Query psy3643
Match_columns 153
No_of_seqs 108 out of 261
Neff 6.2
Searched_HMMs 46136
Date Fri Aug 16 21:56:57 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy3643.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/3643hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 cd00117 LU Ly-6 antigen / uPA 97.7 0.00017 3.7E-09 48.6 6.2 75 43-144 1-79 (79)
2 PF00021 UPAR_LY6: u-PAR/Ly-6 97.4 0.00075 1.6E-08 43.4 6.8 47 45-109 1-51 (77)
3 smart00134 LU Ly-6 antigen / u 97.3 0.0015 3.2E-08 44.1 7.4 46 43-106 1-49 (79)
4 PF01064 Activin_recp: Activin 96.7 0.005 1.1E-07 41.6 5.3 77 43-145 1-79 (83)
5 PF05444 DUF753: Protein of un 96.4 0.0057 1.2E-07 46.5 4.7 76 46-145 1-77 (152)
6 PF05444 DUF753: Protein of un 95.5 0.048 1E-06 41.4 6.1 68 12-108 64-132 (152)
7 cd00206 snake_toxin Snake toxi 95.4 0.04 8.8E-07 36.1 4.7 23 85-107 22-45 (64)
8 PF06579 Ly-6_related: Caenorh 94.6 0.067 1.5E-06 40.2 4.6 59 85-144 45-129 (129)
9 PF00087 Toxin_1: Snake toxin; 93.6 0.17 3.6E-06 33.1 4.4 42 85-142 21-63 (63)
10 PF02988 PLA2_inh: Phospholipa 69.2 35 0.00077 23.7 7.6 73 44-143 2-83 (83)
11 KOG3653|consensus 35.7 1.2E+02 0.0027 27.8 6.3 64 86-151 68-135 (534)
12 PF01684 ET: ET module; Inter 28.6 1.4E+02 0.003 20.5 4.4 57 86-145 23-81 (82)
13 PF08917 ecTbetaR2: Transformi 23.0 3.2E+02 0.007 20.2 7.3 59 84-143 35-99 (118)
14 PF09416 UPF1_Zn_bind: RNA hel 21.4 7.8 0.00017 29.9 -3.3 37 14-51 19-69 (152)
No 1
>cd00117 LU Ly-6 antigen / uPA receptor -like domain; occurs singly in GPI-linked cell-surface glycoproteins (Ly-6 family,CD59, thymocyte B cell antigen, Sgp-2) or as three-fold repeated domain in urokinase-type plasminogen activator receptor. Topology of these domains is similar to that of snake venom neurotoxins.
Probab=97.67 E-value=0.00017 Score=48.62 Aligned_cols=75 Identities=23% Similarity=0.386 Sum_probs=45.0
Q ss_pred eeEEecCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCceEEEEEEEC----CeEEEEEccccCCCCCCcCcccc
Q psy3643 43 IKCWNCRSDSDPKCADPFDNSSIPINDCKVEPELSHLPGIRATMCRKIRQKVH----GEWRYYRGCAWLGEPGIGGDERY 118 (153)
Q Consensus 43 I~CY~CnS~~dp~C~d~f~~~~~~~~dC~~~~~~~~~~g~~~t~C~Kivq~v~----g~~~viR~C~~~~~~~~~~~~~~ 118 (153)
|+||+|.+..+..|..+ +.|+. ...+|.|++..+. ....++|+|+..=.. .....
T Consensus 1 L~C~~C~~~~~~~C~~~--------~~C~~----------~~~~C~~~~~~~~~~~~~~~~~~rgC~~~C~~--~~~~~- 59 (79)
T cd00117 1 LECYSCTGVSTSSCSTE--------TNCPS----------PDDQCLTAVATVIEESVRLSLVVRGCASDCPF--TNVFG- 59 (79)
T ss_pred CccCcCCCCCCCCCCCC--------CccCC----------CCCEeeEEEEEEEeeccccceEECcccCCCCC--CCccC-
Confidence 68999988666678532 26875 2367999888753 235688999873110 00000
Q ss_pred ceecccccceEEEEeEecCCCCCCCC
Q psy3643 119 CLMRTGTYNVFMEYCTCMSKDGCNTA 144 (153)
Q Consensus 119 C~~~~g~~~~~~~~C~C~~~D~CN~A 144 (153)
.+ ....+.+ .||++|+||++
T Consensus 60 ----~~-~~~~~~~-~CC~tD~CN~~ 79 (79)
T cd00117 60 ----QL-SITFLKV-SCCQEDLCNAA 79 (79)
T ss_pred ----cc-ccceEee-eeCCCCccCCC
Confidence 00 1111112 77799999986
No 2
>PF00021 UPAR_LY6: u-PAR/Ly-6 domain omitted due to poor similarity.; InterPro: IPR001526 CD59 (also called 1F-5Ag, H19, HRF20, MACIF, MIRL, P-18 or protectin) inhibits formation of membrane attack complex (MAC), thus protecting cells from complement mediated lysis. It has a signalling role, as a GPI-anchored molecule, in T cell activation and appears to have some role in cell adhesion through CD2 (controversial). CD59 associates with C9, inhibiting incorporation into C5b-8 preventing terminal steps in polymerisation of the (MAC) in plasma membranes. Genetic defects in GPI-anchor attachment that cause a reduction or loss of both CD59 and CD55 on erythrocytes produce the symptoms of the disease paroxysmal nocturnal haemoglobinuria (PNH). A variety of GPI-linked cell-surface glycoproteins are composed of one or more copies of a conserved domain of about 100 amino-acid residues [], []. Among these proteins, U-PAR contains three tandem copies of the domain, while all the others are made up of a single domain. As shown in the following schematic, this conserved domain contains 10 cysteine residues involved in five disulphide bonds - in U-PAR, the first copy of the domain lacks the fourth disulphide bond. +------+ +------------------------+ +---+ | | | | | | xCxxCxxxxxxCxxxxxCxxxxxCxxxxxxxxxxxxxxxxxxCxxxxCxxxxxxxxxxxxxxCCxxxCxxxxxxxx | | | | +---------------------+ +--------------+ 'C': conserved cysteine involved in a disulphide bond. CD molecules are leucocyte antigens on cell surfaces. CD antigens nomenclature is updated at Protein Reviews On The Web (http://prow.nci.nih.gov/).; PDB: 2I9B_H 1YWH_E 3BT2_U 2FD6_U 3U74_U 3BT1_U 3U73_U 2L03_A 3LAQ_V 2J8B_A ....
Probab=97.44 E-value=0.00075 Score=43.40 Aligned_cols=47 Identities=26% Similarity=0.533 Sum_probs=35.3
Q ss_pred EEecCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCceEEEEEEEC--C--eEEEEEccccCCC
Q psy3643 45 CWNCRSDSDPKCADPFDNSSIPINDCKVEPELSHLPGIRATMCRKIRQKVH--G--EWRYYRGCAWLGE 109 (153)
Q Consensus 45 CY~CnS~~dp~C~d~f~~~~~~~~dC~~~~~~~~~~g~~~t~C~Kivq~v~--g--~~~viR~C~~~~~ 109 (153)
||+|.+..+..|... +.|+. ....|..++..+. + ...++|+|+....
T Consensus 1 C~~C~~~~~~~C~~~--------~~C~~----------~~~~C~~~~~~~~~g~~~~~~~~kgC~~~~~ 51 (77)
T PF00021_consen 1 CYSCYSPSSSSCSGE--------VTCPG----------SEDVCYTATVTVTSGGNSVTLVSKGCATQSS 51 (77)
T ss_dssp EEEEECSTTTTSCTE--------EEECT----------TTSEEEEEEEEEETTTCCEEEEEEEEEETTC
T ss_pred CCcccCCCCCCCCCC--------CCcCC----------CCCeeEEEEEEeeecccCceEEEeeccccCC
Confidence 899999877889642 68886 2467999988753 2 5677999997543
No 3
>smart00134 LU Ly-6 antigen / uPA receptor -like domain. Three-fold repeated domain in urokinase-type plasminogen activator receptor; occurs singly in other GPI-linked cell-surface glycoproteins (Ly-6 family, CD59, thymocyte B cell antigen, Sgp-2). Topology of these domains is similar to that of snake venom neurotoxins.
Probab=97.33 E-value=0.0015 Score=44.10 Aligned_cols=46 Identities=24% Similarity=0.740 Sum_probs=32.2
Q ss_pred eeEEecCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCceEEEEEEE--CC-eEEEEEcccc
Q psy3643 43 IKCWNCRSDSDPKCADPFDNSSIPINDCKVEPELSHLPGIRATMCRKIRQKV--HG-EWRYYRGCAW 106 (153)
Q Consensus 43 I~CY~CnS~~dp~C~d~f~~~~~~~~dC~~~~~~~~~~g~~~t~C~Kivq~v--~g-~~~viR~C~~ 106 (153)
|+||.|.+..+..|.. .+.|+. ...+|.|++.++ .+ ..+|+|+|+.
T Consensus 1 L~C~~C~~~~~~~C~~--------~~~C~~----------~~~~C~~~~~~~~~~~~~~~~~rgC~~ 49 (79)
T smart00134 1 LQCYSCTGNPDSSCSS--------EEECRS----------PDDVCLTVVAEVISGSVGSVVYKGCAT 49 (79)
T ss_pred CcceecCCcCCCCCCC--------cceeCC----------CCCEeEEEEEEEEecCCCceEEcCccC
Confidence 6899998765667743 234886 246899987753 22 5678999994
No 4
>PF01064 Activin_recp: Activin types I and II receptor domain; InterPro: IPR000472 Transforming growth factor-beta (TGF-beta) forms a family with other growth factors described in PDOC00223 from PROSITEDOC. The receptors for most of the members of this growth factor family are related. These proteins are receptor-type kinases of Ser/Thr type PDOC00100 from PROSITEDOC), which have a single transmembrane domain and a specific hydrophilic Cys-rich ligand-binding domain [, , ]. The C-terminal part of the extracellular domain is conserved. Some of the receptors of this family contain subclass-specific N-terminal extensions of this homology domain. The type I receptors also possess 7 extracellular residues preceding the cysteine box.; GO: 0004675 transmembrane receptor protein serine/threonine kinase activity, 0005024 transforming growth factor beta-activated receptor activity, 0016020 membrane; PDB: 3EVS_C 1BTE_A 1LX5_B 2GOO_C 2HLR_A 4FAO_W 2H64_C 2H62_D 1S4Y_C 1NYU_C ....
Probab=96.68 E-value=0.005 Score=41.60 Aligned_cols=77 Identities=25% Similarity=0.501 Sum_probs=50.9
Q ss_pred eeEEecCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCceEEEEEEECC--eEEEEEccccCCCCCCcCccccce
Q psy3643 43 IKCWNCRSDSDPKCADPFDNSSIPINDCKVEPELSHLPGIRATMCRKIRQKVHG--EWRYYRGCAWLGEPGIGGDERYCL 120 (153)
Q Consensus 43 I~CY~CnS~~dp~C~d~f~~~~~~~~dC~~~~~~~~~~g~~~t~C~Kivq~v~g--~~~viR~C~~~~~~~~~~~~~~C~ 120 (153)
|+|| |+... |.+. ...|.. ..+|.+.++...+ ...+.|+|.-......... ..|.
T Consensus 1 l~C~-C~~~~---C~~~-------n~~C~t-----------~~~Cf~~~~~~~~~~~~~~~~GC~~~~~~~~~~~-~~C~ 57 (83)
T PF01064_consen 1 LKCY-CDSDD---CNET-------NQTCET-----------GGFCFTSWEQDNGGGVEIVKKGCWSNEEDCPLCR-NQCR 57 (83)
T ss_dssp EEEE-EETTC---HCTT-------TEEEEE-----------SCEEEEEEEEETTESEEEEEEEEEESTGGGTTTS-SSEE
T ss_pred CEeE-eCccc---CCCC-------CCEeCC-----------CCEEEEEEEEeeccceeEEEcCccCCccCcceec-ceee
Confidence 6899 98764 7532 134663 2589999998876 5677899987654211111 5688
Q ss_pred ecccccceEEEEeEecCCCCCCCCC
Q psy3643 121 MRTGTYNVFMEYCTCMSKDGCNTAS 145 (153)
Q Consensus 121 ~~~g~~~~~~~~C~C~~~D~CN~A~ 145 (153)
..+.. ....+|-| ++|.||+..
T Consensus 58 ~~~~~--~~~~~CC~-~~D~CN~~~ 79 (83)
T PF01064_consen 58 SSSSP--SSVVFCCC-SGDFCNSNL 79 (83)
T ss_dssp ECSSS--TCEEEEEE-SSTTGGGSE
T ss_pred ccCCC--CCeEEECC-CCCccCCCC
Confidence 74322 34688977 899999865
No 5
>PF05444 DUF753: Protein of unknown function (DUF753); InterPro: IPR008472 This entry contains sequences which are repeated in several uncharacterised proteins from Drosophila melanogaster.
Probab=96.42 E-value=0.0057 Score=46.48 Aligned_cols=76 Identities=32% Similarity=0.642 Sum_probs=46.1
Q ss_pred EecCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCceEEEEEEECCeEEEEEccccCCCCCCcCccccceecccc
Q psy3643 46 WNCRSDSDPKCADPFDNSSIPINDCKVEPELSHLPGIRATMCRKIRQKVHGEWRYYRGCAWLGEPGIGGDERYCLMRTGT 125 (153)
Q Consensus 46 Y~CnS~~dp~C~d~f~~~~~~~~dC~~~~~~~~~~g~~~t~C~Kivq~v~g~~~viR~C~~~~~~~~~~~~~~C~~~~g~ 125 (153)
|+|+|..++.|.++ .......+.|... ...|+.++. +...++|+|..... ......|.....
T Consensus 1 ~~C~s~~~~~C~~~-~~~~~~~~~C~~~----------~~~C~t~~~---~~~~~~RGC~~~~~---~~~~~~C~~~~~- 62 (152)
T PF05444_consen 1 YSCDSCEDPNCTDP-DPSTSATEECPQQ----------DDQCYTRFD---DDGTTIRGCLSDLP---AEEQSSCSAGND- 62 (152)
T ss_pred CCccCCcCCCCCCC-CCCceecccCCCC----------CCCCEEEEe---CCCceEcCchhhcc---hhhcccccCCCC-
Confidence 78999999999322 2333446788863 233876653 33349999987643 112345643322
Q ss_pred cceEEEEe-EecCCCCCCCCC
Q psy3643 126 YNVFMEYC-TCMSKDGCNTAS 145 (153)
Q Consensus 126 ~~~~~~~C-~C~~~D~CN~A~ 145 (153)
..| .| .+++||.+.
T Consensus 63 -----~~C~~C-~~~~CN~~~ 77 (152)
T PF05444_consen 63 -----ANCVTC-SGDGCNNAV 77 (152)
T ss_pred -----CcccCc-CCCCCCCcc
Confidence 256 67 888888854
No 6
>PF05444 DUF753: Protein of unknown function (DUF753); InterPro: IPR008472 This entry contains sequences which are repeated in several uncharacterised proteins from Drosophila melanogaster.
Probab=95.48 E-value=0.048 Score=41.38 Aligned_cols=68 Identities=29% Similarity=0.592 Sum_probs=46.7
Q ss_pred EE-eecCCCCccCCCCCCccceeeeeeCccceeeEEecCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCceEEE
Q psy3643 12 YC-TCMSKDGCNTASLPNMSPIFTVVISAVSCIKCWNCRSDSDPKCADPFDNSSIPINDCKVEPELSHLPGIRATMCRKI 90 (153)
Q Consensus 12 ~~-~~~~~~~cn~a~~~~~~~l~~l~i~~~~aI~CY~CnS~~dp~C~d~f~~~~~~~~dC~~~~~~~~~~g~~~t~C~Ki 90 (153)
.| +| +.++||.+.+| ...++||+|. .+..|. .......+.|... .....|.-.
T Consensus 64 ~C~~C-~~~~CN~~~~p------------~~~~~C~qC~--~~~~C~---~~~~~~~~~C~~~--------~~~d~Cyt~ 117 (152)
T PF05444_consen 64 NCVTC-SGDGCNNAVFP------------ADRLSCYQCT--DDSDCV---SSDSSTAKPCPNY--------SEDDQCYTR 117 (152)
T ss_pred cccCc-CCCCCCCcccc------------ccCCEeeeCC--CCCCCC---CCCCcCcCcCcCC--------CCCCcCEEE
Confidence 45 67 89999998876 5668999999 789992 1222345678752 123458766
Q ss_pred EEEECCeEEEEEccccCC
Q psy3643 91 RQKVHGEWRYYRGCAWLG 108 (153)
Q Consensus 91 vq~v~g~~~viR~C~~~~ 108 (153)
+. ....|.|+|....
T Consensus 118 ~~---~~~~~~RGC~s~l 132 (152)
T PF05444_consen 118 VD---DGGVVERGCLSDL 132 (152)
T ss_pred Ee---eCCEEEeCCCCcc
Confidence 55 3346899998864
No 7
>cd00206 snake_toxin Snake toxin domain, present in short and long neurotoxins, cytotoxins and short toxins, and in other miscellaneous venom peptides. The toxin acts by binding to the nicotinic acetylcholine receptors in the postsynaptic membrane of skeletal muscles and preventing the binding of acetylcholine, thereby blocking the excitation of muscles. This domain contains 60-75 amino acids that are fixed by 4-5 disulfide bridges and is nearly all beta sheet; it exists as either monomers or dimers.
Probab=95.36 E-value=0.04 Score=36.14 Aligned_cols=23 Identities=35% Similarity=0.397 Sum_probs=16.0
Q ss_pred CceEEEEEEE-CCeEEEEEccccC
Q psy3643 85 TMCRKIRQKV-HGEWRYYRGCAWL 107 (153)
Q Consensus 85 t~C~Kivq~v-~g~~~viR~C~~~ 107 (153)
..|.|..-.. ....+|.|+|+..
T Consensus 22 ~~Cyk~~~~~~~~g~~i~rGCa~t 45 (64)
T cd00206 22 NICYKKSWKDTPRGVRIERGCAAT 45 (64)
T ss_pred CccceeEEEcCCCCCEEEccccCc
Confidence 5688774443 4456899999865
No 8
>PF06579 Ly-6_related: Caenorhabditis elegans ly-6-related protein; InterPro: IPR010558 This family consists of several Caenorhabditis elegans specific ly-6-related HOT and ODR proteins. These proteins are involved in the olfactory system. Odr-2 mutants are known to be defective in the ability to chemotax to odorants that are recognised by the two AWC olfactory neurons. Odr-2 encodes a membrane-associated protein related to the Ly-6 superfamily of GPI-linked signalling proteins [].
Probab=94.60 E-value=0.067 Score=40.17 Aligned_cols=59 Identities=24% Similarity=0.570 Sum_probs=35.7
Q ss_pred CceEEEEEE--ECC---eEEEEEccccCC-CCCCcC--------ccccceecc-------c-----ccceEEEEeEecCC
Q psy3643 85 TMCRKIRQK--VHG---EWRYYRGCAWLG-EPGIGG--------DERYCLMRT-------G-----TYNVFMEYCTCMSK 138 (153)
Q Consensus 85 t~C~Kivq~--v~g---~~~viR~C~~~~-~~~~~~--------~~~~C~~~~-------g-----~~~~~~~~C~C~~~ 138 (153)
+.|+-+++. +.| ...+||+|.-.- -.|.++ ..+.|..-. + ....++..|+| .+
T Consensus 45 s~Cvtl~e~~~~~gg~~~~~yIRGC~~~I~~~G~n~t~t~~~~~~~~~C~~~~~s~Lf~~~~~~~~~~~~~v~vCsC-~g 123 (129)
T PF06579_consen 45 SICVTLFEPLDIFGGTRGFGYIRGCLDSILRHGFNDTITLSFLDRRDICRRLRLSQLFPPGRRREHPSDSTVQVCSC-YG 123 (129)
T ss_pred chheeeEeccccccccccccEEEcCHHHHHHhCCCCchHHHHhcCCCeeeeccHHHhcCcccccccCCCCeEEEEEE-CC
Confidence 479999987 333 467899998531 011111 112466211 1 01245799999 99
Q ss_pred CCCCCC
Q psy3643 139 DGCNTA 144 (153)
Q Consensus 139 D~CN~A 144 (153)
|+||+|
T Consensus 124 d~CN~s 129 (129)
T PF06579_consen 124 DRCNGS 129 (129)
T ss_pred CccCCC
Confidence 999986
No 9
>PF00087 Toxin_1: Snake toxin; InterPro: IPR003571 Snake toxins belong to a family of proteins [] which groups short and long neurotoxins, cytotoxins and short toxins, as well as a other miscellaneous venom peptides. Most of these toxins act by binding to the nicotinic acetylcholine receptors in the postsynaptic membrane of skeletal muscles and prevent the binding of acetylcholine, thereby blocking the excitation of muscles. Snake toxins are proteins that consist of sixty to seventy five amino acids. Among the invariant residues are eight cysteines all involved in disulphide bonds. The structure is small, disulphide-rich, nearly all beta sheet.; GO: 0005576 extracellular region; PDB: 3NEQ_B 2H5F_A 3PLC_A 1NOR_A 1UG4_A 1FFJ_A 1CCQ_A 1CB9_A 1VB0_A 1ONJ_A ....
Probab=93.55 E-value=0.17 Score=33.10 Aligned_cols=42 Identities=33% Similarity=0.524 Sum_probs=26.0
Q ss_pred CceEEEEEEEC-CeEEEEEccccCCCCCCcCccccceecccccceEEEEeEecCCCCCC
Q psy3643 85 TMCRKIRQKVH-GEWRYYRGCAWLGEPGIGGDERYCLMRTGTYNVFMEYCTCMSKDGCN 142 (153)
Q Consensus 85 t~C~Kivq~v~-g~~~viR~C~~~~~~~~~~~~~~C~~~~g~~~~~~~~C~C~~~D~CN 142 (153)
..|-|.+-... ...+|+|+|+.. |..... +..+ .||.+|.||
T Consensus 21 ~~Cy~k~~~~~~~~~~~~rGCa~t-----------CP~~~~--~~~v---~CC~TD~CN 63 (63)
T PF00087_consen 21 NICYKKTWMDHPRGMRVERGCAAT-----------CPTPKP--GEKV---KCCSTDKCN 63 (63)
T ss_dssp SEEEEEEEEETSTEEEEEEEEESS-----------SSSSBS--SEEE---EEESSTTTT
T ss_pred CeeEEEEEecCCCCceEecchhcc-----------CcCCCC--CCeE---EEcCCCCCC
Confidence 57995444433 688999999964 321111 1222 466999999
No 10
>PF02988 PLA2_inh: Phospholipase A2 inhibitor; InterPro: IPR004126 Proteins in this entry inhibit basic phospholipase A2 isozymes in snake's venom [, ].; GO: 0004859 phospholipase inhibitor activity, 0005576 extracellular region
Probab=69.22 E-value=35 Score=23.67 Aligned_cols=73 Identities=23% Similarity=0.545 Sum_probs=43.4
Q ss_pred eEEecCCCCCCCCCCCCCCCCCCcCCCCCCCCCCCCCCCCCCceEEEEEEE--CC--eEEEEEccccCCCCCCcCccccc
Q psy3643 44 KCWNCRSDSDPKCADPFDNSSIPINDCKVEPELSHLPGIRATMCRKIRQKV--HG--EWRYYRGCAWLGEPGIGGDERYC 119 (153)
Q Consensus 44 ~CY~CnS~~dp~C~d~f~~~~~~~~dC~~~~~~~~~~g~~~t~C~Kivq~v--~g--~~~viR~C~~~~~~~~~~~~~~C 119 (153)
.|..|.+. -++|.-+ ...|.. +...|.+++.++ .| .+.+.+.|.-... |
T Consensus 2 ~CEvC~~~-G~~C~G~-------~~tC~~----------~eDtC~~~~~E~~~~~~s~~~~~K~C~~S~~---------C 54 (83)
T PF02988_consen 2 SCEVCHGS-GKDCSGK-------MKTCED----------GEDTCVTVVTEVSSAGVSFRTTHKGCFSSSD---------C 54 (83)
T ss_pred CcceecCc-CCCCCCC-------eeEcCC----------CCCEEEEEEEEeccCCeEEEEEEecccCccc---------c
Confidence 47888875 4778643 456776 235799999986 33 2345699976543 4
Q ss_pred eec-----ccccceEEEEeEecCCCCCCC
Q psy3643 120 LMR-----TGTYNVFMEYCTCMSKDGCNT 143 (153)
Q Consensus 120 ~~~-----~g~~~~~~~~C~C~~~D~CN~ 143 (153)
+.. .|........=+||..|+||.
T Consensus 55 ~~~~~~~n~g~~~y~rs~~~CC~gd~C~~ 83 (83)
T PF02988_consen 55 HLGYVSTNMGHGDYMRSRIHCCQGDGCNT 83 (83)
T ss_pred CCCCEEEecCCCCEEEeeeeeECCCccCC
Confidence 421 121111111127789999984
No 11
>KOG3653|consensus
Probab=35.69 E-value=1.2e+02 Score=27.83 Aligned_cols=64 Identities=20% Similarity=0.372 Sum_probs=38.7
Q ss_pred ceEEEEEEECCeEEE-EEcccc--CCCCCCcCccccceecccc-cceEEEEeEecCCCCCCCCCCCCCCC
Q psy3643 86 MCRKIRQKVHGEWRY-YRGCAW--LGEPGIGGDERYCLMRTGT-YNVFMEYCTCMSKDGCNTASLPNMSP 151 (153)
Q Consensus 86 ~C~Kivq~v~g~~~v-iR~C~~--~~~~~~~~~~~~C~~~~g~-~~~~~~~C~C~~~D~CN~A~~~~~~~ 151 (153)
.|.-+-....|..++ .-+|-. .++++-++ .-.|...... .+-.+.+|-| ++|.||.-.+....+
T Consensus 68 ~C~avW~~t~~~~~~v~qGC~~~~~D~~~c~~-~~eCv~s~~~~~g~t~~~CcC-s~~~CN~n~s~~~~~ 135 (534)
T KOG3653|consen 68 HCFAVWNKTSGTIEVVKQGCWSHITDDINCED-SSECVVSAEPPPGQTLYFCCC-STDFCNANFSHLPPP 135 (534)
T ss_pred ceEEEeeccCCceeEEeecCccccCCcccccc-ccccccCCCCCCCCeEEEEec-CCCcccCCccccCCC
Confidence 788777666666665 588863 33332222 3356633221 2223789999 999999976655443
No 12
>PF01684 ET: ET module; InterPro: IPR002603 The proteins in this entry have no known function, and are found in Caenorhabditis elegans and in Caenorhabditis briggsae. Each repeat contains 8-10 conserved cysteines that probably form 4-5 disulphide bridges. By inspection of the conservation of cysteines it looks like cysteines 1, 2, 3, 4, 9 and 10 are always present and that sometimes the pair 5 and 8 or the pair 6 and 7 are missing. This suggests that cysteines 5/8 and 6/7 make disulphide bridges.
Probab=28.63 E-value=1.4e+02 Score=20.53 Aligned_cols=57 Identities=18% Similarity=0.264 Sum_probs=37.2
Q ss_pred ceEEEEE-EECCeEEEEEccccCCCCCCcCccccceecccccceEEEEeEecC-CCCCCCCC
Q psy3643 86 MCRKIRQ-KVHGEWRYYRGCAWLGEPGIGGDERYCLMRTGTYNVFMEYCTCMS-KDGCNTAS 145 (153)
Q Consensus 86 ~C~Kivq-~v~g~~~viR~C~~~~~~~~~~~~~~C~~~~g~~~~~~~~C~C~~-~D~CN~A~ 145 (153)
.|.++.. .++|....+=.|.....=.--...+.|..-.+. ..+..|-| + .|.||...
T Consensus 23 ~CaSvs~~~~ng~~~t~y~C~P~~vC~~L~l~n~C~~i~~~--~~vtgCCC-~~~dnC~~p~ 81 (82)
T PF01684_consen 23 QCASVSITTYNGHNVTLYTCDPTSVCRSLNLNNSCNTIEGG--REVTGCCC-NNSDNCNDPT 81 (82)
T ss_pred EEEEEEEEeECCceEEEEEechHHHHhhhcccCcccccCCC--CcEEEEEC-CCCccccCCC
Confidence 5999988 789987778888654210000233467654442 24789999 6 99999754
No 13
>PF08917 ecTbetaR2: Transforming growth factor beta receptor 2 ectodomain; InterPro: IPR015013 The Transforming growth factor beta receptor 2 ectodomain is a compact fold consisting of nine beta-strands and a single helix stabilised by a network of six intra strand disulphide bonds. The folding topology includes a central five-stranded antiparallel beta-sheet, eight-residues long at its centre, covered by a second layer consisting of two segments of two-stranded antiparallel beta-sheets (beta1-beta4, beta3-beta9) []. ; GO: 0005026 transforming growth factor beta receptor activity, type II, 0005524 ATP binding, 0046872 metal ion binding, 0006468 protein phosphorylation, 0016020 membrane; PDB: 1KTZ_B 3KFD_E 1M9Z_A 2PJY_B 1PLO_A 1KS6_A.
Probab=22.95 E-value=3.2e+02 Score=20.25 Aligned_cols=59 Identities=19% Similarity=0.291 Sum_probs=39.3
Q ss_pred CCceEEEEEEECCeEEEEEccccCC----CCCCcCc-cccceecc-cccceEEEEeEecCCCCCCC
Q psy3643 84 ATMCRKIRQKVHGEWRYYRGCAWLG----EPGIGGD-ERYCLMRT-GTYNVFMEYCTCMSKDGCNT 143 (153)
Q Consensus 84 ~t~C~Kivq~v~g~~~viR~C~~~~----~~~~~~~-~~~C~~~~-g~~~~~~~~C~C~~~D~CN~ 143 (153)
.-.|+-|-.+.++...+---|.-.. ..-++++ ...|.++. ...+..+..|.| .+|.||-
T Consensus 35 eEVCvAiWRk~~~nitieTlCHdP~~~l~G~~l~d~ns~~C~Mkek~~~g~~~~~CsC-~~eECNd 99 (118)
T PF08917_consen 35 EEVCVAIWRKNDENITIETLCHDPKLPLHGFMLEDYNSSKCIMKEKKSEGGTFFMCSC-SGEECND 99 (118)
T ss_dssp T-EEEEEEEEETTEEEEEEEEE-TTSBCTTCB-TTTTCSSEEEEEEEETTCEEEEEEE-SSTTCCC
T ss_pred ceEEEEEEEECCCCeEEEEeecCCCCcccceEecCCCCCeeEEEeeeCCCCcEEEEec-CccccCC
Confidence 4579999888888888877786431 1123333 45788543 334667899999 9999995
No 14
>PF09416 UPF1_Zn_bind: RNA helicase (UPF2 interacting domain); InterPro: IPR018999 UPF1 (or regulator of nonsense transcripts 1 homologue) is an essential RNA helicase that detects mRNAs containing premature stop codons and triggers their degradation. This domain contains 3 zinc binding motifs and forms interactions with another protein (UPF2) that is also involved nonsense-mediated mRNA decay (NMD) []. ; GO: 0003677 DNA binding, 0004386 helicase activity, 0005524 ATP binding, 0008270 zinc ion binding, 0000184 nuclear-transcribed mRNA catabolic process, nonsense-mediated decay, 0005737 cytoplasm; PDB: 2IYK_B 2WJY_A 2WJV_A 2XZL_A.
Probab=21.37 E-value=7.8 Score=29.94 Aligned_cols=37 Identities=30% Similarity=0.520 Sum_probs=15.1
Q ss_pred eecCCCCccCCCCCCccceeeeee--------------CccceeeEEecCCC
Q psy3643 14 TCMSKDGCNTASLPNMSPIFTVVI--------------SAVSCIKCWNCRSD 51 (153)
Q Consensus 14 ~~~~~~~cn~a~~~~~~~l~~l~i--------------~~~~aI~CY~CnS~ 51 (153)
+| +|=||||....--.=|+..++ -....|.||.|-+.
T Consensus 19 ~c-~kWFCNg~~~~s~SHIv~HLv~srh~ev~LH~~s~lgdt~leCy~Cg~~ 69 (152)
T PF09416_consen 19 TC-NKWFCNGRGNTSGSHIVNHLVRSRHKEVSLHPDSPLGDTVLECYNCGSR 69 (152)
T ss_dssp TT-TEEEES--TTSSS-HHHHHHHHHT---EEE-TTSTT-S-B---TTT---
T ss_pred CC-CcEeecCCCCCcccHHHHHHHHccCCceeeCCCCCCCCcEEEEEecCCC
Confidence 46 888999987643333332221 12456889988775
Done!