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= 030020
(184 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XB3|A Chain A, The Structure Of Cyanobacterial Psbp
Length = 165
Score = 35.4 bits (80), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 73/171 (42%), Gaps = 20/171 (11%)
Query: 20 AANEDLRVYTDELNKFEISIPQDW-QLGAGEPNGFKSITAFYPQEASSSSVSVVITGLGP 78
+A L+ Y D + +E P+ W Q+ +P F+ ++ +VSVV+ +
Sbjct: 3 SATSGLQAYVDSYDGYEFLYPRGWVQVQVEDPVDV----VFHDIIETTENVSVVVNTVA- 57
Query: 79 DFTRMESFGKVEAFADTLVSGL---DRSWRRPPGVAAKLIDCKASKGFYYI-EYTLQNPG 134
+E G E D L+ + S R +AA KA YYI EY + PG
Sbjct: 58 STKSLEELGSPEEVGDRLLRNIIAPSESGRSSALIAAT--SQKADDKTYYILEYAVTLPG 115
Query: 135 E----SRKHLFSAIGMASNGWYNRLYTVTGQFVEEESEKYGSNIEKAVASF 181
+ ++H S+I ++ ++YT++ EE K + V+SF
Sbjct: 116 DGNTAQQRHNLSSIAVSR----GKVYTLSVSAPEERWPKVEDQFKTIVSSF 162
>pdb|1FRF|L Chain L, Crystal Structure Of The Ni-Fe Hydrogenase From
Desulfovibrio Fructosovorans
Length = 564
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 18/31 (58%)
Query: 25 LRVYTDELNKFEISIPQDWQLGAGEPNGFKS 55
+R+ +++ F++ +P W LG P G KS
Sbjct: 483 IRIKGKKIDNFQLVVPSTWNLGPRGPQGDKS 513
>pdb|3NH4|A Chain A, Crystal Structure Of Murine Aminoacylase 3
Length = 327
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 122 GFYYIEYTLQNPGESRKHLFSAIGMASN 149
G Y Y LQNPGE ++ FSA+ + +N
Sbjct: 36 GVYLARYWLQNPGELQRPSFSAMPVLAN 63
>pdb|3NFZ|A Chain A, Crystal Structure Of Murine Aminoacylase 3 In Complex With
N-Acetyl-L- Tyrosine
pdb|3NH5|A Chain A, Crystal Structure Of E177a-Mutant Murine Aminoacylase 3
pdb|3NH8|A Chain A, Crystal Structure Of Murine Aminoacylase 3 In Complex With
N-Acetyl-S- 1,2-Dichlorovinyl-L-Cysteine
Length = 327
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/28 (46%), Positives = 18/28 (64%)
Query: 122 GFYYIEYTLQNPGESRKHLFSAIGMASN 149
G Y Y LQNPGE ++ FSA+ + +N
Sbjct: 36 GVYLARYWLQNPGELQRPSFSAMPVLAN 63
>pdb|1YEI|L Chain L, Catalytic Antibody D2.3 Complex
pdb|1YEJ|L Chain L, Catalytic Antibody Complex
pdb|1YEK|L Chain L, Catalytic Antibody D2.3 Complex
pdb|1KN2|L Chain L, Catalytic Antibody D2.3 Complex
pdb|1KN4|L Chain L, Catalytic Antibody D2.3 Complex
Length = 219
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 115 IDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNRL 155
I CK+S+ G Y+ + LQ PG+S K L + +G +R+
Sbjct: 21 ISCKSSQSLLYSNGKTYLNWLLQRPGQSPKRLIHLVSKLDSGVPDRI 67
>pdb|1YEC|L Chain L, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.3)
pdb|1YEF|L Chain L, Structure Of Igg2a Fab Fragment (D2.3) Complexed With
Substrate Analogue
pdb|1YEG|L Chain L, Structure Of Igg2a Fab Fragment (D2.3) Complexed With
Reaction Product
pdb|1YEH|L Chain L, Structure Of Igg2a Fab Fragment
Length = 219
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 24/47 (51%), Gaps = 6/47 (12%)
Query: 115 IDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNRL 155
I CK+S+ G Y+ + LQ PG+S K L + +G +R+
Sbjct: 21 ISCKSSQSLLYSNGKTYLNWLLQRPGQSPKRLIHLVSKLDSGVPDRI 67
>pdb|3QEH|B Chain B, Crystal Structure Of Human N12-I15, An Adcc And
Non-Neutralizing Anti- Hiv-1 Env Antibody
pdb|3QEH|D Chain D, Crystal Structure Of Human N12-I15, An Adcc And
Non-Neutralizing Anti- Hiv-1 Env Antibody
pdb|3QEH|F Chain F, Crystal Structure Of Human N12-I15, An Adcc And
Non-Neutralizing Anti- Hiv-1 Env Antibody
pdb|3QEH|H Chain H, Crystal Structure Of Human N12-I15, An Adcc And
Non-Neutralizing Anti- Hiv-1 Env Antibody
Length = 218
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 24/40 (60%), Gaps = 7/40 (17%)
Query: 108 PGVAAKLIDCKASK------GFYYIEYTLQNPGESRKHLF 141
PG AA I C++S+ GF Y+++ LQ PG+S + L
Sbjct: 15 PGEAAS-ISCRSSQSLLHTNGFQYLDWYLQKPGQSPQLLI 53
>pdb|2EH8|L Chain L, Crystal Structure Of The Complex Of Humanized Kr127 Fab
And Pres1 Peptide Epitope
Length = 218
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 7/53 (13%)
Query: 108 PGVAAKLIDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNR 154
PG A I CK+S+ G Y+ + LQ PG+S K L + +G +R
Sbjct: 15 PGQPAS-ISCKSSQSLLYSNGKTYLNWLLQKPGQSPKRLIYLVSKLDSGVPDR 66
>pdb|2EH7|L Chain L, Crystal Structure Of Humanized Kr127 Fab
Length = 219
Score = 28.9 bits (63), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 26/53 (49%), Gaps = 7/53 (13%)
Query: 108 PGVAAKLIDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNR 154
PG A I CK+S+ G Y+ + LQ PG+S K L + +G +R
Sbjct: 15 PGQPAS-ISCKSSQSLLYSNGKTYLNWLLQKPGQSPKRLIYLVSKLDSGVPDR 66
>pdb|1PS9|A Chain A, The Crystal Structure And Reaction Mechanism Of E. Coli
2,4- Dienoyl Coa Reductase
Length = 671
Score = 28.5 bits (62), Expect = 2.5, Method: Composition-based stats.
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 50 PNGFKSITAFYPQEASSSSVSVVITGLGPDFT 81
P+G + + AFY + A +V G+ PD T
Sbjct: 33 PDGAERLAAFYAERARHGVALIVSGGIAPDLT 64
>pdb|2W60|B Chain B, Anti Citrullinated Collagen Type 2 Antibody Acc4
pdb|2W65|B Chain B, Anti Citrullinated Collagen Type 2 Antibody Acc4 In
Complex With A Citrullinated Peptide
pdb|2W65|D Chain D, Anti Citrullinated Collagen Type 2 Antibody Acc4 In
Complex With A Citrullinated Peptide
Length = 217
Score = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Query: 115 IDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNR 154
I CK+S+ G Y+ + LQ PG+S K L + +G +R
Sbjct: 21 ISCKSSQSLLDSDGKTYLNWLLQRPGQSPKRLIYLVSKLDSGVPDR 66
>pdb|3LEY|L Chain L, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 6a7 In Complex With Hiv-1 Gp41
Length = 219
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 6/46 (13%)
Query: 115 IDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNR 154
I CK+S+ G Y+ + LQ PG+S K L + ++G +R
Sbjct: 21 ISCKSSQSLLDSDGKTYLNWLLQRPGQSPKRLIYLVSKLASGVPDR 66
>pdb|3LEX|L Chain L, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 11f10 In Complex With Hiv-1 Gp41
pdb|3LEX|B Chain B, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 11f10 In Complex With Hiv-1 Gp41
Length = 219
Score = 27.7 bits (60), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 24/46 (52%), Gaps = 6/46 (13%)
Query: 115 IDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNR 154
I CK+S+ G Y+ + LQ PG+S K L + ++G +R
Sbjct: 21 ISCKSSQSLLDSDGKTYLNWLLQRPGQSPKRLIYLVSKLASGVPDR 66
>pdb|1TPX|C Chain C, Ovine Recombinant Prp(114-234), Arq Variant In Complex
With The Fab Of The Vrq14 Antibody
pdb|1TQB|C Chain C, Ovine Recombinant Prp(114-234), Vrq Variant In Complex
With The Fab Of The Vrq14 Antibody
pdb|1TQC|C Chain C, Ovine Recombinant Prp(114-234), Arr Variant In Complex
With The Vrq14 Fab Fragment (Igg2a)
Length = 219
Score = 27.7 bits (60), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Query: 115 IDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNR 154
I CK+S+ G Y+ + LQ PG+S K L + +G +R
Sbjct: 21 ISCKSSQSLLDSDGKTYLNWLLQRPGQSPKRLIYLVSRLDSGVPDR 66
>pdb|1NLD|L Chain L, Fab Fragment Of A Neutralizing Antibody Directed Against
An Epitope Of Gp41 From Hiv-1
Length = 219
Score = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Query: 115 IDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNR 154
I CK+S+ G Y+ + LQ PG+S K L + +G +R
Sbjct: 21 ISCKSSQSLLDSDGKTYLNWLLQRPGQSPKRLIYLVSKLDSGVPDR 66
>pdb|1Q72|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With Cocaine
pdb|1QYG|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With Benzoylecgonine
pdb|1RFD|L Chain L, Anti-Cocaine Antibody M82g2
pdb|1RIU|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With
Norbenzoylecgonine
pdb|1RIV|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With Meta-
Oxybenzoylecgonine
Length = 218
Score = 27.3 bits (59), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 25/47 (53%), Gaps = 6/47 (12%)
Query: 115 IDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNRL 155
I C++SK G+ Y+ + LQ PG+S + L + ++G +R
Sbjct: 21 ISCRSSKSLLHSNGYTYLHWFLQRPGQSPQLLIYRVSNLASGVPDRF 67
>pdb|3SGD|L Chain L, Crystal Structure Of The Mouse Mab 17.2
pdb|3SGD|I Chain I, Crystal Structure Of The Mouse Mab 17.2
pdb|3SGE|L Chain L, Crystal Structure Of Mab 17.2 In Complex With R13 Peptide
pdb|3SGE|I Chain I, Crystal Structure Of Mab 17.2 In Complex With R13 Peptide
Length = 219
Score = 27.3 bits (59), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Query: 115 IDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNR 154
I CK+S+ G Y+ + LQ PG+S K L + +G +R
Sbjct: 21 ISCKSSQSLLDSDGKTYLNWLLQRPGQSPKRLIYLVSKLDSGVPDR 66
>pdb|1YEE|L Chain L, Structure Of A Catalytic Antibody, Igg2a Fab Fragment
(D2.5)
Length = 219
Score = 27.3 bits (59), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Query: 115 IDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNR 154
I CK+S+ G Y+ + LQ PG+S K L + +G +R
Sbjct: 21 ISCKSSQSLLYSNGKTYLSWLLQRPGQSPKRLIYLVSKLDSGVPDR 66
>pdb|1YED|L Chain L, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.4)
pdb|1YED|A Chain A, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.4)
Length = 219
Score = 27.3 bits (59), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Query: 115 IDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNR 154
I CK+S+ G Y+ + LQ PG+S K L + +G +R
Sbjct: 21 ISCKSSQSLLYSNGKTYLNWLLQRPGQSPKRLIYLVSKLESGVPDR 66
>pdb|2C1P|A Chain A, Fab-Fragment Of Enantioselective Antibody Complexed With
Finrozole
pdb|2C1P|L Chain L, Fab-Fragment Of Enantioselective Antibody Complexed With
Finrozole
Length = 218
Score = 26.9 bits (58), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%), Gaps = 6/46 (13%)
Query: 115 IDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNR 154
I CK+S+ G Y+ + LQ PG+S K L + +G +R
Sbjct: 21 ISCKSSQSLLYSNGKTYLNWLLQRPGQSPKRLIYLVSKLDSGDPDR 66
>pdb|2Q76|B Chain B, Mouse Anti-Hen Egg White Lysozyme Antibody F10.6.6 Fab
Fragment
pdb|2Q76|D Chain D, Mouse Anti-Hen Egg White Lysozyme Antibody F10.6.6 Fab
Fragment
Length = 216
Score = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 6/51 (11%)
Query: 108 PGVAAKLIDCKASKGF----YYIEYTLQNPGESRKHLFSAIGMASNGWYNR 154
PG + K I CKA+ G+ Y+IE+ Q PG S + + + + + +YN
Sbjct: 14 PGASVK-ISCKAT-GYTFTTYWIEWIKQRPGHSLEWIGEILPGSDSTYYNE 62
>pdb|2C1O|A Chain A, Enaiihis Fab Fragment In The Free Form
pdb|2C1O|L Chain L, Enaiihis Fab Fragment In The Free Form
Length = 254
Score = 26.9 bits (58), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 21/42 (50%), Gaps = 6/42 (14%)
Query: 115 IDCKASK------GFYYIEYTLQNPGESRKHLFSAIGMASNG 150
I CK+S+ G Y+ + LQ PG+S K L + +G
Sbjct: 58 ISCKSSQSLLYSNGKTYLNWLLQRPGQSPKRLIYLVSKLDSG 99
>pdb|1P2C|B Chain B, Crystal Structure Analysis Of An Anti-Lysozyme Antibody
pdb|1P2C|E Chain E, Crystal Structure Analysis Of An Anti-Lysozyme Antibody
Length = 218
Score = 26.9 bits (58), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 28/51 (54%), Gaps = 6/51 (11%)
Query: 108 PGVAAKLIDCKASKGF----YYIEYTLQNPGESRKHLFSAIGMASNGWYNR 154
PG + K I CKA+ G+ Y+IE+ Q PG S + + + + + +YN
Sbjct: 14 PGASVK-ISCKAT-GYTFTTYWIEWIKQRPGHSLEWIGEILPGSDSTYYNE 62
>pdb|1PLG|H Chain H, Evidence For The Extended Helical Nature Of Polysaccharide
Epitopes. The 2.8 Angstroms Resolution Structure And
Thermodynamics Of Ligand Binding Of An Antigen Binding
Fragment Specific For Alpha-(2->8)- Polysialic Acid
Length = 215
Score = 26.6 bits (57), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 16/32 (50%), Positives = 19/32 (59%), Gaps = 6/32 (18%)
Query: 108 PGVAAKLIDCKASKGF----YYIEYTLQNPGE 135
PG + K I CKAS G+ YYI + Q PGE
Sbjct: 14 PGASVK-ISCKAS-GYTFTDYYIHWVKQRPGE 43
>pdb|1MLB|B Chain B, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme
pdb|1MLC|B Chain B, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme Complexed With Lysozyme
pdb|1MLC|D Chain D, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme Complexed With Lysozyme
Length = 218
Score = 26.2 bits (56), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 4/63 (6%)
Query: 108 PGVAAKLIDCKASK---GFYYIEYTLQNPGESRKHLFSAIGMASNGWYNRLYTVTGQFVE 164
PG + K I CKA+ Y+IE+ Q PG + + + + + +YN + F
Sbjct: 14 PGASVK-ISCKATGYTFSTYWIEWVKQRPGHGLEWIGEILPGSGSTYYNEKFKGKATFTA 72
Query: 165 EES 167
+ S
Sbjct: 73 DTS 75
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 0.133 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,599,328
Number of Sequences: 62578
Number of extensions: 228652
Number of successful extensions: 927
Number of sequences better than 100.0: 30
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 918
Number of HSP's gapped (non-prelim): 33
length of query: 184
length of database: 14,973,337
effective HSP length: 93
effective length of query: 91
effective length of database: 9,153,583
effective search space: 832976053
effective search space used: 832976053
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: 48 (23.1 bits)