Query psy17077
Match_columns 83
No_of_seqs 110 out of 807
Neff 6.1
Searched_HMMs 46136
Date Fri Aug 16 21:17:00 2013
Command hhsearch -i /work/01045/syshi/Psyhhblits/psy17077.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/17077hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 TIGR03520 GldE gliding motilit 99.4 6.6E-13 1.4E-17 101.5 8.8 59 12-70 89-147 (408)
2 PF01595 DUF21: Domain of unkn 99.4 2.2E-12 4.8E-17 87.1 9.2 64 9-72 87-150 (183)
3 PRK11573 hypothetical protein; 99.4 1.2E-12 2.7E-17 100.3 8.5 63 11-73 80-145 (413)
4 COG4536 CorB Putative Mg2+ and 99.4 3.2E-12 6.9E-17 98.1 7.9 70 4-73 82-156 (423)
5 COG1253 TlyC Hemolysins and re 99.1 1.4E-10 3.1E-15 89.0 6.5 60 14-73 101-160 (429)
6 KOG2118|consensus 98.6 3.2E-09 6.9E-14 83.6 -2.9 70 7-78 97-166 (498)
7 PF03563 Bunya_G2: Bunyavirus 76.9 15 0.00033 27.7 6.7 44 15-72 193-236 (285)
8 TIGR00811 sit silicon transpor 39.4 2.2E+02 0.0047 23.5 7.5 55 23-79 370-432 (545)
9 COG3548 Predicted integral mem 37.1 97 0.0021 22.2 4.8 47 3-53 14-63 (197)
10 KOG2881|consensus 35.0 1E+02 0.0022 23.4 4.8 36 4-39 99-134 (294)
11 PF02932 Neur_chan_memb: Neuro 31.8 73 0.0016 20.0 3.2 19 13-31 33-51 (237)
12 PF11742 DUF3302: Protein of u 22.5 2E+02 0.0043 17.7 6.5 42 23-64 21-65 (78)
13 COG3197 FixS Uncharacterized p 20.5 1.1E+02 0.0024 17.9 2.2 25 53-77 5-31 (58)
14 PF02313 Fumarate_red_D: Fumar 20.0 2.8E+02 0.006 18.4 4.3 27 7-33 17-44 (118)
No 1
>TIGR03520 GldE gliding motility-associated protein GldE. Members of this protein family are exclusive to the Bacteroidetes phylum (previously Cytophaga-Flavobacteria-Bacteroides). GldC is a protein linked to a type of rapid surface gliding motility found in certain Bacteroidetes, such as Flavobacterium johnsoniae and Cytophaga hutchinsonii. GldE was discovered because of its adjacency to GldD in F. johnsonii. Overexpression of GldE partially supresses the effects of a GldB point mutant suggesting that GldB and GldE interact. Gliding motility appears closely linked to chitin utilization in the model species Flavobacterium johnsoniae. Not all Bacteroidetes with members of this protein family appear to have all of the genes associated with gliding motility and in fact some do not appear to express the gliding phenotype.
Probab=99.43 E-value=6.6e-13 Score=101.54 Aligned_cols=59 Identities=24% Similarity=0.421 Sum_probs=53.7
Q ss_pred HHHHHHHHHHHHHHhhhhHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhHHHh
Q psy17077 12 VAVIGTTITLVIIGEILPQSIGSRYGLAIGAHTIYLTRLAMLITFPLSYPMGKALDFSL 70 (83)
Q Consensus 12 ~a~~i~T~lIlifGEIiPK~ia~~~~~~ia~~~a~~v~~~~~il~Pl~~~l~~i~~~~~ 70 (83)
++++++|+++++|||++||++|.+||+++|..+++++++++++++|++|+++++.+.+.
T Consensus 89 ~~~~~~t~l~lvfgEiiPK~la~~~~~~ia~~~a~~l~~~~~l~~P~~~~l~~~~~~i~ 147 (408)
T TIGR03520 89 IEVVIVTFLILLFGEILPKVYANRNNLKFAKFMAYPINILDKVFSPISLPLRAITNFIH 147 (408)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 45667899999999999999999999999999999999999999999999999765443
No 2
>PF01595 DUF21: Domain of unknown function DUF21; InterPro: IPR002550 This transmembrane region has no known function. Many of the sequences in this family are annotated as hemolysins, however this is due to a similarity to Q54318 from SWISSPROT that does not contain this domain. This domain is found in the N terminus of the proteins adjacent to two intracellular CBS domains (IPR000644 from INTERPRO).
Probab=99.41 E-value=2.2e-12 Score=87.12 Aligned_cols=64 Identities=27% Similarity=0.376 Sum_probs=58.1
Q ss_pred hhHHHHHHHHHHHHHHHhhhhHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhHHHhcc
Q psy17077 9 KGLVAVIGTTITLVIIGEILPQSIGSRYGLAIGAHTIYLTRLAMLITFPLSYPMGKALDFSLIK 72 (83)
Q Consensus 9 ~~~~a~~i~T~lIlifGEIiPK~ia~~~~~~ia~~~a~~v~~~~~il~Pl~~~l~~i~~~~~g~ 72 (83)
+.+++.+++++++++|||++||.+|.+||++++.+.++++++++.+++|+++++.++.+.+.+.
T Consensus 87 ~~~~~~~~~~~l~lif~e~lPk~l~~~~~~~~~~~~a~~l~~~~~l~~P~~~~l~~i~~~~~~~ 150 (183)
T PF01595_consen 87 ALLIAFLIITLLILIFGEILPKALARRHPEKIALRLAPLLRVLMILLYPLVWLLSFISNKILKL 150 (183)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4567777889999999999999999999999999999999999999999999999987766554
No 3
>PRK11573 hypothetical protein; Provisional
Probab=99.40 E-value=1.2e-12 Score=100.34 Aligned_cols=63 Identities=16% Similarity=0.250 Sum_probs=55.7
Q ss_pred HHHHHHHHHHHHHHHhhhhHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhH---HHhccC
Q psy17077 11 LVAVIGTTITLVIIGEILPQSIGSRYGLAIGAHTIYLTRLAMLITFPLSYPMGKALD---FSLIKG 73 (83)
Q Consensus 11 ~~a~~i~T~lIlifGEIiPK~ia~~~~~~ia~~~a~~v~~~~~il~Pl~~~l~~i~~---~~~g~~ 73 (83)
.++++++|+++++|||++||++|.+||+++|...+++++++.++++|++|+++++.+ +++|.+
T Consensus 80 ~ia~~i~t~l~lvfGEiiPK~la~~~~~~~a~~~a~~l~~~~~l~~P~v~~l~~~~~~l~~l~g~~ 145 (413)
T PRK11573 80 AIATGVLTFVVLVFAEVLPKTIAALYPEKVAYPSSFLLAPLQILMMPLVWLLNTITRLLMRLMGIK 145 (413)
T ss_pred HHHHHHHHHHHHhhhhHhHHHHHHHCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 456777899999999999999999999999999999999999999999999988644 445543
No 4
>COG4536 CorB Putative Mg2+ and Co2+ transporter CorB [Inorganic ion transport and metabolism]
Probab=99.35 E-value=3.2e-12 Score=98.13 Aligned_cols=70 Identities=14% Similarity=0.205 Sum_probs=61.0
Q ss_pred hhhhhhhH--HHHHHHHHHHHHHHhhhhHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhH---HHhccC
Q psy17077 4 LIINTKGL--VAVIGTTITLVIIGEILPQSIGSRYGLAIGAHTIYLTRLAMLITFPLSYPMGKALD---FSLIKG 73 (83)
Q Consensus 4 ~~i~g~~~--~a~~i~T~lIlifGEIiPK~ia~~~~~~ia~~~a~~v~~~~~il~Pl~~~l~~i~~---~~~g~~ 73 (83)
+..||+.- +|+.++|+++++|+|++||++|+.|||++|..+++++..+..+++|++|.++++++ +++|.+
T Consensus 82 irl~Gd~GvaIAt~~mT~vilvFaEVlPKt~Aa~~perva~~~s~~l~~l~~l~~Plv~lln~it~~llrl~gi~ 156 (423)
T COG4536 82 IRLYGDAGVAIATGVLTFVILVFAEVLPKTIAALYPERVALPSSFILAILVRLFGPLVWLLNAITRRLLRLLGIN 156 (423)
T ss_pred HHHhccchHHHHHHHHHHHHHHHHHhcchHHhhhChhhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHhCcC
Confidence 34577554 88888999999999999999999999999999999999999999999999999855 445543
No 5
>COG1253 TlyC Hemolysins and related proteins containing CBS domains [General function prediction only]
Probab=99.12 E-value=1.4e-10 Score=89.00 Aligned_cols=60 Identities=20% Similarity=0.214 Sum_probs=55.1
Q ss_pred HHHHHHHHHHHHhhhhHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhHHHhccC
Q psy17077 14 VIGTTITLVIIGEILPQSIGSRYGLAIGAHTIYLTRLAMLITFPLSYPMGKALDFSLIKG 73 (83)
Q Consensus 14 ~~i~T~lIlifGEIiPK~ia~~~~~~ia~~~a~~v~~~~~il~Pl~~~l~~i~~~~~g~~ 73 (83)
++++|.+.++|||++||++|.+||+++|.+.++++++++++++|++|+++.+.+.+++..
T Consensus 101 ~~~~t~l~~i~gEl~PK~~a~~~~e~va~~~a~~~~~~~~l~~P~i~~~~~~a~~il~l~ 160 (429)
T COG1253 101 FAIITFLHVVFGELVPKSIAIRNPEKVALLIAPPLRFFYRLLYPLIWLLNRIANAILRLF 160 (429)
T ss_pred HHHHHhhhheeechhhhHHHHhCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHc
Confidence 567899999999999999999999999999999999999999999999999877666543
No 6
>KOG2118|consensus
Probab=98.57 E-value=3.2e-09 Score=83.65 Aligned_cols=70 Identities=31% Similarity=0.539 Sum_probs=63.9
Q ss_pred hhhhHHHHHHHHHHHHHHHhhhhHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhHHHhccCCCcee
Q psy17077 7 NTKGLVAVIGTTITLVIIGEILPQSIGSRYGLAIGAHTIYLTRLAMLITFPLSYPMGKALDFSLIKGTTSMR 78 (83)
Q Consensus 7 ~g~~~~a~~i~T~lIlifGEIiPK~ia~~~~~~ia~~~a~~v~~~~~il~Pl~~~l~~i~~~~~g~~~~~~~ 78 (83)
.++ |.++.+++..++.||||+||.+|.+|+..++..+.+++++++++++|+.|++++. +...|.+.+++.
T Consensus 97 ~~~-~~a~~is~~~i~~~geIipq~vc~~~gl~vga~~~~~~~i~~~l~~PI~~p~~~~-d~~lg~~~~~~~ 166 (498)
T KOG2118|consen 97 SGE-SGALRISVTEILIFGEIIPQSVCVKYGLAVGANLVPLVRILSFLCLPIAYPFSKL-DTALGLNLGEFL 166 (498)
T ss_pred ccc-cceEecceeeeeecccccchHHHhhhcccccccceehHHHHHHHhhhhheehhhh-hhhhccccccch
Confidence 344 7889999999999999999999999999999999999999999999999999988 888888777654
No 7
>PF03563 Bunya_G2: Bunyavirus glycoprotein G2; InterPro: IPR005168 Bunyavirus has three genomic segments: small (S), middle-sized (M), and large (L). The S segment encodes the nucleocapsid and a non-structural protein. The M segment codes for two glycoproteins, G1 and G2, and another non-structural protein (NSm). The L segment codes for an RNA polymerase. This entry represents the polyprotein region forming the G2 glycoprotein, which interacts with the IPR005167 from INTERPRO G1 glycoprotein [].
Probab=76.93 E-value=15 Score=27.71 Aligned_cols=44 Identities=27% Similarity=0.382 Sum_probs=32.1
Q ss_pred HHHHHHHHHHHhhhhHHHHHHhHHHHHHhHHHHHHHHHHHHHHHHHHHHHHhHHHhcc
Q psy17077 15 IGTTITLVIIGEILPQSIGSRYGLAIGAHTIYLTRLAMLITFPLSYPMGKALDFSLIK 72 (83)
Q Consensus 15 ~i~T~lIlifGEIiPK~ia~~~~~~ia~~~a~~v~~~~~il~Pl~~~l~~i~~~~~g~ 72 (83)
...++++.++.-|+-|+ +..++++-+|+|++|.-+++-++..++
T Consensus 193 ~~~~~~~~i~~~Iltkt--------------Yi~YlliPiF~P~~~~Yg~~ynk~ck~ 236 (285)
T PF03563_consen 193 TCLTLIIFIFLIILTKT--------------YICYLLIPIFYPIAYLYGWLYNKSCKK 236 (285)
T ss_pred HHHHHHHHHHHHHHHHH--------------HHHHHHHHHHHHHHHHHHHHHHHHhhh
Confidence 33455566666666665 567788889999999999998887654
No 8
>TIGR00811 sit silicon transporter. Marine diatoms such as Cylindrotheca fusiformis encode at least six silicon transport protein homologues which exhibit similar size and topology. One characterized member of the family (Sit1) functions in the energy-dependent uptake of either Silicic acid [Si(OH)4] or Silicate [Si(OH)3O-] by a Na+ symport mechanism. The system is found in marine diatoms which make their "glass houses" out of silicon.
Probab=39.42 E-value=2.2e+02 Score=23.47 Aligned_cols=55 Identities=13% Similarity=0.079 Sum_probs=37.7
Q ss_pred HHHhhhhHHHHHHhHHHHHHhHHHHHHHHHHHH--------HHHHHHHHHHhHHHhccCCCceec
Q psy17077 23 IIGEILPQSIGSRYGLAIGAHTIYLTRLAMLIT--------FPLSYPMGKALDFSLIKGTTSMRL 79 (83)
Q Consensus 23 ifGEIiPK~ia~~~~~~ia~~~a~~v~~~~~il--------~Pl~~~l~~i~~~~~g~~~~~~~~ 79 (83)
+.|.+..|.-|+..|..+-.. |+.+++.++- .-=+|+++.+..++.|++...+|+
T Consensus 370 IlasitwQ~aASafpiaFlNN--p~ty~lL~~aL~LE~TGlchgawvi~~i~k~vaG~q~devyv 432 (545)
T TIGR00811 370 ILASIAWQLVASAFPIAFLSN--PIVYIVLRIVLLIEATGICAGAWFLGMIHKKVAGFQLDEVYV 432 (545)
T ss_pred HHHHHHHHHHHHhCcHHHhcC--HHHHHHHHHHHHHHHhhhhHHHHHHHHHHHHHhCCCcceeEe
Confidence 689999999999998764422 3333333321 122799999999999987776665
No 9
>COG3548 Predicted integral membrane protein [Function unknown]
Probab=37.06 E-value=97 Score=22.15 Aligned_cols=47 Identities=26% Similarity=0.364 Sum_probs=26.4
Q ss_pred hhhhhhhhHHHHHHHHHHHHHHHhh-hhHHHH--HHhHHHHHHhHHHHHHHHHH
Q psy17077 3 LLIINTKGLVAVIGTTITLVIIGEI-LPQSIG--SRYGLAIGAHTIYLTRLAML 53 (83)
Q Consensus 3 ~~~i~g~~~~a~~i~T~lIlifGEI-iPK~ia--~~~~~~ia~~~a~~v~~~~~ 53 (83)
-++.+.|+.+|++ +|++++ |+ .|+.-+ .-.++-.....++.++|+..
T Consensus 14 RleaftDaV~AIi-~TImVL---Ei~vP~~~~~~~~~~~l~~~l~~Y~lSF~~v 63 (197)
T COG3548 14 RLEAFTDAVFAII-MTIMVL---EIKVPKGGGRLQALAELLSSLIIYALSFLVV 63 (197)
T ss_pred hHHHHHHHHHHHH-HHHHHh---eeeCCCCCchHHHHHHHHHHHHHHHHHHHHH
Confidence 3677888877655 555544 44 577766 33344444555555555544
No 10
>KOG2881|consensus
Probab=34.98 E-value=1e+02 Score=23.43 Aligned_cols=36 Identities=25% Similarity=0.302 Sum_probs=30.9
Q ss_pred hhhhhhhHHHHHHHHHHHHHHHhhhhHHHHHHhHHH
Q psy17077 4 LIINTKGLVAVIGTTITLVIIGEILPQSIGSRYGLA 39 (83)
Q Consensus 4 ~~i~g~~~~a~~i~T~lIlifGEIiPK~ia~~~~~~ 39 (83)
+-++.+...|..++|++-..+|-+.|..+.++|..-
T Consensus 99 ~~Vf~Ga~~AL~lMTiLS~~lG~aap~lipr~~T~~ 134 (294)
T KOG2881|consen 99 LTVFSGAMSALALMTILSVLLGWAAPNLIPRKYTYY 134 (294)
T ss_pred hhHHHHHHHHHHHHHHHHHHHHHhhhhhchHHHHHH
Confidence 456788889999999999999999999998887753
No 11
>PF02932 Neur_chan_memb: Neurotransmitter-gated ion-channel transmembrane region ion channel family signature gamma-aminobutyric acid (GABA) receptor signature nicotinic acetylcholine receptor signature; InterPro: IPR006029 Neurotransmitter ligand-gated ion channels are transmembrane receptor-ion channel complexes that open transiently upon binding of specific ligands, allowing rapid transmission of signals at chemical synapses [, ]. Five of these ion channel receptor families have been shown to form a sequence-related superfamily: Nicotinic acetylcholine receptor (AchR), an excitatory cation channel in vertebrates and invertebrates; in vertebrate motor endplates it is composed of alpha, beta, gamma and delta/epsilon subunits; in neurons it is composed of alpha and non-alpha (or beta) subunits []. Glycine receptor, an inhibitory chloride ion channel composed of alpha and beta subunits []. Gamma-aminobutyric acid (GABA) receptor, an inhibitory chloride ion channel; at least four types of subunits (alpha, beta, gamma and delta) are known []. Serotonin 5HT3 receptor, of which there are seven major types (5HT3-5HT7) []. Glutamate receptor, an excitatory cation channel of which at least three types have been described (kainate, N-methyl-D-aspartate (NMDA) and quisqualate) []. These receptors possess a pentameric structure (made up of varying subunits), surrounding a central pore. All known sequences of subunits from neurotransmitter-gated ion-channels are structurally related. They are composed of a large extracellular glycosylated N-terminal ligand-binding domain, followed by three hydrophobic transmembrane regions which form the ionic channel, followed by an intracellular region of variable length. A fourth hydrophobic region is found at the C-terminal of the sequence [, ]. This domain represents four transmembrane helices of a variety of neurotransmitter-gated ion-channels.; GO: 0006811 ion transport, 0016020 membrane; PDB: 1DXZ_A 3MRA_A 1EQ8_C 1OED_C 2PR9_P 1A11_A 1CEK_A 2BG9_E 2KSR_A 2K59_B ....
Probab=31.83 E-value=73 Score=20.00 Aligned_cols=19 Identities=26% Similarity=0.599 Sum_probs=14.0
Q ss_pred HHHHHHHHHHHHHhhhhHH
Q psy17077 13 AVIGTTITLVIIGEILPQS 31 (83)
Q Consensus 13 a~~i~T~lIlifGEIiPK~ 31 (83)
..+.+|++.....|.+|++
T Consensus 33 ~lL~~~~~~~~~~~~lP~~ 51 (237)
T PF02932_consen 33 TLLAMTVFLLMVAENLPPT 51 (237)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHhhhhhhhccc
Confidence 3444567778899999994
No 12
>PF11742 DUF3302: Protein of unknown function (DUF3302); InterPro: IPR011223 This is a family of uncharacterised bacterial proteins, restricted to the Gammaproteobacteria.
Probab=22.51 E-value=2e+02 Score=17.68 Aligned_cols=42 Identities=17% Similarity=0.172 Sum_probs=28.5
Q ss_pred HHHhhhhHHHH--HHhHHHHHHhHHHHHHH-HHHHHHHHHHHHHH
Q psy17077 23 IIGEILPQSIG--SRYGLAIGAHTIYLTRL-AMLITFPLSYPMGK 64 (83)
Q Consensus 23 ifGEIiPK~ia--~~~~~~ia~~~a~~v~~-~~~il~Pl~~~l~~ 64 (83)
++=-.+|-.+| ++||..=|-..+.-+.. ....++|+.++-..
T Consensus 21 ~~lh~lP~~iA~kr~Hpq~eaI~v~gwisLft~~~lWp~a~IwA~ 65 (78)
T PF11742_consen 21 WKLHDLPGKIAHKRNHPQAEAIHVLGWISLFTLHVLWPFAWIWAY 65 (78)
T ss_pred HHHHhhHHHHHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 33456799888 46777767777777774 45677888775443
No 13
>COG3197 FixS Uncharacterized protein, possibly involved in nitrogen fixation [Inorganic ion transport and metabolism]
Probab=20.47 E-value=1.1e+02 Score=17.86 Aligned_cols=25 Identities=20% Similarity=0.238 Sum_probs=17.3
Q ss_pred HHHHHHHHHHHHH--hHHHhccCCCce
Q psy17077 53 LITFPLSYPMGKA--LDFSLIKGTTSM 77 (83)
Q Consensus 53 ~il~Pl~~~l~~i--~~~~~g~~~~~~ 77 (83)
+++-|++..+..+ ..++.+.++||+
T Consensus 5 ~~Lipvsi~l~~v~l~~flWavksgQy 31 (58)
T COG3197 5 YILIPVSILLGAVGLGAFLWAVKSGQY 31 (58)
T ss_pred eeHHHHHHHHHHHHHHHHHHhcccCCc
Confidence 3467887777663 566677788876
No 14
>PF02313 Fumarate_red_D: Fumarate reductase subunit D; InterPro: IPR003418 Fumarate reductase is a membrane-bound flavoenzyme consisting of four subunits, A-B. A and B comprise the membrane-extrinsic catalytic domain and C and D link the catalytic centres to the electron-transport chain. This family consists of the 13kDa hydrophobic subunit D. This component may be required to anchor the catalytic components of the fumarate reductase complex to the cytoplasmic membrane.; GO: 0006106 fumarate metabolic process, 0016020 membrane; PDB: 3P4R_P 1KF6_P 3P4Q_P 3P4S_D 3CIR_P 2B76_D 1L0V_P 3P4P_D 1KFY_P.
Probab=20.02 E-value=2.8e+02 Score=18.38 Aligned_cols=27 Identities=22% Similarity=0.362 Sum_probs=19.9
Q ss_pred hh-hhHHHHHHHHHHHHHHHhhhhHHHH
Q psy17077 7 NT-KGLVAVIGTTITLVIIGEILPQSIG 33 (83)
Q Consensus 7 ~g-~~~~a~~i~T~lIlifGEIiPK~ia 33 (83)
|| ++.++.++.-.+|+++|=.+|--+.
T Consensus 17 FgAGGm~~Al~~PvlILi~GillPlG~~ 44 (118)
T PF02313_consen 17 FGAGGMWSALFGPVLILILGILLPLGIL 44 (118)
T ss_dssp HHHHHHHHHHTHHHHHHHHHTTCCCT-S
T ss_pred ecchHHHHHHHHHHHHHHHHHHhcccCC
Confidence 44 5567777788899999999986654
Done!