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= 045361
(148 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 = 82.4 bits (202), Expect = 8e-17, Method: Compositional matrix adjust.
Identities = 44/66 (66%), Positives = 50/66 (75%), Gaps = 1/66 (1%)
Query: 81 KTEFDVVIDEVPSNARIAVIKAVRTLTNLALKEAKDLIEGLPKKFKEGVSKDDAEAAKKQ 140
KTEFDV++ +N ++AVIKAVR T L LKEAKDL+E P KEGVSKDDAEA KK
Sbjct: 52 KTEFDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKA 110
Query: 141 LEEAGA 146
LEEAGA
Sbjct: 111 LEEAGA 116
>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 = 82.4 bits (202), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 44/66 (66%), Positives = 50/66 (75%), Gaps = 1/66 (1%)
Query: 81 KTEFDVVIDEVPSNARIAVIKAVRTLTNLALKEAKDLIEGLPKKFKEGVSKDDAEAAKKQ 140
KTEFDV++ +N ++AVIKAVR T L LKEAKDL+E P KEGVSKDDAEA KK
Sbjct: 51 KTEFDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKA 109
Query: 141 LEEAGA 146
LEEAGA
Sbjct: 110 LEEAGA 115
>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 = 82.0 bits (201), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 44/66 (66%), Positives = 50/66 (75%), Gaps = 1/66 (1%)
Query: 81 KTEFDVVIDEVPSNARIAVIKAVRTLTNLALKEAKDLIEGLPKKFKEGVSKDDAEAAKKQ 140
KTEFDV++ +N ++AVIKAVR T L LKEAKDL+E P KEGVSKDDAEA KK
Sbjct: 50 KTEFDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKA 108
Query: 141 LEEAGA 146
LEEAGA
Sbjct: 109 LEEAGA 114
>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 = 82.0 bits (201), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 44/66 (66%), Positives = 50/66 (75%), Gaps = 1/66 (1%)
Query: 81 KTEFDVVIDEVPSNARIAVIKAVRTLTNLALKEAKDLIEGLPKKFKEGVSKDDAEAAKKQ 140
KTEFDV++ +N ++AVIKAVR T L LKEAKDL+E P KEGVSKDDAEA KK
Sbjct: 5 KTEFDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKA 63
Query: 141 LEEAGA 146
LEEAGA
Sbjct: 64 LEEAGA 69
>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 = 78.2 bits (191), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 42/64 (65%), Positives = 48/64 (75%), Gaps = 1/64 (1%)
Query: 83 EFDVVIDEVPSNARIAVIKAVRTLTNLALKEAKDLIEGLPKKFKEGVSKDDAEAAKKQLE 142
EFDV++ +N ++AVIKAVR T L LKEAKDL+E P KEGVSKDDAEA KK LE
Sbjct: 1 EFDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALE 59
Query: 143 EAGA 146
EAGA
Sbjct: 60 EAGA 63
>pdb|2ZJQ|5 Chain 5, Interaction Of L7 With L11 Induced By Microccocin Binding
To The Deinococcus Radiodurans 50s Subunit
Length = 122
Score = 60.5 bits (145), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 36/67 (53%), Positives = 47/67 (70%), Gaps = 2/67 (2%)
Query: 81 KTEFDVVIDEVPSNARIAVIKAVRTLTNLALKEAKDLIEGLPKKFKEGVSKDDAEAAKKQ 140
KTEFDVV+ + ++ +I VIK +R +T L LKEAKD+ E KEGV+KD+AE K Q
Sbjct: 54 KTEFDVVLIDAGAS-KINVIKEIRGITGLGLKEAKDMSE-KGGVLKEGVAKDEAEKMKAQ 111
Query: 141 LEEAGAK 147
LE AGA+
Sbjct: 112 LEAAGAR 118
>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 = 58.9 bits (141), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 37/67 (55%), Positives = 46/67 (68%), Gaps = 4/67 (5%)
Query: 81 KTEFDVVIDEVPSNARIAVIKAVRTLTNLALKEAKDLIE-GLPKKFKEGVSKDDAEAAKK 139
KTEFDV++ E + ++ VIK +R +T L LKEAKDL E G P KEGVSK +AE KK
Sbjct: 57 KTEFDVILKEAGAK-KLEVIKELRAITGLGLKEAKDLAEKGGP--VKEGVSKQEAEEIKK 113
Query: 140 QLEEAGA 146
+LE GA
Sbjct: 114 KLEAVGA 120
>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 = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 41/69 (59%), Positives = 48/69 (69%), Gaps = 4/69 (5%)
Query: 81 KTEFDVVIDEVPSNARIAVIKAVRTLTNLALKEAKDLIE--GLPKK-FKEGVSKDDAEAA 137
KTEFDVV+ N +I VIK VR +T L LKEAKDL+E G P K GVSK++AE
Sbjct: 56 KTEFDVVLKSFGQN-KIQVIKVVREITGLGLKEAKDLVEKAGSPDAVIKSGVSKEEAEEI 114
Query: 138 KKQLEEAGA 146
KK+LEEAGA
Sbjct: 115 KKKLEEAGA 123
>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 = 36.2 bits (82), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 34/131 (25%), Positives = 57/131 (43%), Gaps = 6/131 (4%)
Query: 22 KIEKLATEISSLTLQEVCNLVDYLQDKLXXXXXXXXXXXXXXXXXXXXXXXXXXX----- 76
KI++L +I+SLTL E+ +L + L+ L
Sbjct: 2 KIQQLVQDIASLTLLEISDLNELLKKTLKIQDVGLMPMGGMVPGAAPAPTAPEAAEEDVP 61
Query: 77 XXXXKTEFDVVIDEVPSNARIAVIKAVRT-LTNLALKEAKDLIEGLPKKFKEGVSKDDAE 135
+T F V + E ++ +IK ++ + + L +AK L+E LP++ K V+K +AE
Sbjct: 62 KQKERTHFTVRLTEAKPVDKVKLIKEIKNYVQGINLVQAKKLVESLPQEIKANVAKAEAE 121
Query: 136 AAKKQLEEAGA 146
K LE G
Sbjct: 122 KIKAALEAVGG 132
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
0.312 0.129 0.343
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,985,316
Number of Sequences: 62578
Number of extensions: 82199
Number of successful extensions: 291
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 271
Number of HSP's gapped (non-prelim): 20
length of query: 148
length of database: 14,973,337
effective HSP length: 90
effective length of query: 58
effective length of database: 9,341,317
effective search space: 541796386
effective search space used: 541796386
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 47 (22.7 bits)