Query psy9258
Match_columns 163
No_of_seqs 106 out of 436
Neff 7.2
Searched_HMMs 46136
Date Fri Aug 16 22:50:50 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9258.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9258hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00182 TBOX T-box DNA binding 100.0 5.5E-65 1.2E-69 396.2 15.1 156 1-162 22-180 (188)
2 smart00425 TBOX Domain first f 100.0 5.1E-63 1.1E-67 386.2 14.9 156 1-162 21-181 (190)
3 PF00907 T-box: T-box; InterP 100.0 1.2E-59 2.6E-64 365.9 11.3 157 1-162 20-179 (184)
4 KOG3586|consensus 100.0 9.7E-59 2.1E-63 386.3 12.0 158 1-162 100-265 (437)
5 KOG3585|consensus 100.0 2.8E-57 6E-62 379.4 13.7 156 1-162 45-204 (328)
6 PF00041 fn3: Fibronectin type 79.7 3.5 7.7E-05 26.2 3.9 22 15-36 57-78 (85)
7 PF04775 Bile_Hydr_Trans: Acyl 71.8 6.2 0.00014 28.7 3.7 28 14-41 5-32 (126)
8 smart00060 FN3 Fibronectin typ 58.5 15 0.00033 21.7 3.2 23 13-35 56-78 (83)
9 cd00063 FN3 Fibronectin type 3 56.0 13 0.00028 22.9 2.6 24 12-35 55-78 (93)
10 PF09294 Interfer-bind: Interf 50.4 26 0.00057 23.7 3.6 23 15-37 68-90 (106)
11 KOG0179|consensus 41.4 16 0.00036 29.3 1.5 20 7-26 118-138 (235)
12 PF12929 Mid1: Stretch-activat 28.9 66 0.0014 28.5 3.4 29 4-32 177-205 (427)
13 COG0634 Hpt Hypoxanthine-guani 24.0 42 0.00092 26.1 1.2 20 131-150 56-76 (178)
14 PF04170 NlpE: NlpE N-terminal 23.1 1.3E+02 0.0027 20.2 3.3 41 11-52 10-52 (87)
15 PF07198 DUF1410: Protein of u 20.1 67 0.0014 20.2 1.4 21 4-29 33-53 (66)
No 1
>cd00182 TBOX T-box DNA binding domain of the T-box family of transcriptional regulators. The T-box family is an ancient group that appears to play a critical role in development in all animal species. These genes were uncovered on the basis of similarity to the DNA binding domain of murine Brachyury (T) gene product, the defining feature of the family. Common features shared by T-box family members are DNA-binding and transcriptional regulatory activity, a role in development and conserved expression patterns, most of the known genes in all species being expressed in mesoderm or mesoderm precursors.
Probab=100.00 E-value=5.5e-65 Score=396.15 Aligned_cols=156 Identities=43% Similarity=0.736 Sum_probs=147.2
Q ss_pred CeEecCCCCCCCcceEEEeCCCCCCCeeEEEEEEEccCcceEecc-cccccCcCCCCCCCCCCceEEecCCCCCchhhhc
Q psy9258 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKT-SWEPVGDAERPIAHPAARLYSHPAGHALGSFWTG 79 (163)
Q Consensus 1 Mivtk~GR~~FP~l~~~v~GL~p~~~Y~i~l~~~~~d~~ryk~~~-~W~~~~~~~~~~~~~~~~~~~H~~~~~tG~~WM~ 79 (163)
|||||+||||||.|+|+|+||||+++|.|.|+|+++|++||+|.+ +|.++|++++. .+.++|+|||||.+|++||+
T Consensus 22 MIITk~GRrmFP~l~~~vsGLdp~~~Y~v~l~~~~~D~~Rykf~~~~W~~~g~~e~~---~~~~~~~HPdsp~tG~~wM~ 98 (188)
T cd00182 22 MIITKSGRRMFPTLKVKVSGLDPNALYSVLMDLVPVDDHRYKFSGGKWVVAGKAEPH---LPPRVYVHPDSPATGAHWMK 98 (188)
T ss_pred EEEecCCcccccceEEEEeCCCcccceEEEEEEEEcCCcEEEecCCcEeEcCCCCCC---CCCceEECCCCCcCHHHHhh
Confidence 999999999999999999999999999999999999999999999 99999999988 78899999999999999999
Q ss_pred CceeeeeeeeecCCc--cceEEecCcceeccEEEEEeCCCCCCCCCCCCCeeeEEEccccEEEEcCCCCChhhhHhhccC
Q psy9258 80 QTLHLNKIKLANAFV--EGTILLNSMHKYIPRIHLIKNSPQPSTHWETPLSRAIFAFPITEFIAVTAYANQTVKDDACLK 157 (163)
Q Consensus 80 ~~v~F~~~kitn~~~--~~~i~l~s~hkY~PvL~I~~~~~~~~~~~~~~~~~~~f~f~~T~FIaVT~YqN~~I~~lK~~~ 157 (163)
++|+|+++||||+.. .++|.|+|||||+|||+|+++++..... ...+ .+|+||||+|||||+|||++|++||+.+
T Consensus 99 ~~isF~kvKlTN~~~~~~~~i~L~SmhKY~Prl~I~~~~~~~~~~--~~~~-~~f~F~eT~FiAVTaYqN~~It~lKi~~ 175 (188)
T cd00182 99 QPVSFDKLKLTNNTLDNNGHIILNSMHKYQPRLHIVEVDDSSPFS--WRLV-QTFSFPETEFIAVTAYQNQEITQLKIDN 175 (188)
T ss_pred CccccchhhcccCCCCCCCEEEEeccceEEeEEEEEEcCCCcccc--cccc-EEEECCCeEEEEEEeecCHhHhhhhhcC
Confidence 999999999999996 6799999999999999999998865421 1245 8999999999999999999999999999
Q ss_pred cCCCC
Q psy9258 158 KSMLS 162 (163)
Q Consensus 158 n~~~~ 162 (163)
|.||.
T Consensus 176 NpfAk 180 (188)
T cd00182 176 NPFAK 180 (188)
T ss_pred Ccccc
Confidence 99996
No 2
>smart00425 TBOX Domain first found in the mice T locus (Brachyury) protein.
Probab=100.00 E-value=5.1e-63 Score=386.22 Aligned_cols=156 Identities=40% Similarity=0.696 Sum_probs=146.5
Q ss_pred CeEecCCCCCCCcceEEEeCCCCCCCeeEEEEEEEccCcceEecc-cccccCcCCCCCCCCCCceEEecCCCCCchhhhc
Q psy9258 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKT-SWEPVGDAERPIAHPAARLYSHPAGHALGSFWTG 79 (163)
Q Consensus 1 Mivtk~GR~~FP~l~~~v~GL~p~~~Y~i~l~~~~~d~~ryk~~~-~W~~~~~~~~~~~~~~~~~~~H~~~~~tG~~WM~ 79 (163)
|||||+||||||.|+|+|+||||+++|.|.|+|+++|++||+|.+ +|.++|++++. .+.++++|||||++|++||+
T Consensus 21 MIVTk~GRrmFP~l~~~vsGLdp~~~Y~v~l~~~~~d~~rykf~~~~W~~~g~~e~~---~~~~~~~Hpdsp~tG~~wM~ 97 (190)
T smart00425 21 MIVTKSGRRMFPTLKYKVSGLDPNALYSVLMDLVPVDDKRYKFNNGKWVVAGKAEPH---MPSRVYVHPDSPATGAHWMK 97 (190)
T ss_pred EEEecCCceeCCeeEEEEeCCCccCcEEEEEEEEEccCcEEEecCCcEEEcCCCCCC---CCCceEECCCCccCHHHHhh
Confidence 999999999999999999999999999999999999999999999 99999999988 67899999999999999999
Q ss_pred CceeeeeeeeecCCc--cceE--EecCcceeccEEEEEeCCCCCCCCCCCCCeeeEEEccccEEEEcCCCCChhhhHhhc
Q psy9258 80 QTLHLNKIKLANAFV--EGTI--LLNSMHKYIPRIHLIKNSPQPSTHWETPLSRAIFAFPITEFIAVTAYANQTVKDDAC 155 (163)
Q Consensus 80 ~~v~F~~~kitn~~~--~~~i--~l~s~hkY~PvL~I~~~~~~~~~~~~~~~~~~~f~f~~T~FIaVT~YqN~~I~~lK~ 155 (163)
++|+|+++||||+.. +++| .|+|||||+|||+|+++++..... .+.+ .+|+||||+|||||+|||++|++||+
T Consensus 98 ~~v~F~kvKlTN~~~~~~~~i~i~L~SmhkY~P~l~I~~~~~~~~~~--~~~~-~~f~F~eT~FiaVTaYqN~~it~lKi 174 (190)
T smart00425 98 QPVSFDKVKLTNNQSDKNGHLQIILNSMHKYQPRLHIVEVDDISKEI--LSQF-KTFVFPETQFIAVTAYQNQKITKLKI 174 (190)
T ss_pred CcccccccceeccccccCCcEeeeeccCceEeeEEEEEEeCCccccc--ccce-eEEECCceEEEEEeeecccchhhccc
Confidence 999999999999988 5665 999999999999999998876543 2345 79999999999999999999999999
Q ss_pred cCcCCCC
Q psy9258 156 LKKSMLS 162 (163)
Q Consensus 156 ~~n~~~~ 162 (163)
.+|.||.
T Consensus 175 ~~NpfAk 181 (190)
T smart00425 175 DNNPFAK 181 (190)
T ss_pred cCCCCcC
Confidence 9999996
No 3
>PF00907 T-box: T-box; InterPro: IPR001699 Transcription factors of the T-box family are required both for early cell-fate decisions, such as those necessary for formation of the basic vertebrate body plan, and for differentiation and organogenesis []. The T-box is defined as the minimal region within the T-box protein that is both necessary and sufficient for sequence-specific DNA binding, all members of the family so far examined bind to the DNA consensus sequence TCACACCT. The T-box is a relatively large DNA-binding domain, generally comprising about a third of the entire protein (17-26 kDa). These genes were uncovered on the basis of similarity to the DNA binding domain [] of Mus musculus (Mouse) Brachyury (T) gene product, which similarity is the defining feature of the family. The Brachyury gene is named for its phenotype, which was identified 70 years ago as a mutant mouse strain with a short blunted tail. The gene, and its paralogues, have become a well-studied model for the family, and hence much of what is known about the T-box family is derived from the murine Brachyury gene. Consistent with its nuclear location, Brachyury protein has a sequence-specific DNA-binding activity and can act as a transcriptional regulator []. Homozygous mutants for the gene undergo extensive developmental anomalies, thus rendering the mutation lethal []. The postulated role of Brachyury is as a transcription factor, regulating the specification and differentiation of posterior mesoderm during gastrulation in a dose-dependent manner []. T-box proteins tend to be expressed in specific organs or cell types, especially during development, and they are generally required for the development of those tissues, for example, Brachyury is expressed in posterior mesoderm and in the developing notochord, and it is required for the formation of these cells in mice []. ; GO: 0003700 sequence-specific DNA binding transcription factor activity, 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 1H6F_B 4A04_A 1XBR_B 2X6V_B 2X6U_A.
Probab=100.00 E-value=1.2e-59 Score=365.92 Aligned_cols=157 Identities=39% Similarity=0.689 Sum_probs=124.4
Q ss_pred CeEecCCCCCCCcceEEEeCCCCCCCeeEEEEEEEccCcceEecc-cccccCcCCCCCCCCCCceEEecCCCCCchhhhc
Q psy9258 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKT-SWEPVGDAERPIAHPAARLYSHPAGHALGSFWTG 79 (163)
Q Consensus 1 Mivtk~GR~~FP~l~~~v~GL~p~~~Y~i~l~~~~~d~~ryk~~~-~W~~~~~~~~~~~~~~~~~~~H~~~~~tG~~WM~ 79 (163)
||||+.||+|||.|+|.|+||||++.|+|+|+|+++|+++|+|.+ +|.+++++++. .+.+.++|++|+++|++||+
T Consensus 20 Mivt~~GR~~FP~l~y~vsGL~p~~~Y~i~l~~~~~d~~~~k~~~~~W~~~~~~~~~---~~~~~~~h~~~~~~G~~WM~ 96 (184)
T PF00907_consen 20 MIVTKNGRRMFPTLEYSVSGLDPDSLYSISLHFERVDNKRYKFSNGKWVPSGKAEPP---MPPRVVIHPDGPQTGSEWMK 96 (184)
T ss_dssp EE-BTT-EE-SS-EEEEEESS-TTSEEEEEEEEEESCSEEEEEETTEEEEEEE---B--------EE-TT-SEEHHHHHH
T ss_pred EEEeecccccccccEEEecCCCCCcceEEEEEEEEecCceeeccccccccccccccc---ccceEEEEecCcCCHHHhCc
Confidence 999999999999999999999999999999999999999999999 99999998887 67889999999999999999
Q ss_pred CceeeeeeeeecCCc--cceEEecCcceeccEEEEEeCCCCCCCCCCCCCeeeEEEccccEEEEcCCCCChhhhHhhccC
Q psy9258 80 QTLHLNKIKLANAFV--EGTILLNSMHKYIPRIHLIKNSPQPSTHWETPLSRAIFAFPITEFIAVTAYANQTVKDDACLK 157 (163)
Q Consensus 80 ~~v~F~~~kitn~~~--~~~i~l~s~hkY~PvL~I~~~~~~~~~~~~~~~~~~~f~f~~T~FIaVT~YqN~~I~~lK~~~ 157 (163)
+||+|+++||||+.. ++.|.|+|||||+|||+|++++++.... +...+ .+|+||+|||||||+|||++|++||+.+
T Consensus 97 ~~v~F~~vkitn~~~~~~~~I~L~s~hkY~Pvl~I~~~~~~~~~~-~~~~~-~~f~f~~t~FIaVT~Yqn~~I~~lK~~~ 174 (184)
T PF00907_consen 97 NGVSFDKVKITNNKEDKKGNIFLNSMHKYQPVLHIYEVNSNGSPS-PNQPV-HEFSFPETEFIAVTAYQNEEIRQLKIDN 174 (184)
T ss_dssp S-EEETT-EEESSTT-TST-EE--TTEEEEEEEEEEECTTTSCCC-SCSSE-EEEE-GGG-EEEESS-SSHHHHHHHHHH
T ss_pred ccEEeehhhhhCCCCCcccceEEccccEEEEEEEEEEcCCccccc-cccce-EEeecCcCeEEeecccchhhhhhhhhcc
Confidence 999999999999997 5679999999999999999998886432 12245 9999999999999999999999999999
Q ss_pred cCCCC
Q psy9258 158 KSMLS 162 (163)
Q Consensus 158 n~~~~ 162 (163)
|+||.
T Consensus 175 Npfak 179 (184)
T PF00907_consen 175 NPFAK 179 (184)
T ss_dssp -GGGG
T ss_pred CCCcc
Confidence 99996
No 4
>KOG3586|consensus
Probab=100.00 E-value=9.7e-59 Score=386.26 Aligned_cols=158 Identities=39% Similarity=0.683 Sum_probs=147.4
Q ss_pred CeEecCCCCCCCcceEEEeCCCCCCCeeEEEEEEEccCcceEe--cc-cccccCcCCCCCCCCCCceEEecCCCCCchhh
Q psy9258 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKY--KT-SWEPVGDAERPIAHPAARLYSHPAGHALGSFW 77 (163)
Q Consensus 1 Mivtk~GR~~FP~l~~~v~GL~p~~~Y~i~l~~~~~d~~ryk~--~~-~W~~~~~~~~~~~~~~~~~~~H~~~~~tG~~W 77 (163)
|||||+||||||++.++|+||||.+.|.|.++++++|++|||| .. +|..+|++|+. .++|+|.|||+|.+|+.|
T Consensus 100 MIITKsGRRMFPTvrV~~~GldP~a~Y~vlmDvVPvD~KRYRYayH~S~WlvAGkADp~---~p~R~yvHPDSP~sGe~w 176 (437)
T KOG3586|consen 100 MIITKSGRRMFPTVRVKFSGLDPMADYYVLMDVVPVDSKRYRYAYHSSSWLVAGKADPA---PPPRVYVHPDSPASGEQW 176 (437)
T ss_pred EEEecccccccceEEEEEecCCcccceEEEEeEEecccceeeeeecccceeeecCCCCC---CCCceeeCCCCCCCHHHH
Confidence 9999999999999999999999999999999999999999996 56 99999999999 899999999999999999
Q ss_pred hcCceeeeeeeeecCCc--cceEEecCcceeccEEEEEeCCCCCCC---CCCCCCeeeEEEccccEEEEcCCCCChhhhH
Q psy9258 78 TGQTLHLNKIKLANAFV--EGTILLNSMHKYIPRIHLIKNSPQPST---HWETPLSRAIFAFPITEFIAVTAYANQTVKD 152 (163)
Q Consensus 78 M~~~v~F~~~kitn~~~--~~~i~l~s~hkY~PvL~I~~~~~~~~~---~~~~~~~~~~f~f~~T~FIaVT~YqN~~I~~ 152 (163)
|++.|+|+|+|||||+. +|+|.|+|||||+||+||++.+..... ....+.+ ++|.||||+|+|||+|||+.||+
T Consensus 177 mkqiVSFdK~KLTNNelD~nGHIILNSMHkYQPRvHvV~~~~~~~s~~~~~~~e~~-kTF~FpET~FtAVTAYQNq~ITk 255 (437)
T KOG3586|consen 177 MKQIVSFDKLKLTNNELDDNGHIILNSMHKYQPRVHVVYLDPGNDSNKYVEKNEGF-KTFVFPETVFTAVTAYQNQRITK 255 (437)
T ss_pred HHhhhchheeeccccccccCCcEeeecccccCCceEEEEecCCCCccccccccccc-eeEeccceeEEEEeecccceeee
Confidence 99999999999999999 789999999999999999999876421 1123567 99999999999999999999999
Q ss_pred hhccCcCCCC
Q psy9258 153 DACLKKSMLS 162 (163)
Q Consensus 153 lK~~~n~~~~ 162 (163)
||++.|-||.
T Consensus 256 LKI~sNPFAK 265 (437)
T KOG3586|consen 256 LKIESNPFAK 265 (437)
T ss_pred eeeccCcccc
Confidence 9999999984
No 5
>KOG3585|consensus
Probab=100.00 E-value=2.8e-57 Score=379.40 Aligned_cols=156 Identities=39% Similarity=0.706 Sum_probs=145.3
Q ss_pred CeEecCCCCCCCcceEEEeCCCCCCCeeEEEEEEEccCcceEecc-cccccCcCCCCCCCCCCceEEecCCCCCchhhhc
Q psy9258 1 MIITKTGRRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKT-SWEPVGDAERPIAHPAARLYSHPAGHALGSFWTG 79 (163)
Q Consensus 1 Mivtk~GR~~FP~l~~~v~GL~p~~~Y~i~l~~~~~d~~ryk~~~-~W~~~~~~~~~~~~~~~~~~~H~~~~~tG~~WM~ 79 (163)
|||||.||||||.|+|+|+||||+++|.|.|+|+++|++||+|.+ +|.++|++++. .+.++++||||++||++||+
T Consensus 45 miitK~GRrmFP~l~~~VsGLdp~s~Y~i~l~~~~~D~~rykf~ng~W~p~gk~e~~---~~~~~~~Hpd~p~TG~~WM~ 121 (328)
T KOG3585|consen 45 MIVTKRGRRMFPALKFKVSGLDPNSLYSILLELVPIDDKRYKFNNGKWVPSGKAEPH---VPSKVYVHPDGPATGAHWMS 121 (328)
T ss_pred EEEecCCceeccccceeeccCCcccceEEEEEEEEccCceeeecCCeeccCCCCCCC---CCceEEEecCCccchHHHhc
Confidence 899999999999999999999999999999999999999999999 99999999997 88899999999999999999
Q ss_pred CceeeeeeeeecCCc--cce-EEecCcceeccEEEEEeCCCCCCCCCCCCCeeeEEEccccEEEEcCCCCChhhhHhhcc
Q psy9258 80 QTLHLNKIKLANAFV--EGT-ILLNSMHKYIPRIHLIKNSPQPSTHWETPLSRAIFAFPITEFIAVTAYANQTVKDDACL 156 (163)
Q Consensus 80 ~~v~F~~~kitn~~~--~~~-i~l~s~hkY~PvL~I~~~~~~~~~~~~~~~~~~~f~f~~T~FIaVT~YqN~~I~~lK~~ 156 (163)
.+|+|++|||||+.. ++. |.|+|||||+|||||++++...... -..+ .+|+|++|+|||||+|||++|++||+.
T Consensus 122 ~~V~F~kvKITN~~~~~~~~~i~l~SmHKY~P~l~i~~~~~~~~~~--~~~~-~~~~F~eT~FIaVTaYQn~~it~lKi~ 198 (328)
T KOG3585|consen 122 EPVSFDKVKITNNKSDKKGKVIILNSMHKYQPVLHIVELDASLISP--EISV-QSFKFPETQFIAVTAYQNQEITKLKID 198 (328)
T ss_pred CCcccceeEeeccccccCCceEeeecccceeeeEEEEEcccccCCC--ccce-eEEEcccceeEEeeeeecceehhhccc
Confidence 999999999999988 556 9999999999999999997332221 1245 899999999999999999999999999
Q ss_pred CcCCCC
Q psy9258 157 KKSMLS 162 (163)
Q Consensus 157 ~n~~~~ 162 (163)
.|+||.
T Consensus 199 ~Npfak 204 (328)
T KOG3585|consen 199 NNPFAK 204 (328)
T ss_pred CCcccc
Confidence 999996
No 6
>PF00041 fn3: Fibronectin type III domain; InterPro: IPR003961 Fibronectins are multi-domain glycoproteins found in a soluble form in plasma, and in an insoluble form in loose connective tissue and basement membranes []. They contain multiple copies of 3 repeat regions (types I, II and III), which bind to a variety of substances including heparin, collagen, DNA, actin, fibrin and fibronectin receptors on cell surfaces. The wide variety of these substances means that fibronectins are involved in a number of important functions: e.g., wound healing; cell adhesion; blood coagulation; cell differentiation and migration; maintenance of the cellular cytoskeleton; and tumour metastasis []. The role of fibronectin in cell differentiation is demonstrated by the marked reduction in the expression of its gene when neoplastic transformation occurs. Cell attachment has been found to be mediated by the binding of the tetrapeptide RGDS to integrins on the cell surface [], although related sequences can also display cell adhesion activity. Plasma fibronectin occurs as a dimer of 2 different subunits, linked together by 2 disulphide bonds near the C terminus. The difference in the 2 chains occurs in the type III repeat region and is caused by alternative splicing of the mRNA from one gene []. The observation that, in a given protein, an individual repeat of one of the 3 types (e.g., the first FnIII repeat) shows much less similarity to its subsequent tandem repeats within that protein than to its equivalent repeat between fibronectins from other species, has suggested that the repeating structure of fibronectin arose at an early stage of evolution. It also seems to suggest that the structure is subject to high selective pressure []. The fibronectin type III repeat region is an approximately 100 amino acid domain, different tandem repeats of which contain binding sites for DNA, heparin and the cell surface []. The superfamily of sequences believed to contain FnIII repeats represents 45 different families, the majority of which are involved in cell surface binding in some manner, or are receptor protein tyrosine kinases, or cytokine receptors.; GO: 0005515 protein binding; PDB: 1UEM_A 1TDQ_A 1X5I_A 2IC2_B 2IBG_C 2IBB_A 3R8Q_A 2FNB_A 1FNH_A 2EDB_A ....
Probab=79.72 E-value=3.5 Score=26.19 Aligned_cols=22 Identities=18% Similarity=0.339 Sum_probs=19.6
Q ss_pred eEEEeCCCCCCCeeEEEEEEEc
Q psy9258 15 QLQVSGLDQAAHYSLLVEFHLA 36 (163)
Q Consensus 15 ~~~v~GL~p~~~Y~i~l~~~~~ 36 (163)
.+.|.||+|...|.+.|...-.
T Consensus 57 ~~~i~~L~p~t~Y~~~v~a~~~ 78 (85)
T PF00041_consen 57 SYTITGLQPGTTYEFRVRAVNS 78 (85)
T ss_dssp EEEEESCCTTSEEEEEEEEEET
T ss_pred eeeeccCCCCCEEEEEEEEEeC
Confidence 7999999999999999987654
No 7
>PF04775 Bile_Hydr_Trans: Acyl-CoA thioester hydrolase/BAAT N-terminal region; InterPro: IPR006862 This entry presents the N-termini of acyl-CoA thioester hydrolase and bile acid-CoA:amino acid N-acetyltransferase (BAAT) []. This region is not thought to contain the active site of either enzyme. Thioesterase isoforms have been identified in peroxisomes, cytoplasm and mitochondria, where they are thought to have distinct functions in lipid metabolism []. For example, in peroxisomes, the hydrolase acts on bile-CoA esters [].; GO: 0016290 palmitoyl-CoA hydrolase activity, 0006629 lipid metabolic process; PDB: 3HLK_B 3K2I_B.
Probab=71.82 E-value=6.2 Score=28.67 Aligned_cols=28 Identities=18% Similarity=0.311 Sum_probs=17.5
Q ss_pred ceEEEeCCCCCCCeeEEEEEEEccCcce
Q psy9258 14 LQLQVSGLDQAAHYSLLVEFHLASPHKY 41 (163)
Q Consensus 14 l~~~v~GL~p~~~Y~i~l~~~~~d~~ry 41 (163)
+...|+||.|.+.|+|...+.--....|
T Consensus 5 ~~I~v~GL~p~~~vtl~a~~~~~~g~~w 32 (126)
T PF04775_consen 5 VDIRVSGLPPGQEVTLRARLTDDNGVQW 32 (126)
T ss_dssp -EEEEES--TT-EEEEEEEEE-TTS-EE
T ss_pred eEEEEeCCCCCCEEEEEEEEEeCCCCEE
Confidence 6789999999999999888884333334
No 8
>smart00060 FN3 Fibronectin type 3 domain. One of three types of internal repeat within the plasma protein, fibronectin. The tenth fibronectin type III repeat contains a RGD cell recognition sequence in a flexible loop between 2 strands. Type III modules are present in both extracellular and intracellular proteins.
Probab=58.51 E-value=15 Score=21.75 Aligned_cols=23 Identities=22% Similarity=0.307 Sum_probs=19.6
Q ss_pred cceEEEeCCCCCCCeeEEEEEEE
Q psy9258 13 SLQLQVSGLDQAAHYSLLVEFHL 35 (163)
Q Consensus 13 ~l~~~v~GL~p~~~Y~i~l~~~~ 35 (163)
.-.+.+.||.|...|.+.|....
T Consensus 56 ~~~~~i~~L~~~~~Y~v~v~a~~ 78 (83)
T smart00060 56 STSYTLTGLKPGTEYEFRVRAVN 78 (83)
T ss_pred ccEEEEeCcCCCCEEEEEEEEEc
Confidence 46799999999999999887654
No 9
>cd00063 FN3 Fibronectin type 3 domain; One of three types of internal repeats found in the plasma protein fibronectin. Its tenth fibronectin type III repeat contains an RGD cell recognition sequence in a flexible loop between 2 strands. Approximately 2% of all animal proteins contain the FN3 repeat; including extracellular and intracellular proteins, membrane spanning cytokine receptors, growth hormone receptors, tyrosine phosphatase receptors, and adhesion molecules. FN3-like domains are also found in bacterial glycosyl hydrolases.
Probab=56.01 E-value=13 Score=22.87 Aligned_cols=24 Identities=17% Similarity=0.272 Sum_probs=19.7
Q ss_pred CcceEEEeCCCCCCCeeEEEEEEE
Q psy9258 12 PSLQLQVSGLDQAAHYSLLVEFHL 35 (163)
Q Consensus 12 P~l~~~v~GL~p~~~Y~i~l~~~~ 35 (163)
....+.+.||.|+..|.+.|....
T Consensus 55 ~~~~~~i~~l~p~~~Y~~~v~a~~ 78 (93)
T cd00063 55 SETSYTLTGLKPGTEYEFRVRAVN 78 (93)
T ss_pred cccEEEEccccCCCEEEEEEEEEC
Confidence 456889999999999998876554
No 10
>PF09294 Interfer-bind: Interferon-alpha/beta receptor, fibronectin type III; InterPro: IPR015373 Members of this family adopt a secondary structure consisting of seven beta-strands arranged in an immunoglobulin-like beta-sandwich, in a Greek-key topology. They are required for binding to interferon-alpha []. ; PDB: 1A21_A 3LQM_B 3ELA_T 1AHW_C 2A2Q_T 1TFH_B 1FAK_T 1WSS_T 1W2K_T 2FIR_T ....
Probab=50.37 E-value=26 Score=23.67 Aligned_cols=23 Identities=22% Similarity=0.340 Sum_probs=17.2
Q ss_pred eEEEeCCCCCCCeeEEEEEEEcc
Q psy9258 15 QLQVSGLDQAAHYSLLVEFHLAS 37 (163)
Q Consensus 15 ~~~v~GL~p~~~Y~i~l~~~~~d 37 (163)
.+.+.+|+|+..|.+.+......
T Consensus 68 ~~~l~~L~p~t~YCv~V~~~~~~ 90 (106)
T PF09294_consen 68 SVTLSDLKPGTNYCVSVQAFSPS 90 (106)
T ss_dssp EEEEES--TTSEEEEEEEEEECS
T ss_pred EEEEeCCCCCCCEEEEEEEEecc
Confidence 46799999999999999994433
No 11
>KOG0179|consensus
Probab=41.44 E-value=16 Score=29.28 Aligned_cols=20 Identities=25% Similarity=0.740 Sum_probs=16.7
Q ss_pred CCCCCCcceEEE-eCCCCCCC
Q psy9258 7 GRRMFPSLQLQV-SGLDQAAH 26 (163)
Q Consensus 7 GR~~FP~l~~~v-~GL~p~~~ 26 (163)
|||+||...|.| .|||.+.+
T Consensus 118 ~kRFFPYYv~~ilaGiDeeGK 138 (235)
T KOG0179|consen 118 SKRFFPYYVFNILAGIDEEGK 138 (235)
T ss_pred hcccccceeeeeeecccccCc
Confidence 799999999985 77998654
No 12
>PF12929 Mid1: Stretch-activated Ca2+-permeable channel component; InterPro: IPR024338 Mid1 is a yeast plasma membrane protein required for Ca2+ influx induced by the mating pheromone alpha-factor during the mating process [, , ]. The protein is composed of 548-amino-acid residues, contains four hydrophobic regions (H1, H2, H3 and H4) and two cysteine-rich regions (C1 and C2) at the C terminus. H1 appears to be a signal sequence necessary for the alpha-factor-induced delivery to the plasma membrane. The region from H1 to H3 is required for the localisation of Mid1 in the plasma and ER membranes. C1 and C2 are thought to be involved in oligomerisation via the formation of disulphide bonds. Trafficking of Mid1-GFP to the plasma membrane is dependent on the N-glycosylation of Mid1 and the transporter protein Sec12. This suggests that the trafficking of Mid1-GFP to the plasma membrane requires a Sec12-dependent pathway from the ER to the Golgi, and that Mid1 is recruited via a Sec6- and Sec7-independent pathway from the Golgi to the plasma membrane.
Probab=28.87 E-value=66 Score=28.48 Aligned_cols=29 Identities=28% Similarity=0.454 Sum_probs=24.1
Q ss_pred ecCCCCCCCcceEEEeCCCCCCCeeEEEE
Q psy9258 4 TKTGRRMFPSLQLQVSGLDQAAHYSLLVE 32 (163)
Q Consensus 4 tk~GR~~FP~l~~~v~GL~p~~~Y~i~l~ 32 (163)
|..|---.|.-+|-|+||++...|.-.|-
T Consensus 177 t~Rg~g~~~k~QFyv~GLn~ST~Y~a~L~ 205 (427)
T PF12929_consen 177 TTRGGGNGPKQQFYVTGLNSSTNYTAYLA 205 (427)
T ss_pred EEECCCCCceeeEEecCCCCCCeEEEEEE
Confidence 44454558999999999999999998777
No 13
>COG0634 Hpt Hypoxanthine-guanine phosphoribosyltransferase [Nucleotide transport and metabolism]
Probab=24.00 E-value=42 Score=26.15 Aligned_cols=20 Identities=30% Similarity=0.640 Sum_probs=14.7
Q ss_pred EEEcc-ccEEEEcCCCCChhh
Q psy9258 131 IFAFP-ITEFIAVTAYANQTV 150 (163)
Q Consensus 131 ~f~f~-~T~FIaVT~YqN~~I 150 (163)
.+.|| +.+||+|++|.|...
T Consensus 56 ~i~~~~e~dFm~vSSYg~~t~ 76 (178)
T COG0634 56 AIDFPLEVDFMHVSSYGGGTS 76 (178)
T ss_pred hcCCCceeEEEEEeccCCCcc
Confidence 33344 689999999988643
No 14
>PF04170 NlpE: NlpE N-terminal domain; InterPro: IPR007298 This family represents a bacterial outer membrane lipoprotein that is necessary for signalling by the Cpx pathway []. This pathway responds to cell envelope disturbances and increases the expression of periplasmic protein folding and degradation factors. While the molecular function of the NlpE protein is unknown, it may be involved in detecting bacterial adhesion to abiotic surfaces. NlpE from Escherichia coli and Salmonella typhi is also known to confer copper tolerance in copper-sensitive strains of E. coli, and may be involved in copper efflux and delivery of copper to copper-dependent enzymes [].; PDB: 3LHN_A 2Z4I_B 2Z4H_A.
Probab=23.12 E-value=1.3e+02 Score=20.22 Aligned_cols=41 Identities=17% Similarity=0.413 Sum_probs=27.0
Q ss_pred CCcceEEEeCCCCCCCeeEEEEEEEccCcceEecc--cccccCc
Q psy9258 11 FPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKT--SWEPVGD 52 (163)
Q Consensus 11 FP~l~~~v~GL~p~~~Y~i~l~~~~~d~~ryk~~~--~W~~~~~ 52 (163)
.|.++..++ |+++..|.+.-...-.++..+.+.+ +|...++
T Consensus 10 C~GI~t~L~-L~~D~ty~l~~~Yl~~~~~~~~~~g~g~w~~~~~ 52 (87)
T PF04170_consen 10 CPGIKTTLT-LNADGTYTLTETYLGKEDGPFTEKGSGTWNVDGN 52 (87)
T ss_dssp SSEEEEEEE-E-TTSEEEEEEEEETTTSCCCEEEEEEEEECTSS
T ss_pred CCCeEEEEE-ECCCCcEEEEEEECCCCCCCceEEEEEEEEccCC
Confidence 366777777 8888888877666665555666655 7866443
No 15
>PF07198 DUF1410: Protein of unknown function (DUF1410); InterPro: IPR009849 This entry represents a conserved region approximately 100 residues long, multiple copies of which are sometimes found within hypothetical Ureaplasma parvum proteins of unknown function.
Probab=20.06 E-value=67 Score=20.18 Aligned_cols=21 Identities=29% Similarity=0.619 Sum_probs=15.0
Q ss_pred ecCCCCCCCcceEEEeCCCCCCCeeE
Q psy9258 4 TKTGRRMFPSLQLQVSGLDQAAHYSL 29 (163)
Q Consensus 4 tk~GR~~FP~l~~~v~GL~p~~~Y~i 29 (163)
...|..++ + +++|.++..|.+
T Consensus 33 ~~~~~~~~----~-~~~L~~n~~Y~l 53 (66)
T PF07198_consen 33 DNNGKVIF----F-LSNLPPNHKYKL 53 (66)
T ss_pred CCCCcEEE----e-ccCCCCCCEEEE
Confidence 34455444 5 899999999985
Done!