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= 028624
(206 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ZF7|N Chain N, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 218
Score = 138 bits (348), Expect = 2e-33, Method: Compositional matrix adjust.
Identities = 77/157 (49%), Positives = 97/157 (61%), Gaps = 7/157 (4%)
Query: 2 KHNNVIPNGHFKKHW------QNYVKTWFNQPXXXXXXXXXXXXXXXXIFPRPTAGPLRP 55
K NN IP+ H +KHW + VK +FNQP IFPRP LRP
Sbjct: 3 KGNNAIPHVHQRKHWNPCSSQKGNVKVFFNQPAQKQRRRRLRLLKAKKIFPRPLKA-LRP 61
Query: 56 VVHGQTLKYNMKLRAGRGFTLEELKAAGIPKKLAPTIGVSVDHRRKNRSLEGLQSNVQRL 115
V+ T++YNMK R GRGF+LEELKAAG+ + A TIG+ VD RRKN+S EG+ NVQRL
Sbjct: 62 QVNCPTVRYNMKRRLGRGFSLEELKAAGVKPRYARTIGIRVDRRRKNKSEEGMNINVQRL 121
Query: 116 KTYKAKLVVFPRRARKFKAGDSAPEELATATQVQGPY 152
KTY +KLV+FP +K + GD+ EE+ ATQ + Y
Sbjct: 122 KTYMSKLVLFPLNRKKPQKGDATEEEVKAATQDRSRY 158
>pdb|4A18|U Chain U, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 1
pdb|4A1B|U Chain U, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 3.
pdb|4A1D|U Chain U, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 4.
pdb|4A19|U Chain U, T.Thermophila 60s Ribosomal Subunit In Complex With
Initiation Factor 6. This File Contains 26s Rrna And
Proteins Of Molecule 2
Length = 206
Score = 132 bits (331), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 79/196 (40%), Positives = 106/196 (54%), Gaps = 9/196 (4%)
Query: 1 MKHNNVIPNGHFKKHWQNYVKTWFNQPXXXXXXXXXXXXXXXXIFPRPTAGPLRPVVHGQ 60
MKHNN +P +KH Q +KT+FNQ +FPRPT L+PVV Q
Sbjct: 1 MKHNNQLPVAQLRKHQQFRIKTFFNQAAQKKARLHARRAQAAAVFPRPTE-KLQPVVRKQ 59
Query: 61 TLKYNMKLRAGRGFTLEELKAAGIPKKLAPTIGVSVDHRRKNRSLEGLQSNVQRLKTYKA 120
T +YN + GRGFTL+ELKAAGI A +IG+ VDHRRKNR E L+ N +RL Y +
Sbjct: 60 TQRYNKSTKLGRGFTLQELKAAGISAAFAQSIGIKVDHRRKNRCQESLELNKKRLLAYVS 119
Query: 121 KLVVFPRRARKFKAG---DSAPEELAT--ATQVQGPYMPITLEKPTVDLVKVTQDMKSFK 175
KLV+FPR K K G D+A A A Q P ++ + V + +++ K
Sbjct: 120 KLVLFPRHQGKAKKGLVNDTADTSSAAQNALQTSVPLPSVSKREKAVSNIA---ELRKKK 176
Query: 176 AYDKLRIERANERHFG 191
Y +R E+ N++ G
Sbjct: 177 VYRIIRQEKTNQKWDG 192
>pdb|3U5E|L Chain L, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome A
pdb|3U5I|L Chain L, The Structure Of The Eukaryotic Ribosome At 3.0 A
Resolution. This Entry Contains Proteins Of The 60s
Subunit, Ribosome B
pdb|4B6A|L Chain L, Cryo-Em Structure Of The 60s Ribosomal Subunit In Complex
With Arx1 And Rei1
Length = 199
Score = 127 bits (318), Expect = 6e-30, Method: Compositional matrix adjust.
Identities = 77/186 (41%), Positives = 102/186 (54%), Gaps = 14/186 (7%)
Query: 7 IPNGHFKKHWQNYVKTWFNQPXXXXXXXXXXXXXXXXIFPRPTAGPLRPVVHGQTLKYNM 66
I HF+KHWQ VK F+Q I PRP LRPVV T+KYN
Sbjct: 9 ILKNHFRKHWQERVKVHFDQAGKKVSRRNARATRAAKIAPRPL-DLLRPVVRAPTVKYNR 67
Query: 67 KLRAGRGFTLEELKAAGIPKKLAPTIGVSVDHRRKNRSLEGLQSNVQRLKTYKAKLVVFP 126
K+RAGRGFTL E+KAAG+ A TIG++VDHRR+NR+ E +NVQRLK Y++K++VFP
Sbjct: 68 KVRAGRGFTLAEVKAAGLTAAYARTIGIAVDHRRQNRNQEIFDANVQRLKEYQSKIIVFP 127
Query: 127 RRARKFKAGDSAPEELATATQVQGPYMPITLEKPTVDL-VKVTQDMKSFKAYDKLRIERA 185
R + APE A QV + +P D+ + QD A+ LR+ R+
Sbjct: 128 RNGK-------APE----AEQVLSAAATFPIAQPATDVEARAVQD-NGESAFRTLRLARS 175
Query: 186 NERHFG 191
++ G
Sbjct: 176 EKKFRG 181
>pdb|1VR4|A Chain A, Crystal Structure Of Mcsg Target Apc22750 From Bacillus
Cereus
pdb|1VR4|B Chain B, Crystal Structure Of Mcsg Target Apc22750 From Bacillus
Cereus
pdb|1VR4|C Chain C, Crystal Structure Of Mcsg Target Apc22750 From Bacillus
Cereus
pdb|1VR4|D Chain D, Crystal Structure Of Mcsg Target Apc22750 From Bacillus
Cereus
pdb|1VR4|E Chain E, Crystal Structure Of Mcsg Target Apc22750 From Bacillus
Cereus
Length = 103
Score = 31.2 bits (69), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 24/54 (44%)
Query: 45 FPRPTAGPLRPVVHGQTLKYNMKLRAGRGFTLEELKAAGIPKKLAPTIGVSVDH 98
R +R VV G+ Y KL+ R ++E+K K +GV VD+
Sbjct: 31 IVRDLFASVRDVVGGRAGSYESKLKEARDIAMDEMKELAKQKGANAIVGVDVDY 84
>pdb|2GTC|A Chain A, Crystal Structure Of The Hypthetical Protein From
Bacillus Cereus (Atcc 14579). Northeast Structural
Genomics Target Bcr11
pdb|2GTC|B Chain B, Crystal Structure Of The Hypthetical Protein From
Bacillus Cereus (Atcc 14579). Northeast Structural
Genomics Target Bcr11
pdb|2GTC|C Chain C, Crystal Structure Of The Hypthetical Protein From
Bacillus Cereus (Atcc 14579). Northeast Structural
Genomics Target Bcr11
pdb|2GTC|D Chain D, Crystal Structure Of The Hypthetical Protein From
Bacillus Cereus (Atcc 14579). Northeast Structural
Genomics Target Bcr11
pdb|2GTC|E Chain E, Crystal Structure Of The Hypthetical Protein From
Bacillus Cereus (Atcc 14579). Northeast Structural
Genomics Target Bcr11
Length = 111
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 16/54 (29%), Positives = 22/54 (40%)
Query: 45 FPRPTAGPLRPVVHGQTLKYNMKLRAGRGFTLEELKAAGIPKKLAPTIGVSVDH 98
R +R VV G+ Y KL+ R +E K K +GV VD+
Sbjct: 31 IVRDLFASVRDVVGGRAGSYESKLKEARDIAXDEXKELAKQKGANAIVGVDVDY 84
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 0.135 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,417,079
Number of Sequences: 62578
Number of extensions: 186597
Number of successful extensions: 429
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 413
Number of HSP's gapped (non-prelim): 14
length of query: 206
length of database: 14,973,337
effective HSP length: 94
effective length of query: 112
effective length of database: 9,091,005
effective search space: 1018192560
effective search space used: 1018192560
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: 49 (23.5 bits)