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= 037146
(185 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 = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 36/67 (53%), Positives = 47/67 (70%), Gaps = 1/67 (1%)
Query: 118 FDLKLAGYGAEAKLKVIKEVRGFTGLGLKESKELVEKVPTLLKRGVTKDEADKIVAKLKE 177
FD+ L GA K+ VIK VRG TGLGLKE+K+LVE P LK GV+KD+A+ + L+E
Sbjct: 55 FDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEE 113
Query: 178 VGAQVSM 184
GA+V +
Sbjct: 114 AGAEVEV 120
>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 = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 36/67 (53%), Positives = 47/67 (70%), Gaps = 1/67 (1%)
Query: 118 FDLKLAGYGAEAKLKVIKEVRGFTGLGLKESKELVEKVPTLLKRGVTKDEADKIVAKLKE 177
FD+ L GA K+ VIK VRG TGLGLKE+K+LVE P LK GV+KD+A+ + L+E
Sbjct: 54 FDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEE 112
Query: 178 VGAQVSM 184
GA+V +
Sbjct: 113 AGAEVEV 119
>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 = 65.9 bits (159), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 36/67 (53%), Positives = 47/67 (70%), Gaps = 1/67 (1%)
Query: 118 FDLKLAGYGAEAKLKVIKEVRGFTGLGLKESKELVEKVPTLLKRGVTKDEADKIVAKLKE 177
FD+ L GA K+ VIK VRG TGLGLKE+K+LVE P LK GV+KD+A+ + L+E
Sbjct: 53 FDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEE 111
Query: 178 VGAQVSM 184
GA+V +
Sbjct: 112 AGAEVEV 118
>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 = 65.5 bits (158), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 36/67 (53%), Positives = 47/67 (70%), Gaps = 1/67 (1%)
Query: 118 FDLKLAGYGAEAKLKVIKEVRGFTGLGLKESKELVEKVPTLLKRGVTKDEADKIVAKLKE 177
FD+ L GA K+ VIK VRG TGLGLKE+K+LVE P LK GV+KD+A+ + L+E
Sbjct: 8 FDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEE 66
Query: 178 VGAQVSM 184
GA+V +
Sbjct: 67 AGAEVEV 73
>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 = 65.1 bits (157), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 36/67 (53%), Positives = 47/67 (70%), Gaps = 1/67 (1%)
Query: 118 FDLKLAGYGAEAKLKVIKEVRGFTGLGLKESKELVEKVPTLLKRGVTKDEADKIVAKLKE 177
FD+ L GA K+ VIK VRG TGLGLKE+K+LVE P LK GV+KD+A+ + L+E
Sbjct: 2 FDVILKAAGAN-KVAVIKAVRGATGLGLKEAKDLVESAPAALKEGVSKDDAEALKKALEE 60
Query: 178 VGAQVSM 184
GA+V +
Sbjct: 61 AGAEVEV 67
>pdb|2ZJQ|5 Chain 5, Interaction Of L7 With L11 Induced By Microccocin Binding
To The Deinococcus Radiodurans 50s Subunit
Length = 122
Score = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 36/67 (53%), Positives = 50/67 (74%), Gaps = 2/67 (2%)
Query: 118 FDLKLAGYGAEAKLKVIKEVRGFTGLGLKESKELVEKVPTLLKRGVTKDEADKIVAKLKE 177
FD+ L GA +K+ VIKE+RG TGLGLKE+K++ EK +LK GV KDEA+K+ A+L+
Sbjct: 57 FDVVLIDAGA-SKINVIKEIRGITGLGLKEAKDMSEK-GGVLKEGVAKDEAEKMKAQLEA 114
Query: 178 VGAQVSM 184
GA+V +
Sbjct: 115 AGARVEL 121
>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 = 54.7 bits (130), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 36/67 (53%), Positives = 48/67 (71%), Gaps = 2/67 (2%)
Query: 118 FDLKLAGYGAEAKLKVIKEVRGFTGLGLKESKELVEKVPTLLKRGVTKDEADKIVAKLKE 177
FD+ L GA+ KL+VIKE+R TGLGLKE+K+L EK +K GV+K EA++I KL+
Sbjct: 60 FDVILKEAGAK-KLEVIKELRAITGLGLKEAKDLAEKGGP-VKEGVSKQEAEEIKKKLEA 117
Query: 178 VGAQVSM 184
VGA V +
Sbjct: 118 VGAVVEL 124
>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 = 53.9 bits (128), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 43/141 (30%), Positives = 74/141 (52%), Gaps = 9/141 (6%)
Query: 49 KVASIVDEISCLSLVEVMDLADVVRNKLGIKE---MPNMCVMMPGMGFSXXXXXXXXXXX 105
K+ +V +I+ L+L+E+ DL ++++ L I++ MP M M+PG +
Sbjct: 2 KIQQLVQDIASLTLLEISDLNELLKKTLKIQDVGLMP-MGGMVPGAAPAPTAPEAAEEDV 60
Query: 106 XXXXXXXXXXXXFDLKLAGYGAEAKLKVIKEVRGFT-GLGLKESKELVEKVPTLLKRGVT 164
F ++L K+K+IKE++ + G+ L ++K+LVE +P +K V
Sbjct: 61 PKQKERTH----FTVRLTEAKPVDKVKLIKEIKNYVQGINLVQAKKLVESLPQEIKANVA 116
Query: 165 KDEADKIVAKLKEVGAQVSME 185
K EA+KI A L+ VG V +E
Sbjct: 117 KAEAEKIKAALEAVGGTVVLE 137
>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 = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 35/70 (50%), Positives = 52/70 (74%), Gaps = 4/70 (5%)
Query: 118 FDLKLAGYGAEAKLKVIKEVRGFTGLGLKESKELVEKVPT---LLKRGVTKDEADKIVAK 174
FD+ L +G + K++VIK VR TGLGLKE+K+LVEK + ++K GV+K+EA++I K
Sbjct: 59 FDVVLKSFG-QNKIQVIKVVREITGLGLKEAKDLVEKAGSPDAVIKSGVSKEEAEEIKKK 117
Query: 175 LKEVGAQVSM 184
L+E GA+V +
Sbjct: 118 LEEAGAEVEL 127
>pdb|2VSK|A Chain A, Hendra Virus Attachment Glycoprotein In Complex With Human
Cell Surface Receptor Ephrinb2
pdb|2VSK|C Chain C, Hendra Virus Attachment Glycoprotein In Complex With Human
Cell Surface Receptor Ephrinb2
Length = 416
Score = 31.2 bits (69), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 43/85 (50%), Gaps = 3/85 (3%)
Query: 4 LRFITLHVSRNFKSSLQNPRSAT--NSHLLNRISARDYCTPSQEPSEKVASIVDEISCLS 61
L +++ V N + +NP A ++ +L ++ + T +Q+ + + I C+S
Sbjct: 330 LNWVSAGVYLNSNQTAENPVFAVFKDNEILYQVPLAEDDTNAQKTITDCFLLENVIWCIS 389
Query: 62 LVEVMDLAD-VVRNKLGIKEMPNMC 85
LVE+ D D V+R KL ++P C
Sbjct: 390 LVEIYDTGDSVIRPKLFAVKIPAQC 414
>pdb|2X9M|A Chain A, Hendra Virus Attachment Glycoprotein
pdb|2X9M|B Chain B, Hendra Virus Attachment Glycoprotein
pdb|2X9M|C Chain C, Hendra Virus Attachment Glycoprotein
pdb|2X9M|D Chain D, Hendra Virus Attachment Glycoprotein
Length = 420
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 43/85 (50%), Gaps = 3/85 (3%)
Query: 4 LRFITLHVSRNFKSSLQNPRSAT--NSHLLNRISARDYCTPSQEPSEKVASIVDEISCLS 61
L +++ V N + +NP A ++ +L ++ + T +Q+ + + I C+S
Sbjct: 333 LNWVSAGVYLNSNQTAENPVFAVFKDNEILYQVPLAEDDTNAQKTITDCFLLENVIWCIS 392
Query: 62 LVEVMDLAD-VVRNKLGIKEMPNMC 85
LVE+ D D V+R KL ++P C
Sbjct: 393 LVEIYDTGDSVIRPKLFAVKIPAQC 417
>pdb|2VSM|A Chain A, Nipah Virus Attachment Glycoprotein In Complex With Human
Cell Surface Receptor Ephrinb2
Length = 416
Score = 30.4 bits (67), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 55 DEISCLSLVEVMDLAD-VVRNKLGIKEMPNMCV 86
++I C+SLVE+ D D V+R KL ++P C
Sbjct: 383 NKIWCISLVEIYDTGDNVIRPKLFAVKIPEQCT 415
>pdb|2VWD|A Chain A, Nipah Virus Attachment Glycoprotein
pdb|2VWD|B Chain B, Nipah Virus Attachment Glycoprotein
Length = 420
Score = 30.4 bits (67), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 55 DEISCLSLVEVMDLAD-VVRNKLGIKEMPNMCV 86
++I C+SLVE+ D D V+R KL ++P C
Sbjct: 388 NKIWCISLVEIYDTGDNVIRPKLFAVKIPEQCT 420
>pdb|3D11|A Chain A, Crystal Structures Of The Nipah G Attachment Glycoprotein
pdb|3D12|A Chain A, Crystal Structures Of Nipah Virus G Attachment
Glycoprotein In Complex With Its Receptor Ephrin-B3
pdb|3D12|D Chain D, Crystal Structures Of Nipah Virus G Attachment
Glycoprotein In Complex With Its Receptor Ephrin-B3
Length = 428
Score = 30.4 bits (67), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%), Gaps = 1/33 (3%)
Query: 55 DEISCLSLVEVMDLAD-VVRNKLGIKEMPNMCV 86
++I C+SLVE+ D D V+R KL ++P C
Sbjct: 395 NKIWCISLVEIYDTGDNVIRPKLFAVKIPEQCT 427
>pdb|2CVJ|A Chain A, Crystal Structure Of Thioredoxin Reductase-Related Protein
Ttha0370 From Thermus Thermophilus Hb8
pdb|2YWL|A Chain A, Crystal Structure Of Thioredoxin Reductase-Related Protein
Ttha0370 From Thermus Thermophilus Hb8
pdb|2YWL|B Chain B, Crystal Structure Of Thioredoxin Reductase-Related Protein
Ttha0370 From Thermus Thermophilus Hb8
Length = 180
Score = 26.6 bits (57), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 16/35 (45%), Positives = 21/35 (60%)
Query: 125 YGAEAKLKVIKEVRGFTGLGLKESKELVEKVPTLL 159
YGAE + V+K VR G+ E++E VEK LL
Sbjct: 69 YGAEVRPGVVKGVRDXGGVFEVETEEGVEKAERLL 103
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
0.317 0.133 0.365
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,303,072
Number of Sequences: 62578
Number of extensions: 134299
Number of successful extensions: 553
Number of sequences better than 100.0: 18
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 540
Number of HSP's gapped (non-prelim): 18
length of query: 185
length of database: 14,973,337
effective HSP length: 93
effective length of query: 92
effective length of database: 9,153,583
effective search space: 842129636
effective search space used: 842129636
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: 48 (23.1 bits)