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= psy17146
(1011 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3B43|A Chain A, I-band Fragment I65-i70 From Titin
Length = 570
Score = 75.5 bits (184), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 109/461 (23%), Positives = 182/461 (39%), Gaps = 81/461 (17%)
Query: 334 MKYRWYINDQPVPAAASATELYLTNI-------TRHQHDSIVKCEVHNDVGKSEDSETLD 386
++ WY + + + A+ ++ N+ T H C N +G + S L
Sbjct: 131 LQVSWYKDGELLKDDANLQTSFIHNVATLQILQTDQSHVGQYNCSASNPLGTASSSAKLT 190
Query: 387 VT---YGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSD---------KVVG 434
++ P F +P SV + G C V G +ITW ++ + +V
Sbjct: 191 LSEHEVPPFFDLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREIRPGGNYKMTLVE 250
Query: 435 NSPNLTLLMTSDDLAGRYYCKAS-VMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTAR 493
N+ LT+L + AG+Y C AS V G A+ V R ++ + R
Sbjct: 251 NTATLTVLKVTKGDAGQYTCYASNVAGKDSCSAQLGVQEPPRFIKKLEPSRIVKQDEHTR 310
Query: 494 VECSAFSIPPPEKVTWSYRGE-----------------------EIGVGSSDDYS--VHN 528
EC P KV W Y+ E + V S DY+ HN
Sbjct: 311 YECK-IGGSPEIKVLW-YKDETEIQESSKFRMSFVESVAVLEMYNLSVEDSGDYTCEAHN 368
Query: 529 DVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSD---- 584
G + S +L V P FR +P+ V+ +GA V+L C++ G P +++W H+D
Sbjct: 369 AAGSASSSTSLKVKEPPVFRKKPHPVETLKGADVHLECELQGTPPFQVSW-HKDKRELRS 427
Query: 585 ----KVVGNSPNLTLLMTSDDLA--GRYYCKASVMGFPEVGAE---ATVYLKGRPTIISH 635
K++ + ++ + + D A G Y CKAS +VG++ ++ LK P +
Sbjct: 428 GKKYKIMSENFLTSIHILNVDSADIGEYQCKAS----NDVGSDTCVGSITLKAPPRFVKK 483
Query: 636 RTQFG-IPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLI 694
+ + G+ +++ + P V W EI V SD+ + E I +TL
Sbjct: 484 LSDISTVVGEEVQLQ-ATIEGAEPISVAWFKDKGEI-VRESDNIWI---SYSENI-ATLQ 537
Query: 695 IRESRHDHFGVYNCSVSNPYGSDSVEIMLKPQKSFPLLLIL 735
+ + G Y C + N G+ Q+ F L +L
Sbjct: 538 FSRAEPANAGKYTCQIKNEAGT---------QECFATLSVL 569
Score = 63.5 bits (153), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 128/588 (21%), Positives = 221/588 (37%), Gaps = 86/588 (14%)
Query: 27 EQKFAMEPQDQT-AVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNLSGFDRYAMIGS 84
E + +EP + A +G +TL C+V + + W K+ H L Y M
Sbjct: 4 EPPYFIEPLEHVEAAIGEPITLQCKVDGTPEIRIAWYKE------HTKLRSAPAYKMQFK 57
Query: 85 DEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLY 144
+ SL I V D Y C+ + G A + +PP R ++ ++
Sbjct: 58 NNVA--SLVINKVDHSDVGEYTCKAENSV-GAVASSAVLVIKERKLPPSFARKLKD--VH 112
Query: 145 TTEDREIELECISANGKPPAEITWI-DGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPK 203
T + EC NG P +++W DG + ++A++ +TL +
Sbjct: 113 ETLGFPVAFEC-RINGSEPLQVSWYKDGE-------LLKDDANLQTSFIHNVATLQILQT 164
Query: 204 KEHHNTTFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRLYCKAEAN 263
+ H + C A N A+L L P S L G C
Sbjct: 165 DQSHVGQYNCSASNPLGTASSSAKLTLSEHEVPPFFDLKPVSVDLALGESGTFKCHVTGT 224
Query: 264 PSHMKYRWYINDQP-----------VPAAASATELYLTNITRHQHDSIVK-------CEV 305
+ +K W +++ V A+ T L +T Q+ C
Sbjct: 225 -APIKITWAKDNREIRPGGNYKMTLVENTATLTVLKVTKGDAGQYTCYASNVAGKDSCSA 283
Query: 306 QVSVIGSNRLVEGTD----------VRLYCKAEANPSHMKYRWYINDQPVPAAA------ 349
Q+ V R ++ + R CK +P +K WY ++ + ++
Sbjct: 284 QLGVQEPPRFIKKLEPSRIVKQDEHTRYECKIGGSP-EIKVLWYKDETEIQESSKFRMSF 342
Query: 350 --SATELYLTNITRHQHDSIVKCEVHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAG 407
S L + N++ CE HN G + S +L V P FR +P+ V+ +GA
Sbjct: 343 VESVAVLEMYNLSVEDSGDYT-CEAHNAAGSASSSTSLKVKEPPVFRKKPHPVETLKGAD 401
Query: 408 VNLLCDVDGNPAPEITWIHEDSD--------KVVGNSPNLTLLMTSDDLA--GRYYCKAS 457
V+L C++ G P +++W H+D K++ + ++ + + D A G Y CKAS
Sbjct: 402 VHLECELQGTPPFQVSW-HKDKRELRSGKKYKIMSENFLTSIHILNVDSADIGEYQCKAS 460
Query: 458 VMGFPEVGAE---ATVYLKGRPTIISHRTQFG-IPGDTARVECSAFSIPPPEKVTWSYRG 513
+VG++ ++ LK P + + + G+ +++ + P V W
Sbjct: 461 ----NDVGSDTCVGSITLKAPPRFVKKLSDISTVVGEEVQLQ-ATIEGAEPISVAWFKDK 515
Query: 514 EEIGVGSSDDYSVHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAG 561
EI V SD+ + SE+ TL + A Y+ Q+ AG
Sbjct: 516 GEI-VRESDNIW----ISYSENIATLQFSRAEPANAGKYTCQIKNEAG 558
Score = 53.9 bits (128), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 105/497 (21%), Positives = 177/497 (35%), Gaps = 84/497 (16%)
Query: 318 GTDVRLYCKAEANPSHMKYRWYINDQPVPAAASATELYLTN-----ITRHQHDSI--VKC 370
G + L CK + P ++ WY + +A + + N I + H + C
Sbjct: 20 GEPITLQCKVDGTP-EIRIAWYKEHTKLRSAPAYKMQFKNNVASLVINKVDHSDVGEYTC 78
Query: 371 EVHNDVGKSEDSETLDVT---YGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITW--- 424
+ N VG S L + P F + V G V C ++G+ +++W
Sbjct: 79 KAENSVGAVASSAVLVIKERKLPPSFARKLKDVHETLGFPVAFECRINGSEPLQVSWYKD 138
Query: 425 ---IHEDSD---KVVGNSPNLTLLMTSDDLAGRYYCKASV-MGFPEVGAEATVYLKGRPT 477
+ +D++ + N L +L T G+Y C AS +G A+ T+ P
Sbjct: 139 GELLKDDANLQTSFIHNVATLQILQTDQSHVGQYNCSASNPLGTASSSAKLTLSEHEVPP 198
Query: 478 IISHRTQFGIPGDTARVECSAFSI----PPPEKVTWSYRGEEI----------------- 516
+ + D A E F P K+TW+ EI
Sbjct: 199 FFDLKP---VSVDLALGESGTFKCHVTGTAPIKITWAKDNREIRPGGNYKMTLVENTATL 255
Query: 517 -----GVGSSDDYSVH--NDVGKSEDSETLDVTYGPRF--RARPYSVQVDRGAGVNLLCD 567
G + Y+ + N GK S L V PRF + P + V + C
Sbjct: 256 TVLKVTKGDAGQYTCYASNVAGKDSCSAQLGVQEPPRFIKKLEPSRI-VKQDEHTRYECK 314
Query: 568 VDGNPAPEITWIHEDSD---------KVVGNSPNLTLLMTSDDLAGRYYCKA-----SVM 613
+ G+P ++ W ++++ V + L + S + +G Y C+A S
Sbjct: 315 IGGSPEIKVLWYKDETEIQESSKFRMSFVESVAVLEMYNLSVEDSGDYTCEAHNAAGSAS 374
Query: 614 GFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVG 673
+ + + +P + + G +EC PP +V+W E+ G
Sbjct: 375 SSTSLKVKEPPVFRKKPHPVE-----TLKGADVHLECE-LQGTPPFQVSWHKDKRELRSG 428
Query: 674 SSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCSVSNPYGSDSV--EIMLK-PQKSFP 730
Y ++ E +++ I G Y C SN GSD+ I LK P +
Sbjct: 429 KK--YKIM----SENFLTSIHILNVDSADIGEYQCKASNDVGSDTCVGSITLKAPPRFVK 482
Query: 731 LLLILTGVIGCVVILVA 747
L ++ V+G V L A
Sbjct: 483 KLSDISTVVGEEVQLQA 499
Score = 47.8 bits (112), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 49/190 (25%), Positives = 73/190 (38%), Gaps = 27/190 (14%)
Query: 545 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSD---------KVVGNSPNLTL 595
P F V+ G + L C VDG P I W E + + N +L +
Sbjct: 6 PYFIEPLEHVEAAIGEPITLQCKVDGTPEIRIAWYKEHTKLRSAPAYKMQFKNNVASLVI 65
Query: 596 LMTSDDLAGRYYCKASVMGFPEVGAEATVYLKGR--PTIISHRTQ-----FGIPGDTARV 648
G Y CKA V + A + +K R P + + + G P
Sbjct: 66 NKVDHSDVGEYTCKAE-NSVGAVASSAVLVIKERKLPPSFARKLKDVHETLGFP---VAF 121
Query: 649 ECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNC 708
EC + P +V+W GE + ++ S + + +TL I ++ H G YNC
Sbjct: 122 ECR-INGSEPLQVSWYKDGELLKDDANLQTSFIHNV------ATLQILQTDQSHVGQYNC 174
Query: 709 SVSNPYGSDS 718
S SNP G+ S
Sbjct: 175 SASNPLGTAS 184
>pdb|3ALP|A Chain A, Cell Adhesion Protein
pdb|3ALP|B Chain B, Cell Adhesion Protein
pdb|3U83|A Chain A, Crystal Structure Of Nectin-1
Length = 331
Score = 75.1 bits (183), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 62/228 (27%), Positives = 98/228 (42%), Gaps = 32/228 (14%)
Query: 67 LGPHRNLSGFDRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATL 126
L P+R F R + D ++ + + L+D+ Y C+ +T G +R + L
Sbjct: 75 LAPYRERVEFLRPSFT------DGTIRLSRLELEDEGVYICEFATFPTG-----NRESQL 123
Query: 127 TVLVPPDPPRIVQGDTLYT-----TEDREIELECISANGKPPAEITWIDGTGTVMSNVRV 181
+ V P ++G +D+ + C SANGKPP+ ++W R+
Sbjct: 124 NLTVMAKPTNWIEGTQAVLRAKKGQDDKVLVATCTSANGKPPSVVSW---------ETRL 174
Query: 182 TEEASVDGRRT-----TVKSTLVLTPKKEHHNTTFTCQAQNTADRTYKVARLKLLVKYAP 236
EA R TV S L P +E H + C DR +K + L L V+Y P
Sbjct: 175 KGEAEYQEIRNPNGTVTVISRYRLVPSREAHQQSLACIVNYHMDR-FKES-LTLNVQYEP 232
Query: 237 KVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASA 284
+V + N ++ DV+L CKA+ANP +Y W + +P A
Sbjct: 233 EVTIEGFDGNWYLQRMDVKLTCKADANPPATEYHWTTLNGSLPKGVEA 280
Score = 39.3 bits (90), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 36/87 (41%), Gaps = 2/87 (2%)
Query: 304 EVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASATE--LYLTNITR 361
EV + N ++ DV+L CKA+ANP +Y W + +P A L+
Sbjct: 233 EVTIEGFDGNWYLQRMDVKLTCKADANPPATEYHWTTLNGSLPKGVEAQNRTLFFKGPIN 292
Query: 362 HQHDSIVKCEVHNDVGKSEDSETLDVT 388
+ CE N +G +++T
Sbjct: 293 YSLAGTYICEATNPIGTRSGQVEVNIT 319
>pdb|4FMF|A Chain A, Crystal Structure Of Human Nectin-1 Full Ectodomain
(D1-D3)
pdb|4FMF|B Chain B, Crystal Structure Of Human Nectin-1 Full Ectodomain
(D1-D3)
pdb|4FMF|C Chain C, Crystal Structure Of Human Nectin-1 Full Ectodomain
(D1-D3)
pdb|4FMF|D Chain D, Crystal Structure Of Human Nectin-1 Full Ectodomain
(D1-D3)
Length = 313
Score = 75.1 bits (183), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 62/228 (27%), Positives = 98/228 (42%), Gaps = 32/228 (14%)
Query: 67 LGPHRNLSGFDRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATL 126
L P+R F R + D ++ + + L+D+ Y C+ +T G +R + L
Sbjct: 60 LAPYRERVEFLRPSFT------DGTIRLSRLELEDEGVYICEFATFPTG-----NRESQL 108
Query: 127 TVLVPPDPPRIVQGDTLYT-----TEDREIELECISANGKPPAEITWIDGTGTVMSNVRV 181
+ V P ++G +D+ + C SANGKPP+ ++W R+
Sbjct: 109 NLTVMAKPTNWIEGTQAVLRAKKGQDDKVLVATCTSANGKPPSVVSW---------ETRL 159
Query: 182 TEEASVDGRRT-----TVKSTLVLTPKKEHHNTTFTCQAQNTADRTYKVARLKLLVKYAP 236
EA R TV S L P +E H + C DR +K + L L V+Y P
Sbjct: 160 KGEAEYQEIRNPNGTVTVISRYRLVPSREAHQQSLACIVNYHMDR-FKES-LTLNVQYEP 217
Query: 237 KVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASA 284
+V + N ++ DV+L CKA+ANP +Y W + +P A
Sbjct: 218 EVTIEGFDGNWYLQRMDVKLTCKADANPPATEYHWTTLNGSLPKGVEA 265
Score = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 37/90 (41%), Gaps = 2/90 (2%)
Query: 304 EVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASATE--LYLTNITR 361
EV + N ++ DV+L CKA+ANP +Y W + +P A L+
Sbjct: 218 EVTIEGFDGNWYLQRMDVKLTCKADANPPATEYHWTTLNGSLPKGVEAQNRTLFFKGPIN 277
Query: 362 HQHDSIVKCEVHNDVGKSEDSETLDVTYGP 391
+ CE N +G +++T P
Sbjct: 278 YSLAGTYICEATNPIGTRSGQVEVNITEFP 307
>pdb|3U82|B Chain B, Binding Of Herpes Simplex Virus Glycoprotein D To Nectin-1
Exploits Host Cell Adhesion
Length = 317
Score = 75.1 bits (183), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 61/228 (26%), Positives = 96/228 (42%), Gaps = 32/228 (14%)
Query: 67 LGPHRNLSGFDRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATL 126
L P+R F R + D ++ + + L+D+ Y C+ +T G +R + L
Sbjct: 61 LAPYRERVEFLRPSFT------DGTIRLSRLELEDEGVYICEFATFPTG-----NRESQL 109
Query: 127 TVLVPPDPPRIVQGDTLYT-----TEDREIELECISANGKPPAEITWIDGTGTVMSNVRV 181
+ V P ++G +D+ + C SANGKPP+ ++W R+
Sbjct: 110 NLTVMAKPTNWIEGTQAVLRAKKGQDDKVLVATCTSANGKPPSVVSW---------ETRL 160
Query: 182 TEEASVDGRRT-----TVKSTLVLTPKKEHHNTTFTCQAQNTADRTYKVARLKLLVKYAP 236
EA R TV S L P +E H + C DR + L L V+Y P
Sbjct: 161 KGEAEYQEIRNPNGTVTVISRYRLVPSREAHQQSLACIVNYHMDRFKE--SLTLNVQYEP 218
Query: 237 KVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASA 284
+V + N ++ DV+L CKA+ANP +Y W + +P A
Sbjct: 219 EVTIEGFDGNWYLQRMDVKLTCKADANPPATEYHWTTLNGSLPKGVEA 266
Score = 38.9 bits (89), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 36/87 (41%), Gaps = 2/87 (2%)
Query: 304 EVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASATE--LYLTNITR 361
EV + N ++ DV+L CKA+ANP +Y W + +P A L+
Sbjct: 219 EVTIEGFDGNWYLQRMDVKLTCKADANPPATEYHWTTLNGSLPKGVEAQNRTLFFKGPIN 278
Query: 362 HQHDSIVKCEVHNDVGKSEDSETLDVT 388
+ CE N +G +++T
Sbjct: 279 YSLAGTYICEATNPIGTRSGQVEVNIT 305
>pdb|3SKU|E Chain E, Herpes Simplex Virus Glycoprotein D Bound To The Human
Receptor Nectin-1
pdb|3SKU|D Chain D, Herpes Simplex Virus Glycoprotein D Bound To The Human
Receptor Nectin-1
pdb|3SKU|F Chain F, Herpes Simplex Virus Glycoprotein D Bound To The Human
Receptor Nectin-1
Length = 319
Score = 75.1 bits (183), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 62/228 (27%), Positives = 98/228 (42%), Gaps = 32/228 (14%)
Query: 67 LGPHRNLSGFDRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATL 126
L P+R F R + D ++ + + L+D+ Y C+ +T G +R + L
Sbjct: 60 LAPYRERVEFLRPSFT------DGTIRLSRLELEDEGVYICEFATFPTG-----NRESQL 108
Query: 127 TVLVPPDPPRIVQGDTLYT-----TEDREIELECISANGKPPAEITWIDGTGTVMSNVRV 181
+ V P ++G +D+ + C SANGKPP+ ++W R+
Sbjct: 109 NLTVMAKPTNWIEGTQAVLRAKKGQDDKVLVATCTSANGKPPSVVSW---------ETRL 159
Query: 182 TEEASVDGRRT-----TVKSTLVLTPKKEHHNTTFTCQAQNTADRTYKVARLKLLVKYAP 236
EA R TV S L P +E H + C DR +K + L L V+Y P
Sbjct: 160 KGEAEYQEIRNPNGTVTVISRYRLVPSREAHQQSLACIVNYHMDR-FKES-LTLNVQYEP 217
Query: 237 KVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASA 284
+V + N ++ DV+L CKA+ANP +Y W + +P A
Sbjct: 218 EVTIEGFDGNWYLQRMDVKLTCKADANPPATEYHWTTLNGSLPKGVEA 265
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 37/90 (41%), Gaps = 2/90 (2%)
Query: 304 EVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASATE--LYLTNITR 361
EV + N ++ DV+L CKA+ANP +Y W + +P A L+
Sbjct: 218 EVTIEGFDGNWYLQRMDVKLTCKADANPPATEYHWTTLNGSLPKGVEAQNRTLFFKGPIN 277
Query: 362 HQHDSIVKCEVHNDVGKSEDSETLDVTYGP 391
+ CE N +G +++T P
Sbjct: 278 YSLAGTYICEATNPIGTRSGQVEVNITEFP 307
>pdb|2CRY|A Chain A, Solution Structure Of The Fifth Ig-Like Domain Of Human
Kin Of Irre Like 3
Length = 122
Score = 74.7 bits (182), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 40/111 (36%), Positives = 63/111 (56%), Gaps = 1/111 (0%)
Query: 619 GAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDY 678
G+ T+ + G P I S +TQ + G+ +++C S PPP+++ WS++ + G+S Y
Sbjct: 4 GSSGTLTVNGPPIISSTQTQHALHGEKGQIKCFIRSTPPPDRIAWSWKENVLESGTSGRY 63
Query: 679 SVLEDPLKEGIKSTLIIRE-SRHDHFGVYNCSVSNPYGSDSVEIMLKPQKS 728
+V +EG+ STL I R D +YNC+ N +GSD+ I LK Q S
Sbjct: 64 TVETISTEEGVISTLTISNIVRADFQTIYNCTAWNSFGSDTEIIRLKEQGS 114
Score = 47.0 bits (110), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 37/63 (58%)
Query: 465 GAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDY 524
G+ T+ + G P I S +TQ + G+ +++C S PPP+++ WS++ + G+S Y
Sbjct: 4 GSSGTLTVNGPPIISSTQTQHALHGEKGQIKCFIRSTPPPDRIAWSWKENVLESGTSGRY 63
Query: 525 SVH 527
+V
Sbjct: 64 TVE 66
>pdb|4FOM|A Chain A, Crystal Structure Of Human Nectin-3 Full Ectodomain
(D1-D3)
Length = 308
Score = 70.1 bits (170), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 73/286 (25%), Positives = 108/286 (37%), Gaps = 22/286 (7%)
Query: 38 TAVVGSRVTLPCRVIDKTGVLQ--WTK----DDFALGPHRNLSGFDRYA------MIGSD 85
TAV G V+L C + + Q W K + H GF + +
Sbjct: 10 TAVWGKNVSLKCLIEVNETITQISWEKIHGKSSQTVAVHHPQYGFSVQGEYQGRVLFKNY 69
Query: 86 EEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYT 145
D ++ ++ + D +Y C+ T LG + T+TVLV P I D+L
Sbjct: 70 SLNDATITLHNIGFSDSGKYICKAVTFPLGNAQSST---TVTVLVEPTVSLIKGPDSLID 126
Query: 146 TEDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKE 205
+ + CI+A GKP A I W G + S S T+ S L P +
Sbjct: 127 GGNETVAAICIAATGKPVAHIDWEGDLGEMESTT-----TSFPNETATIISQYKLFPTRF 181
Query: 206 HHNTTFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRLYCKAEANPS 265
TC ++ A L ++YAP+V V+ N V V L C A+ANP
Sbjct: 182 ARGRRITCVVKHPALEKDIRYSFILDIQYAPEVSVTGYDGNWFVGRKGVNLKCNADANPP 241
Query: 266 HMKYRWYINDQPVPAA--ASATELYLTNITRHQHDSIVKCEVQVSV 309
K W D P AS L+ + + + C+V S+
Sbjct: 242 PFKSVWSRLDGQWPDGLLASDNTLHFVHPLTFNYSGVYICKVTNSL 287
>pdb|4FQP|A Chain A, Crystal Structure Of Human Nectin-Like 5 Full Ectodomain
(D1-D3)
Length = 313
Score = 68.6 bits (166), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/291 (25%), Positives = 120/291 (41%), Gaps = 29/291 (9%)
Query: 34 PQDQTAVVGSRVTLPCRV------IDKTGVLQWTK----DDFAL-----GPHRNLSGFDR 78
P +G VTLPC + + L W + A+ GP + S
Sbjct: 7 PTQVPGFLGDSVTLPCYLQVPNMEVTHVSQLTWARHGESGSMAVFHQTQGPSYSESKRLE 66
Query: 79 Y--AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
+ A +G+ E + SL ++ + ++D+ Y C T G RS L VL P
Sbjct: 67 FVAARLGA-ELRNASLRMFGLRVEDEGNYTCLFVTFPQGS---RSVDIWLRVLAKPQNTA 122
Query: 137 IVQGDTLYTTEDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
VQ L T + C+S G+PPA+ITW G + + +V S TV S
Sbjct: 123 EVQKVQL--TGEPVPMARCVSTGGRPPAQITWHSDLGGMPNTSQVPGFLS---GTVTVTS 177
Query: 197 TLVLTPKKEHHNTTFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRL 256
+L P + TC+ ++ + ++ + L V Y P+V +S +N + + L
Sbjct: 178 LWILVPSSQVDGKNVTCKVEHESFEKPQLLTVNLTVYYPPEVSISGYDNNWYLGQNEATL 237
Query: 257 YCKAEANPSHMKYRWYINDQPVP--AAASATELYLTNITRHQHDSIVKCEV 305
C A +NP Y W P+P A A +L + + + + +++ C V
Sbjct: 238 TCDARSNPEPTGYNWSTTMGPLPPFAVAQGAQLLIRPVDKPINTTLI-CNV 287
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 3/90 (3%)
Query: 304 EVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVP--AAASATELYLTNITR 361
EV +S +N + + L C A +NP Y W P+P A A +L + + +
Sbjct: 218 EVSISGYDNNWYLGQNEATLTCDARSNPEPTGYNWSTTMGPLPPFAVAQGAQLLIRPVDK 277
Query: 362 HQHDSIVKCEVHNDVGKSEDSETLDVTYGP 391
+ +++ C V N +G + T+ V GP
Sbjct: 278 PINTTLI-CNVTNALGARQAELTVQVKEGP 306
Score = 30.0 bits (66), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 42/182 (23%), Positives = 69/182 (37%), Gaps = 39/182 (21%)
Query: 570 GNPAPEITWIHEDSDKVVGNSPN----------------LTLLMTSDDLAGR-YYCKASV 612
G P +ITW H D +G PN L +L+ S + G+ CK
Sbjct: 144 GRPPAQITW-HSD----LGGMPNTSQVPGFLSGTVTVTSLWILVPSSQVDGKNVTCKVEH 198
Query: 613 MGFPE---VGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWS-YRGE 668
F + + TVY +I + + + + A + C A S P P WS G
Sbjct: 199 ESFEKPQLLTVNLTVYYPPEVSISGYDNNWYLGQNEATLTCDARSNPEPTGYNWSTTMGP 258
Query: 669 EIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCSVSNPYGSDSVEIMLKPQKS 728
+ +L P+ + I +TLI C+V+N G+ E+ ++ ++
Sbjct: 259 LPPFAVAQGAQLLIRPVDKPINTTLI-------------CNVTNALGARQAELTVQVKEG 305
Query: 729 FP 730
P
Sbjct: 306 PP 307
>pdb|1DGI|R Chain R, Cryo-Em Structure Of Human Poliovirus(Serotype 1)complexed
With Three Domain Cd155
pdb|1NN8|R Chain R, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus
pdb|1NN8|S Chain S, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus
pdb|1NN8|T Chain T, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus
Length = 302
Score = 68.6 bits (166), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/291 (25%), Positives = 120/291 (41%), Gaps = 29/291 (9%)
Query: 34 PQDQTAVVGSRVTLPCRV------IDKTGVLQWTK----DDFAL-----GPHRNLSGFDR 78
P +G VTLPC + + L W + A+ GP + S
Sbjct: 7 PTQVPGFLGDSVTLPCYLQVPNMEVTHVSQLTWARHGESGSMAVFHQTQGPSYSESKRLE 66
Query: 79 Y--AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
+ A +G+ E + SL ++ + ++D+ Y C T G RS L VL P
Sbjct: 67 FVAARLGA-ELRNASLRMFGLRVEDEGNYTCLFVTFPQGS---RSVDIWLRVLAKPQNTA 122
Query: 137 IVQGDTLYTTEDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
VQ L T + C+S G+PPA+ITW G + + +V S TV S
Sbjct: 123 EVQKVQL--TGEPVPMARCVSTGGRPPAQITWHSDLGGMPNTSQVPGFLS---GTVTVTS 177
Query: 197 TLVLTPKKEHHNTTFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRL 256
+L P + TC+ ++ + ++ + L V Y P+V +S +N + + L
Sbjct: 178 LWILVPSSQVDGKNVTCKVEHESFEKPQLLTVNLTVYYPPEVSISGYDNNWYLGQNEATL 237
Query: 257 YCKAEANPSHMKYRWYINDQPVP--AAASATELYLTNITRHQHDSIVKCEV 305
C A +NP Y W P+P A A +L + + + + +++ C V
Sbjct: 238 TCDARSNPEPTGYNWSTTMGPLPPFAVAQGAQLLIRPVDKPINTTLI-CNV 287
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 39/86 (45%), Gaps = 3/86 (3%)
Query: 304 EVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVP--AAASATELYLTNITR 361
EV +S +N + + L C A +NP Y W P+P A A +L + + +
Sbjct: 218 EVSISGYDNNWYLGQNEATLTCDARSNPEPTGYNWSTTMGPLPPFAVAQGAQLLIRPVDK 277
Query: 362 HQHDSIVKCEVHNDVGKSEDSETLDV 387
+ +++ C V N +G + T+ V
Sbjct: 278 PINTTLI-CNVTNALGARQAELTVQV 302
Score = 30.0 bits (66), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 41/176 (23%), Positives = 66/176 (37%), Gaps = 39/176 (22%)
Query: 570 GNPAPEITWIHEDSDKVVGNSPN----------------LTLLMTSDDLAGR-YYCKASV 612
G P +ITW H D +G PN L +L+ S + G+ CK
Sbjct: 144 GRPPAQITW-HSD----LGGMPNTSQVPGFLSGTVTVTSLWILVPSSQVDGKNVTCKVEH 198
Query: 613 MGFPE---VGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWS-YRGE 668
F + + TVY +I + + + + A + C A S P P WS G
Sbjct: 199 ESFEKPQLLTVNLTVYYPPEVSISGYDNNWYLGQNEATLTCDARSNPEPTGYNWSTTMGP 258
Query: 669 EIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCSVSNPYGSDSVEIMLK 724
+ +L P+ + I +TLI C+V+N G+ E+ ++
Sbjct: 259 LPPFAVAQGAQLLIRPVDKPINTTLI-------------CNVTNALGARQAELTVQ 301
>pdb|3LAF|A Chain A, Structure Of Dcc, A Netrin-1 Receptor
Length = 403
Score = 67.8 bits (164), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 97/360 (26%), Positives = 133/360 (36%), Gaps = 74/360 (20%)
Query: 316 VEGTDVRLYCKAEANPSHMKYRWYIN-----------DQPVPAAASATELYLTNITRHQH 364
+ G +V L C AE++ +W + Q +P + L + NI +H
Sbjct: 34 MRGGNVLLNCSAESDRGVPVIKWKKDGLILALGMDDRKQQLPNGS----LLIQNILHSRH 89
Query: 365 ----DSIVKCEVHNDVGKSEDSETLDVTY-GP-RFRARPYSVQVDRGAGVNLLCDVDGNP 418
+ + +CE S S T V GP RF ++ S+ G V L C+V G+P
Sbjct: 90 HKPDEGLYQCEASLGDSGSIISRTAKVMVAGPLRFLSQTESITAFMGDTVLLKCEVIGDP 149
Query: 419 APEITW---------IHEDSDKVVGNSPNLTLLMTSDDLAGRYYCKASVMGFPEVGAEAT 469
P I W I DS VV S L + +G Y C A G EA
Sbjct: 150 MPTIHWQKNQQDLNPIPGDSRVVVLPSGALQISRLQPGDSGVYRCSARNPASTRTGNEAE 209
Query: 470 VYLKGRPTIISHRTQF---------GIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGS 520
V + P + HR + I G A +EC PPP TW RGEE+
Sbjct: 210 VRILSDPGL--HRQLYFLQRPSNVIAIEGKDAVLECCVSGYPPP-SFTW-LRGEEVIQLR 265
Query: 521 SDDYSV------------HNDVG--------KSED---SETLDVTYGPRFRARPYSVQVD 557
S YS+ +D G K+E+ S L V P F P ++
Sbjct: 266 SKKYSLLGGSNLLISNVTDDDSGTYTCVVTYKNENISASAELTVLVPPWFLNHPSNLYAY 325
Query: 558 RGAGVNLLCDVDGNPAPEITW-------IHEDSDKVVGNSPNLTLLMTSDDLAGRYYCKA 610
+ C V G P P + W I D ++VG S NL +L G Y C A
Sbjct: 326 ESMDIEFECAVSGKPVPTVNWMKNGDVVIPSDYFQIVGGS-NLRILGVVKSDEGFYQCVA 384
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 62/247 (25%), Positives = 93/247 (37%), Gaps = 33/247 (13%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTG--VLQWTKDDFALGPHRNLSGFDRYAMIGSDEE 87
F EP D + G V L C G V++W KD L L DR + +
Sbjct: 24 FVSEPSDAVTMRGGNVLLNCSAESDRGVPVIKWKKDGLILA----LGMDDRKQQLPNG-- 77
Query: 88 GDYSLEIYPVMLD-----DDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
SL I ++ D+ YQC+ S G G +I SR A + V P + T
Sbjct: 78 ---SLLIQNILHSRHHKPDEGLYQCEASLGDSG--SIISRTAKVMVAGPLRFLSQTESIT 132
Query: 143 LYTTEDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKS-TLVLT 201
+ + ++ E I G P I W N + D R + S L ++
Sbjct: 133 AFMGDTVLLKCEVI---GDPMPTIHW-------QKNQQDLNPIPGDSRVVVLPSGALQIS 182
Query: 202 PKKEHHNTTFTCQAQNTAD-RTYKVARLKLLVKYAPKVQVSVIG--SNRL-VEGTDVRLY 257
+ + + C A+N A RT A +++L Q+ + SN + +EG D L
Sbjct: 183 RLQPGDSGVYRCSARNPASTRTGNEAEVRILSDPGLHRQLYFLQRPSNVIAIEGKDAVLE 242
Query: 258 CKAEANP 264
C P
Sbjct: 243 CCVSGYP 249
>pdb|1E07|A Chain A, Model Of Human Carcinoembryonic Antigen By Homology
Modelling And Curve-Fitting To Experimental Solution
Scattering Data
Length = 642
Score = 67.0 bits (162), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 93/380 (24%), Positives = 146/380 (38%), Gaps = 65/380 (17%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
G+ ++ L I + +++ Y CQ G R+ T+TV P P I ++
Sbjct: 241 GTFQQSTQELFIPNITVNNSGSYTCQAHNSDTG--LNRTTVTTITVYAEPPKPFITSNNS 298
Query: 143 LYTTEDREIELECISANGKPPAEIT----WIDGTGTVMSNVRVTEEASVDGRRTTVKSTL 198
++ + L C +P + T W++ +S R+ + S D R TL
Sbjct: 299 NPVEDEDAVALTC-----EPEIQNTTYLWWVNNQSLPVS-PRL--QLSNDNR------TL 344
Query: 199 VLTPKKEHHNTTFTCQAQN--TADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRL 256
L + + C QN + D + V L V Y P G ++ L
Sbjct: 345 TLLSVTRNDVGPYECGIQNELSVDHSDPVI---LNVLYGPDDPTISPSYTYYRPGVNLSL 401
Query: 257 YCKAEANPSHMKYRWYINDQPVPAAASATELYLTNITRHQHDSIVKCEVQVSVIGSNRL- 315
C A +NP +Y W I+ EL+++NIT ++ + C+ S G +R
Sbjct: 402 SCHAASNPP-AQYSWLIDGN---IQQHTQELFISNITE-KNSGLYTCQANNSASGHSRTT 456
Query: 316 ----------------------VEGTD-VRLYCKAEANPSHMKYRWYINDQPVPAAASAT 352
VE D V C+ EA + Y W++N Q +P +
Sbjct: 457 VKTITVSAELPKPSISSNNSKPVEDKDAVAFTCEPEA--QNTTYLWWVNGQSLPVSPRLQ 514
Query: 353 ------ELYLTNITRHQHDSIVKCEVHNDVGKSE-DSETLDVTYGPRFRA-RPYSVQVDR 404
L L N+TR+ + V C + N V + D TLDV YGP P
Sbjct: 515 LSNGNRTLTLFNVTRNDARAYV-CGIQNSVSANRSDPVTLDVLYGPDTPIISPPDSSYLS 573
Query: 405 GAGVNLLCDVDGNPAPEITW 424
GA +NL C NP+P+ +W
Sbjct: 574 GANLNLSCHSASNPSPQYSW 593
Score = 65.9 bits (159), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 104/447 (23%), Positives = 167/447 (37%), Gaps = 83/447 (18%)
Query: 197 TLVLTPKKEHHNTTFTCQAQN--TADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDV 254
TL L + ++ C+ QN +A R+ V L V Y P + G ++
Sbjct: 165 TLTLFNVTRNDTASYKCETQNPVSARRSDSVI---LNVLYGPDAPTISPLNTSYRSGENL 221
Query: 255 RLYCKAEANPSHMKYRWYINDQPVPAAASATELYLTNITRHQHDSIVKCEVQVSVIGSNR 314
L C A +NP +Y W++N S EL++ NIT + S C+ S G NR
Sbjct: 222 NLSCHAASNPP-AQYSWFVNGT---FQQSTQELFIPNITVNNSGSYT-CQAHNSDTGLNR 276
Query: 315 L-----------------------VEGTD-VRLYCKAEANPSHMKYRWYINDQPVPAAAS 350
VE D V L C+ E + Y W++N+Q +P +
Sbjct: 277 TTVTTITVYAEPPKPFITSNNSNPVEDEDAVALTCEPEI--QNTTYLWWVNNQSLPVSPR 334
Query: 351 AT------ELYLTNITRHQHDSIVKCEVHNDVG-KSEDSETLDVTYGPRF-RARPYSVQV 402
L L ++TR+ +C + N++ D L+V YGP P
Sbjct: 335 LQLSNDNRTLTLLSVTRNDVGP-YECGIQNELSVDHSDPVILNVLYGPDDPTISPSYTYY 393
Query: 403 DRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDLAGRYYCKA--SVMG 460
G ++L C NP + +W+ + + ++ L + ++ +G Y C+A S G
Sbjct: 394 RPGVNLSLSCHAASNPPAQYSWLIDG--NIQQHTQELFISNITEKNSGLYTCQANNSASG 451
Query: 461 FPEVGAEATVYLKG---RPTIISHRTQFGIPGDTARVECSAFSIPPPEKVT--WSYRGEE 515
+ T+ + +P+I S+ ++ D C P + T W G+
Sbjct: 452 HSRTTVK-TITVSAELPKPSISSNNSKPVEDKDAVAFTCE----PEAQNTTYLWWVNGQS 506
Query: 516 IGVGSSDDYS----------------------VHNDVGKSE-DSETLDVTYGPRFRA-RP 551
+ V S + N V + D TLDV YGP P
Sbjct: 507 LPVSPRLQLSNGNRTLTLFNVTRNDARAYVCGIQNSVSANRSDPVTLDVLYGPDTPIISP 566
Query: 552 YSVQVDRGAGVNLLCDVDGNPAPEITW 578
GA +NL C NP+P+ +W
Sbjct: 567 PDSSYLSGANLNLSCHSASNPSPQYSW 593
Score = 55.8 bits (133), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 83/338 (24%), Positives = 132/338 (39%), Gaps = 56/338 (16%)
Query: 316 VEGTD-VRLYCKAEANPSHMKYRWYINDQPVPAAASAT------ELYLTNITRHQHDSIV 368
VE D V C+ E Y W++N+Q +P + L L N+TR+ S
Sbjct: 123 VEDKDAVAFTCEPET--QDATYLWWVNNQSLPVSPRLQLSNGNRTLTLFNVTRNDTAS-Y 179
Query: 369 KCEVHNDV-GKSEDSETLDVTYGPRF-RARPYSVQVDRGAGVNLLCDVDGNPAPEITWIH 426
KCE N V + DS L+V YGP P + G +NL C NP + +W
Sbjct: 180 KCETQNPVSARRSDSVILNVLYGPDAPTISPLNTSYRSGENLNLSCHAASNPPAQYSWFV 239
Query: 427 EDSDKVVGNS---PNLTLLMTSDDLAGRYYCKA--SVMGFPEVGAEA-TVYLK-GRPTII 479
+ + PN+T+ + +G Y C+A S G TVY + +P I
Sbjct: 240 NGTFQQSTQELFIPNITV-----NNSGSYTCQAHNSDTGLNRTTVTTITVYAEPPKPFIT 294
Query: 480 SHRTQFGIPGDTARVECSAFSIPPPEKVT--WSYRGEEIGVG-----SSDDYSV------ 526
S+ + D + C P + T W + + V S+D+ ++
Sbjct: 295 SNNSNPVEDEDAVALTCE----PEIQNTTYLWWVNNQSLPVSPRLQLSNDNRTLTLLSVT 350
Query: 527 HNDVGKSE------------DSETLDVTYGPRF-RARPYSVQVDRGAGVNLLCDVDGNPA 573
NDVG E D L+V YGP P G ++L C NP
Sbjct: 351 RNDVGPYECGIQNELSVDHSDPVILNVLYGPDDPTISPSYTYYRPGVNLSLSCHAASNPP 410
Query: 574 PEITWIHEDSDKVVGNSPNLTLLMTSDDLAGRYYCKAS 611
+ +W+ + + ++ L + ++ +G Y C+A+
Sbjct: 411 AQYSWLID--GNIQQHTQELFISNITEKNSGLYTCQAN 446
Score = 53.1 bits (126), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 82/321 (25%), Positives = 125/321 (38%), Gaps = 53/321 (16%)
Query: 236 PKVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASAT------ELYL 289
PK +S S + + V C+ E Y W++N+Q +P + L L
Sbjct: 111 PKPSISSNNSKPVEDKDAVAFTCEPET--QDATYLWWVNNQSLPVSPRLQLSNGNRTLTL 168
Query: 290 TNITRHQHDSIVKCEVQ--VSVIGSNRLV--------------------EGTDVRLYCKA 327
N+TR+ S KCE Q VS S+ ++ G ++ L C A
Sbjct: 169 FNVTRNDTAS-YKCETQNPVSARRSDSVILNVLYGPDAPTISPLNTSYRSGENLNLSCHA 227
Query: 328 EANPSHMKYRWYINDQPVPAAASATELYLTNITRHQHDSIVKCEVHN-DVGKSEDSETLD 386
+NP +Y W++N S EL++ NIT + S C+ HN D G + + T
Sbjct: 228 ASNPP-AQYSWFVNGT---FQQSTQELFIPNITVNNSGSYT-CQAHNSDTGLNRTTVTTI 282
Query: 387 VTYG--PR-FRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKV------VGNSP 437
Y P+ F S V+ V L C+ + + W++ S V ++
Sbjct: 283 TVYAEPPKPFITSNNSNPVEDEDAVALTCEPEIQNTTYLWWVNNQSLPVSPRLQLSNDNR 342
Query: 438 NLTLLMTSDDLAGRYYC----KASVMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTAR 493
LTLL + + G Y C + SV V +Y PTI T + PG
Sbjct: 343 TLTLLSVTRNDVGPYECGIQNELSVDHSDPVILNV-LYGPDDPTISPSYTYYR-PGVNLS 400
Query: 494 VECSAFSIPPPEKVTWSYRGE 514
+ C A S PP + +W G
Sbjct: 401 LSCHAAS-NPPAQYSWLIDGN 420
>pdb|2RJM|A Chain A, 3ig Structure Of Titin Domains I67-I69 E-To-A Mutated
Variant
Length = 284
Score = 64.7 bits (156), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 71/266 (26%), Positives = 109/266 (40%), Gaps = 48/266 (18%)
Query: 391 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSD---------KVVGNSPNLTL 441
P F +P SV + G C V G +ITW ++ + +V N+ LT+
Sbjct: 6 PFFDLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREIRPGGNYKMTLVENTATLTV 65
Query: 442 LMTSDDLAGRYYCKAS-VMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFS 500
L + AG+Y C AS V G A+ V R ++ + R EC
Sbjct: 66 LKVTKGDAGQYTCYASNVAGKDSCSAQLGVQAPPRFIKKLEPSRIVKQDEHTRYECK-IG 124
Query: 501 IPPPEKVTWSYRGE-----------------------EIGVGSSDDYS--VHNDVGKSED 535
P KV W Y+ E + V S DY+ HN G +
Sbjct: 125 GSPEIKVLW-YKDETEIQESSKFRMSFVESVAVLEMYNLSVEDSGDYTCEAHNAAGSASS 183
Query: 536 SETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSD--------KVV 587
S +L V P FR +P+ V+ +GA V+L C++ G P +++W H+D K++
Sbjct: 184 STSLKVKEPPVFRKKPHPVETLKGADVHLECELQGTPPFQVSW-HKDKRELRSGKKYKIM 242
Query: 588 GNSPNLTLLMTSDDLA--GRYYCKAS 611
+ ++ + + D A G Y CKAS
Sbjct: 243 SENFLTSIHILNVDSADIGEYQCKAS 268
Score = 51.2 bits (121), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 46/183 (25%), Positives = 80/183 (43%), Gaps = 31/183 (16%)
Query: 303 CEVQVSVIGSNRLVEGTD----------VRLYCKAEANPSHMKYRWYINDQPVPAAA--- 349
C Q+ V R ++ + R CK +P +K WY ++ + ++
Sbjct: 89 CSAQLGVQAPPRFIKKLEPSRIVKQDEHTRYECKIGGSP-EIKVLWYKDETEIQESSKFR 147
Query: 350 -----SATELYLTNITRHQHDSIVKCEVHNDVGKSEDSETLDVTYGPRFRARPYSVQVDR 404
S L + N++ CE HN G + S +L V P FR +P+ V+ +
Sbjct: 148 MSFVESVAVLEMYNLSVEDSGDYT-CEAHNAAGSASSSTSLKVKEPPVFRKKPHPVETLK 206
Query: 405 GAGVNLLCDVDGNPAPEITWIHEDSD--------KVVGNSPNLTLLMTSDDLA--GRYYC 454
GA V+L C++ G P +++W H+D K++ + ++ + + D A G Y C
Sbjct: 207 GADVHLECELQGTPPFQVSW-HKDKRELRSGKKYKIMSENFLTSIHILNVDSADIGEYQC 265
Query: 455 KAS 457
KAS
Sbjct: 266 KAS 268
Score = 30.0 bits (66), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 7/84 (8%)
Query: 643 GDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDH 702
G++ +C P K+TW+ EI G + +++E+ +TL + +
Sbjct: 20 GESGTFKCHVTGTAPI-KITWAKDNREIRPGGNYKMTLVEN------TATLTVLKVTKGD 72
Query: 703 FGVYNCSVSNPYGSDSVEIMLKPQ 726
G Y C SN G DS L Q
Sbjct: 73 AGQYTCYASNVAGKDSCSAQLGVQ 96
>pdb|2RIK|A Chain A, I-Band Fragment I67-I69 From Titin
Length = 284
Score = 63.9 bits (154), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 71/266 (26%), Positives = 109/266 (40%), Gaps = 48/266 (18%)
Query: 391 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSD---------KVVGNSPNLTL 441
P F +P SV + G C V G +ITW ++ + +V N+ LT+
Sbjct: 6 PFFDLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREIRPGGNYKMTLVENTATLTV 65
Query: 442 LMTSDDLAGRYYCKAS-VMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFS 500
L + AG+Y C AS V G A+ V R ++ + R EC
Sbjct: 66 LKVTKGDAGQYTCYASNVAGKDSCSAQLGVQEPPRFIKKLEPSRIVKQDEHTRYECK-IG 124
Query: 501 IPPPEKVTWSYRGE-----------------------EIGVGSSDDYS--VHNDVGKSED 535
P KV W Y+ E + V S DY+ HN G +
Sbjct: 125 GSPEIKVLW-YKDETEIQESSKFRMSFVESVAVLEMYNLSVEDSGDYTCEAHNAAGSASS 183
Query: 536 SETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSD--------KVV 587
S +L V P FR +P+ V+ +GA V+L C++ G P +++W H+D K++
Sbjct: 184 STSLKVKEPPVFRKKPHPVETLKGADVHLECELQGTPPFQVSW-HKDKRELRSGKKYKIM 242
Query: 588 GNSPNLTLLMTSDDLA--GRYYCKAS 611
+ ++ + + D A G Y CKAS
Sbjct: 243 SENFLTSIHILNVDSADIGEYQCKAS 268
Score = 50.8 bits (120), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 42/154 (27%), Positives = 72/154 (46%), Gaps = 21/154 (13%)
Query: 322 RLYCKAEANPSHMKYRWYINDQPVPAAA--------SATELYLTNITRHQHDSIVKCEVH 373
R CK +P +K WY ++ + ++ S L + N++ CE H
Sbjct: 118 RYECKIGGSP-EIKVLWYKDETEIQESSKFRMSFVESVAVLEMYNLSVEDSGDYT-CEAH 175
Query: 374 NDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSD--- 430
N G + S +L V P FR +P+ V+ +GA V+L C++ G P +++W H+D
Sbjct: 176 NAAGSASSSTSLKVKEPPVFRKKPHPVETLKGADVHLECELQGTPPFQVSW-HKDKRELR 234
Query: 431 -----KVVGNSPNLTLLMTSDDLA--GRYYCKAS 457
K++ + ++ + + D A G Y CKAS
Sbjct: 235 SGKKYKIMSENFLTSIHILNVDSADIGEYQCKAS 268
Score = 30.0 bits (66), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 36/85 (42%), Gaps = 7/85 (8%)
Query: 643 GDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDH 702
G++ +C P K+TW+ EI G + +++E+ +TL + +
Sbjct: 20 GESGTFKCHVTGTAPI-KITWAKDNREIRPGGNYKMTLVEN------TATLTVLKVTKGD 72
Query: 703 FGVYNCSVSNPYGSDSVEIMLKPQK 727
G Y C SN G DS L Q+
Sbjct: 73 AGQYTCYASNVAGKDSCSAQLGVQE 97
>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 = 58.5 bits (140), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 153/681 (22%), Positives = 244/681 (35%), Gaps = 154/681 (22%)
Query: 152 ELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTP------KKE 205
E+EC A+G P EI WI GT + +V + S DG+ LV P ++E
Sbjct: 58 EIEC-KASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGK-------LVFPPFRAEDYRQE 109
Query: 206 HHNTTFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRLYCKAEANPS 265
H + C A+N ++R + + + + ++ G + C PS
Sbjct: 110 VHAQVYACLARNQFGSI--ISRDVHVRAVVAQYYEADVNKEHVIRGNSAVIKCLI---PS 164
Query: 266 HMK-----YRWYINDQP--VPAAA--------SATELYLTNITRHQHDSIVKCEVQVSVI 310
+ W+ +++ P A + EL++ + +C + +
Sbjct: 165 FVADFVEVVSWHTDEEENYFPGAEYDGKYLVLPSGELHIREVGPEDGYKSYQCRTKHRLT 224
Query: 311 GSNRL----------------------VEGTDVRLY---------CKAEANPSHMKYRWY 339
G RL + D++ Y C A+ P + +RWY
Sbjct: 225 GETRLSATKGRLVITEPISSAVPKVVSLAKFDMKTYSGSSTMALLCPAQGYPVPV-FRWY 283
Query: 340 ------INDQPVPAAASATELYLTNITRHQHDSIVK------CEVHNDVGKSEDSETLDV 387
Q V ++ T I + D++V+ C V+N VG L V
Sbjct: 284 KFIEGTTRKQAVVLNDRVKQVSGTLIIK---DAVVEDSGKYLCVVNNSVGGESVETVLTV 340
Query: 388 TYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPN-LTLLMTSD 446
T + P + VD G C GNP ++W+ + K +G+S + L +
Sbjct: 341 TAPLSAKIDPPTQTVDFGRPAVFTCQYTGNPIKTVSWMKD--GKAIGHSESVLRIESVKK 398
Query: 447 DLAGRYYCKASVMGFPEVGAEATVYLK--GR--PTIISHRTQFGI--PGDTARVECSAFS 500
+ G Y C + AEA+ LK GR P +I Q PG + ++C A
Sbjct: 399 EDKGMYQC---FVRNDRESAEASAELKLGGRFDPPVIRQAFQEETMEPGPSVFLKCVAGG 455
Query: 501 IPPPEKVTWSYRGEEIGVGSSDDY-------------------SVH-ND----------- 529
P PE ++W G++I ++D Y SVH ND
Sbjct: 456 NPTPE-ISWELDGKKI--ANNDRYQVGQYVTVNGDVVSYLNITSVHANDGGLYKCIAKSK 512
Query: 530 VGKSEDSETLDVTYGPRFRARPYSVQVDRG---AGVNLL--CDVDGNPAPEITWIHEDSD 584
VG +E S L+V YG PY Q+++ AG L+ C V G P I W ++
Sbjct: 513 VGVAEHSAKLNV-YG-----LPYIRQMEKKAIVAGETLIVTCPVAGYPIDSIVWERDNRA 566
Query: 585 KVVGNS----PNLTLLMTS---DDLAGRYYCKASVMGFPEVGAEATVYLKGRPTIISHRT 637
+ PN TL++ + + Y C A V + P II
Sbjct: 567 LPINRKQKVFPNGTLIIENVERNSDQATYTCVAKNQEGYSARGSLEVQVMVLPRIIPFAF 626
Query: 638 QFGIP--GDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPL-KEGIKSTLI 694
+ G G + CS P + W+ G+ I S+D + + + G S L
Sbjct: 627 EEGPAQVGQYLTLHCSVPGGDLPLNIDWTLDGQAI----SEDLGITTSRVGRRG--SVLT 680
Query: 695 IRESRHDHFGVYNCSVSNPYG 715
I H G + C N G
Sbjct: 681 IEAVEASHAGNFTCHARNLAG 701
Score = 57.8 bits (138), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 108/431 (25%), Positives = 160/431 (37%), Gaps = 83/431 (19%)
Query: 361 RHQHDSIVKCEVHNDVGKSEDSETLDVTYGPRF-----RARPYSVQVDRGAGVNLLCDVD 415
+ + + +C V ND +E S L + G RF R ++ G V L C
Sbjct: 397 KKEDKGMYQCFVRNDRESAEASAELKL--GGRFDPPVIRQAFQEETMEPGPSVFLKCVAG 454
Query: 416 GNPAPEITWIHEDSDKVVGNSP-----------------NLTLLMTSDDLAGRYYCKA-S 457
GNP PEI+W D K+ N N+T + +D G Y C A S
Sbjct: 455 GNPTPEISW-ELDGKKIANNDRYQVGQYVTVNGDVVSYLNITSVHAND--GGLYKCIAKS 511
Query: 458 VMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWSY------ 511
+G E A+ VY G P I + + G+T V C P + + W
Sbjct: 512 KVGVAEHSAKLNVY--GLPYIRQMEKKAIVAGETLIVTCPVAGYPI-DSIVWERDNRALP 568
Query: 512 --RGEEI---------GVGSSDDYSVHNDVGKSEDS----ETLDVTYGPRFRARPYSVQ- 555
R +++ V + D + + V K+++ +L+V R P++ +
Sbjct: 569 INRKQKVFPNGTLIIENVERNSDQATYTCVAKNQEGYSARGSLEVQVMVLPRIIPFAFEE 628
Query: 556 --VDRGAGVNLLCDVDGNPAP-EITW------IHED----SDKVVGNSPNLTLLMTSDDL 602
G + L C V G P I W I ED + +V LT+
Sbjct: 629 GPAQVGQYLTLHCSVPGGDLPLNIDWTLDGQAISEDLGITTSRVGRRGSVLTIEAVEASH 688
Query: 603 AGRYYCKA-SVMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKV 661
AG + C A ++ G + VY+ R + F G A+VEC A P P+ V
Sbjct: 689 AGNFTCHARNLAGHQQFTTPLNVYVPPRWILEPTDKAFA-QGSDAKVECKADGFPKPQ-V 746
Query: 662 TWSYR-----GEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCSVSNPYGS 716
TW GE + SD+ V E TL + + + G Y C N GS
Sbjct: 747 TWKKAVGDTPGEYKDLKKSDNIRVEE--------GTLHVDNIQKTNEGYYLCEAINGIGS 798
Query: 717 D-SVEIMLKPQ 726
S IM+ Q
Sbjct: 799 GLSAVIMISVQ 809
Score = 53.9 bits (128), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 97/454 (21%), Positives = 159/454 (35%), Gaps = 93/454 (20%)
Query: 32 MEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYAMIGSDEEGDY 90
++P QT G C+ + + W KD A+G ++
Sbjct: 348 IDPPTQTVDFGRPAVFTCQYTGNPIKTVSWMKDGKAIGHSESV----------------- 390
Query: 91 SLEIYPVMLDDDARYQCQV-----STGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYT 145
L I V +D YQC V S E + RF DPP I Q T
Sbjct: 391 -LRIESVKKEDKGMYQCFVRNDRESAEASAELKLGGRF---------DPPVIRQAFQEET 440
Query: 146 TE-DREIELECISANGKPPAEITW-IDGTGTVMSNVR--VTEEASVDGRRTTVKSTLVLT 201
E + L+C+ A G P EI+W +DG + +N R V + +V+G V S L +T
Sbjct: 441 MEPGPSVFLKCV-AGGNPTPEISWELDGK-KIANNDRYQVGQYVTVNG---DVVSYLNIT 495
Query: 202 PKKEHHNTTFTCQAQNTADRTYKVARLKLL-VKYAPKVQVSVIGSNRLVEGTDVRLYCKA 260
+ + C A++ A+L + + Y +++ I V G + + C
Sbjct: 496 SVHANDGGLYKCIAKSKVGVAEHSAKLNVYGLPYIRQMEKKAI-----VAGETLIVTCPV 550
Query: 261 EANPSHMKYRWYINDQPVPAAASAT-----ELYLTNITRHQHDSIVKC------------ 303
P W +++ +P L + N+ R+ + C
Sbjct: 551 AGYPID-SIVWERDNRALPINRKQKVFPNGTLIIENVERNSDQATYTCVAKNQEGYSARG 609
Query: 304 --EVQVSVIGSNRLVE----------GTDVRLYCKAEANPSHMKYRWYINDQPVPAAASA 351
EVQV V+ R++ G + L+C + W ++ Q +
Sbjct: 610 SLEVQVMVL--PRIIPFAFEEGPAQVGQYLTLHCSVPGGDLPLNIDWTLDGQAISEDLGI 667
Query: 352 T--------ELYLTNITRHQHDSIVKCEVHNDVGKSEDSETLDVTYGPRFRARPYSVQVD 403
T + H C N G + + L+V PR+ P
Sbjct: 668 TTSRVGRRGSVLTIEAVEASHAGNFTCHARNLAGHQQFTTPLNVYVPPRWILEPTDKAFA 727
Query: 404 RGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSP 437
+G+ + C DG P P++TW K VG++P
Sbjct: 728 QGSDAKVECKADGFPKPQVTW-----KKAVGDTP 756
Score = 50.8 bits (120), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 120/546 (21%), Positives = 189/546 (34%), Gaps = 141/546 (25%)
Query: 91 SLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPP----DPPRIVQGDTLYTT 146
+L I +++D +Y C V+ + GE S LTV P DPP T
Sbjct: 307 TLIIKDAVVEDSGKYLCVVNNSVGGE----SVETVLTVTAPLSAKIDPP------TQTVD 356
Query: 147 EDREIELECISANGKPPAEITWI-DGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKE 205
R C G P ++W+ DG S +S L + K+
Sbjct: 357 FGRPAVFTC-QYTGNPIKTVSWMKDGKAIGHS-----------------ESVLRIESVKK 398
Query: 206 HHNTTFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRLYCKAEANPS 265
+ C +N + A LKL ++ P V + G V L C A NP+
Sbjct: 399 EDKGMYQCFVRNDRESAEASAELKLGGRFDPPVIRQAFQEETMEPGPSVFLKCVAGGNPT 458
Query: 266 HMKYRWYINDQPVPAAASATELYLTNITRHQHDSIVKCEVQVSVIGSNRLVEGTDVRLYC 325
+ W ++ + + N R+Q +G V G DV Y
Sbjct: 459 P-EISWELDGKKI-----------ANNDRYQ-------------VGQYVTVNG-DVVSY- 491
Query: 326 KAEANPSHMKYRWYINDQPVPAAASATELYLTNITRHQHD-SIVKCEVHNDVGKSEDSET 384
L +T++ H +D + KC + VG +E S
Sbjct: 492 ----------------------------LNITSV--HANDGGLYKCIAKSKVGVAEHSAK 521
Query: 385 LDVTYGPRFRARPYSVQVDRG---AGVNLL--CDVDGNPAPEITWIHEDSDKVVGNS--- 436
L+V YG PY Q+++ AG L+ C V G P I W ++ +
Sbjct: 522 LNV-YG-----LPYIRQMEKKAIVAGETLIVTCPVAGYPIDSIVWERDNRALPINRKQKV 575
Query: 437 -PNLTLLMTS---DDLAGRYYCKASVMGFPEVGAEATVYLKGRPTIISHRTQFGIP--GD 490
PN TL++ + + Y C A V + P II + G G
Sbjct: 576 FPNGTLIIENVERNSDQATYTCVAKNQEGYSARGSLEVQVMVLPRIIPFAFEEGPAQVGQ 635
Query: 491 TARVECSAFSIPPPEKVTWSYRG----EEIGVGSS-------------------DDYSVH 527
+ CS P + W+ G E++G+ +S +++ H
Sbjct: 636 YLTLHCSVPGGDLPLNIDWTLDGQAISEDLGITTSRVGRRGSVLTIEAVEASHAGNFTCH 695
Query: 528 --NDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDK 585
N G + + L+V PR+ P +G+ + C DG P P++TW K
Sbjct: 696 ARNLAGHQQFTTPLNVYVPPRWILEPTDKAFAQGSDAKVECKADGFPKPQVTW-----KK 750
Query: 586 VVGNSP 591
VG++P
Sbjct: 751 AVGDTP 756
Score = 37.4 bits (85), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 2/60 (3%)
Query: 390 GPRFRARPYS-VQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDL 448
GP F P + + G + C GNP PEI WI D VG+ P L + + L
Sbjct: 38 GPVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDG-TAVGDVPGLRQISSDGKL 96
Score = 37.4 bits (85), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 2/60 (3%)
Query: 544 GPRFRARPYS-VQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDL 602
GP F P + + G + C GNP PEI WI D VG+ P L + + L
Sbjct: 38 GPVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDG-TAVGDVPGLRQISSDGKL 96
Score = 32.7 bits (73), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 680 VLEDPLKEGIKSTLIIRESRHDHFGVYNCSVSNPYGSDSVEIML 723
VL D +K+ + TLII+++ + G Y C V+N G +SVE +L
Sbjct: 296 VLNDRVKQ-VSGTLIIKDAVVEDSGKYLCVVNNSVGGESVETVL 338
>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 = 57.0 bits (136), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 51/171 (29%), Positives = 76/171 (44%), Gaps = 18/171 (10%)
Query: 553 SVQVDRGAGVNLLCDVDGNPAPEITWIHED----SDKVVGNSPNLTLLMT--SDDLAGRY 606
S V RG + L C G P P+I W + SDK + N L +T S++ +G Y
Sbjct: 231 SQMVLRGMDLLLECIASGVPTPDIAWYKKGGDLPSDKAKFENFNKALRITNVSEEDSGEY 290
Query: 607 YCKAS-VMGFPEVGAEATVYLKGRPTIISHRTQFGI-PGDTARVECSAFSIPPPEKVTWS 664
+C AS MG + +V +K P + + PG+ R+ C A P P V W
Sbjct: 291 FCLASNKMG--SIRHTISVRVKAAPYWLDEPKNLILAPGEDGRLVCRANGNPKP-TVQWM 347
Query: 665 YRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCSVSNPYG 715
GE + S +P +E T+I R+++ VY C+ SN +G
Sbjct: 348 VNGEPL-------QSAPPNPNREVAGDTIIFRDTQISSRAVYQCNTSNEHG 391
Score = 43.1 bits (100), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 39/126 (30%), Positives = 56/126 (44%), Gaps = 11/126 (8%)
Query: 399 SVQVDRGAGVNLLCDVDGNPAPEITWIHED----SDKVVGNSPNLTLLMT--SDDLAGRY 452
S V RG + L C G P P+I W + SDK + N L +T S++ +G Y
Sbjct: 231 SQMVLRGMDLLLECIASGVPTPDIAWYKKGGDLPSDKAKFENFNKALRITNVSEEDSGEY 290
Query: 453 YCKAS-VMGFPEVGAEATVYLKGRPTIISHRTQFGI-PGDTARVECSAFSIPPPEKVTWS 510
+C AS MG + +V +K P + + PG+ R+ C A P P V W
Sbjct: 291 FCLASNKMG--SIRHTISVRVKAAPYWLDEPKNLILAPGEDGRLVCRANGNPKP-TVQWM 347
Query: 511 YRGEEI 516
GE +
Sbjct: 348 VNGEPL 353
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 28/119 (23%), Positives = 50/119 (42%), Gaps = 7/119 (5%)
Query: 312 SNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASATE-----LYLTNITRHQHDS 366
S ++ G D+ L C A P+ WY +P+ + E L +TN++
Sbjct: 231 SQMVLRGMDLLLECIASGVPTP-DIAWYKKGGDLPSDKAKFENFNKALRITNVSEEDSGE 289
Query: 367 IVKCEVHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWI 425
C N +G + ++ V P + P ++ + G L+C +GNP P + W+
Sbjct: 290 YF-CLASNKMGSIRHTISVRVKAAPYWLDEPKNLILAPGEDGRLVCRANGNPKPTVQWM 347
Score = 37.0 bits (84), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 51/223 (22%), Positives = 81/223 (36%), Gaps = 44/223 (19%)
Query: 400 VQVDRGAGVNLLCDVD-GNPAPEITWIHED-----SDKVVGNSPNLTLLMTS---DDLAG 450
V V GA + L C+ G P+P I W+ DK V N L ++ D+
Sbjct: 126 VVVQEGAPLTLQCNPPPGLPSPVIFWMSSSMEPITQDKRVSQGHNGDLYFSNVMLQDMQT 185
Query: 451 RYYCKASVMGFPEVGAEATVYLKGRPTI-ISHRT-QFGIPGDTAR-----------VECS 497
Y C A + + LK T ++ RT F P TA +EC
Sbjct: 186 DYSCNARFHFTHTIQQKNPFTLKVLTTRGVAERTPSFMYPQGTASSQMVLRGMDLLLECI 245
Query: 498 AFSIPPPEKVTWSYRGEEI-----------------GVGSSDDYS----VHNDVGKSEDS 536
A +P P+ + W +G ++ V D N +G +
Sbjct: 246 ASGVPTPD-IAWYKKGGDLPSDKAKFENFNKALRITNVSEEDSGEYFCLASNKMGSIRHT 304
Query: 537 ETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWI 579
++ V P + P ++ + G L+C +GNP P + W+
Sbjct: 305 ISVRVKAAPYWLDEPKNLILAPGEDGRLVCRANGNPKPTVQWM 347
Score = 36.2 bits (82), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 54/132 (40%), Gaps = 14/132 (10%)
Query: 150 EIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNT 209
++ LECI A+G P +I W G + S+ + L +T E +
Sbjct: 239 DLLLECI-ASGVPTPDIAWYKKGGDLPSD---------KAKFENFNKALRITNVSEEDSG 288
Query: 210 TFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKY 269
+ C A N ++ VK AP + + L G D RL C+A NP
Sbjct: 289 EYFCLASNKMGSIRHTISVR--VKAAP-YWLDEPKNLILAPGEDGRLVCRANGNPKPT-V 344
Query: 270 RWYINDQPVPAA 281
+W +N +P+ +A
Sbjct: 345 QWMVNGEPLQSA 356
>pdb|2YD9|A Chain A, Crystal Structure Of The N-Terminal Ig1-3 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 304
Score = 52.0 bits (123), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 65/253 (25%), Positives = 106/253 (41%), Gaps = 31/253 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYAMIGSDEE 87
+F EP+DQ V G + C+ D + W K + R + I DE
Sbjct: 8 RFIKEPKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQR-------FETIEFDES 60
Query: 88 GDYSLEIYPVML-DDDARYQCQVSTGILGEPAIRSRFATLTVL----VPPDPPRIVQGDT 142
L I P+ D+ Y+C V+ +GE + ++ LTVL +P P I G
Sbjct: 61 AGAVLRIQPLRTPRDENVYEC-VAQNSVGEITVHAK---LTVLREDQLPSGFPNIDMGPQ 116
Query: 143 LYTTEDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKS-TLVLT 201
L E +A+G P EITW + + ++ +GR ++S L +
Sbjct: 117 LKVVERTRTATMLCAASGNPDPEITW-------FKDFLPVDPSASNGRIKQLRSGALQIE 169
Query: 202 PKKEHHNTTFTCQAQNTADRTYKV-ARLKLLVK-YAPKVQVSVIGSNRLVEGTDVRLYCK 259
+E + C A N+A Y A L + V+ AP+ + + S+ ++ G +V + C
Sbjct: 170 SSEETDQGKYECVATNSAGVRYSSPANLYVRVQNVAPRFSILPM-SHEIMPGGNVNITCV 228
Query: 260 AEANPSHMKY-RW 271
A +P M Y +W
Sbjct: 229 AVGSP--MPYVKW 239
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 78/295 (26%), Positives = 115/295 (38%), Gaps = 73/295 (24%)
Query: 391 PRFRARPYSVQVDRGAGV-NLLCDVDGNPAPEITWIHE------------DSDKVVGNSP 437
PRF P Q+ GV + +C G+P P +TW + + D+ G
Sbjct: 7 PRFIKEPKD-QIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAVL 65
Query: 438 NLTLLMTSDDLAGRYYCKA-SVMGFPEVGAEATVYLK-----GRPTI-------ISHRTQ 484
+ L T D Y C A + +G V A+ TV + G P I + RT+
Sbjct: 66 RIQPLRTPRD-ENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDMGPQLKVVERTR 124
Query: 485 FGIPGDTARVECSAFSIPPPEKVTW------------SYRGEEIGVGSSD-DYSVHNDVG 531
TA + C+A P PE +TW + R +++ G+ + S D G
Sbjct: 125 ------TATMLCAASGNPDPE-ITWFKDFLPVDPSASNGRIKQLRSGALQIESSEETDQG 177
Query: 532 KSE--DSETLDVTY-------------GPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEI 576
K E + + V Y PRF P S ++ G VN+ C G+P P +
Sbjct: 178 KYECVATNSAGVRYSSPANLYVRVQNVAPRFSILPMSHEIMPGGNVNITCVAVGSPMPYV 237
Query: 577 TWIH--ED----SDKVVGNSPNLTLLMTSDDLAGRYYCKA-SVMGFPEVGAEATV 624
W+ ED D VG + L +T + Y C A S +G E A+ TV
Sbjct: 238 KWMQGAEDLTPEDDMPVGRN---VLELTDVKDSANYTCVAMSSLGVIEAVAQITV 289
Score = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 55/261 (21%), Positives = 94/261 (36%), Gaps = 68/261 (26%)
Query: 463 EVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWSYRGEEIG----- 517
E G E ++K + Q G+ G A C A P P +VTW+ +G+++
Sbjct: 1 ETGEEPPRFIK------EPKDQIGVSGGVASFVCQATGDPKP-RVTWNKKGKKVNSQRFE 53
Query: 518 ----------------VGSSDDYSVHNDVGKSEDSETL------------------DVTY 543
+ + D +V+ V ++ E ++
Sbjct: 54 TIEFDESAGAVLRIQPLRTPRDENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDM 113
Query: 544 GPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHE--DSDKVVGN-------SPNLT 594
GP+ + V+R +LC GNP PEITW + D N S L
Sbjct: 114 GPQLKV------VERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSGALQ 167
Query: 595 LLMTSDDLAGRYYCKASVMGFPEVGAEATVYLK-----GRPTIISHRTQFGIPGDTARVE 649
+ + + G+Y C A+ + A +Y++ R +I+ + +PG +
Sbjct: 168 IESSEETDQGKYECVATNSAGVRYSSPANLYVRVQNVAPRFSILPMSHEI-MPGGNVNIT 226
Query: 650 CSAFSIPPPEKVTWSYRGEEI 670
C A P P V W E++
Sbjct: 227 CVAVGSPMP-YVKWMQGAEDL 246
Score = 38.1 bits (87), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 46/198 (23%), Positives = 75/198 (37%), Gaps = 25/198 (12%)
Query: 354 LYLTNITRHQHDSIVKCEVHNDVGKSEDSETLDV-------TYGPRFRARPYSVQVDRGA 406
L + + + +++ +C N VG+ L V + P P V+R
Sbjct: 65 LRIQPLRTPRDENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDMGPQLKVVERTR 124
Query: 407 GVNLLCDVDGNPAPEITWIHE--DSDKVVGN-------SPNLTLLMTSDDLAGRYYCKAS 457
+LC GNP PEITW + D N S L + + + G+Y C A+
Sbjct: 125 TATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSGALQIESSEETDQGKYECVAT 184
Query: 458 VMGFPEVGAEATVYLK-----GRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWSYR 512
+ A +Y++ R +I+ + +PG + C A P P V W
Sbjct: 185 NSAGVRYSSPANLYVRVQNVAPRFSILPMSHEI-MPGGNVNITCVAVGSPMP-YVKWMQG 242
Query: 513 GEEIGVGSSDDYSVHNDV 530
E++ DD V +V
Sbjct: 243 AEDL--TPEDDMPVGRNV 258
Score = 36.6 bits (83), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 46/170 (27%), Positives = 66/170 (38%), Gaps = 30/170 (17%)
Query: 323 LYCKAEANPSHMKYRWYINDQPVPAAASATELYLTNITRHQHDSIVKCEVHNDVGKSE-- 380
+ C A NP + W+ + PV +AS + Q +S D GK E
Sbjct: 128 MLCAASGNPDP-EITWFKDFLPVDPSASNGRIKQLRSGALQIES----SEETDQGKYECV 182
Query: 381 DSETLDVTY-------------GPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIH- 426
+ + V Y PRF P S ++ G VN+ C G+P P + W+
Sbjct: 183 ATNSAGVRYSSPANLYVRVQNVAPRFSILPMSHEIMPGGNVNITCVAVGSPMPYVKWMQG 242
Query: 427 -ED----SDKVVGNSPNLTLLMTSDDLAGRYYCKA-SVMGFPEVGAEATV 470
ED D VG + L +T + Y C A S +G E A+ TV
Sbjct: 243 AEDLTPEDDMPVGRN---VLELTDVKDSANYTCVAMSSLGVIEAVAQITV 289
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 56/220 (25%), Positives = 81/220 (36%), Gaps = 44/220 (20%)
Query: 545 PRFRARPYSVQVDRGAGV-NLLCDVDGNPAPEITWIHE------------DSDKVVGNSP 591
PRF P Q+ GV + +C G+P P +TW + + D+ G
Sbjct: 7 PRFIKEPKD-QIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAVL 65
Query: 592 NLTLLMTSDDLAGRYYCKA-SVMGFPEVGAEATVYLK-----GRPTI-------ISHRTQ 638
+ L T D Y C A + +G V A+ TV + G P I + RT+
Sbjct: 66 RIQPLRTPRD-ENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDMGPQLKVVERTR 124
Query: 639 FGIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRES 698
TA + C+A P PE +TW + D S +K+ L I S
Sbjct: 125 ------TATMLCAASGNPDPE-ITWFKDFLPV------DPSASNGRIKQLRSGALQIESS 171
Query: 699 RHDHFGVYNCSVSNPYG---SDSVEIMLKPQKSFPLLLIL 735
G Y C +N G S + ++ Q P IL
Sbjct: 172 EETDQGKYECVATNSAGVRYSSPANLYVRVQNVAPRFSIL 211
>pdb|2JLL|A Chain A, Crystal Structure Of Ncam2 Igiv-Fn3ii
Length = 389
Score = 48.9 bits (115), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 56/218 (25%), Positives = 74/218 (33%), Gaps = 71/218 (32%)
Query: 408 VNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDLAGRYYCKASVMGFPEVGAE 467
V L+CD +G P PEITW V G T L GR K G
Sbjct: 18 VTLVCDAEGEPIPEITW----KRAVDG----FTFTEGDKSLDGRIEVK---------GQH 60
Query: 468 ATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVH 527
+ L + +S D+ R +C A S
Sbjct: 61 GSSSLHIKDVKLS---------DSGRYDCEAAS--------------------------- 84
Query: 528 NDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVV 587
+G + S LD+ Y P+F + G +N+ CDV NP I W DK+V
Sbjct: 85 -RIGGHQKSMYLDIEYAPKFISNQTIYYSWEGNPINISCDVKSNPPASIHW---RRDKLV 140
Query: 588 GNSPNLTLLM--------------TSDDLAGRYYCKAS 611
+ N T L TSD+ GRY C A+
Sbjct: 141 LPAKNTTNLKTYSTGRKMILEIAPTSDNDFGRYNCTAT 178
Score = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 51/182 (28%), Positives = 84/182 (46%), Gaps = 29/182 (15%)
Query: 562 VNLLCDVDGNPAPEITW-------IHEDSDK-------VVGNSPNLTLLMTSDDL--AGR 605
V L+CD +G P PEITW + DK V G + +L + L +GR
Sbjct: 18 VTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHGSSSLHIKDVKLSDSGR 77
Query: 606 YYCK-ASVMGFPEVGAEATVYL--KGRPTIISHRT-QFGIPGDTARVECSAFSIPPPEKV 661
Y C+ AS +G G + ++YL + P IS++T + G+ + C S PP +
Sbjct: 78 YDCEAASRIG----GHQKSMYLDIEYAPKFISNQTIYYSWEGNPINISCDVKS-NPPASI 132
Query: 662 TWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCSVSNPYGSDSVEI 721
W R +++ + + + ++ G K L I + + FG YNC+ +N G+ E
Sbjct: 133 HW--RRDKLVLPAKNTTNL--KTYSTGRKMILEIAPTSDNDFGRYNCTATNHIGTRFQEY 188
Query: 722 ML 723
+L
Sbjct: 189 IL 190
Score = 47.0 bits (110), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 32/102 (31%), Positives = 44/102 (43%), Gaps = 17/102 (16%)
Query: 370 CEVHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDS 429
CE + +G + S LD+ Y P+F + G +N+ CDV NP I W
Sbjct: 80 CEAASRIGGHQKSMYLDIEYAPKFISNQTIYYSWEGNPINISCDVKSNPPASIHW---RR 136
Query: 430 DKVVGNSPNLTLLM--------------TSDDLAGRYYCKAS 457
DK+V + N T L TSD+ GRY C A+
Sbjct: 137 DKLVLPAKNTTNLKTYSTGRKMILEIAPTSDNDFGRYNCTAT 178
Score = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 32/133 (24%), Positives = 51/133 (38%), Gaps = 13/133 (9%)
Query: 86 EEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYT 145
+ G SL I V L D RY C+ ++ I G +S + + P+ + T+Y
Sbjct: 59 QHGSSSLHIKDVKLSDSGRYDCEAASRIGGHQ--KSMYLDIEYA-----PKFISNQTIYY 111
Query: 146 T-EDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKK 204
+ E I + C PPA I W + + + GR K L + P
Sbjct: 112 SWEGNPINISC-DVKSNPPASIHWRRDKLVLPAKNTTNLKTYSTGR----KMILEIAPTS 166
Query: 205 EHHNTTFTCQAQN 217
++ + C A N
Sbjct: 167 DNDFGRYNCTATN 179
>pdb|2XYC|A Chain A, Crystal Structure Of Ncam2 Igiv-Fn3i
Length = 291
Score = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 51/182 (28%), Positives = 84/182 (46%), Gaps = 29/182 (15%)
Query: 562 VNLLCDVDGNPAPEITW-------IHEDSDK-------VVGNSPNLTLLMTSDDL--AGR 605
V L+CD +G P PEITW + DK V G + +L + L +GR
Sbjct: 18 VTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHGSSSLHIKDVKLSDSGR 77
Query: 606 YYCK-ASVMGFPEVGAEATVYL--KGRPTIISHRT-QFGIPGDTARVECSAFSIPPPEKV 661
Y C+ AS +G G + ++YL + P IS++T + G+ + C S PP +
Sbjct: 78 YDCEAASRIG----GHQKSMYLDIEYAPKFISNQTIYYSWEGNPINISCDVKS-NPPASI 132
Query: 662 TWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCSVSNPYGSDSVEI 721
W R +++ + + + ++ G K L I + + FG YNC+ +N G+ E
Sbjct: 133 HW--RRDKLVLPAKNTTNL--KTYSTGRKMILEIAPTSDNDFGRYNCTATNHIGTRFQEY 188
Query: 722 ML 723
+L
Sbjct: 189 IL 190
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 56/218 (25%), Positives = 74/218 (33%), Gaps = 71/218 (32%)
Query: 408 VNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDLAGRYYCKASVMGFPEVGAE 467
V L+CD +G P PEITW V G T L GR K G
Sbjct: 18 VTLVCDAEGEPIPEITW----KRAVDG----FTFTEGDKSLDGRIEVK---------GQH 60
Query: 468 ATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVH 527
+ L + +S D+ R +C A S
Sbjct: 61 GSSSLHIKDVKLS---------DSGRYDCEAAS--------------------------- 84
Query: 528 NDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVV 587
+G + S LD+ Y P+F + G +N+ CDV NP I W DK+V
Sbjct: 85 -RIGGHQKSMYLDIEYAPKFISNQTIYYSWEGNPINISCDVKSNPPASIHW---RRDKLV 140
Query: 588 GNSPNLTLLM--------------TSDDLAGRYYCKAS 611
+ N T L TSD+ GRY C A+
Sbjct: 141 LPAKNTTNLKTYSTGRKMILEIAPTSDNDFGRYNCTAT 178
Score = 46.6 bits (109), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 32/102 (31%), Positives = 44/102 (43%), Gaps = 17/102 (16%)
Query: 370 CEVHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDS 429
CE + +G + S LD+ Y P+F + G +N+ CDV NP I W
Sbjct: 80 CEAASRIGGHQKSMYLDIEYAPKFISNQTIYYSWEGNPINISCDVKSNPPASIHW---RR 136
Query: 430 DKVVGNSPNLTLLM--------------TSDDLAGRYYCKAS 457
DK+V + N T L TSD+ GRY C A+
Sbjct: 137 DKLVLPAKNTTNLKTYSTGRKMILEIAPTSDNDFGRYNCTAT 178
Score = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 36/84 (42%), Gaps = 9/84 (10%)
Query: 86 EEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYT 145
+ G SL I V L D RY C+ ++ I G +S + + P+ + T+Y
Sbjct: 59 QHGSSSLHIKDVKLSDSGRYDCEAASRIGGHQ--KSMYLDIEY-----APKFISNQTIYY 111
Query: 146 T-EDREIELECISANGKPPAEITW 168
+ E I + C PPA I W
Sbjct: 112 SWEGNPINISC-DVKSNPPASIHW 134
>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 = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 48/198 (24%), Positives = 79/198 (39%), Gaps = 19/198 (9%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYAMIGSDEEG 88
F P+DQT + G + C+ + + W K + R + +I D+
Sbjct: 9 FIKVPEDQTGLSGGVASFVCQATGEPKPRITWMKKGKKVSSQR-------FEVIEFDDGA 61
Query: 89 DYSLEIYPVMLD-DDARYQCQVSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYTT 146
L I P+ + D+A Y+C +T LGE ++ + L +PP P I G L
Sbjct: 62 GSVLRIQPLRVQRDEAIYEC-TATNSLGEINTSAKLSVLEEEQLPPGFPSIDMGPQLKVV 120
Query: 147 EDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKS-TLVLTPKKE 205
E +A G P EI+W + + A+ +GR ++S L + +E
Sbjct: 121 EKARTATMLCAAGGNPDPEISW-------FKDFLPVDPATSNGRIKQLRSGALQIESSEE 173
Query: 206 HHNTTFTCQAQNTADRTY 223
+ C A N+A Y
Sbjct: 174 SDQGKYECVATNSAGTRY 191
Score = 38.1 bits (87), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 44/188 (23%), Positives = 69/188 (36%), Gaps = 43/188 (22%)
Query: 484 QFGIPGDTARVECSAFSIPPPEKVTWSYRGEEI------------GVGS---------SD 522
Q G+ G A C A P P ++TW +G+++ G GS
Sbjct: 16 QTGLSGGVASFVCQATGEPKP-RITWMKKGKKVSSQRFEVIEFDDGAGSVLRIQPLRVQR 74
Query: 523 DYSVH-----NDVGKSEDSETLDVTYG-------PRFRARPYSVQVDRGAGVNLLCDVDG 570
D +++ N +G+ S L V P P V++ +LC G
Sbjct: 75 DEAIYECTATNSLGEINTSAKLSVLEEEQLPPGFPSIDMGPQLKVVEKARTATMLCAAGG 134
Query: 571 NPAPEITWIHE--DSDKVVGN-------SPNLTLLMTSDDLAGRYYCKASVMGFPEVGAE 621
NP PEI+W + D N S L + + + G+Y C A+ A
Sbjct: 135 NPDPEISWFKDFLPVDPATSNGRIKQLRSGALQIESSEESDQGKYECVATNSAGTRYSAP 194
Query: 622 ATVYLKGR 629
A +Y++ R
Sbjct: 195 ANLYVRVR 202
Score = 37.0 bits (84), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 32/138 (23%), Positives = 53/138 (38%), Gaps = 16/138 (11%)
Query: 354 LYLTNITRHQHDSIVKCEVHNDVGKSEDSETLDVTYG-------PRFRARPYSVQVDRGA 406
L + + + ++I +C N +G+ S L V P P V++
Sbjct: 65 LRIQPLRVQRDEAIYECTATNSLGEINTSAKLSVLEEEQLPPGFPSIDMGPQLKVVEKAR 124
Query: 407 GVNLLCDVDGNPAPEITWIHE--DSDKVVGN-------SPNLTLLMTSDDLAGRYYCKAS 457
+LC GNP PEI+W + D N S L + + + G+Y C A+
Sbjct: 125 TATMLCAAGGNPDPEISWFKDFLPVDPATSNGRIKQLRSGALQIESSEESDQGKYECVAT 184
Query: 458 VMGFPEVGAEATVYLKGR 475
A A +Y++ R
Sbjct: 185 NSAGTRYSAPANLYVRVR 202
>pdb|1RHF|A Chain A, Crystal Structure Of Human Tyro3-D1d2
pdb|1RHF|B Chain B, Crystal Structure Of Human Tyro3-D1d2
Length = 182
Score = 47.8 bits (112), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 38/161 (23%), Positives = 65/161 (40%), Gaps = 17/161 (10%)
Query: 390 GPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDL- 448
G + P + V +G V L C V+G P+I W+ + + VV N L + ++
Sbjct: 2 GLKLMGAPVKLTVSQGQPVKLNCSVEGXEEPDIQWVKDGA--VVQNLDQLYIPVSEQHWI 59
Query: 449 ------------AGRYYCKASVMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTA-RVE 495
AGRY+C+ G E+ + ++G P +P + ++
Sbjct: 60 GFLSLKSVERSDAGRYWCQVEDGGETEISQPVWLTVEGVPFFTVEPKDLAVPPNAPFQLS 119
Query: 496 CSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVHNDVGKSEDS 536
C A P P + W +RG G + SV N G ++ +
Sbjct: 120 CEAVGPPEPVTIVW-WRGTTKIGGPAPSPSVLNVTGVTQST 159
Score = 46.6 bits (109), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 37/152 (24%), Positives = 61/152 (40%), Gaps = 17/152 (11%)
Query: 544 GPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDL- 602
G + P + V +G V L C V+G P+I W+ + + VV N L + ++
Sbjct: 2 GLKLMGAPVKLTVSQGQPVKLNCSVEGXEEPDIQWVKDGA--VVQNLDQLYIPVSEQHWI 59
Query: 603 ------------AGRYYCKASVMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTA-RVE 649
AGRY+C+ G E+ + ++G P +P + ++
Sbjct: 60 GFLSLKSVERSDAGRYWCQVEDGGETEISQPVWLTVEGVPFFTVEPKDLAVPPNAPFQLS 119
Query: 650 CSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVL 681
C A P P + W +RG G + SVL
Sbjct: 120 CEAVGPPEPVTIVW-WRGTTKIGGPAPSPSVL 150
>pdb|2YD3|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 202
Score = 46.6 bits (109), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 79/202 (39%), Gaps = 25/202 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYAMIGSDEE 87
+F EP+DQ V G + C+ D + W K + R + I DE
Sbjct: 8 RFIKEPKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQR-------FETIEFDES 60
Query: 88 GDYSLEIYPVML-DDDARYQCQVSTGILGEPAIRSRFATLTVL----VPPDPPRIVQGDT 142
L I P+ D+ Y+C V+ +GE + A LTVL +P P I G
Sbjct: 61 AGAVLRIQPLRTPRDENVYEC-VAQNSVGEITVH---AKLTVLREDQLPSGFPNIDMGPQ 116
Query: 143 LYTTEDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKS-TLVLT 201
L E +A+G P EITW + + ++ +GR ++S L +
Sbjct: 117 LKVVERTRTATMLCAASGNPDPEITW-------FKDFLPVDPSASNGRIKQLRSGALQIE 169
Query: 202 PKKEHHNTTFTCQAQNTADRTY 223
+E + C A N+A Y
Sbjct: 170 SSEETDQGKYECVATNSAGVRY 191
Score = 36.6 bits (83), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 49/215 (22%), Positives = 80/215 (37%), Gaps = 61/215 (28%)
Query: 463 EVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWSYRGEEIG----- 517
E G E ++K + Q G+ G A C A P P +VTW+ +G+++
Sbjct: 1 ETGEEPPRFIK------EPKDQIGVSGGVASFVCQATGDPKP-RVTWNKKGKKVNSQRFE 53
Query: 518 ----------------VGSSDDYSVH-----NDVGK----------SED---SETLDVTY 543
+ + D +V+ N VG+ ED S ++
Sbjct: 54 TIEFDESAGAVLRIQPLRTPRDENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDM 113
Query: 544 GPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHE----DSDKVVG-----NSPNLT 594
GP+ + V+R +LC GNP PEITW + D G S L
Sbjct: 114 GPQLKV------VERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSGALQ 167
Query: 595 LLMTSDDLAGRYYCKASVMGFPEVGAEATVYLKGR 629
+ + + G+Y C A+ + A +Y++ R
Sbjct: 168 IESSEETDQGKYECVATNSAGVRYSSPANLYVRVR 202
Score = 33.9 bits (76), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 33/144 (22%), Positives = 57/144 (39%), Gaps = 28/144 (19%)
Query: 354 LYLTNITRHQHDSIVKCEVHNDVGK----------SED---SETLDVTYGPRFRARPYSV 400
L + + + +++ +C N VG+ ED S ++ GP+ +
Sbjct: 65 LRIQPLRTPRDENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDMGPQLKV----- 119
Query: 401 QVDRGAGVNLLCDVDGNPAPEITWIHE----DSDKVVG-----NSPNLTLLMTSDDLAGR 451
V+R +LC GNP PEITW + D G S L + + + G+
Sbjct: 120 -VERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSGALQIESSEETDQGK 178
Query: 452 YYCKASVMGFPEVGAEATVYLKGR 475
Y C A+ + A +Y++ R
Sbjct: 179 YECVATNSAGVRYSSPANLYVRVR 202
>pdb|2YD2|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 214
Score = 46.6 bits (109), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 79/202 (39%), Gaps = 25/202 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYAMIGSDEE 87
+F EP+DQ V G + C+ D + W K + R + I DE
Sbjct: 8 RFIKEPKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQR-------FETIEFDES 60
Query: 88 GDYSLEIYPVML-DDDARYQCQVSTGILGEPAIRSRFATLTVL----VPPDPPRIVQGDT 142
L I P+ D+ Y+C V+ +GE + A LTVL +P P I G
Sbjct: 61 AGAVLRIQPLRTPRDENVYEC-VAQNSVGEITVH---AKLTVLREDQLPSGFPNIDMGPQ 116
Query: 143 LYTTEDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKS-TLVLT 201
L E +A+G P EITW + + ++ +GR ++S L +
Sbjct: 117 LKVVERTRTATMLCAASGNPDPEITW-------FKDFLPVDPSASNGRIKQLRSGALQIE 169
Query: 202 PKKEHHNTTFTCQAQNTADRTY 223
+E + C A N+A Y
Sbjct: 170 SSEETDQGKYECVATNSAGVRY 191
Score = 36.6 bits (83), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 49/215 (22%), Positives = 80/215 (37%), Gaps = 61/215 (28%)
Query: 463 EVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWSYRGEEIG----- 517
E G E ++K + Q G+ G A C A P P +VTW+ +G+++
Sbjct: 1 ETGEEPPRFIK------EPKDQIGVSGGVASFVCQATGDPKP-RVTWNKKGKKVNSQRFE 53
Query: 518 ----------------VGSSDDYSVH-----NDVGK----------SED---SETLDVTY 543
+ + D +V+ N VG+ ED S ++
Sbjct: 54 TIEFDESAGAVLRIQPLRTPRDENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDM 113
Query: 544 GPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHE----DSDKVVG-----NSPNLT 594
GP+ + V+R +LC GNP PEITW + D G S L
Sbjct: 114 GPQLKV------VERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSGALQ 167
Query: 595 LLMTSDDLAGRYYCKASVMGFPEVGAEATVYLKGR 629
+ + + G+Y C A+ + A +Y++ R
Sbjct: 168 IESSEETDQGKYECVATNSAGVRYSSPANLYVRVR 202
Score = 33.5 bits (75), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 41/99 (41%), Gaps = 15/99 (15%)
Query: 386 DVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHE----DSDKVVG-----NS 436
++ GP+ + V+R +LC GNP PEITW + D G S
Sbjct: 110 NIDMGPQLKV------VERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRS 163
Query: 437 PNLTLLMTSDDLAGRYYCKASVMGFPEVGAEATVYLKGR 475
L + + + G+Y C A+ + A +Y++ R
Sbjct: 164 GALQIESSEETDQGKYECVATNSAGVRYSSPANLYVRVR 202
>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 = 46.2 bits (108), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 31/99 (31%), Positives = 44/99 (44%), Gaps = 7/99 (7%)
Query: 365 DSIVKCEVHNDVGKS-EDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEIT 423
D I C +N VG + E L V P+ P +V++ G L C GNP P ++
Sbjct: 74 DGIYCCTANNGVGGAVESCGALQVKMKPKITRPPINVKIIEGLKAVLPCTTMGNPKPSVS 133
Query: 424 WI------HEDSDKVVGNSPNLTLLMTSDDLAGRYYCKA 456
WI E+S V S +L + + AG+Y C A
Sbjct: 134 WIKGDSALRENSRIAVLESGSLRIHNVQKEDAGQYRCVA 172
Score = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 42/151 (27%), Positives = 61/151 (40%), Gaps = 31/151 (20%)
Query: 490 DTARVECSAFSIPPPEKVTWS------------YRGEEIG-------VGSSDD----YSV 526
+ A C+ S P PE ++W+ Y E G V SDD +
Sbjct: 23 EVATFMCAVESYPQPE-ISWTRNKILIKLFDTRYSIRENGQLLTILSVEDSDDGIYCCTA 81
Query: 527 HNDVGKS-EDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWI------ 579
+N VG + E L V P+ P +V++ G L C GNP P ++WI
Sbjct: 82 NNGVGGAVESCGALQVKMKPKITRPPINVKIIEGLKAVLPCTTMGNPKPSVSWIKGDSAL 141
Query: 580 HEDSDKVVGNSPNLTLLMTSDDLAGRYYCKA 610
E+S V S +L + + AG+Y C A
Sbjct: 142 RENSRIAVLESGSLRIHNVQKEDAGQYRCVA 172
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 34/135 (25%), Positives = 52/135 (38%), Gaps = 18/135 (13%)
Query: 410 LLCDVDGNPAPEITW--------IHEDSDKVVGNSPNLTLLMTSDDLAGRYYCKASVMGF 461
+C V+ P PEI+W + + + N LT+L D G Y C A+
Sbjct: 27 FMCAVESYPQPEISWTRNKILIKLFDTRYSIRENGQLLTILSVEDSDDGIYCCTANNGVG 86
Query: 462 PEVGAEATVYLKGRPTIISHRTQFG-IPGDTARVECSAFSIPPPEKVTWSYRGE------ 514
V + + +K +P I I G A + C+ P P V+W +G+
Sbjct: 87 GAVESCGALQVKMKPKITRPPINVKIIEGLKAVLPCTTMGNPKPS-VSW-IKGDSALREN 144
Query: 515 -EIGVGSSDDYSVHN 528
I V S +HN
Sbjct: 145 SRIAVLESGSLRIHN 159
>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 = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 66/288 (22%), Positives = 105/288 (36%), Gaps = 29/288 (10%)
Query: 195 KSTLVLTPKKEHHNT-------TFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGSNR 247
K+ L+ +P K H T C N + + K L P V+ R
Sbjct: 97 KTYLIASPAKTHEKTPIEGRPFQLDCVLPNAYPKPL-ITWKKRLSGADPNADVTDF-DRR 154
Query: 248 LVEGTDVRLY---CKAEANPSHMKYRWYINDQPVPAAASATELYLTNITRHQHDSIVKCE 304
+ G D LY E KY + V E + +T+ +S K E
Sbjct: 155 ITAGPDGNLYFTIVTKEDVSDIYKYVCTAKNAAVDEEVVLVEYEIKGVTKD--NSGYKGE 212
Query: 305 VQVSVIGSNRLVEGTDVRL-YCKAEANP----SHMKYRWYINDQPVPAAA----SATELY 355
+ + + + DV + YC +NP ++ K +N P ++ +
Sbjct: 213 PVPQYVSKDMMAKAGDVTMIYCMYGSNPMGYPNYFKNGKDVNGNPEDRITRHNRTSGKRL 272
Query: 356 LTNITRHQHDSIVKCEVHNDVGKSED-SETLDVTYGPRFRARPYSV-QVDRGAGVNLLCD 413
L T + + + CEV N VGK + S L V P++ +P V V +G V + C
Sbjct: 273 LFKTTLPEDEGVYTCEVDNGVGKPQKHSLKLTVVSAPKYEQKPEKVIVVKQGQDVTIPCK 332
Query: 414 VDGNPAPEITWIHE----DSDKVVGNSPNLTLLMTSDDLAGRYYCKAS 457
V G PAP + W H + L + + G Y C+A+
Sbjct: 333 VTGLPAPNVVWSHNAKPLSGGRATVTDSGLVIKGVKNGDKGYYGCRAT 380
Score = 37.4 bits (85), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 39/92 (42%), Gaps = 6/92 (6%)
Query: 526 VHNDVGKSED-SETLDVTYGPRFRARPYSV-QVDRGAGVNLLCDVDGNPAPEITWIHE-- 581
V N VGK + S L V P++ +P V V +G V + C V G PAP + W H
Sbjct: 289 VDNGVGKPQKHSLKLTVVSAPKYEQKPEKVIVVKQGQDVTIPCKVTGLPAPNVVWSHNAK 348
Query: 582 --DSDKVVGNSPNLTLLMTSDDLAGRYYCKAS 611
+ L + + G Y C+A+
Sbjct: 349 PLSGGRATVTDSGLVIKGVKNGDKGYYGCRAT 380
>pdb|3PXH|A Chain A, Tandem Ig Domains Of Tyrosine Phosphatase Lar
Length = 201
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 47/198 (23%), Positives = 78/198 (39%), Gaps = 19/198 (9%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYAMIGSDEEG 88
F P+DQT + G + C+ + + W K + R + +I D+
Sbjct: 10 FVKVPEDQTGLSGGVASFVCQATGEPKPRITWMKKGKKVSSQR-------FEVIEFDDGA 62
Query: 89 DYSLEIYPVMLD-DDARYQCQVSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYTT 146
L I P+ + D+A Y+C +T LGE ++ + L +P P I G L
Sbjct: 63 GSVLRIQPLRVQRDEAIYEC-TATNSLGEINTSAKLSVLEEDQLPSGFPTIDMGPQLKVV 121
Query: 147 EDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKS-TLVLTPKKE 205
E +A G P EI+W + + A+ +GR ++S L + +E
Sbjct: 122 EKGRTATMLCAAGGNPDPEISW-------FKDFLPVDPAASNGRIKQLRSGALQIESSEE 174
Query: 206 HHNTTFTCQAQNTADRTY 223
+ C A N+A Y
Sbjct: 175 SDQGKYECVATNSAGTRY 192
Score = 39.3 bits (90), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 44/186 (23%), Positives = 70/186 (37%), Gaps = 43/186 (23%)
Query: 484 QFGIPGDTARVECSAFSIPPPEKVTWSYRGEEI------------GVGS---------SD 522
Q G+ G A C A P P ++TW +G+++ G GS
Sbjct: 17 QTGLSGGVASFVCQATGEPKP-RITWMKKGKKVSSQRFEVIEFDDGAGSVLRIQPLRVQR 75
Query: 523 DYSVH-----NDVGKSEDSETLDV-------TYGPRFRARPYSVQVDRGAGVNLLCDVDG 570
D +++ N +G+ S L V + P P V++G +LC G
Sbjct: 76 DEAIYECTATNSLGEINTSAKLSVLEEDQLPSGFPTIDMGPQLKVVEKGRTATMLCAAGG 135
Query: 571 NPAPEITWIHE--DSDKVVGN-------SPNLTLLMTSDDLAGRYYCKASVMGFPEVGAE 621
NP PEI+W + D N S L + + + G+Y C A+ A
Sbjct: 136 NPDPEISWFKDFLPVDPAASNGRIKQLRSGALQIESSEESDQGKYECVATNSAGTRYSAP 195
Query: 622 ATVYLK 627
A +Y++
Sbjct: 196 ANLYVR 201
Score = 38.9 bits (89), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 32/136 (23%), Positives = 54/136 (39%), Gaps = 16/136 (11%)
Query: 354 LYLTNITRHQHDSIVKCEVHNDVGKSEDSETLDV-------TYGPRFRARPYSVQVDRGA 406
L + + + ++I +C N +G+ S L V + P P V++G
Sbjct: 66 LRIQPLRVQRDEAIYECTATNSLGEINTSAKLSVLEEDQLPSGFPTIDMGPQLKVVEKGR 125
Query: 407 GVNLLCDVDGNPAPEITWIHE--DSDKVVGN-------SPNLTLLMTSDDLAGRYYCKAS 457
+LC GNP PEI+W + D N S L + + + G+Y C A+
Sbjct: 126 TATMLCAAGGNPDPEISWFKDFLPVDPAASNGRIKQLRSGALQIESSEESDQGKYECVAT 185
Query: 458 VMGFPEVGAEATVYLK 473
A A +Y++
Sbjct: 186 NSAGTRYSAPANLYVR 201
>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 = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 53/204 (25%), Positives = 81/204 (39%), Gaps = 26/204 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYAMIGSDEE 87
+F P DQT V G + C+ D + W K + R + +I D+
Sbjct: 8 RFTRTPVDQTGVSGGVASFICQATGDPRPKIVWNKKGKKVSNQR-------FEVIEFDDG 60
Query: 88 GDYSLEIYPVML-DDDARYQCQVSTGILGEPAIRSRFATLTVL----VPPDPPRIVQGDT 142
L I P+ D+A Y+C V++ +GE ++ +R LTVL +P P I G
Sbjct: 61 SGSVLRIQPLRTPRDEAIYEC-VASNNVGEISVSTR---LTVLREDQIPRGFPTIDMGPQ 116
Query: 143 LYTTEDREIELECISANGKPPAEITWIDG---TGTVMSNVRVTEEASVDGRRTTVKSTLV 199
L E +A+G P EITW T +N R+ + R+ L
Sbjct: 117 LKVVERTRTATMLCAASGNPDPEITWFKDFLPVDTSNNNGRIKQ------LRSESIGALQ 170
Query: 200 LTPKKEHHNTTFTCQAQNTADRTY 223
+ +E + C A N+A Y
Sbjct: 171 IEQSEESDQGKYECVATNSAGTRY 194
Score = 39.3 bits (90), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 35/145 (24%), Positives = 56/145 (38%), Gaps = 19/145 (13%)
Query: 349 ASATELYLTNITRHQHDSIVKCEVHNDVGKSEDSETLDVTYG-------PRFRARPYSVQ 401
S + L + + + ++I +C N+VG+ S L V P P
Sbjct: 60 GSGSVLRIQPLRTPRDEAIYECVASNNVGEISVSTRLTVLREDQIPRGFPTIDMGPQLKV 119
Query: 402 VDRGAGVNLLCDVDGNPAPEITWIHE----DSDKVVGNSPN--------LTLLMTSDDLA 449
V+R +LC GNP PEITW + D+ G L + + +
Sbjct: 120 VERTRTATMLCAASGNPDPEITWFKDFLPVDTSNNNGRIKQLRSESIGALQIEQSEESDQ 179
Query: 450 GRYYCKASVMGFPEVGAEATVYLKG 474
G+Y C A+ A A +Y++G
Sbjct: 180 GKYECVATNSAGTRYSAPANLYVRG 204
Score = 38.5 bits (88), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 46/190 (24%), Positives = 70/190 (36%), Gaps = 46/190 (24%)
Query: 484 QFGIPGDTARVECSAFSIPPPEKVTWSYRGEEI------------GVGS---------SD 522
Q G+ G A C A P P K+ W+ +G+++ G GS
Sbjct: 16 QTGVSGGVASFICQATGDPRP-KIVWNKKGKKVSNQRFEVIEFDDGSGSVLRIQPLRTPR 74
Query: 523 DYSVH-----NDVGKSEDSETLDVTYG-------PRFRARPYSVQVDRGAGVNLLCDVDG 570
D +++ N+VG+ S L V P P V+R +LC G
Sbjct: 75 DEAIYECVASNNVGEISVSTRLTVLREDQIPRGFPTIDMGPQLKVVERTRTATMLCAASG 134
Query: 571 NPAPEITWIHE----DSDKVVGNSPN--------LTLLMTSDDLAGRYYCKASVMGFPEV 618
NP PEITW + D+ G L + + + G+Y C A+
Sbjct: 135 NPDPEITWFKDFLPVDTSNNNGRIKQLRSESIGALQIEQSEESDQGKYECVATNSAGTRY 194
Query: 619 GAEATVYLKG 628
A A +Y++G
Sbjct: 195 SAPANLYVRG 204
Score = 35.8 bits (81), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 52/197 (26%), Positives = 78/197 (39%), Gaps = 36/197 (18%)
Query: 545 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHE------------DSDKVVGNSPN 592
PRF P G + +C G+P P+I W + + D G+
Sbjct: 7 PRFTRTPVDQTGVSGGVASFICQATGDPRPKIVWNKKGKKVSNQRFEVIEFDDGSGSVLR 66
Query: 593 LTLLMTSDDLAGRYYCKAS-VMGFPEVGAEATVYL-----KGRPTI-------ISHRTQF 639
+ L T D A Y C AS +G V TV +G PTI + RT+
Sbjct: 67 IQPLRTPRDEA-IYECVASNNVGEISVSTRLTVLREDQIPRGFPTIDMGPQLKVVERTR- 124
Query: 640 GIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESR 699
TA + C+A P PE +TW + + V +S++ ++ E I + L I +S
Sbjct: 125 -----TATMLCAASGNPDPE-ITWFK--DFLPVDTSNNNGRIKQLRSESIGA-LQIEQSE 175
Query: 700 HDHFGVYNCSVSNPYGS 716
G Y C +N G+
Sbjct: 176 ESDQGKYECVATNSAGT 192
>pdb|3V2A|R Chain R, Vegfr-2VEGF-A Complex Structure
Length = 772
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 58/232 (25%), Positives = 90/232 (38%), Gaps = 49/232 (21%)
Query: 528 NDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITW--------- 578
N VG+ E + VT GP +P +Q V+L C D + +TW
Sbjct: 534 NKVGRGERVISFHVTRGPEITLQP-DMQPTEQESVSLWCTADRSTFENLTWYKLGPQPLP 592
Query: 579 IH----------------EDSDKVVGNSPNLTLLMTSDDLA----GRYYCKASVMGFPE- 617
IH + + + NS N L+M + + G Y C A +
Sbjct: 593 IHVGELPTPVCKNLDTLWKLNATMFSNSTNDILIMELKNASLQDQGDYVCLAQDRKTKKR 652
Query: 618 --VGAEATVYLKGRPTIISH-RTQFGIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGS 674
V + TV + PTI + Q G++ V C+A PPP+ + W
Sbjct: 653 HCVVRQLTVLERVAPTITGNLENQTTSIGESIEVSCTASGNPPPQ-IMW----------F 701
Query: 675 SDDYSVLEDP---LKEGIKSTLIIRESRHDHFGVYNCSVSNPYGSDSVEIML 723
D+ +++ED LK+G ++ L IR R + G+Y C + G VE
Sbjct: 702 KDNETLVEDSGIVLKDGNRN-LTIRRVRKEDEGLYTCQACSVLGCAKVEAFF 752
Score = 39.7 bits (91), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 111/491 (22%), Positives = 172/491 (35%), Gaps = 110/491 (22%)
Query: 70 HRNLSGFDRYAMIGSDEEGDYS-LEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTV 128
H+ L D GS+ + S L I V D Y C S+G++ + S F +
Sbjct: 269 HKKLVNRDLKTQSGSEMKKFLSTLTIDGVTRSDQGLYTCAASSGLMTKK--NSTFVRVH- 325
Query: 129 LVPPDPPRIVQGDTLYTTEDREI-ELECISAN--GKPPAEITWIDGTGTVMSNVRVTEEA 185
+ P + G + + + + E I A G PP EI W + SN
Sbjct: 326 ----EKPFVAFGSGMESLVEATVGERVRIPAKYLGYPPPEIKWYKNGIPLESN------- 374
Query: 186 SVDGRRTTVKSTLVLTPKK--EHHNTTFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVI 243
T+K+ VLT + E +T N + + + L+V P+ I
Sbjct: 375 ------HTIKAGHVLTIMEVSERDTGNYTVILTNPISKEKQSHVVSLVVYVPPQ-----I 423
Query: 244 GSNRLVE-------GTDVRLYCKAEA--NPSHMKYRWYINDQPV---PAAASATELYLTN 291
G L+ GT L C A P H+ + W + ++ A S T Y
Sbjct: 424 GEKSLISPVDSYQYGTTQTLTCTVYAIPPPHHIHWYWQLEEECANEPSQAVSVTNPYPCE 483
Query: 292 ITRHQHDSIVKCEVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASA 351
R D +++V+ L+EG + + V AA+
Sbjct: 484 EWRSVEDFQGGNKIEVNK-NQFALIEGKNKTV------------------STLVIQAANV 524
Query: 352 TELYLTNITRHQHDSIVKCEVHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLL 411
+ LY KCE N VG+ E + VT GP +P +Q V+L
Sbjct: 525 SALY-------------KCEAVNKVGRGERVISFHVTRGPEITLQP-DMQPTEQESVSLW 570
Query: 412 CDVDGNPAPEITW---------IH----------------EDSDKVVGNSPNLTLLMTSD 446
C D + +TW IH + + + NS N L+M
Sbjct: 571 CTADRSTFENLTWYKLGPQPLPIHVGELPTPVCKNLDTLWKLNATMFSNSTNDILIMELK 630
Query: 447 DLA----GRYYCKASVMGFPE---VGAEATVYLKGRPTIISH-RTQFGIPGDTARVECSA 498
+ + G Y C A + V + TV + PTI + Q G++ V C+A
Sbjct: 631 NASLQDQGDYVCLAQDRKTKKRHCVVRQLTVLERVAPTITGNLENQTTSIGESIEVSCTA 690
Query: 499 FSIPPPEKVTW 509
PPP+ + W
Sbjct: 691 SGNPPPQ-IMW 700
Score = 36.2 bits (82), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 35/71 (49%), Gaps = 10/71 (14%)
Query: 405 GAGVNLLCDVDGNPAPEITWIH------EDSDKVV--GNSPNLTLLMTSDDLAGRYYCKA 456
G + + C GNP P+I W EDS V+ GN NLT+ + G Y C+A
Sbjct: 681 GESIEVSCTASGNPPPQIMWFKDNETLVEDSGIVLKDGNR-NLTIRRVRKEDEGLYTCQA 739
Query: 457 -SVMGFPEVGA 466
SV+G +V A
Sbjct: 740 CSVLGCAKVEA 750
Score = 33.9 bits (76), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 33/130 (25%), Positives = 55/130 (42%), Gaps = 19/130 (14%)
Query: 554 VQVDRGAGVNLLCDVDGNPAPEITW----IHEDSDKVVGNSPNLTLLMTSDDLAGRYYCK 609
V+ G V + G P PEI W I +S+ + LT++ S+ G Y
Sbjct: 340 VEATVGERVRIPAKYLGYPPPEIKWYKNGIPLESNHTIKAGHVLTIMEVSERDTGNY--- 396
Query: 610 ASVMGFPEVGAEA-------TVYLK---GRPTIISHRTQFGIPGDTARVECSAFSIPPPE 659
+V+ + E VY+ G ++IS + G T + C+ ++IPPP
Sbjct: 397 -TVILTNPISKEKQSHVVSLVVYVPPQIGEKSLISPVDSYQY-GTTQTLTCTVYAIPPPH 454
Query: 660 KVTWSYRGEE 669
+ W ++ EE
Sbjct: 455 HIHWYWQLEE 464
>pdb|1F97|A Chain A, Soluble Part Of The Junction Adhesion Molecule From Mouse
Length = 212
Score = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 39/126 (30%), Positives = 55/126 (43%), Gaps = 12/126 (9%)
Query: 97 VMLDDDARYQCQVST---GILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIEL 153
V D+ Y C VS GE +I LTVLVPP P I ++ T +R + L
Sbjct: 72 VTRKDNGEYTCMVSEEGGQNYGEVSIH-----LTVLVPPSKPTISVPSSV-TIGNRAV-L 124
Query: 154 ECISANGKPPAEITWI-DGTGTVMSNVRVTEEASVDGRRTTVKS-TLVLTPKKEHHNTTF 211
C +G PP+E +W DG + ++ + T KS L+ P + +
Sbjct: 125 TCSEHDGSPPSEYSWFKDGISMLTADAKKTRAFMNSSFTIDPKSGDLIFDPVTAFDSGEY 184
Query: 212 TCQAQN 217
CQAQN
Sbjct: 185 YCQAQN 190
Score = 33.1 bits (74), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 40/187 (21%), Positives = 65/187 (34%), Gaps = 23/187 (12%)
Query: 400 VQVDRGAGVNLLCDVDGNPAPEITWIHED-----------------SDKVVGNSPNLTLL 442
VQV + L C G +P + W +D+V +S +T
Sbjct: 11 VQVPENESIKLTCTYSGFSSPRVEWKFVQGSTTALVCYNSQITAPYADRVTFSSSGITFS 70
Query: 443 MTSDDLAGRYYCKASVMG---FPEVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAF 499
+ G Y C S G + EV TV + IS + I G+ A + CS
Sbjct: 71 SVTRKDNGEYTCMVSEEGGQNYGEVSIHLTVLVPPSKPTISVPSSVTI-GNRAVLTCSEH 129
Query: 500 SIPPPEKVTWSYRGEEIGVGSSDDYSVHNDVGKSEDSETLDVTYGP--RFRARPYSVQVD 557
PP + +W G + + + + D ++ D+ + P F + Y Q
Sbjct: 130 DGSPPSEYSWFKDGISMLTADAKKTRAFMNSSFTIDPKSGDLIFDPVTAFDSGEYYCQAQ 189
Query: 558 RGAGVNL 564
G G +
Sbjct: 190 NGYGTAM 196
Score = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 31/130 (23%), Positives = 46/130 (35%), Gaps = 21/130 (16%)
Query: 554 VQVDRGAGVNLLCDVDGNPAPEITWIHED-----------------SDKVVGNSPNLTLL 596
VQV + L C G +P + W +D+V +S +T
Sbjct: 11 VQVPENESIKLTCTYSGFSSPRVEWKFVQGSTTALVCYNSQITAPYADRVTFSSSGITFS 70
Query: 597 MTSDDLAGRYYCKASVMG---FPEVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAF 653
+ G Y C S G + EV TV + IS + I G+ A + CS
Sbjct: 71 SVTRKDNGEYTCMVSEEGGQNYGEVSIHLTVLVPPSKPTISVPSSVTI-GNRAVLTCSEH 129
Query: 654 SIPPPEKVTW 663
PP + +W
Sbjct: 130 DGSPPSEYSW 139
>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 = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 34/121 (28%), Positives = 52/121 (42%), Gaps = 17/121 (14%)
Query: 318 GTDVRLYCKAEANPSHMKYRWYINDQPVPAAASATE------LYLTNITRHQHDSIVKCE 371
G DV L C+ E + W + + A + L L N+T + V C
Sbjct: 173 GDDVLLRCQVEGRGLE-QAGWILTELEQSATVMKSGGLPSLGLTLANVTSDLNRKNVTCW 231
Query: 372 VHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLC---DVDGNPAPEITWIHED 428
NDVG++E S ++V++ P SVQ+ ++ C VDG PAP + W+
Sbjct: 232 AENDVGRAEVSVQVNVSF-------PASVQLHTAVEMHHWCIPFSVDGQPAPSLRWLFNG 284
Query: 429 S 429
S
Sbjct: 285 S 285
Score = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 57/229 (24%), Positives = 89/229 (38%), Gaps = 22/229 (9%)
Query: 507 VTWSYRGEEIGVGSSDDYSVHNDVGKSEDSETLDVTYG-PRFRARPYSVQVDRGAGVNLL 565
+ W R EE G+G + + G+ + + + G P + + + VD G V L
Sbjct: 121 LRWLQRWEEEGLGGVPEQKLQCH-GQGPLAHMPNASCGVPTLKVQVPNASVDVGDDVLLR 179
Query: 566 CDVDGNPAPEITWI---HEDSDKVV--GNSPNLTLLM---TSDDLAGRYYCKA-SVMGFP 616
C V+G + WI E S V+ G P+L L + TSD C A + +G
Sbjct: 180 CQVEGRGLEQAGWILTELEQSATVMKSGGLPSLGLTLANVTSDLNRKNVTCWAENDVGRA 239
Query: 617 EVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSI--PPPEKVTWSYRGEEIGVGS 674
EV + V P + T + C FS+ P + W + G + S
Sbjct: 240 EVSVQVNVSF---PASVQLHTAVEM-----HHWCIPFSVDGQPAPSLRWLFNGSVLNETS 291
Query: 675 SDDYSVLEDPLKEGIK-STLIIRESRHDHFGVYNCSVSNPYGSDSVEIM 722
LE E ++ L + + H + G Y +NP+G S IM
Sbjct: 292 FIFTEFLEPAANETVRHGCLRLNQPTHVNNGNYTLLAANPFGQASASIM 340
>pdb|2YD4|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Chicken Receptor Protein Tyrosine Phosphatase Sigma
Length = 210
Score = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 52/201 (25%), Positives = 76/201 (37%), Gaps = 25/201 (12%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYAMIGSDEEG 88
F +P DQ V G + C+ D + W K + R + I DE
Sbjct: 9 FIKKPVDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQR-------FETIEFDESA 61
Query: 89 DYSLEIYPVMLDDDAR-YQCQVSTGILGEPAIRSRFATLTVL----VPPDPPRIVQGDTL 143
L I P+ D Y+C V+ GE + A LTVL +PP P I G L
Sbjct: 62 GAVLRIQPLRTPRDENIYEC-VAQNPHGEVTVH---AKLTVLREDQLPPGFPNIDMGPQL 117
Query: 144 YTTEDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKS-TLVLTP 202
E +A+G P EITW + + ++ +GR ++S L +
Sbjct: 118 KVVERTRTATMLCAASGNPDPEITW-------FKDFLPVDPSTSNGRIKQLRSGGLQIES 170
Query: 203 KKEHHNTTFTCQAQNTADRTY 223
+E + C A N+A Y
Sbjct: 171 SEETDQGKYECVASNSAGVRY 191
Score = 36.6 bits (83), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 45/213 (21%), Positives = 77/213 (36%), Gaps = 61/213 (28%)
Query: 463 EVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWSYRGEEIG----- 517
E G V++K +P Q G+ G A C A P P +VTW+ +G+++
Sbjct: 1 ETGESPPVFIK-KPV-----DQIGVSGGVASFVCQATGDPKP-RVTWNKKGKKVNSQRFE 53
Query: 518 ----------------VGSSDDYSVHNDVGKSEDSETL------------------DVTY 543
+ + D +++ V ++ E ++
Sbjct: 54 TIEFDESAGAVLRIQPLRTPRDENIYECVAQNPHGEVTVHAKLTVLREDQLPPGFPNIDM 113
Query: 544 GPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHE--DSDKVVGN-------SPNLT 594
GP+ + V+R +LC GNP PEITW + D N S L
Sbjct: 114 GPQLKV------VERTRTATMLCAASGNPDPEITWFKDFLPVDPSTSNGRIKQLRSGGLQ 167
Query: 595 LLMTSDDLAGRYYCKASVMGFPEVGAEATVYLK 627
+ + + G+Y C AS + A +Y++
Sbjct: 168 IESSEETDQGKYECVASNSAGVRYSSPANLYVR 200
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 30/108 (27%), Positives = 48/108 (44%), Gaps = 13/108 (12%)
Query: 617 EVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSD 676
E G V++K +P Q G+ G A C A P P +VTW+ +G+++ +S
Sbjct: 1 ETGESPPVFIK-KPV-----DQIGVSGGVASFVCQATGDPKP-RVTWNKKGKKV---NSQ 50
Query: 677 DYSVLEDPLKEGIKSTLIIRESRHDH-FGVYNCSVSNPYGSDSVEIML 723
+ +E E + L I+ R +Y C NP+G +V L
Sbjct: 51 RFETIE--FDESAGAVLRIQPLRTPRDENIYECVAQNPHGEVTVHAKL 96
Score = 34.3 bits (77), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 40/97 (41%), Gaps = 15/97 (15%)
Query: 386 DVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHE--DSDKVVGN-------S 436
++ GP+ + V+R +LC GNP PEITW + D N S
Sbjct: 110 NIDMGPQLKV------VERTRTATMLCAASGNPDPEITWFKDFLPVDPSTSNGRIKQLRS 163
Query: 437 PNLTLLMTSDDLAGRYYCKASVMGFPEVGAEATVYLK 473
L + + + G+Y C AS + A +Y++
Sbjct: 164 GGLQIESSEETDQGKYECVASNSAGVRYSSPANLYVR 200
>pdb|2XY1|A Chain A, Crystal Structure Of Ncam2 Ig3-4
Length = 192
Score = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 44/113 (38%), Gaps = 9/113 (7%)
Query: 318 GTDVRLYCKAEANPSHMKYRWYINDQPVPA------AASATELYLTNITRHQHDSIVKCE 371
G ++ C+A +P W+ N + + S TEL + NI V C
Sbjct: 19 GEEMTFSCRASGSPEPA-ISWFRNGKLIEENEKYILKGSNTELTVRNIINSDGGPYV-CR 76
Query: 372 VHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITW 424
N G+ E L V P + G V L+CD +G P PEITW
Sbjct: 77 ATNKAGEDEKQAFLQVFVQPHIIQLKNETTYENGQ-VTLVCDAEGEPIPEITW 128
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 43/184 (23%), Positives = 78/184 (42%), Gaps = 14/184 (7%)
Query: 550 RPYSVQVDRGAGVNLLCDVDGNPAPEITWIH-----EDSDKVV--GNSPNLTLLMTSDDL 602
+ ++ +RG + C G+P P I+W E+++K + G++ LT+ +
Sbjct: 10 KSFNATAERGEEMTFSCRASGSPEPAISWFRNGKLIEENEKYILKGSNTELTVRNIINSD 69
Query: 603 AGRYYCKAS-VMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKV 661
G Y C+A+ G E A V+++ P II + + + C A P PE +
Sbjct: 70 GGPYVCRATNKAGEDEKQAFLQVFVQ--PHIIQLKNETTYENGQVTLVCDAEGEPIPE-I 126
Query: 662 TW--SYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCSVSNPYGSDSV 719
TW + G G +E + G S+L I++ + G Y+C ++ G
Sbjct: 127 TWKRAVDGFTFTEGDKSLDGRIEVKGQHG-SSSLHIKDVKLSDSGRYDCEAASRIGGHQK 185
Query: 720 EIML 723
+ L
Sbjct: 186 SMYL 189
Score = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 55/122 (45%), Gaps = 11/122 (9%)
Query: 396 RPYSVQVDRGAGVNLLCDVDGNPAPEITWIH-----EDSDKVV--GNSPNLTLLMTSDDL 448
+ ++ +RG + C G+P P I+W E+++K + G++ LT+ +
Sbjct: 10 KSFNATAERGEEMTFSCRASGSPEPAISWFRNGKLIEENEKYILKGSNTELTVRNIINSD 69
Query: 449 AGRYYCKAS-VMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKV 507
G Y C+A+ G E A V+++ P II + + + C A P PE +
Sbjct: 70 GGPYVCRATNKAGEDEKQAFLQVFVQ--PHIIQLKNETTYENGQVTLVCDAEGEPIPE-I 126
Query: 508 TW 509
TW
Sbjct: 127 TW 128
Score = 33.9 bits (76), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 22/51 (43%), Gaps = 1/51 (1%)
Query: 528 NDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITW 578
N G+ E L V P + G V L+CD +G P PEITW
Sbjct: 79 NKAGEDEKQAFLQVFVQPHIIQLKNETTYENGQ-VTLVCDAEGEPIPEITW 128
>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 = 43.9 bits (102), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 73/360 (20%), Positives = 127/360 (35%), Gaps = 63/360 (17%)
Query: 146 TEDREIELECISANGKPPAEITW-IDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLT-PK 203
+E+++++L C G P I W ++GT + +D R + V +L++ P
Sbjct: 20 SEEKKVKLSC-EVKGNPKPHIRWKLNGTDV---------DIGMDFRYSVVDGSLLINNPN 69
Query: 204 KEHHNTTFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRLYCKAEAN 263
K T+ C A N+ T KL Y + + + G + L C +
Sbjct: 70 KTQDAGTYQCIATNSFG-TIVSREAKLQFAYLENFKTRTRSTVSVRRGQGMVLLCGPPPH 128
Query: 264 PSHMKYRWYINDQPVP------AAASATELYLTN----------------ITRHQ----- 296
+ Y W N+ P + LY+ +T H+
Sbjct: 129 SGELSYAWIFNEYPSYQDNRRFVSQETGNLYIAKVEKSDVGNYTCVVTNTVTNHKVLGPP 188
Query: 297 ------HDSIV---KCEVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPA 347
+D ++ + +++V + +GT V+L C A NP + +P+
Sbjct: 189 TPLILRNDGVMGEYEPKIEVQFPETVPAEKGTTVKLECFALGNPVPTILWRRADGKPIAR 248
Query: 348 AA----SATELYLTNITRHQHDSIVKCEVHNDVGKSEDSETLDVTYGPRFRARPYSVQVD 403
A S L + N + S +C N GK+ L P + + V
Sbjct: 249 KARRHKSNGILEIPNFQQEDAGS-YECVAENSRGKNVAKGQLTFYAQPNWVQIINDIHVA 307
Query: 404 RGAGVNLLCDVDGNPAPEITWIH-------EDSDKVVGNSPNLTLLMTSDDLAGRYYCKA 456
V C +G P P W+ D ++ + N+T++ SD AG Y C A
Sbjct: 308 MEESVFWECKANGRPKPTYRWLKNGDPLLTRDRIQIEQGTLNITIVNLSD--AGMYQCVA 365
Score = 33.5 bits (75), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 63/249 (25%), Positives = 90/249 (36%), Gaps = 58/249 (23%)
Query: 390 GPRFRARPYSVQV---DRGAGVNLLCDVDGNPAPEITWIHEDSDKVVG------------ 434
GP F P V V L C+V GNP P I W +D +G
Sbjct: 4 GPVFVQEPSHVMFPLDSEEKKVKLSCEVKGNPKPHIRWKLNGTDVDIGMDFRYSVVDGSL 63
Query: 435 --NSPNLTLLMTSDDLAGRYYCKASVMGFPEVGAEATV---YLKG-----RPTIISHRTQ 484
N+PN T AG Y C A+ V EA + YL+ R T+ R Q
Sbjct: 64 LINNPNKT------QDAGTYQCIATNSFGTIVSREAKLQFAYLENFKTRTRSTVSVRRGQ 117
Query: 485 -----FGIPGDTARVECS-AFSIPPPEKVTWSYRGEEIG------VGSSD--DYS--VHN 528
G P + + + F+ P + + +E G V SD +Y+ V N
Sbjct: 118 GMVLLCGPPPHSGELSYAWIFNEYPSYQDNRRFVSQETGNLYIAKVEKSDVGNYTCVVTN 177
Query: 529 DVGKSE----------DSETLDVTYGPRFRAR-PYSVQVDRGAGVNLLCDVDGNPAPEIT 577
V + ++ + Y P+ + P +V ++G V L C GNP P I
Sbjct: 178 TVTNHKVLGPPTPLILRNDGVMGEYEPKIEVQFPETVPAEKGTTVKLECFALGNPVPTIL 237
Query: 578 WIHEDSDKV 586
W D +
Sbjct: 238 WRRADGKPI 246
>pdb|3EPC|R Chain R, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus Type 1
pdb|3EPD|R Chain R, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus Type 3
pdb|3EPF|R Chain R, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus Type 2
Length = 213
Score = 43.9 bits (102), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 56/218 (25%), Positives = 86/218 (39%), Gaps = 26/218 (11%)
Query: 34 PQDQTAVVGSRVTLPCRV------IDKTGVLQWTK----DDFAL-----GPHRNLSGFDR 78
P +G VTLPC + + L W + A+ GP + S
Sbjct: 5 PTQVPGFLGDSVTLPCYLQVPNMEVTHVSQLTWARHGESGSMAVFHQTQGPSYSESKRLE 64
Query: 79 Y--AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
+ A +G+ E D SL ++ + ++D+ Y C T G RS L VL P
Sbjct: 65 FVAARLGA-ELRDASLRMFGLRVEDEGSYTCLFVTFPQGS---RSVDIWLRVLAKPQNTA 120
Query: 137 IVQGDTLYTTEDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
VQ L T + C+S G+PPA+ITW G + +V S TV S
Sbjct: 121 EVQKVQL--TGEPVPMARCVSTGGRPPAQITWHSDLGGMPQTSQVPGFLS---GTVTVTS 175
Query: 197 TLVLTPKKEHHNTTFTCQAQNTADRTYKVARLKLLVKY 234
+L P + TC+ ++ + ++ + L V Y
Sbjct: 176 LWILVPSSQVDGKQVTCKVEHESFEKPQLLTVSLTVYY 213
>pdb|3KLD|A Chain A, Ptprg Cntn4 Complex
Length = 384
Score = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 73/360 (20%), Positives = 127/360 (35%), Gaps = 63/360 (17%)
Query: 146 TEDREIELECISANGKPPAEITW-IDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLT-PK 203
+E+++++L C G P I W ++GT + +D R + V +L++ P
Sbjct: 21 SEEKKVKLSC-EVKGNPKPHIRWKLNGTDV---------DIGMDFRYSVVDGSLLINNPN 70
Query: 204 KEHHNTTFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRLYCKAEAN 263
K T+ C A N+ T KL Y + + + G + L C +
Sbjct: 71 KTQDAGTYQCIATNSFG-TIVSREAKLQFAYLENFKTRTRSTVSVRRGQGMVLLCGPPPH 129
Query: 264 PSHMKYRWYINDQPVP------AAASATELYLTN----------------ITRHQ----- 296
+ Y W N+ P + LY+ +T H+
Sbjct: 130 SGELSYAWIFNEYPSYQDNRRFVSQETGNLYIAKVEKSDVGNYTCVVTNTVTNHKVLGPP 189
Query: 297 ------HDSIV---KCEVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPA 347
+D ++ + +++V + +GT V+L C A NP + +P+
Sbjct: 190 TPLILRNDGVMGEYEPKIEVQFPETVPAEKGTTVKLECFALGNPVPTILWRRADGKPIAR 249
Query: 348 AA----SATELYLTNITRHQHDSIVKCEVHNDVGKSEDSETLDVTYGPRFRARPYSVQVD 403
A S L + N + S +C N GK+ L P + + V
Sbjct: 250 KARRHKSNGILEIPNFQQEDAGS-YECVAENSRGKNVAKGQLTFYAQPNWVQIINDIHVA 308
Query: 404 RGAGVNLLCDVDGNPAPEITWIH-------EDSDKVVGNSPNLTLLMTSDDLAGRYYCKA 456
V C +G P P W+ D ++ + N+T++ SD AG Y C A
Sbjct: 309 MEESVFWECKANGRPKPTYRWLKNGDPLLTRDRIQIEQGTLNITIVNLSD--AGMYQCVA 366
Score = 33.1 bits (74), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 63/249 (25%), Positives = 90/249 (36%), Gaps = 58/249 (23%)
Query: 390 GPRFRARPYSVQV---DRGAGVNLLCDVDGNPAPEITWIHEDSDKVVG------------ 434
GP F P V V L C+V GNP P I W +D +G
Sbjct: 5 GPVFVQEPSHVMFPLDSEEKKVKLSCEVKGNPKPHIRWKLNGTDVDIGMDFRYSVVDGSL 64
Query: 435 --NSPNLTLLMTSDDLAGRYYCKASVMGFPEVGAEATV---YLKG-----RPTIISHRTQ 484
N+PN T AG Y C A+ V EA + YL+ R T+ R Q
Sbjct: 65 LINNPNKT------QDAGTYQCIATNSFGTIVSREAKLQFAYLENFKTRTRSTVSVRRGQ 118
Query: 485 -----FGIPGDTARVECS-AFSIPPPEKVTWSYRGEEIG------VGSSD--DYS--VHN 528
G P + + + F+ P + + +E G V SD +Y+ V N
Sbjct: 119 GMVLLCGPPPHSGELSYAWIFNEYPSYQDNRRFVSQETGNLYIAKVEKSDVGNYTCVVTN 178
Query: 529 DVGKSE----------DSETLDVTYGPRFRAR-PYSVQVDRGAGVNLLCDVDGNPAPEIT 577
V + ++ + Y P+ + P +V ++G V L C GNP P I
Sbjct: 179 TVTNHKVLGPPTPLILRNDGVMGEYEPKIEVQFPETVPAEKGTTVKLECFALGNPVPTIL 238
Query: 578 WIHEDSDKV 586
W D +
Sbjct: 239 WRRADGKPI 247
>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 = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 59/260 (22%), Positives = 98/260 (37%), Gaps = 53/260 (20%)
Query: 400 VQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVV----------GNSPNLTLLMTSDDLA 449
V++ G C G P I W + +K++ G LT+ + + A
Sbjct: 14 VELSVGESKFFTCTAIGEPES-IDWYNPQGEKIISTQRVVVQKEGVRSRLTIYNANIEDA 72
Query: 450 GRYYCKAS-VMGFPEVGAEATVYLKGRPTIISHRT---QFGIPGDTARVECSAFSIPPPE 505
G Y C+A+ G + EATV L+ + Q G+ A V C S P P
Sbjct: 73 GIYRCQATDAKGQTQ---EATVVLEIYQKLTFREVVSPQEFKQGEDAEVVCRVSSSPAP- 128
Query: 506 KVTWSYRGEEIGVGSSD------------------DYSVHNDVGKSEDSETLD------- 540
V+W Y EE+ S + D ++ G+ E +D
Sbjct: 129 AVSWLYHNEEVTTISDNRFAMLANNNLQILNINKSDEGIYRCEGRVEARGEIDFRDIIVI 188
Query: 541 VTYGPRFRA--RPYSVQVDRGAGVNLLCDVDGNPAPEITWIH-----EDSDKVV--GNSP 591
V P + ++ +RG + C G+P P I+W E+++K + G++
Sbjct: 189 VNVPPAISMPQKSFNATAERGEEMTFSCRASGSPEPAISWFRNGKLIEENEKYILKGSNT 248
Query: 592 NLTLLMTSDDLAGRYYCKAS 611
LT+ + G Y C+A+
Sbjct: 249 ELTVRNIINSDGGPYVCRAT 268
Score = 38.9 bits (89), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 42/205 (20%), Positives = 76/205 (37%), Gaps = 25/205 (12%)
Query: 534 EDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNL 593
E + L++ FR + +G ++C V +PAP ++W++ + + +
Sbjct: 88 EATVVLEIYQKLTFREVVSPQEFKQGEDAEVVCRVSSSPAPAVSWLYHNEEVTTISDNRF 147
Query: 594 TLLMT----------SDDLAGRYYCKASVMGFPEVGAEATVYLKGRPTIISH-RTQFGIP 642
+L SD+ G Y C+ V E+ + + P IS + F
Sbjct: 148 AMLANNNLQILNINKSDE--GIYRCEGRVEARGEIDFRDIIVIVNVPPAISMPQKSFNAT 205
Query: 643 ---GDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESR 699
G+ C A P P ++W G+ I E + +G + L +R
Sbjct: 206 AERGEEMTFSCRASGSPEP-AISWFRNGKLIEEN--------EKYILKGSNTELTVRNII 256
Query: 700 HDHFGVYNCSVSNPYGSDSVEIMLK 724
+ G Y C +N G D + L+
Sbjct: 257 NSDGGPYVCRATNKAGEDEKQAFLQ 281
Score = 36.2 bits (82), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 44/215 (20%), Positives = 81/215 (37%), Gaps = 28/215 (13%)
Query: 325 CKAEANPSHMKYRWY-------INDQPVPAAASATELYLTNITRHQHDS-IVKCEVHNDV 376
C A P + WY I+ Q V LT + D+ I +C+ +
Sbjct: 26 CTAIGEPESID--WYNPQGEKIISTQRVVVQKEGVRSRLTIYNANIEDAGIYRCQATDAK 83
Query: 377 GKSEDSET-LDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGN 435
G+++++ L++ FR + +G ++C V +PAP ++W++ + + +
Sbjct: 84 GQTQEATVVLEIYQKLTFREVVSPQEFKQGEDAEVVCRVSSSPAPAVSWLYHNEEVTTIS 143
Query: 436 SPNLTLLMT----------SDDLAGRYYCKASVMGFPEVGAEATVYLKGRPTIISH-RTQ 484
+L SD+ G Y C+ V E+ + + P IS +
Sbjct: 144 DNRFAMLANNNLQILNINKSDE--GIYRCEGRVEARGEIDFRDIIVIVNVPPAISMPQKS 201
Query: 485 FGIP---GDTARVECSAFSIPPPEKVTWSYRGEEI 516
F G+ C A P P ++W G+ I
Sbjct: 202 FNATAERGEEMTFSCRASGSPEP-AISWFRNGKLI 235
>pdb|3URO|R Chain R, Poliovirus Receptor Cd155 D1d2
Length = 221
Score = 43.9 bits (102), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 56/218 (25%), Positives = 86/218 (39%), Gaps = 26/218 (11%)
Query: 34 PQDQTAVVGSRVTLPCRV------IDKTGVLQWTK----DDFAL-----GPHRNLSGFDR 78
P +G VTLPC + + L W + A+ GP + S
Sbjct: 6 PTQVPGFLGDSVTLPCYLQVPNMEVTHVSQLTWARHGESGSMAVFHQTQGPSYSESKRLE 65
Query: 79 Y--AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
+ A +G+ E D SL ++ + ++D+ Y C T G RS L VL P
Sbjct: 66 FVAARLGA-ELRDASLRMFGLRVEDEGSYTCLFVTFPQGS---RSVDIWLRVLAKPQNTA 121
Query: 137 IVQGDTLYTTEDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
VQ L T + C+S G+PPA+ITW G + +V S TV S
Sbjct: 122 EVQKVQL--TGEPVPMARCVSTGGRPPAQITWHSDLGGMPQTSQVPGFLS---GTVTVTS 176
Query: 197 TLVLTPKKEHHNTTFTCQAQNTADRTYKVARLKLLVKY 234
+L P + TC+ ++ + ++ + L V Y
Sbjct: 177 LWILVPSSQVDGKQVTCKVEHESFEKPQLLTVSLTVYY 214
>pdb|2L7J|A Chain A, Solution Structure Of The Third Immunoglobulin-Like Domain
Of Nectin-1
Length = 95
Score = 43.5 bits (101), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 30/55 (54%)
Query: 230 LLVKYAPKVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASA 284
L V+Y P+V + N ++ TDV+L CKA+ANP +Y W + +P A
Sbjct: 1 LNVQYEPEVTIEGFDGNWYLQRTDVKLTCKADANPPATEYHWTTLNGSLPKGVEA 55
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 38/88 (43%), Gaps = 2/88 (2%)
Query: 304 EVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASATE--LYLTNITR 361
EV + N ++ TDV+L CKA+ANP +Y W + +P A L+
Sbjct: 8 EVTIEGFDGNWYLQRTDVKLTCKADANPPATEYHWTTLNGSLPKGVEAQNRTLFFRGPIT 67
Query: 362 HQHDSIVKCEVHNDVGKSEDSETLDVTY 389
+ CE N +G +++T+
Sbjct: 68 YSLAGTYICEATNPIGTRSGQVEVNITH 95
>pdb|1QZ1|A Chain A, Crystal Structure Of The Ig 1-2-3 Fragment Of Ncam
Length = 291
Score = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 47/221 (21%), Positives = 76/221 (34%), Gaps = 23/221 (10%)
Query: 522 DDYSVHNDVGKSEDSETLDVTYGPR------FRARPYSVQVDRGAGVNLLCDVDGNPAPE 575
DD ++ V +ED + T + F+ P + G ++CDV + P
Sbjct: 72 DDAGIYKCVVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGEDAVIVCDVVSSLPPT 131
Query: 576 ITWIHEDSDKVVGNSPNLTLLMTS--------DDLAGRYYCKASVMGFPEVGAEATVYLK 627
I W H+ D ++ +L + G Y C+ ++ E+ + +
Sbjct: 132 IIWKHKGRDVILKKDVRFIVLSNNYLQIRGIKKTDEGTYRCEGRILARGEINFKDIQVIV 191
Query: 628 GRPTIISHRTQF----GIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLED 683
P + R G + + C A P P ++W+ GE I DD E
Sbjct: 192 NVPPTVQARQSIVNATANLGQSVTLVCDADGFPEP-TMSWTKDGEPIENEEEDD----EK 246
Query: 684 PLKEGIKSTLIIRESRHDHFGVYNCSVSNPYGSDSVEIMLK 724
+ S L IR + Y C N G I LK
Sbjct: 247 HIFSDDSSELTIRNVDKNDEAEYVCIAENKAGEQDASIHLK 287
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 61/285 (21%), Positives = 107/285 (37%), Gaps = 60/285 (21%)
Query: 397 PYSVQVDRGAGVNLLCDVDGNPA-PEITWIHEDSDKVVGNSPNLTLLMTSDDL------- 448
P ++ G LC V G+ +I+W + +K+ N ++++ DD
Sbjct: 9 PSQGEISVGESKFFLCQVAGDAKDKDISWFSPNGEKLSPNQQRISVVWNDDDSSTLTIYN 68
Query: 449 -----AGRYYCKASVMGFPEVGAEATVYLKGRPTIISHRT---QFGIPGDTARVECSAFS 500
AG Y C V +EATV +K ++ Q G+ A + C S
Sbjct: 69 ANIDDAGIYKC--VVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGEDAVIVCDVVS 126
Query: 501 IPPPEKVTWSYRGEEIGVGS-------SDDYSVHNDVGKSEDSE---------------- 537
PP + W ++G ++ + S++Y + K+++
Sbjct: 127 SLPP-TIIWKHKGRDVILKKDVRFIVLSNNYLQIRGIKKTDEGTYRCEGRILARGEINFK 185
Query: 538 --TLDVTYGPRFRARPYSVQ--VDRGAGVNLLCDVDGNPAPEITWI---------HEDSD 584
+ V P +AR V + G V L+CD DG P P ++W ED +
Sbjct: 186 DIQVIVNVPPTVQARQSIVNATANLGQSVTLVCDADGFPEPTMSWTKDGEPIENEEEDDE 245
Query: 585 KVV--GNSPNLTLLMTSDDLAGRYYCKASVMGFPEVGAEATVYLK 627
K + +S LT+ + Y C A + +A+++LK
Sbjct: 246 KHIFSDDSSELTIRNVDKNDEAEYVCIAENKAGEQ---DASIHLK 287
Score = 37.7 bits (86), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 40/188 (21%), Positives = 69/188 (36%), Gaps = 17/188 (9%)
Query: 349 ASATELYLTNITRHQHDSIVKCEVHNDVG-KSEDSETLDVTYGPRFRARPYSVQVDRGAG 407
+S +Y NI I KC V + G +SE + + + F+ P + G
Sbjct: 61 SSTLTIYNANIDDA---GIYKCVVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGED 117
Query: 408 VNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTS--------DDLAGRYYCKASVM 459
++CDV + P I W H+ D ++ +L + G Y C+ ++
Sbjct: 118 AVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYLQIRGIKKTDEGTYRCEGRIL 177
Query: 460 GFPEVGAEATVYLKGRPTIISHRTQF----GIPGDTARVECSAFSIPPPEKVTWSYRGEE 515
E+ + + P + R G + + C A P P ++W+ GE
Sbjct: 178 ARGEINFKDIQVIVNVPPTVQARQSIVNATANLGQSVTLVCDADGFPEP-TMSWTKDGEP 236
Query: 516 IGVGSSDD 523
I DD
Sbjct: 237 IENEEEDD 244
Score = 33.5 bits (75), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 39/174 (22%), Positives = 67/174 (38%), Gaps = 26/174 (14%)
Query: 551 PYSVQVDRGAGVNLLCDVDGNPA-PEITWIHEDSDKVVGNSPNLTLLMTSDDL------- 602
P ++ G LC V G+ +I+W + +K+ N ++++ DD
Sbjct: 9 PSQGEISVGESKFFLCQVAGDAKDKDISWFSPNGEKLSPNQQRISVVWNDDDSSTLTIYN 68
Query: 603 -----AGRYYCKASVMGFPEVGAEATVYLKGRPTIISHRT---QFGIPGDTARVECSAFS 654
AG Y C V +EATV +K ++ Q G+ A + C S
Sbjct: 69 ANIDDAGIYKC--VVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGEDAVIVCDVVS 126
Query: 655 IPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNC 708
PP + W ++G ++ + + VL + + L IR + G Y C
Sbjct: 127 SLPP-TIIWKHKGRDVILKKDVRFIVLSN-------NYLQIRGIKKTDEGTYRC 172
Score = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 42/100 (42%), Gaps = 16/100 (16%)
Query: 387 VTYGPRFRARPYSVQV--DRGAGVNLLCDVDGNPAPEITWI---------HEDSDKVV-- 433
V P +AR V + G V L+CD DG P P ++W ED +K +
Sbjct: 191 VNVPPTVQARQSIVNATANLGQSVTLVCDADGFPEPTMSWTKDGEPIENEEEDDEKHIFS 250
Query: 434 GNSPNLTLLMTSDDLAGRYYCKASVMGFPEVGAEATVYLK 473
+S LT+ + Y C A + +A+++LK
Sbjct: 251 DDSSELTIRNVDKNDEAEYVCIAENKAGEQ---DASIHLK 287
>pdb|1CS6|A Chain A, N-terminal Fragment Of Axonin-1 From Chicken
Length = 382
Score = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 73/363 (20%), Positives = 125/363 (34%), Gaps = 69/363 (19%)
Query: 146 TEDREIELECISANGKPPAEITW-IDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLT-PK 203
+ + ++ L C A PPA W ++GT M D R V LV++ P
Sbjct: 20 SAEEKVTLTC-RARANPPATYRWKMNGTELKMGP---------DSRYRLVAGDLVISNPV 69
Query: 204 KEHHNTTFTCQAQN---TADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRLYCKA 260
K ++ C A N T R L +++ + + V ++ EG V C
Sbjct: 70 KAKDAGSYQCVATNARGTVVSREASLRFGFLQEFSAEERDPV----KITEGWGVMFTCSP 125
Query: 261 EANPSHMKYRWYINDQP--VPA------AASATELYLTN-----------ITRHQHDSIV 301
+ + YRW +N+ P +PA + + LY+ D I
Sbjct: 126 PPHYPALSYRWLLNEFPNFIPADGRRFVSQTTGNLYIAKTEASDLGNYSCFATSHIDFIT 185
Query: 302 KC--------------------EVQVSVIGSNRLVEGTDVRLYCKAEANP-SHMKYRWYI 340
K ++ + G V L C A NP +K+R
Sbjct: 186 KSVFSKFSQLSLAAEDARQYAPSIKAKFPADTYALTGQMVTLECFAFGNPVPQIKWRKLD 245
Query: 341 NDQPVPAAASATELYLTNITRHQHDSIVKCEVHNDVGKSEDSETLDVTYGPRFRARPYSV 400
Q +S L++ N+ + + +CE N G+ + + P +
Sbjct: 246 GSQTSKWLSSEPLLHIQNVD-FEDEGTYECEAENIKGRDTYQGRIIIHAQPDWLDVITDT 304
Query: 401 QVDRGAGVNLLCDVDGNPAPEITWIH-------EDSDKVVGNSPNLTLLMTSDDLAGRYY 453
+ D G+ + C G P P + W+ ++ +V G + L+ D +G Y
Sbjct: 305 EADIGSDLRWSCVASGKPRPAVRWLRDGQPLASQNRIEVSGGELRFSKLVLED--SGMYQ 362
Query: 454 CKA 456
C A
Sbjct: 363 CVA 365
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 77/344 (22%), Positives = 120/344 (34%), Gaps = 57/344 (16%)
Query: 321 VRLYCKAEANPSHMKYRWYINDQPVPAAAS------ATELYLTNITRHQHDSIVKCEVHN 374
V L C+A ANP YRW +N + A +L ++N + + +C N
Sbjct: 25 VTLTCRARANPP-ATYRWKMNGTELKMGPDSRYRLVAGDLVISNPVKAKDAGSYQCVATN 83
Query: 375 DVGKSEDSE-TLDVTYGPRFRARPYS-VQVDRGAGVNLLCDVDGN-PAPEITW------- 424
G E +L + F A V++ G GV C + PA W
Sbjct: 84 ARGTVVSREASLRFGFLQEFSAEERDPVKITEGWGVMFTCSPPPHYPALSYRWLLNEFPN 143
Query: 425 -IHEDSDKVVGNSP-NLTLLMTSDDLAGRYYC----------KASVMGFPEVGAEATVYL 472
I D + V + NL + T G Y C K+ F ++ A
Sbjct: 144 FIPADGRRFVSQTTGNLYIAKTEASDLGNYSCFATSHIDFITKSVFSKFSQLSLAAEDAR 203
Query: 473 KGRPTIISH--RTQFGIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVHNDV 530
+ P+I + + + G +EC AF P P+ G + S + +H
Sbjct: 204 QYAPSIKAKFPADTYALTGQMVTLECFAFGNPVPQIKWRKLDGSQTSKWLSSEPLLHIQN 263
Query: 531 GKSEDSETLDV---------TYGPR--FRARPYSVQV------DRGAGVNLLCDVDGNPA 573
ED T + TY R A+P + V D G+ + C G P
Sbjct: 264 VDFEDEGTYECEAENIKGRDTYQGRIIIHAQPDWLDVITDTEADIGSDLRWSCVASGKPR 323
Query: 574 PEITWIH-------EDSDKVVGNSPNLTLLMTSDDLAGRYYCKA 610
P + W+ ++ +V G + L+ D +G Y C A
Sbjct: 324 PAVRWLRDGQPLASQNRIEVSGGELRFSKLVLED--SGMYQCVA 365
Score = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 45/179 (25%), Positives = 71/179 (39%), Gaps = 17/179 (9%)
Query: 543 YGPRFRAR-PYSVQVDRGAGVNLLCDVDGNPAPEITWIHED---SDKVVGNSPNLTLLMT 598
Y P +A+ P G V L C GNP P+I W D + K + + P L +
Sbjct: 205 YAPSIKAKFPADTYALTGQMVTLECFAFGNPVPQIKWRKLDGSQTSKWLSSEPLLHIQNV 264
Query: 599 SDDLAGRYYCKA-SVMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPP 657
+ G Y C+A ++ G ++ + + T+ I G R C A P
Sbjct: 265 DFEDEGTYECEAENIKGRDTYQGRIIIHAQPDWLDVITDTEADI-GSDLRWSCVASGKPR 323
Query: 658 PEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCSVSNPYGS 716
P V W G+ + S + V L+ S L++ +S G+Y C N +G+
Sbjct: 324 P-AVRWLRDGQPL--ASQNRIEVSGGELR---FSKLVLEDS-----GMYQCVAENKHGT 371
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 51/218 (23%), Positives = 80/218 (36%), Gaps = 38/218 (17%)
Query: 15 LALSMGSLAQYREQKFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL 73
L+L+ QY A P D A+ G VTL C + ++W R L
Sbjct: 195 LSLAAEDARQYAPSIKAKFPADTYALTGQMVTLECFAFGNPVPQIKW----------RKL 244
Query: 74 SGFDRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPD 133
G + S+ L I V +D+ Y+C+ I G + R +++
Sbjct: 245 DGSQTSKWLSSEP----LLHIQNVDFEDEGTYECEAEN-IKGRDTYQGR-----IIIHAQ 294
Query: 134 PPRIVQGDTLYTTE---DREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGR 190
P + D + TE ++ C+ A+GKP + W+ + S R+ V G
Sbjct: 295 PDWL---DVITDTEADIGSDLRWSCV-ASGKPRPAVRWLRDGQPLASQNRI----EVSGG 346
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQAQNTADRTYKVARL 228
S LVL + + C A+N Y A L
Sbjct: 347 ELRF-SKLVL-----EDSGMYQCVAENKHGTVYASAEL 378
>pdb|1AQK|L Chain L, Three-Dimensional Structure Of A Human Fab With High
Affinity For Tetanus Toxoid
Length = 216
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 63/144 (43%), Gaps = 13/144 (9%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I + +D+A Y CQ + ++ +RF T L P+
Sbjct: 62 DRFS--GSKSGTSASLAITGLQAEDEADYYCQSY-----DSSLSARFGGGTRLTVLGQPK 114
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T+ +
Sbjct: 115 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVNAGVETTKPSKQSNN 174
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 175 KYAASSYLSLTPEQWKSHKSYSCQ 198
>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 = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 82/377 (21%), Positives = 135/377 (35%), Gaps = 100/377 (26%)
Query: 152 ELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTP------KKE 205
E+EC A+G P EI WI GT + +V + S DG+ LV P ++E
Sbjct: 23 EIEC-KASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGK-------LVFPPFRAEDYRQE 74
Query: 206 HHNTTFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGS-------NRLVEGTDVRLYC 258
H + C A+N + ++ V+ VI S ++ G V + C
Sbjct: 75 VHAQVYACLARN---------QFGSIISRDVHVRAVVIQSYESEADNEYVIRGNSVVMKC 125
Query: 259 KAEANPSHMKYRWYI---------NDQPVPAAAS--------ATELYLTNITRHQHDSIV 301
+ PS++ ++ N P AA + + EL++ +
Sbjct: 126 EI---PSYVADFVFVDLWLDSEGRNYYPNNAAETDGKYLVLPSGELHIREVGPEDGYKSY 182
Query: 302 KCEVQVSVIGSNRLV-------------------------EGTDVRL------YCKAEAN 330
+C + + G RL + DV L C A++
Sbjct: 183 QCRTKHRLTGETRLSATKGRLVITEPVGSVRPKVNPQDKHQFIDVELASSYSLLCMAQSY 242
Query: 331 PSHMKYRWY------INDQPVPAAASATELYLTNITRHQHDSIVK------CEVHNDVGK 378
P+ +RWY Q V ++ T I + D++V+ C V+N VG
Sbjct: 243 PTP-SFRWYKFIEGTTRKQAVVLNDRVKQVSGTLIIK---DAVVEDSGKYLCVVNNSVGG 298
Query: 379 SEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPN 438
L VT + P + VD G C GNP ++W+ + K +G+S +
Sbjct: 299 ESVETVLTVTAPLSAKIDPPTQTVDFGRPAVFTCQYTGNPIKTVSWMKD--GKAIGHSES 356
Query: 439 -LTLLMTSDDLAGRYYC 454
L + + G Y C
Sbjct: 357 VLRIESVKKEDKGMYQC 373
Score = 37.4 bits (85), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 2/60 (3%)
Query: 390 GPRFRARPYS-VQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDL 448
GP F P + + G + C GNP PEI WI D VG+ P L + + L
Sbjct: 3 GPVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDG-TAVGDVPGLRQISSDGKL 61
Score = 37.4 bits (85), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 2/60 (3%)
Query: 544 GPRFRARPYS-VQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDL 602
GP F P + + G + C GNP PEI WI D VG+ P L + + L
Sbjct: 3 GPVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDG-TAVGDVPGLRQISSDGKL 61
Score = 34.7 bits (78), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 39/74 (52%), Gaps = 5/74 (6%)
Query: 650 CSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCS 709
C A S P P S+R + G++ +V+ + + + TLII+++ + G Y C
Sbjct: 237 CMAQSYPTP-----SFRWYKFIEGTTRKQAVVLNDRVKQVSGTLIIKDAVVEDSGKYLCV 291
Query: 710 VSNPYGSDSVEIML 723
V+N G +SVE +L
Sbjct: 292 VNNSVGGESVETVL 305
Score = 30.8 bits (68), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 3/84 (3%)
Query: 526 VHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDK 585
V+N VG L VT + P + VD G C GNP ++W+ + K
Sbjct: 292 VNNSVGGESVETVLTVTAPLSAKIDPPTQTVDFGRPAVFTCQYTGNPIKTVSWMKD--GK 349
Query: 586 VVGNSPN-LTLLMTSDDLAGRYYC 608
+G+S + L + + G Y C
Sbjct: 350 AIGHSESVLRIESVKKEDKGMYQC 373
>pdb|4FS0|A Chain A, Crystal Structure Of Mutant F136d Of Mouse Nectin-2
Extracellular Fragment D1-D2
Length = 225
Score = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 43/213 (20%), Positives = 79/213 (37%), Gaps = 27/213 (12%)
Query: 41 VGSRVTLPCRVI----DKTGVLQWTKDD----------FALGPHRNLSGFDRYAMIGSDE 86
+G V LPC ++ ++ + W + D F + + DR + + +
Sbjct: 15 LGGTVELPCHLLPPTTERVSQVTWQRLDGTVVAAFHPSFGVDFPNSQFSKDRLSFVRARP 74
Query: 87 EG-----DYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
E D +L + ++D+ Y C+ +T G +R + V P +
Sbjct: 75 ETNADLRDATLAFRGLRVEDEGNYTCEFATDPNG-----TRRGVTWLRVIAQPENHAEAQ 129
Query: 142 TLYTTEDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLT 201
+ C+S G+PPA ITWI G + T+E + T+ S L
Sbjct: 130 EVTIGPQSVAVARCVSTGGRPPARITWISSLG---GEAKDTQEPGIQAGTVTIISRYSLV 186
Query: 202 PKKEHHNTTFTCQAQNTADRTYKVARLKLLVKY 234
P TC+ ++ + + + L V+Y
Sbjct: 187 PVGRADGVKVTCRVEHESFEEPILLPVTLSVRY 219
>pdb|4FMK|A Chain A, Crystal Structure Of Mouse Nectin-2 Extracellular Fragment
D1-D2
pdb|4FN0|A Chain A, Crystal Structure Of Mouse Nectin-2 Extracellular Fragment
D1-D2, 2nd Crystal Form
pdb|4FN0|B Chain B, Crystal Structure Of Mouse Nectin-2 Extracellular Fragment
D1-D2, 2nd Crystal Form
pdb|4FN0|C Chain C, Crystal Structure Of Mouse Nectin-2 Extracellular Fragment
D1-D2, 2nd Crystal Form
Length = 225
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 43/213 (20%), Positives = 79/213 (37%), Gaps = 27/213 (12%)
Query: 41 VGSRVTLPCRVI----DKTGVLQWTKDD----------FALGPHRNLSGFDRYAMIGSDE 86
+G V LPC ++ ++ + W + D F + + DR + + +
Sbjct: 15 LGGTVELPCHLLPPTTERVSQVTWQRLDGTVVAAFHPSFGVDFPNSQFSKDRLSFVRARP 74
Query: 87 EG-----DYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
E D +L + ++D+ Y C+ +T G +R + V P +
Sbjct: 75 ETNADLRDATLAFRGLRVEDEGNYTCEFATFPNG-----TRRGVTWLRVIAQPENHAEAQ 129
Query: 142 TLYTTEDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLT 201
+ C+S G+PPA ITWI G + T+E + T+ S L
Sbjct: 130 EVTIGPQSVAVARCVSTGGRPPARITWISSLG---GEAKDTQEPGIQAGTVTIISRYSLV 186
Query: 202 PKKEHHNTTFTCQAQNTADRTYKVARLKLLVKY 234
P TC+ ++ + + + L V+Y
Sbjct: 187 PVGRADGVKVTCRVEHESFEEPILLPVTLSVRY 219
>pdb|2AAB|L Chain L, Structural Basis Of Antigen Mimicry In A Clinically
Relevant Melanoma Antigen System
Length = 218
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 53/209 (25%), Positives = 81/209 (38%), Gaps = 33/209 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-----TGVLQWTKDDFALGPH------RNLSGFD 77
+ P +G RVT+ CR + + ++QW + P N+
Sbjct: 3 QLTQSPASLAVSLGQRVTISCRASESVEYYGSSLMQWYQQKPGQPPKLLIYAASNVESGV 62
Query: 78 RYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI---LG---EPAIRSRFATLTV-LV 130
GS D+SL I+PV DD A Y CQ S I G + I+ A TV +
Sbjct: 63 PARFSGSGSGTDFSLNIHPVEEDDIAMYFCQQSRKIPYTFGGGTKLEIKRADAAPTVSIF 122
Query: 131 PPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVD 188
PP ++ G + C N P + W ID G+ N + D
Sbjct: 123 PPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQD 171
Query: 189 GRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 172 SKDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>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 = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 52/204 (25%), Positives = 82/204 (40%), Gaps = 30/204 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTG-VLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR G L W + P + SG R+
Sbjct: 4 QMTQSPSSLSASVGDRVTITCRASQSIGSYLNWYQQKTGKAPKALIYAASSLQSGVPSRF 63
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQ--VSTGILGEPA---IRSRFATLTVLV-PPD 133
+ GS D++L I + L+D A Y CQ ST G+ I+ A +V + PP
Sbjct: 64 S--GSGSGTDFTLTISSLQLEDFATYYCQQSYSTPSFGQGTKVEIKRTVAAPSVFIFPPS 121
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGR 190
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 122 DEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDST 172
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 173 Y-SLSSTLTLSKADYEKHKVYACE 195
>pdb|3MLY|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With A Ur29 V3 Peptide
pdb|3MLY|M Chain M, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With A Ur29 V3 Peptide
pdb|3MLZ|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With A Vi191 V3 Peptide
Length = 214
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 45/204 (22%), Positives = 79/204 (38%), Gaps = 24/204 (11%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPCRVIDKT---GVLQWTKDDFALGPH-------RNLSGF- 76
Q +P +A G +VT+ C ++ W + P + SG
Sbjct: 1 QSVLTQPPSVSAAPGQKVTISCSGSSSNIGNNMVSWYQQHPGTAPKLLIYENSKRPSGIP 60
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS +L I + D+A Y C G ++R+ F T L P+
Sbjct: 61 DRFS--GSRSGTSATLGIIGLQTGDEAEYYCATWDG-----SLRTVFGGGTKLTVLSQPK 113
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 114 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVRAGVETTTPSKQSNN 173
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 174 KYAASSYLSLTPEQWKSHRSYSCQ 197
>pdb|1KCR|L Chain L, Crystal Structure Of Antibody Pc283 In Complex With Ps1
Peptide
Length = 213
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 54/205 (26%), Positives = 83/205 (40%), Gaps = 32/205 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNLSGF-DRYAMI----- 82
P+ + VG RVTL C+ + G + W + P + G +RY +
Sbjct: 4 LTQSPKSMSMSVGERVTLSCKASENVGTYVSWYQQKPEQSPKLLIYGASNRYTGVPDRFT 63
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQC--QVSTGILG---EPAIRSRFATLTV-LVPPDPPR 136
GS D++L+I V +D A Y C S G + AI+ A TV + PP +
Sbjct: 64 GSGSATDFTLKISSVQAEDLADYHCGQTYSYPTFGGGTKLAIKRADAAPTVSIFPPSSEQ 123
Query: 137 IVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGT----GTVMSNVRVTEEASVDGR 190
+ G + C N P + W IDG+ G S T + S D
Sbjct: 124 LTAGGA---------SVVCFLNNFYPKDINVKWKIDGSERQNGVANS---WTAQDSADST 171
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQA 215
++ STL LT + + ++TC+A
Sbjct: 172 Y-SMSSTLTLTKDEYERHNSYTCEA 195
>pdb|2OM5|A Chain A, N-Terminal Fragment Of Human Tax1
Length = 381
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 52/188 (27%), Positives = 74/188 (39%), Gaps = 19/188 (10%)
Query: 533 SEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHED---SDKVVGN 589
+ED+ + RF A Y++ G V L C GNP P I W D S +
Sbjct: 198 AEDTRLFAPSIKARFPAETYALV---GQQVTLECFAFGNPVPRIKWRKVDGSLSPQWTTA 254
Query: 590 SPNLTLLMTSDDLAGRYYCKA-SVMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARV 648
P L + S + G Y C+A + G V V + + T+ I G R
Sbjct: 255 EPTLQIPSVSFEDEGTYECEAENSKGRDTVQGRIIVQAQPEWLKVISDTEADI-GSNLRW 313
Query: 649 ECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNC 708
C+A P P V W GE + S + VL L+ S L + +S G+Y C
Sbjct: 314 GCAAAGKPRP-TVRWLRNGEPL--ASQNRVEVLAGDLR---FSKLSLEDS-----GMYQC 362
Query: 709 SVSNPYGS 716
N +G+
Sbjct: 363 VAENKHGT 370
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 74/357 (20%), Positives = 125/357 (35%), Gaps = 61/357 (17%)
Query: 148 DREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHH 207
+ ++ L C A PPA W GT M + V G + +++ P K
Sbjct: 21 EEQVLLAC-RARASPPATYRW-KMNGTEMKLEPGSRHQLVGG------NLVIMNPTKAQD 72
Query: 208 NTTFTCQAQN---TADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRLYCKAEANP 264
+ C A N T + R L +++ + + V + EG V L C A+
Sbjct: 73 AGVYQCLASNPVGTVVSREAILRFGFLQEFSKEERDPV----KAHEGWGVMLPCNPPAHY 128
Query: 265 SHMKYRWYINDQP--VP----------------AAASATEL--YLTNITRHQH---DSIV 301
+ YRW +N+ P +P A +A++L Y T H S+
Sbjct: 129 PGLSYRWLLNEFPNFIPTDGRHFVSQTTGNLYIARTNASDLGNYSCLATSHMDFSTKSVF 188
Query: 302 KCEVQVSVIGSN-RLVE---------------GTDVRLYCKAEANP-SHMKYRWYINDQP 344
Q+++ + RL G V L C A NP +K+R ++
Sbjct: 189 SKFAQLNLAAEDTRLFAPSIKARFPAETYALVGQQVTLECFAFGNPVPRIKWR-KVDGSL 247
Query: 345 VPAAASATELYLTNITRHQHDSIVKCEVHNDVGKSEDSETLDVTYGPRFRARPYSVQVDR 404
P +A + + +CE N G+ + V P + + D
Sbjct: 248 SPQWTTAEPTLQIPSVSFEDEGTYECEAENSKGRDTVQGRIIVQAQPEWLKVISDTEADI 307
Query: 405 GAGVNLLCDVDGNPAPEITWIHE-----DSDKVVGNSPNLTLLMTSDDLAGRYYCKA 456
G+ + C G P P + W+ ++V + +L S + +G Y C A
Sbjct: 308 GSNLRWGCAAAGKPRPTVRWLRNGEPLASQNRVEVLAGDLRFSKLSLEDSGMYQCVA 364
Score = 39.3 bits (90), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 45/187 (24%), Positives = 76/187 (40%), Gaps = 29/187 (15%)
Query: 101 DDARYQCQVSTGI-LGEPAIRSRFATL------TVLVPPDPPRIVQGDTLYTTEDREIEL 153
D Y C ++ + ++ S+FA L T L P +T Y +++ L
Sbjct: 168 DLGNYSCLATSHMDFSTKSVFSKFAQLNLAAEDTRLFAPSIKARFPAET-YALVGQQVTL 226
Query: 154 ECISANGKPPAEITW--IDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNTTF 211
EC A G P I W +DG S+ + TT + TL + T+
Sbjct: 227 ECF-AFGNPVPRIKWRKVDG--------------SLSPQWTTAEPTLQIPSVSFEDEGTY 271
Query: 212 TCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRLYCKAEANPSHMKYRW 271
C+A+N+ R + +++V+ P+ + VI G+++R C A P RW
Sbjct: 272 ECEAENSKGR--DTVQGRIIVQAQPE-WLKVISDTEADIGSNLRWGCAAAGKP-RPTVRW 327
Query: 272 YINDQPV 278
N +P+
Sbjct: 328 LRNGEPL 334
Score = 31.2 bits (69), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 41/203 (20%), Positives = 73/203 (35%), Gaps = 42/203 (20%)
Query: 34 PQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYAMIGSDEEGDYSL 92
P + A+VG +VTL C + ++W K D +L P + + +L
Sbjct: 213 PAETYALVGQQVTLECFAFGNPVPRIKWRKVDGSLSPQWTTA--------------EPTL 258
Query: 93 EIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIE 152
+I V +D+ Y+C+ G ++ R ++V P + L D E +
Sbjct: 259 QIPSVSFEDEGTYECEAENSK-GRDTVQGR-----IIVQAQP------EWLKVISDTEAD 306
Query: 153 LEC-----ISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHH 207
+ +A GKP + W+ R E + R + L +
Sbjct: 307 IGSNLRWGCAAAGKPRPTVRWL----------RNGEPLASQNRVEVLAGDLRFSKLSLED 356
Query: 208 NTTFTCQAQNTADRTYKVARLKL 230
+ + C A+N Y A L +
Sbjct: 357 SGMYQCVAENKHGTIYASAELAV 379
>pdb|1QGC|4 Chain 4, Structure Of The Complex Of An Fab Fragment Of A
Neutralizing Antibody With Foot And Mouth Disease Virus
Length = 438
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 62/257 (24%), Positives = 98/257 (38%), Gaps = 40/257 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGPH------RNL-SGF- 76
P +G R T+ CR +D +G + W + P NL SG
Sbjct: 4 LTQSPASLAVSLGQRATISCRASESVDSSGHSFMHWYQQKPGQPPKLLIYRASNLESGIP 63
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI---LGEPA----IRSRFATLTVL 129
DR++ GS D++L I PV DD A Y CQ S + G R+ A +
Sbjct: 64 DRFS--GSGSRTDFTLTIDPVEADDVATYYCQQSNEVPLTFGAGTKLDLKRADAAPTVSI 121
Query: 130 VPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASV 187
PP ++ G + C N P + W IDG+ N +
Sbjct: 122 FPPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQ 170
Query: 188 DGRRTT--VKSTLVLTPKKEHHNTTFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGS 245
D + +T + STL LT + + ++TC+A + +T +K + +V + G
Sbjct: 171 DSKDSTYSMSSTLTLTKDEYERHNSYTCEATH---KTSTSPIVKSFNRNEXEVMLVESGG 227
Query: 246 NRLVEGTDVRLYCKAEA 262
+ G ++L C A
Sbjct: 228 GLVKPGGSLKLSCTASG 244
>pdb|4HF5|L Chain L, Crystal Structure Of Fab 8f8 In Complex A H2n2 Influenza
Virus Hemagglutinin
Length = 218
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 40/152 (26%), Positives = 64/152 (42%), Gaps = 12/152 (7%)
Query: 70 HRNLSGFDRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFAT-LTV 128
HR DR++ GS SL I + +D+A Y C L PA+ T LTV
Sbjct: 54 HRPSGVPDRFS--GSKSGTSASLAISGLQSEDEADYYCAAWDDSLSGPAVVFGGGTKLTV 111
Query: 129 LVPPDPPRIVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVT 182
L P+ TL+ E++ L C+ ++ P A + W + V + V T
Sbjct: 112 L---GQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETT 168
Query: 183 EEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ + S L LTP++ + +++CQ
Sbjct: 169 TPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQ 200
>pdb|1NL0|L Chain L, Crystal Structure Of Human Factor Ix Gla Domain In Complex
Of An Inhibitory Antibody, 10c12
Length = 213
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 47/204 (23%), Positives = 78/204 (38%), Gaps = 23/204 (11%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPCRVIDKT---GVLQWTKDDFALGPH-------RNLSGF- 76
Q +P +A G +VT+ C + W + P + SG
Sbjct: 1 QSVLTQPPSVSAAPGQKVTISCSGSTSNIGNNYVSWYQQHPGKAPKLMIYDVSKRPSGVP 60
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL+I + +D+A Y C L E F T T L P+
Sbjct: 61 DRFS--GSKSGNSASLDISGLQSEDEADYYCAAWDDSLSE----FLFGTGTKLTVLGQPK 114
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 115 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 174
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 175 KYAASSYLSLTPEQWKSHKSYSCQ 198
>pdb|4FQQ|L Chain L, Crystal Structure Of Germline Antibody Pgt121-Gl Fab
pdb|4FQQ|A Chain A, Crystal Structure Of Germline Antibody Pgt121-Gl Fab
pdb|4FQQ|C Chain C, Crystal Structure Of Germline Antibody Pgt121-Gl Fab
pdb|4FQQ|E Chain E, Crystal Structure Of Germline Antibody Pgt121-Gl Fab
Length = 215
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 57/138 (41%), Gaps = 9/138 (6%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS+ +L I V D+A Y CQV P + LTVL P+ T
Sbjct: 63 GSNSGNTATLTISRVEAGDEADYYCQVWDSSSDHPWVFGGGTKLTVL---GQPKAAPSVT 119
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E++ L C+ ++ P A + W + V + V T + + S
Sbjct: 120 LFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASS 179
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 180 YLSLTPEQWKSHRSYSCQ 197
>pdb|3P30|L Chain L, Crystal Structure Of The Cluster Ii Fab 1281 In Complex
With Hiv-1 Gp41 Ectodomain
Length = 213
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 60/144 (41%), Gaps = 11/144 (7%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I + +D+A Y C L P + LTVL P+
Sbjct: 61 DRFS--GSKSGTSASLAISGLRSEDEADYYCAAWDDSLSGPYVFGAGTKLTVL---GQPK 115
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + + + V T +
Sbjct: 116 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPIKAGVETTTPSKQSNN 175
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 176 KYAASSYLSLTPEQWKSHRSYSCQ 199
>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 = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 47/204 (23%), Positives = 78/204 (38%), Gaps = 23/204 (11%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPCRVIDKT---GVLQWTKDDFALGPH-------RNLSGF- 76
Q +P +A G +VT+ C + W + P + SG
Sbjct: 1 QSVLTQPPSVSAAPGQKVTISCSGSTSNIGNNYVSWYQQHPGKAPKLMIYDVSKRPSGVP 60
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL+I + +D+A Y C L E F T T L P+
Sbjct: 61 DRFS--GSKSGNSASLDISGLQSEDEADYYCAAWDDSLSE----FLFGTGTKLTVLGQPK 114
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 115 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 174
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 175 KYAASSYLSLTPEQWKSHKSYSCQ 198
>pdb|4FRW|A Chain A, Crystal Structure Of Human Nectin-4 Extracellular Fragment
D1-D2
pdb|4FRW|B Chain B, Crystal Structure Of Human Nectin-4 Extracellular Fragment
D1-D2
pdb|4FRW|C Chain C, Crystal Structure Of Human Nectin-4 Extracellular Fragment
D1-D2
pdb|4FRW|D Chain D, Crystal Structure Of Human Nectin-4 Extracellular Fragment
D1-D2
pdb|4FRW|E Chain E, Crystal Structure Of Human Nectin-4 Extracellular Fragment
D1-D2
pdb|4FRW|F Chain F, Crystal Structure Of Human Nectin-4 Extracellular Fragment
D1-D2
Length = 218
Score = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 48/196 (24%), Positives = 72/196 (36%), Gaps = 33/196 (16%)
Query: 38 TAVVGSRVTLPCRVI----DKTGVLQWTKDDFALGPHRNLSGFDRYAM-IGSDEEG---- 88
T V+G LPC ++ G + W + D G +Y + + EG
Sbjct: 10 TVVLGQDAKLPCFYRGDSGEQVGQVAWARVDAGEGAQELALLHSKYGLHVSPAYEGRVEQ 69
Query: 89 --------DYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQG 140
D S+ + + D+ Y+C+VST G R R L VLVPP P + G
Sbjct: 70 PPPPRNPLDGSVLLRNAVQADEGEYECRVSTFPAGSFQARLR---LRVLVPPL-PSLNPG 125
Query: 141 DTLYTTEDREIELECISANGKPPAEITW---IDGTGTVMSNVRVTEEASVDGRRTTVKST 197
L + + C +A G P +TW + GT + + R V S
Sbjct: 126 PALEEGQGLTLAASC-TAEGSPAPSVTWDTEVKGT--------TSSRSFKHSRSAAVTSE 176
Query: 198 LVLTPKKEHHNTTFTC 213
L P + + TC
Sbjct: 177 FHLVPSRSMNGQPLTC 192
>pdb|3MLX|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With An Mn V3 Peptide
pdb|3MLX|M Chain M, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With An Mn V3 Peptide
Length = 211
Score = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 44/199 (22%), Positives = 78/199 (39%), Gaps = 24/199 (12%)
Query: 33 EPQDQTAVVGSRVTLPCRVIDKT---GVLQWTKDDFALGPH-------RNLSGF-DRYAM 81
+P +A G +VT+ C ++ W + P + SG DR++
Sbjct: 5 QPPSVSAAPGQKVTISCSGSSSNIGNNMVSWYQQHPGTAPKLLIYENSKRPSGIPDRFS- 63
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
GS +L I + D+A Y C G ++R+ F T L P+
Sbjct: 64 -GSRSGTSATLGIIGLQTGDEAEYYCATWDG-----SLRTVFGGGTKLTVLSQPKAAPSV 117
Query: 142 TLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVK 195
TL+ E++ L C+ ++ P A + W + V + V T + +
Sbjct: 118 TLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVRAGVETTTPSKQSNNKYAAS 177
Query: 196 STLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 178 SYLSLTPEQWKSHRSYSCQ 196
>pdb|1GGI|L Chain L, Crystal Structure Of An Hiv-1 Neutralizing Antibody 50.1
In Complex With Its V3 Loop Peptide Antigen
pdb|1GGI|M Chain M, Crystal Structure Of An Hiv-1 Neutralizing Antibody 50.1
In Complex With Its V3 Loop Peptide Antigen
Length = 218
Score = 40.4 bits (93), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 56/210 (26%), Positives = 84/210 (40%), Gaps = 37/210 (17%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGP----HRN---LSGF- 76
P +G R T+ CR +D G L W + P +R+ +SG
Sbjct: 4 LTQSPGSLAVSLGQRATISCRASESVDDDGNSFLHWYQQKPGQPPKLLIYRSSNLISGIP 63
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-L 129
DR++ GS D++L I PV DD A Y CQ S G + I+ A TV +
Sbjct: 64 DRFS--GSGSRTDFTLTINPVEADDVATYYCQQSNEDPLTFGAGTKLEIKRADAAPTVSI 121
Query: 130 VPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASV 187
PP ++ G + C N P + W IDG+ N +
Sbjct: 122 FPPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQ 170
Query: 188 DGRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
D + +T + STL LT + + ++TC+A
Sbjct: 171 DSKDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|1GGB|L Chain L, Major Antigen-Induced Domain Rearrangements In An Antibody
pdb|1GGC|L Chain L, Major Antigen-Induced Domain Rearrangements In An Antibody
Length = 215
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 56/210 (26%), Positives = 84/210 (40%), Gaps = 37/210 (17%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGP----HRN---LSGF- 76
P +G R T+ CR +D G L W + P +R+ +SG
Sbjct: 4 LTQSPGSLAVSLGQRATISCRASESVDDDGNSFLHWYQQKPGQPPKLLIYRSSNLISGIP 63
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-L 129
DR++ GS D++L I PV DD A Y CQ S G + I+ A TV +
Sbjct: 64 DRFS--GSGSRTDFTLTINPVEADDVATYYCQQSNEDPLTFGAGTKLEIKRADAAPTVSI 121
Query: 130 VPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASV 187
PP ++ G + C N P + W IDG+ N +
Sbjct: 122 FPPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQ 170
Query: 188 DGRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
D + +T + STL LT + + ++TC+A
Sbjct: 171 DSKDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|2VL5|B Chain B, Structure Of Anti-Collagen Type Ii Fab Ciic1
pdb|2VL5|D Chain D, Structure Of Anti-Collagen Type Ii Fab Ciic1
pdb|2Y5T|B Chain B, Crystal Structure Of The Pathogenic Autoantibody Ciic1 In
Complex With The Triple-Helical C1 Peptide
Length = 218
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 51/208 (24%), Positives = 75/208 (36%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGPH------RNLSGFDR 78
P T +G R T+ CR +D G ++W + P NL
Sbjct: 4 LTQSPASLTVSLGQRATISCRASKSVDSYGNSFMEWYQQKPGQPPKLLIYRASNLESGIP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVP 131
GS D++L I PV DD A Y CQ S G R+ A + P
Sbjct: 64 ARFSGSGSRTDFTLTINPVEADDVATYYCQQSNEDPYTFGGGTKLEIKRADAAPTVSIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W ID G+ N + D
Sbjct: 124 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDS 172
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 173 KDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>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 = 39.7 bits (91), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 49/203 (24%), Positives = 84/203 (41%), Gaps = 31/203 (15%)
Query: 542 TYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNS----------- 590
T P F SV V G+ + G P PE++W + +V+ S
Sbjct: 3 TQAPTFTQPLQSVVVLEGSTATFEAHISGFPVPEVSWFRD--GQVISTSTLPGVQISFSD 60
Query: 591 --PNLTLLMTSDDLAGRYYCKASVMGFPEVGAEATVYLKGR---PTIISHRTQFGI-PGD 644
LT+ + +GRY KA+ G + + A + +K P + + G
Sbjct: 61 GRAKLTIPAVTKANSGRYSLKAT-NGSGQATSTAELLVKAETAPPNFVQRLQSMTVRQGS 119
Query: 645 TARVECSAFSIPPPEKVTWSYR-GEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHF 703
R++ IP P V YR G EI SS D+ + + EG +L+I E+ +
Sbjct: 120 QVRLQVRVTGIPTP--VVKFYRDGAEI--QSSLDFQISQ----EGDLYSLLIAEAYPEDS 171
Query: 704 GVYNCSVSNPYG--SDSVEIMLK 724
G Y+ + +N G + + E++++
Sbjct: 172 GTYSVNATNSVGRATSTAELLVQ 194
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 61/160 (38%), Gaps = 25/160 (15%)
Query: 388 TYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNS----------- 436
T P F SV V G+ + G P PE++W + +V+ S
Sbjct: 3 TQAPTFTQPLQSVVVLEGSTATFEAHISGFPVPEVSWFRD--GQVISTSTLPGVQISFSD 60
Query: 437 --PNLTLLMTSDDLAGRYYCKASVMGFPEVGAEATVYLKGR---PTIISHRTQFGI-PGD 490
LT+ + +GRY KA+ G + + A + +K P + + G
Sbjct: 61 GRAKLTIPAVTKANSGRYSLKAT-NGSGQATSTAELLVKAETAPPNFVQRLQSMTVRQGS 119
Query: 491 TARVECSAFSIPPPEKVTWSYR-GEEIGVGSSDDYSVHND 529
R++ IP P V YR G EI SS D+ + +
Sbjct: 120 QVRLQVRVTGIPTP--VVKFYRDGAEI--QSSLDFQISQE 155
>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 = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 32/115 (27%), Positives = 48/115 (41%), Gaps = 12/115 (10%)
Query: 337 RWY------INDQPVPAAASATELYLTNITRHQHDS-IVKCEVHNDVGKSEDSETLDVTY 389
+WY I + ++ LT +T Q D + C N+VG+ E S L +
Sbjct: 40 KWYRFGKELIQSRKYKMSSDGRTHTLTVMTEEQEDEGVYTCIATNEVGEVETSSKLLLQA 99
Query: 390 GPRFR-ARPYSVQVDRGAGVNLLCDVD--GNPAPEITWIHEDSDKVVGNSPNLTL 441
P+F P + G L V G P P +TW H K++ NS N+T+
Sbjct: 100 TPQFHPGYPLKEKYYGAVGSTLRLHVMYIGRPVPAMTWFH--GQKLLQNSENITI 152
Score = 38.5 bits (88), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 40/186 (21%), Positives = 70/186 (37%), Gaps = 20/186 (10%)
Query: 544 GPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVV---------GNSPNLT 594
P R V G L C + G P P+I W + + G + LT
Sbjct: 7 APGIRKEMKDVTTKLGEAAQLSCQIVGRPLPDIKWYRFGKELIQSRKYKMSSDGRTHTLT 66
Query: 595 LLMTSDDLAGRYYCKASVMGFPEVGAEATVYLKGRPTIIS----HRTQFGIPGDTARVEC 650
++ + G Y C A+ EV + + L+ P +G G T R+
Sbjct: 67 VMTEEQEDEGVYTCIAT-NEVGEVETSSKLLLQATPQFHPGYPLKEKYYGAVGSTLRLHV 125
Query: 651 SAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCSV 710
P P +TW + G+++ + +S++ ++ E ++ R H G Y +
Sbjct: 126 MYIGRPVP-AMTW-FHGQKL-LQNSENITIENT---EHYTHLVMKNVQRKTHAGKYKVQL 179
Query: 711 SNPYGS 716
SN +G+
Sbjct: 180 SNVFGT 185
Score = 34.7 bits (78), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 33/152 (21%), Positives = 58/152 (38%), Gaps = 17/152 (11%)
Query: 390 GPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVV---------GNSPNLT 440
P R V G L C + G P P+I W + + G + LT
Sbjct: 7 APGIRKEMKDVTTKLGEAAQLSCQIVGRPLPDIKWYRFGKELIQSRKYKMSSDGRTHTLT 66
Query: 441 LLMTSDDLAGRYYCKASVMGFPEVGAEATVYLKGRPTIIS----HRTQFGIPGDTARVEC 496
++ + G Y C A+ EV + + L+ P +G G T R+
Sbjct: 67 VMTEEQEDEGVYTCIAT-NEVGEVETSSKLLLQATPQFHPGYPLKEKYYGAVGSTLRLHV 125
Query: 497 SAFSIPPPEKVTWSYRGEEIGVGSSDDYSVHN 528
P P +TW + G+++ + +S++ ++ N
Sbjct: 126 MYIGRPVP-AMTW-FHGQKL-LQNSENITIEN 154
>pdb|1KOA|A Chain A, Twitchin Kinase Fragment (C.Elegans), Autoregulated
Protein Kinase And Immunoglobulin Domains
Length = 491
Score = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 31/75 (41%), Gaps = 9/75 (12%)
Query: 391 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSD---------KVVGNSPNLTL 441
PRF +PY +V G N C V + P +TW +D + + GN LT+
Sbjct: 377 PRFIVKPYGTEVGEGQSANFYCRVIASSPPVVTWHKDDRELKQSVKYMKRYNGNDYGLTI 436
Query: 442 LMTSDDLAGRYYCKA 456
D G Y +A
Sbjct: 437 NRVKGDDKGEYTVRA 451
Score = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 31/75 (41%), Gaps = 9/75 (12%)
Query: 545 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSD---------KVVGNSPNLTL 595
PRF +PY +V G N C V + P +TW +D + + GN LT+
Sbjct: 377 PRFIVKPYGTEVGEGQSANFYCRVIASSPPVVTWHKDDRELKQSVKYMKRYNGNDYGLTI 436
Query: 596 LMTSDDLAGRYYCKA 610
D G Y +A
Sbjct: 437 NRVKGDDKGEYTVRA 451
>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 = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 49/203 (24%), Positives = 84/203 (41%), Gaps = 31/203 (15%)
Query: 542 TYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNS----------- 590
T P F SV V G+ + G P PE++W + +V+ S
Sbjct: 3 TQAPTFTQPLQSVVVLEGSTATFEAHISGFPVPEVSWFRD--GQVISTSTLPGVQISFSD 60
Query: 591 --PNLTLLMTSDDLAGRYYCKASVMGFPEVGAEATVYLKGR---PTIISHRTQFGI-PGD 644
LT+ + +GRY KA+ G + + A + +K P + + G
Sbjct: 61 GRAKLTIPAVTKANSGRYSLKAT-NGSGQATSTAELLVKAETAPPNFVQRLQSMTVRQGS 119
Query: 645 TARVECSAFSIPPPEKVTWSYR-GEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHF 703
R++ IP P V YR G EI SS D+ + + EG +L+I E+ +
Sbjct: 120 QVRLQVRVTGIPTP--VVKFYRDGAEI--QSSLDFQISQ----EGDLYSLLIAEAYPEDS 171
Query: 704 GVYNCSVSNPYG--SDSVEIMLK 724
G Y+ + +N G + + E++++
Sbjct: 172 GTYSVNATNSVGRATSTAELLVQ 194
Score = 30.8 bits (68), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 61/160 (38%), Gaps = 25/160 (15%)
Query: 388 TYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNS----------- 436
T P F SV V G+ + G P PE++W + +V+ S
Sbjct: 3 TQAPTFTQPLQSVVVLEGSTATFEAHISGFPVPEVSWFRD--GQVISTSTLPGVQISFSD 60
Query: 437 --PNLTLLMTSDDLAGRYYCKASVMGFPEVGAEATVYLKGR---PTIISHRTQFGI-PGD 490
LT+ + +GRY KA+ G + + A + +K P + + G
Sbjct: 61 GRAKLTIPAVTKANSGRYSLKAT-NGSGQATSTAELLVKAETAPPNFVQRLQSMTVRQGS 119
Query: 491 TARVECSAFSIPPPEKVTWSYR-GEEIGVGSSDDYSVHND 529
R++ IP P V YR G EI SS D+ + +
Sbjct: 120 QVRLQVRVTGIPTP--VVKFYRDGAEI--QSSLDFQISQE 155
>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 = 39.7 bits (91), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 31/75 (41%), Gaps = 9/75 (12%)
Query: 391 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSD---------KVVGNSPNLTL 441
PRF +PY +V G N C V + P +TW +D + + GN LT+
Sbjct: 483 PRFIVKPYGTEVGEGQSANFYCRVIASSPPVVTWHKDDRELKQSVKYMKRYNGNDYGLTI 542
Query: 442 LMTSDDLAGRYYCKA 456
D G Y +A
Sbjct: 543 NRVKGDDKGEYTVRA 557
Score = 39.7 bits (91), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 31/75 (41%), Gaps = 9/75 (12%)
Query: 545 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSD---------KVVGNSPNLTL 595
PRF +PY +V G N C V + P +TW +D + + GN LT+
Sbjct: 483 PRFIVKPYGTEVGEGQSANFYCRVIASSPPVVTWHKDDRELKQSVKYMKRYNGNDYGLTI 542
Query: 596 LMTSDDLAGRYYCKA 610
D G Y +A
Sbjct: 543 NRVKGDDKGEYTVRA 557
>pdb|2XQB|L Chain L, Crystal Structure Of Anti-Il-15 Antibody In Complex With
Human Il-15
Length = 211
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 49/199 (24%), Positives = 78/199 (39%), Gaps = 24/199 (12%)
Query: 33 EPQDQTAVVGSRVTLPCRVID---KTGVLQWTKDDFALGP-------HRNLSGF-DRYAM 81
+P + G RVT+ C K + W + P R SG DR++
Sbjct: 2 QPPSASGTPGQRVTISCSGSTSNLKRNYVYWYQQLPGTAPKLLIYRDRRRPSGVPDRFS- 60
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
GS SL I + +D+A Y C L E + LTVL P P +
Sbjct: 61 -GSKSGTSASLAISGLRSEDEADYYCAWYDRELSE-WVFGGGTKLTVLQPKAAPSV---- 114
Query: 142 TLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVK 195
TL+ E++ L C+ ++ P A + W + V + V T + +
Sbjct: 115 TLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAAS 174
Query: 196 STLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 175 SYLSLTPEQWKSHRSYSCQ 193
>pdb|3H42|L Chain L, Crystal Structure Of Pcsk9 In Complex With Fab From Ldlr
Competitive Antibody
Length = 217
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 47/200 (23%), Positives = 76/200 (38%), Gaps = 24/200 (12%)
Query: 33 EPQDQTAVVGSRVTLPC----RVIDKTGVLQWTKDDFALGPHRNLSGF--------DRYA 80
+P + G RVT+ C I + W + P +SG DR++
Sbjct: 6 QPPSVSGAPGQRVTISCTGSSSNIGAGYDVHWYQQLPGTAPKLLISGNSNRPSGVPDRFS 65
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQG 140
GS SL I + +D+A Y CQ L S F T L P+
Sbjct: 66 --GSKSGTSASLAITGLQAEDEADYYCQSYDSSLS----GSVFGGGTKLTVLGQPKAAPS 119
Query: 141 DTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTV 194
TL+ E++ L C+ ++ P A + W + V + V T + +
Sbjct: 120 VTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAA 179
Query: 195 KSTLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 180 SSYLSLTPEQWKSHRSYSCQ 199
>pdb|3MJ7|B Chain B, Crystal Structure Of The Complex Of Jaml And Coxsackie And
Adenovirus Receptor, Car
Length = 225
Score = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 37/147 (25%), Positives = 63/147 (42%), Gaps = 12/147 (8%)
Query: 25 YREQKFAMEPQDQTAVVGSRVTLPC--RVIDKTGVLQWTKDDFALGPHRNLSGFDRYAMI 82
Y KF + P+DQ + + P +++D+ +L ++ D + +L G R
Sbjct: 21 YLPCKFTLSPEDQGPLDIEWLISPSDNQIVDQVIIL-YSGDKIYDNYYPDLKG--RVHFT 77
Query: 83 GSD-EEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
+D + GD S+ + + L D YQC+V P + ++ LTVLV P R
Sbjct: 78 SNDVKSGDASINVTNLQLSDIGTYQCKVKKA----PGVANKKFLLTVLVKPSGTRCFVDG 133
Query: 142 TLYTTEDREIELECISANGKPPAEITW 168
+ D +L+C G P + W
Sbjct: 134 SEEIGND--FKLKCEPKEGSLPLQFEW 158
>pdb|3K0W|A Chain A, Crystal Structure Of The Tandem Ig-Like C2-Type 2 Domains
Of The Human Mucosa-Associated Lymphoid Tissue Lymphoma
Translocation Protein 1
Length = 218
Score = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 38/177 (21%), Positives = 76/177 (42%), Gaps = 39/177 (22%)
Query: 245 SNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASA-----------TELYLTNIT 293
S ++ G V+L C+A +P ++Y+W+ ++ +P ++ Y+ +
Sbjct: 27 SKAVLAGQFVKLCCRATGHP-FVQYQWFKMNKEIPNGNTSELIFNAVHVKDAGFYVCRVN 85
Query: 294 RH------QHDSIVKCEV----QVSVIG-------------SNRLVEGTDVRLYCKAEAN 330
+ Q + C++ Q SV G S +L+ G+ + L C A +
Sbjct: 86 NNFTFEFSQWSQLDVCDIPESFQRSVDGVSESKLQICVEPTSQKLMPGSTLVLQCVAVGS 145
Query: 331 PSHMKYRWYINDQPVPAAASATELYLTNITRHQHDSIVKCEVHNDVGKSEDSETLDV 387
P Y+W+ N+ +P +LY+ +H C V+ND S+DS+ +++
Sbjct: 146 PI-PHYQWFKNE--LPLTHETKKLYMVPYVDLEHQGTYWCHVYND-RDSQDSKKVEI 198
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 47/207 (22%), Positives = 71/207 (34%), Gaps = 45/207 (21%)
Query: 541 VTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSD 600
V G + P S V G V L C G+P + W + + GN+ L
Sbjct: 15 VPRGSKITVNPESKAVLAGQFVKLCCRATGHPFVQYQWFKMNKEIPNGNTSELIFNAVHV 74
Query: 601 DLAGRYYCKAS--------------VMGFPEVG-------AEATVYLKGRPTIISHRTQF 639
AG Y C+ + V PE +E+ + + PT +Q
Sbjct: 75 KDAGFYVCRVNNNFTFEFSQWSQLDVCDIPESFQRSVDGVSESKLQICVEPT-----SQK 129
Query: 640 GIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESR 699
+PG T ++C A P P + + E+ PL K ++
Sbjct: 130 LMPGSTLVLQCVAVGSPIPH---YQWFKNEL-------------PLTHETKKLYMVPYVD 173
Query: 700 HDHFGVYNCSVSN---PYGSDSVEIML 723
+H G Y C V N S VEI++
Sbjct: 174 LEHQGTYWCHVYNDRDSQDSKKVEIII 200
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 33/139 (23%), Positives = 49/139 (35%), Gaps = 26/139 (18%)
Query: 387 VTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSD 446
V G + P S V G V L C G+P + W + + GN+ L
Sbjct: 15 VPRGSKITVNPESKAVLAGQFVKLCCRATGHPFVQYQWFKMNKEIPNGNTSELIFNAVHV 74
Query: 447 DLAGRYYCKAS--------------VMGFPEVG-------AEATVYLKGRPTIISHRTQF 485
AG Y C+ + V PE +E+ + + PT +Q
Sbjct: 75 KDAGFYVCRVNNNFTFEFSQWSQLDVCDIPESFQRSVDGVSESKLQICVEPT-----SQK 129
Query: 486 GIPGDTARVECSAFSIPPP 504
+PG T ++C A P P
Sbjct: 130 LMPGSTLVLQCVAVGSPIP 148
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 28/133 (21%), Positives = 54/133 (40%), Gaps = 19/133 (14%)
Query: 312 SNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASATELYLTNITRHQHDSIVKCE 371
S ++ G V+L C+A +P ++Y+W+ ++ +P ++ ++ N + C
Sbjct: 27 SKAVLAGQFVKLCCRATGHP-FVQYQWFKMNKEIPNGNTSELIF--NAVHVKDAGFYVCR 83
Query: 372 VHNDVG-KSEDSETLDVTYGPRFRAR---------------PYSVQVDRGAGVNLLCDVD 415
V+N+ + LDV P R P S ++ G+ + L C
Sbjct: 84 VNNNFTFEFSQWSQLDVCDIPESFQRSVDGVSESKLQICVEPTSQKLMPGSTLVLQCVAV 143
Query: 416 GNPAPEITWIHED 428
G+P P W +
Sbjct: 144 GSPIPHYQWFKNE 156
>pdb|3JZ7|A Chain A, Crystal Structure Of The Extracellular Domains Of
Coxsackie & Adenovirus Receptor From Mouse (Mcar)
Length = 214
Score = 38.9 bits (89), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 37/147 (25%), Positives = 63/147 (42%), Gaps = 12/147 (8%)
Query: 25 YREQKFAMEPQDQTAVVGSRVTLPC--RVIDKTGVLQWTKDDFALGPHRNLSGFDRYAMI 82
Y KF + P+DQ + + P +++D+ +L ++ D + +L G R
Sbjct: 19 YLPCKFTLSPEDQGPLDIEWLISPSDNQIVDQVIIL-YSGDKIYDNYYPDLKG--RVHFT 75
Query: 83 GSD-EEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
+D + GD S+ + + L D YQC+V P + ++ LTVLV P R
Sbjct: 76 SNDVKSGDASINVTNLQLSDIGTYQCKVKKA----PGVANKKFLLTVLVKPSGTRCFVDG 131
Query: 142 TLYTTEDREIELECISANGKPPAEITW 168
+ D +L+C G P + W
Sbjct: 132 SEEIGND--FKLKCEPKEGSLPLQFEW 156
>pdb|1FHG|A Chain A, High Resolution Refinement Of Telokin
Length = 154
Score = 38.9 bits (89), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 40/94 (42%), Gaps = 9/94 (9%)
Query: 36 DQTAVVGSRVTLPCRVIDKTG-VLQWTKDDFALGPHRNLSGFDRYAMIGSDEEGDYSLEI 94
D V GS C+V + W KDD + R+ I DEEG+ SL I
Sbjct: 50 DMEVVEGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHF-------QIDYDEEGNCSLTI 102
Query: 95 YPVMLDDDARYQCQVSTGILGEPAIRSRFATLTV 128
V DDDA+Y C+ + LGE + T+
Sbjct: 103 SEVCGDDDAKYTCK-AVNSLGEATCTAELLVETM 135
Score = 34.3 bits (77), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 39/96 (40%), Gaps = 11/96 (11%)
Query: 391 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDS----------DKVVGNSPNLT 440
P F ++V G+ C V+G P PE+ W +D+ D + +LT
Sbjct: 42 PYFTKTILDMEVVEGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHFQIDYDEEGNCSLT 101
Query: 441 LLMTSDDLAGRYYCKA-SVMGFPEVGAEATVYLKGR 475
+ D +Y CKA + +G AE V G+
Sbjct: 102 ISEVCGDDDAKYTCKAVNSLGEATCTAELLVETMGK 137
Score = 34.3 bits (77), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 39/96 (40%), Gaps = 11/96 (11%)
Query: 545 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDS----------DKVVGNSPNLT 594
P F ++V G+ C V+G P PE+ W +D+ D + +LT
Sbjct: 42 PYFTKTILDMEVVEGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHFQIDYDEEGNCSLT 101
Query: 595 LLMTSDDLAGRYYCKA-SVMGFPEVGAEATVYLKGR 629
+ D +Y CKA + +G AE V G+
Sbjct: 102 ISEVCGDDDAKYTCKAVNSLGEATCTAELLVETMGK 137
>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 = 38.5 bits (88), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 40/94 (42%), Gaps = 9/94 (9%)
Query: 36 DQTAVVGSRVTLPCRVIDKTG-VLQWTKDDFALGPHRNLSGFDRYAMIGSDEEGDYSLEI 94
D V GS C+V + W KDD + R+ I DEEG+ SL I
Sbjct: 50 DMDVVEGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHF-------QIDYDEEGNCSLTI 102
Query: 95 YPVMLDDDARYQCQVSTGILGEPAIRSRFATLTV 128
V DDDA+Y C+ + LGE + T+
Sbjct: 103 SEVCGDDDAKYTCK-AVNSLGEATCTAELLVETM 135
Score = 33.1 bits (74), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 38/96 (39%), Gaps = 11/96 (11%)
Query: 391 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDS----------DKVVGNSPNLT 440
P F + V G+ C V+G P PE+ W +D+ D + +LT
Sbjct: 42 PYFTKTILDMDVVEGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHFQIDYDEEGNCSLT 101
Query: 441 LLMTSDDLAGRYYCKA-SVMGFPEVGAEATVYLKGR 475
+ D +Y CKA + +G AE V G+
Sbjct: 102 ISEVCGDDDAKYTCKAVNSLGEATCTAELLVETMGK 137
Score = 33.1 bits (74), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 38/96 (39%), Gaps = 11/96 (11%)
Query: 545 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDS----------DKVVGNSPNLT 594
P F + V G+ C V+G P PE+ W +D+ D + +LT
Sbjct: 42 PYFTKTILDMDVVEGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHFQIDYDEEGNCSLT 101
Query: 595 LLMTSDDLAGRYYCKA-SVMGFPEVGAEATVYLKGR 629
+ D +Y CKA + +G AE V G+
Sbjct: 102 ISEVCGDDDAKYTCKAVNSLGEATCTAELLVETMGK 137
>pdb|2ZG2|A Chain A, Crystal Structure Of Two N-Terminal Domains Of Native
Siglec-5
Length = 216
Score = 38.5 bits (88), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 42/156 (26%), Positives = 64/156 (41%), Gaps = 22/156 (14%)
Query: 78 RYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRI 137
R+ ++G ++ + SL I ++D Y +V G + + + L V + P I
Sbjct: 71 RFRLLGDVQKKNCSLSIGDARMEDTGSYFFRVERGRDVKYSYQQNKLNLEVTALIEKPDI 130
Query: 138 VQGDTLYTTEDREIELECI---SANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTV 194
+ L + R L C S PP +W TG +S + TT
Sbjct: 131 HFLEPLES--GRPTRLSCSLPGSCEAGPPLTFSW---TGNALSPL---------DPETTR 176
Query: 195 KSTLVLTPKKEHHNTTFTCQ-----AQNTADRTYKV 225
S L LTP+ E H T TCQ AQ T +RT ++
Sbjct: 177 SSELTLTPRPEDHGTNLTCQMKRQGAQVTTERTVQL 212
>pdb|2ZG1|A Chain A, Crystal Structure Of Two N-Terminal Domains Of Siglec-5 In
Complex With 6'-Sialyllactose
pdb|2ZG3|A Chain A, Crystal Structure Of Two N-terminal Domains Of Native
Siglec-5 In Complex With 3'-sialyllactose
Length = 214
Score = 38.5 bits (88), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 42/156 (26%), Positives = 64/156 (41%), Gaps = 22/156 (14%)
Query: 78 RYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRI 137
R+ ++G ++ + SL I ++D Y +V G + + + L V + P I
Sbjct: 70 RFRLLGDVQKKNCSLSIGDARMEDTGSYFFRVERGRDVKYSYQQNKLNLEVTALIEKPDI 129
Query: 138 VQGDTLYTTEDREIELECI---SANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTV 194
+ L + R L C S PP +W TG +S + TT
Sbjct: 130 HFLEPLES--GRPTRLSCSLPGSCEAGPPLTFSW---TGNALSPL---------DPETTR 175
Query: 195 KSTLVLTPKKEHHNTTFTCQ-----AQNTADRTYKV 225
S L LTP+ E H T TCQ AQ T +RT ++
Sbjct: 176 SSELTLTPRPEDHGTNLTCQMKRQGAQVTTERTVQL 211
>pdb|3E8U|L Chain L, Crystal Structure And Thermodynamic Analysis Of Diagnostic
Fab 106.3 Complexed With Bnp 5-13 (C10a) Reveal Basis Of
Selective Molecular Recognition
Length = 216
Score = 38.5 bits (88), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 50/197 (25%), Positives = 77/197 (39%), Gaps = 33/197 (16%)
Query: 41 VGSRVTLPCRV---IDKTG--VLQWTKDD------FALGPHRNLSGFDRYAMIGSDEEGD 89
+G R T+ C+ +D G L W + F + NL GS D
Sbjct: 15 LGQRATISCKASQSVDYNGDSYLNWYQQKPGQPPKFLIYAASNLESGIPARFSGSGSGTD 74
Query: 90 YSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LVPPDPPRIVQGDT 142
++L I+PV +D A Y CQ S G + I+ A TV + PP ++ G
Sbjct: 75 FNLNIHPVEEEDAATYYCQQSNEDPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGA 134
Query: 143 LYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTL 198
+ C N P + W ID G+ N + D + +T + STL
Sbjct: 135 ---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSSTL 183
Query: 199 VLTPKKEHHNTTFTCQA 215
LT + + ++TC+A
Sbjct: 184 TLTKDEYERHNSYTCEA 200
>pdb|1NCT|A Chain A, Titin Module M5, N-Terminally Extended, Nmr
pdb|1NCU|A Chain A, Titin Module M5, N-Terminally Extended, Nmr
Length = 106
Score = 38.5 bits (88), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 388 TYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHE 427
T R +P S+ V G CD DG P P +TW+ +
Sbjct: 12 TLAARILTKPRSMTVYEGESARFSCDTDGEPVPTVTWLRK 51
Score = 38.5 bits (88), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 542 TYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHE 581
T R +P S+ V G CD DG P P +TW+ +
Sbjct: 12 TLAARILTKPRSMTVYEGESARFSCDTDGEPVPTVTWLRK 51
>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 = 38.1 bits (87), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 50/206 (24%), Positives = 80/206 (38%), Gaps = 32/206 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGVLQW--TKDDFALGPHRNLSGF------DRYA 80
+ P +A VG RVT+ C + + W K A P L+ + R++
Sbjct: 3 QLTQSPSSLSASVGDRVTITCSASSQVNHMFWYQQKPGKAPKPWIYLTSYLASGVPSRFS 62
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVSTG---ILGEPA----IRSRFATLTVLVPPD 133
GS DY+L I + +D A Y CQ +G G+ R+ A + PP
Sbjct: 63 --GSGSGTDYTLTISSLQPEDFATYYCQQWSGNPWTFGQGTKVEIKRADAAPTVSIFPPS 120
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRR 191
++ G + C N P + W ID G+ N + D +
Sbjct: 121 SEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKD 169
Query: 192 TT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 170 STYSMSSTLTLTKDEYERHNSYTCEA 195
>pdb|3DGG|A Chain A, Crystal Structure Of Fabox108
pdb|3DGG|C Chain C, Crystal Structure Of Fabox108
Length = 217
Score = 38.1 bits (87), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 49/207 (23%), Positives = 76/207 (36%), Gaps = 32/207 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV---IDKTGV--LQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ CR + +G + W + P NL
Sbjct: 4 LTQSPASLAVSLGQRATISCRASKSVSTSGYSYMHWYQQKPGQPPKLLIYLASNLESGVP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPA------IRSRFATLTVLVPP 132
GS D++L I+PV +D A Y CQ S +L A R+ A + PP
Sbjct: 64 ARFSGSGSGTDFTLNIHPVEEEDAATYYCQHSRELLTFGAGTKLELKRADAAPTVSIFPP 123
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGR 190
++ G + C N P + W IDG+ N + D +
Sbjct: 124 SSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSK 172
Query: 191 RTT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 173 DSTYSMSSTLTLTKDEYERHNSYTCEA 199
>pdb|3BSZ|L Chain L, Crystal Structure Of The Transthyretin-Retinol Binding
Protein-Fab Complex
pdb|3BSZ|M Chain M, Crystal Structure Of The Transthyretin-Retinol Binding
Protein-Fab Complex
Length = 215
Score = 38.1 bits (87), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 50/208 (24%), Positives = 73/208 (35%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ CR +D G + W + P NL
Sbjct: 4 LTQSPSSLAVSLGQRATISCRASESVDSYGNSFMHWYQQKPGQPPKLLIYRASNLESGIP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVP 131
GS D++L I PV DD A Y CQ S G R+ A + P
Sbjct: 64 ARFSGSGSRTDFTLTINPVEADDVATYYCQQSNEDPYTFGGGTKLEIKRADAAPTVSIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W ID G+ N + D
Sbjct: 124 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDS 172
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 173 KDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>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 = 38.1 bits (87), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 47/203 (23%), Positives = 81/203 (39%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNLSGFD-RYAMI---- 82
+ P +A VG RVT+ C+ G+ + W + P +S RY+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCKASQNVGINVAWYQQKPGKAPKSLISSASYRYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ + G + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYFCQQYDTYPFTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|4DGI|L Chain L, Structure Of Pom1 Fab Fragment Complexed With Human Prpc
Fragment 120- 230
Length = 213
Score = 37.7 bits (86), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 49/194 (25%), Positives = 74/194 (38%), Gaps = 33/194 (17%)
Query: 42 GSRVTLPCRVIDKTGV-LQWTKDDFALGPH-------RNLSGF-DRYAMIGSDEEGDYSL 92
G RV+ CR G + W + P ++SG R++ GS D++L
Sbjct: 16 GERVSFSCRASQNIGTSIHWYQQRTNESPRLIIKYASESISGIPSRFS--GSGSGTDFTL 73
Query: 93 EIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYT 145
I V +D A Y CQ S G R+ A + PP ++ G
Sbjct: 74 SINSVESEDIADYYCQQSNTWPYTFGGGTKLELKRADAAPTVSIFPPSSEQLTSGGA--- 130
Query: 146 TEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLT 201
+ C N P + W IDG+ N + E D + +T + STL LT
Sbjct: 131 ------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSETDQDSKDSTYSMSSTLTLT 182
Query: 202 PKKEHHNTTFTCQA 215
+ + T+TC+A
Sbjct: 183 KDEYERHNTYTCEA 196
>pdb|32C2|A Chain A, Structure Of An Activity Suppressing Fab Fragment To
Cytochrome P450 Aromatase
Length = 217
Score = 37.7 bits (86), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 49/207 (23%), Positives = 76/207 (36%), Gaps = 32/207 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKT-----GVLQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ CR G + W + P NL
Sbjct: 4 LTQSPASLAVSLGQRATISCRASKSVSTSGYGYMHWNQQKPGQPPRLLIYLVSNLESGVP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQ-----VSTGILGEPAIRSRFATLTV-LVPP 132
GS D++L I+PV +D A Y CQ ++ G + I+ A TV + PP
Sbjct: 64 ARFSGSGSGTDFTLNIHPVEEEDAATYYCQHIREPLTFGGGTKLEIKRADAAPTVSIFPP 123
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGR 190
++ G + C N P + W ID G+ N + D +
Sbjct: 124 SSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSK 172
Query: 191 RTT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 173 DSTYSMSSTLTLTKDEYERHNSYTCEA 199
>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 = 37.7 bits (86), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 82/202 (40%), Gaps = 33/202 (16%)
Query: 34 PQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPH--------RNLSGFDRYAMIGS 84
P+ + VG RVT+ C+ D + + W + P R++ DR+A GS
Sbjct: 8 PKFMSTSVGDRVTITCKASQDVSTAVVWYQQKPGQSPKLLIYWASTRHIGVPDRFA--GS 65
Query: 85 DEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRI 137
DY+L I V +D A Y CQ + G + I+ A TV + PP ++
Sbjct: 66 GSGTDYTLTISSVQAEDLALYYCQQHYSPPWTFGGGTKLEIKRADAAPTVSIFPPSSEQL 125
Query: 138 VQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT-- 193
G + C N P + W IDG+ N + D + +T
Sbjct: 126 TSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYS 174
Query: 194 VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 175 MSSTLTLTKDEYERHNSYTCEA 196
>pdb|2V5T|A Chain A, Crystal Structure Of Ncam2 Ig2-3
Length = 189
Score = 37.7 bits (86), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 40/192 (20%), Positives = 71/192 (36%), Gaps = 25/192 (13%)
Query: 547 FRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMT-------- 598
FR + +G ++C V +PAP ++W++ + + + +L
Sbjct: 5 FREVVSPQEFKQGEDAEVVCRVSSSPAPAVSWLYHNEEVTTISDNRFAMLANNNLQILNI 64
Query: 599 --SDDLAGRYYCKASVMGFPEVGAEATVYLKGRPTIISH-RTQFGIP---GDTARVECSA 652
SD+ G Y C+ V E+ + + P IS + F G+ C A
Sbjct: 65 NKSDE--GIYRCEGRVEARGEIDFRDIIVIVNVPPAISMPQKSFNATAERGEEMTFSCRA 122
Query: 653 FSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCSVSN 712
P P ++W G+ I E + +G + L +R + G Y C +N
Sbjct: 123 SGSPEP-AISWFRNGKLIEEN--------EKYILKGSNTELTVRNIINSDGGPYVCRATN 173
Query: 713 PYGSDSVEIMLK 724
G D + L+
Sbjct: 174 KAGEDEKQAFLQ 185
Score = 37.4 bits (85), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 36/157 (22%), Positives = 61/157 (38%), Gaps = 35/157 (22%)
Query: 489 GDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSD------------------DYSVHNDV 530
G+ A V C S P P V+W Y EE+ S + D ++
Sbjct: 17 GEDAEVVCRVSSSPAP-AVSWLYHNEEVTTISDNRFAMLANNNLQILNINKSDEGIYRCE 75
Query: 531 GKSEDSETLD-------VTYGPRFRA--RPYSVQVDRGAGVNLLCDVDGNPAPEITWIH- 580
G+ E +D V P + ++ +RG + C G+P P I+W
Sbjct: 76 GRVEARGEIDFRDIIVIVNVPPAISMPQKSFNATAERGEEMTFSCRASGSPEPAISWFRN 135
Query: 581 ----EDSDKVV--GNSPNLTLLMTSDDLAGRYYCKAS 611
E+++K + G++ LT+ + G Y C+A+
Sbjct: 136 GKLIEENEKYILKGSNTELTVRNIINSDGGPYVCRAT 172
Score = 35.0 bits (79), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 32/165 (19%), Positives = 66/165 (40%), Gaps = 16/165 (9%)
Query: 309 VIGSNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPA-----AASATELYLTNITRHQ 363
V+ +G D + C+ ++P+ Y N++ A A
Sbjct: 8 VVSPQEFKQGEDAEVVCRVSSSPAPAVSWLYHNEEVTTISDNRFAMLANNNLQILNINKS 67
Query: 364 HDSIVKCEVHNDV-GKSEDSETLDVTYGPRFRARP---YSVQVDRGAGVNLLCDVDGNPA 419
+ I +CE + G+ + + + + P + P ++ +RG + C G+P
Sbjct: 68 DEGIYRCEGRVEARGEIDFRDIIVIVNVPPAISMPQKSFNATAERGEEMTFSCRASGSPE 127
Query: 420 PEITWIH-----EDSDKVV--GNSPNLTLLMTSDDLAGRYYCKAS 457
P I+W E+++K + G++ LT+ + G Y C+A+
Sbjct: 128 PAISWFRNGKLIEENEKYILKGSNTELTVRNIINSDGGPYVCRAT 172
Score = 30.4 bits (67), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 29/138 (21%), Positives = 52/138 (37%), Gaps = 17/138 (12%)
Query: 393 FRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMT-------- 444
FR + +G ++C V +PAP ++W++ + + + +L
Sbjct: 5 FREVVSPQEFKQGEDAEVVCRVSSSPAPAVSWLYHNEEVTTISDNRFAMLANNNLQILNI 64
Query: 445 --SDDLAGRYYCKASVMGFPEVGAEATVYLKGRPTIISH-RTQFGIP---GDTARVECSA 498
SD+ G Y C+ V E+ + + P IS + F G+ C A
Sbjct: 65 NKSDE--GIYRCEGRVEARGEIDFRDIIVIVNVPPAISMPQKSFNATAERGEEMTFSCRA 122
Query: 499 FSIPPPEKVTWSYRGEEI 516
P P ++W G+ I
Sbjct: 123 SGSPEP-AISWFRNGKLI 139
>pdb|4GXU|N Chain N, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|P Chain P, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|R Chain R, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|T Chain T, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|V Chain V, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|X Chain X, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXV|L Chain L, Crystal Structure Of Anti-Influenza Virus Antibody 1f1
pdb|4GXV|M Chain M, Crystal Structure Of Anti-Influenza Virus Antibody 1f1
Length = 217
Score = 37.7 bits (86), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 59/144 (40%), Gaps = 11/144 (7%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I + +D+A Y C L + LTVL P+
Sbjct: 61 DRFS--GSKSGTSASLAISGLQSEDEAVYYCAAWDDSLSAHVVFGGGTKLTVL---GQPK 115
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 116 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 175
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 176 KYAASSYLSLTPEQWKSHRSYSCQ 199
>pdb|1H0D|A Chain A, Crystal Structure Of Human Angiogenin In Complex With Fab
Fragment Of Its Monoclonal Antibody Mab 26-2f
Length = 216
Score = 37.7 bits (86), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 50/208 (24%), Positives = 79/208 (37%), Gaps = 33/208 (15%)
Query: 34 PQDQTAVVGSRVTLPCRV---IDKTGV--LQWTKDDFALGPHRNLSGFDRYA------MI 82
P +G R T+ CR +D G+ + W + P +
Sbjct: 8 PASLAVSLGQRATISCRASESVDNYGISFMSWFQQKPGQPPKLLIYAASNQGSGVPARFS 67
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LVPPDPP 135
GS D+SL I+P+ DD A Y CQ S G + ++ A TV + PP
Sbjct: 68 GSGSGTDFSLNIHPMEEDDTAMYFCQQSKEVPLTFGAGTKLELKRADAAPTVSIFPPSSE 127
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W ID G+ N + D + +T
Sbjct: 128 QLTSGGA---------SVVCFLNNFYPKDINVRWKID--GSERQNGVLNSWTDQDSKDST 176
Query: 194 --VKSTLVLTPKKEHHNTTFTCQAQNTA 219
+ STL LT + + ++TC+A + A
Sbjct: 177 YSMSSTLTLTKDEYERHNSYTCEATHAA 204
>pdb|1AFV|L Chain L, Hiv-1 Capsid Protein (P24) Complex With Fab25.3
pdb|1AFV|M Chain M, Hiv-1 Capsid Protein (P24) Complex With Fab25.3
Length = 217
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 50/204 (24%), Positives = 78/204 (38%), Gaps = 33/204 (16%)
Query: 34 PQDQTAVVGSRVTLPCRV---IDKTGV--LQWTKDDFALGPH------RNLSGFDRYAMI 82
P +G R T+ CR +D G+ + W + P NL
Sbjct: 8 PASLAVSLGQRATISCRASESVDNYGISFMNWFQQKPGQPPKLLIYAASNLGSGVPARFS 67
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LVPPDPP 135
GS D+SL I+P+ +D A Y CQ S G + ++ A TV + PP
Sbjct: 68 GSGSGTDFSLNIHPMEEEDTAMYFCQQSKEVPLTFGAGTKVELKRADAAPTVSIFPPSSE 127
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W ID G+ N + D + +T
Sbjct: 128 QLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDST 176
Query: 194 --VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 177 YSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|3S97|C Chain C, Ptprz Cntn1 Complex
pdb|3S97|D Chain D, Ptprz Cntn1 Complex
Length = 201
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 52/130 (40%), Gaps = 20/130 (15%)
Query: 314 RLVEGTDVRLYCKAEAN-PSHMKYRWYINDQPVP--------AAASATELYLTNITRHQH 364
R+ EG + L C + P + YRW +N+ PV + + LY+ N+
Sbjct: 19 RVKEGKGMVLLCDPPYHFPDDLSYRWLLNEFPVFITMDKRRFVSQTNGNLYIANVEASDK 78
Query: 365 DSIVKCEVHN-DVGKSEDSETLDVTYGPRFRARPY---------SVQVDRGAGVNLLCDV 414
+ C V + + KS S+ + + P +PY V G V L C
Sbjct: 79 GN-YSCFVSSPSITKSVFSKFIPLIPIPERTTKPYPADIVVQFKDVYALMGQNVTLECFA 137
Query: 415 DGNPAPEITW 424
GNP P+I W
Sbjct: 138 LGNPVPDIRW 147
>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 = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 2/60 (3%)
Query: 390 GPRFRARPYS-VQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDL 448
GP F P + + G + C GNP PEI WI D VG+ P L + + L
Sbjct: 9 GPVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDG-TAVGDVPGLRQISSDGKL 67
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 2/60 (3%)
Query: 544 GPRFRARPYS-VQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDL 602
GP F P + + G + C GNP PEI WI D VG+ P L + + L
Sbjct: 9 GPVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDG-TAVGDVPGLRQISSDGKL 67
Score = 36.6 bits (83), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 14/72 (19%)
Query: 152 ELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTP------KKE 205
E+EC A+G P EI WI GT + +V + S DG+ LV P ++E
Sbjct: 29 EIEC-KASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGK-------LVFPPFRAEDYRQE 80
Query: 206 HHNTTFTCQAQN 217
H + C A+N
Sbjct: 81 VHAQVYACLARN 92
Score = 36.6 bits (83), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 37/147 (25%), Positives = 59/147 (40%), Gaps = 19/147 (12%)
Query: 321 VRLYCKAEANPSHMKYRWY------INDQPVPAAASATELYLTNITRHQHDSIVK----- 369
+ L C A+ P+ +RWY Q V ++ T I + D++V+
Sbjct: 236 ISLLCPAQGFPAP-SFRWYKFIEGTTRKQAVVLNDRVKQVSGTLIIK---DAVVEDSGKY 291
Query: 370 -CEVHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHED 428
C V+N VG L VT + P + VD G C GNP ++W+ +
Sbjct: 292 LCVVNNSVGGESVETVLTVTAPLSAKIDPPTQTVDFGRPAVFTCQYTGNPIKTVSWMKD- 350
Query: 429 SDKVVGNSPN-LTLLMTSDDLAGRYYC 454
K +G+S + L + + G Y C
Sbjct: 351 -GKAIGHSESVLRIESVKKEDKGMYQC 376
Score = 34.3 bits (77), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 40/79 (50%), Gaps = 5/79 (6%)
Query: 645 TARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFG 704
T + C A P P S+R + G++ +V+ + + + TLII+++ + G
Sbjct: 235 TISLLCPAQGFPAP-----SFRWYKFIEGTTRKQAVVLNDRVKQVSGTLIIKDAVVEDSG 289
Query: 705 VYNCSVSNPYGSDSVEIML 723
Y C V+N G +SVE +L
Sbjct: 290 KYLCVVNNSVGGESVETVL 308
Score = 31.2 bits (69), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 3/84 (3%)
Query: 526 VHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDK 585
V+N VG L VT + P + VD G C GNP ++W+ + K
Sbjct: 295 VNNSVGGESVETVLTVTAPLSAKIDPPTQTVDFGRPAVFTCQYTGNPIKTVSWMKD--GK 352
Query: 586 VVGNSPN-LTLLMTSDDLAGRYYC 608
+G+S + L + + G Y C
Sbjct: 353 AIGHSESVLRIESVKKEDKGMYQC 376
>pdb|2V5M|A Chain A, Structural Basis For Dscam Isoform Specificity
Length = 388
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 2/60 (3%)
Query: 390 GPRFRARPYS-VQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDL 448
GP F P + + G + C GNP PEI WI D VG+ P L + + L
Sbjct: 3 GPVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDG-TAVGDVPGLRQISSDGKL 61
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 26/60 (43%), Gaps = 2/60 (3%)
Query: 544 GPRFRARPYS-VQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDL 602
GP F P + + G + C GNP PEI WI D VG+ P L + + L
Sbjct: 3 GPVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDG-TAVGDVPGLRQISSDGKL 61
Score = 36.6 bits (83), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 34/72 (47%), Gaps = 14/72 (19%)
Query: 152 ELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTP------KKE 205
E+EC A+G P EI WI GT + +V + S DG+ LV P ++E
Sbjct: 23 EIEC-KASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGK-------LVFPPFRAEDYRQE 74
Query: 206 HHNTTFTCQAQN 217
H + C A+N
Sbjct: 75 VHAQVYACLARN 86
Score = 36.6 bits (83), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 37/147 (25%), Positives = 59/147 (40%), Gaps = 19/147 (12%)
Query: 321 VRLYCKAEANPSHMKYRWY------INDQPVPAAASATELYLTNITRHQHDSIVK----- 369
+ L C A+ P+ +RWY Q V ++ T I + D++V+
Sbjct: 230 ISLLCPAQGFPAP-SFRWYKFIEGTTRKQAVVLNDRVKQVSGTLIIK---DAVVEDSGKY 285
Query: 370 -CEVHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHED 428
C V+N VG L VT + P + VD G C GNP ++W+ +
Sbjct: 286 LCVVNNSVGGESVETVLTVTAPLSAKIDPPTQTVDFGRPAVFTCQYTGNPIKTVSWMKD- 344
Query: 429 SDKVVGNSPN-LTLLMTSDDLAGRYYC 454
K +G+S + L + + G Y C
Sbjct: 345 -GKAIGHSESVLRIESVKKEDKGMYQC 370
Score = 34.3 bits (77), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 40/79 (50%), Gaps = 5/79 (6%)
Query: 645 TARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFG 704
T + C A P P S+R + G++ +V+ + + + TLII+++ + G
Sbjct: 229 TISLLCPAQGFPAP-----SFRWYKFIEGTTRKQAVVLNDRVKQVSGTLIIKDAVVEDSG 283
Query: 705 VYNCSVSNPYGSDSVEIML 723
Y C V+N G +SVE +L
Sbjct: 284 KYLCVVNNSVGGESVETVL 302
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 3/84 (3%)
Query: 526 VHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDK 585
V+N VG L VT + P + VD G C GNP ++W+ + K
Sbjct: 289 VNNSVGGESVETVLTVTAPLSAKIDPPTQTVDFGRPAVFTCQYTGNPIKTVSWMKD--GK 346
Query: 586 VVGNSPN-LTLLMTSDDLAGRYYC 608
+G+S + L + + G Y C
Sbjct: 347 AIGHSESVLRIESVKKEDKGMYQC 370
>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 = 37.7 bits (86), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 78/203 (38%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNLSGFDRYA------M 81
+ P +A VG RVT+ CR + L W + P + G A
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQSISSYLAWYQQKPGKAPKLLIYGASSRASGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ V+ G + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQYWSEPVTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|3S35|L Chain L, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
Length = 217
Score = 37.7 bits (86), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 51/208 (24%), Positives = 76/208 (36%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ CR +D G + W + P NL
Sbjct: 4 LTQSPASLAVSLGQRATISCRASESVDSYGNSFMHWYQQKPGQPPKLLIYRASNLESGIP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LVP 131
GS D++L I PV DD A Y CQ S G + ++ A TV + P
Sbjct: 64 ARFSGSGSRTDFTLTINPVEADDVATYYCQQSNEDPLTFGAGTKLELKRADAAPTVSIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W IDG+ N + D
Sbjct: 124 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDS 172
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 173 KDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>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 = 37.4 bits (85), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 56/206 (27%), Positives = 77/206 (37%), Gaps = 34/206 (16%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRV---IDKTGVLQWTKDDFALGPH------RNLSGFDRY 79
K P +A VG RVTL C+ IDK L W + P NL
Sbjct: 3 KMTQSPSFLSASVGDRVTLNCKASQNIDK--YLNWYQQKLGESPKLLIYNTNNLQTGIPS 60
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQC--------QVSTGILGEPAIRSRFATLTVLVP 131
GS D++L I + +D A Y C TG E R+ A + P
Sbjct: 61 RFSGSGSGTDFTLTISSLQPEDVATYFCLQHISRPRTFGTGTKLELK-RANAAPTVSIFP 119
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPPAEIT--W-IDGTGTVMSNVRVTEEASVD 188
P ++ G + C+ N P +I+ W IDGT VT++ S D
Sbjct: 120 PSTEQLATGGA---------SVVCL-MNKFYPRDISVKWKIDGTERNGVLNSVTDQDSAD 169
Query: 189 GRRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL LT + +TCQ
Sbjct: 170 STY-SMSSTLSLTKADYQSHNLYTCQ 194
>pdb|1JRH|L Chain L, Complex (AntibodyANTIGEN)
Length = 213
Score = 37.4 bits (85), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 52/206 (25%), Positives = 82/206 (39%), Gaps = 32/206 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGF--------DRY 79
+ P + +G RVT+ C+ D L W + P +SG R+
Sbjct: 3 EMTQSPSSFSVSLGDRVTITCKASEDIYNRLAWYQQKPGNAPRLLISGATSLETEVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQ--VSTGILG---EPAIRSRFATLTV-LVPPD 133
+ GS + DY+L I + +D A Y CQ ST G + I+ A TV + PP
Sbjct: 63 SGSGSGK--DYTLSITSLQTEDVATYYCQQYWSTWTFGGGTKLEIKRADAAPTVSIFPPS 120
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRR 191
++ G + C N P + W ID G+ N + D +
Sbjct: 121 SEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKD 169
Query: 192 TT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 170 STYSMSSTLTLTKDEYERHNSYTCEA 195
>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 = 37.4 bits (85), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 47/203 (23%), Positives = 80/203 (39%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNLSGFD-RYAMI---- 82
+ P +A VG RVT+ C+ G+ + W + P +S RY+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCKASQNVGINVAWYQQKPGKAPKLLISSASYRYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ + G + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYFCQQYDTYPFTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRR 191
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|3FFD|B Chain B, Structure Of Parathyroid Hormone-Related Protein Complexed
To A Neutralizing Monoclonal Antibody
Length = 220
Score = 37.4 bits (85), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 44/174 (25%), Positives = 64/174 (36%), Gaps = 32/174 (18%)
Query: 68 GPHRNLSGF-DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI------------- 113
G H G DR++ GS D L I + +D+A Y C V I
Sbjct: 54 GSHSTGDGIPDRFS--GSSSGADRYLSISNIQPEDEAMYICGVGDTIKEQFVYVFGGGTK 111
Query: 114 ---LGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIELECISANGKPPAEITWID 170
LGEP TLTV PP + ++ + L C+ +N P
Sbjct: 112 VTVLGEPK---STPTLTVF-PPSSEEL---------KENKATLVCLISNFSPSGVTVAWK 158
Query: 171 GTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQAQNTADRTYK 224
GT ++ T + +G + S L LT + + +FTCQ + D K
Sbjct: 159 ANGTPITQGVDTSNPTKEGNKFMASSFLHLTSDQWRSHNSFTCQVTHEGDTVEK 212
>pdb|1FSK|B Chain B, Complex Formation Between A Fab Fragment Of A Monoclonal
Igg Antibody And The Major Allergen From Birch Pollen
Bet V 1
pdb|1FSK|E Chain E, Complex Formation Between A Fab Fragment Of A Monoclonal
Igg Antibody And The Major Allergen From Birch Pollen
Bet V 1
pdb|1FSK|H Chain H, Complex Formation Between A Fab Fragment Of A Monoclonal
Igg Antibody And The Major Allergen From Birch Pollen
Bet V 1
pdb|1FSK|K Chain K, Complex Formation Between A Fab Fragment Of A Monoclonal
Igg Antibody And The Major Allergen From Birch Pollen
Bet V 1
Length = 214
Score = 37.4 bits (85), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 49/206 (23%), Positives = 76/206 (36%), Gaps = 33/206 (16%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDD-------FALGPHRNLSGF-DRYA 80
P+ + VG RVTL C+ + + W + GP +G DR+
Sbjct: 4 LTQSPKSMSVSVGERVTLSCKASENVDTYVFWFQQKPDQSPKLLLYGPSNRYTGVPDRFT 63
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPD 133
GS D++L I V +D A Y C S G R+ A + PP
Sbjct: 64 --GSGSTTDFTLTISSVQAEDLADYHCGQSYSYPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRR 191
++ G + C N P + W IDG+ N + D +
Sbjct: 122 SEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKD 170
Query: 192 TT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 171 STYSMSSTLTLTKDEYERHNSYTCEA 196
>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 = 37.4 bits (85), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 37/144 (25%), Positives = 60/144 (41%), Gaps = 12/144 (8%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I + +D+A Y C S P I LTVL P+
Sbjct: 62 DRFS--GSKSGNTASLTISGLQAEDEADYYCS-SYASGSTPRIFGGGTRLTVL---GQPK 115
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 116 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 175
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 176 KYAASSYLSLTPEQWKSHRSYSCQ 199
>pdb|1EGJ|L Chain L, Domain 4 Of The Beta Common Chain In Complex With An
Antibody
Length = 215
Score = 37.4 bits (85), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 50/208 (24%), Positives = 76/208 (36%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKT-----GVLQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ CR + + W + P NL+
Sbjct: 4 LTQSPASLAVSLGQRATISCRANESVYSYGDSFMHWYQQKPGQPPKLLIYLASNLASGVP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LVP 131
GS D++L I PV DD A Y CQ + G + I+ A TV + P
Sbjct: 64 ARFSGSGSRTDFTLTIDPVETDDAATYYCQQNNEDPWTFGGGTKLEIKRGDAAPTVSIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P A + W ID G+ N + D
Sbjct: 124 PSSEQLTSGGA---------SVVCFLNNFYPKDANVAWKID--GSERQNGVLNSWTDQDS 172
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 173 KDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|3QHF|L Chain L, Crystal Structure Of Fab Del2d1, A Deletion Variant Of
Anti-Influenza Antibody 2d1
Length = 217
Score = 37.4 bits (85), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 59/144 (40%), Gaps = 11/144 (7%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I + +D+A Y C L + LTVL P+
Sbjct: 61 DRFS--GSKSATSASLAISGLQSEDEADYYCAAWDDSLNGFWVFGGGTKLTVL---GQPK 115
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 116 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 175
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 176 KYAASSYLSLTPEQWKSHKSYSCQ 199
>pdb|1NBQ|A Chain A, Crystal Structure Of Human Junctional Adhesion Molecule
Type 1
pdb|1NBQ|B Chain B, Crystal Structure Of Human Junctional Adhesion Molecule
Type 1
Length = 209
Score = 37.4 bits (85), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 39/128 (30%), Positives = 54/128 (42%), Gaps = 17/128 (13%)
Query: 97 VMLDDDARYQCQVST---GILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIEL 153
V +D Y C VS GE ++ L VLVPP P V + T +R + L
Sbjct: 75 VTREDTGTYTCMVSEEGGNSYGEVKVK-----LIVLVPPSKP-TVNIPSSATIGNRAV-L 127
Query: 154 ECISANGKPPAEITWIDGTGTVM----SNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNT 209
C +G PP+E TW G VM + R +S TT + LV P
Sbjct: 128 TCSEQDGSPPSEYTWFKD-GIVMPTNPKSTRAFSNSSYVLNPTTGE--LVFDPLSASDTG 184
Query: 210 TFTCQAQN 217
++C+A+N
Sbjct: 185 EYSCEARN 192
Score = 33.1 bits (74), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 31/146 (21%), Positives = 56/146 (38%), Gaps = 8/146 (5%)
Query: 147 EDREIELECISANGKPPAEITWI----DGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTP 202
E+ ++L C + P + W D T V N ++T AS + R T + + +
Sbjct: 18 ENNPVKLSCAYSGFSSP-RVEWKFDQGDTTRLVCYNNKIT--ASYEDRVTFLPTGITFKS 74
Query: 203 KKEHHNTTFTCQAQNTADRTYKVARLKLLVKYAPKVQVSVIGSNRLVEGTDVRLYCKAEA 262
T+TC +Y ++KL+V P I S+ + G L C +
Sbjct: 75 VTREDTGTYTCMVSEEGGNSYGEVKVKLIVLVPPSKPTVNIPSSATI-GNRAVLTCSEQD 133
Query: 263 NPSHMKYRWYINDQPVPAAASATELY 288
+Y W+ + +P +T +
Sbjct: 134 GSPPSEYTWFKDGIVMPTNPKSTRAF 159
>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 = 37.4 bits (85), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 47/202 (23%), Positives = 76/202 (37%), Gaps = 26/202 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPH------RNLSGFDRYAMI 82
+ P +A VG RVT+ C + W + P NL+
Sbjct: 2 QLTQSPSSLSASVGDRVTITCSASSSVNHMFWYQQKPGKAPKPWIYLTSNLASGVPSRFS 61
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTG---ILGEPA---IRSRFATLTVLV-PPDPP 135
GS DY+L I + +D A Y CQ +G G+ I+ A +V + PP
Sbjct: 62 GSGSGTDYTLTISSLQPEDFATYYCQQWSGNPWTFGQGTKVEIKRTVAAPSVFIFPPSDE 121
Query: 136 RIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRRT 192
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 122 QLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY- 171
Query: 193 TVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 SLSSTLTLSKADYEKHKVYACE 193
>pdb|3C2A|L Chain L, Antibody Fab Fragment 447-52d In Complex With Ug1033
Peptide
pdb|3C2A|M Chain M, Antibody Fab Fragment 447-52d In Complex With Ug1033
Peptide
pdb|3GHB|L Chain L, Crystal Structure Of Anti-Hiv-1 Fab 447-52d In Complex
With V3 Peptide W2rw020
pdb|3GHB|M Chain M, Crystal Structure Of Anti-Hiv-1 Fab 447-52d In Complex
With V3 Peptide W2rw020
Length = 216
Score = 37.4 bits (85), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 47/204 (23%), Positives = 79/204 (38%), Gaps = 22/204 (10%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPCRV----IDKTGVLQWTK------DDFALGPHRNLSGF- 76
Q +P +A G +VT+ C I VL + + G ++ SG
Sbjct: 1 QSVLTQPPSVSAAPGQKVTISCSGSSSNIGNNYVLWYQQFPGTAPKLLIYGNNKRPSGIP 60
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS +L I + D+A Y C L + LTVL P+
Sbjct: 61 DRFS--GSKSGTSATLGITGLQTGDEADYFCATWDSGLSADWVFGGGTKLTVL---SQPK 115
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 116 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 175
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 176 KYAASSYLSLTPEQWKSHRSYSCQ 199
>pdb|3LZF|L Chain L, Crystal Structure Of Fab 2d1 In Complex With The 1918
Influenza Virus Hemagglutinin
pdb|3QHZ|L Chain L, Crystal Structure Of Human Anti-Influenza Fab 2d1
pdb|3QHZ|M Chain M, Crystal Structure Of Human Anti-Influenza Fab 2d1
Length = 217
Score = 37.4 bits (85), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 59/144 (40%), Gaps = 11/144 (7%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I + +D+A Y C L + LTVL P+
Sbjct: 61 DRFS--GSKSATSASLAISGLQSEDEADYYCAAWDDSLNGFWVFGGGTKLTVL---GQPK 115
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 116 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 175
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 176 KYAASSYLSLTPEQWKSHKSYSCQ 199
>pdb|1Q1J|L Chain L, Crystal Structure Analysis Of Anti-Hiv-1 Fab 447-52d In
Complex With V3 Peptide
pdb|1Q1J|M Chain M, Crystal Structure Analysis Of Anti-Hiv-1 Fab 447-52d In
Complex With V3 Peptide
Length = 215
Score = 37.4 bits (85), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 47/204 (23%), Positives = 79/204 (38%), Gaps = 22/204 (10%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPCRV----IDKTGVLQWTK------DDFALGPHRNLSGF- 76
Q +P +A G +VT+ C I VL + + G ++ SG
Sbjct: 1 QSVLTQPPSVSAAPGQKVTISCSGSSSNIGNNYVLWYQQFPGTAPKLLIYGNNKRPSGIP 60
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS +L I + D+A Y C L + LTVL P+
Sbjct: 61 DRFS--GSKSGTSATLGITGLQTGDEADYFCATWDSGLSADWVFGGGTKLTVL---SQPK 115
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 116 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 175
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 176 KYAASSYLSLTPEQWKSHRSYSCQ 199
>pdb|1EJO|L Chain L, Fab Fragment Of Neutralising Monoclonal Antibody 4c4
Complexed With G-H Loop From Fmdv
Length = 216
Score = 37.4 bits (85), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 51/208 (24%), Positives = 76/208 (36%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ CR +D G + W + P NL
Sbjct: 4 LTQSPASLAVSLGQRATISCRASESVDSYGNSFMHWYQQKPGQPPKLLIYRASNLESGIP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LVP 131
GS D++L I PV DD A Y CQ S G + ++ A TV + P
Sbjct: 64 ARFSGSGSRTDFTLTINPVEADDVATYYCQQSNEDPLTFGAGTKLELKRADAAPTVSIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W IDG+ N + D
Sbjct: 124 PSSEQLTSGGA---------SVVCFLNNFYPKDINVRWKIDGSE--RQNGVLNSWTDQDS 172
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 173 KDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>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 = 37.4 bits (85), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 58/144 (40%), Gaps = 11/144 (7%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I +DDA Y C ++ LTVL P+
Sbjct: 59 DRFS--GSASGNRASLTISGAQAEDDAEYYCSSRDKSGSRLSVFGGGTKLTVL---SQPK 113
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 114 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 173
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 174 KYAASSYLSLTPEQWKSHRSYSCQ 197
>pdb|2KKQ|A Chain A, Solution Nmr Structure Of The Ig-Like C2-Type 2 Domain Of
Human Myotilin. Northeast Structural Genomics Target
Hr3158
Length = 116
Score = 37.0 bits (84), Expect = 0.049, Method: Composition-based stats.
Identities = 25/94 (26%), Positives = 47/94 (50%), Gaps = 9/94 (9%)
Query: 641 IPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRH 700
+ GD+ ++EC +IPPP K+ W R E+ ++D S+ +D + TL+I++
Sbjct: 28 LEGDSVKLECQISAIPPP-KLFWK-RNNEMVQFNTDRISLYQDNTG---RVTLLIKDVNK 82
Query: 701 DHFGVYNCSVSNPYG----SDSVEIMLKPQKSFP 730
G Y S N G + +++ +P ++ P
Sbjct: 83 KDAGWYTVSAVNEAGVTTCNTRLDVTARPNQTLP 116
Score = 30.0 bits (66), Expect = 7.7, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 26/43 (60%), Gaps = 2/43 (4%)
Query: 487 IPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVHND 529
+ GD+ ++EC +IPPP K+ W R E+ ++D S++ D
Sbjct: 28 LEGDSVKLECQISAIPPP-KLFWK-RNNEMVQFNTDRISLYQD 68
>pdb|4I0K|A Chain A, Crystal Structure Of Murine B7-H3 Extracellular Domain
Length = 222
Score = 37.0 bits (84), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 35/135 (25%), Positives = 56/135 (41%), Gaps = 16/135 (11%)
Query: 87 EGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTT 146
+G+ SL + V + D+ Y C VS A+ +L V P P + TL
Sbjct: 69 QGNASLRLQRVRVTDEGSYTCFVSIQDFDSAAV-----SLQVAAPYSKPSM----TLEPN 119
Query: 147 EDRE----IELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTP 202
+D + + C S G P AE+ W DG G ++ T + + + V S L +
Sbjct: 120 KDLRPGNMVTITCSSYQGYPEAEVFWKDGQGVPLTGNVTTSQMANERGLFDVHSVLRVVL 179
Query: 203 KKEHHNTTFTCQAQN 217
N T++C +N
Sbjct: 180 GA---NGTYSCLVRN 191
>pdb|2YD1|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Drosophila Receptor Protein Tyrosine Phosphatase Dlar
Length = 212
Score = 37.0 bits (84), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 51/194 (26%), Positives = 73/194 (37%), Gaps = 32/194 (16%)
Query: 545 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDL-- 602
P +P + V G + C G+P P I W ++ KV G T+L +
Sbjct: 7 PEIIRKPQNQGVRVGGVASFYCAARGDPPPSIVW-RKNGKKVSGTQSRYTVLEQPGGISI 65
Query: 603 -------AGR----YYCKASVMGFPEVGAEATVYL-------KGRPTIISH-RTQFGIPG 643
AGR Y C A V A+AT+ + G P I T+ G
Sbjct: 66 LRIEPVRAGRDDAPYECVAENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRVIEVG 125
Query: 644 DTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHF 703
T + C A P P + W ++ + S+ YS LK+G L I SR +
Sbjct: 126 HTVLMTCKAIGNPTP-NIYWIKNQTKVDM-SNPRYS-----LKDGF---LQIENSREEDQ 175
Query: 704 GVYNCSVSNPYGSD 717
G Y C N G++
Sbjct: 176 GKYECVAENSMGTE 189
Score = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 41/181 (22%), Positives = 71/181 (39%), Gaps = 33/181 (18%)
Query: 323 LYCKAEANP-------------SHMKYRWYINDQPVPAAASATELYLTNITRHQHDSIVK 369
YC A +P S + R+ + +QP + L + + + D+ +
Sbjct: 26 FYCAARGDPPPSIVWRKNGKKVSGTQSRYTVLEQP----GGISILRIEPVRAGRDDAPYE 81
Query: 370 CEVHNDVGKSEDSE-TLDVTYG-------PRFRARPYSVQVDRGAGVNLLCDVDGNPAPE 421
C N VG + ++ TL + G P P + ++ G V + C GNP P
Sbjct: 82 CVAENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRVIEVGHTVLMTCKAIGNPTPN 141
Query: 422 ITWIHEDSDKVVGNSPN-------LTLLMTSDDLAGRYYCKASVMGFPEVGAEATVYLKG 474
I WI ++ KV ++P L + + ++ G+Y C A E +Y+K
Sbjct: 142 IYWI-KNQTKVDMSNPRYSLKDGFLQIENSREEDQGKYECVAENSMGTEHSKATNLYVKV 200
Query: 475 R 475
R
Sbjct: 201 R 201
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 58/248 (23%), Positives = 86/248 (34%), Gaps = 62/248 (25%)
Query: 391 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDLAG 450
P +P + V G + C G+P P I W ++ KV G T+L +
Sbjct: 7 PEIIRKPQNQGVRVGGVASFYCAARGDPPPSIVW-RKNGKKVSGTQSRYTVLEQPGGI-- 63
Query: 451 RYYCKASVMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWS 510
S++ V A GR D A EC A
Sbjct: 64 ------SILRIEPVRA-------GR--------------DDAPYECVA------------ 84
Query: 511 YRGEEIGVGS--SDDYSVHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDV 568
E GVG S D ++ G + +T GP R ++ G V + C
Sbjct: 85 ----ENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRV------IEVGHTVLMTCKA 134
Query: 569 DGNPAPEITWIHEDSDKVVGNSPN-------LTLLMTSDDLAGRYYCKASVMGFPEVGAE 621
GNP P I WI ++ KV ++P L + + ++ G+Y C A E
Sbjct: 135 IGNPTPNIYWI-KNQTKVDMSNPRYSLKDGFLQIENSREEDQGKYECVAENSMGTEHSKA 193
Query: 622 ATVYLKGR 629
+Y+K R
Sbjct: 194 TNLYVKVR 201
>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 = 37.0 bits (84), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 42/200 (21%), Positives = 78/200 (39%), Gaps = 24/200 (12%)
Query: 33 EPQDQTAVVGSRVTLPC----RVIDKTGVLQWTKDDFALGP-------HRNLSGF-DRYA 80
+P + G +T+ C ++ ++ W + P ++ SG DR++
Sbjct: 6 QPASVSGSPGQSITVSCTGVSSIVGSYNLVSWYQQHPGKAPKLLTYEVNKRPSGVSDRFS 65
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQG 140
GS SL I + +D+A Y C G + F T L P+
Sbjct: 66 --GSKSGNSASLTISGLQAEDEADYYCSSYDG----SSTSVVFGGGTKLTVLGQPKAAPS 119
Query: 141 DTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTV 194
TL+ E++ L C+ ++ P A + W + V + V T+ + +
Sbjct: 120 VTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTKPSKQSNNKYAA 179
Query: 195 KSTLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 180 SSYLSLTPEQWKSHRSYSCQ 199
>pdb|4GLR|I Chain I, Structure Of The Anti-ptau Fab (pt231/ps235_1) In Complex
With Phosphoepitope Pt231/ps235
pdb|4GLR|K Chain K, Structure Of The Anti-ptau Fab (pt231/ps235_1) In Complex
With Phosphoepitope Pt231/ps235
Length = 212
Score = 37.0 bits (84), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 52/124 (41%), Gaps = 10/124 (8%)
Query: 97 VMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIE---- 152
V +D+A Y C G G I TLTVL P+ TL+ E++
Sbjct: 75 VQAEDEAVYYCGAYDGSAGG-GIFGAGTTLTVL---GQPKAAPSVTLFPPSSEELQANKA 130
Query: 153 -LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNTT 210
L C+ ++ P A + W + V + V T + + S L LTP++ + +
Sbjct: 131 TLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRS 190
Query: 211 FTCQ 214
++CQ
Sbjct: 191 YSCQ 194
>pdb|3FN3|A Chain A, Dimeric Structure Of Pd-L1
pdb|3FN3|B Chain B, Dimeric Structure Of Pd-L1
Length = 221
Score = 37.0 bits (84), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 51/126 (40%), Gaps = 11/126 (8%)
Query: 88 GDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTE 147
G+ +L+I V L D Y+C +S G + + +TV V +I Q +
Sbjct: 78 GNAALQITDVKLQDAGVYRCMISYG-------GADYKRITVKVNAPYNKINQRILVVDPV 130
Query: 148 DREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHH 207
E EL C A G P AE+ W V+S T + + + V STL +
Sbjct: 131 TSEHELTC-QAEGYPKAEVIWTSSDHQVLSGKTTTTNSKREEKLFNVTSTLRINTTT--- 186
Query: 208 NTTFTC 213
N F C
Sbjct: 187 NEIFYC 192
>pdb|1AD0|A Chain A, Fab Fragment Of Engineered Human Monoclonal Antibody A5b7
pdb|1AD0|C Chain C, Fab Fragment Of Engineered Human Monoclonal Antibody A5b7
Length = 213
Score = 37.0 bits (84), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 45/201 (22%), Positives = 74/201 (36%), Gaps = 26/201 (12%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPH------RNLSGFDRYAMIG 83
P + VG RVT+ CR + W + L P NL+ G
Sbjct: 4 LTQSPSSLSVSVGDRVTITCRASSSVTYIHWYQQKPGLAPKSLIYATSNLASGVPSRFSG 63
Query: 84 SDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDPPR 136
S DY+ I + +D A Y CQ + G + ++ A +V + PP +
Sbjct: 64 SGSGTDYTFTISSLQPEDIATYYCQHWSSKPPTFGQGTKVEVKRTVAAPSVFIFPPSDEQ 123
Query: 137 IVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRRTT 193
+ G + C+ N P A++ W + + S VTE+ S D +
Sbjct: 124 LKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY-S 173
Query: 194 VKSTLVLTPKKEHHNTTFTCQ 214
+ STL L+ + + C+
Sbjct: 174 LSSTLTLSKADYEKHKVYACE 194
>pdb|1ACY|L Chain L, Crystal Structure Of The Principal Neutralizing Site Of
Hiv- 1
pdb|1AI1|L Chain L, Hiv-1 V3 Loop Mimic
Length = 215
Score = 37.0 bits (84), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 51/204 (25%), Positives = 76/204 (37%), Gaps = 33/204 (16%)
Query: 34 PQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGPH------RNLSGFDRYAMI 82
P +G R T+ CR +D G + W + P NL
Sbjct: 8 PASLVVSLGQRATISCRASESVDSYGKSFMHWYQQKPGQPPKVLIYIASNLESGVPARFS 67
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LVPPDPP 135
GS D++L I PV DD A Y CQ + G + +R A TV + PP
Sbjct: 68 GSGSRTDFTLTIDPVEADDAATYYCQQNNEDPPTFGAGTKLEMRRADAAPTVSIFPPSSE 127
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W IDG+ N + D + +T
Sbjct: 128 QLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDST 176
Query: 194 --VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 177 YSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|4FQH|L Chain L, Crystal Structure Of Fab Cr9114
pdb|4FQH|B Chain B, Crystal Structure Of Fab Cr9114
pdb|4FQI|L Chain L, Crystal Structure Of Fab Cr9114 In Complex With A H5n1
Influenza Virus Hemagglutinin
pdb|4FQV|L Chain L, Crystal Structure Of Broadly Neutralizing Antibody Cr9114
Bound To H7 Influenza Hemagglutinin
pdb|4FQV|M Chain M, Crystal Structure Of Broadly Neutralizing Antibody Cr9114
Bound To H7 Influenza Hemagglutinin
pdb|4FQV|N Chain N, Crystal Structure Of Broadly Neutralizing Antibody Cr9114
Bound To H7 Influenza Hemagglutinin
pdb|4FQY|L Chain L, Crystal Structure Of Broadly Neutralizing Antibody Cr9114
Bound To H3 Influenza Hemagglutinin
Length = 216
Score = 37.0 bits (84), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 45/202 (22%), Positives = 76/202 (37%), Gaps = 19/202 (9%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPCRVIDKT---GVLQWTKDDFALGPHRNLSGFDRYAMI-- 82
Q +P + G RVT+ C D + W + P + D+ +
Sbjct: 1 QSALTQPPAVSGTPGQRVTISCSGSDSNIGRRSVNWYQQFPGTAPKLLIYSNDQRPSVVP 60
Query: 83 ----GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIV 138
GS SL I + +D+A Y C L + A+ LTVL P+
Sbjct: 61 DRFSGSKSGTSASLAISGLQSEDEAEYYCAAWDDSL-KGAVFGGGTQLTVL---GQPKAA 116
Query: 139 QGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRT 192
TL+ E++ L C+ ++ P A + W + V + V T + +
Sbjct: 117 PSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKY 176
Query: 193 TVKSTLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 177 AASSYLSLTPEQWKSHRSYSCQ 198
>pdb|3SBW|C Chain C, Crystal Structure Of The Complex Between The Extracellular
Domains Of Mouse Pd-1 Mutant And Human Pd-L1
Length = 222
Score = 37.0 bits (84), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 51/126 (40%), Gaps = 11/126 (8%)
Query: 88 GDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTE 147
G+ +L+I V L D Y+C +S G + + +TV V +I Q +
Sbjct: 78 GNAALQITDVKLQDAGVYRCMISYG-------GADYKRITVKVNAPYNKINQRILVVDPV 130
Query: 148 DREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHH 207
E EL C A G P AE+ W V+S T + + + V STL +
Sbjct: 131 TSEHELTC-QAEGYPKAEVIWTSSDHQVLSGKTTTTNSKREEKLFNVTSTLRINTTT--- 186
Query: 208 NTTFTC 213
N F C
Sbjct: 187 NEIFYC 192
>pdb|2QQN|L Chain L, Neuropilin-1 B1 Domain In Complex With A Vegf-Blocking Fab
Length = 214
Score = 37.0 bits (84), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 49/206 (23%), Positives = 77/206 (37%), Gaps = 33/206 (16%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNLSGFDRYA------M 81
+ P +A VG RVT+ CR + L W + P + G A
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQYFSSYLAWYQQKPGKAPKLLIYGASSRASGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEP---------AIRSRFATLTVLV-P 131
GS D++L I + +D A Y CQ LG P I+ A +V + P
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQ---QYLGSPPTFGQGTKVEIKRTVAAPSVFIFP 119
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVD 188
P ++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 120 PSDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKD 170
Query: 189 GRRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 171 STY-SLSSTLTLSKADYEKHKVYACE 195
>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 = 37.0 bits (84), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 55/138 (39%), Gaps = 11/138 (7%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS SL I + +D+ Y C+ T R F T T L P+ T
Sbjct: 66 GSKSGNTASLTISGLQAEDEGDYYCKSLTSTR-----RRVFGTGTKLTVLGQPKAAPSVT 120
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E++ L C+ ++ P A + W + V + V T + + S
Sbjct: 121 LFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASS 180
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 181 YLSLTPEQWKSHKSYSCQ 198
>pdb|3MUH|L Chain L, Crystal Structure Of Pg9 Light Chain
Length = 216
Score = 37.0 bits (84), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 55/138 (39%), Gaps = 11/138 (7%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS SL I + +D+ Y C+ T R F T T L P+ T
Sbjct: 66 GSKSGNTASLTISGLQAEDEGDYYCKSLTSTR-----RRVFGTGTKLTVLGQPKAAPSVT 120
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E++ L C+ ++ P A + W + V + V T + + S
Sbjct: 121 LFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASS 180
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 181 YLSLTPEQWKSHKSYSCQ 198
>pdb|3BIK|A Chain A, Crystal Structure Of The Pd-1PD-L1 Complex
pdb|3BIS|A Chain A, Crystal Structure Of The Pd-L1
pdb|3BIS|B Chain B, Crystal Structure Of The Pd-L1
Length = 222
Score = 37.0 bits (84), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 35/126 (27%), Positives = 51/126 (40%), Gaps = 11/126 (8%)
Query: 88 GDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTE 147
G+ +L+I V L D Y+C +S G + + +TV V +I Q +
Sbjct: 78 GNAALQITDVKLQDAGVYRCMISYG-------GADYKRITVKVNAPYNKINQRILVVDPV 130
Query: 148 DREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHH 207
E EL C A G P AE+ W V+S T + + + V STL +
Sbjct: 131 TSEHELTC-QAEGYPKAEVIWTSSDHQVLSGKTTTTNSKREEKLFNVTSTLRINTTT--- 186
Query: 208 NTTFTC 213
N F C
Sbjct: 187 NEIFYC 192
>pdb|4DAG|L Chain L, Structure Of The Human Metapneumovirus Fusion Protein With
Neutralizing Antibody Identifies A Pneumovirus Antigenic
Site
Length = 213
Score = 37.0 bits (84), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 36/141 (25%), Positives = 58/141 (41%), Gaps = 18/141 (12%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQV---STGILGEPAIRSRFATLTVLVPPDPPRIVQ 139
GS+ +L I D+A Y CQ ST + G TLTVL P+
Sbjct: 63 GSNSGNTATLTISGTQAMDEADYYCQAWDSSTAVFG------GGTTLTVL---GQPKAAP 113
Query: 140 GDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTT 193
TL+ E++ L C+ ++ P A + W + V + V T + +
Sbjct: 114 SVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYA 173
Query: 194 VKSTLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 174 ASSYLSLTPEQWKSHRSYSCQ 194
>pdb|1TNM|A Chain A, Tertiary Structure Of An Immunoglobulin-Like Domain From
The Muscle Protein Titin: A New Member Of The I Set
pdb|1TNN|A Chain A, Tertiary Structure Of An Immunoglobulin-Like Domain From
The Muscle Protein Titin: A New Member Of The I Set
Length = 100
Score = 36.6 bits (83), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 392 RFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHE 427
R +P S+ V G CD DG P P +TW+ +
Sbjct: 10 RILTKPRSMTVYEGESARFSCDTDGEPVPTVTWLRK 45
Score = 36.6 bits (83), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 18/36 (50%)
Query: 546 RFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHE 581
R +P S+ V G CD DG P P +TW+ +
Sbjct: 10 RILTKPRSMTVYEGESARFSCDTDGEPVPTVTWLRK 45
>pdb|4GAG|L Chain L, Structure Of The Broadly Neutralizing Antibody Ap33 In
Complex With Its Hcv Epitope (E2 Residues 412-423)
pdb|4GAJ|L Chain L, Structure Of The Broadly Neutralizing Antibody Ap33 In
Complex With Its Hcv Epitope (E2 Residues 411-424)
pdb|4GAY|L Chain L, Structure Of The Broadly Neutralizing Antibody Ap33
pdb|4GAY|B Chain B, Structure Of The Broadly Neutralizing Antibody Ap33
Length = 218
Score = 36.6 bits (83), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 49/197 (24%), Positives = 73/197 (37%), Gaps = 33/197 (16%)
Query: 41 VGSRVTLPCRV---IDKTG--VLQWTKDDFALGPH------RNLSGFDRYAMIGSDEEGD 89
+G R T+ CR +D G L W + P NL+ GS D
Sbjct: 15 LGQRATISCRASESVDGYGNSFLHWFQQKPGQPPKLLIYLASNLNSGVPARFSGSGSRTD 74
Query: 90 YSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
++L I PV DD A Y CQ + G R+ A + PP ++ G
Sbjct: 75 FTLTIDPVEADDAATYYCQQNNVDPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGA 134
Query: 143 LYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTL 198
+ C N P + W ID G+ N + D + +T + STL
Sbjct: 135 ---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSSTL 183
Query: 199 VLTPKKEHHNTTFTCQA 215
LT + + ++TC+A
Sbjct: 184 TLTKDEYERHNSYTCEA 200
>pdb|2WP3|T Chain T, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig
Complex
pdb|2WWK|T Chain T, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig F17r
Mutant Complex
pdb|2WWM|D Chain D, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig
Complex In Space Group P1
pdb|2WWM|T Chain T, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig
Complex In Space Group P1
pdb|2Y9R|T Chain T, Crystal Structure Of The M10 Domain Of Titin
Length = 102
Score = 36.6 bits (83), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 8/64 (12%)
Query: 391 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITW------IH--EDSDKVVGNSPNLTLL 442
P+ A P + +D G + + C G P PE+TW IH E + N+ +LT L
Sbjct: 8 PKIEALPSDISIDEGKVLTVACAFTGEPTPEVTWSCGGRKIHSQEQGRFHIENTDDLTTL 67
Query: 443 MTSD 446
+ D
Sbjct: 68 IIMD 71
Score = 36.6 bits (83), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 8/64 (12%)
Query: 545 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITW------IH--EDSDKVVGNSPNLTLL 596
P+ A P + +D G + + C G P PE+TW IH E + N+ +LT L
Sbjct: 8 PKIEALPSDISIDEGKVLTVACAFTGEPTPEVTWSCGGRKIHSQEQGRFHIENTDDLTTL 67
Query: 597 MTSD 600
+ D
Sbjct: 68 IIMD 71
Score = 35.0 bits (79), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 38/80 (47%), Gaps = 7/80 (8%)
Query: 643 GDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLE-DPLKEGIKSTLIIRESRHD 701
G V C AF+ P +VTWS G +I + + D L +TLII + +
Sbjct: 22 GKVLTVAC-AFTGEPTPEVTWSCGGRKIHSQEQGRFHIENTDDL-----TTLIIMDVQKQ 75
Query: 702 HFGVYNCSVSNPYGSDSVEI 721
G+Y S+ N +GSDS +
Sbjct: 76 DGGLYTLSLGNEFGSDSATV 95
>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 = 36.6 bits (83), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 45/202 (22%), Positives = 76/202 (37%), Gaps = 26/202 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPHRNLSGFDRYA------MI 82
+ P +A VG RVT+ C + G + W + P + + A
Sbjct: 3 QMTQSPSTLSASVGDRVTITCSASSRVGYMHWYQQKPGKAPKLLIYDTSKLASGVPSRFS 62
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTG---ILG---EPAIRSRFATLTVLV-PPDPP 135
GS +++L I + DD A Y C +G G + I+ A +V + PP
Sbjct: 63 GSGSGTEFTLTISSLQPDDFATYYCFQGSGYPFTFGGGTKVEIKRTVAAPSVFIFPPSDE 122
Query: 136 RIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRRT 192
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 123 QLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY- 172
Query: 193 TVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 173 SLSSTLTLSKADYEKHKVYACE 194
>pdb|3KNB|A Chain A, Crystal Structure Of The Titin C-Terminus In Complex With
Obscurin- Like 1
pdb|3Q5O|A Chain A, Crystal Structure Of Human Titin Domain M10
pdb|3Q5O|B Chain B, Crystal Structure Of Human Titin Domain M10
Length = 100
Score = 36.6 bits (83), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 8/64 (12%)
Query: 391 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITW------IH--EDSDKVVGNSPNLTLL 442
P+ A P + +D G + + C G P PE+TW IH E + N+ +LT L
Sbjct: 6 PKIEALPSDISIDEGKVLTVACAFTGEPTPEVTWSCGGRKIHSQEQGRFHIENTDDLTTL 65
Query: 443 MTSD 446
+ D
Sbjct: 66 IIMD 69
Score = 36.6 bits (83), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 30/64 (46%), Gaps = 8/64 (12%)
Query: 545 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITW------IH--EDSDKVVGNSPNLTLL 596
P+ A P + +D G + + C G P PE+TW IH E + N+ +LT L
Sbjct: 6 PKIEALPSDISIDEGKVLTVACAFTGEPTPEVTWSCGGRKIHSQEQGRFHIENTDDLTTL 65
Query: 597 MTSD 600
+ D
Sbjct: 66 IIMD 69
Score = 35.0 bits (79), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 38/80 (47%), Gaps = 7/80 (8%)
Query: 643 GDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLE-DPLKEGIKSTLIIRESRHD 701
G V C AF+ P +VTWS G +I + + D L +TLII + +
Sbjct: 20 GKVLTVAC-AFTGEPTPEVTWSCGGRKIHSQEQGRFHIENTDDL-----TTLIIMDVQKQ 73
Query: 702 HFGVYNCSVSNPYGSDSVEI 721
G+Y S+ N +GSDS +
Sbjct: 74 DGGLYTLSLGNEFGSDSATV 93
>pdb|4EVN|B Chain B, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|D Chain D, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|F Chain F, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|H Chain H, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|J Chain J, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|L Chain L, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|N Chain N, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|P Chain P, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
Length = 217
Score = 36.6 bits (83), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 46/204 (22%), Positives = 77/204 (37%), Gaps = 22/204 (10%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPCRVIDKT---GVLQWTKDDFALGP-------HRNLSGF- 76
Q +P +A G +VT+ C + W + P ++ SG
Sbjct: 1 QSVLTQPPSVSAAPGQKVTISCSGSSSNIGNNYVSWYQQLPGTAPKLLIYDNNKRPSGIP 60
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS +L I + D+A Y C L + LTVL P
Sbjct: 61 DRFS--GSKSGTSATLGITGLQTGDEADYYCGTWDSSLSAYVVFGGGTKLTVLGQPKANP 118
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
V TL+ E++ L C+ ++ P A + W V + V T+ +
Sbjct: 119 TV---TLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNN 175
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 176 KYAASSYLSLTPEQWKSHRSYSCQ 199
>pdb|3TV3|L Chain L, Crystal Structure Of Broad And Potent Hiv-1 Neutralizing
Antibody Pgt128 In Complex With Man9
Length = 211
Score = 36.6 bits (83), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 45/201 (22%), Positives = 76/201 (37%), Gaps = 22/201 (10%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGP-------HRNLSGF-DRY 79
Q +P + G +T+ C + W + P ++ SG DR+
Sbjct: 1 QSALTQPPSASGSPGQSITISCTGTSNN-FVSWYQQHAGKAPKLVIYDVNKRPSGVPDRF 59
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQ 139
+ GS SL + + DD+A Y C G I LTVL P+
Sbjct: 60 S--GSKSGNTASLTVSGLQTDDEAVYYCGSLVGNWD--VIFGGGTKLTVL---GQPKAAP 112
Query: 140 GDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTT 193
TL+ E++ L C+ ++ P A + W + V + V T + +
Sbjct: 113 SVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYA 172
Query: 194 VKSTLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 173 ASSYLSLTPEQWKSHRSYSCQ 193
>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 = 36.6 bits (83), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 51/194 (26%), Positives = 73/194 (37%), Gaps = 32/194 (16%)
Query: 545 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDL-- 602
P +P + V G + C G+P P I W ++ KV G T+L +
Sbjct: 9 PEIIRKPQNQGVRVGGVASFYCAARGDPPPSIVW-RKNGKKVSGTQSRYTVLEQPGGISI 67
Query: 603 -------AGR----YYCKASVMGFPEVGAEATVYL-------KGRPTIISH-RTQFGIPG 643
AGR Y C A V A+AT+ + G P I T+ G
Sbjct: 68 LRIEPVRAGRDDAPYECVAENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRVIEVG 127
Query: 644 DTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHF 703
T + C A P P + W ++ + S+ YS LK+G L I SR +
Sbjct: 128 HTVLMTCKAIGNPTP-NIYWIKNQTKVDM-SNPRYS-----LKDGF---LQIENSREEDQ 177
Query: 704 GVYNCSVSNPYGSD 717
G Y C N G++
Sbjct: 178 GKYECVAENSMGTE 191
Score = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 41/181 (22%), Positives = 71/181 (39%), Gaps = 33/181 (18%)
Query: 323 LYCKAEANP-------------SHMKYRWYINDQPVPAAASATELYLTNITRHQHDSIVK 369
YC A +P S + R+ + +QP + L + + + D+ +
Sbjct: 28 FYCAARGDPPPSIVWRKNGKKVSGTQSRYTVLEQP----GGISILRIEPVRAGRDDAPYE 83
Query: 370 CEVHNDVGKSEDSE-TLDVTYG-------PRFRARPYSVQVDRGAGVNLLCDVDGNPAPE 421
C N VG + ++ TL + G P P + ++ G V + C GNP P
Sbjct: 84 CVAENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRVIEVGHTVLMTCKAIGNPTPN 143
Query: 422 ITWIHEDSDKVVGNSPN-------LTLLMTSDDLAGRYYCKASVMGFPEVGAEATVYLKG 474
I WI ++ KV ++P L + + ++ G+Y C A E +Y+K
Sbjct: 144 IYWI-KNQTKVDMSNPRYSLKDGFLQIENSREEDQGKYECVAENSMGTEHSKATNLYVKV 202
Query: 475 R 475
R
Sbjct: 203 R 203
Score = 31.6 bits (70), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 58/248 (23%), Positives = 86/248 (34%), Gaps = 62/248 (25%)
Query: 391 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTSDDLAG 450
P +P + V G + C G+P P I W ++ KV G T+L +
Sbjct: 9 PEIIRKPQNQGVRVGGVASFYCAARGDPPPSIVW-RKNGKKVSGTQSRYTVLEQPGGI-- 65
Query: 451 RYYCKASVMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARVECSAFSIPPPEKVTWS 510
S++ V A GR D A EC A
Sbjct: 66 ------SILRIEPVRA-------GR--------------DDAPYECVA------------ 86
Query: 511 YRGEEIGVGS--SDDYSVHNDVGKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDV 568
E GVG S D ++ G + +T GP R ++ G V + C
Sbjct: 87 ----ENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRV------IEVGHTVLMTCKA 136
Query: 569 DGNPAPEITWIHEDSDKVVGNSPN-------LTLLMTSDDLAGRYYCKASVMGFPEVGAE 621
GNP P I WI ++ KV ++P L + + ++ G+Y C A E
Sbjct: 137 IGNPTPNIYWI-KNQTKVDMSNPRYSLKDGFLQIENSREEDQGKYECVAENSMGTEHSKA 195
Query: 622 ATVYLKGR 629
+Y+K R
Sbjct: 196 TNLYVKVR 203
>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 = 36.6 bits (83), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 60/144 (41%), Gaps = 13/144 (9%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL + + +D+A Y C T I + LTVL P+
Sbjct: 62 DRFS--GSKSGNTASLTVSGLQAEDEAEYYCSSYTDIHN--FVFGGGTKLTVL---GQPK 114
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 115 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 174
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 175 KYAASSYLSLTPEQWKSHRSYSCQ 198
>pdb|3OZ9|L Chain L, Crystal Structure Of Anti-Gp41 Fab Nc-1
Length = 211
Score = 36.2 bits (82), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 46/198 (23%), Positives = 71/198 (35%), Gaps = 27/198 (13%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPH------RNLSGFDRYAMIGSDEE 87
P +A +G +TL C + W + P NL+ GS
Sbjct: 8 PVIMSASLGEEITLTCSASSSVSYMHWYQQKSGTSPKLLIYSTSNLASGVPSRFSGSGSG 67
Query: 88 GDYSLEIYPVMLDDDARYQCQVSTGIL---GEPAI---RSRFATLTVLVPPDPPRIVQGD 141
YSL I V +D A Y C +G G + R+ A + PP ++ G
Sbjct: 68 TFYSLTISSVEAEDAADYYCHQWSGFYTFGGGTKLEIQRADAAPTVSIFPPSSEQLTSGG 127
Query: 142 TLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W IDG+ N + D + +T + ST
Sbjct: 128 A---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKDSTYSMSST 176
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 177 LTLTKDEYERHNSYTCEA 194
>pdb|2OR9|L Chain L, The Structure Of The Anti-C-Myc Antibody 9e10 Fab
FragmentEPITOPE PEPTIDE COMPLEX REVEALS A NOVEL BINDING
Mode Dominated By The Heavy Chain Hypervariable Loops
pdb|2OR9|M Chain M, The Structure Of The Anti-C-Myc Antibody 9e10 Fab
FragmentEPITOPE PEPTIDE COMPLEX REVEALS A NOVEL BINDING
Mode Dominated By The Heavy Chain Hypervariable Loops
pdb|2ORB|L Chain L, The Structure Of The Anti-C-Myc Antibody 9e10 Fab Fragment
pdb|2ORB|M Chain M, The Structure Of The Anti-C-Myc Antibody 9e10 Fab Fragment
Length = 218
Score = 36.2 bits (82), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 48/204 (23%), Positives = 73/204 (35%), Gaps = 33/204 (16%)
Query: 34 PQDQTAVVGSRVTLPCRV---IDKTGV--LQWTKDDFALGPHRNLSGFDRYA------MI 82
P +G R T+ CR +D G + W + P +
Sbjct: 8 PASLAVSLGQRATISCRASESVDNYGFSFMNWFQQKPGQPPKLLIYAISNRGSGVPARFS 67
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPP 135
GS D+SL I+PV DD A Y CQ + G R+ A + PP
Sbjct: 68 GSGSGTDFSLNIHPVEEDDPAMYFCQQTKEVPWTFGGGTKLEIKRADAAPTVSIFPPSSE 127
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W ID G+ N + D + +T
Sbjct: 128 QLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDST 176
Query: 194 --VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 177 YSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|3CVH|L Chain L, How Tcr-Like Antibody Recognizes Mhc-Bound Peptide
pdb|3CVH|R Chain R, How Tcr-Like Antibody Recognizes Mhc-Bound Peptide
pdb|3CVI|L Chain L, How Tcr-Like Antibody Recognizes Mhc-Bound Peptide
Length = 209
Score = 36.2 bits (82), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 49/195 (25%), Positives = 79/195 (40%), Gaps = 33/195 (16%)
Query: 41 VGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGF--------DRYAMIGSDEEGDYS 91
+G RVT+ C+ D L W + P +SG DR++ GS DY+
Sbjct: 14 LGDRVTITCKASEDIYNRLAWYQQKPGNAPRLLISGATSLETGVPDRFS--GSGSRKDYT 71
Query: 92 LEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLY 144
L I + +D A Y CQ ++ G + ++ A TV + PP ++ G
Sbjct: 72 LIITSLQTEDVATYYCQQYWSTPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGA-- 129
Query: 145 TTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVL 200
+ C N P + W IDG+ N + D + +T + STL L
Sbjct: 130 -------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSMSSTLTL 180
Query: 201 TPKKEHHNTTFTCQA 215
T + + ++TC+A
Sbjct: 181 TKDEYERHNSYTCEA 195
>pdb|3IYW|L Chain L, West Nile Virus In Complex With Fab Fragments Of Mab
Cr4354 (Fitted Coordinates Of Envelope Proteins And Fab
Fragments Of One Icosahedral Asu)
pdb|3IYW|M Chain M, West Nile Virus In Complex With Fab Fragments Of Mab
Cr4354 (Fitted Coordinates Of Envelope Proteins And Fab
Fragments Of One Icosahedral Asu)
pdb|3N9G|L Chain L, Crystal Structure Of The Fab Fragment Of The Human
Neutralizing Anti- West Nile Virus Mab Cr4354
Length = 220
Score = 36.2 bits (82), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 36/145 (24%), Positives = 60/145 (41%), Gaps = 10/145 (6%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVL-VPPDPP 135
DR++ GS SL I + +D+A Y C L P + LTVL P
Sbjct: 61 DRFS--GSKSGTSASLAISGLQSEDEADYYCAAWDDSLNGP-VFGGGTKLTVLGAAAGQP 117
Query: 136 RIVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDG 189
+ TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 118 KAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSN 177
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 178 NKYAASSYLSLTPEQWKSHRSYSCQ 202
>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 = 36.2 bits (82), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 52/203 (25%), Positives = 76/203 (37%), Gaps = 30/203 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCR-VIDKTGVLQWTKDDFALGPHRNLSGFDRYA------M 81
K P +A VG RVTL C+ + L W + P + +
Sbjct: 3 KLTQSPSLLSASVGDRVTLSCKGSQNINNYLAWYQQKLGEAPKLLIYNTNSLQTGIPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQC-QVSTGIL---GEPAIRSRFATLTVLVPPDPPRI 137
GS DY+L I + +D A Y C Q + G G R A + PP ++
Sbjct: 63 SGSGSGTDYTLTISSLQPEDVATYFCYQYNNGYTFGAGTKLELKRTAPTVSIFPPSTEQL 122
Query: 138 VQGDTLYTTEDREIELECISANGKP-PAEITW-IDGT----GTVMSNVRVTEEASVDGRR 191
G + C+ N P + W IDGT G + S VT++ S D
Sbjct: 123 ATGGA---------SVVCLMNNFYPRDISVKWKIDGTERRDGVLDS---VTDQDSKDSTY 170
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL LT + +TC+
Sbjct: 171 -SMSSTLSLTKADYESHNLYTCE 192
>pdb|3UJI|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2558 In Complex
With Mn Peptide
Length = 209
Score = 36.2 bits (82), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 59/144 (40%), Gaps = 13/144 (9%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS +L I D+A Y CQ LG + +TVL P+
Sbjct: 59 DRFS--GSKSGNTATLTISGTQAMDEADYYCQAWDSTLG--VVFGGGTKVTVL---GQPK 111
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 112 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 171
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 172 KYAASSYLSLTPEQWKSHKSYSCQ 195
>pdb|3S96|B Chain B, Crystal Structure Of 3b5h10
pdb|3S96|D Chain D, Crystal Structure Of 3b5h10
Length = 218
Score = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 46/185 (24%), Positives = 69/185 (37%), Gaps = 36/185 (19%)
Query: 57 VLQWTKDDFALGPHRNLSGF-DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI-- 113
V++ KD G H G DR++ GS D L I + +D+A Y C V I
Sbjct: 47 VMELKKD----GSHSTGDGIPDRFS--GSSSGADRYLSISNIQPEDEAIYICGVGDTIKE 100
Query: 114 --------------LGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIELECISAN 159
LG+P TLTV PP + ++ + L C+ +N
Sbjct: 101 QFVYVFGGGTKVTVLGQPK---STPTLTVF-PPSSEEL---------KENKATLVCLISN 147
Query: 160 GKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQAQNTA 219
P GT ++ T + +G + S L LT + + +FTCQ +
Sbjct: 148 FSPSGVTVAWKANGTPITQGVDTSNPTKEGNKFMASSFLHLTSDQWRSHNSFTCQVTHEG 207
Query: 220 DRTYK 224
D K
Sbjct: 208 DTVEK 212
>pdb|3TYG|L Chain L, Crystal Structure Of Broad And Potent Hiv-1 Neutralizing
Antibody Pgt128 In Complex With A Glycosylated
Engineered Gp120 Outer Domain With Miniv3 (Eodmv3)
Length = 211
Score = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 44/196 (22%), Positives = 75/196 (38%), Gaps = 22/196 (11%)
Query: 33 EPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGP-------HRNLSGF-DRYAMIGS 84
+P + G +T+ C + W + P ++ SG DR++ GS
Sbjct: 6 QPPSASGSPGQSITISCTGTSNN-FVSWYQQHAGKAPKLVIYDVNKRPSGVPDRFS--GS 62
Query: 85 DEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLY 144
SL + + DD+A Y C G I LTVL P+ TL+
Sbjct: 63 KSGNTASLTVSGLQTDDEAVYYCGSLVGNWD--VIFGGGTKLTVL---GQPKAAPSVTLF 117
Query: 145 TTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTL 198
E++ L C+ ++ P A + W + V + V T + + S L
Sbjct: 118 PPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYL 177
Query: 199 VLTPKKEHHNTTFTCQ 214
LTP++ + +++CQ
Sbjct: 178 SLTPEQWKSHRSYSCQ 193
>pdb|1SY6|L Chain L, Crystal Structure Of Cd3gammaepsilon Heterodimer In
Complex With Okt3 Fab Fragment
Length = 213
Score = 36.2 bits (82), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 73/203 (35%), Gaps = 28/203 (13%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPHRNLSGFDRYA------MIG 83
P +A G +VT+ C + W + P R + + A G
Sbjct: 4 LTQSPAIMSASPGEKVTMTCSASSSVSYMNWYQQKSGTSPKRWIYDTSKLASGVPAHFRG 63
Query: 84 SDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAI-RSRFATLTVLVPPDPPR 136
S YSL I + +D A Y CQ + G + I R+ A + PP +
Sbjct: 64 SGSGTSYSLTISGMEAEDAATYYCQQWSSNPFTFGSGTKLEINRADTAPTVSIFPPSSEQ 123
Query: 137 IVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT- 193
+ G + C N P + W ID G+ N + D + +T
Sbjct: 124 LTSGG---------ASVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTY 172
Query: 194 -VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 173 SMSSTLTLTKDEYERHNSYTCEA 195
>pdb|3NH7|L Chain L, Crystal Structure Of The Neutralizing Fab Fragment Abd1556
Bound To The Bmp Type I Receptor Ia
pdb|3NH7|M Chain M, Crystal Structure Of The Neutralizing Fab Fragment Abd1556
Bound To The Bmp Type I Receptor Ia
pdb|3NH7|N Chain N, Crystal Structure Of The Neutralizing Fab Fragment Abd1556
Bound To The Bmp Type I Receptor Ia
pdb|3NH7|O Chain O, Crystal Structure Of The Neutralizing Fab Fragment Abd1556
Bound To The Bmp Type I Receptor Ia
Length = 213
Score = 36.2 bits (82), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 57/138 (41%), Gaps = 10/138 (7%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS+ +L I +D+A Y C T + G + LTVL P+ T
Sbjct: 63 GSNSGNTATLTISGTQAEDEADYYCSTFT-MSGNGTVFGGGTKLTVL---GQPKAAPSVT 118
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E++ L C+ ++ P A + W + V + V T + + S
Sbjct: 119 LFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASS 178
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 179 YLSLTPEQWKSHRSYSCQ 196
>pdb|2QHR|L Chain L, Crystal Structure Of The 13f6-1-2 Fab Fragment Bound To
Its Ebola Virus Glycoprotein Peptide Epitope
Length = 218
Score = 36.2 bits (82), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 46/185 (24%), Positives = 69/185 (37%), Gaps = 36/185 (19%)
Query: 57 VLQWTKDDFALGPHRNLSGF-DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI-- 113
V++ KD G H G DR++ GS D L I + +D+A Y C V I
Sbjct: 47 VMELKKD----GSHSTGDGIPDRFS--GSSSGADRYLSISNIQPEDEAIYICGVGDTIKE 100
Query: 114 --------------LGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIELECISAN 159
LG+P TLTV PP + ++ + L C+ +N
Sbjct: 101 QFVYVFGGGTKVTVLGQPK---STPTLTVF-PPSSEEL---------KENKATLVCLISN 147
Query: 160 GKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQAQNTA 219
P GT ++ T + +G + S L LT + + +FTCQ +
Sbjct: 148 FSPSGVTVAWKANGTPITQGVDTSNPTKEGNKFMASSFLHLTSDQWRSHNSFTCQVTHEG 207
Query: 220 DRTYK 224
D K
Sbjct: 208 DTVEK 212
>pdb|1E4W|L Chain L, Crossreactive Binding Of A Circularized Peptide To An
Anti- Tgfalpha Antibody Fab-Fragment
pdb|1E4X|L Chain L, Crossreactive Binding Of A Circularized Peptide To An
Anti-Tgfalpha Antibody Fab-Fragment
pdb|1E4X|M Chain M, Crossreactive Binding Of A Circularized Peptide To An
Anti-Tgfalpha Antibody Fab-Fragment
Length = 214
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 53/209 (25%), Positives = 79/209 (37%), Gaps = 37/209 (17%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA------- 80
+ P +A +G RVT+ CR D + L W F P + Y
Sbjct: 3 QMTQTPSSLSASLGDRVTISCRASQDISHYLNW----FQQKPDGTVKLLIYYTSTLHSGV 58
Query: 81 ---MIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LV 130
GS DYSL I + +D A Y CQ + G + AI+ A TV +
Sbjct: 59 PSRFSGSGSGTDYSLTISNLEEEDIAFYFCQQGGALPFTFGSGTKLAIKRADAAPTVSIF 118
Query: 131 PPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVD 188
PP ++ G + C N P + W IDG+ N + D
Sbjct: 119 PPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLDSWTDQD 167
Query: 189 GRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 168 SKDSTYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|2HRP|L Chain L, Antigen-Antibody Complex
pdb|2HRP|M Chain M, Antigen-Antibody Complex
Length = 218
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 48/204 (23%), Positives = 73/204 (35%), Gaps = 33/204 (16%)
Query: 34 PQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGPHRNLSGFDRYA------MI 82
P +G R T+ CR +D G + W + P +
Sbjct: 8 PASLAVSLGQRATISCRASESVDYYGKSFMNWFQQKPGQPPKLLIYAASNQGSGVPARFS 67
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPP 135
GS D+SL I+P+ DD A Y CQ S G R+ A + PP
Sbjct: 68 GSGSGTDFSLHIHPMEEDDSAMYFCQQSKEVPWTFGGGTKLEIKRADAAPTVSIFPPSSE 127
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W ID G+ N + D + +T
Sbjct: 128 QLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDST 176
Query: 194 --VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 177 YSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|2ZCK|L Chain L, Crystal Structure Of A Ternary Complex Between Psa, A
Substrat-Acyl Intermediate And An Activating Antibody
pdb|2ZCL|L Chain L, Crystal Structure Of Human Prostate Specific Antigen
Complexed With An Activating Antibody
Length = 218
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 47/208 (22%), Positives = 73/208 (35%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV-----IDKTGVLQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ C+ D + W + P NL+
Sbjct: 4 LTQSPASLAVSLGQRATISCKASQSVDFDGDSYMNWYQQKPGQPPKLLIFAASNLASGIP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVP 131
+ GS D++L I PV +D A Y CQ S G R+ A + P
Sbjct: 64 ARLSGSGSGTDFTLNIQPVEEEDAATYYCQQSNEDPYTFGGGTKLEIKRADAAPTVSIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W ID G+ N + D
Sbjct: 124 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDS 172
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 173 KDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|1MF2|L Chain L, Anti Hiv1 Protease Fab Complex
pdb|1MF2|M Chain M, Anti Hiv1 Protease Fab Complex
Length = 215
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 48/204 (23%), Positives = 73/204 (35%), Gaps = 33/204 (16%)
Query: 34 PQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGPHRNLSGFDRYA------MI 82
P +G R T+ CR +D G + W + P +
Sbjct: 8 PASLAVSLGQRATISCRASESVDYYGKSFMNWFQQKPGQPPKLLIYAASNQGSGVPARFS 67
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPP 135
GS D+SL I+P+ DD A Y CQ S G R+ A + PP
Sbjct: 68 GSGSGTDFSLHIHPMEEDDSAMYFCQQSKEVPWTFGGGTKLEIKRADAAPTVSIFPPSSE 127
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W ID G+ N + D + +T
Sbjct: 128 QLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDST 176
Query: 194 --VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 177 YSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|1F11|A Chain A, F124 Fab Fragment From A Monoclonal Anti-Pres2 Antibody
pdb|1F11|C Chain C, F124 Fab Fragment From A Monoclonal Anti-Pres2 Antibody
Length = 218
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 49/208 (23%), Positives = 75/208 (36%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV-----IDKTGVLQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ C+ D + W + P NL
Sbjct: 4 LTQSPASLAVSLGQRATISCKASQSVDYDGDSYMNWYQQKPGQPPKLLIYVASNLKSGIP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LVP 131
GS D++L I+PV +D A Y CQ S G + I+ A TV + P
Sbjct: 64 ARFSGSGSGTDFTLNIHPVEEEDAATYYCQQSNEDPFTFGSGTKLEIKRADAAPTVSIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W ID G+ N + D
Sbjct: 124 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDS 172
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 173 KDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>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 = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 36/144 (25%), Positives = 61/144 (42%), Gaps = 12/144 (8%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS+ +L I V D+A Y CQV + + LTVL P+
Sbjct: 59 DRFS--GSNSGNTATLTISRVEAGDEADYYCQVWDSN-SDHVVFGGGTQLTVL---GQPK 112
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 113 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 172
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 173 KYAASSYLSLTPEQWKSHRSYSCQ 196
>pdb|3PGF|L Chain L, Crystal Structure Of Maltose Bound Mbp With A
Conformationally Specific Synthetic Antigen Binder (Sab)
Length = 215
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 81/203 (39%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR + + W + P + S Y+ +
Sbjct: 4 QMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRF 63
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQVSTGI---LGEPA---IRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ S+ I G+ I+ A +V + PP
Sbjct: 64 SGSRSGTDFTLTISSLQPEDFATYYCQQSSYIPVTFGQGTKVEIKRTVAAPSVFIFPPSD 123
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 124 SQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 174
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 175 -SLSSTLTLSKADYEKHKVYACE 196
>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 = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 47/198 (23%), Positives = 79/198 (39%), Gaps = 27/198 (13%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL-SGFDRYAMI-----GSDE 86
P+ + VG RV++ C+ G + W + P + S RY+ + GS
Sbjct: 8 PKFMSTSVGDRVSVTCKASQNVGTHVAWYQQKPGQSPKTLIYSASYRYSGVPDRFTGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDPPRIVQ 139
D++L I V +D A Y CQ V+ G + I+ A +V + PP ++
Sbjct: 68 GTDFTLTIRDVQSEDAAEYFCQQYNLFPVTFGGGTKLEIKRTVAAPSVFIFPPSDEQLKS 127
Query: 140 GDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRRTTVKS 196
G + C+ N P A + W + + S VTE+ S D ++ S
Sbjct: 128 GTA---------SVVCLLNNFYPREAAVAWKVDNALQSGNSQESVTEQDSADSTY-SLSS 177
Query: 197 TLVLTPKKEHHNTTFTCQ 214
TL L+ + + C+
Sbjct: 178 TLTLSKADYEKHKVYACE 195
>pdb|2ZCH|L Chain L, Crystal Structure Of Human Prostate Specific Antigen
Complexed With An Activating Antibody
Length = 215
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 47/208 (22%), Positives = 73/208 (35%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV-----IDKTGVLQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ C+ D + W + P NL+
Sbjct: 4 LTQSPASLAVSLGQRATISCKASQSVDFDGDSYMNWYQQKPGQPPKLLIFAASNLASGIP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVP 131
+ GS D++L I PV +D A Y CQ S G R+ A + P
Sbjct: 64 ARLSGSGSGTDFTLNIQPVEEEDAATYYCQQSNEDPYTFGGGTKLEIKRADAAPTVSIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W ID G+ N + D
Sbjct: 124 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDS 172
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 173 KDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|1Z3G|L Chain L, Crystal Structure Of Complex Between Pvs25 And Fab
Fragment Of Malaria Transmission Blocking Antibody 2a8
pdb|1Z3G|M Chain M, Crystal Structure Of Complex Between Pvs25 And Fab
Fragment Of Malaria Transmission Blocking Antibody 2a8
Length = 213
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 46/204 (22%), Positives = 72/204 (35%), Gaps = 30/204 (14%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPHRNLSGFDRYA------MIG 83
P +A G +VT+ C + W + P R + + A G
Sbjct: 4 LTQSPAIMSASPGEKVTMTCSASSSVSYMNWYQQKSGTSPKRWIYDTSKLASGVPAHFRG 63
Query: 84 SDEEGDYSLEIYPVMLDDDARYQCQ--------VSTGILGEPAIRSRFATLTVLVPPDPP 135
S YSL I + +D A Y CQ +G E R+ A + PP
Sbjct: 64 SGSGTSYSLTISGMEAEDAATYYCQQWSSNPPTFGSGTKLE-INRADTAPTVSIFPPSSE 122
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W ID G+ N + D + +T
Sbjct: 123 QLTSGG---------ASVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDST 171
Query: 194 --VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 172 YSMSSTLTLTKDEYERHNSYTCEA 195
>pdb|3TT1|L Chain L, Crystal Structure Of Leut In The Outward-Open Conformation
In Complex With Fab
pdb|3TT1|M Chain M, Crystal Structure Of Leut In The Outward-Open Conformation
In Complex With Fab
Length = 218
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 47/208 (22%), Positives = 72/208 (34%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV-----IDKTGVLQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ C+ D + W + P NL
Sbjct: 4 LTQSPASLAVSLGQRATISCKASQSVDYDGDSYMNWYQQKPGQPPKLLIYGASNLESGIP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVP 131
GS D++L I+PV +D A Y CQ S G R+ A + P
Sbjct: 64 ARFSGSGSGTDFTLNIHPVEEEDAATYYCQQSNEDPYTFGGGTKLEIKRADAAPTVSIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W ID G+ N + D
Sbjct: 124 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDS 172
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 173 KDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>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 = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 64/155 (41%), Gaps = 17/155 (10%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I + +D+A Y C G + +TVL P
Sbjct: 62 DRFS--GSKSGNTASLTISGLQAEDEAHYYCW---SFAGSYYVFGTGTDVTVLGQPKANP 116
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
V TL+ E++ L C+ ++ P A + W V + V T+ +
Sbjct: 117 TV---TLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNN 173
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQAQ---NTADRT 222
+ S L LTP++ + +++CQ NT ++T
Sbjct: 174 KYAASSYLSLTPEQWKSHRSYSCQVTHEGNTVEKT 208
>pdb|1ZVO|A Chain A, Semi-Extended Solution Structure Of Human Myeloma
Immunoglobulin D Determined By Constrained X-Ray
Scattering
pdb|1ZVO|B Chain B, Semi-Extended Solution Structure Of Human Myeloma
Immunoglobulin D Determined By Constrained X-Ray
Scattering
Length = 214
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 36/144 (25%), Positives = 60/144 (41%), Gaps = 14/144 (9%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I + +D+A Y C L + TLTVL P+
Sbjct: 61 DRFS--GSKSGTSASLAISGLRSEDEADYYCAAWDDSLW---VFGGGTTLTVL---SQPK 112
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 113 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 172
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 173 KYAASSYLSLTPEQWKSHRSYSCQ 196
>pdb|3TT3|L Chain L, Crystal Structure Of Leut In The Inward-Open Conformation
In Complex With Fab
Length = 218
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 49/197 (24%), Positives = 73/197 (37%), Gaps = 33/197 (16%)
Query: 41 VGSRVTLPCRVIDK-----TGVLQWTKDDFALGPH------RNLSGFDRYAMIGSDEEGD 89
+G R T+ CR + + W + P NL GS D
Sbjct: 15 LGQRATISCRASESVDTYDNSFIHWYQQKPGQPPKLLIYRASNLESGIPARFSGSGSRTD 74
Query: 90 YSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LVPPDPPRIVQGDT 142
++L I PV DD A Y CQ S G + I+ A TV + PP ++ G
Sbjct: 75 FTLTINPVETDDVATYYCQQSNEDPLTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGA 134
Query: 143 LYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTL 198
+ C N P + W IDG+ N + D + +T + STL
Sbjct: 135 ---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSMSSTL 183
Query: 199 VLTPKKEHHNTTFTCQA 215
LT + + ++TC+A
Sbjct: 184 TLTKDEYERHNSYTCEA 200
>pdb|3B5H|A Chain A, Crystal Structure Of The Extracellular Portion Of
Hab18gCD147
pdb|3B5H|B Chain B, Crystal Structure Of The Extracellular Portion Of
Hab18gCD147
pdb|3B5H|C Chain C, Crystal Structure Of The Extracellular Portion Of
Hab18gCD147
pdb|3B5H|D Chain D, Crystal Structure Of The Extracellular Portion Of
Hab18gCD147
Length = 184
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 45/183 (24%), Positives = 75/183 (40%), Gaps = 28/183 (15%)
Query: 557 DRGAGVNLLCDVDGNPAPEIT---WIHE----DSDKVVGNSPNLTLLMTSDDLAGRYYCK 609
D G+ + L C ++ + A E+T W+ D + G + SDD G Y C
Sbjct: 11 DLGSKILLTCSLN-DSATEVTGHRWLKGGVVLKEDALPGQKTEFKV--DSDDQWGEYSC- 66
Query: 610 ASVMGFPEVGAEATVYLKGRPTIISHRTQFGI-PGDTARVECSAFSIPPPEKVTWSYRGE 668
+ PE A + L G P + + ++ I G+TA + C + S+PP W Y+
Sbjct: 67 ---VFLPEPMGTANIQLHGPPRVKAVKSSEHINEGETAMLVCKSESVPPVTDWAW-YK-- 120
Query: 669 EIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHF-------GVYNCSVSNPYGSDSVEI 721
+ S+D +++ S+ R H G Y C+ ++ GSD I
Sbjct: 121 ---ITDSEDKALMNGSESRFFVSSSQGRSELHIENLNMEADPGQYRCNGTSSKGSDQAII 177
Query: 722 MLK 724
L+
Sbjct: 178 TLR 180
Score = 34.3 bits (77), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 37/144 (25%), Positives = 61/144 (42%), Gaps = 19/144 (13%)
Query: 403 DRGAGVNLLCDVDGNPAPEIT---WIHE----DSDKVVGNSPNLTLLMTSDDLAGRYYCK 455
D G+ + L C ++ + A E+T W+ D + G + SDD G Y C
Sbjct: 11 DLGSKILLTCSLN-DSATEVTGHRWLKGGVVLKEDALPGQKTEFKV--DSDDQWGEYSC- 66
Query: 456 ASVMGFPEVGAEATVYLKGRPTIISHRTQFGI-PGDTARVECSAFSIPPPEKVTW----S 510
+ PE A + L G P + + ++ I G+TA + C + S+PP W
Sbjct: 67 ---VFLPEPMGTANIQLHGPPRVKAVKSSEHINEGETAMLVCKSESVPPVTDWAWYKITD 123
Query: 511 YRGEEIGVGSSDDYSVHNDVGKSE 534
+ + GS + V + G+SE
Sbjct: 124 SEDKALMNGSESRFFVSSSQGRSE 147
>pdb|3LMJ|L Chain L, Structure Of Human Anti Hiv 21c Fab
pdb|3LQA|L Chain L, Crystal Structure Of Clade C Gp120 In Complex With Scd4
And
Length = 217
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 45/204 (22%), Positives = 76/204 (37%), Gaps = 22/204 (10%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPCRVIDKT---GVLQWTKDDFALGPH-------RNLSGF- 76
Q +P +A G +VT+ C + W + P + SG
Sbjct: 1 QSVLTQPPSVSAAPGQKVTISCSGSSSNIGKNYVSWYQQLPGAAPKLLIFDDTQRPSGIP 60
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS +L I + D+A Y C L + LTVL P+
Sbjct: 61 DRFS--GSKSGTSATLAITGLQTGDEADYYCGTWDSSLSTGQLFGGGTKLTVL---GQPK 115
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 116 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 175
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 176 KYAASSYLSLTPEQWKSHRSYSCQ 199
>pdb|2B0S|L Chain L, Crystal Structure Analysis Of Anti-Hiv-1 V3 Fab 2219 In
Complex With Mn Peptide
pdb|2B1A|L Chain L, Crystal Structure Analysis Of Anti-Hiv-1 V3 Fab 2219 In
Complex With Ug1033 Peptide
pdb|2B1H|L Chain L, Crystal Structure Analysis Of Anti-Hiv-1 V3 Fab 2219 In
Complex With Ug29 Peptide
Length = 215
Score = 35.8 bits (81), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 43/205 (20%), Positives = 76/205 (37%), Gaps = 23/205 (11%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPCRVID---KTGVLQWTKDDFALGP--------HRNLSGF 76
Q +P + G R+++ C + + W + P HR+
Sbjct: 1 QSVLTQPPSASGTPGQRISISCSGTSSNVENNYVYWYQHLPGTAPKLLIYRNDHRSSGIP 60
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEP-AIRSRFATLTVLVPPDPP 135
DR++ S SL I + +D+ Y C G P + LTVL P
Sbjct: 61 DRFSASKSGTSA--SLAISGLRPEDEGDYYCAAWDDSRGGPDWVFGGGTKLTVLAQP--- 115
Query: 136 RIVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDG 189
+ TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 116 KAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSN 175
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 176 NKYAASSYLSLTPEQWKSHKSYSCQ 200
>pdb|1ADQ|L Chain L, Crystal Structure Of A Human Igm Rheumatoid Factor Fab In
Complex With Its Autoantigen Igg Fc
Length = 213
Score = 35.8 bits (81), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 57/138 (41%), Gaps = 10/138 (7%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS+ +L I V D+A Y CQV + A+ LTVL P+ T
Sbjct: 62 GSNSGNTATLTISRVEAGDEADYYCQVWDSS-SDHAVFGGGTKLTVL---GQPKAAPSVT 117
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E++ L C+ ++ P A + W V + V T + + S
Sbjct: 118 LFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTTPSKQSNNKYAASS 177
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 178 YLSLTPEQWKSHKSYSCQ 195
>pdb|3SOB|L Chain L, The Structure Of The First Ywtd Beta Propeller Domain Of
Lrp6 In Complex With A Fab
Length = 237
Score = 35.8 bits (81), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 52/222 (23%), Positives = 90/222 (40%), Gaps = 29/222 (13%)
Query: 12 WVLLALSMGSLA--QYREQKFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALG 68
++L ++ + S+A Y + + P +A VG RVT+ CR D + + W +
Sbjct: 7 FLLASMFVFSIATNAYADIQMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKA 66
Query: 69 PHRNL-SGFDRYAMI-----GSDEEGDYSLEIYPVMLDDDARYQCQVS------TGILGE 116
P + S Y+ + GS D++L I + +D A Y CQ S G +
Sbjct: 67 PKLLIYSASFLYSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQSYTTPPTFGQGTK 126
Query: 117 PAIRSRFATLTVLV-PPDPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGT 174
I+ A +V + PP ++ G + C+ N P A++ W
Sbjct: 127 VEIKRTVAAPSVFIFPPSDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNAL 177
Query: 175 VMSNVR--VTEEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
N + VTE+ S D ++ STL L+ + + C+
Sbjct: 178 QSGNSQESVTEQDSKDSTY-SLSSTLTLSKADYEKHKVYACE 218
>pdb|1IQW|L Chain L, Crystal Structure Of The Fab Fragment Of The Mouse Anti-
Human Fas Antibody Hfe7a
Length = 218
Score = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 47/208 (22%), Positives = 72/208 (34%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV-----IDKTGVLQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ C+ D + W + P NL
Sbjct: 4 LTQSPASLAVSLGQRATISCKASQSVDYDGDSYMNWYQQKPGQPPKLLIYAASNLESGIP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVP 131
GS D++L I+PV +D A Y CQ S G R+ A + P
Sbjct: 64 ARFSGSGSGTDFTLNIHPVEEEDAATYYCQQSNEDPRTFGGGTKLEIKRADAAPTVSIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W ID G+ N + D
Sbjct: 124 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDS 172
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 173 KDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|3RAJ|L Chain L, Crystal Structure Of Human Cd38 In Complex With The Fab
Fragment Of Antibody Hb7
Length = 211
Score = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 51/194 (26%), Positives = 79/194 (40%), Gaps = 32/194 (16%)
Query: 41 VGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGF--------DRYAMIGSDEEGDYS 91
+G RVT+ C+ D L W + P +SG R++ GS + DY+
Sbjct: 14 LGDRVTITCKASEDIYNRLAWYQQKPGNAPRLLISGATSLETGVPSRFSGSGSGK--DYT 71
Query: 92 LEIYPVMLDDDARYQCQ--VSTGILG---EPAIRSRFATLTV-LVPPDPPRIVQGDTLYT 145
L I + +D A Y CQ ST G + I+ A TV + PP ++ G
Sbjct: 72 LSITSLQTEDVATYYCQQYWSTPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGA--- 128
Query: 146 TEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLT 201
+ C N P + W ID G+ N + D + +T + STL LT
Sbjct: 129 ------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSSTLTLT 180
Query: 202 PKKEHHNTTFTCQA 215
+ + ++TC+A
Sbjct: 181 KDEYERHNSYTCEA 194
>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 = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 36/144 (25%), Positives = 61/144 (42%), Gaps = 12/144 (8%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS+ +L I V D+A Y CQV + + LTVL P+
Sbjct: 59 DRFS--GSNSGNTATLTISRVEAGDEADYYCQVWDSN-SDHVVFGGGTQLTVL---GQPK 112
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W V + V T+ +
Sbjct: 113 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNN 172
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 173 KYAASSYLSLTPEQWKSHRSYSCQ 196
>pdb|4G6A|D Chain D, Structure Of The Hepatitis C Virus Envelope Glycoprotein
E2 Antigenic Region 412-423 Bound To The Broadly
Neutralizing Antibody Ap33
pdb|4G6A|L Chain L, Structure Of The Hepatitis C Virus Envelope Glycoprotein
E2 Antigenic Region 412-423 Bound To The Broadly
Neutralizing Antibody Ap33
Length = 218
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 50/209 (23%), Positives = 76/209 (36%), Gaps = 31/209 (14%)
Query: 27 EQKFAMEPQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGPH------RNLSG 75
E P +G R T+ CR +D G L W + P NL+
Sbjct: 1 ELTLTQSPASLAVSLGQRATISCRASESVDGYGNSFLHWFQQKPGQPPKLLIYLASNLNS 60
Query: 76 FDRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTVL 129
GS D++L I PV DD A Y CQ + G + I+ A +V
Sbjct: 61 GVPARFSGSGSRTDFTLTIDPVEADDAATYYCQQNNVDPWTFGGGTKLEIKRAVAAPSVF 120
Query: 130 V-PPDPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEA 185
+ PP ++ G + C+ N P A++ W N + VTE+
Sbjct: 121 IFPPSDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQD 171
Query: 186 SVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
S D ++ STL L+ + + C+
Sbjct: 172 SKDSTY-SLSSTLTLSKADYEKHKVYACE 199
>pdb|3CLE|L Chain L, Hiv Neutralizing Monoclonal Antibody Yz23
pdb|3CLF|L Chain L, Hiv Neutralizing Monoclonal Antibody Yz23
Length = 214
Score = 35.4 bits (80), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 47/195 (24%), Positives = 78/195 (40%), Gaps = 33/195 (16%)
Query: 41 VGSRVTLPCRVIDKTG-VLQWTKDD--------FALGPHRNLSGFDRYAMIGSDEEGDYS 91
VG RV++ C+ G ++ W + L +R DR+ GS D++
Sbjct: 15 VGDRVSISCKASQNVGNIIAWYQQKPGQSPKALIYLASYRYSGVPDRFT--GSGSGTDFT 72
Query: 92 LEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLY 144
L I V +D A Y CQ ++ G + ++ A TV + PP ++ G
Sbjct: 73 LTISNVQSEDLAEYFCQQYSSFPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGA-- 130
Query: 145 TTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVL 200
+ C N P + W IDG+ N + D + +T + STL L
Sbjct: 131 -------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSMSSTLTL 181
Query: 201 TPKKEHHNTTFTCQA 215
T + + ++TC+A
Sbjct: 182 TKDEYERHNSYTCEA 196
>pdb|3QUM|A Chain A, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
pdb|3QUM|C Chain C, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
Length = 218
Score = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 48/195 (24%), Positives = 72/195 (36%), Gaps = 29/195 (14%)
Query: 41 VGSRVTLPCRV---IDKTGV--LQWTKDDFALGPH------RNLSGFDRYAMIGSDEEGD 89
+G R T+ CR ID G + W + P NL GS D
Sbjct: 15 LGQRATISCRASESIDLYGFTFMHWYQQKPGQPPKILIYRASNLESGIPARFSGSGSRTD 74
Query: 90 YSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDT 142
++L I PV DD A Y CQ + G + I+ A TV + PP ++ G
Sbjct: 75 FTLTINPVEADDVATYYCQQTHEDPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGA 134
Query: 143 LYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTTVKSTLVL 200
+ C N P + W IDG+ + + ++ STL L
Sbjct: 135 ---------SVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTLTL 185
Query: 201 TPKKEHHNTTFTCQA 215
T + + ++TC+A
Sbjct: 186 TKDEYERHNSYTCEA 200
>pdb|3KVQ|A Chain A, Crystal Structure Of Vegfr2 Extracellular Domain D7
Length = 108
Score = 35.4 bits (80), Expect = 0.16, Method: Composition-based stats.
Identities = 26/71 (36%), Positives = 35/71 (49%), Gaps = 10/71 (14%)
Query: 405 GAGVNLLCDVDGNPAPEITWIH------EDSDKVV--GNSPNLTLLMTSDDLAGRYYCKA 456
G + + C GNP P+I W EDS V+ GN NLT+ + G Y C+A
Sbjct: 25 GESIEVSCTASGNPPPQIMWFKDNETLVEDSGIVLKDGNR-NLTIRRVRKEDEGLYTCQA 83
Query: 457 -SVMGFPEVGA 466
SV+G +V A
Sbjct: 84 CSVLGCAKVEA 94
Score = 35.4 bits (80), Expect = 0.16, Method: Composition-based stats.
Identities = 26/71 (36%), Positives = 35/71 (49%), Gaps = 10/71 (14%)
Query: 559 GAGVNLLCDVDGNPAPEITWIH------EDSDKVV--GNSPNLTLLMTSDDLAGRYYCKA 610
G + + C GNP P+I W EDS V+ GN NLT+ + G Y C+A
Sbjct: 25 GESIEVSCTASGNPPPQIMWFKDNETLVEDSGIVLKDGNR-NLTIRRVRKEDEGLYTCQA 83
Query: 611 -SVMGFPEVGA 620
SV+G +V A
Sbjct: 84 CSVLGCAKVEA 94
Score = 35.0 bits (79), Expect = 0.21, Method: Composition-based stats.
Identities = 30/104 (28%), Positives = 48/104 (46%), Gaps = 16/104 (15%)
Query: 621 EATVYLKGRPTIISH-RTQFGIPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYS 679
+ TV + PTI + Q G++ V C+A PPP+ + W D+ +
Sbjct: 2 QLTVLERVAPTITGNLENQTTSIGESIEVSCTASGNPPPQ-IMW----------FKDNET 50
Query: 680 VLEDP---LKEGIKSTLIIRESRHDHFGVYNCSVSNPYGSDSVE 720
++ED LK+G ++ L IR R + G+Y C + G VE
Sbjct: 51 LVEDSGIVLKDGNRN-LTIRRVRKEDEGLYTCQACSVLGCAKVE 93
Score = 29.6 bits (65), Expect = 9.5, Method: Composition-based stats.
Identities = 24/90 (26%), Positives = 39/90 (43%), Gaps = 9/90 (10%)
Query: 126 LTVLVPPDPPRIVQGDTLYTTEDREIELECISANGKPPAEITWIDGTGTVMSNVRVTEEA 185
LTVL P + T+ IE+ C +A+G PP +I W T++ + + +
Sbjct: 3 LTVLERVAPTITGNLENQTTSIGESIEVSC-TASGNPPPQIMWFKDNETLVEDSGIVLK- 60
Query: 186 SVDGRRTTVKSTLVLTPKKEHHNTTFTCQA 215
DG R L + ++ +TCQA
Sbjct: 61 --DGNR-----NLTIRRVRKEDEGLYTCQA 83
>pdb|4FQ1|L Chain L, Crystal Structure Of Pgt121 Fab
pdb|4FQC|L Chain L, Crystal Structure Of Pgt121 Fab Bound To A Complex-Type
Sialylated N- Glycan
Length = 211
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 31/130 (23%), Positives = 54/130 (41%), Gaps = 9/130 (6%)
Query: 91 SLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDRE 150
+L I V D+A Y C + + + TLTVL P+ TL+ E
Sbjct: 67 TLTITSVEAGDEADYYCHIWDSRVPTKWVFGGGTTLTVL---GQPKAAPSVTLFPPSSEE 123
Query: 151 IE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKK 204
++ L C+ ++ P A + W + V + V T + + S L LTP++
Sbjct: 124 LQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQ 183
Query: 205 EHHNTTFTCQ 214
+ +++CQ
Sbjct: 184 WKSHRSYSCQ 193
>pdb|1KCS|L Chain L, Crystal Structure Of Antibody Pc282 In Complex With Ps1
Peptide
pdb|1KCV|L Chain L, Crystal Structure Of Antibody Pc282
Length = 214
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 35/81 (43%), Gaps = 7/81 (8%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNLSGF-DRYAMI-----GSDE 86
P+ VG VTL C+ + G + W + P + G +RY + GS
Sbjct: 8 PKSMGMSVGEAVTLNCKASENVGTYVSWYQQKPGQSPVLLIYGASNRYTGVPDRFTGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQC 107
D++L I V DDDA Y C
Sbjct: 68 ATDFTLTISSVQADDDADYYC 88
>pdb|3CFD|L Chain L, Purple-fluorescent Antibody Ep2-25c10 In Complex With Its
Stilbene Hapten
pdb|3CFD|A Chain A, Purple-fluorescent Antibody Ep2-25c10 In Complex With Its
Stilbene Hapten
pdb|3CFE|L Chain L, Crystal Structure Of Purple-Fluorescent Antibody Ep2-25c10
pdb|3CFE|A Chain A, Crystal Structure Of Purple-Fluorescent Antibody Ep2-25c10
Length = 214
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 52/198 (26%), Positives = 76/198 (38%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGSDEEG 88
+A +G RVT+ CR D + L W + R SG R++ GS
Sbjct: 12 SASLGDRVTISCRASQDISNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFS--GSGSGT 69
Query: 89 DYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
DYSL I + DD A Y CQ T G R+ A + PP ++ G
Sbjct: 70 DYSLTISNLDQDDIATYFCQQGTTLPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGG 129
Query: 142 TLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W ID G+ N + D + +T + ST
Sbjct: 130 A---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 179 LTLTKDEYERHNSYTCEA 196
>pdb|1Z9M|A Chain A, Crystal Structure Of Nectin-Like Molecule-1 Protein Domain
1
pdb|1Z9M|B Chain B, Crystal Structure Of Nectin-Like Molecule-1 Protein Domain
1
Length = 145
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 48/106 (45%), Gaps = 11/106 (10%)
Query: 36 DQTAVVGSRVTLPCRVID-KTGVLQWT---KDDFALGPHRNLSGFDRYAMIGSDEEGDYS 91
D+T V G V L C+V D + LQW+ + G R L +R ++ S + S
Sbjct: 47 DETVVAGGTVVLKCQVKDHEDSSLQWSNPAQQTLYFGEKRALRD-NRIQLVTSTPH-ELS 104
Query: 92 LEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRI 137
+ I V L D+ Y C + T +R+ + +TVL P P I
Sbjct: 105 ISISNVALADEGEYTCSIFTM-----PVRTAKSLVTVLGIPQKPII 145
>pdb|1JFQ|L Chain L, Antigen-Binding Fragment Of The Murine Anti-Phenylarsonate
Antibody 36-71, "fab 36-71"
Length = 215
Score = 35.4 bits (80), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 80/202 (39%), Gaps = 33/202 (16%)
Query: 34 PQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGS 84
P +A +G RV++ CR D L W + R+ SG R++ GS
Sbjct: 8 PSSLSASLGDRVSISCRASQDINNFLNWYQQKPDGTIKLLIYFTSRSQSGVPSRFS--GS 65
Query: 85 DEEGDYSLEIYPVMLDDDARYQCQVSTGI---LG---EPAIRSRFATLTV-LVPPDPPRI 137
DYSL I + +D A Y CQ + G + I+ A TV + PP ++
Sbjct: 66 GSGTDYSLTISNLEQEDIATYFCQQGNALPRTFGGGTKLEIKRADAAPTVSIFPPSSEQL 125
Query: 138 VQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT-- 193
G + C N P + W ID G+ N + D + +T
Sbjct: 126 TSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYS 174
Query: 194 VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 175 MSSTLTLTKDEYERHNSYTCEA 196
>pdb|1NSN|L Chain L, The Crystal Structure Of Antibody N10-Staphylococcal
Nuclease Complex At 2.9 Angstroms Resolution
Length = 218
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 50/208 (24%), Positives = 75/208 (36%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTGV-----LQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ CR + W + P NL
Sbjct: 4 LTQSPSSLAVSLGQRATISCRASQSVSTSSFRYMHWYQQKPGQPPRLLIKYASNLESGVP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI---LG---EPAIRSRFATLTV-LVP 131
GS D++L I+PV +D A Y CQ S I G + I+ A TV + P
Sbjct: 64 ARFSGSGSGTDFTLNIHPVEEEDTATYYCQHSWEIPYTFGGGTKLEIKRADAAPTVSIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W IDG+ N + D
Sbjct: 124 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDS 172
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 173 KDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|3TWC|L Chain L, Crystal Structure Of Broad And Potent Hiv-1 Neutralizing
Antibody Pgt127 In Complex With Man9
Length = 211
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 58/144 (40%), Gaps = 13/144 (9%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL + + DD+ Y C G I LTVL P+
Sbjct: 57 DRFS--GSKSGSTASLTVSGLQADDEGVYYCSSLVGNWD--VIFGGGTKLTVL---GQPK 109
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 110 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 169
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 170 KYAASSYLSLTPEQWKSHRSYSCQ 193
>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 = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 50/205 (24%), Positives = 80/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCR---VIDKTGVLQWTKDDFALGPH------RNLSGFDRY 79
+ P +A VG RVT+ CR VI ++ L W + P NL+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQVIRRS--LAWYQQKPGKAPKLLIYAASNLASGVPS 60
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTVLV-PP 132
GS D++L I + +D A Y CQ S G + I+ A +V + PP
Sbjct: 61 RFSGSGSGTDFTLTISSLQPEDFATYYCQQSNTSPLTFGQGTKVEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>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 = 35.0 bits (79), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 80/202 (39%), Gaps = 33/202 (16%)
Query: 34 PQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGS 84
P +A +G RV++ CR D L W + R+ SG R++ GS
Sbjct: 8 PSSLSASLGDRVSISCRASQDINNFLNWYQQKPDGTIKLLIYFTSRSQSGVPSRFS--GS 65
Query: 85 DEEGDYSLEIYPVMLDDDARYQCQVSTGI---LG---EPAIRSRFATLTV-LVPPDPPRI 137
DYSL I + +D A Y CQ + G + I+ A TV + PP ++
Sbjct: 66 GSGTDYSLTISNLEQEDIATYFCQQGNALPRTFGGGTKLEIKRADAAPTVSIFPPSSEQL 125
Query: 138 VQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT-- 193
G + C N P + W ID G+ N + D + +T
Sbjct: 126 TSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYS 174
Query: 194 VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 175 MSSTLTLTKDEYERHNSYTCEA 196
>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 = 35.0 bits (79), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 49/207 (23%), Positives = 82/207 (39%), Gaps = 31/207 (14%)
Query: 27 EQKFAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL-------SGF-D 77
E + P +A VG RVT+ CR + L W + P + SG
Sbjct: 2 ELQMTQSPSSLSASVGDRVTITCRASQDISIRLNWYQQKPGKAPKLLIYDASTLESGVPS 61
Query: 78 RYAMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV- 130
R++ GS D++L I + +D A Y CQ ++ G + I+ A +V +
Sbjct: 62 RFS--GSGSGTDFTLTISSLQPEDFATYYCQQFNSYPLTFGGGTKVEIKRTVAAPSVFIF 119
Query: 131 PPDPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASV 187
PP ++ G + C+ N P A++ W + + S VTE+ S
Sbjct: 120 PPSDEQLKSGTA---------SVACLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSK 170
Query: 188 DGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
D ++ STL L+ + + C+
Sbjct: 171 DNTY-SLSSTLTLSKADYEKHKVYACE 196
>pdb|4D9L|L Chain L, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|M Chain M, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|N Chain N, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|O Chain O, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
Length = 215
Score = 35.0 bits (79), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 46/205 (22%), Positives = 76/205 (37%), Gaps = 24/205 (11%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPC----RVIDKTGVLQWTKDDFALGPHRNLSGF------- 76
Q +P + G RVT+ C I + W + P + G
Sbjct: 1 QSVLTQPPSVSGAPGQRVTISCTGSSSNIGAHYDVHWYQQLPGTAPKLLIYGNSNRPSGV 60
Query: 77 -DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPP 135
DR++ GS SL I + +D+A Y CQ L F T T + P
Sbjct: 61 PDRFS--GSKSGTSASLAITGLQAEDEADYYCQSYDSSLS----GYVFGTGTKVTVLGQP 114
Query: 136 RIVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDG 189
+ TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 115 KANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSN 174
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 175 NKYAASSYLSLTPEQWKSHRSYSCQ 199
>pdb|3C08|L Chain L, Crystal Structure The Fab Fragment Of MatuzumabEMD72000
(FAB72000)
pdb|3C09|L Chain L, Crystal Structure The Fab Fragment Of Matuzumab (Fab72000)
In Complex With Domain Iii Of The Extracellular Region
Of Egfr
pdb|3C09|B Chain B, Crystal Structure The Fab Fragment Of Matuzumab (Fab72000)
In Complex With Domain Iii Of The Extracellular Region
Of Egfr
Length = 212
Score = 35.0 bits (79), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 45/202 (22%), Positives = 74/202 (36%), Gaps = 26/202 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPH------RNLSGFDRYAMI 82
+ P +A VG RVT+ C + W + P NL+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCSASSSVTYMYWYQQKPGKAPKLLIYDTSNLASGVPSRFS 62
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDPP 135
GS DY+ I + +D A Y CQ + G + I+ A +V + PP
Sbjct: 63 GSGSGTDYTFTISSLQPEDIATYYCQQWSSHIFTFGQGTKVEIKRTVAAPSVFIFPPSDE 122
Query: 136 RIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRRT 192
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 QLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY- 172
Query: 193 TVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 173 SLSSTLTLSKADYEKHKVYACE 194
>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 = 35.0 bits (79), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 47/200 (23%), Positives = 75/200 (37%), Gaps = 29/200 (14%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPHRNLSGF-DRYAMI-----GSDE 86
P+ + VG RVTL C+ + + W + P + G +RY + GS
Sbjct: 8 PKSMSMSVGERVTLTCKASENVVTYVSWYQQKPEQSPKLLIYGASNRYTGVPDRFTGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQC-------QVSTGILGEPAIRSRFATLTVLVPPDPPRIVQ 139
D++L I V +D A Y C G R+ A + PP ++
Sbjct: 68 ATDFTLTISSVQAEDLADYHCGQGYSYPYTFGGGTKLELKRADAAPTVSIFPPSSEQLTS 127
Query: 140 GDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VK 195
G + C N P + W IDG+ N + D + +T +
Sbjct: 128 GGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKDSTYSMS 176
Query: 196 STLVLTPKKEHHNTTFTCQA 215
STL LT + + ++TC+A
Sbjct: 177 STLTLTKDEYERHNSYTCEA 196
>pdb|3THM|L Chain L, Crystal Structure Of Fas Receptor Extracellular Domain In
Complex With Fab Ep6b_b01
Length = 216
Score = 35.0 bits (79), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 61/144 (42%), Gaps = 12/144 (8%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I ++ +D+A Y C L E + +TVL P+
Sbjct: 61 DRFS--GSKSGTTASLAIRDLLSEDEADYYCSTWDDTL-EGWVFGGGTKVTVL---GQPK 114
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 115 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 174
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 175 KYAASSYLSLTPEQWKSHRSYSCQ 198
>pdb|3NCJ|L Chain L, Crystal Structure Of Fab15 Mut8
Length = 214
Score = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 49/205 (23%), Positives = 81/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR G+ L W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQSIGLYLAWYQQKPGKAPKLLIYAASSLQSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI---LGEPA---IRSRFATLTVLV-PP 132
+ GS D++L I + +D A Y CQ + G+ I+ A +V + PP
Sbjct: 63 S--GSGSGTDFTLTISSLQPEDFATYYCQQGNTLPYTFGQGTKVEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>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 = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 49/205 (23%), Positives = 81/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR G+ L W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQSIGLYLAWYQQKPGKAPKLLIYAASSLQSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI---LGEPA---IRSRFATLTVLV-PP 132
+ GS D++L I + +D A Y CQ + G+ I+ A +V + PP
Sbjct: 63 S--GSGSGTDFTLTISSLQPEDFATYYCQQGNTLSYTFGQGTKVEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>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 = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 55/138 (39%), Gaps = 10/138 (7%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS SL I + +D+A Y C + G R F T L P+ T
Sbjct: 66 GSKSGNTASLTISGLQAEDEADYYC---SSYAGSTTFR-VFGGGTKLTVRGQPKAAPSVT 121
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E++ L C+ ++ P A + W + V + V T + + S
Sbjct: 122 LFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASS 181
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 182 YLSLTPEQWKSHRSYSCQ 199
>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 = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 48/216 (22%), Positives = 82/216 (37%), Gaps = 29/216 (13%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPC----RVIDKTGVLQWTKDDFALGP--------HRNLSG 75
Q +P+ + G VT+ C R + + W + P R+
Sbjct: 1 QSELTQPRSVSGSPGQSVTISCTGTSRDVGGYNYVSWYQQHPGKAPKLIIHDVIERSSGV 60
Query: 76 FDRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPP 135
DR++ GS SL I + +D+A Y C G + +TVL P
Sbjct: 61 PDRFS--GSKSGNTASLTISGLQAEDEADYYCW---SFAGSYYVFGTGTDVTVLGQPKAN 115
Query: 136 RIVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDG 189
V TL+ E++ L C+ ++ P A + W V + V T+ +
Sbjct: 116 PTV---TLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSN 172
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQAQ---NTADRT 222
+ S L LTP++ + +++CQ NT ++T
Sbjct: 173 NKYAASSYLSLTPEQWKSHRSYSCQVTHEGNTVEKT 208
>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 = 35.0 bits (79), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 50/205 (24%), Positives = 80/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR D L W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDINNYLNWYQQKPGKAPKLLIYYTSTLHSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI---LGEPA---IRSRFATLTVLV-PP 132
+ GS DY+L I + +D A Y CQ + G+ I+ A +V + PP
Sbjct: 63 S--GSGSGTDYTLTISSLQPEDFATYYCQQGNTLPPTFGQGTKVEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>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 = 35.0 bits (79), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 52/208 (25%), Positives = 83/208 (39%), Gaps = 35/208 (16%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL----SGFD-----R 78
+ P +A +G RV+L CR + +G L W + G + L S D R
Sbjct: 3 QMTQSPSSLSASLGERVSLTCRASQEISGYLSWLQQK-PDGTIKRLIYAASTLDSGVPKR 61
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQC-QVST------GILGEPAIRSRFATLTVLVP 131
++ GS DYSL I + +D A Y C Q ++ G +R+ A + P
Sbjct: 62 FS--GSRSGSDYSLTISSLESEDFADYYCLQYASSPYTFGGGTKLEILRADAAPTVSIFP 119
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W ID G+ N + D
Sbjct: 120 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDS 168
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 169 KDSTYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|1OSP|L Chain L, Crystal Structure Of Outer Surface Protein A Of Borrelia
Burgdorferi Complexed With A Murine Monoclonal Antibody
Fab
Length = 214
Score = 35.0 bits (79), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 50/195 (25%), Positives = 78/195 (40%), Gaps = 33/195 (16%)
Query: 41 VGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGF--------DRYAMIGSDEEGDYS 91
+G RVT+ C+ D L W + P +SG R++ GSD DY+
Sbjct: 15 LGDRVTITCKASEDIYSRLAWYQQKPGNAPRLLISGATSLETWVPSRFS--GSDSGKDYT 72
Query: 92 LEIYPVMLDDDARYQCQV------STGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLY 144
L I + +D A Y CQ + G + I+ A TV + PP ++ G
Sbjct: 73 LSITSLQTEDVATYFCQQYWSPPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGA-- 130
Query: 145 TTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVL 200
+ C N P + W IDG+ N + D + +T + STL L
Sbjct: 131 -------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSMSSTLTL 181
Query: 201 TPKKEHHNTTFTCQA 215
T + + ++TC+A
Sbjct: 182 TKDEYERHNSYTCEA 196
>pdb|12E8|L Chain L, 2e8 Fab Fragment
pdb|12E8|M Chain M, 2e8 Fab Fragment
Length = 214
Score = 34.7 bits (78), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 48/195 (24%), Positives = 81/195 (41%), Gaps = 33/195 (16%)
Query: 41 VGSRVTLPCRVIDKTG-VLQWTKDDFALGPHRNL-SGFDRYAMI-----GSDEEGDYSLE 93
VG RV++ C+ G + W + P + S +RY + GS D++L
Sbjct: 15 VGDRVSITCKASQNVGTAVAWYQQKPGQSPKLMIYSASNRYTGVPDRFTGSGSGTDFTLT 74
Query: 94 IYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYTT 146
I + +D A Y CQ ++ G + ++ A TV + PP ++ G
Sbjct: 75 ISNMQSEDLADYFCQQYSSYPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGA---- 130
Query: 147 EDREIELECISANGKPP-AEITW-IDGT----GTVMSNVRVTEEASVDGRRTTVKSTLVL 200
+ C N P + W IDG+ G + S T++ S D + + STL L
Sbjct: 131 -----SVVCFLNNFYPKDINVKWKIDGSERQNGVLNS---ATDQDSKDSTYS-MSSTLTL 181
Query: 201 TPKKEHHNTTFTCQA 215
T + + ++TC+A
Sbjct: 182 TKDEYERHNSYTCEA 196
>pdb|1AHW|A Chain A, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1AHW|D Chain D, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1FGN|L Chain L, Monoclonal Murine Antibody 5g9-Anti-Human Tissue Factor
Length = 214
Score = 34.7 bits (78), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 50/209 (23%), Positives = 73/209 (34%), Gaps = 37/209 (17%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA------- 80
K P A +G RVT+ C+ D L W + P ++ YA
Sbjct: 3 KMTQSPSSMYASLGERVTITCKASQDIRKYLNW----YQQKPWKSPKTLIYYATSLADGV 58
Query: 81 ---MIGSDEEGDYSLEIYPVMLDDDARYQC-------QVSTGILGEPAIRSRFATLTVLV 130
GS DYSL I + DD A Y C G R+ A +
Sbjct: 59 PSRFSGSGSGQDYSLTISSLESDDTATYYCLQHGESPYTFGGGTKLEINRADAAPTVSIF 118
Query: 131 PPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVD 188
PP ++ G + C N P + W ID G+ N + D
Sbjct: 119 PPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQD 167
Query: 189 GRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 168 SKDSTYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|3SM5|L Chain L, Influenza Hemagglutinin In Complex With A Neutralizing
Antibody
pdb|3SM5|M Chain M, Influenza Hemagglutinin In Complex With A Neutralizing
Antibody
pdb|3SM5|N Chain N, Influenza Hemagglutinin In Complex With A Neutralizing
Antibody
Length = 211
Score = 34.7 bits (78), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 57/138 (41%), Gaps = 10/138 (7%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS+ +L I V D+A Y CQV + I LTVL P+ T
Sbjct: 63 GSNSGNTATLTISRVEAGDEADYYCQVWDS-SSDHVIFGGGTKLTVL---GQPKAAPSVT 118
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E++ L C+ ++ P A + W + V + V T + + S
Sbjct: 119 LFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASS 178
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 179 YLSLTPEQWKSHRSYSCQ 196
>pdb|3J1S|L Chain L, Structure Of Adeno-Associated Virus-2 In Complex With
Neutralizing Monoclonal Antibody A20
Length = 214
Score = 34.7 bits (78), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 50/195 (25%), Positives = 77/195 (39%), Gaps = 33/195 (16%)
Query: 41 VGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGF--------DRYAMIGSDEEGDYS 91
+G RVT+ C+ D L W K P +SG R++ GS + DY+
Sbjct: 15 LGDRVTITCKASEDIHNRLAWYKQKPGNAPRLLISGATSLETGVPSRFSGSGSGK--DYT 72
Query: 92 LEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLY 144
L I + +D A Y CQ + G I+ A TV + PP ++ G
Sbjct: 73 LSITSLQNEDVATYYCQQYWIGPFTFGSGTNLEIKRADAAPTVSIFPPSSEQLTSGGA-- 130
Query: 145 TTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVL 200
+ C N P + W ID G+ N + D + +T + STL L
Sbjct: 131 -------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSSTLTL 181
Query: 201 TPKKEHHNTTFTCQA 215
T + + ++TC+A
Sbjct: 182 TKDEYERHNSYTCEA 196
>pdb|3V6B|R Chain R, Vegfr-2VEGF-E Complex Structure
Length = 424
Score = 34.7 bits (78), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 33/130 (25%), Positives = 55/130 (42%), Gaps = 19/130 (14%)
Query: 400 VQVDRGAGVNLLCDVDGNPAPEITW----IHEDSDKVVGNSPNLTLLMTSDDLAGRYYCK 455
V+ G V + G P PEI W I +S+ + LT++ S+ G Y
Sbjct: 210 VEATVGERVRIPAKYLGYPPPEIKWYKNGIPLESNHTIKAGHVLTIMEVSERDTGNY--- 266
Query: 456 ASVMGFPEVGAEA-------TVYLK---GRPTIISHRTQFGIPGDTARVECSAFSIPPPE 505
+V+ + E VY+ G ++IS + G T + C+ ++IPPP
Sbjct: 267 -TVILTNPISKEKQSHVVSLVVYVPPQIGEKSLISPVDSYQY-GTTQTLTCTVYAIPPPH 324
Query: 506 KVTWSYRGEE 515
+ W ++ EE
Sbjct: 325 HIHWYWQLEE 334
Score = 34.7 bits (78), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 33/130 (25%), Positives = 55/130 (42%), Gaps = 19/130 (14%)
Query: 554 VQVDRGAGVNLLCDVDGNPAPEITW----IHEDSDKVVGNSPNLTLLMTSDDLAGRYYCK 609
V+ G V + G P PEI W I +S+ + LT++ S+ G Y
Sbjct: 210 VEATVGERVRIPAKYLGYPPPEIKWYKNGIPLESNHTIKAGHVLTIMEVSERDTGNY--- 266
Query: 610 ASVMGFPEVGAEA-------TVYLK---GRPTIISHRTQFGIPGDTARVECSAFSIPPPE 659
+V+ + E VY+ G ++IS + G T + C+ ++IPPP
Sbjct: 267 -TVILTNPISKEKQSHVVSLVVYVPPQIGEKSLISPVDSYQY-GTTQTLTCTVYAIPPPH 324
Query: 660 KVTWSYRGEE 669
+ W ++ EE
Sbjct: 325 HIHWYWQLEE 334
>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 = 34.7 bits (78), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 80/203 (39%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR D + + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQVSTGIL------GEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ S L + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQSYATLPTFEQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|4FFZ|L Chain L, Crystal Structure Of Denv1-E111 Fab Fragment Bound To
Denv-1 Diii (Western Pacific-74 Strain).
pdb|4FFZ|Y Chain Y, Crystal Structure Of Denv1-E111 Fab Fragment Bound To
Denv-1 Diii (Western Pacific-74 Strain)
Length = 216
Score = 34.7 bits (78), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 49/208 (23%), Positives = 73/208 (35%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ CR +D G + W + P NL
Sbjct: 4 LTQSPASLAVSLGQRATISCRASESVDHYGNSFIYWYQQKPGQPPKLLIYLASNLESGVP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVP 131
GS E D++L I V DD A Y CQ + G R+ A + P
Sbjct: 64 ARFSGSGSETDFTLTIDSVETDDAATYYCQQNNEDPYTFGGGTKLEIKRADAAPTVSIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W ID G+ N + D
Sbjct: 124 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDS 172
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 173 KDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|1IKF|L Chain L, A Conformation Of Cyclosporin A In Aqueous Environment
Revealed By The X-Ray Structure Of A Cyclosporin-Fab
Complex
Length = 214
Score = 34.7 bits (78), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 50/198 (25%), Positives = 77/198 (38%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGSDEEG 88
+A +G RVT+ CR D + L W + R SG R++ GS
Sbjct: 12 SASLGDRVTISCRASQDISTYLNWYQQKPDGTVKLLIFYTSRLRSGVPSRFS--GSGSGT 69
Query: 89 DYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
DYSL I + +D A Y CQ + G +R+ A + PP ++ G
Sbjct: 70 DYSLTISNLEQEDIATYFCQQGSRIPPTFGGGTKLEILRADAAPTVSIFPPSSEQLTSGG 129
Query: 142 TLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W ID G+ N + D + +T + ST
Sbjct: 130 A---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 179 LTLTKDEYERHNSYTCEA 196
>pdb|4EOW|L Chain L, Crystal Structure Of A Disease-Associated Anti-Human
Gm-Csf Autoantibody Mb007
Length = 216
Score = 34.7 bits (78), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 37/153 (24%), Positives = 65/153 (42%), Gaps = 15/153 (9%)
Query: 70 HRNLSGF-DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSR-FATLT 127
+R SG DR++ GS + SL I + +D+A Y C + ++ R F T
Sbjct: 53 NRRPSGVPDRFS--GSKSDTSASLAISGLRSEDEADYYCAT-----WDDSLSGRLFGGGT 105
Query: 128 VLVPPDPPRIVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRV 181
L P+ TL+ E++ L C+ ++ P A + W + V + V
Sbjct: 106 KLTVLGQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVET 165
Query: 182 TEEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
T + + S L LTP++ + +++CQ
Sbjct: 166 TTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQ 198
>pdb|2BDN|L Chain L, Crystal Structure Of Human Mcp-1 Bound To A Blocking
Antibody, 11k2
Length = 214
Score = 34.7 bits (78), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 49/195 (25%), Positives = 78/195 (40%), Gaps = 33/195 (16%)
Query: 41 VGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGF--------DRYAMIGSDEEGDYS 91
+G RVT+ C+ D L W + P +SG R++ GS + DY+
Sbjct: 15 LGDRVTITCKATEDIYNRLAWYQQKPGSAPRLLISGATSLETGVPSRFSGSGSGK--DYT 72
Query: 92 LEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLY 144
L I + +D A Y CQ + G + I+ A TV + PP ++ G
Sbjct: 73 LSITSLQTEDVATYYCQQFWSAPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGA-- 130
Query: 145 TTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVL 200
+ C N P + W ID G+ N + D + +T + STL L
Sbjct: 131 -------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSSTLTL 181
Query: 201 TPKKEHHNTTFTCQA 215
T + + ++TC+A
Sbjct: 182 TKDEYERHNSYTCEA 196
>pdb|1IBG|L Chain L, Structure And Specificity Of The Anti-Digoxin Antibody
40-50
Length = 217
Score = 34.7 bits (78), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 38/144 (26%), Positives = 61/144 (42%), Gaps = 22/144 (15%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPP 135
GS D++L I+PV +D A Y CQ ++ G E ++ A TV + PP
Sbjct: 67 GSGSGTDFTLNIHPVEEEDAATYYCQHSREYPLTFGAGTELELKRADAAPTVSIFPPSSE 126
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W IDG+ N + D + +T
Sbjct: 127 QLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDST 175
Query: 194 --VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 176 YSMSSTLTLTKDEYERHNSYTCEA 199
>pdb|3EOT|L Chain L, Crystal Structure Of Lac031, An Engineered Anti-Vla1 Fab
Length = 215
Score = 34.7 bits (78), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 49/206 (23%), Positives = 75/206 (36%), Gaps = 30/206 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGV--LQWTKDDFALGPH------RNLSGFDRYA 80
+ P +A VG RVT+ C L W + P NL+
Sbjct: 3 QLTQSPSSLSASVGDRVTITCSASSSVNSSALFWYQQKPGKAPKPWIYLTSNLASGVPSR 62
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVSTG---ILGEPA----IRSRFATLTVLVPPD 133
GS DY+L I + +D A Y CQ +G G+ R+ A + PP
Sbjct: 63 FSGSGSGTDYTLTISSLQPEDFATYYCQQISGNPWTFGQGTKVEIKRADAAPTVSIFPPS 122
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRR 191
++ G + C N P + W ID G+ N + D +
Sbjct: 123 SEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKD 171
Query: 192 TT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 172 STYSMSSTLTLTKDEYERHNSYTCEA 197
>pdb|1K6Q|L Chain L, Crystal Structure Of Antibody Fab Fragment D3
Length = 210
Score = 34.7 bits (78), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 50/210 (23%), Positives = 75/210 (35%), Gaps = 39/210 (18%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA------- 80
K P +A +G VT+ C+ D L W + P ++ YA
Sbjct: 3 KMTQSPSSMSASLGESVTITCKASRDIKSYLSW----YQQKPWKSPKTLIYYATSLADGV 58
Query: 81 ---MIGSDEEGDYSLEIYPVMLDDDARYQC--------QVSTGILGEPAIRSRFATLTVL 129
GS DYSL I + DD A Y C +G E R+ A +
Sbjct: 59 PSRFSGSGSGQDYSLTISSLESDDTATYYCLQHGESPFTFGSGTKLE-LKRADAAPTVSI 117
Query: 130 VPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASV 187
PP ++ G + C N P + W ID G+ N +
Sbjct: 118 FPPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQ 166
Query: 188 DGRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
D + +T + STL LT + + ++TC+A
Sbjct: 167 DSKDSTYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|1TCR|B Chain B, Murine T-Cell Antigen Receptor 2c Clone
pdb|2CKB|B Chain B, Structure Of The 2cKBDEV8 COMPLEX
pdb|2CKB|D Chain D, Structure Of The 2cKBDEV8 COMPLEX
pdb|1G6R|B Chain B, A Functional Hot Spot For Antigen Recognition In A
Superagonist TcrMHC COMPLEX
pdb|1G6R|D Chain D, A Functional Hot Spot For Antigen Recognition In A
Superagonist TcrMHC COMPLEX
pdb|1MWA|B Chain B, 2cH-2kbm3DEV8 ALLOGENEIC COMPLEX
pdb|1MWA|D Chain D, 2cH-2kbm3DEV8 ALLOGENEIC COMPLEX
Length = 237
Score = 34.7 bits (78), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 48/213 (22%), Positives = 76/213 (35%), Gaps = 31/213 (14%)
Query: 27 EQKFAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPHRNLSGFDRYAMIGSDE 86
E P+++ AV G +VTL C + + W + D G L GS E
Sbjct: 1 EAAVTQSPRNKVAVTGGKVTLSCNQTNNHNNMYWYRQDTGHG----LRLIHYSYGAGSTE 56
Query: 87 EGDY---------SLEIYPVMLD-----DDARYQCQVSTGILGEPAIRSRFATLTVLVPP 132
+GD S E + ++L+ + Y C G +R + L L
Sbjct: 57 KGDIPDGYKASRPSQENFSLILELATPSQTSVYFCASGGGGTLYFGAGTRLSVLEDLRNV 116
Query: 133 DPPRIVQGDTLYTTEDREIE------LECISANGKPP-AEITWIDGTGTVMSNVRVTEEA 185
PP++ +L+ EI L C++ P E++W V S V +A
Sbjct: 117 TPPKV----SLFEPSKAEIANKQKATLVCLARGFFPDHVELSWWVNGKEVHSGVSTDPQA 172
Query: 186 SVDGRRTTVKSTLVLTPKKEHHN--TTFTCQAQ 216
+ + S+ + HN F CQ Q
Sbjct: 173 YKESNYSYCLSSRLRVSATFWHNPRNHFRCQVQ 205
>pdb|1LP9|F Chain F, Xenoreactive Complex Ahiii 12.2 Tcr Bound To P1049HLA-A2.1
pdb|1LP9|M Chain M, Xenoreactive Complex Ahiii 12.2 Tcr Bound To P1049HLA-A2.1
pdb|2J8U|F Chain F, Large Cdr3a Loop Alteration As A Function Of Mhc Mutation.
pdb|2J8U|M Chain M, Large Cdr3a Loop Alteration As A Function Of Mhc Mutation.
pdb|2JCC|F Chain F, Ah3 Recognition Of Mutant Hla-A2 W167a
pdb|2JCC|M Chain M, Ah3 Recognition Of Mutant Hla-A2 W167a
pdb|2UWE|F Chain F, Large Cdr3a Loop Alteration As A Function Of Mhc Mutation
pdb|2UWE|M Chain M, Large Cdr3a Loop Alteration As A Function Of Mhc Mutation
Length = 238
Score = 34.7 bits (78), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 49/215 (22%), Positives = 74/215 (34%), Gaps = 33/215 (15%)
Query: 27 EQKFAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPHRNLSGFDRYAMIGSDE 86
E P+ + AV G +VTL C + + W + D G L + S E
Sbjct: 2 EAAVTQSPRSKVAVTGGKVTLSCHQTNNHDYMYWYRQDTGHG----LRLIHYSYVADSTE 57
Query: 87 EGD--------------YSLEIYPVMLDDDARYQCQVSTGILGEPAI--RSRFATLTVLV 130
+GD +SL + L A Y C S + E +R L L
Sbjct: 58 KGDIPDGYKASRPSQENFSLILELASLSQTAVYFCASSDWVSYEQYFGPGTRLTVLEDLR 117
Query: 131 PPDPPRIVQGDTLYTTEDREIE------LECISANGKPP-AEITWIDGTGTVMSNVRVTE 183
PP++ +L+ EI L C++ P E++W V S V
Sbjct: 118 NVTPPKV----SLFEPSKAEIANKQKATLVCLARGFFPDHVELSWWVNGKEVHSGVSTDP 173
Query: 184 EASVDGRRTTVKSTLVLTPKKEHHN--TTFTCQAQ 216
+A + + S+ + HN F CQ Q
Sbjct: 174 QAYKESNYSYALSSRLRVSATFWHNPRNHFRCQVQ 208
>pdb|3QPX|L Chain L, Crystal Structure Of Fab C2507
Length = 213
Score = 34.7 bits (78), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 74/203 (36%), Gaps = 28/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPHRNLSGFDRYA------M 81
+ P +A VG RVTL C+ L W + P + DR
Sbjct: 3 QMTQSPSLLSASVGDRVTLSCKASQNIYNYLNWYQQKLGEAPKLLIYYTDRLQTGIPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
G DY+L I + +D A Y CQ + R F T L D R V
Sbjct: 63 SGDGSGSDYTLTISSLQPEDVATYFCQ-------QYNSRDTFGAGTKL---DLKRTVAAP 112
Query: 142 TLYTTEDREIELE-------CISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRR 191
+++ + +L+ C+ N P A++ W N + VTE+ S D
Sbjct: 113 SVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 172
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 173 -SLSSTLTLSKADYEKHKVYACE 194
>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 = 34.7 bits (78), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 55/138 (39%), Gaps = 10/138 (7%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS SL I + +D+A Y C+ L S F T L P+ T
Sbjct: 66 GSKSGNTASLTISGLQAEDEADYYCRSWDSNLS----YSVFGGGTKLTVLGQPKAAPSVT 121
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E++ L C+ ++ P A + W + V + V T + + S
Sbjct: 122 LFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASS 181
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 182 YLSLTPEQWKSHRSYSCQ 199
>pdb|2J6E|L Chain L, Crystal Structure Of An Autoimmune Complex Between A Human
Igm Rheumatoid Factor And Igg1 Fc Reveals A Novel Fc
Epitope And Evidence For Affinity Maturation
pdb|2J6E|M Chain M, Crystal Structure Of An Autoimmune Complex Between A Human
Igm Rheumatoid Factor And Igg1 Fc Reveals A Novel Fc
Epitope And Evidence For Affinity Maturation
Length = 234
Score = 34.7 bits (78), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 36/144 (25%), Positives = 59/144 (40%), Gaps = 12/144 (8%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I + +D+A Y C L I LTVL P+
Sbjct: 80 DRFS--GSKSGTSASLAISGLRSEDEADYYCATWDDSLSA-VIFGGGTKLTVL---GQPK 133
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W V + V T+ +
Sbjct: 134 AAPSVTLFPPSSEELQANKATLVCLISDFFPGAVTVAWKADGAPVKAGVETTKPSKQSNN 193
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 194 KYAASSYLSLTPEQWKSHRSYSCQ 217
>pdb|2R8S|L Chain L, High Resolution Structure Of A Specific Synthetic Fab
Bound To P4-P6 Rna Ribozyme Domain
Length = 214
Score = 34.7 bits (78), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 80/203 (39%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR + + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ ++ G + I+ A +V + PP
Sbjct: 63 SGSRSGTDFTLTISSLQPEDFATYYCQQSYSSPITFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|1ZAN|L Chain L, Crystal Structure Of Anti-Ngf Ad11 Fab
Length = 214
Score = 34.7 bits (78), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 51/211 (24%), Positives = 81/211 (38%), Gaps = 43/211 (20%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFD--------RY 79
+ P +A +G VT+ CR D L W + P + D R+
Sbjct: 3 QMTQSPASLSASLGETVTIECRASEDIYNALAWYQQKPGKSPQLLIYNTDTLHTGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAI----------RSRFATLTVL 129
+ GS + YSL+I + +D A Y CQ G P R+ A +
Sbjct: 63 SGSGSGTQ--YSLKINSLQSEDVASYFCQ---HYFGYPRTFGGGTKLELKRADAAPTVSI 117
Query: 130 VPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGT----GTVMSNVRVTE 183
PP ++ G + C+ N P + W IDG+ G + S VT+
Sbjct: 118 FPPSSEQLASGGA---------SVVCLLNNFYPKDISVKWKIDGSERQNGVLDS---VTD 165
Query: 184 EASVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S D ++ STL LT + + ++TC+
Sbjct: 166 QDSKDSTY-SMSSTLTLTKAEYESHNSYTCE 195
>pdb|2Y25|A Chain A, Crystal Structure Of The Myomesin Domains My11-My13
pdb|2Y25|B Chain B, Crystal Structure Of The Myomesin Domains My11-My13
pdb|2Y25|C Chain C, Crystal Structure Of The Myomesin Domains My11-My13
pdb|2Y25|D Chain D, Crystal Structure Of The Myomesin Domains My11-My13
Length = 317
Score = 34.7 bits (78), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 394 RAR-----PYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTL 441
RAR P V + G +NL C+V G+P PE++W+ + + NL
Sbjct: 221 RARVLGGLPDVVTIQEGKALNLTCNVWGDPPPEVSWLKNEKALASDDHCNLKF 273
Score = 34.7 bits (78), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 17/53 (32%), Positives = 26/53 (49%), Gaps = 5/53 (9%)
Query: 548 RAR-----PYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTL 595
RAR P V + G +NL C+V G+P PE++W+ + + NL
Sbjct: 221 RARVLGGLPDVVTIQEGKALNLTCNVWGDPPPEVSWLKNEKALASDDHCNLKF 273
>pdb|2R15|A Chain A, Crystal Structure Of The Myomesin Domains 12 And 13
pdb|2R15|B Chain B, Crystal Structure Of The Myomesin Domains 12 And 13
Length = 212
Score = 34.3 bits (77), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 5/40 (12%)
Query: 394 RAR-----PYSVQVDRGAGVNLLCDVDGNPAPEITWIHED 428
RAR P V + G +NL C+V G+P PE++W+ +
Sbjct: 116 RARVLGGLPDVVTIQEGKALNLTCNVWGDPPPEVSWLKNE 155
Score = 34.3 bits (77), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 23/40 (57%), Gaps = 5/40 (12%)
Query: 548 RAR-----PYSVQVDRGAGVNLLCDVDGNPAPEITWIHED 582
RAR P V + G +NL C+V G+P PE++W+ +
Sbjct: 116 RARVLGGLPDVVTIQEGKALNLTCNVWGDPPPEVSWLKNE 155
>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 = 34.3 bits (77), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 51/207 (24%), Positives = 80/207 (38%), Gaps = 33/207 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL--------SGFDRY 79
+ P +A +G RV+L CR + +G L W + G + L SG +
Sbjct: 3 QMTQSPSSLSASLGERVSLTCRASQEISGYLSWLQQK-PDGTIKRLIYAASTLDSGVPK- 60
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQC-QVST------GILGEPAIRSRFATLTVLVPP 132
GS DYSL I + +D A Y C Q ++ G +R A + PP
Sbjct: 61 RFSGSRSGSDYSLTISSLESEDFADYYCLQYASSPYTFGGGTKLEILRGGAAPTVSIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGR 190
++ G + C N P + W ID G+ N + D +
Sbjct: 121 SSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSK 169
Query: 191 RTT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 170 DSTYSMSSTLTLTKDEYERHNSYTCEA 196
>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 = 34.3 bits (77), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 49/204 (24%), Positives = 81/204 (39%), Gaps = 30/204 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR D + W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDVNTAVAWYQQKPGKAPKLLIYAASYLYSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVST-----GILGEPAIRSRFATLTVLV-PPD 133
+ GS D++L I + +D A Y CQ S+ G + I+ A +V + PP
Sbjct: 63 S--GSGSGTDFTLTISSLQPEDFATYYCQSSSSPYTFGQGTKVEIKRTVAAPSVFIFPPS 120
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGR 190
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 DEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDST 171
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 Y-SLSSTLTLSKADYEKHKVYACE 194
>pdb|3BFO|A Chain A, Crystal Structure Of Ig-Like C2-Type 2 Domain Of The Human
Mucosa-Associated Lymphoid Tissue Lymphoma Translocation
Protein 1
pdb|3BFO|B Chain B, Crystal Structure Of Ig-Like C2-Type 2 Domain Of The Human
Mucosa-Associated Lymphoid Tissue Lymphoma Translocation
Protein 1
pdb|3BFO|C Chain C, Crystal Structure Of Ig-Like C2-Type 2 Domain Of The Human
Mucosa-Associated Lymphoid Tissue Lymphoma Translocation
Protein 1
pdb|3BFO|D Chain D, Crystal Structure Of Ig-Like C2-Type 2 Domain Of The Human
Mucosa-Associated Lymphoid Tissue Lymphoma Translocation
Protein 1
Length = 91
Score = 34.3 bits (77), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 39/76 (51%), Gaps = 4/76 (5%)
Query: 312 SNRLVEGTDVRLYCKAEANPSHMKYRWYINDQPVPAAASATELYLTNITRHQHDSIVKCE 371
S +L+ G+ + L C A +P Y+W+ N+ +P +LY+ +H C
Sbjct: 12 SQKLMPGSTLVLQCVAVGSPI-PHYQWFKNE--LPLTHETKKLYMVPYVDLEHQGTYWCH 68
Query: 372 VHNDVGKSEDSETLDV 387
V+ND S+DS+ +++
Sbjct: 69 VYND-RDSQDSKKVEI 83
>pdb|3O41|L Chain L, Crystal Structure Of 101f Fab Bound To 15-Mer Peptide
Epitope
pdb|3O41|B Chain B, Crystal Structure Of 101f Fab Bound To 15-Mer Peptide
Epitope
pdb|3O45|L Chain L, Crystal Structure Of 101f Fab Bound To 17-Mer Peptide
Epitope
pdb|3O45|B Chain B, Crystal Structure Of 101f Fab Bound To 17-Mer Peptide
Epitope
Length = 218
Score = 34.3 bits (77), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 44/205 (21%), Positives = 73/205 (35%), Gaps = 35/205 (17%)
Query: 34 PQDQTAVVGSRVTLPCRV---IDKTGV--LQWTKDDFALGPHRNLSGFDR------YAMI 82
P +G R T+ CR +D G+ + W + P +
Sbjct: 8 PASLAVSLGQRATIFCRASQSVDYNGISYMHWFQQKPGQPPKLLIYAASNPESGIPARFT 67
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAI----------RSRFATLTVLVPP 132
GS D++L I+PV +D A Y CQ I+ +P R+ A + PP
Sbjct: 68 GSGSGTDFTLNIHPVEEEDAATYYCQ---QIIEDPWTFGGGTKLEIKRADAAPTVSIFPP 124
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGR 190
++ G + C N P + W IDG+ + +
Sbjct: 125 SSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDS 175
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQA 215
++ STL LT + + ++TC+A
Sbjct: 176 TYSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|3EFD|L Chain L, The Crystal Structure Of The Cytoplasmic Domain Of Kcsa
Length = 211
Score = 34.3 bits (77), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 79/203 (38%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR + + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ ++ G + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQYSYSLLTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRR 191
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQAGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|1K4D|B Chain B, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
K+
pdb|1K4C|B Chain B, Potassium Channel Kcsa-Fab Complex In High Concentration
Of K+
pdb|1R3I|L Chain L, Potassium Channel Kcsa-Fab Complex In Rb+
pdb|1R3J|A Chain A, Potassium Channel Kcsa-Fab Complex In High Concentration
Of Tl+
pdb|1R3K|A Chain A, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
Tl+
pdb|1R3L|A Chain A, Potassium Channel Kcsa-Fab Complex In Cs+
pdb|1S5H|A Chain A, Potassium Channel Kcsa-Fab Complex T75c Mutant In K+
pdb|2BOB|B Chain B, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetrabutylammonium (Tba)
pdb|2BOC|B Chain B, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetraethylarsonium (Teas)
pdb|1ZWI|B Chain B, Structure Of Mutant Kcsa Potassium Channel
pdb|2ATK|B Chain B, Structure Of A Mutant Kcsa K+ Channel
pdb|2H8P|B Chain B, Structure Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HG5|B Chain B, Cs+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HJF|B Chain B, Potassium Channel Kcsa-Fab Complex With Tetrabutylammonium
(Tba)
pdb|2IH1|B Chain B, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2IH3|B Chain B, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2DWD|B Chain B, Crystal Structure Of Kcsa-Fab-Tba Complex In Tl+
pdb|2DWE|B Chain B, Crystal Structure Of Kcsa-Fab-Tba Complex In Rb+
pdb|2HVJ|B Chain B, Crystal Structure Of Kcsa-fab-tba Complex In Low K+
pdb|2HVK|B Chain B, Crystal Structure Of The Kcsa-Fab-Tba Complex In High K+
pdb|2ITC|B Chain B, Potassium Channel Kcsa-Fab Complex In Sodium Chloride
pdb|2ITD|B Chain B, Potassium Channel Kcsa-Fab Complex In Barium Chloride
pdb|2NLJ|A Chain A, Potassium Channel Kcsa(M96v)-Fab Complex In Kcl
pdb|2P7T|B Chain B, Crystal Structure Of Kcsa Mutant
pdb|2JK5|B Chain B, Potassium Channel Kcsa In Complex With Tetrabutylammonium
In High K
pdb|2W0F|B Chain B, Potassium Channel Kcsa-Fab Complex With Tetraoctylammonium
pdb|3GB7|B Chain B, Potassium Channel Kcsa-Fab Complex In Li+
pdb|3IGA|B Chain B, Potassium Channel Kcsa-Fab Complex In Li+ And K+
pdb|3F5W|B Chain B, Kcsa Potassium Channel In The Open-Inactivated State With
32 A Opening At T112
pdb|3F7V|B Chain B, Kcsa Potassium Channel In The Open-Inactivated State With
23 A Opening At T112
pdb|3F7Y|B Chain B, Kcsa Potassium Channel In The Partially Open State With 17
A Opening At T112
pdb|3FB5|B Chain B, Kcsa Potassium Channel In The Partially Open State With
14.5 A Opening At T112
pdb|3FB6|B Chain B, Kcsa Potassium Channel In The Partially Open State With 16
A Opening At T112
pdb|3FB8|B Chain B, Kcsa Potassium Channel In The Open-Conductive State With
20 At T112 In The Presence Of Rb+ Ion
pdb|3HPL|B Chain B, Kcsa E71h-F103a Mutant In The Closed State
pdb|3FB7|B Chain B, Open Kcsa Potassium Channel In The Presence Of Rb+ Ion
pdb|3OR6|B Chain B, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71q
pdb|3OR7|B Chain B, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71i
pdb|3OGC|B Chain B, Kcsa E71a Variant In Presence Of Na+
pdb|3STL|B Chain B, Kcsa Potassium Channel Mutant Y82c With Cadmium Bound
pdb|3STZ|B Chain B, Kcsa Potassium Channel Mutant Y82c With Nitroxide Spin
Label
Length = 212
Score = 34.3 bits (77), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 49/194 (25%), Positives = 76/194 (39%), Gaps = 33/194 (17%)
Query: 42 GSRVTLPCRVIDKTGV-LQWTKDDFALGPH-------RNLSGF-DRYAMIGSDEEGDYSL 92
G RV+ CR G + W + P ++SG R++ GS D++L
Sbjct: 16 GERVSFSCRASQSIGTDIHWYQQRTNGSPRLLIKYASESISGIPSRFS--GSGSGTDFTL 73
Query: 93 EIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYT 145
I V +D A Y CQ S G + I+ A TV + PP ++ G
Sbjct: 74 SINSVESEDIANYYCQQSNRWPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGA--- 130
Query: 146 TEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLT 201
+ C N P + W ID G+ N + D + +T + STL LT
Sbjct: 131 ------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSSTLTLT 182
Query: 202 PKKEHHNTTFTCQA 215
+ + ++TC+A
Sbjct: 183 KDEYERHNSYTCEA 196
>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 = 34.3 bits (77), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 54/138 (39%), Gaps = 10/138 (7%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS+ +L I V D+A Y CQV + F T L P+ T
Sbjct: 62 GSNSGNTATLTISGVEAGDEADYYCQV----WDSSSHHMLFGGGTRLTVLGQPKAAPSVT 117
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E++ L C+ ++ P A E+ W V + V T+ + + S
Sbjct: 118 LFPPSSEELQANKATLVCLISDFYPGAVEVAWKADGSAVNAGVETTKPSKQSNNKYAASS 177
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LT + + +++CQ
Sbjct: 178 YLSLTSDQWKSHKSYSCQ 195
>pdb|3JWO|L Chain L, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
Length = 209
Score = 34.3 bits (77), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 49/204 (24%), Positives = 79/204 (38%), Gaps = 30/204 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR D + L W + P + SG R+
Sbjct: 3 QMTQSPSSVSASVGDRVTITCRASQDISTWLAWYQQKPGKAPKLLIYAASTLQSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGIL-----GEPAIRSRFATLTVLV-PPD 133
+ GS D+SL I + +D A Y CQ + + I+ A +V + PP
Sbjct: 63 S--GSGSGTDFSLTINSLQPEDFATYYCQQANSFFTFGGGTKVEIKRTVAAPSVFIFPPS 120
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGR 190
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 121 DEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDST 171
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 Y-SLSSTLTLSKADYEKHKLYACE 194
>pdb|4HPY|L Chain L, Crystal Structure Of Rv144-elicited Antibody Ch59 In
Complex With V2 Peptide
Length = 215
Score = 34.3 bits (77), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 55/130 (42%), Gaps = 10/130 (7%)
Query: 91 SLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDRE 150
+L I ++D+A Y C ST G + LTVL P+ TL+ E
Sbjct: 72 TLTISGAQVEDEADYYC-YSTDSSGNHRVFGGGTKLTVL---GQPKAAPSVTLFPPSSEE 127
Query: 151 IE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKK 204
++ L C+ ++ P A + W + V + V T + + S L LTP++
Sbjct: 128 LQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQ 187
Query: 205 EHHNTTFTCQ 214
+ +++CQ
Sbjct: 188 WKSHRSYSCQ 197
>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 = 34.3 bits (77), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 49/204 (24%), Positives = 80/204 (39%), Gaps = 30/204 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR D + L W + P + SG R+
Sbjct: 3 QMTQSPSSVSASVGDRVTITCRASQDISTWLAWYQQKPGKAPKLLIYAASTLQSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGIL-----GEPAIRSRFATLTVLV-PPD 133
+ GS D+SL I + +D A Y CQ + + I+ A +V + PP
Sbjct: 63 S--GSGSGTDFSLTINSLQPEDFATYYCQQANSFFTFGGGTKVEIKRTVAAPSVFIFPPS 120
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGR 190
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 DEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDST 171
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 Y-SLSSTLTLSKADYEKHKLYACE 194
>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 = 34.3 bits (77), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 49/204 (24%), Positives = 80/204 (39%), Gaps = 30/204 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR D + L W + P + SG R+
Sbjct: 3 QMTQSPSSVSASVGDRVTITCRASQDISTWLAWYQQKPGKAPKLLIYAASTLQSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGIL-----GEPAIRSRFATLTVLV-PPD 133
+ GS D+SL I + +D A Y CQ + + I+ A +V + PP
Sbjct: 63 S--GSGSGTDFSLTINSLQPEDFATYYCQQANSFFTFGGGTKVEIKRTVAAPSVFIFPPS 120
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGR 190
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 DEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDST 171
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 Y-SLSSTLTLSKADYEKHKLYACE 194
>pdb|3I2C|L Chain L, Crystal Structure Of Anti-Il-23 Antibody Cnto4088
Length = 218
Score = 34.3 bits (77), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 48/204 (23%), Positives = 73/204 (35%), Gaps = 33/204 (16%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKTG-----VLQWTKDDFALGPH------RNLSGFDRYAMI 82
P +G R T+ CR W + P NL
Sbjct: 8 PASLAVSLGQRATISCRASKSVSSSAYSFFHWYQQKPGQPPKLLIYLASNLQSGVPARFS 67
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPP 135
GS D++L I+PV +D A Y CQ + G + I+ A TV + PP
Sbjct: 68 GSGSGTDFTLNIHPVEAEDAATYYCQHSGELPFTFGSGTKLEIKRADAAPTVSIFPPSSE 127
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W ID G+ N + D + +T
Sbjct: 128 QLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDST 176
Query: 194 --VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 177 YSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|4HK0|B Chain B, Uca Fab (unbound) From Ch65-ch67 Lineage
pdb|4HK0|D Chain D, Uca Fab (unbound) From Ch65-ch67 Lineage
pdb|4HK3|N Chain N, I2 Fab (unbound) From Ch65-ch67 Lineage
Length = 214
Score = 34.3 bits (77), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 55/138 (39%), Gaps = 10/138 (7%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS+ +L I V D+A Y CQV + F T L P+ T
Sbjct: 63 GSNSGNTATLTISRVEAGDEADYYCQV----WDSSSDHVVFGGGTKLTVLGQPKAAPSVT 118
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E++ L C+ ++ P A + W + V + V T + + S
Sbjct: 119 LFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASS 178
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 179 YLSLTPEQWKSHRSYSCQ 196
>pdb|1SEQ|L Chain L, Fab Mnac13
Length = 213
Score = 34.3 bits (77), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 51/205 (24%), Positives = 74/205 (36%), Gaps = 32/205 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGP------HRNLSGFDRYAMIG 83
P +A +GS VTL C + W + P NL+ G
Sbjct: 4 LTQSPAIMSASLGSSVTLTCSASSSVSYMHWYQQKSGTSPVLLIYTTSNLASGVPSRFSG 63
Query: 84 SDEEGDYSLEIYPVMLDDDARYQC-QVST------GILGEPAIRSRFATLTVLVPPDPPR 136
S YSL I V D A Y C Q S+ G R+ A + PP +
Sbjct: 64 SGSGTFYSLTISSVEASDAADYYCHQWSSYPWTFGGGTKLEIKRADAAPTVSIFPPSSEQ 123
Query: 137 IVQGDTLYTTEDREIELECISANGKPPA-EITW-IDGT----GTVMSNVRVTEEASVDGR 190
+ G + C N P + W IDG+ G + S T++ S D
Sbjct: 124 LTSGGA---------SVVCFLNNFYPKSINSKWKIDGSERQNGVLNS---WTDQDSKDST 171
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQA 215
++ STL LT + + ++TC+A
Sbjct: 172 Y-SMSSTLTLTKNEYERHNSYTCEA 195
>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 = 34.3 bits (77), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 47/203 (23%), Positives = 79/203 (38%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR + + W + P + S Y+ +
Sbjct: 4 QMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRF 63
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQVSTGI---LGEPA---IRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ S G+ I+ A +V + PP
Sbjct: 64 SGSRSGTDFTLTISSLQPEDFATYYCQQSYSFPSTFGQGTKVEIKRTVAAPSVFIFPPSD 123
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 124 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 174
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 175 -SLSSTLTLSKADYEKHKVYACE 196
>pdb|2HFE|B Chain B, Rb+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
Length = 211
Score = 34.3 bits (77), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 49/194 (25%), Positives = 76/194 (39%), Gaps = 33/194 (17%)
Query: 42 GSRVTLPCRVIDKTGV-LQWTKDDFALGPH-------RNLSGF-DRYAMIGSDEEGDYSL 92
G RV+ CR G + W + P ++SG R++ GS D++L
Sbjct: 16 GERVSFSCRASQSIGTDIHWYQQRTNGSPRLLIKYASESISGIPSRFS--GSGSGTDFTL 73
Query: 93 EIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYT 145
I V +D A Y CQ S G + I+ A TV + PP ++ G
Sbjct: 74 SINSVESEDIANYYCQQSNRWPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGA--- 130
Query: 146 TEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLT 201
+ C N P + W ID G+ N + D + +T + STL LT
Sbjct: 131 ------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSSTLTLT 182
Query: 202 PKKEHHNTTFTCQA 215
+ + ++TC+A
Sbjct: 183 KDEYERHNSYTCEA 196
>pdb|3T2N|L Chain L, Human Hepsin Protease In Complex With The Fab Fragment Of
An Inhibitory Antibody
pdb|3T2N|M Chain M, Human Hepsin Protease In Complex With The Fab Fragment Of
An Inhibitory Antibody
Length = 215
Score = 34.3 bits (77), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 40/196 (20%), Positives = 71/196 (36%), Gaps = 36/196 (18%)
Query: 42 GSRVTLPCR----VIDKTGVLQWTKDDFA------LGPHRNLSGFDRYAMIGSDEEGDYS 91
G VTL CR + + W + +G N + + GS G +
Sbjct: 15 GGTVTLTCRSSTGAVTTSNYANWVQQKPGQAFRGLIGDTNNRAPWTPARFSGSLLGGKAA 74
Query: 92 LEIYPVMLDDDARYQCQV------------STGILGEPAIRSRFATLTVLVPPDPPRIVQ 139
L + V +D+A Y C + +LG+P + A L PP +
Sbjct: 75 LTLSGVQPEDEAEYYCALWYSNHFIFGSGTKVTVLGQP----KAAPSVTLFPPSSEEL-- 128
Query: 140 GDTLYTTEDREIELECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTL 198
+ + L C+ ++ P A + W + V + V T + + S L
Sbjct: 129 -------QANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYL 181
Query: 199 VLTPKKEHHNTTFTCQ 214
LTP++ + +++CQ
Sbjct: 182 SLTPEQWKSHRSYSCQ 197
>pdb|3TJE|L Chain L, Crystal Structure Of Fas Receptor Extracellular Domain In
Complex With Fab E09
Length = 216
Score = 34.3 bits (77), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 34/144 (23%), Positives = 61/144 (42%), Gaps = 12/144 (8%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I ++ +D+A Y C L + + +TVL P+
Sbjct: 61 DRFS--GSKSGTSASLAIRDLLSEDEADYYCSTWDDTL-KGWVFGGGTKVTVL---GQPK 114
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 115 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 174
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 175 KYAASSYLSLTPEQWKSHRSYSCQ 198
>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 = 34.3 bits (77), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 46/198 (23%), Positives = 76/198 (38%), Gaps = 27/198 (13%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNLSGF-DRYAMI-----GSDE 86
P+ +G RVTL C+ + + W + P + G +RY + GS
Sbjct: 8 PKSMYVSIGERVTLSCKASENVDTYVSWYQQKPEQSPKLLIYGASNRYTGVPDRFTGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQVS------TGILGEPAIRSRFATLTVLV-PPDPPRIVQ 139
D++L I V +D A Y C S G + I+ A +V + PP ++
Sbjct: 68 ATDFTLTISSVQAEDLADYHCGQSYNYPFTFGSGTKLEIKRTVAAPSVFIFPPSDEQLKS 127
Query: 140 GDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRRTTVKS 196
G + C+ N P A++ W N + VTE+ S D ++ S
Sbjct: 128 GTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY-SLSS 177
Query: 197 TLVLTPKKEHHNTTFTCQ 214
TL L+ + + C+
Sbjct: 178 TLTLSKADYEKHKVYACE 195
>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 = 34.3 bits (77), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 50/207 (24%), Positives = 81/207 (39%), Gaps = 31/207 (14%)
Query: 27 EQKFAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL-------SGF-D 77
E + P +A VG RVT+ CR + L W + P + SG
Sbjct: 1 EIEMTQSPSSLSASVGDRVTISCRASQRINTYLNWYQHKPGKAPKLLIYAASSLQSGVPS 60
Query: 78 RYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTVLV- 130
R++ GS D++L I + +D A Y CQ S G + I+ A +V +
Sbjct: 61 RFS--GSGYGTDFTLTISSLQPEDFASYYCQESLSASYTFGQGTKVEIKRTVAAPSVFIF 118
Query: 131 PPDPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASV 187
PP ++ G + C+ N P A++ W + + S VTE+ S
Sbjct: 119 PPSDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSK 169
Query: 188 DGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
D ++ STL L+ + + C+
Sbjct: 170 DSTY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|4DCQ|A Chain A, Crystal Structure Of The Fab Fragment Of 3b5h10, An
Antibody-Specific For Extended Polyglutamine Repeats
(Orthorhombic Form)
Length = 218
Score = 34.3 bits (77), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 46/185 (24%), Positives = 68/185 (36%), Gaps = 36/185 (19%)
Query: 57 VLQWTKDDFALGPHRNLSGF-DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI-- 113
V++ KD G H G DR++ GS D L I + +D+A Y C V I
Sbjct: 46 VMELKKD----GSHSTGDGIPDRFS--GSSSGADRYLLISNIQPEDEAIYICGVGDTIKE 99
Query: 114 --------------LGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIELECISAN 159
LG+P TLTV PP + ++ + L C+ +N
Sbjct: 100 QFVYVFGGGTKVTVLGQPK---STPTLTVF-PPSSEEL---------KENKATLVCLISN 146
Query: 160 GKPPAEITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQAQNTA 219
P GT ++ T + G + S L LT + + +FTCQ +
Sbjct: 147 FSPSGVTVAWKANGTPITQGVDTSNPTKKGNKFMASSFLHLTSDQWRSHQSFTCQVTHEG 206
Query: 220 DRTYK 224
D K
Sbjct: 207 DTVEK 211
>pdb|1ZTX|L Chain L, West Nile Virus Envelope Protein Diii In Complex With
Neutralizing E16 Antibody Fab
Length = 212
Score = 34.3 bits (77), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 48/195 (24%), Positives = 78/195 (40%), Gaps = 33/195 (16%)
Query: 41 VGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGF--------DRYAMIGSDEEGDYS 91
VG RV++ C+ D + + W + P +S DR+ GS DY+
Sbjct: 15 VGDRVSITCKASQDVSTAVAWYQQKPGQSPKLLISWASTRHTGVPDRFT--GSGSGTDYT 72
Query: 92 LEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLY 144
L I V +D A Y CQ ++ G + ++ A TV + PP ++ G
Sbjct: 73 LTISSVQAEDLALYYCQQHYTTPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGA-- 130
Query: 145 TTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVL 200
+ C N P + W IDG+ N + D + +T + STL L
Sbjct: 131 -------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSMSSTLTL 181
Query: 201 TPKKEHHNTTFTCQA 215
T + + ++TC+A
Sbjct: 182 TKDEYERHNSYTCEA 196
>pdb|2HWZ|L Chain L, Fab Fragment Of Humanized Anti-viral Antibody Medi-493
(synagis Tm)
Length = 213
Score = 34.3 bits (77), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 45/202 (22%), Positives = 75/202 (37%), Gaps = 26/202 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPHRNLSGFDRYA------MI 82
+ P +A VG RVT+ C+ G + W + P + + A
Sbjct: 3 QMTQSPSTLSASVGDRVTITCKCQLSVGYMHWYQQKPGKAPKLLIYDTSKLASGVPSRFS 62
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTG---ILG---EPAIRSRFATLTVLV-PPDPP 135
GS ++L I + DD A Y C +G G + I+ A +V + PP
Sbjct: 63 GSGSGTAFTLTISSLQPDDFATYYCFQGSGYPFTFGGGTKLEIKRTVAAPSVFIFPPSDE 122
Query: 136 RIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRRT 192
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 123 QLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY- 172
Query: 193 TVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 173 SLSSTLTLSKADYEKHKVYACE 194
>pdb|2OZ4|L Chain L, Structural Plasticity In Igsf Domain 4 Of Icam-1 Mediates
Cell Surface Dimerization
Length = 214
Score = 33.9 bits (76), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 49/194 (25%), Positives = 76/194 (39%), Gaps = 33/194 (17%)
Query: 42 GSRVTLPCRVIDKTGV-LQWTKDDFALGPH-------RNLSGF-DRYAMIGSDEEGDYSL 92
G RV+ CR G + W + P ++SG R++ GS D++L
Sbjct: 16 GERVSFSCRASQSIGTSIHWFQQRINGSPRLLIEYASESISGIPSRFS--GSGSGTDFTL 73
Query: 93 EIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYT 145
I V +D A Y CQ S G + I+ A TV + PP ++ G
Sbjct: 74 TINSVESEDIADYYCQQSNVWPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGA--- 130
Query: 146 TEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLT 201
+ C N P + W IDG+ N + D + +T + STL LT
Sbjct: 131 ------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSMSSTLTLT 182
Query: 202 PKKEHHNTTFTCQA 215
+ + ++TC+A
Sbjct: 183 KDEYERHNSYTCEA 196
>pdb|2WWK|O Chain O, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig F17r
Mutant Complex
Length = 109
Score = 33.9 bits (76), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 39/91 (42%), Gaps = 13/91 (14%)
Query: 377 GKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNS 436
G S + + D P F RP V+V GA L C V G P P + W E + + S
Sbjct: 1 GSSMKASSGDQGSPPCFLRRPRPVRVVSGAEAELKCVVLGEPPPVVVW--EKGGQQLAAS 58
Query: 437 PNLT---------LLMTS--DDLAGRYYCKA 456
L+ LL+T+ AG Y C+A
Sbjct: 59 ERLSFPADGAEHGLLLTAALPTDAGVYVCRA 89
Score = 33.9 bits (76), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 39/91 (42%), Gaps = 13/91 (14%)
Query: 531 GKSEDSETLDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNS 590
G S + + D P F RP V+V GA L C V G P P + W E + + S
Sbjct: 1 GSSMKASSGDQGSPPCFLRRPRPVRVVSGAEAELKCVVLGEPPPVVVW--EKGGQQLAAS 58
Query: 591 PNLT---------LLMTS--DDLAGRYYCKA 610
L+ LL+T+ AG Y C+A
Sbjct: 59 ERLSFPADGAEHGLLLTAALPTDAGVYVCRA 89
>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 = 33.9 bits (76), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 80/203 (39%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR D + + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQVST---GILGEPA---IRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ S G+ I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQSNRAPATFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|1KCU|L Chain L, Crystal Structure Of Antibody Pc287
pdb|1KC5|L Chain L, Crystal Structure Of Antibody Pc287 In Complex With Ps1
Peptide
Length = 214
Score = 33.9 bits (76), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 47/204 (23%), Positives = 76/204 (37%), Gaps = 29/204 (14%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNLSGF-DRYAMI----- 82
P+ + VG +VTL C+ + + W + P + G +RY +
Sbjct: 4 LTQSPKSMSMSVGEKVTLSCKASENVDTYVSWYQQRPEQPPALLIYGASNRYTGVPDRFT 63
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVS-------TGILGEPAIRSRFATLTVLVPPDPP 135
GS D++L I V +D A Y C S G R+ A + PP
Sbjct: 64 GSGSATDFTLTISSVQAEDLADYHCGQSYSYPLTFGGGTKLELKRADAAPTVSIFPPSSE 123
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W IDG+ N + D + +T
Sbjct: 124 QLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVANSWTAQDSKDST 172
Query: 194 --VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 173 YSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|2HFG|L Chain L, Crystal Structure Of Hbr3 Bound To Cb3s-fab
Length = 214
Score = 33.9 bits (76), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 81/203 (39%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR D + + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQC---QVSTGILGEPA---IRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y C Q+S G+ I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQSQISPPTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
Score = 30.4 bits (67), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 45/194 (23%), Positives = 76/194 (39%), Gaps = 35/194 (18%)
Query: 551 PYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKV---------------------VGN 589
P S+ G V + C + + + W + K G+
Sbjct: 8 PSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRFSGSGS 67
Query: 590 SPNLTLLMTS---DDLAGRYYCKASVMGFPEVGAEATVYLK---GRPTI-ISHRTQFGIP 642
+ TL ++S +D A YYC+ S + P G V +K P++ I + +
Sbjct: 68 GTDFTLTISSLQPEDFA-TYYCQQSQISPPTFGQGTKVEIKRTVAAPSVFIFPPSDEQLK 126
Query: 643 GDTARVECSAFSIPPPE-KVTWSYRGEEIGVGSSDDYSVLEDPLKE---GIKSTLIIRES 698
TA V C + P E KV W + G+S + SV E K+ + STL + ++
Sbjct: 127 SGTASVVCLLNNFYPREAKVQWKV-DNALQSGNSQE-SVTEQDSKDSTYSLSSTLTLSKA 184
Query: 699 RHDHFGVYNCSVSN 712
++ VY C V++
Sbjct: 185 DYEKHKVYACEVTH 198
>pdb|3PHO|A Chain A, Crystal Structure Of S64-4 In Complex With Psbp
pdb|3PHQ|A Chain A, Crystal Structure Of S64-4 In Complex With Kdo
Length = 217
Score = 33.9 bits (76), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 47/207 (22%), Positives = 71/207 (34%), Gaps = 32/207 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTGV-----LQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ CR + W + P NL
Sbjct: 4 LTQSPASLAVSLGQRATISCRASKSVSSSVNSYMHWYQQKPGQPPKLLIYLASNLESGVP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTVLVPP 132
GS D++L I+PV +D A Y CQ S G R+ A + PP
Sbjct: 64 ARFSGSGSGTDFTLNIHPVEEEDAATYYCQHSRELRTFGGGTKLEIKRADAAPTVSIFPP 123
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGR 190
++ G + C N P + W ID G+ N + D +
Sbjct: 124 SSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSK 172
Query: 191 RTT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 173 DSTYSMSSTLTLTKDEYERHNSYTCEA 199
>pdb|8FAB|A Chain A, Crystal Structure Of The Fab Fragment From The Human
Myeloma Immunoglobulin Igg Hil At 1.8 Angstroms
Resolution
pdb|8FAB|C Chain C, Crystal Structure Of The Fab Fragment From The Human
Myeloma Immunoglobulin Igg Hil At 1.8 Angstroms
Resolution
Length = 212
Score = 33.9 bits (76), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 31/127 (24%), Positives = 52/127 (40%), Gaps = 18/127 (14%)
Query: 97 VMLDDDARYQCQV---STGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIE- 152
V +D+A Y CQ S I G LTVL P+ TL+ E++
Sbjct: 77 VQAEDEADYYCQAWDNSASIFG------GGTKLTVL---GQPKAAPSVTLFPPSSEELQA 127
Query: 153 ----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHH 207
L C+ ++ P A + W + + + V T + + S L LTP++
Sbjct: 128 NKATLVCLISDFYPGAVTVAWKADSSPIKAGVETTTPSKQSNNKYAASSYLSLTPEQWKS 187
Query: 208 NTTFTCQ 214
+ +++CQ
Sbjct: 188 HRSYSCQ 194
>pdb|2XY2|A Chain A, Crystal Structure Of Ncam2 Ig1-2
Length = 189
Score = 33.9 bits (76), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 37/142 (26%), Positives = 58/142 (40%), Gaps = 19/142 (13%)
Query: 554 VQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVV----------GNSPNLTLLMTSDDLA 603
V++ G C G P I W + +K++ G LT+ + + A
Sbjct: 12 VELSVGESKFFTCTAIGEPES-IDWYNPQGEKIISTQRVVVQKEGVRSRLTIYNANIEDA 70
Query: 604 GRYYCKAS-VMGFPEVGAEATVYLKGRPTIISHRT---QFGIPGDTARVECSAFSIPPPE 659
G Y C+A+ G + EATV L+ + Q G+ A V C S P P
Sbjct: 71 GIYRCQATDAKGQTQ---EATVVLEIYQKLTFREVVSPQEFKQGEDAEVVCRVSSSPAP- 126
Query: 660 KVTWSYRGEEIGVGSSDDYSVL 681
V+W Y EE+ S + +++L
Sbjct: 127 AVSWLYHNEEVTTISDNRFAML 148
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/115 (20%), Positives = 49/115 (42%), Gaps = 11/115 (9%)
Query: 325 CKAEANPSHMKYRWY-------INDQPVPAAASATELYLTNITRHQHDS-IVKCEVHNDV 376
C A P + WY I+ Q V LT + D+ I +C+ +
Sbjct: 24 CTAIGEPESID--WYNPQGEKIISTQRVVVQKEGVRSRLTIYNANIEDAGIYRCQATDAK 81
Query: 377 GKSEDSET-LDVTYGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSD 430
G+++++ L++ FR + +G ++C V +PAP ++W++ + +
Sbjct: 82 GQTQEATVVLEIYQKLTFREVVSPQEFKQGEDAEVVCRVSSSPAPAVSWLYHNEE 136
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 36/141 (25%), Positives = 57/141 (40%), Gaps = 19/141 (13%)
Query: 400 VQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVV----------GNSPNLTLLMTSDDLA 449
V++ G C G P I W + +K++ G LT+ + + A
Sbjct: 12 VELSVGESKFFTCTAIGEPES-IDWYNPQGEKIISTQRVVVQKEGVRSRLTIYNANIEDA 70
Query: 450 GRYYCKAS-VMGFPEVGAEATVYLKGRPTIISHRT---QFGIPGDTARVECSAFSIPPPE 505
G Y C+A+ G + EATV L+ + Q G+ A V C S P P
Sbjct: 71 GIYRCQATDAKGQTQ---EATVVLEIYQKLTFREVVSPQEFKQGEDAEVVCRVSSSPAP- 126
Query: 506 KVTWSYRGEEIGVGSSDDYSV 526
V+W Y EE+ S + +++
Sbjct: 127 AVSWLYHNEEVTTISDNRFAM 147
>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 = 33.9 bits (76), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 42/200 (21%), Positives = 77/200 (38%), Gaps = 25/200 (12%)
Query: 33 EPQDQTAVVGSRVTLPC----RVIDKTGVLQWTKDDFALGP-------HRNLSGF-DRYA 80
+P + +G VT+ C + + W + P ++ SG DR++
Sbjct: 6 QPPSASGSLGQSVTISCTGTSSNVGGYNYVSWYQQHAGKAPKVIIYEVNKRPSGVPDRFS 65
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQG 140
GS SL + + +D+A Y C G + F T T + P+
Sbjct: 66 --GSKSGNTASLTVSGLQAEDEADYYCSSYEG-----SDNFVFGTGTKVTVLGQPKANPT 118
Query: 141 DTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTV 194
TL+ E++ L C+ ++ P A + W V + V T+ + +
Sbjct: 119 VTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAA 178
Query: 195 KSTLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 179 SSYLSLTPEQWKSHRSYSCQ 198
>pdb|1V7M|L Chain L, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7M|M Chain M, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|L Chain L, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|M Chain M, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|N Chain N, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|O Chain O, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|2ZKH|L Chain L, Human Thrombopoietin Neutralizing Antibody Tn1 Fab
Length = 213
Score = 33.5 bits (75), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 72/203 (35%), Gaps = 28/203 (13%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPH------RNLSGFDRYAMIG 83
P +A G +VT+ C + W + P NL+ G
Sbjct: 4 LTQSPGIMSASPGEKVTITCSASSSVSYMYWFQQKPGTSPKLWIYSTSNLASGVPARFRG 63
Query: 84 SDEEGDYSLEIYPVMLDDDARYQCQVSTG----ILGEPAI---RSRFATLTVLVPPDPPR 136
S YSL I + +D A Y CQ +G G + R+ A + PP +
Sbjct: 64 SGSGTSYSLTISRMEAEDAATYYCQQRSGYPRTFGGGTKLEIKRADAAPTVSIFPPSSEQ 123
Query: 137 IVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT- 193
+ G + C N P + W ID G+ N + D + +T
Sbjct: 124 LTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTY 172
Query: 194 -VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 173 SMSSTLTLTKDEYERHNSYTCEA 195
>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 = 33.5 bits (75), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 47/203 (23%), Positives = 79/203 (38%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR D + + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQVSTGIL------GEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ + L + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQAWAYLPTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRR 191
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|3SQO|L Chain L, Pcsk9 J16 Fab Complex
Length = 214
Score = 33.5 bits (75), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 47/203 (23%), Positives = 78/203 (38%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR + L W + P + S RY +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQGISSALAWYQQKPGKAPKLLIYSASYRYTGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQVSTGI---LGEPA---IRSRFATLTVLV-PPDP 134
GS D++ I + +D A Y CQ + G+ I+ A +V + PP
Sbjct: 63 SGSGSGTDFTFTISSLQPEDIATYYCQQRYSLWRTFGQGTKLEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>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 = 33.5 bits (75), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 47/205 (22%), Positives = 80/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGV---LQWTKDDFALGPH------RNLSGFDRY 79
+ P +A +G RVT+ CR + G+ L W + P +L+
Sbjct: 3 QMTQSPSTLSASIGDRVTITCRASE--GIYHWLAWYQQKPGKAPKLLIYKASSLASGAPS 60
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PP 132
GS D++L I + DD A Y CQ ++ G + I+ A +V + PP
Sbjct: 61 RFSGSGSGTDFTLTISSLQPDDFATYYCQQYSNYPLTFGGGTKLEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|3KR3|L Chain L, Crystal Structure Of Igf-Ii Antibody Complex
Length = 215
Score = 33.5 bits (75), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 49/205 (23%), Positives = 80/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR + L W + P + SG R+
Sbjct: 4 QMTQSPSSLSASVGDRVTITCRASQSISNYLNWYQQKPGKAPKLLIYTASTLQSGVPSRF 63
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVS------TGILGEPAIRSRFATLTVLV-PP 132
+ GS D++L I + +D A Y CQ S G + I+ A +V + PP
Sbjct: 64 S--GSASGTDFTLTINSLQPEDFATYSCQQSYNSPWTFGQGTKVEIKRTVAAPSVFIFPP 121
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VT+E S D
Sbjct: 122 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTQEDSKDS 172
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 173 TY-SLSSTLTLSKADYEKHKVYACE 196
>pdb|1QFW|M Chain M, Ternary Complex Of Human Chorionic Gonadotropin With Fv
Anti Alpha Subunit And Fv Anti Beta Subunit
Length = 108
Score = 33.5 bits (75), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 35/88 (39%), Gaps = 11/88 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDD-------FALGPHRNLSGF-DRY 79
+ P+ + VG RVTL C+ + + W + G SG DR+
Sbjct: 3 ELTQSPKSMSMSVGERVTLSCKASETVDSFVSWYQQKPEQSPKLLIFGASNRFSGVPDRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQC 107
GS D++L I V +D A Y C
Sbjct: 63 T--GSGSATDFTLTISSVQAEDFADYHC 88
>pdb|1EPF|A Chain A, Crystal Structure Of The Two N-Terminal Immunoglobulin
Domains Of The Neural Cell Adhesion Molecule (Ncam)
pdb|1EPF|B Chain B, Crystal Structure Of The Two N-Terminal Immunoglobulin
Domains Of The Neural Cell Adhesion Molecule (Ncam)
pdb|1EPF|C Chain C, Crystal Structure Of The Two N-Terminal Immunoglobulin
Domains Of The Neural Cell Adhesion Molecule (Ncam)
pdb|1EPF|D Chain D, Crystal Structure Of The Two N-Terminal Immunoglobulin
Domains Of The Neural Cell Adhesion Molecule (Ncam)
Length = 191
Score = 33.5 bits (75), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 38/174 (21%), Positives = 68/174 (39%), Gaps = 26/174 (14%)
Query: 551 PYSVQVDRGAGVNLLCDVDGNPA-PEITWIHEDSDKVVGNSPNLTLLMTSDDL------- 602
P ++ G LC V G+ +I+W + +K+ N ++++ DD
Sbjct: 9 PSQGEISVGESKFFLCQVAGDAKDKDISWFSPNGEKLSPNQQRISVVWNDDDSSTLTIYN 68
Query: 603 -----AGRYYCKASVMGFPEVGAEATVYLKGRPTIISHRT---QFGIPGDTARVECSAFS 654
AG Y C + + +EATV +K ++ Q G+ A + C S
Sbjct: 69 ANIDDAGIYKCVVTAEDGTQ--SEATVNVKIFQKLMFKNAPTPQEFKEGEDAVIVCDVVS 126
Query: 655 IPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNC 708
PP + W ++G ++ + + VL + + L IR + G Y C
Sbjct: 127 SLPP-TIIWKHKGRDVILKKDVRFIVLSN-------NYLQIRGIKKTDEGTYRC 172
Score = 31.2 bits (69), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 30/136 (22%), Positives = 55/136 (40%), Gaps = 19/136 (13%)
Query: 397 PYSVQVDRGAGVNLLCDVDGNPA-PEITWIHEDSDKVVGNSPNLTLLMTSDDL------- 448
P ++ G LC V G+ +I+W + +K+ N ++++ DD
Sbjct: 9 PSQGEISVGESKFFLCQVAGDAKDKDISWFSPNGEKLSPNQQRISVVWNDDDSSTLTIYN 68
Query: 449 -----AGRYYCKASVMGFPEVGAEATVYLKGRPTIISHRT---QFGIPGDTARVECSAFS 500
AG Y C + + +EATV +K ++ Q G+ A + C S
Sbjct: 69 ANIDDAGIYKCVVTAEDGTQ--SEATVNVKIFQKLMFKNAPTPQEFKEGEDAVIVCDVVS 126
Query: 501 IPPPEKVTWSYRGEEI 516
PP + W ++G ++
Sbjct: 127 SLPP-TIIWKHKGRDV 141
Score = 29.6 bits (65), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 27/125 (21%), Positives = 48/125 (38%), Gaps = 12/125 (9%)
Query: 349 ASATELYLTNITRHQHDSIVKCEVHNDVG-KSEDSETLDVTYGPRFRARPYSVQVDRGAG 407
+S +Y NI I KC V + G +SE + + + F+ P + G
Sbjct: 61 SSTLTIYNANI---DDAGIYKCVVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGED 117
Query: 408 VNLLCDVDGNPAPEITWIHEDSDKVVGNSPNLTLLMTS--------DDLAGRYYCKASVM 459
++CDV + P I W H+ D ++ +L + G Y C+ ++
Sbjct: 118 AVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYLQIRGIKKTDEGTYRCEGRIL 177
Query: 460 GFPEV 464
E+
Sbjct: 178 ARGEI 182
>pdb|2XQY|K Chain K, Crystal Structure Of Pseudorabies Core Fragment Of
Glycoprotein H In Complex With Fab D6.3
pdb|2XQY|L Chain L, Crystal Structure Of Pseudorabies Core Fragment Of
Glycoprotein H In Complex With Fab D6.3
Length = 220
Score = 33.5 bits (75), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 48/208 (23%), Positives = 74/208 (35%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV---IDKTGV--LQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ CR + +G + W + P NL
Sbjct: 6 LTQSPASLALSLGQRATISCRASKSVSTSGYSYMYWYQQKPGQPPKLLIYLASNLESGVP 65
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVP 131
GS D++L I+PV +D A Y CQ S G R+ A + P
Sbjct: 66 ARFSGSGSGTDFTLNIHPVEEEDAATYYCQHSRELPWTFGGGTKLEINRADAAPTVSIFP 125
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W ID G+ N + D
Sbjct: 126 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDS 174
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 175 KDSTYSMSSTLTLTKDEYERHNSYTCEA 202
>pdb|3LIZ|L Chain L, Crystal Structure Of Bla G 2 Complexed With Fab 4c3
Length = 211
Score = 33.5 bits (75), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 47/204 (23%), Positives = 74/204 (36%), Gaps = 29/204 (14%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA------MI 82
P A +G RVT+ C+ D L W + P + DR +
Sbjct: 4 LTQSPSSMYASLGERVTITCKASQDINNYLSWFQQKPGKSPKTLIYRADRLVDGVPSRVS 63
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQC----QVSTGILGEPAI---RSRFATLTVLVPPDPP 135
GS DYSL I + +D Y C ++ G + R+ A + PP
Sbjct: 64 GSGSGQDYSLTISSLEYEDLGIYYCLQYDELPYTFGGGTKLEIKRADAAPTVSIFPPSSE 123
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W IDG+ N + D + +T
Sbjct: 124 QLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDST 172
Query: 194 --VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 173 YSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|4H20|L Chain L, Crystal Structure And Computational Modeling Of The Fab
Fragment From The Protective Anti-ricin Monoclonal
Antibody Rac18
Length = 214
Score = 33.5 bits (75), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 47/193 (24%), Positives = 77/193 (39%), Gaps = 29/193 (15%)
Query: 41 VGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI-----GSDEEGDYSLE 93
VG RV++ C+ D T + W + P + S RY + GS D++
Sbjct: 15 VGDRVSITCKASQDVTSAVAWFQQKPGQSPKLLIYSASYRYTGVPDRFTGSGSGTDFTFT 74
Query: 94 IYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYTT 146
I V +D A Y CQ ++ G + ++ A TV + PP ++ G
Sbjct: 75 ISSVQAEDLAVYYCQQHYGTPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGA---- 130
Query: 147 EDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLTP 202
+ C N P + W IDG+ N + D + +T + STL LT
Sbjct: 131 -----SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSMSSTLTLTK 183
Query: 203 KKEHHNTTFTCQA 215
+ + ++TC+A
Sbjct: 184 DEYERHNSYTCEA 196
>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 = 33.5 bits (75), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 43/202 (21%), Positives = 75/202 (37%), Gaps = 26/202 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPH------RNLSGFDRYAMI 82
+ P +A VG RVT+ C + W + P NL+
Sbjct: 3 QMTQSPSTLSASVGDRVTITCSASSSISYMHWYQQKPGKAPKLLIYTTSNLASGVPARFS 62
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDPP 135
GS +++L I + DD A Y C ++ G + ++ A +V + PP
Sbjct: 63 GSGSGTEFTLTISSLQPDDFATYYCHQRSTYPLTFGQGTKVEVKRTVAAPSVFIFPPSDE 122
Query: 136 RIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRRT 192
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 QLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY- 172
Query: 193 TVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 173 SLSSTLTLSKADYEKHKVYACE 194
>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 = 33.5 bits (75), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 53/208 (25%), Positives = 82/208 (39%), Gaps = 35/208 (16%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL----SGFD-----R 78
+ P +A +G RV+L CR G L W + + G + L S D R
Sbjct: 3 QMTQSPSSLSASLGERVSLTCRASQDIGSKLYWLQQE-PDGTFKRLIYATSSLDSGVPKR 61
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVP 131
++ GS DYSL I + +D Y C + G + AI+ A TV + P
Sbjct: 62 FS--GSRSGSDYSLTISSLESEDFVDYYCLQYASSPYTFGGGTKLAIKRADAAPTVSIFP 119
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W IDG+ N + D
Sbjct: 120 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDS 168
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 169 KDSTYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|4HPO|L Chain L, Crystal Structure Of Rv144-elicited Antibody Ch58 In
Complex With V2 Peptide
pdb|4HQQ|L Chain L, Crystal Structure Of Rv144-elicited Antibody Ch58
Length = 216
Score = 33.5 bits (75), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 60/147 (40%), Gaps = 18/147 (12%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQV---STGILGEPAIRSRFATLTVLVPPD 133
DR++ SL I + +D+A Y CQ S+ + G LTVL
Sbjct: 61 DRFSGSIDSSSNSASLTISGLKTEDEADYYCQSYDNSSWVFG------GGTKLTVL---G 111
Query: 134 PPRIVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASV 187
P+ TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 112 QPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQ 171
Query: 188 DGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 172 SNNKYAASSYLSLTPEQWKSHRSYSCQ 198
>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 = 33.5 bits (75), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 78/203 (38%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ C+ + + W + P + S RY +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCKASQDVSIGVAWYQQKPGKAPKLLIYSASYRYTGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ + G + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQYYIYPYTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRR 191
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>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 = 33.5 bits (75), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 49/205 (23%), Positives = 75/205 (36%), Gaps = 29/205 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA------M 81
K P A +G RVT+ C+ D L W + P + +R
Sbjct: 3 KMTQSPSSMYASLGERVTITCKASQDINSYLSWFQQKPGKSPKTLIYRANRLVDGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDP 134
IG+ DYSL I + D Y C + G + I+ A TV + PP
Sbjct: 63 IGTGSGQDYSLTISSLDYADMGIYYCLQYDEFPYTFGGGTKLEIKRADAAPTVSIFPPSS 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRT 192
++ G + C N P + W IDG+ N + D + +
Sbjct: 123 EQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKDS 171
Query: 193 T--VKSTLVLTPKKEHHNTTFTCQA 215
T + STL LT + + ++TC+A
Sbjct: 172 TYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|3GHE|L Chain L, Crystal Structure Of Anti-Hiv-1 Fab 537-10d In Complex
With V3 Peptide Mn
Length = 217
Score = 33.5 bits (75), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 55/138 (39%), Gaps = 10/138 (7%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS SL I + +D+A Y C T P + F T L P+ T
Sbjct: 66 GSKSGDTASLTISGLQAEDEADYHCSSYTS--STPYVL--FGGGTKLTVLGQPKAAPSVT 121
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E++ L C+ ++ P A + W + V + V T + + S
Sbjct: 122 LFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASS 181
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 182 YLSLTPEQWKSHRSYSCQ 199
>pdb|1LK3|L Chain L, Engineered Human Interleukin-10 Monomer Complexed To 9d7
Fab Fragment
pdb|1LK3|M Chain M, Engineered Human Interleukin-10 Monomer Complexed To 9d7
Fab Fragment
Length = 210
Score = 33.5 bits (75), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 53/202 (26%), Positives = 79/202 (39%), Gaps = 33/202 (16%)
Query: 33 EPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPH------RNLSGFDRYAMIGSD 85
+P T G ++T+ C+ + T + W + P NL+ GS
Sbjct: 6 QPPALTVSPGEKLTISCKASESVTSRMHWYQQKPGQQPKLLIYKASNLASGVPARFSGSG 65
Query: 86 EEGDYSLEIYPVMLDDDARYQCQVS-TGILGEPA------IRSRFATLTVLVPPDPPRIV 138
D++L I PV DD A Y CQ S G L A R+ A + PP ++
Sbjct: 66 SGTDFTLTIDPVEADDTAIYFCQQSWNGPLTFGAGTKLELKRADAAPTVSIFPPSTEQLA 125
Query: 139 QGDTLYTTEDREIELECISANGKP-PAEITW-IDGT----GTVMSNVRVTEEASVDGRRT 192
G + C+ N P + W IDGT G + S VT++ S D
Sbjct: 126 TGGA---------SVVCLMNNFYPRDISVKWKIDGTERRDGVLDS---VTDQDSKDSTY- 172
Query: 193 TVKSTLVLTPKKEHHNTTFTCQ 214
++ STL LT + +TC+
Sbjct: 173 SMSSTLSLTKADYESHNLYTCE 194
>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 = 33.5 bits (75), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 80/203 (39%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR D + + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQVS------TGILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ S G + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQSFYFPNTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|1IGY|A Chain A, Structure Of Immunoglobulin
pdb|1IGY|C Chain C, Structure Of Immunoglobulin
Length = 213
Score = 33.5 bits (75), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 48/193 (24%), Positives = 76/193 (39%), Gaps = 29/193 (15%)
Query: 41 VGSRVTLPCRVIDKT-GVLQWTKDDFALGPHRNLSGF-DRYAMI-----GSDEEGDYSLE 93
VG RVTL C+ + + W + P + G +RY + GS D++L
Sbjct: 14 VGERVTLTCKASENVVTYVSWYQQKPEQSPKLLIYGASNRYTGVPDRFTGSGSATDFTLT 73
Query: 94 IYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYTT 146
I V +D A Y C + G + I+ A TV + PP ++ G
Sbjct: 74 ISSVQAEDLADYHCGQGYSYPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGA---- 129
Query: 147 EDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLTP 202
+ C N P + W IDG+ N + D + +T + STL LT
Sbjct: 130 -----SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKDSTYSMSSTLTLTK 182
Query: 203 KKEHHNTTFTCQA 215
+ + ++TC+A
Sbjct: 183 DEYERHNSYTCEA 195
>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 = 33.5 bits (75), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 49/205 (23%), Positives = 80/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR + L W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRTSQSISSYLNWYQQKPGKAPKLLIYAASSLQSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVS------TGILGEPAIRSRFATLTVLV-PP 132
+ GS D++L I + +D A Y CQ S G + I+ A +V + PP
Sbjct: 63 S--GSGSGTDFTLTISSLQPEDFATYYCQQSYSAPRTFGQGTKVEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|3MLW|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 1006-15d In Complex
With An Mn V3 Peptide
pdb|3MLW|M Chain M, Crystal Structure Of Anti-Hiv-1 V3 Fab 1006-15d In Complex
With An Mn V3 Peptide
Length = 215
Score = 33.5 bits (75), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 59/144 (40%), Gaps = 10/144 (6%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I + +D+A Y C G P F T T + P+
Sbjct: 61 DRFS--GSKSGTSASLAISGLRSEDEADYYCASWDDSRGGPDYV--FGTGTKVTVLGQPK 116
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W V + V T+ +
Sbjct: 117 ANPTVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNN 176
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 177 KYAASSYLSLTPEQWKSHRSYSCQ 200
>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 = 33.5 bits (75), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 42/200 (21%), Positives = 77/200 (38%), Gaps = 25/200 (12%)
Query: 33 EPQDQTAVVGSRVTLPCRV----IDKTGVLQWTKDDFALGP-------HRNLSGF-DRYA 80
+P + +G VT+ C + + W + P ++ SG DR++
Sbjct: 6 QPPSASGSLGQSVTISCTGTSSDVGGYNYVSWYQQHAGKAPKVIIYEVNKRPSGVPDRFS 65
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQG 140
GS SL + + +D+A Y C G + F T T + P+
Sbjct: 66 --GSKSGNTASLTVSGLQAEDEADYYCSSYEG-----SDNFVFGTGTKVTVLGQPKANPT 118
Query: 141 DTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTV 194
TL+ E++ L C+ ++ P A + W V + V T+ + +
Sbjct: 119 VTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAA 178
Query: 195 KSTLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 179 SSYLSLTPEQWKSHRSYSCQ 198
>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 = 33.5 bits (75), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 45/198 (22%), Positives = 79/198 (39%), Gaps = 27/198 (13%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL-SGFDRYAMI-----GSDE 86
P+ + VG RV++ C+ G + W + P + S +RY + GS
Sbjct: 8 PKFMSTTVGDRVSITCKASQNVGTPVAWYQQKPGQSPKLLIYSASNRYTGVPDRFTGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDPPRIVQ 139
D++L I + +D A Y CQ ++ G + I+ A +V + PP ++
Sbjct: 68 GTDFTLTISNMQSEDLADYFCQQYSSYPLTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKS 127
Query: 140 GDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRRTTVKS 196
G + C+ N P A++ W N + VTE+ S D ++ S
Sbjct: 128 GTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY-SLSS 177
Query: 197 TLVLTPKKEHHNTTFTCQ 214
TL L+ + + C+
Sbjct: 178 TLTLSKADYEKHKVYACE 195
>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 = 33.1 bits (74), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 76/203 (37%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNLSGF-DRYAMI---- 82
+ P +A VG RVT+ C+ + + W + P + G +RY +
Sbjct: 3 QMTQSPSTLSASVGDRVTITCKASENVDTYVSWYQQKPGKAPKLLIYGASNRYTGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQVSTG---ILGE----PAIRSRFATLTVLVPPDP 134
GS D++L I + DD A Y C S G+ R+ A + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPDDFATYYCGQSYNYPFTFGQGTKVEVKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRR 191
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>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 = 33.1 bits (74), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 42/200 (21%), Positives = 77/200 (38%), Gaps = 25/200 (12%)
Query: 33 EPQDQTAVVGSRVTLPCRV----IDKTGVLQWTKDDFALGP-------HRNLSGF-DRYA 80
+P + +G VT+ C + + W + P ++ SG DR++
Sbjct: 6 QPPSASGSLGQSVTISCTGTSSDVGGYNYVSWYQQHAGKAPKVIIYEVNKRPSGVPDRFS 65
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQG 140
GS SL + + +D+A Y C G + F T T + P+
Sbjct: 66 --GSKSGNTASLTVSGLQAEDEADYYCSSYEG-----SDNFVFGTGTKVTVLGQPKANPT 118
Query: 141 DTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTV 194
TL+ E++ L C+ ++ P A + W V + V T+ + +
Sbjct: 119 VTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAA 178
Query: 195 KSTLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 179 SSYLSLTPEQWKSHRSYSCQ 198
>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 = 33.1 bits (74), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 75/203 (36%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPH------RNLSGFDRYAM 81
+ P +A VG RVT+ CR L W + P NL
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQSISTWLAWYQQKPGKAPKLLIYKASNLHTGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQV------STGILGEPAIRSRFATLTVLV-PPDP 134
GS ++SL I + DD A Y CQ + G + I+ A +V + PP
Sbjct: 63 SGSGSGTEFSLTISGLQPDDFATYYCQQYNSYSRTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>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 = 33.1 bits (74), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 77/205 (37%), Gaps = 29/205 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPH------RNLSGFDRYAM 81
+ P +A +G +VT+ C+ D + W + GP L +
Sbjct: 3 QMTQSPSSLSATLGGKVTITCKASQDINKYIAWYQHKPGKGPRLLIHYTSTLQPGNPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQC------QVSTGILGEPAIRSRFATLTV-LVPPDP 134
GS DYS I + +D A Y C Q + G + I+ A TV + PP
Sbjct: 63 SGSGSGRDYSFSISNLEAEDIAIYYCLQYDNLQRTFGGGTKVEIKRADAAPTVSIFPPSS 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRT 192
++ G + C N P + W IDG+ N + D + +
Sbjct: 123 EQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKDS 171
Query: 193 T--VKSTLVLTPKKEHHNTTFTCQA 215
T + STL LT + + ++TC+A
Sbjct: 172 TYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|1HEZ|A Chain A, Antibody-Antigen Complex
pdb|1HEZ|C Chain C, Antibody-Antigen Complex
Length = 214
Score = 33.1 bits (74), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 49/205 (23%), Positives = 80/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR + L W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRTSQSISSYLNWYQQKPGKAPKLLIYAASSLQSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVS------TGILGEPAIRSRFATLTVLV-PP 132
+ GS D++L I + +D A Y CQ S G + I+ A +V + PP
Sbjct: 63 S--GSGSGTDFTLTISSLQPEDFATYYCQQSYSTPRTFGQGTKVEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|2Y6S|C Chain C, Structure Of An Ebolavirus-Protective Antibody In Complex
With Its Mucin-Domain Linear Epitope
pdb|2Y6S|L Chain L, Structure Of An Ebolavirus-Protective Antibody In Complex
With Its Mucin-Domain Linear Epitope
Length = 217
Score = 33.1 bits (74), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 47/208 (22%), Positives = 75/208 (36%), Gaps = 33/208 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV---IDKTGV--LQWTKDDFALGPH------RNLSGFDR 78
P +G R T+ CR + +G + W + P NL
Sbjct: 4 LTQSPASLAVSLGQRATISCRASKSVSTSGYSYMHWNQQKPGQPPRLLIYLVSNLESGVP 63
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQ----VSTGILGEPAI---RSRFATLTVLVP 131
GS D++L I PV +D A Y CQ ++ G + R+ A + P
Sbjct: 64 ARFSGSGSGTDFTLNIAPVEEEDAATYYCQHIAELTRTFGGGTKLEIKRADAAPTVSIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W IDG+ N + D
Sbjct: 124 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDS 172
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 173 KDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>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 = 33.1 bits (74), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 48/196 (24%), Positives = 71/196 (36%), Gaps = 29/196 (14%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDD------FALGPHRNLSGFDRYAMIGSDEEGDY 90
+A +G RVT+ CR D L W + + NL GS DY
Sbjct: 12 SASLGDRVTISCRASQDINNYLNWYQQKPDGTVKILIYYTSNLHSGVPSRFSGSGSGTDY 71
Query: 91 SLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPPRIVQGDTL 143
SL I + +D A Y CQ G R+ A + PP ++ G
Sbjct: 72 SLTISNLEQEDIATYFCQQGNTLPRTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGA- 130
Query: 144 YTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLV 199
+ C N P + W ID G+ N + D + +T + STL
Sbjct: 131 --------SVVCFLNNFYPKDINVKWKID--GSARQNGVLNSWTDQDSKDSTYSMSSTLT 180
Query: 200 LTPKKEHHNTTFTCQA 215
LT + + ++TC+A
Sbjct: 181 LTKDEYERHNSYTCEA 196
>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 = 33.1 bits (74), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 53/211 (25%), Positives = 80/211 (37%), Gaps = 41/211 (19%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-------SGFD--- 77
+ P +A +G RV+L CR D G L W + GP + S D
Sbjct: 3 QMTQSPSSLSASLGERVSLTCRASQDIGGNLYWLQQ----GPDGTIKRLIYATSSLDPGV 58
Query: 78 --RYAMIGSDEEGDYSLEIYPVMLDDDARYQC-QVST------GILGEPAIRSRFATLTV 128
R++ GS DYSL I + +D Y C Q S+ G R+ A
Sbjct: 59 PKRFS--GSRSGSDYSLTISSLKSEDFVDYYCLQYSSSPWTFGGGTKLEIKRADAAPTVS 116
Query: 129 LVPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEAS 186
+ PP ++ G + C N P + W IDG+ N +
Sbjct: 117 IFPPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTD 165
Query: 187 VDGRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
D + +T + STL LT + + ++TC+A
Sbjct: 166 QDSKDSTYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|3UYP|A Chain A, Crystal Structure Of The Dengue Virus Serotype 4 Envelope
Protein Domain Iii In Complex With The Variable Domains
Of Mab 4e11
pdb|3UZE|A Chain A, Crystal Structure Of The Dengue Virus Serotype 3 Envelope
Protein Domain Iii In Complex With The Variable Domains
Of Mab 4e11
pdb|3UZE|B Chain B, Crystal Structure Of The Dengue Virus Serotype 3 Envelope
Protein Domain Iii In Complex With The Variable Domains
Of Mab 4e11
pdb|3UZQ|A Chain A, Crystal Structure Of The Dengue Virus Serotype 1 Envelope
Protein Domain Iii In Complex With The Variable Domains
Of Mab 4e11
pdb|3UZV|B Chain B, Crystal Structure Of The Dengue Virus Serotype 2 Envelope
Protein Domain Iii In Complex With The Variable Domains
Of Mab 4e11
Length = 253
Score = 33.1 bits (74), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 34/88 (38%), Gaps = 11/88 (12%)
Query: 34 PQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGPH------RNLSGFDRYAMI 82
P +G R T+ CR +D+ G + W + P NL
Sbjct: 140 PASLAVSLGQRATISCRASENVDRYGNSFMHWYQQKAGQPPKLLIYRASNLESGIPARFS 199
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVS 110
GS D++L I PV DD A Y CQ S
Sbjct: 200 GSGSRTDFTLTINPVEADDVATYFCQRS 227
>pdb|1NGY|A Chain A, Chimeric Mature Fab 7g12-Apo
Length = 213
Score = 33.1 bits (74), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 45/198 (22%), Positives = 79/198 (39%), Gaps = 27/198 (13%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL-SGFDRYAMI-----GSDE 86
P+ + VG RV++ C+ G + W + P + S +RY + GS
Sbjct: 8 PKFMSTTVGDRVSITCKASQNVGTPVAWYQQKPGQSPKLLIYSASNRYTGVPDRFTGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDPPRIVQ 139
D++L I + +D A Y CQ ++ G + I+ A +V + PP ++
Sbjct: 68 GTDFTLTISNMQSEDLADYFCQQYSSYPLTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKS 127
Query: 140 GDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRRTTVKS 196
G + C+ N P A++ W N + VTE+ S D ++ S
Sbjct: 128 GTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY-SLSS 177
Query: 197 TLVLTPKKEHHNTTFTCQ 214
TL L+ + + C+
Sbjct: 178 TLTLSKADYEKHKVYACE 195
>pdb|3UJJ|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 4025 In Complex
With Con A Peptide
Length = 213
Score = 33.1 bits (74), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 33/130 (25%), Positives = 55/130 (42%), Gaps = 10/130 (7%)
Query: 91 SLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDRE 150
+L I +DD+A Y C ST G + +TVL P V TL+ E
Sbjct: 71 TLTISGAQVDDEADYYC-YSTNSGGTFFVFGTGTKVTVLGQPKANPTV---TLFPPSSEE 126
Query: 151 IE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKK 204
++ L C+ ++ P A + W + V + V T + + S L LTP++
Sbjct: 127 LQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQ 186
Query: 205 EHHNTTFTCQ 214
+ +++CQ
Sbjct: 187 WKSHRSYSCQ 196
>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 = 33.1 bits (74), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 34/144 (23%), Positives = 57/144 (39%), Gaps = 10/144 (6%)
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQV---STGILGE-PAIRSRFATLTVLVPPDPPR 136
+ GS +L I D+ Y CQ STG+ G + F T L P+
Sbjct: 61 LSGSKSGKTATLTISGTQSLDEGDYYCQAWDASTGVSGGGTKLTVLFGDGTRLTVLGQPK 120
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 121 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 180
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 181 KYAASSYLSLTPEQWKSHKSYSCQ 204
>pdb|2HFF|A Chain A, Crystal Structure Of Cb2 Fab
pdb|2HFF|L Chain L, Crystal Structure Of Cb2 Fab
Length = 214
Score = 33.1 bits (74), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 80/203 (39%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR D + + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ S G + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQSRITPPTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|3MLU|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Zam18 V3 Peptide
Length = 218
Score = 33.1 bits (74), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 34/144 (23%), Positives = 57/144 (39%), Gaps = 10/144 (6%)
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQV---STGILGE-PAIRSRFATLTVLVPPDPPR 136
+ GS +L I D+ Y CQ STG+ G + F T L P+
Sbjct: 60 LSGSKSGKTATLTISGTQSLDEGDYYCQAWDASTGVSGGGTKLTVLFGEGTRLTVLAQPK 119
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 120 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 179
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 180 KYAASSYLSLTPEQWKSHKSYSCQ 203
>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 = 33.1 bits (74), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 53/203 (26%), Positives = 83/203 (40%), Gaps = 35/203 (17%)
Query: 34 PQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL----SGFD-----RYAMIG 83
P +A +G RV+L CR + +G L W ++ G + L S D R++ G
Sbjct: 8 PSSLSASLGERVSLTCRASQEISGYLSWLQEK-PDGTIKRLIYAASTLDSGVPKRFS--G 64
Query: 84 SDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPR 136
S DYSL I + +D A Y C + G + I+ A TV + PP +
Sbjct: 65 SRSGSDYSLTISSLESEDFADYYCLQYVSYPWTFGGGTKLEIKRADAAPTVSIFPPSSEQ 124
Query: 137 IVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT- 193
+ G + C N P + W ID G+ N + D + +T
Sbjct: 125 LTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTY 173
Query: 194 -VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 174 SMSSTLTLTKDEYERHNSYTCEA 196
>pdb|1YNT|A Chain A, Structure Of The Immunodominant Epitope Displayed By The
Surface Antigen 1 (Sag1) Of Toxoplasma Gondii Complexed
To A Monoclonal Antibody
pdb|1YNT|C Chain C, Structure Of The Immunodominant Epitope Displayed By The
Surface Antigen 1 (Sag1) Of Toxoplasma Gondii Complexed
To A Monoclonal Antibody
Length = 213
Score = 33.1 bits (74), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 52/198 (26%), Positives = 79/198 (39%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGSDEEG 88
+A +G RVT+ CR D + L W + R SG R++ GS
Sbjct: 12 SASLGDRVTISCRASQDISNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFS--GSGSGT 69
Query: 89 DYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGD 141
DYSL I + +D A Y CQ + G + I+ A TV + PP ++ G
Sbjct: 70 DYSLTISNLEQEDIATYFCQQGNTLPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGG 129
Query: 142 TLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W ID G+ N + D + +T + ST
Sbjct: 130 A---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 179 LTLTKDEYERHNSYTCEA 196
>pdb|2R69|L Chain L, Crystal Structure Of Fab 1a1d-2 Complexed With E-Diii Of
Dengue Virus At 3.8 Angstrom Resolution
Length = 212
Score = 33.1 bits (74), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 37/144 (25%), Positives = 56/144 (38%), Gaps = 22/144 (15%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPP 135
GS D++L I PV DD A Y CQ + G R+ A + PP
Sbjct: 68 GSGSRTDFTLTINPVEADDVATYYCQQTNVDPWAFGGGTKLEIKRADAAPTVSIFPPSSE 127
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W IDG+ N + D + +T
Sbjct: 128 QLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDST 176
Query: 194 --VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 177 YSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|2R29|L Chain L, Neutralization Of Dengue Virus By A Serotype
Cross-Reactive Antibody Elucidated By Cryoelectron
Microscopy And X-Ray Crystallography
Length = 217
Score = 33.1 bits (74), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 48/210 (22%), Positives = 75/210 (35%), Gaps = 37/210 (17%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDK-----TGVLQWTKDDFALGPHRNL-------SGF- 76
P +G R T+ CR + + W + P + SG
Sbjct: 4 LTQSPASLAVSLGQRATISCRASESVVRYGNSFMHWYQQKPGQPPKLLIYRASSLESGIP 63
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVL 129
R++ GS D++L I PV DD A Y CQ + G R+ A +
Sbjct: 64 TRFS--GSGSRTDFTLTINPVEADDVATYYCQQTNVDPWAFGGGTKLEIKRADAAPTVSI 121
Query: 130 VPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASV 187
PP ++ G + C N P + W IDG+ N +
Sbjct: 122 FPPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQ 170
Query: 188 DGRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
D + +T + STL LT + + ++TC+A
Sbjct: 171 DSKDSTYSMSSTLTLTKDEYERHNSYTCEA 200
>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 = 33.1 bits (74), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 34/144 (23%), Positives = 57/144 (39%), Gaps = 10/144 (6%)
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQV---STGILGE-PAIRSRFATLTVLVPPDPPR 136
+ GS +L I D+ Y CQ STG+ G + F T L P+
Sbjct: 61 LSGSKSGKTATLTISGTQSLDEGDYYCQAWDASTGVSGGGTKLTVLFGEGTRLTVLAQPK 120
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 121 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 180
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 181 KYAASSYLSLTPEQWKSHKSYSCQ 204
>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 = 33.1 bits (74), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 80/203 (39%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR D + + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQVS------TGILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ S G + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQSYTTPPTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|1FE8|L Chain L, Crystal Structure Of The Von Willebrand Factor A3 Domain
In Complex With A Fab Fragment Of Igg Ru5 That Inhibits
Collagen Binding
pdb|1FE8|M Chain M, Crystal Structure Of The Von Willebrand Factor A3 Domain
In Complex With A Fab Fragment Of Igg Ru5 That Inhibits
Collagen Binding
pdb|1FE8|N Chain N, Crystal Structure Of The Von Willebrand Factor A3 Domain
In Complex With A Fab Fragment Of Igg Ru5 That Inhibits
Collagen Binding
Length = 211
Score = 33.1 bits (74), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 50/198 (25%), Positives = 75/198 (37%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCRVIDKTG-VLQWTKDD-------FALGPHRNLSGF-DRYAMIGSDEEG 88
+A +G +VT+ CR G L W + R SG R++ GS
Sbjct: 12 SASLGQKVTISCRASQDIGNYLNWYQQKPDGTVRLLIYYTSRLHSGVPSRFS--GSGSGT 69
Query: 89 DYSLEIYPVMLDDDARYQCQ-------VSTGILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
DYSL I + +D A Y CQ G R+ A T + PP ++ G
Sbjct: 70 DYSLTISNLESEDIATYFCQNGGTNPWTFGGGTKLEVKRADAAPTTSIFPPSSEQLTSGG 129
Query: 142 TLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W ID G+ N + D + +T + ST
Sbjct: 130 A---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 179 LTLTKDEYERHNSYTCEA 196
>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 = 33.1 bits (74), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 47/193 (24%), Positives = 78/193 (40%), Gaps = 29/193 (15%)
Query: 41 VGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL-SGFDRYAMI-----GSDEEGDYSLE 93
VG RV++ C+ G + W + P + S RY+ + GS D++L
Sbjct: 15 VGDRVSVTCKASQNVGTNVAWYQQKPGQSPKPLMYSASYRYSGVPDRFTGSGSGTDFTLT 74
Query: 94 IYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYTT 146
I V +D A Y CQ ++ G + ++ A TV + PP ++ G
Sbjct: 75 ISNVQSEDLAEYFCQQFNRYPLTFGSGTKLELKRADAAPTVSIFPPSSEQLTSGGA---- 130
Query: 147 EDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLTP 202
+ C N P + W ID G+ N + D + +T + STL LT
Sbjct: 131 -----SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSSTLTLTK 183
Query: 203 KKEHHNTTFTCQA 215
+ + ++TC+A
Sbjct: 184 DEYERHNSYTCEA 196
>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 = 33.1 bits (74), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 48/204 (23%), Positives = 80/204 (39%), Gaps = 30/204 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR + + W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQASYSSVAWYQQKPGKAPKLLIYAASYLYSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVST--GILGEPA---IRSRFATLTVLV-PPD 133
+ GS D++L I + +D A Y CQ S G+ I+ A +V + PP
Sbjct: 63 S--GSGSGTDFTLTISSLQPEDFATYYCQSSASPATFGQGTKVEIKRTVAAPSVFIFPPS 120
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGR 190
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 DEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDST 171
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 Y-SLSSTLTLSKADYEKHKVYACE 194
>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 = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 47/193 (24%), Positives = 78/193 (40%), Gaps = 29/193 (15%)
Query: 41 VGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL-SGFDRYAMI-----GSDEEGDYSLE 93
VG RV++ C+ G + W + P + S RY+ + GS D++L
Sbjct: 15 VGDRVSVTCKASQNVGTNVAWYQKKPGQSPKPLMYSASYRYSGVPDRFTGSGSGTDFTLT 74
Query: 94 IYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYTT 146
I V +D A Y CQ ++ G + ++ A TV + PP ++ G
Sbjct: 75 ISNVQSEDLAEYFCQQFNRYPLTFGSGTKLELKRADAAPTVSIFPPSSEQLTSGGA---- 130
Query: 147 EDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLTP 202
+ C N P + W ID G+ N + D + +T + STL LT
Sbjct: 131 -----SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSSTLTLTK 183
Query: 203 KKEHHNTTFTCQA 215
+ + ++TC+A
Sbjct: 184 DEYERHNSYTCEA 196
>pdb|1I8M|L Chain L, Crystal Structure Of A Recombinant Anti-Single-Stranded
Dna Antibody Fragment Complexed With Dt5
pdb|1I8M|A Chain A, Crystal Structure Of A Recombinant Anti-Single-Stranded
Dna Antibody Fragment Complexed With Dt5
pdb|1P7K|L Chain L, Crystal Structure Of An Anti-Ssdna Antigen-Binding
Fragment (Fab) Bound To
4-(2-Hydroxyethyl)piperazine-1-Ethanesulfonic Acid
(Hepes)
pdb|1P7K|A Chain A, Crystal Structure Of An Anti-Ssdna Antigen-Binding
Fragment (Fab) Bound To
4-(2-Hydroxyethyl)piperazine-1-Ethanesulfonic Acid
(Hepes)
pdb|1XF2|L Chain L, Structure Of Fab Dna-1 Complexed With Dt3
pdb|1XF2|A Chain A, Structure Of Fab Dna-1 Complexed With Dt3
pdb|1XF3|L Chain L, Structure Of Ligand-Free Fab Dna-1 In Space Group P65
pdb|1XF3|A Chain A, Structure Of Ligand-Free Fab Dna-1 In Space Group P65
pdb|1XF4|L Chain L, Structure Of Ligand-Free Fab Dna-1 In Space Group P321
Solved From Crystals With Perfect Hemihedral Twinning
pdb|1XF4|A Chain A, Structure Of Ligand-Free Fab Dna-1 In Space Group P321
Solved From Crystals With Perfect Hemihedral Twinning
pdb|2FR4|L Chain L, Structure Of Fab Dna-1 Complexed With A Stem-loop Dna
Ligand
pdb|2FR4|A Chain A, Structure Of Fab Dna-1 Complexed With A Stem-loop Dna
Ligand
Length = 214
Score = 33.1 bits (74), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 47/207 (22%), Positives = 77/207 (37%), Gaps = 29/207 (14%)
Query: 27 EQKFAMEPQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPHRNLSGFDRYA----- 80
E + P +A VG VT+ CR + L W + P + A
Sbjct: 1 ELQMTQSPASLSASVGETVTITCRASENIYSYLAWYQQKQGKSPQLLVYNAKTLAEGVPS 60
Query: 81 -MIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPP 132
GS +SL+I + +D Y CQ ++ G + ++ A TV + PP
Sbjct: 61 RFSGSGSGTQFSLKINSLQPEDFGSYYCQHHYGTPLTFGAGTKLELKRADAAPTVSIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGR 190
++ G + C N P + W IDG+ N + D +
Sbjct: 121 SSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSK 169
Query: 191 RTT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 170 DSTYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|1F58|L Chain L, Igg1 Fab Fragment (58.2) Complex With 24-Residue Peptide
(Residues 308-333 Of Hiv-1 Gp120 (Mn Isolate) With Ala
To Aib Substitution At Position 323
pdb|2F58|L Chain L, Igg1 Fab Fragment (58.2) Complex With 12-Residue Cyclic
Peptide (Including Residues 315-324 Of Hiv-1 Gp120) (Mn
Isolate)
Length = 216
Score = 33.1 bits (74), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 48/206 (23%), Positives = 80/206 (38%), Gaps = 37/206 (17%)
Query: 34 PQDQTAVVGSRVTLPCRV-----IDKTGVLQWTKDDFALGPHRNL-------SGF-DRYA 80
P +G R T+ C+ D + W + P + SG R++
Sbjct: 8 PASLAVSLGQRATISCKASQGVDFDGASFMNWYQQKPGQPPKLLIFAASTLESGIPARFS 67
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPD 133
GS D++L I+PV +D A Y CQ ++ G + ++ A TV + PP
Sbjct: 68 GRGSGT--DFTLNIHPVEEEDAATYYCQQSHEDPLTFGAGTKLELKRADAAPTVSIFPPS 125
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRR 191
++ G + C N P + W ID G+ N + D +
Sbjct: 126 SEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKD 174
Query: 192 TT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 175 STYSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|1MAM|L Chain L, Crystal Structure To 2.45 A Resolution Of A Monoclonal Fab
Specific For The Brucella A Cell Wall Polysaccharide
Antigen
Length = 214
Score = 33.1 bits (74), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 52/198 (26%), Positives = 78/198 (39%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGSDEEG 88
+A +G RVT+ CR D L W + R SG R++ GS
Sbjct: 12 SASLGDRVTISCRASQDIYNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFS--GSGSGT 69
Query: 89 DYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGD 141
DYSL I + +D A Y CQ + G + I+ A TV + PP ++ G
Sbjct: 70 DYSLTISNLNQEDMATYICQQGNTLPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGG 129
Query: 142 TLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W ID G+ N + D + +T + ST
Sbjct: 130 A---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 179 LTLTKDEYERHNSYTCEA 196
>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 = 32.7 bits (73), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 49/205 (23%), Positives = 80/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR + L W + P + SG R+
Sbjct: 3 QMTQSPSTLSASVGDRVTITCRASQSISNWLAWYQQKPGRAPKLLMYKASSLKSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PP 132
+ GS E ++L I + DD A Y CQ + G + I+ A +V + PP
Sbjct: 63 SGSGSGTE--FTLTISSLQSDDFATYYCQQHDSSPYTFGQGTKLEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKLYACE 195
>pdb|3G04|A Chain A, Crystal Structure Of The Tsh Receptor In Complex With A
Thyroid- Stimulating Autoantibody
Length = 216
Score = 32.7 bits (73), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 60/144 (41%), Gaps = 12/144 (8%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I + +D+A Y C L + + LTVL P+
Sbjct: 61 DRFS--GSRSGTSASLAIRGLQSEDEADYYCTSWDDSL-DSQLFGGGTRLTVL---GQPK 114
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 115 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 174
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 175 KYAASSYLSLTPEQWKSHKSYSCQ 198
>pdb|1FBI|L Chain L, Crystal Structure Of A Cross-Reaction Complex Between Fab
F9.13.7 And Guinea-Fowl Lysozyme
pdb|1FBI|P Chain P, Crystal Structure Of A Cross-Reaction Complex Between Fab
F9.13.7 And Guinea-Fowl Lysozyme
Length = 214
Score = 32.7 bits (73), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 52/198 (26%), Positives = 79/198 (39%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGSDEEG 88
+A +G RVT+ CR D + L W + R SG R++ GS
Sbjct: 12 SASLGDRVTISCRASQDISNYLNWYQKKPDGTVKLLIYYTSRLHSGVPSRFS--GSGSGT 69
Query: 89 DYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGD 141
DYSL I + +D A Y CQ + G + I+ A TV + PP ++ G
Sbjct: 70 DYSLTIRNLEQEDIATYFCQQGYTLPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGG 129
Query: 142 TLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W ID G+ N + D + +T + ST
Sbjct: 130 A---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 179 LTLTKDEYERHNSYTCEA 196
>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 = 32.7 bits (73), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 50/208 (24%), Positives = 79/208 (37%), Gaps = 39/208 (18%)
Query: 34 PQDQTAVVGSRVTLPCRVI-------DKTGVLQWTKDD-------FALGPHRNLSGF-DR 78
P + G RVT+ C+ ++ L W + G SG DR
Sbjct: 8 PSSLSVSAGERVTMSCKSSQSLLNSGNQKNFLAWYQQKPGQPPKLLIYGASTRESGVPDR 67
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVP 131
+ GS D++L I V +D A Y CQ ++ G + I+ A TV + P
Sbjct: 68 FT--GSGSGTDFTLTISSVQAEDLAVYYCQNDHSYPLTFGAGTKLEIKRADAAPTVSIFP 125
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W IDG+ N + D
Sbjct: 126 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDS 174
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 175 KDSTYSMSSTLTLTKDEYERHNSYTCEA 202
>pdb|3F58|L Chain L, Igg1 Fab Fragment (58.2) Complex With 12-Residue Cyclic
Peptide (Including Residues 315-324 Of Hiv-1 Gp120 (Mn
Isolate); H315s Mutation
Length = 215
Score = 32.7 bits (73), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 48/206 (23%), Positives = 80/206 (38%), Gaps = 37/206 (17%)
Query: 34 PQDQTAVVGSRVTLPCRV-----IDKTGVLQWTKDDFALGPHRNL-------SGF-DRYA 80
P +G R T+ C+ D + W + P + SG R++
Sbjct: 8 PASLAVSLGQRATISCKASQGVDFDGASFMNWYQQKPGQPPKLLIFAASTLESGIPARFS 67
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPD 133
GS D++L I+PV +D A Y CQ ++ G + ++ A TV + PP
Sbjct: 68 GRGSGT--DFTLNIHPVEEEDAATYYCQQSHEDPLTFGAGTKLELKRADAAPTVSIFPPS 125
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRR 191
++ G + C N P + W ID G+ N + D +
Sbjct: 126 SEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKD 174
Query: 192 TT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 175 STYSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|3HFM|L Chain L, Structure Of An Antibody-Antigen Complex. Crystal
Structure Of The HyHEL-10 Fab-Lysozyme Complex
Length = 214
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 48/206 (23%), Positives = 76/206 (36%), Gaps = 33/206 (16%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPH-------RNLSGF-DRYA 80
P + G+ V+L CR G L W + P +++SG R++
Sbjct: 4 LTQSPATLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKYASQSISGIPSRFS 63
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPD 133
GS D++L I V +D Y CQ S G R+ A + PP
Sbjct: 64 --GSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRR 191
++ G + C N P + W IDG+ N + D +
Sbjct: 122 SEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKD 170
Query: 192 TT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 171 STYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|1W72|L Chain L, Crystal Structure Of Hla-A1:mage-A1 In Complex With Fab-
Hyb3
pdb|1W72|M Chain M, Crystal Structure Of Hla-A1:mage-A1 In Complex With Fab-
Hyb3
Length = 210
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 57/138 (41%), Gaps = 10/138 (7%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS+ +L I V D+A Y CQV + + LTVL P+ T
Sbjct: 63 GSNSGNMATLTISRVEAGDEADYYCQVWDSRT-DHWVFGGGTDLTVL---GQPKAAPSVT 118
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E++ L C+ ++ P A + W V + V T+ + + S
Sbjct: 119 LFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASS 178
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 179 YLSLTPEQWKSHRSYSCQ 196
>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 = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 79/203 (38%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR D + + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSAKFLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQVS------TGILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ S G + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQSYTTPPTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRR 191
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|1QFW|L Chain L, Ternary Complex Of Human Chorionic Gonadotropin With Fv
Anti Alpha Subunit And Fv Anti Beta Subunit
Length = 114
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 35/93 (37%), Gaps = 11/93 (11%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGPH------RNLSGFD 77
+ P +G R T+ CR +D G +QW + P NL
Sbjct: 3 ELTQSPDSLAVSLGQRATISCRASESVDSYGNSFMQWYQQKPGQPPKLLIYRASNLESGI 62
Query: 78 RYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVS 110
G+ D++L I PV DD A Y CQ S
Sbjct: 63 PARFSGTGSRTDFTLTINPVEADDVATYYCQQS 95
>pdb|3D9A|L Chain L, High Resolution Crystal Structure Structure Of Hyhel10 Fab
Complexed To Hen Egg Lysozyme
Length = 213
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 48/206 (23%), Positives = 76/206 (36%), Gaps = 33/206 (16%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPH-------RNLSGF-DRYA 80
P + G+ V+L CR G L W + P +++SG R++
Sbjct: 4 LTQSPATLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKYASQSISGIPSRFS 63
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPD 133
GS D++L I V +D Y CQ S G R+ A + PP
Sbjct: 64 --GSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRR 191
++ G + C N P + W IDG+ N + D +
Sbjct: 122 SEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKD 170
Query: 192 TT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 171 STYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|3I75|A Chain A, Antibody Structure
Length = 212
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 49/209 (23%), Positives = 79/209 (37%), Gaps = 37/209 (17%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYAMI----- 82
+ P +A +G +VT+ C+ D + W + GP + Y I
Sbjct: 3 QMTQSPSSLSASLGGKVTITCQSSQDINKYIGWYQHKPGKGPRLLI----HYTSILRPDI 58
Query: 83 -----GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LV 130
GS DYS I + +D A Y C ++ G + ++ A TV +
Sbjct: 59 PSRFSGSGSGRDYSFSISNLEPEDTATYYCLQYDDLLLTFGAGTKLELKRADAAPTVSIF 118
Query: 131 PPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVD 188
PP ++ G + C N P + W IDG+ N + E D
Sbjct: 119 PPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSETDQD 167
Query: 189 GRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + T+TC+A
Sbjct: 168 SKDSTYSMSSTLTLTKDEYERHNTYTCEA 196
>pdb|1FAI|L Chain L, Three-Dimensional Structure Of Two Crystal Forms Of Fab
R19.9, From A Monoclonal Anti-Arsonate Antibody
pdb|2F19|L Chain L, Three-Dimensional Structure Of Two Crystal Forms Of Fab
R19.9, From A Monoclonal Anti-Arsonate Antibody
Length = 214
Score = 32.7 bits (73), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 50/198 (25%), Positives = 76/198 (38%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGSDEEG 88
+A +G RVT+ CR D + L W + R SG R++ GS
Sbjct: 12 SASLGDRVTISCRASQDISNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFS--GSGSGT 69
Query: 89 DYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
DYSL I + +D A Y CQ + G R+ A + PP ++ G
Sbjct: 70 DYSLTISNLEHEDIATYFCQQGSTLPRTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGG 129
Query: 142 TLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W ID G+ N + D + +T + ST
Sbjct: 130 A---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 179 LTLTKDEYERHNSYTCEA 196
>pdb|2XA8|L Chain L, Crystal Structure Of The Fab Domain Of Omalizumab At 2.41a
Length = 218
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 49/209 (23%), Positives = 80/209 (38%), Gaps = 35/209 (16%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRV-----IDKTGVLQWTKDDFALGPHRNL-------SGF 76
+ P +A VG RVT+ CR D + W + P + SG
Sbjct: 3 QLTQSPSSLSASVGDRVTITCRASQSVDYDGDSYMNWYQQKPGKAPKLLIYAASYLESGV 62
Query: 77 -DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVS------TGILGEPAIRSRFATLTVL 129
R++ GS D++L I + +D A Y CQ S G + I+ A +V
Sbjct: 63 PSRFS--GSGSGTDFTLTISSLQPEDFATYYCQQSHEDPYTFGQGTKVEIKRTVAAPSVF 120
Query: 130 V-PPDPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEA 185
+ PP ++ G + C+ N P A++ W + + S VTE+
Sbjct: 121 IFPPSDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQD 171
Query: 186 SVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
S D ++ STL L+ + + C+
Sbjct: 172 SKDSTY-SLSSTLTLSKADYEKHKVYACE 199
>pdb|2D7T|L Chain L, Crystal Structure Of Human Anti Polyhydroxybutyrate
Antibody Fv
Length = 116
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 32/82 (39%), Gaps = 7/82 (8%)
Query: 33 EPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPH------RNLSGFDRYAMIGSD 85
P +A VG RVT+ CR L W + + P NL G GS
Sbjct: 7 SPSSLSASVGDRVTITCRASQNINNYLHWYQHEPGKAPKLLIYAASNLQGGVTSRFSGSG 66
Query: 86 EEGDYSLEIYPVMLDDDARYQC 107
D++L I + +D A Y C
Sbjct: 67 SGTDFTLTISTLQPEDFATYYC 88
>pdb|2DD8|L Chain L, Crystal Structure Of Sars-Cov Spike Receptor-Binding
Domain Complexed With Neutralizing Antibody
pdb|2G75|B Chain B, Crystal Structure Of Anti-Sars M396 Antibody
pdb|2G75|D Chain D, Crystal Structure Of Anti-Sars M396 Antibody
Length = 213
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 56/138 (40%), Gaps = 11/138 (7%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS+ +L I V D+A Y CQV + + F T T + P+ T
Sbjct: 63 GSNSGNTATLTISRVEAGDEADYYCQV-----WDSSSDYVFGTGTKVTVLGQPKANPTVT 117
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E + L C+ ++ P A + W V + V T+ + + S
Sbjct: 118 LFPPSSEEFQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASS 177
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 178 YLSLTPEQWKSHRSYSCQ 195
>pdb|3DVG|A Chain A, Crystal Structure Of K63-Specific Fab Apu.3a8 Bound To
K63-Linked Di- Ubiquitin
Length = 217
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 46/205 (22%), Positives = 77/205 (37%), Gaps = 29/205 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPH------RNLSGFDRYAM 81
+ P +A VG RVT+ CR + + W + P R+L
Sbjct: 4 QMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSARSLYSGVPSRF 63
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQ--------VSTGILGEPAIRSRFATLTVLV-PP 132
GS D++L I + +D A Y CQ + G + I+ A +V + PP
Sbjct: 64 SGSRSGTDFTLTISSLQPEDFATYYCQQYSSYSSLFTFGQGTKVEIKRTVAAPSVFIFPP 123
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 124 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 174
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 175 TY-SLSSTLTLSKADYEKHKVYACE 198
>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 = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 50/198 (25%), Positives = 75/198 (37%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGSDEEG 88
+A +G RVT+ CR D + L W + R SG R++ GS
Sbjct: 12 SASLGDRVTISCRASQDISNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFS--GSGSGT 69
Query: 89 DYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
DYSL I + +D A Y CQ G R+ A + PP ++ G
Sbjct: 70 DYSLTISNLEQEDIATYFCQQGNTLPRTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGG 129
Query: 142 TLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W ID G+ N + D + +T + ST
Sbjct: 130 A---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 179 LTLTKDEYERHNSYTCEA 196
>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 = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 46/205 (22%), Positives = 79/205 (38%), Gaps = 29/205 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR + + W + P + S Y+ +
Sbjct: 4 QMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRF 63
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQ--------VSTGILGEPAIRSRFATLTVLV-PP 132
GS D++L I + +D A Y CQ + G + I+ A +V + PP
Sbjct: 64 SGSRSGTDFTLTISSLQPEDFATYYCQQYSSYSSLFTFGQGTKVEIKRTVAAPSVFIFPP 123
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 124 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 174
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 175 TY-SLSSTLTLSKADYEKHKVYACE 198
>pdb|1IGC|L Chain L, Igg1 Fab Fragment (Mopc21) Complex With Domain Iii Of
Protein G From Streptococcus
Length = 213
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 50/201 (24%), Positives = 80/201 (39%), Gaps = 32/201 (15%)
Query: 34 PQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNLSGF-DRYAMI-----GSDE 86
P+ + VG RVTL C+ + + W + P + G +RY + GS
Sbjct: 8 PKSMSMSVGERVTLTCKASENVVTYVSWYQQKPEQSPKLLIYGASNRYTGVPDRFTGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQ 139
D++L I V +D A Y C + G + I+ A TV + PP ++
Sbjct: 68 ATDFTLTISSVQAEDLADYHCGQGNSYPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTS 127
Query: 140 GDTLYTTEDREIELECISANGKPP-AEITW-IDG---TGTVMSNVRVTEEASVDGRRTTV 194
G + C N P + W ID G + S T++ S D ++
Sbjct: 128 GGA---------SVVCFLNNFYPKDINVKWKIDSERQNGVLNS---WTDQDSKDSTY-SM 174
Query: 195 KSTLVLTPKKEHHNTTFTCQA 215
STL LT + + ++TC+A
Sbjct: 175 SSTLTLTKDEYERHNSYTCEA 195
>pdb|2ZJS|L Chain L, Crystal Structure Of Secye Translocon From Thermus
Thermophilus With A Fab Fragment
Length = 214
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 50/198 (25%), Positives = 75/198 (37%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGSDEEG 88
+A +G RVT+ CR D + L W + R SG R++ GS
Sbjct: 12 SASLGDRVTISCRASQDISNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFS--GSGSGT 69
Query: 89 DYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
DYSL I + +D A Y CQ G R+ A + PP ++ G
Sbjct: 70 DYSLTISNLEQEDIATYFCQQGNTLPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGG 129
Query: 142 TLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W ID G+ N + D + +T + ST
Sbjct: 130 A---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 179 LTLTKDEYERHNSYTCEA 196
>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 = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 47/203 (23%), Positives = 80/203 (39%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR D + + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQ---VSTGILGEPA---IRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ + G+ I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQFYTTPSTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|4FQ2|L Chain L, Crystal Structure Of 10-1074 Fab
Length = 214
Score = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 30/130 (23%), Positives = 51/130 (39%), Gaps = 9/130 (6%)
Query: 91 SLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDRE 150
+L I V D+A Y C + G F T L P+ TL+ E
Sbjct: 70 TLTISGVEAGDEADYYCHMWDSRSG---FSWSFGGATRLTVLGQPKAAPSVTLFPPSSEE 126
Query: 151 IE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKK 204
++ L C+ ++ P A + W + V + V T + + S L LTP++
Sbjct: 127 LQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQ 186
Query: 205 EHHNTTFTCQ 214
+ +++CQ
Sbjct: 187 WKSHRSYSCQ 196
>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 = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 47/193 (24%), Positives = 77/193 (39%), Gaps = 29/193 (15%)
Query: 41 VGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL-SGFDRYA-----MIGSDEEGDYSLE 93
VG RV++ C+ + W ++ P + S +RY+ GS D++L
Sbjct: 15 VGDRVSVTCKASQNVDTNVAWYQEKPGQSPKTLIYSASNRYSGVPDRFTGSASGTDFTLT 74
Query: 94 IYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYTT 146
I V +D A Y CQ + G + I+ A TV + PP ++ G
Sbjct: 75 ITNVQSEDLAEYFCQQYNSYPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGA---- 130
Query: 147 EDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLTP 202
+ C N P + W IDG+ N + D + +T + STL LT
Sbjct: 131 -----SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSMSSTLTLTK 183
Query: 203 KKEHHNTTFTCQA 215
+ + ++TC+A
Sbjct: 184 DEYERHNSYTCEA 196
>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 = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 50/198 (25%), Positives = 75/198 (37%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGSDEEG 88
+A +G RVT+ CR D + L W + R SG R++ GS
Sbjct: 12 SASLGDRVTISCRASQDISNYLNWYQQKPDGTVKLLIYYTSRLHSGVTSRFS--GSGSGT 69
Query: 89 DYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
DYSL I + +D A Y CQ G R+ A + PP ++ G
Sbjct: 70 DYSLTISNLEQEDIATYFCQQGNTLPWTFGGGTKVEIKRADAAPTVSIFPPSSEQLTSGG 129
Query: 142 TLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W ID G+ N + D + +T + ST
Sbjct: 130 A---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 179 LTLTKDEYERHNSYTCEA 196
>pdb|3H0T|A Chain A, Hepcidin-Fab Complex
Length = 216
Score = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 34/146 (23%), Positives = 61/146 (41%), Gaps = 16/146 (10%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQV--STGILGEPAIRSRFATLTVLVPPDP 134
DR++ SL I + +D+A Y CQ S+ ++ + LTVL
Sbjct: 61 DRFSGSIDSSSNSASLTISGLKTEDEADYYCQSYDSSNVVFGGGTK-----LTVL---GQ 112
Query: 135 PRIVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVD 188
P+ TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 113 PKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQS 172
Query: 189 GRRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 173 NNKYAASSYLSLTPEQWKSHRSYSCQ 198
>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 = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 47/203 (23%), Positives = 80/203 (39%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR + L W + P + SG + +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASKTISKYLAWYQQKPGKAPKLLIYSGSTLQSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ ++ G + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQHNEYPLTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>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 = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 37/89 (41%), Gaps = 11/89 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR D L W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDINNYLNWYQQKPGKAPKLLIYYTSTLESGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQ 108
+ GS DY+L I + +D A Y CQ
Sbjct: 63 S--GSGSGTDYTLTISSLQPEDFATYYCQ 89
>pdb|2VWE|C Chain C, Crystal Structure Of Vascular Endothelial Growth Factor-B
In Complex With A Neutralizing Antibody Fab Fragment
pdb|2VWE|J Chain J, Crystal Structure Of Vascular Endothelial Growth Factor-B
In Complex With A Neutralizing Antibody Fab Fragment
Length = 214
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 53/202 (26%), Positives = 79/202 (39%), Gaps = 41/202 (20%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA----------MIGSDE 86
+A +G RVT+ CR D + L W + P + Y GS
Sbjct: 12 SASLGDRVTISCRASQDISNFLNW----YQQKPDGTVKLLIYYTSTLHSGVPSRFSGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQV------STGILGEPAIRSRFATLTV-LVPPDPPRIVQ 139
DYSL I + +D A Y CQ + G + I+ A TV + PP ++
Sbjct: 68 GTDYSLTISNLEQEDIATYFCQQGKTLPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTS 127
Query: 140 GDTLYTTEDREIELECISANGKPPA-EITW-IDGT----GTVMSNVRVTEEASVDGRRTT 193
G + C N P + W IDG+ G + S TE+ S D +
Sbjct: 128 GGA---------SVVCFLNNFYPKEINVKWKIDGSERQNGVLDS---WTEQDSKDSTY-S 174
Query: 194 VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 175 MSSTLTLTKDEYERHNSYTCEA 196
>pdb|3OPZ|L Chain L, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
pdb|3OPZ|M Chain M, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
pdb|3OPZ|N Chain N, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
Length = 213
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 51/201 (25%), Positives = 77/201 (38%), Gaps = 32/201 (15%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPHRNL-------SGF-DRYAMIGSD 85
P +A +G +TL C + W + P + SG R++ GS
Sbjct: 8 PTIMSASIGEEITLTCSASSSVSHMHWYQHKSGTSPKLLIYITSYLASGVPSRFS--GSG 65
Query: 86 EEGDYSLEIYPVMLDDDARYQC-QVST-----GILGEPAIRSRFATLTV-LVPPDPPRIV 138
YSL I V +D A Y C Q ST G + I+ A TV + PP ++
Sbjct: 66 SGTFYSLTISSVEAEDAADYYCHQWSTFPSTFGSGTKLEIKRADAAPTVSIFPPSSEQLT 125
Query: 139 QGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--V 194
G + C N P + W IDG+ N + D + +T +
Sbjct: 126 SGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSM 174
Query: 195 KSTLVLTPKKEHHNTTFTCQA 215
STL LT + + ++TC+A
Sbjct: 175 SSTLTLTKDEYERHNSYTCEA 195
>pdb|4F2M|B Chain B, Crystal Structure Of A Tgev Coronavirus Spike Fragment In
Complex With The Tgev Neutralizing Monoclonal Antibody
1af10
pdb|4F2M|D Chain D, Crystal Structure Of A Tgev Coronavirus Spike Fragment In
Complex With The Tgev Neutralizing Monoclonal Antibody
1af10
Length = 214
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 48/194 (24%), Positives = 77/194 (39%), Gaps = 33/194 (17%)
Query: 42 GSRVTLPCRVIDKTGV-LQWTKDDFALGPH-------RNLSGF-DRYAMIGSDEEGDYSL 92
G RV+L CR G + W + P ++SG R++ GS D++L
Sbjct: 16 GERVSLSCRASQSIGTSIHWYQQRTNGSPRPLIKYASESISGIPSRFS--GSGSGTDFTL 73
Query: 93 EIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYT 145
I V +D A Y CQ + G + ++ A TV + PP ++ G
Sbjct: 74 NINSVESEDIADYFCQQTDSWPTTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGA--- 130
Query: 146 TEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLT 201
+ C N P + W IDG+ N + D + +T + STL LT
Sbjct: 131 ------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKDSTYSMSSTLTLT 182
Query: 202 PKKEHHNTTFTCQA 215
+ + ++TC+A
Sbjct: 183 KDEYERHNSYTCEA 196
>pdb|2XWT|B Chain B, Crystal Structure Of The Tsh Receptor In Complex With A
Blocking Type Tshr Autoantibody
Length = 214
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 59/144 (40%), Gaps = 12/144 (8%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS +L I + D+A Y C LG A+ LTVL P+
Sbjct: 61 DRFS--GSKSGTSATLGITGLQTGDEADYYCGTWDSRLGI-AVFGGGTQLTVL---GQPK 114
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W V V T+ +
Sbjct: 115 AAPSVTLFPPSSEELQANKATLVCLVSDFYPGAVTVAWKADGSPVKVGVETTKPSKQSNN 174
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++C+
Sbjct: 175 KYAASSYLSLTPEQWKSHRSYSCR 198
>pdb|7FAB|L Chain L, Crystal Structure Of Human Immunoglobulin Fragment Fab New
Refined At 2.0 Angstroms Resolution
Length = 208
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 44/193 (22%), Positives = 73/193 (37%), Gaps = 19/193 (9%)
Query: 33 EPQDQTAVVGSRVTLPC----RVIDKTGVLQWTKDDFALGPHRNLSGFDRYAMIGSDEEG 88
+P + G RVT+ C I ++W + P L F A + G
Sbjct: 6 QPPSVSGAPGQRVTISCTGSSSNIGAGHNVKWYQQLPGTAP--KLLIFHNNARFSVSKSG 63
Query: 89 -DYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTE 147
+L I + +D+A Y CQ L + LTVL P+ TL+
Sbjct: 64 TSATLAITGLQAEDEADYYCQSYDRSL---RVFGGGTKLTVL---RQPKAAPSVTLFPPS 117
Query: 148 DREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLT 201
E++ L C+ ++ P A + W V + V T + + S L LT
Sbjct: 118 SEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTTPSKQSNNKYAASSYLSLT 177
Query: 202 PKKEHHNTTFTCQ 214
P++ + +++CQ
Sbjct: 178 PEQWKSHKSYSCQ 190
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 46/198 (23%), Positives = 75/198 (37%), Gaps = 27/198 (13%)
Query: 34 PQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPH------RNLSGFDRYAMIGSDE 86
P +A VG RV + CR + L W + P NL GS
Sbjct: 8 PSSLSASVGDRVNIACRASQGISSALAWYQQKPGKAPRLLIYDASNLESGVPSRFSGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDPPRIVQ 139
D++L I + +D A Y CQ ++ G + I+ A +V + PP ++
Sbjct: 68 GTDFTLTISSLQPEDFAIYYCQQFNSYPLTFGGGTKVEIKRTVAAPSVFIFPPSDEQLKS 127
Query: 140 GDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRRTTVKS 196
G + C+ N P A++ W + + S VTE+ S D ++ S
Sbjct: 128 GTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY-SLSS 177
Query: 197 TLVLTPKKEHHNTTFTCQ 214
TL L+ + + C+
Sbjct: 178 TLTLSKADYEKHKVYACE 195
>pdb|1GHF|L Chain L, Anti-Anti-Idiotype Gh1002 Fab Fragment
Length = 211
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 52/198 (26%), Positives = 79/198 (39%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCR-VIDKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGSDEEG 88
+A +G RVT+ CR D + L W + R SG R++ GS
Sbjct: 12 SASLGDRVTISCRESQDISNSLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFS--GSGTGT 69
Query: 89 DYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGD 141
DYSL I + +D A Y CQ + G + I+ A TV + PP ++ G
Sbjct: 70 DYSLTISNLEQEDFATYFCQQGNTLPYTFGGGTKLEIKRADAAQTVSIFPPSSEQLTSGG 129
Query: 142 TLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W ID G+ N + D + +T + ST
Sbjct: 130 A---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 179 LTLTKDEYERHNSYTCEA 196
>pdb|4FNL|L Chain L, Crystal Structure Of Broadly Neutralizing Antibody C05
pdb|4FNL|M Chain M, Crystal Structure Of Broadly Neutralizing Antibody C05
pdb|4FP8|L Chain L, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FP8|M Chain M, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FP8|N Chain N, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FP8|O Chain O, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FQR|BB Chain b, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|DD Chain d, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|FF Chain f, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|HH Chain h, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|JJ Chain j, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|LL Chain l, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|NN Chain n, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|PP Chain p, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|RR Chain r, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|TT Chain t, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|VV Chain v, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|XX Chain x, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
Length = 214
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 75/203 (36%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPH------RNLSGFDRYAM 81
+ P +A VG RVTL C+ D L W + GP NL
Sbjct: 3 QLTQSPSSLSASVGDRVTLTCQASQDIRKFLNWYQQKPGKGPKLLIYDASNLQRGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI---LG---EPAIRSRFATLTVLV-PPDP 134
G D++L I + +D Y CQ G+ G + I+ A +V + PP
Sbjct: 63 SGGGSGTDFTLIISSLQPEDVGTYYCQQYDGLPFTFGGGTKVVIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRR 191
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|3KAA|A Chain A, Structure Of Tim-3 In Complex With Phosphatidylserine
pdb|3KAA|B Chain B, Structure Of Tim-3 In Complex With Phosphatidylserine
Length = 118
Score = 32.3 bits (72), Expect = 1.3, Method: Composition-based stats.
Identities = 28/107 (26%), Positives = 43/107 (40%), Gaps = 16/107 (14%)
Query: 41 VGSRVTLPCRVIDKT-----------GVLQWTK--DDFALGPHRNLS--GFDRYAMIGSD 85
VG LPC T G W++ ++ RN++ RY + G
Sbjct: 11 VGKNAYLPCSYTLPTSGTLVPMCWGKGFCPWSQCTNELLRTDERNVTYQKSSRYQLKGDL 70
Query: 86 EEGDYSLEIYPVMLDDDARYQCQVS-TGILGEPAIRSRFATLTVLVP 131
+GD SL I V LDD Y C++ G++ + + + LVP
Sbjct: 71 NKGDVSLIIKNVTLDDHGTYCCRIQFPGLMNDKKLELKLDIKAALVP 117
>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 = 1.3, Method: Compositional matrix adjust.
Identities = 46/205 (22%), Positives = 78/205 (38%), Gaps = 29/205 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR + + W + P + S Y+ +
Sbjct: 4 QMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRF 63
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQ--------VSTGILGEPAIRSRFATLTVLV-PP 132
GS D++L I + +D A Y CQ + G + I+ A +V + PP
Sbjct: 64 SGSRSGTDFTLTISSLQPEDFATYYCQQHGPFYWLFTFGQGTKVEIKRTVAAPSVFIFPP 123
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDG 189
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 124 SDSQLKSG---------TASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 174
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 175 TY-SLSSTLTLSKADYEKHKVYACE 198
>pdb|3OJD|A Chain A, Anti-Indolicidin Monoclonal Antibody V2d2 (Fab Fragment)
Length = 214
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 49/201 (24%), Positives = 77/201 (38%), Gaps = 31/201 (15%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPHRNLSGFDRYA------MIGSDE 86
P +A VG VT+ C+ L W + P + A GS
Sbjct: 8 PASLSASVGESVTITCKASGNIHNYLAWYQQKGGKSPQLLVFNASTLADGVPSRFSGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQ 139
YSL+I + +D Y CQ + G I+ A TV + PP ++
Sbjct: 68 GTQYSLKINSLQPEDFGSYYCQHFWSTPFTFGTGTNLEIKRADAAPTVSIFPPSSEQLTS 127
Query: 140 GDTLYTTEDREIELECISANGKPP-AEITW-IDGT---GTVMSNVRVTEEASVDGRRTTV 194
G + C N P + W IDG+ G V+++ T++ S D + +
Sbjct: 128 GGA---------SVVCFLNNFYPKDINVKWKIDGSERQGGVLNSW--TDQDSKDSTYS-M 175
Query: 195 KSTLVLTPKKEHHNTTFTCQA 215
STL LT + + ++TC+A
Sbjct: 176 SSTLTLTKDEYERHNSYTCEA 196
>pdb|1MEX|L Chain L, Antibody Catalysis Of A Bimolecular Cycloaddition Reaction
Length = 213
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 47/193 (24%), Positives = 78/193 (40%), Gaps = 29/193 (15%)
Query: 41 VGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL-SGFDRYAMI-----GSDEEGDYSLE 93
+G+RV++ C+ G + W + P + S RY+ + GS D++L
Sbjct: 15 LGNRVSVTCKASQNVGTNVAWFQQKPGQSPKTLIYSASYRYSGVPDRFTGSGSGTDFTLT 74
Query: 94 IYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYTT 146
I V +D A Y CQ + G + I+ A TV + PP ++ G
Sbjct: 75 INNVQSEDLAEYFCQQYNSYPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTGGGA---- 130
Query: 147 EDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLTP 202
+ C N P + W ID G+ N + D + +T + STL LT
Sbjct: 131 -----SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSSTLTLTK 183
Query: 203 KKEHHNTTFTCQA 215
+ + ++TC+A
Sbjct: 184 DEYERHNSYTCEA 196
>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 = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/81 (23%), Positives = 35/81 (43%), Gaps = 5/81 (6%)
Query: 643 GDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDH 702
G+ + C F+ P ++W G+ + + + + P S L + +
Sbjct: 33 GNQVNITCEVFAYPS-ATISWFRDGQLLPSSNYSNIKIYNTPSA----SYLEVTPDSEND 87
Query: 703 FGVYNCSVSNPYGSDSVEIML 723
FG YNC+ N G +S+E +L
Sbjct: 88 FGNYNCTAVNRIGQESLEFIL 108
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 12/79 (15%)
Query: 389 YGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHED--------SDKVVGNSPNLT 440
Y P+ + P +V G VN+ C+V P+ I+W + S+ + N+P+ +
Sbjct: 18 YAPKLQG-PVAVYTWEGNQVNITCEVFAYPSATISWFRDGQLLPSSNYSNIKIYNTPSAS 76
Query: 441 LLMTSDDLA---GRYYCKA 456
L + D G Y C A
Sbjct: 77 YLEVTPDSENDFGNYNCTA 95
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 12/79 (15%)
Query: 543 YGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHED--------SDKVVGNSPNLT 594
Y P+ + P +V G VN+ C+V P+ I+W + S+ + N+P+ +
Sbjct: 18 YAPKLQG-PVAVYTWEGNQVNITCEVFAYPSATISWFRDGQLLPSSNYSNIKIYNTPSAS 76
Query: 595 LLMTSDDLA---GRYYCKA 610
L + D G Y C A
Sbjct: 77 YLEVTPDSENDFGNYNCTA 95
>pdb|1D5I|L Chain L, Unliganded Germline Precursor Of An Oxy-Cope Catalytic
Antibody
pdb|1D6V|L Chain L, Conformation Effects In Biological Catalysis Introduced By
Oxy-Cope Antibody Maturation
Length = 211
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 73/203 (35%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA------M 81
K P A +G RVT+ C+ D L W + P + +R
Sbjct: 3 KMTQSPSSMYASLGERVTITCKASQDINSYLSWFQQKPGKSPKTLIYRANRLVDGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDP 134
GS DYSL I + +D Y C + G + I+ A +V + PP
Sbjct: 63 SGSGSGQDYSLTISSLEYEDMGIYYCLQYDEFPYTFGSGTKLEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRR 191
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|2VXS|L Chain L, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
pdb|2VXS|M Chain M, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
pdb|2VXS|N Chain N, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
pdb|2VXS|O Chain O, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
Length = 216
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 32/151 (21%), Positives = 57/151 (37%), Gaps = 26/151 (17%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQV------------STGILGEPAIRSRFA 124
DR++ SL I + +D+A Y CQ +LG+P + A
Sbjct: 61 DRFSGSIDSSSNSASLTISGLKTEDEADYYCQTYDPYSVVFGGGTKLTVLGQP----KAA 116
Query: 125 TLTVLVPPDPPRIVQGDTLYTTEDREIELECISANGKPPA-EITWIDGTGTVMSNVRVTE 183
L PP + + + L C+ ++ P A + W + V + V T
Sbjct: 117 PSVTLFPPSSEEL---------QANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTT 167
Query: 184 EASVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ + S L LTP++ + +++CQ
Sbjct: 168 PSKQSNNKYAASSYLSLTPEQWKSHRSYSCQ 198
>pdb|3GBM|L Chain L, Crystal Structure Of Fab Cr6261 In Complex With A H5n1
Influenza Virus Hemagglutinin.
pdb|3GBM|M Chain M, Crystal Structure Of Fab Cr6261 In Complex With A H5n1
Influenza Virus Hemagglutinin.
pdb|3GBN|L Chain L, Crystal Structure Of Fab Cr6261 In Complex With The 1918
H1n1 Influenza Virus Hemagglutinin
Length = 221
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 43/214 (20%), Positives = 76/214 (35%), Gaps = 38/214 (17%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPCRVIDKT---GVLQWTKDDFALGP-------HRNLSGF- 76
Q +P +A G +VT+ C + W + P ++ SG
Sbjct: 1 QSVLTQPPSVSAAPGQKVTISCSGSSSNIGNDYVSWYQQLPGTAPKLLIYDNNKRPSGIP 60
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQV---------------STGILGEPAIRS 121
DR++ GS +L I + D+A Y C +LG A +
Sbjct: 61 DRFS--GSKSGTSATLGITGLQTGDEANYYCATWDRRPTAYVVFGGGTKLTVLGAAAGQP 118
Query: 122 RFATLTVLVPPDPPRIVQGDTLYTTEDREIELECISANGKPPA-EITWIDGTGTVMSNVR 180
+ A L PP + + + L C+ ++ P A + W + V + V
Sbjct: 119 KAAPSVTLFPPSSEEL---------QANKATLVCLISDFYPGAVTVAWKADSSPVKAGVE 169
Query: 181 VTEEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
T + + S L LTP++ + +++CQ
Sbjct: 170 TTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQ 203
>pdb|4AEH|L Chain L, Crystal Structure Of The Anti-Aahi Fab9c2 Antibody
Length = 214
Score = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 75/205 (36%), Gaps = 29/205 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPH------RNLSGFDRYAM 81
+ P + VG VT+ CR + L W + P NL+
Sbjct: 3 QMTQSPASLSVSVGETVTITCRASENIYRNLAWYQQKQGKSPQLLVYAATNLAAGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDP 134
GS YSL+I + +D Y CQ + G + I+ A TV + PP
Sbjct: 63 SGSGSGTQYSLKINSLQSEDFGSYYCQHFWNIPFTFGSGTKLEIKRADAAPTVSIFPPSS 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRT 192
++ G + C N P + W IDG+ N + D + +
Sbjct: 123 EQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDS 171
Query: 193 T--VKSTLVLTPKKEHHNTTFTCQA 215
T + STL LT + + ++TC+A
Sbjct: 172 TYSMSSTLTLTKDEYERHNSYTCEA 196
>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 = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 37/152 (24%), Positives = 62/152 (40%), Gaps = 14/152 (9%)
Query: 70 HRNLSGF-DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTV 128
+R SG +R++ GS +L I D+A Y CQV + LTV
Sbjct: 50 NRRPSGIPERFS--GSSSGNTATLTISGTQTLDEADYYCQVWDS--NASVVFGGGTKLTV 105
Query: 129 LVPPDPPRIVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVT 182
L P+ TL+ E++ L C+ ++ P A + W + V + V T
Sbjct: 106 L---GQPKAAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETT 162
Query: 183 EEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ + S L LTP++ + +++CQ
Sbjct: 163 TPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQ 194
>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 = 32.3 bits (72), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 33/142 (23%), Positives = 57/142 (40%), Gaps = 19/142 (13%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQC----QVSTGILGEPAIRSRFATLTVLVPPDPPRIV 138
GS+ +L I +D+A Y C V+ + G LTVL P+
Sbjct: 63 GSNSGNTATLTISGTQAEDEADYYCGTWDMVTNNVFG------GGTKLTVL---GQPKAA 113
Query: 139 QGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRT 192
TL+ E++ L C+ ++ P A + W + V + V T + +
Sbjct: 114 PSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKY 173
Query: 193 TVKSTLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 174 AASSYLSLTPEQWKSHRSYSCQ 195
>pdb|3MA9|L Chain L, Crystal Structure Of Gp41 Derived Protein Complexed With
Fab 8066
pdb|3MAC|L Chain L, Crystal Structure Of Gp41-Derived Protein Complexed With
Fab 8062
Length = 213
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 32/138 (23%), Positives = 56/138 (40%), Gaps = 10/138 (7%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDT 142
GS+ +L I +D+A Y C S + + LTVL P+ T
Sbjct: 63 GSNSGNTATLTISGTQAEDEADYYC-ASWDSMTVDGVFGGGTKLTVL---GQPKAAPSVT 118
Query: 143 LYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKS 196
L+ E++ L C+ ++ P A + W + V + V T + + S
Sbjct: 119 LFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASS 178
Query: 197 TLVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 179 YLSLTPEQWKSHRSYSCQ 196
>pdb|1MCO|L Chain L, Three-Dimensional Structure Of A Human Immunoglobulin With
A Hinge Deletion
Length = 216
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 41/200 (20%), Positives = 76/200 (38%), Gaps = 25/200 (12%)
Query: 33 EPQDQTAVVGSRVTLPCRV----IDKTGVLQWTKDDFALGP-------HRNLSGF-DRYA 80
+P + +G VT+ C + + W + P ++ SG DR++
Sbjct: 6 QPPSASGSLGQSVTISCTGTSSDVGGYNYVSWYQQHAGKAPKVIIYEVNKRPSGVPDRFS 65
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQG 140
GS SL + + +D+A Y C G + F T T + P+
Sbjct: 66 --GSKSGNTASLTVSGLQAEDEADYYCSSYEG-----SDNFVFGTGTKVTVLGQPKANPT 118
Query: 141 DTLYTTEDREIELE-----CISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTV 194
TL+ E++ C+ ++ P A + W V + V T+ + +
Sbjct: 119 VTLFPPSSEELQANKATEVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAA 178
Query: 195 KSTLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 179 SSYLSLTPEQWKSHRSYSCQ 198
>pdb|1D5B|A Chain A, Unliganded Mature Oxy-Cope Catalytic Antibody
pdb|1D5B|L Chain L, Unliganded Mature Oxy-Cope Catalytic Antibody
Length = 211
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 73/203 (35%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA------M 81
K P A +G RVT+ C+ D L W + P + +R
Sbjct: 3 KMTQSPSSMYASLGERVTITCKASQDINSYLNWFQQKPGKSPKTLIYRTNRLVDGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDP 134
GS DYSL I + +D Y C + G + I+ A +V + PP
Sbjct: 63 SGSGSGQDYSLTISSLEYEDMGIYYCLQYDEFPYTFGSGTKLEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRR 191
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|3QQ9|L Chain L, Crystal Structure Of Fab Fragment Of Anti-Human Rsv
(Respiratory Syncytial Virus) F Protein Mab 101f
pdb|3QQ9|C Chain C, Crystal Structure Of Fab Fragment Of Anti-Human Rsv
(Respiratory Syncytial Virus) F Protein Mab 101f
Length = 218
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 48/206 (23%), Positives = 78/206 (37%), Gaps = 39/206 (18%)
Query: 34 PQDQTAVVGSRVTLPCRV---IDKTGV--LQWTKDDFALGPHRNL-------SGFDRYAM 81
P +G R T+ CR +D G+ + W + P + SG
Sbjct: 8 PASLAVSLGQRATIFCRASQSVDYNGISYMHWFQQKPGQPPKLLIYAASNPESGIPA-RF 66
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEP---------AIRSRFATLTVLV-P 131
GS D++L I+PV +D A Y CQ I+ +P I+ A +V + P
Sbjct: 67 TGSGSGTDFTLNIHPVEEEDAATYYCQ---QIIEDPWTFGGGTKLEIKRTVAAPSVFIFP 123
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVD 188
P ++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 124 PSDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKD 174
Query: 189 GRRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 175 STY-SLSSTLTLSKADYEKHKVYACE 199
>pdb|4F33|A Chain A, Crystal Structure Of Therapeutic Antibody Morab-009
pdb|4F33|C Chain C, Crystal Structure Of Therapeutic Antibody Morab-009
pdb|4F33|E Chain E, Crystal Structure Of Therapeutic Antibody Morab-009
pdb|4F33|G Chain G, Crystal Structure Of Therapeutic Antibody Morab-009
pdb|4F3F|A Chain A, Crystal Structure Of Msln7-64 Morab-009 Fab Complex
Length = 213
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 46/202 (22%), Positives = 76/202 (37%), Gaps = 26/202 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPHRNLSGFDRYA------MI 82
+ P +A G +VT+ C + W + P R + + A
Sbjct: 3 ELTQSPAIMSASPGEKVTMTCSASSSVSYMHWYQQKSGTSPKRWIYDTSKLASGVPGRFS 62
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDPP 135
GS YSL I V +DDA Y CQ ++ G + I+ A +V + PP
Sbjct: 63 GSGSGNSYSLTISSVEAEDDATYYCQQWSKHPLTFGSGTKVEIKRTVAAPSVFIFPPSDE 122
Query: 136 RIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRRT 192
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 QLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY- 172
Query: 193 TVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 173 SLSSTLTLSKADYEKHKVYACE 194
>pdb|1B6D|A Chain A, Bence Jones Protein Del: An Entire Immunoglobulin Kappa
Light-Chain Dimer
pdb|1B6D|B Chain B, Bence Jones Protein Del: An Entire Immunoglobulin Kappa
Light-Chain Dimer
Length = 212
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 45/203 (22%), Positives = 76/203 (37%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA------M 81
+ P +A VG RVT+ C+ D + L W + P +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCQASQDISSYLNWYQQKPGKAPKLLIHAASSLETGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDP 134
GS D+S I + +D A Y CQ ++ G + I+ A +V + PP
Sbjct: 63 SGSGSGTDFSFTISSLQPEDLATYYCQQYDSLPLTFGGGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|3R1G|L Chain L, Structure Basis Of Allosteric Inhibition Of Bace1 By An
Exosite- Binding Antibody
Length = 214
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 47/203 (23%), Positives = 79/203 (38%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR D + + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQV------STGILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ + G + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQFPTYLPTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRR 191
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|3ULS|L Chain L, Crystal Structure Of Fab12
pdb|3ULS|A Chain A, Crystal Structure Of Fab12
Length = 213
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 57/146 (39%), Gaps = 27/146 (18%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQC--------QVSTG-----ILGEPAIRSRFATLTVL 129
GS+ +L I +D+A Y C QV G +LG+P + A L
Sbjct: 63 GSNSGNTATLTISGTQAEDEADYYCSSYDDPNFQVFGGGTKLTVLGQP----KAAPSVTL 118
Query: 130 VPPDPPRIVQGDTLYTTEDREIELECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVD 188
PP + + + L C+ ++ P A + W + V + V T +
Sbjct: 119 FPPSSEEL---------QANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQS 169
Query: 189 GRRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 170 NNKYAASSYLSLTPEQWKSHRSYSCQ 195
>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 = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 47/198 (23%), Positives = 71/198 (35%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRY----------AMIGSDE 86
+A +G RVT+ C D + L W + P + Y A GS
Sbjct: 12 SASLGDRVTISCSASQDISSYLNW----YQQKPEGTVKLLIYYTSSLHSGVPSAFSGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQ 139
DYSL I + +D A Y CQ + G + I+ A TV + PP ++
Sbjct: 68 GTDYSLTISNLEPEDFATYYCQQYSKFPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTS 127
Query: 140 GDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTTVKST 197
G + C N P + W IDG+ + + ++ ST
Sbjct: 128 GGA---------SVVCFLNNFYPKDINVAWAIDGSAAANGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + ++TC A
Sbjct: 179 LTLTADEYEAANSYTCAA 196
>pdb|1TZG|L Chain L, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A 13-residue Peptide Containing The 4e10
Epitope On Gp41
pdb|1TZG|M Chain M, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A 13-residue Peptide Containing The 4e10
Epitope On Gp41
pdb|2FX7|L Chain L, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A 16-Residue Peptide Encompassing The 4e10
Epitope On Gp41
pdb|2FX8|L Chain L, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX8|M Chain M, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX8|N Chain N, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX8|O Chain O, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX9|L Chain L, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A Thioether-Linked Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX9|M Chain M, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A Thioether-Linked Peptide Encompassing The
4e10 Epitope On Gp41
Length = 214
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 75/205 (36%), Gaps = 32/205 (15%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDKTG--VLQWTKDDFALGPHRNLSG--------FDRY 79
P Q+ G R TL CR G L W + P + G DR+
Sbjct: 4 LTQSPGTQSLSPGERATLSCRASQSVGNNKLAWYQQRPGQAPRLLIYGASSRPSGVADRF 63
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQ---VSTGILGE----PAIRSRFATLTVLVPP 132
+ GS D++L I + +D A Y CQ S G+ R+ A + PP
Sbjct: 64 S--GSGSGTDFTLTISRLEPEDFAVYYCQQYGQSLSTFGQGTKVEVKRTVAAPSVFIFPP 121
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 122 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 172
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 173 TY-SLSSTLTLSKADYEKHKVYACE 196
>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 = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 80/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ C D + L W + P + SG R+
Sbjct: 3 QLTQSPSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI---LGEPA---IRSRFATLTVLV-PP 132
+ GS D++L I + +D A Y CQ + + G+ I+ A +V + PP
Sbjct: 63 S--GSGSGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDG 189
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>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 = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 50/205 (24%), Positives = 82/205 (40%), Gaps = 27/205 (13%)
Query: 27 EQKFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHR---NLSGFDRYA-- 80
E + P +A +G RV+L CR + +G L W + R + + D A
Sbjct: 1 EIQLTQSPSSLSASLGERVSLTCRTSQEISGYLSWLQQKPDGTIKRLIYDATKLDSGAPK 60
Query: 81 -MIGSDEEGDYSLEIYPVMLDDDARYQC-QVST-----GILGEPAIRSRFATLTVLV-PP 132
GS DYSL I + +D A Y C Q ++ G + I+ A +V + PP
Sbjct: 61 RFSGSRSGSDYSLTISSLESEDFADYYCLQYASFPRTFGGGTKLEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|3N85|L Chain L, Crystallographic Trimer Of Her2 Extracellular Regions In
Complex With Tryptophan-Rich Antibody Fragment
Length = 217
Score = 32.0 bits (71), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 79/203 (38%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR + + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASSLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ + G + I+ A +V + PP
Sbjct: 63 SGSRSGTDFTLTISSLQPEDFATYYCQQWWWWPSTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|3ULU|C Chain C, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|C Chain C, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 213
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 57/146 (39%), Gaps = 27/146 (18%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQC--------QVSTG-----ILGEPAIRSRFATLTVL 129
GS+ +L I +D+A Y C QV G +LG+P + A L
Sbjct: 63 GSNSGNTATLTISGTQAEDEADYYCSSYDDPNFQVFGGGTKLTVLGQP----KAAPSVTL 118
Query: 130 VPPDPPRIVQGDTLYTTEDREIELECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVD 188
PP + + + L C+ ++ P A + W + V + V T +
Sbjct: 119 FPPSSEEL---------QANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQS 169
Query: 189 GRRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 170 NNKYAASSYLSLTPEQWKSHRSYSCQ 195
>pdb|3HMW|L Chain L, Crystal Structure Of Ustekinumab Fab
pdb|3HMX|L Chain L, Crystal Structure Of Ustekinumab FabIL-12 Complex
Length = 214
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 80/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR + L W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQGISSWLAWYQQKPEKAPKSLIYAASSLQSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PP 132
+ GS D++L I + +D A Y CQ + G + I+ A +V + PP
Sbjct: 63 S--GSGSGTDFTLTISSLQPEDFATYYCQQYNIYPYTFGQGTKLEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|2J8H|A Chain A, Structure Of The Immunoglobulin Tandem Repeat A168-A169 Of
Titin
pdb|2J8O|A Chain A, Structure Of The Immunoglobulin Tandem Repeat Of Titin
A168- A169
pdb|2J8O|B Chain B, Structure Of The Immunoglobulin Tandem Repeat Of Titin
A168- A169
Length = 197
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 38/195 (19%), Positives = 71/195 (36%), Gaps = 22/195 (11%)
Query: 545 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVV-----------GNSPNL 593
P F+ ++ V + L+C V G+P P + W + + + G L
Sbjct: 5 PHFKEELRNLNVRYQSNATLVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQL 64
Query: 594 TLLMTSDDLAGRYYCKA-----SVMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARV 648
+ +DD A Y +A SV G + E + T+ + G+ +
Sbjct: 65 IIASVTDDDATVYQVRATNQGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVSI 124
Query: 649 ECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNC 708
+ FS P +TW +G+++ + ++ Y V+ + S + G Y
Sbjct: 125 KIP-FSGKPDPVITWQ-KGQDL-IDNNGHYQVI---VTRSFTSLVFPNGVERKDAGFYVV 178
Query: 709 SVSNPYGSDSVEIML 723
N +G D + L
Sbjct: 179 CAKNRFGIDQKTVEL 193
Score = 30.4 bits (67), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 29/142 (20%), Positives = 54/142 (38%), Gaps = 18/142 (12%)
Query: 391 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVV-----------GNSPNL 439
P F+ ++ V + L+C V G+P P + W + + + G L
Sbjct: 5 PHFKEELRNLNVRYQSNATLVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQL 64
Query: 440 TLLMTSDDLAGRYYCKA-----SVMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARV 494
+ +DD A Y +A SV G + E + T+ + G+ +
Sbjct: 65 IIASVTDDDATVYQVRATNQGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVSI 124
Query: 495 ECSAFSIPPPEKVTWSYRGEEI 516
+ FS P +TW +G+++
Sbjct: 125 KIP-FSGKPDPVITWQ-KGQDL 144
>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 = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 47/207 (22%), Positives = 80/207 (38%), Gaps = 31/207 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-----TGVLQWTKDDFALGPHRNLS-GFDRYAMI 82
+ P +A VG RVT+ CR +G + W + P + G Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDIPRSISGYVAWYQQKPGKAPKLLIYWGSYLYSGV 62
Query: 83 -----GSDEEGDYSLEIYPVMLDDDARYQCQV------STGILGEPAIRSRFATLTVLV- 130
GS D++L I + +D A Y CQ + G + I+ A +V +
Sbjct: 63 PSRFSGSGSGTDFTLTISSLQPEDFATYYCQQHYTTPPTFGQGTKVEIKRTVAAPSVFIF 122
Query: 131 PPDPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASV 187
PP ++ G + C+ N P A++ W + + S VTE+ S
Sbjct: 123 PPSDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSK 173
Query: 188 DGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
D ++ STL L+ + + C+
Sbjct: 174 DSTY-SLSSTLTLSKADYEKHKVYACE 199
>pdb|2ILL|A Chain A, Anomalous Substructure Of Titin-A168169
Length = 195
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 38/195 (19%), Positives = 71/195 (36%), Gaps = 22/195 (11%)
Query: 545 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVV-----------GNSPNL 593
P F+ ++ V + L+C V G+P P + W + + + G L
Sbjct: 3 PHFKEELRNLNVRYQSNATLVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQL 62
Query: 594 TLLMTSDDLAGRYYCKA-----SVMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARV 648
+ +DD A Y +A SV G + E + T+ + G+ +
Sbjct: 63 IIASVTDDDATVYQVRATNQGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVSI 122
Query: 649 ECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNC 708
+ FS P +TW +G+++ + ++ Y V+ + S + G Y
Sbjct: 123 KIP-FSGKPDPVITWQ-KGQDL-IDNNGHYQVI---VTRSFTSLVFPNGVERKDAGFYVV 176
Query: 709 SVSNPYGSDSVEIML 723
N +G D + L
Sbjct: 177 CAKNRFGIDQKTVEL 191
Score = 30.4 bits (67), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 29/142 (20%), Positives = 54/142 (38%), Gaps = 18/142 (12%)
Query: 391 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVV-----------GNSPNL 439
P F+ ++ V + L+C V G+P P + W + + + G L
Sbjct: 3 PHFKEELRNLNVRYQSNATLVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQL 62
Query: 440 TLLMTSDDLAGRYYCKA-----SVMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTARV 494
+ +DD A Y +A SV G + E + T+ + G+ +
Sbjct: 63 IIASVTDDDATVYQVRATNQGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVSI 122
Query: 495 ECSAFSIPPPEKVTWSYRGEEI 516
+ FS P +TW +G+++
Sbjct: 123 KIP-FSGKPDPVITWQ-KGQDL 142
>pdb|2YKL|L Chain L, Structure Of Human Anti-Nicotine Fab Fragment In Complex
With
Nicotine-11-Yl-Methyl-(4-Ethylamino-4-Oxo)-Butanoate
Length = 216
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 34/153 (22%), Positives = 58/153 (37%), Gaps = 30/153 (19%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQV--------------STGILGEPAIRSR 122
DR++ GS SL I + +D+A Y C ILG+P +
Sbjct: 61 DRFS--GSKSGTSASLAISGLRSEDEADYYCAAWDDSLSAWVFGGGTQLDILGQP----K 114
Query: 123 FATLTVLVPPDPPRIVQGDTLYTTEDREIELECISANGKPPA-EITWIDGTGTVMSNVRV 181
A L PP + + + L C+ ++ P A + W + V + V
Sbjct: 115 AAPSVTLFPPSSEEL---------QANKATLVCLISDFYPGAVTVAWKADSSPVKAGVET 165
Query: 182 TEEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
T + + S L LTP++ + +++CQ
Sbjct: 166 TTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQ 198
>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 = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 48/212 (22%), Positives = 78/212 (36%), Gaps = 38/212 (17%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRV-------IDKTGVLQWTKDDFALGPHRNL-------S 74
+ P G +VT+ C+ I + L W + P + S
Sbjct: 3 QLTQSPSSLAVSAGEKVTMNCKSSQNLLHSITRKNYLAWYRQKPGQSPKLLIYWASTRGS 62
Query: 75 GF-DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGIL---GEPAI---RSRFATLT 127
G DR+ GS D++L I V +D A Y C+ S + G + R+ A
Sbjct: 63 GVPDRFT--GSGSGTDFTLTISSVQAEDLAVYYCKQSYNLYTFGGGTKLEIKRADAAPTV 120
Query: 128 VLVPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEA 185
+ PP ++ G + C N P + W IDG+ N +
Sbjct: 121 SIFPPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWT 169
Query: 186 SVDGRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
D + +T + STL LT + + ++TC+A
Sbjct: 170 DQDSKDSTYSMSSTLTLTKDEYERHNSYTCEA 201
>pdb|2DM3|A Chain A, Solution Structure Of The Second Ig Domain Of Human
Palladin
Length = 110
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 44/90 (48%), Gaps = 8/90 (8%)
Query: 643 GDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDH 702
G R++C +P P+ ++W G+ + S+ V E+ G+ S LII
Sbjct: 24 GKLCRMDCKVSGLPTPD-LSWQLDGKPVRPDSAHKMLVREN----GVHS-LIIEPVTSRD 77
Query: 703 FGVYNCSVSNPYGSD--SVEIMLKPQKSFP 730
G+Y C +N G + S+E+++ ++S P
Sbjct: 78 AGIYTCIATNRAGQNSFSLELVVAAKESGP 107
>pdb|3DIF|A Chain A, Crystal Structure Of Fabox117
pdb|3DIF|C Chain C, Crystal Structure Of Fabox117
Length = 214
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 48/200 (24%), Positives = 79/200 (39%), Gaps = 29/200 (14%)
Query: 34 PQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI-----GSDE 86
P+ + VG RV++ C+ D + + W + P + S RY + GS
Sbjct: 8 PKFMSTSVGDRVSITCKASQDVSTAVAWFQQKPGQSPKLLIYSASYRYTGVPDRFTGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQ 139
D++ I V +D A Y CQ + G + I+ A TV + PP ++
Sbjct: 68 GTDFTFTISSVQAEDLAVYYCQQHYSTPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTS 127
Query: 140 GDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VK 195
G + C N P + W IDG+ N + D + +T +
Sbjct: 128 GGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSMS 176
Query: 196 STLVLTPKKEHHNTTFTCQA 215
STL LT + + ++TC+A
Sbjct: 177 STLTLTKDEYERHNSYTCEA 196
>pdb|1MOE|A Chain A, The Three-Dimensional Structure Of An Engineered Scfv
T84.66 Dimer Or Diabody In Vl To Vh Linkage.
pdb|1MOE|B Chain B, The Three-Dimensional Structure Of An Engineered Scfv
T84.66 Dimer Or Diabody In Vl To Vh Linkage
Length = 240
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 31/86 (36%), Gaps = 11/86 (12%)
Query: 34 PQDQTAVVGSRVTLPCRV-----IDKTGVLQWTKDDFALGPH------RNLSGFDRYAMI 82
P +G R T+ CR I G L W + P NL
Sbjct: 8 PASLAVSLGQRATMSCRAGESVDIFGVGFLHWYQQKPGQPPKLLIYRASNLESGIPVRFS 67
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQ 108
G+ D++L I PV DD A Y CQ
Sbjct: 68 GTGSRTDFTLIIDPVEADDVATYYCQ 93
>pdb|3IY4|A Chain A, Variable Domains Of The Computer Generated Model (Wam) Of
Fab 15 Fitted Into The Cryoem Reconstruction Of The
Virus- Fab 15 Complex
Length = 111
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 35/90 (38%), Gaps = 11/90 (12%)
Query: 34 PQDQTAVVGSRVTLPCRV---IDKTG--VLQWTKDDFALGPH------RNLSGFDRYAMI 82
P +G R T+ C+ +D G + W + P NL
Sbjct: 6 PASLAVSLGQRATISCKASQSVDYEGDSYMNWYQQKPGQPPKLLIYAASNLESGIPARFS 65
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTG 112
GS D++L I+PV +D A Y CQ S G
Sbjct: 66 GSGSGTDFTLNIHPVEEEDAATYYCQQSNG 95
>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 = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 47/198 (23%), Positives = 76/198 (38%), Gaps = 27/198 (13%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGPHRNL-SGFDRYAMI-----GSDE 86
P + VG RV++ C G + W + P + S RY+ + GS
Sbjct: 9 PSFMSTSVGDRVSVTCAASQNVGTNVAWYQQKPGQPPKALIYSTSYRYSGVPDRFTGSGS 68
Query: 87 EGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDPPRIVQ 139
D++L I V +D A Y CQ V+ G + I+ A +V + PP ++
Sbjct: 69 GTDFTLTISNVNSEDLAEYFCQQYNIYPVTFGGGTKLEIKRTVAAPSVFIFPPSAEQLAS 128
Query: 140 GDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRRTTVKS 196
G + C+ N P A + W N + VTE+ S D ++ S
Sbjct: 129 GTA---------SVVCLLNNFYPREAAVQWKVDNALQSGNSQESVTEQDSADSTY-SLSS 178
Query: 197 TLVLTPKKEHHNTTFTCQ 214
TL L+ + + C+
Sbjct: 179 TLTLSKADYEAHAVYACE 196
>pdb|2NZI|A Chain A, Crystal Structure Of Domains A168-A170 From Titin
pdb|2NZI|B Chain B, Crystal Structure Of Domains A168-A170 From Titin
Length = 305
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 38/196 (19%), Positives = 71/196 (36%), Gaps = 22/196 (11%)
Query: 544 GPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVV-----------GNSPN 592
P F+ ++ V + L+C V G+P P + W + + + G
Sbjct: 4 APHFKEELRNLNVRYQSNATLVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQ 63
Query: 593 LTLLMTSDDLAGRYYCKA-----SVMGFPEVGAEATVYLKGRPTIISHRTQFGIPGDTAR 647
L + +DD A Y +A SV G + E + T+ + G+
Sbjct: 64 LIIASVTDDDATVYQVRATNQGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVS 123
Query: 648 VECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYN 707
++ FS P +TW +G+++ + ++ Y V+ + S + G Y
Sbjct: 124 IKI-PFSGKPDPVITWQ-KGQDL-IDNNGHYQVI---VTRSFTSLVFPNGVERKDAGFYV 177
Query: 708 CSVSNPYGSDSVEIML 723
N +G D + L
Sbjct: 178 VCAKNRFGIDQKTVEL 193
Score = 30.0 bits (66), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 18/82 (21%), Positives = 32/82 (39%), Gaps = 11/82 (13%)
Query: 390 GPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVV-----------GNSPN 438
P F+ ++ V + L+C V G+P P + W + + + G
Sbjct: 4 APHFKEELRNLNVRYQSNATLVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQ 63
Query: 439 LTLLMTSDDLAGRYYCKASVMG 460
L + +DD A Y +A+ G
Sbjct: 64 LIIASVTDDDATVYQVRATNQG 85
>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 = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 34/159 (21%), Positives = 61/159 (38%), Gaps = 29/159 (18%)
Query: 70 HRNLSGFDRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTG-------------ILGE 116
HR +R++ GS SL I + ++D+ Y C T +LG+
Sbjct: 53 HRPSGISNRFS--GSKSGNTASLTISGLHIEDEGDYFCSSLTDRSHRIFGGGTKVTVLGQ 110
Query: 117 PAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIELECISANGKPPA-EITWIDGTGTV 175
P + A L PP + + + L C+ ++ P A + W + V
Sbjct: 111 P----KAAPSVTLFPPSSEEL---------QANKATLVCLISDFYPGAVTVAWKADSSPV 157
Query: 176 MSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ V T + + S L LTP++ + +++CQ
Sbjct: 158 KAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHKSYSCQ 196
>pdb|2J88|L Chain L, Hyaluronidase In Complex With A Monoclonal Igg Fab
Fragment
Length = 213
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 46/204 (22%), Positives = 72/204 (35%), Gaps = 28/204 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPHRNLSGFDRYA------M 81
+ P +A VG VT+ CR + L W + P + A
Sbjct: 3 QMTQSPASLSASVGETVTITCRASENIYSYLTWYQQKQGKSPQLLVYNAKTLAEGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQ--VSTGILGEPA----IRSRFATLTVLVPPDPP 135
GS +SL+I + +D Y CQ T G R+ A + PP
Sbjct: 63 SGSGSGTQFSLKISSLQPEDFGNYYCQHHYGTRTFGGGTRLEIKRADAAPTVSIFPPSSE 122
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W IDG+ N + D + +T
Sbjct: 123 QLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKDST 171
Query: 194 --VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 172 YSMSSTLTLTKDEYERHNSYTCEA 195
>pdb|4HG4|K Chain K, Crystal Structure Of Fab 2g1 In Complex With A H2n2
Influenza Virus Hemagglutinin
pdb|4HG4|M Chain M, Crystal Structure Of Fab 2g1 In Complex With A H2n2
Influenza Virus Hemagglutinin
pdb|4HG4|O Chain O, Crystal Structure Of Fab 2g1 In Complex With A H2n2
Influenza Virus Hemagglutinin
pdb|4HG4|Q Chain Q, Crystal Structure Of Fab 2g1 In Complex With A H2n2
Influenza Virus Hemagglutinin
pdb|4HG4|S Chain S, Crystal Structure Of Fab 2g1 In Complex With A H2n2
Influenza Virus Hemagglutinin
pdb|4HG4|U Chain U, Crystal Structure Of Fab 2g1 In Complex With A H2n2
Influenza Virus Hemagglutinin
pdb|4HG4|W Chain W, Crystal Structure Of Fab 2g1 In Complex With A H2n2
Influenza Virus Hemagglutinin
pdb|4HG4|Y Chain Y, Crystal Structure Of Fab 2g1 In Complex With A H2n2
Influenza Virus Hemagglutinin
pdb|4HG4|ZZ Chain z, Crystal Structure Of Fab 2g1 In Complex With A H2n2
Influenza Virus Hemagglutinin
Length = 214
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 47/205 (22%), Positives = 77/205 (37%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYAMI----- 82
+ P +A VG RVT+ C+ D L W + P NL +D +
Sbjct: 3 QLTQSPSSLSASVGDRVTITCQASQDIRKYLNWYQQKPGKAP--NLLIYDASNVKTGVPS 60
Query: 83 ---GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PP 132
GS D++ I + +D A Y CQ ++ G I+ A +V + PP
Sbjct: 61 RFRGSGSGTDFTFTISSLQPEDIATYYCQQYDNLPITFGQGTRLEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDG 189
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|1RZF|L Chain L, Crystal Structure Of Human Anti-hiv-1 Gp120-reactive
Antibody E51
Length = 213
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 33/144 (22%), Positives = 59/144 (40%), Gaps = 12/144 (8%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS +L I + D+A Y C L + + +TVL P+
Sbjct: 61 DRFS--GSKSGTSATLGITGLQTGDEADYYCGTWDSSLSA-VVFGGGSKVTVL---GQPK 114
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 115 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 174
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 175 KYAASSYLSLTPEQWKSHRSYSCQ 198
>pdb|3QR2|A Chain A, Wild Type Cd147 Ig0 Domain
pdb|3QR2|B Chain B, Wild Type Cd147 Ig0 Domain
Length = 137
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 20/46 (43%), Gaps = 6/46 (13%)
Query: 393 FRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPN 438
F P S Q G V L C+ G+P PEI W E G PN
Sbjct: 24 FVQAPLSQQRWVGGSVELHCEAVGSPVPEIQWWFE------GQGPN 63
Score = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 20/46 (43%), Gaps = 6/46 (13%)
Query: 547 FRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPN 592
F P S Q G V L C+ G+P PEI W E G PN
Sbjct: 24 FVQAPLSQQRWVGGSVELHCEAVGSPVPEIQWWFE------GQGPN 63
>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 = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 80/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ C D + L W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI---LGEPA---IRSRFATLTVLV-PP 132
+ GS D++L I + +D A Y CQ + + G+ I+ A +V + PP
Sbjct: 63 S--GSGSGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDG 189
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|3V7A|G Chain G, Structural Basis For Broad Detection Of Genogroup Ii
Noroviruses By A Monoclonal Antibody That Binds To A
Site Occluded In The Viral Particle
pdb|3V7A|H Chain H, Structural Basis For Broad Detection Of Genogroup Ii
Noroviruses By A Monoclonal Antibody That Binds To A
Site Occluded In The Viral Particle
Length = 215
Score = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 46/206 (22%), Positives = 73/206 (35%), Gaps = 30/206 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPHRNLSGFDRYA------M 81
+ P +A VG VT+ CR + L W + P + A
Sbjct: 3 QMTQSPASLSASVGETVTITCRASENIYSYLAWYQQKQGKSPQLLVYNVKTLAEGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQVSTG-----ILGEPAI---RSRFATLTVLVPPD 133
GS +SL+I + +D Y CQ G G + R+ A + PP
Sbjct: 63 SGSGSGTQFSLKINSLQPEDFGSYYCQHHYGSPPWTFGGGTKLEIKRADAAPTVSIFPPS 122
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRR 191
++ G + C N P + W IDG+ N + D +
Sbjct: 123 SEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKD 171
Query: 192 TT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 172 STYSMSSTLTLTKDEYERHNSYTCEA 197
>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 = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 34/159 (21%), Positives = 61/159 (38%), Gaps = 29/159 (18%)
Query: 70 HRNLSGFDRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTG-------------ILGE 116
HR +R++ GS SL I + ++D+ Y C T +LG+
Sbjct: 55 HRPSGISNRFS--GSKSGNTASLTISGLHIEDEGDYFCSSLTDRSHRIFGGGTKVTVLGQ 112
Query: 117 PAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIELECISANGKPPA-EITWIDGTGTV 175
P + A L PP + + + L C+ ++ P A + W + V
Sbjct: 113 P----KAAPSVTLFPPSSEEL---------QANKATLVCLISDFYPGAVTVAWKADSSPV 159
Query: 176 MSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ V T + + S L LTP++ + +++CQ
Sbjct: 160 KAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHKSYSCQ 198
>pdb|2R6P|E Chain E, Fit Of E Protein And Fab 1a1d-2 Into 24 Angstrom
Resolution Cryoem Map Of Fab Complexed With Dengue 2
Virus.
pdb|2R6P|G Chain G, Fit Of E Protein And Fab 1a1d-2 Into 24 Angstrom
Resolution Cryoem Map Of Fab Complexed With Dengue 2
Virus
Length = 206
Score = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 36/142 (25%), Positives = 57/142 (40%), Gaps = 24/142 (16%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPP 135
GS D++L I PV DD A Y CQ + G R+ A + PP
Sbjct: 68 GSGSRTDFTLTINPVEADDVATYYCQQTNVDPWAFGGGTKLEIKRADAAPTVSIFPPSSE 127
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W ID V+++ T++ S +
Sbjct: 128 QLTSGGA---------SVVCFLNNFYPKDINVKWKIDRQNGVLNS--WTDQDST----YS 172
Query: 194 VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 173 MSSTLTLTKDEYERHNSYTCEA 194
>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 = 31.6 bits (70), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 370 CEVHNDVGKSEDSETLDVT----YGPRFRA-RPYSVQVDRGAGVNLLCDVDGNPAPEITW 424
C V N+ G + LDV + P +A P + V G+ V +C V +P P I W
Sbjct: 91 CIVENEYGSINHTYQLDVVERSPHRPILQAGLPANKTVALGSNVEFMCKVYSDPQPHIQW 150
Query: 425 I 425
+
Sbjct: 151 L 151
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 7/79 (8%)
Query: 508 TWSYRGEEIGVGSSDDYS--VHNDVGKSEDSETLDVT----YGPRFRA-RPYSVQVDRGA 560
TWS + + +Y+ V N+ G + LDV + P +A P + V G+
Sbjct: 73 TWSIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVERSPHRPILQAGLPANKTVALGS 132
Query: 561 GVNLLCDVDGNPAPEITWI 579
V +C V +P P I W+
Sbjct: 133 NVEFMCKVYSDPQPHIQWL 151
>pdb|1N8Z|A Chain A, Crystal Structure Of Extracellular Domain Of Human Her2
Complexed With Herceptin Fab
Length = 214
Score = 31.6 bits (70), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 47/203 (23%), Positives = 79/203 (38%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR D + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDVNTAVAWYQQKPGKAPKLLIYSASFLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQV------STGILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ + G + I+ A +V + PP
Sbjct: 63 SGSRSGTDFTLTISSLQPEDFATYYCQQHYTTPPTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|1IL1|B Chain B, Crystal Structure Of G3-519, An Anti-Hiv Monoclonal
Antibody
Length = 219
Score = 31.6 bits (70), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 51/211 (24%), Positives = 79/211 (37%), Gaps = 38/211 (18%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVI-------DKTGVLQWTKDDFALGPHRNL-------SG 75
+ P VG +VT+ C+ ++ L W + P + SG
Sbjct: 4 MSQSPSSLAVSVGEKVTMSCKSSQSLLYSRNQMNYLSWYQQKPGQSPKLLIYWASTRESG 63
Query: 76 F-DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQV-----STGILGEPAIRSRFATLTV- 128
DR+ GS D++L I V +D A Y CQ + G IR A TV
Sbjct: 64 VPDRFT--GSGSGTDFTLTISSVKAEDLAVYYCQQYYHYRTFGGGTRLEIRRADAAPTVS 121
Query: 129 LVPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEAS 186
+ PP ++ G + C N P + W IDG+ N +
Sbjct: 122 IFPPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTD 170
Query: 187 VDGRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
D + +T + STL LT + + ++TC+A
Sbjct: 171 QDSKDSTYSMSSTLTLTKDEYERHNSYTCEA 201
>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 = 31.6 bits (70), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 370 CEVHNDVGKSEDSETLDVT----YGPRFRA-RPYSVQVDRGAGVNLLCDVDGNPAPEITW 424
C V N+ G + LDV + P +A P + V G+ V +C V +P P I W
Sbjct: 90 CIVENEYGSINHTYQLDVVERSPHRPILQAGLPANKTVALGSNVEFMCKVYSDPQPHIQW 149
Query: 425 I 425
+
Sbjct: 150 L 150
Score = 30.8 bits (68), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 7/79 (8%)
Query: 508 TWSYRGEEIGVGSSDDYS--VHNDVGKSEDSETLDVT----YGPRFRA-RPYSVQVDRGA 560
TWS + + +Y+ V N+ G + LDV + P +A P + V G+
Sbjct: 72 TWSIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVERSPHRPILQAGLPANKTVALGS 131
Query: 561 GVNLLCDVDGNPAPEITWI 579
V +C V +P P I W+
Sbjct: 132 NVEFMCKVYSDPQPHIQWL 150
>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 = 31.6 bits (70), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 34/159 (21%), Positives = 61/159 (38%), Gaps = 29/159 (18%)
Query: 70 HRNLSGFDRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTG-------------ILGE 116
HR +R++ GS SL I + ++D+ Y C T +LG+
Sbjct: 55 HRPSGISNRFS--GSKSGNTASLTISGLHIEDEGDYFCSSLTDRSHRIFGGGTKVTVLGQ 112
Query: 117 PAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIELECISANGKPPA-EITWIDGTGTV 175
P + A L PP + + + L C+ ++ P A + W + V
Sbjct: 113 P----KAAPSVTLFPPSSEEL---------QANKATLVCLISDFYPGAVTVAWKADSSPV 159
Query: 176 MSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ V T + + S L LTP++ + +++CQ
Sbjct: 160 KAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHKSYSCQ 198
>pdb|3MBE|D Chain D, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
pdb|3MBE|H Chain H, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
Length = 259
Score = 31.6 bits (70), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 51/219 (23%), Positives = 75/219 (34%), Gaps = 40/219 (18%)
Query: 27 EQKFAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPHRNLSGFDRYAMIGSDE 86
E P+ + AV G +VTL C + + W + D G L + S E
Sbjct: 1 EAAVTQSPRSKVAVTGGKVTLSCHQTNNHDYMYWYRQDTGHG----LRLIHYSYVADSTE 56
Query: 87 EGD--------------YSLEIYPVMLDDDARYQCQVS------TGILGEPAIRSRFATL 126
+GD +SL + L A Y C S T GE SR +
Sbjct: 57 KGDIPDGYKASRPSQENFSLILELASLSQTAVYFCASSWDRAGNTLYFGEG---SRLIVV 113
Query: 127 TVLVPPDPPRIVQGDTLYTTEDREIE------LECISANGKPP-AEITWIDGTGTVMSNV 179
L PP++ +L+ EI L C++ P E++W V S V
Sbjct: 114 EDLRNVTPPKV----SLFEPSKAEIANKQKATLVCLARGFFPDHVELSWWVNGKEVHSGV 169
Query: 180 RVTEEASVDGRRTTVKSTLVLTPKKEHHN--TTFTCQAQ 216
+A + + S+ + HN F CQ Q
Sbjct: 170 CTDPQAYKESNYSYSLSSRLRVSATFWHNPRNHFRCQVQ 208
>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 = 31.6 bits (70), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 47/111 (42%), Gaps = 23/111 (20%)
Query: 108 QVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIELECISANGKPPAEIT 167
+ S+G G P RF P P R+V G E EL+C+ G+PP +
Sbjct: 5 KASSGDQGSPPCFLRF--------PRPVRVVSGA--------EAELKCV-VLGEPPPVVV 47
Query: 168 WIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQAQNT 218
W G + ++ R++ A DG + L+LT + C+A+N
Sbjct: 48 WEKGGQQLAASERLSFPA--DG----AEHGLLLTAALPTDAGVYVCRARNA 92
>pdb|1MCW|W Chain W, Three-Dimensional Structure Of A Hybrid Light Chain Dimer.
Protein Engineering Of A Binding Cavity
Length = 216
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 35/139 (25%), Positives = 58/139 (41%), Gaps = 13/139 (9%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFAT-LTVLVPPDPPRIVQGD 141
GS SL I ++ DD+A Y C L + + T +TVL P V
Sbjct: 66 GSKSGNTASLTISGLLPDDEADYFCM---SYLSDASFVFGSGTKVTVLRQPKANPTV--- 119
Query: 142 TLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVK 195
TL+ E++ L C+ ++ P A + W V + V T+ + +
Sbjct: 120 TLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVEAGVETTKPSKQSNNKYAAS 179
Query: 196 STLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 180 SYLSLTPEQWKSHRSYSCQ 198
>pdb|3QQN|A Chain A, The Retinal Specific Cd147 Ig0 Domain: From Molecular
Structure To Biological Activity
pdb|3QQN|B Chain B, The Retinal Specific Cd147 Ig0 Domain: From Molecular
Structure To Biological Activity
Length = 137
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 20/46 (43%), Gaps = 6/46 (13%)
Query: 393 FRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPN 438
F P S Q G V L C+ G+P PEI W E G PN
Sbjct: 24 FVQAPLSQQRWVGGSVELHCEAVGSPVPEIQWWFE------GQGPN 63
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 20/46 (43%), Gaps = 6/46 (13%)
Query: 547 FRARPYSVQVDRGAGVNLLCDVDGNPAPEITWIHEDSDKVVGNSPN 592
F P S Q G V L C+ G+P PEI W E G PN
Sbjct: 24 FVQAPLSQQRWVGGSVELHCEAVGSPVPEIQWWFE------GQGPN 63
>pdb|1J05|L Chain L, The Crystal Structure Of Anti-carcinoembryonic Antigen
Monoclonal Antibody T84.66 Fv Fragment
pdb|1J05|A Chain A, The Crystal Structure Of Anti-carcinoembryonic Antigen
Monoclonal Antibody T84.66 Fv Fragment
Length = 111
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 31/86 (36%), Gaps = 11/86 (12%)
Query: 34 PQDQTAVVGSRVTLPCRV-----IDKTGVLQWTKDDFALGPH------RNLSGFDRYAMI 82
P +G R T+ CR I G L W + P NL
Sbjct: 8 PASLAVSLGQRATMSCRAGESVDIFGVGFLHWYQQKPGQPPKLLIYRASNLESGIPVRFS 67
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQ 108
G+ D++L I PV DD A Y CQ
Sbjct: 68 GTGSRTDFTLIIDPVEADDVATYYCQ 93
>pdb|1HYS|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 214
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 47/198 (23%), Positives = 70/198 (35%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRY----------AMIGSDE 86
+A +G RVT+ C D + L W + P + Y A GS
Sbjct: 12 SASLGDRVTISCSASQDISSYLNW----YQQKPEGTVKLLIYYTSSLHSGVPSAFSGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQ 139
DYSL I + +D A Y CQ + G + I+ A TV + PP ++
Sbjct: 68 GTDYSLTISNLEPEDFATYYCQQYSKFPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTS 127
Query: 140 GDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTTVKST 197
G + C N P + W IDG+ + + ++ ST
Sbjct: 128 GGA---------SVVCFLNNFYPKDINVAWAIDGSAAANGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT ++TC A
Sbjct: 179 LTLTADAYEAANSYTCAA 196
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 400 VQVDRGAGVNLLCDVDGNPAPEITWI 425
V VD G V +C DG+P P I W+
Sbjct: 395 VFVDEGHTVQFVCRADGDPPPAILWL 420
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/26 (46%), Positives = 15/26 (57%)
Query: 554 VQVDRGAGVNLLCDVDGNPAPEITWI 579
V VD G V +C DG+P P I W+
Sbjct: 395 VFVDEGHTVQFVCRADGDPPPAILWL 420
Score = 30.4 bits (67), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 33/77 (42%), Gaps = 7/77 (9%)
Query: 643 GDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDH 702
G T + C A PPP + S R + S+ +V D TL +R ++
Sbjct: 400 GHTVQFVCRADGDPPPAILWLSPRKHLVSAKSNGRLTVFPD-------GTLEVRYAQVQD 452
Query: 703 FGVYNCSVSNPYGSDSV 719
G Y C +N G+DS+
Sbjct: 453 NGTYLCIAANAGGNDSM 469
>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 = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 79/203 (38%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI---- 82
+ P +A VG RVT+ CR D + W + P + S Y+ +
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDLATDVAWYQQKPGKAPKLLIYSASFLYSGVPSRF 62
Query: 83 -GSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I + +D A Y CQ S G + I+ A +V + PP
Sbjct: 63 SGSGSGTDFTLTISSLQPEDFATYYCQQSEPEPYTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|1H3P|L Chain L, Structural Characterisation Of A Monoclonal Antibody
Specific For The Pres1 Region Of The Hepatitis B Virus
Length = 240
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 49/207 (23%), Positives = 77/207 (37%), Gaps = 38/207 (18%)
Query: 34 PQDQTAVVGSRVTLPCRVID-------KTGVLQWTKDDFALGPHRNL-------SGF-DR 78
P VG +VT+ CR + L W + P + SG DR
Sbjct: 8 PSSLAVSVGEKVTMSCRSSQSLLNTRTRKSYLAWFQQKPGQSPKMLIYWASTRESGVPDR 67
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGIL---GEPAI---RSRFATLTVLVPP 132
+ GS D++L I V +D A Y C+ S + G + R+ A + PP
Sbjct: 68 FT--GSGSGTDFTLTISSVQAEDLAVYYCKQSYSLYTFGGGTKLEIKRADAAPTVSIFPP 125
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGR 190
++ G + C N P + W IDG+ N + D +
Sbjct: 126 SSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSK 174
Query: 191 RTT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 175 DSTYSMSSTLTLTKDEYERHNSYTCEA 201
>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 = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 370 CEVHNDVGKSEDSETLDVT----YGPRFRA-RPYSVQVDRGAGVNLLCDVDGNPAPEITW 424
C V N+ G + LDV + P +A P + V G+ V +C V +P P I W
Sbjct: 90 CIVENEYGSINHTYQLDVVERSPHRPILQAGLPANKTVALGSNVEFMCKVYSDPQPHIQW 149
Query: 425 I 425
+
Sbjct: 150 L 150
Score = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 7/79 (8%)
Query: 508 TWSYRGEEIGVGSSDDYS--VHNDVGKSEDSETLDVT----YGPRFRA-RPYSVQVDRGA 560
TWS + + +Y+ V N+ G + LDV + P +A P + V G+
Sbjct: 72 TWSIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVERSPHRPILQAGLPANKTVALGS 131
Query: 561 GVNLLCDVDGNPAPEITWI 579
V +C V +P P I W+
Sbjct: 132 NVEFMCKVYSDPQPHIQWL 150
>pdb|2GSI|A Chain A, Crystal Structure Of A Murine Fab In Complex With An 11
Residue Peptide Derived From Staphylococcal Nuclease
pdb|2GSI|C Chain C, Crystal Structure Of A Murine Fab In Complex With An 11
Residue Peptide Derived From Staphylococcal Nuclease
pdb|2GSI|E Chain E, Crystal Structure Of A Murine Fab In Complex With An 11
Residue Peptide Derived From Staphylococcal Nuclease
pdb|2GSI|G Chain G, Crystal Structure Of A Murine Fab In Complex With An 11
Residue Peptide Derived From Staphylococcal Nuclease
Length = 215
Score = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 38/144 (26%), Positives = 60/144 (41%), Gaps = 22/144 (15%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPP 135
GS D++L I+PV +D A Y C S+G + I+ A TV + PP
Sbjct: 68 GSGSGTDFTLNIHPVEEEDAATYYCSHIRELPRSSGGGTKLEIKRADAAPTVSIFPPSSE 127
Query: 136 RIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT 193
++ G + C N P + W ID G+ N + D + +T
Sbjct: 128 QLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDST 176
Query: 194 --VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 177 YSMSSTLTLTKDEYERHNSYTCEA 200
>pdb|2UZI|L Chain L, Crystal Structure Of Hras(G12v) - Anti-Ras Fv Complex
Length = 104
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 39/94 (41%), Gaps = 11/94 (11%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR + L W + P + SG R+
Sbjct: 2 QMTQSPSSLSASVGDRVTITCRASQSISSYLNWYQQKPGEAPKLLIYSASVLQSGVPSRF 61
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGI 113
+ GS D++L I + +D A Y CQ S I
Sbjct: 62 S--GSGSGTDFTLTISSLQPEDFATYYCQQSVMI 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 = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 50/208 (24%), Positives = 76/208 (36%), Gaps = 39/208 (18%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKT-------GVLQWTKDDFALGPH--------RNLSGFDR 78
P VG +VT+ C+ L W + P R DR
Sbjct: 8 PSSLAMSVGQKVTMSCKSSQSLLNSSNQKNYLAWYQQKPGQSPKLLVYFASTRESGVPDR 67
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVP 131
+ IGS D++L I V +D A Y CQ + G + I+ A TV + P
Sbjct: 68 F--IGSGSGTDFTLTISSVQAEDLADYFCQQHYSTPFTFGSGTKLEIKRADAAPTVSIFP 125
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W IDG+ N + D
Sbjct: 126 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDS 174
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 175 KDSTYSMSSTLTLTKDEYERHNSYTCEA 202
>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 = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 79/205 (38%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR + L W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQGISSYLAWYQQKPGKAPKLLIYAASSLQSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PP 132
+ GS D++L I + +D A Y CQ + G + I+ A +V + PP
Sbjct: 63 S--GSGSGTDFTLTISSLQPEDFAVYYCQQHGNLPYTFGDGTKVEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDG 189
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|3S88|L Chain L, Crystal Structure Of Sudan Ebolavirus Glycoprotein (Strain
Gulu) Bound To 16f6
pdb|3VE0|B Chain B, Crystal Structure Of Sudan Ebolavirus Glycoprotein (Strain
Boniface) Bound To 16f6
Length = 212
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 47/195 (24%), Positives = 77/195 (39%), Gaps = 33/195 (16%)
Query: 41 VGSRVTLPCRVI-DKTGVLQWTKDDFALGPH--------RNLSGFDRYAMIGSDEEGDYS 91
VG RVT+ C+ D T + W + P R+ DR+ GS ++
Sbjct: 15 VGDRVTITCKASQDVTTAVAWYQQKPGHSPKLLIYWASTRHTGVPDRFT--GSGSGTAFT 72
Query: 92 LEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLY 144
L + V +D A Y CQ ++ G + ++ A TV + PP ++ G
Sbjct: 73 LTLNSVQAEDLALYYCQQHYSTPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGA-- 130
Query: 145 TTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVL 200
+ C N P + W IDG+ N + D + +T + STL L
Sbjct: 131 -------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSMSSTLTL 181
Query: 201 TPKKEHHNTTFTCQA 215
T + + ++TC+A
Sbjct: 182 TKDEYERHNSYTCEA 196
>pdb|2QEJ|A Chain A, Crystal Structure Of A Staphylococcus Aureus Protein
(Ssl7) In Complex With Fc Of Human Iga1
pdb|2QEJ|B Chain B, Crystal Structure Of A Staphylococcus Aureus Protein
(Ssl7) In Complex With Fc Of Human Iga1
Length = 216
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 43/106 (40%), Gaps = 7/106 (6%)
Query: 193 TVKSTLVLTPKKEHHNTTFTCQAQNTADRTYKVARL-KLLVKYAPKVQVSVIGSNRLVEG 251
+V S L + +H TFTC A +T A L K + P+V + S L
Sbjct: 64 SVSSVLPGCAEPWNHGKTFTCTAAYPESKTPLTATLSKSGNTFRPEVHLLPPPSEELALN 123
Query: 252 TDVRLYCKAEA-NPSHMKYRWYINDQPVPAAASATELYLTNITRHQ 296
V L C A +P + RW Q +P E YLT +R +
Sbjct: 124 ELVTLTCLARGFSPKDVLVRWLQGSQELPR-----EKYLTWASRQE 164
>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 = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 75/205 (36%), Gaps = 29/205 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPH------RNLSGFDRYAM 81
+ P +A VG VT+ CR L W + P + L+
Sbjct: 3 QMTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKTLADGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDP 134
GS YSL+I + +D Y CQ + G + I+ A TV + PP
Sbjct: 63 SGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPWTFGGGTKLEIKRADAAPTVSIFPPSS 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRT 192
++ G + C N P + W IDG+ N + D + +
Sbjct: 123 EQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKDS 171
Query: 193 T--VKSTLVLTPKKEHHNTTFTCQA 215
T + STL LT + + ++TC+A
Sbjct: 172 TYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|4HKB|N Chain N, Ch67 Fab (unbound) From The Ch65-67 Lineage
pdb|4HKB|B Chain B, Ch67 Fab (unbound) From The Ch65-67 Lineage
pdb|4HKB|D Chain D, Ch67 Fab (unbound) From The Ch65-67 Lineage
pdb|4HKB|F Chain F, Ch67 Fab (unbound) From The Ch65-67 Lineage
pdb|4HKB|H Chain H, Ch67 Fab (unbound) From The Ch65-67 Lineage
pdb|4HKB|K Chain K, Ch67 Fab (unbound) From The Ch65-67 Lineage
Length = 213
Score = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 31/130 (23%), Positives = 52/130 (40%), Gaps = 10/130 (7%)
Query: 91 SLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDRE 150
+L I V D+A Y CQV + F T L P+ TL+ E
Sbjct: 70 TLTISRVEAGDEADYYCQV----WDSDSDHVVFGGGTKLTVLGQPKAAPSVTLFPPSSEE 125
Query: 151 IE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKK 204
++ L C+ ++ P A + W + V + V T + + S L LTP++
Sbjct: 126 LQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQ 185
Query: 205 EHHNTTFTCQ 214
+ +++CQ
Sbjct: 186 WKSHRSYSCQ 195
>pdb|1DFB|L Chain L, Structure Of A Human Monoclonal Antibody Fab Fragment
Against Gp41 Of Human Immunodeficiency Virus Type I
Length = 212
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 50/203 (24%), Positives = 78/203 (38%), Gaps = 29/203 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTG-VLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR L W + P + SG R+
Sbjct: 3 QMTQSPSTLSASVGDRVTITCRASQSISRWLAWYQQKPGKVPKLLIYKASSLESGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQ----VSTGILGEPAIRSRFATLTVLV-PPDP 134
+ GS E ++L I + DD A Y CQ S G + I+ A +V + PP
Sbjct: 63 SGSGSGTE--FTLTISSLQPDDFATYYCQQYNSYSFGPGTKVDIKRTVAAPSVFIFPPSD 120
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRR 191
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 121 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 171
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 -SLSSTLTLSKADYEKHKVYACE 193
>pdb|3GO1|L Chain L, Crystal Structure Of Anti-Hiv-1 Fab 268-D In Complex With
V3 Peptide Mn
Length = 209
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 57/146 (39%), Gaps = 27/146 (18%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQV--STG-----------ILGEPAIRSRFATLTVL 129
GS +L I V +D+A Y CQ S+G +LG+P + L
Sbjct: 63 GSTSGTTVTLTISGVQAEDEADYYCQSADSSGDYVFGGGTKVTVLGQP----KANPTVTL 118
Query: 130 VPPDPPRIVQGDTLYTTEDREIELECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVD 188
PP + + + L C+ ++ P A + W V + V T+ +
Sbjct: 119 FPPSSEEL---------QANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQS 169
Query: 189 GRRTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 170 NNKYAASSYLSLTPEQWKSHRSYSCQ 195
>pdb|2YK1|L Chain L, Structure Of Human Anti-Nicotine Fab Fragment In Complex
With Nicotine
Length = 216
Score = 31.2 bits (69), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 34/144 (23%), Positives = 57/144 (39%), Gaps = 12/144 (8%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ GS SL I + +D+A Y C L F T L P+
Sbjct: 61 DRFS--GSKSGTSASLAISGLRSEDEADYYCAAWDDSLSAWV----FGGGTQLDILGQPK 114
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 115 AAPSVTLFPPSSEELQAPKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 174
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 175 KYAASSYLSLTPEQWKSHRSYSCQ 198
>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 = 31.2 bits (69), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 47/208 (22%), Positives = 72/208 (34%), Gaps = 35/208 (16%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPH------RNLSGFDRYAM 81
+ P + VG VT+ CR + L W + P NL+
Sbjct: 3 QMTQSPASLSVSVGETVTITCRASEIIYSNLAWYQQKQGKSPQLLVYSATNLAEGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAI----------RSRFATLTVLVP 131
GS YSL+I + +D Y CQ G P R+ A + P
Sbjct: 63 SGSGSGTQYSLKINSLQSEDFGSYYCQ---HFWGNPWTFGGGTKLEIKRADAAPTVSIFP 119
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W IDG+ N + D
Sbjct: 120 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDS 168
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 169 KDSTYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|4HKX|B Chain B, Influenza Hemagglutinin In Complex With Ch67 Fab
Length = 214
Score = 31.2 bits (69), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 54/130 (41%), Gaps = 10/130 (7%)
Query: 91 SLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDRE 150
+L I V D+A Y CQV + + LTVL P+ TL+ E
Sbjct: 71 TLTISRVEAGDEADYYCQVWDSD-SDHVVFGGGTKLTVL---GQPKAAPSVTLFPPSSEE 126
Query: 151 IE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKK 204
++ L C+ ++ P A + W + V + V T + + S L LTP++
Sbjct: 127 LQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQ 186
Query: 205 EHHNTTFTCQ 214
+ +++CQ
Sbjct: 187 WKSHRSYSCQ 196
>pdb|3OJM|B Chain B, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr2b Harboring P253r Apert Mutation
Length = 231
Score = 31.2 bits (69), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 44/174 (25%), Positives = 60/174 (34%), Gaps = 42/174 (24%)
Query: 321 VRLYCKAEANPSHMKYRWYINDQPVPAAASATELYLTNITRHQHDSIV------------ 368
V+ C A NP RW N + + R+QH S++
Sbjct: 37 VKFRCPAGGNPMPT-MRWLKNGKEFKQEHRIGGYKV----RNQHWSLIMESVVPSDKGNY 91
Query: 369 KCEVHNDVGKSEDSETLDVTYGPRFR-----ARPYSVQVDRGAGVNLLCDVDGNPAPEIT 423
C V N+ G + LDV R R P + G V +C V + P I
Sbjct: 92 TCVVENEYGSINHTYHLDVVERSRHRPILQAGLPANASTVVGGDVEFVCKVYSDAQPHIQ 151
Query: 424 WI-HEDSD------------KVVG----NSPN---LTLLMTSDDLAGRYYCKAS 457
WI H + + KV+ NS N L L ++ AG Y CK S
Sbjct: 152 WIKHVEKNGSKYGPDGLPYLKVLKHSGINSSNAEVLALFNVTEADAGEYICKVS 205
>pdb|3KNB|B Chain B, Crystal Structure Of The Titin C-Terminus In Complex With
Obscurin- Like 1
Length = 107
Score = 31.2 bits (69), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 47/111 (42%), Gaps = 23/111 (20%)
Query: 108 QVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTLYTTEDREIELECISANGKPPAEIT 167
+ S+G G P RF P P R+V G E EL+C+ G+PP +
Sbjct: 4 KASSGDQGSPPCFLRF--------PRPVRVVSGA--------EAELKCV-VLGEPPPVVV 46
Query: 168 WIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNTTFTCQAQNT 218
W G + ++ R++ A DG + L+LT + C+A+N
Sbjct: 47 WEKGGQQLAASERLSFPA--DG----AEHGLLLTAALPTDAGVYVCRARNA 91
>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 = 31.2 bits (69), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 38/91 (41%), Gaps = 11/91 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR + L W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQSISSYLNWYQQKPGKAPKLLIYAASSLQSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVS 110
+ GS D++L I + +D A Y CQ S
Sbjct: 63 S--GSGSGTDFTLTISSLQPEDFATYYCQQS 91
>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 = 31.2 bits (69), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 50/205 (24%), Positives = 82/205 (40%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL--------SGFDRY 79
+ P +A +G RV+L CR + +G L W + G + L SG +
Sbjct: 3 QMTQSPSSLSASLGERVSLTCRASQEISGYLSWLQQK-PDGTIKRLIYAASTLDSGVPK- 60
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQC-QVST-----GILGEPAIRSRFATLTVLV-PP 132
GS DYSL I + +D A Y C Q ++ G + I+ A +V + PP
Sbjct: 61 RFSGSRSGSDYSLTISSLESEDFADYYCLQYASYPRTFGGGTKVEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>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 = 31.2 bits (69), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 75/203 (36%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA------M 81
+ P +A VG RVT+ CR D L W + P + A
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASRDIKSYLNWYQQKPGKAPKVLIYYATSLAEGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQV---STGILGEPA---IRSRFATLTVLV-PPDP 134
GS DY+L I + +D A Y C S G+ I+ A +V + PP
Sbjct: 63 SGSGSGTDYTLTISSLQPEDFATYYCLQHGESPWTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|2RCS|L Chain L, Immunoglobulin 48g7 Germline Fab-Affinity Maturation Of An
Esterolytic Antibody
Length = 214
Score = 31.2 bits (69), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 50/205 (24%), Positives = 82/205 (40%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL--------SGFDRY 79
+ P +A +G RV+L CR + +G L W + G + L SG +
Sbjct: 3 QMTQSPSSLSASLGERVSLTCRASQEISGYLSWLQQK-PDGTIKRLIYAASTLDSGVPK- 60
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQC-QVST-----GILGEPAIRSRFATLTVLV-PP 132
GS DYSL I + +D A Y C Q ++ G + I+ A +V + PP
Sbjct: 61 RFSGSRSGSDYSLTISSLESEDFADYYCLQYASYPRTFGGGTKVEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>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 = 31.2 bits (69), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 48/203 (23%), Positives = 75/203 (36%), Gaps = 27/203 (13%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA------M 81
+ P +A VG RVT+ CR D L W + P + A
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASRDIKSYLNWYQQKPGKAPKVLIYYATSLAEGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQV---STGILGEPA---IRSRFATLTVLV-PPDP 134
GS DY+L I + +D A Y C S G+ I+ A +V + PP
Sbjct: 63 SGSGSGTDYTLTISSLQPEDFATYYCLQHGESPWTFGQGTKVEIKRTVAAPSVFIFPPSD 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 123 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 173
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 174 -SLSSTLTLSKADYEKHKVYACE 195
>pdb|1OPG|L Chain L, Opg2 Fab Fragment
pdb|1BM3|L Chain L, Immunoglobulin Opg2 Fab-Peptide Complex
Length = 214
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 49/209 (23%), Positives = 80/209 (38%), Gaps = 33/209 (15%)
Query: 27 EQKFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPH-------RNLSGF-D 77
++ P + G V+L CR + L W + P +++SG
Sbjct: 1 DELLTQSPATLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYASQSISGIPS 60
Query: 78 RYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LV 130
R++ GS D++L I V +D Y CQ S G + I+ A TV +
Sbjct: 61 RFS--GSGSGTDFTLSINSVETEDFGMYFCQQSNSWPLTFGGGSKLEIKRADAAPTVSIF 118
Query: 131 PPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVD 188
PP ++ G + C N P + W IDG+ N + D
Sbjct: 119 PPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQD 167
Query: 189 GRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 168 SKDSTYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|1RSF|A Chain A, Nmr Structure Of Monomeric Car D1 Domain
Length = 126
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 50/111 (45%), Gaps = 10/111 (9%)
Query: 25 YREQKFAMEPQDQTAVVGSRVTLPC--RVIDKTGVLQWTKDDFALGPHRNLSGFDRYAMI 82
Y KF + P+DQ + + P + +D+ +L ++ D + +L G R
Sbjct: 20 YLPCKFTLSPEDQGPLDIEWLISPADNQKVDQVIIL-YSGDKIYDDYYPDLKG--RVHFT 76
Query: 83 GSD-EEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPP 132
+D + GD S+ + + L D YQC+V P + ++ L VLV P
Sbjct: 77 SNDLKSGDASINVTNLQLSDIGTYQCKVKKA----PGVANKKIHLVVLVKP 123
>pdb|3MBX|L Chain L, Crystal Structure Of Chimeric Antibody X836
Length = 220
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 50/212 (23%), Positives = 80/212 (37%), Gaps = 39/212 (18%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVI-------DKTGVLQWTKDDFALGPHRNL-------SG 75
+ P VG +VT+ C+ ++ L W + P + SG
Sbjct: 4 MSQSPSSLAVSVGEKVTMSCKSSQSLLYNNNQKNYLAWYQQKPGQSPKLLIYWASTRESG 63
Query: 76 F-DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV 128
DR+ GS D++L I V +D A Y CQ + G + I+ A TV
Sbjct: 64 VPDRFT--GSGSGTDFTLTISSVKAEDLAVYYCQQYYSYPFTFGSGTKLEIKRADAAPTV 121
Query: 129 -LVPPDPPRIVQGDTLYTTEDREIELECISANGKP-PAEITW-IDGTGTVMSNVRVTEEA 185
+ PP ++ G + C N P + W IDG+ N +
Sbjct: 122 SIFPPSSEQLTSGGA---------SVVCFLNNFYPRDINVKWKIDGSE--RQNGVLNSWT 170
Query: 186 SVDGRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
D + +T + STL LT + + ++TC+A
Sbjct: 171 DQDSKDSTYSMSSTLTLTKDEYERHNSYTCEA 202
>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 = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 46/208 (22%), Positives = 81/208 (38%), Gaps = 32/208 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI------DKTGVLQWTKDDFALGPHRNLSGF-DRYAM 81
+ P +A VG RVT+ CR + L W + P + +R++
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRSSQSLVHNNANTYLHWYQQKPGKAPKLLIYKVSNRFSG 62
Query: 82 I-----GSDEEGDYSLEIYPVMLDDDARYQCQVSTGI---LGEPA---IRSRFATLTVLV 130
+ GS D++L I + +D A Y C +T + G+ I+ A +V +
Sbjct: 63 VPSRFSGSGSGTDFTLTISSLQPEDFATYYCSQNTLVPWTFGQGTKVEIKRTVAAPSVFI 122
Query: 131 -PPDPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEAS 186
PP ++ G + C+ N P A++ W + + S VTE+ S
Sbjct: 123 FPPSDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDS 173
Query: 187 VDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
D ++ STL L+ + + C+
Sbjct: 174 KDSTY-SLSSTLTLSKADYEKHKVYACE 200
>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 = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 48/204 (23%), Positives = 79/204 (38%), Gaps = 29/204 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG R+T+ CR T L W + P + SG R+
Sbjct: 3 QLTQSPSSLSASVGDRITITCRASQGVTSALAWYRQKPGSPPQLLIYDASSLESGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQV------STGILGEPAIRSRFATLTVLVPPD 133
+ GS E ++L I + +D A Y CQ + G +R A +V + P
Sbjct: 63 SGSGSGTE--FTLTISTLRPEDFATYYCQQLHFYPHTFGGGTRVDVRRTVAAPSVFIFPP 120
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGR 190
R ++ T + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDRQLKSGT--------ASVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDST 172
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 173 Y-SLSSTLTLSKADYEKHKVYECE 195
>pdb|1IGA|A Chain A, Model Of Human Iga1 Determined By Solution Scattering
Curve- Fitting And Homology Modelling
pdb|1IGA|B Chain B, Model Of Human Iga1 Determined By Solution Scattering
Curve- Fitting And Homology Modelling
pdb|2ESG|A Chain A, Solution Structure Of The Complex Between Immunoglobulin
Iga1 And Human Serum Albumin
pdb|2ESG|B Chain B, Solution Structure Of The Complex Between Immunoglobulin
Iga1 And Human Serum Albumin
pdb|2QTJ|A Chain A, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|2QTJ|B Chain B, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|2QTJ|C Chain C, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|2QTJ|D Chain D, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|3CHN|A Chain A, Solution Structure Of Human Secretory Iga1
pdb|3CHN|B Chain B, Solution Structure Of Human Secretory Iga1
pdb|3CHN|D Chain D, Solution Structure Of Human Secretory Iga1
pdb|3CHN|C Chain C, Solution Structure Of Human Secretory Iga1
Length = 475
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 43/106 (40%), Gaps = 7/106 (6%)
Query: 193 TVKSTLVLTPKKEHHNTTFTCQAQNTADRTYKVARL-KLLVKYAPKVQVSVIGSNRLVEG 251
+V S L + +H TFTC A +T A L K + P+V + S L
Sbjct: 306 SVSSVLPGCAEPWNHGKTFTCTAAYPESKTPLTATLSKSGNTFRPEVHLLPPPSEELALN 365
Query: 252 TDVRLYCKAEA-NPSHMKYRWYINDQPVPAAASATELYLTNITRHQ 296
V L C A +P + RW Q +P E YLT +R +
Sbjct: 366 ELVTLTCLARGFSPKDVLVRWLQGSQELPR-----EKYLTWASRQE 406
>pdb|1FH5|L Chain L, Crystal Structure Of The Fab Fragment Of The Monoclonal
Antibody Mak33
Length = 213
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 48/206 (23%), Positives = 78/206 (37%), Gaps = 33/206 (16%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPH-------RNLSGF-DRYA 80
P + G V+L CR + L W + P +++SG R++
Sbjct: 4 LTQSPATLSVTPGESVSLSCRASQSISNNLHWYQQKSHESPRLLIKYASQSISGIPSRFS 63
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVST------GILGEPAIRSRFATLTV-LVPPD 133
GS D++L I V +D Y CQ S G + ++ A TV + PP
Sbjct: 64 --GSGSGTDFTLSINSVETEDFGMYYCQQSNSWPLTFGAGTKLELKRADAAPTVSIFPPS 121
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRR 191
++ G + C N P + W IDG+ N + D +
Sbjct: 122 SEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKD 170
Query: 192 TT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 171 STYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|1OW0|A Chain A, Crystal Structure Of Human Fcari Bound To Iga1-fc
pdb|1OW0|B Chain B, Crystal Structure Of Human Fcari Bound To Iga1-fc
Length = 214
Score = 30.8 bits (68), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 31/106 (29%), Positives = 43/106 (40%), Gaps = 7/106 (6%)
Query: 193 TVKSTLVLTPKKEHHNTTFTCQAQNTADRTYKVARL-KLLVKYAPKVQVSVIGSNRLVEG 251
+V S L + +H TFTC A +T A L K + P+V + S L
Sbjct: 63 SVSSVLPGCAEPWNHGKTFTCTAAYPESKTPLTATLSKSGNTFRPEVHLLPPPSEELALN 122
Query: 252 TDVRLYCKAEA-NPSHMKYRWYINDQPVPAAASATELYLTNITRHQ 296
V L C A +P + RW Q +P E YLT +R +
Sbjct: 123 ELVTLTCLARGFSPKDVLVRWLQGSQELP-----REKYLTWASRQE 163
>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 = 30.8 bits (68), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 29/111 (26%), Positives = 50/111 (45%), Gaps = 10/111 (9%)
Query: 25 YREQKFAMEPQDQTAVVGSRVTLPC--RVIDKTGVLQWTKDDFALGPHRNLSGFDRYAMI 82
Y KF + P+DQ + + P + +D+ +L ++ D + +L G R
Sbjct: 18 YLPCKFTLSPEDQGPLDIEWLISPADNQKVDQVIIL-YSGDKIYDDYYPDLKG--RVHFT 74
Query: 83 GSD-EEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPP 132
+D + GD S+ + + L D YQC+V P + ++ L VLV P
Sbjct: 75 SNDLKSGDASINVTNLQLSDIGTYQCKVKKA----PGVANKKIHLVVLVKP 121
>pdb|1TZI|A Chain A, Crystal Structure Of The Fab Yads2 Complexed With H-Vegf
Length = 214
Score = 30.8 bits (68), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 79/205 (38%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTG-VLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR + W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQSYAYAVAWYQQKPGKAPKLLIYDASYLYSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQ---VSTGILGEPA---IRSRFATLTVLV-PP 132
+ GS D++L I + +D A Y CQ S G+ I+ A +V + PP
Sbjct: 63 S--GSGSGTDFTLTISSLQPEDFATYYCQQAYSSPDTFGQGTKVEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|3UBX|L Chain L, Crystal Structure Of The Mouse Cd1d-C20:2-Agalcer-L363 Mab
Fab Complex
pdb|3UBX|I Chain I, Crystal Structure Of The Mouse Cd1d-C20:2-Agalcer-L363 Mab
Fab Complex
Length = 214
Score = 30.8 bits (68), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 46/195 (23%), Positives = 78/195 (40%), Gaps = 33/195 (16%)
Query: 41 VGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGF--------DRYAMIGSDEEGDYS 91
+G R T+ C+ D + W + P +SG R++ GS + DY+
Sbjct: 15 LGDRATITCKASEDIYNRIAWYQQKPGNVPRLLISGATSLETGVPSRFSGSGSGK--DYT 72
Query: 92 LEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLY 144
L I + +D A Y CQ ++ G + ++ A TV + PP ++ G
Sbjct: 73 LSITSLQTEDVATYYCQHYWSSPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSGGA-- 130
Query: 145 TTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVL 200
+ C N P + W ID G+ N + D + +T + STL L
Sbjct: 131 -------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMSSTLTL 181
Query: 201 TPKKEHHNTTFTCQA 215
T + + ++TC+A
Sbjct: 182 TKDEYERHNSYTCEA 196
>pdb|1H9V|A Chain A, Human Fc-Gamma-Receptor Iia (Fcgriia), Monoclinic
Length = 172
Score = 30.8 bits (68), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 41/172 (23%), Positives = 66/172 (38%), Gaps = 35/172 (20%)
Query: 547 FRARPYSVQVDRGAGVNLLCDVDGNPAPE---ITWIHEDSDKVVGNSPNLTLLMTSDDLA 603
+ P + V + V L C G +PE I W H + P+ ++D +
Sbjct: 7 LKLEPPWINVLQEDSVTLTCQ--GARSPESDSIQWFHNGNLIPTHTQPSYRFKANNND-S 63
Query: 604 GRYYCKASVMGFPEVGAEATVYLKGRPTIISHRTQFGIP------GDTARVECSAFSIPP 657
G Y C+ + V+L T++S P G+T + C ++ P
Sbjct: 64 GEYTCQTG-----QTSLSDPVHL----TVLSEWLVLQTPHLEFQEGETIMLRCHSWKDKP 114
Query: 658 PEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCS 709
KVT+ G+ S +S L DP T I ++ H H G Y+C+
Sbjct: 115 LVKVTFFQNGK------SQKFSRL-DP-------TFSIPQANHSHSGDYHCT 152
>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 = 30.8 bits (68), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 47/207 (22%), Positives = 76/207 (36%), Gaps = 35/207 (16%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA------- 80
+ P +A VG RVT+ C+ D L W + P + YA
Sbjct: 3 QMTQSPSSLSASVGDRVTITCKASQDIKSFLSW----YQQKPEKAPKSLIYYATSLADGV 58
Query: 81 ---MIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV- 130
GS DY+L I + +D A Y C + G + I+ A +V +
Sbjct: 59 PSRFSGSGSGTDYTLTISSLQPEDFATYYCLQHGESPYTFGGGTKVEIKRTVAAPSVFIF 118
Query: 131 PPDPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASV 187
PP ++ G + C+ N P A++ W + + S VTE+ S
Sbjct: 119 PPSDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSK 169
Query: 188 DGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
D ++ STL L+ + + C+
Sbjct: 170 DSTY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|4F8T|A Chain A, Crystal Structure Of The Human Btn3a3 Ectodomain
Length = 226
Score = 30.8 bits (68), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 40/156 (25%), Positives = 55/156 (35%), Gaps = 34/156 (21%)
Query: 39 AVVGSRVTLPCRVI----DKTGVLQWTK----------------DDFALGPHRNLSGFDR 78
A+VG LPC + +T L+W +D P+R + R
Sbjct: 16 AMVGEDADLPCHLFPTMSAETMELRWVSSSLRQVVNVYADGKEVEDRQSAPYRGRTSILR 75
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPA-IRSRFATLTVLVPPDPPRI 137
+ G +L I+ V D +Y C G E A + + A L D
Sbjct: 76 DGITA----GKAALRIHNVTASDSGKYLCYFQDGDFYEKALVELKVAALG----SDLHIE 127
Query: 138 VQGDTLYTTEDREIELECISANGKPPAEITWIDGTG 173
V+G ED I LEC S P +I W D G
Sbjct: 128 VKG-----YEDGGIHLECRSTGWYPQPQIKWSDTKG 158
>pdb|3RA7|L Chain L, Bispecific Digoxigenin Binding Antibodies For Targeted
Payload Delivery
pdb|3RA7|M Chain M, Bispecific Digoxigenin Binding Antibodies For Targeted
Payload Delivery
Length = 214
Score = 30.8 bits (68), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 50/198 (25%), Positives = 75/198 (37%), Gaps = 33/198 (16%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGSDEEG 88
+A +G RVT+ CR D L W + LSG R++ GS
Sbjct: 12 SASLGDRVTISCRASQDIKNYLNWYQQKPGGTVKLLIYYSSTLLSGVPSRFSGRGSGT-- 69
Query: 89 DYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPPRIVQGD 141
D+SL I + +D A Y CQ S G R+ A + PP ++ G
Sbjct: 70 DFSLTITNLEREDIATYFCQQSITLPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGG 129
Query: 142 TLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W IDG+ N + D + +T + ST
Sbjct: 130 A---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 179 LTLTKDEYERHNSYTCEA 196
>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 = 30.8 bits (68), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 37/91 (40%), Gaps = 11/91 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNLSGFD--------RY 79
+ P +A VG RVT+ CR + L W + P + D R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQSISSYLNWYQQKPGKAPKLLIYDADDLQSGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVS 110
+ GS D++L I + +D A Y CQ S
Sbjct: 63 S--GSGSGTDFTLTISSLQPEDFATYYCQQS 91
>pdb|3D5O|F Chain F, Structural Recognition And Functional Activation Of Fcrr
By Innate Pentraxins
Length = 177
Score = 30.8 bits (68), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 41/172 (23%), Positives = 66/172 (38%), Gaps = 35/172 (20%)
Query: 547 FRARPYSVQVDRGAGVNLLCDVDGNPAPE---ITWIHEDSDKVVGNSPNLTLLMTSDDLA 603
+ P + V + V L C G +PE I W H + P+ ++D +
Sbjct: 7 LKLEPPWINVLQEDSVTLTCQ--GARSPESDSIQWFHNGNLIPTHTQPSYRFKANNND-S 63
Query: 604 GRYYCKASVMGFPEVGAEATVYLKGRPTIISHRTQFGIP------GDTARVECSAFSIPP 657
G Y C+ + V+L T++S P G+T + C ++ P
Sbjct: 64 GEYTCQTG-----QTSLSDPVHL----TVLSEWLVLQTPHLEFQEGETIMLRCHSWKDKP 114
Query: 658 PEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCS 709
KVT+ G+ S +S L DP T I ++ H H G Y+C+
Sbjct: 115 LVKVTFFQNGK------SQKFSRL-DP-------TFSIPQANHSHSGDYHCT 152
>pdb|1SBS|L Chain L, Crystal Structure Of An Anti-Hcg Fab
Length = 220
Score = 30.8 bits (68), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 50/212 (23%), Positives = 80/212 (37%), Gaps = 39/212 (18%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVI-------DKTGVLQWTKDDFALGPHRNL-------SG 75
+ P VG +VT+ C+ ++ L W + P + SG
Sbjct: 4 MSQSPSSLAVSVGEKVTMTCKSSQSLLYSSNQMNYLAWYQQKPGQSPKLLIYWASTRESG 63
Query: 76 F-DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV 128
DR+ GS D++L I V +D A Y CQ + G + I+ A TV
Sbjct: 64 VPDRFT--GSGSGTDFTLTISSVEAEDLAVYYCQQYHSYPFTFGSGTKLEIKRADAAPTV 121
Query: 129 -LVPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEA 185
+ PP ++ G + C N P + W IDG+ N +
Sbjct: 122 SIFPPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWT 170
Query: 186 SVDGRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
D + +T + STL LT + + ++TC+A
Sbjct: 171 DQDSKDSTYSMSSTLTLTKDEYERHNSYTCEA 202
>pdb|3RY6|C Chain C, Complex Of Fcgammariia (Cd32) And The Fc Of Human Igg1
Length = 167
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 41/172 (23%), Positives = 66/172 (38%), Gaps = 35/172 (20%)
Query: 547 FRARPYSVQVDRGAGVNLLCDVDGNPAPE---ITWIHEDSDKVVGNSPNLTLLMTSDDLA 603
+ P + V + V L C G +PE I W H + P+ ++D +
Sbjct: 4 LKLEPPWINVLQEDSVTLTCQ--GARSPESDSIQWFHNGNLIPTHTQPSYRFKANNND-S 60
Query: 604 GRYYCKASVMGFPEVGAEATVYLKGRPTIISHRTQFGIP------GDTARVECSAFSIPP 657
G Y C+ + V+L T++S P G+T + C ++ P
Sbjct: 61 GEYTCQTG-----QTSLSDPVHL----TVLSEWLVLQTPHLEFQEGETIMLRCHSWKDKP 111
Query: 658 PEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCS 709
KVT+ G+ S +S L DP T I ++ H H G Y+C+
Sbjct: 112 LVKVTFFQNGK------SQKFSRL-DP-------TFSIPQANHSHSGDYHCT 149
>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 = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 48/196 (24%), Positives = 79/196 (40%), Gaps = 31/196 (15%)
Query: 38 TAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRYAMIGSDEEG 88
+A VG RVT+ CR + L W + P + SG R++ GS
Sbjct: 11 SASVGDRVTITCRASQSISSYLNWYQQKPGKVPKLLIYAASSLQSGVPSRFS--GSGSGT 68
Query: 89 DYSLEIYPVMLDDDARYQCQVS---TGILGEPA---IRSRFATLTVLV-PPDPPRIVQGD 141
D++L I + +D A Y CQ S + G+ I+ A +V + PP ++ G
Sbjct: 69 DFTLTISSLQPEDFATYYCQQSYSTSHTFGQGTKLEIKRTVAAPSVFIFPPSDEQLKSGT 128
Query: 142 TLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRRTTVKSTL 198
+ C+ N P A++ W + + S VTE+ S D ++ STL
Sbjct: 129 A---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY-SLSSTL 178
Query: 199 VLTPKKEHHNTTFTCQ 214
L+ + + C+
Sbjct: 179 TLSKADYEKHKVYACE 194
>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 = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 80/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG RVT+ CR D + W + P + SG R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDVNTAVAWYQQKPGKAPKLLIYSASFLESGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQV------STGILGEPAIRSRFATLTVLV-PP 132
+ GS D++L I + +D A Y CQ + G + I+ A +V + PP
Sbjct: 63 S--GSRSGTDFTLTISSLQPEDFATYYCQQHYTTPPTFGQGTKVEIKRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|3RY5|A Chain A, Three-Dimensional Structure Of Glycosylated Fcgammariia
(High- Responder Polymorphism)
Length = 170
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 41/172 (23%), Positives = 66/172 (38%), Gaps = 35/172 (20%)
Query: 547 FRARPYSVQVDRGAGVNLLCDVDGNPAPE---ITWIHEDSDKVVGNSPNLTLLMTSDDLA 603
+ P + V + V L C G +PE I W H + P+ ++D +
Sbjct: 7 LKLEPPWINVLQEDSVTLTCQ--GARSPESDSIQWFHNGNLIPTHTQPSYRFKANNND-S 63
Query: 604 GRYYCKASVMGFPEVGAEATVYLKGRPTIISHRTQFGIP------GDTARVECSAFSIPP 657
G Y C+ + V+L T++S P G+T + C ++ P
Sbjct: 64 GEYTCQTG-----QTSLSDPVHL----TVLSEWLVLQTPHLEFQEGETIMLRCHSWKDKP 114
Query: 658 PEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRHDHFGVYNCS 709
KVT+ G+ S +S L DP T I ++ H H G Y+C+
Sbjct: 115 LVKVTFFQNGK------SQKFSRL-DP-------TFSIPQANHSHSGDYHCT 152
>pdb|3GK8|L Chain L, X-Ray Crystal Structure Of The Fab From Mab 14, Mouse
Antibody Against Canine Parvovirus
Length = 214
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 49/194 (25%), Positives = 78/194 (40%), Gaps = 31/194 (15%)
Query: 41 VGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNL-SGFDRYAMI-----GSDEEGDYSLE 93
VG RV++ C+ D L W + P + S +RY + S D++
Sbjct: 15 VGDRVSITCKASQDVNTALAWYQQIPGQSPKLLIYSASNRYTGVPDRFTASGSGTDFTFT 74
Query: 94 IYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQGDTLYTT 146
I V +D A Y CQ + G + I+ A TV + PP ++ G
Sbjct: 75 ISSVQAEDLALYYCQQHYTTPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGA---- 130
Query: 147 EDREIELECISANGKPP-AEITW-IDGT---GTVMSNVRVTEEASVDGRRTTVKSTLVLT 201
+ C N P + W IDG G V+++ T + S D + + STL LT
Sbjct: 131 -----SVVCFLNNFYPKDINVKWAIDGAERAGGVLNSF--TGQDSKDSTYS-MSSTLTLT 182
Query: 202 PKKEHHNTTFTCQA 215
+ + ++TC+A
Sbjct: 183 KDEYERHASYTCEA 196
>pdb|3GRW|A Chain A, Fgfr3 In Complex With A Fab
Length = 241
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 35/85 (41%), Gaps = 5/85 (5%)
Query: 34 PQDQTAVVGSRVTLPCRVI-DKTGVLQWTK----DDFALGPHRNLSGFDRYAMIGSDEEG 88
P +QTAV+GS V C+V D +QW K + +GP + I E
Sbjct: 121 PANQTAVLGSDVEFHCKVYSDAQPHIQWLKHVEVNGSKVGPDGTPYVTVLKSWISESVEA 180
Query: 89 DYSLEIYPVMLDDDARYQCQVSTGI 113
D L + V D Y C+ + I
Sbjct: 181 DVRLRLANVSERDGGEYLCRATNFI 205
>pdb|1I7Z|A Chain A, Antibody Gnc92h2 Bound To Ligand
pdb|1I7Z|C Chain C, Antibody Gnc92h2 Bound To Ligand
Length = 219
Score = 30.8 bits (68), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 76/203 (37%), Gaps = 32/203 (15%)
Query: 34 PQDQTAVVGSRVTLPCRV---IDKTGV--LQWTKDDFALGPH------RNLSGFDRYAMI 82
P +G R T+ CR + +G + W + P NL+
Sbjct: 8 PASLAVSLGQRATISCRASKSVSTSGYNYMHWYQQKPGQPPKLLIYLASNLASGVPARFS 67
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLV-PPDP 134
GS D++L I+PV +D A Y C S G + I+ A +V + PP
Sbjct: 68 GSGSGTDFTLNIHPVEEEDAATYYCLYSREFPPWTFGGGTKLEIKRTVAAPSVFIFPPSD 127
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGRR 191
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 128 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 178
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 179 -SLSSTLTLSKADYEKHKVYACE 200
>pdb|2YPV|L Chain L, Crystal Structure Of The Meningococcal Vaccine Antigen
Factor H Binding Protein In Complex With A Bactericidal
Antibody
Length = 214
Score = 30.8 bits (68), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 46/204 (22%), Positives = 74/204 (36%), Gaps = 29/204 (14%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGP-------HRNLSGF-DRYA 80
P A +G RVTL C+ D L W + P +R + G R++
Sbjct: 4 LTQSPSSIYASLGERVTLTCKASQDIHNYLNWFQQKPGKSPKTLIYRANRLVDGVPSRFS 63
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQC----QVSTGILGEPAI---RSRFATLTVLVPPD 133
GS + DYSL I + +D Y C + G + R+ A + PP
Sbjct: 64 GGGSGQ--DYSLTISSLEFEDIGIYYCLQYDEFPPTFGGGTRLEIKRADAAPTVSIFPPS 121
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRR 191
++ G + C N P + W IDG+ + +
Sbjct: 122 SEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSKDST 172
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQA 215
++ STL LT + + ++TC+A
Sbjct: 173 YSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|1AXS|L Chain L, Mature Oxy-Cope Catalytic Antibody With Hapten
pdb|1AXS|A Chain A, Mature Oxy-Cope Catalytic Antibody With Hapten
Length = 211
Score = 30.8 bits (68), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 45/198 (22%), Positives = 72/198 (36%), Gaps = 27/198 (13%)
Query: 34 PQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA------MIGSDE 86
P A +G RVT+ C+ D L W + P + +R GS
Sbjct: 8 PSSMYASLGERVTITCKASQDINSYLNWFQQKPGKSPKTLIYRTNRLVDGVPSRFSGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTVLV-PPDPPRIVQ 139
DYSL I + +D Y C + G + I+ A +V + PP ++
Sbjct: 68 GQDYSLTISSLEYEDMGIYYCLQYDEFPYTFGSGTKLEIKRTVAAPSVFIFPPSDEQLKS 127
Query: 140 GDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRRTTVKS 196
G + C+ N P A++ W N + VTE+ S D ++ S
Sbjct: 128 GTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY-SLSS 177
Query: 197 TLVLTPKKEHHNTTFTCQ 214
TL L+ + + C+
Sbjct: 178 TLTLSKADYEKHKVYACE 195
>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 = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 80/205 (39%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDD--------FALGPHRNLSGFDRY 79
+ P +A +G RV+L CR + +G L W + G + R+
Sbjct: 4 QMTQSPSSLSASLGERVSLTCRASQEISGYLYWLQQKPDGTIKRLIYAGSTLDSGVPKRF 63
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQC-QVST-----GILGEPAIRSRFATLTVLV-PP 132
+ GS DYSL I + +D A Y C Q ++ G + I+ A +V + PP
Sbjct: 64 S--GSRSGSDYSLTISSLESEDFADYYCLQYASYPRTFGGGTKVEIKRTVAAPSVFIFPP 121
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDG 189
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 122 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 172
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 173 TY-SLSSTLTLSKADYEKHKVYACE 196
>pdb|1A5F|L Chain L, Fab Fragment Of A Monoclonal Anti-E-Selectin Antibody
Length = 220
Score = 30.4 bits (67), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 49/208 (23%), Positives = 79/208 (37%), Gaps = 39/208 (18%)
Query: 34 PQDQTAVVGSRVTLPCRVID-------KTGVLQWTKDDFALGPHRNL-------SGF-DR 78
P T G +VT+ C+ + L W + P + SG DR
Sbjct: 8 PSSLTVTTGEKVTMTCKSSQSLLNSGAQKNYLTWYQQKPGQSPKLLIYWASTRESGVPDR 67
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVP 131
+ GS D++L I V +D A Y CQ ++ G + ++ A TV + P
Sbjct: 68 FT--GSGSGTDFTLSISGVQAEDLAVYYCQNNYNYPLTFGAGTKLELKRADAAPTVSIFP 125
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W IDG+ N + D
Sbjct: 126 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDS 174
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 175 KDSTYSMSSTLTLTKDEYERHNSYTCEA 202
>pdb|3VG9|B Chain B, Crystal Structure Of Human Adenosine A2a Receptor With An
Allosteric Inverse-Agonist Antibody At 2.7 A Resolution
pdb|3VGA|B Chain B, Crystal Structure Of Human Adenosine A2a Receptor With An
Allosteric Inverse-Agonist Antibody At 3.1 A Resolution
Length = 214
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 50/200 (25%), Positives = 76/200 (38%), Gaps = 29/200 (14%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPH------RNLSGFDRYAMIGSDE 86
P +A VG VT+ CR + L W + P NL+ GS
Sbjct: 8 PASLSASVGDTVTITCRASEFIYSSLTWYQQKQGGSPQLLVYAATNLADAVPSRFSGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQ---VSTGILG---EPAIRSRFATLTV-LVPPDPPRIVQ 139
+SL+I + +D Y CQ ST G + I+ A TV + PP ++
Sbjct: 68 GTQFSLKINRLQPEDFGTYYCQHFYGSTWAFGGGTKLEIKRADAAPTVSIFPPSSEQLTS 127
Query: 140 GDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VK 195
G + C N P + W IDG+ N + D + +T +
Sbjct: 128 GGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKDSTYSMS 176
Query: 196 STLVLTPKKEHHNTTFTCQA 215
STL LT + + ++TC+A
Sbjct: 177 STLTLTKDEYERHNSYTCEA 196
>pdb|1BBD|L Chain L, Three Dimensional Structure Of The Fab Fragment Of A
Neutralizing Antibody To Human Rhinovirus Serotype 2
pdb|1A3R|L Chain L, Fab Fragment (Antibody 8f5) Complexed With Peptide From
Human Rhinovirus (Serotype 2) Viral Capsid Protein Vp2
(Residues 156-170)
Length = 220
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 49/208 (23%), Positives = 79/208 (37%), Gaps = 39/208 (18%)
Query: 34 PQDQTAVVGSRVTLPCRVID-------KTGVLQWTKDDFALGPHRNL-------SGF-DR 78
P T G +VT+ C+ + L W + P + SG DR
Sbjct: 8 PSSLTVTTGEKVTMTCKSSQSLLNSRTQKNYLTWYQQKPGQSPKLLIYWASTRESGVPDR 67
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVP 131
+ GS D++L I V +D A Y CQ ++ G + ++ A TV + P
Sbjct: 68 FT--GSGSGTDFTLSISGVQAEDLAVYYCQNNYNYPLTFGAGTKLELKRADAAPTVSIFP 125
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W IDG+ N + D
Sbjct: 126 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDS 174
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 175 KDSTYSMSSTLTLTKDEYERHNSYTCEA 202
>pdb|2ARJ|L Chain L, Cd8alpha-Alpha In Complex With Yts 105.18 Fab
pdb|2ARJ|A Chain A, Cd8alpha-Alpha In Complex With Yts 105.18 Fab
Length = 211
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 51/206 (24%), Positives = 74/206 (35%), Gaps = 43/206 (20%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGP--------HRNLSGFDRYAMIGS 84
P G RVTL C+ + W + P +R DR+ G
Sbjct: 8 PSSLAVSAGERVTLNCKASQNVRNNIAWYQQKPGQSPKLLIYYASYRYTGVPDRFT--GD 65
Query: 85 DEEGDYSLEIYPVMLDDDARYQCQVSTGILGEP----------AIRSRFATLTVLVPPDP 134
D++L I V DD A Y CQ I P IR+ A + PP
Sbjct: 66 GFGTDFTLAINSVQADDAAFYYCQ---RIYNSPYTFGAGTKLELIRADAAPTVSIFPPSM 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITW-IDGT----GTVMSNVRVTEEASVD 188
++ G + C N P + W IDG+ G + S VT++ S D
Sbjct: 123 EQLTSGGA---------SVVCFVNNFYPRDISVKWKIDGSEQRDGVLDS---VTDQDSKD 170
Query: 189 GRRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL LT + + +TC+
Sbjct: 171 STY-SMSSTLSLTKVEYERHNLYTCE 195
>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 = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 47/206 (22%), Positives = 75/206 (36%), Gaps = 33/206 (16%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPH-------RNLSGF-DRYA 80
P + G V+L CR + L W + P +++SG R++
Sbjct: 4 LTQSPATLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYASQSISGIPSRFS 63
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPD 133
GS D++L I V +D Y CQ S G R+ A + PP
Sbjct: 64 --GSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRR 191
++ G + C N P + W IDG+ N + D +
Sbjct: 122 SEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKD 170
Query: 192 TT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 171 STYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|3RVW|C Chain C, Crystal Structure Of Der P 1 Complexed With Fab 4c1
Length = 212
Score = 30.4 bits (67), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 47/202 (23%), Positives = 75/202 (37%), Gaps = 33/202 (16%)
Query: 34 PQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGS 84
P A +G RVT+ C+ D L W + +R ++G R++ GS
Sbjct: 8 PFSMYATLGERVTITCKASQDIYSYLSWLQQKPGKSLKTLIYRANRLITGVPSRFSGSGS 67
Query: 85 DEEGDYSLEIYPVMLDDDARYQC-------QVSTGILGEPAIRSRFATLTVLVPPDPPRI 137
+ DYSL I + +D Y C G R+ A + PP ++
Sbjct: 68 GQ--DYSLTISSLEYEDMGIYYCLQYDEFPYTFGGGTKLEMKRADAAPTVSIFPPSSEQL 125
Query: 138 VQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT-- 193
G + C N P + W IDG+ N + D + +T
Sbjct: 126 TSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYS 174
Query: 194 VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 175 MSSTLTLTKDEYERHNSYTCEA 196
>pdb|3RVT|C Chain C, Structure Of 4c1 Fab In P212121 Space Group
pdb|3RVU|C Chain C, Structure Of 4c1 Fab In C2221 Space Group
pdb|3RVV|C Chain C, Crystal Structure Of Der F 1 Complexed With Fab 4c1
pdb|3RVX|C Chain C, Crystal Structure Of Der P 1 Complexed With Fab 4c1
Length = 213
Score = 30.4 bits (67), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 47/202 (23%), Positives = 75/202 (37%), Gaps = 33/202 (16%)
Query: 34 PQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDD-------FALGPHRNLSGF-DRYAMIGS 84
P A +G RVT+ C+ D L W + +R ++G R++ GS
Sbjct: 8 PFSMYATLGERVTITCKASQDIYSYLSWLQQKPGKSLKTLIYRANRLITGVPSRFSGSGS 67
Query: 85 DEEGDYSLEIYPVMLDDDARYQC-------QVSTGILGEPAIRSRFATLTVLVPPDPPRI 137
+ DYSL I + +D Y C G R+ A + PP ++
Sbjct: 68 GQ--DYSLTISSLEYEDMGIYYCLQYDEFPYTFGGGTKLEMKRADAAPTVSIFPPSSEQL 125
Query: 138 VQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT-- 193
G + C N P + W IDG+ N + D + +T
Sbjct: 126 TSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYS 174
Query: 194 VKSTLVLTPKKEHHNTTFTCQA 215
+ STL LT + + ++TC+A
Sbjct: 175 MSSTLTLTKDEYERHNSYTCEA 196
>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 = 30.4 bits (67), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 47/206 (22%), Positives = 75/206 (36%), Gaps = 33/206 (16%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPH-------RNLSGF-DRYA 80
P + G V+L CR + L W + P +++SG R++
Sbjct: 5 LTQSPATLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYASQSISGIPSRFS 64
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPD 133
GS D++L I V +D Y CQ S G R+ A + PP
Sbjct: 65 --GSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIKRADAAPTVSIFPPS 122
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRR 191
++ G + C N P + W IDG+ N + D +
Sbjct: 123 SEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKD 171
Query: 192 TT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 172 STYSMSSTLTLTKDEYERHNSYTCEA 197
>pdb|3GI8|L Chain L, Crystal Structure Of Apct K158a Transporter Bound To 7f11
Monoclonal Fab Fragment
pdb|3GI9|L Chain L, Crystal Structure Of Apct Transporter Bound To 7f11
Monoclonal Fab Fragment
Length = 220
Score = 30.4 bits (67), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 49/208 (23%), Positives = 78/208 (37%), Gaps = 39/208 (18%)
Query: 34 PQDQTAVVGSRVTLPCR-------VIDKTGVLQWTKDDFALGPH--------RNLSGFDR 78
P VG +VTL C+ ++ L W + P R DR
Sbjct: 8 PSSLAMSVGQKVTLSCKSSQSLLNTSNQKNYLAWYQQKPGQSPKLLVYFASTRESGVPDR 67
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVP 131
+ IGS D++L I V +D + + CQ + G + I+ A TV + P
Sbjct: 68 F--IGSGSGTDFTLTISSVQAEDLSDFFCQQHYSTPYTFGGGTKLEIKRADAAPTVSIFP 125
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W IDG+ N + D
Sbjct: 126 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDS 174
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 175 KDSTYSMSSTLTLTKDEYERHNSYTCEA 202
>pdb|4F8Q|A Chain A, Crystal Structure Of The Human Btn3a2 Ectodomain
Length = 219
Score = 30.4 bits (67), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 54/160 (33%), Gaps = 42/160 (26%)
Query: 39 AVVGSRVTLPCRVI----DKTGVLQWTK----------------DDFALGPHRNLSGFDR 78
A+VG LPC + +T L+W +D P+R + R
Sbjct: 16 AMVGEDADLPCHLFPTMSAETMELKWVSSSLRQVVNVYADGKEVEDRQSAPYRGRTSILR 75
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPA-IRSRFATLTVLVPPDPPRI 137
+ G +L I+ V D +Y C G E A + + A L
Sbjct: 76 DGITA----GKAALRIHNVTASDSGKYLCYFQDGDFYEKALVELKVAAL----------- 120
Query: 138 VQGDTLYTT----EDREIELECISANGKPPAEITWIDGTG 173
G L+ ED I LEC S P +I W + G
Sbjct: 121 --GSNLHVEVKGYEDGGIHLECRSTGWYPQPQIQWSNAKG 158
>pdb|1QNZ|L Chain L, Nmr Structure Of The 0.5b Anti-Hiv Antibody Complex With
The Gp120 V3 Peptide
Length = 112
Score = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 32/88 (36%), Gaps = 11/88 (12%)
Query: 34 PQDQTAVVGSRVTLPCRV-----IDKTGVLQWTKDDFALGPH------RNLSGFDRYAMI 82
P +G R T+ C+ D + W + P NL
Sbjct: 8 PASLAVSLGQRATISCKASQSVDYDGDSYMNWYQQKPGQPPKLLIYAASNLESGIPARFS 67
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVS 110
GS D++L I+PV +D A Y CQ S
Sbjct: 68 GSGSRTDFTLNIHPVEEEDAATYYCQQS 95
>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 = 30.4 bits (67), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 19/147 (12%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGIL---GEPAI---RSRFATLTVLV 130
DR+ GS D++L I V +D A Y C+ S + G + R+ A +
Sbjct: 66 DRFT--GSGSGTDFTLTISSVQAEDLAVYYCKQSYNLWTFGGGTKLEIKRADAAPTVSIF 123
Query: 131 PPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVD 188
PP ++ G + C N P + W IDG+ + +
Sbjct: 124 PPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSERAAGVLNSWTDQDSK 174
Query: 189 GRRTTVKSTLVLTPKKEHHNTTFTCQA 215
++ STL LT + + ++TC+A
Sbjct: 175 DSTYSMSSTLTLTKDEYERHNSYTCEA 201
>pdb|4FQJ|L Chain L, Influenza BFLORIDA42006 HEMAGGLUTININ FAB CR8071 COMPLEX
Length = 216
Score = 30.4 bits (67), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 46/204 (22%), Positives = 78/204 (38%), Gaps = 23/204 (11%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPCRVIDK---TGVLQWTKDDFALGP-------HRNLSGF- 76
Q +P + G RVT+ C T + W + P ++ SG
Sbjct: 1 QSVLTQPPSASGTPGQRVTISCSGSSSNIGTNYVYWYQQFPGTAPKLLIYRSYQRPSGVP 60
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ S SL I + +D+A Y C L + + LTVL P+
Sbjct: 61 DRFSGSKSGSSA--SLAISGLQSEDEADYYCATWDDSL-DGWVFGGGTKLTVL---RQPK 114
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 115 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 174
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 175 KYAASSYLSLTPEQWKSHRSYSCQ 198
>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 = 30.4 bits (67), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 49/213 (23%), Positives = 81/213 (38%), Gaps = 39/213 (18%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-------DKTGVLQWTKDDFALGPHRNL-------S 74
+ P VG +VT+ C+ ++ L W + P + S
Sbjct: 3 EMTQSPSSLGVSVGEKVTMSCKSSQNLLYSSNQKNYLAWYQQKPGQSPKLLIYWASTRES 62
Query: 75 GF-DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLT 127
G DR+ GS D++L I V +D A Y CQ ++ G + ++ A T
Sbjct: 63 GVPDRFTGTGSGT--DFTLTISSVKAEDLAVYYCQQYYSYPLTFGAGTKLELKRADAAPT 120
Query: 128 V-LVPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEE 184
V + PP ++ G + C N P + W IDG+ N +
Sbjct: 121 VSIFPPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSW 169
Query: 185 ASVDGRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
D + +T + STL LT + + ++TC+A
Sbjct: 170 TDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEA 202
>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 = 30.4 bits (67), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 31/140 (22%), Positives = 57/140 (40%), Gaps = 16/140 (11%)
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQC--QVSTGILGEPAIRSRFATLTVLVPPDPPRIVQG 140
GS +L I ++D+A Y C +S G + L+V P P +
Sbjct: 63 GSSSGTKATLTISGAQVEDEADYYCYSDISNGY----PLFGGGTKLSVGQPKAAPSV--- 115
Query: 141 DTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTV 194
TL+ E++ L C+ ++ P A + W + + + V T + +
Sbjct: 116 -TLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPIKAGVETTTPSKQSNNKYAA 174
Query: 195 KSTLVLTPKKEHHNTTFTCQ 214
S L LTP++ + +++CQ
Sbjct: 175 SSYLSLTPEQWKSHRSYSCQ 194
>pdb|1OAK|L Chain L, Crystal Structure Of The Von Willebrand Factor (Vwf) A1
Domain In Complex With The Function Blocking Nmc-4 Fab
Length = 212
Score = 30.0 bits (66), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 48/209 (22%), Positives = 75/209 (35%), Gaps = 37/209 (17%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDD----------FALGPHRNLSGFD 77
+ P +A +G RVT+ C D L W + + H +
Sbjct: 3 QMTQSPSSLSASLGDRVTISCSASQDINKYLNWYQQKPDGAVKLLIFYTSSLHSGVPS-- 60
Query: 78 RYAMIGSDEEGDYSLEIYPVMLDDDARYQCQ-------VSTGILGEPAIRSRFATLTVLV 130
R++ GS DYSL I + +D A Y CQ G R+ A +
Sbjct: 61 RFS--GSGSGTDYSLTISNLEPEDIATYYCQQYEKLPWTFGGGTKLEVKRADAAPTVSIF 118
Query: 131 PPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVD 188
PP ++ G + C N P + W ID G+ N + D
Sbjct: 119 PPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQD 167
Query: 189 GRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 168 SKDSTYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|1KB5|L Chain L, Murine T-Cell Receptor Variable DomainFAB COMPLEX
Length = 214
Score = 30.0 bits (66), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 46/205 (22%), Positives = 72/205 (35%), Gaps = 29/205 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPH------RNLSGFDRYAM 81
+ P +A VG VT+ CR L W + P + L
Sbjct: 3 QMTQSPASLSASVGETVTITCRASKNIYSYLAWYQQKQGKSPQLLVYNAKTLGEGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQVSTG----ILGEPAI---RSRFATLTVLVPPDP 134
GS +SL+I + +D Y CQ G G + R+ A + PP
Sbjct: 63 SGSGSGTQFSLKINSLQPEDFGSYYCQHHYGTPYTFGGGTKLEIKRADAAPTVSIFPPSS 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRT 192
++ G + C N P + W IDG+ N + D + +
Sbjct: 123 EQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKDS 171
Query: 193 T--VKSTLVLTPKKEHHNTTFTCQA 215
T + STL LT + + ++TC+A
Sbjct: 172 TYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|1HKL|L Chain L, Free And Liganded Form Of An Esterolytic Catalytic
Antibody
Length = 214
Score = 30.0 bits (66), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 48/204 (23%), Positives = 78/204 (38%), Gaps = 29/204 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDD-------FALGPHRNLSGFDRYA 80
+ P +A +G RV+L CR + G L W + SG +
Sbjct: 3 QMTQSPSSLSASLGERVSLTCRASQEINGYLGWLQQKPDGTIKRLIYAASTLHSGVPK-R 61
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQC-QVST-----GILGEPAIRSRFATLTVLV-PPD 133
GS DYSL I + +D A Y C Q ++ G + I+ A +V + PP
Sbjct: 62 FSGSRSGSDYSLTISSLESEDFADYYCLQYASYPRTFGGGTKVEIKRTVAAPSVFIFPPS 121
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGR 190
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 122 DEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDST 172
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 173 Y-SLSSTLTLSKADYEKHKVYACE 195
>pdb|3CX2|A Chain A, Crystal Structure Of The C1 Domain Of Cardiac Isoform Of
Myosin Binding Protein-C At 1.3a
pdb|2V6H|A Chain A, Crystal Structure Of The C1 Domain Of Cardiac Myosin
Binding Protein-C
Length = 108
Score = 30.0 bits (66), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 38/92 (41%), Gaps = 15/92 (16%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV----IDKTGVLQWTKDDFA-----LGPHRNL-SGFDRY 79
F M PQD VG +T RV + K V++W K + +G H L +DR
Sbjct: 7 FVMRPQDGEVTVGGSITFSARVAGASLLKPPVVKWFKGKWVDLSSKVGQHLQLHDSYDRA 66
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVST 111
+ + + L I Y+C+VST
Sbjct: 67 SKVYL-----FELHITDAQPAFTGSYRCEVST 93
>pdb|3NCY|W Chain W, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
pdb|3NCY|S Chain S, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
Length = 211
Score = 30.0 bits (66), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 43/198 (21%), Positives = 69/198 (34%), Gaps = 25/198 (12%)
Query: 34 PQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPHRNLSGFDRYA------MIGSDEE 87
P +A G +VT+ C + W + P R + + A GS
Sbjct: 8 PAIMSASPGEKVTMTCSASSSVNYMHWYQQKSGTSPKRWIYDTSKLASGVPARFSGSGSG 67
Query: 88 GDYSLEIYPVMLDDDARYQCQVST-------GILGEPAIRSRFATLTVLVPPDPPRIVQG 140
YSL I + +D A Y CQ + G R+ A + PP ++ G
Sbjct: 68 TSYSLTISSMEAEDAATYYCQQWSYNPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 127
Query: 141 DTLYTTEDREIELECISANGKPP-AEITWIDGTGTVMSNVRVTEEASVDGRRTT--VKST 197
+ C N P + W G+ N + D + +T + ST
Sbjct: 128 GA---------SVVCFLNNFYPKDINVKWKKIDGSERQNGVLNSWTDQDSKDSTYSMSST 178
Query: 198 LVLTPKKEHHNTTFTCQA 215
L LT + + ++TC+A
Sbjct: 179 LTLTKDEYERHNSYTCEA 196
>pdb|1GAF|L Chain L, 48g7 Hybridoma Line Fab Complexed With Hapten 5-(Para-
Nitrophenyl Phosphonate)-Pentanoic Acid
Length = 214
Score = 30.0 bits (66), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 48/204 (23%), Positives = 78/204 (38%), Gaps = 29/204 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDD-------FALGPHRNLSGFDRYA 80
+ P +A +G RV+L CR + G L W + SG +
Sbjct: 3 QMTQSPSSLSASLGERVSLTCRASQEINGYLGWLQQKPDGTIKRLIYAASTLHSGVPK-R 61
Query: 81 MIGSDEEGDYSLEIYPVMLDDDARYQC-QVST-----GILGEPAIRSRFATLTVLV-PPD 133
GS DYSL I + +D A Y C Q ++ G + I+ A +V + PP
Sbjct: 62 FSGSRSGSDYSLTISSLESEDFADYYCLQYASYPRTFGGGTKVEIKRTVAAPSVFIFPPS 121
Query: 134 PPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDGR 190
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 122 DEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDST 172
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 173 Y-SLSSTLTLSKADYEKHKVYACE 195
>pdb|1C5D|L Chain L, The Crystal Structure Of The Fab Fragment Of A Rat
Monoclonal Antibody Against The Main Immunogenic Region
Of The Human Muscle Acetylcholine Receptor
pdb|1C5D|A Chain A, The Crystal Structure Of The Fab Fragment Of A Rat
Monoclonal Antibody Against The Main Immunogenic Region
Of The Human Muscle Acetylcholine Receptor
Length = 213
Score = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 51/209 (24%), Positives = 80/209 (38%), Gaps = 40/209 (19%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYAMI----- 82
+ P +A +G +VT+ C+ D + W + P + + RY I
Sbjct: 3 QMTQSPPSLSASLGDKVTITCQASQDINKYIAWYQQKPGKAPRQLI----RYTSILVLGT 58
Query: 83 -----GSDEEGDYSLEIYPVMLDDDARYQC-----QVSTGILGEPAIRSRFATLTV-LVP 131
GS D+S I V +D A Y C + G + I+ A TV + P
Sbjct: 59 PSRFSGSGSGRDFSFSISNVASEDIASYYCLQYGNLYTFGAGTKLEIKRADAAPTVSIFP 118
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKP-PAEITW-IDGT----GTVMSNVRVTEEA 185
P ++ G + C+ N P + W IDGT G + S VT++
Sbjct: 119 PSTEQLATGGA---------SVVCLMNNFYPRDISVKWKIDGTERRDGVLDS---VTDQD 166
Query: 186 SVDGRRTTVKSTLVLTPKKEHHNTTFTCQ 214
S D ++ STL LT + +TC+
Sbjct: 167 SKDSTY-SMSSTLSLTKADYESHNLYTCE 194
>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 = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 79/205 (38%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG R+T+ CR T L W + P + SG R+
Sbjct: 3 QLTQSPSSLSASVGDRITITCRASQGVTSALAWYRQKPGSPPQLLIYDASSLESGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQV------STGILGEPAIRSRFATLTVLV-PP 132
+ GS E ++L I + +D A Y CQ + G +R A +V + PP
Sbjct: 63 SGSGSGTE--FTLTISTLRPEDFATYYCQQLHFYPHTFGGGTRVDVRRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|4FQK|F Chain F, Influenza BBRISBANE602008 HEMAGGLUTININ FAB CR8059 COMPLEX
pdb|4FQK|L Chain L, Influenza BBRISBANE602008 HEMAGGLUTININ FAB CR8059 COMPLEX
Length = 216
Score = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 46/204 (22%), Positives = 77/204 (37%), Gaps = 23/204 (11%)
Query: 28 QKFAMEPQDQTAVVGSRVTLPCRVIDK---TGVLQWTKDDFALGP-------HRNLSGF- 76
Q +P + G RVT+ C T + W + P ++ SG
Sbjct: 1 QSVLTQPPSASGTPGQRVTISCSGSSSNIGTNYVYWYQQFPGTAPKLLIYRSYQRPSGVP 60
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPR 136
DR++ S SL I + +D+A Y C L + LTVL P+
Sbjct: 61 DRFSGSKSGSSA--SLAISGLQSEDEADYYCATWDDSLNG-WVFGGGTKLTVL---RQPK 114
Query: 137 IVQGDTLYTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGR 190
TL+ E++ L C+ ++ P A + W + V + V T +
Sbjct: 115 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 174
Query: 191 RTTVKSTLVLTPKKEHHNTTFTCQ 214
+ S L LTP++ + +++CQ
Sbjct: 175 KYAASSYLSLTPEQWKSHRSYSCQ 198
>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 = 30.0 bits (66), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 50/211 (23%), Positives = 80/211 (37%), Gaps = 38/211 (18%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVI-------DKTGVLQWTKDDFALGPHRNL-------SG 75
+ P VG +VT+ C+ ++ L W + P + SG
Sbjct: 4 MSQSPSSLVVSVGEKVTMSCKSSQSLLYSSNQKNFLAWYQQKPGQSPKLLIYWASTRESG 63
Query: 76 F-DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQV-----STGILGEPAIRSRFATLTV- 128
DR+ GS D++L I V +D A Y CQ + G + I+ A TV
Sbjct: 64 VPDRFT--GSGSGTDFTLTISSVKAEDLAVYYCQQYFRYRTFGGGTKLEIKRADAAPTVS 121
Query: 129 LVPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEAS 186
+ PP ++ G + C N P + W IDG+ N +
Sbjct: 122 IFPPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTD 170
Query: 187 VDGRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
D + +T + STL LT + + ++TC+A
Sbjct: 171 QDSKDSTYSMSSTLTLTKDEYERHNSYTCEA 201
>pdb|3FMG|L Chain L, Structure Of Rotavirus Outer Capsid Protein Vp7 Trimer In
Co A Neutralizing Fab
Length = 211
Score = 30.0 bits (66), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 47/205 (22%), Positives = 76/205 (37%), Gaps = 29/205 (14%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPH------RNLSGFDRYAM 81
+ P +A VG VT+ CR + L W + P + L
Sbjct: 3 QMTQSPASLSASVGETVTITCRPSENIYSYLAWYQQKQGKSPQLLVYKAKTLPEGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDP 134
GS +SL+I V +D Y CQ ++ G + ++ A TV + PP
Sbjct: 63 SGSGSGTHFSLKISSVQPEDFGTYYCQHHNGPPLTFGAGTKLELKRADAAPTVSIFPPSS 122
Query: 135 PRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRT 192
++ G + C N P + W IDG+ N + D + +
Sbjct: 123 KQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSKDS 171
Query: 193 T--VKSTLVLTPKKEHHNTTFTCQA 215
T + STL LT + + ++TC+A
Sbjct: 172 TYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|1WTL|A Chain A, Comparison Of Crystal Structures Of Two Homologous
Proteins: Structural Origin Of Altered Domain
Interactions In Immunoglobulin Light Chain Dimers
pdb|1WTL|B Chain B, Comparison Of Crystal Structures Of Two Homologous
Proteins: Structural Origin Of Altered Domain
Interactions In Immunoglobulin Light Chain Dimers
Length = 108
Score = 30.0 bits (66), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 36/89 (40%), Gaps = 11/89 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGF--------DRY 79
+ P +A VG RVT+ CR D T + W + P + G R+
Sbjct: 3 QMTQSPSSLSASVGDRVTITCRASQDITNYVNWFQQRPGQAPKVLIYGASILETGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQ 108
+ GS D++ I + +D A Y CQ
Sbjct: 63 S--GSGSGTDFTFTISSLQPEDIATYYCQ 89
>pdb|3CMO|L Chain L, Hiv Neutralizing Monoclonal Antibody Yz18
pdb|3CMO|X Chain X, Hiv Neutralizing Monoclonal Antibody Yz18
Length = 210
Score = 30.0 bits (66), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 50/193 (25%), Positives = 77/193 (39%), Gaps = 32/193 (16%)
Query: 42 GSRVTLPCRVI-DKTGVLQW-------TKDDFALGPHRNLSGF-DRYAMIGSDEEGDYSL 92
G RVT+ CR D + L W T + R SG R++ S DYSL
Sbjct: 16 GDRVTISCRASQDISNYLNWYQQKPDGTVELLIYYTSRLQSGVPSRFSG--SGSGSDYSL 73
Query: 93 EIYPVMLDDDARYQCQVSTGIL-----GEPAIRSRFATLTV-LVPPDPPRIVQGDTLYTT 146
I ++ +D A Y CQ + + + I+ A TV + PP ++ G
Sbjct: 74 TISNLVPEDIATYYCQQYSKLFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSGGA---- 129
Query: 147 EDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLTP 202
+ C N P + W IDG+ N + D + +T + STL LT
Sbjct: 130 -----SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSMSSTLTLTK 182
Query: 203 KKEHHNTTFTCQA 215
+ + ++TC+A
Sbjct: 183 DEYERHNSYTCEA 195
>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 = 30.0 bits (66), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 79/205 (38%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG R+T+ CR T L W + P + SG R+
Sbjct: 3 QLTQSPSSLSASVGDRITITCRASQGVTSALAWYRQKPGSPPQLLIYDASSLESGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQV------STGILGEPAIRSRFATLTVLV-PP 132
+ GS E ++L I + +D A Y CQ + G +R A +V + PP
Sbjct: 63 SGSGSGTE--FTLTISTLRPEDFATYYCQQLHFYPHTFGGGTRVDVRRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYACE 195
>pdb|3VFG|L Chain L, Crystal Structure Of Monoclonal Anitbody 3f8 Fab Fragment
That Binds To Gd2 Ganglioside
Length = 211
Score = 30.0 bits (66), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 45/190 (23%), Positives = 74/190 (38%), Gaps = 26/190 (13%)
Query: 41 VGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-SGFDRYAMI-----GSDEEGDYSLE 93
G RVT+ C+ + + W + P + S +RY+ + GS ++
Sbjct: 15 AGDRVTITCKASQSVSNDVTWYQQKAGQSPKLLIYSASNRYSGVPDRFTGSGYGTAFTFT 74
Query: 94 IYPVMLDDDARYQCQVSTGILG---EPAIRSRFATLTV-LVPPDPPRIVQGDTLYTTEDR 149
I V +D A Y CQ G + I+ A TV + PP ++ G
Sbjct: 75 ISTVQAEDLAVYFCQQDYSSFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGA------- 127
Query: 150 EIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKSTLVLTPKKE 205
+ C N P + W IDG+ N + D + +T + STL LT +
Sbjct: 128 --SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEY 183
Query: 206 HHNTTFTCQA 215
+ ++TC+A
Sbjct: 184 ERHNSYTCEA 193
>pdb|1FNS|L Chain L, Crystal Structure Of The Von Willebrand Factor (Vwf) A1
Domain I546v Mutant In Complex With The Function
Blocking Fab Nmc4
Length = 214
Score = 30.0 bits (66), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 48/209 (22%), Positives = 75/209 (35%), Gaps = 37/209 (17%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDD----------FALGPHRNLSGFD 77
+ P +A +G RVT+ C D L W + + H +
Sbjct: 3 QMTQSPSSLSASLGDRVTISCSASQDINKYLNWYQQKPDGAVKLLIFYTSSLHSGVPS-- 60
Query: 78 RYAMIGSDEEGDYSLEIYPVMLDDDARYQCQ-------VSTGILGEPAIRSRFATLTVLV 130
R++ GS DYSL I + +D A Y CQ G R+ A +
Sbjct: 61 RFS--GSGSGTDYSLTISNLEPEDIATYYCQQYEKLPWTFGGGTKLEVKRADAAPTVSIF 118
Query: 131 PPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVD 188
PP ++ G + C N P + W ID G+ N + D
Sbjct: 119 PPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQD 167
Query: 189 GRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 168 SKDSTYSMSSTLTLTKDEYERHNSYTCEA 196
>pdb|1O0V|A Chain A, The Crystal Structure Of Ige Fc Reveals An Asymmetrically
Bent Conformation
pdb|1O0V|B Chain B, The Crystal Structure Of Ige Fc Reveals An Asymmetrically
Bent Conformation
Length = 327
Score = 30.0 bits (66), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 151 IELECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNT 209
I+L C+ + P +ITW++ G VM T + +G + +S L L+ K +
Sbjct: 30 IQLLCLVSGYTPGTIQITWLED-GQVMDVDLSTASTTQEGELASTQSELTLSQKHWLSDR 88
Query: 210 TFTCQ 214
T+TCQ
Sbjct: 89 TYTCQ 93
>pdb|2Y7Q|B Chain B, The High-Affinity Complex Between Ige And Its Receptor Fc
Epsilon Ri
pdb|2Y7Q|D Chain D, The High-Affinity Complex Between Ige And Its Receptor Fc
Epsilon Ri
Length = 327
Score = 30.0 bits (66), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 151 IELECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNT 209
I+L C+ + P +ITW++ G VM T + +G + +S L L+ K +
Sbjct: 30 IQLLCLVSGYTPGTIQITWLED-GQVMDVDLSTASTTQEGELASTQSELTLSQKHWLSDR 88
Query: 210 TFTCQ 214
T+TCQ
Sbjct: 89 TYTCQ 93
>pdb|2KDG|A Chain A, Solution Structure Of The 1st Ig Domain Of Myotilin
Length = 100
Score = 30.0 bits (66), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 391 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITW 424
PRF P ++ +D G + V G PAP+++W
Sbjct: 6 PRFIQVPENMSIDEGRFCRMDFKVSGLPAPDVSW 39
Score = 30.0 bits (66), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 19/34 (55%)
Query: 545 PRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITW 578
PRF P ++ +D G + V G PAP+++W
Sbjct: 6 PRFIQVPENMSIDEGRFCRMDFKVSGLPAPDVSW 39
>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 = 30.0 bits (66), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 48/199 (24%), Positives = 75/199 (37%), Gaps = 38/199 (19%)
Query: 42 GSRVTLPCRVID-------KTGVLQWTKDDFALGPHRNL-------SGF-DRYAMIGSDE 86
G +VT+ CR + L W + P + + SG DR+ GS
Sbjct: 16 GEKVTMSCRSSQSLFNSRTRKNYLAWYQQKPGQSPTKLIYWASTRESGVPDRFT--GSGS 73
Query: 87 EGDYSLEIYPVMLDDDARYQCQVSTGILGEPA------IRSRFATLTVLVPPDPPRIVQG 140
D++L I V +D A Y C+ S + A RS A + PP ++ G
Sbjct: 74 GTDFTLTISSVQAEDLAIYYCKQSYDLPTFGAGTKLELKRSDAAPTVSIFPPSSEQLTSG 133
Query: 141 DTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VKS 196
+ C N P + W IDG+ N + D + +T + S
Sbjct: 134 GA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDSKDSTYSMSS 182
Query: 197 TLVLTPKKEHHNTTFTCQA 215
TL LT + + ++TC+A
Sbjct: 183 TLTLTKDEYERHNSYTCEA 201
>pdb|2AJS|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Heptaethylene Glycol
pdb|2AJU|L Chain L, Cyrstal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
pdb|2AJV|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Cocaine
pdb|2AJX|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Transition State Analog
pdb|2AJY|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Ecgonine Methyl Ester And Benzoic Acid
pdb|2AJZ|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Ecgonine Methyl Ester
pdb|2AJZ|A Chain A, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Ecgonine Methyl Ester
pdb|2AK1|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Benzoic Acid
Length = 216
Score = 30.0 bits (66), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 39/150 (26%), Positives = 62/150 (41%), Gaps = 24/150 (16%)
Query: 77 DRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-L 129
DR++ GS D++LEI V +D Y CQ + G + I+ A TV +
Sbjct: 65 DRFS--GSGSGTDFTLEISRVKAEDVGVYYCQQFVEYPFTFGSGTKLEIKRADAAPTVSI 122
Query: 130 VPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASV 187
PP ++ G + C N P + W IDG+ N +
Sbjct: 123 FPPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQ 171
Query: 188 DGRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
D + +T + STL LT + + ++TC+A
Sbjct: 172 DSKDSTYSMSSTLTLTKDEYERHNSYTCEA 201
>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 = 30.0 bits (66), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 48/208 (23%), Positives = 77/208 (37%), Gaps = 39/208 (18%)
Query: 34 PQDQTAVVGSRVTLPCRVID-------KTGVLQWTKDDFALGPH--------RNLSGFDR 78
P T G +VT+ C+ + L W P R DR
Sbjct: 8 PSSLTVTAGEKVTMSCKSSQSLFNSGKRKNFLTWYHQKPGQPPKLLIYWASTRESGVPDR 67
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVP 131
++ GS D++L I V +D A Y CQ ++ G + ++ A TV + P
Sbjct: 68 FS--GSGSGTDFTLTITSVQAEDLAIYYCQNDYSHPLTFGAGTKLELKRADAAPTVSIFP 125
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDG 189
P ++ G + C N P + W IDG+ N + D
Sbjct: 126 PSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--RQNGVLNSWTDQDS 174
Query: 190 RRTT--VKSTLVLTPKKEHHNTTFTCQA 215
+ +T + STL LT + + ++TC+A
Sbjct: 175 KDSTYSMSSTLTLTKDEYERHNSYTCEA 202
>pdb|2WQR|A Chain A, The High Resolution Crystal Structure Of Ige Fc
pdb|2WQR|B Chain B, The High Resolution Crystal Structure Of Ige Fc
Length = 323
Score = 30.0 bits (66), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 2/65 (3%)
Query: 151 IELECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNT 209
I+L C+ + P +ITW++ G VM T + +G + +S L L+ K +
Sbjct: 27 IQLLCLVSGYTPGTIQITWLED-GQVMDVDLSTASTTQEGELASTQSELTLSQKHWLSDR 85
Query: 210 TFTCQ 214
T+TCQ
Sbjct: 86 TYTCQ 90
>pdb|1G84|A Chain A, The Solution Structure Of The C Epsilon2 Domain From Ige
Length = 105
Score = 30.0 bits (66), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 32/65 (49%), Gaps = 2/65 (3%)
Query: 151 IELECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKSTLVLTPKKEHHNT 209
I+L C+ + P ITW++ G VM T + +G + +S L L+ K +
Sbjct: 26 IQLLCLVSGYTPGTINITWLED-GQVMDVDLSTASTTQEGELASTQSELTLSQKHWLSDR 84
Query: 210 TFTCQ 214
T+TCQ
Sbjct: 85 TYTCQ 89
>pdb|1BWW|A Chain A, Bence-Jones Immunoglobulin Rei Variable Portion, T39k
Mutant
pdb|1BWW|B Chain B, Bence-Jones Immunoglobulin Rei Variable Portion, T39k
Mutant
Length = 109
Score = 30.0 bits (66), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 32/87 (36%), Gaps = 7/87 (8%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPH------RNLSGFDRYAM 81
+ P +A VG RVT+ C+ D L W + P NL
Sbjct: 5 QMTQSPSSLSASVGDRVTITCQASQDIIKYLNWYQQKPGKAPKLLIYEASNLQAGVPSRF 64
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQ 108
GS DY+ I + +D A Y CQ
Sbjct: 65 SGSGSGTDYTFTISSLQPEDIATYYCQ 91
>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 = 29.6 bits (65), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 73/203 (35%), Gaps = 28/203 (13%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPH------RNLSGFDRYAMI 82
P +A VG RVT+ C+ D + L W + P NL
Sbjct: 4 LTQSPSSLSASVGDRVTITCQASQDISNYLNWYQHKPGKAPKLLIYTASNLETGVPSRFS 63
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQ-------VSTGILGEPAIRSRFATLTVLV-PPDP 134
G +S I + +D A Y CQ +S G + I+ A +V + PP
Sbjct: 64 GGGSGTHFSFTITSLQPEDAATYFCQQYDNLGDLSFGGGTKVEIKRTVAAPSVFIFPPSD 123
Query: 135 PRIVQGDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRR 191
++ G + C+ N P A++ W N + VTE+ S D
Sbjct: 124 EQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY 174
Query: 192 TTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 175 -SLSSTLTLSKADYEKHKVYACE 196
>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 = 29.6 bits (65), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 47/207 (22%), Positives = 77/207 (37%), Gaps = 34/207 (16%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGF---------DR 78
+ P +A +G +VT+ C+ D + W + GP R L + R
Sbjct: 3 QMTQSPSSLSASLGGKVTITCKASQDINKYIAWYQHKPGKGP-RLLIHYTSTLQPGIPSR 61
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQC------QVSTGILGEPAIRSRFATLTVLVPP 132
++ GS DYS I + +D A Y C + G R+ A + PP
Sbjct: 62 FSGSGSGR--DYSFSISNLEPEDIATYYCLQYDNLRTFGGGTKLEIKRADAAPTVSIFPP 119
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGR 190
++ G + C N P + W IDG+ N + D +
Sbjct: 120 SSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGS--ERQNGVLNSWTDQDSK 168
Query: 191 RTT--VKSTLVLTPKKEHHNTTFTCQA 215
+T + STL LT + + ++TC+A
Sbjct: 169 DSTYSMSSTLTLTKDEYERHNSYTCEA 195
>pdb|1N5Y|L Chain L, Hiv-1 Reverse Transcriptase Crosslinked To Post-
Translocation Aztmp-Terminated Dna (Complex P)
pdb|1N6Q|L Chain L, Hiv-1 Reverse Transcriptase Crosslinked To Pre-
Translocation Aztmp-Terminated Dna (Complex N)
pdb|1T03|L Chain L, Hiv-1 Reverse Transcriptase Crosslinked To Tenofovir
Terminated Template-Primer (Complex P)
pdb|1R0A|L Chain L, Crystal Structure Of Hiv-1 Reverse Transcriptase
Covalently Tethered To Dna Template-primer Solved To 2.8
Angstroms
pdb|3KLH|C Chain C, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Post-Translocation
Aztmp-Terminated Dna (Complex P)
Length = 211
Score = 29.6 bits (65), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 49/200 (24%), Positives = 75/200 (37%), Gaps = 37/200 (18%)
Query: 38 TAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFDRYA----------MIGSDE 86
+A +G RVT+ C D + L W + P + Y GS
Sbjct: 12 SASLGDRVTISCSASQDISSYLNW----YQQKPEGTVKLLIYYTSSLHSGVPSRFSGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQCQ------VSTGILGEPAIRSRFATLTV-LVPPDPPRIVQ 139
DYSL I + +D A Y CQ + G + I+ A TV + PP ++
Sbjct: 68 GTDYSLTISNLEPEDIATYYCQQYSKFPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTS 127
Query: 140 GDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VK 195
G + C N P + W ID G+ N + D + +T +
Sbjct: 128 GGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMS 176
Query: 196 STLVLTPKKEHHNTTFTCQA 215
STL LT + + ++TC+A
Sbjct: 177 STLTLTKDEYERHNSYTCEA 196
>pdb|2F5A|L Chain L, Crystal Structure Of Fab' From The Hiv-1 Neutralizing
Antibody 2f5
Length = 213
Score = 29.6 bits (65), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 79/205 (38%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG R+T+ CR T L W + P + SG R+
Sbjct: 3 QLTQSPSSLSASVGDRITITCRASQGVTSALAWYRQKPGSPPQLLIYDASSLESGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQV------STGILGEPAIRSRFATLTVLV-PP 132
+ GS E ++L I + +D A Y CQ + G +R A +V + PP
Sbjct: 63 SGSGSGTE--FTLTISTLRPEDFATYYCQQLHFYPHTFGGGTRVDVRRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYECE 195
>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 = 29.6 bits (65), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 79/205 (38%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG R+T+ CR T L W + P + SG R+
Sbjct: 3 QLTQSPSSLSASVGDRITITCRASQGVTSALAWYRQKPGSPPQLLIYDASSLESGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQV------STGILGEPAIRSRFATLTVLV-PP 132
+ GS E ++L I + +D A Y CQ + G +R A +V + PP
Sbjct: 63 SGSGSGTE--FTLTISTLRPEDFATYYCQQLHFYPHTFGGGTRVDVRRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYECE 195
>pdb|2RCJ|C Chain C, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|D Chain D, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|G Chain G, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|H Chain H, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|K Chain K, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|L Chain L, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|O Chain O, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|P Chain P, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|S Chain S, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|T Chain T, Solution Structure Of Human Immunoglobulin M
Length = 523
Score = 29.6 bits (65), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 44/197 (22%), Positives = 78/197 (39%), Gaps = 21/197 (10%)
Query: 33 EPQDQTAVVGSRVTLPCRVIDKTGV-LQWTKDDFALGP----HRNL---SGF-DRYAMIG 83
+P + G RVT+ C + + W + + P +R+ SG R++ G
Sbjct: 6 QPPSASGTPGQRVTISCTGTSSGSITVNWYQQLPGMAPKLLIYRDAMRPSGVPTRFS--G 63
Query: 84 SDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAIRSRFATLTVLVPPDPPRIVQGDTL 143
S SL I + +D++ Y C S + +TVL P V TL
Sbjct: 64 SKSGTSASLAISGLEAEDESDYYC-ASWNSSDNSYVFGTGTKVTVLGQPKANPTV---TL 119
Query: 144 YTTEDREIE-----LECISANGKPPA-EITWIDGTGTVMSNVRVTEEASVDGRRTTVKST 197
+ E++ L C+ ++ P A + W V + V T+ + + S
Sbjct: 120 FPPSSEELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSY 179
Query: 198 LVLTPKKEHHNTTFTCQ 214
L LTP++ + +++CQ
Sbjct: 180 LSLTPEQWKSHRSYSCQ 196
>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 = 29.6 bits (65), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 79/205 (38%), Gaps = 31/205 (15%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDK-TGVLQWTKDDFALGPHRNL-------SGF-DRY 79
+ P +A VG R+T+ CR T L W + P + SG R+
Sbjct: 3 QLTQSPSSLSASVGDRITITCRASQGVTSALAWYRQKPGSPPQLLIYDASSLESGVPSRF 62
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQV------STGILGEPAIRSRFATLTVLV-PP 132
+ GS E ++L I + +D A Y CQ + G +R A +V + PP
Sbjct: 63 SGSGSGTE--FTLTISTLRPEDFATYYCQQLHFYPHTFGGGTRVDVRRTVAAPSVFIFPP 120
Query: 133 DPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVDG 189
++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 121 SDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDS 171
Query: 190 RRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 172 TY-SLSSTLTLSKADYEKHKVYECE 195
>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 = 29.6 bits (65), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 45/198 (22%), Positives = 74/198 (37%), Gaps = 25/198 (12%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPHRNL---SGFDR---YAMI 82
+ P +A VG VT+ C+ G L W + P + S +R
Sbjct: 3 QMTQSPSSLSARVGDTVTITCQA---NGYLNWYQQRRGKAPKLLIYDGSKLERGVPARFS 59
Query: 83 GSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAI---RSRFATLTVLVPPDPPRIVQ 139
G +Y+L I + +D A Y CQV I+ + R+ A + PP ++
Sbjct: 60 GRRWGQEYNLTINNLQPEDVATYFCQVYEFIVPGTRLDLKRTVAAPSVFIFPPSDEQLKS 119
Query: 140 GDTLYTTEDREIELECISANGKP-PAEITWIDGTGTVMSNVR--VTEEASVDGRRTTVKS 196
G + C+ N P A++ W N + VTE+ S D ++ S
Sbjct: 120 GTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKDSTY-SLSS 169
Query: 197 TLVLTPKKEHHNTTFTCQ 214
TL L+ + + C+
Sbjct: 170 TLTLSKADYEKHKVYACE 187
>pdb|2YZ8|A Chain A, Crystal Structure Of The 32th Ig-Like Domain Of Human
Obscurin (Kiaa1556)
Length = 103
Score = 29.6 bits (65), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 8/85 (9%)
Query: 641 IPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRH 700
+ G A + C S+ P V W Y + G D YS+ + EG L++R R
Sbjct: 21 LEGGAATLRCVLSSVAAP--VKWCYGNNVLRPG--DKYSLRQ----EGAXLELVVRNLRP 72
Query: 701 DHFGVYNCSVSNPYGSDSVEIMLKP 725
G Y+CS + S ++ + P
Sbjct: 73 QDSGRYSCSFGDQTTSATLTVTALP 97
>pdb|1QP1|A Chain A, Kappa Variable Light Chain
pdb|1QP1|B Chain B, Kappa Variable Light Chain
pdb|1QP1|C Chain C, Kappa Variable Light Chain
Length = 107
Score = 29.6 bits (65), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 39/91 (42%), Gaps = 15/91 (16%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFD---------- 77
+ P +A VG RVT+ C+ D + L W + LG NL +D
Sbjct: 3 QMTQSPSSLSASVGDRVTITCQASQDISDYLIWYQQ--KLGKAPNLLIYDASTLETGVPS 60
Query: 78 RYAMIGSDEEGDYSLEIYPVMLDDDARYQCQ 108
R++ GS E Y+ I + +D A Y CQ
Sbjct: 61 RFSGSGSGTE--YTFTISSLQPEDIATYYCQ 89
>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 = 29.6 bits (65), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 50/221 (22%), Positives = 84/221 (38%), Gaps = 39/221 (17%)
Query: 13 VLLALSMGSLAQYREQKFAMEPQDQTAVVGSRVTLPCRVIDKTGVLQWTKDDFALGPH-- 70
++++ S SLA +K M + +++ SR ++ L W + P
Sbjct: 2 IVMSQSPSSLAVSAGEKVTMSCKSSQSLLNSR--------NRKNYLAWYQQKPGQSPKPL 53
Query: 71 ------RNLSGFDRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILG-----EPAI 119
R DR+ GS D++L I V +D A Y C S + + I
Sbjct: 54 IYWASTRESGVPDRFT--GSGSGTDFTLTISSVQAEDLAVYYCMQSYNLFTFGSGTKLEI 111
Query: 120 RSRFATLTV-LVPPDPPRIVQGDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVM 176
+ A TV + PP ++ G + C N P + W IDG+
Sbjct: 112 KRADAAPTVSIFPPSSEQLTSGGA---------SVVCFLNNFYPKDINVKWKIDGSE--R 160
Query: 177 SNVRVTEEASVDGRRTT--VKSTLVLTPKKEHHNTTFTCQA 215
N + D + +T + STL LT + + ++TC+A
Sbjct: 161 QNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYERHNSYTCEA 201
>pdb|4F9L|A Chain A, Crystal Structure Of The Human Btn3a1 Ectodomain In
Complex With The 20.1 Single Chain Antibody
pdb|4F9L|B Chain B, Crystal Structure Of The Human Btn3a1 Ectodomain In
Complex With The 20.1 Single Chain Antibody
pdb|4F9P|A Chain A, Crystal Structure Of The Human Btn3a1 Ectodomain In
Complex With The 103.2 Single Chain Antibody
pdb|4F9P|B Chain B, Crystal Structure Of The Human Btn3a1 Ectodomain In
Complex With The 103.2 Single Chain Antibody
Length = 220
Score = 29.6 bits (65), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 38/156 (24%), Positives = 56/156 (35%), Gaps = 34/156 (21%)
Query: 39 AVVGSRVTLPCRVI----DKTGVLQWTK----------------DDFALGPHRNLSGFDR 78
A+VG LPC + +T L+W +D P+R + R
Sbjct: 16 AMVGEDADLPCHLFPTMSAETMELKWVSSSLRQVVNVYADGKEVEDRQSAPYRGRTSILR 75
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPA-IRSRFATLTVLVPPDPPRI 137
+ G +L I+ V D +Y C G E A + + A L + D
Sbjct: 76 DGITA----GKAALRIHNVTASDSGKYLCYFQDGDFYEKALVELKVAALGSDLHVD---- 127
Query: 138 VQGDTLYTTEDREIELECISANGKPPAEITWIDGTG 173
V+G +D I LEC S P +I W + G
Sbjct: 128 VKG-----YKDGGIHLECRSTGWYPQPQIQWSNNKG 158
>pdb|4F80|A Chain A, Crystal Structure Of The Human Btn3a1 Ectodomain
Length = 226
Score = 29.6 bits (65), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 38/156 (24%), Positives = 56/156 (35%), Gaps = 34/156 (21%)
Query: 39 AVVGSRVTLPCRVI----DKTGVLQWTK----------------DDFALGPHRNLSGFDR 78
A+VG LPC + +T L+W +D P+R + R
Sbjct: 16 AMVGEDADLPCHLFPTMSAETMELKWVSSSLRQVVNVYADGKEVEDRQSAPYRGRTSILR 75
Query: 79 YAMIGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPA-IRSRFATLTVLVPPDPPRI 137
+ G +L I+ V D +Y C G E A + + A L + D
Sbjct: 76 DGITA----GKAALRIHNVTASDSGKYLCYFQDGDFYEKALVELKVAALGSDLHVD---- 127
Query: 138 VQGDTLYTTEDREIELECISANGKPPAEITWIDGTG 173
V+G +D I LEC S P +I W + G
Sbjct: 128 VKG-----YKDGGIHLECRSTGWYPQPQIQWSNNKG 158
>pdb|2EYR|A Chain A, A Structural Basis For Selection And Cross-species
Reactivity Of The Semi-invariant Nkt Cell Receptor In
Cd1d/glycolipid Recognition
pdb|2EYS|A Chain A, A Structural Basis For Selection And Cross-Species
Reactivity Of The Semi-Invariant Nkt Cell Receptor In
Cd1dGLYCOLIPID RECOGNITION
pdb|2EYT|A Chain A, A Structural Basis For Selection And Cross-Species
Reactivity Of The Semi-Invariant Nkt Cell Receptor In
Cd1dGLYCOLIPID RECOGNITION
pdb|2EYT|C Chain C, A Structural Basis For Selection And Cross-Species
Reactivity Of The Semi-Invariant Nkt Cell Receptor In
Cd1dGLYCOLIPID RECOGNITION
Length = 210
Score = 29.6 bits (65), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 32/95 (33%), Gaps = 9/95 (9%)
Query: 25 YREQKFAMEPQDQTAVVGSRVTLPCR-VIDKTGVLQWTKDDFALGP--------HRNLSG 75
+ + + PQ + G TL C + L+W K D GP N
Sbjct: 1 HMKNQVEQSPQSLIILEGKNCTLQCNYTVSPFSNLRWYKQDTGRGPVSLTIMTFSENTKS 60
Query: 76 FDRYAMIGSDEEGDYSLEIYPVMLDDDARYQCQVS 110
RY + SL I L D A Y C VS
Sbjct: 61 NGRYTATLDADTKQSSLHITASQLSDSASYICVVS 95
>pdb|1BRE|A Chain A, Immunoglobulin Light Chain Protein
pdb|1BRE|B Chain B, Immunoglobulin Light Chain Protein
pdb|1BRE|C Chain C, Immunoglobulin Light Chain Protein
pdb|1BRE|D Chain D, Immunoglobulin Light Chain Protein
pdb|1BRE|E Chain E, Immunoglobulin Light Chain Protein
pdb|1BRE|F Chain F, Immunoglobulin Light Chain Protein
pdb|1B0W|A Chain A, Structural Comparison Of Amyloidogenic Light Chain Dimer
In Two Crystal Forms With Nonamyloidogenic Counterparts
pdb|1B0W|B Chain B, Structural Comparison Of Amyloidogenic Light Chain Dimer
In Two Crystal Forms With Nonamyloidogenic Counterparts
pdb|1B0W|C Chain C, Structural Comparison Of Amyloidogenic Light Chain Dimer
In Two Crystal Forms With Nonamyloidogenic Counterparts
Length = 108
Score = 29.6 bits (65), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 39/91 (42%), Gaps = 15/91 (16%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPHRNLSGFD---------- 77
+ P +A VG RVT+ C+ D + L W + LG NL +D
Sbjct: 3 QMTQSPSSLSASVGDRVTITCQASQDISDYLIWYQQ--KLGKAPNLLIYDASTLETGVPS 60
Query: 78 RYAMIGSDEEGDYSLEIYPVMLDDDARYQCQ 108
R++ GS E Y+ I + +D A Y CQ
Sbjct: 61 RFSGSGSGTE--YTFTISSLQPEDIATYYCQ 89
>pdb|2AVG|A Chain A, Nmr Structure Of Cc1 Domain From Human Cardiac Myosin
Binding Protein C
Length = 120
Score = 29.6 bits (65), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 38/92 (41%), Gaps = 15/92 (16%)
Query: 30 FAMEPQDQTAVVGSRVTLPCRV----IDKTGVLQWTKDDFA-----LGPHRNL-SGFDRY 79
F M PQD VG +T RV + K V++W K + +G H L +DR
Sbjct: 17 FVMRPQDGEVTVGGSITFSARVAGASLLKPPVVKWFKGKWVDLSSKVGQHLQLHDSYDRA 76
Query: 80 AMIGSDEEGDYSLEIYPVMLDDDARYQCQVST 111
+ + + L I Y+C+VST
Sbjct: 77 SKVYL-----FELHITDAQPAFTGGYRCEVST 103
>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 = 29.6 bits (65), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 33/87 (37%), Gaps = 7/87 (8%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPH------RNLSGFDRYAM 81
+ P +A VG RVT+ C+ D + L W + P NL
Sbjct: 5 QMTQSPSSLSASVGDRVTITCQASQDISNYLNWYQQKPGKAPKLLIYDASNLETGVPSRF 64
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQ 108
GS D++ I + +D A Y CQ
Sbjct: 65 SGSGSGTDFTFTISSLQPEDIATYHCQ 91
>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 = 29.6 bits (65), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 33/87 (37%), Gaps = 7/87 (8%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVI-DKTGVLQWTKDDFALGPH------RNLSGFDRYAM 81
+ P +A VG RVT+ C+ D + L W + P NL
Sbjct: 5 QMTQSPSSLSASVGDRVTITCQASQDISNYLNWYQQKPGKAPKLLIYDASNLETGVPSRF 64
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQ 108
GS D++ I + +D A Y CQ
Sbjct: 65 SGSGSGTDFTFTISSLQPEDIATYHCQ 91
>pdb|2E7B|A Chain A, Solution Structure Of The 6th Ig-Like Domain From Human
Kiaa1556
Length = 103
Score = 29.6 bits (65), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 36/85 (42%), Gaps = 8/85 (9%)
Query: 641 IPGDTARVECSAFSIPPPEKVTWSYRGEEIGVGSSDDYSVLEDPLKEGIKSTLIIRESRH 700
+ G A + C S+ P V W Y + G D YS+ + EG L++R R
Sbjct: 21 LEGGAATLRCVLSSVAAP--VKWCYGNNVLRPG--DKYSLRQ----EGAMLELVVRNLRP 72
Query: 701 DHFGVYNCSVSNPYGSDSVEIMLKP 725
G Y+CS + S ++ + P
Sbjct: 73 QDSGRYSCSFGDQTTSATLTVTALP 97
>pdb|3G5Z|A Chain A, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 213
Score = 29.6 bits (65), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 50/200 (25%), Positives = 74/200 (37%), Gaps = 29/200 (14%)
Query: 34 PQDQTAVVGSRVTLPCR----VIDKTGVLQWT--KDDFALGPH-RNLSGFDRYAMIGSDE 86
P + +G V++ C +I G LQ K L H NLS GS
Sbjct: 8 PSSMSVSLGDTVSITCHASQDIISNIGWLQQKPGKSFAGLIYHGTNLSDGVPSRFSGSGS 67
Query: 87 EGDYSLEIYPVMLDDDARYQC----QVSTGILGEPAI---RSRFATLTVLVPPDPPRIVQ 139
DYSL I + +D A Y C Q G + R+ A + PP ++
Sbjct: 68 GADYSLTISSLESEDFADYYCVQYAQFPWTFGGGTKLEIARADAAPTVSIFPPSSEQLTS 127
Query: 140 GDTLYTTEDREIELECISANGKPP-AEITW-IDGTGTVMSNVRVTEEASVDGRRTT--VK 195
G + C N P + W ID G+ N + D + +T +
Sbjct: 128 GGA---------SVVCFLNNFYPKDINVKWKID--GSERQNGVLNSWTDQDSKDSTYSMS 176
Query: 196 STLVLTPKKEHHNTTFTCQA 215
STL LT + + ++TC+A
Sbjct: 177 STLTLTKDEYERHNSYTCEA 196
>pdb|3BKY|L Chain L, Crystal Structure Of Chimeric Antibody C2h7 Fab In Complex
With A Cd20 Peptide
Length = 213
Score = 29.6 bits (65), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 35/128 (27%), Positives = 56/128 (43%), Gaps = 10/128 (7%)
Query: 593 LTLLMTSDDLAGRYYCKASVMGFPEVGAEATVYLK---GRPTI-ISHRTQFGIPGDTARV 648
LT+ + A YYC+ P GA + LK P++ I + + TA V
Sbjct: 72 LTISRVEAEDAATYYCQQWSFNPPTFGAGTKLELKRTVAAPSVFIFPPSDEQLKSGTASV 131
Query: 649 ECSAFSIPPPE-KVTWSYRGEEIGVGSSDDYSVLEDPLKE---GIKSTLIIRESRHDHFG 704
C + P E KV W + G+S + SV E K+ + STL + ++ ++
Sbjct: 132 VCLLNNFYPREAKVQWKV-DNALQSGNSQE-SVTEQDSKDSTYSLSSTLTLSKADYEKHK 189
Query: 705 VYNCSVSN 712
VY C V++
Sbjct: 190 VYACEVTH 197
>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 = 29.6 bits (65), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 45/206 (21%), Positives = 71/206 (34%), Gaps = 33/206 (16%)
Query: 29 KFAMEPQDQTAVVGSRVTLPCRVIDKT-GVLQWTKDDFALGPH------RNLSGFDRYAM 81
+ P + VG VT+ CR + L W + P NL+
Sbjct: 3 QMTQSPASLSVSVGETVTITCRASENIYSNLAWYQQKQGKSPQLLVYAATNLADGVPSRF 62
Query: 82 IGSDEEGDYSLEIYPVMLDDDARYQCQVSTGILGEPAI----------RSRFATLTVLVP 131
GS YSL+I + +D Y CQ G P R+ A + P
Sbjct: 63 SGSGSGTQYSLKINSLQSEDFGSYYCQ---HFWGTPYTFGGGTRLEIKRADAAPTVFIFP 119
Query: 132 PDPPRIVQGDTLYTTEDREIELECISANGKP-PAEITWI--DGTGTVMSNVRVTEEASVD 188
P ++ G + C+ N P A++ W + + S VTE+ S D
Sbjct: 120 PSDEQLKSGTA---------SVVCLLNNFYPREAKVQWKVDNALQSGNSQESVTEQDSKD 170
Query: 189 GRRTTVKSTLVLTPKKEHHNTTFTCQ 214
++ STL L+ + + C+
Sbjct: 171 STY-SLSSTLTLSKADYEKHKVYACE 195
>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 = 29.6 bits (65), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 16/36 (44%)
Query: 389 YGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITW 424
+ PR P + V +G L C +G P P I W
Sbjct: 8 FPPRIVEHPSDLIVSKGEPATLNCKAEGRPTPTIEW 43
Score = 29.6 bits (65), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 16/36 (44%)
Query: 543 YGPRFRARPYSVQVDRGAGVNLLCDVDGNPAPEITW 578
+ PR P + V +G L C +G P P I W
Sbjct: 8 FPPRIVEHPSDLIVSKGEPATLNCKAEGRPTPTIEW 43
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
0.316 0.133 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 31,276,641
Number of Sequences: 62578
Number of extensions: 1356615
Number of successful extensions: 5403
Number of sequences better than 100.0: 607
Number of HSP's better than 100.0 without gapping: 65
Number of HSP's successfully gapped in prelim test: 542
Number of HSP's that attempted gapping in prelim test: 4497
Number of HSP's gapped (non-prelim): 1096
length of query: 1011
length of database: 14,973,337
effective HSP length: 108
effective length of query: 903
effective length of database: 8,214,913
effective search space: 7418066439
effective search space used: 7418066439
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: 56 (26.2 bits)