKCNTCNKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGS 68 (152)
T ss_dssp -TTT----CCCEEEETTTTEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT--
T ss_pred ccccCCCCcccEeEcCCCCcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCC
Confidence 66676 6778999999999999764 369999998877665 5555544 4678999965
No 47
>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=89.37 E-value=0.23 Score=42.96 Aligned_cols=22 Identities=32% Similarity=0.380 Sum_probs=15.3
Q ss_pred ccccccCCChhHHHHHHHHHhc
Q psy9878 181 IVGLNNIKANDYCNVILQALCH 202 (338)
Q Consensus 181 ~~GL~NlGNTCy~NsvLQ~L~~ 202 (338)
++|+.|.+|+|++||++|.+-.
T Consensus 33 ft~~PN~~dnCWlNaL~QL~~~ 54 (193)
T PF05408_consen 33 FTGLPNNHDNCWLNALLQLFRY 54 (193)
T ss_dssp EE----SSSTHHHHHHHHHHHH
T ss_pred EecCCCCCCChHHHHHHHHHHH
Confidence 5699999999999999997643
No 48
>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=77.84 E-value=5.2 Score=38.13 Aligned_cols=79 Identities=14% Similarity=0.094 Sum_probs=46.1
Q ss_pred CCccccccCCChhHHHHHHHHHhcChH-HHHHHhchhhhhccCCCCCCChhHHHHHHHHHHHHHhCCCCCCCccCHHHHH
Q psy9878 179 PGIVGLNNIKANDYCNVILQALCHVTP-LRDYFLREINYARVKRPPGDSSFLLVQRFGELMRKLWNPRNFKSHVSPHEML 257 (338)
Q Consensus 179 ~g~~GL~NlGNTCy~NsvLQ~L~~~~~-~r~~ll~~~~~~~~~~~~~~~~~~l~~~l~~l~~~l~~~~~~~~~isP~~l~ 257 (338)
.|++=|.-.-|+||+||++-+|-++.. |+ ...++.+..++..++ |..|.
T Consensus 100 ~g~~~Lkq~dNNCwVna~~~~LQ~~~~~f~-----------------------~~~l~~aw~~f~~G~-------~~~fV 149 (320)
T PF08715_consen 100 NGFRVLKQSDNNCWVNAACLQLQALKIKFK-----------------------SPGLDEAWNEFKAGD-------PAPFV 149 (320)
T ss_dssp TTEEEE---TTTHHHHHHHHHHTTST--BS-----------------------SHHHHHHHHHHHTT---------HHHH
T ss_pred CCEEEEEecCCCcHHHHHHHHHHhcCCccC-----------------------CHHHHHHHHHHhCCC-------hHHHH
Confidence 567778888899999999877755421 10 114456666676654 55666
Q ss_pred HHHHhhcCCCCCCCCCCCHHHHHHHHHHHHHH
Q psy9878 258 QAVVLWSRKQFQFTEQSDPIDFLSWFLNTLHR 289 (338)
Q Consensus 258 ~~l~~~~~~~F~~~~QqDA~Efl~~lLd~L~~ 289 (338)
..+-. ...+..++.-||+++|..||+.+..
T Consensus 150 a~~Ya--~~~~~~G~~gDa~~~L~~ll~~~~~ 179 (320)
T PF08715_consen 150 AWCYA--STNAKKGDPGDAEYVLSKLLKDADL 179 (320)
T ss_dssp HHHHH--HTT--TTS---HHHHHHHHHTTB-T
T ss_pred HHHHH--HcCCCCCCCcCHHHHHHHHHHhccc
Confidence 65533 3455677889999999999987764
No 49
>PHA00616 hypothetical protein
Probab=56.58 E-value=2 Score=28.41 Aligned_cols=25 Identities=24% Similarity=0.527 Sum_probs=18.1
Q ss_pred eEEeeeCceecccCC-chhHhhhhhh
Q psy9878 40 YACLVCGKYFQGRGT-NTFAYTHSVA 64 (338)
Q Consensus 40 w~CL~Cg~~~CGr~~-~~Ha~~H~~~ 64 (338)
+.|+.||..+.-..+ ..|...|..+
T Consensus 2 YqC~~CG~~F~~~s~l~~H~r~~hg~ 27 (44)
T PHA00616 2 YQCLRCGGIFRKKKEVIEHLLSVHKQ 27 (44)
T ss_pred CccchhhHHHhhHHHHHHHHHHhcCC
Confidence 679999998886544 5677666654
No 50
>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=54.24 E-value=4.1 Score=24.57 Aligned_cols=24 Identities=38% Similarity=0.696 Sum_probs=17.5
Q ss_pred cccccccCCCCCeeEEeeeCceecc
Q psy9878 27 EKLCSVSLSRINVYACLVCGKYFQG 51 (338)
Q Consensus 27 ~k~C~~c~~~~~lw~CL~Cg~~~CG 51 (338)
.+.|++|.. ...|.|..||...|+
T Consensus 2 ~~~C~vC~~-~~kY~Cp~C~~~~CS 25 (30)
T PF04438_consen 2 RKLCSVCGN-PAKYRCPRCGARYCS 25 (30)
T ss_dssp -EEETSSSS-EESEE-TTT--EESS
T ss_pred cCCCccCcC-CCEEECCCcCCceeC
Confidence 456999999 899999999998885
No 51
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=53.67 E-value=2.7 Score=42.07 Aligned_cols=64 Identities=13% Similarity=0.210 Sum_probs=43.1
Q ss_pred CCCCcccccccccC---CCccccccccCCC----CCeeEEeeeCceecccCCchhH-hhhhhhcCccEEEee
Q psy9878 10 LCPYLDTINRQLLD---FDFEKLCSVSLSR----INVYACLVCGKYFQGRGTNTFA-YTHSVAESHHVFLNL 73 (338)
Q Consensus 10 ~c~~l~~~~~~~~~---~~~~k~C~~c~~~----~~lw~CL~Cg~~~CGr~~~~Ha-~~H~~~~~H~l~v~l 73 (338)
.|||+..-+..+-+ .-+...|.-|..+ ..+-+||.|+..+||+...-|. +.|+..+-|++.+-+
T Consensus 2 S~~H~e~ae~vlpn~~av~~reeC~yCf~S~~~e~si~vClnCfqs~C~~h~~~H~~~~~~c~tvh~i~~ti 73 (749)
T COG5207 2 SFSHSEMAEMVLPNLPAVRFREECCYCFRSIGDEHSISVCLNCFQSFCEKHRGIHLGTKSGCRTVHDIKETI 73 (749)
T ss_pred CCchhhhhhhcCCCCchhhhhhhhheeeccCCCCcceehHHHHhHhhhhhccceeecchhhhhhhhhhhhhh
Confidence 57888733322111 1122337778633 3589999999999999887787 688888889887543
No 52
>KOG3362|consensus
Probab=49.74 E-value=4.8 Score=33.50 Aligned_cols=25 Identities=28% Similarity=0.695 Sum_probs=21.4
Q ss_pred ccccccccCCCCCeeEEeeeCceecc
Q psy9878 26 FEKLCSVSLSRINVYACLVCGKYFQG 51 (338)
Q Consensus 26 ~~k~C~~c~~~~~lw~CL~Cg~~~CG 51 (338)
.-+-|++|+ -.++|.|..||.-+|.
T Consensus 117 ~r~fCaVCG-~~S~ysC~~CG~kyCs 141 (156)
T KOG3362|consen 117 LRKFCAVCG-YDSKYSCVNCGTKYCS 141 (156)
T ss_pred cchhhhhcC-CCchhHHHhcCCceee
Confidence 455699999 6699999999998885
No 53
>smart00105 ArfGap Putative GTP-ase activating proteins for the small GTPase, ARF. Putative zinc fingers with GTPase activating proteins (GAPs) towards the small GTPase, Arf. The GAP of ARD1 stimulates GTPase hydrolysis for ARD1 but not ARFs.
Probab=46.93 E-value=20 Score=28.47 Aligned_cols=43 Identities=14% Similarity=0.054 Sum_probs=29.9
Q ss_pred cccccccCCCCCeeEEeeeCceecccCCchhHhhhhhhcCccEEEee
Q psy9878 27 EKLCSVSLSRINVYACLVCGKYFQGRGTNTFAYTHSVAESHHVFLNL 73 (338)
Q Consensus 27 ~k~C~~c~~~~~lw~CL~Cg~~~CGr~~~~Ha~~H~~~~~H~l~v~l 73 (338)
-+.|..|.+....|+++.=|.+.|. ..+-.|-.--.|--.|..
T Consensus 3 N~~CaDC~~~~p~w~s~~~GifvC~----~CsgiHR~lg~his~VkS 45 (112)
T smart00105 3 NKKCFDCGAPNPTWASVNLGVFLCI----ECSGIHRSLGVHISKVRS 45 (112)
T ss_pred CCcccCCCCCCCCcEEeccceeEhH----HhHHHHHhcCCCcCeeee
Confidence 3579999999999999999999996 444455433245333433
No 54
>PF01412 ArfGap: Putative GTPase activating protein for Arf; InterPro: IPR001164 This entry describes a family of small GTPase activating proteins, for example ARF1-directed GTPase-activating protein, the cycle control GTPase activating protein (GAP) GCS1 which is important for the regulation of the ADP ribosylation factor ARF, a member of the Ras superfamily of GTP-binding proteins []. The GTP-bound form of ARF is essential for the maintenance of normal Golgi morphology, it participates in recruitment of coat proteins which are required for budding and fission of membranes. Before the fusion with an acceptor compartment the membrane must be uncoated. This step required the hydrolysis of GTP associated to ARF. These proteins contain a characteristic zinc finger motif (Cys-x2-Cys-x(16,17)-x2-Cys) which displays some similarity to the C4-type GATA zinc finger. The ARFGAP domain display no obvious similarity to other GAP proteins. The 3D structure of the ARFGAP domain of the PYK2-associated protein beta has been solved []. It consists of a three-stranded beta-sheet surrounded by 5 alpha helices. The domain is organised around a central zinc atom which is coordinated by 4 cysteines. The ARFGAP domain is clearly unrelated to the other GAP proteins structures which are exclusively helical. Classical GAP proteins accelerate GTPase activity by supplying an arginine finger to the active site. The crystal structure of ARFGAP bound to ARF revealed that the ARFGAP domain does not supply an arginine to the active site which suggests a more indirect role of the ARFGAP domain in the GTPase hydrolysis []. The Rev protein of human immunodeficiency virus type 1 (HIV-1) facilitates nuclear export of unspliced and partly-spliced viral RNAs []. Rev contains an RNA-binding domain and an effector domain; the latter is believed to interact with a cellular cofactor required for the Rev response and hence HIV-1 replication. Human Rev interacting protein (hRIP) specifically interacts with the Rev effector. The amino acid sequence of hRIP is characterised by an N-terminal, C-4 class zinc finger motif.; GO: 0008060 ARF GTPase activator activity, 0008270 zinc ion binding, 0032312 regulation of ARF GTPase activity; PDB: 2P57_A 2CRR_A 2OWA_B 3O47_B 3DWD_A 1DCQ_A 2CRW_A 3MDB_D 3FEH_A 3LJU_X ....
Probab=46.51 E-value=19 Score=28.85 Aligned_cols=50 Identities=18% Similarity=0.127 Sum_probs=30.8
Q ss_pred ccccccccCCCCCeeEEeeeCceecccCCchhHhhhhhhcCccEEEeecCCeEE
Q psy9878 26 FEKLCSVSLSRINVYACLVCGKYFQGRGTNTFAYTHSVAESHHVFLNLHTLKFY 79 (338)
Q Consensus 26 ~~k~C~~c~~~~~lw~CL~Cg~~~CGr~~~~Ha~~H~~~~~H~l~v~l~t~~v~ 79 (338)
--+.|.+|++....|+++.=|.+.|. ..|-.|-.--.|--.|..-+.+-|
T Consensus 12 ~N~~CaDCg~~~p~w~s~~~GiflC~----~Cag~HR~lg~~is~VkSi~~d~w 61 (116)
T PF01412_consen 12 GNKVCADCGAPNPTWASLNYGIFLCL----ECAGIHRSLGVHISRVKSITMDNW 61 (116)
T ss_dssp TCTB-TTT-SBS--EEETTTTEEE-H----HHHHHHHHHTTTT--EEETTTS--
T ss_pred CcCcCCCCCCCCCCEEEeecChhhhH----HHHHHHHHhcccchhccccccCCC
Confidence 35779999999999999998888884 677777654446666766666654
No 55
>KOG0944|consensus
Probab=46.05 E-value=15 Score=38.23 Aligned_cols=43 Identities=23% Similarity=0.396 Sum_probs=34.0
Q ss_pred cccccC----CCCCeeEEeeeCceecccCCchhHhhhhhhcCccEEEeecC
Q psy9878 29 LCSVSL----SRINVYACLVCGKYFQGRGTNTFAYTHSVAESHHVFLNLHT 75 (338)
Q Consensus 29 ~C~~c~----~~~~lw~CL~Cg~~~CGr~~~~Ha~~H~~~~~H~l~v~l~t 75 (338)
.|.-|. +...||+||.|=.-++ ..|+..|+.++.|.+++.+..
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 388776 4457999999943333 689999999999999998844
No 56
>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=43.11 E-value=12 Score=23.19 Aligned_cols=14 Identities=43% Similarity=1.049 Sum_probs=11.7
Q ss_pred eeEEeeeCceeccc
Q psy9878 39 VYACLVCGKYFQGR 52 (338)
Q Consensus 39 lw~CL~Cg~~~CGr 52 (338)
.|+|..||++.=|.
T Consensus 2 ~~~C~~CG~i~~g~ 15 (34)
T cd00729 2 VWVCPVCGYIHEGE 15 (34)
T ss_pred eEECCCCCCEeECC
Confidence 69999999887664
No 57
>KOG1802|consensus
Probab=39.91 E-value=29 Score=36.35 Aligned_cols=57 Identities=21% Similarity=0.338 Sum_probs=41.3
Q ss_pred ccccCCCC--CeeEEeeeCceecccCC---chhHhhhhhhcCccEE-Eeec----CCeEEEecCCeE
Q psy9878 30 CSVSLSRI--NVYACLVCGKYFQGRGT---NTFAYTHSVAESHHVF-LNLH----TLKFYCLPDNYE 86 (338)
Q Consensus 30 C~~c~~~~--~lw~CL~Cg~~~CGr~~---~~Ha~~H~~~~~H~l~-v~l~----t~~v~Cy~Cd~~ 86 (338)
|.=|+..+ .+--|.+||+-+|.... .+|...|-..+.|--. ++-. .-.+-||.|..-
T Consensus 63 c~Ycgi~~p~~v~kc~~c~Kwfcn~r~gtsgshIv~hlvra~hk~v~lh~ds~lget~lecyncg~~ 129 (935)
T KOG1802|consen 63 CAYCGISEPACVIKCNTCGKWFCNSRGGTSGSHIVNHLVRAKHKEVSLHKDSPLGETVLECYNCGSR 129 (935)
T ss_pred hhhccCCCchheeeccccCceeecCCCCCchhHHHHHHHHhhhheeEeccCCCCCcceEEeeccCcc
Confidence 99998766 78889999999996533 6999999887766433 3322 234679988543
No 58
>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=39.35 E-value=13 Score=22.78 Aligned_cols=14 Identities=43% Similarity=1.120 Sum_probs=10.7
Q ss_pred eeEEeeeCceeccc
Q psy9878 39 VYACLVCGKYFQGR 52 (338)
Q Consensus 39 lw~CL~Cg~~~CGr 52 (338)
.|.|..||+++=+.
T Consensus 1 ~~~C~~CGy~y~~~ 14 (33)
T cd00350 1 KYVCPVCGYIYDGE 14 (33)
T ss_pred CEECCCCCCEECCC
Confidence 48999999876553
No 59
>KOG1871|consensus
Probab=38.78 E-value=13 Score=36.16 Aligned_cols=33 Identities=12% Similarity=-0.167 Sum_probs=27.4
Q ss_pred CccccccCCChhHHHHHHHHHhcChHHHHHHhc
Q psy9878 180 GIVGLNNIKANDYCNVILQALCHVTPLRDYFLR 212 (338)
Q Consensus 180 g~~GL~NlGNTCy~NsvLQ~L~~~~~~r~~ll~ 212 (338)
-.+|+.|.||-|+.++..|...+..++...+-.
T Consensus 177 t~~~~i~~~n~~n~~s~~e~~~~~~~~~~~~gk 209 (420)
T KOG1871|consen 177 TPRGLINNGNLCNLDSTEEAGLSESSGVQLLGK 209 (420)
T ss_pred cccccccccccccccchhhcccccCchhhhcCC
Confidence 357999999999999999999998777655443
No 60
>PF00096 zf-C2H2: Zinc finger, C2H2 type; InterPro: IPR007087 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. The C2H2 zinc finger is the classical zinc finger domain. The two conserved cysteines and histidines co-ordinate a zinc ion. The following pattern describes the zinc finger: #-X-C-X(1-5)-C-X3-#-X5-#-X2-H-X(3-6)-[H/C], where X can be any amino acid, and numbers in brackets indicate the number of residues. The positions marked # are those that are important for the stable fold of the zinc finger. The final position can be either his or cys. The C2H2 zinc finger is composed of two short beta strands followed by an alpha helix. The amino terminal part of the helix binds the major groove in DNA binding zinc fingers. The accepted consensus binding sequence for Sp1 is usually defined by the asymmetric hexanucleotide core GGGCGG but this sequence does not include, among others, the GAG (=CTC) repeat that constitutes a high-affinity site for Sp1 binding to the wt1 promoter []. This entry represents the classical C2H2 zinc finger domain. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0008270 zinc ion binding, 0005622 intracellular; PDB: 2D9H_A 2EPC_A 1SP1_A 1VA3_A 2WBT_B 2ELR_A 2YTP_A 2YTT_A 1VA1_A 2ELO_A ....
Probab=36.80 E-value=10 Score=20.55 Aligned_cols=13 Identities=46% Similarity=1.265 Sum_probs=8.7
Q ss_pred eEEeeeCceeccc
Q psy9878 40 YACLVCGKYFQGR 52 (338)
Q Consensus 40 w~CL~Cg~~~CGr 52 (338)
|.|-.||+.+-..
T Consensus 1 y~C~~C~~~f~~~ 13 (23)
T PF00096_consen 1 YKCPICGKSFSSK 13 (23)
T ss_dssp EEETTTTEEESSH
T ss_pred CCCCCCCCccCCH
Confidence 5678888766543
No 61
>PF14369 zf-RING_3: zinc-finger
Probab=35.36 E-value=18 Score=22.55 Aligned_cols=12 Identities=17% Similarity=0.481 Sum_probs=10.4
Q ss_pred eEEEecCCeEEe
Q psy9878 77 KFYCLPDNYEIV 88 (338)
Q Consensus 77 ~v~Cy~Cd~~v~ 88 (338)
.-|||.|+..|.
T Consensus 2 ~ywCh~C~~~V~ 13 (35)
T PF14369_consen 2 RYWCHQCNRFVR 13 (35)
T ss_pred CEeCccCCCEeE
Confidence 469999999986
No 62
>PF10571 UPF0547: Uncharacterised protein family UPF0547; InterPro: IPR018886 This domain may well be a type of zinc-finger as it carries two pairs of highly conserved cysteine residues though with no accompanying histidines. Several members are annotated as putative helicases.
Probab=34.60 E-value=15 Score=21.36 Aligned_cols=22 Identities=27% Similarity=0.442 Sum_probs=14.0
Q ss_pred ccccccCC--CCCeeEEeeeCcee
Q psy9878 28 KLCSVSLS--RINVYACLVCGKYF 49 (338)
Q Consensus 28 k~C~~c~~--~~~lw~CL~Cg~~~ 49 (338)
|.|-.|.. +.+.-.|-.||+.|
T Consensus 1 K~CP~C~~~V~~~~~~Cp~CG~~F 24 (26)
T PF10571_consen 1 KTCPECGAEVPESAKFCPHCGYDF 24 (26)
T ss_pred CcCCCCcCCchhhcCcCCCCCCCC
Confidence 45677763 45566777787654
No 63
>PF08792 A2L_zn_ribbon: A2L zinc ribbon domain; InterPro: IPR014900 This zinc ribbon protein is found associated with some viral A2L transcription factors [].
Probab=33.35 E-value=34 Score=21.07 Aligned_cols=22 Identities=32% Similarity=0.637 Sum_probs=13.9
Q ss_pred ccccccCC------CCCeeEEeeeCcee
Q psy9878 28 KLCSVSLS------RINVYACLVCGKYF 49 (338)
Q Consensus 28 k~C~~c~~------~~~lw~CL~Cg~~~ 49 (338)
+.|+.|.. ..+...|..||.++
T Consensus 4 ~~C~~C~~~~i~~~~~~~~~C~~Cg~~~ 31 (33)
T PF08792_consen 4 KKCSKCGGNGIVNKEDDYEVCIFCGSSF 31 (33)
T ss_pred eEcCCCCCCeEEEecCCeEEcccCCcEe
Confidence 44777763 34567788887653
No 64
>KOG0826|consensus
Probab=32.57 E-value=58 Score=31.06 Aligned_cols=48 Identities=23% Similarity=0.196 Sum_probs=31.3
Q ss_pred CCCCCCCCCCCCcccccccc-cCCCccccccccC-CCCCeeEEeeeCceeccc
Q psy9878 2 VTGPVVNRLCPYLDTINRQL-LDFDFEKLCSVSL-SRINVYACLVCGKYFQGR 52 (338)
Q Consensus 2 ~~~~~~~~~c~~l~~~~~~~-~~~~~~k~C~~c~-~~~~lw~CL~Cg~~~CGr 52 (338)
+-+|+..+. |.+...+.. +.-| ...|.+|. ...|.-+|-+=|+++|-+
T Consensus 277 l~~p~PpPP--h~~~~se~e~l~~~-~~~CpvClk~r~Nptvl~vSGyVfCY~ 326 (357)
T KOG0826|consen 277 LDPPIPPPP--HKQYNSESELLPPD-REVCPVCLKKRQNPTVLEVSGYVFCYP 326 (357)
T ss_pred CCCCCCcCC--hhhcccccccCCCc-cccChhHHhccCCCceEEecceEEeHH
Confidence 456766665 666444443 3334 34499997 466788888889999943
No 65
>KOG0704|consensus
Probab=31.70 E-value=29 Score=33.29 Aligned_cols=22 Identities=27% Similarity=0.578 Sum_probs=17.0
Q ss_pred CccccccccCCC--------CCeeEEeeeC
Q psy9878 25 DFEKLCSVSLSR--------INVYACLVCG 46 (338)
Q Consensus 25 ~~~k~C~~c~~~--------~~lw~CL~Cg 46 (338)
|--+.|-+|... .-+|+||+|.
T Consensus 17 deNk~CfeC~a~NPQWvSvsyGIfICLECS 46 (386)
T KOG0704|consen 17 DENKKCFECGAPNPQWVSVSYGIFICLECS 46 (386)
T ss_pred ccCCceeecCCCCCCeEeecccEEEEEecC
Confidence 456779999854 4688999995
No 66
>PF15616 TerY-C: TerY-C metal binding domain
Probab=31.70 E-value=31 Score=28.48 Aligned_cols=21 Identities=29% Similarity=0.550 Sum_probs=18.6
Q ss_pred ccccCCCCCeeEEeeeCceecc
Q psy9878 30 CSVSLSRINVYACLVCGKYFQG 51 (338)
Q Consensus 30 C~~c~~~~~lw~CL~Cg~~~CG 51 (338)
|--|......-+| .||+++|=
T Consensus 80 CP~CGn~~~fa~C-~CGkl~Ci 100 (131)
T PF15616_consen 80 CPHCGNQYAFAVC-GCGKLFCI 100 (131)
T ss_pred CCCCcChhcEEEe-cCCCEEEe
Confidence 8889998888889 99999994
No 67
>COG1997 RPL43A Ribosomal protein L37AE/L43A [Translation, ribosomal structure and biogenesis]
Probab=30.56 E-value=32 Score=26.19 Aligned_cols=24 Identities=25% Similarity=0.707 Sum_probs=19.8
Q ss_pred cccccCC------CCCeeEEeeeCceeccc
Q psy9878 29 LCSVSLS------RINVYACLVCGKYFQGR 52 (338)
Q Consensus 29 ~C~~c~~------~~~lw~CL~Cg~~~CGr 52 (338)
.|..|.. ...+|.|-.||+.+-|-
T Consensus 37 ~Cp~C~~~~VkR~a~GIW~C~kCg~~fAGg 66 (89)
T COG1997 37 VCPFCGRTTVKRIATGIWKCRKCGAKFAGG 66 (89)
T ss_pred cCCCCCCcceeeeccCeEEcCCCCCeeccc
Confidence 4888974 45799999999998875
No 68
>PF13894 zf-C2H2_4: C2H2-type zinc finger; PDB: 2ELX_A 2EPP_A 2DLK_A 1X6H_A 2EOU_A 2EMB_A 2GQJ_A 2CSH_A 2WBT_B 2ELM_A ....
Probab=27.72 E-value=19 Score=19.18 Aligned_cols=12 Identities=42% Similarity=1.262 Sum_probs=6.6
Q ss_pred eEEeeeCceecc
Q psy9878 40 YACLVCGKYFQG 51 (338)
Q Consensus 40 w~CL~Cg~~~CG 51 (338)
|.|-.||+.+-.
T Consensus 1 ~~C~~C~~~~~~ 12 (24)
T PF13894_consen 1 FQCPICGKSFRS 12 (24)
T ss_dssp EE-SSTS-EESS
T ss_pred CCCcCCCCcCCc
Confidence 667778776554
No 69
>PHA00626 hypothetical protein
Probab=27.46 E-value=33 Score=23.91 Aligned_cols=21 Identities=19% Similarity=0.241 Sum_probs=17.7
Q ss_pred ccccCCCCCeeEEeeeCceec
Q psy9878 30 CSVSLSRINVYACLVCGKYFQ 50 (338)
Q Consensus 30 C~~c~~~~~lw~CL~Cg~~~C 50 (338)
|..|....+.|.|-.||+.+-
T Consensus 14 cg~cr~~snrYkCkdCGY~ft 34 (59)
T PHA00626 14 EKTMRGWSDDYVCCDCGYNDS 34 (59)
T ss_pred eceecccCcceEcCCCCCeec
Confidence 677777789999999998765
No 70
>COG5574 PEX10 RING-finger-containing E3 ubiquitin ligase [Posttranslational modification, protein turnover, chaperones]
Probab=27.29 E-value=22 Score=32.78 Aligned_cols=24 Identities=29% Similarity=0.627 Sum_probs=21.8
Q ss_pred cccccccCCCCCeeEEeeeCceec
Q psy9878 27 EKLCSVSLSRINVYACLVCGKYFQ 50 (338)
Q Consensus 27 ~k~C~~c~~~~~lw~CL~Cg~~~C 50 (338)
..-|..|....+.-.|..||++||
T Consensus 215 d~kC~lC~e~~~~ps~t~CgHlFC 238 (271)
T COG5574 215 DYKCFLCLEEPEVPSCTPCGHLFC 238 (271)
T ss_pred ccceeeeecccCCcccccccchhh
Confidence 334999999999999999999999
No 71
>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=27.15 E-value=35 Score=19.51 Aligned_cols=13 Identities=23% Similarity=0.618 Sum_probs=8.6
Q ss_pred CCCCeeEEeeeCc
Q psy9878 35 SRINVYACLVCGK 47 (338)
Q Consensus 35 ~~~~lw~CL~Cg~ 47 (338)
.....+.|-.||.
T Consensus 12 ~~~v~f~CPnCG~ 24 (24)
T PF07754_consen 12 EQAVPFPCPNCGF 24 (24)
T ss_pred ccCceEeCCCCCC
Confidence 3356778888873
No 72
>PF05715 zf-piccolo: Piccolo Zn-finger; InterPro: IPR008899 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 (predicted) zinc finger is found in the bassoon and piccolo proteins, both of which are components of the presynaptic cytoskeletal matrix (PCM) assembled at the active zone of neurotransmitter release, where Piccolo plays a role in the trafficking of synaptic vesicles (SVs) [, , ]. The Piccolo zinc fingers were found to interact with the dual prenylated rab3A and VAMP2/Synaptobrevin II receptor PRA1. There are eight conserved cysteines in Piccolo-type zinc fingers, suggesting that they coordinates two zinc ligands. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].; GO: 0046872 metal ion binding, 0045202 synapse
Probab=25.62 E-value=38 Score=23.86 Aligned_cols=10 Identities=30% Similarity=0.956 Sum_probs=7.6
Q ss_pred CCeeEEeeeC
Q psy9878 37 INVYACLVCG 46 (338)
Q Consensus 37 ~~lw~CL~Cg 46 (338)
..-|+||.|-
T Consensus 47 ~~eWLCLnCQ 56 (61)
T PF05715_consen 47 VKEWLCLNCQ 56 (61)
T ss_pred cceeeeecch
Confidence 3678888884
No 73
>PF07282 OrfB_Zn_ribbon: Putative transposase DNA-binding domain; InterPro: IPR010095 This entry represents a region of a sequence similarity between a family of putative transposases of Thermoanaerobacter tengcongensis, smaller related proteins from Bacillus anthracis, putative transposes described by IPR001959 from INTERPRO, and other proteins. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=22.77 E-value=56 Score=23.16 Aligned_cols=24 Identities=21% Similarity=0.343 Sum_probs=18.4
Q ss_pred CccccccccCC------CCCeeEEeeeCce
Q psy9878 25 DFEKLCSVSLS------RINVYACLVCGKY 48 (338)
Q Consensus 25 ~~~k~C~~c~~------~~~lw~CL~Cg~~ 48 (338)
..++.|+.|+. ....|.|..||..
T Consensus 26 ~TSq~C~~CG~~~~~~~~~r~~~C~~Cg~~ 55 (69)
T PF07282_consen 26 YTSQTCPRCGHRNKKRRSGRVFTCPNCGFE 55 (69)
T ss_pred CCccCccCcccccccccccceEEcCCCCCE
Confidence 46788998873 4468999999865
No 74
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=22.31 E-value=56 Score=20.34 Aligned_cols=22 Identities=23% Similarity=0.480 Sum_probs=14.5
Q ss_pred ccccCC-CCCeeEEeeeCceecc
Q psy9878 30 CSVSLS-RINVYACLVCGKYFQG 51 (338)
Q Consensus 30 C~~c~~-~~~lw~CL~Cg~~~CG 51 (338)
|..|.. ..+.++-+.||+++|.
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC~ 23 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFCK 23 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEEH
T ss_pred CCCCCCcccCcCEECCCCCchhH
Confidence 445543 4456788889988884
No 75
>PF06221 zf-C2HC5: Putative zinc finger motif, C2HC5-type; InterPro: IPR009349 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 zinc finger appears to be common in activating signal cointegrator 1/thyroid receptor interacting protein 4. 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, 0005634 nucleus
Probab=22.24 E-value=29 Score=24.31 Aligned_cols=13 Identities=38% Similarity=0.728 Sum_probs=10.9
Q ss_pred eeEEeeeCceecc
Q psy9878 39 VYACLVCGKYFQG 51 (338)
Q Consensus 39 lw~CL~Cg~~~CG 51 (338)
.--||.||++.|-
T Consensus 18 ~~NCl~CGkIiC~ 30 (57)
T PF06221_consen 18 APNCLNCGKIICE 30 (57)
T ss_pred cccccccChhhcc
Confidence 4579999999994
No 76
>PF08882 Acetone_carb_G: Acetone carboxylase gamma subunit; InterPro: IPR014979 Acetone carboxylase is the key enzyme of bacterial acetone metabolism, catalysing the condensation of acetone and CO2 to form acetoacetate [] according to the following reaction: CH3COCH3 + CO2 + ATP = CH3COCH2COO- + AMP + 2P(i) + H+ It has the subunit composition: (alpha(2)beta(2)gamma(2) multimers of 85kDa, 78kDa, and 20kDa subunits). It is expressed to high levels (17 to 25% of soluble protein) in cells grown with acetone as the carbon source but are not present at detectable levels in cells grown with other carbon sources []. Acetone carboxylase may enable Helicobacter pylori to survive off acetone in the stomach of humans and other mammals where it is the etiological agent of peptic ulcer disease []. This entry represents the family of gamma subunit-related acetone carboxylase proteins.
Probab=22.16 E-value=74 Score=25.40 Aligned_cols=47 Identities=15% Similarity=0.245 Sum_probs=31.1
Q ss_pred eeCceecccCC--chhHhhhhhhc--Cc-cEE---EeecC-----CeEEEecCCeEEecc
Q psy9878 44 VCGKYFQGRGT--NTFAYTHSVAE--SH-HVF---LNLHT-----LKFYCLPDNYEIVGT 90 (338)
Q Consensus 44 ~Cg~~~CGr~~--~~Ha~~H~~~~--~H-~l~---v~l~t-----~~v~Cy~Cd~~v~~~ 90 (338)
.||+.+|+-.+ +-||+.|-..+ .| +++ +..+. ...||=.|...+-..
T Consensus 28 ~CGh~f~d~r~NwK~~alv~vRd~~E~~~~iYp~~~aPdp~w~~irEyyCP~Cgt~levE 87 (112)
T PF08882_consen 28 DCGHEFCDARENWKLGALVYVRDPEEIHPEIYPFTMAPDPEWQVIREYYCPGCGTQLEVE 87 (112)
T ss_pred cCCCeecChhcChhhCcEEEecChHHhhhhhcccccCCCCCcEEEEEEECCCCcceeEEc
Confidence 49999998765 58888887753 34 232 33222 366888898877543
No 77
>PLN03119 putative ADP-ribosylation factor GTPase-activating protein AGD14; Provisional
Probab=21.45 E-value=62 Score=33.23 Aligned_cols=30 Identities=13% Similarity=0.071 Sum_probs=24.9
Q ss_pred CccccccccCCCCCeeEEeeeCceecccCC
Q psy9878 25 DFEKLCSVSLSRINVYACLVCGKYFQGRGT 54 (338)
Q Consensus 25 ~~~k~C~~c~~~~~lw~CL~Cg~~~CGr~~ 54 (338)
.--+.|..|......|+|+..|.+.|-+-.
T Consensus 21 PgNk~CADCgs~~P~WASiNlGIFICi~CS 50 (648)
T PLN03119 21 PPNRRCINCNSLGPQYVCTTFWTFVCMACS 50 (648)
T ss_pred cCCCccccCCCCCCCceeeccceEEeccch
Confidence 345779999999999999999999986543
No 78
>PF01780 Ribosomal_L37ae: Ribosomal L37ae protein family; InterPro: IPR002674 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This ribosomal protein is found in archaebacteria and eukaryotes []. Ribosomal protein L37 has a single zinc finger-like motif of the C2-C2 type [].; GO: 0003735 structural constituent of ribosome, 0006412 translation, 0005622 intracellular, 0005840 ribosome; PDB: 4A1E_Y 4A17_Y 4A1C_Y 4A1A_Y 3O58_g 3IZS_m 3O5H_g 1S1I_9 3IZR_m 1YSH_D ....
Probab=21.09 E-value=40 Score=25.89 Aligned_cols=24 Identities=29% Similarity=0.744 Sum_probs=19.0
Q ss_pred ccccCC------CCCeeEEeeeCceecccC
Q psy9878 30 CSVSLS------RINVYACLVCGKYFQGRG 53 (338)
Q Consensus 30 C~~c~~------~~~lw~CL~Cg~~~CGr~ 53 (338)
|..|.. ..-+|-|-.||+.+-|..
T Consensus 38 Cp~Cgk~~vkR~a~GIW~C~~C~~~~AGGA 67 (90)
T PF01780_consen 38 CPFCGKTSVKRVATGIWKCKKCGKKFAGGA 67 (90)
T ss_dssp ESSSSSSEEEEEETTEEEETTTTEEEE-BS
T ss_pred CCCCCCceeEEeeeEEeecCCCCCEEeCCC
Confidence 888874 357999999999998863
No 79
>TIGR03544 DivI1A_domain DivIVA domain. This model describes a domain found in Bacillus subtilis cell division initiation protein DivIVA, and homologs, toward the N-terminus. It is also found as a repeated domain in certain other proteins, including family TIGR03543.
Probab=20.99 E-value=75 Score=19.44 Aligned_cols=31 Identities=13% Similarity=0.251 Sum_probs=19.6
Q ss_pred CHHHHHHHHHhhcCCCCCCCCCCCHHHHHHHHHH
Q psy9878 252 SPHEMLQAVVLWSRKQFQFTEQSDPIDFLSWFLN 285 (338)
Q Consensus 252 sP~~l~~~l~~~~~~~F~~~~QqDA~Efl~~lLd 285 (338)
+|.++.+.- +...|+||.+.+..+||.-+.+
T Consensus 2 t~~dIr~~~---F~~~~rGY~~~eVD~fLd~v~~ 32 (34)
T TIGR03544 2 TPEDIRNKR---FKKKLRGYDAAEVDAFLDRVAD 32 (34)
T ss_pred CHHHHhhCc---CCCCCCCCCHHHHHHHHHHHHH
Confidence 444444432 3455789988888888665543
No 80
>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=20.82 E-value=48 Score=19.67 Aligned_cols=19 Identities=26% Similarity=0.796 Sum_probs=12.5
Q ss_pred eEEeeeCceecccCCchhH
Q psy9878 40 YACLVCGKYFQGRGTNTFA 58 (338)
Q Consensus 40 w~CL~Cg~~~CGr~~~~Ha 58 (338)
+.|+.|++.|-|..-.+|.
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 4699999998765545553
Done!