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= 002954
(863 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2WTX|A Chain A, Insight Into The Mechanism Of Enzymatic Glycosyltransfer
With Retention Through The Synthesis And Analysis Of
Bisubstrate Glycomimetics Of Trehalose-6-Phosphate
Synthase
pdb|2WTX|B Chain B, Insight Into The Mechanism Of Enzymatic Glycosyltransfer
With Retention Through The Synthesis And Analysis Of
Bisubstrate Glycomimetics Of Trehalose-6-Phosphate
Synthase
pdb|2WTX|C Chain C, Insight Into The Mechanism Of Enzymatic Glycosyltransfer
With Retention Through The Synthesis And Analysis Of
Bisubstrate Glycomimetics Of Trehalose-6-Phosphate
Synthase
pdb|2WTX|D Chain D, Insight Into The Mechanism Of Enzymatic Glycosyltransfer
With Retention Through The Synthesis And Analysis Of
Bisubstrate Glycomimetics Of Trehalose-6-Phosphate
Synthase
Length = 474
Score = 229 bits (583), Expect = 6e-60, Method: Compositional matrix adjust.
Identities = 157/508 (30%), Positives = 250/508 (49%), Gaps = 77/508 (15%)
Query: 60 RMIIVGNQL-PLRAHRSSDG------------SGGWTFSW-----DEDSLLLQLKDGLGE 101
R+++V N++ P H +S G +GG F W +ED L ++K G
Sbjct: 3 RLVVVSNRIAPPDEHAASAGGLAVGILGALKAAGGLWFGWSGETGNEDQPLKKVKKG--- 59
Query: 102 DVEVIYVGCIKEQIDLSEQDEVSQTLLETFKCVPAFIPPELFSKFYHGFCKQHLWPLFHY 161
+LSEQD ++Y+ F LWP FHY
Sbjct: 60 -------NITWASFNLSEQD---------------------LDEYYNQFSNAVLWPAFHY 91
Query: 162 MLPLSPDLGGRFDRSLWQAYVSVNKIFADKVMEVISPDDDFVWVHDYHLMVLPTFLRKRF 221
L L +F R W Y+ VN + ADK++ ++ DDD +W+HDYHL+ LRKR
Sbjct: 92 RLDLV-----QFQRPAWDGYLRVNALLADKLLPLLQ-DDDIIWIHDYHLLPFAHELRKRG 145
Query: 222 NRVKLGFFLHSPFPSSEIYRTLPIRDELLRALLNADLIGFHTFDYARHFLSCCSRMLGVS 281
++GFFLH PFP+ EI+ LP D LL L + DL+GF T + FL C S + V+
Sbjct: 146 VNNRIGFFLHIPFPTPEIFNALPTYDTLLEQLCDYDLLGFQTENDRLAFLDCLSNLTRVT 205
Query: 282 YQSKRGYIGLEYFGRTVSIKILPVGIHIGQL--QSVLNLPETEAKVAELQDQFKGQIVML 339
+S + + +G+ ++ P+GI ++ Q+ LP K+A+L+ + K +
Sbjct: 206 TRSAKSHTA---WGKAFRTEVYPIGIEPKEIAKQAAGPLP---PKLAQLKAELKNVQNIF 259
Query: 340 GVDDMDIFKGISLKLLAMEQLLSQNPSKRGKIVLVQIANPARGRGRDVQEVQSETHATVR 399
V+ +D KG+ + LA E LL + P GKI QIA +RG + Q+++ +
Sbjct: 260 SVERLDYSKGLPERFLAYEALLEKYPQHHGKIRYTQIAPTSRGDVQAYQDIRHQLENEAG 319
Query: 400 RINKIFGRPGYQPVVLIDTPLQFYERIAYYVIAECCLVTAVRDGMNLIPYEYIICRQGNE 459
RIN +G+ G+ P+ ++ + + ++ LVT +RDGMNL+ EY+ +
Sbjct: 320 RINGKYGQLGWTPLYYLNQHFDRKLLMKIFRYSDVGLVTPLRDGMNLVAKEYVAAQ---- 375
Query: 460 KLDMTLGLDPSTAKSSMLVVSEFVGCSPSLSGAIRVNPWNIDAVAEAMDSALGVSDAEKQ 519
DP A +LV+S+F G + L+ A+ VNP++ D VA A+D AL +S AE+
Sbjct: 376 --------DP--ANPGVLVLSQFAGAANELTSALIVNPYDRDEVAAALDRALTMSLAERI 425
Query: 520 MRHEKHYRYVSTHDVAYWARSFLQDLER 547
RH + + +D+ +W F+ DL++
Sbjct: 426 SRHAEMLDVIVKNDINHWQECFISDLKQ 453
>pdb|1UQU|A Chain A, Trehalose-6-Phosphate From E. Coli Bound With Udp-Glucose.
pdb|1UQU|B Chain B, Trehalose-6-Phosphate From E. Coli Bound With Udp-Glucose.
pdb|1UQT|A Chain A, Trehalose-6-Phosphate From E. Coli Bound With Udp-2-Fluoro
Glucose.
pdb|1UQT|B Chain B, Trehalose-6-Phosphate From E. Coli Bound With Udp-2-Fluoro
Glucose
Length = 482
Score = 229 bits (583), Expect = 6e-60, Method: Compositional matrix adjust.
Identities = 157/508 (30%), Positives = 250/508 (49%), Gaps = 77/508 (15%)
Query: 60 RMIIVGNQL-PLRAHRSSDG------------SGGWTFSW-----DEDSLLLQLKDGLGE 101
R+++V N++ P H +S G +GG F W +ED L ++K G
Sbjct: 3 RLVVVSNRIAPPDEHAASAGGLAVGILGALKAAGGLWFGWSGETGNEDQPLKKVKKG--- 59
Query: 102 DVEVIYVGCIKEQIDLSEQDEVSQTLLETFKCVPAFIPPELFSKFYHGFCKQHLWPLFHY 161
+LSEQD ++Y+ F LWP FHY
Sbjct: 60 -------NITWASFNLSEQD---------------------LDEYYNQFSNAVLWPAFHY 91
Query: 162 MLPLSPDLGGRFDRSLWQAYVSVNKIFADKVMEVISPDDDFVWVHDYHLMVLPTFLRKRF 221
L L +F R W Y+ VN + ADK++ ++ DDD +W+HDYHL+ LRKR
Sbjct: 92 RLDLV-----QFQRPAWDGYLRVNALLADKLLPLLQ-DDDIIWIHDYHLLPFAHELRKRG 145
Query: 222 NRVKLGFFLHSPFPSSEIYRTLPIRDELLRALLNADLIGFHTFDYARHFLSCCSRMLGVS 281
++GFFLH PFP+ EI+ LP D LL L + DL+GF T + FL C S + V+
Sbjct: 146 VNNRIGFFLHIPFPTPEIFNALPTYDTLLEQLCDYDLLGFQTENDRLAFLDCLSNLTRVT 205
Query: 282 YQSKRGYIGLEYFGRTVSIKILPVGIHIGQL--QSVLNLPETEAKVAELQDQFKGQIVML 339
+S + + +G+ ++ P+GI ++ Q+ LP K+A+L+ + K +
Sbjct: 206 TRSAKSHTA---WGKAFRTEVYPIGIEPKEIAKQAAGPLP---PKLAQLKAELKNVQNIF 259
Query: 340 GVDDMDIFKGISLKLLAMEQLLSQNPSKRGKIVLVQIANPARGRGRDVQEVQSETHATVR 399
V+ +D KG+ + LA E LL + P GKI QIA +RG + Q+++ +
Sbjct: 260 SVERLDYSKGLPERFLAYEALLEKYPQHHGKIRYTQIAPTSRGDVQAYQDIRHQLENEAG 319
Query: 400 RINKIFGRPGYQPVVLIDTPLQFYERIAYYVIAECCLVTAVRDGMNLIPYEYIICRQGNE 459
RIN +G+ G+ P+ ++ + + ++ LVT +RDGMNL+ EY+ +
Sbjct: 320 RINGKYGQLGWTPLYYLNQHFDRKLLMKIFRYSDVGLVTPLRDGMNLVAKEYVAAQ---- 375
Query: 460 KLDMTLGLDPSTAKSSMLVVSEFVGCSPSLSGAIRVNPWNIDAVAEAMDSALGVSDAEKQ 519
DP A +LV+S+F G + L+ A+ VNP++ D VA A+D AL +S AE+
Sbjct: 376 --------DP--ANPGVLVLSQFAGAANELTSALIVNPYDRDEVAAALDRALTMSLAERI 425
Query: 520 MRHEKHYRYVSTHDVAYWARSFLQDLER 547
RH + + +D+ +W F+ DL++
Sbjct: 426 SRHAEMLDVIVKNDINHWQECFISDLKQ 453
>pdb|1GZ5|A Chain A, Trehalose-6-Phosphate Synthase. Otsa
pdb|1GZ5|B Chain B, Trehalose-6-Phosphate Synthase. Otsa
pdb|1GZ5|C Chain C, Trehalose-6-Phosphate Synthase. Otsa
pdb|1GZ5|D Chain D, Trehalose-6-Phosphate Synthase. Otsa
Length = 456
Score = 224 bits (571), Expect = 1e-58, Method: Compositional matrix adjust.
Identities = 156/508 (30%), Positives = 247/508 (48%), Gaps = 77/508 (15%)
Query: 60 RMIIVGNQL-PLRAHRSSDG------------SGGWTFSW-----DEDSLLLQLKDGLGE 101
R+++V N++ P H +S G +GG F W +ED L ++K G
Sbjct: 2 RLVVVSNRIAPPDEHAASAGGLAVGILGALKAAGGLWFGWSGETGNEDQPLKKVKKG--- 58
Query: 102 DVEVIYVGCIKEQIDLSEQDEVSQTLLETFKCVPAFIPPELFSKFYHGFCKQHLWPLFHY 161
+LSEQD ++Y+ F LWP FHY
Sbjct: 59 -------NITWASFNLSEQD---------------------LDEYYNQFSNAVLWPAFHY 90
Query: 162 MLPLSPDLGGRFDRSLWQAYVSVNKIFADKVMEVISPDDDFVWVHDYHLMVLPTFLRKRF 221
L L +F R W Y+ VN + ADK++ ++ DDD +W+HDYHL+ LRKR
Sbjct: 91 RLDLV-----QFQRPAWDGYLRVNALLADKLLPLLQ-DDDIIWIHDYHLLPFAHELRKRG 144
Query: 222 NRVKLGFFLHSPFPSSEIYRTLPIRDELLRALLNADLIGFHTFDYARHFLSCCSRMLGVS 281
++GFFLH PFP+ EI+ LP D LL L + DL+GF T + FL C S + V+
Sbjct: 145 VNNRIGFFLHIPFPTPEIFNALPTYDTLLEQLCDYDLLGFQTENDRLAFLDCLSNLTRVT 204
Query: 282 YQSKRGYIGLEYFGRTVSIKILPVGIHIGQL--QSVLNLPETEAKVAELQDQFKGQIVML 339
+S + + +G+ ++ P+GI ++ Q+ LP K+A+L+ + K +
Sbjct: 205 TRSAKSHTA---WGKAFRTEVYPIGIEPKEIAKQAAGPLP---PKLAQLKAELKNVQNIF 258
Query: 340 GVDDMDIFKGISLKLLAMEQLLSQNPSKRGKIVLVQIANPARGRGRDVQEVQSETHATVR 399
V+ +D KG+ + LA E LL + P GKI QIA +RG + Q+++ +
Sbjct: 259 SVERLDYSKGLPERFLAYEALLEKYPQHHGKIRYTQIAPTSRGDVQAYQDIRHQLENEAG 318
Query: 400 RINKIFGRPGYQPVVLIDTPLQFYERIAYYVIAECCLVTAVRDGMNLIPYEYIICRQGNE 459
RIN +G+ G+ P+ ++ + ++ LVT +RDG NL+ EY+ +
Sbjct: 319 RINGKYGQLGWTPLYYLNQHFDRKLLXKIFRYSDVGLVTPLRDGXNLVAKEYVAAQ---- 374
Query: 460 KLDMTLGLDPSTAKSSMLVVSEFVGCSPSLSGAIRVNPWNIDAVAEAMDSALGVSDAEKQ 519
DP A +LV+S+F G + L+ A+ VNP++ D VA A+D AL S AE+
Sbjct: 375 --------DP--ANPGVLVLSQFAGAANELTSALIVNPYDRDEVAAALDRALTXSLAERI 424
Query: 520 MRHEKHYRYVSTHDVAYWARSFLQDLER 547
RH + + +D+ +W F+ DL++
Sbjct: 425 SRHAEXLDVIVKNDINHWQECFISDLKQ 452
>pdb|4F96|B Chain B, Crystal Structure Of Vlde, The Pseudo-Glycosyltransferase,
In Complex With Gdp
pdb|4F96|A Chain A, Crystal Structure Of Vlde, The Pseudo-Glycosyltransferase,
In Complex With Gdp
pdb|4F97|A Chain A, Crystal Structure Of Vlde, The Pseudo-Glycosyltransferase,
In Complex With Gdp And Validoxylamine A 7'-Phosphate
pdb|4F97|B Chain B, Crystal Structure Of Vlde, The Pseudo-Glycosyltransferase,
In Complex With Gdp And Validoxylamine A 7'-Phosphate
pdb|4F9F|A Chain A, Crystal Structure Of Vlde, The Pseudo-Glycosyltransferase,
In Complex With Gdp And Trehalose
pdb|4F9F|B Chain B, Crystal Structure Of Vlde, The Pseudo-Glycosyltransferase,
In Complex With Gdp And Trehalose
pdb|4F9F|C Chain C, Crystal Structure Of Vlde, The Pseudo-Glycosyltransferase,
In Complex With Gdp And Trehalose
pdb|4F9F|D Chain D, Crystal Structure Of Vlde, The Pseudo-Glycosyltransferase,
In Complex With Gdp And Trehalose
pdb|4F9F|E Chain E, Crystal Structure Of Vlde, The Pseudo-Glycosyltransferase,
In Complex With Gdp And Trehalose
pdb|4F9F|F Chain F, Crystal Structure Of Vlde, The Pseudo-Glycosyltransferase,
In Complex With Gdp And Trehalose
pdb|3VDM|A Chain A, Crystal Structure Of Vlde, The Pseudo-Glycosyltransferase
Which Catalyzes Non-Glycosidic C-N Coupling In
Validamycin A Biosynthesis
pdb|3VDM|B Chain B, Crystal Structure Of Vlde, The Pseudo-Glycosyltransferase
Which Catalyzes Non-Glycosidic C-N Coupling In
Validamycin A Biosynthesis
pdb|3VDN|B Chain B, Crystal Structure Of Vlde, The Pseudo-Glycosyltransferase,
In Complex With Gdp
Length = 497
Score = 70.1 bits (170), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 46/172 (26%), Positives = 81/172 (47%), Gaps = 7/172 (4%)
Query: 140 PELFSKFYHGFCKQHLWPLFHYMLP--LSPDLGGRFDRSLWQAYVSVNKIFADKVMEVIS 197
P +F + +W +Y P G R W + + FAD +++ +
Sbjct: 89 PAVFRNVQNFMTANLMWAANNYGWDRWTQPSFGSDA-REGWADFGRFTRDFADAILKSSA 147
Query: 198 PDDDFVW-VHDYHLMVLPTFLRKRFNRVKLGFFLHSPFPSSEIYRTLP--IRDELLRALL 254
D V+ VHDY L+ +P LR++ + F+H P+PS++ +R LP IR +L +L
Sbjct: 148 QSADPVYLVHDYQLVGVPALLREQRPDAPILLFVHIPWPSADYWRILPKEIRTGILHGML 207
Query: 255 NADLIGFHTFDYARHFLSCCSRMLGVSYQSKRGYIGLEYFGRTVSIKILPVG 306
A IGF + R+FL + +L + R + +E+ G ++ +P+G
Sbjct: 208 PATTIGFFADRWCRNFLESVADLL-PDARIDREAMTVEWRGHRTRLRTMPLG 258
>pdb|3T5T|A Chain A, Vall From Streptomyces Hygroscopicus In Apo Form
pdb|3T5T|B Chain B, Vall From Streptomyces Hygroscopicus In Apo Form
Length = 496
Score = 70.1 bits (170), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 46/172 (26%), Positives = 81/172 (47%), Gaps = 7/172 (4%)
Query: 140 PELFSKFYHGFCKQHLWPLFHYMLP--LSPDLGGRFDRSLWQAYVSVNKIFADKVMEVIS 197
P +F + +W +Y P G R W + + FAD +++ +
Sbjct: 88 PAVFRNVQNFMTANLMWAANNYGWDRWTQPSFGSDA-REGWADFGRFTRDFADAILKSSA 146
Query: 198 PDDDFVW-VHDYHLMVLPTFLRKRFNRVKLGFFLHSPFPSSEIYRTLP--IRDELLRALL 254
D V+ VHDY L+ +P LR++ + F+H P+PS++ +R LP IR +L +L
Sbjct: 147 QSADPVYLVHDYQLVGVPALLREQRPDAPILLFVHIPWPSADYWRILPKEIRTGILHGML 206
Query: 255 NADLIGFHTFDYARHFLSCCSRMLGVSYQSKRGYIGLEYFGRTVSIKILPVG 306
A IGF + R+FL + +L + R + +E+ G ++ +P+G
Sbjct: 207 PATTIGFFADRWCRNFLESVADLL-PDARIDREAMTVEWRGHRTRLRTMPLG 257
>pdb|3T7D|A Chain A, Vall From Streptomyces Hygroscopicus In Complex With
Trehalose
pdb|3T7D|B Chain B, Vall From Streptomyces Hygroscopicus In Complex With
Trehalose
Length = 497
Score = 66.2 bits (160), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 40/135 (29%), Positives = 68/135 (50%), Gaps = 4/135 (2%)
Query: 175 RSLWQAYVSVNKIFADKVMEVISPDDDFVW-VHDYHLMVLPTFLRKRFNRVKLGFFLHSP 233
R W + + FAD +++ + D V+ VHDY L+ +P LR++ + F+H P
Sbjct: 125 REGWADFGRFTRDFADAILKSSAQSADPVYLVHDYQLVGVPALLREQRPDAPILLFVHIP 184
Query: 234 FPSSEIYRTLP--IRDELLRALLNADLIGFHTFDYARHFLSCCSRMLGVSYQSKRGYIGL 291
+PS++ +R LP IR +L L A IGF + R+FL + +L + R +
Sbjct: 185 WPSADYWRILPKEIRTGILHGXLPATTIGFFADRWCRNFLESVADLL-PDARIDREAXTV 243
Query: 292 EYFGRTVSIKILPVG 306
E+ G ++ P+G
Sbjct: 244 EWRGHRTRLRTXPLG 258
>pdb|1E1D|A Chain A, Hybrid Cluster Protein From Desulfovibrio Vulgaris
Length = 553
Score = 33.1 bits (74), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 46/107 (42%), Gaps = 15/107 (14%)
Query: 566 FRVVALDPNFRKLSIDHIVSAYKRTKNRAI----LLDYDGTIMVPGSISTSPNAEAVAIL 621
F + AL + LS+D +V+ + + A+ LLD T +T N E +
Sbjct: 178 FMLEALASTTKDLSVDEMVALVMKGRRMAVTTMALLDEANT-------TTYGNPEITQVN 230
Query: 622 DNLCRDPKNVVFLVSGKDRDTLAEWFSSCEGLGI-AAEHGYFVRPNY 667
+ ++P L+SG D +AE EG G+ HG + NY
Sbjct: 231 IGVGKNPG---ILISGHDLKDMAELLKQTEGTGVDVYTHGEMLPANY 274
>pdb|1U02|A Chain A, Crystal Structure Of Trehalose-6-Phosphate Phosphatase
Related Protein
Length = 239
Score = 33.1 bits (74), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 56/245 (22%), Positives = 97/245 (39%), Gaps = 31/245 (12%)
Query: 595 ILLDYDGTIMVPGSISTSPNAEAVAILDNLCRDPKNV--VFLVSGKDRDTLAEWFSSCEG 652
I LDYDGT +VP I + A A L +L D K ++V+G+ + ++ +
Sbjct: 4 IFLDYDGT-LVP-IIXNPEESYADAGLLSLISDLKERFDTYIVTGRSPEEISRFLPL--D 59
Query: 653 LGIAAEHGYFVRPNYGVDWETCVSVPDFSWKQIAEPVMKLYTETTDGSTIETKESALVWN 712
+ HG + N + + + +I E + + G I K A++++
Sbjct: 60 INXICYHGACSKINGQIVYNNGSDRFLGVFDRIYEDT-RSWVSDFPGLRIYRKNLAVLYH 118
Query: 713 FQYADPDFGSCQAKELLDHLESVLANEPVSVKSGPNIVEVKPQGVNKGLVAQHQLETMHQ 772
G+ +L +E + V G I+E++ GVNKG +
Sbjct: 119 LGLX----GADXKPKLRSRIEEIARIFGVETYYGKXIIELRVPGVNKGSAIR------SV 168
Query: 773 KGMLPDFVLCIGDDRSDEDMFEVIKSAAAGPSLSPVAEVFACTVGQKPSKAKYYLDDTAE 832
+G P + GDD +DE FE A VG+ + AK+++ D E
Sbjct: 169 RGERP--AIIAGDDATDEAAFEANDDA------------LTIKVGEGETHAKFHVADYIE 214
Query: 833 ILRML 837
++L
Sbjct: 215 XRKIL 219
>pdb|1E2U|A Chain A, Low Temperature Stucture Of Hybrid Cluster Protein From
Desulfovibrio Vulgaris To 1.6a
pdb|1E9V|A Chain A, Xenon Bound In Hydrophobic Channel Of Hybrid Cluster
Protein From Desulfovibrio Vulgaris
pdb|1W9M|A Chain A, As-Isolated Hybrid Cluster Protein From Desulfovibrio
Vulgaris X-Ray Structure At 1.35a Resolution Using Iron
Anomalous Signal
Length = 553
Score = 32.7 bits (73), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 45/107 (42%), Gaps = 15/107 (14%)
Query: 566 FRVVALDPNFRKLSIDHIVSAYKRTKNRAI----LLDYDGTIMVPGSISTSPNAEAVAIL 621
F + AL + LS+D +V+ + A+ LLD T +T N E +
Sbjct: 178 FMLEALASTTKDLSVDEMVALVMKAGGMAVTTMALLDEANT-------TTYGNPEITQVN 230
Query: 622 DNLCRDPKNVVFLVSGKDRDTLAEWFSSCEGLGI-AAEHGYFVRPNY 667
+ ++P L+SG D +AE EG G+ HG + NY
Sbjct: 231 IGVGKNPG---ILISGHDLKDMAELLKQTEGTGVDVYTHGEMLPANY 274
>pdb|1GNT|A Chain A, Hybrid Cluster Protein From Desulfovibrio Vulgaris. X-Ray
Structure At 1.25a Resolution Using Synchrotron
Radiation.
pdb|1OA1|A Chain A, Reduced Hybrid Cluster Protein (Hcp) From Desulfovibrio
Vulgaris Hildenborough Structure At 1.55a Resolution
Using Synchrotron Radiation
Length = 553
Score = 32.3 bits (72), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 45/107 (42%), Gaps = 15/107 (14%)
Query: 566 FRVVALDPNFRKLSIDHIVSAYKRTKNRAI----LLDYDGTIMVPGSISTSPNAEAVAIL 621
F + AL + LS+D +V+ + A+ LLD T +T N E +
Sbjct: 178 FMLEALASTTKDLSVDEMVALVMKAGGMAVTTMALLDEANT-------TTYGNPEITQVN 230
Query: 622 DNLCRDPKNVVFLVSGKDRDTLAEWFSSCEGLGI-AAEHGYFVRPNY 667
+ ++P L+SG D +AE EG G+ HG + NY
Sbjct: 231 IGVGKNPG---ILISGHDLKDMAELLKQTEGTGVDVYTHGEMLPANY 274
>pdb|3IYD|D Chain D, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
Length = 1413
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 18/81 (22%)
Query: 270 FLSCCSRMLG----VSYQSKRGYIGLEYFGRTVSIKILPVGIHIGQLQSVLN------LP 319
L+ C R+LG V + + Y G Y R+ G +G V+ +
Sbjct: 604 MLNTCYRILGLKPTVIFADQIMYTGFAYAARS--------GASVGIDDMVIPEKKHEIIS 655
Query: 320 ETEAKVAELQDQFKGQIVMLG 340
E EA+VAE+Q+QF+ +V G
Sbjct: 656 EAEAEVAEIQEQFQSGLVTAG 676
>pdb|3LU0|D Chain D, Molecular Model Of Escherichia Coli Core Rna Polymerase
pdb|4IGC|D Chain D, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|I Chain I, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
Length = 1407
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 37/81 (45%), Gaps = 18/81 (22%)
Query: 270 FLSCCSRMLG----VSYQSKRGYIGLEYFGRTVSIKILPVGIHIGQLQSVLN------LP 319
L+ C R+LG V + + Y G Y R+ G +G V+ +
Sbjct: 604 MLNTCYRILGLKPTVIFADQIMYTGFAYAARS--------GASVGIDDMVIPEKKHEIIS 655
Query: 320 ETEAKVAELQDQFKGQIVMLG 340
E EA+VAE+Q+QF+ +V G
Sbjct: 656 EAEAEVAEIQEQFQSGLVTAG 676
>pdb|1RKQ|A Chain A, Crystal Structure Of Had-Like Phosphatase Yida From E.
Coli
pdb|1RKQ|B Chain B, Crystal Structure Of Had-Like Phosphatase Yida From E.
Coli
Length = 282
Score = 30.0 bits (66), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 28/52 (53%), Gaps = 3/52 (5%)
Query: 743 VKSGPNIVEVKPQGVNKGLVAQHQLETMHQKGMLPDFVLCIGDDRSDEDMFE 794
+KS P +E+ + VNKG + + + G+ P+ ++ IGD +D M E
Sbjct: 183 LKSAPYFLEILDKRVNKGTGVKSLADVL---GIKPEEIMAIGDQENDIAMIE 231
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
0.321 0.137 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,870,769
Number of Sequences: 62578
Number of extensions: 1108069
Number of successful extensions: 2929
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 2900
Number of HSP's gapped (non-prelim): 24
length of query: 863
length of database: 14,973,337
effective HSP length: 107
effective length of query: 756
effective length of database: 8,277,491
effective search space: 6257783196
effective search space used: 6257783196
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: 56 (26.2 bits)