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= 022545
(295 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 = 405 bits (1041), Expect = e-113, Method: Compositional matrix adjust.
Identities = 193/238 (81%), Positives = 215/238 (90%)
Query: 57 SRETGSKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQL 116
S T SKRFLEIQ LRE K+EYDLKTA+SL+KQMSSTKF ETAEAHFRLNIDPKYNDQQL
Sbjct: 114 SDRTRSKRFLEIQKLREIKQEYDLKTALSLMKQMSSTKFVETAEAHFRLNIDPKYNDQQL 173
Query: 117 RATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPD 176
RATVSLPKGTGK+VK+AVLAQG+K +EAK AGAD+VGG++LIEQIKGGFM+FDKLIA+ D
Sbjct: 174 RATVSLPKGTGKTVKIAVLAQGDKIDEAKAAGADIVGGEELIEQIKGGFMDFDKLIATSD 233
Query: 177 MMVKVASLGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKAD 236
MM KVASLG+ILGPRGLMP PKAGTVT N+ QA+EEFKKGKVE+R DKTGIVHIPFGK +
Sbjct: 234 MMAKVASLGRILGPRGLMPTPKAGTVTPNVAQAVEEFKKGKVEFRVDKTGIVHIPFGKLN 293
Query: 237 FSEDDLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLNIKEMLDYKLPSN 294
F E+DLLIN A +KS+E NKP GAKGVYWKSA+I SSMGPSIRLNI+EMLDYK PSN
Sbjct: 294 FEEEDLLINLFATIKSVETNKPTGAKGVYWKSAHISSSMGPSIRLNIREMLDYKPPSN 351
>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 = 232 bits (592), Expect = 1e-61, Method: Compositional matrix adjust.
Identities = 109/222 (49%), Positives = 158/222 (71%), Gaps = 1/222 (0%)
Query: 62 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 121
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVS
Sbjct: 5 GKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVS 64
Query: 122 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 181
LP G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 65 LPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAV 124
Query: 182 AS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSED 240
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 125 GSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPE 184
Query: 241 DLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 185 KLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 226
>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 = 232 bits (592), Expect = 1e-61, Method: Compositional matrix adjust.
Identities = 109/222 (49%), Positives = 158/222 (71%), Gaps = 1/222 (0%)
Query: 62 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 121
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVS
Sbjct: 5 GKRYRALLEKVDPNKVYTIDEAARLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVS 64
Query: 122 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 181
LP G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 65 LPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAV 124
Query: 182 AS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSED 240
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 125 GSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPE 184
Query: 241 DLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 185 KLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 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 = 232 bits (592), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 109/222 (49%), Positives = 158/222 (71%), Gaps = 1/222 (0%)
Query: 62 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 121
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVS
Sbjct: 4 GKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVS 63
Query: 122 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 181
LP G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 64 LPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAV 123
Query: 182 AS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSED 240
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 124 GSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPE 183
Query: 241 DLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 184 KLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTAMGPSVRIN 225
>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 = 232 bits (592), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 109/222 (49%), Positives = 158/222 (71%), Gaps = 1/222 (0%)
Query: 62 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 121
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVS
Sbjct: 4 GKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVS 63
Query: 122 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 181
LP G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 64 LPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAV 123
Query: 182 AS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSED 240
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 124 GSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPE 183
Query: 241 DLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 184 KLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 225
>pdb|4F9T|A Chain A, Ribosomal Protein L1 From Thermus Thermophilus With
Substitution Thr217ala
Length = 229
Score = 232 bits (591), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 109/222 (49%), Positives = 158/222 (71%), Gaps = 1/222 (0%)
Query: 62 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 121
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVS
Sbjct: 5 GKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVS 64
Query: 122 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 181
LP G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 65 LPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAV 124
Query: 182 AS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSED 240
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 125 GSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPE 184
Query: 241 DLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 185 KLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTAMGPSVRIN 226
>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 = 231 bits (590), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 108/222 (48%), Positives = 158/222 (71%), Gaps = 1/222 (0%)
Query: 62 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 121
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVS
Sbjct: 5 GKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVS 64
Query: 122 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 181
LP G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 65 LPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAV 124
Query: 182 AS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSED 240
S +G+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 125 GSKMGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPE 184
Query: 241 DLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 185 KLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 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 = 231 bits (589), Expect = 4e-61, Method: Compositional matrix adjust.
Identities = 109/221 (49%), Positives = 158/221 (71%), Gaps = 1/221 (0%)
Query: 63 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 122
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 1 KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 60
Query: 123 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 182
P G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 61 PHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAVG 120
Query: 183 S-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 241
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 121 SKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKACFPPEK 180
Query: 242 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 181 LADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 221
>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 = 231 bits (589), Expect = 4e-61, Method: Compositional matrix adjust.
Identities = 109/222 (49%), Positives = 157/222 (70%), Gaps = 1/222 (0%)
Query: 62 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 121
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVS
Sbjct: 5 GKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVS 64
Query: 122 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 181
LP G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 65 LPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAV 124
Query: 182 AS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSED 240
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 125 GSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPE 184
Query: 241 DLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A ++++EA+KP+GAKG + +S Y+ + MGPS+R+N
Sbjct: 185 KLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTVMGPSVRIN 226
>pdb|1AD2|A Chain A, Ribosomal Protein L1 Mutant With Serine 179 Replaced By
Cysteine
Length = 228
Score = 231 bits (588), Expect = 5e-61, Method: Compositional matrix adjust.
Identities = 109/222 (49%), Positives = 158/222 (71%), Gaps = 1/222 (0%)
Query: 62 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 121
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVS
Sbjct: 4 GKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVS 63
Query: 122 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 181
LP G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 64 LPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAV 123
Query: 182 AS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSED 240
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 124 GSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKACFPPE 183
Query: 241 DLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 184 KLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 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 = 228 bits (581), Expect = 3e-60, Method: Compositional matrix adjust.
Identities = 107/221 (48%), Positives = 156/221 (70%), Gaps = 1/221 (0%)
Query: 63 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 122
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 6 KRYRALLEKVDPNKVYTIDEAARLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 65
Query: 123 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 182
P G GK V+V +A+GEK EA+ AGAD VGG+++I++I +M+FD ++A+PD+M V
Sbjct: 66 PHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDAWMDFDAVVATPDVMGAVG 125
Query: 183 S-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 241
S LG+IL PRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 126 SKLGRILAPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEK 185
Query: 242 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 186 LADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 226
>pdb|3TG8|A Chain A, Mutant Ribosomal Protein L1 Lacking Ala158 From Thermus
Thermophilus
Length = 228
Score = 228 bits (581), Expect = 3e-60, Method: Compositional matrix adjust.
Identities = 109/222 (49%), Positives = 158/222 (71%), Gaps = 2/222 (0%)
Query: 62 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 121
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVS
Sbjct: 5 GKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVS 64
Query: 122 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 181
LP G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 65 LPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAV 124
Query: 182 AS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSED 240
S LG+ILGPRGL+PNPKAGTV NI + I E KG++E+R DKTG +H P GKA F +
Sbjct: 125 GSKLGRILGPRGLLPNPKAGTVGFNIGEIIREI-KGRIEFRNDKTGAIHAPVGKASFPPE 183
Query: 241 DLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 184 KLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 225
>pdb|3QOY|A Chain A, Crystal Structure Of Ribosomal Protein L1 From Aquifex
Aeolicus
Length = 242
Score = 227 bits (578), Expect = 7e-60, Method: Compositional matrix adjust.
Identities = 113/229 (49%), Positives = 158/229 (68%), Gaps = 4/229 (1%)
Query: 63 KRFLEIQNLREGKKEYDLKTAISLLKQMSST---KFTETAEAHFRLNIDPKYNDQQLRAT 119
K+++E L + K Y L+ A+ LLK+M +F ET E RLN+DP+Y DQ +R +
Sbjct: 6 KKYIEASKLVDRNKRYTLEEAVDLLKKMEEVLQRRFDETVELAMRLNVDPRYADQMVRGS 65
Query: 120 VSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQI-KGGFMEFDKLIASPDMM 178
V LP G GK +KV V A+GE +A+ AGAD VGGD+LI +I K + +FD IA+P+MM
Sbjct: 66 VVLPHGLGKPIKVVVFAEGEYAKKAEEAGADYVGGDELINKILKEEWTDFDVAIATPEMM 125
Query: 179 VKVASLGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFS 238
KVA LG+ILGPRGLMP+PK GTVTTN+ QAI++ K+G+VE++ DK G VH+P GK F
Sbjct: 126 PKVAKLGRILGPRGLMPSPKTGTVTTNVEQAIKDAKRGRVEFKVDKAGNVHMPVGKISFE 185
Query: 239 EDDLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLNIKEML 287
++ L+ N AA+ ++ KP GAKG Y K+ + +M PS++L+I E+L
Sbjct: 186 KEKLIDNLYAAIDAVVRAKPPGAKGQYIKNMAVSLTMSPSVKLDINEVL 234
>pdb|2HW8|A Chain A, Structure Of Ribosomal Protein L1-Mrna Complex At 2.1
Resolution
Length = 228
Score = 225 bits (573), Expect = 3e-59, Method: Compositional matrix adjust.
Identities = 106/222 (47%), Positives = 155/222 (69%), Gaps = 1/222 (0%)
Query: 62 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 121
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVS
Sbjct: 4 GKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVS 63
Query: 122 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 181
LP G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+ V
Sbjct: 64 LPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVXGAV 123
Query: 182 AS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSED 240
S G+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 124 GSKXGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPE 183
Query: 241 DLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A ++++EA+KP+GAKG + +S Y+ ++ GPS+R+N
Sbjct: 184 KLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTXGPSVRIN 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 = 224 bits (572), Expect = 4e-59, Method: Compositional matrix adjust.
Identities = 106/222 (47%), Positives = 155/222 (69%), Gaps = 1/222 (0%)
Query: 62 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 121
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVS
Sbjct: 4 GKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVS 63
Query: 122 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 181
LP G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+ +FD ++A+PD+ V
Sbjct: 64 LPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWXDFDAVVATPDVXGAV 123
Query: 182 AS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSED 240
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 124 GSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPE 183
Query: 241 DLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A ++++EA+KP+GAKG + +S Y+ ++ GPS+R+N
Sbjct: 184 KLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTXGPSVRIN 225
>pdb|2RDO|9 Chain 9, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
Length = 233
Score = 196 bits (499), Expect = 9e-51, Method: Compositional matrix adjust.
Identities = 104/221 (47%), Positives = 142/221 (64%)
Query: 62 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 121
+KR I+ + K+YD+ AI+LLK++++ KF E+ + L ID + +DQ +R
Sbjct: 4 TKRMRVIREKVDATKQYDINEAIALLKELATAKFVESVDVAVNLGIDARKSDQNVRGATV 63
Query: 122 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 181
LP GTG+SV+VAV QG AK AGA+LVG +DL +QIK G M FD +IASPD M V
Sbjct: 64 LPHGTGRSVRVAVFTQGANAEAAKAAGAELVGMEDLADQIKKGEMNFDVVIASPDAMRVV 123
Query: 182 ASLGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 241
LG++LGPRGLMPNPK GTVT N+ +A++ K G+V YR DK GI+H GK DF D
Sbjct: 124 GQLGQVLGPRGLMPNPKVGTVTPNVAEAVKNAKAGQVRYRNDKNGIIHTTIGKVDFDADK 183
Query: 242 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A + +++ KP AKGVY K I ++MG + ++
Sbjct: 184 LKENLEALLVALKKAKPTQAKGVYIKKVSISTTMGAGVAVD 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 = 196 bits (499), Expect = 9e-51, Method: Compositional matrix adjust.
Identities = 104/221 (47%), Positives = 142/221 (64%)
Query: 62 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 121
+KR I+ + K+YD+ AI+LLK++++ KF E+ + L ID + +DQ +R
Sbjct: 5 TKRMRVIREKVDATKQYDINEAIALLKELATAKFVESVDVAVNLGIDARKSDQNVRGATV 64
Query: 122 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 181
LP GTG+SV+VAV QG AK AGA+LVG +DL +QIK G M FD +IASPD M V
Sbjct: 65 LPHGTGRSVRVAVFTQGANAEAAKAAGAELVGMEDLADQIKKGEMNFDVVIASPDAMRVV 124
Query: 182 ASLGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 241
LG++LGPRGLMPNPK GTVT N+ +A++ K G+V YR DK GI+H GK DF D
Sbjct: 125 GQLGQVLGPRGLMPNPKVGTVTPNVAEAVKNAKAGQVRYRNDKNGIIHTTIGKVDFDADK 184
Query: 242 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
L N A + +++ KP AKGVY K I ++MG + ++
Sbjct: 185 LKENLEALLVALKKAKPTQAKGVYIKKVSISTTMGAGVAVD 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 = 196 bits (497), Expect = 2e-50, Method: Compositional matrix adjust.
Identities = 104/220 (47%), Positives = 141/220 (64%)
Query: 63 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 122
KR I+ + K+YD+ AI+LLK++++ KF E+ + L ID + +DQ +R L
Sbjct: 1 KRMRVIREKVDATKQYDINEAIALLKELATAKFVESVDVAVNLGIDARKSDQNVRGATVL 60
Query: 123 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 182
P GTG+SV+VAV QG AK AGA+LVG +DL +QIK G M FD +IASPD M V
Sbjct: 61 PHGTGRSVRVAVFTQGANAEAAKAAGAELVGMEDLADQIKKGEMNFDVVIASPDAMRVVG 120
Query: 183 SLGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDL 242
LG++LGPRGLMPNPK GTVT N+ +A++ K G+V YR DK GI+H GK DF D L
Sbjct: 121 QLGQVLGPRGLMPNPKVGTVTPNVAEAVKNAKAGQVRYRNDKNGIIHTTIGKVDFDADKL 180
Query: 243 LINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 282
N A + +++ KP AKGVY K I ++MG + ++
Sbjct: 181 KENLEALLVALKKAKPTQAKGVYIKKVSISTTMGAGVAVD 220
>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 = 2e-49, Method: Compositional matrix adjust.
Identities = 96/191 (50%), Positives = 133/191 (69%), Gaps = 11/191 (5%)
Query: 92 STKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADL 151
+ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGAD
Sbjct: 11 TAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGADY 70
Query: 152 VGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQAI 210
VGG+++I++I G+M+F +M V S LG+ILGPRGL NPKAGTV NI + I
Sbjct: 71 VGGEEIIQKILDGWMDF--------VMGAVGSKLGRILGPRGL--NPKAGTVGFNIGEII 120
Query: 211 EEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKSAY 270
E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S Y
Sbjct: 121 REIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVY 180
Query: 271 ICSSMGPSIRL 281
+ ++MGPS+R+
Sbjct: 181 VTTTMGPSVRI 191
>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 = 82.0 bits (201), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 32/67 (47%), Positives = 50/67 (74%)
Query: 216 GKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSM 275
G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S Y+ ++M
Sbjct: 68 GRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTM 127
Query: 276 GPSIRLN 282
GPS+R+N
Sbjct: 128 GPSVRIN 134
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 39/63 (61%)
Query: 63 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 122
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 5 KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 64
Query: 123 PKG 125
P G
Sbjct: 65 PHG 67
>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 = 81.3 bits (199), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 61/195 (31%), Positives = 98/195 (50%), Gaps = 12/195 (6%)
Query: 95 FTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVG 153
FT++ E L +ID K + + + V LP G GK VK+AV+A G A+ G D++
Sbjct: 24 FTQSVEVAVNLKDIDLKRPENRFKLEVVLPHGRGKDVKIAVIADGAVAEAARKLGLDVIS 83
Query: 154 GDDLIE------QIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNI 206
+L E Q + ++D IA +M K+ LG+ LGPR MP T+T
Sbjct: 84 SAELEEIASSPRQARKLAKKYDFFIAEAPLMPKIGRYLGRYLGPRNKMPVVVPPTLTDLT 143
Query: 207 PQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYW 266
P +E+ KK V + +VH P G S++++ N A + +I +G V
Sbjct: 144 P-IVEKLKKT-VRIQLKNNPVVHAPVGTEKMSDEEIAENIEAVLNAIIGKLERGESQV-- 199
Query: 267 KSAYICSSMGPSIRL 281
KS Y+ ++MGP++++
Sbjct: 200 KSVYVKTTMGPAVKI 214
>pdb|1DWU|A Chain A, Ribosomal Protein L1
pdb|1DWU|B Chain B, Ribosomal Protein L1
Length = 213
Score = 77.8 bits (190), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 69/211 (32%), Positives = 104/211 (49%), Gaps = 18/211 (8%)
Query: 80 LKTAISLLKQMSSTKFTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQG 138
+K A SL K + FT++ + L +D + +L+ V LP G GK K+AV+A+G
Sbjct: 10 VKEARSLAKPRN---FTQSLDLIINLKELDLSRPENRLKEQVVLPNGRGKEPKIAVIAKG 66
Query: 139 EKFNEAKNAGADLVGGDDLIEQIKGGFM------EFDKLIASPDMMVKVA-SLGKILGPR 191
+ +A+ G ++ D+L E K M E D IA DMM V +LG +LGPR
Sbjct: 67 DLAAQAEEMGLTVIRQDELEELGKNKKMAKKIANEHDFFIAQADMMPLVGKTLGPVLGPR 126
Query: 192 GLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVK 251
G MP P N+ +E KK + DK + H+ G S+++L N A +
Sbjct: 127 GKMPQPVPA--NANLTPLVERLKKTVLINTRDKP-LFHVLVGNEKMSDEELAENIEAILN 183
Query: 252 SIEANKPKGAKGVYW-KSAYICSSMGPSIRL 281
++ K KG+Y KSAY +MGP ++
Sbjct: 184 TVSR---KYEKGLYHVKSAYTKLTMGPPAQI 211
>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 = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 57/216 (26%), Positives = 98/216 (45%), Gaps = 18/216 (8%)
Query: 77 EYDLKTAIS-LLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRA--TVSLPKGTGKSVKVA 133
+ +++ A+S L+ F ET + L D ND R +V LP GTG+ +
Sbjct: 3 DQEIENAVSRALEDAPERNFRETVDLAVNLR-DLDLNDPSNRVDESVVLPAGTGQETTIV 61
Query: 134 VLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDK-------LIASPDMMVKVAS-LG 185
V A+GE A+ D++ D+L E++ G IA +M + LG
Sbjct: 62 VFAEGETALRAEEVADDVLDEDEL-EELGGDDDAAKDLADDTDFFIAEKGLMQDIGRYLG 120
Query: 186 KILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLIN 245
+LGPRG MP P ++ + IE K V+ R+ + H G D S +++ N
Sbjct: 121 TVLGPRGKMPEPL--DPDDDVVEVIERMKN-TVQLRSGERRTFHTRVGAEDMSAENIADN 177
Query: 246 FLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRL 281
++ + A+ KG + + Y+ ++MGP++ +
Sbjct: 178 IDVILRRLHADLEKGPLNI--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 = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 53/179 (29%), Positives = 88/179 (49%), Gaps = 14/179 (7%)
Query: 107 IDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIE------Q 160
ID + + +++ V LP G GK K+AV+ G+ +A+ G ++ +++ E +
Sbjct: 35 IDMRKPENRIKTEVVLPHGRGKEAKIAVIGTGDLAKQAEELGLTVIRKEEIEELGKNKRK 94
Query: 161 IKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVE 219
++ D IA D+M + +G ILGPRG MP P NI +E KK V
Sbjct: 95 LRKIAKAHDFFIAQADLMPLIGRYMGVILGPRGKMPKPVPA--NANIKPLVERLKKTVVI 152
Query: 220 YRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYW-KSAYICSSMGP 277
DK + G + D+ +++ + AV ++ A K + KG+Y K AY+ +MGP
Sbjct: 153 NTRDKP-YFQVLVGNEKMT-DEQIVDNIEAVLNVVAKKYE--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 = 57.8 bits (138), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 54/196 (27%), Positives = 91/196 (46%), Gaps = 15/196 (7%)
Query: 95 FTETAEAHFRLN-IDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVG 153
FT++ E ID K D +LR V LPK K+ +V V+ E+ AK A +V
Sbjct: 26 FTQSVEIILTFKGIDXKKGDLKLREIVPLPKQPSKAKRVLVVPSSEQLEYAKKASPKVVI 85
Query: 154 GDDLIEQIKGGFMEFDKLIASPD-MMVKVAS-------LGKILGPRGLMPNPKAGTVTTN 205
+ +++++G KL + ++ S LG LGPRG P P T +
Sbjct: 86 TREELQKLQGQKRPVKKLARQNEWFLINQESXALAGRILGPALGPRGKFPTPLPN--TAD 143
Query: 206 IPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVY 265
I + I FK+ + D+ V + G D +DL N +A + +IE NK K +
Sbjct: 144 ISEYINRFKRSVLVKTKDQPQ-VQVFIGTEDXKPEDLAENAIAVLNAIE-NKAKVETNL- 200
Query: 266 WKSAYICSSMGPSIRL 281
++ 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 = 55.1 bits (131), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 51/180 (28%), Positives = 85/180 (47%), Gaps = 16/180 (8%)
Query: 107 IDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFM 166
ID + + +++ V LP G GK K+AV+ G+ +A+ G ++ ++ IE++
Sbjct: 35 IDXRKPENRIKTEVVLPHGRGKEAKIAVIGTGDLAKQAEELGLTVIRKEE-IEELGKNKR 93
Query: 167 EFDKLIASPDMMVKVASL--------GKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKV 218
+ K+ + D + A L G ILGPRG P P NI +E KK V
Sbjct: 94 KLRKIAKAHDFFIAQADLXPLIGRYXGVILGPRGKXPKPVPA--NANIKPLVERLKKTVV 151
Query: 219 EYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYW-KSAYICSSMGP 277
DK + G + D+ +++ + AV ++ A K + KG+Y K AY+ + GP
Sbjct: 152 INTRDKP-YFQVLVGNEKXT-DEQIVDNIEAVLNVVAKKYE--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: 95 FTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGG 154
FT++ E K D +LR V LPK K+ +V V+ E+ AK A +V
Sbjct: 26 FTQSVEIILTFKGIDKKGDLKLREIVPLPKQPSKAKRVLVVPSSEQLEYAKKASPKVVIT 85
Query: 155 DDLIEQIKGGFMEFDKLIASPD-MMVKVAS------LGKILGPRGLMPNPKAGTVTTNIP 207
+ +++++G KL + ++ S LG LGPRG P P T +I
Sbjct: 86 REELQKLQGQKRPVKKLARQNEWFLINQESALAGRILGPALGPRGKFPTPLPN--TADIS 143
Query: 208 QAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPK---GAKGV 264
+ I FK+ + D+ V + G D E DL N +A + +IE NK K + +
Sbjct: 144 EYINRFKRSVLVKTKDQPQ-VQVFIGTEDKPE-DLAENAIAVLNAIE-NKAKVETNLRNI 200
Query: 265 YWKS 268
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 = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 53/211 (25%), Positives = 91/211 (43%), Gaps = 25/211 (11%)
Query: 86 LLKQMSSTK---FTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKF 141
LLK + TK F ET E L N DP+ D++ ++ LP ++ + +
Sbjct: 16 LLKYSNETKKRNFLETVELQVGLKNYDPQ-RDKRFSGSLKLPNCPRPNMSICIFGDAFDV 74
Query: 142 NEAKNAGADLVGGDD------LIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMP 195
+ AK+ G D + DD + IK +++ IAS V + + ++LGP+
Sbjct: 75 DRAKSCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIASE---VLIKQVPRLLGPQL--- 128
Query: 196 NPKAGTVTTNIPQAIEEFKK-----GKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAV 250
KAG T + + + K ++++ K + + G + ED L+ L +V
Sbjct: 129 -SKAGKFPTPVSHNDDLYGKVTDVRSTIKFQLKKVLCLAVAVGNVEMEEDVLVNQILMSV 187
Query: 251 KSIEANKPKGAKGVYWKSAYICSSMGPSIRL 281
+ K + V S + SSMGP+ RL
Sbjct: 188 NFFVSLLKKNWQNV--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 = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 53/211 (25%), Positives = 91/211 (43%), Gaps = 25/211 (11%)
Query: 86 LLKQMSSTK---FTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKF 141
LLK + TK F ET E L N DP+ D++ ++ LP ++ + +
Sbjct: 13 LLKYSNETKKRNFLETVELQVGLKNYDPQ-RDKRFSGSLKLPNCPRPNMSICIFGDAFDV 71
Query: 142 NEAKNAGADLVGGDD------LIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMP 195
+ AK+ G D + DD + IK +++ IAS V + + ++LGP+
Sbjct: 72 DRAKSCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIASE---VLIKQVPRLLGPQL--- 125
Query: 196 NPKAGTVTTNIPQAIEEFKK-----GKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAV 250
KAG T + + + K ++++ K + + G + ED L+ L +V
Sbjct: 126 -SKAGKFPTPVSHNDDLYGKVTDVRSTIKFQLKKVLCLAVAVGNVEMEEDVLVNQILMSV 184
Query: 251 KSIEANKPKGAKGVYWKSAYICSSMGPSIRL 281
+ K + V S + SSMGP+ RL
Sbjct: 185 NFFVSLLKKNWQNV--GSLVVKSSMGPAFRL 213
>pdb|3ZF7|J Chain J, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 214
Score = 35.8 bits (81), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 45/206 (21%), Positives = 90/206 (43%), Gaps = 16/206 (7%)
Query: 85 SLLKQMSSTKFTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNE 143
++LK KF E+ + L N DP+ D++ +V LP + V +L +
Sbjct: 15 NVLKDRKERKFKESIDLQVNLKNYDPQ-KDKRFSGSVRLPHVCRPRMTVCLLCDLVHEDI 73
Query: 144 AKNAGADLVGGDDLIEQIKGGFM------EFDKLIASPDMMVKVASLGKILGPR--GLMP 195
AK + ++L + K + ++D + S + + ++ +++GP +
Sbjct: 74 AKKNDVPTMNQEELKKLNKNKKLVKKMCNQYDAFLCSESI---IKTVPRLVGPHMHRVGK 130
Query: 196 NPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEA 255
P ++P + E + V+++ K + G D +ED + N + A+ + +
Sbjct: 131 FPTVCAQNESLPDKVLELQ-STVKFQLKKVLCLGTCVGHVDMTEDQVRQNVVMAINFLVS 189
Query: 256 NKPKGAKGVYWKSAYICSSMGPSIRL 281
K + + KSAYI S+MG S R+
Sbjct: 190 LLKKNWQNL--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 = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 44/198 (22%), Positives = 87/198 (43%), Gaps = 18/198 (9%)
Query: 94 KFTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLV 152
KFTET E L N DP+ D++ +V LP ++V +L + ++A+ G D +
Sbjct: 26 KFTETVELQIGLKNYDPQ-KDKRFSGSVKLPHIPRPKMRVCMLGDAQHVDQAEKMGLDYM 84
Query: 153 GGDD------LIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPKAGTVTTN- 205
+ + +K ++ +AS + + + ++LGP GL K T+ ++
Sbjct: 85 DVESLKKMNKNKKLVKKLAKKYHAFLASEAI---IKQIPRLLGP-GLNKAGKFPTLVSHQ 140
Query: 206 --IPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKG 263
+ + E K V+++ K + + G E + N +V + + K +
Sbjct: 141 ESLEAKVNE-TKATVKFQLKKVLCMGVAVGNLSMDEKQIQQNIQMSVNFLVSLLKKNWQN 199
Query: 264 VYWKSAYICSSMGPSIRL 281
V + Y+ S+MG +R+
Sbjct: 200 V--RCLYVKSTMGKRVRV 215
>pdb|3I9W|A Chain A, Crystal Structure Of The E. Coli Histidine Kinase Sensor
Tors Sensor Domain
Length = 290
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 131 KVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFME--FDKLI 172
++A LAQG+ N +AGA G DLIEQ + E D+LI
Sbjct: 120 EIARLAQGQANNATTSAGATQAGIYDLIEQDQRQAAESALDRLI 163
>pdb|1ZOV|A Chain A, Crystal Structure Of Monomeric Sarcosine Oxidase From
Bacillus Sp. Ns- 129
pdb|1ZOV|B Chain B, Crystal Structure Of Monomeric Sarcosine Oxidase From
Bacillus Sp. Ns- 129
Length = 386
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 70 NLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKS 129
NLR+ ++Y + A LK+ + +T+T + HF +++ PKY++ + A S S
Sbjct: 293 NLRKFLEQY-MPGANGELKKGAVCMYTKTPDEHFVIDLHPKYSNVAIAAGFSGHGFKFSS 351
Query: 130 VKVAVLAQ 137
V LAQ
Sbjct: 352 VVGETLAQ 359
>pdb|1B7E|A Chain A, Transposase Inhibitor
Length = 420
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 193 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 252
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 173 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 229
Query: 253 IEANKPKGAKGVYW 266
E N PKG + W
Sbjct: 230 EEINPPKGETPLKW 243
>pdb|3ECP|A Chain A, Crystal Structure Of Tn5 Transposase Complexed With 5'
Phosphorylated Transposon End Dna
Length = 477
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 193 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 252
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 228 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 284
Query: 253 IEANKPKGAKGVYW 266
E N PKG + W
Sbjct: 285 EEINPPKGETPLKW 298
>pdb|1MUS|A Chain A, Crystal Structure Of Tn5 Transposase Complexed With
Resolved Outside End Dna
Length = 477
Score = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 193 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 252
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 228 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 284
Query: 253 IEANKPKGAKGVYW 266
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 = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 193 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 252
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 232 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 288
Query: 253 IEANKPKGAKGVYW 266
E N PKG + W
Sbjct: 289 EEINPPKGETPLKW 302
>pdb|4DM0|A Chain A, Tn5 Transposase: 20mer Outside End 2 Mn Complex
Length = 477
Score = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 193 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 252
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 228 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 284
Query: 253 IEANKPKGAKGVYW 266
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 = 28.5 bits (62), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 193 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 252
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 232 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 288
Query: 253 IEANKPKGAKGVYW 266
E N PKG + W
Sbjct: 289 EEINPPKGETPLKW 302
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 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,813,498
Number of Sequences: 62578
Number of extensions: 303500
Number of successful extensions: 808
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 30
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 749
Number of HSP's gapped (non-prelim): 46
length of query: 295
length of database: 14,973,337
effective HSP length: 98
effective length of query: 197
effective length of database: 8,840,693
effective search space: 1741616521
effective search space used: 1741616521
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: 51 (24.3 bits)