Query 029734
Match_columns 189
No_of_seqs 168 out of 658
Neff 5.6
Searched_HMMs 46136
Date Fri Mar 29 02:49:22 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029734.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029734hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1726 HVA22/DP1 gene product 100.0 1.9E-33 4.2E-38 237.6 15.1 130 22-151 2-134 (225)
2 KOG1725 Protein involved in me 100.0 2.9E-32 6.4E-37 224.9 9.3 110 16-125 52-161 (186)
3 PF03134 TB2_DP1_HVA22: TB2/DP 100.0 2.3E-31 5E-36 196.9 9.6 93 19-111 2-94 (94)
4 COG5052 YOP1 Protein involved 99.9 1.1E-22 2.3E-27 166.5 11.6 104 24-127 61-165 (186)
5 KOG1726 HVA22/DP1 gene product 75.7 12 0.00026 32.3 6.9 77 48-124 97-173 (225)
6 PRK06553 lipid A biosynthesis 51.6 1.1E+02 0.0024 26.7 8.5 74 50-131 19-93 (308)
7 PF14837 INTS5_N: Integrator c 44.4 1.9E+02 0.0041 24.8 8.5 80 81-160 26-123 (213)
8 PF02453 Reticulon: Reticulon; 42.0 8.5 0.00018 30.0 0.0 21 111-131 149-169 (169)
9 PF04138 GtrA: GtrA-like prote 40.0 1.3E+02 0.0027 21.8 6.1 72 15-88 28-101 (117)
10 COG1238 Predicted membrane pro 34.8 2.3E+02 0.005 23.1 7.3 77 9-94 52-130 (161)
11 KOG1792 Reticulon [Intracellul 32.1 3.3E+02 0.0072 23.4 13.0 80 51-135 126-213 (230)
12 PF14975 DUF4512: Domain of un 31.9 25 0.00053 26.2 1.1 14 101-114 13-26 (88)
13 PF08702 Fib_alpha: Fibrinogen 31.1 2.7E+02 0.0059 22.1 7.6 37 107-143 23-59 (146)
14 KOG0860 Synaptobrevin/VAMP-lik 30.3 1.9E+02 0.0041 22.6 5.8 27 111-137 31-57 (116)
15 PF07178 TraL: TraL protein; 28.7 1.3E+02 0.0029 21.9 4.6 30 34-63 48-77 (95)
16 KOG0365 Beta subunit of farnes 28.6 36 0.00077 31.7 1.7 18 50-67 98-115 (423)
17 PHA02608 67 prohead core prote 27.8 31 0.00068 25.1 1.0 20 140-159 13-32 (80)
18 PRK09174 F0F1 ATP synthase sub 27.4 3.7E+02 0.008 22.5 10.4 50 107-156 78-130 (204)
19 PF14013 MT0933_antitox: MT093 26.9 1.3E+02 0.0028 19.8 3.8 42 108-149 6-48 (51)
20 PRK13455 F0F1 ATP synthase sub 24.8 3.7E+02 0.008 21.6 10.0 48 106-153 51-101 (184)
21 PF09726 Macoilin: Transmembra 24.8 1.4E+02 0.003 29.9 5.2 31 54-84 31-62 (697)
22 PRK10378 inactive ferrous ion 24.7 3E+02 0.0065 25.5 7.0 40 96-136 295-334 (375)
23 PF03279 Lip_A_acyltrans: Bact 23.8 4.5E+02 0.0099 22.3 8.0 72 51-129 8-83 (295)
24 KOG4304 Transcriptional repres 23.6 4.5E+02 0.0097 22.9 7.6 41 95-135 23-64 (250)
25 PRK06569 F0F1 ATP synthase sub 23.4 4.1E+02 0.0088 21.6 10.2 50 107-156 35-87 (155)
26 TIGR01102 yscR type III secret 23.2 2E+02 0.0043 24.6 5.1 38 100-137 63-101 (202)
27 PRK13707 conjugal transfer pil 23.0 1.8E+02 0.0039 21.8 4.4 27 35-61 55-81 (101)
28 PF06570 DUF1129: Protein of u 22.2 3.8E+02 0.0083 22.0 6.7 37 28-66 122-159 (206)
29 KOG2033 Low density lipoprotei 21.6 4.9E+02 0.011 26.6 8.1 59 99-157 10-75 (863)
30 COG2928 Uncharacterized conser 20.9 5.5E+02 0.012 22.2 8.0 20 52-71 20-39 (222)
31 TIGR02762 TraL_TIGR type IV co 20.7 2.4E+02 0.0051 20.7 4.6 28 35-62 52-79 (95)
32 PRK13454 F0F1 ATP synthase sub 20.5 4.7E+02 0.01 21.2 9.2 48 107-154 56-106 (181)
No 1
>KOG1726 consensus HVA22/DP1 gene product-related proteins [Defense mechanisms]
Probab=100.00 E-value=1.9e-33 Score=237.62 Aligned_cols=130 Identities=34% Similarity=0.734 Sum_probs=117.2
Q ss_pred HHhhhhhhhccccHHHHHHHhhc--CChhhhhhHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHhcCCCcch
Q 029734 22 VRTACCSVGTILPVYSTFKAIES--KDENEKQKWLVYWAVYGSFSIAEMFADKILCWFPLYHHVKFAFLVWLQLPSTNGA 99 (189)
Q Consensus 22 ~r~~~~~iG~~yPaY~S~kal~~--~~~~~~~~WL~YWivya~~~~~E~~~d~ll~wiP~Y~~~Kl~fllwL~~P~t~GA 99 (189)
.|++.+++|.+||||+|+|++++ ++-++..+|++|||+||+++++|.++|.+++|+|||+++|++|++||++|.|+|+
T Consensus 2 ~~~lv~v~G~~yPAy~tyKavk~~~~~i~el~~W~~YWIv~A~~t~~e~~~d~~lsw~P~Y~e~Kl~fv~wL~~p~t~G~ 81 (225)
T KOG1726|consen 2 IRLLVLVFGYAYPAYATYKAVKSNRKDIRELLRWMMYWIVFAALTVFETLTDFLLSWFPFYSEFKLAFVIWLLSPATKGA 81 (225)
T ss_pred eehHHHHHHHHhHHHHHHHHHHhcchhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhhHHHHHHHHHhhccccccCcc
Confidence 46778889999999999999999 6678899999999999999999999999999999999999999999999999999
Q ss_pred hHHHhhhhhhhhhhchHHHHHHHHHHHHHHHH-HHHhhhHHHHHHHHHHHHHH
Q 029734 100 KYFYMSRLRPFLLRHQARLDQILESVNGEMSQ-FVSDHQVEFRFVRTLFMKTV 151 (189)
Q Consensus 100 ~~lY~~~l~P~l~k~e~~ID~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~k~~ 151 (189)
.++|++++||++.+||++||+++.+++.+..+ +++..++.++.+.+.+....
T Consensus 82 ~~vY~~f~~p~ls~~E~eid~~l~~~k~~~~~~a~~~~~r~l~~~~~~~~~a~ 134 (225)
T KOG1726|consen 82 SYVYRKFLRPFLSKHEEEIDRMLVEAKERVYDAAVSILKRALNYAQTYALEAA 134 (225)
T ss_pred HHHHHHHhhhhhhhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 99999999999999999999999999988766 45555778888766554443
No 2
>KOG1725 consensus Protein involved in membrane traffic (YOP1/TB2/DP1/HVA22 family) [Intracellular trafficking, secretion, and vesicular transport]
Probab=99.97 E-value=2.9e-32 Score=224.92 Aligned_cols=110 Identities=37% Similarity=0.770 Sum_probs=104.5
Q ss_pred hhhhHHHHhhhhhhhccccHHHHHHHhhcCChhhhhhHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHhcCC
Q 029734 16 IGSNIVVRTACCSVGTILPVYSTFKAIESKDENEKQKWLVYWAVYGSFSIAEMFADKILCWFPLYHHVKFAFLVWLQLPS 95 (189)
Q Consensus 16 ~~~n~v~r~~~~~iG~~yPaY~S~kal~~~~~~~~~~WL~YWivya~~~~~E~~~d~ll~wiP~Y~~~Kl~fllwL~~P~ 95 (189)
+..|.+.+++|+++|++||+|+|+|++|+++++|+++||+||++||+++++|.+.+.+++|+|+||++|++|++||++|+
T Consensus 52 l~~g~~~~l~cn~ig~~yP~y~Sv~aIes~~k~dD~~wL~YWivys~lslie~~~~~il~~iP~y~~~K~~fl~~l~lP~ 131 (186)
T KOG1725|consen 52 LLFGSGGPLLCNLIGFLYPAYASVKAIESPSKDDDTQWLTYWIVYSILSLVEFFSVAILSWIPFYWYAKLIFLLWLVLPQ 131 (186)
T ss_pred HHhcccHHHHHHHHHHHHHHHHHHHhhhCCCCcchHHHHHHHHHHHHHHHHHHHHHHHHHhchHHHHHHHHHHHHHhccC
Confidence 44557789999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred CcchhHHHhhhhhhhhhhchHHHHHHHHHH
Q 029734 96 TNGAKYFYMSRLRPFLLRHQARLDQILESV 125 (189)
Q Consensus 96 t~GA~~lY~~~l~P~l~k~e~~ID~~l~~~ 125 (189)
++||.++|++++||++.+|..++|+..+..
T Consensus 132 ~~Ga~~iY~~~vrp~~~~~~~~~~~~~~~~ 161 (186)
T KOG1725|consen 132 FNGAAIIYNHIVRPFFLKHSREIDDIEDAN 161 (186)
T ss_pred CCCceeeechhhhhhhhhhhhhhhhhhhcc
Confidence 999999999999999999999999887644
No 3
>PF03134 TB2_DP1_HVA22: TB2/DP1, HVA22 family; InterPro: IPR004345 This family includes members from a wide variety of eukaryotes. It includes the TB2/DP1 (deleted in polyposis) protein which in human is deleted in severe forms of familial adenomatous polyposis, an autosomal dominant oncological inherited disease. The family also includes the plant protein of known similarity to TB2/DP1, the HVA22 abscisic acid-induced protein (e.g. Q07764 from SWISSPROT), which is thought to be a regulatory protein.
Probab=99.97 E-value=2.3e-31 Score=196.92 Aligned_cols=93 Identities=47% Similarity=1.019 Sum_probs=90.5
Q ss_pred hHHHHhhhhhhhccccHHHHHHHhhcCChhhhhhHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHhcCCCcc
Q 029734 19 NIVVRTACCSVGTILPVYSTFKAIESKDENEKQKWLVYWAVYGSFSIAEMFADKILCWFPLYHHVKFAFLVWLQLPSTNG 98 (189)
Q Consensus 19 n~v~r~~~~~iG~~yPaY~S~kal~~~~~~~~~~WL~YWivya~~~~~E~~~d~ll~wiP~Y~~~Kl~fllwL~~P~t~G 98 (189)
|++.+++|+++|++||+|+|+|+++++++++.++||+||++||+++++|.+++.+++|+|+|+++|++|++||++|+++|
T Consensus 2 ~~~~~~l~~~i~~~yP~~~s~kal~~~~~~~~~~wL~YWiv~~~~~~~e~~~~~~l~~iP~y~~~K~~~~~wL~~p~~~G 81 (94)
T PF03134_consen 2 GFIARLLCNLIGILYPAYKSFKALKSKDKKDLKQWLTYWIVYGLFTLFESFLDFILSWIPFYYEFKLLFLVWLQLPQFQG 81 (94)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHhCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHccCchHHHHHHHHHHHHHcCCCCc
Confidence 57889999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhHHHhhhhhhhh
Q 029734 99 AKYFYMSRLRPFL 111 (189)
Q Consensus 99 A~~lY~~~l~P~l 111 (189)
|+++|+++++|++
T Consensus 82 a~~iy~~~i~P~~ 94 (94)
T PF03134_consen 82 AEYIYDKFIRPFL 94 (94)
T ss_pred HHHHHHHHccccC
Confidence 9999999999975
No 4
>COG5052 YOP1 Protein involved in membrane traffic [Intracellular trafficking and secretion]
Probab=99.89 E-value=1.1e-22 Score=166.50 Aligned_cols=104 Identities=28% Similarity=0.502 Sum_probs=96.9
Q ss_pred hhhhhhhccccHHHHHHHhhcCChhhhhhHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHhcCCCcchhHHH
Q 029734 24 TACCSVGTILPVYSTFKAIESKDENEKQKWLVYWAVYGSFSIAEMFADKILCWFPLYHHVKFAFLVWLQLPSTNGAKYFY 103 (189)
Q Consensus 24 ~~~~~iG~~yPaY~S~kal~~~~~~~~~~WL~YWivya~~~~~E~~~d~ll~wiP~Y~~~Kl~fllwL~~P~t~GA~~lY 103 (189)
++.+++|+..|++.|.++++..++.|++|||.||+|+++.+++|.+...+++|+|+||..|.+|++|+..|+|+||..+|
T Consensus 61 ilt~~~~~~lP~~~~l~a~~~~n~~dd~q~l~ywmV~~~lsaie~~s~~il~~vP~Y~~~K~vFllw~~~prt~GA~~IY 140 (186)
T COG5052 61 ILTNVAGFSLPAQLSLVAFYTLNFMDDTQLLTYWMVFGFLSAIEKYSGAILSKVPFYWTLKNVFLLWLLLPRTEGARIIY 140 (186)
T ss_pred HHHHHHHHHccHHHHHHHHHcCCchhhHHHHHHHHHHHHHHHHHHHHHHHHHHhhHHHHHHHHHHHHHhccccCceeeeH
Confidence 78888999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhhhhchHH-HHHHHHHHHH
Q 029734 104 MSRLRPFLLRHQAR-LDQILESVNG 127 (189)
Q Consensus 104 ~~~l~P~l~k~e~~-ID~~l~~~~~ 127 (189)
+++++|+.++|-.+ ||+.+.+..+
T Consensus 141 ~~~i~p~~s~~~~~~IektV~~~~~ 165 (186)
T COG5052 141 DDIIAPDVSDHGFRTIEKTVKNGTK 165 (186)
T ss_pred HhhccccccHHHHHHHHHHHHhhcc
Confidence 99999999998776 6666655443
No 5
>KOG1726 consensus HVA22/DP1 gene product-related proteins [Defense mechanisms]
Probab=75.71 E-value=12 Score=32.29 Aligned_cols=77 Identities=14% Similarity=-0.007 Sum_probs=67.3
Q ss_pred hhhhhHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHhcCCCcchhHHHhhhhhhhhhhchHHHHHHHHH
Q 029734 48 NEKQKWLVYWAVYGSFSIAEMFADKILCWFPLYHHVKFAFLVWLQLPSTNGAKYFYMSRLRPFLLRHQARLDQILES 124 (189)
Q Consensus 48 ~~~~~WL~YWivya~~~~~E~~~d~ll~wiP~Y~~~Kl~fllwL~~P~t~GA~~lY~~~l~P~l~k~e~~ID~~l~~ 124 (189)
++...-+.+|....++..++.+....++|-+.|..-+..+..|...|..+++...++....|....+...+-+.++.
T Consensus 97 E~eid~~l~~~k~~~~~~a~~~~~r~l~~~~~~~~~a~~~~~~~~tp~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 173 (225)
T KOG1726|consen 97 EEEIDRMLVEAKERVYDAAVSILKRALNYAQTYALEAAVFSQGQLTPRLQRSSSDQDLTTIPEESGKKAPDLDVLEN 173 (225)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCccccchhhhhhhhcCccccccccCCcccchh
Confidence 44567889999999999999999999999999999999999999999999999999999999887766665555443
No 6
>PRK06553 lipid A biosynthesis lauroyl acyltransferase; Provisional
Probab=51.65 E-value=1.1e+02 Score=26.71 Aligned_cols=74 Identities=19% Similarity=0.222 Sum_probs=38.9
Q ss_pred hhhHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHH-HHHhcCCCcchhHHHhhhhhhhhhhchHHHHHHHHHHHHH
Q 029734 50 KQKWLVYWAVYGSFSIAEMFADKILCWFPLYHHVKFAFL-VWLQLPSTNGAKYFYMSRLRPFLLRHQARLDQILESVNGE 128 (189)
Q Consensus 50 ~~~WL~YWivya~~~~~E~~~d~ll~wiP~Y~~~Kl~fl-lwL~~P~t~GA~~lY~~~l~P~l~k~e~~ID~~l~~~~~~ 128 (189)
.+.++.||++.+++ .+++++|.....+++.. .|+..+..+....+-.++-.=|-.+-+++++++..+.+..
T Consensus 19 ~~~~~~~~l~~~l~--------~~~~~LP~~~~~~~~~~l~~~~~~~~~rr~v~~~NL~~afPe~s~~e~~~i~~~~~~~ 90 (308)
T PRK06553 19 FAGWLVAQLVFGLL--------GLLRLFPADKAINFFGRLARLIGPLLPRHRVALDNLRAAFPEKSEAEIEAIALGMWDN 90 (308)
T ss_pred HHHHHHHHHHHHHH--------HHHHHCCHHHHHHHHHHHHHHHhhhcchHHHHHHHHHHHCCCCCHHHHHHHHHHHHHH
Confidence 34555566554432 34678898877765543 3444332122244444433323345666777777666655
Q ss_pred HHH
Q 029734 129 MSQ 131 (189)
Q Consensus 129 ~~~ 131 (189)
+..
T Consensus 91 ~g~ 93 (308)
T PRK06553 91 LGR 93 (308)
T ss_pred HHH
Confidence 443
No 7
>PF14837 INTS5_N: Integrator complex subunit 5 N-terminus
Probab=44.43 E-value=1.9e+02 Score=24.79 Aligned_cols=80 Identities=16% Similarity=0.263 Sum_probs=59.4
Q ss_pred HHHHHHHHHHHhcCCCcchhH-----HHhhhhhhhhhhch------------HHHHHHHHHHHHHHHHHHHhhhH-HHHH
Q 029734 81 HHVKFAFLVWLQLPSTNGAKY-----FYMSRLRPFLLRHQ------------ARLDQILESVNGEMSQFVSDHQV-EFRF 142 (189)
Q Consensus 81 ~~~Kl~fllwL~~P~t~GA~~-----lY~~~l~P~l~k~e------------~~ID~~l~~~~~~~~~~~~~~~~-~~~~ 142 (189)
-++|.++.+.--+|.++-|-+ +|+..++-++.+.| +.+|+.+.++.+.+.++++..-+ -...
T Consensus 26 ~lvk~al~lL~~lPaaR~AVley~~~vf~eaV~~~~~~~E~~~~~~~~~~~~~~~~~ai~ei~~~L~~fv~~npkAWap~ 105 (213)
T PF14837_consen 26 DLVKCALSLLRSLPAARDAVLEYFGLVFDEAVHLYLSPKENDAQNNKQQQDEADLDEAIQEIHDVLSRFVEANPKAWAPL 105 (213)
T ss_pred HHHHHHHHHHHhCcccHHHHHHHHHHHHHHHHHHHHHHHhhhhcccccCCCCccHHHHHHHHHHHHHHHHhcCCcccHHH
Confidence 568999999999999998855 67888888887766 57788899998888888877632 3333
Q ss_pred HHHHHHHHHHHHHHHhhh
Q 029734 143 VRTLFMKTVALVNQTVKE 160 (189)
Q Consensus 143 ~~~~~~k~~~~~~~~~~~ 160 (189)
+-.-..+.+|.+...--+
T Consensus 106 i~~Wsl~Llgelssk~~~ 123 (213)
T PF14837_consen 106 ISAWSLELLGELSSKYAG 123 (213)
T ss_pred HHHHHHHHHHHHHHHhcC
Confidence 444446777777766543
No 8
>PF02453 Reticulon: Reticulon; InterPro: IPR003388 Eukaryotic proteins of the reticulon (RTN) family all share an association with the endoplasmic reticulum (ER). Whereas amino-terminal regions are not related to one another, all reticulon proteins share a 200 amino acid residue region of sequence similarity at the C-terminal. This region contains two large hydrophobic regions separated by a 66 residue hydrophilic segment. The conserved hydrophobic C-terminal portion has been shown to play an essential role in the association of reticulons with the ER membrane. The hydrophobic portions are supposed to be membrane-embedded and the hydrophilic 66 residue localized to the lumenal/extracellular face of the membrane. Most reticulons have a di-lysine ER retention motif at the C-terminal. Because of their likely association with the rough as well as the smooth ER, the reticulons might play some role in transport processes or in regulation of intracellular calcium levels. It has been suggested that the reticulons may be serving as ER-associated channel-like complexes [, , , ].; GO: 0005783 endoplasmic reticulum; PDB: 2KO2_A 2JV5_A 2G31_A.
Probab=42.02 E-value=8.5 Score=30.01 Aligned_cols=21 Identities=19% Similarity=0.319 Sum_probs=0.0
Q ss_pred hhhchHHHHHHHHHHHHHHHH
Q 029734 111 LLRHQARLDQILESVNGEMSQ 131 (189)
Q Consensus 111 l~k~e~~ID~~l~~~~~~~~~ 131 (189)
.++|+++||+.++.++++++|
T Consensus 149 y~~~~~~Id~~~~~~~~~~~k 169 (169)
T PF02453_consen 149 YEKYQEEIDQYVAKVKEKVKK 169 (169)
T ss_dssp ---------------------
T ss_pred HHHHHHHHHHHHHHHHHHhcC
Confidence 467999999999988877653
No 9
>PF04138 GtrA: GtrA-like protein; InterPro: IPR007267 Members of this entry belong to the GtrA family and are predicted to be integral membrane proteins with three or four transmembrane spans. They are involved in the synthesis of cell surface polysaccharides. GtrA is predicted to be an integral membrane protein with 4 transmembrane spans. It is involved in O antigen modification by Shigella flexneri bacteriophage X (SfX), but does not determine the specificity of glucosylation. Its function remains unknown, but it may play a role in translocation of undecaprenyl phosphate linked glucose (UndP-Glc) across the cytoplasmic membrane []. Another member of this family is a DTDP-glucose-4-keto-6-deoxy-D-glucose reductase, which catalyses the conversion of dTDP-4-keto-6-deoxy-D-glucose to dTDP-D-fucose, which is involved in the biosynthesis of the serotype-specific polysaccharide antigen of Actinobacillus actinomycetemcomitans Y4 (serotype b) []. This family also includes the teichoic acid glycosylation protein, GtcA, which is a serotype-specific protein in some Listeria innocua and Listeria monocytogenes strains. Its exact function is not known, but it is essential for decoration of cell wall teichoic acids with glucose and galactose [].; GO: 0000271 polysaccharide biosynthetic process, 0006810 transport, 0016021 integral to membrane
Probab=39.96 E-value=1.3e+02 Score=21.83 Aligned_cols=72 Identities=14% Similarity=0.157 Sum_probs=45.5
Q ss_pred hhhhhHHHHhhhhhhhccccHHHHHHHhhcCChhhhhhHHHHHHHHHHHHHHHHHHHH-HhchhhhH-HHHHHHHH
Q 029734 15 PIGSNIVVRTACCSVGTILPVYSTFKAIESKDENEKQKWLVYWAVYGSFSIAEMFADK-ILCWFPLY-HHVKFAFL 88 (189)
Q Consensus 15 ~~~~n~v~r~~~~~iG~~yPaY~S~kal~~~~~~~~~~WL~YWivya~~~~~E~~~d~-ll~wiP~Y-~~~Kl~fl 88 (189)
+..+|.+...+...+++..--+-+||.-.+.+. .++...|++++.+-.++....-. +..+++.. ...|++-.
T Consensus 28 ~~~A~~ia~~~~~~~~f~ln~~~tF~~~~~~~~--~~~~~~f~~~~~~~~~~~~~~~~~~~~~~~~~~~~a~~~~~ 101 (117)
T PF04138_consen 28 YLLANVIAFIVAIIFNFILNRRFTFRSRGRSSR--WRQFLRFFVVYLLGLLLNTLILWLLVDWLGIPYLIAKLIAI 101 (117)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhccCCCCcHH--HHHHHHHHHHHHHHHHHHHHHHHHHHHHhCchHHHHHHHHH
Confidence 456667777766666666666666665433322 78899999999888887766533 34455443 33555443
No 10
>COG1238 Predicted membrane protein [Function unknown]
Probab=34.82 E-value=2.3e+02 Score=23.09 Aligned_cols=77 Identities=21% Similarity=0.382 Sum_probs=41.1
Q ss_pred HHHHHhhhhhhHHHHhhhhhhhccccHHHHHHHhhcCChhhhhhHHH--HHHHHHHHHHHHHHHHHHhchhhhHHHHHHH
Q 029734 9 LRLLLCPIGSNIVVRTACCSVGTILPVYSTFKAIESKDENEKQKWLV--YWAVYGSFSIAEMFADKILCWFPLYHHVKFA 86 (189)
Q Consensus 9 l~lll~~~~~n~v~r~~~~~iG~~yPaY~S~kal~~~~~~~~~~WL~--YWivya~~~~~E~~~d~ll~wiP~Y~~~Kl~ 86 (189)
+.+++.-..+|.+..++...+|...|-..--+ +...+++..+|.. +--=||.+++ +++|+|..--+=++
T Consensus 52 ~~~~~vAt~gs~lG~~~~y~lG~~~~~~~~~~--~~~~~~~~~~~~~~~~~~ryg~~~l-------l~s~lp~igd~~t~ 122 (161)
T COG1238 52 WILALVATLGSVLGGLVNYALGRFLPEFIARR--WFPGSEEALEKLQEKWYRRYGVWTL-------LLSWLPPIGDVLTL 122 (161)
T ss_pred HHHHHHHHHHhhHhHHHHHHHHhcchHHHHHH--hhcchHHHHHHHHHHHHHHHHHHHH-------HHHhccccchHHHH
Confidence 34555667788888888888888887655444 2222222222222 2222333322 34666665544445
Q ss_pred HHHHHhcC
Q 029734 87 FLVWLQLP 94 (189)
Q Consensus 87 fllwL~~P 94 (189)
+-.|+..|
T Consensus 123 ~aG~~~~~ 130 (161)
T COG1238 123 LAGWLRLN 130 (161)
T ss_pred HHHHHHcc
Confidence 55555544
No 11
>KOG1792 consensus Reticulon [Intracellular trafficking, secretion, and vesicular transport]
Probab=32.12 E-value=3.3e+02 Score=23.45 Aligned_cols=80 Identities=14% Similarity=0.125 Sum_probs=52.2
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHHHHHHhcC---CCcchhHHHhhhhh----hh-hhhchHHHHHHH
Q 029734 51 QKWLVYWAVYGSFSIAEMFADKILCWFPLYHHVKFAFLVWLQLP---STNGAKYFYMSRLR----PF-LLRHQARLDQIL 122 (189)
Q Consensus 51 ~~WL~YWivya~~~~~E~~~d~ll~wiP~Y~~~Kl~fllwL~~P---~t~GA~~lY~~~l~----P~-l~k~e~~ID~~l 122 (189)
-.++.-|+--++-.+-+..+.. .+ -..+|....+|...= .++|...+|--++- |. .++||+.||..+
T Consensus 126 a~~~~~~in~~l~~l~~ia~~~--d~---~~~lk~~v~lw~lS~vGs~fn~lTll~ig~v~~~TvP~~YEky~d~ID~~~ 200 (230)
T KOG1792|consen 126 ASSLRVEINQALSELRDIALGR--DL---KDFLKVAVGLWILSYVGSLFNFLTLLYIGLVLLFTVPVLYEKYEDQIDPYL 200 (230)
T ss_pred HHHHHHHHHHHHHHHHHHHhcc--cH---HHHHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHhcccchhHHhHHHHhHHH
Confidence 3566667766666555554421 11 256777777787643 25677777765443 33 479999999999
Q ss_pred HHHHHHHHHHHHh
Q 029734 123 ESVNGEMSQFVSD 135 (189)
Q Consensus 123 ~~~~~~~~~~~~~ 135 (189)
+.+.+++++....
T Consensus 201 ~~~~~~~k~~~~~ 213 (230)
T KOG1792|consen 201 GKVMEELKKHYRK 213 (230)
T ss_pred HHHHHHHHHHHHH
Confidence 9999988765543
No 12
>PF14975 DUF4512: Domain of unknown function (DUF4512)
Probab=31.94 E-value=25 Score=26.19 Aligned_cols=14 Identities=21% Similarity=0.676 Sum_probs=11.2
Q ss_pred HHHhhhhhhhhhhc
Q 029734 101 YFYMSRLRPFLLRH 114 (189)
Q Consensus 101 ~lY~~~l~P~l~k~ 114 (189)
+||++||+|++.+.
T Consensus 13 wIykkFlqP~i~~~ 26 (88)
T PF14975_consen 13 WIYKKFLQPYIYPF 26 (88)
T ss_pred HHHHHHHHHHHHHH
Confidence 57899999988654
No 13
>PF08702 Fib_alpha: Fibrinogen alpha/beta chain family; InterPro: IPR012290 Fibrinogen plays key roles in both blood clotting and platelet aggregation. During blood clot formation, the conversion of soluble fibrinogen to insoluble fibrin is triggered by thrombin, resulting in the polymerisation of fibrin, which forms a soft clot; this is then converted to a hard clot by factor XIIIA, which cross-links fibrin molecules. Platelet aggregation involves the binding of the platelet protein receptor integrin alpha(IIb)-beta(3) to the C-terminal D domain of fibrinogen []. In addition to platelet aggregation, platelet-fibrinogen interaction mediates both adhesion and fibrin clot retraction. Fibrinogen occurs as a dimer, where each monomer is composed of three non-identical chains, alpha, beta and gamma, linked together by several disulphide bonds []. The N-terminals of all six chains come together to form the centre of the molecule (E domain), from which the monomers extend in opposite directions as coiled coils, followed by C-terminal globular domains (D domains). Therefore, the domain composition is: D-coil-E-coil-D. At each end, the C-terminal of the alpha chain extends beyond the D domain as a protuberance that is important for cross-linking the molecule. During clot formation, the N-terminal fragments of the alpha and beta chains (within the E domain) in fibrinogen are cleaved by thrombin, releasing fibrinopeptides A and B, respectively, and producing fibrin. This cleavage results in the exposure of four binding sites on the E domain, each of which can bind to a D domain from different fibrin molecules. The binding of fibrin molecules produces a polymer consisting of a lattice network of fibrins that form a long, branching, flexible fibre [, ]. Fibrin fibres interact with platelets to increase the size of the clot, as well as with several different proteins and cells, thereby promoting the inflammatory response and concentrating the cells required for wound repair at the site of damage. This entry represents the coiled-coil domain and part of the N-terminal E domain found in all three fibrinogen polypeptides, namely the alpha, beta and gamma chains. More information about these proteins can be found at Protein of the Month: Fibrinogen [].; GO: 0005102 receptor binding, 0030674 protein binding, bridging, 0007165 signal transduction, 0030168 platelet activation, 0051258 protein polymerization, 0005577 fibrinogen complex; PDB: 1LWU_D 1N73_D 1M1J_B 1JY2_R 1JY3_R 1RF0_A 2H43_D 1RE4_D 2XNY_D 2HPC_D ....
Probab=31.08 E-value=2.7e+02 Score=22.13 Aligned_cols=37 Identities=16% Similarity=0.383 Sum_probs=28.0
Q ss_pred hhhhhhhchHHHHHHHHHHHHHHHHHHHhhhHHHHHH
Q 029734 107 LRPFLLRHQARLDQILESVNGEMSQFVSDHQVEFRFV 143 (189)
Q Consensus 107 l~P~l~k~e~~ID~~l~~~~~~~~~~~~~~~~~~~~~ 143 (189)
++-++.++++.+|+-|+.++..+.++-..+...-+.+
T Consensus 23 i~~~L~k~~~~v~~~i~~L~~~L~~~~n~t~~~~~~v 59 (146)
T PF08702_consen 23 IQDFLDKYERDVDKDIQELENLLDQISNSTSEAFEYV 59 (146)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHccchHHHHHHHHHHHHHHHHhhhhHHHHH
Confidence 5567889999999999988888877766665544443
No 14
>KOG0860 consensus Synaptobrevin/VAMP-like protein [Intracellular trafficking, secretion, and vesicular transport]
Probab=30.26 E-value=1.9e+02 Score=22.58 Aligned_cols=27 Identities=15% Similarity=0.391 Sum_probs=23.1
Q ss_pred hhhchHHHHHHHHHHHHHHHHHHHhhh
Q 029734 111 LLRHQARLDQILESVNGEMSQFVSDHQ 137 (189)
Q Consensus 111 l~k~e~~ID~~l~~~~~~~~~~~~~~~ 137 (189)
+.+-++++|..++-++..+.|++++.+
T Consensus 31 ~~~tq~QvdeVv~IMr~NV~KVlER~e 57 (116)
T KOG0860|consen 31 LQQTQAQVDEVVDIMRENVEKVLERGE 57 (116)
T ss_pred HHHHHHHHHHHHHHHHHhHHHHHHhcc
Confidence 556788999999999999999998864
No 15
>PF07178 TraL: TraL protein; InterPro: IPR009838 This entry represents bacterial TraL proteins. TraL is a predicted peripheral membrane protein involved in bacterial sex pilus assembly []. TraL is part of the type IV secretion system for conjugative plasmid transfer []. The exact function of TraL is unknown.; GO: 0000746 conjugation, 0019867 outer membrane
Probab=28.71 E-value=1.3e+02 Score=21.90 Aligned_cols=30 Identities=13% Similarity=0.254 Sum_probs=20.9
Q ss_pred cHHHHHHHhhcCChhhhhhHHHHHHHHHHH
Q 029734 34 PVYSTFKAIESKDENEKQKWLVYWAVYGSF 63 (189)
Q Consensus 34 PaY~S~kal~~~~~~~~~~WL~YWivya~~ 63 (189)
-++..++-++++..+..-..+.||..-..+
T Consensus 48 ~~~~~~~k~K~~~~~g~l~h~lYW~~p~~~ 77 (95)
T PF07178_consen 48 VLWWGYRKFKKGRGRGFLLHLLYWYGPSSL 77 (95)
T ss_pred HHHHHHHHHHccCCccHHHHHHHHHcchhh
Confidence 345566667777777778889999865443
No 16
>KOG0365 consensus Beta subunit of farnesyltransferase [Posttranslational modification, protein turnover, chaperones]
Probab=28.59 E-value=36 Score=31.68 Aligned_cols=18 Identities=22% Similarity=0.733 Sum_probs=13.5
Q ss_pred hhhHHHHHHHHHHHHHHH
Q 029734 50 KQKWLVYWAVYGSFSIAE 67 (189)
Q Consensus 50 ~~~WL~YWivya~~~~~E 67 (189)
-+.||.||++-++-.+-|
T Consensus 98 SR~Wm~YWil~sl~lL~~ 115 (423)
T KOG0365|consen 98 SRPWMCYWILNSLALLDE 115 (423)
T ss_pred CcchhHHHHHHHHHHhcC
Confidence 468999999888755443
No 17
>PHA02608 67 prohead core protein; Provisional
Probab=27.82 E-value=31 Score=25.15 Aligned_cols=20 Identities=5% Similarity=0.051 Sum_probs=9.9
Q ss_pred HHHHHHHHHHHHHHHHHHhh
Q 029734 140 FRFVRTLFMKTVALVNQTVK 159 (189)
Q Consensus 140 ~~~~~~~~~k~~~~~~~~~~ 159 (189)
|-.++..|..+|...+..++
T Consensus 13 LV~akK~F~~~Me~rt~~li 32 (80)
T PHA02608 13 LVEAKKEFASIMEARTEALI 32 (80)
T ss_pred HHHHHHHHHHHHHHHHHHHH
Confidence 33455555555555444443
No 18
>PRK09174 F0F1 ATP synthase subunit B'; Validated
Probab=27.38 E-value=3.7e+02 Score=22.48 Aligned_cols=50 Identities=14% Similarity=0.143 Sum_probs=32.8
Q ss_pred hhhhhhhchHHHHHHHHHH---HHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 029734 107 LRPFLLRHQARLDQILESV---NGEMSQFVSDHQVEFRFVRTLFMKTVALVNQ 156 (189)
Q Consensus 107 l~P~l~k~e~~ID~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~ 156 (189)
|.-.+.+.+.+|.+-++.+ +.+..+....|+..+.-++.-..++...+.+
T Consensus 78 I~~vLe~R~~~I~~~L~~Ae~~k~eAe~~~~~ye~~L~~Ar~eA~~Ii~~Ar~ 130 (204)
T PRK09174 78 IGGIIETRRDRIAQDLDQAARLKQEADAAVAAYEQELAQARAKAHSIAQAARE 130 (204)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 5556777778888777554 4556666777777777777666666554433
No 19
>PF14013 MT0933_antitox: MT0933-like antitoxin protein
Probab=26.88 E-value=1.3e+02 Score=19.84 Aligned_cols=42 Identities=5% Similarity=0.038 Sum_probs=28.6
Q ss_pred hhhhhhchHHHHHHHHHHHHHHHH-HHHhhhHHHHHHHHHHHH
Q 029734 108 RPFLLRHQARLDQILESVNGEMSQ-FVSDHQVEFRFVRTLFMK 149 (189)
Q Consensus 108 ~P~l~k~e~~ID~~l~~~~~~~~~-~~~~~~~~~~~~~~~~~k 149 (189)
+-++.+|+.++|+.|+.+.+.+.+ ....|...|.-++..+-+
T Consensus 6 k~~~~~~~dk~~~~iDKA~d~vd~kTGgKy~dqId~~~d~a~~ 48 (51)
T PF14013_consen 6 KDLASKNPDKIDQGIDKAGDFVDEKTGGKYSDQIDKAQDKAKD 48 (51)
T ss_pred HHHHHHChHHHHHHHHHHHHHHHhhcCCchHHHHHHHHHHHHh
Confidence 346778999999999988887754 345566666655554433
No 20
>PRK13455 F0F1 ATP synthase subunit B; Provisional
Probab=24.80 E-value=3.7e+02 Score=21.63 Aligned_cols=48 Identities=17% Similarity=0.138 Sum_probs=30.7
Q ss_pred hhhhhhhhchHHHHHHHHHH---HHHHHHHHHhhhHHHHHHHHHHHHHHHH
Q 029734 106 RLRPFLLRHQARLDQILESV---NGEMSQFVSDHQVEFRFVRTLFMKTVAL 153 (189)
Q Consensus 106 ~l~P~l~k~e~~ID~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~k~~~~ 153 (189)
.+.-++.+.+..|.+-++.+ +.+..+....|+..+.-++.-...+...
T Consensus 51 ~v~~~L~~R~~~I~~~l~~Ae~~~~eA~~~l~e~e~~L~~A~~ea~~Ii~~ 101 (184)
T PRK13455 51 MIGGMLDKRAEGIRSELEEARALREEAQTLLASYERKQREVQEQADRIVAA 101 (184)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 56667888888888877654 3445555666666666665555555444
No 21
>PF09726 Macoilin: Transmembrane protein; InterPro: IPR019130 This entry represents the multi-pass transmembrane protein Macoilin, which is highly conserved in eukaryotes. ; GO: 0016021 integral to membrane
Probab=24.75 E-value=1.4e+02 Score=29.92 Aligned_cols=31 Identities=10% Similarity=0.355 Sum_probs=12.7
Q ss_pred HHHHHHHHHHHHHHHHHHHHh-chhhhHHHHH
Q 029734 54 LVYWAVYGSFSIAEMFADKIL-CWFPLYHHVK 84 (189)
Q Consensus 54 L~YWivya~~~~~E~~~d~ll-~wiP~Y~~~K 84 (189)
+.+=++++++.++|.++++=+ ...|+|.+++
T Consensus 31 ~~~~~~w~~~~~~d~~~~~r~e~~~p~wl~~~ 62 (697)
T PF09726_consen 31 VKFLLVWALVLLADFMLEFRFEYLWPFWLLLR 62 (697)
T ss_pred HHHHHHHHHHHHHHHHhhhHHHHHHHHHHHHH
Confidence 333344444444444444333 2234444433
No 22
>PRK10378 inactive ferrous ion transporter periplasmic protein EfeO; Provisional
Probab=24.74 E-value=3e+02 Score=25.54 Aligned_cols=40 Identities=15% Similarity=0.246 Sum_probs=23.9
Q ss_pred CcchhHHHhhhhhhhhhhchHHHHHHHHHHHHHHHHHHHhh
Q 029734 96 TNGAKYFYMSRLRPFLLRHQARLDQILESVNGEMSQFVSDH 136 (189)
Q Consensus 96 t~GA~~lY~~~l~P~l~k~e~~ID~~l~~~~~~~~~~~~~~ 136 (189)
..||..+|+. ++|++.+..++.-.-++.-...+.+.+..|
T Consensus 295 veGa~~~~~~-l~P~l~~~dp~l~~~id~~f~~v~~lL~~~ 334 (375)
T PRK10378 295 VDGSQKIVDL-LRPLLEKANPELLAKVDANFKKVDTILAKY 334 (375)
T ss_pred HHHHHHHHHH-hhhhhhhcCHHHHHHHHHHHHHHHHHHHHh
Confidence 6899999987 699998665444333333333333333333
No 23
>PF03279 Lip_A_acyltrans: Bacterial lipid A biosynthesis acyltransferase; InterPro: IPR004960 Bacterial lipopolysachharides (LPS) are glycolipids that make up the outer monolayer of the outer membranes of most Gram-negative bacteria. Though LPS moleculesare variable, they all show the same general features: an outer polysaccharide which is attached to the lipid component, termed lipid A []. The polysaccharide component consists of a variable repeat-structure polysaccharide known as the O-antigen, and a highly conserved short core oligosaccharide which connects the O-antigen to lipid A. Lipid A is a glucosamine-based phospholipid that makes up the membrane anchor region of LPS []. The structure of lipid A is relatively invariant between species, presumably reflecting its fundamental role in membrane integrity. Recognition of lipid A by the innate immune system can lead to a response even at picomolar levels. In some genera, such as Neisseria and Haemophilus, lipooligosaccharides (LOS) are the predominant glycolipids []. These are analogous to LPS except that they lack O-antigens, with the LOS oligosaccharide structures limited to 10 saccharide units. The bacterial lipid A biosynthesis protein, or lipid A biosynthesis (KDO)2-(lauroyl)-lipid IVA acyltransferase 2.3.1 from EC, transfers myristate or laurate, activated on ACP, to the lipid IVA moiety of (KDO)2-(lauroyl)-lipid IVA during lipopolysaccharide core biosynthesis.; GO: 0016746 transferase activity, transferring acyl groups, 0009244 lipopolysaccharide core region biosynthetic process, 0016021 integral to membrane
Probab=23.83 E-value=4.5e+02 Score=22.30 Aligned_cols=72 Identities=17% Similarity=0.078 Sum_probs=35.1
Q ss_pred hhHHHHHHHHHHHHHHHHHHHHHhchhhhHHHHHHHH-HHHHhcCCCcch-hHHHh--hhhhhhhhhchHHHHHHHHHHH
Q 029734 51 QKWLVYWAVYGSFSIAEMFADKILCWFPLYHHVKFAF-LVWLQLPSTNGA-KYFYM--SRLRPFLLRHQARLDQILESVN 126 (189)
Q Consensus 51 ~~WL~YWivya~~~~~E~~~d~ll~wiP~Y~~~Kl~f-llwL~~P~t~GA-~~lY~--~~l~P~l~k~e~~ID~~l~~~~ 126 (189)
-.-+.||..|.... +-.++..+|.-...+++- +.++..+-.... ..+-. +.+-| .+.++++++++....
T Consensus 8 ~~~~~~~~~~~~~~-----~~~~~~~lP~~~~~~l~~~lg~l~~~~~~~~r~~~~~NL~~~fp--~~~~~e~~~l~~~~~ 80 (295)
T PF03279_consen 8 LRHLRYYIEWLVKF-----LIWLLRLLPLKLAYKLGRFLGRLLYYLIKKRRKRARANLRRAFP--EKSEAERKKLIRESF 80 (295)
T ss_pred HhCHHHHHHHHHHH-----HHHHHHhCCHHHHHHHHHHHHHHHHHhccHHHHHHHHHHHHhCC--CCCHHHHHHHHHHHH
Confidence 35567776654432 224568888866666543 333333222222 22222 22234 445566666665554
Q ss_pred HHH
Q 029734 127 GEM 129 (189)
Q Consensus 127 ~~~ 129 (189)
..+
T Consensus 81 ~~~ 83 (295)
T PF03279_consen 81 RNF 83 (295)
T ss_pred HHH
Confidence 443
No 24
>KOG4304 consensus Transcriptional repressors of the hairy/E(spl) family (contains HLH) [Transcription]
Probab=23.60 E-value=4.5e+02 Score=22.90 Aligned_cols=41 Identities=15% Similarity=0.334 Sum_probs=33.8
Q ss_pred CCcchhHHHhhhhhhhhhh-chHHHHHHHHHHHHHHHHHHHh
Q 029734 95 STNGAKYFYMSRLRPFLLR-HQARLDQILESVNGEMSQFVSD 135 (189)
Q Consensus 95 ~t~GA~~lY~~~l~P~l~k-~e~~ID~~l~~~~~~~~~~~~~ 135 (189)
...+....|+|.-+|+++| ..++|.+-|+++++-+....++
T Consensus 23 ~~~~~~~~~rk~~Kpl~EKkRRaRIN~~L~eLK~Li~e~~~~ 64 (250)
T KOG4304|consen 23 ERSSKTRQYRKVRKPLLEKKRRARINRCLDELKDLIPEALKK 64 (250)
T ss_pred CcchhhHHHhhhcchhHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 3567889999999999965 6778999999999888776655
No 25
>PRK06569 F0F1 ATP synthase subunit B'; Validated
Probab=23.45 E-value=4.1e+02 Score=21.59 Aligned_cols=50 Identities=8% Similarity=-0.009 Sum_probs=34.0
Q ss_pred hhhhhhhchHHHHHHHHH---HHHHHHHHHHhhhHHHHHHHHHHHHHHHHHHH
Q 029734 107 LRPFLLRHQARLDQILES---VNGEMSQFVSDHQVEFRFVRTLFMKTVALVNQ 156 (189)
Q Consensus 107 l~P~l~k~e~~ID~~l~~---~~~~~~~~~~~~~~~~~~~~~~~~k~~~~~~~ 156 (189)
+...+.+.+..|+.-++. .+.+..+....|+..++-++.-+.++....-.
T Consensus 35 I~~iLe~R~~~I~~~L~~Ae~~k~eAe~l~a~ye~~L~~Ar~eA~~I~~e~~~ 87 (155)
T PRK06569 35 AEEIFNNRQTNIQDNITQADTLTIEVEKLNKYYNEEIDKTNTEIDRLKKEKID 87 (155)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 455577788888887755 45566667777888888777777666554333
No 26
>TIGR01102 yscR type III secretion apparatus protein, YscR/HrcR family. This model identifies the generic virulence translocation proteins in bacteria. It derives its name:'Yop' from Yersinia enterocolitica species, where this virulence protein was identified. In bacterial pathogenesis, Yop effector proteins are translocated into the eukaryotic cells.
Probab=23.18 E-value=2e+02 Score=24.56 Aligned_cols=38 Identities=8% Similarity=-0.005 Sum_probs=30.9
Q ss_pred hHHHhhhhhhhh-hhchHHHHHHHHHHHHHHHHHHHhhh
Q 029734 100 KYFYMSRLRPFL-LRHQARLDQILESVNGEMSQFVSDHQ 137 (189)
Q Consensus 100 ~~lY~~~l~P~l-~k~e~~ID~~l~~~~~~~~~~~~~~~ 137 (189)
.-+|++.++|+. .+.+...++.+++..+-+++|+.++-
T Consensus 63 ~~i~~~a~~p~~~~~~~~~~~~a~~~~~~Plr~Fm~~~t 101 (202)
T TIGR01102 63 HQAQDRFHQEPVAYSNIDFLQKSLDAGLAPYREFLKKNT 101 (202)
T ss_pred HHHHHHHhCCcccccccchHHHHHHHHHHHHHHHHHHcC
Confidence 467889999997 45567788889999999999988873
No 27
>PRK13707 conjugal transfer pilus assembly protein TraL; Provisional
Probab=22.96 E-value=1.8e+02 Score=21.85 Aligned_cols=27 Identities=15% Similarity=0.332 Sum_probs=20.2
Q ss_pred HHHHHHHhhcCChhhhhhHHHHHHHHH
Q 029734 35 VYSTFKAIESKDENEKQKWLVYWAVYG 61 (189)
Q Consensus 35 aY~S~kal~~~~~~~~~~WL~YWivya 61 (189)
.+..++-+|+...+..-..+.||-.=+
T Consensus 55 ~~~~~r~lK~g~g~~~l~h~~YW~lP~ 81 (101)
T PRK13707 55 VWFGIRKLKKGRGSSWLRDLIYWYLPT 81 (101)
T ss_pred HHHHHHHHHcCCChhHHHHHHHHhcch
Confidence 577788888877777778889996444
No 28
>PF06570 DUF1129: Protein of unknown function (DUF1129); InterPro: IPR009214 There are currently no experimental data for members of this group or their homologues. However, these proteins contain predicted integral membrane proteins (with several transmembrane segments).
Probab=22.24 E-value=3.8e+02 Score=22.00 Aligned_cols=37 Identities=19% Similarity=0.293 Sum_probs=19.0
Q ss_pred hhhccccHHHHHHHhhc-CChhhhhhHHHHHHHHHHHHHH
Q 029734 28 SVGTILPVYSTFKAIES-KDENEKQKWLVYWAVYGSFSIA 66 (189)
Q Consensus 28 ~iG~~yPaY~S~kal~~-~~~~~~~~WL~YWivya~~~~~ 66 (189)
+.|+++.. -++.+.+ +++.....|.+||.+..+..++
T Consensus 122 ~~G~~~~~--~~~~i~~~~~~~~r~~~~k~~~~~~~~~~~ 159 (206)
T PF06570_consen 122 VGGLVFYF--IFKYIYPYKKKKKRPSWWKYILISVLAMVL 159 (206)
T ss_pred HHHHHHHH--HHHHHhcccccccccHHHHHHHHHHHHHHH
Confidence 34555543 3555554 3333445677777665544443
No 29
>KOG2033 consensus Low density lipoprotein B-like protein [Lipid transport and metabolism]
Probab=21.62 E-value=4.9e+02 Score=26.58 Aligned_cols=59 Identities=10% Similarity=0.082 Sum_probs=38.1
Q ss_pred hhHHHhhhhhhhhhhchHHHHHHHHHHHHHHHH-HHHhhhHHHHHH------HHHHHHHHHHHHHH
Q 029734 99 AKYFYMSRLRPFLLRHQARLDQILESVNGEMSQ-FVSDHQVEFRFV------RTLFMKTVALVNQT 157 (189)
Q Consensus 99 A~~lY~~~l~P~l~k~e~~ID~~l~~~~~~~~~-~~~~~~~~~~~~------~~~~~k~~~~~~~~ 157 (189)
++-+|+..=---+...|++|...++.-++++.+ +.++|++-++.+ ++.+.+.+..+...
T Consensus 10 vd~LFethsvsEIr~ve~~ir~~iE~KrEELRqmVGeRYRDLleAADtI~hM~sla~~L~~~I~~t 75 (863)
T KOG2033|consen 10 VDTLFETHSVSEIREVEKKIRSVIEGKREELRQMVGERYRDLLEAADTIRHMCSLADKLASDIANT 75 (863)
T ss_pred HHHHHHhCCHHHHHHHHHHHHHHHhccHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 344555544444556677778888888888887 467777666655 66666666665544
No 30
>COG2928 Uncharacterized conserved protein [Function unknown]
Probab=20.91 E-value=5.5e+02 Score=22.21 Aligned_cols=20 Identities=20% Similarity=0.418 Sum_probs=15.7
Q ss_pred hHHHHHHHHHHHHHHHHHHH
Q 029734 52 KWLVYWAVYGSFSIAEMFAD 71 (189)
Q Consensus 52 ~WL~YWivya~~~~~E~~~d 71 (189)
-++++|++..++.+++.+..
T Consensus 20 laiT~~vv~~i~~~l~~~~~ 39 (222)
T COG2928 20 LAITLWVVSWIFGLLDQFVG 39 (222)
T ss_pred HHHHHHHHHHHHHHHHHhhh
Confidence 46788888888888887775
No 31
>TIGR02762 TraL_TIGR type IV conjugative transfer system protein TraL. This protein is part of the type IV secretion system for conjugative plasmid transfer. The function of the TraL protein is unknown.
Probab=20.71 E-value=2.4e+02 Score=20.73 Aligned_cols=28 Identities=21% Similarity=0.513 Sum_probs=20.2
Q ss_pred HHHHHHHhhcCChhhhhhHHHHHHHHHH
Q 029734 35 VYSTFKAIESKDENEKQKWLVYWAVYGS 62 (189)
Q Consensus 35 aY~S~kal~~~~~~~~~~WL~YWivya~ 62 (189)
++..++-+|+...+..-..+.||..-+.
T Consensus 52 ~~~~lrr~K~g~~~~~l~h~~YW~~p~~ 79 (95)
T TIGR02762 52 IWKRLRRIKGGEGENFLLHLFYWYLPGS 79 (95)
T ss_pred HHHHHHHHHcCCChhHHHHHHHHHcccc
Confidence 3444777888878888889999964443
No 32
>PRK13454 F0F1 ATP synthase subunit B'; Provisional
Probab=20.46 E-value=4.7e+02 Score=21.20 Aligned_cols=48 Identities=13% Similarity=0.062 Sum_probs=29.8
Q ss_pred hhhhhhhchHHHHHHHHHH---HHHHHHHHHhhhHHHHHHHHHHHHHHHHH
Q 029734 107 LRPFLLRHQARLDQILESV---NGEMSQFVSDHQVEFRFVRTLFMKTVALV 154 (189)
Q Consensus 107 l~P~l~k~e~~ID~~l~~~---~~~~~~~~~~~~~~~~~~~~~~~k~~~~~ 154 (189)
|..++.+.+..|++-++.+ +.+..+....|+..++-++.-..++...+
T Consensus 56 I~~~l~~R~~~I~~~l~~Ae~~~~eA~~~~~eye~~L~~Ar~EA~~ii~~A 106 (181)
T PRK13454 56 IGAVLAERQGTITNDLAAAEELKQKAVEAEKAYNKALADARAEAQRIVAET 106 (181)
T ss_pred HHHHHHHHHHHHHhHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4556677777777766543 45556666777666666665555555444
Done!