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= 031080
(166 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3SQ8|A Chain A, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase 1 H432r Mutant (Scan1 Mutant)
pdb|3SQ8|B Chain B, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase 1 H432r Mutant (Scan1 Mutant)
pdb|3SQ8|C Chain C, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase 1 H432r Mutant (Scan1 Mutant)
pdb|3SQ8|D Chain D, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase 1 H432r Mutant (Scan1 Mutant)
Length = 470
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 4/45 (8%)
Query: 67 RSLIERVNENHLSRIPDNMSKNVELIREIN-GNISKVVSIYSDLS 110
RSLIE +N HL I + ++K+VE E+N +S++ +YS S
Sbjct: 158 RSLIEYLNSYHLKDIDELITKSVE---EVNFAPLSELEFVYSTPS 199
>pdb|3SQ3|A Chain A, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H182a Mutant
pdb|3SQ3|B Chain B, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H182a Mutant
pdb|3SQ3|C Chain C, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H182a Mutant
pdb|3SQ3|D Chain D, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H182a Mutant
Length = 470
Score = 27.7 bits (60), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 4/45 (8%)
Query: 67 RSLIERVNENHLSRIPDNMSKNVELIREIN-GNISKVVSIYSDLS 110
RSLIE +N HL I + ++K+VE E+N +S++ +YS S
Sbjct: 158 RSLIEYLNSYHLKDIDELITKSVE---EVNFAPLSELEFVYSTPS 199
>pdb|3SQ5|A Chain A, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n Mutant
pdb|3SQ5|B Chain B, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n Mutant
pdb|3SQ5|C Chain C, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n Mutant
pdb|3SQ5|D Chain D, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n Mutant
Length = 470
Score = 27.7 bits (60), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 4/45 (8%)
Query: 67 RSLIERVNENHLSRIPDNMSKNVELIREIN-GNISKVVSIYSDLS 110
RSLIE +N HL I + ++K+VE E+N +S++ +YS S
Sbjct: 158 RSLIEYLNSYHLKDIDELITKSVE---EVNFAPLSELEFVYSTPS 199
>pdb|3SQ7|A Chain A, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n_glu Mutant
pdb|3SQ7|B Chain B, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n_glu Mutant
pdb|3SQ7|C Chain C, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n_glu Mutant
pdb|3SQ7|D Chain D, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase H432n_glu Mutant
Length = 470
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 4/45 (8%)
Query: 67 RSLIERVNENHLSRIPDNMSKNVELIREIN-GNISKVVSIYSDLS 110
RSLIE +N HL I + ++K+VE E+N +S++ +YS S
Sbjct: 158 RSLIEYLNSYHLKDIDELITKSVE---EVNFAPLSELEFVYSTPS 199
>pdb|1Q32|A Chain A, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase
pdb|1Q32|B Chain B, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase
pdb|1Q32|C Chain C, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase
pdb|1Q32|D Chain D, Crystal Structure Analysis Of The Yeast Tyrosyl-Dna
Phosphodiesterase
Length = 544
Score = 26.9 bits (58), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 28/45 (62%), Gaps = 4/45 (8%)
Query: 67 RSLIERVNENHLSRIPDNMSKNVELIREIN-GNISKVVSIYSDLS 110
RSLIE +N HL I + ++K+VE E+N +S++ +YS S
Sbjct: 235 RSLIEYLNSYHLKDIDELITKSVE---EVNFAPLSELEFVYSTPS 276
>pdb|1KCW|A Chain A, X-Ray Crystal Structure Of Human Ceruloplasmin At 3.0
Angstroms
Length = 1046
Score = 26.6 bits (57), Expect = 6.4, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 20/45 (44%)
Query: 52 LSKSFKQVQTVLDNNRSLIERVNENHLSRIPDNMSKNVELIREIN 96
+ K F TV D N SL+ N + PD + K E +E N
Sbjct: 555 VDKEFYLFPTVFDENESLLLEDNIRMFTTAPDQVDKEDEDFQESN 599
>pdb|2J5W|A Chain A, Ceruloplasmin Revisited: Structural And Functional Roles
Of Various Metal Cation Binding Sites
Length = 1065
Score = 26.6 bits (57), Expect = 6.4, Method: Composition-based stats.
Identities = 15/45 (33%), Positives = 20/45 (44%)
Query: 52 LSKSFKQVQTVLDNNRSLIERVNENHLSRIPDNMSKNVELIREIN 96
+ K F TV D N SL+ N + PD + K E +E N
Sbjct: 574 VDKEFYLFPTVFDENESLLLEDNIRMFTTAPDQVDKEDEDFQESN 618
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
0.318 0.132 0.375
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,033,332
Number of Sequences: 62578
Number of extensions: 77415
Number of successful extensions: 265
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 262
Number of HSP's gapped (non-prelim): 9
length of query: 166
length of database: 14,973,337
effective HSP length: 92
effective length of query: 74
effective length of database: 9,216,161
effective search space: 681995914
effective search space used: 681995914
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 47 (22.7 bits)