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= psy3272
(115 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2IEP|A Chain A, Crystal Structure Of Immunoglobulin-Like Domains 1 And 2
Of The Receptor Tyrosine Kinase Musk
pdb|2IEP|B Chain B, Crystal Structure Of Immunoglobulin-Like Domains 1 And 2
Of The Receptor Tyrosine Kinase Musk
Length = 192
Score = 43.9 bits (102), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 44/154 (28%), Positives = 65/154 (42%), Gaps = 47/154 (30%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRA------- 56
+SW ++ LI+ + D R R N LTI +V+ +D G Y C A+N +G A
Sbjct: 39 ISWTRNKILIK--LFDTR-YSIRENGQLLTILSVEDSDDGIYCCTANNGVGGAVESCGAL 95
Query: 57 --KKYMELSVSVSDRRLME---------TRGNKH------------------------TL 81
K +++ + +++E T GN +L
Sbjct: 96 QVKMKPKITRPPINVKIIEGLKAVLPCTTMGNPKPSVSWIKGDSALRENSRIAVLESGSL 155
Query: 82 TIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
I NVQ D G Y CVA N+LG A Y +L +LE
Sbjct: 156 RIHNVQKEDAGQYRCVAKNSLGTA--YSKLVKLE 187
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 19/37 (51%), Positives = 23/37 (62%), Gaps = 1/37 (2%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRA-KKYMELSVSV 66
+L I NVQ D G Y CVA N+LG A K ++L V V
Sbjct: 154 SLRIHNVQKEDAGQYRCVAKNSLGTAYSKLVKLEVEV 190
>pdb|2YD2|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 214
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 31/51 (60%), Gaps = 2/51 (3%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 54
++W++D ++PS S+ R+ + R L I++ + TD G Y CVA N+ G
Sbjct: 140 ITWFKDFLPVDPSASNGRIKQLRSG--ALQIESSEETDQGKYECVATNSAG 188
Score = 33.5 bits (75), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 6/74 (8%)
Query: 34 IKNVQSTDFGNYSCVA----DNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQST 89
+K V+ T C A D + K ++ + S S+ R+ + R L I++ + T
Sbjct: 117 LKVVERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSG--ALQIESSEET 174
Query: 90 DFGNYSCVADNNLG 103
D G Y CVA N+ G
Sbjct: 175 DQGKYECVATNSAG 188
>pdb|2YD3|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 202
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 31/51 (60%), Gaps = 2/51 (3%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 54
++W++D ++PS S+ R+ + R L I++ + TD G Y CVA N+ G
Sbjct: 140 ITWFKDFLPVDPSASNGRIKQLRSG--ALQIESSEETDQGKYECVATNSAG 188
Score = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 6/74 (8%)
Query: 34 IKNVQSTDFGNYSCVA----DNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQST 89
+K V+ T C A D + K ++ + S S+ R+ + R L I++ + T
Sbjct: 117 LKVVERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSG--ALQIESSEET 174
Query: 90 DFGNYSCVADNNLG 103
D G Y CVA N+ G
Sbjct: 175 DQGKYECVATNSAG 188
>pdb|2YD9|A Chain A, Crystal Structure Of The N-Terminal Ig1-3 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 304
Score = 42.0 bits (97), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 31/51 (60%), Gaps = 2/51 (3%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 54
++W++D ++PS S+ R+ + R L I++ + TD G Y CVA N+ G
Sbjct: 140 ITWFKDFLPVDPSASNGRIKQLRSG--ALQIESSEETDQGKYECVATNSAG 188
Score = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 6/74 (8%)
Query: 34 IKNVQSTDFGNYSCVA----DNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQST 89
+K V+ T C A D + K ++ + S S+ R+ + R L I++ + T
Sbjct: 117 LKVVERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSG--ALQIESSEET 174
Query: 90 DFGNYSCVADNNLG 103
D G Y CVA N+ G
Sbjct: 175 DQGKYECVATNSAG 188
>pdb|2YD4|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Chicken Receptor Protein Tyrosine Phosphatase Sigma
Length = 210
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 31/51 (60%), Gaps = 2/51 (3%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 54
++W++D ++PS S+ R+ + R L I++ + TD G Y CVA N+ G
Sbjct: 140 ITWFKDFLPVDPSTSNGRIKQLRSGG--LQIESSEETDQGKYECVASNSAG 188
Score = 33.1 bits (74), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 6/74 (8%)
Query: 34 IKNVQSTDFGNYSCVA----DNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQST 89
+K V+ T C A D + K ++ + S S+ R+ + R L I++ + T
Sbjct: 117 LKVVERTRTATMLCAASGNPDPEITWFKDFLPVDPSTSNGRIKQLRSGG--LQIESSEET 174
Query: 90 DFGNYSCVADNNLG 103
D G Y CVA N+ G
Sbjct: 175 DQGKYECVASNSAG 188
>pdb|3PXH|A Chain A, Tandem Ig Domains Of Tyrosine Phosphatase Lar
Length = 201
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 31/51 (60%), Gaps = 2/51 (3%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 54
+SW++D ++P+ S+ R+ + R L I++ + +D G Y CVA N+ G
Sbjct: 141 ISWFKDFLPVDPAASNGRIKQLRSG--ALQIESSEESDQGKYECVATNSAG 189
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 49 ADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 103
D + K ++ + + S+ R+ + R L I++ + +D G Y CVA N+ G
Sbjct: 137 PDPEISWFKDFLPVDPAASNGRIKQLRSG--ALQIESSEESDQGKYECVATNSAG 189
>pdb|2YD5|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Lar
pdb|2YD8|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Lar In Complex
With Sucrose Octasulphate
Length = 214
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 31/51 (60%), Gaps = 2/51 (3%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 54
+SW++D ++P+ S+ R+ + R L I++ + +D G Y CVA N+ G
Sbjct: 140 ISWFKDFLPVDPATSNGRIKQLRSG--ALQIESSEESDQGKYECVATNSAG 188
Score = 30.4 bits (67), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 15/55 (27%), Positives = 28/55 (50%), Gaps = 2/55 (3%)
Query: 49 ADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 103
D + K ++ + + S+ R+ + R L I++ + +D G Y CVA N+ G
Sbjct: 136 PDPEISWFKDFLPVDPATSNGRIKQLRSG--ALQIESSEESDQGKYECVATNSAG 188
>pdb|2DM3|A Chain A, Solution Structure Of The Second Ig Domain Of Human
Palladin
Length = 110
Score = 39.7 bits (91), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 34/65 (52%), Gaps = 1/65 (1%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
+SW D + P + + L+ G H+L I+ V S D G Y+C+A N G+ +EL
Sbjct: 41 LSWQLDGKPVRPDSAHKMLVRENG-VHSLIIEPVTSRDAGIYTCIATNRAGQNSFSLELV 99
Query: 64 VSVSD 68
V+ +
Sbjct: 100 VAAKE 104
Score = 32.0 bits (71), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 20/33 (60%)
Query: 79 HTLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 111
H+L I+ V S D G Y+C+A N G+ +EL
Sbjct: 66 HSLIIEPVTSRDAGIYTCIATNRAGQNSFSLEL 98
>pdb|2XY1|A Chain A, Crystal Structure Of Ncam2 Ig3-4
Length = 192
Score = 37.4 bits (85), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 48/96 (50%), Gaps = 14/96 (14%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
+SW+++ LIE + ++ ++ +G+ LT++N+ ++D G Y C A N G +K L
Sbjct: 36 ISWFRNGKLIEEN--EKYIL--KGSNTELTVRNIINSDGGPYVCRATNKAGEDEKQAFLQ 91
Query: 64 VSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 99
V V H + +KN + + G + V D
Sbjct: 92 VFV----------QPHIIQLKNETTYENGQVTLVCD 117
Score = 29.3 bits (64), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 29/63 (46%)
Query: 45 YSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
+SC A + A + + + +G+ LT++N+ ++D G Y C A N G
Sbjct: 24 FSCRASGSPEPAISWFRNGKLIEENEKYILKGSNTELTVRNIINSDGGPYVCRATNKAGE 83
Query: 105 AKK 107
+K
Sbjct: 84 DEK 86
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 21/34 (61%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
+L IK+V+ +D G Y C A + +G +K M L +
Sbjct: 158 SLHIKDVKLSDSGRYDCEAASRIGGHQKSMYLDI 191
>pdb|1FGV|L Chain L, 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 = 109
Score = 36.2 bits (82), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 40/95 (42%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q D NY G+A K + L V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQ--DINNYLNWYQQKPGKAPKLLIYYTSTLESGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G +TLTI ++Q DF Y C N L
Sbjct: 60 SRFSGSGSGTDYTLTISSLQPEDFATYYCQQGNTL 94
Score = 32.0 bits (71), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ T +E V R G +TLTI ++Q DF Y C N
Sbjct: 33 LNWYQQKPGKAPKLLIYYTSTLESGVPSRFSGSGSGTDYTLTISSLQPEDFATYYCQQGN 92
Query: 52 NL 53
L
Sbjct: 93 TL 94
>pdb|1F3R|B Chain B, Complex Between Fv Antibody Fragment And An Analogue Of
The Main Immunogenic Region Of The Acetylcholine
Receptor
Length = 257
Score = 36.2 bits (82), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 40/94 (42%), Gaps = 7/94 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ TL+ K Q+ + NY LG A K + L +
Sbjct: 140 IKLTQSPSLLSASVGDRVTLSCKGSQNIN--NYLAWYQQKLGEAPKLLIYNTNSLQTGIP 197
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
R G +TLTI ++Q D Y C NN
Sbjct: 198 SRFSGSGSGTDYTLTISSLQPEDVATYFCYQYNN 231
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/81 (22%), Positives = 34/81 (41%), Gaps = 12/81 (14%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ +T ++ + R G +TLTI ++Q D Y C N
Sbjct: 171 LAWYQQKLGEAPKLLIYNTNSLQTGIPSRFSGSGSGTDYTLTISSLQPEDVATYFCYQYN 230
Query: 52 NLGRAKKYMELSVSVSDRRLM 72
N +L + ++++L+
Sbjct: 231 NGYTFGAGTKLELKAAEQKLI 251
>pdb|2K1M|A Chain A, 3d Nmr Structure Of Domain Cc0 Of Cardiac Myosin Binding
Protein C (Mybpc)
Length = 95
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 25/38 (65%)
Query: 64 VSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
+S S++ + T G +HTLT++ V D G+Y+ +A ++
Sbjct: 48 ISASNKYGLATEGTRHTLTVREVGPADQGSYAVIAGSS 85
Score = 34.3 bits (77), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 24/37 (64%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 52
S S++ + T G +HTLT++ V D G+Y+ +A ++
Sbjct: 49 SASNKYGLATEGTRHTLTVREVGPADQGSYAVIAGSS 85
>pdb|2FGW|L Chain L, 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 = 214
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 40/95 (42%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q D NY G+A K + L V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQ--DINNYLNWYQQKPGKAPKLLIYYTSTLHSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G +TLTI ++Q DF Y C N L
Sbjct: 60 SRFSGSGSGTDYTLTISSLQPEDFATYYCQQGNTL 94
Score = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 12/62 (19%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ T + V R G +TLTI ++Q DF Y C N
Sbjct: 33 LNWYQQKPGKAPKLLIYYTSTLHSGVPSRFSGSGSGTDYTLTISSLQPEDFATYYCQQGN 92
Query: 52 NL 53
L
Sbjct: 93 TL 94
>pdb|1NL0|L Chain L, Crystal Structure Of Human Factor Ix Gla Domain In Complex
Of An Inhibitory Antibody, 10c12
Length = 213
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 41/101 (40%), Gaps = 11/101 (10%)
Query: 8 QDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-- 65
Q PSVS G K T++ S NY + G+A K M VS
Sbjct: 1 QSVLTQPPSVS-----AAPGQKVTISCSGSTSNIGNNYVSWYQQHPGKAPKLMIYDVSKR 55
Query: 66 ---VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA-DNNL 102
V DR GN +L I +QS D +Y C A D++L
Sbjct: 56 PSGVPDRFSGSKSGNSASLDISGLQSEDEADYYCAAWDDSL 96
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 26/63 (41%), Gaps = 13/63 (20%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA-D 50
+SWYQ P V DR GN +L I +QS D +Y C A D
Sbjct: 34 VSWYQQHPGKAPKLMIYDVSKRPSGVPDRFSGSKSGNSASLDISGLQSEDEADYYCAAWD 93
Query: 51 NNL 53
++L
Sbjct: 94 DSL 96
>pdb|1RZG|B Chain B, Crystal Structure Of Human Anti-hiv-1 Gp120 Reactive
Antibody 412d
pdb|1RZG|D Chain D, Crystal Structure Of Human Anti-hiv-1 Gp120 Reactive
Antibody 412d
pdb|2QAD|C Chain C, Structure Of Tyrosine-Sulfated 412d Antibody Complexed
With Hiv-1 Yu2 Gp120 And Cd4
pdb|2QAD|G Chain G, Structure Of Tyrosine-Sulfated 412d Antibody Complexed
With Hiv-1 Yu2 Gp120 And Cd4
Length = 214
Score = 35.4 bits (80), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 39/89 (43%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + QS N+ GRA K + L V
Sbjct: 2 IQMTQSPSTLSASVGDRVTITCRASQS--ISNWLAWYQQKPGRAPKLLMYKASSLKSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G + TLTI ++QS DF Y C
Sbjct: 60 SRFSGSGSGTEFTLTISSLQSDDFATYYC 88
>pdb|3D69|L Chain L, Crystal Structure Of The Fab Fragment Of An Anti-Factor Ix
Antibody 10c12
pdb|3D69|A Chain A, Crystal Structure Of The Fab Fragment Of An Anti-Factor Ix
Antibody 10c12
Length = 216
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 41/101 (40%), Gaps = 11/101 (10%)
Query: 8 QDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-- 65
Q PSVS G K T++ S NY + G+A K M VS
Sbjct: 1 QSVLTQPPSVS-----AAPGQKVTISCSGSTSNIGNNYVSWYQQHPGKAPKLMIYDVSKR 55
Query: 66 ---VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA-DNNL 102
V DR GN +L I +QS D +Y C A D++L
Sbjct: 56 PSGVPDRFSGSKSGNSASLDISGLQSEDEADYYCAAWDDSL 96
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 39/103 (37%), Gaps = 25/103 (24%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA-D 50
+SWYQ P V DR GN +L I +QS D +Y C A D
Sbjct: 34 VSWYQQHPGKAPKLMIYDVSKRPSGVPDRFSGSKSGNSASLDISGLQSEDEADYYCAAWD 93
Query: 51 NNL-----GRAKKYMEL-------SVSVSDRRLMETRGNKHTL 81
++L G K L SV++ E + NK TL
Sbjct: 94 DSLSEFLFGTGTKLTVLGQPKAAPSVTLFPPSSEELQANKATL 136
>pdb|3NCJ|L Chain L, Crystal Structure Of Fab15 Mut8
Length = 214
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + QS G Y G+A K + L V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQS--IGLYLAWYQQKPGKAPKLLIYAASSLQSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G TLTI ++Q DF Y C N L
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYCQQGNTL 94
>pdb|3NA9|L Chain L, Crystal Structure Of Fab15
pdb|3NAA|L Chain L, Crystal Structure Of Fab15 Mut5
pdb|3NAB|L Chain L, Crystal Structure Of Fab15 Mut6
pdb|3NAC|L Chain L, Crystal Structure Of Fab15 Mut7
pdb|3ULU|L Chain L, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|L Chain L, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 214
Score = 35.4 bits (80), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + QS G Y G+A K + L V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQS--IGLYLAWYQQKPGKAPKLLIYAASSLQSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G TLTI ++Q DF Y C N L
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYCQQGNTL 94
>pdb|2KDG|A Chain A, Solution Structure Of The 1st Ig Domain Of Myotilin
Length = 100
Score = 35.0 bits (79), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 34/61 (55%), Gaps = 1/61 (1%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
+SWY + ++ + ++ +G H+L + V+++D G Y+CVA N G A ++L
Sbjct: 37 VSWYLNGRTVQSDDLHKMIVSEKG-LHSLIFEVVRASDAGAYACVAKNRAGEATFTVQLD 95
Query: 64 V 64
V
Sbjct: 96 V 96
Score = 32.3 bits (72), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 22/36 (61%)
Query: 79 HTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSEL 114
H+L + V+++D G Y+CVA N G A ++L L
Sbjct: 62 HSLIFEVVRASDAGAYACVAKNRAGEATFTVQLDVL 97
>pdb|3KR3|L Chain L, Crystal Structure Of Igf-Ii Antibody Complex
Length = 215
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 39/89 (43%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T + QS NY G+A K + + S V
Sbjct: 3 IQMTQSPSSLSASVGDRVTITCRASQS--ISNYLNWYQQKPGKAPKLLIYTASTLQSGVP 60
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF YSC
Sbjct: 61 SRFSGSASGTDFTLTINSLQPEDFATYSC 89
>pdb|2A9M|L Chain L, Structural Analysis Of A Tight-Binding Fluorescein-Scfv;
Apo Form
pdb|2A9M|M Chain M, Structural Analysis Of A Tight-Binding Fluorescein-Scfv;
Apo Form
pdb|2A9N|L Chain L, A Mutation Designed To Alter Crystal Packing Permits
Structural Analysis Of A Tight-Binding Fluorescein-Scfv
Complex
pdb|2A9N|M Chain M, A Mutation Designed To Alter Crystal Packing Permits
Structural Analysis Of A Tight-Binding Fluorescein-Scfv
Complex
Length = 110
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 42/99 (42%), Gaps = 10/99 (10%)
Query: 10 TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS---- 65
+ L +PS + G K T++ S NY + G+A K M VS
Sbjct: 1 SVLTQPS----SVSAAPGQKVTISCSGSTSNIGNNYVSWYQQHPGKAPKLMIYDVSKRPS 56
Query: 66 -VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA-DNNL 102
V DR GN +L I +QS D +Y C A D++L
Sbjct: 57 GVPDRFSGSKSGNSASLDISGLQSEDEADYYCAAWDDSL 95
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 26/63 (41%), Gaps = 13/63 (20%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA-D 50
+SWYQ P V DR GN +L I +QS D +Y C A D
Sbjct: 33 VSWYQQHPGKAPKLMIYDVSKRPSGVPDRFSGSKSGNSASLDISGLQSEDEADYYCAAWD 92
Query: 51 NNL 53
++L
Sbjct: 93 DSL 95
>pdb|1H8O|A Chain A, Three-Dimensional Structure Of Anti-Ampicillin Single
Chain Fv Fragment.
pdb|1H8O|B Chain B, Three-Dimensional Structure Of Anti-Ampicillin Single
Chain Fv Fragment.
pdb|1H8S|A Chain A, Three-Dimensional Structure Of Anti-Ampicillin Single
Chain Fv Fragment Complexed With The Hapten.
pdb|1H8S|B Chain B, Three-Dimensional Structure Of Anti-Ampicillin Single
Chain Fv Fragment Complexed With The Hapten
Length = 252
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 41/95 (43%), Gaps = 10/95 (10%)
Query: 7 YQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS- 65
Y+D L + S + + + G++ ++T K Q D G G++ K + S
Sbjct: 2 YKDIVLTQ---SHKFMSTSVGDRVSITCKASQ--DVGTAVAWYQQKPGQSPKLLIYWAST 56
Query: 66 ----VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V DR G TLTI NVQS D +Y C
Sbjct: 57 RHTGVPDRFTGSGSGTDFTLTISNVQSEDLADYFC 91
>pdb|1QZ1|A Chain A, Crystal Structure Of The Ig 1-2-3 Fragment Of Ncam
Length = 291
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 26/61 (42%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
MSW +D IE D + LTI+NV D Y C+A+N G + L
Sbjct: 228 MSWTKDGEPIENEEEDDEKHIFSDDSSELTIRNVDKNDEAEYVCIAENKAGEQDASIHLK 287
Query: 64 V 64
V
Sbjct: 288 V 288
Score = 28.5 bits (62), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 16/31 (51%)
Query: 81 LTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 111
LTI+NV D Y C+A+N G + L
Sbjct: 256 LTIRNVDKNDEAEYVCIAENKAGEQDASIHL 286
>pdb|2EDJ|A Chain A, Solution Structure Of The Fifth Ig-Like Domain From
Human Roundabout Homolog 2
Length = 100
Score = 35.0 bits (79), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 36/67 (53%), Gaps = 4/67 (5%)
Query: 1 MGMMSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM 60
+ ++SW ++ F P R ++ +G TL IKN++ +D G Y+CVA ++ G
Sbjct: 37 LPVISWLKEGFTF-PGRDPRATIQEQG---TLQIKNLRISDTGTYTCVATSSSGETSWSA 92
Query: 61 ELSVSVS 67
L V+ S
Sbjct: 93 VLDVTES 99
Score = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 28/58 (48%)
Query: 47 CVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
C A + +++ + R T + TL IKN++ +D G Y+CVA ++ G
Sbjct: 30 CKATGDPLPVISWLKEGFTFPGRDPRATIQEQGTLQIKNLRISDTGTYTCVATSSSGE 87
>pdb|1H8N|A Chain A, Three-Dimensional Structure Of Anti-Ampicillin Single
Chain Fv Fragment From Phage-Displayed Murine Antibody
Libraries
Length = 252
Score = 35.0 bits (79), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 41/95 (43%), Gaps = 10/95 (10%)
Query: 7 YQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS- 65
Y+D L + S + + + G++ ++T K Q D G G++ K + S
Sbjct: 2 YKDIVLTQ---SHKFMSTSVGDRVSITCKASQ--DVGTAVAWYQQKPGQSPKLLIYWAST 56
Query: 66 ----VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V DR G TLTI NVQS D +Y C
Sbjct: 57 RHTGVPDRFTGSGSGTDFTLTISNVQSEDLADYFC 91
>pdb|4G6K|L Chain L, Crystal Structure Of The Therapeutic Antibody Binding
Fragment Of Gevokizumab In Its Unbound State
Length = 212
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 40/90 (44%), Gaps = 7/90 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q D NY G+A K + +L V
Sbjct: 2 IQMTQSTSSLSASVGDRVTITCRASQ--DISNYLSWYQQKPGKAVKLLIYYTSKLHSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
R G +TLTI ++Q DF Y C+
Sbjct: 60 SRFSGSGSGTDYTLTISSLQQEDFATYFCL 89
Score = 28.9 bits (63), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 23/57 (40%), Gaps = 12/57 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
+SWYQ T + V R G +TLTI ++Q DF Y C+
Sbjct: 33 LSWYQQKPGKAVKLLIYYTSKLHSGVPSRFSGSGSGTDYTLTISSLQQEDFATYFCL 89
>pdb|4G6M|L Chain L, Crystal Strucure Of Human Il-1beta In Complex With
Therapeutic Antibody Binding Fragment Of Gevokizumab
Length = 213
Score = 34.7 bits (78), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 40/90 (44%), Gaps = 7/90 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q D NY G+A K + +L V
Sbjct: 2 IQMTQSTSSLSASVGDRVTITCRASQ--DISNYLSWYQQKPGKAVKLLIYYTSKLHSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
R G +TLTI ++Q DF Y C+
Sbjct: 60 SRFSGSGSGTDYTLTISSLQQEDFATYFCL 89
Score = 28.9 bits (63), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 23/57 (40%), Gaps = 12/57 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
+SWYQ T + V R G +TLTI ++Q DF Y C+
Sbjct: 33 LSWYQQKPGKAVKLLIYYTSKLHSGVPSRFSGSGSGTDYTLTISSLQQEDFATYFCL 89
>pdb|3LCY|A Chain A, Titin Ig Tandem Domains A164-A165
pdb|3LCY|B Chain B, Titin Ig Tandem Domains A164-A165
pdb|3LCY|C Chain C, Titin Ig Tandem Domains A164-A165
pdb|3LCY|D Chain D, Titin Ig Tandem Domains A164-A165
Length = 197
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 28/54 (51%), Gaps = 2/54 (3%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAK 57
+ WY+ F E S + M + G HTLT+ + D G Y+C+A N +G +
Sbjct: 39 IKWYR--FGKELIQSRKYKMSSDGRTHTLTVMTEEQEDEGVYTCIATNEVGEVE 90
Score = 32.7 bits (73), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 72 METRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAK 106
M + G HTLT+ + D G Y+C+A N +G +
Sbjct: 56 MSSDGRTHTLTVMTEEQEDEGVYTCIATNEVGEVE 90
>pdb|1I3G|L Chain L, Crystal Structure Of An Ampicillin Single Chain Fv, Form
1, Free
Length = 111
Score = 34.3 bits (77), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 41/95 (43%), Gaps = 10/95 (10%)
Query: 7 YQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS- 65
Y+D L + S + + + G++ ++T K Q D G G++ K + S
Sbjct: 2 YKDIVLTQ---SHKFMSTSVGDRVSITCKASQ--DVGTAVAWYQQKPGQSPKLLIYWAST 56
Query: 66 ----VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V DR G TLTI NVQS D +Y C
Sbjct: 57 RHTGVPDRFTGSGSGTDFTLTISNVQSEDLADYFC 91
>pdb|2WIM|A Chain A, Crystal Structure Of Ncam2 Ig1-3
pdb|2WIM|B Chain B, Crystal Structure Of Ncam2 Ig1-3
Length = 291
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 37/63 (58%), Gaps = 4/63 (6%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
+SW+++ LIE + ++ ++ +G+ LT++N+ ++D G Y C A N G +K L
Sbjct: 226 ISWFRNGKLIEEN--EKYIL--KGSNTELTVRNIINSDGGPYVCRATNKAGEDEKQAFLQ 281
Query: 64 VSV 66
V V
Sbjct: 282 VFV 284
Score = 28.9 bits (63), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 20/33 (60%)
Query: 75 RGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKK 107
+G+ LT++N+ ++D G Y C A N G +K
Sbjct: 244 KGSNTELTVRNIINSDGGPYVCRATNKAGEDEK 276
>pdb|2V5T|A Chain A, Crystal Structure Of Ncam2 Ig2-3
Length = 189
Score = 34.3 bits (77), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 37/63 (58%), Gaps = 4/63 (6%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
+SW+++ LIE + ++ ++ +G+ LT++N+ ++D G Y C A N G +K L
Sbjct: 130 ISWFRNGKLIEEN--EKYIL--KGSNTELTVRNIINSDGGPYVCRATNKAGEDEKQAFLQ 185
Query: 64 VSV 66
V V
Sbjct: 186 VFV 188
Score = 29.3 bits (64), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 29/63 (46%)
Query: 45 YSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
+SC A + A + + + +G+ LT++N+ ++D G Y C A N G
Sbjct: 118 FSCRASGSPEPAISWFRNGKLIEENEKYILKGSNTELTVRNIINSDGGPYVCRATNKAGE 177
Query: 105 AKK 107
+K
Sbjct: 178 DEK 180
>pdb|2Y23|A Chain A, Crystal Structure Of The Myomesin Domains My9-My11
Length = 312
Score = 34.3 bits (77), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 29/57 (50%), Gaps = 2/57 (3%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM 60
SW +D E S R +E++GNK +T K++ D G YSC + G A Y+
Sbjct: 34 FSWSKDYVSTEDS--PRLEVESKGNKTKMTFKDLGMDDLGIYSCDVTDTDGIASSYL 88
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 33/69 (47%), Gaps = 5/69 (7%)
Query: 44 NYSC---VADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 100
N+ C + +K Y +S S R +E++GNK +T K++ D G YSC +
Sbjct: 22 NFECDKMTPKSEFSWSKDY--VSTEDSPRLEVESKGNKTKMTFKDLGMDDLGIYSCDVTD 79
Query: 101 NLGRAKKYM 109
G A Y+
Sbjct: 80 TDGIASSYL 88
>pdb|3MUH|L Chain L, Crystal Structure Of Pg9 Light Chain
Length = 216
Score = 33.9 bits (76), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 26/75 (34%), Positives = 37/75 (49%), Gaps = 8/75 (10%)
Query: 30 HTLTIK-NVQSTDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRRLMETRGNKHTL 81
++TI N S D G Y V+ + G+A K + VS VS+R GN +L
Sbjct: 16 QSITISCNGTSNDVGGYESVSWYQQHPGKAPKVVIYDVSKRPSGVSNRFSGSKSGNTASL 75
Query: 82 TIKNVQSTDFGNYSC 96
TI +Q+ D G+Y C
Sbjct: 76 TISGLQAEDEGDYYC 90
Score = 28.5 bits (62), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+SWYQ P VS+R GN +LTI +Q+ D G+Y C
Sbjct: 35 VSWYQQHPGKAPKVVIYDVSKRPSGVSNRFSGSKSGNTASLTISGLQAEDEGDYYC 90
>pdb|3I9G|L Chain L, Crystal Structure Of The Lt1009 (Sonepcizumab) Antibody
Fab Fragment In Complex With Sphingosine-1-Phosphate
Length = 213
Score = 33.9 bits (76), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 20/42 (47%)
Query: 12 LIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 53
++ P V R G TLTI +Q DF Y C+ +NL
Sbjct: 53 ILRPGVPSRFSSSGYGTDFTLTISKLQPEDFATYYCLQSDNL 94
Score = 30.4 bits (67), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 18/54 (33%), Positives = 23/54 (42%), Gaps = 5/54 (9%)
Query: 54 GRAKKYME-----LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
G+A K + L V R G TLTI +Q DF Y C+ +NL
Sbjct: 41 GKAPKLLISEGNILRPGVPSRFSSSGYGTDFTLTISKLQPEDFATYYCLQSDNL 94
>pdb|2VRA|A Chain A, Drosophila Robo Ig1-2 (Monoclinic Form)
pdb|2VRA|B Chain B, Drosophila Robo Ig1-2 (Monoclinic Form)
pdb|2VRA|C Chain C, Drosophila Robo Ig1-2 (Monoclinic Form)
pdb|2VRA|D Chain D, Drosophila Robo Ig1-2 (Monoclinic Form)
Length = 208
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLG-RAKKYMELSVSV 66
L I NV+ D GNY C+A N +G R Y +L V V
Sbjct: 172 LLISNVEPIDEGNYKCIAQNLVGTRESSYAKLIVQV 207
Score = 32.0 bits (71), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG-RAKKYMEL 111
+S S R + GN L I NV+ D GNY C+A N +G R Y +L
Sbjct: 156 MSFGASSRVRIVDGGN---LLISNVEPIDEGNYKCIAQNLVGTRESSYAKL 203
>pdb|2VR9|A Chain A, Drosophila Robo Ig1-2 (Tetragonal Form)
pdb|2VR9|B Chain B, Drosophila Robo Ig1-2 (Tetragonal Form)
pdb|2VR9|C Chain C, Drosophila Robo Ig1-2 (Tetragonal Form)
Length = 217
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 21/36 (58%), Gaps = 1/36 (2%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLG-RAKKYMELSVSV 66
L I NV+ D GNY C+A N +G R Y +L V V
Sbjct: 172 LLISNVEPIDEGNYKCIAQNLVGTRESSYAKLIVQV 207
Score = 32.0 bits (71), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG-RAKKYMEL 111
+S S R + GN L I NV+ D GNY C+A N +G R Y +L
Sbjct: 156 MSFGASSRVRIVDGGN---LLISNVEPIDEGNYKCIAQNLVGTRESSYAKL 203
>pdb|1FN4|A Chain A, Crystal Structure Of Fab198, An Efficient Protector Of
Acetylcholine Receptor Against Myasthenogenic Antibodies
pdb|1FN4|C Chain C, Crystal Structure Of Fab198, An Efficient Protector Of
Acetylcholine Receptor Against Myasthenogenic Antibodies
Length = 211
Score = 33.9 bits (76), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 36/99 (36%), Gaps = 16/99 (16%)
Query: 8 QDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----EL 62
Q L+ SV DR + +G S + NY LG A K + L
Sbjct: 6 QSPSLLSASVGDRVTLSCKG-----------SQNINNYLAWYQQKLGEAPKLLIYNTNSL 54
Query: 63 SVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
+ R G +TLTI ++Q D Y C NN
Sbjct: 55 QTGIPSRFSGSGSGTDYTLTISSLQPEDVATYFCYQYNN 93
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 25/61 (40%), Gaps = 12/61 (19%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ +T ++ + R G +TLTI ++Q D Y C N
Sbjct: 33 LAWYQQKLGEAPKLLIYNTNSLQTGIPSRFSGSGSGTDYTLTISSLQPEDVATYFCYQYN 92
Query: 52 N 52
N
Sbjct: 93 N 93
>pdb|3KLD|A Chain A, Ptprg Cntn4 Complex
Length = 384
Score = 33.9 bits (76), Expect = 0.025, Method: Composition-based stats.
Identities = 32/121 (26%), Positives = 46/121 (38%), Gaps = 40/121 (33%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLGR--AKKYM-------------ELSVSVSDRRLMETRG 76
L I N Q D G+Y CVA+N+ G+ AK + ++ V++ + E +
Sbjct: 260 LEIPNFQQEDAGSYECVAENSRGKNVAKGQLTFYAQPNWVQIINDIHVAMEESVFWECKA 319
Query: 77 N-------------------------KHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 111
N + TL I V +D G Y CVA+N G EL
Sbjct: 320 NGRPKPTYRWLKNGDPLLTRDRIQIEQGTLNITIVNLSDAGMYQCVAENKHGVIFSSAEL 379
Query: 112 S 112
S
Sbjct: 380 S 380
Score = 30.0 bits (66), Expect = 0.32, Method: Composition-based stats.
Identities = 32/144 (22%), Positives = 50/144 (34%), Gaps = 57/144 (39%)
Query: 15 PSVSDRR--LMETRGNKHTLTIKNVQSTDFGNYSCVADNN-------------------- 52
PS D R + + GN L I V+ +D GNY+CV N
Sbjct: 143 PSYQDNRRFVSQETGN---LYIAKVEKSDVGNYTCVVTNTVTNHKVLGPPTPLILRNDGV 199
Query: 53 LGRAKKYMELSVSVS----------------------------DRRLMETRGNKHT---- 80
+G + +E+ + D + + + +H
Sbjct: 200 MGEYEPKIEVQFPETVPAEKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKSNGI 259
Query: 81 LTIKNVQSTDFGNYSCVADNNLGR 104
L I N Q D G+Y CVA+N+ G+
Sbjct: 260 LEIPNFQQEDAGSYECVAENSRGK 283
Score = 28.9 bits (63), Expect = 0.67, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 14 EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
+P ++ R+ +G TL I V +D G Y CVA+N G ELSV
Sbjct: 334 DPLLTRDRIQIEQG---TLNITIVNLSDAGMYQCVAENKHGVIFSSAELSV 381
Score = 27.3 bits (59), Expect = 2.1, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 68 DRRLM-ETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAK 106
+RR + + GN L I V+ +D GNY+CV N + K
Sbjct: 148 NRRFVSQETGN---LYIAKVEKSDVGNYTCVVTNTVTNHK 184
>pdb|3JXA|A Chain A, Immunoglobulin Domains 1-4 Of Mouse Cntn4
pdb|3JXA|B Chain B, Immunoglobulin Domains 1-4 Of Mouse Cntn4
Length = 383
Score = 33.9 bits (76), Expect = 0.025, Method: Composition-based stats.
Identities = 32/121 (26%), Positives = 46/121 (38%), Gaps = 40/121 (33%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLGR--AKKYM-------------ELSVSVSDRRLMETRG 76
L I N Q D G+Y CVA+N+ G+ AK + ++ V++ + E +
Sbjct: 259 LEIPNFQQEDAGSYECVAENSRGKNVAKGQLTFYAQPNWVQIINDIHVAMEESVFWECKA 318
Query: 77 N-------------------------KHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 111
N + TL I V +D G Y CVA+N G EL
Sbjct: 319 NGRPKPTYRWLKNGDPLLTRDRIQIEQGTLNITIVNLSDAGMYQCVAENKHGVIFSSAEL 378
Query: 112 S 112
S
Sbjct: 379 S 379
Score = 30.0 bits (66), Expect = 0.32, Method: Composition-based stats.
Identities = 32/144 (22%), Positives = 50/144 (34%), Gaps = 57/144 (39%)
Query: 15 PSVSDRR--LMETRGNKHTLTIKNVQSTDFGNYSCVADNN-------------------- 52
PS D R + + GN L I V+ +D GNY+CV N
Sbjct: 142 PSYQDNRRFVSQETGN---LYIAKVEKSDVGNYTCVVTNTVTNHKVLGPPTPLILRNDGV 198
Query: 53 LGRAKKYMELSVSVS----------------------------DRRLMETRGNKHT---- 80
+G + +E+ + D + + + +H
Sbjct: 199 MGEYEPKIEVQFPETVPAEKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKSNGI 258
Query: 81 LTIKNVQSTDFGNYSCVADNNLGR 104
L I N Q D G+Y CVA+N+ G+
Sbjct: 259 LEIPNFQQEDAGSYECVAENSRGK 282
Score = 28.9 bits (63), Expect = 0.67, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 26/51 (50%), Gaps = 3/51 (5%)
Query: 14 EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
+P ++ R+ +G TL I V +D G Y CVA+N G ELSV
Sbjct: 333 DPLLTRDRIQIEQG---TLNITIVNLSDAGMYQCVAENKHGVIFSSAELSV 380
Score = 27.3 bits (59), Expect = 2.1, Method: Composition-based stats.
Identities = 15/40 (37%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 68 DRRLM-ETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAK 106
+RR + + GN L I V+ +D GNY+CV N + K
Sbjct: 147 NRRFVSQETGN---LYIAKVEKSDVGNYTCVVTNTVTNHK 183
>pdb|2KH2|B Chain B, Solution Structure Of A Scfv-Il-1b Complex
Length = 254
Score = 33.9 bits (76), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 40/89 (44%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + S + NY G+A + + L+ V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRT--SGNIHNYLTWYQQKPGKAPQLLIYNAKTLADGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G + TLTI ++Q DF NY C
Sbjct: 60 SRFSGSGSGTQFTLTISSLQPEDFANYYC 88
>pdb|2Q1E|A Chain A, Altered Dimer Interface Decreases Stability In An
Amyloidogenic Kappa1 Bence Jones Protein.
pdb|2Q1E|B Chain B, Altered Dimer Interface Decreases Stability In An
Amyloidogenic Kappa1 Bence Jones Protein.
pdb|2Q1E|C Chain C, Altered Dimer Interface Decreases Stability In An
Amyloidogenic Kappa1 Bence Jones Protein.
pdb|2Q1E|D Chain D, Altered Dimer Interface Decreases Stability In An
Amyloidogenic Kappa1 Bence Jones Protein
Length = 109
Score = 33.5 bits (75), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q D NY G+A K + L V
Sbjct: 4 IQMTQSPSSLSASVGDRVTITCQASQ--DINNYLIWYQQKPGQAPKLLIYDASTLETGVP 61
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G + T TI ++Q D Y C +NL
Sbjct: 62 SRFSGSGSGTEFTFTISSLQPEDLATYHCQQYDNL 96
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 22/60 (36%), Gaps = 12/60 (20%)
Query: 6 WYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 53
WYQ D +E V R G + T TI ++Q D Y C +NL
Sbjct: 37 WYQQKPGQAPKLLIYDASTLETGVPSRFSGSGSGTEFTFTISSLQPEDLATYHCQQYDNL 96
>pdb|2XA8|L Chain L, Crystal Structure Of The Fab Domain Of Omalizumab At
2.41a
Length = 218
Score = 33.5 bits (75), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 40/91 (43%), Gaps = 7/91 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFG--NYSCVADNNLGRAKKYMELSVS----- 65
I+ + S L + G++ T+T + QS D+ +Y G+A K + + S
Sbjct: 2 IQLTQSPSSLSASVGDRVTITCRASQSVDYDGDSYMNWYQQKPGKAPKLLIYAASYLESG 61
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V R G TLTI ++Q DF Y C
Sbjct: 62 VPSRFSGSGSGTDFTLTISSLQPEDFATYYC 92
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 21/56 (37%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
M+WYQ +E V R G TLTI ++Q DF Y C
Sbjct: 37 MNWYQQKPGKAPKLLIYAASYLESGVPSRFSGSGSGTDFTLTISSLQPEDFATYYC 92
>pdb|3CDY|A Chain A, Al-09 H87y, Immunoglobulin Light Chain Variable Domain
pdb|3CDY|B Chain B, Al-09 H87y, Immunoglobulin Light Chain Variable Domain
Length = 109
Score = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q D NY G+A K + L V
Sbjct: 4 IQMTQSPSSLSASVGDRVTITCQASQ--DINNYLIWYQQKPGQAPKLLIYDASTLETGVP 61
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G + T TI ++Q D Y C +NL
Sbjct: 62 SRFSGSGSGTEFTFTISSLQPEDLATYYCQQYDNL 96
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 22/60 (36%), Gaps = 12/60 (20%)
Query: 6 WYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 53
WYQ D +E V R G + T TI ++Q D Y C +NL
Sbjct: 37 WYQQKPGQAPKLLIYDASTLETGVPSRFSGSGSGTEFTFTISSLQPEDLATYYCQQYDNL 96
>pdb|2KQN|A Chain A, Solution Structure Of The Al-09 H87y Immunoglobulin Light
Ch Variable Domain
pdb|2KQN|B Chain B, Solution Structure Of The Al-09 H87y Immunoglobulin Light
Ch Variable Domain
Length = 110
Score = 33.5 bits (75), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q D NY G+A K + L V
Sbjct: 4 IQMTQSPSSLSASVGDRVTITCQASQ--DINNYLIWYQQKPGQAPKLLIYDASTLETGVP 61
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G + T TI ++Q D Y C +NL
Sbjct: 62 SRFSGSGSGTEFTFTISSLQPEDLATYYCQQYDNL 96
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 22/60 (36%), Gaps = 12/60 (20%)
Query: 6 WYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 53
WYQ D +E V R G + T TI ++Q D Y C +NL
Sbjct: 37 WYQQKPGQAPKLLIYDASTLETGVPSRFSGSGSGTEFTFTISSLQPEDLATYYCQQYDNL 96
>pdb|3LRS|L Chain L, Structure Of Pg16, An Antibody With Broad And Potent
Neutralization Of Hiv-1
pdb|3LRS|B Chain B, Structure Of Pg16, An Antibody With Broad And Potent
Neutralization Of Hiv-1
pdb|3LRS|D Chain D, Structure Of Pg16, An Antibody With Broad And Potent
Neutralization Of Hiv-1
pdb|3LRS|F Chain F, Structure Of Pg16, An Antibody With Broad And Potent
Neutralization Of Hiv-1
Length = 211
Score = 33.5 bits (75), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 36/75 (48%), Gaps = 8/75 (10%)
Query: 30 HTLTIK-NVQSTDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRRLMETRGNKHTL 81
T+TI N S+D G + V+ + G+A K M VS +S+R GN +L
Sbjct: 14 QTITISCNGTSSDVGGFDSVSWYQQSPGKAPKVMVFDVSHRPSGISNRFSGSKSGNTASL 73
Query: 82 TIKNVQSTDFGNYSC 96
TI + D G+Y C
Sbjct: 74 TISGLHIEDEGDYFC 88
>pdb|1TZH|A Chain A, Crystal Structure Of The Fab Yads1 Complexed With H-Vegf
pdb|1TZH|L Chain L, Crystal Structure Of The Fab Yads1 Complexed With H-Vegf
Length = 213
Score = 33.5 bits (75), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 38/86 (44%), Gaps = 11/86 (12%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRR 70
S L + G++ T+T + Q+ +YS VA G+A K + + S V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQA----SYSSVAWYQQKPGKAPKLLIYAASYLYSGVPSRF 62
Query: 71 LMETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q DF Y C
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|3MUG|A Chain A, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|C Chain C, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|E Chain E, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|G Chain G, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|I Chain I, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|K Chain K, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
Length = 216
Score = 33.5 bits (75), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 36/75 (48%), Gaps = 8/75 (10%)
Query: 30 HTLTIK-NVQSTDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRRLMETRGNKHTL 81
T+TI N S+D G + V+ + G+A K M VS +S+R GN +L
Sbjct: 16 QTITISCNGTSSDVGGFDSVSWYQQSPGKAPKVMVFDVSHRPSGISNRFSGSKSGNTASL 75
Query: 82 TIKNVQSTDFGNYSC 96
TI + D G+Y C
Sbjct: 76 TISGLHIEDEGDYFC 90
>pdb|3MME|L Chain L, Structure And Functional Dissection Of Pg16, An Antibody
With Broad And Potent Neutralization Of Hiv-1
pdb|3MME|B Chain B, Structure And Functional Dissection Of Pg16, An Antibody
With Broad And Potent Neutralization Of Hiv-1
pdb|3MME|D Chain D, Structure And Functional Dissection Of Pg16, An Antibody
With Broad And Potent Neutralization Of Hiv-1
Length = 216
Score = 33.1 bits (74), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 36/75 (48%), Gaps = 8/75 (10%)
Query: 30 HTLTIK-NVQSTDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRRLMETRGNKHTL 81
T+TI N S+D G + V+ + G+A K M VS +S+R GN +L
Sbjct: 16 QTITISCNGTSSDVGGFDSVSWYQQSPGKAPKVMVFDVSHRPSGISNRFSGSKSGNTASL 75
Query: 82 TIKNVQSTDFGNYSC 96
TI + D G+Y C
Sbjct: 76 TISGLHIEDEGDYFC 90
>pdb|3CDC|A Chain A, Ki O18O8 N34IY87H IMMUNOGLOBULIN LIGHT CHAIN VARIABLE
Domain
pdb|3CDC|B Chain B, Ki O18O8 N34IY87H IMMUNOGLOBULIN LIGHT CHAIN VARIABLE
Domain
Length = 109
Score = 33.1 bits (74), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 38/95 (40%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q D NY G+A K + L V
Sbjct: 4 IQMTQSPSSLSASVGDRVTITCQASQ--DISNYLIWYQQKPGKAPKLLIYDASNLETGVP 61
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G T TI ++Q D Y C +NL
Sbjct: 62 SRFSGSGSGTDFTFTISSLQPEDIATYHCQQYDNL 96
>pdb|3U2S|L Chain L, Crystal Structure Of Pg9 Fab In Complex With V1v2 Region
From Hiv-1 Strain Zm109
pdb|3U2S|B Chain B, Crystal Structure Of Pg9 Fab In Complex With V1v2 Region
From Hiv-1 Strain Zm109
pdb|3U36|L Chain L, Crystal Structure Of Pg9 Fab
pdb|3U36|B Chain B, Crystal Structure Of Pg9 Fab
pdb|3U36|D Chain D, Crystal Structure Of Pg9 Fab
pdb|3U36|F Chain F, Crystal Structure Of Pg9 Fab
pdb|3U4E|L Chain L, Crystal Structure Of Pg9 Fab In Complex With V1v2 Region
From Hiv-1 Strain Cap45
pdb|3U4E|B Chain B, Crystal Structure Of Pg9 Fab In Complex With V1v2 Region
From Hiv-1 Strain Cap45
Length = 216
Score = 33.1 bits (74), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 32/65 (49%), Gaps = 7/65 (10%)
Query: 39 STDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDF 91
S D G Y V+ + G+A K + VS VS+R GN +LTI +Q+ D
Sbjct: 26 SNDVGGYESVSWYQQHPGKAPKVVIYDVSKRPSGVSNRFSGSKSGNTASLTISGLQAEDE 85
Query: 92 GNYSC 96
G+Y C
Sbjct: 86 GDYYC 90
Score = 28.5 bits (62), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+SWYQ P VS+R GN +LTI +Q+ D G+Y C
Sbjct: 35 VSWYQQHPGKAPKVVIYDVSKRPSGVSNRFSGSKSGNTASLTISGLQAEDEGDYYC 90
>pdb|1L7I|L Chain L, Crystal Structure Of The Anti-Erbb2 Fab2c4
pdb|1S78|C Chain C, Insights Into Erbb Signaling From The Structure Of The
Erbb2- Pertuzumab Complex
pdb|1S78|E Chain E, Insights Into Erbb Signaling From The Structure Of The
Erbb2- Pertuzumab Complex
Length = 214
Score = 33.1 bits (74), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 38/91 (41%), Gaps = 11/91 (12%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS----- 65
I+ + S L + G++ T+T K Q G VA G+A K + S S
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCKASQDVSIG----VAWYQQKPGKAPKLLIYSASYRYTG 57
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V R G TLTI ++Q DF Y C
Sbjct: 58 VPSRFSGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|1DQL|L Chain L, Crystal Structure Of An Unliganded (Native) Fv From A
Human Igm Anti-Peptide Antibody
Length = 106
Score = 33.1 bits (74), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 40/96 (41%), Gaps = 11/96 (11%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQST--DFGNYSCVADNNLGRAKKYM-----ELSVS 65
I+ + S L + G++ T+T + Q D G Y G+A K + L
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQDIRNDLGWY----QQKPGKAPKKLIYAASSLQSG 57
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
V R G TLTI ++Q DF Y C+ N+
Sbjct: 58 VPSRFSGSGSGTDFTLTISSLQPEDFATYYCLQQNS 93
>pdb|3DVI|A Chain A, Crystal Structure Of Kappa 1 Amyloidogenic Light Chain
Variable Domain
Length = 109
Score = 33.1 bits (74), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 35/90 (38%), Gaps = 7/90 (7%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLM 72
S L + G++ T+T + Q D NY G+A K + L V R
Sbjct: 8 SPSSLSASVGDRVTITCQASQ--DISNYLIWYQQKPGKAPKLLIYDASNLETGVPSRFSG 65
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
G T TI ++Q D Y C +NL
Sbjct: 66 SGSGTDFTFTISSLQPEDIATYYCQQYHNL 95
>pdb|2JIX|A Chain A, Crystal Structure Of Abt-007 Fab Fragment With The Soluble
Domain Of Epo Receptor
pdb|2JIX|G Chain G, Crystal Structure Of Abt-007 Fab Fragment With The Soluble
Domain Of Epo Receptor
pdb|2JIX|L Chain L, Crystal Structure Of Abt-007 Fab Fragment With The Soluble
Domain Of Epo Receptor
Length = 214
Score = 33.1 bits (74), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 40/95 (42%), Gaps = 11/95 (11%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQST--DFGNYSCVADNNLGRAKKYM-----ELSVS 65
I+ + S L + G++ T+T + Q D G Y G+A K + L
Sbjct: 2 IQLTQSPSSLSASVGDRVTITCRASQGIRNDLGWY----QQKPGKAPKRLIYAASSLQSG 57
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 100
V R G + TLTI ++Q DF Y C+ N
Sbjct: 58 VPSRFSGSGSGTEFTLTISSLQPEDFATYYCLQHN 92
>pdb|12E8|L Chain L, 2e8 Fab Fragment
pdb|12E8|M Chain M, 2e8 Fab Fragment
Length = 214
Score = 33.1 bits (74), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 37/83 (44%), Gaps = 8/83 (9%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLME 73
++ M T G++ ++T K Q + G G++ K M S S V DR
Sbjct: 8 QKFMSTSVGDRVSITCKASQ--NVGTAVAWYQQKPGQSPKLMIYSASNRYTGVPDRFTGS 65
Query: 74 TRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI N+QS D +Y C
Sbjct: 66 GSGTDFTLTISNMQSEDLADYFC 88
Score = 29.6 bits (65), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ P V DR G TLTI N+QS D +Y C
Sbjct: 33 VAWYQQKPGQSPKLMIYSASNRYTGVPDRFTGSGSGTDFTLTISNMQSEDLADYFC 88
>pdb|1MEX|L Chain L, Antibody Catalysis Of A Bimolecular Cycloaddition
Reaction
Length = 213
Score = 33.1 bits (74), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 36/83 (43%), Gaps = 8/83 (9%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLME 73
++ M T GN+ ++T K Q + G G++ K + S S V DR
Sbjct: 8 QKFMSTSLGNRVSVTCKASQ--NVGTNVAWFQQKPGQSPKTLIYSASYRYSGVPDRFTGS 65
Query: 74 TRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI NVQS D Y C
Sbjct: 66 GSGTDFTLTINNVQSEDLAEYFC 88
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 15/31 (48%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
V DR G TLTI NVQS D Y C
Sbjct: 58 VPDRFTGSGSGTDFTLTINNVQSEDLAEYFC 88
>pdb|2JLL|A Chain A, Crystal Structure Of Ncam2 Igiv-Fn3ii
Length = 389
Score = 32.7 bits (73), Expect = 0.047, Method: Composition-based stats.
Identities = 16/65 (24%), Positives = 31/65 (47%), Gaps = 2/65 (3%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
+ W +D ++ + + G K L I DFG Y+C A N++G ++ E
Sbjct: 132 IHWRRDKLVLPAKNTTNLKTYSTGRKMILEIAPTSDNDFGRYNCTATNHIG--TRFQEYI 189
Query: 64 VSVSD 68
++++D
Sbjct: 190 LALAD 194
Score = 31.6 bits (70), Expect = 0.12, Method: Composition-based stats.
Identities = 30/143 (20%), Positives = 54/143 (37%), Gaps = 47/143 (32%)
Query: 14 EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVS------ 67
+ S+ R ++ + +L IK+V+ +D G Y C A + +G +K M L + +
Sbjct: 47 DKSLDGRIEVKGQHGSSSLHIKDVKLSDSGRYDCEAASRIGGHQKSMYLDIEYAPKFISN 106
Query: 68 ------------------------------DRRLMETR----------GNKHTLTIKNVQ 87
D+ ++ + G K L I
Sbjct: 107 QTIYYSWEGNPINISCDVKSNPPASIHWRRDKLVLPAKNTTNLKTYSTGRKMILEIAPTS 166
Query: 88 STDFGNYSCVADNNLG-RAKKYM 109
DFG Y+C A N++G R ++Y+
Sbjct: 167 DNDFGRYNCTATNHIGTRFQEYI 189
Score = 27.7 bits (60), Expect = 1.6, Method: Composition-based stats.
Identities = 16/53 (30%), Positives = 28/53 (52%)
Query: 59 YMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 111
+ E S+ R ++ + +L IK+V+ +D G Y C A + +G +K M L
Sbjct: 43 FTEGDKSLDGRIEVKGQHGSSSLHIKDVKLSDSGRYDCEAASRIGGHQKSMYL 95
>pdb|3GRW|A Chain A, Fgfr3 In Complex With A Fab
Length = 241
Score = 32.7 bits (73), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 26/44 (59%)
Query: 72 METRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
++ R + +L +++V +D GNY+CV +N G ++ L LE
Sbjct: 65 IKLRHQQWSLVMESVVPSDRGNYTCVVENKFGSIRQTYTLDVLE 108
Score = 32.0 bits (71), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 25/42 (59%)
Query: 23 METRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
++ R + +L +++V +D GNY+CV +N G ++ L V
Sbjct: 65 IKLRHQQWSLVMESVVPSDRGNYTCVVENKFGSIRQTYTLDV 106
Score = 28.9 bits (63), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 15/33 (45%), Positives = 18/33 (54%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
L + NV D G Y C A N +G A+K LSV
Sbjct: 184 LRLANVSERDGGEYLCRATNFIGVAEKAFWLSV 216
>pdb|3B43|A Chain A, I-band Fragment I65-i70 From Titin
Length = 570
Score = 32.7 bits (73), Expect = 0.050, Method: Composition-based stats.
Identities = 36/150 (24%), Positives = 51/150 (34%), Gaps = 53/150 (35%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETR--GNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYME 61
+SWY+D L++ D ++T N TL I + G Y+C A N LG A +
Sbjct: 133 VSWYKDGELLK----DDANLQTSFIHNVATLQILQTDQSHVGQYNCSASNPLGTASSSAK 188
Query: 62 LSVS---------------------------------------VSDRRLMETRG------ 76
L++S D R + G
Sbjct: 189 LTLSEHEVPPFFDLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREIRPGGNYKMTL 248
Query: 77 --NKHTLTIKNVQSTDFGNYSCVADNNLGR 104
N TLT+ V D G Y+C A N G+
Sbjct: 249 VENTATLTVLKVTKGDAGQYTCYASNVAGK 278
Score = 32.7 bits (73), Expect = 0.052, Method: Composition-based stats.
Identities = 35/156 (22%), Positives = 60/156 (38%), Gaps = 49/156 (31%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR-------- 55
++WY++ + + + + M+ + N +L I V +D G Y+C A+N++G
Sbjct: 37 IAWYKEHTKLRSAPAYK--MQFKNNVASLVINKVDHSDVGEYTCKAENSVGAVASSAVLV 94
Query: 56 ----------AKKYME--------------------LSVS-VSDRRLMETRGNKHTLTIK 84
A+K + L VS D L++ N T I
Sbjct: 95 IKERKLPPSFARKLKDVHETLGFPVAFECRINGSEPLQVSWYKDGELLKDDANLQTSFIH 154
Query: 85 NVQS--------TDFGNYSCVADNNLGRAKKYMELS 112
NV + + G Y+C A N LG A +L+
Sbjct: 155 NVATLQILQTDQSHVGQYNCSASNPLGTASSSAKLT 190
Score = 31.2 bits (69), Expect = 0.16, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 29/66 (43%), Gaps = 2/66 (3%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
++W +D I P + + M N TLT+ V D G Y+C A N G+ +L
Sbjct: 229 ITWAKDNREIRPGGNYK--MTLVENTATLTVLKVTKGDAGQYTCYASNVAGKDSCSAQLG 286
Query: 64 VSVSDR 69
V R
Sbjct: 287 VQEPPR 292
Score = 28.1 bits (61), Expect = 1.3, Method: Composition-based stats.
Identities = 29/130 (22%), Positives = 41/130 (31%), Gaps = 45/130 (34%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGR---------------AKKYMELSVSV--------- 66
++ I NV S D G Y C A N++G KK ++S V
Sbjct: 441 SIHILNVDSADIGEYQCKASNDVGSDTCVGSITLKAPPRFVKKLSDISTVVGEEVQLQAT 500
Query: 67 ---------------------SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRA 105
SD + N TL + + G Y+C N G
Sbjct: 501 IEGAEPISVAWFKDKGEIVRESDNIWISYSENIATLQFSRAEPANAGKYTCQIKNEAGTQ 560
Query: 106 KKYMELSELE 115
+ + LS LE
Sbjct: 561 ECFATLSVLE 570
>pdb|4ERS|L Chain L, A Molecular Basis For Negative Regulation Of The Glucagon
Receptor
Length = 214
Score = 32.7 bits (73), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 41/96 (42%), Gaps = 11/96 (11%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQST--DFGNYSCVADNNLGRAKKYM-----ELSVS 65
I+ + S L + G++ T+T + Q D G Y G+A K + L
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQGIRNDLGWY----QQKPGKAPKRLIYAASSLESG 57
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
V R G + TLTI +VQ DF Y C+ N+
Sbjct: 58 VPSRFSGSGSGTEFTLTISSVQPEDFVTYYCLQHNS 93
>pdb|3IJY|A Chain A, Structure Of S67-27 In Complex With Kdo(2.8)kdo
pdb|3IJY|C Chain C, Structure Of S67-27 In Complex With Kdo(2.8)kdo
Length = 218
Score = 32.7 bits (73), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 26/62 (41%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G TLTI +VQ+ D Y C N
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSN 98
Query: 52 NL 53
NL
Sbjct: 99 NL 100
Score = 32.3 bits (72), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 38/94 (40%), Gaps = 9/94 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L + G K T++ K+ QS NY G++ K + S V D
Sbjct: 7 SPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G TLTI +VQ+ D Y C NNL
Sbjct: 67 RFTGSGSGTDFTLTISSVQAEDLAVYYCKQSNNL 100
>pdb|3IJH|A Chain A, Structure Of S67-27 In Complex With Ko
pdb|3IJH|C Chain C, Structure Of S67-27 In Complex With Ko
pdb|3IJS|A Chain A, Structure Of S67-27 In Complex With Tsbp
pdb|3IJS|C Chain C, Structure Of S67-27 In Complex With Tsbp
Length = 219
Score = 32.7 bits (73), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 26/62 (41%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G TLTI +VQ+ D Y C N
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSN 98
Query: 52 NL 53
NL
Sbjct: 99 NL 100
Score = 32.3 bits (72), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 38/94 (40%), Gaps = 9/94 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L + G K T++ K+ QS NY G++ K + S V D
Sbjct: 7 SPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G TLTI +VQ+ D Y C NNL
Sbjct: 67 RFTGSGSGTDFTLTISSVQAEDLAVYYCKQSNNL 100
>pdb|2QQN|L Chain L, Neuropilin-1 B1 Domain In Complex With A Vegf-Blocking Fab
Length = 214
Score = 32.7 bits (73), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 45/108 (41%), Gaps = 9/108 (8%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T + Q F +Y G+A K + S V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQY--FSSYLAWYQQKPGKAPKLLIYGASSRASGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
R G TLTI ++Q DF Y C LG + + +++E
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYC--QQYLGSPPTFGQGTKVE 105
>pdb|1CS6|A Chain A, N-terminal Fragment Of Axonin-1 From Chicken
Length = 382
Score = 32.7 bits (73), Expect = 0.051, Method: Composition-based stats.
Identities = 19/61 (31%), Positives = 32/61 (52%), Gaps = 8/61 (13%)
Query: 15 PSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL-----GRAKKYMELSVSVSDR 69
P+ R + +T GN L I +++D GNYSC A +++ K+ +LS++ D
Sbjct: 146 PADGRRFVSQTTGN---LYIAKTEASDLGNYSCFATSHIDFITKSVFSKFSQLSLAAEDA 202
Query: 70 R 70
R
Sbjct: 203 R 203
Score = 28.5 bits (62), Expect = 1.1, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 21/34 (61%), Gaps = 3/34 (8%)
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R + +T GN L I +++D GNYSC A +++
Sbjct: 151 RFVSQTTGN---LYIAKTEASDLGNYSCFATSHI 181
Score = 27.7 bits (60), Expect = 1.8, Method: Composition-based stats.
Identities = 18/68 (26%), Positives = 30/68 (44%), Gaps = 2/68 (2%)
Query: 45 YSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
+SCVA A +++ ++ + +E G + L + D G Y CVA+N G
Sbjct: 314 WSCVASGKPRPAVRWLRDGQPLASQNRIEVSGGE--LRFSKLVLEDSGMYQCVAENKHGT 371
Query: 105 AKKYMELS 112
EL+
Sbjct: 372 VYASAELT 379
Score = 25.8 bits (55), Expect = 6.3, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLGR 55
L I+NV D G Y C A+N GR
Sbjct: 259 LHIQNVDFEDEGTYECEAENIKGR 282
Score = 25.4 bits (54), Expect = 7.6, Method: Composition-based stats.
Identities = 18/59 (30%), Positives = 25/59 (42%), Gaps = 6/59 (10%)
Query: 6 WYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
W +D +P S R+ + G L + D G Y CVA+N G EL+V
Sbjct: 328 WLRDG---QPLASQNRIEVSGGE---LRFSKLVLEDSGMYQCVAENKHGTVYASAELTV 380
>pdb|3IKC|A Chain A, Structure Of S67-27 In Complex With
Kdo(2.8)-7-O-Methyl-Kdo
pdb|3IKC|C Chain C, Structure Of S67-27 In Complex With
Kdo(2.8)-7-O-Methyl-Kdo
Length = 218
Score = 32.7 bits (73), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 26/62 (41%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G TLTI +VQ+ D Y C N
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSN 98
Query: 52 NL 53
NL
Sbjct: 99 NL 100
Score = 32.3 bits (72), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 38/94 (40%), Gaps = 9/94 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L + G K T++ K+ QS NY G++ K + S V D
Sbjct: 7 SPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G TLTI +VQ+ D Y C NNL
Sbjct: 67 RFTGSGSGTDFTLTISSVQAEDLAVYYCKQSNNL 100
>pdb|3UTO|A Chain A, Twitchin Kinase Region From C.Elegans
(Fn31-Nl-Kin-Crd-Ig26)
pdb|3UTO|B Chain B, Twitchin Kinase Region From C.Elegans
(Fn31-Nl-Kin-Crd-Ig26)
Length = 573
Score = 32.7 bits (73), Expect = 0.053, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 36/63 (57%), Gaps = 2/63 (3%)
Query: 3 MMSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 62
+++W++D ++ SV + + GN + LTI V+ D G Y+ A N+ G ++ + L
Sbjct: 513 VVTWHKDDRELKQSV--KYMKRYNGNDYGLTINRVKGDDKGEYTVRAKNSYGTKEEIVFL 570
Query: 63 SVS 65
+V+
Sbjct: 571 NVT 573
Score = 26.9 bits (58), Expect = 2.9, Method: Composition-based stats.
Identities = 18/63 (28%), Positives = 29/63 (46%), Gaps = 11/63 (17%)
Query: 50 DNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM 109
D L ++ KYM+ GN + LTI V+ D G Y+ A N+ G ++ +
Sbjct: 520 DRELKQSVKYMK-----------RYNGNDYGLTINRVKGDDKGEYTVRAKNSYGTKEEIV 568
Query: 110 ELS 112
L+
Sbjct: 569 FLN 571
>pdb|1RY7|B Chain B, Crystal Structure Of The 3 Ig Form Of Fgfr3c In Complex
With Fgf1
Length = 334
Score = 32.7 bits (73), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 26/44 (59%)
Query: 72 METRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
++ R + +L +++V +D GNY+CV +N G ++ L LE
Sbjct: 173 IKLRHQQWSLVMESVVPSDRGNYTCVVENKFGSIRQTYTLDVLE 216
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 25/42 (59%)
Query: 23 METRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
++ R + +L +++V +D GNY+CV +N G ++ L V
Sbjct: 173 IKLRHQQWSLVMESVVPSDRGNYTCVVENKFGSIRQTYTLDV 214
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 24/43 (55%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRRLME 73
L++ NV D G Y+C+A N++G + L V ++ L+E
Sbjct: 292 VLSLHNVTFEDAGEYTCLAGNSIGFSHHSAWLVVLPAEEELVE 334
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLG 103
L++ NV D G Y+C+A N++G
Sbjct: 292 VLSLHNVTFEDAGEYTCLAGNSIG 315
>pdb|3TNN|L Chain L, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody.
pdb|3TNN|B Chain B, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody.
pdb|3TNN|D Chain D, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody.
pdb|3TNN|F Chain F, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody
Length = 217
Score = 32.7 bits (73), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 7/65 (10%)
Query: 39 STDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDF 91
S+D G+Y+ V+ + G+A K M VS +S+R GN +LTI +Q+ D
Sbjct: 26 SSDVGSYNFVSWYQQHPGKAPKLMIYEVSERPSGISNRFSGSKSGNTASLTISGLQAEDE 85
Query: 92 GNYSC 96
+Y C
Sbjct: 86 ADYYC 90
>pdb|3IXT|L Chain L, Crystal Structure Of Motavizumab Fab Bound To Peptide
Epitope
pdb|3IXT|B Chain B, Crystal Structure Of Motavizumab Fab Bound To Peptide
Epitope
pdb|3QWO|L Chain L, Crystal Structure Of A Motavizumab Epitope-Scaffold
Bound To Motavizumab Fab
pdb|3QWO|B Chain B, Crystal Structure Of A Motavizumab Epitope-Scaffold
Bound To Motavizumab Fab
Length = 213
Score = 32.7 bits (73), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 24/59 (40%), Gaps = 12/59 (20%)
Query: 1 MGMMSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+G M WYQ DT + V R G + TLTI ++Q DF Y C
Sbjct: 29 VGYMHWYQQKPGKAPKLLIYDTSKLASGVPSRFSGSGSGTEFTLTISSLQPDDFATYYC 87
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 54 GRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
G+A K + +L+ V R G + TLTI ++Q DF Y C
Sbjct: 40 GKAPKLLIYDTSKLASGVPSRFSGSGSGTEFTLTISSLQPDDFATYYC 87
>pdb|3LD8|B Chain B, Structure Of Jmjd6 And Fab Fragments
pdb|3LDB|B Chain B, Structure Of Jmjd6 Complexd With Alpha-Ketoglutarate And
Fab Fragment
Length = 220
Score = 32.7 bits (73), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 40/91 (43%), Gaps = 15/91 (16%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL-------GRAKKYM-----ELSVS 65
S L + G K T++ ++ QS YS + N L G++ K + L
Sbjct: 7 SPSSLAVSAGEKVTMSCRSSQSL---YYSGIKKNLLAWYQLKPGQSPKLLIYYASTLFTG 63
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V DR G +TLTI +VQ+ D G Y C
Sbjct: 64 VPDRFTGSGSGTDYTLTITSVQAEDMGQYFC 94
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 22/45 (48%), Gaps = 2/45 (4%)
Query: 3 MMSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++ +Y T V DR G +TLTI +VQ+ D G Y C
Sbjct: 52 LLIYYASTLFT--GVPDRFTGSGSGTDYTLTITSVQAEDMGQYFC 94
>pdb|3EFD|L Chain L, The Crystal Structure Of The Cytoplasmic Domain Of Kcsa
Length = 211
Score = 32.3 bits (72), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 39/91 (42%), Gaps = 11/91 (12%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS----- 65
I+ + S L + G++ T+T + QS S VA G+A K + S S
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQSVS----SAVAWYQQKPGKAPKLLIYSASSLYSG 57
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V R G TLTI ++Q DF Y C
Sbjct: 58 VPSRFSGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|3N85|L Chain L, Crystallographic Trimer Of Her2 Extracellular Regions In
Complex With Tryptophan-Rich Antibody Fragment
Length = 217
Score = 32.3 bits (72), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 36/86 (41%), Gaps = 11/86 (12%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRR 70
S L + G++ T+T + QS S VA G+A K + S S V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQSVS----SAVAWYQQKPGKAPKLLIYSASSLYSGVPSRF 62
Query: 71 LMETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q DF Y C
Sbjct: 63 SGSRSGTDFTLTISSLQPEDFATYYC 88
>pdb|1CZ8|L Chain L, Vascular Endothelial Growth Factor In Complex With An
Affinity Matured Antibody
pdb|1CZ8|X Chain X, Vascular Endothelial Growth Factor In Complex With An
Affinity Matured Antibody
Length = 213
Score = 32.3 bits (72), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 36/89 (40%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T Q D NY G+A K + L V
Sbjct: 2 IQLTQSPSSLSASVGDRVTITCSASQ--DISNYLNWYQQKPGKAPKVLIYFTSSLHSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|1BJ1|L Chain L, Vascular Endothelial Growth Factor In Complex With A
Neutralizing Antibody
pdb|1BJ1|J Chain J, Vascular Endothelial Growth Factor In Complex With A
Neutralizing Antibody
Length = 214
Score = 32.3 bits (72), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 36/89 (40%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T Q D NY G+A K + L V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCSASQ--DISNYLNWYQQKPGKAPKVLIYFTSSLHSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|3P0V|L Chain L, Anti-EgfrHER3 FAB DL11 ALONE
pdb|3P0V|M Chain M, Anti-EgfrHER3 FAB DL11 ALONE
pdb|3P0Y|L Chain L, Anti-EgfrHER3 FAB DL11 IN COMPLEX WITH DOMAIN III OF
EGFR Extracellular Region
pdb|3P11|L Chain L, Anti-EgfrHER3 FAB DL11 IN COMPLEX WITH DOMAINS I-Iii Of
The Her3 Extracellular Region
Length = 214
Score = 32.3 bits (72), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 36/86 (41%), Gaps = 11/86 (12%)
Query: 18 SDRRLMETRGNKHTLTIKNVQ--STDFGNYSCVADNNLGRAKKYMELSVS-----VSDRR 70
S L + G++ T+T + Q +TD Y G+A K + S S V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQDLATDVAWY----QQKPGKAPKLLIYSASFLYSGVPSRF 62
Query: 71 LMETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q DF Y C
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|3IVK|L Chain L, Crystal Structure Of The Catalytic Core Of An Rna
Polymerase Ribozyme Complexed With An Antigen Binding
Antibody Fragment
pdb|3IVK|B Chain B, Crystal Structure Of The Catalytic Core Of An Rna
Polymerase Ribozyme Complexed With An Antigen Binding
Antibody Fragment
Length = 213
Score = 32.3 bits (72), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 36/86 (41%), Gaps = 11/86 (12%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRR 70
S L + G++ T+T + QS S VA G+A K + S S V R
Sbjct: 8 SPSSLSASVGDRVTITCRASQSVS----SAVAWYQQKPGKAPKLLIYSASSLYSGVPSRF 63
Query: 71 LMETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q DF Y C
Sbjct: 64 SGSRSGTDFTLTISSLQPEDFATYYC 89
>pdb|2YD6|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Delta
pdb|2YD7|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Delta
pdb|2YD7|B Chain B, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Delta
Length = 212
Score = 32.3 bits (72), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNK-HTLTIKNVQSTDFGNYSCVADNNLG 54
++W++D ++ S ++ R+ + R L I+ + +D G Y CVA N+ G
Sbjct: 140 ITWFKDFLPVDTSNNNGRIKQLRSESIGALQIEQSEESDQGKYECVATNSAG 191
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 34/75 (45%), Gaps = 5/75 (6%)
Query: 34 IKNVQSTDFGNYSCVA----DNNLGRAKKYMELSVSVSDRRLMETRGNK-HTLTIKNVQS 88
+K V+ T C A D + K ++ + S ++ R+ + R L I+ +
Sbjct: 117 LKVVERTRTATMLCAASGNPDPEITWFKDFLPVDTSNNNGRIKQLRSESIGALQIEQSEE 176
Query: 89 TDFGNYSCVADNNLG 103
+D G Y CVA N+ G
Sbjct: 177 SDQGKYECVATNSAG 191
>pdb|2AEQ|L Chain L, An Epidemiologically Significant Epitope Of A 1998
Influenza Virus Neuraminidase Forms A Highly Hydrated
Interface In The Na-Antibody Complex
Length = 214
Score = 32.3 bits (72), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 36/84 (42%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLM 72
S + L + G++ ++T K Q + G G++ K + S S V DR
Sbjct: 7 SQKFLSTSVGDRVSVTCKASQ--NVGTNVAWYQQKPGQSPKPLMYSASYRYSGVPDRFTG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI NVQS D Y C
Sbjct: 65 SGSGTDFTLTISNVQSEDLAEYFC 88
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 15/31 (48%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
V DR G TLTI NVQS D Y C
Sbjct: 58 VPDRFTGSGSGTDFTLTISNVQSEDLAEYFC 88
>pdb|3DVN|A Chain A, Crystal Structure Of K63-specific Fab Apu2.16 Bound To
K63-linked Di- Ubiquitin
pdb|3DVN|L Chain L, Crystal Structure Of K63-specific Fab Apu2.16 Bound To
K63-linked Di- Ubiquitin
Length = 217
Score = 32.3 bits (72), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 39/91 (42%), Gaps = 11/91 (12%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS----- 65
I+ + S L + G++ T+T + QS S VA G+A K + S S
Sbjct: 3 IQMTQSPSSLSASVGDRVTITCRASQSVS----SAVAWYQQKPGKAPKLLIYSASSLYSG 58
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V R G TLTI ++Q DF Y C
Sbjct: 59 VPSRFSGSRSGTDFTLTISSLQPEDFATYYC 89
>pdb|3UPA|A Chain A, A General Strategy For The Generation Of Human Antibody
Variable Domains With Increased Aggregation Resistance
pdb|3UPA|B Chain B, A General Strategy For The Generation Of Human Antibody
Variable Domains With Increased Aggregation Resistance
Length = 107
Score = 32.3 bits (72), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 42/104 (40%), Gaps = 11/104 (10%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + QS +Y G+A K + +L V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQS--ISSYLNWYQQKPGKAPKLLIYDADDLQSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC----VADNNLGRAKK 107
R G TLTI ++Q DF Y C N G+ K
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYCQQSYSTPNTFGQGTK 103
>pdb|3NGB|L Chain L, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc01 In Complex With Hiv-1 Gp120
pdb|3NGB|C Chain C, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc01 In Complex With Hiv-1 Gp120
pdb|3NGB|F Chain F, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc01 In Complex With Hiv-1 Gp120
pdb|3NGB|K Chain K, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc01 In Complex With Hiv-1 Gp120
Length = 210
Score = 32.3 bits (72), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 27/69 (39%), Gaps = 12/69 (17%)
Query: 2 GMMSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA 49
G ++WYQ P + DR G + LTI N++S DFG Y C
Sbjct: 29 GSLAWYQQRPGQAPRLVIYSGSTRAAGIPDRFSGSRWGPDYNLTISNLESGDFGVYYCQQ 88
Query: 50 DNNLGRAKK 58
G+ K
Sbjct: 89 YEFFGQGTK 97
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 21/45 (46%)
Query: 63 SVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKK 107
+ + DR G + LTI N++S DFG Y C G+ K
Sbjct: 53 AAGIPDRFSGSRWGPDYNLTISNLESGDFGVYYCQQYEFFGQGTK 97
>pdb|2HWZ|L Chain L, Fab Fragment Of Humanized Anti-viral Antibody Medi-493
(synagis Tm)
Length = 213
Score = 32.3 bits (72), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 23/59 (38%), Gaps = 12/59 (20%)
Query: 1 MGMMSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+G M WYQ DT + V R G TLTI ++Q DF Y C
Sbjct: 29 VGYMHWYQQKPGKAPKLLIYDTSKLASGVPSRFSGSGSGTAFTLTISSLQPDDFATYYC 87
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 8/89 (8%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T K S + ++ G+A K + +L+ V
Sbjct: 2 IQMTQSPSTLSASVGDRVTITCKCQLSVGYMHW---YQQKPGKAPKLLIYDTSKLASGVP 58
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 59 SRFSGSGSGTAFTLTISSLQPDDFATYYC 87
>pdb|2R8S|L Chain L, High Resolution Structure Of A Specific Synthetic Fab
Bound To P4-P6 Rna Ribozyme Domain
Length = 214
Score = 32.3 bits (72), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 36/86 (41%), Gaps = 11/86 (12%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRR 70
S L + G++ T+T + QS S VA G+A K + S S V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQSVS----SAVAWYQQKPGKAPKLLIYSASSLYSGVPSRF 62
Query: 71 LMETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q DF Y C
Sbjct: 63 SGSRSGTDFTLTISSLQPEDFATYYC 88
>pdb|3PGF|L Chain L, Crystal Structure Of Maltose Bound Mbp With A
Conformationally Specific Synthetic Antigen Binder
(Sab)
Length = 215
Score = 32.3 bits (72), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 36/86 (41%), Gaps = 11/86 (12%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRR 70
S L + G++ T+T + QS S VA G+A K + S S V R
Sbjct: 8 SPSSLSASVGDRVTITCRASQSVS----SAVAWYQQKPGKAPKLLIYSASSLYSGVPSRF 63
Query: 71 LMETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q DF Y C
Sbjct: 64 SGSRSGTDFTLTISSLQPEDFATYYC 89
>pdb|3PNW|A Chain A, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|D Chain D, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|G Chain G, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|J Chain J, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|M Chain M, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|P Chain P, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|S Chain S, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|V Chain V, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
Length = 228
Score = 32.3 bits (72), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 39/91 (42%), Gaps = 11/91 (12%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS----- 65
I+ + S L + G++ T+T + QS S VA G+A K + S S
Sbjct: 3 IQMTQSPSSLSASVGDRVTITCRASQSVS----SAVAWYQQKPGKAPKLLIYSASSLYSG 58
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V R G TLTI ++Q DF Y C
Sbjct: 59 VPSRFSGSRSGTDFTLTISSLQPEDFATYYC 89
>pdb|2AEP|L Chain L, An Epidemiologically Significant Epitope Of A 1998
Influenza Virus Neuraminidase Forms A Highly Hydrated
Interface In The Na-Antibody Complex
Length = 214
Score = 32.0 bits (71), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 36/84 (42%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLM 72
S + L + G++ ++T K Q + G G++ K + S S V DR
Sbjct: 7 SQKFLSTSVGDRVSVTCKASQ--NVGTNVAWYQKKPGQSPKPLMYSASYRYSGVPDRFTG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI NVQS D Y C
Sbjct: 65 SGSGTDFTLTISNVQSEDLAEYFC 88
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 15/31 (48%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
V DR G TLTI NVQS D Y C
Sbjct: 58 VPDRFTGSGSGTDFTLTISNVQSEDLAEYFC 88
>pdb|3U7A|A Chain A, Al-09 Y32f Y96f
Length = 110
Score = 32.0 bits (71), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q D N+ G+A K + L V
Sbjct: 4 IQMTQSPSSLSASVGDRVTITCQASQ--DINNFLIWYQQKPGQAPKLLIYDASTLETGVP 61
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G + T TI ++Q D Y C +NL
Sbjct: 62 SRFSGSGSGTEFTFTISSLQPEDLATYHCQQYDNL 96
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/63 (26%), Positives = 23/63 (36%), Gaps = 12/63 (19%)
Query: 3 MMSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 50
+ WYQ D +E V R G + T TI ++Q D Y C
Sbjct: 34 FLIWYQQKPGQAPKLLIYDASTLETGVPSRFSGSGSGTEFTFTISSLQPEDLATYHCQQY 93
Query: 51 NNL 53
+NL
Sbjct: 94 DNL 96
>pdb|1PG7|L Chain L, Murine 6a6 Fab In Complex With Humanized Anti-Tissue
Factor D3h44 Fab
pdb|1PG7|M Chain M, Murine 6a6 Fab In Complex With Humanized Anti-Tissue
Factor D3h44 Fab
Length = 213
Score = 32.0 bits (71), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 40/90 (44%), Gaps = 7/90 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + S D +Y G+A K + L+ V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCR--ASRDIKSYLNWYQQKPGKAPKVLIYYATSLAEGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
R G +TLTI ++Q DF Y C+
Sbjct: 60 SRFSGSGSGTDYTLTISSLQPEDFATYYCL 89
>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 = 32.0 bits (71), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 8/85 (9%)
Query: 19 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKK-----YMELSVSVSDRRL 71
R + + G T++ S D G Y+ V+ + G+A K +E S V DR
Sbjct: 7 PRSVSGSPGQSVTISCTGT-SRDVGGYNYVSWYQQHPGKAPKLIIHDVIERSSGVPDRFS 65
Query: 72 METRGNKHTLTIKNVQSTDFGNYSC 96
GN +LTI +Q+ D +Y C
Sbjct: 66 GSKSGNTASLTISGLQAEDEADYYC 90
Score = 26.6 bits (57), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+SWYQ P V DR GN +LTI +Q+ D +Y C
Sbjct: 35 VSWYQQHPGKAPKLIIHDVIERSSGVPDRFSGSKSGNTASLTISGLQAEDEADYYC 90
>pdb|1NGY|A Chain A, Chimeric Mature Fab 7g12-Apo
Length = 213
Score = 32.0 bits (71), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLM 72
+ + + T G++ ++T K Q + G G++ K + S S V DR
Sbjct: 7 TPKFMSTTVGDRVSITCKASQ--NVGTPVAWYQQKPGQSPKLLIYSASNRYTGVPDRFTG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI N+QS D +Y C
Sbjct: 65 SGSGTDFTLTISNMQSEDLADYFC 88
Score = 29.6 bits (65), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ P V DR G TLTI N+QS D +Y C
Sbjct: 33 VAWYQQKPGQSPKLLIYSASNRYTGVPDRFTGSGSGTDFTLTISNMQSEDLADYFC 88
>pdb|3ESV|F Chain F, Crystal Structure Of The Engineered Neutralizing
Antibody M18
pdb|3ESV|G Chain G, Crystal Structure Of The Engineered Neutralizing
Antibody M18
pdb|3ETB|F Chain F, Crystal Structure Of The Engineered Neutralizing
Antibody M18 Complexed With Anthrax Protective Antigen
Domain 4
pdb|3ETB|G Chain G, Crystal Structure Of The Engineered Neutralizing
Antibody M18 Complexed With Anthrax Protective Antigen
Domain 4
pdb|3ETB|H Chain H, Crystal Structure Of The Engineered Neutralizing
Antibody M18 Complexed With Anthrax Protective Antigen
Domain 4
pdb|3ETB|I Chain I, Crystal Structure Of The Engineered Neutralizing
Antibody M18 Complexed With Anthrax Protective Antigen
Domain 4
Length = 252
Score = 32.0 bits (71), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 26/60 (43%), Gaps = 12/60 (20%)
Query: 4 MSWYQDT------FLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ FLI +P V R G ++LTI N++ D G Y C N
Sbjct: 38 LNWYQQKPDGTVKFLIYYTSRLQPGVPSRFSGSGSGTDYSLTINNLEQEDIGTYFCQQGN 97
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 17/39 (43%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 100
L V R G ++LTI N++ D G Y C N
Sbjct: 59 LQPGVPSRFSGSGSGTDYSLTINNLEQEDIGTYFCQQGN 97
>pdb|1JPS|L Chain L, Crystal Structure Of Tissue Factor In Complex With
Humanized Fab D3h44
pdb|1JPT|L Chain L, Crystal Structure Of Fab D3h44
Length = 214
Score = 32.0 bits (71), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 40/90 (44%), Gaps = 7/90 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + S D +Y G+A K + L+ V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCR--ASRDIKSYLNWYQQKPGKAPKVLIYYATSLAEGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
R G +TLTI ++Q DF Y C+
Sbjct: 60 SRFSGSGSGTDYTLTISSLQPEDFATYYCL 89
>pdb|3FCT|A Chain A, Mature Metal Chelatase Catalytic Antibody With Hapten
pdb|3FCT|C Chain C, Mature Metal Chelatase Catalytic Antibody With Hapten
pdb|1NGW|L Chain L, Chimeric Affinity Matured Fab 7g12 Complexed With
Mesoporphyrin
pdb|1NGW|A Chain A, Chimeric Affinity Matured Fab 7g12 Complexed With
Mesoporphyrin
Length = 213
Score = 32.0 bits (71), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLM 72
+ + + T G++ ++T K Q + G G++ K + S S V DR
Sbjct: 7 TPKFMSTTVGDRVSITCKASQ--NVGTPVAWYQQKPGQSPKLLIYSASNRYTGVPDRFTG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI N+QS D +Y C
Sbjct: 65 SGSGTDFTLTISNMQSEDLADYFC 88
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ P V DR G TLTI N+QS D +Y C
Sbjct: 33 VAWYQQKPGQSPKLLIYSASNRYTGVPDRFTGSGSGTDFTLTISNMQSEDLADYFC 88
>pdb|3CDF|A Chain A, Ki O18O8 Y87H IMMUNOGLOBULIN LIGHT CHAIN VARIABLE DOMAIN
pdb|3CDF|B Chain B, Ki O18O8 Y87H IMMUNOGLOBULIN LIGHT CHAIN VARIABLE DOMAIN
pdb|3CDF|C Chain C, Ki O18O8 Y87H IMMUNOGLOBULIN LIGHT CHAIN VARIABLE DOMAIN
pdb|3CDF|D Chain D, Ki O18O8 Y87H IMMUNOGLOBULIN LIGHT CHAIN VARIABLE DOMAIN
pdb|3CDF|E Chain E, Ki O18O8 Y87H IMMUNOGLOBULIN LIGHT CHAIN VARIABLE DOMAIN
pdb|3CDF|F Chain F, Ki O18O8 Y87H IMMUNOGLOBULIN LIGHT CHAIN VARIABLE DOMAIN
Length = 109
Score = 32.0 bits (71), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 38/95 (40%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q D NY G+A K + L V
Sbjct: 4 IQMTQSPSSLSASVGDRVTITCQASQ--DISNYLNWYQQKPGKAPKLLIYDASNLETGVP 61
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G T TI ++Q D Y C +NL
Sbjct: 62 SRFSGSGSGTDFTFTISSLQPEDIATYHCQQYDNL 96
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 23/62 (37%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ D +E V R G T TI ++Q D Y C +
Sbjct: 35 LNWYQQKPGKAPKLLIYDASNLETGVPSRFSGSGSGTDFTFTISSLQPEDIATYHCQQYD 94
Query: 52 NL 53
NL
Sbjct: 95 NL 96
>pdb|2EIZ|A Chain A, Crystal Structure Of Humanized Hyhel-10 Fv Mutant(Hw47y)-
Hen Lysozyme Complex
pdb|2EKS|A Chain A, Crystal Structure Of Humanized Hyhel-10 Fv-Hen Lysozyme
Complex
pdb|2YSS|A Chain A, Crystal Structure Of Humanized Hyhel-10 Fv
Mutant(Hq39kw47y)-Hen Lysozyme Complex
Length = 107
Score = 32.0 bits (71), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 39/89 (43%), Gaps = 7/89 (7%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKK----YMELSVS-VSDRRLM 72
S L + G + TL+ + QS GN G+A + Y S+S + R
Sbjct: 7 SPATLSVSPGERATLSCRASQS--IGNNLHWYQQKPGQAPRLLIYYASQSISGIPARFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
G + TLTI ++QS DF Y C N+
Sbjct: 65 SGSGTEFTLTISSLQSEDFAVYYCQQSNS 93
>pdb|2OM5|A Chain A, N-Terminal Fragment Of Human Tax1
Length = 381
Score = 32.0 bits (71), Expect = 0.092, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 30/53 (56%), Gaps = 8/53 (15%)
Query: 24 ETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRA-----KKYMELSVSVSDRRL 71
+T GN L I ++D GNYSC+A +++ + K+ +L+++ D RL
Sbjct: 154 QTTGN---LYIARTNASDLGNYSCLATSHMDFSTKSVFSKFAQLNLAAEDTRL 203
Score = 27.7 bits (60), Expect = 1.5, Method: Composition-based stats.
Identities = 13/35 (37%), Positives = 21/35 (60%), Gaps = 3/35 (8%)
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKK 107
+T GN L I ++D GNYSC+A +++ + K
Sbjct: 154 QTTGN---LYIARTNASDLGNYSCLATSHMDFSTK 185
Score = 26.9 bits (58), Expect = 3.3, Method: Composition-based stats.
Identities = 12/25 (48%), Positives = 15/25 (60%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGR 55
TL I +V D G Y C A+N+ GR
Sbjct: 257 TLQIPSVSFEDEGTYECEAENSKGR 281
Score = 26.2 bits (56), Expect = 5.6, Method: Composition-based stats.
Identities = 17/51 (33%), Positives = 22/51 (43%), Gaps = 3/51 (5%)
Query: 14 EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
EP S R+ G+ L + D G Y CVA+N G EL+V
Sbjct: 332 EPLASQNRVEVLAGD---LRFSKLSLEDSGMYQCVAENKHGTIYASAELAV 379
>pdb|4GMS|L Chain L, Crystal Structure Of Heterosubtypic Fab S1391 IN COMPLEX
WITH Influenza A H3 Hemagglutinin
pdb|4GMS|M Chain M, Crystal Structure Of Heterosubtypic Fab S1391 IN COMPLEX
WITH Influenza A H3 Hemagglutinin
pdb|4GMS|N Chain N, Crystal Structure Of Heterosubtypic Fab S1391 IN COMPLEX
WITH Influenza A H3 Hemagglutinin
pdb|4GMT|L Chain L, Crystal Structure Of Heterosubtypic Fab S1391
pdb|4GMT|M Chain M, Crystal Structure Of Heterosubtypic Fab S1391
Length = 214
Score = 32.0 bits (71), Expect = 0.093, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 39/85 (45%), Gaps = 12/85 (14%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRRL 71
++ M T G++ ++T K Q+ D + VA G++ K + S S V DR
Sbjct: 8 QKFMSTSVGDRVSVTCKASQNVD----TNVAWYQEKPGQSPKTLIYSASNRYSGVPDRFT 63
Query: 72 METRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI NVQS D Y C
Sbjct: 64 GSASGTDFTLTITNVQSEDLAEYFC 88
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ+ P V DR G TLTI NVQS D Y C
Sbjct: 33 VAWYQEKPGQSPKTLIYSASNRYSGVPDRFTGSASGTDFTLTITNVQSEDLAEYFC 88
>pdb|2KQM|A Chain A, Solution Structure Of The Ki O18O8 Y87H IMMUNOGLOBULIN
LIGH Variable Domain
pdb|2KQM|B Chain B, Solution Structure Of The Ki O18O8 Y87H IMMUNOGLOBULIN
LIGH Variable Domain
Length = 110
Score = 32.0 bits (71), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 38/95 (40%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q D NY G+A K + L V
Sbjct: 4 IQMTQSPSSLSASVGDRVTITCQASQ--DISNYLNWYQQKPGKAPKLLIYDASNLETGVP 61
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G T TI ++Q D Y C +NL
Sbjct: 62 SRFSGSGSGTDFTFTISSLQPEDIATYHCQQYDNL 96
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 23/62 (37%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ D +E V R G T TI ++Q D Y C +
Sbjct: 35 LNWYQQKPGKAPKLLIYDASNLETGVPSRFSGSGSGTDFTFTISSLQPEDIATYHCQQYD 94
Query: 52 NL 53
NL
Sbjct: 95 NL 96
>pdb|2XYC|A Chain A, Crystal Structure Of Ncam2 Igiv-Fn3i
Length = 291
Score = 32.0 bits (71), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 30/136 (22%), Positives = 51/136 (37%), Gaps = 49/136 (36%)
Query: 23 METRGN--KHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVS------------- 67
+E +G +L IK+V+ +D G Y C A + +G +K M L + +
Sbjct: 54 IEVKGQHGSSSLHIKDVKLSDSGRYDCEAASRIGGHQKSMYLDIEYAPKFISNQTIYYSW 113
Query: 68 -----------------------DRRLMETR----------GNKHTLTIKNVQSTDFGNY 94
D+ ++ + G K L I DFG Y
Sbjct: 114 EGNPINISCDVKSNPPASIHWRRDKLVLPAKNTTNLKTYSTGRKMILEIAPTSDNDFGRY 173
Query: 95 SCVADNNLG-RAKKYM 109
+C A N++G R ++Y+
Sbjct: 174 NCTATNHIGTRFQEYI 189
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/89 (22%), Positives = 35/89 (39%), Gaps = 19/89 (21%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
+ W +D ++ + + G K L I DFG Y+C A N++G
Sbjct: 132 IHWRRDKLVLPAKNTTNLKTYSTGRKMILEIAPTSDNDFGRYNCTATNHIG--------- 182
Query: 64 VSVSDRRLMETRGNKHTLTIKNVQSTDFG 92
TR ++ L + +V S+ +G
Sbjct: 183 ----------TRFQEYILALADVPSSPYG 201
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 24/42 (57%), Gaps = 2/42 (4%)
Query: 72 METRGN--KHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 111
+E +G +L IK+V+ +D G Y C A + +G +K M L
Sbjct: 54 IEVKGQHGSSSLHIKDVKLSDSGRYDCEAASRIGGHQKSMYL 95
>pdb|3HI5|L Chain L, Crystal Structure Of Fab Fragment Of Al-57
pdb|3HI6|L Chain L, Crystal Structure Of Intermediate Affinity I Domain Of
Integrin Lfa-1 With The Fab Fragment Of Its Antibody
Al-57
pdb|3HI6|Y Chain Y, Crystal Structure Of Intermediate Affinity I Domain Of
Integrin Lfa-1 With The Fab Fragment Of Its Antibody
Al-57
Length = 212
Score = 32.0 bits (71), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + QS G+Y G+A K + L V
Sbjct: 3 IQMTQSPSSLSASVGDRVTITCRASQS--IGSYLNWYQQKTGKAPKALIYAASSLQSGVP 60
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 61 SRFSGSGSGTDFTLTISSLQLEDFATYYC 89
>pdb|2Q20|A Chain A, Structure Of The Germline Vk1 O18O8 LIGHT CHAIN VARIABLE
Domain Homodimer
pdb|2Q20|B Chain B, Structure Of The Germline Vk1 O18O8 LIGHT CHAIN VARIABLE
Domain Homodimer
Length = 109
Score = 32.0 bits (71), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 38/95 (40%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q D NY G+A K + L V
Sbjct: 4 IQMTQSPSSLSASVGDRVTITCQASQ--DISNYLNWYQQKPGKAPKLLIYDASNLETGVP 61
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G T TI ++Q D Y C +NL
Sbjct: 62 SRFSGSGSGTDFTFTISSLQPEDIATYYCQQYDNL 96
Score = 25.8 bits (55), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 23/62 (37%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ D +E V R G T TI ++Q D Y C +
Sbjct: 35 LNWYQQKPGKAPKLLIYDASNLETGVPSRFSGSGSGTDFTFTISSLQPEDIATYYCQQYD 94
Query: 52 NL 53
NL
Sbjct: 95 NL 96
>pdb|3AUV|A Chain A, Predicting Amino Acid Preferences In The Complementarity
Determining Regions Of An Antibody-Antigen Recognition
Interface
pdb|3AUV|B Chain B, Predicting Amino Acid Preferences In The Complementarity
Determining Regions Of An Antibody-Antigen Recognition
Interface
pdb|3AUV|C Chain C, Predicting Amino Acid Preferences In The Complementarity
Determining Regions Of An Antibody-Antigen Recognition
Interface
pdb|3AUV|D Chain D, Predicting Amino Acid Preferences In The Complementarity
Determining Regions Of An Antibody-Antigen Recognition
Interface
pdb|3AUV|E Chain E, Predicting Amino Acid Preferences In The Complementarity
Determining Regions Of An Antibody-Antigen Recognition
Interface
pdb|3AUV|F Chain F, Predicting Amino Acid Preferences In The Complementarity
Determining Regions Of An Antibody-Antigen Recognition
Interface
Length = 276
Score = 32.0 bits (71), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 38/91 (41%), Gaps = 11/91 (12%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQ--STDFGNYSCVADNNLGRAKKYMELSVS----- 65
I+ + S L + G++ T+T + Q ST Y G+A K + S S
Sbjct: 13 IQMTQSPSSLSASVGDRVTITCRASQDVSTAVAWY----QQKPGKAPKLLIYSASFLYSG 68
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V R G TLTI ++Q DF Y C
Sbjct: 69 VPSRFSGSGSGTDFTLTISSLQPEDFATYYC 99
>pdb|3MNV|A Chain A, Crystal Structure Of The Non-Neutralizing Hiv Antibody
13h11 Fab Fragment
pdb|3MNV|C Chain C, Crystal Structure Of The Non-Neutralizing Hiv Antibody
13h11 Fab Fragment
pdb|3MNW|A Chain A, Crystal Structure Of The Non-Neutralizing Hiv Antibody
13h11 Fab Fragment With A Gp41 Mper-Derived Peptide In A
Helical Conformation
pdb|3MNZ|A Chain A, Crystal Structure Of The Non-Neutralizing Hiv Antibody
13h11 Fab Fragment With A Gp41 Mper-Derived Peptide
Bearing Ala Substitutions In A Helical Conformation
pdb|3MO1|A Chain A, Crystal Structure Of The Non-Neutralizing Hiv Antibody
13h11 Fab Fragment
Length = 224
Score = 31.6 bits (70), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 27/61 (44%), Gaps = 12/61 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ L+ E V DR + G TLTI +VQ+ D +Y C+
Sbjct: 41 LAWYQQKPGQSPKLLVYFASIRESGVPDRFIGSGSGTDFTLTISSVQAEDLADYFCLQHY 100
Query: 52 N 52
N
Sbjct: 101 N 101
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 42/98 (42%), Gaps = 9/98 (9%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS--- 65
I+ + S L + G K T+ K+ QS + NY G++ K + S
Sbjct: 4 IQLTQSPSSLAMSGGQKVTMRCKSSQSLLNSRNERNYLAWYQQKPGQSPKLLVYFASIRE 63
Query: 66 --VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
V DR + G TLTI +VQ+ D +Y C+ N
Sbjct: 64 SGVPDRFIGSGSGTDFTLTISSVQAEDLADYFCLQHYN 101
>pdb|1UWG|L Chain L, Molecular Mechanism Of Enantioselective Proton Transfer
To Carbon In Catalytic Antibody 14d9
pdb|1UWG|X Chain X, Molecular Mechanism Of Enantioselective Proton Transfer
To Carbon In Catalytic Antibody 14d9
Length = 213
Score = 31.6 bits (70), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 38/84 (45%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLM 72
S + + + G++ ++T K Q + G + G++ K + S S V DR
Sbjct: 7 SPKFMSTSVGDRVSVTCKASQ--NVGTHVAWYQQKPGQSPKTLIYSASYRYSGVPDRFTG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI++VQS D Y C
Sbjct: 65 SGSGTDFTLTIRDVQSEDAAEYFC 88
Score = 29.3 bits (64), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ P V DR G TLTI++VQS D Y C
Sbjct: 33 VAWYQQKPGQSPKTLIYSASYRYSGVPDRFTGSGSGTDFTLTIRDVQSEDAAEYFC 88
>pdb|1IT9|L Chain L, Crystal Structure Of An Antigen-Binding Fragment From A
Humanized Version Of The Anti-Human Fas Antibody Hfe7a
Length = 214
Score = 31.6 bits (70), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 36/87 (41%), Gaps = 7/87 (8%)
Query: 25 TRGNKHTLTIKNVQSTDFG--NYSCVADNNLGRAKKYMELSVS-----VSDRRLMETRGN 77
+ G + TL+ K QS D+ +Y G+A + + + S + DR G
Sbjct: 14 SPGERATLSCKASQSVDYDGDSYMNWYQQKPGQAPRLLIYAASNLESGIPDRFSGSGSGT 73
Query: 78 KHTLTIKNVQSTDFGNYSCVADNNLGR 104
TLTI ++ DF Y C N R
Sbjct: 74 DFTLTISRLEPEDFAVYYCQQSNEDPR 100
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 24/64 (37%), Gaps = 12/64 (18%)
Query: 4 MSWYQDT------FLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
M+WYQ LI E + DR G TLTI ++ DF Y C N
Sbjct: 37 MNWYQQKPGQAPRLLIYAASNLESGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYCQQSN 96
Query: 52 NLGR 55
R
Sbjct: 97 EDPR 100
>pdb|2D7T|L Chain L, Crystal Structure Of Human Anti Polyhydroxybutyrate
Antibody Fv
Length = 116
Score = 31.6 bits (70), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 38/85 (44%), Gaps = 7/85 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLM 72
S L + G++ T+T + Q+ + NY + G+A K + + S V+ R
Sbjct: 7 SPSSLSASVGDRVTITCRASQNIN--NYLHWYQHEPGKAPKLLIYAASNLQGGVTSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSCV 97
G TLTI +Q DF Y C+
Sbjct: 65 SGSGTDFTLTISTLQPEDFATYYCL 89
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
++ V+ R G TLTI +Q DF Y C+
Sbjct: 54 LQGGVTSRFSGSGSGTDFTLTISTLQPEDFATYYCL 89
>pdb|2RJM|A Chain A, 3ig Structure Of Titin Domains I67-I69 E-To-A Mutated
Variant
Length = 284
Score = 31.6 bits (70), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 29/66 (43%), Gaps = 2/66 (3%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
++W +D I P + + M N TLT+ V D G Y+C A N G+ +L
Sbjct: 37 ITWAKDNREIRPGGNYK--MTLVENTATLTVLKVTKGDAGQYTCYASNVAGKDSCSAQLG 94
Query: 64 VSVSDR 69
V R
Sbjct: 95 VQAPPR 100
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLG 54
++ I NV S D G Y C A N++G
Sbjct: 249 SIHILNVDSADIGEYQCKASNDVG 272
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLG 103
++ I NV S D G Y C A N++G
Sbjct: 249 SIHILNVDSADIGEYQCKASNDVG 272
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 77 NKHTLTIKNVQSTDFGNYSCVADNNLGR 104
N TLT+ V D G Y+C A N G+
Sbjct: 59 NTATLTVLKVTKGDAGQYTCYASNVAGK 86
>pdb|3KJ4|L Chain L, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|B Chain B, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 219
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 40/96 (41%), Gaps = 9/96 (9%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----V 66
S S L + G K T++ K+ QS + NY G++ K + S V
Sbjct: 5 SQSPSSLAVSAGEKVTMSCKSSQSLLNSRNRKNYLAWYQQKPGQSPKPLIYWASTRESGV 64
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
DR G TLTI +VQ+ D Y C+ NL
Sbjct: 65 PDRFTGSGSGTDFTLTISSVQAEDLAVYYCMQSYNL 100
Score = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 19/40 (47%)
Query: 14 EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 53
E V DR G TLTI +VQ+ D Y C+ NL
Sbjct: 61 ESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCMQSYNL 100
>pdb|2DLT|A Chain A, Solution Structure Of The Ig-Like Domain(433- 525) Of
Murine Myosin-Binding Protein C, Fast-Type
Length = 106
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 31/63 (49%), Gaps = 5/63 (7%)
Query: 6 WYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN---NLGRAKKYMEL 62
WY++ + PS R + G H L I +V+ D G+Y+ V D +L ++E+
Sbjct: 41 WYKNGVEVRPS--KRITISHVGRFHKLVIDDVRPEDEGDYTFVPDGYALSLSAKLNFLEI 98
Query: 63 SVS 65
VS
Sbjct: 99 KVS 101
>pdb|2BX5|A Chain A, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|B Chain B, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|C Chain C, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|D Chain D, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|E Chain E, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|F Chain F, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|G Chain G, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|H Chain H, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|I Chain I, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|J Chain J, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|K Chain K, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|L Chain L, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|M Chain M, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|N Chain N, Is Fr1 The Antibody's Achillies Heel
pdb|2BX5|O Chain O, Is Fr1 The Antibody's Achillies Heel
Length = 107
Score = 31.6 bits (70), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 41/104 (39%), Gaps = 11/104 (10%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + QS +Y G+A K + L V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQS--ISSYLNWYQQKPGKAPKLLIYAASSLQSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC----VADNNLGRAKK 107
R G TLTI ++Q DF Y C N G+ K
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYCQQSYSTPNTFGQGTK 103
>pdb|1N7M|H Chain H, Germline 7g12 With N-Methylmesoporphyrin
pdb|1NGZ|A Chain A, Chimeric Germline Fab 7g12-Apo
Length = 213
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 36/82 (43%), Gaps = 8/82 (9%)
Query: 21 RLMETR-GNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLMET 74
+ M T G++ ++T K Q + G G++ K + S S V DR
Sbjct: 9 KFMSTSVGDRVSITCKASQ--NVGTAVAWYQQKPGQSPKLLIYSASNRYTGVPDRFTGSG 66
Query: 75 RGNKHTLTIKNVQSTDFGNYSC 96
G TLTI N+QS D +Y C
Sbjct: 67 SGTDFTLTISNMQSEDLADYFC 88
Score = 30.0 bits (66), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ P V DR G TLTI N+QS D +Y C
Sbjct: 33 VAWYQQKPGQSPKLLIYSASNRYTGVPDRFTGSGSGTDFTLTISNMQSEDLADYFC 88
>pdb|1NGX|A Chain A, Chimeric Germline Fab 7g12 With Jeffamine Fragment Bound
pdb|1NGX|L Chain L, Chimeric Germline Fab 7g12 With Jeffamine Fragment Bound
Length = 213
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 36/82 (43%), Gaps = 8/82 (9%)
Query: 21 RLMETR-GNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLMET 74
+ M T G++ ++T K Q + G G++ K + S S V DR
Sbjct: 9 KFMSTSVGDRVSITCKASQ--NVGTAVAWYQQKPGQSPKLLIYSASNRYTGVPDRFTGSG 66
Query: 75 RGNKHTLTIKNVQSTDFGNYSC 96
G TLTI N+QS D +Y C
Sbjct: 67 SGTDFTLTISNMQSEDLADYFC 88
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ P V DR G TLTI N+QS D +Y C
Sbjct: 33 VAWYQQKPGQSPKLLIYSASNRYTGVPDRFTGSGSGTDFTLTISNMQSEDLADYFC 88
>pdb|3CLE|L Chain L, Hiv Neutralizing Monoclonal Antibody Yz23
pdb|3CLF|L Chain L, Hiv Neutralizing Monoclonal Antibody Yz23
Length = 214
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 22/57 (38%), Gaps = 12/57 (21%)
Query: 3 MMSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+++WYQ P V DR G TLTI NVQS D Y C
Sbjct: 32 IIAWYQQKPGQSPKALIYLASYRYSGVPDRFTGSGSGTDFTLTISNVQSEDLAEYFC 88
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 36/83 (43%), Gaps = 8/83 (9%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLME 73
++ M T G++ +++ K Q + GN G++ K + S V DR
Sbjct: 8 QKFMSTSVGDRVSISCKASQ--NVGNIIAWYQQKPGQSPKALIYLASYRYSGVPDRFTGS 65
Query: 74 TRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI NVQS D Y C
Sbjct: 66 GSGTDFTLTISNVQSEDLAEYFC 88
>pdb|4DKF|L Chain L, Crystal Structure Of Human Interleukin-34 Bound To Fab2
pdb|4DKF|M Chain M, Crystal Structure Of Human Interleukin-34 Bound To Fab2
Length = 214
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 37/89 (41%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T + QS +Y G+A K + S V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQS--ISSYLAWYQQKPGKAPKLLIYGASSRASGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|3KDM|L Chain L, Crystal Structure Of Human Anti-Steroid Fab 5f2 In
Complex With Testosterone
pdb|3KDM|A Chain A, Crystal Structure Of Human Anti-Steroid Fab 5f2 In
Complex With Testosterone
Length = 218
Score = 31.6 bits (70), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 33/65 (50%), Gaps = 7/65 (10%)
Query: 39 STDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDF 91
S+D G Y+ V+ + G+A K M V+ VS+R GN +LTI +Q+ D
Sbjct: 26 SSDVGGYNYVSWYQQHPGKAPKLMIYGVTNRPSGVSNRFSGSKSGNTASLTISGLQAGDE 85
Query: 92 GNYSC 96
+Y C
Sbjct: 86 ADYYC 90
>pdb|3U79|A Chain A, Al-103 Y32f Y96f
pdb|3U79|B Chain B, Al-103 Y32f Y96f
pdb|3U79|C Chain C, Al-103 Y32f Y96f
pdb|3U79|D Chain D, Al-103 Y32f Y96f
pdb|3U79|E Chain E, Al-103 Y32f Y96f
pdb|3U79|F Chain F, Al-103 Y32f Y96f
pdb|3U79|G Chain G, Al-103 Y32f Y96f
pdb|3U79|H Chain H, Al-103 Y32f Y96f
Length = 111
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 35/90 (38%), Gaps = 7/90 (7%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLM 72
S L + G++ T+T + Q D N+ G+A K + L V R
Sbjct: 9 SPSSLSASVGDRVTITCQASQ--DISNFLIWYQQKPGKAPKLLIYDASNLETGVPSRFSG 66
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
G T TI ++Q D Y C +NL
Sbjct: 67 SGSGTDFTFTISSLQPEDIATYYCQQYHNL 96
>pdb|3BN9|C Chain C, Crystal Structure Of Mt-Sp1 In Complex With Fab Inhibitor
E2
pdb|3BN9|E Chain E, Crystal Structure Of Mt-Sp1 In Complex With Fab Inhibitor
E2
Length = 214
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 38/95 (40%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q +Y G+A K + L V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQG--ISSYLAWYQQKPGKAPKLLIYAASSLQSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G TLTI ++Q DF Y C NL
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFAVYYCQQHGNL 94
>pdb|2AP2|A Chain A, Single Chain Fv Of C219 In Complex With Synthetic Epitope
Peptide
pdb|2AP2|C Chain C, Single Chain Fv Of C219 In Complex With Synthetic Epitope
Peptide
Length = 115
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 36/91 (39%), Gaps = 9/91 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L T G K T++ K+ QS + NY G+ K + S V D
Sbjct: 10 SPSSLTVTAGEKVTMSCKSSQSLLNSGNQKNYLTWYQQKPGQPPKLLIYWASTRESGVPD 69
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 99
R G TLTI +VQ+ D Y C D
Sbjct: 70 RFTGSGSGTDFTLTISSVQAEDLAVYYCQND 100
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 24/59 (40%), Gaps = 12/59 (20%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 50
++WYQ LI E V DR G TLTI +VQ+ D Y C D
Sbjct: 42 LTWYQQKPGQPPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQND 100
>pdb|4AL8|L Chain L, Structure Of Dengue Virus Diii In Complex With Fab 2h12
Length = 213
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 17/32 (53%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
V DR G TLTI NVQS D +Y C+
Sbjct: 58 VPDRFTGSGSGTDFTLTISNVQSEDLADYFCL 89
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 17/32 (53%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
V DR G TLTI NVQS D +Y C+
Sbjct: 58 VPDRFTGSGSGTDFTLTISNVQSEDLADYFCL 89
>pdb|2OLD|A Chain A, Bence Jones Kwr Protein- Immunoglobulin Light Chain
Dimer, P3(2)21 Crystal Form
pdb|2OLD|B Chain B, Bence Jones Kwr Protein- Immunoglobulin Light Chain
Dimer, P3(2)21 Crystal Form
pdb|2OMB|A Chain A, Bence Jones Kwr Protein- Immunoglobulin Light Chain
Dimer, P3(1)21 Crystal Form
pdb|2OMB|B Chain B, Bence Jones Kwr Protein- Immunoglobulin Light Chain
Dimer, P3(1)21 Crystal Form
pdb|2OMB|C Chain C, Bence Jones Kwr Protein- Immunoglobulin Light Chain
Dimer, P3(1)21 Crystal Form
pdb|2OMB|D Chain D, Bence Jones Kwr Protein- Immunoglobulin Light Chain
Dimer, P3(1)21 Crystal Form
pdb|2OMN|A Chain A, Bence Jones Kwr Protein- Immunoglobulin Light Chain
Dimer, P4(3)2(1)2 Crystal Form
pdb|2OMN|B Chain B, Bence Jones Kwr Protein- Immunoglobulin Light Chain
Dimer, P4(3)2(1)2 Crystal Form
Length = 217
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 32/65 (49%), Gaps = 7/65 (10%)
Query: 39 STDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDF 91
S+D G Y V+ ++ G A K + V+ VSDR GN +LTI +Q+ D
Sbjct: 26 SSDVGGYDLVSWYQHHPGGAPKLIIYEVTNRPSGVSDRFSGSKSGNTASLTISGLQAEDE 85
Query: 92 GNYSC 96
+Y C
Sbjct: 86 ADYYC 90
Score = 29.3 bits (64), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 27/57 (47%), Gaps = 12/57 (21%)
Query: 3 MMSWYQ------DTFLI-----EPS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++SWYQ +I PS VSDR GN +LTI +Q+ D +Y C
Sbjct: 34 LVSWYQHHPGGAPKLIIYEVTNRPSGVSDRFSGSKSGNTASLTISGLQAEDEADYYC 90
>pdb|2IMN|A Chain A, Refined Crystal Structure Of A Recombinant Immunoglobulin
Domain And A Complementarity-Determining Region
1-Grafted Mutant
Length = 113
Score = 31.6 bits (70), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 38/92 (41%), Gaps = 8/92 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQS---TDFGNYSCVADNNLGRAKKYMELSVS-----VSDR 69
S L + G + T++ K+ QS D N+ G+ K + S V DR
Sbjct: 7 SPSSLSVSAGERVTMSCKSSQSLLYKDGKNFLAWYQQKPGQPPKLLIYGASTRESGVPDR 66
Query: 70 RLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
G TLTI +VQ+ D Y C D++
Sbjct: 67 FTGSGSGTDFTLTISSVQAEDLAVYYCQNDHS 98
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 26/62 (41%), Gaps = 12/62 (19%)
Query: 3 MMSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 50
++WYQ LI E V DR G TLTI +VQ+ D Y C D
Sbjct: 37 FLAWYQQKPGQPPKLLIYGASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQND 96
Query: 51 NN 52
++
Sbjct: 97 HS 98
>pdb|1AP2|A Chain A, Single Chain Fv Of C219
pdb|1AP2|C Chain C, Single Chain Fv Of C219
Length = 113
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 36/91 (39%), Gaps = 9/91 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L T G K T++ K+ QS + NY G+ K + S V D
Sbjct: 7 SPSSLTVTAGEKVTMSCKSSQSLLNSGNQKNYLTWYQQKPGQPPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 99
R G TLTI +VQ+ D Y C D
Sbjct: 67 RFTGSGSGTDFTLTISSVQAEDLAVYYCQND 97
Score = 29.3 bits (64), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 24/59 (40%), Gaps = 12/59 (20%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 50
++WYQ LI E V DR G TLTI +VQ+ D Y C D
Sbjct: 39 LTWYQQKPGQPPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQND 97
>pdb|4ALA|L Chain L, Structure Of Dengue Virus Diii In Complex With Fab 2h12
pdb|4AM0|B Chain B, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
pdb|4AM0|D Chain D, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
pdb|4AM0|F Chain F, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
pdb|4AM0|L Chain L, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
Length = 212
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 17/32 (53%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
V DR G TLTI NVQS D +Y C+
Sbjct: 58 VPDRFTGSGSGTDFTLTISNVQSEDLADYFCL 89
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 15/32 (46%), Positives = 17/32 (53%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
V DR G TLTI NVQS D +Y C+
Sbjct: 58 VPDRFTGSGSGTDFTLTISNVQSEDLADYFCL 89
>pdb|2RHE|A Chain A, Structure Of A Novel Bence-Jones Protein (Rhe) Fragment At
1.6 Angstroms Resolution
Length = 114
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 38/83 (45%), Gaps = 7/83 (8%)
Query: 25 TRGNKHTLTIKNVQSTDFGNYSCVADNNL-GRAKKYM-----ELSVSVSDRRLMETRGNK 78
T G + T++ +TD G+ S + + G+A K + L VSDR G
Sbjct: 13 TPGQRVTISCTG-SATDIGSNSVIWYQQVPGKAPKLLIYYNDLLPSGVSDRFSASKSGTS 71
Query: 79 HTLTIKNVQSTDFGNYSCVADNN 101
+L I ++S D +Y C A N+
Sbjct: 72 ASLAISGLESEDEADYYCAAWND 94
Score = 29.3 bits (64), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 3 MMSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 52
++ +Y D L+ VSDR G +L I ++S D +Y C A N+
Sbjct: 47 LLIYYND--LLPSGVSDRFSASKSGTSASLAISGLESEDEADYYCAAWND 94
>pdb|1HXM|B Chain B, Crystal Structure Of A Human Vgamma9VDELTA2 T CELL
RECEPTOR
pdb|1HXM|D Chain D, Crystal Structure Of A Human Vgamma9VDELTA2 T CELL
RECEPTOR
pdb|1HXM|F Chain F, Crystal Structure Of A Human Vgamma9VDELTA2 T CELL
RECEPTOR
pdb|1HXM|H Chain H, Crystal Structure Of A Human Vgamma9VDELTA2 T CELL
RECEPTOR
Length = 242
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 38/87 (43%), Gaps = 10/87 (11%)
Query: 21 RLMETRGNKHTLTIKNVQSTDFGNYSCV---ADNNLGRAKKYMELSVS--VSDRRLMETR 75
R+ ET + TLTI NV+ D Y C A LG+ K ++D++L
Sbjct: 73 RIPETSTS--TLTIHNVEKQDIATYYCALWEAQQELGKKIKVFGPGTKLIITDKQLDADV 130
Query: 76 GNKHTLTIKNVQSTDF---GNYSCVAD 99
K T+ + ++ T G Y C+ +
Sbjct: 131 SPKPTIFLPSIAETKLQKAGTYLCLLE 157
>pdb|1JVK|A Chain A, Three-Dimensional Structure Of An Immunoglobulin Light
Chain Dimer Acting As A Lethal Amyloid Precursor
pdb|1JVK|B Chain B, Three-Dimensional Structure Of An Immunoglobulin Light
Chain Dimer Acting As A Lethal Amyloid Precursor
pdb|1LGV|A Chain A, Structure Of A Human Bence-Jones Dimer Crystallized In
U.S. Space Shuttle Mission Sts-95: 100k
pdb|1LGV|B Chain B, Structure Of A Human Bence-Jones Dimer Crystallized In
U.S. Space Shuttle Mission Sts-95: 100k
pdb|1LHZ|A Chain A, Structure Of A Human Bence-Jones Dimer Crystallized In
U.S. Space Shuttle Mission Sts-95: 293k
pdb|1LHZ|B Chain B, Structure Of A Human Bence-Jones Dimer Crystallized In
U.S. Space Shuttle Mission Sts-95: 293k
Length = 216
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 43/94 (45%), Gaps = 12/94 (12%)
Query: 10 TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSV--- 64
T L +P+ + + G T++ V S G+Y+ V+ + G+A K + V
Sbjct: 2 TALTQPA----SVSGSPGQSITVSCTGVSSI-VGSYNLVSWYQQHPGKAPKLLTYEVNKR 56
Query: 65 --SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
VSDR GN +LTI +Q+ D +Y C
Sbjct: 57 PSGVSDRFSGSKSGNSASLTISGLQAEDEADYYC 90
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 12/57 (21%)
Query: 3 MMSWYQD---------TFLI--EPS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++SWYQ T+ + PS VSDR GN +LTI +Q+ D +Y C
Sbjct: 34 LVSWYQQHPGKAPKLLTYEVNKRPSGVSDRFSGSKSGNSASLTISGLQAEDEADYYC 90
>pdb|1MVU|A Chain A, Single Chain Fv Of C219 Heavy Chain V101l Mutant In
Complex With Synthetic Epitope Peptide
Length = 114
Score = 31.2 bits (69), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 36/91 (39%), Gaps = 9/91 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L T G K T++ K+ QS + NY G+ K + S V D
Sbjct: 7 SPSSLTVTAGEKVTMSCKSSQSLLNSGNQKNYLTWYQQKPGQPPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 99
R G TLTI +VQ+ D Y C D
Sbjct: 67 RFTGSGSGTDFTLTISSVQAEDLAVYYCQND 97
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 24/59 (40%), Gaps = 12/59 (20%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 50
++WYQ LI E V DR G TLTI +VQ+ D Y C D
Sbjct: 39 LTWYQQKPGQPPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQND 97
>pdb|1PKQ|A Chain A, Myelin Oligodendrocyte Glycoprotein-(8-18c5) Fab-Complex
pdb|1PKQ|F Chain F, Myelin Oligodendrocyte Glycoprotein-(8-18c5) Fab-Complex
Length = 241
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 40/98 (40%), Gaps = 9/98 (9%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS--- 65
IE + S L + G K T++ K+ QS + NY G K + S
Sbjct: 23 IELTQSPSSLAVSAGEKVTMSCKSSQSLLNSGNQKNYLAWYQQKPGLPPKLLIYGASTRE 82
Query: 66 --VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
V DR G TLTI +VQ+ D Y C D++
Sbjct: 83 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQNDHS 120
>pdb|2UZI|L Chain L, Crystal Structure Of Hras(G12v) - Anti-Ras Fv Complex
Length = 104
Score = 31.2 bits (69), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 34/84 (40%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSV-----SDRRLM 72
S L + G++ T+T + QS +Y G A K + S SV R
Sbjct: 6 SPSSLSASVGDRVTITCRASQS--ISSYLNWYQQKPGEAPKLLIYSASVLQSGVPSRFSG 63
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q DF Y C
Sbjct: 64 SGSGTDFTLTISSLQPEDFATYYC 87
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 17/36 (47%)
Query: 12 LIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+++ V R G TLTI ++Q DF Y C
Sbjct: 52 VLQSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYC 87
>pdb|3V2A|R Chain R, Vegfr-2VEGF-A Complex Structure
Length = 772
Score = 31.2 bits (69), Expect = 0.16, Method: Composition-based stats.
Identities = 20/52 (38%), Positives = 30/52 (57%), Gaps = 4/52 (7%)
Query: 6 WYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAK 57
W++D E V D ++ GN++ LTI+ V+ D G Y+C A + LG AK
Sbjct: 700 WFKDN---ETLVEDSGIVLKDGNRN-LTIRRVRKEDEGLYTCQACSVLGCAK 747
Score = 28.9 bits (63), Expect = 0.80, Method: Composition-based stats.
Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 7/63 (11%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
+ WY++ +E + T H LTI V D GNY+ + N + + K+ +S
Sbjct: 362 IKWYKNGIPLESN-------HTIKAGHVLTIMEVSERDTGNYTVILTNPISKEKQSHVVS 414
Query: 64 VSV 66
+ V
Sbjct: 415 LVV 417
Score = 27.3 bits (59), Expect = 2.0, Method: Composition-based stats.
Identities = 17/41 (41%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAK 106
V D ++ GN++ LTI+ V+ D G Y+C A + LG AK
Sbjct: 708 VEDSGIVLKDGNRN-LTIRRVRKEDEGLYTCQACSVLGCAK 747
Score = 26.9 bits (58), Expect = 2.6, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 79 HTLTIKNVQSTDFGNYSCVADNNLGRAKK 107
H LTI V D GNY+ + N + + K+
Sbjct: 381 HVLTIMEVSERDTGNYTVILTNPISKEKQ 409
Score = 25.8 bits (55), Expect = 7.1, Method: Composition-based stats.
Identities = 22/96 (22%), Positives = 38/96 (39%), Gaps = 12/96 (12%)
Query: 6 WYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS 65
W + + S +D +ME +KN D G+Y C+A + + + + ++
Sbjct: 610 WKLNATMFSNSTNDILIME---------LKNASLQDQGDYVCLAQDRKTKKRHCVVRQLT 660
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
V +R GN T +S + SC A N
Sbjct: 661 VLERVAPTITGNLENQTTSIGESIEV---SCTASGN 693
>pdb|2HFG|L Chain L, Crystal Structure Of Hbr3 Bound To Cb3s-fab
Length = 214
Score = 31.2 bits (69), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 40/101 (39%), Gaps = 15/101 (14%)
Query: 18 SDRRLMETRGNKHTLTIKNVQ--STDFGNYSCVADNNLGRAKKYMELSVS-----VSDRR 70
S L + G++ T+T + Q ST Y G+A K + S S V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQDVSTAVAWY----QQKPGKAPKLLIYSASFLYSGVPSRF 62
Query: 71 LMETRGNKHTLTIKNVQSTDFGNYSC----VADNNLGRAKK 107
G TLTI ++Q DF Y C ++ G+ K
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQSQISPPTFGQGTK 103
>pdb|3UJI|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2558 In Complex
With Mn Peptide
Length = 209
Score = 31.2 bits (69), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 23/64 (35%), Positives = 29/64 (45%), Gaps = 13/64 (20%)
Query: 4 MSWYQ-----DTFLI------EPS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA-D 50
+SWYQ L+ PS + DR GN TLTI Q+ D +Y C A D
Sbjct: 32 VSWYQQKSGQSPLLVIYEDTKRPSGIPDRFSGSKSGNTATLTISGTQAMDEADYYCQAWD 91
Query: 51 NNLG 54
+ LG
Sbjct: 92 STLG 95
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 20/39 (51%), Gaps = 1/39 (2%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA-DNNLG 103
+ DR GN TLTI Q+ D +Y C A D+ LG
Sbjct: 57 IPDRFSGSKSGNTATLTISGTQAMDEADYYCQAWDSTLG 95
>pdb|1YA5|A Chain A, Crystal Structure Of The Titin Domains Z1z2 In Complex
With Telethonin
pdb|1YA5|B Chain B, Crystal Structure Of The Titin Domains Z1z2 In Complex
With Telethonin
pdb|2F8V|A Chain A, Structure Of Full Length Telethonin In Complex With The
N-Terminus Of Titin
pdb|2F8V|B Chain B, Structure Of Full Length Telethonin In Complex With The
N-Terminus Of Titin
pdb|2F8V|C Chain C, Structure Of Full Length Telethonin In Complex With The
N-Terminus Of Titin
pdb|2F8V|D Chain D, Structure Of Full Length Telethonin In Complex With The
N-Terminus Of Titin
Length = 201
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 36/155 (23%), Positives = 53/155 (34%), Gaps = 47/155 (30%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
+SW++D +I S + + LTI V + G YS A N G+A EL
Sbjct: 37 VSWFRDGQVISTSTLPGVQISFSDGRAKLTIPAVTKANSGRYSLKATNGSGQATSTAELL 96
Query: 64 V--------------SVSDRRLMETR---------------------------------G 76
V S++ R+ + R G
Sbjct: 97 VKAETAPPNFVQRLQSMTVRQGSQVRLQVRVTGIPTPVVKFYRDGAEIQSSLDFQISQEG 156
Query: 77 NKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 111
+ ++L I D G YS A N++GRA EL
Sbjct: 157 DLYSLLIAEAYPEDSGTYSVNATNSVGRATSTAEL 191
Score = 29.6 bits (65), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 3 MMSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 62
++ +Y+D I+ S+ D ++ + G+ ++L I D G YS A N++GRA EL
Sbjct: 134 VVKFYRDGAEIQSSL-DFQISQ-EGDLYSLLIAEAYPEDSGTYSVNATNSVGRATSTAEL 191
Query: 63 SV 64
V
Sbjct: 192 LV 193
>pdb|3KVQ|A Chain A, Crystal Structure Of Vegfr2 Extracellular Domain D7
Length = 108
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 30/52 (57%), Gaps = 4/52 (7%)
Query: 6 WYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAK 57
W++D E V D ++ GN++ LTI+ V+ D G Y+C A + LG AK
Sbjct: 44 WFKDN---ETLVEDSGIVLKDGNRN-LTIRRVRKEDEGLYTCQACSVLGCAK 91
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 37/73 (50%), Gaps = 5/73 (6%)
Query: 38 QSTDFGN---YSCVADNNLGRAKKYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGN 93
Q+T G SC A N + + + + V D ++ GN++ LTI+ V+ D G
Sbjct: 20 QTTSIGESIEVSCTASGNPPPQIMWFKDNETLVEDSGIVLKDGNRN-LTIRRVRKEDEGL 78
Query: 94 YSCVADNNLGRAK 106
Y+C A + LG AK
Sbjct: 79 YTCQACSVLGCAK 91
>pdb|2A38|A Chain A, Crystal Structure Of The N-Terminus Of Titin
pdb|2A38|B Chain B, Crystal Structure Of The N-Terminus Of Titin
pdb|2A38|C Chain C, Crystal Structure Of The N-Terminus Of Titin
Length = 194
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 36/155 (23%), Positives = 53/155 (34%), Gaps = 47/155 (30%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
+SW++D +I S + + LTI V + G YS A N G+A EL
Sbjct: 37 VSWFRDGQVISTSTLPGVQISFSDGRAKLTIPAVTKANSGRYSLKATNGSGQATSTAELL 96
Query: 64 V--------------SVSDRRLMETR---------------------------------G 76
V S++ R+ + R G
Sbjct: 97 VKAETAPPNFVQRLQSMTVRQGSQVRLQVRVTGIPTPVVKFYRDGAEIQSSLDFQISQEG 156
Query: 77 NKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 111
+ ++L I D G YS A N++GRA EL
Sbjct: 157 DLYSLLIAEAYPEDSGTYSVNATNSVGRATSTAEL 191
Score = 29.6 bits (65), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 3 MMSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 62
++ +Y+D I+ S+ D ++ + G+ ++L I D G YS A N++GRA EL
Sbjct: 134 VVKFYRDGAEIQSSL-DFQISQ-EGDLYSLLIAEAYPEDSGTYSVNATNSVGRATSTAEL 191
Query: 63 SV 64
V
Sbjct: 192 LV 193
>pdb|43C9|A Chain A, Crystallographic Structure Of The Esterolytic And
Amidolytic 43c9 Antibody
pdb|43C9|C Chain C, Crystallographic Structure Of The Esterolytic And
Amidolytic 43c9 Antibody
pdb|43C9|E Chain E, Crystallographic Structure Of The Esterolytic And
Amidolytic 43c9 Antibody
pdb|43C9|G Chain G, Crystallographic Structure Of The Esterolytic And
Amidolytic 43c9 Antibody
pdb|43CA|A Chain A, Crystallographic Structure Of The Esterolytic And
Amidolytic 43c9 Antibody With Bound P-Nitrophenol
pdb|43CA|C Chain C, Crystallographic Structure Of The Esterolytic And
Amidolytic 43c9 Antibody With Bound P-Nitrophenol
pdb|43CA|E Chain E, Crystallographic Structure Of The Esterolytic And
Amidolytic 43c9 Antibody With Bound P-Nitrophenol
pdb|43CA|G Chain G, Crystallographic Structure Of The Esterolytic And
Amidolytic 43c9 Antibody With Bound P-Nitrophenol
Length = 113
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 9/84 (10%)
Query: 22 LMETRGNKHTLTIKNVQS----TDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLM 72
L + G K T++ K+ QS ++ NY G++ K + S V DR +
Sbjct: 11 LAMSVGQKVTMSCKSSQSLLNISNQKNYLAWYQQKPGQSPKLLVYFASTRESGVPDRFIG 70
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI +VQ+ D +Y C
Sbjct: 71 SGSGTDFTLTISSVQAEDQADYFC 94
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ L+ E V DR + G TLTI +VQ+ D +Y C
Sbjct: 39 LAWYQQKPGQSPKLLVYFASTRESGVPDRFIGSGSGTDFTLTISSVQAEDQADYFC 94
>pdb|1CIC|A Chain A, Idiotope-Anti-Idiotope Fab-Fab Complex; D1.3-E225
Length = 214
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 16/31 (51%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
V DR G TLTI NVQS D +Y C
Sbjct: 58 VPDRFTGSGSGTDFTLTISNVQSEDLADYFC 88
Score = 30.8 bits (68), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 15/31 (48%), Positives = 16/31 (51%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V DR G TLTI NVQS D +Y C
Sbjct: 58 VPDRFTGSGSGTDFTLTISNVQSEDLADYFC 88
>pdb|1QFW|M Chain M, Ternary Complex Of Human Chorionic Gonadotropin With Fv
Anti Alpha Subunit And Fv Anti Beta Subunit
Length = 108
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 22/57 (38%), Gaps = 12/57 (21%)
Query: 3 MMSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+SWYQ P V DR TLTI +VQ+ DF +Y C
Sbjct: 32 FVSWYQQKPEQSPKLLIFGASNRFSGVPDRFTGSGSATDFTLTISSVQAEDFADYHC 88
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 39/89 (43%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
IE + S + + + G + TL+ K ++ D ++ ++ K + S V
Sbjct: 2 IELTQSPKSMSMSVGERVTLSCKASETVD--SFVSWYQQKPEQSPKLLIFGASNRFSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
DR TLTI +VQ+ DF +Y C
Sbjct: 60 DRFTGSGSATDFTLTISSVQAEDFADYHC 88
>pdb|2WUB|L Chain L, Crystal Structure Of Hgfa In Complex With The Allosteric
Non-Inhibitory Antibody Fab40.Deltatrp
pdb|2WUB|Q Chain Q, Crystal Structure Of Hgfa In Complex With The Allosteric
Non-Inhibitory Antibody Fab40.Deltatrp
pdb|2WUC|L Chain L, Crystal Structure Of Hgfa In Complex With The Allosteric
Non- Inhibitory Antibody Fab40.Deltatrp And
Ac-Kqlr-Chloromethylketone
pdb|3K2U|L Chain L, Crystal Structure Of Hgfa In Complex With The Allosteric
Inhibitory Antibody Fab40
Length = 214
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 37/93 (39%), Gaps = 7/93 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T + Q D G+A K + S S V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQ--DVSTAVAWYQQKPGKAPKLLIYSASFLYSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 100
R G TLTI ++Q DF Y C N
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYCQQSN 92
>pdb|3ET9|F Chain F, Crystal Structure Of The Engineered Neutralizing
Antibody 1h
Length = 252
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 14/39 (35%), Positives = 18/39 (46%)
Query: 15 PSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 53
P V R G ++LTI N++ D G Y C N L
Sbjct: 61 PGVPSRFSGSGSGTDYSLTISNLEQEDIGTYFCQQGNTL 99
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 42/101 (41%), Gaps = 10/101 (9%)
Query: 7 YQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNY-SCVADNNLGRAKKYM----E 61
Y+D LI+ S L + G++ T++ + Q D NY + G K +
Sbjct: 4 YKDIVLIQ---STSSLSASLGDRVTISCRASQ--DIRNYLNWYQQKPDGTVKLLIYYTSR 58
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
L V R G ++LTI N++ D G Y C N L
Sbjct: 59 LLPGVPSRFSGSGSGTDYSLTISNLEQEDIGTYFCQQGNTL 99
>pdb|3DUR|A Chain A, Crystal Structure Of Sag173-04
pdb|3DUR|C Chain C, Crystal Structure Of Sag173-04
Length = 112
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 37/94 (39%), Gaps = 9/94 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L + G K T++ K+ QS + NY G++ K + S V D
Sbjct: 7 SPSSLAVSAGEKVTMSCKSSQSLFKSRNQKNYLAWYQQKPGQSPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G TLTI VQ+ D Y C NL
Sbjct: 67 RFTGSGSGTDFTLTINGVQAEDLAVYYCKQSYNL 100
Score = 30.4 bits (67), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 24/62 (38%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G TLTI VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTINGVQAEDLAVYYCKQSY 98
Query: 52 NL 53
NL
Sbjct: 99 NL 100
>pdb|1B2W|L Chain L, Comparison Of The Three-Dimensional Structures Of A
Humanized And A Chimeric Fab Of An
Anti-Gamma-Interferon Antibody
pdb|1T04|A Chain A, Three Dimensional Structure Of A Humanized
Anti-Ifn-Gamma Fab In C2 Space Group
pdb|1T04|C Chain C, Three Dimensional Structure Of A Humanized
Anti-Ifn-Gamma Fab In C2 Space Group
pdb|1T3F|A Chain A, Three Dimensional Structure Of A Humanized
Anti-Ifn-Gamma Fab (Huzaf) In P21 21 21 Space Group
Length = 214
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 37/89 (41%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T K ++ D Y G+A K + S V
Sbjct: 2 IQMTQSPSTLSASVGDRVTITCKASENVD--TYVSWYQQKPGKAPKLLIYGASNRYTGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPDDFATYYC 88
>pdb|3I02|A Chain A, Crystal Structure Of S54-10 Antibody In Complex With
Antigen Kdo(2.4)kdo(2.4)kdo
pdb|3I02|C Chain C, Crystal Structure Of S54-10 Antibody In Complex With
Antigen Kdo(2.4)kdo(2.4)kdo
Length = 219
Score = 30.8 bits (68), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 31/102 (30%), Positives = 40/102 (39%), Gaps = 12/102 (11%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L + G K T++ K+ QS NY G++ K + S V D
Sbjct: 7 SPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIFWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL---GRAKK 107
R G TLTI +VQ+ D Y C NL GR K
Sbjct: 67 RFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNLRTFGRGTK 108
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 28/70 (40%), Gaps = 15/70 (21%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKLLIFWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSY 98
Query: 52 NL---GRAKK 58
NL GR K
Sbjct: 99 NLRTFGRGTK 108
>pdb|2QQK|L Chain L, Neuropilin-2 A1a2b1b2 Domains In Complex With A
Semaphorin-Blocking Fab
pdb|2QQL|L Chain L, Neuropilin-2 A1a2b1b2 Domains In Complex With A
Semaphorin-Blocking Fab
Length = 214
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 38/91 (41%), Gaps = 11/91 (12%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQ--STDFGNYSCVADNNLGRAKKYMELSVS----- 65
I+ + S L + G++ T+T + Q ST Y G+A K + S S
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQDVSTAVAWY----QQKPGKAPKLLIYSASFLYSG 57
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V R G TLTI ++Q DF Y C
Sbjct: 58 VPSRFSGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|3S97|C Chain C, Ptprz Cntn1 Complex
pdb|3S97|D Chain D, Ptprz Cntn1 Complex
Length = 201
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 26/43 (60%), Gaps = 4/43 (9%)
Query: 6 WYQDTFLIEPSVSDRRLM-ETRGNKHTLTIKNVQSTDFGNYSC 47
W + F + ++ RR + +T GN L I NV+++D GNYSC
Sbjct: 44 WLLNEFPVFITMDKRRFVSQTNGN---LYIANVEASDKGNYSC 83
Score = 29.3 bits (64), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 24/38 (63%), Gaps = 4/38 (10%)
Query: 60 MELSVSVSDRRLM-ETRGNKHTLTIKNVQSTDFGNYSC 96
+ +++ RR + +T GN L I NV+++D GNYSC
Sbjct: 49 FPVFITMDKRRFVSQTNGN---LYIANVEASDKGNYSC 83
>pdb|1I8I|A Chain A, Crystal Structure Of Dsfv Mr1 In Complex With The
Peptide Antigen Of The Mutant Epidermal Growth Factor
Receptor, Egfrviii, At Room Temperature
pdb|1I8K|A Chain A, Crystal Structure Of Dsfv Mr1 In Complex With The
Peptide Antigen Of The Mutant Epidermal Growth Factor
Receptor, Egfrviii, At Liquid Nitrogen Temperature
Length = 107
Score = 30.8 bits (68), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLIE------PSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
M+WYQ FLI P V R G TI+N S D G+Y C+
Sbjct: 33 MNWYQQKPGEPPKFLISEGNTLRPGVPSRFSSSGTGTDFVFTIENTLSEDVGDYYCLQSF 92
Query: 52 NL 53
N+
Sbjct: 93 NV 94
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 37/95 (38%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
IE + S L G K +TI+ + STD + G K++ L V
Sbjct: 2 IELTQSPASLSVATGEK--VTIRCMTSTDIDDDMNWYQQKPGEPPKFLISEGNTLRPGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G TI+N S D G+Y C+ N+
Sbjct: 60 SRFSSSGTGTDFVFTIENTLSEDVGDYYCLQSFNV 94
>pdb|1DEE|A Chain A, Crystal Structure At 2.7a Resolution Of A Complex
Between A Staphylococcus Aureus Domain And A Fab
Fragment Of A Human Igm Antibody
pdb|1DEE|C Chain C, Crystal Structure At 2.7a Resolution Of A Complex
Between A Staphylococcus Aureus Domain And A Fab
Fragment Of A Human Igm Antibody
pdb|1DEE|E Chain E, Crystal Structure At 2.7a Resolution Of A Complex
Between A Staphylococcus Aureus Domain And A Fab
Fragment Of A Human Igm Antibody
Length = 214
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 37/89 (41%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + QS +Y G+A K + L V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRTSQS--ISSYLNWYQQKPGKAPKLLIYAASSLQSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|3SOB|L Chain L, The Structure Of The First Ywtd Beta Propeller Domain Of
Lrp6 In Complex With A Fab
Length = 237
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 36/89 (40%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T + Q D G+A K + S S V
Sbjct: 25 IQMTQSPSSLSASVGDRVTITCRASQ--DVSTAVAWYQQKPGKAPKLLIYSASFLYSGVP 82
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 83 SRFSGSGSGTDFTLTISSLQPEDFATYYC 111
>pdb|2G5B|A Chain A, Crystal Structure Of The Anti-Bax Monoclonal Antibody 6a7
And A Bax Peptide.
pdb|2G5B|C Chain C, Crystal Structure Of The Anti-Bax Monoclonal Antibody 6a7
And A Bax Peptide.
pdb|2G5B|E Chain E, Crystal Structure Of The Anti-Bax Monoclonal Antibody 6a7
And A Bax Peptide.
pdb|2G5B|G Chain G, Crystal Structure Of The Anti-Bax Monoclonal Antibody 6a7
And A Bax Peptide
Length = 217
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 30/97 (30%), Positives = 40/97 (41%), Gaps = 11/97 (11%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQSTDFG-----NYSCVADNNLGRAKKYMELSVS----- 65
S S L + G + T+T K+ QS F NY G++ K + S
Sbjct: 5 SQSPSSLAVSAGERVTMTCKSSQSL-FNSKTRRNYLAWYQQKPGQSPKLLIYWASTRESG 63
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
V DR G + TLTI +VQ+ D Y C NL
Sbjct: 64 VPDRFTGSGSGTEFTLTISSVQAEDLAVYYCKQSYNL 100
Score = 30.4 bits (67), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 26/62 (41%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G + TLTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTEFTLTISSVQAEDLAVYYCKQSY 98
Query: 52 NL 53
NL
Sbjct: 99 NL 100
>pdb|2OZ4|L Chain L, Structural Plasticity In Igsf Domain 4 Of Icam-1 Mediates
Cell Surface Dimerization
Length = 214
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 16/73 (21%)
Query: 44 NYSCVADNNLGRAKKYMELSVSVSDRRLME----------------TRGNKHTLTIKNVQ 87
++SC A ++G + + + ++ S R L+E G TLTI +V+
Sbjct: 20 SFSCRASQSIGTSIHWFQQRINGSPRLLIEYASESISGIPSRFSGSGSGTDFTLTINSVE 79
Query: 88 STDFGNYSCVADN 100
S D +Y C N
Sbjct: 80 SEDIADYYCQQSN 92
Score = 25.4 bits (54), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 14/25 (56%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADN 51
G TLTI +V+S D +Y C N
Sbjct: 68 GTDFTLTINSVESEDIADYYCQQSN 92
>pdb|1KOA|A Chain A, Twitchin Kinase Fragment (C.Elegans), Autoregulated
Protein Kinase And Immunoglobulin Domains
Length = 491
Score = 30.8 bits (68), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 36/63 (57%), Gaps = 2/63 (3%)
Query: 3 MMSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 62
+++W++D ++ SV + + GN + LTI V+ D G Y+ A N+ G ++ + L
Sbjct: 407 VVTWHKDDRELKQSV--KYMKRYNGNDYGLTINRVKGDDKGEYTVRAKNSYGTKEEIVFL 464
Query: 63 SVS 65
+V+
Sbjct: 465 NVT 467
Score = 26.2 bits (56), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 76 GNKHTLTIKNVQSTDFGNYSCVADNNLG 103
GN + LTI V+ D G Y+ A N+ G
Sbjct: 429 GNDYGLTINRVKGDDKGEYTVRAKNSYG 456
>pdb|1HEZ|A Chain A, Antibody-Antigen Complex
pdb|1HEZ|C Chain C, Antibody-Antigen Complex
Length = 214
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 37/89 (41%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + QS +Y G+A K + L V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRTSQS--ISSYLNWYQQKPGKAPKLLIYAASSLQSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|3MTR|A Chain A, Crystal Structure Of The Ig5-Fn1 Tandem Of Human Ncam
pdb|3MTR|B Chain B, Crystal Structure Of The Ig5-Fn1 Tandem Of Human Ncam
Length = 215
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 29/53 (54%), Gaps = 2/53 (3%)
Query: 4 MSWYQDTFLIEPS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 55
+SW++D L+ S S+ ++ T + L + DFGNY+C A N +G+
Sbjct: 50 ISWFRDGQLLPSSNYSNIKIYNTPSASY-LEVTPDSENDFGNYNCTAVNRIGQ 101
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 9/15 (60%), Positives = 12/15 (80%)
Query: 90 DFGNYSCVADNNLGR 104
DFGNY+C A N +G+
Sbjct: 87 DFGNYNCTAVNRIGQ 101
>pdb|3QPX|L Chain L, Crystal Structure Of Fab C2507
Length = 213
Score = 30.8 bits (68), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 39/89 (43%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ TL+ K Q + NY LG A K + L +
Sbjct: 2 IQMTQSPSLLSASVGDRVTLSCKASQ--NIYNYLNWYQQKLGEAPKLLIYYTDRLQTGIP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R + G+ +TLTI ++Q D Y C
Sbjct: 60 SRFSGDGSGSDYTLTISSLQPEDVATYFC 88
>pdb|2RIK|A Chain A, I-Band Fragment I67-I69 From Titin
Length = 284
Score = 30.8 bits (68), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 29/66 (43%), Gaps = 2/66 (3%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
++W +D I P + + M N TLT+ V D G Y+C A N G+ +L
Sbjct: 37 ITWAKDNREIRPGGNYK--MTLVENTATLTVLKVTKGDAGQYTCYASNVAGKDSCSAQLG 94
Query: 64 VSVSDR 69
V R
Sbjct: 95 VQEPPR 100
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLG 54
++ I NV S D G Y C A N++G
Sbjct: 249 SIHILNVDSADIGEYQCKASNDVG 272
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLG 103
++ I NV S D G Y C A N++G
Sbjct: 249 SIHILNVDSADIGEYQCKASNDVG 272
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 15/28 (53%)
Query: 77 NKHTLTIKNVQSTDFGNYSCVADNNLGR 104
N TLT+ V D G Y+C A N G+
Sbjct: 59 NTATLTVLKVTKGDAGQYTCYASNVAGK 86
>pdb|3R1G|L Chain L, Structure Basis Of Allosteric Inhibition Of Bace1 By An
Exosite- Binding Antibody
Length = 214
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 33/84 (39%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLM 72
S L + G++ T+T + Q D G+A K + S S V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQ--DVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q DF Y C
Sbjct: 65 SGSGTDFTLTISSLQPEDFATYYC 88
>pdb|3KHO|A Chain A, Crystal Structure Of Murine Ig-Beta (Cd79b) Homodimer
pdb|3KHO|B Chain B, Crystal Structure Of Murine Ig-Beta (Cd79b) Homodimer
pdb|3KHQ|A Chain A, Crystal Structure Of Murine Ig-Beta (Cd79b) In The
Monomeric Form
Length = 133
Score = 30.4 bits (67), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 32/50 (64%), Gaps = 4/50 (8%)
Query: 2 GMMSWYQDTFLIEPS--VSDR-RLMETR-GNKHTLTIKNVQSTDFGNYSC 47
G ++W++ +P VS+ R+++T+ G+ +TLTI+N+Q D G Y C
Sbjct: 45 GALTWFRKRGSQQPQELVSEEGRIVQTQNGSVYTLTIQNIQYEDNGIYFC 94
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/42 (35%), Positives = 22/42 (52%)
Query: 55 RAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R + + VS R + G+ +TLTI+N+Q D G Y C
Sbjct: 53 RGSQQPQELVSEEGRIVQTQNGSVYTLTIQNIQYEDNGIYFC 94
>pdb|3U7W|L Chain L, Crystal Structure Of Nih45-46 Fab
pdb|3U7Y|L Chain L, Structure Of Nih45-46 Fab In Complex With Gp120 Of
93th057 Hiv
Length = 210
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 27/69 (39%), Gaps = 12/69 (17%)
Query: 2 GMMSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA 49
G ++WYQ P + DR G + L+I N++S DFG Y C
Sbjct: 29 GSLAWYQQRPGQAPRLVIYSGSTRAAGIPDRFSGSRWGADYNLSISNLESGDFGVYYCQQ 88
Query: 50 DNNLGRAKK 58
G+ K
Sbjct: 89 YEFFGQGTK 97
Score = 28.5 bits (62), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 14/45 (31%), Positives = 21/45 (46%)
Query: 63 SVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKK 107
+ + DR G + L+I N++S DFG Y C G+ K
Sbjct: 53 AAGIPDRFSGSRWGADYNLSISNLESGDFGVYYCQQYEFFGQGTK 97
>pdb|4DKE|L Chain L, Crystal Structure Of Human Interleukin-34 Bound To Fab1.1
pdb|4DKE|M Chain M, Crystal Structure Of Human Interleukin-34 Bound To Fab1.1
Length = 214
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 40/104 (38%), Gaps = 11/104 (10%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T + Q D G+A K + S S V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQ--DVSTAVAWYQQKPGKAPKLLIYSASFLYSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC----VADNNLGRAKK 107
R G TLTI ++Q DF Y C N G+ K
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYCQQSFYFPNTFGQGTK 103
>pdb|2FJF|L Chain L, Structure Of The G6 Fab, A Phage Derived Vegf Binding
Fab
pdb|2FJF|A Chain A, Structure Of The G6 Fab, A Phage Derived Vegf Binding
Fab
pdb|2FJF|C Chain C, Structure Of The G6 Fab, A Phage Derived Vegf Binding
Fab
pdb|2FJF|E Chain E, Structure Of The G6 Fab, A Phage Derived Vegf Binding
Fab
pdb|2FJF|G Chain G, Structure Of The G6 Fab, A Phage Derived Vegf Binding
Fab
pdb|2FJF|J Chain J, Structure Of The G6 Fab, A Phage Derived Vegf Binding
Fab
pdb|2FJF|M Chain M, Structure Of The G6 Fab, A Phage Derived Vegf Binding
Fab
pdb|2FJF|O Chain O, Structure Of The G6 Fab, A Phage Derived Vegf Binding
Fab
pdb|2FJF|Q Chain Q, Structure Of The G6 Fab, A Phage Derived Vegf Binding
Fab
pdb|2FJF|S Chain S, Structure Of The G6 Fab, A Phage Derived Vegf Binding
Fab
pdb|2FJF|U Chain U, Structure Of The G6 Fab, A Phage Derived Vegf Binding
Fab
pdb|2FJF|W Chain W, Structure Of The G6 Fab, A Phage Derived Vegf Binding
Fab
pdb|2FJG|L Chain L, Structure Of The G6 Fab, A Phage Derived Fab Fragment,
In Complex With Vegf
pdb|2FJG|A Chain A, Structure Of The G6 Fab, A Phage Derived Fab Fragment,
In Complex With Vegf
pdb|2H9G|A Chain A, Crystal Structure Of Phage Derived Fab Bdf1 With Human
Death Receptor 5 (dr5)
pdb|2H9G|L Chain L, Crystal Structure Of Phage Derived Fab Bdf1 With Human
Death Receptor 5 (dr5)
pdb|2R0K|L Chain L, Protease Domain Of Hgfa With Inhibitor Fab58
pdb|2R0L|L Chain L, Short Form Hgfa With Inhibitory Fab75
pdb|3GRW|L Chain L, Fgfr3 In Complex With A Fab
Length = 214
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 33/84 (39%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLM 72
S L + G++ T+T + Q D G+A K + S S V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQ--DVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q DF Y C
Sbjct: 65 SGSGTDFTLTISSLQPEDFATYYC 88
>pdb|1SBS|L Chain L, Crystal Structure Of An Anti-Hcg Fab
Length = 220
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 37/90 (41%), Gaps = 9/90 (10%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQSTDFG----NYSCVADNNLGRAKKYMELSVS-----V 66
S S L + G K T+T K+ QS + NY G++ K + S V
Sbjct: 5 SQSPSSLAVSVGEKVTMTCKSSQSLLYSSNQMNYLAWYQQKPGQSPKLLIYWASTRESGV 64
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
DR G TLTI +V++ D Y C
Sbjct: 65 PDRFTGSGSGTDFTLTISSVEAEDLAVYYC 94
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/59 (32%), Positives = 24/59 (40%), Gaps = 12/59 (20%)
Query: 1 MGMMSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
M ++WYQ LI E V DR G TLTI +V++ D Y C
Sbjct: 36 MNYLAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVEAEDLAVYYC 94
>pdb|3HR5|L Chain L, M1prime Peptide From Ige Bound By Humanized Antibody
47h4 Fab
pdb|3HR5|A Chain A, M1prime Peptide From Ige Bound By Humanized Antibody
47h4 Fab
pdb|3HR5|P Chain P, M1prime Peptide From Ige Bound By Humanized Antibody
47h4 Fab
pdb|3HR5|Q Chain Q, M1prime Peptide From Ige Bound By Humanized Antibody
47h4 Fab
Length = 219
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 39/92 (42%), Gaps = 8/92 (8%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGN---YSCVADNNLGRAKKYMELSVS---- 65
I+ + S L + G++ T+T ++ QS N Y G+A K + VS
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRSSQSLVHNNANTYLHWYQQKPGKAPKLLIYKVSNRFS 61
Query: 66 -VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V R G TLTI ++Q DF Y C
Sbjct: 62 GVPSRFSGSGSGTDFTLTISSLQPEDFATYYC 93
>pdb|1EVT|C Chain C, Crystal Structure Of Fgf1 In Complex With The
Extracellular Ligand Binding Domain Of Fgf Receptor 1
(Fgfr1)
pdb|1EVT|D Chain D, Crystal Structure Of Fgf1 In Complex With The
Extracellular Ligand Binding Domain Of Fgf Receptor 1
(Fgfr1)
Length = 225
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 7/72 (9%)
Query: 44 NYSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 103
N S + +NL + V+ +D+ + L ++NV D G Y+C+A N++G
Sbjct: 156 NGSKIGPDNLPYVQILKTAGVNTTDKEM-------EVLHLRNVSFEDAGEYTCLAGNSIG 208
Query: 104 RAKKYMELSELE 115
+ L+ LE
Sbjct: 209 LSHHSAWLTVLE 220
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
L ++NV D G Y+C+A N++G + L+V
Sbjct: 185 VLHLRNVSFEDAGEYTCLAGNSIGLSHHSAWLTV 218
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
++ + +V +D GNY+C+ +N G +L V
Sbjct: 74 SIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDV 107
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 20/36 (55%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
++ + +V +D GNY+C+ +N G +L +E
Sbjct: 74 SIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVE 109
>pdb|3OJV|C Chain C, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr1c Exhibiting An Ordered Ligand
Specificity-Determining Betac'-Betae Loop
pdb|3OJV|D Chain D, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr1c Exhibiting An Ordered Ligand
Specificity-Determining Betac'-Betae Loop
Length = 226
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 7/72 (9%)
Query: 44 NYSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 103
N S + +NL + V+ +D+ + L ++NV D G Y+C+A N++G
Sbjct: 157 NGSKIGPDNLPYVQILKTAGVNTTDKEM-------EVLHLRNVSFEDAGEYTCLAGNSIG 209
Query: 104 RAKKYMELSELE 115
+ L+ LE
Sbjct: 210 LSHHSAWLTVLE 221
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
L ++NV D G Y+C+A N++G + L+V
Sbjct: 186 VLHLRNVSFEDAGEYTCLAGNSIGLSHHSAWLTV 219
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
++ + +V +D GNY+C+ +N G +L V
Sbjct: 75 SIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDV 108
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 20/36 (55%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
++ + +V +D GNY+C+ +N G +L +E
Sbjct: 75 SIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVE 110
>pdb|2HFF|A Chain A, Crystal Structure Of Cb2 Fab
pdb|2HFF|L Chain L, Crystal Structure Of Cb2 Fab
Length = 214
Score = 30.4 bits (67), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 26/99 (26%), Positives = 37/99 (37%), Gaps = 11/99 (11%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLM 72
S L + G++ T+T + Q D G+A K + S S V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQ--DVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC----VADNNLGRAKK 107
G TLTI ++Q DF Y C + G+ K
Sbjct: 65 SGSGTDFTLTISSLQPEDFATYYCQQSRITPPTFGQGTK 103
>pdb|3L95|A Chain A, Crystal Structure Of The Human Notch1 Negative
Regulatory Region (Nrr) Bound To The Fab Fragment Of An
Antagonist Antibody
pdb|3L95|L Chain L, Crystal Structure Of The Human Notch1 Negative
Regulatory Region (Nrr) Bound To The Fab Fragment Of An
Antagonist Antibody
Length = 214
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 36/89 (40%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T + Q D G+A K + S S V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQ--DVSTAVAWYQQKPGKAPKLLIYSASFLYSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|3DVG|A Chain A, Crystal Structure Of K63-Specific Fab Apu.3a8 Bound To
K63-Linked Di- Ubiquitin
Length = 217
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 38/91 (41%), Gaps = 11/91 (12%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYM-----ELSVS 65
I+ + S L + G++ T+T + QS S VA G+A K + L
Sbjct: 3 IQMTQSPSSLSASVGDRVTITCRASQSVS----SAVAWYQQKPGKAPKLLIYSARSLYSG 58
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V R G TLTI ++Q DF Y C
Sbjct: 59 VPSRFSGSRSGTDFTLTISSLQPEDFATYYC 89
>pdb|4HFU|L Chain L, Crystal Structure Of Fab 8m2 In Complex With A H2n2
Influenza Virus Hemagglutinin
Length = 215
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 30/67 (44%), Gaps = 20/67 (29%)
Query: 2 GMMSWYQDTFLIEPSVSDRRLM---ETR-------------GNKHTLTIKNVQSTDFGNY 45
G ++WYQ +P + R L+ TR G + TLTI ++QS DF Y
Sbjct: 31 GNLAWYQQ----KPGQAPRLLIYGASTRATGIPARFSGSGSGTEFTLTITSLQSEDFAVY 86
Query: 46 SCVADNN 52
C NN
Sbjct: 87 YCQQYNN 93
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 41/94 (43%), Gaps = 7/94 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G + TL+ + QS GN + G+A + + S +
Sbjct: 2 IQLTQSPASLSVSPGERATLSCRASQSVA-GNLAWY-QQKPGQAPRLLIYGASTRATGIP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
R G + TLTI ++QS DF Y C NN
Sbjct: 60 ARFSGSGSGTEFTLTITSLQSEDFAVYYCQQYNN 93
>pdb|3UJT|L Chain L, Structure Of The Fab Fragment Of Ab-52, An Antibody That
Binds The O- Antigen Of Francisella Tularensis
pdb|3UJT|M Chain M, Structure Of The Fab Fragment Of Ab-52, An Antibody That
Binds The O- Antigen Of Francisella Tularensis
Length = 217
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 25/56 (44%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ L+ E V DR + G TLTI +VQ+ D +Y C
Sbjct: 39 LAWYQQKPGQSPKLLVYFASTRESGVPDRFIGSGSGTDFTLTISSVQAEDLADYFC 94
Score = 29.6 bits (65), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V DR + G TLTI +VQ+ D +Y C
Sbjct: 64 VPDRFIGSGSGTDFTLTISSVQAEDLADYFC 94
>pdb|1CVS|C Chain C, Crystal Structure Of A Dimeric Fgf2-Fgfr1 Complex
pdb|1CVS|D Chain D, Crystal Structure Of A Dimeric Fgf2-Fgfr1 Complex
pdb|1FQ9|C Chain C, Crystal Structure Of A Ternary Fgf2-Fgfr1-Heparin Complex
pdb|1FQ9|D Chain D, Crystal Structure Of A Ternary Fgf2-Fgfr1-Heparin Complex
Length = 225
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 34/72 (47%), Gaps = 7/72 (9%)
Query: 44 NYSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 103
N S + +NL + V+ +D+ + L ++NV D G Y+C+A N++G
Sbjct: 156 NGSKIGPDNLPYVQILKTAGVNTTDKEM-------EVLHLRNVSFEDAGEYTCLAGNSIG 208
Query: 104 RAKKYMELSELE 115
+ L+ LE
Sbjct: 209 LSHHSAWLTVLE 220
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 20/34 (58%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
L ++NV D G Y+C+A N++G + L+V
Sbjct: 185 VLHLRNVSFEDAGEYTCLAGNSIGLSHHSAWLTV 218
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 10/34 (29%), Positives = 19/34 (55%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
++ + +V +D GNY+C+ +N G +L V
Sbjct: 74 SIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDV 107
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 10/36 (27%), Positives = 20/36 (55%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
++ + +V +D GNY+C+ +N G +L +E
Sbjct: 74 SIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVE 109
>pdb|3G6J|E Chain E, C3b In Complex With A C3b Specific Fab
pdb|3G6J|G Chain G, C3b In Complex With A C3b Specific Fab
Length = 214
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 36/89 (40%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T + Q D G+A K + S S V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQ--DVSTAVAWYQQKPGKAPKLLIYSASFLYSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|2IMM|A Chain A, Refined Crystal Structure Of A Recombinant
Immunoglobulin Domain And A Complementarity-Determining
Region 1-Grafted Mutant
Length = 114
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 26/62 (41%), Gaps = 12/62 (19%)
Query: 3 MMSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 50
++WYQ LI E V DR G TLTI +VQ+ D Y C D
Sbjct: 38 FLAWYQQKPGQPPKLLIYGASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQND 97
Query: 51 NN 52
++
Sbjct: 98 HS 99
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 38/93 (40%), Gaps = 9/93 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L + G + T++ K+ QS + N+ G+ K + S V D
Sbjct: 7 SPSSLSVSAGERVTMSCKSSQSLLNSGNQKNFLAWYQQKPGQPPKLLIYGASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
R G TLTI +VQ+ D Y C D++
Sbjct: 67 RFTGSGSGTDFTLTISSVQAEDLAVYYCQNDHS 99
>pdb|3SKJ|L Chain L, Structural And Functional Characterization Of An Agonistic
Anti-Human Epha2 Monoclonal Antibody
pdb|3SKJ|M Chain M, Structural And Functional Characterization Of An Agonistic
Anti-Human Epha2 Monoclonal Antibody
Length = 214
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 39/97 (40%), Gaps = 7/97 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + QS + G+A K + L V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQS--ISTWLAWYQQKPGKAPKLLIYKASNLHTGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
R G + +LTI +Q DF Y C N+ R
Sbjct: 60 SRFSGSGSGTEFSLTISGLQPDDFATYYCQQYNSYSR 96
>pdb|3SE9|L Chain L, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc- Pg04 In Complex With Hiv-1 Gp120
pdb|4I3R|L Chain L, Crystal Structure Of The Outer Domain Of Hiv-1 Gp120 In
Complex With Vrc-pg04 Space Group P3221
pdb|4I3S|L Chain L, Crystal Structure Of The Outer Domain Of Hiv-1 Gp120 In
Complex With Vrc-pg04 Space Group P21
Length = 208
Score = 30.4 bits (67), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 12/58 (20%)
Query: 2 GMMSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
G M+WYQ P + DR G ++TLTI ++ DF Y C
Sbjct: 29 GHMTWYQKKPGQPPKLLIFATSKRASGIPDRFSGSQFGKQYTLTITRMEPEDFARYYC 86
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 14/48 (29%), Positives = 22/48 (45%), Gaps = 5/48 (10%)
Query: 54 GRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
G+ K + + S + DR G ++TLTI ++ DF Y C
Sbjct: 39 GQPPKLLIFATSKRASGIPDRFSGSQFGKQYTLTITRMEPEDFARYYC 86
>pdb|3A6B|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Ln32d Complexed
With White Lysozyme
Length = 107
Score = 30.4 bits (67), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 3/87 (3%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST--DFGNYSCVADNNLGRAKKYMELSVS-VSDRRLMET 74
S L T GN +L+ + QS D Y + + KY S+S + R
Sbjct: 7 SPATLSVTPGNSVSLSCRASQSIGNDLHWYQQKSHESPRLLIKYASQSISGIPSRFSGSG 66
Query: 75 RGNKHTLTIKNVQSTDFGNYSCVADNN 101
G TL+I +V++ DFG Y C N+
Sbjct: 67 SGTDFTLSINSVETEDFGMYFCQQSNS 93
>pdb|2QSC|L Chain L, Crystal Structure Analysis Of Anti-Hiv-1 V3-Fab F425-B4e8
In Complex With A V3-Peptide
Length = 215
Score = 30.4 bits (67), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 37/91 (40%), Gaps = 7/91 (7%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLM 72
S L + G++ T+T + Q D NY + G+A K + L V R
Sbjct: 7 SPSSLSASVGDRVTITCQASQ--DISNYLNWYQHKPGKAPKLLIYTASNLETGVPSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 103
G + TI ++Q D Y C +NLG
Sbjct: 65 GGSGTHFSFTITSLQPEDAATYFCQQYDNLG 95
>pdb|2ZUQ|B Chain B, Crystal Structure Of Dsbb-Fab Complex
pdb|2ZUQ|E Chain E, Crystal Structure Of Dsbb-Fab Complex
pdb|2LTQ|B Chain B, High Resolution Structure Of Dsbb C41s By Joint
Calculation With Solid-state Nmr And X-ray Data
pdb|2LTQ|E Chain E, High Resolution Structure Of Dsbb C41s By Joint
Calculation With Solid-state Nmr And X-ray Data
Length = 239
Score = 30.4 bits (67), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 38/96 (39%), Gaps = 9/96 (9%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----V 66
S S L + G K T++ K+ QS NY G++ K + S V
Sbjct: 25 SQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRESGV 84
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
DR G TLTI +VQ+ D Y C NL
Sbjct: 85 PDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNL 120
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 59 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSY 118
Query: 52 NL 53
NL
Sbjct: 119 NL 120
>pdb|3DUS|A Chain A, Crystal Structure Of Sag506-01, Orthorhombic, Twinned,
Crystal 1
pdb|3DUS|C Chain C, Crystal Structure Of Sag506-01, Orthorhombic, Twinned,
Crystal 1
pdb|3DUU|A Chain A, Crystal Structure Of Sag506-01, Orthorhombic, Twinned,
Crystal 2
pdb|3DUU|C Chain C, Crystal Structure Of Sag506-01, Orthorhombic, Twinned,
Crystal 2
pdb|3DV4|A Chain A, Crystal Structure Of Sag506-01, Tetragonal, Crystal 1
pdb|3DV6|A Chain A, Crystal Structure Of Sag506-01, Tetragonal, Crystal 2
Length = 112
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 24/62 (38%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G TLTI VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTINGVQAEDLAVYYCKQSY 98
Query: 52 NL 53
NL
Sbjct: 99 NL 100
Score = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 37/94 (39%), Gaps = 9/94 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L + G + T++ K+ QS + NY G++ K + S V D
Sbjct: 7 SPSSLAVSAGERVTMSCKSSQSLFKSRNQKNYLAWYQQKPGQSPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G TLTI VQ+ D Y C NL
Sbjct: 67 RFTGSGSGTDFTLTINGVQAEDLAVYYCKQSYNL 100
>pdb|1X44|A Chain A, Solution Structure Of The Third Ig-Like Domain Of
Myosin- Dinding Protein C, Slow-Type
Length = 103
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 24/59 (40%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 62
+ W+++ I P R + G KH L I+ D YS + AK ++L
Sbjct: 38 VKWFKNGEEIIPGPKSRYRIRVEGKKHILIIEGATKADAAEYSVMTTGGQSSAKLSVDL 96
>pdb|2VH5|L Chain L, Crystal Structure Of Hras(G12v) - Anti-Ras Fv (Disulfide
Free Mutant) Complex
Length = 104
Score = 30.4 bits (67), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 34/82 (41%), Gaps = 7/82 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSV-----SDRRLM 72
S L + G++ T+T++ QS +Y G A K + S SV R
Sbjct: 6 SPSSLSASVGDRVTITVRASQS--ISSYLNWYQQKPGEAPKLLIYSASVLQSGVPSRFSG 63
Query: 73 ETRGNKHTLTIKNVQSTDFGNY 94
G TLTI ++Q DF Y
Sbjct: 64 SGSGTDFTLTISSLQPEDFATY 85
>pdb|2NYY|C Chain C, Crystal Structure Of Botulinum Neurotoxin Type A
Complexed With Monoclonal Antibody Cr1
pdb|2NZ9|C Chain C, Crystal Structure Of Botulinum Neurotoxin Type A
Complexed With Monoclonal Antibody Ar2
pdb|2NZ9|E Chain E, Crystal Structure Of Botulinum Neurotoxin Type A
Complexed With Monoclonal Antibody Ar2
Length = 218
Score = 30.4 bits (67), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 24/63 (38%), Gaps = 12/63 (19%)
Query: 3 MMSWYQDT------FLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 50
M WYQ LI EP + R G TLTI +++ DF Y C
Sbjct: 36 FMQWYQQKPGQAPRLLIYRASNLEPGIPARFSGSGSGTDFTLTISSLEPEDFAVYYCQQG 95
Query: 51 NNL 53
N +
Sbjct: 96 NEV 98
>pdb|3V6F|B Chain B, Crystal Structure Of An Anti-hbv E-antigen Monoclonal
Fab Fragment (e6), Unbound
pdb|3V6F|D Chain D, Crystal Structure Of An Anti-hbv E-antigen Monoclonal
Fab Fragment (e6), Unbound
pdb|3V6F|F Chain F, Crystal Structure Of An Anti-hbv E-antigen Monoclonal
Fab Fragment (e6), Unbound
pdb|3V6F|L Chain L, Crystal Structure Of An Anti-hbv E-antigen Monoclonal
Fab Fragment (e6), Unbound
pdb|3V6Z|B Chain B, Crystal Structure Of Hepatitis B Virus E-antigen
pdb|3V6Z|D Chain D, Crystal Structure Of Hepatitis B Virus E-antigen
Length = 219
Score = 30.0 bits (66), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 35/88 (39%), Gaps = 9/88 (10%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFG----NYSCVADNNLGRAKKYMELSVS-----VSD 68
S L + G K T+ K+ QS + NY G++ K + S V D
Sbjct: 7 SPSSLAVSAGEKVTMNCKSSQSVLYSSNQKNYLAWYQQKPGQSPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI +VQ+ D Y C
Sbjct: 67 RFTGSGSGTDFTLTISSVQTEDLAVYYC 94
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 23/56 (41%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQTEDLAVYYC 94
>pdb|1FVC|A Chain A, X-Ray Structures Of The Antigen-Binding Domains From
Three Variants Of Humanized Anti-P185-Her2 Antibody 4d5
And Comparison With Molecular Modeling
pdb|1FVC|C Chain C, X-Ray Structures Of The Antigen-Binding Domains From
Three Variants Of Humanized Anti-P185-Her2 Antibody 4d5
And Comparison With Molecular Modeling
Length = 109
Score = 30.0 bits (66), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 36/89 (40%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T + Q D G+A K + S S V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQ--DVNTAVAWYQQKPGKAPKLLIYSASFLYSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 60 SRFSGSRSGTDFTLTISSLQPEDFATYYC 88
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 7 YQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
Y +FL V R G TLTI ++Q DF Y C
Sbjct: 49 YSASFLYS-GVPSRFSGSRSGTDFTLTISSLQPEDFATYYC 88
>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 = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 7/65 (10%)
Query: 39 STDFGNYSCVA--DNNLGRAKKYMELSV-----SVSDRRLMETRGNKHTLTIKNVQSTDF 91
S+D G Y+ V+ + G+A K + V V DR GN +LT+ +Q+ D
Sbjct: 26 SSDVGGYNYVSWYQQHAGKAPKVIIYEVNKRPSGVPDRFSGSKSGNTASLTVSGLQAEDE 85
Query: 92 GNYSC 96
+Y C
Sbjct: 86 ADYYC 90
>pdb|3MLR|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ny5 V3 Peptide
pdb|3MLS|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Mab 2557 Fab In Complex
With A Hiv- 1 Gp120 V3 Mimotope
pdb|3MLS|M Chain M, Crystal Structure Of Anti-Hiv-1 V3 Mab 2557 Fab In Complex
With A Hiv- 1 Gp120 V3 Mimotope
pdb|3MLS|N Chain N, Crystal Structure Of Anti-Hiv-1 V3 Mab 2557 Fab In Complex
With A Hiv- 1 Gp120 V3 Mimotope
pdb|3MLS|O Chain O, Crystal Structure Of Anti-Hiv-1 V3 Mab 2557 Fab In Complex
With A Hiv- 1 Gp120 V3 Mimotope
pdb|3MLT|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ug1033 V3 Peptide
pdb|3MLT|A Chain A, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ug1033 V3 Peptide
pdb|3MLT|D Chain D, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ug1033 V3 Peptide
pdb|3MLT|G Chain G, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ug1033 V3 Peptide
Length = 219
Score = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 33/74 (44%), Gaps = 4/74 (5%)
Query: 7 YQDTFLIEPSVSDRRLMETR-GNKHTLTIKNVQSTDFGNYSCVA-DNNLGRAKKYMELSV 64
YQD PS RL ++ G TLTI QS D G+Y C A D + G + +L+V
Sbjct: 48 YQD--FKRPSGIPERLSGSKSGKTATLTISGTQSLDEGDYYCQAWDASTGVSGGGTKLTV 105
Query: 65 SVSDRRLMETRGNK 78
D + G
Sbjct: 106 LFGDGTRLTVLGQP 119
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 16/33 (48%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA 98
+ +R G TLTI QS D G+Y C A
Sbjct: 57 IPERLSGSKSGKTATLTISGTQSLDEGDYYCQA 89
>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 = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 7/65 (10%)
Query: 39 STDFGNYSCVA--DNNLGRAKKYMELSV-----SVSDRRLMETRGNKHTLTIKNVQSTDF 91
S+D G Y+ V+ + G+A K + V V DR GN +LT+ +Q+ D
Sbjct: 26 SSDVGGYNYVSWYQQHAGKAPKVIIYEVNKRPSGVPDRFSGSKSGNTASLTVSGLQAEDE 85
Query: 92 GNYSC 96
+Y C
Sbjct: 86 ADYYC 90
>pdb|2GCY|A Chain A, Humanized Antibody C25 Fab Fragment
Length = 216
Score = 30.0 bits (66), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 23/61 (37%), Gaps = 12/61 (19%)
Query: 3 MMSWYQDT------FLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 50
M WYQ LI EP + R G TLTI +++ DF Y C
Sbjct: 36 FMQWYQQKPGQAPRLLIYRASNLEPGIPARFSGSGSGTDFTLTISSLEPEDFAVYYCQQS 95
Query: 51 N 51
N
Sbjct: 96 N 96
>pdb|1MCO|L Chain L, Three-Dimensional Structure Of A Human Immunoglobulin
With A Hinge Deletion
Length = 216
Score = 30.0 bits (66), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 7/65 (10%)
Query: 39 STDFGNYSCVA--DNNLGRAKKYMELSV-----SVSDRRLMETRGNKHTLTIKNVQSTDF 91
S+D G Y+ V+ + G+A K + V V DR GN +LT+ +Q+ D
Sbjct: 26 SSDVGGYNYVSWYQQHAGKAPKVIIYEVNKRPSGVPDRFSGSKSGNTASLTVSGLQAEDE 85
Query: 92 GNYSC 96
+Y C
Sbjct: 86 ADYYC 90
>pdb|2X7L|L Chain L, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|B Chain B, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|D Chain D, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|K Chain K, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|F Chain F, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|I Chain I, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
Length = 217
Score = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 30/73 (41%), Gaps = 5/73 (6%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TIK S ++ G+ K + L+ V R + G ++TLTI
Sbjct: 18 TVTIKCQASQSISSWLSWYQQKPGQPPKLLIYDASNLASGVPSRFMGSGSGTEYTLTISG 77
Query: 86 VQSTDFGNYSCVA 98
VQ D Y C+
Sbjct: 78 VQREDAATYYCLG 90
Score = 28.9 bits (63), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 22/58 (37%), Gaps = 12/58 (20%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA 49
+SWYQ P V R + G ++TLTI VQ D Y C+
Sbjct: 33 LSWYQQKPGQPPKLLIYDASNLASGVPSRFMGSGSGTEYTLTISGVQREDAATYYCLG 90
>pdb|3S34|L Chain L, Structure Of The 1121b Fab Fragment
pdb|3S36|L Chain L, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
pdb|3S37|L Chain L, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
Length = 214
Score = 30.0 bits (66), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S + + G++ T+T + Q D N+ G+A K + L V
Sbjct: 2 IQMTQSPSSVSASIGDRVTITCRASQGID--NWLGWYQQKPGKAPKLLIYDASNLDTGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q+ DF Y C
Sbjct: 60 SRFSGSGSGTYFTLTISSLQAEDFAVYFC 88
Score = 25.4 bits (54), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+ WYQ D ++ V R G TLTI ++Q+ DF Y C
Sbjct: 33 LGWYQQKPGKAPKLLIYDASNLDTGVPSRFSGSGSGTYFTLTISSLQAEDFAVYFC 88
>pdb|1Q9O|A Chain A, S45-18 Fab Unliganded
pdb|1Q9O|C Chain C, S45-18 Fab Unliganded
pdb|1Q9W|A Chain A, S45-18 Fab Pentasaccharide Bisphosphate Complex
pdb|1Q9W|C Chain C, S45-18 Fab Pentasaccharide Bisphosphate Complex
Length = 219
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQFPKLLIYWAATRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSY 98
Query: 52 NL 53
NL
Sbjct: 99 NL 100
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 17/37 (45%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
V DR G TLTI +VQ+ D Y C NL
Sbjct: 64 VPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNL 100
>pdb|1GL4|B Chain B, Nidogen-1 G2PERLECAN IG3 COMPLEX
Length = 98
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 17/35 (48%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSV 66
LTI+NVQ +D G Y C N + L V V
Sbjct: 64 LTIRNVQPSDAGTYVCTGSNMFAMDQGTATLHVQV 98
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 81 LTIKNVQSTDFGNYSCVADN 100
LTI+NVQ +D G Y C N
Sbjct: 64 LTIRNVQPSDAGTYVCTGSN 83
>pdb|3HZK|A Chain A, Crystal Structure Of S73-2 Antibody In Complex With
Antigen Kdo(2.4)kdo
pdb|3HZM|A Chain A, Crystal Structure Of S73-2 Antibody In Complex With
Antigen Kdo
pdb|3HZV|A Chain A, Crystal Structure Of S73-2 Antibody In Complex With
Antigen Kdo(2.8) Kdo(2.4)kdo
Length = 219
Score = 30.0 bits (66), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSY 98
Query: 52 NL 53
NL
Sbjct: 99 NL 100
Score = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 37/94 (39%), Gaps = 9/94 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L + G K T++ K+ QS NY G++ K + S V D
Sbjct: 7 SPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G TLTI +VQ+ D Y C NL
Sbjct: 67 RFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNL 100
>pdb|1BIH|A Chain A, Crystal Structure Of The Insect Immune Protein Hemolin: A
New Domain Arrangement With Implications For Homophilic
Adhesion
pdb|1BIH|B Chain B, Crystal Structure Of The Insect Immune Protein Hemolin: A
New Domain Arrangement With Implications For Homophilic
Adhesion
Length = 395
Score = 30.0 bits (66), Expect = 0.37, Method: Composition-based stats.
Identities = 17/65 (26%), Positives = 33/65 (50%), Gaps = 1/65 (1%)
Query: 1 MGMMSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKY- 59
MG +++++ + + DR R + L K D G Y+C DN +G+ +K+
Sbjct: 241 MGYPNYFKNGKDVNGNPEDRITRHNRTSGKRLLFKTTLPEDEGVYTCEVDNGVGKPQKHS 300
Query: 60 MELSV 64
++L+V
Sbjct: 301 LKLTV 305
Score = 27.3 bits (59), Expect = 2.2, Method: Composition-based stats.
Identities = 13/41 (31%), Positives = 19/41 (46%)
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKY 108
DR R + L K D G Y+C DN +G+ +K+
Sbjct: 259 DRITRHNRTSGKRLLFKTTLPEDEGVYTCEVDNGVGKPQKH 299
>pdb|3HZY|A Chain A, Crystal Structure Of S73-2 Antibody In Complex With
Antigen Kdo(2.4)kdo(2.4)kdo
Length = 219
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSY 98
Query: 52 NL 53
NL
Sbjct: 99 NL 100
Score = 29.6 bits (65), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 37/94 (39%), Gaps = 9/94 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L + G K T++ K+ QS NY G++ K + S V D
Sbjct: 7 SPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G TLTI +VQ+ D Y C NL
Sbjct: 67 RFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNL 100
>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 = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 25/56 (44%), Gaps = 12/56 (21%)
Query: 4 MSWYQD-----------TFLIEPS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+SWYQ +I PS V DR GN +LTI +Q+ D +Y C
Sbjct: 35 VSWYQQHPGKAPKLIIHDVIIRPSGVPDRFSGSKSGNTASLTISGLQAEDEAHYYC 90
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 37/85 (43%), Gaps = 8/85 (9%)
Query: 19 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSV-----SVSDRRL 71
R + + G T++ S D G Y+ V+ + G+A K + V V DR
Sbjct: 7 PRSVSGSPGQSVTISCTGT-SRDVGGYNYVSWYQQHPGKAPKLIIHDVIIRPSGVPDRFS 65
Query: 72 METRGNKHTLTIKNVQSTDFGNYSC 96
GN +LTI +Q+ D +Y C
Sbjct: 66 GSKSGNTASLTISGLQAEDEAHYYC 90
>pdb|1N8Z|A Chain A, Crystal Structure Of Extracellular Domain Of Human Her2
Complexed With Herceptin Fab
Length = 214
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 36/89 (40%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T + Q D G+A K + S S V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQ--DVNTAVAWYQQKPGKAPKLLIYSASFLYSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 60 SRFSGSRSGTDFTLTISSLQPEDFATYYC 88
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 18/41 (43%), Gaps = 1/41 (2%)
Query: 7 YQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
Y +FL V R G TLTI ++Q DF Y C
Sbjct: 49 YSASFLYS-GVPSRFSGSRSGTDFTLTISSLQPEDFATYYC 88
>pdb|2I9L|A Chain A, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
pdb|2I9L|C Chain C, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
pdb|2I9L|E Chain E, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
pdb|2I9L|G Chain G, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
Length = 219
Score = 30.0 bits (66), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSY 98
Query: 52 NL 53
NL
Sbjct: 99 NL 100
Score = 28.9 bits (63), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 38/96 (39%), Gaps = 9/96 (9%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQ----STDFGNYSCVADNNLGRAKKYMELSVS-----V 66
S S L + G K +++ K+ Q S NY G++ K + S V
Sbjct: 5 SQSPSSLAVSAGEKVSMSCKSSQTLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRESGV 64
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
DR G TLTI +VQ+ D Y C NL
Sbjct: 65 PDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNL 100
>pdb|1TZI|A Chain A, Crystal Structure Of The Fab Yads2 Complexed With H-Vegf
Length = 214
Score = 29.6 bits (65), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 38/91 (41%), Gaps = 11/91 (12%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS----- 65
I+ + S L + G++ T+T + QS + VA G+A K + S
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQSYAYA----VAWYQQKPGKAPKLLIYDASYLYSG 57
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V R G TLTI ++Q DF Y C
Sbjct: 58 VPSRFSGSGSGTDFTLTISSLQPEDFATYYC 88
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 21/56 (37%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ D + V R G TLTI ++Q DF Y C
Sbjct: 33 VAWYQQKPGKAPKLLIYDASYLYSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|4AEH|L Chain L, Crystal Structure Of The Anti-Aahi Fab9c2 Antibody
Length = 214
Score = 29.6 bits (65), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
L+ V R G +++L I ++QS DFG+Y C
Sbjct: 54 LAAGVPSRFSGSGSGTQYSLKINSLQSEDFGSYYC 88
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 16/21 (76%)
Query: 27 GNKHTLTIKNVQSTDFGNYSC 47
G +++L I ++QS DFG+Y C
Sbjct: 68 GTQYSLKINSLQSEDFGSYYC 88
>pdb|3FZU|L Chain L, Igg1 Fab Characterized By HD EXCHANGE
pdb|3FZU|D Chain D, Igg1 Fab Characterized By HD EXCHANGE
Length = 214
Score = 29.6 bits (65), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 7/90 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + Q D Y G+A K + L V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQ--DIRYYLNWYQQKPGKAPKLLIYVASSLQSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
R G + TLT+ ++Q DF Y C+
Sbjct: 60 SRFSGSGSGTEFTLTVSSLQPEDFATYYCL 89
>pdb|3SDY|L Chain L, Crystal Structure Of Broadly Neutralizing Antibody
Cr8020 Bound To The Influenza A H3 Hemagglutinin
Length = 216
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 31/77 (40%), Gaps = 6/77 (7%)
Query: 25 TRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLMETRGNKH 79
+ G + TL+ + QS NY G+A + + S + DR G
Sbjct: 15 SPGERATLSCRASQSVSM-NYLAWFQQKPGQAPRLLIYGASRRATGIPDRISGSGSGTDF 73
Query: 80 TLTIKNVQSTDFGNYSC 96
TLTI ++ DF Y C
Sbjct: 74 TLTISRLEPADFAVYYC 90
>pdb|3ZTJ|H Chain H, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H3 Influenza Haemagglutinin.
pdb|3ZTJ|J Chain J, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H3 Influenza Haemagglutinin.
pdb|3ZTJ|L Chain L, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H3 Influenza Haemagglutinin.
pdb|3ZTN|L Chain L, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H1 Influenza Haemagglutinin
Length = 218
Score = 29.6 bits (65), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 34/86 (39%), Gaps = 7/86 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFG--NYSCVADNNLGRAKKYMELSVS-----VSDRR 70
S L + G + T+ K+ QS F NY G+ K + S V DR
Sbjct: 7 SPDSLAVSLGERATINCKSSQSVTFNYKNYLAWYQQKPGQPPKLLIYWASTRESGVPDRF 66
Query: 71 LMETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q+ D Y C
Sbjct: 67 SGSGSGTDFTLTISSLQAEDVAVYYC 92
>pdb|1FVD|A Chain A, X-Ray Structures Of The Antigen-Binding Domains From
Three Variants Of Humanized Anti-P185-Her2 Antibody 4d5
And Comparison With Molecular Modeling
pdb|1FVD|C Chain C, X-Ray Structures Of The Antigen-Binding Domains From
Three Variants Of Humanized Anti-P185-Her2 Antibody 4d5
And Comparison With Molecular Modeling
pdb|1FVE|A Chain A, X-Ray Structures Of The Antigen-Binding Domains From
Three Variants Of Humanized Anti-P185-Her2 Antibody 4d5
And Comparison With Molecular Modeling
pdb|1FVE|C Chain C, X-Ray Structures Of The Antigen-Binding Domains From
Three Variants Of Humanized Anti-P185-Her2 Antibody 4d5
And Comparison With Molecular Modeling
Length = 214
Score = 29.6 bits (65), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 33/84 (39%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLM 72
S L + G++ T+T + Q D G+A K + S S V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQ--DVNTAVAWYQQKPGKAPKLLIYSASFLESGVPSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q DF Y C
Sbjct: 65 SRSGTDFTLTISSLQPEDFATYYC 88
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 19/41 (46%), Gaps = 1/41 (2%)
Query: 7 YQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
Y +FL E V R G TLTI ++Q DF Y C
Sbjct: 49 YSASFL-ESGVPSRFSGSRSGTDFTLTISSLQPEDFATYYC 88
>pdb|1Q9K|A Chain A, S25-2 Fab Unliganded 1
pdb|1Q9L|A Chain A, S25-2 Fab Unliganded 2
pdb|1Q9L|C Chain C, S25-2 Fab Unliganded 2
pdb|2R1W|A Chain A, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R1X|A Chain A, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R1Y|A Chain A, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R23|A Chain A, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R2B|A Chain A, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R2E|A Chain A, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R2H|A Chain A, Structure Of S25-2 In Complex With Ko
pdb|3BPC|A Chain A, Co-Crystal Structure Of S25-2 Fab In Complex With
5-Deoxy-4- Epi-2,3-Dehydro Kdo (4.8) Kdo
pdb|3SY0|A Chain A, S25-2- A(2-8)-A(2-4)kdo Trisaccharide Complex
pdb|3T4Y|A Chain A, S25-2- Kdo Monosaccharide Complex
pdb|3T65|A Chain A, S25-2- A(2-8)kdo Disaccharide Complex
pdb|3T77|A Chain A, S25-2- A(2-4)kdo Disaccharide Complex
pdb|4HGW|A Chain A, Crystal Structure Of S25-2 In Complex With A
5,6-dehydro-kdo Disaccharide
Length = 219
Score = 29.6 bits (65), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 29/96 (30%), Positives = 38/96 (39%), Gaps = 9/96 (9%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----V 66
S S L + G K T++ K+ QS NY G++ K + S V
Sbjct: 5 SQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRESGV 64
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
DR G TLTI +VQ+ D Y C NL
Sbjct: 65 PDRFTGSGSGTDFTLTITSVQAEDLAVYYCKQSYNL 100
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTITSVQAEDLAVYYCKQSY 98
Query: 52 NL 53
NL
Sbjct: 99 NL 100
>pdb|3BQU|C Chain C, Crystal Structure Of The 2f5 Fab'-3h6 Fab Complex
Length = 233
Score = 29.6 bits (65), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
M+WYQ D + P V R G TI+N+ S D +Y C+ +
Sbjct: 55 MNWYQQKPGEPPRLLISDGNTLRPGVPSRFSSSGYGTDFVFTIENMLSEDVADYYCLQSD 114
Query: 52 NL 53
NL
Sbjct: 115 NL 116
>pdb|3BD3|A Chain A, Crystal Structure Of Single Domain Vl Of An Anti-Dna
Binding Antibody 3d8 Scfv And Its Active Site Revealed
By Complex Structures Of A Small Molecule And Metals
pdb|3BD3|B Chain B, Crystal Structure Of Single Domain Vl Of An Anti-Dna
Binding Antibody 3d8 Scfv And Its Active Site Revealed
By Complex Structures Of A Small Molecule And Metals
pdb|3BD4|A Chain A, Crystal Structure Of Single Domain Vl Of An Anti-Dna
Binding Antibody 3d8 Scfv And Its Active Site Revealed
By Complex Structures Of A Small Molecule And Metals
pdb|3BD4|B Chain B, Crystal Structure Of Single Domain Vl Of An Anti-Dna
Binding Antibody 3d8 Scfv And Its Active Site Revealed
By Complex Structures Of A Small Molecule And Metals
pdb|3BD5|A Chain A, Crystal Structure Of Single Domain Vl Of An Anti-Dna
Binding Antibody 3d8 Scfv And Its Active Site Revealed
By Complex Structures Of A Small Molecule And Metals
pdb|3BD5|B Chain B, Crystal Structure Of Single Domain Vl Of An Anti-Dna
Binding Antibody 3d8 Scfv And Its Active Site Revealed
By Complex Structures Of A Small Molecule And Metals
Length = 112
Score = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 36/90 (40%), Gaps = 9/90 (10%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----V 66
S S L + G K T++ K+ QS NY G++ K + S V
Sbjct: 4 SQSPSSLAVSAGEKVTMSCKSSQSLFNSRTRKNYLAWYQQKPGQSPKLLIYWASTRESGV 63
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
DR G TLTI +VQ+ D Y C
Sbjct: 64 PDRFTGSGSGTDFTLTISSVQAEDLAVYYC 93
Score = 28.9 bits (63), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 23/56 (41%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 38 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYC 93
>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 = 29.6 bits (65), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 36/90 (40%), Gaps = 9/90 (10%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----V 66
S S L + G K T++ K+ QS NY G++ K + S V
Sbjct: 163 SQSPSSLAVSAGEKVTMSCKSSQSLFNSRTRKNYLAWYQQKPGQSPKLLIYWASTRESGV 222
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
DR G TLTI +VQ+ D Y C
Sbjct: 223 PDRFTGSGSGTDFTLTISSVQAEDLAVYYC 252
Score = 28.9 bits (63), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 23/56 (41%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 197 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYC 252
>pdb|2JB5|L Chain L, Fab Fragment In Complex With Small Molecule Hapten,
Crystal Form-1
pdb|2JB6|A Chain A, Fab Fragment In Complex With Small Molecule Hapten,
Crystal Form-2
pdb|2JB6|L Chain L, Fab Fragment In Complex With Small Molecule Hapten,
Crystal Form-2
Length = 216
Score = 29.6 bits (65), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 25/72 (34%), Positives = 35/72 (48%), Gaps = 8/72 (11%)
Query: 39 STDFG--NYSCVADNNLGRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDF 91
S+D G NY + G+A K M S VS+R GN +LTI +Q+ D
Sbjct: 26 SSDVGSNNYVSWYQQHPGKAPKLMIYGGSNRPSGVSNRFSGSKSGNTASLTISGLQAEDE 85
Query: 92 GNYSCVA-DNNL 102
+Y C + D+NL
Sbjct: 86 ADYYCRSWDSNL 97
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 28/63 (44%), Gaps = 13/63 (20%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA-D 50
+SWYQ P VS+R GN +LTI +Q+ D +Y C + D
Sbjct: 35 VSWYQQHPGKAPKLMIYGGSNRPSGVSNRFSGSKSGNTASLTISGLQAEDEADYYCRSWD 94
Query: 51 NNL 53
+NL
Sbjct: 95 SNL 97
>pdb|3MLV|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With An Nof V3 Peptide
pdb|3MLV|M Chain M, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With An Nof V3 Peptide
Length = 219
Score = 29.6 bits (65), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 30/60 (50%), Gaps = 4/60 (6%)
Query: 7 YQDTFLIEPSVSDRRLMETR-GNKHTLTIKNVQSTDFGNYSCVA-DNNLGRAKKYMELSV 64
YQD PS RL ++ G TLTI QS D G+Y C A D + G + +L+V
Sbjct: 48 YQD--FKRPSGIPERLSGSKSGKTATLTISGTQSLDEGDYYCQAWDASTGVSGGGTKLTV 105
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 16/33 (48%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA 98
+ +R G TLTI QS D G+Y C A
Sbjct: 57 IPERLSGSKSGKTATLTISGTQSLDEGDYYCQA 89
>pdb|3MLU|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Zam18 V3 Peptide
Length = 218
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 30/60 (50%), Gaps = 4/60 (6%)
Query: 7 YQDTFLIEPSVSDRRLMETR-GNKHTLTIKNVQSTDFGNYSCVA-DNNLGRAKKYMELSV 64
YQD PS RL ++ G TLTI QS D G+Y C A D + G + +L+V
Sbjct: 47 YQD--FKRPSGIPERLSGSKSGKTATLTISGTQSLDEGDYYCQAWDASTGVSGGGTKLTV 104
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 16/33 (48%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA 98
+ +R G TLTI QS D G+Y C A
Sbjct: 56 IPERLSGSKSGKTATLTISGTQSLDEGDYYCQA 88
>pdb|1MCP|L Chain L, Phosphocholine Binding Immunoglobulin Fab McPC603. AN
X-Ray Diffraction Study At 2.7 Angstroms
pdb|2MCP|L Chain L, Refined Crystal Structure Of The Mc/pc603
Fab-phosphocholine Complex At 3.1 Angstroms Resolution
Length = 220
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 26/62 (41%), Gaps = 12/62 (19%)
Query: 3 MMSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 50
++WYQ LI E V DR G TLTI +VQ+ D Y C D
Sbjct: 38 FLAWYQQKPGQPPKLLIYGASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQND 97
Query: 51 NN 52
++
Sbjct: 98 HS 99
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 18/36 (50%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
V DR G TLTI +VQ+ D Y C D++
Sbjct: 64 VPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQNDHS 99
>pdb|1UJ3|A Chain A, Crystal Structure Of A Humanized Fab Fragment Of Anti-
Tissue-Factor Antibody In Complex With Tissue Factor
Length = 215
Score = 29.6 bits (65), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 39/90 (43%), Gaps = 7/90 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T K Q D ++ +A K + L+ V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCKASQ--DIKSFLSWYQQKPEKAPKSLIYYATSLADGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
R G +TLTI ++Q DF Y C+
Sbjct: 60 SRFSGSGSGTDYTLTISSLQPEDFATYYCL 89
>pdb|3JWO|L Chain L, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
Length = 209
Score = 29.6 bits (65), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 23/95 (24%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S + + G++ T+T + Q D + G+A K + + S V
Sbjct: 2 IQMTQSPSSVSASVGDRVTITCRASQ--DISTWLAWYQQKPGKAPKLLIYAASTLQSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G +LTI ++Q DF Y C N+
Sbjct: 60 SRFSGSGSGTDFSLTINSLQPEDFATYYCQQANSF 94
>pdb|1G9M|L Chain L, Hiv-1 Hxbc2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1G9N|L Chain L, Hiv-1 Yu2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
Length = 214
Score = 29.3 bits (64), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 46/110 (41%), Gaps = 11/110 (10%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQS--TDFGNYSCVADNNLGRAKKYMELSVS----- 65
+E + S L + G + TL+ + +S +D Y G+A + + S
Sbjct: 2 LELTQSPATLSVSPGERATLSCRASESVSSDLAWY----QQKPGQAPRLLIYGASTRATG 57
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
V R G + TLTI ++QS DF Y C NN + + + LE
Sbjct: 58 VPARFSGSGSGAEFTLTISSLQSEDFAVYYCQQYNNWPPRYTFGQGTRLE 107
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 20/65 (30%)
Query: 4 MSWYQDTFLIEPSVSDRRLM---ETR-------------GNKHTLTIKNVQSTDFGNYSC 47
++WYQ +P + R L+ TR G + TLTI ++QS DF Y C
Sbjct: 33 LAWYQQ----KPGQAPRLLIYGASTRATGVPARFSGSGSGAEFTLTISSLQSEDFAVYYC 88
Query: 48 VADNN 52
NN
Sbjct: 89 QQYNN 93
>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 = 29.3 bits (64), Expect = 0.51, Method: Composition-based stats.
Identities = 15/42 (35%), Positives = 25/42 (59%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRRLME 73
LTI+ V+++ GN++C A N G + L+V V R ++E
Sbjct: 679 LTIEAVEASHAGNFTCHARNLAGHQQFTTPLNVYVPPRWILE 720
Score = 26.9 bits (58), Expect = 3.0, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 6/52 (11%)
Query: 6 WY---QDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 54
WY + T + V + R+ + G TL IK+ D G Y CV +N++G
Sbjct: 282 WYKFIEGTTRKQAVVLNDRVKQVSG---TLIIKDAVVEDSGKYLCVVNNSVG 330
Score = 26.6 bits (57), Expect = 3.9, Method: Composition-based stats.
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 26 RGNKHTLTIKNVQSTDFGNYSCVADNNLG 54
R + TL + N+Q T+ G Y C A N +G
Sbjct: 769 RVEEGTLHVDNIQKTNEGYYLCEAINGIG 797
Score = 26.2 bits (56), Expect = 4.6, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLG 103
TL IK+ D G Y CV +N++G
Sbjct: 307 TLIIKDAVVEDSGKYLCVVNNSVG 330
>pdb|1RZ7|L Chain L, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 48d
pdb|4DVR|L Chain L, Crystal Structure Of Yu2 Gp120 Core In Complex With Fab
48d And Nbd- 557
Length = 212
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 23/95 (24%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S + + G++ T+T + Q D + G+A K + + S V
Sbjct: 2 IQMTQSPSSVSASVGDRVTITCRASQ--DISTWLAWYQQKPGKAPKLLIYAASTLQSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G +LTI ++Q DF Y C N+
Sbjct: 60 SRFSGSGSGTDFSLTINSLQPEDFATYYCQQANSF 94
>pdb|3JWD|L Chain L, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
pdb|3JWD|O Chain O, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
Length = 213
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 23/95 (24%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S + + G++ T+T + Q D + G+A K + + S V
Sbjct: 2 IQMTQSPSSVSASVGDRVTITCRASQ--DISTWLAWYQQKPGKAPKLLIYAASTLQSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G +LTI ++Q DF Y C N+
Sbjct: 60 SRFSGSGSGTDFSLTINSLQPEDFATYYCQQANSF 94
>pdb|3HC3|L Chain L, Bha10 Igg1 Fab Double Mutant Variant - Antibody Directed
At Human Ltbr
pdb|3HC4|L Chain L, Bha10 Igg1 Fab Quadruple Mutant Variant - Antibody
Directed At Human Ltbr
Length = 213
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 37/89 (41%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T K Q + G G+A K + S S V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCKASQ--NVGINVAWYQQKPGKAPKLLISSASYRYSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYFC 88
>pdb|3UAJ|L Chain L, Crystal Structure Of The Envelope Glycoprotein
Ectodomain From Dengue Virus Serotype 4 In Complex With
The Fab Fragment Of The Chimpanzee Monoclonal Antibody
5h2
pdb|3UAJ|D Chain D, Crystal Structure Of The Envelope Glycoprotein
Ectodomain From Dengue Virus Serotype 4 In Complex With
The Fab Fragment Of The Chimpanzee Monoclonal Antibody
5h2
pdb|3UC0|L Chain L, Crystal Structure Of Domain I Of The Envelope
Glycoprotein Ectodomain From Dengue Virus Serotype 4 In
Complex With The Fab Fragment Of The Chimpanzee
Monoclonal Antibody 5h2
pdb|3UC0|M Chain M, Crystal Structure Of Domain I Of The Envelope
Glycoprotein Ectodomain From Dengue Virus Serotype 4 In
Complex With The Fab Fragment Of The Chimpanzee
Monoclonal Antibody 5h2
Length = 215
Score = 29.3 bits (64), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ D +E V R G TLTI ++Q DF Y C
Sbjct: 34 LNWYQQKPGKAPKLLIYDASTLESGVPSRFSGSGSGTDFTLTISSLQPEDFATYYC 89
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 20/48 (41%), Gaps = 5/48 (10%)
Query: 54 GRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
G+A K + L V R G TLTI ++Q DF Y C
Sbjct: 42 GKAPKLLIYDASTLESGVPSRFSGSGSGTDFTLTISSLQPEDFATYYC 89
>pdb|1KIR|A Chain A, Fv Mutant Y(A 50)s (Vl Domain) Of Mouse Monoclonal
Antibody D1.3 Complexed With Hen Egg White Lysozyme
Length = 107
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + S + V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYSTTTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPEDFGSYYC 88
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYSTTTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYC 88
>pdb|1GC1|L Chain L, Hiv-1 Gp120 Core Complexed With Cd4 And A Neutralizing
Human Antibody
Length = 213
Score = 29.3 bits (64), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 29/110 (26%), Positives = 46/110 (41%), Gaps = 11/110 (10%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQS--TDFGNYSCVADNNLGRAKKYMELSVS----- 65
+E + S L + G + TL+ + +S +D Y G+A + + S
Sbjct: 2 LELTQSPATLSVSPGERATLSCRASESVSSDLAWY----QQKPGQAPRLLIYGASTRATG 57
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
V R G + TLTI ++QS DF Y C NN + + + LE
Sbjct: 58 VPARFSGSGSGAEFTLTISSLQSEDFAVYYCQQYNNWPPRYTFGQGTRLE 107
Score = 29.3 bits (64), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 20/65 (30%)
Query: 4 MSWYQDTFLIEPSVSDRRLM---ETR-------------GNKHTLTIKNVQSTDFGNYSC 47
++WYQ +P + R L+ TR G + TLTI ++QS DF Y C
Sbjct: 33 LAWYQQ----KPGQAPRLLIYGASTRATGVPARFSGSGSGAEFTLTISSLQSEDFAVYYC 88
Query: 48 VADNN 52
NN
Sbjct: 89 QQYNN 93
>pdb|1RZ8|A Chain A, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 17b
pdb|1RZ8|C Chain C, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 17b
pdb|1RZJ|L Chain L, Hiv-1 Hxbc2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1RZK|L Chain L, Hiv-1 Yu2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1YYL|L Chain L, Crystal Structure Of Cd4m33, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|1YYL|Q Chain Q, Crystal Structure Of Cd4m33, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|1YYM|L Chain L, Crystal Structure Of F23, A Scorpion-Toxin Mimic Of Cd4,
In Complex With Hiv-1 Yu2 Gp120 Envelope Glycoprotein
And Anti-Hiv-1 Antibody 17b
pdb|1YYM|Q Chain Q, Crystal Structure Of F23, A Scorpion-Toxin Mimic Of Cd4,
In Complex With Hiv-1 Yu2 Gp120 Envelope Glycoprotein
And Anti-Hiv-1 Antibody 17b
pdb|2I5Y|L Chain L, Crystal Structure Of Cd4m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I5Y|Q Chain Q, Crystal Structure Of Cd4m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I60|L Chain L, Crystal Structure Of [phe23]m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I60|Q Chain Q, Crystal Structure Of [phe23]m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2NXY|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein(S334a) Complexed With
Cd4 And Antibody 17b
pdb|2NXZ|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (t257s, S334a, S375w)
Complexed With Cd4 And Antibody 17b
pdb|2NY0|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (M95w, W96c, T257s,
V275c, S334a, S375w, A433m) Complexed With Cd4 And
Antibody 17b
pdb|2NY1|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (I109c, T257s, S334a,
S375w, Q428c) Complexed With Cd4 And Antibody 17b
pdb|2NY2|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (T123c, T257s, S334a,
S375w, G431c) Complexed With Cd4 And Antibody 17b
pdb|2NY3|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (K231c, T257s, E267c,
S334a, S375w) Complexed With Cd4 And Antibody 17b
pdb|2NY4|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (K231c, T257s, E268c,
S334a, S375w) Complexed With Cd4 And Antibody 17b
pdb|2NY5|L Chain L, Hiv-1 Gp120 Envelope Glycoprotein (m95w, W96c, I109c,
T257s, V275c, S334a, S375w, Q428c, A433m) Complexed With
Cd4 And Antibody 17b
pdb|2NY6|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (m95w, W96c, I109c,
T123c, T257s, V275c,s334a, S375w, Q428c, G431c)
Complexed With Cd4 And Antibody 17b
Length = 214
Score = 29.3 bits (64), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 43/105 (40%), Gaps = 11/105 (10%)
Query: 18 SDRRLMETRGNKHTLTIKNVQS--TDFGNYSCVADNNLGRAKKYMELSVS-----VSDRR 70
S L + G + TL+ + +S +D Y G+A + + S V R
Sbjct: 7 SPATLSVSPGERATLSCRASESVSSDLAWY----QQKPGQAPRLLIYGASTRATGVPARF 62
Query: 71 LMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
G + TLTI ++QS DF Y C NN + + + LE
Sbjct: 63 SGSGSGAEFTLTISSLQSEDFAVYYCQQYNNWPPRYTFGQGTRLE 107
Score = 29.3 bits (64), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 29/65 (44%), Gaps = 20/65 (30%)
Query: 4 MSWYQDTFLIEPSVSDRRLM---ETR-------------GNKHTLTIKNVQSTDFGNYSC 47
++WYQ +P + R L+ TR G + TLTI ++QS DF Y C
Sbjct: 33 LAWYQQ----KPGQAPRLLIYGASTRATGVPARFSGSGSGAEFTLTISSLQSEDFAVYYC 88
Query: 48 VADNN 52
NN
Sbjct: 89 QQYNN 93
>pdb|3G6D|L Chain L, Crystal Structure Of The Complex Between Cnto607 Fab And
Il-13
pdb|3G6A|L Chain L, Crystal Structure Of Anti-Il-13 Antibody Cnto607
pdb|3G6A|A Chain A, Crystal Structure Of Anti-Il-13 Antibody Cnto607
Length = 213
Score = 29.3 bits (64), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 28/103 (27%), Positives = 37/103 (35%), Gaps = 24/103 (23%)
Query: 3 MMSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC--- 47
+SWYQ P + +R GN TLTI Q+ D +Y C
Sbjct: 31 FVSWYQQKPGQAPVLVIYDDNDRPSGIPERFSGSNSGNTATLTISGTQAEDEADYYCGTW 90
Query: 48 --VADNNLGRAKKYMEL-------SVSVSDRRLMETRGNKHTL 81
V +N G K L SV++ E + NK TL
Sbjct: 91 DMVTNNVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKATL 133
>pdb|4D9R|L Chain L, Inhibiting Alternative Pathway Complement Activation By
Targeting The Exosite On Factor D
pdb|4D9R|D Chain D, Inhibiting Alternative Pathway Complement Activation By
Targeting The Exosite On Factor D
Length = 214
Score = 29.3 bits (64), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLIE------PSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
M+WYQ LI P V R G TLTI ++Q D Y C+ +
Sbjct: 33 MNWYQQKPGKVPKLLISGGNTLRPGVPSRFSGSGSGTDFTLTISSLQPEDVATYYCLQSD 92
Query: 52 NL 53
+L
Sbjct: 93 SL 94
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + STD + G+ K + L V
Sbjct: 2 IQVTQSPSSLSASVGDRVTITC--ITSTDIDDDMNWYQQKPGKVPKLLISGGNTLRPGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G TLTI ++Q D Y C+ ++L
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDVATYYCLQSDSL 94
>pdb|2VXV|L Chain L, Crystal Structure Of Human Igg Abt-325 Fab Fragment
Length = 214
Score = 29.3 bits (64), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNN 52
G + TLTI ++QS DF Y C NN
Sbjct: 68 GTEFTLTISSLQSEDFAVYYCQQYNN 93
Score = 29.3 bits (64), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 13/26 (50%), Positives = 16/26 (61%)
Query: 76 GNKHTLTIKNVQSTDFGNYSCVADNN 101
G + TLTI ++QS DF Y C NN
Sbjct: 68 GTEFTLTISSLQSEDFAVYYCQQYNN 93
>pdb|4HWB|L Chain L, Crystal Structure Of Ectodomain 3 Of The Il-13 Receptor
Alpha 1 In Complex With A Human Neutralizing Monoclonal
Antibody Fragment
Length = 212
Score = 29.3 bits (64), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 34/88 (38%), Gaps = 6/88 (6%)
Query: 25 TRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLMETRGNKH 79
+ G + TL+ + QS +Y G+A + + S + DR G
Sbjct: 14 SPGERATLSCRASQSIS-SSYLAWYQQKPGQAPRLLIYGASSRATGIPDRFSGSGSGTDF 72
Query: 80 TLTIKNVQSTDFGNYSCVADNNLGRAKK 107
TLTI ++ DF Y C G+ K
Sbjct: 73 TLTISRLEPEDFAVYYCQQYETFGQGTK 100
>pdb|4D9Q|D Chain D, Inhibiting Alternative Pathway Complement Activation By
Targeting The Exosite On Factor D
pdb|4D9Q|L Chain L, Inhibiting Alternative Pathway Complement Activation By
Targeting The Exosite On Factor D
Length = 213
Score = 29.3 bits (64), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLIE------PSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
M+WYQ LI P V R G TLTI ++Q D Y C+ +
Sbjct: 33 MNWYQQKPGKVPKLLISGGNTLRPGVPSRFSGSGSGTDFTLTISSLQPEDVATYYCLQSD 92
Query: 52 NL 53
+L
Sbjct: 93 SL 94
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + STD + G+ K + L V
Sbjct: 2 IQVTQSPSSLSASVGDRVTITC--ITSTDIDDDMNWYQQKPGKVPKLLISGGNTLRPGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G TLTI ++Q D Y C+ ++L
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDVATYYCLQSDSL 94
>pdb|4HWE|L Chain L, Crystal Structure Of Ectodomain 3 Of The Il-13 Receptor
Alpha1 In Complex With A Human Neutralizing Monoclonal
Antibody Fragment
Length = 211
Score = 29.3 bits (64), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 34/88 (38%), Gaps = 6/88 (6%)
Query: 25 TRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLMETRGNKH 79
+ G + TL+ + QS +Y G+A + + S + DR G
Sbjct: 14 SPGERATLSCRASQSIS-SSYLAWYQQKPGQAPRLLIYGASSRATGIPDRFSGSGSGTDF 72
Query: 80 TLTIKNVQSTDFGNYSCVADNNLGRAKK 107
TLTI ++ DF Y C G+ K
Sbjct: 73 TLTISRLEPEDFAVYYCQQYETFGQGTK 100
>pdb|1VFA|A Chain A, Bound Water Molecules And Conformational Stabilization
Help Mediate An Antigen-Antibody Association
pdb|1DVF|A Chain A, Idiotopic Antibody D1.3 Fv Fragment-Antiidiotopic
Antibody E5.2 Fv Fragment Complex
Length = 108
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPEDFGSYYC 88
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYC 88
>pdb|3OAY|K Chain K, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
pdb|3OAY|L Chain L, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
pdb|3OAZ|K Chain K, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
pdb|3OAZ|L Chain L, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
pdb|3OB0|L Chain L, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
pdb|3OB0|K Chain K, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
Length = 213
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 33/84 (39%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLM 72
S L + G+ T+T + QS + + G+A K + L V R
Sbjct: 7 SPSTLSASVGDTITITCRASQSIE--TWLAWYQQKPGKAPKLLIYKASTLKTGVPSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G + TLTI +Q DF Y C
Sbjct: 65 SGSGTEFTLTISGLQFDDFATYHC 88
>pdb|3EO9|L Chain L, Crystal Structure The Fab Fragment Of Efalizumab
pdb|3EOA|L Chain L, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form I
pdb|3EOA|A Chain A, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form I
pdb|3EOB|L Chain L, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form Ii
pdb|3EOB|A Chain A, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form Ii
Length = 214
Score = 29.3 bits (64), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 36/93 (38%), Gaps = 7/93 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + S Y G+A K + L V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRA--SKTISKYLAWYQQKPGKAPKLLIYSGSTLQSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 100
R G TLTI ++Q DF Y C N
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYCQQHN 92
>pdb|3A67|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Ln31d Complexed
With White Lysozyme
Length = 107
Score = 29.3 bits (64), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 58 KYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
KY S+S + R G TL+I +V++ DFG Y C N+
Sbjct: 49 KYASQSISGIPSRFSGSGSGTDFTLSINSVETEDFGMYFCQQSNS 93
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNN 52
G TL+I +V++ DFG Y C N+
Sbjct: 68 GTDFTLSINSVETEDFGMYFCQQSNS 93
>pdb|1OM3|L Chain L, Fab 2g12 Unliganded
pdb|1OM3|M Chain M, Fab 2g12 Unliganded
pdb|1OP3|L Chain L, Crystal Structure Of Fab 2g12 Bound To Man1->2man
pdb|1OP3|K Chain K, Crystal Structure Of Fab 2g12 Bound To Man1->2man
pdb|1OP5|L Chain L, Crystal Structure Of Fab 2g12 Bound To Man9glcnac2
pdb|1OP5|K Chain K, Crystal Structure Of Fab 2g12 Bound To Man9glcnac2
pdb|3OAU|L Chain L, Antibody 2g12 Recognizes Di-Mannose Equivalently In
Domain- And Non- Domain-Exchanged Forms, But Only Binds
The Hiv-1 Glycan Shield If Domain-Exchanged
Length = 212
Score = 29.3 bits (64), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 33/84 (39%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLM 72
S L + G+ T+T + QS + + G+A K + L V R
Sbjct: 6 SPSTLSASVGDTITITCRASQSIE--TWLAWYQQKPGKAPKLLIYKASTLKTGVPSRFSG 63
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G + TLTI +Q DF Y C
Sbjct: 64 SGSGTEFTLTISGLQFDDFATYHC 87
>pdb|1KIP|A Chain A, Fv Mutant Y(B 32)a (Vh Domain) Of Mouse Monoclonal
Antibody D1.3 Complexed With Hen Egg White Lysozyme
pdb|1KIQ|A Chain A, Fv Mutant Y(B 101)f (Vh Domain) Of Mouse Monoclonal
Antibody D1.3 Complexed With Hen Egg White Lysozyme
pdb|1A2Y|A Chain A, Hen Egg White Lysozyme, D18a Mutant, In Complex With
Mouse Monoclonal Antibody D1.3
pdb|1VFB|A Chain A, Bound Water Molecules And Conformational Stabilization
Help Mediate An Antigen-Antibody Association
Length = 107
Score = 29.3 bits (64), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPEDFGSYYC 88
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYC 88
>pdb|1C08|A Chain A, Crystal Structure Of Hyhel-10 Fv-Hen Lysozyme Complex
pdb|1IC4|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant(Hd32a)-Hen
Lysozyme Complex
pdb|1IC5|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant(Hd99a)-Hen
Lysozyme Complex
pdb|1IC7|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant(Hd32a99a)-Hen
Lysozyme Complex
pdb|1UA6|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Sfsf Complexed
With Hen Egg White Lysozyme Complex
pdb|1UAC|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Sfsf Complexed
With Turkey White Lysozyme
pdb|2DQC|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant(Hy33f) Complexed
With Hen Egg Lysozyme
pdb|2DQD|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant (Hy50f) Complexed
With Hen Egg Lysozyme
pdb|2DQE|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant (Hy53a) Complexed
With Hen Egg Lysozyme
pdb|2DQF|A Chain A, Crystal Structure Of Hyhel-10 Fv Mutant (Y33ay53a)
Complexed With Hen Egg Lysozyme
pdb|2DQF|D Chain D, Crystal Structure Of Hyhel-10 Fv Mutant (Y33ay53a)
Complexed With Hen Egg Lysozyme
pdb|2DQG|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant (Hy53f) Complexed
With Hen Egg Lysozyme
pdb|2DQH|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant (Hy58a) Complexed
With Hen Egg Lysozyme
pdb|2DQJ|L Chain L, Crystal Structure Of Hyhel-10 Fv (Wild-Type) Complexed
With Hen Egg Lysozyme At 1.8a Resolution
Length = 107
Score = 29.3 bits (64), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 39/89 (43%), Gaps = 7/89 (7%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGN----YSCVADNNLGRAKKYMELSVS-VSDRRLM 72
S L T GN +L+ + QS GN Y + + KY S+S + R
Sbjct: 7 SPATLSVTPGNSVSLSCRASQS--IGNNLHWYQQKSHESPRLLIKYASQSISGIPSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
G TL+I +V++ DFG Y C N+
Sbjct: 65 SGSGTDFTLSINSVETEDFGMYFCQQSNS 93
>pdb|2R56|L Chain L, Crystal Structure Of A Recombinant Ige Fab Fragment In
Complex With Bovine Beta-Lactoglobulin Allergen
pdb|2R56|M Chain M, Crystal Structure Of A Recombinant Ige Fab Fragment In
Complex With Bovine Beta-Lactoglobulin Allergen
Length = 211
Score = 28.9 bits (63), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 36/86 (41%), Gaps = 11/86 (12%)
Query: 18 SDRRLMETRGNKHTLTIKNVQ--STDFGNYSCVADNNLGRAKKYMELSVS-----VSDRR 70
S L + G++ T+T + Q S+ Y G+A K + + S V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQGISSRLAWY----QQKPGKAPKLLIYAASSLQSGVPSRF 62
Query: 71 LMETRGNKHTLTIKNVQSTDFGNYSC 96
G + TLTI ++Q DF Y C
Sbjct: 63 SGSGSGTEFTLTISSLQPEDFATYYC 88
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 26/56 (46%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------DTFLIEPSVSDRRLMETR------GNKHTLTIKNVQSTDFGNYSC 47
++WYQ LI + S + + +R G + TLTI ++Q DF Y C
Sbjct: 33 LAWYQQKPGKAPKLLIYAASSLQSGVPSRFSGSGSGTEFTLTISSLQPEDFATYYC 88
>pdb|3LRG|A Chain A, Structure Of Anti-Huntingtin Vl Domain
pdb|3LRG|B Chain B, Structure Of Anti-Huntingtin Vl Domain
pdb|3LRH|A Chain A, Structure Of Anti-Huntingtin Vl Domain In Complex With
Huntingtin Peptide
pdb|3LRH|C Chain C, Structure Of Anti-Huntingtin Vl Domain In Complex With
Huntingtin Peptide
pdb|3LRH|E Chain E, Structure Of Anti-Huntingtin Vl Domain In Complex With
Huntingtin Peptide
pdb|3LRH|G Chain G, Structure Of Anti-Huntingtin Vl Domain In Complex With
Huntingtin Peptide
pdb|3LRH|I Chain I, Structure Of Anti-Huntingtin Vl Domain In Complex With
Huntingtin Peptide
pdb|3LRH|K Chain K, Structure Of Anti-Huntingtin Vl Domain In Complex With
Huntingtin Peptide
pdb|3LRH|M Chain M, Structure Of Anti-Huntingtin Vl Domain In Complex With
Huntingtin Peptide
pdb|3LRH|O Chain O, Structure Of Anti-Huntingtin Vl Domain In Complex With
Huntingtin Peptide
Length = 121
Score = 28.9 bits (63), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 19/37 (51%)
Query: 9 DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNY 45
D L+ P VSDR G +LTI +QS D +Y
Sbjct: 54 DDDLLAPGVSDRFSGSRSGTSASLTISGLQSEDEADY 90
>pdb|1ZLS|L Chain L, Fab 2g12 + Man4
pdb|1ZLU|L Chain L, Fab 2g12 + Man5
pdb|1ZLU|K Chain K, Fab 2g12 + Man5
pdb|1ZLV|L Chain L, Fab 2g12 + Man7
pdb|1ZLV|K Chain K, Fab 2g12 + Man7
pdb|1ZLW|L Chain L, Fab 2g12 + Man8
pdb|1ZLW|K Chain K, Fab 2g12 + Man8
pdb|2OQJ|A Chain A, Crystal Structure Analysis Of Fab 2g12 In Complex With
Peptide 2g12.1
pdb|2OQJ|D Chain D, Crystal Structure Analysis Of Fab 2g12 In Complex With
Peptide 2g12.1
pdb|2OQJ|G Chain G, Crystal Structure Analysis Of Fab 2g12 In Complex With
Peptide 2g12.1
pdb|2OQJ|J Chain J, Crystal Structure Analysis Of Fab 2g12 In Complex With
Peptide 2g12.1
Length = 211
Score = 28.9 bits (63), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 33/84 (39%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLM 72
S L + G+ T+T + QS + + G+A K + L V R
Sbjct: 6 SPSTLSASVGDTITITCRASQSIE--TWLAWYQQKPGKAPKLLIYKASTLKTGVPSRFSG 63
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G + TLTI +Q DF Y C
Sbjct: 64 SGSGTEFTLTISGLQFDDFATYHC 87
>pdb|3HC0|L Chain L, Bha10 Igg1 Wild-Type Fab - Antibody Directed At Human
Ltbr
pdb|3HC0|B Chain B, Bha10 Igg1 Wild-Type Fab - Antibody Directed At Human
Ltbr
Length = 213
Score = 28.9 bits (63), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 37/89 (41%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T K Q + G G+A K + S S V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCKASQ--NVGINVAWYQQKPGKAPKSLISSASYRYSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYFC 88
>pdb|1A7Q|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) High Affinity Expressed Variant Containing
Ser26l->gly, Ile29l->thr, Glu81l->asp, Thr97l->ser,
Pro240h->leu, Asp258h->ala, Lys281h->glu, Asn283h->asp
And Leu312h->val
Length = 106
Score = 28.9 bits (63), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 12/35 (34%), Positives = 19/35 (54%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
L+ V R G +++L I ++Q DFG+Y C
Sbjct: 54 LAAGVPSRFSGSGSGTQYSLKINSLQPDDFGSYYC 88
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYYTTTLAAGVPSRFSGSGSGTQYSLKINSLQPDDFGSYYC 88
>pdb|1ZA3|A Chain A, The Crystal Structure Of The Ysd1 Fab Bound To Dr5
pdb|1ZA3|L Chain L, The Crystal Structure Of The Ysd1 Fab Bound To Dr5
Length = 213
Score = 28.9 bits (63), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 36/89 (40%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G++ T+T + Q D G+A K + + S V
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQ--DVNTAVAWYQQKPGKAPKLLIYAASYLYSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 60 SRFSGSGSGTDFTLTISSLQPEDFATYYC 88
>pdb|1CK0|L Chain L, Anti-Anti-Idiotypic Antibody Against Human Angiotensin Ii,
Unliganded Form
pdb|2CK0|L Chain L, Anti-Anti-Idiotypic Antibody Against Human Angiotensin Ii,
Complex With A Synthetic Cyclic Peptide
pdb|3CK0|L Chain L, Anti-Anti-Idiotypic Antibody Against Human Angiotensin Ii,
Complex With Human Angiotensin Ii
Length = 216
Score = 28.9 bits (63), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 29/99 (29%), Positives = 39/99 (39%), Gaps = 9/99 (9%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQ----STDFGNYSCVADNNLGRAKKYMELSVS--- 65
I+ + S L + G K T+ K+ Q S NY G++ K + S
Sbjct: 2 IQLTQSPSSLAVSAGEKVTMNCKSSQNLLHSITRKNYLAWYRQKPGQSPKLLIYWASTRG 61
Query: 66 --VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
V DR G TLTI +VQ+ D Y C NL
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNL 100
>pdb|3W11|D Chain D, Insulin Receptor Ectodomain Construct Comprising Domains
L1-cr In Complex With Human Insulin, Alpha-ct
Peptide(704-719) And Fab 83-7
pdb|3W12|D Chain D, Insulin Receptor Ectodomain Construct Comprising Domains
L1-cr In Complex With High-affinity Insulin Analogue
[d-pro-b26]-dti-nh2, Alpha-ct Peptide(704-719) And Fab
83-7
pdb|3W13|D Chain D, Insulin Receptor Ectodomain Construct Comprising Domains
L1-cr In Complex With High-affinity Insulin Analogue
[d-pro-b26]-dti-nh2, Alphact Peptide(693-719) And Fab
83-7
Length = 114
Score = 28.9 bits (63), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 9/90 (10%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQSTDFG----NYSCVADNNLGRAKKYMELSVS-----V 66
S S L+ + G K T++ K+ QS + N+ G++ K + S V
Sbjct: 5 SQSPSSLVVSVGEKVTMSCKSSQSLLYSSNQKNFLAWYQQKPGQSPKLLIYWASTRESGV 64
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
DR G TLTI +V++ D Y C
Sbjct: 65 PDRFTGSGSGTDFTLTISSVKAEDLAVYYC 94
>pdb|3TNM|L Chain L, Crystal Structure Of A32 Fab, An Adcc Mediating
Anti-Hiv-1 Antibody
pdb|3TNM|B Chain B, Crystal Structure Of A32 Fab, An Adcc Mediating
Anti-Hiv-1 Antibody
Length = 216
Score = 28.9 bits (63), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 31/65 (47%), Gaps = 7/65 (10%)
Query: 39 STDFGNYSCVA--DNNLGRAKKYMELSV-----SVSDRRLMETRGNKHTLTIKNVQSTDF 91
S+D G Y+ V+ ++ G+A K + V V DR GN +LT+ +Q+ D
Sbjct: 26 SSDVGGYNYVSWYQHHPGKAPKLIISEVNNRPSGVPDRFSGSKSGNTASLTVSGLQAEDE 85
Query: 92 GNYSC 96
Y C
Sbjct: 86 AEYYC 90
>pdb|1TLK|A Chain A, X-Ray Structure Determination Of Telokin, The C-Terminal
Domain Of Myosin Light Chain Kinase, At 2.8 Angstroms
Resolution
Length = 154
Score = 28.9 bits (63), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 6 WYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
W++D ++ S + + GN +LTI V D Y+C A N+LG A EL V
Sbjct: 75 WFKDDNPVKESRHFQIDYDEEGN-CSLTISEVCGDDDAKYTCKAVNSLGEATCTAELLV 132
Score = 26.6 bits (57), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 111
+LTI V D Y+C A N+LG A EL
Sbjct: 99 SLTISEVCGDDDAKYTCKAVNSLGEATCTAEL 130
>pdb|1J1X|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Ls93a Complexed
With Hen Egg White Lysozyme
Length = 107
Score = 28.9 bits (63), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 38/88 (43%), Gaps = 7/88 (7%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGN----YSCVADNNLGRAKKYMELSVS-VSDRRLM 72
S L T GN +L+ + QS GN Y + + KY S+S + R
Sbjct: 7 SPATLSVTPGNSVSLSCRASQS--IGNNLHWYQQKSHESPRLLIKYASQSISGIPSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSCVADN 100
G TL+I +V++ DFG Y C N
Sbjct: 65 SGSGTDFTLSINSVETEDFGMYFCQQSN 92
>pdb|1FHG|A Chain A, High Resolution Refinement Of Telokin
Length = 154
Score = 28.9 bits (63), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 29/59 (49%), Gaps = 1/59 (1%)
Query: 6 WYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
W++D ++ S + + GN +LTI V D Y+C A N+LG A EL V
Sbjct: 75 WFKDDNPVKESRHFQIDYDEEGN-CSLTISEVCGDDDAKYTCKAVNSLGEATCTAELLV 132
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 17/32 (53%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 111
+LTI V D Y+C A N+LG A EL
Sbjct: 99 SLTISEVCGDDDAKYTCKAVNSLGEATCTAEL 130
>pdb|3G5Z|A Chain A, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 213
Score = 28.9 bits (63), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
LS V R G ++LTI +++S DF +Y CV
Sbjct: 54 LSDGVPSRFSGSGSGADYSLTISSLESEDFADYYCV 89
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
V R G ++LTI +++S DF +Y CV
Sbjct: 58 VPSRFSGSGSGADYSLTISSLESEDFADYYCV 89
>pdb|1A7N|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) Variant For Chain L Glu81->asp And Chain H
Leu312->val
pdb|1A7R|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) Variant Chain L Glu81->asp
Length = 107
Score = 28.9 bits (63), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPDDFGSYYC 88
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINSLQPDDFGSYYC 88
>pdb|3G04|A Chain A, Crystal Structure Of The Tsh Receptor In Complex With A
Thyroid- Stimulating Autoantibody
Length = 216
Score = 28.9 bits (63), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 35/73 (47%), Gaps = 13/73 (17%)
Query: 43 GNYSCVADNNL-------GRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKNVQSTD 90
GN S + +N + G+A K + +L VSDR G +L I+ +QS D
Sbjct: 24 GNSSNIGNNAVNWYQQLPGKAPKLLIYYDDQLPSGVSDRFSGSRSGTSASLAIRGLQSED 83
Query: 91 FGNYSCVA-DNNL 102
+Y C + D++L
Sbjct: 84 EADYYCTSWDDSL 96
Score = 25.8 bits (55), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA-DNNL 53
VSDR G +L I+ +QS D +Y C + D++L
Sbjct: 59 VSDRFSGSRSGTSASLAIRGLQSEDEADYYCTSWDDSL 96
>pdb|3V6B|R Chain R, Vegfr-2VEGF-E Complex Structure
Length = 424
Score = 28.9 bits (63), Expect = 0.76, Method: Composition-based stats.
Identities = 17/63 (26%), Positives = 29/63 (46%), Gaps = 7/63 (11%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
+ WY++ +E + T H LTI V D GNY+ + N + + K+ +S
Sbjct: 232 IKWYKNGIPLESN-------HTIKAGHVLTIMEVSERDTGNYTVILTNPISKEKQSHVVS 284
Query: 64 VSV 66
+ V
Sbjct: 285 LVV 287
Score = 27.3 bits (59), Expect = 2.5, Method: Composition-based stats.
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 79 HTLTIKNVQSTDFGNYSCVADNNLGRAKK 107
H LTI V D GNY+ + N + + K+
Sbjct: 251 HVLTIMEVSERDTGNYTVILTNPISKEKQ 279
>pdb|1EFQ|A Chain A, Q38d Mutant Of Len
Length = 114
Score = 28.9 bits (63), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQDT------FLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQD LI E V DR G TLTI ++Q+ D Y C
Sbjct: 39 LAWYQDKPGQPPKLLIYWASTRESGVPDRFSGSGSGTDFTLTISSLQAEDVAVYYC 94
>pdb|1A7O|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) R96l Deletion Mutant On Variant For Chain L
Glu81->asp And Chain H Leu312->val
Length = 106
Score = 28.9 bits (63), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPDDFGSYYC 88
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINSLQPDDFGSYYC 88
>pdb|1IL1|B Chain B, Crystal Structure Of G3-519, An Anti-Hiv Monoclonal
Antibody
Length = 219
Score = 28.9 bits (63), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 24/59 (40%), Gaps = 12/59 (20%)
Query: 1 MGMMSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
M +SWYQ LI E V DR G TLTI +V++ D Y C
Sbjct: 36 MNYLSWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSVKAEDLAVYYC 94
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 37/90 (41%), Gaps = 9/90 (10%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQSTDFG----NYSCVADNNLGRAKKYMELSVS-----V 66
S S L + G K T++ K+ QS + NY G++ K + S V
Sbjct: 5 SQSPSSLAVSVGEKVTMSCKSSQSLLYSRNQMNYLSWYQQKPGQSPKLLIYWASTRESGV 64
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
DR G TLTI +V++ D Y C
Sbjct: 65 PDRFTGSGSGTDFTLTISSVKAEDLAVYYC 94
>pdb|2ZNW|A Chain A, Crystal Structure Of Scfv10 In Complex With Hen Egg
Lysozyme
pdb|2ZNW|B Chain B, Crystal Structure Of Scfv10 In Complex With Hen Egg
Lysozyme
Length = 242
Score = 28.9 bits (63), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 39/89 (43%), Gaps = 7/89 (7%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGN----YSCVADNNLGRAKKYMELSVS-VSDRRLM 72
S L T GN +L+ + QS GN Y + + KY S+S + R
Sbjct: 7 SPATLSVTPGNSVSLSCRASQS--IGNNLHWYQQKSHESPRLLIKYASQSISGIPSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
G TL+I +V++ DFG Y C N+
Sbjct: 65 SGSGTDFTLSINSVETEDFGMYFCQQSNS 93
>pdb|1ZA6|A Chain A, The Structure Of An Antitumor Ch2-Domain-Deleted
Humanized Antibody
pdb|1ZA6|C Chain C, The Structure Of An Antitumor Ch2-Domain-Deleted
Humanized Antibody
pdb|1ZA6|E Chain E, The Structure Of An Antitumor Ch2-Domain-Deleted
Humanized Antibody
pdb|1ZA6|G Chain G, The Structure Of An Antitumor Ch2-Domain-Deleted
Humanized Antibody
Length = 220
Score = 28.9 bits (63), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 36/90 (40%), Gaps = 9/90 (10%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQSTDFG----NYSCVADNNLGRAKKYMELSVS-----V 66
S S L + G + TL K+ QS + NY G++ K + S V
Sbjct: 5 SQSPDSLAVSLGERVTLNCKSSQSLLYSGNQKNYLAWYQQKPGQSPKLLIYWASARESGV 64
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
DR G TLTI +VQ+ D Y C
Sbjct: 65 PDRFSGSGSGTDFTLTISSVQAEDVAVYYC 94
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 23/56 (41%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKLLIYWASARESGVPDRFSGSGSGTDFTLTISSVQAEDVAVYYC 94
>pdb|1G7J|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3 (Vlw92h)
Length = 107
Score = 28.9 bits (63), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPEDFGSYYC 88
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYC 88
>pdb|3ESU|F Chain F, Crystal Structure Of Anthrax-Neutralizing Single-Chain
Antibody 14b7
Length = 250
Score = 28.9 bits (63), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 43/101 (42%), Gaps = 10/101 (9%)
Query: 7 YQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNY-SCVADNNLGRAKKYM----E 61
Y+D LI+ + S L + G++ T++ + Q D NY + G K +
Sbjct: 2 YKDIVLIQSTSS---LSASLGDRVTISCRASQ--DIRNYLNWYQQKPDGTVKLLIYYTSR 56
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
L V R G ++LTI N++ D G Y C N L
Sbjct: 57 LQSGVPSRFSGSGSGTDYSLTISNLEQEDIGTYFCQQGNTL 97
Score = 28.5 bits (62), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 17/62 (27%), Positives = 25/62 (40%), Gaps = 12/62 (19%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ T ++ V R G ++LTI N++ D G Y C N
Sbjct: 36 LNWYQQKPDGTVKLLIYYTSRLQSGVPSRFSGSGSGTDYSLTISNLEQEDIGTYFCQQGN 95
Query: 52 NL 53
L
Sbjct: 96 TL 97
>pdb|1MLB|A Chain A, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme
pdb|1MLC|A Chain A, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme Complexed With Lysozyme
pdb|1MLC|C Chain C, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme Complexed With Lysozyme
Length = 214
Score = 28.9 bits (63), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 58 KYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
KY+ S S + R G TL+I +V++ DFG Y C N+ R
Sbjct: 49 KYVSQSSSGIPSRFSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPR 96
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNNLGR 55
G TL+I +V++ DFG Y C N+ R
Sbjct: 68 GTDFTLSINSVETEDFGMYFCQQSNSWPR 96
>pdb|3U30|B Chain B, Crystal Structure Of A Linear-Specific Ubiquitin Fab
Bound To Linear Ubiquitin
pdb|3U30|E Chain E, Crystal Structure Of A Linear-Specific Ubiquitin Fab
Bound To Linear Ubiquitin
Length = 214
Score = 28.9 bits (63), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 32/84 (38%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV-----SVSDRRLM 72
S L + G++ T+T + Q D G+A K + S V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQ--DVSTAVAWYQQKPGKAPKLLIYSAKFLYSGVPSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q DF Y C
Sbjct: 65 SGSGTDFTLTISSLQPEDFATYYC 88
>pdb|2DTG|D Chain D, Insulin Receptor (Ir) Ectodomain In Complex With Fab's
pdb|3LOH|D Chain D, Structure Of The Insulin Receptor Ectodomain, Including
Ct P
pdb|3W14|D Chain D, Insulin Receptor Ectodomain Construct Comprising Domains
L1,cr,l2, Fniii-1 And Alphact Peptide In Complex With
Bovine Insulin And Fab 83-14
pdb|3W14|Q Chain Q, Insulin Receptor Ectodomain Construct Comprising Domains
L1,cr,l2, Fniii-1 And Alphact Peptide In Complex With
Bovine Insulin And Fab 83-14
Length = 214
Score = 28.9 bits (63), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 22/36 (61%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
++P V R G+ ++LTI +++S DF +Y C+
Sbjct: 54 LDPGVPKRFSGSRSGSDYSLTISSLKSEDFVDYYCL 89
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 44/89 (49%), Gaps = 5/89 (5%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSD---R 69
I+ + S L + G + +LT + Q GN + G K+ + + S+ +
Sbjct: 2 IQMTQSPSSLSASLGERVSLTCRASQDIG-GNLYWLQQGPDGTIKRLIYATSSLDPGVPK 60
Query: 70 RLMETR-GNKHTLTIKNVQSTDFGNYSCV 97
R +R G+ ++LTI +++S DF +Y C+
Sbjct: 61 RFSGSRSGSDYSLTISSLKSEDFVDYYCL 89
>pdb|1UWE|L Chain L, Molecular Mechanism Of Enantioselective Proton Transfer
To Carbon In Catalytic Antibody 14d9
pdb|1UWE|U Chain U, Molecular Mechanism Of Enantioselective Proton Transfer
To Carbon In Catalytic Antibody 14d9
pdb|1UWE|X Chain X, Molecular Mechanism Of Enantioselective Proton Transfer
To Carbon In Catalytic Antibody 14d9
Length = 213
Score = 28.9 bits (63), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 20/48 (41%), Gaps = 5/48 (10%)
Query: 54 GRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
G+ K + S S V DR G TLTI NV S D Y C
Sbjct: 42 GQPPKALIYSTSYRYSGVPDRFTGSGSGTDFTLTISNVNSEDLAEYFC 89
Score = 28.9 bits (63), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 20/56 (35%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ P V DR G TLTI NV S D Y C
Sbjct: 34 VAWYQQKPGQPPKALIYSTSYRYSGVPDRFTGSGSGTDFTLTISNVNSEDLAEYFC 89
>pdb|1G7H|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3(Vlw92a)
Length = 107
Score = 28.9 bits (63), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPEDFGSYYC 88
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYC 88
>pdb|3QPQ|L Chain L, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|E Chain E, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|C Chain C, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|I Chain I, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3ULU|E Chain E, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|E Chain E, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 215
Score = 28.9 bits (63), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKTLADGVPSRFSGSESGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPEDFGSYYC 88
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ P V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYNAKTLADGVPSRFSGSESGTQYSLKINSLQPEDFGSYYC 88
>pdb|3NFP|B Chain B, Crystal Structure Of The Fab Fragment Of Therapeutic
Antibody Daclizumab In Complex With Il-2ra (Cd25)
Ectodomain
pdb|3NFP|L Chain L, Crystal Structure Of The Fab Fragment Of Therapeutic
Antibody Daclizumab In Complex With Il-2ra (Cd25)
Ectodomain
pdb|3NFS|L Chain L, Crystal Structure The Fab Fragment Of Therapeutic
Antibody Daclizumab
Length = 212
Score = 28.9 bits (63), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 38/89 (42%), Gaps = 8/89 (8%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T S + ++ G+A K + L+ V
Sbjct: 2 IQMTQSPSTLSASVGDRVTITCSASSSISYMHW---YQQKPGKAPKLLIYTTSNLASGVP 58
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G + TLTI ++Q DF Y C
Sbjct: 59 ARFSGSGSGTEFTLTISSLQPDDFATYYC 87
>pdb|1A7P|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) Engineered Mutant Pro95l->ser On Variant Chain
L Glu81- >asp And Chain H Leu312->val
Length = 107
Score = 28.9 bits (63), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPDDFGSYYC 88
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINSLQPDDFGSYYC 88
>pdb|3RKD|L Chain L, Hepatitis E Virus E2s Domain (Genotype I) In Complex
With A Neutralizing Antibody
pdb|3RKD|C Chain C, Hepatitis E Virus E2s Domain (Genotype I) In Complex
With A Neutralizing Antibody
Length = 214
Score = 28.9 bits (63), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
L+ V R G +++L I ++QS DFG+Y C
Sbjct: 54 LAEGVPSRFSGSGSGTQYSLKINSLQSEDFGSYYC 88
Score = 28.5 bits (62), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 22/41 (53%), Gaps = 1/41 (2%)
Query: 7 YQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
Y T L E V R G +++L I ++QS DFG+Y C
Sbjct: 49 YSATNLAE-GVPSRFSGSGSGTQYSLKINSLQSEDFGSYYC 88
>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 = 28.9 bits (63), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 17/36 (47%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
+E V DR G TL I V++ D G Y CV
Sbjct: 59 LESGVPDRFTGSGSGTDFTLKISRVEAADLGVYYCV 94
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 17/37 (45%)
Query: 61 ELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
+L V DR G TL I V++ D G Y CV
Sbjct: 58 KLESGVPDRFTGSGSGTDFTLKISRVEAADLGVYYCV 94
>pdb|1G7I|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3 (Vlw92f)
Length = 107
Score = 28.9 bits (63), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPEDFGSYYC 88
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYC 88
>pdb|1J1P|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Ls91a Complexed
With Hen Egg White Lysozyme
Length = 107
Score = 28.9 bits (63), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 39/89 (43%), Gaps = 7/89 (7%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGN----YSCVADNNLGRAKKYMELSVS-VSDRRLM 72
S L T GN +L+ + QS GN Y + + KY S+S + R
Sbjct: 7 SPATLSVTPGNSVSLSCRASQS--IGNNLHWYQQKSHESPRLLIKYASQSISGIPSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
G TL+I +V++ DFG Y C N+
Sbjct: 65 SGSGTDFTLSINSVETEDFGMYFCQQANS 93
>pdb|1G7M|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3 (Vlw92v)
Length = 107
Score = 28.9 bits (63), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPEDFGSYYC 88
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYC 88
>pdb|3BDY|L Chain L, Dual Specific Bh1 Fab In Complex With Vegf
pdb|3BE1|L Chain L, Dual Specific Bh1 Fab In Complex With The Extracellular
Domain Of Her2ERBB-2
Length = 218
Score = 28.9 bits (63), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 32/86 (37%), Gaps = 7/86 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTD--FGNYSCVADNNLGRAKKYM-----ELSVSVSDRR 70
S L + G++ T+T + Q Y G+A K + L V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQDIPRSISGYVAWYQQKPGKAPKLLIYWGSYLYSGVPSRF 66
Query: 71 LMETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q DF Y C
Sbjct: 67 SGSGSGTDFTLTISSLQPEDFATYYC 92
>pdb|1E0O|B Chain B, Crystal Structure Of A Ternary Fgf1-Fgfr2-Heparin Complex
pdb|1E0O|D Chain D, Crystal Structure Of A Ternary Fgf1-Fgfr2-Heparin Complex
Length = 219
Score = 28.9 bits (63), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 28 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
N+H +L +++V +D GNY+CV +N G L V
Sbjct: 64 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 101
Score = 28.5 bits (62), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 77 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
N+H +L +++V +D GNY+CV +N G L +E
Sbjct: 64 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVE 103
Score = 28.5 bits (62), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 29 KHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQS 88
H IK+V+ N S + L K V+ +D+ + L I+NV
Sbjct: 139 PHIQWIKHVEK----NGSKYGPDGLPYLKVLKAAGVNTTDKEI-------EVLYIRNVTF 187
Query: 89 TDFGNYSCVADNNLG 103
D G Y+C+A N++G
Sbjct: 188 EDAGEYTCLAGNSIG 202
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRR 70
L I+NV D G Y+C+A N++G + L+V + R
Sbjct: 179 VLYIRNVTFEDAGEYTCLAGNSIGISFHSAWLTVLPAPGR 218
>pdb|1NCA|L Chain L, Refined Crystal Structure Of The Influenza Virus N9
Neuraminidase-Nc41 Fab Complex
pdb|1NCB|L Chain L, Crystal Structures Of Two Mutant Neuraminidase-Antibody
Complexes With Amino Acid Substitutions In The
Interface
pdb|1NCC|L Chain L, Crystal Structures Of Two Mutant Neuraminidase-Antibody
Complexes With Amino Acid Substitutions In The
Interface
pdb|1NCD|L Chain L, Refined Crystal Structure Of The Influenza Virus N9
Neuraminidase-Nc41 Fab Complex
Length = 214
Score = 28.9 bits (63), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 17/33 (51%)
Query: 64 VSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
+ V DR G +TLTI +VQ+ D Y C
Sbjct: 56 IGVPDRFAGSGSGTDYTLTISSVQAEDLALYYC 88
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
V DR G +TLTI +VQ+ D Y C
Sbjct: 58 VPDRFAGSGSGTDYTLTISSVQAEDLALYYC 88
>pdb|1G7L|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3 (Vlw92s)
Length = 107
Score = 28.9 bits (63), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPEDFGSYYC 88
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYC 88
>pdb|2ADF|L Chain L, Crystal Structure And Paratope Determination Of 82d6a3, An
Antithrombotic Antibody Directed Against The Von
Willebrand Factor A3-Domain
Length = 209
Score = 28.9 bits (63), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 22/95 (23%), Positives = 38/95 (40%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G K T+T K Q D Y + G+ + + L +
Sbjct: 2 IQMTQSPSSLSASLGGKVTITCKASQ--DINKYIAWYQHKPGKGPRLLIHYTSTLQPGIP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G ++ +I N++ D Y C+ +NL
Sbjct: 60 SRFSGSGSGRDYSFSISNLEPEDIATYYCLQYDNL 94
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/62 (22%), Positives = 26/62 (41%), Gaps = 12/62 (19%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ T ++P + R G ++ +I N++ D Y C+ +
Sbjct: 33 IAWYQHKPGKGPRLLIHYTSTLQPGIPSRFSGSGSGRDYSFSISNLEPEDIATYYCLQYD 92
Query: 52 NL 53
NL
Sbjct: 93 NL 94
>pdb|1C12|A Chain A, Insight In Odorant Perception: The Crystal Structure And
Binding Characteristics Of Antibody Fragments Directed
Against The Musk Odorant Traseolide
Length = 214
Score = 28.5 bits (62), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 20/36 (55%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
+E V R G ++LTI +++S DF +Y CV
Sbjct: 54 LEDGVPSRFSGSGSGADYSLTISSLESEDFADYYCV 89
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
V R G ++LTI +++S DF +Y CV
Sbjct: 58 VPSRFSGSGSGADYSLTISSLESEDFADYYCV 89
>pdb|2FDB|P Chain P, Crystal Structure Of Fibroblast Growth Factor (Fgf)8b In
Complex With Fgf Receptor (Fgfr) 2c
pdb|2FDB|R Chain R, Crystal Structure Of Fibroblast Growth Factor (Fgf)8b In
Complex With Fgf Receptor (Fgfr) 2c
Length = 220
Score = 28.5 bits (62), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 28 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
N+H +L +++V +D GNY+CV +N G L V
Sbjct: 63 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 100
Score = 28.5 bits (62), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 23/43 (53%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRRLME 73
L I+NV D G Y+C+A N++G + L+V + R E
Sbjct: 178 VLYIRNVTFEDAGEYTCLAGNSIGISFHSAWLTVLPAPGREKE 220
Score = 28.5 bits (62), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 29 KHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQS 88
H IK+V+ N S + L K V+ +D+ + L I+NV
Sbjct: 138 PHIQWIKHVEK----NGSKYGPDGLPYLKVLKAAGVNTTDKEI-------EVLYIRNVTF 186
Query: 89 TDFGNYSCVADNNLG 103
D G Y+C+A N++G
Sbjct: 187 EDAGEYTCLAGNSIG 201
Score = 28.5 bits (62), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 77 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
N+H +L +++V +D GNY+CV +N G L +E
Sbjct: 63 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVE 102
>pdb|1II4|E Chain E, Crystal Structure Of Ser252trp Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1II4|F Chain F, Crystal Structure Of Ser252trp Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1II4|G Chain G, Crystal Structure Of Ser252trp Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1II4|H Chain H, Crystal Structure Of Ser252trp Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
Length = 220
Score = 28.5 bits (62), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 28 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
N+H +L +++V +D GNY+CV +N G L V
Sbjct: 65 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 102
Score = 28.5 bits (62), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 29 KHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQS 88
H IK+V+ N S + L K V+ +D+ + L I+NV
Sbjct: 140 PHIQWIKHVEK----NGSKYGPDGLPYLKVLKAAGVNTTDKEI-------EVLYIRNVTF 188
Query: 89 TDFGNYSCVADNNLG 103
D G Y+C+A N++G
Sbjct: 189 EDAGEYTCLAGNSIG 203
Score = 28.5 bits (62), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 77 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
N+H +L +++V +D GNY+CV +N G L +E
Sbjct: 65 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVE 104
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRR 70
L I+NV D G Y+C+A N++G + L+V + R
Sbjct: 180 VLYIRNVTFEDAGEYTCLAGNSIGISFHSAWLTVLPAPGR 219
>pdb|1EV2|E Chain E, Crystal Structure Of Fgf2 In Complex With The
Extracellular Ligand Binding Domain Of Fgf Receptor 2
(Fgfr2)
pdb|1EV2|F Chain F, Crystal Structure Of Fgf2 In Complex With The
Extracellular Ligand Binding Domain Of Fgf Receptor 2
(Fgfr2)
pdb|1EV2|G Chain G, Crystal Structure Of Fgf2 In Complex With The
Extracellular Ligand Binding Domain Of Fgf Receptor 2
(Fgfr2)
pdb|1EV2|H Chain H, Crystal Structure Of Fgf2 In Complex With The
Extracellular Ligand Binding Domain Of Fgf Receptor 2
(Fgfr2)
Length = 220
Score = 28.5 bits (62), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 28 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
N+H +L +++V +D GNY+CV +N G L V
Sbjct: 65 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 102
Score = 28.5 bits (62), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 77 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
N+H +L +++V +D GNY+CV +N G L +E
Sbjct: 65 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVE 104
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 29 KHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQS 88
H IK+V+ N S + L K V+ +D+ + L I+NV
Sbjct: 140 PHIQWIKHVEK----NGSKYGPDGLPYLKVLKAAGVNTTDKEI-------EVLYIRNVTF 188
Query: 89 TDFGNYSCVADNNLG 103
D G Y+C+A N++G
Sbjct: 189 EDAGEYTCLAGNSIG 203
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRR 70
L I+NV D G Y+C+A N++G + L+V + R
Sbjct: 180 VLYIRNVTFEDAGEYTCLAGNSIGISFHSAWLTVLPAPGR 219
>pdb|1T4K|A Chain A, Crystal Structure Of Unliganded Aldolase Antibody 93f3
Fab
pdb|1T4K|C Chain C, Crystal Structure Of Unliganded Aldolase Antibody 93f3
Fab
Length = 217
Score = 28.5 bits (62), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T LI E V DR G TLTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPTKLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAIYYC 94
>pdb|1IIL|E Chain E, Crystal Structure Of Pro253arg Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1IIL|F Chain F, Crystal Structure Of Pro253arg Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1IIL|G Chain G, Crystal Structure Of Pro253arg Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1IIL|H Chain H, Crystal Structure Of Pro253arg Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
Length = 220
Score = 28.5 bits (62), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 28 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
N+H +L +++V +D GNY+CV +N G L V
Sbjct: 65 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 102
Score = 28.5 bits (62), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 77 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
N+H +L +++V +D GNY+CV +N G L +E
Sbjct: 65 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVE 104
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 29 KHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQS 88
H IK+V+ N S + L K V+ +D+ + L I+NV
Sbjct: 140 PHIQWIKHVEK----NGSKYGPDGLPYLKVLKAAGVNTTDKEI-------EVLYIRNVTF 188
Query: 89 TDFGNYSCVADNNLG 103
D G Y+C+A N++G
Sbjct: 189 EDAGEYTCLAGNSIG 203
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRR 70
L I+NV D G Y+C+A N++G + L+V + R
Sbjct: 180 VLYIRNVTFEDAGEYTCLAGNSIGISFHSAWLTVLPAPGR 219
>pdb|3EO0|A Chain A, Structure Of The Transforming Growth Factor-Beta
Neutralizing Antibody Gc-1008
pdb|3EO0|C Chain C, Structure Of The Transforming Growth Factor-Beta
Neutralizing Antibody Gc-1008
pdb|3EO1|A Chain A, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|D Chain D, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|G Chain G, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|J Chain J, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
Length = 215
Score = 28.5 bits (62), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQDT------FLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ LI P + DR G TLTI ++ DF Y C
Sbjct: 34 LAWYQQKPGQAPRLLIYGASSRAPGIPDRFSGSGSGTDFTLTISRLEPEDFAVYYC 89
>pdb|1WEJ|L Chain L, Igg1 Fab Fragment (Of E8 Antibody) Complexed With Horse
Cytochrome C At 1.8 A Resolution
pdb|1QBL|L Chain L, Fab E8 (Fabe8a) X-Ray Structure At 2.26 Angstrom
Resolution
pdb|1QBM|L Chain L, Fab E8b Antibody, X-Ray Structure At 2.37 Angstroms
Resolution
Length = 214
Score = 28.5 bits (62), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPEDFGSYYC 88
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 17/31 (54%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
V R G +++L I ++Q DFG+Y C
Sbjct: 58 VPSRFSGSGSGTQYSLKINSLQPEDFGSYYC 88
>pdb|1BBJ|L Chain L, Crystal Structure Of A Chimeric Fab' Fragment Of An
Antibody Binding Tumour Cells
pdb|1BBJ|A Chain A, Crystal Structure Of A Chimeric Fab' Fragment Of An
Antibody Binding Tumour Cells
Length = 211
Score = 28.5 bits (62), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 20/35 (57%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
L+ V R G +++L I ++QS DFG+Y C
Sbjct: 54 LADGVPSRFSGSGSGTQYSLKINSLQSEDFGSYYC 88
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ P V R G +++L I ++QS DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYAATNLADGVPSRFSGSGSGTQYSLKINSLQSEDFGSYYC 88
>pdb|3V6O|E Chain E, Leptin Receptor-Antibody Complex
pdb|3V6O|F Chain F, Leptin Receptor-Antibody Complex
pdb|3VG0|L Chain L, Antibody Fab Fragment
Length = 215
Score = 28.5 bits (62), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 27/61 (44%), Gaps = 20/61 (32%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHT----------------LTIKNVQSTDFGNYSC 47
++WYQ +P S + L+ N+HT LTI NV+S D +Y C
Sbjct: 34 VTWYQQ----KPGQSPQALIFLASNRHTGVPARFTGSGSGTDFTLTINNVKSEDLADYFC 89
Query: 48 V 48
+
Sbjct: 90 L 90
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 16/70 (22%)
Query: 44 NYSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHT----------------LTIKNVQ 87
N +C A N+ A + + S + L+ N+HT LTI NV+
Sbjct: 21 NITCKATQNVRTAVTWYQQKPGQSPQALIFLASNRHTGVPARFTGSGSGTDFTLTINNVK 80
Query: 88 STDFGNYSCV 97
S D +Y C+
Sbjct: 81 SEDLADYFCL 90
>pdb|1MHP|L Chain L, Crystal Structure Of A Chimeric Alpha1 Integrin I-Domain
In Complex With The Fab Fragment Of A Humanized
Neutralizing Antibody
pdb|1MHP|Y Chain Y, Crystal Structure Of A Chimeric Alpha1 Integrin I-Domain
In Complex With The Fab Fragment Of A Humanized
Neutralizing Antibody
Length = 212
Score = 28.5 bits (62), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 38/89 (42%), Gaps = 8/89 (8%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKK---YME--LSVSVS 67
I+ + S L + G++ T+T S N+ G+A K Y+ L+ V
Sbjct: 1 IQLTQSPSSLSASVGDRVTITCSASSSV---NHMFWYQQKPGKAPKPWIYLTSNLASGVP 57
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G +TLTI ++Q DF Y C
Sbjct: 58 SRFSGSGSGTDYTLTISSLQPEDFATYYC 86
>pdb|1NUN|B Chain B, Crystal Structure Analysis Of The Fgf10-fgfr2b Complex
Length = 230
Score = 28.5 bits (62), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 23/110 (20%), Positives = 43/110 (39%), Gaps = 3/110 (2%)
Query: 9 DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSD 68
+ F+ E S + R T K + V + + + C A N ++++
Sbjct: 2 EDFVSENSNNKRAPYWTNTEKXEKRLHAVPAANTVKFRCPAGGNPXPTXRWLKNGKEFKQ 61
Query: 69 RRLM---ETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
+ + R +L ++V +D GNY+CV +N G L +E
Sbjct: 62 EHRIGGYKVRNQHWSLIXESVVPSDKGNYTCVVENEYGSINHTYHLDVVE 111
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 28 NKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
N L + NV D G Y C N +G+A + L+V
Sbjct: 182 NAEVLALFNVTEADAGEYICKVSNYIGQANQSAWLTV 218
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 77 NKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSEL 114
N L + NV D G Y C N +G+A + L+ L
Sbjct: 182 NAEVLALFNVTEADAGEYICKVSNYIGQANQSAWLTVL 219
>pdb|1FH5|L Chain L, Crystal Structure Of The Fab Fragment Of The Monoclonal
Antibody Mak33
Length = 213
Score = 28.5 bits (62), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 58 KYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
KY S+S + R G TL+I +V++ DFG Y C N+
Sbjct: 49 KYASQSISGIPSRFSGSGSGTDFTLSINSVETEDFGMYYCQQSNS 93
Score = 26.2 bits (56), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNN 52
G TL+I +V++ DFG Y C N+
Sbjct: 68 GTDFTLSINSVETEDFGMYYCQQSNS 93
>pdb|3KYK|L Chain L, Crystal Structure Of Li33 Igg1 Fab
pdb|3KYM|A Chain A, Crystal Structure Of Li33 Igg2 Di-Fab
pdb|3KYM|C Chain C, Crystal Structure Of Li33 Igg2 Di-Fab
pdb|3KYM|E Chain E, Crystal Structure Of Li33 Igg2 Di-Fab
pdb|3KYM|G Chain G, Crystal Structure Of Li33 Igg2 Di-Fab
pdb|3KYM|I Chain I, Crystal Structure Of Li33 Igg2 Di-Fab
pdb|3KYM|K Chain K, Crystal Structure Of Li33 Igg2 Di-Fab
pdb|3KYM|M Chain M, Crystal Structure Of Li33 Igg2 Di-Fab
pdb|3KYM|O Chain O, Crystal Structure Of Li33 Igg2 Di-Fab
Length = 214
Score = 28.5 bits (62), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VS 67
I+ + S L + G + TL+ + QS +Y G+A + + S +
Sbjct: 2 IQMTQSPGTLSLSPGERATLSCRASQSVS--SYLAWYQQKPGQAPRLLIYDASNRATGIP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G + TLTI ++QS DF Y C
Sbjct: 60 ARFSGSGSGTEFTLTISSLQSEDFAVYYC 88
>pdb|3Q3G|C Chain C, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|A Chain A, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|F Chain F, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|J Chain J, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|C Chain C, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|A Chain A, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|F Chain F, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|J Chain J, Crystal Structure Of A-Domain In Complex With Antibody
Length = 220
Score = 28.5 bits (62), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 27/93 (29%), Positives = 40/93 (43%), Gaps = 9/93 (9%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQ----STDFGNYSCVADNNLGRAKKYMELSVS--- 65
IE + S L + G K T++ K+ Q S++ NY G++ K + S
Sbjct: 2 IEMTQSPSSLGVSVGEKVTMSCKSSQNLLYSSNQKNYLAWYQQKPGQSPKLLIYWASTRE 61
Query: 66 --VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V DR G TLTI +V++ D Y C
Sbjct: 62 SGVPDRFTGTGSGTDFTLTISSVKAEDLAVYYC 94
>pdb|3CAF|A Chain A, Crystal Structure Of Hfgfr2 D2 Domain
pdb|3CU1|A Chain A, Crystal Structure Of 2:2:2 Fgfr2d2:fgf1:sos Complex
pdb|3CU1|C Chain C, Crystal Structure Of 2:2:2 Fgfr2d2:fgf1:sos Complex
pdb|3EUU|A Chain A, Crystal Structure Of The Fgfr2 D2 Domain
pdb|3EUU|B Chain B, Crystal Structure Of The Fgfr2 D2 Domain
Length = 100
Score = 28.5 bits (62), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 28 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
N+H +L +++V +D GNY+CV +N G L V
Sbjct: 62 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 99
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 20/28 (71%), Gaps = 1/28 (3%)
Query: 77 NKH-TLTIKNVQSTDFGNYSCVADNNLG 103
N+H +L +++V +D GNY+CV +N G
Sbjct: 62 NQHWSLIMESVVPSDKGNYTCVVENEYG 89
>pdb|1CIC|C Chain C, Idiotope-Anti-Idiotope Fab-Fab Complex; D1.3-E225
Length = 214
Score = 28.5 bits (62), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPEDFGSYYC 88
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYC 88
>pdb|1DJS|A Chain A, Ligand-binding Portion Of Fibroblast Growth Factor
Receptor 2 In Complex With Fgf1
Length = 216
Score = 28.5 bits (62), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 33/75 (44%), Gaps = 11/75 (14%)
Query: 29 KHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQS 88
H IK+V+ N S + L K V+ +D+ + L I+NV
Sbjct: 140 PHIQWIKHVEK----NGSKYGPDGLPYLKVLKAAGVNTTDKEI-------EVLYIRNVTF 188
Query: 89 TDFGNYSCVADNNLG 103
D G Y+C+A N++G
Sbjct: 189 EDAGEYTCLAGNSIG 203
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 1/38 (2%)
Query: 28 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
N+H +L ++V +D GNY+CV +N G L V
Sbjct: 65 NQHWSLIXESVVPSDKGNYTCVVENEYGSINHTYHLDV 102
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 22/40 (55%), Gaps = 1/40 (2%)
Query: 77 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
N+H +L ++V +D GNY+CV +N G L +E
Sbjct: 65 NQHWSLIXESVVPSDKGNYTCVVENEYGSINHTYHLDVVE 104
>pdb|3QRG|L Chain L, Crystal Structure Of Antirsvf Fab B21m
Length = 218
Score = 28.5 bits (62), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 35/86 (40%), Gaps = 7/86 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRR 70
S L + G + T+ + QS D+ S + G+ K + + S V DR
Sbjct: 7 SPDSLAVSLGERATINCRASQSVDYNGISYMHWYQQKPGQPPKLLIYAASNPESGVPDRF 66
Query: 71 LMETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++Q+ D Y C
Sbjct: 67 SGSGSGTDFTLTISSLQAEDVAVYYC 92
>pdb|3P3Y|A Chain A, Crystal Structure Of Neurofascin Homophilic Adhesion
Complex In Space Group P6522
pdb|3P40|A Chain A, Crystal Structure Of Neurofascin Adhesion Complex In Space
Group P3221
Length = 404
Score = 28.5 bits (62), Expect = 1.0, Method: Composition-based stats.
Identities = 14/44 (31%), Positives = 21/44 (47%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRRLMETR 75
L I NV D G Y C+A N +G + + + V + L E +
Sbjct: 277 LRITNVSEEDSGEYFCLASNKMGSIRHTISVRVKAAPYWLDEPK 320
Score = 26.9 bits (58), Expect = 3.2, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 81 LTIKNVQSTDFGNYSCVADNNLGRAK 106
L I NV D G Y C+A N +G +
Sbjct: 277 LRITNVSEEDSGEYFCLASNKMGSIR 302
>pdb|1AD9|L Chain L, Igg-Fab Fragment Of Engineered Human Monoclonal Antibody
Ctm01
pdb|1AD9|A Chain A, Igg-Fab Fragment Of Engineered Human Monoclonal Antibody
Ctm01
Length = 219
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 23/49 (46%), Gaps = 5/49 (10%)
Query: 54 GRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
G+A K + L+ V R G + TLTI ++Q DF Y C+
Sbjct: 46 GKAPKLLMYRMSNLASGVPSRFSGSGSGTEFTLTISSLQPDDFATYYCM 94
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 14/22 (63%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCV 48
G + TLTI ++Q DF Y C+
Sbjct: 73 GTEFTLTISSLQPDDFATYYCM 94
>pdb|1RIH|L Chain L, Crystal Structure Of Fab 14f7, A Unique Anti-Tumor
Antibody Specific For N-Glycolyl Gm3
Length = 214
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/44 (36%), Positives = 22/44 (50%), Gaps = 1/44 (2%)
Query: 58 KYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 100
KY S+S + R G TL+I +V++ DFG Y C N
Sbjct: 49 KYASQSISGIPSRFSGSGSGTDFTLSISSVETEDFGMYFCQQSN 92
Score = 26.2 bits (56), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADN 51
G TL+I +V++ DFG Y C N
Sbjct: 68 GTDFTLSISSVETEDFGMYFCQQSN 92
>pdb|2ZNX|A Chain A, 5-Fluorotryptophan Incorporated Scfv10 Complexed To Hen
Egg Lysozyme
pdb|2ZNX|B Chain B, 5-Fluorotryptophan Incorporated Scfv10 Complexed To Hen
Egg Lysozyme
Length = 242
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 58 KYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
KY S+S + R G TL+I +V++ DFG Y C N+
Sbjct: 49 KYASQSISGIPSRFSGSGSGTDFTLSINSVETEDFGMYFCQQSNS 93
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNN 52
G TL+I +V++ DFG Y C N+
Sbjct: 68 GTDFTLSINSVETEDFGMYFCQQSNS 93
>pdb|3HFM|L Chain L, Structure Of An Antibody-Antigen Complex. Crystal
Structure Of The HyHEL-10 Fab-Lysozyme Complex
Length = 214
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 58 KYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
KY S+S + R G TL+I +V++ DFG Y C N+
Sbjct: 49 KYASQSISGIPSRFSGSGSGTDFTLSINSVETEDFGMYFCQQSNS 93
Score = 25.8 bits (55), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNN 52
G TL+I +V++ DFG Y C N+
Sbjct: 68 GTDFTLSINSVETEDFGMYFCQQSNS 93
>pdb|3DAR|A Chain A, Crystal Structure Of D2 Domain From Human Fgfr2
pdb|3DAR|B Chain B, Crystal Structure Of D2 Domain From Human Fgfr2
Length = 105
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 28 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
N+H +L +++V +D GNY+CV +N G L V
Sbjct: 67 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 104
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 20/28 (71%), Gaps = 1/28 (3%)
Query: 77 NKH-TLTIKNVQSTDFGNYSCVADNNLG 103
N+H +L +++V +D GNY+CV +N G
Sbjct: 67 NQHWSLIMESVVPSDKGNYTCVVENEYG 94
>pdb|3D9A|L Chain L, High Resolution Crystal Structure Structure Of Hyhel10 Fab
Complexed To Hen Egg Lysozyme
Length = 213
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 58 KYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
KY S+S + R G TL+I +V++ DFG Y C N+
Sbjct: 49 KYASQSISGIPSRFSGSGSGTDFTLSINSVETEDFGMYFCQQSNS 93
Score = 25.8 bits (55), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNN 52
G TL+I +V++ DFG Y C N+
Sbjct: 68 GTDFTLSINSVETEDFGMYFCQQSNS 93
>pdb|3U0T|C Chain C, Fab-Antibody Complex
pdb|3U0T|A Chain A, Fab-Antibody Complex
Length = 219
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
++P V DR G TL I V++ D G Y C+
Sbjct: 59 LDPGVPDRFSGSGSGTDFTLKISRVEAEDVGVYYCL 94
>pdb|3PXJ|A Chain A, Tandem Ig Repeats Of Dlar
pdb|3PXJ|B Chain B, Tandem Ig Repeats Of Dlar
pdb|3PXJ|C Chain C, Tandem Ig Repeats Of Dlar
pdb|3PXJ|D Chain D, Tandem Ig Repeats Of Dlar
Length = 210
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 24/44 (54%), Gaps = 3/44 (6%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLG-RAKKYMELSVSVSDRRLMET 74
L I+N + D G Y CVA+N++G K L V V RR+ T
Sbjct: 167 LQIENSREEDQGKYECVAENSMGTEHSKATNLYVKV--RRVPPT 208
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 81 LTIKNVQSTDFGNYSCVADNNLG 103
L I+N + D G Y CVA+N++G
Sbjct: 167 LQIENSREEDQGKYECVAENSMG 189
>pdb|2EDQ|A Chain A, Solution Structure Of The Ig-Like Domain (3713-3806) Of
Human Obscurin
Length = 107
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 26/56 (46%), Gaps = 4/56 (7%)
Query: 19 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRRLMET 74
DR + G++ L I+ + D G YSCV G+ + L+V R +E+
Sbjct: 51 DRHSLRQDGSRCELQIRGLAVVDAGEYSCVC----GQERTSATLTVRALPARFIES 102
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 16/30 (53%)
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
DR + G++ L I+ + D G YSCV
Sbjct: 51 DRHSLRQDGSRCELQIRGLAVVDAGEYSCV 80
>pdb|1OPG|L Chain L, Opg2 Fab Fragment
pdb|1BM3|L Chain L, Immunoglobulin Opg2 Fab-Peptide Complex
Length = 214
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 58 KYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
KY S+S + R G TL+I +V++ DFG Y C N+
Sbjct: 49 KYASQSISGIPSRFSGSGSGTDFTLSINSVETEDFGMYFCQQSNS 93
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNN 52
G TL+I +V++ DFG Y C N+
Sbjct: 68 GTDFTLSINSVETEDFGMYFCQQSNS 93
>pdb|1WVZ|A Chain A, Solution Structure Of The D2 Domain Of The Fibroblast
Growth Factor
Length = 104
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 22/38 (57%), Gaps = 1/38 (2%)
Query: 28 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
N+H +L +++V +D GNY+CV +N G L V
Sbjct: 66 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 103
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 20/28 (71%), Gaps = 1/28 (3%)
Query: 77 NKH-TLTIKNVQSTDFGNYSCVADNNLG 103
N+H +L +++V +D GNY+CV +N G
Sbjct: 66 NQHWSLIMESVVPSDKGNYTCVVENEYG 93
>pdb|1FDL|L Chain L, Crystallographic Refinement Of The Three-Dimensional
Structure Of The Fab D1.3-Lysozyme Complex At 2.5-
Angstroms Resolution
Length = 214
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG+Y C
Sbjct: 78 LQPEDFGSYYC 88
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 24/56 (42%), Gaps = 12/56 (21%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T + V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKQGKSPQLLVYYTTTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYC 88
>pdb|3MBX|L Chain L, Crystal Structure Of Chimeric Antibody X836
Length = 220
Score = 28.5 bits (62), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 37/90 (41%), Gaps = 9/90 (10%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQSTDFGN----YSCVADNNLGRAKKYMELSVS-----V 66
S S L + G K T++ K+ QS + N Y G++ K + S V
Sbjct: 5 SQSPSSLAVSVGEKVTMSCKSSQSLLYNNNQKNYLAWYQQKPGQSPKLLIYWASTRESGV 64
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
DR G TLTI +V++ D Y C
Sbjct: 65 PDRFTGSGSGTDFTLTISSVKAEDLAVYYC 94
>pdb|1XGP|A Chain A, Structure For Antibody Hyhel-63 Y33a Mutant Complexed With
Hen Egg Lysozyme
pdb|1XGQ|A Chain A, Structure For Antibody Hyhel-63 Y33v Mutant Complexed With
Hen Egg Lysozyme
pdb|1XGR|A Chain A, Structure For Antibody Hyhel-63 Y33i Mutant Complexed With
Hen Egg Lysozyme
pdb|1XGT|A Chain A, Structure For Antibody Hyhel-63 Y33l Mutant Complexed With
Hen Egg Lysozyme
Length = 215
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 58 KYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
KY S+S + R G TL+I +V++ DFG Y C N+
Sbjct: 50 KYASQSISGIPSRFSGSGSGTDFTLSINSVETEDFGMYFCQQSNS 94
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNN 52
G TL+I +V++ DFG Y C N+
Sbjct: 69 GTDFTLSINSVETEDFGMYFCQQSNS 94
>pdb|1DQJ|A Chain A, Crystal Structure Of The Anti-Lysozyme Antibody Hyhel-63
Complexed With Hen Egg White Lysozyme
pdb|1DQM|L Chain L, Crystal Structure Of Anti-Lysozyme Antibody
pdb|1DQQ|A Chain A, Crystal Structure Of Anti-Lysozyme Antibody Hyhel-63
pdb|1DQQ|C Chain C, Crystal Structure Of Anti-Lysozyme Antibody Hyhel-63
pdb|1NBY|A Chain A, Crystal Structure Of Hyhel-63 Complexed With Hel Mutant
K96a
pdb|1NBZ|A Chain A, Crystal Structure Of Hyhel-63 Complexed With Hel Mutant
K97a
pdb|1NDG|A Chain A, Crystal Structure Of Fab Fragment Of Antibody Hyhel-8
Complexed With Its Antigen Lysozyme
pdb|1NDM|A Chain A, Crystal Structure Of Fab Fragment Of Antibody Hyhel-26
Complexed With Lysozyme
pdb|1XGU|A Chain A, Structure For Antibody Hyhel-63 Y33f Mutant Complexed With
Hen Egg Lysozyme
Length = 214
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 58 KYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
KY S+S + R G TL+I +V++ DFG Y C N+
Sbjct: 49 KYASQSISGIPSRFSGSGSGTDFTLSINSVETEDFGMYFCQQSNS 93
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNN 52
G TL+I +V++ DFG Y C N+
Sbjct: 68 GTDFTLSINSVETEDFGMYFCQQSNS 93
>pdb|3OJM|B Chain B, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr2b Harboring P253r Apert Mutation
Length = 231
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 20/28 (71%), Gaps = 1/28 (3%)
Query: 77 NKH-TLTIKNVQSTDFGNYSCVADNNLG 103
N+H +L +++V +D GNY+CV +N G
Sbjct: 73 NQHWSLIMESVVPSDKGNYTCVVENEYG 100
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 28 NKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
N L + NV D G Y C N +G+A + L+V
Sbjct: 183 NAEVLALFNVTEADAGEYICKVSNYIGQANQSAWLTV 219
Score = 26.2 bits (56), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 77 NKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSEL 114
N L + NV D G Y C N +G+A + L+ L
Sbjct: 183 NAEVLALFNVTEADAGEYICKVSNYIGQANQSAWLTVL 220
>pdb|3OJ2|C Chain C, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr2b Harboring The A172f Pfeiffer Syndrome Mutation
pdb|3OJ2|D Chain D, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr2b Harboring The A172f Pfeiffer Syndrome Mutation
Length = 231
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 23/40 (57%), Gaps = 1/40 (2%)
Query: 77 NKH-TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
N+H +L +++V +D GNY+CV +N G L +E
Sbjct: 73 NQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVE 112
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 28 NKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
N L + NV D G Y C N +G+A + L+V
Sbjct: 183 NAEVLALFNVTEADAGEYICKVSNYIGQANQSAWLTV 219
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 77 NKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSEL 114
N L + NV D G Y C N +G+A + L+ L
Sbjct: 183 NAEVLALFNVTEADAGEYICKVSNYIGQANQSAWLTVL 220
>pdb|1YY8|A Chain A, Crystal Structure Of The Fab Fragment From The Monoclonal
Antibody CetuximabERBITUXIMC-C225
pdb|1YY8|C Chain C, Crystal Structure Of The Fab Fragment From The Monoclonal
Antibody CetuximabERBITUXIMC-C225
pdb|1YY9|C Chain C, Structure Of The Extracellular Domain Of The Epidermal
Growth Factor Receptor In Complex With The Fab Fragment
Of Cetuximab/erbitux/imc- C225
Length = 213
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/45 (35%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 58 KYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
KY S+S + R G TL+I +V+S D +Y C +NN
Sbjct: 49 KYASESISGIPSRFSGSGSGTDFTLSINSVESEDIADYYCQQNNN 93
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNN 52
G TL+I +V+S D +Y C +NN
Sbjct: 68 GTDFTLSINSVESEDIADYYCQQNNN 93
>pdb|4DKD|C Chain C, Crystal Structure Of Human Interleukin-34 Bound To Human
Csf-1r
Length = 292
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 22/47 (46%), Gaps = 7/47 (14%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRRLMETRGN 77
TL + V GNYSCVA N G+ M R++E+ GN
Sbjct: 246 TLNLDQVDFQHAGNYSCVASNVQGKHSTSMFF-------RVVESAGN 285
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 17/36 (47%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
TL + V GNYSCVA N G+ M +E
Sbjct: 246 TLNLDQVDFQHAGNYSCVASNVQGKHSTSMFFRVVE 281
>pdb|1DFB|L Chain L, Structure Of A Human Monoclonal Antibody Fab Fragment
Against Gp41 Of Human Immunodeficiency Virus Type I
Length = 212
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 36/89 (40%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ T+T + QS + G+ K + L V
Sbjct: 2 IQMTQSPSTLSASVGDRVTITCRASQS--ISRWLAWYQQKPGKVPKLLIYKASSLESGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G + TLTI ++Q DF Y C
Sbjct: 60 SRFSGSGSGTEFTLTISSLQPDDFATYYC 88
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/56 (32%), Positives = 23/56 (41%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ LI E V R G + TLTI ++Q DF Y C
Sbjct: 33 LAWYQQKPGKVPKLLIYKASSLESGVPSRFSGSGSGTEFTLTISSLQPDDFATYYC 88
>pdb|2FJH|L Chain L, Structure Of The B20-4 Fab, A Phage Derived Fab Fragment,
In Complex With Vegf
pdb|2FJH|A Chain A, Structure Of The B20-4 Fab, A Phage Derived Fab Fragment,
In Complex With Vegf
Length = 214
Score = 28.5 bits (62), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/52 (32%), Positives = 22/52 (42%), Gaps = 5/52 (9%)
Query: 54 GRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 100
G+A K + L+ V R G TLTI ++Q DF Y C N
Sbjct: 41 GKAPKLLIYAASNLASGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQSN 92
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/60 (28%), Positives = 21/60 (35%), Gaps = 12/60 (20%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ P V R G TLTI ++Q DF Y C N
Sbjct: 33 LAWYQQKPGKAPKLLIYAASNLASGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQSN 92
>pdb|4I77|L Chain L, Lebrikizumab Fab Bound To Il-13
Length = 218
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 25/65 (38%), Gaps = 12/65 (18%)
Query: 3 MMSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 50
M WYQ LI E V DR G TLTI ++Q+ D Y C +
Sbjct: 36 FMHWYQQKPGQPPKLLIYLASNLESGVPDRFSGSGSGTDFTLTISSLQAEDVAVYYCQQN 95
Query: 51 NNLGR 55
N R
Sbjct: 96 NEDPR 100
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 19/43 (44%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
L V DR G TLTI ++Q+ D Y C +N R
Sbjct: 58 LESGVPDRFSGSGSGTDFTLTISSLQAEDVAVYYCQQNNEDPR 100
>pdb|1JGL|L Chain L, Crystal Structure Of Immunoglobulin Fab Fragment
Complexed With 17-Beta-Estradiol
pdb|1JHK|L Chain L, Crystal Structure Of The Anti-Estradiol Antibody 57-2
Length = 214
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 31/71 (43%), Gaps = 5/71 (7%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGNKHTLTIKN 85
T+TI S + NY G++ + + L+ V R G +++L I +
Sbjct: 18 TVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKTLADGVPSRFSGSGSGTQYSLKINS 77
Query: 86 VQSTDFGNYSC 96
+Q DFG Y C
Sbjct: 78 LQPEDFGTYYC 88
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 16/31 (51%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
V R G +++L I ++Q DFG Y C
Sbjct: 58 VPSRFSGSGSGTQYSLKINSLQPEDFGTYYC 88
>pdb|2YD1|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Drosophila Receptor Protein Tyrosine Phosphatase Dlar
Length = 212
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLG 54
L I+N + D G Y CVA+N++G
Sbjct: 165 LQIENSREEDQGKYECVAENSMG 187
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 11/23 (47%), Positives = 16/23 (69%)
Query: 81 LTIKNVQSTDFGNYSCVADNNLG 103
L I+N + D G Y CVA+N++G
Sbjct: 165 LQIENSREEDQGKYECVAENSMG 187
>pdb|1JNL|L Chain L, Crystal Structure Of Fab-Estradiol Complexes
pdb|1JNN|L Chain L, Crystal Structure Of Fab-Estradiol Complexes
Length = 211
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 27 GNKHTLTIKNVQSTDFGNYSC 47
G +++L I ++Q DFGNY C
Sbjct: 68 GTQYSLKINSLQPEDFGNYYC 88
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 15/21 (71%)
Query: 76 GNKHTLTIKNVQSTDFGNYSC 96
G +++L I ++Q DFGNY C
Sbjct: 68 GTQYSLKINSLQPEDFGNYYC 88
>pdb|1F90|L Chain L, Fab Fragment Of Monoclonal Antibody (Lnkb-2) Against Human
Interleukin-2 In Complex With Antigenic Peptide
pdb|1F8T|L Chain L, Fab (Lnkb-2) Of Monoclonal Antibody, Crystal Structure
pdb|1S5I|L Chain L, Fab (Lnkb-2) Of Monoclonal Antibody To Human
Interleukin-2, Crystal Structure
Length = 219
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 15/44 (34%), Positives = 19/44 (43%)
Query: 61 ELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
+L V DR G TL I V++ D G Y CV + R
Sbjct: 58 KLDSGVPDRFTGSGSGTDFTLRISRVEAEDLGVYYCVQGTHFPR 101
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 19/43 (44%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 55
++ V DR G TL I V++ D G Y CV + R
Sbjct: 59 LDSGVPDRFTGSGSGTDFTLRISRVEAEDLGVYYCVQGTHFPR 101
>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 = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 34/80 (42%), Gaps = 17/80 (21%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC-VADNN--------------LGRAKKYME 61
+ DR GN TLTI V++ D +Y C V D+N LG+ K
Sbjct: 57 IPDRFSGSNSGNTATLTISRVEAGDEADYYCQVWDSNSDHVVFGGGTQLTVLGQPK--AA 114
Query: 62 LSVSVSDRRLMETRGNKHTL 81
SV++ E + NK TL
Sbjct: 115 PSVTLFPPSSEELQANKATL 134
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC-VADNN 101
+ DR GN TLTI V++ D +Y C V D+N
Sbjct: 57 IPDRFSGSNSGNTATLTISRVEAGDEADYYCQVWDSN 93
>pdb|2J88|L Chain L, Hyaluronidase In Complex With A Monoclonal Igg Fab
Fragment
Length = 213
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 18/35 (51%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
L+ V R G + +L I ++Q DFGNY C
Sbjct: 54 LAEGVPSRFSGSGSGTQFSLKISSLQPEDFGNYYC 88
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/56 (28%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ P V R G + +L I ++Q DFGNY C
Sbjct: 33 LTWYQQKQGKSPQLLVYNAKTLAEGVPSRFSGSGSGTQFSLKISSLQPEDFGNYYC 88
>pdb|2VC2|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound
To Antagonist L-739758
pdb|2VDK|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDL|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDM|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound
To Antagonist Tirofiban
pdb|2VDN|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound
To Antagonist Eptifibatide
pdb|2VDO|L Chain L, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen
Gamma Chain Peptide, Hhlggakqagdv
pdb|2VDP|L Chain L, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen
Gamma Chain Peptide,Lggakqagdv
pdb|2VDQ|L Chain L, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Hhlggakqrgdv
pdb|2VDR|L Chain L, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Lggakqrgdv
pdb|3NID|F Chain F, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist
That Does Not Induce Opening
pdb|3NID|L Chain L, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist
That Does Not Induce Opening
pdb|3NIF|F Chain F, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not
Induce Opening
pdb|3NIF|L Chain L, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not
Induce Opening
pdb|3NIG|F Chain F, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not
Induce Opening
pdb|3NIG|L Chain L, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not
Induce Opening
pdb|3T3M|F Chain F, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3M|L Chain L, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|F Chain F, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|L Chain L, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
Length = 214
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 26/48 (54%), Gaps = 3/48 (6%)
Query: 1 MGMMSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
MG++ Y T L++ V R G ++LTI ++ S DF +Y CV
Sbjct: 45 MGLI--YYGTNLVD-GVPSRFSGSGSGADYSLTISSLDSEDFADYYCV 89
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 17/32 (53%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
V R G ++LTI ++ S DF +Y CV
Sbjct: 58 VPSRFSGSGSGADYSLTISSLDSEDFADYYCV 89
>pdb|1PY9|A Chain A, The Crystal Structure Of An Autoantigen In Multiple
Sclerosis
Length = 116
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 22/37 (59%)
Query: 28 NKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
K TL I+NV+ +D G Y+C ++ + + MEL V
Sbjct: 78 GKVTLRIQNVRFSDEGGYTCFFRDHSYQEEAAMELKV 114
Score = 26.6 bits (57), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 21/35 (60%)
Query: 77 NKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 111
K TL I+NV+ +D G Y+C ++ + + MEL
Sbjct: 78 GKVTLRIQNVRFSDEGGYTCFFRDHSYQEEAAMEL 112
>pdb|3PIQ|L Chain L, Crystal Structure Of Human 2909 Fab, A Quaternary
Structure-Specific Antibody Against Hiv-1
pdb|3PIQ|B Chain B, Crystal Structure Of Human 2909 Fab, A Quaternary
Structure-Specific Antibody Against Hiv-1
pdb|3PIQ|D Chain D, Crystal Structure Of Human 2909 Fab, A Quaternary
Structure-Specific Antibody Against Hiv-1
pdb|3PIQ|F Chain F, Crystal Structure Of Human 2909 Fab, A Quaternary
Structure-Specific Antibody Against Hiv-1
pdb|3PIQ|I Chain I, Crystal Structure Of Human 2909 Fab, A Quaternary
Structure-Specific Antibody Against Hiv-1
pdb|3PIQ|K Chain K, Crystal Structure Of Human 2909 Fab, A Quaternary
Structure-Specific Antibody Against Hiv-1
Length = 211
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 34/80 (42%), Gaps = 17/80 (21%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC-VADNN--------------LGRAKKYME 61
+ DR GN TLTI V++ D +Y C V D+N LG+ K
Sbjct: 57 IPDRFSGSNSGNTATLTISRVEAGDEADYYCQVWDSNSDHVVFGGGTQLTVLGQPK--AA 114
Query: 62 LSVSVSDRRLMETRGNKHTL 81
SV++ E + NK TL
Sbjct: 115 PSVTLFPPSSEELQANKATL 134
Score = 26.9 bits (58), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 20/37 (54%), Gaps = 1/37 (2%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC-VADNN 101
+ DR GN TLTI V++ D +Y C V D+N
Sbjct: 57 IPDRFSGSNSGNTATLTISRVEAGDEADYYCQVWDSN 93
>pdb|1HIL|A Chain A, Structural Evidence For Induced Fit As A Mechanism For
Antigen-Antibody Recognition
pdb|1HIL|C Chain C, Structural Evidence For Induced Fit As A Mechanism For
Antigen-Antibody Recognition
pdb|1HIM|H Chain H, Structural Evidence For Induced Fit As A Mechanism For
Antibody-Antigen Recognition
pdb|1HIM|J Chain J, Structural Evidence For Induced Fit As A Mechanism For
Antibody-Antigen Recognition
pdb|1HIN|L Chain L, Structural Evidence For Induced Fit As A Mechanism For
Antibody-Antigen Recognition
Length = 217
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 24/59 (40%), Gaps = 12/59 (20%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 50
++WYQ LI E V DR G TLTI +VQ+ D Y C D
Sbjct: 39 LTWYQQKPGQPPKVLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQND 97
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 36/91 (39%), Gaps = 9/91 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST-DFG---NYSCVADNNLGRAKKYMELSVS-----VSD 68
S L T G K T++ + QS + G NY G+ K + S V D
Sbjct: 7 SPSSLTVTAGEKVTMSCTSSQSLFNSGKQKNYLTWYQQKPGQPPKVLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 99
R G TLTI +VQ+ D Y C D
Sbjct: 67 RFTGSGSGTDFTLTISSVQAEDLAVYYCQND 97
>pdb|3A6C|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Ln92d Complexed
With White Lysozyme
Length = 107
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 7/84 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGN----YSCVADNNLGRAKKYMELSVS-VSDRRLM 72
S L T GN +L+ + QS GN Y + + KY S+S + R
Sbjct: 7 SPATLSVTPGNSVSLSCRASQS--IGNNLHWYQQKSHESPRLLIKYASQSISGIPSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TL+I +V++ DFG Y C
Sbjct: 65 SGSGTDFTLSINSVETEDFGMYFC 88
>pdb|1IFH|L Chain L, A Detailed Analysis Of The Free And Bound Conformation
Of An Antibody: X-Ray Structures Of Anti-Peptide Fab
17(Slash)9 And Three Different Fab-Peptide Complexes
Length = 218
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 24/59 (40%), Gaps = 12/59 (20%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 50
++WYQ LI E V DR G TLTI +VQ+ D Y C D
Sbjct: 39 LTWYQQKPGQPPKVLIYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQND 97
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 36/91 (39%), Gaps = 9/91 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST-DFG---NYSCVADNNLGRAKKYMELSVS-----VSD 68
S L T G K T++ + QS + G NY G+ K + S V D
Sbjct: 7 SPSSLTVTAGEKVTMSCTSSQSLFNSGKQKNYLTWYQQKPGQPPKVLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 99
R G TLTI +VQ+ D Y C D
Sbjct: 67 RFTGSGSGTDFTLTISSVQAEDLAVYYCQND 97
>pdb|1QLR|A Chain A, Crystal Structure Of The Fab Fragment Of A Human
Monoclonal Igm Cold Agglutinin
pdb|1QLR|C Chain C, Crystal Structure Of The Fab Fragment Of A Human
Monoclonal Igm Cold Agglutinin
pdb|1DN0|A Chain A, Structure Of The Fab Fragment From A Human Igm Cold
Agglutinin
pdb|1DN0|C Chain C, Structure Of The Fab Fragment From A Human Igm Cold
Agglutinin
Length = 215
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 32/84 (38%), Gaps = 6/84 (7%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLM 72
S L + G + TL+ QS NY G+A + + S + DR
Sbjct: 7 SPATLSLSPGERATLSCGASQSVS-SNYLAWYQQKPGQAPRLLIYDASSRATGIPDRFSG 65
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI ++ DF Y C
Sbjct: 66 SGSGTDFTLTISRLEPEDFAVYYC 89
>pdb|3EOT|L Chain L, Crystal Structure Of Lac031, An Engineered Anti-Vla1 Fab
Length = 215
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 54 GRAKK---YM--ELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
G+A K Y+ L+ V R G +TLTI ++Q DF Y C
Sbjct: 42 GKAPKPWIYLTSNLASGVPSRFSGSGSGTDYTLTISSLQPEDFATYYC 89
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 15/31 (48%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
V R G +TLTI ++Q DF Y C
Sbjct: 59 VPSRFSGSGSGTDYTLTISSLQPEDFATYYC 89
>pdb|2YUZ|A Chain A, Solution Structure Of 4th Immunoglobulin Domain Of Slow
Type Myosin-Binding Protein C
Length = 100
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 30/66 (45%), Gaps = 5/66 (7%)
Query: 38 QSTDFGNYSC----VADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGN 93
Q+ + G C +++N G+ K L V SDR + +G H L I N + D G+
Sbjct: 17 QTVNLGKEICLKCEISENIPGKWTKN-GLPVQESDRLKVVQKGRIHKLVIANALTEDEGD 75
Query: 94 YSCVAD 99
Y D
Sbjct: 76 YVFAPD 81
>pdb|1C5B|L Chain L, Decarboxylase Catalytic Antibody 21d8 Unliganded Form
pdb|1C5C|L Chain L, Decarboxylase Catalytic Antibody 21d8-Hapten Complex
Length = 214
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 16 SVSDRRLMETR-GNKHTLTIKNVQSTDFGNYSCVADNNLGR 55
S + +R +R G+ ++LTI +++S DF +Y C+ + R
Sbjct: 56 SGAPKRFSGSRSGSDYSLTISSLESEDFADYYCLQYASFPR 96
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 25/41 (60%), Gaps = 1/41 (2%)
Query: 65 SVSDRRLMETR-GNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
S + +R +R G+ ++LTI +++S DF +Y C+ + R
Sbjct: 56 SGAPKRFSGSRSGSDYSLTISSLESEDFADYYCLQYASFPR 96
>pdb|1YEE|L Chain L, Structure Of A Catalytic Antibody, Igg2a Fab Fragment
(D2.5)
Length = 219
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 36/88 (40%), Gaps = 8/88 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGN---YSCVADNNLGRAKKYM-----ELSVSVSDR 69
S L T G +++ K+ QS + N Y G++ K + +L V DR
Sbjct: 7 SPLTLSVTIGQPASISCKSSQSLLYSNGKTYLSWLLQRPGQSPKRLIYLVSKLDSGVPDR 66
Query: 70 RLMETRGNKHTLTIKNVQSTDFGNYSCV 97
G TL I V++ D G Y CV
Sbjct: 67 FTGSGSGTDFTLKISRVEAADLGLYYCV 94
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 17/36 (47%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
++ V DR G TL I V++ D G Y CV
Sbjct: 59 LDSGVPDRFTGSGSGTDFTLKISRVEAADLGLYYCV 94
>pdb|2B2X|L Chain L, Vla1 Rdeltah I-Domain Complexed With A Quadruple Mutant
Of The Aqc2 Fab
pdb|2B2X|M Chain M, Vla1 Rdeltah I-Domain Complexed With A Quadruple Mutant
Of The Aqc2 Fab
Length = 213
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 23/48 (47%), Gaps = 5/48 (10%)
Query: 54 GRAKK---YME--LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
G+A K Y+ L+ V R G +TLTI ++Q DF Y C
Sbjct: 40 GKAPKPWIYLTSYLASGVPSRFSGSGSGTDYTLTISSLQPEDFATYYC 87
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 18/42 (42%)
Query: 6 WYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
W T + V R G +TLTI ++Q DF Y C
Sbjct: 46 WIYLTSYLASGVPSRFSGSGSGTDYTLTISSLQPEDFATYYC 87
>pdb|4HC1|L Chain L, Crystal Structure Of A Loop Deleted Mutant Of Human
Madcam-1 D1d2 Complexed With Fab 10g3
pdb|4HC1|N Chain N, Crystal Structure Of A Loop Deleted Mutant Of Human
Madcam-1 D1d2 Complexed With Fab 10g3
Length = 214
Score = 28.1 bits (61), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 16/70 (22%), Positives = 29/70 (41%), Gaps = 16/70 (22%)
Query: 44 NYSCVADNNLGRAKKYME----------------LSVSVSDRRLMETRGNKHTLTIKNVQ 87
+++C A +GR +++ L V R G ++LTI ++
Sbjct: 20 SFTCHASQGIGRNIGWLQQKPGKSFKGLIYHGTNLKDGVPSRFSGSGSGADYSLTISRIE 79
Query: 88 STDFGNYSCV 97
S DF +Y C+
Sbjct: 80 SEDFADYYCI 89
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 17/32 (53%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
V R G ++LTI ++S DF +Y C+
Sbjct: 58 VPSRFSGSGSGADYSLTISRIESEDFADYYCI 89
>pdb|1LIL|A Chain A, Bence Jones Protein Cle, A Lambda Iii Immunoglobulin
Light- Chain Dimer
pdb|1LIL|B Chain B, Bence Jones Protein Cle, A Lambda Iii Immunoglobulin
Light- Chain Dimer
Length = 212
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 34/79 (43%), Gaps = 16/79 (20%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC-VADNN-------------LGRAKKYMEL 62
+ +R + GN TLTI Q+ D +Y C V D+N LG+ K
Sbjct: 56 IPERFSGSSSGNTATLTISGTQTLDEADYYCQVWDSNASVVFGGGTKLTVLGQPK--AAP 113
Query: 63 SVSVSDRRLMETRGNKHTL 81
SV++ E + NK TL
Sbjct: 114 SVTLFPPSSEELQANKATL 132
>pdb|3OKK|A Chain A, Crystal Structure Of S25-39 In Complex With Kdo(2.4)kdo
Length = 220
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 24/62 (38%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G LTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFALTISSVQAEDLAVYYCKQSY 98
Query: 52 NL 53
NL
Sbjct: 99 NL 100
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 35/94 (37%), Gaps = 9/94 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L + G K T+ K+ QS NY G++ K + S V D
Sbjct: 7 SPSSLAVSAGEKVTMNCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G LTI +VQ+ D Y C NL
Sbjct: 67 RFTGSGSGTDFALTISSVQAEDLAVYYCKQSYNL 100
>pdb|3OKD|A Chain A, Crystal Structure Of S25-39 In Complex With Kdo
pdb|3OKE|A Chain A, Crystal Structure Of S25-39 In Complex With Ko
pdb|3OKL|A Chain A, Crystal Structure Of S25-39 In Complex With Kdo(2.8)kdo
pdb|3OKM|A Chain A, Crystal Structure Of Unliganded S25-39
pdb|3OKN|A Chain A, Crystal Structure Of S25-39 In Complex With
Kdo(2.4)kdo(2.4)kdo
pdb|3OKO|A Chain A, Crystal Structure Of S25-39 In Complex With
Kdo(2.8)kdo(2.4)kdo
Length = 219
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 24/62 (38%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ LI E V DR G LTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFALTISSVQAEDLAVYYCKQSY 98
Query: 52 NL 53
NL
Sbjct: 99 NL 100
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 35/94 (37%), Gaps = 9/94 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L + G K T+ K+ QS NY G++ K + S V D
Sbjct: 7 SPSSLAVSAGEKVTMNCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G LTI +VQ+ D Y C NL
Sbjct: 67 RFTGSGSGTDFALTISSVQAEDLAVYYCKQSYNL 100
>pdb|3O2D|L Chain L, Crystal Structure Of Hiv-1 Primary Receptor Cd4 In
Complex With A Potent Antiviral Antibody
Length = 219
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 36/88 (40%), Gaps = 9/88 (10%)
Query: 18 SDRRLMETRGNKHTLTIKNVQS----TDFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L + G + T+ K+ QS T+ NY G++ K + S V D
Sbjct: 7 SPDSLAVSLGERVTMNCKSSQSLLYSTNQKNYLAWYQQKPGQSPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI +VQ+ D Y C
Sbjct: 67 RFSGSGSGTDFTLTISSVQAEDVAVYYC 94
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 23/56 (41%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKLLIYWASTRESGVPDRFSGSGSGTDFTLTISSVQAEDVAVYYC 94
>pdb|1VGE|L Chain L, Tr1.9 Fab Fragment Of A Human Igg1 Kappa Autoantibody
pdb|1IGA|C Chain C, Model Of Human Iga1 Determined By Solution Scattering
Curve- Fitting And Homology Modelling
pdb|1IGA|D Chain D, Model Of Human Iga1 Determined By Solution Scattering
Curve- Fitting And Homology Modelling
pdb|1R70|A Chain A, Model Of Human Iga2 Determined By Solution Scattering,
Curve Fitting And Homology Modelling
pdb|1R70|C Chain C, Model Of Human Iga2 Determined By Solution Scattering,
Curve Fitting And Homology Modelling
pdb|2ESG|L Chain L, Solution Structure Of The Complex Between Immunoglobulin
Iga1 And Human Serum Albumin
pdb|2ESG|M Chain M, Solution Structure Of The Complex Between Immunoglobulin
Iga1 And Human Serum Albumin
pdb|2QTJ|L Chain L, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|2QTJ|M Chain M, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|2QTJ|N Chain N, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|2QTJ|O Chain O, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|3CHN|L Chain L, Solution Structure Of Human Secretory Iga1
pdb|3CHN|M Chain M, Solution Structure Of Human Secretory Iga1
pdb|3CHN|N Chain N, Solution Structure Of Human Secretory Iga1
pdb|3CHN|O Chain O, Solution Structure Of Human Secretory Iga1
pdb|3CM9|L Chain L, Solution Structure Of Human Siga2
pdb|3CM9|M Chain M, Solution Structure Of Human Siga2
pdb|3CM9|N Chain N, Solution Structure Of Human Siga2
pdb|3CM9|O Chain O, Solution Structure Of Human Siga2
Length = 214
Score = 28.1 bits (61), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ D +E V R G TLTI ++Q DF Y C
Sbjct: 33 LAWYQQKPGKAPRLLIYDASNLESGVPSRFSGSGSGTDFTLTISSLQPEDFAIYYC 88
>pdb|1B4J|L Chain L, Comparison Of The Three-Dimensional Structures Of A
Humanized And A Chimeric Fab Of An
Anti-Gamma-Interferon Antibody
Length = 214
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 21/56 (37%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+SWYQ P V DR TLTI +VQ+ D +Y C
Sbjct: 33 VSWYQQKPEQSPKLLIYGASNRYTGVPDRFTGSGSATDFTLTISSVQAEDLADYHC 88
>pdb|2DTG|B Chain B, Insulin Receptor (Ir) Ectodomain In Complex With Fab's
pdb|3LOH|B Chain B, Structure Of The Insulin Receptor Ectodomain, Including
Ct P
Length = 219
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 9/90 (10%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQSTDFG----NYSCVADNNLGRAKKYMELSVS-----V 66
S S L+ + G K T++ K+ QS + N+ G++ K + S V
Sbjct: 5 SQSPSSLVVSVGEKVTMSCKSSQSLLYSSNQKNFLAWYQQKPGQSPKLLIYWASTRESGV 64
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
DR G TLTI +V++ D Y C
Sbjct: 65 PDRFTGSGSGTDFTLTISSVKAEDLAVYYC 94
>pdb|2VXQ|L Chain L, Crystal Structure Of The Major Grass Pollen Allergen Phl
P 2 In Complex With Its Specific Ige-Fab
Length = 214
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
IE + S L + G++ T++ + Q + Y + G+A K + L V
Sbjct: 2 IEMTQSPSSLSASVGDRVTISCRASQRIN--TYLNWYQHKPGKAPKLLIYAASSLQSGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF +Y C
Sbjct: 60 SRFSGSGYGTDFTLTISSLQPEDFASYYC 88
>pdb|4F9P|D Chain D, Crystal Structure Of The Human Btn3a1 Ectodomain In
Complex With The 103.2 Single Chain Antibody
pdb|4F9P|C Chain C, Crystal Structure Of The Human Btn3a1 Ectodomain In
Complex With The 103.2 Single Chain Antibody
Length = 254
Score = 27.7 bits (60), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 58 KYMELSV-SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
KY S+ + R G + TL+I +V++ DFG Y C N+
Sbjct: 185 KYASQSIFGIPSRFSGSGSGTEFTLSINSVETEDFGIYFCQQSNS 229
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 17/26 (65%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNN 52
G + TL+I +V++ DFG Y C N+
Sbjct: 204 GTEFTLSINSVETEDFGIYFCQQSNS 229
>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 = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 31/65 (47%), Gaps = 7/65 (10%)
Query: 39 STDFGNYSCVA--DNNLGRAKKYMELSV-----SVSDRRLMETRGNKHTLTIKNVQSTDF 91
S++ G Y+ V+ + G+A K + V V DR GN +LT+ +Q+ D
Sbjct: 26 SSNVGGYNYVSWYQQHAGKAPKVIIYEVNKRPSGVPDRFSGSKSGNTASLTVSGLQAEDE 85
Query: 92 GNYSC 96
+Y C
Sbjct: 86 ADYYC 90
>pdb|1H3P|L Chain L, Structural Characterisation Of A Monoclonal Antibody
Specific For The Pres1 Region Of The Hepatitis B Virus
Length = 240
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 16/34 (47%)
Query: 14 EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
E V DR G TLTI +VQ+ D Y C
Sbjct: 61 ESGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYC 94
>pdb|4G6F|L Chain L, Crystal Structure Of 10e8 Fab In Complex With An Hiv-1
Gp41 Peptide
pdb|4G6F|D Chain D, Crystal Structure Of 10e8 Fab In Complex With An Hiv-1
Gp41 Peptide
Length = 215
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 23/63 (36%), Gaps = 12/63 (19%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
SWYQ P V DR GN+ +LTI Q+ D Y C + +
Sbjct: 32 ASWYQKKPGQAPILLFYGKNNRPSGVPDRFSGSASGNRASLTISGAQAEDDAEYYCSSRD 91
Query: 52 NLG 54
G
Sbjct: 92 KSG 94
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 103
V DR GN+ +LTI Q+ D Y C + + G
Sbjct: 57 VPDRFSGSASGNRASLTISGAQAEDDAEYYCSSRDKSG 94
>pdb|1IGC|L Chain L, Igg1 Fab Fragment (Mopc21) Complex With Domain Iii Of
Protein G From Streptococcus
Length = 213
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 23/61 (37%), Gaps = 12/61 (19%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
+SWYQ P V DR TLTI +VQ+ D +Y C N
Sbjct: 33 VSWYQQKPEQSPKLLIYGASNRYTGVPDRFTGSGSATDFTLTISSVQAEDLADYHCGQGN 92
Query: 52 N 52
+
Sbjct: 93 S 93
Score = 26.6 bits (57), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 17/36 (47%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
V DR TLTI +VQ+ D +Y C N+
Sbjct: 58 VPDRFTGSGSATDFTLTISSVQAEDLADYHCGQGNS 93
>pdb|1J1O|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Ly50f Complexed
With Hen Egg White Lysozyme
Length = 107
Score = 27.7 bits (60), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 23/45 (51%), Gaps = 1/45 (2%)
Query: 58 KYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 101
K+ S+S + R G TL+I +V++ DFG Y C N+
Sbjct: 49 KFASQSISGIPSRFSGSGSGTDFTLSINSVETEDFGMYFCQQSNS 93
Score = 26.2 bits (56), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNN 52
G TL+I +V++ DFG Y C N+
Sbjct: 68 GTDFTLSINSVETEDFGMYFCQQSNS 93
>pdb|1IE5|A Chain A, Nmr Structure Of The Third Immunoglobulin Domain From The
Neural Cell Adhesion Molecule
Length = 107
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/61 (27%), Positives = 27/61 (44%), Gaps = 1/61 (1%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELS 63
M+W +D IE ++ + + L IK V +D Y C+A+N G + L
Sbjct: 45 MTWTKDGEPIEQEDNEEKY-SFNYDGSELIIKKVDKSDEAEYICIAENKAGEQDATIHLK 103
Query: 64 V 64
V
Sbjct: 104 V 104
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 15/31 (48%)
Query: 81 LTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 111
L IK V +D Y C+A+N G + L
Sbjct: 72 LIIKKVDKSDEAEYICIAENKAGEQDATIHL 102
>pdb|1U6A|L Chain L, Crystal Structure Of The Broadly Neutralizing Anti-Hiv
Fab F105
pdb|3HI1|L Chain L, Structure Of Hiv-1 Gp120 (Core With V3) In Complex With
Cd4-Binding- Site Antibody F105
pdb|3HI1|A Chain A, Structure Of Hiv-1 Gp120 (Core With V3) In Complex With
Cd4-Binding- Site Antibody F105
Length = 215
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 29/75 (38%), Gaps = 6/75 (8%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLMETRGNKHTL 81
G + TL+ + QS Y G+A + + S + DR G TL
Sbjct: 16 GERATLSCRASQSVS-SRYLAWYQQKPGQAPRLLIYGASSRATGIPDRFSGSGSGTDFTL 74
Query: 82 TIKNVQSTDFGNYSC 96
TI V+ DF Y C
Sbjct: 75 TISRVEPEDFAVYYC 89
>pdb|1UYW|L Chain L, Crystal Structure Of The Antiflavivirus Fab4g2
pdb|1UYW|N Chain N, Crystal Structure Of The Antiflavivirus Fab4g2
Length = 212
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 21/56 (37%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+SWYQ P V DR TLTI +VQ+ D +Y C
Sbjct: 33 VSWYQQKPEQSPKLLIYGASNRYTGVPDRFTGSGSATDFTLTISSVQAEDLADYHC 88
>pdb|2AJ3|A Chain A, Crystal Structure Of A Cross-Reactive Hiv-1 Neutralizing
Cd4-Binding Site Antibody Fab M18
pdb|2AJ3|C Chain C, Crystal Structure Of A Cross-Reactive Hiv-1 Neutralizing
Cd4-Binding Site Antibody Fab M18
pdb|2AJ3|E Chain E, Crystal Structure Of A Cross-Reactive Hiv-1 Neutralizing
Cd4-Binding Site Antibody Fab M18
Length = 213
Score = 27.7 bits (60), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 21/57 (36%), Gaps = 12/57 (21%)
Query: 3 MMSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ T P V R G + TLTI +Q DF Y C
Sbjct: 31 FLAWYQLTPGDAPKLLMYSASTLQSGVPSRFSGSGSGTEFTLTISGLQPEDFATYYC 87
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 20/48 (41%), Gaps = 5/48 (10%)
Query: 54 GRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
G A K + S S V R G + TLTI +Q DF Y C
Sbjct: 40 GDAPKLLMYSASTLQSGVPSRFSGSGSGTEFTLTISGLQPEDFATYYC 87
>pdb|2IFG|A Chain A, Structure Of The Extracellular Segment Of Human Trka In
Complex With Nerve Growth Factor
pdb|2IFG|B Chain B, Structure Of The Extracellular Segment Of Human Trka In
Complex With Nerve Growth Factor
Length = 347
Score = 27.7 bits (60), Expect = 1.8, Method: Composition-based stats.
Identities = 14/35 (40%), Positives = 25/35 (71%), Gaps = 1/35 (2%)
Query: 32 LTIKNVQST-DFGNYSCVADNNLGRAKKYMELSVS 65
LT+ NV S + N +C A+N++GRA+ ++++VS
Sbjct: 214 LTLANVTSDLNRKNVTCWAENDVGRAEVSVQVNVS 248
>pdb|1IGY|A Chain A, Structure Of Immunoglobulin
pdb|1IGY|C Chain C, Structure Of Immunoglobulin
Length = 213
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 21/56 (37%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+SWYQ P V DR TLTI +VQ+ D +Y C
Sbjct: 32 VSWYQQKPEQSPKLLIYGASNRYTGVPDRFTGSGSATDFTLTISSVQAEDLADYHC 87
>pdb|1FJ1|A Chain A, Lyme Disease Antigen Ospa In Complex With Neutralizing
Antibody Fab La-2
pdb|1FJ1|C Chain C, Lyme Disease Antigen Ospa In Complex With Neutralizing
Antibody Fab La-2
Length = 213
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 39/97 (40%), Gaps = 7/97 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L T G K T+T K Q D Y + G+ + + L
Sbjct: 2 IQMTQSPSSLSATLGGKVTITCKASQ--DINKYIAWYQHKPGKGPRLLIHYTSTLQPGNP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
R G ++ +I N+++ D Y C+ +NL R
Sbjct: 60 SRFSGSGSGRDYSFSISNLEAEDIAIYYCLQYDNLQR 96
Score = 26.2 bits (56), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 15/64 (23%), Positives = 27/64 (42%), Gaps = 12/64 (18%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ T ++P R G ++ +I N+++ D Y C+ +
Sbjct: 33 IAWYQHKPGKGPRLLIHYTSTLQPGNPSRFSGSGSGRDYSFSISNLEAEDIAIYYCLQYD 92
Query: 52 NLGR 55
NL R
Sbjct: 93 NLQR 96
>pdb|3GHE|L Chain L, Crystal Structure Of Anti-Hiv-1 Fab 537-10d In Complex
With V3 Peptide Mn
Length = 217
Score = 27.7 bits (60), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 31/65 (47%), Gaps = 7/65 (10%)
Query: 39 STDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDF 91
STD Y+ V+ G+A K + VS VS+R G+ +LTI +Q+ D
Sbjct: 26 STDVNGYNYVSWYQQYAGKAPKLIIFDVSKRPSGVSNRFSGSKSGDTASLTISGLQAEDE 85
Query: 92 GNYSC 96
+Y C
Sbjct: 86 ADYHC 90
>pdb|2FL5|L Chain L, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
pdb|2FL5|A Chain A, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
pdb|2FL5|C Chain C, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
pdb|2FL5|E Chain E, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
Length = 209
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 29/76 (38%), Gaps = 11/76 (14%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD-----------NNLGRAKKYMELSVS 65
+ +R + G K TLTI Q D +Y C +D L + SV+
Sbjct: 57 IPERFSGSSSGTKATLTISGAQVEDEADYYCYSDISNGYPLFGGGTKLSVGQPKAAPSVT 116
Query: 66 VSDRRLMETRGNKHTL 81
+ E + NK TL
Sbjct: 117 LFPPSSEELQANKATL 132
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 99
+ +R + G K TLTI Q D +Y C +D
Sbjct: 57 IPERFSGSSSGTKATLTISGAQVEDEADYYCYSD 90
>pdb|3LAF|A Chain A, Structure Of Dcc, A Netrin-1 Receptor
Length = 403
Score = 27.7 bits (60), Expect = 1.9, Method: Composition-based stats.
Identities = 14/33 (42%), Positives = 18/33 (54%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
L I V +D G Y CVA+N G A+ +L V
Sbjct: 367 LRILGVVKSDEGFYQCVAENEAGNAQSSAQLIV 399
Score = 26.9 bits (58), Expect = 2.9, Method: Composition-based stats.
Identities = 13/31 (41%), Positives = 17/31 (54%)
Query: 81 LTIKNVQSTDFGNYSCVADNNLGRAKKYMEL 111
L I V +D G Y CVA+N G A+ +L
Sbjct: 367 LRILGVVKSDEGFYQCVAENEAGNAQSSAQL 397
>pdb|3OJD|A Chain A, Anti-Indolicidin Monoclonal Antibody V2d2 (Fab Fragment)
Length = 214
Score = 27.7 bits (60), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 35/80 (43%), Gaps = 7/80 (8%)
Query: 22 LMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS-----VSDRRLMETRG 76
L + G T+T K S + NY G++ + + + S V R G
Sbjct: 11 LSASVGESVTITCK--ASGNIHNYLAWYQQKGGKSPQLLVFNASTLADGVPSRFSGSGSG 68
Query: 77 NKHTLTIKNVQSTDFGNYSC 96
+++L I ++Q DFG+Y C
Sbjct: 69 TQYSLKINSLQPEDFGSYYC 88
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 23/56 (41%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ P V R G +++L I ++Q DFG+Y C
Sbjct: 33 LAWYQQKGGKSPQLLVFNASTLADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYC 88
>pdb|1RZI|A Chain A, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|C Chain C, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|E Chain E, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|G Chain G, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|I Chain I, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|K Chain K, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|M Chain M, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|O Chain O, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
Length = 212
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 32/80 (40%), Gaps = 7/80 (8%)
Query: 22 LMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRG 76
L + G++ T+T + QS +Y G+ K + L V R G
Sbjct: 10 LSASVGDRVTITCRASQS--ISSYLNWYQQKPGKVPKLLIYAASSLQSGVPSRFSGSGSG 67
Query: 77 NKHTLTIKNVQSTDFGNYSC 96
TLTI ++Q DF Y C
Sbjct: 68 TDFTLTISSLQPEDFATYYC 87
>pdb|2CMR|L Chain L, Crystal Structure Of The Hiv-1 Neutralizing Antibody D5
Fab Bound To The Gp41 Inner-Core Mimetic 5-Helix
Length = 208
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 38/91 (41%), Gaps = 11/91 (12%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYM-----ELSVS 65
I+ + S L + G++ T+T + + G Y +A G+A K + L+
Sbjct: 2 IQMTQSPSTLSASIGDRVTITCRASE----GIYHWLAWYQQKPGKAPKLLIYKASSLASG 57
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G TLTI ++Q DF Y C
Sbjct: 58 APSRFSGSGSGTDFTLTISSLQPDDFATYYC 88
>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 = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 17/37 (45%)
Query: 61 ELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
+L V DR G TL I V++ D G Y CV
Sbjct: 58 KLDSGVPDRITGSGSGTDFTLKISRVEAADLGVYYCV 94
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 17/36 (47%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
++ V DR G TL I V++ D G Y CV
Sbjct: 59 LDSGVPDRITGSGSGTDFTLKISRVEAADLGVYYCV 94
>pdb|1UM4|L Chain L, Catalytic Antibody 21h3 With Hapten
pdb|1UM5|L Chain L, Catalytic Antibody 21h3 With Alcohol Substrate
pdb|1UM6|L Chain L, Catalytic Antibody 21h3
Length = 219
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 48
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 61 KRFSGSRSGSDYSLTISSLESEDFADYYCL 90
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 69 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 97
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 61 KRFSGSRSGSDYSLTISSLESEDFADYYCL 90
>pdb|2RCS|L Chain L, Immunoglobulin 48g7 Germline Fab-Affinity Maturation Of
An Esterolytic Antibody
Length = 214
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 48
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 89
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 69 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 97
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 89
>pdb|1BFO|A Chain A, Campath-1g Igg2b Rat Monoclonal Fab
pdb|1BFO|C Chain C, Campath-1g Igg2b Rat Monoclonal Fab
pdb|1BFO|E Chain E, Campath-1g Igg2b Rat Monoclonal Fab
pdb|1BFO|G Chain G, Campath-1g Igg2b Rat Monoclonal Fab
Length = 214
Score = 27.3 bits (59), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 42/103 (40%), Gaps = 9/103 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLM 72
S L + G++ TL K Q+ D Y LG + K + L + R
Sbjct: 7 SPSFLSASVGDRVTLNCKASQNID--KYLNWYQQKLGESPKLLIYNTNNLQTGIPSRFSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
G TLTI ++Q D Y C+ ++ R + + ++LE
Sbjct: 65 SGSGTDFTLTISSLQPEDVATYFCL--QHISRPRTFGTGTKLE 105
>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 = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 17/37 (45%)
Query: 61 ELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
+L V DR G TL I V++ D G Y CV
Sbjct: 58 KLDSGVPDRITGSGSGTDFTLKISRVEAADLGVYYCV 94
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 17/36 (47%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
++ V DR G TL I V++ D G Y CV
Sbjct: 59 LDSGVPDRITGSGSGTDFTLKISRVEAADLGVYYCV 94
>pdb|1AJ7|L Chain L, Immunoglobulin 48g7 Germline Fab Antibody Complexed With
Hapten 5-(Para-Nitrophenyl Phosphonate)-Pentanoic Acid.
Affinity Maturation Of An Esterolytic Antibody
Length = 214
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 48
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 89
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 69 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 97
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 89
>pdb|1ZTX|L Chain L, West Nile Virus Envelope Protein Diii In Complex With
Neutralizing E16 Antibody Fab
Length = 212
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
V DR G +TLTI +VQ+ D Y C
Sbjct: 58 VPDRFTGSGSGTDYTLTISSVQAEDLALYYC 88
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 16/31 (51%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
V DR G +TLTI +VQ+ D Y C
Sbjct: 58 VPDRFTGSGSGTDYTLTISSVQAEDLALYYC 88
>pdb|2D03|L Chain L, Crystal Structure Of The G91s Mutant Of The Nna7 Fab
Length = 217
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 5/54 (9%)
Query: 54 GRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
G++ K + VS V DR G TLTI V++ D G Y C +++
Sbjct: 46 GQSPKLLIYKVSNRFSGVPDRFSGSGSGTDFTLTISRVEAEDLGVYYCFQSSHV 99
Score = 26.9 bits (58), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 53
V DR G TLTI V++ D G Y C +++
Sbjct: 63 VPDRFSGSGSGTDFTLTISRVEAEDLGVYYCFQSSHV 99
>pdb|1GHF|L Chain L, Anti-Anti-Idiotype Gh1002 Fab Fragment
Length = 211
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNNL 53
G ++LTI N++ DF Y C N L
Sbjct: 68 GTDYSLTISNLEQEDFATYFCQQGNTL 94
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/27 (40%), Positives = 15/27 (55%)
Query: 76 GNKHTLTIKNVQSTDFGNYSCVADNNL 102
G ++LTI N++ DF Y C N L
Sbjct: 68 GTDYSLTISNLEQEDFATYFCQQGNTL 94
>pdb|3BGF|L Chain L, X-Ray Crystal Structure Of The Sars Coronavirus Spike
Receptor Binding Domain In Complex With F26g19 Fab
pdb|3BGF|C Chain C, X-Ray Crystal Structure Of The Sars Coronavirus Spike
Receptor Binding Domain In Complex With F26g19 Fab
Length = 212
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 48
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 89
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 69 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 97
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 89
>pdb|2EVR|A Chain A, Crystal Structure Of A Putative
Gamma-D-Glutamyl-L-Diamino Acid Endopeptidase
(Npun_r0659) From Nostoc Punctiforme Pcc 73102 At 1.60
A Resolution
pdb|2FG0|A Chain A, Crystal Structure Of A Putative
Gamma-D-Glutamyl-L-Diamino Acid Endopeptidase
(Npun_r0659) From Nostoc Punctiforme Pcc 73102 At 1.79
A Resolution
pdb|2FG0|B Chain B, Crystal Structure Of A Putative
Gamma-D-Glutamyl-L-Diamino Acid Endopeptidase
(Npun_r0659) From Nostoc Punctiforme Pcc 73102 At 1.79
A Resolution
Length = 246
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 14/53 (26%), Positives = 24/53 (45%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRRLMETRGNKHTLTIK 84
L+ VQ+ G Y C+AD NL + + L+ + R + N L ++
Sbjct: 16 LSEAEVQNPKLGEYQCLADLNLFDSPECTRLATQSASGRHLWVTSNHQNLAVE 68
>pdb|3LIZ|L Chain L, Crystal Structure Of Bla G 2 Complexed With Fab 4c3
Length = 211
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 37/90 (41%), Gaps = 7/90 (7%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLM 72
S + + G + T+T K Q D NY G++ K + L V R
Sbjct: 7 SPSSMYASLGERVTITCKASQ--DINNYLSWFQQKPGKSPKTLIYRADRLVDGVPSRVSG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
G ++LTI +++ D G Y C+ + L
Sbjct: 65 SGSGQDYSLTISSLEYEDLGIYYCLQYDEL 94
>pdb|3GO1|L Chain L, Crystal Structure Of Anti-Hiv-1 Fab 268-D In Complex
With V3 Peptide Mn
Length = 209
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 26/49 (53%), Gaps = 3/49 (6%)
Query: 7 YQDTFLIEPS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 54
Y+DT PS + +R T G TLTI VQ+ D +Y C + ++ G
Sbjct: 48 YKDT--KRPSGIPERFSGSTSGTTVTLTISGVQAEDEADYYCQSADSSG 94
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 20/38 (52%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 103
+ +R T G TLTI VQ+ D +Y C + ++ G
Sbjct: 57 IPERFSGSTSGTTVTLTISGVQAEDEADYYCQSADSSG 94
>pdb|3CXD|L Chain L, Crystal Structure Of Anti-Osteopontin Antibody 23c3 In
Complex With Its Epitope Peptide
pdb|3DSF|L Chain L, Crystal Structure Of Anti-Osteopontin Antibody 23c3 In
Complex With W43a Mutated Epitope Peptide
Length = 213
Score = 27.3 bits (59), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 18/35 (51%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
L+ V R G + +L I ++QS DFG Y C
Sbjct: 54 LADGVPSRFSGSGSGTQFSLKINSLQSEDFGTYYC 88
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 22/57 (38%), Gaps = 12/57 (21%)
Query: 3 MMSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ P V R G + +L I ++QS DFG Y C
Sbjct: 32 FLAWYQQKQGKSPQLLVYAATNLADGVPSRFSGSGSGTQFSLKINSLQSEDFGTYYC 88
>pdb|2ADG|A Chain A, Crystal Structure Of Monoclonal Anti-Cd4 Antibody Q425
pdb|2ADI|A Chain A, Crystal Structure Of Monoclonal Anti-Cd4 Antibody Q425
In Complex With Barium
pdb|2ADJ|A Chain A, Crystal Structure Of Monoclonal Anti-Cd4 Antibody Q425
In Complex With Calcium
Length = 214
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 18/62 (29%), Positives = 24/62 (38%), Gaps = 12/62 (19%)
Query: 4 MSWYQ------DTFLIE------PSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
M+WYQ F I P V R G TI+N+ S D +Y C+ +
Sbjct: 33 MNWYQQKPGEPPKFFISEGNTLRPGVPSRFSSSGYGTDFVFTIENMLSEDVADYYCLQSD 92
Query: 52 NL 53
L
Sbjct: 93 TL 94
>pdb|1KNO|A Chain A, Crystal Structure Of The Complex Of A Catalytic Antibody
Fab With A Transition State Analog: Structural
Similarities In Esterase-Like Abzymes
pdb|1KNO|C Chain C, Crystal Structure Of The Complex Of A Catalytic Antibody
Fab With A Transition State Analog: Structural
Similarities In Esterase-Like Abzymes
pdb|1KNO|E Chain E, Crystal Structure Of The Complex Of A Catalytic Antibody
Fab With A Transition State Analog: Structural
Similarities In Esterase-Like Abzymes
Length = 214
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 48
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 89
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 69 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 97
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 89
>pdb|3JUY|B Chain B, Crystal Structure Of A 3b3 Variant, A Broadly Neutralizing
Hiv-1 Scfv Antibody
pdb|3JUY|A Chain A, Crystal Structure Of A 3b3 Variant, A Broadly Neutralizing
Hiv-1 Scfv Antibody
pdb|3JUY|C Chain C, Crystal Structure Of A 3b3 Variant, A Broadly Neutralizing
Hiv-1 Scfv Antibody
pdb|3JUY|E Chain E, Crystal Structure Of A 3b3 Variant, A Broadly Neutralizing
Hiv-1 Scfv Antibody
pdb|3JUY|F Chain F, Crystal Structure Of A 3b3 Variant, A Broadly Neutralizing
Hiv-1 Scfv Antibody
pdb|3JUY|D Chain D, Crystal Structure Of A 3b3 Variant, A Broadly Neutralizing
Hiv-1 Scfv Antibody
Length = 256
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 15/31 (48%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+SDR G TLTI V+ DF Y C
Sbjct: 207 ISDRFSGSGSGTDFTLTITRVEPEDFALYYC 237
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 15/31 (48%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
+SDR G TLTI V+ DF Y C
Sbjct: 207 ISDRFSGSGSGTDFTLTITRVEPEDFALYYC 237
>pdb|2V9Q|A Chain A, First And Second Ig Domains From Human Robo1
pdb|2V9R|A Chain A, First And Second Ig Domains From Human Robo1 (Form 2)
Length = 212
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 39/162 (24%), Positives = 61/162 (37%), Gaps = 50/162 (30%)
Query: 4 MSWYQDTFLIEPSVSD---RRLMETRGNKHTLTIKNVQST--DFGNYSCVADNNLGRAKK 58
+ WY+ +E D R++ G+ L I + + + D G Y CVA N LG A
Sbjct: 41 IEWYKGGERVETDKDDPRSHRMLLPSGSLFFLRIVHGRKSRPDEGVYVCVARNYLGEAVS 100
Query: 59 Y---MELS--------------VSVSDRRLME---TRGNKHT------------------ 80
+ +E++ V+V + +ME RG+
Sbjct: 101 HDASLEVAILRDDFRQNPSDVMVAVGEPAVMECQPPRGHPEPTISWKKDGSPLDDKDERI 160
Query: 81 ------LTIKNVQSTDFGNYSCVADNNLG-RAKKYMELSELE 115
L I + +D G Y CV N +G R + EL+ LE
Sbjct: 161 TIRGGKLMITYTRKSDAGKYVCVGTNMVGERESEVAELTVLE 202
>pdb|1HKL|L Chain L, Free And Liganded Form Of An Esterolytic Catalytic
Antibody
Length = 214
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 48
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 89
Score = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 69 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 97
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 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 = 27.3 bits (59), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 35/83 (42%), Gaps = 17/83 (20%)
Query: 14 EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC-VADNN--------------LGRAKK 58
P + +R GN TLTI V++ D +Y C V D++ LG+ K
Sbjct: 53 PPGIPERFSGSNSGNTATLTISRVEAGDEADYYCQVWDSSSDHAVFGGGTKLTVLGQPK- 111
Query: 59 YMELSVSVSDRRLMETRGNKHTL 81
SV++ E + NK TL
Sbjct: 112 -AAPSVTLFPPSSEELQANKATL 133
>pdb|3G5V|A Chain A, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 212
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
V R G ++LTI +++S DF +Y CV
Sbjct: 58 VPSRFSGSGSGADYSLTISSLESEDFADYYCV 89
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
V R G ++LTI +++S DF +Y CV
Sbjct: 58 VPSRFSGSGSGADYSLTISSLESEDFADYYCV 89
>pdb|1GAF|L Chain L, 48g7 Hybridoma Line Fab Complexed With Hapten 5-(Para-
Nitrophenyl Phosphonate)-Pentanoic Acid
Length = 214
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 48
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 89
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 69 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 97
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 89
>pdb|3G5X|A Chain A, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
pdb|3G5X|C Chain C, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 214
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
V R G ++LTI +++S DF +Y CV
Sbjct: 58 VPSRFSGSGSGADYSLTISSLESEDFADYYCV 89
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
V R G ++LTI +++S DF +Y CV
Sbjct: 58 VPSRFSGSGSGADYSLTISSLESEDFADYYCV 89
>pdb|1MHH|A Chain A, Antibody-Antigen Complex
pdb|1MHH|C Chain C, Antibody-Antigen Complex
Length = 220
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 36/90 (40%), Gaps = 9/90 (10%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----V 66
S S L + G K T++ K+ QS NY G++ K + S V
Sbjct: 5 SQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKVLIYWASTRESGV 64
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
DR G TLTI +VQ+ D Y C
Sbjct: 65 PDRFTGRGSGTDFTLTISSVQAEDQAVYYC 94
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 23/56 (41%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKVLIYWASTRESGVPDRFTGRGSGTDFTLTISSVQAEDQAVYYC 94
>pdb|2HH0|L Chain L, Structure Of An Anti-Prp Fab, P-Clone, In Complex With
Its Cognate Bovine Peptide Epitope
Length = 210
Score = 27.3 bits (59), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 42/81 (51%), Gaps = 7/81 (8%)
Query: 22 LMETRGNKHTLTIKNVQSTDFGN-YSCVADNNLGRAKKYMELSVSVS---DRRLMETR-G 76
L + G + +LT + Q D GN + + G K+ + + S+ +R +R G
Sbjct: 10 LSASLGERVSLTCRASQ--DIGNNLNWIQQKPDGTIKRLIYATSSLDSGVPKRFSGSRSG 67
Query: 77 NKHTLTIKNVQSTDFGNYSCV 97
+ ++LTI +++S DF +Y C+
Sbjct: 68 SDYSLTISSLESEDFADYYCL 88
Score = 26.9 bits (58), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 48
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 59 KRFSGSRSGSDYSLTISSLESEDFADYYCL 88
>pdb|1N64|L Chain L, Crystal Structure Analysis Of The Immunodominant
Antigenic Site On Hepatitis C Virus Protein Bound To
Mab 19d9d6
pdb|1NLB|L Chain L, Crystal Structure Of Anti-Hcv Monoclonal Antibody 19d9d6
pdb|1XCQ|A Chain A, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|C Chain C, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|E Chain E, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|G Chain G, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCT|A Chain A, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (D55a,
L57h, Y64w) In Space Group P21212
pdb|1XCT|C Chain C, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (D55a,
L57h, Y64w) In Space Group P21212
pdb|1XF5|A Chain A, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (H74c,
Y64w)in Space Group P21212
pdb|1XF5|C Chain C, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (H74c,
Y64w)in Space Group P21212
pdb|1YMH|A Chain A, Anti-hcv Fab 19d9d6 Complexed With Protein L (ppl)
Mutant A66w
pdb|1YMH|C Chain C, Anti-hcv Fab 19d9d6 Complexed With Protein L (ppl)
Mutant A66w
Length = 220
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 36/90 (40%), Gaps = 9/90 (10%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----V 66
S S L + G K T++ K+ QS NY G++ K + S V
Sbjct: 5 SQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKVLIYWASTRESGV 64
Query: 67 SDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
DR G TLTI +VQ+ D Y C
Sbjct: 65 PDRFTGRGSGTDFTLTISSVQAEDQAVYYC 94
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 23/56 (41%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ LI E V DR G TLTI +VQ+ D Y C
Sbjct: 39 LAWYQQKPGQSPKVLIYWASTRESGVPDRFTGRGSGTDFTLTISSVQAEDQAVYYC 94
>pdb|1L7T|L Chain L, Crystal Structure Analysis Of The Anti-Testosterone Fab
Fragment
pdb|1VPO|L Chain L, Crystal Structure Analysis Of The Anti-testosterone Fab
In Complex With Testosterone
Length = 219
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 15/33 (45%)
Query: 15 PSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
P V DR G TL I V++ D G Y C
Sbjct: 61 PGVPDRFSGSGSGTDFTLKISRVEAEDLGVYYC 93
>pdb|1I9R|L Chain L, Structure Of Cd40l In Complex With The Fab Fragment Of
Humanized 5c8 Antibody
pdb|1I9R|M Chain M, Structure Of Cd40l In Complex With The Fab Fragment Of
Humanized 5c8 Antibody
pdb|1I9R|Y Chain Y, Structure Of Cd40l In Complex With The Fab Fragment Of
Humanized 5c8 Antibody
Length = 218
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 21/56 (37%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------DTFLI------EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
M WYQ LI E V R G TLTI +V+ DF Y C
Sbjct: 37 MHWYQQKPGQPPKLLIKYASNLESGVPARFSGSGSGTDFTLTISSVEPEDFATYYC 92
>pdb|2GFB|A Chain A, Crystal Structure Of A Catalytic Fab Having
Esterase-Like Activity
pdb|2GFB|C Chain C, Crystal Structure Of A Catalytic Fab Having
Esterase-Like Activity
pdb|2GFB|E Chain E, Crystal Structure Of A Catalytic Fab Having
Esterase-Like Activity
pdb|2GFB|G Chain G, Crystal Structure Of A Catalytic Fab Having
Esterase-Like Activity
pdb|2GFB|I Chain I, Crystal Structure Of A Catalytic Fab Having
Esterase-Like Activity
pdb|2GFB|K Chain K, Crystal Structure Of A Catalytic Fab Having
Esterase-Like Activity
pdb|2GFB|M Chain M, Crystal Structure Of A Catalytic Fab Having
Esterase-Like Activity
pdb|2GFB|O Chain O, Crystal Structure Of A Catalytic Fab Having
Esterase-Like Activity
Length = 214
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 48
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 89
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 69 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 97
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFADYYCL 89
>pdb|1T2Q|L Chain L, The Crystal Structure Of An Nna7 Fab That Recognizes An
N-Type Blood Group Antigen
Length = 217
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 25/54 (46%), Gaps = 5/54 (9%)
Query: 54 GRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
G++ K + VS V DR G TLTI V++ D G Y C +++
Sbjct: 46 GQSPKLLIYKVSNRFSGVPDRFSGSGSGTDFTLTISRVEAEDLGVYYCFQGSHV 99
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 53
V DR G TLTI V++ D G Y C +++
Sbjct: 63 VPDRFSGSGSGTDFTLTISRVEAEDLGVYYCFQGSHV 99
>pdb|2YR3|A Chain A, Solution Structure Of The Fourth Ig-Like Domain From
Myosin Light Chain Kinase, Smooth Muscle
Length = 99
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLGR 55
L I++ D G Y+C+A+N LG+
Sbjct: 66 LHIQDALPEDHGTYTCLAENALGQ 89
Score = 27.3 bits (59), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 81 LTIKNVQSTDFGNYSCVADNNLGR 104
L I++ D G Y+C+A+N LG+
Sbjct: 66 LHIQDALPEDHGTYTCLAENALGQ 89
>pdb|2GJJ|A Chain A, Crystal Structure Of A Single Chain Antibody Sca21
Against Her2ERBB2
pdb|2GJJ|B Chain B, Crystal Structure Of A Single Chain Antibody Sca21
Against Her2ERBB2
Length = 264
Score = 26.9 bits (58), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 3 MMSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++SW F + V DR G TLTI +V++ D Y C
Sbjct: 57 LISW---AFTRKSGVPDRFTGSGSGTDFTLTIGSVKAEDLAVYYC 98
Score = 25.8 bits (55), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 32/79 (40%), Gaps = 9/79 (11%)
Query: 27 GNKHTLTIKNVQSTDFGN----YSCVADNNLGRAKKYM-----ELSVSVSDRRLMETRGN 77
G K T+T K+ Q+ + N Y G++ K + V DR G
Sbjct: 20 GEKVTMTCKSSQTLLYSNNQKNYLAWYQQKPGQSPKLLISWAFTRKSGVPDRFTGSGSGT 79
Query: 78 KHTLTIKNVQSTDFGNYSC 96
TLTI +V++ D Y C
Sbjct: 80 DFTLTIGSVKAEDLAVYYC 98
>pdb|1FRG|L Chain L, Crystal Structure, Sequence, And Epitope Mapping Of A
Peptide Complex Of An Anti-Influenza Ha Peptide
Antibody Fab 26(Slash)9: Fine-Tuning Antibody
Specificity
Length = 217
Score = 26.9 bits (58), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 17/37 (45%)
Query: 14 EPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 50
E V DR G TLTI +VQ+ D Y C D
Sbjct: 61 ESGVPDRFSGSGSGTDFTLTITSVQAEDLAIYYCQND 97
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 35/91 (38%), Gaps = 9/91 (9%)
Query: 18 SDRRLMETRGNKHTLTIKNVQST----DFGNYSCVADNNLGRAKKYMELSVS-----VSD 68
S L T G K T++ K+ QS N+ G+ K + S V D
Sbjct: 7 SPSSLTVTAGEKVTMSCKSSQSLFNSGKRKNFLTWYHQKPGQPPKLLIYWASTRESGVPD 66
Query: 69 RRLMETRGNKHTLTIKNVQSTDFGNYSCVAD 99
R G TLTI +VQ+ D Y C D
Sbjct: 67 RFSGSGSGTDFTLTITSVQAEDLAIYYCQND 97
>pdb|4DAG|L Chain L, Structure Of The Human Metapneumovirus Fusion Protein With
Neutralizing Antibody Identifies A Pneumovirus Antigenic
Site
Length = 213
Score = 26.9 bits (58), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 38/89 (42%), Gaps = 18/89 (20%)
Query: 7 YQDTFLIEPS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN------------- 52
YQD+ PS + +R GN TLTI Q+ D +Y C A ++
Sbjct: 48 YQDSE--RPSGIPERFSGSNSGNTATLTISGTQAMDEADYYCQAWDSSTAVFGGGTTLTV 105
Query: 53 LGRAKKYMELSVSVSDRRLMETRGNKHTL 81
LG+ K SV++ E + NK TL
Sbjct: 106 LGQPK--AAPSVTLFPPSSEELQANKATL 132
>pdb|3IFO|L Chain L, X-Ray Structure Of Amyloid Beta Peptide:antibody
(Abeta1- 7:10d5) Complex
pdb|3IFO|B Chain B, X-Ray Structure Of Amyloid Beta Peptide:antibody
(Abeta1- 7:10d5) Complex
Length = 219
Score = 26.9 bits (58), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/48 (35%), Positives = 22/48 (45%), Gaps = 5/48 (10%)
Query: 54 GRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
G++ K + VS V DR G TL IK V++ D G Y C
Sbjct: 46 GQSPKLLIYKVSNRFSGVPDRFSGSGSGTDFTLKIKKVEAEDLGIYYC 93
>pdb|3RPI|L Chain L, Crystal Structure Of Fab From 3bnc60, Highly Potent
Anti-Hiv Antibody
pdb|3RPI|B Chain B, Crystal Structure Of Fab From 3bnc60, Highly Potent
Anti-Hiv Antibody
Length = 206
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/58 (29%), Positives = 23/58 (39%), Gaps = 12/58 (20%)
Query: 2 GMMSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
G ++WYQ D +E V R G ++ LTI N+Q D Y C
Sbjct: 27 GYLNWYQQRRGKAPKLLIYDGSKLERGVPARFSGRRWGQEYNLTINNLQPEDVATYFC 84
>pdb|3H3B|C Chain C, Crystal Structure Of The Single-Chain Fv (Scfv) Fragment
Of An Anti- Erbb2 Antibody Cha21 In Complex With
Residues 1-192 Of Erbb2 Extracellular Domain
pdb|3H3B|D Chain D, Crystal Structure Of The Single-Chain Fv (Scfv) Fragment
Of An Anti- Erbb2 Antibody Cha21 In Complex With
Residues 1-192 Of Erbb2 Extracellular Domain
Length = 259
Score = 26.9 bits (58), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 3 MMSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++SW F + V DR G TLTI +V++ D Y C
Sbjct: 58 LISW---AFTRKSGVPDRFTGSGSGTDFTLTIGSVKAEDLAVYYC 99
Score = 25.8 bits (55), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 34/84 (40%), Gaps = 9/84 (10%)
Query: 22 LMETRGNKHTLTIKNVQSTDFGN----YSCVADNNLGRAKKYM-----ELSVSVSDRRLM 72
L + G K T+T K+ Q+ + N Y G++ K + V DR
Sbjct: 16 LPVSVGEKVTMTCKSSQTLLYSNNQKNYLAWYQQKPGQSPKLLISWAFTRKSGVPDRFTG 75
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSC 96
G TLTI +V++ D Y C
Sbjct: 76 SGSGTDFTLTIGSVKAEDLAVYYC 99
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 26.9 bits (58), Expect = 2.9, Method: Composition-based stats.
Identities = 12/35 (34%), Positives = 18/35 (51%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVS 65
TL NV D G Y+C+ N++G L+V+
Sbjct: 398 TLNFTNVTVQDTGMYTCMVSNSVGNTTASATLNVT 432
Score = 25.4 bits (54), Expect = 9.6, Method: Composition-based stats.
Identities = 10/24 (41%), Positives = 14/24 (58%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLG 103
TL NV D G Y+C+ N++G
Sbjct: 398 TLNFTNVTVQDTGMYTCMVSNSVG 421
>pdb|1HZH|L Chain L, Crystal Structure Of The Intact Human Igg B12 With Broad
And Potent Activity Against Primary Hiv-1 Isolates: A
Template For Hiv Vaccine Design
pdb|1HZH|M Chain M, Crystal Structure Of The Intact Human Igg B12 With Broad
And Potent Activity Against Primary Hiv-1 Isolates: A
Template For Hiv Vaccine Design
pdb|1N0X|L Chain L, Crystal Structure Of A Broadly Neutralizing Anti-Hiv-1
Antibody In Complex With A Peptide Mimotope
pdb|1N0X|M Chain M, Crystal Structure Of A Broadly Neutralizing Anti-Hiv-1
Antibody In Complex With A Peptide Mimotope
pdb|2NY7|L Chain L, Hiv-1 Gp120 Envelope Glycoprotein Complexed With The
Broadly Neutralizing Cd4-Binding-Site Antibody B12
pdb|3RU8|L Chain L, Structure Of An Hiv Epitope Scaffold In Complex With
Neutralizing Antibody B12 Fab
Length = 215
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 21/56 (37%), Gaps = 12/56 (21%)
Query: 4 MSWYQDTFLIEP------------SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WYQ P +SDR G TLTI V+ DF Y C
Sbjct: 34 VAWYQHKPGQAPRLVIHGVSNRASGISDRFSGSGSGTDFTLTITRVEPEDFALYYC 89
Score = 26.9 bits (58), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 15/31 (48%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
+SDR G TLTI V+ DF Y C
Sbjct: 59 ISDRFSGSGSGTDFTLTITRVEPEDFALYYC 89
>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 = 26.9 bits (58), Expect = 3.0, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 6/52 (11%)
Query: 6 WY---QDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 54
WY + T + V + R+ + G TL IK+ D G Y CV +N++G
Sbjct: 252 WYKFIEGTTRKQAVVLNDRVKQVSG---TLIIKDAVVEDSGKYLCVVNNSVG 300
Score = 26.2 bits (56), Expect = 4.6, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLG 103
TL IK+ D G Y CV +N++G
Sbjct: 277 TLIIKDAVVEDSGKYLCVVNNSVG 300
>pdb|2V5M|A Chain A, Structural Basis For Dscam Isoform Specificity
Length = 388
Score = 26.9 bits (58), Expect = 3.0, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 6/52 (11%)
Query: 6 WY---QDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 54
WY + T + V + R+ + G TL IK+ D G Y CV +N++G
Sbjct: 246 WYKFIEGTTRKQAVVLNDRVKQVSG---TLIIKDAVVEDSGKYLCVVNNSVG 294
Score = 26.2 bits (56), Expect = 4.6, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLG 103
TL IK+ D G Y CV +N++G
Sbjct: 271 TLIIKDAVVEDSGKYLCVVNNSVG 294
>pdb|2EH8|L Chain L, Crystal Structure Of The Complex Of Humanized Kr127 Fab
And Pres1 Peptide Epitope
Length = 218
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 37/91 (40%), Gaps = 8/91 (8%)
Query: 22 LMETRGNKHTLTIKNVQSTDFGNYSCVAD---NNLGRAKKYM-----ELSVSVSDRRLME 73
L T G +++ K+ QS + N + G++ K + +L V DR
Sbjct: 11 LSVTPGQPASISCKSSQSLLYSNGKTYLNWLLQKPGQSPKRLIYLVSKLDSGVPDRFSGS 70
Query: 74 TRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
G TL I V++ D G Y CV + +
Sbjct: 71 GSGTDFTLKISRVEAEDVGVYYCVQGTHFPQ 101
Score = 25.8 bits (55), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 17/39 (43%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 55
V DR G TL I V++ D G Y CV + +
Sbjct: 63 VPDRFSGSGSGTDFTLKISRVEAEDVGVYYCVQGTHFPQ 101
>pdb|2A1W|L Chain L, Anti-Cocaine Antibody 7.5.21, Crystal Form I
pdb|2A1W|M Chain M, Anti-Cocaine Antibody 7.5.21, Crystal Form I
Length = 216
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 5/54 (9%)
Query: 54 GRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
GR+ K + VS V DR G TL I V++ D G Y C +++
Sbjct: 46 GRSPKLLIYKVSNRFSGVPDRFSGSGSGTDFTLRISRVEAEDLGVYYCFQGSHI 99
>pdb|2EH7|L Chain L, Crystal Structure Of Humanized Kr127 Fab
Length = 219
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 23/91 (25%), Positives = 37/91 (40%), Gaps = 8/91 (8%)
Query: 22 LMETRGNKHTLTIKNVQSTDFGNYSCVAD---NNLGRAKKYM-----ELSVSVSDRRLME 73
L T G +++ K+ QS + N + G++ K + +L V DR
Sbjct: 11 LSVTPGQPASISCKSSQSLLYSNGKTYLNWLLQKPGQSPKRLIYLVSKLDSGVPDRFSGS 70
Query: 74 TRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
G TL I V++ D G Y CV + +
Sbjct: 71 GSGTDFTLKISRVEAEDVGVYYCVQGTHFPQ 101
Score = 25.8 bits (55), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 17/39 (43%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 55
V DR G TL I V++ D G Y CV + +
Sbjct: 63 VPDRFSGSGSGTDFTLKISRVEAEDVGVYYCVQGTHFPQ 101
>pdb|3R06|A Chain A, Crystal Structure Of Anti-Mouse Cd3epsilon Antibody 2c11
Fab Fragment
pdb|3R06|C Chain C, Crystal Structure Of Anti-Mouse Cd3epsilon Antibody 2c11
Fab Fragment
pdb|3R06|E Chain E, Crystal Structure Of Anti-Mouse Cd3epsilon Antibody 2c11
Fab Fragment
pdb|3R06|L Chain L, Crystal Structure Of Anti-Mouse Cd3epsilon Antibody 2c11
Fab Fragment
pdb|3R08|L Chain L, Crystal Structure Of Mouse Cd3epsilon In Complex With
Antibody 2c11 Fab
Length = 213
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 39/89 (43%), Gaps = 7/89 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
I+ + S L + G++ +TI S D NY G+A K + +L+ V
Sbjct: 2 IQMTQSPSSLPASLGDR--VTINCQASQDISNYLNWYQQKPGKAPKLLIYYTNKLADGVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
R G + TI +++S D G+Y C
Sbjct: 60 SRFSGSGSGRDSSFTISSLESEDIGSYYC 88
>pdb|2EO9|A Chain A, Solution Structure Of The Fifth Ig-Like Domain From
Human Roundabout Homo1
Length = 118
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 17/59 (28%), Positives = 27/59 (45%), Gaps = 6/59 (10%)
Query: 6 WYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRA--KKYMEL 62
W +D L+ S D R+ + L I+ + D G Y+C+A G A Y+E+
Sbjct: 42 WRKDGVLV--STQDSRIKQL--ENGVLQIRYAKLGDTGRYTCIASTPSGEATWSAYIEV 96
Score = 26.9 bits (58), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 24/53 (45%), Gaps = 4/53 (7%)
Query: 64 VSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRA--KKYMELSEL 114
VS D R+ + L I+ + D G Y+C+A G A Y+E+ E
Sbjct: 49 VSTQDSRIKQL--ENGVLQIRYAKLGDTGRYTCIASTPSGEATWSAYIEVQEF 99
>pdb|2AI0|L Chain L, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|M Chain M, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|N Chain N, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|O Chain O, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
Length = 217
Score = 26.6 bits (57), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 24/54 (44%), Gaps = 5/54 (9%)
Query: 54 GRAKKYMELSVS-----VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
GR+ K + VS V DR G TL I V++ D G Y C +++
Sbjct: 46 GRSPKLLIYKVSNRFSGVPDRFSGSGSGTDFTLRISRVEAEDLGVYYCFQGSHI 99
>pdb|1P2C|A Chain A, Crystal Structure Analysis Of An Anti-Lysozyme Antibody
pdb|1P2C|D Chain D, Crystal Structure Analysis Of An Anti-Lysozyme Antibody
pdb|2Q76|A Chain A, Mouse Anti-Hen Egg White Lysozyme Antibody F10.6.6 Fab
Fragment
pdb|2Q76|C Chain C, Mouse Anti-Hen Egg White Lysozyme Antibody F10.6.6 Fab
Fragment
Length = 212
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 23/48 (47%), Gaps = 1/48 (2%)
Query: 58 KYMELSVS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
KY S+S + R G TL+I +V++ DFG Y C + R
Sbjct: 49 KYTSQSMSGIPSRFSGSGSGTDFTLSINSVETEDFGVYFCQQSGSWPR 96
Score = 25.4 bits (54), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 16/29 (55%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNNLGR 55
G TL+I +V++ DFG Y C + R
Sbjct: 68 GTDFTLSINSVETEDFGVYFCQQSGSWPR 96
>pdb|3BZ4|A Chain A, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3BZ4|C Chain C, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3BZ4|E Chain E, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3BZ4|G Chain G, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3C5S|A Chain A, Crystal Structure Of Monoclonal Fab F22-4 Specific For
Shigella Flexneri 2a O-Ag
pdb|3C5S|C Chain C, Crystal Structure Of Monoclonal Fab F22-4 Specific For
Shigella Flexneri 2a O-Ag
pdb|3C6S|A Chain A, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3C6S|C Chain C, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3C6S|E Chain E, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3C6S|G Chain G, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3GGW|A Chain A, Crystal Structure Of Fab F22-4 In Complex With A
Carbohydrate-Mimetic Peptide
pdb|3GGW|C Chain C, Crystal Structure Of Fab F22-4 In Complex With A
Carbohydrate-Mimetic Peptide
Length = 219
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 19/43 (44%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
L+ V DR G TL I V++ D G Y C + L R
Sbjct: 59 LASGVPDRFSSSGSGTDFTLRISRVEAEDVGIYYCAHNVELPR 101
>pdb|2QR0|A Chain A, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|E Chain E, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|G Chain G, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|K Chain K, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|M Chain M, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|Q Chain Q, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|S Chain S, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|W Chain W, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
Length = 213
Score = 26.6 bits (57), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 34/83 (40%), Gaps = 11/83 (13%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRR 70
S L + G++ T+T + QS S VA G+A K + S S V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQSVS----SAVAWYQQKPGKAPKLLIYSASSLYSGVPSRF 62
Query: 71 LMETRGNKHTLTIKNVQSTDFGN 93
G TLTI ++Q DF
Sbjct: 63 SGSRSGTDFTLTISSLQPEDFAT 85
>pdb|4AJ0|A Chain A, Crystallographic Structure Of An Amyloidogenic Variant,
3rcw, Of The Germinal Line Lambda 3
pdb|4AJ0|B Chain B, Crystallographic Structure Of An Amyloidogenic Variant,
3rcw, Of The Germinal Line Lambda 3
pdb|4AJ0|C Chain C, Crystallographic Structure Of An Amyloidogenic Variant,
3rcw, Of The Germinal Line Lambda 3
pdb|4AJ0|D Chain D, Crystallographic Structure Of An Amyloidogenic Variant,
3rcw, Of The Germinal Line Lambda 3
Length = 107
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 3/47 (6%)
Query: 7 YQDTFLIEPS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNN 52
YQD+ PS + +R GN TLTI Q+ D +Y C A ++
Sbjct: 48 YQDS--KRPSGIPERFSGSNSGNTATLTISGTQAMDEADYYCQAADS 92
>pdb|3EFF|A Chain A, The Crystal Structure Of Full-Length Kcsa In Its Closed
Conformation
pdb|3EFF|C Chain C, The Crystal Structure Of Full-Length Kcsa In Its Closed
Conformation
Length = 215
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 34/83 (40%), Gaps = 11/83 (13%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA--DNNLGRAKKYMELSVS-----VSDRR 70
S L + G++ T+T + QS S VA G+A K + S S V R
Sbjct: 7 SPSSLSASVGDRVTITCRASQSVS----SAVAWYQQKPGKAPKLLIYSASFLESGVPSRF 62
Query: 71 LMETRGNKHTLTIKNVQSTDFGN 93
G TLTI ++Q DF
Sbjct: 63 SGSRSGTDFTLTISSLQPEDFAT 85
>pdb|2A6D|L Chain L, Crystal Structure Analysis Of The Anti-Arsonate Germline
Antibody 36-65 In Complex With A Phage Display Derived
Dodecapeptide Rlliadppspre
pdb|2A6D|A Chain A, Crystal Structure Analysis Of The Anti-Arsonate Germline
Antibody 36-65 In Complex With A Phage Display Derived
Dodecapeptide Rlliadppspre
pdb|2A6I|A Chain A, Crystal Structure Analysis Of The Anti-Arsonate Germline
Antibody 36-65 In Complex With A Phage Display Derived
Dodecapeptide Klasipthtspl
pdb|2A6J|L Chain L, Crystal Structure Analysis Of The Anti-Arsonate Germline
Antibody 36- 65
pdb|2A6J|A Chain A, Crystal Structure Analysis Of The Anti-Arsonate Germline
Antibody 36- 65
pdb|2A6K|A Chain A, Crystal Structure Analysis Of The Germline Antibody
36-65 Fab In Complex With The Dodecapeptide
Slgdnltnhnlr
pdb|2A6K|L Chain L, Crystal Structure Analysis Of The Germline Antibody
36-65 Fab In Complex With The Dodecapeptide
Slgdnltnhnlr
Length = 214
Score = 26.6 bits (57), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 24/64 (37%), Gaps = 12/64 (18%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ T + V R G ++LTI N++ D Y C N
Sbjct: 33 LNWYQQKPDGTVKLLIYYTSRLHSGVPSRFSGSGSGTDYSLTISNLEQEDIATYFCQQGN 92
Query: 52 NLGR 55
L R
Sbjct: 93 TLPR 96
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 76 GNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
G ++LTI N++ D Y C N L R
Sbjct: 68 GTDYSLTISNLEQEDIATYFCQQGNTLPR 96
>pdb|3JZ7|A Chain A, Crystal Structure Of The Extracellular Domains Of
Coxsackie & Adenovirus Receptor From Mouse (Mcar)
Length = 214
Score = 26.6 bits (57), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 26/131 (19%), Positives = 41/131 (31%), Gaps = 43/131 (32%)
Query: 24 ETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSV----------------- 66
+ + ++ + N+Q +D G Y C G A K L+V V
Sbjct: 78 DVKSGDASINVTNLQLSDIGTYQCKVKKAPGVANKKFLLTVLVKPSGTRCFVDGSEEIGN 137
Query: 67 ----------------------SDRRLMETRG----NKHTLTIKNVQSTDFGNYSCVADN 100
SD + M T +++KN S G YSC N
Sbjct: 138 DFKLKCEPKEGSLPLQFEWQKLSDSQTMPTPWLAEMTSPVISVKNASSEYSGTYSCTVQN 197
Query: 101 NLGRAKKYMEL 111
+G + + L
Sbjct: 198 RVGSDQCMLRL 208
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/52 (28%), Positives = 23/52 (44%), Gaps = 4/52 (7%)
Query: 17 VSDRRLMETRG----NKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
+SD + M T +++KN S G YSC N +G + + L V
Sbjct: 159 LSDSQTMPTPWLAEMTSPVISVKNASSEYSGTYSCTVQNRVGSDQCMLRLDV 210
>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 = 26.6 bits (57), Expect = 4.0, Method: Composition-based stats.
Identities = 17/52 (32%), Positives = 26/52 (50%), Gaps = 6/52 (11%)
Query: 6 WY---QDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLG 54
WY + T + V + R+ + G TL IK+ D G Y CV +N++G
Sbjct: 249 WYKFIEGTTRKQAVVLNDRVKQVSG---TLIIKDAVVEDSGKYLCVVNNSVG 297
Score = 26.2 bits (56), Expect = 5.6, Method: Composition-based stats.
Identities = 11/24 (45%), Positives = 15/24 (62%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLG 103
TL IK+ D G Y CV +N++G
Sbjct: 274 TLIIKDAVVEDSGKYLCVVNNSVG 297
>pdb|3Q6G|L Chain L, Crystal Structure Of Fab Of Rhesus Mab 2.5b Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
pdb|3Q6G|M Chain M, Crystal Structure Of Fab Of Rhesus Mab 2.5b Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
Length = 209
Score = 26.6 bits (57), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 61 ELSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 96
E S + +R GN TLTI V++ D +Y C
Sbjct: 51 ERSSGIPERFSGSNSGNTATLTISGVEAGDEADYYC 86
>pdb|3E8U|H Chain H, Crystal Structure And Thermodynamic Analysis Of Diagnostic
Fab 106.3 Complexed With Bnp 5-13 (C10a) Reveal Basis Of
Selective Molecular Recognition
Length = 217
Score = 26.6 bits (57), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 21/48 (43%)
Query: 23 METRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRR 70
+ET N L I N+ + D G Y C + G SV+VS +
Sbjct: 72 LETSANTAYLQINNLNNGDMGTYFCTRSHRFGLDYWGQGTSVTVSSAK 119
>pdb|4GOS|A Chain A, Crystal Structure Of Human B7-H4 Igv-Like Domain
Length = 125
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYME 61
+L +KNVQ TD G Y C + G+ +E
Sbjct: 85 SLRLKNVQLTDAGTYKCYIITSKGKGNANLE 115
Score = 26.6 bits (57), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 17/31 (54%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLGRAKKYME 110
+L +KNVQ TD G Y C + G+ +E
Sbjct: 85 SLRLKNVQLTDAGTYKCYIITSKGKGNANLE 115
>pdb|1DZB|A Chain A, Crystal Structure Of Phage Library-Derived Single-Chain Fv
Fragment 1f9 In Complex With Turkey Egg-White Lysozyme
pdb|1DZB|B Chain B, Crystal Structure Of Phage Library-Derived Single-Chain Fv
Fragment 1f9 In Complex With Turkey Egg-White Lysozyme
Length = 253
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 39/90 (43%), Gaps = 7/90 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVS 67
IE + S + + G + T+T K Q D +Y G++ K + L+ V
Sbjct: 133 IELTQSPSSMYTSLGERVTITCKASQ--DINSYLRWFQQKPGKSPKTLIYYATSLADGVP 190
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
R G ++LTI +++S D Y C+
Sbjct: 191 SRFSGSGSGQDYSLTISSLESDDTTTYYCL 220
>pdb|3MJ7|B Chain B, Crystal Structure Of The Complex Of Jaml And Coxsackie And
Adenovirus Receptor, Car
Length = 225
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 24/58 (41%), Gaps = 4/58 (6%)
Query: 17 VSDRRLMETRG----NKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSVSDRR 70
+SD + M T +++KN S G YSC N +G + + L V R
Sbjct: 161 LSDSQTMPTPWLAEMTSPVISVKNASSEYSGTYSCTVQNRVGSDQCMLRLDVVPPSNR 218
Score = 26.2 bits (56), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 26/131 (19%), Positives = 41/131 (31%), Gaps = 43/131 (32%)
Query: 24 ETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSV----------------- 66
+ + ++ + N+Q +D G Y C G A K L+V V
Sbjct: 80 DVKSGDASINVTNLQLSDIGTYQCKVKKAPGVANKKFLLTVLVKPSGTRCFVDGSEEIGN 139
Query: 67 ----------------------SDRRLMETRG----NKHTLTIKNVQSTDFGNYSCVADN 100
SD + M T +++KN S G YSC N
Sbjct: 140 DFKLKCEPKEGSLPLQFEWQKLSDSQTMPTPWLAEMTSPVISVKNASSEYSGTYSCTVQN 199
Query: 101 NLGRAKKYMEL 111
+G + + L
Sbjct: 200 RVGSDQCMLRL 210
>pdb|2DQI|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant (Ly50a)
Complexed With Hen Egg Lysozyme
Length = 107
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNN 52
G TL+I +V++ DFG Y C N+
Sbjct: 68 GTDFTLSINSVETEDFGMYFCQQSNS 93
Score = 26.2 bits (56), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 16/26 (61%)
Query: 76 GNKHTLTIKNVQSTDFGNYSCVADNN 101
G TL+I +V++ DFG Y C N+
Sbjct: 68 GTDFTLSINSVETEDFGMYFCQQSNS 93
>pdb|4AIX|A Chain A, Crystallographic Structure Of An Amyloidogenic Variant,
3rc34y, Of The Germinal Line Lambda 3
pdb|4AIX|B Chain B, Crystallographic Structure Of An Amyloidogenic Variant,
3rc34y, Of The Germinal Line Lambda 3
pdb|4AIX|C Chain C, Crystallographic Structure Of An Amyloidogenic Variant,
3rc34y, Of The Germinal Line Lambda 3
pdb|4AIX|D Chain D, Crystallographic Structure Of An Amyloidogenic Variant,
3rc34y, Of The Germinal Line Lambda 3
Length = 107
Score = 26.2 bits (56), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 17/44 (38%), Positives = 22/44 (50%), Gaps = 3/44 (6%)
Query: 7 YQDTFLIEPS-VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVA 49
YQD+ PS + +R GN TLTI Q+ D +Y C A
Sbjct: 48 YQDS--KRPSGIPERFSGSNSGNTATLTISGTQAMDEADYYCQA 89
>pdb|3IXT|H Chain H, Crystal Structure Of Motavizumab Fab Bound To Peptide
Epitope
pdb|3IXT|A Chain A, Crystal Structure Of Motavizumab Fab Bound To Peptide
Epitope
pdb|3QWO|H Chain H, Crystal Structure Of A Motavizumab Epitope-Scaffold Bound
To Motavizumab Fab
pdb|3QWO|A Chain A, Crystal Structure Of A Motavizumab Epitope-Scaffold Bound
To Motavizumab Fab
Length = 225
Score = 26.2 bits (56), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 21/47 (44%), Gaps = 2/47 (4%)
Query: 6 WYQDTFLIEPSVSDRRLM--ETRGNKHTLTIKNVQSTDFGNYSCVAD 50
W+ D PS+ DR + +T N+ L + N+ D Y C D
Sbjct: 54 WWDDKKHYNPSLKDRLTISKDTSKNQVVLKVTNMDPADTATYYCARD 100
>pdb|2J12|B Chain B, Ad37 Fibre Head In Complex With Car D1
pdb|2J1K|A Chain A, Cav-2 Fibre Head In Complex With Car D1
pdb|2J1K|B Chain B, Cav-2 Fibre Head In Complex With Car D1
pdb|2J1K|G Chain G, Cav-2 Fibre Head In Complex With Car D1
pdb|2J1K|J Chain J, Cav-2 Fibre Head In Complex With Car D1
pdb|2J1K|K Chain K, Cav-2 Fibre Head In Complex With Car D1
pdb|2J1K|O Chain O, Cav-2 Fibre Head In Complex With Car D1
pdb|2J1K|P Chain P, Cav-2 Fibre Head In Complex With Car D1
pdb|2J1K|T Chain T, Cav-2 Fibre Head In Complex With Car D1
pdb|2J1K|V Chain V, Cav-2 Fibre Head In Complex With Car D1
pdb|2J1K|X Chain X, Cav-2 Fibre Head In Complex With Car D1
pdb|2J1K|Y Chain Y, Cav-2 Fibre Head In Complex With Car D1
pdb|2J1K|Z Chain Z, Cav-2 Fibre Head In Complex With Car D1
Length = 128
Score = 26.2 bits (56), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSV 66
++ + N+Q +D G Y C G A K + L V V
Sbjct: 92 SINVTNLQLSDIGTYQCKVKKAPGVANKKIHLVVLV 127
>pdb|1JEW|R Chain R, Cryo-Em Structure Of Coxsackievirus B3(M Strain) With Its
Cellular Receptor, Coxsackievirus And Adenovirus
Receptor (Car)
Length = 120
Score = 26.2 bits (56), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSV 66
++ + N+Q +D G Y C G A K + L V V
Sbjct: 84 SINVTNLQLSDIGTYQCKVKKAPGVANKKIHLVVLV 119
>pdb|2JEL|L Chain L, Jel42 FabHPR COMPLEX
Length = 217
Score = 26.2 bits (56), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 41/89 (46%), Gaps = 8/89 (8%)
Query: 22 LMETRGNKHTLTIKNVQSTDFGNYSCVADNNL---GRAKKYMELSVS-----VSDRRLME 73
L + G++ +++ ++ QS GN + + L G++ K + +S V DR
Sbjct: 11 LPVSLGDQASISCRSSQSIVHGNGNTYLEWYLQKPGQSPKLLIYKISNRFSGVPDRFSGS 70
Query: 74 TRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
G TL I V++ D G Y C +++
Sbjct: 71 GSGTDFTLKISRVEAEDLGVYYCFQGSHV 99
>pdb|2W9L|A Chain A, Canine Adenovirus Type 2 Fibre Head In Complex With Car
Domain D1 And Sialic Acid
pdb|2W9L|B Chain B, Canine Adenovirus Type 2 Fibre Head In Complex With Car
Domain D1 And Sialic Acid
pdb|2W9L|G Chain G, Canine Adenovirus Type 2 Fibre Head In Complex With Car
Domain D1 And Sialic Acid
pdb|2W9L|J Chain J, Canine Adenovirus Type 2 Fibre Head In Complex With Car
Domain D1 And Sialic Acid
pdb|2W9L|K Chain K, Canine Adenovirus Type 2 Fibre Head In Complex With Car
Domain D1 And Sialic Acid
pdb|2W9L|O Chain O, Canine Adenovirus Type 2 Fibre Head In Complex With Car
Domain D1 And Sialic Acid
pdb|2W9L|P Chain P, Canine Adenovirus Type 2 Fibre Head In Complex With Car
Domain D1 And Sialic Acid
pdb|2W9L|T Chain T, Canine Adenovirus Type 2 Fibre Head In Complex With Car
Domain D1 And Sialic Acid
pdb|2W9L|V Chain V, Canine Adenovirus Type 2 Fibre Head In Complex With Car
Domain D1 And Sialic Acid
pdb|2W9L|X Chain X, Canine Adenovirus Type 2 Fibre Head In Complex With Car
Domain D1 And Sialic Acid
pdb|2W9L|Y Chain Y, Canine Adenovirus Type 2 Fibre Head In Complex With Car
Domain D1 And Sialic Acid
pdb|2W9L|Z Chain Z, Canine Adenovirus Type 2 Fibre Head In Complex With Car
Domain D1 And Sialic Acid
Length = 124
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSV 66
++ + N+Q +D G Y C G A K + L V V
Sbjct: 89 SINVTNLQLSDIGTYQCKVKKAPGVANKKIHLVVLV 124
>pdb|1KAC|B Chain B, Knob Domain From Adenovirus Serotype 12 In Complex With
Domain 1 Of Its Cellular Receptor Car
pdb|1P69|B Chain B, Structural Basis For Variation In Adenovirus Affinity For
The Cellular Receptor Car (P417s Mutant)
pdb|1P6A|B Chain B, Structural Basis For Variation In Asdenovirus Affinity For
The Cellular Receptor Car (S489y Mutant)
Length = 124
Score = 26.2 bits (56), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSV 66
++ + N+Q +D G Y C G A K + L V V
Sbjct: 84 SINVTNLQLSDIGTYQCKVKKAPGVANKKIHLVVLV 119
>pdb|3G5Y|A Chain A, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 213
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 19/36 (52%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
+E V R G ++LTI ++ S DF +Y CV
Sbjct: 54 LEDGVPGRFSGSGSGADYSLTISSLSSEDFVDYYCV 89
>pdb|2E9W|A Chain A, Crystal Structure Of The Extracellular Domain Of Kit In
Complex With Stem Cell Factor (Scf)
pdb|2E9W|B Chain B, Crystal Structure Of The Extracellular Domain Of Kit In
Complex With Stem Cell Factor (Scf)
Length = 489
Score = 26.2 bits (56), Expect = 4.8, Method: Composition-based stats.
Identities = 13/34 (38%), Positives = 17/34 (50%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
TLTI + + D G + C A+N G A L V
Sbjct: 249 TLTISSARVNDSGVFMCYANNTFGSANVTTTLEV 282
Score = 25.4 bits (54), Expect = 8.0, Method: Composition-based stats.
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 80 TLTIKNVQSTDFGNYSCVADNNLGRA 105
TLTI + + D G + C A+N G A
Sbjct: 249 TLTISSARVNDSGVFMCYANNTFGSA 274
>pdb|1F5W|A Chain A, Dimeric Structure Of The Coxsackie Virus And Adenovirus
Receptor D1 Domain
pdb|1F5W|B Chain B, Dimeric Structure Of The Coxsackie Virus And Adenovirus
Receptor D1 Domain
pdb|1EAJ|A Chain A, Dimeric Structure Of The Coxsackie Virus And Adenovirus
Receptor D1 Domain At 1.35 Angstrom Resolution
pdb|1EAJ|B Chain B, Dimeric Structure Of The Coxsackie Virus And Adenovirus
Receptor D1 Domain At 1.35 Angstrom Resolution
Length = 126
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSV 66
++ + N+Q +D G Y C G A K + L V V
Sbjct: 90 SINVTNLQLSDIGTYQCKVKKAPGVANKKIHLVVLV 125
>pdb|2V7H|A Chain A, Crystal Structure Of An Immunogen Specific Anti-
Mannopyranoside Monoclonal Antibody Fab Fragment
pdb|2V7H|L Chain L, Crystal Structure Of An Immunogen Specific Anti-
Mannopyranoside Monoclonal Antibody Fab Fragment
Length = 214
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 18/43 (41%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
L V R G ++LTI N++ D Y C N L R
Sbjct: 54 LHSGVPSRFSGSGSGTDYSLTISNLEQEDIATYFCQQGNTLPR 96
Score = 26.2 bits (56), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNNLGR 55
G ++LTI N++ D Y C N L R
Sbjct: 68 GTDYSLTISNLEQEDIATYFCQQGNTLPR 96
>pdb|2EDW|A Chain A, Solution Structure Of The I-Set Domain (3537-3630) Of
Human Obscurin
Length = 107
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 19 DRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
DR + G K L I+ + D G YSCV
Sbjct: 51 DRYSLRQDGTKCELQIRGLAMADTGEYSCV 80
Score = 26.2 bits (56), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
DR + G K L I+ + D G YSCV
Sbjct: 51 DRYSLRQDGTKCELQIRGLAMADTGEYSCV 80
>pdb|1RSF|A Chain A, Nmr Structure Of Monomeric Car D1 Domain
Length = 126
Score = 26.2 bits (56), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 18/36 (50%)
Query: 31 TLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSVSV 66
++ + N+Q +D G Y C G A K + L V V
Sbjct: 86 SINVTNLQLSDIGTYQCKVKKAPGVANKKIHLVVLV 121
>pdb|2HMI|C Chain C, Hiv-1 Reverse TranscriptaseFRAGMENT OF FAB 28DNA COMPLEX
pdb|1J5O|L Chain L, Crystal Structure Of Met184ile Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Double Stranded Dna
Template- Primer
Length = 214
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSC 47
G ++LTI N++ DF Y C
Sbjct: 68 GTDYSLTISNLEPEDFATYYC 88
Score = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 76 GNKHTLTIKNVQSTDFGNYSC 96
G ++LTI N++ DF Y C
Sbjct: 68 GTDYSLTISNLEPEDFATYYC 88
>pdb|1HYS|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 214
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 27 GNKHTLTIKNVQSTDFGNYSC 47
G ++LTI N++ DF Y C
Sbjct: 68 GTDYSLTISNLEPEDFATYYC 88
Score = 26.2 bits (56), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 76 GNKHTLTIKNVQSTDFGNYSC 96
G ++LTI N++ DF Y C
Sbjct: 68 GTDYSLTISNLEPEDFATYYC 88
>pdb|6FAB|L Chain L, Three-Dimensional Structure Of Murine Anti-P-
Azophenylarsonate Fab 36-71. 1. X-Ray Crystallography,
Site-Directed Mutagenesis, And Modeling Of The Complex
With Hapten
Length = 214
Score = 26.2 bits (56), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNNLGR 55
G ++LTI N++ D Y C N L R
Sbjct: 68 GTDYSLTISNLEQEDIATYFCQQGNALPR 96
Score = 26.2 bits (56), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 76 GNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
G ++LTI N++ D Y C N L R
Sbjct: 68 GTDYSLTISNLEQEDIATYFCQQGNALPR 96
>pdb|1JFQ|L Chain L, Antigen-Binding Fragment Of The Murine
Anti-Phenylarsonate Antibody 36-71, "fab 36-71"
Length = 215
Score = 26.2 bits (56), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 27 GNKHTLTIKNVQSTDFGNYSCVADNNLGR 55
G ++LTI N++ D Y C N L R
Sbjct: 68 GTDYSLTISNLEQEDIATYFCQQGNALPR 96
Score = 26.2 bits (56), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 76 GNKHTLTIKNVQSTDFGNYSCVADNNLGR 104
G ++LTI N++ D Y C N L R
Sbjct: 68 GTDYSLTISNLEQEDIATYFCQQGNALPR 96
>pdb|3UMT|A Chain A, Scfv12, Anti-Bcla Antibody Single Chain Variable Fragment
Length = 256
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 48
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 197 KRFSGSRSGSDYSLTISSLESEDFVDYYCL 226
Score = 26.2 bits (56), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 69 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 97
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 197 KRFSGSRSGSDYSLTISSLESEDFVDYYCL 226
>pdb|1TJG|L Chain L, Crystal Structure Of The Broadly Neutralizing Anti-Hiv-1
Antibody 2f5 In Complex With A Gp41 7mer Epitope
pdb|1TJH|L Chain L, Crystal Structure Of The Broadly Neutralizing Anti-Hiv-1
Antibody 2f5 In Complex With A Gp41 11mer Epitope
pdb|1TJI|L Chain L, Crystal Structure Of The Broadly Neutralizing Anti-Hiv-1
Antibody 2f5 In Complex With A Gp41 17mer Epitope
Length = 214
Score = 25.8 bits (55), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WY+ D +E V R G + TLTI ++ DF Y C
Sbjct: 33 LAWYRQKPGSPPQLLIYDASSLESGVPSRFSGSGSGTEFTLTISTLRPEDFATYYC 88
>pdb|3LEV|L Chain L, Hiv-1 Antibody 2f5 In Complex With Epitope Scaffold Es2
pdb|3MOA|L Chain L, Crystal Structure Of The Neutralizing Hiv Antibody 2f5
Fab Fragment (Recombinantly Produced Fab) With 17 Aa
Gp41 Mper-Derived Peptide
pdb|3MOB|L Chain L, Crystal Structure Of The Neutralizing Hiv Antibody 2f5
Fab Fragment (Recombinantly Produced Fab) With 11 Aa
Gp41 Mper-Derived Peptide
pdb|3MOD|L Chain L, Crystal Structure Of The Neutralizing Hiv Antibody 2f5
Fab Fragment (Recombinantly Produced Igg) With 11 Aa
Gp41 Mper-Derived Peptide
Length = 214
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WY+ D +E V R G + TLTI ++ DF Y C
Sbjct: 33 LAWYRQKPGSPPQLLIYDASSLESGVPSRFSGSGSGTEFTLTISTLRPEDFATYYC 88
>pdb|2E6P|A Chain A, Solution Structure Of The Ig-Like Domain (714-804) From
Human Obscurin-Like Protein 1
Length = 104
Score = 25.8 bits (55), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 12/43 (27%), Positives = 22/43 (51%), Gaps = 2/43 (4%)
Query: 5 SWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+WY+D +E S+ +++ G KH L + + D G + C
Sbjct: 42 TWYKDGQKVE--ESELLVVKMDGRKHRLILPEAKVQDSGEFEC 82
>pdb|2F5B|L Chain L, Crystal Structure Of Fab' From The Hiv-1 Neutralizing
Antibody 2f5 In Complex With Its Gp41 Epitope
pdb|1U8H|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Aldkwas
pdb|1U8I|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Eldkwan
pdb|1U8J|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Eldkwag
pdb|1U8L|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Dldrwas
pdb|1U8M|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Eldkyas
pdb|1U8N|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Eldkfas
pdb|1U8O|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Eldkhas
pdb|1U8P|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Ecdkwcs
pdb|1U8Q|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Elekwas
pdb|1U91|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Analog Endkw- [dap]-S (Cyclic)
pdb|1U92|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Analog E-[dap]- Dkwqs (Cyclic)
pdb|1U93|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Analog Eqdkw- [dap]-S (Cyclic)
pdb|1U95|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Eldhwas
pdb|2P8L|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Elleldkwaslwn
pdb|2P8M|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Elleldkwaslwn In New Crystal Form
pdb|2P8P|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Leldkwaslw[n-Ac]
pdb|2PR4|L Chain L, Crystal Structure Of Fab' From The Hiv-1 Neutralizing
Antibody 2f5
pdb|2PW1|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Eldkwnsl
pdb|2PW2|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Eldkwksl
pdb|3D0V|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Lleldkwaslw
pdb|3DRO|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Antibody 2f5 In Complex With Gp41 Peptide Elleldkwaslwn
Grown In Ammonium Sulfate
pdb|3DRQ|A Chain A, Crystal Structure Of The Hiv-1 Broadly Neutralizing
Antibody 2f5 In Complex With The Gp41 Fp-Mper Hyb3k
Construct
514gigalflgflgaags528kk-Ahx-655kneqelleldkwaslwn671
Soaked In Peg2- Propanol Solution
pdb|3BQU|A Chain A, Crystal Structure Of The 2f5 Fab'-3h6 Fab Complex
pdb|3DRT|A Chain A, Crystal Structure Of The Hiv-1 Broadly Neutralizing
Antibody 2f5 In Complex With The Gp41 Scrambledfp-Mper
Scrhyb3k Construct
Gigafgllgflaagskk-Ahx-K656neqelleldkwaslwn671
pdb|3EGS|A Chain A, Crystal Structure Of The Hiv-1 Broadly Neutralizing
Antibody 2f5 In Complex With The Gp41 Scrambledfp-Mper
Scrhyb3k Construct
Gigafgllgflaagskk-Ahx-K656neqelleldkwaslwn671 Soaked In
Ammonium Sulfate
pdb|3IDJ|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 Fab' Fragment In Complex With
Gp41 Peptide Analog Eld(Orn)was
pdb|3IDM|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 Fab' Fragment In Complex With
Gp41 Peptide Analog Eld(Nrg)was
pdb|3IDN|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 Fab' Fragment In Complex With
Gp41 Peptide Analog Eld(Paf)was
pdb|3IDG|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Aldkwd
pdb|3IDI|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 Fab' Fragment In Complex With
Gp41 Peptide Aldkwnq
Length = 214
Score = 25.8 bits (55), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WY+ D +E V R G + TLTI ++ DF Y C
Sbjct: 33 LAWYRQKPGSPPQLLIYDASSLESGVPSRFSGSGSGTEFTLTISTLRPEDFATYYC 88
>pdb|3U1S|L Chain L, Crystal Structure Of Human Fab Pgt145, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
Length = 239
Score = 25.8 bits (55), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 15/32 (46%)
Query: 17 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 48
V DR G TL I V+S D G Y C+
Sbjct: 83 VPDRFSGSGSGTDFTLKISRVESDDVGTYYCM 114
Score = 25.8 bits (55), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 15/32 (46%)
Query: 66 VSDRRLMETRGNKHTLTIKNVQSTDFGNYSCV 97
V DR G TL I V+S D G Y C+
Sbjct: 83 VPDRFSGSGSGTDFTLKISRVESDDVGTYYCM 114
>pdb|1U8K|A Chain A, Crystal Structure Of The Hiv-1 Cross Neutralizing
Monoclonal Antibody 2f5 In Complex With Gp41 Peptide
Leldkwasl
Length = 214
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WY+ D +E V R G + TLTI ++ DF Y C
Sbjct: 33 LAWYRQKPGSPPQLLIYDASSLESGVPSRFSGSGSGTEFTLTISTLRPEDFATYYC 88
>pdb|2F5A|L Chain L, Crystal Structure Of Fab' From The Hiv-1 Neutralizing
Antibody 2f5
Length = 213
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WY+ D +E V R G + TLTI ++ DF Y C
Sbjct: 33 LAWYRQKPGSPPQLLIYDASSLESGVPSRFSGSGSGTEFTLTISTLRPEDFATYYC 88
>pdb|3D0L|A Chain A, Crystal Structure Of The Hiv-1 Broadly Neutralizing
Antibody 2f5 In Complex With The Gp41 Fp-Mper Hyb3k
Construct
514gigalflgflgaags528kk-Ahx-655kneqelleldkwaslwn671
Length = 214
Score = 25.8 bits (55), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 22/56 (39%), Gaps = 12/56 (21%)
Query: 4 MSWYQ------------DTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
++WY+ D +E V R G + TLTI ++ DF Y C
Sbjct: 33 LAWYRQKPGSPPQLLIYDASSLESGVPSRFSGSGSGTEFTLTISTLRPEDFATYYC 88
>pdb|2BK8|A Chain A, M1 Domain From Titin
Length = 97
Score = 25.8 bits (55), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 12/33 (36%), Positives = 16/33 (48%)
Query: 32 LTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
L +K++ D G Y C N+ G Y EL V
Sbjct: 60 LYVKDITKLDDGTYRCKVVNDYGEDSSYAELFV 92
>pdb|3KNB|B Chain B, Crystal Structure Of The Titin C-Terminus In Complex With
Obscurin- Like 1
Length = 107
Score = 25.8 bits (55), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 17/37 (45%)
Query: 64 VSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 100
++ S+R G +H L + TD G Y C A N
Sbjct: 54 LAASERLSFPADGAEHGLLLTAALPTDAGVYVCRARN 90
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 16/36 (44%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
+ S+R G +H L + TD G Y C A N
Sbjct: 55 AASERLSFPADGAEHGLLLTAALPTDAGVYVCRARN 90
>pdb|2VXT|L Chain L, Crystal Structure Of Human Il-18 Complexed To Murine
Reference Antibody 125-2h Fab
pdb|2VXU|L Chain L, Crystal Structure Of Murine Reference Antibody 125-2h
Fab Fragment
pdb|2VXU|M Chain M, Crystal Structure Of Murine Reference Antibody 125-2h
Fab Fragment
Length = 214
Score = 25.8 bits (55), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 20 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 48
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFVDYYCL 89
Score = 25.8 bits (55), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 21/30 (70%), Gaps = 1/30 (3%)
Query: 69 RRLMETR-GNKHTLTIKNVQSTDFGNYSCV 97
+R +R G+ ++LTI +++S DF +Y C+
Sbjct: 60 KRFSGSRSGSDYSLTISSLESEDFVDYYCL 89
>pdb|2R4R|L Chain L, Crystal Structure Of The Human Beta2 Adrenoceptor
pdb|2R4S|L Chain L, Crystal Structure Of The Human Beta2 Adrenoceptor
pdb|3KJ6|L Chain L, Crystal Structure Of A Methylated Beta2 Adrenergic
Receptor- Fab Complex
Length = 214
Score = 25.8 bits (55), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 21/85 (24%), Positives = 35/85 (41%), Gaps = 7/85 (8%)
Query: 18 SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNLGRAKKYM-----ELSVSVSDRRLM 72
S + + G + T+T K Q D +Y G++ K + L V R +
Sbjct: 7 SPSSMYASLGERVTITCKASQ--DINSYLSWFQQKPGKSPKTLIYRANRLVDGVPSRFIG 64
Query: 73 ETRGNKHTLTIKNVQSTDFGNYSCV 97
G ++LTI ++ D G Y C+
Sbjct: 65 TGSGQDYSLTISSLDYADMGIYYCL 89
>pdb|2WP3|O Chain O, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig
Complex
pdb|2WWM|C Chain C, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig
Complex In Space Group P1
pdb|2WWM|O Chain O, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig
Complex In Space Group P1
Length = 109
Score = 25.8 bits (55), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 17/37 (45%)
Query: 64 VSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 100
++ S+R G +H L + TD G Y C A N
Sbjct: 55 LAASERLSFPADGAEHGLLLTAALPTDAGVYVCRARN 91
Score = 25.4 bits (54), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 16/36 (44%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
+ S+R G +H L + TD G Y C A N
Sbjct: 56 AASERLSFPADGAEHGLLLTAALPTDAGVYVCRARN 91
>pdb|2O26|X Chain X, Structure Of A Class Iii Rtk Signaling Assembly
pdb|2O26|Y Chain Y, Structure Of A Class Iii Rtk Signaling Assembly
pdb|2O26|U Chain U, Structure Of A Class Iii Rtk Signaling Assembly
pdb|2O26|W Chain W, Structure Of A Class Iii Rtk Signaling Assembly
Length = 290
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 29 KHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
+ TLTI + + D G + C A+N G A L V
Sbjct: 251 QETLTISSARVDDSGVFMCYANNTFGSANVTTTLKV 286
Score = 25.4 bits (54), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 19/38 (50%)
Query: 78 KHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSELE 115
+ TLTI + + D G + C A+N G A L +E
Sbjct: 251 QETLTISSARVDDSGVFMCYANNTFGSANVTTTLKVVE 288
>pdb|1CT8|A Chain A, Catalytic Antibody 7c8 Complex
pdb|1CT8|C Chain C, Catalytic Antibody 7c8 Complex
Length = 214
Score = 25.4 bits (54), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 25/56 (44%), Gaps = 12/56 (21%)
Query: 4 MSWYQDT------FLIE------PSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSC 47
+ WYQ LI+ P + R G+ TL+I +V++ DFG Y C
Sbjct: 33 LHWYQQKSHESPRLLIKFASQSIPGIPSRFSGSGSGSDFTLSINSVETEDFGIYFC 88
>pdb|2WWK|O Chain O, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig F17r
Mutant Complex
Length = 109
Score = 25.4 bits (54), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 17/37 (45%)
Query: 64 VSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 100
++ S+R G +H L + TD G Y C A N
Sbjct: 55 LAASERLSFPADGAEHGLLLTAALPTDAGVYVCRARN 91
Score = 25.4 bits (54), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 16/36 (44%)
Query: 16 SVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
+ S+R G +H L + TD G Y C A N
Sbjct: 56 AASERLSFPADGAEHGLLLTAALPTDAGVYVCRARN 91
>pdb|1A4J|H Chain H, Diels Alder Catalytic Antibody Germline Precursor
pdb|1A4J|B Chain B, Diels Alder Catalytic Antibody Germline Precursor
pdb|1A4K|H Chain H, Diels Alder Catalytic Antibody With Transition State
Analogue
pdb|1A4K|B Chain B, Diels Alder Catalytic Antibody With Transition State
Analogue
Length = 219
Score = 25.4 bits (54), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 7/71 (9%)
Query: 3 MMSWYQDTFLIEPSVSD---RRL---METRGNKHTLTIKNVQSTDFGNYSCVADNNLGRA 56
M W +T+ EP+ +D R +ET + L I N+++ D Y CV L R
Sbjct: 47 WMGWI-NTYTGEPTYADDFKGRFAFSLETSASTAYLQINNLKNEDTATYFCVQAERLRRT 105
Query: 57 KKYMELSVSVS 67
Y +V+
Sbjct: 106 FDYWGAGTTVT 116
>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 = 25.4 bits (54), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 27/107 (25%), Positives = 45/107 (42%), Gaps = 11/107 (10%)
Query: 4 MSWYQDTFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL---GRAKKYM 60
M+W ++ + + S L T G +++ K+ QS + N + L G++ K +
Sbjct: 33 MNWLRELVMTQ---SPLTLSVTIGQPASISCKSSQSLLYSNGKTYLNWLLQRPGQSPKRL 89
Query: 61 ELSVSV-----SDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
VS DR G TL I V++ D G Y CV ++
Sbjct: 90 IYLVSKLDSGDPDRFTGSGSGTDFTLKISRVEAEDLGIYYCVQGSHF 136
>pdb|2EC8|A Chain A, Crystal Structure Of The Exctracellular Domain Of The
Receptor Tyrosine Kinase, Kit
Length = 524
Score = 25.4 bits (54), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 29 KHTLTIKNVQSTDFGNYSCVADNNLGRAKKYMELSV 64
+ TLTI + + D G + C A+N G A L V
Sbjct: 272 QATLTISSARVNDSGVFMCYANNTFGSANVTTTLEV 307
>pdb|1DVF|C Chain C, Idiotopic Antibody D1.3 Fv Fragment-Antiidiotopic Antibody
E5.2 Fv Fragment Complex
Length = 107
Score = 25.4 bits (54), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 17/41 (41%)
Query: 62 LSVSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
L V R G ++LTI N++ D Y C N L
Sbjct: 54 LHSGVPSRFSGSGSGTDYSLTISNLEQEDIATYFCQQGNTL 94
>pdb|2XKN|A Chain A, Crystal Structure Of The Fab Fragment Of The Anti-Egfr
Antibody 7a7
pdb|2XKN|C Chain C, Crystal Structure Of The Fab Fragment Of The Anti-Egfr
Antibody 7a7
Length = 223
Score = 25.0 bits (53), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 24/62 (38%), Gaps = 12/62 (19%)
Query: 4 MSWYQD------------TFLIEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNYSCVADN 51
++WYQ T + V+ R G ++LTI N++ D Y C N
Sbjct: 33 LNWYQQKPDGTVKLLIYYTSRLHSGVTSRFSGSGSGTDYSLTISNLEQEDIATYFCQQGN 92
Query: 52 NL 53
L
Sbjct: 93 TL 94
>pdb|1NMC|L Chain L, Complex Between Nc10 Anti-Influenza Virus Neuraminidase
Single Chain Antibody With A 15 Residue Linker And
Influenza Virus Neuraminidase
pdb|1NMC|C Chain C, Complex Between Nc10 Anti-Influenza Virus Neuraminidase
Single Chain Antibody With A 15 Residue Linker And
Influenza Virus Neuraminidase
Length = 109
Score = 25.0 bits (53), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 39/95 (41%), Gaps = 7/95 (7%)
Query: 13 IEPSVSDRRLMETRGNKHTLTIKNVQSTDFGNY-SCVADNNLGRAKKYM----ELSVSVS 67
IE + + L + G++ T++ + Q D NY + N G K + L V
Sbjct: 2 IELTQTTSSLSASLGDRVTISCRASQ--DISNYLNWYQQNPDGTVKLLIYYTSNLHSEVP 59
Query: 68 DRRLMETRGNKHTLTIKNVQSTDFGNYSCVADNNL 102
R G ++LTI N++ D Y C D L
Sbjct: 60 SRFSGSGSGTDYSLTISNLEQEDIATYFCQQDFTL 94
>pdb|1NDG|B Chain B, Crystal Structure Of Fab Fragment Of Antibody Hyhel-8
Complexed With Its Antigen Lysozyme
Length = 210
Score = 25.0 bits (53), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 1 MGMMSWYQDTFLIEPSVSDRRLM--ETRGNKHTLTIKNVQSTDFGNYSCV 48
MG +S+ +TF PS+ R + +T N+H L + +V + D Y C
Sbjct: 48 MGYISFSGNTFY-HPSLKSRISITRDTSKNQHYLQLSSVTTEDTATYYCA 96
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
0.315 0.128 0.366
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,221,709
Number of Sequences: 62578
Number of extensions: 112930
Number of successful extensions: 2284
Number of sequences better than 100.0: 505
Number of HSP's better than 100.0 without gapping: 379
Number of HSP's successfully gapped in prelim test: 126
Number of HSP's that attempted gapping in prelim test: 1337
Number of HSP's gapped (non-prelim): 1130
length of query: 115
length of database: 14,973,337
effective HSP length: 78
effective length of query: 37
effective length of database: 10,092,253
effective search space: 373413361
effective search space used: 373413361
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 45 (21.9 bits)