Query 017531
Match_columns 370
No_of_seqs 192 out of 379
Neff 4.7
Searched_HMMs 46136
Date Fri Mar 29 09:24:47 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/017531.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/017531hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF03080 DUF239: Domain of unk 100.0 3.4E-46 7.3E-51 351.1 12.1 126 244-369 1-131 (229)
2 PF14365 DUF4409: Domain of un 100.0 4.9E-39 1.1E-43 275.3 5.9 107 131-239 1-117 (117)
3 PRK09510 tolA cell envelope in 31.6 81 0.0018 32.9 5.1 21 68-88 14-34 (387)
4 PF07438 DUF1514: Protein of u 26.1 13 0.00028 29.6 -1.3 55 69-127 3-63 (66)
5 PF11239 DUF3040: Protein of u 22.0 77 0.0017 25.4 2.4 17 107-123 4-20 (82)
6 COG1512 Beta-propeller domains 21.4 1.6E+02 0.0034 29.4 4.8 34 101-138 39-77 (271)
7 TIGR02794 tolA_full TolA prote 20.1 1.3E+02 0.0028 30.8 4.0 20 68-87 3-22 (346)
8 PF13987 YedD: YedD-like prote 20.0 42 0.00092 29.1 0.5 22 123-144 23-45 (111)
9 PF07172 GRP: Glycine rich pro 15.8 93 0.002 26.2 1.6 11 72-82 10-20 (95)
10 PRK10838 spr outer membrane li 15.2 4.5E+02 0.0098 24.7 6.2 75 66-142 2-94 (190)
No 1
>PF03080 DUF239: Domain of unknown function (DUF239); InterPro: IPR004314 This is a family of plant proteins, a small number of which are putative peptidases (see for example Q9XIN9 from SWISSPROT). However, the structure of the protein PDB3:3eu8 has an alpha-alpha toroid fold and is similar to a glucoamylase, PDB:1ayx. Such glucoamylases are involved in breaking down complex sugars (e.g. starch). The biologically relevant state is likely to be monomeric. The putative active site is located at the centre of the toroid with a well defined large cavity. Further structural comparisons also show relationships with other glycohydrolases.
Probab=100.00 E-value=3.4e-46 Score=351.08 Aligned_cols=126 Identities=56% Similarity=1.057 Sum_probs=121.4
Q ss_pred eeeeEEEEEeeccccccCCccceeeeeeeeCCCCCCCcEEEEeeEECccccCCCccEEEEEEecCCccccccccCCCCcc
Q 017531 244 YYGAKASINVWAPRVVNQYEFSLSQMWVISGSFGDDLNTIEAGWQVSPELYGDNYPRFFTYWTTDAYQATGCYNLLCSGF 323 (370)
Q Consensus 244 yyGa~AtInVw~P~V~~~~qfSlsqiwI~~G~~~~~~nsIeaGW~V~P~lYGD~~~RlFtyWT~D~y~~TGCYNl~CpGF 323 (370)
|||++|+||||+|+|+.++|||++||||.+|..++++|+|||||+|+|+||||++||||+|||+|+|++|||||++||||
T Consensus 1 y~G~~a~i~v~~p~v~~~~q~S~~~i~i~~g~~~~~~~~i~~GW~V~P~lygd~~~~lf~~wt~d~~~~tgCyN~~CpGF 80 (229)
T PF03080_consen 1 YYGARATISVWNPKVQQPDQFSLSQIWISNGSDDDSLNSIEAGWQVYPSLYGDSRTRLFVYWTADGYQKTGCYNLDCPGF 80 (229)
T ss_pred CeeeEEEEECcCCccCCccceeheeEEEEecCCCCCCcEEEEeeeccccccCCCceEEEEEEEccCCCCcceeCCCCCcE
Confidence 79999999999999998779999999999997567799999999999999999999999999999999999999999999
Q ss_pred EEecCccccCcccccccccCCceEEEEEEEEeeccCC-----CCCeecccc
Q 017531 324 VQTNNRIAIGAAISPTSSYNGGQFDISLLIWKVIDLK-----FDHVPFNYF 369 (370)
Q Consensus 324 VQvs~~i~lG~~i~PvStygG~Qy~i~i~I~KDp~t~-----~~~~~iGY~ 369 (370)
|||+++|+||++|+|+|+++|.|++|+|+|+|||.+. +++++||||
T Consensus 81 Vq~s~~i~~G~~~~~~S~~gG~q~~i~~~i~kD~~~gnWWL~~~~~~IGYw 131 (229)
T PF03080_consen 81 VQVSSSIALGAAISPVSTYGGKQYEITLSIFKDPKSGNWWLYYGGEPIGYW 131 (229)
T ss_pred EEeCCccccceeeCCCccCCCceEEEEEEEEecCCCccEEEEEecceeeee
Confidence 9999999999999999999999999999999999983 788899999
No 2
>PF14365 DUF4409: Domain of unknown function (DUF4409)
Probab=100.00 E-value=4.9e-39 Score=275.26 Aligned_cols=107 Identities=56% Similarity=0.941 Sum_probs=88.0
Q ss_pred EEeCCCCCeEEeeecCCCCCCCCCCCCCCCCCCCCCCCCCCCCC----CCcccceeeeccCCCCCCCCceeeeecCchhh
Q 017531 131 TIQSPDGDIIDCVETHLQPAFDHPKLKGQRPLDPPARPNGHNPS----GMITEEFQLWSFSGESCPEGTIPIRRTTEQDV 206 (370)
Q Consensus 131 tIqs~dGdiiDCVdI~kQPAfdHPLLKNHkiq~pPs~p~~~~~~----~~~~~~~q~w~~~g~~CP~GTVPIrRtt~eDl 206 (370)
||+|+||||||||||||||||||||||+|+ +.|++.|++.... .......|+|+.+| +||+|||||||+++|||
T Consensus 1 tI~s~dGdi~DCVdi~kQPAfdHPlLK~~q-~~Ps~~p~~~~~~~~~~~~~~~~~q~w~~~g-~CP~GTVPIrRtt~~dl 78 (117)
T PF14365_consen 1 TIQSPDGDIIDCVDIYKQPAFDHPLLKNIQ-MRPSSYPKGISSKESSSSSSKPISQLWHQNG-SCPEGTVPIRRTTKEDL 78 (117)
T ss_pred CccCCCCCeEeCEeccccccccCchhcCcc-cCcchhhhhcccccccccccccchhhhcccc-CCcCCceeeecCCHHHH
Confidence 699999999999999999999999999755 3455677765543 22345679999888 89999999999999999
Q ss_pred cccccccccccccccccc------cccCCCCcceeEEEE
Q 017531 207 LRATSVGKFGRKKIRRVR------RDTNSNGHEHAVGYV 239 (370)
Q Consensus 207 lRa~S~~~fg~k~~~~~~------~~~~~~gHe~Av~~~ 239 (370)
+||+|+.+||+|...... .+.+.+|||||++|+
T Consensus 79 lr~~s~~~~g~k~~~~~~~~~~~~~~~~~~gH~~Aia~~ 117 (117)
T PF14365_consen 79 LRAKSFKRFGRKPPSSISSPSSNKPDISSNGHEHAIAYV 117 (117)
T ss_pred hhhhhHHHcCCcCCCCcCCccccCCCCCCCCCceEEEeC
Confidence 999999999999765322 224677999999985
No 3
>PRK09510 tolA cell envelope integrity inner membrane protein TolA; Provisional
Probab=31.58 E-value=81 Score=32.94 Aligned_cols=21 Identities=14% Similarity=0.113 Sum_probs=15.6
Q ss_pred CChHHHHHHHHHHHhhhhccc
Q 017531 68 SPIIPIFVSYLLVLSSSICLV 88 (370)
Q Consensus 68 ~~~~~~~~~~~l~~~~~~~~~ 88 (370)
+.||++++|+|||++|++++.
T Consensus 14 aiiiSv~LHvlLi~lLi~gs~ 34 (387)
T PRK09510 14 AIIISVVLHIILFALLIWSSF 34 (387)
T ss_pred HHHHHHHHHHHHHHHHHHHhc
Confidence 357888999999888865543
No 4
>PF07438 DUF1514: Protein of unknown function (DUF1514); InterPro: IPR009999 This entry is represented by Bacteriophage phi PVL, Orf60. The characteristics of the protein distribution suggest prophage matches in addition to the phage matches. This family consists of several Staphylococcus aureus and related bacteriophage proteins of around 65 residues in length. The function of this family is unknown.
Probab=26.12 E-value=13 Score=29.56 Aligned_cols=55 Identities=20% Similarity=0.227 Sum_probs=28.1
Q ss_pred ChHHHHHHHHHHHhhhhcccccc---CCCCCCcccc---ccccCchHHHHHHHHHHHHHHhhcCC
Q 017531 69 PIIPIFVSYLLVLSSSICLVHSS---DTGKNLNATN---QTTLRPEEELHKLKFIRAHLNKINKP 127 (370)
Q Consensus 69 ~~~~~~~~~~l~~~~~~~~~~~~---~~~~~~~~~~---~~~~~~~~~~~~~~~i~~~Lk~iNKp 127 (370)
+||++.++.+||+++ .+.|- +.+.- --+| ...|......+.+++.|..+++|||.
T Consensus 3 IiiSIvLai~lLI~l---~~ns~lr~eieal-kY~N~yL~~~~v~~~g~~gl~~~~~e~~r~~~~ 63 (66)
T PF07438_consen 3 IIISIVLAIALLISL---SVNSELRKEIEAL-KYMNDYLFDQFVRDNGYEGLEEYEIEIERIKKD 63 (66)
T ss_pred hhHHHHHHHHHHHHH---hhhHHHHHHHHHH-HHHHHHHHHHHhhccCcchHHHHHHHHHHHHHH
Confidence 577888888888887 23321 10000 0011 01222222233466788888888875
No 5
>PF11239 DUF3040: Protein of unknown function (DUF3040); InterPro: IPR021401 Some members in this family of proteins with unknown function are annotated as membrane proteins however this cannot be confirmed.
Probab=21.96 E-value=77 Score=25.43 Aligned_cols=17 Identities=29% Similarity=0.391 Sum_probs=14.2
Q ss_pred chHHHHHHHHHHHHHHh
Q 017531 107 PEEELHKLKFIRAHLNK 123 (370)
Q Consensus 107 ~~~~~~~~~~i~~~Lk~ 123 (370)
+++|-+.++|||++|..
T Consensus 4 Se~E~r~L~eiEr~L~~ 20 (82)
T PF11239_consen 4 SEHEQRRLEEIERQLRA 20 (82)
T ss_pred CHHHHHHHHHHHHHHHh
Confidence 45778889999999976
No 6
>COG1512 Beta-propeller domains of methanol dehydrogenase type [General function prediction only]
Probab=21.40 E-value=1.6e+02 Score=29.38 Aligned_cols=34 Identities=26% Similarity=0.335 Sum_probs=19.9
Q ss_pred cccccCchHHHHHHHHHHHHHHhhcCC-----cceEEeCCCCC
Q 017531 101 NQTTLRPEEELHKLKFIRAHLNKINKP-----AVKTIQSPDGD 138 (370)
Q Consensus 101 ~~~~~~~~~~~~~~~~i~~~Lk~iNKp-----~vKtIqs~dGd 138 (370)
+..++...++- .+|++|+.|-+. +|.+|.|-+|+
T Consensus 39 ~t~~Ls~~e~~----~Leq~l~~L~~kt~~QiaVv~vpSt~g~ 77 (271)
T COG1512 39 LTGTLSAAERG----ALEQQLADLEQKTGAQIAVVTVPSTGGE 77 (271)
T ss_pred ccccCChhhHH----HHHHHHHHHHhccCCeEEEEEecCCCCC
Confidence 34466554333 477788888332 26677666555
No 7
>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=20.15 E-value=1.3e+02 Score=30.82 Aligned_cols=20 Identities=10% Similarity=0.120 Sum_probs=14.8
Q ss_pred CChHHHHHHHHHHHhhhhcc
Q 017531 68 SPIIPIFVSYLLVLSSSICL 87 (370)
Q Consensus 68 ~~~~~~~~~~~l~~~~~~~~ 87 (370)
+.++|+++|+||+++|++..
T Consensus 3 a~~lSv~lHvlLi~lL~~g~ 22 (346)
T TIGR02794 3 AFLLSLLLHILLLGLLILGS 22 (346)
T ss_pred hHHHHHHHHHHHHHHHHHhh
Confidence 35788899999888775543
No 8
>PF13987 YedD: YedD-like protein
Probab=20.03 E-value=42 Score=29.07 Aligned_cols=22 Identities=27% Similarity=0.650 Sum_probs=16.4
Q ss_pred hhcCCcceE-EeCCCCCeEEeee
Q 017531 123 KINKPAVKT-IQSPDGDIIDCVE 144 (370)
Q Consensus 123 ~iNKp~vKt-Iqs~dGdiiDCVd 144 (370)
.+...|+.| |.|.+||..||--
T Consensus 23 lvSpeAiASLivt~~GdTLDCRQ 45 (111)
T PF13987_consen 23 LVSPEAIASLIVTKEGDTLDCRQ 45 (111)
T ss_pred ccChhheeEEEEccCCCccchhh
Confidence 345556655 7899999999953
No 9
>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=15.84 E-value=93 Score=26.16 Aligned_cols=11 Identities=27% Similarity=0.567 Sum_probs=4.3
Q ss_pred HHHHHHHHHHh
Q 017531 72 PIFVSYLLVLS 82 (370)
Q Consensus 72 ~~~~~~~l~~~ 82 (370)
.+|++.||||+
T Consensus 10 ~l~LA~lLlis 20 (95)
T PF07172_consen 10 GLLLAALLLIS 20 (95)
T ss_pred HHHHHHHHHHH
Confidence 33344444433
No 10
>PRK10838 spr outer membrane lipoprotein; Provisional
Probab=15.20 E-value=4.5e+02 Score=24.70 Aligned_cols=75 Identities=16% Similarity=0.189 Sum_probs=0.0
Q ss_pred cCCChHH-HHHHHHHHHhhhhccccccCCCCCCccccccccCc---------hHHHH--------HHHHHHHHHHhhcCC
Q 017531 66 KISPIIP-IFVSYLLVLSSSICLVHSSDTGKNLNATNQTTLRP---------EEELH--------KLKFIRAHLNKINKP 127 (370)
Q Consensus 66 ~~~~~~~-~~~~~~l~~~~~~~~~~~~~~~~~~~~~~~~~~~~---------~~~~~--------~~~~i~~~Lk~iNKp 127 (370)
++.|+.. ++-.+++|+++++.+..++............+..+ +++.+ +-+.++...+.+..|
T Consensus 2 ~~~~~~~~~~~~~~~~~~~~~l~ac~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~il~~a~~~~G~p 81 (190)
T PRK10838 2 KSQPILRYILRGIPAIAVAVLLSACSANNTAKNMHTETRAVGDSDGSSLQASQDEFENMVRNVDVKSRIMDQYADWKGVR 81 (190)
T ss_pred CchHHHHHHHHHHHHHHHHHHHHHhcCCCCCccccCCcccccCCCccceeccChhHHHhhhhhhHHHHHHHHHHHHCCCC
Q ss_pred cceEEeCCCCCeEEe
Q 017531 128 AVKTIQSPDGDIIDC 142 (370)
Q Consensus 128 ~vKtIqs~dGdiiDC 142 (370)
-+--=.+++| |||
T Consensus 82 Y~~GG~s~~G--~DC 94 (190)
T PRK10838 82 YRLGGSTKKG--IDC 94 (190)
T ss_pred ccCCCCCCCC--eEc
Done!