Query 041904
Match_columns 317
No_of_seqs 259 out of 1893
Neff 9.0
Searched_HMMs 46136
Date Fri Mar 29 11:54:53 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041904.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041904hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd03772 MATH_HAUSP Herpesvirus 99.9 1.6E-26 3.4E-31 185.4 17.1 132 16-159 2-134 (137)
2 cd03775 MATH_Ubp21p Ubiquitin- 99.9 2.4E-26 5.2E-31 183.5 14.2 125 18-156 2-134 (134)
3 cd03774 MATH_SPOP Speckle-type 99.9 7.1E-26 1.5E-30 182.1 14.0 134 14-159 2-138 (139)
4 cd03772 MATH_HAUSP Herpesvirus 99.9 2.4E-25 5.2E-30 178.5 16.1 128 175-311 2-134 (137)
5 cd03780 MATH_TRAF5 Tumor Necro 99.9 1.1E-25 2.3E-30 181.3 12.5 136 17-155 1-147 (148)
6 cd03779 MATH_TRAF1 Tumor Necro 99.9 2.6E-25 5.6E-30 178.2 13.1 136 17-156 1-147 (147)
7 cd03777 MATH_TRAF3 Tumor Necro 99.9 5.6E-25 1.2E-29 183.3 14.2 139 13-156 35-184 (186)
8 cd00270 MATH_TRAF_C Tumor Necr 99.9 1.1E-24 2.4E-29 177.2 12.0 135 17-156 1-149 (149)
9 cd03778 MATH_TRAF2 Tumor Necro 99.9 1.8E-24 3.9E-29 175.1 12.8 145 6-155 8-163 (164)
10 cd03776 MATH_TRAF6 Tumor Necro 99.9 1E-24 2.2E-29 176.9 11.3 135 17-156 1-147 (147)
11 cd03773 MATH_TRIM37 Tripartite 99.9 2.3E-24 4.9E-29 171.8 12.5 127 14-156 2-130 (132)
12 cd03781 MATH_TRAF4 Tumor Necro 99.9 2.3E-24 5E-29 175.9 12.6 136 17-156 1-154 (154)
13 cd03775 MATH_Ubp21p Ubiquitin- 99.9 6.5E-24 1.4E-28 169.5 13.9 121 177-308 2-134 (134)
14 cd03771 MATH_Meprin Meprin fam 99.9 7.5E-24 1.6E-28 172.9 12.3 136 16-156 1-167 (167)
15 cd03774 MATH_SPOP Speckle-type 99.9 3.8E-23 8.1E-28 166.2 13.1 126 174-311 3-138 (139)
16 cd03773 MATH_TRIM37 Tripartite 99.9 3.4E-22 7.3E-27 159.3 12.4 121 173-308 2-130 (132)
17 cd03779 MATH_TRAF1 Tumor Necro 99.9 7.9E-22 1.7E-26 158.1 12.4 125 176-308 1-147 (147)
18 cd03778 MATH_TRAF2 Tumor Necro 99.9 1.8E-21 4E-26 157.6 12.8 127 173-308 16-164 (164)
19 cd03780 MATH_TRAF5 Tumor Necro 99.9 2.5E-21 5.4E-26 156.0 12.8 125 176-308 1-148 (148)
20 cd00270 MATH_TRAF_C Tumor Necr 99.9 1.7E-21 3.7E-26 158.5 11.9 123 176-308 1-149 (149)
21 cd00121 MATH MATH (meprin and 99.9 7.4E-21 1.6E-25 149.3 15.0 125 17-156 1-126 (126)
22 cd03776 MATH_TRAF6 Tumor Necro 99.9 4.3E-21 9.2E-26 155.7 10.6 123 176-308 1-147 (147)
23 cd03783 MATH_Meprin_Alpha Mepr 99.8 5.5E-21 1.2E-25 154.1 10.4 137 16-155 1-166 (167)
24 cd03781 MATH_TRAF4 Tumor Necro 99.8 1.4E-20 3E-25 153.6 12.8 123 176-308 1-154 (154)
25 cd03777 MATH_TRAF3 Tumor Necro 99.8 1.5E-20 3.3E-25 156.8 13.0 127 173-309 36-185 (186)
26 cd03782 MATH_Meprin_Beta Mepri 99.8 1.7E-20 3.6E-25 150.4 10.9 136 16-155 1-166 (167)
27 cd00121 MATH MATH (meprin and 99.8 1.1E-19 2.3E-24 142.6 13.6 121 177-308 2-126 (126)
28 PF00917 MATH: MATH domain; I 99.8 4.5E-20 9.7E-25 143.9 10.1 118 23-157 1-119 (119)
29 cd03771 MATH_Meprin Meprin fam 99.8 1.2E-19 2.6E-24 148.1 12.7 122 176-308 2-167 (167)
30 PF00917 MATH: MATH domain; I 99.8 7.1E-19 1.5E-23 137.1 11.0 113 182-309 1-119 (119)
31 smart00061 MATH meprin and TRA 99.7 1.1E-16 2.5E-21 119.4 11.4 94 19-131 2-95 (95)
32 cd03782 MATH_Meprin_Beta Mepri 99.6 8.1E-16 1.8E-20 123.5 9.8 121 176-307 2-166 (167)
33 cd03783 MATH_Meprin_Alpha Mepr 99.6 1E-15 2.2E-20 123.6 10.0 122 176-307 2-166 (167)
34 COG5077 Ubiquitin carboxyl-ter 99.6 2.3E-15 4.9E-20 143.4 5.7 137 10-161 32-174 (1089)
35 smart00061 MATH meprin and TRA 99.6 4.3E-14 9.4E-19 105.3 10.9 90 178-283 2-95 (95)
36 COG5077 Ubiquitin carboxyl-ter 99.4 1E-12 2.2E-17 125.6 7.2 127 174-312 37-173 (1089)
37 KOG1987 Speckle-type POZ prote 99.1 1.3E-10 2.8E-15 105.2 5.5 261 20-310 7-294 (297)
38 KOG1987 Speckle-type POZ prote 98.3 6.7E-06 1.4E-10 74.4 11.6 118 178-313 6-129 (297)
39 KOG1863 Ubiquitin carboxyl-ter 98.2 1.7E-06 3.8E-11 90.6 4.8 131 17-163 27-157 (1093)
40 KOG1863 Ubiquitin carboxyl-ter 97.8 1.4E-05 3.1E-10 83.8 4.5 125 179-315 30-157 (1093)
41 KOG0297 TNF receptor-associate 97.7 2.6E-05 5.5E-10 73.1 2.9 83 13-96 276-365 (391)
42 KOG0297 TNF receptor-associate 96.1 0.0043 9.3E-08 58.2 2.9 75 174-256 278-365 (391)
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=99.95 E-value=1.6e-26 Score=185.42 Aligned_cols=132 Identities=17% Similarity=0.291 Sum_probs=110.0
Q ss_pred CcEEEEEEcCcccccccccceEEcccEEeCCeEEEEEEEecCCCCC-CCCCcEEEEEEeccCCCCCCCCEEEEEEEEEEE
Q 041904 16 PSHYLFKIESFSLLSKASVEQLILDNFEAGGYKWKLSIHLTGSKSV-NVTDHISIYLELAETSSLPTGWEVNAITISFYS 94 (317)
Q Consensus 16 ~~~~~w~I~~fs~~~~~~~~~~~S~~F~~gG~~W~l~~~p~G~~~~-~~~~~lSvyL~~~~~~~~~~~w~v~~~f~~~l~ 94 (317)
.++|+|+|+|||.+ ++.++||.|.+||++|+|.+||+|.... +..+||||||.|.+.. ....|++.|+|+|.|+
T Consensus 2 ~~~~~~~I~~~S~l----~e~~~S~~f~vgG~~W~i~~~P~g~~~~~~~~~~lsvyL~~~~~~-~~~~w~i~a~~~~~l~ 76 (137)
T cd03772 2 EATFSFTVERFSRL----SESVLSPPCFVRNLPWKIMVMPRNYPDRNPHQKSVGFFLQCNAES-DSTSWSCHAQAVLRII 76 (137)
T ss_pred CcEEEEEECCcccC----CCcEECCCEEECCcceEEEEEeCCCCCCCCCCCeEEEEEeeCCcC-CCCCCeEEEEEEEEEE
Confidence 68999999999998 4689999999999999999999996532 2358999999997653 3347999999999999
Q ss_pred ecCCCcEEEEEeeecccceeeeecccccccccccceeecccccCCCCceEeCCEEEEEEEEEEEe
Q 041904 95 IKFKTNILVSKVRNSTINVIVKHFHAMKSKYGVAKFIDLKTFSDPLNGYLINDACVFGAEVFVVK 159 (317)
Q Consensus 95 n~~~~~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~l~~~~~~yl~~d~l~i~~~v~v~~ 159 (317)
|+.+......+. ..+.|......|||++||++++|.++.+|||.||+|+|+|+|+|-.
T Consensus 77 ~~~~~~~~~~~~-------~~~~f~~~~~~~G~~~fi~~~~L~~~~sgyl~~D~l~Ie~~V~~~~ 134 (137)
T cd03772 77 NYKDDEPSFSRR-------ISHLFFSKENDWGFSNFMTWSEVTDPEKGFIEDDTITLEVYVQADA 134 (137)
T ss_pred cCCCCcccEEEe-------eeeEEcCCCCCccchheeEHHHhcCCCCCcEECCEEEEEEEEEeeC
Confidence 998543333222 4467876667999999999999987789999999999999998765
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=99.94 E-value=2.4e-26 Score=183.55 Aligned_cols=125 Identities=25% Similarity=0.439 Sum_probs=105.7
Q ss_pred EEEEEEcCcccccccccceEEcccEEeCCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCC----CCCCCEEEEEEEEEE
Q 041904 18 HYLFKIESFSLLSKASVEQLILDNFEAGGYKWKLSIHLTGSKSVNVTDHISIYLELAETSS----LPTGWEVNAITISFY 93 (317)
Q Consensus 18 ~~~w~I~~fs~~~~~~~~~~~S~~F~~gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~----~~~~w~v~~~f~~~l 93 (317)
+|+|+|+|||.+ ++.+.|++|.+|||+|+|.+||+|+.. .+|+|+||++..... .+.+|++.|+|+|.|
T Consensus 2 ~f~w~I~~fS~~----~~~~~S~~F~vGG~~W~l~~yP~G~~~---~~~iSlyL~l~~~~~~~~~~~~~~~v~a~f~~~l 74 (134)
T cd03775 2 SFTWRIKNWSEL----EKKVHSPKFKCGGFEWRILLFPQGNSQ---TGGVSIYLEPHPEEEEKAPLDEDWSVCAQFALVI 74 (134)
T ss_pred cEEEEECCcccC----CcceeCCCEEECCeeEEEEEeCCCCCC---CCeEEEEEEecCcccccccCCCCCeEEEEEEEEE
Confidence 599999999997 468999999999999999999999753 689999999976443 256899999999999
Q ss_pred EecCCCcEEEEEeeecccceeeeecccccccccccceeecccccCC----CCceEeCCEEEEEEEEE
Q 041904 94 SIKFKTNILVSKVRNSTINVIVKHFHAMKSKYGVAKFIDLKTFSDP----LNGYLINDACVFGAEVF 156 (317)
Q Consensus 94 ~n~~~~~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~l~~~----~~~yl~~d~l~i~~~v~ 156 (317)
+||.++.....+. ..+.|+....+|||.+||++++|++| ++|||+||+|+|+|.|+
T Consensus 75 ~n~~~~~~~~~~~-------~~~~F~~~~~~wG~~~fi~~~~L~~~~~~~~~g~l~nD~l~I~~~~~ 134 (134)
T cd03775 75 SNPGDPSIQLSNV-------AHHRFNAEDKDWGFTRFIELRKLAHRTPDKPSPFLENGELNITVYVR 134 (134)
T ss_pred EcCCCCccceEcc-------ceeEeCCCCCCCChhHcccHHHHcccccCCCCceeECCEEEEEEEEC
Confidence 9997655443322 56789877789999999999999854 57999999999999874
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=99.94 E-value=7.1e-26 Score=182.10 Aligned_cols=134 Identities=25% Similarity=0.291 Sum_probs=109.9
Q ss_pred cCCcEEEEEEcCcccccccccceEEcccEEeCC---eEEEEEEEecCCCCCCCCCcEEEEEEeccCCCCCCCCEEEEEEE
Q 041904 14 AAPSHYLFKIESFSLLSKASVEQLILDNFEAGG---YKWKLSIHLTGSKSVNVTDHISIYLELAETSSLPTGWEVNAITI 90 (317)
Q Consensus 14 ~~~~~~~w~I~~fs~~~~~~~~~~~S~~F~~gG---~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~~~~~w~v~~~f~ 90 (317)
....+|+|+|+|||.+++..++.+.|++|.+|| ++|+|.+||+|...+ +.+|+|+||++.+.. .+++.|+|+
T Consensus 2 ~~~~~~~w~I~~fS~~~~~~~~~i~S~~F~vgg~~~~~W~l~~yP~G~~~~-~~~~iSlyL~l~~~~----~~~v~a~f~ 76 (139)
T cd03774 2 VVKFCYMWTISNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEE-SKDYLSLYLLLVSCP----KSEVRAKFK 76 (139)
T ss_pred ceEEEEEEEECCchhhhhcCCCEEECCCeecCCcCCceEEEEEeCCCCCCC-CCCeEEEEEEEccCC----CCcEEEEEE
Confidence 346789999999999865457899999999998 499999999998643 578999999997532 357999999
Q ss_pred EEEEecCCCcEEEEEeeecccceeeeecccccccccccceeecccccCCCCceEeCCEEEEEEEEEEEe
Q 041904 91 SFYSIKFKTNILVSKVRNSTINVIVKHFHAMKSKYGVAKFIDLKTFSDPLNGYLINDACVFGAEVFVVK 159 (317)
Q Consensus 91 ~~l~n~~~~~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~l~~~~~~yl~~d~l~i~~~v~v~~ 159 (317)
|.|+||.+.+....... ..+.|.. ..+|||.+|+++++|.++.+|||.||+|+|+|+|+|++
T Consensus 77 ~~l~n~~~~~~~~~~~~------~~~~f~~-~~~wG~~~fi~~~~L~~~~~g~l~dD~l~I~c~I~V~~ 138 (139)
T cd03774 77 FSILNAKGEETKAMESQ------RAYRFVQ-GKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQ 138 (139)
T ss_pred EEEEecCCCeeeeeccc------CcEeCCC-CCccCHHHeeeHHHhhhhhcccccCCEEEEEEEEEEEc
Confidence 99999987654332221 3466764 47899999999999987778999999999999999975
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=99.94 E-value=2.4e-25 Score=178.54 Aligned_cols=128 Identities=20% Similarity=0.314 Sum_probs=107.9
Q ss_pred CceEEEEEecccccccceeecccc--cceEeeeccCCceEEEEecCCCCC--CCCCeEEEEEEccCCCCCCCCeEEEEEE
Q 041904 175 TYYHTWKVSNFSSLLDEFYESESF--GCYKWYANYSMDVKILLYPNGNGE--AKGNCISLFLDVSQSSIPPNTKLLTKYF 250 (317)
Q Consensus 175 ~~~~~~~i~nfs~~~~~~~~S~~f--~g~~W~~~~~~~~~i~~yp~g~~~--~~~~~lS~yL~~~~~~~~~~~~~~~~~~ 250 (317)
.++++|+|+|||.+ ++.+.|+.| ||++| +|.+||+|+.. +..++|||||.|........|++.|+|+
T Consensus 2 ~~~~~~~I~~~S~l-~e~~~S~~f~vgG~~W--------~i~~~P~g~~~~~~~~~~lsvyL~~~~~~~~~~w~i~a~~~ 72 (137)
T cd03772 2 EATFSFTVERFSRL-SESVLSPPCFVRNLPW--------KIMVMPRNYPDRNPHQKSVGFFLQCNAESDSTSWSCHAQAV 72 (137)
T ss_pred CcEEEEEECCcccC-CCcEECCCEEECCcce--------EEEEEeCCCCCCCCCCCeEEEEEeeCCcCCCCCCeEEEEEE
Confidence 47899999999998 678999999 99999 99999999654 2358999999965444445899999999
Q ss_pred EEEEECCCCC-ceeeeeeEEeeCCCCCccccccccccccCCCCCCceeCCEEEEEEEEEEEe
Q 041904 251 LCVENQMNGK-NSEVEGEWLYTLTNRAIGGRQFMTLAKLKDPTEGYLVDDSCIIKAEVTLHG 311 (317)
Q Consensus 251 l~l~n~~~~~-~~~~~~~~~F~~~~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~~~V~v~~ 311 (317)
|+|+||.+.. .......+.|.....+|||++||+|++|+++++|||+||+|+|||+|+|-.
T Consensus 73 ~~l~~~~~~~~~~~~~~~~~f~~~~~~~G~~~fi~~~~L~~~~sgyl~~D~l~Ie~~V~~~~ 134 (137)
T cd03772 73 LRIINYKDDEPSFSRRISHLFFSKENDWGFSNFMTWSEVTDPEKGFIEDDTITLEVYVQADA 134 (137)
T ss_pred EEEEcCCCCcccEEEeeeeEEcCCCCCccchheeEHHHhcCCCCCcEECCEEEEEEEEEeeC
Confidence 9999998533 334455678976668999999999999987778999999999999998864
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=99.93 E-value=1.1e-25 Score=181.29 Aligned_cols=136 Identities=14% Similarity=0.222 Sum_probs=107.2
Q ss_pred cEEEEEEcCcccccc--cccc--eEEcccE--EeCCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCC-CCCCCEEEEEE
Q 041904 17 SHYLFKIESFSLLSK--ASVE--QLILDNF--EAGGYKWKLSIHLTGSKSVNVTDHISIYLELAETSS-LPTGWEVNAIT 89 (317)
Q Consensus 17 ~~~~w~I~~fs~~~~--~~~~--~~~S~~F--~~gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~-~~~~w~v~~~f 89 (317)
|+|.|+|++|+++++ +.|. .++||+| .++||+|+|++||||...+ .++||||||+++++.. ..++|++.+++
T Consensus 1 g~~vwkI~~ys~~~~~~~~g~~~~i~S~~Fyt~~~Gy~w~i~~ypnG~~~~-~~~~iSv~l~l~~g~~D~~l~wp~~~~~ 79 (148)
T cd03780 1 GKLIWKVTDYKMKKKEAVDGHTVSIFSQPFYTSRCGYRLCARAYLNGDGSG-KGTHLSLYFVVMRGEFDSLLQWPFRQRV 79 (148)
T ss_pred CEEEEEECCHHHHHHhhcCCCccEEECCCcccCCCCeeEEEEEEcCCCCCC-CCCEEEEEEEEecCccccccCcceEEEE
Confidence 689999999999975 3556 8999999 7899999999999998763 6789999999998755 35789999999
Q ss_pred EEEEEecCCCcEEEEEeeecccceeeeecccc----cccccccceeecccccCCCCceEeCCEEEEEEEE
Q 041904 90 ISFYSIKFKTNILVSKVRNSTINVIVKHFHAM----KSKYGVAKFIDLKTFSDPLNGYLINDACVFGAEV 155 (317)
Q Consensus 90 ~~~l~n~~~~~~~~~~~~~~~~~~~~~~F~~~----~~~~G~~~fi~~~~l~~~~~~yl~~d~l~i~~~v 155 (317)
+|.|+||.+.+.... .+.. .++..+.|+.. +..||+++||++++|+..+++||+||+|+|+|.|
T Consensus 80 tfsLlDq~~~~~~~~-~~~~-~~~~~~~F~rp~~~~n~~~G~~~Fi~~~~Le~s~~~ylkdD~~~Ik~~v 147 (148)
T cd03780 80 TLMLLDQSGKKNHIM-ETFK-ADPNSSSFKRPDGEMNIASGCPRFVAHSVLENAKNTYIKDDTLFLKVAV 147 (148)
T ss_pred EEEEECCCCCCCCcc-eeee-cCCccccccCCCCCCCCCcChhheeEHHHhhcccCCcCcCCEEEEEEEE
Confidence 999999975443211 1000 00123557543 5579999999999998444599999999999987
No 6
>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=99.93 E-value=2.6e-25 Score=178.24 Aligned_cols=136 Identities=20% Similarity=0.289 Sum_probs=105.5
Q ss_pred cEEEEEEcCcccccc-c---ccceEEcccEEeC--CeEEEEEEEecCCCCCCCCCcEEEEEEeccCCC-CCCCCEEEEEE
Q 041904 17 SHYLFKIESFSLLSK-A---SVEQLILDNFEAG--GYKWKLSIHLTGSKSVNVTDHISIYLELAETSS-LPTGWEVNAIT 89 (317)
Q Consensus 17 ~~~~w~I~~fs~~~~-~---~~~~~~S~~F~~g--G~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~-~~~~w~v~~~f 89 (317)
|+|.|+|+||+++++ . ....++||+|+.+ ||+|+|.+||||.+.+ .++|+|+||+++++.. ..++|++.+++
T Consensus 1 g~~~W~i~~f~~~~~~a~~~~~~~~~S~~Fyt~~~Gy~w~i~~ypnG~~~~-~~~~iSv~l~l~~g~~D~~l~wpv~~~~ 79 (147)
T cd03779 1 GTFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKVCLRLYLNGDGAG-KGTHISLFFVIMKGEYDALLPWPFRHKV 79 (147)
T ss_pred CeEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEcCCCCCC-CCCEEEEEEEEecCCcccccCcceEEEE
Confidence 689999999998766 2 2347999999986 9999999999998864 6789999999998643 35689999999
Q ss_pred EEEEEecCCCcEEEEEeeecccceeeeecc----cccccccccceeecccccCCCCceEeCCEEEEEEEEE
Q 041904 90 ISFYSIKFKTNILVSKVRNSTINVIVKHFH----AMKSKYGVAKFIDLKTFSDPLNGYLINDACVFGAEVF 156 (317)
Q Consensus 90 ~~~l~n~~~~~~~~~~~~~~~~~~~~~~F~----~~~~~~G~~~fi~~~~l~~~~~~yl~~d~l~i~~~v~ 156 (317)
+|.|+||.+.+....... + +...+.|+ ..+..||+++||++++|+...++||+||+++|+|+|.
T Consensus 80 tfsLlDq~~~~~~~~~~~--~-~~~~~~F~rP~~~~n~~~G~~~Fi~~~~Le~s~~~ylkDD~~~Irc~V~ 147 (147)
T cd03779 80 TFMLLDQNNREHVIDAFR--P-DLSSASFQRPVSDMNVASGCPLFFPLKKLQSPKHAYCKDDTIYIKCVVD 147 (147)
T ss_pred EEEEECCCCCCCCcEeec--C-CcccccccCcccCCCCCcchhheeEHHHhcccCCCcEeCCEEEEEEEEC
Confidence 999999975443211000 0 00135686 4456799999999999983224999999999999973
No 7
>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=99.93 E-value=5.6e-25 Score=183.33 Aligned_cols=139 Identities=14% Similarity=0.157 Sum_probs=109.2
Q ss_pred ccCCcEEEEEEcCcccccc--cccc--eEEcccEEeC--CeEEEEEEEecCCCCCCCCCcEEEEEEeccCCC-CCCCCEE
Q 041904 13 NAAPSHYLFKIESFSLLSK--ASVE--QLILDNFEAG--GYKWKLSIHLTGSKSVNVTDHISIYLELAETSS-LPTGWEV 85 (317)
Q Consensus 13 ~~~~~~~~w~I~~fs~~~~--~~~~--~~~S~~F~~g--G~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~-~~~~w~v 85 (317)
....|+|.|+|+|||.+++ +.|+ .++||+|++| ||+|+|.+||||.+.+ .++|||+||+++++.. ..++|++
T Consensus 35 ~~~~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w~i~~ypnG~g~~-~~~~iSvyl~L~~ge~D~~L~WP~ 113 (186)
T cd03777 35 ASYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMG-KGTHLSLFFVIMRGEYDALLPWPF 113 (186)
T ss_pred cccceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeEEEEEEcCCCCCC-CCCEEEEEEEEecCCcccccCCce
Confidence 4457999999999999875 3445 7999999999 9999999999998763 6789999999998754 3668999
Q ss_pred EEEEEEEEEecCCCcEEEEEeeecccceeeeecc-cc---cccccccceeecccccCCCCceEeCCEEEEEEEEE
Q 041904 86 NAITISFYSIKFKTNILVSKVRNSTINVIVKHFH-AM---KSKYGVAKFIDLKTFSDPLNGYLINDACVFGAEVF 156 (317)
Q Consensus 86 ~~~f~~~l~n~~~~~~~~~~~~~~~~~~~~~~F~-~~---~~~~G~~~fi~~~~l~~~~~~yl~~d~l~i~~~v~ 156 (317)
.++|+|.|+||.+...... +...+. +....|+ .. +.+||+++||++++|+ .++||+||+|+|+|.|.
T Consensus 114 ~~~~tfsLlDQ~~~~~~~~-~~~~p~-p~~~~F~rp~~~~n~~~G~~~Fi~~~~Le--~~~ylkdD~l~Irv~v~ 184 (186)
T cd03777 114 KQKVTLMLMDQGSSRRHLG-DAFKPD-PNSSSFKKPTGEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIVD 184 (186)
T ss_pred eEEEEEEEEcCCCcccccc-ceeccC-CccccccCCccCCCCCCCchheeEHHHhc--cCCcEeCCEEEEEEEEe
Confidence 9999999999975322221 100000 1224575 22 4579999999999998 68899999999999886
No 8
>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=99.92 E-value=1.1e-24 Score=177.24 Aligned_cols=135 Identities=18% Similarity=0.261 Sum_probs=104.7
Q ss_pred cEEEEEEcCcccccc----cccceEEcccEEeC--CeEEEEEEEecCCCCCCCCCcEEEEEEeccCCC-CCCCCEEEEEE
Q 041904 17 SHYLFKIESFSLLSK----ASVEQLILDNFEAG--GYKWKLSIHLTGSKSVNVTDHISIYLELAETSS-LPTGWEVNAIT 89 (317)
Q Consensus 17 ~~~~w~I~~fs~~~~----~~~~~~~S~~F~~g--G~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~-~~~~w~v~~~f 89 (317)
|+|+|+|++||.+++ ..++.++||+|++| ||+|+|.+||+|...+ .++||||||++.+... ..++|++.++|
T Consensus 1 g~~~w~I~~fs~~~~~~~~~~~~~~~S~~F~vg~~G~~w~i~~yP~G~~~~-~~~~lsl~L~l~~~~~d~~~~w~~~~~~ 79 (149)
T cd00270 1 GVLIWKIKDYSRKLQEAVAGSNTVLYSPPFYTSRYGYKLCLRLYLNGDGTG-KGTHLSLFVHVMKGEYDALLEWPFRGKI 79 (149)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCCC-CCCEEEEEEEEeccCCCccccCCccceE
Confidence 689999999999865 24679999999999 9999999999998653 5689999999988654 35789999999
Q ss_pred EEEEEecCCC--cEEEEEeeecccceeeeecc-----cccccccccceeecccccCCCCceEeCCEEEEEEEEE
Q 041904 90 ISFYSIKFKT--NILVSKVRNSTINVIVKHFH-----AMKSKYGVAKFIDLKTFSDPLNGYLINDACVFGAEVF 156 (317)
Q Consensus 90 ~~~l~n~~~~--~~~~~~~~~~~~~~~~~~F~-----~~~~~~G~~~fi~~~~l~~~~~~yl~~d~l~i~~~v~ 156 (317)
+|.|+||.++ ..+..... ........|. ....+|||.+|+++++|+ +.|||+||+|+|+|+|.
T Consensus 80 ~~~l~d~~~~~~~~~~~~~~--~~~~~~~~f~~~~~~~~~~~~G~~~fi~~~~L~--~~gfl~dD~l~I~~~v~ 149 (149)
T cd00270 80 TLTLLDQSDDSKRKHITETF--MPDPNSSAFQRPPTGENNIGFGYPEFVPLEKLE--SRGYVKDDTLFIKVEVD 149 (149)
T ss_pred EEEEECCCCccccCceEEEE--EcCCchHhhcCCCcccCCCCcCcceEeEHHHhc--cCCCEeCCEEEEEEEEC
Confidence 9999999874 22211110 0000123454 145789999999999998 46899999999999973
No 9
>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=1.8e-24 Score=175.12 Aligned_cols=145 Identities=18% Similarity=0.257 Sum_probs=110.7
Q ss_pred CceeeccccCCcEEEEEEcCcccccc--c--ccceEEcccEEe--CCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCCC
Q 041904 6 GAVLAGRNAAPSHYLFKIESFSLLSK--A--SVEQLILDNFEA--GGYKWKLSIHLTGSKSVNVTDHISIYLELAETSSL 79 (317)
Q Consensus 6 ~~~~~~~~~~~~~~~w~I~~fs~~~~--~--~~~~~~S~~F~~--gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~~ 79 (317)
.+.+-......|+|.|+|.||+++++ . ....++||+|+. +||+|+|++||||++. +.+.|||+||+++++..+
T Consensus 8 ~~~~l~~~~~~g~fiWkI~~fs~~~~~a~~~~~~~i~Sp~Fyt~~~GYk~~l~~ylnG~g~-~~g~~LSly~~l~~Ge~D 86 (164)
T cd03778 8 KVLEXEASTYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGT-GRGTHLSLFFVVMKGPND 86 (164)
T ss_pred HhhhccccccCCEEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCeEEEEEEEeCCCCC-CCCCEEEEEEEEecCCcC
Confidence 33333334568999999999999876 1 234899999997 4999999999999876 367899999999999886
Q ss_pred C-CCCEEEEEEEEEEEecCCCcEEEEEeeecccceeeeec----ccccccccccceeecccccCCCCceEeCCEEEEEEE
Q 041904 80 P-TGWEVNAITISFYSIKFKTNILVSKVRNSTINVIVKHF----HAMKSKYGVAKFIDLKTFSDPLNGYLINDACVFGAE 154 (317)
Q Consensus 80 ~-~~w~v~~~f~~~l~n~~~~~~~~~~~~~~~~~~~~~~F----~~~~~~~G~~~fi~~~~l~~~~~~yl~~d~l~i~~~ 154 (317)
. ++|++..+++|.|+||++..... ++..++ .....| +..+.+||++.|+++++|..+ ++||+||+|.|+|.
T Consensus 87 ~~L~WPf~~~itl~llDQ~~r~hi~--~~~~pd-~~~~~f~RP~~~~n~~~G~~~Fv~l~~l~~~-~~Yv~dDtlfIk~~ 162 (164)
T cd03778 87 ALLRWPFNQKVTLMLLDQNNREHVI--DAFRPD-VTSSSFQRPVNDMNIASGCPLFCPVSKXEAK-NSYVRDDAIFIKAI 162 (164)
T ss_pred cccCCceeeEEEEEEECCCCCCcce--eEEEcC-cchHhcCCCCcccccCcCcceEEEhhHcccc-CCcccCCeEEEEEE
Confidence 4 89999999999999997533222 110000 011235 234567999999999999742 69999999999998
Q ss_pred E
Q 041904 155 V 155 (317)
Q Consensus 155 v 155 (317)
|
T Consensus 163 V 163 (164)
T cd03778 163 V 163 (164)
T ss_pred E
Confidence 7
No 10
>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=99.92 E-value=1e-24 Score=176.91 Aligned_cols=135 Identities=17% Similarity=0.269 Sum_probs=104.1
Q ss_pred cEEEEEEcCcccccc--cccc--eEEcccEEe--CCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCC-CCCCCEEEEEE
Q 041904 17 SHYLFKIESFSLLSK--ASVE--QLILDNFEA--GGYKWKLSIHLTGSKSVNVTDHISIYLELAETSS-LPTGWEVNAIT 89 (317)
Q Consensus 17 ~~~~w~I~~fs~~~~--~~~~--~~~S~~F~~--gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~-~~~~w~v~~~f 89 (317)
|+|.|+|.+||.+++ ..++ .++||+|++ |||+|+|.+||+|...+ ..+|||+||++++... ..++|++.++|
T Consensus 1 g~h~~~I~~yS~~~~~~~~g~~~~i~S~~F~~~~gGy~W~i~~yP~G~~~~-~~~~lS~~L~l~~~~~d~~l~wpv~a~~ 79 (147)
T cd03776 1 GIYVWKIKNFSNLRRSMEAGSPVVIHSPGFYTSPPGYKLCARLNLSLPEAR-CPNYISLFVHLMQGENDSHLDWPFQGTI 79 (147)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCCC-CCCEEEEEEEEeccCCCcccCCccccee
Confidence 689999999998654 3455 488999996 79999999999998763 5789999999988654 35689999999
Q ss_pred EEEEEecCCCcEEEEEeeecccceeeeeccc-----ccccccccceeecccccCCCCceEeCCEEEEEEEEE
Q 041904 90 ISFYSIKFKTNILVSKVRNSTINVIVKHFHA-----MKSKYGVAKFIDLKTFSDPLNGYLINDACVFGAEVF 156 (317)
Q Consensus 90 ~~~l~n~~~~~~~~~~~~~~~~~~~~~~F~~-----~~~~~G~~~fi~~~~l~~~~~~yl~~d~l~i~~~v~ 156 (317)
+|.|+||.++........ . .......|.. ...+|||.+||++++|+ +.+||+||+|+|+|+|.
T Consensus 80 ~~~lldq~~~~~~~~~~~-~-~~~~~~~F~~p~~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~I~c~V~ 147 (147)
T cd03776 80 TLTLLDQSEPRQNIHETM-M-SKPELLAFQRPTTDRNPKGFGYVEFAHIEDLL--QRGFVKNDTLLIKIEVN 147 (147)
T ss_pred EEEEECCCcccCccEEEE-E-cCCChHhhcCCCcCCCCCCeeEceeeEHHHhh--hCCCccCCEEEEEEEEC
Confidence 999999986433221110 0 0012245652 34679999999999998 56899999999999984
No 11
>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=99.92 E-value=2.3e-24 Score=171.84 Aligned_cols=127 Identities=20% Similarity=0.329 Sum_probs=104.1
Q ss_pred cCCcEEEEEEcCcccccccccceEEcccEEeCCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCCCCCCCEEEEEEEEEE
Q 041904 14 AAPSHYLFKIESFSLLSKASVEQLILDNFEAGGYKWKLSIHLTGSKSVNVTDHISIYLELAETSSLPTGWEVNAITISFY 93 (317)
Q Consensus 14 ~~~~~~~w~I~~fs~~~~~~~~~~~S~~F~~gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~~~~~w~v~~~f~~~l 93 (317)
++.++++|+|.|||.+++ .++.++|++|.+|||+|+|.+||+|...+ .++|||+||++... ..|.+.++|+|.|
T Consensus 2 ~~~~~~~~~I~~fS~~~~-~~~~~~S~~F~vgG~~W~i~~yP~G~~~~-~~~~lSl~L~l~~~----~~~~~~~~~~l~l 75 (132)
T cd03773 2 PPYDSATFTLENFSTLRQ-SADPVYSDPLNVDGLCWRLKVYPDGNGEV-RGNFLSVFLELCSG----LGEASKYEYRVEM 75 (132)
T ss_pred CCCcccEEEECChhhhhc-CCcceeCCCeEeCCccEEEEEECCCCCCC-CCCEEEEEEEeecC----CCCceeEEEEEEE
Confidence 567889999999999864 46899999999999999999999998653 56899999998763 2367888999999
Q ss_pred EecCCCcEEEEEeeecccceeeeecccccccccccceeecccccCCCCceEeC--CEEEEEEEEE
Q 041904 94 SIKFKTNILVSKVRNSTINVIVKHFHAMKSKYGVAKFIDLKTFSDPLNGYLIN--DACVFGAEVF 156 (317)
Q Consensus 94 ~n~~~~~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~l~~~~~~yl~~--d~l~i~~~v~ 156 (317)
+||.++....... ..+.|.. ..+|||.+|+++++|. ++|||.| |+|+|+|.|+
T Consensus 76 lnq~~~~~~~~~~-------~~~~f~~-~~~wG~~~Fi~~~~L~--~~gfl~~~~D~l~i~~~v~ 130 (132)
T cd03773 76 VHQANPTKNIKRE-------FASDFEV-GECWGYNRFFRLDLLI--NEGYLLPENDTLILRFSVR 130 (132)
T ss_pred EcCCCCccceEEe-------ccccccC-CCCcCHHHhccHHHHh--hCCCcCCCCCEEEEEEEEe
Confidence 9995433333222 4566764 4679999999999997 5899999 9999999986
No 12
>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=99.92 E-value=2.3e-24 Score=175.89 Aligned_cols=136 Identities=21% Similarity=0.247 Sum_probs=105.3
Q ss_pred cEEEEEEcCcccccc---c-ccceEEcccEEeC--CeEEEEEEEecCCCCCCCCCcEEEEEEeccCCCC-CCCCEEEEEE
Q 041904 17 SHYLFKIESFSLLSK---A-SVEQLILDNFEAG--GYKWKLSIHLTGSKSVNVTDHISIYLELAETSSL-PTGWEVNAIT 89 (317)
Q Consensus 17 ~~~~w~I~~fs~~~~---~-~~~~~~S~~F~~g--G~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~~-~~~w~v~~~f 89 (317)
|+|.|+|.+||.+++ . .++.+.|++|++| ||+|+|.+||||...+ .++|||+||+++++... .++|++.++|
T Consensus 1 g~~~~~I~gys~~~~~~~~~~~~~i~S~~F~vg~~Gy~w~i~~yPnG~~~~-~~~~vs~~l~l~~ge~d~~l~wp~~a~~ 79 (154)
T cd03781 1 GTLLWKITDYSRKLQEAKGRDNLELFSPPFYTHRYGYKLQVSAFLNGNGSG-EGSHLSVYIRVLPGEYDNLLEWPFSHRI 79 (154)
T ss_pred CEEEEEECCHHHHHHHhhcCCCceEECCCeecCCCCEEEEEEEECCCCCCC-CCCEEEEEEEEecCCcccccCCceeeEE
Confidence 689999999999875 2 3578999999999 9999999999998764 67899999999986543 3689999999
Q ss_pred EEEEEecCCC--cEE-EEEeeecccceeeeecc--------cccccccccceeecccccCCCCceEeCCEEEEEEEEE
Q 041904 90 ISFYSIKFKT--NIL-VSKVRNSTINVIVKHFH--------AMKSKYGVAKFIDLKTFSDPLNGYLINDACVFGAEVF 156 (317)
Q Consensus 90 ~~~l~n~~~~--~~~-~~~~~~~~~~~~~~~F~--------~~~~~~G~~~fi~~~~l~~~~~~yl~~d~l~i~~~v~ 156 (317)
+|+|+||.+. ... ...... ..+.....|+ ..+.+||+..||++++|+ +.+||+||+|+|+|+|.
T Consensus 80 ~~~llDq~~~~~~~~~~~~~~~-~~~~~~~~F~rp~~~~~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~Irc~v~ 154 (154)
T cd03781 80 TFTLLDQSDPSLSKPQHITETF-TPDPTWKNFQKPSASRLDESTLGFGYPKFISHEDLK--KRNYIKDDAIFLRASVE 154 (154)
T ss_pred EEEEECCCCCccccCcceEEEE-EcCCchhhhcCCcccccCCCCCccchhHeeEHHHHh--hCCcccCCEEEEEEEeC
Confidence 9999999764 111 110100 0001234455 234579999999999998 67899999999999873
No 13
>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=99.91 E-value=6.5e-24 Score=169.47 Aligned_cols=121 Identities=22% Similarity=0.461 Sum_probs=102.5
Q ss_pred eEEEEEecccccccceeecccc--cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEE-ccCCC----CCCCCeEEEEE
Q 041904 177 YHTWKVSNFSSLLDEFYESESF--GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLD-VSQSS----IPPNTKLLTKY 249 (317)
Q Consensus 177 ~~~~~i~nfs~~~~~~~~S~~f--~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~-~~~~~----~~~~~~~~~~~ 249 (317)
+++|+|.|||.+ ++.+.|+.| |||+| +|.+||+|+.. .+|+|+||. .+... .+..|.+.|+|
T Consensus 2 ~f~w~I~~fS~~-~~~~~S~~F~vGG~~W--------~l~~yP~G~~~--~~~iSlyL~l~~~~~~~~~~~~~~~v~a~f 70 (134)
T cd03775 2 SFTWRIKNWSEL-EKKVHSPKFKCGGFEW--------RILLFPQGNSQ--TGGVSIYLEPHPEEEEKAPLDEDWSVCAQF 70 (134)
T ss_pred cEEEEECCcccC-CcceeCCCEEECCeeE--------EEEEeCCCCCC--CCeEEEEEEecCcccccccCCCCCeEEEEE
Confidence 589999999996 578999999 99999 99999999865 689999999 44433 25789999999
Q ss_pred EEEEEECCCCCc-eeeeeeEEeeCCCCCccccccccccccCCC----CCCceeCCEEEEEEEEE
Q 041904 250 FLCVENQMNGKN-SEVEGEWLYTLTNRAIGGRQFMTLAKLKDP----TEGYLVDDSCIIKAEVT 308 (317)
Q Consensus 250 ~l~l~n~~~~~~-~~~~~~~~F~~~~~~~G~~~fi~~~~L~~~----~~gyl~dd~l~i~~~V~ 308 (317)
+|.|+||.++.. ......+.|+....+|||.+||++++|++| ++|||+||+|+|+|.|.
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 999999976542 334557899877789999999999999954 57999999999999873
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=99.91 E-value=7.5e-24 Score=172.87 Aligned_cols=136 Identities=14% Similarity=0.193 Sum_probs=103.2
Q ss_pred CcEEEEEEcCcccccc--cccceEEcccE-EeCCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCC-CCCCCE-EEEEEE
Q 041904 16 PSHYLFKIESFSLLSK--ASVEQLILDNF-EAGGYKWKLSIHLTGSKSVNVTDHISIYLELAETSS-LPTGWE-VNAITI 90 (317)
Q Consensus 16 ~~~~~w~I~~fs~~~~--~~~~~~~S~~F-~~gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~-~~~~w~-v~~~f~ 90 (317)
|+.|.|+|.|||.+++ +.++.++||+| .+|||+|+|++||+|... .++||||||+++++.. ..++|+ +.++++
T Consensus 1 cp~hvwkI~~yS~~~~~~~~g~~i~S~~FysvgGy~w~I~~YPnG~~~--~~~~lSlyL~L~~g~~d~~L~WP~v~a~~t 78 (167)
T cd03771 1 CPEAVWRVRNFSQLLETTPKGTKIYSPRFYSPEGYAFQVGLYPNGTES--YPGYTGLYFHLCSGENDDVLEWPCPNRQAT 78 (167)
T ss_pred CCeEEEEEcCchhhhhcCCCCCEEECCCCCccCCeEEEEEEEeCCCCC--CCCcceEEEEEecCCccccccCcceeEEEE
Confidence 6789999999999963 45789999999 889999999999999875 4689999999988654 478899 589999
Q ss_pred EEEEecCCC---cEEEEEeeecccc------eeeeecc----------c-------ccccccccceeecccccCCCCceE
Q 041904 91 SFYSIKFKT---NILVSKVRNSTIN------VIVKHFH----------A-------MKSKYGVAKFIDLKTFSDPLNGYL 144 (317)
Q Consensus 91 ~~l~n~~~~---~~~~~~~~~~~~~------~~~~~F~----------~-------~~~~~G~~~fi~~~~l~~~~~~yl 144 (317)
|.|+||... ..+.... ..++. .....|+ . .+.+|||+.||++++|. .++||
T Consensus 79 ~~LlDQ~~~~~~r~~~~~~-~~~dp~~~~~~~~~~~~~rP~~~~~~~~~~~~~~~~~~~g~G~~~Fis~~~L~--~r~yl 155 (167)
T cd03771 79 MTLLDQDPDIQQRMSNQRS-FTTDPSMTSSDNGEYFWDRPSKVGSYDTDTNGCTCYRGPGYGWSTFISHSRLR--RRDFL 155 (167)
T ss_pred EEEECCCCcccccCcceEE-EecCCcccccccccccccCCccccccccccccccccccCccccccceeHHHhc--cCCCC
Confidence 999999731 1122110 00000 0111122 1 34589999999999998 57799
Q ss_pred eCCEEEEEEEEE
Q 041904 145 INDACVFGAEVF 156 (317)
Q Consensus 145 ~~d~l~i~~~v~ 156 (317)
+||+|.|++++.
T Consensus 156 k~dtl~i~~~~~ 167 (167)
T cd03771 156 KGDDLIILLDFE 167 (167)
T ss_pred cCCEEEEEEEeC
Confidence 999999999873
No 15
>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=99.90 E-value=3.8e-23 Score=166.23 Aligned_cols=126 Identities=24% Similarity=0.436 Sum_probs=103.4
Q ss_pred CCceEEEEEecccccc---cceeecccc--cc---eEeeeccCCceEEEEecCCCCCCCCCeEEEEEEccCCCCCCCCeE
Q 041904 174 PTYYHTWKVSNFSSLL---DEFYESESF--GC---YKWYANYSMDVKILLYPNGNGEAKGNCISLFLDVSQSSIPPNTKL 245 (317)
Q Consensus 174 ~~~~~~~~i~nfs~~~---~~~~~S~~f--~g---~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~~~~~~~~~~~~~ 245 (317)
...+|+|+|+|||.++ ++.+.|+.| || ++| +|.+||+|...+..+|+||||++... ..+++
T Consensus 3 ~~~~~~w~I~~fS~~~~~~~~~i~S~~F~vgg~~~~~W--------~l~~yP~G~~~~~~~~iSlyL~l~~~---~~~~v 71 (139)
T cd03774 3 VKFCYMWTISNFSFCREEMGEVIKSSTFSSGANDKLKW--------CLRVNPKGLDEESKDYLSLYLLLVSC---PKSEV 71 (139)
T ss_pred eEEEEEEEECCchhhhhcCCCEEECCCeecCCcCCceE--------EEEEeCCCCCCCCCCeEEEEEEEccC---CCCcE
Confidence 4578999999999874 678999999 77 599 99999999876667899999994221 24579
Q ss_pred EEEEEEEEEECCCCCcee--eeeeEEeeCCCCCccccccccccccCCCCCCceeCCEEEEEEEEEEEe
Q 041904 246 LTKYFLCVENQMNGKNSE--VEGEWLYTLTNRAIGGRQFMTLAKLKDPTEGYLVDDSCIIKAEVTLHG 311 (317)
Q Consensus 246 ~~~~~l~l~n~~~~~~~~--~~~~~~F~~~~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~~~V~v~~ 311 (317)
.|+|+|.|+||.++.... ....+.|.. ..+|||.+||++++|+++.+|||+||+|+|+|+|+|++
T Consensus 72 ~a~f~~~l~n~~~~~~~~~~~~~~~~f~~-~~~wG~~~fi~~~~L~~~~~g~l~dD~l~I~c~I~V~~ 138 (139)
T cd03774 72 RAKFKFSILNAKGEETKAMESQRAYRFVQ-GKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQ 138 (139)
T ss_pred EEEEEEEEEecCCCeeeeecccCcEeCCC-CCccCHHHeeeHHHhhhhhcccccCCEEEEEEEEEEEc
Confidence 999999999998765321 123466764 57899999999999987668999999999999999986
No 16
>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=99.88 E-value=3.4e-22 Score=159.29 Aligned_cols=121 Identities=31% Similarity=0.492 Sum_probs=100.5
Q ss_pred CCCceEEEEEecccccc--cceeecccc--cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEE-ccCCCCCCCCeEEE
Q 041904 173 PPTYYHTWKVSNFSSLL--DEFYESESF--GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLD-VSQSSIPPNTKLLT 247 (317)
Q Consensus 173 ~~~~~~~~~i~nfs~~~--~~~~~S~~f--~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~-~~~~~~~~~~~~~~ 247 (317)
|+..+++|+|.|||.++ ++.+.|+.| ||++| +|.+||+|+..+.++|||+||. ++. ..|.+.+
T Consensus 2 ~~~~~~~~~I~~fS~~~~~~~~~~S~~F~vgG~~W--------~i~~yP~G~~~~~~~~lSl~L~l~~~----~~~~~~~ 69 (132)
T cd03773 2 PPYDSATFTLENFSTLRQSADPVYSDPLNVDGLCW--------RLKVYPDGNGEVRGNFLSVFLELCSG----LGEASKY 69 (132)
T ss_pred CCCcccEEEECChhhhhcCCcceeCCCeEeCCccE--------EEEEECCCCCCCCCCEEEEEEEeecC----CCCceeE
Confidence 45677999999999985 578999999 99999 9999999988766789999999 442 2466888
Q ss_pred EEEEEEEECCCCC-ceeeeeeEEeeCCCCCccccccccccccCCCCCCceeC--CEEEEEEEEE
Q 041904 248 KYFLCVENQMNGK-NSEVEGEWLYTLTNRAIGGRQFMTLAKLKDPTEGYLVD--DSCIIKAEVT 308 (317)
Q Consensus 248 ~~~l~l~n~~~~~-~~~~~~~~~F~~~~~~~G~~~fi~~~~L~~~~~gyl~d--d~l~i~~~V~ 308 (317)
+|+|+|+||.++. +......+.|.. ..+|||.+|+++++|++ +|||+| |+|+|+|.|+
T Consensus 70 ~~~l~llnq~~~~~~~~~~~~~~f~~-~~~wG~~~Fi~~~~L~~--~gfl~~~~D~l~i~~~v~ 130 (132)
T cd03773 70 EYRVEMVHQANPTKNIKREFASDFEV-GECWGYNRFFRLDLLIN--EGYLLPENDTLILRFSVR 130 (132)
T ss_pred EEEEEEEcCCCCccceEEeccccccC-CCCcCHHHhccHHHHhh--CCCcCCCCCEEEEEEEEe
Confidence 9999999995433 444455677865 46899999999999985 799999 9999999985
No 17
>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=99.87 E-value=7.9e-22 Score=158.12 Aligned_cols=125 Identities=28% Similarity=0.312 Sum_probs=99.5
Q ss_pred ceEEEEEecccccc-----c--ceeecccc----cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEE-ccC-CCCCCC
Q 041904 176 YYHTWKVSNFSSLL-----D--EFYESESF----GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLD-VSQ-SSIPPN 242 (317)
Q Consensus 176 ~~~~~~i~nfs~~~-----~--~~~~S~~f----~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~-~~~-~~~~~~ 242 (317)
+.+.|+|+||+.+. + ..++||.| .||+| +|++||||...++++|||+||+ +.. -+.-..
T Consensus 1 g~~~W~i~~f~~~~~~a~~~~~~~~~S~~Fyt~~~Gy~w--------~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~ 72 (147)
T cd03779 1 GTFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKV--------CLRLYLNGDGAGKGTHISLFFVIMKGEYDALLP 72 (147)
T ss_pred CeEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceE--------EEEEEcCCCCCCCCCEEEEEEEEecCCcccccC
Confidence 46899999999765 2 36899999 79999 9999999998877899999999 532 222358
Q ss_pred CeEEEEEEEEEEECCCCCcee--eee---eEEee----CCCCCccccccccccccCCCCCCceeCCEEEEEEEEE
Q 041904 243 TKLLTKYFLCVENQMNGKNSE--VEG---EWLYT----LTNRAIGGRQFMTLAKLKDPTEGYLVDDSCIIKAEVT 308 (317)
Q Consensus 243 ~~~~~~~~l~l~n~~~~~~~~--~~~---~~~F~----~~~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~~~V~ 308 (317)
|++.++++|.|++|.++.... ... .+.|+ ..+.+||+++||++++|+....+||.||+++|+|+|.
T Consensus 73 wpv~~~~tfsLlDq~~~~~~~~~~~~~~~~~~F~rP~~~~n~~~G~~~Fi~~~~Le~s~~~ylkDD~~~Irc~V~ 147 (147)
T cd03779 73 WPFRHKVTFMLLDQNNREHVIDAFRPDLSSASFQRPVSDMNVASGCPLFFPLKKLQSPKHAYCKDDTIYIKCVVD 147 (147)
T ss_pred cceEEEEEEEEECCCCCCCCcEeecCCcccccccCcccCCCCCcchhheeEHHHhcccCCCcEeCCEEEEEEEEC
Confidence 999999999999998654321 111 25686 3446899999999999986334899999999999983
No 18
>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=99.87 E-value=1.8e-21 Score=157.65 Aligned_cols=127 Identities=25% Similarity=0.281 Sum_probs=103.6
Q ss_pred CCCceEEEEEeccccccc-------ceeecccc----cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEE-ccCCCC-
Q 041904 173 PPTYYHTWKVSNFSSLLD-------EFYESESF----GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLD-VSQSSI- 239 (317)
Q Consensus 173 ~~~~~~~~~i~nfs~~~~-------~~~~S~~f----~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~-~~~~~~- 239 (317)
...++++|+|+||+.+.. ..++||.| +||+| +|++||+|++.+++.|||+||+ +.....
T Consensus 16 ~~~g~fiWkI~~fs~~~~~a~~~~~~~i~Sp~Fyt~~~GYk~--------~l~~ylnG~g~~~g~~LSly~~l~~Ge~D~ 87 (164)
T cd03778 16 TYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKM--------CLRIYLNGDGTGRGTHLSLFFVVMKGPNDA 87 (164)
T ss_pred ccCCEEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCeEE--------EEEEEeCCCCCCCCCEEEEEEEEecCCcCc
Confidence 346899999999998762 37899999 79999 9999999999888899999999 654333
Q ss_pred CCCCeEEEEEEEEEEECCCCCceeeeee-----EEeeC----CCCCccccccccccccCCCCCCceeCCEEEEEEEEE
Q 041904 240 PPNTKLLTKYFLCVENQMNGKNSEVEGE-----WLYTL----TNRAIGGRQFMTLAKLKDPTEGYLVDDSCIIKAEVT 308 (317)
Q Consensus 240 ~~~~~~~~~~~l~l~n~~~~~~~~~~~~-----~~F~~----~~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~~~V~ 308 (317)
-..|++..+++|.|+||.++++...... ..|.. .+.+||++.|+++++|+.. +|||+||+|.|+|.|.
T Consensus 88 ~L~WPf~~~itl~llDQ~~r~hi~~~~~pd~~~~~f~RP~~~~n~~~G~~~Fv~l~~l~~~-~~Yv~dDtlfIk~~Vd 164 (164)
T cd03778 88 LLRWPFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKXEAK-NSYVRDDAIFIKAIVD 164 (164)
T ss_pred ccCCceeeEEEEEEECCCCCCcceeEEEcCcchHhcCCCCcccccCcCcceEEEhhHcccc-CCcccCCeEEEEEEEC
Confidence 3899999999999999987666543221 13532 3467999999999999863 6999999999999873
No 19
>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=99.87 E-value=2.5e-21 Score=155.97 Aligned_cols=125 Identities=22% Similarity=0.299 Sum_probs=100.6
Q ss_pred ceEEEEEecccccc-----cc--eeecccc----cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEE-ccC-CCCCCC
Q 041904 176 YYHTWKVSNFSSLL-----DE--FYESESF----GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLD-VSQ-SSIPPN 242 (317)
Q Consensus 176 ~~~~~~i~nfs~~~-----~~--~~~S~~f----~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~-~~~-~~~~~~ 242 (317)
+.+.|+|.+|+.++ ++ .+.|+.| +||+| +|++||||...++++|||+||+ +.. -+.-..
T Consensus 1 g~~vwkI~~ys~~~~~~~~g~~~~i~S~~Fyt~~~Gy~w--------~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~ 72 (148)
T cd03780 1 GKLIWKVTDYKMKKKEAVDGHTVSIFSQPFYTSRCGYRL--------CARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQ 72 (148)
T ss_pred CEEEEEECCHHHHHHhhcCCCccEEECCCcccCCCCeeE--------EEEEEcCCCCCCCCCEEEEEEEEecCccccccC
Confidence 46899999999986 34 7999999 99999 9999999998878899999999 531 122368
Q ss_pred CeEEEEEEEEEEECCCCC-c-e-eeee---eEEeeCC----CCCccccccccccccCCCCCCceeCCEEEEEEEEE
Q 041904 243 TKLLTKYFLCVENQMNGK-N-S-EVEG---EWLYTLT----NRAIGGRQFMTLAKLKDPTEGYLVDDSCIIKAEVT 308 (317)
Q Consensus 243 ~~~~~~~~l~l~n~~~~~-~-~-~~~~---~~~F~~~----~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~~~V~ 308 (317)
|++.++++|.|++|.+.. + . .... ...|+.. +..||+++||++++|+....+||.||+++|+|.|.
T Consensus 73 wp~~~~~tfsLlDq~~~~~~~~~~~~~~~~~~~F~rp~~~~n~~~G~~~Fi~~~~Le~s~~~ylkdD~~~Ik~~v~ 148 (148)
T cd03780 73 WPFRQRVTLMLLDQSGKKNHIMETFKADPNSSSFKRPDGEMNIASGCPRFVAHSVLENAKNTYIKDDTLFLKVAVD 148 (148)
T ss_pred cceEEEEEEEEECCCCCCCCcceeeecCCccccccCCCCCCCCCcChhheeEHHHhhcccCCcCcCCEEEEEEEEC
Confidence 999999999999997543 2 1 1111 3568655 56799999999999986445899999999999873
No 20
>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=99.86 E-value=1.7e-21 Score=158.51 Aligned_cols=123 Identities=29% Similarity=0.442 Sum_probs=98.3
Q ss_pred ceEEEEEecccccc-------cceeecccc--c--ceEeeeccCCceEEEEecCCCCCCCCCeEEEEEE-ccCC-CCCCC
Q 041904 176 YYHTWKVSNFSSLL-------DEFYESESF--G--CYKWYANYSMDVKILLYPNGNGEAKGNCISLFLD-VSQS-SIPPN 242 (317)
Q Consensus 176 ~~~~~~i~nfs~~~-------~~~~~S~~f--~--g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~-~~~~-~~~~~ 242 (317)
++|+|+|.+||.++ ++.+.|+.| | ||+| +|++||+|...+.++||||||+ ++.. +....
T Consensus 1 g~~~w~I~~fs~~~~~~~~~~~~~~~S~~F~vg~~G~~w--------~i~~yP~G~~~~~~~~lsl~L~l~~~~~d~~~~ 72 (149)
T cd00270 1 GVLIWKIKDYSRKLQEAVAGSNTVLYSPPFYTSRYGYKL--------CLRLYLNGDGTGKGTHLSLFVHVMKGEYDALLE 72 (149)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceE--------EEEEEeCCCCCCCCCEEEEEEEEeccCCCcccc
Confidence 47999999999975 358999999 8 9999 9999999987666789999999 5432 23467
Q ss_pred CeEEEEEEEEEEECCCC---Cceeee-----eeEEee-----CCCCCccccccccccccCCCCCCceeCCEEEEEEEEE
Q 041904 243 TKLLTKYFLCVENQMNG---KNSEVE-----GEWLYT-----LTNRAIGGRQFMTLAKLKDPTEGYLVDDSCIIKAEVT 308 (317)
Q Consensus 243 ~~~~~~~~l~l~n~~~~---~~~~~~-----~~~~F~-----~~~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~~~V~ 308 (317)
|++.++|+|.|+||.++ .+.... ..+.|. ....+|||.+||++++|++ .|||+||+|+|+|+|.
T Consensus 73 w~~~~~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~G~~~fi~~~~L~~--~gfl~dD~l~I~~~v~ 149 (149)
T cd00270 73 WPFRGKITLTLLDQSDDSKRKHITETFMPDPNSSAFQRPPTGENNIGFGYPEFVPLEKLES--RGYVKDDTLFIKVEVD 149 (149)
T ss_pred CCccceEEEEEECCCCccccCceEEEEEcCCchHhhcCCCcccCCCCcCcceEeEHHHhcc--CCCEeCCEEEEEEEEC
Confidence 99999999999999874 222111 123454 1357899999999999996 5899999999999983
No 21
>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=99.86 E-value=7.4e-21 Score=149.26 Aligned_cols=125 Identities=30% Similarity=0.435 Sum_probs=101.1
Q ss_pred cEEEEEEcCcccccccccceEEcccEEeCCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCCCCCCCEEEEEEEEEEEec
Q 041904 17 SHYLFKIESFSLLSKASVEQLILDNFEAGGYKWKLSIHLTGSKSVNVTDHISIYLELAETSSLPTGWEVNAITISFYSIK 96 (317)
Q Consensus 17 ~~~~w~I~~fs~~~~~~~~~~~S~~F~~gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~~~~~w~v~~~f~~~l~n~ 96 (317)
++|+|+|.+|+.. .++.++||.|.++|+.|+|.+||+|... +.+||||||+|.+.......|++.++|+|.|+|+
T Consensus 1 ~~~~~~i~~~~~~---~~~~~~S~~f~~~g~~W~l~~~p~~~~~--~~~~lsv~L~~~~~~~~~~~~~~~~~~~~~l~~~ 75 (126)
T cd00121 1 GKHTWKIVNFSEL---EGESIYSPPFEVGGYKWRIRIYPNGDGE--SGDYLSLYLELDKGESDLEKWSVRAEFTLKLVNQ 75 (126)
T ss_pred CEEEEEECCCCCC---CCcEEECCCEEEcCEeEEEEEEcCCCCC--CCCEEEEEEEecCCCCCCCCCcEEEEEEEEEECC
Confidence 4799999999992 3679999999999999999999999764 4689999999988664456799999999999999
Q ss_pred CCCcEEEEEeeecccceeeeecc-cccccccccceeecccccCCCCceEeCCEEEEEEEEE
Q 041904 97 FKTNILVSKVRNSTINVIVKHFH-AMKSKYGVAKFIDLKTFSDPLNGYLINDACVFGAEVF 156 (317)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~F~-~~~~~~G~~~fi~~~~l~~~~~~yl~~d~l~i~~~v~ 156 (317)
++.+.... . ....|. ....+|||.+|+++++|.+ ..++.||+|+|+|+|.
T Consensus 76 ~~~~~~~~-~-------~~~~~~~~~~~~~G~~~fi~~~~l~~--~~~~~~d~l~i~~~v~ 126 (126)
T cd00121 76 NGGKSLSK-S-------FTHVFFSEKGSGWGFPKFISWDDLED--SYYLVDDSLTIEVEVK 126 (126)
T ss_pred CCCccceE-e-------ccCCcCCCCCCCCChHHeeEHHHhcc--CCcEECCEEEEEEEEC
Confidence 84333221 2 233443 4568999999999999983 3349999999999973
No 22
>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=99.85 E-value=4.3e-21 Score=155.66 Aligned_cols=123 Identities=23% Similarity=0.282 Sum_probs=97.3
Q ss_pred ceEEEEEecccccc-----cc--eeecccc----cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEE-ccC-CCCCCC
Q 041904 176 YYHTWKVSNFSSLL-----DE--FYESESF----GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLD-VSQ-SSIPPN 242 (317)
Q Consensus 176 ~~~~~~i~nfs~~~-----~~--~~~S~~f----~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~-~~~-~~~~~~ 242 (317)
+.|.|+|.+||.++ ++ .+.|+.| |||+| +|++||+|...+..+|||+||+ ++. .+....
T Consensus 1 g~h~~~I~~yS~~~~~~~~g~~~~i~S~~F~~~~gGy~W--------~i~~yP~G~~~~~~~~lS~~L~l~~~~~d~~l~ 72 (147)
T cd03776 1 GIYVWKIKNFSNLRRSMEAGSPVVIHSPGFYTSPPGYKL--------CARLNLSLPEARCPNYISLFVHLMQGENDSHLD 72 (147)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceE--------EEEEEeCCCCCCCCCEEEEEEEEeccCCCcccC
Confidence 47999999999764 33 4889999 69999 9999999998777789999999 442 223467
Q ss_pred CeEEEEEEEEEEECCCCC-ceee-----eeeEEeeC-----CCCCccccccccccccCCCCCCceeCCEEEEEEEEE
Q 041904 243 TKLLTKYFLCVENQMNGK-NSEV-----EGEWLYTL-----TNRAIGGRQFMTLAKLKDPTEGYLVDDSCIIKAEVT 308 (317)
Q Consensus 243 ~~~~~~~~l~l~n~~~~~-~~~~-----~~~~~F~~-----~~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~~~V~ 308 (317)
|++.++++|.|++|.++. +... .....|.. .+.+|||++||++++|+. .+||+||+|+|+|+|.
T Consensus 73 wpv~a~~~~~lldq~~~~~~~~~~~~~~~~~~~F~~p~~~~~~~~~G~~~fi~~~~Le~--~~yl~dD~l~I~c~V~ 147 (147)
T cd03776 73 WPFQGTITLTLLDQSEPRQNIHETMMSKPELLAFQRPTTDRNPKGFGYVEFAHIEDLLQ--RGFVKNDTLLIKIEVN 147 (147)
T ss_pred CcccceeEEEEECCCcccCccEEEEEcCCChHhhcCCCcCCCCCCeeEceeeEHHHhhh--CCCccCCEEEEEEEEC
Confidence 999999999999998643 2111 11245653 236799999999999986 6899999999999984
No 23
>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=99.85 E-value=5.5e-21 Score=154.08 Aligned_cols=137 Identities=15% Similarity=0.199 Sum_probs=104.8
Q ss_pred CcEEEEEEcCcccccc--cccceEEcccEEeC-CeEEEEEEEecCCCCCCCCCcEEEEEEeccCCC-CCCCCEE-EEEEE
Q 041904 16 PSHYLFKIESFSLLSK--ASVEQLILDNFEAG-GYKWKLSIHLTGSKSVNVTDHISIYLELAETSS-LPTGWEV-NAITI 90 (317)
Q Consensus 16 ~~~~~w~I~~fs~~~~--~~~~~~~S~~F~~g-G~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~-~~~~w~v-~~~f~ 90 (317)
|+.+.|+|.||+++++ ..+..++||+|+.. ||+.+|++||+|....+.+.|||||+++++++. ..++||+ .-+++
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 5779999999999876 25678999999985 999999999999875446789999999999877 4789995 56899
Q ss_pred EEEEecCC---CcEEEEEeeecccc-e------eeeeccc--------------ccccccccceeecccccCCCCceEeC
Q 041904 91 SFYSIKFK---TNILVSKVRNSTIN-V------IVKHFHA--------------MKSKYGVAKFIDLKTFSDPLNGYLIN 146 (317)
Q Consensus 91 ~~l~n~~~---~~~~~~~~~~~~~~-~------~~~~F~~--------------~~~~~G~~~fi~~~~l~~~~~~yl~~ 146 (317)
|.|+||+. ...+..... .++. + ....|+. .+.++||+.|+++++|. .++||+|
T Consensus 81 l~llDQ~~~~~~r~~~~~sf-~~d~~~~~~~~~~~~~f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~--~r~yikd 157 (167)
T cd03783 81 ITVLDQDPDVRLRMSSSRSF-TTDKSQTSSAINGTLRWDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLR--RRSFLKN 157 (167)
T ss_pred EEEEcCCcchhhccccceee-ecCCCcccccccccccccCCcccccccccccccCCcccccccceeHHHHh--hCCcccC
Confidence 99999964 222211000 0000 0 1112431 35689999999999998 6899999
Q ss_pred CEEEEEEEE
Q 041904 147 DACVFGAEV 155 (317)
Q Consensus 147 d~l~i~~~v 155 (317)
|+|.|.+++
T Consensus 158 DtlfI~~~~ 166 (167)
T cd03783 158 DDLIIFVDF 166 (167)
T ss_pred CeEEEEEec
Confidence 999999886
No 24
>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=99.85 E-value=1.4e-20 Score=153.61 Aligned_cols=123 Identities=20% Similarity=0.310 Sum_probs=97.5
Q ss_pred ceEEEEEecccccc-------cceeecccc--c--ceEeeeccCCceEEEEecCCCCCCCCCeEEEEEE-ccCCC-CCCC
Q 041904 176 YYHTWKVSNFSSLL-------DEFYESESF--G--CYKWYANYSMDVKILLYPNGNGEAKGNCISLFLD-VSQSS-IPPN 242 (317)
Q Consensus 176 ~~~~~~i~nfs~~~-------~~~~~S~~f--~--g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~-~~~~~-~~~~ 242 (317)
+.|.|+|.+||.++ +..+.|+.| | ||+| +|++||+|...+.++|||+||+ +.... ....
T Consensus 1 g~~~~~I~gys~~~~~~~~~~~~~i~S~~F~vg~~Gy~w--------~i~~yPnG~~~~~~~~vs~~l~l~~ge~d~~l~ 72 (154)
T cd03781 1 GTLLWKITDYSRKLQEAKGRDNLELFSPPFYTHRYGYKL--------QVSAFLNGNGSGEGSHLSVYIRVLPGEYDNLLE 72 (154)
T ss_pred CEEEEEECCHHHHHHHhhcCCCceEECCCeecCCCCEEE--------EEEEECCCCCCCCCCEEEEEEEEecCCcccccC
Confidence 47899999999875 258999999 8 9999 9999999988877899999999 54222 2258
Q ss_pred CeEEEEEEEEEEECCCC--C---ceeee-----eeEEeeC--------CCCCccccccccccccCCCCCCceeCCEEEEE
Q 041904 243 TKLLTKYFLCVENQMNG--K---NSEVE-----GEWLYTL--------TNRAIGGRQFMTLAKLKDPTEGYLVDDSCIIK 304 (317)
Q Consensus 243 ~~~~~~~~l~l~n~~~~--~---~~~~~-----~~~~F~~--------~~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~ 304 (317)
|++.++++|.|++|.+. . +.... ....|+. .+.+||+.+||++++|+. ++||+||+|+|+
T Consensus 73 wp~~a~~~~~llDq~~~~~~~~~~~~~~~~~~~~~~~F~rp~~~~~~~~~~~~G~~~fi~~~~Le~--~~yl~dD~l~Ir 150 (154)
T cd03781 73 WPFSHRITFTLLDQSDPSLSKPQHITETFTPDPTWKNFQKPSASRLDESTLGFGYPKFISHEDLKK--RNYIKDDAIFLR 150 (154)
T ss_pred CceeeEEEEEEECCCCCccccCcceEEEEEcCCchhhhcCCcccccCCCCCccchhHeeEHHHHhh--CCcccCCEEEEE
Confidence 99999999999999864 1 11111 1234542 345799999999999996 789999999999
Q ss_pred EEEE
Q 041904 305 AEVT 308 (317)
Q Consensus 305 ~~V~ 308 (317)
|.|.
T Consensus 151 c~v~ 154 (154)
T cd03781 151 ASVE 154 (154)
T ss_pred EEeC
Confidence 9883
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=99.85 E-value=1.5e-20 Score=156.76 Aligned_cols=127 Identities=24% Similarity=0.299 Sum_probs=101.5
Q ss_pred CCCceEEEEEecccccc-----cc--eeecccc--c--ceEeeeccCCceEEEEecCCCCCCCCCeEEEEEE-ccC-CCC
Q 041904 173 PPTYYHTWKVSNFSSLL-----DE--FYESESF--G--CYKWYANYSMDVKILLYPNGNGEAKGNCISLFLD-VSQ-SSI 239 (317)
Q Consensus 173 ~~~~~~~~~i~nfs~~~-----~~--~~~S~~f--~--g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~-~~~-~~~ 239 (317)
...+.|.|+|.+|+.++ ++ .+.|+.| + ||+| +|++||||.+.++++|||+||+ +.. -+.
T Consensus 36 ~~~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w--------~i~~ypnG~g~~~~~~iSvyl~L~~ge~D~ 107 (186)
T cd03777 36 SYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKM--------CARVYLNGDGMGKGTHLSLFFVIMRGEYDA 107 (186)
T ss_pred ccceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeE--------EEEEEcCCCCCCCCCEEEEEEEEecCCccc
Confidence 34699999999999875 34 7999999 7 9999 9999999998878899999999 542 222
Q ss_pred CCCCeEEEEEEEEEEECCCC-Cceee-----eeeEEee-CC---CCCccccccccccccCCCCCCceeCCEEEEEEEEEE
Q 041904 240 PPNTKLLTKYFLCVENQMNG-KNSEV-----EGEWLYT-LT---NRAIGGRQFMTLAKLKDPTEGYLVDDSCIIKAEVTL 309 (317)
Q Consensus 240 ~~~~~~~~~~~l~l~n~~~~-~~~~~-----~~~~~F~-~~---~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~~~V~v 309 (317)
-..|++.++++|.|++|.+. .+... .....|. .. +.+||+++||++++|+. ++||.||+++|+|.|..
T Consensus 108 ~L~WP~~~~~tfsLlDQ~~~~~~~~~~~~p~p~~~~F~rp~~~~n~~~G~~~Fi~~~~Le~--~~ylkdD~l~Irv~v~~ 185 (186)
T cd03777 108 LLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLEN--GTYIKDDTIFIKVIVDT 185 (186)
T ss_pred ccCCceeEEEEEEEEcCCCccccccceeccCCccccccCCccCCCCCCCchheeEHHHhcc--CCcEeCCEEEEEEEEec
Confidence 35899999999999999742 12111 1224576 32 45799999999999986 78999999999999863
No 26
>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=1.7e-20 Score=150.42 Aligned_cols=136 Identities=14% Similarity=0.280 Sum_probs=104.9
Q ss_pred CcEEEEEEcCcccccc--cccceEEcccEEe-CCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCC-CCCCCEEE-EEEE
Q 041904 16 PSHYLFKIESFSLLSK--ASVEQLILDNFEA-GGYKWKLSIHLTGSKSVNVTDHISIYLELAETSS-LPTGWEVN-AITI 90 (317)
Q Consensus 16 ~~~~~w~I~~fs~~~~--~~~~~~~S~~F~~-gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~-~~~~w~v~-~~f~ 90 (317)
|+.|.|+|.||+++++ ..+..++||+|+. .||+.+|.+||||.+. +++|||||+++++++. ..++||+. .+++
T Consensus 1 cp~~iWkI~~fs~~~~~~~~~~~i~Sp~FYt~~GYkl~l~~ylnG~g~--~~~~lsl~~~lm~Ge~D~~L~WPf~~~qit 78 (167)
T cd03782 1 CPEHIWHIRNFTQLLATTPPNGKIYSPPFLSSTGYSFQVGLYLNGTDD--YPGNLAIYLHLTSGPNDDQLQWPCPWQQAT 78 (167)
T ss_pred CCcEEEEeCcHHHHHHhcCCCceEECCCCcCccCceeEEEEEecCCCC--CCCEEEEEEEEeccCCCccccCCCcCCeEE
Confidence 5789999999999876 3567899999987 5999999999999986 3679999999999877 47899999 8999
Q ss_pred EEEEecCC---CcEEEEEe-eecccc-ee-eeec--c----------c-------ccccccccceeecccccCCCCceEe
Q 041904 91 SFYSIKFK---TNILVSKV-RNSTIN-VI-VKHF--H----------A-------MKSKYGVAKFIDLKTFSDPLNGYLI 145 (317)
Q Consensus 91 ~~l~n~~~---~~~~~~~~-~~~~~~-~~-~~~F--~----------~-------~~~~~G~~~fi~~~~l~~~~~~yl~ 145 (317)
|.|+||+. .+.+.... +..+.. .. ...| + . .+.++||+.|+++++|+ .+.||+
T Consensus 79 ~~LlDQ~~d~~~r~~~~~~~t~~P~~~s~~n~~f~w~rP~kvg~~~~~~~~~~~~r~~~~G~~~Fish~~L~--~r~yik 156 (167)
T cd03782 79 MMLLDQHPDIRQRMSNQRSVTTDPNMTSTDSDEYFWDDPRKVGSEVTDTDGSTFYRGPGYGTSAFITHLRLR--SRDFIK 156 (167)
T ss_pred EEEEcCCCchhhccceeeeEEecCCcccccCccceecCCcccCcccccccccccccccccCccceeeHHHHh--hcCccc
Confidence 99999974 22232210 000000 00 1123 2 1 15789999999999998 689999
Q ss_pred CCEEEEEEEE
Q 041904 146 NDACVFGAEV 155 (317)
Q Consensus 146 ~d~l~i~~~v 155 (317)
||++.|-+++
T Consensus 157 dD~ifi~~~~ 166 (167)
T cd03782 157 GDDVIFLLTM 166 (167)
T ss_pred CCeEEEEEec
Confidence 9999998876
No 27
>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=99.83 E-value=1.1e-19 Score=142.62 Aligned_cols=121 Identities=37% Similarity=0.590 Sum_probs=100.0
Q ss_pred eEEEEEecccccccceeecccc--cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEEcc-CCCCCCCCeEEEEEEEEE
Q 041904 177 YHTWKVSNFSSLLDEFYESESF--GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLDVS-QSSIPPNTKLLTKYFLCV 253 (317)
Q Consensus 177 ~~~~~i~nfs~~~~~~~~S~~f--~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~~~-~~~~~~~~~~~~~~~l~l 253 (317)
+++|+|.+|+...++.+.|+.| +|+.| +|.+||+|... +.++||+||+|. .......|.+.++|+|.|
T Consensus 2 ~~~~~i~~~~~~~~~~~~S~~f~~~g~~W--------~l~~~p~~~~~-~~~~lsv~L~~~~~~~~~~~~~~~~~~~~~l 72 (126)
T cd00121 2 KHTWKIVNFSELEGESIYSPPFEVGGYKW--------RIRIYPNGDGE-SGDYLSLYLELDKGESDLEKWSVRAEFTLKL 72 (126)
T ss_pred EEEEEECCCCCCCCcEEECCCEEEcCEeE--------EEEEEcCCCCC-CCCEEEEEEEecCCCCCCCCCcEEEEEEEEE
Confidence 6899999999966789999999 99999 99999999766 468999999954 332346799999999999
Q ss_pred EECCCCCceeeeeeEEee-CCCCCccccccccccccCCCCCCceeCCEEEEEEEEE
Q 041904 254 ENQMNGKNSEVEGEWLYT-LTNRAIGGRQFMTLAKLKDPTEGYLVDDSCIIKAEVT 308 (317)
Q Consensus 254 ~n~~~~~~~~~~~~~~F~-~~~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~~~V~ 308 (317)
+++++++.......+.|. ....+|||++||++++|++ .++++||+|+|+|+|.
T Consensus 73 ~~~~~~~~~~~~~~~~~~~~~~~~~G~~~fi~~~~l~~--~~~~~~d~l~i~~~v~ 126 (126)
T cd00121 73 VNQNGGKSLSKSFTHVFFSEKGSGWGFPKFISWDDLED--SYYLVDDSLTIEVEVK 126 (126)
T ss_pred ECCCCCccceEeccCCcCCCCCCCCChHHeeEHHHhcc--CCcEECCEEEEEEEEC
Confidence 999855555555555553 4568999999999999997 3449999999999984
No 28
>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=99.82 E-value=4.5e-20 Score=143.92 Aligned_cols=118 Identities=25% Similarity=0.376 Sum_probs=95.4
Q ss_pred EcCcccccccccceEEcccEEeCCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCCCC-CCCEEEEEEEEEEEecCCCcE
Q 041904 23 IESFSLLSKASVEQLILDNFEAGGYKWKLSIHLTGSKSVNVTDHISIYLELAETSSLP-TGWEVNAITISFYSIKFKTNI 101 (317)
Q Consensus 23 I~~fs~~~~~~~~~~~S~~F~~gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~~~-~~w~v~~~f~~~l~n~~~~~~ 101 (317)
|+|||++.. .+..+.|+.|.++|++|+|.+||+|+ .++||+||+|....... .+|++.+++++.|+++.++..
T Consensus 1 i~nfs~l~~-~~~~~~s~~~~~~g~~W~l~~~~~~~-----~~~l~~~L~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~ 74 (119)
T PF00917_consen 1 IKNFSKLKE-GEEYSSSFVFSHGGYPWRLKVYPKGN-----GKYLSVYLHCDKGENDSDLEWSIEAEFRFRLLNQNGKSI 74 (119)
T ss_dssp ETTGGGHHT-SEEEEEEEESSTTSEEEEEEEETTES-----TTEEEEEEEEECSTTGGGSSSSEEEEEEEEEE-TTSCEE
T ss_pred CcccceEeC-CCcEECCCeEEECCEEEEEEEEeCCC-----cCcEEEEEEEeecccccccceeeeEEEEEEEecCCCCcc
Confidence 789999973 23445558888999999999999986 47999999999876543 689999999999999988774
Q ss_pred EEEEeeecccceeeeecccccccccccceeecccccCCCCceEeCCEEEEEEEEEE
Q 041904 102 LVSKVRNSTINVIVKHFHAMKSKYGVAKFIDLKTFSDPLNGYLINDACVFGAEVFV 157 (317)
Q Consensus 102 ~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~l~~~~~~yl~~d~l~i~~~v~v 157 (317)
... . ..+.|... .+|||.+|+++++|.++ .|+.||+|+|+|+|+|
T Consensus 75 ~~~--~------~~~~F~~~-~~~g~~~fi~~~~l~~~--~fl~dd~l~ie~~v~I 119 (119)
T PF00917_consen 75 SKR--I------KSHSFNNP-SSWGWSSFISWEDLEDP--YFLVDDSLTIEVEVKI 119 (119)
T ss_dssp EEE--E------ECEEECTT-SEEEEEEEEEHHHHTTC--TTSBTTEEEEEEEEEE
T ss_pred eee--e------eeeEEeee-cccchhheeEHHHhCcc--CCeECCEEEEEEEEEC
Confidence 332 1 23677643 78999999999999843 3899999999999986
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=99.82 E-value=1.2e-19 Score=148.13 Aligned_cols=122 Identities=22% Similarity=0.355 Sum_probs=94.9
Q ss_pred ceEEEEEecccccc-----cceeecccc---cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEE-cc-CCCCCCCCeE
Q 041904 176 YYHTWKVSNFSSLL-----DEFYESESF---GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLD-VS-QSSIPPNTKL 245 (317)
Q Consensus 176 ~~~~~~i~nfs~~~-----~~~~~S~~f---~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~-~~-~~~~~~~~~~ 245 (317)
.+|.|+|.|||.++ ++.+.|+.| |||+| +|++||+|+.. +++||||||+ +. ..+...+|++
T Consensus 2 p~hvwkI~~yS~~~~~~~~g~~i~S~~FysvgGy~w--------~I~~YPnG~~~-~~~~lSlyL~L~~g~~d~~L~WP~ 72 (167)
T cd03771 2 PEAVWRVRNFSQLLETTPKGTKIYSPRFYSPEGYAF--------QVGLYPNGTES-YPGYTGLYFHLCSGENDDVLEWPC 72 (167)
T ss_pred CeEEEEEcCchhhhhcCCCCCEEECCCCCccCCeEE--------EEEEEeCCCCC-CCCcceEEEEEecCCccccccCcc
Confidence 57999999999985 348999997 99999 99999999987 7899999999 43 2334578995
Q ss_pred -EEEEEEEEEECCCC----Cceee--e----------eeEEeeCC-----------------CCCccccccccccccCCC
Q 041904 246 -LTKYFLCVENQMNG----KNSEV--E----------GEWLYTLT-----------------NRAIGGRQFMTLAKLKDP 291 (317)
Q Consensus 246 -~~~~~l~l~n~~~~----~~~~~--~----------~~~~F~~~-----------------~~~~G~~~fi~~~~L~~~ 291 (317)
.++++|.|++|... .+... . ....|+.. +.+|||++||++++|+.
T Consensus 73 v~a~~t~~LlDQ~~~~~~r~~~~~~~~~dp~~~~~~~~~~~~~rP~~~~~~~~~~~~~~~~~~~g~G~~~Fis~~~L~~- 151 (167)
T cd03771 73 PNRQATMTLLDQDPDIQQRMSNQRSFTTDPSMTSSDNGEYFWDRPSKVGSYDTDTNGCTCYRGPGYGWSTFISHSRLRR- 151 (167)
T ss_pred eeEEEEEEEECCCCcccccCcceEEEecCCcccccccccccccCCccccccccccccccccccCccccccceeHHHhcc-
Confidence 89999999999731 11111 0 01113322 24799999999999997
Q ss_pred CCCceeCCEEEEEEEEE
Q 041904 292 TEGYLVDDSCIIKAEVT 308 (317)
Q Consensus 292 ~~gyl~dd~l~i~~~V~ 308 (317)
.+||+||+|.|+++++
T Consensus 152 -r~ylk~dtl~i~~~~~ 167 (167)
T cd03771 152 -RDFLKGDDLIILLDFE 167 (167)
T ss_pred -CCCCcCCEEEEEEEeC
Confidence 6799999999999873
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=99.79 E-value=7.1e-19 Score=137.13 Aligned_cols=113 Identities=29% Similarity=0.497 Sum_probs=91.0
Q ss_pred Eecccccc-c-ceeecccc--cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEEccCCCCC--CCCeEEEEEEEEEEE
Q 041904 182 VSNFSSLL-D-EFYESESF--GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLDVSQSSIP--PNTKLLTKYFLCVEN 255 (317)
Q Consensus 182 i~nfs~~~-~-~~~~S~~f--~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~~~~~~~~--~~~~~~~~~~l~l~n 255 (317)
|+|||.++ + ..+.|+.+ +|++| +|.+||+|+ ++++++||+|...... ..|++.+++++++++
T Consensus 1 i~nfs~l~~~~~~~~s~~~~~~g~~W--------~l~~~~~~~----~~~l~~~L~~~~~~~~~~~~w~~~~~~~~~~~~ 68 (119)
T PF00917_consen 1 IKNFSKLKEGEEYSSSFVFSHGGYPW--------RLKVYPKGN----GKYLSVYLHCDKGENDSDLEWSIEAEFRFRLLN 68 (119)
T ss_dssp ETTGGGHHTSEEEEEEEESSTTSEEE--------EEEEETTES----TTEEEEEEEEECSTTGGGSSSSEEEEEEEEEE-
T ss_pred CcccceEeCCCcEECCCeEEECCEEE--------EEEEEeCCC----cCcEEEEEEEeecccccccceeeeEEEEEEEec
Confidence 78999998 3 34455777 99999 999999987 4799999996544332 599999999999999
Q ss_pred CCCCCceeeeeeEEeeCCCCCccccccccccccCCCCCCceeCCEEEEEEEEEE
Q 041904 256 QMNGKNSEVEGEWLYTLTNRAIGGRQFMTLAKLKDPTEGYLVDDSCIIKAEVTL 309 (317)
Q Consensus 256 ~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~~~V~v 309 (317)
+.++........+.|.. ..+|||.+||++++|.++ .|++||+|+|+|+|+|
T Consensus 69 ~~~~~~~~~~~~~~F~~-~~~~g~~~fi~~~~l~~~--~fl~dd~l~ie~~v~I 119 (119)
T PF00917_consen 69 QNGKSISKRIKSHSFNN-PSSWGWSSFISWEDLEDP--YFLVDDSLTIEVEVKI 119 (119)
T ss_dssp TTSCEEEEEEECEEECT-TSEEEEEEEEEHHHHTTC--TTSBTTEEEEEEEEEE
T ss_pred CCCCcceeeeeeeEEee-ecccchhheeEHHHhCcc--CCeECCEEEEEEEEEC
Confidence 98876332222588875 478999999999999974 3899999999999987
No 31
>smart00061 MATH meprin and TRAF homology.
Probab=99.71 E-value=1.1e-16 Score=119.40 Aligned_cols=94 Identities=19% Similarity=0.230 Sum_probs=78.7
Q ss_pred EEEEEcCcccccccccceEEcccEEeCCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCCCCCCCEEEEEEEEEEEecCC
Q 041904 19 YLFKIESFSLLSKASVEQLILDNFEAGGYKWKLSIHLTGSKSVNVTDHISIYLELAETSSLPTGWEVNAITISFYSIKFK 98 (317)
Q Consensus 19 ~~w~I~~fs~~~~~~~~~~~S~~F~~gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~~~~~w~v~~~f~~~l~n~~~ 98 (317)
++|+|.+|+.+.. ++.++||+|.++|++|+|.+||+ .+|||+||.|.+....+..|++.|+|++.|+|+++
T Consensus 2 ~~~~~~~~~~~~~--~~~~~S~~f~~~g~~W~i~~~p~-------~~~lsl~L~~~~~~~~~~~w~v~a~~~~~l~~~~~ 72 (95)
T smart00061 2 LSHTFKNVSRLEE--GESYFSPSEEHFNIPWRLKIYRK-------NGFLSLYLHCEKEECDSRKWSIEAEFTLKLVSQNG 72 (95)
T ss_pred ceeEEEchhhccc--CceEeCChhEEcCceeEEEEEEc-------CCEEEEEEEeCCCcCCCCCeEEEEEEEEEEEeCCC
Confidence 5799999999853 78999999999999999999998 37999999998765545589999999999999987
Q ss_pred CcEEEEEeeecccceeeeeccccccccccccee
Q 041904 99 TNILVSKVRNSTINVIVKHFHAMKSKYGVAKFI 131 (317)
Q Consensus 99 ~~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi 131 (317)
+.... . ..+.|.. ..+|||.+||
T Consensus 73 ~~~~~--~-------~~~~F~~-~~~~G~~~fi 95 (95)
T smart00061 73 KSLSK--K-------DKHVFEK-PSGWGFSKFI 95 (95)
T ss_pred CEEee--e-------eeEEEcC-CCccceeeEC
Confidence 65422 2 5677875 6789999885
No 32
>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=99.65 E-value=8.1e-16 Score=123.49 Aligned_cols=121 Identities=19% Similarity=0.297 Sum_probs=95.4
Q ss_pred ceEEEEEecccccc-----cceeecccc---cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEE-cc-CCCCCCCCeE
Q 041904 176 YYHTWKVSNFSSLL-----DEFYESESF---GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLD-VS-QSSIPPNTKL 245 (317)
Q Consensus 176 ~~~~~~i~nfs~~~-----~~~~~S~~f---~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~-~~-~~~~~~~~~~ 245 (317)
..+.|+|+||+.+. ...++||.| .||+. ++.+||||++.+ ++|||+|++ +. ..+.-.+|++
T Consensus 2 p~~iWkI~~fs~~~~~~~~~~~i~Sp~FYt~~GYkl--------~l~~ylnG~g~~-~~~lsl~~~lm~Ge~D~~L~WPf 72 (167)
T cd03782 2 PEHIWHIRNFTQLLATTPPNGKIYSPPFLSSTGYSF--------QVGLYLNGTDDY-PGNLAIYLHLTSGPNDDQLQWPC 72 (167)
T ss_pred CcEEEEeCcHHHHHHhcCCCceEECCCCcCccCcee--------EEEEEecCCCCC-CCEEEEEEEEeccCCCccccCCC
Confidence 46899999999976 347899998 99999 999999999876 689999999 53 3344589999
Q ss_pred E-EEEEEEEEECCC---C-Cceee--ee------e--EEe--eCC-----------------CCCccccccccccccCCC
Q 041904 246 L-TKYFLCVENQMN---G-KNSEV--EG------E--WLY--TLT-----------------NRAIGGRQFMTLAKLKDP 291 (317)
Q Consensus 246 ~-~~~~l~l~n~~~---~-~~~~~--~~------~--~~F--~~~-----------------~~~~G~~~fi~~~~L~~~ 291 (317)
. .+++|.|++|+. . .+... .. . ..| ... +.++|++.||++++|+.
T Consensus 73 ~~~qit~~LlDQ~~d~~~r~~~~~~~t~~P~~~s~~n~~f~w~rP~kvg~~~~~~~~~~~~r~~~~G~~~Fish~~L~~- 151 (167)
T cd03782 73 PWQQATMMLLDQHPDIRQRMSNQRSVTTDPNMTSTDSDEYFWDDPRKVGSEVTDTDGSTFYRGPGYGTSAFITHLRLRS- 151 (167)
T ss_pred cCCeEEEEEEcCCCchhhccceeeeEEecCCcccccCccceecCCcccCcccccccccccccccccCccceeeHHHHhh-
Confidence 9 999999999974 1 22211 10 0 124 322 57899999999999996
Q ss_pred CCCceeCCEEEEEEEE
Q 041904 292 TEGYLVDDSCIIKAEV 307 (317)
Q Consensus 292 ~~gyl~dd~l~i~~~V 307 (317)
+.||.||++.|-+++
T Consensus 152 -r~yikdD~ifi~~~~ 166 (167)
T cd03782 152 -RDFIKGDDVIFLLTM 166 (167)
T ss_pred -cCcccCCeEEEEEec
Confidence 789999999998775
No 33
>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=99.64 E-value=1e-15 Score=123.64 Aligned_cols=122 Identities=23% Similarity=0.387 Sum_probs=94.1
Q ss_pred ceEEEEEecccccc-----cceeecccc---cceEeeeccCCceEEEEecCCCCC-CCCCeEEEEEE-cc-CCCCCCCCe
Q 041904 176 YYHTWKVSNFSSLL-----DEFYESESF---GCYKWYANYSMDVKILLYPNGNGE-AKGNCISLFLD-VS-QSSIPPNTK 244 (317)
Q Consensus 176 ~~~~~~i~nfs~~~-----~~~~~S~~f---~g~~W~~~~~~~~~i~~yp~g~~~-~~~~~lS~yL~-~~-~~~~~~~~~ 244 (317)
..+.|+|+||+.+. ...++||.| .||+. +|++||+|+.. ++++|+|||++ +. ..+.-.+|+
T Consensus 2 p~~iWkI~nfs~~~~~a~~~~~i~Sp~Fyt~~GYk~--------~l~~~lng~~~~~~g~~lSl~~~lm~Ge~D~~L~WP 73 (167)
T cd03783 2 PNAVWRVRNFSQILENTTKGDVLQSPRFYSPEGYGY--------GVSLYPLSNESDYSGNYTGLYFHLCSGENDAVLEWP 73 (167)
T ss_pred CceeEEECcHHHHHHhCcCCCeEECCCCccCCCceE--------EEEEEecCCCCCCCCCEEEEEEEEecccCCCcccCC
Confidence 45899999999876 347999999 59999 99999999874 56889999999 53 333458999
Q ss_pred E-EEEEEEEEEECCCC----Cceee----e---------eeEEeeCC--------------CCCccccccccccccCCCC
Q 041904 245 L-LTKYFLCVENQMNG----KNSEV----E---------GEWLYTLT--------------NRAIGGRQFMTLAKLKDPT 292 (317)
Q Consensus 245 ~-~~~~~l~l~n~~~~----~~~~~----~---------~~~~F~~~--------------~~~~G~~~fi~~~~L~~~~ 292 (317)
+ .-+++|.|++|+.. .+... . ....|+.. +.++||+.|+++++|+.
T Consensus 74 ~~~~~itl~llDQ~~~~~~r~~~~~sf~~d~~~~~~~~~~~~~f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~~-- 151 (167)
T cd03783 74 ALNRQAIITVLDQDPDVRLRMSSSRSFTTDKSQTSSAINGTLRWDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLRR-- 151 (167)
T ss_pred CcCCEEEEEEEcCCcchhhccccceeeecCCCcccccccccccccCCcccccccccccccCCcccccccceeHHHHhh--
Confidence 5 56999999999641 11110 0 01125433 35899999999999996
Q ss_pred CCceeCCEEEEEEEE
Q 041904 293 EGYLVDDSCIIKAEV 307 (317)
Q Consensus 293 ~gyl~dd~l~i~~~V 307 (317)
++||.||+|.|.+++
T Consensus 152 r~yikdDtlfI~~~~ 166 (167)
T cd03783 152 RSFLKNDDLIIFVDF 166 (167)
T ss_pred CCcccCCeEEEEEec
Confidence 789999999999876
No 34
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.57 E-value=2.3e-15 Score=143.40 Aligned_cols=137 Identities=23% Similarity=0.336 Sum_probs=113.7
Q ss_pred eccccCCcEEEEEEcCcccccccccceEEcccEEeCCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCC--C-CCCCEEE
Q 041904 10 AGRNAAPSHYLFKIESFSLLSKASVEQLILDNFEAGGYKWKLSIHLTGSKSVNVTDHISIYLELAETSS--L-PTGWEVN 86 (317)
Q Consensus 10 ~~~~~~~~~~~w~I~~fs~~~~~~~~~~~S~~F~~gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~--~-~~~w~v~ 86 (317)
++.+...-.|+|+|++|+.+.+ +.+||+|.+||+.|+|.++|+|+.. ..+||||+...... . ...|.|+
T Consensus 32 d~Ee~~~~sftW~vk~wsel~~----k~~Sp~F~vg~~twki~lfPqG~nq----~~~sVyLe~~pqe~e~~~gk~~~cc 103 (1089)
T COG5077 32 DVEELLEMSFTWKVKRWSELAK----KVESPPFSVGGHTWKIILFPQGNNQ----CNVSVYLEYEPQELEETGGKYYDCC 103 (1089)
T ss_pred cHHHHhhcccceecCChhhhhh----hccCCcccccCeeEEEEEecccCCc----cccEEEEEeccchhhhhcCcchhhh
Confidence 4556677889999999999954 8999999999999999999999864 23999999876532 1 2359999
Q ss_pred EEEEEEEEecCCCcEEEEEeeecccceeeeecccccccccccceeecccccCCCCc---eEeCCEEEEEEEEEEEeec
Q 041904 87 AITISFYSIKFKTNILVSKVRNSTINVIVKHFHAMKSKYGVAKFIDLKTFSDPLNG---YLINDACVFGAEVFVVKNT 161 (317)
Q Consensus 87 ~~f~~~l~n~~~~~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~l~~~~~~---yl~~d~l~i~~~v~v~~~~ 161 (317)
|+|.|.|-|...+.... +|.+.|+|+....+||+.+|+.+..|..|+.| |+.+|++.|+|.|+|.+.+
T Consensus 104 aqFaf~Is~p~~pti~~-------iN~sHhrFs~~~tDwGFt~f~dL~kl~~psp~~Ppfleeg~l~ItvyVRvlkdP 174 (1089)
T COG5077 104 AQFAFDISNPKYPTIEY-------INKSHHRFSMESTDWGFTNFIDLNKLIEPSPGRPPFLEEGTLVITVYVRVLKDP 174 (1089)
T ss_pred hheeeecCCCCCCchhh-------hhcccccccccccccchhhhhhhhhhcCCCCCCCCcccCCeEEEEEEEEEEeCC
Confidence 99999999987654332 22377899999999999999999999876655 8999999999999999884
No 35
>smart00061 MATH meprin and TRAF homology.
Probab=99.56 E-value=4.3e-14 Score=105.34 Aligned_cols=90 Identities=18% Similarity=0.234 Sum_probs=74.8
Q ss_pred EEEEEecccccc-cceeecccc--cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEEccCC-CCCCCCeEEEEEEEEE
Q 041904 178 HTWKVSNFSSLL-DEFYESESF--GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLDVSQS-SIPPNTKLLTKYFLCV 253 (317)
Q Consensus 178 ~~~~i~nfs~~~-~~~~~S~~f--~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~~~~~-~~~~~~~~~~~~~l~l 253 (317)
++|+|+||+.+. ++.+.|+.| +|++| +|.+||+ ++|||+||.|... ..+..|++.|+++|.|
T Consensus 2 ~~~~~~~~~~~~~~~~~~S~~f~~~g~~W--------~i~~~p~------~~~lsl~L~~~~~~~~~~~w~v~a~~~~~l 67 (95)
T smart00061 2 LSHTFKNVSRLEEGESYFSPSEEHFNIPW--------RLKIYRK------NGFLSLYLHCEKEECDSRKWSIEAEFTLKL 67 (95)
T ss_pred ceeEEEchhhcccCceEeCChhEEcCcee--------EEEEEEc------CCEEEEEEEeCCCcCCCCCeEEEEEEEEEE
Confidence 579999999985 678999999 99999 9999999 4799999995433 3334899999999999
Q ss_pred EECCCCCceeeeeeEEeeCCCCCccccccc
Q 041904 254 ENQMNGKNSEVEGEWLYTLTNRAIGGRQFM 283 (317)
Q Consensus 254 ~n~~~~~~~~~~~~~~F~~~~~~~G~~~fi 283 (317)
++++++.. .....+.|.. ..+|||++||
T Consensus 68 ~~~~~~~~-~~~~~~~F~~-~~~~G~~~fi 95 (95)
T smart00061 68 VSQNGKSL-SKKDKHVFEK-PSGWGFSKFI 95 (95)
T ss_pred EeCCCCEE-eeeeeEEEcC-CCccceeeEC
Confidence 99987654 3455788986 6889999986
No 36
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.36 E-value=1e-12 Score=125.65 Aligned_cols=127 Identities=24% Similarity=0.420 Sum_probs=104.9
Q ss_pred CCceEEEEEecccccccceeecccc--cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEEccCCC---CC-CCCeEEE
Q 041904 174 PTYYHTWKVSNFSSLLDEFYESESF--GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLDVSQSS---IP-PNTKLLT 247 (317)
Q Consensus 174 ~~~~~~~~i~nfs~~~~~~~~S~~f--~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~~~~~~---~~-~~~~~~~ 247 (317)
..-.++|+|++++.+.. ...||.| |++.| +|.++|.|+... .+|+||...++. .. ..|.|++
T Consensus 37 ~~~sftW~vk~wsel~~-k~~Sp~F~vg~~tw--------ki~lfPqG~nq~---~~sVyLe~~pqe~e~~~gk~~~cca 104 (1089)
T COG5077 37 LEMSFTWKVKRWSELAK-KVESPPFSVGGHTW--------KIILFPQGNNQC---NVSVYLEYEPQELEETGGKYYDCCA 104 (1089)
T ss_pred hhcccceecCChhhhhh-hccCCcccccCeeE--------EEEEecccCCcc---ccEEEEEeccchhhhhcCcchhhhh
Confidence 34578999999999975 6789999 99999 999999998653 289999943322 12 3599999
Q ss_pred EEEEEEEECCCCC-ceeeeeeEEeeCCCCCccccccccccccCCCCCC---ceeCCEEEEEEEEEEEee
Q 041904 248 KYFLCVENQMNGK-NSEVEGEWLYTLTNRAIGGRQFMTLAKLKDPTEG---YLVDDSCIIKAEVTLHGL 312 (317)
Q Consensus 248 ~~~l~l~n~~~~~-~~~~~~~~~F~~~~~~~G~~~fi~~~~L~~~~~g---yl~dd~l~i~~~V~v~~~ 312 (317)
+|.|.|-|+..+. ....+..|+|+....+|||.+|+.+..|..|+.| |+.++++.|.|.|.|++.
T Consensus 105 qFaf~Is~p~~pti~~iN~sHhrFs~~~tDwGFt~f~dL~kl~~psp~~Ppfleeg~l~ItvyVRvlkd 173 (1089)
T COG5077 105 QFAFDISNPKYPTIEYINKSHHRFSMESTDWGFTNFIDLNKLIEPSPGRPPFLEEGTLVITVYVRVLKD 173 (1089)
T ss_pred heeeecCCCCCCchhhhhcccccccccccccchhhhhhhhhhcCCCCCCCCcccCCeEEEEEEEEEEeC
Confidence 9999998877644 2245678899988899999999999999887766 688999999999999987
No 37
>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=99.08 E-value=1.3e-10 Score=105.21 Aligned_cols=261 Identities=19% Similarity=0.193 Sum_probs=173.7
Q ss_pred EEEEcCcccccccccceEEcccEEeCCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCCCCCCCEEEEEEEEEEEecCCC
Q 041904 20 LFKIESFSLLSKASVEQLILDNFEAGGYKWKLSIHLTGSKSVNVTDHISIYLELAETSSLPTGWEVNAITISFYSIKFKT 99 (317)
Q Consensus 20 ~w~I~~fs~~~~~~~~~~~S~~F~~gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~~~~~w~v~~~f~~~l~n~~~~ 99 (317)
.|.|.+++... ..+||..|..+|..|++.+||.|+ ++|.|+.+.... +|.+.+.+++.+.|+...
T Consensus 7 ~~~~~~~~~~~----l~~ys~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~----~~~~~~~~~l~v~n~~~~ 71 (297)
T KOG1987|consen 7 TWVISNFSSVG----LVIYSNGFVKGGCKWRLSAYPKGN-------YLSLTLSVSDSP----GWERYAKLRLTVVNQKSE 71 (297)
T ss_pred ceeeccCcchh----hhccccceeecCceEEEEEecCCC-------EEEEEEEeccCC----CcceeEEEEEEEccCCCc
Confidence 39999998884 689999999999999999999973 688998887643 699999999999999887
Q ss_pred cE-EEE-EeeecccceeeeecccccccccccceeecccccCCCCceEeCCEEEEEEEEEEEeecCccccccc--------
Q 041904 100 NI-LVS-KVRNSTINVIVKHFHAMKSKYGVAKFIDLKTFSDPLNGYLINDACVFGAEVFVVKNTFKGECLSM-------- 169 (317)
Q Consensus 100 ~~-~~~-~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~l~~~~~~yl~~d~l~i~~~v~v~~~~~~~~~~~~-------- 169 (317)
.. ... ... ....|..-...||+...++...+.++..||+.++.+++-+.+.|.+..+..+....
T Consensus 72 ~~~~~~~~~~------~~~~~~~~~~~~g~~~~~~~~~~~~~~~g~~~~~~~~~~a~~~V~~~~~~~d~~~~~~~~~~~~ 145 (297)
T KOG1987|consen 72 KYLSTVEEGF------SWFRFNKVLKEWGFGKMLPLTLLIDCSNGFLVAHKLVLVARSEVFEAMGKSDVFKESSKLITLL 145 (297)
T ss_pred ceeeeeeeeE------EeccccccccccCcccccChHHhhcccCcEEEcCceEEEeeecceeeecccccchhcccccccc
Confidence 55 332 111 22233333678999999999999988899999999999999888888887776433
Q ss_pred ccCCCC----ceEEEEEeccccccc----ceeecccc--cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEE-ccCCC
Q 041904 170 MHDPPT----YYHTWKVSNFSSLLD----EFYESESF--GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLD-VSQSS 238 (317)
Q Consensus 170 ~~~~~~----~~~~~~i~nfs~~~~----~~~~S~~f--~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~-~~~~~ 238 (317)
...+.. ..|+|.+.+++.... ..+.+..| ++-.| ++.++|.+....+..+++.+|. .+...
T Consensus 146 d~~~~~~~~~~~F~~~~s~~~~~~~~~~~~~~~a~~f~~~~~~l--------k~~~~~~l~~~~~~~~~~~~l~~~~~~~ 217 (297)
T KOG1987|consen 146 EEKPEVLEALNGFQVLPSQVSSVERIFEKHPDLAAAFKYKNRHL--------KLACMPVLLSLIETLNVSQSLQEASNYD 217 (297)
T ss_pred ccchhhHhhhceEEEeccchHHHHHhhcCChhhhhccccccHHH--------HHHHHHHHHHHHHhhhhcccHHHhchhH
Confidence 222334 789999999998873 24555667 99999 9999999977655667788887 43211
Q ss_pred C--CCCCeEEEEEEEEEEECCCCC--c-eeee-eeEEeeCCCCCccccccccccccCCCCCCceeCCEEEEEEEEEEE
Q 041904 239 I--PPNTKLLTKYFLCVENQMNGK--N-SEVE-GEWLYTLTNRAIGGRQFMTLAKLKDPTEGYLVDDSCIIKAEVTLH 310 (317)
Q Consensus 239 ~--~~~~~~~~~~~l~l~n~~~~~--~-~~~~-~~~~F~~~~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~~~V~v~ 310 (317)
. ...-.+.+......+|+...+ + ..+. ...+.......+ ..++.++.++.....+++.++++.+++....+
T Consensus 218 ~~~~~~~~~~~~~~~~~ld~l~~~~~~~~~k~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~ 294 (297)
T KOG1987|consen 218 LKEAKSALTYVIAAGFKLDWLEKKLNEVKEKKKKDLWYEIRLQEL-EEELKSLKDKCSDLEGLLVKDKAEVEAESEPL 294 (297)
T ss_pred HHHHHHHHHHHHhccchHhHHHHHHHHHHHhhhHHHHHHHHHHHH-HHHHHhhhhhhhhHHHHHHhhhhhhhcccCCc
Confidence 1 011112222222234443321 1 1111 001111000111 34455555554444567777777777765544
No 38
>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=98.31 E-value=6.7e-06 Score=74.40 Aligned_cols=118 Identities=35% Similarity=0.498 Sum_probs=93.5
Q ss_pred EEEEEecccccccceeecccc--cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEEccCCCCCCCCeEEEEEEEEEEE
Q 041904 178 HTWKVSNFSSLLDEFYESESF--GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLDVSQSSIPPNTKLLTKYFLCVEN 255 (317)
Q Consensus 178 ~~~~i~nfs~~~~~~~~S~~f--~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~~~~~~~~~~~~~~~~~~l~l~n 255 (317)
+.|.+.+++... ..++|..| +++.| ++.+||.|+ +++.|+.+... ..|.+.+.++|.+.|
T Consensus 6 ~~~~~~~~~~~~-l~~ys~~~~~~~~~~--------~~~~~~~~~------~~~~~~~~~~~---~~~~~~~~~~l~v~n 67 (297)
T KOG1987|consen 6 FTWVISNFSSVG-LVIYSNGFVKGGCKW--------RLSAYPKGN------YLSLTLSVSDS---PGWERYAKLRLTVVN 67 (297)
T ss_pred cceeeccCcchh-hhccccceeecCceE--------EEEEecCCC------EEEEEEEeccC---CCcceeEEEEEEEcc
Confidence 448889988877 67788888 99999 999999974 78999884311 189999999999999
Q ss_pred CCCCCc-eee-eeeEEeeCC--CCCccccccccccccCCCCCCceeCCEEEEEEEEEEEeee
Q 041904 256 QMNGKN-SEV-EGEWLYTLT--NRAIGGRQFMTLAKLKDPTEGYLVDDSCIIKAEVTLHGLV 313 (317)
Q Consensus 256 ~~~~~~-~~~-~~~~~F~~~--~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~~~V~v~~~~ 313 (317)
+...++ ... .....|... ...||+...++...+.+.+.||++++.+++-+.+.|.+..
T Consensus 68 ~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~g~~~~~~~~~~a~~~V~~~~ 129 (297)
T KOG1987|consen 68 QKSEKYLSTVEEGFSWFRFNKVLKEWGFGKMLPLTLLIDCSNGFLVAHKLVLVARSEVFEAM 129 (297)
T ss_pred CCCcceeeeeeeeEEeccccccccccCcccccChHHhhcccCcEEEcCceEEEeeecceeee
Confidence 988754 444 344454443 4789999999999999888999999888888887776654
No 39
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=98.16 E-value=1.7e-06 Score=90.62 Aligned_cols=131 Identities=21% Similarity=0.193 Sum_probs=104.6
Q ss_pred cEEEEEEcCcccccccccceEEcccEEeCCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCCCCCCCEEEEEEEEEEEec
Q 041904 17 SHYLFKIESFSLLSKASVEQLILDNFEAGGYKWKLSIHLTGSKSVNVTDHISIYLELAETSSLPTGWEVNAITISFYSIK 96 (317)
Q Consensus 17 ~~~~w~I~~fs~~~~~~~~~~~S~~F~~gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~~~~~w~v~~~f~~~l~n~ 96 (317)
...+|.+.+..... ....||.|..|+.+|++.+.|+++. ...+++|+.+...... ..|.+.+++.+.+.|.
T Consensus 27 ~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~-~~~s~~~~~~~~v~~~ 97 (1093)
T KOG1863|consen 27 QSTTIDGIDDKSLL----YRALSSNFGAGATKWKILIAPKVNS----LQSTRKKLEVMPSQSL-KSWSCGAQAVLRVKNT 97 (1093)
T ss_pred ccccccCcCcchhh----hHhcCccccccccceeeeeccccCc----ccceeEEeeeccCCCC-cceEecchhhhccccC
Confidence 34446554444443 2778999999999999999999984 4679999999887655 5599999999999993
Q ss_pred CCCcEEEEEeeecccceeeeecccccccccccceeecccccCCCCceEeCCEEEEEEEEEEEeecCc
Q 041904 97 FKTNILVSKVRNSTINVIVKHFHAMKSKYGVAKFIDLKTFSDPLNGYLINDACVFGAEVFVVKNTFK 163 (317)
Q Consensus 97 ~~~~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~fi~~~~l~~~~~~yl~~d~l~i~~~v~v~~~~~~ 163 (317)
.++..... . +..|.|.....+||+..|+.++++.++..+|+.+|++.++++|.+...++.
T Consensus 98 ~~~~~~~~-~------~~~h~~~~~~~dwg~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~~~~~ 157 (1093)
T KOG1863|consen 98 IDNLPDPE-K------AIHHVFTADERDWGFSCFSTSSDIRKPEDGYVRNGLEKLEKRVRVEQPTSL 157 (1093)
T ss_pred CCCchhhh-h------hhhhcccccccchhhccchhHhhccCcccccccccceeeeeeeeeecCCcc
Confidence 33322222 1 277889988899999999999999999999999999999999999877654
No 40
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=97.84 E-value=1.4e-05 Score=83.82 Aligned_cols=125 Identities=24% Similarity=0.253 Sum_probs=99.8
Q ss_pred EEEEecccccccceeecccc--cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEEccCCCCCCCCeEEEEEEEEEEEC
Q 041904 179 TWKVSNFSSLLDEFYESESF--GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLDVSQSSIPPNTKLLTKYFLCVENQ 256 (317)
Q Consensus 179 ~~~i~nfs~~~~~~~~S~~f--~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~~~~~~~~~~~~~~~~~~l~l~n~ 256 (317)
+|...+...+.. ...|+.| ++.+| +|.+.|+++. ...+++|+.+.+......|.+.+++.+.+.|.
T Consensus 30 ~~~~~~~~~~~~-~~~~~~~~~~~~~~--------~~~~~~~~~~---~~~~~~~~~~~~~~~~~~~s~~~~~~~~v~~~ 97 (1093)
T KOG1863|consen 30 TIDGIDDKSLLY-RALSSNFGAGATKW--------KILIAPKVNS---LQSTRKKLEVMPSQSLKSWSCGAQAVLRVKNT 97 (1093)
T ss_pred cccCcCcchhhh-HhcCccccccccce--------eeeeccccCc---ccceeEEeeeccCCCCcceEecchhhhccccC
Confidence 355555555444 6778888 89999 9999999883 46799999954433225599999999999993
Q ss_pred CCCC-ceeeeeeEEeeCCCCCccccccccccccCCCCCCceeCCEEEEEEEEEEEeeecc
Q 041904 257 MNGK-NSEVEGEWLYTLTNRAIGGRQFMTLAKLKDPTEGYLVDDSCIIKAEVTLHGLVLA 315 (317)
Q Consensus 257 ~~~~-~~~~~~~~~F~~~~~~~G~~~fi~~~~L~~~~~gyl~dd~l~i~~~V~v~~~~~~ 315 (317)
.+.. .......|.|.....+||+.+|+.+.++.+++.||+.+|++.++++|.+...++.
T Consensus 98 ~~~~~~~~~~~~h~~~~~~~dwg~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~~~~~ 157 (1093)
T KOG1863|consen 98 IDNLPDPEKAIHHVFTADERDWGFSCFSTSSDIRKPEDGYVRNGLEKLEKRVRVEQPTSL 157 (1093)
T ss_pred CCCchhhhhhhhhcccccccchhhccchhHhhccCcccccccccceeeeeeeeeecCCcc
Confidence 3333 3355678899988899999999999999999999999999999999999877654
No 41
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.67 E-value=2.6e-05 Score=73.07 Aligned_cols=83 Identities=17% Similarity=0.247 Sum_probs=70.8
Q ss_pred ccCCcEEEEEEcCcccccc----cccceEEcccEEe--CCeEEEEEEEecCCCCCCCCCcEEEEEEeccCCC-CCCCCEE
Q 041904 13 NAAPSHYLFKIESFSLLSK----ASVEQLILDNFEA--GGYKWKLSIHLTGSKSVNVTDHISIYLELAETSS-LPTGWEV 85 (317)
Q Consensus 13 ~~~~~~~~w~I~~fs~~~~----~~~~~~~S~~F~~--gG~~W~l~~~p~G~~~~~~~~~lSvyL~~~~~~~-~~~~w~v 85 (317)
....|++.|+|.+|...+. ..+..++|+.|+. .||+.+..+|.+|+.. +.+.++|+|+.++++.. ..+.|++
T Consensus 276 ~~~~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~lng~g~-~~~~~~s~~~~~~~ge~d~~l~wpf 354 (391)
T KOG0297|consen 276 RSYDGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKLCARIYLNGDGT-GKGTHLSLYFVVMRGEYDALLPWPF 354 (391)
T ss_pred hccCCEEEEEecchhhhhHHHHhccCccccccccccccccHHHHhHhhhcCCCC-CCcceeeeeeeecccCcccccccCC
Confidence 3457999999999965554 2467899999997 6999999999999876 37789999999999876 3678999
Q ss_pred EEEEEEEEEec
Q 041904 86 NAITISFYSIK 96 (317)
Q Consensus 86 ~~~f~~~l~n~ 96 (317)
.-.+++.+++|
T Consensus 355 ~~~v~~~l~dq 365 (391)
T KOG0297|consen 355 RQKVTLMLLDQ 365 (391)
T ss_pred CCceEEEEecc
Confidence 99999999999
No 42
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.06 E-value=0.0043 Score=58.23 Aligned_cols=75 Identities=23% Similarity=0.266 Sum_probs=63.5
Q ss_pred CCceEEEEEecccccc-------cceeecccc----cceEeeeccCCceEEEEecCCCCCCCCCeEEEEEE-cc-CCCCC
Q 041904 174 PTYYHTWKVSNFSSLL-------DEFYESESF----GCYKWYANYSMDVKILLYPNGNGEAKGNCISLFLD-VS-QSSIP 240 (317)
Q Consensus 174 ~~~~~~~~i~nfs~~~-------~~~~~S~~f----~g~~W~~~~~~~~~i~~yp~g~~~~~~~~lS~yL~-~~-~~~~~ 240 (317)
..++..|+|.++...+ ...+.|+.| +||+. +..+|-+|++.+++.++|+|+. +. ..+.-
T Consensus 278 ~~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~--------~~~~~lng~g~~~~~~~s~~~~~~~ge~d~~ 349 (391)
T KOG0297|consen 278 YDGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKL--------CARIYLNGDGTGKGTHLSLYFVVMRGEYDAL 349 (391)
T ss_pred cCCEEEEEecchhhhhHHHHhccCccccccccccccccHHH--------HhHhhhcCCCCCCcceeeeeeeecccCcccc
Confidence 4688999999996554 347788888 99999 9999999999988999999998 53 33445
Q ss_pred CCCeEEEEEEEEEEEC
Q 041904 241 PNTKLLTKYFLCVENQ 256 (317)
Q Consensus 241 ~~~~~~~~~~l~l~n~ 256 (317)
..|++.-.+++.+++|
T Consensus 350 l~wpf~~~v~~~l~dq 365 (391)
T KOG0297|consen 350 LPWPFRQKVTLMLLDQ 365 (391)
T ss_pred cccCCCCceEEEEecc
Confidence 7899999999999999
Done!