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= psy4492
(96 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 54.3 bits (129), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 31/72 (43%), Positives = 42/72 (58%)
Query: 25 QSLFTVKLVKYDDKQKVPLIKEIKGLLEGMNLVQAKKFVESIPAVVKTDVTXXXXXXXXX 84
++ FTV+L + KV LIKEIK ++G+NLVQAKK VES+P +K +V
Sbjct: 66 RTHFTVRLTEAKPVDKVKLIKEIKNYVQGINLVQAKKLVESLPQEIKANVAKAEAEKIKA 125
Query: 85 XXXXVGGEVSVE 96
VGG V +E
Sbjct: 126 ALEAVGGTVVLE 137
>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 = 32.3 bits (72), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 1/64 (1%)
Query: 32 LVKYDDKQKVPLIKEIKGLLEGMNLVQAKKFVESIPAVVKTDVTXXXXXXXXXXXXXVGG 91
++K KV +IK ++G G+ L +AK VES PA +K V+ G
Sbjct: 57 ILKAAGANKVAVIKAVRGAT-GLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEEAGA 115
Query: 92 EVSV 95
EV V
Sbjct: 116 EVEV 119
>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 = 32.3 bits (72), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 1/64 (1%)
Query: 32 LVKYDDKQKVPLIKEIKGLLEGMNLVQAKKFVESIPAVVKTDVTXXXXXXXXXXXXXVGG 91
++K KV +IK ++G G+ L +AK VES PA +K V+ G
Sbjct: 58 ILKAAGANKVAVIKAVRGAT-GLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEEAGA 116
Query: 92 EVSV 95
EV V
Sbjct: 117 EVEV 120
>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 = 32.3 bits (72), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 1/64 (1%)
Query: 32 LVKYDDKQKVPLIKEIKGLLEGMNLVQAKKFVESIPAVVKTDVTXXXXXXXXXXXXXVGG 91
++K KV +IK ++G G+ L +AK VES PA +K V+ G
Sbjct: 11 ILKAAGANKVAVIKAVRGAT-GLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEEAGA 69
Query: 92 EVSV 95
EV V
Sbjct: 70 EVEV 73
>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 = 32.3 bits (72), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 1/64 (1%)
Query: 32 LVKYDDKQKVPLIKEIKGLLEGMNLVQAKKFVESIPAVVKTDVTXXXXXXXXXXXXXVGG 91
++K KV +IK ++G G+ L +AK VES PA +K V+ G
Sbjct: 56 ILKAAGANKVAVIKAVRGAT-GLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEEAGA 114
Query: 92 EVSV 95
EV V
Sbjct: 115 EVEV 118
>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 = 32.3 bits (72), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 30/64 (46%), Gaps = 1/64 (1%)
Query: 32 LVKYDDKQKVPLIKEIKGLLEGMNLVQAKKFVESIPAVVKTDVTXXXXXXXXXXXXXVGG 91
++K KV +IK ++G G+ L +AK VES PA +K V+ G
Sbjct: 5 ILKAAGANKVAVIKAVRGAT-GLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEEAGA 63
Query: 92 EVSV 95
EV V
Sbjct: 64 EVEV 67
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 0.136 0.353
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,504,307
Number of Sequences: 62578
Number of extensions: 36591
Number of successful extensions: 186
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 178
Number of HSP's gapped (non-prelim): 10
length of query: 96
length of database: 14,973,337
effective HSP length: 62
effective length of query: 34
effective length of database: 11,093,501
effective search space: 377179034
effective search space used: 377179034
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: 45 (21.9 bits)