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= 031210
(164 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3D0R|A Chain A, Crystal Structure Of Calg3 From Micromonospora Echinospora
Determined In Space Group P2(1)
pdb|3D0R|B Chain B, Crystal Structure Of Calg3 From Micromonospora Echinospora
Determined In Space Group P2(1)
pdb|3OTI|A Chain A, Crystal Structure Of Calg3, Calicheamicin
Glycostyltransferase, Tdp And Calicheamicin T0 Bound
Form
pdb|3OTI|B Chain B, Crystal Structure Of Calg3, Calicheamicin
Glycostyltransferase, Tdp And Calicheamicin T0 Bound
Form
Length = 398
Score = 36.6 bits (83), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 47/92 (51%), Gaps = 3/92 (3%)
Query: 57 GGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEV 116
GGG VM ++ + Q + D R F+ + +GI L S ++ DAD LR + +
Sbjct: 307 GGGGTVMTAIDAGIPQLLAPDPRDQFQHTAREAVSRRGIGLVSTSDKVDADLLRRLIGDE 366
Query: 117 ICDSGSERRQYEEALISI-TIDESLKRYCQRI 147
+ + R+ E ++++ T E+++R +RI
Sbjct: 367 SLRTAA--REVREEMVALPTPAETVRRIVERI 396
>pdb|3D0Q|A Chain A, Crystal Structure Of Calg3 From Micromonospora Echinospora
Determined In Space Group I222
pdb|3D0Q|B Chain B, Crystal Structure Of Calg3 From Micromonospora Echinospora
Determined In Space Group I222
Length = 398
Score = 34.3 bits (77), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 43/91 (47%), Gaps = 1/91 (1%)
Query: 57 GGGSPVMKKVERYLVQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAVKEV 116
GGG V ++ + Q + D R F+ + +GI L S ++ DAD LR + +
Sbjct: 307 GGGGTVXTAIDAGIPQLLAPDPRDQFQHTAREAVSRRGIGLVSTSDKVDADLLRRLIGDE 366
Query: 117 ICDSGSERRQYEEALISITIDESLKRYCQRI 147
+ + R EE + T E+++R +RI
Sbjct: 367 SLRTAA-REVREEXVALPTPAETVRRIVERI 396
>pdb|3CFD|H Chain H, Purple-fluorescent Antibody Ep2-25c10 In Complex With Its
Stilbene Hapten
pdb|3CFD|B Chain B, Purple-fluorescent Antibody Ep2-25c10 In Complex With Its
Stilbene Hapten
pdb|3CFE|H Chain H, Crystal Structure Of Purple-Fluorescent Antibody Ep2-25c10
pdb|3CFE|B Chain B, Crystal Structure Of Purple-Fluorescent Antibody Ep2-25c10
Length = 220
Score = 30.4 bits (67), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 25/47 (53%), Gaps = 5/47 (10%)
Query: 122 SERRQYEEALISITIDESLKRYCQR-----IGRSDFWGGESELLVST 163
+ + Q+ L S+T +++ YC R GR D+WG + + VS+
Sbjct: 74 TSKNQFFLQLNSVTTEDTATYYCARSDYGNYGRGDYWGQGTSVTVSS 120
>pdb|3BY4|A Chain A, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
Length = 212
Score = 30.4 bits (67), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 41/90 (45%), Gaps = 20/90 (22%)
Query: 71 VQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLR-MAVKEVICDSGSERRQYEE 129
V V D CLF A+ G+ +++ DLR M KEV+ + ++ +
Sbjct: 22 VHPVLDDNSCLFHAIAYGIF-----------KQDSVRDLREMVSKEVL----NNPVKFND 66
Query: 130 ALISITIDESLKRYCQRIGRSDFWGGESEL 159
A++ D+ K Y Q I + + WGG E+
Sbjct: 67 AIL----DKPNKDYAQWILKMESWGGAIEI 92
>pdb|3C0R|A Chain A, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
pdb|3C0R|C Chain C, Structure Of Ovarian Tumor (Otu) Domain In Complex With
Ubiquitin
Length = 212
Score = 29.6 bits (65), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 41/90 (45%), Gaps = 20/90 (22%)
Query: 71 VQRVTGDGRCLFRALVKGMALNKGINLNSREEREDADDLRMAV-KEVICDSGSERRQYEE 129
V V D CLF A+ G+ +++ DLR V KEV+ + ++ +
Sbjct: 22 VHPVLDDNSCLFHAIAYGIF-----------KQDSVRDLREXVSKEVL----NNPVKFND 66
Query: 130 ALISITIDESLKRYCQRIGRSDFWGGESEL 159
A++ D+ K Y Q I + + WGG E+
Sbjct: 67 AIL----DKPNKDYAQWILKXESWGGAIEI 92
>pdb|1IGY|B Chain B, Structure Of Immunoglobulin
pdb|1IGY|D Chain D, Structure Of Immunoglobulin
Length = 434
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 131 LISITIDESLKRYCQRIGRSDFWGGESELLVST 163
L S+T D+S YC R G +WG + + VS+
Sbjct: 82 LSSLTSDDSAVYYCVREGEVPYWGQGTTVTVSS 114
>pdb|1NDM|B Chain B, Crystal Structure Of Fab Fragment Of Antibody Hyhel-26
Complexed With Lysozyme
Length = 210
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 122 SERRQYEEALISITIDESLKRYCQRIGRSDFWGGESELLVST 163
+ + QY L S+T +++ YC R D+WG + + VS+
Sbjct: 73 TSKNQYYLQLNSVTTEDTATYYCARW-EMDYWGQGTSVTVSS 113
>pdb|2Y36|H Chain H, Crystal Structure Analysis Of The Anti-(4-Hydroxy-3-
Nitrophenyl)- Acetyl Murine Germline Antibody Bbe6.12h3
Fab Fragment In Complex With A Phage Display Derived
Dodecapeptide Dlwttaiptips
Length = 220
Score = 28.9 bits (63), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/38 (42%), Positives = 23/38 (60%), Gaps = 5/38 (13%)
Query: 131 LISITIDESLKRYCQRI---GRS--DFWGGESELLVST 163
L S+T ++S YC R G S D+WGG++ L VS+
Sbjct: 83 LSSLTSEDSAVYYCARYDYYGGSYFDYWGGQTTLTVSS 120
>pdb|4AEH|H Chain H, Crystal Structure Of The Anti-Aahi Fab9c2 Antibody
Length = 231
Score = 28.5 bits (62), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 30/74 (40%), Gaps = 13/74 (17%)
Query: 94 GINLNSREEREDADDLRMAVKEVICDSGSERRQYEEALISITIDESLKRYCQRI----GR 149
G N N E + K + S Y + L S+T D+S YC R G
Sbjct: 55 GSNTNHNE--------KFKSKATLTADTSSSTAYMQ-LSSLTSDDSAVYYCARYDGDYGS 105
Query: 150 SDFWGGESELLVST 163
D+WG + L VS+
Sbjct: 106 FDYWGQGTTLTVSS 119
>pdb|2JIX|D Chain D, Crystal Structure Of Abt-007 Fab Fragment With The Soluble
Domain Of Epo Receptor
pdb|2JIX|F Chain F, Crystal Structure Of Abt-007 Fab Fragment With The Soluble
Domain Of Epo Receptor
pdb|2JIX|H Chain H, Crystal Structure Of Abt-007 Fab Fragment With The Soluble
Domain Of Epo Receptor
Length = 217
Score = 28.1 bits (61), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 13/44 (29%), Positives = 25/44 (56%), Gaps = 2/44 (4%)
Query: 122 SERRQYEEALISITIDESLKRYC--QRIGRSDFWGGESELLVST 163
+ + Q+ L S+T ++ YC +R+G D+WG + + VS+
Sbjct: 73 TSKNQFSLKLRSVTAADTAVYYCARERLGIGDYWGQGTLVTVSS 116
>pdb|1CNT|1 Chain 1, Ciliary Neurotrophic Factor
pdb|1CNT|2 Chain 2, Ciliary Neurotrophic Factor
pdb|1CNT|3 Chain 3, Ciliary Neurotrophic Factor
pdb|1CNT|4 Chain 4, Ciliary Neurotrophic Factor
Length = 187
Score = 27.3 bits (59), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 69 YLVQRVTGDGRCLFRALVKGMALNKGINLNS 99
+L +++ D L + VK LNK INL+S
Sbjct: 22 WLARKIRSDLTALTESYVKHQGLNKNINLDS 52
>pdb|2XQY|G Chain G, Crystal Structure Of Pseudorabies Core Fragment Of
Glycoprotein H In Complex With Fab D6.3
pdb|2XQY|J Chain J, Crystal Structure Of Pseudorabies Core Fragment Of
Glycoprotein H In Complex With Fab D6.3
Length = 261
Score = 26.9 bits (58), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%), Gaps = 3/36 (8%)
Query: 131 LISITIDESLKRYCQRIGRS---DFWGGESELLVST 163
L S+T ++S YC R+G D+WG + L VS+
Sbjct: 89 LSSLTSEDSAVYYCGRLGYVYGFDYWGQGTTLTVSS 124
>pdb|1NMB|H Chain H, The Structure Of A Complex Between The Nc10 Antibody And
Influenza Virus Neuraminidase And Comparison With The
Overlapping Binding Site Of The Nc41 Antibody
Length = 122
Score = 26.6 bits (57), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 7/40 (17%)
Query: 131 LISITIDESLKRYCQRIGRS-------DFWGGESELLVST 163
L S+T ++S YC R G S D+WG + L VS+
Sbjct: 83 LSSLTSEDSAVYYCARSGGSYRYDGGFDYWGQGTTLTVSS 122
>pdb|1NMA|H Chain H, N9 Neuraminidase Complexes With Antibodies Nc41 And Nc10:
Empirical Free-Energy Calculations Capture Specificity
Trends Observed With Mutant Binding Data
Length = 122
Score = 26.6 bits (57), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 21/40 (52%), Gaps = 7/40 (17%)
Query: 131 LISITIDESLKRYCQRIGRS-------DFWGGESELLVST 163
L S+T ++S YC R G S D+WG + L VS+
Sbjct: 83 LSSLTSEDSAVYYCARSGGSYRYDGGFDYWGQGTTLTVSS 122
>pdb|3QUM|B Chain B, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
pdb|3QUM|D Chain D, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
Length = 219
Score = 26.2 bits (56), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 20/35 (57%), Gaps = 2/35 (5%)
Query: 131 LISITIDESLKRYCQRIGR--SDFWGGESELLVST 163
L S+T ++S YC R GR D WG + + VS+
Sbjct: 83 LNSLTSEDSAVYYCARSGRLYFDVWGAGTTVTVSS 117
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 0.136 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,609,530
Number of Sequences: 62578
Number of extensions: 177647
Number of successful extensions: 406
Number of sequences better than 100.0: 20
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 399
Number of HSP's gapped (non-prelim): 20
length of query: 164
length of database: 14,973,337
effective HSP length: 91
effective length of query: 73
effective length of database: 9,278,739
effective search space: 677347947
effective search space used: 677347947
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: 47 (22.7 bits)