Query psy5746
Match_columns 292
No_of_seqs 87 out of 89
Neff 4.2
Searched_HMMs 46136
Date Fri Aug 16 16:57:39 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy5746.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/5746hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3002|consensus 99.9 1.9E-22 4.2E-27 190.5 5.9 230 41-288 45-294 (299)
2 PF03145 Sina: Seven in absent 97.7 1E-05 2.2E-10 71.6 1.0 43 76-125 4-46 (198)
3 PF02176 zf-TRAF: TRAF-type zi 97.3 7.6E-05 1.6E-09 53.8 0.9 35 81-115 26-60 (60)
4 PF03145 Sina: Seven in absent 95.2 0.0098 2.1E-07 52.7 1.7 38 80-118 32-69 (198)
5 PF02176 zf-TRAF: TRAF-type zi 84.7 0.79 1.7E-05 32.7 2.3 37 84-123 1-38 (60)
6 PF07800 DUF1644: Protein of u 82.3 1.1 2.4E-05 40.1 2.6 33 94-129 108-140 (162)
7 smart00061 MATH meprin and TRA 80.7 18 0.0004 26.5 8.5 66 176-254 14-85 (95)
8 KOG3002|consensus 79.8 0.86 1.9E-05 44.1 1.2 39 78-118 123-161 (299)
9 cd03780 MATH_TRAF5 Tumor Necro 73.6 11 0.00023 32.6 6.1 39 179-221 24-64 (148)
10 cd03773 MATH_TRIM37 Tripartite 70.8 18 0.00039 29.2 6.6 54 178-235 22-77 (132)
11 KOG0823|consensus 67.3 2.1 4.5E-05 40.3 0.4 28 40-67 43-70 (230)
12 cd00121 MATH MATH (meprin and 67.3 38 0.00081 25.7 7.4 43 176-223 14-56 (126)
13 cd03775 MATH_Ubp21p Ubiquitin- 62.9 57 0.0012 26.8 8.2 40 178-223 15-54 (134)
14 PF00917 MATH: MATH domain; I 62.1 35 0.00077 26.1 6.5 39 176-222 10-48 (119)
15 cd03776 MATH_TRAF6 Tumor Necro 57.1 40 0.00086 28.2 6.4 41 179-223 24-66 (147)
16 cd03777 MATH_TRAF3 Tumor Necro 56.5 1.5E+02 0.0033 26.6 10.6 53 179-235 62-123 (186)
17 cd03772 MATH_HAUSP Herpesvirus 53.2 1.3E+02 0.0027 24.7 10.1 44 177-222 16-59 (137)
18 cd03771 MATH_Meprin Meprin fam 46.2 81 0.0018 28.0 6.8 55 176-235 20-83 (167)
19 KOG0320|consensus 46.2 8 0.00017 35.4 0.5 24 44-67 131-156 (187)
20 PF13923 zf-C3HC4_2: Zinc fing 44.0 4.7 0.0001 26.8 -1.0 21 47-67 1-22 (39)
21 PLN03086 PRLI-interacting fact 43.7 16 0.00034 38.6 2.2 41 81-125 492-543 (567)
22 PLN03208 E3 ubiquitin-protein 43.5 9.2 0.0002 35.1 0.5 26 41-67 15-41 (193)
23 KOG0297|consensus 42.9 12 0.00026 37.2 1.2 30 90-119 83-112 (391)
24 cd03774 MATH_SPOP Speckle-type 41.7 1.3E+02 0.0028 24.7 7.0 55 177-235 22-81 (139)
25 PLN03086 PRLI-interacting fact 39.9 16 0.00035 38.5 1.6 29 92-124 406-434 (567)
26 cd00270 MATH_TRAF_C Tumor Necr 37.4 1.3E+02 0.0029 24.7 6.5 54 178-235 23-85 (149)
27 cd03781 MATH_TRAF4 Tumor Necro 30.6 2.3E+02 0.0049 24.1 7.0 55 177-235 22-85 (154)
28 TIGR00599 rad18 DNA repair pro 26.9 22 0.00048 35.9 0.1 29 39-67 21-49 (397)
29 COG2835 Uncharacterized conser 25.6 28 0.0006 26.6 0.4 16 38-53 2-17 (60)
30 PF10238 Eapp_C: E2F-associate 25.6 28 0.0006 30.3 0.5 22 43-67 28-49 (136)
31 PHA02291 hypothetical protein 23.3 92 0.002 26.7 3.2 41 166-206 79-120 (132)
32 PF14768 RPA_interact_C: Repli 22.7 38 0.00081 26.5 0.7 51 47-102 2-65 (82)
33 PRK11827 hypothetical protein; 21.7 35 0.00075 25.9 0.3 30 38-70 2-33 (60)
34 PF14835 zf-RING_6: zf-RING of 21.6 29 0.00063 26.9 -0.1 29 39-67 2-31 (65)
35 KOG2879|consensus 20.1 42 0.0009 32.8 0.5 36 34-69 229-266 (298)
No 1
>KOG3002|consensus
Probab=99.86 E-value=1.9e-22 Score=190.53 Aligned_cols=230 Identities=16% Similarity=0.141 Sum_probs=171.7
Q ss_pred hccceecceeCCCCCcchhhcch-hHhH-hhh--hh-----h-------hhhcchhhhhhhhccccCeeeecccCCCCCc
Q psy5746 41 LGGILCCAVCLDLPRSAVYQMQD-FVMK-LLH--VL-----T-------VGLKSARAVHHVTLLLRKLLTTCKYSMIGCP 104 (292)
Q Consensus 41 L~~ll~C~VC~dlp~p~i~QC~~-HL~C-~~~--ll-----a-------~~L~vEk~~sH~~~~C~~r~~~CkY~~~GC~ 104 (292)
...+++||||+++..|||+||+| ||.| .|+ +. . +.+.|||++ +.+.|+|||...||+
T Consensus 45 ~~~lleCPvC~~~l~~Pi~QC~nGHlaCssC~~~~~~~CP~Cr~~~g~~R~~amEkV~-------e~~~vpC~~~~~GC~ 117 (299)
T KOG3002|consen 45 DLDLLDCPVCFNPLSPPIFQCDNGHLACSSCRTKVSNKCPTCRLPIGNIRCRAMEKVA-------EAVLVPCKNAKLGCT 117 (299)
T ss_pred chhhccCchhhccCcccceecCCCcEehhhhhhhhcccCCccccccccHHHHHHHHHH-------HhceecccccccCCc
Confidence 45699999999999999999999 9999 554 11 1 224599998 699999999999999
Q ss_pred cccccchhhhhhhhCCCCCCChHHHHHHHHHHhhhHHHHHHHHHHHHHhhccCCceeeeeeeeeeecccccccceeeecc
Q psy5746 105 WCGPQHELKSHEESCAHPHKSGAEVMESLQAIETTKDIEKRLYDNLFELLSYEKIIFNELQMKPYRTDEFIHKLFYETSR 184 (292)
Q Consensus 105 W~Gp~~e~~~HE~~C~f~~ksG~Elme~L~~~d~~~~~~~~~~~~i~~LLS~ekI~f~dLQl~Pyrtd~f~~~lfyes~r 184 (292)
|.+++.++..||..|.|++-+ -....+..+.+..-.....+|+.. ...+.+++.+.++++++|+........++..
T Consensus 118 ~~~~Y~~~~~HE~~C~f~~~~-CP~p~~~C~~~G~~~~l~~H~~~~---hk~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 193 (299)
T KOG3002|consen 118 KSFPYGEKSKHEKVCEFRPCS-CPVPGAECKYTGSYKDLYAHLNDT---HKSDIITLTGFDFVFVATDENLLGAATWTLK 193 (299)
T ss_pred eeeccccccccccccccCCcC-CCCCcccCCccCcHHHHHHHHHhh---ChhhhhhccccceecccCCccccccchhhee
Confidence 999999999999999996554 223324444444444444555555 5566788999999999999999999999999
Q ss_pred eEEecCEEEEEEEEecCCCCCCCCCcceeEEEEEEccCCCCceEEEEEEEeCCCCCCccCceeeEEEec----CCcCCCC
Q psy5746 185 FSAFNNQWVVKARINTCQRDPTLSSDREMTYQLILKTKTTTAMTVHFMVLRGPFGDMKVQPKIHKFEFN----EQENESP 260 (292)
Q Consensus 185 F~Af~~qWvvkarin~~~~~p~~s~~r~l~~qL~Lks~~~~~l~v~y~~l~gp~~d~~i~P~l~~~~F~----~~~~esp 260 (292)
+.++.++|..++.++...++| ....++++.+..+++....-...+-+.| ++.++.=......+. ....+++
T Consensus 194 ~~~~~~~~~~~~~~~q~~~~~---~~~y~tv~~i~~~~~e~~~fsy~L~~~~--~~~klt~~s~~~s~~~kvs~~~p~~d 268 (299)
T KOG3002|consen 194 TSVCFGREFGLLFEVQCFREP---HGVYVTVNRIAPSAPEAGEFSYSLALGG--SGRKLTWQSPPRSIIQKVSKVRPEDD 268 (299)
T ss_pred eeecCcEEEeeeeeehhhcCC---CceEEEeehhccCCCcccccceeeecCC--CCceEeecCCcceeecccceeccCCC
Confidence 999999999999999888877 4567999999999987655555555555 555544333333332 2333455
Q ss_pred CccccCCCHHHHHHHHhccCcceEEeee
Q psy5746 261 YFILPFPDTSECNRHLATKTINFRLIMF 288 (292)
Q Consensus 261 ~~~Lpl~~~~~c~rLLa~k~i~~RL~Mf 288 (292)
+..|| ...++.+-+..++|.+|..++
T Consensus 269 fm~ip--~~~~~~~~~~~~~l~i~~~~~ 294 (299)
T KOG3002|consen 269 FMLIP--RSLLCLFSLLKMELKIRVTGR 294 (299)
T ss_pred ceecc--HHHhhcccccCCceeeccchh
Confidence 55554 345566666666888888774
No 2
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=97.72 E-value=1e-05 Score=71.61 Aligned_cols=43 Identities=26% Similarity=0.392 Sum_probs=23.9
Q ss_pred hcchhhhhhhhccccCeeeecccCCCCCccccccchhhhhhhhCCCCCCC
Q psy5746 76 LKSARAVHHVTLLLRKLLTTCKYSMIGCPWCGPQHELKSHEESCAHPHKS 125 (292)
Q Consensus 76 L~vEk~~sH~~~~C~~r~~~CkY~~~GC~W~Gp~~e~~~HE~~C~f~~ks 125 (292)
++||+++ +...|||+|+..||.+..+++++.+||+.|.|.+-.
T Consensus 4 ~alE~v~-------~~~~~pC~~~~~GC~~~~~~~~~~~HE~~C~~~p~~ 46 (198)
T PF03145_consen 4 RALEKVA-------ESIKFPCKNAKYGCTETFPYSEKREHEEECPFRPCS 46 (198)
T ss_dssp ------------------EE-CCGGGT---EE-GGGHHHHHHT-TTSEEE
T ss_pred HHHHHHH-------hhceecCCCCCCCCcccccccChhhHhccCCCcCCc
Confidence 4589888 589999999999999999999999999999988543
No 3
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=97.31 E-value=7.6e-05 Score=53.79 Aligned_cols=35 Identities=29% Similarity=0.417 Sum_probs=25.4
Q ss_pred hhhhhhccccCeeeecccCCCCCccccccchhhhh
Q psy5746 81 AVHHVTLLLRKLLTTCKYSMIGCPWCGPQHELKSH 115 (292)
Q Consensus 81 ~~sH~~~~C~~r~~~CkY~~~GC~W~Gp~~e~~~H 115 (292)
...|...+|+.++++|+|+..||.|.++..++.+|
T Consensus 26 l~~H~~~~C~~~~v~C~~~~~GC~~~~~~~~l~~H 60 (60)
T PF02176_consen 26 LDDHLENECPKRPVPCPYSPYGCKERVPREDLEEH 60 (60)
T ss_dssp HHHHHHTTSTTSEEE-SS----S--EEEHHHHHHC
T ss_pred HHHHHHccCCCCcEECCCCCCCCCCccchhHHhCC
Confidence 44599899999999999999999999999999888
No 4
>PF03145 Sina: Seven in absentia protein family; InterPro: IPR018121 The seven in absentia (sina) gene was first identified in Drosophila. The Drosophila Sina protein is essential for the determination of the R7 pathway in photoreceptor cell development: the loss of functional Sina results in the transformation of the R7 precursor cell to a non-neuronal cell type. The Sina protein contains an N-terminal RING finger domain C3HC4-type. Through this domain, Sina binds E2 ubiquitin-conjugating enzymes (UbcD1) Sina also interacts with Tramtrack (TTK88) via PHYL. Tramtrack is a transcriptional repressor that blocks photoreceptor determination, while PHYL down-regulates the activity of TTK88. In turn, the activity of PHYL requires the activation of the Sevenless receptor tyrosine kinase, a process essential for R7 determination. It is thought that Sina targets TTK88 for degradation, therefore promoting the R7 pathway. Murine and human homologues of Sina have also been identified. The human homologue Siah-1 [] also binds E2 enzymes (UbcH5) and through a series of physical interactions, targets beta-catenin for ubiquitin degradation. Siah-1 expression is enhanced by p53, itself promoted by DNA damage. Thus this pathway links DNA damage to beta-catenin degradation [, ]. Sina proteins, therefore, physically interact with a variety of proteins. The N-terminal RING finger domain that binds ubiquitin conjugating enzymes is a C3HC4-type, and does not form part of the alignment for this family. The remainder C-terminal part is involved in interactions with other proteins, and is included in this alignment. In addition to the Drosophila protein and mammalian homologues, whose similarity was noted previously, this family also includes putative homologues from Caenorhabditis elegans, Arabidopsis thaliana.; GO: 0006511 ubiquitin-dependent protein catabolic process, 0007275 multicellular organismal development, 0005634 nucleus; PDB: 2A25_A 1K2F_B 2AN6_C.
Probab=95.18 E-value=0.0098 Score=52.68 Aligned_cols=38 Identities=24% Similarity=0.387 Sum_probs=28.7
Q ss_pred hhhhhhhccccCeeeecccCCCCCccccccchhhhhhhh
Q psy5746 80 RAVHHVTLLLRKLLTTCKYSMIGCPWCGPQHELKSHEES 118 (292)
Q Consensus 80 k~~sH~~~~C~~r~~~CkY~~~GC~W~Gp~~e~~~HE~~ 118 (292)
+...|| +.|+.++..|+.+..||.|+|+..++..|-..
T Consensus 32 ~~~~HE-~~C~~~p~~CP~~~~~C~~~G~~~~l~~Hl~~ 69 (198)
T PF03145_consen 32 EKREHE-EECPFRPCSCPFPGSGCDWQGSYKELLDHLRD 69 (198)
T ss_dssp GHHHHH-HT-TTSEEE-SSSSTT---EEECCCHHHHHHH
T ss_pred ChhhHh-ccCCCcCCcCCCCCCCccccCCHHHHHHHHHH
Confidence 344585 99999999999999999999999999999765
No 5
>PF02176 zf-TRAF: TRAF-type zinc finger; PDB: 2EOD_A 2YUC_A 3HCU_A 3HCS_B 3HCT_A.
Probab=84.75 E-value=0.79 Score=32.74 Aligned_cols=37 Identities=24% Similarity=0.278 Sum_probs=27.7
Q ss_pred hhhccccCeeeecccCCCCCccccccchhhhhhh-hCCCCC
Q psy5746 84 HVTLLLRKLLTTCKYSMIGCPWCGPQHELKSHEE-SCAHPH 123 (292)
Q Consensus 84 H~~~~C~~r~~~CkY~~~GC~W~Gp~~e~~~HE~-~C~f~~ 123 (292)
|+.. |+.+++.|.+ -||.-..+..++..|.+ .|.+..
T Consensus 1 H~~~-C~~~~v~C~~--~cc~~~i~r~~l~~H~~~~C~~~~ 38 (60)
T PF02176_consen 1 HEEE-CPFRPVPCPN--GCCNEMIPRKELDDHLENECPKRP 38 (60)
T ss_dssp HHTT-STTSEEE-TT----S-BEEECCCHHHHHHTTSTTSE
T ss_pred Cccc-CCCCEeeCCC--CCcccceeHHHHHHHHHccCCCCc
Confidence 5545 9999999998 56767789999999999 787753
No 6
>PF07800 DUF1644: Protein of unknown function (DUF1644); InterPro: IPR012866 This family consists of sequences found in a number of hypothetical plant proteins of unknown function. The region of interest contains nine highly conserved cysteine residues and is approximately 160 amino acids in length, which probably represent a zinc-binding domain.
Probab=82.31 E-value=1.1 Score=40.12 Aligned_cols=33 Identities=30% Similarity=0.662 Sum_probs=26.9
Q ss_pred eecccCCCCCccccccchhhhhhhhCCCCCCChHHH
Q psy5746 94 TTCKYSMIGCPWCGPQHELKSHEESCAHPHKSGAEV 129 (292)
Q Consensus 94 ~~CkY~~~GC~W~Gp~~e~~~HE~~C~f~~ksG~El 129 (292)
=.|-. .||.+.|.+.|+-.|.. .+||.-...||
T Consensus 108 RsC~~--e~C~F~GtY~eLrKHar-~~HP~~rP~~v 140 (162)
T PF07800_consen 108 RSCSQ--ESCSFSGTYSELRKHAR-SEHPSARPSEV 140 (162)
T ss_pred ccCcc--cccccccCHHHHHHHHH-hhCCCCCCccC
Confidence 34544 89999999999999976 58888888776
No 7
>smart00061 MATH meprin and TRAF homology.
Probab=80.70 E-value=18 Score=26.51 Aligned_cols=66 Identities=14% Similarity=0.140 Sum_probs=41.3
Q ss_pred ccceeeecceEEecCEEEEEEEEecCCCCCCCCCcceeEEEEEEccCCCC----c--eEEEEEEEeCCCCCCccCceeeE
Q psy5746 176 HKLFYETSRFSAFNNQWVVKARINTCQRDPTLSSDREMTYQLILKTKTTT----A--MTVHFMVLRGPFGDMKVQPKIHK 249 (292)
Q Consensus 176 ~~lfyes~rF~Af~~qWvvkarin~~~~~p~~s~~r~l~~qL~Lks~~~~----~--l~v~y~~l~gp~~d~~i~P~l~~ 249 (292)
....+.|+.|.+++..|.+++..+. ..|+.-|.+...... + ..+.+.|+...-... ++-..
T Consensus 14 ~~~~~~S~~f~~~g~~W~i~~~p~~----------~~lsl~L~~~~~~~~~~~w~v~a~~~~~l~~~~~~~~---~~~~~ 80 (95)
T smart00061 14 EGESYFSPSEEHFNIPWRLKIYRKN----------GFLSLYLHCEKEECDSRKWSIEAEFTLKLVSQNGKSL---SKKDK 80 (95)
T ss_pred cCceEeCChhEEcCceeEEEEEEcC----------CEEEEEEEeCCCcCCCCCeEEEEEEEEEEEeCCCCEE---eeeee
Confidence 4568999999999999999999761 357777777555332 2 344555554332111 33345
Q ss_pred EEecC
Q psy5746 250 FEFNE 254 (292)
Q Consensus 250 ~~F~~ 254 (292)
+.|..
T Consensus 81 ~~F~~ 85 (95)
T smart00061 81 HVFEK 85 (95)
T ss_pred EEEcC
Confidence 66754
No 8
>KOG3002|consensus
Probab=79.85 E-value=0.86 Score=44.05 Aligned_cols=39 Identities=15% Similarity=0.296 Sum_probs=33.9
Q ss_pred chhhhhhhhccccCeeeecccCCCCCccccccchhhhhhhh
Q psy5746 78 SARAVHHVTLLLRKLLTTCKYSMIGCPWCGPQHELKSHEES 118 (292)
Q Consensus 78 vEk~~sH~~~~C~~r~~~CkY~~~GC~W~Gp~~e~~~HE~~ 118 (292)
-+| +.|| +.|..++..|+|....|.|+|.+.++..|-..
T Consensus 123 ~~~-~~HE-~~C~f~~~~CP~p~~~C~~~G~~~~l~~H~~~ 161 (299)
T KOG3002|consen 123 GEK-SKHE-KVCEFRPCSCPVPGAECKYTGSYKDLYAHLND 161 (299)
T ss_pred ccc-cccc-cccccCCcCCCCCcccCCccCcHHHHHHHHHh
Confidence 444 5584 89999999999999999999999999999754
No 9
>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=73.57 E-value=11 Score=32.61 Aligned_cols=39 Identities=10% Similarity=0.123 Sum_probs=29.3
Q ss_pred eeeecce--EEecCEEEEEEEEecCCCCCCCCCcceeEEEEEEcc
Q psy5746 179 FYETSRF--SAFNNQWVVKARINTCQRDPTLSSDREMTYQLILKT 221 (292)
Q Consensus 179 fyes~rF--~Af~~qWvvkarin~~~~~p~~s~~r~l~~qL~Lks 221 (292)
+..|+.| ++++..|.+++..|.... +....|+--|.|-.
T Consensus 24 ~i~S~~Fyt~~~Gy~w~i~~ypnG~~~----~~~~~iSv~l~l~~ 64 (148)
T cd03780 24 SIFSQPFYTSRCGYRLCARAYLNGDGS----GKGTHLSLYFVVMR 64 (148)
T ss_pred EEECCCcccCCCCeeEEEEEEcCCCCC----CCCCEEEEEEEEec
Confidence 7899999 999999999999996532 12235666666654
No 10
>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=70.84 E-value=18 Score=29.21 Aligned_cols=54 Identities=9% Similarity=-0.050 Sum_probs=36.9
Q ss_pred ceeeecceEEecCEEEEEEEEecCCCCCCCCCcceeEEEEEEccCCCCceEEE--EEEEe
Q psy5746 178 LFYETSRFSAFNNQWVVKARINTCQRDPTLSSDREMTYQLILKTKTTTAMTVH--FMVLR 235 (292)
Q Consensus 178 lfyes~rF~Af~~qWvvkarin~~~~~p~~s~~r~l~~qL~Lks~~~~~l~v~--y~~l~ 235 (292)
.++.|++|.+-+..|.+++..+..... ....|+.-|.|.+....+..+. +.+++
T Consensus 22 ~~~~S~~F~vgG~~W~i~~yP~G~~~~----~~~~lSl~L~l~~~~~~~~~~~~~l~lln 77 (132)
T cd03773 22 DPVYSDPLNVDGLCWRLKVYPDGNGEV----RGNFLSVFLELCSGLGEASKYEYRVEMVH 77 (132)
T ss_pred cceeCCCeEeCCccEEEEEECCCCCCC----CCCEEEEEEEeecCCCCceeEEEEEEEEc
Confidence 578999999999999999998754321 1235888888766433344444 44555
No 11
>KOG0823|consensus
Probab=67.33 E-value=2.1 Score=40.32 Aligned_cols=28 Identities=32% Similarity=0.706 Sum_probs=25.7
Q ss_pred hhccceecceeCCCCCcchhhcchhHhH
Q psy5746 40 RLGGILCCAVCLDLPRSAVYQMQDFVMK 67 (292)
Q Consensus 40 ~L~~ll~C~VC~dlp~p~i~QC~~HL~C 67 (292)
+=.+-|.|..|||.+.-||.-|--||.|
T Consensus 43 ~~~~~FdCNICLd~akdPVvTlCGHLFC 70 (230)
T KOG0823|consen 43 RDGGFFDCNICLDLAKDPVVTLCGHLFC 70 (230)
T ss_pred CCCCceeeeeeccccCCCEEeeccccee
Confidence 4567999999999999999999779999
No 12
>cd00121 MATH MATH (meprin and TRAF-C homology) domain; an independent folding unit with an eight-stranded beta-sandwich structure found in meprins, TRAFs and other proteins. Meprins comprise a class of extracellular metalloproteases which are anchored to the membrane and are capable of cleaving growth factors, extracellular matrix proteins, and biologically active peptides. TRAF molecules serve as adapter proteins that link cell surface receptors of the Tumor Necrosis Factor and 1nterleukin-1/Toll-like families to downstream kinase cascades, which results in the activation of transcription factors and the regulation of cell survival, proliferation and stress responses in the immune and inflammatory systems. Other members include the ubiquitin ligases, TRIM37 and SPOP, and the ubiquitin-specific proteases, HAUSP and Ubp21p. A large number of uncharacterized members mostly from lineage-specific expansions in C. elegans and rice contain MATH and BTB domains, similar to SPOP. The MATH doma
Probab=67.30 E-value=38 Score=25.68 Aligned_cols=43 Identities=14% Similarity=0.097 Sum_probs=32.1
Q ss_pred ccceeeecceEEecCEEEEEEEEecCCCCCCCCCcceeEEEEEEccCC
Q psy5746 176 HKLFYETSRFSAFNNQWVVKARINTCQRDPTLSSDREMTYQLILKTKT 223 (292)
Q Consensus 176 ~~lfyes~rF~Af~~qWvvkarin~~~~~p~~s~~r~l~~qL~Lks~~ 223 (292)
....+.|+.|.+++..|.+++..+.... ....|+.-|.+....
T Consensus 14 ~~~~~~S~~f~~~g~~W~l~~~p~~~~~-----~~~~lsv~L~~~~~~ 56 (126)
T cd00121 14 EGESIYSPPFEVGGYKWRIRIYPNGDGE-----SGDYLSLYLELDKGE 56 (126)
T ss_pred CCcEEECCCEEEcCEeEEEEEEcCCCCC-----CCCEEEEEEEecCCC
Confidence 4668899999999999999998776432 234677777776554
No 13
>cd03775 MATH_Ubp21p Ubiquitin-specific protease 21 (Ubp21p) family, MATH domain; composed of fungal proteins with similarity to Ubp21p of fission yeast. Ubp21p is a deubiquitinating enzyme that may be involved in the regulation of the protein kinase Prp4p, which controls the formation of active spliceosomes. Members of this family are similar to human HAUSP (Herpesvirus-associated ubiquitin-specific protease) in that they contain an N-terminal MATH domain and a C-terminal catalytic protease (C19 family) domain. HAUSP is also an ubiquitin-specific protease that specifically catalyzes the deubiquitylation of p53 and MDM2. The MATH domain of HAUSP contains the binding site for p53 and MDM2. Similarly, the MATH domain of members in this family may be involved in substrate binding.
Probab=62.94 E-value=57 Score=26.82 Aligned_cols=40 Identities=8% Similarity=0.047 Sum_probs=31.7
Q ss_pred ceeeecceEEecCEEEEEEEEecCCCCCCCCCcceeEEEEEEccCC
Q psy5746 178 LFYETSRFSAFNNQWVVKARINTCQRDPTLSSDREMTYQLILKTKT 223 (292)
Q Consensus 178 lfyes~rF~Af~~qWvvkarin~~~~~p~~s~~r~l~~qL~Lks~~ 223 (292)
..+.|++|.|=+..|++++..+.+.. ...|+.-|.+-++.
T Consensus 15 ~~~~S~~F~vGG~~W~l~~yP~G~~~------~~~iSlyL~l~~~~ 54 (134)
T cd03775 15 KKVHSPKFKCGGFEWRILLFPQGNSQ------TGGVSIYLEPHPEE 54 (134)
T ss_pred cceeCCCEEECCeeEEEEEeCCCCCC------CCeEEEEEEecCcc
Confidence 47899999999999999999875321 35689888886543
No 14
>PF00917 MATH: MATH domain; InterPro: IPR002083 Although apparently functionally unrelated, intracellular TRAFs and extracellular meprins share a conserved region of about 180 residues, the meprin and TRAF homology (MATH) domain []. Meprins are mammalian tissue-specific metalloendopeptidases of the astacin family implicated in developmental, normal and pathological processes by hydrolysing a variety of proteins. Various growth factors, cytokines, and extracellular matrix proteins are substrates for meprins. They are composed of five structural domains: an N-terminal endopeptidase domain, a MAM domain (see PDOC00604 from PROSITEDOC), a MATH domain, an EGF-like domain (see PDOC00021 from PROSITEDOC) and a C-terminal transmembrane region. Meprin A and B form membrane bound homotetramer whereas homooligomers of meprin A are secreted. A proteolitic site adjacent to the MATH domain, only present in meprin A, allows the release of the protein from the membrane []. TRAF proteins were first isolated by their ability to interact with TNF receptors []. They promote cell survival by the activation of downstream protein kinases and, finally, transcription factors of the NF-kB and AP-1 family. The TRAF proteins are composed of 3 structural domains: a RING finger (see PDOC00449 from PROSITEDOC) in the N-terminal part of the protein, one to seven TRAF zinc fingers (see PDOC50145 from PROSITEDOC) in the middle and the MATH domain in the C-terminal part []. The MATH domain is necessary and sufficient for self-association and receptor interaction. From the structural analysis two consensus sequence recognised by the TRAF domain have been defined: a major one, [PSAT]x[QE]E and a minor one, PxQxxD []. The structure of the TRAF2 protein reveals a trimeric self-association of the MATH domain []. The domain forms a new, light-stranded antiparallel beta sandwich structure. A coiled-coil region adjacent to the MATH domain is also important for the trimerisation. The oligomerisation is essential for establishing appropriate connections to form signalling complexes with TNF receptor-1. The ligand binding surface of TRAF proteins is located in beta-strands 6 and 7 [].; GO: 0005515 protein binding; PDB: 1D00_E 1CZY_A 1D01_F 1CA9_A 1D0J_D 1F3V_B 1CA4_C 1D0A_A 1QSC_C 1CZZ_C ....
Probab=62.09 E-value=35 Score=26.15 Aligned_cols=39 Identities=13% Similarity=0.099 Sum_probs=31.2
Q ss_pred ccceeeecceEEecCEEEEEEEEecCCCCCCCCCcceeEEEEEEccC
Q psy5746 176 HKLFYETSRFSAFNNQWVVKARINTCQRDPTLSSDREMTYQLILKTK 222 (292)
Q Consensus 176 ~~lfyes~rF~Af~~qWvvkarin~~~~~p~~s~~r~l~~qL~Lks~ 222 (292)
...+|.|..|.++|..|.+++..+.. ...+++-|.+...
T Consensus 10 ~~~~~~s~~~~~~g~~W~l~~~~~~~--------~~~l~~~L~~~~~ 48 (119)
T PF00917_consen 10 GEEYSSSFVFSHGGYPWRLKVYPKGN--------GKYLSVYLHCDKG 48 (119)
T ss_dssp SEEEEEEEESSTTSEEEEEEEETTES--------TTEEEEEEEEECS
T ss_pred CCcEECCCeEEECCEEEEEEEEeCCC--------cCcEEEEEEEeec
Confidence 45678889999999999999997754 3467777777776
No 15
>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=57.13 E-value=40 Score=28.21 Aligned_cols=41 Identities=5% Similarity=0.034 Sum_probs=30.3
Q ss_pred eeeecceEE--ecCEEEEEEEEecCCCCCCCCCcceeEEEEEEccCC
Q psy5746 179 FYETSRFSA--FNNQWVVKARINTCQRDPTLSSDREMTYQLILKTKT 223 (292)
Q Consensus 179 fyes~rF~A--f~~qWvvkarin~~~~~p~~s~~r~l~~qL~Lks~~ 223 (292)
.+.|++|++ .+..|.++...|.... +....|+.-|.|-+.+
T Consensus 24 ~i~S~~F~~~~gGy~W~i~~yP~G~~~----~~~~~lS~~L~l~~~~ 66 (147)
T cd03776 24 VIHSPGFYTSPPGYKLCARLNLSLPEA----RCPNYISLFVHLMQGE 66 (147)
T ss_pred eEECCCcccCCCCceEEEEEEeCCCCC----CCCCEEEEEEEEeccC
Confidence 478999985 7999999999986433 2234588888886643
No 16
>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=56.48 E-value=1.5e+02 Score=26.62 Aligned_cols=53 Identities=8% Similarity=0.090 Sum_probs=35.8
Q ss_pred eeeecceEEe--cCEEEEEEEEecCCCCCCCCCcceeEEEEEEccCC-------CCceEEEEEEEe
Q psy5746 179 FYETSRFSAF--NNQWVVKARINTCQRDPTLSSDREMTYQLILKTKT-------TTAMTVHFMVLR 235 (292)
Q Consensus 179 fyes~rF~Af--~~qWvvkarin~~~~~p~~s~~r~l~~qL~Lks~~-------~~~l~v~y~~l~ 235 (292)
+..|+.|++- |..|.+++..|.+.. +....|+.-|.|-+.. .-.-.+++.++.
T Consensus 62 ~i~S~~Fyvg~~GY~w~i~~ypnG~g~----~~~~~iSvyl~L~~ge~D~~L~WP~~~~~tfsLlD 123 (186)
T cd03777 62 SLYSQPFYTGYFGYKMCARVYLNGDGM----GKGTHLSLFFVIMRGEYDALLPWPFKQKVTLMLMD 123 (186)
T ss_pred EEECCCeEeCCCCeeEEEEEEcCCCCC----CCCCEEEEEEEEecCCcccccCCceeEEEEEEEEc
Confidence 7899999999 999999999996432 1223577777765543 223445555554
No 17
>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=53.17 E-value=1.3e+02 Score=24.73 Aligned_cols=44 Identities=7% Similarity=0.046 Sum_probs=30.7
Q ss_pred cceeeecceEEecCEEEEEEEEecCCCCCCCCCcceeEEEEEEccC
Q psy5746 177 KLFYETSRFSAFNNQWVVKARINTCQRDPTLSSDREMTYQLILKTK 222 (292)
Q Consensus 177 ~lfyes~rF~Af~~qWvvkarin~~~~~p~~s~~r~l~~qL~Lks~ 222 (292)
..++.|+.|.++|..|.+++..++...+ + .....|+.-|.+.+.
T Consensus 16 ~e~~~S~~f~vgG~~W~i~~~P~g~~~~-~-~~~~~lsvyL~~~~~ 59 (137)
T cd03772 16 SESVLSPPCFVRNLPWKIMVMPRNYPDR-N-PHQKSVGFFLQCNAE 59 (137)
T ss_pred CCcEECCCEEECCcceEEEEEeCCCCCC-C-CCCCeEEEEEeeCCc
Confidence 3579999999999999999987753211 0 112457777777654
No 18
>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=46.25 E-value=81 Score=28.02 Aligned_cols=55 Identities=13% Similarity=0.015 Sum_probs=38.9
Q ss_pred ccceeeecce-EEecCEEEEEEEEecCCCCCCCCCcceeEEEEEEccCCCC-----c---eEEEEEEEe
Q psy5746 176 HKLFYETSRF-SAFNNQWVVKARINTCQRDPTLSSDREMTYQLILKTKTTT-----A---MTVHFMVLR 235 (292)
Q Consensus 176 ~~lfyes~rF-~Af~~qWvvkarin~~~~~p~~s~~r~l~~qL~Lks~~~~-----~---l~v~y~~l~ 235 (292)
...++.|++| ++.+..|.|++..|.+.. ....|+.-|.|-+.... | ..+++.|+.
T Consensus 20 ~g~~i~S~~FysvgGy~w~I~~YPnG~~~-----~~~~lSlyL~L~~g~~d~~L~WP~v~a~~t~~LlD 83 (167)
T cd03771 20 KGTKIYSPRFYSPEGYAFQVGLYPNGTES-----YPGYTGLYFHLCSGENDDVLEWPCPNRQATMTLLD 83 (167)
T ss_pred CCCEEECCCCCccCCeEEEEEEEeCCCCC-----CCCcceEEEEEecCCccccccCcceeEEEEEEEEC
Confidence 3447889998 999999999999986432 22458888888766543 2 356666664
No 19
>KOG0320|consensus
Probab=46.24 E-value=8 Score=35.41 Aligned_cols=24 Identities=25% Similarity=0.382 Sum_probs=18.8
Q ss_pred ceecceeCCCCCcchhhcch--hHhH
Q psy5746 44 ILCCAVCLDLPRSAVYQMQD--FVMK 67 (292)
Q Consensus 44 ll~C~VC~dlp~p~i~QC~~--HL~C 67 (292)
.+-||+|+|-+.--+---+. |+.|
T Consensus 131 ~~~CPiCl~~~sek~~vsTkCGHvFC 156 (187)
T KOG0320|consen 131 TYKCPICLDSVSEKVPVSTKCGHVFC 156 (187)
T ss_pred ccCCCceecchhhccccccccchhHH
Confidence 58999999987765544455 9999
No 20
>PF13923 zf-C3HC4_2: Zinc finger, C3HC4 type (RING finger); PDB: 3HCU_A 2ECI_A 2JMD_A 3HCS_B 3HCT_A 3ZTG_A 2YUR_A 3L11_A.
Probab=44.03 E-value=4.7 Score=26.79 Aligned_cols=21 Identities=29% Similarity=0.477 Sum_probs=16.3
Q ss_pred cceeCCCCCcchhhcch-hHhH
Q psy5746 47 CAVCLDLPRSAVYQMQD-FVMK 67 (292)
Q Consensus 47 C~VC~dlp~p~i~QC~~-HL~C 67 (292)
|++|+|.+..|+..-.- |++|
T Consensus 1 C~iC~~~~~~~~~~~~CGH~fC 22 (39)
T PF13923_consen 1 CPICLDELRDPVVVTPCGHSFC 22 (39)
T ss_dssp ETTTTSB-SSEEEECTTSEEEE
T ss_pred CCCCCCcccCcCEECCCCCchh
Confidence 89999999998655555 8888
No 21
>PLN03086 PRLI-interacting factor K; Provisional
Probab=43.65 E-value=16 Score=38.56 Aligned_cols=41 Identities=22% Similarity=0.362 Sum_probs=31.5
Q ss_pred hhhhhhccccCeeeecccCCCCCccccc-----------cchhhhhhhhCCCCCCC
Q psy5746 81 AVHHVTLLLRKLLTTCKYSMIGCPWCGP-----------QHELKSHEESCAHPHKS 125 (292)
Q Consensus 81 ~~sH~~~~C~~r~~~CkY~~~GC~W~Gp-----------~~e~~~HE~~C~f~~ks 125 (292)
...|....|+.+++.|.| |.-..+ ...+..||..|.-.+-.
T Consensus 492 L~~H~~thCp~Kpi~C~f----C~~~v~~g~~~~d~~d~~s~Lt~HE~~CG~rt~~ 543 (567)
T PLN03086 492 MVQHQASTCPLRLITCRF----CGDMVQAGGSAMDVRDRLRGMSEHESICGSRTAP 543 (567)
T ss_pred HHhhhhccCCCCceeCCC----CCCccccCccccchhhhhhhHHHHHHhcCCcceE
Confidence 334988899999999999 666654 34789999999665544
No 22
>PLN03208 E3 ubiquitin-protein ligase RMA2; Provisional
Probab=43.46 E-value=9.2 Score=35.14 Aligned_cols=26 Identities=31% Similarity=0.522 Sum_probs=20.7
Q ss_pred hccceecceeCCCCCcchhhcch-hHhH
Q psy5746 41 LGGILCCAVCLDLPRSAVYQMQD-FVMK 67 (292)
Q Consensus 41 L~~ll~C~VC~dlp~p~i~QC~~-HL~C 67 (292)
+++.+.|++|+|....|+.- .. |+.|
T Consensus 15 ~~~~~~CpICld~~~dPVvT-~CGH~FC 41 (193)
T PLN03208 15 SGGDFDCNICLDQVRDPVVT-LCGHLFC 41 (193)
T ss_pred CCCccCCccCCCcCCCcEEc-CCCchhH
Confidence 44579999999999888763 34 9999
No 23
>KOG0297|consensus
Probab=42.86 E-value=12 Score=37.23 Aligned_cols=30 Identities=27% Similarity=0.449 Sum_probs=27.0
Q ss_pred cCeeeecccCCCCCccccccchhhhhhhhC
Q psy5746 90 RKLLTTCKYSMIGCPWCGPQHELKSHEESC 119 (292)
Q Consensus 90 ~~r~~~CkY~~~GC~W~Gp~~e~~~HE~~C 119 (292)
.+.++.|-++..||+|.|.+.....|+..|
T Consensus 83 ~~l~i~c~~~~~GC~~~~~l~~~~~Hl~~c 112 (391)
T KOG0297|consen 83 LKLPIRCIFASRGCRADLELEALQGHLSTC 112 (391)
T ss_pred HhcccccccCCCCccccccHHHHHhHhccC
Confidence 478999999999999999999999998765
No 24
>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=41.67 E-value=1.3e+02 Score=24.66 Aligned_cols=55 Identities=18% Similarity=0.325 Sum_probs=35.0
Q ss_pred cceeeecceEEecC---EEEEEEEEecCCCCCCCCCcceeEEEEEEccCCCCceEE--EEEEEe
Q psy5746 177 KLFYETSRFSAFNN---QWVVKARINTCQRDPTLSSDREMTYQLILKTKTTTAMTV--HFMVLR 235 (292)
Q Consensus 177 ~lfyes~rF~Af~~---qWvvkarin~~~~~p~~s~~r~l~~qL~Lks~~~~~l~v--~y~~l~ 235 (292)
..+++|++|.+=+. .|.+++..+.... +....++.-|.|.+....++.+ .+.+++
T Consensus 22 ~~~i~S~~F~vgg~~~~~W~l~~yP~G~~~----~~~~~iSlyL~l~~~~~~~v~a~f~~~l~n 81 (139)
T cd03774 22 GEVIKSSTFSSGANDKLKWCLRVNPKGLDE----ESKDYLSLYLLLVSCPKSEVRAKFKFSILN 81 (139)
T ss_pred CCEEECCCeecCCcCCceEEEEEeCCCCCC----CCCCeEEEEEEEccCCCCcEEEEEEEEEEe
Confidence 34789999999874 9999999875321 1123577777775533334444 444554
No 25
>PLN03086 PRLI-interacting factor K; Provisional
Probab=39.87 E-value=16 Score=38.51 Aligned_cols=29 Identities=21% Similarity=0.469 Sum_probs=25.3
Q ss_pred eeeecccCCCCCccccccchhhhhhhhCCCCCC
Q psy5746 92 LLTTCKYSMIGCPWCGPQHELKSHEESCAHPHK 124 (292)
Q Consensus 92 r~~~CkY~~~GC~W~Gp~~e~~~HE~~C~f~~k 124 (292)
=.+.|++ |.|.+|......||..|.|...
T Consensus 406 ~~V~C~N----C~~~i~l~~l~lHe~~C~r~~V 434 (567)
T PLN03086 406 DTVECRN----CKHYIPSRSIALHEAYCSRHNV 434 (567)
T ss_pred CeEECCC----CCCccchhHHHHHHhhCCCcce
Confidence 3567988 9999999999999999998644
No 26
>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=37.45 E-value=1.3e+02 Score=24.73 Aligned_cols=54 Identities=6% Similarity=0.036 Sum_probs=37.0
Q ss_pred ceeeecceEEe--cCEEEEEEEEecCCCCCCCCCcceeEEEEEEccCCC-------CceEEEEEEEe
Q psy5746 178 LFYETSRFSAF--NNQWVVKARINTCQRDPTLSSDREMTYQLILKTKTT-------TAMTVHFMVLR 235 (292)
Q Consensus 178 lfyes~rF~Af--~~qWvvkarin~~~~~p~~s~~r~l~~qL~Lks~~~-------~~l~v~y~~l~ 235 (292)
.++.|+.|.+= +..|.+++..|.... +....|+.-|.|-+... ....+++.|++
T Consensus 23 ~~~~S~~F~vg~~G~~w~i~~yP~G~~~----~~~~~lsl~L~l~~~~~d~~~~w~~~~~~~~~l~d 85 (149)
T cd00270 23 TVLYSPPFYTSRYGYKLCLRLYLNGDGT----GKGTHLSLFVHVMKGEYDALLEWPFRGKITLTLLD 85 (149)
T ss_pred ceEECCCcccCCCCceEEEEEEeCCCCC----CCCCEEEEEEEEeccCCCccccCCccceEEEEEEC
Confidence 57899999998 999999999885421 11236887777754422 23566667766
No 27
>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=30.64 E-value=2.3e+02 Score=24.09 Aligned_cols=55 Identities=13% Similarity=0.115 Sum_probs=38.2
Q ss_pred cceeeecceEEe--cCEEEEEEEEecCCCCCCCCCcceeEEEEEEccCCC-------CceEEEEEEEe
Q psy5746 177 KLFYETSRFSAF--NNQWVVKARINTCQRDPTLSSDREMTYQLILKTKTT-------TAMTVHFMVLR 235 (292)
Q Consensus 177 ~lfyes~rF~Af--~~qWvvkarin~~~~~p~~s~~r~l~~qL~Lks~~~-------~~l~v~y~~l~ 235 (292)
..+..|++|.+= +..|.|+...|.... .....|+.-|.|.+... -.-.+++.|+.
T Consensus 22 ~~~i~S~~F~vg~~Gy~w~i~~yPnG~~~----~~~~~vs~~l~l~~ge~d~~l~wp~~a~~~~~llD 85 (154)
T cd03781 22 NLELFSPPFYTHRYGYKLQVSAFLNGNGS----GEGSHLSVYIRVLPGEYDNLLEWPFSHRITFTLLD 85 (154)
T ss_pred CceEECCCeecCCCCEEEEEEEECCCCCC----CCCCEEEEEEEEecCCcccccCCceeeEEEEEEEC
Confidence 357899999999 999999999885422 12346888888877421 22455566665
No 28
>TIGR00599 rad18 DNA repair protein rad18. This family is based on the phylogenomic analysis of JA Eisen (1999, Ph.D. Thesis, Stanford University).
Probab=26.92 E-value=22 Score=35.88 Aligned_cols=29 Identities=21% Similarity=0.281 Sum_probs=22.4
Q ss_pred HhhccceecceeCCCCCcchhhcchhHhH
Q psy5746 39 QRLGGILCCAVCLDLPRSAVYQMQDFVMK 67 (292)
Q Consensus 39 ~~L~~ll~C~VC~dlp~p~i~QC~~HL~C 67 (292)
+.|...+.|+||+++...|+..-..|..|
T Consensus 21 ~~Le~~l~C~IC~d~~~~PvitpCgH~FC 49 (397)
T TIGR00599 21 YPLDTSLRCHICKDFFDVPVLTSCSHTFC 49 (397)
T ss_pred cccccccCCCcCchhhhCccCCCCCCchh
Confidence 45777899999999998887542238888
No 29
>COG2835 Uncharacterized conserved protein [Function unknown]
Probab=25.61 E-value=28 Score=26.62 Aligned_cols=16 Identities=44% Similarity=0.737 Sum_probs=13.5
Q ss_pred HHhhccceecceeCCC
Q psy5746 38 EQRLGGILCCAVCLDL 53 (292)
Q Consensus 38 e~~L~~ll~C~VC~dl 53 (292)
..+|-.++.||+|..-
T Consensus 2 d~~LLeiLaCP~~kg~ 17 (60)
T COG2835 2 DYRLLEILACPVCKGP 17 (60)
T ss_pred chhhheeeeccCcCCc
Confidence 4678899999999875
No 30
>PF10238 Eapp_C: E2F-associated phosphoprotein; InterPro: IPR019370 This entry represents E2F binding proteins. E2F transcription factors play an essential role in cell proliferation and apoptosis and their activity is frequently deregulated in human cancers. E2F activity is regulated by a variety of mechanisms, frequently mediated by proteins binding to individual members or a subgroup of the family. E2F-associated phosphoprotein (EAPP)interacts with a subset of E2F factors and influences E2F-dependent promoter activity. EAPP is present throughout the cell cycle but disappears during mitosis [].
Probab=25.60 E-value=28 Score=30.31 Aligned_cols=22 Identities=18% Similarity=0.401 Sum_probs=16.9
Q ss_pred cceecceeCCCCCcchhhcchhHhH
Q psy5746 43 GILCCAVCLDLPRSAVYQMQDFVMK 67 (292)
Q Consensus 43 ~ll~C~VC~dlp~p~i~QC~~HL~C 67 (292)
.+|.||.|+... .|+||+|=.=
T Consensus 28 avLsCp~Cft~l---c~dcQrHe~y 49 (136)
T PF10238_consen 28 AVLSCPACFTTL---CLDCQRHEKY 49 (136)
T ss_pred ceEeCcccccee---eecccccchh
Confidence 389999999755 6899985443
No 31
>PHA02291 hypothetical protein
Probab=23.30 E-value=92 Score=26.75 Aligned_cols=41 Identities=27% Similarity=0.367 Sum_probs=27.7
Q ss_pred eeeeeccc-ccccceeeecceEEecCEEEEEEEEecCCCCCC
Q psy5746 166 MKPYRTDE-FIHKLFYETSRFSAFNNQWVVKARINTCQRDPT 206 (292)
Q Consensus 166 l~Pyrtd~-f~~~lfyes~rF~Af~~qWvvkarin~~~~~p~ 206 (292)
..|=||++ .+-+.||-|++|.-=..-=-.++.-.|...||+
T Consensus 79 ~LPGRT~~~sID~~~YKsS~F~EG~~FKL~RiYT~D~~~~~~ 120 (132)
T PHA02291 79 YLPGRTGDNSIDMRYYKTSRFKEGVNFKLIRVYTEDGEDNPI 120 (132)
T ss_pred cCCCCCCCcccceeeeeccccccccceEEEEEEeecCCCCcc
Confidence 45889877 899999999999864433333333345556664
No 32
>PF14768 RPA_interact_C: Replication protein A interacting C-terminal
Probab=22.67 E-value=38 Score=26.53 Aligned_cols=51 Identities=20% Similarity=0.165 Sum_probs=32.2
Q ss_pred cceeCCCCCcchhhcch-hHhHh--hhhhh--hh-----hc--chhhh-hhhhccccCeeeecccCCCC
Q psy5746 47 CAVCLDLPRSAVYQMQD-FVMKL--LHVLT--VG-----LK--SARAV-HHVTLLLRKLLTTCKYSMIG 102 (292)
Q Consensus 47 C~VC~dlp~p~i~QC~~-HL~C~--~~lla--~~-----L~--vEk~~-sH~~~~C~~r~~~CkY~~~G 102 (292)
||||.-..+.. .+ .+.|. .++-. ++ |+ +|+++ .|... |...|.+..-...|
T Consensus 2 CPVC~~~~L~~----~~~~i~C~Cgl~l~~~~~~~tl~~l~~~L~~~~~~H~~~-C~~~p~F~v~~~~~ 65 (82)
T PF14768_consen 2 CPVCQKGNLRE----NSNVISCSCGLRLNTQQDELTLEELRQLLEEAVTEHSDR-CSSTPQFSVEPGFG 65 (82)
T ss_pred CCccCCCcccc----cCCeEECCCccEEecCCCCCCHHHHHHHHHHHHHHHHHh-CCCCCEEEEecCCC
Confidence 99999888765 55 77771 11111 22 33 44444 49877 99999888776544
No 33
>PRK11827 hypothetical protein; Provisional
Probab=21.67 E-value=35 Score=25.93 Aligned_cols=30 Identities=27% Similarity=0.457 Sum_probs=19.4
Q ss_pred HHhhccceecceeCCCCCcchhhcch-hHhH-hhh
Q psy5746 38 EQRLGGILCCAVCLDLPRSAVYQMQD-FVMK-LLH 70 (292)
Q Consensus 38 e~~L~~ll~C~VC~dlp~p~i~QC~~-HL~C-~~~ 70 (292)
+.+|-.++.||+|..--. |--.. -|+| .++
T Consensus 2 d~~LLeILaCP~ckg~L~---~~~~~~~Lic~~~~ 33 (60)
T PRK11827 2 DHRLLEIIACPVCNGKLW---YNQEKQELICKLDN 33 (60)
T ss_pred ChHHHhheECCCCCCcCe---EcCCCCeEECCccC
Confidence 457888999999986322 22234 6888 444
No 34
>PF14835 zf-RING_6: zf-RING of BARD1-type protein; PDB: 1JM7_B.
Probab=21.62 E-value=29 Score=26.90 Aligned_cols=29 Identities=24% Similarity=0.534 Sum_probs=14.1
Q ss_pred HhhccceecceeCCCCCcchhhcch-hHhH
Q psy5746 39 QRLGGILCCAVCLDLPRSAVYQMQD-FVMK 67 (292)
Q Consensus 39 ~~L~~ll~C~VC~dlp~p~i~QC~~-HL~C 67 (292)
++|..++.|..|.++...|+.-=.- |..|
T Consensus 2 ~~le~lLrCs~C~~~l~~pv~l~~CeH~fC 31 (65)
T PF14835_consen 2 ERLEELLRCSICFDILKEPVCLGGCEHIFC 31 (65)
T ss_dssp HHHHHTTS-SSS-S--SS-B---SSS--B-
T ss_pred hHHHHhcCCcHHHHHhcCCceeccCccHHH
Confidence 4677899999999999999642223 8888
No 35
>KOG2879|consensus
Probab=20.07 E-value=42 Score=32.83 Aligned_cols=36 Identities=14% Similarity=0.072 Sum_probs=25.5
Q ss_pred hhhHHHhhccceecceeCCCCCcc-hhhcchhHhH-hh
Q psy5746 34 ADKLEQRLGGILCCAVCLDLPRSA-VYQMQDFVMK-LL 69 (292)
Q Consensus 34 ~~~le~~L~~ll~C~VC~dlp~p~-i~QC~~HL~C-~~ 69 (292)
......--.+--+||+|-.-|.-| +.+|..|..| +|
T Consensus 229 p~~sss~~t~~~~C~~Cg~~PtiP~~~~~C~HiyCY~C 266 (298)
T KOG2879|consen 229 PKFSSSTGTSDTECPVCGEPPTIPHVIGKCGHIYCYYC 266 (298)
T ss_pred CCcccccccCCceeeccCCCCCCCeeeccccceeehhh
Confidence 444444445567899999998776 6776569999 44
Done!