Query psy10679
Match_columns 62
No_of_seqs 108 out of 152
Neff 2.9
Searched_HMMs 46136
Date Fri Aug 16 15:52:51 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy10679.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/10679hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05694 SBP56: 56kDa selenium 100.0 2.4E-33 5.2E-38 217.3 4.2 56 1-56 406-461 (461)
2 KOG0918|consensus 100.0 1.3E-31 2.8E-36 208.3 3.9 56 1-56 421-476 (476)
3 PHA02450 hypothetical protein 65.0 3.2 6.8E-05 24.9 0.8 10 43-53 11-20 (53)
4 PF07078 FYTT: Forty-two-three 63.1 3.3 7.2E-05 32.1 0.8 24 5-28 270-295 (316)
5 KOG3074|consensus 59.3 9.5 0.00021 29.0 2.6 34 19-52 182-217 (263)
6 PF08116 Toxin_29: PhTx neurot 53.8 5.7 0.00012 21.7 0.5 14 43-56 3-16 (31)
7 cd07695 Ig3_CD4_like Third imm 43.5 21 0.00047 23.9 2.1 15 42-56 32-47 (109)
8 COG0779 Uncharacterized protei 42.1 13 0.00028 25.7 0.9 20 3-23 32-52 (153)
9 cd08625 PI-PLCc_beta3 Catalyti 37.1 22 0.00048 26.3 1.5 27 2-28 230-256 (258)
10 PF06226 DUF1007: Protein of u 33.9 34 0.00073 23.7 1.9 31 21-56 139-171 (212)
11 PF02820 MBT: mbt repeat; Int 31.5 49 0.0011 19.2 2.1 19 42-60 28-46 (73)
12 PF14298 DUF4374: Domain of un 30.7 76 0.0016 25.5 3.6 41 4-49 308-348 (435)
13 PRK14646 hypothetical protein; 30.6 34 0.00073 23.1 1.5 21 4-24 33-54 (155)
14 PF10002 DUF2243: Predicted me 29.8 23 0.00051 24.5 0.6 12 38-49 105-116 (143)
15 PRK14638 hypothetical protein; 28.6 34 0.00074 23.0 1.2 20 4-23 34-53 (150)
16 PF02601 Exonuc_VII_L: Exonucl 28.4 18 0.0004 25.7 -0.1 14 46-59 83-96 (319)
17 cd08623 PI-PLCc_beta1 Catalyti 26.8 40 0.00087 25.1 1.5 27 2-28 230-256 (258)
18 PF13650 Asp_protease_2: Aspar 24.8 1.3E+02 0.0028 16.3 4.0 52 2-53 3-54 (90)
19 cd05483 retropepsin_like_bacte 24.7 1.2E+02 0.0026 16.6 2.9 50 3-53 8-57 (96)
20 smart00135 LY Low-density lipo 24.7 94 0.002 14.7 2.8 27 18-49 12-42 (43)
21 cd03475 Rieske_SoxF_SoxL SoxF 24.0 61 0.0013 22.8 1.8 11 23-33 34-44 (171)
22 PF06117 DUF957: Enterobacteri 23.9 46 0.001 20.7 1.1 12 49-61 22-33 (65)
23 cd08592 PI-PLCc_gamma Catalyti 23.7 41 0.00089 24.6 1.0 27 2-28 201-227 (229)
24 cd08594 PI-PLCc_eta Catalytic 23.6 39 0.00084 24.8 0.9 27 2-28 199-225 (227)
25 cd08627 PI-PLCc_gamma1 Catalyt 22.7 57 0.0012 24.0 1.6 27 2-28 201-227 (229)
26 cd08628 PI-PLCc_gamma2 Catalyt 22.7 42 0.00091 24.9 0.9 26 2-27 226-251 (254)
27 PRK14643 hypothetical protein; 22.1 52 0.0011 22.5 1.2 21 4-24 35-58 (164)
28 cd04508 TUDOR Tudor domains ar 21.9 45 0.00097 17.1 0.7 8 26-33 31-38 (48)
29 smart00149 PLCYc Phospholipase 20.6 29 0.00062 22.8 -0.3 28 2-29 75-102 (115)
30 PF14371 DUF4412: Domain of un 20.4 1.1E+02 0.0025 17.5 2.3 22 38-59 12-35 (89)
31 PF10246 MRP-S35: Mitochondria 20.2 57 0.0012 21.7 1.1 12 21-32 34-45 (104)
32 cd08595 PI-PLCc_zeta Catalytic 20.1 53 0.0011 24.5 1.0 27 2-28 229-255 (257)
33 PF03341 Pox_mRNA-cap: Poxviru 20.1 30 0.00066 26.6 -0.3 9 49-57 183-191 (287)
No 1
>PF05694 SBP56: 56kDa selenium binding protein (SBP56); InterPro: IPR008826 This family consists of several eukaryotic selenium binding proteins as well as three sequences from archaea. The exact function of this protein is unknown although it is thought that SBP56 participates in late stages of intra-Golgi protein transport []. The Lotus japonicus homologue of SBP56, LjSBP is thought to have more than one physiological role and can be implicated in controlling the oxidation/reduction status of target proteins in vesicular Golgi transport [].; GO: 0008430 selenium binding; PDB: 2ECE_A.
Probab=99.98 E-value=2.4e-33 Score=217.28 Aligned_cols=56 Identities=70% Similarity=1.242 Sum_probs=35.7
Q ss_pred CcccCceEEEEeccCCCCceEecCcceeeCCCCCCCcceeeeeeeCCCCCCceeee
Q psy10679 1 MILSGSALVKINVNTEQGGLTLDEDFIVDLGLEPNGPALAHEIRYPGGDCTSDIWL 56 (62)
Q Consensus 1 ~~~~G~~m~kiDvd~~~GGl~ld~~F~VDFg~~p~Gp~raHeiR~pGGDcsSDiw~ 56 (62)
++++||||+|||||+++|||+||++||||||+||+||+||||||||||||||||||
T Consensus 406 ~~~~g~~m~~iDvd~~~Ggl~l~~~F~VDFg~ep~Gp~raHe~R~pgGDctSDi~~ 461 (461)
T PF05694_consen 406 GVKNGSWMLKIDVDTENGGLTLDEDFLVDFGKEPDGPARAHEMRYPGGDCTSDIWC 461 (461)
T ss_dssp ------EEEEEEE-TT-S-EEEEEEEEEE-TT-----SEEEEEEETT--TTT---S
T ss_pred ccccccEEEEEEecCCCCceeeCccceecccccccccccceeeecCCCCccccccC
Confidence 57899999999999999999999999999999999999999999999999999997
No 2
>KOG0918|consensus
Probab=99.97 E-value=1.3e-31 Score=208.34 Aligned_cols=56 Identities=61% Similarity=1.271 Sum_probs=54.8
Q ss_pred CcccCceEEEEeccCCCCceEecCcceeeCCCCCCCcceeeeeeeCCCCCCceeee
Q psy10679 1 MILSGSALVKINVNTEQGGLTLDEDFIVDLGLEPNGPALAHEIRYPGGDCTSDIWL 56 (62)
Q Consensus 1 ~~~~G~~m~kiDvd~~~GGl~ld~~F~VDFg~~p~Gp~raHeiR~pGGDcsSDiw~ 56 (62)
+|++||+|+||||||++|||+|||+||||||+||.||++||||||||||||||||+
T Consensus 421 ~v~~G~~miqidvdt~~g~~~lN~~flvDf~~ep~gPsL~hemRypggdCtsdiwi 476 (476)
T KOG0918|consen 421 LVSKGSHMIQIDVDTVKGGLSLNPDFLVDFGKEPDGPSLAHEMRYPGGDCTSDIWI 476 (476)
T ss_pred HHhcCceEEEEeeeccCCceeeCccceEEccCCCCCcchhhhcccCCCcccccccC
Confidence 58999999999999999999999999999999999999999999999999999996
No 3
>PHA02450 hypothetical protein
Probab=64.98 E-value=3.2 Score=24.93 Aligned_cols=10 Identities=70% Similarity=1.464 Sum_probs=7.5
Q ss_pred eeeCCCCCCce
Q psy10679 43 IRYPGGDCTSD 53 (62)
Q Consensus 43 iR~pGGDcsSD 53 (62)
+|| ||||+--
T Consensus 11 ~ry-ggdc~cg 20 (53)
T PHA02450 11 TRY-GGDCTCG 20 (53)
T ss_pred eee-CCccccc
Confidence 566 8999864
No 4
>PF07078 FYTT: Forty-two-three protein; InterPro: IPR009782 This family consists of several hypothetical mammalian proteins of around 320 residues in length. The function of this family is unknown although several of the family members are annotated as putative 40-2-3 proteins.
Probab=63.09 E-value=3.3 Score=32.13 Aligned_cols=24 Identities=29% Similarity=0.567 Sum_probs=20.0
Q ss_pred CceEEEEeccCC--CCceEecCccee
Q psy10679 5 GSALVKINVNTE--QGGLTLDEDFIV 28 (62)
Q Consensus 5 G~~m~kiDvd~~--~GGl~ld~~F~V 28 (62)
-|++|+.|++.. .-||+|||.|=|
T Consensus 270 KGVPLqFDInSVgKQT~mTLNERF~I 295 (316)
T PF07078_consen 270 KGVPLQFDINSVGKQTGMTLNERFRI 295 (316)
T ss_pred CCceEEEeehhcccccceeHHHhhhH
Confidence 469999999876 579999999943
No 5
>KOG3074|consensus
Probab=59.35 E-value=9.5 Score=29.05 Aligned_cols=34 Identities=24% Similarity=0.420 Sum_probs=28.7
Q ss_pred ceEe-cCcceeeCCCCCCCcc-eeeeeeeCCCCCCc
Q psy10679 19 GLTL-DEDFIVDLGLEPNGPA-LAHEIRYPGGDCTS 52 (62)
Q Consensus 19 Gl~l-d~~F~VDFg~~p~Gp~-raHeiR~pGGDcsS 52 (62)
-+++ |.+||.|-|....||+ |.|||+-+|.+=+|
T Consensus 182 ~~tvDnk~F~Fd~G~N~~G~f~riSEVk~n~~yRns 217 (263)
T KOG3074|consen 182 SITVDNKRFLFDVGKNKRGVFVRISEVKSNGSYRNS 217 (263)
T ss_pred eEEEecceeEEecCCCCccceEEEEEecCCCCcccc
Confidence 4555 5789999999999987 99999999998776
No 6
>PF08116 Toxin_29: PhTx neurotoxin family; InterPro: IPR012634 This family consists of PhTx insecticidal neurotoxins that are found in the venom of Phoneutria nigriventer (Brazilian armed spider). The venom of the P. nigrivente contains numerous neurotoxic polypeptides of 30-140 amino acids, which exert a range of biological effects. While some of these neurotoxins are lethal to mice after intracerebroventricular injections, others are extremely toxic to insects of the orders Diptera and Dictyoptera but had much weaker toxic effects on mice [].; GO: 0009405 pathogenesis, 0005576 extracellular region
Probab=53.82 E-value=5.7 Score=21.66 Aligned_cols=14 Identities=50% Similarity=0.695 Sum_probs=11.5
Q ss_pred eeeCCCCCCceeee
Q psy10679 43 IRYPGGDCTSDIWL 56 (62)
Q Consensus 43 iR~pGGDcsSDiw~ 56 (62)
-||+|=-||||-=|
T Consensus 3 C~~nGqQCtSDgqC 16 (31)
T PF08116_consen 3 CRYNGQQCTSDGQC 16 (31)
T ss_pred cccCccccCcCCce
Confidence 38999999999653
No 7
>cd07695 Ig3_CD4_like Third immunoglobulin (Ig) domain of CD4. Ig3_CD4; third immunoglobulin (Ig) domain of CD4. CD4 and CD8 are the two primary co-receptor proteins found on the surface of T cells, and the presence of either CD4 or CD8 determines the function of the T cell. CD4 is found on helper T cells, where it is required for the binding of MHC (major histocompatibility complex) class II molecules, while CD8 is found on cytotoxic T cells, where it is required for the binding of MHC class I molecules. CD4 contains four immunoglobulin domains, with the first three included in this hierarchy. The fourth domain has a general Ig architecture, but has slight topological changes in the arrangement of beta strands relative to the other structures in this family and is not specifically included in the hierarchy.
Probab=43.45 E-value=21 Score=23.91 Aligned_cols=15 Identities=13% Similarity=-0.059 Sum_probs=12.3
Q ss_pred eeeeCC-CCCCceeee
Q psy10679 42 EIRYPG-GDCTSDIWL 56 (62)
Q Consensus 42 eiR~pG-GDcsSDiw~ 56 (62)
|+|+.. |..|+|+||
T Consensus 32 eL~w~~e~~ss~~~wi 47 (109)
T cd07695 32 ELLWCKEINSQKDGTC 47 (109)
T ss_pred eEEeeccCCCCcCceE
Confidence 788655 889999998
No 8
>COG0779 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=42.06 E-value=13 Score=25.65 Aligned_cols=20 Identities=40% Similarity=0.840 Sum_probs=16.4
Q ss_pred ccC-ceEEEEeccCCCCceEec
Q psy10679 3 LSG-SALVKINVNTEQGGLTLD 23 (62)
Q Consensus 3 ~~G-~~m~kiDvd~~~GGl~ld 23 (62)
+.| +|.++|-+|.+ ||++||
T Consensus 32 ~~~~~~~lrI~id~~-g~v~ld 52 (153)
T COG0779 32 KEGRDSVLRIYIDKE-GGVTLD 52 (153)
T ss_pred EcCCCcEEEEEeCCC-CCCCHH
Confidence 344 69999999976 999886
No 9
>cd08625 PI-PLCc_beta3 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-beta3. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-beta isozyme 3. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which goes on to phosphorylate other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PLC-beta represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal coiled-coil (CT) domain necessary for ho
Probab=37.12 E-value=22 Score=26.28 Aligned_cols=27 Identities=19% Similarity=0.211 Sum_probs=24.1
Q ss_pred cccCceEEEEeccCCCCceEecCccee
Q psy10679 2 ILSGSALVKINVNTEQGGLTLDEDFIV 28 (62)
Q Consensus 2 ~~~G~~m~kiDvd~~~GGl~ld~~F~V 28 (62)
...|..||-++--|.+-+|.||..+|-
T Consensus 230 W~~G~QmVALN~QT~D~~M~LN~G~F~ 256 (258)
T cd08625 230 WNVGCQMVALNFQTLDLAMQLNMGVFE 256 (258)
T ss_pred hcCcceEEEeecCCCCcchhhhccccc
Confidence 467999999999999999999998874
No 10
>PF06226 DUF1007: Protein of unknown function (DUF1007); InterPro: IPR010412 This is a family of conserved bacterial proteins with unknown function.
Probab=33.94 E-value=34 Score=23.73 Aligned_cols=31 Identities=19% Similarity=0.467 Sum_probs=21.4
Q ss_pred EecCcceeeCCCCCCCcceeeeeeeCC--CCCCceeee
Q psy10679 21 TLDEDFIVDLGLEPNGPALAHEIRYPG--GDCTSDIWL 56 (62)
Q Consensus 21 ~ld~~F~VDFg~~p~Gp~raHeiR~pG--GDcsSDiw~ 56 (62)
.-||.||++|--..++ .+++.| +.|+.-+.-
T Consensus 139 vyDptyY~a~~~~~~~-----~v~l~~~~~~C~~~i~~ 171 (212)
T PF06226_consen 139 VYDPTYYVAFDYAEDD-----AVTLSGAPAGCTAEIIE 171 (212)
T ss_pred EeCCCEEEEEEecCCC-----ceeecCCcccCceEEEC
Confidence 3499999998554334 355555 889998754
No 11
>PF02820 MBT: mbt repeat; InterPro: IPR004092 The function of the malignant brain tumor (MBT) repeat is unknown, but is found in a number of nuclear proteins involved in transcriptional repression. The repeat contains a completely conserved glutamate at its amino terminus that may be important for function. The crystal structure of the two MBT repeats of human SCM-like 2 protein has been reported. Each repeat consists of an extended "arm" and a globular core. The arm of the first repeat packs against the core of the second repeat and vice versa. The structure of the core-interacting part of each arm consists of an N-terminal alpha-helix and a turn of 310 helix connected by a short beta-strand. The core consists of an Src homology 3-like five-stranded beta-barrel followed by a C-terminal alpha-helix and another short beta-strand. Each arm interacts with its partner core in a similar way, with the orientation of the N-terminal helix relative to the barrel varying slightly. There are also extensive interactions between the two barrels [].; GO: 0006355 regulation of transcription, DNA-dependent, 0005634 nucleus; PDB: 2P0K_A 3F70_B 3CEY_A 2VYT_A 2BIV_A 1OI1_A 3OQ5_A 2RJE_B 2RJD_A 2RI3_A ....
Probab=31.51 E-value=49 Score=19.16 Aligned_cols=19 Identities=32% Similarity=0.541 Sum_probs=14.8
Q ss_pred eeeeCCCCCCceeeeecCC
Q psy10679 42 EIRYPGGDCTSDIWLVPND 60 (62)
Q Consensus 42 eiR~pGGDcsSDiw~~~~~ 60 (62)
.+||-|-+-..|-||..+.
T Consensus 28 ~v~~dg~~~~~d~w~~~~S 46 (73)
T PF02820_consen 28 LVRYDGWDDDYDFWCHIDS 46 (73)
T ss_dssp EEEETTSTGGGEEEEETTS
T ss_pred EEEEcCCCCCccEEEECCC
Confidence 4678888888899987664
No 12
>PF14298 DUF4374: Domain of unknown function (DUF4374)
Probab=30.70 E-value=76 Score=25.46 Aligned_cols=41 Identities=20% Similarity=0.430 Sum_probs=31.7
Q ss_pred cCceEEEEeccCCCCceEecCcceeeCCCCCCCcceeeeeeeCCCC
Q psy10679 4 SGSALVKINVNTEQGGLTLDEDFIVDLGLEPNGPALAHEIRYPGGD 49 (62)
Q Consensus 4 ~G~~m~kiDvd~~~GGl~ld~~F~VDFg~~p~Gp~raHeiR~pGGD 49 (62)
+-|-+|+|.- |--.+|+++|+|+-+..+| .....+-|-|++
T Consensus 308 kPSGilRIk~----G~teFD~~Yffnle~~sgg-~~~~~~~yIG~~ 348 (435)
T PF14298_consen 308 KPSGILRIKK----GTTEFDKSYFFNLEAKSGG-YKFFRVWYIGNN 348 (435)
T ss_pred CccEEEEECC----CCcccCcceEeeeecccCC-cceEEEEEecCC
Confidence 3466788865 5689999999999887777 666677777776
No 13
>PRK14646 hypothetical protein; Provisional
Probab=30.61 E-value=34 Score=23.12 Aligned_cols=21 Identities=19% Similarity=0.477 Sum_probs=15.9
Q ss_pred cCceEEEEeccCCC-CceEecC
Q psy10679 4 SGSALVKINVNTEQ-GGLTLDE 24 (62)
Q Consensus 4 ~G~~m~kiDvd~~~-GGl~ld~ 24 (62)
.+.|+++|-+|.++ +|++||.
T Consensus 33 ~~~~~LrV~IDk~~g~gVtldD 54 (155)
T PRK14646 33 QNPIVIKIIIKKTNGDDISLDD 54 (155)
T ss_pred CCCeEEEEEEECCCCCCccHHH
Confidence 46789999999775 4788763
No 14
>PF10002 DUF2243: Predicted membrane protein (DUF2243); InterPro: IPR018719 This entry includes membrane proteins of unknown function.
Probab=29.79 E-value=23 Score=24.53 Aligned_cols=12 Identities=42% Similarity=0.844 Sum_probs=9.6
Q ss_pred ceeeeeeeCCCC
Q psy10679 38 ALAHEIRYPGGD 49 (62)
Q Consensus 38 ~raHeiR~pGGD 49 (62)
++.||||||+.+
T Consensus 105 LgiH~Vr~~~~~ 116 (143)
T PF10002_consen 105 LGIHHVRYPGPN 116 (143)
T ss_pred hccceecccCCC
Confidence 578999997764
No 15
>PRK14638 hypothetical protein; Provisional
Probab=28.60 E-value=34 Score=22.97 Aligned_cols=20 Identities=15% Similarity=0.280 Sum_probs=15.6
Q ss_pred cCceEEEEeccCCCCceEec
Q psy10679 4 SGSALVKINVNTEQGGLTLD 23 (62)
Q Consensus 4 ~G~~m~kiDvd~~~GGl~ld 23 (62)
.++|++++=+|.++|+++||
T Consensus 34 ~~~~~lrV~ID~~~G~v~ld 53 (150)
T PRK14638 34 SRGWVLRIIIDNPVGYVSVR 53 (150)
T ss_pred CCCcEEEEEEECCCCCcCHH
Confidence 35789999999777767775
No 16
>PF02601 Exonuc_VII_L: Exonuclease VII, large subunit; InterPro: IPR020579 Exonuclease VII 3.1.11.6 from EC is composed of two nonidentical subunits; one large subunit and 4 small ones []. Exonuclease VII catalyses exonucleolytic cleavage in either 5'-3' or 3'-5' direction to yield 5'-phosphomononucleotides. The large subunit also contains the OB-fold domains (IPR004365 from INTERPRO) that bind to nucleic acids at the N terminus. This entry represents Exonuclease VII, large subunit, C-terminal. ; GO: 0008855 exodeoxyribonuclease VII activity
Probab=28.40 E-value=18 Score=25.73 Aligned_cols=14 Identities=29% Similarity=0.809 Sum_probs=12.3
Q ss_pred CCCCCCceeeeecC
Q psy10679 46 PGGDCTSDIWLVPN 59 (62)
Q Consensus 46 pGGDcsSDiw~~~~ 59 (62)
-||+...|-|+|.+
T Consensus 83 RGGGs~eDL~~FN~ 96 (319)
T PF02601_consen 83 RGGGSIEDLWAFND 96 (319)
T ss_pred cCCCChHHhcccCh
Confidence 39999999999975
No 17
>cd08623 PI-PLCc_beta1 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-beta1. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-beta isozyme 1. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which goes on to phosphorylate other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PLC-beta represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal coiled-coil (CT) domain necessary for ho
Probab=26.81 E-value=40 Score=25.10 Aligned_cols=27 Identities=15% Similarity=0.229 Sum_probs=23.9
Q ss_pred cccCceEEEEeccCCCCceEecCccee
Q psy10679 2 ILSGSALVKINVNTEQGGLTLDEDFIV 28 (62)
Q Consensus 2 ~~~G~~m~kiDvd~~~GGl~ld~~F~V 28 (62)
.+.|..||-++--|.+-+|.||..+|-
T Consensus 230 W~~G~QmVALN~QT~d~~M~LN~G~F~ 256 (258)
T cd08623 230 WNAGCQMVALNFQTVDLSMQINMGMYE 256 (258)
T ss_pred hcCCceEEEeecCCCCcchhhhccccc
Confidence 467999999999999999999998763
No 18
>PF13650 Asp_protease_2: Aspartyl protease
Probab=24.77 E-value=1.3e+02 Score=16.35 Aligned_cols=52 Identities=17% Similarity=0.266 Sum_probs=36.5
Q ss_pred cccCceEEEEeccCCCCceEecCcceeeCCCCCCCcceeeeeeeCCCCCCce
Q psy10679 2 ILSGSALVKINVNTEQGGLTLDEDFIVDLGLEPNGPALAHEIRYPGGDCTSD 53 (62)
Q Consensus 2 ~~~G~~m~kiDvd~~~GGl~ld~~F~VDFg~~p~Gp~raHeiR~pGGDcsSD 53 (62)
++.++..+++=+||......+++++.=..+..+........++-.+|..+..
T Consensus 3 v~vng~~~~~liDTGa~~~~i~~~~~~~l~~~~~~~~~~~~~~~~~g~~~~~ 54 (90)
T PF13650_consen 3 VKVNGKPVRFLIDTGASISVISRSLAKKLGLKPRPKSVPISVSGAGGSVTVY 54 (90)
T ss_pred EEECCEEEEEEEcCCCCcEEECHHHHHHcCCCCcCCceeEEEEeCCCCEEEE
Confidence 3456778888888887888999999888877654422245666777765443
No 19
>cd05483 retropepsin_like_bacteria Bacterial aspartate proteases, retropepsin-like protease family. This family of bacteria aspartate proteases is a subfamily of retropepsin-like protease family, which includes enzymes from retrovirus and retrotransposons. While fungal and mammalian pepsin-like aspartate proteases are bilobal proteins with structurally related N- and C-termini, this family of bacteria aspartate proteases is half as long as their fungal and mammalian counterparts. The monomers are structurally related to one lobe of the pepsin molecule and function as homodimers. The active site aspartate occurs within a motif (Asp-Thr/Ser-Gly), as it does in pepsin. In aspartate peptidases, Asp residues are ligands of an activated water molecule in all examples where catalytic residues have been identified. This group of aspartate proteases is classified by MEROPS as the peptidase family A2 (retropepsin family, clan AA), subfamily A2A.
Probab=24.74 E-value=1.2e+02 Score=16.62 Aligned_cols=50 Identities=16% Similarity=0.209 Sum_probs=33.0
Q ss_pred ccCceEEEEeccCCCCceEecCcceeeCCCCCCCcceeeeeeeCCCCCCce
Q psy10679 3 LSGSALVKINVNTEQGGLTLDEDFIVDLGLEPNGPALAHEIRYPGGDCTSD 53 (62)
Q Consensus 3 ~~G~~m~kiDvd~~~GGl~ld~~F~VDFg~~p~Gp~raHeiR~pGGDcsSD 53 (62)
+.++.-+++-+||......++..+.-..+. +.-+...+.+|..+|-....
T Consensus 8 ~i~~~~~~~llDTGa~~s~i~~~~~~~l~~-~~~~~~~~~~~~~~G~~~~~ 57 (96)
T cd05483 8 TINGQPVRFLLDTGASTTVISEELAERLGL-PLTLGGKVTVQTANGRVRAA 57 (96)
T ss_pred EECCEEEEEEEECCCCcEEcCHHHHHHcCC-CccCCCcEEEEecCCCccce
Confidence 445667778888877778888887666653 11223456677888876654
No 20
>smart00135 LY Low-density lipoprotein-receptor YWTD domain. Type "B" repeats in low-density lipoprotein (LDL) receptor that plays a central role in mammalian cholesterol metabolism. Also present in a variety of molecules similar to gp300/megalin.
Probab=24.73 E-value=94 Score=14.72 Aligned_cols=27 Identities=26% Similarity=0.416 Sum_probs=17.7
Q ss_pred CceEecCc----ceeeCCCCCCCcceeeeeeeCCCC
Q psy10679 18 GGLTLDED----FIVDLGLEPNGPALAHEIRYPGGD 49 (62)
Q Consensus 18 GGl~ld~~----F~VDFg~~p~Gp~raHeiR~pGGD 49 (62)
.||.+|+. ||.|... ......++-|.+
T Consensus 12 ~~la~d~~~~~lYw~D~~~-----~~I~~~~~~g~~ 42 (43)
T smart00135 12 NGLAVDWIEGRLYWTDWGL-----DVIEVANLDGTN 42 (43)
T ss_pred CEEEEeecCCEEEEEeCCC-----CEEEEEeCCCCC
Confidence 56777665 8889866 456666666654
No 21
>cd03475 Rieske_SoxF_SoxL SoxF and SoxL family, Rieske domain; The Rieske domain is a [2Fe-2S] cluster binding domain involved in electron transfer. SoxF is a subunit of the terminal oxidase supercomplex SoxM in the plasma membrane of Sulfolobus acidocaldarius that combines features of a cytochrome bc(1) complex and a cytochrome. The Rieske domain of SoxF has a 12 residue insertion which is not found in eukaryotic and bacterial Rieske proteins and is thought to influence the redox properties of the iron-sulfur cluster. SoxL is a Rieske protein which may be part of an archaeal bc-complex homologue whose physiological function is still unknown. SoxL has two features not seen in other Rieske proteins; (i) a significantly greater distance between the two cluster-binding sites and (ii) an unexpected Pro - Asp substitution at one of the cluster binding sites. SoxF and SoxL are found in archaea and in bacteria.
Probab=23.96 E-value=61 Score=22.80 Aligned_cols=11 Identities=27% Similarity=0.679 Sum_probs=8.7
Q ss_pred cCcceeeCCCC
Q psy10679 23 DEDFIVDLGLE 33 (62)
Q Consensus 23 d~~F~VDFg~~ 33 (62)
.+.|+|.+|++
T Consensus 34 ~p~~li~lg~~ 44 (171)
T cd03475 34 EPCFLLNLGAS 44 (171)
T ss_pred CCeEEEecCCc
Confidence 45699999985
No 22
>PF06117 DUF957: Enterobacterial protein of unknown function (DUF957); InterPro: IPR009301 This family consists of several hypothetical proteins from Escherichia coli, Salmonella typhi, Shigella flexneri and Proteus vulgaris. The function of this family is unknown.
Probab=23.90 E-value=46 Score=20.70 Aligned_cols=12 Identities=67% Similarity=1.146 Sum_probs=8.7
Q ss_pred CCCceeeeecCCC
Q psy10679 49 DCTSDIWLVPNDE 61 (62)
Q Consensus 49 DcsSDiw~~~~~~ 61 (62)
||-||| +|.|||
T Consensus 22 ~~es~i-iFDNde 33 (65)
T PF06117_consen 22 DCESDI-IFDNDE 33 (65)
T ss_pred CCCCCe-eecCCC
Confidence 688887 666665
No 23
>cd08592 PI-PLCc_gamma Catalytic domain of metazoan phosphoinositide-specific phospholipase C-gamma. This family corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-gamma isozymes. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which goes on to phosphorylate other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PI-PLC-gamma represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, and a C2 domain.The PLC catalytic core domain is a TIM barrel with two highl
Probab=23.67 E-value=41 Score=24.61 Aligned_cols=27 Identities=22% Similarity=0.400 Sum_probs=23.9
Q ss_pred cccCceEEEEeccCCCCceEecCccee
Q psy10679 2 ILSGSALVKINVNTEQGGLTLDEDFIV 28 (62)
Q Consensus 2 ~~~G~~m~kiDvd~~~GGl~ld~~F~V 28 (62)
.+.|..||-++--|.+-+|.||..+|-
T Consensus 201 W~~G~QmVAlN~Qt~d~~m~lN~g~F~ 227 (229)
T cd08592 201 WNCGSQMVALNFQTPDKPMQLNQALFM 227 (229)
T ss_pred hcCCceEEEeeccCCChhHHhhccccc
Confidence 467999999999999999999998874
No 24
>cd08594 PI-PLCc_eta Catalytic domain of metazoan phosphoinositide-specific phospholipase C-eta. This family corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-eta isozymes. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which then phosphorylates other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PI-PLC-eta represents a class of neuron-speific PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, a C2 domain, and a unique C-terminal tail that terminates with a PDZ-binding motif,
Probab=23.65 E-value=39 Score=24.79 Aligned_cols=27 Identities=30% Similarity=0.281 Sum_probs=23.8
Q ss_pred cccCceEEEEeccCCCCceEecCccee
Q psy10679 2 ILSGSALVKINVNTEQGGLTLDEDFIV 28 (62)
Q Consensus 2 ~~~G~~m~kiDvd~~~GGl~ld~~F~V 28 (62)
...|..||-++--|.+-+|.||..+|-
T Consensus 199 W~~G~QmVALN~Qt~d~~m~LN~g~F~ 225 (227)
T cd08594 199 WNAGCQLVALNYQTEGRMLQLNRAKFR 225 (227)
T ss_pred hcCCceEEEecccCCChhhHhhccccc
Confidence 467999999999999999999998873
No 25
>cd08627 PI-PLCc_gamma1 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-gamma1. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-gamma isozyme 1. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which goes on to phosphorylate other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PI-PLC-gamma represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, and a C2 domain. The PLC catalytic core domain is a TIM barrel with tw
Probab=22.73 E-value=57 Score=24.00 Aligned_cols=27 Identities=22% Similarity=0.471 Sum_probs=23.8
Q ss_pred cccCceEEEEeccCCCCceEecCccee
Q psy10679 2 ILSGSALVKINVNTEQGGLTLDEDFIV 28 (62)
Q Consensus 2 ~~~G~~m~kiDvd~~~GGl~ld~~F~V 28 (62)
.+.|..||-++--|.+-+|.||..+|.
T Consensus 201 W~~G~QmVALN~Qt~d~~M~LN~G~F~ 227 (229)
T cd08627 201 WICGSQLVALNFQTPDKPMQMNQALFM 227 (229)
T ss_pred hccCcEEEEeeccCCCcchhhhcCccc
Confidence 467999999999999999999998874
No 26
>cd08628 PI-PLCc_gamma2 Catalytic domain of metazoan phosphoinositide-specific phospholipase C-gamma2. This subfamily corresponds to the catalytic domain present in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-gamma isozyme 2. PI-PLC is a signaling enzyme that hydrolyze the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, Inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which goes on to phosphorylate other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PI-PLC-gamma represents a class of mammalian PI-PLC that has an N-terminal pleckstrin homology (PH) domain, an array of EF hands, a PLC catalytic core domain, and a C2 domain. The PLC catalytic core domain is a TIM barrel with tw
Probab=22.67 E-value=42 Score=24.91 Aligned_cols=26 Identities=27% Similarity=0.443 Sum_probs=23.4
Q ss_pred cccCceEEEEeccCCCCceEecCcce
Q psy10679 2 ILSGSALVKINVNTEQGGLTLDEDFI 27 (62)
Q Consensus 2 ~~~G~~m~kiDvd~~~GGl~ld~~F~ 27 (62)
...|..||-++--|.+-+|.||..+|
T Consensus 226 W~~G~QmVALN~QT~d~~M~LN~G~F 251 (254)
T cd08628 226 WLCGSQMVALNFQTADKYMQLNHALF 251 (254)
T ss_pred hcCCCeEEEeeccCCChhhhhhhhhc
Confidence 46799999999999999999999886
No 27
>PRK14643 hypothetical protein; Provisional
Probab=22.14 E-value=52 Score=22.54 Aligned_cols=21 Identities=19% Similarity=0.251 Sum_probs=15.3
Q ss_pred cCceEEEEeccC---CCCceEecC
Q psy10679 4 SGSALVKINVNT---EQGGLTLDE 24 (62)
Q Consensus 4 ~G~~m~kiDvd~---~~GGl~ld~ 24 (62)
.+.|+++|-+|. ++||++||.
T Consensus 35 ~~~~~lrV~Id~~~~~~ggvtldD 58 (164)
T PRK14643 35 FENDMIQILVEDILQANKPLDFDI 58 (164)
T ss_pred CCCcEEEEEEecCCCcCCCcCHHH
Confidence 457999999973 357888763
No 28
>cd04508 TUDOR Tudor domains are found in many eukaryotic organisms and have been implicated in protein-protein interactions in which methylated protein substrates bind to these domains. For example, the Tudor domain of Survival of Motor Neuron (SMN) binds to symmetrically dimethylated arginines of arginine-glycine (RG) rich sequences found in the C-terminal tails of Sm proteins. The SMN protein is linked to spinal muscular atrophy. Another example is the tandem tudor domains of 53BP1, which bind to histone H4 specifically dimethylated at Lys20 (H4-K20me2). 53BP1 is a key transducer of the DNA damage checkpoint signal.
Probab=21.93 E-value=45 Score=17.07 Aligned_cols=8 Identities=50% Similarity=0.816 Sum_probs=6.4
Q ss_pred ceeeCCCC
Q psy10679 26 FIVDLGLE 33 (62)
Q Consensus 26 F~VDFg~~ 33 (62)
||+|||..
T Consensus 31 ~f~DyG~~ 38 (48)
T cd04508 31 FFVDYGNT 38 (48)
T ss_pred EEEcCCCc
Confidence 68899873
No 29
>smart00149 PLCYc Phospholipase C, catalytic domain (part); domain Y. Phosphoinositide-specific phospholipases C. These enzymes contain 2 regions (X and Y) which together form a TIM barrel-like structure containing the active site residues. Phospholipase C enzymes (PI-PLC) act as signal transducers that generate two second messengers, inositol-1,4,5-trisphosphate and diacylglycerol. The bacterial enzyme [6] appears to be a homologue of the mammalian PLCs.
Probab=20.55 E-value=29 Score=22.79 Aligned_cols=28 Identities=18% Similarity=0.326 Sum_probs=24.7
Q ss_pred cccCceEEEEeccCCCCceEecCcceee
Q psy10679 2 ILSGSALVKINVNTEQGGLTLDEDFIVD 29 (62)
Q Consensus 2 ~~~G~~m~kiDvd~~~GGl~ld~~F~VD 29 (62)
...|..||-++--|.+-+|.||..+|-.
T Consensus 75 W~~G~QmVAlN~Qt~d~~m~lN~g~F~~ 102 (115)
T smart00149 75 WNAGCQMVALNFQTPDKPMQLNQGMFRA 102 (115)
T ss_pred HcCCceEeEeecCCCChHHHHHhhHhhc
Confidence 4579999999999999999999999864
No 30
>PF14371 DUF4412: Domain of unknown function (DUF4412)
Probab=20.40 E-value=1.1e+02 Score=17.47 Aligned_cols=22 Identities=18% Similarity=0.537 Sum_probs=18.1
Q ss_pred ceeeeee--eCCCCCCceeeeecC
Q psy10679 38 ALAHEIR--YPGGDCTSDIWLVPN 59 (62)
Q Consensus 38 ~raHeiR--~pGGDcsSDiw~~~~ 59 (62)
+.++..+ ..++.-++++|+-++
T Consensus 12 ~~c~ky~v~~~~~~~~~~~W~t~d 35 (89)
T PF14371_consen 12 YKCEKYEVTMDGGGVTMEVWITKD 35 (89)
T ss_pred EEeEEEEEEecCCCeEEEEEEcCC
Confidence 7888888 458999999998765
No 31
>PF10246 MRP-S35: Mitochondrial ribosomal protein MRP-S35; InterPro: IPR019375 Ribosomes are the particles that catalyse mRNA-directed protein synthesis in all organisms. The codons of the mRNA are exposed on the ribosome to allow tRNA binding. This leads to the incorporation of amino acids into the growing polypeptide chain in accordance with the genetic information. Incoming amino acid monomers enter the ribosomal A site in the form of aminoacyl-tRNAs complexed with elongation factor Tu (EF-Tu) and GTP. The growing polypeptide chain, situated in the P site as peptidyl-tRNA, is then transferred to aminoacyl-tRNA and the new peptidyl-tRNA, extended by one residue, is translocated to the P site with the aid the elongation factor G (EF-G) and GTP as the deacylated tRNA is released from the ribosome through one or more exit sites [, ]. About 2/3 of the mass of the ribosome consists of RNA and 1/3 of protein. The proteins are named in accordance with the subunit of the ribosome which they belong to - the small (S1 to S31) and the large (L1 to L44). Usually they decorate the rRNA cores of the subunits. Many ribosomal proteins, particularly those of the large subunit, are composed of a globular, surfaced-exposed domain with long finger-like projections that extend into the rRNA core to stabilise its structure. Most of the proteins interact with multiple RNA elements, often from different domains. In the large subunit, about 1/3 of the 23S rRNA nucleotides are at least in van der Waal's contact with protein, and L22 interacts with all six domains of the 23S rRNA. Proteins S4 and S7, which initiate assembly of the 16S rRNA, are located at junctions of five and four RNA helices, respectively. In this way proteins serve to organise and stabilise the rRNA tertiary structure. While the crucial activities of decoding and peptide transfer are RNA based, proteins play an active role in functions that may have evolved to streamline the process of protein synthesis. In addition to their function in the ribosome, many ribosomal proteins have some function 'outside' the ribosome [, ]. This is a family of short mitochondrial ribosomal proteins, less than 200 amino acids long. MRP-S35 was proposed as a more appropriate name to this group of proteins [].
Probab=20.19 E-value=57 Score=21.74 Aligned_cols=12 Identities=33% Similarity=0.755 Sum_probs=9.9
Q ss_pred EecCcceeeCCC
Q psy10679 21 TLDEDFIVDLGL 32 (62)
Q Consensus 21 ~ld~~F~VDFg~ 32 (62)
.++.+.|||||.
T Consensus 34 vv~ddLYIDfG~ 45 (104)
T PF10246_consen 34 VVDDDLYIDFGG 45 (104)
T ss_pred EecCceEEEeCC
Confidence 367799999987
No 32
>cd08595 PI-PLCc_zeta Catalytic domain of metazoan phosphoinositide-specific phospholipase C-zeta. This family corresponds to the catalytic domain presenting in metazoan phosphoinositide-specific phospholipase C (PI-PLC, EC 3.1.4.11)-zeta isozyme. PI-PLC is a signaling enzyme that hydrolyzes the membrane phospholipids phosphatidylinositol-4,5-bisphosphate (PIP2) to generate two important second messengers in eukaryotic signal transduction cascades, inositol 1,4,5-trisphosphate (InsP3) and diacylglycerol (DAG). InsP3 triggers inflow of calcium from intracellular stores, while DAG, together with calcium, activates protein kinase C, which then phosphorylates other molecules, leading to altered cellular activity. Calcium is required for the catalysis. PI-PLC-zeta represents a class of sperm-specific PI-PLC that has an N-terminal EF-hand domain, a PLC catalytic core domain, and a C-terminal C2 domain. The PLC catalytic core domain is a TIM barrel with two highly conserved regions (X and Y)
Probab=20.10 E-value=53 Score=24.47 Aligned_cols=27 Identities=19% Similarity=0.245 Sum_probs=24.0
Q ss_pred cccCceEEEEeccCCCCceEecCccee
Q psy10679 2 ILSGSALVKINVNTEQGGLTLDEDFIV 28 (62)
Q Consensus 2 ~~~G~~m~kiDvd~~~GGl~ld~~F~V 28 (62)
...|..||-++--+.+-+|.||..+|-
T Consensus 229 W~~G~QmVALN~Qt~d~~M~LN~G~F~ 255 (257)
T cd08595 229 WNVGCQMVALNFQTLGAPMDLQNGKFL 255 (257)
T ss_pred HcCCCeEEEecccCCChhhhhhcCccc
Confidence 467999999999999999999999874
No 33
>PF03341 Pox_mRNA-cap: Poxvirus mRNA capping enzyme, small subunit; InterPro: IPR005009 Vaccinia virus, the prototypic poxvirus, possesses a double-stranded DNA genome of 191,686 base pairs capable of encoding approximately 200 proteins. Virion enzymes produce mature viral mRNA with eukaryotic features, including a 5' cap and a 3' poly(A) tail. V. virus mRNA capping enzyme is a multifunctional protein with RNA triphosphatase, RNA guanylyltransferase, RNA (guanine-7) methyltransferase, and transcription termination factor activities. The protein is a heterodimer of 95kDa and 33kDa subunits encoded by the v.virus D1 and D12 genes, respectively. The capping reaction entails transfer of GMP from GTP to the 5'-diphosphate end of mRNA via a covalent enzyme-(lysyl-GMP) intermediate.; GO: 0004482 mRNA (guanine-N7-)-methyltransferase activity, 0006370 mRNA capping; PDB: 2VDW_F.
Probab=20.06 E-value=30 Score=26.63 Aligned_cols=9 Identities=56% Similarity=1.243 Sum_probs=5.2
Q ss_pred CCCceeeee
Q psy10679 49 DCTSDIWLV 57 (62)
Q Consensus 49 DcsSDiw~~ 57 (62)
-|.||||+.
T Consensus 183 Kc~sDSWlK 191 (287)
T PF03341_consen 183 KCVSDSWLK 191 (287)
T ss_dssp E-TTS-TTS
T ss_pred eccccchhc
Confidence 388999974
Done!