Query 038968
Match_columns 206
No_of_seqs 109 out of 672
Neff 6.7
Searched_HMMs 46136
Date Fri Mar 29 05:04:12 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/038968.a3m -d /work/01045/syshi/HHdatabase/Cdd.hhm -o /work/01045/syshi/hhsearch_cdd/038968hhsearch_cdd -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 PLN02629 powdery mildew resist 100.0 3.5E-61 7.7E-66 431.7 19.0 192 4-205 154-348 (387)
2 PF13839 PC-Esterase: GDSL/SGN 100.0 2.2E-28 4.8E-33 206.9 15.4 163 7-205 57-231 (263)
3 cd01842 SGNH_hydrolase_like_5 70.8 14 0.0003 30.6 5.8 53 62-132 51-103 (183)
4 cd01841 NnaC_like NnaC (CMP-Ne 57.1 57 0.0012 25.2 7.0 81 99-203 70-160 (174)
5 cd01827 sialate_O-acetylestera 50.9 92 0.002 24.3 7.4 81 99-203 88-173 (188)
6 PF06462 Hyd_WA: Propeller; I 46.6 20 0.00043 20.9 2.1 21 120-140 8-29 (32)
7 cd01838 Isoamyl_acetate_hydrol 45.5 60 0.0013 25.3 5.5 33 99-133 87-119 (199)
8 cd01825 SGNH_hydrolase_peri1 S 43.4 1.5E+02 0.0033 22.8 7.6 32 99-132 76-107 (189)
9 PF15590 Imm15: Immunity prote 39.9 30 0.00065 24.1 2.4 27 111-137 24-50 (69)
10 COG0180 TrpS Tryptophanyl-tRNA 33.4 50 0.0011 29.6 3.5 53 83-135 39-95 (314)
11 PF00919 UPF0004: Uncharacteri 29.3 34 0.00074 25.1 1.5 33 59-116 34-66 (98)
12 cd00229 SGNH_hydrolase SGNH_hy 27.6 2.4E+02 0.0052 20.4 9.4 34 170-203 132-174 (187)
13 PF09363 XFP_C: XFP C-terminal 27.2 73 0.0016 26.8 3.2 22 181-202 63-85 (203)
14 PLN02886 aminoacyl-tRNA ligase 24.2 1.1E+02 0.0024 28.3 4.1 39 97-135 95-133 (389)
15 PRK12284 tryptophanyl-tRNA syn 22.2 1.2E+02 0.0027 28.3 4.1 39 97-135 53-91 (431)
16 cd04506 SGNH_hydrolase_YpmR_li 21.2 1.2E+02 0.0026 24.1 3.4 29 99-129 101-129 (204)
17 PF04198 Sugar-bind: Putative 20.0 21 0.00045 30.6 -1.4 51 17-74 107-157 (255)
No 1
>PLN02629 powdery mildew resistance 5
Probab=100.00 E-value=3.5e-61 Score=431.73 Aligned_cols=192 Identities=35% Similarity=0.662 Sum_probs=167.5
Q ss_pred cccCceEEEEEccCceEEEEEEccccceecCCCCCCccccceeeccccchhhhcCCCCccEEEEeecccccccCCceeec
Q 038968 4 CPAGFKVIMCLQDYNTTVEFYWAPFLVESNSDDPNMHSILNRIIMPESINKHGQNWKNVDYLIFNTYIWWMNTFSMKVLR 83 (206)
Q Consensus 4 ~~~~~~~~~~F~~yN~Tv~~~wSpfLV~~~~~~~~~~~~~~~~l~ld~~~~~~~~w~~~DvlVfntGhWw~~~~~~~~~~ 83 (206)
++++++++|+|++|||||+||||||||+.++.+ ..++|+||.++.+++.|+++|||||||||||++++... .+
T Consensus 154 ~~~~~~~~~~F~~yN~TV~~ywspfLV~~~~~~------~~~~l~LD~id~~a~~w~~~DvlVfntghWw~~~~~~~-~~ 226 (387)
T PLN02629 154 SRGDPLSTFKFLDYGVSISFYKAPYLVDIDAVQ------GKRVLKLEEISGNANAWRDADVLIFNTGHWWSHQGSLQ-GW 226 (387)
T ss_pred ecCCceEEEEeccCCEEEEEEecceEEeeecCC------CceeEEecCcchhhhhhccCCEEEEeCccccCCCCeeE-Ee
Confidence 456778999999999999999999999987643 23578999999989999999999999999999986443 34
Q ss_pred ceecCCCCcccCCCHHHHHHHHHHHHHHHHHhhCCCCceeEEEeeccCCCcCCCCCCCCC---CCCCcCccccCCCCCcC
Q 038968 84 GSFDEGATEYDEIERPVAYARVLKTWSKWVEQNVDPNRTTVFFGSTSPLHIKSLDWENPD---GIKCALETTPITNLSMP 160 (206)
Q Consensus 84 ~~~~~g~~~~~~~~~~~Ayr~al~t~~~wi~~~~~~~~~~vffRt~SP~Hf~~g~Wn~~~---GG~C~~~T~P~~~~~~~ 160 (206)
+++++|..++++|++.+|||+||+||++||++++++.+++|||||+||+|||||+||+++ +|+|+++|+|+.++++.
T Consensus 227 ~~~~~g~~~~~~~~~~~A~r~al~T~~~wv~~~~~~~kt~vffrT~SP~Hfe~g~Wn~gg~~~~~~C~~et~P~~~~~~~ 306 (387)
T PLN02629 227 DYIESGGTYYQDMDRLVALEKALRTWAYWVDTNVDRSRTRVFFQSISPTHYNPSEWSAGASTTTKNCYGETTPMSGMTYP 306 (387)
T ss_pred eeeccCCccccCccHHHHHHHHHHHHHHHHHhcCCCCCcEEEEEecCcccccCCCcCCCCCCCCCCCccCCccCcCcccc
Confidence 678889899999999999999999999999999999999999999999999999999832 35798899999876542
Q ss_pred CCCCCchHHHHHHHHHHhcCCcceEEeecccccccCcCCCCCCcc
Q 038968 161 LNVGTDRRLFVVASNVTRSMKVPVHFINITTLSEYRKDGHTAVYT 205 (206)
Q Consensus 161 ~~~~~~~~~~~i~~~v~~~~~~~v~lLdIT~ls~~R~DgHPs~y~ 205 (206)
+....++.++++++++++++|+|||||+||+||||||||+|+
T Consensus 307 ---~~~~~~~~~ve~v~~~~~~~v~lLDIT~ls~lR~DgHPs~Y~ 348 (387)
T PLN02629 307 ---GAYPDQMRVVDEVIRGMHNPAYLLDITLLSELRKDGHPSIYS 348 (387)
T ss_pred ---CcchHHHHHHHHHHHhcCCceEEEechhhhhcCCCCCccccc
Confidence 333344557888888999999999999999999999999995
No 2
>PF13839 PC-Esterase: GDSL/SGNH-like Acyl-Esterase family found in Pmr5 and Cas1p
Probab=99.96 E-value=2.2e-28 Score=206.90 Aligned_cols=163 Identities=31% Similarity=0.619 Sum_probs=123.9
Q ss_pred CceEEEEEccCceEEEEEEccccceecCCCCCCccccceeeccccch-hhhcCCC----CccEEEEeecccccccCCcee
Q 038968 7 GFKVIMCLQDYNTTVEFYWAPFLVESNSDDPNMHSILNRIIMPESIN-KHGQNWK----NVDYLIFNTYIWWMNTFSMKV 81 (206)
Q Consensus 7 ~~~~~~~F~~yN~Tv~~~wSpfLV~~~~~~~~~~~~~~~~l~ld~~~-~~~~~w~----~~DvlVfntGhWw~~~~~~~~ 81 (206)
++...+.|+++|+||+|+|+|||++. +|.++ .....|. ..||||||+|+||.+.+ ...
T Consensus 57 ~~~~~~~~~~~~~~~~f~~~p~l~~~----------------l~~~~~~~~~~~~~~~~~pdvvV~nsG~W~~~~~-~~~ 119 (263)
T PF13839_consen 57 HRNFRYNFPDYNVTLSFYWDPFLVDQ----------------LDSIDEEIANNWPTSGARPDVVVINSGLWYLRRS-GFI 119 (263)
T ss_pred CCceEEeecCCCeEEEEecccccccc----------------ccccchhhhccccccccCCCEEEEEcchhhhhcc-hhc
Confidence 45778899999999999999999976 22222 3344454 78999999999998763 222
Q ss_pred ecceecCCCCcccCCCHHHHHHHHHHHHHHHHHhhCCCCc--eeEEEeeccCCCcCCCCCCCCCCCCCcCccccCCCCCc
Q 038968 82 LRGSFDEGATEYDEIERPVAYARVLKTWSKWVEQNVDPNR--TTVFFGSTSPLHIKSLDWENPDGIKCALETTPITNLSM 159 (206)
Q Consensus 82 ~~~~~~~g~~~~~~~~~~~Ayr~al~t~~~wi~~~~~~~~--~~vffRt~SP~Hf~~g~Wn~~~GG~C~~~T~P~~~~~~ 159 (206)
.+ +++ .++...++|+..|+++++++.+.+++.+ ++||||+++|.||++++|++ ||.|. +...
T Consensus 120 ~~-----~~~--~~~~~~~~y~~~l~~~~~~~~~~~~~~~~~~~v~~r~~~P~h~~~~~~~~--gg~c~----~~~~--- 183 (263)
T PF13839_consen 120 EW-----GDN--KEINPLEAYRNRLRTLADWVRRLLDRSKPPTRVFWRTTSPVHFEGGDWNS--GGSCN----PPRR--- 183 (263)
T ss_pred cc-----CCC--cCcchHHHHHHHHHHHHHHHHhhhccccccceEEEEecCCcccccccccc--CCCcC----cccc---
Confidence 21 333 7778899999999999999998887766 89999999999999999998 99998 1111
Q ss_pred CCCCCCchHHHHHHHHHHh---cCCcceEEeec-ccccccCc-CCCCCCcc
Q 038968 160 PLNVGTDRRLFVVASNVTR---SMKVPVHFINI-TTLSEYRK-DGHTAVYT 205 (206)
Q Consensus 160 ~~~~~~~~~~~~i~~~v~~---~~~~~v~lLdI-T~ls~~R~-DgHPs~y~ 205 (206)
. ....++.....+++. ....++.+||| |.++.+|+ |||||+|+
T Consensus 184 --~-~~~~~~~~~~~~~~~~~~~~~~~~~~ldi~~~~~~~r~~d~H~~~~~ 231 (263)
T PF13839_consen 184 --E-EITNEQIDELNEALREALKKNSRVHLLDIFTMLSSFRPDDAHPGIYR 231 (263)
T ss_pred --c-CCCHHHHHHHHHHHHHHhhcCCCceeeeecchhhhccccccCccccc
Confidence 1 122223333333322 35789999999 99999999 99999996
No 3
>cd01842 SGNH_hydrolase_like_5 SGNH_hydrolase subfamily. SGNH hydrolases are a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=70.79 E-value=14 Score=30.61 Aligned_cols=53 Identities=15% Similarity=0.411 Sum_probs=38.0
Q ss_pred ccEEEEeecccccccCCceeecceecCCCCcccCCCHHHHHHHHHHHHHHHHHhhCCCCceeEEEeeccCC
Q 038968 62 VDYLIFNTYIWWMNTFSMKVLRGSFDEGATEYDEIERPVAYARVLKTWSKWVEQNVDPNRTTVFFGSTSPL 132 (206)
Q Consensus 62 ~DvlVfntGhWw~~~~~~~~~~~~~~~g~~~~~~~~~~~Ayr~al~t~~~wi~~~~~~~~~~vffRt~SP~ 132 (206)
.||+|||+|.|=.. +|. . ...+-|++-|.+...-+.+-+ |.+.++++.|.+|-
T Consensus 51 ~DVIi~Ns~LWDl~---------ry~--~------~~~~~Y~~NL~~Lf~rLk~~l-p~~allIW~tt~Pv 103 (183)
T cd01842 51 LDLVIMNSCLWDLS---------RYQ--R------NSMKTYRENLERLFSKLDSVL-PIECLIVWNTAMPV 103 (183)
T ss_pred eeEEEEecceeccc---------ccC--C------CCHHHHHHHHHHHHHHHHhhC-CCccEEEEecCCCC
Confidence 49999999999432 111 0 235689999999887665433 45678999999996
No 4
>cd01841 NnaC_like NnaC (CMP-NeuNAc synthetase) _like subfamily of SGNH_hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles two of the three components of typical Ser-His-Asp(Glu) triad from other serine hydrolases. E. coli NnaC appears to be involved in polysaccharide synthesis.
Probab=57.13 E-value=57 Score=25.17 Aligned_cols=81 Identities=17% Similarity=0.275 Sum_probs=45.8
Q ss_pred HHHHHHHHHHHHHHHHhhCCCCceeEEEeeccCCCcCCCCCCCCCCCCCcCccccCCCCCcCCCCCCchHHHHHHHHHHh
Q 038968 99 PVAYARVLKTWSKWVEQNVDPNRTTVFFGSTSPLHIKSLDWENPDGIKCALETTPITNLSMPLNVGTDRRLFVVASNVTR 178 (206)
Q Consensus 99 ~~Ayr~al~t~~~wi~~~~~~~~~~vffRt~SP~Hf~~g~Wn~~~GG~C~~~T~P~~~~~~~~~~~~~~~~~~i~~~v~~ 178 (206)
.+.|+..+++.++-+.+.. .+..|++-+..|...+. .|. .. .. ..-.++++++.++.+
T Consensus 70 ~~~~~~~~~~l~~~~~~~~--p~~~vi~~~~~p~~~~~---------~~~--------~~--~~-~~~~~~n~~l~~~a~ 127 (174)
T cd01841 70 SNQFIKWYRDIIEQIREEF--PNTKIYLLSVLPVLEED---------EIK--------TR--SN-TRIQRLNDAIKELAP 127 (174)
T ss_pred HHHHHHHHHHHHHHHHHHC--CCCEEEEEeeCCcCccc---------ccc--------cC--CH-HHHHHHHHHHHHHHH
Confidence 4567777888777775432 24578888887765320 010 00 00 001134555556555
Q ss_pred cCCcceEEeeccccc---------ccCcCC-CCCC
Q 038968 179 SMKVPVHFINITTLS---------EYRKDG-HTAV 203 (206)
Q Consensus 179 ~~~~~v~lLdIT~ls---------~~R~Dg-HPs~ 203 (206)
+. .+.++|+..+. .+-+|| ||+.
T Consensus 128 ~~--~~~~id~~~~~~~~~~~~~~~~~~DglH~n~ 160 (174)
T cd01841 128 EL--GVTFIDLNDVLVDEFGNLKKEYTTDGLHFNP 160 (174)
T ss_pred HC--CCEEEEcHHHHcCCCCCccccccCCCcccCH
Confidence 44 48899988764 355788 8874
No 5
>cd01827 sialate_O-acetylesterase_like1 sialate O-acetylesterase_like family of the SGNH hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=50.88 E-value=92 Score=24.25 Aligned_cols=81 Identities=11% Similarity=0.146 Sum_probs=43.6
Q ss_pred HHHHHHHHHHHHHHHHhhCCCCceeEEEeeccCCCcCCCCCCCCCCCCCcCccccCCCCCcCCCCCCchHHHHHHHHHHh
Q 038968 99 PVAYARVLKTWSKWVEQNVDPNRTTVFFGSTSPLHIKSLDWENPDGIKCALETTPITNLSMPLNVGTDRRLFVVASNVTR 178 (206)
Q Consensus 99 ~~Ayr~al~t~~~wi~~~~~~~~~~vffRt~SP~Hf~~g~Wn~~~GG~C~~~T~P~~~~~~~~~~~~~~~~~~i~~~v~~ 178 (206)
.+.|+..++..++.+.+. . .+..+++.|..|.... .| .+ ....+ .....++.+.++.+
T Consensus 88 ~~~~~~~l~~li~~i~~~-~-~~~~iil~t~~p~~~~--~~------~~------~~~~~------~~~~~~~~~~~~a~ 145 (188)
T cd01827 88 KDDFKKDYETMIDSFQAL-P-SKPKIYICYPIPAYYG--DG------GF------INDNI------IKKEIQPMIDKIAK 145 (188)
T ss_pred HHHHHHHHHHHHHHHHHH-C-CCCeEEEEeCCccccc--CC------Cc------cchHH------HHHHHHHHHHHHHH
Confidence 457788888888777543 2 2446778777765421 11 11 10000 00123444445544
Q ss_pred cCCcceEEeeccccc----ccCcCC-CCCC
Q 038968 179 SMKVPVHFINITTLS----EYRKDG-HTAV 203 (206)
Q Consensus 179 ~~~~~v~lLdIT~ls----~~R~Dg-HPs~ 203 (206)
+ ..+.++|+...+ .+=+|| ||+.
T Consensus 146 ~--~~~~~vD~~~~~~~~~~~~~Dg~Hpn~ 173 (188)
T cd01827 146 K--LNLKLIDLHTPLKGKPELVPDWVHPNE 173 (188)
T ss_pred H--cCCcEEEccccccCCccccCCCCCcCH
Confidence 3 367778876654 344688 9985
No 6
>PF06462 Hyd_WA: Propeller; InterPro: IPR006624 Tectonins I and II are two dominant proteins in the nuclei and nuclear matrix from plasmodia of Physarum polycephalum (Slime mold) which encode 217 and 353 amino acids, respectively. Tectonin I is homologous to the C-terminal two-thirds of tectonin II. Both proteins contain six tandem repeats that are each 33-37 amino acids in length and define a new consensus sequence. Homologous repeats are found in L-6, a bacterial lipopolysaccharide-binding lectin from horseshoe crab hemocytes. The repetitive sequences of the tectonins and L-6 are reminiscent of the WD repeats of the beta-subunit of G proteins, suggesting that they form beta-propeller domains. The tectonins may be lectins that function as part of a transmembrane signalling complex during phagocytosis [].
Probab=46.63 E-value=20 Score=20.88 Aligned_cols=21 Identities=29% Similarity=0.656 Sum_probs=17.4
Q ss_pred CceeEEEee-ccCCCcCCCCCC
Q 038968 120 NRTTVFFGS-TSPLHIKSLDWE 140 (206)
Q Consensus 120 ~~~~vffRt-~SP~Hf~~g~Wn 140 (206)
..+.+++|+ +||..-+|-.|.
T Consensus 8 ~~G~v~~R~Gis~~~P~G~~W~ 29 (32)
T PF06462_consen 8 SDGSVYFRTGISPSNPEGTSWE 29 (32)
T ss_pred CCCCEEEECcCCCCCCCCCCcE
Confidence 357899998 999998888885
No 7
>cd01838 Isoamyl_acetate_hydrolase_like Isoamyl-acetate hydrolyzing esterase-like proteins. SGNH_hydrolase subfamily similar to the Saccharomyces cerevisiae IAH1. IAH1 may be the major esterase that hydrolyses isoamyl acetate in sake mash. The SGNH-family of hydrolases is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases
Probab=45.47 E-value=60 Score=25.26 Aligned_cols=33 Identities=15% Similarity=0.214 Sum_probs=22.6
Q ss_pred HHHHHHHHHHHHHHHHhhCCCCceeEEEeeccCCC
Q 038968 99 PVAYARVLKTWSKWVEQNVDPNRTTVFFGSTSPLH 133 (206)
Q Consensus 99 ~~Ayr~al~t~~~wi~~~~~~~~~~vffRt~SP~H 133 (206)
.+.|+..++.+++.+.+.. ....+++-|..|..
T Consensus 87 ~~~~~~~~~~~i~~~~~~~--~~~~ii~~t~~~~~ 119 (199)
T cd01838 87 LDEYKENLRKIVSHLKSLS--PKTKVILITPPPVD 119 (199)
T ss_pred HHHHHHHHHHHHHHHHhhC--CCCeEEEeCCCCCC
Confidence 5688888888888776531 24567787876643
No 8
>cd01825 SGNH_hydrolase_peri1 SGNH_peri1; putative periplasmic member of the SGNH-family of hydrolases, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad found in other serine hydrolases.
Probab=43.44 E-value=1.5e+02 Score=22.84 Aligned_cols=32 Identities=13% Similarity=0.207 Sum_probs=22.3
Q ss_pred HHHHHHHHHHHHHHHHhhCCCCceeEEEeeccCC
Q 038968 99 PVAYARVLKTWSKWVEQNVDPNRTTVFFGSTSPL 132 (206)
Q Consensus 99 ~~Ayr~al~t~~~wi~~~~~~~~~~vffRt~SP~ 132 (206)
.+.|+..|+..++.+.+. ..+..|++-+..|.
T Consensus 76 ~~~~~~~~~~li~~i~~~--~~~~~iv~~~~~~~ 107 (189)
T cd01825 76 ASEYRQQLREFIKRLRQI--LPNASILLVGPPDS 107 (189)
T ss_pred HHHHHHHHHHHHHHHHHH--CCCCeEEEEcCCch
Confidence 457888888888877553 23457888887664
No 9
>PF15590 Imm15: Immunity protein 15
Probab=39.88 E-value=30 Score=24.06 Aligned_cols=27 Identities=19% Similarity=0.228 Sum_probs=22.0
Q ss_pred HHHHhhCCCCceeEEEeeccCCCcCCC
Q 038968 111 KWVEQNVDPNRTTVFFGSTSPLHIKSL 137 (206)
Q Consensus 111 ~wi~~~~~~~~~~vffRt~SP~Hf~~g 137 (206)
.|-...+|+.+++--.+++.++|++||
T Consensus 24 ~We~~y~DP~D~r~W~~~~~~s~~hGG 50 (69)
T PF15590_consen 24 GWETLYQDPRDGRYWEKSYPESHMHGG 50 (69)
T ss_pred chhhhccCCCCCceeEEecCcccccCC
Confidence 454456788999999999999999865
No 10
>COG0180 TrpS Tryptophanyl-tRNA synthetase [Translation, ribosomal structure and biogenesis]
Probab=33.40 E-value=50 Score=29.63 Aligned_cols=53 Identities=15% Similarity=0.197 Sum_probs=37.8
Q ss_pred cceecCCC--Cccc-CCCHHHHHHHH-HHHHHHHHHhhCCCCceeEEEeeccCCCcC
Q 038968 83 RGSFDEGA--TEYD-EIERPVAYARV-LKTWSKWVEQNVDPNRTTVFFGSTSPLHIK 135 (206)
Q Consensus 83 ~~~~~~g~--~~~~-~~~~~~Ayr~a-l~t~~~wi~~~~~~~~~~vffRt~SP~Hf~ 135 (206)
.|+||.-+ .... .....+..+.+ ...++.||.-.+||.|+.+|+.|--|.|.|
T Consensus 39 ~~f~~IaDlha~t~~~~~~~~~l~~~~~e~~a~~LA~GiDP~k~~if~QS~v~e~~e 95 (314)
T COG0180 39 ECFFFIADLHAITVRQDPTEEDLRQATREVAADYLAVGLDPEKSTIFLQSEVPEHAE 95 (314)
T ss_pred ceEEEEecHHHhhcCCCChHHHHHHHHHHHHHHHHHhccCccccEEEEccCchHHHH
Confidence 46666543 1222 22333666666 566788988889999999999999999988
No 11
>PF00919 UPF0004: Uncharacterized protein family UPF0004; InterPro: IPR013848 The methylthiotransferase (MTTase) or miaB-like family is named after the (dimethylallyl)adenosine tRNA MTTase miaB protein, which catalyses a C-H to C-S bond conversion in the methylthiolation of tRNA. A related bacterial enzyme rimO performs a similar methylthiolation, but on a protein substrate. RimO acts on the ribosomal protein S12 and forms a separate MTTase subfamily. The miaB-subfamily includes mammalian CDK5 regulatory subunit-associated proteins and similar proteins in other eukaryotes. Two other subfamilies, yqeV and CDKAL1, are named after a Bacillus subtilis and a human protein, respectively. While yqeV-like proteins are found in bacteria, CDKAL1 subfamily members occur in eukaryotes and in archaebacteria. The likely MTTases from these 4 subfamilies contain an N-terminal MTTase domain, a central radical generating fold and a C-terminal TRAM domain (see PDOC50926 from PROSITEDOC). The core forms a radical SAM fold (or AdoMet radical), containing a cysteine motif CxxxCxxC that binds a [4Fe-4S] cluster [, , ]. A reducing equivalent from the [4Fe-4S]+ cluster is used to cleave S-adenosylmethionine (SAM) to generate methionine and a 5'-deoxyadenosyl radical. The latter is thought to produce a reactive substrate radical that is amenable to sulphur insertion [, ]. The N-terminal MTTase domain contains 3 cysteines that bind a second [4Fe-4S] cluster, in addition to the radical-generating [4Fe-4S] cluster, which could be involved in the thiolation reaction. The C-terminal TRAM domain is not shared with other radical SAM proteins outside the MTTase family. The TRAM domain can bind to RNA substrate and seems to be important for substrate recognition. The tertiary structure of the central radical SAM fold has six beta/alpha motifs resembling a three-quarter TIM barrel core (see PDOC00155 from PROSITEDOC) []. The N-terminal MTTase domain might form an additional [beta/alpha]2 TIM barrel unit []. ; GO: 0003824 catalytic activity, 0051539 4 iron, 4 sulfur cluster binding, 0009451 RNA modification
Probab=29.26 E-value=34 Score=25.06 Aligned_cols=33 Identities=21% Similarity=0.169 Sum_probs=22.9
Q ss_pred CCCccEEEEeecccccccCCceeecceecCCCCcccCCCHHHHHHHHHHHHHHHHHhh
Q 038968 59 WKNVDYLIFNTYIWWMNTFSMKVLRGSFDEGATEYDEIERPVAYARVLKTWSKWVEQN 116 (206)
Q Consensus 59 w~~~DvlVfntGhWw~~~~~~~~~~~~~~~g~~~~~~~~~~~Ayr~al~t~~~wi~~~ 116 (206)
..+||++|||| |.+ ...|=+++++...++...+
T Consensus 34 ~e~AD~iiiNT--------------C~V-----------~~~Ae~k~~~~i~~l~~~~ 66 (98)
T PF00919_consen 34 PEEADVIIINT--------------CTV-----------RESAEQKSRNRIRKLKKLK 66 (98)
T ss_pred cccCCEEEEEc--------------CCC-----------CcHHHHHHHHHHHHHHHhc
Confidence 47899999997 332 1337778888877776544
No 12
>cd00229 SGNH_hydrolase SGNH_hydrolase, or GDSL_hydrolase, is a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the typical Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid.
Probab=27.60 E-value=2.4e+02 Score=20.42 Aligned_cols=34 Identities=21% Similarity=0.303 Sum_probs=21.0
Q ss_pred HHHHHHHHhcCC--cceEEeecccccc------cCcCC-CCCC
Q 038968 170 FVVASNVTRSMK--VPVHFINITTLSE------YRKDG-HTAV 203 (206)
Q Consensus 170 ~~i~~~v~~~~~--~~v~lLdIT~ls~------~R~Dg-HPs~ 203 (206)
...+.++.+..+ ..+.++|+..... +..|| ||+.
T Consensus 132 ~~~~~~~~~~~~~~~~~~~~d~~~~~~~~~~~~~~~Dg~H~~~ 174 (187)
T cd00229 132 NEAIKAVAAENPAPSGVDLVDLAALLGDEDKSLYSPDGIHPNP 174 (187)
T ss_pred HHHHHHHHHHcCCCcceEEEEhhhhhCCCccccccCCCCCCch
Confidence 344444444332 2589999998764 45676 9875
No 13
>PF09363 XFP_C: XFP C-terminal domain; InterPro: IPR018969 Phosphoketolases (PK) are key enzymes of the pentose phosphate pathway of heterofermentative and facultative homofermentative lactic acid bacteria and of the D-fructose 6-phosphate shunt of bifidobacteria. PK activity has been sporadically reported in other microorganisms including eukaryotic yeasts. Xylulose-5-phosphate/fructose-6-phosphate phosphoketolase is a thiamine diphosphate (ThdP)-dependent enzyme found in bacteria such as Bifidobacterium sp [, ]. This enzyme has dual-specificity with the following catalytic activities: 4.1.2.9 from EC: xylose 5-P + Pi = acetyl-P + glyeraldehyde-3-P 4.1.2.22 from EC: fructose-6-P + Pi = acetyl-P + erythrose-4-P Phosphoketolases are distantly related to transketolases, e.g. IPR005475 from INTERPRO.; GO: 0016832 aldehyde-lyase activity, 0005975 carbohydrate metabolic process; PDB: 3AI7_B 3AHC_A 3AHJ_A 3AHG_A 3AHE_A 3AHI_A 3AHD_A 3AHF_A 3AHH_A.
Probab=27.18 E-value=73 Score=26.82 Aligned_cols=22 Identities=14% Similarity=0.394 Sum_probs=15.5
Q ss_pred CcceEEeecccccccCc-CCCCC
Q 038968 181 KVPVHFINITTLSEYRK-DGHTA 202 (206)
Q Consensus 181 ~~~v~lLdIT~ls~~R~-DgHPs 202 (206)
..+|+++||+.|+.|++ +-||-
T Consensus 63 ~lkiRvVNVvDLm~L~~~~~hPh 85 (203)
T PF09363_consen 63 ELKIRVVNVVDLMKLQPPSEHPH 85 (203)
T ss_dssp T--EEEEEESBGGGGS-TTT-TT
T ss_pred CceEEEEEEeEccccCCCCCCCC
Confidence 68999999999999975 66773
No 14
>PLN02886 aminoacyl-tRNA ligase
Probab=24.19 E-value=1.1e+02 Score=28.28 Aligned_cols=39 Identities=21% Similarity=0.316 Sum_probs=33.7
Q ss_pred CHHHHHHHHHHHHHHHHHhhCCCCceeEEEeeccCCCcC
Q 038968 97 ERPVAYARVLKTWSKWVEQNVDPNRTTVFFGSTSPLHIK 135 (206)
Q Consensus 97 ~~~~Ayr~al~t~~~wi~~~~~~~~~~vffRt~SP~Hf~ 135 (206)
++.+.-+.+...++.|+...+||.|+.+|+.|--|.|.|
T Consensus 95 ~~~~lr~~~~~~~a~~lA~GlDP~ks~if~QS~v~e~~e 133 (389)
T PLN02886 95 DPRELGKATRSTAAIYLACGIDPSKASVFVQSHVPAHAE 133 (389)
T ss_pred CHHHHHHHHHHHHHHHHHcCcCccceEEEEeCCCchhHH
Confidence 566677777888899999999999999999999999954
No 15
>PRK12284 tryptophanyl-tRNA synthetase; Reviewed
Probab=22.20 E-value=1.2e+02 Score=28.33 Aligned_cols=39 Identities=21% Similarity=0.343 Sum_probs=32.8
Q ss_pred CHHHHHHHHHHHHHHHHHhhCCCCceeEEEeeccCCCcC
Q 038968 97 ERPVAYARVLKTWSKWVEQNVDPNRTTVFFGSTSPLHIK 135 (206)
Q Consensus 97 ~~~~Ayr~al~t~~~wi~~~~~~~~~~vffRt~SP~Hf~ 135 (206)
+..+.-+..+..++.|+...+||.|..+|+.|--|.|.|
T Consensus 53 dp~~lr~~~~e~aa~~LA~GlDPek~~if~QSdvpeh~E 91 (431)
T PRK12284 53 DPARIQRSTLEIAATWLAAGLDPERVTFYRQSDIPEIPE 91 (431)
T ss_pred CHHHHHHHHHHHHHHHHHhCCCccceEEEECCcchhHHH
Confidence 455566667777889999899999999999999999976
No 16
>cd04506 SGNH_hydrolase_YpmR_like Members of the SGNH-hydrolase superfamily, a diverse family of lipases and esterases. The tertiary fold of the enzyme is substantially different from that of the alpha/beta hydrolase family and unique among all known hydrolases; its active site closely resembles the Ser-His-Asp(Glu) triad from other serine hydrolases, but may lack the carboxlic acid. This subfamily contains sequences similar to Bacillus YpmR.
Probab=21.24 E-value=1.2e+02 Score=24.05 Aligned_cols=29 Identities=21% Similarity=0.296 Sum_probs=18.5
Q ss_pred HHHHHHHHHHHHHHHHhhCCCCceeEEEeec
Q 038968 99 PVAYARVLKTWSKWVEQNVDPNRTTVFFGST 129 (206)
Q Consensus 99 ~~Ayr~al~t~~~wi~~~~~~~~~~vffRt~ 129 (206)
.+.|+..|+.+++.+.+. .+ +..+++-++
T Consensus 101 ~~~~~~~l~~~i~~ir~~-~p-~~~Ivv~~~ 129 (204)
T cd04506 101 EETYQNNLKKIFKEIRKL-NP-DAPIFLVGL 129 (204)
T ss_pred HHHHHHHHHHHHHHHHHH-CC-CCeEEEEec
Confidence 457889999988887553 23 334555543
No 17
>PF04198 Sugar-bind: Putative sugar-binding domain; InterPro: IPR007324 This probable domain is found in bacterial transcriptional regulators such as DeoR and SorC. One of these proteins, Q8U7I7 from SWISSPROT, has an N-terminal helix-turn-helix IPR000792 from INTERPRO that binds to DNA. This domain is probably the ligand regulator binding region. SorC is regulated by sorbose and other members of this family are likely to be regulated by other sugar substrates.; GO: 0030246 carbohydrate binding; PDB: 3KV1_A 3EFB_C 2W48_A 3BXH_A 3BXE_A 2OKG_A 3BXF_A 3BXG_A 2R5F_A 2O0M_A ....
Probab=20.02 E-value=21 Score=30.59 Aligned_cols=51 Identities=16% Similarity=0.037 Sum_probs=31.9
Q ss_pred CceEEEEEEccccceecCCCCCCccccceeeccccchhhhcCCCCccEEEEeeccccc
Q 038968 17 YNTTVEFYWAPFLVESNSDDPNMHSILNRIIMPESINKHGQNWKNVDYLIFNTYIWWM 74 (206)
Q Consensus 17 yN~Tv~~~wSpfLV~~~~~~~~~~~~~~~~l~ld~~~~~~~~w~~~DvlVfntGhWw~ 74 (206)
++.+-.+..+|.+|+..... ..++....+.+.-+.|..+|++|++.|-+-.
T Consensus 107 ~g~~~~~l~aP~~~~s~~~~-------~~l~~~~~i~~~l~~~~~~dial~giG~~~~ 157 (255)
T PF04198_consen 107 LGGKYYFLPAPAFVDSPELR-------DALLAEPSIREVLDLARKADIALVGIGSPSS 157 (255)
T ss_dssp HTSEEE---SBSB-SSHHHH-------HHHHTSHHHHHHHHHHCT-SEEEEEEEEHHH
T ss_pred hCCcEEEEeCCccCCCHHHH-------HHHHhChHHHHHHHHHHhCCEEEEecCCCCC
Confidence 67888899999999765421 1223333455556778999999999999875
Done!