Query 040390
Match_columns 69
No_of_seqs 106 out of 121
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 07:58:27 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/040390.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/040390hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF11820 DUF3339: Protein of u 100.0 7.1E-47 1.5E-51 237.3 8.6 68 1-68 1-68 (68)
2 COG2864 FdnI Cytochrome b subu 84.7 0.55 1.2E-05 35.0 1.5 50 11-69 123-174 (218)
3 KOG4580 Component of vacuolar 58.6 5.6 0.00012 27.4 1.2 25 2-26 84-108 (112)
4 COG5264 VTC1 Vacuolar transpor 47.9 9.1 0.0002 26.8 0.9 22 3-24 100-121 (126)
5 PF07330 DUF1467: Protein of u 43.6 54 0.0012 21.1 3.9 47 11-57 16-70 (85)
6 PF13955 Fst_toxin: Toxin Fst, 35.4 29 0.00064 17.6 1.4 11 5-15 6-16 (21)
7 PF04483 DUF565: Protein of un 27.1 54 0.0012 19.5 1.8 54 2-63 3-57 (60)
8 PF09680 Tiny_TM_bacill: Prote 25.7 45 0.00097 17.5 1.1 8 10-17 9-16 (24)
9 PF11610 Ste5: Scaffold protei 25.6 42 0.00092 18.3 1.0 15 17-31 15-29 (30)
10 TIGR03257 met_CoM_red_bet meth 24.6 42 0.00091 27.6 1.3 29 21-50 108-139 (433)
11 COG3123 Uncharacterized protei 24.4 45 0.00099 22.4 1.2 14 17-30 65-78 (94)
12 COG3966 DltD Protein involved 23.6 58 0.0013 26.8 1.9 14 4-17 7-20 (415)
13 KOG4054 Uncharacterized conser 22.9 74 0.0016 23.6 2.2 15 42-56 39-53 (183)
14 PF05440 MtrB: Tetrahydrometha 20.9 1.5E+02 0.0033 19.7 3.2 35 21-55 59-93 (97)
15 TIGR02794 tolA_full TolA prote 20.3 97 0.0021 24.0 2.5 15 41-55 5-19 (346)
No 1
>PF11820 DUF3339: Protein of unknown function (DUF3339); InterPro: IPR021775 This family of proteins are functionally uncharacterised. This family is found in eukaryotes. Proteins in this family are about 70 amino acids in length.
Probab=100.00 E-value=7.1e-47 Score=237.32 Aligned_cols=68 Identities=81% Similarity=1.358 Sum_probs=67.4
Q ss_pred CCCchHHHHHHHHHHHhCcceeEEecCCCceEEeecccchHHHHHHHHHHHHHHHHHHHHHHhheeec
Q 040390 1 MADWGPVVIATVLFVLLTPGLLFQIPGRNRVVEFGNMQTSGASILVHSVIFFGLITIFLIAITVHIYT 68 (69)
Q Consensus 1 m~DWgpV~i~vvLFvlLsPGLLfq~PG~~r~veFgn~~Tsg~si~vHa~ifF~l~~if~~ai~vHiy~ 68 (69)
|+|||||+|+++||++||||||||+|||+|++|||||||||+||+|||++||+++++|++|+++|+|+
T Consensus 1 M~DWgpv~i~vvLFvlLsPGLLfqlPG~~r~veFgn~~Tsg~si~vHa~iff~l~~i~~va~~vhiy~ 68 (68)
T PF11820_consen 1 MADWGPVLIAVVLFVLLSPGLLFQLPGRGRVVEFGNMKTSGKSILVHALIFFALFTIFLVAIGVHIYT 68 (68)
T ss_pred CCcchhHHHHHHHHHHhCCceEEEecCCCceEEEcCCcchHHHHHHHHHHHHHHHHHHHHHheeEeeC
Confidence 89999999999999999999999999999999999999999999999999999999999999999996
No 2
>COG2864 FdnI Cytochrome b subunit of formate dehydrogenase [Energy production and conversion]
Probab=84.71 E-value=0.55 Score=35.00 Aligned_cols=50 Identities=26% Similarity=0.384 Sum_probs=38.2
Q ss_pred HHHHHHhCcceeE--EecCCCceEEeecccchHHHHHHHHHHHHHHHHHHHHHHhheeecC
Q 040390 11 TVLFVLLTPGLLF--QIPGRNRVVEFGNMQTSGASILVHSVIFFGLITIFLIAITVHIYTG 69 (69)
Q Consensus 11 vvLFvlLsPGLLf--q~PG~~r~veFgn~~Tsg~si~vHa~ifF~l~~if~~ai~vHiy~g 69 (69)
+..++++--|+.. |.|.. +++..+...|.++|+.--+.+.+++ .+|+|++
T Consensus 123 l~~~~l~iTGivmw~~y~~~-----~~~i~~~r~s~l~h~~~a~~l~~~~----~vHiy~a 174 (218)
T COG2864 123 LAIVLLLITGIVIWRPYFAP-----YFSIPLLRLSLLLHAFAAVILIFII----IVHIYMA 174 (218)
T ss_pred HHHHHHHHHHHHHHhhhccc-----cccHHHHHHHHHHHHHHHHHHHHHH----HHHHHHH
Confidence 3446666778877 77765 7889999999999999888776554 4788864
No 3
>KOG4580 consensus Component of vacuolar transporter chaperone (Vtc) involved in vacuole fusion [Intracellular trafficking, secretion, and vesicular transport; Posttranslational modification, protein turnover, chaperones]
Probab=58.57 E-value=5.6 Score=27.38 Aligned_cols=25 Identities=24% Similarity=0.519 Sum_probs=19.2
Q ss_pred CCchHHHHHHHHHHHhCcceeEEec
Q 040390 2 ADWGPVVIATVLFVLLTPGLLFQIP 26 (69)
Q Consensus 2 ~DWgpV~i~vvLFvlLsPGLLfq~P 26 (69)
.-|||.+++++||+.++--..+.++
T Consensus 84 d~~GP~~v~~vl~valivN~~~~f~ 108 (112)
T KOG4580|consen 84 DRLGPTLVCVVLLVALIVNFILAFK 108 (112)
T ss_pred CcccchHHHHHHHHHHHHHHHHhhh
Confidence 3599999999999998755554443
No 4
>COG5264 VTC1 Vacuolar transporter chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=47.93 E-value=9.1 Score=26.79 Aligned_cols=22 Identities=27% Similarity=0.576 Sum_probs=17.1
Q ss_pred CchHHHHHHHHHHHhCcceeEE
Q 040390 3 DWGPVVIATVLFVLLTPGLLFQ 24 (69)
Q Consensus 3 DWgpV~i~vvLFvlLsPGLLfq 24 (69)
-|||.+++++|++.+.=-..+.
T Consensus 100 ~~GP~lv~vvL~valivNf~~~ 121 (126)
T COG5264 100 RLGPTLVCVVLLVALIVNFFLA 121 (126)
T ss_pred ccCCchhHHHHHHHHHHHHhhc
Confidence 5999999999999886444333
No 5
>PF07330 DUF1467: Protein of unknown function (DUF1467); InterPro: IPR009935 This family consists of several bacterial proteins of around 90 residues in length. The function of this family is unknown.
Probab=43.61 E-value=54 Score=21.05 Aligned_cols=47 Identities=26% Similarity=0.342 Sum_probs=29.1
Q ss_pred HHHHHHhCcceeEE------ecCCCc--eEEeecccchHHHHHHHHHHHHHHHHH
Q 040390 11 TVLFVLLTPGLLFQ------IPGRNR--VVEFGNMQTSGASILVHSVIFFGLITI 57 (69)
Q Consensus 11 vvLFvlLsPGLLfq------~PG~~r--~veFgn~~Tsg~si~vHa~ifF~l~~i 57 (69)
.+||+.|-=|+==| .||.+. +.++.=.|--...-.+=+++|.+.+.+
T Consensus 16 ~~lF~vLP~gvrtq~E~g~vv~Gt~~sAP~~~~l~rk~~~TTiiaavi~~~~~~~ 70 (85)
T PF07330_consen 16 IVLFAVLPFGVRTQDEAGEVVPGTDPSAPANPRLKRKALITTIIAAVIFAIIYLI 70 (85)
T ss_pred HHHHHHccCCccccCcCCCcCCCCCCCCCCCchHHHHHHHHHHHHHHHHHHHHHH
Confidence 57899998888666 567654 555655554444555555555555444
No 6
>PF13955 Fst_toxin: Toxin Fst, type I toxin-antitoxin system; PDB: 2KV5_A.
Probab=35.42 E-value=29 Score=17.61 Aligned_cols=11 Identities=36% Similarity=0.763 Sum_probs=8.7
Q ss_pred hHHHHHHHHHH
Q 040390 5 GPVVIATVLFV 15 (69)
Q Consensus 5 gpV~i~vvLFv 15 (69)
||++++++|=+
T Consensus 6 aPi~VGvvl~l 16 (21)
T PF13955_consen 6 APIVVGVVLTL 16 (21)
T ss_dssp HHHHHHHHHHH
T ss_pred hhHHHHHHHHH
Confidence 79999998743
No 7
>PF04483 DUF565: Protein of unknown function (DUF565); InterPro: IPR007572 This family represents Ycf20, it is found in cyanobacteria and is also encoded in plant and algal chloroplasts; its function is unknown. As the family is exclusively found in phototrophic organisms it may therefore play a role in photosynthesis.
Probab=27.08 E-value=54 Score=19.54 Aligned_cols=54 Identities=19% Similarity=0.249 Sum_probs=28.5
Q ss_pred CCchHHHHHHHHHHHhCcce-eEEecCCCceEEeecccchHHHHHHHHHHHHHHHHHHHHHHh
Q 040390 2 ADWGPVVIATVLFVLLTPGL-LFQIPGRNRVVEFGNMQTSGASILVHSVIFFGLITIFLIAIT 63 (69)
Q Consensus 2 ~DWgpV~i~vvLFvlLsPGL-Lfq~PG~~r~veFgn~~Tsg~si~vHa~ifF~l~~if~~ai~ 63 (69)
+||.|++.+.+++..=.=+- ...-|. +.+.+..-.++...=-..+|.+|+=|.+
T Consensus 3 g~wD~i~a~~iv~~~E~i~~l~Y~~~~--------~~~~~~~~~~lN~~KiGl~YgLfleAFK 57 (60)
T PF04483_consen 3 GDWDVIAAAIIVLFIEVISRLRYSKPK--------KKRKSLLVELLNNFKIGLLYGLFLEAFK 57 (60)
T ss_pred chhHHHHHHHHHHHHHHHHHHhhcccc--------ccccchHHHHHHHHHHHHHHHHHHHHHh
Confidence 69999988877654311111 122222 2223334445555555667777766654
No 8
>PF09680 Tiny_TM_bacill: Protein of unknown function (Tiny_TM_bacill); InterPro: IPR010070 This entry represents a family of hypothetical proteins, half of which are 40 residues or less in length. Members are found only in spore-forming species. A Gly-rich variable region is followed by a strongly conserved, highly hydrophobic region, predicted to form a transmembrane helix, ending with an invariant Gly. The consensus for this stretch is FALLVVFILLIIV.
Probab=25.70 E-value=45 Score=17.46 Aligned_cols=8 Identities=63% Similarity=1.028 Sum_probs=5.7
Q ss_pred HHHHHHHh
Q 040390 10 ATVLFVLL 17 (69)
Q Consensus 10 ~vvLFvlL 17 (69)
-++||++|
T Consensus 9 ivVLFILL 16 (24)
T PF09680_consen 9 IVVLFILL 16 (24)
T ss_pred HHHHHHHH
Confidence 36788876
No 9
>PF11610 Ste5: Scaffold protein Ste5-Fus5 binding region; InterPro: IPR021651 This family of proteins represents the Fus5 binding domain of Ste5. Ste5 functions in the yeast mating pathway and is required for signalling through the mating response MAPK pathway. Ste5 has separate binding sites for each member of the MAPK cascade. This region of Ste5 allosterically activates autophosphroylation of Fus3, a mitogen-activated protein kinase. Auto-activated Fus3 has a negative regulatory role, and promotes Ste5 phosphorylation which leads to a decrease in pathway transcriptional output [].
Probab=25.63 E-value=42 Score=18.28 Aligned_cols=15 Identities=33% Similarity=0.749 Sum_probs=13.0
Q ss_pred hCcceeEEecCCCce
Q 040390 17 LTPGLLFQIPGRNRV 31 (69)
Q Consensus 17 LsPGLLfq~PG~~r~ 31 (69)
|+|.|++--|.++|.
T Consensus 15 l~pnlilaappk~rn 29 (30)
T PF11610_consen 15 LNPNLILAAPPKDRN 29 (30)
T ss_pred CCcCeeEecCccccc
Confidence 789999999998873
No 10
>TIGR03257 met_CoM_red_bet methyl-coenzyme M reductase, beta subunit. Members of this protein family are the beta subunit of methyl coenzyme M reductase, also called coenzyme-B sulfoethylthiotransferase (EC 2.8.4.1). This enzyme, with alpha, beta, and gamma subunits, catalyzes the last step in methanogenesis. Several methanogens have encode two such enzymes, designated I and II; this model does not separate the isozymes.
Probab=24.64 E-value=42 Score=27.63 Aligned_cols=29 Identities=28% Similarity=0.533 Sum_probs=24.9
Q ss_pred eeEEecCCCce---EEeecccchHHHHHHHHHH
Q 040390 21 LLFQIPGRNRV---VEFGNMQTSGASILVHSVI 50 (69)
Q Consensus 21 LLfq~PG~~r~---veFgn~~Tsg~si~vHa~i 50 (69)
+|.|+|-+ |. -|+..--|+..+.++|++|
T Consensus 108 llvqvPs~-Ri~~aa~y~v~~~~~~~A~~~aii 139 (433)
T TIGR03257 108 LLIQVPSS-RLIAAAEYSVATLVTAAAVTQTII 139 (433)
T ss_pred EEEeCChH-hhhhhcchhHHHHHHHHHHHHHHH
Confidence 78999954 55 7899999999999999987
No 11
>COG3123 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=24.35 E-value=45 Score=22.36 Aligned_cols=14 Identities=36% Similarity=0.833 Sum_probs=12.0
Q ss_pred hCcceeEEecCCCc
Q 040390 17 LTPGLLFQIPGRNR 30 (69)
Q Consensus 17 LsPGLLfq~PG~~r 30 (69)
-.||=-||+||+++
T Consensus 65 ~~~Ge~F~VpgnS~ 78 (94)
T COG3123 65 YTAGEVFNVPGNSE 78 (94)
T ss_pred ecCCceEEcCCCCe
Confidence 36899999999984
No 12
>COG3966 DltD Protein involved in D-alanine esterification of lipoteichoic acid and wall teichoic acid (D-alanine transfer protein) [Cell envelope biogenesis, outer membrane]
Probab=23.59 E-value=58 Score=26.75 Aligned_cols=14 Identities=57% Similarity=1.137 Sum_probs=12.4
Q ss_pred chHHHHHHHHHHHh
Q 040390 4 WGPVVIATVLFVLL 17 (69)
Q Consensus 4 WgpV~i~vvLFvlL 17 (69)
-||++||.+||+++
T Consensus 7 fGPlliA~alf~~~ 20 (415)
T COG3966 7 FGPLLIAFALFILL 20 (415)
T ss_pred hhHHHHHHHHHHHH
Confidence 58999999999875
No 13
>KOG4054 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.88 E-value=74 Score=23.57 Aligned_cols=15 Identities=27% Similarity=0.563 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHH
Q 040390 42 ASILVHSVIFFGLIT 56 (69)
Q Consensus 42 ~si~vHa~ifF~l~~ 56 (69)
+-|+||++||+...+
T Consensus 39 ~lifvh~lI~v~mla 53 (183)
T KOG4054|consen 39 KLIFVHALIWVLMLA 53 (183)
T ss_pred HHHHHHHHHHHHHHH
Confidence 348999999987754
No 14
>PF05440 MtrB: Tetrahydromethanopterin S-methyltransferase subunit B; InterPro: IPR008690 The N5-methyltetrahydromethanopterin: coenzyme M (2.1.1.86 from EC) of Methanosarcina mazei Go1 is a membrane-associated, corrinoid-containing protein that uses a transmethylation reaction to drive an energy-conserving sodium ion pump [].; GO: 0030269 tetrahydromethanopterin S-methyltransferase activity, 0015948 methanogenesis, 0016021 integral to membrane
Probab=20.89 E-value=1.5e+02 Score=19.73 Aligned_cols=35 Identities=20% Similarity=0.272 Sum_probs=22.1
Q ss_pred eeEEecCCCceEEeecccchHHHHHHHHHHHHHHH
Q 040390 21 LLFQIPGRNRVVEFGNMQTSGASILVHSVIFFGLI 55 (69)
Q Consensus 21 LLfq~PG~~r~veFgn~~Tsg~si~vHa~ifF~l~ 55 (69)
.+-..|||++.-+-.++-|+-.==++=.+++.+++
T Consensus 59 ~l~S~PgREg~~~~AG~~tn~fyGf~igL~i~~lv 93 (97)
T PF05440_consen 59 PLNSFPGREGTYYIAGIFTNMFYGFIIGLVIAGLV 93 (97)
T ss_pred ccccCCCCccceeehhhhhhHHHHHHHHHHHHHHH
Confidence 45678999988888777777544344444444333
No 15
>TIGR02794 tolA_full TolA protein. TolA couples the inner membrane complex of itself with TolQ and TolR to the outer membrane complex of TolB and OprL (also called Pal). Most of the length of the protein consists of low-complexity sequence that may differ in both length and composition from one species to another, complicating efforts to discriminate TolA (the most divergent gene in the tol-pal system) from paralogs such as TonB. Selection of members of the seed alignment and criteria for setting scoring cutoffs are based largely conserved operon struction. //The Tol-Pal complex is required for maintaining outer membrane integrity. Also involved in transport (uptake) of colicins and filamentous DNA, and implicated in pathogenesis. Transport is energized by the proton motive force. TolA is an inner membrane protein that interacts with periplasmic TolB and with outer membrane porins ompC, phoE and lamB.
Probab=20.31 E-value=97 Score=23.98 Aligned_cols=15 Identities=33% Similarity=0.321 Sum_probs=11.9
Q ss_pred HHHHHHHHHHHHHHH
Q 040390 41 GASILVHSVIFFGLI 55 (69)
Q Consensus 41 g~si~vHa~ifF~l~ 55 (69)
..|+++|.+++.+|+
T Consensus 5 ~lSv~lHvlLi~lL~ 19 (346)
T TIGR02794 5 LLSLLLHILLLGLLI 19 (346)
T ss_pred HHHHHHHHHHHHHHH
Confidence 579999998886664
Done!