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= 037081
(75 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1YSH|C Chain C, Localization And Dynamic Behavior Of Ribosomal Protein
L30e
Length = 104
Score = 77.8 bits (190), Expect = 1e-15, Method: Compositional matrix adjust.
Identities = 38/55 (69%), Positives = 47/55 (85%), Gaps = 3/55 (5%)
Query: 24 KKTHESINNRLALVMKSGKYTLGYKAAIRSLRRN---LIILSSNCPPLRKSEIEY 75
KK+ E+INN+L LVMKSGKYTLGYK +++LR + LIIL++NCPPLRKSEIEY
Sbjct: 3 KKSGENINNKLQLVMKSGKYTLGYKTVLKTLRSSKGKLIILANNCPPLRKSEIEY 57
>pdb|3IZR|FF Chain f, Localization Of The Large Subunit Ribosomal Proteins
Into A 5.5 A Cryo-Em Map Of Triticum Aestivum
Translating 80s Ribosome
Length = 112
Score = 75.1 bits (183), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 37/54 (68%), Positives = 46/54 (85%), Gaps = 3/54 (5%)
Query: 24 KKTHESINNRLALVMKSGKYTLGYKAAIRSLRRN---LIILSSNCPPLRKSEIE 74
KK+ E+INN+L LVMKSGKYTLGYK +++LR + LIIL++NCPPLRKSEIE
Sbjct: 8 KKSGENINNKLQLVMKSGKYTLGYKTVLKTLRSSLGKLIILANNCPPLRKSEIE 61
>pdb|1T0K|B Chain B, Joint X-ray And Nmr Refinement Of Yeast L30e-mrna
Complex
pdb|3IZS|FF Chain f, Localization Of The Large Subunit Ribosomal Proteins
Into A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3O58|Z Chain Z, Yeast 80s Ribosome. This Entry Consists Of The 60s
Subunit Of The First 80s In The Asymmetric Unit.
pdb|3O5H|Z Chain Z, Yeast 80s Ribosome. This Entry Consists Of The 60s
Subunit Of The Second 80s In The Asymmetric Unit.
pdb|3U5E|CC Chain c, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|CC Chain c, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|CC Chain c, Cryo-Em Structure Of The 60s Ribosomal Subunit In
Complex With Arx1 And Rei1
Length = 105
Score = 71.6 bits (174), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 34/54 (62%), Positives = 45/54 (83%), Gaps = 3/54 (5%)
Query: 25 KTHESINNRLALVMKSGKYTLGYKAAIRSLRRN---LIILSSNCPPLRKSEIEY 75
K+ ESIN +LALV+KSGKYTLGYK+ ++SLR+ LII+++N P LRKSE+EY
Sbjct: 5 KSQESINQKLALVIKSGKYTLGYKSTVKSLRQGKSKLIIIAANTPVLRKSELEY 58
>pdb|1CK2|A Chain A, Yeast (Saccharomyces Cerevisiae) Ribosomal Protein L30
pdb|1CN7|A Chain A, Yeast Ribosomal Protein L30
pdb|1NMU|B Chain B, Mbp-L30
pdb|1NMU|D Chain D, Mbp-L30
Length = 104
Score = 71.6 bits (174), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 34/54 (62%), Positives = 45/54 (83%), Gaps = 3/54 (5%)
Query: 25 KTHESINNRLALVMKSGKYTLGYKAAIRSLRRN---LIILSSNCPPLRKSEIEY 75
K+ ESIN +LALV+KSGKYTLGYK+ ++SLR+ LII+++N P LRKSE+EY
Sbjct: 4 KSQESINQKLALVIKSGKYTLGYKSTVKSLRQGKSKLIIIAANTPVLRKSELEY 57
>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 = 70.5 bits (171), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 35/55 (63%), Positives = 44/55 (80%), Gaps = 3/55 (5%)
Query: 24 KKTHESINNRLALVMKSGKYTLGYKAAIRSLRR---NLIILSSNCPPLRKSEIEY 75
KK+ ESIN+RL LVMKSGKY LGYK ++ +R+ L+IL++NCP LRKSEIEY
Sbjct: 8 KKSLESINSRLQLVMKSGKYVLGYKQTLKMIRQGKAKLVILANNCPALRKSEIEY 62
>pdb|3VI6|A Chain A, Crystal Structure Of Human L30e
Length = 125
Score = 70.5 bits (171), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 35/55 (63%), Positives = 44/55 (80%), Gaps = 3/55 (5%)
Query: 24 KKTHESINNRLALVMKSGKYTLGYKAAIRSLRRN---LIILSSNCPPLRKSEIEY 75
KK+ ESIN+RL LVMKSGKY LGYK ++ +R+ L+IL++NCP LRKSEIEY
Sbjct: 9 KKSLESINSRLQLVMKSGKYVLGYKQTLKMIRQGKAKLVILANNCPALRKSEIEY 63
>pdb|3JYW|2 Chain 2, Structure Of The 60s Proteins For Eukaryotic Ribosome
Based On Cryo-Em Map Of Thermomyces Lanuginosus
Ribosome At 8.9a Resolution
Length = 98
Score = 69.3 bits (168), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 33/51 (64%), Positives = 43/51 (84%), Gaps = 3/51 (5%)
Query: 28 ESINNRLALVMKSGKYTLGYKAAIRSLRRN---LIILSSNCPPLRKSEIEY 75
ESIN +LALV+KSGKYTLGYK+ ++SLR+ LII+++N P LRKSE+EY
Sbjct: 1 ESINQKLALVIKSGKYTLGYKSTVKSLRQGKSKLIIIAANTPVLRKSELEY 51
>pdb|4A18|G Chain G, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 1
pdb|4A1B|G Chain G, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 3.
pdb|4A1D|G Chain G, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 4.
pdb|4A19|G Chain G, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 2.
pdb|4ADX|6 Chain 6, The Cryo-Em Structure Of The Archaeal 50s Ribosomal
Subunit In Complex With Initiation Factor 6
Length = 104
Score = 65.9 bits (159), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 30/58 (51%), Positives = 46/58 (79%), Gaps = 3/58 (5%)
Query: 21 VLEKKTHESINNRLALVMKSGKYTLGYKAAIRSLRR---NLIILSSNCPPLRKSEIEY 75
+++K T ++I ++LALVM+SGK TLGYK+ I+++R L+ +S+NCP +RKSEIEY
Sbjct: 1 MVKKVTQDNIQSKLALVMRSGKATLGYKSTIKAIRNGTAKLVFISNNCPTVRKSEIEY 58
>pdb|3ZF7|GG Chain g, High-resolution Cryo-electron Microscopy Structure Of
The Trypanosoma Brucei Ribosome
Length = 105
Score = 63.9 bits (154), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 26/51 (50%), Positives = 42/51 (82%), Gaps = 3/51 (5%)
Query: 28 ESINNRLALVMKSGKYTLGYKAAIRSLRR---NLIILSSNCPPLRKSEIEY 75
++IN ++ LVMKSGKY LG + ++++LR+ L+++S+NCPP+RK+EIEY
Sbjct: 10 DTINTKIQLVMKSGKYVLGTQQSLKTLRQGRSKLVVISANCPPIRKAEIEY 60
>pdb|2BO1|A Chain A, Crystal Structure Of A Hybrid Ribosomal Protein L30e
With Surface Residues From T. Celer, And Core Residues
From Yeast
Length = 101
Score = 42.0 bits (97), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 20/42 (47%), Positives = 29/42 (69%), Gaps = 3/42 (7%)
Query: 37 VMKSGKYTLGYKAAIRSLR---RNLIILSSNCPPLRKSEIEY 75
V+ SGKYTLGY+ ++SL+ LII++ N P RK ++EY
Sbjct: 11 VIDSGKYTLGYRKTVQSLKMGGSKLIIIARNTRPDRKEDLEY 52
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
0.321 0.135 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,955,034
Number of Sequences: 62578
Number of extensions: 57835
Number of successful extensions: 142
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 122
Number of HSP's gapped (non-prelim): 10
length of query: 75
length of database: 14,973,337
effective HSP length: 44
effective length of query: 31
effective length of database: 12,219,905
effective search space: 378817055
effective search space used: 378817055
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 45 (21.9 bits)