Query 025348
Match_columns 254
No_of_seqs 245 out of 1981
Neff 8.4
Searched_HMMs 29240
Date Mon Mar 25 08:31:26 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/025348.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/025348hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3kra_B Geranyl diphosphate syn 45.3 21 0.00073 29.7 4.3 46 143-188 73-118 (274)
2 3m0g_A Farnesyl diphosphate sy 36.9 11 0.00039 31.9 1.3 42 141-182 207-259 (297)
3 3lom_A Geranyltranstransferase 26.8 10 0.00036 32.4 -0.7 40 143-182 223-273 (313)
4 3lsn_A Geranyltranstransferase 26.4 10 0.00034 32.4 -0.9 40 143-182 216-266 (304)
5 3qkc_B Geranyl diphosphate syn 25.5 78 0.0027 26.2 4.5 44 143-188 78-121 (273)
6 3ts7_A Geranyltranstransferase 25.1 10 0.00035 32.6 -1.1 40 143-182 222-272 (324)
7 3p8l_A Geranyltranstransferase 21.9 13 0.00044 31.7 -1.1 27 156-182 243-269 (302)
8 2kdc_A Diacylglycerol kinase; 21.7 97 0.0033 22.4 3.8 32 2-33 59-90 (121)
9 3tc1_A Octaprenyl pyrophosphat 21.6 1.3E+02 0.0046 25.3 5.3 45 143-188 70-114 (315)
10 4f62_A Geranyltranstransferase 21.1 13 0.00046 31.8 -1.1 36 144-179 216-262 (317)
11 3llw_A Geranyltranstransferase 20.6 13 0.00045 31.7 -1.3 41 142-182 222-271 (311)
12 3oyr_A Trans-isoprenyl diphosp 20.2 1.2E+02 0.0042 26.0 4.8 45 142-187 97-141 (345)
No 1
>3kra_B Geranyl diphosphate synthase small subunit; prenyltransferase, isoprene biosynthesis, isoprenyl pyrophosphate synthase, transferase; 1.90A {Mentha x piperita} PDB: 3krc_B* 3krf_B* 3kro_B* 3krp_B* 3oab_B* 3oac_B*
Probab=45.30 E-value=21 Score=29.74 Aligned_cols=46 Identities=11% Similarity=0.180 Sum_probs=33.5
Q ss_pred HHHHHHhcCCCChhhhHHcCCcccceeechHHHHHHHHHHHHHHHH
Q 025348 143 NIAIAFVKDLPDVEGDKEFGLRTLPVILGKEKVFSISVSMLLMAYG 188 (254)
Q Consensus 143 ~~~~~~~~~~~D~e~D~~~G~~Tl~v~~G~~~~~~~~~~~~~~~~~ 188 (254)
-.+..+-.|+++.|+|.+.|+.|.-.++|++.+....-.++..++-
T Consensus 73 H~aSLIHDDI~~dD~d~RRG~pt~h~~~G~~~AIlaGD~Ll~~Af~ 118 (274)
T 3kra_B 73 HAAAYVHEHLPLTDGSRPVSKPAIQHKYGPNVELLTGDGIVPFGFE 118 (274)
T ss_dssp HHHHHHHHTCCCSSSSSCCCSSCCCCSSCHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHcCCcccCCccCCCCCCchhhcChHHHHHHHHHHHHHHHH
Confidence 3456678899944556679999999999999876665555555544
No 2
>3m0g_A Farnesyl diphosphate synthase; structural genomics, protein structure initiative, NYSGXRC, biosynthesis, transferase, PSI-2; 1.90A {Rhodobacter capsulatus} PDB: 3lvs_A
Probab=36.88 E-value=11 Score=31.86 Aligned_cols=42 Identities=29% Similarity=0.376 Sum_probs=25.1
Q ss_pred HHHHHHHHhcCCCChhh-----------hHHcCCcccceeechHHHHHHHHHH
Q 025348 141 IFNIAIAFVKDLPDVEG-----------DKEFGLRTLPVILGKEKVFSISVSM 182 (254)
Q Consensus 141 ~~~~~~~~~~~~~D~e~-----------D~~~G~~Tl~v~~G~~~~~~~~~~~ 182 (254)
-.-.++.+..|+.|..+ |.+.|+.|+|+.+|.+.++....-.
T Consensus 207 ~lG~aFQI~DDilD~~~~~~~~GK~~g~Dl~~gK~T~p~l~~l~~a~~~~~~~ 259 (297)
T 3m0g_A 207 ALGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKATFVSLLGLAGAKSRAADL 259 (297)
T ss_dssp HHHHHHHHHTTCC---------------------CCHHHHHCSSHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhccCCHHHhCCCccchhhcCCccHHHHHHHHHHHHHHHHH
Confidence 34567788999999865 6678999999999999887765443
No 3
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Legionella pneumophila subsp}
Probab=26.76 E-value=10 Score=32.38 Aligned_cols=40 Identities=13% Similarity=0.160 Sum_probs=24.5
Q ss_pred HHHHHHhcCCCChh-----------hhHHcCCcccceeechHHHHHHHHHH
Q 025348 143 NIAIAFVKDLPDVE-----------GDKEFGLRTLPVILGKEKVFSISVSM 182 (254)
Q Consensus 143 ~~~~~~~~~~~D~e-----------~D~~~G~~Tl~v~~G~~~~~~~~~~~ 182 (254)
-.++.+..|+.|.. .|.+.|+.|+|+.+|.+.++....-.
T Consensus 223 GlaFQI~DDilD~~gd~~~~GK~~g~Dl~~gK~T~p~l~~l~~a~~~a~~~ 273 (313)
T 3lom_A 223 GLVFQMQDDYLDLYAPTQILGKGRSSDQANQKTTFATLFNKQQLEEEIAVH 273 (313)
T ss_dssp HHHHHHHHHHHHHHCC---------------CCCHHHHSCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhccCCHHhhCCCCcchhhcCCccHHHHHHHHHHHHHHHHH
Confidence 34555566666654 47788999999999999987765443
No 4
>3lsn_A Geranyltranstransferase; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium, nysgxrc; HET: MSE; 1.35A {Pseudomonas fluorescens} PDB: 3lji_A* 3p41_A*
Probab=26.42 E-value=10 Score=32.37 Aligned_cols=40 Identities=25% Similarity=0.356 Sum_probs=25.3
Q ss_pred HHHHHHhcCCCChhh-----------hHHcCCcccceeechHHHHHHHHHH
Q 025348 143 NIAIAFVKDLPDVEG-----------DKEFGLRTLPVILGKEKVFSISVSM 182 (254)
Q Consensus 143 ~~~~~~~~~~~D~e~-----------D~~~G~~Tl~v~~G~~~~~~~~~~~ 182 (254)
-.++.+..|+.|..+ |.+.|+.|+|+.+|.+.++....-.
T Consensus 216 GlaFQI~DDilD~~~~~~~~GK~~g~Dl~egK~T~p~l~~l~~a~~~a~~~ 266 (304)
T 3lsn_A 216 GLAFQVQDDILDVESDTATLGKRQGADIARDKPTYPALLGLAAAKEYALEL 266 (304)
T ss_dssp HHHHHHHHHHHHHHHHHHHC------------CCHHHHHCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhccCChHHhCCCcccHHhcCCccHHHHHHHHHHHHHHHHH
Confidence 455666777777654 6788999999999999987765443
No 5
>3qkc_B Geranyl diphosphate synthase small subunit; structural genomics, protein structure initiative, NEW YORK structural genomix research consortium; 2.20A {Antirrhinum majus}
Probab=25.52 E-value=78 Score=26.21 Aligned_cols=44 Identities=9% Similarity=0.133 Sum_probs=32.7
Q ss_pred HHHHHHhcCCCChhhhHHcCCcccceeechHHHHHHHHHHHHHHHH
Q 025348 143 NIAIAFVKDLPDVEGDKEFGLRTLPVILGKEKVFSISVSMLLMAYG 188 (254)
Q Consensus 143 ~~~~~~~~~~~D~e~D~~~G~~Tl~v~~G~~~~~~~~~~~~~~~~~ 188 (254)
=.+..+-.|++|.+. +.|+.|.-.++|++.+....-.++..++-
T Consensus 78 H~aSLIHDDI~D~d~--RRG~pt~h~~~G~~~AIlaGD~Ll~~Af~ 121 (273)
T 3qkc_B 78 HVAAYTHENLPLTDG--PMSKSEIQHKFDPNIELLTGDGIIPFGLE 121 (273)
T ss_dssp HHHHHHHHSCCBTTB--CSSSSCCCCSSCHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHcCcccCcc--CCCCCCchhhcCHHHHHHHHHHHHHHHHH
Confidence 345567889998765 67999999999999877666555555544
No 6
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate synthase; 1.94A {Methylococcus capsulatus}
Probab=25.13 E-value=10 Score=32.64 Aligned_cols=40 Identities=23% Similarity=0.347 Sum_probs=23.8
Q ss_pred HHHHHHhcCCCChh-----------hhHHcCCcccceeechHHHHHHHHHH
Q 025348 143 NIAIAFVKDLPDVE-----------GDKEFGLRTLPVILGKEKVFSISVSM 182 (254)
Q Consensus 143 ~~~~~~~~~~~D~e-----------~D~~~G~~Tl~v~~G~~~~~~~~~~~ 182 (254)
-.++.+..|+.|.. .|.+.|+.|+|+.+|.+.++....-.
T Consensus 222 GlAFQI~DDiLD~~~d~~~~GK~~g~Dl~egK~T~p~l~gle~a~~~a~~~ 272 (324)
T 3ts7_A 222 GLAFQIQDDILDEESDTQTLGKTRGKDRDHNKPNYPALLGLSGAKEKAEEM 272 (324)
T ss_dssp HHHHHHHHHHHHHTCC---------------CCCHHHHHCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHhccCCHHHhCCCccchhhcCCccHHHHHHHHHHHHHHHHH
Confidence 34455555555554 47788999999999999987765443
No 7
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.00A {Enterococcus faecalis}
Probab=21.85 E-value=13 Score=31.66 Aligned_cols=27 Identities=19% Similarity=0.222 Sum_probs=15.6
Q ss_pred hhhHHcCCcccceeechHHHHHHHHHH
Q 025348 156 EGDKEFGLRTLPVILGKEKVFSISVSM 182 (254)
Q Consensus 156 e~D~~~G~~Tl~v~~G~~~~~~~~~~~ 182 (254)
-.|.+.|+.|+|+.+|.+.++....-.
T Consensus 243 g~Dl~egK~T~p~l~~l~~a~~~~~~~ 269 (302)
T 3p8l_A 243 GRDEALNKSTYPALLGIAGAKDALTHQ 269 (302)
T ss_dssp --------CCHHHHHCHHHHHHHHHHH
T ss_pred hhHHhcCCCcHHHHHHHHHHHHHHHHH
Confidence 467889999999999999988765443
No 8
>2kdc_A Diacylglycerol kinase; membrane protein, solution kinase, DAGK, cell inner membrane, cell membrane, membrane, phospholipid biosynthesis; NMR {Escherichia coli}
Probab=21.73 E-value=97 Score=22.39 Aligned_cols=32 Identities=13% Similarity=0.375 Sum_probs=24.7
Q ss_pred hHHHHHHHHHHHhhcccchhhhhccCCCCccc
Q 025348 2 VPAILMNIFVTAINQLSDVEIDKVNKPHLPLA 33 (254)
Q Consensus 2 ~~~~l~~~a~~~~Nd~~D~~~D~~n~~~Rpl~ 33 (254)
+.++.+-...-.+|.-.+.-.|+..+.+.|+.
T Consensus 59 i~~i~lVl~~EllNTAIE~vvD~v~~e~h~la 90 (121)
T 2kdc_A 59 ISSVMLVMIVEILNSAIEAVVDRIGSEYHELS 90 (121)
T ss_dssp HHHHHHHHHHHTHHHHHHHHHTTCCCCSCTTS
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHcCCccCHHH
Confidence 34566677788899999999999877677755
No 9
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold, transferase; 2.00A {Helicobacter pylori}
Probab=21.58 E-value=1.3e+02 Score=25.34 Aligned_cols=45 Identities=13% Similarity=0.144 Sum_probs=18.6
Q ss_pred HHHHHHhcCCCChhhhHHcCCcccceeechHHHHHHHHHHHHHHHH
Q 025348 143 NIAIAFVKDLPDVEGDKEFGLRTLPVILGKEKVFSISVSMLLMAYG 188 (254)
Q Consensus 143 ~~~~~~~~~~~D~e~D~~~G~~Tl~v~~G~~~~~~~~~~~~~~~~~ 188 (254)
-.+..+..|+.| ++|.+.|+.|.-.++|.+.+....-.++..++-
T Consensus 70 H~asLiHDDi~D-~s~~RRG~pt~h~~~G~~~AIl~GD~L~~~a~~ 114 (315)
T 3tc1_A 70 QTASLLHDDVID-KATMRRKLPSINALFGNFNAVMLGDVFYSKAFF 114 (315)
T ss_dssp HHHHHHHHHTC-----------------CCSHHHHHHHHHHHHHHH
T ss_pred HHHHHHHcCCCC-CCCCcCCCccHHHHhCchHHHHHHHHHHHHHHH
Confidence 345566778888 577889999999999999877666555544443
No 10
>4f62_A Geranyltranstransferase; enzyme function initiative, structural genomics; 2.10A {Marinomonas SP}
Probab=21.12 E-value=13 Score=31.78 Aligned_cols=36 Identities=25% Similarity=0.347 Sum_probs=0.0
Q ss_pred HHHHHhcCCCCh-----------hhhHHcCCcccceeechHHHHHHH
Q 025348 144 IAIAFVKDLPDV-----------EGDKEFGLRTLPVILGKEKVFSIS 179 (254)
Q Consensus 144 ~~~~~~~~~~D~-----------e~D~~~G~~Tl~v~~G~~~~~~~~ 179 (254)
.++.+..|+.|. -.|.+.|+.|+|+.+|.+.++...
T Consensus 216 lAFQI~DDiLD~~gd~~~~GK~~g~Dl~egK~T~p~l~gle~a~~~a 262 (317)
T 4f62_A 216 LAFQVQDDIIDLTSDTETLGKTQFSDAEANKATYPKLLGLDGAKALV 262 (317)
T ss_dssp HHHHHHHHHHHTC----------------CCCCHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHhccCChHhhCCCcchHHhcCCCcHHHHHHHHHHHHHH
No 11
>3llw_A Geranyltranstransferase (ISPA); structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Helicobacter pylori} PDB: 3q1o_A*
Probab=20.63 E-value=13 Score=31.71 Aligned_cols=41 Identities=17% Similarity=0.352 Sum_probs=28.3
Q ss_pred HHHHHHHhcCCCChhhhH---------HcCCcccceeechHHHHHHHHHH
Q 025348 142 FNIAIAFVKDLPDVEGDK---------EFGLRTLPVILGKEKVFSISVSM 182 (254)
Q Consensus 142 ~~~~~~~~~~~~D~e~D~---------~~G~~Tl~v~~G~~~~~~~~~~~ 182 (254)
.-.++.+..|+.|..+|. +.|+.|+|+.+|.++++....-+
T Consensus 222 lGlaFQI~DDiLD~~gd~~~~GK~~g~~~gK~T~p~l~~l~~a~~~~~~~ 271 (311)
T 3llw_A 222 MGLCFQVLDDIIDVTQDEEESGKTTHLDSAKNSFVNLLGLERANNYAQTL 271 (311)
T ss_dssp HHHHHHHHHHHHHHHC-------------CCSCHHHHHCHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccCChHHHCcccccccCcchHHHHHHHHHHHHHHHHH
Confidence 345667777888887665 67999999999999887655433
No 12
>3oyr_A Trans-isoprenyl diphosphate synthase; isoprenyl synthase, PSI, protein structure initiative; HET: IPE; 2.00A {Caulobacter crescentus}
Probab=20.16 E-value=1.2e+02 Score=25.98 Aligned_cols=45 Identities=16% Similarity=0.186 Sum_probs=25.8
Q ss_pred HHHHHHHhcCCCChhhhHHcCCcccceeechHHHHHHHHHHHHHHH
Q 025348 142 FNIAIAFVKDLPDVEGDKEFGLRTLPVILGKEKVFSISVSMLLMAY 187 (254)
Q Consensus 142 ~~~~~~~~~~~~D~e~D~~~G~~Tl~v~~G~~~~~~~~~~~~~~~~ 187 (254)
.-.+..+..|+.| ++|.+.|+.|.-.++|.+.+....-.++..++
T Consensus 97 iH~asLiHDDi~D-~s~~RRG~pt~h~~~G~~~AIl~GD~Ll~~a~ 141 (345)
T 3oyr_A 97 IHTATLLHDDVVD-GSQLRRGKVAAHLIWGGAQSVLVGDFLFARAF 141 (345)
T ss_dssp HHHHHHHTTTTC----------CCCSCCTTHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHCcccC-CCCCCCCCccHHHhhCHHHHHHHHHHHHHHHH
Confidence 3455667788877 45677899999999999988666555554444
Done!