Query 035278
Match_columns 69
No_of_seqs 100 out of 115
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 10:37:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/035278.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/035278hhsearch_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 4.5E-47 9.8E-52 238.5 8.4 68 1-68 1-68 (68)
2 COG2864 FdnI Cytochrome b subu 82.2 0.89 1.9E-05 33.9 1.7 50 11-69 123-174 (218)
3 KOG4580 Component of vacuolar 55.4 7.5 0.00016 26.8 1.4 25 2-26 84-108 (112)
4 COG5264 VTC1 Vacuolar transpor 44.7 12 0.00026 26.2 1.1 22 3-24 100-121 (126)
5 PF07330 DUF1467: Protein of u 38.7 66 0.0014 20.7 3.7 47 11-57 16-70 (85)
6 PF13955 Fst_toxin: Toxin Fst, 35.0 29 0.00063 17.7 1.3 10 5-14 6-15 (21)
7 PF09680 Tiny_TM_bacill: Prote 28.2 38 0.00082 17.8 1.1 9 10-18 9-17 (24)
8 PF04483 DUF565: Protein of un 27.4 52 0.0011 19.7 1.8 54 2-63 3-57 (60)
9 PF05440 MtrB: Tetrahydrometha 25.7 1E+02 0.0022 20.6 3.1 35 21-55 59-93 (97)
10 COG3123 Uncharacterized protei 25.5 41 0.00089 22.6 1.2 14 17-30 65-78 (94)
11 COG3966 DltD Protein involved 24.1 55 0.0012 26.9 1.9 14 4-17 7-20 (415)
12 KOG4054 Uncharacterized conser 22.8 74 0.0016 23.6 2.2 14 43-56 40-53 (183)
13 TIGR01732 tiny_TM_bacill conse 21.8 58 0.0013 17.3 1.1 10 8-17 9-18 (26)
14 TIGR02615 spoVE stage V sporul 21.2 2.1E+02 0.0045 21.7 4.4 34 4-37 66-102 (354)
15 TIGR02794 tolA_full TolA prote 20.9 93 0.002 24.1 2.5 15 41-55 5-19 (346)
16 PF05398 PufQ: PufQ cytochrome 20.8 75 0.0016 20.4 1.6 14 50-65 23-36 (73)
17 PF08523 MBF1: Multiprotein br 20.8 33 0.00071 21.3 0.0 9 2-10 1-10 (71)
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=4.5e-47 Score=238.48 Aligned_cols=68 Identities=69% Similarity=1.269 Sum_probs=67.4
Q ss_pred CCCchhHHHHHHHHHHhccceeEEecCCCceeeecCCcccHHHHHHHHHHHHHHHHHHHHHHhheecc
Q 035278 1 MADWGPVVIGVVLFVLLQPGLLFQLPGHSRLLEFGSMKTNGKAISVHTLIFFVLYAILILAVHVHIYS 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=82.18 E-value=0.89 Score=33.91 Aligned_cols=50 Identities=22% Similarity=0.369 Sum_probs=37.8
Q ss_pred HHHHHHhccceeE--EecCCCceeeecCCcccHHHHHHHHHHHHHHHHHHHHHHhheeccC
Q 035278 11 VVLFVLLQPGLLF--QLPGHSRLLEFGSMKTNGKAISVHTLIFFVLYAILILAVHVHIYSG 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 3446666778777 66654 6889999999999999888876654 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=55.44 E-value=7.5 Score=26.82 Aligned_cols=25 Identities=28% Similarity=0.527 Sum_probs=19.2
Q ss_pred CCchhHHHHHHHHHHhccceeEEec
Q 035278 2 ADWGPVVIGVVLFVLLQPGLLFQLP 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 3599999999999998765554444
No 4
>COG5264 VTC1 Vacuolar transporter chaperone [Posttranslational modification, protein turnover, chaperones]
Probab=44.66 E-value=12 Score=26.21 Aligned_cols=22 Identities=32% Similarity=0.570 Sum_probs=17.0
Q ss_pred CchhHHHHHHHHHHhccceeEE
Q 035278 3 DWGPVVIGVVLFVLLQPGLLFQ 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 5999999999999876444333
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=38.70 E-value=66 Score=20.66 Aligned_cols=47 Identities=26% Similarity=0.388 Sum_probs=28.5
Q ss_pred HHHHHHhccceeEE------ecCCCc--eeeecCCcccHHHHHHHHHHHHHHHHH
Q 035278 11 VVLFVLLQPGLLFQ------LPGHSR--LLEFGSMKTNGKAISVHTLIFFVLYAI 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 677665 566655444444444555555544443
No 6
>PF13955 Fst_toxin: Toxin Fst, type I toxin-antitoxin system; PDB: 2KV5_A.
Probab=34.98 E-value=29 Score=17.68 Aligned_cols=10 Identities=60% Similarity=1.095 Sum_probs=8.3
Q ss_pred hhHHHHHHHH
Q 035278 5 GPVVIGVVLF 14 (69)
Q Consensus 5 gpV~i~vvLF 14 (69)
||+++|++|=
T Consensus 6 aPi~VGvvl~ 15 (21)
T PF13955_consen 6 APIVVGVVLT 15 (21)
T ss_dssp HHHHHHHHHH
T ss_pred hhHHHHHHHH
Confidence 7999999874
No 7
>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=28.21 E-value=38 Score=17.79 Aligned_cols=9 Identities=67% Similarity=0.833 Sum_probs=6.2
Q ss_pred HHHHHHHhc
Q 035278 10 GVVLFVLLQ 18 (69)
Q Consensus 10 ~vvLFvlLs 18 (69)
-++||+||.
T Consensus 9 ivVLFILLi 17 (24)
T PF09680_consen 9 IVVLFILLI 17 (24)
T ss_pred HHHHHHHHH
Confidence 467888773
No 8
>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=27.39 E-value=52 Score=19.66 Aligned_cols=54 Identities=11% Similarity=0.277 Sum_probs=27.8
Q ss_pred CCchhHHHHHHHHHHhccce-eEEecCCCceeeecCCcccHHHHHHHHHHHHHHHHHHHHHHh
Q 035278 2 ADWGPVVIGVVLFVLLQPGL-LFQLPGHSRLLEFGSMKTNGKAISVHTLIFFVLYAILILAVH 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 2222334444555555566666666543
No 9
>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=25.70 E-value=1e+02 Score=20.59 Aligned_cols=35 Identities=20% Similarity=0.070 Sum_probs=21.8
Q ss_pred eeEEecCCCceeeecCCcccHHHHHHHHHHHHHHH
Q 035278 21 LLFQLPGHSRLLEFGSMKTNGKAISVHTLIFFVLY 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 45578999988888777777543333344443333
No 10
>COG3123 Uncharacterized protein conserved in bacteria [Function unknown]
Probab=25.47 E-value=41 Score=22.62 Aligned_cols=14 Identities=36% Similarity=0.795 Sum_probs=12.0
Q ss_pred hccceeEEecCCCc
Q 035278 17 LQPGLLFQLPGHSR 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 46899999999983
No 11
>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=24.08 E-value=55 Score=26.92 Aligned_cols=14 Identities=50% Similarity=1.146 Sum_probs=12.5
Q ss_pred chhHHHHHHHHHHh
Q 035278 4 WGPVVIGVVLFVLL 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 58999999999876
No 12
>KOG4054 consensus Uncharacterized conserved protein [Function unknown]
Probab=22.80 E-value=74 Score=23.60 Aligned_cols=14 Identities=43% Similarity=0.683 Sum_probs=11.3
Q ss_pred HHHHHHHHHHHHHH
Q 035278 43 AISVHTLIFFVLYA 56 (69)
Q Consensus 43 si~VHa~ifF~l~~ 56 (69)
-|+||++||+...+
T Consensus 40 lifvh~lI~v~mla 53 (183)
T KOG4054|consen 40 LIFVHALIWVLMLA 53 (183)
T ss_pred HHHHHHHHHHHHHH
Confidence 48899999987754
No 13
>TIGR01732 tiny_TM_bacill conserved hypothetical tiny transmembrane protein. This model 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=21.76 E-value=58 Score=17.33 Aligned_cols=10 Identities=60% Similarity=0.909 Sum_probs=6.7
Q ss_pred HHHHHHHHHh
Q 035278 8 VIGVVLFVLL 17 (69)
Q Consensus 8 ~i~vvLFvlL 17 (69)
..-++||++|
T Consensus 9 ~livVLFILL 18 (26)
T TIGR01732 9 ALIVVLFILL 18 (26)
T ss_pred HHHHHHHHHH
Confidence 3456788876
No 14
>TIGR02615 spoVE stage V sporulation protein E. This model represents an exception within the members of the FtsW model TIGR02614. This exception occurs only in endospore-forming genera such as Bacillus, Geobacillus, and Oceanobacillus. Like FtsW, members are found in a peptidoglycan operon context, but in these genera they part of a larger set of paralogs (not just the pair FtsW and RodA) and are required specifically for sporulation, not for viability.
Probab=21.21 E-value=2.1e+02 Score=21.70 Aligned_cols=34 Identities=21% Similarity=0.611 Sum_probs=21.5
Q ss_pred chhHHHHHHH---HHHhccceeEEecCCCceeeecCC
Q 035278 4 WGPVVIGVVL---FVLLQPGLLFQLPGHSRLLEFGSM 37 (69)
Q Consensus 4 WgpV~i~vvL---FvlLsPGLLfQ~PG~~r~veFgn~ 37 (69)
|++.+..+.+ ...+.||.--+..|..|++++|.+
T Consensus 66 ~~~~~~~~~~~lLll~~~~~~g~~~~Ga~rWi~lg~~ 102 (354)
T TIGR02615 66 WAKMLMVICFVLLLLVLIPGVGMERNGARRWIGVGAF 102 (354)
T ss_pred HHHHHHHHHHHHHHHHHHhcCCcccCCcccceeCCCc
Confidence 4454443332 233446655688999999999865
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=20.90 E-value=93 Score=24.10 Aligned_cols=15 Identities=20% Similarity=0.250 Sum_probs=11.8
Q ss_pred HHHHHHHHHHHHHHH
Q 035278 41 GKAISVHTLIFFVLY 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 579999998886663
No 16
>PF05398 PufQ: PufQ cytochrome subunit; InterPro: IPR008800 This family consists of bacterial PufQ proteins. PufQ is required for bacteriochlorophyll biosynthesis serving a regulatory function in the formation of photosynthetic complexes [].; GO: 0015979 photosynthesis, 0030494 bacteriochlorophyll biosynthetic process
Probab=20.81 E-value=75 Score=20.36 Aligned_cols=14 Identities=29% Similarity=0.698 Sum_probs=10.1
Q ss_pred HHHHHHHHHHHHHhhe
Q 035278 50 IFFVLYAILILAVHVH 65 (69)
Q Consensus 50 ifF~l~~if~~ai~vH 65 (69)
+||++ ||+.|+..+
T Consensus 23 vYFal--IflaAlP~a 36 (73)
T PF05398_consen 23 VYFAL--IFLAALPFA 36 (73)
T ss_pred HHHHH--HHHHHHHHH
Confidence 78888 777776654
No 17
>PF08523 MBF1: Multiprotein bridging factor 1; InterPro: IPR013729 This domain is found in the multiprotein bridging factor 1 (MBF1) which forms a heterodimer with MBF2. It has been shown to make direct contact with the TATA-box binding protein (TBP) and interacts with Ftz-F1, stabilising the Ftz-F1-DNA complex []. It is also found in the endothelial differentiation-related factor (EDF-1). Human EDF-1 is involved in the repression of endothelial differentiation, interacts with CaM and is phosphorylated by PKC []. The domain is found in a wide range of eukaryotic proteins including metazoans, fungi and plants. A helix-turn-helix motif (IPR001387 from INTERPRO) is found to its C terminus. ; PDB: 1X57_A.
Probab=20.76 E-value=33 Score=21.34 Aligned_cols=9 Identities=78% Similarity=1.619 Sum_probs=0.0
Q ss_pred CCchhH-HHH
Q 035278 2 ADWGPV-VIG 10 (69)
Q Consensus 2 ~DWgpV-~i~ 10 (69)
+||-|| +|.
T Consensus 1 qDWd~vtvi~ 10 (71)
T PF08523_consen 1 QDWDPVTVIG 10 (71)
T ss_dssp ----------
T ss_pred CCCcccceec
Confidence 588888 553
Done!