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= psy16564
(157 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ZEY|F Chain F, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 144
Score = 97.4 bits (241), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 52/118 (44%), Positives = 74/118 (62%), Gaps = 6/118 (5%)
Query: 22 DNVPS-ANDEGVSD-----INKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLAD 75
D VP A + V+D + AL+ VL AR +GL GL E +ALDRR A LCVLAD
Sbjct: 10 DKVPEPAVIDAVADAMPDSLEDALRIVLMKARETNGLICGLSEVTRALDRRTAHLCVLAD 69
Query: 76 NCDEPAYKKLVQALCSEHQIPLIKVDNNKKLGEWAGLSKLDNMGKARKVVGCSCVVIK 133
+C++ YKKLV AL ++ I L+ +D +KL +WAGL+++ G RK + CSC+ ++
Sbjct: 70 DCEDEEYKKLVTALAKQNNIDLVSMDEREKLAQWAGLTRMAADGSVRKTLKCSCLAVR 127
>pdb|3U5C|M Chain M, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome A
pdb|3U5G|M Chain M, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 40s
Subunit, Ribosome B
Length = 143
Score = 90.5 bits (223), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 49/91 (53%), Positives = 62/91 (68%), Gaps = 2/91 (2%)
Query: 35 INKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCS--E 92
I AL+ VL+TA HDGLA+GL E+ KAL R EA L VL + E KLV+ L + E
Sbjct: 24 IEDALKVVLRTALVHDGLARGLRESTKALTRGEALLVVLVSSVTEANIIKLVEGLANDPE 83
Query: 93 HQIPLIKVDNNKKLGEWAGLSKLDNMGKARK 123
+++PLIKV + K+LGEWAGL K+D G ARK
Sbjct: 84 NKVPLIKVADAKQLGEWAGLGKIDREGNARK 114
>pdb|2XZM|U Chain U, 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|U Chain U, 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 = 126
Score = 74.3 bits (181), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 34/99 (34%), Positives = 63/99 (63%)
Query: 35 INKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQ 94
+N+ L +V+K++ D ++KGLHE + ++ ++A +A++CD+ Y KLV+ALC++++
Sbjct: 8 LNEVLAKVIKSSNCQDAISKGLHEVLRTIEAKQALFVCVAEDCDQGNYVKLVKALCAKNE 67
Query: 95 IPLIKVDNNKKLGEWAGLSKLDNMGKARKVVGCSCVVIK 133
I + V LGE+ G + G+ +KV GCS + I+
Sbjct: 68 IKYVSVPKRASLGEYLGHFTANAKGEIKKVKGCSSLAIR 106
>pdb|2FC3|A Chain A, Crystal Structure Of The Extremely Thermostable Aeropyrum
Pernix L7ae Multifunctional Protein
Length = 124
Score = 54.7 bits (130), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 46/81 (56%)
Query: 33 SDINKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSE 92
D+ + + +K AR + KG +E KA++R A+L V+A++ D P + LC E
Sbjct: 10 EDLAEKAYEAVKRARETGRIKKGTNETTKAVERGLAKLVVIAEDVDPPEIVMHLPLLCDE 69
Query: 93 HQIPLIKVDNNKKLGEWAGLS 113
+IP + V + K+LGE AG+
Sbjct: 70 KKIPYVYVPSKKRLGEAAGIE 90
>pdb|1PXW|A Chain A, Crystal Structure Of L7ae Srnp Core Protein From
Pyrococcus Abyssii
pdb|1PXW|B Chain B, Crystal Structure Of L7ae Srnp Core Protein From
Pyrococcus Abyssii
Length = 128
Score = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 42/72 (58%), Gaps = 1/72 (1%)
Query: 36 NKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQI 95
KALQ V + AR + KG +E KA++R +A+L ++A++ D + LC E +I
Sbjct: 22 EKALQAV-EIARDTGKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEI 80
Query: 96 PLIKVDNNKKLG 107
P I V + K+LG
Sbjct: 81 PYIYVPSKKELG 92
>pdb|2CZW|A Chain A, Crystal Structure Analysis Of Protein Component Ph1496p Of
P.Horikoshii Ribonuclease P
Length = 124
Score = 47.4 bits (111), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 37/109 (33%), Positives = 57/109 (52%), Gaps = 9/109 (8%)
Query: 36 NKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQI 95
KALQ V + AR + KG +E KA++R +A+L ++A++ D + LC E +I
Sbjct: 18 EKALQAV-EIARDTGKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEI 76
Query: 96 PLIKVDNNKKLGEWAGLSK------LDNMGKARKVVGCSCVVIKVRNWF 138
P I V + K+LG AG+ + GKAR +V + +KVR
Sbjct: 77 PYIYVPSKKELGAAAGIEVAAASVAIIEPGKARDLV--EEIAMKVRELM 123
>pdb|3HJW|C Chain C, Structure Of A Functional Ribonucleoprotein Pseudouridine
Synthase Bound To A Substrate Rna
Length = 120
Score = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 42/72 (58%), Gaps = 1/72 (1%)
Query: 36 NKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQI 95
KALQ V + AR + KG +E KA++R +A+L ++A++ D + LC E +I
Sbjct: 15 EKALQAV-EIARDTGKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEI 73
Query: 96 PLIKVDNNKKLG 107
P I V + K+LG
Sbjct: 74 PYIYVPSKKELG 85
>pdb|3LWO|C Chain C, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
5BRU
pdb|3LWP|C Chain C, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
5BRDU
pdb|3LWQ|C Chain C, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
3MU
pdb|3LWR|C Chain C, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
4SU
pdb|3LWV|C Chain C, Structure Of HACA RNP BOUND TO A SUBSTRATE RNA CONTAINING
2'- Deoxyuridine
pdb|3J20|3 Chain 3, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (30s Ribosomal Subunit)
pdb|3J21|G Chain G, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
pdb|3J21|4 Chain 4, Promiscuous Behavior Of Proteins In Archaeal Ribosomes
Revealed By Cryo-em: Implications For Evolution Of
Eukaryotic Ribosomes (50s Ribosomal Proteins)
Length = 123
Score = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 42/72 (58%), Gaps = 1/72 (1%)
Query: 36 NKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQI 95
KALQ V + AR + KG +E KA++R +A+L ++A++ D + LC E +I
Sbjct: 17 EKALQAV-EIARDTGKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEI 75
Query: 96 PLIKVDNNKKLG 107
P I V + K+LG
Sbjct: 76 PYIYVPSKKELG 87
>pdb|3NMU|C Chain C, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NMU|G Chain G, Crystal Structure Of Substrate-Bound Halfmer Box CD RNP
pdb|3NVI|B Chain B, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
pdb|3NVI|D Chain D, Structure Of N-Terminal Truncated Nop5658 BOUND WITH L7AE
AND BOX CD Rna
pdb|3NVK|E Chain E, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
pdb|3NVK|H Chain H, Structural Basis For Substrate Placement By An Archaeal
Box CD Ribonucleoprotein Particle
Length = 129
Score = 47.4 bits (111), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 42/72 (58%), Gaps = 1/72 (1%)
Query: 36 NKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQI 95
KALQ V + AR + KG +E KA++R +A+L ++A++ D + LC E +I
Sbjct: 23 EKALQAV-EIARDTGKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEI 81
Query: 96 PLIKVDNNKKLG 107
P I V + K+LG
Sbjct: 82 PYIYVPSKKELG 93
>pdb|2HVY|D Chain D, Crystal Structure Of An HACA BOX RNP FROM PYROCOCCUS
FURIOSUS
pdb|3HAX|D Chain D, Crystal Structure Of A Substrate-Bound Gar1-Minus HACA RNP
FROM Pyrococcus Furiosus
pdb|3HAY|D Chain D, Crystal Structure Of A Substrate-Bound Full HACA RNP FROM
Pyrococcus Furiosus
Length = 130
Score = 47.0 bits (110), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/72 (37%), Positives = 42/72 (58%), Gaps = 1/72 (1%)
Query: 36 NKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQI 95
KALQ V + AR + KG +E KA++R +A+L ++A++ D + LC E +I
Sbjct: 18 EKALQAV-EIARDTGKIRKGTNETTKAVERGQAKLVIIAEDVDPEEIVAHLPPLCEEKEI 76
Query: 96 PLIKVDNNKKLG 107
P I V + K+LG
Sbjct: 77 PYIYVPSKKELG 88
>pdb|1RLG|A Chain A, Molecular Basis Of Box CD RNA-Protein Interaction: Co-
Crystal Structure Of The Archaeal Srnp Intiation Complex
pdb|1RLG|B Chain B, Molecular Basis Of Box CD RNA-Protein Interaction: Co-
Crystal Structure Of The Archaeal Srnp Intiation Complex
Length = 119
Score = 44.7 bits (104), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 49/97 (50%), Gaps = 7/97 (7%)
Query: 36 NKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQI 95
N+AL +L+ R + KG +E KA++R A+L +A++ D P + LC E +
Sbjct: 13 NEALS-LLEKVRESGKVKKGTNETTKAVERGLAKLVYIAEDVDPPEIVAHLPLLCEEKNV 71
Query: 96 PLIKVDNNKKLGEWAGL------SKLDNMGKARKVVG 126
P I V + LG G+ + + N G+ RK +G
Sbjct: 72 PYIYVKSKNDLGRAVGIEVPCASAAIINEGELRKELG 108
>pdb|3ID5|C Chain C, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3ID5|G Chain G, Crystal Structure Of Sulfolobus Solfataricus CD RNP
ASSEMBLED WITH Nop5, Fibrillarin, L7ae And A Split Half
CD RNA
pdb|3PLA|C Chain C, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|D Chain D, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
pdb|3PLA|L Chain L, Crystal Structure Of A Catalytically Active
Substrate-Bound Box CD Rnp From Sulfolobus Solfataricus
Length = 130
Score = 44.3 bits (103), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 43/79 (54%)
Query: 34 DINKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEH 93
D+ + + ++ A+ + KG +E KA++R +A+L ++A++ + LC E
Sbjct: 17 DLADKVLEAVRKAKESGKIKKGTNETTKAVERGQAKLVIIAEDVQPEEIVAHLPLLCDEK 76
Query: 94 QIPLIKVDNNKKLGEWAGL 112
+IP + V + K LGE GL
Sbjct: 77 KIPYVYVSSKKALGEACGL 95
>pdb|2KG4|A Chain A, Three-Dimensional Structure Of Human Gadd45alpha In
Solution By Nmr
Length = 165
Score = 41.2 bits (95), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 46/87 (52%), Gaps = 8/87 (9%)
Query: 30 EGVSDINKALQQVLKTARAHDGLAKGLHEAAKAL--DRREAQLCVLADNCDEP------A 81
E + + AL++VL A + + G++EAAK L D LC+LA + D+
Sbjct: 14 ERMDKVGDALEEVLSKALSQRTITVGVYEAAKLLNVDPDNVVLCLLAADEDDDRDVALQI 73
Query: 82 YKKLVQALCSEHQIPLIKVDNNKKLGE 108
+ L+QA C E+ I +++V N +L E
Sbjct: 74 HFTLIQAFCCENDINILRVSNPGRLAE 100
>pdb|1FFK|E Chain E, Crystal Structure Of The Large Ribosomal Subunit From
Haloarcula Marismortui At 2.4 Angstrom Resolution
pdb|1JJ2|F Chain F, Fully Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution
pdb|1KQS|F Chain F, The Haloarcula Marismortui 50s Complexed With A
Pretranslocational Intermediate In Protein Synthesis
pdb|1K8A|H Chain H, Co-Crystal Structure Of Carbomycin A Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1K9M|H Chain H, Co-Crystal Structure Of Tylosin Bound To The 50s Ribosomal
Subunit Of Haloarcula Marismortui
pdb|1KD1|H Chain H, Co-crystal Structure Of Spiramycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M1K|H Chain H, Co-Crystal Structure Of Azithromycin Bound To The 50s
Ribosomal Subunit Of Haloarcula Marismortui
pdb|1M90|H Chain H, Co-Crystal Structure Of Cca-Phe-Caproic Acid-Biotin And
Sparsomycin Bound To The 50s Ribosomal Subunit
pdb|1K73|H Chain H, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|1KC8|H Chain H, Co-Crystal Structure Of Blasticidin S Bound To The 50s
Ribosomal Subunit
pdb|1N8R|H Chain H, Structure Of Large Ribosomal Subunit In Complex With
Virginiamycin M
pdb|1NJI|H Chain H, Structure Of Chloramphenicol Bound To The 50s Ribosomal
Subunit
pdb|1Q7Y|H Chain H, Crystal Structure Of Ccdap-puromycin Bound At The Peptidyl
Transferase Center Of The 50s Ribosomal Subunit
pdb|1Q81|H Chain H, Crystal Structure Of Minihelix With 3' Puromycin Bound To
A- Site Of The 50s Ribosomal Subunit.
pdb|1Q82|H Chain H, Crystal Structure Of Cc-Puromycin Bound To The A-Site Of
The 50s Ribosomal Subunit
pdb|1Q86|H Chain H, Crystal Structure Of Cca-Phe-Cap-Biotin Bound
Simultaneously At Half Occupancy To Both The A-Site And
P- Site Of The The 50s Ribosomal Subunit.
pdb|1QVF|F Chain F, Structure Of A Deacylated Trna Minihelix Bound To The E
Site Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1QVG|F Chain F, Structure Of Cca Oligonucleotide Bound To The Trna Binding
Sites Of The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1W2B|F Chain F, Trigger Factor Ribosome Binding Domain In Complex With 50s
pdb|3CXC|F Chain F, The Structure Of An Enhanced Oxazolidinone Inhibitor Bound
To The 50s Ribosomal Subunit Of H. Marismortui
pdb|3OW2|F Chain F, Crystal Structure Of Enhanced Macrolide Bound To 50s
Ribosomal Subunit
Length = 119
Score = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 38/81 (46%)
Query: 33 SDINKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSE 92
+D+ + L+ AR + KG +E K+++R A+L +A++ + L E
Sbjct: 10 ADLEDDALEALEVARDTGAVKKGTNETTKSIERGSAELVFVAEDVQPEEIVMHIPELADE 69
Query: 93 HQIPLIKVDNNKKLGEWAGLS 113
+P I V+ LG AGL
Sbjct: 70 KGVPFIFVEQQDDLGHAAGLE 90
>pdb|3CG6|A Chain A, Crystal Structure Of Gadd45 Gamma
pdb|3CG6|B Chain B, Crystal Structure Of Gadd45 Gamma
Length = 146
Score = 39.7 bits (91), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 44/83 (53%), Gaps = 8/83 (9%)
Query: 37 KALQQVLKTARAHDGLAKGLHEAAKAL--DRREAQLCVLA-DNCDE-----PAYKKLVQA 88
KAL ++L +A+ L G++E+AK L D CVLA D DE + L+QA
Sbjct: 11 KALHELLLSAQRQGCLTAGVYESAKVLNVDPDNVTFCVLAADEEDEGDIALQIHFTLIQA 70
Query: 89 LCSEHQIPLIKVDNNKKLGEWAG 111
C E+ I +++V + ++L G
Sbjct: 71 FCCENDIDIVRVGDVQRLAAIVG 93
>pdb|1S72|F Chain F, Refined Crystal Structure Of The Haloarcula Marismortui
Large Ribosomal Subunit At 2.4 Angstrom Resolution
pdb|1YHQ|F Chain F, Crystal Structure Of Azithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YI2|F Chain F, Crystal Structure Of Erythromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIJ|F Chain F, Crystal Structure Of Telithromycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YIT|F Chain F, Crystal Structure Of Virginiamycin M And S Bound To The
50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJ9|F Chain F, Crystal Structure Of The Mutant 50s Ribosomal Subunit Of
Haloarcula Marismortui Containing A Three Residue
Deletion In L22
pdb|1YJN|F Chain F, Crystal Structure Of Clindamycin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1YJW|F Chain F, Crystal Structure Of Quinupristin Bound To The G2099a
Mutant 50s Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ4|F Chain F, The Structure Of The Transition State Analogue "daa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ5|F Chain F, The Structure Of The Transition State Analogue "raa" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ6|F Chain F, The Structure Of C-Hpmn And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ7|F Chain F, The Structure Of The Transition State Analogue "dca" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQ8|F Chain F, The Structure Of Ccda-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQ9|F Chain F, The Structure Of Cca-Phe-Cap-Bio And The Antibiotic
Sparsomycin Bound To The Large Ribosomal Subunit Of
Haloarcula Marismortui
pdb|1VQK|F Chain F, The Structure Of Ccda-Phe-Cap-Bio Bound To The A Site Of
The Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQL|F Chain F, The Structure Of The Transition State Analogue "dcsn"
Bound To The Large Ribosomal Subunit Of Haloarcula
Marismortui
pdb|1VQM|F Chain F, The Structure Of The Transition State Analogue "dan" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQN|F Chain F, The Structure Of Cc-hpmn And Cca-phe-cap-bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|1VQO|F Chain F, The Structure Of Ccpmn Bound To The Large Ribosomal
Subunit Haloarcula Marismortui
pdb|1VQP|F Chain F, The Structure Of The Transition State Analogue "rap" Bound
To The Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|2OTJ|F Chain F, 13-Deoxytedanolide Bound To The Large Subunit Of
Haloarcula Marismortui
pdb|2OTL|F Chain F, Girodazole Bound To The Large Subunit Of Haloarcula
Marismortui
pdb|2QA4|F Chain F, A More Complete Structure Of The The L7L12 STALK OF THE
Haloarcula Marismortui 50s Large Ribosomal Subunit
pdb|3CC2|F Chain F, The Refined Crystal Structure Of The Haloarcula
Marismortui Large Ribosomal Subunit At 2.4 Angstrom
Resolution With Rrna Sequence For The 23s Rrna And
Genome-Derived Sequences For R-Proteins
pdb|3CC4|F Chain F, Co-Crystal Structure Of Anisomycin Bound To The 50s
Ribosomal Subunit
pdb|3CC7|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2487u
pdb|3CCE|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535a
pdb|3CCJ|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation C2534u
pdb|3CCL|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation U2535c. Density For Anisomycin Is
Visible But Not Included In Model.
pdb|3CCM|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2611u
pdb|3CCQ|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488u
pdb|3CCR|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation A2488c. Density For Anisomycin Is
Visible But Not Included In The Model.
pdb|3CCS|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482a
pdb|3CCU|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2482c
pdb|3CCV|F Chain F, Structure Of Anisomycin Resistant 50s Ribosomal Subunit:
23s Rrna Mutation G2616a
pdb|3CD6|F Chain F, Co-cystal Of Large Ribosomal Subunit Mutant G2616a With
Cc-puromycin
pdb|3CPW|F Chain F, The Structure Of The Antibiotic Linezolid Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CMA|F Chain F, The Structure Of Cca And Cca-Phe-Cap-Bio Bound To The
Large Ribosomal Subunit Of Haloarcula Marismortui
pdb|3CME|F Chain F, The Structure Of Ca And Cca-Phe-Cap-Bio Bound To The Large
Ribosomal Subunit Of Haloarcula Marismortui
pdb|2QEX|F Chain F, Negamycin Binds To The Wall Of The Nascent Chain Exit
Tunnel Of The 50s Ribosomal Subunit
pdb|3I55|F Chain F, Co-Crystal Structure Of Mycalamide A Bound To The Large
Ribosomal Subunit
pdb|3I56|F Chain F, Co-Crystal Structure Of Triacetyloleandomcyin Bound To The
Large Ribosomal Subunit
pdb|4ADX|F Chain F, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 120
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 38/81 (46%)
Query: 33 SDINKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSE 92
+D+ + L+ AR + KG +E K+++R A+L +A++ + L E
Sbjct: 11 ADLEDDALEALEVARDTGAVKKGTNETTKSIERGSAELVFVAEDVQPEEIVMHIPELADE 70
Query: 93 HQIPLIKVDNNKKLGEWAGLS 113
+P I V+ LG AGL
Sbjct: 71 KGVPFIFVEQQDDLGHAAGLE 91
>pdb|3G4S|F Chain F, Co-Crystal Structure Of Tiamulin Bound To The Large
Ribosomal Subunit
pdb|3G6E|F Chain F, Co-Crystal Structure Of Homoharringtonine Bound To The
Large Ribosomal Subunit
pdb|3G71|F Chain F, Co-crystal Structure Of Bruceantin Bound To The Large
Ribosomal Subunit
Length = 119
Score = 39.3 bits (90), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 38/81 (46%)
Query: 33 SDINKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSE 92
+D+ + L+ AR + KG +E K+++R A+L +A++ + L E
Sbjct: 10 ADLEDDALEALEVARDTGAVKKGTNETTKSIERGSAELVFVAEDVQPEEIVMHIPELADE 69
Query: 93 HQIPLIKVDNNKKLGEWAGLS 113
+P I V+ LG AGL
Sbjct: 70 KGVPFIFVEQQDDLGHAAGLE 90
>pdb|2LBX|A Chain A, Solution Structure Of The S. Cerevisiae HACA RNP PROTEIN
NHP2P
Length = 121
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 35 INKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQ 94
+NK + + +K A + +G+ E KAL + E L V+A + + LC +H
Sbjct: 4 LNKKVLKTVKKASKAKNVKRGVKEVVKALRKGEKGLVVIAGDISPADVISHIPVLCEDHS 63
Query: 95 IPLIKVDNNKKLGEWAGLSK 114
+P I + + + LG AG +K
Sbjct: 64 VPYIFIPSKQDLG-AAGATK 82
>pdb|2JNB|A Chain A, Solution Structure Of Rna-Binding Protein 15.5k
Length = 144
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/113 (24%), Positives = 51/113 (45%), Gaps = 8/113 (7%)
Query: 19 TATDNVPSANDEGVSDINKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCD 78
T D P A + + K L +++ + + L KG +EA K L+R ++ V+A + +
Sbjct: 18 TEADVNPKAYPLADAHLTKKLLDLVQQSCNYKQLRKGANEATKTLNRGISEFIVMAADAE 77
Query: 79 EPAYKKLVQALCSEHQIPLIKVDNNKKLGEWAGLSKLDNMGKARKVVGCSCVV 131
+ LC + +P + V + + LG G+S R V+ CS +
Sbjct: 78 PLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVS--------RPVIACSVTI 122
>pdb|2OZB|A Chain A, Structure Of A Human Prp31-15.5k-U4 Snrna Complex
pdb|2OZB|D Chain D, Structure Of A Human Prp31-15.5k-U4 Snrna Complex
pdb|3SIU|A Chain A, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Monomeric Form
pdb|3SIU|D Chain D, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Monomeric Form
pdb|3SIV|A Chain A, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|D Chain D, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|G Chain G, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
pdb|3SIV|J Chain J, Structure Of A Hprp31-15.5k-U4atac 5' Stem Loop Complex,
Dimeric Form
Length = 130
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/113 (24%), Positives = 51/113 (45%), Gaps = 8/113 (7%)
Query: 19 TATDNVPSANDEGVSDINKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCD 78
T D P A + + K L +++ + + L KG +EA K L+R ++ V+A + +
Sbjct: 4 TEADVNPKAYPLADAHLTKKLLDLVQQSCNYKQLRKGANEATKTLNRGISEFIVMAADAE 63
Query: 79 EPAYKKLVQALCSEHQIPLIKVDNNKKLGEWAGLSKLDNMGKARKVVGCSCVV 131
+ LC + +P + V + + LG G+S R V+ CS +
Sbjct: 64 PLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVS--------RPVIACSVTI 108
>pdb|1E7K|A Chain A, Crystal Structure Of The Spliceosomal 15.5kd Protein Bound
To A U4 Snrna Fragment
pdb|1E7K|B Chain B, Crystal Structure Of The Spliceosomal 15.5kd Protein Bound
To A U4 Snrna Fragment
Length = 128
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/113 (24%), Positives = 51/113 (45%), Gaps = 8/113 (7%)
Query: 19 TATDNVPSANDEGVSDINKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCD 78
T D P A + + K L +++ + + L KG +EA K L+R ++ V+A + +
Sbjct: 2 TEADVNPKAYPLADAHLTKKLLDLVQQSCNYKQLRKGANEATKTLNRGISEFIVMAADAE 61
Query: 79 EPAYKKLVQALCSEHQIPLIKVDNNKKLGEWAGLSKLDNMGKARKVVGCSCVV 131
+ LC + +P + V + + LG G+S R V+ CS +
Sbjct: 62 PLEIILHLPLLCEDKNVPYVFVRSKQALGRACGVS--------RPVIACSVTI 106
>pdb|3FFM|A Chain A, The Crystal Structure Of Human Gadd45g
Length = 167
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 48/98 (48%), Gaps = 9/98 (9%)
Query: 22 DNVPSANDEGVSDINKALQQVLKTARAHDGLAKGLHEAAKAL--DRREAQLCVLADNCDE 79
D VP + + KAL ++L +A+ L G++E+AK L D CVLA ++
Sbjct: 18 DTVPESTAR-MQGAGKALHELLLSAQRQGCLTAGVYESAKVLNVDPDNVTFCVLAAGEED 76
Query: 80 PA------YKKLVQALCSEHQIPLIKVDNNKKLGEWAG 111
+ L+QA C E+ I +++V + ++L G
Sbjct: 77 EGDIALQIHFTLIQAFCCENDIDIVRVGDVQRLAAIVG 114
>pdb|2WAL|A Chain A, Crystal Structure Of Human Gadd45gamma
pdb|2WAL|B Chain B, Crystal Structure Of Human Gadd45gamma
Length = 159
Score = 38.1 bits (87), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 48/98 (48%), Gaps = 9/98 (9%)
Query: 22 DNVPSANDEGVSDINKALQQVLKTARAHDGLAKGLHEAAKAL--DRREAQLCVLADNCDE 79
D VP + + KAL ++L +A+ L G++E+AK L D CVLA ++
Sbjct: 10 DTVPESTAR-MQGAGKALHELLLSAQRQGCLTAGVYESAKVLNVDPDNVAFCVLAAGEED 68
Query: 80 PA------YKKLVQALCSEHQIPLIKVDNNKKLGEWAG 111
+ L+QA C E+ I +++V + ++L G
Sbjct: 69 EGDIALQIHFTLIQAFCCENDIDIVRVGDVQRLAAIVG 106
>pdb|2LBW|A Chain A, Solution Structure Of The S. Cerevisiae HACA RNP PROTEIN
NHP2P-S82w Mutant
Length = 121
Score = 37.0 bits (84), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 40/80 (50%), Gaps = 1/80 (1%)
Query: 35 INKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQ 94
+NK + + +K A + +G+ E KAL + E L V+A + + LC +H
Sbjct: 4 LNKKVLKTVKKASKAKNVKRGVKEVVKALRKGEKGLVVIAGDIWPADVISHIPVLCEDHS 63
Query: 95 IPLIKVDNNKKLGEWAGLSK 114
+P I + + + LG AG +K
Sbjct: 64 VPYIFIPSKQDLGA-AGATK 82
>pdb|3PAF|A Chain A, M. Jannaschii L7ae Mutant
pdb|3PAF|B Chain B, M. Jannaschii L7ae Mutant
Length = 117
Score = 36.2 bits (82), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 35/63 (55%)
Query: 52 LAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQIPLIKVDNNKKLGEWAG 111
+ KG +E KA++R A+L ++A++ + LC E IP V + + LG+ AG
Sbjct: 27 IKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAG 86
Query: 112 LSK 114
+S+
Sbjct: 87 VSR 89
>pdb|1ZWZ|A Chain A, Structural Comparison Of Yeast Snornp And Splicesomal
Protein Snu13p With Its Homologs
pdb|1ZWZ|B Chain B, Structural Comparison Of Yeast Snornp And Splicesomal
Protein Snu13p With Its Homologs
Length = 126
Score = 35.4 bits (80), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 33/63 (52%)
Query: 52 LAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQIPLIKVDNNKKLGEWAG 111
L KG +EA K L+R ++ ++A +C+ + LC + +P + V + LG G
Sbjct: 33 LKKGANEATKTLNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACG 92
Query: 112 LSK 114
+S+
Sbjct: 93 VSR 95
>pdb|2AIF|A Chain A, Crystal Structure Of High Mobility Like Protein, Nhp2,
Putative From Cryptosporidium Parvum
Length = 135
Score = 35.4 bits (80), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 44/90 (48%)
Query: 25 PSANDEGVSDINKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKK 84
P A D+N + +++ A + L KG +EA KAL+R A++ +LA + +
Sbjct: 15 PKAFPLASPDLNNKIINLVQQACNYKQLRKGANEATKALNRGIAEIVLLAADAEPLEILL 74
Query: 85 LVQALCSEHQIPLIKVDNNKKLGEWAGLSK 114
+ +C + P + V + LG G+S+
Sbjct: 75 HLPLVCEDKNTPYVFVRSKVALGRACGVSR 104
>pdb|2ALE|A Chain A, Crystal Structure Of Yeast Rna Splicing Factor Snu13p
Length = 134
Score = 35.4 bits (80), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 33/63 (52%)
Query: 52 LAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQIPLIKVDNNKKLGEWAG 111
L KG +EA K L+R ++ ++A +C+ + LC + +P + V + LG G
Sbjct: 33 LKKGANEATKTLNRGISEFIIMAADCEPIEILLHLPLLCEDKNVPYVFVPSRVALGRACG 92
Query: 112 LSK 114
+S+
Sbjct: 93 VSR 95
>pdb|1RA4|A Chain A, Crystal Structure Of The Methanococcus Jannaschii L7ae
Protein
pdb|1XBI|A Chain A, High Resolution Structure Of Methanocaldococcus Jannaschii
L7ae
Length = 120
Score = 35.0 bits (79), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 33/62 (53%)
Query: 52 LAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQIPLIKVDNNKKLGEWAG 111
+ KG +E KA++R A+L ++A++ + LC E IP V + + LG+ AG
Sbjct: 30 IKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAG 89
Query: 112 LS 113
L
Sbjct: 90 LE 91
>pdb|1SDS|A Chain A, Structure Of Protein L7ae Bound To A K-Turn Derived From
An Archaeal Box HACA SRNA
pdb|1SDS|B Chain B, Structure Of Protein L7ae Bound To A K-Turn Derived From
An Archaeal Box HACA SRNA
pdb|1SDS|C Chain C, Structure Of Protein L7ae Bound To A K-Turn Derived From
An Archaeal Box HACA SRNA
Length = 117
Score = 35.0 bits (79), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 33/62 (53%)
Query: 52 LAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQIPLIKVDNNKKLGEWAG 111
+ KG +E KA++R A+L ++A++ + LC E IP V + + LG+ AG
Sbjct: 27 IKKGANEVTKAVERGIAKLVIIAEDVKPEEVVAHLPYLCEEKGIPYAYVASKQDLGKAAG 86
Query: 112 LS 113
L
Sbjct: 87 LE 88
>pdb|3ZF7|XX Chain x, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 276
Score = 34.7 bits (78), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 31/57 (54%)
Query: 55 GLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQIPLIKVDNNKKLGEWAG 111
GL E + ++++ A+L ++A+N D + LC ++IP V + +LG+ G
Sbjct: 148 GLQEVTRTIEKKTARLVLIANNVDPIELVLWMPTLCRANKIPYAIVKDKARLGDAIG 204
>pdb|1SZU|A Chain A, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: V241a
pdb|1SZU|B Chain B, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: V241a
pdb|1SZU|C Chain C, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: V241a
pdb|1SZU|D Chain D, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: V241a
Length = 426
Score = 30.8 bits (68), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 80 PAYKKLVQALCSEHQIPLIKVDNNKKLGEWAGLSKLDNMGKA 121
PA+ + ++ALC EH I LI + G L ++ MG A
Sbjct: 219 PAFMQRLRALCDEHGIMLIADEAQSGAGRTGTLFAMEQMGVA 260
>pdb|1SZK|A Chain A, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: E211s
pdb|1SZK|B Chain B, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: E211s
pdb|1SZK|C Chain C, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: E211s
pdb|1SZK|D Chain D, The Structure Of Gamma-Aminobutyrate Aminotransferase
Mutant: E211s
Length = 426
Score = 30.4 bits (67), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 80 PAYKKLVQALCSEHQIPLIKVDNNKKLGEWAGLSKLDNMGKA 121
PA+ + ++ALC EH I LI + G L ++ MG A
Sbjct: 219 PAFMQRLRALCDEHGIMLIADEVQSGAGRTGTLFAMEQMGVA 260
>pdb|1SF2|A Chain A, Structure Of E. Coli Gamma-Aminobutyrate Aminotransferase
pdb|1SF2|B Chain B, Structure Of E. Coli Gamma-Aminobutyrate Aminotransferase
pdb|1SF2|C Chain C, Structure Of E. Coli Gamma-Aminobutyrate Aminotransferase
pdb|1SF2|D Chain D, Structure Of E. Coli Gamma-Aminobutyrate Aminotransferase
pdb|1SFF|A Chain A, Structure Of Gamma-Aminobutyrate Aminotransferase Complex
With Aminooxyacetate
pdb|1SFF|B Chain B, Structure Of Gamma-Aminobutyrate Aminotransferase Complex
With Aminooxyacetate
pdb|1SFF|C Chain C, Structure Of Gamma-Aminobutyrate Aminotransferase Complex
With Aminooxyacetate
pdb|1SFF|D Chain D, Structure Of Gamma-Aminobutyrate Aminotransferase Complex
With Aminooxyacetate
Length = 426
Score = 30.4 bits (67), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 80 PAYKKLVQALCSEHQIPLIKVDNNKKLGEWAGLSKLDNMGKA 121
PA+ + ++ALC EH I LI + G L ++ MG A
Sbjct: 219 PAFMQRLRALCDEHGIMLIADEVQSGAGRTGTLFAMEQMGVA 260
>pdb|1SZS|A Chain A, The Structure Of Gamma-aminobutyrate Aminotransferase
Mutant: I50q
pdb|1SZS|B Chain B, The Structure Of Gamma-aminobutyrate Aminotransferase
Mutant: I50q
pdb|1SZS|C Chain C, The Structure Of Gamma-aminobutyrate Aminotransferase
Mutant: I50q
pdb|1SZS|D Chain D, The Structure Of Gamma-aminobutyrate Aminotransferase
Mutant: I50q
Length = 426
Score = 30.4 bits (67), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 80 PAYKKLVQALCSEHQIPLIKVDNNKKLGEWAGLSKLDNMGKA 121
PA+ + ++ALC EH I LI + G L ++ MG A
Sbjct: 219 PAFMQRLRALCDEHGIMLIADEVQSGAGRTGTLFAMEQMGVA 260
>pdb|3IZR|H Chain H, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 258
Score = 27.7 bits (60), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 27/53 (50%)
Query: 55 GLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQIPLIKVDNNKKLG 107
GL+ +++ +AQL V+A + D + ALC + ++P V +LG
Sbjct: 131 GLNHVTYLIEQSKAQLVVIAHDVDPIELVVWLPALCRKMEVPYCIVKGKARLG 183
>pdb|2ZKR|6 Chain 6, 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 = 115
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 32 VSDINKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKK 84
+ IN LQ V+K+ + G + K + + +A+L +LA+NC PA +K
Sbjct: 11 LESINSRLQLVMKSGK----YVLGYKQTLKMIRQGKAKLVILANNC--PALRK 57
>pdb|3VI6|A Chain A, Crystal Structure Of Human L30e
Length = 125
Score = 27.7 bits (60), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 6/53 (11%)
Query: 32 VSDINKALQQVLKTARAHDGLAKGLHEAAKALDRREAQLCVLADNCDEPAYKK 84
+ IN LQ V+K+ + G + K + + +A+L +LA+NC PA +K
Sbjct: 12 LESINSRLQLVMKSGK----YVLGYKQTLKMIRQGKAKLVILANNC--PALRK 58
>pdb|2WAF|A Chain A, Penicillin-Binding Protein 2b (Pbp-2b) From Streptococcus
Pneumoniae (Strain R6)
Length = 682
Score = 26.9 bits (58), Expect = 4.7, Method: Composition-based stats.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 14/72 (19%)
Query: 35 INKALQQVLKTARAHDGLAKGLHEAAKAL---------DRREAQLCVLADN--CDEPAYK 83
+ L+QV+ R++ A L E AK L + E QL AD D YK
Sbjct: 72 VENTLKQVVSFTRSNKMTATDLKETAKKLLTYVSISSPNLTERQL---ADYYLADPEIYK 128
Query: 84 KLVQALCSEHQI 95
K+V+AL SE ++
Sbjct: 129 KIVEALPSEKRL 140
>pdb|3JYW|G Chain G, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus Ribosome
At 8.9a Resolution
Length = 113
Score = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/53 (24%), Positives = 27/53 (50%)
Query: 55 GLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQIPLIKVDNNKKLG 107
GL+ ++ ++A+L ++A++ D + ALC + +P V +LG
Sbjct: 29 GLNHVVALIENKKAKLVLIANDVDPIELVVFLPALCKKMGVPYAIVKGKARLG 81
>pdb|1S1I|G Chain G, 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
Length = 119
Score = 26.6 bits (57), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 13/53 (24%), Positives = 27/53 (50%)
Query: 55 GLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQIPLIKVDNNKKLG 107
GL+ ++ ++A+L ++A++ D + ALC + +P V +LG
Sbjct: 34 GLNHVVALIENKKAKLVLIANDVDPIELVVFLPALCKKMGVPYAIVKGKARLG 86
>pdb|3IZS|H Chain H, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|H Chain H, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The First 80s In The Asymmetric Unit.
pdb|3O5H|H Chain H, Yeast 80s Ribosome. This Entry Consists Of The 60s Subunit
Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|G Chain G, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|G Chain G, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|G Chain G, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 256
Score = 26.6 bits (57), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 13/53 (24%), Positives = 27/53 (50%)
Query: 55 GLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQIPLIKVDNNKKLG 107
GL+ ++ ++A+L ++A++ D + ALC + +P V +LG
Sbjct: 135 GLNHVVALIENKKAKLVLIANDVDPIELVVFLPALCKKMGVPYAIVKGKARLG 187
>pdb|4A17|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 2.
pdb|4A1A|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 3.
pdb|4A1C|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 4.
pdb|4A1E|F Chain F, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 5s Rrna, 5.8s
Rrna And Proteins Of Molecule 1
Length = 255
Score = 26.2 bits (56), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 35/79 (44%), Gaps = 8/79 (10%)
Query: 52 LAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQIPLIKVDN--------N 103
L GL+ ++ ++A+L V+A + D + LC ++ +P V N
Sbjct: 125 LKYGLNHITTLIENKQAKLVVIAHDVDPIELVIFLPQLCRKNDVPFAFVKGKAALGKLVN 184
Query: 104 KKLGEWAGLSKLDNMGKAR 122
KK L+++ N KA+
Sbjct: 185 KKTATAVALTEVRNEDKAK 203
>pdb|2ZKR|FF Chain f, 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 = 266
Score = 26.2 bits (56), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 14/56 (25%), Positives = 27/56 (48%)
Query: 52 LAKGLHEAAKALDRREAQLCVLADNCDEPAYKKLVQALCSEHQIPLIKVDNNKKLG 107
L G++ ++ ++AQL V+A + D + ALC + +P + +LG
Sbjct: 136 LRAGVNTVTTLVENKKAQLVVIAHDVDPIELVVFLPALCRKMGVPYCIIKGKARLG 191
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.316 0.130 0.382
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,966,544
Number of Sequences: 62578
Number of extensions: 134482
Number of successful extensions: 334
Number of sequences better than 100.0: 45
Number of HSP's better than 100.0 without gapping: 36
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 295
Number of HSP's gapped (non-prelim): 45
length of query: 157
length of database: 14,973,337
effective HSP length: 91
effective length of query: 66
effective length of database: 9,278,739
effective search space: 612396774
effective search space used: 612396774
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)