Query 012850
Match_columns 455
No_of_seqs 47 out of 49
Neff 4.3
Searched_HMMs 46136
Date Fri Mar 29 06:57:42 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/012850.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/012850hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PF12600 DUF3769: Protein of u 100.0 2.7E-74 5.9E-79 596.6 27.9 351 45-454 59-449 (451)
2 PF08055 Trp_leader1: Tryptoph 18.6 68 0.0015 20.1 1.0 12 80-91 4-15 (18)
3 COG1452 Imp Organic solvent to 16.2 81 0.0017 36.7 1.7 38 62-99 224-264 (784)
4 COG3637 Opacity protein and re 8.9 4.3E+02 0.0092 25.4 3.9 52 121-172 146-197 (199)
5 cd04094 selB_III This family r 8.3 6.2E+02 0.013 21.1 4.3 40 231-278 56-95 (97)
6 PF10863 DUF2702: Protein of u 7.8 1.6E+02 0.0035 27.7 0.5 18 55-74 54-71 (143)
7 PF11059 DUF2860: Protein of u 7.3 1.1E+03 0.023 24.7 6.2 64 117-180 164-235 (297)
8 PRK04423 organic solvent toler 7.2 1.6E+03 0.035 26.3 8.2 38 64-101 228-268 (798)
9 KOG0271 Notchless-like WD40 re 6.9 3E+02 0.0064 30.2 2.0 25 233-257 376-400 (480)
10 PRK03761 LPS assembly outer me 6.1 3.5E+02 0.0075 31.3 2.2 39 63-101 229-270 (778)
No 1
>PF12600 DUF3769: Protein of unknown function (DUF3769); InterPro: IPR022244 This family of proteins is found in bacteria and eukaryotes. Proteins in this family are typically between 560 and 931 amino acids in length.
Probab=100.00 E-value=2.7e-74 Score=596.61 Aligned_cols=351 Identities=23% Similarity=0.307 Sum_probs=299.6
Q ss_pred ccccchhhhhhcccCCCCc-----------------cCcCCC---ceEEeeeccccc-CCceEEEEeeceehhhhhhhcc
Q 012850 45 LSRPKQIDFMQRFMATPFL-----------------PSFSAG---TLQLQRVLPFQF-SGDWFATLLGQFNVLKFVSSLK 103 (455)
Q Consensus 45 l~R~qQl~~~qrf~~~P~~-----------------PSf~~~---Gl~lqr~~~~~~-~~nw~~tlt~Qf~~Qk~is~~~ 103 (455)
.++-.+|.|.|++ ++|+. ..||.. ||+|+|.|..+. ++|||++|||||++||+|....
T Consensus 59 ~~~~~rLv~dq~~-~iP~~~~~~~~d~~~~~~~~~~~G~D~~Dr~Glfi~R~~~~i~~~~~~~l~ltPQfliQRAi~g~t 137 (451)
T PF12600_consen 59 KSSRNRLVFDQRL-SIPIPRRRLIIDRREREPNRWSFGYDNDDRDGLFIGRNFNPINLTPNWWLTLTPQFLIQRAINGET 137 (451)
T ss_pred EEccceEEEeccc-ccceecceeecccccccCCceEEeeccCcCCeEEEeccccccccCCcEEEEEeehhheehhhcccc
Confidence 3455678888887 45541 336643 999999999998 9999999999999999998844
Q ss_pred ccccccccc-CccCCCCcccccceeeeeeccCCceEEE-----EeeecCCCccccceEEEEeecC-----CceEEEEeec
Q 012850 104 QGELSKSRC-LHALRDKSLYALGFCSELLFTDDDTLLL-----SYDSYGHNNTSRKKAVFCHKFP-----NHNFTLEALW 172 (455)
Q Consensus 104 ~~~~~~~~~-~~~l~D~SlyalG~~s~~~l~~~ttL~~-----sle~~~~~~~~R~k~~l~hklp-----~H~Lt~Eas~ 172 (455)
....+...+ +..+ +++|+|+.+.+.+++|++++.+ |++.+++++..|.|..++|++. .|++++||+|
T Consensus 138 ~s~~~~~~~~~~~l--~dlFGL~a~l~~~l~~~~~l~~~a~lsSfd~~~~~~~~R~~~~l~~~i~~~~~~~~~l~l~~~Y 215 (451)
T PF12600_consen 138 NSYVNPGVKQDNNL--PDLFGLKARLNGNLGPNTSLEGSAELSSFDPDNFENGLRSSSRLRQKIGLPLNNPHDLNLEYAY 215 (451)
T ss_pred ccccCCCccccCch--hhheeEEEEEecccCCceEEEeeeEecccCcchhhhhhccchhhhcccCCccCCCceEEEEEee
Confidence 444333322 4444 7899777777778999999976 6788889999999999999998 8999999999
Q ss_pred CceeecCCCCeEEeccceeEEEeccC----CCCCc--eEEEeeeecCCCCcccCCCCCCCCCCCCCCCCceeeeEEeeee
Q 012850 173 PGLFVDKCGNYWDVPFSMAADLASVA----SDSGP--SYHLTMHHNSGLPTQFEGDENSSAVPASLLPGFSLKNAVAYKK 246 (455)
Q Consensus 173 rerf~d~~~gy~dVp~S~~~~laS~~----~~sGl--sY~~g~~~~~g~p~~~~~~~~t~r~P~~LLPg~~~qaa~S~~k 246 (455)
|||++||++|||||++|+|+.|.|++ +++|+ +||+++|+++++.+.++. +.+ .+..|+|+++||++
T Consensus 216 R~R~~NGsLG~q~V~ss~G~~l~s~~~~~~~~~gl~~~Y~~~~~~~n~~td~~~~---~~~-----~~l~R~q~~~Sl~~ 287 (451)
T PF12600_consen 216 RERLWNGSLGFQDVYSSYGGVLESPGIWPLGNGGLNLSYQWSVQLGNAQTDRFRS---NNL-----VPLWRAQAAASLNK 287 (451)
T ss_pred eeeeecCCcCcEEEehhcceEEeccceecccCCCeeEEEEEEeeeeccccccCCC---CCc-----CccceEEEEEEccc
Confidence 99999999999999999999999988 46776 999999999886555433 333 46679999999999
Q ss_pred ceeeccccccc--cccCCCceeeccCceeeEeeeeeeeEEEEecCCcccCCcCCCCCCCCcccccccccccccccceeEe
Q 012850 247 NVDIWRSKAQK--LKMVQPYDIFLSSPHVSASGIIGAAMTASIGDNSVRSPVENDSDGSTGFHLHAADIKSSFSADIFGS 324 (455)
Q Consensus 247 ~~~LWrg~~~~--~~~~~~Y~~~p~~P~v~~sGiiG~~~~~~~g~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~adlfgS 324 (455)
+++||++|++| +++.+||++.|++|||++.+.+.++ .++|+|++. +++++||
T Consensus 288 ~~~LW~gk~lp~t~~~~lrYsp~PivP~l~l~t~l~~~-~s~Y~nGd~-------------------------Q~~l~~s 341 (451)
T PF12600_consen 288 SFPLWRGKPLPPTPEEGLRYSPRPIVPGLSLNTGLTGV-YSFYSNGDS-------------------------QNSLFGS 341 (451)
T ss_pred cceeecCCCCCCCCCcCCCCCcccccCcEEEEeccccc-cccccCCCc-------------------------ceeeEEe
Confidence 99999999998 5779999999999999999988887 566666644 3579999
Q ss_pred EEEEEEecccccccccceeeeeeeecCCCCccccccchhhhhhhccCCCCchhhhccCCeEEEEEeeeEeeceEEEEeee
Q 012850 325 VAFTAQHGNFQRLFSDLTRFHARLDFPSGSKFLSGATRLAQDYFNSQRPSLETVQAVCPKVFFSVQQQIAGPFSFRVDSG 404 (455)
Q Consensus 325 v~~taQ~G~FsR~flDyTrf~~rld~~s~s~fL~gas~la~~~~~~~~~~~~~~~~~~p~l~l~lqQQI~GP~rfrv~s~ 404 (455)
+|+++|+|||+|+|||||+|+++|+++ ++.|+|| |.+++.+|.. +|+++|+|||||||+|+||++
T Consensus 342 ~g~~~q~G~Fsr~~~DyT~~~~~~~~~----~~~g~Sp----f~fD~~~d~~-------~l~~~~~QQi~GP~~~~~~~~ 406 (451)
T PF12600_consen 342 VGPTGQLGNFSRPFLDYTRFSIRYSQT----LKSGASP----FLFDRIVDLP-------TLSLGLTQQIYGPLRFGVQSS 406 (451)
T ss_pred eeeEEEEccccccccccceEeeeecce----eccCCCc----cccccccccc-------eEEEEEEEEeeCCEEEeeeeE
Confidence 999999999999999999999999755 5889999 6677777777 999999999999999999999
Q ss_pred EEeecCCCceeecccEEEEEeehhhcCcceEEEEeccccccceEEEEeec
Q 012850 405 VVIDLKNRDICAHDSVFAIEYALQVLGSAKAVAWYAPKHQEFMIELRFFE 454 (455)
Q Consensus 405 ~sid~~~~~i~~~d~vy~leyslrtlgSak~vawYnP~rqegmveLRife 454 (455)
++||+ |+ +.|+.|.|||+||+|+ +++||||++|+||++|||+|
T Consensus 407 ~nld~--g~--~i~t~~~L~~sRRsY~---i~~~YnP~~~~Ggi~fRl~d 449 (451)
T PF12600_consen 407 INLDS--GE--EINTDYSLEYSRRSYG---IGLRYNPVRQIGGISFRLND 449 (451)
T ss_pred EEcCC--Cc--EeeeeEEEEEEeeecc---EEEEECcccccccEEEEecc
Confidence 99997 77 3345599999999997 99999999999999999986
No 2
>PF08055 Trp_leader1: Tryptophan leader peptide; InterPro: IPR012638 This family consists of the tryptophan (trp) leader peptides. Tryptophan accumulation is the principal event resulting in down regulation of transcription of the structural genes of the trp operon. The leader peptide of the trp operon forms mutually exclusive secondary structures that would either result in the termination of transcription of the trp operon when tryptophan is in plentiful supply or vice versa [].
Probab=18.61 E-value=68 Score=20.13 Aligned_cols=12 Identities=17% Similarity=0.280 Sum_probs=9.5
Q ss_pred ccCCceEEEEee
Q 012850 80 QFSGDWFATLLG 91 (455)
Q Consensus 80 ~~~~nw~~tlt~ 91 (455)
+.+.|||+|.-|
T Consensus 4 ~~~~nwwwtahp 15 (18)
T PF08055_consen 4 HQIQNWWWTAHP 15 (18)
T ss_pred ccccceeeeccc
Confidence 467899999766
No 3
>COG1452 Imp Organic solvent tolerance protein OstA [Cell envelope biogenesis, outer membrane]
Probab=16.16 E-value=81 Score=36.74 Aligned_cols=38 Identities=16% Similarity=0.238 Sum_probs=31.3
Q ss_pred CccCcCCC---ceEEeeecccccCCceEEEEeeceehhhhh
Q 012850 62 FLPSFSAG---TLQLQRVLPFQFSGDWFATLLGQFNVLKFV 99 (455)
Q Consensus 62 ~~PSf~~~---Gl~lqr~~~~~~~~nw~~tlt~Qf~~Qk~i 99 (455)
++|+++-+ |+++.--+-..-.|||=+|||||++-+|.+
T Consensus 224 L~P~~~~ss~~Gf~~~~PyY~~laPn~DlTltp~y~skrG~ 264 (784)
T COG1452 224 LIPSFGYSSRNGFSYGQPYYWNLAPNYDLTLTPQYMSKRGF 264 (784)
T ss_pred ccccccccCCCCeEEecceEEeccCCCCcEEchHHHhhhCc
Confidence 55855443 999888888889999999999999999964
No 4
>COG3637 Opacity protein and related surface antigens [Cell envelope biogenesis, outer membrane]
Probab=8.91 E-value=4.3e+02 Score=25.36 Aligned_cols=52 Identities=15% Similarity=0.179 Sum_probs=34.5
Q ss_pred ccccceeeeeeccCCceEEEEeeecCCCccccceEEEEeecCCceEEEEeec
Q 012850 121 LYALGFCSELLFTDDDTLLLSYDSYGHNNTSRKKAVFCHKFPNHNFTLEALW 172 (455)
Q Consensus 121 lyalG~~s~~~l~~~ttL~~sle~~~~~~~~R~k~~l~hklp~H~Lt~Eas~ 172 (455)
=|++|.-.+++++++.++.+++|..++.+..=....+..++..|++++=..|
T Consensus 146 g~~~gAGv~~~~tdnv~vd~~Y~y~~~g~~~~~~~~~~~~~~~~~v~vGv~Y 197 (199)
T COG3637 146 GYAYGAGVQYNPTDNVAIDLGYEYSDFGKKDGVDGGYSGDVKTHTVKVGVGY 197 (199)
T ss_pred eeeeecceeeeccCCEEEEeEEEEeccCCcccCCcccccccccceEEEeeeE
Confidence 3677888899999999999988877654433222233344556777775554
No 5
>cd04094 selB_III This family represents the domain of elongation factor SelB, homologous to domain III of EF-Tu. SelB may function by replacing EF-Tu. In prokaryotes, the incorporation of selenocysteine as the 21st amino acid, encoded by TGA, requires several elements: SelC is the tRNA itself, SelD acts as a donor of reduced selenium, SelA modifies a serine residue on SelC into selenocysteine, and SelB is a selenocysteine-specific translation elongation factor. 3' or 5' non-coding elements of mRNA have been found as probable structures for directing selenocysteine incorporation.
Probab=8.32 E-value=6.2e+02 Score=21.05 Aligned_cols=40 Identities=18% Similarity=0.169 Sum_probs=29.2
Q ss_pred CCCCCceeeeEEeeeeceeeccccccccccCCCceeeccCceeeEeee
Q 012850 231 SLLPGFSLKNAVAYKKNVDIWRSKAQKLKMVQPYDIFLSSPHVSASGI 278 (455)
Q Consensus 231 ~LLPg~~~qaa~S~~k~~~LWrg~~~~~~~~~~Y~~~p~~P~v~~sGi 278 (455)
.++||-...+-+.+++.+-++.++ +|.++--.|-..++|.
T Consensus 56 ~~~pg~~~~a~l~l~~pl~~~~gd--------rfilR~~~~~~tiggG 95 (97)
T cd04094 56 ELAPGEEALAQLRLEEPLVALRGD--------RFILRSYSPLRTLGGG 95 (97)
T ss_pred ccCCCCEEEEEEEECCcEeecCCC--------eEEEeeCCCCeEEEeE
Confidence 357888888888888887777664 7777777775665554
No 6
>PF10863 DUF2702: Protein of unknown function (DUF2702); InterPro: IPR022592 This entry represents fungal proteins with unknown function.
Probab=7.82 E-value=1.6e+02 Score=27.70 Aligned_cols=18 Identities=17% Similarity=0.445 Sum_probs=14.4
Q ss_pred hcccCCCCccCcCCCceEEe
Q 012850 55 QRFMATPFLPSFSAGTLQLQ 74 (455)
Q Consensus 55 qrf~~~P~~PSf~~~Gl~lq 74 (455)
+-||.+|+||. ++||.++
T Consensus 54 ~~F~~LPVI~~--GsGL~f~ 71 (143)
T PF10863_consen 54 DSFFNLPVIQQ--GSGLSFA 71 (143)
T ss_pred HHhhcCCcccC--CCCCCcc
Confidence 46889999998 5588766
No 7
>PF11059 DUF2860: Protein of unknown function (DUF2860); InterPro: IPR016896 There is currently no experimental data for members of this group or their homologues, nor do they exhibit features indicative of any function.
Probab=7.34 E-value=1.1e+03 Score=24.72 Aligned_cols=64 Identities=20% Similarity=0.234 Sum_probs=46.0
Q ss_pred CCCcccccceeeeeeccCCceEEEEe-----eecCCC---ccccceEEEEeecCCceEEEEeecCceeecCC
Q 012850 117 RDKSLYALGFCSELLFTDDDTLLLSY-----DSYGHN---NTSRKKAVFCHKFPNHNFTLEALWPGLFVDKC 180 (455)
Q Consensus 117 ~D~SlyalG~~s~~~l~~~ttL~~sl-----e~~~~~---~~~R~k~~l~hklp~H~Lt~Eas~rerf~d~~ 180 (455)
.|-..|-+++.-++.|++...|.-++ +++|.. +..-+.+.+.++++.|.+.+.++|-.|-+|..
T Consensus 164 Rd~~~~~~~~~y~~~ls~~~~L~P~l~Y~~~dAdG~A~S~~~~g~~ls~~~~~~rh~~~lt~~y~~~~Yd~~ 235 (297)
T PF11059_consen 164 RDGDYYYLKGSYRLPLSQTSFLTPSLNYTQRDADGDAMSYDSYGAELSYFKRIGRHSLALTASYSKRDYDAE 235 (297)
T ss_pred ccCceEEEEEEEEEEecCCcEEeeEEEEEEecCCCceeccCccCeEEEeeeEcccceEEEEEeccccccccc
Confidence 35567777788888887766665544 444432 35778888889999999998888877777654
No 8
>PRK04423 organic solvent tolerance protein; Provisional
Probab=7.19 E-value=1.6e+03 Score=26.34 Aligned_cols=38 Identities=16% Similarity=0.230 Sum_probs=30.8
Q ss_pred cCcCCC---ceEEeeecccccCCceEEEEeeceehhhhhhh
Q 012850 64 PSFSAG---TLQLQRVLPFQFSGDWFATLLGQFNVLKFVSS 101 (455)
Q Consensus 64 PSf~~~---Gl~lqr~~~~~~~~nw~~tlt~Qf~~Qk~is~ 101 (455)
|+|.-+ |+.+.--+...-.+|+-+||+|++.-+|-+.-
T Consensus 228 P~~g~s~~~G~~~~~Pyy~~ia~~~D~tl~p~~~skrG~~l 268 (798)
T PRK04423 228 PQFGLSGRNGFDYLQPIYLNLAPNYDATLLPRYMSKRGFMF 268 (798)
T ss_pred ccccccCCCCeEEEeeEEEecCCCCceEEeEEEEecCcccc
Confidence 554433 99888888899999999999999998887644
No 9
>KOG0271 consensus Notchless-like WD40 repeat-containing protein [Function unknown]
Probab=6.95 E-value=3e+02 Score=30.22 Aligned_cols=25 Identities=20% Similarity=0.485 Sum_probs=21.5
Q ss_pred CCCceeeeEEeeeeceeeccccccc
Q 012850 233 LPGFSLKNAVAYKKNVDIWRSKAQK 257 (455)
Q Consensus 233 LPg~~~qaa~S~~k~~~LWrg~~~~ 257 (455)
=|..++-|++|+.|++-||.++.-+
T Consensus 376 SPd~r~IASaSFDkSVkLW~g~tGk 400 (480)
T KOG0271|consen 376 SPDGRYIASASFDKSVKLWDGRTGK 400 (480)
T ss_pred CCCccEEEEeecccceeeeeCCCcc
Confidence 3667999999999999999998544
No 10
>PRK03761 LPS assembly outer membrane complex protein LptD; Provisional
Probab=6.09 E-value=3.5e+02 Score=31.27 Aligned_cols=39 Identities=8% Similarity=0.093 Sum_probs=32.4
Q ss_pred ccCcCCC---ceEEeeecccccCCceEEEEeeceehhhhhhh
Q 012850 63 LPSFSAG---TLQLQRVLPFQFSGDWFATLLGQFNVLKFVSS 101 (455)
Q Consensus 63 ~PSf~~~---Gl~lqr~~~~~~~~nw~~tlt~Qf~~Qk~is~ 101 (455)
+|+|.-+ ||.+.--+-..-.+|+=+||||+++-+|-+.-
T Consensus 229 ~P~~g~ss~~G~~~~~PyY~~iapn~D~Tltp~~~skrG~~l 270 (778)
T PRK03761 229 IPNAKYSSKNGFEFELPYYWNIAPNYDATITPHYMSRRGWQW 270 (778)
T ss_pred cCcccccCCCCeEEEEEEEEEccCCCccEEeeeEecCCCccc
Confidence 4655432 99999889899999999999999999887754
Done!