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= 047359
(440 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DZS|A Chain A, Crystal Structure Of Yeast Puf4p Rna Binding Domain In
Complex With Ho-4be Mutant Rna
pdb|4DZS|B Chain B, Crystal Structure Of Yeast Puf4p Rna Binding Domain In
Complex With Ho-4be Mutant Rna
Length = 357
Score = 29.6 bits (65), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 23/98 (23%), Positives = 48/98 (48%), Gaps = 8/98 (8%)
Query: 147 GFSTYSSILDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDY---VIQKLSDMGKTYA 203
F++ ++ + A + K E S R ++++ + H L + + +QK D+ + A
Sbjct: 2 SFTSNATNSNSAEKQRKIEESSRFADAVLDQYIGSIHSLCKDQHGCRFLQKQLDILGSKA 61
Query: 204 AEMIFKRACDEKIELQDDTCGC-----MLKALSKEGRV 236
A+ IF+ D +EL D+ G +L+ ++ E R+
Sbjct: 62 ADAIFEETKDYTVELMTDSFGNYLIQKLLEEVTTEQRI 99
>pdb|2YL9|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL9|B Chain B, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL9|C Chain C, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL9|D Chain D, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
Length = 457
Score = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 32/78 (41%), Gaps = 5/78 (6%)
Query: 155 LDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDM-----GKTYAAEMIFK 209
+D R+Y RIV E H L GND + L DM GKTYA++ + K
Sbjct: 32 IDAGRKYFTLNQLKRIVDKASELGYSDVHLLLGNDGLRFLLDDMTITANGKTYASDDVKK 91
Query: 210 RACDEKIELQDDTCGCML 227
+ DD G L
Sbjct: 92 AIIEGTKAYYDDPNGTAL 109
>pdb|2YLA|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YLA|B Chain B, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YLA|C Chain C, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YLA|D Chain D, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
Length = 442
Score = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 32/78 (41%), Gaps = 5/78 (6%)
Query: 155 LDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDM-----GKTYAAEMIFK 209
+D R+Y RIV E H L GND + L DM GKTYA++ + K
Sbjct: 15 IDAGRKYFTLNQLKRIVDKASELGYSDVHLLLGNDGLRFLLDDMTITANGKTYASDDVKK 74
Query: 210 RACDEKIELQDDTCGCML 227
+ DD G L
Sbjct: 75 AIIEGTKAYYDDPNGTAL 92
>pdb|2YL5|A Chain A, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL5|B Chain B, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL5|C Chain C, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
pdb|2YL5|D Chain D, Inhibition Of The Pneumococcal Virulence Factor Strh And
Molecular Insights Into N-Glycan Recognition And
Hydrolysis
Length = 442
Score = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 32/78 (41%), Gaps = 5/78 (6%)
Query: 155 LDGARRYEKTEVSDRIVGLMVEKKLLPKHFLSGNDYVIQKLSDM-----GKTYAAEMIFK 209
+D R+Y RIV E H L GND + L DM GKTYA++ + K
Sbjct: 15 IDAGRKYFTLNQLKRIVDKASELGYSDVHLLLGNDGLRFLLDDMTITANGKTYASDDVKK 74
Query: 210 RACDEKIELQDDTCGCML 227
+ DD G L
Sbjct: 75 AIIEGTKAYYDDPNGTAL 92
>pdb|4EP6|A Chain A, Crystal Structure Of The Xpla Heme Domain In Complex With
Imidazole And Peg
Length = 392
Score = 28.5 bits (62), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 128 FGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMV 175
FG R+ EM + + PG S+LD AR E TE S+ I ++V
Sbjct: 181 FGYLSARVAEMLEDKRVNPGDGLADSLLDAARAGEITE-SEAIATILV 227
>pdb|2WIV|A Chain A, Cytochrome-P450 Xpla Heme Domain P21
pdb|2WIV|B Chain B, Cytochrome-P450 Xpla Heme Domain P21
pdb|2WIY|A Chain A, Cytochrome P450 Xpla Heme Domain P21212
Length = 394
Score = 28.5 bits (62), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 25/48 (52%), Gaps = 1/48 (2%)
Query: 128 FGAAFDRLNEMCNGRNLTPGFSTYSSILDGARRYEKTEVSDRIVGLMV 175
FG R+ EM + + PG S+LD AR E TE S+ I ++V
Sbjct: 183 FGYLSARVAEMLEDKRVNPGDGLADSLLDAARAGEITE-SEAIATILV 229
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
0.323 0.138 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,406,873
Number of Sequences: 62578
Number of extensions: 489163
Number of successful extensions: 1046
Number of sequences better than 100.0: 11
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 1044
Number of HSP's gapped (non-prelim): 11
length of query: 440
length of database: 14,973,337
effective HSP length: 102
effective length of query: 338
effective length of database: 8,590,381
effective search space: 2903548778
effective search space used: 2903548778
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 53 (25.0 bits)