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= psy3759
(844 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1P87|B Chain B, Real Space Refined Coordinates Of The 30s Subunit Fitted
Into The Low Resolution Cryo-Em Map Of The
Initiation-Like State Of E. Coli 70s Ribosome
pdb|2AVY|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2AW7|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli At 3.5 A Resolution. This File Contains
The 30s Subunit Of The Second 70s Ribosome. The Entire
Crystal Structure Contains Two 70s Ribosomes And Is
Described In Remark 400.
pdb|2I2P|B Chain B, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2I2U|B Chain B, Crystal Structure Of Ribosome With Messenger Rna And The
Anticodon Stem-Loop Of P-Site Trna. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QOU|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 30s Subunit Of The First 70s Ribosome,
With Spectinomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|2QOW|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin. This
File Contains The 30s Subunit Of The Second 70s
Ribosome, With Spectinomycin Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|2QOY|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 30s Subunit Of The
First 70s Ribosome, With Spectinomycin And Neomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QP0|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Spectinomycin And
Neomycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome, With Spectinomycin And Neomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes.
pdb|2QAL|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 30s Subunit Of The First 70s Ribosome, With
Neomycin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QAN|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Neomycin. This File
Contains The 30s Subunit Of The Second 70s Ribosome,
With Neomycin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QB9|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 30s Subunit Of The First 70s Ribosome, With
Gentamicin Bound. The Entire Crystal Structure Contains
Two 70s Ribosomes And Is Described In Remark 400.
pdb|2QBB|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin. This File
Contains The 30s Subunit Of The Second 70s Ribosome,
With Gentamicin Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBD|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 30s Subunit Of The
First 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBF|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 30s Subunit Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes And Is Described In Remark
400.
pdb|2QBH|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 30s
Subunit Of The First 70s Ribosome, With Gentamicin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2QBJ|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 30s
Subunit Of The Second 70s Ribosome, With Gentamicin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4K|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
30s Subunit Of The First 70s Ribosome, With Paromomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4M|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
30s Subunit Of The Second 70s Ribosome, With Paromomycin
Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2VHO|B Chain B, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 3 Of 4)
pdb|2VHP|B Chain B, Structure Of Pdf Binding Helix In Complex With The
Ribosome (Part 4 Of 4)
pdb|3DF1|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 30s Subunit Of The First 70s Ribosome, With
Hygromycin B Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3DF3|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Hygromycin B. This File
Contains The 30s Subunit Of The Second 70s Ribosome,
With Hygromycin B Bound. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3J00|B Chain B, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|4ADV|B Chain B, Structure Of The E. Coli Methyltransferase Ksga Bound To
The E. Coli 30s Ribosomal Subunit
pdb|3J0U|E Chain E, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0V|E Chain E, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0X|E Chain E, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J0Z|E Chain E, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J10|E Chain E, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 6 Of The Six
Classes)
pdb|3J13|D Chain D, Structural Characterization Of Mrna-Trna Translocation
Intermediates (30s Ribosome Of Class 3 Of The Six
Classes)
Length = 240
Score = 241 bits (615), Expect = 1e-63, Method: Composition-based stats.
Identities = 115/246 (46%), Positives = 173/246 (70%), Gaps = 8/246 (3%)
Query: 2 SITIREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGF 61
++++R+ML+AGVHFGHQTR+WNPKM +IFG RNK+HIINLEKT+ M+ +A+ + ++
Sbjct: 2 TVSMRDMLKAGVHFGHQTRYWNPKMKPFIFGARNKVHIINLEKTVPMFNEALAELNKIAS 61
Query: 62 SKGTLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFIT 121
KG +LFVGTKR A + + A+ F++ RWLGG+LTN+KT++ SI+RLK+++
Sbjct: 62 RKGKILFVGTKRAASEAVKDAALSCDQFFVNHRWLGGMLTNWKTVRQSIKRLKDLETQSQ 121
Query: 122 NGSIRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIP 181
+G+ KL+KKEAL+ R+ KL +GGIK+M +PDA+F+ID + A+ EA L IP
Sbjct: 122 DGTFDKLTKKEALMRTRELEKLENSLGGIKDMGGLPDALFVIDADHEHIAIKEANNLGIP 181
Query: 182 IIGVVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAKTVGELRSKTLAPIMECK 241
+ +VDTN PDG+++VIPGNDD+ +++ LY + A TV E RS+ LA + +
Sbjct: 182 VFAIVDTNSDPDGVDFVIPGNDDAIRAVTLYLGAV------AATVREGRSQDLAS--QAE 233
Query: 242 KALIEA 247
++ +EA
Sbjct: 234 ESFVEA 239
>pdb|1VS5|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|1VS7|B Chain B, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With The Antibiotic
Kasugamyin At 3.5a Resolution. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|3E1A|B Chain B, Structure Of The 30s Subunit And The Trnas Of E. Coli
Ribosome In Pre- Accommodation State
pdb|3E1C|B Chain B, Structure Of The 30s Subunit And The Trnas Of E. Coli
Ribosome In Post-Accommodation State
pdb|3I1M|B Chain B, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1O|B Chain B, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1Q|B Chain B, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1S|B Chain B, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I1Z|B Chain B, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3I21|B Chain B, Crystal Structure Of The E. Coli 70s Ribosome In An
Intermediate State Of Ratcheting
pdb|3KC4|B Chain B, Ribosome-Secy Complex. This Entry 3kc4 Contains 30s
Ribosomal Subnit. The 50s Ribosomal Subunit Can Be Found
In Pdb Entry 3kcr
pdb|3OR9|B Chain B, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 30s Subunit Of The First
70s Ribosome.
pdb|3ORA|B Chain B, Crystal Structure Of The E. Coli Ribosome Bound To
Cem-101. This File Contains The 30s Subunit Of The
Second 70s Ribosome.
pdb|3IZV|F Chain F, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Small Subunit Of A Ribosome Programmed With A
Near-Cognate Codon, AT-Site Trna, P-Site Trna, Mrna And
Ef-Tu
pdb|3IZW|F Chain F, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding.This Entry Contains The
Small Subunit Of A Ribosome Programmed With A Cognate
Codon, AT-Site Trna, P-Site Trna, Mrna And Ef-Tu
pdb|3SFS|B Chain B, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome
pdb|3UOQ|B Chain B, Crystal Structure Of Release Factor Rf3 Trapped In The Gtp
State On A Rotated Conformation Of The Ribosome (Without
Viomycin)
pdb|4GAQ|B Chain B, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
pdb|4GAS|B Chain B, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 241
Score = 241 bits (614), Expect = 1e-63, Method: Composition-based stats.
Identities = 115/246 (46%), Positives = 173/246 (70%), Gaps = 8/246 (3%)
Query: 2 SITIREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGF 61
++++R+ML+AGVHFGHQTR+WNPKM +IFG RNK+HIINLEKT+ M+ +A+ + ++
Sbjct: 3 TVSMRDMLKAGVHFGHQTRYWNPKMKPFIFGARNKVHIINLEKTVPMFNEALAELNKIAS 62
Query: 62 SKGTLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFIT 121
KG +LFVGTKR A + + A+ F++ RWLGG+LTN+KT++ SI+RLK+++
Sbjct: 63 RKGKILFVGTKRAASEAVKDAALSCDQFFVNHRWLGGMLTNWKTVRQSIKRLKDLETQSQ 122
Query: 122 NGSIRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIP 181
+G+ KL+KKEAL+ R+ KL +GGIK+M +PDA+F+ID + A+ EA L IP
Sbjct: 123 DGTFDKLTKKEALMRTRELEKLENSLGGIKDMGGLPDALFVIDADHEHIAIKEANNLGIP 182
Query: 182 IIGVVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAKTVGELRSKTLAPIMECK 241
+ +VDTN PDG+++VIPGNDD+ +++ LY + A TV E RS+ LA + +
Sbjct: 183 VFAIVDTNSDPDGVDFVIPGNDDAIRAVTLYLGAV------AATVREGRSQDLAS--QAE 234
Query: 242 KALIEA 247
++ +EA
Sbjct: 235 ESFVEA 240
>pdb|2GY9|B Chain B, Structure Of The 30s 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|2GYB|B Chain B, Structure Of The 30s 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 = 236
Score = 239 bits (609), Expect = 6e-63, Method: Composition-based stats.
Identities = 115/243 (47%), Positives = 170/243 (69%), Gaps = 8/243 (3%)
Query: 5 IREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGFSKG 64
+R+ML+AGVHFGHQTR+WNPKM +IFG RNK+HIINLEKT+ M+ +A+ + ++ KG
Sbjct: 1 MRDMLKAGVHFGHQTRYWNPKMKPFIFGARNKVHIINLEKTVPMFNEALAELNKIASRKG 60
Query: 65 TLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGS 124
+LFVGTKR A + + A+ F++ RWLGG+LTN+KT++ SI+RLK+++ +G+
Sbjct: 61 KILFVGTKRAASEAVKDAALSCDQFFVNHRWLGGMLTNWKTVRQSIKRLKDLETQSQDGT 120
Query: 125 IRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIG 184
KL+KKEAL+ R+ KL +GGIK+M +PDA+F+ID + A+ EA L IP+
Sbjct: 121 FDKLTKKEALMRTRELEKLENSLGGIKDMGGLPDALFVIDADHEHIAIKEANNLGIPVFA 180
Query: 185 VVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAKTVGELRSKTLAPIMECKKAL 244
+VDTN PDG+++VIPGNDD+ +++ LY + A TV E RS+ LA + +++
Sbjct: 181 IVDTNSDPDGVDFVIPGNDDAIRAVTLYLGAV------AATVREGRSQDLAS--QAEESF 232
Query: 245 IEA 247
+EA
Sbjct: 233 VEA 235
>pdb|3FIH|B Chain B, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 30s Subunit, Trnas And The Ternary
Complex.
pdb|2WWL|B Chain B, E.Coli 70s Ribosome Stalled During Translation Of Tnac
Leader Peptide. This File Contains The 30s, The P-Site
Trna And The Tnac Leader Peptide (Part 1 Of 2).
pdb|3OFO|B Chain B, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 30s Subunit Of The
First 70s Ribosome.
pdb|3OFP|B Chain B, Crystal Structure Of The E. Coli Ribosome Bound To
Erythromycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome.
pdb|3OFA|B Chain B, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 30s Subunit Of
The First 70s Ribosome.
pdb|3OFB|B Chain B, Crystal Structure Of The E. Coli Ribosome Bound To
Chloramphenicol. This File Contains The 30s Subunit Of
The Second 70s Ribosome.
pdb|3OFX|B Chain B, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 30s Subunit Of The
First 70s Ribosome.
pdb|3OFY|B Chain B, Crystal Structure Of The E. Coli Ribosome Bound To
Clindamycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome
pdb|3OAQ|B Chain B, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 30s Subunit Of The
First 70s Ribosome.
pdb|3OAR|B Chain B, Crystal Structure Of The E. Coli Ribosome Bound To
Telithromycin. This File Contains The 30s Subunit Of The
Second 70s Ribosome.
pdb|2YKR|B Chain B, 30s Ribosomal Subunit With Rsga Bound In The Presence Of
Gmppnp
pdb|4A2I|B Chain B, Cryo-Electron Microscopy Structure Of The 30s Subunit In
Complex With The Yjeq Biogenesis Factor
pdb|3J18|B Chain B, Structure Of The Bacterial Ribosome Complexed By
Tmrna-Smpb And Ef-G During Translocation And Mld-Loading
(30s Subunit)
pdb|4GD1|B Chain B, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
pdb|4GD2|B Chain B, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
Length = 218
Score = 237 bits (604), Expect = 2e-62, Method: Compositional matrix adjust.
Identities = 110/224 (49%), Positives = 157/224 (70%), Gaps = 6/224 (2%)
Query: 8 MLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGFSKGTLL 67
ML+AGVHFGHQTR+WNPKM +IFG RNK+HIINLEKT+ M+ +A+ + ++ KG +L
Sbjct: 1 MLKAGVHFGHQTRYWNPKMKPFIFGARNKVHIINLEKTVPMFNEALAELNKIASRKGKIL 60
Query: 68 FVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSIRK 127
FVGTKR A + + A+ F++ RWLGG+LTN+KT++ SI+RLK+++ +G+ K
Sbjct: 61 FVGTKRAASEAVKDAALSCDQFFVNHRWLGGMLTNWKTVRQSIKRLKDLETQSQDGTFDK 120
Query: 128 LSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGVVD 187
L+KKEAL+ R+ KL +GGIK+M +PDA+F+ID + A+ EA L IP+ +VD
Sbjct: 121 LTKKEALMRTRELEKLENSLGGIKDMGGLPDALFVIDADHEHIAIKEANNLGIPVFAIVD 180
Query: 188 TNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAKTVGELRS 231
TN PDG+++VIPGNDD+ +++ LY + A TV E RS
Sbjct: 181 TNSDPDGVDFVIPGNDDAIRAVTLYLGAV------AATVREGRS 218
>pdb|1FJG|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotics Streptomycin,
Spectinomycin, And Paromomycin
pdb|1HR0|B Chain B, Crystal Structure Of Initiation Factor If1 Bound To The
30s Ribosomal Subunit
pdb|1HNW|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Tetracycline
pdb|1HNX|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Pactamycin
pdb|1HNZ|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With Hygromycin B
pdb|1GIX|E Chain E, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1gix, Contains The 30s Ribosome Subunit,
Three Trna, And Mrna Molecules. 50s Ribosome Subunit Is
In The File 1giy
pdb|1IBK|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With The Antibiotic Paromomycin
pdb|1IBL|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site And With The Antibiotic Paromomycin
pdb|1IBM|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In Complex With A Messenger Rna Fragment And
Cognate Transfer Rna Anticodon Stem-Loop Bound At The A
Site
pdb|1JGO|E Chain E, The Path Of Messenger Rna Through The Ribosome. This File,
1jgo, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1JGP|E Chain E, The Path Of Messenger Rna Through The Ribosome. This File,
1jgp, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1JGQ|E Chain E, The Path Of Messenger Rna Through The Ribosome. This File,
1jgq, Contains The 30s Ribosome Subunit, Three Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File 1giy
pdb|1J5E|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit
pdb|1N32|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Bound To Codon And Near-Cognate Transfer Rna
Anticodon Stem-Loop Mismatched At The First Codon
Position At The A Site With Paromomycin
pdb|1N33|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Bound To Codon And Near-Cognate Transfer Rna
Anticodon Stem-Loop Mismatched At The Second Codon
Position At The A Site With Paromomycin
pdb|1N34|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In The Presence Of Codon And
Crystallographically Disordered Near-Cognate Transfer
Rna Anticodon Stem-Loop Mismatched At The First Codon
Position
pdb|1N36|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit In The Presence Of Crystallographically
Disordered Codon And Near-cognate Transfer Rna Anticodon
Stem-loop Mismatched At The Second Codon Position
pdb|1ML5|E Chain E, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1XMO|B Chain B, Crystal Structure Of Mnm5u34t6a37-Trnalysuuu Complexed
With Aag-Mrna In The Decoding Center
pdb|1XMQ|B Chain B, Crystal Structure Of T6a37-Asllysuuu Aaa-Mrna Bound To The
Decoding Center
pdb|1XNQ|B Chain B, Structure Of An Inosine-Adenine Wobble Base Pair Complex
In The Context Of The Decoding Center
pdb|1XNR|B Chain B, Crystal Structure Of An Inosine-Cytosine Wobble Base Pair
In The Context Of The Decoding Center
pdb|1YL4|E Chain E, Crystal Structure Of 70s Ribosome With Thrs Operator And
Trnas. 30s Subunit. The Coordinates For The 50s Subunit
Are In The Pdb Entry 1yl3
pdb|2B64|B Chain B, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf1
From A Crystal Structure Of The Whole Ribosomal Complex.
This File Contains The 30s Subunit, Trnas, Mrna And
Release Factor Rf1 From A Crystal Structure Of The Whole
Ribosomal Complex". The Entire Crystal Structure
Contains One 70s Ribosome, Trnas, Mrna And Release
Factor Rf1 And Is Described In Remark 400.
pdb|2B9M|B Chain B, 30s Ribosomal Subunit, Trnas, Mrna And Release Factor Rf2
From A Crystal Structure Of The Whole Ribosomal Complex.
This File Contains The 30s Ribosomal Subunit, Trnas,
Mrna And Release Factor Rf2 From A Crystal Structure Of
The Whole Ribosomal Complex". The Entire Crystal
Structure Contains One 70s Ribosome, Trnas, Mrna And
Release Factor Rf2 And Is Described In Remark 400.
pdb|2B9O|B Chain B, 30s Ribosomal Subunit, Trnas And Mrna From A Crystal
Structure Of The Whole Ribosomal Complex With A Stop
Codon In The A-Site. This File Contains The 30s Subunit,
Trnas And Mrna From A Crystal Structure Of The Whole
Ribosomal Complex With A Stop Codon In The A-Site And Is
Described In Remark 400.
pdb|2F4V|B Chain B, 30s Ribosome + Designer Antibiotic
pdb|2HHH|B Chain B, Crystal Structure Of Kasugamycin Bound To The 30s
Ribosomal Subunit
pdb|2J00|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 1 Of 4).
This File Contains The 30s Subunit, Mrna, A-, P- And
E-Site Trnas And Paromomycin For Molecule I.
pdb|2J02|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 3 Of 4)
This File Contains The 30s Subunit, Mrna, A-, P- And
E-Site Trnas And Paromomycin For Molecule Ii.
pdb|2HGI|E Chain E, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
Showing How The 16s 3'-End Mimicks Mrna E And P Codons.
This Entry 2hgi Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgj.
pdb|2HGP|E Chain E, Crystal Structure Of The 70s Thermus Thermophilus Ribosome
With Translocated And Rotated Shine-Dalgarno Duplex.
This Entry 2hgp Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 2hgq.
pdb|2HGR|E Chain E, 70s T.Th. Ribosome Functional Complex With Mrna And E- And
P-Site Trnas At 4.5a. This Entry 2hgr Contains 30s
Ribosomal Subunit. The 50s Ribosomal Subunit Can Be
Found In Pdb Entry 2hgu.
pdb|2OW8|CC Chain c, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals
Functional Interactions And Rearrangements. This File,
2ow8, Contains The 30s Ribosome Subunit, Two Trna, And
Mrna Molecules. 50s Ribosome Subunit Is In The File
1vsa.
pdb|2UU9|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-asl With Cmo5u In
Position 34 Bound To An Mrna With A Gug-codon In The
A-site And Paromomycin.
pdb|2UUA|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-Asl With Cmo5u In
Position 34 Bound To An Mrna With A Guc-Codon In The
A-Site And Paromomycin.
pdb|2UUB|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-Asl With Cmo5u In
Position 34 Bound To An Mrna With A Guu-Codon In The
A-Site And Paromomycin.
pdb|2UUC|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Valine-asl With Cmo5u In
Position 34 Bound To An Mrna With A Gua-codon In The
A-site And Paromomycin.
pdb|2UXC|B Chain B, Crystal Structure Of An Extended Trna Anticodon Stem Loop
In Complex With Its Cognate Mrna Ucgu In The Context Of
The Thermus Thermophilus 30s Subunit.
pdb|2UXB|B Chain B, Crystal Structure Of An Extended Trna Anticodon Stem Loop
In Complex With Its Cognate Mrna Gggu In The Context Of
The Thermus Thermophilus 30s Subunit.
pdb|2V46|B Chain B, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 1 Of 4). This File Contains The 30s
Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For
Molecule 1.
pdb|2V48|B Chain B, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 3 Of 4). This File Contains The 30s
Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For
Molecule 2.
pdb|2UXD|B Chain B, Crystal Structure Of An Extended Trna Anticodon Stem Loop
In Complex With Its Cognate Mrna Cggg In The Context Of
The Thermus Thermophilus 30s Subunit.
pdb|2QNH|CC Chain c, Interactions And Dynamics Of The Shine-Dalgarno Helix In
The 70s Ribosome. This File, 2qnh, Contains The 30s
Ribosome Subunit, Two Trna, And Mrna Molecules. 50s
Ribosome Subunit Is In The File 1vsp.
pdb|2OM7|N Chain N, Structural Basis For Interaction Of The Ribosome With The
Switch Regions Of Gtp-Bound Elongation Factors
pdb|2VQE|B Chain B, Modified Uridines With C5-methylene Substituents At The
First Position Of The Trna Anticodon Stabilize U-g
Wobble Pairing During Decoding
pdb|2VQF|B Chain B, Modified Uridines With C5-Methylene Substituents At The
First Position Of The Trna Anticodon Stabilize U-G
Wobble Pairing During Decoding
pdb|3D5A|B Chain B, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 30s Subunit, Release
Factor 1 (Rf1), Two Trna, And Mrna Molecules Of One 70s
Ribosome. The Entire Crystal Structure Contains Two 70s
Ribosomes As Described In Remark 400.
pdb|3D5C|B Chain B, Structural Basis For Translation Termination On The 70s
Ribosome. This File Contains The 30s Subunit, Release
Factor 1 (Rf1), Two Trna, And Mrna Molecules Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400.
pdb|3F1E|B Chain B, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
30s Subunit, Rf2, Two Trna, And Mrna Molecules Of One
70s Ribosome. The Entire Crystal Structure Contains Two
70s Ribosomes As Described In Remark 400.
pdb|3F1G|B Chain B, Crystal Structure Of A Translation Termination Complex
Formed With Release Factor Rf2. This File Contains The
30s Subunit, Rf2, Two Trna, And Mrna Molecules Of The
Second 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes As Described In Remark 400.
pdb|2WDG|B Chain B, 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 30s Subunit A-,P-, And E-Site Trnas And
Paromomycin For Molecule I.
pdb|2WDH|B Chain B, 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 30s Subunit A-,P-, And E-Site Trnas And
Paromomycin For Molecule Ii.
pdb|2WDK|B Chain B, 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 30s
Subunit A-,P-, And E-Site Trnas And Paromomycin For
Molecule I.
pdb|2WDM|B Chain B, 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 30s
Subunit A-,P-, And E-Site Trnas And Paromomycin For
Molecule Ii.
pdb|2WH1|B Chain B, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome
pdb|2WH3|B Chain B, Insights Into Translational Termination From The Structure
Of Rf2 Bound To The Ribosome). This File Contains The
30s Subunit.
pdb|3HUW|B Chain B, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 30s Subunit, Mrna, P-Site Trna And Ef-P For
Molecule I.
pdb|3HUY|B Chain B, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 30s Subunit, Mrna, P-Site Trna And Ef-P For
Molecule Ii.
pdb|2WRI|B Chain B, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 1 Of 4).
pdb|2WRK|B Chain B, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 3 Of 4).
pdb|2WRN|B Chain B, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 1 Of 4).
pdb|2WRQ|B Chain B, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 3 Of 4).
pdb|3KIQ|BB Chain b, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 1 Of 4)
pdb|3KIS|BB Chain b, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 3 Of 4)
pdb|3KIU|BB Chain b, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 1 Of 4)
pdb|3KIX|BB Chain b, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 3 Of 4)
pdb|3KNH|B Chain B, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 30s Subunit For Molecule I
pdb|3KNJ|B Chain B, The Structures Of Viomycin Bound To The 70s Ribosome. This
File Contains The 30s Subunit For Molecule Ii'
pdb|3KNL|B Chain B, The Structures Of Capreomycin Bound To The 70s Ribosome.
This File Contains The 30s Subunit For Molecule I
pdb|3KNN|B Chain B, The Structures Of Capreomycin Bound To The 70s Ribosome.
This File Contains The 30s Subunit For Molecule Ii
pdb|3I8G|E Chain E, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8g Contains 30s Ribosomal Subnit.The 50s
Ribosomal Can Be Found In Pdb Entry 3i8f. Molecule B In
The Same Asym Unit Is Deposited As 3i8g (30s) And 3i8f
(50s).
pdb|3I8H|E Chain E, Elongation Complex Of The 70s Ribosome With Three Trnas
And Entry 3i8h Contains 30s Ribosomal Subnit. The 50s
Ribosomal Can Be Found In Pdb Entry 3i8i. Molecule A In
The Same Asym Unit Is Deposited As 3i8f (50s) And 3i8g
(30s).
pdb|3I9B|E Chain E, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9b Contains 30s Ribosomal Subunit Of Molecule B.
The 50s Subunit Can Be Found In Pdb Entry 3i9c. Molecule
A In The S Asymmetric Unit Is Deposited As 3i9d (30s)
And 3i9e (50s)
pdb|3I9D|E Chain E, Initiation Complex Of 70s Ribosome With Two Trnas And
Mrna. 3i9d Contains 30s Ribosomal Subunit Of Molecule A.
The 50s Subunit Can Be Found In Pdb Entry 3i9e. Molecule
B In The S Asymmetric Unit Is Deposited As 3i9b (30s)
And 3i9c (50s)
pdb|2X9R|B Chain B, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2X9T|B Chain B, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2XFZ|B Chain B, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 1 Of 4)
pdb|2XG1|B Chain B, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 3 Of 4)
pdb|3OTO|B Chain B, Crystal Structure Of The 30s Ribosomal Subunit From A Ksga
Mutant Of Thermus Thermophilus (Hb8)
pdb|3OGE|B Chain B, Structure Of The Thermus Thermophilus Ribosome Complexed
With Chloramphenicol. This File Contains The 30s Subunit
Of One 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3OGY|B Chain B, Structure Of The Thermus Thermophilus Ribosome Complexed
With Chloramphenicol. This File Contains The 30s Subunit
Of One 70s Ribosome. The Entire Crystal Structure
Contains Two 70s Ribosomes.
pdb|3OHC|B Chain B, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 30s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHD|B Chain B, Structure Of The Thermus Thermophilus Ribosome Complexed
With Erythromycin. This File Contains The 30s Subunit Of
One 70s Ribosome. The Entire Crystal Structure Contains
Two 70s Ribosomes.
pdb|3OHY|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI0|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Azithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI2|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3OI4|B Chain B, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Telithromycin. This File Contains The 30s
Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|2XQD|B Chain B, The Structure Of Ef-Tu And Aminoacyl-Trna Bound To The 70s
Ribosome With A Gtp Analog
pdb|2XSY|B Chain B, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUY|B Chain B, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|2Y0U|B Chain B, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0W|B Chain B, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To A
Near-Cognate Codon On The 70s Ribosome
pdb|2Y0Y|B Chain B, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y10|B Chain B, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|2Y12|B Chain B, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y14|B Chain B, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y16|B Chain B, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y18|B Chain B, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To A
Cognate Codon On The 70s Ribosome.
pdb|3ZVO|B Chain B, Crystal Structure Of The Hybrid State Of Ribosome In
Complex With The Guanosine Triphosphatase Release Factor
3
pdb|3T1H|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Human Anti-Codon Stem Loop
(Hasl) Of Transfer Rna Lysine 3 (Trnalys3) Bound To An
Mrna With An Aaa-Codon In The A-Site And Paromomycin
pdb|3T1Y|B Chain B, Structure Of The Thermus Thermophilus 30s Ribosomal
Subunit Complexed With A Human Anti-Codon Stem Loop
(Hasl) Of Transfer Rna Lysine 3 (Trnalys3) Bound To An
Mrna With An Aag-Codon In The A-Site And Paromomycin
pdb|3UXS|B Chain B, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.
pdb|3UXT|B Chain B, The Structure Of Thermorubin In Complex With The 70s
Ribosome From Thermus Thermophilus. This File Contains
The 30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Two 70s Ribosomes.'
pdb|3TVF|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
pdb|3TVG|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Leu Complex
pdb|3UYD|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UYF|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex
pdb|3UZ3|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin.
pdb|3UZ4|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Leu Complex With Paromomycin.
pdb|3UZ6|E Chain E, Structure Analysis Of Ribosomal Decoding. This Entry
Contains The 30s Ribosomal Subunit Of The First 70s
Molecule In The Asymmetric Unit For The Cognate Trna-Tyr
Complex
pdb|3UZ7|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Cognate
Trna-Tyr Complex.
pdb|3UZG|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex
pdb|3UZI|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex
pdb|3UZL|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The First
70s Molecule In The Asymmetric Unit For The Near-Cognate
Trna-Tyr Complex With Paromomycin
pdb|3UZM|E Chain E, Crystal Structure Analysis Of Ribosomal Decoding. This
Entry Contains The 30s Ribosomal Subunit Of The Second
70s Molecule In The Asymmetric Unit For The Near-cognate
Trna-tyr Complex With Paromomycin
pdb|4ABR|B Chain B, Complex Of Smpb, A Tmrna Fragment And Ef-Tu-Gdp-Kirromycin
With The 70s Ribosome
pdb|4DH9|B Chain B, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|4DHB|B Chain B, Crystal Structure Of Yaej Bound To The 70s Ribosome
pdb|3V22|B Chain B, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Rmf Of The 1st Ribosome In The Asu
pdb|3V24|B Chain B, Crystal Structure Of Rmf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Rmf Of The 2nd Ribosome In The Asu
pdb|3V26|B Chain B, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Hpf Of The 1st Ribosome In The Asu
pdb|3V28|B Chain B, Crystal Structure Of Hpf Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Hpf Of The 2nd Ribosome In The Asu
pdb|3V2C|B Chain B, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Yfia Of The 1st Ribosome In The Asu
pdb|3V2E|B Chain B, Crystal Structure Of Yfia Bound To The 70s Ribosome. This
Pdb Entry Contains Coordinates For The 30s Subunit With
Bound Yfia Of The 2nd Ribosome In The Asu
pdb|4AQY|B Chain B, Structure Of Ribosome-Apramycin Complexes
pdb|4DR1|B Chain B, Crystal Structure Of The Apo 30s Ribosomal Subunit From
Thermus Thermophilus (hb8)
pdb|4DR2|B Chain B, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Multiple Copies Of Paromomycin
Molecules Bound
pdb|4DR3|B Chain B, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Streptomycin Bound
pdb|4DR4|B Chain B, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Cognate Transfer Rna
Anticodon Stem-loop And Multiple Copies Of Paromomycin
Molecules Bound
pdb|4DR5|B Chain B, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Crystallographically
Disordered Cognate Transfer Rna Anticodon Stem-loop And
Streptomycin Bound
pdb|4DR6|B Chain B, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Near-cognate Transfer Rna
Anticodon Stem-loop Mismatched At The First Codon
Position And Streptomycin Bound
pdb|4DR7|B Chain B, Crystal Structure Of The Thermus Thermophilus (hb8) 30s
Ribosomal Subunit With Codon, Crystallographically
Disordered Near-cognate Transfer Rna Anticodon Stem-loop
Mismatched At The Second Codon Position, And
Streptomycin Bound
pdb|4G5K|E Chain E, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 30s Subunit Of Molecule A.
pdb|4G5M|E Chain E, Crystal Structure Of The 70s Ribosome With Tetracycline.
This Entry Contains The 30s Subunit Of Molecule B.
pdb|4G5T|E Chain E, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 30s Subunit Of Molecule A.
pdb|4G5V|E Chain E, Crystal Structure Of The 70s Ribosome With Tigecycline.
This Entry Contains The 30s Subunit Of Molecule B.
pdb|4DUY|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U13c
pdb|4DUZ|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U13c, Bound
With Streptomycin
pdb|4DV0|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U20g
pdb|4DV1|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, U20g, Bound
With Streptomycin
pdb|4DV2|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, C912a
pdb|4DV3|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, C912a, Bound
With Streptomycin
pdb|4DV4|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A914g
pdb|4DV5|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A914g, Bound
With Streptomycin
pdb|4DV6|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A915g
pdb|4DV7|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit With A 16s Rrna Mutation, A915g, Bound
With Streptomycin
Length = 256
Score = 220 bits (560), Expect = 3e-57, Method: Composition-based stats.
Identities = 102/224 (45%), Positives = 150/224 (66%)
Query: 1 MSITIREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLG 60
+ IT++E+LEAGVHFGH+ + WNPK + YI+ RN IHII+L+KT+ E+ R+I L
Sbjct: 3 VEITVKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIEDLA 62
Query: 61 FSKGTLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFI 120
GT+LFVGTK+QA+ ++ EA RAGMP+++QRWLGG+LTNFKTI + RL+E++
Sbjct: 63 MRGGTILFVGTKKQAQDIVRMEAERAGMPYVNQRWLGGMLTNFKTISQRVHRLEELEALF 122
Query: 121 TNGSIRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNI 180
+ I + KKE + + +L + + G + + +PDAIF++D AV EA KL I
Sbjct: 123 ASPEIEERPKKEQVRLKHELERLQKYLSGFRLLKRLPDAIFVVDPTKEAIAVREARKLFI 182
Query: 181 PIIGVVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAK 224
P+I + DT+ PD ++Y+IPGNDD+ +SI L VD + A+
Sbjct: 183 PVIALADTDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQAR 226
>pdb|1I94|B Chain B, Crystal Structures Of The Small Ribosomal Subunit With
Tetracycline, Edeine And If3
pdb|1I95|B Chain B, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Edeine
pdb|1I96|B Chain B, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With The Translation
Initiation Factor If3 (C-Terminal Domain)
pdb|1I97|B Chain B, Crystal Structure Of The 30s Ribosomal Subunit From
Thermus Thermophilus In Complex With Tetracycline
pdb|2ZM6|B Chain B, Crystal Structure Of The Thermus Thermophilus 30s
Ribosomal Subunit
Length = 255
Score = 220 bits (560), Expect = 3e-57, Method: Composition-based stats.
Identities = 102/224 (45%), Positives = 150/224 (66%)
Query: 1 MSITIREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLG 60
+ IT++E+LEAGVHFGH+ + WNPK + YI+ RN IHII+L+KT+ E+ R+I L
Sbjct: 2 VEITVKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIEDLA 61
Query: 61 FSKGTLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFI 120
GT+LFVGTK+QA+ ++ EA RAGMP+++QRWLGG+LTNFKTI + RL+E++
Sbjct: 62 MRGGTILFVGTKKQAQDIVRMEAERAGMPYVNQRWLGGMLTNFKTISQRVHRLEELEALF 121
Query: 121 TNGSIRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNI 180
+ I + KKE + + +L + + G + + +PDAIF++D AV EA KL I
Sbjct: 122 ASPEIEERPKKEQVRLKHELERLQKYLSGFRLLKRLPDAIFVVDPTKEAIAVREARKLFI 181
Query: 181 PIIGVVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAK 224
P+I + DT+ PD ++Y+IPGNDD+ +SI L VD + A+
Sbjct: 182 PVIALADTDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQAR 225
>pdb|2E5L|B Chain B, A Snapshot Of The 30s Ribosomal Subunit Capturing Mrna Via
The Shine- Dalgarno Interaction
Length = 227
Score = 218 bits (556), Expect = 8e-57, Method: Composition-based stats.
Identities = 102/224 (45%), Positives = 150/224 (66%)
Query: 1 MSITIREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLG 60
+ IT++E+LEAGVHFGH+ + WNPK + YI+ RN IHII+L+KT+ E+ R+I L
Sbjct: 2 VEITVKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIEDLA 61
Query: 61 FSKGTLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFI 120
GT+LFVGTK+QA+ ++ EA RAGMP+++QRWLGG+LTNFKTI + RL+E++
Sbjct: 62 MRGGTILFVGTKKQAQDIVRMEAERAGMPYVNQRWLGGMLTNFKTISQRVHRLEELEALF 121
Query: 121 TNGSIRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNI 180
+ I + KKE + + +L + + G + + +PDAIF++D AV EA KL I
Sbjct: 122 ASPEIEERPKKEQVRLKHELERLQKYLSGFRLLKRLPDAIFVVDPTKEAIAVREARKLFI 181
Query: 181 PIIGVVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAK 224
P+I + DT+ PD ++Y+IPGNDD+ +SI L VD + A+
Sbjct: 182 PVIALADTDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQAR 225
>pdb|1PNS|B Chain B, Crystal Structure Of A Streptomycin Dependent Ribosome
From E. Coli, 30s Subunit Of 70s Ribosome. This File,
1pns, Contains The 30s Subunit, Two Trnas, And One Mrna
Molecule. The 50s Ribosomal Subunit Is In File 1pnu.
pdb|1PNX|B Chain B, Crystal Structure Of The Wild Type Ribosome From E. Coli,
30s Subunit Of 70s Ribosome. This File, 1pnx, Contains
Only Molecules Of The 30s Ribosomal Subunit. The 50s
Subunit Is In The Pdb File 1pny.
pdb|1VOQ|B Chain B, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOS|B Chain B, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOV|B Chain B, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOX|B Chain B, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOZ|B Chain B, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
30s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|3MR8|B Chain B, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3mr8 Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 3ms1.
Molecule B In The Same Asymmetric Unit Is Deposited As
3mrz (50s) And 3ms0 (30s).
pdb|3MS0|B Chain B, Recognition Of The Amber Stop Codon By Release Factor Rf1.
This Entry 3ms0 Contains 30s Ribosomal Subunit. The 50s
Ribosomal Subunit Can Be Found In Pdb Entry 3mrz.
Molecule A In The Same Asymmetric Unit Is Deposited As
3mr8 (30s) And 3ms1 (50s).
pdb|3PYN|B Chain B, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 30s Subunit Of The First 70s Ribosome.
pdb|3PYQ|B Chain B, Crystal Structure Of A Complex Containing Domain 3 From
The Psiv Igr Ires Rna Bound To The 70s Ribosome. This
File Contains The 30s Subunit Of The Second 70s
Ribosome.
pdb|3PYS|B Chain B, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 30s Subunit Of The First 70s Ribosome.
pdb|3PYU|B Chain B, Crystal Structure Of A Complex Containing Domain 3 Of Crpv
Igr Ires Rna Bound To The 70s Ribosome. This File
Contains The 30s Subunit Of The Second 70s Ribosome
Length = 234
Score = 216 bits (549), Expect = 6e-56, Method: Composition-based stats.
Identities = 100/220 (45%), Positives = 147/220 (66%)
Query: 5 IREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGFSKG 64
++E+LEAGVHFGH+ + WNPK + YI+ RN IHII+L+KT+ E+ R+I L G
Sbjct: 1 VKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIEDLAMRGG 60
Query: 65 TLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGS 124
T+LFVGTK+QA+ ++ EA RAGMP+++QRWLGG+LTNFKTI + RL+E++ +
Sbjct: 61 TILFVGTKKQAQDIVRMEAERAGMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFASPE 120
Query: 125 IRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIG 184
I + KKE + + +L + + G + + +PDAIF++D AV EA KL IP+I
Sbjct: 121 IEERPKKEQVRLKHELERLQKYLSGFRLLKRLPDAIFVVDPTKEAIAVREARKLFIPVIA 180
Query: 185 VVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAK 224
+ DT+ PD ++Y+IPGNDD+ +SI L VD + A+
Sbjct: 181 LADTDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQAR 220
>pdb|3FIC|B Chain B, 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 30s Subunit
And The Ligands
Length = 235
Score = 215 bits (548), Expect = 7e-56, Method: Composition-based stats.
Identities = 100/220 (45%), Positives = 147/220 (66%)
Query: 5 IREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGFSKG 64
++E+LEAGVHFGH+ + WNPK + YI+ RN IHII+L+KT+ E+ R+I L G
Sbjct: 1 VKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIEDLAMRGG 60
Query: 65 TLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGS 124
T+LFVGTK+QA+ ++ EA RAGMP+++QRWLGG+LTNFKTI + RL+E++ +
Sbjct: 61 TILFVGTKKQAQDIVRMEAERAGMPYVNQRWLGGMLTNFKTISQRVHRLEELEALFASPE 120
Query: 125 IRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIG 184
I + KKE + + +L + + G + + +PDAIF++D AV EA KL IP+I
Sbjct: 121 IEERPKKEQVRLKHELERLQKYLSGFRLLKRLPDAIFVVDPTKEAIAVREARKLFIPVIA 180
Query: 185 VVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAK 224
+ DT+ PD ++Y+IPGNDD+ +SI L VD + A+
Sbjct: 181 LADTDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQAR 220
>pdb|1X18|E Chain E, Contact Sites Of Era Gtpase On The Thermus Thermophilus
30s Subunit
Length = 231
Score = 209 bits (533), Expect = 4e-54, Method: Composition-based stats.
Identities = 101/220 (45%), Positives = 148/220 (67%), Gaps = 3/220 (1%)
Query: 5 IREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLGFSKG 64
++E+LEAGVHFGH+ + WNPK + YI+ RN IHII+L+KT+ E+ R+I L G
Sbjct: 1 VKELLEAGVHFGHERKRWNPKFARYIYAERNGIHIIDLQKTMEELERTFRFIEDLAMRGG 60
Query: 65 TLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGS 124
T+LFVGTK+QA+ ++ EA RAGMP+++QRWLGG+LTNFKTI+ + RL+E++ +
Sbjct: 61 TILFVGTKKQAQDIVRMEAERAGMPYVNQRWLGGMLTNFKTIQ-RVHRLEELEALFASPE 119
Query: 125 IRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIG 184
I + KKE L + +L + + G + + +PDAIF++D AV EA KL IP+I
Sbjct: 120 IEERPKKEQRL--HELERLQKYLSGFRLLKRLPDAIFVVDPTKEAIAVREARKLFIPVIA 177
Query: 185 VVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAK 224
+ DT+ PD ++Y+IPGNDD+ +SI L VD + A+
Sbjct: 178 LADTDSDPDLVDYIIPGNDDAIRSIQLILSRAVDLIIQAR 217
>pdb|1YBD|A Chain A, Crystal Structure Analysis Of Uridylate Kinase From
Neisseria Meningitidis
pdb|1YBD|B Chain B, Crystal Structure Analysis Of Uridylate Kinase From
Neisseria Meningitidis
pdb|1YBD|C Chain C, Crystal Structure Analysis Of Uridylate Kinase From
Neisseria Meningitidis
Length = 239
Score = 174 bits (441), Expect = 2e-43, Method: Composition-based stats.
Identities = 93/182 (51%), Positives = 119/182 (65%)
Query: 473 NICRGISNKIQNIDRSTADYMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYI 532
NI RG+S + + DR+TADY G AT+ N+LAL D GI + V SA+S ++ E+Y
Sbjct: 57 NIFRGVSAQAGSXDRATADYXGXXATVXNALALKDAFETLGIKARVQSALSXQQIAETYA 116
Query: 533 PLNAIKYLEEGKVVIFAGGIGNPFFTTDXXXXXXXXXXXXXXXXXXXXVDGIYNSDPNKC 592
AI+YLEEGKVVIFA G GNPFFTTD VDG+Y +DP K
Sbjct: 117 RPKAIQYLEEGKVVIFAAGTGNPFFTTDTAAALRGAEXNCDVXLKATNVDGVYTADPKKD 176
Query: 593 LSAIIYKKITFDEVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTL 652
SA Y+ ITFDE + K L++ D+TAF+ CR++KL I VF I K G+LKRVI G++EGTL
Sbjct: 177 PSATRYETITFDEALLKNLKVXDATAFALCRERKLNIVVFGIAKEGSLKRVITGEDEGTL 236
Query: 653 VY 654
V+
Sbjct: 237 VH 238
>pdb|3EK5|A Chain A, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK5|B Chain B, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK5|C Chain C, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK5|D Chain D, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK5|E Chain E, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK5|F Chain F, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK6|A Chain A, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK6|B Chain B, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK6|C Chain C, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK6|D Chain D, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK6|E Chain E, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
pdb|3EK6|F Chain F, Unique Gtp-Binding Pocket And Allostery Of Ump Kinase From
A Gram- Negative Phytopathogen Bacterium
Length = 243
Score = 174 bits (441), Expect = 2e-43, Method: Composition-based stats.
Identities = 97/236 (41%), Positives = 126/236 (53%), Gaps = 2/236 (0%)
Query: 418 EKEYSLAVLKAQQLGEALMKGDAYXXXXXXXXXXXXXXXXXXXXXXXLAIVIGGGNICRG 477
E Y +LK GEALM Y +A+VIGGGNI RG
Sbjct: 6 ELSYRRILLKLS--GEALMGDGDYGIDPKVINRLAHEVIEAQQAGAQVALVIGGGNIFRG 63
Query: 478 ISNKIQNIDRSTADYMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAI 537
+DR T D+MGMLAT+IN+LA+ D L K G VMSAI I E +I AI
Sbjct: 64 AGLAASGMDRVTGDHMGMLATVINALAMQDALEKLGAKVRVMSAIKINDVCEDFIRRRAI 123
Query: 538 KYLEEGKVVIFAGGIGNPFFTTDXXXXXXXXXXXXXXXXXXXXVDGIYNSDPNKCLSAII 597
++LE+G++ IFA G GNPFFTTD VDG+Y+ DP K A+
Sbjct: 124 RHLEKGRIAIFAAGTGNPFFTTDSGAALRAIEIGADLLLKATKVDGVYDKDPKKHSDAVR 183
Query: 598 YKKITFDEVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIEGKNEGTLV 653
Y +T+DEVI + LE+MD+ AF+ RD LP+R+F + + G L R++ G GTLV
Sbjct: 184 YDSLTYDEVIMQGLEVMDTAAFALARDSDLPLRIFGMSEPGVLLRILHGAQIGTLV 239
>pdb|3BBN|B Chain B, Homology Model For The Spinach Chloroplast 30s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 231
Score = 172 bits (435), Expect = 1e-42, Method: Compositional matrix adjust.
Identities = 85/225 (37%), Positives = 130/225 (57%)
Query: 1 MSITIREMLEAGVHFGHQTRFWNPKMSSYIFGHRNKIHIINLEKTLYMYEKAIRYIYQLG 60
+I + EM+EAGVHFGH TR WNP+MS YI IHIINL +T +A ++
Sbjct: 2 WNINLEEMMEAGVHFGHGTRKWNPRMSPYISAKCKGIHIINLTRTARFLSEACDLVFDAS 61
Query: 61 FSKGTLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFI 120
L VGTK +A +A A+RA +++++WLGG+LTN+ T +T + + +++ +
Sbjct: 62 SRGKQFLIVGTKNKAADSVARAAIRARCHYVNKKWLGGMLTNWSTTETRLHKFRDLRMEQ 121
Query: 121 TNGSIRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNI 180
T G + +L K++A + R+ L +GGIK M +PD + I+D A+ E I L I
Sbjct: 122 TAGRLARLPKRDAAVVKRQLSHLQTYLGGIKYMTGLPDIVIIVDQQEEYTALRECITLGI 181
Query: 181 PIIGVVDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAKT 225
P I ++DTN +PD + IP NDD+ SI L +V A + ++
Sbjct: 182 PTICLIDTNCNPDLADISIPANDDAIASIRLILTKLVFAICEGRS 226
>pdb|2BND|A Chain A, The Structure Of E.Coli Ump Kinase In Complex With Udp
pdb|2BND|B Chain B, The Structure Of E.Coli Ump Kinase In Complex With Udp
Length = 241
Score = 161 bits (407), Expect = 1e-39, Method: Composition-based stats.
Identities = 80/191 (41%), Positives = 119/191 (62%)
Query: 465 LAIVIGGGNICRGISNKIQNIDRSTADYMGMLATIINSLALFDILNKSGIISHVMSAISI 524
+ +VIGGGN+ RG ++R D+MGMLAT++N LA+ D L+++ + + +MSAI +
Sbjct: 51 VGVVIGGGNLFRGAGLAKAGMNRVVGDHMGMLATVMNGLAMRDALHRAYVNARLMSAIPL 110
Query: 525 EKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDXXXXXXXXXXXXXXXXXXXXVDGI 584
+SY AI L +VVI + G GNPFFTTD VDG+
Sbjct: 111 NAVCDSYSWAEAISLLRNNRVVILSAGTGNPFFTTDSAACLRGIEIEANVVLKATKVDGV 170
Query: 585 YNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVI 644
+ +DP K +A +Y+++T+ EV+ K+L++MD AF+ RD KLPIRVF++ K GAL+RV+
Sbjct: 171 FTADPAKDPTATMYEQLTYSEVLEKELKVMDLAAFTLARDHKLPIRVFNMNKPGALRRVV 230
Query: 645 EGKNEGTLVYE 655
G+ EGTL+ E
Sbjct: 231 MGEKEGTLITE 241
>pdb|2BNE|A Chain A, The Structure Of E. Coli Ump Kinase In Complex With Ump
pdb|2BNE|B Chain B, The Structure Of E. Coli Ump Kinase In Complex With Ump
pdb|2V4Y|A Chain A, The Structure Of E. Coli Ump Kinase In Complex With Its
Allosteric Regulator Gtp
pdb|2V4Y|B Chain B, The Structure Of E. Coli Ump Kinase In Complex With Its
Allosteric Regulator Gtp
pdb|2V4Y|C Chain C, The Structure Of E. Coli Ump Kinase In Complex With Its
Allosteric Regulator Gtp
pdb|2V4Y|D Chain D, The Structure Of E. Coli Ump Kinase In Complex With Its
Allosteric Regulator Gtp
pdb|2V4Y|E Chain E, The Structure Of E. Coli Ump Kinase In Complex With Its
Allosteric Regulator Gtp
pdb|2V4Y|F Chain F, The Structure Of E. Coli Ump Kinase In Complex With Its
Allosteric Regulator Gtp
Length = 241
Score = 161 bits (407), Expect = 2e-39, Method: Composition-based stats.
Identities = 80/191 (41%), Positives = 119/191 (62%)
Query: 465 LAIVIGGGNICRGISNKIQNIDRSTADYMGMLATIINSLALFDILNKSGIISHVMSAISI 524
+ +VIGGGN+ RG ++R D+MGMLAT++N LA+ D L+++ + + +MSAI +
Sbjct: 51 VGVVIGGGNLFRGAGLAKAGMNRVVGDHMGMLATVMNGLAMRDALHRAYVNARLMSAIPL 110
Query: 525 EKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDXXXXXXXXXXXXXXXXXXXXVDGI 584
+SY AI L +VVI + G GNPFFTTD VDG+
Sbjct: 111 NGVCDSYSWAEAISLLRNNRVVILSAGTGNPFFTTDSAACLRGIEIEANVVLKATKVDGV 170
Query: 585 YNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVI 644
+ +DP K +A +Y+++T+ EV+ K+L++MD AF+ RD KLPIRVF++ K GAL+RV+
Sbjct: 171 FTADPAKDPTATMYEQLTYSEVLEKELKVMDLAAFTLARDHKLPIRVFNMNKPGALRRVV 230
Query: 645 EGKNEGTLVYE 655
G+ EGTL+ E
Sbjct: 231 MGEKEGTLITE 241
>pdb|3NWY|A Chain A, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|B Chain B, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|C Chain C, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|D Chain D, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|E Chain E, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
pdb|3NWY|F Chain F, Structure And Allosteric Regulation Of The Uridine
Monophosphate Kinase From Mycobacterium Tuberculosis
Length = 281
Score = 159 bits (403), Expect = 5e-39, Method: Composition-based stats.
Identities = 75/189 (39%), Positives = 115/189 (60%)
Query: 465 LAIVIGGGNICRGISNKIQNIDRSTADYMGMLATIINSLALFDILNKSGIISHVMSAISI 524
+A+VIGGGN RG + ++R+ +DYMGML T++NSLAL D L K GI++ V +AI++
Sbjct: 91 IAVVIGGGNFFRGAQLQQLGMERTRSDYMGMLGTVMNSLALQDFLEKEGIVTRVQTAITM 150
Query: 525 EKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDXXXXXXXXXXXXXXXXXXXXVDGI 584
+ E Y+PL A+++LE+G+VVIF G+G P+F+TD VDG+
Sbjct: 151 GQVAEPYLPLRAVRHLEKGRVVIFGAGMGLPYFSTDTTAAQRALEIGADVVLMAKAVDGV 210
Query: 585 YNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVI 644
+ DP A + ++ EV+ + L + D+TAFS C D +PI VF+++ G + R +
Sbjct: 211 FAEDPRVNPEAELLTAVSHREVLDRGLRVADATAFSLCMDNGMPILVFNLLTDGNIARAV 270
Query: 645 EGKNEGTLV 653
G+ GTLV
Sbjct: 271 RGEKIGTLV 279
>pdb|2A1F|A Chain A, Crystal Structure Of Uridylate Kinase
pdb|2A1F|B Chain B, Crystal Structure Of Uridylate Kinase
pdb|2A1F|C Chain C, Crystal Structure Of Uridylate Kinase
pdb|2A1F|D Chain D, Crystal Structure Of Uridylate Kinase
pdb|2A1F|E Chain E, Crystal Structure Of Uridylate Kinase
pdb|2A1F|F Chain F, Crystal Structure Of Uridylate Kinase
Length = 247
Score = 155 bits (392), Expect = 9e-38, Method: Composition-based stats.
Identities = 78/191 (40%), Positives = 117/191 (61%)
Query: 465 LAIVIGGGNICRGISNKIQNIDRSTADYMGMLATIINSLALFDILNKSGIISHVMSAISI 524
+++V+GGGN+ RG ++R D+MGMLAT++N LA+ D L ++ + + +MSA +
Sbjct: 50 VSVVLGGGNLFRGAKLAKAGMNRVVGDHMGMLATVMNGLAMRDSLFRADVNAKLMSAFQL 109
Query: 525 EKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDXXXXXXXXXXXXXXXXXXXXVDGI 584
++Y AIK L E +VVIF+ G GNPFFTTD VDG+
Sbjct: 110 NGICDTYNWSEAIKMLREKRVVIFSAGTGNPFFTTDSTACLRGIEIEADVVLKATKVDGV 169
Query: 585 YNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVI 644
Y+ DP K A +YK +++ EVI K+L++MD +AF+ RD +PIRVF++ K GAL++V+
Sbjct: 170 YDCDPAKNPDAKLYKNLSYAEVIDKELKVMDLSAFTLARDHGMPIRVFNMGKPGALRQVV 229
Query: 645 EGKNEGTLVYE 655
G EGT + E
Sbjct: 230 TGTEEGTTICE 240
>pdb|2BNF|A Chain A, The Structure Of E. Coli Ump Kinase In Complex With Utp
pdb|2BNF|B Chain B, The Structure Of E. Coli Ump Kinase In Complex With Utp
Length = 241
Score = 147 bits (370), Expect = 3e-35, Method: Composition-based stats.
Identities = 76/191 (39%), Positives = 110/191 (57%)
Query: 465 LAIVIGGGNICRGISNKIQNIDRSTADYMGMLATIINSLALFDILNKSGIISHVMSAISI 524
+ +VIGGGN+ RG +R D+ G LAT+ N LA D L+++ + + + SAI +
Sbjct: 51 VGVVIGGGNLFRGAGLAKAGXNRVVGDHXGXLATVXNGLAXRDALHRAYVNARLXSAIPL 110
Query: 525 EKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDXXXXXXXXXXXXXXXXXXXXVDGI 584
+SY AI L +VVI + G GNPFFTTD VDG+
Sbjct: 111 NGVCDSYSWAEAISLLRNNRVVILSAGTGNPFFTTDSAACLRGIEIEANVVLKATKVDGV 170
Query: 585 YNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVI 644
+ +DP K +A Y+++T+ EV+ K+L++ D AF+ RD KLPIRVF+ K GAL+RV+
Sbjct: 171 FTADPAKDPTATXYEQLTYSEVLEKELKVXDLAAFTLARDHKLPIRVFNXNKPGALRRVV 230
Query: 645 EGKNEGTLVYE 655
G+ EGTL+ E
Sbjct: 231 XGEKEGTLITE 241
>pdb|1IS1|A Chain A, Crystal Structure Of Ribosome Recycling Factor From Vibrio
Parahaemolyticus
Length = 185
Score = 146 bits (368), Expect = 6e-35, Method: Compositional matrix adjust.
Identities = 73/185 (39%), Positives = 125/185 (67%)
Query: 660 IISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLF 719
+I++IKK+ +++M +++ LK NL KVRTGRA+ +L I V+Y+ T L ++AN+
Sbjct: 1 MINEIKKDAQERMDKSVEALKNNLSKVRTGRAHPSLLSGISVEYYGAATPLNQVANVVAE 60
Query: 720 NSHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNI 779
++ T++I F+KE++ ++KAI ++LGLNP G II V +PPLT+ERR+++VK+++
Sbjct: 61 DARTLAITVFDKELTQKVEKAIMMSDLGLNPMSAGTIIRVPLPPLTEERRKDLVKIVRGE 120
Query: 780 TEETKISIRKIRRDSNEXXXXXXXXXXXSVDNEYRAQYDIQKLTDKFILEINQLLINKEK 839
E ++++R IRRD+N S D + +AQ +IQKLTD + +I+++L KEK
Sbjct: 121 AEGGRVAVRNIRRDANNDLKALLKDKEISEDEDRKAQEEIQKLTDVAVKKIDEVLAAKEK 180
Query: 840 EILTL 844
E++ +
Sbjct: 181 ELMEV 185
>pdb|1EK8|A Chain A, Crystal Structure Of The Ribosome Recycling Factor (Rrf)
From Escherichia Coli
pdb|1ZN0|A Chain A, Coordinates Of Rrf And Ef-G Fitted Into Cryo-Em Map Of The
50s Subunit Bound With Both Ef-G (Gdpnp) And Rrf
pdb|1ZN1|A Chain A, Coordinates Of Rrf Fitted Into Cryo-Em Map Of The 70s
Post- Termination Complex
pdb|2RDO|8 Chain 8, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
pdb|4GAS|Y Chain Y, Allosteric Control Of The Ribosome By Small-Molecule
Antibiotics
Length = 185
Score = 139 bits (351), Expect = 6e-33, Method: Composition-based stats.
Identities = 69/183 (37%), Positives = 120/183 (65%)
Query: 660 IISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLF 719
+ISDI+K+ + +M ++ K + K+RTGRA+ +LD I V+Y+ T L ++A++T+
Sbjct: 1 MISDIRKDAEVRMDKCVEAFKTQISKIRTGRASPSLLDGIVVEYYGTPTPLRQLASVTVE 60
Query: 720 NSHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNI 779
+S T+ I F++ MS ++KAI ++LGLNP G+ I V +PPLT+ERR+++ K+++
Sbjct: 61 DSRTLKINVFDRSMSPAVEKAIMASDLGLNPNSAGSDIRVPLPPLTEERRKDLTKIVRGE 120
Query: 780 TEETKISIRKIRRDSNEXXXXXXXXXXXSVDNEYRAQYDIQKLTDKFILEINQLLINKEK 839
E+ ++++R +RRD+N+ S D++ R+Q D+QKLTD I +I L +KE
Sbjct: 121 AEQARVAVRNVRRDANDKVKALLKDKEISEDDDRRSQDDVQKLTDAAIKKIEAALADKEA 180
Query: 840 EIL 842
E++
Sbjct: 181 ELM 183
>pdb|4GD1|Y Chain Y, Structures Of The Bacterial Ribosome In Classical And
Hybrid States Of Trna Binding
Length = 183
Score = 139 bits (349), Expect = 8e-33, Method: Composition-based stats.
Identities = 69/182 (37%), Positives = 119/182 (65%)
Query: 661 ISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFN 720
ISDI+K+ + +M ++ K + K+RTGRA+ +LD I V+Y+ T L ++A++T+ +
Sbjct: 2 ISDIRKDAEVRMDKCVEAFKTQISKIRTGRASPSLLDGIVVEYYGTPTPLRQLASVTVED 61
Query: 721 SHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNIT 780
S T+ I F++ MS ++KAI ++LGLNP G+ I V +PPLT+ERR+++ K+++
Sbjct: 62 SRTLKINVFDRSMSPAVEKAIMASDLGLNPNSAGSDIRVPLPPLTEERRKDLTKIVRGEA 121
Query: 781 EETKISIRKIRRDSNEXXXXXXXXXXXSVDNEYRAQYDIQKLTDKFILEINQLLINKEKE 840
E+ ++++R +RRD+N+ S D++ R+Q D+QKLTD I +I L +KE E
Sbjct: 122 EQARVAVRNVRRDANDKVKALLKDKEISEDDDRRSQDDVQKLTDAAIKKIEAALADKEAE 181
Query: 841 IL 842
++
Sbjct: 182 LM 183
>pdb|1ISE|A Chain A, Crystal Structure Of A Mutant Of Ribosome Recycling Factor
From Escherichia Coli, Arg132gly
Length = 185
Score = 136 bits (343), Expect = 5e-32, Method: Composition-based stats.
Identities = 68/183 (37%), Positives = 119/183 (65%)
Query: 660 IISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLF 719
+ISDI+K+ + +M ++ K + K+RTGRA+ +LD I V+Y+ T L ++A++T+
Sbjct: 1 MISDIRKDAEVRMDKCVEAFKTQISKIRTGRASPSLLDGIVVEYYGTPTPLRQLASVTVE 60
Query: 720 NSHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNI 779
+S T+ I F++ MS ++KAI ++LGLNP G+ I V +PPLT+ERR+++ K+++
Sbjct: 61 DSRTLKINVFDRSMSPAVEKAIMASDLGLNPNSAGSDIRVPLPPLTEERRKDLTKIVRGE 120
Query: 780 TEETKISIRKIRRDSNEXXXXXXXXXXXSVDNEYRAQYDIQKLTDKFILEINQLLINKEK 839
E+ ++++R + RD+N+ S D++ R+Q D+QKLTD I +I L +KE
Sbjct: 121 AEQARVAVRNVGRDANDKVKALLKDKEISEDDDRRSQDDVQKLTDAAIKKIEAALADKEA 180
Query: 840 EIL 842
E++
Sbjct: 181 ELM 183
>pdb|4A7W|A Chain A, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7W|B Chain B, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7X|A Chain A, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7X|B Chain B, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7X|C Chain C, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7X|D Chain D, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7X|E Chain E, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
pdb|4A7X|F Chain F, Crystal Structure Of Uridylate Kinase From Helicobacter
Pylori
Length = 240
Score = 134 bits (337), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 69/161 (42%), Positives = 98/161 (60%)
Query: 485 IDRSTADYMGMLATIINSLALFDILNKSGIISHVMSAISIEKFLESYIPLNAIKYLEEGK 544
I R++ DYMGMLAT+IN++A+ + L G+ + V SAI I++ ESYI AI++LE+G+
Sbjct: 70 IRRTSGDYMGMLATVINAVAMQEALEHIGLDTRVQSAIEIKEICESYIYRKAIRHLEKGR 129
Query: 545 VVIFAGGIGNPFFTTDXXXXXXXXXXXXXXXXXXXXVDGIYNSDPNKCLSAIIYKKITFD 604
VVIF G GNPFFTTD VDGIY+ DPNK A ++++
Sbjct: 130 VVIFGAGTGNPFFTTDTAATLRAIEIGSDLIIKATKVDGIYDKDPNKFKDAKKLDTLSYN 189
Query: 605 EVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRVIE 645
+ + +E+MD TA S +D KLPI V ++ K G L +VI+
Sbjct: 190 DALIGDIEVMDDTAISLAKDNKLPIVVCNMFKKGNLLQVIK 230
>pdb|1EH1|A Chain A, Ribosome Recycling Factor From Thermus Thermophilus
pdb|2V46|Y Chain Y, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 1 Of 4). This File Contains The 30s
Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For
Molecule 1.
pdb|2V48|Y Chain Y, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe And
Trna-Fmet (Part 3 Of 4). This File Contains The 30s
Subunit, Mrna, P-Site Asl, E-Site Trna And Rrf For
Molecule 2.
pdb|2QBE|6 Chain 6, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
First 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBG|6 Chain 6, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Ribosome Recycling
Factor (Rrf). This File Contains The 50s Subunit Of The
Second 70s Ribosome, With Rrf Bound. The Entire Crystal
Structure Contains Two 70s Ribosomes And Is Described In
Remark 400.
pdb|2QBI|6 Chain 6, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The First 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2QBK|6 Chain 6, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Gentamicin And Ribosome
Recycling Factor (Rrf). This File Contains The 50s
Subunit Of The Second 70s Ribosome, With Gentamicin And
Rrf Bound. The Entire Crystal Structure Contains Two 70s
Ribosomes And Is Described In Remark 400.
pdb|2Z4L|6 Chain 6, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The First 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|2Z4N|6 Chain 6, Crystal Structure Of The Bacterial Ribosome From
Escherichia Coli In Complex With Paromomycin And
Ribosome Recycling Factor (Rrf). This File Contains The
50s Subunit Of The Second 70s Ribosome, With Paromomycin
And Rrf Bound. The Entire Crystal Structure Contains Two
70s Ribosomes And Is Described In Remark 400.
pdb|3J0D|J Chain J, Models For The T. Thermophilus Ribosome Recycling Factor
Bound To The E. Coli Post-Termination Complex
pdb|3J0E|G Chain G, Models For The T. Thermophilus Ribosome Recycling Factor
And The E. Coli Elongation Factor G Bound To The E. Coli
Post-Termination Complex
Length = 185
Score = 132 bits (333), Expect = 7e-31, Method: Composition-based stats.
Identities = 66/184 (35%), Positives = 120/184 (65%)
Query: 659 MIISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITL 718
M + ++ T+ M ++++L+ NL +RTGRAN +L +++V+Y+ L +IA +T
Sbjct: 1 MTLKELYAETRSHMQKSLEVLEHNLAGLRTGRANPALLLHLKVEYYGAHVPLNQIATVTA 60
Query: 719 FNSHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKN 778
+ T+ +Q +++ I+KAI +++LGLNP+ +G+ +Y++IPPLT+ERR+++V+ ++
Sbjct: 61 PDPRTLVVQSWDQNALKAIEKAIRDSDLGLNPSNKGDALYINIPPLTEERRKDLVRAVRQ 120
Query: 779 ITEETKISIRKIRRDSNEXXXXXXXXXXXSVDNEYRAQYDIQKLTDKFILEINQLLINKE 838
EE +++IR IRR++ + S D RA+ +IQK+TD+FI + +QL KE
Sbjct: 121 YAEEGRVAIRNIRREALDKLKKLAKELHLSEDETKRAEAEIQKITDEFIAKADQLAEKKE 180
Query: 839 KEIL 842
+EIL
Sbjct: 181 QEIL 184
>pdb|4GFQ|A Chain A, 2.65 Angstrom Resolution Crystal Structure Of Ribosome
Recycling Factor (Frr) From Bacillus Anthracis
Length = 209
Score = 131 bits (330), Expect = 1e-30, Method: Compositional matrix adjust.
Identities = 67/179 (37%), Positives = 110/179 (61%)
Query: 666 KNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFNSHTIS 725
K + +KM + L VR GRA+ +LD +QV Y+ T ++++ANIT+ + +
Sbjct: 31 KFSNEKMEKAVAAYSRELATVRAGRASASVLDKVQVDYYGAPTPVVQLANITVPEARLLV 90
Query: 726 IQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNITEETKI 785
IQP++K I+KAI +A+LGLNP+ G +I ++ P LT+ERR ++VK++K EE K+
Sbjct: 91 IQPYDKTSIGDIEKAILKADLGLNPSNDGTVIRIAFPALTEERRRDLVKVVKKYAEEAKV 150
Query: 786 SIRKIRRDSNEXXXXXXXXXXXSVDNEYRAQYDIQKLTDKFILEINQLLINKEKEILTL 844
++R +RRD N+ + D+ DIQK TDK+I +++++ NKEKEI+ +
Sbjct: 151 AVRNVRRDGNDDLKKLEKAGEITEDDLRGYTEDIQKETDKYIAKVDEIAKNKEKEIMEV 209
>pdb|2JJX|A Chain A, The Crystal Structure Of Ump Kinase From Bacillus
Anthracis (Ba1797)
pdb|2JJX|B Chain B, The Crystal Structure Of Ump Kinase From Bacillus
Anthracis (Ba1797)
pdb|2JJX|C Chain C, The Crystal Structure Of Ump Kinase From Bacillus
Anthracis (Ba1797)
Length = 255
Score = 131 bits (329), Expect = 2e-30, Method: Compositional matrix adjust.
Identities = 73/191 (38%), Positives = 107/191 (56%), Gaps = 2/191 (1%)
Query: 465 LAIVIGGGNICRGISNKIQNIDRSTADYMGMLATIINSLALFDIL-NKSGIISHVMSAIS 523
++IVIGGGNI RG + IDR AD +G L TIINSL L +L +K+ VM++I
Sbjct: 54 VSIVIGGGNIFRGHLAEEWGIDRVEADNIGTLGTIINSLMLRGVLTSKTNKEVRVMTSIP 113
Query: 524 IEKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDXXXXXXXXXXXXXX-XXXXXXVD 582
E YI L A+ +L+ G +VIF GG G PF TTD VD
Sbjct: 114 FNAVAEPYIRLRAVHHLDNGYIVIFGGGNGQPFVTTDYPSVQRAIEMNSDAILVAKQGVD 173
Query: 583 GIYNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKR 642
G++ SDP SA +Y+K+ +++V+ + +++MD A RD LP VF+ + G ++R
Sbjct: 174 GVFTSDPKHNKSAKMYRKLNYNDVVRQNIQVMDQAALLLARDYNLPAHVFNFDEPGVMRR 233
Query: 643 VIEGKNEGTLV 653
+ G++ GTL+
Sbjct: 234 ICLGEHVGTLI 244
>pdb|2VA1|A Chain A, Crystal Structure Of Ump Kinase From Ureaplasma Parvum
pdb|2VA1|B Chain B, Crystal Structure Of Ump Kinase From Ureaplasma Parvum
pdb|2VA1|C Chain C, Crystal Structure Of Ump Kinase From Ureaplasma Parvum
pdb|2VA1|D Chain D, Crystal Structure Of Ump Kinase From Ureaplasma Parvum
pdb|2VA1|E Chain E, Crystal Structure Of Ump Kinase From Ureaplasma Parvum
pdb|2VA1|F Chain F, Crystal Structure Of Ump Kinase From Ureaplasma Parvum
Length = 256
Score = 129 bits (323), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 74/190 (38%), Positives = 113/190 (59%), Gaps = 1/190 (0%)
Query: 465 LAIVIGGGNICRGISNKIQNIDRSTADYMGMLATIINSLALFDILNKSGIISHVMSAISI 524
++IV+GGGNI RG K ++DR+ AD MGM+ATIIN LAL + LN + + V+SAI
Sbjct: 65 VSIVLGGGNIWRGSIAKELDMDRNLADNMGMMATIINGLALENALNHLNVNTIVLSAIKC 124
Query: 525 EKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDXXXXXXXXXXXXXXXXX-XXXVDG 583
+K + N K +E+ +V+IF G G P+FTTD VDG
Sbjct: 125 DKLVHESSANNIKKAIEKEQVMIFVAGTGFPYFTTDSCAAIRAAETESSIILMGKNGVDG 184
Query: 584 IYNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRV 643
+Y+SDP +A Y+ ITF+ +++ L++MD+TA + C++ + + VF+I K A+ V
Sbjct: 185 VYDSDPKINPNAQFYEHITFNMALTQNLKVMDATALALCQENNINLLVFNIDKPNAIVDV 244
Query: 644 IEGKNEGTLV 653
+E KN+ T+V
Sbjct: 245 LEKKNKYTIV 254
>pdb|1Z9D|A Chain A, Crystal Structure Of A Putative Uridylate Kinase
(Ump-Kinase) From Streptococcus Pyogenes
pdb|1Z9D|B Chain B, Crystal Structure Of A Putative Uridylate Kinase
(Ump-Kinase) From Streptococcus Pyogenes
pdb|1Z9D|C Chain C, Crystal Structure Of A Putative Uridylate Kinase
(Ump-Kinase) From Streptococcus Pyogenes
Length = 252
Score = 125 bits (315), Expect = 8e-29, Method: Composition-based stats.
Identities = 69/190 (36%), Positives = 109/190 (57%), Gaps = 1/190 (0%)
Query: 465 LAIVIGGGNICRGISNKIQNIDRSTADYMGMLATIINSLALFDILNKSGIISHVMSAISI 524
+A+VIGGGN+ RG DR ADY G L T+ N+L D L G+ + V +AI
Sbjct: 49 IALVIGGGNLWRGEPAADAGXDRVQADYTGXLGTVXNALVXADSLQHYGVDTRVQTAIPX 108
Query: 525 EKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDXXXXXXXXXXXXXXXXXXXX-VDG 583
+ E YI A+++LE+ ++V+F GIG+P+F+TD VDG
Sbjct: 109 QNVAEPYIRGRALRHLEKNRIVVFGAGIGSPYFSTDTTAALRAAEIEADAILXAKNGVDG 168
Query: 584 IYNSDPNKCLSAIIYKKITFDEVISKKLEIMDSTAFSFCRDQKLPIRVFSIIKSGALKRV 643
+YN+DP K +A+ + ++T EVI + L+I D+TA + D + + VF+ ++G ++RV
Sbjct: 169 VYNADPKKDANAVKFDELTHGEVIKRGLKIXDATASTLSXDNDIDLVVFNXNEAGNIQRV 228
Query: 644 IEGKNEGTLV 653
+ G++ GT V
Sbjct: 229 VFGEHIGTTV 238
>pdb|3MMP|A Chain A, Structure Of The Qb Replicase, An Rna-Dependent Rna
Polymerase Consisting Of Viral And Host Proteins
pdb|3MMP|C Chain C, Structure Of The Qb Replicase, An Rna-Dependent Rna
Polymerase Consisting Of Viral And Host Proteins
Length = 678
Score = 122 bits (305), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 84/223 (37%), Positives = 119/223 (53%), Gaps = 27/223 (12%)
Query: 219 AFLDAKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILR----IKLGKKILNISNRNA 274
A + A V ELR +T A +M+CKKAL EANG + A E +R IK KK N+ A
Sbjct: 2 AEITASLVKELRERTGAGMMDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNV----A 57
Query: 275 KDGVIAIYISEKVGSLVEINCETDFVAKNNEFIKFSKK-----IAKLITENTPXXXXXXX 329
DGVI I G ++E+NC+TDFVAK+ F F+ K +A IT+
Sbjct: 58 ADGVIKTKIDGNYGIILEVNCQTDFVAKDAGFQAFADKVLDAAVAGKITD---------- 107
Query: 330 XXXXXXXXXTVDEKCKELISRIGENIKIRRFKLFKTNNNLISYLHDNKIGVIVEYNGDNE 389
+E+ L+++IGENI IRR + + L SY H +IGV+V G +E
Sbjct: 108 ---VEVLKAQFEEERVALVAKIGENINIRRVAALE-GDVLGSYQHGARIGVLVAAKGADE 163
Query: 390 SAVKDVAMHIAAMKPIALSSDQIPKKIIEKEYSLAVLKAQQLG 432
VK +AMH+AA KP + + + +++EKEY + + A Q G
Sbjct: 164 ELVKHIAMHVAASKPEFIKPEDVSAEVVEKEYQVQLDIAMQSG 206
>pdb|3AGP|A Chain A, Structure Of Viral Polymerase Form I
pdb|3AGQ|A Chain A, Structure Of Viral Polymerase Form Ii
pdb|3AVT|A Chain A, Structure Of Viral Rna Polymerase Complex 1
pdb|3AVU|A Chain A, Structure Of Viral Rna Polymerase Complex 2
pdb|3AVV|A Chain A, Structure Of Viral Rna Polymerase Complex 3
pdb|3AVW|A Chain A, Structure Of Viral Rna Polymerase Complex 4
pdb|3AVX|A Chain A, Structure Of Viral Rna Polymerase Complex 5
pdb|3AVY|A Chain A, Structure Of Viral Rna Polymerase Complex 6
pdb|3VNU|A Chain A, Complex Structure Of Viral Rna Polymerase I
pdb|3VNV|A Chain A, Complex Structure Of Viral Rna Polymerase Ii
pdb|4FWT|A Chain A, Complex Structure Of Viral Rna Polymerase Form Iii
Length = 1289
Score = 121 bits (304), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 84/223 (37%), Positives = 119/223 (53%), Gaps = 27/223 (12%)
Query: 219 AFLDAKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILR----IKLGKKILNISNRNA 274
A + A V ELR +T A +M+CKKAL EANG + A E +R IK KK N+ A
Sbjct: 2 AEITASLVKELRERTGAGMMDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNV----A 57
Query: 275 KDGVIAIYISEKVGSLVEINCETDFVAKNNEFIKFSKK-----IAKLITENTPXXXXXXX 329
DGVI I G ++E+NC+TDFVAK+ F F+ K +A IT+
Sbjct: 58 ADGVIKTKIDGNYGIILEVNCQTDFVAKDAGFQAFADKVLDAAVAGKITD---------- 107
Query: 330 XXXXXXXXXTVDEKCKELISRIGENIKIRRFKLFKTNNNLISYLHDNKIGVIVEYNGDNE 389
+E+ L+++IGENI IRR + + L SY H +IGV+V G +E
Sbjct: 108 ---VEVLKAQFEEERVALVAKIGENINIRRVAALE-GDVLGSYQHGARIGVLVAAKGADE 163
Query: 390 SAVKDVAMHIAAMKPIALSSDQIPKKIIEKEYSLAVLKAQQLG 432
VK +AMH+AA KP + + + +++EKEY + + A Q G
Sbjct: 164 ELVKHIAMHVAASKPEFIKPEDVSAEVVEKEYQVQLDIAMQSG 206
>pdb|1EFU|B Chain B, Elongation Factor Complex Ef-TuEF-Ts From Escherichia Coli
pdb|1EFU|D Chain D, Elongation Factor Complex Ef-TuEF-Ts From Escherichia Coli
Length = 282
Score = 120 bits (300), Expect = 4e-27, Method: Compositional matrix adjust.
Identities = 84/223 (37%), Positives = 119/223 (53%), Gaps = 27/223 (12%)
Query: 219 AFLDAKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILR----IKLGKKILNISNRNA 274
A + A V ELR +T A +M+CKKAL EANG + A E +R IK KK N+ A
Sbjct: 1 AEITASLVKELRERTGAGMMDCKKALTEANGDIELAIENMRKSGAIKAAKKAGNV----A 56
Query: 275 KDGVIAIYISEKVGSLVEINCETDFVAKNNEFIKFSKK-----IAKLITENTPXXXXXXX 329
DGVI I G ++E+NC+TDFVAK+ F F+ K +A IT+
Sbjct: 57 ADGVIKTKIDGNYGIILEVNCQTDFVAKDAGFQAFADKVLDAAVAGKITD---------- 106
Query: 330 XXXXXXXXXTVDEKCKELISRIGENIKIRRFKLFKTNNNLISYLHDNKIGVIVEYNGDNE 389
+E+ L+++IGENI IRR + + L SY H +IGV+V G +E
Sbjct: 107 ---VEVLKAQFEEERVALVAKIGENINIRRVAALE-GDVLGSYQHGARIGVLVAAKGADE 162
Query: 390 SAVKDVAMHIAAMKPIALSSDQIPKKIIEKEYSLAVLKAQQLG 432
VK +AMH+AA KP + + + +++EKEY + + A Q G
Sbjct: 163 ELVKHIAMHVAASKPEFIKPEDVSAEVVEKEYQVQLDIAMQSG 205
>pdb|1WQF|A Chain A, Crystal Structure Of Ribosome Recycling Factor From
Mycobacterium Tuberculosis
pdb|1WQG|A Chain A, Crystal Structure Of Ribosome Recycling Factor From
Mycobacterium Tuberculosis
pdb|1WQH|A Chain A, Crystal Structure Of Ribosome Recycling Factor From
Mycobacterium Tuberculosis
Length = 185
Score = 118 bits (295), Expect = 2e-26, Method: Composition-based stats.
Identities = 61/176 (34%), Positives = 105/176 (59%)
Query: 667 NTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFNSHTISI 726
+ ++KM + + +++L +RTGRAN GM I + Y+ T + ++A+I + + + I
Sbjct: 8 DAEEKMEKAVAVARDDLSTIRTGRANPGMFSRITIDYYGAATPITQLASINVPEARLVVI 67
Query: 727 QPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNITEETKIS 786
+P+E I+ AI ++LG+NPT G +I V++P LT+ERR E+VK K+ EE K+S
Sbjct: 68 KPYEANQLRAIETAIRNSDLGVNPTNDGALIRVAVPQLTEERRRELVKQAKHKGEEAKVS 127
Query: 787 IRKIRRDSNEXXXXXXXXXXXSVDNEYRAQYDIQKLTDKFILEINQLLINKEKEIL 842
+R IRR + E D RA+ D+ K T +++ +I++L+ +KE E+L
Sbjct: 128 VRNIRRKAMEELHRIRKEGEAGEDEVGRAEKDLDKTTHQYVTQIDELVKHKEGELL 183
>pdb|1DD5|A Chain A, Crystal Structure Of Thermotoga Maritima Ribosome
Recycling Factor, Rrf
pdb|1T1M|C Chain C, Binding Position Of Ribosome Recycling Factor (Rrf) On The
E. Coli 70s Ribosome
Length = 185
Score = 115 bits (287), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 66/177 (37%), Positives = 113/177 (63%)
Query: 666 KNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFNSHTIS 725
K K+KM T++ +++ L+K+RTG+ + +L+ I+V Y+ T + ++A I++ T+
Sbjct: 7 KEAKEKMKRTLEKIEDELRKMRTGKPSPAILEEIKVDYYGVPTPVNQLATISISEERTLV 66
Query: 726 IQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNITEETKI 785
I+P++K + S+I+KAIN ++LGLNP GN+I + P T E+RE+ VK K I EE KI
Sbjct: 67 IKPWDKSVLSLIEKAINASDLGLNPINDGNVIRLVFPSPTTEQREKWVKKAKEIVEEGKI 126
Query: 786 SIRKIRRDSNEXXXXXXXXXXXSVDNEYRAQYDIQKLTDKFILEINQLLINKEKEIL 842
+IR IRR+ + D+ R + +IQKLTD+FI +++++ K++EI+
Sbjct: 127 AIRNIRREILKKIKEDQKEGLIPEDDAKRLENEIQKLTDEFIEKLDEVFEIKKEEIM 183
>pdb|1GE9|A Chain A, Solution Structure Of The Ribosome Recycling Factor
Length = 184
Score = 108 bits (270), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 69/184 (37%), Positives = 115/184 (62%), Gaps = 4/184 (2%)
Query: 661 ISDIKKNTKQKMLNTIKILKENLKKVRTGRANIGMLDNIQVKYHEHLTKLLKIANITLFN 720
+ DI K ++ M ++ K + +RT RA+ +++ I+V+Y+ + ++ I++
Sbjct: 5 LEDIFKEAEKDMKKAVEYYKNEIAGLRTSRASTALVEEIKVEYYGSKVPIKQLGTISVPE 64
Query: 721 SHTISIQPFEKEMSSIIKKAINEANLGLNPTIQGNIIYVSIPPLTKERREEIVKLIKNIT 780
+ I IQ +++ I+KAI E L LNPT+QGN+I V++PPLT+ERR E+V+L+ IT
Sbjct: 65 HNQIVIQVWDQNAVPAIEKAIRE-ELNLNPTVQGNVIRVTLPPLTEERRRELVRLLHKIT 123
Query: 781 EETKISIRKIRRDSNEXXXXXXXXXXXSVDNEYRAQYDIQKLTDKFILEINQLLINKEKE 840
EE ++ +R +RR++ E S D + RA +QKLTDK+I EIN+L+ KEKE
Sbjct: 124 EEARVRVRNVRREAKE---MIEELEGISEDEKKRALERLQKLTDKYIDEINKLMEAKEKE 180
Query: 841 ILTL 844
I+++
Sbjct: 181 IMSV 184
>pdb|1AIP|C Chain C, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
pdb|1AIP|D Chain D, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
pdb|1AIP|G Chain G, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
pdb|1AIP|H Chain H, Ef-Tu Ef-Ts Complex From Thermus Thermophilus
Length = 196
Score = 66.2 bits (160), Expect = 8e-11, Method: Composition-based stats.
Identities = 39/99 (39%), Positives = 60/99 (60%), Gaps = 2/99 (2%)
Query: 226 VGELRSKTLAPIMECKKALIEANGKLSKAEEILRIKLGKKILNISNRNAKDGVIAIYI-- 283
+ +LR T A +M+ K+AL +A KA ++LR + K ++R A++G+I YI
Sbjct: 7 IKKLREATGAGMMDVKRALEDAGWDEEKAVQLLRERGAMKAAKKADREAREGIIGHYIHH 66
Query: 284 SEKVGSLVEINCETDFVAKNNEFIKFSKKIAKLITENTP 322
+++VG LVE+NCETDFVA+N F +K +A I P
Sbjct: 67 NQRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNP 105
Score = 45.8 bits (107), Expect = 1e-04, Method: Composition-based stats.
Identities = 29/80 (36%), Positives = 46/80 (57%), Gaps = 15/80 (18%)
Query: 374 HDNKIGVIVEYNGDN---------ESAVKDVAMHIAAMKPIALSSDQIPKKIIEKE---Y 421
H+ ++GV+VE N + ++ KD+AMHIA M P +S+++IP + +EKE Y
Sbjct: 66 HNQRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVSAEEIPAEELEKERQIY 125
Query: 422 SLAVL---KAQQLGEALMKG 438
A L K QQ+ E + +G
Sbjct: 126 IQAALNEGKPQQIAEKIAEG 145
>pdb|1Y69|8 Chain 8, Rrf Domain I In Complex With The 50s Ribosomal Subunit
From Deinococcus Radiodurans
Length = 113
Score = 59.7 bits (143), Expect = 7e-09, Method: Composition-based stats.
Identities = 27/78 (34%), Positives = 50/78 (64%)
Query: 765 TKERREEIVKLIKNITEETKISIRKIRRDSNEXXXXXXXXXXXSVDNEYRAQYDIQKLTD 824
T+ERR+++ K+++ E+ ++++R +RRD+N+ S D++ R+Q D+QKLTD
Sbjct: 34 TEERRKDLTKIVRGEAEQARVAVRNVRRDANDKVKALLKDKEISEDDDRRSQDDVQKLTD 93
Query: 825 KFILEINQLLINKEKEIL 842
I +I L +KE E++
Sbjct: 94 AAIKKIEAALADKEAELM 111
>pdb|1XB2|B Chain B, Crystal Structure Of Bos Taurus Mitochondrial Elongation
Factor TuTS COMPLEX
Length = 291
Score = 58.2 bits (139), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 33/90 (36%), Positives = 48/90 (53%), Gaps = 4/90 (4%)
Query: 229 LRSKTLAPIMECKKALIEANGKLSKAEEILRIKLGK----KILNISNRNAKDGVIAIYIS 284
LR KT + CKKAL G L +AE L + K K + R K+G+I +
Sbjct: 11 LRRKTGYSFINCKKALETCGGDLKQAESWLHKQAQKEGWSKAARLHGRKTKEGLIGLLQE 70
Query: 285 EKVGSLVEINCETDFVAKNNEFIKFSKKIA 314
LVE+NCETDFV++N +F + +++A
Sbjct: 71 GDTTVLVEVNCETDFVSRNLKFQQLVQQVA 100
>pdb|1VI6|A Chain A, Crystal Structure Of Ribosomal Protein S2p
pdb|1VI6|B Chain B, Crystal Structure Of Ribosomal Protein S2p
pdb|1VI6|C Chain C, Crystal Structure Of Ribosomal Protein S2p
pdb|1VI6|D Chain D, Crystal Structure Of Ribosomal Protein S2p
Length = 208
Score = 48.1 bits (113), Expect = 2e-05, Method: Composition-based stats.
Identities = 53/242 (21%), Positives = 101/242 (41%), Gaps = 57/242 (23%)
Query: 7 EMLEAGVHFGHQTRFWNPKMSSYIFGHR-NKIHIINLEKTLYMYEKAIRYIYQLGFSKGT 65
+ L AGVH G Q + M +IF R + ++++++ K A +++ + SK
Sbjct: 15 DYLAAGVHIGTQIK--TGDMKKFIFKVRQDGLYVLDIRKLDERIRVAAKFLSRYEPSK-- 70
Query: 66 LLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSI 125
+L V ++ A + + G +I R++ G LTN
Sbjct: 71 ILLVAARQYAHKPVQMFSKVVGSDYIVGRFIPGTLTN----------------------- 107
Query: 126 RKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGV 185
L YR+ P+ +F+ D K AVSEA + IP++ +
Sbjct: 108 ------PMLSEYRE-----------------PEVVFVNDPAIDKQAVSEATAVGIPVVAL 144
Query: 186 VDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAKTVGELRSKTLAPIMECKKALI 245
D+N+S ++ VIP N+ +++A+ +L A+ + ++R + +E +A +
Sbjct: 145 CDSNNSSADVDLVIPTNNKGRRALAIVY------WLLAREIAKIRGQDFTYSIEDFEAEL 198
Query: 246 EA 247
E
Sbjct: 199 EG 200
>pdb|1VI5|A Chain A, Crystal Structure Of Ribosomal Protein S2p
pdb|1VI5|B Chain B, Crystal Structure Of Ribosomal Protein S2p
pdb|1VI5|C Chain C, Crystal Structure Of Ribosomal Protein S2p
pdb|1VI5|D Chain D, Crystal Structure Of Ribosomal Protein S2p
Length = 208
Score = 47.8 bits (112), Expect = 2e-05, Method: Composition-based stats.
Identities = 53/242 (21%), Positives = 102/242 (42%), Gaps = 57/242 (23%)
Query: 7 EMLEAGVHFGHQTRFWNPKMSSYIFGHR-NKIHIINLEKTLYMYEKAIRYIYQLGFSKGT 65
+ L AGVH G Q + + K +IF R + ++++++ K A +++ + SK
Sbjct: 15 DYLAAGVHIGTQIKTGDXK--KFIFKVRQDGLYVLDIRKLDERIRVAAKFLSRYEPSK-- 70
Query: 66 LLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITNGSI 125
+L V ++ A + + G +I R++ G LTN
Sbjct: 71 ILLVAARQYAHKPVQXFSKVVGSDYIVGRFIPGTLTN----------------------- 107
Query: 126 RKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPIIGV 185
L YR+ P+ +F+ D K AVSEA + IP++ +
Sbjct: 108 ------PXLSEYRE-----------------PEVVFVNDPAIDKQAVSEATAVGIPVVAL 144
Query: 186 VDTNHSPDGINYVIPGNDDSAKSIALYTKGIVDAFLDAKTVGELRSKTLAPIMECKKALI 245
D+N+S ++ VIP N+ +++A+ +L A+ + ++R + +E +A +
Sbjct: 145 CDSNNSSADVDLVIPTNNKGRRALAIVY------WLLAREIAKIRGQDFTYSIEDFEAEL 198
Query: 246 EA 247
E
Sbjct: 199 EG 200
>pdb|1TFE|A Chain A, Dimerization Domain Of Ef-Ts From T. Thermophilus
Length = 145
Score = 46.6 bits (109), Expect = 6e-05, Method: Composition-based stats.
Identities = 24/51 (47%), Positives = 34/51 (66%), Gaps = 2/51 (3%)
Query: 274 AKDGVIAIYI--SEKVGSLVEINCETDFVAKNNEFIKFSKKIAKLITENTP 322
A++G+I YI +++VG LVE+NCETDFVA+N F +K +A I P
Sbjct: 1 AREGIIGHYIHHNQRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNP 51
Score = 45.8 bits (107), Expect = 1e-04, Method: Composition-based stats.
Identities = 29/80 (36%), Positives = 46/80 (57%), Gaps = 15/80 (18%)
Query: 374 HDNKIGVIVEYNGDN---------ESAVKDVAMHIAAMKPIALSSDQIPKKIIEKE---Y 421
H+ ++GV+VE N + ++ KD+AMHIA M P +S+++IP + +EKE Y
Sbjct: 12 HNQRVGVLVELNCETDFVARNELFQNLAKDLAMHIAMMNPRYVSAEEIPAEELEKERQIY 71
Query: 422 SLAVL---KAQQLGEALMKG 438
A L K QQ+ E + +G
Sbjct: 72 IQAALNEGKPQQIAEKIAEG 91
>pdb|3LF9|A Chain A, Crystal Structure Of Hiv Epitope-Scaffold
4e10_d0_1is1a_001_c
Length = 121
Score = 45.4 bits (106), Expect = 1e-04, Method: Composition-based stats.
Identities = 24/78 (30%), Positives = 48/78 (61%)
Query: 765 TKERREEIVKLIKNITEETKISIRKIRRDSNEXXXXXXXXXXXSVDNEYRAQYDIQKLTD 824
T+ERR+++VK+++ E ++++R I RD+ + + +A ++IQKLTD
Sbjct: 34 TEERRKDLVKIVRGEAEGGRVAVRNIARDAANDLAALGKDKEVNWFDISQALWEIQKLTD 93
Query: 825 KFILEINQLLINKEKEIL 842
+ +I+++L KEKE++
Sbjct: 94 VAVKKIDEVLAAKEKELM 111
Score = 32.7 bits (73), Expect = 0.89, Method: Composition-based stats.
Identities = 14/30 (46%), Positives = 24/30 (80%)
Query: 660 IISDIKKNTKQKMLNTIKILKENLKKVRTG 689
+I++IKK+ +++M +++ LK NL KVRTG
Sbjct: 1 MINEIKKDAQERMDKSVEALKNNLSKVRTG 30
>pdb|2JI5|A Chain A, Structure Of Ump Kinase From Pyrococcus Furiosus Complexed
With Utp
pdb|2JI5|B Chain B, Structure Of Ump Kinase From Pyrococcus Furiosus Complexed
With Utp
Length = 227
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 50/203 (24%), Positives = 87/203 (42%), Gaps = 31/203 (15%)
Query: 465 LAIVIGGGNICRG---ISNKIQNIDRSTADYMGMLATIINSLALFDILNKSGIISHVMSA 521
+A+V+GGG + R ++ K N + D++G+ T N++ L L +
Sbjct: 40 VAVVVGGGKLARKYIEVAEKF-NSSETFKDFIGIQITRANAMLLIAALREKAY------P 92
Query: 522 ISIEKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDXXXXXXXXXXXXXXXXXXXXV 581
+ +E F E++ K ++ K+ + G +P TTD V
Sbjct: 93 VVVEDFWEAW------KAVQLKKIPVMGGT--HPGHTTDAVAALLAEFLKADLLVVITNV 144
Query: 582 DGIYNSDPNKCLSAIIYKKITFD---EVISKKLE------IMDSTAFSFCRDQKLPIRVF 632
DG+Y +DP K +A KK+ + E++ K +E ++D A + I+
Sbjct: 145 DGVYTADPKKDPTAKKIKKMKPEELLEIVGKGIEKAGSSSVIDPLAAKII--ARTGIKTI 202
Query: 633 SIIKSGA--LKRVIEGKNEGTLV 653
I K A L RVI+G + GT +
Sbjct: 203 VIGKEDAKDLFRVIKGDHNGTTI 225
>pdb|2BRX|A Chain A, Ump Kinase From Pyrococcus Furiosus Without Ligands
pdb|2BRX|B Chain B, Ump Kinase From Pyrococcus Furiosus Without Ligands
Length = 244
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 47/201 (23%), Positives = 84/201 (41%), Gaps = 27/201 (13%)
Query: 465 LAIVIGGGNICRG---ISNKIQNIDRSTADYMGMLATIINSLALFDILNKSGIISHVMSA 521
+A+V+GGG + R ++ K N + D++G+ T N++ L L +
Sbjct: 57 VAVVVGGGKLARKYIEVAEKF-NSSETFKDFIGIQITRANAMLLIAALREKAY------P 109
Query: 522 ISIEKFLESYIPLNAIKYLEEGKVVIFAGGIGNPFFTTDXXXXXXXXXXXXXXXXXXXXV 581
+ +E F E++ K ++ K+ + G +P TTD V
Sbjct: 110 VVVEDFWEAW------KAVQLKKIPVMGGT--HPGHTTDAVAALLAEFLKADLLVVITNV 161
Query: 582 DGIYNSDPNKCLSAIIYKKITFD---EVISKKLE------IMDSTAFSFCRDQKLPIRVF 632
DG+Y +DP K +A KK+ + E++ K +E ++D A + V
Sbjct: 162 DGVYTADPKKDPTAKKIKKMKPEELLEIVGKGIEKAGSSSVIDPLAAKIIARSGIKTIVI 221
Query: 633 SIIKSGALKRVIEGKNEGTLV 653
+ L RVI+G + GT +
Sbjct: 222 GKEDAKDLFRVIKGDHNGTTI 242
>pdb|2XZM|B Chain B, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 1
pdb|2XZN|B Chain B, Crystal Structure Of The Eukaryotic 40s Ribosomal Subunit
In Complex With Initiation Factor 1. This File Contains
The 40s Subunit And Initiation Factor For Molecule 2
Length = 241
Score = 40.4 bits (93), Expect = 0.004, Method: Composition-based stats.
Identities = 49/209 (23%), Positives = 80/209 (38%), Gaps = 51/209 (24%)
Query: 5 IREMLEAGVHFGHQTRFWNPKMSSYIFGHR--NKIHIINLEKTLYMYEKAIRYIYQLGFS 62
I+ +L + H T N +M YI H+ N IH IN+E+T + A R I +
Sbjct: 10 IKRLLASNCH--QATINLNNQMKRYI-SHKGVNGIHYINIEETWQKIKLAARVIAAVQHP 66
Query: 63 KGTLLFVGTKRQARGVIANEAVRAGMPFIDQRWLGGLLTNFKTIKTSIQRLKEMDLFITN 122
+ ++ R I RW G LTN++T+K R+ L +T+
Sbjct: 67 EDVMVVCSRIYGQRAAIKFAGYTHCKSTSSSRWTPGTLTNYQTLKYEEPRV----LIVTD 122
Query: 123 GSIRKLSKKEALLFYRKQMKLNRVIGGIKNMNIIPDAIFIIDVGYHKGAVSEAIKLNIPI 182
P + F A+ EA +NIP+
Sbjct: 123 ----------------------------------PRSDF--------QAIKEASYVNIPV 140
Query: 183 IGVVDTNHSPDGINYVIPGNDDSAKSIAL 211
I + D++ ++ VIP N+ S +SI++
Sbjct: 141 IALCDSDSPLAYVDVVIPCNNRSTESISM 169
>pdb|2IJ9|A Chain A, Crystal Structure Of Uridylate Kinase From Archaeoglobus
Fulgidus
pdb|2IJ9|B Chain B, Crystal Structure Of Uridylate Kinase From Archaeoglobus
Fulgidus
Length = 219
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 36/145 (24%), Positives = 64/145 (44%), Gaps = 21/145 (14%)
Query: 467 IVIGGGNICRGISNKIQNIDRST--ADYMGMLATIINSLALFDILNKSGIISHVMSAISI 524
+V+GGG + R + + S DY+G+ AT +N++ L IS + SA
Sbjct: 37 VVVGGGKLAREYIKSARELGASETFCDYIGIAATRLNAMLL---------ISAIPSA--- 84
Query: 525 EKFLESYIPLNAIKYLEEGKV--VIFAGGIGNPFFTTDXXXXXXXXXXXXXXXXXXXXVD 582
+P++ ++ E K+ V+ GG P TTD VD
Sbjct: 85 ----AKKVPVDFMEAEELSKLYRVVVMGGT-FPGHTTDATAALLAEFIKADVFINATNVD 139
Query: 583 GIYNSDPNKCLSAIIYKKITFDEVI 607
G+Y++DP SA+ Y +++ +++
Sbjct: 140 GVYSADPKSDTSAVKYDRLSPQQLV 164
>pdb|3J20|B Chain B, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (30s Ribosomal Subunit)
Length = 202
Score = 39.3 bits (90), Expect = 0.009, Method: Composition-based stats.
Identities = 18/55 (32%), Positives = 32/55 (58%)
Query: 157 PDAIFIIDVGYHKGAVSEAIKLNIPIIGVVDTNHSPDGINYVIPGNDDSAKSIAL 211
PD + + D A+ EA+++ IPI+ +VDT + ++ IP N+ K++AL
Sbjct: 112 PDVLIVTDPRADHQAMREAVEIGIPIVALVDTENLLSYVDLAIPTNNKGRKALAL 166
>pdb|3LHP|S Chain S, Crystal Structure Of Hiv Epitope-Scaffold
4e10_d0_1isea_004_n 4e10 Fv Complex
pdb|3LHP|T Chain T, Crystal Structure Of Hiv Epitope-Scaffold
4e10_d0_1isea_004_n 4e10 Fv Complex
Length = 123
Score = 38.5 bits (88), Expect = 0.016, Method: Composition-based stats.
Identities = 19/74 (25%), Positives = 42/74 (56%)
Query: 765 TKERREEIVKLIKNITEETKISIRKIRRDSNEXXXXXXXXXXXSVDNEYRAQYDIQKLTD 824
T+ER ++ +K+++ E+ ++++R + RD+N+ + + ++ +D+QKLTD
Sbjct: 44 TEERIKDWLKIVRGEAEQARVAVRNVGRDANDKAAALGKDKEINWFDISQSLWDVQKLTD 103
Query: 825 KFILEINQLLINKE 838
I +I L + E
Sbjct: 104 AAIKKIEAALADME 117
>pdb|1WIH|A Chain A, Solution Structure Of Rsgi Ruh-021, A Domain Ii Of
Ribosome Recycling Factor From Mouse Cdna
Length = 84
Score = 34.7 bits (78), Expect = 0.21, Method: Composition-based stats.
Identities = 23/78 (29%), Positives = 39/78 (50%), Gaps = 1/78 (1%)
Query: 689 GRANIGMLDNIQVKYHEHLTKLLKIANITLFNSHTISIQPFE-KEMSSIIKKAINEANLG 747
G + LD+I V + L +I I++ + I + E ++ KAI E+ +
Sbjct: 1 GSSGSSGLDHITVVTADGKVALNQIGQISMKSPQVILVNMASFPECTAAAIKAIRESGMN 60
Query: 748 LNPTIQGNIIYVSIPPLT 765
LNP ++G +I V IP +T
Sbjct: 61 LNPEVEGTLIRVPIPKVT 78
>pdb|1S1H|B Chain B, 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,
1s1h, Contains 40s Subunit. The 60s Ribosomal Subunit Is
In File 1s1i
Length = 185
Score = 33.5 bits (75), Expect = 0.46, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 27/55 (49%)
Query: 157 PDAIFIIDVGYHKGAVSEAIKLNIPIIGVVDTNHSPDGINYVIPGNDDSAKSIAL 211
P + + D A+ EA +NIP+I + D + + ++ IP N+ SI L
Sbjct: 105 PRLVIVTDPRSDAQAIKEASYVNIPVIALTDLDSPSEFVDVAIPCNNRGKHSIGL 159
>pdb|3IZB|A Chain A, Localization Of The Small Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O2Z|A Chain A, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O30|A Chain A, Yeast 80s Ribosome. This Entry Consists Of The 40s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5C|A Chain A, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|A Chain A, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 252
Score = 33.5 bits (75), Expect = 0.46, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 27/55 (49%)
Query: 157 PDAIFIIDVGYHKGAVSEAIKLNIPIIGVVDTNHSPDGINYVIPGNDDSAKSIAL 211
P + + D A+ EA +NIP+I + D + + ++ IP N+ SI L
Sbjct: 118 PRLVIVTDPRSDAQAIKEASYVNIPVIALTDLDSPSEFVDVAIPCNNRGKHSIGL 172
>pdb|3JYV|B Chain B, Structure Of The 40s Rrna And Proteins And PE TRNA FOR
EUKARYOTIC Ribosome Based On Cryo-Em Map Of Thermomyces
Lanuginosus Ribosome At 8.9a Resolution
Length = 193
Score = 33.5 bits (75), Expect = 0.46, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 27/55 (49%)
Query: 157 PDAIFIIDVGYHKGAVSEAIKLNIPIIGVVDTNHSPDGINYVIPGNDDSAKSIAL 211
P + + D A+ EA +NIP+I + D + + ++ IP N+ SI L
Sbjct: 110 PRLVIVTDPRSDAQAIKEASYVNIPVIALTDLDSPSEFVDVAIPCNNRGKHSIGL 164
>pdb|3ZEY|C Chain C, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 277
Score = 32.0 bits (71), Expect = 1.6, Method: Composition-based stats.
Identities = 16/55 (29%), Positives = 28/55 (50%)
Query: 157 PDAIFIIDVGYHKGAVSEAIKLNIPIIGVVDTNHSPDGINYVIPGNDDSAKSIAL 211
P + + D A+ EA +NIP+I DT+ + ++ IP N+ SI++
Sbjct: 155 PRVLVVTDPRTDHQALREASLVNIPVIAFCDTDAPLEFVDIAIPCNNRGRHSISM 209
>pdb|2VXR|A Chain A, Crystal Structure Of The Botulinum Neurotoxin Serotype G
Binding Domain
Length = 482
Score = 30.0 bits (66), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 36/127 (28%), Positives = 60/127 (47%), Gaps = 6/127 (4%)
Query: 670 QKMLNTIKILKENLKKVRTGRA--NIGMLDNIQVKYHEHLTKLLKIANITLFNSHTISIQ 727
Q NT+K N + T N GM NI +KY + + + A T FN+ I+ Q
Sbjct: 269 QSSTNTLKDFWGNPLRYDTQYYLFNQGM-QNIYIKYFSKAS-MGETAPRTNFNNAAINYQ 326
Query: 728 PFEKEMSSIIKKAINEANLGLNPTI-QGNIIYVSIPPLTKERREEIVKLIKNITEETKIS 786
+ IIKKA N N+ + + +G+ IY++I ++ E V L+ + +T++
Sbjct: 327 NLYLGLRFIIKKASNSRNINNDNIVREGDYIYLNIDNISDESYRVYV-LVNSKEIQTQLF 385
Query: 787 IRKIRRD 793
+ I D
Sbjct: 386 LAPINDD 392
>pdb|3MPP|G Chain G, Botulinum Neurotoxin Type G Receptor Binding Domain
Length = 433
Score = 30.0 bits (66), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 31/101 (30%), Positives = 49/101 (48%), Gaps = 5/101 (4%)
Query: 670 QKMLNTIKILKENLKKVRTGRA--NIGMLDNIQVKYHEHLTKLLKIANITLFNSHTISIQ 727
Q NT+K N + T N GM NI +KY + + + A T FN+ I+ Q
Sbjct: 220 QSSTNTLKDFWGNPLRYDTQYYLFNQGM-QNIYIKYFSKAS-MGETAPRTNFNNAAINYQ 277
Query: 728 PFEKEMSSIIKKAINEANLGLNPTI-QGNIIYVSIPPLTKE 767
+ IIKKA N N+ + + +G+ IY++I ++ E
Sbjct: 278 NLYLGLRFIIKKASNSRNINNDNIVREGDYIYLNIDNISDE 318
>pdb|3AAW|A Chain A, Crystal Structure Of Aspartate Kinase From Corynebacterium
Glutamicum In Complex With Lysine And Threonine
pdb|3AAW|C Chain C, Crystal Structure Of Aspartate Kinase From Corynebacterium
Glutamicum In Complex With Lysine And Threonine
pdb|3AB2|A Chain A, Crystal Structure Of Aspartate Kinase From Corynebacterium
Glutamicum In Complex With Threonine
pdb|3AB2|C Chain C, Crystal Structure Of Aspartate Kinase From Corynebacterium
Glutamicum In Complex With Threonine
pdb|3AB2|E Chain E, Crystal Structure Of Aspartate Kinase From Corynebacterium
Glutamicum In Complex With Threonine
pdb|3AB2|G Chain G, Crystal Structure Of Aspartate Kinase From Corynebacterium
Glutamicum In Complex With Threonine
pdb|3AB2|I Chain I, Crystal Structure Of Aspartate Kinase From Corynebacterium
Glutamicum In Complex With Threonine
pdb|3AB2|K Chain K, Crystal Structure Of Aspartate Kinase From Corynebacterium
Glutamicum In Complex With Threonine
pdb|3AB2|M Chain M, Crystal Structure Of Aspartate Kinase From Corynebacterium
Glutamicum In Complex With Threonine
pdb|3AB2|O Chain O, Crystal Structure Of Aspartate Kinase From Corynebacterium
Glutamicum In Complex With Threonine
Length = 421
Score = 29.6 bits (65), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 32/58 (55%), Gaps = 7/58 (12%)
Query: 581 VDGIYNSDPNKCLSAIIYKKITFDEV-----ISKKLEIMDSTAFSFCRDQKLPIRVFS 633
VDG+Y +DP +A +K++F+E+ + K+ ++ S + R +P+RV S
Sbjct: 176 VDGVYTADPRIVPNAQKLEKLSFEEMLELAAVGSKILVLRS--VEYARAFNVPLRVRS 231
>pdb|3AB4|A Chain A, Crystal Structure Of Feedback Inhibition Resistant Mutant
Of Aspartate Kinase From Corynebacterium Glutamicum In
Complex With Lysine And Threonine
pdb|3AB4|C Chain C, Crystal Structure Of Feedback Inhibition Resistant Mutant
Of Aspartate Kinase From Corynebacterium Glutamicum In
Complex With Lysine And Threonine
pdb|3AB4|E Chain E, Crystal Structure Of Feedback Inhibition Resistant Mutant
Of Aspartate Kinase From Corynebacterium Glutamicum In
Complex With Lysine And Threonine
pdb|3AB4|G Chain G, Crystal Structure Of Feedback Inhibition Resistant Mutant
Of Aspartate Kinase From Corynebacterium Glutamicum In
Complex With Lysine And Threonine
pdb|3AB4|I Chain I, Crystal Structure Of Feedback Inhibition Resistant Mutant
Of Aspartate Kinase From Corynebacterium Glutamicum In
Complex With Lysine And Threonine
pdb|3AB4|K Chain K, Crystal Structure Of Feedback Inhibition Resistant Mutant
Of Aspartate Kinase From Corynebacterium Glutamicum In
Complex With Lysine And Threonine
pdb|3AB4|M Chain M, Crystal Structure Of Feedback Inhibition Resistant Mutant
Of Aspartate Kinase From Corynebacterium Glutamicum In
Complex With Lysine And Threonine
pdb|3AB4|O Chain O, Crystal Structure Of Feedback Inhibition Resistant Mutant
Of Aspartate Kinase From Corynebacterium Glutamicum In
Complex With Lysine And Threonine
Length = 421
Score = 29.6 bits (65), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 32/58 (55%), Gaps = 7/58 (12%)
Query: 581 VDGIYNSDPNKCLSAIIYKKITFDEV-----ISKKLEIMDSTAFSFCRDQKLPIRVFS 633
VDG+Y +DP +A +K++F+E+ + K+ ++ S + R +P+RV S
Sbjct: 176 VDGVYTADPRIVPNAQKLEKLSFEEMLELAAVGSKILVLRS--VEYARAFNVPLRVRS 231
>pdb|4F6T|B Chain B, The Crystal Structure Of The Molybdenum Storage Protein
(Mosto) From Azotobacter Vinelandii Loaded With Various
Polyoxometalates
Length = 268
Score = 29.6 bits (65), Expect = 7.7, Method: Composition-based stats.
Identities = 18/76 (23%), Positives = 38/76 (50%), Gaps = 4/76 (5%)
Query: 582 DGIYNSDPNKCLSAIIYKKITFDEVISKKLE--IMDSTAFSFCRDQK--LPIRVFSIIKS 637
DG+Y ++P A +I+ DE+ +K L I++ + + ++V + +
Sbjct: 190 DGLYTANPKTSKDATFIPRISVDEMKAKGLHDSILEFPVLDLLQSAQHVREVQVVNGLVP 249
Query: 638 GALKRVIEGKNEGTLV 653
G L R + G++ GT++
Sbjct: 250 GNLTRALAGEHVGTII 265
>pdb|3TSM|A Chain A, Crystal Structure Of Indole-3-Glycerol Phosphate Synthase
From Brucella Melitensis
pdb|3TSM|B Chain B, Crystal Structure Of Indole-3-Glycerol Phosphate Synthase
From Brucella Melitensis
Length = 272
Score = 29.3 bits (64), Expect = 9.5, Method: Composition-based stats.
Identities = 21/75 (28%), Positives = 38/75 (50%), Gaps = 6/75 (8%)
Query: 216 IVDAFLDAKTVGELRSKTLAPIMECKKALIEANGKLSKAEEILRIKLGKKILNISNRNAK 275
I+ A +D EL A M+ ALIE + +AE +KL ++L ++NRN +
Sbjct: 148 IIMASVDDDLAKELEDTAFALGMD---ALIEVH---DEAEMERALKLSSRLLGVNNRNLR 201
Query: 276 DGVIAIYISEKVGSL 290
+ + +SE++ +
Sbjct: 202 SFEVNLAVSERLAKM 216
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
0.319 0.137 0.378
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,607,968
Number of Sequences: 62578
Number of extensions: 782663
Number of successful extensions: 2354
Number of sequences better than 100.0: 75
Number of HSP's better than 100.0 without gapping: 50
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 2262
Number of HSP's gapped (non-prelim): 85
length of query: 844
length of database: 14,973,337
effective HSP length: 107
effective length of query: 737
effective length of database: 8,277,491
effective search space: 6100510867
effective search space used: 6100510867
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.2 bits)