Query 033922
Match_columns 108
No_of_seqs 50 out of 52
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 07:49:20 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/033922.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/033922hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07491 PPI_Ypi1: Protein pho 94.2 0.021 4.6E-07 37.3 1.0 20 48-67 13-32 (60)
2 PF03818 MadM: Malonate/sodium 67.9 3.8 8.2E-05 26.9 1.6 25 6-30 10-34 (60)
3 PF01102 Glycophorin_A: Glycop 59.7 9 0.00019 27.9 2.5 24 6-29 68-91 (122)
4 PF02038 ATP1G1_PLM_MAT8: ATP1 53.9 12 0.00025 23.8 2.0 19 6-24 18-36 (50)
5 PF15281 Consortin_C: Consorti 53.7 6 0.00013 28.9 0.7 19 45-63 26-46 (113)
6 KOG4102 Uncharacterized conser 53.0 6.3 0.00014 29.1 0.8 19 49-67 40-58 (121)
7 PF02960 K1: K1 glycoprotein; 45.0 17 0.00037 27.0 1.9 23 7-29 71-99 (130)
8 PF03494 Beta-APP: Beta-amyloi 40.5 17 0.00037 21.9 1.2 17 49-65 10-26 (39)
9 PF15276 PP1_bind: Protein pho 36.4 15 0.00034 24.3 0.6 12 49-60 1-12 (64)
10 COG3645 Uncharacterized phage- 36.2 8.7 0.00019 28.8 -0.7 16 50-65 31-46 (135)
11 COG5485 Predicted ester cyclas 30.0 20 0.00044 26.8 0.4 19 49-67 94-112 (131)
12 PF10361 DUF2434: Protein of u 20.7 90 0.002 26.2 2.5 30 3-32 47-76 (296)
No 1
>PF07491 PPI_Ypi1: Protein phosphatase inhibitor ; InterPro: IPR011107 These proteins include Ypi1, a novel Saccharomyces cerevisiae type 1 protein phosphatase inhibitor [] and ppp1r11/hcgv (O60927 from SWISSPROT), annotated as having protein phosphatase inhibitor activity [].
Probab=94.22 E-value=0.021 Score=37.34 Aligned_cols=20 Identities=25% Similarity=0.508 Sum_probs=17.4
Q ss_pred cccccceeecccccCCCCCc
Q 033922 48 YHEKKRVRFADDVVEPSGNN 67 (108)
Q Consensus 48 ~~~KKRVRFAeDVve~~~~~ 67 (108)
.+.+++|+|++|||||++-|
T Consensus 13 ~~~~~~V~W~edvVDNE~mg 32 (60)
T PF07491_consen 13 PKSRRRVQWSEDVVDNEHMG 32 (60)
T ss_pred cCCCCceeecCCceeccccc
Confidence 46799999999999998754
No 2
>PF03818 MadM: Malonate/sodium symporter MadM subunit; InterPro: IPR018402 The MSS family includes the monobasic malonate:Na+ symporter of Malonomonas rubra. It consists of two integral membrane proteins, MadL and MadM.The transporter is believed to catalyze the electroneutral reversible uptake of H+-malonate with one Na+, and both subunits have been shown to be essential for activity.
Probab=67.87 E-value=3.8 Score=26.91 Aligned_cols=25 Identities=32% Similarity=0.541 Sum_probs=21.9
Q ss_pred hHHHHHHHHhhhhhhhhhhhhhhcc
Q 033922 6 GMGFMAVFAVSGSVVLVASQVHKRL 30 (108)
Q Consensus 6 glg~~tamAvSgsvvlla~~~~k~l 30 (108)
.-||.||||+-|-+.++|+...|+|
T Consensus 10 ~ngLitaFa~vG~~m~~S~~lS~~L 34 (60)
T PF03818_consen 10 KNGLITAFAVVGIIMWVSYWLSKKL 34 (60)
T ss_pred hCchHHHHHHHHHHHHHHHHHHHHH
Confidence 3479999999999999999988776
No 3
>PF01102 Glycophorin_A: Glycophorin A; InterPro: IPR001195 Proteins in this group are responsible for the molecular basis of the blood group antigens, surface markers on the outside of the red blood cell membrane. Most of these markers are proteins, but some are carbohydrates attached to lipids or proteins [Reid M.E., Lomas-Francis C. The Blood Group Antigen FactsBook Academic Press, London / San Diego, (1997)]. Glycophorin A (PAS-2) and glycophorin B (PAS-3) belong to the MNS blood group system and are associated with antigens that include M/N, S/s, U, He, Mi(a), M(c), Vw, Mur, M(g), Vr, M(e), Mt(a), St(a), Ri(a), Cl(a), Ny(a), Hut, Hil, M(v), Far, Mit, Dantu, Hop, Nob, En(a), ENKT, amongst others. Glycophorin A is the major sialoglycoprotein of the erythrocyte membrane []. Structurally, glycophorin A consists of an N-terminal extracellular domain, heavily glycosylated on serine and threonine residues, followed by a transmembrane region and a C-terminal cytoplasmic domain. Other glycophorins in this entry such as Glycophorin B and Glycophorin E represent minor sialoglycoproteins in the erythrocyte membrane.; GO: 0016021 integral to membrane; PDB: 2KPF_B 1AFO_B 2KPE_A.
Probab=59.72 E-value=9 Score=27.93 Aligned_cols=24 Identities=21% Similarity=0.382 Sum_probs=18.4
Q ss_pred hHHHHHHHHhhhhhhhhhhhhhhc
Q 033922 6 GMGFMAVFAVSGSVVLVASQVHKR 29 (108)
Q Consensus 6 glg~~tamAvSgsvvlla~~~~k~ 29 (108)
|+.|..++.|-|.++||+||..++
T Consensus 68 ~Ii~gv~aGvIg~Illi~y~irR~ 91 (122)
T PF01102_consen 68 GIIFGVMAGVIGIILLISYCIRRL 91 (122)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred ehhHHHHHHHHHHHHHHHHHHHHH
Confidence 566777777888899888887654
No 4
>PF02038 ATP1G1_PLM_MAT8: ATP1G1/PLM/MAT8 family; InterPro: IPR000272 The FXYD protein family contains at least seven members in mammals []. Two other family members that are not obvious orthologs of any identified mammalian FXYD protein exist in zebrafish. All these proteins share a signature sequence of six conserved amino acids comprising the FXYD motif in the NH2-terminus, and two glycines and one serine residue in the transmembrane domain. FXYD proteins are widely distributed in mammalian tissues with prominent expression in tissues that perform fluid and solute transport or that are electrically excitable. Initial functional characterisation suggested that FXYD proteins act as channels or as modulators of ion channels however studies have revealed that most FXYD proteins have another specific function and act as tissue-specific regulatory subunits of the Na,K-ATPase. Each of these auxiliary subunits produces a distinct functional effect on the transport characteristics of the Na,K-ATPase that is adjusted to the specific functional demands of the tissue in which the FXYD protein is expressed. FXYD proteins appear to preferentially associate with Na,K-ATPase alpha1-beta isozymes, and affect their function in a way that render them operationally complementary or supplementary to coexisting isozymes.; GO: 0005216 ion channel activity, 0006811 ion transport, 0016020 membrane; PDB: 2JO1_A 2JP3_A 2ZXE_G 3A3Y_G 3N23_E 3B8E_H 3KDP_G 3N2F_E.
Probab=53.94 E-value=12 Score=23.75 Aligned_cols=19 Identities=21% Similarity=0.555 Sum_probs=16.2
Q ss_pred hHHHHHHHHhhhhhhhhhh
Q 033922 6 GMGFMAVFAVSGSVVLVAS 24 (108)
Q Consensus 6 glg~~tamAvSgsvvlla~ 24 (108)
||.+++++-+.|-+|+++-
T Consensus 18 GLi~A~vlfi~Gi~iils~ 36 (50)
T PF02038_consen 18 GLIFAGVLFILGILIILSG 36 (50)
T ss_dssp HHHHHHHHHHHHHHHHCTT
T ss_pred chHHHHHHHHHHHHHHHcC
Confidence 7889999999998888874
No 5
>PF15281 Consortin_C: Consortin C-terminus
Probab=53.72 E-value=6 Score=28.87 Aligned_cols=19 Identities=37% Similarity=0.693 Sum_probs=14.5
Q ss_pred ccccccccceeecc--cccCC
Q 033922 45 PEKYHEKKRVRFAD--DVVEP 63 (108)
Q Consensus 45 sek~~~KKRVRFAe--DVve~ 63 (108)
++|++.|+||||-| |.+|.
T Consensus 26 ~~~~~sKRrVRF~eped~~dq 46 (113)
T PF15281_consen 26 SQKKPSKRRVRFQEPEDTLDQ 46 (113)
T ss_pred cccccccceeeeeCccccccc
Confidence 45678999999986 66653
No 6
>KOG4102 consensus Uncharacterized conserved protein [Function unknown]
Probab=53.04 E-value=6.3 Score=29.07 Aligned_cols=19 Identities=26% Similarity=0.487 Sum_probs=15.3
Q ss_pred ccccceeecccccCCCCCc
Q 033922 49 HEKKRVRFADDVVEPSGNN 67 (108)
Q Consensus 49 ~~KKRVRFAeDVve~~~~~ 67 (108)
...++|+|+++|||++.=|
T Consensus 40 ~~~r~V~W~~~vVDNEhMg 58 (121)
T KOG4102|consen 40 PPERRVRWTEGVVDNEHMG 58 (121)
T ss_pred CCCCceeeecccccccccc
Confidence 3455899999999988754
No 7
>PF02960 K1: K1 glycoprotein; InterPro: IPR004121 Current genotyping systems for Human herpesvirus 8 (HHV-8) are based on the highly variable gene encoding the K1 glycoprotein []. This entry represents the C-terminal region of the K1 glycoprotein.
Probab=44.98 E-value=17 Score=26.97 Aligned_cols=23 Identities=26% Similarity=0.530 Sum_probs=18.5
Q ss_pred HHHHHHHHhhhhh------hhhhhhhhhc
Q 033922 7 MGFMAVFAVSGSV------VLVASQVHKR 29 (108)
Q Consensus 7 lg~~tamAvSgsv------vlla~~~~k~ 29 (108)
|+|||..|+=||+ |+|++|...+
T Consensus 71 LvfmTlVaLIgTMCgILgTiIfahcqkq~ 99 (130)
T PF02960_consen 71 LVFMTLVALIGTMCGILGTIIFAHCQKQR 99 (130)
T ss_pred eHHHHHHHHHHHHHHHHHHHHHHHhcccc
Confidence 6799999999886 6788887655
No 8
>PF03494 Beta-APP: Beta-amyloid peptide (beta-APP); InterPro: IPR013803 Amyloid-beta precursor protein (APP, or A4) is associated with Alzheimer's disease (AD), because one of its breakdown products, amyloid-beta (A-beta), aggregates to form amyloid or senile plaques [, ]. Mutations in APP or in proteins that process APP have been linked with early-onset, familial AD. Individuals with Down's syndrome carry an extra copy of chromosome 21, which contains the APP gene, and almost invariably develop amyloid plaques and Alzheimer's symptoms. APP is important for the neurogenesis and neuronal regeneration, either through the intact protein, or through its many breakdown products []. APP consists of a large N-terminal extracellular region containing heparin-binding and copper-binding sites, a short hydrophobic transmembrane domain, and a short C-terminal intracellular domain. The N-terminal region is similar in structure to cysteine-rich growth factors and appears to function as a cell surface receptor, contributing to neurite growth, neuronal adhesion, axonogenesis and cell mobility []. APP acts as a kinesin I membrane receptor to mediate the axonal transport of beta-secretase and presenilin 1. The N-terminal domain can regulate neurite outgrowth through its binding to heparin and collagen I and IV, which are components of the extracellular matrix. APP is also coupled to apoptosis-inducing pathways, and is involved in copper homeostasis/oxidative stress through copper ion reduction, where copper-metallated APP induces neuronal death []. The C-terminal intracellular domain appears to be involved in transcription regulation through protein-protein interactions. APP can promote transcription activation through binding to APBB1/Tip60, and may bind to the adaptor protein FE65 to transactivate a wide variety of different promoters. APP can be processed by different sets of enzymes: In the non-amyloidogenic (non-plaque-forming) pathway, APP is cleaved by alpha-secretase to yield a soluble N-terminal sAPP-alpha (neuroprotective) and a membrane-bound CTF-alpha. CTF-alpha is broken-down by presenilin-containing gamma-secretase to yield soluble p3 and membrane-bound AICD (nuclear signalling). In the amyloidogenic pathway (plaque-forming), APP is broken down by beta-secretase to yield soluble sAPP-beta and membrane-bound CTF-beta. CTF-beta is broken down by gamma-secretase to yield soluble amyloid-beta and membrane-bound AICD. Amyloid-beta is required for neuronal function, but can aggregate to form amyloid plaques that seem to disrupt brain cells by clogging points of cell-cell contact. This entry represents the amyloid-beta peptide (A-beta), which originates as a breakdown product from the cleavage of amyloid-beta precursor protein (APP, or A4), an integral, glycosylated membrane brain protein. More information about these protein can be found at Protein of the Month: Amyloid-beta Precursor Protein [].; GO: 0005488 binding, 0016021 integral to membrane; PDB: 2LMQ_F 3JTI_B 2LMO_B 3MOQ_D 2LNQ_E 2LMP_G 2BEG_B 1AMC_A 3OW9_B 3U0T_F ....
Probab=40.52 E-value=17 Score=21.87 Aligned_cols=17 Identities=41% Similarity=0.403 Sum_probs=13.7
Q ss_pred ccccceeecccccCCCC
Q 033922 49 HEKKRVRFADDVVEPSG 65 (108)
Q Consensus 49 ~~KKRVRFAeDVve~~~ 65 (108)
.-||.|-|||||-.+.|
T Consensus 10 ~~~klvf~aEDvgSNKG 26 (39)
T PF03494_consen 10 YHKKLVFLAEDVGSNKG 26 (39)
T ss_dssp CCCCCCCCCCCCSSSSS
T ss_pred EeeEEEEEhhHcCCCCc
Confidence 35889999999977665
No 9
>PF15276 PP1_bind: Protein phosphatase 1 binding
Probab=36.36 E-value=15 Score=24.31 Aligned_cols=12 Identities=33% Similarity=0.778 Sum_probs=10.3
Q ss_pred ccccceeecccc
Q 033922 49 HEKKRVRFADDV 60 (108)
Q Consensus 49 ~~KKRVRFAeDV 60 (108)
++||||.|-+|.
T Consensus 1 ~KrkRVsFG~~L 12 (64)
T PF15276_consen 1 RKRKRVSFGEHL 12 (64)
T ss_pred CCcceeccCCCC
Confidence 478999999977
No 10
>COG3645 Uncharacterized phage-encoded protein [Function unknown]
Probab=36.18 E-value=8.7 Score=28.76 Aligned_cols=16 Identities=56% Similarity=0.808 Sum_probs=13.8
Q ss_pred cccceeecccccCCCC
Q 033922 50 EKKRVRFADDVVEPSG 65 (108)
Q Consensus 50 ~KKRVRFAeDVve~~~ 65 (108)
.+=||-|||||+|.+|
T Consensus 31 ~~PKv~f~D~v~~~~g 46 (135)
T COG3645 31 AAPKVEFADAVVEASG 46 (135)
T ss_pred hCcchHHHHHHhcCcc
Confidence 4557999999999888
No 11
>COG5485 Predicted ester cyclase [General function prediction only]
Probab=29.99 E-value=20 Score=26.75 Aligned_cols=19 Identities=37% Similarity=0.503 Sum_probs=14.6
Q ss_pred ccccceeecccccCCCCCc
Q 033922 49 HEKKRVRFADDVVEPSGNN 67 (108)
Q Consensus 49 ~~KKRVRFAeDVve~~~~~ 67 (108)
-+-|||+|+++|...=.|+
T Consensus 94 ~nGkrV~Fse~vfy~f~~~ 112 (131)
T COG5485 94 PNGKRVRFSENVFYEFENG 112 (131)
T ss_pred CCCcEEEeehhhhhhhcCC
Confidence 3789999999997655544
No 12
>PF10361 DUF2434: Protein of unknown function (DUF2434); InterPro: IPR018830 This entry represents a family of proteins conserved in fungi. Their function is not known.
Probab=20.68 E-value=90 Score=26.20 Aligned_cols=30 Identities=33% Similarity=0.538 Sum_probs=25.9
Q ss_pred cchhHHHHHHHHhhhhhhhhhhhhhhcccc
Q 033922 3 ASMGMGFMAVFAVSGSVVLVASQVHKRLLS 32 (108)
Q Consensus 3 ~s~glg~~tamAvSgsvvlla~~~~k~l~s 32 (108)
++.|++|+..++++--+.|+.+.+|-+..-
T Consensus 47 g~vGI~fav~f~i~lvltLvnL~KHG~~~l 76 (296)
T PF10361_consen 47 GSVGIAFAVLFAIALVLTLVNLRKHGRLYL 76 (296)
T ss_pred chhHHHHHHHHHHHHHHHHHHHHHhhhhcC
Confidence 688999999999999999999999977633
Done!