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= 023598
(280 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3UPC|A Chain A, A General Strategy For The Generation Of Human Antibody
Variable Domains With Increased Aggregation Resistance
pdb|3UPC|B Chain B, A General Strategy For The Generation Of Human Antibody
Variable Domains With Increased Aggregation Resistance
pdb|3UPC|C Chain C, A General Strategy For The Generation Of Human Antibody
Variable Domains With Increased Aggregation Resistance
pdb|3UPC|D Chain D, A General Strategy For The Generation Of Human Antibody
Variable Domains With Increased Aggregation Resistance
pdb|3UPC|E Chain E, A General Strategy For The Generation Of Human Antibody
Variable Domains With Increased Aggregation Resistance
pdb|3UPC|F Chain F, A General Strategy For The Generation Of Human Antibody
Variable Domains With Increased Aggregation Resistance
pdb|3UPC|G Chain G, A General Strategy For The Generation Of Human Antibody
Variable Domains With Increased Aggregation Resistance
pdb|3UPC|H Chain H, A General Strategy For The Generation Of Human Antibody
Variable Domains With Increased Aggregation Resistance
pdb|3UPC|I Chain I, A General Strategy For The Generation Of Human Antibody
Variable Domains With Increased Aggregation Resistance
pdb|3UPC|J Chain J, A General Strategy For The Generation Of Human Antibody
Variable Domains With Increased Aggregation Resistance
Length = 113
Score = 32.0 bits (71), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 32/120 (26%), Positives = 51/120 (42%), Gaps = 24/120 (20%)
Query: 3 TLLLPAGRSGISPTAAAASHLRRAPSLNIGTNVSFLSSNSLPSLKTLQSSSLANRGSKHC 62
+L L SG + + S +R+AP G + ++S+ S T + S+ R
Sbjct: 15 SLRLSCAASGFTFSDEDMSWVRQAP----GKGLEWVSAISGSGGSTYYADSVKGR----- 65
Query: 63 FPILASSQIPPTFTSQNDESEKAKLAQV-SKRLENTARHF--KRFGSFGFWGQLVCTVVS 119
FT D S+ Q+ S R E+TA ++ K +G+F +WGQ VS
Sbjct: 66 ------------FTISRDNSKNTLYLQMNSLRAEDTAVYYCAKSYGAFDYWGQGTLVTVS 113
>pdb|1AXT|H Chain H, Immune Versus Natural Selection: Antibody Aldolases With
The Rates Of Natural Enzymes
pdb|3FO9|H Chain H, Crystal Structure Of Aldolase Antibody 33f12 Fab' In
Complex With Hapten 1,3-Diketone
pdb|3FO9|B Chain B, Crystal Structure Of Aldolase Antibody 33f12 Fab' In
Complex With Hapten 1,3-Diketone
Length = 218
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%), Gaps = 2/46 (4%)
Query: 77 SQNDESEKAKLAQVSKRLENTARHFKR--FGSFGFWGQLVCTVVSA 120
S++D + L S R E+T ++ + F SF +WGQ VSA
Sbjct: 73 SRDDSKSRLYLQMNSLRTEDTGIYYCKIYFYSFSYWGQGTLVTVSA 118
>pdb|3I2C|H Chain H, Crystal Structure Of Anti-Il-23 Antibody Cnto4088
Length = 222
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 31/69 (44%), Gaps = 5/69 (7%)
Query: 57 RGSKHCFPILASSQIPPTFTSQNDESEKA-KLAQVSKRLENTARHFKR----FGSFGFWG 111
R H + + + FT D+S+ L + + E+TA ++ +GSF +WG
Sbjct: 52 RSKSHNYATDYADPVKDRFTISRDDSQGLLYLLMNNLKTEDTAMYYCMREGIYGSFAYWG 111
Query: 112 QLVCTVVSA 120
Q VSA
Sbjct: 112 QGTLVTVSA 120
>pdb|1V7M|H Chain H, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7M|I Chain I, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|H Chain H, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|I Chain I, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|J Chain J, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|K Chain K, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|2ZKH|H Chain H, Human Thrombopoietin Neutralizing Antibody Tn1 Fab
Length = 217
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 25/47 (53%), Gaps = 1/47 (2%)
Query: 75 FTSQNDESEKAKLAQV-SKRLENTARHFKRFGSFGFWGQLVCTVVSA 120
FT D+S+ + Q+ S R E+T ++ SF +WGQ VSA
Sbjct: 70 FTVSRDDSKSSVYLQMNSLRAEDTGIYYCSGWSFLYWGQGTLVTVSA 116
>pdb|2XKN|B Chain B, Crystal Structure Of The Fab Fragment Of The Anti-Egfr
Antibody 7a7
pdb|2XKN|D Chain D, Crystal Structure Of The Fab Fragment Of The Anti-Egfr
Antibody 7a7
Length = 216
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 37/93 (39%), Gaps = 9/93 (9%)
Query: 75 FTSQNDESEKAKLAQVSK-RLENTARHF--KRFGSFGFWGQLVCTVVSAV------ILSF 125
FT D + Q+S R E+TA ++ + G F +WGQ VSA +
Sbjct: 68 FTISRDNVKNTLYLQMSSLRSEDTAMYYCARDSGGFAYWGQGTLVTVSAAKTTPPSVYPL 127
Query: 126 SIIITGKVTSPTTFYCTAGGIAAAFISVFWSFG 158
+ + S T C G ++V W+ G
Sbjct: 128 APVCGDTTGSSVTLGCLVKGYFPEPVTVTWNSG 160
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
0.317 0.130 0.374
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,737,621
Number of Sequences: 62578
Number of extensions: 230425
Number of successful extensions: 611
Number of sequences better than 100.0: 22
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 611
Number of HSP's gapped (non-prelim): 22
length of query: 280
length of database: 14,973,337
effective HSP length: 98
effective length of query: 182
effective length of database: 8,840,693
effective search space: 1609006126
effective search space used: 1609006126
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: 51 (24.3 bits)