Query 000550
Match_columns 1431
No_of_seqs 455 out of 2357
Neff 5.2
Searched_HMMs 46136
Date Mon Apr 1 18:57:30 2013
Command hhsearch -i /work/01045/syshi/lefta3m/000550.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/leftcdd/000550hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF14631 FancD2: Fanconi anaem 100.0 5.1E-75 1.1E-79 759.0 22.7 428 760-1363 43-511 (1426)
2 KOG4712 Uncharacterized conser 100.0 4.2E-54 9.2E-59 512.8 23.7 439 761-1385 40-517 (1335)
3 cd03772 MATH_HAUSP Herpesvirus 99.9 1.7E-22 3.7E-27 206.6 16.0 131 92-226 2-134 (137)
4 cd03772 MATH_HAUSP Herpesvirus 99.9 2E-22 4.3E-27 206.1 15.0 130 425-565 2-134 (137)
5 cd03775 MATH_Ubp21p Ubiquitin- 99.9 6.1E-22 1.3E-26 202.0 13.8 125 427-562 2-134 (134)
6 cd03775 MATH_Ubp21p Ubiquitin- 99.9 8.1E-22 1.8E-26 201.1 14.5 126 94-223 2-134 (134)
7 cd00270 MATH_TRAF_C Tumor Necr 99.8 3.9E-21 8.5E-26 198.6 12.9 135 259-395 1-149 (149)
8 cd03780 MATH_TRAF5 Tumor Necro 99.8 5.7E-21 1.2E-25 198.8 13.6 135 259-394 1-147 (148)
9 cd03776 MATH_TRAF6 Tumor Necro 99.8 5.1E-21 1.1E-25 198.2 11.6 135 259-395 1-147 (147)
10 cd03777 MATH_TRAF3 Tumor Necro 99.8 9.1E-21 2E-25 203.9 13.9 135 258-395 38-184 (186)
11 cd03774 MATH_SPOP Speckle-type 99.8 2.3E-20 5E-25 191.2 14.2 130 425-565 4-138 (139)
12 cd03779 MATH_TRAF1 Tumor Necro 99.8 1.8E-20 4E-25 194.6 13.0 134 259-394 1-146 (147)
13 cd03781 MATH_TRAF4 Tumor Necro 99.8 2.2E-20 4.7E-25 195.4 12.2 134 259-394 1-153 (154)
14 cd03771 MATH_Meprin Meprin fam 99.8 3.8E-20 8.2E-25 195.7 13.5 136 258-395 1-167 (167)
15 cd03778 MATH_TRAF2 Tumor Necro 99.8 7.5E-20 1.6E-24 192.5 13.4 134 258-394 18-163 (164)
16 cd03774 MATH_SPOP Speckle-type 99.8 1E-19 2.2E-24 186.4 13.7 129 92-227 4-139 (139)
17 cd03773 MATH_TRIM37 Tripartite 99.8 9.9E-20 2.1E-24 184.3 13.1 125 424-562 3-130 (132)
18 cd03773 MATH_TRIM37 Tripartite 99.8 1.1E-19 2.5E-24 183.9 12.5 124 257-395 3-130 (132)
19 cd00270 MATH_TRAF_C Tumor Necr 99.8 1.4E-19 3E-24 187.1 12.2 132 426-561 1-148 (149)
20 cd03776 MATH_TRAF6 Tumor Necro 99.8 5.5E-19 1.2E-23 183.1 11.1 131 426-562 1-147 (147)
21 cd03780 MATH_TRAF5 Tumor Necro 99.8 2.6E-18 5.6E-23 179.0 12.8 132 426-561 1-147 (148)
22 cd03781 MATH_TRAF4 Tumor Necro 99.8 2.9E-18 6.4E-23 179.4 12.7 132 426-561 1-153 (154)
23 cd00121 MATH MATH (meprin and 99.7 1.7E-17 3.7E-22 162.3 14.1 125 426-562 1-126 (126)
24 cd00121 MATH MATH (meprin and 99.7 3.1E-17 6.8E-22 160.5 14.4 125 93-223 1-126 (126)
25 cd03777 MATH_TRAF3 Tumor Necro 99.7 2.2E-17 4.8E-22 177.9 13.4 130 91-223 37-184 (186)
26 cd03783 MATH_Meprin_Alpha Mepr 99.7 2.1E-17 4.6E-22 173.7 11.2 135 258-394 1-166 (167)
27 cd03779 MATH_TRAF1 Tumor Necro 99.7 3.9E-17 8.5E-22 169.9 13.1 129 93-222 1-146 (147)
28 cd03782 MATH_Meprin_Beta Mepri 99.7 6.1E-17 1.3E-21 169.5 11.7 135 258-394 1-166 (167)
29 cd03771 MATH_Meprin Meprin fam 99.7 1.6E-16 3.5E-21 168.3 13.3 131 425-561 1-166 (167)
30 PF00917 MATH: MATH domain; I 99.7 5E-17 1.1E-21 159.5 8.7 118 432-563 1-119 (119)
31 cd03778 MATH_TRAF2 Tumor Necro 99.7 2.7E-16 5.9E-21 165.8 13.1 135 423-561 16-163 (164)
32 PF00917 MATH: MATH domain; I 99.7 4.9E-17 1.1E-21 159.6 7.1 117 99-224 1-119 (119)
33 smart00061 MATH meprin and TRA 99.5 3.7E-14 8E-19 133.6 10.5 94 428-537 2-95 (95)
34 smart00061 MATH meprin and TRA 99.5 8.1E-14 1.8E-18 131.3 11.1 93 95-197 2-95 (95)
35 COG5077 Ubiquitin carboxyl-ter 99.4 1.2E-13 2.5E-18 166.7 6.3 136 90-230 36-176 (1089)
36 cd03782 MATH_Meprin_Beta Mepri 99.3 6.3E-12 1.4E-16 132.2 11.1 130 426-561 2-166 (167)
37 COG5077 Ubiquitin carboxyl-ter 99.3 2.5E-12 5.4E-17 155.5 7.6 144 424-579 37-188 (1089)
38 cd03783 MATH_Meprin_Alpha Mepr 99.3 1.2E-11 2.5E-16 130.8 9.4 126 94-222 3-166 (167)
39 KOG1987 Speckle-type POZ prote 99.1 3.2E-12 7E-17 146.4 -5.3 268 428-718 6-292 (297)
40 KOG1987 Speckle-type POZ prote 98.8 3.4E-09 7.3E-14 121.7 5.4 273 95-394 6-291 (297)
41 KOG1863 Ubiquitin carboxyl-ter 97.8 1.4E-05 3E-10 106.9 5.2 129 95-230 29-157 (1093)
42 KOG1863 Ubiquitin carboxyl-ter 97.7 4.1E-05 9E-10 102.5 5.9 132 425-569 26-157 (1093)
43 KOG0297 TNF receptor-associate 96.5 0.0016 3.5E-08 78.8 3.2 80 258-337 279-365 (391)
44 KOG0297 TNF receptor-associate 91.1 0.13 2.8E-06 62.7 2.5 80 90-169 277-365 (391)
45 PF05086 Dicty_REP: Dictyostel 82.0 2.7 5.8E-05 54.1 6.7 22 64-87 303-324 (911)
46 KOG2059 Ras GTPase-activating 54.4 18 0.00039 46.8 5.4 162 983-1162 268-448 (800)
47 KOG4425 Uncharacterized conser 51.3 8.5 0.00018 47.1 1.9 14 92-105 727-740 (900)
48 PF06933 SSP160: Special lobe- 45.8 13 0.00029 44.7 2.3 12 23-34 687-698 (756)
49 PF00126 HTH_1: Bacterial regu 44.9 16 0.00034 32.8 2.2 26 1367-1392 16-41 (60)
50 cd00871 PI4Ka Phosphoinositide 44.9 18 0.0004 39.8 3.1 123 1007-1156 19-141 (175)
51 PF05642 Sporozoite_P67: Sporo 43.9 15 0.00033 46.2 2.5 16 284-299 490-505 (727)
52 PF14915 CCDC144C: CCDC144C pr 36.6 51 0.0011 39.1 5.1 71 1360-1430 96-166 (305)
53 PF00356 LacI: Bacterial regul 33.8 67 0.0015 28.0 4.2 39 1367-1409 2-40 (46)
54 TIGR00637 ModE_repress ModE mo 32.6 31 0.00067 34.5 2.2 28 1367-1394 19-46 (99)
55 PF07524 Bromo_TP: Bromodomain 27.8 79 0.0017 29.9 4.0 71 1321-1394 4-74 (77)
56 PF03962 Mnd1: Mnd1 family; I 27.6 87 0.0019 34.9 4.9 103 1317-1429 9-124 (188)
57 PF14675 FANCI_S1: FANCI solen 26.8 1.7E+02 0.0037 33.6 7.1 131 977-1124 44-174 (223)
58 PF01710 HTH_Tnp_IS630: Transp 26.4 73 0.0016 32.7 3.8 40 1343-1388 56-95 (119)
59 PRK15424 propionate catabolism 24.8 3.3E+02 0.0072 35.2 9.9 30 1358-1387 500-533 (538)
60 PF01602 Adaptin_N: Adaptin N 24.7 1.9E+02 0.004 36.2 7.7 146 1009-1159 193-348 (526)
61 TIGR02077 thr_lead_pep thr ope 24.5 71 0.0015 24.7 2.3 13 19-31 7-19 (26)
62 PF12348 CLASP_N: CLASP N term 23.8 1.7E+02 0.0037 32.5 6.4 37 1281-1317 174-210 (228)
63 PRK01905 DNA-binding protein F 23.8 1.7E+02 0.0037 27.9 5.4 62 1319-1387 8-73 (77)
64 PF04967 HTH_10: HTH DNA bindi 22.2 68 0.0015 28.9 2.2 29 1366-1394 25-53 (53)
65 PF00613 PI3Ka: Phosphoinositi 22.0 2.1E+02 0.0045 31.9 6.5 75 1031-1124 46-122 (184)
66 PF05008 V-SNARE: Vesicle tran 22.0 86 0.0019 29.5 3.1 66 1365-1430 10-76 (79)
67 COG3050 HolD DNA polymerase II 21.5 45 0.00098 34.7 1.1 26 1361-1390 105-130 (133)
68 PF05539 Pneumo_att_G: Pneumov 20.4 3E+02 0.0066 33.1 7.5 20 108-127 377-396 (408)
No 1
>PF14631 FancD2: Fanconi anaemia protein FancD2 nuclease; PDB: 3S4W_B.
Probab=100.00 E-value=5.1e-75 Score=758.96 Aligned_cols=428 Identities=30% Similarity=0.492 Sum_probs=333.0
Q ss_pred ChhHHHHHHHhhcceeecCCCCCCCc---hhHHHHhh-------cccHhHHHHHhhccccccCChhhHhhhcCCccccCC
Q 000550 760 DEEDIVRNLLSRAGFHLTYGDNPSQP---QVTLREKL-------LMDAGAIAGFLTGLRVYLDDPAKAKRLLLPTKLSGS 829 (1431)
Q Consensus 760 ~~~~~f~~~l~~ag~~l~~g~~~~~~---q~~~~~~~-------~~~~~~i~~f~~~l~~~~~~~~~~~~~llp~~~~~~ 829 (1431)
.++++|.++|++||++|+.|++||++ ||.||+|| |.||.+|++|++||+.||+|+++||+|||||.+.++
T Consensus 43 ~~~~~f~~~L~~aG~~L~~g~~~~~l~~d~i~f~~kL~~~L~~~~~yp~~v~~F~~gl~~~i~~~~~~~~~Ll~~~~~~~ 122 (1426)
T PF14631_consen 43 ENDSVFESVLKDAGVTLKTGEGPNVLSVDQIIFQKKLRKILRKSPSYPENVEEFLSGLESYIEDRDNFRNCLLPCCPSQN 122 (1426)
T ss_dssp ----HHHHHHHHTTEE---TTS--EESS-TTHHHHHHHHHHHHSS-HHHHHHHHHHHHHHHTTSHHHHHHHSSB-B----
T ss_pred CCccHHHHHHHHcCeeeCCCCCCceeccCHHHHHHHHHHHHHhCCCchHHHHHHHHHHHHHhcCHHHHHHHhcCCCcccc
Confidence 46789999999999999999999988 99999998 789999999999999999999999999999998875
Q ss_pred CCCccccCCCCchhHHHhhhchhhhHHHHHHHHHHHhhhccCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccccCCCcc
Q 000550 830 DGKKVAKTDESSPSVMNLLMGVKVLQQAIIDLLLDIMVECCQPSDGNYYGDSSDANSKPPLDANGGARPLEADRENGASE 909 (1431)
Q Consensus 830 ~~~~~~~~~~~~~sl~~ll~gv~~lq~aii~~l~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 909 (1431)
++. .+...++++||||+||||+.||++||++||+||+||+..
T Consensus 123 ~~~-~~~~~~~~~Slir~LL~i~~lQ~~~i~~LleKl~e~~~~------------------------------------- 164 (1426)
T PF14631_consen 123 AEA-ESIGQSSQESLIRLLLGIDFLQPALIEMLLEKLPEFAFE------------------------------------- 164 (1426)
T ss_dssp -------------BHHHHHHHSTTTHHHHHHHHHHHHHHHHS--------------------------------------
T ss_pred ccc-ccccccccHHHHHHHhCCccccHHHHHHHHHHHHHHHhc-------------------------------------
Confidence 443 355667899999999999999999999999999999876
Q ss_pred ccccccccccCCCCCCCCCcccccccCCCccccccccCCCCCCCCCCcCCCCCcccccccccCCCchhhHhhHhHHHhhh
Q 000550 910 SAQFPLFERLDSGADDNSTTSAVQSSDLSGIDIAEKALPGQPIFPPETSAGGSLESASFRSKTKWPEQSAELLGLIVNSL 989 (1431)
Q Consensus 910 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~livn~l 989 (1431)
+++.+|++|| +||+|||
T Consensus 165 ------------------------~~~~~~~~~~---------------------------------------~Lil~Ql 181 (1426)
T PF14631_consen 165 ------------------------SSGSDGINIP---------------------------------------RLILNQL 181 (1426)
T ss_dssp ---------------------------TT---HH---------------------------------------HHHHGGG
T ss_pred ------------------------cccCCCCChH---------------------------------------HHHHHHh
Confidence 2234467888 9999999
Q ss_pred hcccccCCCCCCCCCCCchhHHHHHHHhhcCCccccchhhhccccccCCCCchHHHHHHHHHhccCCCCCccchhhHhhh
Q 000550 990 RALDGAVPQGCPEPRRRPQSAQKISLVLDKAPKHLQPDLVALVPKLVEHSEHPLAADALIERLQKSDAEPALRMPVFVAL 1069 (1431)
Q Consensus 990 ~~ld~~v~~~~~~~r~~~~~~~k~~~~l~~ap~~lq~d~i~~~p~~~~~s~h~~~a~~l~~~l~~~~~~~~l~~p~~~al 1069 (1431)
||||++|+. .+++.||++||++||.++|+|||++||+|++||+|+.|+.+|.++|+++ +.|++||||||
T Consensus 182 rwLd~i~d~--------~~l~~kl~~~l~~ap~~lq~eiI~~LPeIl~ds~h~~v~~~L~~ll~~~---~~L~~~iLd~L 250 (1426)
T PF14631_consen 182 RWLDRIVDS--------EELTDKLFEVLSIAPVELQKEIISSLPEILDDSQHDEVVEELLELLQEN---PELTVPILDAL 250 (1426)
T ss_dssp TT-S--SSH--------HHHHHHHHHHHHHS-TTTHHHHHHTHHHHS-GGGHHHHHHHHHHHHHH----STTHHHHHHHH
T ss_pred hccccccCH--------HHHHHHHHHHHHhCCHHHHHHHHHHHHHHhcchhHHHHHHHHHHHHhcC---CchhhhHHHHH
Confidence 999999998 8999999999999999999999999999999999999999999999997 99999999999
Q ss_pred cccccChHHHHHHHHHHHhhhcCCCCCchhhhHHHHhhccc------------------cccchHHHHHHHHHHHHhcCC
Q 000550 1070 SQLDFGSEVWERILLKSLELLTDSNDEPLAVTIDFIFKAAS------------------QCQHLPEAVRSVRVRLKNLGA 1131 (1431)
Q Consensus 1070 s~l~~~~~~~~~~~~~~~~~l~~~~~e~l~~~i~f~~~~~~------------------~~~~~~~~~~~~~~~l~~~g~ 1131 (1431)
|+|+|+++.+++||+++|+.|.+++.|+||++|+|||++++ +|. +|..+++++.++|+.|.
T Consensus 251 s~L~Ls~~~l~~vr~~vl~~L~s~~~e~LP~lirFLL~s~t~~da~evI~~LR~~L~~~~~v-~~~~~~~s~~~~k~~~~ 329 (1426)
T PF14631_consen 251 SNLNLSPELLEEVREKVLEKLSSVDLEDLPVLIRFLLQSITPSDAVEVISELRENLDFEQCV-LPSRIQASQRKLKNKGN 329 (1426)
T ss_dssp HHS---HHHHHHHHHHHHHSTTSS-TTHHHHHHHHHHHS-SSTTHHHHHHHHHHHHH-----------------------
T ss_pred hcCCCCHHHHHHHHHHHHHHHhcCChhhhHHHHHHHHHhCCcccHHHHHHHHHHHccccccc-cchhhcccccccccCcc
Confidence 99999999999999999999999999999999999999988 455 66666677777777776
Q ss_pred CCCh---------h---HHHHHHhhhccchhHHHHHHHhccCCCCCCCCCCCCCCcccccCCCCCCCCccchhhhhhhcc
Q 000550 1132 EVSP---------C---VLDFLSKTVNSWGDVAETILRDIDCDDDFGDNCSTMPSGLFLFGENGPTSDSLHVMDEQAFRA 1199 (1431)
Q Consensus 1132 ~~s~---------~---~ld~~~~~v~~~~~~~e~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1199 (1431)
+.++ | +||+|+++|+++++++|||||.|++..++.+
T Consensus 330 ~~~~~~~~~s~~~~~~lil~~lks~lr~~k~l~eawiK~I~~~~~~~~-------------------------------- 377 (1426)
T PF14631_consen 330 ASSSGNQENSSQDCEKLILDVLKSGLRFSKDLSEAWIKAIESLEDASD-------------------------------- 377 (1426)
T ss_dssp ---------HHHHHHHHHHHHHHHHHHH-HHHHHHHHHHHHHGGGSTT--------------------------------
T ss_pred cccccccccccccHHHHHHHHHHHHHHhccHHHHHHHHHHhcCCCccc--------------------------------
Confidence 6543 3 9999999999999999999999999998888
Q ss_pred ccchhhHHHHHHHhcCCc-hHHHHHHHHHHHHhcccchhhHHHHHHHHHHhhcccCCCCcccccccccccccccccceec
Q 000550 1200 TRHFSDIYILIEMLSIPC-IAVEAAQTFERAVARGTIVAQSIALVLERRLAQRLNFNPGFVAENFQHTDVVVEGEQLIVQ 1278 (1431)
Q Consensus 1200 ~~~~~d~~~l~~~~s~~~-~~~~~~~~~er~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~ 1278 (1431)
|++.|+++|++||+++. .++.+++++.+.|+.|+|+++++ ++ +| . .|..|+
T Consensus 378 -hkv~Dl~lLlil~s~~~~~~k~ie~ilkkKI~~g~it~~ll---------~~-----~f-----~--------~~~~vL 429 (1426)
T PF14631_consen 378 -HKVIDLWLLLILYSINEDNRKSIEKILKKKIKSGHITEQLL---------DQ-----TF-----K--------GHSEVL 429 (1426)
T ss_dssp ---THHHHHHHHHHHH-HHHHHHHHHHHHHHHTTT-S-HHHH---------HH-----HH-----H--------HHHHHH
T ss_pred -cchHHHHHHHHHHcCCccchHHHHHHHHHHHHhCcccHHHH---------HH-----HH-----h--------hhHHHH
Confidence 99999999999999986 45889999999999999999999 54 44 3 445789
Q ss_pred cchhhhHHHHHHHHhcCcCchhhhhHHHHHHHHhhhcCCCchHHHHHHHHHhhccCCCCCCccccchhHHHHHHHhhccc
Q 000550 1279 RDDFTCVLGLAETLALSRDIRVREFVKILYTILLKWYPDESYRGRMLKRLVDRATSTTESSRGVDLDLEILVILVCEEQE 1358 (1431)
Q Consensus 1279 ~~~f~~~l~la~~l~~s~~~~v~~f~~~~y~~~f~~~~~~~~~~~~~~~lv~~~~s~~~~~~~v~~~l~~l~~lv~~~~~ 1358 (1431)
+++|+++|.||+.|++|.|+.|++||++||+++|+.| |+|||||||++||+|+||| ++.|||.+|+||..|+..++.
T Consensus 430 ~~~f~siL~la~~Ll~S~e~~v~~FG~~~Y~~lF~~f-ds~~qqeVv~~Lvthi~sg--~~~ev~~aL~vL~~L~~~~~~ 506 (1426)
T PF14631_consen 430 KDYFPSILSLAQSLLRSKEPSVREFGSHLYKYLFKEF-DSYCQQEVVGALVTHIGSG--NSQEVDAALDVLCELAEKNPS 506 (1426)
T ss_dssp TTSHHHHHHHHHHHHTSSSHHHHHHHHHHHHHHHHSS--HHHHHHHHHHHHHHHHH----HHHHHHHHHHHHHHHHH-HH
T ss_pred HHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHhhc-cchhHHHHHHHHHHHHcCC--cHHHHHHHHHHHHHHHhccHH
Confidence 9999999999999999999999999999999999999 9999999999999999999 999999999999999998885
Q ss_pred chHHH
Q 000550 1359 IIRPV 1363 (1431)
Q Consensus 1359 ~~~~~ 1363 (1431)
..+|-
T Consensus 507 ~l~~f 511 (1426)
T PF14631_consen 507 ELQPF 511 (1426)
T ss_dssp HHHHT
T ss_pred HHHHH
Confidence 55553
No 2
>KOG4712 consensus Uncharacterized conserved protein [Function unknown]
Probab=100.00 E-value=4.2e-54 Score=512.83 Aligned_cols=439 Identities=24% Similarity=0.381 Sum_probs=390.6
Q ss_pred hhHHHHH--HHhhcceeecCCCCCCCc---hhHHHHhh-------cccHhHHHHHhhccccccCChhhHhhhcCCccccC
Q 000550 761 EEDIVRN--LLSRAGFHLTYGDNPSQP---QVTLREKL-------LMDAGAIAGFLTGLRVYLDDPAKAKRLLLPTKLSG 828 (1431)
Q Consensus 761 ~~~~f~~--~l~~ag~~l~~g~~~~~~---q~~~~~~~-------~~~~~~i~~f~~~l~~~~~~~~~~~~~llp~~~~~ 828 (1431)
++.||.+ +|...|..|..|...+|. -..||.++ +|||+.+..|+.||+.|+.||+.+|||+|.|.-.|
T Consensus 40 ~~~If~~isll~~~~~~l~~~~s~~q~~~~L~~fq~~~~~tlr~~~~~p~~~~~fv~gl~~yi~d~d~~r~~~Ls~~Sl~ 119 (1335)
T KOG4712|consen 40 NDSIFVKLSLLKISGIILKTGESQNQLAVDLIAFQKKLFQTLRRHPSYPKIIEEFVSGLESYIEDEDSFRNCLLSCESLQ 119 (1335)
T ss_pred hHHHHHHHHHhhccCccCCCcchhhhcccccHHHHHHHHHHhhccCCCcHHHHHHHHHHHHHhcCcchhhhhhhhHhhhh
Confidence 6789975 799999999999999987 33444444 99999999999999999999999999999887654
Q ss_pred CCCCccccCCCCchhHHHhhhchhhhHHHHHHHHHHHhhhccCCCCCCCCCCCCCCCCCCCCCCCCCCCCccccccCCCc
Q 000550 829 SDGKKVAKTDESSPSVMNLLMGVKVLQQAIIDLLLDIMVECCQPSDGNYYGDSSDANSKPPLDANGGARPLEADRENGAS 908 (1431)
Q Consensus 829 ~~~~~~~~~~~~~~sl~~ll~gv~~lq~aii~~l~~~~~e~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 908 (1431)
.++.++++||+++|+||++|||+|+.+|||++||+....
T Consensus 120 ------~~~~~~~ksl~~~ll~~~~lq~~i~~~l~ekLpeyf~~~----------------------------------- 158 (1335)
T KOG4712|consen 120 ------DMGASYSKSLIKLLLGIDILQPAIIKTLFEKLPEYFFEN----------------------------------- 158 (1335)
T ss_pred ------hhhhhccHHHHHHHhhhHHHHHHHHHHHHhhchHhhcCC-----------------------------------
Confidence 344579999999999999999999999999999998871
Q ss_pred cccccccccccCCCCCCCCCcccccccCCCccccccccCCCCCCCCCCcCCCCCcccccccccCCCchhhHhhHhHHHhh
Q 000550 909 ESAQFPLFERLDSGADDNSTTSAVQSSDLSGIDIAEKALPGQPIFPPETSAGGSLESASFRSKTKWPEQSAELLGLIVNS 988 (1431)
Q Consensus 909 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~livn~ 988 (1431)
+++.=.++.| |||||+
T Consensus 159 -------------------------~s~SLe~~V~---------------------------------------rlii~~ 174 (1335)
T KOG4712|consen 159 -------------------------KSNSLEINVP---------------------------------------RLIVSQ 174 (1335)
T ss_pred -------------------------CCcchHHHHH---------------------------------------HHHHHH
Confidence 1122234555 999999
Q ss_pred hhcccccCCCCCCCCCCCchhHHHHHHHhhcCCccccchhhhccccccCCCCchHHHHHHHHHhccCCCCCccchhhHhh
Q 000550 989 LRALDGAVPQGCPEPRRRPQSAQKISLVLDKAPKHLQPDLVALVPKLVEHSEHPLAADALIERLQKSDAEPALRMPVFVA 1068 (1431)
Q Consensus 989 l~~ld~~v~~~~~~~r~~~~~~~k~~~~l~~ap~~lq~d~i~~~p~~~~~s~h~~~a~~l~~~l~~~~~~~~l~~p~~~a 1068 (1431)
|||||++|+. -.++.|+|+|+++||.++|+|+|+++||+++|++|..|...|.++||++ |++.++|+|.
T Consensus 175 FRwlD~~v~~--------H~~t~k~mqVisi~Pe~l~~~ii~SlPEi~gd~~~~~v~~~L~~~L~en---~s~VvAVld~ 243 (1335)
T KOG4712|consen 175 FRWLDRVVDG--------HDLTTKIMQVISIAPENLQHDIITSLPEILGDSQHADVGKELSDLLIEN---TSLVVAVLDV 243 (1335)
T ss_pred HHHHhhhcch--------hhhhhhHhhHhhcCchhhhccccCCchhhhcchhHHHHHHHHHHHHhcC---CceeeeHHhh
Confidence 9999999996 5799999999999999999999999999999999999999999999997 9999999999
Q ss_pred hcccccChHHHHHHHHHHHhhhcCCCCCchhhhHHHHhhccc--------------cccchHHHHHHHHHHHHhcCCCCC
Q 000550 1069 LSQLDFGSEVWERILLKSLELLTDSNDEPLAVTIDFIFKAAS--------------QCQHLPEAVRSVRVRLKNLGAEVS 1134 (1431)
Q Consensus 1069 ls~l~~~~~~~~~~~~~~~~~l~~~~~e~l~~~i~f~~~~~~--------------~~~~~~~~~~~~~~~l~~~g~~~s 1134 (1431)
||.|++++..+.+|.+.|..-++....|-||+.|+|++|++| +|. +|...++.+..+|-+|-..-
T Consensus 244 ls~l~ld~~~~l~~I~lvISC~~~i~~eHlP~Li~f~lh~~t~~NVR~~is~~r~q~~v-~~~~~q~~~v~~kLkg~~s~ 322 (1335)
T KOG4712|consen 244 LSSLRLDPNFLLKVIQLVISCLSSIRLEHLPVLIKFILHSVTAMNVREVISELREQHCV-LPSRLQASQVKLKLKGRASN 322 (1335)
T ss_pred hhccccChHHHHHHHHHHHHHHHhhcccccHHHHHHHHHhCCcccHHHHHHHHHHHHhc-ccccccHHHHHHHHhccccc
Confidence 999999999999999999999999999999999999999998 788 99999998888888887764
Q ss_pred h---h--HHHHHHhhhccchhHHHHHHHhccCCCCCCCCCCCCCCcccccCCCCCCCCccchhhhhhhccccchhhHHHH
Q 000550 1135 P---C--VLDFLSKTVNSWGDVAETILRDIDCDDDFGDNCSTMPSGLFLFGENGPTSDSLHVMDEQAFRATRHFSDIYIL 1209 (1431)
Q Consensus 1135 ~---~--~ld~~~~~v~~~~~~~e~~l~~i~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~d~~~l 1209 (1431)
. | |||+++|++++..+|+..|+|+|+|.+.+.+ |++.||++|
T Consensus 323 ~esEg~~iLdv~~s~ir~~N~i~QE~ik~i~~~E~~~~---------------------------------~kV~di~~L 369 (1335)
T KOG4712|consen 323 QESEGILLLDVIKSAIRYENTISQEWIKAIENTESVSE---------------------------------HKVFDLVML 369 (1335)
T ss_pred cccchhHHHHHHHHHHHhhhHHHHHHHHHHHhhcchhh---------------------------------cccccHHHH
Confidence 4 5 9999999999999999999999999999988 999999999
Q ss_pred HHHhcCCc-hHHHHHHHHHHHHhcccchhhHHHHHHHHHHhhcccCCCCcccccccccccccccccceeccchhhhHHHH
Q 000550 1210 IEMLSIPC-IAVEAAQTFERAVARGTIVAQSIALVLERRLAQRLNFNPGFVAENFQHTDVVVEGEQLIVQRDDFTCVLGL 1288 (1431)
Q Consensus 1210 ~~~~s~~~-~~~~~~~~~er~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~~~~f~~~l~l 1288 (1431)
|+||+++. .++-.++.+|+.|++|||++|++ |. ++ . .+..+.++-+--|+.+
T Consensus 370 f~~y~~~~~~~k~i~K~~~Kk~~~~cIqE~ll---------~~-----~~-----s--------v~~E~~k~L~ALi~~i 422 (1335)
T KOG4712|consen 370 FIIYSTNTQTKKYIDKVLRKKIRSGCIQEQLL---------QS-----TF-----S--------VHYEVLKDLCALILSL 422 (1335)
T ss_pred HHHHHcCChhhhHHHHHHHHHHHHHHHHHHHH---------HH-----Hh-----h--------ccHHHHHHHHHHHHHH
Confidence 99999987 45788888999999999999999 55 44 1 2335567888888999
Q ss_pred HHHHhcCcCchhhhhHHHHHHHHhhhcCCCchHHHHHHHHHhhccCCCCCCccccchhHHHHHHHhhcccchHHHHHHHH
Q 000550 1289 AETLALSRDIRVREFVKILYTILLKWYPDESYRGRMLKRLVDRATSTTESSRGVDLDLEILVILVCEEQEIIRPVLSMLR 1368 (1431)
Q Consensus 1289 a~~l~~s~~~~v~~f~~~~y~~~f~~~~~~~~~~~~~~~lv~~~~s~~~~~~~v~~~l~~l~~lv~~~~~~~~~~~~~~~ 1368 (1431)
|+.+.++-|..|..||+|||++.||+| ++||++++.+++|+|.|=+ +.++||.+||+|.+++..+. -+||-
T Consensus 423 ~~~~~~~~~~~~~s~~~~~~~~~~k~~-~~~~~~~~~ga~~~h~cI~--~~~~~~~~ld~L~~~~~DnL------~~~~~ 493 (1335)
T KOG4712|consen 423 AQSLLHSLDQSIISFGSLLYKYAFKFF-DTYCQQEVVGALVTHICIG--NEAEVDTALDVLLELVVDNL------SAMMM 493 (1335)
T ss_pred HHHhcccchhHHHHHHHHHHHHHHHHH-HhhchHHhhhhhhhheeec--chhhhhHHHHHHHHHHHhhH------HHHhh
Confidence 999999999999999999999999999 9999999999999999998 99999999999999987743 45777
Q ss_pred HHHHH-------hhhhhHHHHHHh
Q 000550 1369 EVAEL-------ANVDRAALWHQL 1385 (1431)
Q Consensus 1369 ~~~~~-------~~~~~~~~~~~~ 1385 (1431)
.+.|+ +|+|-...|.-+
T Consensus 494 ~~~Ev~~~l~~~~~~s~qS~r~l~ 517 (1335)
T KOG4712|consen 494 NAVEVKGILDYLDNISPQSIRKLF 517 (1335)
T ss_pred hheeccCchhhccCCCHHHHHHHH
Confidence 77664 677777777644
No 3
>cd03772 MATH_HAUSP Herpesvirus-associated ubiquitin-specific protease (HAUSP, also known as USP7) family, N-terminal MATH (TRAF-like) domain; composed of proteins similar to human HAUSP, an enzyme that specifically catalyzes the deubiquitylation of p53 and MDM2, hence playing an important role in the p53-MDM2 pathway. It contains an N-terminal TRAF-like domain and a C-terminal catalytic protease (C19 family) domain. The tumor suppressor p53 protein is a transcription factor that responds to many cellular stress signals and is regulated primarily through ubiquitylation and subsequent degradation. MDM2 is a RING-finger E3 ubiquitin ligase that promotes p53 ubiquitinylation. p53 and MDM2 bind to the same site in the N-terminal TRAF-like domain of HAUSP in a mutually exclusive manner. HAUSP also interacts with the Epstein-Barr nuclear antigen 1 (EBNA1) protein of the Epstein-Barr virus (EBV), which efficiently immortalizes infected cells predisposing the host to a variety of cancers. EBNA1
Probab=99.89 E-value=1.7e-22 Score=206.56 Aligned_cols=131 Identities=24% Similarity=0.407 Sum_probs=112.9
Q ss_pred ceEEEEEEccccccCCceeecCceEEcCeeEEEEEEECCCCC--CCCCcEEEEEEEeCCCCCCCCCceEEEEEEEEEEec
Q 000550 92 SAVCRWTVHNFPRIRARALWSKYFEVGGYDCRLLVYPKGDSQ--ALPGYISIYLQIMDPRGTSSSKWDCFASYRLAIVNL 169 (1431)
Q Consensus 92 ~at~twtI~NFS~lK~ekv~Sp~F~vGG~~WRL~VYP~G~~~--~~~~yLSVYLe~~~~~~s~~s~W~v~a~Fkf~LvNq 169 (1431)
.++|+|+|+|||.+ ++.++|+.|.+||++|+|.+||+|+.. +..+|+|+||+|.... ....|.+.|+|+|+|+|+
T Consensus 2 ~~~~~~~I~~~S~l-~e~~~S~~f~vgG~~W~i~~~P~g~~~~~~~~~~lsvyL~~~~~~--~~~~w~i~a~~~~~l~~~ 78 (137)
T cd03772 2 EATFSFTVERFSRL-SESVLSPPCFVRNLPWKIMVMPRNYPDRNPHQKSVGFFLQCNAES--DSTSWSCHAQAVLRIINY 78 (137)
T ss_pred CcEEEEEECCcccC-CCcEECCCEEECCcceEEEEEeCCCCCCCCCCCeEEEEEeeCCcC--CCCCCeEEEEEEEEEEcC
Confidence 57999999999999 478999999999999999999999653 2358999999997643 334799999999999999
Q ss_pred CCCcceEeecceeeecCCCCCCCcCCCccccccccCcCCceecCCEEEEEEEEEEec
Q 000550 170 SDESKTIHRDSWHRFSSKKKSHGWCDFTPSSTVFDSKLGYLFNNDAVLITADILILN 226 (1431)
Q Consensus 170 ~g~s~si~k~s~hrFs~~~~~WG~~kFI~~ddL~dp~~GFL~d~DsLtIea~V~Vlk 226 (1431)
+++..++.+...|.|+.....|||++||+|++|+++++|||+| |+|+|+|+|+|-.
T Consensus 79 ~~~~~~~~~~~~~~f~~~~~~~G~~~fi~~~~L~~~~sgyl~~-D~l~Ie~~V~~~~ 134 (137)
T cd03772 79 KDDEPSFSRRISHLFFSKENDWGFSNFMTWSEVTDPEKGFIED-DTITLEVYVQADA 134 (137)
T ss_pred CCCcccEEEeeeeEEcCCCCCccchheeEHHHhcCCCCCcEEC-CEEEEEEEEEeeC
Confidence 8655555556668897777899999999999999888999999 9999999998743
No 4
>cd03772 MATH_HAUSP Herpesvirus-associated ubiquitin-specific protease (HAUSP, also known as USP7) family, N-terminal MATH (TRAF-like) domain; composed of proteins similar to human HAUSP, an enzyme that specifically catalyzes the deubiquitylation of p53 and MDM2, hence playing an important role in the p53-MDM2 pathway. It contains an N-terminal TRAF-like domain and a C-terminal catalytic protease (C19 family) domain. The tumor suppressor p53 protein is a transcription factor that responds to many cellular stress signals and is regulated primarily through ubiquitylation and subsequent degradation. MDM2 is a RING-finger E3 ubiquitin ligase that promotes p53 ubiquitinylation. p53 and MDM2 bind to the same site in the N-terminal TRAF-like domain of HAUSP in a mutually exclusive manner. HAUSP also interacts with the Epstein-Barr nuclear antigen 1 (EBNA1) protein of the Epstein-Barr virus (EBV), which efficiently immortalizes infected cells predisposing the host to a variety of cancers. EBNA1
Probab=99.88 E-value=2e-22 Score=206.09 Aligned_cols=130 Identities=25% Similarity=0.486 Sum_probs=110.4
Q ss_pred ccEEEEEEcccccchhhhhccccCCceecCCcEEEccceEEEEEEeCCCCC---CCCcEEEEEEEccCCCCCCCCeEEEE
Q 000550 425 MGKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQ---PPCHLSVFLEVMDSRNTSSDWSCFVS 501 (1431)
Q Consensus 425 ~~~~twkI~NFS~lkemlk~~K~~Ge~i~S~~F~vGG~~WRL~vYP~G~~~---~~~yLSLYL~l~d~~~~~~~WsV~a~ 501 (1431)
.++|+|+|+|||.+. +.++|+.|.+|||+|+|.+||+|+.. ..+||||||.|.+.. ....|++.|+
T Consensus 2 ~~~~~~~I~~~S~l~----------e~~~S~~f~vgG~~W~i~~~P~g~~~~~~~~~~lsvyL~~~~~~-~~~~w~i~a~ 70 (137)
T cd03772 2 EATFSFTVERFSRLS----------ESVLSPPCFVRNLPWKIMVMPRNYPDRNPHQKSVGFFLQCNAES-DSTSWSCHAQ 70 (137)
T ss_pred CcEEEEEECCcccCC----------CcEECCCEEECCcceEEEEEeCCCCCCCCCCCeEEEEEeeCCcC-CCCCCeEEEE
Confidence 478999999999984 25899999999999999999999653 248999999997643 3348999999
Q ss_pred EEEEEEeCCCCceeEEecccccccccCcCccccccccccccccCCCCCccCCEEEEEEEEEEEc
Q 000550 502 HRLSVVNQKMEEKSVTKESQNRYSKAAKDWGWREFVTLTSLFDQDSGFLVQDTVVFSAEVLILK 565 (1431)
Q Consensus 502 FkL~LvNq~g~~~Sv~k~~~~~F~~~~~~WG~~kFI~lsdL~dpesGYLvDDsLtIe~eV~Vlk 565 (1431)
|+|+|+|+++...+..+...+.|......|||.+||+|++|.++++|||+||+|+|+|+|+|-.
T Consensus 71 ~~~~l~~~~~~~~~~~~~~~~~f~~~~~~~G~~~fi~~~~L~~~~sgyl~~D~l~Ie~~V~~~~ 134 (137)
T cd03772 71 AVLRIINYKDDEPSFSRRISHLFFSKENDWGFSNFMTWSEVTDPEKGFIEDDTITLEVYVQADA 134 (137)
T ss_pred EEEEEEcCCCCcccEEEeeeeEEcCCCCCccchheeEHHHhcCCCCCcEECCEEEEEEEEEeeC
Confidence 9999999986544555555578876677999999999999988789999999999999998754
No 5
>cd03775 MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p) family, MATH domain; composed of fungal proteins with similarity to Ubp21p of fission yeast. Ubp21p is a deubiquitinating enzyme that may be involved in the regulation of the protein kinase Prp4p, which controls the formation of active spliceosomes. Members of this family are similar to human HAUSP (Herpesvirus-associated ubiquitin-specific protease) in that they contain an N-terminal MATH domain and a C-terminal catalytic protease (C19 family) domain. HAUSP is also an ubiquitin-specific protease that specifically catalyzes the deubiquitylation of p53 and MDM2. The MATH domain of HAUSP contains the binding site for p53 and MDM2. Similarly, the MATH domain of members in this family may be involved in substrate binding.
Probab=99.87 E-value=6.1e-22 Score=202.05 Aligned_cols=125 Identities=28% Similarity=0.572 Sum_probs=107.9
Q ss_pred EEEEEEcccccchhhhhccccCCceecCCcEEEccceEEEEEEeCCCCCCCCcEEEEEEEccCCC----CCCCCeEEEEE
Q 000550 427 KFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQPPCHLSVFLEVMDSRN----TSSDWSCFVSH 502 (1431)
Q Consensus 427 ~~twkI~NFS~lkemlk~~K~~Ge~i~S~~F~vGG~~WRL~vYP~G~~~~~~yLSLYL~l~d~~~----~~~~WsV~a~F 502 (1431)
+|+|+|+|||.+. +.++|++|.+|||+|+|.+||+|+.. .+||||||.+.+... .+.+|.+.|+|
T Consensus 2 ~f~w~I~~fS~~~----------~~~~S~~F~vGG~~W~l~~yP~G~~~-~~~iSlyL~l~~~~~~~~~~~~~~~v~a~f 70 (134)
T cd03775 2 SFTWRIKNWSELE----------KKVHSPKFKCGGFEWRILLFPQGNSQ-TGGVSIYLEPHPEEEEKAPLDEDWSVCAQF 70 (134)
T ss_pred cEEEEECCcccCC----------cceeCCCEEECCeeEEEEEeCCCCCC-CCeEEEEEEecCcccccccCCCCCeEEEEE
Confidence 6999999999963 36899999999999999999999865 789999999976443 25689999999
Q ss_pred EEEEEeCCCCceeEEecccccccccCcCccccccccccccccC----CCCCccCCEEEEEEEEE
Q 000550 503 RLSVVNQKMEEKSVTKESQNRYSKAAKDWGWREFVTLTSLFDQ----DSGFLVQDTVVFSAEVL 562 (1431)
Q Consensus 503 kL~LvNq~g~~~Sv~k~~~~~F~~~~~~WG~~kFI~lsdL~dp----esGYLvDDsLtIe~eV~ 562 (1431)
+|+|+||.++..+..+...+.|+....+|||.+||++++|++| ++|||+||+|+|+|.|.
T Consensus 71 ~~~l~n~~~~~~~~~~~~~~~F~~~~~~wG~~~fi~~~~L~~~~~~~~~g~l~nD~l~I~~~~~ 134 (134)
T cd03775 71 ALVISNPGDPSIQLSNVAHHRFNAEDKDWGFTRFIELRKLAHRTPDKPSPFLENGELNITVYVR 134 (134)
T ss_pred EEEEEcCCCCccceEccceeEeCCCCCCCChhHcccHHHHcccccCCCCceeECCEEEEEEEEC
Confidence 9999999876656666667899877789999999999999854 68999999999999873
No 6
>cd03775 MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p) family, MATH domain; composed of fungal proteins with similarity to Ubp21p of fission yeast. Ubp21p is a deubiquitinating enzyme that may be involved in the regulation of the protein kinase Prp4p, which controls the formation of active spliceosomes. Members of this family are similar to human HAUSP (Herpesvirus-associated ubiquitin-specific protease) in that they contain an N-terminal MATH domain and a C-terminal catalytic protease (C19 family) domain. HAUSP is also an ubiquitin-specific protease that specifically catalyzes the deubiquitylation of p53 and MDM2. The MATH domain of HAUSP contains the binding site for p53 and MDM2. Similarly, the MATH domain of members in this family may be involved in substrate binding.
Probab=99.87 E-value=8.1e-22 Score=201.14 Aligned_cols=126 Identities=27% Similarity=0.525 Sum_probs=109.9
Q ss_pred EEEEEEccccccCCceeecCceEEcCeeEEEEEEECCCCCCCCCcEEEEEEEeCCCCC---CCCCceEEEEEEEEEEecC
Q 000550 94 VCRWTVHNFPRIRARALWSKYFEVGGYDCRLLVYPKGDSQALPGYISIYLQIMDPRGT---SSSKWDCFASYRLAIVNLS 170 (1431)
Q Consensus 94 t~twtI~NFS~lK~ekv~Sp~F~vGG~~WRL~VYP~G~~~~~~~yLSVYLe~~~~~~s---~~s~W~v~a~Fkf~LvNq~ 170 (1431)
+|+|+|+|||.+. +.++|++|.+|||+|+|.+||+|+.. .+|+|+||++.+.... .+.+|.+.|+|+|.|+|+.
T Consensus 2 ~f~w~I~~fS~~~-~~~~S~~F~vGG~~W~l~~yP~G~~~--~~~iSlyL~l~~~~~~~~~~~~~~~v~a~f~~~l~n~~ 78 (134)
T cd03775 2 SFTWRIKNWSELE-KKVHSPKFKCGGFEWRILLFPQGNSQ--TGGVSIYLEPHPEEEEKAPLDEDWSVCAQFALVISNPG 78 (134)
T ss_pred cEEEEECCcccCC-cceeCCCEEECCeeEEEEEeCCCCCC--CCeEEEEEEecCcccccccCCCCCeEEEEEEEEEEcCC
Confidence 6899999999974 78999999999999999999999864 6899999998765411 2568999999999999998
Q ss_pred CCcceEeecceeeecCCCCCCCcCCCccccccccC----cCCceecCCEEEEEEEEE
Q 000550 171 DESKTIHRDSWHRFSSKKKSHGWCDFTPSSTVFDS----KLGYLFNNDAVLITADIL 223 (1431)
Q Consensus 171 g~s~si~k~s~hrFs~~~~~WG~~kFI~~ddL~dp----~~GFL~d~DsLtIea~V~ 223 (1431)
++..++.....|.|+....+|||.+||++++|++| ++|||+| |+|+|+++|+
T Consensus 79 ~~~~~~~~~~~~~F~~~~~~wG~~~fi~~~~L~~~~~~~~~g~l~n-D~l~I~~~~~ 134 (134)
T cd03775 79 DPSIQLSNVAHHRFNAEDKDWGFTRFIELRKLAHRTPDKPSPFLEN-GELNITVYVR 134 (134)
T ss_pred CCccceEccceeEeCCCCCCCChhHcccHHHHcccccCCCCceeEC-CEEEEEEEEC
Confidence 87776766678999987789999999999999955 6799999 9999999884
No 7
>cd00270 MATH_TRAF_C Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link cell surface TNFRs and receptors of the interleukin-1/Toll-like family to downstream kinase signaling cascades which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. There are at least six mammalian and three Drosophila proteins containing TRAF domains. The mammalian TRAFs display varying expression profiles, indicating independent and cell type-specific regulation. They display distinct, as well as overlapping functions and interactions with receptors. Most TRAFs, except TRAF1, share N-terminal homology and contain a RING domain, multiple zinc finger domains, and a TRAF domain. TRAFs form homo- and heterotrimers through its TRAF domain. The TRAF domain can be divided into a more divergent N-ter
Probab=99.85 E-value=3.9e-21 Score=198.56 Aligned_cols=135 Identities=17% Similarity=0.324 Sum_probs=108.6
Q ss_pred cEEEEEEccccccccc---cccCcccCCceecc--CeeEEEEEEEcCCC--CcceEEEEEEecCCCccccCCCcEEEEEE
Q 000550 259 GKFTWKVHNFSLFKEM---IKTQKIMSPVFPAG--ECNLRISVYQSSVN--GQEYLSMCLESKDMEKTVVSDRSCWCLFR 331 (1431)
Q Consensus 259 g~ftwkI~NFS~lke~---~k~eki~Sp~F~vG--Gy~WrI~vYPnG~n--~~~yLSLyL~L~d~e~~~~~~wsv~a~Ft 331 (1431)
|+|+|+|.|||.+++. +.++.++|+.|.+| ||+|+|.+||+|.. ..+||||||++++++.+..++|+++++|+
T Consensus 1 g~~~w~I~~fs~~~~~~~~~~~~~~~S~~F~vg~~G~~w~i~~yP~G~~~~~~~~lsl~L~l~~~~~d~~~~w~~~~~~~ 80 (149)
T cd00270 1 GVLIWKIKDYSRKLQEAVAGSNTVLYSPPFYTSRYGYKLCLRLYLNGDGTGKGTHLSLFVHVMKGEYDALLEWPFRGKIT 80 (149)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCCCCCCEEEEEEEEeccCCCccccCCccceEE
Confidence 6899999999998752 34578999999999 99999999999974 34799999999998887778899999999
Q ss_pred EEEEeCCCC--CCceeec-----ccccccCCCCCCCCCCCCccceeeccccccCCCCcccCCcEEEEEEEE
Q 000550 332 MSVLNQSPG--SNHMHRD-----SYGRFAADNKSGDNTSLGWNDYMKMADFVGHDSGFLVDDTAVFSTSFH 395 (1431)
Q Consensus 332 L~LLNQ~~g--~~~i~r~-----s~~rF~~~~~~~~n~gwG~~kFIk~sdL~d~~sGYLvDDSLiIe~dI~ 395 (1431)
|+|+||..+ .++.... ....|..+..+..+.+|||.+||++++|+ +.|||+||+|+|+|+|.
T Consensus 81 ~~l~d~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~G~~~fi~~~~L~--~~gfl~dD~l~I~~~v~ 149 (149)
T cd00270 81 LTLLDQSDDSKRKHITETFMPDPNSSAFQRPPTGENNIGFGYPEFVPLEKLE--SRGYVKDDTLFIKVEVD 149 (149)
T ss_pred EEEECCCCccccCceEEEEEcCCchHhhcCCCcccCCCCcCcceEeEHHHhc--cCCCEeCCEEEEEEEEC
Confidence 999999743 2332221 12456532222345899999999999998 45999999999999973
No 8
>cd03780 MATH_TRAF5 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF5 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF5 was identified as an activator of nuclear factor-kappaB and a regulator of lymphotoxin-beta receptor and CD40 signaling. Its interaction with CD40 is indirect, involving hetero-oligomerization with TRAF3. In addition, TRAF5 has been shown to associate with other TNFRs including CD27, CD30, OX40 and GITR (glucocorticoid-induced TNFR). It plays a role in modulating Th2 immune responses (driven by OX40 costimulation) and T-cell activation (triggered by GITR). It is also involved in osteoclastogenesis. TRAF5 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more dive
Probab=99.85 E-value=5.7e-21 Score=198.77 Aligned_cols=135 Identities=19% Similarity=0.272 Sum_probs=110.6
Q ss_pred cEEEEEEccccccccc-cccC--cccCCce--eccCeeEEEEEEEcCCC--CcceEEEEEEecCCCccccCCCcEEEEEE
Q 000550 259 GKFTWKVHNFSLFKEM-IKTQ--KIMSPVF--PAGECNLRISVYQSSVN--GQEYLSMCLESKDMEKTVVSDRSCWCLFR 331 (1431)
Q Consensus 259 g~ftwkI~NFS~lke~-~k~e--ki~Sp~F--~vGGy~WrI~vYPnG~n--~~~yLSLyL~L~d~e~~~~~~wsv~a~Ft 331 (1431)
|+|+|+|+|||.+++. ..+. .++|++| .++||+|+|.+||||.+ ..+||||||+++++++|..++||+.++|+
T Consensus 1 g~~vwkI~~ys~~~~~~~~g~~~~i~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wp~~~~~t 80 (148)
T cd03780 1 GKLIWKVTDYKMKKKEAVDGHTVSIFSQPFYTSRCGYRLCARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQWPFRQRVT 80 (148)
T ss_pred CEEEEEECCHHHHHHhhcCCCccEEECCCcccCCCCeeEEEEEEcCCCCCCCCCEEEEEEEEecCccccccCcceEEEEE
Confidence 6899999999998753 3444 6999999 89999999999999975 45799999999999999999999999999
Q ss_pred EEEEeCCCCCCce---eec--ccccccCCCCCCCCCCCCccceeeccccccCCCCcccCCcEEEEEEE
Q 000550 332 MSVLNQSPGSNHM---HRD--SYGRFAADNKSGDNTSLGWNDYMKMADFVGHDSGFLVDDTAVFSTSF 394 (1431)
Q Consensus 332 L~LLNQ~~g~~~i---~r~--s~~rF~~~~~~~~n~gwG~~kFIk~sdL~d~~sGYLvDDSLiIe~dI 394 (1431)
|+||||.....++ ... ....|+++. ..+|.+||+.+||++++|+.++.+||+||+++|+|.|
T Consensus 81 fsLlDq~~~~~~~~~~~~~~~~~~~F~rp~-~~~n~~~G~~~Fi~~~~Le~s~~~ylkdD~~~Ik~~v 147 (148)
T cd03780 81 LMLLDQSGKKNHIMETFKADPNSSSFKRPD-GEMNIASGCPRFVAHSVLENAKNTYIKDDTLFLKVAV 147 (148)
T ss_pred EEEECCCCCCCCcceeeecCCccccccCCC-CCCCCCcChhheeEHHHhhcccCCcCcCCEEEEEEEE
Confidence 9999996332221 111 135687664 3346789999999999998544699999999999976
No 9
>cd03776 MATH_TRAF6 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF6 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF6, including the Drosophila protein DTRAF2. TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF6 is the most divergent in its TRAF domain among the mammalian TRAFs. In addition to mediating TNFR family signaling, it is also an essential signaling molecule of the interleukin-1/Toll-like receptor superfamily. Whereas other TRAF molecules display similar and overlapping TNFR-binding specificities, TRAF6 binds completely different sites on receptors such as CD40 and RANK. TRAF6 serves as a molecular bridge between innate and adaptive immunity and plays a central role in osteoimmunology. DTRAF2, as an activator of nuclear factor-kapp
Probab=99.84 E-value=5.1e-21 Score=198.18 Aligned_cols=135 Identities=21% Similarity=0.361 Sum_probs=107.7
Q ss_pred cEEEEEEcccccccc-ccccCc--ccCCceec--cCeeEEEEEEEcCCC--CcceEEEEEEecCCCccccCCCcEEEEEE
Q 000550 259 GKFTWKVHNFSLFKE-MIKTQK--IMSPVFPA--GECNLRISVYQSSVN--GQEYLSMCLESKDMEKTVVSDRSCWCLFR 331 (1431)
Q Consensus 259 g~ftwkI~NFS~lke-~~k~ek--i~Sp~F~v--GGy~WrI~vYPnG~n--~~~yLSLyL~L~d~e~~~~~~wsv~a~Ft 331 (1431)
|+|+|+|+|||.+++ +..++. ++|++|.+ |||+|+|.+||+|.. ..+|||+||++++++.+..++|+++++|+
T Consensus 1 g~h~~~I~~yS~~~~~~~~g~~~~i~S~~F~~~~gGy~W~i~~yP~G~~~~~~~~lS~~L~l~~~~~d~~l~wpv~a~~~ 80 (147)
T cd03776 1 GIYVWKIKNFSNLRRSMEAGSPVVIHSPGFYTSPPGYKLCARLNLSLPEARCPNYISLFVHLMQGENDSHLDWPFQGTIT 80 (147)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCCCCCCEEEEEEEEeccCCCcccCCcccceeE
Confidence 689999999997654 445553 88999985 799999999999974 35899999999998887778999999999
Q ss_pred EEEEeCCCCCCceee-----cccccccCCCCCCCCCCCCccceeeccccccCCCCcccCCcEEEEEEEE
Q 000550 332 MSVLNQSPGSNHMHR-----DSYGRFAADNKSGDNTSLGWNDYMKMADFVGHDSGFLVDDTAVFSTSFH 395 (1431)
Q Consensus 332 L~LLNQ~~g~~~i~r-----~s~~rF~~~~~~~~n~gwG~~kFIk~sdL~d~~sGYLvDDSLiIe~dI~ 395 (1431)
|+||||.....+... .....|..+....++.+|||.+||++++|+ ..+||+||+++|+|+|.
T Consensus 81 ~~lldq~~~~~~~~~~~~~~~~~~~F~~p~~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~I~c~V~ 147 (147)
T cd03776 81 LTLLDQSEPRQNIHETMMSKPELLAFQRPTTDRNPKGFGYVEFAHIEDLL--QRGFVKNDTLLIKIEVN 147 (147)
T ss_pred EEEECCCcccCccEEEEEcCCChHhhcCCCcCCCCCCeeEceeeEHHHhh--hCCCccCCEEEEEEEEC
Confidence 999999633333211 123467765322345789999999999998 56999999999999973
No 10
>cd03777 MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF3 was first described as a molecule that binds the cytoplasmic tail of CD40. However, it is not required for CD40 signaling. More recently, TRAF3 has been identified as a key regulator of type I interferon (IFN) production and the mammalian innate antiviral immunity. It mediates IFN responses in Toll-like receptor (TLR)-dependent as well as TLR-independent viral recognition pathways. It is also a key element in immunological homeostasis through its regulation of the anti-inflammatory cytokine interleukin-10. TRAF3 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more divergent N-terminal al
Probab=99.84 E-value=9.1e-21 Score=203.90 Aligned_cols=135 Identities=15% Similarity=0.225 Sum_probs=110.9
Q ss_pred CcEEEEEEccccccccc-cccC--cccCCceecc--CeeEEEEEEEcCCC--CcceEEEEEEecCCCccccCCCcEEEEE
Q 000550 258 SGKFTWKVHNFSLFKEM-IKTQ--KIMSPVFPAG--ECNLRISVYQSSVN--GQEYLSMCLESKDMEKTVVSDRSCWCLF 330 (1431)
Q Consensus 258 ~g~ftwkI~NFS~lke~-~k~e--ki~Sp~F~vG--Gy~WrI~vYPnG~n--~~~yLSLyL~L~d~e~~~~~~wsv~a~F 330 (1431)
+|+|+|+|.|||..++. ..+. .++|++|++| ||+|+|.+||||.+ .++|||+||+++++++++.++||+.++|
T Consensus 38 ~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w~i~~ypnG~g~~~~~~iSvyl~L~~ge~D~~L~WP~~~~~ 117 (186)
T cd03777 38 NGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQKV 117 (186)
T ss_pred ceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCCceeEEE
Confidence 59999999999998653 3333 6999999999 99999999999975 4579999999999999999999999999
Q ss_pred EEEEEeCCCCCCceee-----cccccccCCCCCCCCCCCCccceeeccccccCCCCcccCCcEEEEEEEE
Q 000550 331 RMSVLNQSPGSNHMHR-----DSYGRFAADNKSGDNTSLGWNDYMKMADFVGHDSGFLVDDTAVFSTSFH 395 (1431)
Q Consensus 331 tL~LLNQ~~g~~~i~r-----~s~~rF~~~~~~~~n~gwG~~kFIk~sdL~d~~sGYLvDDSLiIe~dI~ 395 (1431)
+|+|+||.++..+... .....|+++. ...|.+||+.+||++++|+ +++||+||+++|+|.|.
T Consensus 118 tfsLlDQ~~~~~~~~~~~~p~p~~~~F~rp~-~~~n~~~G~~~Fi~~~~Le--~~~ylkdD~l~Irv~v~ 184 (186)
T cd03777 118 TLMLMDQGSSRRHLGDAFKPDPNSSSFKKPT-GEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIVD 184 (186)
T ss_pred EEEEEcCCCccccccceeccCCccccccCCc-cCCCCCCCchheeEHHHhc--cCCcEeCCEEEEEEEEe
Confidence 9999999632222211 1235577553 2236789999999999998 68999999999999875
No 11
>cd03774 MATH_SPOP Speckle-type POZ protein (SPOP) family, MATH domain; composed of proteins with similarity to human SPOP. SPOP was isolated as a novel antigen recognized by serum from a scleroderma patient, whose overexpression in COS cells results in a discrete speckled pattern in the nuclei. It contains an N-terminal MATH domain and a C-terminal BTB (also called POZ) domain. Together with Cul3, SPOP constitutes an ubiquitin E3 ligase which is able to ubiquitinate the PcG protein BMI1, the variant histone macroH2A1 and the death domain-associated protein Daxx. Therefore, SPOP may be involved in the regulation of these proteins and may play a role in transcriptional regulation, apoptosis and X-chromosome inactivation. Cul3 binds to the BTB domain of SPOP whereas Daxx and the macroH2A1 nonhistone region have been shown to bind to the MATH domain. Both MATH and BTB domains are necessary for the nuclear speckled accumulation of SPOP. There are many proteins, mostly uncharacterized, conta
Probab=99.84 E-value=2.3e-20 Score=191.19 Aligned_cols=130 Identities=27% Similarity=0.493 Sum_probs=107.9
Q ss_pred ccEEEEEEcccccchhhhhccccCCceecCCcEEEccc---eEEEEEEeCCCCC-CCCcEEEEEEEccCCCCCCCCeEEE
Q 000550 425 MGKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNR---DCRLIVYPRGQSQ-PPCHLSVFLEVMDSRNTSSDWSCFV 500 (1431)
Q Consensus 425 ~~~~twkI~NFS~lkemlk~~K~~Ge~i~S~~F~vGG~---~WRL~vYP~G~~~-~~~yLSLYL~l~d~~~~~~~WsV~a 500 (1431)
..+|+|+|+|||.+++ ..|+++.|++|.+||| +|+|.+||+|+.. ..+|+||||++.+. ..|+++|
T Consensus 4 ~~~~~w~I~~fS~~~~------~~~~~i~S~~F~vgg~~~~~W~l~~yP~G~~~~~~~~iSlyL~l~~~----~~~~v~a 73 (139)
T cd03774 4 KFCYMWTISNFSFCRE------EMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSC----PKSEVRA 73 (139)
T ss_pred EEEEEEEECCchhhhh------cCCCEEECCCeecCCcCCceEEEEEeCCCCCCCCCCeEEEEEEEccC----CCCcEEE
Confidence 4689999999999864 1377999999999985 9999999999754 46899999999753 2468999
Q ss_pred EEEEEEEeCCCCcee-EEecccccccccCcCccccccccccccccCCCCCccCCEEEEEEEEEEEc
Q 000550 501 SHRLSVVNQKMEEKS-VTKESQNRYSKAAKDWGWREFVTLTSLFDQDSGFLVQDTVVFSAEVLILK 565 (1431)
Q Consensus 501 ~FkL~LvNq~g~~~S-v~k~~~~~F~~~~~~WG~~kFI~lsdL~dpesGYLvDDsLtIe~eV~Vlk 565 (1431)
+|+|+|+|++++... ......+.|.. ..+|||.+||++++|.++.+|||+||+++|+|+|+|++
T Consensus 74 ~f~~~l~n~~~~~~~~~~~~~~~~f~~-~~~wG~~~fi~~~~L~~~~~g~l~dD~l~I~c~I~V~~ 138 (139)
T cd03774 74 KFKFSILNAKGEETKAMESQRAYRFVQ-GKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQ 138 (139)
T ss_pred EEEEEEEecCCCeeeeecccCcEeCCC-CCccCHHHeeeHHHhhhhhcccccCCEEEEEEEEEEEc
Confidence 999999999986532 22223467754 57899999999999987778999999999999999985
No 12
>cd03779 MATH_TRAF1 Tumor Necrosis Factor Receptor (TNFR) Associated Factor (TRAF) family, TRAF1 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF1 expression is the most restricted among the TRAFs. It is found exclusively in activated lymphocytes, dendritic cells and certain epithelia. TRAF1 associates, directly or indirectly through heterodimerization with TRAF2, with the TNFR family receptors TNFR-2, CD30, RANK, CD40 and LMP1, among others. It also binds the intracellular proteins TRADD, TANK, TRIP, RIP1, RIP2 and FLIP. TRAF1 is unique among the TRAFs in that it lacks a RING domain, which is critical for the activation of nuclear factor-kappaB and Jun NH2-terminal kinase. Studies on TRAF1-deficient mice suggest that TRAF1 has a negative regulatory role in TNFR-mediat
Probab=99.83 E-value=1.8e-20 Score=194.60 Aligned_cols=134 Identities=16% Similarity=0.244 Sum_probs=108.6
Q ss_pred cEEEEEEcccccccccc---ccCcccCCceecc--CeeEEEEEEEcCCC--CcceEEEEEEecCCCccccCCCcEEEEEE
Q 000550 259 GKFTWKVHNFSLFKEMI---KTQKIMSPVFPAG--ECNLRISVYQSSVN--GQEYLSMCLESKDMEKTVVSDRSCWCLFR 331 (1431)
Q Consensus 259 g~ftwkI~NFS~lke~~---k~eki~Sp~F~vG--Gy~WrI~vYPnG~n--~~~yLSLyL~L~d~e~~~~~~wsv~a~Ft 331 (1431)
|+|+|+|+||+...+.. ....++||.|+.+ ||+|+|.+||||.+ ..+|||+||++++++++..++|++.++|+
T Consensus 1 g~~~W~i~~f~~~~~~a~~~~~~~~~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wpv~~~~t 80 (147)
T cd03779 1 GTFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKVCLRLYLNGDGAGKGTHISLFFVIMKGEYDALLPWPFRHKVT 80 (147)
T ss_pred CeEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCcceEEEEE
Confidence 68999999999765432 2347999999876 99999999999975 45799999999999999999999999999
Q ss_pred EEEEeCCCCCCce---eecc--cccccCCCCCCCCCCCCccceeeccccccCCCCcccCCcEEEEEEE
Q 000550 332 MSVLNQSPGSNHM---HRDS--YGRFAADNKSGDNTSLGWNDYMKMADFVGHDSGFLVDDTAVFSTSF 394 (1431)
Q Consensus 332 L~LLNQ~~g~~~i---~r~s--~~rF~~~~~~~~n~gwG~~kFIk~sdL~d~~sGYLvDDSLiIe~dI 394 (1431)
|+||||. +..+. .... .+.|++++ ...|.+||+.+||++++|+.+..+||+||+++|+|+|
T Consensus 81 fsLlDq~-~~~~~~~~~~~~~~~~~F~rP~-~~~n~~~G~~~Fi~~~~Le~s~~~ylkDD~~~Irc~V 146 (147)
T cd03779 81 FMLLDQN-NREHVIDAFRPDLSSASFQRPV-SDMNVASGCPLFFPLKKLQSPKHAYCKDDTIYIKCVV 146 (147)
T ss_pred EEEECCC-CCCCCcEeecCCcccccccCcc-cCCCCCcchhheeEHHHhcccCCCcEeCCEEEEEEEE
Confidence 9999996 43332 1111 25687664 2345689999999999998433499999999999997
No 13
>cd03781 MATH_TRAF4 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF4 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF4, including the Drosophila protein DTRAF1. TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF4 is highly expressed during embryogenesis, especially in the central and peripheral nervous system. Studies using TRAF4-deficient mice show that TRAF4 is required for neurogenesis, as well as the development of the trachea and the axial skeleton. In addition, TRAF4 augments nuclear factor-kappaB activation triggered by GITR (glucocorticoid-induced TNFR), a receptor expressed in T-cells, B-cells and macrophages. It also participates in counteracting the signaling mediated by Toll-like receptors through its association with TRAF6 and TR
Probab=99.83 E-value=2.2e-20 Score=195.42 Aligned_cols=134 Identities=17% Similarity=0.320 Sum_probs=108.4
Q ss_pred cEEEEEEccccccccc--c-ccCcccCCceecc--CeeEEEEEEEcCCC--CcceEEEEEEecCCCccccCCCcEEEEEE
Q 000550 259 GKFTWKVHNFSLFKEM--I-KTQKIMSPVFPAG--ECNLRISVYQSSVN--GQEYLSMCLESKDMEKTVVSDRSCWCLFR 331 (1431)
Q Consensus 259 g~ftwkI~NFS~lke~--~-k~eki~Sp~F~vG--Gy~WrI~vYPnG~n--~~~yLSLyL~L~d~e~~~~~~wsv~a~Ft 331 (1431)
|+|.|+|+|||.++++ . .++.+.|+.|++| ||+|+|.+||||.. ..+|||+||++++++.+..++|+++++|+
T Consensus 1 g~~~~~I~gys~~~~~~~~~~~~~i~S~~F~vg~~Gy~w~i~~yPnG~~~~~~~~vs~~l~l~~ge~d~~l~wp~~a~~~ 80 (154)
T cd03781 1 GTLLWKITDYSRKLQEAKGRDNLELFSPPFYTHRYGYKLQVSAFLNGNGSGEGSHLSVYIRVLPGEYDNLLEWPFSHRIT 80 (154)
T ss_pred CEEEEEECCHHHHHHHhhcCCCceEECCCeecCCCCEEEEEEEECCCCCCCCCCEEEEEEEEecCCcccccCCceeeEEE
Confidence 6899999999998764 2 3578999999999 99999999999964 45899999999998888777999999999
Q ss_pred EEEEeCCCC--C--Cceeec-----ccccccCCCC---CCCCCCCCccceeeccccccCCCCcccCCcEEEEEEE
Q 000550 332 MSVLNQSPG--S--NHMHRD-----SYGRFAADNK---SGDNTSLGWNDYMKMADFVGHDSGFLVDDTAVFSTSF 394 (1431)
Q Consensus 332 L~LLNQ~~g--~--~~i~r~-----s~~rF~~~~~---~~~n~gwG~~kFIk~sdL~d~~sGYLvDDSLiIe~dI 394 (1431)
|+||||..+ . .++... ....|+.+.. ...+.+|||.+||++++|+ ++|||+||+++|+|+|
T Consensus 81 ~~llDq~~~~~~~~~~~~~~~~~~~~~~~F~rp~~~~~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~Irc~v 153 (154)
T cd03781 81 FTLLDQSDPSLSKPQHITETFTPDPTWKNFQKPSASRLDESTLGFGYPKFISHEDLK--KRNYIKDDAIFLRASV 153 (154)
T ss_pred EEEECCCCCccccCcceEEEEEcCCchhhhcCCcccccCCCCCccchhHeeEHHHHh--hCCcccCCEEEEEEEe
Confidence 999999633 1 122111 1345665431 1235689999999999998 6799999999999997
No 14
>cd03771 MATH_Meprin Meprin family, MATH domain; Meprins are multidomain, highly glycosylated extracellular metalloproteases, which are either anchored to the membrane or secreted into extracellular spaces. They are expressed in renal and intestinal brush border membranes, leukocytes, and cancer cells, and are capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. Meprin proteases are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. Despite their similarity, the two subunits differ in their ability to self-associate, in proteolytic processing during biosynthesis and in substrate specificity. Both subunits are synthesized as membrane spanning proteins, however, the alpha subunit is cleaved during biosynthesis and loses its transmembrane domain. Meprin beta forms homodimers or heterotetramers while meprin alpha oligomerizes into large complexes co
Probab=99.83 E-value=3.8e-20 Score=195.73 Aligned_cols=136 Identities=21% Similarity=0.350 Sum_probs=110.1
Q ss_pred CcEEEEEEccccccc-cccccCcccCCce-eccCeeEEEEEEEcCCC-CcceEEEEEEecCCCccccCCCcE-EEEEEEE
Q 000550 258 SGKFTWKVHNFSLFK-EMIKTQKIMSPVF-PAGECNLRISVYQSSVN-GQEYLSMCLESKDMEKTVVSDRSC-WCLFRMS 333 (1431)
Q Consensus 258 ~g~ftwkI~NFS~lk-e~~k~eki~Sp~F-~vGGy~WrI~vYPnG~n-~~~yLSLyL~L~d~e~~~~~~wsv-~a~FtL~ 333 (1431)
|++|+|+|.|||.++ +.+.+..++|++| .+|||+|+|.+||||.. ..+||||||++++++.+..++|++ +++|+|+
T Consensus 1 cp~hvwkI~~yS~~~~~~~~g~~i~S~~FysvgGy~w~I~~YPnG~~~~~~~lSlyL~L~~g~~d~~L~WP~v~a~~t~~ 80 (167)
T cd03771 1 CPEAVWRVRNFSQLLETTPKGTKIYSPRFYSPEGYAFQVGLYPNGTESYPGYTGLYFHLCSGENDDVLEWPCPNRQATMT 80 (167)
T ss_pred CCeEEEEEcCchhhhhcCCCCCEEECCCCCccCCeEEEEEEEeCCCCCCCCcceEEEEEecCCccccccCcceeEEEEEE
Confidence 468999999999986 5566789999998 89999999999999975 457999999999999988899995 8999999
Q ss_pred EEeCCCC---CCceeec------------ccccccCCCC--------C----CCCCCCCccceeeccccccCCCCcccCC
Q 000550 334 VLNQSPG---SNHMHRD------------SYGRFAADNK--------S----GDNTSLGWNDYMKMADFVGHDSGFLVDD 386 (1431)
Q Consensus 334 LLNQ~~g---~~~i~r~------------s~~rF~~~~~--------~----~~n~gwG~~kFIk~sdL~d~~sGYLvDD 386 (1431)
||||.++ ..+.++. ....|++|.+ + .++.+|||..||++++|. ..+||+||
T Consensus 81 LlDQ~~~~~~r~~~~~~~~~dp~~~~~~~~~~~~~rP~~~~~~~~~~~~~~~~~~~g~G~~~Fis~~~L~--~r~ylk~d 158 (167)
T cd03771 81 LLDQDPDIQQRMSNQRSFTTDPSMTSSDNGEYFWDRPSKVGSYDTDTNGCTCYRGPGYGWSTFISHSRLR--RRDFLKGD 158 (167)
T ss_pred EECCCCcccccCcceEEEecCCcccccccccccccCCccccccccccccccccccCccccccceeHHHhc--cCCCCcCC
Confidence 9999642 1222220 1123666531 1 256799999999999999 57899999
Q ss_pred cEEEEEEEE
Q 000550 387 TAVFSTSFH 395 (1431)
Q Consensus 387 SLiIe~dI~ 395 (1431)
+|+|+++++
T Consensus 159 tl~i~~~~~ 167 (167)
T cd03771 159 DLIILLDFE 167 (167)
T ss_pred EEEEEEEeC
Confidence 999999863
No 15
>cd03778 MATH_TRAF2 Tumor Necrosis Factor Receptor (TNFR) Associated Factor (TRAF) family, TRAF2 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF2 associates with the receptors TNFR-1, TNFR-2, RANK (which mediates differentiation and maturation of osteoclasts) and CD40 (which is important for the proliferation and activation of B cells), among others. It regulates distinct pathways that lead to the activation of nuclear factor-kappaB and Jun NH2-terminal kinases. TRAF2 also indirectly associates with death receptors through its interaction with TRADD (TNFR-associated death domain protein). It is involved in regulating oxidative stress or ROS-induced cell death and in the preconditioning of cells by sublethal stress for protection from subsequent injury. TRAF2 contains a RING finger domain, five z
Probab=99.82 E-value=7.5e-20 Score=192.52 Aligned_cols=134 Identities=15% Similarity=0.261 Sum_probs=111.0
Q ss_pred CcEEEEEEcccccccccc---ccCcccCCceecc--CeeEEEEEEEcCCC--CcceEEEEEEecCCCccccCCCcEEEEE
Q 000550 258 SGKFTWKVHNFSLFKEMI---KTQKIMSPVFPAG--ECNLRISVYQSSVN--GQEYLSMCLESKDMEKTVVSDRSCWCLF 330 (1431)
Q Consensus 258 ~g~ftwkI~NFS~lke~~---k~eki~Sp~F~vG--Gy~WrI~vYPnG~n--~~~yLSLyL~L~d~e~~~~~~wsv~a~F 330 (1431)
+|+|+|+|+|||.+.+.. ....++||.|+.+ ||+|++.+||||++ .+.|||+|+++++++++..++||++.++
T Consensus 18 ~g~fiWkI~~fs~~~~~a~~~~~~~i~Sp~Fyt~~~GYk~~l~~ylnG~g~~~g~~LSly~~l~~Ge~D~~L~WPf~~~i 97 (164)
T cd03778 18 DGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQKV 97 (164)
T ss_pred CCEEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCeEEEEEEEeCCCCCCCCCEEEEEEEEecCCcCcccCCceeeEE
Confidence 699999999999976543 2348999999765 89999999999975 3579999999999999999999999999
Q ss_pred EEEEEeCCCCCCceeec-----ccccccCCCCCCCCCCCCccceeeccccccCCCCcccCCcEEEEEEE
Q 000550 331 RMSVLNQSPGSNHMHRD-----SYGRFAADNKSGDNTSLGWNDYMKMADFVGHDSGFLVDDTAVFSTSF 394 (1431)
Q Consensus 331 tL~LLNQ~~g~~~i~r~-----s~~rF~~~~~~~~n~gwG~~kFIk~sdL~d~~sGYLvDDSLiIe~dI 394 (1431)
+|.|+||. +..|+... ....|+++. ..+|.+|||..||++++|..+ .||++||++.|+|.|
T Consensus 98 tl~llDQ~-~r~hi~~~~~pd~~~~~f~RP~-~~~n~~~G~~~Fv~l~~l~~~-~~Yv~dDtlfIk~~V 163 (164)
T cd03778 98 TLMLLDQN-NREHVIDAFRPDVTSSSFQRPV-NDMNIASGCPLFCPVSKXEAK-NSYVRDDAIFIKAIV 163 (164)
T ss_pred EEEEECCC-CCCcceeEEEcCcchHhcCCCC-cccccCcCcceEEEhhHcccc-CCcccCCeEEEEEEE
Confidence 99999996 44555332 122476664 456788999999999999853 699999999999976
No 16
>cd03774 MATH_SPOP Speckle-type POZ protein (SPOP) family, MATH domain; composed of proteins with similarity to human SPOP. SPOP was isolated as a novel antigen recognized by serum from a scleroderma patient, whose overexpression in COS cells results in a discrete speckled pattern in the nuclei. It contains an N-terminal MATH domain and a C-terminal BTB (also called POZ) domain. Together with Cul3, SPOP constitutes an ubiquitin E3 ligase which is able to ubiquitinate the PcG protein BMI1, the variant histone macroH2A1 and the death domain-associated protein Daxx. Therefore, SPOP may be involved in the regulation of these proteins and may play a role in transcriptional regulation, apoptosis and X-chromosome inactivation. Cul3 binds to the BTB domain of SPOP whereas Daxx and the macroH2A1 nonhistone region have been shown to bind to the MATH domain. Both MATH and BTB domains are necessary for the nuclear speckled accumulation of SPOP. There are many proteins, mostly uncharacterized, conta
Probab=99.82 E-value=1e-19 Score=186.41 Aligned_cols=129 Identities=24% Similarity=0.414 Sum_probs=107.6
Q ss_pred ceEEEEEEccccccC---CceeecCceEEcCe---eEEEEEEECCCCCCCCCcEEEEEEEeCCCCCCCCCceEEEEEEEE
Q 000550 92 SAVCRWTVHNFPRIR---ARALWSKYFEVGGY---DCRLLVYPKGDSQALPGYISIYLQIMDPRGTSSSKWDCFASYRLA 165 (1431)
Q Consensus 92 ~at~twtI~NFS~lK---~ekv~Sp~F~vGG~---~WRL~VYP~G~~~~~~~yLSVYLe~~~~~~s~~s~W~v~a~Fkf~ 165 (1431)
.-+|+|+|+|||.++ ++.+.|++|.+||+ +|+|++||+|+..+..+|+|+||++.... .|.+.|+|+|.
T Consensus 4 ~~~~~w~I~~fS~~~~~~~~~i~S~~F~vgg~~~~~W~l~~yP~G~~~~~~~~iSlyL~l~~~~-----~~~v~a~f~~~ 78 (139)
T cd03774 4 KFCYMWTISNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSCP-----KSEVRAKFKFS 78 (139)
T ss_pred EEEEEEEECCchhhhhcCCCEEECCCeecCCcCCceEEEEEeCCCCCCCCCCeEEEEEEEccCC-----CCcEEEEEEEE
Confidence 458999999999874 36899999999995 99999999998655678999999986432 36799999999
Q ss_pred EEecCCCcce-EeecceeeecCCCCCCCcCCCccccccccCcCCceecCCEEEEEEEEEEecC
Q 000550 166 IVNLSDESKT-IHRDSWHRFSSKKKSHGWCDFTPSSTVFDSKLGYLFNNDAVLITADILILNE 227 (1431)
Q Consensus 166 LvNq~g~s~s-i~k~s~hrFs~~~~~WG~~kFI~~ddL~dp~~GFL~d~DsLtIea~V~Vlke 227 (1431)
|+|++++... ......+.|.. ..+|||.+||++++|.++.+|||.| |+++|+|+|+|+++
T Consensus 79 l~n~~~~~~~~~~~~~~~~f~~-~~~wG~~~fi~~~~L~~~~~g~l~d-D~l~I~c~I~V~~~ 139 (139)
T cd03774 79 ILNAKGEETKAMESQRAYRFVQ-GKDWGFKKFIRRDFLLDEANGLLPD-DKLTLFCEVSVVQD 139 (139)
T ss_pred EEecCCCeeeeecccCcEeCCC-CCccCHHHeeeHHHhhhhhcccccC-CEEEEEEEEEEEcC
Confidence 9999875432 23334577865 4799999999999998878899999 99999999999863
No 17
>cd03773 MATH_TRIM37 Tripartite motif containing protein 37 (TRIM37) family, MATH domain; TRIM37 is a peroxisomal protein and is a member of the tripartite motif (TRIM) protein subfamily, also known as the RING-B-box-coiled-coil (RBCC) subfamily of zinc-finger proteins. Mutations in the human TRIM37 gene (also known as MUL) cause Mulibrey (muscle-liver-brain-eye) nanism, a rare growth disorder of prenatal onset characterized by dysmorphic features, pericardial constriction and hepatomegaly. TRIM37, similar to other TRIMs, contains a cysteine-rich, zinc-binding RING-finger domain followed by another cysteine-rich zinc-binding domain, the B-box, and a coiled-coil domain. TRIM37 is autoubiquitinated in a RING domain-dependent manner, indicating that it functions as an ubiquitin E3 ligase. In addition to the tripartite motif, TRIM37 also contains a MATH domain C-terminal to the coiled-coil domain. The MATH domain of TRIM37 has been shown to interact with the TRAF domain of six known TRAFs i
Probab=99.81 E-value=9.9e-20 Score=184.32 Aligned_cols=125 Identities=26% Similarity=0.448 Sum_probs=105.3
Q ss_pred CccEEEEEEcccccchhhhhccccCCceecCCcEEEccceEEEEEEeCCCCC-CCCcEEEEEEEccCCCCCCCCeEEEEE
Q 000550 424 HMGKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQ-PPCHLSVFLEVMDSRNTSSDWSCFVSH 502 (1431)
Q Consensus 424 ~~~~~twkI~NFS~lkemlk~~K~~Ge~i~S~~F~vGG~~WRL~vYP~G~~~-~~~yLSLYL~l~d~~~~~~~WsV~a~F 502 (1431)
...+++|+|+|||.+++ .|++++|+.|.+|||+|+|.+||+|+.. .++|||+||++.+. ..|.+.++|
T Consensus 3 ~~~~~~~~I~~fS~~~~-------~~~~~~S~~F~vgG~~W~i~~yP~G~~~~~~~~lSl~L~l~~~----~~~~~~~~~ 71 (132)
T cd03773 3 PYDSATFTLENFSTLRQ-------SADPVYSDPLNVDGLCWRLKVYPDGNGEVRGNFLSVFLELCSG----LGEASKYEY 71 (132)
T ss_pred CCcccEEEECChhhhhc-------CCcceeCCCeEeCCccEEEEEECCCCCCCCCCEEEEEEEeecC----CCCceeEEE
Confidence 35779999999999864 2678999999999999999999999865 36899999998763 246788999
Q ss_pred EEEEEeCCCCceeEEecccccccccCcCccccccccccccccCCCCCccC--CEEEEEEEEE
Q 000550 503 RLSVVNQKMEEKSVTKESQNRYSKAAKDWGWREFVTLTSLFDQDSGFLVQ--DTVVFSAEVL 562 (1431)
Q Consensus 503 kL~LvNq~g~~~Sv~k~~~~~F~~~~~~WG~~kFI~lsdL~dpesGYLvD--DsLtIe~eV~ 562 (1431)
+|+|+||.++..++.+...+.|.. ..+|||.+||++++|.+ +|||+| |+++|+|.|.
T Consensus 72 ~l~llnq~~~~~~~~~~~~~~f~~-~~~wG~~~Fi~~~~L~~--~gfl~~~~D~l~i~~~v~ 130 (132)
T cd03773 72 RVEMVHQANPTKNIKREFASDFEV-GECWGYNRFFRLDLLIN--EGYLLPENDTLILRFSVR 130 (132)
T ss_pred EEEEEcCCCCccceEEeccccccC-CCCcCHHHhccHHHHhh--CCCcCCCCCEEEEEEEEe
Confidence 999999965555666666778864 56899999999999964 799999 9999999985
No 18
>cd03773 MATH_TRIM37 Tripartite motif containing protein 37 (TRIM37) family, MATH domain; TRIM37 is a peroxisomal protein and is a member of the tripartite motif (TRIM) protein subfamily, also known as the RING-B-box-coiled-coil (RBCC) subfamily of zinc-finger proteins. Mutations in the human TRIM37 gene (also known as MUL) cause Mulibrey (muscle-liver-brain-eye) nanism, a rare growth disorder of prenatal onset characterized by dysmorphic features, pericardial constriction and hepatomegaly. TRIM37, similar to other TRIMs, contains a cysteine-rich, zinc-binding RING-finger domain followed by another cysteine-rich zinc-binding domain, the B-box, and a coiled-coil domain. TRIM37 is autoubiquitinated in a RING domain-dependent manner, indicating that it functions as an ubiquitin E3 ligase. In addition to the tripartite motif, TRIM37 also contains a MATH domain C-terminal to the coiled-coil domain. The MATH domain of TRIM37 has been shown to interact with the TRAF domain of six known TRAFs i
Probab=99.81 E-value=1.1e-19 Score=183.85 Aligned_cols=124 Identities=19% Similarity=0.356 Sum_probs=103.1
Q ss_pred cCcEEEEEEccccccccccccCcccCCceeccCeeEEEEEEEcCCC--CcceEEEEEEecCCCccccCCCcEEEEEEEEE
Q 000550 257 LSGKFTWKVHNFSLFKEMIKTQKIMSPVFPAGECNLRISVYQSSVN--GQEYLSMCLESKDMEKTVVSDRSCWCLFRMSV 334 (1431)
Q Consensus 257 ~~g~ftwkI~NFS~lke~~k~eki~Sp~F~vGGy~WrI~vYPnG~n--~~~yLSLyL~L~d~e~~~~~~wsv~a~FtL~L 334 (1431)
.+++++|+|+|||.+++ .++.++|++|.+|||+|+|.+||+|.. ..+|||+||+++++. .|+++++|+|+|
T Consensus 3 ~~~~~~~~I~~fS~~~~--~~~~~~S~~F~vgG~~W~i~~yP~G~~~~~~~~lSl~L~l~~~~-----~~~~~~~~~l~l 75 (132)
T cd03773 3 PYDSATFTLENFSTLRQ--SADPVYSDPLNVDGLCWRLKVYPDGNGEVRGNFLSVFLELCSGL-----GEASKYEYRVEM 75 (132)
T ss_pred CCcccEEEECChhhhhc--CCcceeCCCeEeCCccEEEEEECCCCCCCCCCEEEEEEEeecCC-----CCceeEEEEEEE
Confidence 35789999999999865 357899999999999999999999974 358999999997642 467889999999
Q ss_pred EeCCCCCCceeecccccccCCCCCCCCCCCCccceeeccccccCCCCcccC--CcEEEEEEEE
Q 000550 335 LNQSPGSNHMHRDSYGRFAADNKSGDNTSLGWNDYMKMADFVGHDSGFLVD--DTAVFSTSFH 395 (1431)
Q Consensus 335 LNQ~~g~~~i~r~s~~rF~~~~~~~~n~gwG~~kFIk~sdL~d~~sGYLvD--DSLiIe~dI~ 395 (1431)
+||.....+..+...++|... .+|||.+||++++|. ++|||+| |+|+|+|.|.
T Consensus 76 lnq~~~~~~~~~~~~~~f~~~------~~wG~~~Fi~~~~L~--~~gfl~~~~D~l~i~~~v~ 130 (132)
T cd03773 76 VHQANPTKNIKREFASDFEVG------ECWGYNRFFRLDLLI--NEGYLLPENDTLILRFSVR 130 (132)
T ss_pred EcCCCCccceEEeccccccCC------CCcCHHHhccHHHHh--hCCCcCCCCCEEEEEEEEe
Confidence 999534455555556778542 679999999999997 5799999 9999999974
No 19
>cd00270 MATH_TRAF_C Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link cell surface TNFRs and receptors of the interleukin-1/Toll-like family to downstream kinase signaling cascades which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. There are at least six mammalian and three Drosophila proteins containing TRAF domains. The mammalian TRAFs display varying expression profiles, indicating independent and cell type-specific regulation. They display distinct, as well as overlapping functions and interactions with receptors. Most TRAFs, except TRAF1, share N-terminal homology and contain a RING domain, multiple zinc finger domains, and a TRAF domain. TRAFs form homo- and heterotrimers through its TRAF domain. The TRAF domain can be divided into a more divergent N-ter
Probab=99.81 E-value=1.4e-19 Score=187.11 Aligned_cols=132 Identities=23% Similarity=0.430 Sum_probs=104.9
Q ss_pred cEEEEEEcccccchhhhhccccCCceecCCcEEEc--cceEEEEEEeCCCCC-CCCcEEEEEEEccCCCC-CCCCeEEEE
Q 000550 426 GKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIG--NRDCRLIVYPRGQSQ-PPCHLSVFLEVMDSRNT-SSDWSCFVS 501 (1431)
Q Consensus 426 ~~~twkI~NFS~lkemlk~~K~~Ge~i~S~~F~vG--G~~WRL~vYP~G~~~-~~~yLSLYL~l~d~~~~-~~~WsV~a~ 501 (1431)
++|+|+|+|||.+++.+ ....|++++|+.|.+| ||+|+|++||+|... ..+||||||++.+.... ...|++.++
T Consensus 1 g~~~w~I~~fs~~~~~~--~~~~~~~~~S~~F~vg~~G~~w~i~~yP~G~~~~~~~~lsl~L~l~~~~~d~~~~w~~~~~ 78 (149)
T cd00270 1 GVLIWKIKDYSRKLQEA--VAGSNTVLYSPPFYTSRYGYKLCLRLYLNGDGTGKGTHLSLFVHVMKGEYDALLEWPFRGK 78 (149)
T ss_pred CEEEEEECCHHHHHHHH--hcCCCceEECCCcccCCCCceEEEEEEeCCCCCCCCCEEEEEEEEeccCCCccccCCccce
Confidence 57999999999987521 1224678999999999 999999999999855 36799999999876432 467999999
Q ss_pred EEEEEEeCCCC--ceeEEec-----cccccc-----ccCcCccccccccccccccCCCCCccCCEEEEEEEE
Q 000550 502 HRLSVVNQKME--EKSVTKE-----SQNRYS-----KAAKDWGWREFVTLTSLFDQDSGFLVQDTVVFSAEV 561 (1431)
Q Consensus 502 FkL~LvNq~g~--~~Sv~k~-----~~~~F~-----~~~~~WG~~kFI~lsdL~dpesGYLvDDsLtIe~eV 561 (1431)
|+|+|+||.++ .++..+. ..+.|. ....+|||.+||++++|.+ +|||+||+|+|+|+|
T Consensus 79 ~~~~l~d~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~G~~~fi~~~~L~~--~gfl~dD~l~I~~~v 148 (149)
T cd00270 79 ITLTLLDQSDDSKRKHITETFMPDPNSSAFQRPPTGENNIGFGYPEFVPLEKLES--RGYVKDDTLFIKVEV 148 (149)
T ss_pred EEEEEECCCCccccCceEEEEEcCCchHhhcCCCcccCCCCcCcceEeEHHHhcc--CCCEeCCEEEEEEEE
Confidence 99999999874 2332222 124564 1357899999999999974 599999999999998
No 20
>cd03776 MATH_TRAF6 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF6 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF6, including the Drosophila protein DTRAF2. TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF6 is the most divergent in its TRAF domain among the mammalian TRAFs. In addition to mediating TNFR family signaling, it is also an essential signaling molecule of the interleukin-1/Toll-like receptor superfamily. Whereas other TRAF molecules display similar and overlapping TNFR-binding specificities, TRAF6 binds completely different sites on receptors such as CD40 and RANK. TRAF6 serves as a molecular bridge between innate and adaptive immunity and plays a central role in osteoimmunology. DTRAF2, as an activator of nuclear factor-kapp
Probab=99.78 E-value=5.5e-19 Score=183.08 Aligned_cols=131 Identities=23% Similarity=0.445 Sum_probs=103.4
Q ss_pred cEEEEEEcccccchhhhhccccCCc--eecCCcEEE--ccceEEEEEEeCCCCCC-CCcEEEEEEEccCCC-CCCCCeEE
Q 000550 426 GKFTWRIENFTRLKDLLKKRKITGL--CIKSRRFQI--GNRDCRLIVYPRGQSQP-PCHLSVFLEVMDSRN-TSSDWSCF 499 (1431)
Q Consensus 426 ~~~twkI~NFS~lkemlk~~K~~Ge--~i~S~~F~v--GG~~WRL~vYP~G~~~~-~~yLSLYL~l~d~~~-~~~~WsV~ 499 (1431)
++|.|+|.|||.+++.+ ..|+ .++|+.|.+ |||+|+|.+||+|...+ .+|||+||++.+... ....|++.
T Consensus 1 g~h~~~I~~yS~~~~~~----~~g~~~~i~S~~F~~~~gGy~W~i~~yP~G~~~~~~~~lS~~L~l~~~~~d~~l~wpv~ 76 (147)
T cd03776 1 GIYVWKIKNFSNLRRSM----EAGSPVVIHSPGFYTSPPGYKLCARLNLSLPEARCPNYISLFVHLMQGENDSHLDWPFQ 76 (147)
T ss_pred CEEEEEECCHHHHHHHH----hcCCCceEECCCcccCCCCceEEEEEEeCCCCCCCCCEEEEEEEEeccCCCcccCCccc
Confidence 57999999999865421 2356 488999996 79999999999998754 689999999987543 24579999
Q ss_pred EEEEEEEEeCCCCceeEEe-----cccccccc-----cCcCccccccccccccccCCCCCccCCEEEEEEEEE
Q 000550 500 VSHRLSVVNQKMEEKSVTK-----ESQNRYSK-----AAKDWGWREFVTLTSLFDQDSGFLVQDTVVFSAEVL 562 (1431)
Q Consensus 500 a~FkL~LvNq~g~~~Sv~k-----~~~~~F~~-----~~~~WG~~kFI~lsdL~dpesGYLvDDsLtIe~eV~ 562 (1431)
++|+|.|+||.++..++.. ...+.|.. .+.+|||.+||++++|+. ++||+||+++|+|+|.
T Consensus 77 a~~~~~lldq~~~~~~~~~~~~~~~~~~~F~~p~~~~~~~~~G~~~fi~~~~Le~--~~yl~dD~l~I~c~V~ 147 (147)
T cd03776 77 GTITLTLLDQSEPRQNIHETMMSKPELLAFQRPTTDRNPKGFGYVEFAHIEDLLQ--RGFVKNDTLLIKIEVN 147 (147)
T ss_pred ceeEEEEECCCcccCccEEEEEcCCChHhhcCCCcCCCCCCeeEceeeEHHHhhh--CCCccCCEEEEEEEEC
Confidence 9999999999975443211 22346753 346799999999999964 6899999999999983
No 21
>cd03780 MATH_TRAF5 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF5 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF5 was identified as an activator of nuclear factor-kappaB and a regulator of lymphotoxin-beta receptor and CD40 signaling. Its interaction with CD40 is indirect, involving hetero-oligomerization with TRAF3. In addition, TRAF5 has been shown to associate with other TNFRs including CD27, CD30, OX40 and GITR (glucocorticoid-induced TNFR). It plays a role in modulating Th2 immune responses (driven by OX40 costimulation) and T-cell activation (triggered by GITR). It is also involved in osteoclastogenesis. TRAF5 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more dive
Probab=99.76 E-value=2.6e-18 Score=178.97 Aligned_cols=132 Identities=20% Similarity=0.329 Sum_probs=106.3
Q ss_pred cEEEEEEcccccchhhhhccccCCc--eecCCcE--EEccceEEEEEEeCCCCCC-CCcEEEEEEEccCCCC-CCCCeEE
Q 000550 426 GKFTWRIENFTRLKDLLKKRKITGL--CIKSRRF--QIGNRDCRLIVYPRGQSQP-PCHLSVFLEVMDSRNT-SSDWSCF 499 (1431)
Q Consensus 426 ~~~twkI~NFS~lkemlk~~K~~Ge--~i~S~~F--~vGG~~WRL~vYP~G~~~~-~~yLSLYL~l~d~~~~-~~~WsV~ 499 (1431)
++|.|+|.|||.+++.+ ..|. +++|+.| .+|||+|+|++||+|.+.+ ++|||+||.+++++.. -..|++.
T Consensus 1 g~~vwkI~~ys~~~~~~----~~g~~~~i~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wp~~ 76 (148)
T cd03780 1 GKLIWKVTDYKMKKKEA----VDGHTVSIFSQPFYTSRCGYRLCARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQWPFR 76 (148)
T ss_pred CEEEEEECCHHHHHHhh----cCCCccEEECCCcccCCCCeeEEEEEEcCCCCCCCCCEEEEEEEEecCccccccCcceE
Confidence 57999999999987532 3466 8999999 8999999999999998764 6799999999875433 2579999
Q ss_pred EEEEEEEEeCCCCcee--EEec---cccccccc----CcCccccccccccccccCCCCCccCCEEEEEEEE
Q 000550 500 VSHRLSVVNQKMEEKS--VTKE---SQNRYSKA----AKDWGWREFVTLTSLFDQDSGFLVQDTVVFSAEV 561 (1431)
Q Consensus 500 a~FkL~LvNq~g~~~S--v~k~---~~~~F~~~----~~~WG~~kFI~lsdL~dpesGYLvDDsLtIe~eV 561 (1431)
++|+|.|+||.+...+ .... ..+.|+.. +..||+.+||++++|+..+.+||.||+++|+|.|
T Consensus 77 ~~~tfsLlDq~~~~~~~~~~~~~~~~~~~F~rp~~~~n~~~G~~~Fi~~~~Le~s~~~ylkdD~~~Ik~~v 147 (148)
T cd03780 77 QRVTLMLLDQSGKKNHIMETFKADPNSSSFKRPDGEMNIASGCPRFVAHSVLENAKNTYIKDDTLFLKVAV 147 (148)
T ss_pred EEEEEEEECCCCCCCCcceeeecCCccccccCCCCCCCCCcChhheeEHHHhhcccCCcCcCCEEEEEEEE
Confidence 9999999999875432 1111 13568654 4579999999999997433599999999999987
No 22
>cd03781 MATH_TRAF4 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF4 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF4, including the Drosophila protein DTRAF1. TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF4 is highly expressed during embryogenesis, especially in the central and peripheral nervous system. Studies using TRAF4-deficient mice show that TRAF4 is required for neurogenesis, as well as the development of the trachea and the axial skeleton. In addition, TRAF4 augments nuclear factor-kappaB activation triggered by GITR (glucocorticoid-induced TNFR), a receptor expressed in T-cells, B-cells and macrophages. It also participates in counteracting the signaling mediated by Toll-like receptors through its association with TRAF6 and TR
Probab=99.76 E-value=2.9e-18 Score=179.42 Aligned_cols=132 Identities=18% Similarity=0.396 Sum_probs=104.8
Q ss_pred cEEEEEEcccccchhhhhccccCCceecCCcEEEc--cceEEEEEEeCCCCCC-CCcEEEEEEEccCCCCC-CCCeEEEE
Q 000550 426 GKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIG--NRDCRLIVYPRGQSQP-PCHLSVFLEVMDSRNTS-SDWSCFVS 501 (1431)
Q Consensus 426 ~~~twkI~NFS~lkemlk~~K~~Ge~i~S~~F~vG--G~~WRL~vYP~G~~~~-~~yLSLYL~l~d~~~~~-~~WsV~a~ 501 (1431)
++|.|+|+|||.++++++ ...|.++.|+.|.+| ||+|+|++||+|...+ .+|||+||++.+++... ..|.+.++
T Consensus 1 g~~~~~I~gys~~~~~~~--~~~~~~i~S~~F~vg~~Gy~w~i~~yPnG~~~~~~~~vs~~l~l~~ge~d~~l~wp~~a~ 78 (154)
T cd03781 1 GTLLWKITDYSRKLQEAK--GRDNLELFSPPFYTHRYGYKLQVSAFLNGNGSGEGSHLSVYIRVLPGEYDNLLEWPFSHR 78 (154)
T ss_pred CEEEEEECCHHHHHHHhh--cCCCceEECCCeecCCCCEEEEEEEECCCCCCCCCCEEEEEEEEecCCcccccCCceeeE
Confidence 579999999999876321 123679999999999 9999999999998764 68999999999854333 48999999
Q ss_pred EEEEEEeCCCC--c--eeEEe-----cccccccc--------cCcCccccccccccccccCCCCCccCCEEEEEEEE
Q 000550 502 HRLSVVNQKME--E--KSVTK-----ESQNRYSK--------AAKDWGWREFVTLTSLFDQDSGFLVQDTVVFSAEV 561 (1431)
Q Consensus 502 FkL~LvNq~g~--~--~Sv~k-----~~~~~F~~--------~~~~WG~~kFI~lsdL~dpesGYLvDDsLtIe~eV 561 (1431)
|+|+|+||.+. . .++.. .....|+. .+.+|||..||++++|+ ++|||+||+++|+|.|
T Consensus 79 ~~~~llDq~~~~~~~~~~~~~~~~~~~~~~~F~rp~~~~~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~Irc~v 153 (154)
T cd03781 79 ITFTLLDQSDPSLSKPQHITETFTPDPTWKNFQKPSASRLDESTLGFGYPKFISHEDLK--KRNYIKDDAIFLRASV 153 (154)
T ss_pred EEEEEECCCCCccccCcceEEEEEcCCchhhhcCCcccccCCCCCccchhHeeEHHHHh--hCCcccCCEEEEEEEe
Confidence 99999999874 1 12211 11345652 34579999999999996 4799999999999987
No 23
>cd00121 MATH MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane and are capable of cleaving growth factors, extracellular matrix proteins, and biologically active peptides. TRAF molecules serve as adapter proteins that link cell surface receptors of the Tumor Necrosis Factor and 1nterleukin-1/Toll-like families to downstream kinase cascades, which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. Other members include the ubiquitin ligases, TRIM37 and SPOP, and the ubiquitin-specific proteases, HAUSP and Ubp21p. A large number of uncharacterized members mostly from lineage-specific expansions in C. elegans and rice contain MATH and BTB domains, similar to SPOP. The MATH doma
Probab=99.74 E-value=1.7e-17 Score=162.30 Aligned_cols=125 Identities=32% Similarity=0.591 Sum_probs=101.9
Q ss_pred cEEEEEEcccccchhhhhccccCCceecCCcEEEccceEEEEEEeCCCCCCCCcEEEEEEEccCCCCCCCCeEEEEEEEE
Q 000550 426 GKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQPPCHLSVFLEVMDSRNTSSDWSCFVSHRLS 505 (1431)
Q Consensus 426 ~~~twkI~NFS~lkemlk~~K~~Ge~i~S~~F~vGG~~WRL~vYP~G~~~~~~yLSLYL~l~d~~~~~~~WsV~a~FkL~ 505 (1431)
++|+|+|.+|+... ++.++|+.|.++|++|+|.+||+|.....+|+||||.|.........|.+.+.|+|.
T Consensus 1 ~~~~~~i~~~~~~~---------~~~~~S~~f~~~g~~W~l~~~p~~~~~~~~~lsv~L~~~~~~~~~~~~~~~~~~~~~ 71 (126)
T cd00121 1 GKHTWKIVNFSELE---------GESIYSPPFEVGGYKWRIRIYPNGDGESGDYLSLYLELDKGESDLEKWSVRAEFTLK 71 (126)
T ss_pred CEEEEEECCCCCCC---------CcEEECCCEEEcCEeEEEEEEcCCCCCCCCEEEEEEEecCCCCCCCCCcEEEEEEEE
Confidence 47999999999822 567899999999999999999999755567999999998765444689999999999
Q ss_pred EEeCCCCceeEEeccccccc-ccCcCccccccccccccccCCCCCccCCEEEEEEEEE
Q 000550 506 VVNQKMEEKSVTKESQNRYS-KAAKDWGWREFVTLTSLFDQDSGFLVQDTVVFSAEVL 562 (1431)
Q Consensus 506 LvNq~g~~~Sv~k~~~~~F~-~~~~~WG~~kFI~lsdL~dpesGYLvDDsLtIe~eV~ 562 (1431)
|+|+++++ +..+...+.|. ....+|||.+||+|++|.+ .++++||+|+|+|+|.
T Consensus 72 l~~~~~~~-~~~~~~~~~~~~~~~~~~G~~~fi~~~~l~~--~~~~~~d~l~i~~~v~ 126 (126)
T cd00121 72 LVNQNGGK-SLSKSFTHVFFSEKGSGWGFPKFISWDDLED--SYYLVDDSLTIEVEVK 126 (126)
T ss_pred EECCCCCc-cceEeccCCcCCCCCCCCChHHeeEHHHhcc--CCcEECCEEEEEEEEC
Confidence 99998433 33444445553 4568999999999999985 3449999999999983
No 24
>cd00121 MATH MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane and are capable of cleaving growth factors, extracellular matrix proteins, and biologically active peptides. TRAF molecules serve as adapter proteins that link cell surface receptors of the Tumor Necrosis Factor and 1nterleukin-1/Toll-like families to downstream kinase cascades, which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. Other members include the ubiquitin ligases, TRIM37 and SPOP, and the ubiquitin-specific proteases, HAUSP and Ubp21p. A large number of uncharacterized members mostly from lineage-specific expansions in C. elegans and rice contain MATH and BTB domains, similar to SPOP. The MATH doma
Probab=99.73 E-value=3.1e-17 Score=160.48 Aligned_cols=125 Identities=29% Similarity=0.583 Sum_probs=101.8
Q ss_pred eEEEEEEccccccCCceeecCceEEcCeeEEEEEEECCCCCCCCCcEEEEEEEeCCCCCCCCCceEEEEEEEEEEecCCC
Q 000550 93 AVCRWTVHNFPRIRARALWSKYFEVGGYDCRLLVYPKGDSQALPGYISIYLQIMDPRGTSSSKWDCFASYRLAIVNLSDE 172 (1431)
Q Consensus 93 at~twtI~NFS~lK~ekv~Sp~F~vGG~~WRL~VYP~G~~~~~~~yLSVYLe~~~~~~s~~s~W~v~a~Fkf~LvNq~g~ 172 (1431)
.+++|+|.+|+...++.++|+.|.++|++|+|.+||+|... ..+|+|+||+|.+.. .....|.+.++|+|.|+|+++
T Consensus 1 ~~~~~~i~~~~~~~~~~~~S~~f~~~g~~W~l~~~p~~~~~-~~~~lsv~L~~~~~~-~~~~~~~~~~~~~~~l~~~~~- 77 (126)
T cd00121 1 GKHTWKIVNFSELEGESIYSPPFEVGGYKWRIRIYPNGDGE-SGDYLSLYLELDKGE-SDLEKWSVRAEFTLKLVNQNG- 77 (126)
T ss_pred CEEEEEECCCCCCCCcEEECCCEEEcCEeEEEEEEcCCCCC-CCCEEEEEEEecCCC-CCCCCCcEEEEEEEEEECCCC-
Confidence 36899999999955679999999999999999999999755 467999999998765 234679999999999999983
Q ss_pred cceEeecceeeec-CCCCCCCcCCCccccccccCcCCceecCCEEEEEEEEE
Q 000550 173 SKTIHRDSWHRFS-SKKKSHGWCDFTPSSTVFDSKLGYLFNNDAVLITADIL 223 (1431)
Q Consensus 173 s~si~k~s~hrFs-~~~~~WG~~kFI~~ddL~dp~~GFL~d~DsLtIea~V~ 223 (1431)
..+..+...+.|. ....+|||.+||+|++|++ .+++.| |+|+|+|+|.
T Consensus 78 ~~~~~~~~~~~~~~~~~~~~G~~~fi~~~~l~~--~~~~~~-d~l~i~~~v~ 126 (126)
T cd00121 78 GKSLSKSFTHVFFSEKGSGWGFPKFISWDDLED--SYYLVD-DSLTIEVEVK 126 (126)
T ss_pred CccceEeccCCcCCCCCCCCChHHeeEHHHhcc--CCcEEC-CEEEEEEEEC
Confidence 2233334445553 5568999999999999994 334888 9999999983
No 25
>cd03777 MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF3 was first described as a molecule that binds the cytoplasmic tail of CD40. However, it is not required for CD40 signaling. More recently, TRAF3 has been identified as a key regulator of type I interferon (IFN) production and the mammalian innate antiviral immunity. It mediates IFN responses in Toll-like receptor (TLR)-dependent as well as TLR-independent viral recognition pathways. It is also a key element in immunological homeostasis through its regulation of the anti-inflammatory cytokine interleukin-10. TRAF3 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more divergent N-terminal al
Probab=99.73 E-value=2.2e-17 Score=177.88 Aligned_cols=130 Identities=18% Similarity=0.340 Sum_probs=106.6
Q ss_pred cceEEEEEEccccccCC-----c--eeecCceEEc--CeeEEEEEEECCCCCCCCCcEEEEEEEeCCCCCCCCCceEEEE
Q 000550 91 HSAVCRWTVHNFPRIRA-----R--ALWSKYFEVG--GYDCRLLVYPKGDSQALPGYISIYLQIMDPRGTSSSKWDCFAS 161 (1431)
Q Consensus 91 ~~at~twtI~NFS~lK~-----e--kv~Sp~F~vG--G~~WRL~VYP~G~~~~~~~yLSVYLe~~~~~~s~~s~W~v~a~ 161 (1431)
+.++|.|+|.|||+.+. + .++|++|++| ||+|+|.+||+|+..+..+|+|+||.+++++++.-..|++.++
T Consensus 37 ~~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w~i~~ypnG~g~~~~~~iSvyl~L~~ge~D~~L~WP~~~~ 116 (186)
T cd03777 37 YNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQK 116 (186)
T ss_pred cceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCCceeEE
Confidence 46899999999998742 2 6999999999 9999999999998866678999999999876555668999999
Q ss_pred EEEEEEecCCCcceEee-----cceeeec-CC---CCCCCcCCCccccccccCcCCceecCCEEEEEEEEE
Q 000550 162 YRLAIVNLSDESKTIHR-----DSWHRFS-SK---KKSHGWCDFTPSSTVFDSKLGYLFNNDAVLITADIL 223 (1431)
Q Consensus 162 Fkf~LvNq~g~s~si~k-----~s~hrFs-~~---~~~WG~~kFI~~ddL~dp~~GFL~d~DsLtIea~V~ 223 (1431)
|+|.|++|.+...++.. ...+.|. +. +.+|||.+||++++|+ ..+||.| |+++|+|.|.
T Consensus 117 ~tfsLlDQ~~~~~~~~~~~~p~p~~~~F~rp~~~~n~~~G~~~Fi~~~~Le--~~~ylkd-D~l~Irv~v~ 184 (186)
T cd03777 117 VTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLE--NGTYIKD-DTIFIKVIVD 184 (186)
T ss_pred EEEEEEcCCCccccccceeccCCccccccCCccCCCCCCCchheeEHHHhc--cCCcEeC-CEEEEEEEEe
Confidence 99999999753222211 1235576 33 4589999999999998 4789999 9999999886
No 26
>cd03783 MATH_Meprin_Alpha Meprin family, Alpha subunit, MATH domain; Meprins are multidomain extracellular metalloproteases capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. They are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. The alpha subunit is synthesized as a membrane spanning protein, however, it is cleaved during biosynthesis and loses its transmembrane domain. It oligomerizes into large complexes, containing 10-100 subunits (dimers that associate noncovalently), which are secreted as latent proteases and can move through extracellular spaces in a nondestructive manner. This allows delivery of the concentrated protease to sites containing activating enzymes, such as sites of inflammation, infection or cancerous growth. Meprin alpha shows preference for small or hydrophobic residues at the P1 and P1' sites of its substrate. Both
Probab=99.72 E-value=2.1e-17 Score=173.68 Aligned_cols=135 Identities=21% Similarity=0.345 Sum_probs=109.0
Q ss_pred CcEEEEEEccccccccc-cccCcccCCceecc-CeeEEEEEEEcCCC---CcceEEEEEEecCCCccccCCCcE-EEEEE
Q 000550 258 SGKFTWKVHNFSLFKEM-IKTQKIMSPVFPAG-ECNLRISVYQSSVN---GQEYLSMCLESKDMEKTVVSDRSC-WCLFR 331 (1431)
Q Consensus 258 ~g~ftwkI~NFS~lke~-~k~eki~Sp~F~vG-Gy~WrI~vYPnG~n---~~~yLSLyL~L~d~e~~~~~~wsv-~a~Ft 331 (1431)
|+.|+|+|.||+++.+. .++..++||.|+.+ ||+.++.+||+|.+ .+.|||||++++.+++|..++||| +-+.+
T Consensus 1 cp~~iWkI~nfs~~~~~a~~~~~i~Sp~Fyt~~GYk~~l~~~lng~~~~~~g~~lSl~~~lm~Ge~D~~L~WP~~~~~it 80 (167)
T cd03783 1 CPNAVWRVRNFSQILENTTKGDVLQSPRFYSPEGYGYGVSLYPLSNESDYSGNYTGLYFHLCSGENDAVLEWPALNRQAI 80 (167)
T ss_pred CCceeEEECcHHHHHHhCcCCCeEECCCCccCCCceEEEEEEecCCCCCCCCCEEEEEEEEecccCCCcccCCCcCCEEE
Confidence 45799999999997543 35679999999885 99999999999875 357999999999999999999996 66999
Q ss_pred EEEEeCCCC---CCceee----cc---------cccccCCCC---------CCCCCCCCccceeeccccccCCCCcccCC
Q 000550 332 MSVLNQSPG---SNHMHR----DS---------YGRFAADNK---------SGDNTSLGWNDYMKMADFVGHDSGFLVDD 386 (1431)
Q Consensus 332 L~LLNQ~~g---~~~i~r----~s---------~~rF~~~~~---------~~~n~gwG~~kFIk~sdL~d~~sGYLvDD 386 (1431)
|.||||.++ ..|..+ +. ...|+++.+ ..++.++||..||++++|. ..+||+||
T Consensus 81 l~llDQ~~~~~~r~~~~~sf~~d~~~~~~~~~~~~~f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~--~r~yikdD 158 (167)
T cd03783 81 ITVLDQDPDVRLRMSSSRSFTTDKSQTSSAINGTLRWDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLR--RRSFLKND 158 (167)
T ss_pred EEEEcCCcchhhccccceeeecCCCcccccccccccccCCcccccccccccccCCcccccccceeHHHHh--hCCcccCC
Confidence 999999641 122211 11 123777642 3478999999999999999 68999999
Q ss_pred cEEEEEEE
Q 000550 387 TAVFSTSF 394 (1431)
Q Consensus 387 SLiIe~dI 394 (1431)
+++|.+++
T Consensus 159 tlfI~~~~ 166 (167)
T cd03783 159 DLIIFVDF 166 (167)
T ss_pred eEEEEEec
Confidence 99999886
No 27
>cd03779 MATH_TRAF1 Tumor Necrosis Factor Receptor (TNFR) Associated Factor (TRAF) family, TRAF1 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF1 expression is the most restricted among the TRAFs. It is found exclusively in activated lymphocytes, dendritic cells and certain epithelia. TRAF1 associates, directly or indirectly through heterodimerization with TRAF2, with the TNFR family receptors TNFR-2, CD30, RANK, CD40 and LMP1, among others. It also binds the intracellular proteins TRADD, TANK, TRIP, RIP1, RIP2 and FLIP. TRAF1 is unique among the TRAFs in that it lacks a RING domain, which is critical for the activation of nuclear factor-kappaB and Jun NH2-terminal kinase. Studies on TRAF1-deficient mice suggest that TRAF1 has a negative regulatory role in TNFR-mediat
Probab=99.72 E-value=3.9e-17 Score=169.86 Aligned_cols=129 Identities=19% Similarity=0.300 Sum_probs=103.7
Q ss_pred eEEEEEEccccccCC-------ceeecCceEEc--CeeEEEEEEECCCCCCCCCcEEEEEEEeCCCCCCCCCceEEEEEE
Q 000550 93 AVCRWTVHNFPRIRA-------RALWSKYFEVG--GYDCRLLVYPKGDSQALPGYISIYLQIMDPRGTSSSKWDCFASYR 163 (1431)
Q Consensus 93 at~twtI~NFS~lK~-------ekv~Sp~F~vG--G~~WRL~VYP~G~~~~~~~yLSVYLe~~~~~~s~~s~W~v~a~Fk 163 (1431)
+++.|+|.||++..+ ..++||.|+.+ ||.|+|.+||+|+..+..+|+|+||.++.++.+.-..|.+.++|+
T Consensus 1 g~~~W~i~~f~~~~~~a~~~~~~~~~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wpv~~~~t 80 (147)
T cd03779 1 GTFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKVCLRLYLNGDGAGKGTHISLFFVIMKGEYDALLPWPFRHKVT 80 (147)
T ss_pred CeEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCcceEEEEE
Confidence 579999999997421 36999999874 999999999999987667899999999876545556799999999
Q ss_pred EEEEecCCCcc-eE-eecc--eeeec----CCCCCCCcCCCccccccccCcCCceecCCEEEEEEEE
Q 000550 164 LAIVNLSDESK-TI-HRDS--WHRFS----SKKKSHGWCDFTPSSTVFDSKLGYLFNNDAVLITADI 222 (1431)
Q Consensus 164 f~LvNq~g~s~-si-~k~s--~hrFs----~~~~~WG~~kFI~~ddL~dp~~GFL~d~DsLtIea~V 222 (1431)
|+|++|.++.. +. .... .+.|. ..+..||+.+||++++|+.++.+||.| |+++|+|+|
T Consensus 81 fsLlDq~~~~~~~~~~~~~~~~~~F~rP~~~~n~~~G~~~Fi~~~~Le~s~~~ylkD-D~~~Irc~V 146 (147)
T cd03779 81 FMLLDQNNREHVIDAFRPDLSSASFQRPVSDMNVASGCPLFFPLKKLQSPKHAYCKD-DTIYIKCVV 146 (147)
T ss_pred EEEECCCCCCCCcEeecCCcccccccCcccCCCCCcchhheeEHHHhcccCCCcEeC-CEEEEEEEE
Confidence 99999976432 11 1111 36686 445689999999999998433599999 999999998
No 28
>cd03782 MATH_Meprin_Beta Meprin family, Beta subunit, MATH domain; Meprins are multidomain extracellular metalloproteases capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. They are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. The beta subunit is a type I membrane protein, which forms homodimers or heterotetramers (alpha2beta2 or alpha3beta). Meprin beta shows preference for acidic residues at the P1 and P1' sites of its substrate. Among its best substrates are growth factors and chemokines such as gastrin and osteopontin. Both alpha and beta subunits contain a catalytic astacin (M12 family) protease domain followed by the adhesion or interaction domains MAM, MATH and AM. The MATH and MAM domains provide symmetrical intersubunit disulfide bonds necessary for the dimerization of meprin subunits. The MATH domain may also be required for f
Probab=99.70 E-value=6.1e-17 Score=169.52 Aligned_cols=135 Identities=17% Similarity=0.273 Sum_probs=108.5
Q ss_pred CcEEEEEEccccccccc-cccCcccCCceec-cCeeEEEEEEEcCCC-CcceEEEEEEecCCCccccCCCcEE-EEEEEE
Q 000550 258 SGKFTWKVHNFSLFKEM-IKTQKIMSPVFPA-GECNLRISVYQSSVN-GQEYLSMCLESKDMEKTVVSDRSCW-CLFRMS 333 (1431)
Q Consensus 258 ~g~ftwkI~NFS~lke~-~k~eki~Sp~F~v-GGy~WrI~vYPnG~n-~~~yLSLyL~L~d~e~~~~~~wsv~-a~FtL~ 333 (1431)
|+.|+|+|+||+++.+. +++..++||+|+. .||+.++.+||||.+ +++|||+|++++++++|..++||+. .+++|.
T Consensus 1 cp~~iWkI~~fs~~~~~~~~~~~i~Sp~FYt~~GYkl~l~~ylnG~g~~~~~lsl~~~lm~Ge~D~~L~WPf~~~qit~~ 80 (167)
T cd03782 1 CPEHIWHIRNFTQLLATTPPNGKIYSPPFLSSTGYSFQVGLYLNGTDDYPGNLAIYLHLTSGPNDDQLQWPCPWQQATMM 80 (167)
T ss_pred CCcEEEEeCcHHHHHHhcCCCceEECCCCcCccCceeEEEEEecCCCCCCCEEEEEEEEeccCCCccccCCCcCCeEEEE
Confidence 46799999999997653 5567999999975 499999999999974 4579999999999999999999998 999999
Q ss_pred EEeCCC---CCCceee--c------cc--ccc--cCCCC------------CCCCCCCCccceeeccccccCCCCcccCC
Q 000550 334 VLNQSP---GSNHMHR--D------SY--GRF--AADNK------------SGDNTSLGWNDYMKMADFVGHDSGFLVDD 386 (1431)
Q Consensus 334 LLNQ~~---g~~~i~r--~------s~--~rF--~~~~~------------~~~n~gwG~~kFIk~sdL~d~~sGYLvDD 386 (1431)
||||.+ ...|..+ . .. .-| +++.+ ..++.++||+.||++++|. ...||+||
T Consensus 81 LlDQ~~d~~~r~~~~~~~t~~P~~~s~~n~~f~w~rP~kvg~~~~~~~~~~~~r~~~~G~~~Fish~~L~--~r~yikdD 158 (167)
T cd03782 81 LLDQHPDIRQRMSNQRSVTTDPNMTSTDSDEYFWDDPRKVGSEVTDTDGSTFYRGPGYGTSAFITHLRLR--SRDFIKGD 158 (167)
T ss_pred EEcCCCchhhccceeeeEEecCCcccccCccceecCCcccCcccccccccccccccccCccceeeHHHHh--hcCcccCC
Confidence 999964 2233333 1 11 134 55531 1237999999999999999 68999999
Q ss_pred cEEEEEEE
Q 000550 387 TAVFSTSF 394 (1431)
Q Consensus 387 SLiIe~dI 394 (1431)
+++|-+++
T Consensus 159 ~ifi~~~~ 166 (167)
T cd03782 159 DVIFLLTM 166 (167)
T ss_pred eEEEEEec
Confidence 99998875
No 29
>cd03771 MATH_Meprin Meprin family, MATH domain; Meprins are multidomain, highly glycosylated extracellular metalloproteases, which are either anchored to the membrane or secreted into extracellular spaces. They are expressed in renal and intestinal brush border membranes, leukocytes, and cancer cells, and are capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. Meprin proteases are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. Despite their similarity, the two subunits differ in their ability to self-associate, in proteolytic processing during biosynthesis and in substrate specificity. Both subunits are synthesized as membrane spanning proteins, however, the alpha subunit is cleaved during biosynthesis and loses its transmembrane domain. Meprin beta forms homodimers or heterotetramers while meprin alpha oligomerizes into large complexes co
Probab=99.69 E-value=1.6e-16 Score=168.27 Aligned_cols=131 Identities=19% Similarity=0.418 Sum_probs=100.3
Q ss_pred ccEEEEEEcccccchhhhhccccCCceecCCcE-EEccceEEEEEEeCCCCCCCCcEEEEEEEccCCC-CCCCCe-EEEE
Q 000550 425 MGKFTWRIENFTRLKDLLKKRKITGLCIKSRRF-QIGNRDCRLIVYPRGQSQPPCHLSVFLEVMDSRN-TSSDWS-CFVS 501 (1431)
Q Consensus 425 ~~~~twkI~NFS~lkemlk~~K~~Ge~i~S~~F-~vGG~~WRL~vYP~G~~~~~~yLSLYL~l~d~~~-~~~~Ws-V~a~ 501 (1431)
+.+|+|+|.|||.+++. ...|..++|++| .+|||+|+|++||+|+...++||||||++.+... ....|. +.++
T Consensus 1 cp~hvwkI~~yS~~~~~----~~~g~~i~S~~FysvgGy~w~I~~YPnG~~~~~~~lSlyL~L~~g~~d~~L~WP~v~a~ 76 (167)
T cd03771 1 CPEAVWRVRNFSQLLET----TPKGTKIYSPRFYSPEGYAFQVGLYPNGTESYPGYTGLYFHLCSGENDDVLEWPCPNRQ 76 (167)
T ss_pred CCeEEEEEcCchhhhhc----CCCCCEEECCCCCccCCeEEEEEEEeCCCCCCCCcceEEEEEecCCccccccCcceeEE
Confidence 36799999999998631 235789999998 8999999999999998654679999999987543 246799 5899
Q ss_pred EEEEEEeCCC---CceeEEe----cc--------cccccc-----------------cCcCccccccccccccccCCCCC
Q 000550 502 HRLSVVNQKM---EEKSVTK----ES--------QNRYSK-----------------AAKDWGWREFVTLTSLFDQDSGF 549 (1431)
Q Consensus 502 FkL~LvNq~g---~~~Sv~k----~~--------~~~F~~-----------------~~~~WG~~kFI~lsdL~dpesGY 549 (1431)
|+|+|+||.. ...++.. .- ...|+. .+.+|||..||++++|.. .+|
T Consensus 77 ~t~~LlDQ~~~~~~r~~~~~~~~~dp~~~~~~~~~~~~~rP~~~~~~~~~~~~~~~~~~~g~G~~~Fis~~~L~~--r~y 154 (167)
T cd03771 77 ATMTLLDQDPDIQQRMSNQRSFTTDPSMTSSDNGEYFWDRPSKVGSYDTDTNGCTCYRGPGYGWSTFISHSRLRR--RDF 154 (167)
T ss_pred EEEEEECCCCcccccCcceEEEecCCcccccccccccccCCccccccccccccccccccCccccccceeHHHhcc--CCC
Confidence 9999999972 1122221 00 011222 234799999999999974 679
Q ss_pred ccCCEEEEEEEE
Q 000550 550 LVQDTVVFSAEV 561 (1431)
Q Consensus 550 LvDDsLtIe~eV 561 (1431)
|+||+|.|++++
T Consensus 155 lk~dtl~i~~~~ 166 (167)
T cd03771 155 LKGDDLIILLDF 166 (167)
T ss_pred CcCCEEEEEEEe
Confidence 999999999986
No 30
>PF00917 MATH: MATH domain; InterPro: IPR002083 Although apparently functionally unrelated, intracellular TRAFs and extracellular meprins share a conserved region of about 180 residues, the meprin and TRAF homology (MATH) domain []. Meprins are mammalian tissue-specific metalloendopeptidases of the astacin family implicated in developmental, normal and pathological processes by hydrolysing a variety of proteins. Various growth factors, cytokines, and extracellular matrix proteins are substrates for meprins. They are composed of five structural domains: an N-terminal endopeptidase domain, a MAM domain (see PDOC00604 from PROSITEDOC), a MATH domain, an EGF-like domain (see PDOC00021 from PROSITEDOC) and a C-terminal transmembrane region. Meprin A and B form membrane bound homotetramer whereas homooligomers of meprin A are secreted. A proteolitic site adjacent to the MATH domain, only present in meprin A, allows the release of the protein from the membrane []. TRAF proteins were first isolated by their ability to interact with TNF receptors []. They promote cell survival by the activation of downstream protein kinases and, finally, transcription factors of the NF-kB and AP-1 family. The TRAF proteins are composed of 3 structural domains: a RING finger (see PDOC00449 from PROSITEDOC) in the N-terminal part of the protein, one to seven TRAF zinc fingers (see PDOC50145 from PROSITEDOC) in the middle and the MATH domain in the C-terminal part []. The MATH domain is necessary and sufficient for self-association and receptor interaction. From the structural analysis two consensus sequence recognised by the TRAF domain have been defined: a major one, [PSAT]x[QE]E and a minor one, PxQxxD []. The structure of the TRAF2 protein reveals a trimeric self-association of the MATH domain []. The domain forms a new, light-stranded antiparallel beta sandwich structure. A coiled-coil region adjacent to the MATH domain is also important for the trimerisation. The oligomerisation is essential for establishing appropriate connections to form signalling complexes with TNF receptor-1. The ligand binding surface of TRAF proteins is located in beta-strands 6 and 7 [].; GO: 0005515 protein binding; PDB: 1D00_E 1CZY_A 1D01_F 1CA9_A 1D0J_D 1F3V_B 1CA4_C 1D0A_A 1QSC_C 1CZZ_C ....
Probab=99.69 E-value=5e-17 Score=159.50 Aligned_cols=118 Identities=33% Similarity=0.551 Sum_probs=96.5
Q ss_pred EcccccchhhhhccccCCceecCCcEEEccceEEEEEEeCCCCCCCCcEEEEEEEccCCCCC-CCCeEEEEEEEEEEeCC
Q 000550 432 IENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQPPCHLSVFLEVMDSRNTS-SDWSCFVSHRLSVVNQK 510 (1431)
Q Consensus 432 I~NFS~lkemlk~~K~~Ge~i~S~~F~vGG~~WRL~vYP~G~~~~~~yLSLYL~l~d~~~~~-~~WsV~a~FkL~LvNq~ 510 (1431)
|+|||.+++ .+.++.|+.|.+||++|+|.+||+|+ ++|+++||+|..+.... .+|+|.++|++.|+++.
T Consensus 1 i~nfs~l~~-------~~~~~~s~~~~~~g~~W~l~~~~~~~---~~~l~~~L~~~~~~~~~~~~w~~~~~~~~~~~~~~ 70 (119)
T PF00917_consen 1 IKNFSKLKE-------GEEYSSSFVFSHGGYPWRLKVYPKGN---GKYLSVYLHCDKGENDSDLEWSIEAEFRFRLLNQN 70 (119)
T ss_dssp ETTGGGHHT-------SEEEEEEEESSTTSEEEEEEEETTES---TTEEEEEEEEECSTTGGGSSSSEEEEEEEEEE-TT
T ss_pred CcccceEeC-------CCcEECCCeEEECCEEEEEEEEeCCC---cCcEEEEEEEeecccccccceeeeEEEEEEEecCC
Confidence 789999974 13345568899999999999999986 57999999999876543 68999999999999999
Q ss_pred CCceeEEecccccccccCcCccccccccccccccCCCCCccCCEEEEEEEEEE
Q 000550 511 MEEKSVTKESQNRYSKAAKDWGWREFVTLTSLFDQDSGFLVQDTVVFSAEVLI 563 (1431)
Q Consensus 511 g~~~Sv~k~~~~~F~~~~~~WG~~kFI~lsdL~dpesGYLvDDsLtIe~eV~V 563 (1431)
++....... .+.|.. ..+|||.+||+|++|.++ +|++||+++|+|+|+|
T Consensus 71 ~~~~~~~~~-~~~F~~-~~~~g~~~fi~~~~l~~~--~fl~dd~l~ie~~v~I 119 (119)
T PF00917_consen 71 GKSISKRIK-SHSFNN-PSSWGWSSFISWEDLEDP--YFLVDDSLTIEVEVKI 119 (119)
T ss_dssp SCEEEEEEE-CEEECT-TSEEEEEEEEEHHHHTTC--TTSBTTEEEEEEEEEE
T ss_pred CCcceeeee-eeEEee-ecccchhheeEHHHhCcc--CCeECCEEEEEEEEEC
Confidence 876333322 578854 478999999999999863 3999999999999987
No 31
>cd03778 MATH_TRAF2 Tumor Necrosis Factor Receptor (TNFR) Associated Factor (TRAF) family, TRAF2 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF2 associates with the receptors TNFR-1, TNFR-2, RANK (which mediates differentiation and maturation of osteoclasts) and CD40 (which is important for the proliferation and activation of B cells), among others. It regulates distinct pathways that lead to the activation of nuclear factor-kappaB and Jun NH2-terminal kinases. TRAF2 also indirectly associates with death receptors through its interaction with TRADD (TNFR-associated death domain protein). It is involved in regulating oxidative stress or ROS-induced cell death and in the preconditioning of cells by sublethal stress for protection from subsequent injury. TRAF2 contains a RING finger domain, five z
Probab=99.68 E-value=2.7e-16 Score=165.79 Aligned_cols=135 Identities=21% Similarity=0.304 Sum_probs=106.8
Q ss_pred CCccEEEEEEcccccchhhhhccccCCceecCCcEEEc--cceEEEEEEeCCCCCC-CCcEEEEEEEccCCCCC-CCCeE
Q 000550 423 GHMGKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIG--NRDCRLIVYPRGQSQP-PCHLSVFLEVMDSRNTS-SDWSC 498 (1431)
Q Consensus 423 ~~~~~~twkI~NFS~lkemlk~~K~~Ge~i~S~~F~vG--G~~WRL~vYP~G~~~~-~~yLSLYL~l~d~~~~~-~~WsV 498 (1431)
...++|+|+|+|||++.+.. +......++||.|..+ ||+|+|++||+|++.+ +.|||||++++++++.. ..|++
T Consensus 16 ~~~g~fiWkI~~fs~~~~~a--~~~~~~~i~Sp~Fyt~~~GYk~~l~~ylnG~g~~~g~~LSly~~l~~Ge~D~~L~WPf 93 (164)
T cd03778 16 TYDGVFIWKISDFARKRQEA--VAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPF 93 (164)
T ss_pred ccCCEEEEEECcHHHHHHHH--hcCCCceEECCCcccCCCCeEEEEEEEeCCCCCCCCCEEEEEEEEecCCcCcccCCce
Confidence 45799999999999887632 1212247999999974 8999999999998765 67999999999988776 79999
Q ss_pred EEEEEEEEEeCCCCceeEEecc-----ccccc----ccCcCccccccccccccccCCCCCccCCEEEEEEEE
Q 000550 499 FVSHRLSVVNQKMEEKSVTKES-----QNRYS----KAAKDWGWREFVTLTSLFDQDSGFLVQDTVVFSAEV 561 (1431)
Q Consensus 499 ~a~FkL~LvNq~g~~~Sv~k~~-----~~~F~----~~~~~WG~~kFI~lsdL~dpesGYLvDDsLtIe~eV 561 (1431)
..+++|.|+||++.. ++.... ...|+ ..+.+|||..|+++++|.. ..|||+||++.|+|.|
T Consensus 94 ~~~itl~llDQ~~r~-hi~~~~~pd~~~~~f~RP~~~~n~~~G~~~Fv~l~~l~~-~~~Yv~dDtlfIk~~V 163 (164)
T cd03778 94 NQKVTLMLLDQNNRE-HVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKXEA-KNSYVRDDAIFIKAIV 163 (164)
T ss_pred eeEEEEEEECCCCCC-cceeEEEcCcchHhcCCCCcccccCcCcceEEEhhHccc-cCCcccCCeEEEEEEE
Confidence 999999999998533 333221 12353 2345799999999999975 3699999999999987
No 32
>PF00917 MATH: MATH domain; InterPro: IPR002083 Although apparently functionally unrelated, intracellular TRAFs and extracellular meprins share a conserved region of about 180 residues, the meprin and TRAF homology (MATH) domain []. Meprins are mammalian tissue-specific metalloendopeptidases of the astacin family implicated in developmental, normal and pathological processes by hydrolysing a variety of proteins. Various growth factors, cytokines, and extracellular matrix proteins are substrates for meprins. They are composed of five structural domains: an N-terminal endopeptidase domain, a MAM domain (see PDOC00604 from PROSITEDOC), a MATH domain, an EGF-like domain (see PDOC00021 from PROSITEDOC) and a C-terminal transmembrane region. Meprin A and B form membrane bound homotetramer whereas homooligomers of meprin A are secreted. A proteolitic site adjacent to the MATH domain, only present in meprin A, allows the release of the protein from the membrane []. TRAF proteins were first isolated by their ability to interact with TNF receptors []. They promote cell survival by the activation of downstream protein kinases and, finally, transcription factors of the NF-kB and AP-1 family. The TRAF proteins are composed of 3 structural domains: a RING finger (see PDOC00449 from PROSITEDOC) in the N-terminal part of the protein, one to seven TRAF zinc fingers (see PDOC50145 from PROSITEDOC) in the middle and the MATH domain in the C-terminal part []. The MATH domain is necessary and sufficient for self-association and receptor interaction. From the structural analysis two consensus sequence recognised by the TRAF domain have been defined: a major one, [PSAT]x[QE]E and a minor one, PxQxxD []. The structure of the TRAF2 protein reveals a trimeric self-association of the MATH domain []. The domain forms a new, light-stranded antiparallel beta sandwich structure. A coiled-coil region adjacent to the MATH domain is also important for the trimerisation. The oligomerisation is essential for establishing appropriate connections to form signalling complexes with TNF receptor-1. The ligand binding surface of TRAF proteins is located in beta-strands 6 and 7 [].; GO: 0005515 protein binding; PDB: 1D00_E 1CZY_A 1D01_F 1CA9_A 1D0J_D 1F3V_B 1CA4_C 1D0A_A 1QSC_C 1CZZ_C ....
Probab=99.68 E-value=4.9e-17 Score=159.56 Aligned_cols=117 Identities=30% Similarity=0.569 Sum_probs=96.2
Q ss_pred EccccccCC-ce-eecCceEEcCeeEEEEEEECCCCCCCCCcEEEEEEEeCCCCCCCCCceEEEEEEEEEEecCCCcceE
Q 000550 99 VHNFPRIRA-RA-LWSKYFEVGGYDCRLLVYPKGDSQALPGYISIYLQIMDPRGTSSSKWDCFASYRLAIVNLSDESKTI 176 (1431)
Q Consensus 99 I~NFS~lK~-ek-v~Sp~F~vGG~~WRL~VYP~G~~~~~~~yLSVYLe~~~~~~s~~s~W~v~a~Fkf~LvNq~g~s~si 176 (1431)
|+|||+++. +. +.|+.|.+||++|+|.+||+|+ .+|+++||+|..+.......|+|.++|++.+++++++....
T Consensus 1 i~nfs~l~~~~~~~~s~~~~~~g~~W~l~~~~~~~----~~~l~~~L~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~ 76 (119)
T PF00917_consen 1 IKNFSKLKEGEEYSSSFVFSHGGYPWRLKVYPKGN----GKYLSVYLHCDKGENDSDLEWSIEAEFRFRLLNQNGKSISK 76 (119)
T ss_dssp ETTGGGHHTSEEEEEEEESSTTSEEEEEEEETTES----TTEEEEEEEEECSTTGGGSSSSEEEEEEEEEE-TTSCEEEE
T ss_pred CcccceEeCCCcEECCCeEEECCEEEEEEEEeCCC----cCcEEEEEEEeecccccccceeeeEEEEEEEecCCCCccee
Confidence 789999973 33 3448899999999999999997 47999999999886322358999999999999999877433
Q ss_pred eecceeeecCCCCCCCcCCCccccccccCcCCceecCCEEEEEEEEEE
Q 000550 177 HRDSWHRFSSKKKSHGWCDFTPSSTVFDSKLGYLFNNDAVLITADILI 224 (1431)
Q Consensus 177 ~k~s~hrFs~~~~~WG~~kFI~~ddL~dp~~GFL~d~DsLtIea~V~V 224 (1431)
... .+.|+.. .+|||.+||+|++|.++. |+.| |+++|+|+|+|
T Consensus 77 ~~~-~~~F~~~-~~~g~~~fi~~~~l~~~~--fl~d-d~l~ie~~v~I 119 (119)
T PF00917_consen 77 RIK-SHSFNNP-SSWGWSSFISWEDLEDPY--FLVD-DSLTIEVEVKI 119 (119)
T ss_dssp EEE-CEEECTT-SEEEEEEEEEHHHHTTCT--TSBT-TEEEEEEEEEE
T ss_pred eee-eeEEeee-cccchhheeEHHHhCccC--CeEC-CEEEEEEEEEC
Confidence 322 6889765 899999999999999543 8999 99999999987
No 33
>smart00061 MATH meprin and TRAF homology.
Probab=99.53 E-value=3.7e-14 Score=133.57 Aligned_cols=94 Identities=24% Similarity=0.426 Sum_probs=79.6
Q ss_pred EEEEEcccccchhhhhccccCCceecCCcEEEccceEEEEEEeCCCCCCCCcEEEEEEEccCCCCCCCCeEEEEEEEEEE
Q 000550 428 FTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQPPCHLSVFLEVMDSRNTSSDWSCFVSHRLSVV 507 (1431)
Q Consensus 428 ~twkI~NFS~lkemlk~~K~~Ge~i~S~~F~vGG~~WRL~vYP~G~~~~~~yLSLYL~l~d~~~~~~~WsV~a~FkL~Lv 507 (1431)
++|+|+||+.+.. |+.++|+.|.+||++|+|.+||+ ++|||+||.|.+....+.+|++.|+|+|+|+
T Consensus 2 ~~~~~~~~~~~~~--------~~~~~S~~f~~~g~~W~i~~~p~-----~~~lsl~L~~~~~~~~~~~w~v~a~~~~~l~ 68 (95)
T smart00061 2 LSHTFKNVSRLEE--------GESYFSPSEEHFNIPWRLKIYRK-----NGFLSLYLHCEKEECDSRKWSIEAEFTLKLV 68 (95)
T ss_pred ceeEEEchhhccc--------CceEeCChhEEcCceeEEEEEEc-----CCEEEEEEEeCCCcCCCCCeEEEEEEEEEEE
Confidence 5799999999853 66899999999999999999999 3899999999876554558999999999999
Q ss_pred eCCCCceeEEecccccccccCcCccccccc
Q 000550 508 NQKMEEKSVTKESQNRYSKAAKDWGWREFV 537 (1431)
Q Consensus 508 Nq~g~~~Sv~k~~~~~F~~~~~~WG~~kFI 537 (1431)
|++++.. .+...+.|.. ..+|||.+||
T Consensus 69 ~~~~~~~--~~~~~~~F~~-~~~~G~~~fi 95 (95)
T smart00061 69 SQNGKSL--SKKDKHVFEK-PSGWGFSKFI 95 (95)
T ss_pred eCCCCEE--eeeeeEEEcC-CCccceeeEC
Confidence 9998643 3345678875 7889999886
No 34
>smart00061 MATH meprin and TRAF homology.
Probab=99.51 E-value=8.1e-14 Score=131.25 Aligned_cols=93 Identities=26% Similarity=0.432 Sum_probs=78.9
Q ss_pred EEEEEccccccC-CceeecCceEEcCeeEEEEEEECCCCCCCCCcEEEEEEEeCCCCCCCCCceEEEEEEEEEEecCCCc
Q 000550 95 CRWTVHNFPRIR-ARALWSKYFEVGGYDCRLLVYPKGDSQALPGYISIYLQIMDPRGTSSSKWDCFASYRLAIVNLSDES 173 (1431)
Q Consensus 95 ~twtI~NFS~lK-~ekv~Sp~F~vGG~~WRL~VYP~G~~~~~~~yLSVYLe~~~~~~s~~s~W~v~a~Fkf~LvNq~g~s 173 (1431)
++|+|+||+.+. ++.++|++|.+||++|+|.+||++ +|+|+||+|.+.. ..+..|.+.|+|+|.|+|++++.
T Consensus 2 ~~~~~~~~~~~~~~~~~~S~~f~~~g~~W~i~~~p~~------~~lsl~L~~~~~~-~~~~~w~v~a~~~~~l~~~~~~~ 74 (95)
T smart00061 2 LSHTFKNVSRLEEGESYFSPSEEHFNIPWRLKIYRKN------GFLSLYLHCEKEE-CDSRKWSIEAEFTLKLVSQNGKS 74 (95)
T ss_pred ceeEEEchhhcccCceEeCChhEEcCceeEEEEEEcC------CEEEEEEEeCCCc-CCCCCeEEEEEEEEEEEeCCCCE
Confidence 579999999984 578999999999999999999993 6999999997765 33447999999999999998764
Q ss_pred ceEeecceeeecCCCCCCCcCCCc
Q 000550 174 KTIHRDSWHRFSSKKKSHGWCDFT 197 (1431)
Q Consensus 174 ~si~k~s~hrFs~~~~~WG~~kFI 197 (1431)
. .+...+.|.. ..+|||.+||
T Consensus 75 ~--~~~~~~~F~~-~~~~G~~~fi 95 (95)
T smart00061 75 L--SKKDKHVFEK-PSGWGFSKFI 95 (95)
T ss_pred E--eeeeeEEEcC-CCccceeeEC
Confidence 3 3446788986 6899999886
No 35
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.42 E-value=1.2e-13 Score=166.71 Aligned_cols=136 Identities=23% Similarity=0.474 Sum_probs=117.5
Q ss_pred ccceEEEEEEccccccCCceeecCceEEcCeeEEEEEEECCCCCCCCCcEEEEEEEeCCC--CCCCCCceEEEEEEEEEE
Q 000550 90 EHSAVCRWTVHNFPRIRARALWSKYFEVGGYDCRLLVYPKGDSQALPGYISIYLQIMDPR--GTSSSKWDCFASYRLAIV 167 (1431)
Q Consensus 90 ~~~at~twtI~NFS~lK~ekv~Sp~F~vGG~~WRL~VYP~G~~~~~~~yLSVYLe~~~~~--~s~~s~W~v~a~Fkf~Lv 167 (1431)
.....++|+|++|+.+. ++++||.|.+||+.|+|.++|.|+.+. ..||||+....+ ......|.|+|+|.|.|-
T Consensus 36 ~~~~sftW~vk~wsel~-~k~~Sp~F~vg~~twki~lfPqG~nq~---~~sVyLe~~pqe~e~~~gk~~~ccaqFaf~Is 111 (1089)
T COG5077 36 LLEMSFTWKVKRWSELA-KKVESPPFSVGGHTWKIILFPQGNNQC---NVSVYLEYEPQELEETGGKYYDCCAQFAFDIS 111 (1089)
T ss_pred HhhcccceecCChhhhh-hhccCCcccccCeeEEEEEecccCCcc---ccEEEEEeccchhhhhcCcchhhhhheeeecC
Confidence 44678999999999996 489999999999999999999998753 499999986532 112345999999999999
Q ss_pred ecCCCcceEeecceeeecCCCCCCCcCCCccccccccCcCC---ceecCCEEEEEEEEEEecCccc
Q 000550 168 NLSDESKTIHRDSWHRFSSKKKSHGWCDFTPSSTVFDSKLG---YLFNNDAVLITADILILNESVS 230 (1431)
Q Consensus 168 Nq~g~s~si~k~s~hrFs~~~~~WG~~kFI~~ddL~dp~~G---FL~d~DsLtIea~V~Vlke~~~ 230 (1431)
|++.++.+....+.|+|+....+|||.+|+.++.|.-|..| |+.+ |++.|+|+|+|++++++
T Consensus 112 ~p~~pti~~iN~sHhrFs~~~tDwGFt~f~dL~kl~~psp~~Ppflee-g~l~ItvyVRvlkdPTG 176 (1089)
T COG5077 112 NPKYPTIEYINKSHHRFSMESTDWGFTNFIDLNKLIEPSPGRPPFLEE-GTLVITVYVRVLKDPTG 176 (1089)
T ss_pred CCCCCchhhhhcccccccccccccchhhhhhhhhhcCCCCCCCCcccC-CeEEEEEEEEEEeCCcc
Confidence 99988877777789999999999999999999999877666 7998 99999999999998765
No 36
>cd03782 MATH_Meprin_Beta Meprin family, Beta subunit, MATH domain; Meprins are multidomain extracellular metalloproteases capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. They are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. The beta subunit is a type I membrane protein, which forms homodimers or heterotetramers (alpha2beta2 or alpha3beta). Meprin beta shows preference for acidic residues at the P1 and P1' sites of its substrate. Among its best substrates are growth factors and chemokines such as gastrin and osteopontin. Both alpha and beta subunits contain a catalytic astacin (M12 family) protease domain followed by the adhesion or interaction domains MAM, MATH and AM. The MATH and MAM domains provide symmetrical intersubunit disulfide bonds necessary for the dimerization of meprin subunits. The MATH domain may also be required for f
Probab=99.32 E-value=6.3e-12 Score=132.24 Aligned_cols=130 Identities=22% Similarity=0.388 Sum_probs=101.9
Q ss_pred cEEEEEEcccccchhhhhccccCCceecCCcEEE-ccceEEEEEEeCCCCCCCCcEEEEEEEccCCCC-CCCCeEE-EEE
Q 000550 426 GKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQI-GNRDCRLIVYPRGQSQPPCHLSVFLEVMDSRNT-SSDWSCF-VSH 502 (1431)
Q Consensus 426 ~~~twkI~NFS~lkemlk~~K~~Ge~i~S~~F~v-GG~~WRL~vYP~G~~~~~~yLSLYL~l~d~~~~-~~~WsV~-a~F 502 (1431)
..+.|+|.||+++.+. ...+..++||.|.. .||+.++.+||+|++.++.|||||++++.+++. -..|++. -++
T Consensus 2 p~~iWkI~~fs~~~~~----~~~~~~i~Sp~FYt~~GYkl~l~~ylnG~g~~~~~lsl~~~lm~Ge~D~~L~WPf~~~qi 77 (167)
T cd03782 2 PEHIWHIRNFTQLLAT----TPPNGKIYSPPFLSSTGYSFQVGLYLNGTDDYPGNLAIYLHLTSGPNDDQLQWPCPWQQA 77 (167)
T ss_pred CcEEEEeCcHHHHHHh----cCCCceEECCCCcCccCceeEEEEEecCCCCCCCEEEEEEEEeccCCCccccCCCcCCeE
Confidence 5799999999988762 22366899999986 599999999999987667899999999998764 3689999 899
Q ss_pred EEEEEeCCC---CceeEEe--cc-----cc---cc--ccc-----------------CcCccccccccccccccCCCCCc
Q 000550 503 RLSVVNQKM---EEKSVTK--ES-----QN---RY--SKA-----------------AKDWGWREFVTLTSLFDQDSGFL 550 (1431)
Q Consensus 503 kL~LvNq~g---~~~Sv~k--~~-----~~---~F--~~~-----------------~~~WG~~kFI~lsdL~dpesGYL 550 (1431)
+|.|+||+. ...+++. .+ .. .| +.. +.++||+.||+.+.|. ...||
T Consensus 78 t~~LlDQ~~d~~~r~~~~~~~t~~P~~~s~~n~~f~w~rP~kvg~~~~~~~~~~~~r~~~~G~~~Fish~~L~--~r~yi 155 (167)
T cd03782 78 TMMLLDQHPDIRQRMSNQRSVTTDPNMTSTDSDEYFWDDPRKVGSEVTDTDGSTFYRGPGYGTSAFITHLRLR--SRDFI 155 (167)
T ss_pred EEEEEcCCCchhhccceeeeEEecCCcccccCccceecCCcccCcccccccccccccccccCccceeeHHHHh--hcCcc
Confidence 999999973 2233332 11 11 34 322 4679999999999997 48899
Q ss_pred cCCEEEEEEEE
Q 000550 551 VQDTVVFSAEV 561 (1431)
Q Consensus 551 vDDsLtIe~eV 561 (1431)
.||++.|-+++
T Consensus 156 kdD~ifi~~~~ 166 (167)
T cd03782 156 KGDDVIFLLTM 166 (167)
T ss_pred cCCeEEEEEec
Confidence 99999987765
No 37
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.30 E-value=2.5e-12 Score=155.48 Aligned_cols=144 Identities=26% Similarity=0.577 Sum_probs=119.5
Q ss_pred CccEEEEEEcccccchhhhhccccCCceecCCcEEEccceEEEEEEeCCCCCCCCcEEEEEEEccCCC---CCCCCeEEE
Q 000550 424 HMGKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQPPCHLSVFLEVMDSRN---TSSDWSCFV 500 (1431)
Q Consensus 424 ~~~~~twkI~NFS~lkemlk~~K~~Ge~i~S~~F~vGG~~WRL~vYP~G~~~~~~yLSLYL~l~d~~~---~~~~WsV~a 500 (1431)
....++|+|++||.+.. .++||.|.+||+.|+|.++|+|+.+.+ +|+||+..-.+- ....|.|+|
T Consensus 37 ~~~sftW~vk~wsel~~----------k~~Sp~F~vg~~twki~lfPqG~nq~~--~sVyLe~~pqe~e~~~gk~~~cca 104 (1089)
T COG5077 37 LEMSFTWKVKRWSELAK----------KVESPPFSVGGHTWKIILFPQGNNQCN--VSVYLEYEPQELEETGGKYYDCCA 104 (1089)
T ss_pred hhcccceecCChhhhhh----------hccCCcccccCeeEEEEEecccCCccc--cEEEEEeccchhhhhcCcchhhhh
Confidence 45789999999999863 368999999999999999999986533 999999764321 123599999
Q ss_pred EEEEEEEeCCCCceeEEecccccccccCcCccccccccccccccCCCC---CccCCEEEEEEEEEEEcc-cccc-ccCCC
Q 000550 501 SHRLSVVNQKMEEKSVTKESQNRYSKAAKDWGWREFVTLTSLFDQDSG---FLVQDTVVFSAEVLILKE-TSIM-QDFTD 575 (1431)
Q Consensus 501 ~FkL~LvNq~g~~~Sv~k~~~~~F~~~~~~WG~~kFI~lsdL~dpesG---YLvDDsLtIe~eV~Vlk~-tg~~-~~~~~ 575 (1431)
+|-|.|-|+..+.......+.|+|+...++|||.+|+.+..|..|..| |+.+|++.|.|.|.|++. +|.+ +.+.+
T Consensus 105 qFaf~Is~p~~pti~~iN~sHhrFs~~~tDwGFt~f~dL~kl~~psp~~Ppfleeg~l~ItvyVRvlkdPTGVLWHsF~n 184 (1089)
T COG5077 105 QFAFDISNPKYPTIEYINKSHHRFSMESTDWGFTNFIDLNKLIEPSPGRPPFLEEGTLVITVYVRVLKDPTGVLWHSFLN 184 (1089)
T ss_pred heeeecCCCCCCchhhhhcccccccccccccchhhhhhhhhhcCCCCCCCCcccCCeEEEEEEEEEEeCCccceeecccc
Confidence 999999998875545556667899888899999999999999987666 799999999999999984 6765 78888
Q ss_pred Cccc
Q 000550 576 QDTE 579 (1431)
Q Consensus 576 ~dsk 579 (1431)
|+||
T Consensus 185 YnSK 188 (1089)
T COG5077 185 YNSK 188 (1089)
T ss_pred cccc
Confidence 8886
No 38
>cd03783 MATH_Meprin_Alpha Meprin family, Alpha subunit, MATH domain; Meprins are multidomain extracellular metalloproteases capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. They are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. The alpha subunit is synthesized as a membrane spanning protein, however, it is cleaved during biosynthesis and loses its transmembrane domain. It oligomerizes into large complexes, containing 10-100 subunits (dimers that associate noncovalently), which are secreted as latent proteases and can move through extracellular spaces in a nondestructive manner. This allows delivery of the concentrated protease to sites containing activating enzymes, such as sites of inflammation, infection or cancerous growth. Meprin alpha shows preference for small or hydrophobic residues at the P1 and P1' sites of its substrate. Both
Probab=99.27 E-value=1.2e-11 Score=130.80 Aligned_cols=126 Identities=23% Similarity=0.462 Sum_probs=98.8
Q ss_pred EEEEEEccccccCC-----ceeecCceEE-cCeeEEEEEEECCCCC-CCCCcEEEEEEEeCCCCCCCCCceEE-EEEEEE
Q 000550 94 VCRWTVHNFPRIRA-----RALWSKYFEV-GGYDCRLLVYPKGDSQ-ALPGYISIYLQIMDPRGTSSSKWDCF-ASYRLA 165 (1431)
Q Consensus 94 t~twtI~NFS~lK~-----ekv~Sp~F~v-GG~~WRL~VYP~G~~~-~~~~yLSVYLe~~~~~~s~~s~W~v~-a~Fkf~ 165 (1431)
.+.|+|.||+++.+ ..++||.|+. .||+.+|.+||+|+.. +.+.|+|+|++++.++.+.-..|.+. -+++|.
T Consensus 3 ~~iWkI~nfs~~~~~a~~~~~i~Sp~Fyt~~GYk~~l~~~lng~~~~~~g~~lSl~~~lm~Ge~D~~L~WP~~~~~itl~ 82 (167)
T cd03783 3 NAVWRVRNFSQILENTTKGDVLQSPRFYSPEGYGYGVSLYPLSNESDYSGNYTGLYFHLCSGENDAVLEWPALNRQAIIT 82 (167)
T ss_pred ceeEEECcHHHHHHhCcCCCeEECCCCccCCCceEEEEEEecCCCCCCCCCEEEEEEEEecccCCCcccCCCcCCEEEEE
Confidence 57899999998642 4699999987 5999999999999864 44679999999999998888899965 589999
Q ss_pred EEecCC---CcceEee----cc------------eeeec-----------CCCCCCCcCCCccccccccCcCCceecCCE
Q 000550 166 IVNLSD---ESKTIHR----DS------------WHRFS-----------SKKKSHGWCDFTPSSTVFDSKLGYLFNNDA 215 (1431)
Q Consensus 166 LvNq~g---~s~si~k----~s------------~hrFs-----------~~~~~WG~~kFI~~ddL~dp~~GFL~d~Ds 215 (1431)
|++|+. ...++.+ .. +++-. ..+.++||..|++.+.|+ ..+||+| |+
T Consensus 83 llDQ~~~~~~r~~~~~sf~~d~~~~~~~~~~~~~f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~--~r~yikd-Dt 159 (167)
T cd03783 83 VLDQDPDVRLRMSSSRSFTTDKSQTSSAINGTLRWDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLR--RRSFLKN-DD 159 (167)
T ss_pred EEcCCcchhhccccceeeecCCCcccccccccccccCCcccccccccccccCCcccccccceeHHHHh--hCCcccC-Ce
Confidence 999963 2222211 10 11221 134689999999999998 4889999 99
Q ss_pred EEEEEEE
Q 000550 216 VLITADI 222 (1431)
Q Consensus 216 LtIea~V 222 (1431)
|.|.+++
T Consensus 160 lfI~~~~ 166 (167)
T cd03783 160 LIIFVDF 166 (167)
T ss_pred EEEEEec
Confidence 9998875
No 39
>KOG1987 consensus Speckle-type POZ protein SPOP and related proteins with TRAF, MATH and BTB/POZ domains [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=99.09 E-value=3.2e-12 Score=146.36 Aligned_cols=268 Identities=23% Similarity=0.318 Sum_probs=189.9
Q ss_pred EEEEEcccccchhhhhccccCCceecCCcEEEccceEEEEEEeCCCCCCCCcEEEEEEEccCCCCCCCCeEEEEEEEEEE
Q 000550 428 FTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQPPCHLSVFLEVMDSRNTSSDWSCFVSHRLSVV 507 (1431)
Q Consensus 428 ~twkI~NFS~lkemlk~~K~~Ge~i~S~~F~vGG~~WRL~vYP~G~~~~~~yLSLYL~l~d~~~~~~~WsV~a~FkL~Lv 507 (1431)
+.|.|.||+... ..++|..|..||..|++.+||.|+ |++.|+.+.... +|.+.+.++|.++
T Consensus 6 ~~~~~~~~~~~~----------l~~ys~~~~~~~~~~~~~~~~~~~-----~~~~~~~~~~~~----~~~~~~~~~l~v~ 66 (297)
T KOG1987|consen 6 FTWVISNFSSVG----------LVIYSNGFVKGGCKWRLSAYPKGN-----YLSLTLSVSDSP----GWERYAKLRLTVV 66 (297)
T ss_pred cceeeccCcchh----------hhccccceeecCceEEEEEecCCC-----EEEEEEEeccCC----CcceeEEEEEEEc
Confidence 349999999875 257899999999999999999983 799999887632 8999999999999
Q ss_pred eCCCCce-eEEeccccccccc--CcCccccccccccccccCCCCCccCCEEEEEEEEEEEccccccccCCCCcccccccc
Q 000550 508 NQKMEEK-SVTKESQNRYSKA--AKDWGWREFVTLTSLFDQDSGFLVQDTVVFSAEVLILKETSIMQDFTDQDTESTNAG 584 (1431)
Q Consensus 508 Nq~g~~~-Sv~k~~~~~F~~~--~~~WG~~kFI~lsdL~dpesGYLvDDsLtIe~eV~Vlk~tg~~~~~~~~dsk~s~~G 584 (1431)
|+....+ +........|... ...||+..+++...+.+.+.||++++.+++-+.+.|++..+..+..... ....
T Consensus 67 n~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~g~~~~~~~~~~a~~~V~~~~~~~d~~~~~----~~~~ 142 (297)
T KOG1987|consen 67 NQKSEKYLSTVEEGFSWFRFNKVLKEWGFGKMLPLTLLIDCSNGFLVAHKLVLVARSEVFEAMGKSDVFKES----SKLI 142 (297)
T ss_pred cCCCcceeeeeeeeEEeccccccccccCcccccChHHhhcccCcEEEcCceEEEeeecceeeecccccchhc----cccc
Confidence 9987654 4332233344332 5789999999999999988999999888888888888765543221100 0000
Q ss_pred ccccccCCc----ceEEEEecchhhhHHHhhhccccCcceeeCCceeEEEEEecC------CeEEEEEEecC--CCCCCC
Q 000550 585 SQMDKIGKR----SSFTWKVENFLSFKEIMETRKIFSKFFQAGGCELRIGVYESF------DTICIYLESDQ--SVGSDL 652 (1431)
Q Consensus 585 ~~ld~~~~d----vtFTwkiENFSa~KeILaaR~i~SpvF~vgg~~WrI~VYPsg------~~LSLyL~~d~--~~~~~~ 652 (1431)
...+..+.. ..|+|.+.+|+..+.+.+...+++..|..++..||+..+|.+ ..++.||+..+ ......
T Consensus 143 ~~~d~~~~~~~~~~~F~~~~s~~~~~~~~~~~~~~~a~~f~~~~~~lk~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~ 222 (297)
T KOG1987|consen 143 TLLEEKPEVLEALNGFQVLPSQVSSVERIFEKHPDLAAAFKYKNRHLKLACMPVLLSLIETLNVSQSLQEASNYDLKEAK 222 (297)
T ss_pred cccccchhhHhhhceEEEeccchHHHHHhhcCChhhhhccccccHHHHHHHHHHHHHHHHhhhhcccHHHhchhHHHHHH
Confidence 111222333 679999999999998765556668999999999999999983 25668887643 222234
Q ss_pred CccEEEEEEEEEEeCCCCCcc---EEEeeccccCccCc-cccceeeccccccccCCceeCCEEEEEEEEe
Q 000550 653 DKNFWVRYRMAVVNQKNPTKT---VWKESSICTKTWNN-SVLQFMKVSDMLEADAGFLMRDTVVFVCEIL 718 (1431)
Q Consensus 653 ~~s~~vefrL~IvnQ~~g~~t---v~K~ss~~~k~Wg~-G~~kFI~lsdL~d~ekGYLVnDTli~EaeVl 718 (1431)
...+++...+..+||...+.. ..+........+.. .+.+++++.++.....+|+++|++.++++..
T Consensus 223 ~~~~~~~~~~~~ld~l~~~~~~~~~k~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~ 292 (297)
T KOG1987|consen 223 SALTYVIAAGFKLDWLEKKLNEVKEKKKKDLWYEIRLQELEEELKSLKDKCSDLEGLLVKDKAEVEAESE 292 (297)
T ss_pred HHHHHHHhccchHhHHHHHHHHHHHhhhHHHHHHHHHHHHHHHHHhhhhhhhhHHHHHHhhhhhhhcccC
Confidence 566778888888888653321 11110000001111 1467899999998899999999999988753
No 40
>KOG1987 consensus Speckle-type POZ protein SPOP and related proteins with TRAF, MATH and BTB/POZ domains [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=98.81 E-value=3.4e-09 Score=121.66 Aligned_cols=273 Identities=18% Similarity=0.265 Sum_probs=175.3
Q ss_pred EEEEEccccccCCceeecCceEEcCeeEEEEEEECCCCCCCCCcEEEEEEEeCCCCCCCCCceEEEEEEEEEEecCCCcc
Q 000550 95 CRWTVHNFPRIRARALWSKYFEVGGYDCRLLVYPKGDSQALPGYISIYLQIMDPRGTSSSKWDCFASYRLAIVNLSDESK 174 (1431)
Q Consensus 95 ~twtI~NFS~lK~ekv~Sp~F~vGG~~WRL~VYP~G~~~~~~~yLSVYLe~~~~~~s~~s~W~v~a~Fkf~LvNq~g~s~ 174 (1431)
+.|.+.||+... ...||..|..||..|++.+||.|+ |++.|+.+.... +|.+++.++|.++|+.....
T Consensus 6 ~~~~~~~~~~~~-l~~ys~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~-----~~~~~~~~~l~v~n~~~~~~ 73 (297)
T KOG1987|consen 6 FTWVISNFSSVG-LVIYSNGFVKGGCKWRLSAYPKGN------YLSLTLSVSDSP-----GWERYAKLRLTVVNQKSEKY 73 (297)
T ss_pred cceeeccCcchh-hhccccceeecCceEEEEEecCCC------EEEEEEEeccCC-----CcceeEEEEEEEccCCCcce
Confidence 349999999986 688999999999999999999985 799999875432 79999999999999986532
Q ss_pred -eEeecceee--ecCCCCCCCcCCCccccccccCcCCceecCCEEEEEEEEEEecCccccccCCcccCCCCccccccccC
Q 000550 175 -TIHRDSWHR--FSSKKKSHGWCDFTPSSTVFDSKLGYLFNNDAVLITADILILNESVSFMRDNNELQSPSMVSSSVVAG 251 (1431)
Q Consensus 175 -si~k~s~hr--Fs~~~~~WG~~kFI~~ddL~dp~~GFL~d~DsLtIea~V~Vlke~~~fs~~~~El~s~~~~g~ssi~~ 251 (1431)
+........ |..-...||+..+++...+.+...||+.+ +.+++-+.+.|++.......... +... + .+..
T Consensus 74 ~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~g~~~~-~~~~~~a~~~V~~~~~~~d~~~~---~~~~-~--~~~d 146 (297)
T KOG1987|consen 74 LSTVEEGFSWFRFNKVLKEWGFGKMLPLTLLIDCSNGFLVA-HKLVLVARSEVFEAMGKSDVFKE---SSKL-I--TLLE 146 (297)
T ss_pred eeeeeeeEEeccccccccccCcccccChHHhhcccCcEEEc-CceEEEeeecceeeecccccchh---cccc-c--cccc
Confidence 222123333 33336799999999999999988999999 78878887777765432111000 0000 0 0001
Q ss_pred CcccccC----cEEEEEEccccccccccccCcccCCceeccCeeEEEEEEEcCCCC--cceEEEEEEecCCCcccc-CCC
Q 000550 252 PVSDVLS----GKFTWKVHNFSLFKEMIKTQKIMSPVFPAGECNLRISVYQSSVNG--QEYLSMCLESKDMEKTVV-SDR 324 (1431)
Q Consensus 252 ~~sd~~~----g~ftwkI~NFS~lke~~k~eki~Sp~F~vGGy~WrI~vYPnG~n~--~~yLSLyL~L~d~e~~~~-~~w 324 (1431)
..... ..|+|.+.+|+.+....+...+++..|..++..|++.++|.+... ..+++.||+..+...... ...
T Consensus 147 --~~~~~~~~~~~F~~~~s~~~~~~~~~~~~~~~a~~f~~~~~~lk~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~ 224 (297)
T KOG1987|consen 147 --EKPEVLEALNGFQVLPSQVSSVERIFEKHPDLAAAFKYKNRHLKLACMPVLLSLIETLNVSQSLQEASNYDLKEAKSA 224 (297)
T ss_pred --cchhhHhhhceEEEeccchHHHHHhhcCChhhhhccccccHHHHHHHHHHHHHHHHhhhhcccHHHhchhHHHHHHHH
Confidence 11122 679999999999876544457778899999999999999998643 457778888765322110 111
Q ss_pred cEEEEEEEEEEeCCCC-CCce--eecccccccCCCCCCCCCCCCccceeeccccccCCCCcccCCcEEEEEEE
Q 000550 325 SCWCLFRMSVLNQSPG-SNHM--HRDSYGRFAADNKSGDNTSLGWNDYMKMADFVGHDSGFLVDDTAVFSTSF 394 (1431)
Q Consensus 325 sv~a~FtL~LLNQ~~g-~~~i--~r~s~~rF~~~~~~~~n~gwG~~kFIk~sdL~d~~sGYLvDDSLiIe~dI 394 (1431)
-.+.......+|+... .++. .+....+..... ..+ +.+++++.++.....+++.+|.+.+++..
T Consensus 225 ~~~~~~~~~~ld~l~~~~~~~~~k~~~~~~~~~~~-----~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~ 291 (297)
T KOG1987|consen 225 LTYVIAAGFKLDWLEKKLNEVKEKKKKDLWYEIRL-----QEL-EEELKSLKDKCSDLEGLLVKDKAEVEAES 291 (297)
T ss_pred HHHHHhccchHhHHHHHHHHHHHhhhHHHHHHHHH-----HHH-HHHHHhhhhhhhhHHHHHHhhhhhhhccc
Confidence 1233344445666421 1111 110111111110 111 45566766666556677777776665554
No 41
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=97.83 E-value=1.4e-05 Score=106.93 Aligned_cols=129 Identities=19% Similarity=0.253 Sum_probs=110.1
Q ss_pred EEEEEccccccCCceeecCceEEcCeeEEEEEEECCCCCCCCCcEEEEEEEeCCCCCCCCCceEEEEEEEEEEecCCCcc
Q 000550 95 CRWTVHNFPRIRARALWSKYFEVGGYDCRLLVYPKGDSQALPGYISIYLQIMDPRGTSSSKWDCFASYRLAIVNLSDESK 174 (1431)
Q Consensus 95 ~twtI~NFS~lK~ekv~Sp~F~vGG~~WRL~VYP~G~~~~~~~yLSVYLe~~~~~~s~~s~W~v~a~Fkf~LvNq~g~s~ 174 (1431)
.+|+..+...+.. ...|+.|..|+.+|++.+.|+|+. ...+++|++|.... .. ..|.|++++.+.+.|..++..
T Consensus 29 ~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~-~~-~~~s~~~~~~~~v~~~~~~~~ 102 (1093)
T KOG1863|consen 29 TTIDGIDDKSLLY-RALSSNFGAGATKWKILIAPKVNS---LQSTRKKLEVMPSQ-SL-KSWSCGAQAVLRVKNTIDNLP 102 (1093)
T ss_pred ccccCcCcchhhh-HhcCccccccccceeeeeccccCc---ccceeEEeeeccCC-CC-cceEecchhhhccccCCCCch
Confidence 3366666666554 788999999999999999999983 46899999997765 34 449999999999999556666
Q ss_pred eEeecceeeecCCCCCCCcCCCccccccccCcCCceecCCEEEEEEEEEEecCccc
Q 000550 175 TIHRDSWHRFSSKKKSHGWCDFTPSSTVFDSKLGYLFNNDAVLITADILILNESVS 230 (1431)
Q Consensus 175 si~k~s~hrFs~~~~~WG~~kFI~~ddL~dp~~GFL~d~DsLtIea~V~Vlke~~~ 230 (1431)
+..+...|.|.....+||+..|+.++++.++..||+.+ |++.++++|.|-..+..
T Consensus 103 ~~~~~~~h~~~~~~~dwg~~~~~~~~~~~~~~~~~~~~-~~~~~~~~v~v~~~~~~ 157 (1093)
T KOG1863|consen 103 DPEKAIHHVFTADERDWGFSCFSTSSDIRKPEDGYVRN-GLEKLEKRVRVEQPTSL 157 (1093)
T ss_pred hhhhhhhhcccccccchhhccchhHhhccCcccccccc-cceeeeeeeeeecCCcc
Confidence 67778899999999999999999999999999999999 99999999999887643
No 42
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=97.67 E-value=4.1e-05 Score=102.45 Aligned_cols=132 Identities=21% Similarity=0.271 Sum_probs=109.4
Q ss_pred ccEEEEEEcccccchhhhhccccCCceecCCcEEEccceEEEEEEeCCCCCCCCcEEEEEEEccCCCCCCCCeEEEEEEE
Q 000550 425 MGKFTWRIENFTRLKDLLKKRKITGLCIKSRRFQIGNRDCRLIVYPRGQSQPPCHLSVFLEVMDSRNTSSDWSCFVSHRL 504 (1431)
Q Consensus 425 ~~~~twkI~NFS~lkemlk~~K~~Ge~i~S~~F~vGG~~WRL~vYP~G~~~~~~yLSLYL~l~d~~~~~~~WsV~a~FkL 504 (1431)
....+|.+.+...+.. ...|+.|..|+.+|++.+.|+++. ...+++|+++...... ..|++.+++.+
T Consensus 26 ~~~~~~~~~~~~~~~~----------~~~~~~~~~~~~~~~~~~~~~~~~--~~~~~~~~~~~~~~~~-~~~s~~~~~~~ 92 (1093)
T KOG1863|consen 26 NQSTTIDGIDDKSLLY----------RALSSNFGAGATKWKILIAPKVNS--LQSTRKKLEVMPSQSL-KSWSCGAQAVL 92 (1093)
T ss_pred cccccccCcCcchhhh----------HhcCccccccccceeeeeccccCc--ccceeEEeeeccCCCC-cceEecchhhh
Confidence 3444566666555442 246899999999999999999873 5789999999887655 56999999999
Q ss_pred EEEeCCCCceeEEecccccccccCcCccccccccccccccCCCCCccCCEEEEEEEEEEEccccc
Q 000550 505 SVVNQKMEEKSVTKESQNRYSKAAKDWGWREFVTLTSLFDQDSGFLVQDTVVFSAEVLILKETSI 569 (1431)
Q Consensus 505 ~LvNq~g~~~Sv~k~~~~~F~~~~~~WG~~kFI~lsdL~dpesGYLvDDsLtIe~eV~Vlk~tg~ 569 (1431)
.++|..+......+...|+|.....+||+.+|+.++++.+++.||+.+|++.++++|.|...++.
T Consensus 93 ~v~~~~~~~~~~~~~~~h~~~~~~~dwg~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~~~~~ 157 (1093)
T KOG1863|consen 93 RVKNTIDNLPDPEKAIHHVFTADERDWGFSCFSTSSDIRKPEDGYVRNGLEKLEKRVRVEQPTSL 157 (1093)
T ss_pred ccccCCCCchhhhhhhhhcccccccchhhccchhHhhccCcccccccccceeeeeeeeeecCCcc
Confidence 99994444445666778999888899999999999999999999999999999999999988765
No 43
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.49 E-value=0.0016 Score=78.76 Aligned_cols=80 Identities=19% Similarity=0.249 Sum_probs=68.2
Q ss_pred CcEEEEEEccccccccc---cccCcccCCceecc--CeeEEEEEEEcCCC--CcceEEEEEEecCCCccccCCCcEEEEE
Q 000550 258 SGKFTWKVHNFSLFKEM---IKTQKIMSPVFPAG--ECNLRISVYQSSVN--GQEYLSMCLESKDMEKTVVSDRSCWCLF 330 (1431)
Q Consensus 258 ~g~ftwkI~NFS~lke~---~k~eki~Sp~F~vG--Gy~WrI~vYPnG~n--~~~yLSLyL~L~d~e~~~~~~wsv~a~F 330 (1431)
.|+++|+|.+|+..+.. +.+..++|+.|+.. ||..+..+|-||++ .+.++|+|++++.++++..+.|++.-+.
T Consensus 279 ~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~lng~g~~~~~~~s~~~~~~~ge~d~~l~wpf~~~v 358 (391)
T KOG0297|consen 279 DGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKLCARIYLNGDGTGKGTHLSLYFVVMRGEYDALLPWPFRQKV 358 (391)
T ss_pred CCEEEEEecchhhhhHHHHhccCccccccccccccccHHHHhHhhhcCCCCCCcceeeeeeeecccCcccccccCCCCce
Confidence 58999999999655432 34568999999764 88888889988764 4579999999999999999999999999
Q ss_pred EEEEEeC
Q 000550 331 RMSVLNQ 337 (1431)
Q Consensus 331 tL~LLNQ 337 (1431)
+|.+++|
T Consensus 359 ~~~l~dq 365 (391)
T KOG0297|consen 359 TLMLLDQ 365 (391)
T ss_pred EEEEecc
Confidence 9999999
No 44
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=91.09 E-value=0.13 Score=62.69 Aligned_cols=80 Identities=19% Similarity=0.342 Sum_probs=69.7
Q ss_pred ccceEEEEEEccccccCC-------ceeecCceEE--cCeeEEEEEEECCCCCCCCCcEEEEEEEeCCCCCCCCCceEEE
Q 000550 90 EHSAVCRWTVHNFPRIRA-------RALWSKYFEV--GGYDCRLLVYPKGDSQALPGYISIYLQIMDPRGTSSSKWDCFA 160 (1431)
Q Consensus 90 ~~~at~twtI~NFS~lK~-------ekv~Sp~F~v--GG~~WRL~VYP~G~~~~~~~yLSVYLe~~~~~~s~~s~W~v~a 160 (1431)
-+.+++.|+|.+|...+. ..++|+.|.. +||.-+..+|-+|+..+.+.++|+|+.+..++++.-..|.+.-
T Consensus 277 ~~~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~lng~g~~~~~~~s~~~~~~~ge~d~~l~wpf~~ 356 (391)
T KOG0297|consen 277 SYDGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKLCARIYLNGDGTGKGTHLSLYFVVMRGEYDALLPWPFRQ 356 (391)
T ss_pred ccCCEEEEEecchhhhhHHHHhccCccccccccccccccHHHHhHhhhcCCCCCCcceeeeeeeecccCcccccccCCCC
Confidence 568899999999965442 4689999974 9999999999999887777899999999998877788899999
Q ss_pred EEEEEEEec
Q 000550 161 SYRLAIVNL 169 (1431)
Q Consensus 161 ~Fkf~LvNq 169 (1431)
+.+|.+++|
T Consensus 357 ~v~~~l~dq 365 (391)
T KOG0297|consen 357 KVTLMLLDQ 365 (391)
T ss_pred ceEEEEecc
Confidence 999999999
No 45
>PF05086 Dicty_REP: Dictyostelium (Slime Mold) REP protein; InterPro: IPR007778 This family consists of REP proteins from a number of Dictyostelium species (Slime molds). REP protein is probably involved in transcription regulation and control of DNA replication, specifically the amplification of plasmid at low copy numbers. The formation of homomultimers may be required for their regulatory activity [].
Probab=82.01 E-value=2.7 Score=54.09 Aligned_cols=22 Identities=14% Similarity=0.249 Sum_probs=10.7
Q ss_pred ccccCCCCcCCCCCCceeEEEEcc
Q 000550 64 GVEDLSLGTRDGSGGAQESVAVDR 87 (1431)
Q Consensus 64 ~~~~~~~~~~~~~~g~~~~v~v~r 87 (1431)
...++-.++|..++ -..|+|+.
T Consensus 303 ~~~~~~~~srksgs--lk~Vrvn~ 324 (911)
T PF05086_consen 303 QSKRPRISSRKSGS--LKDVRVNN 324 (911)
T ss_pred cccCCCcccccCCC--cceeeecc
Confidence 34445555555554 24455543
No 46
>KOG2059 consensus Ras GTPase-activating protein [Signal transduction mechanisms]
Probab=54.45 E-value=18 Score=46.78 Aligned_cols=162 Identities=20% Similarity=0.251 Sum_probs=120.9
Q ss_pred hHHHhhhhcccccCCCCCCCCCCCchhHHHHHHHhhcCCccccchhhhccc---cccCCCCchHHHHHHHHHhccCCCCC
Q 000550 983 GLIVNSLRALDGAVPQGCPEPRRRPQSAQKISLVLDKAPKHLQPDLVALVP---KLVEHSEHPLAADALIERLQKSDAEP 1059 (1431)
Q Consensus 983 ~livn~l~~ld~~v~~~~~~~r~~~~~~~k~~~~l~~ap~~lq~d~i~~~p---~~~~~s~h~~~a~~l~~~l~~~~~~~ 1059 (1431)
.|-+|--..-|+++|. |.-+-+|.+|=.++. .||+-.+++| ||.- +-.+||.-|..++-..
T Consensus 268 slrl~v~y~~D~Vlps---------~~Y~pL~~LLl~s~d-~~p~taS~v~ileEl~~--~kqdva~~LVrLfl~~---- 331 (800)
T KOG2059|consen 268 SLRLNVTYTEDHVLPS---------QYYKPLMDLLLESVD-VQPITASAVAILEELCR--EKQDVARPLVRLFLHS---- 331 (800)
T ss_pred ceeeeEEeeeceeccH---------hhhhhHHHHHHhccc-ccccchhHHHHHHHHhh--hhhhHHHHHHHHHhcc----
Confidence 5666777788999995 899999999999998 8887555544 5544 8999999999988774
Q ss_pred ccchhhHhhhccccc-----------ChHHHHHHHHHHHhhhcCCC-CCchhhhHHHHhhccccccchHHHHHHHHHHHH
Q 000550 1060 ALRMPVFVALSQLDF-----------GSEVWERILLKSLELLTDSN-DEPLAVTIDFIFKAASQCQHLPEAVRSVRVRLK 1127 (1431)
Q Consensus 1060 ~l~~p~~~als~l~~-----------~~~~~~~~~~~~~~~l~~~~-~e~l~~~i~f~~~~~~~~~~~~~~~~~~~~~l~ 1127 (1431)
-+-.|+|+||-++++ +..+.++-....|.+-.--= -..|--||+=||+.-..|. |-++=-+++.-|.
T Consensus 332 ~r~~pfl~~L~~~ei~rtqD~NTlFRgNSLasK~mde~mkl~Gm~YLh~tLkPvi~kI~eekK~cE-iDP~Kv~~g~~lE 410 (800)
T KOG2059|consen 332 DRIVPFLSALAVNEIKRTQDPNTIFRGNSLASKMMDEFMKLAGMHYLHVTLKPVIDKIFEEKKPCE-IDPSKVKVGDNLE 410 (800)
T ss_pred cchHHHHHHHHHHHHHhcCCCceeeeccchHHHHHHHHHHHhchHHHHHHhHHHHHHHHhhcCCcc-cChhhhhhhhHHH
Confidence 788999999999997 35677888888777644221 2456668899999999999 6554333333332
Q ss_pred -hcCCCCCh---hHHHHHHhhhccchhHHHHHHHhccCC
Q 000550 1128 -NLGAEVSP---CVLDFLSKTVNSWGDVAETILRDIDCD 1162 (1431)
Q Consensus 1128 -~~g~~~s~---~~ld~~~~~v~~~~~~~e~~l~~i~~~ 1162 (1431)
|++ ..-. -+|+.|.+.+..||.|--+++++....
T Consensus 411 ~n~~-nLr~y~~~lf~ait~S~~~CP~vm~~~F~~Lr~~ 448 (800)
T KOG2059|consen 411 TNLE-NLRVYVGRLFEAITKSSTRCPTVMCQIFYDLRER 448 (800)
T ss_pred hhHH-HHHHHHHHHHHHHHhccccChHHHHHHHHHHHHH
Confidence 221 1111 399999999999999999999987643
No 47
>KOG4425 consensus Uncharacterized conserved protein [Function unknown]
Probab=51.33 E-value=8.5 Score=47.15 Aligned_cols=14 Identities=14% Similarity=0.356 Sum_probs=8.1
Q ss_pred ceEEEEEEcccccc
Q 000550 92 SAVCRWTVHNFPRI 105 (1431)
Q Consensus 92 ~at~twtI~NFS~l 105 (1431)
+..+.|.-.+|...
T Consensus 727 kdvi~fda~d~h~v 740 (900)
T KOG4425|consen 727 KDVICFDAEDFHDV 740 (900)
T ss_pred ceEEEeehHHHHHH
Confidence 44566666666654
No 48
>PF06933 SSP160: Special lobe-specific silk protein SSP160; InterPro: IPR009701 This family consists of several special lobe-specific silk protein SSP160 sequences which appear to be specific to Chironomus (Midge) species.
Probab=45.77 E-value=13 Score=44.69 Aligned_cols=12 Identities=75% Similarity=0.689 Sum_probs=4.8
Q ss_pred EEEeeecCCCCC
Q 000550 23 TTTTTTTGASST 34 (1431)
Q Consensus 23 ~~~~~~~~~~~~ 34 (1431)
|||||||.|..|
T Consensus 687 TTTTTTTAAPtt 698 (756)
T PF06933_consen 687 TTTTTTTAAPTT 698 (756)
T ss_pred eeeeeeecCCcc
Confidence 333444444433
No 49
>PF00126 HTH_1: Bacterial regulatory helix-turn-helix protein, lysR family; InterPro: IPR000847 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family, the lysR family, groups together a range of proteins, including ampR, catM, catR, cynR, cysB, gltC, iciA, ilvY, irgB, lysR, metR, mkaC, mleR, nahR, nhaR, nodD, nolR, oxyR, pssR, rbcR, syrM, tcbR, tfdS and trpI [, , , , ]. The majority of these proteins appear to be transcription activators and most are known to negatively regulate their own expression. All possess a potential HTH DNA-binding motif towards their N-termini.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent; PDB: 3T1B_D 3SZP_A 1O7L_C 1B9N_A 1B9M_A 3FZJ_J 3FXR_B 3FXQ_A 3FXU_A 2IJL_B ....
Probab=44.92 E-value=16 Score=32.81 Aligned_cols=26 Identities=23% Similarity=0.333 Sum_probs=24.0
Q ss_pred HHHHHHHhhhhhHHHHHHhhcChhhh
Q 000550 1367 LREVAELANVDRAALWHQLCASEDEI 1392 (1431)
Q Consensus 1367 ~~~~~~~~~~~~~~~~~~~~~~~~~~ 1392 (1431)
+..||+..|++.+++|++|+..|+++
T Consensus 16 ~~~AA~~l~is~~~vs~~i~~LE~~l 41 (60)
T PF00126_consen 16 ISAAAEELGISQSAVSRQIKQLEEEL 41 (60)
T ss_dssp HHHHHHHCTSSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHhhccchHHHHHHHHHHHHh
Confidence 57899999999999999999999875
No 50
>cd00871 PI4Ka Phosphoinositide 4-kinase(PI4K), accessory domain (PIK domain); PIK domain is conserved in PI3 and PI4-kinases. Its role is unclear but it has been suggested to be involved in substrate presentation. PI4K phosphorylates hydroxylgroup at position 4 on the inositol ring of phosphoinositide, the first commited step in the phosphatidylinositol cycle.
Probab=44.89 E-value=18 Score=39.80 Aligned_cols=123 Identities=16% Similarity=0.123 Sum_probs=86.4
Q ss_pred chhHHHHHHHhhcCCccccchhhhccccccCCCCchHHHHHHHHHhccCCCCCccchhhHhhhcccccChHHHHHHHHHH
Q 000550 1007 PQSAQKISLVLDKAPKHLQPDLVALVPKLVEHSEHPLAADALIERLQKSDAEPALRMPVFVALSQLDFGSEVWERILLKS 1086 (1431)
Q Consensus 1007 ~~~~~k~~~~l~~ap~~lq~d~i~~~p~~~~~s~h~~~a~~l~~~l~~~~~~~~l~~p~~~als~l~~~~~~~~~~~~~~ 1086 (1431)
+.+...+..++-+-|..+.++ =..||++++......++.+|.-+|.=. .+.+.+||.=|.-.=.-=..||+.|
T Consensus 19 ~~l~~e~~~Lv~~~p~~~~~~-p~AL~~~l~~~~~~~~~~~l~~Ll~W~------pi~p~~ALell~~~y~~~~~Vr~yA 91 (175)
T cd00871 19 SKLKSEVTRLVRKHPLAVVKI-PEALPFLVTGKSVDENSPDLKYLLYWA------PVSPVQALSLFTPQYPGHPLVLQYA 91 (175)
T ss_pred hhhhHHHHHHHHHCHHHHhcC-HHHHHHHhCccChhhHHHHHHHHcCCC------CCCHHHHHHHhCcccCCCHHHHHHH
Confidence 466677777888888877755 566788888777777777887666432 2667788877653322235799999
Q ss_pred HhhhcCCCCCchhhhHHHHhhccccccchHHHHHHHHHHHHhcCCCCChhHHHHHHhhhccchhHHHHHH
Q 000550 1087 LELLTDSNDEPLAVTIDFIFKAASQCQHLPEAVRSVRVRLKNLGAEVSPCVLDFLSKTVNSWGDVAETIL 1156 (1431)
Q Consensus 1087 ~~~l~~~~~e~l~~~i~f~~~~~~~~~~~~~~~~~~~~~l~~~g~~~s~~~ld~~~~~v~~~~~~~e~~l 1156 (1431)
++.|....+|.| +..||+.|||.|-- . ...|=+||-++-....-+|--++
T Consensus 92 vr~L~~~~~e~l-------------~~YlpQLVQaLryd--~-----~~~l~~FLl~~A~~s~~faHql~ 141 (175)
T cd00871 92 VRVLESYPVETV-------------FFYIPQIVQALRYD--K-----MGYVEEYILETAKRSQLFAHQII 141 (175)
T ss_pred HHHHHhCCHHHH-------------HHHHHHHHHHHhcc--c-----cchHHHHHHHHHhhhHHHHHHHH
Confidence 999999999987 23499999998863 2 22466666666555556666654
No 51
>PF05642 Sporozoite_P67: Sporozoite P67 surface antigen; InterPro: IPR008845 This family consists of several Theileria P67 surface antigens. A stage specific surface antigen of Theileria parva, p67, is the basis for the development of an anti-sporozoite vaccine for the control of East Coast fever (ECF) in Bos taurus. The antigen has been shown to contain five distinct linear peptide sequences recognised by sporozoite-neutralising murine monoclonal antibodies [].
Probab=43.88 E-value=15 Score=46.22 Aligned_cols=16 Identities=19% Similarity=0.411 Sum_probs=10.6
Q ss_pred ceeccCeeEEEEEEEc
Q 000550 284 VFPAGECNLRISVYQS 299 (1431)
Q Consensus 284 ~F~vGGy~WrI~vYPn 299 (1431)
.|..-++.++|.+|..
T Consensus 490 af~~i~~gfkiayyat 505 (727)
T PF05642_consen 490 AFKSIGFGFKIAYYAT 505 (727)
T ss_pred HHhhhccceeeeehhh
Confidence 4544466778888865
No 52
>PF14915 CCDC144C: CCDC144C protein coiled-coil region
Probab=36.65 E-value=51 Score=39.09 Aligned_cols=71 Identities=21% Similarity=0.333 Sum_probs=56.6
Q ss_pred hHHHHHHHHHHHHHhhhhhHHHHHHhhcChhhhhhhhhHHHHHHhhhhhhhHHHHHHHhHhHHhhcccccc
Q 000550 1360 IRPVLSMLREVAELANVDRAALWHQLCASEDEIIRIRDERKAEISNMVREKAVFSQKLAESEAAGNRLKVL 1430 (1431)
Q Consensus 1360 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1430 (1431)
.|+-|.---.=.+..++.+..|=..+...-||-+|+++.|.-++++....-..|+|+|+++|.-.+.|+-+
T Consensus 96 ~rsRLaaAi~d~dqsq~skrdlelafqr~rdEw~~lqdkmn~d~S~lkd~ne~LsQqLskaesK~nsLe~e 166 (305)
T PF14915_consen 96 YRSRLAAAIQDHDQSQTSKRDLELAFQRARDEWVRLQDKMNSDVSNLKDNNEILSQQLSKAESKFNSLEIE 166 (305)
T ss_pred HHHHHHHHHhhHHHHHhhHHHHHHHHHHHhhHHHHHHHHhcchHHhHHHHhHHHHHHHHHHHHHHHHHHHH
Confidence 34444443333455667777777778888899999999999999999999999999999999998887754
No 53
>PF00356 LacI: Bacterial regulatory proteins, lacI family; InterPro: IPR000843 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. These proteins are very diverse, but for convenience may be grouped into subfamilies on the basis of sequence similarity. One such family groups together a range of proteins, including ascG, ccpA, cytR, ebgR, fruR, galR, galS, lacI, malI, opnR, purF, rafR, rbtR and scrR [, ]. Within this family, the HTH motif is situated towards the N terminus.; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005622 intracellular; PDB: 3KJX_C 1ZAY_A 1VPW_A 2PUA_A 1QQA_A 1PNR_A 1JFT_A 1QP4_A 2PUD_A 1JH9_A ....
Probab=33.83 E-value=67 Score=27.97 Aligned_cols=39 Identities=21% Similarity=0.373 Sum_probs=29.8
Q ss_pred HHHHHHHhhhhhHHHHHHhhcChhhhhhhhhHHHHHHhhhhhh
Q 000550 1367 LREVAELANVDRAALWHQLCASEDEIIRIRDERKAEISNMVRE 1409 (1431)
Q Consensus 1367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1409 (1431)
|+++|+.+++..+++.+-|.-. -++.++.+..+...++|
T Consensus 2 i~dIA~~agvS~~TVSr~ln~~----~~vs~~tr~rI~~~a~~ 40 (46)
T PF00356_consen 2 IKDIAREAGVSKSTVSRVLNGP----PRVSEETRERILEAAEE 40 (46)
T ss_dssp HHHHHHHHTSSHHHHHHHHTTC----SSSTHHHHHHHHHHHHH
T ss_pred HHHHHHHHCcCHHHHHHHHhCC----CCCCHHHHHHHHHHHHH
Confidence 7899999999999999999877 25566665555554443
No 54
>TIGR00637 ModE_repress ModE molybdate transport repressor domain. ModE is a molybdate-activated repressor of the molybdate transport operon in E. coli. It consists of the domain represented by this model and two tandem copies of mop-like domain, where Mop proteins are a family of 68-residue molybdenum-pterin binding proteins of Clostridium pasteurianum. This model also represents the full length of a pair of archaeal proteins that lack Mop-like domains. PSI-BLAST analysis shows similarity to helix-turn-helix regulatory proteins.
Probab=32.58 E-value=31 Score=34.49 Aligned_cols=28 Identities=14% Similarity=0.204 Sum_probs=25.3
Q ss_pred HHHHHHHhhhhhHHHHHHhhcChhhhhh
Q 000550 1367 LREVAELANVDRAALWHQLCASEDEIIR 1394 (1431)
Q Consensus 1367 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1394 (1431)
+.++|+..|+..+++|++|+..|+++=.
T Consensus 19 is~AA~~L~iS~stvs~~I~~LE~~lg~ 46 (99)
T TIGR00637 19 ISQAAKDAGISYKSAWDYIRAMNNLSGE 46 (99)
T ss_pred HHHHHHHHCCCHHHHHHHHHHHHHHhCC
Confidence 5789999999999999999999998643
No 55
>PF07524 Bromo_TP: Bromodomain associated; InterPro: IPR006565 This bromodomain is found in eukaryotic transcription factors and PHD domain containing proteins (IPR001965 from INTERPRO). The tandem PHD finger-bromodomain is found in many chromatin-associated proteins. It is involved in gene silencing by the human co-repressor KRAB-associated protein 1 (KAP1). The tandem PHD finger-bromodomain of KAP1 has a distinct structure that joins the two protein modules. The first helix, alpha(Z), of an atypical bromodomain forms the central hydrophobic core that anchors the other three helices of the bromodomain on one side and the zinc binding PHD finger on the other []. The Rap1 GTPase-activating protein, Sipa1, is modulated by the cellular bromodomain protein, Brd4. Brd4 belongs to the BET family and is a multifunctional protein involved in transcription, replication, the signal transduction pathway, and cell cycle progression. All of these functions are linked to its association with acetylated chromatin. It has tandem bromodomains []. The dysregulation of the Brd4-associated pathways may play an important role in breast cancer progression []. Bovine papillomavirus type 1 E2 also binds to chromosomes in a complex with Brd4. Interaction with Brd4 is additionally important for E2-mediated transcriptional regulation [, ].
Probab=27.76 E-value=79 Score=29.88 Aligned_cols=71 Identities=17% Similarity=0.096 Sum_probs=53.5
Q ss_pred HHHHHHHHHhhccCCCCCCccccchhHHHHHHHhhcccchHHHHHHHHHHHHHhhhhhHHHHHHhhcChhhhhh
Q 000550 1321 RGRMLKRLVDRATSTTESSRGVDLDLEILVILVCEEQEIIRPVLSMLREVAELANVDRAALWHQLCASEDEIIR 1394 (1431)
Q Consensus 1321 ~~~~~~~lv~~~~s~~~~~~~v~~~l~~l~~lv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1394 (1431)
..++|+..|..++....-.+-=..+||+|+.++.. +.+-+.+.++.-||+++-...+++.-..|.++=.+.
T Consensus 4 ~~~~l~~~va~il~~~GF~~~~~~al~~Ltdi~~~---yl~~l~~~~~~~ae~~gRt~~~~~Dv~~al~~~gi~ 74 (77)
T PF07524_consen 4 ARSLLRRSVAQILKHAGFDSASPSALDTLTDILQR---YLQELGRTAKRYAEHAGRTEPNLQDVEQALEEMGIS 74 (77)
T ss_pred HHHHHHHHHHHHHHHcCccccCHHHHHHHHHHHHH---HHHHHHHHHHHHHHHcCCCCCCHHHHHHHHHHhCCC
Confidence 45677777777765544555556789999999875 577788888999999999988888887777654443
No 56
>PF03962 Mnd1: Mnd1 family; InterPro: IPR005647 This family of proteins includes meiotic nuclear division protein 1 (MND1) from Saccharomyces cerevisiae (Baker's yeast). The mnd1 protein forms a complex with hop2 to promote homologous chromosome pairing and meiotic double-strand break repair [].
Probab=27.63 E-value=87 Score=34.92 Aligned_cols=103 Identities=17% Similarity=0.147 Sum_probs=59.3
Q ss_pred CCchHHHHHHHHHhhccCCCCCCccccchhHHHHHHHhhcc-------------cchHHHHHHHHHHHHHhhhhhHHHHH
Q 000550 1317 DESYRGRMLKRLVDRATSTTESSRGVDLDLEILVILVCEEQ-------------EIIRPVLSMLREVAELANVDRAALWH 1383 (1431)
Q Consensus 1317 ~~~~~~~~~~~lv~~~~s~~~~~~~v~~~l~~l~~lv~~~~-------------~~~~~~~~~~~~~~~~~~~~~~~~~~ 1383 (1431)
.++|.-.=|-.+.-.+|+= ++ ..==|+|..||.+.. -|-......++...+..+.+...+-.
T Consensus 9 ~~~y~lKELEK~~pK~~gI--~~---~~VKdvlq~LvDDglV~~EKiGssn~YWsFps~~~~~~~~~~~~l~~~~~~~~~ 83 (188)
T PF03962_consen 9 KDFYTLKELEKLAPKEKGI--VS---MSVKDVLQSLVDDGLVHVEKIGSSNYYWSFPSQAKQKRQNKLEKLQKEIEELEK 83 (188)
T ss_pred CCcccHHHHHHHcccccCC--ch---hhHHHHHHHHhccccchhhhccCeeEEEecChHHHHHHHHHHHHHHHHHHHHHH
Confidence 3455555555555555522 22 222478888887633 23345666777777777777777777
Q ss_pred HhhcChhhhhhhhhHHHHHHhhhhhhhHHHHHHHhHhHHhhccccc
Q 000550 1384 QLCASEDEIIRIRDERKAEISNMVREKAVFSQKLAESEAAGNRLKV 1429 (1431)
Q Consensus 1384 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1429 (1431)
.+...++++-..+..|... .|...++++|.+.+.....|+.
T Consensus 84 ~i~~l~~~i~~~~~~r~~~-----~eR~~~l~~l~~l~~~~~~l~~ 124 (188)
T PF03962_consen 84 KIEELEEKIEEAKKGREES-----EEREELLEELEELKKELKELKK 124 (188)
T ss_pred HHHHHHHHHHHHHhccccc-----HHHHHHHHHHHHHHHHHHHHHH
Confidence 7777777666665544333 4445555555555555544443
No 57
>PF14675 FANCI_S1: FANCI solenoid 1; PDB: 3S51_A 3S4Z_A 3S4W_A.
Probab=26.79 E-value=1.7e+02 Score=33.61 Aligned_cols=131 Identities=15% Similarity=0.128 Sum_probs=81.0
Q ss_pred hhHhhHhHHHhhhhcccccCCCCCCCCCCCchhHHHHHHHhhcCCccccchhhhccccccCCCCchHHHHHHHHHhccCC
Q 000550 977 QSAELLGLIVNSLRALDGAVPQGCPEPRRRPQSAQKISLVLDKAPKHLQPDLVALVPKLVEHSEHPLAADALIERLQKSD 1056 (1431)
Q Consensus 977 ~~~~l~~livn~l~~ld~~v~~~~~~~r~~~~~~~k~~~~l~~ap~~lq~d~i~~~p~~~~~s~h~~~a~~l~~~l~~~~ 1056 (1431)
+--+|..+||..++. +.. ...+=.++--|++-+|+.. ..+..+- +.--...-=.-+++.|=+..
T Consensus 44 ~Lv~l~~~~v~~i~~-g~~------~~~~~ldLlP~~Ls~L~~~-~~i~~~~--------~~~sG~eyK~~iI~~lc~~~ 107 (223)
T PF14675_consen 44 HLVELAELCVDSIRS-GDN------KNGKWLDLLPKCLSALSAS-ESINYNG--------GELSGEEYKKQIINSLCSSR 107 (223)
T ss_dssp HHHHHHHHHHHHHHS----------S-STTTTHHHHHHHHHHT--S--SSSS------------HHHHHHHHHHHHHHS-
T ss_pred HHHHHHHHHHHHHHc-CCc------ccchHHHHHHHHHHHHhcC-ccccccc--------ccccchHHHHHHHHHHHhCc
Confidence 445666677776653 111 1112246677777776655 2222210 00112334445677777777
Q ss_pred CCCccchhhHhhhcccccChHHHHHHHHHHHhhhcCCCCCchhhhHHHHhhccccccchHHHHHHHHH
Q 000550 1057 AEPALRMPVFVALSQLDFGSEVWERILLKSLELLTDSNDEPLAVTIDFIFKAASQCQHLPEAVRSVRV 1124 (1431)
Q Consensus 1057 ~~~~l~~p~~~als~l~~~~~~~~~~~~~~~~~l~~~~~e~l~~~i~f~~~~~~~~~~~~~~~~~~~~ 1124 (1431)
-.++.-+++-..+..+.|+.+-.+.|...+++.|..+++.+||..+.=+|.=+++..+ ..++.++..
T Consensus 108 W~~~~l~~l~~mfrd~~Ls~~e~~~vv~Kv~~~l~~l~l~elPpLvyQLL~Lsskg~k-~~vL~gl~~ 174 (223)
T PF14675_consen 108 WPPQILIQLASMFRDVPLSKEELEFVVEKVLSMLKKLDLQELPPLVYQLLLLSSKGSK-KLVLEGLIK 174 (223)
T ss_dssp --TTTHHHHHHHGGGS---HHHHHHHHHHHHHHHTTS-GGGHHHHHHHHHHHHTTTTH-HHHHHHHHH
T ss_pred CcHHHHHHHHHHHhcCCCCHHHHHHHHHHHHHHHhcCChhhccHHHHHHHHHhhcccH-HHHHHHHHH
Confidence 7899999999999999999999999999999999999999999999999988887653 333444443
No 58
>PF01710 HTH_Tnp_IS630: Transposase; InterPro: IPR002622 Transposase proteins are necessary for efficient DNA transposition. This entry includes insertion sequences from Synechocystis sp. (strain PCC 6803) three of which are characterised as homologous to bacterial IS5- and IS4- and to several members of the IS630-Tc1-mariner superfamily []. More information about these proteins can be found at Protein of the Month: Transposase [].
Probab=26.37 E-value=73 Score=32.66 Aligned_cols=40 Identities=33% Similarity=0.459 Sum_probs=34.9
Q ss_pred cchhHHHHHHHhhcccchHHHHHHHHHHHHHhhhhhHHHHHHhhcC
Q 000550 1343 DLDLEILVILVCEEQEIIRPVLSMLREVAELANVDRAALWHQLCAS 1388 (1431)
Q Consensus 1343 ~~~l~~l~~lv~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1388 (1431)
.||.|-|..+|.+++.+- ++|.|+..+|+.++||+.|...
T Consensus 56 Kid~~~L~~~v~~~pd~t------l~Ela~~l~Vs~~ti~~~Lkrl 95 (119)
T PF01710_consen 56 KIDRDELKALVEENPDAT------LRELAERLGVSPSTIWRALKRL 95 (119)
T ss_pred cccHHHHHHHHHHCCCcC------HHHHHHHcCCCHHHHHHHHHHc
Confidence 678899999999999874 5788899999999999999754
No 59
>PRK15424 propionate catabolism operon regulatory protein PrpR; Provisional
Probab=24.77 E-value=3.3e+02 Score=35.24 Aligned_cols=30 Identities=23% Similarity=0.443 Sum_probs=23.7
Q ss_pred cchHHHHHH----HHHHHHHhhhhhHHHHHHhhc
Q 000550 1358 EIIRPVLSM----LREVAELANVDRAALWHQLCA 1387 (1431)
Q Consensus 1358 ~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~ 1387 (1431)
.++.-+|.. +.++|+..+++|++||+.|+.
T Consensus 500 ~~I~~~L~~~~Gn~~~aA~~LGIsRtTL~RkLk~ 533 (538)
T PRK15424 500 ATLQQALERFNGDKTAAANYLGISRTTLWRRLKA 533 (538)
T ss_pred HHHHHHHHHhCCCHHHHHHHhCCCHHHHHHHHHH
Confidence 455556654 478999999999999998874
No 60
>PF01602 Adaptin_N: Adaptin N terminal region; InterPro: IPR002553 Proteins synthesized on the ribosome and processed in the endoplasmic reticulum are transported from the Golgi apparatus to the trans-Golgi network (TGN), and from there via small carrier vesicles to their final destination compartment. This traffic is bidirectional, to ensure that proteins required to form vesicles are recycled. Vesicles have specific coat proteins (such as clathrin or coatomer) that are important for cargo selection and direction of transfer []. Clathrin coats contain both clathrin and adaptor complexes that link clathrin to receptors in coated vesicles. Clathrin-associated protein complexes are believed to interact with the cytoplasmic tails of membrane proteins, leading to their selection and concentration. The two major types of clathrin adaptor complexes are the heterotetrameric adaptor protein (AP) complexes, and the monomeric GGA (Golgi-localising, Gamma-adaptin ear domain homology, ARF-binding proteins) adaptors []. All AP complexes are heterotetramers composed of two large subunits (adaptins), a medium subunit (mu) and a small subunit (sigma). Each subunit has a specific function. Adaptin subunits recognise and bind to clathrin through their hinge region (clathrin box), and recruit accessory proteins that modulate AP function through their C-terminal appendage domains. By contrast, GGAs are monomers composed of four domains, which have functions similar to AP subunits: an N-terminal VHS (Vps27p/Hrs/Stam) domain, a GAT (GGA and Tom1) domain, a hinge region, and a C-terminal GAE (gamma-adaptin ear) domain. The GAE domain is similar to the AP gamma-adaptin ear domain, being responsible for the recruitment of accessory proteins that regulate clathrin-mediated endocytosis []. While clathrin mediates endocytic protein transport from ER to Golgi, coatomers (COPI, COPII) primarily mediate intra-Golgi transport, as well as the reverse Golgi to ER transport of dilysine-tagged proteins []. Coatomers reversibly associate with Golgi (non-clathrin-coated) vesicles to mediate protein transport and for budding from Golgi membranes []. Coatomer complexes are hetero-oligomers composed of at least an alpha, beta, beta', gamma, delta, epsilon and zeta subunits. This entry represents the N-terminal domain of various adaptins from different AP clathrin adaptor complexes (including AP1, AP2, AP3 and AP4), and from the beta and gamma subunits of various coatomer (COP) adaptors. This domain has a 2-layer alpha/alpha fold that forms a right-handed superhelix, and is a member of the ARM repeat superfamily []. The N-terminal region of the various AP adaptor proteins share strong sequence identity; by contrast, the C-terminal domains of different adaptins share similar structural folds, but have little sequence identity []. It has been proposed that the N-terminal domain interacts with another uniform component of the coated vesicles. More information about these proteins can be found at Protein of the Month: Clathrin [].; GO: 0006886 intracellular protein transport, 0016192 vesicle-mediated transport, 0030117 membrane coat; PDB: 1W63_C 2JKR_A 2JKT_A 2XA7_A 2VGL_B 3TJZ_E.
Probab=24.70 E-value=1.9e+02 Score=36.20 Aligned_cols=146 Identities=18% Similarity=0.244 Sum_probs=81.4
Q ss_pred hHHHHHHHhhcCCccccchhhhccccccCCCCchH----HHHHHHHHhccCCCCCccchhhHhhhcccccChHHHHHHHH
Q 000550 1009 SAQKISLVLDKAPKHLQPDLVALVPKLVEHSEHPL----AADALIERLQKSDAEPALRMPVFVALSQLDFGSEVWERILL 1084 (1431)
Q Consensus 1009 ~~~k~~~~l~~ap~~lq~d~i~~~p~~~~~s~h~~----~a~~l~~~l~~~~~~~~l~~p~~~als~l~~~~~~~~~~~~ 1084 (1431)
+..++..+|...-..+|--++.++..+........ +-..|..+|+. +.+++.+-...++..+.-..+++..+..
T Consensus 193 ~~~~L~~~l~~~~~~~q~~il~~l~~~~~~~~~~~~~~~~i~~l~~~l~s--~~~~V~~e~~~~i~~l~~~~~~~~~~~~ 270 (526)
T PF01602_consen 193 LIRILCQLLSDPDPWLQIKILRLLRRYAPMEPEDADKNRIIEPLLNLLQS--SSPSVVYEAIRLIIKLSPSPELLQKAIN 270 (526)
T ss_dssp HHHHHHHHHTCCSHHHHHHHHHHHTTSTSSSHHHHHHHHHHHHHHHHHHH--HHHHHHHHHHHHHHHHSSSHHHHHHHHH
T ss_pred HHHHhhhcccccchHHHHHHHHHHHhcccCChhhhhHHHHHHHHHHHhhc--cccHHHHHHHHHHHHhhcchHHHHhhHH
Confidence 34444444444444455555555555555444433 56667777774 3678888888888888888888888888
Q ss_pred HHHhhhcCCCCCchhhhHHHHhhccccccchHHHHHHHHHHHHhcCCCCCh----hHHHHHHhhhccc--hhHHHHHHHh
Q 000550 1085 KSLELLTDSNDEPLAVTIDFIFKAASQCQHLPEAVRSVRVRLKNLGAEVSP----CVLDFLSKTVNSW--GDVAETILRD 1158 (1431)
Q Consensus 1085 ~~~~~l~~~~~e~l~~~i~f~~~~~~~~~~~~~~~~~~~~~l~~~g~~~s~----~~ld~~~~~v~~~--~~~~e~~l~~ 1158 (1431)
....+|.+.+.+---++++-|.+-+.. -|..+......+..+-.+-.+ +.||.|...++.. ..|.+.+++-
T Consensus 271 ~L~~lL~s~~~nvr~~~L~~L~~l~~~---~~~~v~~~~~~~~~l~~~~d~~Ir~~~l~lL~~l~~~~n~~~Il~eL~~~ 347 (526)
T PF01602_consen 271 PLIKLLSSSDPNVRYIALDSLSQLAQS---NPPAVFNQSLILFFLLYDDDPSIRKKALDLLYKLANESNVKEILDELLKY 347 (526)
T ss_dssp HHHHHHTSSSHHHHHHHHHHHHHHCCH---CHHHHGTHHHHHHHHHCSSSHHHHHHHHHHHHHH--HHHHHHHHHHHHHH
T ss_pred HHHHHhhcccchhehhHHHHHHHhhcc---cchhhhhhhhhhheecCCCChhHHHHHHHHHhhcccccchhhHHHHHHHH
Confidence 888888843332333444443333222 144444333333333322222 3666666655432 5566666666
Q ss_pred c
Q 000550 1159 I 1159 (1431)
Q Consensus 1159 i 1159 (1431)
+
T Consensus 348 l 348 (526)
T PF01602_consen 348 L 348 (526)
T ss_dssp H
T ss_pred H
Confidence 5
No 61
>TIGR02077 thr_lead_pep thr operon leader peptide. This family consists of examples of the threonine biosynthesis (thr) operon leader peptide, also called the thr operon attenuator. The small gene for this peptide is often missed in genome annotation. It should be looked for in genomes of the proteobacteria, immediately upstream of genes for threonine biosynthesis, typically aspartokinase I/homoserine dehydrogenase, homoserine kinase, and threonine synthase. Transcription of the rest of the Thr operon is attenuated (mostly turned off) unless the ribosome pauses during a stretch of the leader sequence rich in both Ile (made from Thr) and in Thr itself because of the scarcity of those amino acids at the time. The leader peptide itself, once made, may have no role other than to be degraded. Similar systems exist for some other amino acid biosynthetic operons, such as Trp.
Probab=24.52 E-value=71 Score=24.65 Aligned_cols=13 Identities=85% Similarity=0.787 Sum_probs=6.4
Q ss_pred eeEEEEEeeecCC
Q 000550 19 TTTTTTTTTTTGA 31 (1431)
Q Consensus 19 ~~~~~~~~~~~~~ 31 (1431)
+|+++|||-|||+
T Consensus 7 ttt~~TtT~ttgn 19 (26)
T TIGR02077 7 TTTTTTTTITTGN 19 (26)
T ss_pred EEEEEEEEEEecc
Confidence 4444445555554
No 62
>PF12348 CLASP_N: CLASP N terminal; InterPro: IPR024395 This domain is found in the N-terminal region of CLIP-associated proteins (CLASPs), which are widely conserved microtubule plus-end-tracking proteins that regulate the stability of dynamic microtubules [, ]. The domain is also found in other proteins involved in microtubule binding, including STU1, MOR1 and spindle pole body component Alp14.; PDB: 2QK2_A.
Probab=23.80 E-value=1.7e+02 Score=32.54 Aligned_cols=37 Identities=19% Similarity=0.173 Sum_probs=32.0
Q ss_pred hhhhHHHHHHHHhcCcCchhhhhHHHHHHHHhhhcCC
Q 000550 1281 DFTCVLGLAETLALSRDIRVREFVKILYTILLKWYPD 1317 (1431)
Q Consensus 1281 ~f~~~l~la~~l~~s~~~~v~~f~~~~y~~~f~~~~~ 1317 (1431)
.++.++..-..++.-+++.||.-.+.+|..+++.|++
T Consensus 174 ~~~~l~~~l~~~l~D~~~~VR~~Ar~~~~~l~~~~~~ 210 (228)
T PF12348_consen 174 FLKQLVKALVKLLSDADPEVREAARECLWALYSHFPE 210 (228)
T ss_dssp HHHHHHHHHHHHHTSS-HHHHHHHHHHHHHHHHHH-H
T ss_pred hHHHHHHHHHHHCCCCCHHHHHHHHHHHHHHHHHCCH
Confidence 4688888889999999999999999999999999954
No 63
>PRK01905 DNA-binding protein Fis; Provisional
Probab=23.78 E-value=1.7e+02 Score=27.92 Aligned_cols=62 Identities=18% Similarity=0.239 Sum_probs=39.7
Q ss_pred chHHHHHHHHHhhccCCCCCCccccchhHHHHHHHhhcccchHHHHHH----HHHHHHHhhhhhHHHHHHhhc
Q 000550 1319 SYRGRMLKRLVDRATSTTESSRGVDLDLEILVILVCEEQEIIRPVLSM----LREVAELANVDRAALWHQLCA 1387 (1431)
Q Consensus 1319 ~~~~~~~~~lv~~~~s~~~~~~~v~~~l~~l~~lv~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~ 1387 (1431)
-|-|.+|...++..+.+.. +...+..| . .-|..+++-+|.- ..++|+..+++|++||..++.
T Consensus 8 ~~~~~~~~~~~~~~~~~~~-~~~~~~~l---~---~~E~~~i~~aL~~~~gn~s~aAr~LGIsrstL~rklkk 73 (77)
T PRK01905 8 QCIRDSLDQYFRDLDGSNP-HDVYDMVL---S---CVEKPLLEVVMEQAGGNQSLAAEYLGINRNTLRKKLQQ 73 (77)
T ss_pred HHHHHHHHHHHHHHcCCCC-ccHHHHHH---H---HHHHHHHHHHHHHcCCCHHHHHHHHCCCHHHHHHHHHH
Confidence 4667888888888877621 12221111 1 1133444455543 678999999999999998875
No 64
>PF04967 HTH_10: HTH DNA binding domain; InterPro: IPR007050 Numerous bacterial transcription regulatory proteins bind DNA via a helix-turn-helix (HTH) motif. This entry represents the HTH DNA binding domain found in Halobacterium salinarium (Halobacterium halobium) and described as a putative bacterio-opsin activator.
Probab=22.22 E-value=68 Score=28.89 Aligned_cols=29 Identities=24% Similarity=0.388 Sum_probs=25.5
Q ss_pred HHHHHHHHhhhhhHHHHHHhhcChhhhhh
Q 000550 1366 MLREVAELANVDRAALWHQLCASEDEIIR 1394 (1431)
Q Consensus 1366 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1394 (1431)
-+.++|+..++.++++..+||.-|..+++
T Consensus 25 tl~elA~~lgis~st~~~~LRrae~kli~ 53 (53)
T PF04967_consen 25 TLEELAEELGISKSTVSEHLRRAERKLIE 53 (53)
T ss_pred CHHHHHHHhCCCHHHHHHHHHHHHHHHhC
Confidence 36789999999999999999999888763
No 65
>PF00613 PI3Ka: Phosphoinositide 3-kinase family, accessory domain (PIK domain); InterPro: IPR001263 Phosphatidylinositol 3-kinase (PI3-kinase) (2.7.1.137 from EC) is an enzyme that phosphorylates phosphoinositides on the 3-hydroxyl group of the inositol ring. The role of the accessory domain of phosphoinositide 3-kinase (PI3-kinase) is unclear. It may be involved in substrate presentation [].; GO: 0004428 inositol or phosphatidylinositol kinase activity; PDB: 1E8W_A 1E8X_A 1E7V_A 1E90_A 1E7U_A 2WXL_A 4AJW_B 2WXQ_A 2WXP_A 2WXM_A ....
Probab=22.02 E-value=2.1e+02 Score=31.85 Aligned_cols=75 Identities=23% Similarity=0.211 Sum_probs=50.2
Q ss_pred ccccccC--CCCchHHHHHHHHHhccCCCCCccchhhHhhhcccccChHHHHHHHHHHHhhhcCCCCCchhhhHHHHhhc
Q 000550 1031 LVPKLVE--HSEHPLAADALIERLQKSDAEPALRMPVFVALSQLDFGSEVWERILLKSLELLTDSNDEPLAVTIDFIFKA 1108 (1431)
Q Consensus 1031 ~~p~~~~--~s~h~~~a~~l~~~l~~~~~~~~l~~p~~~als~l~~~~~~~~~~~~~~~~~l~~~~~e~l~~~i~f~~~~ 1108 (1431)
.+|+++. +-.++....+...+|.+= +. +++.+||.=|.-.-.- ..||+-|++.|....+|+|--
T Consensus 46 aL~~~L~sv~w~~~~~~~~~~~ll~~W---~~--~~p~~AL~LL~~~f~~-~~VR~yAv~~L~~~~d~~l~~-------- 111 (184)
T PF00613_consen 46 ALPKLLRSVDWWNPEEVSEAYQLLLQW---PP--ISPEDALELLSPNFPD-PFVRQYAVRRLESLSDEELLF-------- 111 (184)
T ss_dssp GHHHHHTTSTTTSHHHHHHHHHHHHTS---HC--TTHHHHHHCTSTT----HHHHHHHHHHHCTS-HHHHHH--------
T ss_pred HHHHHHhhCCCCchhhHHHHHHHHHcC---CC--CCHHHHHHHHHhhccH-HHHHHHHHHHHHHcCchHHHH--------
Confidence 3444433 344555445666677663 12 7888999988875333 899999999999999888743
Q ss_pred cccccchHHHHHHHHH
Q 000550 1109 ASQCQHLPEAVRSVRV 1124 (1431)
Q Consensus 1109 ~~~~~~~~~~~~~~~~ 1124 (1431)
.||+-|||+|-
T Consensus 112 -----yLpQLVQaLr~ 122 (184)
T PF00613_consen 112 -----YLPQLVQALRY 122 (184)
T ss_dssp -----HHHHHHHHGGG
T ss_pred -----HHHHHHHHhee
Confidence 38999999764
No 66
>PF05008 V-SNARE: Vesicle transport v-SNARE protein N-terminus; InterPro: IPR007705 V-SNARE proteins are required for protein traffic between eukaryotic organelles. The v-SNAREs on transport vesicles interact with t-SNAREs on target membranes in order to facilitate this []. This domain is the N-terminal half of the V-Snare proteins. ; GO: 0006886 intracellular protein transport, 0016020 membrane; PDB: 2V8S_V 1VCS_A 3ONL_C 3ONJ_A 2QYW_A.
Probab=22.01 E-value=86 Score=29.54 Aligned_cols=66 Identities=20% Similarity=0.270 Sum_probs=51.5
Q ss_pred HHHHHHHHHhhhhhHHHHHHhhcChhhhhhhhhHHHHHHhhhh-hhhHHHHHHHhHhHHhhcccccc
Q 000550 1365 SMLREVAELANVDRAALWHQLCASEDEIIRIRDERKAEISNMV-REKAVFSQKLAESEAAGNRLKVL 1430 (1431)
Q Consensus 1365 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~ 1430 (1431)
+++..+-...+.+|..+-+.+...=+|.-.+=+.|+.|+.++- .+|..+..+|..-.+....||.+
T Consensus 10 ~~l~~~~~~~~~~r~~~i~~~e~~l~ea~~~l~qMe~E~~~~p~s~r~~~~~kl~~yr~~l~~lk~~ 76 (79)
T PF05008_consen 10 SKLERIKNLSGEQRKSLIREIERDLDEAEELLKQMELEVRSLPPSERNQYKSKLRSYRSELKKLKKE 76 (79)
T ss_dssp HHHHHGGGS-CHHHHHHHHHHHHHHHHHHHHHHHHHHHHCTS-HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHhhccChHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4444444444558888888888888888888899999999997 89999999999988888777754
No 67
>COG3050 HolD DNA polymerase III, psi subunit [DNA replication, recombination, and repair]
Probab=21.47 E-value=45 Score=34.73 Aligned_cols=26 Identities=46% Similarity=0.823 Sum_probs=15.8
Q ss_pred HHHHHHHHHHHHHhhhhhHHHHHHhhcChh
Q 000550 1361 RPVLSMLREVAELANVDRAALWHQLCASED 1390 (1431)
Q Consensus 1361 ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 1390 (1431)
.|-++-++-= -.-|++||+|||+.|-
T Consensus 105 Sp~~s~~~~N----~~arrALWQQIc~~~~ 130 (133)
T COG3050 105 SPALSQLRAN----HQARRALWQQICTYEH 130 (133)
T ss_pred ChhHHhhhcC----HHHHHHHHHHHHhhcc
Confidence 4555554421 2347788888888764
No 68
>PF05539 Pneumo_att_G: Pneumovirinae attachment membrane glycoprotein G; InterPro: IPR008781 This family of proteins contain the major surface glycoprotein of turkey rhinotracheitis virus (TRTV), avian pneumovirus (APV), the aetiological agent of turkey rhinotracheitis (TRT), and other Metapneumoviruses. The major surface glycoprotein is the attachment (G) protein, which, by analogy with other respiratory syncytial viruses (RSV), has been proposed to be responsible for virus binding to its cell receptor. The APV G gene and its predicted protein have several features in common with their RSV counterparts. Both G proteins are type II glycoproteins and both the RSV G and APV G proteins are heavily O-glycosylated. In both RSV and APV, the G protein is the most variable protein and is a major target for neutralizing antibodies [].
Probab=20.36 E-value=3e+02 Score=33.11 Aligned_cols=20 Identities=20% Similarity=0.192 Sum_probs=17.7
Q ss_pred ceeecCceEEcCeeEEEEEE
Q 000550 108 RALWSKYFEVGGYDCRLLVY 127 (1431)
Q Consensus 108 ekv~Sp~F~vGG~~WRL~VY 127 (1431)
+.+|+.+|.+.++.||..+.
T Consensus 377 ~tyY~~Pf~Cwrr~~RC~Cd 396 (408)
T PF05539_consen 377 DTYYSKPFNCWRRNWRCFCD 396 (408)
T ss_pred hhhhcCCcchhhhceeeEec
Confidence 45899999999999998776
Done!