Query 024960
Match_columns 260
No_of_seqs 298 out of 1690
Neff 9.0
Searched_HMMs 46136
Date Fri Mar 29 08:50:09 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/024960.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/024960hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd03772 MATH_HAUSP Herpesvirus 100.0 3.6E-28 7.7E-33 187.4 16.9 133 15-156 2-135 (137)
2 cd03774 MATH_SPOP Speckle-type 100.0 1.5E-28 3.3E-33 189.9 14.6 135 13-156 2-139 (139)
3 cd03775 MATH_Ubp21p Ubiquitin- 100.0 9.6E-28 2.1E-32 184.2 14.6 125 17-152 2-134 (134)
4 cd03780 MATH_TRAF5 Tumor Necro 99.9 1.2E-26 2.5E-31 179.9 12.9 135 16-151 1-147 (148)
5 cd03776 MATH_TRAF6 Tumor Necro 99.9 1.6E-26 3.5E-31 180.2 11.0 133 16-152 1-147 (147)
6 cd03773 MATH_TRIM37 Tripartite 99.9 5E-26 1.1E-30 174.3 13.0 126 14-152 3-130 (132)
7 cd00270 MATH_TRAF_C Tumor Necr 99.9 3.8E-26 8.3E-31 178.6 12.4 133 16-152 1-149 (149)
8 cd03777 MATH_TRAF3 Tumor Necro 99.9 7.9E-26 1.7E-30 181.3 13.9 138 12-152 35-184 (186)
9 cd03781 MATH_TRAF4 Tumor Necro 99.9 8.5E-26 1.8E-30 177.2 13.2 133 16-152 1-154 (154)
10 cd03779 MATH_TRAF1 Tumor Necro 99.9 1.3E-25 2.8E-30 173.3 12.6 135 16-151 1-146 (147)
11 cd03771 MATH_Meprin Meprin fam 99.9 2.2E-24 4.7E-29 169.5 13.6 132 15-152 1-167 (167)
12 cd03778 MATH_TRAF2 Tumor Necro 99.9 7.3E-23 1.6E-27 159.7 12.4 136 13-151 16-163 (164)
13 cd00121 MATH MATH (meprin and 99.9 4.8E-22 1E-26 149.8 15.0 125 16-152 1-126 (126)
14 PF00917 MATH: MATH domain; I 99.9 3.1E-21 6.7E-26 144.6 9.3 118 22-153 1-119 (119)
15 cd03783 MATH_Meprin_Alpha Mepr 99.8 5.6E-19 1.2E-23 137.3 10.0 135 15-151 1-166 (167)
16 cd03782 MATH_Meprin_Beta Mepri 99.8 2.1E-18 4.5E-23 133.4 10.9 133 15-151 1-166 (167)
17 smart00061 MATH meprin and TRA 99.7 1.8E-17 4E-22 118.9 11.2 94 18-127 2-95 (95)
18 cd03775 MATH_Ubp21p Ubiquitin- 99.7 1.6E-16 3.4E-21 121.9 11.1 76 173-251 2-81 (134)
19 cd03773 MATH_TRIM37 Tripartite 99.7 1.1E-15 2.3E-20 117.0 10.5 77 169-249 2-80 (132)
20 cd03771 MATH_Meprin Meprin fam 99.6 2.3E-15 5E-20 118.4 9.4 76 172-248 2-85 (167)
21 cd03780 MATH_TRAF5 Tumor Necro 99.6 2.5E-15 5.4E-20 116.5 9.0 77 173-249 2-88 (148)
22 cd03772 MATH_HAUSP Herpesvirus 99.6 9.9E-15 2.1E-19 112.4 11.2 76 172-249 3-80 (137)
23 cd00270 MATH_TRAF_C Tumor Necr 99.6 2.4E-15 5.3E-20 117.4 7.4 78 173-250 2-89 (149)
24 COG5077 Ubiquitin carboxyl-ter 99.6 1.6E-15 3.4E-20 139.3 6.9 136 12-158 35-175 (1089)
25 cd03777 MATH_TRAF3 Tumor Necro 99.6 1.1E-14 2.4E-19 116.9 10.2 79 171-249 38-126 (186)
26 cd03774 MATH_SPOP Speckle-type 99.6 1.5E-14 3.2E-19 111.7 10.2 76 172-251 5-86 (139)
27 cd03776 MATH_TRAF6 Tumor Necro 99.6 5.6E-15 1.2E-19 115.1 7.3 77 173-249 2-88 (147)
28 cd03778 MATH_TRAF2 Tumor Necro 99.6 1.7E-14 3.6E-19 112.8 8.6 84 171-254 18-111 (164)
29 cd03781 MATH_TRAF4 Tumor Necro 99.6 2E-14 4.4E-19 112.7 9.0 78 173-250 2-89 (154)
30 cd03779 MATH_TRAF1 Tumor Necro 99.5 2.7E-14 5.9E-19 110.3 8.6 80 173-252 2-91 (147)
31 smart00061 MATH meprin and TRA 99.5 2.3E-13 4.9E-18 97.5 9.0 73 174-252 2-75 (95)
32 cd00121 MATH MATH (meprin and 99.5 1.4E-12 3E-17 97.9 12.2 79 173-252 2-80 (126)
33 KOG1987 Speckle-type POZ prote 99.2 5E-12 1.1E-16 109.7 2.9 211 20-249 8-239 (297)
34 cd03782 MATH_Meprin_Beta Mepri 99.1 1.5E-10 3.2E-15 89.9 7.2 76 172-248 2-85 (167)
35 PF00917 MATH: MATH domain; I 99.1 1.2E-10 2.6E-15 86.8 5.8 70 178-251 1-73 (119)
36 cd03783 MATH_Meprin_Alpha Mepr 99.1 2.8E-10 6E-15 88.8 7.2 77 172-248 2-87 (167)
37 COG5077 Ubiquitin carboxyl-ter 98.5 1.1E-07 2.5E-12 88.4 4.7 76 171-250 38-116 (1089)
38 KOG1863 Ubiquitin carboxyl-ter 98.2 2.2E-06 4.7E-11 86.1 5.8 129 17-158 28-156 (1093)
39 KOG0297 TNF receptor-associate 97.1 0.00045 9.9E-09 62.2 3.3 83 13-96 277-365 (391)
40 KOG1987 Speckle-type POZ prote 97.0 0.0032 6.9E-08 54.5 8.1 68 174-252 6-73 (297)
41 KOG0297 TNF receptor-associate 95.9 0.0055 1.2E-07 55.2 2.6 77 171-247 279-365 (391)
42 KOG1863 Ubiquitin carboxyl-ter 74.6 3.1 6.6E-05 42.8 3.5 70 172-246 27-96 (1093)
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=99.96 E-value=3.6e-28 Score=187.39 Aligned_cols=133 Identities=20% Similarity=0.411 Sum_probs=109.3
Q ss_pred CceEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCC-CCCCcEEEEEEecCCCCCCCCCcEEEEEEEEEE
Q 024960 15 PADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKND-GGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFV 93 (260)
Q Consensus 15 ~g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~-~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~l 93 (260)
.|+|+|+|+|||.+ ++.++|+.|.+||++|+|++||+|.... +..++|||||.|.+... ..+ |++.|+|+|+|
T Consensus 2 ~~~~~~~I~~~S~l----~e~~~S~~f~vgG~~W~i~~~P~g~~~~~~~~~~lsvyL~~~~~~~-~~~-w~i~a~~~~~l 75 (137)
T cd03772 2 EATFSFTVERFSRL----SESVLSPPCFVRNLPWKIMVMPRNYPDRNPHQKSVGFFLQCNAESD-STS-WSCHAQAVLRI 75 (137)
T ss_pred CcEEEEEECCcccC----CCcEECCCEEECCcceEEEEEeCCCCCCCCCCCeEEEEEeeCCcCC-CCC-CeEEEEEEEEE
Confidence 58999999999998 2689999999999999999999996421 23589999999986532 235 99999999999
Q ss_pred EeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecC
Q 024960 94 YDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKP 156 (260)
Q Consensus 94 ~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~ 156 (260)
+|+.+........ ..+.|......|||.+||+|++|++++++||+||+|+|+|+|+|-.+
T Consensus 76 ~~~~~~~~~~~~~---~~~~f~~~~~~~G~~~fi~~~~L~~~~sgyl~~D~l~Ie~~V~~~~~ 135 (137)
T cd03772 76 INYKDDEPSFSRR---ISHLFFSKENDWGFSNFMTWSEVTDPEKGFIEDDTITLEVYVQADAP 135 (137)
T ss_pred EcCCCCcccEEEe---eeeEEcCCCCCccchheeEHHHhcCCCCCcEECCEEEEEEEEEeeCC
Confidence 9998543332222 44678766679999999999999877899999999999999988653
No 2
>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=99.96 E-value=1.5e-28 Score=189.91 Aligned_cols=135 Identities=28% Similarity=0.436 Sum_probs=111.2
Q ss_pred CCCceEEEEEcCccccccccCCeeEeccEEECCe---eeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEE
Q 024960 13 LPPADYSLKIESFKLLSKSTVESFESGVFKSGGY---NWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYY 89 (260)
Q Consensus 13 ~~~g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~---~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~ 89 (260)
+...+|+|+|+|||.+++..++.+.|++|.+||+ +|+|++||+|.. ++..+|+||||++.+.. . ++++|+|
T Consensus 2 ~~~~~~~w~I~~fS~~~~~~~~~i~S~~F~vgg~~~~~W~l~~yP~G~~-~~~~~~iSlyL~l~~~~----~-~~v~a~f 75 (139)
T cd03774 2 VVKFCYMWTISNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLD-EESKDYLSLYLLLVSCP----K-SEVRAKF 75 (139)
T ss_pred ceEEEEEEEECCchhhhhcCCCEEECCCeecCCcCCceEEEEEeCCCCC-CCCCCeEEEEEEEccCC----C-CcEEEEE
Confidence 3567899999999998654468999999999984 999999999975 34578999999997643 2 6799999
Q ss_pred EEEEEeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecC
Q 024960 90 KLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKP 156 (260)
Q Consensus 90 ~~~l~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~ 156 (260)
+|.|+|+.+....... ....+.|.. ..+|||.+||++++|+++.+|||+||+|+|+|+|+|+++
T Consensus 76 ~~~l~n~~~~~~~~~~--~~~~~~f~~-~~~wG~~~fi~~~~L~~~~~g~l~dD~l~I~c~I~V~~~ 139 (139)
T cd03774 76 KFSILNAKGEETKAME--SQRAYRFVQ-GKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVSVVQD 139 (139)
T ss_pred EEEEEecCCCeeeeec--ccCcEeCCC-CCccCHHHeeeHHHhhhhhcccccCCEEEEEEEEEEEcC
Confidence 9999999987643322 123567765 478999999999999877789999999999999999863
No 3
>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=99.95 E-value=9.6e-28 Score=184.23 Aligned_cols=125 Identities=21% Similarity=0.551 Sum_probs=104.7
Q ss_pred eEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCC----CCCCCcEEEEEEEEE
Q 024960 17 DYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNP----HPDGTWNVNVYYKLF 92 (260)
Q Consensus 17 ~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~----~~~~~w~v~~~~~~~ 92 (260)
+|+|+|+|||.+. +.+.|++|.+|||+|+|.+||+|... .+|+||||.+.+.+. ++.+ |.+.|+|+|+
T Consensus 2 ~f~w~I~~fS~~~----~~~~S~~F~vGG~~W~l~~yP~G~~~---~~~iSlyL~l~~~~~~~~~~~~~-~~v~a~f~~~ 73 (134)
T cd03775 2 SFTWRIKNWSELE----KKVHSPKFKCGGFEWRILLFPQGNSQ---TGGVSIYLEPHPEEEEKAPLDED-WSVCAQFALV 73 (134)
T ss_pred cEEEEECCcccCC----cceeCCCEEECCeeEEEEEeCCCCCC---CCeEEEEEEecCcccccccCCCC-CeEEEEEEEE
Confidence 6999999999963 68999999999999999999999762 689999999976543 2445 9999999999
Q ss_pred EEeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCC----CCCceeCCEEEEEEEEE
Q 024960 93 VYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEP----SNGYLVDDTCAFGAEVY 152 (260)
Q Consensus 93 l~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~----~~~yl~dD~l~i~~~V~ 152 (260)
|+||.++...... ...+.|+....+|||.+||++++|++| ++|||+||+|+|++.|+
T Consensus 74 l~n~~~~~~~~~~---~~~~~F~~~~~~wG~~~fi~~~~L~~~~~~~~~g~l~nD~l~I~~~~~ 134 (134)
T cd03775 74 ISNPGDPSIQLSN---VAHHRFNAEDKDWGFTRFIELRKLAHRTPDKPSPFLENGELNITVYVR 134 (134)
T ss_pred EEcCCCCccceEc---cceeEeCCCCCCCChhHcccHHHHcccccCCCCceeECCEEEEEEEEC
Confidence 9999865433322 256889876789999999999999954 68999999999999874
No 4
>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=99.94 E-value=1.2e-26 Score=179.87 Aligned_cols=135 Identities=24% Similarity=0.330 Sum_probs=105.4
Q ss_pred ceEEEEEcCccccccc--cCC--eeEeccE--EECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEE
Q 024960 16 ADYSLKIESFKLLSKS--TVE--SFESGVF--KSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYY 89 (260)
Q Consensus 16 g~~~w~I~~fs~~~~~--~~~--~~~S~~F--~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~ 89 (260)
|++.|+|.|||.+++. .|. .+.|++| .++||+|+|++||||.. .+..+||||||.+++++.+....|++++++
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 GKLIWKVTDYKMKKKEAVDGHTVSIFSQPFYTSRCGYRLCARAYLNGDG-SGKGTHLSLYFVVMRGEFDSLLQWPFRQRV 79 (148)
T ss_pred CEEEEEECCHHHHHHhhcCCCccEEECCCcccCCCCeeEEEEEEcCCCC-CCCCCEEEEEEEEecCccccccCcceEEEE
Confidence 6899999999998642 355 7999999 89999999999999987 345689999999998643322239999999
Q ss_pred EEEEEeCcCCceeE--EeccCCCceeccCC----CCCcccccccccccccCCCCCceeCCEEEEEEEE
Q 024960 90 KLFVYDQVSNQYLV--VQDAKAPMRRFDRR----KTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEV 151 (260)
Q Consensus 90 ~~~l~n~~~~~~~~--~~~~~~~~~~F~~~----~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V 151 (260)
+|.|+||.+..... ....+.....|... +..||+.+||++++|+..+.+||.||+|+|+|.|
T Consensus 80 tfsLlDq~~~~~~~~~~~~~~~~~~~F~rp~~~~n~~~G~~~Fi~~~~Le~s~~~ylkdD~~~Ik~~v 147 (148)
T cd03780 80 TLMLLDQSGKKNHIMETFKADPNSSSFKRPDGEMNIASGCPRFVAHSVLENAKNTYIKDDTLFLKVAV 147 (148)
T ss_pred EEEEECCCCCCCCcceeeecCCccccccCCCCCCCCCcChhheeEHHHhhcccCCcCcCCEEEEEEEE
Confidence 99999998654321 11100123567653 4579999999999998433599999999999987
No 5
>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=99.94 E-value=1.6e-26 Score=180.20 Aligned_cols=133 Identities=19% Similarity=0.271 Sum_probs=102.6
Q ss_pred ceEEEEEcCcccccc-c-cCC--eeEeccEEE--CCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCC-CCCCcEEEEE
Q 024960 16 ADYSLKIESFKLLSK-S-TVE--SFESGVFKS--GGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPH-PDGTWNVNVY 88 (260)
Q Consensus 16 g~~~w~I~~fs~~~~-~-~~~--~~~S~~F~~--gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~-~~~~w~v~~~ 88 (260)
|+|+|+|.|||.+++ . .|+ .+.|++|.+ |||+|+|++||+|.. ++..+|||+||+|.++... ..+ |+++|+
T Consensus 1 g~h~~~I~~yS~~~~~~~~g~~~~i~S~~F~~~~gGy~W~i~~yP~G~~-~~~~~~lS~~L~l~~~~~d~~l~-wpv~a~ 78 (147)
T cd03776 1 GIYVWKIKNFSNLRRSMEAGSPVVIHSPGFYTSPPGYKLCARLNLSLPE-ARCPNYISLFVHLMQGENDSHLD-WPFQGT 78 (147)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCC-CCCCCEEEEEEEEeccCCCcccC-Ccccce
Confidence 689999999998654 2 245 488999985 799999999999987 3456899999999876432 234 999999
Q ss_pred EEEEEEeCcCCceeEE--eccCCCceeccC-----CCCCcccccccccccccCCCCCceeCCEEEEEEEEE
Q 024960 89 YKLFVYDQVSNQYLVV--QDAKAPMRRFDR-----RKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVY 152 (260)
Q Consensus 89 ~~~~l~n~~~~~~~~~--~~~~~~~~~F~~-----~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~ 152 (260)
++|.|+||.++..... .........|.. ....|||.+||++++|+ +++||+||+|+|+|+|.
T Consensus 79 ~~~~lldq~~~~~~~~~~~~~~~~~~~F~~p~~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~I~c~V~ 147 (147)
T cd03776 79 ITLTLLDQSEPRQNIHETMMSKPELLAFQRPTTDRNPKGFGYVEFAHIEDLL--QRGFVKNDTLLIKIEVN 147 (147)
T ss_pred eEEEEECCCcccCccEEEEEcCCChHhhcCCCcCCCCCCeeEceeeEHHHhh--hCCCccCCEEEEEEEEC
Confidence 9999999987433211 000112345653 24679999999999998 57899999999999984
No 6
>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=99.94 E-value=5e-26 Score=174.32 Aligned_cols=126 Identities=22% Similarity=0.436 Sum_probs=102.7
Q ss_pred CCceEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEEEEEE
Q 024960 14 PPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFV 93 (260)
Q Consensus 14 ~~g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~l 93 (260)
+.++++|+|.|||.+++ .++.+.|++|.+|||+|+|.+||+|.. ++..+|||+||.+.+.. . |.+.++|+|+|
T Consensus 3 ~~~~~~~~I~~fS~~~~-~~~~~~S~~F~vgG~~W~i~~yP~G~~-~~~~~~lSl~L~l~~~~----~-~~~~~~~~l~l 75 (132)
T cd03773 3 PYDSATFTLENFSTLRQ-SADPVYSDPLNVDGLCWRLKVYPDGNG-EVRGNFLSVFLELCSGL----G-EASKYEYRVEM 75 (132)
T ss_pred CCcccEEEECChhhhhc-CCcceeCCCeEeCCccEEEEEECCCCC-CCCCCEEEEEEEeecCC----C-CceeEEEEEEE
Confidence 56789999999999854 257899999999999999999999976 34568999999997642 2 67889999999
Q ss_pred EeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeC--CEEEEEEEEE
Q 024960 94 YDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVD--DTCAFGAEVY 152 (260)
Q Consensus 94 ~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~d--D~l~i~~~V~ 152 (260)
+||.++...... ...+.|.. ..+|||.+||++++|+ ++|||+| |+|+|+|.|+
T Consensus 76 lnq~~~~~~~~~---~~~~~f~~-~~~wG~~~Fi~~~~L~--~~gfl~~~~D~l~i~~~v~ 130 (132)
T cd03773 76 VHQANPTKNIKR---EFASDFEV-GECWGYNRFFRLDLLI--NEGYLLPENDTLILRFSVR 130 (132)
T ss_pred EcCCCCccceEE---eccccccC-CCCcCHHHhccHHHHh--hCCCcCCCCCEEEEEEEEe
Confidence 999543332222 24567765 4679999999999998 5899999 9999999986
No 7
>cd00270 MATH_TRAF_C Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link cell surface TNFRs and receptors of the interleukin-1/Toll-like family to downstream kinase signaling cascades which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. There are at least six mammalian and three Drosophila proteins containing TRAF domains. The mammalian TRAFs display varying expression profiles, indicating independent and cell type-specific regulation. They display distinct, as well as overlapping functions and interactions with receptors. Most TRAFs, except TRAF1, share N-terminal homology and contain a RING domain, multiple zinc finger domains, and a TRAF domain. TRAFs form homo- and heterotrimers through its TRAF domain. The TRAF domain can be divided into a more divergent N-ter
Probab=99.94 E-value=3.8e-26 Score=178.58 Aligned_cols=133 Identities=23% Similarity=0.371 Sum_probs=103.0
Q ss_pred ceEEEEEcCccccccc----cCCeeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCC-CCCCcEEEEE
Q 024960 16 ADYSLKIESFKLLSKS----TVESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPH-PDGTWNVNVY 88 (260)
Q Consensus 16 g~~~w~I~~fs~~~~~----~~~~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~-~~~~w~v~~~ 88 (260)
|+|+|+|+|||++++. .++.++|++|.+| ||+|+|++||+|.. ++..+||||||++.++... ..+ |+++|+
T Consensus 1 g~~~w~I~~fs~~~~~~~~~~~~~~~S~~F~vg~~G~~w~i~~yP~G~~-~~~~~~lsl~L~l~~~~~d~~~~-w~~~~~ 78 (149)
T cd00270 1 GVLIWKIKDYSRKLQEAVAGSNTVLYSPPFYTSRYGYKLCLRLYLNGDG-TGKGTHLSLFVHVMKGEYDALLE-WPFRGK 78 (149)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCC-CCCCCEEEEEEEEeccCCCcccc-CCccce
Confidence 6899999999998651 2578999999999 99999999999985 3346799999999876432 234 999999
Q ss_pred EEEEEEeCcCC--ceeEEec--cCCCceecc-----CCCCCcccccccccccccCCCCCceeCCEEEEEEEEE
Q 024960 89 YKLFVYDQVSN--QYLVVQD--AKAPMRRFD-----RRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVY 152 (260)
Q Consensus 89 ~~~~l~n~~~~--~~~~~~~--~~~~~~~F~-----~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~ 152 (260)
|+|.|+||.++ ....... .......|. ....+|||.+||++++|+ +.+||+||+|+|+|+|.
T Consensus 79 ~~~~l~d~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~~G~~~fi~~~~L~--~~gfl~dD~l~I~~~v~ 149 (149)
T cd00270 79 ITLTLLDQSDDSKRKHITETFMPDPNSSAFQRPPTGENNIGFGYPEFVPLEKLE--SRGYVKDDTLFIKVEVD 149 (149)
T ss_pred EEEEEECCCCccccCceEEEEEcCCchHhhcCCCcccCCCCcCcceEeEHHHhc--cCCCEeCCEEEEEEEEC
Confidence 99999999874 1111000 001223454 135789999999999998 46899999999999983
No 8
>cd03777 MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF3 was first described as a molecule that binds the cytoplasmic tail of CD40. However, it is not required for CD40 signaling. More recently, TRAF3 has been identified as a key regulator of type I interferon (IFN) production and the mammalian innate antiviral immunity. It mediates IFN responses in Toll-like receptor (TLR)-dependent as well as TLR-independent viral recognition pathways. It is also a key element in immunological homeostasis through its regulation of the anti-inflammatory cytokine interleukin-10. TRAF3 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more divergent N-terminal al
Probab=99.94 E-value=7.9e-26 Score=181.29 Aligned_cols=138 Identities=22% Similarity=0.252 Sum_probs=106.5
Q ss_pred cCCCceEEEEEcCccccccc--cCC--eeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEE
Q 024960 12 SLPPADYSLKIESFKLLSKS--TVE--SFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNV 85 (260)
Q Consensus 12 ~~~~g~~~w~I~~fs~~~~~--~~~--~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v 85 (260)
....|+|.|+|.|||.+++. .|+ .+.||+|.+| ||+|+|++||||.. .+..+|+|+||.+++++..+...|++
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 ASYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDG-MGKGTHLSLFFVIMRGEYDALLPWPF 113 (186)
T ss_pred cccceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeEEEEEEcCCCC-CCCCCEEEEEEEEecCCcccccCCce
Confidence 34579999999999998642 244 7999999999 99999999999987 34578999999999865322112999
Q ss_pred EEEEEEEEEeCcCCceeEEec--cCCCceecc-CC---CCCcccccccccccccCCCCCceeCCEEEEEEEEE
Q 024960 86 NVYYKLFVYDQVSNQYLVVQD--AKAPMRRFD-RR---KTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVY 152 (260)
Q Consensus 86 ~~~~~~~l~n~~~~~~~~~~~--~~~~~~~F~-~~---~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~ 152 (260)
.++++|.|+||.+........ .......|. +. +..||+.+||++++|+ +++||+||+|+|+|.|.
T Consensus 114 ~~~~tfsLlDQ~~~~~~~~~~~~p~p~~~~F~rp~~~~n~~~G~~~Fi~~~~Le--~~~ylkdD~l~Irv~v~ 184 (186)
T cd03777 114 KQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLE--NGTYIKDDTIFIKVIVD 184 (186)
T ss_pred eEEEEEEEEcCCCccccccceeccCCccccccCCccCCCCCCCchheeEHHHhc--cCCcEeCCEEEEEEEEe
Confidence 999999999997532111100 011234575 22 4579999999999999 68899999999999886
No 9
>cd03781 MATH_TRAF4 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF4 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF4, including the Drosophila protein DTRAF1. TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF4 is highly expressed during embryogenesis, especially in the central and peripheral nervous system. Studies using TRAF4-deficient mice show that TRAF4 is required for neurogenesis, as well as the development of the trachea and the axial skeleton. In addition, TRAF4 augments nuclear factor-kappaB activation triggered by GITR (glucocorticoid-induced TNFR), a receptor expressed in T-cells, B-cells and macrophages. It also participates in counteracting the signaling mediated by Toll-like receptors through its association with TRAF6 and TR
Probab=99.94 E-value=8.5e-26 Score=177.22 Aligned_cols=133 Identities=19% Similarity=0.332 Sum_probs=103.6
Q ss_pred ceEEEEEcCccccccc--c--CCeeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcEEEEE
Q 024960 16 ADYSLKIESFKLLSKS--T--VESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWNVNVY 88 (260)
Q Consensus 16 g~~~w~I~~fs~~~~~--~--~~~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~v~~~ 88 (260)
|+|.|+|+|||.+++. . ++.+.|++|.+| ||+|+|++||||.. ++..+|+|+||++++++... .. |+++++
T Consensus 1 g~~~~~I~gys~~~~~~~~~~~~~i~S~~F~vg~~Gy~w~i~~yPnG~~-~~~~~~vs~~l~l~~ge~d~~l~-wp~~a~ 78 (154)
T cd03781 1 GTLLWKITDYSRKLQEAKGRDNLELFSPPFYTHRYGYKLQVSAFLNGNG-SGEGSHLSVYIRVLPGEYDNLLE-WPFSHR 78 (154)
T ss_pred CEEEEEECCHHHHHHHhhcCCCceEECCCeecCCCCEEEEEEEECCCCC-CCCCCEEEEEEEEecCCcccccC-CceeeE
Confidence 7899999999998752 2 578999999999 99999999999987 34568999999999864322 24 999999
Q ss_pred EEEEEEeCcCCc--ee-EEec---cCCCceeccC--------CCCCcccccccccccccCCCCCceeCCEEEEEEEEE
Q 024960 89 YKLFVYDQVSNQ--YL-VVQD---AKAPMRRFDR--------RKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVY 152 (260)
Q Consensus 89 ~~~~l~n~~~~~--~~-~~~~---~~~~~~~F~~--------~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~ 152 (260)
++|+|+||.+.. .. .... .......|.. .+.+||+.+||++++|+ .++||+||+|+|+|+|.
T Consensus 79 ~~~~llDq~~~~~~~~~~~~~~~~~~~~~~~F~rp~~~~~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~Irc~v~ 154 (154)
T cd03781 79 ITFTLLDQSDPSLSKPQHITETFTPDPTWKNFQKPSASRLDESTLGFGYPKFISHEDLK--KRNYIKDDAIFLRASVE 154 (154)
T ss_pred EEEEEECCCCCccccCcceEEEEEcCCchhhhcCCcccccCCCCCccchhHeeEHHHHh--hCCcccCCEEEEEEEeC
Confidence 999999998741 10 0000 0012344542 34579999999999999 57899999999999983
No 10
>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=1.3e-25 Score=173.29 Aligned_cols=135 Identities=21% Similarity=0.299 Sum_probs=102.3
Q ss_pred ceEEEEEcCccccccc--cC--CeeEeccEEEC--CeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEE
Q 024960 16 ADYSLKIESFKLLSKS--TV--ESFESGVFKSG--GYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYY 89 (260)
Q Consensus 16 g~~~w~I~~fs~~~~~--~~--~~~~S~~F~~g--g~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~ 89 (260)
|+++|+|.||++..+. .+ ..++||+|..+ ||+|+|++||||.. .+..+|+|+||.+++++..+...|++++++
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 GTFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKVCLRLYLNGDG-AGKGTHISLFFVIMKGEYDALLPWPFRHKV 79 (147)
T ss_pred CeEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEcCCCC-CCCCCEEEEEEEEecCCcccccCcceEEEE
Confidence 6899999999976542 22 47999999875 99999999999987 345789999999997642211129999999
Q ss_pred EEEEEeCcCCceeEE-eccCCCceecc----CCCCCcccccccccccccCCCCCceeCCEEEEEEEE
Q 024960 90 KLFVYDQVSNQYLVV-QDAKAPMRRFD----RRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEV 151 (260)
Q Consensus 90 ~~~l~n~~~~~~~~~-~~~~~~~~~F~----~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V 151 (260)
+|.|+||.+...... .........|. ..+..||+.+||++++|+....+||+||+++|+|+|
T Consensus 80 tfsLlDq~~~~~~~~~~~~~~~~~~F~rP~~~~n~~~G~~~Fi~~~~Le~s~~~ylkDD~~~Irc~V 146 (147)
T cd03779 80 TFMLLDQNNREHVIDAFRPDLSSASFQRPVSDMNVASGCPLFFPLKKLQSPKHAYCKDDTIYIKCVV 146 (147)
T ss_pred EEEEECCCCCCCCcEeecCCcccccccCcccCCCCCcchhheeEHHHhcccCCCcEeCCEEEEEEEE
Confidence 999999986543221 11000135686 344579999999999998322399999999999998
No 11
>cd03771 MATH_Meprin Meprin family, MATH domain; Meprins are multidomain, highly glycosylated extracellular metalloproteases, which are either anchored to the membrane or secreted into extracellular spaces. They are expressed in renal and intestinal brush border membranes, leukocytes, and cancer cells, and are capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. Meprin proteases are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. Despite their similarity, the two subunits differ in their ability to self-associate, in proteolytic processing during biosynthesis and in substrate specificity. Both subunits are synthesized as membrane spanning proteins, however, the alpha subunit is cleaved during biosynthesis and loses its transmembrane domain. Meprin beta forms homodimers or heterotetramers while meprin alpha oligomerizes into large complexes co
Probab=99.92 E-value=2.2e-24 Score=169.48 Aligned_cols=132 Identities=17% Similarity=0.305 Sum_probs=100.1
Q ss_pred CceEEEEEcCccccc-cc-cCCeeEeccE-EECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcE-EEEEE
Q 024960 15 PADYSLKIESFKLLS-KS-TVESFESGVF-KSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWN-VNVYY 89 (260)
Q Consensus 15 ~g~~~w~I~~fs~~~-~~-~~~~~~S~~F-~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~-v~~~~ 89 (260)
+.+|+|+|.|||.++ +. .++.++||+| .+|||+|+|++||+|... ..+||||||++++++..+ .+ |+ +.+++
T Consensus 1 cp~hvwkI~~yS~~~~~~~~g~~i~S~~FysvgGy~w~I~~YPnG~~~--~~~~lSlyL~L~~g~~d~~L~-WP~v~a~~ 77 (167)
T cd03771 1 CPEAVWRVRNFSQLLETTPKGTKIYSPRFYSPEGYAFQVGLYPNGTES--YPGYTGLYFHLCSGENDDVLE-WPCPNRQA 77 (167)
T ss_pred CCeEEEEEcCchhhhhcCCCCCEEECCCCCccCCeEEEEEEEeCCCCC--CCCcceEEEEEecCCcccccc-CcceeEEE
Confidence 468999999999996 33 3678999998 999999999999999873 568999999998764432 34 99 58999
Q ss_pred EEEEEeCcCC------ceeEEeccCCC-------ceeccC-----------------CCCCcccccccccccccCCCCCc
Q 024960 90 KLFVYDQVSN------QYLVVQDAKAP-------MRRFDR-----------------RKTDWGFGKFLDLATFNEPSNGY 139 (260)
Q Consensus 90 ~~~l~n~~~~------~~~~~~~~~~~-------~~~F~~-----------------~~~~~G~~~Fi~~~~L~~~~~~y 139 (260)
+|+|+||... ....... +.. ...|.+ ++.+|||..||++++|+ ..+|
T Consensus 78 t~~LlDQ~~~~~~r~~~~~~~~~-dp~~~~~~~~~~~~~rP~~~~~~~~~~~~~~~~~~~g~G~~~Fis~~~L~--~r~y 154 (167)
T cd03771 78 TMTLLDQDPDIQQRMSNQRSFTT-DPSMTSSDNGEYFWDRPSKVGSYDTDTNGCTCYRGPGYGWSTFISHSRLR--RRDF 154 (167)
T ss_pred EEEEECCCCcccccCcceEEEec-CCcccccccccccccCCccccccccccccccccccCccccccceeHHHhc--cCCC
Confidence 9999999731 1111111 000 011221 23589999999999999 4679
Q ss_pred eeCCEEEEEEEEE
Q 024960 140 LVDDTCAFGAEVY 152 (260)
Q Consensus 140 l~dD~l~i~~~V~ 152 (260)
|+||+|.|+++++
T Consensus 155 lk~dtl~i~~~~~ 167 (167)
T cd03771 155 LKGDDLIILLDFE 167 (167)
T ss_pred CcCCEEEEEEEeC
Confidence 9999999999873
No 12
>cd03778 MATH_TRAF2 Tumor Necrosis Factor Receptor (TNFR) Associated Factor (TRAF) family, TRAF2 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF2 associates with the receptors TNFR-1, TNFR-2, RANK (which mediates differentiation and maturation of osteoclasts) and CD40 (which is important for the proliferation and activation of B cells), among others. It regulates distinct pathways that lead to the activation of nuclear factor-kappaB and Jun NH2-terminal kinases. TRAF2 also indirectly associates with death receptors through its interaction with TRADD (TNFR-associated death domain protein). It is involved in regulating oxidative stress or ROS-induced cell death and in the preconditioning of cells by sublethal stress for protection from subsequent injury. TRAF2 contains a RING finger domain, five z
Probab=99.89 E-value=7.3e-23 Score=159.69 Aligned_cols=136 Identities=22% Similarity=0.304 Sum_probs=104.7
Q ss_pred CCCceEEEEEcCccccccc--c--CCeeEeccEEE--CCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcEE
Q 024960 13 LPPADYSLKIESFKLLSKS--T--VESFESGVFKS--GGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWNV 85 (260)
Q Consensus 13 ~~~g~~~w~I~~fs~~~~~--~--~~~~~S~~F~~--gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~v 85 (260)
...|+|+|+|.||+++.+. . ...++||+|.. +||+|+|++||||.+. +.+.|||+|+++++++.++ .+ |++
T Consensus 16 ~~~g~fiWkI~~fs~~~~~a~~~~~~~i~Sp~Fyt~~~GYk~~l~~ylnG~g~-~~g~~LSly~~l~~Ge~D~~L~-WPf 93 (164)
T cd03778 16 TYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGT-GRGTHLSLFFVVMKGPNDALLR-WPF 93 (164)
T ss_pred ccCCEEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCeEEEEEEEeCCCCC-CCCCEEEEEEEEecCCcCcccC-Cce
Confidence 4579999999999998653 2 24799999975 5899999999999873 3457999999999987655 45 999
Q ss_pred EEEEEEEEEeCcCCceeEEe-ccCCCceecc----CCCCCcccccccccccccCCCCCceeCCEEEEEEEE
Q 024960 86 NVYYKLFVYDQVSNQYLVVQ-DAKAPMRRFD----RRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEV 151 (260)
Q Consensus 86 ~~~~~~~l~n~~~~~~~~~~-~~~~~~~~F~----~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V 151 (260)
..+++|+|+||.+....... ..+.....|. ..+.+|||..|+++++|..+ .+||+||+|.|+|.|
T Consensus 94 ~~~itl~llDQ~~r~hi~~~~~pd~~~~~f~RP~~~~n~~~G~~~Fv~l~~l~~~-~~Yv~dDtlfIk~~V 163 (164)
T cd03778 94 NQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKXEAK-NSYVRDDAIFIKAIV 163 (164)
T ss_pred eeEEEEEEECCCCCCcceeEEEcCcchHhcCCCCcccccCcCcceEEEhhHcccc-CCcccCCeEEEEEEE
Confidence 99999999999864332210 0011112352 24567999999999999843 699999999999987
No 13
>cd00121 MATH MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane and are capable of cleaving growth factors, extracellular matrix proteins, and biologically active peptides. TRAF molecules serve as adapter proteins that link cell surface receptors of the Tumor Necrosis Factor and 1nterleukin-1/Toll-like families to downstream kinase cascades, which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. Other members include the ubiquitin ligases, TRIM37 and SPOP, and the ubiquitin-specific proteases, HAUSP and Ubp21p. A large number of uncharacterized members mostly from lineage-specific expansions in C. elegans and rice contain MATH and BTB domains, similar to SPOP. The MATH doma
Probab=99.89 E-value=4.8e-22 Score=149.80 Aligned_cols=125 Identities=33% Similarity=0.590 Sum_probs=99.8
Q ss_pred ceEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEEEEEEEe
Q 024960 16 ADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYD 95 (260)
Q Consensus 16 g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~l~n 95 (260)
++|+|+|.+|+.. .++.++|+.|.++|++|+|.+||+|... ..++|||||.|.+....... |.+.++|+|+|+|
T Consensus 1 ~~~~~~i~~~~~~---~~~~~~S~~f~~~g~~W~l~~~p~~~~~--~~~~lsv~L~~~~~~~~~~~-~~~~~~~~~~l~~ 74 (126)
T cd00121 1 GKHTWKIVNFSEL---EGESIYSPPFEVGGYKWRIRIYPNGDGE--SGDYLSLYLELDKGESDLEK-WSVRAEFTLKLVN 74 (126)
T ss_pred CEEEEEECCCCCC---CCcEEECCCEEEcCEeEEEEEEcCCCCC--CCCEEEEEEEecCCCCCCCC-CcEEEEEEEEEEC
Confidence 4799999999982 2478999999999999999999999752 46899999999876543344 9999999999999
Q ss_pred CcCCceeEEeccCCCceecc-CCCCCcccccccccccccCCCCCceeCCEEEEEEEEE
Q 024960 96 QVSNQYLVVQDAKAPMRRFD-RRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVY 152 (260)
Q Consensus 96 ~~~~~~~~~~~~~~~~~~F~-~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~ 152 (260)
+++.+..... ....|. ....+|||.+||++++|++ ..++.||+|+|+|+|.
T Consensus 75 ~~~~~~~~~~----~~~~~~~~~~~~~G~~~fi~~~~l~~--~~~~~~d~l~i~~~v~ 126 (126)
T cd00121 75 QNGGKSLSKS----FTHVFFSEKGSGWGFPKFISWDDLED--SYYLVDDSLTIEVEVK 126 (126)
T ss_pred CCCCccceEe----ccCCcCCCCCCCCChHHeeEHHHhcc--CCcEECCEEEEEEEEC
Confidence 9844333221 233442 4568999999999999994 3349999999999984
No 14
>PF00917 MATH: MATH domain; InterPro: IPR002083 Although apparently functionally unrelated, intracellular TRAFs and extracellular meprins share a conserved region of about 180 residues, the meprin and TRAF homology (MATH) domain []. Meprins are mammalian tissue-specific metalloendopeptidases of the astacin family implicated in developmental, normal and pathological processes by hydrolysing a variety of proteins. Various growth factors, cytokines, and extracellular matrix proteins are substrates for meprins. They are composed of five structural domains: an N-terminal endopeptidase domain, a MAM domain (see PDOC00604 from PROSITEDOC), a MATH domain, an EGF-like domain (see PDOC00021 from PROSITEDOC) and a C-terminal transmembrane region. Meprin A and B form membrane bound homotetramer whereas homooligomers of meprin A are secreted. A proteolitic site adjacent to the MATH domain, only present in meprin A, allows the release of the protein from the membrane []. TRAF proteins were first isolated by their ability to interact with TNF receptors []. They promote cell survival by the activation of downstream protein kinases and, finally, transcription factors of the NF-kB and AP-1 family. The TRAF proteins are composed of 3 structural domains: a RING finger (see PDOC00449 from PROSITEDOC) in the N-terminal part of the protein, one to seven TRAF zinc fingers (see PDOC50145 from PROSITEDOC) in the middle and the MATH domain in the C-terminal part []. The MATH domain is necessary and sufficient for self-association and receptor interaction. From the structural analysis two consensus sequence recognised by the TRAF domain have been defined: a major one, [PSAT]x[QE]E and a minor one, PxQxxD []. The structure of the TRAF2 protein reveals a trimeric self-association of the MATH domain []. The domain forms a new, light-stranded antiparallel beta sandwich structure. A coiled-coil region adjacent to the MATH domain is also important for the trimerisation. The oligomerisation is essential for establishing appropriate connections to form signalling complexes with TNF receptor-1. The ligand binding surface of TRAF proteins is located in beta-strands 6 and 7 [].; GO: 0005515 protein binding; PDB: 1D00_E 1CZY_A 1D01_F 1CA9_A 1D0J_D 1F3V_B 1CA4_C 1D0A_A 1QSC_C 1CZZ_C ....
Probab=99.85 E-value=3.1e-21 Score=144.56 Aligned_cols=118 Identities=28% Similarity=0.584 Sum_probs=95.5
Q ss_pred EcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCC-CCCcEEEEEEEEEEEeCcCCc
Q 024960 22 IESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHP-DGTWNVNVYYKLFVYDQVSNQ 100 (260)
Q Consensus 22 I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~-~~~w~v~~~~~~~l~n~~~~~ 100 (260)
|+|||.++.. +..+.|+.|.++|++|+|.+||+|. .+++++||+|....... .+ |++.+++++.|+++.+..
T Consensus 1 i~nfs~l~~~-~~~~~s~~~~~~g~~W~l~~~~~~~-----~~~l~~~L~~~~~~~~~~~~-w~~~~~~~~~~~~~~~~~ 73 (119)
T PF00917_consen 1 IKNFSKLKEG-EEYSSSFVFSHGGYPWRLKVYPKGN-----GKYLSVYLHCDKGENDSDLE-WSIEAEFRFRLLNQNGKS 73 (119)
T ss_dssp ETTGGGHHTS-EEEEEEEESSTTSEEEEEEEETTES-----TTEEEEEEEEECSTTGGGSS-SSEEEEEEEEEE-TTSCE
T ss_pred CcccceEeCC-CcEECCCeEEECCEEEEEEEEeCCC-----cCcEEEEEEEeecccccccc-eeeeEEEEEEEecCCCCc
Confidence 7899999732 2345568899999999999999975 47999999999885433 35 999999999999999987
Q ss_pred eeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEE
Q 024960 101 YLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYV 153 (260)
Q Consensus 101 ~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v 153 (260)
..... ..+.|... .+|||.+||++++|+++ .||.||+|+|+|+|+|
T Consensus 74 ~~~~~----~~~~F~~~-~~~g~~~fi~~~~l~~~--~fl~dd~l~ie~~v~I 119 (119)
T PF00917_consen 74 ISKRI----KSHSFNNP-SSWGWSSFISWEDLEDP--YFLVDDSLTIEVEVKI 119 (119)
T ss_dssp EEEEE----ECEEECTT-SEEEEEEEEEHHHHTTC--TTSBTTEEEEEEEEEE
T ss_pred ceeee----eeeEEeee-cccchhheeEHHHhCcc--CCeECCEEEEEEEEEC
Confidence 43321 24788764 88999999999999943 3899999999999986
No 15
>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=99.79 E-value=5.6e-19 Score=137.31 Aligned_cols=135 Identities=19% Similarity=0.358 Sum_probs=100.3
Q ss_pred CceEEEEEcCccccccc--cCCeeEeccEEE-CCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEE-EEEEE
Q 024960 15 PADYSLKIESFKLLSKS--TVESFESGVFKS-GGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNV-NVYYK 90 (260)
Q Consensus 15 ~g~~~w~I~~fs~~~~~--~~~~~~S~~F~~-gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v-~~~~~ 90 (260)
+..++|+|.||+++.+. .+..++||+|.. .||+.+|++||||....+.+.|+|||+++++++.+..-.|++ .-+++
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 45789999999997653 357899999987 499999999999986334567999999999986544223995 56999
Q ss_pred EEEEeCcCC---ceeE---Ee-ccCCC------ceeccC--------------CCCCcccccccccccccCCCCCceeCC
Q 024960 91 LFVYDQVSN---QYLV---VQ-DAKAP------MRRFDR--------------RKTDWGFGKFLDLATFNEPSNGYLVDD 143 (260)
Q Consensus 91 ~~l~n~~~~---~~~~---~~-~~~~~------~~~F~~--------------~~~~~G~~~Fi~~~~L~~~~~~yl~dD 143 (260)
|+|+||+.. ..+. .. +.... ...|.+ ++.++||..||++++|+ ..+||+||
T Consensus 81 l~llDQ~~~~~~r~~~~~sf~~d~~~~~~~~~~~~~f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~--~r~yikdD 158 (167)
T cd03783 81 ITVLDQDPDVRLRMSSSRSFTTDKSQTSSAINGTLRWDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLR--RRSFLKND 158 (167)
T ss_pred EEEEcCCcchhhccccceeeecCCCcccccccccccccCCcccccccccccccCCcccccccceeHHHHh--hCCcccCC
Confidence 999999742 1111 00 00000 011332 24689999999999999 68999999
Q ss_pred EEEEEEEE
Q 024960 144 TCAFGAEV 151 (260)
Q Consensus 144 ~l~i~~~V 151 (260)
+|.|.+++
T Consensus 159 tlfI~~~~ 166 (167)
T cd03783 159 DLIIFVDF 166 (167)
T ss_pred eEEEEEec
Confidence 99999886
No 16
>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=99.78 E-value=2.1e-18 Score=133.42 Aligned_cols=133 Identities=17% Similarity=0.308 Sum_probs=100.6
Q ss_pred CceEEEEEcCccccccc--cCCeeEeccEEE-CCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEE-EEEE
Q 024960 15 PADYSLKIESFKLLSKS--TVESFESGVFKS-GGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVN-VYYK 90 (260)
Q Consensus 15 ~g~~~w~I~~fs~~~~~--~~~~~~S~~F~~-gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~-~~~~ 90 (260)
+..++|+|.||+++.+. .+..++||+|.. .||+.++++||||.+. +.+|||+|+++++++.++.-.|++. -+++
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 45799999999998654 357899999964 6999999999999873 3679999999999865442239999 8999
Q ss_pred EEEEeCcC---CceeEEe--ccCC----C-ceec--cCC-----------------CCCcccccccccccccCCCCCcee
Q 024960 91 LFVYDQVS---NQYLVVQ--DAKA----P-MRRF--DRR-----------------KTDWGFGKFLDLATFNEPSNGYLV 141 (260)
Q Consensus 91 ~~l~n~~~---~~~~~~~--~~~~----~-~~~F--~~~-----------------~~~~G~~~Fi~~~~L~~~~~~yl~ 141 (260)
|.|+||+. ...+... +.+. . ...| .+. +.++||+.||++++|+ ++.||+
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 2111111 0010 0 1134 211 5789999999999999 588999
Q ss_pred CCEEEEEEEE
Q 024960 142 DDTCAFGAEV 151 (260)
Q Consensus 142 dD~l~i~~~V 151 (260)
||++.|-+++
T Consensus 157 dD~ifi~~~~ 166 (167)
T cd03782 157 GDDVIFLLTM 166 (167)
T ss_pred CCeEEEEEec
Confidence 9999998876
No 17
>smart00061 MATH meprin and TRAF homology.
Probab=99.75 E-value=1.8e-17 Score=118.93 Aligned_cols=94 Identities=23% Similarity=0.441 Sum_probs=78.3
Q ss_pred EEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEEEEEEEeCc
Q 024960 18 YSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQV 97 (260)
Q Consensus 18 ~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~l~n~~ 97 (260)
++|.|+||+.+.. ++.+.|++|.++|++|+|.+||+ .+|||+||.|.+....+.. |++.|+++|.|+|++
T Consensus 2 ~~~~~~~~~~~~~--~~~~~S~~f~~~g~~W~i~~~p~-------~~~lsl~L~~~~~~~~~~~-w~v~a~~~~~l~~~~ 71 (95)
T smart00061 2 LSHTFKNVSRLEE--GESYFSPSEEHFNIPWRLKIYRK-------NGFLSLYLHCEKEECDSRK-WSIEAEFTLKLVSQN 71 (95)
T ss_pred ceeEEEchhhccc--CceEeCChhEEcCceeEEEEEEc-------CCEEEEEEEeCCCcCCCCC-eEEEEEEEEEEEeCC
Confidence 5799999999843 47899999999999999999998 3699999999876544445 999999999999999
Q ss_pred CCceeEEeccCCCceeccCCCCCccccccc
Q 024960 98 SNQYLVVQDAKAPMRRFDRRKTDWGFGKFL 127 (260)
Q Consensus 98 ~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi 127 (260)
++.... ...+.|.. ..+|||.+||
T Consensus 72 ~~~~~~-----~~~~~F~~-~~~~G~~~fi 95 (95)
T smart00061 72 GKSLSK-----KDKHVFEK-PSGWGFSKFI 95 (95)
T ss_pred CCEEee-----eeeEEEcC-CCccceeeEC
Confidence 876522 25678876 6889999886
No 18
>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=99.70 E-value=1.6e-16 Score=121.92 Aligned_cols=76 Identities=17% Similarity=0.394 Sum_probs=66.1
Q ss_pred ceEEEeCCccCcCCceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCcc----CCCCCcEEEEEEEEEecCC
Q 024960 173 NYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQT----VSRKKPVYAEFKFKIPNQY 248 (260)
Q Consensus 173 ~~~~~i~~fs~l~~~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~----~~~~~~~~~~f~l~l~~q~ 248 (260)
+|+|+|.+||.+. +.+.|++|.||||+|+|.+||+|+.. .+|+|+||.+.+.+. ++++|.++|+|+|+|+||.
T Consensus 2 ~f~w~I~~fS~~~-~~~~S~~F~vGG~~W~l~~yP~G~~~--~~~iSlyL~l~~~~~~~~~~~~~~~v~a~f~~~l~n~~ 78 (134)
T cd03775 2 SFTWRIKNWSELE-KKVHSPKFKCGGFEWRILLFPQGNSQ--TGGVSIYLEPHPEEEEKAPLDEDWSVCAQFALVISNPG 78 (134)
T ss_pred cEEEEECCcccCC-cceeCCCEEECCeeEEEEEeCCCCCC--CCeEEEEEEecCcccccccCCCCCeEEEEEEEEEEcCC
Confidence 4899999999964 78899999999999999999999876 689999999976544 3568889999999999997
Q ss_pred CCC
Q 024960 249 SRN 251 (260)
Q Consensus 249 ~~~ 251 (260)
++.
T Consensus 79 ~~~ 81 (134)
T cd03775 79 DPS 81 (134)
T ss_pred CCc
Confidence 544
No 19
>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=99.65 E-value=1.1e-15 Score=116.96 Aligned_cols=77 Identities=29% Similarity=0.490 Sum_probs=66.7
Q ss_pred CCCcceEEEeCCccCcCC--ceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEEEec
Q 024960 169 PADGNYRFNIPAFGSVGD--TVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPN 246 (260)
Q Consensus 169 p~~~~~~~~i~~fs~l~~--~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~~ 246 (260)
|+..+++|+|.+||.+.+ +.+.|++|.||||+|+|.+||+|+..+.++|||+||++.+. ..+.+.++|+|+|+|
T Consensus 2 ~~~~~~~~~I~~fS~~~~~~~~~~S~~F~vgG~~W~i~~yP~G~~~~~~~~lSl~L~l~~~----~~~~~~~~~~l~lln 77 (132)
T cd03773 2 PPYDSATFTLENFSTLRQSADPVYSDPLNVDGLCWRLKVYPDGNGEVRGNFLSVFLELCSG----LGEASKYEYRVEMVH 77 (132)
T ss_pred CCCcccEEEECChhhhhcCCcceeCCCeEeCCccEEEEEECCCCCCCCCCEEEEEEEeecC----CCCceeEEEEEEEEc
Confidence 788889999999999853 57899999999999999999999887667899999998763 235688899999999
Q ss_pred CCC
Q 024960 247 QYS 249 (260)
Q Consensus 247 q~~ 249 (260)
|.+
T Consensus 78 q~~ 80 (132)
T cd03773 78 QAN 80 (132)
T ss_pred CCC
Confidence 953
No 20
>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=99.62 E-value=2.3e-15 Score=118.44 Aligned_cols=76 Identities=14% Similarity=0.205 Sum_probs=66.3
Q ss_pred cceEEEeCCccCcCC-----ceeecCce-EeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccC-CCCCc-EEEEEEEE
Q 024960 172 GNYRFNIPAFGSVGD-----TVQRSSEF-TVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTV-SRKKP-VYAEFKFK 243 (260)
Q Consensus 172 ~~~~~~i~~fs~l~~-----~~~~s~~f-~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~-~~~~~-~~~~f~l~ 243 (260)
+.|+|+|.+|+.+++ ..+.|++| .||||+|+|.+||||+.. .++||||||++.+++.. ...|+ +.++|+|+
T Consensus 2 p~hvwkI~~yS~~~~~~~~g~~i~S~~FysvgGy~w~I~~YPnG~~~-~~~~lSlyL~L~~g~~d~~L~WP~v~a~~t~~ 80 (167)
T cd03771 2 PEAVWRVRNFSQLLETTPKGTKIYSPRFYSPEGYAFQVGLYPNGTES-YPGYTGLYFHLCSGENDDVLEWPCPNRQATMT 80 (167)
T ss_pred CeEEEEEcCchhhhhcCCCCCEEECCCCCccCCeEEEEEEEeCCCCC-CCCcceEEEEEecCCccccccCcceeEEEEEE
Confidence 569999999999862 26889998 999999999999999988 78999999999877644 45889 58999999
Q ss_pred EecCC
Q 024960 244 IPNQY 248 (260)
Q Consensus 244 l~~q~ 248 (260)
||||.
T Consensus 81 LlDQ~ 85 (167)
T cd03771 81 LLDQD 85 (167)
T ss_pred EECCC
Confidence 99996
No 21
>cd03780 MATH_TRAF5 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF5 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF5 was identified as an activator of nuclear factor-kappaB and a regulator of lymphotoxin-beta receptor and CD40 signaling. Its interaction with CD40 is indirect, involving hetero-oligomerization with TRAF3. In addition, TRAF5 has been shown to associate with other TNFRs including CD27, CD30, OX40 and GITR (glucocorticoid-induced TNFR). It plays a role in modulating Th2 immune responses (driven by OX40 costimulation) and T-cell activation (triggered by GITR). It is also involved in osteoclastogenesis. TRAF5 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more dive
Probab=99.61 E-value=2.5e-15 Score=116.54 Aligned_cols=77 Identities=13% Similarity=0.154 Sum_probs=67.8
Q ss_pred ceEEEeCCccCcCC-----c--eeecCce--EeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEEEEE
Q 024960 173 NYRFNIPAFGSVGD-----T--VQRSSEF--TVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAEFKF 242 (260)
Q Consensus 173 ~~~~~i~~fs~l~~-----~--~~~s~~f--~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~f~l 242 (260)
.|.|+|.+|+.+++ + .+.|+.| .++||+|+|.+||||.+.+.++|+|+||++..++.++ ..|++.++|+|
T Consensus 2 ~~vwkI~~ys~~~~~~~~g~~~~i~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wp~~~~~tf 81 (148)
T cd03780 2 KLIWKVTDYKMKKKEAVDGHTVSIFSQPFYTSRCGYRLCARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQWPFRQRVTL 81 (148)
T ss_pred EEEEEECCHHHHHHhhcCCCccEEECCCcccCCCCeeEEEEEEcCCCCCCCCCEEEEEEEEecCccccccCcceEEEEEE
Confidence 58999999998862 2 5889999 9999999999999999988889999999998876554 47899999999
Q ss_pred EEecCCC
Q 024960 243 KIPNQYS 249 (260)
Q Consensus 243 ~l~~q~~ 249 (260)
+|+||.+
T Consensus 82 sLlDq~~ 88 (148)
T cd03780 82 MLLDQSG 88 (148)
T ss_pred EEECCCC
Confidence 9999964
No 22
>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=99.60 E-value=9.9e-15 Score=112.35 Aligned_cols=76 Identities=16% Similarity=0.195 Sum_probs=64.9
Q ss_pred cceEEEeCCccCcCCceeecCceEeCCeEEEEEEEcCCCCC--CCCCeEEEEEEecCCccCCCCCcEEEEEEEEEecCCC
Q 024960 172 GNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGA--DRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQYS 249 (260)
Q Consensus 172 ~~~~~~i~~fs~l~~~~~~s~~f~vgg~~w~l~~~p~G~~~--~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~~q~~ 249 (260)
.+|+|+|.+|+.+ .+.+.|++|.|||++|+|.+||+|+.. +..+|+|+||.|.+. .....|.+.|+|+|+|+||.+
T Consensus 3 ~~~~~~I~~~S~l-~e~~~S~~f~vgG~~W~i~~~P~g~~~~~~~~~~lsvyL~~~~~-~~~~~w~i~a~~~~~l~~~~~ 80 (137)
T cd03772 3 ATFSFTVERFSRL-SESVLSPPCFVRNLPWKIMVMPRNYPDRNPHQKSVGFFLQCNAE-SDSTSWSCHAQAVLRIINYKD 80 (137)
T ss_pred cEEEEEECCcccC-CCcEECCCEEECCcceEEEEEeCCCCCCCCCCCeEEEEEeeCCc-CCCCCCeEEEEEEEEEEcCCC
Confidence 5699999999998 467899999999999999999999654 235799999999654 333489999999999999974
No 23
>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=99.60 E-value=2.4e-15 Score=117.38 Aligned_cols=78 Identities=17% Similarity=0.218 Sum_probs=67.6
Q ss_pred ceEEEeCCccCcCC-------ceeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccC-CCCCcEEEEEEE
Q 024960 173 NYRFNIPAFGSVGD-------TVQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTV-SRKKPVYAEFKF 242 (260)
Q Consensus 173 ~~~~~i~~fs~l~~-------~~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~-~~~~~~~~~f~l 242 (260)
.|+|+|.+|+.++. +.+.|+.|.|| ||+|+|.+||+|+..+.++|||+||++.+++.. ...|++.|+|+|
T Consensus 2 ~~~w~I~~fs~~~~~~~~~~~~~~~S~~F~vg~~G~~w~i~~yP~G~~~~~~~~lsl~L~l~~~~~d~~~~w~~~~~~~~ 81 (149)
T cd00270 2 VLIWKIKDYSRKLQEAVAGSNTVLYSPPFYTSRYGYKLCLRLYLNGDGTGKGTHLSLFVHVMKGEYDALLEWPFRGKITL 81 (149)
T ss_pred EEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCCCCCCEEEEEEEEeccCCCccccCCccceEEE
Confidence 58999999999752 36899999999 999999999999877667899999999876543 457999999999
Q ss_pred EEecCCCC
Q 024960 243 KIPNQYSR 250 (260)
Q Consensus 243 ~l~~q~~~ 250 (260)
+|+||.++
T Consensus 82 ~l~d~~~~ 89 (149)
T cd00270 82 TLLDQSDD 89 (149)
T ss_pred EEECCCCc
Confidence 99999873
No 24
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.59 E-value=1.6e-15 Score=139.30 Aligned_cols=136 Identities=26% Similarity=0.534 Sum_probs=109.8
Q ss_pred cCCCceEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCC-CCCCC-CcEEEEEE
Q 024960 12 SLPPADYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSN-PHPDG-TWNVNVYY 89 (260)
Q Consensus 12 ~~~~g~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~-~~~~~-~w~v~~~~ 89 (260)
+....+++|+|++|+.+.+ ...||+|.+||+.|+|.++|+|+.. ..+||||+....+ ....+ .|.|+|+|
T Consensus 35 e~~~~sftW~vk~wsel~~----k~~Sp~F~vg~~twki~lfPqG~nq----~~~sVyLe~~pqe~e~~~gk~~~ccaqF 106 (1089)
T COG5077 35 ELLEMSFTWKVKRWSELAK----KVESPPFSVGGHTWKIILFPQGNNQ----CNVSVYLEYEPQELEETGGKYYDCCAQF 106 (1089)
T ss_pred HHhhcccceecCChhhhhh----hccCCcccccCeeEEEEEecccCCc----cccEEEEEeccchhhhhcCcchhhhhhe
Confidence 3456689999999999964 5889999999999999999999862 2389999987543 11122 29999999
Q ss_pred EEEEEeCcCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCC---ceeCCEEEEEEEEEEecCCC
Q 024960 90 KLFVYDQVSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNG---YLVDDTCAFGAEVYVVKPTD 158 (260)
Q Consensus 90 ~~~l~n~~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~---yl~dD~l~i~~~V~v~~~~~ 158 (260)
.|.|-|...+...... ++.++|+....+|||.+|+.+..|..|+.| |+.+|++.|++.|+|++++.
T Consensus 107 af~Is~p~~pti~~iN---~sHhrFs~~~tDwGFt~f~dL~kl~~psp~~Ppfleeg~l~ItvyVRvlkdPT 175 (1089)
T COG5077 107 AFDISNPKYPTIEYIN---KSHHRFSMESTDWGFTNFIDLNKLIEPSPGRPPFLEEGTLVITVYVRVLKDPT 175 (1089)
T ss_pred eeecCCCCCCchhhhh---cccccccccccccchhhhhhhhhhcCCCCCCCCcccCCeEEEEEEEEEEeCCc
Confidence 9999888764433322 367899998899999999999998876655 78999999999999999864
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=99.58 E-value=1.1e-14 Score=116.95 Aligned_cols=79 Identities=18% Similarity=0.215 Sum_probs=69.2
Q ss_pred CcceEEEeCCccCcCC-----c--eeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEEE
Q 024960 171 DGNYRFNIPAFGSVGD-----T--VQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAEF 240 (260)
Q Consensus 171 ~~~~~~~i~~fs~l~~-----~--~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~f 240 (260)
.+.|.|+|.+|+.+++ + .+.|+.|.+| ||+|+|.+||||++.+.++|+|+||++..++..+ ..|++.++|
T Consensus 38 ~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w~i~~ypnG~g~~~~~~iSvyl~L~~ge~D~~L~WP~~~~~ 117 (186)
T cd03777 38 NGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQKV 117 (186)
T ss_pred ceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCCceeEEE
Confidence 5789999999998752 2 5899999999 9999999999999988889999999999876443 479999999
Q ss_pred EEEEecCCC
Q 024960 241 KFKIPNQYS 249 (260)
Q Consensus 241 ~l~l~~q~~ 249 (260)
+|+|+||.+
T Consensus 118 tfsLlDQ~~ 126 (186)
T cd03777 118 TLMLMDQGS 126 (186)
T ss_pred EEEEEcCCC
Confidence 999999964
No 26
>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=99.58 E-value=1.5e-14 Score=111.68 Aligned_cols=76 Identities=32% Similarity=0.490 Sum_probs=64.4
Q ss_pred cceEEEeCCccCcC---CceeecCceEeCCe---EEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEEEe
Q 024960 172 GNYRFNIPAFGSVG---DTVQRSSEFTVGER---NWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIP 245 (260)
Q Consensus 172 ~~~~~~i~~fs~l~---~~~~~s~~f~vgg~---~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~ 245 (260)
.+|+|+|.+||.+. .+.+.|++|.|||+ +|+|.+||+|+..+..+|+|+||++.+. ..++++|+|+|+|+
T Consensus 5 ~~~~w~I~~fS~~~~~~~~~i~S~~F~vgg~~~~~W~l~~yP~G~~~~~~~~iSlyL~l~~~----~~~~v~a~f~~~l~ 80 (139)
T cd03774 5 FCYMWTISNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDEESKDYLSLYLLLVSC----PKSEVRAKFKFSIL 80 (139)
T ss_pred EEEEEEECCchhhhhcCCCEEECCCeecCCcCCceEEEEEeCCCCCCCCCCeEEEEEEEccC----CCCcEEEEEEEEEE
Confidence 46999999999864 35789999999995 9999999999876667899999999653 23579999999999
Q ss_pred cCCCCC
Q 024960 246 NQYSRN 251 (260)
Q Consensus 246 ~q~~~~ 251 (260)
||.+..
T Consensus 81 n~~~~~ 86 (139)
T cd03774 81 NAKGEE 86 (139)
T ss_pred ecCCCe
Confidence 998654
No 27
>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=99.57 E-value=5.6e-15 Score=115.06 Aligned_cols=77 Identities=14% Similarity=0.161 Sum_probs=65.2
Q ss_pred ceEEEeCCccCcCC-----c--eeecCceEe--CCeEEEEEEEcCCCCCCCCCeEEEEEEecCCcc-CCCCCcEEEEEEE
Q 024960 173 NYRFNIPAFGSVGD-----T--VQRSSEFTV--GERNWQLVVYPAGSGADRGNFLTVSLKLADYQT-VSRKKPVYAEFKF 242 (260)
Q Consensus 173 ~~~~~i~~fs~l~~-----~--~~~s~~f~v--gg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~-~~~~~~~~~~f~l 242 (260)
.|+|+|.+|+.+++ + .+.|++|.| |||+|+|.+||+|...+..+|||+||+|.+++. ...+|++.++|+|
T Consensus 2 ~h~~~I~~yS~~~~~~~~g~~~~i~S~~F~~~~gGy~W~i~~yP~G~~~~~~~~lS~~L~l~~~~~d~~l~wpv~a~~~~ 81 (147)
T cd03776 2 IYVWKIKNFSNLRRSMEAGSPVVIHSPGFYTSPPGYKLCARLNLSLPEARCPNYISLFVHLMQGENDSHLDWPFQGTITL 81 (147)
T ss_pred EEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCCCCCCEEEEEEEEeccCCCcccCCcccceeEE
Confidence 58999999997642 1 377999985 799999999999998777889999999987654 3457999999999
Q ss_pred EEecCCC
Q 024960 243 KIPNQYS 249 (260)
Q Consensus 243 ~l~~q~~ 249 (260)
+|+||.+
T Consensus 82 ~lldq~~ 88 (147)
T cd03776 82 TLLDQSE 88 (147)
T ss_pred EEECCCc
Confidence 9999975
No 28
>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=99.55 E-value=1.7e-14 Score=112.81 Aligned_cols=84 Identities=19% Similarity=0.291 Sum_probs=74.2
Q ss_pred CcceEEEeCCccCcCC-------ceeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEEE
Q 024960 171 DGNYRFNIPAFGSVGD-------TVQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAEF 240 (260)
Q Consensus 171 ~~~~~~~i~~fs~l~~-------~~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~f 240 (260)
++.|+|+|++|+++++ ..+.|+.|..+ |++|+|.+||||++.+++.|||||+++..++.++ ..|+++.++
T Consensus 18 ~g~fiWkI~~fs~~~~~a~~~~~~~i~Sp~Fyt~~~GYk~~l~~ylnG~g~~~g~~LSly~~l~~Ge~D~~L~WPf~~~i 97 (164)
T cd03778 18 DGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFNQKV 97 (164)
T ss_pred CCEEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCeEEEEEEEeCCCCCCCCCEEEEEEEEecCCcCcccCCceeeEE
Confidence 5889999999998763 15678888875 7999999999999988889999999999999887 799999999
Q ss_pred EEEEecCCCCCccc
Q 024960 241 KFKIPNQYSRNRAG 254 (260)
Q Consensus 241 ~l~l~~q~~~~~~~ 254 (260)
+|.|+||.+++|+.
T Consensus 98 tl~llDQ~~r~hi~ 111 (164)
T cd03778 98 TLMLLDQNNREHVI 111 (164)
T ss_pred EEEEECCCCCCcce
Confidence 99999998777764
No 29
>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=99.55 E-value=2e-14 Score=112.73 Aligned_cols=78 Identities=15% Similarity=0.213 Sum_probs=67.8
Q ss_pred ceEEEeCCccCcCC-------ceeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEEEEE
Q 024960 173 NYRFNIPAFGSVGD-------TVQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAEFKF 242 (260)
Q Consensus 173 ~~~~~i~~fs~l~~-------~~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~f~l 242 (260)
.|.|+|.+|+.++. ..+.|+.|.|| ||+|+|.+||||...+.++|+|+||+|.+++..+ ..|++.++|+|
T Consensus 2 ~~~~~I~gys~~~~~~~~~~~~~i~S~~F~vg~~Gy~w~i~~yPnG~~~~~~~~vs~~l~l~~ge~d~~l~wp~~a~~~~ 81 (154)
T cd03781 2 TLLWKITDYSRKLQEAKGRDNLELFSPPFYTHRYGYKLQVSAFLNGNGSGEGSHLSVYIRVLPGEYDNLLEWPFSHRITF 81 (154)
T ss_pred EEEEEECCHHHHHHHhhcCCCceEECCCeecCCCCEEEEEEEECCCCCCCCCCEEEEEEEEecCCcccccCCceeeEEEE
Confidence 58899999988752 35789999999 9999999999999887889999999998865544 48999999999
Q ss_pred EEecCCCC
Q 024960 243 KIPNQYSR 250 (260)
Q Consensus 243 ~l~~q~~~ 250 (260)
+||||.++
T Consensus 82 ~llDq~~~ 89 (154)
T cd03781 82 TLLDQSDP 89 (154)
T ss_pred EEECCCCC
Confidence 99999754
No 30
>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=99.54 E-value=2.7e-14 Score=110.32 Aligned_cols=80 Identities=16% Similarity=0.230 Sum_probs=67.2
Q ss_pred ceEEEeCCccCcCC-------ceeecCceEeC--CeEEEEEEEcCCCCCCCCCeEEEEEEecCCccC-CCCCcEEEEEEE
Q 024960 173 NYRFNIPAFGSVGD-------TVQRSSEFTVG--ERNWQLVVYPAGSGADRGNFLTVSLKLADYQTV-SRKKPVYAEFKF 242 (260)
Q Consensus 173 ~~~~~i~~fs~l~~-------~~~~s~~f~vg--g~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~-~~~~~~~~~f~l 242 (260)
.|.|+|.+|+++++ ..+.|+.|..+ ||+|+|.+||||++.+.++|+|+||++.+++.. ...|++.++|+|
T Consensus 2 ~~~W~i~~f~~~~~~a~~~~~~~~~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wpv~~~~tf 81 (147)
T cd03779 2 TFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKVCLRLYLNGDGAGKGTHISLFFVIMKGEYDALLPWPFRHKVTF 81 (147)
T ss_pred eEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCcceEEEEEE
Confidence 58999999997652 15789999987 999999999999998888999999999876533 247899999999
Q ss_pred EEecCCCCCc
Q 024960 243 KIPNQYSRNR 252 (260)
Q Consensus 243 ~l~~q~~~~~ 252 (260)
+|+||.+..+
T Consensus 82 sLlDq~~~~~ 91 (147)
T cd03779 82 MLLDQNNREH 91 (147)
T ss_pred EEECCCCCCC
Confidence 9999975443
No 31
>smart00061 MATH meprin and TRAF homology.
Probab=99.48 E-value=2.3e-13 Score=97.45 Aligned_cols=73 Identities=21% Similarity=0.256 Sum_probs=63.3
Q ss_pred eEEEeCCccCcC-CceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEEEecCCCCCc
Q 024960 174 YRFNIPAFGSVG-DTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQYSRNR 252 (260)
Q Consensus 174 ~~~~i~~fs~l~-~~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~~q~~~~~ 252 (260)
++|++++|+.+. .+.+.|+.|.++|++|+|.+||+ ++|+|+||.+.+....+..|++.|+|+|+|+||++..+
T Consensus 2 ~~~~~~~~~~~~~~~~~~S~~f~~~g~~W~i~~~p~------~~~lsl~L~~~~~~~~~~~w~v~a~~~~~l~~~~~~~~ 75 (95)
T smart00061 2 LSHTFKNVSRLEEGESYFSPSEEHFNIPWRLKIYRK------NGFLSLYLHCEKEECDSRKWSIEAEFTLKLVSQNGKSL 75 (95)
T ss_pred ceeEEEchhhcccCceEeCChhEEcCceeEEEEEEc------CCEEEEEEEeCCCcCCCCCeEEEEEEEEEEEeCCCCEE
Confidence 579999999885 46789999999999999999999 36999999998776555689999999999999986544
No 32
>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=99.46 E-value=1.4e-12 Score=97.87 Aligned_cols=79 Identities=29% Similarity=0.521 Sum_probs=67.7
Q ss_pred ceEEEeCCccCcCCceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEEEecCCCCCc
Q 024960 173 NYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQYSRNR 252 (260)
Q Consensus 173 ~~~~~i~~fs~l~~~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~~q~~~~~ 252 (260)
.|+|+|.+|+....+.+.|+.|.++|++|+|.+||+|... ..+|+|+||++.+.......|.+.++|+|.|+||.++++
T Consensus 2 ~~~~~i~~~~~~~~~~~~S~~f~~~g~~W~l~~~p~~~~~-~~~~lsv~L~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~ 80 (126)
T cd00121 2 KHTWKIVNFSELEGESIYSPPFEVGGYKWRIRIYPNGDGE-SGDYLSLYLELDKGESDLEKWSVRAEFTLKLVNQNGGKS 80 (126)
T ss_pred EEEEEECCCCCCCCcEEECCCEEEcCEeEEEEEEcCCCCC-CCCEEEEEEEecCCCCCCCCCcEEEEEEEEEECCCCCcc
Confidence 4899999999844578899999999999999999999866 568999999998765555679999999999999984444
No 33
>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=99.22 E-value=5e-12 Score=109.68 Aligned_cols=211 Identities=24% Similarity=0.357 Sum_probs=156.3
Q ss_pred EEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEEEEEEEeCcCC
Q 024960 20 LKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQVSN 99 (260)
Q Consensus 20 w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~l~n~~~~ 99 (260)
|.|.+|+... ..++|..|..++..|++.+||.|+ +++.|+.+.... + |.+.+.+.|.+.|+...
T Consensus 8 ~~~~~~~~~~----l~~ys~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~----~-~~~~~~~~l~v~n~~~~ 71 (297)
T KOG1987|consen 8 WVISNFSSVG----LVIYSNGFVKGGCKWRLSAYPKGN-------YLSLTLSVSDSP----G-WERYAKLRLTVVNQKSE 71 (297)
T ss_pred eeeccCcchh----hhccccceeecCceEEEEEecCCC-------EEEEEEEeccCC----C-cceeEEEEEEEccCCCc
Confidence 8899988875 578999999999999999999863 688888887643 3 99999999999999987
Q ss_pred ce-eEEeccCCCceecc--CCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecCCCccceeec--------ccC
Q 024960 100 QY-LVVQDAKAPMRRFD--RRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTDSEEILSL--------VSD 168 (260)
Q Consensus 100 ~~-~~~~~~~~~~~~F~--~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~~~~~~~~~~--------i~~ 168 (260)
.. ...+. ....|. .....||+..+++...+.+++.||+.++.+.+-+.+.|++..+..+.... ...
T Consensus 72 ~~~~~~~~---~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~g~~~~~~~~~~a~~~V~~~~~~~d~~~~~~~~~~~~d~~ 148 (297)
T KOG1987|consen 72 KYLSTVEE---GFSWFRFNKVLKEWGFGKMLPLTLLIDCSNGFLVAHKLVLVARSEVFEAMGKSDVFKESSKLITLLEEK 148 (297)
T ss_pred ceeeeeee---eEEeccccccccccCcccccChHHhhcccCcEEEcCceEEEeeecceeeecccccchhccccccccccc
Confidence 55 33211 233333 23578999999999999988899999988888888888887764332211 223
Q ss_pred CCC----cceEEEeCCccCcCC----ceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccC--CCCCcEEE
Q 024960 169 PAD----GNYRFNIPAFGSVGD----TVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTV--SRKKPVYA 238 (260)
Q Consensus 169 p~~----~~~~~~i~~fs~l~~----~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~--~~~~~~~~ 238 (260)
|+. ..|+|.+.+++.... ....+..|.++++.|++.++|.|.+......++.||.+.+...+ +....+++
T Consensus 149 ~~~~~~~~~F~~~~s~~~~~~~~~~~~~~~a~~f~~~~~~lk~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~ 228 (297)
T KOG1987|consen 149 PEVLEALNGFQVLPSQVSSVERIFEKHPDLAAAFKYKNRHLKLACMPVLLSLIETLNVSQSLQEASNYDLKEAKSALTYV 228 (297)
T ss_pred hhhHhhhceEEEeccchHHHHHhhcCChhhhhccccccHHHHHHHHHHHHHHHHhhhhcccHHHhchhHHHHHHHHHHHH
Confidence 444 779999999987762 14566789999999999999999877666788899987663222 22333445
Q ss_pred EEEEEEecCCC
Q 024960 239 EFKFKIPNQYS 249 (260)
Q Consensus 239 ~f~l~l~~q~~ 249 (260)
......+|+..
T Consensus 229 ~~~~~~ld~l~ 239 (297)
T KOG1987|consen 229 IAAGFKLDWLE 239 (297)
T ss_pred HhccchHhHHH
Confidence 55555566544
No 34
>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=99.13 E-value=1.5e-10 Score=89.90 Aligned_cols=76 Identities=16% Similarity=0.125 Sum_probs=64.8
Q ss_pred cceEEEeCCccCcCC-----ceeecCceEe-CCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEE-EEEEEE
Q 024960 172 GNYRFNIPAFGSVGD-----TVQRSSEFTV-GERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVY-AEFKFK 243 (260)
Q Consensus 172 ~~~~~~i~~fs~l~~-----~~~~s~~f~v-gg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~-~~f~l~ 243 (260)
+.|.|+|++|+++++ ..+.|+.|.. .|++++|.+||||++.+ +.|||||+++..++.++ ..|++. -+.+|.
T Consensus 2 p~~iWkI~~fs~~~~~~~~~~~i~Sp~FYt~~GYkl~l~~ylnG~g~~-~~~lsl~~~lm~Ge~D~~L~WPf~~~qit~~ 80 (167)
T cd03782 2 PEHIWHIRNFTQLLATTPPNGKIYSPPFLSSTGYSFQVGLYLNGTDDY-PGNLAIYLHLTSGPNDDQLQWPCPWQQATMM 80 (167)
T ss_pred CcEEEEeCcHHHHHHhcCCCceEECCCCcCccCceeEEEEEecCCCCC-CCEEEEEEEEeccCCCccccCCCcCCeEEEE
Confidence 468999999998773 3567777765 58999999999999876 67999999999998665 599998 899999
Q ss_pred EecCC
Q 024960 244 IPNQY 248 (260)
Q Consensus 244 l~~q~ 248 (260)
||||.
T Consensus 81 LlDQ~ 85 (167)
T cd03782 81 LLDQH 85 (167)
T ss_pred EEcCC
Confidence 99995
No 35
>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=99.11 E-value=1.2e-10 Score=86.80 Aligned_cols=70 Identities=31% Similarity=0.550 Sum_probs=58.5
Q ss_pred eCCccCcCC-c-eeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEEEEEEEecCCCCC
Q 024960 178 IPAFGSVGD-T-VQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAEFKFKIPNQYSRN 251 (260)
Q Consensus 178 i~~fs~l~~-~-~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~f~l~l~~q~~~~ 251 (260)
|+||+.+.. + ...+..|.++|++|+|.+||+|+ ++++|+||+|...+... ..|++.++|+++|+++.++.
T Consensus 1 i~nfs~l~~~~~~~~s~~~~~~g~~W~l~~~~~~~----~~~l~~~L~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~ 73 (119)
T PF00917_consen 1 IKNFSKLKEGEEYSSSFVFSHGGYPWRLKVYPKGN----GKYLSVYLHCDKGENDSDLEWSIEAEFRFRLLNQNGKS 73 (119)
T ss_dssp ETTGGGHHTSEEEEEEEESSTTSEEEEEEEETTES----TTEEEEEEEEECSTTGGGSSSSEEEEEEEEEE-TTSCE
T ss_pred CcccceEeCCCcEECCCeEEECCEEEEEEEEeCCC----cCcEEEEEEEeecccccccceeeeEEEEEEEecCCCCc
Confidence 678999873 3 34568999999999999999987 47999999999876554 68999999999999997765
No 36
>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=99.09 E-value=2.8e-10 Score=88.85 Aligned_cols=77 Identities=16% Similarity=0.250 Sum_probs=65.5
Q ss_pred cceEEEeCCccCcCC-----ceeecCceEeC-CeEEEEEEEcCCCCC-CCCCeEEEEEEecCCccCC-CCCcE-EEEEEE
Q 024960 172 GNYRFNIPAFGSVGD-----TVQRSSEFTVG-ERNWQLVVYPAGSGA-DRGNFLTVSLKLADYQTVS-RKKPV-YAEFKF 242 (260)
Q Consensus 172 ~~~~~~i~~fs~l~~-----~~~~s~~f~vg-g~~w~l~~~p~G~~~-~~~~~~s~yL~~~~~~~~~-~~~~~-~~~f~l 242 (260)
+.+.|+|++|+++++ ..+.|+.|... |+++.|.+||+|++. +++.|+|||+++..++.++ ..|++ .-+.+|
T Consensus 2 p~~iWkI~nfs~~~~~a~~~~~i~Sp~Fyt~~GYk~~l~~~lng~~~~~~g~~lSl~~~lm~Ge~D~~L~WP~~~~~itl 81 (167)
T cd03783 2 PNAVWRVRNFSQILENTTKGDVLQSPRFYSPEGYGYGVSLYPLSNESDYSGNYTGLYFHLCSGENDAVLEWPALNRQAII 81 (167)
T ss_pred CceeEEECcHHHHHHhCcCCCeEECCCCccCCCceEEEEEEecCCCCCCCCCEEEEEEEEecccCCCcccCCCcCCEEEE
Confidence 458999999998763 35889999885 999999999999874 5688999999999998665 59994 569999
Q ss_pred EEecCC
Q 024960 243 KIPNQY 248 (260)
Q Consensus 243 ~l~~q~ 248 (260)
.||||.
T Consensus 82 ~llDQ~ 87 (167)
T cd03783 82 TVLDQD 87 (167)
T ss_pred EEEcCC
Confidence 999995
No 37
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=98.50 E-value=1.1e-07 Score=88.45 Aligned_cols=76 Identities=20% Similarity=0.476 Sum_probs=62.9
Q ss_pred CcceEEEeCCccCcCCceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCc--cCC-CCCcEEEEEEEEEecC
Q 024960 171 DGNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQ--TVS-RKKPVYAEFKFKIPNQ 247 (260)
Q Consensus 171 ~~~~~~~i~~fs~l~~~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~--~~~-~~~~~~~~f~l~l~~q 247 (260)
...|+|+|++++++. ++..|+.|.|||+.|.|.++|.|+++. + +|+||+....+ ... ..|.+||+|.|.|-|.
T Consensus 38 ~~sftW~vk~wsel~-~k~~Sp~F~vg~~twki~lfPqG~nq~--~-~sVyLe~~pqe~e~~~gk~~~ccaqFaf~Is~p 113 (1089)
T COG5077 38 EMSFTWKVKRWSELA-KKVESPPFSVGGHTWKIILFPQGNNQC--N-VSVYLEYEPQELEETGGKYYDCCAQFAFDISNP 113 (1089)
T ss_pred hcccceecCChhhhh-hhccCCcccccCeeEEEEEecccCCcc--c-cEEEEEeccchhhhhcCcchhhhhheeeecCCC
Confidence 356999999999986 578899999999999999999999874 2 99999886442 112 3588999999999998
Q ss_pred CCC
Q 024960 248 YSR 250 (260)
Q Consensus 248 ~~~ 250 (260)
+.+
T Consensus 114 ~~p 116 (1089)
T COG5077 114 KYP 116 (1089)
T ss_pred CCC
Confidence 763
No 38
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=98.18 E-value=2.2e-06 Score=86.15 Aligned_cols=129 Identities=22% Similarity=0.308 Sum_probs=103.2
Q ss_pred eEEEEEcCccccccccCCeeEeccEEECCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEEEEEEEEEEeC
Q 024960 17 DYSLKIESFKLLSKSTVESFESGVFKSGGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVNVYYKLFVYDQ 96 (260)
Q Consensus 17 ~~~w~I~~fs~~~~~~~~~~~S~~F~~gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~~~~~~~l~n~ 96 (260)
..+|.+.+...+. ....||.|..|+.+|++.+.|++.. ...+++|+.+...... .. |.+.+++.+.+.|.
T Consensus 28 ~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~-~~-~s~~~~~~~~v~~~ 97 (1093)
T KOG1863|consen 28 STTIDGIDDKSLL----YRALSSNFGAGATKWKILIAPKVNS----LQSTRKKLEVMPSQSL-KS-WSCGAQAVLRVKNT 97 (1093)
T ss_pred cccccCcCcchhh----hHhcCccccccccceeeeeccccCc----ccceeEEeeeccCCCC-cc-eEecchhhhccccC
Confidence 3445555444433 2567899999999999999999874 4679999999977655 33 99999999999994
Q ss_pred cCCceeEEeccCCCceeccCCCCCcccccccccccccCCCCCceeCCEEEEEEEEEEecCCC
Q 024960 97 VSNQYLVVQDAKAPMRRFDRRKTDWGFGKFLDLATFNEPSNGYLVDDTCAFGAEVYVVKPTD 158 (260)
Q Consensus 97 ~~~~~~~~~~~~~~~~~F~~~~~~~G~~~Fi~~~~L~~~~~~yl~dD~l~i~~~V~v~~~~~ 158 (260)
.+...... +...+.|.....+||+.+|+.++++.++..+|+.+|++.+++.|.+...++
T Consensus 98 ~~~~~~~~---~~~~h~~~~~~~dwg~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~~~~ 156 (1093)
T KOG1863|consen 98 IDNLPDPE---KAIHHVFTADERDWGFSCFSTSSDIRKPEDGYVRNGLEKLEKRVRVEQPTS 156 (1093)
T ss_pred CCCchhhh---hhhhhcccccccchhhccchhHhhccCcccccccccceeeeeeeeeecCCc
Confidence 44333222 236789998889999999999999999999999999999999999988775
No 39
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=97.05 E-value=0.00045 Score=62.16 Aligned_cols=83 Identities=24% Similarity=0.282 Sum_probs=67.6
Q ss_pred CCCceEEEEEcCccccccc----cCCeeEeccEEE--CCeeeEEEEeeCCCCCCCCCCcEEEEEEecCCCCCCCCCcEEE
Q 024960 13 LPPADYSLKIESFKLLSKS----TVESFESGVFKS--GGYNWKLVFYPNGKKNDGGKDHLSLYLKIDDSNPHPDGTWNVN 86 (260)
Q Consensus 13 ~~~g~~~w~I~~fs~~~~~----~~~~~~S~~F~~--gg~~W~l~~yP~G~~~~~~~~~lSv~L~l~~~~~~~~~~w~v~ 86 (260)
...|+..|+|.+|+..+.. ....+.|+.|.. .||+.+.++|-||+. .+...++|+|+.+..++..+.-.|+.+
T Consensus 277 ~~~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~lng~g-~~~~~~~s~~~~~~~ge~d~~l~wpf~ 355 (391)
T KOG0297|consen 277 SYDGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKLCARIYLNGDG-TGKGTHLSLYFVVMRGEYDALLPWPFR 355 (391)
T ss_pred ccCCEEEEEecchhhhhHHHHhccCccccccccccccccHHHHhHhhhcCCC-CCCcceeeeeeeecccCcccccccCCC
Confidence 3579999999999655432 246899999975 799999999999986 345679999999998865443349999
Q ss_pred EEEEEEEEeC
Q 024960 87 VYYKLFVYDQ 96 (260)
Q Consensus 87 ~~~~~~l~n~ 96 (260)
-+++|.+++|
T Consensus 356 ~~v~~~l~dq 365 (391)
T KOG0297|consen 356 QKVTLMLLDQ 365 (391)
T ss_pred CceEEEEecc
Confidence 9999999999
No 40
>KOG1987 consensus Speckle-type POZ protein SPOP and related proteins with TRAF, MATH and BTB/POZ domains [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=97.01 E-value=0.0032 Score=54.53 Aligned_cols=68 Identities=32% Similarity=0.606 Sum_probs=56.1
Q ss_pred eEEEeCCccCcCCceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEEEecCCCCCc
Q 024960 174 YRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPNQYSRNR 252 (260)
Q Consensus 174 ~~~~i~~fs~l~~~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~~q~~~~~ 252 (260)
++|.+.+++... ..+.+..|.+|+..|++.+||.|+ ++|.|+.+.... +|.+++++.|.+.||...+.
T Consensus 6 ~~~~~~~~~~~~-l~~ys~~~~~~~~~~~~~~~~~~~------~~~~~~~~~~~~----~~~~~~~~~l~v~n~~~~~~ 73 (297)
T KOG1987|consen 6 FTWVISNFSSVG-LVIYSNGFVKGGCKWRLSAYPKGN------YLSLTLSVSDSP----GWERYAKLRLTVVNQKSEKY 73 (297)
T ss_pred cceeeccCcchh-hhccccceeecCceEEEEEecCCC------EEEEEEEeccCC----CcceeEEEEEEEccCCCcce
Confidence 447777877764 456778899999999999999985 799999987642 79999999999999976643
No 41
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=95.87 E-value=0.0055 Score=55.24 Aligned_cols=77 Identities=18% Similarity=0.274 Sum_probs=64.6
Q ss_pred CcceEEEeCCccCcCC-------ceeecCceEe--CCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCC-CCCcEEEEE
Q 024960 171 DGNYRFNIPAFGSVGD-------TVQRSSEFTV--GERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVS-RKKPVYAEF 240 (260)
Q Consensus 171 ~~~~~~~i~~fs~l~~-------~~~~s~~f~v--gg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~-~~~~~~~~f 240 (260)
.+.+.|+|.+++.... ..+.|+.|.. .|++....+|.||++.+++-++|+|+.+..++..+ ..|++.-+.
T Consensus 279 ~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~lng~g~~~~~~~s~~~~~~~ge~d~~l~wpf~~~v 358 (391)
T KOG0297|consen 279 DGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKLCARIYLNGDGTGKGTHLSLYFVVMRGEYDALLPWPFRQKV 358 (391)
T ss_pred CCEEEEEecchhhhhHHHHhccCccccccccccccccHHHHhHhhhcCCCCCCcceeeeeeeecccCcccccccCCCCce
Confidence 5778999999965552 2456777776 48899999999999999899999999999887665 489999999
Q ss_pred EEEEecC
Q 024960 241 KFKIPNQ 247 (260)
Q Consensus 241 ~l~l~~q 247 (260)
+|.+++|
T Consensus 359 ~~~l~dq 365 (391)
T KOG0297|consen 359 TLMLLDQ 365 (391)
T ss_pred EEEEecc
Confidence 9999999
No 42
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=74.62 E-value=3.1 Score=42.83 Aligned_cols=70 Identities=16% Similarity=0.160 Sum_probs=54.7
Q ss_pred cceEEEeCCccCcCCceeecCceEeCCeEEEEEEEcCCCCCCCCCeEEEEEEecCCccCCCCCcEEEEEEEEEec
Q 024960 172 GNYRFNIPAFGSVGDTVQRSSEFTVGERNWQLVVYPAGSGADRGNFLTVSLKLADYQTVSRKKPVYAEFKFKIPN 246 (260)
Q Consensus 172 ~~~~~~i~~fs~l~~~~~~s~~f~vgg~~w~l~~~p~G~~~~~~~~~s~yL~~~~~~~~~~~~~~~~~f~l~l~~ 246 (260)
...+|...+...+. ....++.|..|+.+|++.+.|+|+. ...+++||++...... ..|.+++++.++++|
T Consensus 27 ~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~~~~~~~~~---~~~~~~~~~~~~~~~~-~~~s~~~~~~~~v~~ 96 (1093)
T KOG1863|consen 27 QSTTIDGIDDKSLL-YRALSSNFGAGATKWKILIAPKVNS---LQSTRKKLEVMPSQSL-KSWSCGAQAVLRVKN 96 (1093)
T ss_pred ccccccCcCcchhh-hHhcCccccccccceeeeeccccCc---ccceeEEeeeccCCCC-cceEecchhhhcccc
Confidence 33445555554444 3677889999999999999999984 3579999999876655 459999999999999
Done!