Query 022955
Match_columns 289
No_of_seqs 148 out of 253
Neff 4.2
Searched_HMMs 46136
Date Fri Mar 29 07:23:28 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/022955.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/022955hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF05553 DUF761: Cotton fibre 99.6 1.5E-15 3.3E-20 104.4 4.5 37 253-289 2-38 (38)
2 PF14364 DUF4408: Domain of un 99.3 2.5E-12 5.5E-17 86.5 2.5 34 4-39 1-34 (34)
3 COG4420 Predicted membrane pro 80.5 1.4 3.1E-05 40.3 2.8 30 6-37 69-103 (191)
4 PF11446 DUF2897: Protein of u 48.4 13 0.00029 27.6 1.9 23 11-38 3-25 (55)
5 PF06210 DUF1003: Protein of u 44.6 24 0.00052 29.4 3.1 31 6-36 15-48 (108)
6 CHL00019 atpF ATP synthase CF0 31.4 55 0.0012 28.8 3.4 36 1-36 1-42 (184)
7 PRK10490 sensor protein KdpD; 27.4 51 0.0011 36.0 3.0 34 6-39 452-500 (895)
8 PF09125 COX2-transmemb: Cytoc 22.5 47 0.001 23.2 1.1 19 12-30 14-32 (38)
9 PF05106 Phage_holin_3: Phage 22.0 82 0.0018 25.7 2.6 32 1-34 1-35 (100)
10 PF13706 PepSY_TM_3: PepSY-ass 21.3 84 0.0018 21.1 2.1 29 7-36 3-31 (37)
11 KOG4503 Uncharacterized conser 20.3 78 0.0017 29.9 2.3 18 20-37 84-101 (230)
12 COG5085 Predicted membrane pro 20.3 78 0.0017 29.9 2.3 18 20-37 84-101 (230)
No 1
>PF05553 DUF761: Cotton fibre expressed protein; InterPro: IPR008480 This family consists of several plant proteins of unknown function. Three of the sequences from Gossypium hirsutum (Upland cotton) in this family are described as G. hirsutum fibre expressed proteins []. The remaining sequences, found in Arabidopsis thaliana, are uncharacterised.
Probab=99.58 E-value=1.5e-15 Score=104.38 Aligned_cols=37 Identities=57% Similarity=0.880 Sum_probs=36.0
Q ss_pred CCccchHHHHHHHHHHHHHHHHHHHHHHHHHHHhcCC
Q 022955 253 DHGVDARADDFINKFKRQLRLQRLDSLLRYKEVLQGK 289 (289)
Q Consensus 253 ~~~VD~~Ad~FI~kF~~qlrlQr~~S~~~~~eml~rg 289 (289)
+++||++||+||++||+||||||++|+.+|++|++||
T Consensus 2 ~~evd~rAe~FI~~f~~qlrlqr~~S~~ry~eml~Rg 38 (38)
T PF05553_consen 2 DDEVDRRAEEFIAKFREQLRLQRQESLQRYQEMLARG 38 (38)
T ss_pred chHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHHhcC
Confidence 5789999999999999999999999999999999998
No 2
>PF14364 DUF4408: Domain of unknown function (DUF4408)
Probab=99.26 E-value=2.5e-12 Score=86.53 Aligned_cols=34 Identities=53% Similarity=0.973 Sum_probs=32.5
Q ss_pred cchhHHHhhhhhccCCchhHHHHHHHHHHHHhhccc
Q 022955 4 QSTLWGCMSSWLTLTPSTLFLFVNLVIGTIAVTSRF 39 (289)
Q Consensus 4 ~~~~w~~~~swl~~tP~~lfl~lN~vI~tIa~tS~~ 39 (289)
+|++|.++.+|| +|+||||++|+||+||+++||+
T Consensus 1 ~p~l~~~~~s~l--tP~~Lfv~~N~IIi~i~~~S~~ 34 (34)
T PF14364_consen 1 FPSLWSSLRSWL--TPPYLFVIVNLIIITIVASSRF 34 (34)
T ss_pred CccHHHHHHHhc--CCCeehhhhhhHHHHhhhhccC
Confidence 489999999998 9999999999999999999986
No 3
>COG4420 Predicted membrane protein [Function unknown]
Probab=80.51 E-value=1.4 Score=40.28 Aligned_cols=30 Identities=30% Similarity=0.658 Sum_probs=22.3
Q ss_pred hhHHHhhhhhccCC-----chhHHHHHHHHHHHHhhc
Q 022955 6 TLWGCMSSWLTLTP-----STLFLFVNLVIGTIAVTS 37 (289)
Q Consensus 6 ~~w~~~~swl~~tP-----~~lfl~lN~vI~tIa~tS 37 (289)
.+|.++.-|+ .| +|=|++||++++|+|+.-
T Consensus 69 l~Wi~lNl~~--~~~~~wDpyPFi~LnLllS~~Aaiq 103 (191)
T COG4420 69 LLWIVLNLFL--VPGLAWDPYPFILLNLLLSTLAAIQ 103 (191)
T ss_pred HHHHHHHHhh--hcCCcCCCccHHHHHHHHHHHHHHH
Confidence 4677766665 44 488999999999988754
No 4
>PF11446 DUF2897: Protein of unknown function (DUF2897); InterPro: IPR021550 This is a bacterial family of uncharacterised proteins.
Probab=48.43 E-value=13 Score=27.61 Aligned_cols=23 Identities=26% Similarity=0.658 Sum_probs=18.5
Q ss_pred hhhhhccCCchhHHHHHHHHHHHHhhcc
Q 022955 11 MSSWLTLTPSTLFLFVNLVIGTIAVTSR 38 (289)
Q Consensus 11 ~~swl~~tP~~lfl~lN~vI~tIa~tS~ 38 (289)
+..|+ .+.|+|=+|||.|++.=-
T Consensus 3 ~~~wl-----IIviVlgvIigNia~LK~ 25 (55)
T PF11446_consen 3 WNPWL-----IIVIVLGVIIGNIAALKY 25 (55)
T ss_pred chhhH-----HHHHHHHHHHhHHHHHHH
Confidence 34677 889999999999998643
No 5
>PF06210 DUF1003: Protein of unknown function (DUF1003); InterPro: IPR010406 This entry consists of several hypothetical bacterial proteins of unknown function.
Probab=44.60 E-value=24 Score=29.36 Aligned_cols=31 Identities=23% Similarity=0.395 Sum_probs=20.2
Q ss_pred hhHHHhhhhhccCC---chhHHHHHHHHHHHHhh
Q 022955 6 TLWGCMSSWLTLTP---STLFLFVNLVIGTIAVT 36 (289)
Q Consensus 6 ~~w~~~~swl~~tP---~~lfl~lN~vI~tIa~t 36 (289)
.+|..+..++...+ ||=|++||+|.+++|+-
T Consensus 15 ~~Wi~~N~~~~~~~~fDpyPFilLnl~lS~~Aa~ 48 (108)
T PF06210_consen 15 AVWILLNILAPPRPAFDPYPFILLNLVLSLEAAY 48 (108)
T ss_pred HHHHHHHhhccccCCCCCccHHHHHHHHHHHHHH
Confidence 45666666542221 26699999998887764
No 6
>CHL00019 atpF ATP synthase CF0 B subunit
Probab=31.35 E-value=55 Score=28.78 Aligned_cols=36 Identities=11% Similarity=0.224 Sum_probs=23.8
Q ss_pred CCccchhHHHhhhh-----hccCCc-hhHHHHHHHHHHHHhh
Q 022955 1 MTDQSTLWGCMSSW-----LTLTPS-TLFLFVNLVIGTIAVT 36 (289)
Q Consensus 1 ~~~~~~~w~~~~sw-----l~~tP~-~lfl~lN~vI~tIa~t 36 (289)
|...+.++.++.-| |.|..+ +++-+||++|...++.
T Consensus 1 ~~~~~~~~~~~~~~~~~~~f~~n~~~~~~~~Inflill~lL~ 42 (184)
T CHL00019 1 MKNVTDSFVSLGHWPSAGSFGFNTDILETNLINLSVVLGVLI 42 (184)
T ss_pred CccHHHHHHHHHhccccCccCCcchHHHHHHHHHHHHHHHHH
Confidence 67788888888777 555333 3334888888765543
No 7
>PRK10490 sensor protein KdpD; Provisional
Probab=27.41 E-value=51 Score=35.97 Aligned_cols=34 Identities=29% Similarity=0.388 Sum_probs=21.4
Q ss_pred hhHHHhhhhhccCCch---------------hHHHHHHHHHHHHhhccc
Q 022955 6 TLWGCMSSWLTLTPST---------------LFLFVNLVIGTIAVTSRF 39 (289)
Q Consensus 6 ~~w~~~~swl~~tP~~---------------lfl~lN~vI~tIa~tS~~ 39 (289)
++++.+..||||+||+ +|+++-+++|.++..-+.
T Consensus 452 avls~l~~nfFF~~P~~Tf~v~~~~~~~t~~v~l~va~v~~~l~~r~r~ 500 (895)
T PRK10490 452 TVINVASFDLFFVAPRGTLAVSDVQYLLTFAVMLTVGLVIGNLTAGVRY 500 (895)
T ss_pred HHHHHHHHHheeCCCceEEEEcCcccHHHHHHHHHHHHHHHHHHHHHHH
Confidence 4566777889999996 344455555555544443
No 8
>PF09125 COX2-transmemb: Cytochrome C oxidase subunit II, transmembrane; InterPro: IPR015209 This N-terminal domain forms the transmembrane region in subunit II of cytochrome c oxidase from Thermus thermophilus. This domain adopts a tertiary structure consisting of two antiparallel transmembrane helices, in a transmembrane helix hairpin fold []. ; PDB: 1EHK_B 2QPE_B 3S8F_B 4EV3_B 3BVD_B 3S8G_B 3EH3_B 3S3C_B 3S39_B 3QJQ_B ....
Probab=22.49 E-value=47 Score=23.23 Aligned_cols=19 Identities=16% Similarity=0.660 Sum_probs=11.6
Q ss_pred hhhhccCCchhHHHHHHHH
Q 022955 12 SSWLTLTPSTLFLFVNLVI 30 (289)
Q Consensus 12 ~swl~~tP~~lfl~lN~vI 30 (289)
.+|+.|.-.+++||+-+|-
T Consensus 14 r~Wi~F~l~mi~vFi~li~ 32 (38)
T PF09125_consen 14 RGWIAFALAMILVFIALIG 32 (38)
T ss_dssp HHHHHHHHHHHHHHHHHHH
T ss_pred HhHHHHHHHHHHHHHHHHH
Confidence 4888666666665554443
No 9
>PF05106 Phage_holin_3: Phage holin family (Lysis protein S); InterPro: IPR006481 This entry is represented by the Bacteriophage lambda, GpS. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This protein family represent one of a large number of mutually dissimilar families of phage holins. Holins act against the host cell membrane to allow lytic enzymes of the phage to reach the bacterial cell wall. This family includes the product of the S gene of phage lambda.
Probab=22.05 E-value=82 Score=25.66 Aligned_cols=32 Identities=19% Similarity=0.561 Sum_probs=22.5
Q ss_pred CCccchhHHHhhhhhccC---CchhHHHHHHHHHHHH
Q 022955 1 MTDQSTLWGCMSSWLTLT---PSTLFLFVNLVIGTIA 34 (289)
Q Consensus 1 ~~~~~~~w~~~~swl~~t---P~~lfl~lN~vI~tIa 34 (289)
|...|.+|..+..|+ . |+....++=++|+.+=
T Consensus 1 M~k~P~~W~~ll~wl--~~~~~~~~~a~lA~~mA~LR 35 (100)
T PF05106_consen 1 MDKNPDFWAQLLAWL--QSHWPQIYGALLAFVMALLR 35 (100)
T ss_pred CCCCccHHHHHHHHH--HHHHHHHHHHHHHHHHHHHH
Confidence 788999999999998 4 5555555555554443
No 10
>PF13706 PepSY_TM_3: PepSY-associated TM helix
Probab=21.27 E-value=84 Score=21.10 Aligned_cols=29 Identities=28% Similarity=0.449 Sum_probs=21.4
Q ss_pred hHHHhhhhhccCCchhHHHHHHHHHHHHhh
Q 022955 7 LWGCMSSWLTLTPSTLFLFVNLVIGTIAVT 36 (289)
Q Consensus 7 ~w~~~~swl~~tP~~lfl~lN~vI~tIa~t 36 (289)
+|..+..|+ .....+++++-++-|++++-
T Consensus 3 ~~~~~H~W~-Gl~~g~~l~~~~~tG~~~~f 31 (37)
T PF13706_consen 3 ILRKLHRWL-GLILGLLLFVIFLTGAVMVF 31 (37)
T ss_pred HHHHHHHHH-HHHHHHHHHHHHHHhHHHHH
Confidence 456677887 55557788888888888764
No 11
>KOG4503 consensus Uncharacterized conserved membrane protein [Function unknown]
Probab=20.34 E-value=78 Score=29.86 Aligned_cols=18 Identities=28% Similarity=0.301 Sum_probs=15.0
Q ss_pred chhHHHHHHHHHHHHhhc
Q 022955 20 STLFLFVNLVIGTIAVTS 37 (289)
Q Consensus 20 ~~lfl~lN~vI~tIa~tS 37 (289)
.||=|+||.||++|..+=
T Consensus 84 gYLQLflNaiv~~iilyf 101 (230)
T KOG4503|consen 84 GYLQLFLNAIVIGIILYF 101 (230)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 388899999999998653
No 12
>COG5085 Predicted membrane protein [Function unknown]
Probab=20.34 E-value=78 Score=29.86 Aligned_cols=18 Identities=28% Similarity=0.301 Sum_probs=15.0
Q ss_pred chhHHHHHHHHHHHHhhc
Q 022955 20 STLFLFVNLVIGTIAVTS 37 (289)
Q Consensus 20 ~~lfl~lN~vI~tIa~tS 37 (289)
.||=|+||.||++|..+=
T Consensus 84 gYLQLflNaiv~~iilyf 101 (230)
T COG5085 84 GYLQLFLNAIVIGIILYF 101 (230)
T ss_pred HHHHHHHHHHHHHHHHHH
Confidence 388899999999998653
Done!