Query psy8124
Match_columns 106
No_of_seqs 182 out of 1332
Neff 4.3
Searched_HMMs 46136
Date Fri Aug 16 19:13:03 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy8124.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/8124hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG3659|consensus 99.8 1.1E-21 2.4E-26 170.4 6.8 54 52-105 74-127 (629)
2 KOG3660|consensus 99.8 1E-21 2.2E-26 170.8 1.3 55 51-105 29-83 (629)
3 COG0733 Na+-dependent transpor 99.8 9.2E-21 2E-25 159.8 3.9 51 55-105 4-54 (439)
4 PF00209 SNF: Sodium:neurotran 99.8 5.8E-20 1.3E-24 153.5 -0.6 50 56-105 1-50 (523)
5 KOG4245|consensus 40.4 9.7 0.00021 31.1 0.1 24 72-95 161-187 (297)
6 PF07204 Orthoreo_P10: Orthore 34.3 19 0.0004 25.7 0.7 22 82-105 42-63 (98)
7 PF14815 NUDIX_4: NUDIX domain 22.9 42 0.00091 22.2 0.9 13 76-88 22-34 (114)
8 cd03431 DNA_Glycosylase_C DNA 17.4 57 0.0012 20.8 0.6 10 76-85 27-36 (118)
9 TIGR02230 ATPase_gene1 F0F1-AT 16.9 37 0.0008 23.9 -0.5 21 62-82 75-95 (100)
10 KOG2927|consensus 16.6 1.2E+02 0.0026 26.1 2.5 40 60-101 190-235 (372)
No 1
>KOG3659|consensus
Probab=99.85 E-value=1.1e-21 Score=170.45 Aligned_cols=54 Identities=43% Similarity=1.013 Sum_probs=50.5
Q ss_pred cccccccccchHHHHHHHHHHhcCCCceeecceeeeecCCeeehHHHHHHHHhc
Q psy8124 52 ATENRAEWSNKMQFMLSIIGYSVGLGNIWRFPYLCQQNGGGRCLARLCVYSCLH 105 (106)
Q Consensus 52 ~~~~R~~W~sk~~fiLa~iG~aVGlGNiWRFPyl~~~nGGgaFLIpYli~L~l~ 105 (106)
+.+.|+.|++|++|+||++||+|+|||+|||||+|++||||+|++||+|||++.
T Consensus 74 e~e~R~~W~~K~eflLa~vgfaV~lgnvWrFpYlC~~nGGgaFlvpY~imli~~ 127 (629)
T KOG3659|consen 74 ELEQRPTWGSKTEFLLAVVGFAVDLGNVWRFPYLCYKNGGGAFLVPYTIMLIVG 127 (629)
T ss_pred hhccCCcchhHHHHHHHHHHHhhcccccceeeheeeeCCCEeEhHHHHHHHHHh
Confidence 344599999999999999999999999999999999999999999999999873
No 2
>KOG3660|consensus
Probab=99.83 E-value=1e-21 Score=170.84 Aligned_cols=55 Identities=47% Similarity=0.997 Sum_probs=51.7
Q ss_pred ccccccccccchHHHHHHHHHHhcCCCceeecceeeeecCCeeehHHHHHHHHhc
Q psy8124 51 RATENRAEWSNKMQFMLSIIGYSVGLGNIWRFPYLCQQNGGGRCLARLCVYSCLH 105 (106)
Q Consensus 51 ~~~~~R~~W~sk~~fiLa~iG~aVGlGNiWRFPyl~~~nGGgaFLIpYli~L~l~ 105 (106)
+.+..|++|+||+||+|||+|++||+||+|||||+||+||||||||||+++++++
T Consensus 29 ~~~~~R~~w~~~~efllS~ig~~vGlgNvwRFP~~~y~nGGgaFLIpY~i~l~l~ 83 (629)
T KOG3660|consen 29 DAEPDRGNWKSKIEFLLSCLGYAVGLGNVWRFPYLAYKNGGGAFLIPYLIVLFLF 83 (629)
T ss_pred ccccccccchhHHHHHHHHHHHHhhhhHHHHHHHHHHhcCCchHHHHHHHHHHHh
Confidence 3445799999999999999999999999999999999999999999999999986
No 3
>COG0733 Na+-dependent transporters of the SNF family [General function prediction only]
Probab=99.81 E-value=9.2e-21 Score=159.79 Aligned_cols=51 Identities=45% Similarity=0.984 Sum_probs=49.1
Q ss_pred ccccccchHHHHHHHHHHhcCCCceeecceeeeecCCeeehHHHHHHHHhc
Q psy8124 55 NRAEWSNKMQFMLSIIGYSVGLGNIWRFPYLCQQNGGGRCLARLCVYSCLH 105 (106)
Q Consensus 55 ~R~~W~sk~~fiLa~iG~aVGlGNiWRFPyl~~~nGGgaFLIpYli~L~l~ 105 (106)
+|++|+||++||||++|+||||||+|||||+.++||||||+|||++++++.
T Consensus 4 ~re~w~SrlGFILAa~GsAVGLGNiWrFPy~~~~nGGgAFll~yli~~l~~ 54 (439)
T COG0733 4 KREQWSSRLGFILAAAGSAVGLGNIWRFPYMAGENGGGAFLLPYLIFLLLV 54 (439)
T ss_pred cccchhhHHHHHHHHHHHHhcccccccCCeEeeecCcchHHHHHHHHHHHH
Confidence 699999999999999999999999999999999999999999999999863
No 4
>PF00209 SNF: Sodium:neurotransmitter symporter family; InterPro: IPR000175 Neurotransmitter transport systems are integral to the release, re-uptake and recycling of neurotransmitters at synapses. High affinity transport proteins found in the plasma membrane of presynaptic nerve terminals and glial cells are responsible for the removal from the extracellular space of released-transmitters, thereby terminating their actions []. Plasma membrane neurotransmitter transporters fall into two structurally and mechanistically distinct families. The majority of the transporters constitute an extensive family of homologous proteins that derive energy from the co-transport of Na+ and Cl-, in order to transport neurotransmitter molecules into the cell against their concentration gradient. The family has a common structure of 12 presumed transmembrane helices and includes carriers for gamma-aminobutyric acid (GABA), noradrenaline/adrenaline, dopamine, serotonin, proline, glycine, choline, betaine and taurine. They are structurally distinct from the second more-restricted family of plasma membrane transporters, which are responsible for excitatory amino acid transport. The latter couple glutamate and aspartate uptake to the cotransport of Na+ and the counter-transport of K+, with no apparent dependence on Cl- []. In addition, both of these transporter families are distinct from the vesicular neurotransmitter transporters [, ]. Sequence analysis of the Na+/Cl- neurotransmitter superfamily reveals that it can be divided into four subfamilies, these being transporters for monoamines, the amino acids proline and glycine, GABA, and a group of orphan transporters [].; GO: 0005328 neurotransmitter:sodium symporter activity, 0006836 neurotransmitter transport, 0016021 integral to membrane; PDB: 2QEI_A 3F3C_A 3USP_A 3USK_A 3TU0_A 3GWW_A 3TT3_A 3F4J_A 3USJ_B 3GJC_B ....
Probab=99.76 E-value=5.8e-20 Score=153.51 Aligned_cols=50 Identities=56% Similarity=1.161 Sum_probs=43.8
Q ss_pred cccccchHHHHHHHHHHhcCCCceeecceeeeecCCeeehHHHHHHHHhc
Q psy8124 56 RAEWSNKMQFMLSIIGYSVGLGNIWRFPYLCQQNGGGRCLARLCVYSCLH 105 (106)
Q Consensus 56 R~~W~sk~~fiLa~iG~aVGlGNiWRFPyl~~~nGGgaFLIpYli~L~l~ 105 (106)
|++|+||++|+++++|++||+||+|||||+|++||||+|+|||++++++.
T Consensus 1 R~~w~~~~~~~l~~~g~~vglgn~wrfp~~~~~~gG~~Fli~y~~~~~~~ 50 (523)
T PF00209_consen 1 REKWSSKIGFILACIGYAVGLGNIWRFPYLCYENGGGAFLIPYLLFLLLV 50 (523)
T ss_dssp ----S-HHHHHHHHHHHHSSHHHHTHHHHHHHHTTTHHHHHHHHHHHHHT
T ss_pred CCcccccccccccccccccccccccccccccccccccccccccccccccc
Confidence 89999999999999999999999999999999999999999999999874
No 5
>KOG4245|consensus
Probab=40.45 E-value=9.7 Score=31.10 Aligned_cols=24 Identities=42% Similarity=0.852 Sum_probs=18.0
Q ss_pred HhcCCCcee-eccee--eeecCCeeeh
Q psy8124 72 YSVGLGNIW-RFPYL--CQQNGGGRCL 95 (106)
Q Consensus 72 ~aVGlGNiW-RFPyl--~~~nGGgaFL 95 (106)
+++=+|||. .||.| |+.+|||||-
T Consensus 161 cs~img~i~~~fpklklcfahggga~p 187 (297)
T KOG4245|consen 161 CSMIMGGIFEKFPKLKLCFAHGGGAFP 187 (297)
T ss_pred HHHHHhhHHHhCchheeeeecCCcccc
Confidence 344467776 59975 9999999984
No 6
>PF07204 Orthoreo_P10: Orthoreovirus membrane fusion protein p10; InterPro: IPR009854 This family consists of several Orthoreovirus membrane fusion protein p10 sequences. p10 is thought to be a multifunctional protein that plays a key role in virus-host interaction [].
Probab=34.31 E-value=19 Score=25.67 Aligned_cols=22 Identities=32% Similarity=0.584 Sum_probs=11.4
Q ss_pred cceeeeecCCeeehHHHHHHHHhc
Q psy8124 82 FPYLCQQNGGGRCLARLCVYSCLH 105 (106)
Q Consensus 82 FPyl~~~nGGgaFLIpYli~L~l~ 105 (106)
+|||.. |||--||..+|.|++|
T Consensus 42 WpyLA~--GGG~iLilIii~Lv~C 63 (98)
T PF07204_consen 42 WPYLAA--GGGLILILIIIALVCC 63 (98)
T ss_pred hHHhhc--cchhhhHHHHHHHHHH
Confidence 366653 4444445555555554
No 7
>PF14815 NUDIX_4: NUDIX domain; PDB: 1VRL_A 1RRQ_A 3G0Q_A 3FSQ_A 1RRS_A 3FSP_A.
Probab=22.88 E-value=42 Score=22.20 Aligned_cols=13 Identities=31% Similarity=0.968 Sum_probs=7.1
Q ss_pred CCceeecceeeee
Q psy8124 76 LGNIWRFPYLCQQ 88 (106)
Q Consensus 76 lGNiWRFPyl~~~ 88 (106)
++++|.||.+...
T Consensus 22 l~GLwefP~~e~~ 34 (114)
T PF14815_consen 22 LAGLWEFPLIESD 34 (114)
T ss_dssp TTT-EE--EEE-S
T ss_pred hhcCcccCEeCcc
Confidence 5789999998754
No 8
>cd03431 DNA_Glycosylase_C DNA glycosylase (MutY in bacteria and hMYH in humans) is responsible for repairing misread A*oxoG residues to C*G by removing the inappropriately paired adenine base from the DNA backbone. It belongs to the Nudix hydrolase superfamily and is important for the repair of various genotoxic lesions. Enzymes belonging to this superfamily requires a divalent cation, such as Mg2+ or Mn2+ for their activity. They are also recognized by a highly conserved 23-residue nudix motif (GX5EX7REUXEEXGU, where U = I, L or V). However, DNA glycosylase does not seem to contain this signature motif. DNA glycosylase consists of 2 domains: the N-terminal domain contains the catalytic properties of the enzyme and the C-terminal domain affects substrate (oxoG) binding and enzymatic turnover. The C-terminal domain is highly similar to MutT, based on secondary structure and topology, despite low sequence identity. MutT sanitizes the nucleotide precursor pool by hydrolyzing oxo-dGTP to
Probab=17.36 E-value=57 Score=20.80 Aligned_cols=10 Identities=40% Similarity=1.225 Sum_probs=7.9
Q ss_pred CCceeeccee
Q psy8124 76 LGNIWRFPYL 85 (106)
Q Consensus 76 lGNiWRFPyl 85 (106)
++++|.||-.
T Consensus 27 ~~glwefP~~ 36 (118)
T cd03431 27 LAGLWEFPSV 36 (118)
T ss_pred CCcceeCCCc
Confidence 5789999964
No 9
>TIGR02230 ATPase_gene1 F0F1-ATPase subunit, putative. This model represents a protein found encoded in F1F0-ATPase operons in several genomes, including Methanosarcina barkeri (archaeal) and Chlorobium tepidum (bacterial). It is a small protein (about 100 amino acids) with long hydrophic stretches and is presumed to be a subunit of the enzyme.
Probab=16.87 E-value=37 Score=23.90 Aligned_cols=21 Identities=24% Similarity=0.604 Sum_probs=14.2
Q ss_pred hHHHHHHHHHHhcCCCceeec
Q psy8124 62 KMQFMLSIIGYSVGLGNIWRF 82 (106)
Q Consensus 62 k~~fiLa~iG~aVGlGNiWRF 82 (106)
.+..++..+|-++|.-|+|++
T Consensus 75 ~~tl~~lllGv~~G~~n~w~w 95 (100)
T TIGR02230 75 SWTLTMLIVGVVIGCLNAWHW 95 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHH
Confidence 345666677777777777754
No 10
>KOG2927|consensus
Probab=16.64 E-value=1.2e+02 Score=26.12 Aligned_cols=40 Identities=23% Similarity=0.400 Sum_probs=24.1
Q ss_pred cchHHHHHHHHHHhcCCCceee------cceeeeecCCeeehHHHHHH
Q psy8124 60 SNKMQFMLSIIGYSVGLGNIWR------FPYLCQQNGGGRCLARLCVY 101 (106)
Q Consensus 60 ~sk~~fiLa~iG~aVGlGNiWR------FPyl~~~nGGgaFLIpYli~ 101 (106)
.--+.+++..+-.++-|--+|- -=|+|. |||.|+.-.|++
T Consensus 190 ~~vl~~~fvl~tlaivLFPLWP~~mR~gvyY~si--g~~gfl~~IlvL 235 (372)
T KOG2927|consen 190 WQVLGVLFVLVTLAIVLFPLWPRRMRQGVYYLSI--GAGGFLAFILVL 235 (372)
T ss_pred HHHHHHHHHHHHHHHHhcccCcHHHhcceeeeec--chhHHHHHHHHH
Confidence 3445666677778888888882 125555 666565544433
Done!