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= psy10916
(137 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1N64|L Chain L, Crystal Structure Analysis Of The Immunodominant Antigenic
Site On Hepatitis C Virus Protein Bound To Mab 19d9d6
pdb|1NLB|L Chain L, Crystal Structure Of Anti-Hcv Monoclonal Antibody 19d9d6
pdb|1XCQ|A Chain A, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|C Chain C, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|E Chain E, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|G Chain G, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCT|A Chain A, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (D55a, L57h,
Y64w) In Space Group P21212
pdb|1XCT|C Chain C, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (D55a, L57h,
Y64w) In Space Group P21212
pdb|1XF5|A Chain A, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (H74c,
Y64w)in Space Group P21212
pdb|1XF5|C Chain C, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (H74c,
Y64w)in Space Group P21212
pdb|1YMH|A Chain A, Anti-hcv Fab 19d9d6 Complexed With Protein L (ppl) Mutant
A66w
pdb|1YMH|C Chain C, Anti-hcv Fab 19d9d6 Complexed With Protein L (ppl) Mutant
A66w
Length = 220
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 17 YLK-ASIPTFQFGRGVKKEL-RSATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
Y K A IP FG G K EL R+ A T + + ++ GG + + + PK + V
Sbjct: 93 YCKQAYIPPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINV 152
>pdb|1MHH|A Chain A, Antibody-Antigen Complex
pdb|1MHH|C Chain C, Antibody-Antigen Complex
Length = 220
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 28/60 (46%), Gaps = 2/60 (3%)
Query: 17 YLK-ASIPTFQFGRGVKKEL-RSATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
Y K A IP FG G K EL R+ A T + + ++ GG + + + PK + V
Sbjct: 93 YCKQAYIPPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINV 152
>pdb|3ODM|A Chain A, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|B Chain B, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|C Chain C, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|D Chain D, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|E Chain E, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|F Chain F, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|G Chain G, Archaeal-Type Phosphoenolpyruvate Carboxylase
pdb|3ODM|H Chain H, Archaeal-Type Phosphoenolpyruvate Carboxylase
Length = 560
Score = 30.0 bits (66), Expect = 0.40, Method: Composition-based stats.
Identities = 18/47 (38%), Positives = 27/47 (57%), Gaps = 4/47 (8%)
Query: 51 LRVMHGGQATLHSIRVLQPK----QVRVDSQDDHDSTREFLWKRSSH 93
LR HG +AT H++R L+ K + R S++D D +EF+ S H
Sbjct: 296 LRYDHGEEATKHAVRELKEKIAQSKPRNFSEEDKDLMKEFIGICSKH 342
>pdb|1JGV|L Chain L, Structural Basis For Disfavored Elimination Reaction In
Catalytic Antibody 1d4
pdb|1JGU|L Chain L, Structural Basis For Disfavored Elimination Reaction In
Catalytic Antibody 1d4
Length = 220
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 15/54 (27%), Positives = 25/54 (46%), Gaps = 1/54 (1%)
Query: 22 IPTFQFGRGVKKEL-RSATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
+P FG G K EL R+ A T + + ++ GG + + + PK + V
Sbjct: 99 VPPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINV 152
>pdb|1BAF|L Chain L, 2.9 Angstroms Resolution Structure Of An
Anti-Dinitrophenyl- Spin-Label Monoclonal Antibody Fab
Fragment With Bound Hapten
Length = 214
Score = 29.6 bits (65), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 1/56 (1%)
Query: 20 ASIPTFQFGRGVKKEL-RSATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
+S P FG G K EL R+ A T + + ++ GG + + + PK + V
Sbjct: 91 SSYPPITFGVGTKLELKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINV 146
>pdb|2ZUQ|B Chain B, Crystal Structure Of Dsbb-Fab Complex
pdb|2ZUQ|E Chain E, Crystal Structure Of Dsbb-Fab Complex
pdb|2LTQ|B Chain B, High Resolution Structure Of Dsbb C41s By Joint
Calculation With Solid-state Nmr And X-ray Data
pdb|2LTQ|E Chain E, High Resolution Structure Of Dsbb C41s By Joint
Calculation With Solid-state Nmr And X-ray Data
Length = 239
Score = 29.6 bits (65), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 17 YLKASIPTFQFGRGVKKEL-RSATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
Y K S + FG G K E+ R+ A T + + ++ GG + + + PK + V
Sbjct: 113 YCKQSYNLYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINV 171
>pdb|1H3P|L Chain L, Structural Characterisation Of A Monoclonal Antibody
Specific For The Pres1 Region Of The Hepatitis B Virus
Length = 240
Score = 29.3 bits (64), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 17 YLKASIPTFQFGRGVKKEL-RSATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
Y K S + FG G K E+ R+ A T + + ++ GG + + + PK + V
Sbjct: 93 YCKQSYSLYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINV 151
>pdb|3I02|A Chain A, Crystal Structure Of S54-10 Antibody In Complex With
Antigen Kdo(2.4)kdo(2.4)kdo
pdb|3I02|C Chain C, Crystal Structure Of S54-10 Antibody In Complex With
Antigen Kdo(2.4)kdo(2.4)kdo
Length = 219
Score = 29.3 bits (64), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 17 YLKASIPTFQFGRGVKKEL-RSATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
Y K S FGRG K E+ R+ A T + + ++ GG + + + PK + V
Sbjct: 93 YCKQSYNLRTFGRGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINV 151
>pdb|1CK0|L Chain L, Anti-Anti-Idiotypic Antibody Against Human Angiotensin Ii,
Unliganded Form
pdb|2CK0|L Chain L, Anti-Anti-Idiotypic Antibody Against Human Angiotensin Ii,
Complex With A Synthetic Cyclic Peptide
pdb|3CK0|L Chain L, Anti-Anti-Idiotypic Antibody Against Human Angiotensin Ii,
Complex With Human Angiotensin Ii
Length = 216
Score = 29.3 bits (64), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 17 YLKASIPTFQFGRGVKKEL-RSATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
Y K S + FG G K E+ R+ A T + + ++ GG + + + PK + V
Sbjct: 93 YCKQSYNLYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINV 151
>pdb|3HNS|L Chain L, Cs-35 Fab Complex With Oligoarabinofuranosyl
Hexasaccharide
pdb|3HNT|L Chain L, Cs-35 Fab Complex With A Linear, Terminal
Oligoarabinofuranosyl Tetrasaccharide From
Lipoarabinomannan
pdb|3HNV|L Chain L, Cs-35 Fab Complex With Oligoarabinofuranosyl
Tetrasaccharide (Branch Part Of Hexasaccharide)
Length = 214
Score = 29.3 bits (64), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 25/53 (47%), Gaps = 1/53 (1%)
Query: 23 PTFQFGRGVKKEL-RSATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
P + FG G K E+ R+ A T + + ++ GG + + + PK + V
Sbjct: 94 PPYTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINV 146
>pdb|2I9L|A Chain A, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
pdb|2I9L|C Chain C, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
pdb|2I9L|E Chain E, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
pdb|2I9L|G Chain G, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
Length = 219
Score = 28.9 bits (63), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 17 YLKASIPTFQFGRGVKKEL-RSATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
Y K S + FG G K E+ R+ A T + + ++ GG + + + PK + V
Sbjct: 93 YCKQSYNLWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINV 151
>pdb|3BAE|L Chain L, Crystal Structure Of Fab Wo2 Bound To The N Terminal
Domain Of Amyloid Beta Peptide (1-28)
Length = 218
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 18 LKASIPTFQFGRGVKKEL-RSATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
+AS+ FG G K EL R+ A T + + ++ GG + + + PK + V
Sbjct: 94 FQASLVPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINV 151
>pdb|3BKC|L Chain L, Crystal Structure Of Anti-Amyloid Beta Fab Wo2 (P21,
Formb)
pdb|3BKJ|L Chain L, Crystal Structure Of Fab Wo2 Bound To The N Terminal
Domain Of Amyloid Beta Peptide (1-16)
pdb|3BKM|L Chain L, Structure Of Anti-Amyloid-Beta Fab Wo2 (Form A, P212121)
Length = 252
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 27/58 (46%), Gaps = 1/58 (1%)
Query: 18 LKASIPTFQFGRGVKKEL-RSATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
+AS+ FG G K EL R+ A T + + ++ GG + + + PK + V
Sbjct: 127 FQASLVPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINV 184
>pdb|3KJ4|L Chain L, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|B Chain B, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 219
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 17 YLKASIPTFQFGRGVKKEL-RSATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
Y S F FG G K E+ R+ A T + + ++ GG + + + PK + V
Sbjct: 93 YCMQSYNLFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINV 151
>pdb|3FMG|L Chain L, Structure Of Rotavirus Outer Capsid Protein Vp7 Trimer In
Co A Neutralizing Fab
Length = 211
Score = 28.1 bits (61), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/53 (28%), Positives = 24/53 (45%), Gaps = 1/53 (1%)
Query: 23 PTFQFGRGVKKELRSA-TATTAEMMGKINLRVMHGGQATLHSIRVLQPKQVRV 74
P FG G K EL+ A A T + + ++ GG + + + PK + V
Sbjct: 94 PPLTFGAGTKLELKRADAAPTVSIFPPSSKQLTSGGASVVCFLNNFYPKDINV 146
>pdb|1ST6|A Chain A, Crystal Structure Of A Cytoskeletal Protein
Length = 1069
Score = 26.6 bits (57), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 15/35 (42%), Positives = 19/35 (54%)
Query: 38 ATATTAEMMGKINLRVMHGGQATLHSIRVLQPKQV 72
ATA A +G N + G QAT+ S R L P+ V
Sbjct: 645 ATAEKAAAVGTANKTTVEGIQATVKSARELTPQVV 679
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
0.320 0.131 0.365
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,911,473
Number of Sequences: 62578
Number of extensions: 86853
Number of successful extensions: 197
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 15
Number of HSP's that attempted gapping in prelim test: 195
Number of HSP's gapped (non-prelim): 17
length of query: 137
length of database: 14,973,337
effective HSP length: 89
effective length of query: 48
effective length of database: 9,403,895
effective search space: 451386960
effective search space used: 451386960
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 46 (22.3 bits)