Query 047807
Match_columns 169
No_of_seqs 161 out of 1061
Neff 8.5
Searched_HMMs 46136
Date Fri Mar 29 03:25:02 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/047807.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/047807hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd03772 MATH_HAUSP Herpesvirus 100.0 8.2E-30 1.8E-34 182.9 17.4 130 10-152 2-135 (137)
2 cd03775 MATH_Ubp21p Ubiquitin- 100.0 3.9E-30 8.4E-35 184.0 15.4 125 12-148 2-134 (134)
3 cd03774 MATH_SPOP Speckle-type 100.0 2.8E-29 6E-34 180.5 14.3 133 8-152 2-139 (139)
4 cd03773 MATH_TRIM37 Tripartite 99.9 4.6E-27 9.9E-32 167.4 13.1 124 9-148 3-130 (132)
5 cd03780 MATH_TRAF5 Tumor Necro 99.9 5E-27 1.1E-31 170.2 12.6 133 11-147 1-147 (148)
6 cd00270 MATH_TRAF_C Tumor Necr 99.9 5.1E-27 1.1E-31 170.4 12.6 131 11-148 1-149 (149)
7 cd03776 MATH_TRAF6 Tumor Necro 99.9 3.4E-27 7.5E-32 171.2 11.1 131 11-148 1-147 (147)
8 cd03777 MATH_TRAF3 Tumor Necro 99.9 4.5E-26 9.7E-31 170.8 14.3 134 9-148 37-184 (186)
9 cd03779 MATH_TRAF1 Tumor Necro 99.9 3.3E-26 7.1E-31 165.5 12.5 133 11-148 1-147 (147)
10 cd03781 MATH_TRAF4 Tumor Necro 99.9 4.4E-26 9.6E-31 166.7 13.2 131 11-148 1-154 (154)
11 cd03771 MATH_Meprin Meprin fam 99.9 4E-25 8.7E-30 162.7 13.8 133 10-148 1-167 (167)
12 cd03778 MATH_TRAF2 Tumor Necro 99.9 9.5E-25 2.1E-29 159.8 12.6 133 9-147 17-163 (164)
13 cd00121 MATH MATH (meprin and 99.9 8.5E-24 1.8E-28 147.3 14.9 124 11-148 1-126 (126)
14 PF00917 MATH: MATH domain; I 99.9 5.2E-23 1.1E-27 142.9 10.2 118 17-149 1-119 (119)
15 cd03782 MATH_Meprin_Beta Mepri 99.8 2.4E-20 5.2E-25 135.7 10.4 132 10-147 1-166 (167)
16 cd03783 MATH_Meprin_Alpha Mepr 99.8 2.7E-20 5.8E-25 136.0 10.4 132 10-147 1-166 (167)
17 smart00061 MATH meprin and TRA 99.8 2.5E-19 5.4E-24 119.5 11.5 94 13-123 2-95 (95)
18 COG5077 Ubiquitin carboxyl-ter 99.7 9.5E-18 2.1E-22 144.1 6.9 137 5-153 33-174 (1089)
19 KOG1987 Speckle-type POZ prote 98.9 2.3E-08 4.9E-13 80.0 12.3 130 12-161 5-137 (297)
20 KOG1863 Ubiquitin carboxyl-ter 98.5 1.7E-07 3.6E-12 86.9 5.7 130 12-155 28-157 (1093)
21 KOG0297 TNF receptor-associate 97.3 0.00018 3.8E-09 60.1 2.8 80 9-92 278-365 (391)
22 PF02362 B3: B3 DNA binding do 55.3 27 0.00058 22.6 4.1 22 117-145 63-84 (100)
23 PF06943 zf-LSD1: LSD1 zinc fi 25.9 38 0.00082 16.8 0.8 11 46-56 4-14 (25)
24 PF06565 DUF1126: Repeat of un 21.0 47 0.001 17.5 0.6 10 135-144 5-14 (33)
No 1
>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=99.97 E-value=8.2e-30 Score=182.91 Aligned_cols=130 Identities=17% Similarity=0.338 Sum_probs=108.8
Q ss_pred CCeEEEEEcCcccccccCCCcEEeCcEEEcCeEeeeceEEEEeeCCCC----CCCeEEEEEEeccCCCCCCCCeEEEEEE
Q 047807 10 PADYIFKIKSFNLLADSTVDGFESGVFESGGYYWCVCTRLVFYPKGKG----SSDHLSLYLKIDESNSYPNAAWSVNVCY 85 (169)
Q Consensus 10 ~~~~~w~I~nfs~l~~~~~~~~~S~~f~~gG~~W~~~~~l~~yP~g~~----~~~~lSvyL~~~~~~~~~~~~w~~~~~f 85 (169)
.++|+|+|+|||.+. +.++|+.|.+||++| +|.+||+|.. ..+||||||.|.+... ..+ |++.|+|
T Consensus 2 ~~~~~~~I~~~S~l~----e~~~S~~f~vgG~~W----~i~~~P~g~~~~~~~~~~lsvyL~~~~~~~-~~~-w~i~a~~ 71 (137)
T cd03772 2 EATFSFTVERFSRLS----ESVLSPPCFVRNLPW----KIMVMPRNYPDRNPHQKSVGFFLQCNAESD-STS-WSCHAQA 71 (137)
T ss_pred CcEEEEEECCcccCC----CcEECCCEEECCcce----EEEEEeCCCCCCCCCCCeEEEEEeeCCcCC-CCC-CeEEEEE
Confidence 578999999999983 689999999999999 9999999962 2479999999976432 334 9999999
Q ss_pred EEEEEeCCCCceeeEeecCCceeeecCCCCCcCccccccchhhccCCCCeEeCCEEEEEEEEEEecC
Q 047807 86 RLFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDKFLTLAELNQHLKGYLLNNTCTFGAEIYVIKP 152 (169)
Q Consensus 86 ~l~l~nq~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~L~~~~~~fl~~D~l~i~~~V~v~~~ 152 (169)
+|+|+||+++...... ...+.|......|||++||++++|+++++|||+||+|+|||+|+|-.+
T Consensus 72 ~~~l~~~~~~~~~~~~---~~~~~f~~~~~~~G~~~fi~~~~L~~~~sgyl~~D~l~Ie~~V~~~~~ 135 (137)
T cd03772 72 VLRIINYKDDEPSFSR---RISHLFFSKENDWGFSNFMTWSEVTDPEKGFIEDDTITLEVYVQADAP 135 (137)
T ss_pred EEEEEcCCCCcccEEE---eeeeEEcCCCCCccchheeEHHHhcCCCCCcEECCEEEEEEEEEeeCC
Confidence 9999999864333322 244678776789999999999999877899999999999999988663
No 2
>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=99.97 E-value=3.9e-30 Score=184.01 Aligned_cols=125 Identities=21% Similarity=0.491 Sum_probs=106.0
Q ss_pred eEEEEEcCcccccccCCCcEEeCcEEEcCeEeeeceEEEEeeCCCCCCCeEEEEEEeccCCC----CCCCCeEEEEEEEE
Q 047807 12 DYIFKIKSFNLLADSTVDGFESGVFESGGYYWCVCTRLVFYPKGKGSSDHLSLYLKIDESNS----YPNAAWSVNVCYRL 87 (169)
Q Consensus 12 ~~~w~I~nfs~l~~~~~~~~~S~~f~~gG~~W~~~~~l~~yP~g~~~~~~lSvyL~~~~~~~----~~~~~w~~~~~f~l 87 (169)
+|+|+|.|||.+. +.++|++|.+|||+| +|.+||+|+...+|+|+||.+.+.+. ++.+ |.+.|+|+|
T Consensus 2 ~f~w~I~~fS~~~----~~~~S~~F~vGG~~W----~l~~yP~G~~~~~~iSlyL~l~~~~~~~~~~~~~-~~v~a~f~~ 72 (134)
T cd03775 2 SFTWRIKNWSELE----KKVHSPKFKCGGFEW----RILLFPQGNSQTGGVSIYLEPHPEEEEKAPLDED-WSVCAQFAL 72 (134)
T ss_pred cEEEEECCcccCC----cceeCCCEEECCeeE----EEEEeCCCCCCCCeEEEEEEecCcccccccCCCC-CeEEEEEEE
Confidence 6999999999974 689999999999999 99999999855789999999876432 2445 999999999
Q ss_pred EEEeCCCCceeeEeecCCceeeecCCCCCcCccccccchhhccC----CCCeEeCCEEEEEEEEE
Q 047807 88 FVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDKFLTLAELNQH----LKGYLLNNTCTFGAEIY 148 (169)
Q Consensus 88 ~l~nq~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~L~~~----~~~fl~~D~l~i~~~V~ 148 (169)
+|+||.++...... ...+.|+....+|||.+||++++|++| ++|||+||+|+|++.|+
T Consensus 73 ~l~n~~~~~~~~~~---~~~~~F~~~~~~wG~~~fi~~~~L~~~~~~~~~g~l~nD~l~I~~~~~ 134 (134)
T cd03775 73 VISNPGDPSIQLSN---VAHHRFNAEDKDWGFTRFIELRKLAHRTPDKPSPFLENGELNITVYVR 134 (134)
T ss_pred EEEcCCCCccceEc---cceeEeCCCCCCCChhHcccHHHHcccccCCCCceeECCEEEEEEEEC
Confidence 99999876543332 357899877789999999999999954 57999999999999873
No 3
>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=99.97 E-value=2.8e-29 Score=180.52 Aligned_cols=133 Identities=25% Similarity=0.384 Sum_probs=109.0
Q ss_pred CCCCeEEEEEcCcccccccCCCcEEeCcEEEcC---eEeeeceEEEEeeCCC--CCCCeEEEEEEeccCCCCCCCCeEEE
Q 047807 8 LPPADYIFKIKSFNLLADSTVDGFESGVFESGG---YYWCVCTRLVFYPKGK--GSSDHLSLYLKIDESNSYPNAAWSVN 82 (169)
Q Consensus 8 ~~~~~~~w~I~nfs~l~~~~~~~~~S~~f~~gG---~~W~~~~~l~~yP~g~--~~~~~lSvyL~~~~~~~~~~~~w~~~ 82 (169)
....+|+|+|+|||.+.+..++.+.|++|.+|| ++| +|++||+|. +..+|+|+||++.+... +++.
T Consensus 2 ~~~~~~~w~I~~fS~~~~~~~~~i~S~~F~vgg~~~~~W----~l~~yP~G~~~~~~~~iSlyL~l~~~~~-----~~v~ 72 (139)
T cd03774 2 VVKFCYMWTISNFSFCREEMGEVIKSSTFSSGANDKLKW----CLRVNPKGLDEESKDYLSLYLLLVSCPK-----SEVR 72 (139)
T ss_pred ceEEEEEEEECCchhhhhcCCCEEECCCeecCCcCCceE----EEEEeCCCCCCCCCCeEEEEEEEccCCC-----CcEE
Confidence 346789999999999765324789999999998 499 999999997 45689999999975331 6799
Q ss_pred EEEEEEEEeCCCCceeeEeecCCceeeecCCCCCcCccccccchhhccCCCCeEeCCEEEEEEEEEEecC
Q 047807 83 VCYRLFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDKFLTLAELNQHLKGYLLNNTCTFGAEIYVIKP 152 (169)
Q Consensus 83 ~~f~l~l~nq~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~L~~~~~~fl~~D~l~i~~~V~v~~~ 152 (169)
|+|+|+|+||+++...... ....+.|.. ..+|||.+||++++|.++.+|||+||+|+|+|+|+|+++
T Consensus 73 a~f~~~l~n~~~~~~~~~~--~~~~~~f~~-~~~wG~~~fi~~~~L~~~~~g~l~dD~l~I~c~I~V~~~ 139 (139)
T cd03774 73 AKFKFSILNAKGEETKAME--SQRAYRFVQ-GKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQD 139 (139)
T ss_pred EEEEEEEEecCCCeeeeec--ccCcEeCCC-CCccCHHHeeeHHHhhhhhcccccCCEEEEEEEEEEEcC
Confidence 9999999999987543221 123567764 579999999999999876789999999999999999753
No 4
>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=99.95 E-value=4.6e-27 Score=167.37 Aligned_cols=124 Identities=25% Similarity=0.414 Sum_probs=101.4
Q ss_pred CCCeEEEEEcCcccccccCCCcEEeCcEEEcCeEeeeceEEEEeeCCCC--CCCeEEEEEEeccCCCCCCCCeEEEEEEE
Q 047807 9 PPADYIFKIKSFNLLADSTVDGFESGVFESGGYYWCVCTRLVFYPKGKG--SSDHLSLYLKIDESNSYPNAAWSVNVCYR 86 (169)
Q Consensus 9 ~~~~~~w~I~nfs~l~~~~~~~~~S~~f~~gG~~W~~~~~l~~yP~g~~--~~~~lSvyL~~~~~~~~~~~~w~~~~~f~ 86 (169)
...+++|+|.|||.+.+. ++.++|+.|.+|||+| +|.+||+|.. ..+|||+||.+.+.. + |.+.++|+
T Consensus 3 ~~~~~~~~I~~fS~~~~~-~~~~~S~~F~vgG~~W----~i~~yP~G~~~~~~~~lSl~L~l~~~~----~-~~~~~~~~ 72 (132)
T cd03773 3 PYDSATFTLENFSTLRQS-ADPVYSDPLNVDGLCW----RLKVYPDGNGEVRGNFLSVFLELCSGL----G-EASKYEYR 72 (132)
T ss_pred CCcccEEEECChhhhhcC-CcceeCCCeEeCCccE----EEEEECCCCCCCCCCEEEEEEEeecCC----C-CceeEEEE
Confidence 467899999999998642 3789999999999999 9999999983 467999999987542 2 67889999
Q ss_pred EEEEeCCCCceeeEeecCCceeeecCCCCCcCccccccchhhccCCCCeEeC--CEEEEEEEEE
Q 047807 87 LFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDKFLTLAELNQHLKGYLLN--NTCTFGAEIY 148 (169)
Q Consensus 87 l~l~nq~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~L~~~~~~fl~~--D~l~i~~~V~ 148 (169)
|+|+||.++...... ...+.|.. ..+|||.+||++++|+ ++|||+| |+|+|+|.|+
T Consensus 73 l~llnq~~~~~~~~~---~~~~~f~~-~~~wG~~~Fi~~~~L~--~~gfl~~~~D~l~i~~~v~ 130 (132)
T cd03773 73 VEMVHQANPTKNIKR---EFASDFEV-GECWGYNRFFRLDLLI--NEGYLLPENDTLILRFSVR 130 (132)
T ss_pred EEEEcCCCCccceEE---eccccccC-CCCcCHHHhccHHHHh--hCCCcCCCCCEEEEEEEEe
Confidence 999999644333322 24567765 5789999999999998 5899999 9999999985
No 5
>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=99.95 E-value=5e-27 Score=170.22 Aligned_cols=133 Identities=19% Similarity=0.315 Sum_probs=103.1
Q ss_pred CeEEEEEcCccccccc-C-CC--cEEeCcE--EEcCeEeeeceEEEEeeCCC--CCCCeEEEEEEeccCCCCCCCCeEEE
Q 047807 11 ADYIFKIKSFNLLADS-T-VD--GFESGVF--ESGGYYWCVCTRLVFYPKGK--GSSDHLSLYLKIDESNSYPNAAWSVN 82 (169)
Q Consensus 11 ~~~~w~I~nfs~l~~~-~-~~--~~~S~~f--~~gG~~W~~~~~l~~yP~g~--~~~~~lSvyL~~~~~~~~~~~~w~~~ 82 (169)
|++.|+|+|||.+++. + ++ .++|++| .++||+| +|++||+|. +..+|+||||++++++..+--+|++.
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 GKLIWKVTDYKMKKKEAVDGHTVSIFSQPFYTSRCGYRL----CARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQWPFR 76 (148)
T ss_pred CEEEEEECCHHHHHHhhcCCCccEEECCCcccCCCCeeE----EEEEEcCCCCCCCCCEEEEEEEEecCccccccCcceE
Confidence 5799999999998653 3 44 7999999 8899999 999999998 34579999999987533111129999
Q ss_pred EEEEEEEEeCCCCceeeEeec--CCceeeecCC----CCCcCccccccchhhccCCCCeEeCCEEEEEEEE
Q 047807 83 VCYRLFVYDQIRKDYLAVQDA--KSGVRTFDQQ----TSELGFDKFLTLAELNQHLKGYLLNNTCTFGAEI 147 (169)
Q Consensus 83 ~~f~l~l~nq~~~~~~~~~~~--~~~~~~F~~~----~~~~G~~~fi~~~~L~~~~~~fl~~D~l~i~~~V 147 (169)
++++|+|+||.+......... ......|+.. +..||+++||++++|+..+.+||.||+++|+|.|
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 999999999986543211110 0124668653 5689999999999998434599999999999987
No 6
>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=99.95 E-value=5.1e-27 Score=170.41 Aligned_cols=131 Identities=22% Similarity=0.374 Sum_probs=101.6
Q ss_pred CeEEEEEcCccccccc----CCCcEEeCcEEEc--CeEeeeceEEEEeeCCC--CCCCeEEEEEEeccCCCC-CCCCeEE
Q 047807 11 ADYIFKIKSFNLLADS----TVDGFESGVFESG--GYYWCVCTRLVFYPKGK--GSSDHLSLYLKIDESNSY-PNAAWSV 81 (169)
Q Consensus 11 ~~~~w~I~nfs~l~~~----~~~~~~S~~f~~g--G~~W~~~~~l~~yP~g~--~~~~~lSvyL~~~~~~~~-~~~~w~~ 81 (169)
++|+|+|+|||.+++. .++.++|+.|.+| ||+| +|++||+|. ...+|||+||++.+.... ..+ |++
T Consensus 1 g~~~w~I~~fs~~~~~~~~~~~~~~~S~~F~vg~~G~~w----~i~~yP~G~~~~~~~~lsl~L~l~~~~~d~~~~-w~~ 75 (149)
T cd00270 1 GVLIWKIKDYSRKLQEAVAGSNTVLYSPPFYTSRYGYKL----CLRLYLNGDGTGKGTHLSLFVHVMKGEYDALLE-WPF 75 (149)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceE----EEEEEeCCCCCCCCCEEEEEEEEeccCCCcccc-CCc
Confidence 5899999999998652 2478999999999 9999 999999998 245799999999875431 233 999
Q ss_pred EEEEEEEEEeCCCC--ceeeEee--cCCceeeec-----CCCCCcCccccccchhhccCCCCeEeCCEEEEEEEEE
Q 047807 82 NVCYRLFVYDQIRK--DYLAVQD--AKSGVRTFD-----QQTSELGFDKFLTLAELNQHLKGYLLNNTCTFGAEIY 148 (169)
Q Consensus 82 ~~~f~l~l~nq~~~--~~~~~~~--~~~~~~~F~-----~~~~~~G~~~fi~~~~L~~~~~~fl~~D~l~i~~~V~ 148 (169)
.++|+|+|+||.++ ....... .......|. ....+|||.+||++++|+ +.|||+||+|+|+|+|.
T Consensus 76 ~~~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~G~~~fi~~~~L~--~~gfl~dD~l~I~~~v~ 149 (149)
T cd00270 76 RGKITLTLLDQSDDSKRKHITETFMPDPNSSAFQRPPTGENNIGFGYPEFVPLEKLE--SRGYVKDDTLFIKVEVD 149 (149)
T ss_pred cceEEEEEECCCCccccCceEEEEEcCCchHhhcCCCcccCCCCcCcceEeEHHHhc--cCCCEeCCEEEEEEEEC
Confidence 99999999999874 1111110 001123454 145789999999999998 46899999999999983
No 7
>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=99.95 E-value=3.4e-27 Score=171.22 Aligned_cols=131 Identities=19% Similarity=0.280 Sum_probs=101.1
Q ss_pred CeEEEEEcCcccccc-cC-CC--cEEeCcEEE--cCeEeeeceEEEEeeCCC--CCCCeEEEEEEeccCCC-CCCCCeEE
Q 047807 11 ADYIFKIKSFNLLAD-ST-VD--GFESGVFES--GGYYWCVCTRLVFYPKGK--GSSDHLSLYLKIDESNS-YPNAAWSV 81 (169)
Q Consensus 11 ~~~~w~I~nfs~l~~-~~-~~--~~~S~~f~~--gG~~W~~~~~l~~yP~g~--~~~~~lSvyL~~~~~~~-~~~~~w~~ 81 (169)
|+|.|+|.|||.+++ .+ ++ .++|+.|.+ |||+| +|++||+|. +..+|||+||++++... ...+ |++
T Consensus 1 g~h~~~I~~yS~~~~~~~~g~~~~i~S~~F~~~~gGy~W----~i~~yP~G~~~~~~~~lS~~L~l~~~~~d~~l~-wpv 75 (147)
T cd03776 1 GIYVWKIKNFSNLRRSMEAGSPVVIHSPGFYTSPPGYKL----CARLNLSLPEARCPNYISLFVHLMQGENDSHLD-WPF 75 (147)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceE----EEEEEeCCCCCCCCCEEEEEEEEeccCCCcccC-Ccc
Confidence 589999999998654 22 34 488999985 79999 999999998 34579999999987543 1223 999
Q ss_pred EEEEEEEEEeCCCCceeeEe--ecCCceeeecC-----CCCCcCccccccchhhccCCCCeEeCCEEEEEEEEE
Q 047807 82 NVCYRLFVYDQIRKDYLAVQ--DAKSGVRTFDQ-----QTSELGFDKFLTLAELNQHLKGYLLNNTCTFGAEIY 148 (169)
Q Consensus 82 ~~~f~l~l~nq~~~~~~~~~--~~~~~~~~F~~-----~~~~~G~~~fi~~~~L~~~~~~fl~~D~l~i~~~V~ 148 (169)
.++|+|+|+||.++...... ........|.. .+.+|||.+||++++|+ +.+||+||+|+|+|+|.
T Consensus 76 ~a~~~~~lldq~~~~~~~~~~~~~~~~~~~F~~p~~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~I~c~V~ 147 (147)
T cd03776 76 QGTITLTLLDQSEPRQNIHETMMSKPELLAFQRPTTDRNPKGFGYVEFAHIEDLL--QRGFVKNDTLLIKIEVN 147 (147)
T ss_pred cceeEEEEECCCcccCccEEEEEcCCChHhhcCCCcCCCCCCeeEceeeEHHHhh--hCCCccCCEEEEEEEEC
Confidence 99999999999875432211 00112356763 34689999999999998 57899999999999984
No 8
>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=99.94 E-value=4.5e-26 Score=170.78 Aligned_cols=134 Identities=19% Similarity=0.251 Sum_probs=103.8
Q ss_pred CCCeEEEEEcCcccccc-cC-CC--cEEeCcEEEc--CeEeeeceEEEEeeCCC--CCCCeEEEEEEeccCCCCCCCCeE
Q 047807 9 PPADYIFKIKSFNLLAD-ST-VD--GFESGVFESG--GYYWCVCTRLVFYPKGK--GSSDHLSLYLKIDESNSYPNAAWS 80 (169)
Q Consensus 9 ~~~~~~w~I~nfs~l~~-~~-~~--~~~S~~f~~g--G~~W~~~~~l~~yP~g~--~~~~~lSvyL~~~~~~~~~~~~w~ 80 (169)
..|+|.|+|.|||..++ .+ ++ .++||+|.+| ||+| +|.+||+|. +..+|+|+||+++++...+.-+|+
T Consensus 37 ~~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w----~i~~ypnG~g~~~~~~iSvyl~L~~ge~D~~L~WP 112 (186)
T cd03777 37 YNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKM----CARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWP 112 (186)
T ss_pred cceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeE----EEEEEcCCCCCCCCCEEEEEEEEecCCcccccCCc
Confidence 46999999999999864 33 34 7999999999 9999 999999998 345799999999876421111299
Q ss_pred EEEEEEEEEEeCCCCceeeEeec--CCceeeec-CC---CCCcCccccccchhhccCCCCeEeCCEEEEEEEEE
Q 047807 81 VNVCYRLFVYDQIRKDYLAVQDA--KSGVRTFD-QQ---TSELGFDKFLTLAELNQHLKGYLLNNTCTFGAEIY 148 (169)
Q Consensus 81 ~~~~f~l~l~nq~~~~~~~~~~~--~~~~~~F~-~~---~~~~G~~~fi~~~~L~~~~~~fl~~D~l~i~~~V~ 148 (169)
+.++|+|+|+||.+......... ......|. .. +.+||+++||++++|+ +.+||+||+++|+|.|.
T Consensus 113 ~~~~~tfsLlDQ~~~~~~~~~~~~p~p~~~~F~rp~~~~n~~~G~~~Fi~~~~Le--~~~ylkdD~l~Irv~v~ 184 (186)
T cd03777 113 FKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIVD 184 (186)
T ss_pred eeEEEEEEEEcCCCccccccceeccCCccccccCCccCCCCCCCchheeEHHHhc--cCCcEeCCEEEEEEEEe
Confidence 99999999999975322111100 01235576 22 5689999999999998 68999999999999986
No 9
>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=99.94 E-value=3.3e-26 Score=165.46 Aligned_cols=133 Identities=18% Similarity=0.295 Sum_probs=101.1
Q ss_pred CeEEEEEcCccccccc-C---CCcEEeCcEEEc--CeEeeeceEEEEeeCCC--CCCCeEEEEEEeccCCCCCCCCeEEE
Q 047807 11 ADYIFKIKSFNLLADS-T---VDGFESGVFESG--GYYWCVCTRLVFYPKGK--GSSDHLSLYLKIDESNSYPNAAWSVN 82 (169)
Q Consensus 11 ~~~~w~I~nfs~l~~~-~---~~~~~S~~f~~g--G~~W~~~~~l~~yP~g~--~~~~~lSvyL~~~~~~~~~~~~w~~~ 82 (169)
|++.|+|+||+++.+. . ...++||.|..+ ||+| +|.+||+|. +..+|+|+||+++++...+.-+|++.
T Consensus 1 g~~~W~i~~f~~~~~~a~~~~~~~~~S~~Fyt~~~Gy~w----~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wpv~ 76 (147)
T cd03779 1 GTFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKV----CLRLYLNGDGAGKGTHISLFFVIMKGEYDALLPWPFR 76 (147)
T ss_pred CeEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceE----EEEEEcCCCCCCCCCEEEEEEEEecCCcccccCcceE
Confidence 6799999999975543 1 247999999875 9999 999999998 34679999999987542111129999
Q ss_pred EEEEEEEEeCCCCceeeEeecCCc--eeeec----CCCCCcCccccccchhhccCCCCeEeCCEEEEEEEEE
Q 047807 83 VCYRLFVYDQIRKDYLAVQDAKSG--VRTFD----QQTSELGFDKFLTLAELNQHLKGYLLNNTCTFGAEIY 148 (169)
Q Consensus 83 ~~f~l~l~nq~~~~~~~~~~~~~~--~~~F~----~~~~~~G~~~fi~~~~L~~~~~~fl~~D~l~i~~~V~ 148 (169)
++|+|+|+||.+........ ... .+.|+ ..+.+||+++||++++|+....+||.||+++|+|+|.
T Consensus 77 ~~~tfsLlDq~~~~~~~~~~-~~~~~~~~F~rP~~~~n~~~G~~~Fi~~~~Le~s~~~ylkDD~~~Irc~V~ 147 (147)
T cd03779 77 HKVTFMLLDQNNREHVIDAF-RPDLSSASFQRPVSDMNVASGCPLFFPLKKLQSPKHAYCKDDTIYIKCVVD 147 (147)
T ss_pred EEEEEEEECCCCCCCCcEee-cCCcccccccCcccCCCCCcchhheeEHHHhcccCCCcEeCCEEEEEEEEC
Confidence 99999999998754422110 011 35686 3456899999999999983224999999999999983
No 10
>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=99.94 E-value=4.4e-26 Score=166.65 Aligned_cols=131 Identities=18% Similarity=0.334 Sum_probs=101.7
Q ss_pred CeEEEEEcCccccccc--C--CCcEEeCcEEEc--CeEeeeceEEEEeeCCC--CCCCeEEEEEEeccCCCCC-CCCeEE
Q 047807 11 ADYIFKIKSFNLLADS--T--VDGFESGVFESG--GYYWCVCTRLVFYPKGK--GSSDHLSLYLKIDESNSYP-NAAWSV 81 (169)
Q Consensus 11 ~~~~w~I~nfs~l~~~--~--~~~~~S~~f~~g--G~~W~~~~~l~~yP~g~--~~~~~lSvyL~~~~~~~~~-~~~w~~ 81 (169)
|+|.|+|+|||.+++. + ++.+.|+.|.+| ||+| +|++||+|. +..+|+|+||++++.+..+ .. |++
T Consensus 1 g~~~~~I~gys~~~~~~~~~~~~~i~S~~F~vg~~Gy~w----~i~~yPnG~~~~~~~~vs~~l~l~~ge~d~~l~-wp~ 75 (154)
T cd03781 1 GTLLWKITDYSRKLQEAKGRDNLELFSPPFYTHRYGYKL----QVSAFLNGNGSGEGSHLSVYIRVLPGEYDNLLE-WPF 75 (154)
T ss_pred CEEEEEECCHHHHHHHhhcCCCceEECCCeecCCCCEEE----EEEEECCCCCCCCCCEEEEEEEEecCCcccccC-Cce
Confidence 6899999999998753 2 478999999999 9999 999999998 3457999999998754321 23 999
Q ss_pred EEEEEEEEEeCCCCc--e--eeEee--cCCceeeecC--------CCCCcCccccccchhhccCCCCeEeCCEEEEEEEE
Q 047807 82 NVCYRLFVYDQIRKD--Y--LAVQD--AKSGVRTFDQ--------QTSELGFDKFLTLAELNQHLKGYLLNNTCTFGAEI 147 (169)
Q Consensus 82 ~~~f~l~l~nq~~~~--~--~~~~~--~~~~~~~F~~--------~~~~~G~~~fi~~~~L~~~~~~fl~~D~l~i~~~V 147 (169)
.++|+|+|+||.+.. . ..... .......|+. .+.+|||.+||++++|+ +.+||+||+|+|+|+|
T Consensus 76 ~a~~~~~llDq~~~~~~~~~~~~~~~~~~~~~~~F~rp~~~~~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~Irc~v 153 (154)
T cd03781 76 SHRITFTLLDQSDPSLSKPQHITETFTPDPTWKNFQKPSASRLDESTLGFGYPKFISHEDLK--KRNYIKDDAIFLRASV 153 (154)
T ss_pred eeEEEEEEECCCCCccccCcceEEEEEcCCchhhhcCCcccccCCCCCccchhHeeEHHHHh--hCCcccCCEEEEEEEe
Confidence 999999999998751 1 11000 0012345552 35679999999999999 6899999999999988
Q ss_pred E
Q 047807 148 Y 148 (169)
Q Consensus 148 ~ 148 (169)
.
T Consensus 154 ~ 154 (154)
T cd03781 154 E 154 (154)
T ss_pred C
Confidence 3
No 11
>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=99.93 E-value=4e-25 Score=162.66 Aligned_cols=133 Identities=17% Similarity=0.327 Sum_probs=98.6
Q ss_pred CCeEEEEEcCccccc-ccC-CCcEEeCcE-EEcCeEeeeceEEEEeeCCC-CCCCeEEEEEEeccCCCCCCCCeE-EEEE
Q 047807 10 PADYIFKIKSFNLLA-DST-VDGFESGVF-ESGGYYWCVCTRLVFYPKGK-GSSDHLSLYLKIDESNSYPNAAWS-VNVC 84 (169)
Q Consensus 10 ~~~~~w~I~nfs~l~-~~~-~~~~~S~~f-~~gG~~W~~~~~l~~yP~g~-~~~~~lSvyL~~~~~~~~~~~~w~-~~~~ 84 (169)
+.+|.|+|.|||.++ +.+ ++.++||+| .+|||+| +|++||+|. ...+|+||||++++++..+..+|+ +.++
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 CPEAVWRVRNFSQLLETTPKGTKIYSPRFYSPEGYAF----QVGLYPNGTESYPGYTGLYFHLCSGENDDVLEWPCPNRQ 76 (167)
T ss_pred CCeEEEEEcCchhhhhcCCCCCEEECCCCCccCCeEE----EEEEEeCCCCCCCCcceEEEEEecCCccccccCcceeEE
Confidence 468999999999986 433 578999998 8999999 999999998 345699999999875442212299 5899
Q ss_pred EEEEEEeCCCC---ceeeEe----ec--CC---ceeeec----------C-------CCCCcCccccccchhhccCCCCe
Q 047807 85 YRLFVYDQIRK---DYLAVQ----DA--KS---GVRTFD----------Q-------QTSELGFDKFLTLAELNQHLKGY 135 (169)
Q Consensus 85 f~l~l~nq~~~---~~~~~~----~~--~~---~~~~F~----------~-------~~~~~G~~~fi~~~~L~~~~~~f 135 (169)
++|+|+||... ..+... +. .+ ....|+ . .+.+|||++||++++|+ +.+|
T Consensus 77 ~t~~LlDQ~~~~~~r~~~~~~~~~dp~~~~~~~~~~~~~rP~~~~~~~~~~~~~~~~~~~g~G~~~Fis~~~L~--~r~y 154 (167)
T cd03771 77 ATMTLLDQDPDIQQRMSNQRSFTTDPSMTSSDNGEYFWDRPSKVGSYDTDTNGCTCYRGPGYGWSTFISHSRLR--RRDF 154 (167)
T ss_pred EEEEEECCCCcccccCcceEEEecCCcccccccccccccCCccccccccccccccccccCccccccceeHHHhc--cCCC
Confidence 99999999731 111111 00 00 011122 1 34589999999999999 5779
Q ss_pred EeCCEEEEEEEEE
Q 047807 136 LLNNTCTFGAEIY 148 (169)
Q Consensus 136 l~~D~l~i~~~V~ 148 (169)
|+||+|.|+++++
T Consensus 155 lk~dtl~i~~~~~ 167 (167)
T cd03771 155 LKGDDLIILLDFE 167 (167)
T ss_pred CcCCEEEEEEEeC
Confidence 9999999999873
No 12
>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=99.92 E-value=9.5e-25 Score=159.76 Aligned_cols=133 Identities=20% Similarity=0.299 Sum_probs=102.5
Q ss_pred CCCeEEEEEcCcccccccC----CCcEEeCcEEE--cCeEeeeceEEEEeeCCC--CCCCeEEEEEEeccCCCCC-CCCe
Q 047807 9 PPADYIFKIKSFNLLADST----VDGFESGVFES--GGYYWCVCTRLVFYPKGK--GSSDHLSLYLKIDESNSYP-NAAW 79 (169)
Q Consensus 9 ~~~~~~w~I~nfs~l~~~~----~~~~~S~~f~~--gG~~W~~~~~l~~yP~g~--~~~~~lSvyL~~~~~~~~~-~~~w 79 (169)
..|+|.|+|+||+++.+.. ...++||.|.. +||+| +|++||+|+ ..+.|||+|+++++++..+ .+ |
T Consensus 17 ~~g~fiWkI~~fs~~~~~a~~~~~~~i~Sp~Fyt~~~GYk~----~l~~ylnG~g~~~g~~LSly~~l~~Ge~D~~L~-W 91 (164)
T cd03778 17 YDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKM----CLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLR-W 91 (164)
T ss_pred cCCEEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCeEE----EEEEEeCCCCCCCCCEEEEEEEEecCCcCcccC-C
Confidence 3799999999999976531 24799999986 49999 999999998 3456999999999886633 33 9
Q ss_pred EEEEEEEEEEEeCCCCceeeEee-cCCceeeec----CCCCCcCccccccchhhccCCCCeEeCCEEEEEEEE
Q 047807 80 SVNVCYRLFVYDQIRKDYLAVQD-AKSGVRTFD----QQTSELGFDKFLTLAELNQHLKGYLLNNTCTFGAEI 147 (169)
Q Consensus 80 ~~~~~f~l~l~nq~~~~~~~~~~-~~~~~~~F~----~~~~~~G~~~fi~~~~L~~~~~~fl~~D~l~i~~~V 147 (169)
++..+++|+|+||++..+....- .......|. ..+.+|||+.|+++++|.. ..+||+||+|.|+|.|
T Consensus 92 Pf~~~itl~llDQ~~r~hi~~~~~pd~~~~~f~RP~~~~n~~~G~~~Fv~l~~l~~-~~~Yv~dDtlfIk~~V 163 (164)
T cd03778 92 PFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKXEA-KNSYVRDDAIFIKAIV 163 (164)
T ss_pred ceeeEEEEEEECCCCCCcceeEEEcCcchHhcCCCCcccccCcCcceEEEhhHccc-cCCcccCCeEEEEEEE
Confidence 99999999999998644322100 001112352 2466899999999999984 2699999999999987
No 13
>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=99.92 E-value=8.5e-24 Score=147.29 Aligned_cols=124 Identities=34% Similarity=0.556 Sum_probs=98.8
Q ss_pred CeEEEEEcCcccccccCCCcEEeCcEEEcCeEeeeceEEEEeeCCC-CCCCeEEEEEEeccCCCCCCCCeEEEEEEEEEE
Q 047807 11 ADYIFKIKSFNLLADSTVDGFESGVFESGGYYWCVCTRLVFYPKGK-GSSDHLSLYLKIDESNSYPNAAWSVNVCYRLFV 89 (169)
Q Consensus 11 ~~~~w~I~nfs~l~~~~~~~~~S~~f~~gG~~W~~~~~l~~yP~g~-~~~~~lSvyL~~~~~~~~~~~~w~~~~~f~l~l 89 (169)
++|+|+|.+|+... ++.++|+.|.++|+.| +|.+||+|. ...+|||+||.|.+....... |++.++|+|+|
T Consensus 1 ~~~~~~i~~~~~~~---~~~~~S~~f~~~g~~W----~l~~~p~~~~~~~~~lsv~L~~~~~~~~~~~-~~~~~~~~~~l 72 (126)
T cd00121 1 GKHTWKIVNFSELE---GESIYSPPFEVGGYKW----RIRIYPNGDGESGDYLSLYLELDKGESDLEK-WSVRAEFTLKL 72 (126)
T ss_pred CEEEEEECCCCCCC---CcEEECCCEEEcCEeE----EEEEEcCCCCCCCCEEEEEEEecCCCCCCCC-CcEEEEEEEEE
Confidence 47999999999932 2789999999999999 999999997 335699999999876543233 99999999999
Q ss_pred EeCCCCceeeEeecCCceeeec-CCCCCcCccccccchhhccCCCCeEeCCEEEEEEEEE
Q 047807 90 YDQIRKDYLAVQDAKSGVRTFD-QQTSELGFDKFLTLAELNQHLKGYLLNNTCTFGAEIY 148 (169)
Q Consensus 90 ~nq~~~~~~~~~~~~~~~~~F~-~~~~~~G~~~fi~~~~L~~~~~~fl~~D~l~i~~~V~ 148 (169)
+||++.+.... .....|. ....+|||.+||++++|.+ ..++.||+|+|+|+|.
T Consensus 73 ~~~~~~~~~~~----~~~~~~~~~~~~~~G~~~fi~~~~l~~--~~~~~~d~l~i~~~v~ 126 (126)
T cd00121 73 VNQNGGKSLSK----SFTHVFFSEKGSGWGFPKFISWDDLED--SYYLVDDSLTIEVEVK 126 (126)
T ss_pred ECCCCCccceE----eccCCcCCCCCCCCChHHeeEHHHhcc--CCcEECCEEEEEEEEC
Confidence 99984433221 1334443 4578999999999999994 4449999999999984
No 14
>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=99.89 E-value=5.2e-23 Score=142.92 Aligned_cols=118 Identities=30% Similarity=0.556 Sum_probs=95.5
Q ss_pred EcCcccccccCCCcEEeCcEEEcCeEeeeceEEEEeeCCCCCCCeEEEEEEeccCCCCC-CCCeEEEEEEEEEEEeCCCC
Q 047807 17 IKSFNLLADSTVDGFESGVFESGGYYWCVCTRLVFYPKGKGSSDHLSLYLKIDESNSYP-NAAWSVNVCYRLFVYDQIRK 95 (169)
Q Consensus 17 I~nfs~l~~~~~~~~~S~~f~~gG~~W~~~~~l~~yP~g~~~~~~lSvyL~~~~~~~~~-~~~w~~~~~f~l~l~nq~~~ 95 (169)
|+|||++... ...+.|+.|.++|++| +|.+||+|+ .+++++||+|....... .+ |++.++++++++++.++
T Consensus 1 i~nfs~l~~~-~~~~~s~~~~~~g~~W----~l~~~~~~~--~~~l~~~L~~~~~~~~~~~~-w~~~~~~~~~~~~~~~~ 72 (119)
T PF00917_consen 1 IKNFSKLKEG-EEYSSSFVFSHGGYPW----RLKVYPKGN--GKYLSVYLHCDKGENDSDLE-WSIEAEFRFRLLNQNGK 72 (119)
T ss_dssp ETTGGGHHTS-EEEEEEEESSTTSEEE----EEEEETTES--TTEEEEEEEEECSTTGGGSS-SSEEEEEEEEEE-TTSC
T ss_pred CcccceEeCC-CcEECCCeEEECCEEE----EEEEEeCCC--cCcEEEEEEEeecccccccc-eeeeEEEEEEEecCCCC
Confidence 7899999832 1345558999999999 999999985 57999999999875432 34 99999999999999988
Q ss_pred ceeeEeecCCceeeecCCCCCcCccccccchhhccCCCCeEeCCEEEEEEEEEE
Q 047807 96 DYLAVQDAKSGVRTFDQQTSELGFDKFLTLAELNQHLKGYLLNNTCTFGAEIYV 149 (169)
Q Consensus 96 ~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~L~~~~~~fl~~D~l~i~~~V~v 149 (169)
...... ..+.|+. ..+|||.+||++++|.+ ..|+.||+|+|+|+|+|
T Consensus 73 ~~~~~~----~~~~F~~-~~~~g~~~fi~~~~l~~--~~fl~dd~l~ie~~v~I 119 (119)
T PF00917_consen 73 SISKRI----KSHSFNN-PSSWGWSSFISWEDLED--PYFLVDDSLTIEVEVKI 119 (119)
T ss_dssp EEEEEE----ECEEECT-TSEEEEEEEEEHHHHTT--CTTSBTTEEEEEEEEEE
T ss_pred cceeee----eeeEEee-ecccchhheeEHHHhCc--cCCeECCEEEEEEEEEC
Confidence 743321 2478875 58999999999999994 33899999999999986
No 15
>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=99.84 E-value=2.4e-20 Score=135.69 Aligned_cols=132 Identities=18% Similarity=0.334 Sum_probs=99.5
Q ss_pred CCeEEEEEcCccccccc-C-CCcEEeCcEEE-cCeEeeeceEEEEeeCCC-CCCCeEEEEEEeccCCCCCCCCeEEE-EE
Q 047807 10 PADYIFKIKSFNLLADS-T-VDGFESGVFES-GGYYWCVCTRLVFYPKGK-GSSDHLSLYLKIDESNSYPNAAWSVN-VC 84 (169)
Q Consensus 10 ~~~~~w~I~nfs~l~~~-~-~~~~~S~~f~~-gG~~W~~~~~l~~yP~g~-~~~~~lSvyL~~~~~~~~~~~~w~~~-~~ 84 (169)
+..+.|+|+||+++.+. + +..++||+|.. .||+. ++.+||+|. ...+|||||+++++++..+.-+|++. -+
T Consensus 1 cp~~iWkI~~fs~~~~~~~~~~~i~Sp~FYt~~GYkl----~l~~ylnG~g~~~~~lsl~~~lm~Ge~D~~L~WPf~~~q 76 (167)
T cd03782 1 CPEHIWHIRNFTQLLATTPPNGKIYSPPFLSSTGYSF----QVGLYLNGTDDYPGNLAIYLHLTSGPNDDQLQWPCPWQQ 76 (167)
T ss_pred CCcEEEEeCcHHHHHHhcCCCceEECCCCcCccCcee----EEEEEecCCCCCCCEEEEEEEEeccCCCccccCCCcCCe
Confidence 45799999999997654 2 57899999975 69999 999999998 34579999999998765221129999 89
Q ss_pred EEEEEEeCCC---CceeeEe--ecC----Cc-eeee--cC-----------------CCCCcCccccccchhhccCCCCe
Q 047807 85 YRLFVYDQIR---KDYLAVQ--DAK----SG-VRTF--DQ-----------------QTSELGFDKFLTLAELNQHLKGY 135 (169)
Q Consensus 85 f~l~l~nq~~---~~~~~~~--~~~----~~-~~~F--~~-----------------~~~~~G~~~fi~~~~L~~~~~~f 135 (169)
++|+|+||+. .+.+... +.+ +. ...| .+ ++.++||+.||++++|+ ++.|
T Consensus 77 it~~LlDQ~~d~~~r~~~~~~~t~~P~~~s~~n~~f~w~rP~kvg~~~~~~~~~~~~r~~~~G~~~Fish~~L~--~r~y 154 (167)
T cd03782 77 ATMMLLDQHPDIRQRMSNQRSVTTDPNMTSTDSDEYFWDDPRKVGSEVTDTDGSTFYRGPGYGTSAFITHLRLR--SRDF 154 (167)
T ss_pred EEEEEEcCCCchhhccceeeeEEecCCcccccCccceecCCcccCcccccccccccccccccCccceeeHHHHh--hcCc
Confidence 9999999974 2222211 000 01 1134 21 15789999999999999 6999
Q ss_pred EeCCEEEEEEEE
Q 047807 136 LLNNTCTFGAEI 147 (169)
Q Consensus 136 l~~D~l~i~~~V 147 (169)
|+||++.|-+++
T Consensus 155 ikdD~ifi~~~~ 166 (167)
T cd03782 155 IKGDDVIFLLTM 166 (167)
T ss_pred ccCCeEEEEEec
Confidence 999999998876
No 16
>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=99.84 E-value=2.7e-20 Score=136.00 Aligned_cols=132 Identities=18% Similarity=0.357 Sum_probs=97.8
Q ss_pred CCeEEEEEcCccccccc--CCCcEEeCcEEEc-CeEeeeceEEEEeeCCCC---CCCeEEEEEEeccCCCCCCCCeEE-E
Q 047807 10 PADYIFKIKSFNLLADS--TVDGFESGVFESG-GYYWCVCTRLVFYPKGKG---SSDHLSLYLKIDESNSYPNAAWSV-N 82 (169)
Q Consensus 10 ~~~~~w~I~nfs~l~~~--~~~~~~S~~f~~g-G~~W~~~~~l~~yP~g~~---~~~~lSvyL~~~~~~~~~~~~w~~-~ 82 (169)
+..+.|+|+||+++.+. ....++||.|... ||+. +|++||+|++ .+.|+|||+++++++....-+|++ .
T Consensus 1 cp~~iWkI~nfs~~~~~a~~~~~i~Sp~Fyt~~GYk~----~l~~~lng~~~~~~g~~lSl~~~lm~Ge~D~~L~WP~~~ 76 (167)
T cd03783 1 CPNAVWRVRNFSQILENTTKGDVLQSPRFYSPEGYGY----GVSLYPLSNESDYSGNYTGLYFHLCSGENDAVLEWPALN 76 (167)
T ss_pred CCceeEEECcHHHHHHhCcCCCeEECCCCccCCCceE----EEEEEecCCCCCCCCCEEEEEEEEecccCCCcccCCCcC
Confidence 35789999999997654 2468999999874 9999 9999999983 356999999999876521112995 6
Q ss_pred EEEEEEEEeCCCC---ceeeEe----ecCCc------eeeecC--------------CCCCcCccccccchhhccCCCCe
Q 047807 83 VCYRLFVYDQIRK---DYLAVQ----DAKSG------VRTFDQ--------------QTSELGFDKFLTLAELNQHLKGY 135 (169)
Q Consensus 83 ~~f~l~l~nq~~~---~~~~~~----~~~~~------~~~F~~--------------~~~~~G~~~fi~~~~L~~~~~~f 135 (169)
-+++|+|+||+.. ..+... +.... ...|++ .+.++||+.||++++|+ +++|
T Consensus 77 ~~itl~llDQ~~~~~~r~~~~~sf~~d~~~~~~~~~~~~~f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~--~r~y 154 (167)
T cd03783 77 RQAIITVLDQDPDVRLRMSSSRSFTTDKSQTSSAINGTLRWDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLR--RRSF 154 (167)
T ss_pred CEEEEEEEcCCcchhhccccceeeecCCCcccccccccccccCCcccccccccccccCCcccccccceeHHHHh--hCCc
Confidence 7999999999741 111110 00001 111332 35689999999999999 6999
Q ss_pred EeCCEEEEEEEE
Q 047807 136 LLNNTCTFGAEI 147 (169)
Q Consensus 136 l~~D~l~i~~~V 147 (169)
|+||+|.|.+++
T Consensus 155 ikdDtlfI~~~~ 166 (167)
T cd03783 155 LKNDDLIIFVDF 166 (167)
T ss_pred ccCCeEEEEEec
Confidence 999999999886
No 17
>smart00061 MATH meprin and TRAF homology.
Probab=99.82 E-value=2.5e-19 Score=119.47 Aligned_cols=94 Identities=27% Similarity=0.439 Sum_probs=78.6
Q ss_pred EEEEEcCcccccccCCCcEEeCcEEEcCeEeeeceEEEEeeCCCCCCCeEEEEEEeccCCCCCCCCeEEEEEEEEEEEeC
Q 047807 13 YIFKIKSFNLLADSTVDGFESGVFESGGYYWCVCTRLVFYPKGKGSSDHLSLYLKIDESNSYPNAAWSVNVCYRLFVYDQ 92 (169)
Q Consensus 13 ~~w~I~nfs~l~~~~~~~~~S~~f~~gG~~W~~~~~l~~yP~g~~~~~~lSvyL~~~~~~~~~~~~w~~~~~f~l~l~nq 92 (169)
++|.|.||+.+... +.++|+.|.+||+.| +|.+||++ +|||+||.|.+....+.+ |++.|+|+|+|+||
T Consensus 2 ~~~~~~~~~~~~~~--~~~~S~~f~~~g~~W----~i~~~p~~----~~lsl~L~~~~~~~~~~~-w~v~a~~~~~l~~~ 70 (95)
T smart00061 2 LSHTFKNVSRLEEG--ESYFSPSEEHFNIPW----RLKIYRKN----GFLSLYLHCEKEECDSRK-WSIEAEFTLKLVSQ 70 (95)
T ss_pred ceeEEEchhhcccC--ceEeCChhEEcCcee----EEEEEEcC----CEEEEEEEeCCCcCCCCC-eEEEEEEEEEEEeC
Confidence 57999999998543 789999999999999 99999994 899999999876543334 99999999999999
Q ss_pred CCCceeeEeecCCceeeecCCCCCcCccccc
Q 047807 93 IRKDYLAVQDAKSGVRTFDQQTSELGFDKFL 123 (169)
Q Consensus 93 ~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi 123 (169)
+++.... ...+.|.. ..+|||.+||
T Consensus 71 ~~~~~~~-----~~~~~F~~-~~~~G~~~fi 95 (95)
T smart00061 71 NGKSLSK-----KDKHVFEK-PSGWGFSKFI 95 (95)
T ss_pred CCCEEee-----eeeEEEcC-CCccceeeEC
Confidence 9875522 35788986 7899999986
No 18
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.72 E-value=9.5e-18 Score=144.13 Aligned_cols=137 Identities=20% Similarity=0.414 Sum_probs=112.7
Q ss_pred CCcCCCCeEEEEEcCcccccccCCCcEEeCcEEEcCeEeeeceEEEEeeCCCCCCCeEEEEEEeccCCC-CCCC-CeEEE
Q 047807 5 KRSLPPADYIFKIKSFNLLADSTVDGFESGVFESGGYYWCVCTRLVFYPKGKGSSDHLSLYLKIDESNS-YPNA-AWSVN 82 (169)
Q Consensus 5 ~~~~~~~~~~w~I~nfs~l~~~~~~~~~S~~f~~gG~~W~~~~~l~~yP~g~~~~~~lSvyL~~~~~~~-~~~~-~w~~~ 82 (169)
+.+....+++|+|++||.+. +.++||.|.+||+.| +|.++|+|+...+ +||||.....+. ...+ .|.++
T Consensus 33 ~Ee~~~~sftW~vk~wsel~----~k~~Sp~F~vg~~tw----ki~lfPqG~nq~~-~sVyLe~~pqe~e~~~gk~~~cc 103 (1089)
T COG5077 33 VEELLEMSFTWKVKRWSELA----KKVESPPFSVGGHTW----KIILFPQGNNQCN-VSVYLEYEPQELEETGGKYYDCC 103 (1089)
T ss_pred HHHHhhcccceecCChhhhh----hhccCCcccccCeeE----EEEEecccCCccc-cEEEEEeccchhhhhcCcchhhh
Confidence 34566789999999999997 479999999999999 9999999985544 999998865321 1222 29999
Q ss_pred EEEEEEEEeCCCCceeeEeecCCceeeecCCCCCcCccccccchhhccCCCC---eEeCCEEEEEEEEEEecCC
Q 047807 83 VCYRLFVYDQIRKDYLAVQDAKSGVRTFDQQTSELGFDKFLTLAELNQHLKG---YLLNNTCTFGAEIYVIKPT 153 (169)
Q Consensus 83 ~~f~l~l~nq~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~L~~~~~~---fl~~D~l~i~~~V~v~~~~ 153 (169)
|+|.|.+-|+..+..... .++.|+|+....+|||.+|+.+.+|..|..| |+.+|++.|.+.|+|++++
T Consensus 104 aqFaf~Is~p~~pti~~i---N~sHhrFs~~~tDwGFt~f~dL~kl~~psp~~Ppfleeg~l~ItvyVRvlkdP 174 (1089)
T COG5077 104 AQFAFDISNPKYPTIEYI---NKSHHRFSMESTDWGFTNFIDLNKLIEPSPGRPPFLEEGTLVITVYVRVLKDP 174 (1089)
T ss_pred hheeeecCCCCCCchhhh---hcccccccccccccchhhhhhhhhhcCCCCCCCCcccCCeEEEEEEEEEEeCC
Confidence 999999999877654332 2467999998999999999999999876544 7899999999999999985
No 19
>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=98.93 E-value=2.3e-08 Score=80.05 Aligned_cols=130 Identities=29% Similarity=0.456 Sum_probs=105.4
Q ss_pred eEEEEEcCcccccccCCCcEEeCcEEEcCeEeeeceEEEEeeCCCCCCCeEEEEEEeccCCCCCCCCeEEEEEEEEEEEe
Q 047807 12 DYIFKIKSFNLLADSTVDGFESGVFESGGYYWCVCTRLVFYPKGKGSSDHLSLYLKIDESNSYPNAAWSVNVCYRLFVYD 91 (169)
Q Consensus 12 ~~~w~I~nfs~l~~~~~~~~~S~~f~~gG~~W~~~~~l~~yP~g~~~~~~lSvyL~~~~~~~~~~~~w~~~~~f~l~l~n 91 (169)
.+.|.+.||+... ..++|..|..||..| ++.+||.|+ +++.|+.+.... + |.+.+.+.|.+.|
T Consensus 5 ~~~~~~~~~~~~~----l~~ys~~~~~~~~~~----~~~~~~~~~----~~~~~~~~~~~~----~-~~~~~~~~l~v~n 67 (297)
T KOG1987|consen 5 KFTWVISNFSSVG----LVIYSNGFVKGGCKW----RLSAYPKGN----YLSLTLSVSDSP----G-WERYAKLRLTVVN 67 (297)
T ss_pred ccceeeccCcchh----hhccccceeecCceE----EEEEecCCC----EEEEEEEeccCC----C-cceeEEEEEEEcc
Confidence 3449999998876 579999999999999 999999983 799998887543 3 9999999999999
Q ss_pred CCCCce-eeEeecCCceeeecC--CCCCcCccccccchhhccCCCCeEeCCEEEEEEEEEEecCCCCceeEEe
Q 047807 92 QIRKDY-LAVQDAKSGVRTFDQ--QTSELGFDKFLTLAELNQHLKGYLLNNTCTFGAEIYVIKPTDTEGTLSK 161 (169)
Q Consensus 92 q~~~~~-~~~~~~~~~~~~F~~--~~~~~G~~~fi~~~~L~~~~~~fl~~D~l~i~~~V~v~~~~~~~~~~~~ 161 (169)
|..... .... .....|.. -...||+..+++...+.++..||+.++.+++-+.+.|++...+.+.+..
T Consensus 68 ~~~~~~~~~~~---~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~g~~~~~~~~~~a~~~V~~~~~~~d~~~~ 137 (297)
T KOG1987|consen 68 QKSEKYLSTVE---EGFSWFRFNKVLKEWGFGKMLPLTLLIDCSNGFLVAHKLVLVARSEVFEAMGKSDVFKE 137 (297)
T ss_pred CCCcceeeeee---eeEEeccccccccccCcccccChHHhhcccCcEEEcCceEEEeeecceeeecccccchh
Confidence 988754 3321 13344433 3679999999999999988899999999999999889998888777654
No 20
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=98.50 E-value=1.7e-07 Score=86.87 Aligned_cols=130 Identities=22% Similarity=0.237 Sum_probs=104.3
Q ss_pred eEEEEEcCcccccccCCCcEEeCcEEEcCeEeeeceEEEEeeCCCCCCCeEEEEEEeccCCCCCCCCeEEEEEEEEEEEe
Q 047807 12 DYIFKIKSFNLLADSTVDGFESGVFESGGYYWCVCTRLVFYPKGKGSSDHLSLYLKIDESNSYPNAAWSVNVCYRLFVYD 91 (169)
Q Consensus 12 ~~~w~I~nfs~l~~~~~~~~~S~~f~~gG~~W~~~~~l~~yP~g~~~~~~lSvyL~~~~~~~~~~~~w~~~~~f~l~l~n 91 (169)
..+|...+...+. ....||.|..|+.+| ++.+.|+++ ....+++|+.+...... .. |++++++.+.+.|
T Consensus 28 ~~~~~~~~~~~~~----~~~~~~~~~~~~~~~----~~~~~~~~~-~~~~~~~~~~~~~~~~~-~~-~s~~~~~~~~v~~ 96 (1093)
T KOG1863|consen 28 STTIDGIDDKSLL----YRALSSNFGAGATKW----KILIAPKVN-SLQSTRKKLEVMPSQSL-KS-WSCGAQAVLRVKN 96 (1093)
T ss_pred cccccCcCcchhh----hHhcCccccccccce----eeeeccccC-cccceeEEeeeccCCCC-cc-eEecchhhhcccc
Confidence 3446555544443 467899999999999 999999987 33679999999876654 33 9999999999999
Q ss_pred CCCCceeeEeecCCceeeecCCCCCcCccccccchhhccCCCCeEeCCEEEEEEEEEEecCCCC
Q 047807 92 QIRKDYLAVQDAKSGVRTFDQQTSELGFDKFLTLAELNQHLKGYLLNNTCTFGAEIYVIKPTDT 155 (169)
Q Consensus 92 q~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~L~~~~~~fl~~D~l~i~~~V~v~~~~~~ 155 (169)
..++..... +...|.|.....+||+..|+.++++.++..+|+.+|++.+++.|.+...++.
T Consensus 97 ~~~~~~~~~---~~~~h~~~~~~~dwg~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~~~~~ 157 (1093)
T KOG1863|consen 97 TIDNLPDPE---KAIHHVFTADERDWGFSCFSTSSDIRKPEDGYVRNGLEKLEKRVRVEQPTSL 157 (1093)
T ss_pred CCCCchhhh---hhhhhcccccccchhhccchhHhhccCcccccccccceeeeeeeeeecCCcc
Confidence 333332222 2468899988999999999999999999999999999999999999887764
No 21
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.28 E-value=0.00018 Score=60.14 Aligned_cols=80 Identities=24% Similarity=0.337 Sum_probs=63.2
Q ss_pred CCCeEEEEEcCccccccc----CCCcEEeCcEEE--cCeEeeeceEEEEeeCCC--CCCCeEEEEEEeccCCCCCCCCeE
Q 047807 9 PPADYIFKIKSFNLLADS----TVDGFESGVFES--GGYYWCVCTRLVFYPKGK--GSSDHLSLYLKIDESNSYPNAAWS 80 (169)
Q Consensus 9 ~~~~~~w~I~nfs~l~~~----~~~~~~S~~f~~--gG~~W~~~~~l~~yP~g~--~~~~~lSvyL~~~~~~~~~~~~w~ 80 (169)
-.++..|+|.+|+..+.. ....++|+.|.. .||+. +..+|-+|+ +.+.++|+|+.+.++...+.-.|+
T Consensus 278 ~~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~----~~~~~lng~g~~~~~~~s~~~~~~~ge~d~~l~wp 353 (391)
T KOG0297|consen 278 YDGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKL----CARIYLNGDGTGKGTHLSLYFVVMRGEYDALLPWP 353 (391)
T ss_pred cCCEEEEEecchhhhhHHHHhccCccccccccccccccHHH----HhHhhhcCCCCCCcceeeeeeeecccCcccccccC
Confidence 378999999999554432 146899999985 69999 888888777 455699999999987653222399
Q ss_pred EEEEEEEEEEeC
Q 047807 81 VNVCYRLFVYDQ 92 (169)
Q Consensus 81 ~~~~f~l~l~nq 92 (169)
++-+++|++++|
T Consensus 354 f~~~v~~~l~dq 365 (391)
T KOG0297|consen 354 FRQKVTLMLLDQ 365 (391)
T ss_pred CCCceEEEEecc
Confidence 999999999999
No 22
>PF02362 B3: B3 DNA binding domain; InterPro: IPR003340 Two DNA binding proteins, RAV1 and RAV2 from Arabidopsis thaliana contain two distinct amino acid sequence domains found only in higher plant species. The N-terminal regions of RAV1 and RAV2 are homologous to the AP2 DNA-binding domain (see IPR001471 from INTERPRO) present in a family of transcription factors, while the C-terminal region exhibits homology to the highly conserved C-terminal domain, designated B3, of VP1/ABI3 transcription factors []. The AP2 and B3-like domains of RAV1 bind autonomously to the CAACA and CACCTG motifs, respectively, and together achieve a high affinity and specificity of binding. It has been suggested that the AP2 and B3-like domains of RAV1 are connected by a highly flexible structure enabling the two domains to bind to the CAACA and CACCTG motifs in various spacings and orientations [].; GO: 0003677 DNA binding, 0006355 regulation of transcription, DNA-dependent; PDB: 1WID_A 1YEL_A.
Probab=55.33 E-value=27 Score=22.60 Aligned_cols=22 Identities=27% Similarity=0.517 Sum_probs=14.1
Q ss_pred cCccccccchhhccCCCCeEeCCEEEEEE
Q 047807 117 LGFDKFLTLAELNQHLKGYLLNNTCTFGA 145 (169)
Q Consensus 117 ~G~~~fi~~~~L~~~~~~fl~~D~l~i~~ 145 (169)
-||.+|+.-..|+ .+|.|+++.
T Consensus 63 ~GW~~Fv~~n~L~-------~GD~~~F~~ 84 (100)
T PF02362_consen 63 GGWKKFVRDNGLK-------EGDVCVFEL 84 (100)
T ss_dssp TTHHHHHHHCT---------TT-EEEEEE
T ss_pred CCHHHHHHHcCCC-------CCCEEEEEE
Confidence 3899999776666 577777764
No 23
>PF06943 zf-LSD1: LSD1 zinc finger; InterPro: IPR005735 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC []. This domain may play a role in the regulation of transcription, via either repression of a prodeath pathway or activation of an antideath pathway, in response to signals emanating from cells undergoing pathogen-induced hypersensitive cell death. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].
Probab=25.94 E-value=38 Score=16.81 Aligned_cols=11 Identities=45% Similarity=1.295 Sum_probs=8.7
Q ss_pred ceEEEEeeCCC
Q 047807 46 CTRLVFYPKGK 56 (169)
Q Consensus 46 ~~~l~~yP~g~ 56 (169)
|..+..||.|.
T Consensus 4 Cr~~L~yp~GA 14 (25)
T PF06943_consen 4 CRTLLMYPRGA 14 (25)
T ss_pred CCceEEcCCCC
Confidence 56788999984
No 24
>PF06565 DUF1126: Repeat of unknown function (DUF1126); InterPro: IPR010554 This group contains several eukaryote specific repeats of around 35 residues in length. The function of this family is unknown.; PDB: 2Z14_A 2Z13_A.
Probab=21.01 E-value=47 Score=17.51 Aligned_cols=10 Identities=30% Similarity=0.458 Sum_probs=7.7
Q ss_pred eEeCCEEEEE
Q 047807 135 YLLNNTCTFG 144 (169)
Q Consensus 135 fl~~D~l~i~ 144 (169)
||.||++.|.
T Consensus 5 ~L~DdTi~I~ 14 (33)
T PF06565_consen 5 YLADDTISIF 14 (33)
T ss_dssp ETTTTEEEEE
T ss_pred EccCCCEEEE
Confidence 7788988763
Done!