Query 029963
Match_columns 184
No_of_seqs 135 out of 1087
Neff 7.7
Searched_HMMs 46136
Date Fri Mar 29 06:23:01 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/029963.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/029963hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 KOG1944 Peroxisomal membrane p 100.0 1E-41 2.2E-46 274.9 15.0 166 16-182 46-217 (222)
2 PF04117 Mpv17_PMP22: Mpv17 / 99.9 1.3E-25 2.8E-30 149.6 4.4 68 110-178 1-68 (68)
3 PF10929 DUF2811: Protein of u 55.3 21 0.00046 22.6 3.3 30 35-64 11-40 (57)
4 COG1284 Uncharacterized conser 38.6 1.1E+02 0.0023 25.9 6.1 55 19-73 111-184 (289)
5 TIGR02163 napH_ ferredoxin-typ 37.2 1.6E+02 0.0034 24.1 6.8 80 50-130 4-102 (255)
6 TIGR02230 ATPase_gene1 F0F1-AT 29.9 1.5E+02 0.0032 21.0 4.7 34 50-83 39-74 (100)
7 PF03988 DUF347: Repeat of Unk 28.6 1.5E+02 0.0032 18.3 4.7 46 21-73 4-49 (55)
8 cd02577 PSTD1 PSTD1: Pseudouri 28.2 92 0.002 26.6 4.1 30 148-177 227-257 (319)
9 PF00140 Sigma70_r1_2: Sigma-7 24.6 43 0.00093 18.9 1.0 18 7-24 2-19 (37)
10 COG3965 Predicted Co/Zn/Cd cat 24.3 4.4E+02 0.0095 22.3 9.8 94 17-119 95-189 (314)
11 smart00337 BCL BCL (B-Cell lym 23.3 2.6E+02 0.0056 19.3 5.6 30 32-62 32-61 (100)
12 PF06027 DUF914: Eukaryotic pr 23.0 1.7E+02 0.0037 25.2 4.8 50 19-70 165-217 (334)
13 TIGR03818 MotA1 flagellar moto 23.0 3E+02 0.0065 23.1 6.2 124 7-134 108-269 (282)
14 PRK09609 hypothetical protein; 22.1 4E+02 0.0087 22.8 6.7 55 26-82 57-111 (312)
15 PRK04307 putative disulfide ox 21.9 86 0.0019 25.4 2.6 56 120-178 159-214 (218)
No 1
>KOG1944 consensus Peroxisomal membrane protein MPV17 and related proteins [General function prediction only]
Probab=100.00 E-value=1e-41 Score=274.95 Aligned_cols=166 Identities=33% Similarity=0.609 Sum_probs=158.0
Q ss_pred HhhCcHHHHHHHHHHHH-HHHHHHHHhhhcC-----CcchHHHHHHHHHHhhhccchhHhHHHHHHhhhcCCCChHHHHH
Q 029963 16 LQVHPLRTKAITAGVLA-GCSDAIAQKISGV-----KKLQLKRLLLLMLFDFGYGVPFGHFLNKFLDAIFKGRDNKSVAK 89 (184)
Q Consensus 16 l~~~Pl~t~~~t~~~l~-~~gD~~aQ~~~~~-----~~~D~~R~~r~~~~G~~~~gp~~~~wy~~L~~~~p~~~~~~~~~ 89 (184)
...+|+++++++++.+. ..||+++|.++.+ +++|+.|++||+++|+++.||.+|+||+.||+++|.++..++++
T Consensus 46 ~~~~~~l~~~i~~~~~~~~~~d~~~q~~~~~~~~~~~~~d~~rtlr~~~~G~~f~gp~~~~Wy~~L~~~~p~~~~~~~~~ 125 (222)
T KOG1944|consen 46 FSLYPLLTKAITTSLLLAAAGDVISQSLEGRSKKLFQTLDLTRTLRMGIFGFLFVGPTLHYWYRLLSKLFPKKTLITVVK 125 (222)
T ss_pred hhhhhHHHHHHHHHHHHHHhchhhhhhhhhhcccccccccHHHHHHHHhhhhheeccchhHHHHHHHHHccCccHHHHHH
Confidence 46789999999988888 9999999999852 56899999999999999999999999999999999999999999
Q ss_pred HHHHHhhhhhhHHHHHHHHHHHHHhcCCChhhHHHHHhhhChHHHHhccccchHHHHHHHheecCCchhhhhhHHHHHHH
Q 029963 90 KVLLEQLIFSPWINFLFMTYFGLVVEGKPWGSVMKKVRKDYPAVQFTSWKVWPTVTWVNFQYAPQQFRELFFSLVASCWA 169 (184)
Q Consensus 90 Kv~~Dq~v~~P~~~~~f~~~~~~~l~g~~~~~~~~~~~~~~~~~~~~~~~~Wp~~~~inF~~vP~~~Rvl~~~~v~~~W~ 169 (184)
|++.||++++|+.+..|+.+++ ++||++.+++.++++++++|+++++|++||++|++||++||+++|++++|+++++|+
T Consensus 126 kvl~dql~~~P~~~~~ff~~~~-~legk~~~~~~~~~~~~~~p~l~~~~~~WP~~q~inF~~VP~~~rvl~~~~vsl~W~ 204 (222)
T KOG1944|consen 126 KVLLDQLVFAPLFIVVFFLLMG-LLEGKTNEEAKAKLKRKFWPTLKANWMVWPLVQFINFRLVPLQYRVLFVNIVSLVWN 204 (222)
T ss_pred HHHHhhhhhchHHHHHHHHHHH-HHcCCCHHHHHHHHHHHHHHHHhhhheecchhheeeeEEccccceehhhhhHHHHHH
Confidence 9999999999999999999999 999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHhhchhhhh
Q 029963 170 IFINLKAESAAIK 182 (184)
Q Consensus 170 ~~LS~~~~~~~~~ 182 (184)
+|||+++++.+++
T Consensus 205 ~~Ls~~~~~~~~~ 217 (222)
T KOG1944|consen 205 TYLSYKNASLVEL 217 (222)
T ss_pred HHHHHHhhccccc
Confidence 9999999998544
No 2
>PF04117 Mpv17_PMP22: Mpv17 / PMP22 family ; InterPro: IPR007248 The 22 kDa peroxisomal membrane protein (PMP22) is a major component of peroxisomal membranes. PMP22 seems to be involved in pore-forming activity and may contribute to the unspecific permeability of the organelle membrane. PMP22 is synthesised on free cytosolic ribosomes and then directed to the peroxisome membrane by specific targeting information []. Mpv17 is a closely related peroxisomal protein involved in the development of early-onset glomerulosclerosis []. A member of this family found in Saccharomyces cerevisiae (Baker's yeast) is an integral membrane protein of the inner mitochondrial membrane and has been suggested to play a role in mitochondrial function during heat shock [].; GO: 0016021 integral to membrane
Probab=99.92 E-value=1.3e-25 Score=149.61 Aligned_cols=68 Identities=35% Similarity=0.852 Sum_probs=65.8
Q ss_pred HHHHhcCCChhhHHHHHhhhChHHHHhccccchHHHHHHHheecCCchhhhhhHHHHHHHHHHHHhhch
Q 029963 110 FGLVVEGKPWGSVMKKVRKDYPAVQFTSWKVWPTVTWVNFQYAPQQFRELFFSLVASCWAIFINLKAES 178 (184)
Q Consensus 110 ~~~~l~g~~~~~~~~~~~~~~~~~~~~~~~~Wp~~~~inF~~vP~~~Rvl~~~~v~~~W~~~LS~~~~~ 178 (184)
|+ ++||++++++.++++++++++++++|++|||+|++||.+||+++|++++|+++++||+|||+++||
T Consensus 1 Mg-~l~g~s~~~~~~~l~~~~~~~~~~~~~~Wp~~~~vnF~~vP~~~Rv~~~~~v~~~W~~~LS~~~~r 68 (68)
T PF04117_consen 1 MG-LLEGKSWEEIKEKLKRDYWPTLKASWKFWPPAQIVNFRYVPPHYRVLFVNVVSFFWNTYLSYIANR 68 (68)
T ss_pred CC-cccCCCHHHHHHHHHHHHHHHHHHHhHhHHHHHHHHhcccChhhhhhhhhhHHHHHHHHHHHHhcC
Confidence 45 799999999999999999999999999999999999999999999999999999999999999986
No 3
>PF10929 DUF2811: Protein of unknown function (DUF2811); InterPro: IPR021231 This is a bacterial family of uncharacterised proteins.
Probab=55.26 E-value=21 Score=22.63 Aligned_cols=30 Identities=20% Similarity=0.127 Sum_probs=24.2
Q ss_pred HHHHHHhhhcCCcchHHHHHHHHHHhhhcc
Q 029963 35 SDAIAQKISGVKKLQLKRLLLLMLFDFGYG 64 (184)
Q Consensus 35 gD~~aQ~~~~~~~~D~~R~~r~~~~G~~~~ 64 (184)
=|.+.+.++....+|-.|.+..++-|+++.
T Consensus 11 ~~~m~~fie~hP~WDQ~Rl~~aALa~FL~Q 40 (57)
T PF10929_consen 11 HQAMKDFIETHPNWDQYRLFQAALAGFLLQ 40 (57)
T ss_pred HHHHHHHHHcCCCchHHHHHHHHHHHHHHH
Confidence 355667777778899999999999998754
No 4
>COG1284 Uncharacterized conserved protein [Function unknown]
Probab=38.55 E-value=1.1e+02 Score=25.89 Aligned_cols=55 Identities=20% Similarity=0.209 Sum_probs=36.8
Q ss_pred CcHHHHHHHHHHHHHHH--------------HHHHHhhhcCCcchHHHHHH-----HHHHhhhccchhHhHHHH
Q 029963 19 HPLRTKAITAGVLAGCS--------------DAIAQKISGVKKLQLKRLLL-----LMLFDFGYGVPFGHFLNK 73 (184)
Q Consensus 19 ~Pl~t~~~t~~~l~~~g--------------D~~aQ~~~~~~~~D~~R~~r-----~~~~G~~~~gp~~~~wy~ 73 (184)
++.+-.++.+|++.|+| |++||.++++..+|..++.- ..+.++++.+++-+..|.
T Consensus 111 ~~~ll~aifgG~l~G~G~glv~r~ggStGGtdIlA~~l~kk~g~~iG~~ll~vd~~i~~~a~~~~~~~~~~lyt 184 (289)
T COG1284 111 IDPLLAALFGGLLLGIGLGLVFRHGGSTGGTDILALILNKKFGISVGKILLLVDGFILLIAALVFGPLPNALYT 184 (289)
T ss_pred ccHHHHHHHHHHHHHHHHHHHhhCCCCCCcHHHHHHHHHHHcCCChhhhHHHHHHHHHHHHHHHHHhHHHHHHH
Confidence 66777899999998876 89999999877777665532 122233334455556663
No 5
>TIGR02163 napH_ ferredoxin-type protein, NapH/MauN family. Most members of this family are the NapH protein, found next to NapG,in operons that encode the periplasmic nitrate reductase. Some species with this reductase lack NapC but accomplish electron transfer to NapAB in some other manner, likely to involve NapH, NapG, and/or some other protein. A few members of this protein are designated MauN and are found in methylamine utilization operons in species that appear to lack a periplasmic nitrate reductase.
Probab=37.18 E-value=1.6e+02 Score=24.13 Aligned_cols=80 Identities=13% Similarity=0.113 Sum_probs=51.7
Q ss_pred HHHHHHHHHHhhhccchhHhHHH--HHHh--h---hcCCCChHHHHHHHHHHhhhhhhHHHHHHH--HHHHHHhcCC---
Q 029963 50 LKRLLLLMLFDFGYGVPFGHFLN--KFLD--A---IFKGRDNKSVAKKVLLEQLIFSPWINFLFM--TYFGLVVEGK--- 117 (184)
Q Consensus 50 ~~R~~r~~~~G~~~~gp~~~~wy--~~L~--~---~~p~~~~~~~~~Kv~~Dq~v~~P~~~~~f~--~~~~~~l~g~--- 117 (184)
+||+...++...++.||....|. +.|. + -+|..+...++.-++....+..+++....+ ...+ ++-|+
T Consensus 4 ~r~~~~~~~~~lf~~~~~~~~~~~~G~l~~s~~~~~~~l~dP~~~lq~~~a~~~~~~~~~~~~~iv~~~~~-l~~GR~fC 82 (255)
T TIGR02163 4 LRRLVQLSILGLFLLGPYAGVWILKGNLSSSRLLGTIPLSDPLITLQILLAGHSPPTNALIGALIIVAFYA-LFGGRAFC 82 (255)
T ss_pred HHHHHHHHHHHHHHcchhhcceEEEecchHHHhcCCccCcCHHHHHHHHHhcChhhHHHHHHHHHHHHHHH-HHhcccce
Confidence 68899999999888899887776 3333 2 345567777778788777776666655433 3334 55555
Q ss_pred -------ChhhHHHHHhhhC
Q 029963 118 -------PWGSVMKKVRKDY 130 (184)
Q Consensus 118 -------~~~~~~~~~~~~~ 130 (184)
...|..++++++.
T Consensus 83 gwiCP~g~~~el~~~l~~k~ 102 (255)
T TIGR02163 83 SWVCPVNLVTDFAAWLRRKL 102 (255)
T ss_pred eccCCchHHHHHHHHHHHhh
Confidence 2455655555443
No 6
>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=29.92 E-value=1.5e+02 Score=20.99 Aligned_cols=34 Identities=15% Similarity=0.142 Sum_probs=27.2
Q ss_pred HHHHHHHHHHhhhccchhHhHHH--HHHhhhcCCCC
Q 029963 50 LKRLLLLMLFDFGYGVPFGHFLN--KFLDAIFKGRD 83 (184)
Q Consensus 50 ~~R~~r~~~~G~~~~gp~~~~wy--~~L~~~~p~~~ 83 (184)
++....+++.|..+.+|+.-.-| .+||+.+|+..
T Consensus 39 ~~~l~~~g~IG~~~v~pil~G~~lG~WLD~~~~t~~ 74 (100)
T TIGR02230 39 WEGLGMFGLIGWSVAIPTLLGVAVGIWLDRHYPSPF 74 (100)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhcCCCc
Confidence 45566688999999999987777 69999999743
No 7
>PF03988 DUF347: Repeat of Unknown Function (DUF347) ; InterPro: IPR007136 This repeat is found as four tandem repeats in a family of bacterial membrane proteins. Each repeat contains two transmembrane regions and a conserved tryptophan.
Probab=28.64 E-value=1.5e+02 Score=18.31 Aligned_cols=46 Identities=17% Similarity=0.182 Sum_probs=29.4
Q ss_pred HHHHHHHHHHHHHHHHHHHHhhhcCCcchHHHHHHHHHHhhhccchhHhHHHH
Q 029963 21 LRTKAITAGVLAGCSDAIAQKISGVKKLQLKRLLLLMLFDFGYGVPFGHFLNK 73 (184)
Q Consensus 21 l~t~~~t~~~l~~~gD~~aQ~~~~~~~~D~~R~~r~~~~G~~~~gp~~~~wy~ 73 (184)
++++.++...--..||.++|. .+........+++.++.. ....||+
T Consensus 4 W~a~ilt~~lGt~~~D~l~~~------lglg~~~~~~~~~~~l~~-~~~~~~~ 49 (55)
T PF03988_consen 4 WIAKILTTTLGTTAGDFLSKT------LGLGYLISTLIFAALLAV-VLALWYR 49 (55)
T ss_pred HHHHHHHHHhHHHHHHHHHhc------cCccHHHHHHHHHHHHHH-HHHHHHH
Confidence 357888888999999999994 344455555555554333 3334443
No 8
>cd02577 PSTD1 PSTD1: Pseudouridine synthase, a subgroup of the TruD family. This group consists of several hypothetical archeal pseudouridine synthases assigned to the TruD family of psuedouridine synthases. Pseudouridine synthases catalyze the isomerization of specific uridines in an RNA molecule to pseudouridines (5-ribosyluracil, psi). The TruD family is comprised of proteins related to Escherichia coli TruD.
Probab=28.22 E-value=92 Score=26.61 Aligned_cols=30 Identities=17% Similarity=0.353 Sum_probs=24.7
Q ss_pred HHheecCCchhhhhhHH-HHHHHHHHHHhhc
Q 029963 148 NFQYAPQQFRELFFSLV-ASCWAIFINLKAE 177 (184)
Q Consensus 148 nF~~vP~~~Rvl~~~~v-~~~W~~~LS~~~~ 177 (184)
.|.-+|.+.|.+|++.. |..||-.+|..-.
T Consensus 227 Al~~iP~~lr~myvhAYQSylfN~~lS~Ri~ 257 (319)
T cd02577 227 AFLALPKNLRRMFVHAYQSYLFNEILSERIE 257 (319)
T ss_pred HHHhcCHHHHHHHHHHHHHHHHHHHHHHHHH
Confidence 34569999999998876 8999999997553
No 9
>PF00140 Sigma70_r1_2: Sigma-70 factor, region 1.2; InterPro: IPR009042 The bacterial core RNA polymerase complex, which consists of five subunits, is sufficient for transcription elongation and termination but is unable to initiate transcription. Transcription initiation from promoter elements requires a sixth, dissociable subunit called a sigma factor, which reversibly associates with the core RNA polymerase complex to form a holoenzyme []. RNA polymerase recruits alternative sigma factors as a means of switching on specific regulons. Most bacteria express a multiplicity of sigma factors. Two of these factors, sigma-70 (gene rpoD), generally known as the major or primary sigma factor, and sigma-54 (gene rpoN or ntrA) direct the transcription of a wide variety of genes. The other sigma factors, known as alternative sigma factors, are required for the transcription of specific subsets of genes. With regard to sequence similarity, sigma factors can be grouped into two classes, the sigma-54 and sigma-70 families. Sequence alignments of the sigma70 family members reveal four conserved regions that can be further divided into subregions eg. sub-region 2.2, which may be involved in the binding of the sigma factor to the core RNA polymerase; and sub-region 4.2, which seems to harbor a DNA-binding 'helix-turn-helix' motif involved in binding the conserved -35 region of promoters recognised by the major sigma factors [, ]. ; GO: 0003677 DNA binding, 0003700 sequence-specific DNA binding transcription factor activity, 0016987 sigma factor activity, 0006352 transcription initiation, DNA-dependent, 0006355 regulation of transcription, DNA-dependent; PDB: 1SMY_F 1IW7_P 1SIG_A 3IYD_F 2BE5_F 2A6E_F 2CW0_F 2A69_P 2A6H_P 3DXJ_P ....
Probab=24.56 E-value=43 Score=18.95 Aligned_cols=18 Identities=33% Similarity=0.486 Sum_probs=13.6
Q ss_pred HHHHHHHHHHhhCcHHHH
Q 029963 7 EAWRKYLIQLQVHPLRTK 24 (184)
Q Consensus 7 ~~~~~Y~~~l~~~Pl~t~ 24 (184)
...+.|.+-+.++|++|.
T Consensus 2 D~l~~Yl~ei~~~~LLt~ 19 (37)
T PF00140_consen 2 DSLRLYLKEIGRYPLLTA 19 (37)
T ss_dssp HHHHHHHHHHHHS-EETT
T ss_pred cHHHHHHHHHcCCCCCCH
Confidence 356789999999999864
No 10
>COG3965 Predicted Co/Zn/Cd cation transporters [Inorganic ion transport and metabolism]
Probab=24.29 E-value=4.4e+02 Score=22.30 Aligned_cols=94 Identities=10% Similarity=0.051 Sum_probs=58.2
Q ss_pred hhCcHHHHHHHHHHHHHHHHHHHHhhhcCCcchHHHHHHHHHHhhhccchhHhHHH-HHHhhhcCCCChHHHHHHHHHHh
Q 029963 17 QVHPLRTKAITAGVLAGCSDAIAQKISGVKKLQLKRLLLLMLFDFGYGVPFGHFLN-KFLDAIFKGRDNKSVAKKVLLEQ 95 (184)
Q Consensus 17 ~~~Pl~t~~~t~~~l~~~gD~~aQ~~~~~~~~D~~R~~r~~~~G~~~~gp~~~~wy-~~L~~~~p~~~~~~~~~Kv~~Dq 95 (184)
-++-++.-.+..+.+.+++|++ .+.++.|+.-...++++... |-...+|. +.++|..+..-.+.=.|+.+.|-
T Consensus 95 ing~ll~ll~lyAlinAl~~l~----dGGR~v~~~~ai~yt~~s~~--~Ca~~~~~~~r~nrr~~s~lIald~kqW~Mst 168 (314)
T COG3965 95 INGTLLALLCLYALINALGSLL----DGGREVEPGHAIAYTLVSVT--GCAAIAWKLRRLNRRLKSPLIALDTKQWLMST 168 (314)
T ss_pred hccHHHHHHHHHHHHHHHHHHh----cCCccccccHHHHHHHHHHH--HHHHHHHHHHhhhccCCCchhhhHHHHHHHHH
Confidence 3455667777777777888776 67677888777777777664 44445665 56888877654444456666666
Q ss_pred hhhhhHHHHHHHHHHHHHhcCCCh
Q 029963 96 LIFSPWINFLFMTYFGLVVEGKPW 119 (184)
Q Consensus 96 ~v~~P~~~~~f~~~~~~~l~g~~~ 119 (184)
.+-+-++. .|... ..++|.++
T Consensus 169 ~lS~al~V-aF~~a--~~l~~T~~ 189 (314)
T COG3965 169 CLSAALFV-AFAAA--WLLAGTKF 189 (314)
T ss_pred HHHHHHHH-HHHHH--HHhccCch
Confidence 65544443 33322 24566543
No 11
>smart00337 BCL BCL (B-Cell lymphoma); contains BH1, BH2 regions. (BH1, BH2, (BH3 (one helix only)) and not BH4(one helix only)). Involved in apoptosis regulation
Probab=23.26 E-value=2.6e+02 Score=19.28 Aligned_cols=30 Identities=13% Similarity=0.150 Sum_probs=20.4
Q ss_pred HHHHHHHHHhhhcCCcchHHHHHHHHHHhhh
Q 029963 32 AGCSDAIAQKISGVKKLQLKRLLLLMLFDFG 62 (184)
Q Consensus 32 ~~~gD~~aQ~~~~~~~~D~~R~~r~~~~G~~ 62 (184)
-....+..+.++ +..++|.|.+.+..+|..
T Consensus 32 ~~f~~Va~~lf~-dg~inWGRIval~~F~~~ 61 (100)
T smart00337 32 ELFGEVATELFS-DGNINWGRVVALLSFGGA 61 (100)
T ss_pred HHHHHHHHHHHc-cCCCCHHHHHHHHHHHHH
Confidence 333444444443 355999999999999885
No 12
>PF06027 DUF914: Eukaryotic protein of unknown function (DUF914); InterPro: IPR009262 This family consists of several hypothetical proteins of unknown function. Some of the sequences in this family are annotated as putative membrane proteins.
Probab=23.03 E-value=1.7e+02 Score=25.17 Aligned_cols=50 Identities=20% Similarity=0.171 Sum_probs=34.5
Q ss_pred CcHH--HHHHHHHHHHHHHHHHHHhhhcCCcchH-HHHHHHHHHhhhccchhHhH
Q 029963 19 HPLR--TKAITAGVLAGCSDAIAQKISGVKKLQL-KRLLLLMLFDFGYGVPFGHF 70 (184)
Q Consensus 19 ~Pl~--t~~~t~~~l~~~gD~~aQ~~~~~~~~D~-~R~~r~~~~G~~~~gp~~~~ 70 (184)
+|++ .=++.+++++++++++-..+.++ .|. .-...++++|.++.||....
T Consensus 165 ~~i~GDll~l~~a~lya~~nV~~E~~v~~--~~~~~~lg~~Glfg~ii~~iq~~i 217 (334)
T PF06027_consen 165 NPILGDLLALLGAILYAVSNVLEEKLVKK--APRVEFLGMLGLFGFIISGIQLAI 217 (334)
T ss_pred ccchhHHHHHHHHHHHHHHHHHHHHhccc--CCHHHHHHHHHHHHHHHHHHHHHh
Confidence 4544 23678899999999998777653 332 23577788888888776543
No 13
>TIGR03818 MotA1 flagellar motor stator protein MotA. This model represents one family of MotA proteins which are often not identified by the "transporter, MotA/TolQ/ExbB proton channel family" model, pfam01618.
Probab=23.02 E-value=3e+02 Score=23.10 Aligned_cols=124 Identities=12% Similarity=-0.028 Sum_probs=69.4
Q ss_pred HHHHHHHHHHhhC---cHHHHHHHHHHHHH-HHHHHHHhhhcC-----C----cchHHHH-----HHHHHHhhhccchhH
Q 029963 7 EAWRKYLIQLQVH---PLRTKAITAGVLAG-CSDAIAQKISGV-----K----KLQLKRL-----LLLMLFDFGYGVPFG 68 (184)
Q Consensus 7 ~~~~~Y~~~l~~~---Pl~t~~~t~~~l~~-~gD~~aQ~~~~~-----~----~~D~~R~-----~r~~~~G~~~~gp~~ 68 (184)
.+.+.|-+.++.+ |++.+.+.-.+... -.|.+-+.++.+ + ..+.-++ -.|++.|++ .|-++
T Consensus 108 ~if~~yp~~~~d~~~~~Fl~~gl~l~vdG~~~~~~i~~iLe~ei~~~~~~~~~~~~v~~~~g~~aPa~GiiGtv-lGLI~ 186 (282)
T TIGR03818 108 SIFSKYPKILKDHHLVEFICDYLRLMVMGNMNPHELEALMEEEIETHHHELLKPAHALQKVADALPGFGIVAAV-LGVVI 186 (282)
T ss_pred hhhhhcchhhcccchhHHHHHHHHHHHcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhhCchhhHHHHH-HHHHH
Confidence 4566777777776 88888887776666 677777777641 1 1111111 124556664 44442
Q ss_pred hHHHHHHh----hhcCC--CChHHHHHHHHHHhhhhhhHHHHHH--------------HHHHHHHhcCCChhhHHHHHhh
Q 029963 69 HFLNKFLD----AIFKG--RDNKSVAKKVLLEQLIFSPWINFLF--------------MTYFGLVVEGKPWGSVMKKVRK 128 (184)
Q Consensus 69 ~~wy~~L~----~~~p~--~~~~~~~~Kv~~Dq~v~~P~~~~~f--------------~~~~~~~l~g~~~~~~~~~~~~ 128 (184)
. ..-|+ .+-|+ .-+.+++.-+++-+.++.|+-.-.= -...+ +.+|++...+.++++.
T Consensus 187 ~--l~~l~~dp~~lG~~iA~Alv~TlyGv~lAn~i~~PiA~kl~~~~~~e~~~~~~i~egi~a-i~~G~~P~~~~e~l~~ 263 (282)
T TIGR03818 187 T--MGSIDGPPEVLGVLIAAALVGTFLGILLAYGFVGPLAAALEQRVEEEIKFLECVKVTLVA-SLNGYAPQLAVEFGRK 263 (282)
T ss_pred H--HHhcCCCHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHH-HhCCCChHHHHHHHHh
Confidence 1 22222 11111 1244667777788888888733211 11223 6688888888888877
Q ss_pred hChHHH
Q 029963 129 DYPAVQ 134 (184)
Q Consensus 129 ~~~~~~ 134 (184)
...|..
T Consensus 264 ~l~~~~ 269 (282)
T TIGR03818 264 VIPSDV 269 (282)
T ss_pred hCCccc
Confidence 665543
No 14
>PRK09609 hypothetical protein; Provisional
Probab=22.11 E-value=4e+02 Score=22.84 Aligned_cols=55 Identities=22% Similarity=0.146 Sum_probs=44.3
Q ss_pred HHHHHHHHHHHHHHHhhhcCCcchHHHHHHHHHHhhhccchhHhHHHHHHhhhcCCC
Q 029963 26 ITAGVLAGCSDAIAQKISGVKKLQLKRLLLLMLFDFGYGVPFGHFLNKFLDAIFKGR 82 (184)
Q Consensus 26 ~t~~~l~~~gD~~aQ~~~~~~~~D~~R~~r~~~~G~~~~gp~~~~wy~~L~~~~p~~ 82 (184)
+.+++..+++|++.-.+.+ ..+.+.=++..++.|. +.|-+..+.|+.+.+.|.++
T Consensus 57 v~G~ivG~lsDLLs~li~p-G~ffPgFTLsa~l~Gl-I~Glf~~~~fk~~~~~f~~~ 111 (312)
T PRK09609 57 IVGFFTGLLSDLISFLFVP-GVYHPYYTLAAMVYGF-IPGIVGWFFFKFGKKFFGKE 111 (312)
T ss_pred HHHHHHHHHHHHHHHHhcC-CccCHHHHHHHHHHHH-HHHHHHHHHHHHHHHHHhHH
Confidence 3467778899999977754 6889999998888887 47888888889999988764
No 15
>PRK04307 putative disulfide oxidoreductase; Provisional
Probab=21.91 E-value=86 Score=25.41 Aligned_cols=56 Identities=13% Similarity=0.111 Sum_probs=42.6
Q ss_pred hhHHHHHhhhChHHHHhccccchHHHHHHHheecCCchhhhhhHHHHHHHHHHHHhhch
Q 029963 120 GSVMKKVRKDYPAVQFTSWKVWPTVTWVNFQYAPQQFRELFFSLVASCWAIFINLKAES 178 (184)
Q Consensus 120 ~~~~~~~~~~~~~~~~~~~~~Wp~~~~inF~~vP~~~Rvl~~~~v~~~W~~~LS~~~~~ 178 (184)
+...+++++.+.+.|..+|-.+|.-++++ +|+-.-+.|....-+.=..++|+...+
T Consensus 159 ~~~l~~~q~~~~~~y~~gwyl~p~w~f~~---Maq~~~~~f~~~~~~l~~~~~~~~~~~ 214 (218)
T PRK04307 159 GVTLSSVQQWFVDLYSEGWYLLPPWHFMN---MAQACLLAFGLCLVLLVVMSGAWALKL 214 (218)
T ss_pred cchhHHHHHHHhhhccccccccccHHHhh---HHHHHHHHHHHHHHHHHHHHHHHHHhh
Confidence 34667888899999999999999999964 677777777766655555666665554
Done!