Query 030303
Match_columns 179
No_of_seqs 129 out of 252
Neff 3.1
Searched_HMMs 46136
Date Fri Mar 29 11:40:55 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/030303.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/030303hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03141 Methyltransf_29: Puta 99.9 7.1E-29 1.5E-33 229.8 4.4 63 117-179 1-65 (506)
2 PF09680 Tiny_TM_bacill: Prote 82.4 1.1 2.5E-05 27.1 1.9 17 7-23 4-20 (24)
3 COG5547 Small integral membran 78.1 1.3 2.9E-05 32.1 1.5 25 1-25 1-25 (62)
4 TIGR01732 tiny_TM_bacill conse 77.1 2.1 4.5E-05 26.4 1.9 18 7-24 6-23 (26)
5 PF06692 MNSV_P7B: Melon necro 57.1 4.6 9.9E-05 29.2 0.6 20 12-31 14-33 (61)
6 KOG1443 Predicted integral mem 49.8 9.3 0.0002 35.6 1.5 38 4-41 131-168 (349)
7 PF10031 DUF2273: Small integr 36.1 18 0.00039 24.7 0.9 25 1-25 1-25 (51)
8 PRK13022 secF preprotein trans 33.6 17 0.00037 31.9 0.5 27 1-27 4-30 (289)
9 PF00695 vMSA: Major surface a 33.3 14 0.00031 34.6 0.0 20 11-30 225-244 (364)
10 PF03100 CcmE: CcmE; InterPro 32.8 22 0.00047 27.8 1.0 37 5-41 4-40 (131)
11 PRK13021 secF preprotein trans 31.6 18 0.00038 32.3 0.3 27 1-27 4-30 (297)
12 COG0341 SecF Preprotein transl 30.3 25 0.00054 31.8 1.1 29 1-29 10-38 (305)
13 PF07172 GRP: Glycine rich pro 30.1 24 0.00053 26.7 0.8 16 13-29 6-21 (95)
14 PF14998 Ripply: Transcription 28.5 24 0.00052 27.1 0.6 17 154-170 35-53 (87)
15 COG4736 CcoQ Cbb3-type cytochr 24.8 41 0.00089 24.1 1.1 20 11-30 14-33 (60)
16 PRK14125 cell division suppres 20.4 53 0.0011 25.1 1.1 30 5-34 4-33 (103)
No 1
>PF03141 Methyltransf_29: Putative S-adenosyl-L-methionine-dependent methyltransferase; InterPro: IPR004159 Members of this family of hypothetical plant proteins are putative methyltransferases. ; GO: 0008168 methyltransferase activity
Probab=99.95 E-value=7.1e-29 Score=229.84 Aligned_cols=63 Identities=56% Similarity=1.019 Sum_probs=61.1
Q ss_pred CcccccChHHHHHhCCccccchhhhccCC--CCCCccccCCCCCCCCCCCCCCCccccccCCCCC
Q 030303 117 DYIPCLDNVEAVKKLPSIRHMEHRERHCP--SPSPRCLAPLPVGYKLPVLWPKSKDMVRLFDTFF 179 (179)
Q Consensus 117 DYiPClD~~raik~l~s~~~~ehRERHCP--eerl~CLVPpP~GYK~PIrWPkSRD~IWyaNv~~ 179 (179)
|||||+|+.+++++++++++||||||||| +++++||||+|+|||+||+||+|||+|||+||++
T Consensus 1 dy~PC~D~~~~~~~~~~~~~~~~rERhCP~~~~~~~CLVp~P~gYk~P~~WP~SRd~iW~~Nvph 65 (506)
T PF03141_consen 1 DYIPCLDNSRAIKFLLSRERMEHRERHCPPPEERLRCLVPPPKGYKTPIPWPKSRDYIWYANVPH 65 (506)
T ss_pred CCcCCCCHHHHHhhccCcccccEeeccCcCCCCCCccccCCCccCCCCCCCCcccceeeecccCc
Confidence 79999999999999999999999999999 6899999999999999999999999999999985
No 2
>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=82.41 E-value=1.1 Score=27.14 Aligned_cols=17 Identities=35% Similarity=0.641 Sum_probs=14.7
Q ss_pred ccchHHHHHHHHHHhhh
Q 030303 7 RKYPFIVALLLLLLTVV 23 (179)
Q Consensus 7 rk~~~i~~l~~lli~vt 23 (179)
+.|.+|++|+||||-|.
T Consensus 4 ~~FalivVLFILLiIvG 20 (24)
T PF09680_consen 4 SGFALIVVLFILLIIVG 20 (24)
T ss_pred ccchhHHHHHHHHHHhc
Confidence 46889999999999875
No 3
>COG5547 Small integral membrane protein [Function unknown]
Probab=78.09 E-value=1.3 Score=32.06 Aligned_cols=25 Identities=36% Similarity=0.772 Sum_probs=20.9
Q ss_pred CcccccccchHHHHHHHHHHhhhhe
Q 030303 1 MDFITHRKYPFIVALLLLLLTVVVF 25 (179)
Q Consensus 1 ~~~~~~rk~~~i~~l~~lli~vt~~ 25 (179)
|+|+|.-|||.|-.|.-|||+..++
T Consensus 1 meflk~fkypIIgglvglliAili~ 25 (62)
T COG5547 1 MEFLKKFKYPIIGGLVGLLIAILIL 25 (62)
T ss_pred CcHHHHhccchHHHHHHHHHHHHHH
Confidence 8999999999998888777776554
No 4
>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=77.15 E-value=2.1 Score=26.44 Aligned_cols=18 Identities=33% Similarity=0.575 Sum_probs=15.0
Q ss_pred ccchHHHHHHHHHHhhhh
Q 030303 7 RKYPFIVALLLLLLTVVV 24 (179)
Q Consensus 7 rk~~~i~~l~~lli~vt~ 24 (179)
+.|.+|++|+||||-|..
T Consensus 6 ~gf~livVLFILLIIiga 23 (26)
T TIGR01732 6 GGFALIVVLFILLVIVGA 23 (26)
T ss_pred cchHHHHHHHHHHHHhhe
Confidence 568899999999998753
No 5
>PF06692 MNSV_P7B: Melon necrotic spot virus P7B protein; InterPro: IPR009575 This family consists of several Melon necrotic spot virus (MNSV) P7B proteins. The function of this family is unknown.
Probab=57.12 E-value=4.6 Score=29.19 Aligned_cols=20 Identities=35% Similarity=0.622 Sum_probs=16.2
Q ss_pred HHHHHHHHHhhhheeeecCC
Q 030303 12 IVALLLLLLTVVVFLLSSTS 31 (179)
Q Consensus 12 i~~l~~lli~vt~~l~~~~~ 31 (179)
...|++|+||.+|||+++-.
T Consensus 14 ~~~lLiliis~~f~lI~~l~ 33 (61)
T PF06692_consen 14 SGPLLILIISFVFFLITSLG 33 (61)
T ss_pred hhHHHHHHHHHHHHHHhhhc
Confidence 45788999999999987644
No 6
>KOG1443 consensus Predicted integral membrane protein [Function unknown]
Probab=49.82 E-value=9.3 Score=35.58 Aligned_cols=38 Identities=24% Similarity=0.425 Sum_probs=33.2
Q ss_pred cccccchHHHHHHHHHHhhhheeeecCCCCcceeeecc
Q 030303 4 ITHRKYPFIVALLLLLLTVVVFLLSSTSTDTSTIVSYF 41 (179)
Q Consensus 4 ~~~rk~~~i~~l~~lli~vt~~l~~~~~~~~~~~~~~~ 41 (179)
||=-|+..++++.+++|.+.+||+|-.+|+++-.+|..
T Consensus 131 f~lEk~~w~L~l~v~lI~~Glflft~KsTqf~i~Gf~l 168 (349)
T KOG1443|consen 131 FKLEKFRWALVLIVLLIAVGLFLFTYKSTQFNIEGFFL 168 (349)
T ss_pred HHhHHHHHHHHHHHHHHhhheeEEEecccceeehhHHH
Confidence 55567888999999999999999999999999887754
No 7
>PF10031 DUF2273: Small integral membrane protein (DUF2273); InterPro: IPR018730 Members of this family of hypothetical bacterial proteins have no known function.
Probab=36.08 E-value=18 Score=24.73 Aligned_cols=25 Identities=24% Similarity=0.493 Sum_probs=19.6
Q ss_pred CcccccccchHHHHHHHHHHhhhhe
Q 030303 1 MDFITHRKYPFIVALLLLLLTVVVF 25 (179)
Q Consensus 1 ~~~~~~rk~~~i~~l~~lli~vt~~ 25 (179)
|+++++-|++.|..+.-+++++.++
T Consensus 1 ~e~~~~~~~~iiG~~~G~ila~l~l 25 (51)
T PF10031_consen 1 MEFWKNHRGKIIGGLIGLILALLIL 25 (51)
T ss_pred ChHHHHCcchHHHHHHHHHHHHHHH
Confidence 6789999999988887777766554
No 8
>PRK13022 secF preprotein translocase subunit SecF; Reviewed
Probab=33.64 E-value=17 Score=31.88 Aligned_cols=27 Identities=37% Similarity=0.742 Sum_probs=23.5
Q ss_pred CcccccccchHHHHHHHHHHhhhheee
Q 030303 1 MDFITHRKYPFIVALLLLLLTVVVFLL 27 (179)
Q Consensus 1 ~~~~~~rk~~~i~~l~~lli~vt~~l~ 27 (179)
.||+|.||+-|++.+.++++++..+++
T Consensus 4 ~~f~~~r~~~~~is~~l~~~~~~~~~~ 30 (289)
T PRK13022 4 IDFMRWRKIWFIISLLLILASIISLFT 30 (289)
T ss_pred cchhhhHHHHHHHHHHHHHHHHHHHHH
Confidence 479999999999999999998887765
No 9
>PF00695 vMSA: Major surface antigen from hepadnavirus; InterPro: IPR000349 This family contains the major surface antigens of the hepatitus viruses (Hepadnaviridae). The protein is most likely required for an early step of the life cycle involving entry or uncoating of virus particles.; GO: 0016032 viral reproduction; PDB: 1KCR_P 1WZ4_A 2EH8_P 1KC5_P.
Probab=33.34 E-value=14 Score=34.61 Aligned_cols=20 Identities=35% Similarity=0.678 Sum_probs=0.0
Q ss_pred HHHHHHHHHHhhhheeeecC
Q 030303 11 FIVALLLLLLTVVVFLLSST 30 (179)
Q Consensus 11 ~i~~l~~lli~vt~~l~~~~ 30 (179)
||..|+|||+|.+|+|++-|
T Consensus 225 fiifl~ill~~~~~l~~~~~ 244 (364)
T PF00695_consen 225 FIIFLFILLLCLIFLLVLLD 244 (364)
T ss_dssp --------------------
T ss_pred HHHHHHHHHHHHHHHHHHhc
Confidence 68889999999999988654
No 10
>PF03100 CcmE: CcmE; InterPro: IPR004329 CcmE is the product of one of a cluster of Ccm genes that are necessary for cytochrome c biosynthesis in eubacteria. Expression of these proteins is induced when the organisms are grown under anaerobic conditions with nitrate or nitrite as the final electron acceptor.; GO: 0017003 protein-heme linkage, 0017004 cytochrome complex assembly, 0005886 plasma membrane; PDB: 1SR3_A 2KCT_A 1J6Q_A 1LM0_A.
Probab=32.77 E-value=22 Score=27.76 Aligned_cols=37 Identities=14% Similarity=0.209 Sum_probs=2.9
Q ss_pred ccccchHHHHHHHHHHhhhheeeecCCCCcceeeecc
Q 030303 5 THRKYPFIVALLLLLLTVVVFLLSSTSTDTSTIVSYF 41 (179)
Q Consensus 5 ~~rk~~~i~~l~~lli~vt~~l~~~~~~~~~~~~~~~ 41 (179)
|.|++-+++++++++++++++.+.+-+...+-....+
T Consensus 4 ~~~rl~~~~~~~~~i~~~~~l~~~~~~~~~~yy~t~s 40 (131)
T PF03100_consen 4 RKKRLILVVLGLVIIAAAIYLILYSFSDSAVYYLTPS 40 (131)
T ss_dssp ----------------------------SSS-EE-TT
T ss_pred ceeehhhHHHHHHHHHHHHHHHHHHhhccceEEcCHH
Confidence 3455556666666666666666665554444433333
No 11
>PRK13021 secF preprotein translocase subunit SecF; Reviewed
Probab=31.59 E-value=18 Score=32.34 Aligned_cols=27 Identities=15% Similarity=0.402 Sum_probs=23.3
Q ss_pred CcccccccchHHHHHHHHHHhhhheee
Q 030303 1 MDFITHRKYPFIVALLLLLLTVVVFLL 27 (179)
Q Consensus 1 ~~~~~~rk~~~i~~l~~lli~vt~~l~ 27 (179)
+||+|.||+-+++.+.++++++..++.
T Consensus 4 ~~f~~~r~~~~~iS~~l~~~~~~~~~~ 30 (297)
T PRK13021 4 INLTKWRYISSAISIVLMLLSLTIIGV 30 (297)
T ss_pred ccHHHHHHHHHHHHHHHHHHHHHHHHh
Confidence 489999999999999999998877654
No 12
>COG0341 SecF Preprotein translocase subunit SecF [Intracellular trafficking and secretion]
Probab=30.33 E-value=25 Score=31.76 Aligned_cols=29 Identities=24% Similarity=0.486 Sum_probs=23.1
Q ss_pred CcccccccchHHHHHHHHHHhhhheeeec
Q 030303 1 MDFITHRKYPFIVALLLLLLTVVVFLLSS 29 (179)
Q Consensus 1 ~~~~~~rk~~~i~~l~~lli~vt~~l~~~ 29 (179)
++|+|.||+++.+.++++++++.++..-.
T Consensus 10 ~~f~~~~~~~~~is~~l~v~~i~~~~~~g 38 (305)
T COG0341 10 IDFMKLRKLALGISLALLVISILFIGTRG 38 (305)
T ss_pred chhhhHHHHHHHHHHHHHHHHHHHhhccC
Confidence 47899999999988888777777766544
No 13
>PF07172 GRP: Glycine rich protein family; InterPro: IPR010800 This family consists of glycine rich proteins. Some of them may be involved in resistance to environmental stress [].
Probab=30.11 E-value=24 Score=26.75 Aligned_cols=16 Identities=50% Similarity=0.629 Sum_probs=6.5
Q ss_pred HHHHHHHHhhhheeeec
Q 030303 13 VALLLLLLTVVVFLLSS 29 (179)
Q Consensus 13 ~~l~~lli~vt~~l~~~ 29 (179)
|+|+.||++++ ||++|
T Consensus 6 ~llL~l~LA~l-LlisS 21 (95)
T PF07172_consen 6 FLLLGLLLAAL-LLISS 21 (95)
T ss_pred HHHHHHHHHHH-HHHHh
Confidence 33444444333 34443
No 14
>PF14998 Ripply: Transcription Regulator
Probab=28.50 E-value=24 Score=27.06 Aligned_cols=17 Identities=47% Similarity=0.765 Sum_probs=13.5
Q ss_pred CCCCCCCCCCC--CCCCcc
Q 030303 154 PLPVGYKLPVL--WPKSKD 170 (179)
Q Consensus 154 PpP~GYK~PIr--WPkSRD 170 (179)
..+.||+=||| |||||-
T Consensus 35 ~~~~~FqHPVRL~wPkSk~ 53 (87)
T PF14998_consen 35 KGLSGFQHPVRLYWPKSKC 53 (87)
T ss_pred CcccccCCceEeeccchHH
Confidence 34668999998 999974
No 15
>COG4736 CcoQ Cbb3-type cytochrome oxidase, subunit 3 [Posttranslational modification, protein turnover, chaperones]
Probab=24.75 E-value=41 Score=24.06 Aligned_cols=20 Identities=20% Similarity=0.369 Sum_probs=15.4
Q ss_pred HHHHHHHHHHhhhheeeecC
Q 030303 11 FIVALLLLLLTVVVFLLSST 30 (179)
Q Consensus 11 ~i~~l~~lli~vt~~l~~~~ 30 (179)
+.+.+++++|+|+.+++.--
T Consensus 14 ~t~~~~l~fiavi~~ayr~~ 33 (60)
T COG4736 14 GTIAFTLFFIAVIYFAYRPG 33 (60)
T ss_pred HHHHHHHHHHHHHHHHhccc
Confidence 46778888999998887543
No 16
>PRK14125 cell division suppressor protein YneA; Provisional
Probab=20.41 E-value=53 Score=25.09 Aligned_cols=30 Identities=17% Similarity=0.372 Sum_probs=19.8
Q ss_pred ccccchHHHHHHHHHHhhhheeeecCCCCc
Q 030303 5 THRKYPFIVALLLLLLTVVVFLLSSTSTDT 34 (179)
Q Consensus 5 ~~rk~~~i~~l~~lli~vt~~l~~~~~~~~ 34 (179)
+.+||-+++.+++|+..+++++.++...+.
T Consensus 4 ~~~~~~~~ii~~~l~~~~~~~~~~~~~~~~ 33 (103)
T PRK14125 4 KESKIHVSIFFVLTALVLLIFVYATVPVDK 33 (103)
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcccccCC
Confidence 345666777666677778888777765433
Done!