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= psy9140
(114 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2V5R|A Chain A, Structural Basis For Dscam Isoform Specificity
pdb|2V5R|B Chain B, Structural Basis For Dscam Isoform Specificity
Length = 391
Score = 73.6 bits (179), Expect = 3e-14, Method: Composition-based stats.
Identities = 37/95 (38%), Positives = 55/95 (57%), Gaps = 9/95 (9%)
Query: 10 YEINTGNTFVLRGNIAVLQCNIPAYNHNLLLI-AWLREGVSEARSII-----HSGGRYSI 63
YE N +V+RGN V++C IP+Y + + + WL SE R+ + G+Y +
Sbjct: 106 YESEADNEYVIRGNSVVMKCEIPSYVADFVFVDLWLD---SEGRNYYPNNAAETDGKYLV 162
Query: 64 TTAGALHIRDTGMEDSYIRYYCQTTHKLTGERKIS 98
+G LHIR+ G ED Y Y C+T H+LTGE ++S
Sbjct: 163 LPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLS 197
>pdb|2V5S|A Chain A, Structural Basis For Dscam Isoform Specificity
pdb|2V5S|B Chain B, Structural Basis For Dscam Isoform Specificity
Length = 394
Score = 68.2 bits (165), Expect = 1e-12, Method: Composition-based stats.
Identities = 32/90 (35%), Positives = 52/90 (57%), Gaps = 1/90 (1%)
Query: 10 YEINTGNTFVLRGNIAVLQCNIPAYNHNLL-LIAWLREGVSEARSIIHSGGRYSITTAGA 68
YE + V+RGN AV++C IP++ + + +++W + G+Y + +G
Sbjct: 112 YEADVNKEHVIRGNSAVIKCLIPSFVADFVEVVSWHTDEEENYFPGAEYDGKYLVLPSGE 171
Query: 69 LHIRDTGMEDSYIRYYCQTTHKLTGERKIS 98
LHIR+ G ED Y Y C+T H+LTGE ++S
Sbjct: 172 LHIREVGPEDGYKSYQCRTKHRLTGETRLS 201
>pdb|2V5M|A Chain A, Structural Basis For Dscam Isoform Specificity
Length = 388
Score = 68.2 bits (165), Expect = 1e-12, Method: Composition-based stats.
Identities = 32/90 (35%), Positives = 52/90 (57%), Gaps = 1/90 (1%)
Query: 10 YEINTGNTFVLRGNIAVLQCNIPAYNHNLL-LIAWLREGVSEARSIIHSGGRYSITTAGA 68
YE + V+RGN AV++C IP++ + + +++W + G+Y + +G
Sbjct: 106 YEADVNKEHVIRGNSAVIKCLIPSFVADFVEVVSWHTDEEENYFPGAEYDGKYLVLPSGE 165
Query: 69 LHIRDTGMEDSYIRYYCQTTHKLTGERKIS 98
LHIR+ G ED Y Y C+T H+LTGE ++S
Sbjct: 166 LHIREVGPEDGYKSYQCRTKHRLTGETRLS 195
>pdb|3DMK|A Chain A, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
(Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
pdb|3DMK|B Chain B, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
(Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
pdb|3DMK|C Chain C, Crystal Structure Of Down Syndrome Cell Adhesion Molecule
(Dscam) Isoform 1.30.30, N-Terminal Eight Ig Domains
Length = 816
Score = 67.8 bits (164), Expect = 2e-12, Method: Composition-based stats.
Identities = 32/90 (35%), Positives = 52/90 (57%), Gaps = 1/90 (1%)
Query: 10 YEINTGNTFVLRGNIAVLQCNIPAYNHNLL-LIAWLREGVSEARSIIHSGGRYSITTAGA 68
YE + V+RGN AV++C IP++ + + +++W + G+Y + +G
Sbjct: 141 YEADVNKEHVIRGNSAVIKCLIPSFVADFVEVVSWHTDEEENYFPGAEYDGKYLVLPSGE 200
Query: 69 LHIRDTGMEDSYIRYYCQTTHKLTGERKIS 98
LHIR+ G ED Y Y C+T H+LTGE ++S
Sbjct: 201 LHIREVGPEDGYKSYQCRTKHRLTGETRLS 230
>pdb|3QSK|B Chain B, 5 Histidine Variant Of The Anti-Rnase A Vhh In Complex
With Rnase A
Length = 123
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 36/92 (39%), Gaps = 18/92 (19%)
Query: 12 INTGNTFVLRGNIAVLQCNIPAYNHNLLLIAWLREGVSEAR---SIIHSGGR---YSITT 65
+ +G V G L C Y+H + + W R+ + R + + SGG Y+ +
Sbjct: 7 VESGGGLVQAGGSLRLSCAASGYHHPYIYMGWFRQAPGKEREGVAAMDSGGGGTLYADSV 66
Query: 66 AGALHI-RDTGMEDSYIR-----------YYC 85
G I RD G Y++ YYC
Sbjct: 67 KGRFTISRDKGKNTVYLQMDSLKPEDTATYYC 98
>pdb|1IGM|H Chain H, Three Dimensional Structure Of An Fv From A Human Igm
Immunoglobulin
Length = 129
Score = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 28/118 (23%), Positives = 48/118 (40%), Gaps = 23/118 (19%)
Query: 12 INTGNTFVLRGNIAVLQCNIPAYNHNLLLIAWLRE----GVSEARSIIHSG--------- 58
+ +G V G L C + N+ +++W+R+ G+ + SG
Sbjct: 5 LESGGNLVQPGGSLRLSCAASGFTFNIFVMSWVRQAPGKGLEWVSGVFGSGGNTDYADAV 64
Query: 59 -GRYSITTAGA-----LHIRDTGMEDSYIRYYC---QTTHKLTGERKISPPSQVMVSE 107
GR++IT + L + ED+ I YYC + ++ LTG + V VS
Sbjct: 65 KGRFTITRDNSKNTLYLQMNSLRAEDTAI-YYCAKHRVSYVLTGFDSWGQGTLVTVSS 121
>pdb|1RI8|A Chain A, Crystal Structure Of The Camelid Single Domain Antibody
1d2l19 In Complex With Hen Egg White Lysozyme
Length = 134
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 36/91 (39%), Gaps = 17/91 (18%)
Query: 12 INTGNTFVLRGNIAVLQCNIPAYNHNLLLIAWLREGVSEAR---SIIHSGGR--YSITTA 66
+ +G V G L C + Y + W R + R ++I S GR Y+ +
Sbjct: 5 VESGGGSVQAGGSLRLSCAVSGYKDRNYCMGWFRRAPGKEREGVAVIDSSGRTAYADSVK 64
Query: 67 GALHI-RDTGMEDSYIR-----------YYC 85
G I RD ++ +Y++ YYC
Sbjct: 65 GRFTISRDVALDTAYLQMNSLKPEDTAMYYC 95
>pdb|4BJL|A Chain A, Locw, A Lambda 1 Type Light-Chain Dimer (Bence-Jones
Protein) Crystallized In Distilled Water
pdb|4BJL|B Chain B, Locw, A Lambda 1 Type Light-Chain Dimer (Bence-Jones
Protein) Crystallized In Distilled Water
pdb|3BJL|A Chain A, Loc, A Lambda 1 Type Light-Chain Dimer (Bence-Jones
Protein) Crystallized In Ammonium Sulfate
pdb|3BJL|B Chain B, Loc, A Lambda 1 Type Light-Chain Dimer (Bence-Jones
Protein) Crystallized In Ammonium Sulfate
pdb|1BJM|A Chain A, Loc Naks, A Lambda 1 Type Light-Chain Dimer (Bence-Jones
Protein) Crystallized In Nakso4
pdb|1BJM|B Chain B, Loc Naks, A Lambda 1 Type Light-Chain Dimer (Bence-Jones
Protein) Crystallized In Nakso4
Length = 216
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 129 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPE- 187
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 188 --QWKSHRSYSCQVTHEGSTVEKTVAP 212
>pdb|2FB4|L Chain L, Dir Primaerstruktur Des Kristallisierbaren Monoklonalen
Immunoglobulins Igg1 Kol. Ii. Aminosaeuresequenz Der L-
Kette, Lambda-Typ, Subgruppe I (German)
pdb|2IG2|L Chain L, Dir Primaerstruktur Des Kristallisierbaren Monoklonalen
Immunoglobulins Igg1 Kol. Ii. Aminosaeuresequenz Der L-
Kette, Lambda-Typ, Subgruppe I (German)
Length = 216
Score = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 129 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPE- 187
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 188 --QWKSHRSYSCQVTHEGSTVEKTVAP 212
>pdb|3MLW|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 1006-15d In Complex
With An Mn V3 Peptide
pdb|3MLW|M Chain M, Crystal Structure Of Anti-Hiv-1 V3 Fab 1006-15d In Complex
With An Mn V3 Peptide
Length = 215
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 131 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPE- 189
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 190 --QWKSHRSYSCQVTHEGSTVEKTVAP 214
>pdb|3Q6F|A Chain A, Crystal Structure Of Fab Of Human Mab 2909 Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
pdb|3Q6F|C Chain C, Crystal Structure Of Fab Of Human Mab 2909 Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
pdb|3Q6F|E Chain E, Crystal Structure Of Fab Of Human Mab 2909 Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
pdb|3Q6F|G Chain G, Crystal Structure Of Fab Of Human Mab 2909 Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
pdb|3Q6F|I Chain I, Crystal Structure Of Fab Of Human Mab 2909 Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
pdb|3Q6F|K Chain K, Crystal Structure Of Fab Of Human Mab 2909 Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
Length = 213
Score = 29.6 bits (65), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 127 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPE- 185
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 186 --QWKSHRSYSCQVTHEGSTVEKTVAP 210
>pdb|4EVN|B Chain B, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|D Chain D, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|F Chain F, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|H Chain H, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|J Chain J, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|L Chain L, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|N Chain N, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|P Chain P, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
Length = 217
Score = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 130 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPE- 188
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 189 --QWKSHRSYSCQVTHEGSTVEKTVAP 213
>pdb|1MCB|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCB|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCC|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCC|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCD|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCD|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCE|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCE|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCF|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCF|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCH|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCH|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCI|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCI|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCJ|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCJ|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCK|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCK|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCL|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCL|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCN|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCN|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCQ|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCQ|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCR|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCR|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCS|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCS|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
Length = 216
Score = 29.3 bits (64), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 129 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPE- 187
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 188 --QWKSHRSYSCQVTHEGSTVEKTVAP 212
>pdb|1DCL|A Chain A, Mcg, A Lambda V Type Light-Chain Dimer (Bence-Jones
Protein), Crystallized From Ammonium Sulfate
pdb|1DCL|B Chain B, Mcg, A Lambda V Type Light-Chain Dimer (Bence-Jones
Protein), Crystallized From Ammonium Sulfate
Length = 216
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 129 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPE- 187
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 188 --QWKSHRSYSCQVTHEGSTVEKTVAP 212
>pdb|1MCW|M Chain M, Three-Dimensional Structure Of A Hybrid Light Chain Dimer.
Protein Engineering Of A Binding Cavity
pdb|2MCG|1 Chain 1, Three-Dimensional Structure Of A Light Chain Dimer
Crystallized In Water. Conformational Flexibility Of A
Molecule In Two Crystal Forms
pdb|2MCG|2 Chain 2, Three-Dimensional Structure Of A Light Chain Dimer
Crystallized In Water. Conformational Flexibility Of A
Molecule In Two Crystal Forms
pdb|3MCG|1 Chain 1, Three-Dimensional Structure Of A Light Chain Dimer
Crystallized In Water. Conformational Flexibility Of A
Molecule In Two Crystal Forms
pdb|3MCG|2 Chain 2, Three-Dimensional Structure Of A Light Chain Dimer
Crystallized In Water. Conformational Flexibility Of A
Molecule In Two Crystal Forms
pdb|1A8J|L Chain L, Immunoglobulin Lambda Light Chain Dimer (Mcg) Complex With
Aspartame
pdb|1A8J|H Chain H, Immunoglobulin Lambda Light Chain Dimer (Mcg) Complex With
Aspartame
Length = 216
Score = 29.3 bits (64), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 129 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPE- 187
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 188 --QWKSHRSYSCQVTHEGSTVEKTVAP 212
>pdb|3GO1|L Chain L, Crystal Structure Of Anti-Hiv-1 Fab 268-D In Complex With
V3 Peptide Mn
Length = 209
Score = 29.3 bits (64), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 126 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPE- 184
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 185 --QWKSHRSYSCQVTHEGSTVEKTVAP 209
>pdb|1W72|L Chain L, Crystal Structure Of Hla-A1:mage-A1 In Complex With Fab-
Hyb3
pdb|1W72|M Chain M, Crystal Structure Of Hla-A1:mage-A1 In Complex With Fab-
Hyb3
Length = 210
Score = 29.3 bits (64), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 127 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPE- 185
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 186 --QWKSHRSYSCQVTHEGSTVEKTVAP 210
>pdb|2P49|B Chain B, Complex Of A Camelid Single-Domain Vhh Antibody Fragment
With Rnase A At 1.4a Resolution: Native Mono_1 Crystal
Form
Length = 123
Score = 29.3 bits (64), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 35/92 (38%), Gaps = 18/92 (19%)
Query: 12 INTGNTFVLRGNIAVLQCNIPAYNHNLLLIAWLREGVSEAR---SIIHSGGR---YSITT 65
+ +G V G L C Y + + + W R+ + R + + SGG Y+ +
Sbjct: 7 VESGGGLVQAGGSLRLSCAASGYAYTYIYMGWFRQAPGKEREGVAAMDSGGGGTLYADSV 66
Query: 66 AGALHI-RDTGMEDSYIR-----------YYC 85
G I RD G Y++ YYC
Sbjct: 67 KGRFTISRDKGKNTVYLQMDSLKPEDTATYYC 98
>pdb|2J6E|L Chain L, Crystal Structure Of An Autoimmune Complex Between A Human
Igm Rheumatoid Factor And Igg1 Fc Reveals A Novel Fc
Epitope And Evidence For Affinity Maturation
pdb|2J6E|M Chain M, Crystal Structure Of An Autoimmune Complex Between A Human
Igm Rheumatoid Factor And Igg1 Fc Reveals A Novel Fc
Epitope And Evidence For Affinity Maturation
Length = 234
Score = 28.9 bits (63), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 148 LQANKATLVCLISDFFPGAVTVAWKADGAPVKAGVETTKPSKQSNNKYAASSYLSLTPE- 206
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 207 --QWKSHRSYSCQVTHEGSTVEKTVAP 231
>pdb|1BZQ|K Chain K, Complex Of A Dromedary Single-Domain Vhh Antibody
Fragment With Rnase A
pdb|1BZQ|L Chain L, Complex Of A Dromedary Single-Domain Vhh Antibody
Fragment With Rnase A
pdb|1BZQ|M Chain M, Complex Of A Dromedary Single-Domain Vhh Antibody
Fragment With Rnase A
pdb|1BZQ|N Chain N, Complex Of A Dromedary Single-Domain Vhh Antibody
Fragment With Rnase A
Length = 124
Score = 28.9 bits (63), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 35/92 (38%), Gaps = 18/92 (19%)
Query: 12 INTGNTFVLRGNIAVLQCNIPAYNHNLLLIAWLREGVSEAR---SIIHSGGR---YSITT 65
+ +G V G L C Y + + + W R+ + R + + SGG Y+ +
Sbjct: 5 VESGGGLVQAGGSLRLSCAASGYAYTYIYMGWFRQAPGKEREGVAAMDSGGGGTLYADSV 64
Query: 66 AGALHI-RDTGMEDSYIR-----------YYC 85
G I RD G Y++ YYC
Sbjct: 65 KGRFTISRDKGKNTVYLQMDSLKPEDTATYYC 96
>pdb|1MCW|W Chain W, Three-Dimensional Structure Of A Hybrid Light Chain Dimer.
Protein Engineering Of A Binding Cavity
Length = 216
Score = 28.9 bits (63), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW + GV + S +Y+ ++ +L
Sbjct: 129 LQANKATLVCLISDFYPGAVTVAWKADGSPVEAGVETTKPSKQSNNKYAASSYLSLTPE- 187
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 188 --QWKSHRSYSCQVTHEGSTVEKTVAP 212
>pdb|3GJE|L Chain L, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3GJE|A Chain A, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3GJF|L Chain L, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3GJF|K Chain K, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
Length = 212
Score = 28.9 bits (63), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 128 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPE- 186
Query: 74 TGMEDSYIRYYCQTTHKL-TGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 187 --QWKSHRSYSCQVTHEGNTVEKTVAP 211
>pdb|3HAE|L Chain L, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3HAE|G Chain G, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3HAE|N Chain N, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3HAE|S Chain S, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
Length = 212
Score = 28.5 bits (62), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 39/87 (44%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 128 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPE- 186
Query: 74 TGMEDSYIRYYCQTTHKL-TGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 187 --QWKSHRSYSCQVTHEGNTVEKTVAP 211
>pdb|3QIB|C Chain C, Crystal Structure Of The 2b4 Tcr In Complex With MccI-Ek
pdb|3QJF|A Chain A, Crystal Structure Of The 2b4 Tcr
pdb|3QJF|C Chain C, Crystal Structure Of The 2b4 Tcr
Length = 207
Score = 28.5 bits (62), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 38/94 (40%), Gaps = 13/94 (13%)
Query: 12 INTGNTFVLRGNIAVLQCNIPAYNHN----LLLIAWLREGVSEA---RSIIHSGGRYSIT 64
++ G LR N + + N L+ + +L G E +S +S YS
Sbjct: 15 LHEGTGSALRCNFTTTMRAVQWFQQNSRGSLINLFYLASGTKENGRLKSTFNSKESYST- 73
Query: 65 TAGALHIRDTGMEDSYIRYYCQTTHKLTGERKIS 98
LHIRD +EDS Y+C G K++
Sbjct: 74 ----LHIRDAQLEDSGT-YFCAALRATGGNNKLT 102
>pdb|2RCJ|C Chain C, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|D Chain D, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|G Chain G, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|H Chain H, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|K Chain K, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|L Chain L, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|O Chain O, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|P Chain P, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|S Chain S, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|T Chain T, Solution Structure Of Human Immunoglobulin M
Length = 523
Score = 28.1 bits (61), Expect = 1.2, Method: Composition-based stats.
Identities = 22/93 (23%), Positives = 39/93 (41%), Gaps = 9/93 (9%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV + S +Y+ ++ +L
Sbjct: 127 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQ 186
Query: 74 TGMEDSYIRYYCQTTHKLTGERKISPPSQVMVS 106
S+ Y CQ TH+ + K P++ S
Sbjct: 187 W---KSHRSYSCQVTHEGSTVEKTVAPTECSAS 216
>pdb|3QJH|A Chain A, The Crystal Structure Of The 5c.C7 Tcr
pdb|3QJH|C Chain C, The Crystal Structure Of The 5c.C7 Tcr
Length = 205
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 32/81 (39%), Gaps = 26/81 (32%)
Query: 22 GNIAVLQCNIPAYNHNLLLIAWLRE--------------GVSEA---RSIIHSGGRYSIT 64
G + L+CN + + + W R+ G E +S S RYS
Sbjct: 18 GTGSALRCN---FTTTMRAVQWFRKNSRGSLINLFYLASGTKENGRLKSAFDSKERYST- 73
Query: 65 TAGALHIRDTGMEDSYIRYYC 85
LHIRD +EDS Y+C
Sbjct: 74 ----LHIRDAQLEDSGT-YFC 89
>pdb|1ADQ|L Chain L, Crystal Structure Of A Human Igm Rheumatoid Factor Fab In
Complex With Its Autoantigen Igg Fc
Length = 213
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV S +Y+ ++ +L
Sbjct: 126 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTTPSKQSNNKYAASSYLSLTPE- 184
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 185 --QWKSHKSYSCQVTHEGSTVEKTVAP 209
>pdb|3QIU|C Chain C, Crystal Structure Of The 226 Tcr In Complex With MccI-Ek
pdb|3QIW|C Chain C, Crystal Structure Of The 226 Tcr In Complex With
Mcc-P5eI-Ek
Length = 205
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 34/81 (41%), Gaps = 13/81 (16%)
Query: 12 INTGNTFVLRGNIAVLQCNIPAYNHN----LLLIAWLREGVSE---ARSIIHSGGRYSIT 64
++ G LR N + + N L+ + +L G E +S S RYS
Sbjct: 15 LHEGTGSALRCNFTTTMRAVQWFRKNSRGSLINLFYLASGTKENGRLKSAFDSKERYST- 73
Query: 65 TAGALHIRDTGMEDSYIRYYC 85
LHIRD +EDS Y+C
Sbjct: 74 ----LHIRDAQLEDSGT-YFC 89
>pdb|7FAB|L Chain L, Crystal Structure Of Human Immunoglobulin Fragment Fab New
Refined At 2.0 Angstroms Resolution
Length = 208
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 10/87 (11%)
Query: 20 LRGNIAVLQCNIPAYNHNLLLIAW------LREGVSEARSIIHSGGRYSITTAGALHIRD 73
L+ N A L C I + + +AW ++ GV S +Y+ ++ +L
Sbjct: 121 LQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTTPSKQSNNKYAASSYLSLTPE- 179
Query: 74 TGMEDSYIRYYCQTTHK-LTGERKISP 99
S+ Y CQ TH+ T E+ ++P
Sbjct: 180 --QWKSHKSYSCQVTHEGSTVEKTVAP 204
>pdb|3UOW|A Chain A, Crystal Structure Of Pf10_0123, A Gmp Synthetase From
Plasmodium Falciparum
pdb|3UOW|B Chain B, Crystal Structure Of Pf10_0123, A Gmp Synthetase From
Plasmodium Falciparum
Length = 556
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 52 RSIIHSGGRYSITTAGALHIRDTGME 77
+ +I SGG YS+T AG+ H++ E
Sbjct: 52 KGVILSGGPYSVTEAGSPHLKKEVFE 77
>pdb|2ODJ|A Chain A, Crystal Structure Of The Outer Membrane Protein Oprd From
Pseudomonas Aeruginosa
pdb|2ODJ|B Chain B, Crystal Structure Of The Outer Membrane Protein Oprd From
Pseudomonas Aeruginosa
Length = 428
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 22/41 (53%)
Query: 51 ARSIIHSGGRYSITTAGALHIRDTGMEDSYIRYYCQTTHKL 91
A+S GGRY+IT + + +ED Y +YY + + +
Sbjct: 181 AKSADFIGGRYAITDNLSASLYGAELEDIYRQYYLNSNYTI 221
>pdb|3SY7|A Chain A, Improved Crystal Structure Of Pseudomonas Aeruginosa Oprd
Length = 428
Score = 26.9 bits (58), Expect = 2.7, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 22/41 (53%)
Query: 51 ARSIIHSGGRYSITTAGALHIRDTGMEDSYIRYYCQTTHKL 91
A+S GGRY+IT + + +ED Y +YY + + +
Sbjct: 181 AKSADFIGGRYAITDNLSASLYGAELEDIYRQYYLNSNYTI 221
>pdb|2WV3|A Chain A, Neuroplastin-55 Binds To And Signals Through The
Fibroblast Growth Factor Receptor
Length = 190
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 12 INTGNTFVLRGNI--AVLQCNIPAYNHNLLLIAWLREGV 48
I T ++R ++ LQCN+ + +H L+ W + GV
Sbjct: 6 IVTSEEVIIRDSLLPVTLQCNLTSSSHTLMYSYWTKNGV 44
>pdb|1KSK|A Chain A, Structure Of Rsua
pdb|1KSL|A Chain A, Structure Of Rsua
pdb|1KSV|A Chain A, Structure Of Rsua
Length = 234
Score = 25.8 bits (55), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 55 IHSGGRYSITTAGALHIRDTGMEDSYI---RYYCQTTHKLTGERKIS 98
+H+ GR I T G + D G I R++C+ T+ +T E ++
Sbjct: 98 LHAAGRLDIDTTGLVLXTDDGQWSHRITSPRHHCEKTYLVTLESPVA 144
>pdb|2B0L|A Chain A, C-Terminal Dna Binding Domain Of Transcriptional
Pleiotropic Repressor Cody.
pdb|2B0L|B Chain B, C-Terminal Dna Binding Domain Of Transcriptional
Pleiotropic Repressor Cody.
pdb|2B0L|C Chain C, C-Terminal Dna Binding Domain Of Transcriptional
Pleiotropic Repressor Cody
Length = 102
Score = 25.4 bits (54), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 27/48 (56%), Gaps = 1/48 (2%)
Query: 35 NHNLLLIAWLREGVSEARSIIHSGGRYSITTAGALHIRDTGMEDSYIR 82
N LL+ + + + V RS+I + R + +AG + R GM+ +YI+
Sbjct: 40 NEGLLVASKIADRVGITRSVIVNALR-KLESAGVIESRSLGMKGTYIK 86
>pdb|1VIO|A Chain A, Crystal Structure Of Pseudouridylate Synthase
pdb|1VIO|B Chain B, Crystal Structure Of Pseudouridylate Synthase
Length = 243
Score = 25.4 bits (54), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 22/41 (53%), Gaps = 3/41 (7%)
Query: 55 IHSGGRYSITTAGALHIRDTGMEDSYI---RYYCQTTHKLT 92
+HS GR + T G + + D G I +++C+ T+ +T
Sbjct: 97 LHSAGRLDVDTTGLVLLTDDGQWSHRITSPKHHCEKTYLVT 137
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 0.134 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,356,485
Number of Sequences: 62578
Number of extensions: 118837
Number of successful extensions: 325
Number of sequences better than 100.0: 38
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 27
Number of HSP's that attempted gapping in prelim test: 307
Number of HSP's gapped (non-prelim): 40
length of query: 114
length of database: 14,973,337
effective HSP length: 77
effective length of query: 37
effective length of database: 10,154,831
effective search space: 375728747
effective search space used: 375728747
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 45 (21.9 bits)