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= 031803
(152 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|A Chain A, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 216
Score = 200 bits (508), Expect = 3e-52, Method: Compositional matrix adjust.
Identities = 96/133 (72%), Positives = 110/133 (82%), Gaps = 1/133 (0%)
Query: 1 MSKLQSDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPR 60
MSKLQSDA+++A++ IV ++E KKR FTET+ELQIGLKNYDPQKDKRFSGSVKLPHIPR
Sbjct: 1 MSKLQSDAVKDAITQIVGEARE-KKRKFTETVELQIGLKNYDPQKDKRFSGSVKLPHIPR 59
Query: 61 PKMKVCMLGDAQHVEEAEKIGLDYMDVEGXXXXXXXXXXXXXXXXXYHAFLASESVIKQI 120
PKM+VCMLGDAQHV++AEK+GLDYMDVE YHAFLASE++IKQI
Sbjct: 60 PKMRVCMLGDAQHVDQAEKMGLDYMDVESLKKMNKNKKLVKKLAKKYHAFLASEAIIKQI 119
Query: 121 PRLLGPGLNKAGK 133
PRLLGPGLNKAGK
Sbjct: 120 PRLLGPGLNKAGK 132
>pdb|1S1I|A Chain A, Structure Of The Ribosomal 80s-Eef2-Sordarin Complex From
Yeast Obtained By Docking Atomic Models For Rna And
Protein Components Into A 11.7 A Cryo-Em Map. This File,
1s1i, Contains 60s Subunit. The 40s Ribosomal Subunit Is
In File 1s1h.
pdb|3IZS|A Chain A, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|A Chain A, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|A Chain A, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit
Length = 217
Score = 155 bits (392), Expect = 9e-39, Method: Compositional matrix adjust.
Identities = 75/138 (54%), Positives = 96/138 (69%), Gaps = 1/138 (0%)
Query: 1 MSKLQSDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPR 60
MSK+ S +RE V +++YS ETKKRNF ET+ELQ+GLKNYDPQ+DKRFSGS+KLP+ PR
Sbjct: 1 MSKITSSQVREHVKELLKYSNETKKRNFLETVELQVGLKNYDPQRDKRFSGSLKLPNCPR 60
Query: 61 PKMKVCMLGDAQHVEEAEKIGLDYMDVEGXXXXXXXXXXXXXXXXXYHAFLASESVIKQI 120
P M +C+ GDA V+ A+ G+D M V+ Y+AF+ASE +IKQ+
Sbjct: 61 PNMSICIFGDAFDVDRAKSCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIASEVLIKQV 120
Query: 121 PRLLGPGLNKAGKKVPYP 138
PRLLGP L+KAG K P P
Sbjct: 121 PRLLGPQLSKAG-KFPTP 137
>pdb|2NOQ|G Chain G, Structure Of Ribosome-Bound Cricket Paralysis Virus Ires
Rna
pdb|3JYW|A Chain A, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
pdb|3J0L|B Chain B, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas
Fitted To A 9.8a Cryo-Em Map: Classic Pre State 1
pdb|3J0O|B Chain B, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas
Fitted To A 9a Cryo-Em Map: Classic Pre State 2
pdb|3J0P|B Chain B, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas
Fitted To A 10.6a Cryo-Em Map: Rotated Pre State 1
pdb|3J0Q|B Chain B, Core Of Mammalian 80s Pre-Ribosome In Complex With Trnas
Fitted To A 10.6a Cryo-Em Map: Rotated Pre State 2
Length = 213
Score = 150 bits (378), Expect = 3e-37, Method: Compositional matrix adjust.
Identities = 72/135 (53%), Positives = 93/135 (68%), Gaps = 1/135 (0%)
Query: 4 LQSDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKM 63
+ S +RE V +++YS ETKKRNF ET+ELQ+GLKNYDPQ+DKRFSGS+KLP+ PRP M
Sbjct: 1 ITSSQVREHVKELLKYSNETKKRNFLETVELQVGLKNYDPQRDKRFSGSLKLPNCPRPNM 60
Query: 64 KVCMLGDAQHVEEAEKIGLDYMDVEGXXXXXXXXXXXXXXXXXYHAFLASESVIKQIPRL 123
+C+ GDA V+ A+ G+D M V+ Y+AF+ASE +IKQ+PRL
Sbjct: 61 SICIFGDAFDVDRAKSCGVDAMSVDDLKKLNKNKKLIKKLSKKYNAFIASEVLIKQVPRL 120
Query: 124 LGPGLNKAGKKVPYP 138
LGP L+KAG K P P
Sbjct: 121 LGPQLSKAG-KFPTP 134
>pdb|3ZF7|J Chain J, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 214
Score = 121 bits (303), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 63/139 (45%), Positives = 87/139 (62%), Gaps = 4/139 (2%)
Query: 1 MSKLQSDALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPR 60
MSK+ L EA+ +++ K+ K+R F E+I+LQ+ LKNYDPQKDKRFSGSV+LPH+ R
Sbjct: 1 MSKIPPALLSEAIQNVL---KDRKERKFKESIDLQVNLKNYDPQKDKRFSGSVRLPHVCR 57
Query: 61 PKMKVCMLGDAQHVEEAEKIGLDYMDVEGXXXXXXXXXXXXXXXXXYHAFLASESVIKQI 120
P+M VC+L D H + A+K + M+ E Y AFL SES+IK +
Sbjct: 58 PRMTVCLLCDLVHEDIAKKNDVPTMNQEELKKLNKNKKLVKKMCNQYDAFLCSESIIKTV 117
Query: 121 PRLLGPGLNKAGKKVPYPC 139
PRL+GP +++ G K P C
Sbjct: 118 PRLVGPHMHRVG-KFPTVC 135
>pdb|3J21|A Chain A, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 216
Score = 52.0 bits (123), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 31/114 (27%), Positives = 53/114 (46%), Gaps = 1/114 (0%)
Query: 13 VSSIVQYSKETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDA 71
V ++ + K RNFT+++E+ + LK+ D ++ + RF V LPH +K+ ++ D
Sbjct: 9 VKAVKEAKARAKPRNFTQSVEVAVNLKDIDLKRPENRFKLEVVLPHGRGKDVKIAVIADG 68
Query: 72 QHVEEAEKIGLDYMDVEGXXXXXXXXXXXXXXXXXYHAFLASESVIKQIPRLLG 125
E A K+GLD + Y F+A ++ +I R LG
Sbjct: 69 AVAEAARKLGLDVISSAELEEIASSPRQARKLAKKYDFFIAEAPLMPKIGRYLG 122
>pdb|3QOY|A Chain A, Crystal Structure Of Ribosomal Protein L1 From Aquifex
Aeolicus
Length = 242
Score = 45.8 bits (107), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 29/78 (37%), Positives = 47/78 (60%), Gaps = 3/78 (3%)
Query: 9 LREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQ-KDKRFSGSVKLPHIPRPKMKVCM 67
L EAV +++ +E +R F ET+EL + L N DP+ D+ GSV LPH +KV +
Sbjct: 23 LEEAVD-LLKKMEEVLQRRFDETVELAMRL-NVDPRYADQMVRGSVVLPHGLGKPIKVVV 80
Query: 68 LGDAQHVEEAEKIGLDYM 85
+ ++ ++AE+ G DY+
Sbjct: 81 FAEGEYAKKAEEAGADYV 98
>pdb|1CJS|A Chain A, Crystal Structure Of Ribosomal Protein L1 From
Methanococcus Jannaschii
pdb|1I2A|A Chain A, Crystal Structure Of L1 Ribosomal Protein From
Methanococcus Jannaschii With 1.85a Resolution
Length = 219
Score = 45.4 bits (106), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 60/132 (45%), Gaps = 3/132 (2%)
Query: 10 REAVSSIVQYSKETKK-RNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCM 67
REA+ V+ ++E K RNFT++ E LK D +K + R V LPH + K+ +
Sbjct: 3 REALLQAVKEARELAKPRNFTQSFEFIATLKEIDMRKPENRIKTEVVLPHGRGKEAKIAV 62
Query: 68 LGDAQHVEEAEKIGLDYMDVEGXXXXXXXXXXXXXXXXXYHAFLASESVIKQIPRLLGPG 127
+G ++AE++GL + E + F+A ++ I R +G
Sbjct: 63 IGTGDLAKQAEELGLTVIRKEEIEELGKNKRKLRKIAKAHDFFIAQADLMPLIGRYMGVI 122
Query: 128 LNKAGKKVPYPC 139
L G K+P P
Sbjct: 123 LGPRG-KMPKPV 133
>pdb|1U63|A Chain A, The Structure Of A Ribosomal Protein L1-Mrna Complex
pdb|1U63|C Chain C, The Structure Of A Ribosomal Protein L1-Mrna Complex
Length = 219
Score = 42.7 bits (99), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 37/132 (28%), Positives = 57/132 (43%), Gaps = 3/132 (2%)
Query: 10 REAVSSIVQYSKETKK-RNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCM 67
REA+ V+ ++E K RNFT++ E LK D +K + R V LPH + K+ +
Sbjct: 3 REALLQAVKEARELAKPRNFTQSFEFIATLKEIDXRKPENRIKTEVVLPHGRGKEAKIAV 62
Query: 68 LGDAQHVEEAEKIGLDYMDVEGXXXXXXXXXXXXXXXXXYHAFLASESVIKQIPRLLGPG 127
+G ++AE++GL + E + F+A + I R G
Sbjct: 63 IGTGDLAKQAEELGLTVIRKEEIEELGKNKRKLRKIAKAHDFFIAQADLXPLIGRYXGVI 122
Query: 128 LNKAGKKVPYPC 139
L GK P P
Sbjct: 123 LGPRGKX-PKPV 133
>pdb|2J01|C Chain C, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 2 Of
4). This File Contains The 50s Subunit From Molecule I.
pdb|2J03|C Chain C, Structure Of The Thermus Thermophilus 70s Ribosome
Complexed With Mrna, Trna And Paromomycin (Part 4 Of
4). This File Contains The 50s Subunit From Molecule
Ii.
pdb|2V47|C Chain C, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe
And Trna-Fmet (Part 2 Of 4). This File Contains The 50s
Subunit For Molecule 1.
pdb|2OM7|K Chain K, Structural Basis For Interaction Of The Ribosome With
The Switch Regions Of Gtp-Bound Elongation Factors
pdb|2WDI|C Chain C, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 50s Subunit For Molecule I.
pdb|2WDJ|C Chain C, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A-Site Trna,
Deacylated P-Site Trna, And E-Site Trna. This File
Contains The 50s Subunit For Molecule Ii.
pdb|2WDL|C Chain C, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 50s
Subunit For Molecule I.
pdb|2WDN|C Chain C, Structure Of The Thermus Thermophilus 70s Ribosome In
Complex With Mrna, Paromomycin, Acylated A- And P-Site
Trnas, And E-Site Trna. This File Contains The 50s
Subunit For Molecule Ii.
pdb|2WH2|C Chain C, Insights Into Translational Termination From The
Structure Of Rf2 Bound To The Ribosome
pdb|2WH4|C Chain C, Insights Into Translational Termination From The
Structure Of Rf2 Bound To The Ribosome
pdb|3HUX|C Chain C, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule I.
pdb|3HUZ|C Chain C, Structure Of Ef-P Bound To The 70s Ribosome; This File
Contains The 50s Subunit For Molecule Ii.
pdb|2WRJ|C Chain C, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State (Part 2 Of
4).
pdb|2WRL|C Chain C, The Structure Of The Ribosome With Elongation Factor G
Trapped In The Post-Translocational State. (Part 4 Of
4).
pdb|2WRO|C Chain C, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 2 Of 4).
pdb|2WRR|C Chain C, The Crystal Structure Of The 70s Ribosome Bound To Ef-Tu
And Trna (Part 4 Of 4).
pdb|3KIR|C Chain C, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 2 Of 4)
pdb|3KIT|C Chain C, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Precleavage State; Part 4 Of 4)
pdb|3KIW|C Chain C, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 2 Of 4)
pdb|3KIY|C Chain C, Structure Of Rele Nuclease Bound To The 70s Ribosome
(Postcleavage State; Part 4 Of 4)
pdb|3KNI|C Chain C, The Structures Of Viomycin Bound To The 70s Ribosome.
This File Contains The 50s Subunit For Molecule I
pdb|3KNK|C Chain C, The Structures Of Viomycin Bound To The 70s Ribosome.
This File Contains The 50s Subunit For Molecule Ii.
pdb|3KNM|C Chain C, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule I.
pdb|3KNO|C Chain C, The Structures Of Capreomycin Bound To The 70s Ribosome.
Thi Contains The 50s Subunit For Molecule Ii
pdb|2X9S|C Chain C, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2X9U|C Chain C, Structure Of The 70s Ribosome Bound To Release Factor 2
And A Substrate Analog Provides Insights Into Catalysis
Of Peptide Release
pdb|2XG0|C Chain C, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 2 Of 4)
pdb|2XG2|C Chain C, Structure Of Cytotoxic Domain Of Colicin E3 Bound To The
70s Ribosome (Part 4 Of 4)
pdb|2XQE|C Chain C, The Structure Of Ef-Tu And Aminoacyl-Trna Bound To The
70s Ribosome With A Gtp Analog
pdb|2XTG|C Chain C, Trna Tranlocation On The 70s Ribosome: The Pre-
Translocational Translocation Intermediate Ti(Pre)
pdb|2XUX|C Chain C, Trna Translocation On The 70s Ribosome: The Post-
Translocational Translocation Intermediate Ti(Post)
pdb|2Y0V|C Chain C, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y0X|C Chain C, The Crystal Structure Of Ef-Tu And A9c-Trna-Trp Bound To
A Near-Cognate Codon On The 70s Ribosome
pdb|2Y0Z|C Chain C, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound
To A Near-Cognate Codon On The 70s Ribosome
pdb|2Y11|C Chain C, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome.
pdb|2Y13|C Chain C, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound
To A Near-Cognate Codon On The 70s Ribosome
pdb|2Y15|C Chain C, The Crystal Structure Of Ef-Tu And G24a-Trna-Trp Bound
To A Cognate Codon On The 70s Ribosome.
pdb|2Y17|C Chain C, Ef-Tu Complex 3
pdb|2Y19|C Chain C, The Crystal Structure Of Ef-Tu And Trp-Trna-Trp Bound To
A Cognate Codon On The 70s Ribosome
Length = 229
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 13 VSSIVQYSKETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDA 71
+ + KE F ET+E+ L DP++ D+ G+V LPH +++V +
Sbjct: 23 IDEAARLVKELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKG 81
Query: 72 QHVEEAEKIGLDYMDVE 88
+ ++EAE+ G DY+ E
Sbjct: 82 EKIKEAEEAGADYVGGE 98
>pdb|3UMY|A Chain A, Crystal Structure Of Mutant Ribosomal Protein T217a
Tthl1 In Complex With 80nt 23s Rna From Thermus
Thermophilus
Length = 228
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEK 79
KE F ET+E+ L DP++ D+ G+V LPH +++V + + ++EAE+
Sbjct: 30 KELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEE 88
Query: 80 IGLDYMDVE 88
G DY+ E
Sbjct: 89 AGADYVGGE 97
>pdb|1GIY|C Chain C, Crystal Structure Of The Ribosome At 5.5 A Resolution.
This File, 1giy, Contains The 50s Ribosome Subunit. The
30s Ribosome Subunit, Three Trna, And Mrna Molecules
Are In The File 1gix
pdb|1ML5|CC Chain c, Structure Of The E. Coli Ribosomal Termination Complex
With Release Factor 2
pdb|1YL3|C Chain C, Crystal Structure Of 70s Ribosome With Thrs Operator And
Trnas. Large Subunit. The Coordinates For The Small
Subunit Are In The Pdb Entry 1yl4
Length = 228
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEK 79
KE F ET+E+ L DP++ D+ G+V LPH +++V + + ++EAE+
Sbjct: 30 KELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEE 88
Query: 80 IGLDYMDVE 88
G DY+ E
Sbjct: 89 AGADYVGGE 97
>pdb|1ZHO|A Chain A, The Structure Of A Ribosomal Protein L1 In Complex With
Mrna
pdb|1ZHO|C Chain C, The Structure Of A Ribosomal Protein L1 In Complex With
Mrna
pdb|1ZHO|E Chain E, The Structure Of A Ribosomal Protein L1 In Complex With
Mrna
pdb|1ZHO|G Chain G, The Structure Of A Ribosomal Protein L1 In Complex With
Mrna
Length = 228
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEK 79
KE F ET+E+ L DP++ D+ G+V LPH +++V + + ++EAE+
Sbjct: 30 KELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEE 88
Query: 80 IGLDYMDVE 88
G DY+ E
Sbjct: 89 AGADYVGGE 97
>pdb|4F9T|A Chain A, Ribosomal Protein L1 From Thermus Thermophilus With
Substitution Thr217ala
Length = 229
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEK 79
KE F ET+E+ L DP++ D+ G+V LPH +++V + + ++EAE+
Sbjct: 31 KELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEE 89
Query: 80 IGLDYMDVE 88
G DY+ E
Sbjct: 90 AGADYVGGE 98
>pdb|2V49|C Chain C, Structure Of The Ribosome Recycling Factor Bound To The
Thermus Thermophilus 70s Ribosome With Mrna, Asl-Phe
And Trna-Fmet (Part 4 Of 4). This File Contains The 50s
Subunit Of Molecule 2
Length = 229
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 40/77 (51%), Gaps = 2/77 (2%)
Query: 13 VSSIVQYSKETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDA 71
+ + KE F ET+E+ L DP++ D+ G+V LPH +++V +
Sbjct: 23 IDEAARLVKELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKG 81
Query: 72 QHVEEAEKIGLDYMDVE 88
+ ++EAE+ G DY+ E
Sbjct: 82 EKIKEAEEAGADYVGGE 98
>pdb|2HW8|A Chain A, Structure Of Ribosomal Protein L1-Mrna Complex At 2.1
Resolution
Length = 228
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEK 79
KE F ET+E+ L DP++ D+ G+V LPH +++V + + ++EAE+
Sbjct: 30 KELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEE 88
Query: 80 IGLDYMDVE 88
G DY+ E
Sbjct: 89 AGADYVGGE 97
>pdb|3U42|A Chain A, Mutant Ribosomal Protein L1 From Thermus Thermophilus
With Threonine 217 Replaced By Valine
pdb|3U56|A Chain A, Crystal Structure Of Mutant Ribosomal Protein T217v
Tthl1 In Complex With 80nt 23s Rna From Thermus
Thermophilus
Length = 229
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEK 79
KE F ET+E+ L DP++ D+ G+V LPH +++V + + ++EAE+
Sbjct: 31 KELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEE 89
Query: 80 IGLDYMDVE 88
G DY+ E
Sbjct: 90 AGADYVGGE 98
>pdb|1EG0|N Chain N, Fitting Of Components With Known Structure Into An 11.5
A Cryo-Em Map Of The E.Coli 70s Ribosome
pdb|2HGJ|C Chain C, Crystal Structure Of The 70s Thermus Thermophilus
Ribosome Showing How The 16s 3'-End Mimicks Mrna E And
P Codons. This Entry 2hgj Contains 50s Ribosomal
Subunit. The 30s Ribosomal Subunit Can Be Found In Pdb
Entry 2hgi.
pdb|2HGQ|C Chain C, Crystal Structure Of The 70s Thermus Thermophilus
Ribosome With Translocated And Rotated Shine-Dalgarno
Duplex. This Entry 2hgq Contains 50s Ribosomal Subunit.
The 30s Ribosomal Subunit Can Be Found In Pdb Entry
2hgp.
pdb|2HGU|C Chain C, 70s T.Th. Ribosome Functional Complex With Mrna And E-
And P-Site Trnas At 4.5a. This Entry 2hgu Contains 50s
Ribosomal Subunit. The 30s Ribosomal Subunit Can Be
Found In Pdb Entry 2hgr.
pdb|1VSA|A Chain A, Crystal Structure Of A 70s Ribosome-Trna Complex Reveals
Functional Interactions And Rearrangements. This File,
1vsa, Contains The 50s Ribosome Subunit. 30s Ribosome
Subunit Is In The File 2ow8
pdb|1VSP|A Chain A, Interactions And Dynamics Of The Shine-Dalgarno Helix In
The 70s Ribosome. This File, 1vsp, Contains The 50s
Ribosome Subunit. 30s Ribosome Subunit Is In The File
2qnh
pdb|3U4M|A Chain A, Crystal Structure Of Ribosomal Protein Tthl1 In Complex
With 80nt 23s Rna From Thermus Thermophilus
Length = 229
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEK 79
KE F ET+E+ L DP++ D+ G+V LPH +++V + + ++EAE+
Sbjct: 31 KELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEE 89
Query: 80 IGLDYMDVE 88
G DY+ E
Sbjct: 90 AGADYVGGE 98
>pdb|3ZVP|C Chain C, Crystal Structure Of The Hybrid State Of Ribosome In
Complex With The Guanosine Triphosphatase Release
Factor 3
pdb|4ABS|C Chain C, Complex Of Smpb, A Tmrna Fragment And
Ef-Tu-Gdp-Kirromycin With The 70s Ribosome
Length = 229
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEK 79
KE F ET+E+ L DP++ D+ G+V LPH +++V + + ++EAE+
Sbjct: 31 KELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEE 89
Query: 80 IGLDYMDVE 88
G DY+ E
Sbjct: 90 AGADYVGGE 98
>pdb|3TG8|A Chain A, Mutant Ribosomal Protein L1 Lacking Ala158 From Thermus
Thermophilus
Length = 228
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEK 79
KE F ET+E+ L DP++ D+ G+V LPH +++V + + ++EAE+
Sbjct: 31 KELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEE 89
Query: 80 IGLDYMDVE 88
G DY+ E
Sbjct: 90 AGADYVGGE 98
>pdb|487D|H Chain H, Seven Ribosomal Proteins Fitted To A Cryo-Electron
Microscopic Map Of The Large 50s Subunit At 7.5
Angstroms Resolution
Length = 224
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEK 79
KE F ET+E+ L DP++ D+ G+V LPH +++V + + ++EAE+
Sbjct: 26 KELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEE 84
Query: 80 IGLDYMDVE 88
G DY+ E
Sbjct: 85 AGADYVGGE 93
>pdb|1AD2|A Chain A, Ribosomal Protein L1 Mutant With Serine 179 Replaced By
Cysteine
Length = 228
Score = 40.4 bits (93), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 38/69 (55%), Gaps = 2/69 (2%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEK 79
KE F ET+E+ L DP++ D+ G+V LPH +++V + + ++EAE+
Sbjct: 30 KELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEE 88
Query: 80 IGLDYMDVE 88
G DY+ E
Sbjct: 89 AGADYVGGE 97
>pdb|3FIN|C Chain C, T. Thermophilus 70s Ribosome In Complex With Mrna, Trnas
And Ef- Tu.Gdp.Kirromycin Ternary Complex, Fitted To A
6.4 A Cryo-Em Map. This File Contains The 50s Subunit
Length = 191
Score = 39.3 bits (90), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 33/108 (30%), Positives = 54/108 (50%), Gaps = 14/108 (12%)
Query: 28 FTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVCMLGDAQHVEEAEKIGLDYMD 86
F ET+E+ L DP++ D+ G+V LPH +++V + + ++EAE+ G DY+
Sbjct: 14 FDETVEVHAKL-GIDPRRSDQNVRGTVSLPHGLGKQVRVLAIAKGEKIKEAEEAGADYVG 72
Query: 87 VEGXXXXXXXXXXXXXXXXXYHAFLASESVIKQIPRLLGP-GLN-KAG 132
E + F+ +V ++ R+LGP GLN KAG
Sbjct: 73 GE---------EIIQKILDGWMDFVMG-AVGSKLGRILGPRGLNPKAG 110
>pdb|2ZKR|5 Chain 5, Structure Of A Mammalian Ribosomal 60s Subunit Within An
80s Complex Obtained By Docking Homology Models Of The
Rna And Proteins Into An 8.7 A Cryo-Em Map
Length = 212
Score = 38.9 bits (89), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/133 (22%), Positives = 58/133 (43%), Gaps = 2/133 (1%)
Query: 8 ALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKVC 66
A +E +++ + ++ +RNF ET++L + L++ D R SV LP + +
Sbjct: 2 ADQEIENAVSRALEDAPERNFRETVDLAVNLRDLDLNDPSNRVDESVVLPAGTGQETTIV 61
Query: 67 MLGDAQHVEEAEKIGLDYMDVEGXXXXXXXXXXXXXXXXXYHAFLASESVIKQIPRLLGP 126
+ + + AE++ D +D + F+A + +++ I R LG
Sbjct: 62 VFAEGETALRAEEVADDVLDEDELEELGGDDDAAKDLADDTDFFIAEKGLMQDIGRYLGT 121
Query: 127 GLNKAGKKVPYPC 139
L G K+P P
Sbjct: 122 VLGPRG-KMPEPL 133
>pdb|3E1B|Z Chain Z, Structure Of The 50s Subunit Of E. Coli Ribosome In
Pre-Accommodation State
pdb|3E1D|Z Chain Z, Structure Of The 50s Subunit Of E. Coli Ribosome In
Post-Accommodation State
Length = 213
Score = 34.3 bits (77), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 42/73 (57%), Gaps = 5/73 (6%)
Query: 7 DALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMKVC 66
+AL+ A+S+ +Y+ KRNFT+++E+ + K D + D + V LP P +V
Sbjct: 10 EALKLALST--EYNV---KRNFTQSVEIILTFKGIDKKGDLKLREIVPLPKQPSKAKRVL 64
Query: 67 MLGDAQHVEEAEK 79
++ ++ +E A+K
Sbjct: 65 VVPSSEQLEYAKK 77
>pdb|1MZP|A Chain A, Structure Of The L1 Protuberance In The Ribosome
pdb|1PNU|5 Chain 5, Crystal Structure Of A Streptomycin Dependent Ribosome
From Escherichia Coli, 50s Subunit Of 70s Ribosome. This
File, 1pnu, Contains Only Molecules Of The 50s Ribosomal
Subunit. The 30s Subunit, Mrna, P-Site Trna, And A-Site
Trna Are In The Pdb File 1pns.
pdb|1PNY|5 Chain 5, Crystal Structure Of The Wild Type Ribosome From E. Coli,
50s Subunit Of 70s Ribosome. This File, 1pny, Contains
Only Molecules Of The 50s Ribosomal Subunit. The 30s
Subunit Is In The Pdb File 1pnx.
pdb|1VOR|7 Chain 7, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOU|7 Chain 7, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOW|7 Chain 7, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VOY|7 Chain 7, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400.
pdb|1VP0|7 Chain 7, Crystal Structure Of Five 70s Ribosomes From Escherichia
Coli In Complex With Protein Y. This File Contains The
50s Subunit Of One 70s Ribosome. The Entire Crystal
Structure Contains Five 70s Ribosomes And Is Described
In Remark 400
Length = 217
Score = 32.3 bits (72), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 35/135 (25%), Positives = 59/135 (43%), Gaps = 8/135 (5%)
Query: 7 DALREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPHIPRPKMKV 65
+AL+ A+S+ +Y+ KRNFT+++E+ + K D +K D + V LP P +V
Sbjct: 10 EALKLALST--EYNV---KRNFTQSVEIILTFKGIDXKKGDLKLREIVPLPKQPSKAKRV 64
Query: 66 CMLGDAQHVEEAEKIGLDYMDV-EGXXXXXXXXXXXXXXXXXYHAFLASESVIKQIPRLL 124
++ ++ +E A+K + E FL ++ R+L
Sbjct: 65 LVVPSSEQLEYAKKASPKVVITREELQKLQGQKRPVKKLARQNEWFLINQESXALAGRIL 124
Query: 125 GPGLNKAGKKVPYPC 139
GP L G K P P
Sbjct: 125 GPALGPRG-KFPTPL 138
>pdb|3BBO|D Chain D, Homology Model For The Spinach Chloroplast 50s Subunit
Fitted To 9.4a Cryo-Em Map Of The 70s Chlororibosome
Length = 352
Score = 32.0 bits (71), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 6/81 (7%)
Query: 9 LREAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQ-KDKRFSGSVKLPHIPRPKMKVCM 67
L+ A+S + Q S F ET E L N DP+ D++ +V LP +K+ +
Sbjct: 137 LKTALSLMKQMSST----KFVETAEAHFRL-NIDPKYNDQQLRATVSLPKGTGKTVKIAV 191
Query: 68 LGDAQHVEEAEKIGLDYMDVE 88
L ++EA+ G D + E
Sbjct: 192 LAQGDKIDEAKAAGADIVGGE 212
>pdb|3H9Y|A Chain A, Crystal Structure Of The Ige-Fc3-4 Domains
pdb|3H9Y|B Chain B, Crystal Structure Of The Ige-Fc3-4 Domains
pdb|3H9Y|E Chain E, Crystal Structure Of The Ige-Fc3-4 Domains
pdb|3H9Z|A Chain A, Crystal Structure Of The Ige-Fc3-4 Domains
pdb|3H9Z|B Chain B, Crystal Structure Of The Ige-Fc3-4 Domains
pdb|3H9Z|C Chain C, Crystal Structure Of The Ige-Fc3-4 Domains
pdb|3H9Z|D Chain D, Crystal Structure Of The Ige-Fc3-4 Domains
pdb|3HA0|A Chain A, Crystal Structure Of The Ige-Fc3-4 Domains
pdb|3HA0|B Chain B, Crystal Structure Of The Ige-Fc3-4 Domains
pdb|3HA0|C Chain C, Crystal Structure Of The Ige-Fc3-4 Domains
pdb|3HA0|D Chain D, Crystal Structure Of The Ige-Fc3-4 Domains
pdb|3HA0|E Chain E, Crystal Structure Of The Ige-Fc3-4 Domains
pdb|3HA0|F Chain F, Crystal Structure Of The Ige-Fc3-4 Domains
pdb|4EZM|A Chain A, Crystal Structure Of The Human Ige-Fc(Epsilon)3-4 Bound To
Its B Cell Receptor Dercd23
pdb|4EZM|B Chain B, Crystal Structure Of The Human Ige-Fc(Epsilon)3-4 Bound To
Its B Cell Receptor Dercd23
pdb|4EZM|C Chain C, Crystal Structure Of The Human Ige-Fc(Epsilon)3-4 Bound To
Its B Cell Receptor Dercd23
pdb|4EZM|D Chain D, Crystal Structure Of The Human Ige-Fc(Epsilon)3-4 Bound To
Its B Cell Receptor Dercd23
pdb|4EZM|E Chain E, Crystal Structure Of The Human Ige-Fc(Epsilon)3-4 Bound To
Its B Cell Receptor Dercd23
pdb|4EZM|F Chain F, Crystal Structure Of The Human Ige-Fc(Epsilon)3-4 Bound To
Its B Cell Receptor Dercd23
Length = 223
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 27/50 (54%), Gaps = 2/50 (4%)
Query: 17 VQYS--KETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMK 64
VQ+S KE K+RN T T+ + + D + + + V PH+PR M+
Sbjct: 58 VQHSTRKEEKQRNGTLTVTSTLPVGTRDWIEGETYQCRVTHPHLPRALMR 107
>pdb|4B4T|N Chain N, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 945
Score = 27.7 bits (60), Expect = 2.9, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 20/35 (57%)
Query: 11 EAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK 45
EA+ + YS+ET+ N T + + + L NY Q+
Sbjct: 496 EAIHDMFTYSQETQHGNITRGLAVGLALINYGRQE 530
>pdb|1O0V|A Chain A, The Crystal Structure Of Ige Fc Reveals An Asymmetrically
Bent Conformation
pdb|1O0V|B Chain B, The Crystal Structure Of Ige Fc Reveals An Asymmetrically
Bent Conformation
Length = 327
Score = 27.3 bits (59), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMK 64
KE K+RN T T+ + + D + + + V PH+PR M+
Sbjct: 168 KEEKQRNGTLTVTSTLPVGTRDWIEGETYQCRVTHPHLPRALMR 211
>pdb|2WQR|A Chain A, The High Resolution Crystal Structure Of Ige Fc
pdb|2WQR|B Chain B, The High Resolution Crystal Structure Of Ige Fc
Length = 323
Score = 27.3 bits (59), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMK 64
KE K+RN T T+ + + D + + + V PH+PR M+
Sbjct: 165 KEEKQRNGTLTVTSTLPVGTRDWIEGETYQCRVTHPHLPRALMR 208
>pdb|2Y7Q|B Chain B, The High-Affinity Complex Between Ige And Its Receptor Fc
Epsilon Ri
pdb|2Y7Q|D Chain D, The High-Affinity Complex Between Ige And Its Receptor Fc
Epsilon Ri
Length = 327
Score = 27.3 bits (59), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMK 64
KE K+RN T T+ + + D + + + V PH+PR M+
Sbjct: 168 KEEKQRNGTLTVTSTLPVGTRDWIEGETYQCRVTHPHLPRALMR 211
>pdb|4GT7|A Chain A, An Engineered Disulfide Bond Reversibly Traps The
Ige-Fc3-4 In A Closed, Non-Receptor Binding Conformation
pdb|4GT7|B Chain B, An Engineered Disulfide Bond Reversibly Traps The
Ige-Fc3-4 In A Closed, Non-Receptor Binding Conformation
pdb|4GT7|C Chain C, An Engineered Disulfide Bond Reversibly Traps The
Ige-Fc3-4 In A Closed, Non-Receptor Binding Conformation
pdb|4GT7|D Chain D, An Engineered Disulfide Bond Reversibly Traps The
Ige-Fc3-4 In A Closed, Non-Receptor Binding Conformation
Length = 221
Score = 26.9 bits (58), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMK 64
KE K+RN T T+ + + D + + + V PH+PR M+
Sbjct: 64 KEEKQRNGTLTVTSTLPVGTRDWIEGETYQCRVTHPHLPRALMR 107
>pdb|1F6A|B Chain B, Structure Of The Human Ige-Fc Bound To Its High Affinity
Receptor Fc(Epsilon)ri(Alpha)
pdb|1F6A|D Chain D, Structure Of The Human Ige-Fc Bound To Its High Affinity
Receptor Fc(Epsilon)ri(Alpha)
pdb|1FP5|A Chain A, Crystal Structure Analysis Of The Human Ige-Fc Cepsilon3-
Cepsilon4 Fragment
Length = 222
Score = 26.9 bits (58), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMK 64
KE K+RN T T+ + + D + + + V PH+PR M+
Sbjct: 63 KEEKQRNGTLTVTSTLPVGTRDWIEGETYQCRVTHPHLPRALMR 106
>pdb|4GRG|C Chain C, Crystal Structure Of Ige Complexed With E2_79, An Anti-Ige
Inhibitor
pdb|4GRG|D Chain D, Crystal Structure Of Ige Complexed With E2_79, An Anti-Ige
Inhibitor
Length = 230
Score = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 23/44 (52%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPRPKMK 64
KE K+RN T T+ + + D + + + V PH+PR M+
Sbjct: 64 KEEKQRNGTLTVTSTLPVGTRDWIEGETYQCRVTHPHLPRALMR 107
>pdb|2OV7|A Chain A, The First Domain Of The Ribosomal Protein L1 From
Thermus Thermophilus
pdb|2OV7|B Chain B, The First Domain Of The Ribosomal Protein L1 From
Thermus Thermophilus
pdb|2OV7|C Chain C, The First Domain Of The Ribosomal Protein L1 From
Thermus Thermophilus
pdb|2OUM|A Chain A, The First Domain Of L1 From Thermus Thermophilus
pdb|2VPL|A Chain A, The Structure Of The Complex Between The First Domain Of
L1 Protein From Thermus Thermophilus And Mrna From
Methanococcus Jannaschii
pdb|2VPL|C Chain C, The Structure Of The Complex Between The First Domain Of
L1 Protein From Thermus Thermophilus And Mrna From
Methanococcus Jannaschii
Length = 137
Score = 26.6 bits (57), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 21 KETKKRNFTETIELQIGLKNYDPQK-DKRFSGSVKLPH 57
KE F ET+E+ L DP++ D+ G+V LPH
Sbjct: 30 KELATAKFDETVEVHAKL-GIDPRRSDQNVRGTVSLPH 66
>pdb|4ADY|A Chain A, Crystal Structure Of 26s Proteasome Subunit Rpn2
pdb|4ADY|B Chain B, Crystal Structure Of 26s Proteasome Subunit Rpn2
Length = 963
Score = 26.6 bits (57), Expect = 6.2, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 11 EAVSSIVQYSKETKKRNFTETIELQIGLKNYDPQK 45
EA+ YS+ET+ N T + + + L NY Q+
Sbjct: 507 EAIHDXFTYSQETQHGNITRGLAVGLALINYGRQE 541
>pdb|2RDO|9 Chain 9, 50s Subunit With Ef-G(Gdpnp) And Rrf Bound
Length = 233
Score = 26.2 bits (56), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 29/68 (42%), Gaps = 8/68 (11%)
Query: 9 LREAVSSIVQYS--------KETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPR 60
+RE V + QY KE F E++++ + L + D+ G+ LPH
Sbjct: 10 IREKVDATKQYDINEAIALLKELATAKFVESVDVAVNLGIDARKSDQNVRGATVLPHGTG 69
Query: 61 PKMKVCML 68
++V +
Sbjct: 70 RSVRVAVF 77
>pdb|2GYA|2 Chain 2, Structure Of The 50s Subunit Of A Pre-Translocational E.
Coli Ribosome Obtained By Fitting Atomic Models For Rna
And Protein Components Into Cryo-Em Map Emd-1056
pdb|2GYC|2 Chain 2, Structure Of The 50s Subunit Of A Secm-Stalled E. Coli
Ribosome Complex Obtained By Fitting Atomic Models For
Rna And Protein Components Into Cryo-Em Map Emd-1143
Length = 222
Score = 25.8 bits (55), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 29/68 (42%), Gaps = 8/68 (11%)
Query: 9 LREAVSSIVQYS--------KETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPR 60
+RE V + QY KE F E++++ + L + D+ G+ LPH
Sbjct: 6 IREKVDATKQYDINEAIALLKELATAKFVESVDVAVNLGIDARKSDQNVRGATVLPHGTG 65
Query: 61 PKMKVCML 68
++V +
Sbjct: 66 RSVRVAVF 73
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 25.8 bits (55), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 128 LNKAGKKVPYPCYSPRIPGVQSQRD 152
+NK+G K+P P IP + S RD
Sbjct: 71 VNKSGYKIPTPIQKCSIPVISSGRD 95
>pdb|3FIK|5 Chain 5, Ternary Complex-Bound E.Coli 70s Ribosome. This Entry
Consists Of The 50s Subunit.
pdb|3KCR|5 Chain 5, Ribosome-Secy Complex. This Entry 3kcr Contains 50s
Ribosomal Subnit. The 30s Ribosomal Subunit Can Be
Found In Pdb Entry 3kc4
pdb|2WWQ|5 Chain 5, E.Coli 70s Ribosome Stalled During Translation Of Tnac
Leader Peptide. This File Contains The 50s, The P-Site
Trna And The Tnac Leader Peptide (Part 2 Of 2).
pdb|3IZT|C Chain C, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A
Near-Cognate Codon.
pdb|3IZU|C Chain C, Structural Insights Into Cognate Vs. Near-Cognate
Discrimination During Decoding. This Entry Contains The
Large Subunit Of A Ribosome Programmed With A Cognate
Codon
pdb|3J01|5 Chain 5, Structure Of The Ribosome-Secye Complex In The Membrane
Environment
pdb|3J0T|C Chain C, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class2 Of The Six
Classes)
pdb|3J0W|C Chain C, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4a Of The Six
Classes)
pdb|3J0Y|C Chain C, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 4b Of The Six
Classes)
pdb|3J11|C Chain C, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 3 Of The Six
Classes)
pdb|3J12|C Chain C, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 5 Of The Six
Classes)
pdb|3J14|C Chain C, Structural Characterization Of Mrna-Trna Translocation
Intermediates (50s Ribosome Of Class 6 Of The Six
Classes)
Length = 234
Score = 25.8 bits (55), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 16/68 (23%), Positives = 29/68 (42%), Gaps = 8/68 (11%)
Query: 9 LREAVSSIVQYS--------KETKKRNFTETIELQIGLKNYDPQKDKRFSGSVKLPHIPR 60
+RE V + QY KE F E++++ + L + D+ G+ LPH
Sbjct: 11 IREKVDATKQYDINEAIALLKELATAKFVESVDVAVNLGIDARKSDQNVRGATVLPHGTG 70
Query: 61 PKMKVCML 68
++V +
Sbjct: 71 RSVRVAVF 78
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
0.315 0.134 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,802,576
Number of Sequences: 62578
Number of extensions: 126979
Number of successful extensions: 240
Number of sequences better than 100.0: 41
Number of HSP's better than 100.0 without gapping: 40
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 194
Number of HSP's gapped (non-prelim): 41
length of query: 152
length of database: 14,973,337
effective HSP length: 90
effective length of query: 62
effective length of database: 9,341,317
effective search space: 579161654
effective search space used: 579161654
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 47 (22.7 bits)