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= 017710
(367 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 = 414 bits (1063), Expect = e-116, Method: Compositional matrix adjust.
Identities = 195/237 (82%), Positives = 217/237 (91%)
Query: 130 DRTRSKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLR 189
DRTRSKRFLEIQ LRE K+EYDLKTA+SL+KQMSSTKF ETAEAHFRLNIDPKYNDQQLR
Sbjct: 115 DRTRSKRFLEIQKLREIKQEYDLKTALSLMKQMSSTKFVETAEAHFRLNIDPKYNDQQLR 174
Query: 190 ATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDM 249
ATVSLPKGTGK+VK+AVLAQG+K +EAK AGAD+VGG++LIEQIKGGFM+FDKLIA+ DM
Sbjct: 175 ATVSLPKGTGKTVKIAVLAQGDKIDEAKAAGADIVGGEELIEQIKGGFMDFDKLIATSDM 234
Query: 250 MVKVASLGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADF 309
M KVASLG+ILGPRGLMP PKAGTVT N+ QA+EEFKKGKVE+R DKTGIVHIPFGK +F
Sbjct: 235 MAKVASLGRILGPRGLMPTPKAGTVTPNVAQAVEEFKKGKVEFRVDKTGIVHIPFGKLNF 294
Query: 310 SEDDLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLNIKEMLDYKLPSN 366
E+DLLIN A +KS+E NKP GAKGVYWKSA+I SSMGPSIRLNI+EMLDYK PSN
Sbjct: 295 EEEDLLINLFATIKSVETNKPTGAKGVYWKSAHISSSMGPSIRLNIREMLDYKPPSN 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 = 233 bits (593), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 109/221 (49%), Positives = 158/221 (71%), Gaps = 1/221 (0%)
Query: 135 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 194
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 6 KRYRALLEKVDPNKVYTIDEAARLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 65
Query: 195 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 254
P G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 66 PHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAVG 125
Query: 255 S-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 313
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 126 SKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEK 185
Query: 314 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 186 LADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 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 = 232 bits (592), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 109/221 (49%), Positives = 158/221 (71%), Gaps = 1/221 (0%)
Query: 135 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 194
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 5 KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 64
Query: 195 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 254
P G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 65 PHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAVG 124
Query: 255 S-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 313
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 125 SKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEK 184
Query: 314 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 185 LADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 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 = 232 bits (592), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 109/221 (49%), Positives = 158/221 (71%), Gaps = 1/221 (0%)
Query: 135 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 194
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 6 KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 65
Query: 195 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 254
P G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 66 PHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAVG 125
Query: 255 S-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 313
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 126 SKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEK 185
Query: 314 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 186 LADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 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 = 109/221 (49%), Positives = 158/221 (71%), Gaps = 1/221 (0%)
Query: 135 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 194
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 5 KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 64
Query: 195 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 254
P G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 65 PHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAVG 124
Query: 255 S-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 313
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 125 SKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEK 184
Query: 314 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 185 LADNIRAFIRALEAHKPEGAKGTFLRSVYVTTAMGPSVRIN 225
>pdb|4F9T|A Chain A, Ribosomal Protein L1 From Thermus Thermophilus With
Substitution Thr217ala
Length = 229
Score = 232 bits (592), Expect = 2e-61, Method: Compositional matrix adjust.
Identities = 109/221 (49%), Positives = 158/221 (71%), Gaps = 1/221 (0%)
Query: 135 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 194
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 6 KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 65
Query: 195 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 254
P G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 66 PHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAVG 125
Query: 255 S-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 313
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 126 SKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEK 185
Query: 314 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 186 LADNIRAFIRALEAHKPEGAKGTFLRSVYVTTAMGPSVRIN 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 = 4e-61, Method: Compositional matrix adjust.
Identities = 108/221 (48%), Positives = 158/221 (71%), Gaps = 1/221 (0%)
Query: 135 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 194
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 6 KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 65
Query: 195 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 254
P G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 66 PHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAVG 125
Query: 255 S-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 313
S +G+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 126 SKMGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEK 185
Query: 314 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 186 LADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 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 = 231 bits (589), Expect = 4e-61, Method: Compositional matrix adjust.
Identities = 109/223 (48%), Positives = 157/223 (70%), Gaps = 1/223 (0%)
Query: 133 RSKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATV 192
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TV
Sbjct: 4 HGKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTV 63
Query: 193 SLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVK 252
SLP G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M
Sbjct: 64 SLPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGA 123
Query: 253 VAS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSE 311
V S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F
Sbjct: 124 VGSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPP 183
Query: 312 DDLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
+ L N A ++++EA+KP+GAKG + +S Y+ + MGPS+R+N
Sbjct: 184 EKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTVMGPSVRIN 226
>pdb|1AD2|A Chain A, Ribosomal Protein L1 Mutant With Serine 179 Replaced By
Cysteine
Length = 228
Score = 231 bits (589), Expect = 5e-61, Method: Compositional matrix adjust.
Identities = 109/223 (48%), Positives = 158/223 (70%), Gaps = 1/223 (0%)
Query: 133 RSKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATV 192
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TV
Sbjct: 3 HGKRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTV 62
Query: 193 SLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVK 252
SLP G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M
Sbjct: 63 SLPHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGA 122
Query: 253 VAS-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSE 311
V S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F
Sbjct: 123 VGSKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKACFPP 182
Query: 312 DDLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
+ L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 183 EKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 225
>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 = 5e-61, Method: Compositional matrix adjust.
Identities = 109/221 (49%), Positives = 158/221 (71%), Gaps = 1/221 (0%)
Query: 135 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 194
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 1 KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 60
Query: 195 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 254
P G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 61 PHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAVG 120
Query: 255 S-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 313
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 121 SKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKACFPPEK 180
Query: 314 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 181 LADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 221
>pdb|3QOY|A Chain A, Crystal Structure Of Ribosomal Protein L1 From Aquifex
Aeolicus
Length = 242
Score = 229 bits (585), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 114/231 (49%), Positives = 159/231 (68%), Gaps = 4/231 (1%)
Query: 133 RSKRFLEIQNLREGKKEYDLKTAISLLKQMSST---KFTETAEAHFRLNIDPKYNDQQLR 189
R K+++E L + K Y L+ A+ LLK+M +F ET E RLN+DP+Y DQ +R
Sbjct: 4 RGKKYIEASKLVDRNKRYTLEEAVDLLKKMEEVLQRRFDETVELAMRLNVDPRYADQMVR 63
Query: 190 ATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQI-KGGFMEFDKLIASPD 248
+V LP G GK +KV V A+GE +A+ AGAD VGGD+LI +I K + +FD IA+P+
Sbjct: 64 GSVVLPHGLGKPIKVVVFAEGEYAKKAEEAGADYVGGDELINKILKEEWTDFDVAIATPE 123
Query: 249 MMVKVASLGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKAD 308
MM KVA LG+ILGPRGLMP+PK GTVTTN+ QAI++ K+G+VE++ DK G VH+P GK
Sbjct: 124 MMPKVAKLGRILGPRGLMPSPKTGTVTTNVEQAIKDAKRGRVEFKVDKAGNVHMPVGKIS 183
Query: 309 FSEDDLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLNIKEML 359
F ++ L+ N AA+ ++ KP GAKG Y K+ + +M PS++L+I E+L
Sbjct: 184 FEKEKLIDNLYAAIDAVVRAKPPGAKGQYIKNMAVSLTMSPSVKLDINEVL 234
>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 (582), Expect = 3e-60, Method: Compositional matrix adjust.
Identities = 107/221 (48%), Positives = 156/221 (70%), Gaps = 1/221 (0%)
Query: 135 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 194
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 6 KRYRALLEKVDPNKVYTIDEAARLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 65
Query: 195 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 254
P G GK V+V +A+GEK EA+ AGAD VGG+++I++I +M+FD ++A+PD+M V
Sbjct: 66 PHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDAWMDFDAVVATPDVMGAVG 125
Query: 255 S-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 313
S LG+IL PRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 126 SKLGRILAPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEK 185
Query: 314 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
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 = 4e-60, Method: Compositional matrix adjust.
Identities = 109/221 (49%), Positives = 158/221 (71%), Gaps = 2/221 (0%)
Query: 135 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 194
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 6 KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 65
Query: 195 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 254
P G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+M V
Sbjct: 66 PHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVMGAVG 125
Query: 255 S-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 313
S LG+ILGPRGL+PNPKAGTV NI + I E KG++E+R DKTG +H P GKA F +
Sbjct: 126 SKLGRILGPRGLLPNPKAGTVGFNIGEIIREI-KGRIEFRNDKTGAIHAPVGKASFPPEK 184
Query: 314 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
L N A ++++EA+KP+GAKG + +S Y+ ++MGPS+R+N
Sbjct: 185 LADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 225
>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 = 106/221 (47%), Positives = 155/221 (70%), Gaps = 1/221 (0%)
Query: 135 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 194
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 5 KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 64
Query: 195 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 254
P G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+M+FD ++A+PD+ V
Sbjct: 65 PHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWMDFDAVVATPDVXGAVG 124
Query: 255 S-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 313
S G+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 125 SKXGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEK 184
Query: 314 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
L N A ++++EA+KP+GAKG + +S Y+ ++ GPS+R+N
Sbjct: 185 LADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTXGPSVRIN 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 = 106/221 (47%), Positives = 155/221 (70%), Gaps = 1/221 (0%)
Query: 135 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 194
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 5 KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 64
Query: 195 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 254
P G GK V+V +A+GEK EA+ AGAD VGG+++I++I G+ +FD ++A+PD+ V
Sbjct: 65 PHGLGKQVRVLAIAKGEKIKEAEEAGADYVGGEEIIQKILDGWXDFDAVVATPDVXGAVG 124
Query: 255 S-LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 313
S LG+ILGPRGL+PNPKAGTV NI + I E K G++E+R DKTG +H P GKA F +
Sbjct: 125 SKLGRILGPRGLLPNPKAGTVGFNIGEIIREIKAGRIEFRNDKTGAIHAPVGKASFPPEK 184
Query: 314 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
L N A ++++EA+KP+GAKG + +S Y+ ++ GPS+R+N
Sbjct: 185 LADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTXGPSVRIN 225
>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 = 197 bits (500), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 104/221 (47%), Positives = 142/221 (64%)
Query: 134 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 193
+KR I+ + K+YD+ AI+LLK++++ KF E+ + L ID + +DQ +R
Sbjct: 5 TKRMRVIREKVDATKQYDINEAIALLKELATAKFVESVDVAVNLGIDARKSDQNVRGATV 64
Query: 194 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 253
LP GTG+SV+VAV QG AK AGA+LVG +DL +QIK G M FD +IASPD M V
Sbjct: 65 LPHGTGRSVRVAVFTQGANAEAAKAAGAELVGMEDLADQIKKGEMNFDVVIASPDAMRVV 124
Query: 254 ASLGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 313
LG++LGPRGLMPNPK GTVT N+ +A++ K G+V YR DK GI+H GK DF D
Sbjct: 125 GQLGQVLGPRGLMPNPKVGTVTPNVAEAVKNAKAGQVRYRNDKNGIIHTTIGKVDFDADK 184
Query: 314 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
L N A + +++ KP AKGVY K I ++MG + ++
Sbjct: 185 LKENLEALLVALKKAKPTQAKGVYIKKVSISTTMGAGVAVD 225
>pdb|2RDO|9 Chain 9, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
Length = 233
Score = 196 bits (499), Expect = 1e-50, Method: Compositional matrix adjust.
Identities = 104/221 (47%), Positives = 142/221 (64%)
Query: 134 SKRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVS 193
+KR I+ + K+YD+ AI+LLK++++ KF E+ + L ID + +DQ +R
Sbjct: 4 TKRMRVIREKVDATKQYDINEAIALLKELATAKFVESVDVAVNLGIDARKSDQNVRGATV 63
Query: 194 LPKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKV 253
LP GTG+SV+VAV QG AK AGA+LVG +DL +QIK G M FD +IASPD M V
Sbjct: 64 LPHGTGRSVRVAVFTQGANAEAAKAAGAELVGMEDLADQIKKGEMNFDVVIASPDAMRVV 123
Query: 254 ASLGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDD 313
LG++LGPRGLMPNPK GTVT N+ +A++ K G+V YR DK GI+H GK DF D
Sbjct: 124 GQLGQVLGPRGLMPNPKVGTVTPNVAEAVKNAKAGQVRYRNDKNGIIHTTIGKVDFDADK 183
Query: 314 LLINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
L N A + +++ KP AKGVY K I ++MG + ++
Sbjct: 184 LKENLEALLVALKKAKPTQAKGVYIKKVSISTTMGAGVAVD 224
>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: 135 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 194
KR I+ + K+YD+ AI+LLK++++ KF E+ + L ID + +DQ +R L
Sbjct: 1 KRMRVIREKVDATKQYDINEAIALLKELATAKFVESVDVAVNLGIDARKSDQNVRGATVL 60
Query: 195 PKGTGKSVKVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVA 254
P GTG+SV+VAV QG AK AGA+LVG +DL +QIK G M FD +IASPD M V
Sbjct: 61 PHGTGRSVRVAVFTQGANAEAAKAAGAELVGMEDLADQIKKGEMNFDVVIASPDAMRVVG 120
Query: 255 SLGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDL 314
LG++LGPRGLMPNPK GTVT N+ +A++ K G+V YR DK GI+H GK DF D L
Sbjct: 121 QLGQVLGPRGLMPNPKVGTVTPNVAEAVKNAKAGQVRYRNDKNGIIHTTIGKVDFDADKL 180
Query: 315 LINFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRLN 354
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 (489), Expect = 2e-49, Method: Compositional matrix adjust.
Identities = 96/191 (50%), Positives = 133/191 (69%), Gaps = 11/191 (5%)
Query: 164 STKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADL 223
+ KF ET E H +L IDP+ +DQ +R TVSLP G GK V+V +A+GEK EA+ AGAD
Sbjct: 11 TAKFDETVEVHAKLGIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGADY 70
Query: 224 VGGDDLIEQIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNIPQAI 282
VGG+++I++I G+M+F +M V S LG+ILGPRGL NPKAGTV NI + I
Sbjct: 71 VGGEEIIQKILDGWMDF--------VMGAVGSKLGRILGPRGL--NPKAGTVGFNIGEII 120
Query: 283 EEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKSAY 342
E K G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S Y
Sbjct: 121 REIKAGRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVY 180
Query: 343 ICSSMGPSIRL 353
+ ++MGPS+R+
Sbjct: 181 VTTTMGPSVRI 191
>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 = 82.0 bits (201), Expect = 5e-16, Method: Compositional matrix adjust.
Identities = 61/195 (31%), Positives = 98/195 (50%), Gaps = 12/195 (6%)
Query: 167 FTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVG 225
FT++ E L +ID K + + + V LP G GK VK+AV+A G A+ G D++
Sbjct: 24 FTQSVEVAVNLKDIDLKRPENRFKLEVVLPHGRGKDVKIAVIADGAVAEAARKLGLDVIS 83
Query: 226 GDDLIE------QIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNI 278
+L E Q + ++D IA +M K+ LG+ LGPR MP T+T
Sbjct: 84 SAELEEIASSPRQARKLAKKYDFFIAEAPLMPKIGRYLGRYLGPRNKMPVVVPPTLTDLT 143
Query: 279 PQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYW 338
P +E+ KK V + +VH P G S++++ N A + +I +G V
Sbjct: 144 P-IVEKLKKT-VRIQLKNNPVVHAPVGTEKMSDEEIAENIEAVLNAIIGKLERGESQV-- 199
Query: 339 KSAYICSSMGPSIRL 353
KS Y+ ++MGP++++
Sbjct: 200 KSVYVKTTMGPAVKI 214
>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 = 7e-16, Method: Compositional matrix adjust.
Identities = 32/67 (47%), Positives = 50/67 (74%)
Query: 288 GKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYWKSAYICSSM 347
G++E+R DKTG +H P GKA F + L N A ++++EA+KP+GAKG + +S Y+ ++M
Sbjct: 68 GRIEFRNDKTGAIHAPVGKASFPPEKLADNIRAFIRALEAHKPEGAKGTFLRSVYVTTTM 127
Query: 348 GPSIRLN 354
GPS+R+N
Sbjct: 128 GPSVRIN 134
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 26/63 (41%), Positives = 39/63 (61%)
Query: 135 KRFLEIQNLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSL 194
KR+ + + K Y + A L+K++++ KF ET E H +L IDP+ +DQ +R TVSL
Sbjct: 5 KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRSDQNVRGTVSL 64
Query: 195 PKG 197
P G
Sbjct: 65 PHG 67
>pdb|1DWU|A Chain A, Ribosomal Protein L1
pdb|1DWU|B Chain B, Ribosomal Protein L1
Length = 213
Score = 77.8 bits (190), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 64/196 (32%), Positives = 97/196 (49%), Gaps = 15/196 (7%)
Query: 167 FTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVG 225
FT++ + L +D + +L+ V LP G GK K+AV+A+G+ +A+ G ++
Sbjct: 22 FTQSLDLIINLKELDLSRPENRLKEQVVLPNGRGKEPKIAVIAKGDLAAQAEEMGLTVIR 81
Query: 226 GDDLIEQIKGGFM------EFDKLIASPDMMVKVA-SLGKILGPRGLMPNPKAGTVTTNI 278
D+L E K M E D IA DMM V +LG +LGPRG MP P N+
Sbjct: 82 QDELEELGKNKKMAKKIANEHDFFIAQADMMPLVGKTLGPVLGPRGKMPQPVPA--NANL 139
Query: 279 PQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYW 338
+E KK + DK + H+ G S+++L N A + ++ K KG+Y
Sbjct: 140 TPLVERLKKTVLINTRDKP-LFHVLVGNEKMSDEELAENIEAILNTVSR---KYEKGLYH 195
Query: 339 -KSAYICSSMGPSIRL 353
KSAY +MGP ++
Sbjct: 196 VKSAYTKLTMGPPAQI 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 = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 56/216 (25%), Positives = 99/216 (45%), Gaps = 18/216 (8%)
Query: 149 EYDLKTAIS-LLKQMSSTKFTETAEAHFRLNIDPKYND--QQLRATVSLPKGTGKSVKVA 205
+ +++ A+S L+ F ET + L D ND ++ +V LP GTG+ +
Sbjct: 3 DQEIENAVSRALEDAPERNFRETVDLAVNLR-DLDLNDPSNRVDESVVLPAGTGQETTIV 61
Query: 206 VLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDK-------LIASPDMMVKVAS-LG 257
V A+GE A+ D++ D+L E++ G IA +M + LG
Sbjct: 62 VFAEGETALRAEEVADDVLDEDEL-EELGGDDDAAKDLADDTDFFIAEKGLMQDIGRYLG 120
Query: 258 KILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLIN 317
+LGPRG MP P ++ + IE K V+ R+ + H G D S +++ N
Sbjct: 121 TVLGPRGKMPEPL--DPDDDVVEVIERMKN-TVQLRSGERRTFHTRVGAEDMSAENIADN 177
Query: 318 FLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRL 353
++ + 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 = 62.0 bits (149), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 57/192 (29%), Positives = 94/192 (48%), Gaps = 15/192 (7%)
Query: 167 FTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVG 225
FT++ E L ID + + +++ V LP G GK K+AV+ G+ +A+ G ++
Sbjct: 22 FTQSFEFIATLKEIDMRKPENRIKTEVVLPHGRGKEAKIAVIGTGDLAKQAEELGLTVIR 81
Query: 226 GDDLIE------QIKGGFMEFDKLIASPDMMVKVAS-LGKILGPRGLMPNPKAGTVTTNI 278
+++ E +++ D IA D+M + +G ILGPRG MP P NI
Sbjct: 82 KEEIEELGKNKRKLRKIAKAHDFFIAQADLMPLIGRYMGVILGPRGKMPKPVPA--NANI 139
Query: 279 PQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVYW 338
+E KK V DK + G + D+ +++ + AV ++ A K + KG+Y
Sbjct: 140 KPLVERLKKTVVINTRDKP-YFQVLVGNEKMT-DEQIVDNIEAVLNVVAKKYE--KGLYH 195
Query: 339 -KSAYICSSMGP 349
K AY+ +MGP
Sbjct: 196 IKDAYVKLTMGP 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 = 9e-09, Method: Compositional matrix adjust.
Identities = 60/218 (27%), Positives = 100/218 (45%), Gaps = 21/218 (9%)
Query: 151 DLKTAISLLKQMSSTK------FTETAEAHFRLN-IDPKYNDQQLRATVSLPKGTGKSVK 203
D ++ I LK ST+ FT++ E ID K D +LR V LPK K+ +
Sbjct: 4 DKESLIEALKLALSTEYNVKRNFTQSVEIILTFKGIDXKKGDLKLREIVPLPKQPSKAKR 63
Query: 204 VAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPD-MMVKVAS------- 255
V V+ E+ AK A +V + +++++G KL + ++ S
Sbjct: 64 VLVVPSSEQLEYAKKASPKVVITREELQKLQGQKRPVKKLARQNEWFLINQESXALAGRI 123
Query: 256 LGKILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLL 315
LG LGPRG P P T +I + I FK+ + D+ V + G D +DL
Sbjct: 124 LGPALGPRGKFPTPLPN--TADISEYINRFKRSVLVKTKDQPQ-VQVFIGTEDXKPEDLA 180
Query: 316 INFLAAVKSIEANKPKGAKGVYWKSAYICSSMGPSIRL 353
N +A + +IE NK K + ++ Y+ ++ G ++++
Sbjct: 181 ENAIAVLNAIE-NKAKVETNL--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 = 55.5 bits (132), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 55/193 (28%), Positives = 91/193 (47%), Gaps = 17/193 (8%)
Query: 167 FTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLVG 225
FT++ E L ID + + +++ V LP G GK K+AV+ G+ +A+ G ++
Sbjct: 22 FTQSFEFIATLKEIDXRKPENRIKTEVVLPHGRGKEAKIAVIGTGDLAKQAEELGLTVIR 81
Query: 226 GDDLIEQIKGGFMEFDKLIASPDMMVKVASL--------GKILGPRGLMPNPKAGTVTTN 277
++ IE++ + K+ + D + A L G ILGPRG P P N
Sbjct: 82 KEE-IEELGKNKRKLRKIAKAHDFFIAQADLXPLIGRYXGVILGPRGKXPKPVPA--NAN 138
Query: 278 IPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKGVY 337
I +E KK V DK + G + D+ +++ + AV ++ A K + KG+Y
Sbjct: 139 IKPLVERLKKTVVINTRDKP-YFQVLVGNEKXT-DEQIVDNIEAVLNVVAKKYE--KGLY 194
Query: 338 W-KSAYICSSMGP 349
K AY+ + GP
Sbjct: 195 HIKDAYVKLTXGP 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 = 3e-06, Method: Compositional matrix adjust.
Identities = 59/206 (28%), Positives = 91/206 (44%), Gaps = 21/206 (10%)
Query: 151 DLKTAISLLKQMSSTK------FTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKSVKV 204
D ++ I LK ST+ FT++ E K D +LR V LPK K+ +V
Sbjct: 4 DKESLIEALKLALSTEYNVKRNFTQSVEIILTFKGIDKKGDLKLREIVPLPKQPSKAKRV 63
Query: 205 AVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPD-MMVKVAS------LG 257
V+ E+ AK A +V + +++++G KL + ++ S LG
Sbjct: 64 LVVPSSEQLEYAKKASPKVVITREELQKLQGQKRPVKKLARQNEWFLINQESALAGRILG 123
Query: 258 KILGPRGLMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLIN 317
LGPRG P P T +I + I FK+ + D+ V + G D E DL N
Sbjct: 124 PALGPRGKFPTPLPN--TADISEYINRFKRSVLVKTKDQPQ-VQVFIGTEDKPE-DLAEN 179
Query: 318 FLAAVKSIEANKPK---GAKGVYWKS 340
+A + +IE NK K + +Y K+
Sbjct: 180 AIAVLNAIE-NKAKVETNLRNIYVKT 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 = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 53/211 (25%), Positives = 91/211 (43%), Gaps = 25/211 (11%)
Query: 158 LLKQMSSTK---FTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKF 213
LLK + TK F ET E L N DP+ D++ ++ LP ++ + +
Sbjct: 16 LLKYSNETKKRNFLETVELQVGLKNYDPQ-RDKRFSGSLKLPNCPRPNMSICIFGDAFDV 74
Query: 214 NEAKNAGADLVGGDD------LIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMP 267
+ AK+ G D + DD + IK +++ IAS V + + ++LGP+
Sbjct: 75 DRAKSCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIASE---VLIKQVPRLLGPQL--- 128
Query: 268 NPKAGTVTTNIPQAIEEFKK-----GKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAV 322
KAG T + + + K ++++ K + + G + ED L+ L +V
Sbjct: 129 -SKAGKFPTPVSHNDDLYGKVTDVRSTIKFQLKKVLCLAVAVGNVEMEEDVLVNQILMSV 187
Query: 323 KSIEANKPKGAKGVYWKSAYICSSMGPSIRL 353
+ 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 = 42.4 bits (98), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 53/211 (25%), Positives = 91/211 (43%), Gaps = 25/211 (11%)
Query: 158 LLKQMSSTK---FTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKF 213
LLK + TK F ET E L N DP+ D++ ++ LP ++ + +
Sbjct: 13 LLKYSNETKKRNFLETVELQVGLKNYDPQ-RDKRFSGSLKLPNCPRPNMSICIFGDAFDV 71
Query: 214 NEAKNAGADLVGGDD------LIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMP 267
+ AK+ G D + DD + IK +++ IAS V + + ++LGP+
Sbjct: 72 DRAKSCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIASE---VLIKQVPRLLGPQL--- 125
Query: 268 NPKAGTVTTNIPQAIEEFKK-----GKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAV 322
KAG T + + + K ++++ K + + G + ED L+ L +V
Sbjct: 126 -SKAGKFPTPVSHNDDLYGKVTDVRSTIKFQLKKVLCLAVAVGNVEMEEDVLVNQILMSV 184
Query: 323 KSIEANKPKGAKGVYWKSAYICSSMGPSIRL 353
+ 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 = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 47/208 (22%), Positives = 91/208 (43%), Gaps = 20/208 (9%)
Query: 157 SLLKQMSSTKFTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNE 215
++LK KF E+ + L N DP+ D++ +V LP + V +L +
Sbjct: 15 NVLKDRKERKFKESIDLQVNLKNYDPQ-KDKRFSGSVRLPHVCRPRMTVCLLCDLVHEDI 73
Query: 216 AKNAGADLVGGDDLIEQIKGGFM------EFDKLIASPDMMVKVASLGKILGPR----GL 265
AK + ++L + K + ++D + S + + ++ +++GP G
Sbjct: 74 AKKNDVPTMNQEELKKLNKNKKLVKKMCNQYDAFLCSESI---IKTVPRLVGPHMHRVGK 130
Query: 266 MPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSI 325
P A ++P + E + V+++ K + G D +ED + N + A+ +
Sbjct: 131 FPTVCAQN--ESLPDKVLELQ-STVKFQLKKVLCLGTCVGHVDMTEDQVRQNVVMAINFL 187
Query: 326 EANKPKGAKGVYWKSAYICSSMGPSIRL 353
+ K + + KSAYI S+MG S R+
Sbjct: 188 VSLLKKNWQNL--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 = 33.5 bits (75), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 44/198 (22%), Positives = 87/198 (43%), Gaps = 18/198 (9%)
Query: 166 KFTETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKSVKVAVLAQGEKFNEAKNAGADLV 224
KFTET E L N DP+ D++ +V LP ++V +L + ++A+ G D +
Sbjct: 26 KFTETVELQIGLKNYDPQ-KDKRFSGSVKLPHIPRPKMRVCMLGDAQHVDQAEKMGLDYM 84
Query: 225 GGDD------LIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPKAGTVTTN- 277
+ + +K ++ +AS + + + ++LGP GL K T+ ++
Sbjct: 85 DVESLKKMNKNKKLVKKLAKKYHAFLASEAI---IKQIPRLLGP-GLNKAGKFPTLVSHQ 140
Query: 278 --IPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKSIEANKPKGAKG 335
+ + E K V+++ K + + G E + N +V + + K +
Sbjct: 141 ESLEAKVNE-TKATVKFQLKKVLCMGVAVGNLSMDEKQIQQNIQMSVNFLVSLLKKNWQN 199
Query: 336 VYWKSAYICSSMGPSIRL 353
V + Y+ S+MG +R+
Sbjct: 200 V--RCLYVKSTMGKRVRV 215
>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 = 3.6, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 36/68 (52%), Gaps = 1/68 (1%)
Query: 142 NLREGKKEYDLKTAISLLKQMSSTKFTETAEAHFRLNIDPKYNDQQLRATVSLPKGTGKS 201
NLR+ ++Y + A LK+ + +T+T + HF +++ PKY++ + A S S
Sbjct: 293 NLRKFLEQY-MPGANGELKKGAVCMYTKTPDEHFVIDLHPKYSNVAIAAGFSGHGFKFSS 351
Query: 202 VKVAVLAQ 209
V LAQ
Sbjct: 352 VVGETLAQ 359
>pdb|3I9W|A Chain A, Crystal Structure Of The E. Coli Histidine Kinase Sensor
Tors Sensor Domain
Length = 290
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 19/44 (43%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 203 KVAVLAQGEKFNEAKNAGADLVGGDDLIEQIKGGFME--FDKLI 244
++A LAQG+ N +AGA G DLIEQ + E D+LI
Sbjct: 120 EIARLAQGQANNATTSAGATQAGIYDLIEQDQRQAAESALDRLI 163
>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 = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 50/122 (40%), Gaps = 25/122 (20%)
Query: 211 EKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPK 270
E N K A D+V D ++KG F+ F A+ G + G + P +
Sbjct: 225 EFINGYKPATTDIVPQDGDYVKVKGKFLAF-------------ATNGDVSGWLSIYPIDE 271
Query: 271 AGTVTTNIPQAIEEFK--------KGKV---EYRADKTGIVHIPFGKADFSEDDLLINFL 319
G T +P K KG++ ++R D + I++ + +A F DDL FL
Sbjct: 272 NGKRLTRLPVKFMRVKGDFEVRLRKGQLYEFQFRKDFSPIIY-HYYRAPFVRDDLWARFL 330
Query: 320 AA 321
+
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 = 8.3, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 50/122 (40%), Gaps = 25/122 (20%)
Query: 211 EKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPK 270
E N K A D+V D ++KG F+ F A+ G + G + P +
Sbjct: 225 EFINGYKPATTDIVPQDGDYVKVKGKFLAF-------------ATNGDVSGWLSIYPIDE 271
Query: 271 AGTVTTNIPQAIEEFK--------KGKV---EYRADKTGIVHIPFGKADFSEDDLLINFL 319
G T +P K KG++ ++R D + I++ + +A F DDL FL
Sbjct: 272 NGKRLTRLPVKFMRVKGDFEVRLRKGQLYEFQFRKDFSPIIY-HYYRAPFVRDDLWARFL 330
Query: 320 AA 321
+
Sbjct: 331 VS 332
>pdb|2ZYS|A Chain A, A. Fulgidus Lipase With Fatty Acid Fragment And Chloride
Length = 479
Score = 28.1 bits (61), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 50/122 (40%), Gaps = 25/122 (20%)
Query: 211 EKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPK 270
E N K A D+V D ++KG F+ F A+ G + G + P +
Sbjct: 225 EFINGYKPATTDIVPQDGDYVKVKGKFLAF-------------ATNGDVSGWLSIYPIDE 271
Query: 271 AGTVTTNIPQAIEEFK--------KGKV---EYRADKTGIVHIPFGKADFSEDDLLINFL 319
G T +P K KG++ ++R D + I++ + +A F DDL FL
Sbjct: 272 NGKRLTRLPVKFMRVKGDFEVRLRKGQLYEFQFRKDFSPIIY-HYYRAPFVRDDLWARFL 330
Query: 320 AA 321
+
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 = 9.2, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 50/122 (40%), Gaps = 25/122 (20%)
Query: 211 EKFNEAKNAGADLVGGDDLIEQIKGGFMEFDKLIASPDMMVKVASLGKILGPRGLMPNPK 270
E N K A D+V D ++KG F+ F A+ G + G + P +
Sbjct: 225 EFINGYKPATTDIVPQDGDYVKVKGKFLAF-------------ATNGDVSGWLSIYPIDE 271
Query: 271 AGTVTTNIPQAIEEFK--------KGKV---EYRADKTGIVHIPFGKADFSEDDLLINFL 319
G T +P K KG++ ++R D + I++ + +A F DDL FL
Sbjct: 272 NGKRLTRLPVKFMRVKGDFEVRLRKGQLYEFQFRKDFSPIIY-HYYRAPFVRDDLWARFL 330
Query: 320 AA 321
+
Sbjct: 331 VS 332
>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 = 9.7, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 265 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 324
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 228 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 284
Query: 325 IEANKPKGAKGVYW 338
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 = 9.9, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 34/74 (45%), Gaps = 3/74 (4%)
Query: 265 LMPNPKAGTVTTNIPQAIEEFKKGKVEYRADKTGIVHIPFGKADFSEDDLLINFLAAVKS 324
L P+ G +IPQ K+GK + R + + + G+ + ++ +N AV +
Sbjct: 228 LKNQPELGGYQISIPQKGVVDKRGKRKNRPARKASLSLRSGRITLKQGNITLN---AVLA 284
Query: 325 IEANKPKGAKGVYW 338
E N PKG + W
Sbjct: 285 EEINPPKGETPLKW 298
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 0.132 0.379
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,905,776
Number of Sequences: 62578
Number of extensions: 328324
Number of successful extensions: 874
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: 810
Number of HSP's gapped (non-prelim): 51
length of query: 367
length of database: 14,973,337
effective HSP length: 100
effective length of query: 267
effective length of database: 8,715,537
effective search space: 2327048379
effective search space used: 2327048379
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)