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= 017611
(368 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1F75|A Chain A, Crystal Structure Of Undecaprenyl Diphosphate Synthase
From Micrococcus Luteus B-P 26
pdb|1F75|B Chain B, Crystal Structure Of Undecaprenyl Diphosphate Synthase
From Micrococcus Luteus B-P 26
Length = 249
Score = 78.2 bits (191), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 49/143 (34%), Positives = 71/143 (49%), Gaps = 3/143 (2%)
Query: 39 IPHHFAFIMDGNRRYAKKLNVEEGAGHKEGFSSLISVLKYCYELGVKYVTIYAFSIDNFQ 98
IP H A IMDGN R+AK+ + GH EG ++ + +Y +LGVKY+T+YAFS +N+
Sbjct: 20 IPKHIAIIMDGNGRWAKQKKMPRIKGHYEGMQTVRKITRYASDLGVKYLTLYAFSTENWS 79
Query: 99 RKPAEVQNXXXXXXXXXXXXXXXQSIVNLYGIRVYFIGNLKFLSEPVRVAAEEVMMATAR 158
R EV N + I ++V IG + L + + A E T
Sbjct: 80 RPKDEV-NYLMKLPGDFLNTFLPELIEK--NVKVETIGFIDDLPDHTKKAVLEAKEKTKH 136
Query: 159 NSKVVLLVCLAYTSADEIVHAVQ 181
N+ + L+ L Y EI+ AVQ
Sbjct: 137 NTGLTLVFALNYGGRKEIISAVQ 159
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 35/62 (56%)
Query: 297 KHMYMAVAPDPDILMRSSGETRLSNFLLWQTSNCLLDSPAALWPEIGLWHLVWAVLKFQR 356
++++ A PDP++L+R+SGE RLSNFL+WQ S WP+ L + +Q
Sbjct: 182 EYLFTANMPDPELLIRTSGEERLSNFLIWQCSYSEFVFIDEFWPDFNEESLAQCISIYQN 241
Query: 357 NH 358
H
Sbjct: 242 RH 243
>pdb|4H8E|A Chain A, Structure Of S. Aureus Undecaprenyl Diphosphate Synthase
In Complex With Fpp And Sulfate
Length = 256
Score = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 50/168 (29%), Positives = 79/168 (47%), Gaps = 5/168 (2%)
Query: 39 IPHHFAFIMDGNRRYAKKLNVEEGAGHKEGFSSLISVLKYCYELGVKYVTIYAFSIDNFQ 98
IP H A IMDGN R+AKK + GH EG ++ + + ++GVKY+T+YAFS +N+
Sbjct: 24 IPEHIAIIMDGNGRWAKKRKMPRIKGHYEGMQTIKKITRIASDIGVKYLTLYAFSTENWS 83
Query: 99 RKPAEVQNXXXXXXXXXXXXXXXQSIVNLYGIRVYFIGNLKFLSEPVRVAAEEVMMATAR 158
R +EV N + I ++V IG L + A TA
Sbjct: 84 RPESEV-NYIMNLPVNFLKTFLPELIEK--NVKVETIGFTDKLPKSTIEAINNAKEKTAN 140
Query: 159 NSKVVLLVCLAYTSADEIVHAVQESFKNKSDESLAVNANQVSNGVING 206
N+ + L+ + Y E+VH+++ F + L N++ + IN
Sbjct: 141 NTGLKLIFAINYGGRAELVHSIKNMFDELHQQGL--NSDIIDETYINN 186
Score = 55.1 bits (131), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 29/79 (36%), Positives = 45/79 (56%), Gaps = 3/79 (3%)
Query: 280 FEE--KQG-NNPIINLVDVEKHMYMAVAPDPDILMRSSGETRLSNFLLWQTSNCLLDSPA 336
F+E +QG N+ II+ + H+ PDP++L+R+SGE R+SNFL+WQ S
Sbjct: 166 FDELHQQGLNSDIIDETYINNHLMTKDYPDPELLIRTSGEQRISNFLIWQVSYSEFIFNQ 225
Query: 337 ALWPEIGLWHLVWAVLKFQ 355
LWP+ L+ + +Q
Sbjct: 226 KLWPDFDEDELIKCIKIYQ 244
>pdb|2VG2|A Chain A, Rv2361 With Ipp
pdb|2VG2|B Chain B, Rv2361 With Ipp
pdb|2VG2|C Chain C, Rv2361 With Ipp
pdb|2VG2|D Chain D, Rv2361 With Ipp
pdb|2VG4|A Chain A, Rv2361 Native
pdb|2VG4|B Chain B, Rv2361 Native
pdb|2VG4|C Chain C, Rv2361 Native
pdb|2VG4|D Chain D, Rv2361 Native
pdb|2VG3|A Chain A, Rv2361 With Citronellyl Pyrophosphate
pdb|2VG3|B Chain B, Rv2361 With Citronellyl Pyrophosphate
pdb|2VG3|C Chain C, Rv2361 With Citronellyl Pyrophosphate
pdb|2VG3|D Chain D, Rv2361 With Citronellyl Pyrophosphate
Length = 284
Score = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 43/146 (29%), Positives = 73/146 (50%), Gaps = 7/146 (4%)
Query: 39 IPHHFAFIMDGNRRYAKKLNVEEGAGHKEGFSSLISVLKYCYELGVKYVTIYAFSIDNFQ 98
+P+H A +MDGN R+A + + GHK G + +I + ELG+K++++YAFS +N++
Sbjct: 55 LPNHVAIVMDGNGRWATQRGLARTEGHKMGEAVVIDIACGAIELGIKWLSLYAFSTENWK 114
Query: 99 RKPAEVQNXXXXXXXXXXXXXXXQSIVNLYGIRVYFIGNLKFLSEPV--RVAAEEVMMAT 156
R P EV+ + + G+R+ ++G+ L V +A E M T
Sbjct: 115 RSPEEVR---FLMGFNRDVVRRRRDTLKKLGVRIRWVGSRPRLWRSVINELAVAEEM--T 169
Query: 157 ARNSKVVLLVCLAYTSADEIVHAVQE 182
N + + C+ Y EI A +E
Sbjct: 170 KSNDVITINYCVNYGGRTEITEATRE 195
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 18/47 (38%), Positives = 27/47 (57%)
Query: 295 VEKHMYMAVAPDPDILMRSSGETRLSNFLLWQTSNCLLDSPAALWPE 341
+ +H+ PD D+ +R+SGE R SNF+LWQ + LWP+
Sbjct: 215 IARHLQRPDIPDVDLFLRTSGEQRSSNFMLWQAAYAEYIFQDKLWPD 261
>pdb|2VFW|A Chain A, Rv1086 Native
pdb|2VFW|B Chain B, Rv1086 Native
pdb|2VG0|A Chain A, Rv1086 Citronelly Pyrophosphate Complex
pdb|2VG0|B Chain B, Rv1086 Citronelly Pyrophosphate Complex
Length = 227
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 45/187 (24%), Positives = 82/187 (43%), Gaps = 21/187 (11%)
Query: 39 IPHHFAFIMDGNRRYAKKLNVEE-GAGHKEGFSSLISVLKYCYELGVKYVTIYAFSIDNF 97
+P H A + DGNRR+A+ ++ G++ G + + +L++C+E G++ T+Y S +N
Sbjct: 2 LPRHIAVLCDGNRRWARSAGYDDVSYGYRMGAAKIAEMLRWCHEAGIELATVYLLSTENL 61
Query: 98 QRKPAEVQNXXXXXXXXXXXXXXXQSIVNLYGIRVYFIGNLKFLSEPVRVAAEEVMMATA 157
QR P E+ + N + +R +G+L + E + +T
Sbjct: 62 QRDPDELAALIEIITDVVEEIC---APANHWSVRT--VGDLGLIGEEPARRLRGAVESTP 116
Query: 158 RNSKVVLLVCLAYTSADEIVHAVQESFKNKSDESLAVNANQVSNGVINGAEKVEKIYSLT 217
+ + V + Y EIV AV+ +S + NGA E + ++T
Sbjct: 117 EVASFHVNVAVGYGGRREIVDAVR---------------ALLSKELANGATAEELVDAVT 161
Query: 218 VPSIEES 224
V I E+
Sbjct: 162 VEGISEN 168
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 34/117 (29%), Positives = 56/117 (47%), Gaps = 11/117 (9%)
Query: 227 EKASRVCNGAIERVKGTEDINGATVCTDGVSCDYKSEAQALRAGRIGNGVTEGFEEKQGN 286
E+ +R GA+E + G + +AL + + NG T
Sbjct: 102 EEPARRLRGAVESTPEVASFHVNVAVGYGGRREIVDAVRALLSKELANGAT--------A 153
Query: 287 NPIINLVDVE---KHMYMAVAPDPDILMRSSGETRLSNFLLWQTSNCLLDSPAALWP 340
+++ V VE +++Y + PDPD+++R+SGE RLS FLLWQ++ + A WP
Sbjct: 154 EELVDAVTVEGISENLYTSGQPDPDLVIRTSGEQRLSGFLLWQSAYSEMWFTEAHWP 210
>pdb|2VG1|A Chain A, Rv1086 E,E-Farnesyl Diphosphate Complex
pdb|2VG1|B Chain B, Rv1086 E,E-Farnesyl Diphosphate Complex
Length = 228
Score = 60.8 bits (146), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 45/187 (24%), Positives = 82/187 (43%), Gaps = 21/187 (11%)
Query: 39 IPHHFAFIMDGNRRYAKKLNVEE-GAGHKEGFSSLISVLKYCYELGVKYVTIYAFSIDNF 97
+P H A + DGNRR+A+ ++ G++ G + + +L++C+E G++ T+Y S +N
Sbjct: 3 LPRHIAVLCDGNRRWARSAGYDDVSYGYRMGAAKIAEMLRWCHEAGIELATVYLLSTENL 62
Query: 98 QRKPAEVQNXXXXXXXXXXXXXXXQSIVNLYGIRVYFIGNLKFLSEPVRVAAEEVMMATA 157
QR P E+ + N + +R +G+L + E + +T
Sbjct: 63 QRDPDELAALIEIITDVVEEIC---APANHWSVRT--VGDLGLIGEEPARRLRGAVESTP 117
Query: 158 RNSKVVLLVCLAYTSADEIVHAVQESFKNKSDESLAVNANQVSNGVINGAEKVEKIYSLT 217
+ + V + Y EIV AV+ +S + NGA E + ++T
Sbjct: 118 EVASFHVNVAVGYGGRREIVDAVR---------------ALLSKELANGATAEELVDAVT 162
Query: 218 VPSIEES 224
V I E+
Sbjct: 163 VEGISEN 169
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 34/117 (29%), Positives = 56/117 (47%), Gaps = 11/117 (9%)
Query: 227 EKASRVCNGAIERVKGTEDINGATVCTDGVSCDYKSEAQALRAGRIGNGVTEGFEEKQGN 286
E+ +R GA+E + G + +AL + + NG T
Sbjct: 103 EEPARRLRGAVESTPEVASFHVNVAVGYGGRREIVDAVRALLSKELANGAT--------A 154
Query: 287 NPIINLVDVE---KHMYMAVAPDPDILMRSSGETRLSNFLLWQTSNCLLDSPAALWP 340
+++ V VE +++Y + PDPD+++R+SGE RLS FLLWQ++ + A WP
Sbjct: 155 EELVDAVTVEGISENLYTSGQPDPDLVIRTSGEQRLSGFLLWQSAYSEMWFTEAHWP 211
>pdb|2D2R|A Chain A, Crystal Structure Of Helicobacter Pylori Undecaprenyl
Pyrophosphate Synthase
pdb|2D2R|B Chain B, Crystal Structure Of Helicobacter Pylori Undecaprenyl
Pyrophosphate Synthase
pdb|2DTN|A Chain A, Crystal Structure Of Helicobacter Pylori Undecaprenyl
Pyrophosphate Synthase Complexed With Pyrophosphate
pdb|2DTN|B Chain B, Crystal Structure Of Helicobacter Pylori Undecaprenyl
Pyrophosphate Synthase Complexed With Pyrophosphate
Length = 245
Score = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 40/140 (28%), Positives = 65/140 (46%), Gaps = 3/140 (2%)
Query: 42 HFAFIMDGNRRYAKKLNVEEGAGHKEGFSSLISVLKYCYELGVKYVTIYAFSIDNFQRKP 101
H A IMDGN R+AK N GHK+G +L + +C ++ +T+YAFS +N++R
Sbjct: 18 HLAIIMDGNGRWAKLKNKARAYGHKKGVKTLKDITIWCANHKLECLTLYAFSTENWKRPK 77
Query: 102 AEVQNXXXXXXXXXXXXXXXQSIVNLYGIRVYFIGNLKFLSEPVRVAAEEVMMATARNSK 161
+EV +S IR IG+L+ S+ +R ++ T
Sbjct: 78 SEVD---FLMKMLKKYLKDERSTYLDNNIRFRAIGDLEGFSKELRDTILQLENDTRHFKD 134
Query: 162 VVLLVCLAYTSADEIVHAVQ 181
++ L Y S +E+ A +
Sbjct: 135 FTQVLALNYGSKNELSRAFK 154
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 20/38 (52%), Positives = 26/38 (68%)
Query: 305 PDPDILMRSSGETRLSNFLLWQTSNCLLDSPAALWPEI 342
P+ D+L+R+ GE RLSNFLLWQ+S L LWP+
Sbjct: 184 PEVDLLLRTGGEMRLSNFLLWQSSYAELFFTPILWPDF 221
>pdb|3UGS|B Chain B, Crystal Structure Of A Probable Undecaprenyl Diphosphate
Synthase (Upps) From Campylobacter Jejuni
pdb|3UGS|A Chain A, Crystal Structure Of A Probable Undecaprenyl Diphosphate
Synthase (Upps) From Campylobacter Jejuni
Length = 225
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 74/159 (46%), Gaps = 6/159 (3%)
Query: 42 HFAFIMDGNRRYAKKLNVEEGAGHKEGFSSLISVLKYCYELGVKYVTIYAFSIDNFQRKP 101
H A +MDGNRR+A+ G+ +G ++ +++ C E + ++++AFS +N++R
Sbjct: 9 HLAVVMDGNRRWARAKGFLAKLGYSQGVKTMQKLMEVCMEENISNLSLFAFSTENWKRPK 68
Query: 102 AEVQNXXXXXXXXXXXXXXXQSIVNLYGIRVYFIGNLKFLSEPVRVAAEEVMMATARNSK 161
E+ N +R+ IG+L L + VR V T
Sbjct: 69 DEIDFIFELLDRCLDEALEKFEKNN---VRLRAIGDLSRLEDKVREKITLVEEKTKHCDA 125
Query: 162 VVLLVCLAYTSADEIVHAVQESFKNK---SDESLAVNAN 197
+ + + ++Y + DEI+ A + + K ++E+L N +
Sbjct: 126 LCVNLAISYGARDEIIRAAKRVIEKKLELNEENLTQNLD 164
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 306 DPDILMRSSGETRLSNFLLWQTSNCLLDSPAALWPEI 342
D D+++R RLSNFLLWQ S + L+P +
Sbjct: 168 DVDLMLRVGNAKRLSNFLLWQCSYAEIYFSETLFPSL 204
>pdb|1UEH|A Chain A, E. Coli Undecaprenyl Pyrophosphate Synthase In Complex
With Triton X- 100, Magnesium And Sulfate
pdb|1UEH|B Chain B, E. Coli Undecaprenyl Pyrophosphate Synthase In Complex
With Triton X- 100, Magnesium And Sulfate
pdb|1V7U|A Chain A, Crystal Structure Of Undecaprenyl Pyrophosphate Synthase
With Farnesyl Pyrophosphate
pdb|1V7U|B Chain B, Crystal Structure Of Undecaprenyl Pyrophosphate Synthase
With Farnesyl Pyrophosphate
pdb|1X06|A Chain A, Crystal Structure Of Undecaprenyl Pyrophosphate Synthase
In Complex With Mg, Ipp And Fspp
pdb|1X07|A Chain A, Crystal Structure Of Undecaprenyl Pyrophosphate Synthase
In Complex With Mg And Ipp
pdb|2E98|A Chain A, E. Coli Undecaprenyl Pyrophosphate Synthase In Complex
With Bph-629
pdb|2E98|B Chain B, E. Coli Undecaprenyl Pyrophosphate Synthase In Complex
With Bph-629
pdb|2E99|A Chain A, E. Coli Undecaprenyl Pyrophosphate Synthase In Complex
With Bph-608
pdb|2E99|B Chain B, E. Coli Undecaprenyl Pyrophosphate Synthase In Complex
With Bph-608
pdb|2E9A|A Chain A, E. Coli Undecaprenyl Pyrophosphate Synthase In Complex
With Bph-628
pdb|2E9A|B Chain B, E. Coli Undecaprenyl Pyrophosphate Synthase In Complex
With Bph-628
pdb|2E9C|A Chain A, E. Coli Undecaprenyl Pyrophosphate Synthase In Complex
With Bph-675
pdb|2E9C|B Chain B, E. Coli Undecaprenyl Pyrophosphate Synthase In Complex
With Bph-675
pdb|2E9D|A Chain A, E. Coli Undecaprenyl Pyrophosphate Synthase In Complex
With Bph-676
pdb|2E9D|B Chain B, E. Coli Undecaprenyl Pyrophosphate Synthase In Complex
With Bph-676
pdb|3QAS|B Chain B, Structure Of Undecaprenyl Diphosphate Synthase
pdb|3QAS|A Chain A, Structure Of Undecaprenyl Diphosphate Synthase
pdb|3TH8|A Chain A, Structure Of E. Coli Undecaprenyl Diphosphate Synthase
Complexed With Bph-1063
pdb|3TH8|B Chain B, Structure Of E. Coli Undecaprenyl Diphosphate Synthase
Complexed With Bph-1063
pdb|3SGT|B Chain B, Crystal Structure Of E. Coli Undecaprenyl Pyrophosphate
Synthase In Complex With Bph-1299
pdb|3SGT|A Chain A, Crystal Structure Of E. Coli Undecaprenyl Pyrophosphate
Synthase In Complex With Bph-1299
pdb|3SGV|B Chain B, Crystal Structure Of E. Coli Undecaprenyl Pyrophosphate
Synthase In Complex With Bph-1290
pdb|3SGV|A Chain A, Crystal Structure Of E. Coli Undecaprenyl Pyrophosphate
Synthase In Complex With Bph-1290
pdb|3SGX|A Chain A, Crystal Structure Of E. Coli Undecaprenyl Pyrophosphate
Synthase In Complex With Bph-1100
pdb|3SGX|B Chain B, Crystal Structure Of E. Coli Undecaprenyl Pyrophosphate
Synthase In Complex With Bph-1100
pdb|3SH0|B Chain B, Crystal Structure Of E. Coli Undecaprenyl Pyrophosphate
Synthase In Complex With Bph-1065
pdb|3SH0|A Chain A, Crystal Structure Of E. Coli Undecaprenyl Pyrophosphate
Synthase In Complex With Bph-1065
pdb|4H2J|A Chain A, Structure Of E. Coli Undecaprenyl Diphosphate Synthase In
Complex With Bph-1354
pdb|4H2J|B Chain B, Structure Of E. Coli Undecaprenyl Diphosphate Synthase In
Complex With Bph-1354
pdb|4H2M|A Chain A, Structure Of E. Coli Undecaprenyl Diphosphate Synthase In
Complex With Bph-1408
pdb|4H2M|B Chain B, Structure Of E. Coli Undecaprenyl Diphosphate Synthase In
Complex With Bph-1408
pdb|4H2O|B Chain B, Structure Of E. Coli Undecaprenyl Diphosphate Synthase In
Complex With Bph-1248
pdb|4H2O|A Chain A, Structure Of E. Coli Undecaprenyl Diphosphate Synthase In
Complex With Bph-1248
pdb|4H38|A Chain A, Structure Of E. Coli Undecaprenyl Diphosphate Synthase In
Complex With Bph-1297
pdb|4H38|B Chain B, Structure Of E. Coli Undecaprenyl Diphosphate Synthase In
Complex With Bph-1297
pdb|4H3A|A Chain A, Structure Of E. Coli Undecaprenyl Diphosphate Synthase In
Complex With Bph-1330
pdb|4H3A|B Chain B, Structure Of E. Coli Undecaprenyl Diphosphate Synthase In
Complex With Bph-1330
pdb|4H3C|A Chain A, Structure Of E. Coli Undecaprenyl Diphosphate Synthase In
Complex With Bph-987
pdb|4H3C|B Chain B, Structure Of E. Coli Undecaprenyl Diphosphate Synthase In
Complex With Bph-987
Length = 253
Score = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 63/141 (44%), Gaps = 3/141 (2%)
Query: 42 HFAFIMDGNRRYAKKLNVEEGAGHKEGFSSLISVLKYCYELGVKYVTIYAFSIDNFQRKP 101
H A IMDGN R+AKK GHK G S+ + + G++ +T+YAFS +N+ R
Sbjct: 20 HVAIIMDGNGRWAKKQGKIRAFGHKAGAKSVRRAVSFAANNGIEALTLYAFSSENWNRPA 79
Query: 102 AEVQNXXXXXXXXXXXXXXXQSIVNLYGIRVYFIGNLKFLSEPVRVAAEEVMMATARNSK 161
EV ++ + +R+ IG+ + ++ + TA N+
Sbjct: 80 QEVSALMELFVWALDSEVKS---LHRHNVRLRIIGDTSRFNSRLQERIRKSEALTAGNTG 136
Query: 162 VVLLVCLAYTSADEIVHAVQE 182
+ L + Y +IV V++
Sbjct: 137 LTLNIAANYGGRWDIVQGVRQ 157
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 37/119 (31%), Positives = 58/119 (48%), Gaps = 14/119 (11%)
Query: 230 SRVCNGAIERVKGTEDIN-GATVCTDGVSCDYKSEAQALRAGR--IGNGVTEGFEEKQGN 286
SR + ER++ +E + G T T ++ +Y GR I GV + E+ Q
Sbjct: 114 SRFNSRLQERIRKSEALTAGNTGLTLNIAANY--------GGRWDIVQGVRQLAEKVQQG 165
Query: 287 NPIINLVDVE---KHMYMAVAPDPDILMRSSGETRLSNFLLWQTSNCLLDSPAALWPEI 342
N + +D E +H+ M D+++R+ GE R+SNFLLWQ + L LWP+
Sbjct: 166 NLQPDQIDEEMLNQHVCMHELAPVDLVIRTGGEHRISNFLLWQIAYAELYFTDVLWPDF 224
>pdb|1JP3|A Chain A, Structure Of E.Coli Undecaprenyl Pyrophosphate Synthase
pdb|1JP3|B Chain B, Structure Of E.Coli Undecaprenyl Pyrophosphate Synthase
Length = 253
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 63/141 (44%), Gaps = 3/141 (2%)
Query: 42 HFAFIMDGNRRYAKKLNVEEGAGHKEGFSSLISVLKYCYELGVKYVTIYAFSIDNFQRKP 101
H A I DGN R+AKK GHK G S+ + + G++ +T+YAFS +N+ R
Sbjct: 20 HVAIIXDGNGRWAKKQGKIRAFGHKAGAKSVRRAVSFAANNGIEALTLYAFSSENWNRPA 79
Query: 102 AEVQNXXXXXXXXXXXXXXXQSIVNLYGIRVYFIGNLKFLSEPVRVAAEEVMMATARNSK 161
EV ++ + +R+ IG+ + ++ + TA N+
Sbjct: 80 QEVSALXELFVWALDSEVKS---LHRHNVRLRIIGDTSRFNSRLQERIRKSEALTAGNTG 136
Query: 162 VVLLVCLAYTSADEIVHAVQE 182
+ L + Y +IV V++
Sbjct: 137 LTLNIAANYGGRWDIVQGVRQ 157
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 36/119 (30%), Positives = 57/119 (47%), Gaps = 14/119 (11%)
Query: 230 SRVCNGAIERVKGTEDIN-GATVCTDGVSCDYKSEAQALRAGR--IGNGVTEGFEEKQGN 286
SR + ER++ +E + G T T ++ +Y GR I GV + E+ Q
Sbjct: 114 SRFNSRLQERIRKSEALTAGNTGLTLNIAANY--------GGRWDIVQGVRQLAEKVQQG 165
Query: 287 NPIINLVDVE---KHMYMAVAPDPDILMRSSGETRLSNFLLWQTSNCLLDSPAALWPEI 342
N + +D E +H+ D+++R+ GE R+SNFLLWQ + L LWP+
Sbjct: 166 NLQPDQIDEEXLNQHVCXHELAPVDLVIRTGGEHRISNFLLWQIAYAELYFTDVLWPDF 224
>pdb|1X08|A Chain A, Crystal Structure Of D26a Mutant Upps In Complex With Mg,
Ipp And Fspp
pdb|1X09|A Chain A, Crystal Structure Of The D26a Mutant Upps In Complex With
Magnesium And Isopentenyl Pyrophosphate
Length = 253
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 36/141 (25%), Positives = 62/141 (43%), Gaps = 3/141 (2%)
Query: 42 HFAFIMDGNRRYAKKLNVEEGAGHKEGFSSLISVLKYCYELGVKYVTIYAFSIDNFQRKP 101
H A IM GN R+AKK GHK G S+ + + G++ +T+YAFS +N+ R
Sbjct: 20 HVAIIMAGNGRWAKKQGKIRAFGHKAGAKSVRRAVSFAANNGIEALTLYAFSSENWNRPA 79
Query: 102 AEVQNXXXXXXXXXXXXXXXQSIVNLYGIRVYFIGNLKFLSEPVRVAAEEVMMATARNSK 161
EV ++ + +R+ IG+ + ++ + TA N+
Sbjct: 80 QEVSALMELFVWALDSEVKS---LHRHNVRLRIIGDTSRFNSRLQERIRKSEALTAGNTG 136
Query: 162 VVLLVCLAYTSADEIVHAVQE 182
+ L + Y +IV V++
Sbjct: 137 LTLNIAANYGGRWDIVQGVRQ 157
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 37/119 (31%), Positives = 58/119 (48%), Gaps = 14/119 (11%)
Query: 230 SRVCNGAIERVKGTEDIN-GATVCTDGVSCDYKSEAQALRAGR--IGNGVTEGFEEKQGN 286
SR + ER++ +E + G T T ++ +Y GR I GV + E+ Q
Sbjct: 114 SRFNSRLQERIRKSEALTAGNTGLTLNIAANY--------GGRWDIVQGVRQLAEKVQQG 165
Query: 287 NPIINLVDVE---KHMYMAVAPDPDILMRSSGETRLSNFLLWQTSNCLLDSPAALWPEI 342
N + +D E +H+ M D+++R+ GE R+SNFLLWQ + L LWP+
Sbjct: 166 NLQPDQIDEEMLNQHVCMHELAPVDLVIRTGGEHRISNFLLWQIAYAELYFTDVLWPDF 224
>pdb|2PVT|A Chain A, Crystal Structure Of A New Isoform Of Phospholipase A2
From Russells Viper At 2.1 A Resolution
Length = 121
Score = 28.9 bits (63), Expect = 4.3, Method: Composition-based stats.
Identities = 13/26 (50%), Positives = 16/26 (61%), Gaps = 1/26 (3%)
Query: 233 CNGAIERVKGTEDINGATVCTDGVSC 258
CN +R K + +NGA VC DG SC
Sbjct: 57 CNPKSDRYK-YKRVNGAIVCEDGTSC 81
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
0.319 0.134 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,844,238
Number of Sequences: 62578
Number of extensions: 383633
Number of successful extensions: 758
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 733
Number of HSP's gapped (non-prelim): 22
length of query: 368
length of database: 14,973,337
effective HSP length: 100
effective length of query: 268
effective length of database: 8,715,537
effective search space: 2335763916
effective search space used: 2335763916
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: 52 (24.6 bits)