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= 038167
(292 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 = 118 bits (296), Expect = 3e-27, Method: Compositional matrix adjust.
Identities = 75/255 (29%), Positives = 121/255 (47%), Gaps = 26/255 (10%)
Query: 28 LSVGVIPNHIAFILDGNRRFAKKHNLAGEGAGHRAGFLTLMSLLKYCAELSVKYVSIYAF 87
++ IP HIA I+DGN R+AK+ + GH G T+ + +Y ++L VKY+++YAF
Sbjct: 15 INAAQIPKHIAIIMDGNGRWAKQKKMP-RIKGHYEGMQTVRKITRYASDLGVKYLTLYAF 73
Query: 88 SIDNFKRTQNEIRYLMDLMLEKMEFLLREDGFLSKYGVRVCFIGNLGLVSEPIRVTAEKV 147
S +N+ R ++E+ YLM L + + L E L + V+V IG + + + + +
Sbjct: 74 STENWSRPKDEVNYLMKLPGDFLNTFLPE---LIEKNVKVETIGFIDDLPDHTKKAVLEA 130
Query: 148 MRATSKNTRIVILICLAYSSTEEIVHTVEETCLVTKKTQPQAFKPRNPQNDVTEDADEHK 207
T NT + ++ L Y +EI+ V Q R +++ D
Sbjct: 131 KEKTKHNTGLTLVFALNYGGRKEIISAV------------QLIAERYKSGEISLDE---- 174
Query: 208 NKEQNTIKLVDLEKHMYMGVYPNPDILIRTSGENRLSNFLLWQSSNCMLYSPAALWPEIG 267
I ++++ P+P++LIRTSGE RLSNFL+WQ S WP+
Sbjct: 175 ------ISETHFNEYLFTANMPDPELLIRTSGEERLSNFLIWQCSYSEFVFIDEFWPDFN 228
Query: 268 LRHLIWAILNFQRHH 282
L I +Q H
Sbjct: 229 EESLAQCISIYQNRH 243
>pdb|4H8E|A Chain A, Structure Of S. Aureus Undecaprenyl Diphosphate Synthase
In Complex With Fpp And Sulfate
Length = 256
Score = 116 bits (291), Expect = 1e-26, Method: Compositional matrix adjust.
Identities = 76/255 (29%), Positives = 123/255 (48%), Gaps = 32/255 (12%)
Query: 28 LSVGVIPNHIAFILDGNRRFAKKHNLAGEGAGHRAGFLTLMSLLKYCAELSVKYVSIYAF 87
L IP HIA I+DGN R+AKK + GH G T+ + + +++ VKY+++YAF
Sbjct: 19 LDSSNIPEHIAIIMDGNGRWAKKRKMP-RIKGHYEGMQTIKKITRIASDIGVKYLTLYAF 77
Query: 88 SIDNFKRTQNEIRYLMDLMLEKMEFLLREDGFLSKYGVRVCFIGNLGLVSEPIRVTAEKV 147
S +N+ R ++E+ Y+M+L + ++ L E L + V+V IG + + T E +
Sbjct: 78 STENWSRPESEVNYIMNLPVNFLKTFLPE---LIEKNVKVETIG---FTDKLPKSTIEAI 131
Query: 148 MRA---TSKNTRIVILICLAYSSTEEIVHTVEETCLVTKKTQPQAFKPRNPQNDVTEDAD 204
A T+ NT + ++ + Y E+VH+++ D
Sbjct: 132 NNAKEKTANNTGLKLIFAINYGGRAELVHSIKNMF----------------------DEL 169
Query: 205 EHKNKEQNTIKLVDLEKHMYMGVYPNPDILIRTSGENRLSNFLLWQSSNCMLYSPAALWP 264
+ + I + H+ YP+P++LIRTSGE R+SNFL+WQ S LWP
Sbjct: 170 HQQGLNSDIIDETYINNHLMTKDYPDPELLIRTSGEQRISNFLIWQVSYSEFIFNQKLWP 229
Query: 265 EIGLRHLIWAILNFQ 279
+ LI I +Q
Sbjct: 230 DFDEDELIKCIKIYQ 244
>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 = 105 bits (263), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 63/239 (26%), Positives = 116/239 (48%), Gaps = 25/239 (10%)
Query: 33 IPNHIAFILDGNRRFAKKHNLAGEGAGHRAGFLTLMSLLKYCAELSVKYVSIYAFSIDNF 92
+P HIA + DGNRR+A+ G+R G + +L++C E ++ ++Y S +N
Sbjct: 2 LPRHIAVLCDGNRRWARSAGYDDVSYGYRMGAAKIAEMLRWCHEAGIELATVYLLSTENL 61
Query: 93 KRTQNEIRYLMDLMLEKMEFLLREDGFLSKYGVRVCFIGNLGLVSEPIRVTAEKVMRATS 152
+R +E+ L++++ + +E + + + VR +G+LGL+ E + +T
Sbjct: 62 QRDPDELAALIEIITDVVEEIC---APANHWSVRT--VGDLGLIGEEPARRLRGAVESTP 116
Query: 153 KNTRIVILICLAYSSTEEIVHTVEETCLVTKKTQPQAFKPRNPQNDVTEDADEHKNKEQN 212
+ + + + Y EIV V +A + N T + + +
Sbjct: 117 EVASFHVNVAVGYGGRREIVDAV------------RALLSKELANGATAE------ELVD 158
Query: 213 TIKLVDLEKHMYMGVYPNPDILIRTSGENRLSNFLLWQSSNCMLYSPAALWPEIGLRHL 271
+ + + +++Y P+PD++IRTSGE RLS FLLWQS+ ++ A WP RH+
Sbjct: 159 AVTVEGISENLYTSGQPDPDLVIRTSGEQRLSGFLLWQSAYSEMWFTEAHWP--AFRHV 215
>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 = 105 bits (263), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 63/239 (26%), Positives = 116/239 (48%), Gaps = 25/239 (10%)
Query: 33 IPNHIAFILDGNRRFAKKHNLAGEGAGHRAGFLTLMSLLKYCAELSVKYVSIYAFSIDNF 92
+P HIA + DGNRR+A+ G+R G + +L++C E ++ ++Y S +N
Sbjct: 3 LPRHIAVLCDGNRRWARSAGYDDVSYGYRMGAAKIAEMLRWCHEAGIELATVYLLSTENL 62
Query: 93 KRTQNEIRYLMDLMLEKMEFLLREDGFLSKYGVRVCFIGNLGLVSEPIRVTAEKVMRATS 152
+R +E+ L++++ + +E + + + VR +G+LGL+ E + +T
Sbjct: 63 QRDPDELAALIEIITDVVEEIC---APANHWSVRT--VGDLGLIGEEPARRLRGAVESTP 117
Query: 153 KNTRIVILICLAYSSTEEIVHTVEETCLVTKKTQPQAFKPRNPQNDVTEDADEHKNKEQN 212
+ + + + Y EIV V +A + N T + + +
Sbjct: 118 EVASFHVNVAVGYGGRREIVDAV------------RALLSKELANGATAE------ELVD 159
Query: 213 TIKLVDLEKHMYMGVYPNPDILIRTSGENRLSNFLLWQSSNCMLYSPAALWPEIGLRHL 271
+ + + +++Y P+PD++IRTSGE RLS FLLWQS+ ++ A WP RH+
Sbjct: 160 AVTVEGISENLYTSGQPDPDLVIRTSGEQRLSGFLLWQSAYSEMWFTEAHWP--AFRHV 216
>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 = 103 bits (257), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 71/242 (29%), Positives = 110/242 (45%), Gaps = 27/242 (11%)
Query: 33 IPNHIAFILDGNRRFAKKHNLAGEGAGHRAGFLTLMSLLKYCAELSVKYVSIYAFSIDNF 92
+PNH+A ++DGN R+A + LA GH+ G ++ + EL +K++S+YAFS +N+
Sbjct: 55 LPNHVAIVMDGNGRWATQRGLA-RTEGHKMGEAVVIDIACGAIELGIKWLSLYAFSTENW 113
Query: 93 KRTQNEIRYLMDLMLEKMEFLLREDGFLSKYGVRVCFIGNLGLVSEPIRVTAEKVMRATS 152
KR+ E+R+LM + + L K GVR+ ++G+ + + T
Sbjct: 114 KRSPEEVRFLMGFNRDVVRRRRDT---LKKLGVRIRWVGSRPRLWRSVINELAVAEEMTK 170
Query: 153 KNTRIVILICLAYSSTEEIVHTVEETCLVTKKTQPQAFKPRNPQNDVTEDADEHKNKEQN 212
N I I C+ Y EI E E A N E+
Sbjct: 171 SNDVITINYCVNYGGRTEITEATREIA--------------------REVAAGRLNPER- 209
Query: 213 TIKLVDLEKHMYMGVYPNPDILIRTSGENRLSNFLLWQSSNCMLYSPAALWPEIGLRHLI 272
I + +H+ P+ D+ +RTSGE R SNF+LWQ++ LWP+ R L
Sbjct: 210 -ITESTIARHLQRPDIPDVDLFLRTSGEQRSSNFMLWQAAYAEYIFQDKLWPDYDRRDL- 267
Query: 273 WA 274
WA
Sbjct: 268 WA 269
>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 = 99.4 bits (246), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 66/231 (28%), Positives = 112/231 (48%), Gaps = 26/231 (11%)
Query: 36 HIAFILDGNRRFAKKHNLAGEGAGHRAGFLTLMSLLKYCAELSVKYVSIYAFSIDNFKRT 95
H+A I+DGN R+AKK GH+AG ++ + + A ++ +++YAFS +N+ R
Sbjct: 20 HVAIIMDGNGRWAKKQGKI-RAFGHKAGAKSVRRAVSFAANNGIEALTLYAFSSENWNRP 78
Query: 96 QNEIRYLMDLMLEKMEFLLREDGFLSKYGVRVCFIGNLGLVSEPIRVTAEKVMRATSKNT 155
E+ LM+L + ++ ++ L ++ VR+ IG+ + ++ K T+ NT
Sbjct: 79 AQEVSALMELFVWALDSEVKS---LHRHNVRLRIIGDTSRFNSRLQERIRKSEALTAGNT 135
Query: 156 RIVILICLAYSSTEEIVHTVEETCLVTKKTQPQAFKPRNPQNDVTEDADEHKNKEQNTIK 215
+ + I Y +IV V + + +K Q +P + DE
Sbjct: 136 GLTLNIAANYGGRWDIVQGVRQ---LAEKVQQGNLQP--------DQIDEEM-------- 176
Query: 216 LVDLEKHMYMGVYPNPDILIRTSGENRLSNFLLWQSSNCMLYSPAALWPEI 266
L +H+ M D++IRT GE+R+SNFLLWQ + LY LWP+
Sbjct: 177 ---LNQHVCMHELAPVDLVIRTGGEHRISNFLLWQIAYAELYFTDVLWPDF 224
>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 = 97.8 bits (242), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 77/247 (31%), Positives = 123/247 (49%), Gaps = 31/247 (12%)
Query: 36 HIAFILDGNRRFAKKHNLAGEGAGHRAGFLTLMSLLKYCAELSVKYVSIYAFSIDNFKRT 95
H+A I+DGN R+AK N A GH+ G TL + +CA ++ +++YAFS +N+KR
Sbjct: 18 HLAIIMDGNGRWAKLKNKA-RAYGHKKGVKTLKDITIWCANHKLECLTLYAFSTENWKRP 76
Query: 96 QNEIRYLMDLMLEKMEFLLREDGFLSKYGVRVCFIGNLGLVSEPIRVTAEKVMRATSKNT 155
++E+ +LM ML+K +L E +R IG+L S+ +R T ++ T
Sbjct: 77 KSEVDFLMK-MLKK--YLKDERSTYLDNNIRFRAIGDLEGFSKELRDTILQLENDTRHFK 133
Query: 156 RIVILICLAYSSTEEIVHTVEETCLVTKKTQPQAFKP--RNPQNDVTEDADEHKNKEQNT 213
++ L Y S E+ +AFK +P ++++ + +N+ N
Sbjct: 134 DFTQVLALNYGSKNEL---------------SRAFKSLLESPPSNISL-LESLENEISNR 177
Query: 214 IKLVDLEKHMYMGVYPNPDILIRTSGENRLSNFLLWQSSNCMLYSPAALWPEIGLRHLIW 273
+ +L P D+L+RT GE RLSNFLLWQSS L+ LWP+ + L
Sbjct: 178 LDTRNL---------PEVDLLLRTGGEMRLSNFLLWQSSYAELFFTPILWPDFTPKDLEN 228
Query: 274 AILNFQR 280
I +F +
Sbjct: 229 IISDFYK 235
>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 = 95.9 bits (237), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 65/231 (28%), Positives = 111/231 (48%), Gaps = 26/231 (11%)
Query: 36 HIAFILDGNRRFAKKHNLAGEGAGHRAGFLTLMSLLKYCAELSVKYVSIYAFSIDNFKRT 95
H+A I+ GN R+AKK GH+AG ++ + + A ++ +++YAFS +N+ R
Sbjct: 20 HVAIIMAGNGRWAKKQGKI-RAFGHKAGAKSVRRAVSFAANNGIEALTLYAFSSENWNRP 78
Query: 96 QNEIRYLMDLMLEKMEFLLREDGFLSKYGVRVCFIGNLGLVSEPIRVTAEKVMRATSKNT 155
E+ LM+L + ++ ++ L ++ VR+ IG+ + ++ K T+ NT
Sbjct: 79 AQEVSALMELFVWALDSEVKS---LHRHNVRLRIIGDTSRFNSRLQERIRKSEALTAGNT 135
Query: 156 RIVILICLAYSSTEEIVHTVEETCLVTKKTQPQAFKPRNPQNDVTEDADEHKNKEQNTIK 215
+ + I Y +IV V + + +K Q +P + DE
Sbjct: 136 GLTLNIAANYGGRWDIVQGVRQ---LAEKVQQGNLQP--------DQIDEEM-------- 176
Query: 216 LVDLEKHMYMGVYPNPDILIRTSGENRLSNFLLWQSSNCMLYSPAALWPEI 266
L +H+ M D++IRT GE+R+SNFLLWQ + LY LWP+
Sbjct: 177 ---LNQHVCMHELAPVDLVIRTGGEHRISNFLLWQIAYAELYFTDVLWPDF 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 = 94.0 bits (232), Expect = 9e-20, Method: Compositional matrix adjust.
Identities = 63/231 (27%), Positives = 108/231 (46%), Gaps = 26/231 (11%)
Query: 36 HIAFILDGNRRFAKKHNLAGEGAGHRAGFLTLMSLLKYCAELSVKYVSIYAFSIDNFKRT 95
H+A I DGN R+AKK GH+AG ++ + + A ++ +++YAFS +N+ R
Sbjct: 20 HVAIIXDGNGRWAKKQGKI-RAFGHKAGAKSVRRAVSFAANNGIEALTLYAFSSENWNRP 78
Query: 96 QNEIRYLMDLMLEKMEFLLREDGFLSKYGVRVCFIGNLGLVSEPIRVTAEKVMRATSKNT 155
E+ L +L + ++ ++ L ++ VR+ IG+ + ++ K T+ NT
Sbjct: 79 AQEVSALXELFVWALDSEVKS---LHRHNVRLRIIGDTSRFNSRLQERIRKSEALTAGNT 135
Query: 156 RIVILICLAYSSTEEIVHTVEETCLVTKKTQPQAFKPRNPQNDVTEDADEHKNKEQNTIK 215
+ + I Y +IV V + + +K Q +P + I
Sbjct: 136 GLTLNIAANYGGRWDIVQGVRQ---LAEKVQQGNLQP-------------------DQID 173
Query: 216 LVDLEKHMYMGVYPNPDILIRTSGENRLSNFLLWQSSNCMLYSPAALWPEI 266
L +H+ D++IRT GE+R+SNFLLWQ + LY LWP+
Sbjct: 174 EEXLNQHVCXHELAPVDLVIRTGGEHRISNFLLWQIAYAELYFTDVLWPDF 224
>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 = 86.7 bits (213), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 62/245 (25%), Positives = 116/245 (47%), Gaps = 37/245 (15%)
Query: 36 HIAFILDGNRRFAKKHNLAGEGAGHRAGFLTLMSLLKYCAELSVKYVSIYAFSIDNFKRT 95
H+A ++DGNRR+A+ + G+ G T+ L++ C E ++ +S++AFS +N+KR
Sbjct: 9 HLAVVMDGNRRWARAKGFLAK-LGYSQGVKTMQKLMEVCMEENISNLSLFAFSTENWKRP 67
Query: 96 QNEIRYLMDLMLEKMEFLLREDGFLSKYGVRVCFIGNLGLVSEPIRVTAEKVMRATSKNT 155
++EI ++ +L+ ++ L + K VR+ IG+L + + +R V T
Sbjct: 68 KDEIDFIFELLDRCLDEALEK---FEKNNVRLRAIGDLSRLEDKVREKITLVEEKTKHCD 124
Query: 156 RIVILICLAYSSTEEIVHTVEETCLVTKKTQPQAFKPRNPQNDVTEDADEHKNKEQNTIK 215
+ + + ++Y + +EI+ + ++ KK + E+N +
Sbjct: 125 ALCVNLAISYGARDEIIRAAKR--VIEKKLELN---------------------EENLTQ 161
Query: 216 LVDLEKHMYMGVYP-NPDILIRTSGENRLSNFLLWQSSNCMLYSPAALWPEIGLRHLIWA 274
+DL P + D+++R RLSNFLLWQ S +Y L+P + R
Sbjct: 162 NLDL---------PLDVDLMLRVGNAKRLSNFLLWQCSYAEIYFSETLFPSLTKREFKRI 212
Query: 275 ILNFQ 279
I F+
Sbjct: 213 IKEFR 217
>pdb|3EZU|A Chain A, Crystal Structure Of Multidomain Protein Of Unknown
Function With Ggdef-Domain (Np_951600.1) From Geobacter
Sulfurreducens At 1.95 A Resolution
Length = 342
Score = 32.3 bits (72), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 40/173 (23%), Positives = 70/173 (40%), Gaps = 17/173 (9%)
Query: 17 GVFMRKCVFGILSVGVIPNHIAFILDGNRRF--------AKKHNLAGEGAGHRAGFLTLM 68
G ++R+ + GI S G+ + + R A+ H A G RAGF +
Sbjct: 141 GRYLRRFIDGIGSCGLATAETELLGEALFRLWNEARQLAAQSHFDALTGVXTRAGFFKTV 200
Query: 69 SLLKYCAELSVKYVSIYAFSIDNFKRTQNEIRY-----LMDLMLEKMEFLLREDGFLSKY 123
L Y A+ S V I +D FK + + ++ L+ E + LR + +Y
Sbjct: 201 GSLAYAAQRSGSNVGIXLIDLDYFKLVGDNYGHQTGDRILQLVAETITSHLRRSDVVGRY 260
Query: 124 GVRVCFIGNLGLVSEP--IRVTAEKVMRATSKNTRIVILICLAYSSTEEIVHT 174
F+ L V EP +R AE + R+ + + + + + + I+ T
Sbjct: 261 DGDE-FVVYLSPV-EPASLRTVAENLRRSIEEESARXVPVTASIGVAQGILGT 311
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
0.323 0.137 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,371,807
Number of Sequences: 62578
Number of extensions: 328986
Number of successful extensions: 643
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 610
Number of HSP's gapped (non-prelim): 14
length of query: 292
length of database: 14,973,337
effective HSP length: 98
effective length of query: 194
effective length of database: 8,840,693
effective search space: 1715094442
effective search space used: 1715094442
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 51 (24.3 bits)