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= 033830
(110 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3IZR|KK Chain k, Localization Of The Large Subunit Ribosomal Proteins Into
A 5.5 A Cryo-Em Map Of Triticum Aestivum Translating 80s
Ribosome
Length = 112
Score = 184 bits (466), Expect = 1e-47, Method: Compositional matrix adjust.
Identities = 90/106 (84%), Positives = 99/106 (93%)
Query: 1 MAPKQPNTGLFVGLNKGHIVTKKELPPRPADRKGKTSKRVHFVRTVIREVAGFAPYEKRI 60
MAP QP +GLFVG+NKGH+VTK+ELPPRP+DRKGK +KRVHFVR +IREVAGFAPYEKRI
Sbjct: 1 MAPSQPKSGLFVGINKGHVVTKRELPPRPSDRKGKGTKRVHFVRNLIREVAGFAPYEKRI 60
Query: 61 TELLKVGKDKRALKVAKRKLGTHKRAKKKREEMSNALRKSRAPGGG 106
TELLKVGKDKRALKVAKRKLGTHKRAKKKREEMS+ LRK R+ GGG
Sbjct: 61 TELLKVGKDKRALKVAKRKLGTHKRAKKKREEMSSVLRKMRSAGGG 106
>pdb|3IZS|KK Chain k, Localization Of The Large Subunit Ribosomal Proteins Into
A 6.1 A Cryo-Em Map Of Saccharomyces Cerevisiae
Translating 80s Ribosome
pdb|3U5E|II Chain i, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|II Chain i, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|II Chain i, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 100
Score = 90.5 bits (223), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 45/94 (47%), Positives = 66/94 (70%)
Query: 8 TGLFVGLNKGHIVTKKELPPRPADRKGKTSKRVHFVRTVIREVAGFAPYEKRITELLKVG 67
TG+ +GLNKG VT P+ + +KG S R FVR+++RE+AG +PYE+R+ +L++
Sbjct: 5 TGIAIGLNKGKKVTSMTPAPKISYKKGAASNRTKFVRSLVREIAGLSPYERRLIDLIRNS 64
Query: 68 KDKRALKVAKRKLGTHKRAKKKREEMSNALRKSR 101
+KRA KVAK++LG+ RAK K EEM+N + SR
Sbjct: 65 GEKRARKVAKKRLGSFTRAKAKVEEMNNIIAASR 98
>pdb|4A18|Q Chain Q, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 1
pdb|4A1B|Q Chain Q, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 3.
pdb|4A1D|Q Chain Q, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 4.
pdb|4A19|Q Chain Q, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 2
Length = 104
Score = 88.6 bits (218), Expect = 8e-19, Method: Compositional matrix adjust.
Identities = 55/99 (55%), Positives = 68/99 (68%), Gaps = 6/99 (6%)
Query: 9 GLFVGLNKGHIVTK--KELPPRPA-DRKGKTSKRVHFVRTVIREVAGFAPYEKRITELLK 65
G VG+NKG I T+ K+L A RKGK KRV VR VIREV GFAPYEKRI EL+K
Sbjct: 4 GQAVGINKGFITTQLEKKLQKHSAVQRKGKLGKRVALVRQVIREVTGFAPYEKRIIELIK 63
Query: 66 VG--KD-KRALKVAKRKLGTHKRAKKKREEMSNALRKSR 101
G KD K+A K+A+++LGTH+RAK K+ + A+R R
Sbjct: 64 AGSAKDSKKATKIARKRLGTHRRAKVKKALLEEAVRAQR 102
>pdb|3ZF7|MM Chain m, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 109
Score = 85.1 bits (209), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 42/94 (44%), Positives = 63/94 (67%)
Query: 6 PNTGLFVGLNKGHIVTKKELPPRPADRKGKTSKRVHFVRTVIREVAGFAPYEKRITELLK 65
P TG+ G NKG+ T++ P DR K++ V+ +I ++ GF+P E+R+ ELL+
Sbjct: 11 PRTGIIAGFNKGYKTTRRARRPSSNDRYALPHKKLRAVKAIISDLVGFSPMERRVQELLR 70
Query: 66 VGKDKRALKVAKRKLGTHKRAKKKREEMSNALRK 99
VGKDKRALK K++LG+ K AKK+R ++ ALR+
Sbjct: 71 VGKDKRALKFCKKRLGSIKAAKKRRAKVEEALRQ 104
>pdb|3LM2|A Chain A, Crystal Structure Of Putative Kinase. (17743352) From
Agrobacterium Tumefaciens Str. C58 (Dupont) At 1.70 A
Resolution
pdb|3LM2|B Chain B, Crystal Structure Of Putative Kinase. (17743352) From
Agrobacterium Tumefaciens Str. C58 (Dupont) At 1.70 A
Resolution
Length = 226
Score = 25.4 bits (54), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 22/34 (64%), Gaps = 2/34 (5%)
Query: 32 RKGKTSKRVHFVRTVIREVAGFAPYEKRITELLK 65
RKGKT + H+V RE G A ++KR+ ++++
Sbjct: 144 RKGKTYE--HYVSEAYREKKGNAKWQKRVQDVVE 175
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
0.314 0.133 0.371
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,203,420
Number of Sequences: 62578
Number of extensions: 106748
Number of successful extensions: 143
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 134
Number of HSP's gapped (non-prelim): 13
length of query: 110
length of database: 14,973,337
effective HSP length: 74
effective length of query: 36
effective length of database: 10,342,565
effective search space: 372332340
effective search space used: 372332340
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: 45 (21.9 bits)