Query psy9266
Match_columns 157
No_of_seqs 110 out of 424
Neff 6.0
Searched_HMMs 46136
Date Fri Aug 16 23:02:12 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9266.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9266hhsearch_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 3E-54 6.4E-59 343.5 15.2 136 11-156 1-137 (188)
2 smart00425 TBOX Domain first f 100.0 6.4E-53 1.4E-57 336.4 15.3 135 12-156 1-138 (190)
3 KOG3585|consensus 100.0 3E-49 6.5E-54 337.4 14.9 144 3-156 16-161 (328)
4 PF00907 T-box: T-box; InterP 100.0 1.4E-49 3.1E-54 313.9 10.7 134 13-156 1-135 (184)
5 KOG3586|consensus 100.0 3E-49 6.5E-54 338.8 13.4 138 9-156 77-217 (437)
6 PF00041 fn3: Fibronectin type 72.3 7.3 0.00016 25.0 3.8 23 52-74 56-78 (85)
7 PF04775 Bile_Hydr_Trans: Acyl 61.8 14 0.00029 27.5 3.9 29 52-80 5-33 (126)
8 PF09294 Interfer-bind: Interf 50.9 26 0.00057 24.1 3.7 22 52-73 67-88 (106)
9 PF14109 GldH_lipo: GldH lipop 50.4 43 0.00093 25.0 5.0 37 51-89 21-57 (131)
10 TIGR03658 IsdH_HarA haptoglobi 49.9 32 0.00069 32.4 4.9 39 12-51 584-622 (895)
11 smart00060 FN3 Fibronectin typ 49.4 21 0.00046 21.2 2.8 23 51-73 56-78 (83)
12 cd00063 FN3 Fibronectin type 3 45.1 24 0.00053 21.7 2.6 24 50-73 55-78 (93)
13 PF10179 DUF2369: Uncharacteri 34.6 61 0.0013 27.9 4.1 38 52-89 260-297 (300)
14 PF15411 PH_10: Pleckstrin hom 32.1 1E+02 0.0023 22.6 4.5 64 18-81 17-103 (116)
15 COG4118 Phd Antitoxin of toxin 29.9 69 0.0015 22.3 3.0 27 26-64 21-47 (84)
16 cd02859 AMPKbeta_GBD_like AMP- 28.1 86 0.0019 21.0 3.2 24 65-89 37-62 (79)
17 PF12929 Mid1: Stretch-activat 24.0 1.1E+02 0.0023 27.8 3.9 23 48-70 183-205 (427)
18 cd02861 E_set_proteins_like E 22.5 1.1E+02 0.0024 20.3 3.0 22 64-86 37-60 (82)
19 PF07198 DUF1410: Protein of u 20.6 1.5E+02 0.0032 19.0 3.2 26 31-68 29-54 (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=3e-54 Score=343.48 Aligned_cols=136 Identities=38% Similarity=0.745 Sum_probs=132.2
Q ss_pred ccEEEEeChhhhhhhhcCCceeEEEecCccccCCccCCCceeEEEEecCCCCCCeeEEEEEEEccCceeee-CCceeecC
Q psy9266 11 NVEVTLVNADLWQNFHAIGTEMIITKTGRTKISTRGRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKY-KTSWEPVG 89 (157)
Q Consensus 11 ~i~V~L~n~~lW~~F~~~~~EMivtk~GR~~~~~~~r~fP~l~~~v~GLdp~~~Y~v~l~~~~~d~~~yk~-~~~W~~~~ 89 (157)
+|+|+|+|++||++||+++|||||||+|| ||||.|+|+|+||||++.|.|.|+|+++|++||+| +|+|.++|
T Consensus 1 ~i~v~L~~~~lW~~f~~~~tEMIITk~GR-------rmFP~l~~~vsGLdp~~~Y~v~l~~~~~D~~Rykf~~~~W~~~g 73 (188)
T cd00182 1 GIKVSLENRELWKKFHELGTEMIITKSGR-------RMFPTLKVKVSGLDPNALYSVLMDLVPVDDHRYKFSGGKWVVAG 73 (188)
T ss_pred CcEEEEcCHHHHHhhcccCcEEEEecCCc-------ccccceEEEEeCCCcccceEEEEEEEEcCCcEEEecCCcEeEcC
Confidence 58999999999999999999999999999 99999999999999999999999999999999999 99999999
Q ss_pred CCCCCCCCCCCceEEcCCCCCcchhhhcCceeeeEEeeeecccCCCceEEeccCCeeEEEEEEEecC
Q psy9266 90 DAERPIAHPAARLYSHPAGHALGSFWTGQTLHLNKIKLANAFVEGTRFLEVRHLLLIYPQCGQIQSD 156 (157)
Q Consensus 90 ~~~~~~~~~~~~~~~Hp~~~~~G~~Wm~~~v~F~~vkitn~~~~~~~~i~L~s~hkY~PvL~i~~~~ 156 (157)
++|++.+ .++|+|||||++|++||+++|+|+++||||+..++.++|+|+|||||+|+|+|++.|
T Consensus 74 ~~e~~~~---~~~~~HPdsp~tG~~wM~~~isF~kvKlTN~~~~~~~~i~L~SmhKY~Prl~I~~~~ 137 (188)
T cd00182 74 KAEPHLP---PRVYVHPDSPATGAHWMKQPVSFDKLKLTNNTLDNNGHIILNSMHKYQPRLHIVEVD 137 (188)
T ss_pred CCCCCCC---CceEECCCCCcCHHHHhhCccccchhhcccCCCCCCCEEEEeccceEEeEEEEEEcC
Confidence 9998766 899999999999999999999999999999998889999999999999999999875
No 2
>smart00425 TBOX Domain first found in the mice T locus (Brachyury) protein.
Probab=100.00 E-value=6.4e-53 Score=336.38 Aligned_cols=135 Identities=37% Similarity=0.724 Sum_probs=130.7
Q ss_pred cEEEEeChhhhhhhhcCCceeEEEecCccccCCccCCCceeEEEEecCCCCCCeeEEEEEEEccCceeee-CCceeecCC
Q psy9266 12 VEVTLVNADLWQNFHAIGTEMIITKTGRTKISTRGRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKY-KTSWEPVGD 90 (157)
Q Consensus 12 i~V~L~n~~lW~~F~~~~~EMivtk~GR~~~~~~~r~fP~l~~~v~GLdp~~~Y~v~l~~~~~d~~~yk~-~~~W~~~~~ 90 (157)
|+|+|+|++||++||+++|||||||+|| ||||.|+|+|+||||++.|.|.|+|+++|++||+| +|+|.++|+
T Consensus 1 i~v~L~~~~lW~~f~~~~tEMIVTk~GR-------rmFP~l~~~vsGLdp~~~Y~v~l~~~~~d~~rykf~~~~W~~~g~ 73 (190)
T smart00425 1 IKVSLEDKELWRKFHELGTEMIVTKSGR-------RMFPTLKYKVSGLDPNALYSVLMDLVPVDDKRYKFNNGKWVVAGK 73 (190)
T ss_pred CEEEEcCHHHHHhhCccCcEEEEecCCc-------eeCCeeEEEEeCCCccCcEEEEEEEEEccCcEEEecCCcEEEcCC
Confidence 7899999999999999999999999999 99999999999999999999999999999999999 999999999
Q ss_pred CCCCCCCCCCceEEcCCCCCcchhhhcCceeeeEEeeeecccCCCceE--EeccCCeeEEEEEEEecC
Q psy9266 91 AERPIAHPAARLYSHPAGHALGSFWTGQTLHLNKIKLANAFVEGTRFL--EVRHLLLIYPQCGQIQSD 156 (157)
Q Consensus 91 ~~~~~~~~~~~~~~Hp~~~~~G~~Wm~~~v~F~~vkitn~~~~~~~~i--~L~s~hkY~PvL~i~~~~ 156 (157)
+|++.+ .++|+||++|++|++||+++|+|+++||||+..++++.| +|+|||||+|+|+|++.|
T Consensus 74 ~e~~~~---~~~~~Hpdsp~tG~~wM~~~v~F~kvKlTN~~~~~~~~i~i~L~SmhkY~P~l~I~~~~ 138 (190)
T smart00425 74 AEPHMP---SRVYVHPDSPATGAHWMKQPVSFDKVKLTNNQSDKNGHLQIILNSMHKYQPRLHIVEVD 138 (190)
T ss_pred CCCCCC---CceEECCCCccCHHHHhhCcccccccceeccccccCCcEeeeeccCceEeeEEEEEEeC
Confidence 998877 899999999999999999999999999999998888887 999999999999999875
No 3
>KOG3585|consensus
Probab=100.00 E-value=3e-49 Score=337.40 Aligned_cols=144 Identities=35% Similarity=0.673 Sum_probs=137.6
Q ss_pred ccccCCCCccEEEEeChhhhhhhhcCCceeEEEecCccccCCccCCCceeEEEEecCCCCCCeeEEEEEEEccCceeee-
Q psy9266 3 IYADADFSNVEVTLVNADLWQNFHAIGTEMIITKTGRTKISTRGRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKY- 81 (157)
Q Consensus 3 ~~~~~~~~~i~V~L~n~~lW~~F~~~~~EMivtk~GR~~~~~~~r~fP~l~~~v~GLdp~~~Y~v~l~~~~~d~~~yk~- 81 (157)
.+.+....+|+|+|++.+||++||.++|||||||+|| ||||.|+|+|+||||++.|+|.|+|+++|++||+|
T Consensus 16 ~~~~~~~~~~~v~l~~~eLW~~fh~~~~EmiitK~GR-------rmFP~l~~~VsGLdp~s~Y~i~l~~~~~D~~rykf~ 88 (328)
T KOG3585|consen 16 PYDMGSPIQVKVSLENRELWKKFHEHGTEMIVTKRGR-------RMFPALKFKVSGLDPNSLYSILLELVPIDDKRYKFN 88 (328)
T ss_pred ccccCCCcccEEEEechhHHHhhccCccEEEEecCCc-------eeccccceeeccCCcccceEEEEEEEEccCceeeec
Confidence 4566667779999999999999999999999999999 99999999999999999999999999999999999
Q ss_pred CCceeecCCCCCCCCCCCCceEEcCCCCCcchhhhcCceeeeEEeeeecccCCCce-EEeccCCeeEEEEEEEecC
Q psy9266 82 KTSWEPVGDAERPIAHPAARLYSHPAGHALGSFWTGQTLHLNKIKLANAFVEGTRF-LEVRHLLLIYPQCGQIQSD 156 (157)
Q Consensus 82 ~~~W~~~~~~~~~~~~~~~~~~~Hp~~~~~G~~Wm~~~v~F~~vkitn~~~~~~~~-i~L~s~hkY~PvL~i~~~~ 156 (157)
+|+|.++|++++..+ .++++||+|++||++||+++|+|++|||||+..++++. |+|+|||||+|||+|+++|
T Consensus 89 ng~W~p~gk~e~~~~---~~~~~Hpd~p~TG~~WM~~~V~F~kvKITN~~~~~~~~~i~l~SmHKY~P~l~i~~~~ 161 (328)
T KOG3585|consen 89 NGKWVPSGKAEPHVP---SKVYVHPDGPATGAHWMSEPVSFDKVKITNNKSDKKGKVIILNSMHKYQPVLHIVELD 161 (328)
T ss_pred CCeeccCCCCCCCCC---ceEEEecCCccchHHHhcCCcccceeEeeccccccCCceEeeecccceeeeEEEEEcc
Confidence 999999999999766 89999999999999999999999999999999998888 9999999999999999986
No 4
>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=1.4e-49 Score=313.86 Aligned_cols=134 Identities=35% Similarity=0.681 Sum_probs=108.0
Q ss_pred EEEEeChhhhhhhhcCCceeEEEecCccccCCccCCCceeEEEEecCCCCCCeeEEEEEEEccCceeee-CCceeecCCC
Q psy9266 13 EVTLVNADLWQNFHAIGTEMIITKTGRTKISTRGRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKY-KTSWEPVGDA 91 (157)
Q Consensus 13 ~V~L~n~~lW~~F~~~~~EMivtk~GR~~~~~~~r~fP~l~~~v~GLdp~~~Y~v~l~~~~~d~~~yk~-~~~W~~~~~~ 91 (157)
+|+|+|+++|++||+++||||||++|| +|||.|.|+|+||||++.|+|+|+|+++|+++|+| +|+|.+++++
T Consensus 1 ~V~L~~~~lW~~f~~~~~EMivt~~GR-------~~FP~l~y~vsGL~p~~~Y~i~l~~~~~d~~~~k~~~~~W~~~~~~ 73 (184)
T PF00907_consen 1 QVSLENEELWKKFHELGNEMIVTKNGR-------RMFPTLEYSVSGLDPDSLYSISLHFERVDNKRYKFSNGKWVPSGKA 73 (184)
T ss_dssp EEEETTHHHHHHHHHH--EEE-BTT-E-------E-SS-EEEEEESS-TTSEEEEEEEEEESCSEEEEEETTEEEEEEE-
T ss_pred CeECccHHHHHHhccCCCEEEEeeccc-------ccccccEEEecCCCCCcceEEEEEEEEecCceeecccccccccccc
Confidence 699999999999999999999999999 99999999999999999999999999999999999 9999999998
Q ss_pred CCCCCCCCCceEEcCCCCCcchhhhcCceeeeEEeeeecccCCCceEEeccCCeeEEEEEEEecC
Q psy9266 92 ERPIAHPAARLYSHPAGHALGSFWTGQTLHLNKIKLANAFVEGTRFLEVRHLLLIYPQCGQIQSD 156 (157)
Q Consensus 92 ~~~~~~~~~~~~~Hp~~~~~G~~Wm~~~v~F~~vkitn~~~~~~~~i~L~s~hkY~PvL~i~~~~ 156 (157)
++..+ .+.+.||+|+++|++||+++|+|+++||||+..++++.|+|+|+|||+|||+||+.+
T Consensus 74 ~~~~~---~~~~~h~~~~~~G~~WM~~~v~F~~vkitn~~~~~~~~I~L~s~hkY~Pvl~I~~~~ 135 (184)
T PF00907_consen 74 EPPMP---PRVVIHPDGPQTGSEWMKNGVSFDKVKITNNKEDKKGNIFLNSMHKYQPVLHIYEVN 135 (184)
T ss_dssp --B--------EE-TT-SEEHHHHHHS-EEETT-EEESSTT-TST-EE--TTEEEEEEEEEEECT
T ss_pred ccccc---ceEEEEecCcCCHHHhCcccEEeehhhhhCCCCCcccceEEccccEEEEEEEEEEcC
Confidence 87666 789999999999999999999999999999998777889999999999999999875
No 5
>KOG3586|consensus
Probab=100.00 E-value=3e-49 Score=338.77 Aligned_cols=138 Identities=34% Similarity=0.675 Sum_probs=135.1
Q ss_pred CCccEEEEeChhhhhhhhcCCceeEEEecCccccCCccCCCceeEEEEecCCCCCCeeEEEEEEEccCceeee---CCce
Q psy9266 9 FSNVEVTLVNADLWQNFHAIGTEMIITKTGRTKISTRGRMFPSLQLQVSGLDQAAHYSLLVEFHLASPHKYKY---KTSW 85 (157)
Q Consensus 9 ~~~i~V~L~n~~lW~~F~~~~~EMivtk~GR~~~~~~~r~fP~l~~~v~GLdp~~~Y~v~l~~~~~d~~~yk~---~~~W 85 (157)
...|+|.|+.++||++||++||||||||+|| ||||.++.+|+||||.+.|.|.++|+++|++|||| +..|
T Consensus 77 ~a~i~~~Le~keLWdrFh~lGTEMIITKsGR-------RMFPTvrV~~~GldP~a~Y~vlmDvVPvD~KRYRYayH~S~W 149 (437)
T KOG3586|consen 77 LAPIQVQLETKELWDRFHDLGTEMIITKSGR-------RMFPTVRVKFSGLDPMADYYVLMDVVPVDSKRYRYAYHSSSW 149 (437)
T ss_pred ccceEEEeehHHHHHHHHhcCceEEEecccc-------cccceEEEEEecCCcccceEEEEeEEecccceeeeeecccce
Confidence 6689999999999999999999999999999 99999999999999999999999999999999998 8899
Q ss_pred eecCCCCCCCCCCCCceEEcCCCCCcchhhhcCceeeeEEeeeecccCCCceEEeccCCeeEEEEEEEecC
Q psy9266 86 EPVGDAERPIAHPAARLYSHPAGHALGSFWTGQTLHLNKIKLANAFVEGTRFLEVRHLLLIYPQCGQIQSD 156 (157)
Q Consensus 86 ~~~~~~~~~~~~~~~~~~~Hp~~~~~G~~Wm~~~v~F~~vkitn~~~~~~~~i~L~s~hkY~PvL~i~~~~ 156 (157)
..+|++|+..| +|+|+|||+|.+|+.||++.|+|+|+|||||+.+++|+|+|+|||||+|+++|++.|
T Consensus 150 lvAGkADp~~p---~R~yvHPDSP~sGe~wmkqiVSFdK~KLTNNelD~nGHIILNSMHkYQPRvHvV~~~ 217 (437)
T KOG3586|consen 150 LVAGKADPAPP---PRVYVHPDSPASGEQWMKQIVSFDKLKLTNNELDDNGHIILNSMHKYQPRVHVVYLD 217 (437)
T ss_pred eeecCCCCCCC---CceeeCCCCCCCHHHHHHhhhchheeeccccccccCCcEeeecccccCCceEEEEec
Confidence 99999999988 899999999999999999999999999999999999999999999999999999987
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=72.30 E-value=7.3 Score=24.95 Aligned_cols=23 Identities=17% Similarity=0.306 Sum_probs=19.9
Q ss_pred eEEEEecCCCCCCeeEEEEEEEc
Q psy9266 52 LQLQVSGLDQAAHYSLLVEFHLA 74 (157)
Q Consensus 52 l~~~v~GLdp~~~Y~v~l~~~~~ 74 (157)
..+.+.||.|...|.+.|.....
T Consensus 56 ~~~~i~~L~p~t~Y~~~v~a~~~ 78 (85)
T PF00041_consen 56 TSYTITGLQPGTTYEFRVRAVNS 78 (85)
T ss_dssp SEEEEESCCTTSEEEEEEEEEET
T ss_pred eeeeeccCCCCCEEEEEEEEEeC
Confidence 38999999999999999986553
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=61.75 E-value=14 Score=27.47 Aligned_cols=29 Identities=17% Similarity=0.318 Sum_probs=18.8
Q ss_pred eEEEEecCCCCCCeeEEEEEEEccCceee
Q psy9266 52 LQLQVSGLDQAAHYSLLVEFHLASPHKYK 80 (157)
Q Consensus 52 l~~~v~GLdp~~~Y~v~l~~~~~d~~~yk 80 (157)
+..+|+||.|.+.|.+.+.+.--....|+
T Consensus 5 ~~I~v~GL~p~~~vtl~a~~~~~~g~~w~ 33 (126)
T PF04775_consen 5 VDIRVSGLPPGQEVTLRARLTDDNGVQWQ 33 (126)
T ss_dssp -EEEEES--TT-EEEEEEEEE-TTS-EEE
T ss_pred eEEEEeCCCCCCEEEEEEEEEeCCCCEEE
Confidence 68899999999999999998854444555
No 8
>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=50.90 E-value=26 Score=24.05 Aligned_cols=22 Identities=18% Similarity=0.286 Sum_probs=16.9
Q ss_pred eEEEEecCCCCCCeeEEEEEEE
Q psy9266 52 LQLQVSGLDQAAHYSLLVEFHL 73 (157)
Q Consensus 52 l~~~v~GLdp~~~Y~v~l~~~~ 73 (157)
-.+.+.+|+|...|.+.+....
T Consensus 67 ~~~~l~~L~p~t~YCv~V~~~~ 88 (106)
T PF09294_consen 67 SSVTLSDLKPGTNYCVSVQAFS 88 (106)
T ss_dssp EEEEEES--TTSEEEEEEEEEE
T ss_pred CEEEEeCCCCCCCEEEEEEEEe
Confidence 3568999999999999999844
No 9
>PF14109 GldH_lipo: GldH lipoprotein
Probab=50.42 E-value=43 Score=24.98 Aligned_cols=37 Identities=19% Similarity=0.339 Sum_probs=29.4
Q ss_pred eeEEEEecCCCCCCeeEEEEEEEccCceeeeCCceeecC
Q psy9266 51 SLQLQVSGLDQAAHYSLLVEFHLASPHKYKYKTSWEPVG 89 (157)
Q Consensus 51 ~l~~~v~GLdp~~~Y~v~l~~~~~d~~~yk~~~~W~~~~ 89 (157)
.+.|.|.=.|....|.+.|.+.-.+++.| .+=|....
T Consensus 21 ~~~F~~~~~dt~~~Y~l~l~lR~~~~Ypy--~NL~l~v~ 57 (131)
T PF14109_consen 21 TLSFDFPIQDTTGPYNLYLNLRNNNDYPY--SNLWLIVE 57 (131)
T ss_pred cEEEEccccccCCeeEEEEEEEcCCCCCc--CCEEEEEE
Confidence 48899999999999999999988666555 66666543
No 10
>TIGR03658 IsdH_HarA haptoglobin-binding heme uptake protein HarA. HarA is a heme-binding NEAT-domain (NEAr Transporter, pfam05031) protein which has been shown to bind to the haptoglobin-hemoglobin complex in order to extract heme from it. HarA has also been reported to bind hemoglobin directly. HarA (also known as IsdH) contains three NEAT domains as well as a sortase A C-terminal signal for localization to the cell wall. The heme bound at the third of these NEAT domains has been shown to be transferred to the IsdA protein also localized at the cell wall, presumably through an additional specific protein-protein interaction. Haptoglobin is a hemoglobin carrier protein involved in scavenging hemoglobin in the blood following red blood cell lysis and targetting it to the liver.
Probab=49.88 E-value=32 Score=32.43 Aligned_cols=39 Identities=18% Similarity=0.386 Sum_probs=31.2
Q ss_pred cEEEEeChhhhhhhhcCCceeEEEecCccccCCccCCCce
Q psy9266 12 VEVTLVNADLWQNFHAIGTEMIITKTGRTKISTRGRMFPS 51 (157)
Q Consensus 12 i~V~L~n~~lW~~F~~~~~EMivtk~GR~~~~~~~r~fP~ 51 (157)
+.|+|.|++-|+.|.-.|.+-.+-+.- ++--+|+.+||.
T Consensus 584 vvmTtkNDsyWKdFqVEGkRvtTIsKD-kknDTRTI~FPY 622 (895)
T TIGR03658 584 VVMKTKDDSYWKDLIVEGKRVTTVSKD-PKNNSRTLIFPY 622 (895)
T ss_pred EEEEecchhhhhhheecceEEEEeccc-cccCceEEEEEe
Confidence 678999999999998888887644443 367888899995
No 11
>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=49.43 E-value=21 Score=21.18 Aligned_cols=23 Identities=22% Similarity=0.307 Sum_probs=19.6
Q ss_pred eeEEEEecCCCCCCeeEEEEEEE
Q psy9266 51 SLQLQVSGLDQAAHYSLLVEFHL 73 (157)
Q Consensus 51 ~l~~~v~GLdp~~~Y~v~l~~~~ 73 (157)
...|.+.||.|...|.+.|....
T Consensus 56 ~~~~~i~~L~~~~~Y~v~v~a~~ 78 (83)
T smart00060 56 STSYTLTGLKPGTEYEFRVRAVN 78 (83)
T ss_pred ccEEEEeCcCCCCEEEEEEEEEc
Confidence 46899999999999999987554
No 12
>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=45.10 E-value=24 Score=21.68 Aligned_cols=24 Identities=17% Similarity=0.272 Sum_probs=19.7
Q ss_pred ceeEEEEecCCCCCCeeEEEEEEE
Q psy9266 50 PSLQLQVSGLDQAAHYSLLVEFHL 73 (157)
Q Consensus 50 P~l~~~v~GLdp~~~Y~v~l~~~~ 73 (157)
....+.+.||.|...|.+.|....
T Consensus 55 ~~~~~~i~~l~p~~~Y~~~v~a~~ 78 (93)
T cd00063 55 SETSYTLTGLKPGTEYEFRVRAVN 78 (93)
T ss_pred cccEEEEccccCCCEEEEEEEEEC
Confidence 346899999999999999887443
No 13
>PF10179 DUF2369: Uncharacterised conserved protein (DUF2369); InterPro: IPR019326 This is a proline-rich region of a group of proteins found from plants to fungi. The function is largely unknown, although the entry contains Fibronectin type-III domain-containing protein C4orf31, which promotes matrix assembly and cell adhesiveness.
Probab=34.61 E-value=61 Score=27.93 Aligned_cols=38 Identities=18% Similarity=0.322 Sum_probs=31.8
Q ss_pred eEEEEecCCCCCCeeEEEEEEEccCceeeeCCceeecC
Q psy9266 52 LQLQVSGLDQAAHYSLLVEFHLASPHKYKYKTSWEPVG 89 (157)
Q Consensus 52 l~~~v~GLdp~~~Y~v~l~~~~~d~~~yk~~~~W~~~~ 89 (157)
+..+|.||+|...|.+-+-+.+-.....+|...|+...
T Consensus 260 ~tetI~~L~PG~~Yl~dV~~~~~~G~sl~Y~s~~VkTr 297 (300)
T PF10179_consen 260 TTETIKGLKPGTTYLFDVYVNGPSGQSLPYRSKWVKTR 297 (300)
T ss_pred ceeecccCCCCcEEEEEEEEecCCCceeecceEEEEec
Confidence 56789999999999999999888888888877777643
No 14
>PF15411 PH_10: Pleckstrin homology domain
Probab=32.12 E-value=1e+02 Score=22.58 Aligned_cols=64 Identities=17% Similarity=0.316 Sum_probs=41.0
Q ss_pred ChhhhhhhhcC-CceeEEEec-------------------CccccCCccCCCceeEEEEecCCCCCCeeEEEEE---EEc
Q psy9266 18 NADLWQNFHAI-GTEMIITKT-------------------GRTKISTRGRMFPSLQLQVSGLDQAAHYSLLVEF---HLA 74 (157)
Q Consensus 18 n~~lW~~F~~~-~~EMivtk~-------------------GR~~~~~~~r~fP~l~~~v~GLdp~~~Y~v~l~~---~~~ 74 (157)
..+.|++|+-- .-||||.-+ +++.-.-+||+|=.-...|........|.+.|.. .-.
T Consensus 17 k~~~erE~~vYLFe~illc~kE~~~~~~~~~~~~~~~~~~~~~~L~LKGrI~i~~i~~v~~~s~~g~~~L~i~w~~d~e~ 96 (116)
T PF15411_consen 17 KDDSEREYEVYLFEKILLCCKEVKPKKKKSKQISSKKKKKKKTKLQLKGRIYISNITEVSSSSKPGSYSLQISWKGDPEL 96 (116)
T ss_pred eCCcceeeeeeeeeeeEEEEecCccCccchhhcccccccCCCceEEEeeEEEEEeeeeeeccCCCCceEEEEEEcCCCCC
Confidence 44778888764 577777532 1122223456666656677788877889999987 345
Q ss_pred cCceeee
Q psy9266 75 SPHKYKY 81 (157)
Q Consensus 75 d~~~yk~ 81 (157)
+++..+|
T Consensus 97 ~~F~lrf 103 (116)
T PF15411_consen 97 ENFTLRF 103 (116)
T ss_pred ceEEEEe
Confidence 5666667
No 15
>COG4118 Phd Antitoxin of toxin-antitoxin stability system [Cell division and chromosome partitioning]
Probab=29.85 E-value=69 Score=22.35 Aligned_cols=27 Identities=33% Similarity=0.396 Sum_probs=21.2
Q ss_pred hcCCceeEEEecCccccCCccCCCceeEEEEecCCCCCC
Q psy9266 26 HAIGTEMIITKTGRTKISTRGRMFPSLQLQVSGLDQAAH 64 (157)
Q Consensus 26 ~~~~~EMivtk~GR~~~~~~~r~fP~l~~~v~GLdp~~~ 64 (157)
-+.|.|-+||+.|| +..++..+.+...
T Consensus 21 V~aGEev~IT~~G~------------PVArivp~~~~~~ 47 (84)
T COG4118 21 VRAGEEVIITKRGR------------PVARLVPLAPRNR 47 (84)
T ss_pred HhCCCEEEEeeCCe------------EEEEEeecCcccc
Confidence 34599999999999 5778888887433
No 16
>cd02859 AMPKbeta_GBD_like AMP-activated protein kinase (AMPK) beta subunit glycogen binding domain (GBD). AMPK is a metabolic stress sensing protein that senses AMP/ATP and has recently been found to act as a glycogen sensor as well. The protein functions as a alpha-beta-gamma heterotrimer. This domain is the glycogen binding domain of the beta subunit.
Probab=28.06 E-value=86 Score=20.98 Aligned_cols=24 Identities=17% Similarity=0.436 Sum_probs=17.0
Q ss_pred eeEEEEEEEccCceeee--CCceeecC
Q psy9266 65 YSLLVEFHLASPHKYKY--KTSWEPVG 89 (157)
Q Consensus 65 Y~v~l~~~~~d~~~yk~--~~~W~~~~ 89 (157)
|.+.+.+.+ ..+.||| +|.|....
T Consensus 37 ~~~~~~L~~-g~y~YkF~Vdg~w~~d~ 62 (79)
T cd02859 37 FSATLRLPP-GKYQYKFIVDGEWRHSP 62 (79)
T ss_pred cEEEEEcCC-CCEEEEEEECCEEEeCC
Confidence 556665544 4788998 99998754
No 17
>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=24.01 E-value=1.1e+02 Score=27.79 Aligned_cols=23 Identities=26% Similarity=0.470 Sum_probs=20.9
Q ss_pred CCceeEEEEecCCCCCCeeEEEE
Q psy9266 48 MFPSLQLQVSGLDQAAHYSLLVE 70 (157)
Q Consensus 48 ~fP~l~~~v~GLdp~~~Y~v~l~ 70 (157)
-.|.-+|-|+||++...|.-.|-
T Consensus 183 ~~~k~QFyv~GLn~ST~Y~a~L~ 205 (427)
T PF12929_consen 183 NGPKQQFYVTGLNSSTNYTAYLA 205 (427)
T ss_pred CCceeeEEecCCCCCCeEEEEEE
Confidence 37999999999999999998776
No 18
>cd02861 E_set_proteins_like E or "early" set-like proteins. These alpha amylase-like sugar utilizing enzymes which may be related to the immunoglobulin and/or fibronectin type III superfamilies are associated with different types of catalytic domains at either the N-terminal or C-terminal end. Members of this family include members of the alpha amylase family, sialidase, galactose oxidase, cellulase, cellulose, hyaluronate lyase, chitobiase, and chitinase.
Probab=22.54 E-value=1.1e+02 Score=20.31 Aligned_cols=22 Identities=23% Similarity=0.539 Sum_probs=14.1
Q ss_pred CeeEEEEEEEccCceeee--CCcee
Q psy9266 64 HYSLLVEFHLASPHKYKY--KTSWE 86 (157)
Q Consensus 64 ~Y~v~l~~~~~d~~~yk~--~~~W~ 86 (157)
.|.+.+.+.+ ..+.||| +|.|.
T Consensus 37 ~w~~~~~l~~-G~y~Ykf~vdg~~~ 60 (82)
T cd02861 37 LWVVTVELRP-GRYEYKFVVDGEWV 60 (82)
T ss_pred cEEEEEeCCC-CcEEEEEEECCEEe
Confidence 4555555433 3467888 88887
No 19
>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=20.59 E-value=1.5e+02 Score=18.99 Aligned_cols=26 Identities=23% Similarity=0.489 Sum_probs=18.9
Q ss_pred eeEEEecCccccCCccCCCceeEEEEecCCCCCCeeEE
Q psy9266 31 EMIITKTGRTKISTRGRMFPSLQLQVSGLDQAAHYSLL 68 (157)
Q Consensus 31 EMivtk~GR~~~~~~~r~fP~l~~~v~GLdp~~~Y~v~ 68 (157)
+-.+...|. .++ + .++|.++..|.+.
T Consensus 29 ~~~~~~~~~-------~~~----~-~~~L~~n~~Y~l~ 54 (66)
T PF07198_consen 29 NAKVDNNGK-------VIF----F-LSNLPPNHKYKLK 54 (66)
T ss_pred EEEECCCCc-------EEE----e-ccCCCCCCEEEEE
Confidence 445566777 333 6 8999999999853
Done!