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= 013472
(442 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IYD|F Chain F, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
Length = 613
Score = 100 bits (248), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 44/139 (31%), Positives = 85/139 (61%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+K+ + + + G+ P E+A+ + +I
Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKI 494
Query: 416 RSASECLRIVGSIDQKIGD 434
R + + S++ IGD
Sbjct: 495 RKVLKIAKEPISMETPIGD 513
>pdb|4IGC|X Chain X, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|Y Chain Y, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
Length = 613
Score = 100 bits (248), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 44/139 (31%), Positives = 85/139 (61%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 375 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 434
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
IR++I++ +A AR I+IP + I+K+ + + + G+ P E+A+ + +I
Sbjct: 435 IRQAITRSIADQARTIRIPVHMIETINKLNRISRQMLQEMGREPTPEELAERMLMPEDKI 494
Query: 416 RSASECLRIVGSIDQKIGD 434
R + + S++ IGD
Sbjct: 495 RKVLKIAKEPISMETPIGD 513
>pdb|1L9Z|H Chain H, Thermus Aquaticus Rna Polymerase HoloenzymeFORK-Junction
Promoter Dna Complex At 6.5 A Resolution
Length = 438
Score = 97.8 bits (242), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 61/186 (32%), Positives = 102/186 (54%), Gaps = 17/186 (9%)
Query: 261 TLEKESGKAASLNCWAQAAGVSERVLKQHLAF---GWYCREELIKSTRPLVLFLARNYRG 317
T+E+ GK SL + LK++L G R+ LI++ LV+ +A+ Y G
Sbjct: 170 TVEEVDGKLKSLP----------KELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTG 219
Query: 318 LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPCKL 377
G+ F DL+Q GN G+++ E+F++ R +KFSTY +WIR++I++ +A AR I+IP +
Sbjct: 220 RGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHM 279
Query: 378 NREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEIRSASECLRIVG---SIDQKIGD 434
I+K+ + + L G+ P EIA+ G + + E L+I S++ IGD
Sbjct: 280 VETINKLSRTARQLQQELGREPSYEEIAEAMGPGW-DAKRVEETLKIAQEPVSLETPIGD 338
Query: 435 CLNAKY 440
++ Y
Sbjct: 339 EKDSFY 344
>pdb|1L9U|H Chain H, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
pdb|1L9U|Q Chain Q, Thermus Aquaticus Rna Polymerase Holoenzyme At 4 A
Resolution
Length = 332
Score = 97.8 bits (242), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 55/161 (34%), Positives = 93/161 (57%), Gaps = 7/161 (4%)
Query: 286 LKQHLAF---GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDH 342
LK++L G R+ LI++ LV+ +A+ Y G G+ F DL+Q GN G+++ E+F++
Sbjct: 79 LKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEY 138
Query: 343 TRGYKFSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDI 402
R +KFSTY +WIR++I++ +A AR I+IP + I+K+ + + L G+ P
Sbjct: 139 KRRFKFSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPSYE 198
Query: 403 EIAKYTGLSLAEIRSASECLRIVG---SIDQKIGDCLNAKY 440
EIA+ G + + E L+I S++ IGD ++ Y
Sbjct: 199 EIAEAMGPGW-DAKRVEETLKIAQEPVSLETPIGDEKDSFY 238
>pdb|3DXJ|F Chain F, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
pdb|3DXJ|P Chain P, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Myxopyronin
Length = 423
Score = 97.4 bits (241), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 54/156 (34%), Positives = 91/156 (58%), Gaps = 5/156 (3%)
Query: 289 HLAF-GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYK 347
H+A G R+ LI++ LV+ +A+ Y G G+ F DL+Q GN G+++ E+F++ R +K
Sbjct: 175 HIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFK 234
Query: 348 FSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKY 407
FSTY +WIR++I++ +A AR I+IP + I+K+ + + L G+ P EIA+
Sbjct: 235 FSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPTYEEIAEA 294
Query: 408 TGLSLAEIRSASECLRIVG---SIDQKIGDCLNAKY 440
G + + E L+I S++ IGD ++ Y
Sbjct: 295 MGPGW-DAKRVEETLKIAQEPVSLETPIGDEKDSFY 329
>pdb|1IW7|F Chain F, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1IW7|P Chain P, Crystal Structure Of The Rna Polymerase Holoenzyme From
Thermus Thermophilus At 2.6a Resolution
pdb|1SMY|F Chain F, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1SMY|P Chain P, Structural Basis For Transcription Regulation By Alarmone
Ppgpp
pdb|1ZYR|F Chain F, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|1ZYR|P Chain P, Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme In Complex With The Antibiotic Streptolydigin
pdb|2A68|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A68|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifabutin
pdb|2A69|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A69|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Rifapentin
pdb|2A6E|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6E|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme
pdb|2A6H|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2A6H|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Sterptolydigin
pdb|2CW0|F Chain F, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2CW0|P Chain P, Crystal Structure Of Thermus Thermophilus Rna Polymerase
Holoenzyme At 3.3 Angstroms Resolution
pdb|2BE5|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|2BE5|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Inhibitor Tagetitoxin
pdb|3EQL|F Chain F, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
pdb|3EQL|P Chain P, Crystal Structure Of The T. Thermophilus Rna Polymerase
Holoenzyme In Complex With Antibiotic Myxopyronin
Length = 423
Score = 97.4 bits (241), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 54/156 (34%), Positives = 91/156 (58%), Gaps = 5/156 (3%)
Query: 289 HLAF-GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYK 347
H+A G R+ LI++ LV+ +A+ Y G G+ F DL+Q GN G+++ E+F++ R +K
Sbjct: 175 HIAREGEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFK 234
Query: 348 FSTYVQYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKY 407
FSTY +WIR++I++ +A AR I+IP + I+K+ + + L G+ P EIA+
Sbjct: 235 FSTYATWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPTYEEIAEA 294
Query: 408 TGLSLAEIRSASECLRIVG---SIDQKIGDCLNAKY 440
G + + E L+I S++ IGD ++ Y
Sbjct: 295 MGPGW-DAKRVEETLKIAQEPVSLETPIGDEKDSFY 329
>pdb|4G7H|F Chain F, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7H|P Chain P, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex
pdb|4G7O|F Chain F, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7O|P Chain P, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 2 Nt Of Rna
pdb|4G7Z|F Chain F, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
pdb|4G7Z|P Chain P, Crystal Structure Of Thermus Thermophilus Transcription
Initiation Complex Containing 5-Bru At Template-Strand
Position +1
Length = 443
Score = 97.1 bits (240), Expect = 2e-20, Method: Compositional matrix adjust.
Identities = 52/151 (34%), Positives = 88/151 (58%), Gaps = 4/151 (2%)
Query: 293 GWYCREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYV 352
G R+ LI++ LV+ +A+ Y G G+ F DL+Q GN G+++ E+F++ R +KFSTY
Sbjct: 200 GEAARQHLIEANLRLVVSIAKKYTGRGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYA 259
Query: 353 QYWIRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSL 412
+WIR++I++ +A AR I+IP + I+K+ + + L G+ P EIA+ G
Sbjct: 260 TWWIRQAINRAIADQARTIRIPVHMVETINKLSRTARQLQQELGREPTYEEIAEAMGPGW 319
Query: 413 AEIRSASECLRIVG---SIDQKIGDCLNAKY 440
+ + E L+I S++ IGD ++ Y
Sbjct: 320 -DAKRVEETLKIAQEPVSLETPIGDEKDSFY 349
>pdb|1KU2|A Chain A, Crystal Structure Of Thermus Aquaticus Rna Polymerase
Sigma Subunit Fragment Containing Regions 1.2 To 3.1
pdb|1KU2|B Chain B, Crystal Structure Of Thermus Aquaticus Rna Polymerase
Sigma Subunit Fragment Containing Regions 1.2 To 3.1
Length = 241
Score = 94.4 bits (233), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 53/152 (34%), Positives = 87/152 (57%), Gaps = 13/152 (8%)
Query: 261 TLEKESGKAASLNCWAQAAGVSERVLKQHLAF---GWYCREELIKSTRPLVLFLARNYRG 317
T+E+ GK SL + LK++L G R+ LI++ LV+ +A+ Y G
Sbjct: 79 TVEEVDGKLKSLP----------KELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTG 128
Query: 318 LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPCKL 377
G+ F DL+Q GN G+++ E+F++ R +KFSTY +WIR++I++ +A AR I+IP +
Sbjct: 129 RGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHM 188
Query: 378 NREISKIQKARKALTNSHGKYPEDIEIAKYTG 409
I+K+ + + L G+ P EIA+ G
Sbjct: 189 VETINKLSRTARQLQQELGREPSYEEIAEAMG 220
>pdb|3UGO|A Chain A, Crystal Structure Of Rna-Polymerase Sigma Subunit Domain 2
Complexed With -10 Promoter Element Ssdna Oligo (Tacaat)
pdb|3UGP|A Chain A, Crystal Structure Of Rna-Polymerase Sigma Subunit Domain 2
Complexed With -10 Promoter Element Ssdna Oligo (Tataat)
pdb|4GOR|A Chain A, Crystallographic Analysis Of An Rna-Polymerase
Sigma-Subunit Fragment Complexed With -10 Promoter
Element Ssdna: G-Quadruplex Formation And Crystal
Packing
pdb|4GOR|B Chain B, Crystallographic Analysis Of An Rna-Polymerase
Sigma-Subunit Fragment Complexed With -10 Promoter
Element Ssdna: G-Quadruplex Formation And Crystal
Packing
Length = 245
Score = 94.4 bits (233), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 53/152 (34%), Positives = 87/152 (57%), Gaps = 13/152 (8%)
Query: 261 TLEKESGKAASLNCWAQAAGVSERVLKQHLAF---GWYCREELIKSTRPLVLFLARNYRG 317
T+E+ GK SL + LK++L G R+ LI++ LV+ +A+ Y G
Sbjct: 83 TVEEVDGKLKSLP----------KELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTG 132
Query: 318 LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHARGIKIPCKL 377
G+ F DL+Q GN G+++ E+F++ R +KFSTY +WIR++I++ +A AR I+IP +
Sbjct: 133 RGLSFLDLIQEGNQGLIRAVEKFEYKRRFKFSTYATWWIRQAINRAIADQARTIRIPVHM 192
Query: 378 NREISKIQKARKALTNSHGKYPEDIEIAKYTG 409
I+K+ + + L G+ P EIA+ G
Sbjct: 193 VETINKLSRTARQLQQELGREPSYEEIAEAMG 224
>pdb|1SIG|A Chain A, Crystal Structure Of A Sigma70 Subunit Fragment From
Escherichia Coli Rna Polymerase
Length = 339
Score = 77.8 bits (190), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 29/74 (39%), Positives = 54/74 (72%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
++E++++ LV+ +A+ Y G+ F DL+Q GN+G+++ ++F++ RGYKFSTY +W
Sbjct: 266 AKKEMVEANLRLVISIAKKYTNRGLQFLDLIQEGNIGLMKAVDKFEYRRGYKFSTYATWW 325
Query: 356 IRKSISKMVARHAR 369
IR++I++ +A AR
Sbjct: 326 IRQAITRSIADQAR 339
>pdb|3LES|A Chain A, 2f5 Epitope Scaffold Es2
pdb|3LES|B Chain B, 2f5 Epitope Scaffold Es2
pdb|3LEV|A Chain A, Hiv-1 Antibody 2f5 In Complex With Epitope Scaffold Es2
Length = 179
Score = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 41/112 (36%), Positives = 67/112 (59%), Gaps = 13/112 (11%)
Query: 261 TLEKESGKAASLNCWAQAAGVSERVLKQHLAF---GWYCREELIKSTRPLVLFLARNYRG 317
T+E+ GK SL + LK++L G R+ LI++ LV+ +A+ Y G
Sbjct: 78 TVEEVDGKLKSLP----------KELKRYLHIAREGEAARQHLIEANLRLVVSIAKKYTG 127
Query: 318 LGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYWIRKSISKMVARHAR 369
G+ F DL+Q GN G+++ E+F++ RG+ FSTY +WIR++I++ +A AR
Sbjct: 128 RGLSFLDLIQEGNQGLIRAVEKFEYKRGFAFSTYATWWIRQAINRAIADQAR 179
>pdb|1L0O|C Chain C, Crystal Structure Of The Bacillus Stearothermophilus Anti-
Sigma Factor Spoiiab With The Sporulation Sigma Factor
Sigmaf
Length = 243
Score = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 41/137 (29%), Positives = 71/137 (51%), Gaps = 1/137 (0%)
Query: 296 CREELIKSTRPLVLFLARNYRGLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQYW 355
R+E+I+ LV + + + G DL Q G +G+L+ ++FD + KFSTY
Sbjct: 29 ARDEIIEKNMRLVWSVVQRFLNRGYEADDLFQIGCIGLLKSVDKFDLSYDVKFSTYAVPM 88
Query: 356 IRKSISKMVARHARGIKIPCKLNREISKIQKARKALTNSHGKYPEDIEIAKYTGLSLAEI 415
I I + + R +K+ L +KI+KA+ L+ + G+ P EIA + G+S ++
Sbjct: 89 IIGEIQRFL-RDDGTVKVSRSLKEMGNKIRKAKDELSKTRGRAPTVTEIADHLGISPEDV 147
Query: 416 RSASECLRIVGSIDQKI 432
A E +R+ SI + +
Sbjct: 148 VLAQEAVRLPTSIHETV 164
>pdb|1RP3|A Chain A, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma
Complex, Sigma-28FLGM
pdb|1RP3|C Chain C, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma
Complex, Sigma-28FLGM
pdb|1RP3|E Chain E, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma
Complex, Sigma-28FLGM
pdb|1RP3|G Chain G, Cocrystal Structure Of The Flagellar SigmaANTI-Sigma
Complex, Sigma-28FLGM
pdb|1SC5|A Chain A, Sigma-28(Flia)FLGM COMPLEX
Length = 239
Score = 36.6 bits (83), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 31/123 (25%), Positives = 56/123 (45%), Gaps = 8/123 (6%)
Query: 297 REELIKSTRPLVLFLARNYR---GLGIPFSDLLQAGNVGVLQGAERFDHTRGYKFSTYVQ 353
REELI PLV +A N + + DL+ G +G+++ + + Y++
Sbjct: 14 REELILKYLPLVKAIATNIKKHLPEDVDIRDLISYGVIGLIKAVDNLSTENPKRAEAYIK 73
Query: 354 YWIRKSISKMVARHARGIKIPCKLNREISK-IQKARKALTNSHGKYPEDIEIAKYTGLSL 412
I+ +I + R + + RE + I++ + L G+ P D E+AK G+S
Sbjct: 74 LRIKGAIYD----YLRSLDFGSRQVREKERRIKEVVEKLKEKLGREPTDEEVAKELGIST 129
Query: 413 AEI 415
E+
Sbjct: 130 EEL 132
>pdb|1YY5|A Chain A, Crystal Structure Of Fms1, A Polyamine Oxidase From Yeast
pdb|1YY5|B Chain B, Crystal Structure Of Fms1, A Polyamine Oxidase From Yeast
pdb|1XPQ|A Chain A, Crystal Structure Of Fms1, A Polyamine Oxidase From Yeast
pdb|1XPQ|B Chain B, Crystal Structure Of Fms1, A Polyamine Oxidase From Yeast
pdb|1XPQ|C Chain C, Crystal Structure Of Fms1, A Polyamine Oxidase From Yeast
pdb|1XPQ|D Chain D, Crystal Structure Of Fms1, A Polyamine Oxidase From Yeast
Length = 513
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 221 TIFSAERAL--NSRGRRLTIARNEAEMSKGVQVVANLERIKTTLEKE-SGKAASLNCWAQ 277
IF E N + +T+A + E + V+ NL+ + + LE+E S K S+ CW+Q
Sbjct: 297 VIFEFEECCWSNESSKIVTLANSTNEFVEIVRNAENLDELDSMLEREDSQKHTSVTCWSQ 356
Query: 278 A 278
Sbjct: 357 P 357
>pdb|1RSG|A Chain A, Crystal Structure Of The Polyamine Oxidase Fms1 From Yeast
pdb|1RSG|B Chain B, Crystal Structure Of The Polyamine Oxidase Fms1 From Yeast
Length = 516
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 221 TIFSAERAL--NSRGRRLTIARNEAEMSKGVQVVANLERIKTTLEKE-SGKAASLNCWAQ 277
IF E N + +T+A + E + V+ NL+ + + LE+E S K S+ CW+Q
Sbjct: 297 VIFEFEECCWSNESSKIVTLANSTNEFVEIVRNAENLDELDSXLEREDSQKHTSVTCWSQ 356
Query: 278 A 278
Sbjct: 357 P 357
>pdb|1Z6L|A Chain A, Crystal Structure Of Fms1 In Complex With Its Substrate
pdb|1Z6L|B Chain B, Crystal Structure Of Fms1 In Complex With Its Substrate
pdb|3BI2|A Chain A, Crystal Structures Of Fms1 In Complex With Its Inhibitors
pdb|3BI2|B Chain B, Crystal Structures Of Fms1 In Complex With Its Inhibitors
pdb|3BI4|A Chain A, Crystal Structures Of Fms1 In Complex With Its Inhibitors
pdb|3BI4|B Chain B, Crystal Structures Of Fms1 In Complex With Its Inhibitors
pdb|3BI5|A Chain A, Crystal Structures Of Fms1 In Complex With Its Inhibitors
pdb|3BI5|B Chain B, Crystal Structures Of Fms1 In Complex With Its Inhibitors
pdb|3BNM|B Chain B, Crystal Structure Of Polyamine Oxidase Fms1 From
Saccharomyces Cerevisiae In Complex With Bis-(3r,3'r)-
Methylated Spermine
pdb|3BNM|A Chain A, Crystal Structure Of Polyamine Oxidase Fms1 From
Saccharomyces Cerevisiae In Complex With Bis-(3r,3'r)-
Methylated Spermine
pdb|3BNU|B Chain B, Crystal Structure Of Polyamine Oxidase Fms1 From
Saccharomyces Cerevisiae In Complex With Bis-(3s,3's)-
Methylated Spermine
pdb|3BNU|A Chain A, Crystal Structure Of Polyamine Oxidase Fms1 From
Saccharomyces Cerevisiae In Complex With Bis-(3s,3's)-
Methylated Spermine
pdb|3CN8|B Chain B, Crystal Structure Of Fms1 In Complex With Spermidine
pdb|3CN8|A Chain A, Crystal Structure Of Fms1 In Complex With Spermidine
pdb|3CND|B Chain B, Crystal Structure Of Fms1 In Complex With N1-Acspermine
pdb|3CND|A Chain A, Crystal Structure Of Fms1 In Complex With N1-Acspermine
pdb|3CNP|B Chain B, Crystal Structure Of Fms1 In Complex With
S-n1-acmespermidine
pdb|3CNP|A Chain A, Crystal Structure Of Fms1 In Complex With
S-n1-acmespermidine
pdb|3CNS|A Chain A, Crystal Structure Of Fms1 In Complex With
S-Bz-Mespermidine
pdb|3CNS|B Chain B, Crystal Structure Of Fms1 In Complex With
S-Bz-Mespermidine
pdb|3CNT|B Chain B, Crystal Structure Of Fms1 In Complex With
R-Bz-Mespermidine
pdb|3CNT|A Chain A, Crystal Structure Of Fms1 In Complex With
R-Bz-Mespermidine
Length = 516
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 221 TIFSAERAL--NSRGRRLTIARNEAEMSKGVQVVANLERIKTTLEKE-SGKAASLNCWAQ 277
IF E N + +T+A + E + V+ NL+ + + LE+E S K S+ CW+Q
Sbjct: 297 VIFEFEECCWSNESSKIVTLANSTNEFVEIVRNAENLDELDSMLEREDSQKHTSVTCWSQ 356
Query: 278 A 278
Sbjct: 357 P 357
>pdb|4ECH|A Chain A, Yeast Polyamine Oxidase Fms1, H67q Mutant
pdb|4ECH|B Chain B, Yeast Polyamine Oxidase Fms1, H67q Mutant
Length = 516
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 3/61 (4%)
Query: 221 TIFSAERAL--NSRGRRLTIARNEAEMSKGVQVVANLERIKTTLEKE-SGKAASLNCWAQ 277
IF E N + +T+A + E + V+ NL+ + + LE+E S K S+ CW+Q
Sbjct: 297 VIFEFEECCWSNESSKIVTLANSTNEFVEIVRNAENLDELDSMLEREDSQKHTSVTCWSQ 356
Query: 278 A 278
Sbjct: 357 P 357
>pdb|4GDP|A Chain A, Yeast Polyamine Oxidase Fms1, N195a Mutant
pdb|4GDP|B Chain B, Yeast Polyamine Oxidase Fms1, N195a Mutant
pdb|4GDP|C Chain C, Yeast Polyamine Oxidase Fms1, N195a Mutant
pdb|4GDP|D Chain D, Yeast Polyamine Oxidase Fms1, N195a Mutant
Length = 516
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 28/50 (56%), Gaps = 1/50 (2%)
Query: 230 NSRGRRLTIARNEAEMSKGVQVVANLERIKTTLEKE-SGKAASLNCWAQA 278
N + +T+A + E + V+ NL+ + + LE+E S K S+ CW+Q
Sbjct: 308 NESSKIVTLANSTNEFVEIVRNAENLDELDSMLEREDSQKHTSVTCWSQP 357
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
0.318 0.131 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,613,318
Number of Sequences: 62578
Number of extensions: 368628
Number of successful extensions: 1273
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 1257
Number of HSP's gapped (non-prelim): 21
length of query: 442
length of database: 14,973,337
effective HSP length: 102
effective length of query: 340
effective length of database: 8,590,381
effective search space: 2920729540
effective search space used: 2920729540
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 53 (25.0 bits)