Query 028137
Match_columns 213
No_of_seqs 225 out of 807
Neff 5.3
Searched_HMMs 29240
Date Mon Mar 25 10:50:38 2013
Command hhsearch -i /work/01045/syshi/csienesis_hhblits_a3m/028137.a3m -d /work/01045/syshi/HHdatabase/pdb70.hhm -o /work/01045/syshi/hhsearch_pdb/028137hhsearch_pdb -cpu 12 -v 0
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3vj8_A Squalene synthase; farn 100.0 3.8E-45 1.3E-49 331.5 16.7 163 1-166 180-342 (343)
2 3acx_A Dehydrosqualene synthas 99.9 2.9E-27 9.8E-32 208.7 12.6 120 1-125 166-286 (293)
3 4hd1_A Squalene synthase HPNC; 99.9 1.9E-25 6.6E-30 197.6 9.8 121 1-125 161-282 (294)
4 3p8r_A Geranyltranstransferase 59.3 10 0.00036 33.0 4.7 66 1-80 221-286 (302)
5 1rtr_A Geranyltranstransferase 50.7 24 0.00083 30.6 5.6 65 1-79 210-274 (301)
6 1rqj_A Geranyltranstransferase 49.9 13 0.00043 32.3 3.7 65 1-79 215-279 (299)
7 3uca_A Geranyltranstransferase 49.7 13 0.00044 32.9 3.7 66 1-80 243-308 (324)
8 3ts7_A Geranyltranstransferase 49.1 13 0.00045 32.8 3.7 66 1-80 221-286 (324)
9 3lom_A Geranyltranstransferase 45.8 14 0.00047 32.5 3.2 66 1-80 222-287 (313)
10 1yfb_A Transition state regula 45.6 9.7 0.00033 25.6 1.8 22 23-44 21-42 (59)
11 4f62_A Geranyltranstransferase 45.2 24 0.00081 31.1 4.7 66 1-80 214-279 (317)
12 3lsn_A Geranyltranstransferase 40.1 26 0.0009 30.5 4.2 66 1-80 215-280 (304)
13 2ks1_B Epidermal growth factor 38.6 36 0.0012 21.7 3.5 14 197-210 26-39 (44)
14 2h8o_A Geranyltranstransferase 37.9 28 0.00094 30.8 4.0 65 1-79 254-318 (335)
15 3m0g_A Farnesyl diphosphate sy 37.4 14 0.00048 32.2 2.0 66 1-80 208-273 (297)
16 2l66_A SSO7C4, transcriptional 37.3 18 0.0006 23.3 2.0 21 23-43 11-31 (53)
17 3p8l_A Geranyltranstransferase 36.2 26 0.00088 30.6 3.4 65 1-79 218-282 (302)
18 3mzv_A Decaprenyl diphosphate 33.8 27 0.00094 30.8 3.3 78 1-81 212-316 (341)
19 3pde_A Farnesyl-diphosphate sy 33.5 38 0.0013 29.7 4.1 64 1-78 217-280 (309)
20 3rmg_A Octaprenyl-diphosphate 31.5 47 0.0016 29.2 4.4 77 1-80 206-308 (334)
21 2l2t_A Receptor tyrosine-prote 31.4 53 0.0018 21.0 3.5 14 197-210 25-38 (44)
22 4dhd_A Polyprenyl synthetase; 31.0 37 0.0013 30.2 3.7 75 1-79 217-320 (358)
23 2jwa_A Receptor tyrosine-prote 30.7 44 0.0015 21.4 3.0 19 193-211 21-39 (44)
24 3lmd_A Geranylgeranyl pyrophos 29.1 27 0.00091 31.3 2.4 76 1-80 232-334 (360)
25 3tc1_A Octaprenyl pyrophosphat 24.3 94 0.0032 27.0 5.0 78 1-81 192-294 (315)
26 3apz_A Geranyl diphosphate syn 23.3 1.3E+02 0.0045 26.2 5.8 76 1-79 226-323 (348)
27 2ftz_A Geranyltranstransferase 23.2 73 0.0025 27.3 4.0 63 1-79 205-267 (284)
28 2ge7_A Nucleocapsid protein; N 22.5 41 0.0014 25.5 1.9 18 145-162 80-97 (108)
29 3pko_A Geranylgeranyl pyrophos 21.0 1.1E+02 0.0037 26.8 4.8 77 1-80 216-316 (334)
30 3aqb_B Component B of hexapren 20.7 1.3E+02 0.0046 25.9 5.2 77 1-80 203-307 (325)
31 1yhl_A Farnesyl pyrophosphate 20.5 1.5E+02 0.005 26.0 5.5 76 1-80 242-342 (362)
No 1
>3vj8_A Squalene synthase; farnesyl-diphosphate farnesyltransferase, head-TO-head synth cholesterol biosynthesis, oxidoreductase, transferase; 1.52A {Homo sapiens} PDB: 3vj9_A 3vja_A 3vjb_A 3vjc_A* 3v66_A* 3lee_A* 3q2z_A* 3q30_A* 3asx_A* 1ezf_A*
Probab=100.00 E-value=3.8e-45 Score=331.46 Aligned_cols=163 Identities=50% Similarity=0.900 Sum_probs=160.1
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccchh
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
||.|||+||||||++||++ +||+|||+|+|++||++.+|+..+.+++++.+|+++++.+|+.||.+|+.|++.++++
T Consensus 180 lG~AlQltNilRDv~eD~~---~gR~YlP~e~l~~~g~~~~dl~~~~~~~~~~~~l~~l~~~A~~~~~~a~~~~~~L~~~ 256 (343)
T 3vj8_A 180 MGLFLQKTNIIRDYLEDQQ---GGREFWPQEVWSRYVKKLGDFAKPENIDLAVQCLNELITNALHHIPDVITYLSRLRNQ 256 (343)
T ss_dssp HHHHHHHHHHHHTHHHHHH---TTCCCSCHHHHTTTCSSGGGGGSGGGHHHHHHHHHHHHHHHHTTHHHHHHHHHTCCCH
T ss_pred HHHHHHHHHHHHHhHHHHh---CCCeeCCHHHHHHcCCCHHHHhcccCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcc
Confidence 6999999999999999999 8999999999999999999999999999999999999999999999999999999999
Q ss_pred hhhhhhhHHHHHHHHHHHHHHcCCCCCCCccccCHHHHHHHHHHhCChHHHHHHHHHHHHhhccccCCCCCCHHHHHHHH
Q 028137 81 AIFRFCAIPQIMAIGTLALCYNNIEVFRGVVKMRRGLTAKVIDRTNNMTDVYLAFYDFSNILKPKINKNDPNATKTLSRV 160 (213)
Q Consensus 81 s~f~fcaip~~maiatL~~i~~n~~Vf~~rVKi~r~~~~~l~~~~~~~~~v~~~f~~~~~~i~~k~~~~dp~~~~~~~~~ 160 (213)
++++||++|++||++||+.|++|++||+++|||+|+++++++++++|+++|+.+|++|+++|++|++|+||||.+|.++|
T Consensus 257 ~~~~~~~ip~~lA~~tL~~i~~~~~v~~~rvkisr~~~~~l~~ra~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 336 (343)
T 3vj8_A 257 SVFNFCAIPQVMAIATLAACYNNQQVFKGAVKIRKGQAVTLMMDATNMPAVKAIIYQYMEEIYHRIPDSDPSSSKTRQII 336 (343)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTCGGGGTSCCCCCHHHHHHHHHHCSSHHHHHHHHHHHHHHHHTTCCTTCTTHHHHHHHH
T ss_pred chhhHHHHHHHHHHHHHHHHHhCCccccCCCcccHHHHHHHHHHhCChhhHHHHHHHHHHHHHhhCCCCCCCHHHHHHHH
Confidence 99999999999999999999999999999999999999999999999999999999999999999999999999999999
Q ss_pred HHHHHH
Q 028137 161 EAIQKA 166 (213)
Q Consensus 161 ~~i~~~ 166 (213)
++|++.
T Consensus 337 ~~~~~~ 342 (343)
T 3vj8_A 337 STIRTQ 342 (343)
T ss_dssp HHHHHC
T ss_pred HHHHhc
Confidence 999873
No 2
>3acx_A Dehydrosqualene synthase; CRTM, carotenoid biosynthesis, staphyloxanthin biosynthesis, transferase, head-TO-head condensation, inhibitor; HET: 673; 1.31A {Staphylococcus aureus} PDB: 2zcp_A* 2zcq_A* 2zcr_A* 2zcs_A* 2zy1_A* 3acw_A* 2zco_A* 3acy_A* 3npr_A* 3nri_A* 3tfn_A* 3tfp_A* 3tfv_A* 3adz_A* 3lgz_B* 3vjd_A* 3vje_A* 3ae0_A* 4ea2_A* 4e9u_A* ...
Probab=99.94 E-value=2.9e-27 Score=208.68 Aligned_cols=120 Identities=17% Similarity=0.212 Sum_probs=113.1
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccchh
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
||.|||+||||||++||++ +||+|||.|+|.+||++.+|+..+.+++++.+++++++.+|+.||.+|..+++.+|.+
T Consensus 166 lG~AlQltNilRDv~eD~~---~gR~YLP~d~l~~~gv~~e~l~~~~~~~~~~~~~~~l~~~A~~~~~~a~~~~~~lp~~ 242 (293)
T 3acx_A 166 LGESLQLINILRDVGEDFE---NERIYFSKQRLKQYEVDIAEVYQNGVNNHYIDLWEYYAAIAEKDFRDVMDQIKVFSIE 242 (293)
T ss_dssp HHHHHHHHHHHHCHHHHHH---TTCCCSCHHHHHHHTCCHHHHHHHCCCHHHHHHHHHHHHHHHHHHHHHHHTGGGSCTT
T ss_pred HHHHHHHHHHHHHHHHHHh---CCcEEeCHHHHHHcCCCHHHhcccCCCHHHHHHHHHHHHHHHHHHHHHHHhHHhCCHH
Confidence 6999999999999999999 8999999999999999999999999999999999999999999999999999999988
Q ss_pred hhhhhhhHHHHHHHHHHHHHH-cCCCCCCCccccCHHHHHHHHHHh
Q 028137 81 AIFRFCAIPQIMAIGTLALCY-NNIEVFRGVVKMRRGLTAKVIDRT 125 (213)
Q Consensus 81 s~f~fcaip~~maiatL~~i~-~n~~Vf~~rVKi~r~~~~~l~~~~ 125 (213)
+. .+|.++..++.++|+.+. +|++ |++++++++.++++++.++
T Consensus 243 ~r-~~~~~~~~~~~~iL~~i~~~~~~-~~~r~~v~~~~k~~~~~~a 286 (293)
T 3acx_A 243 AQ-PIIELAARIYIEILDEVRQANYT-LHERVFVEKRKKAKLFHEI 286 (293)
T ss_dssp HH-HHHHHHHHHHHHHHHHHHHTTTC-SSSCCCCCHHHHHHHHHHH
T ss_pred HH-HHHHHHHHHHHHHHHHHHhCCCC-CCCCceeCHHHHHHHHHHH
Confidence 74 477788999999999985 7899 9999999999999999875
No 3
>4hd1_A Squalene synthase HPNC; MCSG, structural genomics, PSI-biology, midwest center for S genomics, transferase; 2.40A {Alicyclobacillus acidocaldarius subsp}
Probab=99.92 E-value=1.9e-25 Score=197.64 Aligned_cols=121 Identities=16% Similarity=0.162 Sum_probs=92.8
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccchh
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
||.|||+|||+||++||++ +||+|||.|+|.+||++++|+..+..++++.+++.+++.+|+.||++|..++..+|..
T Consensus 161 lG~AlQltNilRDv~eD~~---~gR~YlP~~~l~~~gv~~~dl~~~~~~~~~~~~~~~~~~~A~~~~~~a~~~~~~lp~~ 237 (294)
T 4hd1_A 161 TCTALQVANHMQDIDRDLA---LGRIYVPRADLEQFGATLDDIRARRATDGVRRCIALEVDRAQALFDEGRRLESLVPPR 237 (294)
T ss_dssp HHHHHHHHHHHHTHHHHHH---TTCBCSCHHHHHTTTCCHHHHHTTCCCHHHHHHHHHHHHHHHHHHHHHGGGGGSSCHH
T ss_pred HHHHHHHHHHHHhchhhhc---cCceeCCHHHHHHcCCCHHHHhcCCCCHHHHHHHHHHHHHHHHHHHHHHHHHHhCCHH
Confidence 5999999999999999999 8999999999999999999999999999999999999999999999999999999987
Q ss_pred hhhhhhhHHHHHHHHHHHHHH-cCCCCCCCccccCHHHHHHHHHHh
Q 028137 81 AIFRFCAIPQIMAIGTLALCY-NNIEVFRGVVKMRRGLTAKVIDRT 125 (213)
Q Consensus 81 s~f~fcaip~~maiatL~~i~-~n~~Vf~~rVKi~r~~~~~l~~~~ 125 (213)
+.+ .+.++..++.++|..+. +|+++|++|+++++.++++++.++
T Consensus 238 ~r~-~~~~~~~~y~~il~~i~~~~~~~~~~R~~vs~~~Kl~l~~~a 282 (294)
T 4hd1_A 238 LAR-QLKLYRLGGEAILAAIRRQGYNPFAGRPVVSGKQKLRIALSV 282 (294)
T ss_dssp HHH-HHHHHHHHHHHHHHHHHTTTTCCC------------------
T ss_pred HHH-HHHHHHHHHHHHHHHHHhCCCCCCCCCCccCHHHHHHHHHHH
Confidence 632 34455566667898884 689999999999999999998875
No 4
>3p8r_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.50A {Vibrio cholerae} SCOP: a.128.1.1
Probab=59.34 E-value=10 Score=33.04 Aligned_cols=66 Identities=20% Similarity=0.210 Sum_probs=41.4
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccchh
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
+|+|+|+.+=+-|+..|-+ .++|- .-+|+.++..+=..+..++.--..|.++.++|.+.+..++..
T Consensus 221 lG~aFQI~DDilD~~~~~~------------~~GK~--~g~Dl~egK~T~p~l~~l~~a~~~a~~~~~~A~~~L~~l~~~ 286 (302)
T 3p8r_A 221 VGLAFQVQDDILDIISDTE------------TLGKP--QGSDQELNKSTYPALLGLEGAQQKAHTLLQEALLALEAIPYN 286 (302)
T ss_dssp HHHHHHHHHHHHHHTTC-----------------------------CCCHHHHHHHHHHHHHHHHHHHHHHHHHTTCSSC
T ss_pred HHHHHHHHHHHHhccCCHH------------HhCCC--cchHHhcCCchHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcc
Confidence 5999999887777655433 23441 125777777776677778888889999999999999988754
No 5
>1rtr_A Geranyltranstransferase; 2.50A {Staphylococcus aureus} SCOP: a.128.1.1
Probab=50.70 E-value=24 Score=30.56 Aligned_cols=65 Identities=12% Similarity=0.187 Sum_probs=41.0
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccch
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRD 79 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~ 79 (213)
+|+|+|+.+=+-|+..|-++ ++|- .-+|+.++..+=..+..++.--..|.++.++|++.+..+++
T Consensus 210 lG~aFQI~DDilD~~~d~~~------------~GK~--~g~Dl~~gK~T~p~l~al~~a~~~a~~~~~~A~~~L~~l~~ 274 (301)
T 1rtr_A 210 LGMMFQIKDDLLDCYGDEAK------------LGKK--VGSDLENNKSTYVSLLGKDGAEDKLTYHRDAAVDELTQIDE 274 (301)
T ss_dssp HHHHHHHHHHHHHHHHHHCC---------------------------CCHHHHHHHHHHHHHHHHHHHHHHHHHHTSCT
T ss_pred HHHHHHHHHHHHHhcCCHHH------------hCCC--cchHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 59999998888887666542 2221 02466666666556666777788899999999999998874
No 6
>1rqj_A Geranyltranstransferase; bisphosphonate, isoprenyl synthase; HET: IPR RIS; 1.95A {Escherichia coli} SCOP: a.128.1.1 PDB: 1rqi_A* 2for_A*
Probab=49.91 E-value=13 Score=32.28 Aligned_cols=65 Identities=20% Similarity=0.213 Sum_probs=41.2
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccch
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRD 79 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~ 79 (213)
+|+|+|+.+=+-|+.-|-+ .++|- .-+|+.++..+=-.+..++.--..|.++.++|++.+..++.
T Consensus 215 lG~aFQi~DD~lD~~~~~~------------~~GK~--~g~Dl~~gK~T~p~l~~l~~a~~~~~~~~~~A~~~L~~l~~ 279 (299)
T 1rqj_A 215 IGLAFQVQDDILDVVGDTA------------TLGKR--QGADQQLGKSTYPALLGLEQARKKARDLIDDARQSLKQLAE 279 (299)
T ss_dssp HHHHHHHHHHHHHHHSCHH------------HHSSC--TTHHHHHTCCCHHHHHCHHHHHHHHHHHHHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHhccCCHH------------HhCCC--hhhHHHcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhCCC
Confidence 5999998887777654433 12221 12455555555445555666667788888888888877764
No 7
>3uca_A Geranyltranstransferase; isoprenoid synthesis, isoprenoid diphosphate synthase; 2.00A {Clostridium perfringens}
Probab=49.74 E-value=13 Score=32.93 Aligned_cols=66 Identities=18% Similarity=0.291 Sum_probs=38.1
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccchh
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
+|+|+|+.+=+-|+.-|-+ .++|- .-+|+.++..+=..+..++.--..|.++.++|.+.+..++..
T Consensus 243 lGlAFQI~DDiLD~~gd~~------------~~GK~--~g~Dl~egK~T~p~l~al~~a~~~a~~~~~~A~~~L~~l~~~ 308 (324)
T 3uca_A 243 LGLAFQIKDDILDVVGNAK------------DLGKN--VHKDQESNKNNYITIFGLEECKKKCVNITEECIEILSSIKGN 308 (324)
T ss_dssp HHHHHHHHHHHHHHCCC-------------------------------CHHHHHCHHHHHHHHHHHHHHHHHHHHTSSSC
T ss_pred HHHHHHHHHHHHhccCCHH------------HhCCC--cchHhhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 5899998887777644432 23331 124666666665566667777888899999999999988754
No 8
>3ts7_A Geranyltranstransferase; isoprenoid synthesis, farnesyl diphosphate synthase; 1.94A {Methylococcus capsulatus}
Probab=49.12 E-value=13 Score=32.85 Aligned_cols=66 Identities=20% Similarity=0.141 Sum_probs=40.8
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccchh
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
+|+|+|+.+=+-|+..|-+ .++|- .-+|+.++..+=..+..++.--..|.++.++|.+.+..++..
T Consensus 221 lGlAFQI~DDiLD~~~d~~------------~~GK~--~g~Dl~egK~T~p~l~gle~a~~~a~~~~~~A~~~L~~l~~~ 286 (324)
T 3ts7_A 221 IGLAFQIQDDILDEESDTQ------------TLGKT--RGKDRDHNKPNYPALLGLSGAKEKAEEMHEAALESLAGFGPE 286 (324)
T ss_dssp HHHHHHHHHHHHHHTCC-----------------------------CCCHHHHHCHHHHHHHHHHHHHHHHHTTTTCCGG
T ss_pred HHHHHHHHHHHHhccCCHH------------HhCCC--ccchhhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcc
Confidence 5999999887777655433 23441 124666666666666677788888999999999999988764
No 9
>3lom_A Geranyltranstransferase; geranyltransferase, structural genomics, PSI, protein structure initiative, nysgrc; 2.30A {Legionella pneumophila subsp}
Probab=45.84 E-value=14 Score=32.53 Aligned_cols=66 Identities=12% Similarity=0.144 Sum_probs=39.6
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccchh
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
+|+|+|+.+=+-|+.-|-+ .++|- .-+|+.++..+=..+..++.--..|.++.++|.+.+..++..
T Consensus 222 lGlaFQI~DDilD~~gd~~------------~~GK~--~g~Dl~~gK~T~p~l~~l~~a~~~a~~~~~~A~~~L~~l~~~ 287 (313)
T 3lom_A 222 IGLVFQMQDDYLDLYAPTQ------------ILGKG--RSSDQANQKTTFATLFNKQQLEEEIAVHYQIAMDSLRLFGSK 287 (313)
T ss_dssp HHHHHHHHHHHHHHHCC-----------------------------CCCHHHHSCHHHHHHHHHHHHHHHHHTTTTTGGG
T ss_pred HHHHHHHHHHHHhccCCHH------------hhCCC--CcchhhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCcc
Confidence 5999999887777755433 23331 124666666655555567777888899999999999988764
No 10
>1yfb_A Transition state regulatory protein ABRB; , homodimer, bioinformatics, swapped-hairpin barrel, transcription; NMR {Bacillus subtilis} SCOP: b.129.1.3 PDB: 1ysf_A 2k1n_A* 1z0r_A 2ro4_A 2fy9_A 2ro3_A
Probab=45.65 E-value=9.7 Score=25.61 Aligned_cols=22 Identities=18% Similarity=0.059 Sum_probs=19.3
Q ss_pred CCcccccHHHHHhhcCChhhhc
Q 028137 23 KCRMFWPREIWSKYVNKLEDLK 44 (213)
Q Consensus 23 ~GRiY~P~eil~k~g~~~~dl~ 44 (213)
.||+-+|+|+..+.|++..|-.
T Consensus 21 kGqItIPkeiR~~Lgi~~Gd~l 42 (59)
T 1yfb_A 21 LGRVVIPIELRRTLGIAEKDAL 42 (59)
T ss_dssp TCEEECCHHHHHHTTCCTTCEE
T ss_pred CCEEEeCHHHHHHcCCCCCCEE
Confidence 6999999999999999887643
No 11
>4f62_A Geranyltranstransferase; enzyme function initiative, structural genomics; 2.10A {Marinomonas SP}
Probab=45.16 E-value=24 Score=31.11 Aligned_cols=66 Identities=18% Similarity=0.210 Sum_probs=40.3
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccchh
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
+|+|+|+.+=+-|+.-|-+ .++|- .-+|+.++..+=..+..++.--..|.++.++|.+.+..++..
T Consensus 214 lGlAFQI~DDiLD~~gd~~------------~~GK~--~g~Dl~egK~T~p~l~gle~a~~~a~~~~~~A~~~L~~l~~~ 279 (317)
T 4f62_A 214 IGLAFQVQDDIIDLTSDTE------------TLGKT--QFSDAEANKATYPKLLGLDGAKALVVRLHEQAIAQISEFGDK 279 (317)
T ss_dssp HHHHHHHHHHHHHTC------------------------------CCCCHHHHHHHHHHHHHHHHHHHHHHHHHGGGGGG
T ss_pred HHHHHHHHHHHHhccCChH------------hhCCC--cchHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhCchh
Confidence 5999999887777754433 23331 125666666666666678888888999999999999988753
No 12
>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=40.08 E-value=26 Score=30.51 Aligned_cols=66 Identities=20% Similarity=0.173 Sum_probs=42.1
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccchh
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
+|+|+|+.+=+-|+.-|-++ ++|- .-+|+.++..+=..+..++.--..|.++.++|.+.+..++..
T Consensus 215 lGlaFQI~DDilD~~~~~~~------------~GK~--~g~Dl~egK~T~p~l~~l~~a~~~a~~~~~~A~~~L~~l~~~ 280 (304)
T 3lsn_A 215 IGLAFQVQDDILDVESDTAT------------LGKR--QGADIARDKPTYPALLGLAAAKEYALELRDQALHALRPFDAA 280 (304)
T ss_dssp HHHHHHHHHHHHHHHHHHHH------------C--------------CCHHHHHCHHHHHHHHHHHHHHHHHHTTTSCGG
T ss_pred HHHHHHHHHHHHhccCChHH------------hCCC--cccHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhCchh
Confidence 59999998877777665442 3331 125666666666666677888888999999999999988763
No 13
>2ks1_B Epidermal growth factor receptor; ERBB1, ERBB2, transmembrane, heterodimer, complex, tyrosine receptor, bicelles, transferase; NMR {Homo sapiens}
Probab=38.58 E-value=36 Score=21.71 Aligned_cols=14 Identities=7% Similarity=0.095 Sum_probs=5.9
Q ss_pred HHHHHHHHHHhhcc
Q 028137 197 IILAIIFSYLSSTR 210 (213)
Q Consensus 197 ~~~~~~~~~~~~~~ 210 (213)
+++..+|.|+.+|+
T Consensus 26 ii~~~~~~~~RRr~ 39 (44)
T 2ks1_B 26 VVALGIGLFMRRRH 39 (44)
T ss_dssp HHHHHHHHHHHTTT
T ss_pred HHHHHHHHHhhhhH
Confidence 33344444444443
No 14
>2h8o_A Geranyltranstransferase; geranyltransferase,agrobacterium tumefaciens, structural GEN PSI-2, protein structure initiative; 1.60A {Agrobacterium tumefaciens}
Probab=37.86 E-value=28 Score=30.84 Aligned_cols=65 Identities=14% Similarity=0.084 Sum_probs=36.5
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccch
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRD 79 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~ 79 (213)
+|+|+|+.+=+-|+.-|-++ ++|- .-+|+.++..+=-.+..++.--..|.++.++|++.+..++.
T Consensus 254 lGlAFQI~DDiLD~~gd~~~------------~GK~--~g~Dl~egK~T~p~l~~le~a~~~a~~~~~~A~~~L~~l~~ 318 (335)
T 2h8o_A 254 IGLSFQLADDLLDLTADAAT------------MGKA--TGKDAARGKGTLVALRGEAWAREKLQEQVAEASELLAPYGE 318 (335)
T ss_dssp HHHHHHHHHHHHHHC-------------------------------CCCHHHHHCHHHHHHHHHHHHHHHHHHTGGGGG
T ss_pred HHHHHHHHHHHHHhcCCHHH------------hCCC--cchHHhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhCch
Confidence 59999998877777544331 2221 01455555555455555677778888888999888888764
No 15
>3m0g_A Farnesyl diphosphate synthase; structural genomics, protein structure initiative, NYSGXRC, biosynthesis, transferase, PSI-2; 1.90A {Rhodobacter capsulatus} PDB: 3lvs_A
Probab=37.39 E-value=14 Score=32.15 Aligned_cols=66 Identities=15% Similarity=0.059 Sum_probs=34.1
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccchh
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
+|+|+|+.+=+-|+..|-+ .++|- .-+|+.++..+=..+..++.--..|.++.++|.+.+..++..
T Consensus 208 lG~aFQI~DDilD~~~~~~------------~~GK~--~g~Dl~~gK~T~p~l~~l~~a~~~~~~~~~~A~~~L~~~~~~ 273 (297)
T 3m0g_A 208 LGLAFQIADDILDVEGNEE------------AAGKR--LGKDAEAHKATFVSLLGLAGAKSRAADLVAEAEAALAPYGEA 273 (297)
T ss_dssp HHHHHHHHTTCC-----------------------------------CCHHHHHCSSHHHHHHHHHHHHHHHHTGGGGGG
T ss_pred HHHHHHHHHHHHhccCCHH------------HhCCC--ccchhhcCCccHHHHHHHHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 5899998876666644433 23331 124666655555555566666777888889998888888754
No 16
>2l66_A SSO7C4, transcriptional regulator, ABRB family; DNA binding protein, transcription regulator; NMR {Sulfolobus solfataricus}
Probab=37.29 E-value=18 Score=23.31 Aligned_cols=21 Identities=24% Similarity=0.344 Sum_probs=18.7
Q ss_pred CCcccccHHHHHhhcCChhhh
Q 028137 23 KCRMFWPREIWSKYVNKLEDL 43 (213)
Q Consensus 23 ~GRiY~P~eil~k~g~~~~dl 43 (213)
.|++-+|+++..+.|++..|-
T Consensus 11 kgqi~IPk~ir~~lgi~~Gd~ 31 (53)
T 2l66_A 11 NYQVTIPAKVRQKFQIKEGDL 31 (53)
T ss_dssp SSCBCCCHHHHHHSCCCTTCE
T ss_pred CCEEEeCHHHHHHcCcCCCCE
Confidence 699999999999999887764
No 17
>3p8l_A Geranyltranstransferase; isoprenyl synthase, structural genomics, PSI, protein struct initiative, nysgrc; 2.00A {Enterococcus faecalis}
Probab=36.15 E-value=26 Score=30.60 Aligned_cols=65 Identities=11% Similarity=0.035 Sum_probs=37.5
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccch
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRD 79 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~ 79 (213)
+|+|+|+.+=+-|+.-|-+ .++|- .-+|+.++..+=..+..++.--..|.++.++|.+.+..+|+
T Consensus 218 lGlaFQI~DDilD~~~d~~------------~~GK~--~g~Dl~egK~T~p~l~~l~~a~~~~~~~~~~A~~~L~~~~~ 282 (302)
T 3p8l_A 218 YGLAFQIRDDLLDATSTEA------------DLGKK--VGRDEALNKSTYPALLGIAGAKDALTHQLAEGSAVLEKIKA 282 (302)
T ss_dssp HHHHHHHHHHHHHTTC-------------------------------CCHHHHHCHHHHHHHHHHHHHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccCCHH------------HhCCC--hhhHHhcCCCcHHHHHHHHHHHHHHHHHHHHHHHHHHhccc
Confidence 5899999887777655433 23331 02566666666666667777778888889999888888753
No 18
>3mzv_A Decaprenyl diphosphate synthase; transferase, structural genomics, PSI-2, protein structure initiative; 1.90A {Rhodobacter capsulatus}
Probab=33.78 E-value=27 Score=30.82 Aligned_cols=78 Identities=17% Similarity=0.236 Sum_probs=45.8
Q ss_pred CcchHHHHHhhhch-----------HhhhhcCCCCcccccHHHHHhhcCCh-----hhhc-c----ccccHHHHHH----
Q 028137 1 MGLFLQKTNIIRDY-----------LEDINEIPKCRMFWPREIWSKYVNKL-----EDLK-Y----EENSDKAVQC---- 55 (213)
Q Consensus 1 lGlaLQlTNILRDv-----------~ED~~e~p~GRiY~P~eil~k~g~~~-----~dl~-~----~~~~~~~~~l---- 55 (213)
+|+|+|+.+=+-|+ ++|+. .|.+=||-=.--+..... .++. . ++.-+.++++
T Consensus 212 lG~aFQI~DD~ld~~~d~~~~GK~~g~Dl~---egK~Tlp~i~al~~~~~~~~~~l~~~l~~~~~~~~~~~~i~~~l~~~ 288 (341)
T 3mzv_A 212 LGIAFQIVDDLLDYGGKSAEIGKNTGDDFR---ERKLTMPVIKAVALADEAERAFWKRVIEKGDQQDGDLEHAMALMTKH 288 (341)
T ss_dssp HHHHHHHHHHHHHC----------CCHHHH---TTCCCHHHHHHHHTCCHHHHHHHHHHTTSCCCCTTHHHHHHHHHHHT
T ss_pred HHHHHHHHHHHHhccCChhhcCCCCCcccc---cCchhHHHHHHHHhCCHhHHHHHHHHHcCCCCCHHHHHHHHHHHHHc
Confidence 59999999877776 57888 488888754322211100 0111 1 1111223333
Q ss_pred --HHHHHHHHHHHHHHHHHhHHccchhh
Q 028137 56 --LNDMVTNALMHVEDCLKYMSALRDHA 81 (213)
Q Consensus 56 --l~~lv~~A~~h~~~al~yl~~l~~~s 81 (213)
++.--..|..+.++|.+.+..+|+..
T Consensus 289 ga~~~a~~~a~~~~~~A~~~L~~lp~~~ 316 (341)
T 3mzv_A 289 GTLEATRLAAIGWTDTARKALAKLPDHP 316 (341)
T ss_dssp THHHHHHHHHHHHHHHHHHHHTTSCCCH
T ss_pred CHHHHHHHHHHHHHHHHHHHHHhCCCCH
Confidence 34455667888999999998887543
No 19
>3pde_A Farnesyl-diphosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative; HET: IPE; 1.75A {Lactobacillus brevis} PDB: 3m9u_A*
Probab=33.51 E-value=38 Score=29.69 Aligned_cols=64 Identities=16% Similarity=0.064 Sum_probs=41.2
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccc
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALR 78 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~ 78 (213)
+|+|+|+.+=+-|+.-|-+ .++|- .-+|+.++..+=..+..++.--..+.+++++|.+.+..++
T Consensus 217 lGlaFQI~DDiLD~~gd~~------------~~GK~--~g~Dl~egK~T~p~l~al~~a~~~~~~~~~~a~~~l~~~~ 280 (309)
T 3pde_A 217 FGLAFQIYDDILDVVSSPA------------EMGKA--TQKDADEAKNTYPGKLGLIGANQALIDTIHSGQAALQGLP 280 (309)
T ss_dssp HHHHHHHHHHHHHHHCC-------------------------CTTTSSSHHHHHCHHHHHHHHHHHHHHHHHHHHTSC
T ss_pred HHHHHHHHHHHHhccCCHH------------HhCCC--ccchhhcCCccHHHHHHHHHhHHHHHHHHHHHHHHHHHhh
Confidence 5899998887777655433 24441 1257777777766777777778888889999999888753
No 20
>3rmg_A Octaprenyl-diphosphate synthase; structural genomics, protein structure initiative, isoprene biosynthesis, transferase; 2.30A {Bacteroides thetaiotaomicron}
Probab=31.50 E-value=47 Score=29.15 Aligned_cols=77 Identities=16% Similarity=0.196 Sum_probs=44.7
Q ss_pred CcchHHHHHhhhch----------HhhhhcCCCCcccccHHHHHhhcCCh--hhh----cccccc----HHHHH------
Q 028137 1 MGLFLQKTNIIRDY----------LEDINEIPKCRMFWPREIWSKYVNKL--EDL----KYEENS----DKAVQ------ 54 (213)
Q Consensus 1 lGlaLQlTNILRDv----------~ED~~e~p~GRiY~P~eil~k~g~~~--~dl----~~~~~~----~~~~~------ 54 (213)
+|+|+|+.+=+-|+ ++|+. .|.+=||-=..-+..... +.+ ..+..+ ..+++
T Consensus 206 lG~aFQi~DD~ld~~~~~~~GK~~g~Dl~---egK~T~p~i~al~~~~~~~~~~L~~~l~~~~~~~~~~~~v~~~i~~~g 282 (334)
T 3rmg_A 206 IGICFQIKDDIFDYFDSKKIGKPTGNDML---EGKLTLPALYALNTTKDAWAEQIAFKVKEGTATPDEIVRLIEFTKDNG 282 (334)
T ss_dssp HHHHHHHHHHHHTTSCC------CCHHHH---TTCCCHHHHHHHHHHCCHHHHHHHHHHHHTCCCHHHHHHHHHHHHHTT
T ss_pred HHHHHHHHHHhccCCChhhcCCCchhhhh---cCchHHHHHHHHHhCChhhHHHHHHHHcCCCCCHHHHHHHHHHHHHcC
Confidence 59999999877776 47888 488888754322221110 011 111111 12222
Q ss_pred HHHHHHHHHHHHHHHHHHhHHccchh
Q 028137 55 CLNDMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 55 ll~~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
.++.--..|.++.++|++.+..+|+.
T Consensus 283 ~~~~a~~~~~~~~~~A~~~L~~lp~~ 308 (334)
T 3rmg_A 283 GIEYACRTIEQYKKKAFDLLAALPDS 308 (334)
T ss_dssp HHHHHHHHHHHHHHHHHHHHTTSCCC
T ss_pred hHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 23344566778888888888888754
No 21
>2l2t_A Receptor tyrosine-protein kinase ERBB-4; transmembrane dimer, membrane domain, membrane protei; NMR {Homo sapiens}
Probab=31.38 E-value=53 Score=20.97 Aligned_cols=14 Identities=14% Similarity=0.185 Sum_probs=6.2
Q ss_pred HHHHHHHHHHhhcc
Q 028137 197 IILAIIFSYLSSTR 210 (213)
Q Consensus 197 ~~~~~~~~~~~~~~ 210 (213)
+++..+|.|+.+|+
T Consensus 25 ii~~~~~~~~RRRr 38 (44)
T 2l2t_A 25 IVGLTFAVYVRRKS 38 (44)
T ss_dssp HHHHHHHHHHHTTC
T ss_pred HHHHHHHHHhhhhh
Confidence 34444444554443
No 22
>4dhd_A Polyprenyl synthetase; isoprenoid synthesis, isoprenoid diphosphate synthase, trans; 1.65A {Pyrobaculum calidifontis} PDB: 4gp1_A* 4gp2_A*
Probab=30.96 E-value=37 Score=30.18 Aligned_cols=75 Identities=16% Similarity=0.100 Sum_probs=43.3
Q ss_pred CcchHHHHHhhhch-----------HhhhhcCCCCcc-cccHHHHHhhcCChh------h-hcccccc----HHHHHHH-
Q 028137 1 MGLFLQKTNIIRDY-----------LEDINEIPKCRM-FWPREIWSKYVNKLE------D-LKYEENS----DKAVQCL- 56 (213)
Q Consensus 1 lGlaLQlTNILRDv-----------~ED~~e~p~GRi-Y~P~eil~k~g~~~~------d-l~~~~~~----~~~~~ll- 56 (213)
+|+|+|+.+=+-|+ ++|+. .|.+ =||-=..-+.. +++ + +..+..+ +.++.++
T Consensus 217 lG~aFQI~DD~lD~~gd~~~~GK~~g~Dl~---egK~~T~p~i~al~~~-~~~~~~~L~~~l~~~~~~~~~~~~i~~li~ 292 (358)
T 4dhd_A 217 AGVAFQIIDDVLDIYGDPKKFGKEIGKDIK---EHKRGNAVVAVALSHL-GEGERRRLLEILAREVVEEADVREAVALLD 292 (358)
T ss_dssp HHHHHHHHHHHHHHHC-------CTTHHHH---TTBSCSHHHHHHHHHS-CHHHHHHHHHHHHCSSCCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHHhcCChhhcCCCchhhHh---cCChhhHHHHHHHHhC-ChhhHHHHHHHHcCCCCCHHHHHHHHHHHH
Confidence 59999999877775 57888 4877 67754222211 111 0 1111111 1222222
Q ss_pred -----HHHHHHHHHHHHHHHHhHHccch
Q 028137 57 -----NDMVTNALMHVEDCLKYMSALRD 79 (213)
Q Consensus 57 -----~~lv~~A~~h~~~al~yl~~l~~ 79 (213)
+.-...|.++.++|++.+..+++
T Consensus 293 ~~gai~~a~~~a~~~~~~A~~~L~~lp~ 320 (358)
T 4dhd_A 293 SVGAREEALRLAARYREEAERHLAKIPN 320 (358)
T ss_dssp TTTHHHHHHHHHHHHHHHHHHHHTTSSS
T ss_pred HcChHHHHHHHHHHHHHHHHHHHHcCCC
Confidence 23456678888999999988874
No 23
>2jwa_A Receptor tyrosine-protein kinase ERBB-2; transmembrane helix dimer, protein kinase receptor membrane domain, ATP-binding, glycoprotein; NMR {Homo sapiens} PDB: 2ks1_A
Probab=30.72 E-value=44 Score=21.38 Aligned_cols=19 Identities=21% Similarity=0.670 Sum_probs=10.6
Q ss_pred HHHHHHHHHHHHHHhhccC
Q 028137 193 VIFFIILAIIFSYLSSTRA 211 (213)
Q Consensus 193 ~~~~~~~~~~~~~~~~~~~ 211 (213)
++++++++++++.|-+||.
T Consensus 21 vll~vi~~l~~~~~~RRR~ 39 (44)
T 2jwa_A 21 ILLVVVLGVVFGILIKRRQ 39 (44)
T ss_dssp HHHHHHHHHHHHHHHHHHC
T ss_pred HHHHHHHHHHHHhheehhh
Confidence 4455566666665555553
No 24
>3lmd_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, protein structure initiative, nysgrc; 1.90A {Corynebacterium glutamicum} PDB: 3q2q_A*
Probab=29.10 E-value=27 Score=31.30 Aligned_cols=76 Identities=13% Similarity=0.081 Sum_probs=45.1
Q ss_pred CcchHHHHHhhhch-----------HhhhhcCCCCcccccHHHHHhhcCCh-----hhhc-ccccc----HHHHHH----
Q 028137 1 MGLFLQKTNIIRDY-----------LEDINEIPKCRMFWPREIWSKYVNKL-----EDLK-YEENS----DKAVQC---- 55 (213)
Q Consensus 1 lGlaLQlTNILRDv-----------~ED~~e~p~GRiY~P~eil~k~g~~~-----~dl~-~~~~~----~~~~~l---- 55 (213)
+|+|+|+.+=+-|+ ++|+.| |.+=||-=..-+.. ++ .++. .+..+ +.++++
T Consensus 232 lG~aFQI~DDilD~~~d~~~~GK~~g~Dl~e---gK~Tlp~l~al~~~-~~~~~~L~~~l~~~~~~~~~~~~~~~ll~~~ 307 (360)
T 3lmd_A 232 VGMIFQIVDDIIDIFSETHESGKTPGTDLRE---GVFTLPVLYALRED-TPVGAELRDILTGPLEDDETVNHVLELLSQS 307 (360)
T ss_dssp HHHHHHHHHHHHHHHC--------CCHHHHH---TCCCHHHHHHHHCC-SHHHHHHHHHCSSCCCSHHHHHHHHHHHHHS
T ss_pred HHHHHHHHHHHHHccCChhhhCCCchhHHhc---CCchHHHHHHHHcC-CchHHHHHHHHcCCCCCHHHHHHHHHHHHHC
Confidence 59999999877776 567773 78878854322221 11 0111 11111 222222
Q ss_pred --HHHHHHHHHHHHHHHHHhHHccchh
Q 028137 56 --LNDMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 56 --l~~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
++.--..|.++.++|++.+..+|..
T Consensus 308 gal~~a~~~a~~~~~~A~~~L~~lp~~ 334 (360)
T 3lmd_A 308 GGRQAALDEVYRYMDIANAELDRLPDS 334 (360)
T ss_dssp SHHHHHHHHHHHHHHHHHHHHTTSCCS
T ss_pred CHHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 3445566788889999999888764
No 25
>3tc1_A Octaprenyl pyrophosphate synthase; all alpha-helices fold, transferase; 2.00A {Helicobacter pylori}
Probab=24.31 E-value=94 Score=27.02 Aligned_cols=78 Identities=12% Similarity=0.179 Sum_probs=45.1
Q ss_pred CcchHHHHHhhhch-----------HhhhhcCCCCcccccHHHHHhhcCC-----hhhhcccccc---HHHHHH------
Q 028137 1 MGLFLQKTNIIRDY-----------LEDINEIPKCRMFWPREIWSKYVNK-----LEDLKYEENS---DKAVQC------ 55 (213)
Q Consensus 1 lGlaLQlTNILRDv-----------~ED~~e~p~GRiY~P~eil~k~g~~-----~~dl~~~~~~---~~~~~l------ 55 (213)
+|+|+|+.+=+-|+ ++|+. .|.+=||-=..-+...+ ..++...... ..++++
T Consensus 192 lG~aFQI~DD~ld~~~d~~~~GK~~g~Dl~---egK~T~p~i~al~~~~~~~~~~L~~~l~~~~~~~~~~i~~li~~~ga 268 (315)
T 3tc1_A 192 FGMAFQIIDDLLDITQDAKTLGKPNFSDFK---EGKTTLPYLLLYEKLNQHDQGLLISYFKQDSHEIIEWTKEKFKQYGI 268 (315)
T ss_dssp HHHHHHHHHHHHTTSCCTTCCCCCCCCTGG---GTCCCHHHHHHHTTSCHHHHHHHHHTTTCCCHHHHHHHHHHHHHTTH
T ss_pred HHHHHHHHHHHhcccCCHHHhCCChhhHHH---cCChhHHHHHHHHhCCHHHHHHHHHHHcCCCHHHHHHHHHHHHHcCh
Confidence 59999999988886 67887 48888875432222111 0111111111 122222
Q ss_pred HHHHHHHHHHHHHHHHHhHHccchhh
Q 028137 56 LNDMVTNALMHVEDCLKYMSALRDHA 81 (213)
Q Consensus 56 l~~lv~~A~~h~~~al~yl~~l~~~s 81 (213)
++.-...|..+.++|++.+..+|+..
T Consensus 269 ~~~~~~~~~~~~~~A~~~L~~lp~s~ 294 (315)
T 3tc1_A 269 IEETLKTAQVYSKKALEAIKGENNLI 294 (315)
T ss_dssp HHHHHHHHHHHHHHHHHHTTTTCCHH
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCcH
Confidence 33444557788888888888887643
No 26
>3apz_A Geranyl diphosphate synthase; prenyltransferase, all alpha-helices fold, chroloplast, TRAN isoprenoid biosynthetic process; 2.60A {Arabidopsis thaliana} PDB: 3aq0_A*
Probab=23.30 E-value=1.3e+02 Score=26.23 Aligned_cols=76 Identities=20% Similarity=0.202 Sum_probs=43.3
Q ss_pred CcchHHHHHhhhchH-----------hhhhcCCCCcccccHHHHHhhcCChhhhcc-----ccccHHHHH------HHHH
Q 028137 1 MGLFLQKTNIIRDYL-----------EDINEIPKCRMFWPREIWSKYVNKLEDLKY-----EENSDKAVQ------CLND 58 (213)
Q Consensus 1 lGlaLQlTNILRDv~-----------ED~~e~p~GRiY~P~eil~k~g~~~~dl~~-----~~~~~~~~~------ll~~ 58 (213)
+|+|+|+.+=+-|+. +|+. .|.+=||-=..-+..-...++.. ++.-+.++. .++.
T Consensus 226 lG~aFQi~DD~lD~~gd~~~~GK~~g~Dl~---egK~Tlp~l~al~~~~~~~~~l~~~~~~~~~~~~~~~~i~~~g~l~~ 302 (348)
T 3apz_A 226 LGLAFQLIDDILDFTGTSASLGKGSLSDIR---HGVITAPILFAMEEFPQLREVVDQVEKDPRNVDIALEYLGKSKGIQR 302 (348)
T ss_dssp HHHHHHHHHHHHHHHTTTTCTTCSCCHHHH---TTCCCHHHHHHHHHCTTHHHHHHTTTTCTHHHHHHHHHHHHTTHHHH
T ss_pred HHHHHHHHHHHhhccCChhhcCCcchhhHh---CCChhHHHHHHHHcCHHHHHHHHhccCCHHHHHHHHHHHHHcChHHH
Confidence 599999999888874 5677 47787776432221111111111 111122222 2334
Q ss_pred HHHHHHHHHHHHHHhHHccch
Q 028137 59 MVTNALMHVEDCLKYMSALRD 79 (213)
Q Consensus 59 lv~~A~~h~~~al~yl~~l~~ 79 (213)
--..|.+|++.|.+.+..++.
T Consensus 303 a~~~~~~~~~~A~~~L~~l~~ 323 (348)
T 3apz_A 303 ARELAMEHANLAAAAIGSLPE 323 (348)
T ss_dssp HHHHHHHHHHHHHHHHTTSCC
T ss_pred HHHHHHHHHHHHHHHHHcCCC
Confidence 446677888888888887764
No 27
>2ftz_A Geranyltranstransferase; TM0161, structural GE joint center for structural genomics, JCSG, protein structu initiative, PSI; HET: MLY; 1.90A {Thermotoga maritima}
Probab=23.22 E-value=73 Score=27.35 Aligned_cols=63 Identities=13% Similarity=0.026 Sum_probs=37.5
Q ss_pred CcchHHHHHhhhchHhhhhcCCCCcccccHHHHHhhcCChhhhccccccHHHHHHHHHHHHHHHHHHHHHHHhHHccch
Q 028137 1 MGLFLQKTNIIRDYLEDINEIPKCRMFWPREIWSKYVNKLEDLKYEENSDKAVQCLNDMVTNALMHVEDCLKYMSALRD 79 (213)
Q Consensus 1 lGlaLQlTNILRDv~ED~~e~p~GRiY~P~eil~k~g~~~~dl~~~~~~~~~~~ll~~lv~~A~~h~~~al~yl~~l~~ 79 (213)
+|+|+|+.+=+-|+..|-++ .|. | .| +|+. ..+=..+..++.--..|.++.++|++.+..++.
T Consensus 205 lG~aFQI~DD~lD~~~d~~~--~GK---~------~g---~Dl~--K~T~p~l~~l~~a~~~a~~~~~~A~~~L~~l~~ 267 (284)
T 2ftz_A 205 FGVAFQIYDDLXDILGSFEK--VGK---D------LG---KDTE--XVTLVXXVGIQXAREMADXYYEEVLXGIESEGL 267 (284)
T ss_dssp HHHHHHHHHHHHHHHHHCCC--C-------------------------CHHHHHCHHHHHHHHHHHHHHHHHHHHHTTC
T ss_pred HHHHHHHHHhhhhhcCCHHh--hCC---C------cc---hhcc--ccchHHHHHHHHHHHHHHHHHHHHHHHHHhCCc
Confidence 59999999888888777552 221 0 11 2333 223234445666677788888888888887763
No 28
>2ge7_A Nucleocapsid protein; N protein, coronavirus, IBV N protein, dimerization domain, virus/viral protein/RNA binding protein complex; 2.00A {Infectious bronchitis virus} SCOP: d.254.1.2 PDB: 2ge8_A 2ca1_A
Probab=22.48 E-value=41 Score=25.53 Aligned_cols=18 Identities=11% Similarity=0.316 Sum_probs=14.6
Q ss_pred ccCCCCCCHHHHHHHHHH
Q 028137 145 KINKNDPNATKTLSRVEA 162 (213)
Q Consensus 145 k~~~~dp~~~~~~~~~~~ 162 (213)
+++++||||....++|++
T Consensus 80 ~vpk~dPn~~~~~~~l~~ 97 (108)
T 2ge7_A 80 VVPRDDPQFDNYVKICDQ 97 (108)
T ss_dssp EEETTSTTHHHHHHHHHH
T ss_pred EcCCCCCCHHHHHHHHHH
Confidence 678899999888777764
No 29
>3pko_A Geranylgeranyl pyrophosphate synthase; isoprenyl diphosphate synthase, structural genomics, PSI, PR structure initiative, nysgrc; HET: CIT; 1.98A {Lactobacillus brevis} PDB: 3n3d_A
Probab=20.96 E-value=1.1e+02 Score=26.76 Aligned_cols=77 Identities=18% Similarity=0.114 Sum_probs=43.4
Q ss_pred CcchHHHHHhhhch-----------HhhhhcCCCCcccccHHHHHhhcC-Chhhhc------cccccHHHHHHH------
Q 028137 1 MGLFLQKTNIIRDY-----------LEDINEIPKCRMFWPREIWSKYVN-KLEDLK------YEENSDKAVQCL------ 56 (213)
Q Consensus 1 lGlaLQlTNILRDv-----------~ED~~e~p~GRiY~P~eil~k~g~-~~~dl~------~~~~~~~~~~ll------ 56 (213)
+|+|+|+.+=+-|+ ++|+. .|.+=||-=.--+... ...++. .++.-..+++++
T Consensus 216 lG~aFQi~DD~ld~~~~~~~~GK~~g~Dl~---egK~Tlp~i~al~~~~~~l~~~l~~~~~~~~~~~~~i~~li~~~ga~ 292 (334)
T 3pko_A 216 IGCAYQMLDDILDYAGDPKRTQKPVLEDLR---SGVYSLPLLLSLSHAPRDFHKLLKKKQAMTLEDIKHVQALVAQYDGV 292 (334)
T ss_dssp HHHHHHHHHHHHHHCSCTTSCCHHHHHHHH---TTCCCHHHHHHGGGSHHHHHHHHTTGGGCCHHHHHHHHHHHHHTTHH
T ss_pred HHHHHHHHHHHHhccCChhhcCCCCCCccc---cCchhHHHHHHHHhCcHHHHHHHhcCCCCCHHHHHHHHHHHHHcChH
Confidence 59999999866665 67888 4888787542221110 000111 111112222222
Q ss_pred HHHHHHHHHHHHHHHHhHHccchh
Q 028137 57 NDMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 57 ~~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
+.--..|..++++|.+.+..+|..
T Consensus 293 ~~a~~~~~~~~~~A~~~L~~lp~~ 316 (334)
T 3pko_A 293 GAAKQLAQDYTDRALTLIQQLPVG 316 (334)
T ss_dssp HHHHHHHHHHHHHHHHHHTTSCSS
T ss_pred HHHHHHHHHHHHHHHHHHHhCCCc
Confidence 234456788888888888888764
No 30
>3aqb_B Component B of hexaprenyl diphosphate synthase; prenyltransferase, transferase; 2.40A {Micrococcus luteus} PDB: 3aqc_B*
Probab=20.72 E-value=1.3e+02 Score=25.93 Aligned_cols=77 Identities=19% Similarity=0.148 Sum_probs=42.8
Q ss_pred CcchHHHHHhhhch-----------HhhhhcCCCCcccccHHH-HHhhcCC----hh---hhc-cc---cccHHHHHHHH
Q 028137 1 MGLFLQKTNIIRDY-----------LEDINEIPKCRMFWPREI-WSKYVNK----LE---DLK-YE---ENSDKAVQCLN 57 (213)
Q Consensus 1 lGlaLQlTNILRDv-----------~ED~~e~p~GRiY~P~ei-l~k~g~~----~~---dl~-~~---~~~~~~~~ll~ 57 (213)
+|+|+|+.+=+-|+ ++|+. .|.+=||-=. +++.... .. ++. .+ +.-+.++++++
T Consensus 203 lG~afQi~DD~ld~~~~~~~~GK~~g~Dl~---~gk~T~p~i~al~~~~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~~~ 279 (325)
T 3aqb_B 203 IGMSYQIIDDILDYTSDEATLGKPVGSDIR---NGHITYPLMAAIANLKEQDDDKLEAVVKHLTSTSDDEVYQYIVSQVK 279 (325)
T ss_dssp HHHHHHHHHHHHHHHSCHHHHSSCTTHHHH---TTCCCHHHHHHHHHHHHTTCCHHHHHHHTCCTTCCHHHHHHHHHHHH
T ss_pred HHHHHHHHHHHHhccCChhhcCCccchHhh---CCCccHHHHHHHHhCCHHHHHHHHHHHHHHcCCCCHHHHHHHHHHHH
Confidence 59999998877775 67887 4888887632 2221100 01 111 11 11122233222
Q ss_pred -----HHHHHHHHHHHHHHHhHHccchh
Q 028137 58 -----DMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 58 -----~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
.--..+..++++|.+.+..+|..
T Consensus 280 ~~~~~~~~~~~~~~~~~A~~~L~~lp~~ 307 (325)
T 3aqb_B 280 QYGIEPAELLSRKYGDKAKYHLSQLQDS 307 (325)
T ss_dssp HHTHHHHHHHHHHHHHHHHHHHHTSCCC
T ss_pred HHHHHHHHHHHHHHHHHHHHHHHhCCCc
Confidence 22455777888888888887754
No 31
>1yhl_A Farnesyl pyrophosphate synthase; farnesyl diphosphate synthase, bisphosphonate, dimethyl ALLY pyrophosphate sulfate, FPPS, transferase; HET: DMA RIS; 1.95A {Trypanosoma cruzi} PDB: 1yhk_A* 1yhm_A* 3iba_A* 3ick_A* 3icm_A* 3icn_A* 3icz_A* 3id0_A*
Probab=20.53 E-value=1.5e+02 Score=26.04 Aligned_cols=76 Identities=12% Similarity=0.170 Sum_probs=41.9
Q ss_pred CcchHHHHHhhhchH----------hhhhcCCCCcccccHHHHHhhcCChh------hhccc---cccHHHHHHHH----
Q 028137 1 MGLFLQKTNIIRDYL----------EDINEIPKCRMFWPREIWSKYVNKLE------DLKYE---ENSDKAVQCLN---- 57 (213)
Q Consensus 1 lGlaLQlTNILRDv~----------ED~~e~p~GRiY~P~eil~k~g~~~~------dl~~~---~~~~~~~~ll~---- 57 (213)
+|+|+|+.+=+-|+. +|+. .|.+=||-=.--+.. +.+ +.... +..+.++++++
T Consensus 242 lG~aFQi~DD~lD~~~d~~~~GK~g~Dl~---egK~T~p~l~al~~~-~~~~~~~l~~~~~~~~~~~~~~~~~~i~~~g~ 317 (362)
T 1yhl_A 242 IGEYFQVQDDVMDCFTPPEQLGKVGTDIE---DAKCSWLAVTFLGKA-NAAQVAEFKANYGDKDPAKVAVVKRLYSEANL 317 (362)
T ss_dssp HHHHHHHHHHHHHHHSCHHHHSSCCCTTT---TTCCCHHHHHHHTTC-CHHHHHHHHHHTTCCCHHHHHHHHHHHHHTTH
T ss_pred HHHHHHHHHHHHhccCChHHhCCChhhHh---cCCchHHHHHHHHhC-CHHHHHHHHHHHcCCCHHHHHHHHHHHHHCCC
Confidence 599999998888874 6777 488888753221111 111 11111 11122333332
Q ss_pred --HHHHHHHHHHHHHHHhHHccchh
Q 028137 58 --DMVTNALMHVEDCLKYMSALRDH 80 (213)
Q Consensus 58 --~lv~~A~~h~~~al~yl~~l~~~ 80 (213)
.....+..+++.|.+.+..+|..
T Consensus 318 ~~~~~~~~~~~~~~A~~~L~~lp~~ 342 (362)
T 1yhl_A 318 QADFAAYEAEVVREVESLIEQLKVK 342 (362)
T ss_dssp HHHHHHHHHHHHHHHHHHHHHHTTT
T ss_pred HHHHHHHHHHHHHHHHHHHHhCCCC
Confidence 23355667777777777777643
Done!