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= 019646
(337 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 360 bits (923), Expect = e-100, Method: Compositional matrix adjust.
Identities = 168/206 (81%), Positives = 188/206 (91%)
Query: 131 RMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAG 190
+MSSTKF ETAEAHFRLNIDPKYNDQQLRATVSLPKGTGK+VK+AVLAQG+K +EAK AG
Sbjct: 146 QMSSTKFVETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKTVKIAVLAQGDKIDEAKAAG 205
Query: 191 ADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPKAGTVTTNIPQ 250
AD+VGG++LIEQIKGGFM+FDKLIA+ DMM KVASLG+ILGPRGLMP PKAGTVT N+ Q
Sbjct: 206 ADIVGGEELIEQIKGGFMDFDKLIATSDMMAKVASLGRILGPRGLMPTPKAGTVTPNVAQ 265
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
A+EEFKKGKVE+R DKTGIVHIPFGK +F E+DLLIN A +KS+E NKP GAKGVYWKS
Sbjct: 266 AVEEFKKGKVEFRVDKTGIVHIPFGKLNFEEEDLLINLFATIKSVETNKPTGAKGVYWKS 325
Query: 311 AYICSSMGPSIRLNIKEMLDYKLPSN 336
A+I SSMGPSIRLNI+EMLDYK PSN
Sbjct: 326 AHISSSMGPSIRLNIREMLDYKPPSN 351
>pdb|2J01|C Chain C, 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|C Chain C, 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|2V47|C Chain C, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 2 Of 4). This File Contains The 50s
Subunit For Molecule 1.
pdb|2OM7|K Chain K, Structural Basis For Interaction Of The Ribosome With The
Switch Regions Of Gtp-Bound Elongation Factors
pdb|2WDI|C Chain C, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 50s Subunit For Molecule I.
pdb|2WDJ|C Chain C, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 50s Subunit For Molecule Ii.
pdb|2WDL|C Chain C, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 50s
Subunit For Molecule I.
pdb|2WDN|C Chain C, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 50s
Subunit For Molecule Ii.
pdb|2WH2|C Chain C, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|2WH4|C Chain C, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|3HUX|C Chain C, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule I.
pdb|3HUZ|C Chain C, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule Ii.
pdb|2WRJ|C Chain C, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 2 Of 4).
pdb|2WRL|C Chain C, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State. (Part 4 Of
4).
pdb|2WRO|C Chain C, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 2 Of 4).
pdb|2WRR|C Chain C, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 4 Of 4).
pdb|3KIR|C Chain C, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 2 Of 4)
pdb|3KIT|C Chain C, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 4 Of 4)
pdb|3KIW|C Chain C, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 2 Of 4)
pdb|3KIY|C Chain C, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 4 Of 4)
pdb|3KNI|C Chain C, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 50s Subunit For Molecule I
pdb|3KNK|C Chain C, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 50s Subunit For Molecule Ii.
pdb|3KNM|C Chain C, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule I.
pdb|3KNO|C Chain C, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule Ii
pdb|2X9S|C Chain C, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2X9U|C Chain C, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2XG0|C Chain C, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 2 Of 4)
pdb|2XG2|C Chain C, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 4 Of 4)
pdb|2XQE|C Chain C, The Structure Of Ef-Tu And Aminoacyl-Trna Bound To The 70s
Ribosome With A Gtp Analog
pdb|2XTG|C Chain C, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUX|C Chain C, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|2Y0V|C Chain C, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0X|C Chain C, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0Z|C Chain C, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y11|C Chain C, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|2Y13|C Chain C, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y15|C Chain C, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y17|C Chain C, Ef-Tu Complex 3
pdb|2Y19|C Chain C, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome
Length = 229
Score = 223 bits (567), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 102/194 (52%), Positives = 145/194 (74%), Gaps = 1/194 (0%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGA
Sbjct: 33 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA 92
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQ 250
D VGG+++I++I G+M+FD ++A+PD+M V S LG+ILGPRGL+PNPKAGTV NI +
Sbjct: 93 DYVGGEEIIQKILDGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPKAGTVGFNIGE 152
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
I E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S
Sbjct: 153 IIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRS 212
Query: 311 AYICSSMGPSIRLN 324
Y+ ++MGPS+R+N
Sbjct: 213 VYVTTTMGPSVRIN 226
>pdb|1GIY|C Chain C, 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|1ML5|CC Chain c, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1YL3|C Chain C, 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 = 228
Score = 223 bits (567), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 102/194 (52%), Positives = 145/194 (74%), Gaps = 1/194 (0%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGA
Sbjct: 32 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA 91
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQ 250
D VGG+++I++I G+M+FD ++A+PD+M V S LG+ILGPRGL+PNPKAGTV NI +
Sbjct: 92 DYVGGEEIIQKILDGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPKAGTVGFNIGE 151
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
I E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S
Sbjct: 152 IIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRS 211
Query: 311 AYICSSMGPSIRLN 324
Y+ ++MGPS+R+N
Sbjct: 212 VYVTTTMGPSVRIN 225
>pdb|1EG0|N Chain N, Fitting Of Components With Known Structure Into An 11.5 A
Cryo-Em Map Of The E.Coli 70s Ribosome
pdb|2HGJ|C Chain C, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
Showing How The 16s 3'-End Mimicks Mrna E And P Codons.
This Entry 2hgj Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgi.
pdb|2HGQ|C Chain C, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
With Translocated And Rotated Shine-Dalgarno Duplex.
This Entry 2hgq Contains 50s Ribosomal Subunit. The 30s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgp.
pdb|2HGU|C Chain C, 70s T.Th. Ribosome Functional Complex With Mrna And E- And
P-Site Trnas At 4.5a. This Entry 2hgu Contains 50s
Ribosomal Subunit. The 30s Ribosomal Subunit Can Be
Found In Pdb Entry 2hgr.
pdb|1VSA|A Chain A, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals
Functional Interactions And Rearrangements. This File,
1vsa, Contains The 50s Ribosome Subunit. 30s Ribosome
Subunit Is In The File 2ow8
pdb|1VSP|A Chain A, Interactions And Dynamics Of The Shine-Dalgarno Helix In
The 70s Ribosome. This File, 1vsp, Contains The 50s
Ribosome Subunit. 30s Ribosome Subunit Is In The File
2qnh
pdb|3U4M|A Chain A, Crystal Structure Of Ribosomal Protein Tthl1 In Complex
With 80nt 23s Rna From Thermus Thermophilus
Length = 229
Score = 223 bits (567), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 102/194 (52%), Positives = 145/194 (74%), Gaps = 1/194 (0%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGA
Sbjct: 33 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA 92
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQ 250
D VGG+++I++I G+M+FD ++A+PD+M V S LG+ILGPRGL+PNPKAGTV NI +
Sbjct: 93 DYVGGEEIIQKILDGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPKAGTVGFNIGE 152
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
I E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S
Sbjct: 153 IIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRS 212
Query: 311 AYICSSMGPSIRLN 324
Y+ ++MGPS+R+N
Sbjct: 213 VYVTTTMGPSVRIN 226
>pdb|4F9T|A Chain A, Ribosomal Protein L1 From Thermus Thermophilus With
Substitution Thr217ala
Length = 229
Score = 222 bits (566), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 102/194 (52%), Positives = 145/194 (74%), Gaps = 1/194 (0%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGA
Sbjct: 33 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA 92
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQ 250
D VGG+++I++I G+M+FD ++A+PD+M V S LG+ILGPRGL+PNPKAGTV NI +
Sbjct: 93 DYVGGEEIIQKILDGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPKAGTVGFNIGE 152
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
I E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S
Sbjct: 153 IIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRS 212
Query: 311 AYICSSMGPSIRLN 324
Y+ ++MGPS+R+N
Sbjct: 213 VYVTTAMGPSVRIN 226
>pdb|3UMY|A Chain A, Crystal Structure Of Mutant Ribosomal Protein T217a Tthl1
In Complex With 80nt 23s Rna From Thermus Thermophilus
Length = 228
Score = 222 bits (566), Expect = 2e-58, Method: Compositional matrix adjust.
Identities = 102/194 (52%), Positives = 145/194 (74%), Gaps = 1/194 (0%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGA
Sbjct: 32 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA 91
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQ 250
D VGG+++I++I G+M+FD ++A+PD+M V S LG+ILGPRGL+PNPKAGTV NI +
Sbjct: 92 DYVGGEEIIQKILDGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPKAGTVGFNIGE 151
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
I E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S
Sbjct: 152 IIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRS 211
Query: 311 AYICSSMGPSIRLN 324
Y+ ++MGPS+R+N
Sbjct: 212 VYVTTAMGPSVRIN 225
>pdb|3ZVP|C Chain C, Crystal Structure Of The Hybrid State Of Ribosome In
Complex With The Guanosine Triphosphatase Release Factor
3
pdb|4ABS|C Chain C, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin
With The 70s Ribosome
Length = 229
Score = 222 bits (565), Expect = 3e-58, Method: Compositional matrix adjust.
Identities = 101/194 (52%), Positives = 145/194 (74%), Gaps = 1/194 (0%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGA
Sbjct: 33 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA 92
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQ 250
D VGG+++I++I G+M+FD ++A+PD+M V S +G+ILGPRGL+PNPKAGTV NI +
Sbjct: 93 DYVGGEEIIQKILDGWMDFDAVVATPDVMGAVGSKMGRILGPRGLLPNPKAGTVGFNIGE 152
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
I E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S
Sbjct: 153 IIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRS 212
Query: 311 AYICSSMGPSIRLN 324
Y+ ++MGPS+R+N
Sbjct: 213 VYVTTTMGPSVRIN 226
>pdb|3U42|A Chain A, Mutant Ribosomal Protein L1 From Thermus Thermophilus With
Threonine 217 Replaced By Valine
pdb|3U56|A Chain A, Crystal Structure Of Mutant Ribosomal Protein T217v Tthl1
In Complex With 80nt 23s Rna From Thermus Thermophilus
Length = 229
Score = 221 bits (564), Expect = 4e-58, Method: Compositional matrix adjust.
Identities = 102/194 (52%), Positives = 144/194 (74%), Gaps = 1/194 (0%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGA
Sbjct: 33 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA 92
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQ 250
D VGG+++I++I G+M+FD ++A+PD+M V S LG+ILGPRGL+PNPKAGTV NI +
Sbjct: 93 DYVGGEEIIQKILDGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPKAGTVGFNIGE 152
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
I E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S
Sbjct: 153 IIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRS 212
Query: 311 AYICSSMGPSIRLN 324
Y+ + MGPS+R+N
Sbjct: 213 VYVTTVMGPSVRIN 226
>pdb|487D|H Chain H, Seven Ribosomal Proteins Fitted To A Cryo-Electron
Microscopic Map Of The Large 50s Subunit At 7.5
Angstroms Resolution
Length = 224
Score = 221 bits (563), Expect = 4e-58, Method: Compositional matrix adjust.
Identities = 102/194 (52%), Positives = 145/194 (74%), Gaps = 1/194 (0%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGA
Sbjct: 28 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA 87
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQ 250
D VGG+++I++I G+M+FD ++A+PD+M V S LG+ILGPRGL+PNPKAGTV NI +
Sbjct: 88 DYVGGEEIIQKILDGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPKAGTVGFNIGE 147
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
I E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S
Sbjct: 148 IIREIKAGRIEFRNDKTGAIHAPVGKACFPPEKLADNIRAFIRALEAHKPEGAKGTFLRS 207
Query: 311 AYICSSMGPSIRLN 324
Y+ ++MGPS+R+N
Sbjct: 208 VYVTTTMGPSVRIN 221
>pdb|1AD2|A Chain A, Ribosomal Protein L1 Mutant With Serine 179 Replaced By
Cysteine
Length = 228
Score = 221 bits (563), Expect = 4e-58, Method: Compositional matrix adjust.
Identities = 102/194 (52%), Positives = 145/194 (74%), Gaps = 1/194 (0%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGA
Sbjct: 32 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA 91
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQ 250
D VGG+++I++I G+M+FD ++A+PD+M V S LG+ILGPRGL+PNPKAGTV NI +
Sbjct: 92 DYVGGEEIIQKILDGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPKAGTVGFNIGE 151
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
I E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S
Sbjct: 152 IIREIKAGRIEFRNDKTGAIHAPVGKACFPPEKLADNIRAFIRALEAHKPEGAKGTFLRS 211
Query: 311 AYICSSMGPSIRLN 324
Y+ ++MGPS+R+N
Sbjct: 212 VYVTTTMGPSVRIN 225
>pdb|3TG8|A Chain A, Mutant Ribosomal Protein L1 Lacking Ala158 From Thermus
Thermophilus
Length = 228
Score = 218 bits (556), Expect = 3e-57, Method: Compositional matrix adjust.
Identities = 102/194 (52%), Positives = 145/194 (74%), Gaps = 2/194 (1%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGA
Sbjct: 33 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA 92
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQ 250
D VGG+++I++I G+M+FD ++A+PD+M V S LG+ILGPRGL+PNPKAGTV NI +
Sbjct: 93 DYVGGEEIIQKILDGWMDFDAVVATPDVMGAVGSKLGRILGPRGLLPNPKAGTVGFNIGE 152
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
I E KG++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S
Sbjct: 153 IIREI-KGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRS 211
Query: 311 AYICSSMGPSIRLN 324
Y+ ++MGPS+R+N
Sbjct: 212 VYVTTTMGPSVRIN 225
>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 = 218 bits (555), Expect = 4e-57, Method: Compositional matrix adjust.
Identities = 100/194 (51%), Positives = 143/194 (73%), Gaps = 1/194 (0%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGA
Sbjct: 33 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA 92
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQ 250
D VGG+++I++I +M+FD ++A+PD+M V S LG+IL PRGL+PNPKAGTV NI +
Sbjct: 93 DYVGGEEIIQKILDAWMDFDAVVATPDVMGAVGSKLGRILAPRGLLPNPKAGTVGFNIGE 152
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
I E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S
Sbjct: 153 IIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRS 212
Query: 311 AYICSSMGPSIRLN 324
Y+ ++MGPS+R+N
Sbjct: 213 VYVTTTMGPSVRIN 226
>pdb|2HW8|A Chain A, Structure Of Ribosomal Protein L1-Mrna Complex At 2.1
Resolution
Length = 228
Score = 215 bits (547), Expect = 3e-56, Method: Compositional matrix adjust.
Identities = 99/194 (51%), Positives = 142/194 (73%), Gaps = 1/194 (0%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGA
Sbjct: 32 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA 91
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQ 250
D VGG+++I++I G+M+FD ++A+PD+ V S G+ILGPRGL+PNPKAGTV NI +
Sbjct: 92 DYVGGEEIIQKILDGWMDFDAVVATPDVXGAVGSKXGRILGPRGLLPNPKAGTVGFNIGE 151
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
I E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S
Sbjct: 152 IIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRS 211
Query: 311 AYICSSMGPSIRLN 324
Y+ ++ GPS+R+N
Sbjct: 212 VYVTTTXGPSVRIN 225
>pdb|1ZHO|A Chain A, The Structure Of A Ribosomal Protein L1 In Complex With
Mrna
pdb|1ZHO|C Chain C, The Structure Of A Ribosomal Protein L1 In Complex With
Mrna
pdb|1ZHO|E Chain E, The Structure Of A Ribosomal Protein L1 In Complex With
Mrna
pdb|1ZHO|G Chain G, The Structure Of A Ribosomal Protein L1 In Complex With
Mrna
Length = 228
Score = 214 bits (546), Expect = 4e-56, Method: Compositional matrix adjust.
Identities = 99/194 (51%), Positives = 142/194 (73%), Gaps = 1/194 (0%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGA
Sbjct: 32 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGA 91
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQ 250
D VGG+++I++I G+ +FD ++A+PD+ V S LG+ILGPRGL+PNPKAGTV NI +
Sbjct: 92 DYVGGEEIIQKILDGWXDFDAVVATPDVXGAVGSKLGRILGPRGLLPNPKAGTVGFNIGE 151
Query: 251 AIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKS 310
I E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S
Sbjct: 152 IIREIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRS 211
Query: 311 AYICSSMGPSIRLN 324
Y+ ++ GPS+R+N
Sbjct: 212 VYVTTTXGPSVRIN 225
>pdb|3QOY|A Chain A, Crystal Structure Of Ribosomal Protein L1 From Aquifex
Aeolicus
Length = 242
Score = 211 bits (536), Expect = 7e-55, Method: Compositional matrix adjust.
Identities = 102/195 (52%), Positives = 140/195 (71%), Gaps = 1/195 (0%)
Query: 136 KFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVG 195
+F ET E RLN+DP+Y DQ +R +V LP G GK +KV V A+GE +A+ AGAD VG
Sbjct: 40 RFDETVELAMRLNVDPRYADQMVRGSVVLPHGLGKPIKVVVFAEGEYAKKAEEAGADYVG 99
Query: 196 GDDLIEQI-KGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPKAGTVTTNIPQAIEE 254
GD+LI +I K + +FD IA+P+MM KVA LG+ILGPRGLMP+PK GTVTTN+ QAI++
Sbjct: 100 GDELINKILKEEWTDFDVAIATPEMMPKVAKLGRILGPRGLMPSPKTGTVTTNVEQAIKD 159
Query: 255 FKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKSAYIC 314
K+G+VE++ DK G VH+P GK F ++ L+ N AA+ ++ KP GAKG Y K+ +
Sbjct: 160 AKRGRVEFKVDKAGNVHMPVGKISFEKEKLIDNLYAAIDAVVRAKPPGAKGQYIKNMAVS 219
Query: 315 SSMGPSIRLNIKEML 329
+M PS++L+I E+L
Sbjct: 220 LTMSPSVKLDINEVL 234
>pdb|3FIN|C Chain C, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas
And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A
6.4 A Cryo-Em Map. This File Contains The 50s Subunit
Length = 191
Score = 192 bits (487), Expect = 3e-49, Method: Compositional matrix adjust.
Identities = 96/191 (50%), Positives = 133/191 (69%), Gaps = 11/191 (5%)
Query: 134 STKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADL 193
+ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGAD
Sbjct: 11 TAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGADY 70
Query: 194 VGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQAI 252
VGG+++I++I G+M+F +M V S LG+ILGPRGL NPKAGTV NI + I
Sbjct: 71 VGGEEIIQKILDGWMDF--------VMGAVGSKLGRILGPRGL--NPKAGTVGFNIGEII 120
Query: 253 EEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKSAY 312
E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S Y
Sbjct: 121 REIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVY 180
Query: 313 ICSSMGPSIRL 323
+ ++MGPS+R+
Sbjct: 181 VTTTMGPSVRI 191
>pdb|2RDO|9 Chain 9, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
Length = 233
Score = 176 bits (445), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 93/193 (48%), Positives = 124/193 (64%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF E+ + L ID + +DQ +R LP GTG+SV+VAV QG AK AGA
Sbjct: 32 LATAKFVESVDVAVNLGIDARKSDQNVRGATVLPHGTGRSVRVAVFTQGANAEAAKAAGA 91
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPKAGTVTTNIPQA 251
+LVG +DL +QIK G M FD +IASPD M V LG++LGPRGLMPNPK GTVT N+ +A
Sbjct: 92 ELVGMEDLADQIKKGEMNFDVVIASPDAMRVVGQLGQVLGPRGLMPNPKVGTVTPNVAEA 151
Query: 252 IEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKSA 311
++ K G+V YR DK GI+H GK DF D L N A + +++ KP AKGVY K
Sbjct: 152 VKNAKAGQVRYRNDKNGIIHTTIGKVDFDADKLKENLEALLVALKKAKPTQAKGVYIKKV 211
Query: 312 YICSSMGPSIRLN 324
I ++MG + ++
Sbjct: 212 SISTTMGAGVAVD 224
>pdb|3FIK|5 Chain 5, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 50s Subunit.
pdb|3KCR|5 Chain 5, Ribosome-Secy Complex. This Entry 3kcr Contains 50s
Ribosomal Subnit. The 30s Ribosomal Subunit Can Be Found
In Pdb Entry 3kc4
pdb|2WWQ|5 Chain 5, E.Coli 70s Ribosome Stalled During Translation Of Tnac
Leader Peptide. This File Contains The 50s, The P-Site
Trna And The Tnac Leader Peptide (Part 2 Of 2).
pdb|3IZT|C Chain C, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A
Near-Cognate Codon.
pdb|3IZU|C Chain C, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A Cognate
Codon
pdb|3J01|5 Chain 5, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|3J0T|C Chain C, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0W|C Chain C, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0Y|C Chain C, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J11|C Chain C, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 3 Of The Six
Classes)
pdb|3J12|C Chain C, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J14|C Chain C, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 6 Of The Six
Classes)
Length = 234
Score = 176 bits (445), Expect = 2e-44, Method: Compositional matrix adjust.
Identities = 93/193 (48%), Positives = 124/193 (64%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF E+ + L ID + +DQ +R LP GTG+SV+VAV QG AK AGA
Sbjct: 33 LATAKFVESVDVAVNLGIDARKSDQNVRGATVLPHGTGRSVRVAVFTQGANAEAAKAAGA 92
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPKAGTVTTNIPQA 251
+LVG +DL +QIK G M FD +IASPD M V LG++LGPRGLMPNPK GTVT N+ +A
Sbjct: 93 ELVGMEDLADQIKKGEMNFDVVIASPDAMRVVGQLGQVLGPRGLMPNPKVGTVTPNVAEA 152
Query: 252 IEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKSA 311
++ K G+V YR DK GI+H GK DF D L N A + +++ KP AKGVY K
Sbjct: 153 VKNAKAGQVRYRNDKNGIIHTTIGKVDFDADKLKENLEALLVALKKAKPTQAKGVYIKKV 212
Query: 312 YICSSMGPSIRLN 324
I ++MG + ++
Sbjct: 213 SISTTMGAGVAVD 225
>pdb|2GYA|2 Chain 2, 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|2 Chain 2, 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 = 222
Score = 175 bits (443), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 93/193 (48%), Positives = 124/193 (64%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGA 191
+++ KF E+ + L ID + +DQ +R LP GTG+SV+VAV QG AK AGA
Sbjct: 28 LATAKFVESVDVAVNLGIDARKSDQNVRGATVLPHGTGRSVRVAVFTQGANAEAAKAAGA 87
Query: 192 DLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPKAGTVTTNIPQA 251
+LVG +DL +QIK G M FD +IASPD M V LG++LGPRGLMPNPK GTVT N+ +A
Sbjct: 88 ELVGMEDLADQIKKGEMNFDVVIASPDAMRVVGQLGQVLGPRGLMPNPKVGTVTPNVAEA 147
Query: 252 IEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKSA 311
++ K G+V YR DK GI+H GK DF D L N A + +++ KP AKGVY K
Sbjct: 148 VKNAKAGQVRYRNDKNGIIHTTIGKVDFDADKLKENLEALLVALKKAKPTQAKGVYIKKV 207
Query: 312 YICSSMGPSIRLN 324
I ++MG + ++
Sbjct: 208 SISTTMGAGVAVD 220
>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 = 82.4 bits (202), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 62/202 (30%), Positives = 99/202 (49%), Gaps = 12/202 (5%)
Query: 131 RMSSTKFTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNA 189
R FT++ E L +ID K + + + V LP G GK VK+AV+A G A+
Sbjct: 18 RAKPRNFTQSVEVAVNLKDIDLKRPENRFKLEVVLPHGRGKDVKIAVIADGAVAEAARKL 77
Query: 190 GADLVGGDDLIE------QIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAG 242
G D++ +L E Q + ++D IA +M K+ LG+ LGPR MP
Sbjct: 78 GLDVISSAELEEIASSPRQARKLAKKYDFFIAEAPLMPKIGRYLGRYLGPRNKMPVVVPP 137
Query: 243 TVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKG 302
T+T P +E+ KK V + +VH P G S++++ N A + +I +G
Sbjct: 138 TLTDLTP-IVEKLKKT-VRIQLKNNPVVHAPVGTEKMSDEEIAENIEAVLNAIIGKLERG 195
Query: 303 AKGVYWKSAYICSSMGPSIRLN 324
V KS Y+ ++MGP++++
Sbjct: 196 ESQV--KSVYVKTTMGPAVKIE 215
>pdb|2OV7|A Chain A, The First Domain Of The Ribosomal Protein L1 From Thermus
Thermophilus
pdb|2OV7|B Chain B, The First Domain Of The Ribosomal Protein L1 From Thermus
Thermophilus
pdb|2OV7|C Chain C, The First Domain Of The Ribosomal Protein L1 From Thermus
Thermophilus
pdb|2OUM|A Chain A, The First Domain Of L1 From Thermus Thermophilus
pdb|2VPL|A Chain A, The Structure Of The Complex Between The First Domain Of
L1 Protein From Thermus Thermophilus And Mrna From
Methanococcus Jannaschii
pdb|2VPL|C Chain C, The Structure Of The Complex Between The First Domain Of
L1 Protein From Thermus Thermophilus And Mrna From
Methanococcus Jannaschii
Length = 137
Score = 81.3 bits (199), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 32/67 (47%), Positives = 50/67 (74%)
Query: 258 GKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSM 317
G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S Y+ ++M
Sbjct: 68 GRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTM 127
Query: 318 GPSIRLN 324
GPS+R+N
Sbjct: 128 GPSVRIN 134
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 19/36 (52%), Positives = 26/36 (72%)
Query: 132 MSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKG 167
+++ KF ET E H +L IDP+ +DQ +R TVSLP G
Sbjct: 32 LATAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHG 67
>pdb|1DWU|A Chain A, Ribosomal Protein L1
pdb|1DWU|B Chain B, Ribosomal Protein L1
Length = 213
Score = 77.4 bits (189), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 64/192 (33%), Positives = 95/192 (49%), Gaps = 15/192 (7%)
Query: 137 FTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVG 195
FT++ + L +D + +L+ V LP G GK K+AV+A+G+ +A+ G ++
Sbjct: 22 FTQSLDLIINLKELDLSRPENRLKEQVVLPNGRGKEPKIAVIAKGDLAAQAEEMGLTVIR 81
Query: 196 GDDLIEQIKGGFM------EFDKLIASPDMMVKVA-SLGKILGPRGLMPNPKAGTVTTNI 248
D+L E K M E D IA DMM V +LG +LGPRG MP P N+
Sbjct: 82 QDELEELGKNKKMAKKIANEHDFFIAQADMMPLVGKTLGPVLGPRGKMPQPVPA--NANL 139
Query: 249 PQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYW 308
+E KK + DK + H+ G S+++L N A + ++ K KG+Y
Sbjct: 140 TPLVERLKKTVLINTRDKP-LFHVLVGNEKMSDEELAENIEAILNTVSR---KYEKGLYH 195
Query: 309 -KSAYICSSMGP 319
KSAY +MGP
Sbjct: 196 VKSAYTKLTMGP 207
>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 = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 53/197 (26%), Positives = 90/197 (45%), Gaps = 17/197 (8%)
Query: 137 FTETAEAHFRLNIDPKYND--QQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLV 194
F ET + L D ND ++ +V LP GTG+ + V A+GE A+ D++
Sbjct: 22 FRETVDLAVNLR-DLDLNDPSNRVDESVVLPAGTGQETTIVVFAEGETALRAEEVADDVL 80
Query: 195 GGDDLIEQIKGGFMEFDK-------LIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTT 246
D+L E++ G IA +M + LG +LGPRG MP P
Sbjct: 81 DEDEL-EELGGDDDAAKDLADDTDFFIAEKGLMQDIGRYLGTVLGPRGKMPEPL--DPDD 137
Query: 247 NIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGV 306
++ + IE K V+ R+ + H G D S +++ N ++ + A+ KG +
Sbjct: 138 DVVEVIERMKN-TVQLRSGERRTFHTRVGAEDMSAENIADNIDVILRRLHADLEKGPLNI 196
Query: 307 YWKSAYICSSMGPSIRL 323
+ Y+ ++MGP++ +
Sbjct: 197 --DTVYVKTTMGPAMEV 211
>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 = 62.4 bits (150), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 58/200 (29%), Positives = 96/200 (48%), Gaps = 15/200 (7%)
Query: 129 RDRMSSTKFTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAK 187
R+ FT++ E L ID + + +++ V LP G GK K+AV+ G+ +A+
Sbjct: 14 RELAKPRNFTQSFEFIATLKEIDMRKPENRIKTEVVLPHGRGKEAKIAVIGTGDLAKQAE 73
Query: 188 NAGADLVGGDDLIE------QIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPK 240
G ++ +++ E +++ D IA D+M + +G ILGPRG MP P
Sbjct: 74 ELGLTVIRKEEIEELGKNKRKLRKIAKAHDFFIAQADLMPLIGRYMGVILGPRGKMPKPV 133
Query: 241 AGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKP 300
NI +E KK V DK + G + D+ +++ + AV ++ A K
Sbjct: 134 PA--NANIKPLVERLKKTVVINTRDKP-YFQVLVGNEKMT-DEQIVDNIEAVLNVVAKKY 189
Query: 301 KGAKGVYW-KSAYICSSMGP 319
+ KG+Y K AY+ +MGP
Sbjct: 190 E--KGLYHIKDAYVKLTMGP 207
>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 = 58.2 bits (139), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 54/196 (27%), Positives = 91/196 (46%), Gaps = 15/196 (7%)
Query: 137 FTETAEAHFRLN-IDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVG 195
FT++ E ID K D +LR V LPK K+ +V V+ E+ AK A +V
Sbjct: 26 FTQSVEIILTFKGIDXKKGDLKLREIVPLPKQPSKAKRVLVVPSSEQLEYAKKASPKVVI 85
Query: 196 GDDLIEQIKGGFMEFDKLIASPD-MMVKVAS-------LGKILGPRGLMPNPKAGTVTTN 247
+ +++++G KL + ++ S LG LGPRG P P T +
Sbjct: 86 TREELQKLQGQKRPVKKLARQNEWFLINQESXALAGRILGPALGPRGKFPTPLPN--TAD 143
Query: 248 IPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVY 307
I + I FK+ + D+ V + G D +DL N +A + +IE NK K +
Sbjct: 144 ISEYINRFKRSVLVKTKDQPQ-VQVFIGTEDXKPEDLAENAIAVLNAIE-NKAKVETNL- 200
Query: 308 WKSAYICSSMGPSIRL 323
++ Y+ ++ G ++++
Sbjct: 201 -RNIYVKTTXGKAVKV 215
>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 = 55.8 bits (133), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 56/201 (27%), Positives = 93/201 (46%), Gaps = 17/201 (8%)
Query: 129 RDRMSSTKFTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAK 187
R+ FT++ E L ID + + +++ V LP G GK K+AV+ G+ +A+
Sbjct: 14 RELAKPRNFTQSFEFIATLKEIDXRKPENRIKTEVVLPHGRGKEAKIAVIGTGDLAKQAE 73
Query: 188 NAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVASL--------GKILGPRGLMPNP 239
G ++ ++ IE++ + K+ + D + A L G ILGPRG P P
Sbjct: 74 ELGLTVIRKEE-IEELGKNKRKLRKIAKAHDFFIAQADLXPLIGRYXGVILGPRGKXPKP 132
Query: 240 KAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANK 299
NI +E KK V DK + G + D+ +++ + AV ++ A K
Sbjct: 133 VPA--NANIKPLVERLKKTVVINTRDKP-YFQVLVGNEKXT-DEQIVDNIEAVLNVVAKK 188
Query: 300 PKGAKGVYW-KSAYICSSMGP 319
+ KG+Y K AY+ + GP
Sbjct: 189 YE--KGLYHIKDAYVKLTXGP 207
>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 = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 53/184 (28%), Positives = 82/184 (44%), Gaps = 15/184 (8%)
Query: 137 FTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGG 196
FT++ E K D +LR V LPK K+ +V V+ E+ AK A +V
Sbjct: 26 FTQSVEIILTFKGIDKKGDLKLREIVPLPKQPSKAKRVLVVPSSEQLEYAKKASPKVVIT 85
Query: 197 DDLIEQIKGGFMEFDKLIASPD-MMVKVAS------LGKILGPRGLMPNPKAGTVTTNIP 249
+ +++++G KL + ++ S LG LGPRG P P T +I
Sbjct: 86 REELQKLQGQKRPVKKLARQNEWFLINQESALAGRILGPALGPRGKFPTPLPN--TADIS 143
Query: 250 QAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPK---GAKGV 306
+ I FK+ + D+ V + G D E DL N +A + +IE NK K + +
Sbjct: 144 EYINRFKRSVLVKTKDQPQ-VQVFIGTEDKPE-DLAENAIAVLNAIE-NKAKVETNLRNI 200
Query: 307 YWKS 310
Y K+
Sbjct: 201 YVKT 204
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 48/199 (24%), Positives = 85/199 (42%), Gaps = 22/199 (11%)
Query: 137 FTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVG 195
F ET E L N DP+ D++ ++ LP ++ + + + AK+ G D +
Sbjct: 28 FLETVELQVGLKNYDPQ-RDKRFSGSLKLPNCPRPNMSICIFGDAFDVDRAKSCGVDAMS 86
Query: 196 GDD------LIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPKAGTVTTNIP 249
DD + IK +++ IAS V + + ++LGP+ KAG T +
Sbjct: 87 VDDLKKLNKNKKLIKKLSKKYNAFIASE---VLIKQVPRLLGPQL----SKAGKFPTPVS 139
Query: 250 QAIEEFKK-----GKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAK 304
+ + K ++++ K + + G + ED L+ L +V + K +
Sbjct: 140 HNDDLYGKVTDVRSTIKFQLKKVLCLAVAVGNVEMEEDVLVNQILMSVNFFVSLLKKNWQ 199
Query: 305 GVYWKSAYICSSMGPSIRL 323
V S + SSMGP+ RL
Sbjct: 200 NV--GSLVVKSSMGPAFRL 216
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 48/199 (24%), Positives = 85/199 (42%), Gaps = 22/199 (11%)
Query: 137 FTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVG 195
F ET E L N DP+ D++ ++ LP ++ + + + AK+ G D +
Sbjct: 25 FLETVELQVGLKNYDPQ-RDKRFSGSLKLPNCPRPNMSICIFGDAFDVDRAKSCGVDAMS 83
Query: 196 GDD------LIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPKAGTVTTNIP 249
DD + IK +++ IAS V + + ++LGP+ KAG T +
Sbjct: 84 VDDLKKLNKNKKLIKKLSKKYNAFIASE---VLIKQVPRLLGPQL----SKAGKFPTPVS 136
Query: 250 QAIEEFKK-----GKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAK 304
+ + K ++++ K + + G + ED L+ L +V + K +
Sbjct: 137 HNDDLYGKVTDVRSTIKFQLKKVLCLAVAVGNVEMEEDVLVNQILMSVNFFVSLLKKNWQ 196
Query: 305 GVYWKSAYICSSMGPSIRL 323
V S + SSMGP+ RL
Sbjct: 197 NV--GSLVVKSSMGPAFRL 213
>pdb|3ZF7|J Chain J, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 214
Score = 35.0 bits (79), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 45/204 (22%), Positives = 89/204 (43%), Gaps = 17/204 (8%)
Query: 129 RDRMSSTKFTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAK 187
+DR KF E+ + L N DP+ D++ +V LP + V +L + AK
Sbjct: 18 KDR-KERKFKESIDLQVNLKNYDPQ-KDKRFSGSVRLPHVCRPRMTVCLLCDLVHEDIAK 75
Query: 188 NAGADLVGGDDLIEQIKGGFM------EFDKLIASPDMMVKVASLGKILGPR--GLMPNP 239
+ ++L + K + ++D + S + + ++ +++GP + P
Sbjct: 76 KNDVPTMNQEELKKLNKNKKLVKKMCNQYDAFLCSESI---IKTVPRLVGPHMHRVGKFP 132
Query: 240 KAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANK 299
++P + E + V+++ K + G D +ED + N + A+ + +
Sbjct: 133 TVCAQNESLPDKVLELQ-STVKFQLKKVLCLGTCVGHVDMTEDQVRQNVVMAINFLVSLL 191
Query: 300 PKGAKGVYWKSAYICSSMGPSIRL 323
K + + KSAYI S+MG S R+
Sbjct: 192 KKNWQNL--KSAYIKSTMGKSQRI 213
>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 = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 45/203 (22%), Positives = 88/203 (43%), Gaps = 18/203 (8%)
Query: 131 RMSSTKFTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNA 189
R KFTET E L N DP+ D++ +V LP ++V +L + ++A+
Sbjct: 21 REKKRKFTETVELQIGLKNYDPQ-KDKRFSGSVKLPHIPRPKMRVCMLGDAQHVDQAEKM 79
Query: 190 GADLVGGDD------LIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPKAGT 243
G D + + + +K ++ +AS + + + ++LGP GL K T
Sbjct: 80 GLDYMDVESLKKMNKNKKLVKKLAKKYHAFLASEAI---IKQIPRLLGP-GLNKAGKFPT 135
Query: 244 VTTN---IPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKP 300
+ ++ + + E K V+++ K + + G E + N +V + +
Sbjct: 136 LVSHQESLEAKVNE-TKATVKFQLKKVLCMGVAVGNLSMDEKQIQQNIQMSVNFLVSLLK 194
Query: 301 KGAKGVYWKSAYICSSMGPSIRL 323
K + V + Y+ S+MG +R+
Sbjct: 195 KNWQNV--RCLYVKSTMGKRVRV 215
>pdb|3I9W|A Chain A, Crystal Structure Of The E. Coli Histidine Kinase Sensor
Tors Sensor Domain
Length = 290
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 173 KVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFME--FDKLI 214
++A LAQG+ N +AGA G DLIEQ + E D+LI
Sbjct: 120 EIARLAQGQANNATTSAGATQAGIYDLIEQDQRQAAESALDRLI 163
>pdb|2ZYS|A Chain A, A. Fulgidus Lipase With Fatty Acid Fragment And Chloride
Length = 479
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 50/122 (40%), Gaps = 25/122 (20%)
Query: 181 EKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPK 240
E N K A D+V D ++KG F+ F A+ G + G + P +
Sbjct: 225 EFINGYKPATTDIVPQDGDYVKVKGKFLAF-------------ATNGDVSGWLSIYPIDE 271
Query: 241 AGTVTTNIPQAIEEFK--------KGKV---EYRADKTGIVHIPFGKADFSEDDLLINFL 289
G T +P K KG++ ++R D + I++ + +A F DDL FL
Sbjct: 272 NGKRLTRLPVKFMRVKGDFEVRLRKGQLYEFQFRKDFSPIIY-HYYRAPFVRDDLWARFL 330
Query: 290 AA 291
+
Sbjct: 331 VS 332
>pdb|2ZYI|A Chain A, A. Fulgidus Lipase With Fatty Acid Fragment And Calcium
pdb|2ZYI|B Chain B, A. Fulgidus Lipase With Fatty Acid Fragment And Calcium
Length = 475
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 50/122 (40%), Gaps = 25/122 (20%)
Query: 181 EKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPK 240
E N K A D+V D ++KG F+ F A+ G + G + P +
Sbjct: 225 EFINGYKPATTDIVPQDGDYVKVKGKFLAF-------------ATNGDVSGWLSIYPIDE 271
Query: 241 AGTVTTNIPQAIEEFK--------KGKV---EYRADKTGIVHIPFGKADFSEDDLLINFL 289
G T +P K KG++ ++R D + I++ + +A F DDL FL
Sbjct: 272 NGKRLTRLPVKFMRVKGDFEVRLRKGQLYEFQFRKDFSPIIY-HYYRAPFVRDDLWARFL 330
Query: 290 AA 291
+
Sbjct: 331 VS 332
>pdb|2ZYR|A Chain A, A. Fulgidus Lipase With Fatty Acid Fragment And Magnesium
pdb|2ZYR|B Chain B, A. Fulgidus Lipase With Fatty Acid Fragment And Magnesium
Length = 484
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 50/122 (40%), Gaps = 25/122 (20%)
Query: 181 EKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPK 240
E N K A D+V D ++KG F+ F A+ G + G + P +
Sbjct: 225 EFINGYKPATTDIVPQDGDYVKVKGKFLAF-------------ATNGDVSGWLSIYPIDE 271
Query: 241 AGTVTTNIPQAIEEFK--------KGKV---EYRADKTGIVHIPFGKADFSEDDLLINFL 289
G T +P K KG++ ++R D + I++ + +A F DDL FL
Sbjct: 272 NGKRLTRLPVKFMRVKGDFEVRLRKGQLYEFQFRKDFSPIIY-HYYRAPFVRDDLWARFL 330
Query: 290 AA 291
+
Sbjct: 331 VS 332
>pdb|2ZYH|A Chain A, Mutant A. Fulgidus Lipase S136a Complexed With Fatty Acid
Fragment
pdb|2ZYH|B Chain B, Mutant A. Fulgidus Lipase S136a Complexed With Fatty Acid
Fragment
Length = 475
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 50/122 (40%), Gaps = 25/122 (20%)
Query: 181 EKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPK 240
E N K A D+V D ++KG F+ F A+ G + G + P +
Sbjct: 225 EFINGYKPATTDIVPQDGDYVKVKGKFLAF-------------ATNGDVSGWLSIYPIDE 271
Query: 241 AGTVTTNIPQAIEEFK--------KGKV---EYRADKTGIVHIPFGKADFSEDDLLINFL 289
G T +P K KG++ ++R D + I++ + +A F DDL FL
Sbjct: 272 NGKRLTRLPVKFMRVKGDFEVRLRKGQLYEFQFRKDFSPIIY-HYYRAPFVRDDLWARFL 330
Query: 290 AA 291
+
Sbjct: 331 VS 332
>pdb|1MUS|A Chain A, Crystal Structure Of Tn5 Transposase Complexed With
Resolved Outside End Dna
Length = 477
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 235 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 294
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 228 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 284
Query: 295 IEANKPKGAKGVYW 308
E N PKG + W
Sbjct: 285 EEINPPKGETPLKW 298
>pdb|4DM0|A Chain A, Tn5 Transposase: 20mer Outside End 2 Mn Complex
Length = 477
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 235 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 294
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 228 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 284
Query: 295 IEANKPKGAKGVYW 308
E N PKG + W
Sbjct: 285 EEINPPKGETPLKW 298
>pdb|1MM8|A Chain A, Crystal Structure Of Tn5 Transposase Complexed With Me Dna
Length = 481
Score = 27.7 bits (60), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 235 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 294
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 232 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 288
Query: 295 IEANKPKGAKGVYW 308
E N PKG + W
Sbjct: 289 EEINPPKGETPLKW 302
>pdb|3ECP|A Chain A, Crystal Structure Of Tn5 Transposase Complexed With 5'
Phosphorylated Transposon End Dna
Length = 477
Score = 27.7 bits (60), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 235 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 294
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 228 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 284
Query: 295 IEANKPKGAKGVYW 308
E N PKG + W
Sbjct: 285 EEINPPKGETPLKW 298
>pdb|1MUH|A Chain A, Crystal Structure Of Tn5 Transposase Complexed With
Transposon End Dna
Length = 481
Score = 27.7 bits (60), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 235 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 294
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 232 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 288
Query: 295 IEANKPKGAKGVYW 308
E N PKG + W
Sbjct: 289 EEINPPKGETPLKW 302
>pdb|1B7E|A Chain A, Transposase Inhibitor
Length = 420
Score = 27.7 bits (60), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 235 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 294
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 173 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 229
Query: 295 IEANKPKGAKGVYW 308
E N PKG + W
Sbjct: 230 EEINPPKGETPLKW 243
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 0.133 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,216,413
Number of Sequences: 62578
Number of extensions: 303050
Number of successful extensions: 724
Number of sequences better than 100.0: 42
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 12
Number of HSP's that attempted gapping in prelim test: 663
Number of HSP's gapped (non-prelim): 48
length of query: 337
length of database: 14,973,337
effective HSP length: 99
effective length of query: 238
effective length of database: 8,778,115
effective search space: 2089191370
effective search space used: 2089191370
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: 52 (24.6 bits)