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= psy8483
(161 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|A Chain A, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 216
Score = 194 bits (494), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 91/159 (57%), Positives = 116/159 (72%)
Query: 3 SKVSRDTLYECVNGVLNNAKVNKKRFLQTVELQIGLKNYDPQKDKRFSGTVKLKHIPRPK 62
SK+ D + + + ++ A+ K++F +TVELQIGLKNYDPQKDKRFSG+VKL HIPRPK
Sbjct: 2 SKLQSDAVKDAITQIVGEAREKKRKFTETVELQIGLKNYDPQKDKRFSGSVKLPHIPRPK 61
Query: 63 MQVCILGDQQHCDEAKAANVPFMDVEXXXXXXXXXXXXXXXXXXYDAFLASDALIKQIPR 122
M+VC+LGD QH D+A+ + +MDVE Y AFLAS+A+IKQIPR
Sbjct: 62 MRVCMLGDAQHVDQAEKMGLDYMDVESLKKMNKNKKLVKKLAKKYHAFLASEAIIKQIPR 121
Query: 123 LLGPGLNKAGKFPGLLSHQESMTQKIDEVKGTIKFQMKK 161
LLGPGLNKAGKFP L+SHQES+ K++E K T+KFQ+KK
Sbjct: 122 LLGPGLNKAGKFPTLVSHQESLEAKVNETKATVKFQLKK 160
>pdb|1S1I|A Chain A, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is
In File 1s1h.
pdb|3IZS|A Chain A, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|A Chain A, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|A Chain A, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit
Length = 217
Score = 154 bits (388), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 78/160 (48%), Positives = 104/160 (65%), Gaps = 1/160 (0%)
Query: 3 SKVSRDTLYECVNGVLNNAKVNKKR-FLQTVELQIGLKNYDPQKDKRFSGTVKLKHIPRP 61
SK++ + E V +L + KKR FL+TVELQ+GLKNYDPQ+DKRFSG++KL + PRP
Sbjct: 2 SKITSSQVREHVKELLKYSNETKKRNFLETVELQVGLKNYDPQRDKRFSGSLKLPNCPRP 61
Query: 62 KMQVCILGDQQHCDEAKAANVPFMDVEXXXXXXXXXXXXXXXXXXYDAFLASDALIKQIP 121
M +CI GD D AK+ V M V+ Y+AF+AS+ LIKQ+P
Sbjct: 62 NMSICIFGDAFDVDRAKSCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIASEVLIKQVP 121
Query: 122 RLLGPGLNKAGKFPGLLSHQESMTQKIDEVKGTIKFQMKK 161
RLLGP L+KAGKFP +SH + + K+ +V+ TIKFQ+KK
Sbjct: 122 RLLGPQLSKAGKFPTPVSHNDDLYGKVTDVRSTIKFQLKK 161
>pdb|2NOQ|G Chain G, Structure Of Ribosome-Bound Cricket Paralysis Virus Ires
Rna
pdb|3JYW|A Chain A, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
pdb|3J0L|B Chain B, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas
Fitted To A 9.8a Cryo-Em Map: Classic Pre State 1
pdb|3J0O|B Chain B, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas
Fitted To A 9a Cryo-Em Map: Classic Pre State 2
pdb|3J0P|B Chain B, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas
Fitted To A 10.6a Cryo-Em Map: Rotated Pre State 1
pdb|3J0Q|B Chain B, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas
Fitted To A 10.6a Cryo-Em Map: Rotated Pre State 2
Length = 213
Score = 150 bits (380), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 76/158 (48%), Positives = 102/158 (64%), Gaps = 1/158 (0%)
Query: 5 VSRDTLYECVNGVLNNAKVNKKR-FLQTVELQIGLKNYDPQKDKRFSGTVKLKHIPRPKM 63
++ + E V +L + KKR FL+TVELQ+GLKNYDPQ+DKRFSG++KL + PRP M
Sbjct: 1 ITSSQVREHVKELLKYSNETKKRNFLETVELQVGLKNYDPQRDKRFSGSLKLPNCPRPNM 60
Query: 64 QVCILGDQQHCDEAKAANVPFMDVEXXXXXXXXXXXXXXXXXXYDAFLASDALIKQIPRL 123
+CI GD D AK+ V M V+ Y+AF+AS+ LIKQ+PRL
Sbjct: 61 SICIFGDAFDVDRAKSCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIASEVLIKQVPRL 120
Query: 124 LGPGLNKAGKFPGLLSHQESMTQKIDEVKGTIKFQMKK 161
LGP L+KAGKFP +SH + + K+ +V+ TIKFQ+KK
Sbjct: 121 LGPQLSKAGKFPTPVSHNDDLYGKVTDVRSTIKFQLKK 158
>pdb|3ZF7|J Chain J, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 214
Score = 141 bits (356), Expect = 2e-34, Method: Compositional matrix adjust.
Identities = 69/159 (43%), Positives = 103/159 (64%), Gaps = 2/159 (1%)
Query: 3 SKVSRDTLYECVNGVLNNAKVNKKRFLQTVELQIGLKNYDPQKDKRFSGTVKLKHIPRPK 62
SK+ L E + VL + K +++F ++++LQ+ LKNYDPQKDKRFSG+V+L H+ RP+
Sbjct: 2 SKIPPALLSEAIQNVLKDRK--ERKFKESIDLQVNLKNYDPQKDKRFSGSVRLPHVCRPR 59
Query: 63 MQVCILGDQQHCDEAKAANVPFMDVEXXXXXXXXXXXXXXXXXXYDAFLASDALIKQIPR 122
M VC+L D H D AK +VP M+ E YDAFL S+++IK +PR
Sbjct: 60 MTVCLLCDLVHEDIAKKNDVPTMNQEELKKLNKNKKLVKKMCNQYDAFLCSESIIKTVPR 119
Query: 123 LLGPGLNKAGKFPGLLSHQESMTQKIDEVKGTIKFQMKK 161
L+GP +++ GKFP + + ES+ K+ E++ T+KFQ+KK
Sbjct: 120 LVGPHMHRVGKFPTVCAQNESLPDKVLELQSTVKFQLKK 158
>pdb|3J21|A Chain A, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 216
Score = 43.1 bits (100), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 32/142 (22%), Positives = 63/142 (44%), Gaps = 2/142 (1%)
Query: 21 AKVNKKRFLQTVELQIGLKNYDPQK-DKRFSGTVKLKHIPRPKMQVCILGDQQHCDEAKA 79
A+ + F Q+VE+ + LK+ D ++ + RF V L H +++ ++ D + A+
Sbjct: 17 ARAKPRNFTQSVEVAVNLKDIDLKRPENRFKLEVVLPHGRGKDVKIAVIADGAVAEAARK 76
Query: 80 ANVPFMDVEXXXXXXXXXXXXXXXXXXYDAFLASDALIKQIPRLLGPGLNKAGKFPGLLS 139
+ + YD F+A L+ +I R LG L K P ++
Sbjct: 77 LGLDVISSAELEEIASSPRQARKLAKKYDFFIAEAPLMPKIGRYLGRYLGPRNKMPVVVP 136
Query: 140 HQ-ESMTQKIDEVKGTIKFQMK 160
+T ++++K T++ Q+K
Sbjct: 137 PTLTDLTPIVEKLKKTVRIQLK 158
>pdb|3E1B|Z Chain Z, Structure Of The 50s Subunit Of E. Coli Ribosome In
Pre-Accommodation State
pdb|3E1D|Z Chain Z, Structure Of The 50s Subunit Of E. Coli Ribosome In
Post-Accommodation State
Length = 213
Score = 37.7 bits (86), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 31/154 (20%), Positives = 61/154 (39%)
Query: 7 RDTLYECVNGVLNNAKVNKKRFLQTVELQIGLKNYDPQKDKRFSGTVKLKHIPRPKMQVC 66
+++L E + L+ K+ F Q+VE+ + K D + D + V L P +V
Sbjct: 5 KESLIEALKLALSTEYNVKRNFTQSVEIILTFKGIDKKGDLKLREIVPLPKQPSKAKRVL 64
Query: 67 ILGDQQHCDEAKAANVPFMDVEXXXXXXXXXXXXXXXXXXYDAFLASDALIKQIPRLLGP 126
++ + + AK A+ + + + + R+LGP
Sbjct: 65 VVPSSEQLEYAKKASPKVVITREELQKLQGQKRPVKKLARQNEWFLINQESALAGRILGP 124
Query: 127 GLNKAGKFPGLLSHQESMTQKIDEVKGTIKFQMK 160
L GKFP L + +++ I+ K ++ + K
Sbjct: 125 ALGPRGKFPTPLPNTADISEYINRFKRSVLVKTK 158
>pdb|1MZP|A Chain A, Structure Of The L1 Protuberance In The Ribosome
pdb|1PNU|5 Chain 5, Crystal Structure Of A Streptomycin Dependent Ribosome
From Escherichia Coli, 50s Subunit Of 70s Ribosome. This
File, 1pnu, Contains Only Molecules Of The 50s Ribosomal
Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site
Trna Are In The Pdb File 1pns.
pdb|1PNY|5 Chain 5, Crystal Structure Of The Wild Type Ribosome From E. Coli,
50s Subunit Of 70s Ribosome. This File, 1pny, Contains
Only Molecules Of The 50s Ribosomal Subunit. The 30s
Subunit Is In The Pdb File 1pnx.
pdb|1VOR|7 Chain 7, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOU|7 Chain 7, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOW|7 Chain 7, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOY|7 Chain 7, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VP0|7 Chain 7, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400
Length = 217
Score = 37.4 bits (85), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 38/161 (23%), Positives = 68/161 (42%), Gaps = 12/161 (7%)
Query: 7 RDTLYECVNGVLNNAKVNKKRFLQTVELQIGLKNYDPQKDKRFSGTVKLKHI-PRPKM-- 63
+++L E + L+ K+ F Q+VE+ + K D +K G +KL+ I P PK
Sbjct: 5 KESLIEALKLALSTEYNVKRNFTQSVEIILTFKGIDXKK-----GDLKLREIVPLPKQPS 59
Query: 64 ---QVCILGDQQHCDEAKAANVPFMDV-EXXXXXXXXXXXXXXXXXXYDAFLASDALIKQ 119
+V ++ + + AK A+ + E + FL +
Sbjct: 60 KAKRVLVVPSSEQLEYAKKASPKVVITREELQKLQGQKRPVKKLARQNEWFLINQESXAL 119
Query: 120 IPRLLGPGLNKAGKFPGLLSHQESMTQKIDEVKGTIKFQMK 160
R+LGP L GKFP L + +++ I+ K ++ + K
Sbjct: 120 AGRILGPALGPRGKFPTPLPNTADISEYINRFKRSVLVKTK 160
>pdb|3QOY|A Chain A, Crystal Structure Of Ribosomal Protein L1 From Aquifex
Aeolicus
Length = 242
Score = 35.8 bits (81), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 77/160 (48%), Gaps = 13/160 (8%)
Query: 7 RDTLYECVNGVLNNAKVNKKRFLQTVELQIGLKNYDPQ-KDKRFSGTVKLKHIPRPKMQV 65
R TL E V+ + +V ++RF +TVEL + L N DP+ D+ G+V L H ++V
Sbjct: 20 RYTLEEAVDLLKKMEEVLQRRFDETVELAMRL-NVDPRYADQMVRGSVVLPHGLGKPIKV 78
Query: 66 CILGDQQHCDEAKAANVPFMDVEXXXXXXXXXXXXXXXXXXYDAFLASDALIKQIP---R 122
+ + ++ +A+ A ++ + +D +A+ ++ ++ R
Sbjct: 79 VVFAEGEYAKKAEEAGADYVGGD-----ELINKILKEEWTDFDVAIATPEMMPKVAKLGR 133
Query: 123 LLGP-GLNKAGKFPGLLSHQESMTQKIDEVKGTIKFQMKK 161
+LGP GL + K + ++ E + D +G ++F++ K
Sbjct: 134 ILGPRGLMPSPKTGTVTTNVEQAIK--DAKRGRVEFKVDK 171
>pdb|2ZKR|5 Chain 5, Structure Of A Mammalian Ribosomal 60s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 212
Score = 30.8 bits (68), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 27/135 (20%), Positives = 54/135 (40%), Gaps = 1/135 (0%)
Query: 25 KKRFLQTVELQIGLKNYDPQK-DKRFSGTVKLKHIPRPKMQVCILGDQQHCDEAKAANVP 83
++ F +TV+L + L++ D R +V L + + + + + A+
Sbjct: 19 ERNFRETVDLAVNLRDLDLNDPSNRVDESVVLPAGTGQETTIVVFAEGETALRAEEVADD 78
Query: 84 FMDVEXXXXXXXXXXXXXXXXXXYDAFLASDALIKQIPRLLGPGLNKAGKFPGLLSHQES 143
+D + D F+A L++ I R LG L GK P L +
Sbjct: 79 VLDEDELEELGGDDDAAKDLADDTDFFIAEKGLMQDIGRYLGTVLGPRGKMPEPLDPDDD 138
Query: 144 MTQKIDEVKGTIKFQ 158
+ + I+ +K T++ +
Sbjct: 139 VVEVIERMKNTVQLR 153
>pdb|3TG8|A Chain A, Mutant Ribosomal Protein L1 Lacking Ala158 From Thermus
Thermophilus
Length = 228
Score = 30.4 bits (67), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 37/146 (25%), Positives = 65/146 (44%), Gaps = 26/146 (17%)
Query: 27 RFLQTVELQIGLKNYDPQK-DKRFSGTVKLKHIPRPKMQVCILGDQQHCDEAKAANVPFM 85
+F +TVE+ L DP++ D+ GTV L H +++V + + EA+ A ++
Sbjct: 37 KFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGADYV 95
Query: 86 DVEXXXXXXXXXXXXXXXXXXYDAFLAS----DALIKQIPRLLGPGLNKAGKFPGLLSHQ 141
E +DA +A+ A+ ++ R+LGP GLL +
Sbjct: 96 GGE------EIIQKILDGWMDFDAVVATPDVMGAVGSKLGRILGP--------RGLLPNP 141
Query: 142 ESMT------QKIDEVKGTIKFQMKK 161
++ T + I E+KG I+F+ K
Sbjct: 142 KAGTVGFNIGEIIREIKGRIEFRNDK 167
>pdb|1CJS|A Chain A, Crystal Structure Of Ribosomal Protein L1 From
Methanococcus Jannaschii
pdb|1I2A|A Chain A, Crystal Structure Of L1 Ribosomal Protein From
Methanococcus Jannaschii With 1.85a Resolution
Length = 219
Score = 30.4 bits (67), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 32/152 (21%), Positives = 59/152 (38%), Gaps = 3/152 (1%)
Query: 5 VSRDTLYECVNGVLNNAKVNKKRFLQTVELQIGLKNYDPQK-DKRFSGTVKLKHIPRPKM 63
+ R+ L + V AK + F Q+ E LK D +K + R V L H +
Sbjct: 1 MDREALLQAVKEARELAK--PRNFTQSFEFIATLKEIDMRKPENRIKTEVVLPHGRGKEA 58
Query: 64 QVCILGDQQHCDEAKAANVPFMDVEXXXXXXXXXXXXXXXXXXYDAFLASDALIKQIPRL 123
++ ++G +A+ + + E +D F+A L+ I R
Sbjct: 59 KIAVIGTGDLAKQAEELGLTVIRKEEIEELGKNKRKLRKIAKAHDFFIAQADLMPLIGRY 118
Query: 124 LGPGLNKAGKFPGLLSHQESMTQKIDEVKGTI 155
+G L GK P + ++ ++ +K T+
Sbjct: 119 MGVILGPRGKMPKPVPANANIKPLVERLKKTV 150
>pdb|3BBO|D Chain D, Homology Model For The Spinach Chloroplast 50s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 352
Score = 29.6 bits (65), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 34/146 (23%), Positives = 65/146 (44%), Gaps = 16/146 (10%)
Query: 22 KVNKKRFLQTVELQIGLKNYDPQ-KDKRFSGTVKLKHIPRPKMQVCILGDQQHCDEAKAA 80
+++ +F++T E L N DP+ D++ TV L +++ +L DEAKAA
Sbjct: 146 QMSSTKFVETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKTVKIAVLAQGDKIDEAKAA 204
Query: 81 NVPFMDVEXXXXXXXXXXXXXXXXXXYDAFLASDALIKQIP---RLLGP-GLNKAGKFPG 136
+ E +D +A+ ++ ++ R+LGP GL P
Sbjct: 205 GADIVGGE------ELIEQIKGGFMDFDKLIATSDMMAKVASLGRILGPRGLMPT---PK 255
Query: 137 LLSHQESMTQKIDEV-KGTIKFQMKK 161
+ ++ Q ++E KG ++F++ K
Sbjct: 256 AGTVTPNVAQAVEEFKKGKVEFRVDK 281
>pdb|1DWU|A Chain A, Ribosomal Protein L1
pdb|1DWU|B Chain B, Ribosomal Protein L1
Length = 213
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 33/154 (21%), Positives = 64/154 (41%), Gaps = 7/154 (4%)
Query: 5 VSRDTLYECVNGVLNNAKVNKKRFLQTVELQIGLKNYDPQK-DKRFSGTVKLKHI--PRP 61
+ R+ + + V + AK + F Q+++L I LK D + + R V L + P
Sbjct: 1 MDRENILKAVKEARSLAK--PRNFTQSLDLIINLKELDLSRPENRLKEQVVLPNGRGKEP 58
Query: 62 KMQVCILGDQQHCDEAKAANVPFMDVEXXXXXXXXXXXXXXXXXXYDAFLASDALIKQIP 121
K+ V GD +A+ + + + +D F+A ++ +
Sbjct: 59 KIAVIAKGDL--AAQAEEMGLTVIRQDELEELGKNKKMAKKIANEHDFFIAQADMMPLVG 116
Query: 122 RLLGPGLNKAGKFPGLLSHQESMTQKIDEVKGTI 155
+ LGP L GK P + ++T ++ +K T+
Sbjct: 117 KTLGPVLGPRGKMPQPVPANANLTPLVERLKKTV 150
>pdb|1U63|A Chain A, The Structure Of A Ribosomal Protein L1-Mrna Complex
pdb|1U63|C Chain C, The Structure Of A Ribosomal Protein L1-Mrna Complex
Length = 219
Score = 27.7 bits (60), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 32/152 (21%), Positives = 57/152 (37%), Gaps = 3/152 (1%)
Query: 5 VSRDTLYECVNGVLNNAKVNKKRFLQTVELQIGLKNYDPQK-DKRFSGTVKLKHIPRPKM 63
+ R+ L + V AK + F Q+ E LK D +K + R V L H +
Sbjct: 1 MDREALLQAVKEARELAK--PRNFTQSFEFIATLKEIDXRKPENRIKTEVVLPHGRGKEA 58
Query: 64 QVCILGDQQHCDEAKAANVPFMDVEXXXXXXXXXXXXXXXXXXYDAFLASDALIKQIPRL 123
++ ++G +A+ + + E +D F+A L I R
Sbjct: 59 KIAVIGTGDLAKQAEELGLTVIRKEEIEELGKNKRKLRKIAKAHDFFIAQADLXPLIGRY 118
Query: 124 LGPGLNKAGKFPGLLSHQESMTQKIDEVKGTI 155
G L GK P + ++ ++ +K T+
Sbjct: 119 XGVILGPRGKXPKPVPANANIKPLVERLKKTV 150
>pdb|2V49|C Chain C, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 4 Of 4). This File Contains The 50s
Subunit Of Molecule 2
Length = 229
Score = 26.9 bits (58), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 37/146 (25%), Positives = 66/146 (45%), Gaps = 25/146 (17%)
Query: 27 RFLQTVELQIGLKNYDPQK-DKRFSGTVKLKHIPRPKMQVCILGDQQHCDEAKAANVPFM 85
+F +TVE+ L DP++ D+ GTV L H +++V + + EA+ A ++
Sbjct: 37 KFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGADYV 95
Query: 86 DVEXXXXXXXXXXXXXXXXXXYDAFLASDALIKQIPRLLGPGLNKAGKF---PGLLSHQE 142
E DA++ DA++ P ++G +K G+ GLL + +
Sbjct: 96 GGE------------EIIQKILDAWMDFDAVV-ATPDVMGAVGSKLGRILAPRGLLPNPK 142
Query: 143 SMT------QKIDEVK-GTIKFQMKK 161
+ T + I E+K G I+F+ K
Sbjct: 143 AGTVGFNIGEIIREIKAGRIEFRNDK 168
>pdb|1YLJ|A Chain A, Atomic Resolution Structure Of Ctx-M-9 Beta-Lactamase
pdb|1YLY|A Chain A, X-Ray Crystallographic Structure Of Ctx-M-9 Beta-Lactamase
Complexed With Ceftazidime-Like Boronic Acid
pdb|1YLY|B Chain B, X-Ray Crystallographic Structure Of Ctx-M-9 Beta-Lactamase
Complexed With Ceftazidime-Like Boronic Acid
pdb|1YM1|A Chain A, X-Ray Crystallographic Structure Of Ctx-M-9 Beta-Lactamase
Complexed With A Boronic Acid Inhibitor (Sm2)
pdb|1YM1|B Chain B, X-Ray Crystallographic Structure Of Ctx-M-9 Beta-Lactamase
Complexed With A Boronic Acid Inhibitor (Sm2)
pdb|1YMS|A Chain A, X-Ray Crystallographic Structure Of Ctx-M-9 Beta-Lactamase
Complexed With Nafcinin-Like Boronic Acid Inhibitor
pdb|1YMS|B Chain B, X-Ray Crystallographic Structure Of Ctx-M-9 Beta-Lactamase
Complexed With Nafcinin-Like Boronic Acid Inhibitor
pdb|1YMX|A Chain A, X-ray Crystallographic Structure Of Ctx-m-9 Beta-lactamase
Covalently Linked To Cefoxitin
pdb|1YMX|B Chain B, X-ray Crystallographic Structure Of Ctx-m-9 Beta-lactamase
Covalently Linked To Cefoxitin
pdb|3G2Z|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 2
(Gz2)
pdb|3G2Z|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 2
(Gz2)
pdb|3G30|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 3
(G30)
pdb|3G31|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 4
(Gf1)
pdb|3G31|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 4
(Gf1)
pdb|3G32|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 6
(3g3)
pdb|3G32|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 6
(3g3)
pdb|3G34|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 11
(1ce)
pdb|3G34|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 11
(1ce)
pdb|3G35|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 12
(F13)
pdb|3G35|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 12
(F13)
Length = 263
Score = 26.2 bits (56), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 17 VLNNAKVNKKRFLQTVELQIG-LKNYDPQKDKRFSGTVKLKHIPRPKMQ 64
VL ++ K+ Q VE++ L NY+P +K +GT+ L + +Q
Sbjct: 55 VLKQSETQKQLLNQPVEIKPADLVNYNPIAEKHVNGTMTLAELSAAALQ 103
>pdb|1YLW|A Chain A, X-ray Structure Of Ctx-m-16 Beta-lactamase
Length = 263
Score = 26.2 bits (56), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 17 VLNNAKVNKKRFLQTVELQIG-LKNYDPQKDKRFSGTVKLKHIPRPKMQ 64
VL ++ K+ Q VE++ L NY+P +K +GT+ L + +Q
Sbjct: 55 VLKQSETQKQLLNQPVEIKPADLVNYNPIAEKHVNGTMTLAELSAAALQ 103
>pdb|2P74|A Chain A, Ctx-M-9 Class A Beta-Lactamase Apo Crystal Structure At
0.88 Angstrom Resolution
pdb|2P74|B Chain B, Ctx-M-9 Class A Beta-Lactamase Apo Crystal Structure At
0.88 Angstrom Resolution
pdb|3G2Y|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 1
(Gf4)
pdb|3G2Y|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 1
(Gf4)
pdb|4DDS|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 11
pdb|4DDS|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 11
pdb|4DDY|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 10
pdb|4DDY|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 10
pdb|4DE0|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 16
pdb|4DE0|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 16
pdb|4DE1|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 18
pdb|4DE1|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 18
pdb|4DE2|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 12
pdb|4DE2|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 12
pdb|4DE3|A Chain A, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 4
pdb|4DE3|B Chain B, Ctx-M-9 Class A Beta-Lactamase Complexed With Compound 4
Length = 263
Score = 26.2 bits (56), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 17 VLNNAKVNKKRFLQTVELQIG-LKNYDPQKDKRFSGTVKLKHIPRPKMQ 64
VL ++ K+ Q VE++ L NY+P +K +GT+ L + +Q
Sbjct: 55 VLKQSETQKQLLNQPVEIKPADLVNYNPIAEKHVNGTMTLAELSAAALQ 103
>pdb|1YLT|A Chain A, Atomic Resolution Structure Of Ctx-M-14 Beta-Lactamase
pdb|1YLZ|A Chain A, X-Ray Crystallographic Structure Of Ctx-M-14
Beta-Lactamase Complexed With Ceftazidime-Like Boronic
Acid
pdb|1YLZ|B Chain B, X-Ray Crystallographic Structure Of Ctx-M-14
Beta-Lactamase Complexed With Ceftazidime-Like Boronic
Acid
Length = 263
Score = 26.2 bits (56), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 17 VLNNAKVNKKRFLQTVELQIG-LKNYDPQKDKRFSGTVKLKHIPRPKMQ 64
VL ++ K+ Q VE++ L NY+P +K +GT+ L + +Q
Sbjct: 55 VLKQSETQKQLLNQPVEIKPADLVNYNPIAEKHVNGTMTLAELSAAALQ 103
>pdb|1YLP|A Chain A, Atomic Resolution Structure Of Ctx-M-27 Beta-Lactamase
Length = 263
Score = 26.2 bits (56), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 17 VLNNAKVNKKRFLQTVELQ-IGLKNYDPQKDKRFSGTVKLKHIPRPKMQ 64
VL ++ K+ Q VE++ L NY+P +K +GT+ L + +Q
Sbjct: 55 VLKQSETQKQLLNQPVEIKHADLVNYNPIAEKHVNGTMTLAELSAAALQ 103
>pdb|3HUO|A Chain A, X-Ray Crystallographic Structure Of Ctx-M-9 S70g In
Complex With Benzylpenicillin
pdb|3HUO|B Chain B, X-Ray Crystallographic Structure Of Ctx-M-9 S70g In
Complex With Benzylpenicillin
pdb|3HVF|A Chain A, X-Ray Crystallographic Structure Of Ctx-M-9 S70g In
Complex With Hydrolyzed Benzylpenicillin
pdb|3HVF|B Chain B, X-Ray Crystallographic Structure Of Ctx-M-9 S70g In
Complex With Hydrolyzed Benzylpenicillin
pdb|3HLW|A Chain A, Ctx-M-9 S70g In Complex With Cefotaxime
pdb|3HLW|B Chain B, Ctx-M-9 S70g In Complex With Cefotaxime
pdb|3HRE|A Chain A, X-Ray Crystallographic Structure Of Ctx-M-9 S70g
pdb|3HRE|B Chain B, X-Ray Crystallographic Structure Of Ctx-M-9 S70g
pdb|3Q07|A Chain A, Ctx-M-9 S70g In Complex With Piperacillin
pdb|3Q07|B Chain B, Ctx-M-9 S70g In Complex With Piperacillin
pdb|3Q1F|A Chain A, Ctx-M-9 S70g In Complex With Hydrolyzed Piperacillin
pdb|3Q1F|B Chain B, Ctx-M-9 S70g In Complex With Hydrolyzed Piperacillin
Length = 263
Score = 26.2 bits (56), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 15/49 (30%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 17 VLNNAKVNKKRFLQTVELQIG-LKNYDPQKDKRFSGTVKLKHIPRPKMQ 64
VL ++ K+ Q VE++ L NY+P +K +GT+ L + +Q
Sbjct: 55 VLKQSETQKQLLNQPVEIKPADLVNYNPIAEKHVNGTMTLAELSAAALQ 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
0.318 0.135 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,983,772
Number of Sequences: 62578
Number of extensions: 130352
Number of successful extensions: 246
Number of sequences better than 100.0: 24
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 11
Number of HSP's that attempted gapping in prelim test: 229
Number of HSP's gapped (non-prelim): 24
length of query: 161
length of database: 14,973,337
effective HSP length: 91
effective length of query: 70
effective length of database: 9,278,739
effective search space: 649511730
effective search space used: 649511730
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: 47 (22.7 bits)