Query 030100
Match_columns 183
No_of_seqs 230 out of 1184
Neff 8.1
Searched_HMMs 46136
Date Fri Mar 29 08:31:21 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030100.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030100hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd03772 MATH_HAUSP Herpesvirus 99.9 1.7E-24 3.6E-29 160.1 14.1 112 67-179 2-133 (137)
2 cd03775 MATH_Ubp21p Ubiquitin- 99.9 8.4E-24 1.8E-28 155.9 12.7 107 69-177 2-134 (134)
3 cd03774 MATH_SPOP Speckle-type 99.9 2.4E-23 5.3E-28 154.2 12.2 96 80-180 41-138 (139)
4 cd03778 MATH_TRAF2 Tumor Necro 99.9 8.1E-23 1.8E-27 154.5 12.3 112 64-176 15-163 (164)
5 cd03779 MATH_TRAF1 Tumor Necro 99.9 2.4E-22 5.2E-27 150.0 12.3 110 68-177 1-147 (147)
6 cd03773 MATH_TRIM37 Tripartite 99.9 8.8E-22 1.9E-26 144.3 10.8 106 65-177 2-130 (132)
7 cd00270 MATH_TRAF_C Tumor Necr 99.9 2E-21 4.3E-26 145.3 11.9 96 80-177 40-149 (149)
8 cd03780 MATH_TRAF5 Tumor Necro 99.9 4.3E-21 9.4E-26 143.6 12.0 97 80-176 40-147 (148)
9 cd03776 MATH_TRAF6 Tumor Necro 99.9 4.1E-21 8.8E-26 143.6 10.2 101 68-177 35-147 (147)
10 cd03781 MATH_TRAF4 Tumor Necro 99.8 3.6E-20 7.8E-25 139.6 12.0 100 69-177 36-154 (154)
11 cd03777 MATH_TRAF3 Tumor Necro 99.8 5.2E-20 1.1E-24 142.5 12.8 112 65-178 36-185 (186)
12 cd00121 MATH MATH (meprin and 99.8 1.3E-19 2.9E-24 129.6 12.6 95 80-177 31-126 (126)
13 cd03771 MATH_Meprin Meprin fam 99.8 1.3E-19 2.7E-24 137.8 11.2 95 80-177 38-167 (167)
14 PF00917 MATH: MATH domain; I 99.8 2.1E-18 4.6E-23 123.1 9.9 100 65-178 19-119 (119)
15 cd03783 MATH_Meprin_Alpha Mepr 99.7 1.9E-16 4.2E-21 119.5 9.6 108 68-177 2-167 (167)
16 cd03782 MATH_Meprin_Beta Mepri 99.7 3.5E-16 7.7E-21 117.7 9.5 107 68-177 2-167 (167)
17 smart00061 MATH meprin and TRA 99.5 2.2E-13 4.8E-18 93.1 8.8 70 68-152 26-95 (95)
18 COG5077 Ubiquitin carboxyl-ter 99.1 1.2E-10 2.5E-15 104.3 6.4 112 66-180 37-172 (1089)
19 cd03772 MATH_HAUSP Herpesvirus 98.6 2.8E-08 6E-13 73.2 4.1 44 4-47 90-133 (137)
20 cd03775 MATH_Ubp21p Ubiquitin- 98.5 8.6E-08 1.9E-12 70.4 3.4 42 3-44 88-133 (134)
21 KOG1987 Speckle-type POZ prote 98.4 2E-06 4.4E-11 70.9 10.1 92 80-181 33-128 (297)
22 cd03774 MATH_SPOP Speckle-type 98.1 1.7E-06 3.7E-11 63.7 2.9 41 4-45 95-135 (139)
23 KOG1987 Speckle-type POZ prote 97.9 6.1E-09 1.3E-13 85.9 -15.1 174 5-181 84-296 (297)
24 PF00917 MATH: MATH domain; I 97.9 6.5E-06 1.4E-10 58.1 2.4 39 5-46 81-119 (119)
25 KOG1863 Ubiquitin carboxyl-ter 97.8 2.5E-05 5.4E-10 75.0 5.2 103 67-180 50-153 (1093)
26 cd03773 MATH_TRIM37 Tripartite 97.5 4.8E-05 1E-09 55.3 1.9 39 4-45 90-130 (132)
27 cd00121 MATH MATH (meprin and 97.1 0.00053 1.1E-08 48.2 3.4 39 5-45 87-126 (126)
28 KOG0297 TNF receptor-associate 96.3 0.0047 1E-07 53.3 4.3 62 64-125 276-365 (391)
29 COG5077 Ubiquitin carboxyl-ter 94.8 0.023 5E-07 52.3 2.9 43 3-45 124-169 (1089)
30 KOG1863 Ubiquitin carboxyl-ter 92.7 0.074 1.6E-06 51.7 2.4 47 3-49 108-155 (1093)
31 PRK15464 cold shock-like prote 23.3 63 0.0014 20.8 1.7 6 53-58 47-52 (70)
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=99.92 E-value=1.7e-24 Score=160.08 Aligned_cols=112 Identities=21% Similarity=0.324 Sum_probs=92.3
Q ss_pred CcEEEEEEcCccc-----------------eeeEeeCCCCC--CCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCCC
Q 030100 67 NYKHVWKIENFSK-----------------KIKLYPKGQGV--GRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVL 127 (183)
Q Consensus 67 ~~~~~W~I~nfS~-----------------~l~~yP~G~~~--~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~~ 127 (183)
.++|+|+|+|||. +|++||+|... +..++||+||+|.+... ..+|++.|+|+|+|+||.+
T Consensus 2 ~~~~~~~I~~~S~l~e~~~S~~f~vgG~~W~i~~~P~g~~~~~~~~~~lsvyL~~~~~~~-~~~w~i~a~~~~~l~~~~~ 80 (137)
T cd03772 2 EATFSFTVERFSRLSESVLSPPCFVRNLPWKIMVMPRNYPDRNPHQKSVGFFLQCNAESD-STSWSCHAQAVLRIINYKD 80 (137)
T ss_pred CcEEEEEECCcccCCCcEECCCEEECCcceEEEEEeCCCCCCCCCCCeEEEEEeeCCcCC-CCCCeEEEEEEEEEEcCCC
Confidence 4678888888887 99999999654 33589999999976433 3489999999999999985
Q ss_pred C-cccccccceeeccCCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEE
Q 030100 128 S-KHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRI 179 (183)
Q Consensus 128 ~-~~~~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~ 179 (183)
. .+......++|......|||++||+|++|.++++|||+||+|+|||+|+|-
T Consensus 81 ~~~~~~~~~~~~f~~~~~~~G~~~fi~~~~L~~~~sgyl~~D~l~Ie~~V~~~ 133 (137)
T cd03772 81 DEPSFSRRISHLFFSKENDWGFSNFMTWSEVTDPEKGFIEDDTITLEVYVQAD 133 (137)
T ss_pred CcccEEEeeeeEEcCCCCCccchheeEHHHhcCCCCCcEECCEEEEEEEEEee
Confidence 3 333444557887666899999999999998777999999999999999874
No 2
>cd03775 MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p) family, MATH domain; composed of fungal proteins with similarity to Ubp21p of fission yeast. Ubp21p is a deubiquitinating enzyme that may be involved in the regulation of the protein kinase Prp4p, which controls the formation of active spliceosomes. Members of this family are similar to human HAUSP (Herpesvirus-associated ubiquitin-specific protease) in that they contain an N-terminal MATH domain and a C-terminal catalytic protease (C19 family) domain. HAUSP is also an ubiquitin-specific protease that specifically catalyzes the deubiquitylation of p53 and MDM2. The MATH domain of HAUSP contains the binding site for p53 and MDM2. Similarly, the MATH domain of members in this family may be involved in substrate binding.
Probab=99.91 E-value=8.4e-24 Score=155.86 Aligned_cols=107 Identities=24% Similarity=0.464 Sum_probs=89.9
Q ss_pred EEEEEEcCccc-----------------eeeEeeCCCCCCCCCeEEEEEEecCCCC----CCCCCeEEEEEEEEEEcCCC
Q 030100 69 KHVWKIENFSK-----------------KIKLYPKGQGVGRGSHISVYLALADLST----ITRDSKIYVHFTLRIRDQVL 127 (183)
Q Consensus 69 ~~~W~I~nfS~-----------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~----~~~~w~i~~~f~l~ll~q~~ 127 (183)
+|+|+|+|||. +|++||+|+.. .+|+|+||++.+.+. .+++|.+.|+|+|+|+||.+
T Consensus 2 ~f~w~I~~fS~~~~~~~S~~F~vGG~~W~l~~yP~G~~~--~~~iSlyL~l~~~~~~~~~~~~~~~v~a~f~~~l~n~~~ 79 (134)
T cd03775 2 SFTWRIKNWSELEKKVHSPKFKCGGFEWRILLFPQGNSQ--TGGVSIYLEPHPEEEEKAPLDEDWSVCAQFALVISNPGD 79 (134)
T ss_pred cEEEEECCcccCCcceeCCCEEECCeeEEEEEeCCCCCC--CCeEEEEEEecCcccccccCCCCCeEEEEEEEEEEcCCC
Confidence 58999999987 99999999876 689999999976544 25789999999999999975
Q ss_pred Cc-ccccccceeeccCCCCccccceeeccccccC----CCCeeeCCEEEEEEEEE
Q 030100 128 SK-HNEKKASTWLSTSSEDWGWSTFVELSYFNKA----ENGFLMNDVCIVEAEVL 177 (183)
Q Consensus 128 ~~-~~~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~----~~gyl~nD~l~Ie~~V~ 177 (183)
+. +......++|+....+|||.+||++++|+++ .+|||+||+|+|+|.|.
T Consensus 80 ~~~~~~~~~~~~F~~~~~~wG~~~fi~~~~L~~~~~~~~~g~l~nD~l~I~~~~~ 134 (134)
T cd03775 80 PSIQLSNVAHHRFNAEDKDWGFTRFIELRKLAHRTPDKPSPFLENGELNITVYVR 134 (134)
T ss_pred CccceEccceeEeCCCCCCCChhHcccHHHHcccccCCCCceeECCEEEEEEEEC
Confidence 43 3344557899876789999999999999954 57999999999999873
No 3
>cd03774 MATH_SPOP Speckle-type POZ protein (SPOP) family, MATH domain; composed of proteins with similarity to human SPOP. SPOP was isolated as a novel antigen recognized by serum from a scleroderma patient, whose overexpression in COS cells results in a discrete speckled pattern in the nuclei. It contains an N-terminal MATH domain and a C-terminal BTB (also called POZ) domain. Together with Cul3, SPOP constitutes an ubiquitin E3 ligase which is able to ubiquitinate the PcG protein BMI1, the variant histone macroH2A1 and the death domain-associated protein Daxx. Therefore, SPOP may be involved in the regulation of these proteins and may play a role in transcriptional regulation, apoptosis and X-chromosome inactivation. Cul3 binds to the BTB domain of SPOP whereas Daxx and the macroH2A1 nonhistone region have been shown to bind to the MATH domain. Both MATH and BTB domains are necessary for the nuclear speckled accumulation of SPOP. There are many proteins, mostly uncharacterized, conta
Probab=99.90 E-value=2.4e-23 Score=154.16 Aligned_cols=96 Identities=22% Similarity=0.410 Sum_probs=79.3
Q ss_pred eeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCCCCccc--ccccceeeccCCCCccccceeecccc
Q 030100 80 KIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHN--EKKASTWLSTSSEDWGWSTFVELSYF 157 (183)
Q Consensus 80 ~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~~~~~~--~~~~~~~F~~~~~~wG~~~Fi~~~~L 157 (183)
+|++||+|...+..+|+||||++++.+ .+++.|+|+|+|+||.+.... .....+.|.. ..+|||.+||++++|
T Consensus 41 ~l~~yP~G~~~~~~~~iSlyL~l~~~~----~~~v~a~f~~~l~n~~~~~~~~~~~~~~~~f~~-~~~wG~~~fi~~~~L 115 (139)
T cd03774 41 CLRVNPKGLDEESKDYLSLYLLLVSCP----KSEVRAKFKFSILNAKGEETKAMESQRAYRFVQ-GKDWGFKKFIRRDFL 115 (139)
T ss_pred EEEEeCCCCCCCCCCeEEEEEEEccCC----CCcEEEEEEEEEEecCCCeeeeecccCcEeCCC-CCccCHHHeeeHHHh
Confidence 799999998766679999999997532 367999999999999875532 2223466763 578999999999999
Q ss_pred ccCCCCeeeCCEEEEEEEEEEEe
Q 030100 158 NKAENGFLMNDVCIVEAEVLRIS 180 (183)
Q Consensus 158 ~~~~~gyl~nD~l~Ie~~V~i~~ 180 (183)
.++.+|||+||+|+|+|+|+|++
T Consensus 116 ~~~~~g~l~dD~l~I~c~I~V~~ 138 (139)
T cd03774 116 LDEANGLLPDDKLTLFCEVSVVQ 138 (139)
T ss_pred hhhhcccccCCEEEEEEEEEEEc
Confidence 87778999999999999999985
No 4
>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=8.1e-23 Score=154.48 Aligned_cols=112 Identities=22% Similarity=0.375 Sum_probs=95.0
Q ss_pred CCCCcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEE
Q 030100 64 SASNYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIY 115 (183)
Q Consensus 64 ~~~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~ 115 (183)
...+++|+|+|+|||. +|++||+|++.+++.||||||++.+++.++ .+|++.
T Consensus 15 ~~~~g~fiWkI~~fs~~~~~a~~~~~~~i~Sp~Fyt~~~GYk~~l~~ylnG~g~~~g~~LSly~~l~~Ge~D~~L~WPf~ 94 (164)
T cd03778 15 STYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGTGRGTHLSLFFVVMKGPNDALLRWPFN 94 (164)
T ss_pred cccCCEEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCeEEEEEEEeCCCCCCCCCEEEEEEEEecCCcCcccCCcee
Confidence 4568999999999997 899999999998899999999999998877 899999
Q ss_pred EEEEEEEEcCCCCcccccccc-----eeec----cCCCCccccceeeccccccCCCCeeeCCEEEEEEEE
Q 030100 116 VHFTLRIRDQVLSKHNEKKAS-----TWLS----TSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEV 176 (183)
Q Consensus 116 ~~f~l~ll~q~~~~~~~~~~~-----~~F~----~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V 176 (183)
.+++|+|+||.+++|...... ..|. ..+.+||++.|+++++|+.+ .|||+||+|.|+|.|
T Consensus 95 ~~itl~llDQ~~r~hi~~~~~pd~~~~~f~RP~~~~n~~~G~~~Fv~l~~l~~~-~~Yv~dDtlfIk~~V 163 (164)
T cd03778 95 QKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGCPLFCPVSKXEAK-NSYVRDDAIFIKAIV 163 (164)
T ss_pred eEEEEEEECCCCCCcceeEEEcCcchHhcCCCCcccccCcCcceEEEhhHcccc-CCcccCCeEEEEEEE
Confidence 999999999987666533221 1342 23458999999999999864 699999999999987
No 5
>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=99.89 E-value=2.4e-22 Score=150.01 Aligned_cols=110 Identities=21% Similarity=0.321 Sum_probs=86.8
Q ss_pred cEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCC-CCCCeEEEEEE
Q 030100 68 YKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTI-TRDSKIYVHFT 119 (183)
Q Consensus 68 ~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~-~~~w~i~~~f~ 119 (183)
|.|.|+|.||+. +|++||||.+.+.++|+|+||++++++.. -..|++.++++
T Consensus 1 g~~~W~i~~f~~~~~~a~~~~~~~~~S~~Fyt~~~Gy~w~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wpv~~~~t 80 (147)
T cd03779 1 GTFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKVCLRLYLNGDGAGKGTHISLFFVIMKGEYDALLPWPFRHKVT 80 (147)
T ss_pred CeEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCcceEEEEE
Confidence 467888888886 99999999998778999999999876432 24799999999
Q ss_pred EEEEcCCCCcccc--ccc---ceeec----cCCCCccccceeeccccccCCCCeeeCCEEEEEEEEE
Q 030100 120 LRIRDQVLSKHNE--KKA---STWLS----TSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVL 177 (183)
Q Consensus 120 l~ll~q~~~~~~~--~~~---~~~F~----~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~ 177 (183)
|+|+||.+..+.. ... .+.|. ..+.+||+++||++++|+....+||.||+++|+|+|.
T Consensus 81 fsLlDq~~~~~~~~~~~~~~~~~~F~rP~~~~n~~~G~~~Fi~~~~Le~s~~~ylkDD~~~Irc~V~ 147 (147)
T cd03779 81 FMLLDQNNREHVIDAFRPDLSSASFQRPVSDMNVASGCPLFFPLKKLQSPKHAYCKDDTIYIKCVVD 147 (147)
T ss_pred EEEECCCCCCCCcEeecCCcccccccCcccCCCCCcchhheeEHHHhcccCCCcEeCCEEEEEEEEC
Confidence 9999997644321 111 25686 2345799999999999985334899999999999983
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=99.87 E-value=8.8e-22 Score=144.31 Aligned_cols=106 Identities=25% Similarity=0.494 Sum_probs=86.5
Q ss_pred CCCcEEEEEEcCccc--------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEc
Q 030100 65 ASNYKHVWKIENFSK--------------------KIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRD 124 (183)
Q Consensus 65 ~~~~~~~W~I~nfS~--------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~ 124 (183)
++.++++|+|+|||. +|++||+|...+.++|||+||++.++ ..|.+.++|+|+|+|
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 456778899988885 99999999887678999999998763 236788999999999
Q ss_pred CC-CCcccccccceeeccCCCCccccceeeccccccCCCCeeeC--CEEEEEEEEE
Q 030100 125 QV-LSKHNEKKASTWLSTSSEDWGWSTFVELSYFNKAENGFLMN--DVCIVEAEVL 177 (183)
Q Consensus 125 q~-~~~~~~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~~~gyl~n--D~l~Ie~~V~ 177 (183)
|. ..++......++|.. ..+|||.+||++++|++ +|||+| |+|+|+|.|.
T Consensus 78 q~~~~~~~~~~~~~~f~~-~~~wG~~~Fi~~~~L~~--~gfl~~~~D~l~i~~~v~ 130 (132)
T cd03773 78 QANPTKNIKREFASDFEV-GECWGYNRFFRLDLLIN--EGYLLPENDTLILRFSVR 130 (132)
T ss_pred CCCCccceEEeccccccC-CCCcCHHHhccHHHHhh--CCCcCCCCCEEEEEEEEe
Confidence 94 333444455677864 56899999999999974 799999 9999999985
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=99.87 E-value=2e-21 Score=145.28 Aligned_cols=96 Identities=24% Similarity=0.425 Sum_probs=76.0
Q ss_pred eeeEeeCCCCCCCCCeEEEEEEecCCCCC-CCCCeEEEEEEEEEEcCCCC---cccccc-----cceeec-----cCCCC
Q 030100 80 KIKLYPKGQGVGRGSHISVYLALADLSTI-TRDSKIYVHFTLRIRDQVLS---KHNEKK-----ASTWLS-----TSSED 145 (183)
Q Consensus 80 ~l~~yP~G~~~~~~~~lSlyL~l~~~~~~-~~~w~i~~~f~l~ll~q~~~---~~~~~~-----~~~~F~-----~~~~~ 145 (183)
+|++||+|...+.++||||||++.+++.. ..+|++.++|+|+|+||.++ ++.... ..+.|. .+..+
T Consensus 40 ~i~~yP~G~~~~~~~~lsl~L~l~~~~~d~~~~w~~~~~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~~~ 119 (149)
T cd00270 40 CLRLYLNGDGTGKGTHLSLFVHVMKGEYDALLEWPFRGKITLTLLDQSDDSKRKHITETFMPDPNSSAFQRPPTGENNIG 119 (149)
T ss_pred EEEEEeCCCCCCCCCEEEEEEEEeccCCCccccCCccceEEEEEECCCCccccCceEEEEEcCCchHhhcCCCcccCCCC
Confidence 89999999977667899999999876543 36799999999999999873 222111 123454 13478
Q ss_pred ccccceeeccccccCCCCeeeCCEEEEEEEEE
Q 030100 146 WGWSTFVELSYFNKAENGFLMNDVCIVEAEVL 177 (183)
Q Consensus 146 wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~ 177 (183)
|||.+||++++|++ .|||+||+|+|+|+|.
T Consensus 120 ~G~~~fi~~~~L~~--~gfl~dD~l~I~~~v~ 149 (149)
T cd00270 120 FGYPEFVPLEKLES--RGYVKDDTLFIKVEVD 149 (149)
T ss_pred cCcceEeEHHHhcc--CCCEeCCEEEEEEEEC
Confidence 99999999999985 5899999999999984
No 8
>cd03780 MATH_TRAF5 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF5 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF5 was identified as an activator of nuclear factor-kappaB and a regulator of lymphotoxin-beta receptor and CD40 signaling. Its interaction with CD40 is indirect, involving hetero-oligomerization with TRAF3. In addition, TRAF5 has been shown to associate with other TNFRs including CD27, CD30, OX40 and GITR (glucocorticoid-induced TNFR). It plays a role in modulating Th2 immune responses (driven by OX40 costimulation) and T-cell activation (triggered by GITR). It is also involved in osteoclastogenesis. TRAF5 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more dive
Probab=99.86 E-value=4.3e-21 Score=143.60 Aligned_cols=97 Identities=24% Similarity=0.326 Sum_probs=78.2
Q ss_pred eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEEEEEEEEEEcCCCCc-cc--cc---ccceeeccC----CCCccc
Q 030100 80 KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIYVHFTLRIRDQVLSK-HN--EK---KASTWLSTS----SEDWGW 148 (183)
Q Consensus 80 ~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~~~f~l~ll~q~~~~-~~--~~---~~~~~F~~~----~~~wG~ 148 (183)
+|++||||...+.++|||+||++++++.++ ..|++.++++|+|+||.+.. +. .. ...+.|... +.+||+
T Consensus 40 ~i~~ypnG~~~~~~~~iSv~l~l~~g~~D~~l~wp~~~~~tfsLlDq~~~~~~~~~~~~~~~~~~~F~rp~~~~n~~~G~ 119 (148)
T cd03780 40 CARAYLNGDGSGKGTHLSLYFVVMRGEFDSLLQWPFRQRVTLMLLDQSGKKNHIMETFKADPNSSSFKRPDGEMNIASGC 119 (148)
T ss_pred EEEEEcCCCCCCCCCEEEEEEEEecCccccccCcceEEEEEEEEECCCCCCCCcceeeecCCccccccCCCCCCCCCcCh
Confidence 999999999887889999999999865543 57999999999999997533 21 11 113557643 457999
Q ss_pred cceeeccccccCCCCeeeCCEEEEEEEE
Q 030100 149 STFVELSYFNKAENGFLMNDVCIVEAEV 176 (183)
Q Consensus 149 ~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V 176 (183)
++||++++|+.++.+||.||+++|+|.|
T Consensus 120 ~~Fi~~~~Le~s~~~ylkdD~~~Ik~~v 147 (148)
T cd03780 120 PRFVAHSVLENAKNTYIKDDTLFLKVAV 147 (148)
T ss_pred hheeEHHHhhcccCCcCcCCEEEEEEEE
Confidence 9999999998644689999999999987
No 9
>cd03776 MATH_TRAF6 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF6 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF6, including the Drosophila protein DTRAF2. TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF6 is the most divergent in its TRAF domain among the mammalian TRAFs. In addition to mediating TNFR family signaling, it is also an essential signaling molecule of the interleukin-1/Toll-like receptor superfamily. Whereas other TRAF molecules display similar and overlapping TNFR-binding specificities, TRAF6 binds completely different sites on receptors such as CD40 and RANK. TRAF6 serves as a molecular bridge between innate and adaptive immunity and plays a central role in osteoimmunology. DTRAF2, as an activator of nuclear factor-kapp
Probab=99.85 E-value=4.1e-21 Score=143.63 Aligned_cols=101 Identities=18% Similarity=0.176 Sum_probs=79.9
Q ss_pred cEEEEEEcCccceeeEeeCCCCCCCCCeEEEEEEecCCCC-CCCCCeEEEEEEEEEEcCCCCc-ccc-----cccceeec
Q 030100 68 YKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLST-ITRDSKIYVHFTLRIRDQVLSK-HNE-----KKASTWLS 140 (183)
Q Consensus 68 ~~~~W~I~nfS~~l~~yP~G~~~~~~~~lSlyL~l~~~~~-~~~~w~i~~~f~l~ll~q~~~~-~~~-----~~~~~~F~ 140 (183)
+.|.| +|++||+|...+..+|||+||++.+.+. ...+|++.++++|+|+||.+.. +.. ......|.
T Consensus 35 gGy~W-------~i~~yP~G~~~~~~~~lS~~L~l~~~~~d~~l~wpv~a~~~~~lldq~~~~~~~~~~~~~~~~~~~F~ 107 (147)
T cd03776 35 PGYKL-------CARLNLSLPEARCPNYISLFVHLMQGENDSHLDWPFQGTITLTLLDQSEPRQNIHETMMSKPELLAFQ 107 (147)
T ss_pred CCceE-------EEEEEeCCCCCCCCCEEEEEEEEeccCCCcccCCcccceeEEEEECCCcccCccEEEEEcCCChHhhc
Confidence 46777 9999999998777899999999987654 2357999999999999998632 211 12234565
Q ss_pred c-----CCCCccccceeeccccccCCCCeeeCCEEEEEEEEE
Q 030100 141 T-----SSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVL 177 (183)
Q Consensus 141 ~-----~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~ 177 (183)
. +..+|||.+||++++|+. .+||+||+|+|+|+|.
T Consensus 108 ~p~~~~~~~~~G~~~fi~~~~Le~--~~yl~dD~l~I~c~V~ 147 (147)
T cd03776 108 RPTTDRNPKGFGYVEFAHIEDLLQ--RGFVKNDTLLIKIEVN 147 (147)
T ss_pred CCCcCCCCCCeeEceeeEHHHhhh--CCCccCCEEEEEEEEC
Confidence 3 346899999999999985 5899999999999984
No 10
>cd03781 MATH_TRAF4 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF4 subfamily, TRAF domain, C-terminal MATH subdomain; composed of proteins with similarity to human TRAF4, including the Drosophila protein DTRAF1. TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF4 is highly expressed during embryogenesis, especially in the central and peripheral nervous system. Studies using TRAF4-deficient mice show that TRAF4 is required for neurogenesis, as well as the development of the trachea and the axial skeleton. In addition, TRAF4 augments nuclear factor-kappaB activation triggered by GITR (glucocorticoid-induced TNFR), a receptor expressed in T-cells, B-cells and macrophages. It also participates in counteracting the signaling mediated by Toll-like receptors through its association with TRAF6 and TR
Probab=99.84 E-value=3.6e-20 Score=139.63 Aligned_cols=100 Identities=20% Similarity=0.318 Sum_probs=79.2
Q ss_pred EEEEEEcCccceeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEEEEEEEEEEcCCCC--c---cccc-----ccce
Q 030100 69 KHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIYVHFTLRIRDQVLS--K---HNEK-----KAST 137 (183)
Q Consensus 69 ~~~W~I~nfS~~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~~~f~l~ll~q~~~--~---~~~~-----~~~~ 137 (183)
.|.| +|++||+|...+.++|+|+||++++++..+ ..|++.++++|+|+||.++ . +... ....
T Consensus 36 Gy~w-------~i~~yPnG~~~~~~~~vs~~l~l~~ge~d~~l~wp~~a~~~~~llDq~~~~~~~~~~~~~~~~~~~~~~ 108 (154)
T cd03781 36 GYKL-------QVSAFLNGNGSGEGSHLSVYIRVLPGEYDNLLEWPFSHRITFTLLDQSDPSLSKPQHITETFTPDPTWK 108 (154)
T ss_pred CEEE-------EEEEECCCCCCCCCCEEEEEEEEecCCcccccCCceeeEEEEEEECCCCCccccCcceEEEEEcCCchh
Confidence 7788 999999999887789999999999865543 4899999999999999764 1 1111 1123
Q ss_pred eecc--------CCCCccccceeeccccccCCCCeeeCCEEEEEEEEE
Q 030100 138 WLST--------SSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVL 177 (183)
Q Consensus 138 ~F~~--------~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~ 177 (183)
.|.. ++.+||+.+||++++|+. +|||+||+++|||+|.
T Consensus 109 ~F~rp~~~~~~~~~~~~G~~~fi~~~~Le~--~~yl~dD~l~Irc~v~ 154 (154)
T cd03781 109 NFQKPSASRLDESTLGFGYPKFISHEDLKK--RNYIKDDAIFLRASVE 154 (154)
T ss_pred hhcCCcccccCCCCCccchhHeeEHHHHhh--CCcccCCEEEEEEEeC
Confidence 4542 345799999999999984 7899999999999983
No 11
>cd03777 MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF3 was first described as a molecule that binds the cytoplasmic tail of CD40. However, it is not required for CD40 signaling. More recently, TRAF3 has been identified as a key regulator of type I interferon (IFN) production and the mammalian innate antiviral immunity. It mediates IFN responses in Toll-like receptor (TLR)-dependent as well as TLR-independent viral recognition pathways. It is also a key element in immunological homeostasis through its regulation of the anti-inflammatory cytokine interleukin-10. TRAF3 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more divergent N-terminal al
Probab=99.84 E-value=5.2e-20 Score=142.46 Aligned_cols=112 Identities=21% Similarity=0.359 Sum_probs=88.7
Q ss_pred CCCcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEEE
Q 030100 65 ASNYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIYV 116 (183)
Q Consensus 65 ~~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~~ 116 (183)
..+|.|.|+|.+||. +|++||||.+.+.++|||+||++++++..+ ..|++.+
T Consensus 36 ~~~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w~i~~ypnG~g~~~~~~iSvyl~L~~ge~D~~L~WP~~~ 115 (186)
T cd03777 36 SYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQ 115 (186)
T ss_pred ccceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeEEEEEEcCCCCCCCCCEEEEEEEEecCCcccccCCceeE
Confidence 457888888888886 899999999987889999999999865432 4799999
Q ss_pred EEEEEEEcCCCC-cccc-----cccceeec-cC---CCCccccceeeccccccCCCCeeeCCEEEEEEEEEE
Q 030100 117 HFTLRIRDQVLS-KHNE-----KKASTWLS-TS---SEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLR 178 (183)
Q Consensus 117 ~f~l~ll~q~~~-~~~~-----~~~~~~F~-~~---~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i 178 (183)
+++|+|+||.+. .+.. ......|. +. +.+||+++||++++|+. ++||.||+++|+|.|..
T Consensus 116 ~~tfsLlDQ~~~~~~~~~~~~p~p~~~~F~rp~~~~n~~~G~~~Fi~~~~Le~--~~ylkdD~l~Irv~v~~ 185 (186)
T cd03777 116 KVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLEN--GTYIKDDTIFIKVIVDT 185 (186)
T ss_pred EEEEEEEcCCCccccccceeccCCccccccCCccCCCCCCCchheeEHHHhcc--CCcEeCCEEEEEEEEec
Confidence 999999999742 1211 11234576 22 35799999999999984 78999999999999863
No 12
>cd00121 MATH MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane and are capable of cleaving growth factors, extracellular matrix proteins, and biologically active peptides. TRAF molecules serve as adapter proteins that link cell surface receptors of the Tumor Necrosis Factor and 1nterleukin-1/Toll-like families to downstream kinase cascades, which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. Other members include the ubiquitin ligases, TRIM37 and SPOP, and the ubiquitin-specific proteases, HAUSP and Ubp21p. A large number of uncharacterized members mostly from lineage-specific expansions in C. elegans and rice contain MATH and BTB domains, similar to SPOP. The MATH doma
Probab=99.83 E-value=1.3e-19 Score=129.58 Aligned_cols=95 Identities=25% Similarity=0.471 Sum_probs=78.1
Q ss_pred eeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCCCCcccccccceeec-cCCCCccccceeeccccc
Q 030100 80 KIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLS-TSSEDWGWSTFVELSYFN 158 (183)
Q Consensus 80 ~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~~~~~~~~~~~~~F~-~~~~~wG~~~Fi~~~~L~ 158 (183)
+|++||+|... ..+|||+||+|.+.......|++.++++|+|++|+++++......+.|. ....+|||.+||++++|+
T Consensus 31 ~l~~~p~~~~~-~~~~lsv~L~~~~~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~G~~~fi~~~~l~ 109 (126)
T cd00121 31 RIRIYPNGDGE-SGDYLSLYLELDKGESDLEKWSVRAEFTLKLVNQNGGKSLSKSFTHVFFSEKGSGWGFPKFISWDDLE 109 (126)
T ss_pred EEEEEcCCCCC-CCCEEEEEEEecCCCCCCCCCcEEEEEEEEEECCCCCccceEeccCCcCCCCCCCCChHHeeEHHHhc
Confidence 99999999866 5689999999987655456799999999999999865655555555553 456899999999999999
Q ss_pred cCCCCeeeCCEEEEEEEEE
Q 030100 159 KAENGFLMNDVCIVEAEVL 177 (183)
Q Consensus 159 ~~~~gyl~nD~l~Ie~~V~ 177 (183)
++ ++++||+|+|+|+|.
T Consensus 110 ~~--~~~~~d~l~i~~~v~ 126 (126)
T cd00121 110 DS--YYLVDDSLTIEVEVK 126 (126)
T ss_pred cC--CcEECCEEEEEEEEC
Confidence 74 349999999999984
No 13
>cd03771 MATH_Meprin Meprin family, MATH domain; Meprins are multidomain, highly glycosylated extracellular metalloproteases, which are either anchored to the membrane or secreted into extracellular spaces. They are expressed in renal and intestinal brush border membranes, leukocytes, and cancer cells, and are capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. Meprin proteases are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. Despite their similarity, the two subunits differ in their ability to self-associate, in proteolytic processing during biosynthesis and in substrate specificity. Both subunits are synthesized as membrane spanning proteins, however, the alpha subunit is cleaved during biosynthesis and loses its transmembrane domain. Meprin beta forms homodimers or heterotetramers while meprin alpha oligomerizes into large complexes co
Probab=99.82 E-value=1.3e-19 Score=137.82 Aligned_cols=95 Identities=21% Similarity=0.340 Sum_probs=72.2
Q ss_pred eeeEeeCCCCCCCCCeEEEEEEecCCCCC-CCCCe-EEEEEEEEEEcCCC--C--ccccc-----c---c----------
Q 030100 80 KIKLYPKGQGVGRGSHISVYLALADLSTI-TRDSK-IYVHFTLRIRDQVL--S--KHNEK-----K---A---------- 135 (183)
Q Consensus 80 ~l~~yP~G~~~~~~~~lSlyL~l~~~~~~-~~~w~-i~~~f~l~ll~q~~--~--~~~~~-----~---~---------- 135 (183)
+|++||+|+.. .++||||||++.+++.. ..+|+ +.++++|+|+||.. . .+... . .
T Consensus 38 ~I~~YPnG~~~-~~~~lSlyL~L~~g~~d~~L~WP~v~a~~t~~LlDQ~~~~~~r~~~~~~~~~dp~~~~~~~~~~~~~r 116 (167)
T cd03771 38 QVGLYPNGTES-YPGYTGLYFHLCSGENDDVLEWPCPNRQATMTLLDQDPDIQQRMSNQRSFTTDPSMTSSDNGEYFWDR 116 (167)
T ss_pred EEEEEeCCCCC-CCCcceEEEEEecCCccccccCcceeEEEEEEEECCCCcccccCcceEEEecCCcccccccccccccC
Confidence 99999999988 78999999999876553 36799 58999999999973 1 12111 0 0
Q ss_pred ----ceeecc-------CCCCccccceeeccccccCCCCeeeCCEEEEEEEEE
Q 030100 136 ----STWLST-------SSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVL 177 (183)
Q Consensus 136 ----~~~F~~-------~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~ 177 (183)
..+... ++.+|||++||++++|+. .+||+||+|.|+++++
T Consensus 117 P~~~~~~~~~~~~~~~~~~~g~G~~~Fis~~~L~~--r~ylk~dtl~i~~~~~ 167 (167)
T cd03771 117 PSKVGSYDTDTNGCTCYRGPGYGWSTFISHSRLRR--RDFLKGDDLIILLDFE 167 (167)
T ss_pred CccccccccccccccccccCccccccceeHHHhcc--CCCCcCCEEEEEEEeC
Confidence 011221 235899999999999995 5699999999999874
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=99.77 E-value=2.1e-18 Score=123.11 Aligned_cols=100 Identities=28% Similarity=0.489 Sum_probs=81.6
Q ss_pred CCCcEEEEEEcCccceeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEEEEEEEEEEcCCCCcccccccceeeccCC
Q 030100 65 ASNYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSS 143 (183)
Q Consensus 65 ~~~~~~~W~I~nfS~~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~~~f~l~ll~q~~~~~~~~~~~~~F~~~~ 143 (183)
...+.+.| +|.+||+|+ ++++|+||+|..++... .+|++.++++++|+++.+.........+.|.. .
T Consensus 19 ~~~~g~~W-------~l~~~~~~~----~~~l~~~L~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~~~~~~~~~F~~-~ 86 (119)
T PF00917_consen 19 FSHGGYPW-------RLKVYPKGN----GKYLSVYLHCDKGENDSDLEWSIEAEFRFRLLNQNGKSISKRIKSHSFNN-P 86 (119)
T ss_dssp SSTTSEEE-------EEEEETTES----TTEEEEEEEEECSTTGGGSSSSEEEEEEEEEE-TTSCEEEEEEECEEECT-T
T ss_pred EEECCEEE-------EEEEEeCCC----cCcEEEEEEEeecccccccceeeeEEEEEEEecCCCCcceeeeeeeEEee-e
Confidence 34567899 999999988 57999999999876544 68999999999999998866322112477864 5
Q ss_pred CCccccceeeccccccCCCCeeeCCEEEEEEEEEE
Q 030100 144 EDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLR 178 (183)
Q Consensus 144 ~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i 178 (183)
.+|||.+||++++|.++. |++||+|+|+|+|+|
T Consensus 87 ~~~g~~~fi~~~~l~~~~--fl~dd~l~ie~~v~I 119 (119)
T PF00917_consen 87 SSWGWSSFISWEDLEDPY--FLVDDSLTIEVEVKI 119 (119)
T ss_dssp SEEEEEEEEEHHHHTTCT--TSBTTEEEEEEEEEE
T ss_pred cccchhheeEHHHhCccC--CeECCEEEEEEEEEC
Confidence 899999999999999753 899999999999987
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=99.68 E-value=1.9e-16 Score=119.54 Aligned_cols=108 Identities=23% Similarity=0.385 Sum_probs=83.4
Q ss_pred cEEEEEEcCccc------------------------eeeEeeCCCCC-CCCCeEEEEEEecCCCCCC-CCCeE-EEEEEE
Q 030100 68 YKHVWKIENFSK------------------------KIKLYPKGQGV-GRGSHISVYLALADLSTIT-RDSKI-YVHFTL 120 (183)
Q Consensus 68 ~~~~W~I~nfS~------------------------~l~~yP~G~~~-~~~~~lSlyL~l~~~~~~~-~~w~i-~~~f~l 120 (183)
+.++|+|.||+. ++++||+|+.. +.+.|+|||+++.+++.+. ..|++ .-+++|
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 458899999987 89999999874 6688999999999988754 78995 569999
Q ss_pred EEEcCCC----Cccccc--------cc-----ceeecc--------------CCCCccccceeeccccccCCCCeeeCCE
Q 030100 121 RIRDQVL----SKHNEK--------KA-----STWLST--------------SSEDWGWSTFVELSYFNKAENGFLMNDV 169 (183)
Q Consensus 121 ~ll~q~~----~~~~~~--------~~-----~~~F~~--------------~~~~wG~~~Fi~~~~L~~~~~gyl~nD~ 169 (183)
.|+||+. ..|... .. ...|.+ ++.++||++||++++|+. .+||.||+
T Consensus 82 ~llDQ~~~~~~r~~~~~sf~~d~~~~~~~~~~~~~f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~~--r~yikdDt 159 (167)
T cd03783 82 TVLDQDPDVRLRMSSSRSFTTDKSQTSSAINGTLRWDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLRR--RSFLKNDD 159 (167)
T ss_pred EEEcCCcchhhccccceeeecCCCcccccccccccccCCcccccccccccccCCcccccccceeHHHHhh--CCcccCCe
Confidence 9999963 112210 10 011332 235899999999999985 78999999
Q ss_pred EEEEEEEE
Q 030100 170 CIVEAEVL 177 (183)
Q Consensus 170 l~Ie~~V~ 177 (183)
|.|.++++
T Consensus 160 lfI~~~~~ 167 (167)
T cd03783 160 LIIFVDFE 167 (167)
T ss_pred EEEEEecC
Confidence 99998863
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=99.67 E-value=3.5e-16 Score=117.68 Aligned_cols=107 Identities=20% Similarity=0.304 Sum_probs=84.6
Q ss_pred cEEEEEEcCccc------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEE-EEEEEE
Q 030100 68 YKHVWKIENFSK------------------------KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIY-VHFTLR 121 (183)
Q Consensus 68 ~~~~W~I~nfS~------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~-~~f~l~ 121 (183)
+.|+|+|.||+. ++++||||++.+ ++|||||+++.+++.+. ..|++. -+++|.
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 468999999998 899999999876 68999999999988754 789998 899999
Q ss_pred EEcCCC----Cccccc--c------cc--eee--ccC-----------------CCCccccceeeccccccCCCCeeeCC
Q 030100 122 IRDQVL----SKHNEK--K------AS--TWL--STS-----------------SEDWGWSTFVELSYFNKAENGFLMND 168 (183)
Q Consensus 122 ll~q~~----~~~~~~--~------~~--~~F--~~~-----------------~~~wG~~~Fi~~~~L~~~~~gyl~nD 168 (183)
|+||+. ..|... + .. ..| .+. +.++||+.||++++|+. +.||.||
T Consensus 81 LlDQ~~d~~~r~~~~~~~t~~P~~~s~~n~~f~w~rP~kvg~~~~~~~~~~~~r~~~~G~~~Fish~~L~~--r~yikdD 158 (167)
T cd03782 81 LLDQHPDIRQRMSNQRSVTTDPNMTSTDSDEYFWDDPRKVGSEVTDTDGSTFYRGPGYGTSAFITHLRLRS--RDFIKGD 158 (167)
T ss_pred EEcCCCchhhccceeeeEEecCCcccccCccceecCCcccCcccccccccccccccccCccceeeHHHHhh--cCcccCC
Confidence 999963 123211 0 01 124 221 46899999999999985 7799999
Q ss_pred EEEEEEEEE
Q 030100 169 VCIVEAEVL 177 (183)
Q Consensus 169 ~l~Ie~~V~ 177 (183)
++.|-++++
T Consensus 159 ~ifi~~~~e 167 (167)
T cd03782 159 DVIFLLTME 167 (167)
T ss_pred eEEEEEecC
Confidence 999988763
No 17
>smart00061 MATH meprin and TRAF homology.
Probab=99.48 E-value=2.2e-13 Score=93.10 Aligned_cols=70 Identities=27% Similarity=0.519 Sum_probs=57.5
Q ss_pred cEEEEEEcCccceeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCCCCcccccccceeeccCCCCcc
Q 030100 68 YKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKHNEKKASTWLSTSSEDWG 147 (183)
Q Consensus 68 ~~~~W~I~nfS~~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~~~~~~~~~~~~~F~~~~~~wG 147 (183)
+.+.| +|++||+ ++|||+||+|.+....+.+|++.|+++|+|++|++..+ .....+.|.. ..+||
T Consensus 26 ~g~~W-------~i~~~p~------~~~lsl~L~~~~~~~~~~~w~v~a~~~~~l~~~~~~~~-~~~~~~~F~~-~~~~G 90 (95)
T smart00061 26 FNIPW-------RLKIYRK------NGFLSLYLHCEKEECDSRKWSIEAEFTLKLVSQNGKSL-SKKDKHVFEK-PSGWG 90 (95)
T ss_pred cCcee-------EEEEEEc------CCEEEEEEEeCCCcCCCCCeEEEEEEEEEEEeCCCCEE-eeeeeEEEcC-CCccc
Confidence 55667 9999998 57999999998776555589999999999999987655 3455678875 78999
Q ss_pred cccee
Q 030100 148 WSTFV 152 (183)
Q Consensus 148 ~~~Fi 152 (183)
|.+||
T Consensus 91 ~~~fi 95 (95)
T smart00061 91 FSKFI 95 (95)
T ss_pred eeeEC
Confidence 99986
No 18
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.11 E-value=1.2e-10 Score=104.34 Aligned_cols=112 Identities=23% Similarity=0.466 Sum_probs=91.0
Q ss_pred CCcEEEEEEcCccc-----------------eeeEeeCCCCCCCCCeEEEEEEecCCCC--CC-CCCeEEEEEEEEEEcC
Q 030100 66 SNYKHVWKIENFSK-----------------KIKLYPKGQGVGRGSHISVYLALADLST--IT-RDSKIYVHFTLRIRDQ 125 (183)
Q Consensus 66 ~~~~~~W~I~nfS~-----------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~--~~-~~w~i~~~f~l~ll~q 125 (183)
....|+|+|++||. +|.++|+|+... + .|+||+....+. .. ..|.+.|+|.+.|-++
T Consensus 37 ~~~sftW~vk~wsel~~k~~Sp~F~vg~~twki~lfPqG~nq~--~-~sVyLe~~pqe~e~~~gk~~~ccaqFaf~Is~p 113 (1089)
T COG5077 37 LEMSFTWKVKRWSELAKKVESPPFSVGGHTWKIILFPQGNNQC--N-VSVYLEYEPQELEETGGKYYDCCAQFAFDISNP 113 (1089)
T ss_pred hhcccceecCChhhhhhhccCCcccccCeeEEEEEecccCCcc--c-cEEEEEeccchhhhhcCcchhhhhheeeecCCC
Confidence 34568999999988 899999998763 2 999999875431 11 3599999999999998
Q ss_pred CCCc-ccccccceeeccCCCCccccceeeccccccCCCC---eeeCCEEEEEEEEEEEe
Q 030100 126 VLSK-HNEKKASTWLSTSSEDWGWSTFVELSYFNKAENG---FLMNDVCIVEAEVLRIS 180 (183)
Q Consensus 126 ~~~~-~~~~~~~~~F~~~~~~wG~~~Fi~~~~L~~~~~g---yl~nD~l~Ie~~V~i~~ 180 (183)
..+. ....++.|+|+....+|||.+|+.+..|..|+.| |+.++++.|.|.|.|++
T Consensus 114 ~~pti~~iN~sHhrFs~~~tDwGFt~f~dL~kl~~psp~~Ppfleeg~l~ItvyVRvlk 172 (1089)
T COG5077 114 KYPTIEYINKSHHRFSMESTDWGFTNFIDLNKLIEPSPGRPPFLEEGTLVITVYVRVLK 172 (1089)
T ss_pred CCCchhhhhcccccccccccccchhhhhhhhhhcCCCCCCCCcccCCeEEEEEEEEEEe
Confidence 6643 2344667899988899999999999999987666 78899999999999986
No 19
>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=98.65 E-value=2.8e-08 Score=73.19 Aligned_cols=44 Identities=25% Similarity=0.542 Sum_probs=40.2
Q ss_pred ceeccCCccccCccceeccccccCCCCCeEEcceEEEeEEEEEe
Q 030100 4 ERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLVK 47 (183)
Q Consensus 4 ~~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~i~ 47 (183)
.|+|+.....|||.+||+|++|.++++|||+||+|+++++|.|.
T Consensus 90 ~~~f~~~~~~~G~~~fi~~~~L~~~~sgyl~~D~l~Ie~~V~~~ 133 (137)
T cd03772 90 SHLFFSKENDWGFSNFMTWSEVTDPEKGFIEDDTITLEVYVQAD 133 (137)
T ss_pred eeEEcCCCCCccchheeEHHHhcCCCCCcEECCEEEEEEEEEee
Confidence 46898888899999999999999999999999999999999854
No 20
>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=98.51 E-value=8.6e-08 Score=70.38 Aligned_cols=42 Identities=24% Similarity=0.502 Sum_probs=38.0
Q ss_pred cceeccCCccccCccceeccccccCC----CCCeEEcceEEEeEEE
Q 030100 3 KERRFHVLKLEWGFDQFIPLEEFNDA----SNGYLVGDTCVFGAEV 44 (183)
Q Consensus 3 ~~~~f~~~~~~~G~~~~i~~~~l~~~----~~gyl~~d~~~~~~~v 44 (183)
..|+|+.....|||.+||++++|.+| ++|||+||++++.|+|
T Consensus 88 ~~~~F~~~~~~wG~~~fi~~~~L~~~~~~~~~g~l~nD~l~I~~~~ 133 (134)
T cd03775 88 AHHRFNAEDKDWGFTRFIELRKLAHRTPDKPSPFLENGELNITVYV 133 (134)
T ss_pred ceeEeCCCCCCCChhHcccHHHHcccccCCCCceeECCEEEEEEEE
Confidence 46899988899999999999999965 7899999999999887
No 21
>KOG1987 consensus Speckle-type POZ protein SPOP and related proteins with TRAF, MATH and BTB/POZ domains [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=98.43 E-value=2e-06 Score=70.88 Aligned_cols=92 Identities=22% Similarity=0.463 Sum_probs=69.2
Q ss_pred eeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCCCCcc-ccc-ccceeeccC--CCCccccceeecc
Q 030100 80 KIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSKH-NEK-KASTWLSTS--SEDWGWSTFVELS 155 (183)
Q Consensus 80 ~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~~~~~-~~~-~~~~~F~~~--~~~wG~~~Fi~~~ 155 (183)
++.+||+|+ ++++|+.+.... +|.+++.+.|.+.||....+ ... ....+|..+ ...||+...++..
T Consensus 33 ~~~~~~~~~------~~~~~~~~~~~~----~~~~~~~~~l~v~n~~~~~~~~~~~~~~~~~~~~~~~~~~g~~~~~~~~ 102 (297)
T KOG1987|consen 33 RLSAYPKGN------YLSLTLSVSDSP----GWERYAKLRLTVVNQKSEKYLSTVEEGFSWFRFNKVLKEWGFGKMLPLT 102 (297)
T ss_pred EEEEecCCC------EEEEEEEeccCC----CcceeEEEEEEEccCCCcceeeeeeeeEEeccccccccccCcccccChH
Confidence 555555543 678888776532 79999999999999987644 333 345555544 4799999999999
Q ss_pred ccccCCCCeeeCCEEEEEEEEEEEee
Q 030100 156 YFNKAENGFLMNDVCIVEAEVLRISK 181 (183)
Q Consensus 156 ~L~~~~~gyl~nD~l~Ie~~V~i~~~ 181 (183)
.+.+...||++++.+++-+++.|.+.
T Consensus 103 ~~~~~~~g~~~~~~~~~~a~~~V~~~ 128 (297)
T KOG1987|consen 103 LLIDCSNGFLVAHKLVLVARSEVFEA 128 (297)
T ss_pred HhhcccCcEEEcCceEEEeeecceee
Confidence 99998899999988888887766653
No 22
>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=98.13 E-value=1.7e-06 Score=63.73 Aligned_cols=41 Identities=34% Similarity=0.532 Sum_probs=37.1
Q ss_pred ceeccCCccccCccceeccccccCCCCCeEEcceEEEeEEEE
Q 030100 4 ERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVL 45 (183)
Q Consensus 4 ~~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~ 45 (183)
.++|+. ...|||.+||++++|.++.+|||+||+++++++|.
T Consensus 95 ~~~f~~-~~~wG~~~fi~~~~L~~~~~g~l~dD~l~I~c~I~ 135 (139)
T cd03774 95 AYRFVQ-GKDWGFKKFIRRDFLLDEANGLLPDDKLTLFCEVS 135 (139)
T ss_pred cEeCCC-CCccCHHHeeeHHHhhhhhcccccCCEEEEEEEEE
Confidence 477875 57999999999999998899999999999999998
No 23
>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=97.92 E-value=6.1e-09 Score=85.89 Aligned_cols=174 Identities=22% Similarity=0.225 Sum_probs=112.4
Q ss_pred eeccCCccccCccceeccccccCCCCCeEEc-ceEEEeEEEEEecccCCccceEEEe------eecCCCC----cEEEEE
Q 030100 5 RRFHVLKLEWGFDQFIPLEEFNDASNGYLVG-DTCVFGAEVLVKERNKCKGECLFLA------KLTSASN----YKHVWK 73 (183)
Q Consensus 5 ~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~-d~~~~~~~v~i~~~~~~~~e~~~~~------~~~~~~~----~~~~W~ 73 (183)
.+|+.....||+.+++|+.++.++++||+++ +.|.++.....++. .+.+.+... .+.++.. ..|+|.
T Consensus 84 ~~~~~~~~~~g~~~~~~~~~~~~~~~g~~~~~~~~~~a~~~V~~~~--~~~d~~~~~~~~~~~~d~~~~~~~~~~~F~~~ 161 (297)
T KOG1987|consen 84 FRFNKVLKEWGFGKMLPLTLLIDCSNGFLVAHKLVLVARSEVFEAM--GKSDVFKESSKLITLLEEKPEVLEALNGFQVL 161 (297)
T ss_pred ccccccccccCcccccChHHhhcccCcEEEcCceEEEeeecceeee--cccccchhccccccccccchhhHhhhceEEEe
Confidence 4566668999999999999999999999999 66665544333333 444444221 0114555 899999
Q ss_pred EcCccc----------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCC--CCCCeEEEEEEEEEEcCCCCc
Q 030100 74 IENFSK----------------------KIKLYPKGQGVGRGSHISVYLALADLSTI--TRDSKIYVHFTLRIRDQVLSK 129 (183)
Q Consensus 74 I~nfS~----------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~--~~~w~i~~~f~l~ll~q~~~~ 129 (183)
+.+++. ++.++|.|.+.....+++.||..++.... ...-.+++....+.+|+...+
T Consensus 162 ~s~~~~~~~~~~~~~~~a~~f~~~~~~lk~~~~~~l~~~~~~~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~ld~l~~~ 241 (297)
T KOG1987|consen 162 PSQVSSVERIFEKHPDLAAAFKYKNRHLKLACMPVLLSLIETLNVSQSLQEASNYDLKEAKSALTYVIAAGFKLDWLEKK 241 (297)
T ss_pred ccchHHHHHhhcCChhhhhccccccHHHHHHHHHHHHHHHHhhhhcccHHHhchhHHHHHHHHHHHHHhccchHhHHHHH
Confidence 999887 77888888877666788888876653221 123345666666677775532
Q ss_pred --cc-ccc-cceeeccCCCCccccceeeccccccCCCCeeeCCEEEEEEEEEEEee
Q 030100 130 --HN-EKK-ASTWLSTSSEDWGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRISK 181 (183)
Q Consensus 130 --~~-~~~-~~~~F~~~~~~wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~~ 181 (183)
+. .+. ...+.......+ ..++.++.++.....++++++++.++++...++.
T Consensus 242 ~~~~~~k~~~~~~~~~~~~~~-~~~~~~~~~~~~~~~~~l~~~~~~~~~~~~~~~~ 296 (297)
T KOG1987|consen 242 LNEVKEKKKKDLWYEIRLQEL-EEELKSLKDKCSDLEGLLVKDKAEVEAESEPLSS 296 (297)
T ss_pred HHHHHHhhhHHHHHHHHHHHH-HHHHHhhhhhhhhHHHHHHhhhhhhhcccCCcCC
Confidence 21 111 112222111222 5567777777766677888999888888776653
No 24
>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=97.91 E-value=6.5e-06 Score=58.11 Aligned_cols=39 Identities=31% Similarity=0.649 Sum_probs=34.0
Q ss_pred eeccCCccccCccceeccccccCCCCCeEEcceEEEeEEEEE
Q 030100 5 RRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVLV 46 (183)
Q Consensus 5 ~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~i 46 (183)
++|+.. ..|||.+||+|++|.++. |+.||+++|+|+|.|
T Consensus 81 ~~F~~~-~~~g~~~fi~~~~l~~~~--fl~dd~l~ie~~v~I 119 (119)
T PF00917_consen 81 HSFNNP-SSWGWSSFISWEDLEDPY--FLVDDSLTIEVEVKI 119 (119)
T ss_dssp EEECTT-SEEEEEEEEEHHHHTTCT--TSBTTEEEEEEEEEE
T ss_pred eEEeee-cccchhheeEHHHhCccC--CeECCEEEEEEEEEC
Confidence 677665 799999999999998555 999999999999863
No 25
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=97.81 E-value=2.5e-05 Score=75.01 Aligned_cols=103 Identities=21% Similarity=0.307 Sum_probs=85.0
Q ss_pred CcEEEEEEcCccceeeEeeCCCCCCCCCeEEEEEEecCCCCCCCCCeEEEEEEEEEEcCCCCc-ccccccceeeccCCCC
Q 030100 67 NYKHVWKIENFSKKIKLYPKGQGVGRGSHISVYLALADLSTITRDSKIYVHFTLRIRDQVLSK-HNEKKASTWLSTSSED 145 (183)
Q Consensus 67 ~~~~~W~I~nfS~~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~~~w~i~~~f~l~ll~q~~~~-~~~~~~~~~F~~~~~~ 145 (183)
.+...| ++.+.|+|+. ...+++|+++...... ..|.+.+++.++++|..+.. ...+...|.|.....+
T Consensus 50 ~~~~~~-------~~~~~~~~~~---~~~~~~~~~~~~~~~~-~~~s~~~~~~~~v~~~~~~~~~~~~~~~h~~~~~~~d 118 (1093)
T KOG1863|consen 50 AGATKW-------KILIAPKVNS---LQSTRKKLEVMPSQSL-KSWSCGAQAVLRVKNTIDNLPDPEKAIHHVFTADERD 118 (1093)
T ss_pred ccccce-------eeeeccccCc---ccceeEEeeeccCCCC-cceEecchhhhccccCCCCchhhhhhhhhcccccccc
Confidence 445666 8899999984 3679999999876555 45999999999999933322 4456678899988899
Q ss_pred ccccceeeccccccCCCCeeeCCEEEEEEEEEEEe
Q 030100 146 WGWSTFVELSYFNKAENGFLMNDVCIVEAEVLRIS 180 (183)
Q Consensus 146 wG~~~Fi~~~~L~~~~~gyl~nD~l~Ie~~V~i~~ 180 (183)
||+.+|+.++++.++..||+.+|++.++++|.+..
T Consensus 119 wg~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~ 153 (1093)
T KOG1863|consen 119 WGFSCFSTSSDIRKPEDGYVRNGLEKLEKRVRVEQ 153 (1093)
T ss_pred hhhccchhHhhccCcccccccccceeeeeeeeeec
Confidence 99999999999999999999999999999998754
No 26
>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=97.52 E-value=4.8e-05 Score=55.27 Aligned_cols=39 Identities=31% Similarity=0.620 Sum_probs=32.5
Q ss_pred ceeccCCccccCccceeccccccCCCCCeEEc--ceEEEeEEEE
Q 030100 4 ERRFHVLKLEWGFDQFIPLEEFNDASNGYLVG--DTCVFGAEVL 45 (183)
Q Consensus 4 ~~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~--d~~~~~~~v~ 45 (183)
.++|.. ...|||.+||++++|. ++|||.| |+++|++.|.
T Consensus 90 ~~~f~~-~~~wG~~~Fi~~~~L~--~~gfl~~~~D~l~i~~~v~ 130 (132)
T cd03773 90 ASDFEV-GECWGYNRFFRLDLLI--NEGYLLPENDTLILRFSVR 130 (132)
T ss_pred cccccC-CCCcCHHHhccHHHHh--hCCCcCCCCCEEEEEEEEe
Confidence 467765 4679999999999996 5899999 9999887764
No 27
>cd00121 MATH MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane and are capable of cleaving growth factors, extracellular matrix proteins, and biologically active peptides. TRAF molecules serve as adapter proteins that link cell surface receptors of the Tumor Necrosis Factor and 1nterleukin-1/Toll-like families to downstream kinase cascades, which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. Other members include the ubiquitin ligases, TRIM37 and SPOP, and the ubiquitin-specific proteases, HAUSP and Ubp21p. A large number of uncharacterized members mostly from lineage-specific expansions in C. elegans and rice contain MATH and BTB domains, similar to SPOP. The MATH doma
Probab=97.10 E-value=0.00053 Score=48.16 Aligned_cols=39 Identities=33% Similarity=0.617 Sum_probs=31.6
Q ss_pred eecc-CCccccCccceeccccccCCCCCeEEcceEEEeEEEE
Q 030100 5 RRFH-VLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVL 45 (183)
Q Consensus 5 ~~f~-~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~ 45 (183)
+.|. .....|||.+||++++|.++ +++.||+++|+++|.
T Consensus 87 ~~~~~~~~~~~G~~~fi~~~~l~~~--~~~~~d~l~i~~~v~ 126 (126)
T cd00121 87 HVFFSEKGSGWGFPKFISWDDLEDS--YYLVDDSLTIEVEVK 126 (126)
T ss_pred CCcCCCCCCCCChHHeeEHHHhccC--CcEECCEEEEEEEEC
Confidence 3443 66789999999999999843 339999999999873
No 28
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=96.34 E-value=0.0047 Score=53.30 Aligned_cols=62 Identities=24% Similarity=0.475 Sum_probs=54.4
Q ss_pred CCCCcEEEEEEcCccc---------------------------eeeEeeCCCCCCCCCeEEEEEEecCCCCCC-CCCeEE
Q 030100 64 SASNYKHVWKIENFSK---------------------------KIKLYPKGQGVGRGSHISVYLALADLSTIT-RDSKIY 115 (183)
Q Consensus 64 ~~~~~~~~W~I~nfS~---------------------------~l~~yP~G~~~~~~~~lSlyL~l~~~~~~~-~~w~i~ 115 (183)
....+..+|+|.+++. +..+|-+|++.+.+.++|+|+.+.+++..+ ..|++.
T Consensus 276 ~~~~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~lng~g~~~~~~~s~~~~~~~ge~d~~l~wpf~ 355 (391)
T KOG0297|consen 276 RSYDGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKLCARIYLNGDGTGKGTHLSLYFVVMRGEYDALLPWPFR 355 (391)
T ss_pred hccCCEEEEEecchhhhhHHHHhccCccccccccccccccHHHHhHhhhcCCCCCCcceeeeeeeecccCcccccccCCC
Confidence 3568999999999955 777888888888889999999999988755 689999
Q ss_pred EEEEEEEEcC
Q 030100 116 VHFTLRIRDQ 125 (183)
Q Consensus 116 ~~f~l~ll~q 125 (183)
-+.++.+++|
T Consensus 356 ~~v~~~l~dq 365 (391)
T KOG0297|consen 356 QKVTLMLLDQ 365 (391)
T ss_pred CceEEEEecc
Confidence 9999999999
No 29
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=94.78 E-value=0.023 Score=52.35 Aligned_cols=43 Identities=33% Similarity=0.600 Sum_probs=38.6
Q ss_pred cceeccCCccccCccceeccccccCCCCC---eEEcceEEEeEEEE
Q 030100 3 KERRFHVLKLEWGFDQFIPLEEFNDASNG---YLVGDTCVFGAEVL 45 (183)
Q Consensus 3 ~~~~f~~~~~~~G~~~~i~~~~l~~~~~g---yl~~d~~~~~~~v~ 45 (183)
..|||+...++|||++|+.|..+..|+.| |+.++++++.|.|.
T Consensus 124 sHhrFs~~~tDwGFt~f~dL~kl~~psp~~Ppfleeg~l~ItvyVR 169 (1089)
T COG5077 124 SHHRFSMESTDWGFTNFIDLNKLIEPSPGRPPFLEEGTLVITVYVR 169 (1089)
T ss_pred ccccccccccccchhhhhhhhhhcCCCCCCCCcccCCeEEEEEEEE
Confidence 46999999999999999999999987666 58889999999888
No 30
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=92.69 E-value=0.074 Score=51.66 Aligned_cols=47 Identities=17% Similarity=0.341 Sum_probs=43.3
Q ss_pred cceeccCCccccCccceeccccccCCCCCeEEcceEEEeEEEE-Eecc
Q 030100 3 KERRFHVLKLEWGFDQFIPLEEFNDASNGYLVGDTCVFGAEVL-VKER 49 (183)
Q Consensus 3 ~~~~f~~~~~~~G~~~~i~~~~l~~~~~gyl~~d~~~~~~~v~-i~~~ 49 (183)
..|+|.....+||+.+|+.++++.+|+.||+.+|++.+.++|. -+++
T Consensus 108 ~~h~~~~~~~dwg~~~~~~~~~~~~~~~~~~~~~~~~~~~~v~v~~~~ 155 (1093)
T KOG1863|consen 108 IHHVFTADERDWGFSCFSTSSDIRKPEDGYVRNGLEKLEKRVRVEQPT 155 (1093)
T ss_pred hhhcccccccchhhccchhHhhccCcccccccccceeeeeeeeeecCC
Confidence 5799999999999999999999999999999999999999999 4443
No 31
>PRK15464 cold shock-like protein CspH; Provisional
Probab=23.32 E-value=63 Score=20.77 Aligned_cols=6 Identities=17% Similarity=-0.058 Sum_probs=2.5
Q ss_pred ccceEE
Q 030100 53 KGECLF 58 (183)
Q Consensus 53 ~~e~~~ 58 (183)
.++.+.
T Consensus 47 ~G~~V~ 52 (70)
T PRK15464 47 PGLRVE 52 (70)
T ss_pred CCCEEE
Confidence 344443
Done!