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= 043314
(273 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PRB|A Chain A, Structural Analysis Of Protein Folding By The
Methanococcus Jannaschii Chaperone Fkbp26
pdb|3PRB|B Chain B, Structural Analysis Of Protein Folding By The
Methanococcus Jannaschii Chaperone Fkbp26
pdb|3PRD|A Chain A, Structural Analysis Of Protein Folding By The
Methanococcus Jannaschii Chaperone Fkbp26
Length = 231
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 40/81 (49%), Gaps = 6/81 (7%)
Query: 62 IKILMVEEFESNIVKERTGKRLLLTGDVNVTIKNGVARVEDIEFTDNSNWIRSRKFRIGA 121
IKI V + + NIVKE + DV VTI+NG ++E EF I++ K I
Sbjct: 143 IKIEEVVDDKKNIVKEIVKMYVPRLSDVKVTIRNGTVKIELPEFAPFIPNIQTAKMAIAN 202
Query: 122 KVAQWTYHGVRIREAITEAFV 142
++ + R+ +A +FV
Sbjct: 203 EILK------RLEDAEKVSFV 217
>pdb|3HHS|A Chain A, Crystal Structure Of Manduca Sexta Prophenoloxidase
Length = 694
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 18/37 (48%)
Query: 119 IGAKVAQWTYHGVRIREAITEAFVVKDHRGELYKKHH 155
+G + W +H V A E V KD RGEL+ H
Sbjct: 208 LGINLHHWHWHLVYPFSASDEKIVAKDRRGELFFYMH 244
>pdb|3HHS|B Chain B, Crystal Structure Of Manduca Sexta Prophenoloxidase
Length = 684
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 27/57 (47%), Gaps = 4/57 (7%)
Query: 103 IEFTDNSNWIRSR--KFR--IGAKVAQWTYHGVRIREAITEAFVVKDHRGELYKKHH 155
I +T N+ R FR IG + W +H V ++ + V KD RGEL+ H
Sbjct: 182 INYTANTTEPEQRVAYFREDIGINLHHWHWHLVYPFDSADRSIVNKDRRGELFYYMH 238
>pdb|3SIP|A Chain A, Crystal Structure Of Drice And Diap1-Bir1 Complex
pdb|3SIP|C Chain C, Crystal Structure Of Drice And Diap1-Bir1 Complex
Length = 157
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 29/49 (59%), Gaps = 3/49 (6%)
Query: 38 DHLQIVVVKTRSGSRIAPANLSQPIKILMVEEFESNIVKERTGKRLLLT 86
+H ++ +K+R+G+ + NL++ +K L +FE + K+ K +L T
Sbjct: 29 EHFEVPTLKSRAGTNVDCENLTRVLKQL---DFEVTVYKDCRYKDILRT 74
>pdb|3SIR|A Chain A, Crystal Structure Of Drice
pdb|3SIR|B Chain B, Crystal Structure Of Drice
pdb|3SIR|C Chain C, Crystal Structure Of Drice
pdb|3SIR|D Chain D, Crystal Structure Of Drice
Length = 259
Score = 27.7 bits (60), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 14/49 (28%), Positives = 29/49 (59%), Gaps = 3/49 (6%)
Query: 38 DHLQIVVVKTRSGSRIAPANLSQPIKILMVEEFESNIVKERTGKRLLLT 86
+H ++ +K+R+G+ + NL++ +K L +FE + K+ K +L T
Sbjct: 29 EHFEVPTLKSRAGTNVDCENLTRVLKQL---DFEVTVYKDCRYKDILRT 74
>pdb|3FIH|M Chain M, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 30s Subunit, Trnas And The Ternary
Complex.
pdb|2WWL|M Chain M, E.Coli 70s Ribosome Stalled During Translation Of Tnac
Leader Peptide. This File Contains The 30s, The P-Site
Trna And The Tnac Leader Peptide (Part 1 Of 2).
pdb|3OFP|M Chain M, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome.
pdb|3OFB|M Chain M, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 30s Subunit Of
The Second 70s Ribosome.
pdb|3OFY|M Chain M, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome
pdb|3OAR|M Chain M, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome
Length = 113
Score = 27.3 bits (59), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 44 VVKTRSGSRIAPANLSQPIKILMVEEFESNIVKERTGKRLLLTGDVNVTIKNGVARVEDI 103
V KTRS + +A A +++ +KI + E + + +++ K ++ GD+ I + R+ D+
Sbjct: 24 VGKTRSKAILAAAGIAEDVKISELSEGQIDTLRDEVAK-FVVEGDLRREISMSIKRLMDL 82
>pdb|3OFO|M Chain M, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 30s Subunit Of The
First 70s Ribosome.
pdb|3OFA|M Chain M, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 30s Subunit Of
The First 70s Ribosome.
pdb|3OFX|M Chain M, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 30s Subunit Of The
First 70s Ribosome.
pdb|3OAQ|M Chain M, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 30s Subunit Of The
First 70s Ribosome.
pdb|2YKR|M Chain M, 30s Ribosomal Subunit With Rsga Bound In The Presence Of
Gmppnp
pdb|4A2I|M Chain M, Cryo-Electron Microscopy Structure Of The 30s Subunit In
Complex With The Yjeq Biogenesis Factor
pdb|3J18|M Chain M, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(30s Subunit)
pdb|4GD1|M Chain M, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|4GD2|M Chain M, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
Length = 114
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 44 VVKTRSGSRIAPANLSQPIKILMVEEFESNIVKERTGKRLLLTGDVNVTIKNGVARVEDI 103
V KTRS + +A A +++ +KI + E + + +++ K ++ GD+ I + R+ D+
Sbjct: 24 VGKTRSKAILAAAGIAEDVKISELSEGQIDTLRDEVAK-FVVEGDLRREISMSIKRLMDL 82
>pdb|2GY9|M Chain M, Structure Of The 30s Subunit Of A Pre-Translocational E.
Coli Ribosome Obtained By Fitting Atomic Models For Rna
And Protein Components Into Cryo-Em Map Emd-1056
pdb|2GYB|M Chain M, Structure Of The 30s Subunit Of A Secm-Stalled E. Coli
Ribosome Complex Obtained By Fitting Atomic Models For
Rna And Protein Components Into Cryo-Em Map Emd-1143
Length = 115
Score = 27.3 bits (59), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 44 VVKTRSGSRIAPANLSQPIKILMVEEFESNIVKERTGKRLLLTGDVNVTIKNGVARVEDI 103
V KTRS + +A A +++ +KI + E + + +++ K ++ GD+ I + R+ D+
Sbjct: 24 VGKTRSKAILAAAGIAEDVKISELSEGQIDTLRDEVAK-FVVEGDLRREISMSIKRLMDL 82
>pdb|1VS5|M Chain M, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|1VS7|M Chain M, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|3E1A|F Chain F, Structure Of The 30s Subunit And The Trnas Of E. Coli
Ribosome In Pre- Accommodation State
pdb|3E1C|F Chain F, Structure Of The 30s Subunit And The Trnas Of E. Coli
Ribosome In Post-Accommodation State
pdb|3I1M|M Chain M, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1O|M Chain M, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1Q|M Chain M, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1S|M Chain M, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1Z|M Chain M, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I21|M Chain M, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KC4|M Chain M, Ribosome-Secy Complex. This Entry 3kc4 Contains 30s
Ribosomal Subnit. The 50s Ribosomal Subunit Can Be Found
In Pdb Entry 3kcr
pdb|3IYX|M Chain M, Coordinates Of The B1b Bridge-Forming Protein Structures
Fitted Into The Cryo-Em Map Of E.Coli 70s Ribosome
(Emd-1056)
pdb|3IYY|M Chain M, Coordinates Of The B1b Bridge-Forming Protein Structures
Fitted Into The Cryo-Em Map Of Efg.Gdpnp-Bound E.Coli
70s Ribosome(Emd-1363)
pdb|3OR9|M Chain M, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 30s Subunit Of The First
70s Ribosome.
pdb|3ORA|M Chain M, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 30s Subunit Of The
Second 70s Ribosome.
pdb|3IZV|Q Chain Q, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Small Subunit Of A Ribosome Programmed With A
Near-Cognate Codon, AT-Site Trna, P-Site Trna, Mrna And
Ef-Tu
pdb|3IZW|Q Chain Q, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding.This Entry Contains The
Small Subunit Of A Ribosome Programmed With A Cognate
Codon, AT-Site Trna, P-Site Trna, Mrna And Ef-Tu
pdb|3SFS|M Chain M, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3UOQ|M Chain M, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|4GAQ|M Chain M, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAS|M Chain M, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 118
Score = 27.3 bits (59), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 34/60 (56%), Gaps = 1/60 (1%)
Query: 44 VVKTRSGSRIAPANLSQPIKILMVEEFESNIVKERTGKRLLLTGDVNVTIKNGVARVEDI 103
V KTRS + +A A +++ +KI + E + + +++ K ++ GD+ I + R+ D+
Sbjct: 25 VGKTRSKAILAAAGIAEDVKISELSEGQIDTLRDEVAK-FVVEGDLRREISMSIKRLMDL 83
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 0.408
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,691,390
Number of Sequences: 62578
Number of extensions: 298545
Number of successful extensions: 714
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 711
Number of HSP's gapped (non-prelim): 11
length of query: 273
length of database: 14,973,337
effective HSP length: 97
effective length of query: 176
effective length of database: 8,903,271
effective search space: 1566975696
effective search space used: 1566975696
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)