Query psy4215
Match_columns 103
No_of_seqs 119 out of 1057
Neff 6.8
Searched_HMMs 46136
Date Fri Aug 16 19:46:53 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy4215.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/4215hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1865|consensus 99.8 3.2E-20 6.8E-25 149.2 9.2 70 9-78 339-410 (545)
2 cd02667 Peptidase_C19K A subfa 99.8 1.2E-19 2.6E-24 135.4 7.7 60 16-76 197-279 (279)
3 cd02663 Peptidase_C19G A subfa 99.8 1.4E-19 3E-24 136.1 7.4 59 18-76 234-300 (300)
4 cd02673 Peptidase_C19Q A subfa 99.8 1.8E-19 3.9E-24 133.6 7.6 60 17-76 180-245 (245)
5 cd02664 Peptidase_C19H A subfa 99.8 1.1E-19 2.4E-24 138.4 6.5 59 18-76 240-327 (327)
6 cd02657 Peptidase_C19A A subfa 99.8 2.8E-19 6E-24 133.8 7.2 60 17-76 237-305 (305)
7 cd02658 Peptidase_C19B A subfa 99.8 3.3E-19 7.2E-24 133.9 7.5 60 17-76 248-311 (311)
8 cd02662 Peptidase_C19F A subfa 99.8 3.7E-19 8.1E-24 130.5 7.2 59 17-76 159-240 (240)
9 cd02659 peptidase_C19C A subfa 99.8 8.7E-19 1.9E-23 132.4 7.7 63 16-79 247-333 (334)
10 cd02661 Peptidase_C19E A subfa 99.8 1.1E-18 2.4E-23 129.2 7.6 62 15-76 242-304 (304)
11 PF00443 UCH: Ubiquitin carbox 99.8 2.6E-18 5.7E-23 122.8 8.9 57 18-75 208-269 (269)
12 cd02660 Peptidase_C19D A subfa 99.8 1.8E-18 3.9E-23 130.4 7.7 61 15-76 267-328 (328)
13 cd02665 Peptidase_C19I A subfa 99.7 2.8E-18 6.1E-23 126.5 7.3 59 17-76 160-228 (228)
14 cd02674 Peptidase_C19R A subfa 99.7 5.1E-18 1.1E-22 121.8 8.4 61 15-76 168-230 (230)
15 cd02668 Peptidase_C19L A subfa 99.7 3E-18 6.6E-23 130.0 7.6 61 16-76 241-324 (324)
16 cd02669 Peptidase_C19M A subfa 99.7 3.6E-18 7.7E-23 135.3 7.8 61 16-76 378-440 (440)
17 cd02670 Peptidase_C19N A subfa 99.7 5.1E-18 1.1E-22 126.0 7.1 60 17-76 163-241 (241)
18 cd02257 Peptidase_C19 Peptidas 99.7 1.4E-17 3E-22 117.0 7.6 63 14-76 186-255 (255)
19 KOG1867|consensus 99.7 6.7E-18 1.5E-22 135.8 5.3 64 17-81 424-487 (492)
20 cd02671 Peptidase_C19O A subfa 99.7 3.9E-17 8.4E-22 125.5 7.2 56 17-76 268-332 (332)
21 COG5560 UBP12 Ubiquitin C-term 99.7 3.4E-17 7.5E-22 133.9 6.8 75 3-79 747-823 (823)
22 KOG1868|consensus 99.7 8.9E-17 1.9E-21 132.6 6.9 63 18-81 585-649 (653)
23 cd02672 Peptidase_C19P A subfa 99.7 2.7E-16 5.9E-21 118.0 7.5 54 17-76 209-268 (268)
24 KOG1870|consensus 99.6 4.1E-16 8.8E-21 131.9 4.6 60 19-79 781-842 (842)
25 cd02666 Peptidase_C19J A subfa 99.6 5.6E-15 1.2E-19 114.4 7.8 60 16-76 276-343 (343)
26 COG5533 UBP5 Ubiquitin C-termi 99.6 5.4E-15 1.2E-19 113.5 7.0 60 18-78 354-414 (415)
27 KOG1866|consensus 99.5 1.4E-15 3E-20 126.1 1.9 74 12-86 344-442 (944)
28 COG5077 Ubiquitin carboxyl-ter 99.5 2.7E-14 5.9E-19 119.0 2.8 63 18-81 428-514 (1089)
29 KOG0944|consensus 99.4 1.8E-13 3.9E-18 112.6 6.6 61 16-78 702-762 (763)
30 KOG1864|consensus 99.4 2.8E-13 6.1E-18 111.1 6.7 77 3-79 492-573 (587)
31 KOG4598|consensus 99.4 1.3E-13 2.8E-18 114.5 0.4 67 15-82 364-445 (1203)
32 KOG1873|consensus 99.3 1.2E-13 2.5E-18 114.7 -0.1 60 18-78 796-877 (877)
33 COG5207 UBP14 Isopeptidase T [ 99.2 1.3E-11 2.7E-16 100.0 5.1 59 20-78 687-749 (749)
34 KOG1872|consensus 99.2 1.5E-11 3.2E-16 98.0 4.5 62 19-80 402-471 (473)
35 PF13423 UCH_1: Ubiquitin carb 98.7 2.2E-08 4.8E-13 75.2 5.8 43 15-57 249-295 (295)
36 KOG1871|consensus 98.7 5.8E-08 1.3E-12 76.4 6.5 62 18-79 353-420 (420)
37 KOG1863|consensus 98.5 4E-08 8.8E-13 85.7 2.9 62 19-81 409-488 (1093)
38 KOG1275|consensus 97.7 8.3E-05 1.8E-09 64.1 6.6 57 19-75 789-860 (1118)
39 KOG2026|consensus 96.8 0.00011 2.4E-09 58.3 -2.6 57 19-78 383-441 (442)
40 PF15499 Peptidase_C98: Ubiqui 93.6 0.18 4E-06 38.3 5.2 36 18-56 216-252 (275)
41 PF05408 Peptidase_C28: Foot-a 91.9 0.44 9.6E-06 34.6 5.0 43 35-82 137-179 (193)
42 PF01473 CW_binding_1: Putativ 80.9 2.9 6.2E-05 18.8 2.6 14 42-55 3-16 (19)
43 PF02099 Josephin: Josephin; 64.5 16 0.00035 25.5 4.4 31 23-58 99-129 (157)
44 PF08715 Viral_protease: Papai 57.8 15 0.00033 28.7 3.6 35 26-64 264-298 (320)
45 KOG1887|consensus 47.1 13 0.00028 32.6 1.8 44 14-60 720-765 (806)
46 PF01088 Peptidase_C12: Ubiqui 41.3 31 0.00067 25.1 2.8 27 36-62 165-191 (214)
47 smart00460 TGc Transglutaminas 39.8 47 0.001 18.6 3.0 21 35-55 47-67 (68)
48 cd05860 Ig4_SCFR Fourth immuno 38.1 1.1E+02 0.0024 19.8 5.2 23 27-50 69-91 (101)
49 PF00770 Peptidase_C5: Adenovi 37.5 67 0.0014 23.2 4.0 31 24-54 21-53 (183)
50 PRK05627 bifunctional riboflav 37.4 40 0.00086 25.9 3.0 33 19-51 184-234 (305)
51 KOG1415|consensus 33.2 46 0.001 24.7 2.7 24 37-60 160-183 (222)
52 PF03292 Pox_P4B: Poxvirus P4B 32.6 45 0.00098 28.6 2.8 44 18-62 521-575 (666)
53 PF08770 SoxZ: Sulphur oxidati 31.0 77 0.0017 20.3 3.2 58 19-81 13-79 (100)
54 PF10748 DUF2531: Protein of u 30.8 1.8E+02 0.0039 19.9 6.3 59 19-83 34-105 (132)
55 KOG3646|consensus 29.0 86 0.0019 26.0 3.8 41 18-58 124-166 (486)
56 COG0093 RplN Ribosomal protein 28.5 1.8E+02 0.0038 19.8 4.6 19 45-63 72-90 (122)
57 PRK04233 hypothetical protein; 26.4 56 0.0012 22.2 2.0 13 42-54 116-128 (129)
58 PF12252 SidE: Dot/Icm substra 26.2 80 0.0017 29.1 3.3 26 30-55 56-82 (1439)
59 cd05896 Ig1_IL1RAPL-1_like Fir 26.0 44 0.00096 21.9 1.4 13 34-46 80-92 (104)
60 TIGR01067 rplN_bact ribosomal 25.2 2.1E+02 0.0045 19.2 4.6 18 46-63 73-90 (122)
61 COG3012 Uncharacterized protei 24.9 58 0.0013 22.9 1.9 12 46-57 119-130 (151)
62 PF01841 Transglut_core: Trans 23.1 1.1E+02 0.0024 18.7 2.8 20 34-53 92-112 (113)
63 COG2075 RPL24A Ribosomal prote 22.4 1.9E+02 0.0042 17.5 3.8 30 25-54 4-33 (66)
64 cd01269 PLX Pollux (PLX) Phosp 21.1 1.4E+02 0.003 20.5 3.1 27 19-45 81-107 (129)
65 PF04473 DUF553: Transglutamin 20.8 2.4E+02 0.0052 19.6 4.3 19 37-55 109-127 (153)
66 PRK05483 rplN 50S ribosomal pr 20.5 2.7E+02 0.0058 18.7 4.4 18 46-63 73-90 (122)
67 cd05751 Ig1_LILRB1_like First 20.2 80 0.0017 19.1 1.7 16 35-50 64-80 (91)
68 KOG1722|consensus 20.1 1.2E+02 0.0027 21.2 2.7 34 25-58 4-37 (155)
No 1
>KOG1865|consensus
Probab=99.82 E-value=3.2e-20 Score=149.20 Aligned_cols=70 Identities=30% Similarity=0.612 Sum_probs=65.4
Q ss_pred eeeeeCCC-CCcceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcCCeeeEeCcccccCCCcEEEEEEec
Q psy4215 9 YTYVNDTK-NKRQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78 (103)
Q Consensus 9 ~~~~~~~~-~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~ 78 (103)
=|||+.+. ....|.|+|||+|.|....+|||++|||. +|.||+|||+.|+.++.+.|.+.+||||||.|+
T Consensus 339 ~PyMS~~~e~s~~Y~LYavlVH~g~~~~~GHY~cYvks~~g~Wy~~DDS~V~~~~~~~VLsq~AYmLfY~R~ 410 (545)
T KOG1865|consen 339 QPYMSQPNEGSTVYKLYAVLVHLGTSCHSGHYFCYVKSQNGQWYKMDDSEVTQSSIESVLSQQAYILFYARK 410 (545)
T ss_pred cccccCCCCCCceEEEEEEEEeccccccCCceEEEEEcCCCceEEccCceeeeccccceecccceEEEEEee
Confidence 47888666 46889999999999988999999999999 889999999999999999999999999999997
No 2
>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=99.80 E-value=1.2e-19 Score=135.38 Aligned_cols=60 Identities=33% Similarity=0.624 Sum_probs=55.1
Q ss_pred CCCcceEEeEEEEEeeCCCCCceEEEEEEc-----------------------CCeEEEEcCCeeeEeCcccccCCCcEE
Q psy4215 16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIH-----------------------EAQWWHFDDSTVMPVDIPALKKCKPYI 72 (103)
Q Consensus 16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-----------------------~~~W~~~dD~~V~~~~~~~v~~~~aYi 72 (103)
.....|+|+|||+|.| +.++|||++|+|. ++.|++|||+.|++++.++|...+|||
T Consensus 197 ~~~~~Y~L~~vi~H~G-~~~~GHY~a~v~~~~~~~~~~~~~~~~~~~~~~~~~~~~W~~~dD~~V~~v~~~~v~~~~aYi 275 (279)
T cd02667 197 KSSVLYRLYGVVEHSG-TMRSGHYVAYVKVRPPQQRLSDLTKSKPAADEAGPGSGQWYYISDSDVREVSLEEVLKSEAYL 275 (279)
T ss_pred CCCceEEEEEEEEEeC-CCCCCEeEEEEEcCccccccccccccccccccCCCCCCcEEEEECCccEECCHHHhccCCcEE
Confidence 3467899999999999 5599999999997 479999999999999999999999999
Q ss_pred EEEE
Q psy4215 73 LFYV 76 (103)
Q Consensus 73 LfY~ 76 (103)
|||+
T Consensus 276 LfYe 279 (279)
T cd02667 276 LFYE 279 (279)
T ss_pred EEeC
Confidence 9995
No 3
>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=99.80 E-value=1.4e-19 Score=136.07 Aligned_cols=59 Identities=29% Similarity=0.552 Sum_probs=54.5
Q ss_pred CcceEEeEEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeeeEeCccccc--------CCCcEEEEEE
Q psy4215 18 KRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALK--------KCKPYILFYV 76 (103)
Q Consensus 18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~~~~~~~v~--------~~~aYiLfY~ 76 (103)
...|+|+|||+|.|.++++|||++++|.++.|++|||+.|++++.++|. ..+||||||+
T Consensus 234 ~~~Y~L~~vi~H~G~~~~~GHY~a~~k~~~~W~~fdD~~V~~~~~~~v~~~~~~~~~~~~aYiLfY~ 300 (300)
T cd02663 234 DRLYELVAVVVHIGGGPNHGHYVSIVKSHGGWLLFDDETVEKIDENAVEEFFGDSPNQATAYVLFYQ 300 (300)
T ss_pred CeEEEEEEEEEEecCCCCCCceEEEEECCCcEEEEcCCceEEcCHHHHHHhcCCCCCCCceEEEEeC
Confidence 4689999999999966899999999999999999999999999998886 5779999995
No 4
>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=99.79 E-value=1.8e-19 Score=133.60 Aligned_cols=60 Identities=20% Similarity=0.452 Sum_probs=54.7
Q ss_pred CCcceEEeEEEEEeeCCCCCceEEEEEEc---CCeEEEEcCCeeeEeCccccc---CCCcEEEEEE
Q psy4215 17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH---EAQWWHFDDSTVMPVDIPALK---KCKPYILFYV 76 (103)
Q Consensus 17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~---~~~W~~~dD~~V~~~~~~~v~---~~~aYiLfY~ 76 (103)
....|+|+|||+|.|.++++|||++|+|. +++||+|||+.|++++.++|. ..+||||||+
T Consensus 180 ~~~~Y~L~~VV~H~G~~~~~GHY~a~vk~~~~~~~Wy~fnD~~V~~v~~~~v~~~~~~~aYiLFY~ 245 (245)
T cd02673 180 TDAKYSLVAVICHLGESPYDGHYIAYTKELYNGSSWLYCSDDEIRPVSKNDVSTNARSSGYLIFYD 245 (245)
T ss_pred CCceEEEEEEEEECCCCCCCceEEEEEEcCCCCCeEEEeeCceeeEcCHHHHhhccCCceEEEEEC
Confidence 45679999999999976899999999998 579999999999999999997 5789999995
No 5
>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=99.79 E-value=1.1e-19 Score=138.44 Aligned_cols=59 Identities=32% Similarity=0.621 Sum_probs=54.1
Q ss_pred CcceEEeEEEEEeeCCCCCceEEEEEEc-C---------------------CeEEEEcCCeeeEeCcccccC-------C
Q psy4215 18 KRQFRFDNLLKASTIGVHSGHYTAYAIH-E---------------------AQWWHFDDSTVMPVDIPALKK-------C 68 (103)
Q Consensus 18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~---------------------~~W~~~dD~~V~~~~~~~v~~-------~ 68 (103)
...|+|+|||+|.|.++++|||++|+|. . +.|++|||+.|++++.++|.+ .
T Consensus 240 ~~~Y~L~~Vi~H~G~~~~~GHY~a~~r~~~~~~~~~~~~~~~~~~~~~~~~~~W~~fnD~~V~~~~~~~v~~~~~~~~~~ 319 (327)
T cd02664 240 QVHYRLYAVVVHSGYSSESGHYFTYARDQTDADSTGQECPEPKDAEENDESKNWYLFNDSRVTFSSFESVQNVTSRFPKD 319 (327)
T ss_pred CceEEEEEEEEEccCCCCCcceEEEEecCCccccccccccccccccccCCCCCEEEEeCCceEECCHHHHHHhhCCCCCC
Confidence 4689999999999976899999999997 4 789999999999999999876 7
Q ss_pred CcEEEEEE
Q psy4215 69 KPYILFYV 76 (103)
Q Consensus 69 ~aYiLfY~ 76 (103)
.||||||+
T Consensus 320 ~aYlLfY~ 327 (327)
T cd02664 320 TPYILFYE 327 (327)
T ss_pred CEEEEEeC
Confidence 89999995
No 6
>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=99.78 E-value=2.8e-19 Score=133.79 Aligned_cols=60 Identities=27% Similarity=0.495 Sum_probs=54.8
Q ss_pred CCcceEEeEEEEEeeCCCCCceEEEEEEcC--CeEEEEcCCeeeEeCcccccC-------CCcEEEEEE
Q psy4215 17 NKRQFRFDNLLKASTIGVHSGHYTAYAIHE--AQWWHFDDSTVMPVDIPALKK-------CKPYILFYV 76 (103)
Q Consensus 17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~--~~W~~~dD~~V~~~~~~~v~~-------~~aYiLfY~ 76 (103)
++.+|+|+|||+|.|.++++|||++|+|.. +.|++|||+.|+++++++|.. ..||||||+
T Consensus 237 ~~~~Y~L~~vI~H~G~~~~~GHY~~~~~~~~~~~W~~fdD~~V~~~~~~~v~~~~~~~~~~~aYiL~Y~ 305 (305)
T cd02657 237 PSGYYELVAVITHQGRSADSGHYVAWVRRKNDGKWIKFDDDKVSEVTEEDILKLSGGGDWHIAYILLYK 305 (305)
T ss_pred CCCcEEEEEEEEecCCCCCCcEEEEEEEcCCCCeEEEEECCceEEeCHHHHHhhcCCCCCceEEEEEEC
Confidence 457899999999999778999999999994 899999999999999999975 579999996
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=99.78 E-value=3.3e-19 Score=133.85 Aligned_cols=60 Identities=30% Similarity=0.517 Sum_probs=55.9
Q ss_pred CCcceEEeEEEEEeeCCCCCceEEEEEEcC----CeEEEEcCCeeeEeCcccccCCCcEEEEEE
Q psy4215 17 NKRQFRFDNLLKASTIGVHSGHYTAYAIHE----AQWWHFDDSTVMPVDIPALKKCKPYILFYV 76 (103)
Q Consensus 17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~----~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~ 76 (103)
....|+|+|||+|.|.++++|||++++|.. ++|++|||+.|++++..++...+||||||+
T Consensus 248 ~~~~Y~L~~vI~H~G~~~~~GHY~~~vk~~~~~~~~W~~fnD~~V~~~~~~~~~~~~~YilfY~ 311 (311)
T cd02658 248 GPGKYELIAFISHKGTSVHSGHYVAHIKKEIDGEGKWVLFNDEKVVASQDPPEMKKLGYIYFYQ 311 (311)
T ss_pred CCCcEEEEEEEEccCCCCCCcceEEEEeCCCCCCCCEEEecCceeEECCcccccCCcceEEEEC
Confidence 456899999999999769999999999995 899999999999999999999999999995
No 8
>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=99.78 E-value=3.7e-19 Score=130.49 Aligned_cols=59 Identities=29% Similarity=0.593 Sum_probs=54.8
Q ss_pred CCcceEEeEEEEEeeCCCCCceEEEEEEcC----------------------CeEEEEcCCeeeEeCcccc-cCCCcEEE
Q psy4215 17 NKRQFRFDNLLKASTIGVHSGHYTAYAIHE----------------------AQWWHFDDSTVMPVDIPAL-KKCKPYIL 73 (103)
Q Consensus 17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~----------------------~~W~~~dD~~V~~~~~~~v-~~~~aYiL 73 (103)
+...|+|+|||+|.| +.++|||++|+|.. +.||+|||+.|++++.++| ...+||||
T Consensus 159 ~~~~Y~L~avi~H~G-~~~~GHY~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~W~~fnD~~V~~v~~~~v~~~~~aY~L 237 (240)
T cd02662 159 PKVLYRLRAVVVHYG-SHSSGHYVCYRRKPLFSKDKEPGSFVRMREGPSSTSHPWWRISDTTVKEVSESEVLEQKSAYML 237 (240)
T ss_pred CCceEEEEEEEEEec-cCCCceEEEEEeCCCcccccccccccccccccCccCCCEEEEechheEEeCHHHHhhCCCEEEE
Confidence 567899999999999 56999999999985 8999999999999999999 89999999
Q ss_pred EEE
Q psy4215 74 FYV 76 (103)
Q Consensus 74 fY~ 76 (103)
||+
T Consensus 238 fYe 240 (240)
T cd02662 238 FYE 240 (240)
T ss_pred EeC
Confidence 995
No 9
>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=99.77 E-value=8.7e-19 Score=132.36 Aligned_cols=63 Identities=29% Similarity=0.663 Sum_probs=55.9
Q ss_pred CCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCccccc----------------------CCCcE
Q psy4215 16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALK----------------------KCKPY 71 (103)
Q Consensus 16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~----------------------~~~aY 71 (103)
.....|+|+|||+|.| +.++|||++++|. ++.|++|||+.|++++.++|. ...||
T Consensus 247 ~~~~~Y~L~~vI~H~G-~~~~GHY~~~vk~~~~~~W~~~nD~~V~~i~~~~v~~~~~g~~~~~~~~~~~~~~~~~~~~ay 325 (334)
T cd02659 247 SESYIYELHGVLVHSG-DAHGGHYYSYIKDRDDGKWYKFNDDVVTPFDPNDAEEECFGGEETQKTYDSGPRAFKRTTNAY 325 (334)
T ss_pred CCCeeEEEEEEEEecC-CCCCCCeEEEEECCCCCceEEEeCcccEECCHHHHHHHcCCCccccccccccccccccccceE
Confidence 3457899999999999 7899999999998 589999999999999988884 34599
Q ss_pred EEEEEecC
Q psy4215 72 ILFYVRRV 79 (103)
Q Consensus 72 iLfY~r~~ 79 (103)
||||+|++
T Consensus 326 ~l~Y~~~~ 333 (334)
T cd02659 326 MLFYERKS 333 (334)
T ss_pred EEEEEEeC
Confidence 99999975
No 10
>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=99.77 E-value=1.1e-18 Score=129.24 Aligned_cols=62 Identities=35% Similarity=0.707 Sum_probs=57.2
Q ss_pred CCCCcceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcCCeeeEeCcccccCCCcEEEEEE
Q psy4215 15 TKNKRQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDDSTVMPVDIPALKKCKPYILFYV 76 (103)
Q Consensus 15 ~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~ 76 (103)
.....+|+|+|||+|.|..+++|||++++|. ++.|++|||..|++++.+++...+||||||.
T Consensus 242 ~~~~~~Y~L~~vi~H~G~~~~~GHY~~~~~~~~~~W~~~nD~~V~~v~~~~v~~~~aYil~Y~ 304 (304)
T cd02661 242 NDGPLKYKLYAVLVHSGFSPHSGHYYCYVKSSNGKWYNMDDSKVSPVSIETVLSQKAYILFYI 304 (304)
T ss_pred CCCCceeeEEEEEEECCCCCCCcCCEEEEECCCCCEEEEeCCeeEECCHHHhcCCCcEEEEeC
Confidence 4456789999999999966699999999998 8899999999999999999999999999994
No 11
>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=99.76 E-value=2.6e-18 Score=122.83 Aligned_cols=57 Identities=33% Similarity=0.693 Sum_probs=53.5
Q ss_pred CcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccC---CCcEEEEE
Q psy4215 18 KRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKK---CKPYILFY 75 (103)
Q Consensus 18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~---~~aYiLfY 75 (103)
...|+|+|||+|.| +.++|||++++|+ +++|++|||+.|++++.++|.. ..||||||
T Consensus 208 ~~~Y~L~avi~H~G-~~~~GHY~a~v~~~~~~~W~~~dD~~v~~~~~~~v~~~~~~~~yll~Y 269 (269)
T PF00443_consen 208 NVKYRLVAVIVHYG-SADSGHYVAYVRDSDDGKWYKFDDSRVTEVSWEEVIKSSNSTAYLLFY 269 (269)
T ss_dssp SSEEEEEEEEEEES-STTSEEEEEEEEETTTTEEEEEETTEEEEESHHHHCCGGSTCEEEEEE
T ss_pred cceeeehhhhcccc-ccccceEEEeeccccCCeEEEeeCCceEECCHHHHhhccCCceEEEeC
Confidence 47999999999999 8999999999988 4579999999999999999988 89999999
No 12
>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=99.76 E-value=1.8e-18 Score=130.35 Aligned_cols=61 Identities=28% Similarity=0.600 Sum_probs=56.3
Q ss_pred CCCCcceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcCCeeeEeCcccccCCCcEEEEEE
Q psy4215 15 TKNKRQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDDSTVMPVDIPALKKCKPYILFYV 76 (103)
Q Consensus 15 ~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~ 76 (103)
.....+|+|+|||+|.| +.++|||++++|. +++|++|||+.|++++.+++...+||||||.
T Consensus 267 ~~~~~~Y~L~avi~H~G-~~~~GHY~~~~~~~~~~W~~~nD~~V~~~~~~~v~~~~ayil~Y~ 328 (328)
T cd02660 267 LDPDYTYDLFAVVVHKG-TLDTGHYTAYCRQGDGQWFKFDDAMITRVSEEEVLKSQAYLLFYH 328 (328)
T ss_pred CCCCceEEEEEEEEeec-cCCCCcEEEEEECCCCcEEEEECCeeEECCHHHhcCCCcEEEEeC
Confidence 34467899999999999 6889999999999 4999999999999999999999999999994
No 13
>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=99.75 E-value=2.8e-18 Score=126.49 Aligned_cols=59 Identities=20% Similarity=0.494 Sum_probs=52.7
Q ss_pred CCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCC--------CcEEEEEE
Q psy4215 17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKC--------KPYILFYV 76 (103)
Q Consensus 17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~--------~aYiLfY~ 76 (103)
....|+|+|||+|.| ++++|||++|+|. ++.|++|||+.|++++.++|... +||||||.
T Consensus 160 ~~~~Y~L~aVi~H~G-~~~~GHY~~~i~~~~~~~W~~fdD~~V~~~~~~~v~~~~fGg~~~~~AYiLfYv 228 (228)
T cd02665 160 QQVPYELHAVLVHEG-QANAGHYWAYIYKQSRQEWEKYNDISVTESSWEEVERDSFGGGRNPSAYCLMYI 228 (228)
T ss_pred CCceeEEEEEEEecC-CCCCCEEEEEEEcCCCCEEEEEECCeeEEcCHHHHhhhccCCCCCCceEEEEEC
Confidence 346899999999999 6899999999986 78999999999999999888643 69999994
No 14
>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=99.75 E-value=5.1e-18 Score=121.81 Aligned_cols=61 Identities=30% Similarity=0.589 Sum_probs=55.5
Q ss_pred CCCCcceEEeEEEEEeeCCCCCceEEEEEEcC--CeEEEEcCCeeeEeCcccccCCCcEEEEEE
Q psy4215 15 TKNKRQFRFDNLLKASTIGVHSGHYTAYAIHE--AQWWHFDDSTVMPVDIPALKKCKPYILFYV 76 (103)
Q Consensus 15 ~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~--~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~ 76 (103)
.....+|+|+|||+|.|. .++|||++++|.. +.|++|||+.|.+++.+++...+||||||+
T Consensus 168 ~~~~~~Y~L~~vI~H~G~-~~~GHY~~~~~~~~~~~W~~fnD~~V~~i~~~~~~~~~~YlL~Y~ 230 (230)
T cd02674 168 FTGPFKYDLYAVVNHYGS-LNGGHYTAYCKNNETNDWYKFDDSRVTKVSESSVVSSSAYILFYE 230 (230)
T ss_pred CCCCceEEEEEEEEeeCC-CCCcEEEEEEECCCCCceEEEcCCeEEEcCHHHccCCCceEEEeC
Confidence 345678999999999994 5999999999993 899999999999999999989999999995
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=99.75 E-value=3e-18 Score=130.01 Aligned_cols=61 Identities=23% Similarity=0.465 Sum_probs=52.9
Q ss_pred CCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccc---------------------cCCCcEE
Q psy4215 16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPAL---------------------KKCKPYI 72 (103)
Q Consensus 16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v---------------------~~~~aYi 72 (103)
.++..|+|+|||+|.|.++++|||++++|. ++.|++|||+.|++++.+.+ .+..|||
T Consensus 241 ~~~~~Y~L~~vI~H~G~~~~~GHY~~~~k~~~~~~W~~fdD~~V~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~y~ 320 (324)
T cd02668 241 EGSYVYELSGVLIHQGVSAYSGHYIAHIKDEQTGEWYKFNDEDVEEMPGKPLKLGNSEDPAKPRKSEIKKGTHSSRTAYM 320 (324)
T ss_pred CCCcEEEEEEEEEEcCCCCCCEeeEEEEECCCCCcEEEEECCceEEcCHHHhhcccccccccccccccCCCccccCceEE
Confidence 346789999999999977899999999998 58999999999999987765 2445999
Q ss_pred EEEE
Q psy4215 73 LFYV 76 (103)
Q Consensus 73 LfY~ 76 (103)
|||+
T Consensus 321 l~y~ 324 (324)
T cd02668 321 LVYK 324 (324)
T ss_pred EEeC
Confidence 9995
No 16
>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=99.74 E-value=3.6e-18 Score=135.29 Aligned_cols=61 Identities=13% Similarity=0.230 Sum_probs=56.0
Q ss_pred CCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEE
Q psy4215 16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYV 76 (103)
Q Consensus 16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~ 76 (103)
.....|+|+|||+|.|..+++|||++++|+ +++||+|||+.|++++++.|...+||||||+
T Consensus 378 ~~~~~Y~L~avI~H~G~~~~sGHY~a~v~~~~~~~W~~fdD~~V~~v~~~~v~~~eaYll~Y~ 440 (440)
T cd02669 378 NLSTKYNLVANIVHEGTPQEDGTWRVQLRHKSTNKWFEIQDLNVKEVLPQLIFLSESYIQIWE 440 (440)
T ss_pred CCCceEEEEEEEEEeccCCCCeeEEEEEEcCCCCeEEEEECCeeeEcCHHHhccCCceEEEeC
Confidence 456789999999999943499999999997 7899999999999999999999999999995
No 17
>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=99.74 E-value=5.1e-18 Score=126.02 Aligned_cols=60 Identities=28% Similarity=0.413 Sum_probs=51.2
Q ss_pred CCcceEEeEEEEEeeCCCCCceEEEEEEc-C------------CeEEEEcCCeeeEeCc------ccccCCCcEEEEEE
Q psy4215 17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH-E------------AQWWHFDDSTVMPVDI------PALKKCKPYILFYV 76 (103)
Q Consensus 17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~------------~~W~~~dD~~V~~~~~------~~v~~~~aYiLfY~ 76 (103)
...+|+|+|||+|.|.++++|||+||+|. . +.|++|||..|+.+.. +.+.+.+||||||+
T Consensus 163 ~~~~Y~L~aVi~H~G~s~~sGHYva~vr~~~~~~~~~~~~~~~~~W~~FDD~~v~~~~~~~~~~~~~~~~~~aYmLFYq 241 (241)
T cd02670 163 GKFKLSLCSAVCHRGTSLETGHYVAFVRYGSYSLTETDNEAYNAQWVFFDDMADRDGVSNGFNIPAARLLEDPYMLFYQ 241 (241)
T ss_pred CCeEEEEEEEEEeCCCCCCCcCeEEEEECCcccccccccCCCCCeEEEecCcccccccccccccchhcccCCceEEEeC
Confidence 34689999999999977899999999998 3 6999999998877643 25678889999996
No 18
>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=99.72 E-value=1.4e-17 Score=117.02 Aligned_cols=63 Identities=27% Similarity=0.564 Sum_probs=56.0
Q ss_pred CCCCCcceEEeEEEEEeeCCCCCceEEEEEEcC--CeEEEEcCCeeeEeCcccc-----cCCCcEEEEEE
Q psy4215 14 DTKNKRQFRFDNLLKASTIGVHSGHYTAYAIHE--AQWWHFDDSTVMPVDIPAL-----KKCKPYILFYV 76 (103)
Q Consensus 14 ~~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~--~~W~~~dD~~V~~~~~~~v-----~~~~aYiLfY~ 76 (103)
.......|+|+|||+|.|.+..+|||++++|.. +.|++|||..|++++.+++ ....||+|||+
T Consensus 186 ~~~~~~~Y~L~~vi~h~G~~~~~GHY~~~~~~~~~~~W~~~nD~~V~~v~~~~~~~~~~~~~~~yll~Y~ 255 (255)
T cd02257 186 SDNGSYKYELVAVVVHSGTSADSGHYVAYVKDPSDGKWYKFNDDKVTEVSEEEVLEFGSLSSSAYILFYE 255 (255)
T ss_pred ccCCCccEEEEEEEEEecCCCCCcCeEEEEeCCCCCceEEEeccccEEcCHHHhhhccCCCCceEEEEEC
Confidence 334567899999999999666999999999993 8999999999999999998 57789999995
No 19
>KOG1867|consensus
Probab=99.71 E-value=6.7e-18 Score=135.85 Aligned_cols=64 Identities=30% Similarity=0.546 Sum_probs=59.9
Q ss_pred CCcceEEeEEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeeeEeCcccccCCCcEEEEEEecCCc
Q psy4215 17 NKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPE 81 (103)
Q Consensus 17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~~~ 81 (103)
++..|+|.|||+|+| ..++|||+||+|..+.|++|||+.|..++.++|.+..||+|||.++...
T Consensus 424 ~~~~Y~L~AVV~H~G-~~~SGHY~aY~r~~~~~~~~dDs~v~~~s~~eVl~~~aylLFY~~~~~~ 487 (492)
T KOG1867|consen 424 PDHLYELRAVVVHHG-TVGSGHYVAYRRQSGGWFKCDDSTVTKVSEEEVLSSQAYLLFYTQEQVE 487 (492)
T ss_pred CCceEEEEEEEEecc-CCCCCceEEEEEeCCCcEEEcCeEEEEeeHHHhhhchhhheehhHHhhh
Confidence 468899999999999 5999999999999999999999999999999999999999999887644
No 20
>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=99.70 E-value=3.9e-17 Score=125.54 Aligned_cols=56 Identities=36% Similarity=0.644 Sum_probs=49.5
Q ss_pred CCcceEEeEEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeeeEeCccccc---------CCCcEEEEEE
Q psy4215 17 NKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALK---------KCKPYILFYV 76 (103)
Q Consensus 17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~~~~~~~v~---------~~~aYiLfY~ 76 (103)
....|+|+|||+|.|.++++|||++|+| |++|||+.|+.++++++. ..+||||||+
T Consensus 268 ~~~~Y~L~~VI~H~G~~~~~GHY~a~vr----W~~fdD~~V~~~~~~~~~~~~~~~~~~~~~aYiLfY~ 332 (332)
T cd02671 268 KNDVYRLFAVVMHSGATISSGHYTAYVR----WLLFDDSEVKVTEEKDFLEALSPNTSSTSTPYLLFYK 332 (332)
T ss_pred CCCeEEEEEEEEEcCCCCCCCeEEEEEE----EEEEcCcceEEccHHHHHhhcCCCCCCCCceEEEEEC
Confidence 4578999999999997689999999999 999999999999876664 3579999995
No 21
>COG5560 UBP12 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.69 E-value=3.4e-17 Score=133.89 Aligned_cols=75 Identities=32% Similarity=0.540 Sum_probs=66.9
Q ss_pred CCCCceeeeeeCCCCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEEecC
Q psy4215 3 DGDKRRYTYVNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRV 79 (103)
Q Consensus 3 ~~~~~~~~~~~~~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~ 79 (103)
|.|..+|.++-.+.. ..|+|+||=+|.| ...+|||+||+|+ +++||+|||+.|+++++++.....||+|||+|+.
T Consensus 747 dldLs~~~~~~~~p~-liydlyavDNHyg-glsgGHYtAyarn~~n~~wy~fdDsritevdped~vtssaYvLFyrrk~ 823 (823)
T COG5560 747 DLDLSGVEYMVDDPR-LIYDLYAVDNHYG-GLSGGHYTAYARNFANNGWYLFDDSRITEVDPEDSVTSSAYVLFYRRKS 823 (823)
T ss_pred cccccceEEeecCcc-eEEEeeecccccc-ccCCcceeeeeecccCCceEEecCccccccCccccccceeEEEEEEecC
Confidence 566777777664333 8999999999999 8999999999999 8899999999999999999999999999999974
No 22
>KOG1868|consensus
Probab=99.67 E-value=8.9e-17 Score=132.61 Aligned_cols=63 Identities=35% Similarity=0.658 Sum_probs=58.2
Q ss_pred CcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEEecCCc
Q psy4215 18 KRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPE 81 (103)
Q Consensus 18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~~~ 81 (103)
...|+|+|||+|.| +.++|||||+|+. .+.|++|||+.|+.++...+....||||||.|....
T Consensus 585 ~~~Y~L~aVv~H~G-tl~sGHYta~~~~~~~~~W~~fdDs~Vs~~~~~~~~~s~aYIlFY~~~~~~ 649 (653)
T KOG1868|consen 585 PKSYRLYAVVNHSG-TLNSGHYTAYVYKNEKQRWFTFDDSEVSPISETDVGSSSAYILFYERLGIF 649 (653)
T ss_pred ccceeeEEEEeccC-cccCCceEEEEeecCCCceEEecCeeeeccccccccCCCceEEEeecCCcc
Confidence 34599999999999 9999999999977 688999999999999999999899999999998765
No 23
>cd02672 Peptidase_C19P A subfamily of Peptidase C19. Peptidase C19 contains ubiquitinyl hydrolases. They are intracellular peptidases that remove ubiquitin molecules from polyubiquinated peptides by cleavage of isopeptide bonds. They hydrolyze bonds involving the carboxyl group of the C-terminal Gly residue of ubiquitin. The purpose of the de-ubiquitination is thought to be editing of the ubiquitin conjugates, which could rescue them from degradation, as well as recycling of the ubiquitin. The ubiquitin/proteasome system is responsible for most protein turnover in the mammalian cell, and with over 50 members, family C19 is one of the largest families of peptidases in the human genome.
Probab=99.66 E-value=2.7e-16 Score=117.96 Aligned_cols=54 Identities=22% Similarity=0.457 Sum_probs=48.7
Q ss_pred CCcceEEeEEEEEeeCCCCCceEEEEEEc------CCeEEEEcCCeeeEeCcccccCCCcEEEEEE
Q psy4215 17 NKRQFRFDNLLKASTIGVHSGHYTAYAIH------EAQWWHFDDSTVMPVDIPALKKCKPYILFYV 76 (103)
Q Consensus 17 ~~~~Y~L~avv~H~G~~~~~GHY~~~~~~------~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~ 76 (103)
+...|+|+|||+|.|.+.++|||++++|. .++||.|||..|+++++ .||||||+
T Consensus 209 ~~~~Y~L~gvV~hig~~~~~GHyva~vk~~~~~~~~~~WylFND~~V~~vs~------~aYiLfY~ 268 (268)
T cd02672 209 SIYKYELVGYVCEINDSSRGQHNVVFVIKVNEESTHGRWYLFNDFLVTPVSE------LAYILLYQ 268 (268)
T ss_pred CCceEEEEEEEEEecCCCCCCcEEEEEEccCCCCCCCcEEEecCeEEEEcCc------hheeeecC
Confidence 44679999999999965689999999998 47899999999999888 99999995
No 24
>KOG1870|consensus
Probab=99.61 E-value=4.1e-16 Score=131.93 Aligned_cols=60 Identities=33% Similarity=0.584 Sum_probs=57.8
Q ss_pred cceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEEecC
Q psy4215 19 RQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRV 79 (103)
Q Consensus 19 ~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~ 79 (103)
..|+|+||++|.| .+.+|||+||+|+ +++|+.|||+.|.+++++++.+..||+|||+|++
T Consensus 781 ~~Y~l~av~nHyG-~l~~GHYta~~k~~~~~~w~~fdDs~v~~~~~~~i~t~~aY~Lfy~r~~ 842 (842)
T KOG1870|consen 781 VLYDLYAVGNHYG-QLSGGHYTAYAKNVGDGKWYLFDDSSVSEVDEDEIDTEAAYVLFYRRLD 842 (842)
T ss_pred ceeeeeeeecccC-CcCCcchhhhhhcCCCCceEEeccccCCCCChhhcccccceEEEEEecC
Confidence 8999999999999 6999999999999 8899999999999999999999999999999974
No 25
>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=99.58 E-value=5.6e-15 Score=114.35 Aligned_cols=60 Identities=28% Similarity=0.509 Sum_probs=53.5
Q ss_pred CCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCC------CcEEEEEE
Q psy4215 16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKC------KPYILFYV 76 (103)
Q Consensus 16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~------~aYiLfY~ 76 (103)
.....|+|+|||+|.| +.++|||++++|. ++.|++|||+.|++++.+++... +||||+|+
T Consensus 276 ~~~~~Y~L~avv~H~G-~~~~GHY~~~~~~~~~~~W~~~dD~~V~~v~~~ev~~~~~~~~~~pY~l~Yv 343 (343)
T cd02666 276 LKSYGYRLHAVFIHRG-EASSGHYWVYIKDFEENVWRKYNDETVTVVPASEVFLFTLGNTATPYFLVYV 343 (343)
T ss_pred cCCCceEEEEEEEeec-CCCCCeEEEEEEECCCCeEEEEECCeeEEecHHHHhhcccCCCCCCEEEEeC
Confidence 3467899999999999 6799999999998 68999999999999999888753 69999995
No 26
>COG5533 UBP5 Ubiquitin C-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.57 E-value=5.4e-15 Score=113.48 Aligned_cols=60 Identities=25% Similarity=0.435 Sum_probs=53.4
Q ss_pred CcceEEeEEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeeeEeCc-ccccCCCcEEEEEEec
Q psy4215 18 KRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDI-PALKKCKPYILFYVRR 78 (103)
Q Consensus 18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~~~~~-~~v~~~~aYiLfY~r~ 78 (103)
+.+|+|.|||||.| ++++|||+++|+.++.|+.|||+.|+++.- .+....++|||||+|.
T Consensus 354 P~~Y~L~gv~Ch~G-~L~gGHY~s~v~~~~~W~~~dDs~vr~~~~~t~~~~pSsYilFY~r~ 414 (415)
T COG5533 354 PRKYSLLGVVCHNG-TLNGGHYFSEVKRSGTWNVYDDSQVRKGSRTTSGSHPSSYILFYTRS 414 (415)
T ss_pred ccceeEEEEEeecc-eecCceeEEeeeecCceEEechhheeeccceecccCCcceEEEEEec
Confidence 47899999999999 899999999999999999999999999874 3344568999999985
No 27
>KOG1866|consensus
Probab=99.55 E-value=1.4e-15 Score=126.09 Aligned_cols=74 Identities=20% Similarity=0.463 Sum_probs=60.8
Q ss_pred eeCCCCCcceEEeEEEEEeeCCCCCceEEEEEEc-----CCeEEEEcCCeeeEeCcccccCC------------------
Q psy4215 12 VNDTKNKRQFRFDNLLKASTIGVHSGHYTAYAIH-----EAQWWHFDDSTVMPVDIPALKKC------------------ 68 (103)
Q Consensus 12 ~~~~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~-----~~~W~~~dD~~V~~~~~~~v~~~------------------ 68 (103)
...+....+|+|+||++|+| .+.+|||++|++. +++||+|||..|++++-.++...
T Consensus 344 ~e~s~~t~~YeLvGVlvHSG-qAsaGHYySfIk~rr~~~~~kWykfnD~~Vte~~~n~me~~cfGGey~q~~~~~~~rrR 422 (944)
T KOG1866|consen 344 LEQSAGTTKYELVGVLVHSG-QASAGHYYSFIKQRRGEDGNKWYKFNDGDVTECKMNEMENECFGGEYMQMMKRMSYRRR 422 (944)
T ss_pred cccccCcceeEEEEEEEecc-cccCcchhhhhhhhccCCCCceEeccCccccccchhhHHHHhhcchhhhcccccchHHH
Confidence 34445567999999999999 7999999999976 67999999999999987765432
Q ss_pred --CcEEEEEEecCCcccccc
Q psy4215 69 --KPYILFYVRRVPEVTKKL 86 (103)
Q Consensus 69 --~aYiLfY~r~~~~~~~~~ 86 (103)
+||||||+|.+..+....
T Consensus 423 ~WNAYmlFYer~~d~p~~~~ 442 (944)
T KOG1866|consen 423 WWNAYMLFYERMDDIPTDDE 442 (944)
T ss_pred hhhhHHHHHHHhcCCCcccc
Confidence 299999999987765443
No 28
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.46 E-value=2.7e-14 Score=119.00 Aligned_cols=63 Identities=25% Similarity=0.500 Sum_probs=57.4
Q ss_pred CcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCC----------------------cEEE
Q psy4215 18 KRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCK----------------------PYIL 73 (103)
Q Consensus 18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~----------------------aYiL 73 (103)
+..|.|+||++|.| .++.|||+|++|. +|.||+|||+.|+++...+|...+ ||||
T Consensus 428 d~vY~LygVlVHsG-Dl~~GHyYallKpe~dg~WykfdDtrVtrat~kevleeNfGgd~~~~~k~r~~~~~kRfmsAYmL 506 (1089)
T COG5077 428 DAVYVLYGVLVHSG-DLHEGHYYALLKPEKDGRWYKFDDTRVTRATEKEVLEENFGGDHPYKDKIRDHSGIKRFMSAYML 506 (1089)
T ss_pred CcEEEEEEEEEecc-ccCCceEEEEeccccCCCceeecceehhhHHHHHHHHHhcCCCCCCcccccCCchhhhhhhhhee
Confidence 47899999999999 8999999999995 999999999999999988887554 8999
Q ss_pred EEEecCCc
Q psy4215 74 FYVRRVPE 81 (103)
Q Consensus 74 fY~r~~~~ 81 (103)
+|.|++..
T Consensus 507 vYlRks~~ 514 (1089)
T COG5077 507 VYLRKSML 514 (1089)
T ss_pred eeehHhHH
Confidence 99999875
No 29
>KOG0944|consensus
Probab=99.44 E-value=1.8e-13 Score=112.58 Aligned_cols=61 Identities=23% Similarity=0.409 Sum_probs=53.8
Q ss_pred CCCcceEEeEEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeeeEeCcccccCCCcEEEEEEec
Q psy4215 16 KNKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78 (103)
Q Consensus 16 ~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~ 78 (103)
.++.+|.|+|+|+|.|.++++|||++++|+.|+|+.|||++|- ..++--+..+||.||+|.
T Consensus 702 dg~~~Y~L~a~IsHmGts~~sGHYV~hirKegkWVlfNDeKv~--~S~~ppK~lgYvY~y~R~ 762 (763)
T KOG0944|consen 702 DGPGKYALFAFISHMGTSAHSGHYVCHIRKEGKWVLFNDEKVA--ASQEPPKDLGYVYLYTRI 762 (763)
T ss_pred CCCcceeEEEEEecCCCCCCCcceEEEEeecCcEEEEcchhhh--hccCChhhcceEEEEEec
Confidence 4467899999999999999999999999999999999999987 344455678999999995
No 30
>KOG1864|consensus
Probab=99.42 E-value=2.8e-13 Score=111.11 Aligned_cols=77 Identities=25% Similarity=0.385 Sum_probs=61.8
Q ss_pred CCCCceeeeeeCCCCC-cceEEeEEEEEeeCCCCCceEEEEEEcCCe-EEEEcCCeeeEeCcccccCC---CcEEEEEEe
Q psy4215 3 DGDKRRYTYVNDTKNK-RQFRFDNLLKASTIGVHSGHYTAYAIHEAQ-WWHFDDSTVMPVDIPALKKC---KPYILFYVR 77 (103)
Q Consensus 3 ~~~~~~~~~~~~~~~~-~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~-W~~~dD~~V~~~~~~~v~~~---~aYiLfY~r 77 (103)
.++.+.+....+...+ ..|+|+|||+|.|.+++.|||+|++|..+. |+.|||+.|..++.+.|... +.|+++|..
T Consensus 492 plel~l~~~~~~~~~~~~~Y~L~avVvH~G~~p~~GHYia~~r~~~~nWl~fdD~~V~~~s~~~v~~~~~~s~~~~~~~~ 571 (587)
T KOG1864|consen 492 PLELRLKDTLKDDNNPDRKYDLVAVVVHLGSTPNRGHYVAYVKSLDFNWLLFDDDNVEPISEEPVSEFTGSSGDTLFYYV 571 (587)
T ss_pred ccceeeccccccccCccceeeEEEEEEeccCCCCCcceEEEEeeCCCCceecccccccccCcchhhhccCCCccceeeeE
Confidence 3455566666666654 789999999999999999999999999554 99999999999998888644 477777765
Q ss_pred cC
Q psy4215 78 RV 79 (103)
Q Consensus 78 ~~ 79 (103)
..
T Consensus 572 ~~ 573 (587)
T KOG1864|consen 572 QV 573 (587)
T ss_pred Ee
Confidence 44
No 31
>KOG4598|consensus
Probab=99.35 E-value=1.3e-13 Score=114.47 Aligned_cols=67 Identities=25% Similarity=0.492 Sum_probs=59.0
Q ss_pred CCCCcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCC-------------CcEEEEEEecC
Q psy4215 15 TKNKRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKC-------------KPYILFYVRRV 79 (103)
Q Consensus 15 ~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~-------------~aYiLfY~r~~ 79 (103)
..++..|+|++|.+|+| ++.+|||++|+|+ ++.||.|||.+|..+.+.+++.. +||||+|+|.+
T Consensus 364 ~sg~~~yelf~imihsg-~a~gghy~ayik~~d~~~w~~fnd~~v~~~t~~~i~~sfgg~~~~~~~s~tnaymlmyr~id 442 (1203)
T KOG4598|consen 364 TSGDNVYELFSVMVHSG-NAAGGHYFAYIKNLDQDRWYVFNDTRVDFATPLEIEKSFGGHPSGWNQSNTNAYMLMYRRID 442 (1203)
T ss_pred cCCccHHHhhhhheecC-CCCCceeeeeecccCcCceEEecCccccccCHHHHHHhhCCCCCCccccCcchhhhhhhhcC
Confidence 34567899999999999 8999999999999 88999999999999998888633 49999999988
Q ss_pred Ccc
Q psy4215 80 PEV 82 (103)
Q Consensus 80 ~~~ 82 (103)
...
T Consensus 443 ~kr 445 (1203)
T KOG4598|consen 443 PKR 445 (1203)
T ss_pred ccc
Confidence 754
No 32
>KOG1873|consensus
Probab=99.35 E-value=1.2e-13 Score=114.74 Aligned_cols=60 Identities=30% Similarity=0.585 Sum_probs=55.6
Q ss_pred CcceEEeEEEEEeeCCCCCceEEEEEEc----------------------CCeEEEEcCCeeeEeCcccccCCCcEEEEE
Q psy4215 18 KRQFRFDNLLKASTIGVHSGHYTAYAIH----------------------EAQWWHFDDSTVMPVDIPALKKCKPYILFY 75 (103)
Q Consensus 18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~----------------------~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY 75 (103)
...|+|.|+|.|.| ++..|||++|++. .+.||+.-|+.|++++.++|...+||||||
T Consensus 796 s~~Yrl~gvvehsg-tm~~ghyvayv~~~t~~~~~~~~~~~~~~sd~~~~~~~Wy~iSDs~VrevS~d~vLkseAYlLFY 874 (877)
T KOG1873|consen 796 SFVYRLAGVVEHSG-TMSYGHYVAYVRGGTFLDLSAPSNSKDFESDAGIPSGRWYYISDSIVREVSLDEVLKSEAYLLFY 874 (877)
T ss_pred hhhhhhccceeccc-cccCCcchhhhhccchhhccCccccccchhccCCCCcceEEecchheecccHHHHhhhhhhhhhe
Confidence 45899999999999 8999999999974 258999999999999999999999999999
Q ss_pred Eec
Q psy4215 76 VRR 78 (103)
Q Consensus 76 ~r~ 78 (103)
+|.
T Consensus 875 ERI 877 (877)
T KOG1873|consen 875 ERI 877 (877)
T ss_pred ecC
Confidence 984
No 33
>COG5207 UBP14 Isopeptidase T [Posttranslational modification, protein turnover, chaperones]
Probab=99.22 E-value=1.3e-11 Score=99.99 Aligned_cols=59 Identities=17% Similarity=0.326 Sum_probs=54.3
Q ss_pred ceEEeEEEEEeeCCCCCceEEEEEEc----CCeEEEEcCCeeeEeCcccccCCCcEEEEEEec
Q psy4215 20 QFRFDNLLKASTIGVHSGHYTAYAIH----EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78 (103)
Q Consensus 20 ~Y~L~avv~H~G~~~~~GHY~~~~~~----~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~ 78 (103)
-|.|.|||+|.|.++++|||++|+|+ .-+|..|||+++-.++.-++.+.+.||.||+|.
T Consensus 687 PYaLtAvI~HkG~s~haGHYv~fIrk~~~~K~kWvl~nDek~v~~~svE~~k~nGYiylf~R~ 749 (749)
T COG5207 687 PYALTAVICHKGDSIHAGHYVWFIRKNGKDKWKWVLKNDEKTVLNSSVEVLKDNGYIYLFKRC 749 (749)
T ss_pred cccceeEEeccCCcccccceEEEEecccCcceeEEEEccchheehhhHHHHhhCCeEEEEecC
Confidence 39999999999999999999999998 338999999999999988899999999999983
No 34
>KOG1872|consensus
Probab=99.20 E-value=1.5e-11 Score=98.00 Aligned_cols=62 Identities=29% Similarity=0.460 Sum_probs=55.9
Q ss_pred cceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcCCeeeEeCcccccCCC-------cEEEEEEecCC
Q psy4215 19 RQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDDSTVMPVDIPALKKCK-------PYILFYVRRVP 80 (103)
Q Consensus 19 ~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD~~V~~~~~~~v~~~~-------aYiLfY~r~~~ 80 (103)
..|+|+|||.|.|.+..+|||.+++|. .+.|++|||+.|+.+..+.+.+.+ ||||+|.-+..
T Consensus 402 g~y~l~~vithkgrss~sghy~aw~r~s~~~w~~fdd~~vs~v~~e~i~~lsgggd~~~ayvllyk~~~l 471 (473)
T KOG1872|consen 402 GLYDLQLVITHKGRSSKSGHYVAWNRVSEDKWGHFDDDMVSFVLGETILSLSGGGDWHSAYVLLYKARVL 471 (473)
T ss_pred ceeeeeEeeeccccccCCCcceEEEeccCCceeeccccccccccccceeeecCCCccchhhheeeccccc
Confidence 569999999999999999999999999 789999999999999988887554 99999986543
No 35
>PF13423 UCH_1: Ubiquitin carboxyl-terminal hydrolase
Probab=98.73 E-value=2.2e-08 Score=75.24 Aligned_cols=43 Identities=19% Similarity=0.366 Sum_probs=37.4
Q ss_pred CCCCcceEEeEEEEEeeCCCCCceEEEEEEcC----CeEEEEcCCee
Q psy4215 15 TKNKRQFRFDNLLKASTIGVHSGHYTAYAIHE----AQWWHFDDSTV 57 (103)
Q Consensus 15 ~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~----~~W~~~dD~~V 57 (103)
..+..+|+|.|+|+|.|.+.++|||++++|.. .+||.|||-.|
T Consensus 249 ~~~~~~Y~L~~~V~~i~~~~~~~HlVs~vrv~~~~~~~W~lFNDflV 295 (295)
T PF13423_consen 249 ESGIFKYELRSMVCHIGDSIESGHLVSLVRVGPSDDSQWYLFNDFLV 295 (295)
T ss_pred CCCceEEEEEEEEEEecCCCCCCceEEEEEcCCCCCCcEEEECcEeC
Confidence 44557899999999999888999999999983 69999999654
No 36
>KOG1871|consensus
Probab=98.66 E-value=5.8e-08 Score=76.43 Aligned_cols=62 Identities=21% Similarity=0.463 Sum_probs=55.1
Q ss_pred CcceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCC----cEEEEEEecC
Q psy4215 18 KRQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCK----PYILFYVRRV 79 (103)
Q Consensus 18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~----aYiLfY~r~~ 79 (103)
...|+|.+++.|.|.++..|||+..+.+ -+.|+.+||..|..+..++|.... +|+|.|++.+
T Consensus 353 ~~~yks~~vvyhtgtsatvghYl~dv~~s~~~gw~rIDD~~i~~v~q~dv~~~t~~r~~yllyY~~~d 420 (420)
T KOG1871|consen 353 TRPYKSLAVVYHTGTSATVGHYLEDVSRSVPSGWQRIDDALILFVAQEDVEKVTGSRTPYLLYYIEAD 420 (420)
T ss_pred ccccceEEEEEecccccccCceEEeeeecccCceeEeccceeeeccHhhhccccCccchheeEeeecC
Confidence 4679999999999999999999999987 668999999999999999987653 9999998853
No 37
>KOG1863|consensus
Probab=98.55 E-value=4e-08 Score=85.66 Aligned_cols=62 Identities=32% Similarity=0.550 Sum_probs=53.8
Q ss_pred cceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCC----------------cEEEEEEecCC
Q psy4215 19 RQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCK----------------PYILFYVRRVP 80 (103)
Q Consensus 19 ~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~----------------aYiLfY~r~~~ 80 (103)
..|+|.||.+|.| ..++|||+++++. .+.|++|||..|..++..++...+ ||+|+|.|.+.
T Consensus 409 ~~y~l~~v~vh~g-~~~~ghy~~~i~~~~~~~w~kfdd~~v~~~~~~~~l~~~~g~~~~~~~~~~~~~~~~~lv~~~~s~ 487 (1093)
T KOG1863|consen 409 AVYSLHAVLVHSG-DAHSGHYVAYINPKLDGKWVKFDDLVVTVVSEKEALEQNYGTEEIELSSTADFKNAYMLVYIRDSC 487 (1093)
T ss_pred ceeccchhhcccc-cccCccceeeecchhhccceeccCceeeeccHHHHHHhhCCCcchhhhcccccCCcceEEEEecCc
Confidence 5999999999977 8999999999996 899999999999999866654321 89999999886
Q ss_pred c
Q psy4215 81 E 81 (103)
Q Consensus 81 ~ 81 (103)
.
T Consensus 488 ~ 488 (1093)
T KOG1863|consen 488 E 488 (1093)
T ss_pred H
Confidence 5
No 38
>KOG1275|consensus
Probab=97.74 E-value=8.3e-05 Score=64.06 Aligned_cols=57 Identities=19% Similarity=0.338 Sum_probs=50.5
Q ss_pred cceEEeEEEEEeeCCCCCceEEEEEEc----------CCeEEEEcCCeeeEeCcccccCCC-----cEEEEE
Q psy4215 19 RQFRFDNLLKASTIGVHSGHYTAYAIH----------EAQWWHFDDSTVMPVDIPALKKCK-----PYILFY 75 (103)
Q Consensus 19 ~~Y~L~avv~H~G~~~~~GHY~~~~~~----------~~~W~~~dD~~V~~~~~~~v~~~~-----aYiLfY 75 (103)
..|+|.|+|+|.|.+-+.+|.+++++. +.+||.|||-.|.++++++...-. +-||+|
T Consensus 789 ~vYeL~a~V~~I~d~~~e~~lVs~Ikv~~~~~~~~~~dsqWylFNDfLV~~ite~EAl~~~~~WKvP~Il~Y 860 (1118)
T KOG1275|consen 789 VVYELDAMVHAIGDNENEVNLVSPIKVLRPYHVIKPDDSQWYLFNDFLVSEITEEEALHFDGPWKVPAILYY 860 (1118)
T ss_pred EEEEeeeEEEEeccCCCccceEEEEEccCcccccCcCcceeEEEcceeeeeCChHHheEeccCccCcEEEEE
Confidence 689999999999988899999999985 359999999999999988876544 789999
No 39
>KOG2026|consensus
Probab=96.78 E-value=0.00011 Score=58.30 Aligned_cols=57 Identities=11% Similarity=0.206 Sum_probs=51.7
Q ss_pred cceEEeEEEEEeeCCCCCceEEEEEEc--CCeEEEEcCCeeeEeCcccccCCCcEEEEEEec
Q psy4215 19 RQFRFDNLLKASTIGVHSGHYTAYAIH--EAQWWHFDDSTVMPVDIPALKKCKPYILFYVRR 78 (103)
Q Consensus 19 ~~Y~L~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~ 78 (103)
.+|.|.|.++|. ...|||..++++ .+.||.++|-.|++..++-+...++||-+|++.
T Consensus 383 ~~~~~~~N~i~~---~e~~~~riqi~~~~s~kW~eiqdl~v~e~~~qmi~L~Es~iQiwe~~ 441 (442)
T KOG2026|consen 383 TQYSLVANAIHE---DEDGNFRIQIYDNSSEKWYEIQDLHVTERLPQMIFLKESFIQIWEKQ 441 (442)
T ss_pred ccccchhhhhcC---cccCceEEEEEeCCCcceEEecccchhhhhhHHHHHHHHHHHHHhcc
Confidence 789999999997 467999999988 789999999999999999999999999988875
No 40
>PF15499 Peptidase_C98: Ubiquitin-specific peptidase-like, SUMO isopeptidase
Probab=93.62 E-value=0.18 Score=38.34 Aligned_cols=36 Identities=11% Similarity=0.399 Sum_probs=30.9
Q ss_pred CcceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcCCe
Q psy4215 18 KRQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDDST 56 (103)
Q Consensus 18 ~~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD~~ 56 (103)
...|++.+||-..- . --|+++|+++ +|.|.+|||-+
T Consensus 216 g~~Y~Vt~VIQY~~-~--~~HFvtWi~~~dGsWLecDDLk 252 (275)
T PF15499_consen 216 GCLYQVTSVIQYQA-N--LNHFVTWIRDSDGSWLECDDLK 252 (275)
T ss_pred CeeEEEEEEEEEec-c--CceeEEEEEcCCCCeEeeccCC
Confidence 46799999998776 3 4799999999 89999999976
No 41
>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=91.89 E-value=0.44 Score=34.59 Aligned_cols=43 Identities=19% Similarity=0.283 Sum_probs=31.1
Q ss_pred CCceEEEEEEcCCeEEEEcCCeeeEeCcccccCCCcEEEEEEecCCcc
Q psy4215 35 HSGHYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPEV 82 (103)
Q Consensus 35 ~~GHY~~~~~~~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~~~~ 82 (103)
+.||-+.+++..+.||.+||+.+.+..+..- =+|.|..-+.+.
T Consensus 137 g~~Havfa~~ts~gWy~iDDe~~y~~tPdp~-----~VLvfvp~D~Ep 179 (193)
T PF05408_consen 137 GQEHAVFACVTSDGWYAIDDEDFYPWTPDPS-----DVLVFVPYDQEP 179 (193)
T ss_dssp STTEEEEEEEETTCEEEEETTEEEE----GG-----GEEEEEESSSS-
T ss_pred CCcceEEEEEeeCcEEEecCCeeeeCCCChh-----heEEEcccCccc
Confidence 3699999999988999999999999776432 257788777654
No 42
>PF01473 CW_binding_1: Putative cell wall binding repeat; InterPro: IPR018337 The cell wall-binding repeat (CW) is an about 20 amino acid residue module, essentially found in two bacterial Gram-positive protein families; the choline binding proteins and glucosyltransferases (2.4.1.5 from EC). In choline-binding proteins cell wall binding repeats bind to choline moieties of both teichoic and lipoteichoic acids, two components peculiar to the cell surface of Gram-positive bacteria [, ]. In glucosyltransferases the region spanning the CW repeats is a glucan binding domain []. Several crystal structures of CW have been solved [, ]. In the choline binding protein LytA, the repeats adopt a solenoid fold consisting exclusively of beta-hairpins that stack to form a left-handed superhelix with a boomerang-like shape. The choline groups bind between beta-hairpin 'steps' of the superhelix []. In Cpl-1 CW repeats assemble in two sub-domains: an N-terminal superhelical moiety similar to the LytA one and a C-terminal beta-sheet involved in interactions with the lysozyme domain. Choline is bound between repeats 1 and 2, and, 2 and 3 of the superhelical sub-domain []. Some proteins known to contain cell-wall binding repeats include: Pneumococcal N-acetylmuramoyl-L-alanine amidase (autolysin, lytA) (3.5.1.28 from EC). It is a surface-exposed enzyme that rules the self-destruction of pneumococcal cells through degradation of their peptidoglycan backbone. It mediates the release of toxic substances that damage the host tissues. Pneumococcal endo-beta-N-acetylglucosaminidase (lytB) (3.2.1.96 from EC). It plays an important role in cell wall degradation and cell separation. Pneumococcal teichoic acid phosphorylcholine esterase (pce or cbpE), a cell wall hydrolase important for cellular adhesion and colonisation. Lactobacillales glucosyltransferase. It catalyses the transfer of glucosyl units from the cleavage of sucrose to a growing chain of glucan. Clostridium difficile toxin A (tcdA) and toxin B (tcdb). They are the causative agents of the antibiotic-associated pseudomembranous colitis. They are intracellular acting toxins that reach their targets after receptor-mediated endocytosis. Clostridium acetobutylicum cspA protein. Siphoviridae bacteriophages N-acetylmuramoyl-L-alanine amidase. It lyses the bacterial host cell wall. Podoviridae lysozyme protein (cpl-1). It is capable of digesting the pneumococcal cell wall. The cell wall binding repeats are also known as the choline-binding repeats (ChBr) or the choline-binding domain (ChBD). ; PDB: 1GVM_C 2BML_B 1HCX_A 1OBA_A 1H09_A 2J8F_A 2IXU_A 2J8G_A 2IXV_A 2X8O_A ....
Probab=80.87 E-value=2.9 Score=18.81 Aligned_cols=14 Identities=21% Similarity=0.800 Sum_probs=10.9
Q ss_pred EEEcCCeEEEEcCC
Q psy4215 42 YAIHEAQWWHFDDS 55 (103)
Q Consensus 42 ~~~~~~~W~~~dD~ 55 (103)
+++.++.||.|+++
T Consensus 3 W~~~~~~wYy~~~~ 16 (19)
T PF01473_consen 3 WVQDNGNWYYFDSD 16 (19)
T ss_dssp EEEETTEEEEETTT
T ss_pred CEEECCEEEEeCCC
Confidence 56668899999875
No 43
>PF02099 Josephin: Josephin; InterPro: IPR006155 Human genes containing triplet repeats can markedly expand in length, leading to neuropsychiatric disease. Expansion of triplet repeats explains the phenomenon of anticipation, i.e. the increasing severity or earlier age of onset in successive generations in a pedigree []. A novel gene containing CAG repeats has been identified and mapped to chromosome 14q32.1, the genetic locus for Machado-Joseph disease (MJD). Normally, the gene contains 13-36 CAG repeats, but most clinically diagnosed patients and all affected members of a family with the clinical and pathological diagnosis of MJD show expansion of the repeat number, from 68-79 []. Similar abnormalities in related genes may give rise to diseases similar to MJD. MJD is a neurodegenerative disorder characterised by cerebellar ataxia, pyramidal and extra-pyramidal signs, peripheral nerve palsy, external ophtalmoplegia, facial and lingual fasciculation and bulging. The disease is autosomal dominant, with late onset of symptoms, generally after the fourth decade.; GO: 0008242 omega peptidase activity; PDB: 3O65_G 1YZB_A 2JRI_A 2DOS_A 2AGA_A.
Probab=64.51 E-value=16 Score=25.51 Aligned_cols=31 Identities=16% Similarity=0.228 Sum_probs=24.7
Q ss_pred EeEEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeee
Q psy4215 23 FDNLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVM 58 (103)
Q Consensus 23 L~avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~ 58 (103)
..|+|++.+ .|+++.-|-++.||-+|-..-.
T Consensus 99 ~~gfI~N~~-----~HWf~iRki~~~wyNLDS~l~~ 129 (157)
T PF02099_consen 99 EFGFICNLS-----RHWFAIRKIGGQWYNLDSKLKE 129 (157)
T ss_dssp SSEEEEECT-----TEEEEEEEETTEEEEECTTTSS
T ss_pred ceEEEeccC-----cceEEEEeeCCeeEeccCCCCC
Confidence 468888844 7999988889999999976543
No 44
>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=57.75 E-value=15 Score=28.70 Aligned_cols=35 Identities=20% Similarity=0.248 Sum_probs=21.0
Q ss_pred EEEEeeCCCCCceEEEEEEcCCeEEEEcCCeeeEeCccc
Q psy4215 26 LLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVMPVDIPA 64 (103)
Q Consensus 26 vv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~~~~~~~ 64 (103)
-++-.| +.++|||+ +.+.+..- +|-..+.+.+...
T Consensus 264 ~~vF~G-~~~~GHYt-~~~~~~~~--~Dg~~~~k~~~~~ 298 (320)
T PF08715_consen 264 YAVFTG-STDSGHYT-HDVAGKAM--YDGDKVKKFSDNK 298 (320)
T ss_dssp SEEEES-CTTTCEEE-EEEESSSE--EETTEEEEESEEE
T ss_pred EEEEEc-CCCccceE-EEccCcee--EEcCcccccCccc
Confidence 345689 78899999 66553322 3555555555443
No 45
>KOG1887|consensus
Probab=47.05 E-value=13 Score=32.57 Aligned_cols=44 Identities=16% Similarity=0.341 Sum_probs=33.3
Q ss_pred CCCCCcceEEeEEEEEeeCCCCCceEEEEEEcCCeEE--EEcCCeeeEe
Q psy4215 14 DTKNKRQFRFDNLLKASTIGVHSGHYTAYAIHEAQWW--HFDDSTVMPV 60 (103)
Q Consensus 14 ~~~~~~~Y~L~avv~H~G~~~~~GHY~~~~~~~~~W~--~~dD~~V~~~ 60 (103)
......+|+|+++|.-... .++|.|++...+.|. ..+|..+..+
T Consensus 720 g~ep~t~yrLVSmv~~~e~---~~~~~C~Aye~Nrwvs~r~~~~~~e~i 765 (806)
T KOG1887|consen 720 GLEPNTKYRLVSMVGNHEE---GEEYICFAYEPNRWVSLRHEDSQGEVV 765 (806)
T ss_pred ccCcCceeEEEEEeeeccc---cceEEEeeccCCcchhhHHHHHHhhhc
Confidence 3345678999998765541 689999999988888 7888766554
No 46
>PF01088 Peptidase_C12: Ubiquitin carboxyl-terminal hydrolase, family 1; InterPro: IPR001578 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 C12 (ubiquitin C-terminal hydrolase 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. The type example is the human ubiquitin C-terminal hydrolase UCH-L1. 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 and 100-200 kDa, IPR001394 from INTERPRO) []: this family are the 20-30 kDa ppeptides which includes the yeast yuh1. Yeast yuh1 protease is known to be active only against small ubiquitin conjugates, being inactive against conjugated beta-galactosidase []. A mammalian homologue, UCH (ubiquitin conjugate hydrolase), is one of the most abundant proteins in the brain []. 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, 0005622 intracellular; PDB: 1CMX_A 4DM9_A 2ETL_A 3IRT_A 3KW5_A 3IFW_A 2LEN_A 3KVF_A 2WDT_C 2WE6_B ....
Probab=41.30 E-value=31 Score=25.15 Aligned_cols=27 Identities=19% Similarity=0.401 Sum_probs=21.4
Q ss_pred CceEEEEEEcCCeEEEEcCCeeeEeCc
Q psy4215 36 SGHYTAYAIHEAQWWHFDDSTVMPVDI 62 (103)
Q Consensus 36 ~GHY~~~~~~~~~W~~~dD~~V~~~~~ 62 (103)
.=||+|||..+|.-|++|-.+-.++.-
T Consensus 165 ~~HFI~fV~~~G~LyELDG~k~~Pi~~ 191 (214)
T PF01088_consen 165 DFHFIAFVPVDGHLYELDGRKSGPIDH 191 (214)
T ss_dssp CEEEEEEEEETTEEEEEETTSSS-EEE
T ss_pred CccEEEEEeECCeEEEcCCCCCCCeEc
Confidence 459999999999999999887665543
No 47
>smart00460 TGc Transglutaminase/protease-like homologues. Transglutaminases are enzymes that establish covalent links between proteins. A subset of transglutaminase homologues appear to catalyse the reverse reaction, the hydrolysis of peptide bonds. Proteins with this domain are both extracellular and intracellular, and it is likely that the eukaryotic intracellular proteins are involved in signalling events.
Probab=39.80 E-value=47 Score=18.61 Aligned_cols=21 Identities=24% Similarity=0.265 Sum_probs=17.5
Q ss_pred CCceEEEEEEcCCeEEEEcCC
Q psy4215 35 HSGHYTAYAIHEAQWWHFDDS 55 (103)
Q Consensus 35 ~~GHY~~~~~~~~~W~~~dD~ 55 (103)
...|.+.-+..++.|+.||-.
T Consensus 47 ~~~H~W~ev~~~~~W~~~D~~ 67 (68)
T smart00460 47 WEAHAWAEVYLEGGWVPVDPT 67 (68)
T ss_pred CCcEEEEEEEECCCeEEEeCC
Confidence 578998888888999999853
No 48
>cd05860 Ig4_SCFR Fourth immunoglobulin (Ig)-like domain of stem cell factor receptor (SCFR). Ig4_SCFR: The fourth Immunoglobulin (Ig)-like domain in stem cell factor receptor (SCFR). SCFR is organized as an extracellular component having five IG-like domains, a transmembrane segment, and a cytoplasmic portion having protein tyrosine kinase activity. SCFR and its ligand SCF are critical for normal hematopoiesis, mast cell development, melanocytes and gametogenesis. SCF binds to the second and third Ig-like domains of SCFR. This fourth Ig-like domain participates in SCFR dimerization, which follows ligand binding. Deletion of this fourth domain abolishes the ligand-induced dimerization of SCFR and completely inhibits signal transduction.
Probab=38.14 E-value=1.1e+02 Score=19.80 Aligned_cols=23 Identities=22% Similarity=0.226 Sum_probs=16.5
Q ss_pred EEEeeCCCCCceEEEEEEcCCeEE
Q psy4215 27 LKASTIGVHSGHYTAYAIHEAQWW 50 (103)
Q Consensus 27 v~H~G~~~~~GHY~~~~~~~~~W~ 50 (103)
+...- ..++|+|+..+++.+.|-
T Consensus 69 L~Rlk-~~E~G~YTf~a~N~~~~~ 91 (101)
T cd05860 69 LTRLK-GTEGGTYTFLVSNSDASA 91 (101)
T ss_pred EeecC-hhhCcEEEEEEECCCCeE
Confidence 44444 568999999999965443
No 49
>PF00770 Peptidase_C5: Adenovirus endoprotease; InterPro: IPR000855 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 aminopeptidases belong to the peptidase family C5 (adenain family, clan CE). Several adenovirus proteins are synthesised as precursors, requiring processing by a protease before the virion is assembled [, ]. Until recently, the adenovirus endopeptidase was classified as a serine protease, having been reported to be inhibited by serine protease inhibitors [, ]. However, it has since been shown to be inhibited by cysteine protease inhibitors, and the catalytic residues are believed to be His-54 and Cys-104 [, ].; GO: 0004197 cysteine-type endopeptidase activity, 0006508 proteolysis; PDB: 1NLN_A 1AVP_A.
Probab=37.48 E-value=67 Score=23.25 Aligned_cols=31 Identities=16% Similarity=0.309 Sum_probs=20.6
Q ss_pred eEEEEEeeCCCCCceEEEEEEc--CCeEEEEcC
Q psy4215 24 DNLLKASTIGVHSGHYTAYAIH--EAQWWHFDD 54 (103)
Q Consensus 24 ~avv~H~G~~~~~GHY~~~~~~--~~~W~~~dD 54 (103)
.|||+--|...++-|++|++-+ ....|.||.
T Consensus 21 cAIVNT~~retGGvHWlA~Aw~P~s~t~YmFDP 53 (183)
T PF00770_consen 21 CAIVNTGGRETGGVHWLAFAWDPRSRTFYMFDP 53 (183)
T ss_dssp EEEEESS-TTT--S-EEEEEEETTTTEEEEE-T
T ss_pred eEEEecCCcccCceeEEEEEecCCcceEEEeCC
Confidence 5677766666677899999988 678888886
No 50
>PRK05627 bifunctional riboflavin kinase/FMN adenylyltransferase; Reviewed
Probab=37.39 E-value=40 Score=25.95 Aligned_cols=33 Identities=12% Similarity=0.216 Sum_probs=24.3
Q ss_pred cceEEeEEEEEeeC-C-----------------CCCceEEEEEEcCCeEEE
Q psy4215 19 RQFRFDNLLKASTI-G-----------------VHSGHYTAYAIHEAQWWH 51 (103)
Q Consensus 19 ~~Y~L~avv~H~G~-~-----------------~~~GHY~~~~~~~~~W~~ 51 (103)
..|.+.|.|+|--. + +..|-|.++++-++.||.
T Consensus 184 ~~y~~~g~V~~G~~~Gr~lgfPTaNl~~~~~~~p~~GVY~~~~~i~~~~y~ 234 (305)
T PRK05627 184 RPYSISGRVVHGQKLGRTLGFPTANLPLPDRVLPADGVYAVRVKVDGKPYP 234 (305)
T ss_pred CCCceEEEEEECcccCccccceeEeecCccCCCCCceEEEEEEEECCEEEE
Confidence 57899998887220 0 347999999988888875
No 51
>KOG1415|consensus
Probab=33.25 E-value=46 Score=24.74 Aligned_cols=24 Identities=13% Similarity=0.462 Sum_probs=20.0
Q ss_pred ceEEEEEEcCCeEEEEcCCeeeEe
Q psy4215 37 GHYTAYAIHEAQWWHFDDSTVMPV 60 (103)
Q Consensus 37 GHY~~~~~~~~~W~~~dD~~V~~~ 60 (103)
=||++|+..+|.-|.+|-..--++
T Consensus 160 ~HFI~~v~~~G~lYELDgR~~fPi 183 (222)
T KOG1415|consen 160 LHFICFVNKNGHLYELDGRKPFPI 183 (222)
T ss_pred eEEEEEEccCCeEEEecCCcCCCc
Confidence 599999999999999998754443
No 52
>PF03292 Pox_P4B: Poxvirus P4B major core protein; InterPro: IPR004972 This family is the Poxvirus P4B major core protein. It is a precursor for one of the two most abundant structural components of the virion (major core proteins 4A and 4B).
Probab=32.55 E-value=45 Score=28.56 Aligned_cols=44 Identities=16% Similarity=0.258 Sum_probs=28.1
Q ss_pred CcceEEeEEEEEeeC-CCC----------CceEEEEEEcCCeEEEEcCCeeeEeCc
Q psy4215 18 KRQFRFDNLLKASTI-GVH----------SGHYTAYAIHEAQWWHFDDSTVMPVDI 62 (103)
Q Consensus 18 ~~~Y~L~avv~H~G~-~~~----------~GHY~~~~~~~~~W~~~dD~~V~~~~~ 62 (103)
...|+|.+.||+.-. ... -|||+- ++.+..||.||...+.....
T Consensus 521 gimyrL~SAVCYK~~d~~~d~C~~~diflkG~ytI-lfTe~Gpw~YDP~s~~s~~s 575 (666)
T PF03292_consen 521 GIMYRLKSAVCYKIGDQFFDGCNGNDIFLKGYYTI-LFTEMGPWMYDPLSIFSKNS 575 (666)
T ss_pred ceeeeeehhheeeccccccCCCCCCcceeceeEEE-EEecCCceeeCchhhcCcch
Confidence 457999998877532 221 288854 44455688888877654433
No 53
>PF08770 SoxZ: Sulphur oxidation protein SoxZ; InterPro: IPR014880 SoxZ forms an anti parallel beta structure and forms a complex with SoxY. Sulphur oxidation occurs at the thiol of a conserved cysteine residue of the SoxY subunit []. ; PDB: 1V8H_B 2OX5_E 2OXG_E 2OXH_C.
Probab=30.96 E-value=77 Score=20.35 Aligned_cols=58 Identities=14% Similarity=0.217 Sum_probs=34.5
Q ss_pred cceEEeEEEEEeeCC---CC-Cc-----eEEEEEEcCCeEEEEcCCeeeEeCcccccCCCcEEEEEEecCCc
Q psy4215 19 RQFRFDNLLKASTIG---VH-SG-----HYTAYAIHEAQWWHFDDSTVMPVDIPALKKCKPYILFYVRRVPE 81 (103)
Q Consensus 19 ~~Y~L~avv~H~G~~---~~-~G-----HY~~~~~~~~~W~~~dD~~V~~~~~~~v~~~~aYiLfY~r~~~~ 81 (103)
..-++...|.|-=.+ .+ .| ||+..+. ..+|+..|-.++...-.+.++|+-|+.+-...
T Consensus 13 ~~~~vk~li~HPMetGl~~d~tg~~iPa~~I~~v~-----v~~ng~~v~~~~~~~siS~NP~l~F~~~~~~~ 79 (100)
T PF08770_consen 13 GVVEVKALISHPMETGLRKDQTGKYIPAHFIEEVE-----VTYNGKPVFRADWGPSISENPYLRFSFKGKKS 79 (100)
T ss_dssp EEEEEEEEE----B-S-BB-TTS-BB--B-EEEEE-----EEETTEEEEEEEE-TTB-SS-EEEEEEEESSS
T ss_pred CcEEEEEEEECCCccccccCCCCCCCChHheEEEE-----EEECCEEEEEEEeCCcccCCCcEEEEEecCCC
Confidence 446777888875432 11 23 5544332 45799999999999999999999999886543
No 54
>PF10748 DUF2531: Protein of unknown function (DUF2531); InterPro: IPR019684 This entry represents proteins with unknown function and appears to be restricted to Enterobacteriaceae.
Probab=30.78 E-value=1.8e+02 Score=19.94 Aligned_cols=59 Identities=12% Similarity=0.289 Sum_probs=38.2
Q ss_pred cceEEeEEEEEeeCCCCCceEEEEEEc-CCeEEEEcC-------CeeeEeCcccccCC-----CcEEEEEEecCCccc
Q psy4215 19 RQFRFDNLLKASTIGVHSGHYTAYAIH-EAQWWHFDD-------STVMPVDIPALKKC-----KPYILFYVRRVPEVT 83 (103)
Q Consensus 19 ~~Y~L~avv~H~G~~~~~GHY~~~~~~-~~~W~~~dD-------~~V~~~~~~~v~~~-----~aYiLfY~r~~~~~~ 83 (103)
...+|.|||- .+++|+++++. +++|.+.-. -.|+.++.+++... .+=-.-++|+...+.
T Consensus 34 s~WrlqGiVg------~~~~~~gwl~~p~g~W~Rv~~g~~L~~gWrV~~i~~~~ltL~~~~~C~P~qw~w~~kG~~~~ 105 (132)
T PF10748_consen 34 SQWRLQGIVG------QGDRWIGWLQDPQGKWLRVRQGQVLPPGWRVTQITARQLTLQTGDGCEPQQWRWQRKGTKND 105 (132)
T ss_pred ccceEccEEC------CCCcEEEEEECCCCCeEEeccCCCCCCCcEEEEEcCCeEEEccCCCCCchheEeeecCcccc
Confidence 4789999853 24689999998 889997533 46788877766422 233344455555444
No 55
>KOG3646|consensus
Probab=29.02 E-value=86 Score=26.02 Aligned_cols=41 Identities=15% Similarity=0.386 Sum_probs=33.7
Q ss_pred CcceEEeEEEEEeeCC--CCCceEEEEEEcCCeEEEEcCCeee
Q psy4215 18 KRQFRFDNLLKASTIG--VHSGHYTAYAIHEAQWWHFDDSTVM 58 (103)
Q Consensus 18 ~~~Y~L~avv~H~G~~--~~~GHY~~~~~~~~~W~~~dD~~V~ 58 (103)
+..|.--.||.|.|.- +.-|=..+.|+-+..|+-|||....
T Consensus 124 DsTy~tN~Vv~~tG~v~~vPPGIfk~sCkiDItwFPFD~Q~C~ 166 (486)
T KOG3646|consen 124 DSTYKTNYVVYSTGSVLWVPPGIFKSSCKIDITWFPFDDQVCY 166 (486)
T ss_pred CCcceeeEEEccCCeeeecCCceeeeeeEEEEEEecccccEEE
Confidence 6789999999999941 3468888888889999999998643
No 56
>COG0093 RplN Ribosomal protein L14 [Translation, ribosomal structure and biogenesis]
Probab=28.51 E-value=1.8e+02 Score=19.78 Aligned_cols=19 Identities=16% Similarity=0.426 Sum_probs=15.1
Q ss_pred cCCeEEEEcCCeeeEeCcc
Q psy4215 45 HEAQWWHFDDSTVMPVDIP 63 (103)
Q Consensus 45 ~~~~W~~~dD~~V~~~~~~ 63 (103)
.+|.|.+|||.-.-.++.+
T Consensus 72 ~DGs~i~FddNA~Viin~~ 90 (122)
T COG0093 72 PDGSYIKFDDNAAVIINPD 90 (122)
T ss_pred CCCCEEEeCCceEEEECCC
Confidence 3899999999887766654
No 57
>PRK04233 hypothetical protein; Provisional
Probab=26.35 E-value=56 Score=22.19 Aligned_cols=13 Identities=15% Similarity=0.779 Sum_probs=9.4
Q ss_pred EEEcCCeEEEEcC
Q psy4215 42 YAIHEAQWWHFDD 54 (103)
Q Consensus 42 ~~~~~~~W~~~dD 54 (103)
|+|.+|.|++.|-
T Consensus 116 F~r~~g~W~YvDg 128 (129)
T PRK04233 116 FVREDGRWYYLDA 128 (129)
T ss_pred EEEECCEEEEecC
Confidence 4455889998874
No 58
>PF12252 SidE: Dot/Icm substrate protein; InterPro: IPR021014 This entry represents bacterial proteins that are typically between 397 and 1543 amino acids in length including SidE protein in the Dot/Icm pathway of Legionella pneumophila bacteria. There is little literature describing the family.
Probab=26.22 E-value=80 Score=29.12 Aligned_cols=26 Identities=23% Similarity=0.333 Sum_probs=21.3
Q ss_pred eeCCCCCceEEEEEEc-CCeEEEEcCC
Q psy4215 30 STIGVHSGHYTAYAIH-EAQWWHFDDS 55 (103)
Q Consensus 30 ~G~~~~~GHY~~~~~~-~~~W~~~dD~ 55 (103)
.|...++||++-.++. ++++|.||.-
T Consensus 56 v~p~~~sghwimlikg~gn~y~lfdpl 82 (1439)
T PF12252_consen 56 VSPRQDSGHWIMLIKGQGNQYYLFDPL 82 (1439)
T ss_pred cCCCCcCceeEEEEEcCCCceEEeccc
Confidence 3545679999999999 8899999863
No 59
>cd05896 Ig1_IL1RAPL-1_like First immunoglobulin (Ig)-like domain of X-linked interleukin-1 receptor accessory protein-like 1 (IL1RAPL-1). Ig1_ IL1RAPL-1_like: domain similar to the first immunoglobulin (Ig)-like domain of X-linked interleukin-1 receptor accessory protein-like 1 (IL1RAPL-1). IL-1 alpha and IL-1 beta are cytokines which participates in the regulation of inflammation, immune responses, and hematopoiesis. These cytokines bind to the IL-1 receptor type 1 (IL1R1), which is activated on additional association with an accessory protein, IL1RAP. IL-1 also binds a second receptor designated type II (IL1R2). Mature IL1R1 consists of three Ig-like domains, a transmembrane domain, and a large cytoplasmic domain. Mature IL1R2 is organized similarly except that it has a short cytoplasmic domain. The latter does not initiate signal transduction. A naturally occurring cytokine IL-1RA (IL-1 receptor antagonist) is widely expressed and binds to IL-1 receptors, inhibiting the binding of
Probab=25.98 E-value=44 Score=21.87 Aligned_cols=13 Identities=31% Similarity=0.342 Sum_probs=11.0
Q ss_pred CCCceEEEEEEcC
Q psy4215 34 VHSGHYTAYAIHE 46 (103)
Q Consensus 34 ~~~GHY~~~~~~~ 46 (103)
.++|+|+|.+|+.
T Consensus 80 eDSG~Y~C~~rN~ 92 (104)
T cd05896 80 QDSGLYTCVLRNS 92 (104)
T ss_pred hhCeEEEEEECCC
Confidence 3789999999983
No 60
>TIGR01067 rplN_bact ribosomal protein L14, bacterial/organelle. This model distinguishes bacterial and most organellar examples of ribosomal protein L14 from all archaeal and eukaryotic forms.
Probab=25.21 E-value=2.1e+02 Score=19.18 Aligned_cols=18 Identities=17% Similarity=0.479 Sum_probs=15.4
Q ss_pred CCeEEEEcCCeeeEeCcc
Q psy4215 46 EAQWWHFDDSTVMPVDIP 63 (103)
Q Consensus 46 ~~~W~~~dD~~V~~~~~~ 63 (103)
+|.|..|||.-+-.++.+
T Consensus 73 dG~~i~F~~Na~VLin~~ 90 (122)
T TIGR01067 73 DGSYIRFDDNACVLINKN 90 (122)
T ss_pred CCCEEECCCceEEEECCC
Confidence 889999999998887764
No 61
>COG3012 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.90 E-value=58 Score=22.86 Aligned_cols=12 Identities=17% Similarity=0.681 Sum_probs=9.7
Q ss_pred CCeEEEEcCCee
Q psy4215 46 EAQWWHFDDSTV 57 (103)
Q Consensus 46 ~~~W~~~dD~~V 57 (103)
++.||.+|-+.-
T Consensus 119 ngrWyyiDgtv~ 130 (151)
T COG3012 119 NGRWYYIDGTVP 130 (151)
T ss_pred CCEEEEECCCCC
Confidence 789999988754
No 62
>PF01841 Transglut_core: Transglutaminase-like superfamily; InterPro: IPR002931 This domain is found in many proteins known to have transglutaminase activity, i.e. which cross-link proteins through an acyl-transfer reaction between the gamma-carboxamide group of peptide-bound glutamine and the epsilon-amino group of peptide-bound lysine, resulting in a epsilon-(gamma-glutamyl)lysine isopeptide bond. Tranglutaminases have been found in a diverse range of species, from bacteria through to mammals. The enzymes require calcium binding and their activity leads to post-translational modification of proteins through acyl-transfer reactions, involving peptidyl glutamine residues as acyl donors and a variety of primary amines as acyl acceptors, with the generation of proteinase resistant isopeptide bonds []. Sequence conservation in this superfamily primarily involves three motifs that centre around conserved cysteine, histidine, and aspartate residues that form the catalytic triad in the structurally characterised transglutaminase, the human blood clotting factor XIIIa' []. On the basis of the experimentally demonstrated activity of the Methanobacterium phage psiM2 pseudomurein endoisopeptidase [], it is proposed that many, if not all, microbial homologs of the transglutaminases are proteases and that the eukaryotic transglutaminases have evolved from an ancestral protease []. A subunit of plasma Factor XIII revealed that each Factor XIIIA subunit is composed of four domains (termed N-terminal beta-sandwich, core domain (containing the catalytic and the regulatory sites), and C-terminal beta-barrels 1 and 2) and that two monomers assemble into the native dimer through the surfaces in domains 1 and 2, in opposite orientation. This organisation in four domains is highly conserved during evolution among transglutaminase isoforms [].; PDB: 2F4M_A 2F4O_A 1GGY_B 1FIE_B 1GGU_B 1GGT_B 1F13_A 1QRK_B 1EVU_A 1EX0_B ....
Probab=23.06 E-value=1.1e+02 Score=18.68 Aligned_cols=20 Identities=15% Similarity=0.180 Sum_probs=16.8
Q ss_pred CCCceEEEEEEc-CCeEEEEc
Q psy4215 34 VHSGHYTAYAIH-EAQWWHFD 53 (103)
Q Consensus 34 ~~~GHY~~~~~~-~~~W~~~d 53 (103)
...+|.++-+.. ++.|+.+|
T Consensus 92 ~~~~H~w~ev~~~~~~W~~~D 112 (113)
T PF01841_consen 92 GNDNHAWVEVYLPGGGWIPLD 112 (113)
T ss_dssp SEEEEEEEEEEETTTEEEEEE
T ss_pred CCCCEEEEEEEEcCCcEEEcC
Confidence 356799998888 88999987
No 63
>COG2075 RPL24A Ribosomal protein L24E [Translation, ribosomal structure and biogenesis]
Probab=22.37 E-value=1.9e+02 Score=17.50 Aligned_cols=30 Identities=10% Similarity=0.136 Sum_probs=22.5
Q ss_pred EEEEEeeCCCCCceEEEEEEcCCeEEEEcC
Q psy4215 25 NLLKASTIGVHSGHYTAYAIHEAQWWHFDD 54 (103)
Q Consensus 25 avv~H~G~~~~~GHY~~~~~~~~~W~~~dD 54 (103)
.++.-.|..+.-||=+-||+++|.-+.|=-
T Consensus 4 ~~CsFcG~~I~PGtG~m~Vr~Dg~v~~Fcs 33 (66)
T COG2075 4 RVCSFCGKKIEPGTGIMYVRNDGKVLRFCS 33 (66)
T ss_pred eEecCcCCccCCCceEEEEecCCeEEEEec
Confidence 455667878899999999999776555533
No 64
>cd01269 PLX Pollux (PLX) Phosphotyrosine-binding (PTB) domain. Pollux (PLX) Phosphotyrosine-binding (PTB) domain. PLX is calmodulin-binding protein containing a TBC domain, which is conserved from yeast to man, but it only has an N-terminal PTB domain in mammals. PTB domains have a PH-like fold and are found in various eukaryotic signaling molecules. They were initially identified based upon their ability to recognize phosphorylated tyrosine residues. In contrast to SH2 domains, which recognize phosphotyrosine and adjacent carboxy-terminal residues, PTB-domain binding specificity is conferred by residues amino-terminal to the phosphotyrosine. More recent studies have found that some types of PTB domains can bind to peptides which are not tyrosine phosphorylated or lack tyrosine residues altogether.
Probab=21.08 E-value=1.4e+02 Score=20.50 Aligned_cols=27 Identities=7% Similarity=0.166 Sum_probs=19.9
Q ss_pred cceEEeEEEEEeeCCCCCceEEEEEEc
Q psy4215 19 RQFRFDNLLKASTIGVHSGHYTAYAIH 45 (103)
Q Consensus 19 ~~Y~L~avv~H~G~~~~~GHY~~~~~~ 45 (103)
..=+.+|+|+-......+-||++||-.
T Consensus 81 ~~~dhFgFIcrEs~~~~~~~f~CyVFq 107 (129)
T cd01269 81 KHVDHFGFICRESPEPGLSQYICYVFQ 107 (129)
T ss_pred CCcceEEEEeccCCCCCcceEEEEEEE
Confidence 346788999888855556799998844
No 65
>PF04473 DUF553: Transglutaminase-like domain; InterPro: IPR007562 This entry represents a transglutaminase-like domain found in a family of uncharacterised archaeal proteins that had previously been called DUF553 and UPF0252.
Probab=20.79 E-value=2.4e+02 Score=19.60 Aligned_cols=19 Identities=16% Similarity=0.373 Sum_probs=16.9
Q ss_pred ceEEEEEEcCCeEEEEcCC
Q psy4215 37 GHYTAYAIHEAQWWHFDDS 55 (103)
Q Consensus 37 GHY~~~~~~~~~W~~~dD~ 55 (103)
||-.+.++-+|.||.+|-.
T Consensus 109 ~Haa~aV~ing~~yvlDq~ 127 (153)
T PF04473_consen 109 GHAAVAVKINGKYYVLDQH 127 (153)
T ss_pred CeEEEEEEECCEEEEEeCC
Confidence 9999999999999998753
No 66
>PRK05483 rplN 50S ribosomal protein L14; Validated
Probab=20.54 E-value=2.7e+02 Score=18.69 Aligned_cols=18 Identities=17% Similarity=0.447 Sum_probs=15.3
Q ss_pred CCeEEEEcCCeeeEeCcc
Q psy4215 46 EAQWWHFDDSTVMPVDIP 63 (103)
Q Consensus 46 ~~~W~~~dD~~V~~~~~~ 63 (103)
+|.|..|||.-+-.++.+
T Consensus 73 dG~~i~F~dNavVLin~~ 90 (122)
T PRK05483 73 DGSYIRFDDNAAVLLNND 90 (122)
T ss_pred CCCEEEcCCCEEEEECCC
Confidence 889999999998887753
No 67
>cd05751 Ig1_LILRB1_like First immunoglobulin (Ig)-like domain found in Leukocyte Ig-like receptors (LILR)B1 (also known as LIR-1) and similar proteins. Ig1_LILRB1_like: domain similar to the first immunoglobulin (Ig)-like domain found in Leukocyte Ig-like receptors (LILR)B1 (also known as LIR-1). This group includes, LILRA5 (LIR9), an activating natural cytotoxicity receptor NKp46, and the immune-type receptor glycoprotein VI (GPVI). LILRs are a family of immunoreceptors expressed on expressed on T and B cells, on monocytes, dendritic cells, and subgroups of natural killer (NK) cells. The human LILR family contains nine proteins (LILRA1-3,and 5, and LILRB1-5). From functional assays, and as the cytoplasmic domains of various LILRs, for example LILRB1 (LIR-1), LILRB2 (LIR-2), and LILRB3 (LIR-3) contain immunoreceptor tyrosine-based inhibitory motifs (ITIMs) it is thought that LIR proteins are inhibitory receptors. Of the eight LIR family proteins, only LIR-1(LILRB1), and LIR-2 (LILRB2),
Probab=20.17 E-value=80 Score=19.12 Aligned_cols=16 Identities=38% Similarity=0.756 Sum_probs=11.9
Q ss_pred CCceEEEEEEcC-CeEE
Q psy4215 35 HSGHYTAYAIHE-AQWW 50 (103)
Q Consensus 35 ~~GHY~~~~~~~-~~W~ 50 (103)
++|+|.|..++. ..|-
T Consensus 64 ~~G~Y~C~~~~~~~~~S 80 (91)
T cd05751 64 HAGRYRCYYRSGVALWS 80 (91)
T ss_pred HCEEEEEEEECCCCccC
Confidence 689999998874 4453
No 68
>KOG1722|consensus
Probab=20.11 E-value=1.2e+02 Score=21.17 Aligned_cols=34 Identities=18% Similarity=0.225 Sum_probs=27.8
Q ss_pred EEEEEeeCCCCCceEEEEEEcCCeEEEEcCCeee
Q psy4215 25 NLLKASTIGVHSGHYTAYAIHEAQWWHFDDSTVM 58 (103)
Q Consensus 25 avv~H~G~~~~~GHY~~~~~~~~~W~~~dD~~V~ 58 (103)
.++..+|.-+..||=.-|+|.++.-|.|-+....
T Consensus 4 ElCsFSG~KIyPG~G~r~vR~D~Kvf~Fln~Kc~ 37 (155)
T KOG1722|consen 4 ELCSFSGYKIYPGHGRRFVRGDGKVFRFLNSKCE 37 (155)
T ss_pred eEeeccCceecCCCceeEEecCCeeeeehhhhhH
Confidence 4566788778999999999999988888876643
Done!