Query 028120
Match_columns 213
No_of_seqs 99 out of 117
Neff 3.0
Searched_HMMs 46136
Date Fri Mar 29 06:33:33 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028120.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/028120hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF07797 DUF1639: Protein of u 100.0 2.3E-32 4.9E-37 191.3 3.7 50 135-184 1-50 (50)
2 PF09627 PrgU: PrgU-like prote 49.7 9.7 0.00021 31.3 1.4 24 14-37 7-31 (122)
3 PF13635 DUF4143: Domain of un 31.6 36 0.00079 24.8 1.9 20 13-34 69-88 (90)
4 PF11396 DUF2874: Protein of u 28.6 38 0.00083 22.7 1.5 31 159-189 8-44 (61)
5 COG4583 Sarcosine oxidase gamm 20.8 22 0.00049 31.3 -1.0 50 128-177 32-82 (189)
6 PF11341 DUF3143: Protein of u 16.5 68 0.0015 23.9 0.8 18 128-145 44-61 (63)
7 PF14644 DUF4456: Domain of un 14.9 1.5E+02 0.0032 25.5 2.6 32 139-170 3-34 (208)
8 KOG3057 Cytochrome c oxidase, 14.5 72 0.0015 26.3 0.6 18 161-178 80-97 (112)
9 TIGR00828 EIID-AGA PTS system, 13.0 80 0.0017 28.9 0.5 26 162-187 220-245 (271)
10 PF13986 DUF4224: Domain of un 12.1 2.4E+02 0.0053 19.2 2.6 13 135-151 3-15 (47)
No 1
>PF07797 DUF1639: Protein of unknown function (DUF1639); InterPro: IPR012438 This approximately 50-residue region is found in a number of sequences derived from hypothetical plant proteins. This region features a highly basic 5 amino-acid stretch towards its centre.
Probab=99.97 E-value=2.3e-32 Score=191.32 Aligned_cols=50 Identities=54% Similarity=0.927 Sum_probs=49.6
Q ss_pred cchHHHHhhhhhhhcCCCCCCcchhhHHHHHHhhhcCCCcccccccccce
Q 028120 135 LSNKEKEEDFMAMKGCKPSQRPKKRAKLIQRSILLVSPGAWLSDLCRERY 184 (213)
Q Consensus 135 LsrkEiEeDF~am~G~kpprRPKKRpK~VQk~ld~lfPGlwL~~vt~d~Y 184 (213)
||+|||||||+||+|+|||||||||||+||++||.||||+||++||+|+|
T Consensus 1 Lsr~EieeDf~am~G~kpprRPkKRpk~Vqk~ld~lfPG~wL~~vt~d~Y 50 (50)
T PF07797_consen 1 LSRKEIEEDFLAMTGSKPPRRPKKRPKNVQKQLDSLFPGLWLSEVTPDRY 50 (50)
T ss_pred CCHHHHHHHHHHHhCCCCCCCCCcccHHHHHHHhhcCcchhhhhcCcccC
Confidence 89999999999999999999999999999999999999999999999999
No 2
>PF09627 PrgU: PrgU-like protein; InterPro: IPR018589 This hypothetical protein of 125 residues is expressed in bacteria but is thought to be plasmid in origin. It forms a six beta-strand barrel with three accompanying alpha helices and is probably a homo-dimer in the cell. It may be involved in pheromone-inducible conjugation []. ; PDB: 2GMQ_B.
Probab=49.72 E-value=9.7 Score=31.27 Aligned_cols=24 Identities=38% Similarity=0.578 Sum_probs=19.9
Q ss_pred ccccceehc-cCcceeeeeeeecCc
Q 028120 14 EATDFVLQW-GNRKRLRCCKVKKES 37 (213)
Q Consensus 14 tE~Df~LQW-GNRKRLRCvKVk~~~ 37 (213)
-|-|+-||| ||+-||--|||++..
T Consensus 7 QEK~~~~~W~G~~GrL~~ir~K~~r 31 (122)
T PF09627_consen 7 QEKDVNTQWQGFRGRLVMIRVKNTR 31 (122)
T ss_dssp EGGGEEEEEGGGTSBEEEEEE-HHH
T ss_pred ecceeeeEEecCcceEEEEEeeCCe
Confidence 378999999 999999999998654
No 3
>PF13635 DUF4143: Domain of unknown function (DUF4143)
Probab=31.57 E-value=36 Score=24.85 Aligned_cols=20 Identities=35% Similarity=0.539 Sum_probs=16.1
Q ss_pred cccccceehccCcceeeeeeee
Q 028120 13 KEATDFVLQWGNRKRLRCCKVK 34 (213)
Q Consensus 13 ~tE~Df~LQWGNRKRLRCvKVk 34 (213)
+.|-||++++|+ ++-.+-||
T Consensus 69 ~~EVDfv~~~~~--~~~~IEVK 88 (90)
T PF13635_consen 69 GQEVDFVIENGG--RIIPIEVK 88 (90)
T ss_pred CCEEEEEEEeCC--EEEEEEEE
Confidence 349999999999 66677665
No 4
>PF11396 DUF2874: Protein of unknown function (DUF2874); InterPro: IPR021533 This bacterial family of proteins are probable periplasmic proteins with unknown function. There are between one and four copies of this domain per sequence. ; PDB: 3DUE_A 3U1W_B 3DB7_A 4DSD_A 3ELG_A.
Probab=28.63 E-value=38 Score=22.69 Aligned_cols=31 Identities=29% Similarity=0.403 Sum_probs=24.4
Q ss_pred hhHHHHHHhhhcCCCcccccccccc------eecccc
Q 028120 159 RAKLIQRSILLVSPGAWLSDLCRER------YEVREK 189 (213)
Q Consensus 159 RpK~VQk~ld~lfPGlwL~~vt~d~------Y~V~e~ 189 (213)
=|..|+..|..-|||.-+.++..+. |+|.-+
T Consensus 8 lP~~v~~~i~~~yp~~~i~~v~~~~~~~~~~Y~v~l~ 44 (61)
T PF11396_consen 8 LPAAVKNAIKKNYPGAKIKEVEKETDPGGKYYEVELK 44 (61)
T ss_dssp S-HHHHHHHHHHSTTSEEEEEEEEEETTEEEEEEEET
T ss_pred CCHHHHHHHHHHCCCCeEEEEEEEEcCCCCEEEEEEE
Confidence 4789999999999999888776554 777665
No 5
>COG4583 Sarcosine oxidase gamma subunit [Amino acid transport and metabolism]
Probab=20.82 E-value=22 Score=31.31 Aligned_cols=50 Identities=26% Similarity=0.352 Sum_probs=39.8
Q ss_pred cCeeEEEcchH-HHHhhhhhhhcCCCCCCcchhhHHHHHHhhhcCCCcccc
Q 028120 128 WPRLFVTLSNK-EKEEDFMAMKGCKPSQRPKKRAKLIQRSILLVSPGAWLS 177 (213)
Q Consensus 128 ~pkfsisLsrk-EiEeDF~am~G~kpprRPKKRpK~VQk~ld~lfPGlwL~ 177 (213)
.|-+-|.|=.- --+.||.+-.|...|-+|+..+..=.+.+..|-|+.||-
T Consensus 32 ~p~~~~vl~~~~~~~~al~aal~~~~P~~~~~~a~sge~~v~wlgPDeW~V 82 (189)
T COG4583 32 RPEGRIVLVAAEAADPALSAALGRVLPAEPKGVASSGERSVLWLGPDEWLV 82 (189)
T ss_pred CCCCceEEeecCccchhHHHHHhhhcCCCCCCccccCceEEEEeCCCeeEE
Confidence 35455554433 345679999999999999999999899999999999986
No 6
>PF11341 DUF3143: Protein of unknown function (DUF3143); InterPro: IPR021489 This family of proteins has no known function.
Probab=16.47 E-value=68 Score=23.87 Aligned_cols=18 Identities=17% Similarity=0.176 Sum_probs=15.1
Q ss_pred cCeeEEEcchHHHHhhhh
Q 028120 128 WPRLFVTLSNKEKEEDFM 145 (213)
Q Consensus 128 ~pkfsisLsrkEiEeDF~ 145 (213)
...|..+|||+.||.=++
T Consensus 44 ~rsF~YsLSR~DvE~Ai~ 61 (63)
T PF11341_consen 44 QRSFPYSLSREDVEAAIF 61 (63)
T ss_pred EEeccCcCCHHHHHHHHh
Confidence 368999999999998554
No 7
>PF14644 DUF4456: Domain of unknown function (DUF4456)
Probab=14.92 E-value=1.5e+02 Score=25.48 Aligned_cols=32 Identities=19% Similarity=0.321 Sum_probs=28.4
Q ss_pred HHHhhhhhhhcCCCCCCcchhhHHHHHHhhhc
Q 028120 139 EKEEDFMAMKGCKPSQRPKKRAKLIQRSILLV 170 (213)
Q Consensus 139 EiEeDF~am~G~kpprRPKKRpK~VQk~ld~l 170 (213)
++-|.|++-.|.+++.||-.-|=+++..++.+
T Consensus 3 ~~ae~~y~~k~~~~~~rP~~i~~t~e~~~d~~ 34 (208)
T PF14644_consen 3 TLAEEYYRKKGKRPITRPEMIPETFEQCADNL 34 (208)
T ss_pred hHHHHHHHhcCCccCCChhhchHHHHHHHHHH
Confidence 46789999999999999999999999888765
No 8
>KOG3057 consensus Cytochrome c oxidase, subunit VIb/COX12 [Energy production and conversion]
Probab=14.47 E-value=72 Score=26.26 Aligned_cols=18 Identities=28% Similarity=0.636 Sum_probs=16.0
Q ss_pred HHHHHHhhhcCCCccccc
Q 028120 161 KLIQRSILLVSPGAWLSD 178 (213)
Q Consensus 161 K~VQk~ld~lfPGlwL~~ 178 (213)
+.+|+...+|+||.|...
T Consensus 80 k~f~~~y~SlCP~~WV~k 97 (112)
T KOG3057|consen 80 KKFQKVYRSLCPGEWVEK 97 (112)
T ss_pred HHHHHHHHHhCcHHHHHH
Confidence 489999999999999865
No 9
>TIGR00828 EIID-AGA PTS system, mannose/fructose/sorbose family, IID component. Bacterial PTS transporters transport and concomitantly phosphorylate their sugar substrates, and typically consist of multiple subunits or protein domains. The Man family is unique in several respects among PTS permease families.It is the only PTS family in which members possess a IID protein. It is the only PTS family in which the IIB constituent is phosphorylated on a histidyl rather than a cysteyl residue. Its permease members exhibit broad specificity for a range of sugars, rather than being specific for just one or a few sugars. The mannose permease of E. coli, for example, can transport and phosphorylate glucose, mannose, fructose, glucosamine,N-acetylglucosamine, and other sugars. Other members of this can transport sorbose, fructose and N-acetylglucosamine. This family is specific for the IID subunits of this family of PTS transporters.
Probab=13.04 E-value=80 Score=28.87 Aligned_cols=26 Identities=19% Similarity=0.111 Sum_probs=18.7
Q ss_pred HHHHHhhhcCCCcccccccccceecc
Q 028120 162 LIQRSILLVSPGAWLSDLCRERYEVR 187 (213)
Q Consensus 162 ~VQk~ld~lfPGlwL~~vt~d~Y~V~ 187 (213)
++|..||.|+||+==--+|--.|-.=
T Consensus 220 ~~Q~ilD~I~P~llPl~~~~~~y~ll 245 (271)
T TIGR00828 220 TVQNILDQLMPGLLPLGLTLLMYWLL 245 (271)
T ss_pred eHHHHHHHHhhhhHHHHHHHHHHHHH
Confidence 78999999999984445555555443
No 10
>PF13986 DUF4224: Domain of unknown function (DUF4224)
Probab=12.11 E-value=2.4e+02 Score=19.23 Aligned_cols=13 Identities=31% Similarity=0.624 Sum_probs=9.6
Q ss_pred cchHHHHhhhhhhhcCC
Q 028120 135 LSNKEKEEDFMAMKGCK 151 (213)
Q Consensus 135 LsrkEiEeDF~am~G~k 151 (213)
||.+||. .|||.+
T Consensus 3 LT~~El~----elTG~k 15 (47)
T PF13986_consen 3 LTDEELQ----ELTGYK 15 (47)
T ss_pred CCHHHHH----HHHCCC
Confidence 7777775 599966
Done!