BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy9101
(255 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1UBX|A Chain A, Structure Of Farnesyl Pyrophosphate Synthetase
Length = 367
Score = 169 bits (427), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 83/154 (53%), Positives = 106/154 (68%), Gaps = 8/154 (5%)
Query: 106 YKMLAQPSELTPENLHLAQILGWCVEIVSLKTSMGQSLDLSTAN----DLSKFTMDRYEA 161
Y++L + P +HL ++ + +T +GQ LDL TA DLS F+ +RY+A
Sbjct: 154 YRVLKKYCRQRPYYVHLLELFLQ----TAYQTELGQMLDLITAPVSKVDLSHFSEERYKA 209
Query: 162 IVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQVQDDYLDCFGTPDVT 221
IVKYKTAFYSF LPVA AM+M G+ E H A+ +LLEMG +FQ+QDDYLDCFG P +T
Sbjct: 210 IVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALT 269
Query: 222 GKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
GK+GTDI+D KCSWL V LQR TP QR+L+E N
Sbjct: 270 GKVGTDIQDNKCSWLVVQCLQRVTPEQRQLLEDN 303
Score = 73.9 bits (180), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 40/118 (33%), Positives = 61/118 (51%), Gaps = 22/118 (18%)
Query: 16 HDPPLAATNTVLSKDESRDFMAIFPDLVRDLTDAG-RHSDIPDVTKWYAKVLQYNKAISN 74
P L + V+ + E +F+ FP +VRDLT+ G H ++ D A++
Sbjct: 12 QQPALRNLSPVVVEREREEFVGFFPQIVRDLTEDGIGHPEVGD-------------AVAR 58
Query: 75 NVYLGTYFIVQVLQYNVPSGKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEI 132
+ +VLQYN P GK NRGL +V AY+ L+ P + E+L A +GWC+E+
Sbjct: 59 --------LKEVLQYNAPGGKCNRGLTVVAAYRELSGPGQKDAESLRCALAVGWCIEL 108
>pdb|1FPS|A Chain A, Crystal Structure Of Recombinant Farnesyl Diphosphate
Synthase At 2.6 Angstroms Resolution
Length = 348
Score = 169 bits (427), Expect = 2e-42, Method: Compositional matrix adjust.
Identities = 83/154 (53%), Positives = 106/154 (68%), Gaps = 8/154 (5%)
Query: 106 YKMLAQPSELTPENLHLAQILGWCVEIVSLKTSMGQSLDLSTAN----DLSKFTMDRYEA 161
Y++L + P +HL ++ + +T +GQ LDL TA DLS F+ +RY+A
Sbjct: 135 YRVLKKYCRQRPYYVHLLELFLQ----TAYQTELGQMLDLITAPVSKVDLSHFSEERYKA 190
Query: 162 IVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQVQDDYLDCFGTPDVT 221
IVKYKTAFYSF LPVA AM+M G+ E H A+ +LLEMG +FQ+QDDYLDCFG P +T
Sbjct: 191 IVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALT 250
Query: 222 GKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
GK+GTDI+D KCSWL V LQR TP QR+L+E N
Sbjct: 251 GKVGTDIQDNKCSWLVVQCLQRVTPEQRQLLEDN 284
Score = 71.2 bits (173), Expect = 5e-13, Method: Compositional matrix adjust.
Identities = 38/108 (35%), Positives = 58/108 (53%), Gaps = 22/108 (20%)
Query: 26 VLSKDESRDFMAIFPDLVRDLTDAG-RHSDIPDVTKWYAKVLQYNKAISNNVYLGTYFIV 84
V+ + E +F+ FP +VRDLT+ G H ++ D A++ +
Sbjct: 3 VVVEREREEFVGFFPQIVRDLTEDGIGHPEVGD-------------AVAR--------LK 41
Query: 85 QVLQYNVPSGKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEI 132
+VLQYN P GK NRGL +V AY+ L+ P + E+L A +GWC+E+
Sbjct: 42 EVLQYNAPGGKCNRGLTVVAAYRELSGPGQKDAESLRCALAVGWCIEL 89
>pdb|1UBV|A Chain A, Structure Of Farnesyl Pyrophosphate Synthetase
pdb|1UBW|A Chain A, Structure Of Farnesyl Pyrophosphate Synthetase
pdb|1UBY|A Chain A, Structure Of Farnesyl Pyrophosphate Synthetase
Length = 367
Score = 166 bits (421), Expect = 9e-42, Method: Compositional matrix adjust.
Identities = 82/154 (53%), Positives = 105/154 (68%), Gaps = 8/154 (5%)
Query: 106 YKMLAQPSELTPENLHLAQILGWCVEIVSLKTSMGQSLDLSTAN----DLSKFTMDRYEA 161
Y++L + P +HL ++ + +T +GQ LDL TA DLS F+ +RY+A
Sbjct: 154 YRVLKKYCRQRPYYVHLLELFLQ----TAYQTELGQMLDLITAPVSKVDLSHFSEERYKA 209
Query: 162 IVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQVQDDYLDCFGTPDVT 221
IVKYKTAFYSF LPVA AM+M G+ E H A+ +LLEMG +FQ+QDDYLDCFG P +T
Sbjct: 210 IVKYKTAFYSFYLPVAAAMYMVGIDSKEEHENAKAILLEMGEYFQIQDDYLDCFGDPALT 269
Query: 222 GKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
G +GTDI+D KCSWL V LQR TP QR+L+E N
Sbjct: 270 GAVGTDIQDNKCSWLVVQCLQRVTPEQRQLLEDN 303
Score = 73.9 bits (180), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 40/118 (33%), Positives = 61/118 (51%), Gaps = 22/118 (18%)
Query: 16 HDPPLAATNTVLSKDESRDFMAIFPDLVRDLTDAG-RHSDIPDVTKWYAKVLQYNKAISN 74
P L + V+ + E +F+ FP +VRDLT+ G H ++ D A++
Sbjct: 12 QQPALRNLSPVVVEREREEFVGFFPQIVRDLTEDGIGHPEVGD-------------AVAR 58
Query: 75 NVYLGTYFIVQVLQYNVPSGKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEI 132
+ +VLQYN P GK NRGL +V AY+ L+ P + E+L A +GWC+E+
Sbjct: 59 --------LKEVLQYNAPGGKCNRGLTVVAAYRELSGPGQKDAESLRCALAVGWCIEL 108
>pdb|3RYE|A Chain A, Human Fdps Synthase In Complex With A N-Methyl Pyridinum
Bisphosphonate
pdb|3S4J|A Chain A, Human Fdps Synthase In Complex With A Rigid Analog Of
Risedronate
Length = 349
Score = 161 bits (408), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 108/290 (37%), Positives = 144/290 (49%), Gaps = 62/290 (21%)
Query: 23 TNTVLSKDESRDFMAIFPDLVRDLT-DAGRHSDIPDVTKWYAKVLQYNKAISNNVYLG-- 79
+N+ + E +DF+ F +VR LT D H +I D +VL+YN AI G
Sbjct: 1 SNSDVYAQEKQDFVQHFSQIVRVLTEDEMGHPEIGDAIARLKEVLEYN-AIGGKYNRGLT 59
Query: 80 ---------------------------------TYFIV-------------QVLQYNVPS 93
+F+V Q+ Y P
Sbjct: 60 VVVAFRELVEPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPG 119
Query: 94 ----GKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEIVSLKTSMGQSLDLSTAN 149
+ L Y++L P L+L ++ S +T +GQ+LDL TA
Sbjct: 120 VGLDAINDANLLEACIYRLLKLYCREQPYYLNLIELFLQS----SYQTEIGQTLDLLTAP 175
Query: 150 ----DLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFF 205
DL +FT RY++IVKYKTAFYSF LP+A AM+MAG+ + H A+ +LLEMG FF
Sbjct: 176 QGNVDLVRFTEKRYKSIVKYKTAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFF 235
Query: 206 QVQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
Q+QDDYLD FG P VTGKIGTDI+D KCSWL V LQRATP Q ++++ N
Sbjct: 236 QIQDDYLDLFGDPSVTGKIGTDIQDNKCSWLVVQCLQRATPEQYQILKEN 285
>pdb|2F7M|F Chain F, Crystal Structure Of Unliganded Human Fpps
pdb|2F89|F Chain F, Crystal Structure Of Human Fpps In Complex With
Pamidronate
pdb|2F8C|F Chain F, Crystal Structure Of Fpps In Complex With Zoledronate
pdb|2F8Z|F Chain F, Crystal Structure Of Human Fpps In Complex With
Zoledronate And Isopentenyl Diphosphate
pdb|2F92|F Chain F, Crystal Structure Of Human Fpps In Complex With
Alendronate
pdb|2F94|F Chain F, Crystal Structure Of Human Fpps In Complex With
Ibandronate
pdb|2F9K|F Chain F, Crystal Structure Of Human Fpps In Complex With
Zoledronate And Zn2+
pdb|3N1V|F Chain F, Human Fpps Complex With Fbs_01
pdb|3N1W|F Chain F, Human Fpps Complex With Fbs_02
pdb|3N3L|F Chain F, Human Fpps Complex With Fbs_03
pdb|3N49|F Chain F, Human Fpps Complex With Nov_292
pdb|3N5H|F Chain F, Human Fpps Complex With Nov_304
pdb|3N5J|F Chain F, Human Fpps Complex With Nov_311
pdb|3N6K|F Chain F, Human Fpps Complex With Nov_823
pdb|3N45|F Chain F, Human Fpps Complex With Fbs_04 And Zoledronic AcidMG2+
pdb|3N46|F Chain F, Human Fpps Complex With Nov_980 And Zoledronic AcidMG2+
Length = 350
Score = 160 bits (406), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 108/289 (37%), Positives = 143/289 (49%), Gaps = 62/289 (21%)
Query: 24 NTVLSKDESRDFMAIFPDLVRDLT-DAGRHSDIPDVTKWYAKVLQYNKAISNNVYLG--- 79
N+ + E +DF+ F +VR LT D H +I D +VL+YN AI G
Sbjct: 3 NSDVYAQEKQDFVQHFSQIVRVLTEDEMGHPEIGDAIARLKEVLEYN-AIGGKYNRGLTV 61
Query: 80 --------------------------------TYFIV-------------QVLQYNVPS- 93
+F+V Q+ Y P
Sbjct: 62 VVAFRELVEPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPGV 121
Query: 94 ---GKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEIVSLKTSMGQSLDLSTAN- 149
+ L Y++L P L+L ++ S +T +GQ+LDL TA
Sbjct: 122 GLDAINDANLLEACIYRLLKLYCREQPYYLNLIELFLQS----SYQTEIGQTLDLLTAPQ 177
Query: 150 ---DLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQ 206
DL +FT RY++IVKYKTAFYSF LP+A AM+MAG+ + H A+ +LLEMG FFQ
Sbjct: 178 GNVDLVRFTEKRYKSIVKYKTAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQ 237
Query: 207 VQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
+QDDYLD FG P VTGKIGTDI+D KCSWL V LQRATP Q ++++ N
Sbjct: 238 IQDDYLDLFGDPSVTGKIGTDIQDNKCSWLVVQCLQRATPEQYQILKEN 286
>pdb|1ZW5|A Chain A, X-Ray Structure Of Farnesyl Diphosphate Synthase Protein
Length = 355
Score = 160 bits (406), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 108/289 (37%), Positives = 143/289 (49%), Gaps = 62/289 (21%)
Query: 24 NTVLSKDESRDFMAIFPDLVRDLT-DAGRHSDIPDVTKWYAKVLQYNKAISNNVYLG--- 79
N+ + E +DF+ F +VR LT D H +I D +VL+YN AI G
Sbjct: 8 NSDVYAQEKQDFVQHFSQIVRVLTEDEMGHPEIGDAIARLKEVLEYN-AIGGKYNRGLTV 66
Query: 80 --------------------------------TYFIV-------------QVLQYNVPS- 93
+F+V Q+ Y P
Sbjct: 67 VVAFRELVEPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPGV 126
Query: 94 ---GKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEIVSLKTSMGQSLDLSTAN- 149
+ L Y++L P L+L ++ S +T +GQ+LDL TA
Sbjct: 127 GLDAINDANLLEACIYRLLKLYCREQPYYLNLIELFLQS----SYQTEIGQTLDLLTAPQ 182
Query: 150 ---DLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQ 206
DL +FT RY++IVKYKTAFYSF LP+A AM+MAG+ + H A+ +LLEMG FFQ
Sbjct: 183 GNVDLVRFTEKRYKSIVKYKTAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQ 242
Query: 207 VQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
+QDDYLD FG P VTGKIGTDI+D KCSWL V LQRATP Q ++++ N
Sbjct: 243 IQDDYLDLFGDPSVTGKIGTDIQDNKCSWLVVQCLQRATPEQYQILKEN 291
>pdb|4DEM|F Chain F, Crystal Structure Of Human Fpps In Complex With Ys_04_70
pdb|4H5D|F Chain F, Crystal Structure Of Human Fpps In Ternary Complex With
Ys0470 And Inorganic Pyrophosphate
pdb|4H5E|F Chain F, Crystal Structure Of Human Fpps In Ternary Complex With
Ys0470 And Isopentenyl Pyrophosphate
pdb|4H5C|F Chain F, Crystal Structure Of Human Fpps In Ternary Complex With
Ys0470 And Inorganic Phosphate
Length = 375
Score = 160 bits (406), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 108/289 (37%), Positives = 143/289 (49%), Gaps = 62/289 (21%)
Query: 24 NTVLSKDESRDFMAIFPDLVRDLT-DAGRHSDIPDVTKWYAKVLQYNKAISNNVYLG--- 79
N+ + E +DF+ F +VR LT D H +I D +VL+YN AI G
Sbjct: 28 NSDVYAQEKQDFVQHFSQIVRVLTEDEMGHPEIGDAIARLKEVLEYN-AIGGKYNRGLTV 86
Query: 80 --------------------------------TYFIV-------------QVLQYNVPS- 93
+F+V Q+ Y P
Sbjct: 87 VVAFRELVEPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPGV 146
Query: 94 ---GKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEIVSLKTSMGQSLDLSTAN- 149
+ L Y++L P L+L ++ S +T +GQ+LDL TA
Sbjct: 147 GLDAINDANLLEACIYRLLKLYCREQPYYLNLIELFLQS----SYQTEIGQTLDLLTAPQ 202
Query: 150 ---DLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQ 206
DL +FT RY++IVKYKTAFYSF LP+A AM+MAG+ + H A+ +LLEMG FFQ
Sbjct: 203 GNVDLVRFTEKRYKSIVKYKTAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQ 262
Query: 207 VQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
+QDDYLD FG P VTGKIGTDI+D KCSWL V LQRATP Q ++++ N
Sbjct: 263 IQDDYLDLFGDPSVTGKIGTDIQDNKCSWLVVQCLQRATPEQYQILKEN 311
>pdb|3B7L|A Chain A, Human Farnesyl Diphosphate Synthase Complexed With Mg And
Minodronate
Length = 356
Score = 160 bits (406), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 108/289 (37%), Positives = 143/289 (49%), Gaps = 62/289 (21%)
Query: 24 NTVLSKDESRDFMAIFPDLVRDLT-DAGRHSDIPDVTKWYAKVLQYNKAISNNVYLG--- 79
N+ + E +DF+ F +VR LT D H +I D +VL+YN AI G
Sbjct: 9 NSDVYAQEKQDFVQHFSQIVRVLTEDEMGHPEIGDAIARLKEVLEYN-AIGGKYNRGLTV 67
Query: 80 --------------------------------TYFIV-------------QVLQYNVPS- 93
+F+V Q+ Y P
Sbjct: 68 VVAFRELVEPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPGV 127
Query: 94 ---GKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEIVSLKTSMGQSLDLSTAN- 149
+ L Y++L P L+L ++ S +T +GQ+LDL TA
Sbjct: 128 GLDAINDANLLEACIYRLLKLYCREQPYYLNLIELFLQS----SYQTEIGQTLDLLTAPQ 183
Query: 150 ---DLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQ 206
DL +FT RY++IVKYKTAFYSF LP+A AM+MAG+ + H A+ +LLEMG FFQ
Sbjct: 184 GNVDLVRFTEKRYKSIVKYKTAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQ 243
Query: 207 VQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
+QDDYLD FG P VTGKIGTDI+D KCSWL V LQRATP Q ++++ N
Sbjct: 244 IQDDYLDLFGDPSVTGKIGTDIQDNKCSWLVVQCLQRATPEQYQILKEN 292
>pdb|1YQ7|A Chain A, Human Farnesyl Diphosphate Synthase Complexed With
Risedronate
pdb|1YV5|A Chain A, Human Farnesyl Diphosphate Synthase Complexed With Mg And
Risedronate
pdb|2OPN|A Chain A, Human Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph- 527
pdb|2OPM|A Chain A, Human Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph- 461
Length = 374
Score = 160 bits (406), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 108/289 (37%), Positives = 143/289 (49%), Gaps = 62/289 (21%)
Query: 24 NTVLSKDESRDFMAIFPDLVRDLT-DAGRHSDIPDVTKWYAKVLQYNKAISNNVYLG--- 79
N+ + E +DF+ F +VR LT D H +I D +VL+YN AI G
Sbjct: 27 NSDVYAQEKQDFVQHFSQIVRVLTEDEMGHPEIGDAIARLKEVLEYN-AIGGKYNRGLTV 85
Query: 80 --------------------------------TYFIV-------------QVLQYNVPS- 93
+F+V Q+ Y P
Sbjct: 86 VVAFRELVEPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPGV 145
Query: 94 ---GKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEIVSLKTSMGQSLDLSTAN- 149
+ L Y++L P L+L ++ S +T +GQ+LDL TA
Sbjct: 146 GLDAINDANLLEACIYRLLKLYCREQPYYLNLIELFLQS----SYQTEIGQTLDLLTAPQ 201
Query: 150 ---DLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQ 206
DL +FT RY++IVKYKTAFYSF LP+A AM+MAG+ + H A+ +LLEMG FFQ
Sbjct: 202 GNVDLVRFTEKRYKSIVKYKTAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQ 261
Query: 207 VQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
+QDDYLD FG P VTGKIGTDI+D KCSWL V LQRATP Q ++++ N
Sbjct: 262 IQDDYLDLFGDPSVTGKIGTDIQDNKCSWLVVQCLQRATPEQYQILKEN 310
>pdb|2RAH|A Chain A, Human Fdps Synthase In Complex With Novel Inhibitor
pdb|2VF6|A Chain A, Human Fdps Synthase In Complex With Minodronate
Length = 378
Score = 160 bits (405), Expect = 6e-40, Method: Compositional matrix adjust.
Identities = 108/289 (37%), Positives = 143/289 (49%), Gaps = 62/289 (21%)
Query: 24 NTVLSKDESRDFMAIFPDLVRDLT-DAGRHSDIPDVTKWYAKVLQYNKAISNNVYLG--- 79
N+ + E +DF+ F +VR LT D H +I D +VL+YN AI G
Sbjct: 31 NSDVYAQEKQDFVQHFSQIVRVLTEDEMGHPEIGDAIARLKEVLEYN-AIGGKYNRGLTV 89
Query: 80 --------------------------------TYFIV-------------QVLQYNVPS- 93
+F+V Q+ Y P
Sbjct: 90 VVAFRELVEPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPGV 149
Query: 94 ---GKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEIVSLKTSMGQSLDLSTAN- 149
+ L Y++L P L+L ++ S +T +GQ+LDL TA
Sbjct: 150 GLDAINDANLLEACIYRLLKLYCREQPYYLNLIELFLQS----SYQTEIGQTLDLLTAPQ 205
Query: 150 ---DLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQ 206
DL +FT RY++IVKYKTAFYSF LP+A AM+MAG+ + H A+ +LLEMG FFQ
Sbjct: 206 GNVDLVRFTEKRYKSIVKYKTAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQ 265
Query: 207 VQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
+QDDYLD FG P VTGKIGTDI+D KCSWL V LQRATP Q ++++ N
Sbjct: 266 IQDDYLDLFGDPSVTGKIGTDIQDNKCSWLVVQCLQRATPEQYQILKEN 314
>pdb|2QIS|A Chain A, Crystal Structure Of Human Farnesyl Pyrophosphate Synthase
T210s Mutant Bound To Risedronate
Length = 374
Score = 159 bits (402), Expect = 1e-39, Method: Compositional matrix adjust.
Identities = 107/289 (37%), Positives = 143/289 (49%), Gaps = 62/289 (21%)
Query: 24 NTVLSKDESRDFMAIFPDLVRDLT-DAGRHSDIPDVTKWYAKVLQYNKAISNNVYLG--- 79
N+ + E +DF+ F +VR LT D H +I D +VL+YN AI G
Sbjct: 27 NSDVYAQEKQDFVQHFSQIVRVLTEDEMGHPEIGDAIARLKEVLEYN-AIGGKYNRGLTV 85
Query: 80 --------------------------------TYFIV-------------QVLQYNVPS- 93
+F+V Q+ Y P
Sbjct: 86 VVAFRELVEPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPGV 145
Query: 94 ---GKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEIVSLKTSMGQSLDLSTAN- 149
+ L Y++L P L+L ++ S +T +GQ+LDL TA
Sbjct: 146 GLDAINDANLLEACIYRLLKLYCREQPYYLNLIELFLQS----SYQTEIGQTLDLLTAPQ 201
Query: 150 ---DLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQ 206
DL +FT RY++IVKYK+AFYSF LP+A AM+MAG+ + H A+ +LLEMG FFQ
Sbjct: 202 GNVDLVRFTEKRYKSIVKYKSAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQ 261
Query: 207 VQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
+QDDYLD FG P VTGKIGTDI+D KCSWL V LQRATP Q ++++ N
Sbjct: 262 IQDDYLDLFGDPSVTGKIGTDIQDNKCSWLVVQCLQRATPEQYQILKEN 310
>pdb|3CP6|A Chain A, Crystal Structure Of Human Farnesyl Diphosphate Synthase
(T201a Mutant) Complexed With Mg And Biphosphonate
Inhibitor
Length = 376
Score = 159 bits (401), Expect = 2e-39, Method: Compositional matrix adjust.
Identities = 107/289 (37%), Positives = 142/289 (49%), Gaps = 62/289 (21%)
Query: 24 NTVLSKDESRDFMAIFPDLVRDLT-DAGRHSDIPDVTKWYAKVLQYNKAISNNVYLG--- 79
N+ + E +DF+ F +VR LT D H +I D +VL+YN AI G
Sbjct: 29 NSDVYAQEKQDFVQHFSQIVRVLTEDEMGHPEIGDAIARLKEVLEYN-AIGGKYNRGLTV 87
Query: 80 --------------------------------TYFIV-------------QVLQYNVPS- 93
+F+V Q+ Y P
Sbjct: 88 VVAFRELVEPRKQDADSLQRAWTVGWCVELLQAFFLVADDIMDSSLTRRGQICWYQKPGV 147
Query: 94 ---GKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEIVSLKTSMGQSLDLSTAN- 149
+ L Y++L P L+L ++ S +T +GQ+LDL TA
Sbjct: 148 GLDAINDANLLEACIYRLLKLYCREQPYYLNLIELFLQS----SYQTEIGQTLDLLTAPQ 203
Query: 150 ---DLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQ 206
DL +FT RY++IVKYK AFYSF LP+A AM+MAG+ + H A+ +LLEMG FFQ
Sbjct: 204 GNVDLVRFTEKRYKSIVKYKAAFYSFYLPIAAAMYMAGIDGEKEHANAKKILLEMGEFFQ 263
Query: 207 VQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
+QDDYLD FG P VTGKIGTDI+D KCSWL V LQRATP Q ++++ N
Sbjct: 264 IQDDYLDLFGDPSVTGKIGTDIQDNKCSWLVVQCLQRATPEQYQILKEN 312
>pdb|3EGT|A Chain A, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-722
pdb|3EGT|B Chain B, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-722
Length = 413
Score = 100 bits (248), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 47/109 (43%), Positives = 68/109 (62%)
Query: 147 TANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQ 206
T D ++FT+ Y+ IVKYKTA+Y++ LP+ + + ++ L + MG +FQ
Sbjct: 239 TTTDFAEFTLSNYKRIVKYKTAYYTYLLPLVMGLIVSEALPTVDMGVTEELAMLMGEYFQ 298
Query: 207 VQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
VQDD +DCF P+ GK+GTDI+D KCSWLAV L +A+ AQ + N
Sbjct: 299 VQDDVMDCFTPPERLGKVGTDIQDAKCSWLAVTFLAKASSAQVAEFKAN 347
>pdb|2EWG|A Chain A, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Minodronate
pdb|2EWG|B Chain B, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Minodronate
pdb|2I19|A Chain A, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate
pdb|2I19|B Chain B, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate
pdb|2OGD|A Chain A, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-527
pdb|2OGD|B Chain B, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-527
pdb|2P1C|A Chain A, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-210
pdb|2P1C|B Chain B, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-210
pdb|3DYF|A Chain A, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-461 And Isopentyl Diphosphate
pdb|3DYF|B Chain B, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-461 And Isopentyl Diphosphate
pdb|3DYG|A Chain A, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-461
pdb|3DYG|B Chain B, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-461
pdb|3DYH|A Chain A, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-721
pdb|3DYH|B Chain B, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-721
pdb|3EFQ|A Chain A, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-714
pdb|3EFQ|B Chain B, T. Brucei Farnesyl Diphosphate Synthase Complexed With
Bisphosphonate Bph-714
Length = 390
Score = 100 bits (248), Expect = 9e-22, Method: Compositional matrix adjust.
Identities = 47/109 (43%), Positives = 68/109 (62%)
Query: 147 TANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQ 206
T D ++FT+ Y+ IVKYKTA+Y++ LP+ + + ++ L + MG +FQ
Sbjct: 216 TTTDFAEFTLSNYKRIVKYKTAYYTYLLPLVMGLIVSEALPTVDMGVTEELAMLMGEYFQ 275
Query: 207 VQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRATPAQRKLMEVN 255
VQDD +DCF P+ GK+GTDI+D KCSWLAV L +A+ AQ + N
Sbjct: 276 VQDDVMDCFTPPERLGKVGTDIQDAKCSWLAVTFLAKASSAQVAEFKAN 324
>pdb|4E1E|A Chain A, Crystal Structure Of Trypanosome Cruzi Farnesyl
Diphosphate Synthase In Complex With
[2-(n-hexylamino)ethane-1,1-diyl]bisphosphonic Acid And
Mg2+
Length = 361
Score = 97.1 bits (240), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 54/139 (38%), Positives = 78/139 (56%), Gaps = 17/139 (12%)
Query: 133 VSLKTSMGQSLDLST---------------ANDLSKFTMDRYEAIVKYKTAFYSFQLPVA 177
V T++GQ D+++ D ++FT Y+ IVKYKT FY++ LP+
Sbjct: 158 VDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLV 217
Query: 178 LAMHMA-GMQDVEVHRQARTLLLEMGHFFQVQDDYLDCFGTPDVTGKIGTDIEDGKCSWL 236
+ + ++ VE++ R L +G +FQVQDD +DCF P+ GK+GTDIED KCSWL
Sbjct: 218 MGLFVSEAAASVEMNLVERVAHL-IGEYFQVQDDVMDCFTPPEQLGKVGTDIEDAKCSWL 276
Query: 237 AVVALQRATPAQRKLMEVN 255
AV L +A AQ + N
Sbjct: 277 AVTFLGKANAAQVAEFKAN 295
>pdb|4DZW|A Chain A, Crystal Structure Of Trypanosome Cruzi Farnesyl
Diphosphate Synthase In Complex With
[2-(cyclohexylamino)ethane-1,1-diyl]bisphosphonic Acid
And Mg2+
Length = 362
Score = 97.1 bits (240), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 54/139 (38%), Positives = 78/139 (56%), Gaps = 17/139 (12%)
Query: 133 VSLKTSMGQSLDLST---------------ANDLSKFTMDRYEAIVKYKTAFYSFQLPVA 177
V T++GQ D+++ D ++FT Y+ IVKYKT FY++ LP+
Sbjct: 159 VDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLV 218
Query: 178 LAMHMA-GMQDVEVHRQARTLLLEMGHFFQVQDDYLDCFGTPDVTGKIGTDIEDGKCSWL 236
+ + ++ VE++ R L +G +FQVQDD +DCF P+ GK+GTDIED KCSWL
Sbjct: 219 MGLFVSEAAASVEMNLVERVAHL-IGEYFQVQDDVMDCFTPPEQLGKVGTDIEDAKCSWL 277
Query: 237 AVVALQRATPAQRKLMEVN 255
AV L +A AQ + N
Sbjct: 278 AVTFLGKANAAQVAEFKAN 296
>pdb|1YHK|A Chain A, Trypanosoma Cruzi Farnesyl Diphosphate Synthase
pdb|1YHL|A Chain A, Structure Of The Complex Of Trypanosoma Cruzi Farnesyl
Diphosphate Synthase With Risedronate, Dmapp And Mg+2
pdb|3IBA|A Chain A, Crystal Structure Of The Complex Of Trypanosoma Cruzi
Farnesyl Diphosphate Synthase With Zoledronate, Ipp And
Mg2+
pdb|3ICK|A Chain A, Trypanosoma Cruzi Farnesyl Diphosphate Synthase Homodimer
In Complex With Minodronate And Isopentenyl Disphosphate
pdb|3ICM|A Chain A, Trypanosoma Cruzi Farnesyl Diphosphate Synthase Homodimer
In Complex With Isopentenyl Pyrophosphate, Mg2+ And
1-(2-
Hydroxy-2,2-Bis-Phosphono-Ethyl)-3-Phenyl-Pyridinium
pdb|3ICN|A Chain A, Trypanosoma Cruzi Farnesyl Diphosphate Synthase Homodimer
In Complex With Isopentenyl Pyrophosphate And
3-Fluoro-1-(2-
Hydroxy-2,2-Bis-Phosphono-Ethyl)-Pyridinium
pdb|3ICZ|A Chain A, Trypanosoma Cruzi Farnesyl Diphosphate Synthase Homodimer
In Complex With
1-(2,2-Bis-Phosphono-Ethyl)-3-Butyl-Pyridinium And
Isopentenyl Pyrophosphate
pdb|3ID0|A Chain A, Trypanosoma Cruzi Farnesyl Diphosphate Synthase Homodimer
In Complex With
3-Fluoro-1-(2-Hydroxy-2,2-Bisphosphono-Ethyl) Pyridinium
pdb|4DWB|A Chain A, Crystal Structure Of Trypanosoma Cruzi Farnesyl
Diphosphate Synthase In Complex With
[2-(n-pentylamino)ethane-1,1-diyl]bisphosphonic Acid And
Mg2+
pdb|4DWG|A Chain A, Crystal Structure Of Trypanosome Cruzi Farnesyl
Diphosphate Synthase In Complex With
[2-(n-heptylamino)ethane-1,1-diyl]bisphosphonic Acid And
Mg2+
pdb|4DXJ|A Chain A, Crystal Structure Of Trypanosome Cruzi Farnesyl
Diphosphate Synthase In Complex With
[2-(n-propylamino)ethane-1,1-diyl]bisphosphonic Acid And
Mg2+
pdb|4DXJ|B Chain B, Crystal Structure Of Trypanosome Cruzi Farnesyl
Diphosphate Synthase In Complex With
[2-(n-propylamino)ethane-1,1-diyl]bisphosphonic Acid And
Mg2+
pdb|4DXJ|C Chain C, Crystal Structure Of Trypanosome Cruzi Farnesyl
Diphosphate Synthase In Complex With
[2-(n-propylamino)ethane-1,1-diyl]bisphosphonic Acid And
Mg2+
Length = 362
Score = 97.1 bits (240), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 54/139 (38%), Positives = 78/139 (56%), Gaps = 17/139 (12%)
Query: 133 VSLKTSMGQSLDLST---------------ANDLSKFTMDRYEAIVKYKTAFYSFQLPVA 177
V T++GQ D+++ D ++FT Y+ IVKYKT FY++ LP+
Sbjct: 159 VDYATAVGQMYDVTSMCDSNKLDPEVAQPMTTDFAEFTPAIYKRIVKYKTTFYTYLLPLV 218
Query: 178 LAMHMA-GMQDVEVHRQARTLLLEMGHFFQVQDDYLDCFGTPDVTGKIGTDIEDGKCSWL 236
+ + ++ VE++ R L +G +FQVQDD +DCF P+ GK+GTDIED KCSWL
Sbjct: 219 MGLFVSEAAASVEMNLVERVAHL-IGEYFQVQDDVMDCFTPPEQLGKVGTDIEDAKCSWL 277
Query: 237 AVVALQRATPAQRKLMEVN 255
AV L +A AQ + N
Sbjct: 278 AVTFLGKANAAQVAEFKAN 296
>pdb|1YHM|A Chain A, Structure Of The Complex Of Trypanosoma Cruzi Farnesyl
Disphosphate Synthase With Alendronate, Isopentenyl
Diphosphate And Mg+2
pdb|1YHM|B Chain B, Structure Of The Complex Of Trypanosoma Cruzi Farnesyl
Disphosphate Synthase With Alendronate, Isopentenyl
Diphosphate And Mg+2
pdb|1YHM|C Chain C, Structure Of The Complex Of Trypanosoma Cruzi Farnesyl
Disphosphate Synthase With Alendronate, Isopentenyl
Diphosphate And Mg+2
Length = 362
Score = 95.1 bits (235), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 54/139 (38%), Positives = 75/139 (53%), Gaps = 17/139 (12%)
Query: 133 VSLKTSMGQSLDLST---------------ANDLSKFTMDRYEAIVKYKTAFYSFQLPVA 177
V T++GQ D+++ D ++FT Y+ IVKYKT FY++ LP+
Sbjct: 159 VDYATAVGQXYDVTSXCDSNKLDPEVAQPXTTDFAEFTPAIYKRIVKYKTTFYTYLLPLV 218
Query: 178 LAMHMA-GMQDVEVHRQARTLLLEMGHFFQVQDDYLDCFGTPDVTGKIGTDIEDGKCSWL 236
+ ++ VE + R L +G +FQVQDD DCF P+ GK+GTDIED KCSWL
Sbjct: 219 XGLFVSEAAASVEXNLVERVAHL-IGEYFQVQDDVXDCFTPPEQLGKVGTDIEDAKCSWL 277
Query: 237 AVVALQRATPAQRKLMEVN 255
AV L +A AQ + N
Sbjct: 278 AVTFLGKANAAQVAEFKAN 296
>pdb|3MAV|A Chain A, Crystal Structure Of Plasmodium Vivax Putative Farnesyl
Pyrophosphate Synthase (Pv092040)
pdb|3MAV|B Chain B, Crystal Structure Of Plasmodium Vivax Putative Farnesyl
Pyrophosphate Synthase (Pv092040)
pdb|3MAV|C Chain C, Crystal Structure Of Plasmodium Vivax Putative Farnesyl
Pyrophosphate Synthase (Pv092040)
pdb|3MAV|D Chain D, Crystal Structure Of Plasmodium Vivax Putative Farnesyl
Pyrophosphate Synthase (Pv092040)
Length = 395
Score = 79.0 bits (193), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 35/87 (40%), Positives = 56/87 (64%), Gaps = 1/87 (1%)
Query: 150 DLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQ-DVEVHRQARTLLLEMGHFFQVQ 208
D++ Y+ IV +KTA+YSF LP+ M +AG+ D ++++ + + MG +FQ+
Sbjct: 226 DINMINFGVYKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYFQIH 285
Query: 209 DDYLDCFGTPDVTGKIGTDIEDGKCSW 235
DDYLD FG TGK+G+DI++ K +W
Sbjct: 286 DDYLDIFGDSTKTGKVGSDIQNNKLTW 312
Score = 35.4 bits (80), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 86 VLQYNVPSGKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEIV 133
+ YN GK NRG+ +++ Y+ + + ++ A L WC+EI+
Sbjct: 71 LFDYNCLGGKNNRGILVILIYEYV-KNRDINSSEWEKAACLAWCIEIL 117
>pdb|3CC9|A Chain A, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3CC9|B Chain B, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3CC9|C Chain C, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3CC9|D Chain D, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3EZ3|A Chain A, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3EZ3|B Chain B, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3EZ3|C Chain C, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3EZ3|D Chain D, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3LDW|A Chain A, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3LDW|B Chain B, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3LDW|C Chain C, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3LDW|D Chain D, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Pvx_092040 With
Zoledronate And Ipp Bound
pdb|3PH7|A Chain A, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3PH7|B Chain B, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3PH7|C Chain C, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3PH7|D Chain D, Crystal Structure Of Plasmodium Vivax Putative Polyprenyl
Pyrophosphate Synthase In Complex With Geranylgeranyl
Diphosphate
pdb|3RBM|A Chain A, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Complexed With Bph
-703
pdb|3RBM|B Chain B, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Complexed With Bph
-703
pdb|3RBM|C Chain C, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Complexed With Bph
-703
pdb|3RBM|D Chain D, Crystal Structure Of Plasmodium Vivax
Geranylgeranylpyrophosphate Synthase Complexed With Bph
-703
pdb|3RYW|A Chain A, Crystal Structure Of P. Vivax Geranylgeranyl Diphosphate
Synthase Complexed With Bph-811
pdb|3RYW|B Chain B, Crystal Structure Of P. Vivax Geranylgeranyl Diphosphate
Synthase Complexed With Bph-811
pdb|3RYW|C Chain C, Crystal Structure Of P. Vivax Geranylgeranyl Diphosphate
Synthase Complexed With Bph-811
pdb|3RYW|D Chain D, Crystal Structure Of P. Vivax Geranylgeranyl Diphosphate
Synthase Complexed With Bph-811
Length = 396
Score = 78.6 bits (192), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 35/87 (40%), Positives = 56/87 (64%), Gaps = 1/87 (1%)
Query: 150 DLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQ-DVEVHRQARTLLLEMGHFFQVQ 208
D++ Y+ IV +KTA+YSF LP+ M +AG+ D ++++ + + MG +FQ+
Sbjct: 227 DINMINFGVYKNIVIHKTAYYSFFLPIVCGMLLAGIAVDNLIYKKIEDISMLMGEYFQIH 286
Query: 209 DDYLDCFGTPDVTGKIGTDIEDGKCSW 235
DDYLD FG TGK+G+DI++ K +W
Sbjct: 287 DDYLDIFGDSTKTGKVGSDIQNNKLTW 313
Score = 35.4 bits (80), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 86 VLQYNVPSGKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEIV 133
+ YN GK NRG+ +++ Y+ + + ++ A L WC+EI+
Sbjct: 72 LFDYNCLGGKNNRGILVILIYEYV-KNRDINSSEWEKAACLAWCIEIL 118
>pdb|3LK5|A Chain A, Crystal Structure Of Putative Geranylgeranyl Pyrophosphate
Synthase From Corynebacterium Glutamicum
pdb|3QQV|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Corynebacterium Glutamicum Complexed With Isoprenyl
Diphosphate And Magnesium
Length = 380
Score = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 42/113 (37%), Positives = 61/113 (53%), Gaps = 17/113 (15%)
Query: 140 GQSLDL---STANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQART 196
GQ LD+ S AN+ +++ +++ ++KTA Y+ P+ L +AG Q
Sbjct: 190 GQLLDIYLESHANE----SVELADSVNRFKTAAYTIARPLHLGASIAGGSP-----QLID 240
Query: 197 LLLEMGH----FFQVQDDYLDCFGTPDVTGK-IGTDIEDGKCSWLAVVALQRA 244
LL GH FQ++DD L FG P +TGK G DI +GK + L +ALQRA
Sbjct: 241 ALLHYGHDIGIAFQLRDDLLGVFGDPAITGKPAGDDIREGKRTVLLALALQRA 293
>pdb|1RTR|A Chain A, Crystal Structure Of S. Aureus Farnesyl Pyrophosphate
Synthase
pdb|1RTR|B Chain B, Crystal Structure Of S. Aureus Farnesyl Pyrophosphate
Synthase
Length = 301
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 40/144 (27%), Positives = 69/144 (47%), Gaps = 14/144 (9%)
Query: 102 LVVAYKMLAQPSELTPE-NLHLAQILGWCVEIVSLKTSM--GQSLDLSTANDLSKFTMDR 158
L A+++++ LT E + + Q L I S M GQ LD+ + ++
Sbjct: 116 LTKAFELISSDDRLTDEVKIKVLQRLS----IASGHVGMVGGQMLDMQSEG--QPIDLET 169
Query: 159 YEAIVKYKT-AFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQVQDDYLDCFGT 217
E I K KT A +F V A +A + D + +G FQ++DD LDC+G
Sbjct: 170 LEMIHKTKTGALLTF--AVMSAADIANVDDT-TKEHLESYSYHLGMMFQIKDDLLDCYGD 226
Query: 218 PDVTG-KIGTDIEDGKCSWLAVVA 240
G K+G+D+E+ K ++++++
Sbjct: 227 EAKLGKKVGSDLENNKSTYVSLLG 250
>pdb|2O1O|A Chain A, Cryptosporidium Parvum Putative Polyprenyl Pyrophosphate
Synthase (Cgd4_2550) In Complex With Risedronate.
pdb|2O1O|B Chain B, Cryptosporidium Parvum Putative Polyprenyl Pyrophosphate
Synthase (Cgd4_2550) In Complex With Risedronate.
pdb|2Q58|A Chain A, Cryptosporidium Parvum Putative Polyprenyl Pyrophosphate
Synthase (Cgd4_2550) In Complex With Zoledronate
pdb|2Q58|B Chain B, Cryptosporidium Parvum Putative Polyprenyl Pyrophosphate
Synthase (Cgd4_2550) In Complex With Zoledronate
Length = 368
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 44/77 (57%), Gaps = 4/77 (5%)
Query: 137 TSMGQSLDLSTANDLSKF--TMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQ- 193
T +GQ LDLS DLSK +RY ++V+ KT+ Y+F +PV + ++ +Q
Sbjct: 180 TVLGQHLDLSYF-DLSKADKISERYFSMVEMKTSRYTFYMPVFFGLTLSEIQVSSAQLNL 238
Query: 194 ARTLLLEMGHFFQVQDD 210
+L ++G F+QV +D
Sbjct: 239 IEAILYKLGEFYQVHND 255
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 82 FIVQVLQYNVPSGKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEIV 133
+ + + YNV GK RG LV+ + + S + ++++L LGW VE +
Sbjct: 59 YYLNCIDYNVKKGKHIRGKILVLISSLSSAYSNIKRDSIYL---LGWVVEAI 107
>pdb|2FOR|A Chain A, Crystal Structure Of The Shigella Flexneri Farnesyl
Pyrophosphate Synthase Complex With An Isopentenyl
Pyrophosphate
pdb|2FOR|B Chain B, Crystal Structure Of The Shigella Flexneri Farnesyl
Pyrophosphate Synthase Complex With An Isopentenyl
Pyrophosphate
Length = 323
Score = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 56/119 (47%), Gaps = 12/119 (10%)
Query: 140 GQSLDLSTANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLL- 198
GQ+LDL +D E I ++KT + A+ + + + R+A +L
Sbjct: 181 GQALDLDAEG--KHVPLDALERIHRHKTGAL-----IRAAVRLGALSAGDKGRRALPVLD 233
Query: 199 ---LEMGHFFQVQDDYLDCFGTPDVTGKI-GTDIEDGKCSWLAVVALQRATPAQRKLME 253
+G FQVQDD LD G GK G D + GK ++ A++ L++A R L++
Sbjct: 234 KYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQARKKARDLID 292
>pdb|1RQJ|A Chain A, Active Conformation Of Farnesyl Pyrophosphate Synthase
Bound To Isopentyl Pyrophosphate And Risedronate
pdb|1RQJ|B Chain B, Active Conformation Of Farnesyl Pyrophosphate Synthase
Bound To Isopentyl Pyrophosphate And Risedronate
Length = 299
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 57/119 (47%), Gaps = 12/119 (10%)
Query: 140 GQSLDLSTANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLL 199
GQ+LDL +D E I ++KT + A+ + + + R+A +L
Sbjct: 157 GQALDLDAEG--KHVPLDALERIHRHKTGAL-----IRAAVRLGALSAGDKGRRALPVLD 209
Query: 200 E----MGHFFQVQDDYLDCFGTPDVTGKI-GTDIEDGKCSWLAVVALQRATPAQRKLME 253
+ +G FQVQDD LD G GK G D + GK ++ A++ L++A R L++
Sbjct: 210 KYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQARKKARDLID 268
>pdb|1RQI|A Chain A, Active Conformation Of Farnesyl Pyrophosphate Synthase
Bound To Isopentyl Pyrophosphate And Dimethylallyl S-
Thiolodiphosphate
pdb|1RQI|B Chain B, Active Conformation Of Farnesyl Pyrophosphate Synthase
Bound To Isopentyl Pyrophosphate And Dimethylallyl S-
Thiolodiphosphate
Length = 300
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 57/119 (47%), Gaps = 12/119 (10%)
Query: 140 GQSLDLSTANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLL 199
GQ+LDL +D E I ++KT + A+ + + + R+A +L
Sbjct: 158 GQALDLDAEG--KHVPLDALERIHRHKTGAL-----IRAAVRLGALSAGDKGRRALPVLD 210
Query: 200 E----MGHFFQVQDDYLDCFGTPDVTGKI-GTDIEDGKCSWLAVVALQRATPAQRKLME 253
+ +G FQVQDD LD G GK G D + GK ++ A++ L++A R L++
Sbjct: 211 KYAESIGLAFQVQDDILDVVGDTATLGKRQGADQQLGKSTYPALLGLEQARKKARDLID 269
>pdb|3Q1O|A Chain A, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori Complexed With Magnesium And Isoprenyl
Diphosphate
pdb|3Q1O|B Chain B, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori Complexed With Magnesium And Isoprenyl
Diphosphate
pdb|3Q1O|C Chain C, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori Complexed With Magnesium And Isoprenyl
Diphosphate
pdb|3Q1O|D Chain D, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori Complexed With Magnesium And Isoprenyl
Diphosphate
Length = 310
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 31/108 (28%), Positives = 58/108 (53%), Gaps = 6/108 (5%)
Query: 139 MGQSLDLSTANDLSKFTMDRYEAIVKYKTA-FYSFQLPVALAMHMAGMQDVEVHRQARTL 197
+GQ+LD N + +++ + ++KTA S L + L +G++D E+ + +
Sbjct: 170 LGQALDCYFEN--TPLNLEQLTFLHEHKTAKLISASLIMGLVA--SGIKDEELFKWLQAF 225
Query: 198 LLEMGHFFQVQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRAT 245
L+MG FQV DD +D + +GK T ++ K S++ ++ L+RA
Sbjct: 226 GLKMGLCFQVLDDIIDVTQDEEESGKT-THLDSAKNSFVNLLGLERAN 272
>pdb|3LLW|A Chain A, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori 26695
pdb|3LLW|B Chain B, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori 26695
pdb|3LLW|C Chain C, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori 26695
pdb|3LLW|D Chain D, Crystal Structure Of Geranyltransferase From Helicobacter
Pylori 26695
Length = 311
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 31/108 (28%), Positives = 58/108 (53%), Gaps = 6/108 (5%)
Query: 139 MGQSLDLSTANDLSKFTMDRYEAIVKYKTA-FYSFQLPVALAMHMAGMQDVEVHRQARTL 197
+GQ+LD N + +++ + ++KTA S L + L +G++D E+ + +
Sbjct: 163 LGQALDCYFEN--TPLNLEQLTFLHEHKTAKLISASLIMGLVA--SGIKDEELFKWLQAF 218
Query: 198 LLEMGHFFQVQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRAT 245
L+MG FQV DD +D + +GK T ++ K S++ ++ L+RA
Sbjct: 219 GLKMGLCFQVLDDIIDVTQDEEESGKT-THLDSAKNSFVNLLGLERAN 265
>pdb|3OYR|A Chain A, Crystal Structure Of Polyprenyl Synthase From Caulobacter
Crescentus Cb15 Complexed With Calcium And Isoprenyl
Diphosphate
pdb|3OYR|B Chain B, Crystal Structure Of Polyprenyl Synthase From Caulobacter
Crescentus Cb15 Complexed With Calcium And Isoprenyl
Diphosphate
Length = 345
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 62/251 (24%), Positives = 104/251 (41%), Gaps = 19/251 (7%)
Query: 17 DPPLAATNTVLSKDESRDFMAIFPDLVRDLTDAGRHSDIPDVTKWYAKVLQYNKAISNNV 76
+ +A N +++ D + +AI P L L AG P +T A++ + +
Sbjct: 32 EADMAGVNRLIT-DRMQSDVAIIPALAEHLIAAGGKRLRPLMTVAAARLAGADNDHFQKL 90
Query: 77 YLGTYFI--VQVLQYNVPSGKKNRGLALVVAYKMLAQPSELTPENLHLAQILGWCVEIVS 134
FI +L +V G + R V A+ + + + A+ VE S
Sbjct: 91 AAAVEFIHTATLLHDDVVDGSQLR-RGKVAAHLIWGGAQSVLVGDFLFARAFELMVETNS 149
Query: 135 LKT-----------SMGQSLDLSTANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMA 183
+K + G+ L L ++DL+ + Y I++ KTA A A+ A
Sbjct: 150 MKALEILARASRVIAEGEVLQLMRSHDLN-LSQAVYLEIIQAKTAELFAAASEAGAVS-A 207
Query: 184 GMQDVEVHRQARTLLLEMGHFFQVQDDYLDCFGTPDVTGK-IGTDIEDGKCSWLAVVALQ 242
G+ DV R L +G FQ+ DD LD G + GK G D +GK + ++A+
Sbjct: 208 GV-DVAKSEALRDYGLNLGLAFQLADDALDYGGATETLGKNAGDDFREGKATLPLLLAIA 266
Query: 243 RATPAQRKLME 253
R+ P + + E
Sbjct: 267 RSGPREAEFWE 277
>pdb|1WMW|A Chain A, Crystal Structure Of Geranulgeranyl Diphosphate Synthase
From Thermus Thermophilus
pdb|1WMW|B Chain B, Crystal Structure Of Geranulgeranyl Diphosphate Synthase
From Thermus Thermophilus
pdb|1WMW|C Chain C, Crystal Structure Of Geranulgeranyl Diphosphate Synthase
From Thermus Thermophilus
pdb|1WMW|D Chain D, Crystal Structure Of Geranulgeranyl Diphosphate Synthase
From Thermus Thermophilus
Length = 330
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 54/117 (46%), Gaps = 5/117 (4%)
Query: 131 EIVSLKTSMGQSLDL-STANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVE 189
E+V +T+ GQ LDL T + Y +V +K A+Y+ P+ L +AG
Sbjct: 137 EVVR-RTAYGQHLDLLWTLGGTFDLRPEDYFRMVAHKAAYYTAVAPLRLGALLAGKTPPA 195
Query: 190 VHRQARTLLLEMGHFFQVQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQRATP 246
+ + L +G FQ+ DD L+ G + D+ +GK + + + L+ A P
Sbjct: 196 AYEEGG---LRLGTAFQIVDDVLNLEGGEAYGKERAGDLYEGKRTLILLRFLEEAPP 249
>pdb|3P8R|A Chain A, Crystal Structure Of Polyprenyl Synthase From Vibrio
Cholerae
Length = 302
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 32/107 (29%), Positives = 51/107 (47%), Gaps = 4/107 (3%)
Query: 139 MGQSLDLSTANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLL 198
+GQ+LDL+ N L +++ E I + KT + + L AG + +
Sbjct: 162 LGQALDLAAENRL--ISLEELETIHRNKTGAL-MRCAIRLGALAAGEKGRAMLPHLDRYA 218
Query: 199 LEMGHFFQVQDDYLDCFGTPDVTGK-IGTDIEDGKCSWLAVVALQRA 244
+G FQVQDD LD + GK G+D E K ++ A++ L+ A
Sbjct: 219 EAVGLAFQVQDDILDIISDTETLGKPQGSDQELNKSTYPALLGLEGA 265
>pdb|3RMG|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Bacteroides Thetaiotaomicron
pdb|3RMG|B Chain B, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Bacteroides Thetaiotaomicron
Length = 334
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 37/124 (29%), Positives = 60/124 (48%), Gaps = 11/124 (8%)
Query: 131 EIVSLKTSMGQSL------DLSTANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHM-A 183
EI+ L +S+GQ L LS ++ S F+ + Y +++ KTA A A+ +
Sbjct: 133 EIIRLVSSLGQKLAEGELLQLSNVSNHS-FSEEVYFDVIRKKTAALFAACAEAAALSVQV 191
Query: 184 GMQDVEVHRQARTLLLEMGHFFQVQDDYLDCFGTPDVTGKIGTDIEDGKCSWLAVVALQR 243
G ++V AR L +G FQ++DD D F + + G D+ +GK + A+ AL
Sbjct: 192 GEEEVAF---ARLLGEYIGICFQIKDDIFDYFDSKKIGKPTGNDMLEGKLTLPALYALNT 248
Query: 244 ATPA 247
A
Sbjct: 249 TKDA 252
>pdb|3LMD|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Corynebacterium Glutamicum Atcc 13032
pdb|3Q2Q|A Chain A, Crystal Structure Of Geranylgeranyl Pyrophosphate Synthase
From Corynebacterium Glutamicum Complexed With Calcium
And Isoprenyl Diphosphate
Length = 360
Score = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 42/177 (23%), Positives = 70/177 (39%), Gaps = 22/177 (12%)
Query: 87 LQYNVPSGKK--NRGLALVVAYKMLAQPSEL-----TPENLHLAQILGWCVEIVSLKTSM 139
++ VPS + +A++ +LA S L T H A+ G V
Sbjct: 123 MRRGVPSANARWDNSVAILAGDILLAHASGLMSQLGTDTVAHFAETFGELV--------T 174
Query: 140 GQSLDLSTANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQA-RTLL 198
GQ + D ++ Y +++ KT AMH + H A +
Sbjct: 175 GQMRETVGPRDTDP--IEHYTNVIREKTGVLIASAGYLGAMHAGAAPE---HIDALKNFG 229
Query: 199 LEMGHFFQVQDDYLDCFGTPDVTGKI-GTDIEDGKCSWLAVVALQRATPAQRKLMEV 254
+G FQ+ DD +D F +GK GTD+ +G + + AL+ TP +L ++
Sbjct: 230 AAVGMIFQIVDDIIDIFSETHESGKTPGTDLREGVFTLPVLYALREDTPVGAELRDI 286
>pdb|3LOM|A Chain A, Crystal Structure Of Geranyltransferase From Legionella
Pneumophila
pdb|3LOM|B Chain B, Crystal Structure Of Geranyltransferase From Legionella
Pneumophila
Length = 313
Score = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 30/87 (34%), Positives = 40/87 (45%), Gaps = 8/87 (9%)
Query: 140 GQSLDLSTANDLSKFTMDRYEAIVKYKTA---FYSFQLPVALAMHMAGMQDVEVHRQART 196
GQSLDLS S T ++ I KT F++ +A A H Q + RT
Sbjct: 163 GQSLDLSELAK-SSVTEEQLREIHLLKTGKLILACFEMVLA-AQHEVSEQ---IKSALRT 217
Query: 197 LLLEMGHFFQVQDDYLDCFGTPDVTGK 223
+G FQ+QDDYLD + + GK
Sbjct: 218 YGKHIGLVFQMQDDYLDLYAPTQILGK 244
>pdb|2Q80|A Chain A, Crystal Structure Of Human Geranylgeranyl Pyrophosphate
Synthase Bound To Ggpp
pdb|2Q80|B Chain B, Crystal Structure Of Human Geranylgeranyl Pyrophosphate
Synthase Bound To Ggpp
pdb|2Q80|C Chain C, Crystal Structure Of Human Geranylgeranyl Pyrophosphate
Synthase Bound To Ggpp
pdb|2Q80|D Chain D, Crystal Structure Of Human Geranylgeranyl Pyrophosphate
Synthase Bound To Ggpp
pdb|2Q80|E Chain E, Crystal Structure Of Human Geranylgeranyl Pyrophosphate
Synthase Bound To Ggpp
pdb|2Q80|F Chain F, Crystal Structure Of Human Geranylgeranyl Pyrophosphate
Synthase Bound To Ggpp
Length = 301
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 30/108 (27%), Positives = 51/108 (47%), Gaps = 7/108 (6%)
Query: 135 LKTSMGQSLDLSTANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQA 194
L+ GQ LD+ ++ + T + Y+A+V KT F L V L + ++
Sbjct: 121 LELHQGQGLDIYWRDNYTCPTEEEYKAMVLQKTGGL-FGLAVGLMQLFSDYKE-----DL 174
Query: 195 RTLLLEMGHFFQVQDDYLDCFGTPDVTGK-IGTDIEDGKCSWLAVVAL 241
+ LL +G FFQ++DDY + K D+ +GK S+ + A+
Sbjct: 175 KPLLNTLGLFFQIRDDYANLHSKEYSENKSFCEDLTEGKFSFPTIHAI 222
>pdb|3M0G|A Chain A, Crystal Structure Of Putative Farnesyl Diphosphate
Synthase From Rhodobacter Capsulatus
pdb|3M0G|B Chain B, Crystal Structure Of Putative Farnesyl Diphosphate
Synthase From Rhodobacter Capsulatus
Length = 297
Score = 34.3 bits (77), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 47/107 (43%), Gaps = 8/107 (7%)
Query: 140 GQSLDLSTANDLSKFTMDRYEAIVKYKT-AFYSFQLPVALAMHMAGMQDVEVHRQARTLL 198
GQ+LD++ T+D + KT A SF + A + + A
Sbjct: 152 GQALDIAAETAAVPLTLDEIIRLQAGKTGALISFAAQAGAILAGADRGPLTAYATA---- 207
Query: 199 LEMGHFFQVQDDYLDCFGTPDVTGK-IGTDIEDGKCSWLAVVALQRA 244
+G FQ+ DD LD G + GK +G D E K ++++++ L A
Sbjct: 208 --LGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKATFVSLLGLAGA 252
>pdb|3LVS|A Chain A, Crystal Structure Of Farnesyl Diphosphate Synthase From
Rhodobacter Capsulatus Sb1003
pdb|3LVS|B Chain B, Crystal Structure Of Farnesyl Diphosphate Synthase From
Rhodobacter Capsulatus Sb1003
Length = 298
Score = 33.9 bits (76), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 47/107 (43%), Gaps = 8/107 (7%)
Query: 140 GQSLDLSTANDLSKFTMDRYEAIVKYKT-AFYSFQLPVALAMHMAGMQDVEVHRQARTLL 198
GQ+LD++ T+D + KT A SF + A + + A
Sbjct: 153 GQALDIAAETAAVPLTLDEIIRLQAGKTGALISFAAQAGAILAGADRGPLTAYATA---- 208
Query: 199 LEMGHFFQVQDDYLDCFGTPDVTGK-IGTDIEDGKCSWLAVVALQRA 244
+G FQ+ DD LD G + GK +G D E K ++++++ L A
Sbjct: 209 --LGLAFQIADDILDVEGNEEAAGKRLGKDAEAHKATFVSLLGLAGA 253
>pdb|4DHD|A Chain A, Crystal Structure Of Isoprenoid Synthase A3msh1 (Target
Efi-501992) From Pyrobaculum Calidifontis
pdb|4GP1|A Chain A, Crystal Structure Of Isoprenoid Synthase A3msh1 (Target
Efi-501992) From Pyrobaculum Calidifontis Complexed With
Dmapp
pdb|4GP2|A Chain A, Crystal Structure Of Isoprenoid Synthase A3msh1 (Target
Efi-501992) From Pyrobaculum Calidifontis Complexed With
Dmapp And Magnesium
pdb|4GP2|B Chain B, Crystal Structure Of Isoprenoid Synthase A3msh1 (Target
Efi-501992) From Pyrobaculum Calidifontis Complexed With
Dmapp And Magnesium
Length = 358
Score = 33.9 bits (76), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 21/56 (37%), Positives = 31/56 (55%), Gaps = 3/56 (5%)
Query: 202 GHFFQVQDDYLDCFGTPDVTGK-IGTDIEDGK--CSWLAVVALQRATPAQRKLMEV 254
G FQ+ DD LD +G P GK IG DI++ K + +AV +R+L+E+
Sbjct: 218 GVAFQIIDDVLDIYGDPKKFGKEIGKDIKEHKRGNAVVAVALSHLGEGERRRLLEI 273
>pdb|3MZV|A Chain A, Crystal Structure Of A Decaprenyl Diphosphate Synthase
From Rhodobacter Capsulatus
pdb|3MZV|B Chain B, Crystal Structure Of A Decaprenyl Diphosphate Synthase
From Rhodobacter Capsulatus
Length = 341
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 56/250 (22%), Positives = 105/250 (42%), Gaps = 30/250 (12%)
Query: 20 LAATNTVLSKDESRDFMAIFPDLVRDLTDAGRHSDIPDVTKWYAKVLQYNKAISNNVYLG 79
+AA N ++ + S + P++ L +AG P +T A+++ Y ++
Sbjct: 22 MAAVNALIRERMSSEHAPRIPEVTAHLIEAGGKRLRPMLTLAAARLVGYGGPFHVHLAAT 81
Query: 80 TYFI-VQVLQYN--VPSGKKNRGL-----------ALVVAYKMLAQPSELTPE--NLHLA 123
FI L ++ V ++ RG +++V + A+ +L + N+ +
Sbjct: 82 VEFIHTATLLHDDVVDESRQRRGRPTANLLWDNKSSVLVGDYLFARSFQLMTDTGNMRVM 141
Query: 124 QILGWCVEIVSLKTSMGQSLDLSTANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMA 183
+IL +++ G+ L L+ A +L+ T D Y +++ KTA + A +
Sbjct: 142 EILANASAVIA----EGEVLQLTAAQNLAT-TEDIYLRVIRGKTAAL-----FSAATEVG 191
Query: 184 GMQDVEVHRQARTLLL---EMGHFFQVQDDYLDCFGTPDVTGK-IGTDIEDGKCSWLAVV 239
G+ Q + L +G FQ+ DD LD G GK G D + K + +
Sbjct: 192 GIIGGAPEDQVQALFDYGDALGIAFQIVDDLLDYGGKSAEIGKNTGDDFRERKLTMPVIK 251
Query: 240 ALQRATPAQR 249
A+ A A+R
Sbjct: 252 AVALADEAER 261
>pdb|4F62|A Chain A, Crystal Structure Of A Putative Farnesyl-Diphosphate
Synthase From Marinomonas Sp. Med121 (Target Efi-501980)
pdb|4F62|B Chain B, Crystal Structure Of A Putative Farnesyl-Diphosphate
Synthase From Marinomonas Sp. Med121 (Target Efi-501980)
Length = 317
Score = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 39/156 (25%), Positives = 67/156 (42%), Gaps = 17/156 (10%)
Query: 105 AYKMLAQPSELTPENLHLAQILGWCVEIVSLKTSM--GQSLDLSTANDLSKFTMDRYEAI 162
A+++L+ P+ PE LA L + + S + M GQ +DLS+ N ++ E +
Sbjct: 122 AFELLSNPTSAQPE---LAIKLIQELVVASGRNGMITGQMIDLSSEN--KNISLAELEQM 176
Query: 163 VKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHF----FQVQDDYLDCFGTP 218
+KT + ++ M + +V + L H FQVQDD +D
Sbjct: 177 HVHKTGAL-----IKASVRMGALSTGQVKPEQLAKLDAYAHAIGLAFQVQDDIIDLTSDT 231
Query: 219 DVTGKIG-TDIEDGKCSWLAVVALQRATPAQRKLME 253
+ GK +D E K ++ ++ L A +L E
Sbjct: 232 ETLGKTQFSDAEANKATYPKLLGLDGAKALVVRLHE 267
>pdb|3NPK|A Chain A, The Crystal Structure Of Geranyltranstransferase From
Campylobacter Jejuni
pdb|3NPK|B Chain B, The Crystal Structure Of Geranyltranstransferase From
Campylobacter Jejuni
Length = 291
Score = 30.4 bits (67), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 29/119 (24%), Positives = 59/119 (49%), Gaps = 15/119 (12%)
Query: 139 MGQSLDLSTANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHR----QA 194
+GQ++D + + +++ E + +KTA +A A+ G + E++ Q
Sbjct: 149 IGQAIDCFFED--KRLSLNELEFLHTHKTARL-----IAAAL-KXGCEICELNNEESNQI 200
Query: 195 RTLLLEMGHFFQVQDDYLDCFGTPDVTGK-IGTDIEDGKCSWLAVVALQRATPAQRKLM 252
L L++G FQ+ DD +D + + +GK DI K S++ ++ L++A + L+
Sbjct: 201 YKLGLKLGLIFQINDDIIDVTTSQEQSGKPTNNDIH--KNSFVNLLGLEQAIKTKENLL 257
>pdb|3AQ0|A Chain A, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|B Chain B, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|C Chain C, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|D Chain D, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|E Chain E, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|F Chain F, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|G Chain G, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
pdb|3AQ0|H Chain H, Ligand-Bound Form Of Arabidopsis MediumLONG-Chain Length
Prenyl Pyrophosphate Synthase (Surface Polar Residue
Mutant)
Length = 348
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 47/93 (50%), Gaps = 4/93 (4%)
Query: 140 GQSLDLSTANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLL 199
G+++++ T++ ++++MD Y YKTA A+A+ + G Q EV A
Sbjct: 168 GETMEI-TSSTAARYSMDYYMQKTYYKTASLISNSCKAVAV-LTG-QTAEVAVLAFEYGR 224
Query: 200 EMGHFFQVQDDYLDCFGTPDVTGKIG-TDIEDG 231
+G FQ+ DD LD GT GK +DI G
Sbjct: 225 NLGLAFQLIDDILDFTGTSASLGKGSLSDIRHG 257
>pdb|3APZ|A Chain A, Apo Form Of Arabidopsis MediumLONG-Chain Length Prenyl
Pyrophosphate Synthase
pdb|3APZ|B Chain B, Apo Form Of Arabidopsis MediumLONG-Chain Length Prenyl
Pyrophosphate Synthase
Length = 348
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 29/93 (31%), Positives = 47/93 (50%), Gaps = 4/93 (4%)
Query: 140 GQSLDLSTANDLSKFTMDRYEAIVKYKTAFYSFQLPVALAMHMAGMQDVEVHRQARTLLL 199
G++++++++ + +++MD Y YKTA A+A+ + G Q EV A
Sbjct: 168 GETMEITSSTE-QRYSMDYYMQKTYYKTASLISNSCKAVAV-LTG-QTAEVAVLAFEYGR 224
Query: 200 EMGHFFQVQDDYLDCFGTPDVTGKIG-TDIEDG 231
+G FQ+ DD LD GT GK +DI G
Sbjct: 225 NLGLAFQLIDDILDFTGTSASLGKGSLSDIRHG 257
>pdb|3UCA|A Chain A, Crystal Structure Of Isoprenoid Synthase (Target
Efi-501974) From Clostridium Perfringens
pdb|3UCA|B Chain B, Crystal Structure Of Isoprenoid Synthase (Target
Efi-501974) From Clostridium Perfringens
Length = 324
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 24/46 (52%), Gaps = 1/46 (2%)
Query: 200 EMGHFFQVQDDYLDCFGTPDVTGK-IGTDIEDGKCSWLAVVALQRA 244
++G FQ++DD LD G GK + D E K +++ + L+
Sbjct: 242 KLGLAFQIKDDILDVVGNAKDLGKNVHKDQESNKNNYITIFGLEEC 287
>pdb|4FP4|A Chain A, Crystal Structure Of Isoprenoid Synthase A3mx09 (Target
Efi-501993) From Pyrobaculum Calidifontis
pdb|4FP4|B Chain B, Crystal Structure Of Isoprenoid Synthase A3mx09 (Target
Efi-501993) From Pyrobaculum Calidifontis
Length = 285
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 29/103 (28%), Positives = 47/103 (45%), Gaps = 17/103 (16%)
Query: 115 LTPENLHLAQILGWCVEI----VSLKTSMGQSLDLSTANDLSKFTMDRYEAIVKYKTAFY 170
L E++ +A LG V V+ + S+GQ+LDL D + ++KTA
Sbjct: 119 LIAESIKMAVNLGADVVTYLADVAQRLSVGQALDLEGERDKA----------AEFKTAPL 168
Query: 171 SFQLPVALAMHMAGMQDVEVHRQARTLLLEMGHFFQVQDDYLD 213
+ AL M + + E+ A+ L ++G +Q DDY D
Sbjct: 169 ---IEAALVMPLVILGRRELIETAKKLGTKLGILYQYSDDYSD 208
>pdb|3NF2|A Chain A, Crystal Structure Of Polyprenyl Synthetase From
Streptomyces Coelicolor A3(2)
Length = 352
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/23 (52%), Positives = 14/23 (60%)
Query: 201 MGHFFQVQDDYLDCFGTPDVTGK 223
+G FQ DD L +G PD TGK
Sbjct: 216 LGLAFQAVDDLLGIWGDPDATGK 238
>pdb|3P41|A Chain A, Crystal Structure Of Polyprenyl Synthetase From
Pseudomonas Fluorescens Pf-5 Complexed With Magnesium
And Isoprenyl Pyrophosphate
Length = 303
Score = 27.7 bits (60), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 201 MGHFFQVQDDYLDCFGTPDVTGKI-GTDIEDGKCSWLAVVALQRA 244
+G FQVQDD LD GK G DI K ++ A++ L A
Sbjct: 222 IGLAFQVQDDILDVESDTATLGKRQGADIARDKPTYPALLGLAAA 266
>pdb|3LJI|A Chain A, Crystal Structure Of Putative Geranyltranstransferase From
Pseudomonas Fluorescens Pf-5
pdb|3LSN|A Chain A, Crystal Structure Of Putative Geranyltranstransferase From
Pseudomonas Fluorescens Pf-5 Complexed With Magnesium
Length = 304
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 201 MGHFFQVQDDYLDCFGTPDVTGKI-GTDIEDGKCSWLAVVALQRA 244
+G FQVQDD LD GK G DI K ++ A++ L A
Sbjct: 215 IGLAFQVQDDILDVESDTATLGKRQGADIARDKPTYPALLGLAAA 259
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.320 0.133 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,102,800
Number of Sequences: 62578
Number of extensions: 274330
Number of successful extensions: 629
Number of sequences better than 100.0: 52
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 548
Number of HSP's gapped (non-prelim): 67
length of query: 255
length of database: 14,973,337
effective HSP length: 97
effective length of query: 158
effective length of database: 8,903,271
effective search space: 1406716818
effective search space used: 1406716818
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 50 (23.9 bits)