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= 004391
(757 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MQ3|A Chain A, Crystal Structure Of Native Bovine Pdp1c
pdb|3N3C|A Chain A, Crystal Structure Of Native Bovine Pdp1c
Length = 467
Score = 38.9 bits (89), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 702 AVQLSTDHSTSVEEEIIRIKAEHPDD--SQAVFNDRVKGQLKVTRAFG 747
AV LS DH+ E E+ R+K EHP + V DR+ G L RAFG
Sbjct: 236 AVTLSNDHNAQNEREVERLKLEHPKNEAKSVVKQDRLLGLLMPFRAFG 283
>pdb|2PNQ|A Chain A, Crystal Structure Of Pyruvate Dehydrogenase Phosphatase 1
(Pdp1)
pdb|2PNQ|B Chain B, Crystal Structure Of Pyruvate Dehydrogenase Phosphatase 1
(Pdp1)
Length = 467
Score = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/48 (45%), Positives = 27/48 (56%), Gaps = 2/48 (4%)
Query: 702 AVQLSTDHSTSVEEEIIRIKAEHPDD--SQAVFNDRVKGQLKVTRAFG 747
AV LS DH+ E E+ R+K EHP + V DR+ G L RAFG
Sbjct: 236 AVTLSNDHNAQNERELQRLKLEHPKNEAKSVVKQDRLLGLLMPFRAFG 283
>pdb|4DA1|A Chain A, Crystal Structure Of Branched-Chain Alpha-Ketoacid
Dehydrogenase Phosphatase With Mg (Ii) Ions At The
Active Site
Length = 389
Score = 36.6 bits (83), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 32/66 (48%), Gaps = 9/66 (13%)
Query: 281 CNLQWAHGKAGEDRVHVV-LSEEQGWLFIGIYDGFSGPDAPDFLMSHLYRAI------DK 333
C Q K EDR L++E L+ +YDG GP A DF +H+ + I +K
Sbjct: 126 CASQIGKRKENEDRFDFAQLTDE--VLYFAVYDGHGGPAAADFCHTHMEKCIMDLLPKEK 183
Query: 334 ELEGLL 339
LE LL
Sbjct: 184 NLETLL 189
>pdb|2IQ1|A Chain A, Crystal Structure Of Human Ppm1k
Length = 274
Score = 36.2 bits (82), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 39/83 (46%), Gaps = 12/83 (14%)
Query: 281 CNLQWAHGKAGEDRVHVV-LSEEQGWLFIGIYDGFSGPDAPDFLMSHLYRAI------DK 333
C Q K EDR L++E L+ +YDG GP A DF +H+ + I +K
Sbjct: 12 CASQIGKRKENEDRFDFAQLTDEV--LYFAVYDGHGGPAAADFCHTHMEKCIMDLLPKEK 69
Query: 334 ELEGLL---WDYEDKSPTDHPEL 353
LE LL + DK+ + H L
Sbjct: 70 NLETLLTLAFLEIDKAFSSHARL 92
>pdb|2POP|A Chain A, The Crystal Structure Of Tab1 And Bir1 Complex
pdb|2POP|C Chain C, The Crystal Structure Of Tab1 And Bir1 Complex
Length = 353
Score = 34.3 bits (77), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 36/72 (50%), Gaps = 11/72 (15%)
Query: 576 VLRAMAQALESTEEAYMEMVEKALDTNPELALM-----------GSCVLVMLMKDQDVYV 624
V R + QA + E +++E ++ AL L L G+ +V ++ + +YV
Sbjct: 104 VRRVLLQAFDVVERSFLESIDDALAEKASLQLERLKTLEREISGGAMAVVAVLLNNKLYV 163
Query: 625 MNLGDSRAILAQ 636
N+G +RA+L +
Sbjct: 164 ANVGTNRALLCK 175
>pdb|3OMW|A Chain A, Crystal Structure Of Ssu72, An Essential Eukaryotic
Phosphatase Specific For The C-Terminal Domain Of Rna
Polymerase Ii
pdb|3OMW|B Chain B, Crystal Structure Of Ssu72, An Essential Eukaryotic
Phosphatase Specific For The C-Terminal Domain Of Rna
Polymerase Ii
pdb|3OMW|C Chain C, Crystal Structure Of Ssu72, An Essential Eukaryotic
Phosphatase Specific For The C-Terminal Domain Of Rna
Polymerase Ii
pdb|3OMW|D Chain D, Crystal Structure Of Ssu72, An Essential Eukaryotic
Phosphatase Specific For The C-Terminal Domain Of Rna
Polymerase Ii
pdb|3OMX|A Chain A, Crystal Structure Of Ssu72 With Vanadate Complex
pdb|3OMX|B Chain B, Crystal Structure Of Ssu72 With Vanadate Complex
pdb|3OMX|C Chain C, Crystal Structure Of Ssu72 With Vanadate Complex
pdb|3OMX|D Chain D, Crystal Structure Of Ssu72 With Vanadate Complex
Length = 190
Score = 30.8 bits (68), Expect = 3.3, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 34/68 (50%)
Query: 669 DRISEESPMHNQNCQVNMMNKNRDISICRLKMRAVQLSTDHSTSVEEEIIRIKAEHPDDS 728
D S++ + QN ++M+++NR I C + + + D +VEE + + H +
Sbjct: 63 DLESKDKEFYTQNGLLHMLDRNRRIKKCPERFQDTKEQFDIIVTVEERVYDLVVMHMESM 122
Query: 729 QAVFNDRV 736
++V N V
Sbjct: 123 ESVDNRPV 130
>pdb|3JRQ|A Chain A, Crystal Structure Of (+)-aba-bound Pyl1 In Complex With
Abi1
Length = 326
Score = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 33/107 (30%), Positives = 53/107 (49%), Gaps = 10/107 (9%)
Query: 647 SFLKDDSRHKNRSRESLVRMELDRISEESPMHNQNCQVNMMNKNRDISICRLKMRAVQLS 706
SFL+ DS ++ + E++ + + S + NC +R + +CR K A+ LS
Sbjct: 121 SFLRVDSEIESVAPETVGSTSVVAVVFPSHIFVANC-----GDSRAV-LCRGKT-ALPLS 173
Query: 707 TDHSTSVEEEIIRIKAEHPDDSQAVFN-DRVKGQLKVTRAFGAGFLK 752
DH E+E RI+A Q +N RV G L ++R+ G +LK
Sbjct: 174 VDHKPDREDEAARIEAAGGKVIQ--WNGARVFGVLAMSRSIGDRYLK 218
>pdb|3KDJ|B Chain B, Complex Structure Of (+)-Aba-Bound Pyl1 And Abi1
Length = 316
Score = 30.4 bits (67), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 33/107 (30%), Positives = 53/107 (49%), Gaps = 10/107 (9%)
Query: 647 SFLKDDSRHKNRSRESLVRMELDRISEESPMHNQNCQVNMMNKNRDISICRLKMRAVQLS 706
SFL+ DS ++ + E++ + + S + NC +R + +CR K A+ LS
Sbjct: 106 SFLRVDSEIESVAPETVGSTSVVAVVFPSHIFVANC-----GDSRAV-LCRGKT-ALPLS 158
Query: 707 TDHSTSVEEEIIRIKAEHPDDSQAVFN-DRVKGQLKVTRAFGAGFLK 752
DH E+E RI+A Q +N RV G L ++R+ G +LK
Sbjct: 159 VDHKPDREDEAARIEAAGGKVIQ--WNGARVFGVLAMSRSIGDRYLK 203
>pdb|3P9Y|A Chain A, Crystal Structure Of The Drosophila Melanogaster
Ssu72-Pctd Complex
pdb|3P9Y|B Chain B, Crystal Structure Of The Drosophila Melanogaster
Ssu72-Pctd Complex
pdb|3P9Y|C Chain C, Crystal Structure Of The Drosophila Melanogaster
Ssu72-Pctd Complex
pdb|3P9Y|D Chain D, Crystal Structure Of The Drosophila Melanogaster
Ssu72-Pctd Complex
Length = 198
Score = 30.0 bits (66), Expect = 4.4, Method: Composition-based stats.
Identities = 17/68 (25%), Positives = 34/68 (50%)
Query: 669 DRISEESPMHNQNCQVNMMNKNRDISICRLKMRAVQLSTDHSTSVEEEIIRIKAEHPDDS 728
D S++ + QN ++M+++NR I C + + + D +VEE + + H +
Sbjct: 71 DLESKDKEFYTQNGLLHMLDRNRRIKKCPERFQDTKEQFDIIVTVEERVYDLVVMHMESM 130
Query: 729 QAVFNDRV 736
++V N V
Sbjct: 131 ESVDNRPV 138
>pdb|3NMN|B Chain B, Crystal Structure Of Pyrabactin-Bound Abscisic Acid
Receptor Pyl1 In Complex With Type 2c Protein
Phosphatase Abi1
pdb|3NMN|D Chain D, Crystal Structure Of Pyrabactin-Bound Abscisic Acid
Receptor Pyl1 In Complex With Type 2c Protein
Phosphatase Abi1
Length = 319
Score = 30.0 bits (66), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 33/107 (30%), Positives = 53/107 (49%), Gaps = 10/107 (9%)
Query: 647 SFLKDDSRHKNRSRESLVRMELDRISEESPMHNQNCQVNMMNKNRDISICRLKMRAVQLS 706
SFL+ DS ++ + E++ + + S + NC +R + +CR K A+ LS
Sbjct: 109 SFLRVDSEIESVAPETVGSTSVVAVVFPSHIFVANC-----GDSRAV-LCRGKT-ALPLS 161
Query: 707 TDHSTSVEEEIIRIKAEHPDDSQAVFN-DRVKGQLKVTRAFGAGFLK 752
DH E+E RI+A Q +N RV G L ++R+ G +LK
Sbjct: 162 VDHKPDREDEAARIEAAGGKVIQ--WNGARVFGVLAMSRSIGDRYLK 206
>pdb|3UW2|A Chain A, X-Ray Crystal Structure Of
PhosphoglucomutasePHOSPHOMANNOMUTASE Family Protein
(Bth_i1489)from Burkholderia Thailandensis
Length = 485
Score = 30.0 bits (66), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 26/52 (50%), Gaps = 5/52 (9%)
Query: 306 LFIGIYDGFSGPDAPDFLMSHLYRAIDKELEGLLWDYEDKSPTDHPELGHPK 357
L + +G +GP L + L++A+ EL L D + P HP+ HP+
Sbjct: 197 LVVDAGNGVAGP-----LATRLFKALGCELVELFTDIDGNFPNHHPDPAHPE 243
>pdb|3E1B|N Chain N, Structure Of The 50s Subunit Of E. Coli Ribosome In
Pre-Accommodation State
pdb|3E1D|N Chain N, Structure Of The 50s Subunit Of E. Coli Ribosome In
Post-Accommodation State
Length = 270
Score = 30.0 bits (66), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 434 LQIESWDGQGSTLISDIGPERKGSSDCQACQDTVGSSENL-----KGDNSVHRGEDPTTS 488
+QI + DG TL G RK +DC+A VG++E++ K + RG PT
Sbjct: 162 VQIVARDGAYVTLRLRSGEMRKVEADCRATLGEVGNAEHMLRVLGKAGAARWRGVRPTVR 221
Query: 489 G 489
G
Sbjct: 222 G 222
>pdb|2AW4|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2AWB|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 50s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes And Is
Described In Remark 400.
pdb|1VS6|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|1VS8|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2VHM|C Chain C, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 1 Of 4)
pdb|2VHN|C Chain C, Structure Of Pdf Binding Helix In Complex With The
Ribosome. (Part 2 Of 4)
pdb|3DF2|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 50s Subunit Of The First 70s Ribosome. The
Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|3DF4|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 50s Subunit Of The Second 70s Ribosome. The
Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|3BBX|C Chain C, The Hsp15 Protein Fitted Into The Low Resolution Cryo-Em
Map 50s.Nc-Trna.Hsp15 Complex
pdb|3I1N|C Chain C, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1P|C Chain C, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1R|C Chain C, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1T|C Chain C, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I20|C Chain C, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I22|C Chain C, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KCR|6 Chain 6, Ribosome-Secy Complex. This Entry 3kcr Contains 50s
Ribosomal Subnit. The 30s Ribosomal Subunit Can Be Found
In Pdb Entry 3kc4
pdb|1VT2|C Chain C, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3ORB|C Chain C, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 50s Subunit Of The First
70s Ribosome Bound To Cem-101.
pdb|3IZT|D Chain D, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A
Near-Cognate Codon.
pdb|3IZU|D Chain D, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A Cognate
Codon
pdb|3SGF|C Chain C, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3UOS|C Chain C, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|4GAR|C Chain C, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAU|C Chain C, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 273
Score = 30.0 bits (66), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 434 LQIESWDGQGSTLISDIGPERKGSSDCQACQDTVGSSENL-----KGDNSVHRGEDPTTS 488
+QI + DG TL G RK +DC+A VG++E++ K + RG PT
Sbjct: 162 VQIVARDGAYVTLRLRSGEMRKVEADCRATLGEVGNAEHMLRVLGKAGAARWRGVRPTVR 221
Query: 489 G 489
G
Sbjct: 222 G 222
>pdb|1P85|A Chain A, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The Ef-G.Gtp
State Of E. Coli 70s Ribosome
pdb|1P86|A Chain A, Real Space Refined Coordinates Of The 50s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The
Initiation-Like State Of E. Coli 70s Ribosome
pdb|2I2T|C Chain C, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2I2V|C Chain C, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QOV|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The First 70s Ribosome.
The Entire Crystal Structure Contains Two 70s Ribosomes.
pdb|2QOX|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 50s Subunit Of The Second 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QOZ|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
First 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QP1|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Neomycin Bound. The Entire
Crystal Structure Contains Two 70s Ribosomes.
pdb|2QAM|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The First 70s Ribosome, With
Neomycin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QAO|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Neomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBA|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The First 70s Ribosome, With
Gentamicin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QBC|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 50s Subunit Of The Second 70s Ribosome,
With Gentamicin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBE|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
First 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBG|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBI|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The First 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2QBK|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The Second 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4L|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The First 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|2Z4N|C Chain C, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The Second 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|2RDO|C Chain C, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
pdb|3J01|6 Chain 6, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|3J0T|D Chain D, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0W|D Chain D, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0Y|D Chain D, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J11|D Chain D, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 3 Of The Six
Classes)
pdb|3J12|D Chain D, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J14|D Chain D, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 6 Of The Six
Classes)
Length = 272
Score = 30.0 bits (66), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 434 LQIESWDGQGSTLISDIGPERKGSSDCQACQDTVGSSENL-----KGDNSVHRGEDPTTS 488
+QI + DG TL G RK +DC+A VG++E++ K + RG PT
Sbjct: 161 VQIVARDGAYVTLRLRSGEMRKVEADCRATLGEVGNAEHMLRVLGKAGAARWRGVRPTVR 220
Query: 489 G 489
G
Sbjct: 221 G 221
>pdb|3FIK|C Chain C, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 50s Subunit.
pdb|2WWQ|C Chain C, E.Coli 70s Ribosome Stalled During Translation Of Tnac
Leader Peptide. This File Contains The 50s, The P-Site
Trna And The Tnac Leader Peptide (Part 2 Of 2).
pdb|3OFQ|C Chain C, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OFR|C Chain C, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 50s Subunit Of The
First 70s Ribosome With Erthromycin Bound.
pdb|3OFC|C Chain C, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The First 70s Ribosome With Chloramphenicol Bound.
pdb|3OFD|C Chain C, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 50s Subunit Of
The Second 70s Ribosome.
pdb|3OFZ|C Chain C, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
First 70s Ribosome Bound To Clindamycin.
pdb|3OG0|C Chain C, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAS|C Chain C, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of The
Second 70s Ribosome.
pdb|3OAT|C Chain C, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 50s Subunit Of The
First 70s Ribosome With Telithromycin Bound.
pdb|3R8S|C Chain C, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3R8T|C Chain C, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|3J19|C Chain C, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(50s Subunit)
Length = 271
Score = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 434 LQIESWDGQGSTLISDIGPERKGSSDCQACQDTVGSSENL-----KGDNSVHRGEDPTTS 488
+QI + DG TL G RK +DC+A VG++E++ K + RG PT
Sbjct: 161 VQIVARDGAYVTLRLRSGEMRKVEADCRATLGEVGNAEHMLRVLGKAGAARWRGVRPTVR 220
Query: 489 G 489
G
Sbjct: 221 G 221
>pdb|2J28|C Chain C, Model Of E. Coli Srp Bound To 70s Rncs
Length = 267
Score = 29.6 bits (65), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 30/61 (49%), Gaps = 5/61 (8%)
Query: 434 LQIESWDGQGSTLISDIGPERKGSSDCQACQDTVGSSENL-----KGDNSVHRGEDPTTS 488
+QI + DG TL G RK +DC+A VG++E++ K + RG PT
Sbjct: 159 VQIVARDGAYVTLRLRSGEMRKVEADCRATLGEVGNAEHMLRVLGKAGAARWRGVRPTVR 218
Query: 489 G 489
G
Sbjct: 219 G 219
>pdb|3FDF|A Chain A, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Orthorhombic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FDF|B Chain B, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Orthorhombic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FDF|C Chain C, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Orthorhombic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FDF|D Chain D, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Orthorhombic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|A Chain A, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|B Chain B, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|C Chain C, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|D Chain D, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|E Chain E, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|F Chain F, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|G Chain G, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253.
pdb|3FMV|H Chain H, Crystal Structure Of The Serine Phosphatase Of Rna
Polymerase Ii Ctd (Ssu72 Superfamily) From Drosophila
Melanogaster. Monoclinic Crystal Form. Northeast
Structural Genomics Consortium Target Fr253
Length = 195
Score = 29.3 bits (64), Expect = 9.0, Method: Composition-based stats.
Identities = 21/93 (22%), Positives = 41/93 (44%), Gaps = 3/93 (3%)
Query: 644 PNPSFLKDDSRHKNRSRESLVRMELDRISEESPMHNQNCQVNMMNKNRDISICRLKMRAV 703
P +F K + E + R D S++ + QN ++ +++NR I C + +
Sbjct: 46 PGXAFDKPNVYEFGTKYEDIYR---DLESKDKEFYTQNGLLHXLDRNRRIKKCPERFQDT 102
Query: 704 QLSTDHSTSVEEEIIRIKAEHPDDSQAVFNDRV 736
+ D +VEE + + H + ++V N V
Sbjct: 103 KEQFDIIVTVEERVYDLVVXHXESXESVDNRPV 135
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
0.314 0.132 0.391
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,343,217
Number of Sequences: 62578
Number of extensions: 941551
Number of successful extensions: 1425
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 1406
Number of HSP's gapped (non-prelim): 37
length of query: 757
length of database: 14,973,337
effective HSP length: 106
effective length of query: 651
effective length of database: 8,340,069
effective search space: 5429384919
effective search space used: 5429384919
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 55 (25.8 bits)