Query 041274
Match_columns 109
No_of_seqs 120 out of 1017
Neff 7.9
Searched_HMMs 46136
Date Fri Mar 29 05:29:57 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041274.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041274hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd03775 MATH_Ubp21p Ubiquitin- 99.9 6E-23 1.3E-27 136.0 11.3 76 22-104 2-81 (134)
2 cd03780 MATH_TRAF5 Tumor Necro 99.9 5.9E-23 1.3E-27 138.6 10.0 83 21-104 1-90 (148)
3 cd03774 MATH_SPOP Speckle-type 99.9 2.3E-22 5E-27 133.7 11.3 83 19-106 3-88 (139)
4 cd00270 MATH_TRAF_C Tumor Necr 99.9 9.8E-23 2.1E-27 136.6 8.9 82 21-103 1-89 (149)
5 cd03771 MATH_Meprin Meprin fam 99.9 3.1E-22 6.8E-27 137.3 10.1 80 20-101 1-85 (167)
6 cd03776 MATH_TRAF6 Tumor Necro 99.9 1.8E-22 4E-27 135.5 8.6 82 21-103 1-89 (147)
7 cd03777 MATH_TRAF3 Tumor Necro 99.9 4.5E-22 9.8E-27 138.7 10.8 84 18-102 36-126 (186)
8 cd03781 MATH_TRAF4 Tumor Necro 99.9 6E-22 1.3E-26 134.2 10.2 82 21-103 1-89 (154)
9 cd03773 MATH_TRIM37 Tripartite 99.9 1.1E-21 2.4E-26 129.0 10.4 80 18-103 2-81 (132)
10 cd03772 MATH_HAUSP Herpesvirus 99.8 3.1E-20 6.7E-25 123.2 11.9 79 20-103 2-81 (137)
11 cd03779 MATH_TRAF1 Tumor Necro 99.8 1.9E-20 4.2E-25 126.2 9.9 84 21-105 1-91 (147)
12 cd03778 MATH_TRAF2 Tumor Necro 99.8 2.2E-19 4.8E-24 122.8 10.3 88 18-106 16-110 (164)
13 smart00061 MATH meprin and TRA 99.8 1.9E-18 4.1E-23 106.4 10.0 74 23-105 2-75 (95)
14 cd00121 MATH MATH (meprin and 99.8 6.2E-18 1.3E-22 108.0 12.2 80 21-105 1-80 (126)
15 cd03783 MATH_Meprin_Alpha Mepr 99.7 4.3E-16 9.4E-21 106.6 8.3 83 20-102 1-88 (167)
16 cd03782 MATH_Meprin_Beta Mepri 99.6 7.9E-16 1.7E-20 105.1 8.3 81 20-102 1-86 (167)
17 PF00917 MATH: MATH domain; I 99.6 1.2E-14 2.5E-19 92.8 7.2 73 27-105 1-74 (119)
18 COG5077 Ubiquitin carboxyl-ter 99.2 6.6E-12 1.4E-16 101.5 3.4 80 17-104 35-117 (1089)
19 KOG1987 Speckle-type POZ prote 98.4 1.3E-06 2.9E-11 64.1 8.2 69 25-108 8-77 (297)
20 KOG0297 TNF receptor-associate 98.0 4.2E-06 9E-11 64.5 3.1 82 18-100 277-365 (391)
21 KOG1863 Ubiquitin carboxyl-ter 93.9 0.048 1E-06 47.2 2.8 72 20-100 26-97 (1093)
22 KOG1987 Speckle-type POZ prote 70.3 0.055 1.2E-06 39.6 -7.5 58 21-79 156-214 (297)
23 PF08922 DUF1905: Domain of un 63.2 7 0.00015 23.4 2.1 18 46-63 37-54 (80)
24 COG4680 Uncharacterized protei 40.7 29 0.00062 21.8 2.2 16 45-60 58-73 (98)
25 PF15532 Toxin_53: Putative to 39.8 95 0.0021 19.7 4.5 15 47-61 30-44 (102)
26 PF09907 DUF2136: Uncharacteri 30.6 48 0.001 19.7 2.0 15 45-59 40-54 (76)
27 PF10898 DUF2716: Protein of u 29.9 17 0.00036 24.5 -0.1 12 52-63 103-114 (143)
28 PF11320 DUF3122: Protein of u 29.6 76 0.0017 21.1 3.0 28 48-79 24-51 (134)
29 COG1236 YSH1 Predicted exonucl 23.7 1.5E+02 0.0032 23.3 4.1 33 41-79 123-155 (427)
30 PF08813 Phage_tail_3: Phage t 21.2 2.8E+02 0.006 18.8 5.9 41 53-99 118-158 (165)
No 1
>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=99.90 E-value=6e-23 Score=135.97 Aligned_cols=76 Identities=26% Similarity=0.619 Sum_probs=66.5
Q ss_pred EEEEEEcCcccccccCCcEEEcccEEeCCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCC----CCCCCEEEEEEEEEE
Q 041274 22 HFILKIEAFSSLVENDVEKYGSLEFDAGGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSS----FGLGWEVYVIFRLFV 97 (109)
Q Consensus 22 ~~~w~I~~fs~~~~~~~~~~~S~~F~vGG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~----~~~~~~~~a~f~~~l 97 (109)
+|+|+|+|||.+ ++.+.|++|.||||+|+|++||+|+.. .+||||||++.+... ++.+|.++|+|+|.|
T Consensus 2 ~f~w~I~~fS~~----~~~~~S~~F~vGG~~W~l~~yP~G~~~---~~~iSlyL~l~~~~~~~~~~~~~~~v~a~f~~~l 74 (134)
T cd03775 2 SFTWRIKNWSEL----EKKVHSPKFKCGGFEWRILLFPQGNSQ---TGGVSIYLEPHPEEEEKAPLDEDWSVCAQFALVI 74 (134)
T ss_pred cEEEEECCcccC----CcceeCCCEEECCeeEEEEEeCCCCCC---CCeEEEEEEecCcccccccCCCCCeEEEEEEEEE
Confidence 699999999996 478999999999999999999999863 789999999976543 256789999999999
Q ss_pred EeCCCCc
Q 041274 98 LDQKKDE 104 (109)
Q Consensus 98 ~nq~~~~ 104 (109)
+||.++.
T Consensus 75 ~n~~~~~ 81 (134)
T cd03775 75 SNPGDPS 81 (134)
T ss_pred EcCCCCc
Confidence 9997654
No 2
>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=99.89 E-value=5.9e-23 Score=138.61 Aligned_cols=83 Identities=23% Similarity=0.338 Sum_probs=71.2
Q ss_pred cEEEEEEcCcccccc-c-CCc--EEEcccE--EeCCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCC-CCCCEEEEEE
Q 041274 21 AHFILKIEAFSSLVE-N-DVE--KYGSLEF--DAGGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSF-GLGWEVYVIF 93 (109)
Q Consensus 21 ~~~~w~I~~fs~~~~-~-~~~--~~~S~~F--~vGG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~-~~~~~~~a~f 93 (109)
|++.|+|+|||++++ . .++ .+.|++| ++|||+|+|++||||... +..+|||+||.++..+.+ ...|++++++
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 GKLIWKVTDYKMKKKEAVDGHTVSIFSQPFYTSRCGYRLCARAYLNGDGS-GKGTHLSLYFVVMRGEFDSLLQWPFRQRV 79 (148)
T ss_pred CEEEEEECCHHHHHHhhcCCCccEEECCCcccCCCCeeEEEEEEcCCCCC-CCCCEEEEEEEEecCccccccCcceEEEE
Confidence 689999999999975 3 355 8999999 999999999999999984 457899999999986544 3569999999
Q ss_pred EEEEEeCCCCc
Q 041274 94 RLFVLDQKKDE 104 (109)
Q Consensus 94 ~~~l~nq~~~~ 104 (109)
+|.|+||.+++
T Consensus 80 tfsLlDq~~~~ 90 (148)
T cd03780 80 TLMLLDQSGKK 90 (148)
T ss_pred EEEEECCCCCC
Confidence 99999998543
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=99.89 E-value=2.3e-22 Score=133.68 Aligned_cols=83 Identities=31% Similarity=0.414 Sum_probs=70.4
Q ss_pred CCcEEEEEEcCcccccccCCcEEEcccEEeCCe---EEEEEEEeCCCcCCCCCCcEEEEEEeccCCCCCCCCEEEEEEEE
Q 041274 19 PPAHFILKIEAFSSLVENDVEKYGSLEFDAGGY---KWKLVVYPNGNKNENVKDHISVYLAMVDTSSFGLGWEVYVIFRL 95 (109)
Q Consensus 19 ~~~~~~w~I~~fs~~~~~~~~~~~S~~F~vGG~---~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~~~~~~~~a~f~~ 95 (109)
...+|+|+|+|||.+++..++.+.|++|.+||| +|+|++||+|+.. +..+||||||++.+.. .++++|+|+|
T Consensus 3 ~~~~~~w~I~~fS~~~~~~~~~i~S~~F~vgg~~~~~W~l~~yP~G~~~-~~~~~iSlyL~l~~~~----~~~v~a~f~~ 77 (139)
T cd03774 3 VKFCYMWTISNFSFCREEMGEVIKSSTFSSGANDKLKWCLRVNPKGLDE-ESKDYLSLYLLLVSCP----KSEVRAKFKF 77 (139)
T ss_pred eEEEEEEEECCchhhhhcCCCEEECCCeecCCcCCceEEEEEeCCCCCC-CCCCeEEEEEEEccCC----CCcEEEEEEE
Confidence 457899999999998764578999999999995 9999999999863 4578999999997643 2579999999
Q ss_pred EEEeCCCCcee
Q 041274 96 FVLDQKKDEFL 106 (109)
Q Consensus 96 ~l~nq~~~~~~ 106 (109)
.|+||.+++..
T Consensus 78 ~l~n~~~~~~~ 88 (139)
T cd03774 78 SILNAKGEETK 88 (139)
T ss_pred EEEecCCCeee
Confidence 99999987653
No 4
>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=99.89 E-value=9.8e-23 Score=136.58 Aligned_cols=82 Identities=27% Similarity=0.378 Sum_probs=70.3
Q ss_pred cEEEEEEcCcccccc----cCCcEEEcccEEeC--CeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCC-CCCCEEEEEE
Q 041274 21 AHFILKIEAFSSLVE----NDVEKYGSLEFDAG--GYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSF-GLGWEVYVIF 93 (109)
Q Consensus 21 ~~~~w~I~~fs~~~~----~~~~~~~S~~F~vG--G~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~-~~~~~~~a~f 93 (109)
++|+|+|+|||.+++ ..++.+.|+.|.+| ||+|+|++||+|+.. +..+||||||++.+.... ..+|+++|+|
T Consensus 1 g~~~w~I~~fs~~~~~~~~~~~~~~~S~~F~vg~~G~~w~i~~yP~G~~~-~~~~~lsl~L~l~~~~~d~~~~w~~~~~~ 79 (149)
T cd00270 1 GVLIWKIKDYSRKLQEAVAGSNTVLYSPPFYTSRYGYKLCLRLYLNGDGT-GKGTHLSLFVHVMKGEYDALLEWPFRGKI 79 (149)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCC-CCCCEEEEEEEEeccCCCccccCCccceE
Confidence 589999999999875 13579999999999 999999999999863 346899999999876543 4679999999
Q ss_pred EEEEEeCCCC
Q 041274 94 RLFVLDQKKD 103 (109)
Q Consensus 94 ~~~l~nq~~~ 103 (109)
+|.|+||.++
T Consensus 80 ~~~l~d~~~~ 89 (149)
T cd00270 80 TLTLLDQSDD 89 (149)
T ss_pred EEEEECCCCc
Confidence 9999999873
No 5
>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=99.88 E-value=3.1e-22 Score=137.33 Aligned_cols=80 Identities=24% Similarity=0.407 Sum_probs=69.5
Q ss_pred CcEEEEEEcCcccccc-c-CCcEEEcccE-EeCCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCC-CCCCE-EEEEEE
Q 041274 20 PAHFILKIEAFSSLVE-N-DVEKYGSLEF-DAGGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSF-GLGWE-VYVIFR 94 (109)
Q Consensus 20 ~~~~~w~I~~fs~~~~-~-~~~~~~S~~F-~vGG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~-~~~~~-~~a~f~ 94 (109)
+.+|+|+|+|||.+++ . .++.+.|++| ++|||+|+|++||||+.. ..+||||||+|++.... ..+|+ +.|+++
T Consensus 1 cp~hvwkI~~yS~~~~~~~~g~~i~S~~FysvgGy~w~I~~YPnG~~~--~~~~lSlyL~L~~g~~d~~L~WP~v~a~~t 78 (167)
T cd03771 1 CPEAVWRVRNFSQLLETTPKGTKIYSPRFYSPEGYAFQVGLYPNGTES--YPGYTGLYFHLCSGENDDVLEWPCPNRQAT 78 (167)
T ss_pred CCeEEEEEcCchhhhhcCCCCCEEECCCCCccCCeEEEEEEEeCCCCC--CCCcceEEEEEecCCccccccCcceeEEEE
Confidence 5789999999999963 3 4779999999 999999999999999884 57899999999876543 56799 699999
Q ss_pred EEEEeCC
Q 041274 95 LFVLDQK 101 (109)
Q Consensus 95 ~~l~nq~ 101 (109)
|+|+||.
T Consensus 79 ~~LlDQ~ 85 (167)
T cd03771 79 MTLLDQD 85 (167)
T ss_pred EEEECCC
Confidence 9999997
No 6
>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=99.88 E-value=1.8e-22 Score=135.52 Aligned_cols=82 Identities=22% Similarity=0.273 Sum_probs=68.5
Q ss_pred cEEEEEEcCcccccc-c-CCc--EEEcccEEe--CCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCC-CCCCEEEEEE
Q 041274 21 AHFILKIEAFSSLVE-N-DVE--KYGSLEFDA--GGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSF-GLGWEVYVIF 93 (109)
Q Consensus 21 ~~~~w~I~~fs~~~~-~-~~~--~~~S~~F~v--GG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~-~~~~~~~a~f 93 (109)
|+|+|+|+|||.+++ + .++ .+.|++|.+ |||+|+|++||+|... +..+|||+||+|++.... ..+|+++|+|
T Consensus 1 g~h~~~I~~yS~~~~~~~~g~~~~i~S~~F~~~~gGy~W~i~~yP~G~~~-~~~~~lS~~L~l~~~~~d~~l~wpv~a~~ 79 (147)
T cd03776 1 GIYVWKIKNFSNLRRSMEAGSPVVIHSPGFYTSPPGYKLCARLNLSLPEA-RCPNYISLFVHLMQGENDSHLDWPFQGTI 79 (147)
T ss_pred CEEEEEECCHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEeCCCCC-CCCCEEEEEEEEeccCCCcccCCccccee
Confidence 689999999998665 3 345 488999985 7999999999999884 457899999999876532 4569999999
Q ss_pred EEEEEeCCCC
Q 041274 94 RLFVLDQKKD 103 (109)
Q Consensus 94 ~~~l~nq~~~ 103 (109)
+|.|+||.++
T Consensus 80 ~~~lldq~~~ 89 (147)
T cd03776 80 TLTLLDQSEP 89 (147)
T ss_pred EEEEECCCcc
Confidence 9999999863
No 7
>cd03777 MATH_TRAF3 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF3 subfamily, TRAF domain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF3 was first described as a molecule that binds the cytoplasmic tail of CD40. However, it is not required for CD40 signaling. More recently, TRAF3 has been identified as a key regulator of type I interferon (IFN) production and the mammalian innate antiviral immunity. It mediates IFN responses in Toll-like receptor (TLR)-dependent as well as TLR-independent viral recognition pathways. It is also a key element in immunological homeostasis through its regulation of the anti-inflammatory cytokine interleukin-10. TRAF3 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more divergent N-terminal al
Probab=99.88 E-value=4.5e-22 Score=138.71 Aligned_cols=84 Identities=24% Similarity=0.305 Sum_probs=71.8
Q ss_pred CCCcEEEEEEcCcccccc-c-CCc--EEEcccEEeC--CeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCC-CCCCEEE
Q 041274 18 VPPAHFILKIEAFSSLVE-N-DVE--KYGSLEFDAG--GYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSF-GLGWEVY 90 (109)
Q Consensus 18 ~~~~~~~w~I~~fs~~~~-~-~~~--~~~S~~F~vG--G~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~-~~~~~~~ 90 (109)
...|+|.|+|.|||.+++ . .++ .+.|++|.+| ||+|+|++||||+.. +..+|||+||+++.++.+ ...|++.
T Consensus 36 ~~~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w~i~~ypnG~g~-~~~~~iSvyl~L~~ge~D~~L~WP~~ 114 (186)
T cd03777 36 SYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGM-GKGTHLSLFFVIMRGEYDALLPWPFK 114 (186)
T ss_pred ccceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeEEEEEEcCCCCC-CCCCEEEEEEEEecCCcccccCCcee
Confidence 347999999999999875 2 344 8999999999 999999999999884 457899999999986533 3569999
Q ss_pred EEEEEEEEeCCC
Q 041274 91 VIFRLFVLDQKK 102 (109)
Q Consensus 91 a~f~~~l~nq~~ 102 (109)
++|+|.|+||.+
T Consensus 115 ~~~tfsLlDQ~~ 126 (186)
T cd03777 115 QKVTLMLMDQGS 126 (186)
T ss_pred EEEEEEEEcCCC
Confidence 999999999975
No 8
>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=99.88 E-value=6e-22 Score=134.22 Aligned_cols=82 Identities=26% Similarity=0.398 Sum_probs=70.7
Q ss_pred cEEEEEEcCccccccc----CCcEEEcccEEeC--CeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCCC-CCCEEEEEE
Q 041274 21 AHFILKIEAFSSLVEN----DVEKYGSLEFDAG--GYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSFG-LGWEVYVIF 93 (109)
Q Consensus 21 ~~~~w~I~~fs~~~~~----~~~~~~S~~F~vG--G~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~~-~~~~~~a~f 93 (109)
|+|.|+|+|||.+++. .+..+.|+.|.+| ||+|+|++||||... +..+|||+||+++..+... .+|+++++|
T Consensus 1 g~~~~~I~gys~~~~~~~~~~~~~i~S~~F~vg~~Gy~w~i~~yPnG~~~-~~~~~vs~~l~l~~ge~d~~l~wp~~a~~ 79 (154)
T cd03781 1 GTLLWKITDYSRKLQEAKGRDNLELFSPPFYTHRYGYKLQVSAFLNGNGS-GEGSHLSVYIRVLPGEYDNLLEWPFSHRI 79 (154)
T ss_pred CEEEEEECCHHHHHHHhhcCCCceEECCCeecCCCCEEEEEEEECCCCCC-CCCCEEEEEEEEecCCcccccCCceeeEE
Confidence 6899999999998762 2578999999999 999999999999884 4578999999999865432 479999999
Q ss_pred EEEEEeCCCC
Q 041274 94 RLFVLDQKKD 103 (109)
Q Consensus 94 ~~~l~nq~~~ 103 (109)
+|+|+||.++
T Consensus 80 ~~~llDq~~~ 89 (154)
T cd03781 80 TFTLLDQSDP 89 (154)
T ss_pred EEEEECCCCC
Confidence 9999999864
No 9
>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=1.1e-21 Score=128.97 Aligned_cols=80 Identities=25% Similarity=0.416 Sum_probs=67.7
Q ss_pred CCCcEEEEEEcCcccccccCCcEEEcccEEeCCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCCCCCCEEEEEEEEEE
Q 041274 18 VPPAHFILKIEAFSSLVENDVEKYGSLEFDAGGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSFGLGWEVYVIFRLFV 97 (109)
Q Consensus 18 ~~~~~~~w~I~~fs~~~~~~~~~~~S~~F~vGG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~~~~~~~~a~f~~~l 97 (109)
+..++++|+|+|||.+++ .++++.|++|.+|||+|+|++||+|+.. +..+|||+||.+.+.. ++.++++|+|+|
T Consensus 2 ~~~~~~~~~I~~fS~~~~-~~~~~~S~~F~vgG~~W~i~~yP~G~~~-~~~~~lSl~L~l~~~~----~~~~~~~~~l~l 75 (132)
T cd03773 2 PPYDSATFTLENFSTLRQ-SADPVYSDPLNVDGLCWRLKVYPDGNGE-VRGNFLSVFLELCSGL----GEASKYEYRVEM 75 (132)
T ss_pred CCCcccEEEECChhhhhc-CCcceeCCCeEeCCccEEEEEECCCCCC-CCCCEEEEEEEeecCC----CCceeEEEEEEE
Confidence 467889999999999864 3679999999999999999999999873 4578999999987642 267899999999
Q ss_pred EeCCCC
Q 041274 98 LDQKKD 103 (109)
Q Consensus 98 ~nq~~~ 103 (109)
+||.++
T Consensus 76 lnq~~~ 81 (132)
T cd03773 76 VHQANP 81 (132)
T ss_pred EcCCCC
Confidence 999543
No 10
>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=99.85 E-value=3.1e-20 Score=123.22 Aligned_cols=79 Identities=23% Similarity=0.334 Sum_probs=67.2
Q ss_pred CcEEEEEEcCcccccccCCcEEEcccEEeCCeEEEEEEEeCCCcCC-CCCCcEEEEEEeccCCCCCCCCEEEEEEEEEEE
Q 041274 20 PAHFILKIEAFSSLVENDVEKYGSLEFDAGGYKWKLVVYPNGNKNE-NVKDHISVYLAMVDTSSFGLGWEVYVIFRLFVL 98 (109)
Q Consensus 20 ~~~~~w~I~~fs~~~~~~~~~~~S~~F~vGG~~W~l~~yP~G~~~~-~~~~~iSlyL~l~~~~~~~~~~~~~a~f~~~l~ 98 (109)
.++|+|+|+|||.+ ++.+.|+.|.+||+.|+|++||+|+... +..+|+|+||++.+.. ...+|.+.|+|+|.|+
T Consensus 2 ~~~~~~~I~~~S~l----~e~~~S~~f~vgG~~W~i~~~P~g~~~~~~~~~~lsvyL~~~~~~-~~~~w~i~a~~~~~l~ 76 (137)
T cd03772 2 EATFSFTVERFSRL----SESVLSPPCFVRNLPWKIMVMPRNYPDRNPHQKSVGFFLQCNAES-DSTSWSCHAQAVLRII 76 (137)
T ss_pred CcEEEEEECCcccC----CCcEECCCEEECCcceEEEEEeCCCCCCCCCCCeEEEEEeeCCcC-CCCCCeEEEEEEEEEE
Confidence 57999999999998 3789999999999999999999997631 2358999999997653 3347999999999999
Q ss_pred eCCCC
Q 041274 99 DQKKD 103 (109)
Q Consensus 99 nq~~~ 103 (109)
||.++
T Consensus 77 ~~~~~ 81 (137)
T cd03772 77 NYKDD 81 (137)
T ss_pred cCCCC
Confidence 99854
No 11
>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=99.84 E-value=1.9e-20 Score=126.22 Aligned_cols=84 Identities=26% Similarity=0.364 Sum_probs=69.4
Q ss_pred cEEEEEEcCcccccc-cC---CcEEEcccEEeC--CeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCC-CCCCEEEEEE
Q 041274 21 AHFILKIEAFSSLVE-ND---VEKYGSLEFDAG--GYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSF-GLGWEVYVIF 93 (109)
Q Consensus 21 ~~~~w~I~~fs~~~~-~~---~~~~~S~~F~vG--G~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~-~~~~~~~a~f 93 (109)
|++.|+|.+|+++.+ .+ ...++||+|..+ ||+|+|++||||+.. +..+|||+||+++....+ ...|+++++|
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 GTFLWKITDVSQKQRESSHGRDVSLCSPAFYTAKYGYKVCLRLYLNGDGA-GKGTHISLFFVIMKGEYDALLPWPFRHKV 79 (147)
T ss_pred CeEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCceEEEEEEcCCCCC-CCCCEEEEEEEEecCCcccccCcceEEEE
Confidence 689999999998665 22 247999999876 999999999999884 457899999999976432 3469999999
Q ss_pred EEEEEeCCCCce
Q 041274 94 RLFVLDQKKDEF 105 (109)
Q Consensus 94 ~~~l~nq~~~~~ 105 (109)
+|.|+||.+.+.
T Consensus 80 tfsLlDq~~~~~ 91 (147)
T cd03779 80 TFMLLDQNNREH 91 (147)
T ss_pred EEEEECCCCCCC
Confidence 999999986543
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=99.81 E-value=2.2e-19 Score=122.80 Aligned_cols=88 Identities=26% Similarity=0.402 Sum_probs=74.8
Q ss_pred CCCcEEEEEEcCccccccc--C--CcEEEcccEEe--CCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCCC-CCCEEE
Q 041274 18 VPPAHFILKIEAFSSLVEN--D--VEKYGSLEFDA--GGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSFG-LGWEVY 90 (109)
Q Consensus 18 ~~~~~~~w~I~~fs~~~~~--~--~~~~~S~~F~v--GG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~~-~~~~~~ 90 (109)
...|+|+|+|.||++++.. . ...++||+|.. +||+|+|++||||+.. +.+.|+||||+++.++.++ .+|++.
T Consensus 16 ~~~g~fiWkI~~fs~~~~~a~~~~~~~i~Sp~Fyt~~~GYk~~l~~ylnG~g~-~~g~~LSly~~l~~Ge~D~~L~WPf~ 94 (164)
T cd03778 16 TYDGVFIWKISDFARKRQEAVAGRIPAIFSPAFYTSRYGYKMCLRIYLNGDGT-GRGTHLSLFFVVMKGPNDALLRWPFN 94 (164)
T ss_pred ccCCEEEEEECcHHHHHHHHhcCCCceEECCCcccCCCCeEEEEEEEeCCCCC-CCCCEEEEEEEEecCCcCcccCCcee
Confidence 4479999999999998762 2 34899999965 5999999999999884 4567999999999988775 889999
Q ss_pred EEEEEEEEeCCCCcee
Q 041274 91 VIFRLFVLDQKKDEFL 106 (109)
Q Consensus 91 a~f~~~l~nq~~~~~~ 106 (109)
.+++|.|+||.+.++.
T Consensus 95 ~~itl~llDQ~~r~hi 110 (164)
T cd03778 95 QKVTLMLLDQNNREHV 110 (164)
T ss_pred eEEEEEEECCCCCCcc
Confidence 9999999999876554
No 13
>smart00061 MATH meprin and TRAF homology.
Probab=99.79 E-value=1.9e-18 Score=106.37 Aligned_cols=74 Identities=20% Similarity=0.318 Sum_probs=65.0
Q ss_pred EEEEEcCcccccccCCcEEEcccEEeCCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCCCCCCEEEEEEEEEEEeCCC
Q 041274 23 FILKIEAFSSLVENDVEKYGSLEFDAGGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSFGLGWEVYVIFRLFVLDQKK 102 (109)
Q Consensus 23 ~~w~I~~fs~~~~~~~~~~~S~~F~vGG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~~~~~~~~a~f~~~l~nq~~ 102 (109)
++|+|.+|+.+. .++.+.|++|.+||+.|+|++||+ .+|+|+||.+.+....+.+|+++|+|+|.|+||++
T Consensus 2 ~~~~~~~~~~~~--~~~~~~S~~f~~~g~~W~i~~~p~-------~~~lsl~L~~~~~~~~~~~w~v~a~~~~~l~~~~~ 72 (95)
T smart00061 2 LSHTFKNVSRLE--EGESYFSPSEEHFNIPWRLKIYRK-------NGFLSLYLHCEKEECDSRKWSIEAEFTLKLVSQNG 72 (95)
T ss_pred ceeEEEchhhcc--cCceEeCChhEEcCceeEEEEEEc-------CCEEEEEEEeCCCcCCCCCeEEEEEEEEEEEeCCC
Confidence 579999999984 367899999999999999999998 36999999998776555579999999999999998
Q ss_pred Cce
Q 041274 103 DEF 105 (109)
Q Consensus 103 ~~~ 105 (109)
+++
T Consensus 73 ~~~ 75 (95)
T smart00061 73 KSL 75 (95)
T ss_pred CEE
Confidence 766
No 14
>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=99.78 E-value=6.2e-18 Score=108.00 Aligned_cols=80 Identities=34% Similarity=0.559 Sum_probs=68.9
Q ss_pred cEEEEEEcCcccccccCCcEEEcccEEeCCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCCCCCCEEEEEEEEEEEeC
Q 041274 21 AHFILKIEAFSSLVENDVEKYGSLEFDAGGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSFGLGWEVYVIFRLFVLDQ 100 (109)
Q Consensus 21 ~~~~w~I~~fs~~~~~~~~~~~S~~F~vGG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~~~~~~~~a~f~~~l~nq 100 (109)
++|+|+|.+|+.. .++.+.|+.|.++|+.|+|++||+|... ..+|+|+||.+......+..|.+.|+|+|.|+||
T Consensus 1 ~~~~~~i~~~~~~---~~~~~~S~~f~~~g~~W~l~~~p~~~~~--~~~~lsv~L~~~~~~~~~~~~~~~~~~~~~l~~~ 75 (126)
T cd00121 1 GKHTWKIVNFSEL---EGESIYSPPFEVGGYKWRIRIYPNGDGE--SGDYLSLYLELDKGESDLEKWSVRAEFTLKLVNQ 75 (126)
T ss_pred CEEEEEECCCCCC---CCcEEECCCEEEcCEeEEEEEEcCCCCC--CCCEEEEEEEecCCCCCCCCCcEEEEEEEEEECC
Confidence 4799999999992 3689999999999999999999999863 4789999999987765456799999999999999
Q ss_pred CCCce
Q 041274 101 KKDEF 105 (109)
Q Consensus 101 ~~~~~ 105 (109)
++++.
T Consensus 76 ~~~~~ 80 (126)
T cd00121 76 NGGKS 80 (126)
T ss_pred CCCcc
Confidence 85444
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=99.66 E-value=4.3e-16 Score=106.59 Aligned_cols=83 Identities=22% Similarity=0.372 Sum_probs=70.4
Q ss_pred CcEEEEEEcCccccccc--CCcEEEcccEEeC-CeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCC-CCCCEE-EEEEE
Q 041274 20 PAHFILKIEAFSSLVEN--DVEKYGSLEFDAG-GYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSF-GLGWEV-YVIFR 94 (109)
Q Consensus 20 ~~~~~w~I~~fs~~~~~--~~~~~~S~~F~vG-G~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~-~~~~~~-~a~f~ 94 (109)
|..+.|+|.||+++++. ....++||+|... ||+.+|++||||+..++.+.|+|||++++.++.+ ..+|++ .-+.+
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 46799999999998763 4678999999875 9999999999998744557899999999998765 478994 67999
Q ss_pred EEEEeCCC
Q 041274 95 LFVLDQKK 102 (109)
Q Consensus 95 ~~l~nq~~ 102 (109)
|.|+||+.
T Consensus 81 l~llDQ~~ 88 (167)
T cd03783 81 ITVLDQDP 88 (167)
T ss_pred EEEEcCCc
Confidence 99999964
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=99.65 E-value=7.9e-16 Score=105.06 Aligned_cols=81 Identities=23% Similarity=0.402 Sum_probs=70.0
Q ss_pred CcEEEEEEcCccccccc--CCcEEEcccEEe-CCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCC-CCCCEEE-EEEE
Q 041274 20 PAHFILKIEAFSSLVEN--DVEKYGSLEFDA-GGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSF-GLGWEVY-VIFR 94 (109)
Q Consensus 20 ~~~~~w~I~~fs~~~~~--~~~~~~S~~F~v-GG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~-~~~~~~~-a~f~ 94 (109)
|.++.|+|.||++++.. ....++||+|.. -||+.+|++||||+.. + .+|+|||++++.++.+ ..+|++. -+.+
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-Y-PGNLAIYLHLTSGPNDDQLQWPCPWQQAT 78 (167)
T ss_pred CCcEEEEeCcHHHHHHhcCCCceEECCCCcCccCceeEEEEEecCCCC-C-CCEEEEEEEEeccCCCccccCCCcCCeEE
Confidence 56899999999998763 367899999965 5999999999999984 3 6799999999998765 4789999 8999
Q ss_pred EEEEeCCC
Q 041274 95 LFVLDQKK 102 (109)
Q Consensus 95 ~~l~nq~~ 102 (109)
|.|+||+.
T Consensus 79 ~~LlDQ~~ 86 (167)
T cd03782 79 MMLLDQHP 86 (167)
T ss_pred EEEEcCCC
Confidence 99999974
No 17
>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=99.57 E-value=1.2e-14 Score=92.82 Aligned_cols=73 Identities=37% Similarity=0.646 Sum_probs=60.9
Q ss_pred EcCcccccccCCcEEEcccEEeCCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCCC-CCCEEEEEEEEEEEeCCCCce
Q 041274 27 IEAFSSLVENDVEKYGSLEFDAGGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSFG-LGWEVYVIFRLFVLDQKKDEF 105 (109)
Q Consensus 27 I~~fs~~~~~~~~~~~S~~F~vGG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~~-~~~~~~a~f~~~l~nq~~~~~ 105 (109)
|+|||+++ ..+..+.|+.|.+||+.|+|.+||+|+ .+++++||++....... .+|++.|+++|.++++.++..
T Consensus 1 i~nfs~l~-~~~~~~~s~~~~~~g~~W~l~~~~~~~-----~~~l~~~L~~~~~~~~~~~~w~~~~~~~~~~~~~~~~~~ 74 (119)
T PF00917_consen 1 IKNFSKLK-EGEEYSSSFVFSHGGYPWRLKVYPKGN-----GKYLSVYLHCDKGENDSDLEWSIEAEFRFRLLNQNGKSI 74 (119)
T ss_dssp ETTGGGHH-TSEEEEEEEESSTTSEEEEEEEETTES-----TTEEEEEEEEECSTTGGGSSSSEEEEEEEEEE-TTSCEE
T ss_pred CcccceEe-CCCcEECCCeEEECCEEEEEEEEeCCC-----cCcEEEEEEEeecccccccceeeeEEEEEEEecCCCCcc
Confidence 78999997 223456669999999999999999986 57999999999886543 579999999999999998763
No 18
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.22 E-value=6.6e-12 Score=101.49 Aligned_cols=80 Identities=26% Similarity=0.490 Sum_probs=65.4
Q ss_pred cCCCcEEEEEEcCcccccccCCcEEEcccEEeCCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCC--CC-CCCEEEEEE
Q 041274 17 HVPPAHFILKIEAFSSLVENDVEKYGSLEFDAGGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSS--FG-LGWEVYVIF 93 (109)
Q Consensus 17 ~~~~~~~~w~I~~fs~~~~~~~~~~~S~~F~vGG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~--~~-~~~~~~a~f 93 (109)
+...-+|+|+|.+||++. +++.||+|.|||+.|+|.++|.|+.. .+ +|+||+..-.+. +. ..|.++|+|
T Consensus 35 e~~~~sftW~vk~wsel~----~k~~Sp~F~vg~~twki~lfPqG~nq---~~-~sVyLe~~pqe~e~~~gk~~~ccaqF 106 (1089)
T COG5077 35 ELLEMSFTWKVKRWSELA----KKVESPPFSVGGHTWKIILFPQGNNQ---CN-VSVYLEYEPQELEETGGKYYDCCAQF 106 (1089)
T ss_pred HHhhcccceecCChhhhh----hhccCCcccccCeeEEEEEecccCCc---cc-cEEEEEeccchhhhhcCcchhhhhhe
Confidence 344668999999999995 68999999999999999999999872 33 999999875432 12 238999999
Q ss_pred EEEEEeCCCCc
Q 041274 94 RLFVLDQKKDE 104 (109)
Q Consensus 94 ~~~l~nq~~~~ 104 (109)
.|.|-|...+.
T Consensus 107 af~Is~p~~pt 117 (1089)
T COG5077 107 AFDISNPKYPT 117 (1089)
T ss_pred eeecCCCCCCc
Confidence 99998887644
No 19
>KOG1987 consensus Speckle-type POZ protein SPOP and related proteins with TRAF, MATH and BTB/POZ domains [Cell cycle control, cell division, chromosome partitioning; General function prediction only]
Probab=98.44 E-value=1.3e-06 Score=64.08 Aligned_cols=69 Identities=39% Similarity=0.677 Sum_probs=61.0
Q ss_pred EEEcCcccccccCCcEEEcccEEeCCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCCCCCCEEEEEEEEEEEeCCCCc
Q 041274 25 LKIEAFSSLVENDVEKYGSLEFDAGGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSFGLGWEVYVIFRLFVLDQKKDE 104 (109)
Q Consensus 25 w~I~~fs~~~~~~~~~~~S~~F~vGG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~~~~~~~~a~f~~~l~nq~~~~ 104 (109)
|.|.+|+... ..++|..|..||..|++.+||.|+ +.+.|+.+.... +|.+.+.++|.++||...+
T Consensus 8 ~~~~~~~~~~----l~~ys~~~~~~~~~~~~~~~~~~~-------~~~~~~~~~~~~----~~~~~~~~~l~v~n~~~~~ 72 (297)
T KOG1987|consen 8 WVISNFSSVG----LVIYSNGFVKGGCKWRLSAYPKGN-------YLSLTLSVSDSP----GWERYAKLRLTVVNQKSEK 72 (297)
T ss_pred eeeccCcchh----hhccccceeecCceEEEEEecCCC-------EEEEEEEeccCC----CcceeEEEEEEEccCCCcc
Confidence 9999998884 789999999999999999999984 789988887754 5999999999999999998
Q ss_pred e-eEe
Q 041274 105 F-LIL 108 (109)
Q Consensus 105 ~-~~~ 108 (109)
| .++
T Consensus 73 ~~~~~ 77 (297)
T KOG1987|consen 73 YLSTV 77 (297)
T ss_pred eeeee
Confidence 7 655
No 20
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=98.01 E-value=4.2e-06 Score=64.46 Aligned_cols=82 Identities=24% Similarity=0.309 Sum_probs=68.5
Q ss_pred CCCcEEEEEEcCcccccc----cCCcEEEcccEEe--CCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCC-CCCCEEE
Q 041274 18 VPPAHFILKIEAFSSLVE----NDVEKYGSLEFDA--GGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSF-GLGWEVY 90 (109)
Q Consensus 18 ~~~~~~~w~I~~fs~~~~----~~~~~~~S~~F~v--GG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~-~~~~~~~ 90 (109)
...++..|+|.+|+..+. +....++|+.|.. .||+.+.++|-||+.. +...++|+|+.+...+.+ ...|+.+
T Consensus 277 ~~~g~~iwki~~~~~~~~e~~~~~~~~~~S~~f~t~~~Gyk~~~~~~lng~g~-~~~~~~s~~~~~~~ge~d~~l~wpf~ 355 (391)
T KOG0297|consen 277 SYDGTLIWKIPDYGRKKQEAVAGATLSLFSPAFYTSKYGYKLCARIYLNGDGT-GKGTHLSLYFVVMRGEYDALLPWPFR 355 (391)
T ss_pred ccCCEEEEEecchhhhhHHHHhccCccccccccccccccHHHHhHhhhcCCCC-CCcceeeeeeeecccCcccccccCCC
Confidence 347899999999955543 2356899999976 5999999999999985 457899999999988765 3669999
Q ss_pred EEEEEEEEeC
Q 041274 91 VIFRLFVLDQ 100 (109)
Q Consensus 91 a~f~~~l~nq 100 (109)
-+.+|.+++|
T Consensus 356 ~~v~~~l~dq 365 (391)
T KOG0297|consen 356 QKVTLMLLDQ 365 (391)
T ss_pred CceEEEEecc
Confidence 9999999999
No 21
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=93.87 E-value=0.048 Score=47.24 Aligned_cols=72 Identities=22% Similarity=0.246 Sum_probs=57.4
Q ss_pred CcEEEEEEcCcccccccCCcEEEcccEEeCCeEEEEEEEeCCCcCCCCCCcEEEEEEeccCCCCCCCCEEEEEEEEEEEe
Q 041274 20 PAHFILKIEAFSSLVENDVEKYGSLEFDAGGYKWKLVVYPNGNKNENVKDHISVYLAMVDTSSFGLGWEVYVIFRLFVLD 99 (109)
Q Consensus 20 ~~~~~w~I~~fs~~~~~~~~~~~S~~F~vGG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~~~~~~~~a~f~~~l~n 99 (109)
....+|.+.+..... ....||.|..|+..|+|.+.|+|+. ...+++|+........ ..|.+++++.+.+.|
T Consensus 26 ~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~~~~~~~~~~----~~~~~~~~~~~~~~~~-~~~s~~~~~~~~v~~ 96 (1093)
T KOG1863|consen 26 NQSTTIDGIDDKSLL----YRALSSNFGAGATKWKILIAPKVNS----LQSTRKKLEVMPSQSL-KSWSCGAQAVLRVKN 96 (1093)
T ss_pred cccccccCcCcchhh----hHhcCccccccccceeeeeccccCc----ccceeEEeeeccCCCC-cceEecchhhhcccc
Confidence 444556665555553 4788999999999999999999984 5679999999877655 449999999999999
Q ss_pred C
Q 041274 100 Q 100 (109)
Q Consensus 100 q 100 (109)
.
T Consensus 97 ~ 97 (1093)
T KOG1863|consen 97 T 97 (1093)
T ss_pred C
Confidence 3
No 22
>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=70.29 E-value=0.055 Score=39.62 Aligned_cols=58 Identities=16% Similarity=-0.010 Sum_probs=46.5
Q ss_pred cEEEEEEcCccccccc-CCcEEEcccEEeCCeEEEEEEEeCCCcCCCCCCcEEEEEEecc
Q 041274 21 AHFILKIEAFSSLVEN-DVEKYGSLEFDAGGYKWKLVVYPNGNKNENVKDHISVYLAMVD 79 (109)
Q Consensus 21 ~~~~w~I~~fs~~~~~-~~~~~~S~~F~vGG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~ 79 (109)
..|+|.+.+++..... ......+..|.+++..|++.++|.|... ....+++.+|...+
T Consensus 156 ~~F~~~~s~~~~~~~~~~~~~~~a~~f~~~~~~lk~~~~~~l~~~-~~~~~~~~~l~~~~ 214 (297)
T KOG1987|consen 156 NGFQVLPSQVSSVERIFEKHPDLAAAFKYKNRHLKLACMPVLLSL-IETLNVSQSLQEAS 214 (297)
T ss_pred ceEEEeccchHHHHHhhcCChhhhhccccccHHHHHHHHHHHHHH-HHhhhhcccHHHhc
Confidence 8999999999988752 1247788999999999999999999873 23457788887655
No 23
>PF08922 DUF1905: Domain of unknown function (DUF1905); InterPro: IPR015018 This family consist of hypothetical bacterial proteins. ; PDB: 2D9R_A.
Probab=63.16 E-value=7 Score=23.40 Aligned_cols=18 Identities=28% Similarity=0.632 Sum_probs=14.9
Q ss_pred EEeCCeEEEEEEEeCCCc
Q 041274 46 FDAGGYKWKLVVYPNGNK 63 (109)
Q Consensus 46 F~vGG~~W~l~~yP~G~~ 63 (109)
=+++|+.|+-.+.|.|+.
T Consensus 37 ~tI~g~~~~~sl~p~g~G 54 (80)
T PF08922_consen 37 GTIDGHPWRTSLFPMGNG 54 (80)
T ss_dssp EEETTEEEEEEEEESSTT
T ss_pred EEECCEEEEEEEEECCCC
Confidence 367999999999997743
No 24
>COG4680 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=40.73 E-value=29 Score=21.76 Aligned_cols=16 Identities=44% Similarity=0.771 Sum_probs=13.5
Q ss_pred cEEeCCeEEEEEEEeC
Q 041274 45 EFDAGGYKWKLVVYPN 60 (109)
Q Consensus 45 ~F~vGG~~W~l~~yP~ 60 (109)
.|.+||.+.||.+|-.
T Consensus 58 Vfdi~GN~yRLIvhv~ 73 (98)
T COG4680 58 VFDIGGNKYRLIVHVA 73 (98)
T ss_pred EEEcCCCEEEEEEEEE
Confidence 5899999999998753
No 25
>PF15532 Toxin_53: Putative toxin 53
Probab=39.81 E-value=95 Score=19.72 Aligned_cols=15 Identities=27% Similarity=0.581 Sum_probs=12.2
Q ss_pred EeCCeEEEEEEEeCC
Q 041274 47 DAGGYKWKLVVYPNG 61 (109)
Q Consensus 47 ~vGG~~W~l~~yP~G 61 (109)
..+|++|||+++|-.
T Consensus 30 ~~~g~tyrvRvH~~D 44 (102)
T PF15532_consen 30 TDGGKTYRVRVHPAD 44 (102)
T ss_pred ecCCceEEEEecCCC
Confidence 457999999999754
No 26
>PF09907 DUF2136: Uncharacterized protein conserved in bacteria (DUF2136); InterPro: IPR018669 HigB (YgjN) is the toxin of the HigB-HigA toxin-antitoxin system, acting as a translation-dependent mRNA interferase. HigB inhibits protein synthesis by cleaving translated mRNAs within the coding region []. ; GO: 0016788 hydrolase activity, acting on ester bonds
Probab=30.59 E-value=48 Score=19.75 Aligned_cols=15 Identities=33% Similarity=0.685 Sum_probs=12.2
Q ss_pred cEEeCCeEEEEEEEe
Q 041274 45 EFDAGGYKWKLVVYP 59 (109)
Q Consensus 45 ~F~vGG~~W~l~~yP 59 (109)
.|.+||.+.||.+.=
T Consensus 40 vFnI~GN~yRlI~~I 54 (76)
T PF09907_consen 40 VFNIGGNKYRLIAKI 54 (76)
T ss_pred EEEcCCCcEEEEEEE
Confidence 478999999998744
No 27
>PF10898 DUF2716: Protein of unknown function (DUF2716); InterPro: IPR020323 This entry represents a group of uncharacterised proteins.
Probab=29.87 E-value=17 Score=24.52 Aligned_cols=12 Identities=42% Similarity=1.179 Sum_probs=10.4
Q ss_pred EEEEEEEeCCCc
Q 041274 52 KWKLVVYPNGNK 63 (109)
Q Consensus 52 ~W~l~~yP~G~~ 63 (109)
.|++-+||+|+-
T Consensus 103 ~W~vpv~PdGDY 114 (143)
T PF10898_consen 103 EWPVPVYPDGDY 114 (143)
T ss_pred CccccccCCCCe
Confidence 799999999843
No 28
>PF11320 DUF3122: Protein of unknown function (DUF3122); InterPro: IPR021469 This family of proteins with unknown function appear to be restricted to Cyanobacteria.
Probab=29.60 E-value=76 Score=21.14 Aligned_cols=28 Identities=18% Similarity=0.446 Sum_probs=18.9
Q ss_pred eCCeEEEEEEEeCCCcCCCCCCcEEEEEEecc
Q 041274 48 AGGYKWKLVVYPNGNKNENVKDHISVYLAMVD 79 (109)
Q Consensus 48 vGG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~ 79 (109)
-.|+.|++.+|.++... +--.+.|++..
T Consensus 24 ~~g~sWQvV~fkr~~~~----~~~~i~LRLVG 51 (134)
T PF11320_consen 24 QDGNSWQVVLFKRIKPG----QVKPINLRLVG 51 (134)
T ss_pred CCCCceEEEEEEecCCC----CCCceEEEEee
Confidence 36899999999998762 22345555543
No 29
>COG1236 YSH1 Predicted exonuclease of the beta-lactamase fold involved in RNA processing [Translation, ribosomal structure and biogenesis]
Probab=23.72 E-value=1.5e+02 Score=23.35 Aligned_cols=33 Identities=18% Similarity=0.253 Sum_probs=24.7
Q ss_pred EEcccEEeCCeEEEEEEEeCCCcCCCCCCcEEEEEEecc
Q 041274 41 YGSLEFDAGGYKWKLVVYPNGNKNENVKDHISVYLAMVD 79 (109)
Q Consensus 41 ~~S~~F~vGG~~W~l~~yP~G~~~~~~~~~iSlyL~l~~ 79 (109)
=++.++.++| .++.+||.|.- .+-.+++|+...
T Consensus 123 ~yg~~~~v~~--~~v~~~~AGHi----lGsa~~~le~~~ 155 (427)
T COG1236 123 PYGEPVEVGG--VKVTFYNAGHI----LGSAAILLEVDG 155 (427)
T ss_pred cCCCceEeee--EEEEEecCCCc----cceeEEEEEeCC
Confidence 3577789999 99999999987 355666666544
No 30
>PF08813 Phage_tail_3: Phage tail protein; InterPro: IPR014918 This entry is represented by Bacteriophage T1, Orf41. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. Proteins of this entry include phage tail proteins. They probably include bacterial Ig-like domains related to IPR003343 from INTERPRO. Which also includes a number of phage tail invasin proteins.
Probab=21.19 E-value=2.8e+02 Score=18.84 Aligned_cols=41 Identities=22% Similarity=0.343 Sum_probs=24.0
Q ss_pred EEEEEEeCCCcCCCCCCcEEEEEEeccCCCCCCCCEEEEEEEEEEEe
Q 041274 53 WKLVVYPNGNKNENVKDHISVYLAMVDTSSFGLGWEVYVIFRLFVLD 99 (109)
Q Consensus 53 W~l~~yP~G~~~~~~~~~iSlyL~l~~~~~~~~~~~~~a~f~~~l~n 99 (109)
||+. ||+|.. .+..-|+.+.+......+..+.+.++|.|..
T Consensus 118 ~r~~-~p~G~~-----~~~~g~vSf~~~ps~~~n~v~t~t~t~sl~g 158 (165)
T PF08813_consen 118 FRVT-LPNGST-----IYFNGYVSFNKTPSVGVNEVMTVTVTLSLQG 158 (165)
T ss_pred EEEE-cCCCCE-----EEEEEEEEEecCCccccCceEEEEEEEEEcc
Confidence 6665 599854 2677777665543333334566666666643
Done!