Query 041773
Match_columns 155
No_of_seqs 147 out of 1022
Neff 8.5
Searched_HMMs 46136
Date Fri Mar 29 10:30:04 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/041773.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/041773hhsearch_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 3.3E-22 7.1E-27 140.9 12.7 103 1-108 32-135 (137)
2 cd03774 MATH_SPOP Speckle-type 99.9 5.3E-22 1.1E-26 140.1 10.6 98 1-107 41-138 (139)
3 cd03775 MATH_Ubp21p Ubiquitin- 99.9 8.9E-22 1.9E-26 138.2 11.0 97 1-104 30-134 (134)
4 cd03779 MATH_TRAF1 Tumor Necro 99.8 4.7E-20 1E-24 131.1 10.2 103 1-104 40-147 (147)
5 cd03780 MATH_TRAF5 Tumor Necro 99.8 1.1E-19 2.4E-24 129.5 10.3 102 1-103 40-147 (148)
6 cd03776 MATH_TRAF6 Tumor Necro 99.8 1.3E-19 2.7E-24 129.1 7.9 100 1-104 40-147 (147)
7 cd00270 MATH_TRAF_C Tumor Necr 99.8 7.4E-19 1.6E-23 125.2 9.4 100 1-104 40-149 (149)
8 cd03781 MATH_TRAF4 Tumor Necro 99.8 9.7E-19 2.1E-23 125.6 9.5 100 1-104 40-154 (154)
9 cd03773 MATH_TRIM37 Tripartite 99.8 1.1E-18 2.3E-23 121.9 9.2 92 1-104 37-130 (132)
10 cd03777 MATH_TRAF3 Tumor Necro 99.8 2.7E-18 6E-23 126.5 9.9 102 1-105 78-185 (186)
11 cd03778 MATH_TRAF2 Tumor Necro 99.8 4.2E-18 9.2E-23 122.7 9.6 101 1-103 58-163 (164)
12 PF00917 MATH: MATH domain; I 99.7 9.5E-18 2.1E-22 114.2 9.2 92 1-105 27-119 (119)
13 cd00121 MATH MATH (meprin and 99.7 1.6E-17 3.4E-22 113.3 9.8 95 1-104 31-126 (126)
14 cd03771 MATH_Meprin Meprin fam 99.7 4.5E-16 9.8E-21 112.7 9.7 100 1-104 38-167 (167)
15 cd03783 MATH_Meprin_Alpha Mepr 99.5 4.7E-14 1E-18 101.6 7.9 101 1-104 38-167 (167)
16 cd03782 MATH_Meprin_Beta Mepri 99.5 1.7E-13 3.7E-18 98.3 8.5 99 1-103 38-166 (167)
17 smart00061 MATH meprin and TRA 99.3 2E-11 4.3E-16 79.5 8.5 65 1-79 31-95 (95)
18 COG5077 Ubiquitin carboxyl-ter 99.1 8.4E-11 1.8E-15 100.3 5.8 101 1-109 68-174 (1089)
19 KOG1987 Speckle-type POZ prote 99.0 2.2E-09 4.8E-14 84.2 8.9 129 17-155 42-189 (297)
20 KOG1863 Ubiquitin carboxyl-ter 98.2 1.9E-06 4.1E-11 78.4 5.2 102 1-111 56-157 (1093)
21 KOG0297 TNF receptor-associate 91.8 0.13 2.8E-06 42.4 2.4 45 3-48 321-365 (391)
22 COG5077 Ubiquitin carboxyl-ter 88.5 0.16 3.6E-06 44.9 0.5 31 124-155 37-67 (1089)
23 cd03777 MATH_TRAF3 Tumor Necro 87.0 0.29 6.3E-06 36.2 1.0 32 124-155 37-77 (186)
24 PF06565 DUF1126: Repeat of un 27.7 31 0.00067 17.9 0.7 10 91-100 5-14 (33)
25 PF06943 zf-LSD1: LSD1 zinc fi 24.1 46 0.001 16.2 0.9 10 1-10 6-15 (25)
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=99.89 E-value=3.3e-22 Score=140.87 Aligned_cols=103 Identities=12% Similarity=0.276 Sum_probs=81.1
Q ss_pred CeEEecCCCCCC-CCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCcccccccccc
Q 041773 1 RLILYPNGNKKG-QGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLI 79 (155)
Q Consensus 1 rl~~yP~G~~~~-~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi 79 (155)
||++||+|+... ...+||||||+|.+....+ . |++.|+|+|+|+||++........ ..+.|.....+|||.+||
T Consensus 32 ~i~~~P~g~~~~~~~~~~lsvyL~~~~~~~~~-~-w~i~a~~~~~l~~~~~~~~~~~~~---~~~~f~~~~~~~G~~~fi 106 (137)
T cd03772 32 KIMVMPRNYPDRNPHQKSVGFFLQCNAESDST-S-WSCHAQAVLRIINYKDDEPSFSRR---ISHLFFSKENDWGFSNFM 106 (137)
T ss_pred EEEEEeCCCCCCCCCCCeEEEEEeeCCcCCCC-C-CeEEEEEEEEEEcCCCCcccEEEe---eeeEEcCCCCCccchhee
Confidence 689999997532 1237999999997654333 5 999999999999998543322222 346787666799999999
Q ss_pred cccccccCCCCeeeCCEEEEEEEEEEeCC
Q 041773 80 PLQAFKEPSNGYLVDDSCVFGAEIFVIKP 108 (155)
Q Consensus 80 ~~~~L~~~~~gyl~dD~l~i~~~V~v~~~ 108 (155)
+|++|+++++|||+||+|+|+|+|+|-.+
T Consensus 107 ~~~~L~~~~sgyl~~D~l~Ie~~V~~~~~ 135 (137)
T cd03772 107 TWSEVTDPEKGFIEDDTITLEVYVQADAP 135 (137)
T ss_pred EHHHhcCCCCCcEECCEEEEEEEEEeeCC
Confidence 99999877899999999999999988653
No 2
>cd03774 MATH_SPOP Speckle-type POZ protein (SPOP) family, MATH domain; composed of proteins with similarity to human SPOP. SPOP was isolated as a novel antigen recognized by serum from a scleroderma patient, whose overexpression in COS cells results in a discrete speckled pattern in the nuclei. It contains an N-terminal MATH domain and a C-terminal BTB (also called POZ) domain. Together with Cul3, SPOP constitutes an ubiquitin E3 ligase which is able to ubiquitinate the PcG protein BMI1, the variant histone macroH2A1 and the death domain-associated protein Daxx. Therefore, SPOP may be involved in the regulation of these proteins and may play a role in transcriptional regulation, apoptosis and X-chromosome inactivation. Cul3 binds to the BTB domain of SPOP whereas Daxx and the macroH2A1 nonhistone region have been shown to bind to the MATH domain. Both MATH and BTB domains are necessary for the nuclear speckled accumulation of SPOP. There are many proteins, mostly uncharacterized, conta
Probab=99.88 E-value=5.3e-22 Score=140.06 Aligned_cols=98 Identities=26% Similarity=0.346 Sum_probs=78.9
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCccccccccccc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIP 80 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi~ 80 (155)
||++||+|+..+ ..+|+||||++++.+ . +++.|+|+|+|+||++........ ...+.|.. ..+|||.+||+
T Consensus 41 ~l~~yP~G~~~~-~~~~iSlyL~l~~~~----~-~~v~a~f~~~l~n~~~~~~~~~~~--~~~~~f~~-~~~wG~~~fi~ 111 (139)
T cd03774 41 CLRVNPKGLDEE-SKDYLSLYLLLVSCP----K-SEVRAKFKFSILNAKGEETKAMES--QRAYRFVQ-GKDWGFKKFIR 111 (139)
T ss_pred EEEEeCCCCCCC-CCCeEEEEEEEccCC----C-CcEEEEEEEEEEecCCCeeeeecc--cCcEeCCC-CCccCHHHeee
Confidence 589999998643 357999999997632 2 679999999999999865432211 23567764 46899999999
Q ss_pred ccccccCCCCeeeCCEEEEEEEEEEeC
Q 041773 81 LQAFKEPSNGYLVDDSCVFGAEIFVIK 107 (155)
Q Consensus 81 ~~~L~~~~~gyl~dD~l~i~~~V~v~~ 107 (155)
+++|+++.+|||+||+|+|+|+|+|++
T Consensus 112 ~~~L~~~~~g~l~dD~l~I~c~I~V~~ 138 (139)
T cd03774 112 RDFLLDEANGLLPDDKLTLFCEVSVVQ 138 (139)
T ss_pred HHHhhhhhcccccCCEEEEEEEEEEEc
Confidence 999987778999999999999999986
No 3
>cd03775 MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p) family, MATH domain; composed of fungal proteins with similarity to Ubp21p of fission yeast. Ubp21p is a deubiquitinating enzyme that may be involved in the regulation of the protein kinase Prp4p, which controls the formation of active spliceosomes. Members of this family are similar to human HAUSP (Herpesvirus-associated ubiquitin-specific protease) in that they contain an N-terminal MATH domain and a C-terminal catalytic protease (C19 family) domain. HAUSP is also an ubiquitin-specific protease that specifically catalyzes the deubiquitylation of p53 and MDM2. The MATH domain of HAUSP contains the binding site for p53 and MDM2. Similarly, the MATH domain of members in this family may be involved in substrate binding.
Probab=99.87 E-value=8.9e-22 Score=138.23 Aligned_cols=97 Identities=20% Similarity=0.424 Sum_probs=78.9
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCC----CCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCccccccc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTY----FPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGID 76 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~----~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~ 76 (155)
||++||+|+.. .+||||||++++.+. .+++ |.+.|+|+|+|+||.++....... ..+.|+....+|||.
T Consensus 30 ~l~~yP~G~~~---~~~iSlyL~l~~~~~~~~~~~~~-~~v~a~f~~~l~n~~~~~~~~~~~---~~~~F~~~~~~wG~~ 102 (134)
T cd03775 30 RILLFPQGNSQ---TGGVSIYLEPHPEEEEKAPLDED-WSVCAQFALVISNPGDPSIQLSNV---AHHRFNAEDKDWGFT 102 (134)
T ss_pred EEEEeCCCCCC---CCeEEEEEEecCcccccccCCCC-CeEEEEEEEEEEcCCCCccceEcc---ceeEeCCCCCCCChh
Confidence 68999999864 479999999977543 2445 999999999999998655433222 478998766799999
Q ss_pred ccccccccccC----CCCeeeCCEEEEEEEEE
Q 041773 77 KLIPLQAFKEP----SNGYLVDDSCVFGAEIF 104 (155)
Q Consensus 77 ~Fi~~~~L~~~----~~gyl~dD~l~i~~~V~ 104 (155)
+||++++|++| ++|||+||+|+|+|+|.
T Consensus 103 ~fi~~~~L~~~~~~~~~g~l~nD~l~I~~~~~ 134 (134)
T cd03775 103 RFIELRKLAHRTPDKPSPFLENGELNITVYVR 134 (134)
T ss_pred HcccHHHHcccccCCCCceeECCEEEEEEEEC
Confidence 99999999965 57999999999999874
No 4
>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=99.83 E-value=4.7e-20 Score=131.11 Aligned_cols=103 Identities=24% Similarity=0.411 Sum_probs=76.7
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCC-CceEEec----CCcccccc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDD-GAVIRLH----SMKRECGI 75 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~-~~~~~F~----~~~~~wG~ 75 (155)
+|.+||||++.+. .+|+||||+++..+.+...+|++.++++|+|+||.+.......... ...+.|+ ..+.+||+
T Consensus 40 ~i~~ypnG~~~~~-~~~iSv~l~l~~g~~D~~l~wpv~~~~tfsLlDq~~~~~~~~~~~~~~~~~~F~rP~~~~n~~~G~ 118 (147)
T cd03779 40 CLRLYLNGDGAGK-GTHISLFFVIMKGEYDALLPWPFRHKVTFMLLDQNNREHVIDAFRPDLSSASFQRPVSDMNVASGC 118 (147)
T ss_pred EEEEEcCCCCCCC-CCEEEEEEEEecCCcccccCcceEEEEEEEEECCCCCCCCcEeecCCcccccccCcccCCCCCcch
Confidence 4889999998653 4699999999986554322499999999999999875442211110 0135686 33458999
Q ss_pred cccccccccccCCCCeeeCCEEEEEEEEE
Q 041773 76 DKLIPLQAFKEPSNGYLVDDSCVFGAEIF 104 (155)
Q Consensus 76 ~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~ 104 (155)
.+||++++|+.+..+||.||+++|+|+|.
T Consensus 119 ~~Fi~~~~Le~s~~~ylkDD~~~Irc~V~ 147 (147)
T cd03779 119 PLFFPLKKLQSPKHAYCKDDTIYIKCVVD 147 (147)
T ss_pred hheeEHHHhcccCCCcEeCCEEEEEEEEC
Confidence 99999999983224899999999999873
No 5
>cd03780 MATH_TRAF5 Tumor Necrosis Factor Receptor (TNFR)-Associated Factor (TRAF) family, TRAF5 subfamily, TRAF domain, C-terminal MATH subdomain; TRAF molecules serve as adapter proteins that link TNFRs and downstream kinase cascades resulting in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses. TRAF5 was identified as an activator of nuclear factor-kappaB and a regulator of lymphotoxin-beta receptor and CD40 signaling. Its interaction with CD40 is indirect, involving hetero-oligomerization with TRAF3. In addition, TRAF5 has been shown to associate with other TNFRs including CD27, CD30, OX40 and GITR (glucocorticoid-induced TNFR). It plays a role in modulating Th2 immune responses (driven by OX40 costimulation) and T-cell activation (triggered by GITR). It is also involved in osteoclastogenesis. TRAF5 contains a RING finger domain, five zinc finger domains, and a TRAF domain. The TRAF domain can be divided into a more dive
Probab=99.82 E-value=1.1e-19 Score=129.52 Aligned_cols=102 Identities=18% Similarity=0.332 Sum_probs=77.7
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCcee-EEec-CCCceEEecCC----ccccc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYL-AIRY-DDGAVIRLHSM----KRECG 74 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~-~~~~-~~~~~~~F~~~----~~~wG 74 (155)
+|++||||.+.+.+ +||||||+++..+.+...+|++.++++|.|+||.+.... .... +....+.|+.. +.+||
T Consensus 40 ~i~~ypnG~~~~~~-~~iSv~l~l~~g~~D~~l~wp~~~~~tfsLlDq~~~~~~~~~~~~~~~~~~~F~rp~~~~n~~~G 118 (148)
T cd03780 40 CARAYLNGDGSGKG-THLSLYFVVMRGEFDSLLQWPFRQRVTLMLLDQSGKKNHIMETFKADPNSSSFKRPDGEMNIASG 118 (148)
T ss_pred EEEEEcCCCCCCCC-CEEEEEEEEecCccccccCcceEEEEEEEEECCCCCCCCcceeeecCCccccccCCCCCCCCCcC
Confidence 47899999986543 599999999987666543599999999999999865332 1111 00123567544 45799
Q ss_pred ccccccccccccCCCCeeeCCEEEEEEEE
Q 041773 75 IDKLIPLQAFKEPSNGYLVDDSCVFGAEI 103 (155)
Q Consensus 75 ~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V 103 (155)
+.+||++++|+.++.+||.||+++|+|.|
T Consensus 119 ~~~Fi~~~~Le~s~~~ylkdD~~~Ik~~v 147 (148)
T cd03780 119 CPRFVAHSVLENAKNTYIKDDTLFLKVAV 147 (148)
T ss_pred hhheeEHHHhhcccCCcCcCCEEEEEEEE
Confidence 99999999998544599999999999987
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=99.80 E-value=1.3e-19 Score=129.14 Aligned_cols=100 Identities=12% Similarity=0.137 Sum_probs=74.8
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCC-CCCCceEEEEEEEEEEeCCCCceeEE-e-cCCCceEEecC-----Cccc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYF-PNNPWEVFVNFTFFVQDRIKNEYLAI-R-YDDGAVIRLHS-----MKRE 72 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~-~~~~w~~~a~f~l~l~n~~~~~~~~~-~-~~~~~~~~F~~-----~~~~ 72 (155)
+|++||||...+ ..+||||||+|++...+ .. +|++.|+|+|+|+||.++..... . .+......|.. ...+
T Consensus 40 ~i~~yP~G~~~~-~~~~lS~~L~l~~~~~d~~l-~wpv~a~~~~~lldq~~~~~~~~~~~~~~~~~~~F~~p~~~~~~~~ 117 (147)
T cd03776 40 CARLNLSLPEAR-CPNYISLFVHLMQGENDSHL-DWPFQGTITLTLLDQSEPRQNIHETMMSKPELLAFQRPTTDRNPKG 117 (147)
T ss_pred EEEEEeCCCCCC-CCCEEEEEEEEeccCCCccc-CCcccceeEEEEECCCcccCccEEEEEcCCChHhhcCCCcCCCCCC
Confidence 589999998764 34799999999876543 23 39999999999999987432210 0 10112345652 2357
Q ss_pred ccccccccccccccCCCCeeeCCEEEEEEEEE
Q 041773 73 CGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIF 104 (155)
Q Consensus 73 wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~ 104 (155)
|||.+||++++|+ +.+||.||+|+|+|+|.
T Consensus 118 ~G~~~fi~~~~Le--~~~yl~dD~l~I~c~V~ 147 (147)
T cd03776 118 FGYVEFAHIEDLL--QRGFVKNDTLLIKIEVN 147 (147)
T ss_pred eeEceeeEHHHhh--hCCCccCCEEEEEEEEC
Confidence 9999999999998 56899999999999984
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=99.79 E-value=7.4e-19 Score=125.19 Aligned_cols=100 Identities=23% Similarity=0.393 Sum_probs=73.4
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCC-CCCCceEEEEEEEEEEeCCCC---ceeEEe-cCCCceEEec-----CCc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYF-PNNPWEVFVNFTFFVQDRIKN---EYLAIR-YDDGAVIRLH-----SMK 70 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~-~~~~w~~~a~f~l~l~n~~~~---~~~~~~-~~~~~~~~F~-----~~~ 70 (155)
||++||||+..+. .+||||||++++.+.+ ... |++.|+|+|+|+||.++ ++.... .+....+.|. ...
T Consensus 40 ~i~~yP~G~~~~~-~~~lsl~L~l~~~~~d~~~~-w~~~~~~~~~l~d~~~~~~~~~~~~~~~~~~~~~~f~~~~~~~~~ 117 (149)
T cd00270 40 CLRLYLNGDGTGK-GTHLSLFVHVMKGEYDALLE-WPFRGKITLTLLDQSDDSKRKHITETFMPDPNSSAFQRPPTGENN 117 (149)
T ss_pred EEEEEeCCCCCCC-CCEEEEEEEEeccCCCcccc-CCccceEEEEEECCCCccccCceEEEEEcCCchHhhcCCCcccCC
Confidence 5899999986543 3699999999887544 234 99999999999999874 221111 0000123454 134
Q ss_pred ccccccccccccccccCCCCeeeCCEEEEEEEEE
Q 041773 71 RECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIF 104 (155)
Q Consensus 71 ~~wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~ 104 (155)
.+|||.+||++++|+ +.|||+||+|+|+|+|.
T Consensus 118 ~~~G~~~fi~~~~L~--~~gfl~dD~l~I~~~v~ 149 (149)
T cd00270 118 IGFGYPEFVPLEKLE--SRGYVKDDTLFIKVEVD 149 (149)
T ss_pred CCcCcceEeEHHHhc--cCCCEeCCEEEEEEEEC
Confidence 689999999999998 46899999999999983
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=99.78 E-value=9.7e-19 Score=125.60 Aligned_cols=100 Identities=21% Similarity=0.342 Sum_probs=73.9
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCCC-CCCceEEEEEEEEEEeCCCCc--e--eE-Eec-CCCceEEecC-----
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYFP-NNPWEVFVNFTFFVQDRIKNE--Y--LA-IRY-DDGAVIRLHS----- 68 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~-~~~w~~~a~f~l~l~n~~~~~--~--~~-~~~-~~~~~~~F~~----- 68 (155)
+|++||||...+. .+|||+||++++.+.+. .. |++.++|+|+|+||.+.. . .. ... +......|+.
T Consensus 40 ~i~~yPnG~~~~~-~~~vs~~l~l~~ge~d~~l~-wp~~a~~~~~llDq~~~~~~~~~~~~~~~~~~~~~~~F~rp~~~~ 117 (154)
T cd03781 40 QVSAFLNGNGSGE-GSHLSVYIRVLPGEYDNLLE-WPFSHRITFTLLDQSDPSLSKPQHITETFTPDPTWKNFQKPSASR 117 (154)
T ss_pred EEEEECCCCCCCC-CCEEEEEEEEecCCcccccC-CceeeEEEEEEECCCCCccccCcceEEEEEcCCchhhhcCCcccc
Confidence 4789999987654 46999999999865543 24 999999999999998741 1 11 000 0011234542
Q ss_pred ---CcccccccccccccccccCCCCeeeCCEEEEEEEEE
Q 041773 69 ---MKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIF 104 (155)
Q Consensus 69 ---~~~~wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~ 104 (155)
.+.+||+.+||++++|+ +++||.||+++|+|+|.
T Consensus 118 ~~~~~~~~G~~~fi~~~~Le--~~~yl~dD~l~Irc~v~ 154 (154)
T cd03781 118 LDESTLGFGYPKFISHEDLK--KRNYIKDDAIFLRASVE 154 (154)
T ss_pred cCCCCCccchhHeeEHHHHh--hCCcccCCEEEEEEEeC
Confidence 33579999999999998 57899999999999873
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=99.78 E-value=1.1e-18 Score=121.94 Aligned_cols=92 Identities=17% Similarity=0.271 Sum_probs=72.0
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCccccccccccc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIP 80 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi~ 80 (155)
||++||+|+..+. .+||||||.+.+.. . |.+.++|+|+|+||.++....... ..+.|.. ..+|||.+||+
T Consensus 37 ~i~~yP~G~~~~~-~~~lSl~L~l~~~~----~-~~~~~~~~l~llnq~~~~~~~~~~---~~~~f~~-~~~wG~~~Fi~ 106 (132)
T cd03773 37 RLKVYPDGNGEVR-GNFLSVFLELCSGL----G-EASKYEYRVEMVHQANPTKNIKRE---FASDFEV-GECWGYNRFFR 106 (132)
T ss_pred EEEEECCCCCCCC-CCEEEEEEEeecCC----C-CceeEEEEEEEEcCCCCccceEEe---ccccccC-CCCcCHHHhcc
Confidence 6899999987543 46999999987632 2 678899999999995443333222 3567765 35799999999
Q ss_pred ccccccCCCCeeeC--CEEEEEEEEE
Q 041773 81 LQAFKEPSNGYLVD--DSCVFGAEIF 104 (155)
Q Consensus 81 ~~~L~~~~~gyl~d--D~l~i~~~V~ 104 (155)
+++|+ ++|||.| |+|+|+|.|+
T Consensus 107 ~~~L~--~~gfl~~~~D~l~i~~~v~ 130 (132)
T cd03773 107 LDLLI--NEGYLLPENDTLILRFSVR 130 (132)
T ss_pred HHHHh--hCCCcCCCCCEEEEEEEEe
Confidence 99998 4899999 9999999985
No 10
>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=99.77 E-value=2.7e-18 Score=126.51 Aligned_cols=102 Identities=18% Similarity=0.285 Sum_probs=76.4
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeE-Ee-cCCCceEEec-CC---ccccc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLA-IR-YDDGAVIRLH-SM---KRECG 74 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~-~~-~~~~~~~~F~-~~---~~~wG 74 (155)
+|.+||||++.+.+ +||||||+++.++.++..+|++.++|+|.|+||.+..... .. .+......|+ +. +.+||
T Consensus 78 ~i~~ypnG~g~~~~-~~iSvyl~L~~ge~D~~L~WP~~~~~tfsLlDQ~~~~~~~~~~~~p~p~~~~F~rp~~~~n~~~G 156 (186)
T cd03777 78 CARVYLNGDGMGKG-THLSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASG 156 (186)
T ss_pred EEEEEcCCCCCCCC-CEEEEEEEEecCCcccccCCceeEEEEEEEEcCCCccccccceeccCCccccccCCccCCCCCCC
Confidence 47899999986544 6999999999876654335999999999999997532111 00 0011235575 33 45899
Q ss_pred ccccccccccccCCCCeeeCCEEEEEEEEEE
Q 041773 75 IDKLIPLQAFKEPSNGYLVDDSCVFGAEIFV 105 (155)
Q Consensus 75 ~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~v 105 (155)
+++||++++|+ +.+||.||+++|+|.|..
T Consensus 157 ~~~Fi~~~~Le--~~~ylkdD~l~Irv~v~~ 185 (186)
T cd03777 157 CPVFVAQTVLE--NGTYIKDDTIFIKVIVDT 185 (186)
T ss_pred chheeEHHHhc--cCCcEeCCEEEEEEEEec
Confidence 99999999998 688999999999998863
No 11
>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=99.76 E-value=4.2e-18 Score=122.69 Aligned_cols=101 Identities=23% Similarity=0.375 Sum_probs=77.5
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEec-CCCceEEec----CCcccccc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRY-DDGAVIRLH----SMKRECGI 75 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~-~~~~~~~F~----~~~~~wG~ 75 (155)
+|++||||++.+.++ ||||||++++++.+...+|++..+++|+|+||++.++..... ++.....|+ ..+.+||+
T Consensus 58 ~l~~ylnG~g~~~g~-~LSly~~l~~Ge~D~~L~WPf~~~itl~llDQ~~r~hi~~~~~pd~~~~~f~RP~~~~n~~~G~ 136 (164)
T cd03778 58 CLRIYLNGDGTGRGT-HLSLFFVVMKGPNDALLRWPFNQKVTLMLLDQNNREHVIDAFRPDVTSSSFQRPVNDMNIASGC 136 (164)
T ss_pred EEEEEeCCCCCCCCC-EEEEEEEEecCCcCcccCCceeeEEEEEEECCCCCCcceeEEEcCcchHhcCCCCcccccCcCc
Confidence 478999999876654 999999999998887324999999999999998755533211 011112352 23468999
Q ss_pred cccccccccccCCCCeeeCCEEEEEEEE
Q 041773 76 DKLIPLQAFKEPSNGYLVDDSCVFGAEI 103 (155)
Q Consensus 76 ~~Fi~~~~L~~~~~gyl~dD~l~i~~~V 103 (155)
+.||++++|+.+ .|||.||+|.|+|.|
T Consensus 137 ~~Fv~l~~l~~~-~~Yv~dDtlfIk~~V 163 (164)
T cd03778 137 PLFCPVSKXEAK-NSYVRDDAIFIKAIV 163 (164)
T ss_pred ceEEEhhHcccc-CCcccCCeEEEEEEE
Confidence 999999999843 699999999999977
No 12
>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=99.75 E-value=9.5e-18 Score=114.20 Aligned_cols=92 Identities=24% Similarity=0.413 Sum_probs=74.9
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCCC-CCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCcccccccccc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYFP-NNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLI 79 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~-~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi 79 (155)
+|.+||+|+ .+|||+||+|...+... .. |++.|++++.|+++.++..... . ..+.|... .+|||.+||
T Consensus 27 ~l~~~~~~~-----~~~l~~~L~~~~~~~~~~~~-w~~~~~~~~~~~~~~~~~~~~~-~---~~~~F~~~-~~~g~~~fi 95 (119)
T PF00917_consen 27 RLKVYPKGN-----GKYLSVYLHCDKGENDSDLE-WSIEAEFRFRLLNQNGKSISKR-I---KSHSFNNP-SSWGWSSFI 95 (119)
T ss_dssp EEEEETTES-----TTEEEEEEEEECSTTGGGSS-SSEEEEEEEEEE-TTSCEEEEE-E---ECEEECTT-SEEEEEEEE
T ss_pred EEEEEeCCC-----cCcEEEEEEEeecccccccc-eeeeEEEEEEEecCCCCcceee-e---eeeEEeee-cccchhhee
Confidence 589999998 26999999999886553 44 9999999999999998763322 1 14788754 689999999
Q ss_pred cccccccCCCCeeeCCEEEEEEEEEE
Q 041773 80 PLQAFKEPSNGYLVDDSCVFGAEIFV 105 (155)
Q Consensus 80 ~~~~L~~~~~gyl~dD~l~i~~~V~v 105 (155)
++++|+++ .||.||+|+|+|+|+|
T Consensus 96 ~~~~l~~~--~fl~dd~l~ie~~v~I 119 (119)
T PF00917_consen 96 SWEDLEDP--YFLVDDSLTIEVEVKI 119 (119)
T ss_dssp EHHHHTTC--TTSBTTEEEEEEEEEE
T ss_pred EHHHhCcc--CCeECCEEEEEEEEEC
Confidence 99999954 3899999999999987
No 13
>cd00121 MATH MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane and are capable of cleaving growth factors, extracellular matrix proteins, and biologically active peptides. TRAF molecules serve as adapter proteins that link cell surface receptors of the Tumor Necrosis Factor and 1nterleukin-1/Toll-like families to downstream kinase cascades, which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. Other members include the ubiquitin ligases, TRIM37 and SPOP, and the ubiquitin-specific proteases, HAUSP and Ubp21p. A large number of uncharacterized members mostly from lineage-specific expansions in C. elegans and rice contain MATH and BTB domains, similar to SPOP. The MATH doma
Probab=99.74 E-value=1.6e-17 Score=113.35 Aligned_cols=95 Identities=27% Similarity=0.458 Sum_probs=73.1
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEe-cCCcccccccccc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRL-HSMKRECGIDKLI 79 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F-~~~~~~wG~~~Fi 79 (155)
||++||+|... ..+||||||+|.+....... |.+.|+|+|.|+|+++.+...... .+.| .....+|||.+||
T Consensus 31 ~l~~~p~~~~~--~~~~lsv~L~~~~~~~~~~~-~~~~~~~~~~l~~~~~~~~~~~~~----~~~~~~~~~~~~G~~~fi 103 (126)
T cd00121 31 RIRIYPNGDGE--SGDYLSLYLELDKGESDLEK-WSVRAEFTLKLVNQNGGKSLSKSF----THVFFSEKGSGWGFPKFI 103 (126)
T ss_pred EEEEEcCCCCC--CCCEEEEEEEecCCCCCCCC-CcEEEEEEEEEECCCCCccceEec----cCCcCCCCCCCCChHHee
Confidence 68999999865 34699999999876554444 999999999999998444433222 2334 2445799999999
Q ss_pred cccccccCCCCeeeCCEEEEEEEEE
Q 041773 80 PLQAFKEPSNGYLVDDSCVFGAEIF 104 (155)
Q Consensus 80 ~~~~L~~~~~gyl~dD~l~i~~~V~ 104 (155)
++++|++ .++++||+|+|+|+|.
T Consensus 104 ~~~~l~~--~~~~~~d~l~i~~~v~ 126 (126)
T cd00121 104 SWDDLED--SYYLVDDSLTIEVEVK 126 (126)
T ss_pred EHHHhcc--CCcEECCEEEEEEEEC
Confidence 9999994 3349999999999984
No 14
>cd03771 MATH_Meprin Meprin family, MATH domain; Meprins are multidomain, highly glycosylated extracellular metalloproteases, which are either anchored to the membrane or secreted into extracellular spaces. They are expressed in renal and intestinal brush border membranes, leukocytes, and cancer cells, and are capable of cleaving growth factors, cytokines, extracellular matrix proteins, and biologically active peptides. Meprin proteases are composed of two related subunits, alpha and beta, which form homo- or hetro-complexes where the basic unit is a disulfide-linked dimer. Despite their similarity, the two subunits differ in their ability to self-associate, in proteolytic processing during biosynthesis and in substrate specificity. Both subunits are synthesized as membrane spanning proteins, however, the alpha subunit is cleaved during biosynthesis and loses its transmembrane domain. Meprin beta forms homodimers or heterotetramers while meprin alpha oligomerizes into large complexes co
Probab=99.67 E-value=4.5e-16 Score=112.74 Aligned_cols=100 Identities=16% Similarity=0.136 Sum_probs=70.3
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCce-EEEEEEEEEEeCCC---C-ceeEE---ecCCCc-----eEEec
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWE-VFVNFTFFVQDRIK---N-EYLAI---RYDDGA-----VIRLH 67 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~-~~a~f~l~l~n~~~---~-~~~~~---~~~~~~-----~~~F~ 67 (155)
+|++||||+.. .+ +||||||++++.+.+...+|+ +.|+++|+|+||.. . .+... .+.... ...|+
T Consensus 38 ~I~~YPnG~~~-~~-~~lSlyL~L~~g~~d~~L~WP~v~a~~t~~LlDQ~~~~~~r~~~~~~~~~dp~~~~~~~~~~~~~ 115 (167)
T cd03771 38 QVGLYPNGTES-YP-GYTGLYFHLCSGENDDVLEWPCPNRQATMTLLDQDPDIQQRMSNQRSFTTDPSMTSSDNGEYFWD 115 (167)
T ss_pred EEEEEeCCCCC-CC-CcceEEEEEecCCccccccCcceeEEEEEEEECCCCcccccCcceEEEecCCccccccccccccc
Confidence 58999999976 44 699999999987655333499 58999999999972 1 11111 010000 01122
Q ss_pred C-----------------CcccccccccccccccccCCCCeeeCCEEEEEEEEE
Q 041773 68 S-----------------MKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIF 104 (155)
Q Consensus 68 ~-----------------~~~~wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~ 104 (155)
. ...+|||..||++++|+ +.+||.||+|.|+++++
T Consensus 116 rP~~~~~~~~~~~~~~~~~~~g~G~~~Fis~~~L~--~r~ylk~dtl~i~~~~~ 167 (167)
T cd03771 116 RPSKVGSYDTDTNGCTCYRGPGYGWSTFISHSRLR--RRDFLKGDDLIILLDFE 167 (167)
T ss_pred CCccccccccccccccccccCccccccceeHHHhc--cCCCCcCCEEEEEEEeC
Confidence 1 22489999999999999 56799999999999873
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=99.52 E-value=4.7e-14 Score=101.57 Aligned_cols=101 Identities=17% Similarity=0.219 Sum_probs=72.2
Q ss_pred CeEEecCCCCC-CCCCCeEEEEEEEccCCCCCCCCceE-EEEEEEEEEeCCC---Cc-eeEEecC-CC--c------eEE
Q 041773 1 RLILYPNGNKK-GQGTGHISLYLALDESTYFPNNPWEV-FVNFTFFVQDRIK---NE-YLAIRYD-DG--A------VIR 65 (155)
Q Consensus 1 rl~~yP~G~~~-~~~~~~lSlyL~l~~~~~~~~~~w~~-~a~f~l~l~n~~~---~~-~~~~~~~-~~--~------~~~ 65 (155)
.|.+||||++. +.+ .|+|||++++.++++..-+|++ .-+.+|.|+||+. .+ +.....+ .. . ...
T Consensus 38 ~l~~~lng~~~~~~g-~~lSl~~~lm~Ge~D~~L~WP~~~~~itl~llDQ~~~~~~r~~~~~sf~~d~~~~~~~~~~~~~ 116 (167)
T cd03783 38 GVSLYPLSNESDYSG-NYTGLYFHLCSGENDAVLEWPALNRQAIITVLDQDPDVRLRMSSSRSFTTDKSQTSSAINGTLR 116 (167)
T ss_pred EEEEEecCCCCCCCC-CEEEEEEEEecccCCCcccCCCcCCEEEEEEEcCCcchhhccccceeeecCCCccccccccccc
Confidence 37899999864 334 4999999999998886546995 5699999999963 11 1111000 00 0 012
Q ss_pred ecC--------------CcccccccccccccccccCCCCeeeCCEEEEEEEEE
Q 041773 66 LHS--------------MKRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEIF 104 (155)
Q Consensus 66 F~~--------------~~~~wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V~ 104 (155)
|+. ...++||..||++++|+ +.+||.||+|.|.++++
T Consensus 117 f~rP~~~~~~~~~~~~~~~~gfG~~~Fish~~L~--~r~yikdDtlfI~~~~~ 167 (167)
T cd03783 117 WDRPSRVGTYDTSCDCFRGIDFGWSTFISHSQLR--RRSFLKNDDLIIFVDFE 167 (167)
T ss_pred ccCCcccccccccccccCCcccccccceeHHHHh--hCCcccCCeEEEEEecC
Confidence 432 23589999999999999 68899999999998763
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=99.49 E-value=1.7e-13 Score=98.33 Aligned_cols=99 Identities=16% Similarity=0.225 Sum_probs=73.2
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEE-EEEEEEEEeCCC---C-ceeEE---ecCCCceE---Ee--c
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVF-VNFTFFVQDRIK---N-EYLAI---RYDDGAVI---RL--H 67 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~-a~f~l~l~n~~~---~-~~~~~---~~~~~~~~---~F--~ 67 (155)
+|.+||||++.+ + .|||||++++.++++..-+|++. -+++|.|+||+. . .+... ..+..... .| +
T Consensus 38 ~l~~ylnG~g~~-~-~~lsl~~~lm~Ge~D~~L~WPf~~~qit~~LlDQ~~d~~~r~~~~~~~t~~P~~~s~~n~~f~w~ 115 (167)
T cd03782 38 QVGLYLNGTDDY-P-GNLAIYLHLTSGPNDDQLQWPCPWQQATMMLLDQHPDIRQRMSNQRSVTTDPNMTSTDSDEYFWD 115 (167)
T ss_pred EEEEEecCCCCC-C-CEEEEEEEEeccCCCccccCCCcCCeEEEEEEcCCCchhhccceeeeEEecCCcccccCccceec
Confidence 478999999864 3 59999999999988864469999 899999999963 2 22111 01000011 33 2
Q ss_pred CC-----------------cccccccccccccccccCCCCeeeCCEEEEEEEE
Q 041773 68 SM-----------------KRECGIDKLIPLQAFKEPSNGYLVDDSCVFGAEI 103 (155)
Q Consensus 68 ~~-----------------~~~wG~~~Fi~~~~L~~~~~gyl~dD~l~i~~~V 103 (155)
.. +.++||+.||++++|+ +..||.||.+.|-+++
T Consensus 116 rP~kvg~~~~~~~~~~~~r~~~~G~~~Fish~~L~--~r~yikdD~ifi~~~~ 166 (167)
T cd03782 116 DPRKVGSEVTDTDGSTFYRGPGYGTSAFITHLRLR--SRDFIKGDDVIFLLTM 166 (167)
T ss_pred CCcccCcccccccccccccccccCccceeeHHHHh--hcCcccCCeEEEEEec
Confidence 22 4689999999999999 6889999999998775
No 17
>smart00061 MATH meprin and TRAF homology.
Probab=99.30 E-value=2e-11 Score=79.53 Aligned_cols=65 Identities=22% Similarity=0.368 Sum_probs=52.1
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCcccccccccc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLI 79 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi 79 (155)
||.+||++ +|||+||.|.+....+.. |++.|+|+|+|+||+++.... . ..+.|.. ..+|||.+||
T Consensus 31 ~i~~~p~~-------~~lsl~L~~~~~~~~~~~-w~v~a~~~~~l~~~~~~~~~~--~---~~~~F~~-~~~~G~~~fi 95 (95)
T smart00061 31 RLKIYRKN-------GFLSLYLHCEKEECDSRK-WSIEAEFTLKLVSQNGKSLSK--K---DKHVFEK-PSGWGFSKFI 95 (95)
T ss_pred EEEEEEcC-------CEEEEEEEeCCCcCCCCC-eEEEEEEEEEEEeCCCCEEee--e---eeEEEcC-CCccceeeEC
Confidence 68999991 599999999887655545 999999999999999865522 1 4688876 6789999986
No 18
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=99.12 E-value=8.4e-11 Score=100.30 Aligned_cols=101 Identities=23% Similarity=0.427 Sum_probs=80.7
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCC---CCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCcccccccc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYF---PNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDK 77 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~---~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~ 77 (155)
+|.++|+|+.. . -.||||+....+.. ... |.|+|+|.|.|-|+..+..... ..++|+|+....+|||.+
T Consensus 68 ki~lfPqG~nq---~-~~sVyLe~~pqe~e~~~gk~-~~ccaqFaf~Is~p~~pti~~i---N~sHhrFs~~~tDwGFt~ 139 (1089)
T COG5077 68 KIILFPQGNNQ---C-NVSVYLEYEPQELEETGGKY-YDCCAQFAFDISNPKYPTIEYI---NKSHHRFSMESTDWGFTN 139 (1089)
T ss_pred EEEEecccCCc---c-ccEEEEEeccchhhhhcCcc-hhhhhheeeecCCCCCCchhhh---hcccccccccccccchhh
Confidence 58899999863 2 39999998764311 123 9999999999999877543222 125899998889999999
Q ss_pred cccccccccCCCC---eeeCCEEEEEEEEEEeCCC
Q 041773 78 LIPLQAFKEPSNG---YLVDDSCVFGAEIFVIKPT 109 (155)
Q Consensus 78 Fi~~~~L~~~~~g---yl~dD~l~i~~~V~v~~~~ 109 (155)
||.+..|..|+.| |+.+|++.|.|.|.|++.+
T Consensus 140 f~dL~kl~~psp~~Ppfleeg~l~ItvyVRvlkdP 174 (1089)
T COG5077 140 FIDLNKLIEPSPGRPPFLEEGTLVITVYVRVLKDP 174 (1089)
T ss_pred hhhhhhhcCCCCCCCCcccCCeEEEEEEEEEEeCC
Confidence 9999999887766 7999999999999999874
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=99.00 E-value=2.2e-09 Score=84.22 Aligned_cols=129 Identities=22% Similarity=0.341 Sum_probs=96.1
Q ss_pred eEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCce-eEEecCCCceEEecC--CcccccccccccccccccCCCCeee
Q 041773 17 HISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEY-LAIRYDDGAVIRLHS--MKRECGIDKLIPLQAFKEPSNGYLV 93 (155)
Q Consensus 17 ~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~-~~~~~~~~~~~~F~~--~~~~wG~~~Fi~~~~L~~~~~gyl~ 93 (155)
|+|.|+.+.... + |.+.+.+.|.+.|+...++ ..... ....|.. ....||+..+++...+.++..||+.
T Consensus 42 ~~~~~~~~~~~~----~-~~~~~~~~l~v~n~~~~~~~~~~~~---~~~~~~~~~~~~~~g~~~~~~~~~~~~~~~g~~~ 113 (297)
T KOG1987|consen 42 YLSLTLSVSDSP----G-WERYAKLRLTVVNQKSEKYLSTVEE---GFSWFRFNKVLKEWGFGKMLPLTLLIDCSNGFLV 113 (297)
T ss_pred EEEEEEEeccCC----C-cceeEEEEEEEccCCCcceeeeeee---eEEeccccccccccCcccccChHHhhcccCcEEE
Confidence 456666665432 4 9999999999999988754 43311 2344433 2568999999999999988899999
Q ss_pred CCEEEEEEEEEEeCCCCCceeeEE--------eecccCCC----CeeEEEeCCccCCCCC----cccCCceeeCCccC
Q 041773 94 DDSCVFGAEIFVIKPTGKGEALSI--------VKVPAQAG----NILRWKIPNFSDLRDP----EYYSSEFNAGGREW 155 (155)
Q Consensus 94 dD~l~i~~~V~v~~~~~~~~~~~~--------~~~p~~~~----~~~~~~~~~fs~~~~~----~~~s~~F~~~g~~w 155 (155)
++.+.+-+.+.|.+..++.+.... ++.|+ . ..|+|.+.+++.++.. .+.+..|.++++.|
T Consensus 114 ~~~~~~~a~~~V~~~~~~~d~~~~~~~~~~~~d~~~~--~~~~~~~F~~~~s~~~~~~~~~~~~~~~a~~f~~~~~~l 189 (297)
T KOG1987|consen 114 AHKLVLVARSEVFEAMGKSDVFKESSKLITLLEEKPE--VLEALNGFQVLPSQVSSVERIFEKHPDLAAAFKYKNRHL 189 (297)
T ss_pred cCceEEEeeecceeeecccccchhccccccccccchh--hHhhhceEEEeccchHHHHHhhcCChhhhhccccccHHH
Confidence 999999999888888777665533 43344 3 7899999999999643 45667899888876
No 20
>KOG1863 consensus Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=98.20 E-value=1.9e-06 Score=78.45 Aligned_cols=102 Identities=16% Similarity=0.217 Sum_probs=84.0
Q ss_pred CeEEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeCCCCceeEEecCCCceEEecCCccccccccccc
Q 041773 1 RLILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDRIKNEYLAIRYDDGAVIRLHSMKRECGIDKLIP 80 (155)
Q Consensus 1 rl~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~~~~~~~~~~~~~~~~~~F~~~~~~wG~~~Fi~ 80 (155)
++.+.|+|+.. ..+++|+.+...... .. |.+++++.+.++|..+........ .+|.|.....+||+.+|+.
T Consensus 56 ~~~~~~~~~~~----~~~~~~~~~~~~~~~-~~-~s~~~~~~~~v~~~~~~~~~~~~~---~~h~~~~~~~dwg~~~~~~ 126 (1093)
T KOG1863|consen 56 KILIAPKVNSL----QSTRKKLEVMPSQSL-KS-WSCGAQAVLRVKNTIDNLPDPEKA---IHHVFTADERDWGFSCFST 126 (1093)
T ss_pred eeeeccccCcc----cceeEEeeeccCCCC-cc-eEecchhhhccccCCCCchhhhhh---hhhcccccccchhhccchh
Confidence 47788999842 479999999987666 44 999999999999944433322222 5889988889999999999
Q ss_pred ccccccCCCCeeeCCEEEEEEEEEEeCCCCC
Q 041773 81 LQAFKEPSNGYLVDDSCVFGAEIFVIKPTGK 111 (155)
Q Consensus 81 ~~~L~~~~~gyl~dD~l~i~~~V~v~~~~~~ 111 (155)
++++.+|..||+.+|++.++++|.+...++.
T Consensus 127 ~~~~~~~~~~~~~~~~~~~~~~v~v~~~~~~ 157 (1093)
T KOG1863|consen 127 SSDIRKPEDGYVRNGLEKLEKRVRVEQPTSL 157 (1093)
T ss_pred HhhccCcccccccccceeeeeeeeeecCCcc
Confidence 9999999999999999999999999887654
No 21
>KOG0297 consensus TNF receptor-associated factor [Signal transduction mechanisms]
Probab=91.79 E-value=0.13 Score=42.37 Aligned_cols=45 Identities=33% Similarity=0.643 Sum_probs=37.8
Q ss_pred EEecCCCCCCCCCCeEEEEEEEccCCCCCCCCceEEEEEEEEEEeC
Q 041773 3 ILYPNGNKKGQGTGHISLYLALDESTYFPNNPWEVFVNFTFFVQDR 48 (155)
Q Consensus 3 ~~yP~G~~~~~~~~~lSlyL~l~~~~~~~~~~w~~~a~f~l~l~n~ 48 (155)
.+|-||++.+++. ++|+|+.++.+++++.-.|++.-..+|.+++|
T Consensus 321 ~~~lng~g~~~~~-~~s~~~~~~~ge~d~~l~wpf~~~v~~~l~dq 365 (391)
T KOG0297|consen 321 RIYLNGDGTGKGT-HLSLYFVVMRGEYDALLPWPFRQKVTLMLLDQ 365 (391)
T ss_pred HhhhcCCCCCCcc-eeeeeeeecccCcccccccCCCCceEEEEecc
Confidence 4677888776665 99999999999887644599999999999999
No 22
>COG5077 Ubiquitin carboxyl-terminal hydrolase [Posttranslational modification, protein turnover, chaperones]
Probab=88.46 E-value=0.16 Score=44.88 Aligned_cols=31 Identities=29% Similarity=0.686 Sum_probs=28.0
Q ss_pred CCCeeEEEeCCccCCCCCcccCCceeeCCccC
Q 041773 124 AGNILRWKIPNFSDLRDPEYYSSEFNAGGREW 155 (155)
Q Consensus 124 ~~~~~~~~~~~fs~~~~~~~~s~~F~~~g~~w 155 (155)
..+.|||.+++++++.+ .+.|+.|.|||+.|
T Consensus 37 ~~~sftW~vk~wsel~~-k~~Sp~F~vg~~tw 67 (1089)
T COG5077 37 LEMSFTWKVKRWSELAK-KVESPPFSVGGHTW 67 (1089)
T ss_pred hhcccceecCChhhhhh-hccCCcccccCeeE
Confidence 36789999999999987 56999999999998
No 23
>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=87.00 E-value=0.29 Score=36.20 Aligned_cols=32 Identities=28% Similarity=0.619 Sum_probs=27.4
Q ss_pred CCCeeEEEeCCccCCCC-----C--cccCCceeeC--CccC
Q 041773 124 AGNILRWKIPNFSDLRD-----P--EYYSSEFNAG--GREW 155 (155)
Q Consensus 124 ~~~~~~~~~~~fs~~~~-----~--~~~s~~F~~~--g~~w 155 (155)
.++.+.|+|.+||...+ + ...|+.|.+| |.+|
T Consensus 37 ~~G~hvwkI~~yS~~~~~~~~g~~~~i~S~~Fyvg~~GY~w 77 (186)
T cd03777 37 YNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKM 77 (186)
T ss_pred cceEEEEEECChhHHHHhhccCCCcEEECCCeEeCCCCeeE
Confidence 47899999999998732 3 6899999999 9998
No 24
>PF06565 DUF1126: Repeat of unknown function (DUF1126); InterPro: IPR010554 This group contains several eukaryote specific repeats of around 35 residues in length. The function of this family is unknown.; PDB: 2Z14_A 2Z13_A.
Probab=27.70 E-value=31 Score=17.94 Aligned_cols=10 Identities=40% Similarity=0.551 Sum_probs=7.0
Q ss_pred eeeCCEEEEE
Q 041773 91 YLVDDSCVFG 100 (155)
Q Consensus 91 yl~dD~l~i~ 100 (155)
||.||++.|.
T Consensus 5 ~L~DdTi~I~ 14 (33)
T PF06565_consen 5 YLADDTISIF 14 (33)
T ss_dssp ETTTTEEEEE
T ss_pred EccCCCEEEE
Confidence 6778887653
No 25
>PF06943 zf-LSD1: LSD1 zinc finger; InterPro: IPR005735 Zinc finger (Znf) domains are relatively small protein motifs which contain multiple finger-like protrusions that make tandem contacts with their target molecule. Some of these domains bind zinc, but many do not; instead binding other metals such as iron, or no metal at all. For example, some family members form salt bridges to stabilise the finger-like folds. They were first identified as a DNA-binding motif in transcription factor TFIIIA from Xenopus laevis (African clawed frog), however they are now recognised to bind DNA, RNA, protein and/or lipid substrates [, , , , ]. Their binding properties depend on the amino acid sequence of the finger domains and of the linker between fingers, as well as on the higher-order structures and the number of fingers. Znf domains are often found in clusters, where fingers can have different binding specificities. There are many superfamilies of Znf motifs, varying in both sequence and structure. They display considerable versatility in binding modes, even between members of the same class (e.g. some bind DNA, others protein), suggesting that Znf motifs are stable scaffolds that have evolved specialised functions. For example, Znf-containing proteins function in gene transcription, translation, mRNA trafficking, cytoskeleton organisation, epithelial development, cell adhesion, protein folding, chromatin remodelling and zinc sensing, to name but a few []. Zinc-binding motifs are stable structures, and they rarely undergo conformational changes upon binding their target. This model describes a putative zinc finger domain found in three closely spaced copies in Arabidopsis protein LSD1 and in two copies in other proteins from the same species. The motif resembles CxxCRxxLMYxxGASxVxCxxC []. This domain may play a role in the regulation of transcription, via either repression of a prodeath pathway or activation of an antideath pathway, in response to signals emanating from cells undergoing pathogen-induced hypersensitive cell death. More information about these proteins can be found at Protein of the Month: Zinc Fingers [].
Probab=24.15 E-value=46 Score=16.24 Aligned_cols=10 Identities=40% Similarity=1.026 Sum_probs=7.5
Q ss_pred CeEEecCCCC
Q 041773 1 RLILYPNGNK 10 (155)
Q Consensus 1 rl~~yP~G~~ 10 (155)
.++.||.|..
T Consensus 6 ~~L~yp~GA~ 15 (25)
T PF06943_consen 6 TLLMYPRGAP 15 (25)
T ss_pred ceEEcCCCCC
Confidence 3678999964
Done!