Query psy1714
Match_columns 449
No_of_seqs 354 out of 1166
Neff 5.3
Searched_HMMs 46136
Date Fri Aug 16 22:56:24 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy1714.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/1714hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1554|consensus 100.0 1E-106 2E-111 784.9 22.0 324 24-440 6-331 (347)
2 cd08069 MPN_RPN11_CSN5 Mov34/M 100.0 1.1E-56 2.3E-61 443.2 28.0 262 152-419 1-267 (268)
3 cd08065 MPN_eIF3h Mpr1p, Pad1p 100.0 1.9E-35 4.1E-40 291.7 21.2 218 161-385 1-227 (266)
4 cd08067 MPN_2A_DUB Mov34/MPN/P 100.0 2.8E-30 6.1E-35 243.3 17.9 132 162-299 6-147 (187)
5 cd08064 MPN_eIF3f Mpr1p, Pad1p 100.0 5.5E-29 1.2E-33 245.5 23.4 243 163-434 1-247 (265)
6 KOG1555|consensus 100.0 4.6E-28 1E-32 241.5 15.4 263 157-433 27-308 (316)
7 cd08058 MPN_euk_mb Mpr1p, Pad1 99.9 1.1E-27 2.5E-32 209.1 12.1 114 168-297 1-119 (119)
8 cd08068 MPN_BRCC36 Mov34/MPN/P 99.9 4.3E-27 9.4E-32 229.3 16.9 138 160-299 1-152 (244)
9 cd08062 MPN_RPN7_8 Mpr1p, Pad1 99.9 2.4E-25 5.2E-30 221.6 23.8 203 161-389 1-206 (280)
10 smart00232 JAB_MPN JAB/MPN dom 99.9 1.1E-25 2.3E-30 196.8 17.8 134 162-298 1-134 (135)
11 KOG1560|consensus 99.9 6.8E-26 1.5E-30 220.9 13.0 218 157-381 9-244 (339)
12 PF01398 JAB: JAB1/Mov34/MPN/P 99.9 1.1E-25 2.3E-30 194.1 11.1 112 159-272 2-114 (114)
13 cd08057 MPN_euk_non_mb Mpr1p, 99.9 2.7E-24 5.8E-29 196.4 16.4 134 163-299 1-137 (157)
14 cd08066 MPN_AMSH_like Mov34/MP 99.9 8.8E-24 1.9E-28 197.0 16.9 132 160-304 1-135 (173)
15 KOG2975|consensus 99.9 2.2E-22 4.8E-27 195.2 18.2 199 160-387 20-220 (288)
16 PLN03246 26S proteasome regula 99.9 1E-21 2.2E-26 197.5 23.5 209 156-389 1-212 (303)
17 cd08063 MPN_CSN6 Mpr1p, Pad1p 99.9 2.3E-21 5E-26 193.6 19.6 203 162-389 2-210 (288)
18 cd07767 MPN Mpr1p, Pad1p N-ter 99.9 1.4E-21 3E-26 167.1 12.9 115 171-294 2-116 (116)
19 cd08069 MPN_RPN11_CSN5 Mov34/M 99.9 5.4E-21 1.2E-25 189.4 13.6 127 62-191 1-127 (268)
20 cd08070 MPN_like Mpr1p, Pad1p 99.8 2.4E-19 5.1E-24 158.4 14.5 120 168-299 2-121 (128)
21 KOG1554|consensus 99.7 4.7E-18 1E-22 166.7 6.1 86 146-231 38-123 (347)
22 KOG1556|consensus 99.7 2E-16 4.3E-21 152.8 16.1 201 159-384 7-216 (309)
23 cd08072 MPN_archaeal Mov34/MPN 99.6 2.1E-15 4.6E-20 132.3 12.6 109 165-298 1-109 (117)
24 COG1310 Predicted metal-depend 99.6 5.2E-15 1.1E-19 131.9 12.8 90 163-261 2-91 (134)
25 cd08073 MPN_NLPC_P60 Mpr1p, Pa 99.5 8.9E-14 1.9E-18 120.6 11.9 104 169-296 2-105 (108)
26 PF14464 Prok-JAB: Prokaryotic 99.4 4.2E-12 9.1E-17 107.1 10.6 94 167-280 2-96 (104)
27 KOG2880|consensus 99.3 1E-12 2.3E-17 132.7 6.7 129 158-299 249-379 (424)
28 cd08060 MPN_UPF0172 Mov34/MPN/ 99.3 4.9E-11 1.1E-15 112.5 13.1 110 165-282 1-114 (182)
29 cd08065 MPN_eIF3h Mpr1p, Pad1p 99.2 7.7E-11 1.7E-15 116.9 9.2 105 71-176 1-105 (266)
30 cd08059 MPN_prok_mb Mpr1p, Pad 99.1 4.3E-10 9.3E-15 95.3 9.5 91 169-280 2-92 (101)
31 cd08067 MPN_2A_DUB Mov34/MPN/P 99.1 4.4E-10 9.5E-15 106.5 10.4 117 72-194 6-129 (187)
32 cd08056 MPN_PRP8 Mpr1p, Pad1p 99.1 7.8E-10 1.7E-14 109.0 12.3 126 162-302 37-170 (252)
33 TIGR03735 PRTRC_A PRTRC system 99.0 2E-09 4.3E-14 102.2 11.0 113 163-299 73-185 (192)
34 PF01398 JAB: JAB1/Mov34/MPN/P 99.0 2.8E-10 6E-15 98.1 3.4 87 70-158 3-90 (114)
35 TIGR02256 ICE_VC0181 integrati 99.0 8.7E-09 1.9E-13 92.6 12.1 110 170-280 3-114 (131)
36 cd08062 MPN_RPN7_8 Mpr1p, Pad1 98.9 1.6E-09 3.4E-14 108.5 7.8 88 71-158 1-91 (280)
37 cd08057 MPN_euk_non_mb Mpr1p, 98.9 1.9E-09 4.1E-14 98.7 6.3 84 73-159 1-86 (157)
38 cd08064 MPN_eIF3f Mpr1p, Pad1p 98.6 8.2E-08 1.8E-12 95.3 6.5 84 73-159 1-86 (265)
39 smart00232 JAB_MPN JAB/MPN dom 98.4 1E-06 2.2E-11 76.9 8.6 97 72-170 1-97 (135)
40 cd08061 MPN_NPL4 Mov34/MPN/PAD 98.3 1.3E-05 2.8E-10 80.5 15.3 135 158-299 8-160 (274)
41 cd08068 MPN_BRCC36 Mov34/MPN/P 98.3 4.9E-06 1.1E-10 82.1 11.6 120 71-195 2-133 (244)
42 PF03665 UPF0172: Uncharacteri 98.3 1E-05 2.2E-10 77.5 12.4 116 161-282 2-120 (196)
43 KOG1555|consensus 98.3 6.2E-07 1.4E-11 90.7 4.1 102 71-174 31-145 (316)
44 KOG3050|consensus 98.0 2.2E-05 4.8E-10 76.9 7.8 162 160-350 8-176 (299)
45 cd08060 MPN_UPF0172 Mov34/MPN/ 97.9 2.4E-05 5.2E-10 74.1 7.2 71 75-188 1-75 (182)
46 cd08058 MPN_euk_mb Mpr1p, Pad1 97.9 1.7E-05 3.7E-10 69.4 5.6 81 79-171 2-87 (119)
47 cd07767 MPN Mpr1p, Pad1p N-ter 97.6 0.0001 2.2E-09 62.9 4.8 46 80-125 1-46 (116)
48 cd08066 MPN_AMSH_like Mov34/MP 97.5 0.0002 4.3E-09 67.3 6.8 60 71-130 2-63 (173)
49 PF05021 NPL4: NPL4 family; I 97.4 0.0015 3.3E-08 66.6 12.1 107 186-299 2-143 (306)
50 PLN03246 26S proteasome regula 97.4 0.00035 7.6E-09 71.1 7.2 90 67-156 2-94 (303)
51 cd08063 MPN_CSN6 Mpr1p, Pad1p 97.4 0.00016 3.5E-09 72.8 4.1 80 72-156 2-90 (288)
52 KOG3289|consensus 97.1 0.0065 1.4E-07 57.4 12.0 114 162-281 3-119 (199)
53 cd08070 MPN_like Mpr1p, Pad1p 96.9 0.0053 1.1E-07 54.3 8.4 43 79-121 3-45 (128)
54 PF03665 UPF0172: Uncharacteri 96.0 0.0083 1.8E-07 57.6 4.7 48 71-118 2-51 (196)
55 KOG1560|consensus 95.2 0.069 1.5E-06 53.8 7.8 111 70-182 12-129 (339)
56 COG1310 Predicted metal-depend 93.8 0.098 2.1E-06 46.6 4.8 77 73-158 2-80 (134)
57 KOG2975|consensus 93.4 0.041 8.9E-07 54.9 1.8 85 65-152 12-101 (288)
58 KOG3289|consensus 92.9 0.12 2.6E-06 49.1 4.1 50 72-121 3-54 (199)
59 cd08072 MPN_archaeal Mov34/MPN 89.7 0.43 9.2E-06 42.0 4.0 38 76-117 2-39 (117)
60 PF14464 Prok-JAB: Prokaryotic 84.1 0.95 2.1E-05 37.8 2.9 37 79-115 4-40 (104)
61 KOG2834|consensus 84.0 11 0.00024 40.8 11.2 130 162-299 176-341 (510)
62 KOG1556|consensus 80.7 3 6.6E-05 41.8 5.3 85 70-156 8-97 (309)
63 cd08071 MPN_DUF2466 Mov34/MPN/ 80.4 21 0.00046 31.2 10.0 25 238-262 59-83 (113)
64 KOG1795|consensus 78.8 4.2 9E-05 48.7 6.3 126 163-303 2097-2226(2321)
65 PF04002 RadC: RadC-like JAB d 67.3 47 0.001 29.3 9.0 25 238-262 64-88 (123)
66 TIGR02256 ICE_VC0181 integrati 64.9 6.7 0.00015 35.6 3.2 37 81-118 3-41 (131)
67 cd08073 MPN_NLPC_P60 Mpr1p, Pa 54.6 9.4 0.0002 33.1 2.3 24 80-103 3-26 (108)
68 PF15659 Toxin-JAB1: JAB-like 50.5 17 0.00036 34.3 3.3 28 236-264 113-140 (162)
69 PRK00024 hypothetical protein; 42.0 2.5E+02 0.0053 27.6 10.2 103 166-280 105-212 (224)
70 TIGR00608 radc DNA repair prot 37.2 4E+02 0.0087 26.1 10.8 102 166-280 99-206 (218)
71 PF14778 ODR4-like: Olfactory 32.1 67 0.0014 33.7 4.8 61 187-250 1-74 (362)
72 PF14220 DUF4329: Domain of un 31.2 39 0.00084 30.4 2.4 25 238-262 58-87 (123)
73 TIGR03735 PRTRC_A PRTRC system 31.0 42 0.00091 32.5 2.8 29 74-102 74-102 (192)
74 KOG3258|consensus 23.3 36 0.00078 30.3 0.8 31 85-121 76-108 (133)
75 PRK09411 carbamate kinase; Rev 23.1 96 0.0021 32.0 3.9 48 40-87 110-175 (297)
76 COG5178 PRP8 U5 snRNP spliceos 21.6 1.2E+02 0.0026 37.0 4.6 110 180-303 2151-2266(2365)
77 cd08059 MPN_prok_mb Mpr1p, Pad 20.2 1.1E+02 0.0024 25.5 3.1 35 81-118 4-38 (101)
No 1
>KOG1554|consensus
Probab=100.00 E-value=1e-106 Score=784.93 Aligned_cols=324 Identities=71% Similarity=1.174 Sum_probs=306.6
Q ss_pred hHHHHhccccccCccccccccccccCCHHHHHHHHHcCCCCCCCCccceeeehHHHHHHHHHhhhcCCCeeEEeeecccc
Q psy1714 24 SQIAQKTWIMENNIETLSATDEIFKYDRKRQQDMIAAKPWEKDPHFFKDIKISALALLKMVMHARSGGTLEVMGLLLGKI 103 (449)
Q Consensus 24 ~~~~~~~~~~~n~~~~~~~~d~~~~~d~~~~~~~~~~~pw~~~p~~f~~v~is~~a~~km~~ha~~g~~~evmg~~~g~~ 103 (449)
+.+|+++||++||++.++..|.||+||.+.+.++..++||++||+||++|+||||||+||++||++||+|||||+|+||+
T Consensus 6 s~~~~k~we~en~~~~~~~~deif~yd~~sq~~~~~~kpw~~Dp~~fk~vkISalAllKm~~hA~~GgnlEiMGlm~Gkv 85 (347)
T KOG1554|consen 6 SYTAQKTWELENNIQSVESEDEIFRYDQKSQRKIILEKPWSTDPHYFKHVKISALALLKMVMHARSGGNLEIMGLMQGKV 85 (347)
T ss_pred ccchhHHHHHhhhhccCccchhhhhcCHHHHHHHHhcCcccCCCchhhhhhhHHHHHHHHHHHHhcCCCeEEEeeecccc
Confidence 34799999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred cCCceeEeeccccccCCcccccchhhhHHHHHHHHHHHhcccccccccccccCCCCceeEEECHHHHHHHHHHHhcCCCc
Q psy1714 104 DANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVRHQEVIPLTLIPHFFKDIKISALALLKMVMHARSGGTL 183 (449)
Q Consensus 104 ~~~~~~v~d~~~lpv~g~e~~vna~~~~~~~m~~~~~~~~~vr~~e~i~w~~~p~~~~~V~Is~~vLlkIl~Ha~~~~p~ 183 (449)
++++|||||+|+|||||||||||||++||||||+|++..++
T Consensus 86 ~g~t~IvmD~FaLPVeGTETRVNAq~~AyEYmv~Y~e~~k~--------------------------------------- 126 (347)
T KOG1554|consen 86 DGDTIIVMDSFALPVEGTETRVNAQAEAYEYMVQYIEEAKN--------------------------------------- 126 (347)
T ss_pred cCCeEEEEeccccccccccceechHHHHHHHHHHHHHHHHH---------------------------------------
Confidence 99999999999999999999999999999999999876542
Q ss_pred eeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCceEEEEecCCCCCCcccHhhHHhH
Q psy1714 184 EVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGWYHSHPGYGCWLSGIDVSTQ 263 (449)
Q Consensus 184 EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VVGWYHSHP~~~~~pS~iDI~tQ 263 (449)
+||.+++||||||||+|+||+|++||.||
T Consensus 127 ---------------------------------------------------~gr~envVGWyHSHPgYgCWLSgIDVsTQ 155 (347)
T KOG1554|consen 127 ---------------------------------------------------VGRLENVVGWYHSHPGYGCWLSGIDVSTQ 155 (347)
T ss_pred ---------------------------------------------------hhhhhceeeeeecCCCCCccccCcchhHH
Confidence 25678999999999999999999999999
Q ss_pred HhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccCCCCCCCCCCCccccccchhhhccccccceEEeeeeEEeeCHHHH
Q psy1714 264 MLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKPANEEPSEYQTIPLNKIEDFGVHCKQYYSLDVSYFKSSLDR 343 (449)
Q Consensus 264 ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~~~~~~~~e~~siPl~ki~~~g~~~~~yy~L~V~~~~S~ld~ 343 (449)
.++|++++||||+||||.||.+.|++.|+|||++|.||+||++.|++|++||+.||+|||+||.+||+|+|+||+|.+|.
T Consensus 156 ~lNQ~fQePfvAvViDP~Rtlsagkv~iGAFRTyp~gyk~~d~~~seyqtipl~kied~gvHck~yysl~isyfks~ld~ 235 (347)
T KOG1554|consen 156 MLNQRFQEPFVAVVIDPTRTLSAGKVNIGAFRTYPKGYKPPDEPPSEYQTIPLNKIEDFGVHCKQYYSLEISYFKSSLDM 235 (347)
T ss_pred HHhhhhcCCeEEEEecCccccccCceeeceeecccCCCCCCCCCchhhhccchhhhhhcccceEEeeccchhhhhhhhhH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhhhHhhhccCcccccHHHHHHHHHHHHHHHHHHHHhhhccccccccccCCc--hhhhHHHhhhhhHHHHHHH
Q psy1714 344 RLLDSLWNKYWVNTLSSSSLLTNADYLTGQMCDLSDKLEQAESALVRNFLISESQERRP--ETKLMKATKDCCKTTIECI 421 (449)
Q Consensus 344 ~~L~~L~~~~W~~~Ls~s~l~~n~~~~~~~i~dl~~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~e~~ 421 (449)
++|+.||++||+++|+++|+++|.+|+++|+.||+.|+.|++.+++++. ...+++. +.+|+|+++|+++...|+.
T Consensus 236 kll~~Lwnkywv~Tlsss~ll~N~dy~~~qi~d~~ekl~q~~~~l~~s~---~~~d~~~ed~~~l~k~~~Ds~~~~~e~~ 312 (347)
T KOG1554|consen 236 KLLELLWNKYWVRTLSSSPLLKNIDYLNGQIRDLSEKLEQREDSLETSD---NTHDRKSEDENLLAKATRDSSKCTNELI 312 (347)
T ss_pred HHHHHHHhhhhhcccccccccccchhhcchhhhHHHHHHhhhhhcccCc---ccccccccchhhhhhhhhhhhhhhhcch
Confidence 9999999999999999999999999999999999999999999998772 2333333 3459999999999999999
Q ss_pred HhHHHHHHHHHHhCCCCCC
Q psy1714 422 HGLMAQMIKQQLFNHNMKH 440 (449)
Q Consensus 422 ~~~~~~~~k~~~~~~~~~~ 440 (449)
+|||+++||++||+.....
T Consensus 313 ~gl~s~vvkd~lf~~~~~~ 331 (347)
T KOG1554|consen 313 HGLMSQVVKDKLFNDNFHS 331 (347)
T ss_pred hHHHHHHHHHHHHHhhccc
Confidence 9999999999999965443
No 2
>cd08069 MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal regulatory protein Rpn11 and signalosome complex subunit CSN5. This family contains proteasomal regulatory protein Rpn11 (26S proteasome regulatory subunit rpn11; PAD1; POH1; RPN11; PSMD14; Rpn11 subunit of the 19S-proteasome; regulatory particle number 11) and signalosomal CSN5 (COP9 signalosome complex subunit 5; COP9 complex homolog subunit 5; c-Jun activation domain-binding protein-1; CSN5/JAB1; JAB1). COP9 signalosome (CSN) and the proteasome lid are paralogous complexes and their respective subunits CSN5 and Rpn11 are most closely related between the two complexes, both containing the conserved JAMM (JAB1/MPN/Mov34 metalloenzyme) motif involved in zinc ion coordination and providing the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology; mutations i
Probab=100.00 E-value=1.1e-56 Score=443.18 Aligned_cols=262 Identities=58% Similarity=0.965 Sum_probs=236.6
Q ss_pred ccccCCCCceeEEECHHHHHHHHHHHhcCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHH-
Q psy1714 152 PLTLIPHFFKDIKISALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIE- 230 (449)
Q Consensus 152 ~w~~~p~~~~~V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mle- 230 (449)
||+.+|+++++|.|++.|+++|++||+++.|.||||+|+|.+++++++|++|||+|+.++++++++.+ +|+..|++
T Consensus 1 ~~~~~~~~~~~V~Is~~allkil~Ha~~~~p~Ev~GlLlG~~~~~~v~Vt~~fp~p~~~t~~~v~~~~---e~~~~m~~~ 77 (268)
T cd08069 1 PWKPDPDYFEKVYISSLALLKMLKHARAGGPIEVMGLMLGKVDDYTIIVVDVFALPVEGTETRVNAQD---EFQEYMVQY 77 (268)
T ss_pred CCCCCCCcccEEEECHHHHHHHHHHHhccCCceEEEEEEeeecCCeEEEEEEEECCcCCCCCceeccH---HHHHHHHHH
Confidence 89999999999999999999999999999999999999999999999999999999999999887653 56666777
Q ss_pred -HHHHhCCCCceEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccCCCCC--CCCC
Q psy1714 231 -AAKEVGRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKP--ANEE 307 (449)
Q Consensus 231 -llrkvgr~e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~~--~~~~ 307 (449)
+++++++++++||||||||+++||||.+|++||..||++.+|+|+|||||.++.++|++.|+|||++|.++.+ +.+.
T Consensus 78 ~~~~~~~~~~~vVGWYHSHP~~g~~~S~~Dv~tq~~yq~~~~~~V~lViDP~~t~~~g~~~i~Afr~~~~~~~~~~~~~~ 157 (268)
T cd08069 78 EMLKQTGRPENVVGWYHSHPGYGCWLSGIDVNTQQLNQQLQDPFVAVVVDPIRSLVKGKVVIGAFRTIPPGYKPLEPRQT 157 (268)
T ss_pred HHHHHhCCCceeEeeeccCCCcCCcCCHHHHHHHHHHHhcCCCcEEEEEeCCccccCCcceeeEEEEECccccccCcccC
Confidence 9999999999999999999999999999999999999999999999999999867999999999999999886 5555
Q ss_pred CCccccccchhhhccccccceEEeeeeEEeeCHHHHHHHHHhhhhhhHhhhccCcccccH-HHHHHHHHHHHHHHHHHHH
Q psy1714 308 PSEYQTIPLNKIEDFGVHCKQYYSLDVSYFKSSLDRRLLDSLWNKYWVNTLSSSSLLTNA-DYLTGQMCDLSDKLEQAES 386 (449)
Q Consensus 308 ~~e~~siPl~ki~~~g~~~~~yy~L~V~~~~S~ld~~~L~~L~~~~W~~~Ls~s~l~~n~-~~~~~~i~dl~~~~~~~~~ 386 (449)
.++++.+|..+++++|.+++.||+|||+|++|.+|+.+|..||++||+++|+++++.+|+ ++..++|.+|+.+++++..
T Consensus 158 ~s~~~~~~~~~~~~~~~~~~~y~~l~i~~~~s~l~~~~L~~l~~~~w~~~l~~~~~~~~~~~~~~~~~~~l~~~~~~~~~ 237 (268)
T cd08069 158 TSNIGHLPKPKIEDFGGHNKQYYSLPIEYFKSSLDRKLLLNLWNKYWVNTLSLSPLLENSNEYTIKQILDLAEKLEKAEQ 237 (268)
T ss_pred ccccCccCcHHHHHhCchhcEEEEeeeEEecCHHHHHHHHHHHHHhHHHHhhCCchhhhhhHHHHHHHHHHHHHHHHHHh
Confidence 677888999999999999999999999999999999999999999999999999999998 9999999999999999988
Q ss_pred hhhccccccccccCCchhhhHHHhhhhhHHHHH
Q psy1714 387 ALVRNFLISESQERRPETKLMKATKDCCKTTIE 419 (449)
Q Consensus 387 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~e 419 (449)
...+.. ......+..+++.|+ +|+.|+++|
T Consensus 238 ~~~~~~--~~~~~~~~~~~~~~~-~~~~~~~~~ 267 (268)
T cd08069 238 QEERLT--GEELDIANVGKLDKA-RDSSKIHLE 267 (268)
T ss_pred hhhccC--hhhhcccchhhhhhc-cccchhhhc
Confidence 776541 112233445667777 888888776
No 3
>cd08065 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h. Eukaryotic translation initiation factor 3 (eIF3) subunit h (eIF3h; eIF3 subunit 3; eIF3S3; eIF3-gamma; eIF3-p40) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity.Together with eIF3e and eIF3f, eIF3h stabilizes the eIF3 complex. Results suggest that eIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. For example, EIF3h gene amplification is common in late-stage prostate cancer suggesting that it may be functionally involved in the progression of the disease. It has been shown that coamplification of MYC, a well characterized oncogene involved in cell growth, different
Probab=100.00 E-value=1.9e-35 Score=291.68 Aligned_cols=218 Identities=24% Similarity=0.342 Sum_probs=176.4
Q ss_pred eeEEECHHHHHHHHHHHhcCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCc
Q psy1714 161 KDIKISALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLEN 240 (449)
Q Consensus 161 ~~V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~ 240 (449)
++|.|++.|+++|++||.++.|.||||+|+|...+++++||+|||+|+.+++++.....++.+|+.+|+++++++|.+++
T Consensus 1 ~~V~I~~~vllkIv~H~~~~~p~~v~G~LLG~~~~~~leVtn~Fp~P~~~~~~~~~~~~~~~~yq~~m~~~~r~v~~~e~ 80 (266)
T cd08065 1 TSVQIDGLVVLKIIKHCKEELPELVQGQLLGLDVGGTLEVTNCFPFPKSEEDDSDRADEDIADYQLEMMRLLREVNVDHN 80 (266)
T ss_pred CEEEEeHHHHHHHHHHHhcCCCcEEEEEEeeeEcCCEEEEEeccCCCCCCCCCcchhhhhHHHHHHHHHHHHHHhCCCCc
Confidence 47999999999999999999999999999999999999999999999987766533344566899999999999999999
Q ss_pred eEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccCCCCCCCCCCCccccccchhhh
Q psy1714 241 AIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKPANEEPSEYQTIPLNKIE 320 (449)
Q Consensus 241 VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~~~~~~~~e~~siPl~ki~ 320 (449)
+|||||||| +++|.+..+|++|..||...+++|+||+||.++ +.|++.+||||+.|.+.....+ ..+.. ..++
T Consensus 81 iVGWY~S~p-~~~~~~~s~id~~~~~q~~~~~~v~Li~D~~~s-~~g~l~lkAyrl~~~~~~~~~~--~~~~~---~~l~ 153 (266)
T cd08065 81 HVGWYQSTY-LGSFFTRDLIETQYNYQEAIEESVVLVYDPSKT-SQGSLSLKAYRLSEKFMELYKE--GKFST---ESLR 153 (266)
T ss_pred EEEeEeecC-CCCcCCHHHHHHHHHHhccCCCCEEEEECCCcc-cccceeeEEEEEcHHHHHHhhc--CCcCH---HHHH
Confidence 999999999 999988899999999998888999999999975 4789999999999965432111 12221 1222
Q ss_pred cccc-ccceEEeeeeEEeeCHHHHHHHHHhhhh-------hhHhhhccCccc-ccHHHHHHHHHHHHHHHHHHH
Q psy1714 321 DFGV-HCKQYYSLDVSYFKSSLDRRLLDSLWNK-------YWVNTLSSSSLL-TNADYLTGQMCDLSDKLEQAE 385 (449)
Q Consensus 321 ~~g~-~~~~yy~L~V~~~~S~ld~~~L~~L~~~-------~W~~~Ls~s~l~-~n~~~~~~~i~dl~~~~~~~~ 385 (449)
..+. ..+.|++|||+++++.+++.+|..|.+. +-...|+..+++ .|.+.+.++|++|...+.+..
T Consensus 154 ~~~~~~~~if~eiPv~i~n~~l~~~~L~~l~~~~~~~~~~~~~l~l~~~~~le~~l~~l~~~id~l~~e~~~~~ 227 (266)
T cd08065 154 EANLTFSNIFEEIPVVIRNSHLVNALLSELEEDSPSSQSDFDRLDLSTNSFLEKNLELLMESVDELSQEQGKFN 227 (266)
T ss_pred HhcCchhcEEEEEEEEEEchHHHHHHHHhcccCCCcccCCcccccccCchhHHHHHHHHHHHHHHHHHHHHHHH
Confidence 2232 2678999999999999999999999653 222455555655 677888888888887776543
No 4
>cd08067 MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase. This family includes histone H2A deubiquitinase (Histone H2A DUB;MYSM1; myb-like, SWIRM and MPN domains 1; 2ADUB; 2A-DUB; KIAA19152ADUB, or KIAA1915/MYSM1), a member of JAMM/MPN+ deubiquitinases (DUBs), with possible Zn2+-dependent ubiquitin isopeptidase activity. It contains the SWIRM (Swi3p, Rsc8p and Moira), and SANT (SWI-SNF, ADA N-CoR, TFIIIB)/Myb domains; the SANT, but not the SWIRM, domain can bind directly to DNA. 2A-DUB is specific for monoubiquitinated H2A (uH2A), regulating transcription by coordinating histone acetylation and deubiquitination, and destabilizing the association of linker histone H1 with nucleosomes. 2A-DUB interacts with p/CAF (p300/CBP-associated factor) in a co-regulatory protein complex, where the status of acetylation of nucleosomal histones modulates its deubiquitinase activity. 2A-DUB is a positive regulator of androgen receptor (AR) transactivation activity on a reporter gene; it p
Probab=99.97 E-value=2.8e-30 Score=243.26 Aligned_cols=132 Identities=27% Similarity=0.345 Sum_probs=114.6
Q ss_pred eEEECHHHHHHHHHHHhcCCCceeEEEEeeeecC--CeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCC
Q psy1714 162 DIKISALALLKMVMHARSGGTLEVMGLLLGKIDA--NSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLE 239 (449)
Q Consensus 162 ~V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~--~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e 239 (449)
+|.|++.||++|++||+.+. .||||+|+|.+++ ..++|+++||+|+..++++++. +.+++.++++.+++ +++
T Consensus 6 ~V~Is~~all~m~~Ha~~~~-~EvcGlL~G~~d~~~~~l~Vt~~~p~~~~~~~~~~e~---dp~~q~e~~~~l~~--~gl 79 (187)
T cd08067 6 KVTVSSNALLLMDFHCHLTT-SEVIGYLGGTWDPNTQNLTILQAFPCRSRLTGLDCEM---DPVSETEIRESLES--RGL 79 (187)
T ss_pred EEEECHHHHHHHHHHhcCCC-cEEEEEEEeEEcCCCCeEEEEEEEecCCCCCCccccc---CHHHHHHHHHHHHH--cCC
Confidence 79999999999999999877 9999999999764 5789999999999777666653 24667888899987 558
Q ss_pred ceEEEEecCCCCCCcccHhhHHhHHhhhccCC-------CeEEEEEcCCCCcC-CCeeEEEEEEEccC
Q psy1714 240 NAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQE-------PFVAIVIDPVRTIS-AGKVCLGSFRTYPK 299 (449)
Q Consensus 240 ~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~-------p~VaLIvDP~~t~~-~Gkv~IkAFRl~p~ 299 (449)
++||||||||.++|+||.+||+||..||.+.+ |||+|||||+.+.+ ..+..|+||++.|+
T Consensus 80 ~vVGwYHSHP~~~~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~~~~~~~~~s~i~~f~~~~~ 147 (187)
T cd08067 80 SVVGWYHSHPTFPPNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPYDRRNSTPESQITCFWVMPP 147 (187)
T ss_pred EEEEEEecCCCCCcCCCHHHHHHHHHHHhhccccccCCCCeEEEEEccccCCCCCCCCcEEEEEEECC
Confidence 99999999999999999999999999998754 89999999998643 34568999999994
No 5
>cd08064 MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF3f. Eukaryotic translation initiation factor 3 (eIF3) subunit F (eIF3F; EIF3S5; eIF3-p47; eukaryotic translation initiation factor 3, subunit 5 epsilon, 47kDa; Mov34/MPN/PAD-1 family protein) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity. It has been shown that eIF3f mRNA expression is significantly decreased in many human tumors including pancreatic cancer and melanoma. EIF3f is a potent inhibitor of HIV-1 replication; it mediates restriction of HIV-1 expression through several factors including the serine/arginine-rich (SR) protein 9G8, and cyclin-dependent kinase 11 (CDK11). EIF3f phosphorylation by CDK11 is important in regulating its function in translation and ap
Probab=99.97 E-value=5.5e-29 Score=245.48 Aligned_cols=243 Identities=17% Similarity=0.248 Sum_probs=193.3
Q ss_pred EEECHHHHHHHHHHHhc--CCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCc
Q psy1714 163 IKISALALLKMVMHARS--GGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLEN 240 (449)
Q Consensus 163 V~Is~~vLlkIl~Ha~~--~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~ 240 (449)
|.|+|+|+++|++||.+ ..+.+|+|.|+|...+++++|++||++|+..+++++. .+.+|+.+|+++++++++++.
T Consensus 1 v~ihPlVll~I~dH~~R~~~~~~~V~G~LLG~~~~~~veItnsF~~p~~~~~~~~~---~d~~y~~~m~~~~kkv~~~~~ 77 (265)
T cd08064 1 VRVHPVVLFSILDSYERRNEGQERVIGTLLGTRSEGEVEITNCFAVPHNESEDQVA---VDMEYHRTMYELHQKVNPKEV 77 (265)
T ss_pred CEEccHHHHhHHHHHhhhcCCCcEEEEEEEEEEeCCEEEEEeCeecceeCCCCeEE---EcHHHHHHHHHHHHHhCCCCc
Confidence 68999999999999964 6779999999999999999999999999987766543 246899999999999999999
Q ss_pred eEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccCCCCCCCCCCCccccccchhhh
Q psy1714 241 AIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKPANEEPSEYQTIPLNKIE 320 (449)
Q Consensus 241 VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~~~~~~~~e~~siPl~ki~ 320 (449)
+||||||||... ++...|+.|+.+|...+++|+|++||..+ .+++.++||++.+.+....
T Consensus 78 vVGWY~tg~~~~--~~~~~Ih~~~~~~~~~~~pI~L~~D~~~~--~~~l~i~ay~~~~~~~~~~---------------- 137 (265)
T cd08064 78 IVGWYATGSEIT--EHSALIHDYYSRECTSYNPIHLTVDTSLD--DGKMSIKAYVSSPLGVPGK---------------- 137 (265)
T ss_pred EEeeeeCCCCCC--ccHHHHHHHHHhhCCCCCCEEEEEeCCCC--CCCcceEEEEEEecccCCC----------------
Confidence 999999999543 34555666665554434789999999864 4589999999999753211
Q ss_pred ccccccceEEeeeeEEeeCHHHHHHHHHhhhhhhHhhhccCcccccHHHHHHHHHHHHHHHHHHHHhhhcc--ccccccc
Q psy1714 321 DFGVHCKQYYSLDVSYFKSSLDRRLLDSLWNKYWVNTLSSSSLLTNADYLTGQMCDLSDKLEQAESALVRN--FLISESQ 398 (449)
Q Consensus 321 ~~g~~~~~yy~L~V~~~~S~ld~~~L~~L~~~~W~~~Ls~s~l~~n~~~~~~~i~dl~~~~~~~~~~~~~~--~~~~~~~ 398 (449)
.....|.++|+++..++.|+..++.|++.+|..+ ..+++.++.+++.+.+.+|..+++++..-+..- |.. +.
T Consensus 138 ---~~~~~F~~ip~~i~~~eaE~i~v~~l~~~~~~~~-~~~~~~~~l~~~~~al~~L~~~l~~i~~Yl~~V~~g~~--~~ 211 (265)
T cd08064 138 ---TLGSMFVPIPLELLYSEAERVALDLLAKTLASPS-RSAPLTSDLEQLEASLEKLQEMLDRVLRYVEDVLAGKV--KA 211 (265)
T ss_pred ---CcceEEEEcceeeecCcHHHHHHHHHHhhccCCc-ccccchhhHHHHHHHHHHHHHHHHHHHHHHHHHHcCCC--CC
Confidence 1256799999999999999999999999999877 566677899999999999999999999877532 110 11
Q ss_pred cCCchhhhHHHhhhhhHHHHHHHHhHHHHHHHHHHh
Q psy1714 399 ERRPETKLMKATKDCCKTTIECIHGLMAQMIKQQLF 434 (449)
Q Consensus 399 ~~~~~~~~~~~~~~~~~~~~e~~~~~~~~~~k~~~~ 434 (449)
+..-...|.+++...-++..|+..+++...+++.|+
T Consensus 212 d~~i~r~l~~~~~~lp~~~~~~f~~~~~~~~~D~lm 247 (265)
T cd08064 212 DNAIGRYLMDALTSVPKLDPEEFEKMFNSSLQDLLM 247 (265)
T ss_pred CHHHHHHHHHHHhhCCCCCHHHHHHHHHhhcchHHH
Confidence 112234566677777777788888888888887765
No 6
>KOG1555|consensus
Probab=99.95 E-value=4.6e-28 Score=241.45 Aligned_cols=263 Identities=29% Similarity=0.453 Sum_probs=193.9
Q ss_pred CCCceeEEECHHHHHHHHHHHhcCCCce-eEEEE-ee---e-ecCCeEEEEEEEeCCccCCCCc--ccccccHHHHHHHH
Q psy1714 157 PHFFKDIKISALALLKMVMHARSGGTLE-VMGLL-LG---K-IDANSMIVMDAFALPVEGTETR--VNAQAQAYEYMTAY 228 (449)
Q Consensus 157 p~~~~~V~Is~~vLlkIl~Ha~~~~p~E-VmGLL-LG---~-~d~~tl~Vtd~F~lP~~~tetr--v~a~~e~~ey~~~m 228 (449)
.+.-++|.|+..++++|++|.|.+.|.| ++|+| +| . ++..++.|.+.|+.|..++.-. +++. +.-++.+|
T Consensus 27 ~~~~e~v~i~slall~m~rh~r~~~p~e~v~Glm~lg~~~~fv~~~Tv~vv~v~am~~sg~~is~~~e~~--d~V~q~q~ 104 (316)
T KOG1555|consen 27 SDEKETVYISSLALLKMLRHDRAGSPEETVMGLMSLGRLPEFVDDYTVRVVDVFAMPQSGTGISKFVEAV--DPVFQTQM 104 (316)
T ss_pred ccCcceeeeehhhhhhcccccccCCchhhccceeecccccceeeecceeeeeeeccccccceecccchhc--cHHHHHHH
Confidence 4567799999999999999999999999 99999 99 3 4667899999999999887654 3332 34678999
Q ss_pred HHHHHHhCCCCceEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccCCCCCCCCCC
Q psy1714 229 IEAAKEVGRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKPANEEP 308 (449)
Q Consensus 229 lellrkvgr~e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~~~~~~~ 308 (449)
+++++..|+.+.|||||||||+++||||..||+||+.||...+..++.+|||..+. .|++.+.|||+.......+..+|
T Consensus 105 ~~~l~~tGrp~~VVGWYHSHP~f~~wpS~vDi~tQ~syq~~~~r~~a~~v~~i~S~-~g~vv~d~f~~In~~~~~~~~ep 183 (316)
T KOG1555|consen 105 MDLLKQTGRPELVVGWYHSHPGFGCWPSLVDIDTQQSYQALSSRAVAVVVDPIQSP-YGKVVPDAFSSINPQWISPGGEP 183 (316)
T ss_pred HHHHHhcCCcceEEeeccCCCCCCCCccccchhHHHHHhhhccCCcceeeecccCC-CCCccCChhhhcCcccccCCCCC
Confidence 99999999999999999999999999999999999999999889999999999875 88888999999886555544556
Q ss_pred Ccccc--ccchh----hhc-cccccceEEeeeeEEeeCHHHHHHHHHhhhhhhHhhhccCccc---ccHHHHHHHHHHHH
Q psy1714 309 SEYQT--IPLNK----IED-FGVHCKQYYSLDVSYFKSSLDRRLLDSLWNKYWVNTLSSSSLL---TNADYLTGQMCDLS 378 (449)
Q Consensus 309 ~e~~s--iPl~k----i~~-~g~~~~~yy~L~V~~~~S~ld~~~L~~L~~~~W~~~Ls~s~l~---~n~~~~~~~i~dl~ 378 (449)
+.+.+ .|+++ .++ +|. +.||.++|.+++...++.++..+..+.|.+. .-.-+. ++.+.-..++..|+
T Consensus 184 rqtts~~~~m~~~~s~q~~~~g~--n~y~~~ei~~~v~~~~~~~~~nv~~~s~~~~-~~~~y~e~~k~~~~~~~~~~sL~ 260 (316)
T KOG1555|consen 184 RQTTSNGGHMDMQESLQEDIHGL--NRYYRIEIPLHVLPYEQLMLLNVPLKSWKSL-QDVLYEEKLKAYLQSVPSMKSLS 260 (316)
T ss_pred ccccccccccccchhHHhHhhcc--CceEEEEeeEEechhhhhchhccchhhhhhc-chhhHHHHHHHhhhhhhHHHhHH
Confidence 65443 25554 122 443 2799999999999999999999999988853 222111 11122334555565
Q ss_pred HHHHHHHHhhhccccccccccCCchhhhHH-HhhhhhHHHHHHHHhHHHHHHHHHH
Q psy1714 379 DKLEQAESALVRNFLISESQERRPETKLMK-ATKDCCKTTIECIHGLMAQMIKQQL 433 (449)
Q Consensus 379 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~e~~~~~~~~~~k~~~ 433 (449)
..+.++-...... +.....+.+ ..+|.++..-|...-+++..++..|
T Consensus 261 ~~~N~~~~~~k~~--------~~~~~~i~d~~~~~~kq~l~~~v~~~~~~nl~~~l 308 (316)
T KOG1555|consen 261 KVYNKVCDVCKQM--------SDFLLMIEDVGEQNPKQHLKEAVTELLSENLVQEL 308 (316)
T ss_pred HHHHHHHHHHhhc--------cHHHHHHHHhhhhhHHHHhHHHhhhhcccchhhcc
Confidence 5555333221100 001112222 3567677777777777777776655
No 7
>cd08058 MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); eukaryotic. This family contains eukaryotic MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains found in proteins with a variety of functions, including AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM), H2A-DUB (histone H2A deubiquitinase), BRCC36 (BRCA1/BRCA2-containing complex subunit 36), as well as Rpn11 (regulatory particle number 11) and CSN5 (COP9 signalosome complex subunit 5). These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology. CSN5 is critical for nuclear export and the degradation of several tumor suppressor prot
Probab=99.95 E-value=1.1e-27 Score=209.07 Aligned_cols=114 Identities=38% Similarity=0.516 Sum_probs=95.3
Q ss_pred HHHHHHHHHHhcCCCceeEEEEeeeec-----CCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCceE
Q psy1714 168 LALLKMVMHARSGGTLEVMGLLLGKID-----ANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAI 242 (449)
Q Consensus 168 ~vLlkIl~Ha~~~~p~EVmGLLLG~~d-----~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VV 242 (449)
+++++|++||+++.|.|+||+|+|..+ ...++|+++|+.|.... ..++ |....+..++++++|
T Consensus 1 ~~~~~i~~ha~~~~p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~~~~---------~~~~---~~~~~~~~~~g~~~v 68 (119)
T cd08058 1 DALLKMLQHAESNTGIEVMGLLCGELTHNEFTDKHVIVPKQSAGPDSCT---------GENV---EELFNVQTGRPLLVV 68 (119)
T ss_pred CHHHHHHHHhcCCCCeEEEEEeeeEEecCccceeEEEEeecCCCCCCch---------hHHH---HHHHHHHhCCCCeEE
Confidence 478999999999999999999999976 34578999998776221 2222 233445577999999
Q ss_pred EEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEc
Q psy1714 243 GWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTY 297 (449)
Q Consensus 243 GWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~ 297 (449)
|||||||+++++||..||++|+.||...+++++||+||.++ ++.+||||++
T Consensus 69 G~YHSHP~~~~~pS~~Di~~~~~~q~~~p~~~~lI~s~~~~----~~~~~a~rl~ 119 (119)
T cd08058 69 GWYHSHPTFTAWLSSVDIHTQASYQLMLPEAIAIVVSPKHR----NKDTGIFRLT 119 (119)
T ss_pred EEEecCCCCCCccCHHHHHHHHHHhccCCCeEEEEECcCCC----CcccceEEeC
Confidence 99999999999999999999999999999999999999863 6789999984
No 8
>cd08068 MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subunit of BRCA1-A complex. BRCC36 (BRCA1-A complex subunit BRCC36; BRCA1/BRCA2-containing complex subunit 36; BRCA1/BRCA2-containing complex subunit 3; BRCC3; BRISC complex subunit BRCC36; BRCC36 isopeptidase complex; Lys-63-specific deubiquitinase BRCC36) and BRCC36-like domains are members of JAMM/MPN+ deubiquitinases (DUBs), possibly with Zn2+-dependent ubiquitin isopeptidase activity. BRCC36 is part of the BRCA1/BRCA2/BARD1-containing nuclear complex that displays an E3 ubiquitin ligase activity. It is targeted to DNA damage foci after irradiation; RAP80 recruits the Abraxas-BRCC36-BRCA1-BARD1 complex to DNA double strand breaks (DSBs) for DNA repair through specific recognition of Lys 63-linked polyubiquitinated proteins by its tandem ubiquitin-interacting motifs. A new protein, MERIT40 (mediator of RAP80 interactions and targeting 40 kDa), also named NBA1 (new component of the BRCA1 A complex), exists in the same BRCA1-contai
Probab=99.95 E-value=4.3e-27 Score=229.29 Aligned_cols=138 Identities=29% Similarity=0.460 Sum_probs=107.9
Q ss_pred ceeEEECHHHHHHHHHHHhcCCCceeEEEEeeeecC-------CeEEEEEEEeCCcc-CCCCcccccccHHHHH---HHH
Q psy1714 160 FKDIKISALALLKMVMHARSGGTLEVMGLLLGKIDA-------NSMIVMDAFALPVE-GTETRVNAQAQAYEYM---TAY 228 (449)
Q Consensus 160 ~~~V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~-------~tl~Vtd~F~lP~~-~tetrv~a~~e~~ey~---~~m 228 (449)
+++|.|++.++++|+.||+++.|.||||+|+|.+++ ..+.|...+++++. .+.++++. ++.++. .++
T Consensus 1 l~~V~Is~~~l~~il~HA~~~~P~EvCGLL~G~~~~~~~~~~~~~v~i~~~~~~~~~~~s~~r~ei--dPee~~~a~~ea 78 (244)
T cd08068 1 LSKVHLSADVYLVCLTHALSTEKEEVMGLLIGEIEVSKKGEEVAIVHISAVIILRRSDKRKDRVEI--SPEQLSAASTEA 78 (244)
T ss_pred CcEEEECHHHHHHHHHHHHhCCCcceeEEEEeecccccccccceeEEEeeeccccccCCCCceEEe--CHHHHHHHHHHH
Confidence 368999999999999999999999999999999753 33444444444332 24455543 343332 233
Q ss_pred HHHHHHhCCCCceEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCC---CcCCCeeEEEEEEEccC
Q psy1714 229 IEAAKEVGRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVR---TISAGKVCLGSFRTYPK 299 (449)
Q Consensus 229 lellrkvgr~e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~---t~~~Gkv~IkAFRl~p~ 299 (449)
-++.+..|+++.+||||||||+++||||.+|+++|..||.+++++++||+|+.. +...|++.++|||+.+.
T Consensus 79 ~~~~~~~~rgl~vVGwYHSHP~~~a~PS~~Dv~tq~~~q~~~p~~v~lIvS~~~~~~~~~~~~~~i~aFr~~~g 152 (244)
T cd08068 79 ERLTEETGRPMRVVGWYHSHPHITVWPSHVDVRTQAMYQMMDSGFVGLIFSCFNEDKSTKMGEVQVTCFQSVQG 152 (244)
T ss_pred HHHHhhccCCceEEEEEecCCCCCCCCCHhHHHHHHHHHhhCCCcEEEEEEecCCccccccCCEEEEEEEecCC
Confidence 345556889999999999999999999999999999999999999999999764 33457899999999884
No 9
>cd08062 MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in 19S proteasomal subunits Rpn7 and Rpn8. This family includes lid subunits of the 26 S proteasome regulatory particles, Rpn7 (PSMD7; proteasome 26S non-ATPase subunit 7; p44), and Rpn8 (PSMD8; proteasome 26S non-ATPase subunit 8; p40; Mov34). Rpn7 is known to be critical for the integrity of the 26 S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. Rpn7 and Rpn8 are ATP-independent components of the 19S regulator subunit, and contain the MPN structural motif on its N-terminal region. However, while they show a typical MPN metalloprotease fold, they lack the canonical JAMM motif, and therefore do not show catalytic isopeptidase activity. It is suggested that Rpn7 function is primarily structural.
Probab=99.94 E-value=2.4e-25 Score=221.59 Aligned_cols=203 Identities=20% Similarity=0.280 Sum_probs=164.9
Q ss_pred eeEEECHHHHHHHHHHHhc---CCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCC
Q psy1714 161 KDIKISALALLKMVMHARS---GGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGR 237 (449)
Q Consensus 161 ~~V~Is~~vLlkIl~Ha~~---~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr 237 (449)
++|.|+|+||++|++||.+ +.+.+|+|+|+|...+++++|+|||++|.+.++++.+.+..+.+|+.+|+++++++++
T Consensus 1 ~~V~ihplVLl~I~dh~~R~~~~~~~~ViG~LLG~~~~~~veItnsF~~p~~~~~~~~~~~~~d~~y~~~m~~~~kkv~~ 80 (280)
T cd08062 1 KKVVVHPLVLLSVVDHYNRVAKGTSKRVVGVLLGSWKKGVLDVTNSFAVPFEEDEKDPSVWFLDHNYLENMYGMFKKVNA 80 (280)
T ss_pred CeEEEehHHHHHHHHHHhhhcCCCCceEEEEEEEEEeCCEEEEEEeeecCccCCCCCcchhhhhHHHHHHHHHHHHHhCC
Confidence 4799999999999999954 4478999999999999999999999999987777655444567999999999999999
Q ss_pred CCceEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccCCCCCCCCCCCccccccch
Q psy1714 238 LENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKPANEEPSEYQTIPLN 317 (449)
Q Consensus 238 ~e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~~~~~~~~e~~siPl~ 317 (449)
++.+||||||||+. +..|+..|..|+++.+++|+|++||... .+++.++||...+.+.... . +
T Consensus 81 ~e~vVGWY~tg~~~----~~~d~~ih~~~~~~~~~pv~l~vd~~~~--~~~lpi~aY~s~~~~~~~g---~------~-- 143 (280)
T cd08062 81 KEKIVGWYSTGPKL----RPNDLDINELFRRYCPNPVLVIIDVRPK--DLGLPTEAYIAVEEVHDDG---T------P-- 143 (280)
T ss_pred CCCeEEEecCCCCC----CcchHHHHHHHHHhCCCCEEEEEecCCC--CCCCceEEEEEeeeccCCC---C------c--
Confidence 99999999999974 4567777888999999999999999863 5678999999988553210 0 0
Q ss_pred hhhccccccceEEeeeeEEeeCHHHHHHHHHhhhhhhHhhhccCcccccHHHHHHHHHHHHHHHHHHHHhhh
Q psy1714 318 KIEDFGVHCKQYYSLDVSYFKSSLDRRLLDSLWNKYWVNTLSSSSLLTNADYLTGQMCDLSDKLEQAESALV 389 (449)
Q Consensus 318 ki~~~g~~~~~yy~L~V~~~~S~ld~~~L~~L~~~~W~~~Ls~s~l~~n~~~~~~~i~dl~~~~~~~~~~~~ 389 (449)
....|-++|.++-..+.|+..++.|.+.. ..-+.+.+.+......+.+..|..+++.+..-+.
T Consensus 144 -------~~~~F~~vp~~i~~~eaE~igve~l~r~~--~~~~~~~l~~~l~~~~~al~~L~~~l~~i~~Yl~ 206 (280)
T cd08062 144 -------TSKTFVHVPSEIGAEEAEEVGVEHLLRDI--KDVTVSTLSTRVTNKLNSLKGLQSKLKEIKDYLQ 206 (280)
T ss_pred -------ceeEEEEcceEeeccchHHHHHHHHHhhc--cCcccchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 24679999999999999999999998631 1223344445777778888888888888876553
No 10
>smart00232 JAB_MPN JAB/MPN domain. Domain in Jun kinase activation domain binding protein and proteasomal subunits. Domain at Mpr1p and Pad1p N-termini. Domain of unknown function.
Probab=99.94 E-value=1.1e-25 Score=196.78 Aligned_cols=134 Identities=32% Similarity=0.528 Sum_probs=120.1
Q ss_pred eEEECHHHHHHHHHHHhcCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCce
Q psy1714 162 DIKISALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENA 241 (449)
Q Consensus 162 ~V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~V 241 (449)
.|.|++.++++|++||.+..|.|+||+|+|..++++++|+++|++|+.....++... +.+|+..+.+..++.++++.+
T Consensus 1 ~v~i~~~v~~~i~~h~~~~~p~e~~G~L~G~~~~~~~~i~~~~~~p~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 78 (135)
T smart00232 1 EVKVHPLVPLNILKHAIRDGPEEVCGVLLGKSNKDRPEVKEVFAVPNEPQDDSVQEY--DEDYSHLMDEELKKVNKDLEI 78 (135)
T ss_pred CEEEcHHHHHHHHHHHhcCCCcEEEEEEEEEEcCCEEEEEEEEecCcCCCCcchhhh--hhhHHHHHHHHHHhhCCCceE
Confidence 478999999999999999999999999999998889999999999997665554222 457788888888889999999
Q ss_pred EEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEcc
Q psy1714 242 IGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYP 298 (449)
Q Consensus 242 VGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p 298 (449)
||||||||..+++||..|+.+|..||.....++++++||.++. .|++.++||++.+
T Consensus 79 vGwyhshp~~~~~pS~~D~~~~~~~~~~~~~~~~~~v~~~~s~-~g~~~~~af~~~~ 134 (135)
T smart00232 79 VGWYHSHPDESPFPSEVDVATHESYQAPWPISVVLIVDPIKSF-QGRLSLRAFRLTP 134 (135)
T ss_pred EEEEEcCCCCCCCcCHHHHHHHHHHHhcCCceEEEEECCCccc-cCcEEEEEEEecC
Confidence 9999999999999999999999999999999999999999875 5899999999875
No 11
>KOG1560|consensus
Probab=99.93 E-value=6.8e-26 Score=220.87 Aligned_cols=218 Identities=21% Similarity=0.346 Sum_probs=164.2
Q ss_pred CCCceeEEECHHHHHHHHHHHhcCCCc--eeEEEEeeeecCCeEEEEEEEeCCccC--CCCccccc-cc--HHHHHHHHH
Q psy1714 157 PHFFKDIKISALALLKMVMHARSGGTL--EVMGLLLGKIDANSMIVMDAFALPVEG--TETRVNAQ-AQ--AYEYMTAYI 229 (449)
Q Consensus 157 p~~~~~V~Is~~vLlkIl~Ha~~~~p~--EVmGLLLG~~d~~tl~Vtd~F~lP~~~--tetrv~a~-~e--~~ey~~~ml 229 (449)
.+++++|.|+++++++|++||++..+. -+.|.|+|.+.++.++||+|||.|... .++.++.. .+ -..|+.+|+
T Consensus 9 ~p~vk~v~ldsLvVMkiiKHc~ee~~n~d~~~GvL~Glvvd~~LeITncFp~p~~~~~edda~~~~~~de~rq~~~l~ml 88 (339)
T KOG1560|consen 9 SPPVKRVELDSLVVMKIIKHCREEFPNGDGTQGVLLGLVVDGRLEITNCFPFPSVLENEDDAVNKSVSDEARQAYQLAML 88 (339)
T ss_pred CCccceeeehhHHHHHHHHHHHhhcCCcchhhheeeeeeecceeEeecccCCCccCCCccchhhhhhhHHHHHHHHHHHH
Confidence 457899999999999999999987664 578999999999999999999999632 33333332 22 236899999
Q ss_pred HHHHHhCCCCceEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccCCCCCCCCCCC
Q psy1714 230 EAAKEVGRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKPANEEPS 309 (449)
Q Consensus 230 ellrkvgr~e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~~~~~~~~ 309 (449)
+.+|.+|.+...||||+||- +|.++|..-+++|+.||...|..|.+|+||.++. +|.+.+||||++|+....-++ .
T Consensus 89 rrlr~vnid~~hVGwYqs~~-vgs~lS~~lveSqy~YQ~a~pesVvliYD~~kss-qG~L~lrAyrLTp~am~~~ke--k 164 (339)
T KOG1560|consen 89 RRLRYVNIDHLHVGWYQSAY-VGSFLSPALVESQYAYQKAIPESVVLIYDPIKSS-QGTLSLRAYRLTPEAMAAHKE--K 164 (339)
T ss_pred HHhhhcCccceeeeeeeeeh-hccccCHHHHHHHHHHHhcCCccEEEEecccccc-CceEEeehhhcCHHHHHHHhc--C
Confidence 99999999999999999998 7789999999999999999999999999999975 999999999999953322111 1
Q ss_pred ccccccchhhhccccc-cceEEeeeeEEeeCHHHHHHHHHhhhh-------hhHh--hhccCc-ccccHHHHHHHHHHHH
Q psy1714 310 EYQTIPLNKIEDFGVH-CKQYYSLDVSYFKSSLDRRLLDSLWNK-------YWVN--TLSSSS-LLTNADYLTGQMCDLS 378 (449)
Q Consensus 310 e~~siPl~ki~~~g~~-~~~yy~L~V~~~~S~ld~~~L~~L~~~-------~W~~--~Ls~s~-l~~n~~~~~~~i~dl~ 378 (449)
+++ | +-++..|+- .+.|.+|||-+.+|.|.+.++.+|... +-.+ .|++.. |-+|.+-+.+.+++|.
T Consensus 165 dwt--p-ealk~~nltyenmfeElPIVIknS~L~nvlmseLs~~e~c~sdk~~~~~fdlgs~t~leknir~lme~vDEl~ 241 (339)
T KOG1560|consen 165 DWT--P-EALKSANLTYENMFEELPIVIKNSHLANVLMSELSEPEDCESDKPLHSNFDLGSGTRLEKNIRLLMERVDELH 241 (339)
T ss_pred CCC--H-HHHHhcCCCHHHHHhhcCeeeeccHHHHHHHHhccccccccccccccccccccchhhHHHHHHHHHHHHHHHH
Confidence 122 2 222223332 577999999999999999999999722 2121 233322 2245555555555554
Q ss_pred HHH
Q psy1714 379 DKL 381 (449)
Q Consensus 379 ~~~ 381 (449)
+.+
T Consensus 242 qe~ 244 (339)
T KOG1560|consen 242 QEI 244 (339)
T ss_pred HHH
Confidence 433
No 12
>PF01398 JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; InterPro: IPR000555 Members of this family are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This family is also known as the MPN domain [] and PAD-1-like domain []. It has been shown that this domain occurs in prokaryotes []. Mov34 proteins act as the regulatory subunit of the 26 proteasome, which is involved in the ATP-dependent degradation of ubiquitinated proteins. The function of this domain is unclear, but it is found in the N terminus of the proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. A number of the proteins associated with this family belong to MEROPS peptidase family M67 (clan M-). This includes the Poh1 peptidase of Saccharomyces cerevisiae (Baker's yeast) which is a component of the 19S proteasome regulatory particle.; GO: 0005515 protein binding; PDB: 2ZNV_D 2ZNR_A 4E0Q_A 2P87_A 2P8R_A 2O96_B 2O95_A 3RZU_F 3RZV_A.
Probab=99.93 E-value=1.1e-25 Score=194.11 Aligned_cols=112 Identities=31% Similarity=0.574 Sum_probs=96.3
Q ss_pred CceeEEECHHHHHHHHHHHhcCCCceeEEEEeeeecCC-eEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCC
Q psy1714 159 FFKDIKISALALLKMVMHARSGGTLEVMGLLLGKIDAN-SMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGR 237 (449)
Q Consensus 159 ~~~~V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~-tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr 237 (449)
++.+|.|+++|+++|++||.+..+.||||+|+|..+++ +++|++||++|+.+++..+..... ++..+|.++++++++
T Consensus 2 s~~~V~i~p~vll~i~~h~~r~~~~~v~G~LlG~~~~~~~v~I~~~f~~p~~~~~~~~~~~~~--~~~~~~~~~~~~~~~ 79 (114)
T PF01398_consen 2 SVQTVQIHPLVLLKIIDHATRSSPNEVIGLLLGTQDGDNTVEITNSFPVPHSESEDDCDMDDE--DFQKKMIELLKKVNP 79 (114)
T ss_dssp SCEEEEEEHHHHHHHHHHHHHHHCTEEEEEEEEEEETT-EEEEEEEEEESEEEESSEEEEECC--HHHHHHHHHHHHCST
T ss_pred CcEEEEECHHHHHHHHHHHhcCCCCEEEEEEEEEecCceEEEEEEEEEeeEecCccccccchh--hHHHHHHhhhccccc
Confidence 46899999999999999998888889999999999999 999999999999887776544333 334678899999988
Q ss_pred CCceEEEEecCCCCCCcccHhhHHhHHhhhccCCC
Q psy1714 238 LENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEP 272 (449)
Q Consensus 238 ~e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p 272 (449)
.+.+||||||||.++||||..||++|..||++.|+
T Consensus 80 ~~~iVGWY~s~p~~~~~~S~~di~~q~~~q~~~~~ 114 (114)
T PF01398_consen 80 NLEIVGWYHSHPNISCFPSPTDIETQKQYQRMNPN 114 (114)
T ss_dssp TSEEEEEEEEESSS-SS--HHHHHHHHHHHHHTTT
T ss_pred cceEEEEEEccCCccccCCHHHHHHHHHHHHhCCC
Confidence 89999999999999999999999999999988763
No 13
>cd08057 MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity (non metal-binding); eukaryotic. This family contains MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains variants lacking key residues in the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif and are unable to coordinate a metal ion. Comparisons of key catalytic and metal binding residues explain why the MPN-containing proteins Rpn7/PSMD7, Rpn8/PSMD8, CSN6, Prp8p, and the translation initiation factor 3 subunits f and h do not show catalytic isopeptidase activity. It has been proposed that the MPN domain in these proteins has a primarily structural function. Rpn7 is known to be critical for the integrity of the 26S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. CSN6 is a highly conserved protein complex with diverse functions, including several import
Probab=99.92 E-value=2.7e-24 Score=196.43 Aligned_cols=134 Identities=23% Similarity=0.377 Sum_probs=115.3
Q ss_pred EEECHHHHHHHHHHHhcCC--CceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCc
Q psy1714 163 IKISALALLKMVMHARSGG--TLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLEN 240 (449)
Q Consensus 163 V~Is~~vLlkIl~Ha~~~~--p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~ 240 (449)
|.|+|+|+++|++||.+.. +.+|+|+|+|..++++++|+|||++|.+.++++. ..+.+|+.+|+++++++++++.
T Consensus 1 V~ihplvll~I~dh~~R~~~~~~~v~G~LlG~~~~~~veV~nsF~lp~~~~~~~~---~~d~~y~~~m~~~~~~v~~~~~ 77 (157)
T cd08057 1 VQLHPLVLLNISDHYTRRKYGIKRVIGVLLGYVDGDKIEVTNSFELPFDEEEESI---FIDTEYLEKRYNLHKKVYPQEK 77 (157)
T ss_pred CEEccHHHhhHHHHHHhccCCCCeEEEEEEeEEeCCEEEEEEeEEccccCCCcch---hhhHHHHHHHHHHHHHhCCCCC
Confidence 6899999999999997666 8999999999999999999999999997766642 2367899999999999999999
Q ss_pred eEEEEecCCCCCCcccHhhHHhHHhhhcc-CCCeEEEEEcCCCCcCCCeeEEEEEEEccC
Q psy1714 241 AIGWYHSHPGYGCWLSGIDVSTQMLNQNF-QEPFVAIVIDPVRTISAGKVCLGSFRTYPK 299 (449)
Q Consensus 241 VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~-~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~ 299 (449)
+|||||+||.++++++..|...+..|... .+++|+|++||.++...|++.|+|||+.+.
T Consensus 78 vVGWY~~~~~~~~~~~~~~~~i~~~~~~~~~~~~v~L~~D~~~~~~~~~l~i~ay~~~~~ 137 (157)
T cd08057 78 IVGWYSIGSNNSNEISKSDNSLHSQFSLISEENPLILILDPSLQSDSEKLEISTFTSAQR 137 (157)
T ss_pred EEEEEeecCCCCCCCChhHHHHHHHHHhccCCCCEEEEEcCCcccCCCcccEEEEEEecC
Confidence 99999999998877777777666555544 678899999998744578999999999873
No 14
>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM (signal-transducing adapter molecule, also known as STAMBP)) and AMSH-like proteins (AMSH-LP) are members of JAMM/MPN+ deubiquitinases (DUBs), with Zn2+-dependent ubiquitin isopeptidase activity. AMSH specifically cleaves Lys 63 and not Lys48-linked polyubiquitin (poly-Ub) chains, thus facilitating the recycling and subsequent trafficking of receptors to the cell surface. AMSH and AMSH-LP are anchored on the early endosomal membrane via interaction with the clathrin coat. AMSH shares a common SH3-binding site with another endosomal DUB, UBPY (ubiquitin-specific protease Y; also known as USP8), the latter being a cysteine protease that does not discriminate between Lys48 and Lys63-linked ubiquitin. AMSH is involved in the degradation of EGF receptor (EGFR) and possibly other ubiquitinated endocytosed proteins. AMSH also interacts with CHMP1, CHMP2, and CHMP3 proteins, al
Probab=99.91 E-value=8.8e-24 Score=197.02 Aligned_cols=132 Identities=25% Similarity=0.410 Sum_probs=111.7
Q ss_pred ceeEEECHHHHHHHHHHHhcC--CCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCC
Q psy1714 160 FKDIKISALALLKMVMHARSG--GTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGR 237 (449)
Q Consensus 160 ~~~V~Is~~vLlkIl~Ha~~~--~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr 237 (449)
++.+.|+..++.+|+.||+.. .|.|+||+|+|+..++..+|++++..|+.+++.+++.. +..+ +++.++. +
T Consensus 1 ~~~l~Ipk~il~~~l~~A~~~~~~p~E~cGlL~G~~~~~~~~I~~i~~~~q~~~~~~~~~~-~~~e----~~~~~~~--~ 73 (173)
T cd08066 1 LRQVVVPADLMDKFLQLAEPNTSRNLETCGILCGKLSNNAFFITHLIIPKQSGTSDSCQTT-NEEE----LFDFQDQ--H 73 (173)
T ss_pred CeEEEECHHHHHHHHHHHHhCCCCCCeEEEEEEeEcCCCeEEEEEEEeccccCCCceecCC-CHHH----HHHHHHh--C
Confidence 357999999999999999988 46999999999987788889999888888888776543 2222 3445554 6
Q ss_pred CCceEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEc-cCCCCCC
Q psy1714 238 LENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTY-PKGYKPA 304 (449)
Q Consensus 238 ~e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~-p~~y~~~ 304 (449)
++.+||||||||..+||||.+|+.||..||.+++++++|||||. .++++|||+. ++|+.-.
T Consensus 74 gle~vGwyHSHP~~~~~pS~~Dv~t~~~~~~~~p~~~~lIvSp~------~~~l~afrl~~~~g~~~~ 135 (173)
T cd08066 74 DLITLGWIHTHPTQTCFLSSVDLHTHCSYQLMLPEAIAIVCAPK------YNEFGIFRLTDPPGLDEI 135 (173)
T ss_pred CCeeEEEEeccCCCCCccCHHHHHHHHHHHhcCCCeEEEEECCC------CcEEeEEEeecCCcceec
Confidence 79999999999999999999999999999999999999999983 4789999999 7777653
No 15
>KOG2975|consensus
Probab=99.89 E-value=2.2e-22 Score=195.23 Aligned_cols=199 Identities=20% Similarity=0.259 Sum_probs=167.8
Q ss_pred ceeEEECHHHHHHHHHHHh--cCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCC
Q psy1714 160 FKDIKISALALLKMVMHAR--SGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGR 237 (449)
Q Consensus 160 ~~~V~Is~~vLlkIl~Ha~--~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr 237 (449)
..+|.|+|.|+++|++|.. ..+..+|||.|+|.++++.++||+||++|+.+.+++++. +.+|..+|+++++++++
T Consensus 20 ~ltv~ihP~Vlf~ivD~~~RR~~~~~rviGTLLG~~~~g~ieitNCFaVPhnEssdqvev---dm~y~~~M~~l~~k~np 96 (288)
T KOG2975|consen 20 NLTVRLHPVVLFSIVDAYERRNKGAERVIGTLLGTVDKGSVEVTNCFAVPHNESSDQVEV---DMEYAKNMYELHKKVNP 96 (288)
T ss_pred CceEEEcceEEeEeehhhhcCCccchhhhhheeecccCCeEEEEEeeeccCcccccccee---eHHHHHHHHHHhcccCC
Confidence 4489999999999999983 468899999999999999999999999999888888753 56899999999999999
Q ss_pred CCceEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccCCCCCCCCCCCccccccch
Q psy1714 238 LENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKPANEEPSEYQTIPLN 317 (449)
Q Consensus 238 ~e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~~~~~~~~e~~siPl~ 317 (449)
.|.+||||-+.++.+...|.+ |..|-+-.+++|+|.||+..+ .|+..||||..++-|.-..
T Consensus 97 nE~vvGWyaTg~dvt~~ssli----hdyYare~~~pvhLtVDT~~~--n~rm~ikaYvss~~Gvpg~------------- 157 (288)
T KOG2975|consen 97 NELVVGWYATGHDVTEHSSLI----HDYYAREAPNPVHLTVDTSLQ--NGRMSIKAYVSSLMGVPGR------------- 157 (288)
T ss_pred CceeEEEEecCCCcccchhHH----HHHhhccCCCCeEEEEecccc--CCccceeEEEEeccCCCCc-------------
Confidence 999999999999999888877 777888889999999998763 6899999999998663211
Q ss_pred hhhccccccceEEeeeeEEeeCHHHHHHHHHhhhhhhHhhhccCcccccHHHHHHHHHHHHHHHHHHHHh
Q psy1714 318 KIEDFGVHCKQYYSLDVSYFKSSLDRRLLDSLWNKYWVNTLSSSSLLTNADYLTGQMCDLSDKLEQAESA 387 (449)
Q Consensus 318 ki~~~g~~~~~yy~L~V~~~~S~ld~~~L~~L~~~~W~~~Ls~s~l~~n~~~~~~~i~dl~~~~~~~~~~ 387 (449)
.....|-++||++..-+.|+..|+.+.+.. ...-...+|...++.+.....+|...|+.+..-
T Consensus 158 ------~~~~mF~plpvel~~~~~ervgl~li~kt~-~sp~r~~~l~~dLqQv~~at~~l~~~L~~Vl~Y 220 (288)
T KOG2975|consen 158 ------TMGVMFTPLPVELAYYDAERVGLDLIEKTS-FSPSRVAGLSSDLQQVEGATARLQSLLERVLKY 220 (288)
T ss_pred ------ccceeeeeeeeEEeecchhhhHHHHHHHhc-cChhhhccccchHHHHHHHHHHHHHHHHHHHHH
Confidence 012379999999999999999999998764 223345577788888888888888888776653
No 16
>PLN03246 26S proteasome regulatory subunit; Provisional
Probab=99.89 E-value=1e-21 Score=197.55 Aligned_cols=209 Identities=18% Similarity=0.220 Sum_probs=160.9
Q ss_pred CCCCceeEEECHHHHHHHHHHHhcCC---CceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHH
Q psy1714 156 IPHFFKDIKISALALLKMVMHARSGG---TLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAA 232 (449)
Q Consensus 156 ~p~~~~~V~Is~~vLlkIl~Ha~~~~---p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlell 232 (449)
.|+++.+|.|+|+|+++|++||.+.. +.+|+|.|||...++.++|++||++|....++.-..+..+.+|+.+|++++
T Consensus 1 ~~~~~~~V~vhPlVll~I~dh~~R~~~~~~~rviG~LLG~~~~~~ieItnsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~ 80 (303)
T PLN03246 1 SPRGIEKVVVHPLVLLSIVDHYNRVAKDTRKRVVGVLLGSSFRGRVDVTNSFAVPFEEDDKDPSIWFLDHNYLESMFGMF 80 (303)
T ss_pred CCCCCcEEEECcHHHHHHHHHHHhccCCCCCeeEEEEEeeecCCEEEEEeccccCcccCCCCccceeecHHHHHHHHHHH
Confidence 37899999999999999999996543 467999999999999999999999998654443212233579999999999
Q ss_pred HHhCCCCceEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccCCCCCCCCCCCccc
Q psy1714 233 KEVGRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKPANEEPSEYQ 312 (449)
Q Consensus 233 rkvgr~e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~~~~~~~~e~~ 312 (449)
+++++++.+||||+|.|... ..|+.-+..|..+.+..|+|++|+.. ..+++.++||...+.+.... .
T Consensus 81 k~V~~~~~vVGWY~tg~~i~----~~d~~IH~~~~~~~~~Pv~L~vD~~~--~~~~lpi~aY~s~~~~~~~~--~----- 147 (303)
T PLN03246 81 KRINAKEHVVGWYSTGPKLR----ENDLDIHELFNDYVPNPVLVIIDVQP--KELGIPTKAYYAVEEVKENA--T----- 147 (303)
T ss_pred HHhCCCCcEEeeecCCCCCC----cchHHHHHHHHhhCCCCeEEEEecCC--CCCCCceEEEEEEEeccCCC--C-----
Confidence 99999999999999998754 34555567788888889999999865 25678999999987653210 0
Q ss_pred cccchhhhccccccceEEeeeeEEeeCHHHHHHHHHhhhhhhHhhhccCcccccHHHHHHHHHHHHHHHHHHHHhhh
Q psy1714 313 TIPLNKIEDFGVHCKQYYSLDVSYFKSSLDRRLLDSLWNKYWVNTLSSSSLLTNADYLTGQMCDLSDKLEQAESALV 389 (449)
Q Consensus 313 siPl~ki~~~g~~~~~yy~L~V~~~~S~ld~~~L~~L~~~~W~~~Ls~s~l~~n~~~~~~~i~dl~~~~~~~~~~~~ 389 (449)
+ .....|-++|.++-..+.|+..++.|.+..- .-+.+.+........+.+..|..+++.+..-+.
T Consensus 148 --~--------~~~~~F~~vp~~i~~~EaE~Igve~l~r~~~--~~~~s~l~~~l~~~~~al~~L~~rl~~i~~Yl~ 212 (303)
T PLN03246 148 --Q--------KSQKVFVHVPSEIGAHEAEEIGVEHLLRDVK--DTTVSTLATEVTGKLTALKGLDARLREIRSYLD 212 (303)
T ss_pred --c--------ccccEEEECCeeeeecCHHHHHHHHHHhccc--CCccchhHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 0 1246799999999999999999999986311 112233444667777888888888887776553
No 17
>cd08063 MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in COP9 signalosome complex subunit 6. CSN6 (COP9 signalosome subunit 6; COP9 subunit 6; MOV34 homolog, 34 kD) is one of the eight subunits of COP9 signalosome, a highly conserved protein complex with diverse functions, including several important intracellular pathways such as the ubiquitin/proteasome system, DNA repair, cell cycle, developmental changes, and some aspects of immune responses. CSN6 is an MPN-domain protein that directly interacts with the MPN+-domain subunit CSN5. It is cleaved during apoptosis by activated caspases. CSN6 processing occurs in CSN/CRL (cullin-RING Ub ligase) complexes and is followed by the cleavage of Rbx1, the direct interaction partner of CSN6. CSN6 cleavage enhances CSN-mediated deneddylating activity (i.e. cleavage of ubiquitin-like protein Nedd8 (neural precursor cell expressed, developmentally downregulated 8)) in the cullin 1 in cells. The cleav
Probab=99.88 E-value=2.3e-21 Score=193.57 Aligned_cols=203 Identities=18% Similarity=0.234 Sum_probs=155.2
Q ss_pred eEEECHHHHHHHHHHHhc----CC--CceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHh
Q psy1714 162 DIKISALALLKMVMHARS----GG--TLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEV 235 (449)
Q Consensus 162 ~V~Is~~vLlkIl~Ha~~----~~--p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkv 235 (449)
+|.|+|+||++|++||.+ .. +..|+|.|||..++++++|++||++|...+++.. ...+.+|+.+|+++++++
T Consensus 2 ~V~lHPlVll~I~dH~~R~~~~~~~~~~~v~G~LLG~~~~~~veItnsF~~p~~~~~~~~--~~id~~y~~~m~~~~kkV 79 (288)
T cd08063 2 SVKLHPLVILNISDHITRHRAQSQSEPPRVVGALLGQQDGREIEIENSFELKYDTNEDGE--IVLDKEFLETRLEQFKQV 79 (288)
T ss_pred eEEEecceeeeHHhhHhHHhccCCCCCCcEEEEEEEEEcCCEEEEEEEEecccccCCCCc--eeeCHHHHHHHHHHHHHh
Confidence 689999999999999964 22 6899999999999999999999999997665221 123568999999999999
Q ss_pred CCCCceEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccCCCCCCCCCCCcccccc
Q psy1714 236 GRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKPANEEPSEYQTIP 315 (449)
Q Consensus 236 gr~e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~~~~~~~~e~~siP 315 (449)
++++.+||||+++|. +..++...|+. .|....++.|+|++||..+.+.+++.++||+..+.+-..
T Consensus 80 ~~~~~vVGWY~tg~~-~~~~~~~~Ih~--~~~~~~~~pv~L~~D~~~~~~~~~lpi~ay~s~~~~~~~------------ 144 (288)
T cd08063 80 FKDLDFVGWYTTGPG-GPTESDLPIHK--QILEINESPVLLLLDPEANASGKDLPVTIYESVLELVDG------------ 144 (288)
T ss_pred ccCCceEEEEecCCC-CCCHHHHHHHH--HHHhhCCCcEEEEEccccccCCCCCceeEEEEEEeccCC------------
Confidence 999999999999998 44455554544 445566778999999987534688999999998854211
Q ss_pred chhhhccccccceEEeeeeEEeeCHHHHHHHHHhhhhhhHhhhccCcccccHHHHHHHHHHHHHHHHHHHHhhh
Q psy1714 316 LNKIEDFGVHCKQYYSLDVSYFKSSLDRRLLDSLWNKYWVNTLSSSSLLTNADYLTGQMCDLSDKLEQAESALV 389 (449)
Q Consensus 316 l~ki~~~g~~~~~yy~L~V~~~~S~ld~~~L~~L~~~~W~~~Ls~s~l~~n~~~~~~~i~dl~~~~~~~~~~~~ 389 (449)
.....|.++|.++-.++.|++.++.+.+..=...-+.+.+.+..+.+.+.+..|..+++.+..-+.
T Consensus 145 --------~~~~~F~~i~~~i~~~eaErIgv~~l~~~~~~~~~~~~~~~~~l~~~~~al~~L~~rl~~i~~Yl~ 210 (288)
T cd08063 145 --------EATLRFRELPYTIETGEAERIGVDHVARGGASGSSEKSTVAAHLQAQHNAIKMLNSRVELILEYLK 210 (288)
T ss_pred --------ccccEEEeeeeEEEeccCceeeHHHHHhcCCCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 124679999999999999999999998653111112223445667777778888888877776553
No 18
>cd07767 MPN Mpr1p, Pad1p N-terminal (MPN) domains. MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains are found in the N-terminal termini of proteins with a variety of functions; they are components of the proteasome regulatory subunits, the signalosome (CSN), eukaryotic translation initiation factor 3 (eIF3) complexes, and regulators of transcription factors. These domains are isopeptidases that release ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. Catalytically active MPN domains contain a metalloprotease signature known as the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif. For example, Rpn11 (also known as POH1 or PSMD14), a subunit of the 19S proteasome lid is involved in the ATP-dependent degradation of ubiquitinated proteins, contains the conserved JAMM motif involved in zinc ion coordination. Poh1 is a regulator of c-Jun, an important regulator of cell proliferation, differentiation, survival and death. J
Probab=99.87 E-value=1.4e-21 Score=167.13 Aligned_cols=115 Identities=25% Similarity=0.355 Sum_probs=92.8
Q ss_pred HHHHHHHhcCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCceEEEEecCCC
Q psy1714 171 LKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGWYHSHPG 250 (449)
Q Consensus 171 lkIl~Ha~~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VVGWYHSHP~ 250 (449)
.+|++||+...|.||||+|+|+.+++.++|+++|++|+..++.... ..++ |....+..+.++.+||||||||.
T Consensus 2 k~il~~a~~~~~~ev~G~L~G~~~~~~~~i~~~~~~~~~~~~~~~~----~~~~---~~~~~~~~~~~~~iVGwyhshp~ 74 (116)
T cd07767 2 KMFLDAAKSINGKEVIGLLYGSKTKKVLDVDEVIAVPFDEGDKDDN----VWFL---MYLDFKKLNAGLRIVGWYHTHPK 74 (116)
T ss_pred HhHHHHHhcCCCcEEEEEeEEEEcCCEEEEEEEEecccCCCCCccH----HHHH---HHHHHHHhcCCCeEEEEEEcCCC
Confidence 5799999998899999999999998899999999999865543221 1122 33344556789999999999999
Q ss_pred CCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEE
Q psy1714 251 YGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSF 294 (449)
Q Consensus 251 ~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAF 294 (449)
++++||..|+.+|..||+..+++++||+|+... .....++||
T Consensus 75 ~~~~~s~~dv~~~~~~q~~~~~~v~li~~~~~~--~~~~~~~~~ 116 (116)
T cd07767 75 PSCFLSPNDLATHELFQRYFPEKVMIIVDVKPK--DLGNSWKCY 116 (116)
T ss_pred CCCccCHHHHHHHHHHHHhCCCCEEEEEECCCc--cCCCCcccC
Confidence 999999999999999999888999999999762 223456654
No 19
>cd08069 MPN_RPN11_CSN5 Mov34/MPN/PAD-1 family: proteasomal regulatory protein Rpn11 and signalosome complex subunit CSN5. This family contains proteasomal regulatory protein Rpn11 (26S proteasome regulatory subunit rpn11; PAD1; POH1; RPN11; PSMD14; Rpn11 subunit of the 19S-proteasome; regulatory particle number 11) and signalosomal CSN5 (COP9 signalosome complex subunit 5; COP9 complex homolog subunit 5; c-Jun activation domain-binding protein-1; CSN5/JAB1; JAB1). COP9 signalosome (CSN) and the proteasome lid are paralogous complexes and their respective subunits CSN5 and Rpn11 are most closely related between the two complexes, both containing the conserved JAMM (JAB1/MPN/Mov34 metalloenzyme) motif involved in zinc ion coordination and providing the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology; mutations i
Probab=99.85 E-value=5.4e-21 Score=189.38 Aligned_cols=127 Identities=43% Similarity=0.663 Sum_probs=109.5
Q ss_pred CCCCCCCccceeeehHHHHHHHHHhhhcCCCeeEEeeecccccCCceeEeeccccccCCcccccchhhhHHHHHHHHHHH
Q psy1714 62 PWEKDPHFFKDIKISALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEA 141 (449)
Q Consensus 62 pw~~~p~~f~~v~is~~a~~km~~ha~~g~~~evmg~~~g~~~~~~~~v~d~~~lpv~g~e~~vna~~~~~~~m~~~~~~ 141 (449)
||+.||+||++|+||++|++||+.||++|+|.||||+|+|++++++++|+|||++|++||++||+++.+.++||++| +.
T Consensus 1 ~~~~~~~~~~~V~Is~~allkil~Ha~~~~p~Ev~GlLlG~~~~~~v~Vt~~fp~p~~~t~~~v~~~~e~~~~m~~~-~~ 79 (268)
T cd08069 1 PWKPDPDYFEKVYISSLALLKMLKHARAGGPIEVMGLMLGKVDDYTIIVVDVFALPVEGTETRVNAQDEFQEYMVQY-EM 79 (268)
T ss_pred CCCCCCCcccEEEECHHHHHHHHHHHhccCCceEEEEEEeeecCCeEEEEEEEECCcCCCCCceeccHHHHHHHHHH-HH
Confidence 89999999999999999999999999999999999999999999999999999999999999999999999999999 88
Q ss_pred hcccccccccccccCCCCceeEEECHHHHHHHHHHHhcCCCceeEEEEee
Q psy1714 142 AKEVRHQEVIPLTLIPHFFKDIKISALALLKMVMHARSGGTLEVMGLLLG 191 (449)
Q Consensus 142 ~~~vr~~e~i~w~~~p~~~~~V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG 191 (449)
.+++++.++++-|+..++--...++..-+.......+.. .+.+++++-
T Consensus 80 ~~~~~~~~~vVGWYHSHP~~g~~~S~~Dv~tq~~yq~~~--~~~V~lViD 127 (268)
T cd08069 80 LKQTGRPENVVGWYHSHPGYGCWLSGIDVNTQQLNQQLQ--DPFVAVVVD 127 (268)
T ss_pred HHHhCCCceeEeeeccCCCcCCcCCHHHHHHHHHHHhcC--CCcEEEEEe
Confidence 889999899888888887555666666665544444332 335666654
No 20
>cd08070 MPN_like Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding). This family contains archaeal and bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=99.82 E-value=2.4e-19 Score=158.39 Aligned_cols=120 Identities=24% Similarity=0.265 Sum_probs=96.4
Q ss_pred HHHHHHHHHHhcCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCceEEEEec
Q psy1714 168 LALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGWYHS 247 (449)
Q Consensus 168 ~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VVGWYHS 247 (449)
.++.+|+.||+.+.|.|+||+|+|..++....|++++++|+...+.+..+..++.+ +.++.+.+++ +++.+||||||
T Consensus 2 ~~~~~il~ha~~~~P~E~cGlL~G~~~~~~~~i~~~~p~~n~~~~~~~~f~~d~~~-~~~~~~~~~~--~g~~~vG~~HS 78 (128)
T cd08070 2 ELLEAILAHAEAEYPEECCGLLLGKGGGVTAIVTEVYPVRNVAESPRRRFEIDPAE-QLAAQREARE--RGLEVVGIYHS 78 (128)
T ss_pred HHHHHHHHHHHhCCCCceEEEEEeecCCCCceEEEEEEccCCCCCCCceEEECHHH-HHHHHHHHHH--CCCeEEEEEeC
Confidence 46889999999999999999999998877777899999999766653333345544 4455666666 56999999999
Q ss_pred CCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccC
Q psy1714 248 HPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPK 299 (449)
Q Consensus 248 HP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~ 299 (449)
||..+++||..|+.++ ...+.+++|+++.. +...++||++...
T Consensus 79 HP~~~~~PS~~D~~~~-----~~~~~~~lIv~~~~----~~~~~~~~~~~~~ 121 (128)
T cd08070 79 HPDGPARPSETDLRLA-----WPPGVSYLIVSLAG----GAPELRAWRLEGG 121 (128)
T ss_pred CCCCCCCCCHHHHHhc-----cCCCCeEEEEECCC----CCcEEEEEEEcCC
Confidence 9999999999999975 23478999999864 2568999998663
No 21
>KOG1554|consensus
Probab=99.72 E-value=4.7e-18 Score=166.71 Aligned_cols=86 Identities=69% Similarity=1.053 Sum_probs=80.1
Q ss_pred ccccccccccCCCCceeEEECHHHHHHHHHHHhcCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHH
Q psy1714 146 RHQEVIPLTLIPHFFKDIKISALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYM 225 (449)
Q Consensus 146 r~~e~i~w~~~p~~~~~V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~ 225 (449)
+-....||..||++|+.|.|++++|+||+.||++|++.||||+|+|++++++++|.|||++|++|||+|||++.+++|||
T Consensus 38 ~~~~~kpw~~Dp~~fk~vkISalAllKm~~hA~~GgnlEiMGlm~Gkv~g~t~IvmD~FaLPVeGTETRVNAq~~AyEYm 117 (347)
T KOG1554|consen 38 KIILEKPWSTDPHYFKHVKISALALLKMVMHARSGGNLEIMGLMQGKVDGDTIIVMDSFALPVEGTETRVNAQAEAYEYM 117 (347)
T ss_pred HHHhcCcccCCCchhhhhhhHHHHHHHHHHHHhcCCCeEEEeeecccccCCeEEEEeccccccccccceechHHHHHHHH
Confidence 33445799999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHH
Q psy1714 226 TAYIEA 231 (449)
Q Consensus 226 ~~mlel 231 (449)
.++.+.
T Consensus 118 v~Y~e~ 123 (347)
T KOG1554|consen 118 VQYIEE 123 (347)
T ss_pred HHHHHH
Confidence 876543
No 22
>KOG1556|consensus
Probab=99.71 E-value=2e-16 Score=152.81 Aligned_cols=201 Identities=20% Similarity=0.314 Sum_probs=140.9
Q ss_pred CceeEEECHHHHHHHHHHHhcC---CCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHh
Q psy1714 159 FFKDIKISALALLKMVMHARSG---GTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEV 235 (449)
Q Consensus 159 ~~~~V~Is~~vLlkIl~Ha~~~---~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkv 235 (449)
++.+|.|+|+||+..++|+.+- ...+|.|+|||.++++++.|+++|++|.++.+..-..+.-+..|+..|.++++++
T Consensus 7 ~~~kViVhPLVLLS~VDhynR~~k~~~KRvvGvLLG~~~~~~i~vtnSfAvpFeEDdk~~svWFlDh~Y~esM~~mfkKv 86 (309)
T KOG1556|consen 7 TVEKVIVHPLVLLSAVDHYNRVGKDTNKRVVGVLLGSWNGDVIDVTNSFAVPFEEDDKDKSVWFLDHNYIESMFGMFKKV 86 (309)
T ss_pred ccceeeeehhHHHHHHHHHhhhccCcCceEEEEEEecCCCCeEEeecceeccccccCCCCceEEeccHHHHHHHHHHHHh
Confidence 6789999999999999999653 4489999999999999999999999999877665444445678999999999999
Q ss_pred CCCCceEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccCCCCCCCCCCCcccccc
Q psy1714 236 GRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKPANEEPSEYQTIP 315 (449)
Q Consensus 236 gr~e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~~~~~~~~e~~siP 315 (449)
+..+.+||||||+|... .+.+||+. .+-.+.|+.+.+|||..... -| +--.||-...+-
T Consensus 87 NakekivGWYhTGPkl~--~nDl~In~--l~k~y~pnpvLvIIdvkpk~-~g-LPT~AY~aVeev--------------- 145 (309)
T KOG1556|consen 87 NAKEKVVGWYHTGPKLR--ENDLDINE--LLKRYVPNPVLVIIDVKPKE-LG-LPTEAYIAVEEV--------------- 145 (309)
T ss_pred cchhheeeeeccCCccc--cchhhHHH--HHhhcCCCceEEEEeccccc-CC-CCchheeeeeee---------------
Confidence 99999999999999763 56666664 45568899999999964311 12 122345443321
Q ss_pred chhhhcccc-ccceEEeeeeEEeeCHHHHHHHHHhhhh---hhHhhhccC--cccccHHHHHHHHHHHHHHHHHH
Q psy1714 316 LNKIEDFGV-HCKQYYSLDVSYFKSSLDRRLLDSLWNK---YWVNTLSSS--SLLTNADYLTGQMCDLSDKLEQA 384 (449)
Q Consensus 316 l~ki~~~g~-~~~~yy~L~V~~~~S~ld~~~L~~L~~~---~W~~~Ls~s--~l~~n~~~~~~~i~dl~~~~~~~ 384 (449)
++-|. ..+.|.-+|.++---+.+....+.|-+. .-+.+|++. ..+..+.-+..++.++.+=|+++
T Consensus 146 ----~dDgt~t~ktF~Hvps~I~AeEAEEvGVEHLlRDikd~t~gtla~rit~ql~sLkgl~~~L~eI~~YL~~V 216 (309)
T KOG1556|consen 146 ----KDDGTPTSKTFVHVPSEIEAEEAEEVGVEHLLRDIKDTTVGTLATRITNQLMSLKGLQSRLREIRSYLDKV 216 (309)
T ss_pred ----ecCCCCccceeEecCcccchhHHHHhhHHHHHHHHHhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 11111 1345888888888888888888887654 344455543 11122234444455544444443
No 23
>cd08072 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1/MPN/Mov34 metalloenzyme. This family contains only archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=99.64 E-value=2.1e-15 Score=132.30 Aligned_cols=109 Identities=20% Similarity=0.124 Sum_probs=83.4
Q ss_pred ECHHHHHHHHHHHhcCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCceEEE
Q psy1714 165 ISALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGW 244 (449)
Q Consensus 165 Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VVGW 244 (449)
|+..++..|++||++..|.|+||+|+|+.+ .|++++++||....+....+ +. + +.+ .++.+||.
T Consensus 1 i~~~~~~~i~~ha~~~~P~E~CGlL~G~~~----~v~~~~~~~n~~~~~~~~~f-~~--------~-~~~--~g~~ivgi 64 (117)
T cd08072 1 ISRDLLDSILEAAKSSHPNEFAALLRGKDG----VITELLILPGTESGEVSAVF-PL--------L-MLP--LDMSIVGS 64 (117)
T ss_pred CCHHHHHHHHHHHhhcCCceEEEEEEeecc----EEEEEEECCCCCCCCcceee-ch--------H-Hhc--CCCeEEEE
Confidence 467889999999999999999999999764 68899999986544322211 11 1 122 57999999
Q ss_pred EecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEcc
Q psy1714 245 YHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYP 298 (449)
Q Consensus 245 YHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p 298 (449)
|||||+.+++||..|+..+ ..++.+++|+++-. +.-.++||+...
T Consensus 65 ~HSHP~~~~~PS~~D~~~~-----~~~~~~~lIvs~~~----~~~~~~a~~~~g 109 (117)
T cd08072 65 VHSHPSGSPRPSDADLSFF-----SKTGLVHIIVGYPY----DEDDWRAYDSDG 109 (117)
T ss_pred EEcCCCCCCCCCHHHHHhh-----hcCCCEEEEEECcC----CCCCEEEEecCC
Confidence 9999999999999998743 35789999999532 224688998755
No 24
>COG1310 Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only]
Probab=99.62 E-value=5.2e-15 Score=131.85 Aligned_cols=90 Identities=32% Similarity=0.385 Sum_probs=69.8
Q ss_pred EEECHHHHHHHHHHHhcCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCceE
Q psy1714 163 IKISALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAI 242 (449)
Q Consensus 163 V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VV 242 (449)
+.|...++..|+.|++..+|.|+||+|+|...+ ...|.+++...+... ....+.++.. +...++. .++.+|
T Consensus 2 ~~i~~~~l~~il~~a~~~~p~E~~g~l~~~~~~-----~~~~~~~n~~~~~~~-~~~~~~~~~~-~~~~~~~--~g~~vv 72 (134)
T COG1310 2 LVIPKEVLGAILEHARREHPREVCGLLAGTREG-----ERYFPLKNVSVEPVE-YFEIDPEYSL-FYLAAED--AGEVVV 72 (134)
T ss_pred ceecHHHHHHHHHHHHhcCChheEEEEEeeccc-----ceeeccccccCCcce-eEeeCHHHHH-HHHHHhh--CCCEEE
Confidence 568899999999999999999999999999765 556777776554322 2223344444 4444444 559999
Q ss_pred EEEecCCCCCCcccHhhHH
Q psy1714 243 GWYHSHPGYGCWLSGIDVS 261 (449)
Q Consensus 243 GWYHSHP~~~~~pS~iDI~ 261 (449)
|||||||+++||||..|+.
T Consensus 73 g~yHSHP~~~~~pS~~D~~ 91 (134)
T COG1310 73 GWYHSHPGGPPYPSEADRR 91 (134)
T ss_pred EEEcCCCCCCCCcCHHHHh
Confidence 9999999999999999998
No 25
>cd08073 MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains. This family contains bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains at the N-terminus of NlpC/P60 phage tail protein domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=99.53 E-value=8.9e-14 Score=120.57 Aligned_cols=104 Identities=19% Similarity=0.160 Sum_probs=76.3
Q ss_pred HHHHHHHHHhcCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCceEEEEecC
Q psy1714 169 ALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGWYHSH 248 (449)
Q Consensus 169 vLlkIl~Ha~~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VVGWYHSH 248 (449)
++..|+.||+...|.|+||+|+|+. .++..++++|...+.+..+..++.++... . + ...+||.||||
T Consensus 2 i~~~i~~ha~~~~P~E~CGll~g~~-----~~~~~~p~~N~~~~p~~~F~idp~e~~~a----~-~---~~~ivgi~HSH 68 (108)
T cd08073 2 LEDAILAHAKAEYPREACGLVVRKG-----RKLRYIPCRNIAADPEEHFEISPEDYAAA----E-D---EGEIVAVVHSH 68 (108)
T ss_pred HHHHHHHHHhHCCCCcceEEEEecC-----CceEEEECccCCCCccceEEeCHHHHHHH----h-c---CCCEEEEEEcC
Confidence 5678999999999999999999965 24567888886654433344456565432 1 2 23899999999
Q ss_pred CCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEE
Q psy1714 249 PGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRT 296 (449)
Q Consensus 249 P~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl 296 (449)
|+.++.||..|+..+ ..++..+||++.. .|+ +++|+-
T Consensus 69 P~~~a~PS~~D~~~~-----~~~~~~~iIvs~~----~~~--~~~~~p 105 (108)
T cd08073 69 PDGSPAPSEADRAQQ-----EATGLPWIIVSWP----EGD--LRVFRP 105 (108)
T ss_pred CCCCCCCCHHHHHHh-----hcCCCcEEEEEcC----CCC--EEEEec
Confidence 999999999999733 4578899999953 343 456653
No 26
>PF14464 Prok-JAB: Prokaryotic homologs of the JAB domain; PDB: 1OI0_A 1R5X_B 2KKS_A 2KCQ_A.
Probab=99.37 E-value=4.2e-12 Score=107.15 Aligned_cols=94 Identities=26% Similarity=0.334 Sum_probs=63.8
Q ss_pred HHHHHHHHHHHhcCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCceEEEEe
Q psy1714 167 ALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGWYH 246 (449)
Q Consensus 167 ~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VVGWYH 246 (449)
..++.+|+.|++...|.|+||+|+|......+.++..... ++.++......... ..+..+||+||
T Consensus 2 ~~~~~~i~~~~~~~~p~E~~G~L~g~~~~~~~~~~~~~~~-------------~p~~~~~~~~~~~~--~~~~~~vg~~H 66 (104)
T PF14464_consen 2 EEVLEQIIAHARAAYPNEACGLLLGRRDDQRFIVVPNVNP-------------DPRDSFRRERFEAR--ERGLEIVGIWH 66 (104)
T ss_dssp -HHHHHHHHHHHHHTTS-EEEEEEEEEECCEEEEEEEEE---------------HHCHHHHHH-HHH--HHT-EEEEEEE
T ss_pred HHHHHHHHHHHhhCCCCeEEEEEEEEecCCEEEEEeCCCC-------------CcHHHHHHHhhhhh--cccceeeEEEE
Confidence 4678999999999999999999999986666666665540 11111111110222 25699999999
Q ss_pred cCCCCCCcccHhhHHhHHhhhccCC-CeEEEEEcC
Q psy1714 247 SHPGYGCWLSGIDVSTQMLNQNFQE-PFVAIVIDP 280 (449)
Q Consensus 247 SHP~~~~~pS~iDI~tQ~~yQ~~~~-p~VaLIvDP 280 (449)
|||+.+++||.+|+.... .. ++++||+..
T Consensus 67 SHP~~~a~pS~~D~~~~~-----~~~~~~~iI~~~ 96 (104)
T PF14464_consen 67 SHPSGPAFPSSTDIRSMR-----DLAPPSYIIVGN 96 (104)
T ss_dssp EESSSSSS--HHHHHTHC-----CS-SCEEEEEEE
T ss_pred cCCCCCCCCCHHHHHhhh-----ccCCeEEEEEeC
Confidence 999999999999998752 22 678888875
No 27
>KOG2880|consensus
Probab=99.35 E-value=1e-12 Score=132.67 Aligned_cols=129 Identities=25% Similarity=0.405 Sum_probs=105.9
Q ss_pred CCceeEEECHHHHHHHHHHHhcC--CCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHh
Q psy1714 158 HFFKDIKISALALLKMVMHARSG--GTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEV 235 (449)
Q Consensus 158 ~~~~~V~Is~~vLlkIl~Ha~~~--~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkv 235 (449)
..++.|.|+.......++-|++. ...|.||+|.|+...+.+.||+...-.++++.+.+++..+.. .++...
T Consensus 249 k~lr~v~ip~~l~~~Fl~la~~NT~knlETCGiL~g~L~~n~f~IThliiPkQeatsd~C~t~neee-----lF~vQd-- 321 (424)
T KOG2880|consen 249 KILRDVHIPERLMEVFLQLAKSNTKKNLETCGILAGKLERNEFYITHLIIPKQEATSDSCNTMNEEE-----LFEVQD-- 321 (424)
T ss_pred ccceEEEecHHHHHHHHHHHhhcccccchHHHHhhhHhhcCcEEEEEEEeecccCCCccccccCHHH-----Hheecc--
Confidence 45889999999999999999864 568999999999988999999987666788888777653321 122222
Q ss_pred CCCCceEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccC
Q psy1714 236 GRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPK 299 (449)
Q Consensus 236 gr~e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~ 299 (449)
..++-.+||-|+||.-+||.|.+|+.|++.||.+.|.+||||+.|... .-+-||+.++
T Consensus 322 q~~L~tlGWIHTHPTQt~FmSSVDlHTHcSYQiMlPEAiAIV~aPk~~------~tGiFrLt~~ 379 (424)
T KOG2880|consen 322 QHELLTLGWIHTHPTQTCFMSSVDLHTHCSYQIMLPEAIAIVCAPKSK------TTGIFRLTDP 379 (424)
T ss_pred cccceeeeeeecCCccchhheeccccccceeeeecchheeEEeccccC------CcceEEecCC
Confidence 256889999999999999999999999999999999999999999742 2457999953
No 28
>cd08060 MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family of unknown function includes neighbor of COX4 (Noc4p). This family includes Noc4p (neighbor of COX4; neighbor of Cytochrome c Oxidase 4; nucleolar complex associated 4 homolog) which belongs to the family of unknown function, UPF0172, with MPN/JAMM-like domains. Proteins in this family are homologs of the NOC4 gene which is conserved in eukaryotic members including human, dog, mouse, rat, chicken, zebrafish, fruit fly, mosquito, S.pombe, K.lactis, E.gossypii, M.grisea, N.crassa, A.thaliana, and rice. NOC4 highly expressed in the pancreas and moderately in liver, heart, lung, kidney, brain, skeletal muscle, and placenta. This nucleolar protein forms a complex with Nop14p that mediates maturation and nuclear export of 40S ribosomal subunits. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.
Probab=99.27 E-value=4.9e-11 Score=112.50 Aligned_cols=110 Identities=21% Similarity=0.186 Sum_probs=75.4
Q ss_pred ECHHHHHHHHHHHhcCCCceeEEEEeeeec-CCeEEEEEEEeCCccCCCCcccccccHHH--HHHHHHHHHHHhCCCCce
Q psy1714 165 ISALALLKMVMHARSGGTLEVMGLLLGKID-ANSMIVMDAFALPVEGTETRVNAQAQAYE--YMTAYIEAAKEVGRLENA 241 (449)
Q Consensus 165 Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d-~~tl~Vtd~F~lP~~~tetrv~a~~e~~e--y~~~mlellrkvgr~e~V 241 (449)
|+..++.+|+.||....+.||||+|+|+.. ++++.|++++|+.+.. ... ++.. -+....+.+++ .+..|
T Consensus 1 is~~ay~ki~~HA~k~p~~evcGlLlG~~~~~~~~~V~d~vPl~h~~----~~l--~P~~Eval~~ve~~~~~--~gl~I 72 (182)
T cd08060 1 LSTLAYVKMLLHAAKYPHCAVNGLLLGKKSSGGSVEITDAVPLFHSC----LAL--APMLEVALALVDAYCKS--SGLVI 72 (182)
T ss_pred CCHHHHHHHHHHHHHcCCchheEEEEeeecCCCCEEEEEEEEcCCCc----ccc--CHHHHHHHHHHHHHHHH--CCCEE
Confidence 467899999999999777899999999987 7788999999999842 211 2221 12333456666 56999
Q ss_pred EEEEecCCCCC-CcccHhhHHhHHhhhccCCCeEEEEEcCCC
Q psy1714 242 IGWYHSHPGYG-CWLSGIDVSTQMLNQNFQEPFVAIVIDPVR 282 (449)
Q Consensus 242 VGWYHSHP~~~-~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~ 282 (449)
||+|||||... ..|+.+=......-+...+.++.+++|-.+
T Consensus 73 vG~Yhsh~~~~d~~~~~~a~kIadki~~~~~~a~ll~vdn~~ 114 (182)
T cd08060 73 VGYYQANERLDDSSPSPVAKKIADKIAENFSNACLLMVDNEK 114 (182)
T ss_pred EEEEecCCcccCCCCcHHHHHHHHHHHHhCCCCEEEEEeCcc
Confidence 99999999763 234433222222222345677888888554
No 29
>cd08065 MPN_eIF3h Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF2h. Eukaryotic translation initiation factor 3 (eIF3) subunit h (eIF3h; eIF3 subunit 3; eIF3S3; eIF3-gamma; eIF3-p40) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity.Together with eIF3e and eIF3f, eIF3h stabilizes the eIF3 complex. Results suggest that eIF3h regulates cell growth and viability, and that over-expression of the gene may provide growth advantage to prostate, breast, and liver cancer cells. For example, EIF3h gene amplification is common in late-stage prostate cancer suggesting that it may be functionally involved in the progression of the disease. It has been shown that coamplification of MYC, a well characterized oncogene involved in cell growth, different
Probab=99.17 E-value=7.7e-11 Score=116.91 Aligned_cols=105 Identities=16% Similarity=0.171 Sum_probs=91.8
Q ss_pred ceeeehHHHHHHHHHhhhcCCCeeEEeeecccccCCceeEeeccccccCCcccccchhhhHHHHHHHHHHHhcccccccc
Q psy1714 71 KDIKISALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVRHQEV 150 (449)
Q Consensus 71 ~~v~is~~a~~km~~ha~~g~~~evmg~~~g~~~~~~~~v~d~~~lpv~g~e~~vna~~~~~~~m~~~~~~~~~vr~~e~ 150 (449)
++|.|++++++||+.|++++.|.||||+|+|...++++.|++||++|..+++...+.....-+|+.+.++..++++..|+
T Consensus 1 ~~V~I~~~vllkIv~H~~~~~p~~v~G~LLG~~~~~~leVtn~Fp~P~~~~~~~~~~~~~~~~yq~~m~~~~r~v~~~e~ 80 (266)
T cd08065 1 TSVQIDGLVVLKIIKHCKEELPELVQGQLLGLDVGGTLEVTNCFPFPKSEEDDSDRADEDIADYQLEMMRLLREVNVDHN 80 (266)
T ss_pred CEEEEeHHHHHHHHHHHhcCCCcEEEEEEeeeEcCCEEEEEeccCCCCCCCCCcchhhhhHHHHHHHHHHHHHHhCCCCc
Confidence 47999999999999999999999999999999999999999999999999887765555566899999999999999999
Q ss_pred cccccCCCCceeEEECHHHHHHHHHH
Q psy1714 151 IPLTLIPHFFKDIKISALALLKMVMH 176 (449)
Q Consensus 151 i~w~~~p~~~~~V~Is~~vLlkIl~H 176 (449)
++-|+..++ ....+++..+......
T Consensus 81 iVGWY~S~p-~~~~~~~s~id~~~~~ 105 (266)
T cd08065 81 HVGWYQSTY-LGSFFTRDLIETQYNY 105 (266)
T ss_pred EEEeEeecC-CCCcCCHHHHHHHHHH
Confidence 999999887 5566777777765444
No 30
>cd08059 MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); prokaryotic. This family contains bacterial and archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These catalytically active domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=99.10 E-value=4.3e-10 Score=95.30 Aligned_cols=91 Identities=25% Similarity=0.273 Sum_probs=66.8
Q ss_pred HHHHHHHHHhcCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCceEEEEecC
Q psy1714 169 ALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGWYHSH 248 (449)
Q Consensus 169 vLlkIl~Ha~~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VVGWYHSH 248 (449)
++..|+.|++...|.|+||+|+|..+. .+++...+|+.. .+.. +.. .+.+.+ .+..+||.||||
T Consensus 2 ~~~~i~~~~~~~~p~E~~gll~~~~~~---~~~~~~~~~~~~----~~~~--~~~-----~~~a~~--~~~~~v~i~HsH 65 (101)
T cd08059 2 LLKTILVHAKDAHPDEFCGFLSGSKDN---VMDELIFLPFVS----GSVS--AVI-----DLAALE--IGMKVVGLVHSH 65 (101)
T ss_pred HHHHHHHHHHhcCChhhheeeecCCCC---eEEEEEeCCCcC----CccC--hHH-----HHHHhh--CCCcEEEEEecC
Confidence 577899999998999999999997542 577888888632 1111 111 233333 568999999999
Q ss_pred CCCCCcccHhhHHhHHhhhccCCCeEEEEEcC
Q psy1714 249 PGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDP 280 (449)
Q Consensus 249 P~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP 280 (449)
|++++.||..|+.... .....++|+..
T Consensus 66 P~g~~~PS~~D~~~~~-----~~~~~~iIv~~ 92 (101)
T cd08059 66 PSGSCRPSEADLSLFT-----RFGLYHVIVCY 92 (101)
T ss_pred cCCCCCCCHHHHHHHH-----hcCCeEEEEEC
Confidence 9999999999998432 23778999974
No 31
>cd08067 MPN_2A_DUB Mov34/MPN/PAD-1 family: Histone H2A deubiquitinase. This family includes histone H2A deubiquitinase (Histone H2A DUB;MYSM1; myb-like, SWIRM and MPN domains 1; 2ADUB; 2A-DUB; KIAA19152ADUB, or KIAA1915/MYSM1), a member of JAMM/MPN+ deubiquitinases (DUBs), with possible Zn2+-dependent ubiquitin isopeptidase activity. It contains the SWIRM (Swi3p, Rsc8p and Moira), and SANT (SWI-SNF, ADA N-CoR, TFIIIB)/Myb domains; the SANT, but not the SWIRM, domain can bind directly to DNA. 2A-DUB is specific for monoubiquitinated H2A (uH2A), regulating transcription by coordinating histone acetylation and deubiquitination, and destabilizing the association of linker histone H1 with nucleosomes. 2A-DUB interacts with p/CAF (p300/CBP-associated factor) in a co-regulatory protein complex, where the status of acetylation of nucleosomal histones modulates its deubiquitinase activity. 2A-DUB is a positive regulator of androgen receptor (AR) transactivation activity on a reporter gene; it p
Probab=99.10 E-value=4.4e-10 Score=106.48 Aligned_cols=117 Identities=20% Similarity=0.169 Sum_probs=82.9
Q ss_pred eeeehHHHHHHHHHhhhcCCCeeEEeeecccccC--CceeEeeccccccCCcccccchhhhHHHHHHHHHHHhccccccc
Q psy1714 72 DIKISALALLKMVMHARSGGTLEVMGLLLGKIDA--NSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVRHQE 149 (449)
Q Consensus 72 ~v~is~~a~~km~~ha~~g~~~evmg~~~g~~~~--~~~~v~d~~~lpv~g~e~~vna~~~~~~~m~~~~~~~~~vr~~e 149 (449)
+|+||++|||||+.||+.|. .||||+|+|++++ +.+.|+++|++|-.+++.|++...+...-|.++++. +..
T Consensus 6 ~V~Is~~all~m~~Ha~~~~-~EvcGlL~G~~d~~~~~l~Vt~~~p~~~~~~~~~~e~dp~~q~e~~~~l~~----~gl- 79 (187)
T cd08067 6 KVTVSSNALLLMDFHCHLTT-SEVIGYLGGTWDPNTQNLTILQAFPCRSRLTGLDCEMDPVSETEIRESLES----RGL- 79 (187)
T ss_pred EEEECHHHHHHHHHHhcCCC-cEEEEEEEeEEcCCCCeEEEEEEEecCCCCCCcccccCHHHHHHHHHHHHH----cCC-
Confidence 79999999999999999998 9999999999764 679999999999988889988776666777777753 223
Q ss_pred ccccccCCCCceeEEECHH-HHHHHHHHH----hcCCCceeEEEEeeeec
Q psy1714 150 VIPLTLIPHFFKDIKISAL-ALLKMVMHA----RSGGTLEVMGLLLGKID 194 (449)
Q Consensus 150 ~i~w~~~p~~~~~V~Is~~-vLlkIl~Ha----~~~~p~EVmGLLLG~~d 194 (449)
++.-++..++......+.. +-.+..-.. ..++..+.+|++.+-.+
T Consensus 80 ~vVGwYHSHP~~~~~pS~~Di~tQ~~yQ~~~~~~~~~~~p~v~~I~~P~~ 129 (187)
T cd08067 80 SVVGWYHSHPTFPPNPSLRDIDTQLDYQIMFKGSDSGYEPCVGLICSPYD 129 (187)
T ss_pred EEEEEEecCCCCCcCCCHHHHHHHHHHHhhccccccCCCCeEEEEEcccc
Confidence 4444455554444444442 222111111 12456788888877644
No 32
>cd08056 MPN_PRP8 Mpr1p, Pad1p N-terminal (MPN) domains without isopeptidase activity found in splicing factor Prp8. Members of this family are found in pre-mRNA-processing factor 8 (Prp8) which is a critical splicing factor, interacting with several other spliceosomal proteins, snRNAs, and the pre-mRNA, thus organizing and stabilizing the spliceosome catalytic core. Prp8 is one of the largest and most highly conserved of nuclear proteins, occupying a central position in the catalytic core of the spliceosome. Its C-terminal domain exhibits a JAB1/MPN-like core similar to deubiquitinating enzymes, but does not show catalytic isopeptidase activity, possibly because the putative isopeptidase center is covered by insertions and terminal appendices that are grafted onto this core, thus impairing the metal binding site. It is proposed that this domain is a protein interaction domain instead of a Zn(2+)-dependent metalloenzyme as proposed for some MPN proteins. The DEAD-box protein Brr2 and t
Probab=99.10 E-value=7.8e-10 Score=108.97 Aligned_cols=126 Identities=21% Similarity=0.240 Sum_probs=103.1
Q ss_pred eEEECHHHHHHHHHHHhcCCCceeEEEEeeeecC---CeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCC
Q psy1714 162 DIKISALALLKMVMHARSGGTLEVMGLLLGKIDA---NSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRL 238 (449)
Q Consensus 162 ~V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~---~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~ 238 (449)
++.|+..++.+.+.-|. ...++||+|-|+.-. +..+|+..+..|+.++.+.|.......++ +.+ .+
T Consensus 37 t~vlPknllkkFi~iaD--~rtQ~~GyLyG~~~~d~~~vkeI~cIvipPQ~gt~~sv~l~~~~~~~-----~~l----~~ 105 (252)
T cd08056 37 TYILPKNLLKKFISISD--LRTQIAGYLYGKSPPDNPQVKEIRCIVLVPQLGTHQTVTLPQQLPQH-----EYL----ED 105 (252)
T ss_pred EEEeCHHHHHHHHHHhh--hcceEEEEEeccCCCCCCCeEEEEEEEECCEeCCcCcEECCccCccc-----hhh----CC
Confidence 78999999999998875 455999999999644 56788888888999988877653322121 111 46
Q ss_pred CceEEEEecCCCCCCcccHhhHHhHHhhhccCC-----CeEEEEEcCCCCcCCCeeEEEEEEEccCCCC
Q psy1714 239 ENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQE-----PFVAIVIDPVRTISAGKVCLGSFRTYPKGYK 302 (449)
Q Consensus 239 e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~-----p~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~ 302 (449)
+..+||-|+||.-.+++|..|+.++..+|...+ .+|.++|++. .|.++++||+++++|+.
T Consensus 106 Le~LGWIHTqp~e~~~Lss~Dv~tha~~~~~~~~w~~~~~V~it~Sft----pGs~sl~ay~LT~~G~~ 170 (252)
T cd08056 106 LEPLGWIHTQPNELPQLSPQDVTTHAKILADNPSWDGEKTVILTCSFT----PGSCSLTAYKLTPEGYE 170 (252)
T ss_pred CEeeEEEEcCCCCccccCHHHHHHHHHHHHhccccCCCcEEEEEEcCC----CCceEEEEEecCHHHHH
Confidence 899999999999999999999999999998876 7899999985 68899999999997764
No 33
>TIGR03735 PRTRC_A PRTRC system protein A. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family is designated protein A.
Probab=99.02 E-value=2e-09 Score=102.23 Aligned_cols=113 Identities=18% Similarity=0.061 Sum_probs=78.9
Q ss_pred EEECHHHHHHHHHHHhcCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCceE
Q psy1714 163 IKISALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAI 242 (449)
Q Consensus 163 V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VV 242 (449)
=.|....+.+|+.||+.+.|.|+||++.|..++. +..++++.|....... ...+.. + ..+++.+|
T Consensus 73 g~Ip~~l~~~ii~hAr~~~P~EacG~Iag~~~~~---~~r~~p~~N~~~Sp~~-~~~d~~-----~------~~~ge~lV 137 (192)
T TIGR03735 73 GPIPASLLEEFAEAARAALPNEVAAWIVWNSETG---SLRLAALESIEASPGH-IDYRRP-----R------LDDGEHLV 137 (192)
T ss_pred CCCCHHHHHHHHHHHHhcCCcceEEEEEEcCCCC---EEEEEeccccccCCce-EEEcch-----H------HhCCCeEE
Confidence 3799999999999999999999999999963332 3466888885543321 111221 1 13789999
Q ss_pred EEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccC
Q psy1714 243 GWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPK 299 (449)
Q Consensus 243 GWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~ 299 (449)
+.|||||..+++||.+|+..- ..+--++.|+--.. ++.+++ +||+.-.
T Consensus 138 ~iyHSH~~spA~PS~tD~~Dd-----~~~~k~~~ViG~~~---~~~p~~-~~Rl~~~ 185 (192)
T TIGR03735 138 VDLHSHGTGSAFFSETDDADD-----KGEVKISGVLGCLD---QGTPQA-VFRLCLL 185 (192)
T ss_pred EEEcCCCCCCCCCCcccchhh-----cCceEEEEEEEecC---CCCceE-EEEEEec
Confidence 999999999999999998742 12245777776543 334444 4776543
No 34
>PF01398 JAB: JAB1/Mov34/MPN/PAD-1 ubiquitin protease; InterPro: IPR000555 Members of this family are found in proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. This family is also known as the MPN domain [] and PAD-1-like domain []. It has been shown that this domain occurs in prokaryotes []. Mov34 proteins act as the regulatory subunit of the 26 proteasome, which is involved in the ATP-dependent degradation of ubiquitinated proteins. The function of this domain is unclear, but it is found in the N terminus of the proteasome regulatory subunits, eukaryotic initiation factor 3 (eIF3) subunits and regulators of transcription factors. A number of the proteins associated with this family belong to MEROPS peptidase family M67 (clan M-). This includes the Poh1 peptidase of Saccharomyces cerevisiae (Baker's yeast) which is a component of the 19S proteasome regulatory particle.; GO: 0005515 protein binding; PDB: 2ZNV_D 2ZNR_A 4E0Q_A 2P87_A 2P8R_A 2O96_B 2O95_A 3RZU_F 3RZV_A.
Probab=98.98 E-value=2.8e-10 Score=98.12 Aligned_cols=87 Identities=28% Similarity=0.445 Sum_probs=72.1
Q ss_pred cceeeehHHHHHHHHHhhhcCCCeeEEeeecccccCC-ceeEeeccccccCCcccccchhhhHHHHHHHHHHHhcccccc
Q psy1714 70 FKDIKISALALLKMVMHARSGGTLEVMGLLLGKIDAN-SMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVRHQ 148 (449)
Q Consensus 70 f~~v~is~~a~~km~~ha~~g~~~evmg~~~g~~~~~-~~~v~d~~~lpv~g~e~~vna~~~~~~~m~~~~~~~~~vr~~ 148 (449)
+++|+|+++|++||+.|+.++.+-||||+|+|+..++ .+.|+|+|++|..+++..+......+. .+.++..+++...
T Consensus 3 ~~~V~i~p~vll~i~~h~~r~~~~~v~G~LlG~~~~~~~v~I~~~f~~p~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~ 80 (114)
T PF01398_consen 3 VQTVQIHPLVLLKIIDHATRSSPNEVIGLLLGTQDGDNTVEITNSFPVPHSESEDDCDMDDEDFQ--KKMIELLKKVNPN 80 (114)
T ss_dssp CEEEEEEHHHHHHHHHHHHHHHCTEEEEEEEEEEETT-EEEEEEEEEESEEEESSEEEEECCHHH--HHHHHHHHHCSTT
T ss_pred cEEEEECHHHHHHHHHHHhcCCCCEEEEEEEEEecCceEEEEEEEEEeeEecCccccccchhhHH--HHHHhhhcccccc
Confidence 6899999999999999999988889999999999999 999999999999999998777666544 5666677777555
Q ss_pred cccccccCCC
Q psy1714 149 EVIPLTLIPH 158 (449)
Q Consensus 149 e~i~w~~~p~ 158 (449)
+.+.-|+..+
T Consensus 81 ~~iVGWY~s~ 90 (114)
T PF01398_consen 81 LEIVGWYHSH 90 (114)
T ss_dssp SEEEEEEEEE
T ss_pred ceEEEEEEcc
Confidence 5555555533
No 35
>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family. This uncharacterized protein is found in several Proteobacteria, among them Rhizobium sp. NGR234, Vibrio cholerae, Myxococcus xanthus, and E. coli strain ECOR31. In the latter, it is part of an integrative and conjugative element that is readily induced to excise and circularize.
Probab=98.95 E-value=8.7e-09 Score=92.61 Aligned_cols=110 Identities=15% Similarity=0.116 Sum_probs=71.1
Q ss_pred HHHHHHHHh-cCCCceeEEEEeeeecCCeEEEEEEEeCCc-cCCCCcccccccHHHHHHHHHHHHHHhCCCCceEEEEec
Q psy1714 170 LLKMVMHAR-SGGTLEVMGLLLGKIDANSMIVMDAFALPV-EGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGWYHS 247 (449)
Q Consensus 170 LlkIl~Ha~-~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~-~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VVGWYHS 247 (449)
+..|..|.+ ...+.|.+|+|+|..++..+.|+++. .|. ....++..+.......+...-+..++.+.....||=|||
T Consensus 3 ~~~~~~~~Q~~~~~~EtGGiLiG~~~~~~~ii~~~t-~P~p~d~~tr~~F~r~~~~~q~~i~~~~~~s~g~~~ylGeWHt 81 (131)
T TIGR02256 3 VAMLKSYRQWHDLSTETGGVLIGERRGAHAVITKIS-EPGSGDIRTRKRFSRDGEHHQSEVDEHFEVSGGVDTYLGEWHT 81 (131)
T ss_pred HHHHHHHHhCcCCCCccceEEEEEEcCCcEEEEEEE-cCCCCcccCceEEEeCcHHHHHHHHHHHHHhCCceEEEEecCc
Confidence 344444443 34678999999999888888888865 333 223333333333322333334455555556899999999
Q ss_pred CCCCCCcccHhhHHhHHhhhccCCCeEEEEEcC
Q psy1714 248 HPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDP 280 (449)
Q Consensus 248 HP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP 280 (449)
||...+.||.+|+.+....=....+.+.||+..
T Consensus 82 HP~~~p~PS~~D~~~~~~~~~~~~~~l~iIvG~ 114 (131)
T TIGR02256 82 HPEDQPEPSWTDRRSWRTIIRSPEAMLLLIVGR 114 (131)
T ss_pred CCCCCCCCCHHHHHHHHHHHhCCCeeEEEEEcC
Confidence 999999999999988553333344567777663
No 36
>cd08062 MPN_RPN7_8 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in 19S proteasomal subunits Rpn7 and Rpn8. This family includes lid subunits of the 26 S proteasome regulatory particles, Rpn7 (PSMD7; proteasome 26S non-ATPase subunit 7; p44), and Rpn8 (PSMD8; proteasome 26S non-ATPase subunit 8; p40; Mov34). Rpn7 is known to be critical for the integrity of the 26 S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. Rpn7 and Rpn8 are ATP-independent components of the 19S regulator subunit, and contain the MPN structural motif on its N-terminal region. However, while they show a typical MPN metalloprotease fold, they lack the canonical JAMM motif, and therefore do not show catalytic isopeptidase activity. It is suggested that Rpn7 function is primarily structural.
Probab=98.95 E-value=1.6e-09 Score=108.54 Aligned_cols=88 Identities=26% Similarity=0.328 Sum_probs=78.9
Q ss_pred ceeeehHHHHHHHHHhhhc---CCCeeEEeeecccccCCceeEeeccccccCCcccccchhhhHHHHHHHHHHHhccccc
Q psy1714 71 KDIKISALALLKMVMHARS---GGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVRH 147 (449)
Q Consensus 71 ~~v~is~~a~~km~~ha~~---g~~~evmg~~~g~~~~~~~~v~d~~~lpv~g~e~~vna~~~~~~~m~~~~~~~~~vr~ 147 (449)
++|+|.+|+|++|+.|..+ |++-+|||.|+|...++.|.|+|||++|.+.++..+|+...-.+|+.+.++..+++.+
T Consensus 1 ~~V~ihplVLl~I~dh~~R~~~~~~~~ViG~LLG~~~~~~veItnsF~~p~~~~~~~~~~~~~d~~y~~~m~~~~kkv~~ 80 (280)
T cd08062 1 KKVVVHPLVLLSVVDHYNRVAKGTSKRVVGVLLGSWKKGVLDVTNSFAVPFEEDEKDPSVWFLDHNYLENMYGMFKKVNA 80 (280)
T ss_pred CeEEEehHHHHHHHHHHhhhcCCCCceEEEEEEEEEeCCEEEEEEeeecCccCCCCCcchhhhhHHHHHHHHHHHHHhCC
Confidence 5799999999999999854 7789999999999999999999999999999999988877778999999999999988
Q ss_pred ccccccccCCC
Q psy1714 148 QEVIPLTLIPH 158 (449)
Q Consensus 148 ~e~i~w~~~p~ 158 (449)
.|.+.-|+...
T Consensus 81 ~e~vVGWY~tg 91 (280)
T cd08062 81 KEKIVGWYSTG 91 (280)
T ss_pred CCCeEEEecCC
Confidence 88777666643
No 37
>cd08057 MPN_euk_non_mb Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity (non metal-binding); eukaryotic. This family contains MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains variants lacking key residues in the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif and are unable to coordinate a metal ion. Comparisons of key catalytic and metal binding residues explain why the MPN-containing proteins Rpn7/PSMD7, Rpn8/PSMD8, CSN6, Prp8p, and the translation initiation factor 3 subunits f and h do not show catalytic isopeptidase activity. It has been proposed that the MPN domain in these proteins has a primarily structural function. Rpn7 is known to be critical for the integrity of the 26S proteasome complex by establishing a correct lid structure. It is necessary for the incorporation/anchoring of Rpn3 and Rpn12 to the lid and essential for viability and normal mitosis. CSN6 is a highly conserved protein complex with diverse functions, including several import
Probab=98.91 E-value=1.9e-09 Score=98.72 Aligned_cols=84 Identities=26% Similarity=0.347 Sum_probs=72.3
Q ss_pred eeehHHHHHHHHHhhhcCC--CeeEEeeecccccCCceeEeeccccccCCcccccchhhhHHHHHHHHHHHhcccccccc
Q psy1714 73 IKISALALLKMVMHARSGG--TLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVRHQEV 150 (449)
Q Consensus 73 v~is~~a~~km~~ha~~g~--~~evmg~~~g~~~~~~~~v~d~~~lpv~g~e~~vna~~~~~~~m~~~~~~~~~vr~~e~ 150 (449)
|+|.+|+++||+.|+.+.+ +-+|||+|+|+..++.+.|+|+|++|.++++.++ ....+|+.+.++..+++.+++.
T Consensus 1 V~ihplvll~I~dh~~R~~~~~~~v~G~LlG~~~~~~veV~nsF~lp~~~~~~~~---~~d~~y~~~m~~~~~~v~~~~~ 77 (157)
T cd08057 1 VQLHPLVLLNISDHYTRRKYGIKRVIGVLLGYVDGDKIEVTNSFELPFDEEEESI---FIDTEYLEKRYNLHKKVYPQEK 77 (157)
T ss_pred CEEccHHHhhHHHHHHhccCCCCeEEEEEEeEEeCCEEEEEEeEEccccCCCcch---hhhHHHHHHHHHHHHHhCCCCC
Confidence 6899999999999997777 8999999999999999999999999999888763 3356788888889999988888
Q ss_pred cccccCCCC
Q psy1714 151 IPLTLIPHF 159 (449)
Q Consensus 151 i~w~~~p~~ 159 (449)
+.-|+.-.+
T Consensus 78 vVGWY~~~~ 86 (157)
T cd08057 78 IVGWYSIGS 86 (157)
T ss_pred EEEEEeecC
Confidence 777776544
No 38
>cd08064 MPN_eIF3f Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in eIF3f. Eukaryotic translation initiation factor 3 (eIF3) subunit F (eIF3F; EIF3S5; eIF3-p47; eukaryotic translation initiation factor 3, subunit 5 epsilon, 47kDa; Mov34/MPN/PAD-1 family protein) is an evolutionarily non-conserved subunit of the functional core that comprises eIF3a, eIF3b, eIF3c, eIF3e, eIF3f, and eIF3h, and contains the MPN domain. However, it lacks the canonical JAMM motif, and therefore does not show catalytic isopeptidase activity. It has been shown that eIF3f mRNA expression is significantly decreased in many human tumors including pancreatic cancer and melanoma. EIF3f is a potent inhibitor of HIV-1 replication; it mediates restriction of HIV-1 expression through several factors including the serine/arginine-rich (SR) protein 9G8, and cyclin-dependent kinase 11 (CDK11). EIF3f phosphorylation by CDK11 is important in regulating its function in translation and ap
Probab=98.58 E-value=8.2e-08 Score=95.28 Aligned_cols=84 Identities=23% Similarity=0.356 Sum_probs=71.0
Q ss_pred eeehHHHHHHHHHhhhc--CCCeeEEeeecccccCCceeEeeccccccCCcccccchhhhHHHHHHHHHHHhcccccccc
Q psy1714 73 IKISALALLKMVMHARS--GGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVRHQEV 150 (449)
Q Consensus 73 v~is~~a~~km~~ha~~--g~~~evmg~~~g~~~~~~~~v~d~~~lpv~g~e~~vna~~~~~~~m~~~~~~~~~vr~~e~ 150 (449)
|+|.+|+++||+.|..+ +++-.|+|.|+|...++.+.|+|+|++|.+.++.+++.+. +|..+.++..+++.++|.
T Consensus 1 v~ihPlVll~I~dH~~R~~~~~~~V~G~LLG~~~~~~veItnsF~~p~~~~~~~~~~d~---~y~~~m~~~~kkv~~~~~ 77 (265)
T cd08064 1 VRVHPVVLFSILDSYERRNEGQERVIGTLLGTRSEGEVEITNCFAVPHNESEDQVAVDM---EYHRTMYELHQKVNPKEV 77 (265)
T ss_pred CEEccHHHHhHHHHHhhhcCCCcEEEEEEEEEEeCCEEEEEeCeecceeCCCCeEEEcH---HHHHHHHHHHHHhCCCCc
Confidence 68999999999999855 7889999999999999999999999999998888877664 466677788889988777
Q ss_pred cccccCCCC
Q psy1714 151 IPLTLIPHF 159 (449)
Q Consensus 151 i~w~~~p~~ 159 (449)
+.-|+...+
T Consensus 78 vVGWY~tg~ 86 (265)
T cd08064 78 IVGWYATGS 86 (265)
T ss_pred EEeeeeCCC
Confidence 766666543
No 39
>smart00232 JAB_MPN JAB/MPN domain. Domain in Jun kinase activation domain binding protein and proteasomal subunits. Domain at Mpr1p and Pad1p N-termini. Domain of unknown function.
Probab=98.42 E-value=1e-06 Score=76.87 Aligned_cols=97 Identities=27% Similarity=0.296 Sum_probs=70.8
Q ss_pred eeeehHHHHHHHHHhhhcCCCeeEEeeecccccCCceeEeeccccccCCcccccchhhhHHHHHHHHHHHhccccccccc
Q psy1714 72 DIKISALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVRHQEVI 151 (449)
Q Consensus 72 ~v~is~~a~~km~~ha~~g~~~evmg~~~g~~~~~~~~v~d~~~lpv~g~e~~vna~~~~~~~m~~~~~~~~~vr~~e~i 151 (449)
.|+|..+++++|+.|+++..+.|++|+|+|+..++++.|+++|++|......+++.. ..+|.-+..+..+++.+.+.+
T Consensus 1 ~v~i~~~v~~~i~~h~~~~~p~e~~G~L~G~~~~~~~~i~~~~~~p~~~~~~~~~~~--~~~~~~~~~~~~~~~~~~~~~ 78 (135)
T smart00232 1 EVKVHPLVPLNILKHAIRDGPEEVCGVLLGKSNKDRPEVKEVFAVPNEPQDDSVQEY--DEDYSHLMDEELKKVNKDLEI 78 (135)
T ss_pred CEEEcHHHHHHHHHHHhcCCCcEEEEEEEEEEcCCEEEEEEEEecCcCCCCcchhhh--hhhHHHHHHHHHHhhCCCceE
Confidence 478999999999999999999999999999999999999999999998876665322 235666666666666655555
Q ss_pred ccccCCCCceeEEECHHHH
Q psy1714 152 PLTLIPHFFKDIKISALAL 170 (449)
Q Consensus 152 ~w~~~p~~~~~V~Is~~vL 170 (449)
.-++..++-....++..-+
T Consensus 79 vGwyhshp~~~~~pS~~D~ 97 (135)
T smart00232 79 VGWYHSHPDESPFPSEVDV 97 (135)
T ss_pred EEEEEcCCCCCCCcCHHHH
Confidence 4334433322333444333
No 40
>cd08061 MPN_NPL4 Mov34/MPN/PAD-1 family: nuclear protein localization-4 (Npl4) domain. Npl4p (nuclear protein localization-4) is identical to Hmg-CoA reductase degradation 4 (HRD4) protein and contains a domain that is part of the pfam clan MPN/Mov34-like. Npl4 plays an intermediate role between endoplasmic reticulum-associated degradation (ERAD) substrate ubiquitylation and proteasomal degradation. Npl4p associates with Cdc48p (Cdc48 in yeast and p97 or valosin-containing protein (VCP) in higher eukaryotes), the highly conserved ATPase of the AAA family, via ubiquitin fusion degradation-1 protein (Ufd1p) to form a Cdc48p-Ufd1p-Npl4p complex which then functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.
Probab=98.34 E-value=1.3e-05 Score=80.46 Aligned_cols=135 Identities=16% Similarity=0.285 Sum_probs=104.2
Q ss_pred CCceeEEECHHHHHHHHHH-HhcCCCceeEEEEeeeecCC-------eEEEEEEEeCCccCCCCcccccccHHHHHHHHH
Q psy1714 158 HFFKDIKISALALLKMVMH-ARSGGTLEVMGLLLGKIDAN-------SMIVMDAFALPVEGTETRVNAQAQAYEYMTAYI 229 (449)
Q Consensus 158 ~~~~~V~Is~~vLlkIl~H-a~~~~p~EVmGLLLG~~d~~-------tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~ml 229 (449)
+-+..|.+....+..-..+ +.......-||+|.|+.+.+ .++|.-.|--|+.++.+.+...++.. ....-
T Consensus 8 r~Vd~vef~~~~~~~~f~~~~w~~~~~QR~G~LyG~y~~~~~~plgika~VeaIYEPPQ~~~~d~~~~l~d~~--~~~vd 85 (274)
T cd08061 8 RHVDHVEFDNPSIVEFFLYVFWRKTGQQRIGFLYGRYDEDEDVPLGIKAVVEAIYEPPQEGTPDGFELLEDPN--ADTVD 85 (274)
T ss_pred CCcCEEEEecHHHHHHHHHHHHHhhcceeEEEEEEEeecccCCCCceEEEEEEEECCCccCCCCCeEEccchh--hhHHH
Confidence 3567788877766655555 55556688999999998765 56777788888888887776554332 23333
Q ss_pred HHHHHhCCCCceEEEEecCCCC----CCcccHhhHHhHHhhhc------cCCCeEEEEEcCCCCcCCCeeEEEEEEEccC
Q psy1714 230 EAAKEVGRLENAIGWYHSHPGY----GCWLSGIDVSTQMLNQN------FQEPFVAIVIDPVRTISAGKVCLGSFRTYPK 299 (449)
Q Consensus 230 ellrkvgr~e~VVGWYHSHP~~----~~~pS~iDI~tQ~~yQ~------~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~ 299 (449)
+.++. .|+..|||-+||+.- .+++|..++.+.+.+|. +...||-+|++|.. .|.+.+.||++++.
T Consensus 86 ~iA~~--lGL~~VG~IfT~l~~~~~d~~~LSs~Evi~aA~~Q~~~~~g~~gskFvT~vvs~~~---~g~i~~~ayQvSdq 160 (274)
T cd08061 86 AIAAA--LGLERVGWIFTDLPREDKDGYFLSAEEVILAAKFQLKHPTGKFGSKFVTVVVTGDK---DGQIHFEAYQVSDQ 160 (274)
T ss_pred HHHHH--cCCeEEEEEEecCCCCCCCceeECHHHHHHHHHHhhhcccCCcCCeEEEEEEecCC---CCceeeeeeeecHH
Confidence 55555 569999999999976 88999999999999994 66889999999975 68899999999984
No 41
>cd08068 MPN_BRCC36 Mov34/MPN/PAD-1 family: BRCC36, a subunit of BRCA1-A complex. BRCC36 (BRCA1-A complex subunit BRCC36; BRCA1/BRCA2-containing complex subunit 36; BRCA1/BRCA2-containing complex subunit 3; BRCC3; BRISC complex subunit BRCC36; BRCC36 isopeptidase complex; Lys-63-specific deubiquitinase BRCC36) and BRCC36-like domains are members of JAMM/MPN+ deubiquitinases (DUBs), possibly with Zn2+-dependent ubiquitin isopeptidase activity. BRCC36 is part of the BRCA1/BRCA2/BARD1-containing nuclear complex that displays an E3 ubiquitin ligase activity. It is targeted to DNA damage foci after irradiation; RAP80 recruits the Abraxas-BRCC36-BRCA1-BARD1 complex to DNA double strand breaks (DSBs) for DNA repair through specific recognition of Lys 63-linked polyubiquitinated proteins by its tandem ubiquitin-interacting motifs. A new protein, MERIT40 (mediator of RAP80 interactions and targeting 40 kDa), also named NBA1 (new component of the BRCA1 A complex), exists in the same BRCA1-contai
Probab=98.32 E-value=4.9e-06 Score=82.11 Aligned_cols=120 Identities=20% Similarity=0.187 Sum_probs=71.6
Q ss_pred ceeeehHHHHHHHHHhhhcCCCeeEEeeecccccC-----CceeEe--ecccccc-CCcccccchhhhH----HHHHHHH
Q psy1714 71 KDIKISALALLKMVMHARSGGTLEVMGLLLGKIDA-----NSMIVM--DAFALPV-EGTETRVNAQAQA----YEYMTAY 138 (449)
Q Consensus 71 ~~v~is~~a~~km~~ha~~g~~~evmg~~~g~~~~-----~~~~v~--d~~~lpv-~g~e~~vna~~~~----~~~m~~~ 138 (449)
++|+||..++.+|+.||+++.|.|+||||+|++.+ ..-.|. ..++++- +.+.+|+.-..+. ...|-++
T Consensus 2 ~~V~Is~~~l~~il~HA~~~~P~EvCGLL~G~~~~~~~~~~~~~v~i~~~~~~~~~~~s~~r~eidPee~~~a~~ea~~~ 81 (244)
T cd08068 2 SKVHLSADVYLVCLTHALSTEKEEVMGLLIGEIEVSKKGEEVAIVHISAVIILRRSDKRKDRVEISPEQLSAASTEAERL 81 (244)
T ss_pred cEEEECHHHHHHHHHHHHhCCCcceeEEEEeecccccccccceeEEEeeeccccccCCCCceEEeCHHHHHHHHHHHHHH
Confidence 68999999999999999999999999999999863 233333 4444433 4466666544443 2333322
Q ss_pred HHHhcccccccccccccCCCCceeEEECHHHHHHHHHHHhcCCCceeEEEEeeeecC
Q psy1714 139 IEAAKEVRHQEVIPLTLIPHFFKDIKISALALLKMVMHARSGGTLEVMGLLLGKIDA 195 (449)
Q Consensus 139 ~~~~~~vr~~e~i~w~~~p~~~~~V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~ 195 (449)
.+..++...+.-++..|+-....-|..=+.. .++.........|+++...++
T Consensus 82 ---~~~~~rgl~vVGwYHSHP~~~a~PS~~Dv~t--q~~~q~~~p~~v~lIvS~~~~ 133 (244)
T cd08068 82 ---TEETGRPMRVVGWYHSHPHITVWPSHVDVRT--QAMYQMMDSGFVGLIFSCFNE 133 (244)
T ss_pred ---HhhccCCceEEEEEecCCCCCCCCCHhHHHH--HHHHHhhCCCcEEEEEEecCC
Confidence 3344565555555665554444444333321 111111223578888876554
No 42
>PF03665 UPF0172: Uncharacterised protein family (UPF0172); InterPro: IPR005366 This is a small family of proteins of unknown function.
Probab=98.28 E-value=1e-05 Score=77.48 Aligned_cols=116 Identities=22% Similarity=0.158 Sum_probs=75.0
Q ss_pred eeEEECHHHHHHHHHHHhcCCCceeEEEEeeeecCCe--EEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCC
Q psy1714 161 KDIKISALALLKMVMHARSGGTLEVMGLLLGKIDANS--MIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRL 238 (449)
Q Consensus 161 ~~V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~t--l~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~ 238 (449)
..|.|+..++.||+-||..-...-|+|+|+|...++. +.|+||+|+=+....-.. ..+.+... .-..+++ .+
T Consensus 2 ~~v~is~~AY~K~~LHaaKyP~~aVnGvLlg~~~~~~~~v~i~DaVPLfH~~~~L~P-mlEvAL~q---vd~~~~~--~g 75 (196)
T PF03665_consen 2 SSVEISSRAYAKMILHAAKYPHCAVNGVLLGKSSKSSSEVEIVDAVPLFHHWLSLSP-MLEVALAQ---VDAYAKS--NG 75 (196)
T ss_pred ceEEEcHHHHHHHHHHhccCCCCceeeEEEeccCCCCceEEEeeceeccccccCcch-HHHHHHHH---HHHHHhh--CC
Confidence 4789999999999999987555789999999976554 999999988874322211 11112111 1123343 56
Q ss_pred CceEEEEecCCCCC-CcccHhhHHhHHhhhccCCCeEEEEEcCCC
Q psy1714 239 ENAIGWYHSHPGYG-CWLSGIDVSTQMLNQNFQEPFVAIVIDPVR 282 (449)
Q Consensus 239 e~VVGWYHSHP~~~-~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~ 282 (449)
..|||+||...... .-|+.+=......=+...+.++.|++|-.+
T Consensus 76 l~IvGyY~Ane~~~d~~~~~~a~kiad~I~~~~~~a~ll~idn~k 120 (196)
T PF03665_consen 76 LVIVGYYQANERLDDNSPSPVAEKIADKIAENFSDACLLMIDNKK 120 (196)
T ss_pred CEEEEEEEeccccccCCCCHHHHHHHHHHHhhCCCcEEEEEECcc
Confidence 99999999987432 234444222222222345778888999543
No 43
>KOG1555|consensus
Probab=98.27 E-value=6.2e-07 Score=90.72 Aligned_cols=102 Identities=32% Similarity=0.488 Sum_probs=75.2
Q ss_pred ceeeehHHHHHHHHHhhhcCCCee-EEeee-cc----cccCCceeEeeccccccCCcccc--cchhhhHHHHHHHHHHHh
Q psy1714 71 KDIKISALALLKMVMHARSGGTLE-VMGLL-LG----KIDANSMIVMDAFALPVEGTETR--VNAQAQAYEYMTAYIEAA 142 (449)
Q Consensus 71 ~~v~is~~a~~km~~ha~~g~~~e-vmg~~-~g----~~~~~~~~v~d~~~lpv~g~e~~--vna~~~~~~~m~~~~~~~ 142 (449)
.+|.||.+|++||+.|+|.|.+.| |||+| +| +++..+..|.|+|++|..||... +-+.+..+. .|-++..
T Consensus 31 e~v~i~slall~m~rh~r~~~p~e~v~Glm~lg~~~~fv~~~Tv~vv~v~am~~sg~~is~~~e~~d~V~q--~q~~~~l 108 (316)
T KOG1555|consen 31 ETVYISSLALLKMLRHDRAGSPEETVMGLMSLGRLPEFVDDYTVRVVDVFAMPQSGTGISKFVEAVDPVFQ--TQMMDLL 108 (316)
T ss_pred ceeeeehhhhhhcccccccCCchhhccceeecccccceeeecceeeeeeeccccccceecccchhccHHHH--HHHHHHH
Confidence 389999999999999999999999 99999 99 36789999999999999999998 766666541 2334445
Q ss_pred cccccccccccccCCC-----CceeEEECHHHHHHHH
Q psy1714 143 KEVRHQEVIPLTLIPH-----FFKDIKISALALLKMV 174 (449)
Q Consensus 143 ~~vr~~e~i~w~~~p~-----~~~~V~Is~~vLlkIl 174 (449)
+..++-+..+-|++.+ .+..|-|+...=.+++
T Consensus 109 ~~tGrp~~VVGWYHSHP~f~~wpS~vDi~tQ~syq~~ 145 (316)
T KOG1555|consen 109 KQTGRPELVVGWYHSHPGFGCWPSLVDIDTQQSYQAL 145 (316)
T ss_pred HhcCCcceEEeeccCCCCCCCCccccchhHHHHHhhh
Confidence 5444444444444432 3455666665555554
No 44
>KOG3050|consensus
Probab=97.96 E-value=2.2e-05 Score=76.90 Aligned_cols=162 Identities=20% Similarity=0.297 Sum_probs=105.3
Q ss_pred ceeEEECHHHHHHHHHHHh-----cCCCc-eeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHH
Q psy1714 160 FKDIKISALALLKMVMHAR-----SGGTL-EVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAK 233 (449)
Q Consensus 160 ~~~V~Is~~vLlkIl~Ha~-----~~~p~-EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellr 233 (449)
--+|.++|+|++.|-+|.. .+.|. .|.|.|+|+..|.+++|.++|-+-..-.++. ... +.+|..+-.+..+
T Consensus 8 s~tv~LHPLVImniSdH~tR~k~Q~gpp~~~VyGaliG~Q~GR~vEi~NSFeL~~d~~~~~-~~~--dke~l~kk~eqyk 84 (299)
T KOG3050|consen 8 SVTVKLHPLVIMNISDHYTRVKTQLGPPVKQVYGALIGKQRGRNVEIMNSFELKMDTEEDT-ETI--DKEYLEKKEEQYK 84 (299)
T ss_pred ceeEEeccEEEEehhHHHHHHHhhcCCcHHHhhhhheecccCceEEEeeeeEEEecchhhh-hhc--cHHHHHHHHHHHH
Confidence 3478999999999999983 46666 8999999999999999999998875332221 112 4466665557778
Q ss_pred HhCCCCceEEEEecCCCCCCcccHhhHHhHHhhhccCCCeEEEEEcCCCCcC-CCeeEEEEEEEccCCCCCCCCCCCccc
Q psy1714 234 EVGRLENAIGWYHSHPGYGCWLSGIDVSTQMLNQNFQEPFVAIVIDPVRTIS-AGKVCLGSFRTYPKGYKPANEEPSEYQ 312 (449)
Q Consensus 234 kvgr~e~VVGWYHSHP~~~~~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~~t~~-~Gkv~IkAFRl~p~~y~~~~~~~~e~~ 312 (449)
+|=++..++|||-++- ++-||.+-|..|.. ...+..++|-..|..... ...+.+=+|-+.-
T Consensus 85 qVFpdl~vlGwYttG~--d~t~sd~~i~k~l~--~i~esplflkLNp~t~~t~~~pv~lfese~dv-------------- 146 (299)
T KOG3050|consen 85 QVFPDLYVLGWYTTGS--DPTPSDIHIHKQLM--DINESPLFLKLNPATNHTDKDPVTLFESEIDV-------------- 146 (299)
T ss_pred HhcccceEEEEeecCC--CCChhhhHHHHHHH--hhhcCceEEEecchhccccCCCceeeeeehee--------------
Confidence 8889999999998864 44566665554432 245667888888864221 1123332222111
Q ss_pred cccchhhhccccccceEEeeeeEEeeCHHHHHHHHHhh
Q psy1714 313 TIPLNKIEDFGVHCKQYYSLDVSYFKSSLDRRLLDSLW 350 (449)
Q Consensus 313 siPl~ki~~~g~~~~~yy~L~V~~~~S~ld~~~L~~L~ 350 (449)
+. |.....|.++...+-.-+.+|...+...
T Consensus 147 ------id--g~~q~~f~~~tytl~teEaERIgVdHVA 176 (299)
T KOG3050|consen 147 ------ID--GEAQMLFVPLTYTLATEEAERIGVDHVA 176 (299)
T ss_pred ------ec--CcceeeeeeeEEEEeehhhhhccchhhe
Confidence 00 1113446666666666677777776654
No 45
>cd08060 MPN_UPF0172 Mov34/MPN/PAD-1 family: UPF0172 family of unknown function includes neighbor of COX4 (Noc4p). This family includes Noc4p (neighbor of COX4; neighbor of Cytochrome c Oxidase 4; nucleolar complex associated 4 homolog) which belongs to the family of unknown function, UPF0172, with MPN/JAMM-like domains. Proteins in this family are homologs of the NOC4 gene which is conserved in eukaryotic members including human, dog, mouse, rat, chicken, zebrafish, fruit fly, mosquito, S.pombe, K.lactis, E.gossypii, M.grisea, N.crassa, A.thaliana, and rice. NOC4 highly expressed in the pancreas and moderately in liver, heart, lung, kidney, brain, skeletal muscle, and placenta. This nucleolar protein forms a complex with Nop14p that mediates maturation and nuclear export of 40S ribosomal subunits. This family of eukaryotic MPN-like domains lacks the key residues that coordinate a metal ion and therefore does not show catalytic isopeptidase activity.
Probab=97.93 E-value=2.4e-05 Score=74.07 Aligned_cols=71 Identities=31% Similarity=0.397 Sum_probs=58.6
Q ss_pred ehHHHHHHHHHhhhcCCCeeEEeeeccccc-CCceeEeeccccccCCcccccchhhhHHHHHHHHHHHhccccccccccc
Q psy1714 75 ISALALLKMVMHARSGGTLEVMGLLLGKID-ANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVRHQEVIPL 153 (449)
Q Consensus 75 is~~a~~km~~ha~~g~~~evmg~~~g~~~-~~~~~v~d~~~lpv~g~e~~vna~~~~~~~m~~~~~~~~~vr~~e~i~w 153 (449)
||..|..||+.||....+-||+|+|+|+.. ++++.|+|+++|.=.
T Consensus 1 is~~ay~ki~~HA~k~p~~evcGlLlG~~~~~~~~~V~d~vPl~h~---------------------------------- 46 (182)
T cd08060 1 LSTLAYVKMLLHAAKYPHCAVNGLLLGKKSSGGSVEITDAVPLFHS---------------------------------- 46 (182)
T ss_pred CCHHHHHHHHHHHHHcCCchheEEEEeeecCCCCEEEEEEEEcCCC----------------------------------
Confidence 688999999999999888999999999998 888999999888752
Q ss_pred ccCCCCceeEEECHHH---HHHHHHHHhcCCCceeEEE
Q psy1714 154 TLIPHFFKDIKISALA---LLKMVMHARSGGTLEVMGL 188 (449)
Q Consensus 154 ~~~p~~~~~V~Is~~v---LlkIl~Ha~~~~p~EVmGL 188 (449)
...|+|.. +.++.++|+.. ..+++|+
T Consensus 47 --------~~~l~P~~Eval~~ve~~~~~~-gl~IvG~ 75 (182)
T cd08060 47 --------CLALAPMLEVALALVDAYCKSS-GLVIVGY 75 (182)
T ss_pred --------ccccCHHHHHHHHHHHHHHHHC-CCEEEEE
Confidence 14577774 99999999873 3455554
No 46
>cd08058 MPN_euk_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); eukaryotic. This family contains eukaryotic MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains found in proteins with a variety of functions, including AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM), H2A-DUB (histone H2A deubiquitinase), BRCC36 (BRCA1/BRCA2-containing complex subunit 36), as well as Rpn11 (regulatory particle number 11) and CSN5 (COP9 signalosome complex subunit 5). These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity. Rpn11 is responsible for substrate deubiquitination during proteasomal degradation. It is essential for maintaining a correct cell cycle and normal mitochondrial morphology and physiology. CSN5 is critical for nuclear export and the degradation of several tumor suppressor prot
Probab=97.92 E-value=1.7e-05 Score=69.38 Aligned_cols=81 Identities=27% Similarity=0.258 Sum_probs=53.1
Q ss_pred HHHHHHHhhhcCCCeeEEeeeccccc-----CCceeEeeccccccCCcccccchhhhHHHHHHHHHHHhccccccccccc
Q psy1714 79 ALLKMVMHARSGGTLEVMGLLLGKID-----ANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVRHQEVIPL 153 (449)
Q Consensus 79 a~~km~~ha~~g~~~evmg~~~g~~~-----~~~~~v~d~~~lpv~g~e~~vna~~~~~~~m~~~~~~~~~vr~~e~i~w 153 (449)
|++||+.||+++.|.|+||+|+|+.. ...+.|+++|+.|...+. -++|..+ .+...+..++.-
T Consensus 2 ~~~~i~~ha~~~~p~E~cGlL~G~~~~~~~~~~~~~v~~~~p~~~~~~~---------~~~~~~~---~~~~~~g~~~vG 69 (119)
T cd08058 2 ALLKMLQHAESNTGIEVMGLLCGELTHNEFTDKHVIVPKQSAGPDSCTG---------ENVEELF---NVQTGRPLLVVG 69 (119)
T ss_pred HHHHHHHHhcCCCCeEEEEEeeeEEecCccceeEEEEeecCCCCCCchh---------HHHHHHH---HHHhCCCCeEEE
Confidence 79999999999999999999999976 345788999999875432 1223222 223444555554
Q ss_pred ccCCCCceeEEECHHHHH
Q psy1714 154 TLIPHFFKDIKISALALL 171 (449)
Q Consensus 154 ~~~p~~~~~V~Is~~vLl 171 (449)
++..++-.....++.-+.
T Consensus 70 ~YHSHP~~~~~pS~~Di~ 87 (119)
T cd08058 70 WYHSHPTFTAWLSSVDIH 87 (119)
T ss_pred EEecCCCCCCccCHHHHH
Confidence 455554333444444433
No 47
>cd07767 MPN Mpr1p, Pad1p N-terminal (MPN) domains. MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+) domains are found in the N-terminal termini of proteins with a variety of functions; they are components of the proteasome regulatory subunits, the signalosome (CSN), eukaryotic translation initiation factor 3 (eIF3) complexes, and regulators of transcription factors. These domains are isopeptidases that release ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. Catalytically active MPN domains contain a metalloprotease signature known as the JAB1/MPN/Mov34 metalloenzyme (JAMM) motif. For example, Rpn11 (also known as POH1 or PSMD14), a subunit of the 19S proteasome lid is involved in the ATP-dependent degradation of ubiquitinated proteins, contains the conserved JAMM motif involved in zinc ion coordination. Poh1 is a regulator of c-Jun, an important regulator of cell proliferation, differentiation, survival and death. J
Probab=97.56 E-value=0.0001 Score=62.88 Aligned_cols=46 Identities=26% Similarity=0.318 Sum_probs=40.3
Q ss_pred HHHHHHhhhcCCCeeEEeeecccccCCceeEeeccccccCCccccc
Q psy1714 80 LLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRV 125 (449)
Q Consensus 80 ~~km~~ha~~g~~~evmg~~~g~~~~~~~~v~d~~~lpv~g~e~~v 125 (449)
+.||+.||+.+.+.||+|+|+|+..++.++|..+|++|-..++...
T Consensus 1 ~k~il~~a~~~~~~ev~G~L~G~~~~~~~~i~~~~~~~~~~~~~~~ 46 (116)
T cd07767 1 LKMFLDAAKSINGKEVIGLLYGSKTKKVLDVDEVIAVPFDEGDKDD 46 (116)
T ss_pred CHhHHHHHhcCCCcEEEEEeEEEEcCCEEEEEEEEecccCCCCCcc
Confidence 3578999999999999999999999999999999999987765543
No 48
>cd08066 MPN_AMSH_like Mov34/MPN/PAD-1 family. AMSH (associated molecule with the Src homology 3 domain (SH3) of STAM (signal-transducing adapter molecule, also known as STAMBP)) and AMSH-like proteins (AMSH-LP) are members of JAMM/MPN+ deubiquitinases (DUBs), with Zn2+-dependent ubiquitin isopeptidase activity. AMSH specifically cleaves Lys 63 and not Lys48-linked polyubiquitin (poly-Ub) chains, thus facilitating the recycling and subsequent trafficking of receptors to the cell surface. AMSH and AMSH-LP are anchored on the early endosomal membrane via interaction with the clathrin coat. AMSH shares a common SH3-binding site with another endosomal DUB, UBPY (ubiquitin-specific protease Y; also known as USP8), the latter being a cysteine protease that does not discriminate between Lys48 and Lys63-linked ubiquitin. AMSH is involved in the degradation of EGF receptor (EGFR) and possibly other ubiquitinated endocytosed proteins. AMSH also interacts with CHMP1, CHMP2, and CHMP3 proteins, al
Probab=97.53 E-value=0.0002 Score=67.30 Aligned_cols=60 Identities=20% Similarity=0.333 Sum_probs=54.1
Q ss_pred ceeeehHHHHHHHHHhhhcC--CCeeEEeeecccccCCceeEeeccccccCCcccccchhhh
Q psy1714 71 KDIKISALALLKMVMHARSG--GTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQ 130 (449)
Q Consensus 71 ~~v~is~~a~~km~~ha~~g--~~~evmg~~~g~~~~~~~~v~d~~~lpv~g~e~~vna~~~ 130 (449)
+.+.|+.-.+-||+.||+.+ .|+|+||+|.|+..++.+.|.+++-.|..|++.++++.++
T Consensus 2 ~~l~Ipk~il~~~l~~A~~~~~~p~E~cGlL~G~~~~~~~~I~~i~~~~q~~~~~~~~~~~~ 63 (173)
T cd08066 2 RQVVVPADLMDKFLQLAEPNTSRNLETCGILCGKLSNNAFFITHLIIPKQSGTSDSCQTTNE 63 (173)
T ss_pred eEEEECHHHHHHHHHHHHhCCCCCCeEEEEEEeEcCCCeEEEEEEEeccccCCCceecCCCH
Confidence 46889999999999999998 5799999999998888889999999999999999887654
No 49
>PF05021 NPL4: NPL4 family; InterPro: IPR007717 The HRD4 gene is identical to NPL4, a gene previously implicated in nuclear transport. Using a diverse set of substrates and direct ubiquitination assays, analysis revealed that HRD4/NPL4 is required for a poorly characterised step in ER-associated degradation following ubiquitination of target proteins but preceding their recognition by the 26S proteasome []. Npl4p physically associates with Cdc48p via Ufd1p to form a Cdc48p-Ufd1p-Npl4p complex. The Cdc48-Ufd1-Npl4 complex functions in the recognition of several polyubiquitin-tagged proteins and facilitates their presentation to the 26S proteasome for processive degradation or even more specific processing [].
Probab=97.42 E-value=0.0015 Score=66.63 Aligned_cols=107 Identities=17% Similarity=0.272 Sum_probs=83.3
Q ss_pred EEEEeeeecCCe-------EEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCceEEEEecCCC--------
Q psy1714 186 MGLLLGKIDANS-------MIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGWYHSHPG-------- 250 (449)
Q Consensus 186 mGLLLG~~d~~t-------l~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VVGWYHSHP~-------- 250 (449)
+|+|.|+.+... .+|.-.|--|+.++.+.+...+++. ....-+.++. -|+..|||-=||+.
T Consensus 2 ~G~LYG~Y~~~~~vplGika~VeaIYEPpQ~~~~d~~~l~~d~~--~~~vd~iA~~--lGL~rVG~IfTdl~~~~~~~g~ 77 (306)
T PF05021_consen 2 FGFLYGRYEEYDDVPLGIKAVVEAIYEPPQEGEPDGFTLLPDEN--EERVDAIASA--LGLERVGWIFTDLTDDGSGDGT 77 (306)
T ss_pred eEEEEEEEeccCCCCCceEEEEEEEECCCcCCCCCCEEEcCCcc--HHHHHHHHHH--CCCEEEEEEEecCcccccCCCc
Confidence 799999986543 6777788888888887775533322 3334456655 45999999999997
Q ss_pred -------CCCcccHhhHHhHHhhhcc-------------CCCeEEEEEcCCCCcCCCeeEEEEEEEccC
Q psy1714 251 -------YGCWLSGIDVSTQMLNQNF-------------QEPFVAIVIDPVRTISAGKVCLGSFRTYPK 299 (449)
Q Consensus 251 -------~~~~pS~iDI~tQ~~yQ~~-------------~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~ 299 (449)
-..++|...|.+.+.+|.. ...||-+|+++.. .|.+.+.||++++.
T Consensus 78 v~~~r~~~~~~LSs~Eii~aA~~Q~~~p~~~~~s~~g~fgSkFVT~vvsg~~---~g~i~~~ayQvS~q 143 (306)
T PF05021_consen 78 VKCKRHKDSYFLSSLEIIFAAKLQNKHPNPCKYSETGYFGSKFVTCVVSGDE---EGEIHFEAYQVSNQ 143 (306)
T ss_pred eeeccccccccccHHHHHHHHHHHHhcCccccccCCCccCCeEEEEEEeCCC---CCceeeEEeeehHH
Confidence 6789999999998888863 3468999999964 79999999999984
No 50
>PLN03246 26S proteasome regulatory subunit; Provisional
Probab=97.40 E-value=0.00035 Score=71.15 Aligned_cols=90 Identities=21% Similarity=0.275 Sum_probs=68.3
Q ss_pred CCccceeeehHHHHHHHHHhhhcCC---CeeEEeeecccccCCceeEeeccccccCCcccccchhhhHHHHHHHHHHHhc
Q psy1714 67 PHFFKDIKISALALLKMVMHARSGG---TLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAK 143 (449)
Q Consensus 67 p~~f~~v~is~~a~~km~~ha~~g~---~~evmg~~~g~~~~~~~~v~d~~~lpv~g~e~~vna~~~~~~~m~~~~~~~~ 143 (449)
|.-..+|.|.+|++++++.|..+-. .--|+|.|+|...++.|.|++||++|-+-.+..-+...--.+|+..-++..+
T Consensus 2 ~~~~~~V~vhPlVll~I~dh~~R~~~~~~~rviG~LLG~~~~~~ieItnsF~~p~~e~~~~~~~~~~D~~y~~~m~~~~k 81 (303)
T PLN03246 2 PRGIEKVVVHPLVLLSIVDHYNRVAKDTRKRVVGVLLGSSFRGRVDVTNSFAVPFEEDDKDPSIWFLDHNYLESMFGMFK 81 (303)
T ss_pred CCCCcEEEECcHHHHHHHHHHHhccCCCCCeeEEEEEeeecCCEEEEEeccccCcccCCCCccceeecHHHHHHHHHHHH
Confidence 5667899999999999999996543 3459999999999999999999999984322210000011678888889999
Q ss_pred ccccccccccccC
Q psy1714 144 EVRHQEVIPLTLI 156 (449)
Q Consensus 144 ~vr~~e~i~w~~~ 156 (449)
+|...+.++-|+.
T Consensus 82 ~V~~~~~vVGWY~ 94 (303)
T PLN03246 82 RINAKEHVVGWYS 94 (303)
T ss_pred HhCCCCcEEeeec
Confidence 9987777766665
No 51
>cd08063 MPN_CSN6 Mpr1p, Pad1p N-terminal (MPN) domains without catalytic isopeptidase activity, found in COP9 signalosome complex subunit 6. CSN6 (COP9 signalosome subunit 6; COP9 subunit 6; MOV34 homolog, 34 kD) is one of the eight subunits of COP9 signalosome, a highly conserved protein complex with diverse functions, including several important intracellular pathways such as the ubiquitin/proteasome system, DNA repair, cell cycle, developmental changes, and some aspects of immune responses. CSN6 is an MPN-domain protein that directly interacts with the MPN+-domain subunit CSN5. It is cleaved during apoptosis by activated caspases. CSN6 processing occurs in CSN/CRL (cullin-RING Ub ligase) complexes and is followed by the cleavage of Rbx1, the direct interaction partner of CSN6. CSN6 cleavage enhances CSN-mediated deneddylating activity (i.e. cleavage of ubiquitin-like protein Nedd8 (neural precursor cell expressed, developmentally downregulated 8)) in the cullin 1 in cells. The cleav
Probab=97.35 E-value=0.00016 Score=72.76 Aligned_cols=80 Identities=21% Similarity=0.321 Sum_probs=61.8
Q ss_pred eeeehHHHHHHHHHhhhc----CC--CeeEEeeecccccCCceeEeeccccccCCcc---cccchhhhHHHHHHHHHHHh
Q psy1714 72 DIKISALALLKMVMHARS----GG--TLEVMGLLLGKIDANSMIVMDAFALPVEGTE---TRVNAQAQAYEYMTAYIEAA 142 (449)
Q Consensus 72 ~v~is~~a~~km~~ha~~----g~--~~evmg~~~g~~~~~~~~v~d~~~lpv~g~e---~~vna~~~~~~~m~~~~~~~ 142 (449)
+|+|-+|++++++.|..+ .+ +--|+|.|+|..+++.|.|+++|++|-+.++ ..++ .+|+-.-++..
T Consensus 2 ~V~lHPlVll~I~dH~~R~~~~~~~~~~~v~G~LLG~~~~~~veItnsF~~p~~~~~~~~~~id-----~~y~~~m~~~~ 76 (288)
T cd08063 2 SVKLHPLVILNISDHITRHRAQSQSEPPRVVGALLGQQDGREIEIENSFELKYDTNEDGEIVLD-----KEFLETRLEQF 76 (288)
T ss_pred eEEEecceeeeHHhhHhHHhccCCCCCCcEEEEEEEEEcCCEEEEEEEEecccccCCCCceeeC-----HHHHHHHHHHH
Confidence 689999999999999976 33 6789999999999999999999999997765 1122 45666666666
Q ss_pred cccccccccccccC
Q psy1714 143 KEVRHQEVIPLTLI 156 (449)
Q Consensus 143 ~~vr~~e~i~w~~~ 156 (449)
+++..++.+.-|+.
T Consensus 77 kkV~~~~~vVGWY~ 90 (288)
T cd08063 77 KQVFKDLDFVGWYT 90 (288)
T ss_pred HHhccCCceEEEEe
Confidence 77766665555444
No 52
>KOG3289|consensus
Probab=97.15 E-value=0.0065 Score=57.44 Aligned_cols=114 Identities=24% Similarity=0.246 Sum_probs=74.5
Q ss_pred eEEECHHHHHHHHHHHhcCCCceeEEEEeeee--cCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCC
Q psy1714 162 DIKISALALLKMVMHARSGGTLEVMGLLLGKI--DANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLE 239 (449)
Q Consensus 162 ~V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~--d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e 239 (449)
.|+|+..++.+|+-||..-...-|-|+|+|.. .|+.++|+||.|+=++.. +.....|-...+.+..- ...+.
T Consensus 3 ~veis~~aY~kmiLH~akyph~aVnGLLla~~~~kg~~v~itdcVPLfH~~l-----aLaPmlEvAl~lId~~~-~~~Gl 76 (199)
T KOG3289|consen 3 EVEISALAYVKMILHAAKYPHAAVNGLLLAPATGKGECVEITDCVPLFHSHL-----ALAPMLEVALNLIDVWG-AQAGL 76 (199)
T ss_pred ceeehhhHHHHHHHHhccCcccceeeEEEeccCCCCCeEEEEecchhhcccc-----ccccHHHHHHHHHHHHH-HhcCe
Confidence 58999999999999998755567999999954 467899999998776432 22224454444444432 23679
Q ss_pred ceEEEEecCCCCCC-cccHhhHHhHHhhhccCCCeEEEEEcCC
Q psy1714 240 NAIGWYHSHPGYGC-WLSGIDVSTQMLNQNFQEPFVAIVIDPV 281 (449)
Q Consensus 240 ~VVGWYHSHP~~~~-~pS~iDI~tQ~~yQ~~~~p~VaLIvDP~ 281 (449)
.|+|.||+.-.+.- -|-..-......-+.+.+.+..|++|-.
T Consensus 77 viaGyy~Ane~~~D~s~~~~A~kiadrIse~f~~A~ilv~dn~ 119 (199)
T KOG3289|consen 77 VIAGYYHANERVNDQSLNPVALKIADRISEFFPDAAILVLDNK 119 (199)
T ss_pred EEEEEeecCCCccccCccHHHHHHHHHHHhhCCCCeEEEEecc
Confidence 99999999765331 1222211222233445677777888854
No 53
>cd08070 MPN_like Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding). This family contains archaeal and bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=96.86 E-value=0.0053 Score=54.25 Aligned_cols=43 Identities=28% Similarity=0.339 Sum_probs=36.8
Q ss_pred HHHHHHHhhhcCCCeeEEeeecccccCCceeEeeccccccCCc
Q psy1714 79 ALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGT 121 (449)
Q Consensus 79 a~~km~~ha~~g~~~evmg~~~g~~~~~~~~v~d~~~lpv~g~ 121 (449)
.+-+|+.||+.+.|.|+||+|+|+..+....|.+++++|-...
T Consensus 3 ~~~~il~ha~~~~P~E~cGlL~G~~~~~~~~i~~~~p~~n~~~ 45 (128)
T cd08070 3 LLEAILAHAEAEYPEECCGLLLGKGGGVTAIVTEVYPVRNVAE 45 (128)
T ss_pred HHHHHHHHHHhCCCCceEEEEEeecCCCCceEEEEEEccCCCC
Confidence 4668999999999999999999999887777889888875433
No 54
>PF03665 UPF0172: Uncharacterised protein family (UPF0172); InterPro: IPR005366 This is a small family of proteins of unknown function.
Probab=96.02 E-value=0.0083 Score=57.62 Aligned_cols=48 Identities=35% Similarity=0.440 Sum_probs=42.9
Q ss_pred ceeeehHHHHHHHHHhhhcCCCeeEEeeecccccCCc--eeEeecccccc
Q psy1714 71 KDIKISALALLKMVMHARSGGTLEVMGLLLGKIDANS--MIVMDAFALPV 118 (449)
Q Consensus 71 ~~v~is~~a~~km~~ha~~g~~~evmg~~~g~~~~~~--~~v~d~~~lpv 118 (449)
.+|.||..|-.||+.||..=-.--|.|+|+|+..++. +.|.|+.||==
T Consensus 2 ~~v~is~~AY~K~~LHaaKyP~~aVnGvLlg~~~~~~~~v~i~DaVPLfH 51 (196)
T PF03665_consen 2 SSVEISSRAYAKMILHAAKYPHCAVNGVLLGKSSKSSSEVEIVDAVPLFH 51 (196)
T ss_pred ceEEEcHHHHHHHHHHhccCCCCceeeEEEeccCCCCceEEEeeceeccc
Confidence 3689999999999999988888899999999987666 99999999865
No 55
>KOG1560|consensus
Probab=95.19 E-value=0.069 Score=53.83 Aligned_cols=111 Identities=17% Similarity=0.244 Sum_probs=79.0
Q ss_pred cceeeehHHHHHHHHHhhhcCCC--eeEEeeecccccCCceeEeecccccc--CCcccccchhh--hH-HHHHHHHHHHh
Q psy1714 70 FKDIKISALALLKMVMHARSGGT--LEVMGLLLGKIDANSMIVMDAFALPV--EGTETRVNAQA--QA-YEYMTAYIEAA 142 (449)
Q Consensus 70 f~~v~is~~a~~km~~ha~~g~~--~evmg~~~g~~~~~~~~v~d~~~lpv--~g~e~~vna~~--~~-~~~m~~~~~~~ 142 (449)
-++|.+-.|-.|||+.|.+.-++ .-+-|.|+|-+.++.+-|+.||+-|- +..+.-||++. |+ -.||..-|...
T Consensus 12 vk~v~ldsLvVMkiiKHc~ee~~n~d~~~GvL~Glvvd~~LeITncFp~p~~~~~edda~~~~~~de~rq~~~l~mlrrl 91 (339)
T KOG1560|consen 12 VKRVELDSLVVMKIIKHCREEFPNGDGTQGVLLGLVVDGRLEITNCFPFPSVLENEDDAVNKSVSDEARQAYQLAMLRRL 91 (339)
T ss_pred cceeeehhHHHHHHHHHHHhhcCCcchhhheeeeeeecceeEeecccCCCccCCCccchhhhhhhHHHHHHHHHHHHHHh
Confidence 57899999999999999985543 35679999999999999999999998 44566677776 22 26888888877
Q ss_pred cccccccccccccCCCCceeEEECHHHHHHHHHHHhcCCC
Q psy1714 143 KEVRHQEVIPLTLIPHFFKDIKISALALLKMVMHARSGGT 182 (449)
Q Consensus 143 ~~vr~~e~i~w~~~p~~~~~V~Is~~vLlkIl~Ha~~~~p 182 (449)
+.+.-.--++-|+...++.. .+++..+..+. |+....|
T Consensus 92 r~vnid~~hVGwYqs~~vgs-~lS~~lveSqy-~YQ~a~p 129 (339)
T KOG1560|consen 92 RYVNIDHLHVGWYQSAYVGS-FLSPALVESQY-AYQKAIP 129 (339)
T ss_pred hhcCccceeeeeeeeehhcc-ccCHHHHHHHH-HHHhcCC
Confidence 77654444455566665544 34566665554 3433333
No 56
>COG1310 Predicted metal-dependent protease of the PAD1/JAB1 superfamily [General function prediction only]
Probab=93.81 E-value=0.098 Score=46.60 Aligned_cols=77 Identities=26% Similarity=0.268 Sum_probs=51.3
Q ss_pred eeehHHHHHHHHHhhhcCCCeeEEeeecccccCCceeEeeccccccCCcc-cccchhhhHHHHHHHHHHHhccccccccc
Q psy1714 73 IKISALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTE-TRVNAQAQAYEYMTAYIEAAKEVRHQEVI 151 (449)
Q Consensus 73 v~is~~a~~km~~ha~~g~~~evmg~~~g~~~~~~~~v~d~~~lpv~g~e-~~vna~~~~~~~m~~~~~~~~~vr~~e~i 151 (449)
+.|+...+-.|+.||+++-|.|+||++.|+..+ .+.|.++....+ ++...+++ ++.+.|....++- ++.+
T Consensus 2 ~~i~~~~l~~il~~a~~~~p~E~~g~l~~~~~~-----~~~~~~~n~~~~~~~~~~~~~--~~~~~~~~~~~~g--~~vv 72 (134)
T COG1310 2 LVIPKEVLGAILEHARREHPREVCGLLAGTREG-----ERYFPLKNVSVEPVEYFEIDP--EYSLFYLAAEDAG--EVVV 72 (134)
T ss_pred ceecHHHHHHHHHHHHhcCChheEEEEEeeccc-----ceeeccccccCCcceeEeeCH--HHHHHHHHHhhCC--CEEE
Confidence 568889999999999999999999999999877 777777775554 33344443 2333333332221 5555
Q ss_pred cc-ccCCC
Q psy1714 152 PL-TLIPH 158 (449)
Q Consensus 152 ~w-~~~p~ 158 (449)
-| .+.|.
T Consensus 73 g~yHSHP~ 80 (134)
T COG1310 73 GWYHSHPG 80 (134)
T ss_pred EEEcCCCC
Confidence 55 44443
No 57
>KOG2975|consensus
Probab=93.38 E-value=0.041 Score=54.95 Aligned_cols=85 Identities=28% Similarity=0.482 Sum_probs=66.2
Q ss_pred CCCCccc---eeeehHHHHHHHHHhh--hcCCCeeEEeeecccccCCceeEeeccccccCCcccccchhhhHHHHHHHHH
Q psy1714 65 KDPHFFK---DIKISALALLKMVMHA--RSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYI 139 (449)
Q Consensus 65 ~~p~~f~---~v~is~~a~~km~~ha--~~g~~~evmg~~~g~~~~~~~~v~d~~~lpv~g~e~~vna~~~~~~~m~~~~ 139 (449)
.-|.-|. +|+|-++-++.++.|- |.-|.-.|||-|+|.+++++|-|+.||+.|--..+-+|.... +|=-+-+
T Consensus 12 ~~~~~~ss~ltv~ihP~Vlf~ivD~~~RR~~~~~rviGTLLG~~~~g~ieitNCFaVPhnEssdqvevdm---~y~~~M~ 88 (288)
T KOG2975|consen 12 ALPSPFSSNLTVRLHPVVLFSIVDAYERRNKGAERVIGTLLGTVDKGSVEVTNCFAVPHNESSDQVEVDM---EYAKNMY 88 (288)
T ss_pred CCCCCCCCCceEEEcceEEeEeehhhhcCCccchhhhhheeecccCCeEEEEEeeeccCccccccceeeH---HHHHHHH
Confidence 3344554 7899999999999887 466899999999999999999999999999977776666554 4666667
Q ss_pred HHhcccccccccc
Q psy1714 140 EAAKEVRHQEVIP 152 (449)
Q Consensus 140 ~~~~~vr~~e~i~ 152 (449)
+..+|+-.+|.+.
T Consensus 89 ~l~~k~npnE~vv 101 (288)
T KOG2975|consen 89 ELHKKVNPNELVV 101 (288)
T ss_pred HHhcccCCCceeE
Confidence 7777776555543
No 58
>KOG3289|consensus
Probab=92.94 E-value=0.12 Score=49.11 Aligned_cols=50 Identities=32% Similarity=0.412 Sum_probs=42.2
Q ss_pred eeeehHHHHHHHHHhhhcCCCeeEEeeecccc--cCCceeEeeccccccCCc
Q psy1714 72 DIKISALALLKMVMHARSGGTLEVMGLLLGKI--DANSMIVMDAFALPVEGT 121 (449)
Q Consensus 72 ~v~is~~a~~km~~ha~~g~~~evmg~~~g~~--~~~~~~v~d~~~lpv~g~ 121 (449)
.|+||++|-.||+.|+.+=----|-|+|+|.+ -|+++.++||.+|==+-+
T Consensus 3 ~veis~~aY~kmiLH~akyph~aVnGLLla~~~~kg~~v~itdcVPLfH~~l 54 (199)
T KOG3289|consen 3 EVEISALAYVKMILHAAKYPHAAVNGLLLAPATGKGECVEITDCVPLFHSHL 54 (199)
T ss_pred ceeehhhHHHHHHHHhccCcccceeeEEEeccCCCCCeEEEEecchhhcccc
Confidence 58999999999999998777778889999965 568899999998754433
No 59
>cd08072 MPN_archaeal Mov34/MPN/PAD-1 family: archaeal JAB1/MPN/Mov34 metalloenzyme. This family contains only archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=89.71 E-value=0.43 Score=42.00 Aligned_cols=38 Identities=29% Similarity=0.323 Sum_probs=32.4
Q ss_pred hHHHHHHHHHhhhcCCCeeEEeeecccccCCceeEeeccccc
Q psy1714 76 SALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALP 117 (449)
Q Consensus 76 s~~a~~km~~ha~~g~~~evmg~~~g~~~~~~~~v~d~~~lp 117 (449)
+.-.+-+|+.||++.=|.|++|+|+|+.. +|++++.+|
T Consensus 2 ~~~~~~~i~~ha~~~~P~E~CGlL~G~~~----~v~~~~~~~ 39 (117)
T cd08072 2 SRDLLDSILEAAKSSHPNEFAALLRGKDG----VITELLILP 39 (117)
T ss_pred CHHHHHHHHHHHhhcCCceEEEEEEeecc----EEEEEEECC
Confidence 34466789999999999999999999874 688998877
No 60
>PF14464 Prok-JAB: Prokaryotic homologs of the JAB domain; PDB: 1OI0_A 1R5X_B 2KKS_A 2KCQ_A.
Probab=84.11 E-value=0.95 Score=37.82 Aligned_cols=37 Identities=35% Similarity=0.524 Sum_probs=31.2
Q ss_pred HHHHHHHhhhcCCCeeEEeeecccccCCceeEeeccc
Q psy1714 79 ALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFA 115 (449)
Q Consensus 79 a~~km~~ha~~g~~~evmg~~~g~~~~~~~~v~d~~~ 115 (449)
++-+|+.|++...+.|.+|+|+|+.....+++.+...
T Consensus 4 ~~~~i~~~~~~~~p~E~~G~L~g~~~~~~~~~~~~~~ 40 (104)
T PF14464_consen 4 VLEQIIAHARAAYPNEACGLLLGRRDDQRFIVVPNVN 40 (104)
T ss_dssp HHHHHHHHHHHHTTS-EEEEEEEEEECCEEEEEEEEE
T ss_pred HHHHHHHHHhhCCCCeEEEEEEEEecCCEEEEEeCCC
Confidence 5678999999999999999999999777777777665
No 61
>KOG2834|consensus
Probab=83.96 E-value=11 Score=40.83 Aligned_cols=130 Identities=19% Similarity=0.304 Sum_probs=85.1
Q ss_pred eEEEC-HHHHHHHHHHHhcCCCceeEEEEeeeecCC-eE------EEEEEEeCCccCCCCcccccccHHHHHHHHHHHHH
Q psy1714 162 DIKIS-ALALLKMVMHARSGGTLEVMGLLLGKIDAN-SM------IVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAK 233 (449)
Q Consensus 162 ~V~Is-~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~-tl------~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellr 233 (449)
.|.++ +.++...++..|. ....-.|+|.|...+. .+ +|.-.|--|+.++++.+... ++.| +..+=+.+.
T Consensus 176 ~VeFd~~~~v~~Fl~~wr~-sg~QR~GflyG~y~e~~~vPLGika~V~aIYEPPQ~~~~dgl~l~-~~~e-~~~vD~~a~ 252 (510)
T KOG2834|consen 176 HVEFDNAELVNHFLNEWRA-SGVQRFGFLYGRYTEHGNVPLGIKAVVAAIYEPPQHGEEDGLELL-EDDE-AKRVDAIAE 252 (510)
T ss_pred eEeecchHHHHHHHHHHHH-hhhhhcceEEEeecccccccccceeeEEEEecCCccCCcCCeEEe-ccch-hhhHHHHHH
Confidence 44443 3455555555554 3345679999997543 33 67778888898888877544 2222 222223343
Q ss_pred HhCCCCceEEEEecCC---------------CCCCcccHhhHHhHHhhhccC-------------CCeEEEEEcCCCCcC
Q psy1714 234 EVGRLENAIGWYHSHP---------------GYGCWLSGIDVSTQMLNQNFQ-------------EPFVAIVIDPVRTIS 285 (449)
Q Consensus 234 kvgr~e~VVGWYHSHP---------------~~~~~pS~iDI~tQ~~yQ~~~-------------~p~VaLIvDP~~t~~ 285 (449)
+-|++.|||--+-- .-+.|+|...+.+.+.+|..- ..+|-+||+-..
T Consensus 253 --~lGLrRVG~IFTDl~~~~s~egtV~~~rhkdsyFLSseE~~~aa~~Q~~hpn~~~~s~~~~fgSkfVT~visg~~--- 327 (510)
T KOG2834|consen 253 --GLGLRRVGWIFTDLVTADSAEGTVHYKRHKDSYFLSSEECITAAMFQNKHPNICEWSRDGHFGSKFVTLVISGDL--- 327 (510)
T ss_pred --hcCceeeEEEEeeeecccCccceEEeeeccchhcccHHHHHHHhhhhhcCCchheeeccccccceeEEEEEecCC---
Confidence 46699999975533 134689999999988888642 247778887654
Q ss_pred CCeeEEEEEEEccC
Q psy1714 286 AGKVCLGSFRTYPK 299 (449)
Q Consensus 286 ~Gkv~IkAFRl~p~ 299 (449)
.|.+.+-.|+.++.
T Consensus 328 ~~~V~f~~YQVSnq 341 (510)
T KOG2834|consen 328 DGEVHFEGYQVSNQ 341 (510)
T ss_pred CcceeeeeeehhHH
Confidence 68889999998773
No 62
>KOG1556|consensus
Probab=80.65 E-value=3 Score=41.76 Aligned_cols=85 Identities=24% Similarity=0.315 Sum_probs=64.7
Q ss_pred cceeeehHHHHHHHHHhhhcC---CCeeEEeeecccccCCceeEeeccccccCCcccc--cchhhhHHHHHHHHHHHhcc
Q psy1714 70 FKDIKISALALLKMVMHARSG---GTLEVMGLLLGKIDANSMIVMDAFALPVEGTETR--VNAQAQAYEYMTAYIEAAKE 144 (449)
Q Consensus 70 f~~v~is~~a~~km~~ha~~g---~~~evmg~~~g~~~~~~~~v~d~~~lpv~g~e~~--vna~~~~~~~m~~~~~~~~~ 144 (449)
-++|-|-+|-|+..+.|-.|- ++--|.|+|||.-.+.+|-|+.+|++|-|.-|-- |=--+ -.||-.--+.++|
T Consensus 8 ~~kViVhPLVLLS~VDhynR~~k~~~KRvvGvLLG~~~~~~i~vtnSfAvpFeEDdk~~svWFlD--h~Y~esM~~mfkK 85 (309)
T KOG1556|consen 8 VEKVIVHPLVLLSAVDHYNRVGKDTNKRVVGVLLGSWNGDVIDVTNSFAVPFEEDDKDKSVWFLD--HNYIESMFGMFKK 85 (309)
T ss_pred cceeeeehhHHHHHHHHHhhhccCcCceEEEEEEecCCCCeEEeecceeccccccCCCCceEEec--cHHHHHHHHHHHH
Confidence 358999999999999998654 4588999999999999999999999999765531 10001 1566677777888
Q ss_pred cccccccccccC
Q psy1714 145 VRHQEVIPLTLI 156 (449)
Q Consensus 145 vr~~e~i~w~~~ 156 (449)
+-..|.+.-|+.
T Consensus 86 vNakekivGWYh 97 (309)
T KOG1556|consen 86 VNAKEKVVGWYH 97 (309)
T ss_pred hcchhheeeeec
Confidence 877777665554
No 63
>cd08071 MPN_DUF2466 Mov34/MPN/PAD-1 family. Mov34 DUF2466 (also known as DNA repair protein RadC) domain of unknown function contains the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity. However, to date, the name RadC has been misleading and no function has been determined.
Probab=80.43 E-value=21 Score=31.20 Aligned_cols=25 Identities=28% Similarity=0.122 Sum_probs=22.6
Q ss_pred CCceEEEEecCCCCCCcccHhhHHh
Q psy1714 238 LENAIGWYHSHPGYGCWLSGIDVST 262 (449)
Q Consensus 238 ~e~VVGWYHSHP~~~~~pS~iDI~t 262 (449)
+..-|..-|.||.+.+.||..|+..
T Consensus 59 ~A~~vil~HNHPsG~~~PS~~D~~~ 83 (113)
T cd08071 59 NAAAIILAHNHPSGDPTPSREDIEL 83 (113)
T ss_pred hhheEEEEeeCCCCCCCCCHHHHHH
Confidence 4678999999999999999999985
No 64
>KOG1795|consensus
Probab=78.83 E-value=4.2 Score=48.70 Aligned_cols=126 Identities=20% Similarity=0.212 Sum_probs=81.7
Q ss_pred EEECHHHHHHHHHHHhcCCCceeEEEEeeeecCC---eEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCC
Q psy1714 163 IKISALALLKMVMHARSGGTLEVMGLLLGKIDAN---SMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLE 239 (449)
Q Consensus 163 V~Is~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~---tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e 239 (449)
..++...|.+.+. .++....+.|+|.|..-.+ .-+|....-+|+-++-..++....-.. . .. =.+.
T Consensus 2097 yilPkNllkkFi~--isD~r~qiag~~yG~s~~d~pqvkeIr~ivmvPQ~gs~~~v~lp~~lP~--~---~~----l~d~ 2165 (2321)
T KOG1795|consen 2097 YILPKNLLKKFIT--ISDLRTQIAGYLYGVSPPDNPQVKEIRCIVMVPQWGSHQGVHLPSFLPI--H---GV----LEDL 2165 (2321)
T ss_pred eeccHHHHhhhee--ecchhhhhheeeeccCCCCCCccceEEEEEeccccccccccccCccCCc--c---hh----ccCC
Confidence 3455555554432 2345567899999975433 235655556787766555543110000 1 11 1468
Q ss_pred ceEEEEecCCCCCCcccHhhHHhHHh-hhccCCCeEEEEEcCCCCcCCCeeEEEEEEEccCCCCC
Q psy1714 240 NAIGWYHSHPGYGCWLSGIDVSTQML-NQNFQEPFVAIVIDPVRTISAGKVCLGSFRTYPKGYKP 303 (449)
Q Consensus 240 ~VVGWYHSHP~~~~~pS~iDI~tQ~~-yQ~~~~p~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~~ 303 (449)
..+||-|+-|.--++.|..||.++.. .+.....||.|.|+-. .|.+++.||.++|.||.=
T Consensus 2166 e~Lgw~hTq~~el~~lsp~dV~th~ki~~~~k~k~i~~t~~~t----pgs~sl~ay~lt~~G~eW 2226 (2321)
T KOG1795|consen 2166 EPLGWIHTQPNELPQLSPQDVTTHAKILVDNKEKCIIITCSFT----PGSCSLTAYKLTPSGYEW 2226 (2321)
T ss_pred cccchhhcCccccccCCHHHhhhhhhhhhcCccceEEEEeecc----CCcceeeeeccCcccccc
Confidence 89999999999888999999998652 2223356777777743 689999999999988753
No 65
>PF04002 RadC: RadC-like JAB domain; InterPro: IPR001405 This family was named initially with reference to the Escherichia coli radC102 mutation which suggested that RadC was involved in repair of DNA lesions []. However the relevant mutation has subsequently been shown to be in recG, not radC []. In addition all attempts to characterise a radiation-related function for RadC in Streptococcus pneumoniae failed, suggesting that it is not involved in repair of DNA lesions, in recombination during transformation, in gene conversion, nor in mismatch repair [].; PDB: 2QLC_A.
Probab=67.29 E-value=47 Score=29.34 Aligned_cols=25 Identities=20% Similarity=0.150 Sum_probs=15.7
Q ss_pred CCceEEEEecCCCCCCcccHhhHHh
Q psy1714 238 LENAIGWYHSHPGYGCWLSGIDVST 262 (449)
Q Consensus 238 ~e~VVGWYHSHP~~~~~pS~iDI~t 262 (449)
+..-|=..|=||++.+.||.-|+..
T Consensus 64 ~A~~vIl~HNHPsG~~~PS~~D~~~ 88 (123)
T PF04002_consen 64 NASSVILAHNHPSGDPEPSDADIAL 88 (123)
T ss_dssp T-SEEEEEEE-TTS--S--HHHHHH
T ss_pred CCceEEEEEEcCCCCCCCCHhHHHH
Confidence 3556677899999999999999974
No 66
>TIGR02256 ICE_VC0181 integrative and conjugative element protein, VC0181 family. This uncharacterized protein is found in several Proteobacteria, among them Rhizobium sp. NGR234, Vibrio cholerae, Myxococcus xanthus, and E. coli strain ECOR31. In the latter, it is part of an integrative and conjugative element that is readily induced to excise and circularize.
Probab=64.90 E-value=6.7 Score=35.62 Aligned_cols=37 Identities=19% Similarity=0.246 Sum_probs=26.9
Q ss_pred HHHHHhhhcCC--CeeEEeeecccccCCceeEeecccccc
Q psy1714 81 LKMVMHARSGG--TLEVMGLLLGKIDANSMIVMDAFALPV 118 (449)
Q Consensus 81 ~km~~ha~~g~--~~evmg~~~g~~~~~~~~v~d~~~lpv 118 (449)
++++..++.-. +-|.-|+|+|++.+..++|.|+. .|.
T Consensus 3 ~~~~~~~~Q~~~~~~EtGGiLiG~~~~~~~ii~~~t-~P~ 41 (131)
T TIGR02256 3 VAMLKSYRQWHDLSTETGGVLIGERRGAHAVITKIS-EPG 41 (131)
T ss_pred HHHHHHHHhCcCCCCccceEEEEEEcCCcEEEEEEE-cCC
Confidence 44555554444 55999999999988899999865 444
No 67
>cd08073 MPN_NLPC_P60 Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding) found in proteins also containing NlpC/P60 domains. This family contains bacterial MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains at the N-terminus of NlpC/P60 phage tail protein domains. These domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=54.58 E-value=9.4 Score=33.11 Aligned_cols=24 Identities=25% Similarity=0.229 Sum_probs=21.7
Q ss_pred HHHHHHhhhcCCCeeEEeeecccc
Q psy1714 80 LLKMVMHARSGGTLEVMGLLLGKI 103 (449)
Q Consensus 80 ~~km~~ha~~g~~~evmg~~~g~~ 103 (449)
+-.|+.||++.=|.|.+|+|+|+.
T Consensus 3 ~~~i~~ha~~~~P~E~CGll~g~~ 26 (108)
T cd08073 3 EDAILAHAKAEYPREACGLVVRKG 26 (108)
T ss_pred HHHHHHHHhHCCCCcceEEEEecC
Confidence 347899999999999999999976
No 68
>PF15659 Toxin-JAB1: JAB-like toxin 1
Probab=50.52 E-value=17 Score=34.32 Aligned_cols=28 Identities=29% Similarity=0.285 Sum_probs=23.6
Q ss_pred CCCCceEEEEecCCCCCCcccHhhHHhHH
Q psy1714 236 GRLENAIGWYHSHPGYGCWLSGIDVSTQM 264 (449)
Q Consensus 236 gr~e~VVGWYHSHP~~~~~pS~iDI~tQ~ 264 (449)
+.+..++. .||||.....||..|.....
T Consensus 113 ~~~~~iid-iHSHP~~~~~~S~~D~~~~~ 140 (162)
T PF15659_consen 113 NNGNKIID-IHSHPENSNGPSGNDMKNAK 140 (162)
T ss_pred cCCceEEE-eccCCCCCCCCCcchhhhhh
Confidence 46678888 99999988899999998654
No 69
>PRK00024 hypothetical protein; Reviewed
Probab=42.01 E-value=2.5e+02 Score=27.57 Aligned_cols=103 Identities=17% Similarity=0.136 Sum_probs=53.6
Q ss_pred CHHHHHHHHHHHhcCCCceeEEEEeeeecCCeEEEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCceEEEE
Q psy1714 166 SALALLKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGWY 245 (449)
Q Consensus 166 s~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~tl~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VVGWY 245 (449)
++..+...+.....+.+.|...+|.=.....-+.....| .|+-+++.. .+-+-+ +.+-+. +-.-|=.-
T Consensus 105 ~~~~~~~~l~~~l~~~~~E~f~vl~Ld~~~~li~~~~i~----~Gt~~~~~v--~pRei~----~~Al~~--~A~~iIl~ 172 (224)
T PRK00024 105 SPEDVADYLMAELRDEEQEHFVVLFLDTKNRVIADEELF----IGTLNSSIV--HPREIV----KRALKL--NAAALILA 172 (224)
T ss_pred CHHHHHHHHHHHccCCCceEEEEEEECCCCCEeeEEEee----eecCCeEEE--cHHHHH----HHHHHh--hccceEEE
Confidence 455556666555556777777666532211112222222 344343321 233322 222222 24556667
Q ss_pred ecCCCCCCcccHhhHHh-HHhhhc---cCCCeE-EEEEcC
Q psy1714 246 HSHPGYGCWLSGIDVST-QMLNQN---FQEPFV-AIVIDP 280 (449)
Q Consensus 246 HSHP~~~~~pS~iDI~t-Q~~yQ~---~~~p~V-aLIvDP 280 (449)
|=||++.+.||.-|+.. ....+. ..=+.+ |+||..
T Consensus 173 HNHPSG~~~PS~~D~~~T~~l~~a~~~l~I~llDHiIv~~ 212 (224)
T PRK00024 173 HNHPSGDPEPSQADILITKRLKEAGELLGIRLLDHIIIGD 212 (224)
T ss_pred ecCCCCCCCCCHHHHHHHHHHHHHHHhCCCEEeeEEEEcC
Confidence 99999999999999974 332222 222444 777763
No 70
>TIGR00608 radc DNA repair protein radc. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=37.21 E-value=4e+02 Score=26.10 Aligned_cols=102 Identities=20% Similarity=0.147 Sum_probs=52.7
Q ss_pred CHHHHHHHHHHHhcCCCceeEEEEeeeecCCeE-EEEEEEeCCccCCCCcccccccHHHHHHHHHHHHHHhCCCCceEEE
Q psy1714 166 SALALLKMVMHARSGGTLEVMGLLLGKIDANSM-IVMDAFALPVEGTETRVNAQAQAYEYMTAYIEAAKEVGRLENAIGW 244 (449)
Q Consensus 166 s~~vLlkIl~Ha~~~~p~EVmGLLLG~~d~~tl-~Vtd~F~lP~~~tetrv~a~~e~~ey~~~mlellrkvgr~e~VVGW 244 (449)
++..+...+.....+.+.|.+-+|.= ...+.+ .....| .|+-+++.. .+-+-+ +.+-+. +-.-|=.
T Consensus 99 s~~~v~~~l~~~l~~~~~E~f~vl~L-d~~n~li~~~~i~----~Gt~~~~~v--~pReI~----~~Al~~--~A~~vIl 165 (218)
T TIGR00608 99 SPEAAAEFLHTDLAHETREHFMVLFL-DRKNRLIAKEVVF----IGTVNHVPV--HPREIF----KEALKL--SASALIL 165 (218)
T ss_pred CHHHHHHHHHHHhcCCCceEEEEEEE-CCCCcEEEEEEee----cCCCCeEEE--cHHHHH----HHHHHh--hCCeEEE
Confidence 45555555555555666776665541 112222 222222 344443321 233322 222222 2455566
Q ss_pred EecCCCCCCcccHhhHHh-HHhhhc---cCCCeE-EEEEcC
Q psy1714 245 YHSHPGYGCWLSGIDVST-QMLNQN---FQEPFV-AIVIDP 280 (449)
Q Consensus 245 YHSHP~~~~~pS~iDI~t-Q~~yQ~---~~~p~V-aLIvDP 280 (449)
-|=||++.+.||..|+.. ....+. ..=+.+ |+||..
T Consensus 166 aHNHPSG~~~PS~~Di~~T~~l~~a~~~lgI~llDHiIvg~ 206 (218)
T TIGR00608 166 AHNHPSGEPSPSQEDILITERLRKAAELLGIELLDHLIIGK 206 (218)
T ss_pred EeecCCCCCCCCHHHHHHHHHHHHHHHhCCCEEeeEEEEcC
Confidence 799999999999999974 333322 122444 777764
No 71
>PF14778 ODR4-like: Olfactory receptor 4-like
Probab=32.12 E-value=67 Score=33.66 Aligned_cols=61 Identities=25% Similarity=0.312 Sum_probs=36.8
Q ss_pred EEEeeee-cCCeEEEEEEEeCCccCCCCc---c----ccc-ccHHHHHHHHHHHHHHhC----CCCceEEEEecCCC
Q psy1714 187 GLLLGKI-DANSMIVMDAFALPVEGTETR---V----NAQ-AQAYEYMTAYIEAAKEVG----RLENAIGWYHSHPG 250 (449)
Q Consensus 187 GLLLG~~-d~~tl~Vtd~F~lP~~~tetr---v----~a~-~e~~ey~~~mlellrkvg----r~e~VVGWYHSHP~ 250 (449)
|||+|.. ..+.-.|.+..+.|...++.. + ... ..+.+ -+.+.++++. -|..|||.|=.+|.
T Consensus 1 GLlIGq~~s~~kd~Vv~l~~tP~~d~~~~~~~~~~~~~~~~~id~~---WVaeHA~qVsRMLPGGi~VlGifvv~~~ 74 (362)
T PF14778_consen 1 GLLIGQSSSSQKDYVVHLARTPPEDTDDEESDVRTSDSSIKDIDEE---WVAEHARQVSRMLPGGISVLGIFVVAPD 74 (362)
T ss_pred CeEeccccCCCcceEEEecCCCCccccccccccccccccccccCHH---HHHHHHHHHHhhCCCCcEEEEEEEEcCH
Confidence 8999997 666667888888887544333 0 000 11111 1224444443 36899999988874
No 72
>PF14220 DUF4329: Domain of unknown function (DUF4329)
Probab=31.21 E-value=39 Score=30.39 Aligned_cols=25 Identities=24% Similarity=0.345 Sum_probs=19.9
Q ss_pred CCceEEEEecCCCC-----CCcccHhhHHh
Q psy1714 238 LENAIGWYHSHPGY-----GCWLSGIDVST 262 (449)
Q Consensus 238 ~e~VVGWYHSHP~~-----~~~pS~iDI~t 262 (449)
+..+|+-||||..+ +-.||..|+..
T Consensus 58 g~~~vA~yHTHG~~~~~y~~evfS~~D~~~ 87 (123)
T PF14220_consen 58 GSTIVASYHTHGAYSDGYDNEVFSPQDIRG 87 (123)
T ss_pred ccceeeEeecccccCCCccccCCCHHHhhh
Confidence 57899999999964 35688888875
No 73
>TIGR03735 PRTRC_A PRTRC system protein A. A novel genetic system characterized by six major proteins, included a ParB homolog and a ThiF homolog, is designated PRTRC, or ParB-Related,ThiF-Related Cassette. It is often found on plasmids. This protein family is designated protein A.
Probab=30.96 E-value=42 Score=32.51 Aligned_cols=29 Identities=24% Similarity=0.153 Sum_probs=26.9
Q ss_pred eehHHHHHHHHHhhhcCCCeeEEeeeccc
Q psy1714 74 KISALALLKMVMHARSGGTLEVMGLLLGK 102 (449)
Q Consensus 74 ~is~~a~~km~~ha~~g~~~evmg~~~g~ 102 (449)
+|..--+-+|+.|||++-|.|++|++.|.
T Consensus 74 ~Ip~~l~~~ii~hAr~~~P~EacG~Iag~ 102 (192)
T TIGR03735 74 PIPASLLEEFAEAARAALPNEVAAWIVWN 102 (192)
T ss_pred CCCHHHHHHHHHHHHhcCCcceEEEEEEc
Confidence 77788889999999999999999999986
No 74
>KOG3258|consensus
Probab=23.25 E-value=36 Score=30.34 Aligned_cols=31 Identities=45% Similarity=0.702 Sum_probs=24.7
Q ss_pred HhhhcCCCeeEE--eeecccccCCceeEeeccccccCCc
Q psy1714 85 MHARSGGTLEVM--GLLLGKIDANSMIVMDAFALPVEGT 121 (449)
Q Consensus 85 ~ha~~g~~~evm--g~~~g~~~~~~~~v~d~~~lpv~g~ 121 (449)
..||.||++..| |-|+|-+++ -+|+|||.+-
T Consensus 76 dkar~GGDLGW~~RG~MvGPFQd------aAFalpvs~~ 108 (133)
T KOG3258|consen 76 DKARQGGDLGWMTRGSMVGPFQD------AAFALPVSTV 108 (133)
T ss_pred CccccCCcccceeccccccchhh------hhhccccccc
Confidence 347899998877 888888866 5799999764
No 75
>PRK09411 carbamate kinase; Reviewed
Probab=23.12 E-value=96 Score=32.00 Aligned_cols=48 Identities=23% Similarity=0.523 Sum_probs=39.2
Q ss_pred ccccccccc---------CCHHHHHHHHHcCCC--CCCCCcccee-------eehHHHHHHHHHhh
Q psy1714 40 LSATDEIFK---------YDRKRQQDMIAAKPW--EKDPHFFKDI-------KISALALLKMVMHA 87 (449)
Q Consensus 40 ~~~~d~~~~---------~d~~~~~~~~~~~pw--~~~p~~f~~v-------~is~~a~~km~~ha 87 (449)
|+..|-.|. |+.++-+++...+.| +.|.+||++| +|--..+++.+..+
T Consensus 110 Vd~~DpaF~~PtKpiG~~y~~e~a~~l~~e~g~~~~~dg~g~rrVVpSP~P~~iVe~~~I~~Ll~~ 175 (297)
T PRK09411 110 VSPDDPAFLQPEKFIGPVYQPEEQEALEAAYGWQMKRDGKYLRRVVASPQPRKILDSEAIELLLKE 175 (297)
T ss_pred ECCCCccccCCCCccCCccCHHHHHHHHHhcCCEEEecCCceEEEccCCCCcceECHHHHHHHHHC
Confidence 367788887 788988889888888 6789999999 88778888877554
No 76
>COG5178 PRP8 U5 snRNP spliceosome subunit [RNA processing and modification]
Probab=21.60 E-value=1.2e+02 Score=37.00 Aligned_cols=110 Identities=16% Similarity=0.238 Sum_probs=67.4
Q ss_pred CCCceeEEEEeeeecCCe---EEEEEEEeCCccCCCCccccc-ccHHHHHHHHHHHHHHhCCCCceEEEEecCCCCCCcc
Q psy1714 180 GGTLEVMGLLLGKIDANS---MIVMDAFALPVEGTETRVNAQ-AQAYEYMTAYIEAAKEVGRLENAIGWYHSHPGYGCWL 255 (449)
Q Consensus 180 ~~p~EVmGLLLG~~d~~t---l~Vtd~F~lP~~~tetrv~a~-~e~~ey~~~mlellrkvgr~e~VVGWYHSHP~~~~~p 255 (449)
+....|.|++.|+...+. -+|...--+|+-+.-..|... ..+. ++- --.++.++||-|+..+--+++
T Consensus 2151 D~~vqvag~vyG~s~~d~p~ikeI~~~~lVPQlgs~~~vq~~s~vP~-------dlp--~~e~le~lGwihtq~~el~~l 2221 (2365)
T COG5178 2151 DPHVQVAGLVYGKSGSDNPQIKEILSFGLVPQLGSLSGVQSSSFVPH-------DLP--GDEDLEILGWIHTQDDELPYL 2221 (2365)
T ss_pred ccceeeEEEEeccCCccCcchhheeEEEeeccccccccccccccCCC-------CCC--CcccceeeEEEecCCcccchh
Confidence 455789999999754332 244444457776544433221 0010 010 013578999999999877889
Q ss_pred cHhhHHhHHhhhccCCC--eEEEEEcCCCCcCCCeeEEEEEEEccCCCCC
Q psy1714 256 SGIDVSTQMLNQNFQEP--FVAIVIDPVRTISAGKVCLGSFRTYPKGYKP 303 (449)
Q Consensus 256 S~iDI~tQ~~yQ~~~~p--~VaLIvDP~~t~~~Gkv~IkAFRl~p~~y~~ 303 (449)
+..++.|+. +-..++. +|-|.|+-. .|.++++||.+..+|+.=
T Consensus 2222 ~~~~v~th~-k~~~d~~~d~v~ltv~~~----pgsiSl~ay~v~keG~~W 2266 (2365)
T COG5178 2222 EVAGVLTHR-KKIVDPEWDAVTLTVSYL----PGSISLRAYVVKKEGCNW 2266 (2365)
T ss_pred hhhhhhhhh-hcccCccccceeeeeeec----cceeeeeeeeehhccccc
Confidence 999998863 2222333 444444422 688999999999987653
No 77
>cd08059 MPN_prok_mb Mpr1p, Pad1p N-terminal (MPN) domains with catalytic isopeptidase activity (metal-binding); prokaryotic. This family contains bacterial and archaeal MPN (also known as Mov34, PAD-1, JAMM, JAB, MPN+)-like domains. These catalytically active domains contain the signature JAB1/MPN/Mov34 metalloenzyme (JAMM) motif, EXnHS/THX7SXXD, which is involved in zinc ion coordination and provides the active site for isopeptidase activity for the release of ubiquitin from ubiquitinated proteins (thus having deubiquitinating (DUB) activity) that are tagged for degradation. The JAMM proteins likely hydrolyze ubiquitin conjugates in a manner similar to thermolysin, in which the zinc-polarized aqua ligand serves as the nucleophile, compared with the classical DUBs that do so with a cysteine residue in the active site.
Probab=20.20 E-value=1.1e+02 Score=25.48 Aligned_cols=35 Identities=26% Similarity=0.445 Sum_probs=26.8
Q ss_pred HHHHHhhhcCCCeeEEeeecccccCCceeEeecccccc
Q psy1714 81 LKMVMHARSGGTLEVMGLLLGKIDANSMIVMDAFALPV 118 (449)
Q Consensus 81 ~km~~ha~~g~~~evmg~~~g~~~~~~~~v~d~~~lpv 118 (449)
-.|..|++..=|.|.+|+|.|+... .|..+..+|.
T Consensus 4 ~~i~~~~~~~~p~E~~gll~~~~~~---~~~~~~~~~~ 38 (101)
T cd08059 4 KTILVHAKDAHPDEFCGFLSGSKDN---VMDELIFLPF 38 (101)
T ss_pred HHHHHHHHhcCChhhheeeecCCCC---eEEEEEeCCC
Confidence 3567788866699999999998653 5667777774
Done!