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= 038555
(239 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3OGO|E Chain E, Structure Of The Gfp:gfp-Nanobody Complex At 2.8 A
Resolution In Spacegroup P21212
pdb|3OGO|F Chain F, Structure Of The Gfp:gfp-Nanobody Complex At 2.8 A
Resolution In Spacegroup P21212
pdb|3OGO|G Chain G, Structure Of The Gfp:gfp-Nanobody Complex At 2.8 A
Resolution In Spacegroup P21212
pdb|3OGO|H Chain H, Structure Of The Gfp:gfp-Nanobody Complex At 2.8 A
Resolution In Spacegroup P21212
Length = 123
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 38/81 (46%), Gaps = 3/81 (3%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQNK 61
+ G LV GS L + G NRY WY+ P K WVA ++ D S +++
Sbjct: 6 VESGGALVQPGGSLRLSCAASGFPVNRYSMRWYRQAPGKEREWVAG-MSSAGDRSSYED- 63
Query: 62 SVVWSANLSK-EVRIPVVLQL 81
SV +S+ + R V LQ+
Sbjct: 64 SVKGRFTISRDDARNTVYLQM 84
>pdb|3K1K|C Chain C, Green Fluorescent Protein Bound To Minimizer Nanobody
pdb|3K1K|D Chain D, Green Fluorescent Protein Bound To Minimizer Nanobody
Length = 123
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 38/81 (46%), Gaps = 3/81 (3%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQNK 61
+ G LV GS L + G NRY WY+ P K WVA ++ D S +++
Sbjct: 7 VESGGALVQPGGSLRLSCAASGFPVNRYSMRWYRQAPGKEREWVAG-MSSAGDRSSYED- 64
Query: 62 SVVWSANLSK-EVRIPVVLQL 81
SV +S+ + R V LQ+
Sbjct: 65 SVKGRFTISRDDARNTVYLQM 85
>pdb|2X89|A Chain A, Structure Of The Beta2_microglobulin Involved In
Amyloidogenesis
pdb|2X89|B Chain B, Structure Of The Beta2_microglobulin Involved In
Amyloidogenesis
pdb|2X89|C Chain C, Structure Of The Beta2_microglobulin Involved In
Amyloidogenesis
Length = 128
Score = 31.6 bits (70), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 22/46 (47%), Gaps = 1/46 (2%)
Query: 9 VSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPIND 54
V GS L + G + +RY W++ P K WVA RIN D
Sbjct: 12 VQAGGSLRLSCAASGYTDSRYCMAWFRQAPGKEREWVA-RINSGRD 56
>pdb|1FL3|H Chain H, Crystal Structure Of The Blue Fluorescent Antibody
(19g2) In Complex With Stilbene Hapten At 277k
pdb|1FL3|A Chain A, Crystal Structure Of The Blue Fluorescent Antibody
(19g2) In Complex With Stilbene Hapten At 277k
Length = 208
Score = 31.2 bits (69), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVAN 47
L G LV GS +L + G + +RY+ W + +P K + WVA+
Sbjct: 4 LESGGGLVKPGGSLKLSCTASGITFSRYIMSWVRQIPEKRLEWVAS 49
>pdb|1UB5|H Chain H, Crystal Structure Of Antibody 19g2 With Hapten At 100k
pdb|1UB5|A Chain A, Crystal Structure Of Antibody 19g2 With Hapten At 100k
Length = 209
Score = 31.2 bits (69), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVAN 47
L G LV GS +L + G + +RY+ W + +P K + WVA+
Sbjct: 5 LESGGGLVKPGGSLKLSCTASGITFSRYIMSWVRQIPEKRLEWVAS 50
>pdb|1UB6|H Chain H, Crystal Structure Of Antibody 19g2 With Sera Ligand
pdb|1UB6|A Chain A, Crystal Structure Of Antibody 19g2 With Sera Ligand
Length = 208
Score = 31.2 bits (69), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 25/46 (54%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVAN 47
L G LV GS +L + G + +RY+ W + +P K + WVA+
Sbjct: 4 LESGGGLVKPGGSLKLSCTASGITFSRYIMSWVRQIPEKRLEWVAS 49
>pdb|3LS4|H Chain H, Crystal Structure Of Anti-Tetrahydrocannabinol Fab
Fragment With Thc
pdb|3LS5|H Chain H, Anti-Tetrahydrocannabinol Fab Fragment, Free Form
Length = 219
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 24/46 (52%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVAN 47
+ G LV GS +L + G + N YV +W + P K + WVA+
Sbjct: 5 VESGGGLVKPGGSLKLSCAASGFTFNNYVMVWLRQTPEKRLEWVAS 50
>pdb|4HDK|A Chain A, Crystal Structure Of Arsab In Complex With Phloroglucinol
pdb|4HDM|A Chain A, Crystal Structure Of Arsab In Complex With P-cresol
pdb|4HDN|A Chain A, Crystal Structure Of Arsab In The Substrate-free State.
pdb|4HDR|A Chain A, Crystal Structure Of Arsab In Complex With
5,6-dimethylbenzimidazole
pdb|4HDR|C Chain C, Crystal Structure Of Arsab In Complex With
5,6-dimethylbenzimidazole
pdb|4HDS|A Chain A, Crystal Structure Of Arsab In Complex With Phenol
Length = 348
Score = 31.2 bits (69), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 36/72 (50%), Gaps = 11/72 (15%)
Query: 4 DGRTLVSKEGSFELGFFSP---GSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQN 60
DG +++K G FELG + GS+ NR + + +AN I+P+ +
Sbjct: 234 DGLDVLAKVGGFELGALAGVILGSAANR-CAVVIDGLNTTAAALIANVIHPL-------S 285
Query: 61 KSVVWSANLSKE 72
K +++++LS E
Sbjct: 286 KEYMFASHLSGE 297
>pdb|2HKF|H Chain H, Crystal Structure Of The Complex Fab M75- Peptide
pdb|2HKH|H Chain H, Crystal Structure Of The Fab M75
Length = 218
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 29/62 (46%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQNK 61
+ G LV +GS +L GS+ N Y W + P K + WVA + N+ + +
Sbjct: 5 VESGGGLVQPKGSLKLSCVVSGSTLNNYAMNWVRQAPGKGLEWVARIRSKSNNYATYYAD 64
Query: 62 SV 63
SV
Sbjct: 65 SV 66
>pdb|1FGV|H Chain H, X-Ray Structures Of Fragments From Binding And
Nonbinding Versions Of A Humanized Anti-Cd18 Antibody:
Structural Indications Of The Key Role Of Vh Residues
59 To 65
Length = 124
Score = 30.4 bits (67), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 26/59 (44%), Gaps = 1/59 (1%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQN 60
+ G LV GS L + G + Y W + P K + WVA INP N + + +
Sbjct: 5 VESGGGLVQPGGSLRLSCATSGYTFTEYTMHWMRQAPGKGLEWVAG-INPKNGGTSYAD 62
>pdb|3CFC|H Chain H, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2
Length = 213
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 25/46 (54%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVAN 47
+ G LV GS +L + G + +RY+ W + +P K + WVA+
Sbjct: 5 VESGGGLVKPGGSLKLSCTASGITFSRYIMSWVRQIPEKRLEWVAS 50
>pdb|3CFB|H Chain H, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2 In Complex With Stilbene Hapten At 100k
pdb|3CFB|B Chain B, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2 In Complex With Stilbene Hapten At 100k
Length = 213
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 25/46 (54%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVAN 47
+ G LV GS +L + G + +RY+ W + +P K + WVA+
Sbjct: 5 VESGGGLVKPGGSLKLSCTASGITFSRYIMSWVRQIPEKRLEWVAS 50
>pdb|1XF2|H Chain H, Structure Of Fab Dna-1 Complexed With Dt3
pdb|1XF2|B Chain B, Structure Of Fab Dna-1 Complexed With Dt3
pdb|1XF3|H Chain H, Structure Of Ligand-Free Fab Dna-1 In Space Group P65
pdb|1XF3|B Chain B, Structure Of Ligand-Free Fab Dna-1 In Space Group P65
pdb|1XF4|H Chain H, Structure Of Ligand-Free Fab Dna-1 In Space Group P321
Solved From Crystals With Perfect Hemihedral Twinning
pdb|1XF4|B Chain B, Structure Of Ligand-Free Fab Dna-1 In Space Group P321
Solved From Crystals With Perfect Hemihedral Twinning
pdb|2FR4|H Chain H, Structure Of Fab Dna-1 Complexed With A Stem-loop Dna
Ligand
pdb|2FR4|B Chain B, Structure Of Fab Dna-1 Complexed With A Stem-loop Dna
Ligand
Length = 230
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQNK 61
L G LV S ++ + G + YV W K P + + W+ INP ND + + K
Sbjct: 5 LESGPELVKPGASVKMSCKASGYTFTSYVMHWVKQKPGQGLEWIG-YINPYNDGTKYNEK 63
>pdb|1I8M|H Chain H, Crystal Structure Of A Recombinant Anti-Single-Stranded
Dna Antibody Fragment Complexed With Dt5
pdb|1I8M|B Chain B, Crystal Structure Of A Recombinant Anti-Single-Stranded
Dna Antibody Fragment Complexed With Dt5
pdb|1P7K|H Chain H, Crystal Structure Of An Anti-Ssdna Antigen-Binding
Fragment (Fab) Bound To
4-(2-Hydroxyethyl)piperazine-1-Ethanesulfonic Acid
(Hepes)
pdb|1P7K|B Chain B, Crystal Structure Of An Anti-Ssdna Antigen-Binding
Fragment (Fab) Bound To
4-(2-Hydroxyethyl)piperazine-1-Ethanesulfonic Acid
(Hepes)
Length = 224
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 27/60 (45%), Gaps = 1/60 (1%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQNK 61
L G LV S ++ + G + YV W K P + + W+ INP ND + + K
Sbjct: 5 LESGPELVKPGASVKMSCKASGYTFTSYVMHWVKQKPGQGLEWIG-YINPYNDGTKYNEK 63
>pdb|3L95|B Chain B, Crystal Structure Of The Human Notch1 Negative
Regulatory Region (Nrr) Bound To The Fab Fragment Of An
Antagonist Antibody
pdb|3L95|H Chain H, Crystal Structure Of The Human Notch1 Negative
Regulatory Region (Nrr) Bound To The Fab Fragment Of An
Antagonist Antibody
Length = 227
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQN 60
+ G LV GS L + G + + Y W + P K + WVA RINP N S+ + +
Sbjct: 5 VESGGGLVQPGGSLRLSCAASGFTFSSYWIHWVRQAPGKGLEWVA-RINPPNRSNQYAD 62
>pdb|3SGD|H Chain H, Crystal Structure Of The Mouse Mab 17.2
pdb|3SGD|J Chain J, Crystal Structure Of The Mouse Mab 17.2
pdb|3SGE|H Chain H, Crystal Structure Of Mab 17.2 In Complex With R13
Peptide
pdb|3SGE|J Chain J, Crystal Structure Of Mab 17.2 In Complex With R13
Peptide
Length = 217
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/61 (36%), Positives = 30/61 (49%), Gaps = 1/61 (1%)
Query: 3 SDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQNKS 62
S GR LV +GS +L + G S N W + P K + WVA + IN+ S + S
Sbjct: 7 SGGR-LVQPKGSLKLSCAASGFSFNTNAMNWVRQAPGKGLEWVARIRSKINNYSTYYADS 65
Query: 63 V 63
V
Sbjct: 66 V 66
>pdb|2FGW|H Chain H, X-Ray Structures Of Fragments From Binding And
Nonbinding Versions Of A Humanized Anti-Cd18 Antibody:
Structural Indications Of The Key Role Of Vh Residues
59 To 65
Length = 232
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 25/60 (41%), Gaps = 1/60 (1%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQNK 61
+ G LV GS L + G + Y W + P K + WVA INP N + +
Sbjct: 5 VESGGGLVQPGGSLRLSCATSGYTFTEYTMHWMRQAPGKGLEWVAG-INPKNGGTSHNQR 63
>pdb|3DGG|B Chain B, Crystal Structure Of Fabox108
pdb|3DGG|D Chain D, Crystal Structure Of Fabox108
Length = 229
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 5 GRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQNK 61
G LV S ++ + G + YV W K P + + W+ INP ND + + K
Sbjct: 8 GPELVKPGASVKMSCKASGYTFTSYVMHWVKQKPGQGLEWIG-YINPYNDDTNYNEK 63
>pdb|2H2P|C Chain C, Crystal Structure Of Clc-Ec1 In Complex With Fab
Fragment In Secn-
pdb|2H2P|E Chain E, Crystal Structure Of Clc-Ec1 In Complex With Fab
Fragment In Secn-
pdb|2H2S|C Chain C, Crystal Structure Of E148a Mutant Of Clc-Ec1 In Secn-
pdb|2H2S|E Chain E, Crystal Structure Of E148a Mutant Of Clc-Ec1 In Secn-
pdb|2HLF|C Chain C, Structure Of The Escherichis Coli Clc Chloride Channel
Y445e Mutant And Fab Complex
pdb|2HLF|E Chain E, Structure Of The Escherichis Coli Clc Chloride Channel
Y445e Mutant And Fab Complex
pdb|2HT2|C Chain C, Structure Of The Escherichia Coli Clc Chloride Channel
Y445h Mutant And Fab Complex
pdb|2HT2|E Chain E, Structure Of The Escherichia Coli Clc Chloride Channel
Y445h Mutant And Fab Complex
pdb|2HT3|C Chain C, Structure Of The Escherichia Coli Clc Chloride Channel
Y445l Mutant And Fab Complex
pdb|2HT3|E Chain E, Structure Of The Escherichia Coli Clc Chloride Channel
Y445l Mutant And Fab Complex
pdb|2HT4|C Chain C, Structure Of The Escherichia Coli Clc Chloride Channel
Y445w Mutant And Fab Complex
pdb|2HT4|E Chain E, Structure Of The Escherichia Coli Clc Chloride Channel
Y445w Mutant And Fab Complex
pdb|2HTK|C Chain C, Structure Of The Escherichia Coli Clc Chloride Channel
Y445a Mutant And Fab Complex
pdb|2HTK|E Chain E, Structure Of The Escherichia Coli Clc Chloride Channel
Y445a Mutant And Fab Complex
pdb|2HTL|C Chain C, Structure Of The Escherichia Coli Clc Chloride Channel
Y445f Mutant And Fab Complex
pdb|2HTL|E Chain E, Structure Of The Escherichia Coli Clc Chloride Channel
Y445f Mutant And Fab Complex
pdb|2R9H|C Chain C, Crystal Structure Of Q207c Mutant Of Clc-Ec1 In Complex
With Fab
pdb|2R9H|E Chain E, Crystal Structure Of Q207c Mutant Of Clc-Ec1 In Complex
With Fab
pdb|3DET|C Chain C, Structure Of The E418a, Y445a Doubly Ungated Mutant Of
E.Coli Clc_ec1, Cl-H+ ANTIPORTER
pdb|3DET|E Chain E, Structure Of The E418a, Y445a Doubly Ungated Mutant Of
E.Coli Clc_ec1, Cl-H+ ANTIPORTER
pdb|3EJY|C Chain C, Structure Of E203h Mutant Of E.Coli Cl-H+ ANTIPORTER,
CLC- Ec1
pdb|3EJY|E Chain E, Structure Of E203h Mutant Of E.Coli Cl-H+ ANTIPORTER,
CLC- Ec1
pdb|3EJZ|C Chain C, Structure Of E203v Mutant E.Coli Cl-H+ EXCHANGER,
CLC-Ec1
pdb|3EJZ|E Chain E, Structure Of E203v Mutant E.Coli Cl-H+ EXCHANGER,
CLC-Ec1
Length = 221
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDS 55
L G LV GS +L + G +RY W + P K + W+ INP++ +
Sbjct: 4 LESGGGLVQPGGSLKLSCAASGFDYSRYWMSWVRQAPGKGLKWI-GEINPVSST 56
>pdb|1OTS|C Chain C, Structure Of The Escherichia Coli Clc Chloride Channel
And Fab Complex
pdb|1OTS|E Chain E, Structure Of The Escherichia Coli Clc Chloride Channel
And Fab Complex
pdb|1OTT|C Chain C, Structure Of The Escherichia Coli Clc Chloride Channel
E148a Mutant And Fab Complex
pdb|1OTT|E Chain E, Structure Of The Escherichia Coli Clc Chloride Channel
E148a Mutant And Fab Complex
pdb|1OTU|C Chain C, Structure Of The Escherichia Coli Clc Chloride Channel
E148q Mutant And Fab Complex
pdb|1OTU|E Chain E, Structure Of The Escherichia Coli Clc Chloride Channel
E148q Mutant And Fab Complex
pdb|2FEC|J Chain J, Structure Of The E203q Mutant Of The Cl-H+ EXCHANGER
CLC- Ec1 From E.Coli
pdb|2FEC|I Chain I, Structure Of The E203q Mutant Of The Cl-H+ EXCHANGER
CLC- Ec1 From E.Coli
pdb|2FED|C Chain C, Structure Of The E203q Mutant Of The Cl-H+ EXCHANGER
CLC- Ec1 From E.Coli
pdb|2FED|E Chain E, Structure Of The E203q Mutant Of The Cl-H+ EXCHANGER
CLC- Ec1 From E.Coli
pdb|2FEE|J Chain J, Structure Of The Cl-H+ EXCHANGER CLC-Ec1 From E.Coli In
Nabr
pdb|2FEE|I Chain I, Structure Of The Cl-H+ EXCHANGER CLC-Ec1 From E.Coli In
Nabr
pdb|2EXW|C Chain C, Crystal Structure Of A Ecclc-Fab Complex In The Absence
Of Bound Ions
pdb|2EXW|E Chain E, Crystal Structure Of A Ecclc-Fab Complex In The Absence
Of Bound Ions
pdb|2EXY|C Chain C, Crystal Structure Of The E148q Mutant Of Ecclc, Fab
Complexed In Absence Of Bound Ions
pdb|2EXY|E Chain E, Crystal Structure Of The E148q Mutant Of Ecclc, Fab
Complexed In Absence Of Bound Ions
pdb|2EZ0|C Chain C, Crystal Structure Of The S107aE148QY445A MUTANT OF
ECCLC, In Complex With A Fab Fragment
pdb|2EZ0|E Chain E, Crystal Structure Of The S107aE148QY445A MUTANT OF
ECCLC, In Complex With A Fab Fragment
pdb|4FG6|C Chain C, Structure Of Ecclc E148a Mutant In Glutamate
pdb|4FG6|E Chain E, Structure Of Ecclc E148a Mutant In Glutamate
pdb|4ENE|C Chain C, Structure Of The N- And C-Terminal Trimmed Clc-Ec1 Cl-H+
ANTIPORTER And Fab Complex
pdb|4ENE|E Chain E, Structure Of The N- And C-Terminal Trimmed Clc-Ec1 Cl-H+
ANTIPORTER And Fab Complex
Length = 222
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 1/54 (1%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDS 55
L G LV GS +L + G +RY W + P K + W+ INP++ +
Sbjct: 5 LESGGGLVQPGGSLKLSCAASGFDYSRYWMSWVRQAPGKGLKWI-GEINPVSST 57
>pdb|4F9L|D Chain D, Crystal Structure Of The Human Btn3a1 Ectodomain In
Complex With The 20.1 Single Chain Antibody
pdb|4F9L|C Chain C, Crystal Structure Of The Human Btn3a1 Ectodomain In
Complex With The 20.1 Single Chain Antibody
Length = 259
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 25/57 (43%), Gaps = 1/57 (1%)
Query: 5 GRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQNK 61
G LV S +L + G + RY W K P + + W+ INP N + F K
Sbjct: 139 GAELVKPGASVKLSCKASGYTFTRYYLYWVKQRPGQGLEWIG-EINPNNGGTKFNEK 194
>pdb|4DVB|A Chain A, The Crystal Structure Of The Fab Fragment Of Pro-upa
Antibody Mab-112
pdb|4DVB|H Chain H, The Crystal Structure Of The Fab Fragment Of Pro-upa
Antibody Mab-112
Length = 213
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%)
Query: 4 DGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRIN 50
G LV GS +L + G + +RY W + P K + WVA+ N
Sbjct: 7 SGGDLVKPGGSLKLSCSASGFTFSRYAMSWVRQTPEKRLEWVASITN 53
>pdb|4DW2|H Chain H, The Crystal Structure Of Upa In Complex With The Fab
Fragment Of Mab- 112
Length = 212
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 23/47 (48%)
Query: 4 DGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRIN 50
G LV GS +L + G + +RY W + P K + WVA+ N
Sbjct: 7 SGGDLVKPGGSLKLSCSASGFTFSRYAMSWVRQTPEKRLEWVASITN 53
>pdb|2GKI|A Chain A, Heavy And Light Chain Variable Single Domains Of An
Anti-dna Binding Antibody Hydrolyze Both Double- And
Single-stranded Dnas Without Sequence Specificity
pdb|2GKI|B Chain B, Heavy And Light Chain Variable Single Domains Of An
Anti-dna Binding Antibody Hydrolyze Both Double- And
Single-stranded Dnas Without Sequence Specificity
Length = 291
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 26/57 (45%), Gaps = 1/57 (1%)
Query: 5 GRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQNK 61
G LV S ++ + G + YV W K P + + W+ INP ND + + K
Sbjct: 30 GPELVKPGASVKMSCKASGYTFTSYVMHWVKQKPGQGLEWIG-YINPYNDGTKYNEK 85
>pdb|3SKJ|H Chain H, Structural And Functional Characterization Of An
Agonistic Anti-Human Epha2 Monoclonal Antibody
pdb|3SKJ|I Chain I, Structural And Functional Characterization Of An
Agonistic Anti-Human Epha2 Monoclonal Antibody
Length = 231
Score = 28.5 bits (62), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINP 51
L G LV GS L + G + + Y+ W + P K + WV +RI P
Sbjct: 5 LESGGGLVQPGGSLRLSCAASGFTFSHYMMAWVRQAPGKGLEWV-SRIGP 53
>pdb|2DDQ|H Chain H, Crystal Structure Of The Fab Fragment Of A R310 Antibody
Complexed With (R)-Hne-Histidine Adduct
Length = 213
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 26/58 (44%), Gaps = 1/58 (1%)
Query: 4 DGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPINDSSGFQNK 61
G LV S ++ + G + YV W K P + + W+ INP ND + + K
Sbjct: 7 SGPELVKPGASVKMSCKASGYTFTSYVMHWVKQKPGQGLEWIG-YINPYNDGTKYNEK 63
>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 = 3.5, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 22/46 (47%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVAN 47
+ G LV GS +L + G + +RY W + P K + WVA
Sbjct: 5 VESGGVLVKPGGSLKLSCAASGFTFSRYAMSWVRQTPEKRLEWVAT 50
>pdb|2Y1H|A Chain A, Crystal Structure Of The Human Tatd-Domain Protein 3
(Tatdn3)
pdb|2Y1H|B Chain B, Crystal Structure Of The Human Tatd-Domain Protein 3
(Tatdn3)
Length = 272
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 24/121 (19%), Positives = 50/121 (41%), Gaps = 19/121 (15%)
Query: 59 QNKSVVWSANLSKEVRIPVVLQLLDSGNLVLRGERDGGSETYLWQSFDYPSDTLLPGMKL 118
Q + ++ L+K + +PV + +G + ++ G+E L +FD + G++
Sbjct: 124 QRQVLIRQIQLAKRLNLPVNVHSRSAGRPTINLLQEQGAEKVLLHAFDGRPSVAMEGVRA 183
Query: 119 GW-------DLKTGLERRITSWKSPDDPSPGNFTWAVERQDNPELMMWKGSRKFQRSGPW 171
G+ +++G ++++ T D+P L G K R+ PW
Sbjct: 184 GYFFSIPPSIIRSGQKQKLVKQLP--------LTSICLETDSPAL----GPEKQVRNEPW 231
Query: 172 N 172
N
Sbjct: 232 N 232
>pdb|3ULQ|A Chain A, Crystal Structure Of The Anti-Activator Rapf Complexed
With The Response Regulator Coma Dna Binding Domain
Length = 383
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 191 FVSNEDELYFTIDLIDKAVFSRIVMNQTLYLRQR-FTWDKATQSWELY 237
F E +L F D I+KA F + Y++Q F+ D A Q++E+Y
Sbjct: 126 FKKAESKLIFVKDRIEKAEFFFKMSESYYYMKQTYFSMDYARQAYEIY 173
>pdb|3GHE|H Chain H, Crystal Structure Of Anti-Hiv-1 Fab 537-10d In Complex
With V3 Peptide Mn
Length = 233
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 23/53 (43%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVANRINPIND 54
+ G LV GS L + G + N Y W + P K + WVAN ND
Sbjct: 5 VQSGGGLVQPGGSLRLSCVASGFTFNNYWMSWVRQAPGKGLEWVANIKQDGND 57
>pdb|3HI5|H Chain H, Crystal Structure Of Fab Fragment Of Al-57
pdb|3HI6|H Chain H, Crystal Structure Of Intermediate Affinity I Domain Of
Integrin Lfa-1 With The Fab Fragment Of Its Antibody
Al-57
pdb|3HI6|X Chain X, Crystal Structure Of Intermediate Affinity I Domain Of
Integrin Lfa-1 With The Fab Fragment Of Its Antibody
Al-57
Length = 220
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVA 46
L G LV GS L + G + +RYV W + P K + WV+
Sbjct: 5 LESGGGLVQPGGSLRLSCAASGFTFSRYVMWWVRQAPGKGLEWVS 49
>pdb|2XQO|A Chain A, Ctcel124: A Cellulase From Clostridium Thermocellum
Length = 243
Score = 27.7 bits (60), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 35/81 (43%), Gaps = 4/81 (4%)
Query: 10 SKEGSFELGFFSPGSSKNRYVGIW--YKNMPVKTVV--WVANRINPINDSSGFQNKSVVW 65
++ G G+F PG+SK+ + K VK ++ V + I D GF+NK V +
Sbjct: 27 TQSGILNDGYFPPGTSKHELIARASSLKVSEVKAIIKKQVDEHWDVIRDVCGFKNKEVAY 86
Query: 66 SANLSKEVRIPVVLQLLDSGN 86
+ R ++G+
Sbjct: 87 AFFFGXATRESTFRAATETGS 107
>pdb|3EOT|H Chain H, Crystal Structure Of Lac031, An Engineered Anti-Vla1 Fab
Length = 226
Score = 27.3 bits (59), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVAN 47
+ G LV GS L + G + +RY W + P K + WVA
Sbjct: 5 VESGGGLVQPGGSLRLSCAASGFTFSRYTMSWVRQAPGKGLEWVAT 50
>pdb|2VYR|E Chain E, Structure Of Human Mdm4 N-Terminal Domain Bound To A
Single Domain Antibody
pdb|2VYR|F Chain F, Structure Of Human Mdm4 N-Terminal Domain Bound To A
Single Domain Antibody
pdb|2VYR|G Chain G, Structure Of Human Mdm4 N-Terminal Domain Bound To A
Single Domain Antibody
pdb|2VYR|H Chain H, Structure Of Human Mdm4 N-Terminal Domain Bound To A
Single Domain Antibody
pdb|2VYR|I Chain I, Structure Of Human Mdm4 N-Terminal Domain Bound To A
Single Domain Antibody
pdb|2VYR|J Chain J, Structure Of Human Mdm4 N-Terminal Domain Bound To A
Single Domain Antibody
pdb|2VYR|K Chain K, Structure Of Human Mdm4 N-Terminal Domain Bound To A
Single Domain Antibody
pdb|2VYR|L Chain L, Structure Of Human Mdm4 N-Terminal Domain Bound To A
Single Domain Antibody
Length = 153
Score = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 20/46 (43%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVAN 47
L G LV GS L + G + Y +W + P K + WV+
Sbjct: 5 LESGGGLVQPGGSLRLSCAASGFTFEEYAMLWVRQAPGKGLEWVSG 50
>pdb|2B2X|H Chain H, Vla1 Rdeltah I-Domain Complexed With A Quadruple Mutant
Of The Aqc2 Fab
pdb|2B2X|I Chain I, Vla1 Rdeltah I-Domain Complexed With A Quadruple Mutant
Of The Aqc2 Fab
Length = 226
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 21/45 (46%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVA 46
+ G LV GS L + G + +RY W + P K + WVA
Sbjct: 5 VESGGGLVQPGGSLRLSCAASGFTFSRYTMSWVRQAPGKGLEWVA 49
>pdb|1MHP|H Chain H, Crystal Structure Of A Chimeric Alpha1 Integrin I-Domain
In Complex With The Fab Fragment Of A Humanized
Neutralizing Antibody
pdb|1MHP|X Chain X, Crystal Structure Of A Chimeric Alpha1 Integrin I-Domain
In Complex With The Fab Fragment Of A Humanized
Neutralizing Antibody
Length = 219
Score = 26.9 bits (58), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 21/46 (45%)
Query: 2 LSDGRTLVSKEGSFELGFFSPGSSKNRYVGIWYKNMPVKTVVWVAN 47
+ G LV GS L + G + +RY W + P K + WVA
Sbjct: 5 VESGGGLVQPGGSLRLSCAASGFTFSRYTMSWVRQAPGKGLEWVAT 50
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 0.134 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,970,166
Number of Sequences: 62578
Number of extensions: 343402
Number of successful extensions: 1110
Number of sequences better than 100.0: 110
Number of HSP's better than 100.0 without gapping: 78
Number of HSP's successfully gapped in prelim test: 32
Number of HSP's that attempted gapping in prelim test: 1031
Number of HSP's gapped (non-prelim): 111
length of query: 239
length of database: 14,973,337
effective HSP length: 96
effective length of query: 143
effective length of database: 8,965,849
effective search space: 1282116407
effective search space used: 1282116407
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: 50 (23.9 bits)