Query psy9089
Match_columns 200
No_of_seqs 120 out of 856
Neff 5.6
Searched_HMMs 46136
Date Fri Aug 16 18:34:32 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy9089.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/9089hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3913|consensus 100.0 6.1E-66 1.3E-70 462.3 14.1 152 1-181 205-356 (356)
2 smart00097 WNT1 found in Wnt-1 100.0 8.2E-62 1.8E-66 431.5 14.4 150 1-181 156-305 (305)
3 PF00110 wnt: wnt family; Int 100.0 1.4E-60 3E-65 424.5 4.8 151 1-181 160-310 (310)
4 cd09243 BRO1_Brox_like Protein 20.9 1.1E+02 0.0024 28.1 3.5 19 95-113 322-340 (353)
5 PF05907 DUF866: Eukaryotic pr 15.4 1.6E+02 0.0035 24.0 2.9 22 159-180 24-45 (161)
6 cd09247 BRO1_Alix_like_2 Prote 13.8 1.8E+02 0.0038 26.4 3.0 14 95-108 314-327 (346)
7 PF13085 Fer2_3: 2Fe-2S iron-s 12.4 99 0.0021 23.8 0.8 18 8-25 54-78 (110)
8 cd01390 HMGB-UBF_HMG-box HMGB- 11.8 1.4E+02 0.0031 19.3 1.4 21 20-40 39-64 (66)
9 cd09240 BRO1_Alix Protein-inte 11.8 2.2E+02 0.0048 25.8 3.0 14 95-108 314-327 (346)
10 PRK09019 translation initiatio 11.2 2.9E+02 0.0062 21.4 3.0 17 96-112 5-21 (108)
No 1
>KOG3913|consensus
Probab=100.00 E-value=6.1e-66 Score=462.27 Aligned_cols=152 Identities=46% Similarity=0.995 Sum_probs=136.7
Q ss_pred CcccceeccccCCcccceecccCCChHHHHHHHHHhhhhcceeeccCCCCCCCccCccccccccccccccCCCCCCCCcc
Q psy9089 1 MVEKCKCHGMSGSCEIRTCWHSAPSFRTVGEALKKKFSHAIRVDQSNMGNGMPLVLPEYTRRYDNTLRKIRPHRGNNDKN 80 (200)
Q Consensus 1 m~~~CKCHGvSGSC~~kTCW~~lp~Fr~IG~~Lk~kY~~A~~V~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~ 80 (200)
|+.+||||||||||++||||++||+||+||++||+|||+|++|...+.+.... ..+.+.+..+
T Consensus 205 m~~~CKCHGvSGSC~~KTCW~~lp~Fr~vG~~Lk~KYd~A~~V~~~~~~~~~~--------------~~~~~~~~~~--- 267 (356)
T KOG3913|consen 205 MRRECKCHGVSGSCTVKTCWKQLPDFREVGDYLKEKYDGAIKVTVNNRGRRSA--------------PALRPEKPRF--- 267 (356)
T ss_pred hhhcccccCccccchhhhHHhhCccHHHHHHHHHHHhhhheEEeeccCCcccc--------------cccccccccc---
Confidence 78999999999999999999999999999999999999999999877654310 0012222222
Q ss_pred CcccCCCCCccCCCCCCceEEecCCCCCcccCCCCCCCCCCCcccCCCCCcCCCCccccccCCCceEEEEEEEEeeCcEE
Q psy9089 81 NRMKRGGPRKHLNRMKTELIYYQKSPNYCERDNDVDFPGTAGRYCNRTSAFAVDNCESLCCGRGYNLRREVKNLKCKCKF 160 (200)
Q Consensus 81 ~~~~~~~~~~~~~p~~~dLVYle~SPdyC~~d~~~Gs~GT~GR~Cn~~s~~~~~~C~~LCCGRGy~t~~~~~~~~C~CkF 160 (200)
++ |+++||||||+|||||++|+..||+||+||+||.+|. +.|+|++|||||||+|+.++++|+|||||
T Consensus 268 ---~~--------~~~~dLVYle~SPdfC~~~~~~Gs~GT~GR~Cn~ts~-g~dgC~~LCCGRGynt~~~~~~e~C~CkF 335 (356)
T KOG3913|consen 268 ---KP--------PTETDLVYLEDSPDYCERNKKTGSLGTQGRECNKTSR-GSDGCDLLCCGRGYNTRRVEVVERCHCKF 335 (356)
T ss_pred ---CC--------CCCCceEEecCCChhhccCccCCCCCCCCcccCCCCC-CCCCCccccCCCCCceeEEEEEEecCCEE
Confidence 44 7889999999999999999999999999999999999 99999999999999999999999999999
Q ss_pred EeEeEEECcccceEEEEEEec
Q psy9089 161 KWCCTVECETCRVEEWNAVCM 181 (200)
Q Consensus 161 ~WCC~V~C~~C~~~~~~~~Ck 181 (200)
||||+|+|++|++++++|+||
T Consensus 336 hWCC~V~C~~C~~~~~v~tCk 356 (356)
T KOG3913|consen 336 HWCCYVKCKECRERVEVYTCK 356 (356)
T ss_pred EEeeEEECcccccEEEeeecC
Confidence 999999999999999999997
No 2
>smart00097 WNT1 found in Wnt-1.
Probab=100.00 E-value=8.2e-62 Score=431.53 Aligned_cols=150 Identities=43% Similarity=0.956 Sum_probs=133.5
Q ss_pred CcccceeccccCCcccceecccCCChHHHHHHHHHhhhhcceeeccCCCCCCCccCccccccccccccccCCCCCCCCcc
Q psy9089 1 MVEKCKCHGMSGSCEIRTCWHSAPSFRTVGEALKKKFSHAIRVDQSNMGNGMPLVLPEYTRRYDNTLRKIRPHRGNNDKN 80 (200)
Q Consensus 1 m~~~CKCHGvSGSC~~kTCW~~lp~Fr~IG~~Lk~kY~~A~~V~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~ 80 (200)
|+++||||||||||++||||++||+|++||+.||+||++|++|.+.+.+.... +.|.+...
T Consensus 156 ~~~~CkCHGvSGSC~~kTCw~~l~~Fr~Ig~~Lk~kY~~A~~V~~~~~~~~~~----------------l~~~~~~~--- 216 (305)
T smart00097 156 MKRECKCHGVSGSCTVKTCWLQLPDFRKVGDYLKEKYDGASEVEVDKRGTNKA----------------PVPKNSTF--- 216 (305)
T ss_pred HHHhccccCccCCccccchHhhCCCHHHHHHHHHHHhccceEeeecccccccc----------------cccCCccC---
Confidence 67899999999999999999999999999999999999999997655432110 11111111
Q ss_pred CcccCCCCCccCCCCCCceEEecCCCCCcccCCCCCCCCCCCcccCCCCCcCCCCccccccCCCceEEEEEEEEeeCcEE
Q psy9089 81 NRMKRGGPRKHLNRMKTELIYYQKSPNYCERDNDVDFPGTAGRYCNRTSAFAVDNCESLCCGRGYNLRREVKNLKCKCKF 160 (200)
Q Consensus 81 ~~~~~~~~~~~~~p~~~dLVYle~SPdyC~~d~~~Gs~GT~GR~Cn~~s~~~~~~C~~LCCGRGy~t~~~~~~~~C~CkF 160 (200)
++ |+++||||||+|||||++|+..||+||+||+||+++. ++|+|++|||||||+|++++++++|||||
T Consensus 217 ---~~--------~~~~dLVYle~SPdyC~~n~~~G~~GT~GR~Cn~~s~-~~~~C~~LCCgRGy~t~~~~~~~~C~CkF 284 (305)
T smart00097 217 ---KP--------PTETDLVYLESSPDFCEKNPKTGSLGTQGRQCNKTSK-GLDGCDLLCCGRGYNTRTVEVVERCNCKF 284 (305)
T ss_pred ---CC--------CCCCCeEEeCCCCcccccCCCcCCCCCCCCccCCCCC-CCCChhhcCCCCCceeEEEEEEEecCCEE
Confidence 33 7889999999999999999999999999999999999 99999999999999999999999999999
Q ss_pred EeEeEEECcccceEEEEEEec
Q psy9089 161 KWCCTVECETCRVEEWNAVCM 181 (200)
Q Consensus 161 ~WCC~V~C~~C~~~~~~~~Ck 181 (200)
+|||+|+||+|.+++++|+|+
T Consensus 285 ~WCC~V~C~~C~~~~~~~~C~ 305 (305)
T smart00097 285 HWCCYVKCKQCRETVEKHTCK 305 (305)
T ss_pred EEeeEEECccCCcEEEEEEeC
Confidence 999999999999999999996
No 3
>PF00110 wnt: wnt family; InterPro: IPR005817 Wnt proteins constitute a large family of secreted molecules that are involved in intercellular signalling during development. The name derives from the first 2 members of the family to be discovered: int-1 (mouse) and wingless (Drosophila) []. It is now recognised that Wnt signalling controls many cell fate decisions in a variety of different organisms, including mammals []. Wnt signalling has been implicated in tumourigenesis, early mesodermal patterning of the embryo, morphogenesis of the brain and kidneys, regulation of mammary gland proliferation and Alzheimer's disease [, ]. Wnt-mediated signalling is believed to proceed initially through binding to cell surface receptors of the frizzled family; the signal is subsequently transduced through several cytoplasmic components to B-catenin, which enters the nucleus and activates the transcription of several genes important in development []. Several non-canonical Wnt signalling pathways have also been elucidated that act independently of B-catenin. Canonical and noncanonical Wnt signaling branches are highly interconnected, and cross-regulate each other []. Members of the Wnt gene family are defined by their sequence similarity to mouse Wnt-1 and Wingless in Drosophila. They encode proteins of ~350-400 residues in length, with orthologues identified in several, mostly vertebrate, species. Very little is known about the structure of Wnts as they are notoriously insoluble, but they share the following features characteristics of secretory proteins: a signal peptide, several potential N-glycosylation sites and 22 conserved cysteines [] that are probably involved in disulphide bonds. The Wnt proteins seem to adhere to the plasma membrane of the secreting cells and are therefore likely to signal over only few cell diameters. Fifteen major Wnt gene families have been identified in vertebrates, with multiple subtypes within some classes. In humans, 19 Wnt proteins have been identified that share 27% to 83% amino-acid sequence identity and a conserved pattern of 23 or 24 cysteine residues []. Wnt genes are highly conserved between vertebrate species sharing overall sequence identity and gene structure, and are slightly less conserved between vertebrates and invertebrates.; GO: 0005102 receptor binding, 0007275 multicellular organismal development, 0016055 Wnt receptor signaling pathway, 0005576 extracellular region; PDB: 4F0A_B.
Probab=100.00 E-value=1.4e-60 Score=424.54 Aligned_cols=151 Identities=47% Similarity=1.009 Sum_probs=98.9
Q ss_pred CcccceeccccCCcccceecccCCChHHHHHHHHHhhhhcceeeccCCCCCCCccCccccccccccccccCCCCCCCCcc
Q psy9089 1 MVEKCKCHGMSGSCEIRTCWHSAPSFRTVGEALKKKFSHAIRVDQSNMGNGMPLVLPEYTRRYDNTLRKIRPHRGNNDKN 80 (200)
Q Consensus 1 m~~~CKCHGvSGSC~~kTCW~~lp~Fr~IG~~Lk~kY~~A~~V~~~~~~~~~~~~~~~~~r~~~~~~~~~~~~~~~~~~~ 80 (200)
|+.+||||||||||++||||++||+|++||+.||+||++|++|.+.+.+...... ...+.
T Consensus 160 ~~~~CkCHGvSGSC~~ktCw~~l~~f~~Ig~~Lk~kY~~A~~v~~~~~~~~~~~~---------------~~~~~----- 219 (310)
T PF00110_consen 160 MKKKCKCHGVSGSCTVKTCWRSLPPFREIGDYLKEKYDSAVKVKPNNNGNRSKPS---------------PRKNK----- 219 (310)
T ss_dssp -EEEEEE-SGGG-TTSEEEEEE---HHHHHHHHHHHHHT-EE--------------------------------H-----
T ss_pred ccceEccccccCCCcceEEEEcCCcHHHHHHHHHHHhhccccccccccccccccc---------------ccccc-----
Confidence 6789999999999999999999999999999999999999999876654322100 00000
Q ss_pred CcccCCCCCccCCCCCCceEEecCCCCCcccCCCCCCCCCCCcccCCCCCcCCCCccccccCCCceEEEEEEEEeeCcEE
Q psy9089 81 NRMKRGGPRKHLNRMKTELIYYQKSPNYCERDNDVDFPGTAGRYCNRTSAFAVDNCESLCCGRGYNLRREVKNLKCKCKF 160 (200)
Q Consensus 81 ~~~~~~~~~~~~~p~~~dLVYle~SPdyC~~d~~~Gs~GT~GR~Cn~~s~~~~~~C~~LCCGRGy~t~~~~~~~~C~CkF 160 (200)
..++ |+.+||||+|+|||||++|+..||+||+||+||.++. ++++|+.|||||||+|++++++++|||||
T Consensus 220 -~~~~--------~~~~~LvY~~~SPdyC~~d~~~G~~GT~GR~C~~~~~-~~~~C~~LCCGrGy~t~~~~~~~~CnCkF 289 (310)
T PF00110_consen 220 -RFKP--------PTSTDLVYLEKSPDYCEPDPSTGSLGTRGRECNKTSS-GPDSCDNLCCGRGYRTRTEEVEEKCNCKF 289 (310)
T ss_dssp -HHHT--------S-SSS-EE-S----TTSEETTTTEE-STT-EE----T-HHTHHHHHTGT-EEEEEEEEEEEE-S-B-
T ss_pred -ccCC--------CCCceEEEECCCCcceeeccccccCcccccccCCCCC-CCCCCceeEcCCccceEEEEEEeeECCEE
Confidence 0133 7899999999999999999999999999999999999 99999999999999999999999999999
Q ss_pred EeEeEEECcccceEEEEEEec
Q psy9089 161 KWCCTVECETCRVEEWNAVCM 181 (200)
Q Consensus 161 ~WCC~V~C~~C~~~~~~~~Ck 181 (200)
+|||+|+|++|++++++|+||
T Consensus 290 ~WCC~V~C~~C~~~~~~~~Ck 310 (310)
T PF00110_consen 290 HWCCEVKCDTCKKTVTVYTCK 310 (310)
T ss_dssp -SSS--B--EEEEEEEEEEE-
T ss_pred EeeeEEECCcCcEEEEEEEeC
Confidence 999999999999999999996
No 4
>cd09243 BRO1_Brox_like Protein-interacting Bro1-like domain of human Brox1 and related proteins. This family contains the Bro1-like domain of a single-domain protein, human Brox, and related domains. It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Bro1-like domains are boomerang-shaped, and part of the domain is a tetratricopeptide repeat (TPR)-like structure. Bro1-like domains bind components of the ESCRT-III complex: CHMP4 in the case of Brox. Human Brox can bind to human immunodeficiency virus type 1 (
Probab=20.91 E-value=1.1e+02 Score=28.13 Aligned_cols=19 Identities=26% Similarity=0.364 Sum_probs=14.3
Q ss_pred CCCceEEecCCCCCcccCC
Q psy9089 95 MKTELIYYQKSPNYCERDN 113 (200)
Q Consensus 95 ~~~dLVYle~SPdyC~~d~ 113 (200)
.++||||++.-|+--...+
T Consensus 322 KDNdfIYh~~VP~e~p~~e 340 (353)
T cd09243 322 RENGFIYHQKVPDEVPQLE 340 (353)
T ss_pred hhhceeccccCCCCCCccc
Confidence 4789999999997654433
No 5
>PF05907 DUF866: Eukaryotic protein of unknown function (DUF866); InterPro: IPR008584 This family consists of a number of hypothetical eukaryotic proteins of unknown function with an average length of around 165 residues.; PDB: 1ZSO_B.
Probab=15.45 E-value=1.6e+02 Score=24.04 Aligned_cols=22 Identities=27% Similarity=0.623 Sum_probs=14.1
Q ss_pred EEEeEeEEECcccceEEEEEEe
Q psy9089 159 KFKWCCTVECETCRVEEWNAVC 180 (200)
Q Consensus 159 kF~WCC~V~C~~C~~~~~~~~C 180 (200)
.|.|+-.|+|..|.+.....+.
T Consensus 24 ~~~~~fkvkCt~CgE~~~k~V~ 45 (161)
T PF05907_consen 24 DFEWFFKVKCTSCGEVHPKWVY 45 (161)
T ss_dssp T--EEEEEEETTSS--EEEEEE
T ss_pred CCEEEEEEEECCCCCccCcceE
Confidence 3889999999999987654443
No 6
>cd09247 BRO1_Alix_like_2 Protein-interacting Bro1-like domain of an Uncharacterized family of the BRO1_Alix_like superfamily. This domain family is comprised of uncharacterized proteins. It belongs to the BRO1_Alix_like superfamily which includes the Bro1-like domains of mammalian Alix (apoptosis-linked gene-2 interacting protein X), His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20 and Rim23 interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also functions in apoptosis. HD-PTP and Bro1 function in
Probab=13.76 E-value=1.8e+02 Score=26.41 Aligned_cols=14 Identities=36% Similarity=0.847 Sum_probs=11.9
Q ss_pred CCCceEEecCCCCC
Q psy9089 95 MKTELIYYQKSPNY 108 (200)
Q Consensus 95 ~~~dLVYle~SPdy 108 (200)
.++|+||+|+-|+.
T Consensus 314 kdNd~IY~e~VP~~ 327 (346)
T cd09247 314 KENEVIYFEKVPDI 327 (346)
T ss_pred hccCeEEeecCCCc
Confidence 47899999999865
No 7
>PF13085 Fer2_3: 2Fe-2S iron-sulfur cluster binding domain; PDB: 3P4Q_N 1KFY_N 3CIR_N 3P4R_B 2B76_N 1KF6_B 3P4P_N 3P4S_B 1L0V_B 1ZOY_B ....
Probab=12.42 E-value=99 Score=23.81 Aligned_cols=18 Identities=33% Similarity=0.809 Sum_probs=13.7
Q ss_pred ccccCCcccce-------ecccCCC
Q psy9089 8 HGMSGSCEIRT-------CWHSAPS 25 (200)
Q Consensus 8 HGvSGSC~~kT-------CW~~lp~ 25 (200)
||+-|||+|+. |...+.+
T Consensus 54 ~giCGsCam~ING~~~LAC~t~v~~ 78 (110)
T PF13085_consen 54 SGICGSCAMRINGRPRLACKTQVDD 78 (110)
T ss_dssp SSSSSTTEEEETTEEEEGGGSBGGG
T ss_pred CCCCCCCEEEECCceecceeeEchh
Confidence 89999999985 6655544
No 8
>cd01390 HMGB-UBF_HMG-box HMGB-UBF_HMG-box, class II and III members of the HMG-box superfamily of DNA-binding proteins. These proteins bind the minor groove of DNA in a non-sequence specific fashion and contain two or more tandem HMG boxes. Class II members include non-histone chromosomal proteins, HMG1 and HMG2, which bind to bent or distorted DNA such as four-way DNA junctions, synthetic DNA cruciforms, kinked cisplatin-modified DNA, DNA bulges, cross-overs in supercoiled DNA, and can cause looping of linear DNA. Class III members include nucleolar and mitochondrial transcription factors, UBF and mtTF1, which bind four-way DNA junctions.
Probab=11.83 E-value=1.4e+02 Score=19.33 Aligned_cols=21 Identities=14% Similarity=0.488 Sum_probs=10.5
Q ss_pred cccCC-----ChHHHHHHHHHhhhhc
Q psy9089 20 WHSAP-----SFRTVGEALKKKFSHA 40 (200)
Q Consensus 20 W~~lp-----~Fr~IG~~Lk~kY~~A 40 (200)
|+.|+ .|.+.+...+..|..+
T Consensus 39 W~~ls~~eK~~y~~~a~~~~~~y~~e 64 (66)
T cd01390 39 WKELSEEEKKKYEEKAEKDKERYEKE 64 (66)
T ss_pred HHhCCHHHHHHHHHHHHHHHHHHHHh
Confidence 55555 2444555555555443
No 9
>cd09240 BRO1_Alix Protein-interacting, N-terminal, Bro1-like domain of mammalian Alix and related domains. This family contains the N-terminal, Bro1-like domain of mammalian Alix (apoptosis-linked gene-2 interacting protein X), also called apoptosis-linked gene-2 interacting protein 1 (AIP1). It belongs to the BRO1_Alix_like superfamily which also includes the Bro1-like domains of His-Domain type N23 protein tyrosine phosphatase (HD-PTP, also known as PTPN23), RhoA-binding proteins Rhophilin-1 and -2, Brox, Bro1 and Rim20 (also known as PalA) from Saccharomyces cerevisiae, Ustilago maydis Rim23 (also known as PalC), and related domains. Alix, HD-PTP, Brox, Bro1, Rim20, and Rim23, interact with the ESCRT (Endosomal Sorting Complexes Required for Transport) system. Alix participates in membrane remodeling processes during the budding of enveloped viruses, vesicle budding inside late endosomal multivesicular bodies (MVBs), and the abscission reactions of mammalian cell division. It also f
Probab=11.76 E-value=2.2e+02 Score=25.79 Aligned_cols=14 Identities=21% Similarity=0.600 Sum_probs=11.6
Q ss_pred CCCceEEecCCCCC
Q psy9089 95 MKTELIYYQKSPNY 108 (200)
Q Consensus 95 ~~~dLVYle~SPdy 108 (200)
.++|+||+|.-|+.
T Consensus 314 kDNd~IY~e~VP~~ 327 (346)
T cd09240 314 KDNDFIYHDRVPDV 327 (346)
T ss_pred hccCeEeccCCCCc
Confidence 47899999999873
No 10
>PRK09019 translation initiation factor Sui1; Validated
Probab=11.22 E-value=2.9e+02 Score=21.39 Aligned_cols=17 Identities=18% Similarity=0.335 Sum_probs=14.0
Q ss_pred CCceEEecCCCCCcccC
Q psy9089 96 KTELIYYQKSPNYCERD 112 (200)
Q Consensus 96 ~~dLVYle~SPdyC~~d 112 (200)
+..|||..++|++|...
T Consensus 5 ~~~lvyst~~g~~~~~~ 21 (108)
T PRK09019 5 NSRLVYSTDTGRIDEEK 21 (108)
T ss_pred CCCEEEeCCCCccCccc
Confidence 45799999999999554
Done!