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= 028441
(209 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2J9W|A Chain A, Structural Insight Into The Escrt-I-Ii Link And Its Role
In Mvb Trafficking
pdb|2J9W|B Chain B, Structural Insight Into The Escrt-I-Ii Link And Its Role
In Mvb Trafficking
Length = 102
Score = 84.0 bits (206), Expect = 6e-17, Method: Compositional matrix adjust.
Identities = 38/85 (44%), Positives = 54/85 (63%)
Query: 116 ECVQNFITAMDSLKLNMVAVDQVHPXXXXXXXXXXXXTILPPDFEGKTKMKDWISRLSKM 175
+ V FIT MD L+L + A+D++ P + LPPDFEG+ K+ W+ +LS M
Sbjct: 12 DIVSLFITVMDKLRLEIRAMDEIQPDLRELMETMNRMSHLPPDFEGREKVSQWLQKLSSM 71
Query: 176 GAADELTEQQSRQLHFDLESSYNSF 200
A+DEL + Q RQ+ FDLES+YN+F
Sbjct: 72 SASDELDDSQVRQMLFDLESAYNAF 96
>pdb|2J9U|A Chain A, 2 Angstrom X-Ray Structure Of The Yeast Escrt-I Vps28 C-
Terminus In Complex With The Nzf-N Domain From Escrt-Ii
pdb|2J9U|C Chain C, 2 Angstrom X-Ray Structure Of The Yeast Escrt-I Vps28 C-
Terminus In Complex With The Nzf-N Domain From Escrt-Ii
Length = 96
Score = 81.6 bits (200), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 42/89 (47%), Positives = 52/89 (58%), Gaps = 2/89 (2%)
Query: 116 ECVQNFITAMDSLKLNMVAVDQVHPXXXXXXXXXXXXTILPPDFEGKTKMKDWISRLSKM 175
E NFIT MD+LKLN A DQ+HP T DFE ++K+ DWI R++K+
Sbjct: 9 EATGNFITVMDALKLNYNAKDQLHPLLAELLISINRVT--RDDFENRSKLIDWIVRINKL 66
Query: 176 GAADELTEQQSRQLHFDLESSYNSFMAAL 204
D LTE Q R+L FDLE +Y SF A L
Sbjct: 67 SIGDTLTETQIRELLFDLELAYKSFYALL 95
>pdb|2J9V|A Chain A, 2 Angstrom X-Ray Structure Of The Yeast Escrt-I Vps28 C-
Terminus
Length = 99
Score = 80.9 bits (198), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 42/89 (47%), Positives = 52/89 (58%), Gaps = 2/89 (2%)
Query: 116 ECVQNFITAMDSLKLNMVAVDQVHPXXXXXXXXXXXXTILPPDFEGKTKMKDWISRLSKM 175
E NFIT MD+LKLN A DQ+HP T DFE ++K+ DWI R++K+
Sbjct: 12 EATGNFITVMDALKLNYNAKDQLHPLLAELLISINRVT--RDDFENRSKLIDWIVRINKL 69
Query: 176 GAADELTEQQSRQLHFDLESSYNSFMAAL 204
D LTE Q R+L FDLE +Y SF A L
Sbjct: 70 SIGDTLTETQIRELLFDLELAYKSFYALL 98
>pdb|2G3K|A Chain A, Crystal Structure Of The C-Terminal Domain Of Vps28
pdb|2G3K|B Chain B, Crystal Structure Of The C-Terminal Domain Of Vps28
pdb|2G3K|C Chain C, Crystal Structure Of The C-Terminal Domain Of Vps28
pdb|2G3K|D Chain D, Crystal Structure Of The C-Terminal Domain Of Vps28
pdb|2G3K|E Chain E, Crystal Structure Of The C-Terminal Domain Of Vps28
pdb|2G3K|F Chain F, Crystal Structure Of The C-Terminal Domain Of Vps28
pdb|2G3K|G Chain G, Crystal Structure Of The C-Terminal Domain Of Vps28
Length = 94
Score = 79.3 bits (194), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 41/89 (46%), Positives = 51/89 (57%), Gaps = 2/89 (2%)
Query: 116 ECVQNFITAMDSLKLNMVAVDQVHPXXXXXXXXXXXXTILPPDFEGKTKMKDWISRLSKM 175
E NFIT D+LKLN A DQ+HP T DFE ++K+ DWI R++K+
Sbjct: 8 EATGNFITVXDALKLNYNAKDQLHPLLAELLISINRVT--RDDFENRSKLIDWIVRINKL 65
Query: 176 GAADELTEQQSRQLHFDLESSYNSFMAAL 204
D LTE Q R+L FDLE +Y SF A L
Sbjct: 66 SIGDTLTETQIRELLFDLELAYKSFYALL 94
>pdb|2F66|B Chain B, Structure Of The Escrt-I Endosomal Trafficking Complex
pdb|2F66|E Chain E, Structure Of The Escrt-I Endosomal Trafficking Complex
Length = 116
Score = 63.5 bits (153), Expect = 9e-11, Method: Compositional matrix adjust.
Identities = 38/106 (35%), Positives = 62/106 (58%), Gaps = 9/106 (8%)
Query: 2 EVKLWNDK---REREMYENFAELYAIIKATEKLEKAYVRDIISSSEYETECQKLIAHFKT 58
EV L+++ +++E+ E +E+Y+I+ + +EKAY++D I ++Y KL+ FK
Sbjct: 12 EVPLFDNSITSKDKEVIETLSEIYSIVITLDHVEKAYLKDSIDDTQYTNTVDKLLKQFKV 71
Query: 59 -LSSTLKDIV----PSIERFADTYKMDCPAALNRLVTSGVPATVEH 99
L+S K+ + SIE FADTY + A+ RL G+P T EH
Sbjct: 72 YLNSQNKEEINKHFQSIEAFADTYNITASNAITRL-ERGIPITAEH 116
>pdb|2CAZ|B Chain B, Escrt-I Core
pdb|2CAZ|E Chain E, Escrt-I Core
Length = 155
Score = 61.6 bits (148), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 37/106 (34%), Positives = 61/106 (57%), Gaps = 9/106 (8%)
Query: 2 EVKLWNDK---REREMYENFAELYAIIKATEKLEKAYVRDIISSSEYETECQKLIAHFKT 58
EV L+++ +++E+ E +E+Y+I+ + +EKAY++D I ++Y KL+ FK
Sbjct: 29 EVPLFDNSITSKDKEVIETLSEIYSIVITLDHVEKAYLKDSIDDTQYTNTVDKLLKQFKV 88
Query: 59 -LSSTLKDIV----PSIERFADTYKMDCPAALNRLVTSGVPATVEH 99
L+S K+ + SIE F DTY + A+ RL G+P T EH
Sbjct: 89 YLNSQNKEEINKHFQSIEAFCDTYNITASNAITRL-ERGIPITAEH 133
>pdb|2P22|B Chain B, Structure Of The Yeast Escrt-i Heterotetramer Core
Length = 118
Score = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 56/95 (58%), Gaps = 8/95 (8%)
Query: 2 EVKLWNDK---REREMYENFAELYAIIKATEKLEKAYVRDIISSSEYETECQKLIAHFKT 58
EV L+++ +++E+ E +E+Y+I+ + +EKAY++D I ++Y KL+ FK
Sbjct: 21 EVPLFDNSITSKDKEVIETLSEIYSIVITLDHVEKAYLKDSIDDTQYTNTVDKLLKQFKV 80
Query: 59 -LSSTLKDIV----PSIERFADTYKMDCPAALNRL 88
L+S K+ + SIE FADTY + A+ RL
Sbjct: 81 YLNSQNKEEINKHFQSIEAFADTYNITASNAITRL 115
>pdb|2F6M|B Chain B, Structure Of A Vps23-C:vps28-N Subcomplex
pdb|2F6M|D Chain D, Structure Of A Vps23-C:vps28-N Subcomplex
Length = 109
Score = 55.5 bits (132), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/95 (34%), Positives = 56/95 (58%), Gaps = 8/95 (8%)
Query: 2 EVKLWNDK---REREMYENFAELYAIIKATEKLEKAYVRDIISSSEYETECQKLIAHFKT 58
EV L+++ +++E+ E +E+Y+I+ + +EKAY++D I ++Y KL+ FK
Sbjct: 12 EVPLFDNSITSKDKEVIETLSEIYSIVITLDHVEKAYLKDSIDDTQYTNTVDKLLKQFKV 71
Query: 59 -LSSTLKDIV----PSIERFADTYKMDCPAALNRL 88
L+S K+ + SIE FADTY + A+ RL
Sbjct: 72 YLNSQNKEEINKHFQSIEAFADTYNITASNAITRL 106
>pdb|3TNP|B Chain B, Structure And Allostery Of The Pka Riib Tetrameric
Holoenzyme
pdb|3TNP|E Chain E, Structure And Allostery Of The Pka Riib Tetrameric
Holoenzyme
Length = 416
Score = 31.6 bits (70), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 30/49 (61%), Gaps = 1/49 (2%)
Query: 7 NDKREREMYENFAELYAIIKATEKLEKAYVRDIISSSEYETECQKLIAH 55
N+ ++R+MYE+F E +K+ E E+ V D+I + Y + +++IA
Sbjct: 257 NNAKKRKMYESFIESLPFLKSLEVSERLKVVDVIGTKVY-NDGEQIIAQ 304
>pdb|1CX4|A Chain A, Crystal Structure Of A Deletion Mutant Of The Type Ii Beta
Regulatory Subunit Of Camp-Dependent Protein Kinase
Length = 305
Score = 31.6 bits (70), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 32/55 (58%), Gaps = 1/55 (1%)
Query: 7 NDKREREMYENFAELYAIIKATEKLEKAYVRDIISSSEYETECQKLIAHFKTLSS 61
N+ ++R+MYE+F E +K+ E E+ V D+I + Y + +++IA + S
Sbjct: 146 NNAKKRKMYESFIESLPFLKSLEVSERLKVVDVIGTKVY-NDGEQIIAQGDSADS 199
>pdb|3TNQ|A Chain A, Structure And Allostery Of The Pka Riib Tetrameric
Holoenzyme
Length = 416
Score = 31.6 bits (70), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 30/49 (61%), Gaps = 1/49 (2%)
Query: 7 NDKREREMYENFAELYAIIKATEKLEKAYVRDIISSSEYETECQKLIAH 55
N+ ++R+MYE+F E +K+ E E+ V D+I + Y + +++IA
Sbjct: 257 NNAKKRKMYESFIESLPFLKSLEVSERLKVVDVIGTKVY-NDGEQIIAQ 304
>pdb|1U09|A Chain A, Footand Mouth Disease Virus Rna-Dependent Rna Polymerase
pdb|1WNE|A Chain A, Foot And Mouth Disease Virus Rna-Dependent Rna Polymerase
In Complex With A Template-Primer Rna
pdb|2E9R|X Chain X, Foot-And-Mouth Disease Virus Rna-Dependent Rna Polymerase
In Complex With A Template-Primer Rna And With Ribavirin
pdb|2E9T|A Chain A, Foot-And-Mouth Disease Virus Rna-Polymerase Rna Dependent
In Complex With A Template-Primer Rna And 5f-Utp
pdb|2E9T|D Chain D, Foot-And-Mouth Disease Virus Rna-Polymerase Rna Dependent
In Complex With A Template-Primer Rna And 5f-Utp
pdb|2E9Z|A Chain A, Foot-And-Mouth Disease Virus Rna-Polymerase In Complex
With A Template- Primer Rna, Atp And Utp
pdb|2EC0|A Chain A, Rna-Dependent Rna Polymerase Of Foot-And-Mouth Disease
Virus In Complex With A Template-Primer Rna And Atp
pdb|2EC0|D Chain D, Rna-Dependent Rna Polymerase Of Foot-And-Mouth Disease
Virus In Complex With A Template-Primer Rna And Atp
Length = 476
Score = 30.8 bits (68), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 17 NFAELYAIIKATEKLEK------AYVRDIISSSEYETECQKLIAHFKTLSSTL 63
N LYA+ + E +E +Y DI+ +S+Y+ + + L HFK+L T+
Sbjct: 312 NIYVLYALRRHYEGVELDTYTMISYGDDIVVASDYDLDFEALKPHFKSLGQTI 364
>pdb|3KNA|A Chain A, M296i Mutant Of Foot-And-Mouth Disease Virus
Rna-Polymerase In Complex With A Template- Primer Rna
pdb|3KOA|A Chain A, M296i Mutant Of Foot-And-Mouth Disease Virus
Rna-Polymerase In Complex With A Template- Primer Rna
And Gtp
Length = 476
Score = 30.8 bits (68), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 17 NFAELYAIIKATEKLEK------AYVRDIISSSEYETECQKLIAHFKTLSSTL 63
N LYA+ + E +E +Y DI+ +S+Y+ + + L HFK+L T+
Sbjct: 312 NIYVLYALRRHYEGVELDTYTMISYGDDIVVASDYDLDFEALKPHFKSLGQTI 364
>pdb|3KMQ|A Chain A, G62s Mutant Of Foot-And-Mouth Disease Virus Rna-Polymerase
In Complex With A Template- Primer Rna, Tetragonal
Structure
pdb|3KMS|A Chain A, G62s Mutant Of Foot-And-Mouth Disease Virus Rna-Polymerase
In Complex With A Template- Primer Rna Trigonal
Structure
Length = 476
Score = 30.8 bits (68), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 17 NFAELYAIIKATEKLEK------AYVRDIISSSEYETECQKLIAHFKTLSSTL 63
N LYA+ + E +E +Y DI+ +S+Y+ + + L HFK+L T+
Sbjct: 312 NIYVLYALRRHYEGVELDTYTMISYGDDIVVASDYDLDFEALKPHFKSLGQTI 364
>pdb|2D7S|A Chain A, Foot And Mouth Disease Virus Rna-Dependent Rna Polymerase
In Complex With Vpg Protein
pdb|2F8E|X Chain X, Foot And Mouth Disease Virus Rna-dependent Rna Polymerase
In Complex With Uridylylated Vpg Protein
Length = 474
Score = 30.8 bits (68), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 17 NFAELYAIIKATEKLEK------AYVRDIISSSEYETECQKLIAHFKTLSSTL 63
N LYA+ + E +E +Y DI+ +S+Y+ + + L HFK+L T+
Sbjct: 312 NIYVLYALRRHYEGVELDTYTMISYGDDIVVASDYDLDFEALKPHFKSLGQTI 364
>pdb|3KLV|A Chain A, M296i G62s Mutant Of Foot-And-Mouth Disease Virus
Rna-Polymerase In Complex With A Template- Primer Rna
Length = 476
Score = 30.8 bits (68), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 17 NFAELYAIIKATEKLEK------AYVRDIISSSEYETECQKLIAHFKTLSSTL 63
N LYA+ + E +E +Y DI+ +S+Y+ + + L HFK+L T+
Sbjct: 312 NIYVLYALRRHYEGVELDTYTMISYGDDIVVASDYDLDFEALKPHFKSLGQTI 364
>pdb|3NL0|A Chain A, Mutant P44s M296i Of Foot-And-Mouth Disease Virus
Rna-Dependent Rna Polymerase
Length = 475
Score = 30.8 bits (68), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 17 NFAELYAIIKATEKLEK------AYVRDIISSSEYETECQKLIAHFKTLSSTL 63
N LYA+ + E +E +Y DI+ +S+Y+ + + L HFK+L T+
Sbjct: 312 NIYVLYALRRHYEGVELDTYTMISYGDDIVVASDYDLDFEALKPHFKSLGQTI 364
>pdb|3NKY|A Chain A, Structure Of A Mutant P44s Of Foot-And-Mouth Disease Virus
Rna- Dependent Rna Polymerase
Length = 476
Score = 30.8 bits (68), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 17 NFAELYAIIKATEKLEK------AYVRDIISSSEYETECQKLIAHFKTLSSTL 63
N LYA+ + E +E +Y DI+ +S+Y+ + + L HFK+L T+
Sbjct: 312 NIYVLYALRRHYEGVELDTYTMISYGDDIVVASDYDLDFEALKPHFKSLGQTI 364
>pdb|4IQX|A Chain A, Mutant P44s P169s M296i Of Foot-and-mouth Disease Virus
Rna-dependent Rna Polymerase
Length = 481
Score = 30.8 bits (68), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 17 NFAELYAIIKATEKLEK------AYVRDIISSSEYETECQKLIAHFKTLSSTL 63
N LYA+ + E +E +Y DI+ +S+Y+ + + L HFK+L T+
Sbjct: 312 NIYVLYALRRHYEGVELDTYTMISYGDDIVVASDYDLDFEALKPHFKSLGQTI 364
>pdb|3NMA|A Chain A, Mutant P169s Of Foot-And-Mouth Disease Virus Rna Dependent
Rna- Polymerase
Length = 476
Score = 30.8 bits (68), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 17 NFAELYAIIKATEKLEK------AYVRDIISSSEYETECQKLIAHFKTLSSTL 63
N LYA+ + E +E +Y DI+ +S+Y+ + + L HFK+L T+
Sbjct: 312 NIYVLYALRRHYEGVELDTYTMISYGDDIVVASDYDLDFEALKPHFKSLGQTI 364
>pdb|2QCS|B Chain B, A Complex Structure Between The Catalytic And Regulatory
Subunit Of Protein Kinase A That Represents The
Inhibited State
Length = 291
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 10 REREMYENFAELYAIIKATEKLEKAYVRDIISSSEYETECQKLIAH 55
R+R+MYE F +I+++ +K E+ V D + ++E + QK++
Sbjct: 150 RKRKMYEEFLSKVSILESLDKWERLTVADALEPVQFE-DGQKIVVQ 194
>pdb|1NE4|A Chain A, Crystal Structure Of Rp-Camp Binding R1a Subunit Of Camp-
Dependent Protein Kinase
pdb|1NE6|A Chain A, Crystal Structure Of Sp-Camp Binding R1a Subunit Of Camp-
Dependent Protein Kinase
Length = 283
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 10 REREMYENFAELYAIIKATEKLEKAYVRDIISSSEYETECQKLIAH 55
R+R+MYE F +I+++ +K E+ V D + ++E + QK++
Sbjct: 146 RKRKMYEEFLSKVSILESLDKWERLTVADALEPVQFE-DGQKIVVQ 190
>pdb|1RL3|A Chain A, Crystal Structure Of Camp-free R1a Subunit Of Pka
pdb|1RL3|B Chain B, Crystal Structure Of Camp-free R1a Subunit Of Pka
pdb|1RGS|A Chain A, Regulatory Subunit Of Camp Dependent Protein Kinase
Length = 288
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 10 REREMYENFAELYAIIKATEKLEKAYVRDIISSSEYETECQKLIAH 55
R+R+MYE F +I+++ +K E+ V D + ++E + QK++
Sbjct: 148 RKRKMYEEFLSKVSILESLDKWERLTVADALEPVQFE-DGQKIVVQ 192
>pdb|1EVY|A Chain A, Crystal Structure Of Leishmania Mexicana
Glycerol-3-phosphate Dehydrogenase
pdb|1EVZ|A Chain A, Crystal Structure Of Leishmania Mexicana
Glycerol-3-Phosphate Dehydrogenase In Complex With Nad
pdb|1JDJ|A Chain A, Crystal Structure Of Leishmania Mexicana
Glycerol-3-Phosphate Dehydrogenase In Complex With
2-Fluoro-6-Chloropurine
pdb|1M66|A Chain A, Crystal Structure Of Leishmania Mexicana Gpdh Complexed
With Inhibitor 2-Bromo-6-Chloro-Purine
pdb|1M67|A Chain A, Crystal Structure Of Leishmania Mexicana Gpdh Complexed
With Inhibitor 2-Bromo-6-Hydroxy-Purine
pdb|1N1E|A Chain A, Crystal Structure Of Leishmania Mexicana Glycerol-3-
Phosphate Dehydrogenase Complexed With Dhap And Nad
pdb|1N1E|B Chain B, Crystal Structure Of Leishmania Mexicana Glycerol-3-
Phosphate Dehydrogenase Complexed With Dhap And Nad
pdb|1N1G|A Chain A, Crystal Structure Of Leishmania Mexicana
Glycerol-3-Phosphate Dehydrogenase With Inhibitor Bcp
Length = 366
Score = 28.9 bits (63), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 21/34 (61%)
Query: 2 EVKLWNDKREREMYENFAELYAIIKATEKLEKAY 35
EV+L N+KRE ++ +L + I T +EKAY
Sbjct: 50 EVRLVNEKRENVLFLKGVQLASNITFTSDVEKAY 83
>pdb|2QVS|B Chain B, Crystal Structure Of Type Iia Holoenzyme Of Camp-Dependent
Protein Kinase
Length = 310
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 30/49 (61%), Gaps = 1/49 (2%)
Query: 7 NDKREREMYENFAELYAIIKATEKLEKAYVRDIISSSEYETECQKLIAH 55
N+ ++R+M+E+F E + K+ E E+ + D+I Y+ + +++IA
Sbjct: 150 NNAKKRKMFESFIESVPLFKSLEMSERMKIVDVIGEKIYK-DGERIIAQ 197
>pdb|4DIN|B Chain B, Novel Localization And Quaternary Structure Of The Pka Ri
Beta Holoenzyme
Length = 381
Score = 28.5 bits (62), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 23/37 (62%)
Query: 10 REREMYENFAELYAIIKATEKLEKAYVRDIISSSEYE 46
R+R+MYE F +I+++ EK E+ V D + ++E
Sbjct: 241 RKRKMYEEFLSKVSILESLEKWERLTVADALEPVQFE 277
>pdb|3BT7|A Chain A, Structure Of E. Coli 5-Methyluridine Methyltransferase
Trma In Complex With 19 Nucleotide T-Arm Analogue
pdb|3BT7|B Chain B, Structure Of E. Coli 5-Methyluridine Methyltransferase
Trma In Complex With 19 Nucleotide T-Arm Analogue
Length = 369
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 31/59 (52%), Gaps = 5/59 (8%)
Query: 28 TEKLEKAYVRDIISSSEYETECQKLIAHFKTLSSTLK-DIVPSIERFADTYKMDCPAAL 85
TEK+ +AY R + S ET C+ L +TLS T K + + ++F T+ M C L
Sbjct: 312 TEKMVQAYPRILYISCNPETLCKNL----ETLSQTHKVERLALFDQFPYTHHMQCGVLL 366
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
0.316 0.129 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,875,231
Number of Sequences: 62578
Number of extensions: 149790
Number of successful extensions: 415
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 26
Number of HSP's successfully gapped in prelim test: 4
Number of HSP's that attempted gapping in prelim test: 381
Number of HSP's gapped (non-prelim): 31
length of query: 209
length of database: 14,973,337
effective HSP length: 94
effective length of query: 115
effective length of database: 9,091,005
effective search space: 1045465575
effective search space used: 1045465575
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: 49 (23.5 bits)