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= 045414
(214 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XTG|L Chain L, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUX|L Chain L, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|3SGF|J Chain J, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3SGF|K Chain K, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3SGF|L Chain L, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3SGF|M Chain M, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3UOS|J Chain J, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|3UOS|K Chain K, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|3UOS|L Chain L, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|3UOS|M Chain M, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
Length = 121
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 31/50 (62%), Positives = 37/50 (74%), Gaps = 1/50 (2%)
Query: 143 EKTAFDLKLESYDANAKVKIIKELRTFTDLGLKEAKDLVEKTPAVLKKGV 192
EKT FD+ L++ AN KV +IK +R T LGLKEAKDLVE PA LK+GV
Sbjct: 51 EKTEFDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGV 99
>pdb|1RQU|A Chain A, Nmr Structure Of L7 Dimer From E.Coli
pdb|1RQU|B Chain B, Nmr Structure Of L7 Dimer From E.Coli
pdb|1RQV|A Chain A, Spatial Model Of L7 Dimer From E.Coli With One Hinge
Region In Helical State
pdb|1RQV|B Chain B, Spatial Model Of L7 Dimer From E.Coli With One Hinge
Region In Helical State
Length = 120
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 31/50 (62%), Positives = 37/50 (74%), Gaps = 1/50 (2%)
Query: 143 EKTAFDLKLESYDANAKVKIIKELRTFTDLGLKEAKDLVEKTPAVLKKGV 192
EKT FD+ L++ AN KV +IK +R T LGLKEAKDLVE PA LK+GV
Sbjct: 50 EKTEFDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGV 98
>pdb|2GYA|3 Chain 3, Structure Of The 50s 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|2GYA|5 Chain 5, Structure Of The 50s 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|2GYC|3 Chain 3, Structure Of The 50s 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
pdb|2GYC|5 Chain 5, Structure Of The 50s 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 = 119
Score = 56.2 bits (134), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 31/50 (62%), Positives = 37/50 (74%), Gaps = 1/50 (2%)
Query: 143 EKTAFDLKLESYDANAKVKIIKELRTFTDLGLKEAKDLVEKTPAVLKKGV 192
EKT FD+ L++ AN KV +IK +R T LGLKEAKDLVE PA LK+GV
Sbjct: 49 EKTEFDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGV 97
>pdb|1RQS|A Chain A, Nmr Structure Of C-Terminal Domain Of Ribosomal Protein L7
From E.Coli
pdb|1CTF|A Chain A, Structure Of The C-Terminal Domain Of The Ribosomal
Protein L7L12 FROM ESCHERICHIA COLI AT 1.7 ANGSTROMS
Length = 74
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 31/50 (62%), Positives = 37/50 (74%), Gaps = 1/50 (2%)
Query: 143 EKTAFDLKLESYDANAKVKIIKELRTFTDLGLKEAKDLVEKTPAVLKKGV 192
EKT FD+ L++ AN KV +IK +R T LGLKEAKDLVE PA LK+GV
Sbjct: 4 EKTEFDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGV 52
>pdb|2BCW|B Chain B, Coordinates Of The N-Terminal Domain Of Ribosomal Protein
L11,C-Terminal Domain Of Ribosomal Protein L7L12 AND A
Portion Of The G' Domain Of Elongation Factor G, As
Fitted Into Cryo-Em Map Of An Escherichia Coli 70sEf-
GGdpFusidic Acid Complex
Length = 68
Score = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 28/46 (60%), Positives = 34/46 (73%), Gaps = 1/46 (2%)
Query: 147 FDLKLESYDANAKVKIIKELRTFTDLGLKEAKDLVEKTPAVLKKGV 192
FD+ L++ AN KV +IK +R T LGLKEAKDLVE PA LK+GV
Sbjct: 2 FDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGV 46
>pdb|1DD3|A Chain A, Crystal Structure Of Ribosomal Protein L12 From Thermotoga
Maritima
pdb|1DD3|B Chain B, Crystal Structure Of Ribosomal Protein L12 From Thermotoga
Maritima
pdb|1DD4|A Chain A, Crystal Structure Of Ribosomal Protein L12 From Thermotoga
Maritim
pdb|1DD4|B Chain B, Crystal Structure Of Ribosomal Protein L12 From Thermotoga
Maritim
pdb|1GIY|I Chain I, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1giy, Contains The 50s Ribosome Subunit. The
30s Ribosome Subunit, Three Trna, And Mrna Molecules Are
In The File 1gix
pdb|1GIY|J Chain J, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1giy, Contains The 50s Ribosome Subunit. The
30s Ribosome Subunit, Three Trna, And Mrna Molecules Are
In The File 1gix
pdb|1YL3|I Chain I, Crystal Structure Of 70s Ribosome With Thrs Operator And
Trnas. Large Subunit. The Coordinates For The Small
Subunit Are In The Pdb Entry 1yl4.
pdb|1YL3|J Chain J, Crystal Structure Of 70s Ribosome With Thrs Operator And
Trnas. Large Subunit. The Coordinates For The Small
Subunit Are In The Pdb Entry 1yl4
Length = 128
Score = 50.8 bits (120), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 30/55 (54%), Positives = 39/55 (70%), Gaps = 4/55 (7%)
Query: 141 KPEKTAFDLKLESYDANAKVKIIKELRTFTDLGLKEAKDLVEKT---PAVLKKGV 192
+ EKT FD+ L+S+ N K+++IK +R T LGLKEAKDLVEK AV+K GV
Sbjct: 53 QEEKTEFDVVLKSFGQN-KIQVIKVVREITGLGLKEAKDLVEKAGSPDAVIKSGV 106
>pdb|2ZJQ|5 Chain 5, Interaction Of L7 With L11 Induced By Microccocin Binding
To The Deinococcus Radiodurans 50s Subunit
Length = 122
Score = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 30/52 (57%), Positives = 36/52 (69%), Gaps = 4/52 (7%)
Query: 142 PEKTAFDLKLESYDANA-KVKIIKELRTFTDLGLKEAKDLVEKTPAVLKKGV 192
EKT FD+ L DA A K+ +IKE+R T LGLKEAKD+ EK VLK+GV
Sbjct: 52 EEKTEFDVVL--IDAGASKINVIKEIRGITGLGLKEAKDMSEK-GGVLKEGV 100
>pdb|2J01|L Chain L, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4).
This File Contains The 50s Subunit From Molecule I.
pdb|2J01|M Chain M, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 2 Of 4).
This File Contains The 50s Subunit From Molecule I.
pdb|2J03|L Chain L, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 4 Of 4).
This File Contains The 50s Subunit From Molecule Ii.
pdb|2J03|M Chain M, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 4 Of 4).
This File Contains The 50s Subunit From Molecule Ii.
pdb|3I8I|I Chain I, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8i Contains 50s Ribosomal Subnit. The 30s
Ribosomal Can Be Found In Pdb Entry 3i8h. Molecule A In
The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g
(30s).
pdb|3I8I|J Chain J, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8i Contains 50s Ribosomal Subnit. The 30s
Ribosomal Can Be Found In Pdb Entry 3i8h. Molecule A In
The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g
(30s)
Length = 125
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 29/51 (56%), Positives = 35/51 (68%), Gaps = 2/51 (3%)
Query: 142 PEKTAFDLKLESYDANAKVKIIKELRTFTDLGLKEAKDLVEKTPAVLKKGV 192
EKT FD+ L+ A K+++IKELR T LGLKEAKDL EK V K+GV
Sbjct: 55 EEKTEFDVILKEAGAK-KLEVIKELRAITGLGLKEAKDLAEKGGPV-KEGV 103
>pdb|2FTC|E Chain E, Structural Model For The Large Subunit Of The Mammalian
Mitochondrial Ribosome
pdb|2FTC|F Chain F, Structural Model For The Large Subunit Of The Mammalian
Mitochondrial Ribosome
Length = 137
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 36/73 (49%), Gaps = 1/73 (1%)
Query: 143 EKTAFDLKLESYDANAKVKIIKELRTFTD-LGLKEAKDLVEKTPAVLKKGVLXXXXXXXX 201
E+T F ++L KVK+IKE++ + + L +AK LVE P +K V
Sbjct: 65 ERTHFTVRLTEAKPVDKVKLIKEIKNYVQGINLVQAKKLVESLPQEIKANVAKAEAEKIK 124
Query: 202 XXXXXVGGKVIME 214
VGG V++E
Sbjct: 125 AALEAVGGTVVLE 137
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 0.134 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,742,241
Number of Sequences: 62578
Number of extensions: 139815
Number of successful extensions: 317
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 306
Number of HSP's gapped (non-prelim): 9
length of query: 214
length of database: 14,973,337
effective HSP length: 95
effective length of query: 119
effective length of database: 9,028,427
effective search space: 1074382813
effective search space used: 1074382813
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 49 (23.5 bits)