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= 019559
(339 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SE8|A Chain A, Structure Of Single-Stranded Dna-Binding Protein (Ssb)
From D. Radiodurans
Length = 301
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 42 KKEDLQTLHKFKGSDIMIMERSLSFKNWDSNVPEKEKSNSISFK 85
K + Q KG D +++E +L ++ W++ PE K ++++ K
Sbjct: 61 KPAEWQAERNLKGGDAVVVEGTLEYRQWEA--PEGGKRSAVNVK 102
>pdb|3UDG|A Chain A, Structure Of Deinococcus Radiodurans Ssb Bound To Ssdna
pdb|3UDG|B Chain B, Structure Of Deinococcus Radiodurans Ssb Bound To Ssdna
pdb|3UDG|C Chain C, Structure Of Deinococcus Radiodurans Ssb Bound To Ssdna
Length = 301
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 12/44 (27%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 42 KKEDLQTLHKFKGSDIMIMERSLSFKNWDSNVPEKEKSNSISFK 85
K + Q KG D +++E +L ++ W++ PE K ++++ K
Sbjct: 61 KPAEWQAERNLKGGDAVVVEGTLEYRQWEA--PEGGKRSAVNVK 102
>pdb|1T2M|A Chain A, Solution Structure Of The Pdz Domain Of Af-6
Length = 101
Score = 28.1 bits (61), Expect = 7.1, Method: Composition-based stats.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 296 LSTSRALYVGQKKKGVFQHSSFLSGGAITAAGRLVAHDGILEV 338
LS A GQ K G++ S + GGA GRL A D +L V
Sbjct: 19 LSIVAAKGAGQDKLGIYV-KSVVKGGAADVDGRLAAGDQLLSV 60
>pdb|1XZ9|A Chain A, Structure Of Af-6 Pdz Domain
pdb|2EXG|A Chain A, Making Protein-protein Interactions Drugable: Discovery Of
Low-molecular-weight Ligands For The Af6 Pdz Domain
Length = 101
Score = 28.1 bits (61), Expect = 7.1, Method: Composition-based stats.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 296 LSTSRALYVGQKKKGVFQHSSFLSGGAITAAGRLVAHDGILEV 338
LS A GQ K G++ S + GGA GRL A D +L V
Sbjct: 25 LSIVAAKGAGQDKLGIYV-KSVVKGGAADVDGRLAAGDQLLSV 66
>pdb|2AIN|A Chain A, Solution Structure Of The Af-6 Pdz Domain Complexed With
The C-Terminal Peptide From The Bcr Protein
Length = 93
Score = 28.1 bits (61), Expect = 7.1, Method: Composition-based stats.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 296 LSTSRALYVGQKKKGVFQHSSFLSGGAITAAGRLVAHDGILEV 338
LS A GQ K G++ S + GGA GRL A D +L V
Sbjct: 19 LSIVAAKGAGQDKLGIYV-KSVVKGGAADVDGRLAAGDQLLSV 60
>pdb|4F5C|A Chain A, Crystal Structure Of The Spike Receptor Binding Domain Of
A Porcine Respiratory Coronavirus In Complex With The
Pig Aminopeptidase N Ectodomain
pdb|4F5C|B Chain B, Crystal Structure Of The Spike Receptor Binding Domain Of
A Porcine Respiratory Coronavirus In Complex With The
Pig Aminopeptidase N Ectodomain
Length = 959
Score = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 32/59 (54%), Gaps = 11/59 (18%)
Query: 3 LSLSLLVSTWSEILQNY----FGFTNRVEKVIRRSASFGTKSFKKEDLQTLHKFKGSDI 57
L+ + S W ++ Q+Y F F+N ++ V RR +S + +LQ L +FK +++
Sbjct: 854 LAWDFVQSNWKKLFQDYGGGSFSFSNLIQGVTRRFSS-------EFELQQLEQFKKNNM 905
>pdb|4FKE|A Chain A, Crystal Structure Of Porcine Aminopeptidase-N
pdb|4FKH|A Chain A, Crystal Structure Of Porcine Aminopeptidase-N Complexed
With Alanine
pdb|4FKK|A Chain A, Crystal Structure Of Porcine Aminopeptidase-N Complexed
With Bestatin
Length = 909
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 32/59 (54%), Gaps = 11/59 (18%)
Query: 3 LSLSLLVSTWSEILQNY----FGFTNRVEKVIRRSASFGTKSFKKEDLQTLHKFKGSDI 57
L+ + S W ++ Q+Y F F+N ++ V RR +S + +LQ L +FK +++
Sbjct: 811 LAWDFVQSNWKKLFQDYGGGSFSFSNLIQGVTRRFSS-------EFELQQLEQFKKNNM 862
>pdb|4HOL|A Chain A, Crystal Structure Of Porcine Aminopeptidase-N Complexed
With Poly- Alanine
Length = 908
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 32/59 (54%), Gaps = 11/59 (18%)
Query: 3 LSLSLLVSTWSEILQNY----FGFTNRVEKVIRRSASFGTKSFKKEDLQTLHKFKGSDI 57
L+ + S W ++ Q+Y F F+N ++ V RR +S + +LQ L +FK +++
Sbjct: 810 LAWDFVQSNWKKLFQDYGGGSFSFSNLIQGVTRRFSS-------EFELQQLEQFKKNNM 861
>pdb|4H5H|A Chain A, Crystal Structure Of Porcine Aminopeptidase-N Complexed
With Cleaved Poly-Alanine
pdb|4HOM|A Chain A, Crystal Structure Of Porcine Aminopeptidase-N Complexed
With Substance P
Length = 908
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 32/59 (54%), Gaps = 11/59 (18%)
Query: 3 LSLSLLVSTWSEILQNY----FGFTNRVEKVIRRSASFGTKSFKKEDLQTLHKFKGSDI 57
L+ + S W ++ Q+Y F F+N ++ V RR +S + +LQ L +FK +++
Sbjct: 810 LAWDFVQSNWKKLFQDYGGGSFSFSNLIQGVTRRFSS-------EFELQQLEQFKKNNM 861
>pdb|3AXA|A Chain A, Crystal Structure Of Afadin Pdz Domain In Complex With The
C-Terminal Peptide From Nectin-3
pdb|3AXA|B Chain B, Crystal Structure Of Afadin Pdz Domain In Complex With The
C-Terminal Peptide From Nectin-3
Length = 106
Score = 28.1 bits (61), Expect = 8.1, Method: Composition-based stats.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 296 LSTSRALYVGQKKKGVFQHSSFLSGGAITAAGRLVAHDGILEV 338
LS A GQ K G++ S + GGA GRL A D +L V
Sbjct: 25 LSIVAAKGAGQDKLGIYV-KSVVKGGAADVDGRLAAGDQLLSV 66
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 0.133 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,151,733
Number of Sequences: 62578
Number of extensions: 412014
Number of successful extensions: 1020
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 1020
Number of HSP's gapped (non-prelim): 18
length of query: 339
length of database: 14,973,337
effective HSP length: 99
effective length of query: 240
effective length of database: 8,778,115
effective search space: 2106747600
effective search space used: 2106747600
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: 52 (24.6 bits)