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= psy15206
(232 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OM5|A Chain A, N-Terminal Fragment Of Human Tax1
Length = 381
Score = 76.3 bits (186), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 54/172 (31%), Positives = 78/172 (45%), Gaps = 16/172 (9%)
Query: 35 CHAEGHPIPTISWRRNFKRLGRLHLAIPYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQL 94
C A H S + F + +L+LA T A P I P + A GQ V L
Sbjct: 174 CLATSHM--DFSTKSVFSKFAQLNLAAEDTRLFA-----PSIKARFPAETYALVGQQVTL 226
Query: 95 ECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRG-- 152
EC A G+P+P I WR+ + ++ P T TLQIP ++ ED G Y C A+N GR
Sbjct: 227 ECFAFGNPVPRIKWRKVDGSLSPQWTT--AEPTLQIPSVSFEDEGTYECEAENSKGRDTV 284
Query: 153 -ARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWAKDGE 203
R ++ + E+ +++ IG L C P P + W ++GE
Sbjct: 285 QGRIIVQAQPEWLKVISDTEADIGSNLR----WGCAAAGKPRPTVRWLRNGE 332
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 43/149 (28%), Positives = 62/149 (41%), Gaps = 26/149 (17%)
Query: 28 GQSVQLECHAEGHPIPTISWRRNFKRL------GRLHLAIPYTSPEAQ------------ 69
GQ V LEC A G+P+P I WR+ L L IP S E +
Sbjct: 221 GQQVTLECFAFGNPVPRIKWRKVDGSLSPQWTTAEPTLQIPSVSFEDEGTYECEAENSKG 280
Query: 70 VDTPP--VILNNSPQL------SVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQT 121
DT +I+ P+ + A G +++ C A G P PT+ W R + +
Sbjct: 281 RDTVQGRIIVQAQPEWLKVISDTEADIGSNLRWGCAAAGKPRPTVRWLRNGEPLASQNRV 340
Query: 122 IFTGSTLQIPRITKEDRGAYYCVAQNGIG 150
L+ +++ ED G Y CVA+N G
Sbjct: 341 EVLAGDLRFSKLSLEDSGMYQCVAENKHG 369
Score = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 32/77 (41%), Gaps = 3/77 (3%)
Query: 90 QSVQLECHAEGHPIPTISWRRENN--AILPNGQTIFTGSTLQIPRITK-EDRGAYYCVAQ 146
+ V L C A P T W+ + P + G L I TK +D G Y C+A
Sbjct: 22 EQVLLACRARASPPATYRWKMNGTEMKLEPGSRHQLVGGNLVIMNPTKAQDAGVYQCLAS 81
Query: 147 NGIGRGARRKIEVKVEF 163
N +G R+ ++ F
Sbjct: 82 NPVGTVVSREAILRFGF 98
>pdb|3LAF|A Chain A, Structure Of Dcc, A Netrin-1 Receptor
Length = 403
Score = 73.2 bits (178), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 49/159 (30%), Positives = 70/159 (44%), Gaps = 33/159 (20%)
Query: 24 VAKEGQSVQLECHAEGHPIPTISWRR----------NFKRLGRLHLAIP---------YT 64
+A EG+ LEC G+P P+ +W R + LG +L I YT
Sbjct: 232 IAIEGKDAVLECCVSGYPPPSFTWLRGEEVIQLRSKKYSLLGGSNLLISNVTDDDSGTYT 291
Query: 65 ------------SPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN 112
S E V PP LN+ L A E ++ EC G P+PT++W +
Sbjct: 292 CVVTYKNENISASAELTVLVPPWFLNHPSNL-YAYESMDIEFECAVSGKPVPTVNWMKNG 350
Query: 113 NAILPNGQ-TIFTGSTLQIPRITKEDRGAYYCVAQNGIG 150
+ ++P+ I GS L+I + K D G Y CVA+N G
Sbjct: 351 DVVIPSDYFQIVGGSNLRILGVVKSDEGFYQCVAENEAG 389
Score = 72.0 bits (175), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 64/263 (24%), Positives = 100/263 (38%), Gaps = 48/263 (18%)
Query: 13 PVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRL--------------GRLH 58
P+ + T+ A G +V L+C G P+PTI W++N + L G L
Sbjct: 121 PLRFLSQTESITAFMGDTVLLKCEVIGDPMPTIHWQKNQQDLNPIPGDSRVVVLPSGALQ 180
Query: 59 L------------------AIPYTSPEAQVDTPP-------VILNNSPQLSVAKEGQSVQ 93
+ A T EA+V + P +A EG+
Sbjct: 181 ISRLQPGDSGVYRCSARNPASTRTGNEAEVRILSDPGLHRQLYFLQRPSNVIAIEGKDAV 240
Query: 94 LECHAEGHPIPTISWRRENNAILPNGQ--TIFTGSTLQIPRITKEDRGAYYCVAQNGIGR 151
LEC G+P P+ +W R I + ++ GS L I +T +D G Y CV
Sbjct: 241 LECCVSGYPPPSFTWLRGEEVIQLRSKKYSLLGGSNLLISNVTDDDSGTYTCVVTYK-NE 299
Query: 152 GARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWAKDGEIVVNDEYH 211
E+ V P + + D++ +C + P P + W K+G++V+ +Y
Sbjct: 300 NISASAELTVLVPPWFLNHPSNLYAYESMDIEFECAVSGKPVPTVNWMKNGDVVIPSDYF 359
Query: 212 SI---SN---FGTSEGTTGSLQC 228
I SN G + G QC
Sbjct: 360 QIVGGSNLRILGVVKSDEGFYQC 382
>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 = 67.4 bits (163), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 41/131 (31%), Positives = 63/131 (48%), Gaps = 2/131 (1%)
Query: 74 PVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-ILPNGQTIFTGSTLQIPR 132
P I P+ A++G +V+LEC A G+P+PTI WRR + I + + L+IP
Sbjct: 204 PKIEVQFPETVPAEKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKSNGILEIPN 263
Query: 133 ITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYP 192
+ED G+Y CVA+N G+ K ++ P I A+ + +C P
Sbjct: 264 FQQEDAGSYECVAENSRGKNV-AKGQLTFYAQPNWVQIINDIHVAMEESVFWECKANGRP 322
Query: 193 HPILYWAKDGE 203
P W K+G+
Sbjct: 323 KPTYRWLKNGD 333
Score = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 51/157 (32%), Positives = 66/157 (42%), Gaps = 33/157 (21%)
Query: 25 AKEGQSVQLECHAEGHPIPTISWRRN----FKRLGRLH-----LAIPYTSPEAQVDTPPV 75
A++G +V+LEC A G+P+PTI WRR R R H L IP E +
Sbjct: 216 AEKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKSNGILEIPNFQQE-DAGSYEC 274
Query: 76 ILNNSPQLSVAKEGQ----------------------SVQLECHAEGHPIPTISWRRENN 113
+ NS +VAK GQ SV EC A G P PT W + +
Sbjct: 275 VAENSRGKNVAK-GQLTFYAQPNWVQIINDIHVAMEESVFWECKANGRPKPTYRWLKNGD 333
Query: 114 AILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIG 150
+L + TL I + D G Y CVA+N G
Sbjct: 334 PLLTRDRIQIEQGTLNITIVNLSDAGMYQCVAENKHG 370
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 44/101 (43%), Gaps = 12/101 (11%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAI---LPNGQTIFTGSTLQIPRITKEDRGAYYCV 144
E + V+L C +G+P P I W+ + + ++ GS L +D G Y C+
Sbjct: 21 EEKKVKLSCEVKGNPKPHIRWKLNGTDVDIGMDFRYSVVDGSLLINNPNKTQDAGTYQCI 80
Query: 145 AQNGIGRGARRKIEVKVEFAPIVTVQ-------STRIGQAL 178
A N G R E K++FA + + S R GQ +
Sbjct: 81 ATNSFGTIVSR--EAKLQFAYLENFKTRTRSTVSVRRGQGM 119
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 55/239 (23%), Positives = 82/239 (34%), Gaps = 53/239 (22%)
Query: 27 EGQSVQLECHAEGHPIPTISWRRNFKRL------------GRLHLAIPYTSPEAQVDTPP 74
E + V+L C +G+P P I W+ N + G L + P + +A T
Sbjct: 21 EEKKVKLSCEVKGNPKPHIRWKLNGTDVDIGMDFRYSVVDGSLLINNPNKTQDA--GTYQ 78
Query: 75 VILNNSPQLSVAKEG--QSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTG------- 125
I NS V++E Q LE + + T+S RR +L G +G
Sbjct: 79 CIATNSFGTIVSREAKLQFAYLE-NFKTRTRSTVSVRRGQGMVLLCGPPPHSGELSYAWI 137
Query: 126 ------------------STLQIPRITKEDRGAYYCVAQNGIGRGA---------RRKIE 158
L I ++ K D G Y CV N + R
Sbjct: 138 FNEYPSYQDNRRFVSQETGNLYIAKVEKSDVGNYTCVVTNTVTNHKVLGPPTPLILRNDG 197
Query: 159 VKVEFAPIVTVQSTRIGQALH-HDMDLDCHIEAYPHPILYWAK-DGEIVVNDEYHSISN 215
V E+ P + VQ A + L+C P P + W + DG+ + SN
Sbjct: 198 VMGEYEPKIEVQFPETVPAEKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKSN 256
>pdb|3KLD|A Chain A, Ptprg Cntn4 Complex
Length = 384
Score = 67.4 bits (163), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 41/131 (31%), Positives = 63/131 (48%), Gaps = 2/131 (1%)
Query: 74 PVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-ILPNGQTIFTGSTLQIPR 132
P I P+ A++G +V+LEC A G+P+PTI WRR + I + + L+IP
Sbjct: 205 PKIEVQFPETVPAEKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKSNGILEIPN 264
Query: 133 ITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYP 192
+ED G+Y CVA+N G+ K ++ P I A+ + +C P
Sbjct: 265 FQQEDAGSYECVAENSRGKNV-AKGQLTFYAQPNWVQIINDIHVAMEESVFWECKANGRP 323
Query: 193 HPILYWAKDGE 203
P W K+G+
Sbjct: 324 KPTYRWLKNGD 334
Score = 62.8 bits (151), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 51/157 (32%), Positives = 66/157 (42%), Gaps = 33/157 (21%)
Query: 25 AKEGQSVQLECHAEGHPIPTISWRRN----FKRLGRLH-----LAIPYTSPEAQVDTPPV 75
A++G +V+LEC A G+P+PTI WRR R R H L IP E +
Sbjct: 217 AEKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKSNGILEIPNFQQE-DAGSYEC 275
Query: 76 ILNNSPQLSVAKEGQ----------------------SVQLECHAEGHPIPTISWRRENN 113
+ NS +VAK GQ SV EC A G P PT W + +
Sbjct: 276 VAENSRGKNVAK-GQLTFYAQPNWVQIINDIHVAMEESVFWECKANGRPKPTYRWLKNGD 334
Query: 114 AILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIG 150
+L + TL I + D G Y CVA+N G
Sbjct: 335 PLLTRDRIQIEQGTLNITIVNLSDAGMYQCVAENKHG 371
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 44/101 (43%), Gaps = 12/101 (11%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAI---LPNGQTIFTGSTLQIPRITKEDRGAYYCV 144
E + V+L C +G+P P I W+ + + ++ GS L +D G Y C+
Sbjct: 22 EEKKVKLSCEVKGNPKPHIRWKLNGTDVDIGMDFRYSVVDGSLLINNPNKTQDAGTYQCI 81
Query: 145 AQNGIGRGARRKIEVKVEFAPIVTVQ-------STRIGQAL 178
A N G R E K++FA + + S R GQ +
Sbjct: 82 ATNSFGTIVSR--EAKLQFAYLENFKTRTRSTVSVRRGQGM 120
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 55/239 (23%), Positives = 82/239 (34%), Gaps = 53/239 (22%)
Query: 27 EGQSVQLECHAEGHPIPTISWRRNFKRL------------GRLHLAIPYTSPEAQVDTPP 74
E + V+L C +G+P P I W+ N + G L + P + +A T
Sbjct: 22 EEKKVKLSCEVKGNPKPHIRWKLNGTDVDIGMDFRYSVVDGSLLINNPNKTQDA--GTYQ 79
Query: 75 VILNNSPQLSVAKEG--QSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTG------- 125
I NS V++E Q LE + + T+S RR +L G +G
Sbjct: 80 CIATNSFGTIVSREAKLQFAYLE-NFKTRTRSTVSVRRGQGMVLLCGPPPHSGELSYAWI 138
Query: 126 ------------------STLQIPRITKEDRGAYYCVAQNGIGRGA---------RRKIE 158
L I ++ K D G Y CV N + R
Sbjct: 139 FNEYPSYQDNRRFVSQETGNLYIAKVEKSDVGNYTCVVTNTVTNHKVLGPPTPLILRNDG 198
Query: 159 VKVEFAPIVTVQSTRIGQALHH-DMDLDCHIEAYPHPILYWAK-DGEIVVNDEYHSISN 215
V E+ P + VQ A + L+C P P + W + DG+ + SN
Sbjct: 199 VMGEYEPKIEVQFPETVPAEKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKSN 257
>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 = 66.2 bits (160), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 66/248 (26%), Positives = 103/248 (41%), Gaps = 45/248 (18%)
Query: 12 PPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRL----------------- 54
PPVI + Q + G SV L+C A G+P P ISW + K++
Sbjct: 429 PPVI-RQAFQEETMEPGPSVFLKCVAGGNPTPEISWELDGKKIANNDRYQVGQYVTVNGD 487
Query: 55 --------------GRLHLAIPYT-------SPEAQVDTPPVILNNSPQLSVAKEGQSVQ 93
G L+ I + S + V P I + VA G+++
Sbjct: 488 VVSYLNITSVHANDGGLYKCIAKSKVGVAEHSAKLNVYGLPYIRQMEKKAIVA--GETLI 545
Query: 94 LECHAEGHPIPTISWRRENNAI-LPNGQTIFTGSTLQIPRITK-EDRGAYYCVAQNGIGR 151
+ C G+PI +I W R+N A+ + Q +F TL I + + D+ Y CVA+N G
Sbjct: 546 VTCPVAGYPIDSIVWERDNRALPINRKQKVFPNGTLIIENVERNSDQATYTCVAKNQEGY 605
Query: 152 GARRKIEVKVEFAPIVTVQSTRIGQA-LHHDMDLDCHIEAYPHPI-LYWAKDGEIVVNDE 209
AR +EV+V P + + G A + + L C + P+ + W DG+ + D
Sbjct: 606 SARGSLEVQVMVLPRIIPFAFEEGPAQVGQYLTLHCSVPGGDLPLNIDWTLDGQAISEDL 665
Query: 210 YHSISNFG 217
+ S G
Sbjct: 666 GITTSRVG 673
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 57/254 (22%), Positives = 91/254 (35%), Gaps = 58/254 (22%)
Query: 12 PPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLHLAIPYTSPEAQVD 71
P V+ + ++ L C A+G+P+P W + + R A+ QV
Sbjct: 247 PKVVSLAKFDMKTYSGSSTMALLCPAQGYPVPVFRWYKFIEGTTRKQ-AVVLNDRVKQVS 305
Query: 72 TPPVI--------------LNNS---------------------PQLSVAKEGQSVQLEC 96
+I +NNS P G+ C
Sbjct: 306 GTLIIKDAVVEDSGKYLCVVNNSVGGESVETVLTVTAPLSAKIDPPTQTVDFGRPAVFTC 365
Query: 97 HAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRK 156
G+PI T+SW ++ AI + S L+I + KED+G Y C +N A
Sbjct: 366 QYTGNPIKTVSWMKDGKAIG------HSESVLRIESVKKEDKGMYQCFVRND-RESAEAS 418
Query: 157 IEVKV--EFAPIVTVQSTRIGQALHHD-------MDLDCHIEAYPHPILYWAKDGEIVVN 207
E+K+ F P V I QA + + L C P P + W DG+ + N
Sbjct: 419 AELKLGGRFDPPV------IRQAFQEETMEPGPSVFLKCVAGGNPTPEISWELDGKKIAN 472
Query: 208 DEYHSISNFGTSEG 221
++ + + + T G
Sbjct: 473 NDRYQVGQYVTVNG 486
Score = 53.9 bits (128), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 52/209 (24%), Positives = 80/209 (38%), Gaps = 38/209 (18%)
Query: 28 GQSVQLECHAEGHPIPTISWRRNFKRLGRLHLAI-------------------PYTSPEA 68
G+ C G+PI T+SW ++ K +G + S EA
Sbjct: 358 GRPAVFTCQYTGNPIKTVSWMKDGKAIGHSESVLRIESVKKEDKGMYQCFVRNDRESAEA 417
Query: 69 QVD-------TPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN--- 118
+ PPVI + Q + G SV L+C A G+P P ISW + I N
Sbjct: 418 SAELKLGGRFDPPVI-RQAFQEETMEPGPSVFLKCVAGGNPTPEISWELDGKKIANNDRY 476
Query: 119 --GQTIFTG----STLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQST 172
GQ + S L I + D G Y C+A++ +G A ++ V P + Q
Sbjct: 477 QVGQYVTVNGDVVSYLNITSVHANDGGLYKCIAKSKVGV-AEHSAKLNVYGLPYIR-QME 534
Query: 173 RIGQALHHDMDLDCHIEAYPHPILYWAKD 201
+ + + C + YP + W +D
Sbjct: 535 KKAIVAGETLIVTCPVAGYPIDSIVWERD 563
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 49/200 (24%), Positives = 74/200 (37%), Gaps = 41/200 (20%)
Query: 4 SPESQVDTPPVILNNSTQLSVAKEGQSVQLECHAEGHPIP-TISWRRNFK---------- 52
S E QV P I+ + + A+ GQ + L C G +P I W + +
Sbjct: 610 SLEVQVMVLPRIIPFAFEEGPAQVGQYLTLHCSVPGGDLPLNIDWTLDGQAISEDLGITT 669
Query: 53 -RLGRLHLAIPYTSPEA-----------------QVDTP-----PVILNNSPQLSVAKEG 89
R+GR + + EA Q TP P P +G
Sbjct: 670 SRVGRRGSVLTIEAVEASHAGNFTCHARNLAGHQQFTTPLNVYVPPRWILEPTDKAFAQG 729
Query: 90 QSVQLECHAEGHPIPTISWRR-------ENNAILPNGQTIFTGSTLQIPRITKEDRGAYY 142
++EC A+G P P ++W++ E + + TL + I K + G Y
Sbjct: 730 SDAKVECKADGFPKPQVTWKKAVGDTPGEYKDLKKSDNIRVEEGTLHVDNIQKTNEGYYL 789
Query: 143 CVAQNGIGRGARRKIEVKVE 162
C A NGIG G I + V+
Sbjct: 790 CEAINGIGSGLSAVIMISVQ 809
Score = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 49/211 (23%), Positives = 78/211 (36%), Gaps = 39/211 (18%)
Query: 28 GQSVQLECHAEGHPIPTISWRRNFKRL--GRLHLAIP-----------------YT---- 64
G+++ + C G+PI +I W R+ + L R P YT
Sbjct: 541 GETLIVTCPVAGYPIDSIVWERDNRALPINRKQKVFPNGTLIIENVERNSDQATYTCVAK 600
Query: 65 ---------SPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIP-TISWRRENNA 114
S E QV P I+ + + A+ GQ + L C G +P I W + A
Sbjct: 601 NQEGYSARGSLEVQVMVLPRIIPFAFEEGPAQVGQYLTLHCSVPGGDLPLNIDWTLDGQA 660
Query: 115 I-----LPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTV 169
I + + GS L I + G + C A+N G + + V P +
Sbjct: 661 ISEDLGITTSRVGRRGSVLTIEAVEASHAGNFTCHARNLAGH-QQFTTPLNVYVPPRWIL 719
Query: 170 QSTRIGQALHHDMDLDCHIEAYPHPILYWAK 200
+ T A D ++C + +P P + W K
Sbjct: 720 EPTDKAFAQGSDAKVECKADGFPKPQVTWKK 750
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 40/166 (24%), Positives = 63/166 (37%), Gaps = 22/166 (13%)
Query: 55 GRLHLAIPYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR---- 110
GRL + P +S P V+ + ++ L C A+G+P+P W +
Sbjct: 234 GRLVITEPISSA-----VPKVVSLAKFDMKTYSGSSTMALLCPAQGYPVPVFRWYKFIEG 288
Query: 111 --ENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVT 168
A++ N + TL I ED G Y CV N +G G + + V AP+
Sbjct: 289 TTRKQAVVLNDRVKQVSGTLIIKDAVVEDSGKYLCVVNNSVG-GESVETVLTVT-APLSA 346
Query: 169 -----VQSTRIGQALHHDMDLDCHIEAYPHPILYWAKDGEIVVNDE 209
Q+ G+ C P + W KDG+ + + E
Sbjct: 347 KIDPPTQTVDFGRPAV----FTCQYTGNPIKTVSWMKDGKAIGHSE 388
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 35/81 (43%), Gaps = 9/81 (11%)
Query: 93 QLECHAEGHPIPTISWRRENNAI---LPNGQTIFTGSTLQIPRITKED------RGAYYC 143
++EC A G+P+P I W R + +P + I + L P ED Y C
Sbjct: 58 EIECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGKLVFPPFRAEDYRQEVHAQVYAC 117
Query: 144 VAQNGIGRGARRKIEVKVEFA 164
+A+N G R + V+ A
Sbjct: 118 LARNQFGSIISRDVHVRAVVA 138
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 13 PVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRN 50
PV L T ++EC A G+P+P I W R+
Sbjct: 39 PVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRS 76
>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 = 64.7 bits (156), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 38/117 (32%), Positives = 57/117 (48%), Gaps = 4/117 (3%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTG--STLQIPRITKEDRGAYYCVAQ 146
G + LEC A G P P I+W ++ LP+ + F L+I +++ED G Y+C+A
Sbjct: 237 GMDLLLECIASGVPTPDIAWYKKGGD-LPSDKAKFENFNKALRITNVSEEDSGEYFCLAS 295
Query: 147 NGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWAKDGE 203
N +G R I V+V+ AP + + A D L C P P + W +GE
Sbjct: 296 NKMG-SIRHTISVRVKAAPYWLDEPKNLILAPGEDGRLVCRANGNPKPTVQWMVNGE 351
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 62/151 (41%), Gaps = 24/151 (15%)
Query: 65 SPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRE----NNAILPNGQ 120
S + ++ PP I S + + ++ +EC A+G+P P+ W R N A P
Sbjct: 8 SIQNELTQPPTITKQSAKDHIVDPRDNILIECEAKGNPAPSFHWTRNSRFFNIAKDPRVS 67
Query: 121 TIFTGSTLQIPRIT----KEDRGAYYCVAQNGIGRGARRKIEVKVEFAPI--------VT 168
TL I + +E G Y C A+N G +I ++V +P+ V
Sbjct: 68 MRRRSGTLVIDFRSGGRPEEYEGEYQCFARNKFGTALSNRIRLQVSKSPLWPKENLDPVV 127
Query: 169 VQSTRIGQALHHDMDLDCH-IEAYPHPILYW 198
VQ G L L C+ P P+++W
Sbjct: 128 VQE---GAPL----TLQCNPPPGLPSPVIFW 151
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 38/156 (24%), Positives = 52/156 (33%), Gaps = 34/156 (21%)
Query: 28 GQSVQLECHAEGHPIPTISWRR-------------NFKRLGRLHLAIPYTSPE------- 67
G + LEC A G P P I+W + NF + R+ S E
Sbjct: 237 GMDLLLECIASGVPTPDIAWYKKGGDLPSDKAKFENFNKALRITNVSEEDSGEYFCLASN 296
Query: 68 ----------AQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAIL- 116
+V P L+ L +A G+ +L C A G+P PT+ W +
Sbjct: 297 KMGSIRHTISVRVKAAPYWLDEPKNLILAP-GEDGRLVCRANGNPKPTVQWMVNGEPLQS 355
Query: 117 --PNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIG 150
PN G T+ R Y C N G
Sbjct: 356 APPNPNREVAGDTIIFRDTQISSRAVYQCNTSNEHG 391
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 15/43 (34%), Positives = 22/43 (51%), Gaps = 1/43 (2%)
Query: 8 QVDTPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRN 50
+V P L+ L +A G+ +L C A G+P PT+ W N
Sbjct: 308 RVKAAPYWLDEPKNLILAP-GEDGRLVCRANGNPKPTVQWMVN 349
>pdb|1CS6|A Chain A, N-terminal Fragment Of Axonin-1 From Chicken
Length = 382
Score = 64.3 bits (155), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 50/172 (29%), Positives = 74/172 (43%), Gaps = 16/172 (9%)
Query: 35 CHAEGHPIPTISWRRNFKRLGRLHLAIPYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQL 94
C A H I I+ + F + +L LA E P I P + A GQ V L
Sbjct: 175 CFATSH-IDFIT-KSVFSKFSQLSLAA-----EDARQYAPSIKAKFPADTYALTGQMVTL 227
Query: 95 ECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRG-- 152
EC A G+P+P I WR+ + + + + + L I + ED G Y C A+N GR
Sbjct: 228 ECFAFGNPVPQIKWRKLDGS--QTSKWLSSEPLLHIQNVDFEDEGTYECEAENIKGRDTY 285
Query: 153 -ARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWAKDGE 203
R I + ++ ++T IG D+ C P P + W +DG+
Sbjct: 286 QGRIIIHAQPDWLDVITDTEADIGS----DLRWSCVASGKPRPAVRWLRDGQ 333
Score = 55.1 bits (131), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 41/154 (26%), Positives = 62/154 (40%), Gaps = 26/154 (16%)
Query: 23 SVAKEGQSVQLECHAEGHPIPTISWRR-----NFKRLGR---LHLAIPYTSPEAQVDTPP 74
+ A GQ V LEC A G+P+P I WR+ K L LH+ E +
Sbjct: 217 TYALTGQMVTLECFAFGNPVPQIKWRKLDGSQTSKWLSSEPLLHIQNVDFEDEGTYECEA 276
Query: 75 ------------VILNNSPQL------SVAKEGQSVQLECHAEGHPIPTISWRRENNAIL 116
+I++ P + A G ++ C A G P P + W R+ +
Sbjct: 277 ENIKGRDTYQGRIIIHAQPDWLDVITDTEADIGSDLRWSCVASGKPRPAVRWLRDGQPLA 336
Query: 117 PNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIG 150
+ +G L+ ++ ED G Y CVA+N G
Sbjct: 337 SQNRIEVSGGELRFSKLVLEDSGMYQCVAENKHG 370
Score = 33.9 bits (76), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 38/94 (40%), Gaps = 6/94 (6%)
Query: 76 ILNNSPQLSVAKEG---QSVQLECHAEGHPIPTISWRRENNAIL--PNGQTIFTGSTLQI 130
+ P ++ EG + V L C A +P T W+ + P+ + L I
Sbjct: 6 VFEEQPAHTLFPEGSAEEKVTLTCRARANPPATYRWKMNGTELKMGPDSRYRLVAGDLVI 65
Query: 131 PR-ITKEDRGAYYCVAQNGIGRGARRKIEVKVEF 163
+ +D G+Y CVA N G R+ ++ F
Sbjct: 66 SNPVKAKDAGSYQCVATNARGTVVSREASLRFGF 99
>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 = 61.2 bits (147), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 41/131 (31%), Positives = 62/131 (47%), Gaps = 12/131 (9%)
Query: 82 QLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI----LPNGQTIFTG--STLQIPRITK 135
Q V EG + E H G P+P +SW R+ I LP Q F+ + L IP +TK
Sbjct: 13 QSVVVLEGSTATFEAHISGFPVPEVSWFRDGQVISTSTLPGVQISFSDGRAKLTIPAVTK 72
Query: 136 EDRGAYYCVAQNGIGRG-ARRKIEVKVEFAP---IVTVQSTRIGQALHHDMDLDCHIEAY 191
+ G Y A NG G+ + ++ VK E AP + +QS + Q + L +
Sbjct: 73 ANSGRYSLKATNGSGQATSTAELLVKAETAPPNFVQRLQSMTVRQG--SQVRLQVRVTGI 130
Query: 192 PHPILYWAKDG 202
P P++ + +DG
Sbjct: 131 PTPVVKFYRDG 141
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 40/173 (23%), Positives = 62/173 (35%), Gaps = 41/173 (23%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLHL---AIPYTSPEAQVDTPPVIL 77
Q V EG + E H G P+P +SW R+ + + L I ++ A++ P V
Sbjct: 13 QSVVVLEGSTATFEAHISGFPVPEVSWFRDGQVISTSTLPGVQISFSDGRAKLTIPAVTK 72
Query: 78 NNSPQLSV----------------------------------AKEGQSVQLECHAEGHPI 103
NS + S+ ++G V+L+ G P
Sbjct: 73 ANSGRYSLKATNGSGQATSTAELLVKAETAPPNFVQRLQSMTVRQGSQVRLQVRVTGIPT 132
Query: 104 PTISWRRENNAILP--NGQTIFTGS--TLQIPRITKEDRGAYYCVAQNGIGRG 152
P + + R+ I + Q G +L I ED G Y A N +GR
Sbjct: 133 PVVKFYRDGAEIQSSLDFQISQEGDLYSLLIAEAYPEDSGTYSVNATNSVGRA 185
>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 = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 41/131 (31%), Positives = 62/131 (47%), Gaps = 12/131 (9%)
Query: 82 QLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI----LPNGQTIFTG--STLQIPRITK 135
Q V EG + E H G P+P +SW R+ I LP Q F+ + L IP +TK
Sbjct: 13 QSVVVLEGSTATFEAHISGFPVPEVSWFRDGQVISTSTLPGVQISFSDGRAKLTIPAVTK 72
Query: 136 EDRGAYYCVAQNGIGRG-ARRKIEVKVEFAP---IVTVQSTRIGQALHHDMDLDCHIEAY 191
+ G Y A NG G+ + ++ VK E AP + +QS + Q + L +
Sbjct: 73 ANSGRYSLKATNGSGQATSTAELLVKAETAPPNFVQRLQSMTVRQG--SQVRLQVRVTGI 130
Query: 192 PHPILYWAKDG 202
P P++ + +DG
Sbjct: 131 PTPVVKFYRDG 141
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 40/173 (23%), Positives = 62/173 (35%), Gaps = 41/173 (23%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLHL---AIPYTSPEAQVDTPPVIL 77
Q V EG + E H G P+P +SW R+ + + L I ++ A++ P V
Sbjct: 13 QSVVVLEGSTATFEAHISGFPVPEVSWFRDGQVISTSTLPGVQISFSDGRAKLTIPAVTK 72
Query: 78 NNSPQLSV----------------------------------AKEGQSVQLECHAEGHPI 103
NS + S+ ++G V+L+ G P
Sbjct: 73 ANSGRYSLKATNGSGQATSTAELLVKAETAPPNFVQRLQSMTVRQGSQVRLQVRVTGIPT 132
Query: 104 PTISWRRENNAILP--NGQTIFTGS--TLQIPRITKEDRGAYYCVAQNGIGRG 152
P + + R+ I + Q G +L I ED G Y A N +GR
Sbjct: 133 PVVKFYRDGAEIQSSLDFQISQEGDLYSLLIAEAYPEDSGTYSVNATNSVGRA 185
>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 = 58.2 bits (139), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 45/151 (29%), Positives = 67/151 (44%), Gaps = 22/151 (14%)
Query: 69 QVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWR-------------RENNAI 115
Q D PP I+ + L V+K G+ L C AEG P PTI W R + +
Sbjct: 5 QEDFPPRIVEHPSDLIVSK-GEPATLNCKAEGRPTPTIEWYKGGERVETDKDDPRSHRML 63
Query: 116 LPNGQTIFTGSTLQI--PRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQS-T 172
LP+G F L+I R ++ D G Y CVA+N +G ++V Q+ +
Sbjct: 64 LPSGSLFF----LRIVHGRKSRPDEGVYVCVARNYLGEAVSHDASLEVAILRDDFRQNPS 119
Query: 173 RIGQALHHDMDLDCH-IEAYPHPILYWAKDG 202
+ A+ ++C +P P + W KDG
Sbjct: 120 DVMVAVGEPAVMECQPPRGHPEPTISWKKDG 150
Score = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 49/186 (26%), Positives = 71/186 (38%), Gaps = 44/186 (23%)
Query: 8 QVDTPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRL------------- 54
Q D PP I+ + + L V+K G+ L C AEG P PTI W + +R+
Sbjct: 5 QEDFPPRIVEHPSDLIVSK-GEPATLNCKAEGRPTPTIEWYKGGERVETDKDDPRSHRML 63
Query: 55 -------------GR---------LHLAIPYTSPEAQVDTPPVI------LNNSPQLSVA 86
GR + +A Y D + +P +
Sbjct: 64 LPSGSLFFLRIVHGRKSRPDEGVYVCVARNYLGEAVSHDASLEVAILRDDFRQNPSDVMV 123
Query: 87 KEGQSVQLECHA-EGHPIPTISWRRENNAILPNGQTI-FTGSTLQIPRITKEDRGAYYCV 144
G+ +EC GHP PTISW+++ + + + I G L I K D G Y CV
Sbjct: 124 AVGEPAVMECQPPRGHPEPTISWKKDGSPLDDKDERITIRGGKLMITYTRKSDAGKYVCV 183
Query: 145 AQNGIG 150
N +G
Sbjct: 184 GTNMVG 189
>pdb|1QZ1|A Chain A, Crystal Structure Of The Ig 1-2-3 Fragment Of Ncam
Length = 291
Score = 57.0 bits (136), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 46/166 (27%), Positives = 71/166 (42%), Gaps = 15/166 (9%)
Query: 64 TSPEAQVDTP---PVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ 120
T EA V+ ++ N+P KEG+ + C PTI W+ + ++
Sbjct: 87 TQSEATVNVKIFQKLMFKNAPTPQEFKEGEDAVIVCDVVSSLPPTIIWKHKGRDVILKKD 146
Query: 121 TIF---TGSTLQIPRITKEDRGAYYCVAQNGIGRGA--RRKIEVKVEFAPIVTVQSTRIG 175
F + + LQI I K D G Y C + + RG + I+V V P V + + +
Sbjct: 147 VRFIVLSNNYLQIRGIKKTDEGTYRCEGR-ILARGEINFKDIQVIVNVPPTVQARQSIVN 205
Query: 176 QA--LHHDMDLDCHIEAYPHPILYWAKDGEIVVN----DEYHSISN 215
L + L C + +P P + W KDGE + N DE H S+
Sbjct: 206 ATANLGQSVTLVCDADGFPEPTMSWTKDGEPIENEEEDDEKHIFSD 251
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 47/97 (48%), Gaps = 7/97 (7%)
Query: 61 IPYTSPEAQVDTPPVI-LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRE----NNAI 115
I + + V+ PP + S + A GQSV L C A+G P PT+SW ++ N
Sbjct: 182 INFKDIQVIVNVPPTVQARQSIVNATANLGQSVTLVCDADGFPEPTMSWTKDGEPIENEE 241
Query: 116 LPNGQTIFT--GSTLQIPRITKEDRGAYYCVAQNGIG 150
+ + IF+ S L I + K D Y C+A+N G
Sbjct: 242 EDDEKHIFSDDSSELTIRNVDKNDEAEYVCIAENKAG 278
Score = 35.8 bits (81), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 1/43 (2%)
Query: 9 VDTPPVI-LNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRN 50
V+ PP + S + A GQSV L C A+G P PT+SW ++
Sbjct: 191 VNVPPTVQARQSIVNATANLGQSVTLVCDADGFPEPTMSWTKD 233
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 36/130 (27%), Positives = 51/130 (39%), Gaps = 16/130 (12%)
Query: 89 GQSVQLECHAEGHPI-PTISWRRENNAIL-PNGQTIFT------GSTLQIPRITKEDRGA 140
G+S C G ISW N L PN Q I STL I +D G
Sbjct: 17 GESKFFLCQVAGDAKDKDISWFSPNGEKLSPNQQRISVVWNDDDSSTLTIYNANIDDAGI 76
Query: 141 YYCV--AQNGIGRGARRKIEV--KVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPIL 196
Y CV A++G A +++ K+ F T Q + G+ D + C + + P +
Sbjct: 77 YKCVVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGE----DAVIVCDVVSSLPPTI 132
Query: 197 YWAKDGEIVV 206
W G V+
Sbjct: 133 IWKHKGRDVI 142
>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 = 53.9 bits (128), Expect = 7e-08, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 46/79 (58%), Gaps = 2/79 (2%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQ-TIFTGSTLQIPRITKEDRGAYYCVAQ 146
EG L C G+P P++SW + ++A+ N + + +L+I + KED G Y CVA+
Sbjct: 114 EGLKAVLPCTTMGNPKPSVSWIKGDSALRENSRIAVLESGSLRIHNVQKEDAGQYRCVAK 173
Query: 147 NGIGRGARRKIEVKVE-FA 164
N +G + ++++VE FA
Sbjct: 174 NSLGTAYSKLVKLEVEVFA 192
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 43/109 (39%), Gaps = 5/109 (4%)
Query: 96 CHAEGHPIPTISWRRENNAILPNGQTIFT----GSTLQIPRITKEDRGAYYCVAQNGIGR 151
C E +P P ISW R N ++ T ++ G L I + D G Y C A NG+G
Sbjct: 29 CAVESYPQPEISWTR-NKILIKLFDTRYSIRENGQLLTILSVEDSDDGIYCCTANNGVGG 87
Query: 152 GARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWAK 200
++V+ P +T + L C P P + W K
Sbjct: 88 AVESCGALQVKMKPKITRPPINVKIIEGLKAVLPCTTMGNPKPSVSWIK 136
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/59 (23%), Positives = 28/59 (47%), Gaps = 1/59 (1%)
Query: 160 KVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWAKDGEIV-VNDEYHSISNFG 217
K+ AP++T + + C +E+YP P + W ++ ++ + D +SI G
Sbjct: 3 KLPKAPVITTPLETVDALVEEVATFMCAVESYPQPEISWTRNKILIKLFDTRYSIRENG 61
>pdb|2JLL|A Chain A, Crystal Structure Of Ncam2 Igiv-Fn3ii
Length = 389
Score = 53.5 bits (127), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 56/125 (44%), Gaps = 12/125 (9%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAI-LPNGQTIFTG----------STLQIPRITKE 136
E V L C AEG PIP I+W+R + G G S+L I +
Sbjct: 14 ENGQVTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHGSSSLHIKDVKLS 73
Query: 137 DRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPIL 196
D G Y C A + IG G ++ + + +E+AP T + +++ C +++ P +
Sbjct: 74 DSGRYDCEAASRIG-GHQKSMYLDIEYAPKFISNQTIYYSWEGNPINISCDVKSNPPASI 132
Query: 197 YWAKD 201
+W +D
Sbjct: 133 HWRRD 137
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 46/172 (26%), Positives = 63/172 (36%), Gaps = 51/172 (29%)
Query: 27 EGQSVQLECHAEGHPIPTISWRRNFKRL----------GR-----------LHLAIPYTS 65
E V L C AEG PIP I+W+R GR LH+ S
Sbjct: 14 ENGQVTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHGSSSLHIKDVKLS 73
Query: 66 PEAQVD--------------------TPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPT 105
+ D P I N + + + EG + + C + +P +
Sbjct: 74 DSGRYDCEAASRIGGHQKSMYLDIEYAPKFISNQT--IYYSWEGNPINISCDVKSNPPAS 131
Query: 106 ISWRRENNAILP-----NGQTIFTGST--LQIPRITKEDRGAYYCVAQNGIG 150
I WRR+ +LP N +T TG L+I + D G Y C A N IG
Sbjct: 132 IHWRRDK-LVLPAKNTTNLKTYSTGRKMILEIAPTSDNDFGRYNCTATNHIG 182
Score = 26.9 bits (58), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 11/42 (26%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 9 VDTPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRN 50
++ P ++N T + + EG + + C + +P +I WRR+
Sbjct: 97 IEYAPKFISNQT-IYYSWEGNPINISCDVKSNPPASIHWRRD 137
>pdb|2XYC|A Chain A, Crystal Structure Of Ncam2 Igiv-Fn3i
Length = 291
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 56/125 (44%), Gaps = 12/125 (9%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAI-LPNGQTIFTG----------STLQIPRITKE 136
E V L C AEG PIP I+W+R + G G S+L I +
Sbjct: 14 ENGQVTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHGSSSLHIKDVKLS 73
Query: 137 DRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPIL 196
D G Y C A + IG G ++ + + +E+AP T + +++ C +++ P +
Sbjct: 74 DSGRYDCEAASRIG-GHQKSMYLDIEYAPKFISNQTIYYSWEGNPINISCDVKSNPPASI 132
Query: 197 YWAKD 201
+W +D
Sbjct: 133 HWRRD 137
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 46/172 (26%), Positives = 63/172 (36%), Gaps = 51/172 (29%)
Query: 27 EGQSVQLECHAEGHPIPTISWRRNFKRL----------GR-----------LHLAIPYTS 65
E V L C AEG PIP I+W+R GR LH+ S
Sbjct: 14 ENGQVTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHGSSSLHIKDVKLS 73
Query: 66 PEAQVD--------------------TPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPT 105
+ D P I N + + + EG + + C + +P +
Sbjct: 74 DSGRYDCEAASRIGGHQKSMYLDIEYAPKFISNQT--IYYSWEGNPINISCDVKSNPPAS 131
Query: 106 ISWRRENNAILP-----NGQTIFTGST--LQIPRITKEDRGAYYCVAQNGIG 150
I WRR+ +LP N +T TG L+I + D G Y C A N IG
Sbjct: 132 IHWRRDK-LVLPAKNTTNLKTYSTGRKMILEIAPTSDNDFGRYNCTATNHIG 182
Score = 26.9 bits (58), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 11/42 (26%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 9 VDTPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRN 50
++ P ++N T + + EG + + C + +P +I WRR+
Sbjct: 97 IEYAPKFISNQT-IYYSWEGNPINISCDVKSNPPASIHWRRD 137
>pdb|2VRA|A Chain A, Drosophila Robo Ig1-2 (Monoclinic Form)
pdb|2VRA|B Chain B, Drosophila Robo Ig1-2 (Monoclinic Form)
pdb|2VRA|C Chain C, Drosophila Robo Ig1-2 (Monoclinic Form)
pdb|2VRA|D Chain D, Drosophila Robo Ig1-2 (Monoclinic Form)
Length = 208
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 47/168 (27%), Positives = 76/168 (45%), Gaps = 27/168 (16%)
Query: 68 AQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ------- 120
Q +P +I P V K+ + L C EG P PTI W ++ + N +
Sbjct: 5 GQYQSPRII--EHPTDLVVKKNEPATLNCKVEGKPEPTIEWFKDGEPVSTNEKKSHRVQF 62
Query: 121 ---TIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKV-----EFAPIVTVQST 172
+F T+Q + ++D G Y+CVA+N +G+ R +++ +F V + T
Sbjct: 63 KDGALFFYRTMQGKK--EQDGGEYWCVAKNRVGQAVSRHASLQIAVLRDDFR--VEPKDT 118
Query: 173 RIGQALHHDMDLDCH-IEAYPHPILYWAKDGEIVVNDEYHSISNFGTS 219
R+ + L+C + P P L W KDG V D+ ++S FG S
Sbjct: 119 RVAKG--ETALLECGPPKGIPEPTLIWIKDG--VPLDDLKAMS-FGAS 161
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 45/186 (24%), Positives = 73/186 (39%), Gaps = 49/186 (26%)
Query: 13 PVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRR-------NFKRLGRLHLA----I 61
P I+ + T L V K+ + L C EG P PTI W + N K+ R+
Sbjct: 10 PRIIEHPTDL-VVKKNEPATLNCKVEGKPEPTIEWFKDGEPVSTNEKKSHRVQFKDGALF 68
Query: 62 PYTSPEAQVDTP--------------PVILNNSPQLSVAKE-------------GQSVQL 94
Y + + + + V + S Q++V ++ G++ L
Sbjct: 69 FYRTMQGKKEQDGGEYWCVAKNRVGQAVSRHASLQIAVLRDDFRVEPKDTRVAKGETALL 128
Query: 95 ECHA-EGHPIPTISWRRENNAI-----LPNGQT----IFTGSTLQIPRITKEDRGAYYCV 144
EC +G P PT+ W ++ + + G + I G L I + D G Y C+
Sbjct: 129 ECGPPKGIPEPTLIWIKDGVPLDDLKAMSFGASSRVRIVDGGNLLISNVEPIDEGNYKCI 188
Query: 145 AQNGIG 150
AQN +G
Sbjct: 189 AQNLVG 194
>pdb|2VR9|A Chain A, Drosophila Robo Ig1-2 (Tetragonal Form)
pdb|2VR9|B Chain B, Drosophila Robo Ig1-2 (Tetragonal Form)
pdb|2VR9|C Chain C, Drosophila Robo Ig1-2 (Tetragonal Form)
Length = 217
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 47/168 (27%), Positives = 76/168 (45%), Gaps = 27/168 (16%)
Query: 68 AQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ------- 120
Q +P +I P V K+ + L C EG P PTI W ++ + N +
Sbjct: 5 GQYQSPRII--EHPTDLVVKKNEPATLNCKVEGKPEPTIEWFKDGEPVSTNEKKSHRVQF 62
Query: 121 ---TIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKV-----EFAPIVTVQST 172
+F T+Q + ++D G Y+CVA+N +G+ R +++ +F V + T
Sbjct: 63 KDGALFFYRTMQGKK--EQDGGEYWCVAKNRVGQAVSRHASLQIAVLRDDFR--VEPKDT 118
Query: 173 RIGQALHHDMDLDCH-IEAYPHPILYWAKDGEIVVNDEYHSISNFGTS 219
R+ + L+C + P P L W KDG V D+ ++S FG S
Sbjct: 119 RVAKG--ETALLECGPPKGIPEPTLIWIKDG--VPLDDLKAMS-FGAS 161
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 45/186 (24%), Positives = 73/186 (39%), Gaps = 49/186 (26%)
Query: 13 PVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRR-------NFKRLGRLHLA----I 61
P I+ + T L V K+ + L C EG P PTI W + N K+ R+
Sbjct: 10 PRIIEHPTDL-VVKKNEPATLNCKVEGKPEPTIEWFKDGEPVSTNEKKSHRVQFKDGALF 68
Query: 62 PYTSPEAQVDTP--------------PVILNNSPQLSVAKE-------------GQSVQL 94
Y + + + + V + S Q++V ++ G++ L
Sbjct: 69 FYRTMQGKKEQDGGEYWCVAKNRVGQAVSRHASLQIAVLRDDFRVEPKDTRVAKGETALL 128
Query: 95 ECHA-EGHPIPTISWRRENNAI-----LPNGQT----IFTGSTLQIPRITKEDRGAYYCV 144
EC +G P PT+ W ++ + + G + I G L I + D G Y C+
Sbjct: 129 ECGPPKGIPEPTLIWIKDGVPLDDLKAMSFGASSRVRIVDGGNLLISNVEPIDEGNYKCI 188
Query: 145 AQNGIG 150
AQN +G
Sbjct: 189 AQNLVG 194
>pdb|2V9T|A Chain A, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 117
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 36/108 (33%), Positives = 50/108 (46%), Gaps = 20/108 (18%)
Query: 69 QVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWR-------------RENNAI 115
Q D PP I+ + L V+K G+ L C AEG P PTI W R + +
Sbjct: 5 QEDFPPRIVEHPSDLIVSK-GEPATLNCKAEGRPTPTIEWYKGGERVETDKDDPRSHRML 63
Query: 116 LPNGQTIFTGSTLQI--PRITKEDRGAYYCVAQNGIGRGARRKIEVKV 161
LP+G F L+I R ++ D G Y CVA+N +G ++V
Sbjct: 64 LPSGSLFF----LRIVHGRKSRPDEGVYVCVARNYLGEAVSHDASLEV 107
>pdb|3S97|C Chain C, Ptprz Cntn1 Complex
pdb|3S97|D Chain D, Ptprz Cntn1 Complex
Length = 201
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 37/66 (56%)
Query: 86 AKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVA 145
A GQ+V LEC A G+P+P I WR+ + + +G+ L+I I ED G Y C A
Sbjct: 125 ALMGQNVTLECFALGNPVPDIRWRKVLEPMPSTAEISTSGAVLKIFNIQLEDEGIYECEA 184
Query: 146 QNGIGR 151
+N G+
Sbjct: 185 ENIRGK 190
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 14/25 (56%), Positives = 18/25 (72%)
Query: 25 AKEGQSVQLECHAEGHPIPTISWRR 49
A GQ+V LEC A G+P+P I WR+
Sbjct: 125 ALMGQNVTLECFALGNPVPDIRWRK 149
>pdb|2YD1|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Drosophila Receptor Protein Tyrosine Phosphatase Dlar
Length = 212
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 48/183 (26%), Positives = 70/183 (38%), Gaps = 45/183 (24%)
Query: 12 PPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRL--------------GRL 57
PP I+ V + G C A G P P+I WR+N K++ G
Sbjct: 6 PPEIIRKPQNQGV-RVGGVASFYCAARGDPPPSIVWRKNGKKVSGTQSRYTVLEQPGGIS 64
Query: 58 HLAI----------PY-----------TSPEAQV-----DTPPV---ILNNSPQLSVAKE 88
L I PY S +A + D P ++ P V +
Sbjct: 65 ILRIEPVRAGRDDAPYECVAENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRVIEV 124
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAI-LPNGQTIFTGSTLQIPRITKEDRGAYYCVAQN 147
G +V + C A G+P P I W + + + N + LQI +ED+G Y CVA+N
Sbjct: 125 GHTVLMTCKAIGNPTPNIYWIKNQTKVDMSNPRYSLKDGFLQIENSREEDQGKYECVAEN 184
Query: 148 GIG 150
+G
Sbjct: 185 SMG 187
Score = 44.7 bits (104), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 40/145 (27%), Positives = 59/145 (40%), Gaps = 19/145 (13%)
Query: 73 PPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTG------- 125
PP I+ PQ + G C A G P P+I WR+ N + Q+ +T
Sbjct: 6 PPEIIRK-PQNQGVRVGGVASFYCAARGDPPPSIVWRK-NGKKVSGTQSRYTVLEQPGGI 63
Query: 126 STLQI-PRITKEDRGAYYCVAQNGIGRGARRKIEVKV--------EFAPIVTVQSTRIGQ 176
S L+I P D Y CVA+NG+G + + F I TR+ +
Sbjct: 64 SILRIEPVRAGRDDAPYECVAENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRVIE 123
Query: 177 ALHHDMDLDCHIEAYPHPILYWAKD 201
+ H + + C P P +YW K+
Sbjct: 124 -VGHTVLMTCKAIGNPTPNIYWIKN 147
>pdb|2RJM|A Chain A, 3ig Structure Of Titin Domains I67-I69 E-To-A Mutated
Variant
Length = 284
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 54/118 (45%), Gaps = 6/118 (5%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT----GSTLQIPRITKEDRGAYYCV 144
G+S +CH G I+W ++N I P G T +TL + ++TK D G Y C
Sbjct: 20 GESGTFKCHVTGTAPIKITWAKDNREIRPGGNYKMTLVENTATLTVLKVTKGDAGQYTCY 79
Query: 145 AQNGIGRGA-RRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWAKD 201
A N G+ + ++ V+ I ++ +RI + H +C I P + W KD
Sbjct: 80 ASNVAGKDSCSAQLGVQAPPRFIKKLEPSRIVKQDEH-TRYECKIGGSPEIKVLWYKD 136
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 41/178 (23%), Positives = 72/178 (40%), Gaps = 14/178 (7%)
Query: 65 SPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ---- 120
S + V PP + + K+ + + EC G P + W ++ I + +
Sbjct: 90 SAQLGVQAPPRFIKKLEPSRIVKQDEHTRYECKIGGSPEIKVLWYKDETEIQESSKFRMS 149
Query: 121 TIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHH 180
+ + + L++ ++ ED G Y C A N A +KV+ P+ + +
Sbjct: 150 FVESVAVLEMYNLSVEDSGDYTCEAHN-AAGSASSSTSLKVKEPPVFRKKPHPVETLKGA 208
Query: 181 DMDLDCHIEAYPHPILYWAKDG-EIVVNDEYHSIS-NFGTS-------EGTTGSLQCK 229
D+ L+C ++ P + W KD E+ +Y +S NF TS G QCK
Sbjct: 209 DVHLECELQGTPPFQVSWHKDKRELRSGKKYKIMSENFLTSIHILNVDSADIGEYQCK 266
Score = 35.8 bits (81), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 35/86 (40%), Gaps = 5/86 (5%)
Query: 69 QVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTG--- 125
+V PPV P +G V LEC +G P +SW ++ + +
Sbjct: 188 KVKEPPV-FRKKPHPVETLKGADVHLECELQGTPPFQVSWHKDKRELRSGKKYKIMSENF 246
Query: 126 -STLQIPRITKEDRGAYYCVAQNGIG 150
+++ I + D G Y C A N +G
Sbjct: 247 LTSIHILNVDSADIGEYQCKASNDVG 272
Score = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 8 QVDTPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRL 54
+V PPV + K G V LEC +G P +SW ++ + L
Sbjct: 188 KVKEPPVFRKKPHPVETLK-GADVHLECELQGTPPFQVSWHKDKREL 233
>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 = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 48/183 (26%), Positives = 70/183 (38%), Gaps = 45/183 (24%)
Query: 12 PPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRL--------------GRL 57
PP I+ V + G C A G P P+I WR+N K++ G
Sbjct: 8 PPEIIRKPQNQGV-RVGGVASFYCAARGDPPPSIVWRKNGKKVSGTQSRYTVLEQPGGIS 66
Query: 58 HLAI----------PY-----------TSPEAQV-----DTPPV---ILNNSPQLSVAKE 88
L I PY S +A + D P ++ P V +
Sbjct: 67 ILRIEPVRAGRDDAPYECVAENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRVIEV 126
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAI-LPNGQTIFTGSTLQIPRITKEDRGAYYCVAQN 147
G +V + C A G+P P I W + + + N + LQI +ED+G Y CVA+N
Sbjct: 127 GHTVLMTCKAIGNPTPNIYWIKNQTKVDMSNPRYSLKDGFLQIENSREEDQGKYECVAEN 186
Query: 148 GIG 150
+G
Sbjct: 187 SMG 189
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 40/145 (27%), Positives = 59/145 (40%), Gaps = 19/145 (13%)
Query: 73 PPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTG------- 125
PP I+ PQ + G C A G P P+I WR+ N + Q+ +T
Sbjct: 8 PPEIIRK-PQNQGVRVGGVASFYCAARGDPPPSIVWRK-NGKKVSGTQSRYTVLEQPGGI 65
Query: 126 STLQI-PRITKEDRGAYYCVAQNGIGRGARRKIEVKV--------EFAPIVTVQSTRIGQ 176
S L+I P D Y CVA+NG+G + + F I TR+ +
Sbjct: 66 SILRIEPVRAGRDDAPYECVAENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRVIE 125
Query: 177 ALHHDMDLDCHIEAYPHPILYWAKD 201
+ H + + C P P +YW K+
Sbjct: 126 -VGHTVLMTCKAIGNPTPNIYWIKN 149
>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 = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 44/169 (26%), Positives = 60/169 (35%), Gaps = 41/169 (24%)
Query: 26 KEGQSVQLECHAEGHPIPTISW-----------RRNFKRL-------------------- 54
K+G+ ++ C P P +SW F L
Sbjct: 111 KQGEDAEVVCRVSSSPAPAVSWLYHNEEVTTISDNRFAMLANNNLQILNINKSDEGIYRC 170
Query: 55 -GRLHL--AIPYTSPEAQVDTPPVILNNSPQLSV---AKEGQSVQLECHAEGHPIPTISW 108
GR+ I + V+ PP I + PQ S A+ G+ + C A G P P ISW
Sbjct: 171 EGRVEARGEIDFRDIIVIVNVPPAI--SMPQKSFNATAERGEEMTFSCRASGSPEPAISW 228
Query: 109 RRENNAILPNGQTIFTGST--LQIPRITKEDRGAYYCVAQNGIGRGARR 155
R I N + I GS L + I D G Y C A N G ++
Sbjct: 229 FRNGKLIEENEKYILKGSNTELTVRNIINSDGGPYVCRATNKAGEDEKQ 277
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 33/131 (25%), Positives = 54/131 (41%), Gaps = 6/131 (4%)
Query: 87 KEGQSVQLECHAEGHPIPTISW---RRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC 143
K+G+ ++ C P P +SW E I N + + LQI I K D G Y C
Sbjct: 111 KQGEDAEVVCRVSSSPAPAVSWLYHNEEVTTISDNRFAMLANNNLQILNINKSDEGIYRC 170
Query: 144 VAQ-NGIGRGARRKIEVKVEFAPIVTV--QSTRIGQALHHDMDLDCHIEAYPHPILYWAK 200
+ G R I V V P +++ +S +M C P P + W +
Sbjct: 171 EGRVEARGEIDFRDIIVIVNVPPAISMPQKSFNATAERGEEMTFSCRASGSPEPAISWFR 230
Query: 201 DGEIVVNDEYH 211
+G+++ +E +
Sbjct: 231 NGKLIEENEKY 241
Score = 34.7 bits (78), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 9 VDTPPVI-LNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFK 52
V+ PP I + + + A+ G+ + C A G P P ISW RN K
Sbjct: 189 VNVPPAISMPQKSFNATAERGEEMTFSCRASGSPEPAISWFRNGK 233
>pdb|2V5T|A Chain A, Crystal Structure Of Ncam2 Ig2-3
Length = 189
Score = 49.7 bits (117), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 44/171 (25%), Positives = 60/171 (35%), Gaps = 41/171 (23%)
Query: 26 KEGQSVQLECHAEGHPIPTISW-----------RRNFKRL-------------------- 54
K+G+ ++ C P P +SW F L
Sbjct: 15 KQGEDAEVVCRVSSSPAPAVSWLYHNEEVTTISDNRFAMLANNNLQILNINKSDEGIYRC 74
Query: 55 -GRLHL--AIPYTSPEAQVDTPPVILNNSPQLSV---AKEGQSVQLECHAEGHPIPTISW 108
GR+ I + V+ PP I + PQ S A+ G+ + C A G P P ISW
Sbjct: 75 EGRVEARGEIDFRDIIVIVNVPPAI--SMPQKSFNATAERGEEMTFSCRASGSPEPAISW 132
Query: 109 RRENNAILPNGQTIFTGST--LQIPRITKEDRGAYYCVAQNGIGRGARRKI 157
R I N + I GS L + I D G Y C A N G ++
Sbjct: 133 FRNGKLIEENEKYILKGSNTELTVRNIINSDGGPYVCRATNKAGEDEKQAF 183
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 33/131 (25%), Positives = 54/131 (41%), Gaps = 6/131 (4%)
Query: 87 KEGQSVQLECHAEGHPIPTISW---RRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC 143
K+G+ ++ C P P +SW E I N + + LQI I K D G Y C
Sbjct: 15 KQGEDAEVVCRVSSSPAPAVSWLYHNEEVTTISDNRFAMLANNNLQILNINKSDEGIYRC 74
Query: 144 VAQ-NGIGRGARRKIEVKVEFAPIVTV--QSTRIGQALHHDMDLDCHIEAYPHPILYWAK 200
+ G R I V V P +++ +S +M C P P + W +
Sbjct: 75 EGRVEARGEIDFRDIIVIVNVPPAISMPQKSFNATAERGEEMTFSCRASGSPEPAISWFR 134
Query: 201 DGEIVVNDEYH 211
+G+++ +E +
Sbjct: 135 NGKLIEENEKY 145
Score = 34.7 bits (78), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 9 VDTPPVI-LNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFK 52
V+ PP I + + + A+ G+ + C A G P P ISW RN K
Sbjct: 93 VNVPPAISMPQKSFNATAERGEEMTFSCRASGSPEPAISWFRNGK 137
>pdb|2XY1|A Chain A, Crystal Structure Of Ncam2 Ig3-4
Length = 192
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 48/191 (25%), Positives = 71/191 (37%), Gaps = 41/191 (21%)
Query: 12 PPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLHLAI---------- 61
P + + + + A+ G+ + C A G P P ISW RN K + I
Sbjct: 3 PAISMPQKSFNATAERGEEMTFSCRASGSPEPAISWFRNGKLIEENEKYILKGSNTELTV 62
Query: 62 ---------PY---TSPEAQVDTPPVILNNSPQLSVAK-------EGQSVQLECHAEGHP 102
PY + +A D L Q + + E V L C AEG P
Sbjct: 63 RNIINSDGGPYVCRATNKAGEDEKQAFLQVFVQPHIIQLKNETTYENGQVTLVCDAEGEP 122
Query: 103 IPTISWRRENNAI-LPNGQTIFTG----------STLQIPRITKEDRGAYYCVAQNGIGR 151
IP I+W+R + G G S+L I + D G Y C A + IG
Sbjct: 123 IPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHGSSSLHIKDVKLSDSGRYDCEAASRIG- 181
Query: 152 GARRKIEVKVE 162
G ++ + + +E
Sbjct: 182 GHQKSMYLDIE 192
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 50/119 (42%), Gaps = 4/119 (3%)
Query: 84 SVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGST--LQIPRITKEDRGAY 141
+ A+ G+ + C A G P P ISW R I N + I GS L + I D G Y
Sbjct: 14 ATAERGEEMTFSCRASGSPEPAISWFRNGKLIEENEKYILKGSNTELTVRNIINSDGGPY 73
Query: 142 YCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWAK 200
C A N G ++ ++V P + +Q + + L C E P P + W +
Sbjct: 74 VCRATNKAGEDEKQAF-LQVFVQPHI-IQLKNETTYENGQVTLVCDAEGEPIPEITWKR 130
>pdb|3B43|A Chain A, I-band Fragment I65-i70 From Titin
Length = 570
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 55/119 (46%), Gaps = 8/119 (6%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT----GSTLQIPRITKEDRGAYYCV 144
G+S +CH G I+W ++N I P G T +TL + ++TK D G Y C
Sbjct: 212 GESGTFKCHVTGTAPIKITWAKDNREIRPGGNYKMTLVENTATLTVLKVTKGDAGQYTCY 271
Query: 145 AQNGIGRGARRKIEVKVEFAP--IVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWAKD 201
A N G+ + ++ V+ P I ++ +RI + H +C I P + W KD
Sbjct: 272 ASNVAGKDSCSA-QLGVQEPPRFIKKLEPSRIVKQDEH-TRYECKIGGSPEIKVLWYKD 328
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 32/126 (25%), Positives = 57/126 (45%), Gaps = 6/126 (4%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAI--LPNGQTIFTG--STLQIPRITKEDRGAYYCV 144
G+ + L+C +G P I+W +E+ + P + F ++L I ++ D G Y C
Sbjct: 20 GEPITLQCKVDGTPEIRIAWYKEHTKLRSAPAYKMQFKNNVASLVINKVDHSDVGEYTCK 79
Query: 145 AQNGIGRGARRKIEVKVE--FAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWAKDG 202
A+N +G A + V E P + + + L + +C I + W KDG
Sbjct: 80 AENSVGAVASSAVLVIKERKLPPSFARKLKDVHETLGFPVAFECRINGSEPLQVSWYKDG 139
Query: 203 EIVVND 208
E++ +D
Sbjct: 140 ELLKDD 145
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 41/178 (23%), Positives = 72/178 (40%), Gaps = 14/178 (7%)
Query: 65 SPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ---- 120
S + V PP + + K+ + + EC G P + W ++ I + +
Sbjct: 282 SAQLGVQEPPRFIKKLEPSRIVKQDEHTRYECKIGGSPEIKVLWYKDETEIQESSKFRMS 341
Query: 121 TIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHH 180
+ + + L++ ++ ED G Y C A N A +KV+ P+ + +
Sbjct: 342 FVESVAVLEMYNLSVEDSGDYTCEAHN-AAGSASSSTSLKVKEPPVFRKKPHPVETLKGA 400
Query: 181 DMDLDCHIEAYPHPILYWAKDG-EIVVNDEYHSIS-NFGTS-------EGTTGSLQCK 229
D+ L+C ++ P + W KD E+ +Y +S NF TS G QCK
Sbjct: 401 DVHLECELQGTPPFQVSWHKDKRELRSGKKYKIMSENFLTSIHILNVDSADIGEYQCK 458
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/142 (23%), Positives = 56/142 (39%), Gaps = 7/142 (4%)
Query: 69 QVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTG--- 125
+V PPV P +G V LEC +G P +SW ++ + +
Sbjct: 380 KVKEPPV-FRKKPHPVETLKGADVHLECELQGTPPFQVSWHKDKRELRSGKKYKIMSENF 438
Query: 126 -STLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDL 184
+++ I + D G Y C A N +G + ++ P + + I + ++ L
Sbjct: 439 LTSIHILNVDSADIGEYQCKASNDVGSDTCVG-SITLKAPPRFVKKLSDISTVVGEEVQL 497
Query: 185 DCHIEAYPHPILYWAKD-GEIV 205
IE + W KD GEIV
Sbjct: 498 QATIEGAEPISVAWFKDKGEIV 519
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 48/119 (40%), Gaps = 6/119 (5%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAIL--PNGQTIF--TGSTLQIPRITKEDRGAYYCV 144
G V EC G +SW ++ + N QT F +TLQI + + G Y C
Sbjct: 116 GFPVAFECRINGSEPLQVSWYKDGELLKDDANLQTSFIHNVATLQILQTDQSHVGQYNCS 175
Query: 145 AQNGIGRGARR-KIEVKV-EFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWAKD 201
A N +G + K+ + E P ++ + AL CH+ + WAKD
Sbjct: 176 ASNPLGTASSSAKLTLSEHEVPPFFDLKPVSVDLALGESGTFKCHVTGTAPIKITWAKD 234
Score = 35.4 bits (80), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 40/181 (22%), Positives = 65/181 (35%), Gaps = 40/181 (22%)
Query: 8 QVDTPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRL--GRLHLAIP--- 62
+V PPV + K G V LEC +G P +SW ++ + L G+ + +
Sbjct: 380 KVKEPPVFRKKPHPVETLK-GADVHLECELQGTPPFQVSWHKDKRELRSGKKYKIMSENF 438
Query: 63 -------------------YTSPEAQVDT---------PPVILNNSPQLSVAKEGQSVQL 94
S + DT PP + +S G+ VQL
Sbjct: 439 LTSIHILNVDSADIGEYQCKASNDVGSDTCVGSITLKAPPRFVKKLSDISTVV-GEEVQL 497
Query: 95 ECHAEGHPIPTISWRRENNAILPNGQTIFTG-----STLQIPRITKEDRGAYYCVAQNGI 149
+ EG +++W ++ I+ I+ +TLQ R + G Y C +N
Sbjct: 498 QATIEGAEPISVAWFKDKGEIVRESDNIWISYSENIATLQFSRAEPANAGKYTCQIKNEA 557
Query: 150 G 150
G
Sbjct: 558 G 558
>pdb|1IE5|A Chain A, Nmr Structure Of The Third Immunoglobulin Domain From The
Neural Cell Adhesion Molecule
Length = 107
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 73 PPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI-----FTGST 127
P V S + A QSV L C A+G P PT++W ++ I + GS
Sbjct: 12 PSVRARQSTMNATANLSQSVTLACDADGFPEPTMTWTKDGEPIEQEDNEEKYSFNYDGSE 71
Query: 128 LQIPRITKEDRGAYYCVAQNGIGR 151
L I ++ K D Y C+A+N G
Sbjct: 72 LIIKKVDKSDEAEYICIAENKAGE 95
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 25/71 (35%), Positives = 35/71 (49%), Gaps = 6/71 (8%)
Query: 155 RKIEVKVEFAPIVTV-QSTRIGQA-LHHDMDLDCHIEAYPHPILYWAKDGEIVV---NDE 209
+ I+V V P V QST A L + L C + +P P + W KDGE + N+E
Sbjct: 2 KDIQVIVNVPPSVRARQSTMNATANLSQSVTLACDADGFPEPTMTWTKDGEPIEQEDNEE 61
Query: 210 YHSISNFGTSE 220
+S N+ SE
Sbjct: 62 KYSF-NYDGSE 71
>pdb|2RIK|A Chain A, I-Band Fragment I67-I69 From Titin
Length = 284
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 55/119 (46%), Gaps = 8/119 (6%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT----GSTLQIPRITKEDRGAYYCV 144
G+S +CH G I+W ++N I P G T +TL + ++TK D G Y C
Sbjct: 20 GESGTFKCHVTGTAPIKITWAKDNREIRPGGNYKMTLVENTATLTVLKVTKGDAGQYTCY 79
Query: 145 AQNGIGRGARRKIEVKVEFAP--IVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWAKD 201
A N G+ + ++ V+ P I ++ +RI + H +C I P + W KD
Sbjct: 80 ASNVAGKDS-CSAQLGVQEPPRFIKKLEPSRIVKQDEH-TRYECKIGGSPEIKVLWYKD 136
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 41/178 (23%), Positives = 72/178 (40%), Gaps = 14/178 (7%)
Query: 65 SPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ---- 120
S + V PP + + K+ + + EC G P + W ++ I + +
Sbjct: 90 SAQLGVQEPPRFIKKLEPSRIVKQDEHTRYECKIGGSPEIKVLWYKDETEIQESSKFRMS 149
Query: 121 TIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHH 180
+ + + L++ ++ ED G Y C A N A +KV+ P+ + +
Sbjct: 150 FVESVAVLEMYNLSVEDSGDYTCEAHN-AAGSASSSTSLKVKEPPVFRKKPHPVETLKGA 208
Query: 181 DMDLDCHIEAYPHPILYWAKDG-EIVVNDEYHSIS-NFGTS-------EGTTGSLQCK 229
D+ L+C ++ P + W KD E+ +Y +S NF TS G QCK
Sbjct: 209 DVHLECELQGTPPFQVSWHKDKRELRSGKKYKIMSENFLTSIHILNVDSADIGEYQCK 266
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 35/86 (40%), Gaps = 5/86 (5%)
Query: 69 QVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTG--- 125
+V PPV P +G V LEC +G P +SW ++ + +
Sbjct: 188 KVKEPPV-FRKKPHPVETLKGADVHLECELQGTPPFQVSWHKDKRELRSGKKYKIMSENF 246
Query: 126 -STLQIPRITKEDRGAYYCVAQNGIG 150
+++ I + D G Y C A N +G
Sbjct: 247 LTSIHILNVDSADIGEYQCKASNDVG 272
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 22/47 (46%), Gaps = 1/47 (2%)
Query: 8 QVDTPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRL 54
+V PPV + K G V LEC +G P +SW ++ + L
Sbjct: 188 KVKEPPVFRKKPHPVETLK-GADVHLECELQGTPPFQVSWHKDKREL 233
>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 = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 49/120 (40%), Gaps = 16/120 (13%)
Query: 47 WRRNFKRLGRLHLAIPYTSPEAQVDTPPVILNN------------SPQLSVAKEGQSVQL 94
WR NF R + + D P V+L N Q EG +VQ
Sbjct: 346 WRLNFNRQQPTCATPEFVQGKEFKDFPDVLLPNYFTCRRARIRDRKAQQVFVDEGHTVQF 405
Query: 95 ECHAEGHPIPTISW---RRENNAILPNGQ-TIFTGSTLQIPRITKEDRGAYYCVAQNGIG 150
C A+G P P I W R+ + NG+ T+F TL++ +D G Y C+A N G
Sbjct: 406 VCRADGDPPPAILWLSPRKHLVSAKSNGRLTVFPDGTLEVRYAQVQDNGTYLCIAANAGG 465
Score = 30.0 bits (66), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 16/33 (48%)
Query: 15 ILNNSTQLSVAKEGQSVQLECHAEGHPIPTISW 47
I + Q EG +VQ C A+G P P I W
Sbjct: 387 IRDRKAQQVFVDEGHTVQFVCRADGDPPPAILW 419
>pdb|2EDJ|A Chain A, Solution Structure Of The Fifth Ig-Like Domain From Human
Roundabout Homolog 2
Length = 100
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 30/81 (37%), Positives = 41/81 (50%), Gaps = 5/81 (6%)
Query: 73 PPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ---TIFTGSTLQ 129
PP+IL ++A +G ++ L+C A G P+P ISW +E P TI TLQ
Sbjct: 8 PPIILQGPANQTLAVDGTAL-LKCKATGDPLPVISWLKE-GFTFPGRDPRATIQEQGTLQ 65
Query: 130 IPRITKEDRGAYYCVAQNGIG 150
I + D G Y CVA + G
Sbjct: 66 IKNLRISDTGTYTCVATSSSG 86
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 27/46 (58%), Gaps = 2/46 (4%)
Query: 12 PPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISW-RRNFKRLGR 56
PP+IL ++A +G ++ L+C A G P+P ISW + F GR
Sbjct: 8 PPIILQGPANQTLAVDGTAL-LKCKATGDPLPVISWLKEGFTFPGR 52
>pdb|3PXH|A Chain A, Tandem Ig Domains Of Tyrosine Phosphatase Lar
Length = 201
Score = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 41/78 (52%), Gaps = 4/78 (5%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP---NGQTI-FTGSTLQIPR 132
++ PQL V ++G++ + C A G+P P ISW ++ + P NG+ LQI
Sbjct: 112 IDMGPQLKVVEKGRTATMLCAAGGNPDPEISWFKDFLPVDPAASNGRIKQLRSGALQIES 171
Query: 133 ITKEDRGAYYCVAQNGIG 150
+ D+G Y CVA N G
Sbjct: 172 SEESDQGKYECVATNSAG 189
Score = 35.8 bits (81), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 50/143 (34%), Gaps = 13/143 (9%)
Query: 71 DTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIF-----TG 125
D+ PV + P+ G C A G P P I+W ++ + + G
Sbjct: 5 DSKPVFVK-VPEDQTGLSGGVASFVCQATGEPKPRITWMKKGKKVSSQRFEVIEFDDGAG 63
Query: 126 STLQI-PRITKEDRGAYYCVAQNGIGR-GARRKIEVKVEFAPIVTVQSTRIGQALH---- 179
S L+I P + D Y C A N +G K+ V E + +G L
Sbjct: 64 SVLRIQPLRVQRDEAIYECTATNSLGEINTSAKLSVLEEDQLPSGFPTIDMGPQLKVVEK 123
Query: 180 -HDMDLDCHIEAYPHPILYWAKD 201
+ C P P + W KD
Sbjct: 124 GRTATMLCAAGGNPDPEISWFKD 146
Score = 34.7 bits (78), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 13/31 (41%), Positives = 21/31 (67%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNF 51
QL V ++G++ + C A G+P P ISW ++F
Sbjct: 117 QLKVVEKGRTATMLCAAGGNPDPEISWFKDF 147
>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 = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 31/131 (23%), Positives = 54/131 (41%), Gaps = 10/131 (7%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI-------LPNGQTIFTGSTLQ 129
L +P +GQ V+L C EG P I W ++ + +P + + G L
Sbjct: 5 LMGAPVKLTVSQGQPVKLNCSVEGXEEPDIQWVKDGAVVQNLDQLYIPVSEQHWIG-FLS 63
Query: 130 IPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIE 189
+ + + D G Y+C ++G + + + VE P TV+ + + L C
Sbjct: 64 LKSVERSDAGRYWCQVEDGGETEISQPVWLTVEGVPFFTVEPKDLAVPPNAPFQLSCEAV 123
Query: 190 AYPHP--ILYW 198
P P I++W
Sbjct: 124 GPPEPVTIVWW 134
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 182 MDLDCHIEAYPHPILYWAKDGEIVVN 207
+ L+C +E P + W KDG +V N
Sbjct: 20 VKLNCSVEGXEEPDIQWVKDGAVVQN 45
>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 = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 33/136 (24%), Positives = 59/136 (43%), Gaps = 8/136 (5%)
Query: 87 KEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS----TLQIPRITKEDRGAYY 142
K G++ QL C G P+P I W R ++ + + + TL + +ED G Y
Sbjct: 20 KLGEAAQLSCQIVGRPLPDIKWYRFGKELIQSRKYKMSSDGRTHTLTVMTEEQEDEGVYT 79
Query: 143 CVAQNGIGR---GARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWA 199
C+A N +G ++ ++ +F P ++ G A+ + L P P + W
Sbjct: 80 CIATNEVGEVETSSKLLLQATPQFHPGYPLKEKYYG-AVGSTLRLHVMYIGRPVPAMTWF 138
Query: 200 KDGEIVVNDEYHSISN 215
+++ N E +I N
Sbjct: 139 HGQKLLQNSENITIEN 154
Score = 34.7 bits (78), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 31/132 (23%), Positives = 48/132 (36%), Gaps = 36/132 (27%)
Query: 26 KEGQSVQLECHAEGHPIPTISWRRNFKRL-----------GRLHLAIPYTSPE------- 67
K G++ QL C G P+P I W R K L GR H T +
Sbjct: 20 KLGEAAQLSCQIVGRPLPDIKWYRFGKELIQSRKYKMSSDGRTHTLTVMTEEQEDEGVYT 79
Query: 68 -------AQVDT-PPVILNNSPQLS---------VAKEGQSVQLECHAEGHPIPTISWRR 110
+V+T ++L +PQ G +++L G P+P ++W
Sbjct: 80 CIATNEVGEVETSSKLLLQATPQFHPGYPLKEKYYGAVGSTLRLHVMYIGRPVPAMTWFH 139
Query: 111 ENNAILPNGQTI 122
+L N + I
Sbjct: 140 -GQKLLQNSENI 150
>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 = 46.6 bits (109), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 45/189 (23%), Positives = 71/189 (37%), Gaps = 52/189 (27%)
Query: 10 DTPPVILN---NSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLHLAI----- 61
D+ PV + + T LS G C A G P P I+W + K++ +
Sbjct: 4 DSKPVFIKVPEDQTGLS----GGVASFVCQATGEPKPRITWMKKGKKVSSQRFEVIEFDD 59
Query: 62 ----------------------PYTSPEAQVDT------------PPVI--LNNSPQLSV 85
T+ +++T PP ++ PQL V
Sbjct: 60 GAGSVLRIQPLRVQRDEAIYECTATNSLGEINTSAKLSVLEEEQLPPGFPSIDMGPQLKV 119
Query: 86 AKEGQSVQLECHAEGHPIPTISWRRENNAILP---NGQTI-FTGSTLQIPRITKEDRGAY 141
++ ++ + C A G+P P ISW ++ + P NG+ LQI + D+G Y
Sbjct: 120 VEKARTATMLCAAGGNPDPEISWFKDFLPVDPATSNGRIKQLRSGALQIESSEESDQGKY 179
Query: 142 YCVAQNGIG 150
CVA N G
Sbjct: 180 ECVATNSAG 188
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 35/150 (23%), Positives = 52/150 (34%), Gaps = 27/150 (18%)
Query: 71 DTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIF-----TG 125
D+ PV + P+ G C A G P P I+W ++ + + G
Sbjct: 4 DSKPVFIK-VPEDQTGLSGGVASFVCQATGEPKPRITWMKKGKKVSSQRFEVIEFDDGAG 62
Query: 126 STLQI-PRITKEDRGAYYCVAQNGIGR-GARRKIEV-----------KVEFAP-IVTVQS 171
S L+I P + D Y C A N +G K+ V ++ P + V+
Sbjct: 63 SVLRIQPLRVQRDEAIYECTATNSLGEINTSAKLSVLEEEQLPPGFPSIDMGPQLKVVEK 122
Query: 172 TRIGQALHHDMDLDCHIEAYPHPILYWAKD 201
R L C P P + W KD
Sbjct: 123 ARTATML-------CAAGGNPDPEISWFKD 145
>pdb|2V17|L Chain L, Structure Of The Complex Of Antibody Mn423 With A Fragment
Of Tau Protein
pdb|3L1O|L Chain L, Crystal Structure Of Monoclonal Antibody Mn423 Fab
Fragment With Free Combining Site, Crystallized In The
Presence Of Zinc
Length = 214
Score = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 42/151 (27%), Positives = 64/151 (42%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRE-----NNAILPNGQTI------- 122
V + SP A G+++ + C A ++W RE N ++ +G T+
Sbjct: 2 VQITQSPSYLAASPGETITINCRASKSIRKFLAWYREKPGKTNKLLIYSGSTLQSGTPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS TL I R+ ED YYC N + GA K+E+K + AP V++
Sbjct: 62 FSGSGSGTDFTLTISRLEPEDFAMYYCQQHNDYPLTFGAGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 4/75 (5%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ----TIFTGSTLQIPRITKE 136
P+ EG+S + C +G P+PT++W R+ + + + T ST +I +
Sbjct: 21 PRSMTVYEGESARFSCDTDGEPVPTVTWLRKGQVLSTSARHQVTTTKYKSTFEISSVQAS 80
Query: 137 DRGAYYCVAQNGIGR 151
D G Y V +N G+
Sbjct: 81 DEGNYSVVVENSEGK 95
Score = 34.3 bits (77), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 27 EGQSVQLECHAEGHPIPTISWRRN 50
EG+S + C +G P+PT++W R
Sbjct: 28 EGESARFSCDTDGEPVPTVTWLRK 51
>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 = 46.2 bits (108), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 36/75 (48%), Gaps = 4/75 (5%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ----TIFTGSTLQIPRITKE 136
P+ EG+S + C +G P+PT++W R+ + + + T ST +I +
Sbjct: 15 PRSMTVYEGESARFSCDTDGEPVPTVTWLRKGQVLSTSARHQVTTTKYKSTFEISSVQAS 74
Query: 137 DRGAYYCVAQNGIGR 151
D G Y V +N G+
Sbjct: 75 DEGNYSVVVENSEGK 89
Score = 33.9 bits (76), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 10/24 (41%), Positives = 16/24 (66%)
Query: 27 EGQSVQLECHAEGHPIPTISWRRN 50
EG+S + C +G P+PT++W R
Sbjct: 22 EGESARFSCDTDGEPVPTVTWLRK 45
>pdb|3V2A|R Chain R, Vegfr-2VEGF-A Complex Structure
Length = 772
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT--GSTLQIPRITKEDRGAYYCVAQ 146
G+S+++ C A G+P P I W ++N ++ + + L I R+ KED G Y C A
Sbjct: 681 GESIEVSCTASGNPPPQIMWFKDNETLVEDSGIVLKDGNRNLTIRRVRKEDEGLYTCQAC 740
Query: 147 NGIG 150
+ +G
Sbjct: 741 SVLG 744
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 37/152 (24%), Positives = 64/152 (42%), Gaps = 35/152 (23%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILP-------------------NGQTIFTGST- 127
E +SV L C A+ ++W + LP T+F+ ST
Sbjct: 563 EQESVSLWCTADRSTFENLTWYKLGPQPLPIHVGELPTPVCKNLDTLWKLNATMFSNSTN 622
Query: 128 ----LQIPRITKEDRGAYYCVAQNGIGRGAR---RKIEVKVEFAPIVT----VQSTRIGQ 176
+++ + +D+G Y C+AQ+ + R++ V AP +T Q+T IG+
Sbjct: 623 DILIMELKNASLQDQGDYVCLAQDRKTKKRHCVVRQLTVLERVAPTITGNLENQTTSIGE 682
Query: 177 ALHHDMDLDCHIEAYPHPILYWAKDGEIVVND 208
++ ++ C P P + W KD E +V D
Sbjct: 683 SI----EVSCTASGNPPPQIMWFKDNETLVED 710
Score = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 34/129 (26%), Positives = 51/129 (39%), Gaps = 16/129 (12%)
Query: 86 AKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVA 145
A G+ V++ G+P P I W + N L + TI G L I +++ D G Y +
Sbjct: 342 ATVGERVRIPAKYLGYPPPEIKWYK-NGIPLESNHTIKAGHVLTIMEVSERDTGNYTVIL 400
Query: 146 QNGIGRGARRKIEVKVEFAP--------IVTVQSTRIGQALHHDMDLDCHIEAYP---HP 194
N I + + + V + P I V S + G L C + A P H
Sbjct: 401 TNPISKEKQSHVVSLVVYVPPQIGEKSLISPVDSYQYGTT----QTLTCTVYAIPPPHHI 456
Query: 195 ILYWAKDGE 203
YW + E
Sbjct: 457 HWYWQLEEE 465
Score = 33.5 bits (75), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 4/80 (5%)
Query: 126 STLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQS---TRIGQALHHDM 182
STL I +T+ D+G Y C A +G+ + V+V P V S + + + +
Sbjct: 290 STLTIDGVTRSDQGLYTCAASSGL-MTKKNSTFVRVHEKPFVAFGSGMESLVEATVGERV 348
Query: 183 DLDCHIEAYPHPILYWAKDG 202
+ YP P + W K+G
Sbjct: 349 RIPAKYLGYPPPEIKWYKNG 368
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 28 GQSVQLECHAEGHPIPTISWRRNFKRL 54
G+S+++ C A G+P P I W ++ + L
Sbjct: 681 GESIEVSCTASGNPPPQIMWFKDNETL 707
>pdb|2YD9|A Chain A, Crystal Structure Of The N-Terminal Ig1-3 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 304
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 34/134 (25%), Positives = 61/134 (45%), Gaps = 7/134 (5%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP---NGQTI-FTGSTLQIPR 132
++ PQL V + ++ + C A G+P P I+W ++ + P NG+ LQI
Sbjct: 111 IDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSGALQIES 170
Query: 133 ITKEDRGAYYCVAQN--GIGRGARRKIEVKVE-FAPIVTVQSTRIGQALHHDMDLDCHIE 189
+ D+G Y CVA N G+ + + V+V+ AP ++ ++++ C
Sbjct: 171 SEETDQGKYECVATNSAGVRYSSPANLYVRVQNVAPRFSILPMSHEIMPGGNVNITCVAV 230
Query: 190 AYPHPILYWAKDGE 203
P P + W + E
Sbjct: 231 GSPMPYVKWMQGAE 244
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 39/152 (25%), Positives = 57/152 (37%), Gaps = 31/152 (20%)
Query: 71 DTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT------ 124
+ PP + P+ + G C A G P P ++W ++ + N Q T
Sbjct: 4 EEPPRFIKE-PKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKV--NSQRFETIEFDES 60
Query: 125 -GSTLQI-PRITKEDRGAYYCVAQNGIGR-GARRKIEV-----------KVEFAP-IVTV 169
G+ L+I P T D Y CVAQN +G K+ V ++ P + V
Sbjct: 61 AGAVLRIQPLRTPRDENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDMGPQLKVV 120
Query: 170 QSTRIGQALHHDMDLDCHIEAYPHPILYWAKD 201
+ TR L C P P + W KD
Sbjct: 121 ERTRTATML-------CAASGNPDPEITWFKD 145
Score = 40.8 bits (94), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 36/169 (21%), Positives = 65/169 (38%), Gaps = 44/169 (26%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFK--------------RLGRLHL------- 59
QL V + ++ + C A G+P P I+W ++F R G L +
Sbjct: 116 QLKVVERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSGALQIESSEETD 175
Query: 60 ------------AIPYTSPEAQVDTPPVILNNSPQLSVA------KEGQSVQLECHAEGH 101
+ Y+SP + + N +P+ S+ G +V + C A G
Sbjct: 176 QGKYECVATNSAGVRYSSP---ANLYVRVQNVAPRFSILPMSHEIMPGGNVNITCVAVGS 232
Query: 102 PIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIG 150
P+P + W + + P + L++ + +D Y CVA + +G
Sbjct: 233 PMPYVKWMQGAEDLTPEDDMPVGRNVLELTDV--KDSANYTCVAMSSLG 279
>pdb|3KVQ|A Chain A, Crystal Structure Of Vegfr2 Extracellular Domain D7
Length = 108
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 35/64 (54%), Gaps = 2/64 (3%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT--GSTLQIPRITKEDRGAYYCVAQ 146
G+S+++ C A G+P P I W ++N ++ + + L I R+ KED G Y C A
Sbjct: 25 GESIEVSCTASGNPPPQIMWFKDNETLVEDSGIVLKDGNRNLTIRRVRKEDEGLYTCQAC 84
Query: 147 NGIG 150
+ +G
Sbjct: 85 SVLG 88
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 18/58 (31%), Positives = 29/58 (50%), Gaps = 8/58 (13%)
Query: 155 RKIEVKVEFAPIVT----VQSTRIGQALHHDMDLDCHIEAYPHPILYWAKDGEIVVND 208
R++ V AP +T Q+T IG+++ ++ C P P + W KD E +V D
Sbjct: 1 RQLTVLERVAPTITGNLENQTTSIGESI----EVSCTASGNPPPQIMWFKDNETLVED 54
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 18/27 (66%)
Query: 28 GQSVQLECHAEGHPIPTISWRRNFKRL 54
G+S+++ C A G+P P I W ++ + L
Sbjct: 25 GESIEVSCTASGNPPPQIMWFKDNETL 51
>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 = 44.7 bits (104), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 41/170 (24%), Positives = 63/170 (37%), Gaps = 45/170 (26%)
Query: 13 PVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLHLAIPYTSPEAQVDT 72
P ++ +L VA ++ L C A+G P P+ W + + R A+ QV
Sbjct: 221 PALVQKPLELMVA---HTISLLCPAQGFPAPSFRWYKFIEGTTRKQ-AVVLNDRVKQVSG 276
Query: 73 PPVI--------------LNNS---------------------PQLSVAKEGQSVQLECH 97
+I +NNS P G+ C
Sbjct: 277 TLIIKDAVVEDSGKYLCVVNNSVGGESVETVLTVTAPLSAKIDPPTQTVDFGRPAVFTCQ 336
Query: 98 AEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQN 147
G+PI T+SW ++ AI G + S L+I + KED+G Y C +N
Sbjct: 337 YTGNPIKTVSWMKDGKAI---GH---SESVLRIESVKKEDKGMYQCFVRN 380
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 42/166 (25%), Positives = 66/166 (39%), Gaps = 23/166 (13%)
Query: 55 GRLHLAIPYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR---- 110
GRL + P +S + P ++ +L VA ++ L C A+G P P+ W +
Sbjct: 205 GRLVITEPISSSAPRT---PALVQKPLELMVA---HTISLLCPAQGFPAPSFRWYKFIEG 258
Query: 111 --ENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVT 168
A++ N + TL I ED G Y CV N +G G + + V AP+
Sbjct: 259 TTRKQAVVLNDRVKQVSGTLIIKDAVVEDSGKYLCVVNNSVG-GESVETVLTVT-APLSA 316
Query: 169 -----VQSTRIGQALHHDMDLDCHIEAYPHPILYWAKDGEIVVNDE 209
Q+ G+ C P + W KDG+ + + E
Sbjct: 317 KIDPPTQTVDFGRP----AVFTCQYTGNPIKTVSWMKDGKAIGHSE 358
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 38/100 (38%), Gaps = 9/100 (9%)
Query: 74 PVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI---LPNGQTIFTGSTLQI 130
PV L ++EC A G+P+P I W R + +P + I + L
Sbjct: 10 PVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGKLVF 69
Query: 131 PRITKED------RGAYYCVAQNGIGRGARRKIEVKVEFA 164
P ED Y C+A+N G R + V+ A
Sbjct: 70 PPFRAEDYRQEVHAQVYACLARNQFGSIISRDVHVRAVVA 109
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 13 PVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRN 50
PV L T ++EC A G+P+P I W R+
Sbjct: 10 PVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRS 47
>pdb|2V5M|A Chain A, Structural Basis For Dscam Isoform Specificity
Length = 388
Score = 44.3 bits (103), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 41/170 (24%), Positives = 63/170 (37%), Gaps = 45/170 (26%)
Query: 13 PVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLHLAIPYTSPEAQVDT 72
P ++ +L VA ++ L C A+G P P+ W + + R A+ QV
Sbjct: 215 PALVQKPLELMVA---HTISLLCPAQGFPAPSFRWYKFIEGTTRKQ-AVVLNDRVKQVSG 270
Query: 73 PPVI--------------LNNS---------------------PQLSVAKEGQSVQLECH 97
+I +NNS P G+ C
Sbjct: 271 TLIIKDAVVEDSGKYLCVVNNSVGGESVETVLTVTAPLSAKIDPPTQTVDFGRPAVFTCQ 330
Query: 98 AEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQN 147
G+PI T+SW ++ AI G + S L+I + KED+G Y C +N
Sbjct: 331 YTGNPIKTVSWMKDGKAI---GH---SESVLRIESVKKEDKGMYQCFVRN 374
Score = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 42/166 (25%), Positives = 66/166 (39%), Gaps = 23/166 (13%)
Query: 55 GRLHLAIPYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR---- 110
GRL + P +S + P ++ +L VA ++ L C A+G P P+ W +
Sbjct: 199 GRLVITEPISSSAPRT---PALVQKPLELMVA---HTISLLCPAQGFPAPSFRWYKFIEG 252
Query: 111 --ENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVT 168
A++ N + TL I ED G Y CV N +G G + + V AP+
Sbjct: 253 TTRKQAVVLNDRVKQVSGTLIIKDAVVEDSGKYLCVVNNSVG-GESVETVLTVT-APLSA 310
Query: 169 -----VQSTRIGQALHHDMDLDCHIEAYPHPILYWAKDGEIVVNDE 209
Q+ G+ C P + W KDG+ + + E
Sbjct: 311 KIDPPTQTVDFGRP----AVFTCQYTGNPIKTVSWMKDGKAIGHSE 352
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 40/100 (40%), Gaps = 9/100 (9%)
Query: 74 PVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISW-RRENNAI--LPNGQTIFTGSTLQI 130
PV L ++EC A G+P+P I W R + A+ +P + I + L
Sbjct: 4 PVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGKLVF 63
Query: 131 PRITKED------RGAYYCVAQNGIGRGARRKIEVKVEFA 164
P ED Y C+A+N G R + V+ A
Sbjct: 64 PPFRAEDYRQEVHAQVYACLARNQFGSIISRDVHVRAVVA 103
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 13 PVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRN 50
PV L T ++EC A G+P+P I W R+
Sbjct: 4 PVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRS 41
>pdb|4HWU|A Chain A, Crystal Structure Of The Ig-C2 Type 1 Domain From Mouse
Fibroblast Growth Factor Receptor 2 (Fgfr2)
[nysgrc-005912]
pdb|4HWU|B Chain B, Crystal Structure Of The Ig-C2 Type 1 Domain From Mouse
Fibroblast Growth Factor Receptor 2 (Fgfr2)
[nysgrc-005912]
Length = 95
Score = 44.3 bits (103), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGA 140
P+ V G+S++L+C + + ISW ++ + PN +T+ G LQI T D G
Sbjct: 8 PEAYVVAPGESLELQCMLKDAAV--ISWTKDGVHLGPNNRTVLIGEYLQIKGATPRDSGL 65
Query: 141 YYCVA 145
Y C A
Sbjct: 66 YACTA 70
>pdb|2YD4|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Chicken Receptor Protein Tyrosine Phosphatase Sigma
Length = 210
Score = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 41/186 (22%), Positives = 67/186 (36%), Gaps = 46/186 (24%)
Query: 10 DTPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRL--------------G 55
++PPV + + G C A G P P ++W + K++ G
Sbjct: 4 ESPPVFIKKPVD-QIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAG 62
Query: 56 RLHLAIPYTSPE-------------------------AQVDTPPVI--LNNSPQLSVAKE 88
+ P +P + PP ++ PQL V +
Sbjct: 63 AVLRIQPLRTPRDENIYECVAQNPHGEVTVHAKLTVLREDQLPPGFPNIDMGPQLKVVER 122
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAILP---NGQTI-FTGSTLQIPRITKEDRGAYYCV 144
++ + C A G+P P I+W ++ + P NG+ LQI + D+G Y CV
Sbjct: 123 TRTATMLCAASGNPDPEITWFKDFLPVDPSTSNGRIKQLRSGGLQIESSEETDQGKYECV 182
Query: 145 AQNGIG 150
A N G
Sbjct: 183 ASNSAG 188
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 40/152 (26%), Positives = 57/152 (37%), Gaps = 31/152 (20%)
Query: 71 DTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT------ 124
++PPV + P + G C A G P P ++W ++ + N Q T
Sbjct: 4 ESPPVFIKK-PVDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKV--NSQRFETIEFDES 60
Query: 125 -GSTLQI-PRITKEDRGAYYCVAQNGIGR-GARRKIEV-----------KVEFAP-IVTV 169
G+ L+I P T D Y CVAQN G K+ V ++ P + V
Sbjct: 61 AGAVLRIQPLRTPRDENIYECVAQNPHGEVTVHAKLTVLREDQLPPGFPNIDMGPQLKVV 120
Query: 170 QSTRIGQALHHDMDLDCHIEAYPHPILYWAKD 201
+ TR L C P P + W KD
Sbjct: 121 ERTRTATML-------CAASGNPDPEITWFKD 145
>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 = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 38/165 (23%), Positives = 59/165 (35%), Gaps = 50/165 (30%)
Query: 35 CHAEGHPIPTISWRRNFKRLGRLHLAI--------------PYTSPEAQVDTPPVILNN- 79
C A G P P I W + K++ + P +P + V NN
Sbjct: 28 CQATGDPRPKIVWNKKGKKVSNQRFEVIEFDDGSGSVLRIQPLRTPRDEAIYECVASNNV 87
Query: 80 --------------------------SPQLSVAKEGQSVQLECHAEGHPIPTISWRRE-- 111
PQL V + ++ + C A G+P P I+W ++
Sbjct: 88 GEISVSTRLTVLREDQIPRGFPTIDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDFL 147
Query: 112 ------NNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIG 150
NN + ++ G+ LQI + + D+G Y CVA N G
Sbjct: 148 PVDTSNNNGRIKQLRSESIGA-LQIEQSEESDQGKYECVATNSAG 191
Score = 30.8 bits (68), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNF 51
QL V + ++ + C A G+P P I+W ++F
Sbjct: 116 QLKVVERTRTATMLCAASGNPDPEITWFKDF 146
>pdb|2YD3|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 202
Score = 43.5 bits (101), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 4/78 (5%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP---NGQTI-FTGSTLQIPR 132
++ PQL V + ++ + C A G+P P I+W ++ + P NG+ LQI
Sbjct: 111 IDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSGALQIES 170
Query: 133 ITKEDRGAYYCVAQNGIG 150
+ D+G Y CVA N G
Sbjct: 171 SEETDQGKYECVATNSAG 188
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 39/152 (25%), Positives = 57/152 (37%), Gaps = 31/152 (20%)
Query: 71 DTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT------ 124
+ PP + P+ + G C A G P P ++W ++ + N Q T
Sbjct: 4 EEPPRFIKE-PKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKV--NSQRFETIEFDES 60
Query: 125 -GSTLQI-PRITKEDRGAYYCVAQNGIGR-GARRKIEV-----------KVEFAP-IVTV 169
G+ L+I P T D Y CVAQN +G K+ V ++ P + V
Sbjct: 61 AGAVLRIQPLRTPRDENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDMGPQLKVV 120
Query: 170 QSTRIGQALHHDMDLDCHIEAYPHPILYWAKD 201
+ TR L C P P + W KD
Sbjct: 121 ERTRTATML-------CAASGNPDPEITWFKD 145
Score = 30.4 bits (67), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNF 51
QL V + ++ + C A G+P P I+W ++F
Sbjct: 116 QLKVVERTRTATMLCAASGNPDPEITWFKDF 146
>pdb|2YD2|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 214
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/78 (32%), Positives = 39/78 (50%), Gaps = 4/78 (5%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP---NGQTI-FTGSTLQIPR 132
++ PQL V + ++ + C A G+P P I+W ++ + P NG+ LQI
Sbjct: 111 IDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSGALQIES 170
Query: 133 ITKEDRGAYYCVAQNGIG 150
+ D+G Y CVA N G
Sbjct: 171 SEETDQGKYECVATNSAG 188
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 39/152 (25%), Positives = 57/152 (37%), Gaps = 31/152 (20%)
Query: 71 DTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT------ 124
+ PP + P+ + G C A G P P ++W ++ + N Q T
Sbjct: 4 EEPPRFIKE-PKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKV--NSQRFETIEFDES 60
Query: 125 -GSTLQI-PRITKEDRGAYYCVAQNGIGR-GARRKIEV-----------KVEFAP-IVTV 169
G+ L+I P T D Y CVAQN +G K+ V ++ P + V
Sbjct: 61 AGAVLRIQPLRTPRDENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDMGPQLKVV 120
Query: 170 QSTRIGQALHHDMDLDCHIEAYPHPILYWAKD 201
+ TR L C P P + W KD
Sbjct: 121 ERTRTATML-------CAASGNPDPEITWFKD 145
Score = 30.4 bits (67), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 19/31 (61%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNF 51
QL V + ++ + C A G+P P I+W ++F
Sbjct: 116 QLKVVERTRTATMLCAASGNPDPEITWFKDF 146
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 34/76 (44%), Gaps = 6/76 (7%)
Query: 72 TPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIP 131
T P+ P G+ C G+PI T+SW ++ AI + S L+I
Sbjct: 308 TAPLSAKIDPPTQTVDFGRPAVFTCQYTGNPIKTVSWMKDGKAIG------HSESVLRIE 361
Query: 132 RITKEDRGAYYCVAQN 147
+ KED+G Y C +N
Sbjct: 362 SVKKEDKGMYQCFVRN 377
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 41/166 (24%), Positives = 61/166 (36%), Gaps = 22/166 (13%)
Query: 55 GRLHLAIPYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR---- 110
GRL + P S P V + Q + S L C A+ +P P+ W +
Sbjct: 201 GRLVITEPVGSVR-----PKVNPQDKHQFIDVELASSYSLLCMAQSYPTPSFRWYKFIEG 255
Query: 111 --ENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVT 168
A++ N + TL I ED G Y CV N +G G + + V AP+
Sbjct: 256 TTRKQAVVLNDRVKQVSGTLIIKDAVVEDSGKYLCVVNNSVG-GESVETVLTVT-APLSA 313
Query: 169 -----VQSTRIGQALHHDMDLDCHIEAYPHPILYWAKDGEIVVNDE 209
Q+ G+ C P + W KDG+ + + E
Sbjct: 314 KIDPPTQTVDFGRPAV----FTCQYTGNPIKTVSWMKDGKAIGHSE 355
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 9/77 (11%)
Query: 93 QLECHAEGHPIPTISW-RRENNAI--LPNGQTIFTGSTLQIPRITKED------RGAYYC 143
++EC A G+P+P I W R + A+ +P + I + L P ED Y C
Sbjct: 23 EIECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGKLVFPPFRAEDYRQEVHAQVYAC 82
Query: 144 VAQNGIGRGARRKIEVK 160
+A+N G R + V+
Sbjct: 83 LARNQFGSIISRDVHVR 99
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 13/38 (34%), Positives = 18/38 (47%)
Query: 13 PVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRN 50
PV L T ++EC A G+P+P I W R+
Sbjct: 4 PVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRS 41
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 10/28 (35%), Positives = 16/28 (57%)
Query: 28 GQSVQLECHAEGHPIPTISWRRNFKRLG 55
G+ C G+PI T+SW ++ K +G
Sbjct: 325 GRPAVFTCQYTGNPIKTVSWMKDGKAIG 352
>pdb|2YR3|A Chain A, Solution Structure Of The Fourth Ig-Like Domain From
Myosin Light Chain Kinase, Smooth Muscle
Length = 99
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/65 (35%), Positives = 31/65 (47%), Gaps = 1/65 (1%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTG-STLQIPRITKEDRGAYYCVAQ 146
EGQ L+C G P+P I+W I T G + L I ED G Y C+A+
Sbjct: 25 EGQDFVLQCSVRGTPVPRITWLLNGQPIQYARSTCEAGVAELHIQDALPEDHGTYTCLAE 84
Query: 147 NGIGR 151
N +G+
Sbjct: 85 NALGQ 89
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 14/24 (58%)
Query: 27 EGQSVQLECHAEGHPIPTISWRRN 50
EGQ L+C G P+P I+W N
Sbjct: 25 EGQDFVLQCSVRGTPVPRITWLLN 48
>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 = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 31/66 (46%), Gaps = 1/66 (1%)
Query: 82 QLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAY 141
++ V K+GQ V + C G P P + W N L G+ T S L I + D+G Y
Sbjct: 317 KVIVVKQGQDVTIPCKVTGLPAPNVVWSH-NAKPLSGGRATVTDSGLVIKGVKNGDKGYY 375
Query: 142 YCVAQN 147
C A N
Sbjct: 376 GCRATN 381
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/145 (28%), Positives = 61/145 (42%), Gaps = 24/145 (16%)
Query: 70 VDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPT-ISWRR--------ENNAILPNGQ 120
VD PV L + P + +E LEC EG+ SW++ E+NA L +
Sbjct: 3 VDKYPV-LKDQPAEVLFRENNPTVLECIIEGNDQGVKYSWKKDGKSYNWQEHNAALRKDE 61
Query: 121 TIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEF---APIVTVQSTRI-GQ 176
+L R D G Y C A+ G + R I + + +P T + T I G+
Sbjct: 62 -----GSLVFLRPQASDEGHYQCFAETPAGVASSRVISFRKTYLIASPAKTHEKTPIEGR 116
Query: 177 ALHHDMDLDCHI-EAYPHPILYWAK 200
LDC + AYP P++ W K
Sbjct: 117 PFQ----LDCVLPNAYPKPLITWKK 137
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 56/267 (20%), Positives = 93/267 (34%), Gaps = 66/267 (24%)
Query: 27 EGQSVQLEC-HAEGHPIPTISWRR------------NFKRL------GRLHLAIPY---- 63
EG+ QL+C +P P I+W++ +F R G L+ I
Sbjct: 114 EGRPFQLDCVLPNAYPKPLITWKKRLSGADPNADVTDFDRRITAGPDGNLYFTIVTKEDV 173
Query: 64 --------TSPEAQVDTPPVIL---------NNS-------PQL----SVAKEGQSVQLE 95
T+ A VD V++ +NS PQ +AK G +
Sbjct: 174 SDIYKYVCTAKNAAVDEEVVLVEYEIKGVTKDNSGYKGEPVPQYVSKDMMAKAGDVTMIY 233
Query: 96 CHAEGHPIPTISWRRENNAILPNGQTIFT------GSTLQIPRITKEDRGAYYCVAQNGI 149
C +P+ ++ + + N + T G L ED G Y C NG+
Sbjct: 234 CMYGSNPMGYPNYFKNGKDVNGNPEDRITRHNRTSGKRLLFKTTLPEDEGVYTCEVDNGV 293
Query: 150 GRGARRKIEVKVEFAPIVTVQSTRIGQALH-HDMDLDCHIEAYPHPILYWAKD------G 202
G+ + +++ V AP + ++ D+ + C + P P + W+ + G
Sbjct: 294 GKPQKHSLKLTVVSAPKYEQKPEKVIVVKQGQDVTIPCKVTGLPAPNVVWSHNAKPLSGG 353
Query: 203 EIVVNDEYHSISNFGTSEGTTGSLQCK 229
V D I G G G C+
Sbjct: 354 RATVTDSGLVIK--GVKNGDKGYYGCR 378
Score = 31.2 bits (69), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 18/34 (52%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRL 54
++ V K+GQ V + C G P P + W N K L
Sbjct: 317 KVIVVKQGQDVTIPCKVTGLPAPNVVWSHNAKPL 350
>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 = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 34/76 (44%), Gaps = 6/76 (7%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIF-----TGS-TLQIPRIT 134
PQ EG SV+LEC P P + W+R N + N I TG TL I +
Sbjct: 22 PQSKKVLEGDSVKLECQISAIPPPKLFWKRNNEMVQFNTDRISLYQDNTGRVTLLIKDVN 81
Query: 135 KEDRGAYYCVAQNGIG 150
K+D G Y A N G
Sbjct: 82 KKDAGWYTVSAVNEAG 97
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 15/24 (62%)
Query: 27 EGQSVQLECHAEGHPIPTISWRRN 50
EG SV+LEC P P + W+RN
Sbjct: 29 EGDSVKLECQISAIPPPKLFWKRN 52
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 10/22 (45%), Positives = 15/22 (68%)
Query: 184 LDCHIEAYPHPILYWAKDGEIV 205
L+C I A P P L+W ++ E+V
Sbjct: 35 LECQISAIPPPKLFWKRNNEMV 56
>pdb|1E07|A Chain A, Model Of Human Carcinoembryonic Antigen By Homology
Modelling And Curve-Fitting To Experimental Solution
Scattering Data
Length = 642
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 53/233 (22%), Positives = 86/233 (36%), Gaps = 31/233 (13%)
Query: 26 KEGQSVQLECHAEGHPIPTISWRRN--FKRLGRLHLAIP---------YTSPEAQVDT-- 72
+ G+++ L CHA +P SW N F++ + L IP YT DT
Sbjct: 216 RSGENLNLSCHAASNPPAQYSWFVNGTFQQSTQ-ELFIPNITVNNSGSYTCQAHNSDTGL 274
Query: 73 -------------PPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISW-RRENNAILPN 118
PP S + ++ +V L C E + W ++ + P
Sbjct: 275 NRTTVTTITVYAEPPKPFITSNNSNPVEDEDAVALTCEPEIQNTTYLWWVNNQSLPVSPR 334
Query: 119 GQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIV-TVQSTRIGQA 177
Q TL + +T+ D G Y C QN + + + V + P T+ +
Sbjct: 335 LQLSNDNRTLTLLSVTRNDVGPYECGIQNELSVDHSDPVILNVLYGPDDPTISPSYTYYR 394
Query: 178 LHHDMDLDCHIEAYPHPILYWAKDGEIVVNDEYHSISNFGTSEGTTGSLQCKV 230
++ L CH + P W DG I + + ISN +E +G C+
Sbjct: 395 PGVNLSLSCHAASNPPAQYSWLIDGNIQQHTQELFISNI--TEKNSGLYTCQA 445
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 41/207 (19%), Positives = 72/207 (34%), Gaps = 33/207 (15%)
Query: 26 KEGQSVQLECHAEGHPIPTISW----------------------------RRNFKRLGRL 57
+ G ++ L CHA +P SW + N G
Sbjct: 394 RPGVNLSLSCHAASNPPAQYSWLIDGNIQQHTQELFISNITEKNSGLYTCQANNSASGHS 453
Query: 58 HLAIPYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISW-RRENNAIL 116
+ + A++ P + NNS + ++ +V C E + W ++ +
Sbjct: 454 RTTVKTITVSAELPKPSISSNNSKPV---EDKDAVAFTCEPEAQNTTYLWWVNGQSLPVS 510
Query: 117 PNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQ 176
P Q TL + +T+ D AY C QN + + + V + P + S
Sbjct: 511 PRLQLSNGNRTLTLFNVTRNDARAYVCGIQNSVSANRSDPVTLDVLYGPDTPIISPPDSS 570
Query: 177 ALH-HDMDLDCHIEAYPHPILYWAKDG 202
L +++L CH + P P W +G
Sbjct: 571 YLSGANLNLSCHSASNPSPQYSWRING 597
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 38/161 (23%), Positives = 62/161 (38%), Gaps = 18/161 (11%)
Query: 80 SPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRG 139
SP + + G+++ L CHA +P SW NG + L IP IT + G
Sbjct: 209 SPLNTSYRSGENLNLSCHAASNPPAQYSW-------FVNGTFQQSTQELFIPNITVNNSG 261
Query: 140 AYYCVAQN---GIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHD-MDLDCHIEAYPHPI 195
+Y C A N G+ R I V E P + S D + L C E
Sbjct: 262 SYTCQAHNSDTGLNRTTVTTITVYAE-PPKPFITSNNSNPVEDEDAVALTCEPEIQNTTY 320
Query: 196 LYWAKDGEIVV------NDEYHSISNFGTSEGTTGSLQCKV 230
L+W + + V +++ +++ + G +C +
Sbjct: 321 LWWVNNQSLPVSPRLQLSNDNRTLTLLSVTRNDVGPYECGI 361
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 44/154 (28%), Positives = 62/154 (40%), Gaps = 22/154 (14%)
Query: 67 EAQVD-TPPVILNN---------SPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAIL 116
E VD + PVILN SP + + G ++ L CHA +P SW + N I
Sbjct: 364 ELSVDHSDPVILNVLYGPDDPTISPSYTYYRPGVNLSLSCHAASNPPAQYSWLIDGN-IQ 422
Query: 117 PNGQTIFTGSTLQIPRITKEDRGAYYCVAQN---GIGRGARRKIEVKVEFAPIVTVQSTR 173
+ Q +F I IT+++ G Y C A N G R + I V E P ++ S
Sbjct: 423 QHTQELF------ISNITEKNSGLYTCQANNSASGHSRTTVKTITVSAEL-PKPSISSNN 475
Query: 174 IGQALHHD-MDLDCHIEAYPHPILYWAKDGEIVV 206
D + C EA L+W + V
Sbjct: 476 SKPVEDKDAVAFTCEPEAQNTTYLWWVNGQSLPV 509
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 35/83 (42%), Gaps = 12/83 (14%)
Query: 71 DTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQI 130
DTP + SP S G ++ L CH+ +P P SWR +P T L I
Sbjct: 560 DTPII----SPPDSSYLSGANLNLSCHSASNPSPQYSWRING---IPQQHT----QVLFI 608
Query: 131 PRITKEDRGAYYCVAQN-GIGRG 152
+IT + G Y C N GR
Sbjct: 609 AKITPNNNGTYACFVSNLATGRN 631
Score = 35.0 bits (79), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 32/160 (20%), Positives = 60/160 (37%), Gaps = 7/160 (4%)
Query: 73 PPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISW-RRENNAILPNGQTIFTGSTLQIP 131
P + NNS + ++ +V C E + W ++ + P Q TL +
Sbjct: 113 PSISSNNSKPV---EDKDAVAFTCEPETQDATYLWWVNNQSLPVSPRLQLSNGNRTLTLF 169
Query: 132 RITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIV-TVQSTRIGQALHHDMDLDCHIEA 190
+T+ D +Y C QN + + + V + P T+ +++L CH +
Sbjct: 170 NVTRNDTASYKCETQNPVSARRSDSVILNVLYGPDAPTISPLNTSYRSGENLNLSCHAAS 229
Query: 191 YPHPILYWAKDGEIVVNDEYHSISNFGTSEGTTGSLQCKV 230
P W +G + + I N + +GS C+
Sbjct: 230 NPPAQYSWFVNGTFQQSTQELFIPNITVNN--SGSYTCQA 267
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 10 DTPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRN 50
DTP + +S+ LS G ++ L CH+ +P P SWR N
Sbjct: 560 DTPIISPPDSSYLS----GANLNLSCHSASNPSPQYSWRIN 596
>pdb|1FH5|L Chain L, Crystal Structure Of The Fab Fragment Of The Monoclonal
Antibody Mak33
Length = 213
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 42/151 (27%), Positives = 61/151 (40%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G+SV L C A + W ++ + P Q+I
Sbjct: 2 IVLTQSPATLSVTPGESVSLSCRASQSISNNLHWYQQKSHESPRLLIKYASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS TL I + ED G YYC N + GA K+E+K + AP V++
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYYCQQSNSWPLTFGAGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|2EO9|A Chain A, Solution Structure Of The Fifth Ig-Like Domain From Human
Roundabout Homo1
Length = 118
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 37/104 (35%), Positives = 45/104 (43%), Gaps = 7/104 (6%)
Query: 73 PPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI--FTGSTLQI 130
PPVI +VA +G V L C A G P+PTI WR++ + I LQI
Sbjct: 8 PPVIRQGPVNQTVAVDGTFV-LSCVATGSPVPTILWRKDGVLVSTQDSRIKQLENGVLQI 66
Query: 131 PRITKEDRGAYYCVAQNGIGRGARRK-IEVKVEFAPIVTVQSTR 173
D G Y C+A G IEV+ EF V VQ R
Sbjct: 67 RYAKLGDTGRYTCIASTPSGEATWSAYIEVQ-EFG--VPVQPPR 107
Score = 36.2 bits (82), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/39 (46%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 12 PPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRN 50
PPVI +VA +G V L C A G P+PTI WR++
Sbjct: 8 PPVIRQGPVNQTVAVDGTFV-LSCVATGSPVPTILWRKD 45
>pdb|1EGJ|H Chain H, Domain 4 Of The Beta Common Chain In Complex With An
Antibody
Length = 220
Score = 40.4 bits (93), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 36/150 (24%), Positives = 60/150 (40%), Gaps = 36/150 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRENNA--------ILP-NGQTIF---------- 123
+ K G SV++ C A G+ + W + ++ I P NG T++
Sbjct: 11 LVKPGTSVKMSCKASGYTFTDYYMKWVKHSHGKSLEWIGDINPSNGGTLYNQKFKGKATL 70
Query: 124 ------TGSTLQIPRITKEDRGAYYCVAQNGI-------GRGARRKIEVKVEFAPIVTVQ 170
+ +++Q+ R+T ED YYC +GI G+G + AP V
Sbjct: 71 TVDKSSSTASMQLSRLTSEDSAVYYCSRGDGIHGGFAYWGQGTTVTVSSAKTTAPSVYPL 130
Query: 171 STRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 131 APVCGDTTGSSVTLGCLVKGYFPEPVTLTW 160
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 40.4 bits (93), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 7/82 (8%)
Query: 74 PVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ-----TIFTGSTL 128
PVI+ L+V EG + +L+C A + ++SW N ++ +G + + TL
Sbjct: 342 PVIVEPPADLNVT-EGMAAELKCRAST-SLTSVSWITPNGTVMTHGAYKVRIAVLSDGTL 399
Query: 129 QIPRITKEDRGAYYCVAQNGIG 150
+T +D G Y C+ N +G
Sbjct: 400 NFTNVTVQDTGMYTCMVSNSVG 421
>pdb|3O0R|L Chain L, Crystal Structure Of Nitric Oxide Reductase From
Pseudomonas Aeruginosa In Complex With Antibody Fragment
Length = 213
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 63/151 (41%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRE-----NNAILPNGQTI------- 122
+ + SP A G+++ + C A ++W +E N ++ +G T+
Sbjct: 2 IQMTQSPPYLAASPGETITINCRASKSIRKYLAWYQEKPGKTNKLLIYSGSTLQFGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS TL I + ED YYC N + GA K+E+K + AP V++
Sbjct: 62 FSGSGSGTEFTLTISSLEPEDFAMYYCQQHNEYPLTFGAGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3FMG|L Chain L, Structure Of Rotavirus Outer Capsid Protein Vp7 Trimer In
Co A Neutralizing Fab
Length = 211
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 63/151 (41%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-----------ILPNG-QTI 122
+ + SP A G++V + C + ++W ++ LP G +
Sbjct: 2 IQMTQSPASLSASVGETVTITCRPSENIYSYLAWYQQKQGKSPQLLVYKAKTLPEGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L+I + ED G YYC NG + GA K+E+K + AP V++
Sbjct: 62 FSGSGSGTHFSLKISSVQPEDFGTYYCQHHNGPPLTFGAGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SKQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>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 = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 30/70 (42%), Gaps = 5/70 (7%)
Query: 80 SPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRG 139
+P+ GQ V+L C A GHP W + N I PNG T S L + +D G
Sbjct: 24 NPESKAVLAGQFVKLCCRATGHPFVQYQWFKMNKEI-PNGNT----SELIFNAVHVKDAG 78
Query: 140 AYYCVAQNGI 149
Y C N
Sbjct: 79 FYVCRVNNNF 88
Score = 35.0 bits (79), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 34/74 (45%), Gaps = 5/74 (6%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNG 148
G ++ L+C A G PIP W + LP T T +P + E +G Y+C N
Sbjct: 133 GSTLVLQCVAVGSPIPHYQWFKNE---LP--LTHETKKLYMVPYVDLEHQGTYWCHVYND 187
Query: 149 IGRGARRKIEVKVE 162
+K+E+ ++
Sbjct: 188 RDSQDSKKVEIIID 201
>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 = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 64/149 (42%), Gaps = 23/149 (15%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTI-------FT 124
+ SP A G++V + C A + ++W ++ P N +T+ F+
Sbjct: 4 MTQSPASLSASVGETVTITCRASENIYSYLAWYQQKQGKSPQLLVYNAKTLAEGVPSRFS 63
Query: 125 GS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTRIG 175
GS +L+I + ED G+YYC G + GA K+E+K + AP V++
Sbjct: 64 GSGSGTQFSLKINSLQPEDFGSYYCQHHYGTPLTFGAGTKLELKRADAAPTVSIFPPSSE 123
Query: 176 QALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 124 QLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1PSK|L Chain L, The Crystal Structure Of An Fab Fragment That Binds To The
Melanoma-Associated Gd2 Ganglioside
Length = 213
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 61/151 (40%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTIFTG---- 125
++L SP + A G+ V + C A + I W ++ P + T+ +G
Sbjct: 2 IVLTQSPAIMSASPGEKVTITCSASSS-VSNIHWFQQKPGTFPKLWIYSTSTLASGVPGR 60
Query: 126 ---------STLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
+L I R+ ED YYC ++G G+ K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTISRMGAEDAATYYCQQRSGYPFTFGSGTKLEIKRADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>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 = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 38/151 (25%), Positives = 58/151 (38%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN---------------- 118
V+L SP + A G+ V + C A + + W ++ P
Sbjct: 2 VVLTQSPGIMSASPGEKVTITCSASSS-VSYMYWFQQKPGTSPKLWIYSTSNLASGVPAR 60
Query: 119 --GQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTR 173
G T +L I R+ ED YYC ++G R G K+E+K + AP V++
Sbjct: 61 FRGSGSGTSYSLTISRMEAEDAATYYCQQRSGYPRTFGGGTKLEIKRADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/130 (23%), Positives = 54/130 (41%), Gaps = 10/130 (7%)
Query: 94 LECHAEGHPIPTISWRRENNAILPNGQTI----FTGS--TLQIPRITKEDRGAYYCVAQN 147
L C GHP P + W R+ I+ +G F G L I +T +D Y A N
Sbjct: 24 LVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQLIIASVTDDDATVYQVRATN 83
Query: 148 ---GIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHD-MDLDCHIEAYPHPILYWAKDGE 203
+ A ++EV + T++ AL + + + P P++ W K +
Sbjct: 84 QGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVSIKIPFSGKPDPVITWQKGQD 143
Query: 204 IVVNDEYHSI 213
++ N+ ++ +
Sbjct: 144 LIDNNGHYQV 153
Score = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 5/70 (7%)
Query: 86 AKEGQSVQLECHAEGHPIPTISWRRENNAILPNG--QTIFTGS--TLQIPR-ITKEDRGA 140
A G+ V ++ G P P I+W++ + I NG Q I T S +L P + ++D G
Sbjct: 116 ALRGEVVSIKIPFSGKPDPVITWQKGQDLIDNNGHYQVIVTRSFTSLVFPNGVERKDAGF 175
Query: 141 YYCVAQNGIG 150
Y A+N G
Sbjct: 176 YVVCAKNRFG 185
>pdb|1XGP|B Chain B, Structure For Antibody Hyhel-63 Y33a Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 34/145 (23%), Positives = 53/145 (36%), Gaps = 30/145 (20%)
Query: 84 SVAKEGQSVQLECHAEGHPIPTISW----RRENNAILPNGQTIFTGST------------ 127
S+ K Q++ L C G + + +W + N + G ++GST
Sbjct: 10 SLVKPSQTLSLTCSVTGDSVTSDAWSWIRKFPGNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 128 ----------LQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVKVEFAPIVTVQSTRIG 175
LQ+ +T ED YYC + G G G + AP V + G
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCG 129
Query: 176 QALHHDMDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTW 154
>pdb|1IGT|A Chain A, Structure Of Immunoglobulin
pdb|1IGT|C Chain C, Structure Of Immunoglobulin
Length = 214
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 39/153 (25%), Positives = 60/153 (39%), Gaps = 27/153 (17%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP----------------- 117
++L SP A G ++ + CHA + +SW ++ +P
Sbjct: 2 IVLTQSPSSLSASLGDTITITCHASQNINVWLSWYQQKPGNIPKLLIYKASNLHTGVPSR 61
Query: 118 -NGQTIFTGSTLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVK-VEFAPIVTVQS 171
+G TG TL I + ED YYC Q G + G K+E+K + AP V++
Sbjct: 62 FSGSGSGTGFTLTISSLQPEDIATYYC--QQGQSYPLTFGGGTKLEIKRADAAPTVSIFP 119
Query: 172 TRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 120 PSSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 32/158 (20%), Positives = 63/158 (39%), Gaps = 19/158 (12%)
Query: 56 RLHLAIPYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI 115
R+ +A +TSPE +L ++V+ +C + G P PT+ W +
Sbjct: 8 RMPVAPYWTSPEKM----------EKKLHAVPAAKTVKFKCPSSGTPQPTLRWLKNGKEF 57
Query: 116 LPNG-----QTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQ 170
P+ + + ++ + + D+G Y C+ +N G VE +P +
Sbjct: 58 KPDHRIGGYKVRYATWSIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVERSPHRPIL 117
Query: 171 STRIGQ----ALHHDMDLDCHIEAYPHPILYWAKDGEI 204
+ AL +++ C + + P P + W K E+
Sbjct: 118 QAGLPANKTVALGSNVEFMCKVYSDPQPHIQWLKHIEV 155
Score = 33.9 bits (76), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 43/204 (21%), Positives = 70/204 (34%), Gaps = 65/204 (31%)
Query: 2 YTSPESQVDTPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFK--------- 52
+TSPE +L ++V+ +C + G P PT+ W +N K
Sbjct: 15 WTSPEKM----------EKKLHAVPAAKTVKFKCPSSGTPQPTLRWLKNGKEFKPDHRIG 64
Query: 53 ----RLGRLHLAIPYTSPEAQVDTPPVI------LNNSPQLSVAKE-------------- 88
R + + P + + ++ +N++ QL V +
Sbjct: 65 GYKVRYATWSIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVERSPHRPILQAGLPAN 124
Query: 89 -----GQSVQLECHAEGHPIPTISWRR--ENNAI------LPNGQTIFTGST-------- 127
G +V+ C P P I W + E N LP Q + T
Sbjct: 125 KTVALGSNVEFMCKVYSDPQPHIQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEME 184
Query: 128 -LQIPRITKEDRGAYYCVAQNGIG 150
L + ++ ED G Y C+A N IG
Sbjct: 185 VLHLRNVSFEDAGEYTCLAGNSIG 208
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 32/158 (20%), Positives = 63/158 (39%), Gaps = 19/158 (12%)
Query: 56 RLHLAIPYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI 115
R+ +A +TSPE +L ++V+ +C + G P PT+ W +
Sbjct: 8 RMPVAPYWTSPEKM----------EKKLHAVPAAKTVKFKCPSSGTPNPTLRWLKNGKEF 57
Query: 116 LPNG-----QTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQ 170
P+ + + ++ + + D+G Y C+ +N G VE +P +
Sbjct: 58 KPDHRIGGYKVRYATWSIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVERSPHRPIL 117
Query: 171 STRIGQ----ALHHDMDLDCHIEAYPHPILYWAKDGEI 204
+ AL +++ C + + P P + W K E+
Sbjct: 118 QAGLPANKTVALGSNVEFMCKVYSDPQPHIQWLKHIEV 155
Score = 33.9 bits (76), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 43/204 (21%), Positives = 70/204 (34%), Gaps = 65/204 (31%)
Query: 2 YTSPESQVDTPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFK--------- 52
+TSPE +L ++V+ +C + G P PT+ W +N K
Sbjct: 15 WTSPEKM----------EKKLHAVPAAKTVKFKCPSSGTPNPTLRWLKNGKEFKPDHRIG 64
Query: 53 ----RLGRLHLAIPYTSPEAQVDTPPVI------LNNSPQLSVAKE-------------- 88
R + + P + + ++ +N++ QL V +
Sbjct: 65 GYKVRYATWSIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVERSPHRPILQAGLPAN 124
Query: 89 -----GQSVQLECHAEGHPIPTISWRR--ENNAI------LPNGQTIFTGST-------- 127
G +V+ C P P I W + E N LP Q + T
Sbjct: 125 KTVALGSNVEFMCKVYSDPQPHIQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEME 184
Query: 128 -LQIPRITKEDRGAYYCVAQNGIG 150
L + ++ ED G Y C+A N IG
Sbjct: 185 VLHLRNVSFEDAGEYTCLAGNSIG 208
>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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 32/158 (20%), Positives = 63/158 (39%), Gaps = 19/158 (12%)
Query: 56 RLHLAIPYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI 115
R+ +A +TSPE +L ++V+ +C + G P PT+ W +
Sbjct: 9 RMPVAPYWTSPEKM----------EKKLHAVPAAKTVKFKCPSSGTPQPTLRWLKNGKEF 58
Query: 116 LPNG-----QTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQ 170
P+ + + ++ + + D+G Y C+ +N G VE +P +
Sbjct: 59 KPDHRIGGYKVRYATWSIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVERSPHRPIL 118
Query: 171 STRIGQ----ALHHDMDLDCHIEAYPHPILYWAKDGEI 204
+ AL +++ C + + P P + W K E+
Sbjct: 119 QAGLPANKTVALGSNVEFMCKVYSDPQPHIQWLKHIEV 156
Score = 33.9 bits (76), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 43/204 (21%), Positives = 70/204 (34%), Gaps = 65/204 (31%)
Query: 2 YTSPESQVDTPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFK--------- 52
+TSPE +L ++V+ +C + G P PT+ W +N K
Sbjct: 16 WTSPEKM----------EKKLHAVPAAKTVKFKCPSSGTPQPTLRWLKNGKEFKPDHRIG 65
Query: 53 ----RLGRLHLAIPYTSPEAQVDTPPVI------LNNSPQLSVAKE-------------- 88
R + + P + + ++ +N++ QL V +
Sbjct: 66 GYKVRYATWSIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVERSPHRPILQAGLPAN 125
Query: 89 -----GQSVQLECHAEGHPIPTISWRR--ENNAI------LPNGQTIFTGST-------- 127
G +V+ C P P I W + E N LP Q + T
Sbjct: 126 KTVALGSNVEFMCKVYSDPQPHIQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEME 185
Query: 128 -LQIPRITKEDRGAYYCVAQNGIG 150
L + ++ ED G Y C+A N IG
Sbjct: 186 VLHLRNVSFEDAGEYTCLAGNSIG 209
>pdb|3G5Z|A Chain A, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 213
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 38/151 (25%), Positives = 61/151 (40%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+++ SP G +V + CHA I I W ++ ++ +G +
Sbjct: 2 ILMTQSPSSMSVSLGDTVSITCHASQDIISNIGWLQQKPGKSFAGLIYHGTNLSDGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEV-KVEFAPIVTVQSTR 173
F+GS +L I + ED YYCV AQ G K+E+ + + AP V++
Sbjct: 62 FSGSGSGADYSLTISSLESEDFADYYCVQYAQFPWTFGGGTKLEIARADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1NDG|B Chain B, Crystal Structure Of Fab Fragment Of Antibody Hyhel-8
Complexed With Its Antigen Lysozyme
Length = 210
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 37/145 (25%), Positives = 53/145 (36%), Gaps = 30/145 (20%)
Query: 84 SVAKEGQSVQLECHAEGHPI--PTISWRRE--NNAILPNGQTIFTGST------------ 127
S+ K Q++ L C G I SW R+ N + G F+G+T
Sbjct: 10 SLVKPSQTLSLTCSVTGDSIIRDYWSWIRKFPGNKLEYMGYISFSGNTFYHPSLKSRISI 69
Query: 128 ----------LQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVKVEFAPIVTVQSTRIG 175
LQ+ +T ED YYC +G G G + AP V + G
Sbjct: 70 TRDTSKNQHYLQLSSVTTEDTATYYCANWDGTYWGEGTLVTVSAAKTTAPSVYPLAPVCG 129
Query: 176 QALHHDMDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTW 154
>pdb|1XGR|B Chain B, Structure For Antibody Hyhel-63 Y33i Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/145 (24%), Positives = 54/145 (37%), Gaps = 30/145 (20%)
Query: 84 SVAKEGQSVQLECHAEGHPIPT--ISWRRE--NNAILPNGQTIFTGST------------ 127
S+ K Q++ L C G + + SW R+ N + G ++GST
Sbjct: 10 SLVKPSQTLSLTCSVTGDSVTSDIWSWIRKFPGNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 128 ----------LQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVKVEFAPIVTVQSTRIG 175
LQ+ +T ED YYC + G G G + AP V + G
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCG 129
Query: 176 QALHHDMDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTW 154
>pdb|1JNL|L Chain L, Crystal Structure Of Fab-Estradiol Complexes
pdb|1JNN|L Chain L, Crystal Structure Of Fab-Estradiol Complexes
Length = 211
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 63/151 (41%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTI------- 122
+++ +P A G++V + C A G+ ++W ++ P N +T+
Sbjct: 2 IVMTQTPASLSASVGETVTITCRASGNIYNYLAWYQQKQGKSPQLLVYNAKTLVDGVPLR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L+I + ED G YYC G K+E+K + AP V++
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGNYYCHHFWNTPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1XGT|B Chain B, Structure For Antibody Hyhel-63 Y33l Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/145 (24%), Positives = 54/145 (37%), Gaps = 30/145 (20%)
Query: 84 SVAKEGQSVQLECHAEGHPIPT--ISWRRE--NNAILPNGQTIFTGST------------ 127
S+ K Q++ L C G + + SW R+ N + G ++GST
Sbjct: 10 SLVKPSQTLSLTCSVTGDSVTSDLWSWIRKFPGNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 128 ----------LQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVKVEFAPIVTVQSTRIG 175
LQ+ +T ED YYC + G G G + AP V + G
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCG 129
Query: 176 QALHHDMDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTW 154
>pdb|1DQJ|B Chain B, Crystal Structure Of The Anti-Lysozyme Antibody Hyhel-63
Complexed With Hen Egg White Lysozyme
pdb|1DQM|H Chain H, Crystal Structure Of Anti-Lysozyme Antibody
pdb|1DQQ|B Chain B, Crystal Structure Of Anti-Lysozyme Antibody Hyhel-63
pdb|1DQQ|D Chain D, Crystal Structure Of Anti-Lysozyme Antibody Hyhel-63
pdb|1NBY|B Chain B, Crystal Structure Of Hyhel-63 Complexed With Hel Mutant
K96a
pdb|1NBZ|B Chain B, Crystal Structure Of Hyhel-63 Complexed With Hel Mutant
K97a
Length = 210
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/145 (24%), Positives = 54/145 (37%), Gaps = 30/145 (20%)
Query: 84 SVAKEGQSVQLECHAEGHPIPT--ISWRRE--NNAILPNGQTIFTGST------------ 127
S+ K Q++ L C G + + SW R+ N + G ++GST
Sbjct: 10 SLVKPSQTLSLTCSVTGDSVTSDYWSWIRKFPGNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 128 ----------LQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVKVEFAPIVTVQSTRIG 175
LQ+ +T ED YYC + G G G + AP V + G
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCG 129
Query: 176 QALHHDMDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTW 154
>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 = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/130 (23%), Positives = 54/130 (41%), Gaps = 10/130 (7%)
Query: 94 LECHAEGHPIPTISWRRENNAILPNGQTI----FTGS--TLQIPRITKEDRGAYYCVAQN 147
L C GHP P + W R+ I+ +G F G L I +T +D Y A N
Sbjct: 24 LVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQLIIASVTDDDATVYQVRATN 83
Query: 148 ---GIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHD-MDLDCHIEAYPHPILYWAKDGE 203
+ A ++EV + T++ AL + + + P P++ W K +
Sbjct: 84 QGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVSIKIPFSGKPDPVITWQKGQD 143
Query: 204 IVVNDEYHSI 213
++ N+ ++ +
Sbjct: 144 LIDNNGHYQV 153
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 5/70 (7%)
Query: 86 AKEGQSVQLECHAEGHPIPTISWRRENNAILPNG--QTIFTGS--TLQIPR-ITKEDRGA 140
A G+ V ++ G P P I+W++ + I NG Q I T S +L P + ++D G
Sbjct: 116 ALRGEVVSIKIPFSGKPDPVITWQKGQDLIDNNGHYQVIVTRSFTSLVFPNGVERKDAGF 175
Query: 141 YYCVAQNGIG 150
Y A+N G
Sbjct: 176 YVVCAKNRFG 185
>pdb|1XGQ|B Chain B, Structure For Antibody Hyhel-63 Y33v Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/145 (24%), Positives = 54/145 (37%), Gaps = 30/145 (20%)
Query: 84 SVAKEGQSVQLECHAEGHPIPT--ISWRRE--NNAILPNGQTIFTGST------------ 127
S+ K Q++ L C G + + SW R+ N + G ++GST
Sbjct: 10 SLVKPSQTLSLTCSVTGDSVTSDVWSWIRKFPGNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 128 ----------LQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVKVEFAPIVTVQSTRIG 175
LQ+ +T ED YYC + G G G + AP V + G
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCG 129
Query: 176 QALHHDMDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTW 154
>pdb|1XGU|B Chain B, Structure For Antibody Hyhel-63 Y33f Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/145 (24%), Positives = 54/145 (37%), Gaps = 30/145 (20%)
Query: 84 SVAKEGQSVQLECHAEGHPIPT--ISWRRE--NNAILPNGQTIFTGST------------ 127
S+ K Q++ L C G + + SW R+ N + G ++GST
Sbjct: 10 SLVKPSQTLSLTCSVTGDSVTSDFWSWIRKFPGNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 128 ----------LQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVKVEFAPIVTVQSTRIG 175
LQ+ +T ED YYC + G G G + AP V + G
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCG 129
Query: 176 QALHHDMDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTW 154
>pdb|2ILL|A Chain A, Anomalous Substructure Of Titin-A168169
Length = 195
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 30/130 (23%), Positives = 54/130 (41%), Gaps = 10/130 (7%)
Query: 94 LECHAEGHPIPTISWRRENNAILPNGQTI----FTGS--TLQIPRITKEDRGAYYCVAQN 147
L C GHP P + W R+ I+ +G F G L I +T +D Y A N
Sbjct: 22 LVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQLIIASVTDDDATVYQVRATN 81
Query: 148 ---GIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHD-MDLDCHIEAYPHPILYWAKDGE 203
+ A ++EV + T++ AL + + + P P++ W K +
Sbjct: 82 QGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVSIKIPFSGKPDPVITWQKGQD 141
Query: 204 IVVNDEYHSI 213
++ N+ ++ +
Sbjct: 142 LIDNNGHYQV 151
Score = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 5/70 (7%)
Query: 86 AKEGQSVQLECHAEGHPIPTISWRRENNAILPNG--QTIFTGS--TLQIPR-ITKEDRGA 140
A G+ V ++ G P P I+W++ + I NG Q I T S +L P + ++D G
Sbjct: 114 ALRGEVVSIKIPFSGKPDPVITWQKGQDLIDNNGHYQVIVTRSFTSLVFPNGVERKDAGF 173
Query: 141 YYCVAQNGIG 150
Y A+N G
Sbjct: 174 YVVCAKNRFG 183
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT-----GSTLQIPRITKEDRGAYY 142
EG + + +C EG+P P + W +++N + + +L I + +D Y
Sbjct: 55 EGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHFQIDYDEEGNCSLTISEVCGDDDAKYT 114
Query: 143 CVAQNGIGRG 152
C A N +G
Sbjct: 115 CKAVNSLGEA 124
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 8/24 (33%), Positives = 15/24 (62%)
Query: 27 EGQSVQLECHAEGHPIPTISWRRN 50
EG + + +C EG+P P + W ++
Sbjct: 55 EGSAARFDCKVEGYPDPEVMWFKD 78
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 184 LDCHIEAYPHPILYWAKD 201
DC +E YP P + W KD
Sbjct: 61 FDCKVEGYPDPEVMWFKD 78
>pdb|1YQV|H Chain H, The Crystal Structure Of The Antibody Fab Hyhel5 Complex
With Lysozyme At 1.7a Resolution
Length = 215
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/143 (24%), Positives = 54/143 (37%), Gaps = 32/143 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SV++ C A G+ I W ++ ILP G+ F
Sbjct: 11 LMKPGASVKISCKASGYTFSDYWIEWVKQRPGHGLEWIGEILPGSGSTNYHERFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQN----GIGRGARRKIEVKVEFAPIVTVQSTR 173
T T +Q+ +T ED G YYC+ N G G+G + P V +
Sbjct: 71 TADTSSSTAYMQLNSLTSEDSGVYYCLHGNYDFDGWGQGTTLTVSSAKTTPPSVYPLAPG 130
Query: 174 IGQALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 SAAQTNSMVTLGCLVKGYFPEPV 153
>pdb|1FHG|A Chain A, High Resolution Refinement Of Telokin
Length = 154
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 17/70 (24%), Positives = 31/70 (44%), Gaps = 5/70 (7%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT-----GSTLQIPRITKEDRGAYY 142
EG + + +C EG+P P + W +++N + + +L I + +D Y
Sbjct: 55 EGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHFQIDYDEEGNCSLTISEVCGDDDAKYT 114
Query: 143 CVAQNGIGRG 152
C A N +G
Sbjct: 115 CKAVNSLGEA 124
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 9/18 (50%), Positives = 11/18 (61%)
Query: 184 LDCHIEAYPHPILYWAKD 201
DC +E YP P + W KD
Sbjct: 61 FDCKVEGYPDPEVMWFKD 78
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 8/24 (33%), Positives = 15/24 (62%)
Query: 27 EGQSVQLECHAEGHPIPTISWRRN 50
EG + + +C EG+P P + W ++
Sbjct: 55 EGSAARFDCKVEGYPDPEVMWFKD 78
>pdb|2IFF|H Chain H, Structure Of An Antibody-Lysozyme Complex: Effect Of A
Conservative Mutation
pdb|1BQL|H Chain H, Structure Of An Anti-Hel Fab Fragment Complexed With
Bobwhite Quail Lysozyme
Length = 215
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/143 (24%), Positives = 54/143 (37%), Gaps = 32/143 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SV++ C A G+ I W ++ ILP G+ F
Sbjct: 11 LMKPGASVKISCKASGYTFSDYWIEWVKQRPGHGLEWIGEILPGSGSTNYHERFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQN----GIGRGARRKIEVKVEFAPIVTVQSTR 173
T T +Q+ +T ED G YYC+ N G G+G + P V +
Sbjct: 71 TADTSSSTAYMQLNSLTSEDSGVYYCLHGNYDFDGWGQGTTLTVSSAKTTPPSVYPLAPG 130
Query: 174 IGQALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 SAAQTNSMVTLGCLVKGYFPEPV 153
>pdb|1RY7|B Chain B, Crystal Structure Of The 3 Ig Form Of Fgfr3c In Complex
With Fgf1
Length = 334
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 30/134 (22%), Positives = 52/134 (38%), Gaps = 13/134 (9%)
Query: 82 QLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQ-------IPRIT 134
+L +V+ C A G+P P+ISW + G+ G L+ + +
Sbjct: 131 KLLAVPAANTVRFRCPAAGNPTPSISWLKNGREF--RGEHRIGGIKLRHQQWSLVMESVV 188
Query: 135 KEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRI----GQALHHDMDLDCHIEA 190
DRG Y CV +N G + +E +P + + L D++ C + +
Sbjct: 189 PSDRGNYTCVVENKFGSIRQTYTLDVLERSPHRPILQAGLPANQTAVLGSDVEFHCKVYS 248
Query: 191 YPHPILYWAKDGEI 204
P + W K E+
Sbjct: 249 DAQPHIQWLKHVEV 262
Score = 33.9 bits (76), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 40/185 (21%), Positives = 62/185 (33%), Gaps = 55/185 (29%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFK------RLGRLHLAIPYTSPEAQVDTP- 73
+L +V+ C A G+P P+ISW +N + R+G + L S + P
Sbjct: 131 KLLAVPAANTVRFRCPAAGNPTPSISWLKNGREFRGEHRIGGIKLRHQQWSLVMESVVPS 190
Query: 74 -------------------------------PVILNNSPQLSVAKEGQSVQLECHAEGHP 102
P++ P A G V+ C
Sbjct: 191 DRGNYTCVVENKFGSIRQTYTLDVLERSPHRPILQAGLPANQTAVLGSDVEFHCKVYSDA 250
Query: 103 IPTISWRR----ENNAILPNG-------QTIFTGST------LQIPRITKEDRGAYYCVA 145
P I W + + + P+G +T +T L + +T ED G Y C+A
Sbjct: 251 QPHIQWLKHVEVNGSKVGPDGTPYVTVLKTAGANTTDKELEVLSLHNVTFEDAGEYTCLA 310
Query: 146 QNGIG 150
N IG
Sbjct: 311 GNSIG 315
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 16/60 (26%), Positives = 28/60 (46%), Gaps = 1/60 (1%)
Query: 85 VAKEGQSVQLECHAEGHPIPTIS-WRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC 143
V G +V+L C G + W ++ ++P+ + + LQ+ + ED GAY C
Sbjct: 19 VFGSGDAVELSCPPPGGGPMGPTVWVKDGTGLVPSERVLVGPQRLQVLNASHEDSGAYSC 78
>pdb|2J88|L Chain L, Hyaluronidase In Complex With A Monoclonal Igg Fab
Fragment
Length = 213
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 38/151 (25%), Positives = 63/151 (41%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTI------- 122
+ + SP A G++V + C A + ++W ++ P N +T+
Sbjct: 2 IQMTQSPASLSASVGETVTITCRASENIYSYLTWYQQKQGKSPQLLVYNAKTLAEGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG---IGRGARRKIEVKVEFAPIVTVQSTR 173
F+GS +L+I + ED G YYC G G G R +I+ + + AP V++
Sbjct: 62 FSGSGSGTQFSLKISSLQPEDFGNYYCQHHYGTRTFGGGTRLEIK-RADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|1YNL|H Chain H, Identification Of Key Residues Of The Nc6.8 Fab Antibody
Fragment Binding To Synthetic Sweeterners: Crystal
Structure Of Nc6.8 Co-Crystalized With High Potency
Sweetener Compound Sc45647
Length = 219
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 49/138 (35%), Gaps = 31/138 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SVQ+ C A G+ I W +E ILP G+ F
Sbjct: 11 LMKPGASVQISCKATGYTFSFYWIEWVKERPGHGLEWIGEILPGSGRTNYREKFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCV----AQNGIGRGARRKIEVKVEFAPIVTVQSTR 173
T T +Q+ +T ED YYC + + G+G + P V +
Sbjct: 71 TADTSSNTAYMQLSSLTSEDSAVYYCTRGYSSMDYWGQGTSVTVSAAKTTPPSVYPLAPG 130
Query: 174 IGQALHHDMDLDCHIEAY 191
G + L C ++ Y
Sbjct: 131 CGDTTGSSVTLGCLVKGY 148
>pdb|1KB5|L Chain L, Murine T-Cell Receptor Variable DomainFAB COMPLEX
Length = 214
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 38/151 (25%), Positives = 63/151 (41%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTI------- 122
+ + SP A G++V + C A + ++W ++ P N +T+
Sbjct: 2 IQMTQSPASLSASVGETVTITCRASKNIYSYLAWYQQKQGKSPQLLVYNAKTLGEGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L+I + ED G+YYC G G K+E+K + AP V++
Sbjct: 62 FSGSGSGTQFSLKINSLQPEDFGSYYCQHHYGTPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1MLB|B Chain B, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme
pdb|1MLC|B Chain B, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme Complexed With Lysozyme
pdb|1MLC|D Chain D, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme Complexed With Lysozyme
Length = 218
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/143 (24%), Positives = 53/143 (37%), Gaps = 32/143 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
V K G SV++ C A G+ T I W ++ ILP G+ F
Sbjct: 11 VMKPGASVKISCKATGYTFSTYWIEWVKQRPGHGLEWIGEILPGSGSTYYNEKFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTVQSTR 173
T T +Q+ +T ED YYC +G G+G + P V +
Sbjct: 71 TADTSSNTAYMQLSSLTSEDSAVYYCARGDGNYGYWGQGTTLTVSSASTTPPSVFPLAPG 130
Query: 174 IGQALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 SAAQTNSMVTLGCLVKGYFPEPV 153
>pdb|1YNK|H Chain H, Identification Of Key Residues Of The Nc6.8 Fab Antibody
Fragment Binding To Synthetic Sweeteners: Crystal
Structure Of Nc6.8 Co-Crystalized With High Potency
Sweetener Compound Sc45647
Length = 219
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 49/138 (35%), Gaps = 31/138 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SVQ+ C A G+ I W +E ILP G+ F
Sbjct: 11 LMKPGASVQISCKATGYTFSEYWIEWVKERPGHGLEWIGEILPGSGRTNYREKFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCV----AQNGIGRGARRKIEVKVEFAPIVTVQSTR 173
T T +Q+ +T ED YYC + + G+G + P V +
Sbjct: 71 TADTSSNTAYMQLSSLTSEDSAVYYCTRGYSSMDYWGQGTSVTVSAAKTTPPSVYPLAPG 130
Query: 174 IGQALHHDMDLDCHIEAY 191
G + L C ++ Y
Sbjct: 131 CGDTTGSSVTLGCLVKGY 148
>pdb|3OJD|A Chain A, Anti-Indolicidin Monoclonal Antibody V2d2 (Fab Fragment)
Length = 214
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 62/151 (41%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTI------- 122
+++ +P A G+SV + C A G+ ++W ++ P N T+
Sbjct: 2 IVMTQTPASLSASVGESVTITCKASGNIHNYLAWYQQKGGKSPQLLVFNASTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L+I + ED G+YYC G +E+K + AP V++
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPFTFGTGTNLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1CGS|H Chain H, Local And Transmitted Conformational Changes On
Complexation Of An Anti-Sweetener Fab
pdb|2CGR|H Chain H, Local And Transmitted Conformational Changes On
Complexation Of An Anti-Sweetener Fab
Length = 214
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 49/138 (35%), Gaps = 31/138 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SVQ+ C A G+ I W +E ILP G+ F
Sbjct: 11 LMKPGASVQISCKATGYTFSEYWIEWVKERPGHGLEWIGEILPGSGRTNYREKFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCV----AQNGIGRGARRKIEVKVEFAPIVTVQSTR 173
T T +Q+ +T ED YYC + + G+G + P V +
Sbjct: 71 TADTSSNTAYMQLSSLTSEDSAVYYCTRGYSSMDYWGQGTSVTVSAAKTTPPSVYPLAPG 130
Query: 174 IGQALHHDMDLDCHIEAY 191
G + L C ++ Y
Sbjct: 131 CGDTTGSSVTLGCLVKGY 148
>pdb|3GRW|A Chain A, Fgfr3 In Complex With A Fab
Length = 241
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 30/134 (22%), Positives = 52/134 (38%), Gaps = 13/134 (9%)
Query: 82 QLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQ-------IPRIT 134
+L +V+ C A G+P P+ISW + G+ G L+ + +
Sbjct: 23 KLLAVPAANTVRFRCPAAGNPTPSISWLKNGREF--RGEHRIGGIKLRHQQWSLVMESVV 80
Query: 135 KEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRI----GQALHHDMDLDCHIEA 190
DRG Y CV +N G + +E +P + + L D++ C + +
Sbjct: 81 PSDRGNYTCVVENKFGSIRQTYTLDVLERSPHRPILQAGLPANQTAVLGSDVEFHCKVYS 140
Query: 191 YPHPILYWAKDGEI 204
P + W K E+
Sbjct: 141 DAQPHIQWLKHVEV 154
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 36/184 (19%), Positives = 61/184 (33%), Gaps = 54/184 (29%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFK------RLGRLHLAIPYTSPEAQVDTP- 73
+L +V+ C A G+P P+ISW +N + R+G + L S + P
Sbjct: 23 KLLAVPAANTVRFRCPAAGNPTPSISWLKNGREFRGEHRIGGIKLRHQQWSLVMESVVPS 82
Query: 74 -------------------------------PVILNNSPQLSVAKEGQSVQLECHAEGHP 102
P++ P A G V+ C
Sbjct: 83 DRGNYTCVVENKFGSIRQTYTLDVLERSPHRPILQAGLPANQTAVLGSDVEFHCKVYSDA 142
Query: 103 IPTISWRR----ENNAILPNG------------QTIFTGSTLQIPRITKEDRGAYYCVAQ 146
P I W + + + P+G +++ L++ +++ D G Y C A
Sbjct: 143 QPHIQWLKHVEVNGSKVGPDGTPYVTVLKSWISESVEADVRLRLANVSERDGGEYLCRAT 202
Query: 147 NGIG 150
N IG
Sbjct: 203 NFIG 206
>pdb|1F90|L Chain L, Fab Fragment Of Monoclonal Antibody (Lnkb-2) Against Human
Interleukin-2 In Complex With Antigenic Peptide
pdb|1F8T|L Chain L, Fab (Lnkb-2) Of Monoclonal Antibody, Crystal Structure
pdb|1S5I|L Chain L, Fab (Lnkb-2) Of Monoclonal Antibody To Human
Interleukin-2, Crystal Structure
Length = 219
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 41/91 (45%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL+I R+ ED G YYCV R G K+E+K + AP V++
Sbjct: 67 FTGSGSGTDFTLRISRVEAEDLGVYYCVQGTHFPRTFGGGTKLEIKRADAAPTVSIFPPS 126
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 127 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|4HC1|L Chain L, Crystal Structure Of A Loop Deleted Mutant Of Human
Madcam-1 D1d2 Complexed With Fab 10g3
pdb|4HC1|N Chain N, Crystal Structure Of A Loop Deleted Mutant Of Human
Madcam-1 D1d2 Complexed With Fab 10g3
Length = 214
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 38/151 (25%), Positives = 59/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+++ SP G +V CHA I W ++ ++ +G +
Sbjct: 2 ILMTQSPSSMSVSLGDTVSFTCHASQGIGRNIGWLQQKPGKSFKGLIYHGTNLKDGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L I RI ED YYC+ Q G K+E+K + AP V++
Sbjct: 62 FSGSGSGADYSLTISRIESEDFADYYCIQYVQFPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3PUC|A Chain A, Atomic Resolution Structure Of Titin Domain M7
Length = 99
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 70 VDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT----G 125
+ + PVI+ +V+ + + A G P PT W ++ AI G+ + G
Sbjct: 3 ISSKPVIVTGLQDTTVSSD-SVAKFAVKATGEPRPTAIWTKDGKAITQGGKYKLSEDKGG 61
Query: 126 STLQIPRITKEDRGAYYCVAQNGIG 150
L+I + D G Y C +N G
Sbjct: 62 FFLEIHKTDTSDSGLYTCTVKNSAG 86
>pdb|2DM3|A Chain A, Solution Structure Of The Second Ig Domain Of Human
Palladin
Length = 110
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 33/70 (47%), Gaps = 5/70 (7%)
Query: 87 KEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS-----TLQIPRITKEDRGAY 141
+EG+ +++C G P P +SW+ + + P+ +L I +T D G Y
Sbjct: 22 QEGKLCRMDCKVSGLPTPDLSWQLDGKPVRPDSAHKMLVRENGVHSLIIEPVTSRDAGIY 81
Query: 142 YCVAQNGIGR 151
C+A N G+
Sbjct: 82 TCIATNRAGQ 91
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 11/30 (36%), Positives = 15/30 (50%)
Query: 184 LDCHIEAYPHPILYWAKDGEIVVNDEYHSI 213
+DC + P P L W DG+ V D H +
Sbjct: 29 MDCKVSGLPTPDLSWQLDGKPVRPDSAHKM 58
>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 = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 40/82 (48%), Gaps = 8/82 (9%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQ----TIF---TGSTLQIPRITKEDRGA 140
EG V + C +P TISW R+ +LP+ I+ + S L++ ++ D G
Sbjct: 32 EGNQVNITCEVFAYPSATISWFRDGQ-LLPSSNYSNIKIYNTPSASYLEVTPDSENDFGN 90
Query: 141 YYCVAQNGIGRGARRKIEVKVE 162
Y C A N IG+ + I V+ +
Sbjct: 91 YNCTAVNRIGQESLEFILVQAD 112
Score = 31.2 bits (69), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 10/39 (25%), Positives = 23/39 (58%)
Query: 180 HDMDLDCHIEAYPHPILYWAKDGEIVVNDEYHSISNFGT 218
+ +++ C + AYP + W +DG+++ + Y +I + T
Sbjct: 34 NQVNITCEVFAYPSATISWFRDGQLLPSSNYSNIKIYNT 72
>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 = 37.4 bits (85), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 40/151 (26%), Positives = 58/151 (38%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV L C A + W ++ + P Q+I
Sbjct: 2 IVLTQSPATLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS TL I + ED G Y+C N G K+E+K + AP V++
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>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 = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 40/151 (26%), Positives = 58/151 (38%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV L C A + W ++ + P Q+I
Sbjct: 3 IVLTQSPATLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYASQSISGIPSR 62
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS TL I + ED G Y+C N G K+E+K + AP V++
Sbjct: 63 FSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIKRADAAPTVSIFPPS 122
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 123 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 153
>pdb|1RJL|A Chain A, Structure Of The Complex Between Ospb-Ct And Bactericidal
Fab-H6831
Length = 212
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 38/154 (24%), Positives = 60/154 (38%), Gaps = 27/154 (17%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP----------------- 117
+ +N SP A G ++ + CHA + ++W ++ +P
Sbjct: 2 IQMNQSPSSLSASLGDTITITCHASQNINVWLNWFQQKPGSIPKLLIYMASNLHTGVPSR 61
Query: 118 -NGQTIFTGSTLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVK-VEFAPIVTVQS 171
+G TG TL I + ED YYC Q G + G K+E+K + AP V++
Sbjct: 62 FSGSGSGTGFTLTISSLQPEDIATYYC--QQGQSFPLTFGGGTKLEIKRADAAPTVSIFP 119
Query: 172 TRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDGE 203
Q + C + YP I + W DG
Sbjct: 120 PSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGS 153
>pdb|1OPG|L Chain L, Opg2 Fab Fragment
pdb|1BM3|L Chain L, Immunoglobulin Opg2 Fab-Peptide Complex
Length = 214
Score = 37.4 bits (85), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 40/150 (26%), Positives = 58/150 (38%), Gaps = 23/150 (15%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------F 123
+L SP G SV L C A + W ++ + P Q+I F
Sbjct: 3 LLTQSPATLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYASQSISGIPSRF 62
Query: 124 TGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTRI 174
+GS TL I + ED G Y+C N + G K+E+K + AP V++
Sbjct: 63 SGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPLTFGGGSKLEIKRADAAPTVSIFPPSS 122
Query: 175 GQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 123 EQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>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 = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 38/151 (25%), Positives = 63/151 (41%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTI------- 122
+ + SP A G++V + C A G+ ++W ++ P N +T+
Sbjct: 2 IQMTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L+I + ED G+YYC G K+E+K + AP V++
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPWTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1E4W|H Chain H, Crossreactive Binding Of A Circularized Peptide To An
Anti- Tgfalpha Antibody Fab-Fragment
Length = 213
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 57/149 (38%), Gaps = 31/149 (20%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-NGQTIF-----T 124
P + K G SV+L C A G + W ++ ILP NG+T + T
Sbjct: 7 PGAELVKPGASVKLSCKASGFTFTNYWMHWVKQRPGQGLEWIGEILPSNGRTNYNEKFKT 66
Query: 125 GSTL-----------QIPRITKEDRGAYYCVA--QNGIGRGARRKIEVKVEFAPIVTVQS 171
+TL Q+ +T ED YYC + G+G + AP V +
Sbjct: 67 KATLTVDKSSNTAYMQLSSLTSEDSAVYYCARSPSDYWGQGTTLTVSSAKTTAPSVYPLA 126
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 127 PVCGDTTGSSVTLGCLVKGYFPEPVTLTW 155
>pdb|1E4X|H Chain H, Crossreactive Binding Of A Circularized Peptide To An
Anti-Tgfalpha Antibody Fab-Fragment
Length = 217
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 57/149 (38%), Gaps = 31/149 (20%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-NGQTIF-----T 124
P + K G SV+L C A G + W ++ ILP NG+T + T
Sbjct: 7 PGAELVKPGASVKLSCKASGFTFTNYWMHWVKQRPGQGLEWIGEILPSNGRTNYNEKFKT 66
Query: 125 GSTL-----------QIPRITKEDRGAYYCVA--QNGIGRGARRKIEVKVEFAPIVTVQS 171
+TL Q+ +T ED YYC + G+G + AP V +
Sbjct: 67 KATLTVDKSSNTAYMQLSSLTSEDSAVYYCARSPSDYWGQGTTLTVSSAKTTAPSVYPLA 126
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 127 PVCGDTTGSSVTLGCLVKGYFPEPVTLTW 155
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 39/82 (47%), Gaps = 7/82 (8%)
Query: 74 PVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ-----TIFTGSTL 128
PVI+ L+V EG + +L+C G + +++W N ++ +G ++ TL
Sbjct: 313 PVIVEPPTDLNVT-EGMAAELKCRT-GTSMTSVNWLTPNGTLMTHGSYRVRISVLHDGTL 370
Query: 129 QIPRITKEDRGAYYCVAQNGIG 150
+T +D G Y C+ N G
Sbjct: 371 NFTNVTVQDTGQYTCMVTNSAG 392
>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 = 37.0 bits (84), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 59/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+++ SP A G +V + C A +++W ++ P
Sbjct: 2 IVMTQSPASLSASVGDTVTITCRASEFIYSSLTWYQQKQGGSPQLLVYAATNLADAVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L+I R+ ED G YYC G G K+E+K + AP V++
Sbjct: 62 FSGSGSGTQFSLKINRLQPEDFGTYYCQHFYGSTWAFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1JGL|L Chain L, Crystal Structure Of Immunoglobulin Fab Fragment Complexed
With 17-Beta-Estradiol
pdb|1JHK|L Chain L, Crystal Structure Of The Anti-Estradiol Antibody 57-2
Length = 214
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 62/151 (41%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTI------- 122
+ + SP A G++V + C A G+ ++W ++ P N +T+
Sbjct: 2 IQMTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L+I + ED G YYC G K+EVK + AP V++
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGTYYCHHFWSTPWTFGGGTKLEVKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1RIH|L Chain L, Crystal Structure Of Fab 14f7, A Unique Anti-Tumor
Antibody Specific For N-Glycolyl Gm3
Length = 214
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 40/151 (26%), Positives = 58/151 (38%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV C A + W ++ P Q+I
Sbjct: 2 LVLTQSPATLSVTPGDSVSFSCRASQSISNNLHWYQQRTHESPRLLIKYASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS TL I + ED G Y+C N + GA K+E+K + AP V++
Sbjct: 62 FSGSGSGTDFTLSISSVETEDFGMYFCQQSNRWPLTFGAGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1CR9|H Chain H, Crystal Structure Of The Anti-Prion Fab 3f4
pdb|1CU4|H Chain H, Crystal Structure Of The Anti-Prion Fab 3f4 In Complex
With Its Peptide Epitope
Length = 217
Score = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 37/145 (25%), Positives = 54/145 (37%), Gaps = 31/145 (21%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRE-----------------NNAILP--NGQTIF 123
+ + G SV+L C A G I I W ++ N+ P G+
Sbjct: 11 LVRSGASVKLSCTASGFNIKDYYIQWVKQRPEQGLEWIGWIDPENGNSEYAPRFQGKATM 70
Query: 124 TGSTL------QIPRITKEDRGAYYCVAQ--NGIGRGARRKIEVKVEFAPIVTVQSTRIG 175
T TL Q+ +T ED YYC A + G+G + AP V + G
Sbjct: 71 TADTLSNTAYLQLSSLTSEDTAVYYCNADLHDYWGQGTTLTVSSAKTTAPSVYPLAPVCG 130
Query: 176 QALHHDMDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 131 DTTGSSVTLGCLVKGYFPEPVTLTW 155
>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 = 37.0 bits (84), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 59/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAE---------------GHPIPTISWRRENNAILP-- 117
++L SP + G+ V L C A G P P I + E+ + +P
Sbjct: 2 ILLTQSPAILSVSPGERVSLSCRASQSIGTSIHWYQQRTNGSPRPLIKYASESISGIPSR 61
Query: 118 -NGQTIFTGSTLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
+G T TL I + ED Y+C + GA K+E+K + AP V++
Sbjct: 62 FSGSGSGTDFTLNINSVESEDIADYFCQQTDSWPTTFGAGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3HFM|L Chain L, Structure Of An Antibody-Antigen Complex. Crystal
Structure Of The HyHEL-10 Fab-Lysozyme Complex
Length = 214
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 40/151 (26%), Positives = 58/151 (38%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV L C A + W ++ + P Q+I
Sbjct: 2 IVLTQSPATLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKYASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS TL I + ED G Y+C N G K+E+K + AP V++
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|2C1P|A Chain A, Fab-Fragment Of Enantioselective Antibody Complexed With
Finrozole
pdb|2C1P|L Chain L, Fab-Fragment Of Enantioselective Antibody Complexed With
Finrozole
Length = 218
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 42/91 (46%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL+I R+ ED G YYCV + GA K+E+K + AP V++
Sbjct: 67 FTGSGSGTDFTLKISRVEAEDLGIYYCVQGSHFPPTFGAGTKLELKRADAAPTVSIFPPS 126
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 127 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3D9A|L Chain L, High Resolution Crystal Structure Structure Of Hyhel10 Fab
Complexed To Hen Egg Lysozyme
Length = 213
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 40/151 (26%), Positives = 58/151 (38%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV L C A + W ++ + P Q+I
Sbjct: 2 IVLTQSPATLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKYASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS TL I + ED G Y+C N G K+E+K + AP V++
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|2C1O|A Chain A, Enaiihis Fab Fragment In The Free Form
pdb|2C1O|L Chain L, Enaiihis Fab Fragment In The Free Form
Length = 254
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 42/91 (46%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL+I R+ ED G YYCV + GA K+E+K + AP V++
Sbjct: 104 FTGSGSGTDFTLKISRVEAEDLGIYYCVQGSHFPPTFGAGTKLELKRADAAPTVSIFPPS 163
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 164 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 194
>pdb|1YJD|L Chain L, Crystal Structure Of Human Cd28 In Complex With The Fab
Fragment Of A Mitogenic Antibody (5.11a1)
Length = 212
Score = 36.6 bits (83), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 38/153 (24%), Positives = 59/153 (38%), Gaps = 27/153 (17%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP----------------- 117
+ +N SP A G ++ + CHA + ++W ++ +P
Sbjct: 2 IQMNQSPSSLSASLGDTITITCHASQNIYVWLNWYQQKPGNIPKLLIYKASNLHTGVPSR 61
Query: 118 -NGQTIFTGSTLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVK-VEFAPIVTVQS 171
+G TG TL I + ED YYC Q G G K+E+K + AP V++
Sbjct: 62 FSGSGSGTGFTLTISSLQPEDIATYYC--QQGQTYPYTFGGGTKLEIKRADAAPTVSIFP 119
Query: 172 TRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 120 PSSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|2VC2|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist L-739758
pdb|2VDK|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDL|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDM|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist Tirofiban
pdb|2VDN|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist Eptifibatide
pdb|2VDO|L Chain L, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen Gamma
Chain Peptide, Hhlggakqagdv
pdb|2VDP|L Chain L, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen Gamma
Chain Peptide,Lggakqagdv
pdb|2VDQ|L Chain L, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Hhlggakqrgdv
pdb|2VDR|L Chain L, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Lggakqrgdv
pdb|3NID|F Chain F, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NID|L Chain L, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NIF|F Chain F, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIF|L Chain L, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|F Chain F, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|L Chain L, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3T3M|F Chain F, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3M|L Chain L, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|F Chain F, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|L Chain L, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
Length = 214
Score = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 38/151 (25%), Positives = 59/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+++ SP G +V + CHA I W ++ ++ G +
Sbjct: 2 ILMTQSPSSMSVSLGDTVSITCHASQGISSNIGWLQQKPGKSFMGLIYYGTNLVDGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L I + ED YYCV AQ G K+E+K + AP V++
Sbjct: 62 FSGSGSGADYSLTISSLDSEDFADYYCVQYAQLPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1JHL|L Chain L, Three-Dimensional Structure Of A Heteroclitic Antigen-
Antibody Cross-Reaction Complex
Length = 108
Score = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 45/104 (43%), Gaps = 20/104 (19%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRE-----NNAILPNGQTI-------FT 124
L SP VA G+++ + C A +++W +E NN ++ +G T+ F+
Sbjct: 4 LTQSPSYLVASPGETITINCRASKSISKSLAWYQEKPGKTNNLLIYSGSTLQSGIPSRFS 63
Query: 125 GS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
GS TL I + ED Y C N G K+E+K
Sbjct: 64 GSGSGTDFTLTISSLEPEDFAMYICQQHNEYPWTFGGGTKLEIK 107
>pdb|2UYL|A Chain A, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
pdb|2UYL|M Chain M, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
pdb|2UYL|V Chain V, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
pdb|2UYL|X Chain X, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
Length = 219
Score = 36.6 bits (83), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + R G K+E+K + AP V++ Q
Sbjct: 74 TDFTLEISRVEAEDLGVYYCFQGSHVPRTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|4GMS|H Chain H, Crystal Structure Of Heterosubtypic Fab S1391 IN COMPLEX
WITH Influenza A H3 Hemagglutinin
pdb|4GMS|I Chain I, Crystal Structure Of Heterosubtypic Fab S1391 IN COMPLEX
WITH Influenza A H3 Hemagglutinin
pdb|4GMS|J Chain J, Crystal Structure Of Heterosubtypic Fab S1391 IN COMPLEX
WITH Influenza A H3 Hemagglutinin
pdb|4GMT|H Chain H, Crystal Structure Of Heterosubtypic Fab S1391
pdb|4GMT|I Chain I, Crystal Structure Of Heterosubtypic Fab S1391
Length = 225
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 36/149 (24%), Positives = 55/149 (36%), Gaps = 35/149 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-----------NGQTIF 123
+ K G SV++ C A G+ + I W ++ ILP G+ F
Sbjct: 11 LKKPGASVKISCKATGYTFSSYWIEWIKQRPGHGLEWIGEILPEIGMTNYNENFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNGI------GRGARRKIEVKVEFAPIVTVQS 171
T +T +Q+ +T ED YYC G+G + AP V +
Sbjct: 71 TANTSSNTVYMQLSSLTSEDSAVYYCARPYDYSWFAYWGQGTLVTVSAAKTTAPSVYPLA 130
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 131 PVCGDTTGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|1NDM|B Chain B, Crystal Structure Of Fab Fragment Of Antibody Hyhel-26
Complexed With Lysozyme
Length = 210
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 36/145 (24%), Positives = 54/145 (37%), Gaps = 30/145 (20%)
Query: 84 SVAKEGQSVQLECHAEGHPIPT--ISWRRE--NNAILPNGQTIFTGST------------ 127
S+ K Q++ L C G I + SW R+ N + G ++GST
Sbjct: 10 SLVKPSQTLSLTCSVTGDSITSDYWSWIRKFPGNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 128 ----------LQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVKVEFAPIVTVQSTRIG 175
LQ+ +T ED YYC + G+G + AP V + G
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCARWEMDYWGQGTSVTVSSAKTTAPSVYPLAPVCG 129
Query: 176 QALHHDMDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTW 154
>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 = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 37/84 (44%), Gaps = 13/84 (15%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN---------GQTIFTGS 126
+L P + +EG+++ L C+ G P P +SW + A+ + G+T +
Sbjct: 224 VLGGLPDVVTIQEGKALNLTCNVWGDPPPEVSWLKNEKALASDDHCNLKFEAGRTAY--- 280
Query: 127 TLQIPRITKEDRGAYYCVAQNGIG 150
I ++ D G Y V +N G
Sbjct: 281 -FTINGVSTADSGKYGLVVKNKYG 303
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 19/30 (63%)
Query: 26 KEGQSVQLECHAEGHPIPTISWRRNFKRLG 55
+EG+++ L C+ G P P +SW +N K L
Sbjct: 235 QEGKALNLTCNVWGDPPPEVSWLKNEKALA 264
>pdb|3NCM|A Chain A, Neural Cell Adhesion Molecule, Module 2, Nmr, 20
Structures
Length = 92
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 31/72 (43%), Gaps = 3/72 (4%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIF---TGSTLQIP 131
V+ N+P KEG+ + C PTI W+ + ++ F + + LQI
Sbjct: 2 VMFKNAPTPQEFKEGEDAVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYLQIR 61
Query: 132 RITKEDRGAYYC 143
I K D G Y C
Sbjct: 62 GIKKTDEGTYRC 73
>pdb|1E4X|I Chain I, Crossreactive Binding Of A Circularized Peptide To An
Anti-Tgfalpha Antibody Fab-Fragment
Length = 217
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 57/149 (38%), Gaps = 31/149 (20%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-NGQTIF-----T 124
P + K G SV+L C A G + W ++ ILP NG+T + T
Sbjct: 7 PGAELVKPGPSVKLSCKASGFTFTNYWMHWVKQRPGQGLEWIGEILPSNGRTNYNEKFKT 66
Query: 125 GSTL-----------QIPRITKEDRGAYYCV--AQNGIGRGARRKIEVKVEFAPIVTVQS 171
+TL Q+ +T ED YYC + G+G + AP V +
Sbjct: 67 KATLTVDKSSNTAYMQLSSLTSEDSAVYYCARSPSDYWGQGTTLTVSSAKTTAPSVYPLA 126
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 127 PVCGDTTGSSVTLGCLVKGYFPEPVTLTW 155
>pdb|3LEY|H Chain H, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 6a7 In Complex With Hiv-1 Gp41
Length = 221
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 36/147 (24%), Positives = 54/147 (36%), Gaps = 33/147 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST------------ 127
+ K QS+ L C G+ I T +W R+ N + G ++G T
Sbjct: 11 LVKPSQSLSLTCTVTGYLITTDYAWNWIRQFPGNKLEWMGYISYSGFTSYNPSLKSQISI 70
Query: 128 ----------LQIPRITKEDRGAYYCVAQNGI----GRGARRKIEVKVEFAPIVTVQSTR 173
LQ+ +T ED YYC N + G+G + AP V +
Sbjct: 71 TRDTSKNQFFLQLNSVTTEDTATYYCAFGNYLPAYWGQGTLVTVSAAKTTAPSVYPLAPV 130
Query: 174 IGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 131 CGDTTGSSVTLGCLVKGYFPEPVTLTW 157
>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 = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 59/149 (39%), Gaps = 22/149 (14%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+ L SP L A G V L C + ++W ++ ++ N ++
Sbjct: 2 IKLTQSPSLLSASVGDRVTLSCKGSQNINNYLAWYQQKLGEAPKLLIYNTNSLQTGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVA-QNGIGRGARRKIEVKVEFAPIVTVQSTRIG 175
F+GS TL I + ED Y+C NG GA K+E+K AP V++
Sbjct: 62 FSGSGSGTDYTLTISSLQPEDVATYFCYQYNNGYTFGAGTKLELK-RTAPTVSIFPPSTE 120
Query: 176 QALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 QLATGGASVVCLMNNFYPRDISVKWKIDG 149
>pdb|3G5V|A Chain A, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 212
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 60/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+++ SP G +V + CH+ I W ++ ++ +G +
Sbjct: 2 ILMTQSPSSMSVSLGDTVSITCHSSQDINSNIGWLQQKPGKSFKGLIYHGTNLDDEVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L I + ED YYCV AQ G K+E+K + AP V++
Sbjct: 62 FSGSGSGADYSLTISSLESEDFADYYCVQYAQFPWTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3G5X|A Chain A, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
pdb|3G5X|C Chain C, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 214
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 60/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+++ SP G +V + CH+ I W ++ ++ +G +
Sbjct: 2 ILMTQSPSSMSVSLGDTVSITCHSSQDINSNIGWLQQKPGKSFKGLIYHGTNLDDEVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L I + ED YYCV AQ G K+E+K + AP V++
Sbjct: 62 FSGSGSGADYSLTISSLESEDFADYYCVQYAQFPWTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>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 = 36.2 bits (82), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 34/74 (45%), Gaps = 5/74 (6%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNG 148
G ++ L+C A G PIP W + + + ++ +P + E +G Y+C N
Sbjct: 18 GSTLVLQCVAVGSPIPHYQWFKNELPLTHETKKLYM-----VPYVDLEHQGTYWCHVYND 72
Query: 149 IGRGARRKIEVKVE 162
+K+E+ ++
Sbjct: 73 RDSQDSKKVEIIID 86
>pdb|1MH5|B Chain B, The Structure Of The Complex Of The Fab Fragment Of The
Esterolytic Antibody Ms6-164 And A Transition-State
Analog
pdb|1MH5|H Chain H, The Structure Of The Complex Of The Fab Fragment Of The
Esterolytic Antibody Ms6-164 And A Transition-State
Analog
Length = 230
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 37/154 (24%), Positives = 61/154 (39%), Gaps = 36/154 (23%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPNGQ---------- 120
P + K G SV+L C A G+ + I+W ++ I P+
Sbjct: 7 PGAELVKPGASVKLSCKASGYTFTSNWINWVKQRPGQGLEWIGNIYPDSYRTNYNEKFKR 66
Query: 121 ----TIFTGST---LQIPRITKEDRGAYYCV----AQNGI---GRGARRKIEVKVEFAPI 166
T+ T S+ +Q+ +T +D YYCV + +G+ G+G + AP
Sbjct: 67 KATLTVDTSSSTAYMQLSSLTSDDSAVYYCVRKHYSYDGVVYWGQGTLVTVSAAKTTAPS 126
Query: 167 VTVQSTRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
V + G + L C ++ Y P P+ L W
Sbjct: 127 VYPLAPVCGDTSGSSVTLGCLVKGYFPEPVTLTW 160
>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 = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 36/84 (42%), Gaps = 13/84 (15%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI---------LPNGQTIFTGS 126
+L P + +EG+++ L C+ G P P +SW + A+ G+T +
Sbjct: 119 VLGGLPDVVTIQEGKALNLTCNVWGDPPPEVSWLKNEKALAQTDHCNLKFEAGRTAY--- 175
Query: 127 TLQIPRITKEDRGAYYCVAQNGIG 150
I ++ D G Y V +N G
Sbjct: 176 -FTINGVSTADSGKYGLVVKNKYG 198
Score = 31.6 bits (70), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 20/31 (64%)
Query: 26 KEGQSVQLECHAEGHPIPTISWRRNFKRLGR 56
+EG+++ L C+ G P P +SW +N K L +
Sbjct: 130 QEGKALNLTCNVWGDPPPEVSWLKNEKALAQ 160
>pdb|1KEM|L Chain L, Catalytic Antibody 28b4 Fab Fragment
pdb|1KEL|L Chain L, Catalytic Antibody 28b4 Fab Fragment Complexed With Hapten
(1-[n-4'-Nitrobenzyl-N-4'-Carboxybutylamino]
Methylphosphonic Acid)
Length = 217
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + R G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPRTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|2OJZ|L Chain L, Anti-Dna Antibody Ed10
pdb|2OJZ|M Chain M, Anti-Dna Antibody Ed10
pdb|2OK0|L Chain L, Fab Ed10-Dna Complex
Length = 219
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + I GA K+EVK + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHIPLTFGAGTKLEVKRSDAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3V6B|R Chain R, Vegfr-2VEGF-E Complex Structure
Length = 424
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 34/129 (26%), Positives = 51/129 (39%), Gaps = 16/129 (12%)
Query: 86 AKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVA 145
A G+ V++ G+P P I W + N L + TI G L I +++ D G Y +
Sbjct: 212 ATVGERVRIPAKYLGYPPPEIKWYK-NGIPLESNHTIKAGHVLTIMEVSERDTGNYTVIL 270
Query: 146 QNGIGRGARRKIEVKVEFAP--------IVTVQSTRIGQALHHDMDLDCHIEAYP---HP 194
N I + + + V + P I V S + G L C + A P H
Sbjct: 271 TNPISKEKQSHVVSLVVYVPPQIGEKSLISPVDSYQYGTT----QTLTCTVYAIPPPHHI 326
Query: 195 ILYWAKDGE 203
YW + E
Sbjct: 327 HWYWQLEEE 335
Score = 33.5 bits (75), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 36/80 (45%), Gaps = 4/80 (5%)
Query: 126 STLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQS---TRIGQALHHDM 182
STL I +T+ D+G Y C A +G+ + V+V P V S + + + +
Sbjct: 160 STLTIDGVTRSDQGLYTCAASSGL-MTKKNSTFVRVHEKPFVAFGSGMESLVEATVGERV 218
Query: 183 DLDCHIEAYPHPILYWAKDG 202
+ YP P + W K+G
Sbjct: 219 RIPAKYLGYPPPEIKWYKNG 238
>pdb|2Q76|B Chain B, Mouse Anti-Hen Egg White Lysozyme Antibody F10.6.6 Fab
Fragment
pdb|2Q76|D Chain D, Mouse Anti-Hen Egg White Lysozyme Antibody F10.6.6 Fab
Fragment
Length = 216
Score = 36.2 bits (82), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 33/143 (23%), Positives = 53/143 (37%), Gaps = 32/143 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-----------NGQTIF 123
+ K G SV++ C A G+ T I W ++ ILP G+ F
Sbjct: 11 LMKPGASVKISCKATGYTFTTYWIEWIKQRPGHSLEWIGEILPGSDSTYYNEKVKGKVTF 70
Query: 124 TG------STLQIPRITKEDRGAYYCVAQNGI----GRGARRKIEVKVEFAPIVTVQSTR 173
T + +Q+ +T ED YYC +G G+G + P V +
Sbjct: 71 TADASSNTAYMQLSSLTSEDSAVYYCARGDGFYVYWGQGTTLTVSSASTTPPSVYPLAPG 130
Query: 174 IGQALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 SAAQTNSMVTLGCLVKGYFPEPV 153
>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 = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 36/151 (23%), Positives = 60/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN------------NAILPNGQTI 122
+++ SP A G+ V + C A +SW ++ N ++ +
Sbjct: 2 IVMTQSPFSMYATLGERVTITCKASQDIYSYLSWLQQKPGKSLKTLIYRANRLITGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L I + ED G YYC+ + G K+E+K + AP V++
Sbjct: 62 FSGSGSGQDYSLTISSLEYEDMGIYYCLQYDEFPYTFGGGTKLEMKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3B9K|L Chain L, Crystal Structure Of Cd8alpha-Beta In Complex With Yts
156.7 Fab
pdb|3B9K|C Chain C, Crystal Structure Of Cd8alpha-Beta In Complex With Yts
156.7 Fab
Length = 213
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 35/150 (23%), Positives = 61/150 (40%), Gaps = 22/150 (14%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN------------NAILPNGQTI 122
+ + SP A G V + C A + I+W ++ + ++ +
Sbjct: 2 IKMTQSPASLSASLGDKVTITCQASQNIDKYIAWYQQKPGKAPRQLIHYTSTLVSGTPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI-GRGARRKIEVK-VEFAPIVTVQSTRI 174
F+GS T I + ED +YYC+ + + GA K+E+K + AP V++ +
Sbjct: 62 FSGSGSGRDYTFSISSVESEDIASYYCLQYDTLYTFGAGTKLELKRADAAPTVSIFPPSM 121
Query: 175 GQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 EQLTSGGATVVCFVNNFYPRDISVKWKIDG 151
>pdb|3RVW|C Chain C, Crystal Structure Of Der P 1 Complexed With Fab 4c1
Length = 212
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 36/151 (23%), Positives = 60/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN------------NAILPNGQTI 122
+++ SP A G+ V + C A +SW ++ N ++ +
Sbjct: 2 IVMTQSPFSMYATLGERVTITCKASQDIYSYLSWLQQKPGKSLKTLIYRANRLITGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L I + ED G YYC+ + G K+E+K + AP V++
Sbjct: 62 FSGSGSGQDYSLTISSLEYEDMGIYYCLQYDEFPYTFGGGTKLEMKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1U2H|A Chain A, X-Ray Structure Of The N-Terminally Truncated Human Apep-1
Length = 99
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 37/83 (44%), Gaps = 8/83 (9%)
Query: 87 KEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGST------LQIPRITKEDRGA 140
+EGQ V + +G P P +SW R + P+ Q F L+I + D G
Sbjct: 18 REGQDVIMSIRVQGEPKPVVSWLRNRQPVRPD-QRRFAEEAEGGLCRLRILAAERGDAGF 76
Query: 141 YYCVAQNGIG-RGARRKIEVKVE 162
Y C A N G R ++EV+ E
Sbjct: 77 YTCKAVNEYGARQCEARLEVRGE 99
Score = 30.4 bits (67), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 20/40 (50%), Gaps = 1/40 (2%)
Query: 11 TPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRN 50
PP + SV +EGQ V + +G P P +SW RN
Sbjct: 4 APPTFKVSLMDQSV-REGQDVIMSIRVQGEPKPVVSWLRN 42
>pdb|1C12|A Chain A, Insight In Odorant Perception: The Crystal Structure And
Binding Characteristics Of Antibody Fragments Directed
Against The Musk Odorant Traseolide
Length = 214
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 38/149 (25%), Positives = 58/149 (38%), Gaps = 23/149 (15%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI-------FT 124
L SP G +V + CHA I W ++ ++ +G + F+
Sbjct: 4 LTQSPSSMSVSLGDTVSITCHASQGISSNIGWLQQKPGKSFKGLIYHGTNLEDGVPSRFS 63
Query: 125 GS------TLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTRIG 175
GS +L I + ED YYCV Q G+ K+E+K + AP V++
Sbjct: 64 GSGSGADYSLTISSLESEDFADYYCVQYVQFPFTFGSGTKLEIKRADAAPTVSIFPPSSE 123
Query: 176 QALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 124 QLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1MIE|H Chain H, Crystal Structure Of The Fab Fragment Of Esterolytic
Antibody Ms5-393
pdb|1MJ7|H Chain H, Crystal Structure Of The Complex Of The Fab Fragment Of
Esterolytic Antibody Ms5-393 And A Transition-State
Analog
Length = 228
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 34/152 (22%), Positives = 57/152 (37%), Gaps = 34/152 (22%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------------------NAILPN 118
P + K G SV+L C A G+ + I+W ++ N N
Sbjct: 7 PGAELVKPGASVKLSCKASGYTFTSSWINWVKQRPGQGLEWIGNVYPGSSSTNYNEKFKN 66
Query: 119 GQTIFTGST-----LQIPRITKEDRGAYYCVAQN-----GIGRGARRKIEVKVEFAPIVT 168
T+ ++ +Q+ +T +D YYCV ++ G+G + AP V
Sbjct: 67 KATLTVDTSSSTAYMQLSSLTSDDSAFYYCVRKDYSWFPYWGQGTLVTVSAAKTTAPSVY 126
Query: 169 VQSTRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 127 PLAPVCGDTSGSSVTLGCLVKGYFPEPVTLTW 158
>pdb|1P2C|B Chain B, Crystal Structure Analysis Of An Anti-Lysozyme Antibody
pdb|1P2C|E Chain E, Crystal Structure Analysis Of An Anti-Lysozyme Antibody
Length = 218
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 33/143 (23%), Positives = 53/143 (37%), Gaps = 32/143 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-----------NGQTIF 123
+ K G SV++ C A G+ T I W ++ ILP G+ F
Sbjct: 11 LMKPGASVKISCKATGYTFTTYWIEWIKQRPGHSLEWIGEILPGSDSTYYNEKVKGKVTF 70
Query: 124 TG------STLQIPRITKEDRGAYYCVAQNGI----GRGARRKIEVKVEFAPIVTVQSTR 173
T + +Q+ +T ED YYC +G G+G + P V +
Sbjct: 71 TADASSNTAYMQLSSLTSEDSAVYYCARGDGFYVYWGQGTTLTVSSASTTPPSVYPLAPG 130
Query: 174 IGQALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 SAAQTNSMVTLGCLVKGYFPEPV 153
>pdb|1LO4|H Chain H, Retro-Diels-Alderase Catalytic Antibody 9d9
Length = 220
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 37/149 (24%), Positives = 52/149 (34%), Gaps = 35/149 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPNGQTIFTGS-------- 126
+ K G S+ L C A G + T +SW R+ +I G F+ S
Sbjct: 11 LVKPGGSLTLSCEASGFTLRTYGMSWVRQTPQMRLEWVASISYGGLLYFSDSVKGRFTIS 70
Query: 127 --------TLQIPRITKEDRGAYYCVAQNGI-------GRGARRKIEVKVEFAPIVTVQS 171
TLQ+ R+ ED YYC G G + AP V +
Sbjct: 71 RDIVRNILTLQMSRLRSEDTAIYYCARGTSFVRYFDVWGAGTTVTVSSAKTTAPSVYPLA 130
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 131 PVCGDTTGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|3QUM|L Chain L, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
pdb|3QUM|M Chain M, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
Length = 219
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 40/84 (47%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC+ + + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLRISRVEAEDVGVYYCMQHLEYPVTFGAGTKVEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>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 = 35.8 bits (81), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 32/76 (42%), Gaps = 17/76 (22%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENN------AILPNGQTI-----------FTGSTLQIP 131
G SV+L C A G P+P I W E + L +G + ST+ I
Sbjct: 36 GGSVELHCEAVGSPVPEIQWWFEGQGPNDIXSQLWDGARLDRVHIHATYHQHAASTISID 95
Query: 132 RITKEDRGAYYCVAQN 147
+ +ED G Y C A N
Sbjct: 96 TLVEEDTGTYECRASN 111
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 26/109 (23%), Positives = 37/109 (33%), Gaps = 30/109 (27%)
Query: 28 GQSVQLECHAEGHPIPTISWR-------------RNFKRLGRLHLAIPYTSPEAQVDTPP 74
G SV+L C A G P+P I W + RL R+H+ Y A
Sbjct: 36 GGSVELHCEAVGSPVPEIQWWFEGQGPNDIXSQLWDGARLDRVHIHATYHQHAA------ 89
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHP-------IPTISWRRENNAIL 116
++ + E + EC A P P + W R +L
Sbjct: 90 ----STISIDTLVEEDTGTYECRASNDPDRNHLTRAPRVKWVRAQAVVL 134
>pdb|3QR2|A Chain A, Wild Type Cd147 Ig0 Domain
pdb|3QR2|B Chain B, Wild Type Cd147 Ig0 Domain
Length = 137
Score = 35.8 bits (81), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 32/76 (42%), Gaps = 17/76 (22%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENN------AILPNGQTI-----------FTGSTLQIP 131
G SV+L C A G P+P I W E + L +G + ST+ I
Sbjct: 36 GGSVELHCEAVGSPVPEIQWWFEGQGPNDICSQLWDGARLDRVHIHATYHQHAASTISID 95
Query: 132 RITKEDRGAYYCVAQN 147
+ +ED G Y C A N
Sbjct: 96 TLVEEDTGTYECRASN 111
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 26/109 (23%), Positives = 37/109 (33%), Gaps = 30/109 (27%)
Query: 28 GQSVQLECHAEGHPIPTISWR-------------RNFKRLGRLHLAIPYTSPEAQVDTPP 74
G SV+L C A G P+P I W + RL R+H+ Y A
Sbjct: 36 GGSVELHCEAVGSPVPEIQWWFEGQGPNDICSQLWDGARLDRVHIHATYHQHAA------ 89
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHP-------IPTISWRRENNAIL 116
++ + E + EC A P P + W R +L
Sbjct: 90 ----STISIDTLVEEDTGTYECRASNDPDRNHLTRAPRVKWVRAQAVVL 134
>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 = 35.8 bits (81), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 36/86 (41%), Gaps = 6/86 (6%)
Query: 64 TSPEAQVDTP---PVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ 120
T EA V+ ++ N+P KEG+ + C PTI W+ + ++
Sbjct: 87 TQSEATVNVKIFQKLMFKNAPTPQEFKEGEDAVIVCDVVSSLPPTIIWKHKGRDVILKKD 146
Query: 121 TIF---TGSTLQIPRITKEDRGAYYC 143
F + + LQI I K D G Y C
Sbjct: 147 VRFIVLSNNYLQIRGIKKTDEGTYRC 172
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 48/183 (26%), Positives = 72/183 (39%), Gaps = 35/183 (19%)
Query: 69 QVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPI-PTISWRRENNAIL-PNGQTIFT-- 124
QVD P + ++SV G+S C G ISW N L PN Q I
Sbjct: 4 QVDIVP----SQGEISV---GESKFFLCQVAGDAKDKDISWFSPNGEKLSPNQQRISVVW 56
Query: 125 ----GSTLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEV--KVEFAPIVTVQSTRIGQ 176
STL I +D G Y CV A++G A +++ K+ F T Q + G+
Sbjct: 57 NDDDSSTLTIYNANIDDAGIYKCVVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGE 116
Query: 177 ALHHDMDLDCHIEAYPHPILYWAKDGE----------IVVNDEYHSISNFGTSEGTTGSL 226
D + C + + P + W G IV+++ Y I G + G+
Sbjct: 117 ----DAVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYLQIR--GIKKTDEGTY 170
Query: 227 QCK 229
+C+
Sbjct: 171 RCE 173
>pdb|1SY6|L Chain L, Crystal Structure Of Cd3gammaepsilon Heterodimer In
Complex With Okt3 Fab Fragment
Length = 213
Score = 35.8 bits (81), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 58/151 (38%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN---------------- 118
++L SP + A G+ V + C A + ++W ++ + P
Sbjct: 2 IVLTQSPAIMSASPGEKVTMTCSASSS-VSYMNWYQQKSGTSPKRWIYDTSKLASGVPAH 60
Query: 119 --GQTIFTGSTLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEV-KVEFAPIVTVQSTR 173
G T +L I + ED YYC + N G+ K+E+ + + AP V++
Sbjct: 61 FRGSGSGTSYSLTISGMEAEDAATYYCQQWSSNPFTFGSGTKLEINRADTAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|2R0W|L Chain L, Pfa2 Fab Complexed With Abeta1-8
Length = 219
Score = 35.8 bits (81), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|2IPT|L Chain L, Pfa1 Fab Fragment
pdb|2IQA|L Chain L, Pfa2 Fab Fragment, Monoclinic Apo Form
pdb|2IQA|A Chain A, Pfa2 Fab Fragment, Monoclinic Apo Form
Length = 219
Score = 35.8 bits (81), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|4FFV|D Chain D, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With 11a19 Fab
pdb|4FFV|H Chain H, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With 11a19 Fab
pdb|4FFW|D Chain D, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With Fab + Sitagliptin
pdb|4FFW|H Chain H, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With Fab + Sitagliptin
Length = 217
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 35/148 (23%), Positives = 56/148 (37%), Gaps = 34/148 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISWRRENNA--------ILPNGQTI-----FTG---- 125
+ K G SV++ C A G+ I+W +++N ++P T F G
Sbjct: 11 LVKPGASVKISCKASGYSFTDYNINWMKQSNGKSLEWIGVVIPKYGTTNYNQKFQGKATL 70
Query: 126 --------STLQIPRITKEDRGAYYC-----VAQNGIGRGARRKIEVKVEFAPIVTVQST 172
+ +Q+ +T ED YYC V + G G + AP V +
Sbjct: 71 TVDQSSSTAYIQLNSLTSEDSAVYYCTRFRDVFFDVWGTGTTVTVSSAKTTAPSVYPLAP 130
Query: 173 RIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 131 VCGGTTGSSVTLGCLVKGYFPEPVTLTW 158
>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 = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 38/152 (25%), Positives = 63/152 (41%), Gaps = 24/152 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTI------- 122
+ + SP A G++V + C A + ++W ++ P N +T+
Sbjct: 2 IQMTQSPASLSASVGETVTITCRASENIYSYLAWYQQKQGKSPQLLVYNVKTLAEGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG---IGRGARRKIEVK-VEFAPIVTVQST 172
F+GS +L+I + ED G+YYC G G K+E+K + AP V++
Sbjct: 62 FSGSGSGTQFSLKINSLQPEDFGSYYCQHHYGSPPWTFGGGTKLEIKRADAAPTVSIFPP 121
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 153
>pdb|1NLD|L Chain L, Fab Fragment Of A Neutralizing Antibody Directed Against
An Epitope Of Gp41 From Hiv-1
Length = 219
Score = 35.4 bits (80), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 30/91 (32%), Positives = 40/91 (43%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL+I R+ ED G YYC R G K+E+K + AP V++
Sbjct: 67 FTGSGSGTDFTLKISRVEAEDLGVYYCWQGTHFPRTFGGGTKLEIKRADAAPTVSIFPPS 126
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 127 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3BKC|L Chain L, Crystal Structure Of Anti-Amyloid Beta Fab Wo2 (P21,
Formb)
pdb|3BKJ|L Chain L, Crystal Structure Of Fab Wo2 Bound To The N Terminal
Domain Of Amyloid Beta Peptide (1-16)
pdb|3BKM|L Chain L, Structure Of Anti-Amyloid-Beta Fab Wo2 (Form A, P212121)
Length = 252
Score = 35.4 bits (80), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + GA K+E+K + AP V++ Q
Sbjct: 107 TDFTLRISRVEAEDLGVYYCFQASLVPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 166
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 167 GASVVCFLNNFYPKDINVKWKIDG 190
>pdb|1ZAN|L Chain L, Crystal Structure Of Anti-Ngf Ad11 Fab
Length = 214
Score = 35.4 bits (80), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 40/171 (23%), Positives = 71/171 (41%), Gaps = 23/171 (13%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+ + SP A G++V +EC A ++W ++ ++ N T+
Sbjct: 2 IQMTQSPASLSASLGETVTIECRASEDIYNALAWYQQKPGKSPQLLIYNTDTLHTGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L+I + ED +Y+C G R G K+E+K + AP V++
Sbjct: 62 FSGSGSGTQYSLKINSLQSEDVASYFCQHYFGYPRTFGGGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDGEIVVNDEYHSISNFGTSEGT 222
Q + C + YP I + W DG N S+++ + + T
Sbjct: 122 SEQLASGGASVVCLLNNFYPKDISVKWKIDGSERQNGVLDSVTDQDSKDST 172
>pdb|3IFL|L Chain L, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:12a11) Complex
pdb|3IFN|L Chain L, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
40:12a11) Complex
Length = 219
Score = 35.4 bits (80), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGIYYCFQSSHVPLTFGAGTKLELKGADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1LO0|X Chain X, Catalytic Retro-Diels-Alderase Transition State Analogue
Complex
pdb|1LO0|L Chain L, Catalytic Retro-Diels-Alderase Transition State Analogue
Complex
pdb|1LO2|X Chain X, Retro-Diels-Alderase Catalytic Antibody
pdb|1LO2|L Chain L, Retro-Diels-Alderase Catalytic Antibody
pdb|1LO3|X Chain X, Retro-Diels-Alderase Catalytic Antibody: Product Analogue
pdb|1LO3|L Chain L, Retro-Diels-Alderase Catalytic Antibody: Product Analogue
Length = 219
Score = 35.4 bits (80), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVETEDLGIYYCFQGSHFPLAFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|4H20|H Chain H, Crystal Structure And Computational Modeling Of The Fab
Fragment From The Protective Anti-ricin Monoclonal
Antibody Rac18
Length = 220
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 60/151 (39%), Gaps = 38/151 (25%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRENNA--------ILP-NGQTIF---------- 123
+ K G SV++ C A G+ ++W +++ I+P NG T +
Sbjct: 11 LVKPGASVKMSCKASGYTFTDYYVNWVKQSRGKSLEWLGLIIPSNGGTTYNQKFRGKATL 70
Query: 124 ------TGSTLQIPRITKEDRGAYYCVAQNGI--------GRGARRKIEVKVEFAPIVTV 169
+ + +++ +T ED YYC A+ G+ G+G + AP V
Sbjct: 71 TVDKSSSTAYMELNSLTSEDSAVYYC-ARRGLTGALFAYWGQGTLVTVSAAKTTAPSVYP 129
Query: 170 QSTRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 130 LAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 160
>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 = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 56/151 (37%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN---------------- 118
+++ SP G+ V L C A + I+W ++ P
Sbjct: 2 IVMTQSPSSLAVSAGERVTLNCKASQNVRNNIAWYQQKPGQSPKLLIYYASYRYTGVPDR 61
Query: 119 --GQTIFTGSTLQIPRITKEDRGAYYC--VAQNGIGRGARRKIE-VKVEFAPIVTVQSTR 173
G T TL I + +D YYC + + GA K+E ++ + AP V++
Sbjct: 62 FTGDGFGTDFTLAINSVQADDAAFYYCQRIYNSPYTFGAGTKLELIRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
+ Q + C + YP I + W DG
Sbjct: 122 MEQLTSGGASVVCFVNNFYPRDISVKWKIDG 152
>pdb|4AEI|L Chain L, Crystal Structure Of The Aahii-Fab4c1 Complex
pdb|4AEI|M Chain M, Crystal Structure Of The Aahii-Fab4c1 Complex
pdb|4AEI|N Chain N, Crystal Structure Of The Aahii-Fab4c1 Complex
Length = 219
Score = 35.4 bits (80), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1TET|L Chain L, Crystal Structure Of An Anticholera Toxin Peptide Complex
At 2.3 Angstroms
Length = 216
Score = 35.4 bits (80), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + I G+ K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHIPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3L5W|L Chain L, Crystal Structure Of The Complex Between Il-13 And C836
Fab
pdb|3L5W|A Chain A, Crystal Structure Of The Complex Between Il-13 And C836
Fab
pdb|3L7E|L Chain L, Crystal Structure Of Anti-Il-13 Antibody C836
pdb|3L7E|A Chain A, Crystal Structure Of Anti-Il-13 Antibody C836
Length = 214
Score = 35.4 bits (80), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 49/117 (41%), Gaps = 23/117 (19%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRE-----NNAILPNGQTI------- 122
V + SP A G+++ L C A ++W +E N ++ +G T+
Sbjct: 2 VQITQSPSYLAASPGETITLNCRASKSISKYLAWYQEKPGKTNKLLIYSGSTLQSGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQN----GIGRGARRKIEVKVEFAPIVTV 169
F+GS TL I + ED Y+C N G G + +I+ V AP V +
Sbjct: 62 FSGSGSGTDFTLTISSLEPEDFAMYFCQQHNEYPYTFGGGTKLEIKRTVA-APSVFI 117
>pdb|2WV3|A Chain A, Neuroplastin-55 Binds To And Signals Through The
Fibroblast Growth Factor Receptor
Length = 190
Score = 35.0 bits (79), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 33/76 (43%), Gaps = 10/76 (13%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAI---LPNGQTIF------TGSTLQIPRI-TKED 137
EGQ + C + G+P P WR++ N + + N F + L I + ED
Sbjct: 106 EGQDAMMYCKSVGYPHPEWMWRKKENGVFEEISNSSGRFFIINKENYTELNIVNLQITED 165
Query: 138 RGAYYCVAQNGIGRGA 153
G Y C A N IG +
Sbjct: 166 PGEYECNATNSIGSAS 181
Score = 35.0 bits (79), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 43/111 (38%), Gaps = 5/111 (4%)
Query: 92 VQLECH--AEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGI 149
V L+C+ + H + W + N L + + +I + ED G Y+CV
Sbjct: 21 VTLQCNLTSSSHTLMYSYWTK-NGVELTATRKNASNMEYRINKPRAEDSGEYHCVYHFVS 79
Query: 150 GRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCHIEAYPHPILYWAK 200
A IEVK AP +T + D + C YPHP W K
Sbjct: 80 APKANATIEVKA--APDITGHKRSENKNEGQDAMMYCKSVGYPHPEWMWRK 128
>pdb|1MJ8|L Chain L, High Resolution Crystal Structure Of The Fab Fragment Of
The Esterolytic Antibody Ms6-126
Length = 219
Score = 35.0 bits (79), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC+ + GA K+E+K + AP V++ Q
Sbjct: 74 TAFTLRISRVEAEDVGVYYCLQHLEYPFTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|2R0Z|L Chain L, Pfa1 Fab Complexed With Gripi Peptide Fragment
pdb|3EYS|L Chain L, Pfa1 Fab Fragment Complexed With Pyro-Glu3-A-Beta (3-8)
pdb|3EYU|L Chain L, Pfa1 Fab Fragment Complexed With Ror2(518-525)
Length = 219
Score = 35.0 bits (79), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|2DDQ|L Chain L, Crystal Structure Of The Fab Fragment Of A R310 Antibody
Complexed With (R)-Hne-Histidine Adduct
Length = 218
Score = 35.0 bits (79), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3IFP|L Chain L, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:12b4) Complex
pdb|3IFP|B Chain B, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:12b4) Complex
pdb|3IFP|D Chain D, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:12b4) Complex
pdb|3IFP|F Chain F, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:12b4) Complex
Length = 219
Score = 35.0 bits (79), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|2IPU|L Chain L, Pfa1 Fab Fragment Complexed With Abeta 1-8 Peptide
pdb|2IPU|K Chain K, Pfa1 Fab Fragment Complexed With Abeta 1-8 Peptide
pdb|2IQ9|L Chain L, Pfa2 Fab Fragment, Triclinic Apo Form
Length = 219
Score = 35.0 bits (79), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1ZEA|L Chain L, Structure Of The Anti-Cholera Toxin Antibody Fab Fragment
Te33 In Complex With A D-Peptide
Length = 216
Score = 35.0 bits (79), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + I G+ K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHIPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3OZ9|H Chain H, Crystal Structure Of Anti-Gp41 Fab Nc-1
Length = 219
Score = 35.0 bits (79), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 36/150 (24%), Positives = 55/150 (36%), Gaps = 36/150 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SV++ C A G+ + + W ++ ILP G+ F
Sbjct: 11 LMKPGSSVKISCKATGYRFSSYWVEWVKQRPGHGLEWIGKILPGIGSTSYNEKFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCV-AQNG------IGRGARRKIEVKVEFAPIVTVQ 170
T T +Q+ +T ED YYC G G+G + AP V
Sbjct: 71 TADTSSNTAYMQLSSLTSEDSAVYYCARGYYGPTWFAYWGQGTLVTVSSAKTTAPSVYPL 130
Query: 171 STRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 131 APVCGDTTGSSVTLGCLVKGYFPEPVTLTW 160
>pdb|1MJJ|A Chain A, High Resolution Crystal Structure Of The Complex Of The
Fab Fragment Of Esterolytic Antibody Ms6-12 And A
Transition- State Analog
pdb|1MJJ|L Chain L, High Resolution Crystal Structure Of The Complex Of The
Fab Fragment Of Esterolytic Antibody Ms6-12 And A
Transition- State Analog
pdb|1MJU|L Chain L, 1.22 Angstrom Resolution Crystal Structure Of The Fab
Fragment Of Esterolytic Antibody Ms6-12
Length = 219
Score = 35.0 bits (79), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC+ + GA K+E+K + AP V++ Q
Sbjct: 74 TAFTLRISRVEAEDVGVYYCLQHLEYPFTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3BAE|L Chain L, Crystal Structure Of Fab Wo2 Bound To The N Terminal
Domain Of Amyloid Beta Peptide (1-28)
Length = 218
Score = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLRISRVEAEDLGVYYCFQASLVPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1BLN|A Chain A, Anti-P-Glycoprotein Fab Mrk-16
pdb|1BLN|C Chain C, Anti-P-Glycoprotein Fab Mrk-16
Length = 214
Score = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + R G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQASHAPRTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|2D03|L Chain L, Crystal Structure Of The G91s Mutant Of The Nna7 Fab
Length = 217
Score = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL I R+ ED G YYC + + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLTISRVEAEDLGVYYCFQSSHVPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1MH5|A Chain A, The Structure Of The Complex Of The Fab Fragment Of The
Esterolytic Antibody Ms6-164 And A Transition-State
Analog
pdb|1MH5|L Chain L, The Structure Of The Complex Of The Fab Fragment Of The
Esterolytic Antibody Ms6-164 And A Transition-State
Analog
Length = 219
Score = 35.0 bits (79), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC+ + GA K+E+K + AP V++ Q
Sbjct: 74 TAFTLRISRVEAEDVGVYYCLQHLEYPFTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>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 = 35.0 bits (79), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 31/130 (23%), Positives = 56/130 (43%), Gaps = 11/130 (8%)
Query: 29 QSVQLECHAEGHPIPTISWRRNFKRLGRLHLAIPYTSPEAQVD----TPPVILNNSPQLS 84
S++ + A P+P + N+ L R H Y+ +A D P I+ P +
Sbjct: 436 DSIKTKYDAWPEPLPPLGRISNYSSL-RKHRPQEYSIRDAFWDRSEAQPRFIV--KPYGT 492
Query: 85 VAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI--FTGST--LQIPRITKEDRGA 140
EGQS C P ++W +++ + + + + + G+ L I R+ +D+G
Sbjct: 493 EVGEGQSANFYCRVIASSPPVVTWHKDDRELKQSVKYMKRYNGNDYGLTINRVKGDDKGE 552
Query: 141 YYCVAQNGIG 150
Y A+N G
Sbjct: 553 YTVRAKNSYG 562
>pdb|1KOA|A Chain A, Twitchin Kinase Fragment (C.Elegans), Autoregulated
Protein Kinase And Immunoglobulin Domains
Length = 491
Score = 35.0 bits (79), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 31/130 (23%), Positives = 56/130 (43%), Gaps = 11/130 (8%)
Query: 29 QSVQLECHAEGHPIPTISWRRNFKRLGRLHLAIPYTSPEAQVDT----PPVILNNSPQLS 84
S++ + A P+P + N+ L R H Y+ +A D P I+ P +
Sbjct: 330 DSIKTKYDAWPEPLPPLGRISNYSSL-RKHRPQEYSIRDAFWDRSEAQPRFIV--KPYGT 386
Query: 85 VAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI--FTGST--LQIPRITKEDRGA 140
EGQS C P ++W +++ + + + + + G+ L I R+ +D+G
Sbjct: 387 EVGEGQSANFYCRVIASSPPVVTWHKDDRELKQSVKYMKRYNGNDYGLTINRVKGDDKGE 446
Query: 141 YYCVAQNGIG 150
Y A+N G
Sbjct: 447 YTVRAKNSYG 456
>pdb|3O4L|E Chain E, Genetic And Structural Basis For Selection Of A Ubiquitous
T Cell Receptor Deployed In Epstein-Barr Virus
Length = 245
Score = 35.0 bits (79), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 25/103 (24%), Positives = 39/103 (37%), Gaps = 26/103 (25%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR------------------------ 110
+++ P + K G SV++EC + T+ W R
Sbjct: 2 AVVSQHPSWVICKSGTSVKIECRSLDFQATTMFWYRQFPKQSLMLMATSNEGSKATYEQG 61
Query: 111 -ENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRG 152
E + L N ++ T STL + ED Y C A++G G G
Sbjct: 62 VEKDKFLINHASL-TLSTLTVTSAHPEDSSFYICSARDGTGNG 103
>pdb|3O6K|L Chain L, Crystal Structure Of Anti-Tat Hiv Fab'11h6h1
pdb|3O6L|L Chain L, Anti-Tat Hiv 11h6h1 Fab' Complexed With A 15-Mer Tat
Peptide
pdb|3O6M|L Chain L, Anti-Tat Hiv 11h6h1 Fab' Complexed With A 9-Mer Tat
Peptide
Length = 219
Score = 35.0 bits (79), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 30/91 (32%), Positives = 40/91 (43%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL+I R+ ED G YYC R G K+E+K + AP V++
Sbjct: 67 FTGSGSGTDFTLKISRVEAEDLGIYYCWQGTHFPRTFGGGTKLEIKRADAAPTVSIFPPS 126
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 127 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|2VC2|H Chain H, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist L-739758
pdb|2VDK|H Chain H, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDL|H Chain H, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDM|H Chain H, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist Tirofiban
pdb|2VDN|H Chain H, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist Eptifibatide
pdb|2VDO|H Chain H, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen Gamma
Chain Peptide, Hhlggakqagdv
pdb|2VDP|H Chain H, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen Gamma
Chain Peptide,Lggakqagdv
pdb|2VDQ|H Chain H, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Hhlggakqrgdv
pdb|2VDR|H Chain H, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Lggakqrgdv
pdb|3NID|E Chain E, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NID|H Chain H, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NIF|E Chain E, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIF|H Chain H, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|E Chain E, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|H Chain H, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3T3M|E Chain E, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3M|H Chain H, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|E Chain E, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|H Chain H, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
Length = 221
Score = 35.0 bits (79), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 38/150 (25%), Positives = 54/150 (36%), Gaps = 36/150 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-----------NGQTIF 123
+ K G SV+L C A G I + W ++ I P G+
Sbjct: 11 LVKPGASVKLSCTASGFNIKDTYVHWVKQRPEQGLEWIGRIDPANGYTKYDPKFQGKATI 70
Query: 124 TGST------LQIPRITKEDRGAYYCV-------AQNGIGRGARRKIEVKVEFAPIVTVQ 170
T T LQ+ +T ED YYCV A + G+G + AP V
Sbjct: 71 TADTSSNTAYLQLSSLTSEDTAVYYCVRPLYDYYAMDYWGQGTSVTVSSAKTTAPSVYPL 130
Query: 171 STRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 131 APVCGDTTGSSVTLGCLVKGYFPEPVTLTW 160
>pdb|1G7L|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3 (Vlw92s)
Length = 107
Score = 34.7 bits (78), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 48/106 (45%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-----------ILPNGQ-TI 122
++L SP A G++V + C A G+ ++W ++ L +G +
Sbjct: 2 IVLTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS +L+I + ED G+YYC + R G K+E+K
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGSYYCQHFSSTPRTFGGGTKLEIK 107
>pdb|2W60|B Chain B, Anti Citrullinated Collagen Type 2 Antibody Acc4
pdb|2W65|B Chain B, Anti Citrullinated Collagen Type 2 Antibody Acc4 In
Complex With A Citrullinated Peptide
pdb|2W65|D Chain D, Anti Citrullinated Collagen Type 2 Antibody Acc4 In
Complex With A Citrullinated Peptide
Length = 217
Score = 34.7 bits (78), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 30/91 (32%), Positives = 41/91 (45%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL+I R+ ED G YYC + GA K+E+K + AP V++
Sbjct: 67 FTGSGSGTDFTLKISRVEAEDLGVYYCWQGTHFPLTFGAGTKLELKRADAAPTVSIFPPS 126
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 127 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1MLB|A Chain A, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme
pdb|1MLC|A Chain A, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme Complexed With Lysozyme
pdb|1MLC|C Chain C, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme Complexed With Lysozyme
Length = 214
Score = 34.7 bits (78), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 38/151 (25%), Positives = 54/151 (35%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP----------------- 117
+ L SP G SV L C A + W ++ + P
Sbjct: 2 IELTQSPATLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYVSQSSSGIPSR 61
Query: 118 -NGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTR 173
+G T TL I + ED G Y+C N R G K+E+K + AP V++
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPRTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1PKQ|B Chain B, Myelin Oligodendrocyte Glycoprotein-(8-18c5) Fab-Complex
pdb|1PKQ|G Chain G, Myelin Oligodendrocyte Glycoprotein-(8-18c5) Fab-Complex
Length = 252
Score = 34.7 bits (78), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 37/150 (24%), Positives = 56/150 (37%), Gaps = 44/150 (29%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SV++ C A G+ + I W ++ ILP G+ F
Sbjct: 32 LVKPGASVEISCKATGYTFSSFWIEWVKQRPGHGLEWIGEILPGRGRTNYNEKFKGKATF 91
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNGI------GRGARRKIEVKVEFAPIV---- 167
T T +Q+ +T ED YYC N + G+G + P V
Sbjct: 92 TAETSSNTAYMQLSSLTSEDSAVYYCATGNTMVNMPYWGQGTTVTVSSASTKGPSVFPLA 151
Query: 168 -TVQSTRIGQALHHDMDLDCHIEAY-PHPI 195
+ +ST G A L C ++ Y P P+
Sbjct: 152 PSSKSTSGGTA-----ALGCLVKDYFPEPV 176
>pdb|1CFS|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Unrelated Peptide
pdb|1CFT|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Unrelated D-Peptide
pdb|1CFN|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Related Peptide
pdb|1CFQ|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41
pdb|1BOG|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Homologous Peptide
pdb|1HH6|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With A
Peptide
pdb|1HH9|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With A
Peptide
pdb|1HI6|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With A
Peptide
Length = 213
Score = 34.7 bits (78), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 31/144 (21%), Positives = 54/144 (37%), Gaps = 31/144 (21%)
Query: 85 VAKEGQSVQLECHAEGH-------------PIPTISW---------------RRENNAIL 116
+ + G SV+L C A G+ P+ + W + + A L
Sbjct: 11 LVRPGASVKLSCKALGYIFTDYEIHWVKQTPVHGLEWIGGIHPGSSGTAYNQKFKGKATL 70
Query: 117 PNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQ 176
++ T + +++ +T ED YYC ++ G+G + AP V G
Sbjct: 71 TADKSSTT-AFMELSSLTSEDSAVYYCTRKDYWGQGTLVTVSAAKTTAPSVYPLVPVCGG 129
Query: 177 ALHHDMDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 130 TTGSSVTLGCLVKGYFPEPVTLTW 153
>pdb|1G7J|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3 (Vlw92h)
Length = 107
Score = 34.7 bits (78), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 48/106 (45%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-----------ILPNGQ-TI 122
++L SP A G++V + C A G+ ++W ++ L +G +
Sbjct: 2 IVLTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS +L+I + ED G+YYC + R G K+E+K
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGSYYCQHFHSTPRTFGGGTKLEIK 107
>pdb|1EHL|H Chain H, 64m-2 Antibody Fab Complexed With D(5ht)(6-4)t
Length = 219
Score = 34.7 bits (78), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 33/151 (21%), Positives = 56/151 (37%), Gaps = 37/151 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-----------NGQTIF 123
+A+ G SV++ C A G+ + + W ++ I P G+
Sbjct: 11 LARPGASVKMSCKASGYSFTSFWMHWVKQRPGQGLEWIGTIYPGNSDTSYNQKFKGKAKL 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNGI--------GRGARRKIEVKVEFAPIVTV 169
T T +++ +T ED YYC ++G G+G + AP V
Sbjct: 71 TAVTSASTAYMEVSSLTNEDSAVYYCTRRSGYKYYALDYWGQGTSVTVSSAKTTAPSVYP 130
Query: 170 QSTRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 131 LAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 161
>pdb|1F6L|L Chain L, Variable Light Chain Dimer Of Anti-Ferritin Antibody
Length = 114
Score = 34.7 bits (78), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 47/106 (44%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTI------- 122
+ + SP A G++V + C A + ++W ++ P N +T+
Sbjct: 2 IQMTQSPASLSASVGETVTITCRASENIYSYLAWYQQKQGKSPQLLVYNAKTLAEGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
F+GS +L+I + ED G+YYC G G+ K+E+K
Sbjct: 62 FSGSGSGTQFSLKINSLQPEDFGSYYCQHHYGTPFTFGSGTKLEIK 107
>pdb|3V6O|E Chain E, Leptin Receptor-Antibody Complex
pdb|3V6O|F Chain F, Leptin Receptor-Antibody Complex
pdb|3VG0|L Chain L, Antibody Fab Fragment
Length = 215
Score = 34.7 bits (78), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 57/151 (37%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+++ SP+ G V + C A + ++W ++ P
Sbjct: 3 IVMTQSPKFMSTSIGDRVNITCKATQNVRTAVTWYQQKPGQSPQALIFLASNRHTGVPAR 62
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL I + ED Y+C+ + G+ K+E+K + AP V++
Sbjct: 63 FTGSGSGTDFTLTINNVKSEDLADYFCLQHWNYPLTFGSGTKLEIKRADAAPTVSIFPPS 122
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 123 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 153
>pdb|1G7H|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3(Vlw92a)
Length = 107
Score = 34.7 bits (78), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 47/106 (44%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-----------ILPNGQ-TI 122
++L SP A G++V + C A G+ ++W ++ L +G +
Sbjct: 2 IVLTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK 160
F+GS +L+I + ED G+YYC A G K+E+K
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGSYYCQHFASTPRTFGGGTKLEIK 107
>pdb|1NSN|H Chain H, The Crystal Structure Of Antibody N10-Staphylococcal
Nuclease Complex At 2.9 Angstroms Resolution
Length = 210
Score = 34.7 bits (78), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 31/140 (22%), Positives = 53/140 (37%), Gaps = 29/140 (20%)
Query: 85 VAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST------------ 127
+ K QS+ L C G+ I + +W R+ N + G ++G+T
Sbjct: 11 LVKPSQSLSLTCTVTGYSITSDYAWNWIRQFPGNKLEWMGYITYSGTTSYNPSLKSRISI 70
Query: 128 ----------LQIPRITKEDRGAYYCVAQNG-IGRGARRKIEVKVEFAPIVTVQSTRIGQ 176
+Q+ +T ED G +YC NG G+G + P V +
Sbjct: 71 SRDTSKNQFFMQLNSVTTEDTGTFYCTRGNGDWGQGTTLTVSSAKTTPPSVYPLAPGSAA 130
Query: 177 ALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 QTNSMVTLGCLVKGYFPEPV 150
>pdb|1CLZ|L Chain L, Igg Fab (Igg3, Kappa) Fragment (Mbr96) Complexed With
Lewis Y Nonoate Methyl Ester
Length = 219
Score = 34.7 bits (78), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + G+ K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3G9A|B Chain B, Green Fluorescent Protein Bound To Minimizer Nanobody
Length = 139
Score = 34.7 bits (78), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 41/102 (40%), Gaps = 27/102 (26%)
Query: 73 PPVILNNSPQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPNGQTI 122
V L S SV + G S++L C A G + ++W R+ + IL +G T
Sbjct: 2 ADVQLQESGGGSV-QAGGSLRLSCAASGDTFSSYSMAWFRQAPGKECELVSNILRDGTTT 60
Query: 123 FTGST----------------LQIPRITKEDRGAYYCVAQNG 148
+ GS LQ+ + ED YYC A +G
Sbjct: 61 YAGSVKGRFTISRDDAKNTVYLQMVNLKSEDTARYYCAADSG 102
>pdb|2IJ0|E Chain E, Structural Basis Of T Cell Specificity And Activation By
The Bacterial Superantigen Toxic Shock Syndrome Toxin-1
pdb|2IJ0|C Chain C, Structural Basis Of T Cell Specificity And Activation By
The Bacterial Superantigen Toxic Shock Syndrome Toxin-1
Length = 118
Score = 34.7 bits (78), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 40/99 (40%), Gaps = 24/99 (24%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRE---------------NNAILPNG- 119
+++ P + + K G SV++EC + I T+ W R+ NAI G
Sbjct: 3 VVSQHPSMVIVKSGTSVKIECRSLDTNIHTMFWYRQFPKQSLMLMATSHQGFNAIYEQGV 62
Query: 120 -QTIF-------TGSTLQIPRITKEDRGAYYCVAQNGIG 150
+ F T STL + ED G Y C A G G
Sbjct: 63 VKDKFLINHASPTLSTLTVTSAHPEDSGFYVCSALAGSG 101
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 21/39 (53%)
Query: 22 LSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLHLA 60
+ + K G SV++EC + I T+ W R F + + +A
Sbjct: 10 MVIVKSGTSVKIECRSLDTNIHTMFWYRQFPKQSLMLMA 48
>pdb|1KEG|H Chain H, Antibody 64m-2 Fab Complexed With Dtt(6-4)tt
Length = 220
Score = 34.7 bits (78), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 33/151 (21%), Positives = 56/151 (37%), Gaps = 37/151 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-----------NGQTIF 123
+A+ G SV++ C A G+ + + W ++ I P G+
Sbjct: 11 LARPGASVKMSCKASGYSFTSFWMHWVKQRPGQGLEWIGTIYPGNSDTSYNQKFKGKAKL 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNGI--------GRGARRKIEVKVEFAPIVTV 169
T T +++ +T ED YYC ++G G+G + AP V
Sbjct: 71 TAVTSASTAYMEVSSLTNEDSAVYYCTRRSGYKYYALDYWGQGTSVTVSSAKTTAPSVYP 130
Query: 170 QSTRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 131 LAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 161
>pdb|1L7T|L Chain L, Crystal Structure Analysis Of The Anti-Testosterone Fab
Fragment
pdb|1VPO|L Chain L, Crystal Structure Analysis Of The Anti-testosterone Fab In
Complex With Testosterone
Length = 219
Score = 34.7 bits (78), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFDGSTVPPKFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1A3L|L Chain L, Catalysis Of A Disfavored Reaction: An Antibody Exo Diels-
Alderase-Tsa-Inhibitor Complex At 1.95 A Resolution
pdb|1RUQ|L Chain L, Crystal Structure (H) Of U.V.-Irradiated Diels-Alder
Antibody 13g5 Fab At Ph 8.0 With A Data Set Collected In
House.
pdb|1RUR|L Chain L, Crystal Structure (i) Of Native Diels-alder Antibody 13g5
Fab At Ph 8.0 With A Data Set Collected At Ssrl Beamline
9- 1
Length = 217
Score = 34.7 bits (78), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 34/113 (30%), Positives = 51/113 (45%), Gaps = 15/113 (13%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQN-----GIGRGARRKIEVKVEFAPIVTVQS 171
F+GS TL+I R+ ED G YYC AQN G G + +I+ + + AP V++
Sbjct: 67 FSGSGSGTDFTLRISRVEAEDVGVYYC-AQNLELPYTFGGGTKLEIK-RADAAPTVSIFP 124
Query: 172 TRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDGEIVVNDEYHSISNFGTSEGT 222
Q + C + YP I + W DG N +S ++ T + T
Sbjct: 125 PSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDTKDST 177
>pdb|1AE6|L Chain L, Igg-Fab Fragment Of Mouse Monoclonal Antibody Ctm01
Length = 219
Score = 34.7 bits (78), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL++ R+ ED G YYC+ + GA K+E+K + AP V++ Q
Sbjct: 74 TAFTLRVSRVEAEDVGVYYCMQHLEYPFTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1KEG|L Chain L, Antibody 64m-2 Fab Complexed With Dtt(6-4)tt
Length = 216
Score = 34.3 bits (77), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 38/83 (45%), Gaps = 4/83 (4%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI-GRGARRKIEVK-VEFAPIVTVQSTRIGQALHHD 181
T TL+I R+ ED G YYC + + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSLVPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGG 133
Query: 182 MDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 ASVVCFLNNFYPKDINVKWKIDG 156
>pdb|1EHL|L Chain L, 64m-2 Antibody Fab Complexed With D(5ht)(6-4)t
Length = 217
Score = 34.3 bits (77), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 38/83 (45%), Gaps = 4/83 (4%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI-GRGARRKIEVK-VEFAPIVTVQSTRIGQALHHD 181
T TL+I R+ ED G YYC + + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSLVPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGG 133
Query: 182 MDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 ASVVCFLNNFYPKDINVKWKIDG 156
>pdb|1UB5|L Chain L, Crystal Structure Of Antibody 19g2 With Hapten At 100k
pdb|1UB5|B Chain B, Crystal Structure Of Antibody 19g2 With Hapten At 100k
Length = 214
Score = 34.3 bits (77), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 40/86 (46%), Gaps = 9/86 (10%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQN-----GIGRGARRKIEVKVEFAPIVTVQSTRIGQAL 178
T TL+I R+ ED G YYC AQN G G + +I+ + + AP V++ Q
Sbjct: 74 TDFTLRISRVEAEDVGVYYC-AQNLELPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLT 131
Query: 179 HHDMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 132 SGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1AR1|D Chain D, Structure At 2.7 Angstrom Resolution Of The Paracoccus
Denitrificans Two-Subunit Cytochrome C Oxidase Complexed
With An Antibody Fv Fragment
pdb|1MQK|L Chain L, Crystal Structure Of The Unliganded Fv-Fragment Of The
Anti- Cytochrome C Oxidase Antibody 7e2
pdb|3EHB|D Chain D, A D-Pathway Mutation Decouples The Paracoccus
Denitrificans Cytochrome C Oxidase By Altering The Side
Chain Orientation Of A Distant, Conserved Glutamate
pdb|3HB3|D Chain D, High Resolution Crystal Structure Of Paracoccus
Denitrificans Cytochrome C Oxidase
Length = 120
Score = 34.3 bits (77), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 47/107 (43%), Gaps = 21/107 (19%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTI-------FT 124
L +P A G++V + C A + ++W ++ P N +T+ F+
Sbjct: 4 LTQTPVSLSASVGETVTITCRASENIYSYLAWYQQKQGKSPQFLVYNAKTLGEGVPSRFS 63
Query: 125 GS------TLQIPRITKEDRGAYYCVAQNG---IGRGARRKIEVKVE 162
GS +L+I + ED G+YYC G + G K+E+K E
Sbjct: 64 GSGSGTQFSLKINSLLPEDFGSYYCQHHYGTPPLTFGGGTKLEIKRE 110
>pdb|3CFB|L Chain L, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2 In Complex With Stilbene Hapten At 100k
pdb|3CFB|A Chain A, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2 In Complex With Stilbene Hapten At 100k
pdb|3CFC|L Chain L, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2
Length = 219
Score = 34.3 bits (77), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 40/86 (46%), Gaps = 9/86 (10%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQN-----GIGRGARRKIEVKVEFAPIVTVQSTRIGQAL 178
T TL+I R+ ED G YYC AQN G G + +I+ + + AP V++ Q
Sbjct: 74 TDFTLRISRVEAEDVGVYYC-AQNLELPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLT 131
Query: 179 HHDMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 132 SGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1UZ8|A Chain A, Anti-Lewis X Fab Fragment In Complex With Lewis X
pdb|1UZ8|L Chain L, Anti-Lewis X Fab Fragment In Complex With Lewis X
Length = 218
Score = 34.3 bits (77), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 40/86 (46%), Gaps = 9/86 (10%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQN-----GIGRGARRKIEVKVEFAPIVTVQSTRIGQAL 178
T TL+I R+ ED G YYC AQN G G + +I+ + + AP V++ Q
Sbjct: 74 TDFTLRISRVEAEDVGVYYC-AQNLEVPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLT 131
Query: 179 HHDMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 132 SGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3NZ8|B Chain B, Crystal Structure Of The Hiv-2 Neutralizing Fab Fragment
7c8
pdb|3NZ8|L Chain L, Crystal Structure Of The Hiv-2 Neutralizing Fab Fragment
7c8
Length = 218
Score = 34.3 bits (77), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + G+ K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1T2Q|L Chain L, The Crystal Structure Of An Nna7 Fab That Recognizes An
N-Type Blood Group Antigen
Length = 217
Score = 34.3 bits (77), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL I R+ ED G YYC + + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLTISRVEAEDLGVYYCFQGSHVPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1I9I|H Chain H, Native Crystal Structure Of The Recombinant Monoclonal
Wild Type Anti-Testosterone Fab Fragment
pdb|1I9J|H Chain H, Testosterone Complex Structure Of The Recombinant
Monoclonal Wild Type Anti-Testosterone Fab Fragment
Length = 220
Score = 34.3 bits (77), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 34/85 (40%), Gaps = 26/85 (30%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRENN--------AILPNGQTIFTGST------- 127
+ K G S++L C A G T +SW R+ +I+ G T ++GS
Sbjct: 11 LVKPGGSLKLSCAASGFTFSTYALSWVRQTADKRLEWVASIVSGGNTYYSGSVKGRFTIS 70
Query: 128 ---------LQIPRITKEDRGAYYC 143
LQ+ + ED YYC
Sbjct: 71 RDIARNILYLQMSSLRSEDTAMYYC 95
>pdb|3LEX|H Chain H, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 11f10 In Complex With Hiv-1 Gp41
pdb|3LEX|A Chain A, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 11f10 In Complex With Hiv-1 Gp41
Length = 221
Score = 34.3 bits (77), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 54/147 (36%), Gaps = 33/147 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST------------ 127
+ K QS+ L C G+ I + SW R+ N + G ++G T
Sbjct: 11 LVKPSQSLSLTCTVTGYSITSDYAWSWIRQFPGNKLEWMGYINYSGYTSYNPSLKSRISI 70
Query: 128 ----------LQIPRITKEDRGAYYCVAQNGI----GRGARRKIEVKVEFAPIVTVQSTR 173
LQ+ +T ED Y+C N + G+G + AP V +
Sbjct: 71 TRDTSENQFFLQLHSVTPEDTATYFCAYGNYLPAYWGQGTLVTVSAAKTTAPSVYPLAPV 130
Query: 174 IGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 131 CGDTTGSSVTLGCLVKGYFPEPVTLTW 157
>pdb|2DDQ|H Chain H, Crystal Structure Of The Fab Fragment Of A R310 Antibody
Complexed With (R)-Hne-Histidine Adduct
Length = 213
Score = 34.3 bits (77), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 32/144 (22%), Positives = 54/144 (37%), Gaps = 30/144 (20%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRE---------------NNAILPN----GQTIF 123
+ K G SV++ C A G+ + + W ++ N+ N G+
Sbjct: 11 LVKPGASVKMSCKASGYTFTSYVMHWVKQKPGQGLEWIGYINPYNDGTKYNEKFKGKATL 70
Query: 124 TG------STLQIPRITKEDRGAYYCVAQNGI-GRGARRKIEVKVEFAPIVTVQSTRIGQ 176
T + +++ +T ED YYC G G+G + AP V + G
Sbjct: 71 TSDKSSSTAYMELSSLTSEDSAVYYCAPYGGYWGQGTTVTVSSAKTTAPSVYPLAPVCGD 130
Query: 177 ALHHDMDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 131 TTGSSVTLGCLVKGYFPEPVTLTW 154
>pdb|1I9I|L Chain L, Native Crystal Structure Of The Recombinant Monoclonal
Wild Type Anti-Testosterone Fab Fragment
pdb|1I9J|L Chain L, Testosterone Complex Structure Of The Recombinant
Monoclonal Wild Type Anti-Testosterone Fab Fragment
Length = 219
Score = 34.3 bits (77), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1FDL|L Chain L, Crystallographic Refinement Of The Three-Dimensional
Structure Of The Fab D1.3-Lysozyme Complex At 2.5-
Angstroms Resolution
Length = 214
Score = 34.3 bits (77), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 38/151 (25%), Positives = 63/151 (41%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-----------ILPNGQ-TI 122
+ + SP A G++V + C A G+ ++W ++ L +G +
Sbjct: 2 IQMTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L+I + ED G+YYC R G K+E+K + AP V++
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPRTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3O6F|D Chain D, Crystal Structure Of A Human Autoimmune Tcr Ms2-3c8 Bound
To Mhc Class Ii Self-Ligand MbpHLA-Dr4
pdb|3O6F|H Chain H, Crystal Structure Of A Human Autoimmune Tcr Ms2-3c8 Bound
To Mhc Class Ii Self-Ligand MbpHLA-Dr4
pdb|3T0E|D Chain D, Crystal Structure Of A Complete Ternary Complex Of T Cell
Receptor, Peptide-Mhc And Cd4
Length = 245
Score = 34.3 bits (77), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 32/128 (25%), Positives = 48/128 (37%), Gaps = 35/128 (27%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR------------------------- 110
+++ P +AK G SV++EC + T+ W R
Sbjct: 1 VVSQHPSWVIAKSGTSVKIECRSLDFQATTMFWYRQFPKQSLMLMATSNEGSKATYEQGV 60
Query: 111 ENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNG-------IGRGARRKI--EVKV 161
E + L N ++ T STL + ED Y C A+ G G G R + ++K
Sbjct: 61 EKDKFLINHASL-TLSTLTVTSAHPEDSSFYICSARGGSYNSPLHFGNGTRLTVTEDLKN 119
Query: 162 EFAPIVTV 169
F P V V
Sbjct: 120 VFPPEVAV 127
>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 = 34.3 bits (77), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 58/151 (38%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN---------------- 118
++L SP + A G+ V + C A + ++W ++ + P
Sbjct: 2 IVLTQSPAIMSASPGEKVTMTCSASSS-VSYMNWYQQKSGTSPKRWIYDTSKLASGVPAH 60
Query: 119 --GQTIFTGSTLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEV-KVEFAPIVTVQSTR 173
G T +L I + ED YYC + N G+ K+E+ + + AP V++
Sbjct: 61 FRGSGSGTSYSLTISGMEAEDAATYYCQQWSSNPPTFGSGTKLEINRADTAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHIEA-YPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|1UZ6|E Chain E, Anti-Lewis X Fab Fragment Uncomplexed
pdb|1UZ6|L Chain L, Anti-Lewis X Fab Fragment Uncomplexed
pdb|1UZ6|M Chain M, Anti-Lewis X Fab Fragment Uncomplexed
pdb|1UZ6|V Chain V, Anti-Lewis X Fab Fragment Uncomplexed
Length = 218
Score = 34.3 bits (77), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 40/86 (46%), Gaps = 9/86 (10%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQN-----GIGRGARRKIEVKVEFAPIVTVQSTRIGQAL 178
T TL+I R+ ED G YYC AQN G G + +I+ + + AP V++ Q
Sbjct: 74 TDFTLRISRVEAEDVGVYYC-AQNLEVPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLT 131
Query: 179 HHDMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 132 SGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3GO1|L Chain L, Crystal Structure Of Anti-Hiv-1 Fab 268-D In Complex With
V3 Peptide Mn
Length = 209
Score = 34.3 bits (77), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 37/155 (23%), Positives = 58/155 (37%), Gaps = 26/155 (16%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP------------------ 117
+L P +SV+ GQ+ ++ C AE W R+ P
Sbjct: 3 VLTQPPSVSVSP-GQTARITCSAEALSNQYAYWYRQRPGQAPLLIIYKDTKRPSGIPERF 61
Query: 118 NGQTIFTGSTLQIPRITKEDRGAYYCVAQNG-----IGRGARRKIEVKVEFAPIVTVQST 172
+G T T TL I + ED YYC + + G G + + + + P VT+
Sbjct: 62 SGSTSGTTVTLTISGVQAEDEADYYCQSADSSGDYVFGGGTKVTVLGQPKANPTVTLFPP 121
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDGEIV 205
+ + L C I + YP + + W DG V
Sbjct: 122 SSEELQANKATLVCLISDFYPGAVTVAWKADGSPV 156
>pdb|3OZ9|L Chain L, Crystal Structure Of Anti-Gp41 Fab Nc-1
Length = 211
Score = 34.3 bits (77), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 60/151 (39%), Gaps = 25/151 (16%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ------------TI 122
++L SP + A G+ + L C A + + W ++ + P +
Sbjct: 2 IVLTQSPVIMSASLGEEITLTCSASS-SVSYMHWYQQKSGTSPKLLIYSTSNLASGVPSR 60
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG---IGRGARRKIEVKVEFAPIVTVQSTR 173
F+GS +L I + ED YYC +G G G + +I+ + + AP V++
Sbjct: 61 FSGSGSGTFYSLTISSVEAEDAADYYCHQWSGFYTFGGGTKLEIQ-RADAAPTVSIFPPS 119
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 120 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 150
>pdb|2Z4Q|A Chain A, Crystal Structure Of A Murine Antibody Fab 528
Length = 219
Score = 34.3 bits (77), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + I G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGIYYCFQGSHIPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPRDINVKWKIDG 157
>pdb|2DQT|L Chain L, High Resolution Crystal Structure Of The Complex Of The
Hydrolytic Antibody Fab 6d9 And A Transition-State
Analog
pdb|2DQU|L Chain L, Crystal Form Ii: High Resolution Crystal Structure Of The
Complex Of The Hydrolytic Antibody Fab 6d9 And A
Transition-State Analog
pdb|2DTM|L Chain L, Thermodynamic And Structural Analyses Of Hydrolytic
Mechanism By Catalytic Antibodies
Length = 219
Score = 34.3 bits (77), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3TT1|H Chain H, Crystal Structure Of Leut In The Outward-Open Conformation
In Complex With Fab
pdb|3TT1|I Chain I, Crystal Structure Of Leut In The Outward-Open Conformation
In Complex With Fab
Length = 219
Score = 34.3 bits (77), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 34/152 (22%), Positives = 55/152 (36%), Gaps = 38/152 (25%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRENNA--------ILP-----------NGQTIF 123
+A+ G SV+L C A G+ I+W ++ I P G+
Sbjct: 11 LARPGASVKLSCKASGYTFTDYYINWMKQRTGQGLEWIGEIYPGVGTTYYDEKFKGKATL 70
Query: 124 TG------STLQIPRITKEDRGAYYCV---------AQNGIGRGARRKIEVKVEFAPIVT 168
T + +Q+ +T ED Y+C A + G+G + AP V
Sbjct: 71 TADKSSRSAYMQLSSLTSEDSAVYFCARRTVTMGRYAMDYWGQGTSVTVSSAKTTAPSVY 130
Query: 169 VQSTRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 131 PLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 162
>pdb|2G2R|L Chain L, Green-Fluorescent Antibody 11g10 In Complex With Its
Hapten (Nitro-Stilbene Derivative)
pdb|2G2R|A Chain A, Green-Fluorescent Antibody 11g10 In Complex With Its
Hapten (Nitro-Stilbene Derivative)
Length = 219
Score = 34.3 bits (77), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G Y+C+ + GA K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGIYFCLQSTHFPLTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPRDINVKWKIDG 157
>pdb|1IGF|L Chain L, Crystal Structures Of An Antibody To A Peptide And Its
Complex With Peptide Antigen At 2.8 Angstroms
pdb|1IGF|M Chain M, Crystal Structures Of An Antibody To A Peptide And Its
Complex With Peptide Antigen At 2.8 Angstroms
pdb|2IGF|L Chain L, Crystal Structures Of An Antibody To A Peptide And Its
Complex With Peptide Antigen At 2.8 Angstroms
Length = 219
Score = 34.3 bits (77), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3U9U|B Chain B, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
pdb|3U9U|D Chain D, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
Length = 219
Score = 34.3 bits (77), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1IGC|L Chain L, Igg1 Fab Fragment (Mopc21) Complex With Domain Iii Of
Protein G From Streptococcus
Length = 213
Score = 34.3 bits (77), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 38/152 (25%), Positives = 61/152 (40%), Gaps = 23/152 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR----ENNAILPNGQT--------I 122
+++ SP+ G+ V L C A + + +SW + ++ +L G +
Sbjct: 2 IVMTQSPKSMSMSVGERVTLTCKASENVVTYVSWYQQKPEQSPKLLIYGASNRYTGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL I + ED Y+C N G K+E+K + AP V++
Sbjct: 62 FTGSGSATDFTLTISSVQAEDLADYHCGQGNSYPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDGE 203
Q + C + YP I + W D E
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDSE 153
>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 = 0.067, Method: Compositional matrix adjust.
Identities = 38/151 (25%), Positives = 57/151 (37%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAE---------------GHPIPTISWRRENNAILPN- 118
++L SP + G+ V C A G P I + E+ + +P+
Sbjct: 2 ILLTQSPAILSVSPGERVSFSCRASQSIGTDIHWYQQRTNGSPRLLIKYASESISGIPSR 61
Query: 119 --GQTIFTGSTLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
G T TL I + ED YYC N G+ K+E+K + AP V++
Sbjct: 62 FSGSGSGTDFTLSINSVESEDIANYYCQQSNRWPFTFGSGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>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 = 33.9 bits (76), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 38/151 (25%), Positives = 57/151 (37%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAE---------------GHPIPTISWRRENNAILPN- 118
++L SP + G+ V C A G P I + E+ + +P+
Sbjct: 2 ILLTQSPAILSVSPGERVSFSCRASQSIGTDIHWYQQRTNGSPRLLIKYASESISGIPSR 61
Query: 119 --GQTIFTGSTLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
G T TL I + ED YYC N G+ K+E+K + AP V++
Sbjct: 62 FSGSGSGTDFTLSINSVESEDIANYYCQQSNRWPFTFGSGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|4DGI|L Chain L, Structure Of Pom1 Fab Fragment Complexed With Human Prpc
Fragment 120- 230
Length = 213
Score = 33.9 bits (76), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 40/151 (26%), Positives = 60/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISW--RRENNA----ILPNGQTI------ 122
++L SP + G+ V C A + +I W +R N + I ++I
Sbjct: 2 IVLTQSPAILSVSPGERVSFSCRASQNIGTSIHWYQQRTNESPRLIIKYASESISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS TL I + ED YYC N G K+E+K + AP V++
Sbjct: 62 FSGSGSGTDFTLSINSVESEDIADYYCQQSNTWPYTFGGGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3QPQ|L Chain L, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|E Chain E, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|C Chain C, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|I Chain I, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3ULU|E Chain E, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|E Chain E, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 215
Score = 33.9 bits (76), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 47/106 (44%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTI------- 122
+ + SP A G++V + C A G+ ++W ++ P N +T+
Sbjct: 2 IQMTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK 160
F+GS +L+I + ED G+YYC G+ K+E+K
Sbjct: 62 FSGSESGTQYSLKINSLQPEDFGSYYCQHFWSTPFTFGSGTKLELK 107
>pdb|1FIG|L Chain L, Routes To Catalysis: Structure Of A Catalytic Antibody And
Comparison With Its Natural Counterpart
Length = 215
Score = 33.9 bits (76), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 37/152 (24%), Positives = 58/152 (38%), Gaps = 26/152 (17%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPT-ISWRRENNAILPNGQTIFTGSTLQ----- 129
+L SP + A G+ V + C A T + W ++ + P I++ S L
Sbjct: 3 VLTQSPAIMSASPGEKVTMACRASSSVSSTYLHWYQQKSGASPK-LLIYSTSNLASGVPA 61
Query: 130 --------------IPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQST 172
I + ED YYC +G + GA K+E+K + AP V++
Sbjct: 62 RFSGSGSGTSYSLTISSVEAEDAATYYCQQYSGYPLTFGAGTKLELKRADAAPTVSIFPP 121
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 153
>pdb|1C5B|H Chain H, Decarboxylase Catalytic Antibody 21d8 Unliganded Form
pdb|1C5C|H Chain H, Decarboxylase Catalytic Antibody 21d8-Hapten Complex
Length = 215
Score = 33.9 bits (76), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 37/148 (25%), Positives = 57/148 (38%), Gaps = 38/148 (25%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-NGQTIF------ 123
P + K G SV+L C A G+ + + W ++ I P NG+T F
Sbjct: 7 PGTELVKPGASVKLSCRASGYSFTSYWMHWVKQRPGQGLEWIGLIDPSNGRTNFNDKFKS 66
Query: 124 ----------TGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIV-----T 168
+ + +Q+ +T ED YYCV G+G + P V +
Sbjct: 67 RATLTVDTSSSTAYMQLSSLTSEDSAVYYCVRIAYWGQGTLVTVSSASTKGPSVFPLAPS 126
Query: 169 VQSTRIGQALHHDMDLDCHIEAY-PHPI 195
+ST G A L C ++ Y P P+
Sbjct: 127 SKSTSGGTAA-----LGCLVKDYFPEPV 149
>pdb|2G60|L Chain L, Structure Of Anti-Flag M2 Fab Domain
Length = 216
Score = 33.9 bits (76), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 37/84 (44%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC A G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGAHAPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>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 = 33.9 bits (76), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 52/138 (37%), Gaps = 26/138 (18%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRE----------NNAILPN--GQTIFTGSTLQIPRITK 135
E V+L C G P + W+ + NN I + + F + + +T+
Sbjct: 18 ENNPVKLSCAYSGFSSPRVEWKFDQGDTTRLVCYNNKITASYEDRVTFLPTGITFKSVTR 77
Query: 136 EDRGAYYCVAQNGIGRGARRKIEVKVEF-------APIVTVQSTRIGQALHHDMDLDCHI 188
ED G Y C+ G EVKV+ P V + S+ + + L C
Sbjct: 78 EDTGTYTCMVSE---EGGNSYGEVKVKLIVLVPPSKPTVNIPSS---ATIGNRAVLTCSE 131
Query: 189 EAYPHPILY-WAKDGEIV 205
+ P Y W KDG ++
Sbjct: 132 QDGSPPSEYTWFKDGIVM 149
>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 = 33.9 bits (76), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + G+ K+E+K + AP V++ Q
Sbjct: 74 TDFTLEISRVKAEDVGVYYCQQFVEYPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>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 = 33.9 bits (76), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 35/143 (24%), Positives = 57/143 (39%), Gaps = 26/143 (18%)
Query: 89 GQSVQLECHAEGHPIPTISWRRE-----------NNAILPNG-QTIFTGS------TLQI 130
GQ V + C T++W ++ +A+ P+G T F+GS +L I
Sbjct: 15 GQRVTISCTGTSSGSITVNWYQQLPGMAPKLLIYRDAMRPSGVPTRFSGSKSGTSASLAI 74
Query: 131 PRITKEDRGAYYCVAQNG------IGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDL 184
+ ED YYC + N G G + + + + P VT+ + + L
Sbjct: 75 SGLEAEDESDYYCASWNSSDNSYVFGTGTKVTVLGQPKANPTVTLFPPSSEELQANKATL 134
Query: 185 DCHI-EAYPHPI-LYWAKDGEIV 205
C I + YP + + W DG V
Sbjct: 135 VCLISDFYPGAVTVAWKADGSPV 157
>pdb|1DQD|L Chain L, Crystal Structure Of Fab Hgr-2 F6, A Competitive
Antagonist Of The Glucagon Receptor
Length = 221
Score = 33.9 bits (76), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 61/159 (38%), Gaps = 26/159 (16%)
Query: 68 AQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGST 127
AQ ++L+ SP + A G+ V + C A + + W ++ P I+T S
Sbjct: 2 AQPAMADIVLSQSPAIMSASPGEKVTITCSASSS-VSYMHWFQQKPGTSPK-LCIYTTSN 59
Query: 128 LQ-------------------IPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAP 165
L I R+ ED YYC ++ G+ K+E+K + AP
Sbjct: 60 LASGVPARFSGSGSGTSYSLTISRMEAEDAATYYCQQRSTYPPTFGSGTKLEIKRADAAP 119
Query: 166 IVTVQSTRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
V++ Q + C + YP I + W DG
Sbjct: 120 TVSIFPPSSEQLTSGGASVVCFLNNFYPRDINVKWKIDG 158
>pdb|1E6J|L Chain L, Crystal Structure Of Hiv-1 Capsid Protein (P24) In Complex
With Fab13b5
Length = 210
Score = 33.9 bits (76), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 36/150 (24%), Positives = 57/150 (38%), Gaps = 23/150 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN---------------- 118
++L SP ++ A GQ V + C A + + W ++ + P
Sbjct: 2 IVLTQSPAITAASLGQKVTITCSASSS-VSYMHWYQQKSGTSPKPWIYEISKLASGVPAR 60
Query: 119 --GQTIFTGSTLQIPRITKEDRGAYYCVAQNG-IGRGARRKIEVK-VEFAPIVTVQSTRI 174
G T +L I + ED YYC N G+ K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTISSMEAEDAAIYYCQQWNYPFTFGSGTKLEIKRADAAPTVSIFPPSS 120
Query: 175 GQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 EQLTSGGASVVCFLNNFYPKDINVKWKIDG 150
>pdb|3BZ4|A Chain A, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3BZ4|C Chain C, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3BZ4|E Chain E, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3BZ4|G Chain G, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3C5S|A Chain A, Crystal Structure Of Monoclonal Fab F22-4 Specific For
Shigella Flexneri 2a O-Ag
pdb|3C5S|C Chain C, Crystal Structure Of Monoclonal Fab F22-4 Specific For
Shigella Flexneri 2a O-Ag
pdb|3C6S|A Chain A, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3C6S|C Chain C, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3C6S|E Chain E, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3C6S|G Chain G, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3GGW|A Chain A, Crystal Structure Of Fab F22-4 In Complex With A
Carbohydrate-Mimetic Peptide
pdb|3GGW|C Chain C, Crystal Structure Of Fab F22-4 In Complex With A
Carbohydrate-Mimetic Peptide
Length = 219
Score = 33.9 bits (76), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + R G K+E+K + AP V++ Q
Sbjct: 74 TDFTLRISRVEAEDVGIYYCAHNVELPRTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|2H1P|L Chain L, The Three-Dimensional Structures Of A Polysaccharide
Binding Antibody To Cryptococcus Neoformans And Its
Complex With A Peptide From A Phage Display Library:
Implications For The Identification Of Peptide Mimotopes
Length = 219
Score = 33.9 bits (76), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED+G Y+C + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDQGVYFCSQSTHVPWTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1F3D|L Chain L, Catalytic Antibody 4b2 In Complex With Its Amidinium
Hapten.
pdb|1F3D|J Chain J, Catalytic Antibody 4b2 In Complex With Its Amidinium
Hapten
Length = 219
Score = 33.9 bits (76), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3G5V|B Chain B, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 213
Score = 33.9 bits (76), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 36/153 (23%), Positives = 56/153 (36%), Gaps = 32/153 (20%)
Query: 84 SVAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST----------- 127
S+ K QS+ L C G+ I + +W R+ N + G ++G+T
Sbjct: 10 SLVKPSQSLSLTCTVTGYSITSDFAWNWIRQFPGNKLEWMGYISYSGNTRYNPSLKSRIS 69
Query: 128 -----------LQIPRITKEDRGAYYCV-AQNGI---GRGARRKIEVKVEFAPIVTVQST 172
LQ+ +T ED YYCV A G G+G + P V +
Sbjct: 70 ITRDTSSNQFFLQLNSVTIEDTATYYCVTAGRGFPYWGQGTLVTVSAAKTTPPSVYPLAP 129
Query: 173 RIGQALHHDMDLDCHIEAY-PHPILYWAKDGEI 204
G + L C ++ Y P + A G +
Sbjct: 130 GCGDTTGSSVTLGCLVKGYFPESVTVTANSGSL 162
>pdb|1CIC|C Chain C, Idiotope-Anti-Idiotope Fab-Fab Complex; D1.3-E225
Length = 214
Score = 33.9 bits (76), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 38/151 (25%), Positives = 63/151 (41%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-----------ILPNGQ-TI 122
+ + SP A G++V + C A G+ ++W ++ L +G +
Sbjct: 2 IQMTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L+I + ED G+YYC R G K+E+K + AP V++
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPRTFGGGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>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 = 0.086, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 60/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN----NAILPNGQT--------I 122
++L SP+ G+ V L C A + +SW ++ A+L G +
Sbjct: 2 IVLTQSPKSMSMSVGEKVTLSCKASENVDTYVSWYQQRPEQPPALLIYGASNRYTGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL I + ED Y+C + G K+E+K + AP V++
Sbjct: 62 FTGSGSATDFTLTISSVQAEDLADYHCGQSYSYPLTFGGGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1G7I|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3 (Vlw92f)
Length = 107
Score = 33.9 bits (76), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 47/106 (44%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-----------ILPNGQ-TI 122
++L SP A G++V + C A G+ ++W ++ L +G +
Sbjct: 2 IVLTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS +L+I + ED G+YYC R G K+E+K
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGSYYCQHFFSTPRTFGGGTKLEIK 107
>pdb|1QLE|L Chain L, Cryo-structure Of The Paracoccus Denitrificans
Four-subunit Cytochrome C Oxidase In The Completely
Oxidized State Complexed With An Antibody Fv Fragment
Length = 108
Score = 33.9 bits (76), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 46/105 (43%), Gaps = 21/105 (20%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTI-------FT 124
L +P A G++V + C A + ++W ++ P N +T+ F+
Sbjct: 4 LTQTPVSLSASVGETVTITCRASENIYSYLAWYQQKQGKSPQFLVYNAKTLGEGVPSRFS 63
Query: 125 GS------TLQIPRITKEDRGAYYCVAQNG---IGRGARRKIEVK 160
GS +L+I + ED G+YYC G + G K+E+K
Sbjct: 64 GSGSGTQFSLKINSLLPEDFGSYYCQHHYGTPPLTFGGGTKLEIK 108
>pdb|1PSK|H Chain H, The Crystal Structure Of An Fab Fragment That Binds To The
Melanoma-Associated Gd2 Ganglioside
Length = 209
Score = 33.5 bits (75), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 33/145 (22%), Positives = 58/145 (40%), Gaps = 31/145 (21%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISWRRENNA--------ILPN-GQTIF---------- 123
+ K G SV++ C G+ T+ W ++++ I PN G T +
Sbjct: 11 LVKPGASVKISCKTSGYTFTKYTMHWVKQSHGKSLEWIGDINPNNGGTNYNQKFKGTATL 70
Query: 124 ------TGSTLQIPRITKEDRGAYYCVAQ--NGIGRGARRKIEVKVEFAPIVTVQSTRIG 175
T + +++ +T ED YYC ++ + G+G + AP V + G
Sbjct: 71 TVHKSSTTAYMELRSLTSEDSAVYYCTSKSFDYWGQGTTLTVSSAKTTAPSVYPLAPVCG 130
Query: 176 QALHHDMDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 131 DTTGSAVTLGCLVKGYFPEPVTLTW 155
>pdb|3LEX|L Chain L, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 11f10 In Complex With Hiv-1 Gp41
pdb|3LEX|B Chain B, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 11f10 In Complex With Hiv-1 Gp41
Length = 219
Score = 33.5 bits (75), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 39/91 (42%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL+I R+ ED G YYC G K+E+K + AP V++
Sbjct: 67 FTGSGSGTDFTLKISRVEAEDLGVYYCWQGTHFPWTFGGYTKLEIKRADAAPTVSIFPPS 126
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 127 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|2FAT|L Chain L, An Anti-Urokinase Plasminogen Activator Receptor (Upar)
Antibody: Crystal Structure And Binding Epitope
pdb|3BT2|L Chain L, Structure Of Urokinase Receptor, Urokinase And Vitronectin
Complex
Length = 212
Score = 33.5 bits (75), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 57/151 (37%), Gaps = 25/151 (16%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS-------- 126
++L SP ++ A GQ V + C A + + W ++ + P IF S
Sbjct: 2 IVLTQSPDITAASLGQKVTITCSASSS-VSYMHWYQQKSGTSPKPW-IFEISKLASGVPA 59
Query: 127 -----------TLQIPRITKEDRGAYYCVAQNG-IGRGARRKIEVK-VEFAPIVTVQSTR 173
+L I + ED YYC N G K+E+K + AP V++
Sbjct: 60 RFSGSGSGTSYSLTISSMEAEDAAIYYCQQWNYPFTFGGGTKLEIKRADAAPTVSIFPPS 119
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 120 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 150
>pdb|1EO8|H Chain H, Influenza Virus Hemagglutinin Complexed With A
Neutralizing Antibody
Length = 217
Score = 33.5 bits (75), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 34/145 (23%), Positives = 51/145 (35%), Gaps = 34/145 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPNG-----------QTIF 123
+ K G SV++ C A G+ T I W R+ ILP + F
Sbjct: 11 LMKPGPSVKISCKATGYSFSTYFIEWIRQRPGHGLEWIGEILPGSDNTNFNEKFKDRATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNG------IGRGARRKIEVKVEFAPIVTVQS 171
T T +Q+ +T ED YYC G G+G + P V +
Sbjct: 71 TADTPSNTAYMQLSSLTSEDSAVYYCARPTGRLWFSYWGQGTLVTVSAAKTTPPSVYPLA 130
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 PGSAAQTNSMVTLGCLVKGYFPEPV 155
>pdb|3LD8|B Chain B, Structure Of Jmjd6 And Fab Fragments
pdb|3LDB|B Chain B, Structure Of Jmjd6 Complexd With Alpha-Ketoglutarate And
Fab Fragment
Length = 220
Score = 33.5 bits (75), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 59/159 (37%), Gaps = 33/159 (20%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAE------GHPIPTISWRREN-----NAILPNGQTIF 123
+++ SP G+ V + C + G ++W + ++ T+F
Sbjct: 2 IVMTQSPSSLAVSAGEKVTMSCRSSQSLYYSGIKKNLLAWYQLKPGQSPKLLIYYASTLF 61
Query: 124 TG-------------STLQIPRITKEDRGAYYCVAQNGIGR----GARRKIEVK-VEFAP 165
TG TL I + ED G Y+C Q GI GA K+E+K + P
Sbjct: 62 TGVPDRFTGSGSGTDYTLTITSVQAEDMGQYFC--QQGISNPYTFGAGTKLEIKRADAKP 119
Query: 166 IVTVQSTRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
V++ Q L C + YP I + W DG
Sbjct: 120 TVSIFPPSSEQLGTGSATLVCFVNNFYPKDINVKWKVDG 158
>pdb|2OZ4|L Chain L, Structural Plasticity In Igsf Domain 4 Of Icam-1 Mediates
Cell Surface Dimerization
Length = 214
Score = 33.5 bits (75), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 38/151 (25%), Positives = 57/151 (37%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAE---------------GHPIPTISWRRENNAILPN- 118
++L SP + G+ V C A G P I + E+ + +P+
Sbjct: 2 ILLTQSPAILSVSPGERVSFSCRASQSIGTSIHWFQQRINGSPRLLIEYASESISGIPSR 61
Query: 119 --GQTIFTGSTLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
G T TL I + ED YYC N G+ K+E+K + AP V++
Sbjct: 62 FSGSGSGTDFTLTINSVESEDIADYYCQQSNVWPFTFGSGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1F3R|B Chain B, Complex Between Fv Antibody Fragment And An Analogue Of
The Main Immunogenic Region Of The Acetylcholine
Receptor
Length = 257
Score = 33.5 bits (75), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 43/106 (40%), Gaps = 19/106 (17%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+ L SP L A G V L C + ++W ++ ++ N ++
Sbjct: 140 IKLTQSPSLLSASVGDRVTLSCKGSQNINNYLAWYQQKLGEAPKLLIYNTNSLQTGIPSR 199
Query: 123 FTGS------TLQIPRITKEDRGAYYCVA-QNGIGRGARRKIEVKV 161
F+GS TL I + ED Y+C NG GA K+E+K
Sbjct: 200 FSGSGSGTDYTLTISSLQPEDVATYFCYQYNNGYTFGAGTKLELKA 245
>pdb|1E6O|L Chain L, Crystal Structure Of Fab13b5 Against Hiv-1 Capsid Protein
P24
Length = 212
Score = 33.5 bits (75), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 36/150 (24%), Positives = 57/150 (38%), Gaps = 23/150 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN---------------- 118
++L SP ++ A GQ V + C A + + W ++ + P
Sbjct: 2 IVLTQSPAITAASLGQKVTITCSASSS-VSYMHWYQQKSGTSPKPWIYEISKLASGVPAR 60
Query: 119 --GQTIFTGSTLQIPRITKEDRGAYYCVAQNG-IGRGARRKIEVK-VEFAPIVTVQSTRI 174
G T +L I + ED YYC N G+ K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTISSMEAEDAAIYYCQQWNYPFTFGSGTKLEIKRADAAPTVSIFPPSS 120
Query: 175 GQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 EQLTSGGASVVCFLNNFYPKDINVKWKIDG 150
>pdb|2FD6|L Chain L, Structure Of Human Urokinase Plasminogen Activator In
Complex With Urokinase Receptor And An Anti-Upar
Antibody At 1.9 A
Length = 214
Score = 33.5 bits (75), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 57/151 (37%), Gaps = 25/151 (16%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS-------- 126
++L SP ++ A GQ V + C A + + W ++ + P IF S
Sbjct: 2 IVLTQSPDITAASLGQKVTITCSASSS-VSYMHWYQQKSGTSPKPW-IFEISKLASGVPA 59
Query: 127 -----------TLQIPRITKEDRGAYYCVAQNG-IGRGARRKIEVK-VEFAPIVTVQSTR 173
+L I + ED YYC N G K+E+K + AP V++
Sbjct: 60 RFSGSGSGTSYSLTISSMEAEDAAIYYCQQWNYPFTFGGGTKLEIKRADAAPTVSIFPPS 119
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 120 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 150
>pdb|2GJZ|L Chain L, Structure Of Catalytic Elimination Antibody 13g5 From A
Crystal In Space Group P2(1)
pdb|2GJZ|A Chain A, Structure Of Catalytic Elimination Antibody 13g5 From A
Crystal In Space Group P2(1)
pdb|2GK0|L Chain L, Structure Of Catalytic Elimination Antibody 13g5 From A
Twinned Crystal In Space Group C2
pdb|2GK0|A Chain A, Structure Of Catalytic Elimination Antibody 13g5 From A
Twinned Crystal In Space Group C2
Length = 217
Score = 33.5 bits (75), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKINRVEAEDLGVYYCFQGSHLPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1A7P|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) Engineered Mutant Pro95l->ser On Variant Chain
L Glu81- >asp And Chain H Leu312->val
Length = 107
Score = 33.5 bits (75), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 47/106 (44%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-----------ILPNGQ-TI 122
++L SP A G++V + C A G+ ++W ++ L +G +
Sbjct: 2 IVLTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS +L+I + +D G+YYC R G K+E+K
Sbjct: 62 FSGSGSGTQYSLKINSLQPDDFGSYYCQHFWSTSRTFGGGTKLEIK 107
>pdb|3VFG|L Chain L, Crystal Structure Of Monoclonal Anitbody 3f8 Fab Fragment
That Binds To Gd2 Ganglioside
Length = 211
Score = 33.5 bits (75), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 33/149 (22%), Positives = 55/149 (36%), Gaps = 22/149 (14%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+++ +P+ + G V + C A ++W ++ P
Sbjct: 2 IVMTQTPKFLLVSAGDRVTITCKASQSVSNDVTWYQQKAGQSPKLLIYSASNRYSGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVK-VEFAPIVTVQSTRIG 175
FTGS T I + ED Y+C Q+ G K+E+K + AP V++
Sbjct: 62 FTGSGYGTAFTFTISTVQAEDLAVYFC-QQDYSSFGGGTKLEIKRADAAPTVSIFPPSSE 120
Query: 176 QALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 QLTSGGASVVCFLNNFYPKDINVKWKIDG 149
>pdb|3SGD|L Chain L, Crystal Structure Of The Mouse Mab 17.2
pdb|3SGD|I Chain I, Crystal Structure Of The Mouse Mab 17.2
pdb|3SGE|L Chain L, Crystal Structure Of Mab 17.2 In Complex With R13 Peptide
pdb|3SGE|I Chain I, Crystal Structure Of Mab 17.2 In Complex With R13 Peptide
Length = 219
Score = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 40/91 (43%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL+I R+ ED G YYC + G K+E+K + AP V++
Sbjct: 67 FTGSGSGTDFTLKISRVEAEDLGVYYCWQGSHFPYTFGGGTKLEIKRADAAPTVSIFPPS 126
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 127 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1IFH|H Chain H, A Detailed Analysis Of The Free And Bound Conformation Of
An Antibody: X-Ray Structures Of Anti-Peptide Fab
17(Slash)9 And Three Different Fab-Peptide Complexes
pdb|1HIL|B Chain B, Structural Evidence For Induced Fit As A Mechanism For
Antigen-Antibody Recognition
pdb|1HIL|D Chain D, Structural Evidence For Induced Fit As A Mechanism For
Antigen-Antibody Recognition
pdb|1HIM|L Chain L, Structural Evidence For Induced Fit As A Mechanism For
Antibody-Antigen Recognition
pdb|1HIM|M Chain M, Structural Evidence For Induced Fit As A Mechanism For
Antibody-Antigen Recognition
pdb|1HIN|H Chain H, Structural Evidence For Induced Fit As A Mechanism For
Antibody-Antigen Recognition
Length = 220
Score = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 56/151 (37%), Gaps = 37/151 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISW-------RRENNAILPNG----------QTIFTG 125
+ K G S++L C A G + +SW R E A + NG + FT
Sbjct: 11 LVKPGGSLKLSCAASGFSFSSYGMSWVRQTPDKRLEWVATISNGGGYTYYPDSVKGRFTI 70
Query: 126 ST--------LQIPRITKEDRGAYYCVA-----QNGI---GRGARRKIEVKVEFAPIVTV 169
S LQ+ + ED YYC +NG G+G + AP V
Sbjct: 71 SRDNAKNTLYLQMSSLKSEDSAMYYCARRERYDENGFAYWGQGTLVTVSAAKTTAPSVYP 130
Query: 170 QSTRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 131 LAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 161
>pdb|2Q8A|H Chain H, Structure Of The Malaria Antigen Ama1 In Complex With A
Growth- Inhibitory Antibody
Length = 210
Score = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 31/134 (23%), Positives = 46/134 (34%), Gaps = 27/134 (20%)
Query: 85 VAKEGQSVQLECHAEGHPIPTIS--WRR-----------------ENNAILPN--GQTIF 123
+ K G SV+L C G I S W + +N+ P G+
Sbjct: 11 LLKPGASVKLSCIVSGFKIKDTSMHWVKQRPEQGLEWIGRIDPANDNSEYDPKFQGKATI 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQA 177
T T LQ+ +T ED YYC + G+G + P V + G
Sbjct: 71 TADTSSNTAYLQLSSLTSEDTAVYYCTLSHFWGQGTTLTVSSAKTTPPSVYPLAPGCGDT 130
Query: 178 LHHDMDLDCHIEAY 191
+ L C ++ Y
Sbjct: 131 TGSSVTLGCLVKGY 144
>pdb|2YPV|H Chain H, Crystal Structure Of The Meningococcal Vaccine Antigen
Factor H Binding Protein In Complex With A Bactericidal
Antibody
Length = 218
Score = 33.5 bits (75), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 32/141 (22%), Positives = 51/141 (36%), Gaps = 34/141 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISWRRENNA--------ILPNGQTI-----FTG---- 125
+ K G SV++ C A G+ +SW +++N I P TI F G
Sbjct: 11 LVKPGASVKISCKASGYSFSDYNMSWVKQSNGKSLEWIGIIDPKYGTINYNQKFKGKATL 70
Query: 126 --------STLQIPRITKEDRGAYYCVAQ-------NGIGRGARRKIEVKVEFAPIVTVQ 170
+ +Q+ +T ED YYCV + G+G + P V
Sbjct: 71 TVDQASSTAYMQLNSLTSEDSAVYYCVRDYYGSSYFDYWGQGTTLTVSSAKTTPPSVYPL 130
Query: 171 STRIGQALHHDMDLDCHIEAY 191
+ G + L C ++ Y
Sbjct: 131 APGCGDTTGSSVTLGCLVKGY 151
>pdb|2Z4Q|B Chain B, Crystal Structure Of A Murine Antibody Fab 528
Length = 218
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 34/149 (22%), Positives = 53/149 (35%), Gaps = 35/149 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRENNAILPNG-QTIFTGS--------------- 126
+A+ G SV+L C A G + + W ++ + P I+ GS
Sbjct: 11 MARPGASVKLPCKASGDTFTSYWMHWVKQRHGHGPEWIGNIYPGSGGTNYAEKFKNKVTL 70
Query: 127 ---------TLQIPRITKEDRGAYYCVAQNG------IGRGARRKIEVKVEFAPIVTVQS 171
+ + R+T ED YYC G G+G + AP V +
Sbjct: 71 TVDRSSRTVYMHLSRLTSEDSAVYYCTRSGGPYFFDYWGQGTSLTVSSAKTTAPSVYPLA 130
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 131 PVCGDTTGSSVTLGCLVKGYFPEPVTLTW 159
>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 = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 60/152 (39%), Gaps = 25/152 (16%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN------------NAILPNGQTI 122
++L SP A G+ V L C A ++W ++ N ++ +
Sbjct: 2 IVLTQSPSSIYASLGERVTLTCKASQDIHNYLNWFQQKPGKSPKTLIYRANRLVDGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQN----GIGRGARRKIEVKVEFAPIVTVQST 172
F+G +L I + ED G YYC+ + G G R +I+ + + AP V++
Sbjct: 62 FSGGGSGQDYSLTISSLEFEDIGIYYCLQYDEFPPTFGGGTRLEIK-RADAAPTVSIFPP 120
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|2PCP|A Chain A, Antibody Fab Complexed With Phencyclidine
pdb|2PCP|C Chain C, Antibody Fab Complexed With Phencyclidine
Length = 216
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 38/85 (44%), Gaps = 7/85 (8%)
Query: 124 TGSTLQIPRITKEDRGAYYCV----AQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALH 179
T TL+I R+ ED G YYC A G G + +I+ + + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGTHAPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTS 132
Query: 180 HDMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 133 GGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3CLF|H Chain H, Hiv Neutralizing Monoclonal Antibody Yz23
Length = 220
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 32/149 (21%), Positives = 58/149 (38%), Gaps = 35/149 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-NGQTIF---------- 123
+ + G SV++ C A G+ + + W ++ AI P NG T +
Sbjct: 11 LVRPGASVKMSCKASGYRFTSYNMHWVKQTPRQGLEWIGAIYPGNGDTSYNQKFKGKATL 70
Query: 124 ------TGSTLQIPRITKEDRGAYYC------VAQNGIGRGARRKIEVKVEFAPIVTVQS 171
+ + +Q+ +T ED Y+C + + G+G+ + AP V +
Sbjct: 71 TVDKSSSTAYMQLSSLTSEDSAVYFCARGRLSLGFDYWGQGSTLTVSSAKTTAPSVYPLA 130
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 131 PVCGDTTGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|1Q72|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With Cocaine
pdb|1QYG|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With Benzoylecgonine
pdb|1RFD|L Chain L, Anti-Cocaine Antibody M82g2
pdb|1RIU|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With
Norbenzoylecgonine
pdb|1RIV|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With Meta-
Oxybenzoylecgonine
Length = 218
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+ R+ ED G YYC+ + G+ K+E+K + AP V++ Q
Sbjct: 74 TAFTLRFSRVEAEDVGVYYCMQHLEYPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPQDITVSWKIDG 157
>pdb|3QG6|B Chain B, Structural Basis For Ligand Recognition And Discrimination
Of A Quorum Quenching Antibody
pdb|3QG6|H Chain H, Structural Basis For Ligand Recognition And Discrimination
Of A Quorum Quenching Antibody
pdb|3QG7|H Chain H, Structural Basis For Ligand Recognition And Discrimination
Of A Quorum Quenching Antibody
Length = 213
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 32/74 (43%), Gaps = 3/74 (4%)
Query: 128 LQIPRITKEDRGAYYCVAQNGI-GRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDC 186
LQ+ +T ED G Y+C + G+G + AP V + G + L C
Sbjct: 81 LQLHSVTIEDTGTYFCTREGDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGC 140
Query: 187 HIEAY-PHPI-LYW 198
++ Y P P+ L W
Sbjct: 141 LVKGYFPEPVTLTW 154
>pdb|3UJT|H Chain H, Structure Of The Fab Fragment Of Ab-52, An Antibody That
Binds The O- Antigen Of Francisella Tularensis
pdb|3UJT|I Chain I, Structure Of The Fab Fragment Of Ab-52, An Antibody That
Binds The O- Antigen Of Francisella Tularensis
Length = 213
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 35/148 (23%), Positives = 54/148 (36%), Gaps = 30/148 (20%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------G 119
P + + G SV+L C A G+ + + W ++ I PN G
Sbjct: 7 PGSVLVRPGASVKLSCKASGYTFTSSWMHWAKQRPGQGLEWIGEIHPNSGNTNYNEKFKG 66
Query: 120 QTIFTGST------LQIPRITKEDRGAYYCVAQNGI-GRGARRKIEVKVEFAPIVTVQST 172
+ T T + + +T ED YYCV G+G + AP V +
Sbjct: 67 KATLTVDTSSSTAYVDLSSLTSEDSAVYYCVRGFAYWGQGTLVTVSAAKTTAPSVYPLAP 126
Query: 173 RIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 127 VCGDTTGSSVTLGCLVKGYFPEPVTLTW 154
>pdb|3GNM|L Chain L, The Crystal Structure Of The Jaa-f11 Monoclonal Antibody
Fab Fragment
Length = 219
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ +D G YYC + + G+ K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEADDLGVYYCFQGSHVPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3CLE|H Chain H, Hiv Neutralizing Monoclonal Antibody Yz23
Length = 220
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 32/149 (21%), Positives = 58/149 (38%), Gaps = 35/149 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-NGQTIF---------- 123
+ + G SV++ C A G+ + + W ++ AI P NG T +
Sbjct: 11 LVRPGASVKMSCKASGYRFTSYNMHWVKQTPRQGLEWIGAIYPGNGDTSYNQKFKGKATL 70
Query: 124 ------TGSTLQIPRITKEDRGAYYC------VAQNGIGRGARRKIEVKVEFAPIVTVQS 171
+ + +Q+ +T ED Y+C + + G+G+ + AP V +
Sbjct: 71 TVDKSSSTAYMQLSSLTSEDSAVYFCARGRLSLGFDYWGQGSTLTVSSAKTTAPSVYPLA 130
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 131 PVCGDTTGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|1G7M|A Chain A, Crystal Structure Of Hen Egg White Lysozyme (Hel)
Complexed With The Mutant Anti-Hel Monoclonal Antibody
D1.3 (Vlw92v)
Length = 107
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 47/106 (44%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-----------ILPNGQ-TI 122
++L SP A G++V + C A G+ ++W ++ L +G +
Sbjct: 2 IVLTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS +L+I + ED G+YYC R G K+E+K
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGSYYCQHFVSTPRTFGGGTKLEIK 107
>pdb|1YED|L Chain L, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.4)
pdb|1YED|A Chain A, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.4)
Length = 219
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 40/92 (43%), Gaps = 13/92 (14%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQN----GIGRGARRKIEVKVEFAPIVTVQST 172
FTGS TL+I R+ D G YYCV G G + +I ++ + AP V++
Sbjct: 67 FTGSGSGTDFTLKISRVEAADLGVYYCVQGTHFPYTFGGGTKLEI-LRADAAPTVSIFPP 125
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 126 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1NCW|L Chain L, Cationic Cyclization Antibody 4c6 In Complex With Benzoic
Acid
pdb|1ND0|A Chain A, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1ND0|C Chain C, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1ND0|E Chain E, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1ND0|G Chain G, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1RUK|L Chain L, Crystal Structure (C) Of Native Cationic Cyclization
Antibody 4c6 Fab At Ph 4.6 With A Data Set Collected At
Ssrl Beamline 9-1
pdb|1RUP|L Chain L, Crystal Structure (g) Of Native Cationic Cyclization
Antibody 4c6 Fab At Ph 8.5 With A Data Set Collected At
Aps Beamline 19-id
Length = 219
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 39/91 (42%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL+I R+ ED G YYC G K+E+K + AP V++
Sbjct: 67 FTGSGSGTDFTLKISRVEAEDLGVYYCWQGTHFPYTFGGGTKLEIKRADAAPTVSIFPPS 126
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 127 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1KIP|A Chain A, Fv Mutant Y(B 32)a (Vh Domain) Of Mouse Monoclonal
Antibody D1.3 Complexed With Hen Egg White Lysozyme
pdb|1KIQ|A Chain A, Fv Mutant Y(B 101)f (Vh Domain) Of Mouse Monoclonal
Antibody D1.3 Complexed With Hen Egg White Lysozyme
pdb|1A2Y|A Chain A, Hen Egg White Lysozyme, D18a Mutant, In Complex With Mouse
Monoclonal Antibody D1.3
pdb|1VFB|A Chain A, Bound Water Molecules And Conformational Stabilization
Help Mediate An Antigen-Antibody Association
Length = 107
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 47/106 (44%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-----------ILPNGQ-TI 122
++L SP A G++V + C A G+ ++W ++ L +G +
Sbjct: 2 IVLTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS +L+I + ED G+YYC R G K+E+K
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPRTFGGGTKLEIK 107
>pdb|4ETQ|L Chain L, Vaccinia Virus D8l Imv Envelope Protein In Complex With
Fab Of Murine Igg2a La5
pdb|4ETQ|B Chain B, Vaccinia Virus D8l Imv Envelope Protein In Complex With
Fab Of Murine Igg2a La5
Length = 212
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 60/151 (39%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTIFTG---- 125
++L SP + A G+SV + C A + + W ++ ++ + + +G
Sbjct: 2 IVLTQSPAIMSAFPGESVTMTCSASSS-VSYMYWYQQKPGSSPRLLIYDTSNLASGVPVR 60
Query: 126 ---------STLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
+L I R+ ED YYC + GA K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTINRLEAEDGATYYCQQWTSYPLTFGAGTKLELKRADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|2E27|H Chain H, Crystal Structure Of Fv Fragment Of Anti-Ciguatoxin
Antibody Complexed With Abc-Ring Of Ciguatoxin
Length = 126
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 36/87 (41%), Gaps = 27/87 (31%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-NGQT----IFTG---- 125
+A+ G SV+L C A G+ T + W R+ AI P NG T F G
Sbjct: 13 LARPGASVKLSCKASGYTFTTYWMQWVRQRPGQGLEWIGAIYPGNGDTRYSQKFKGKATL 72
Query: 126 --------STLQIPRITKEDRGAYYCV 144
+++Q+ + ED YYC
Sbjct: 73 TADTSSSTASMQLSSLASEDSAVYYCA 99
>pdb|1KIR|A Chain A, Fv Mutant Y(A 50)s (Vl Domain) Of Mouse Monoclonal
Antibody D1.3 Complexed With Hen Egg White Lysozyme
Length = 107
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 48/106 (45%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRE-----------NNAILPNGQ-TI 122
++L SP A G++V + C A G+ ++W ++ + L +G +
Sbjct: 2 IVLTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYSTTTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS +L+I + ED G+YYC R G K+E+K
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPRTFGGGTKLEIK 107
>pdb|4EBQ|L Chain L, Fab Structure Of Anti-Vaccinia Virus D8l Antigen Mouse
Igg2a La5
Length = 213
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 60/151 (39%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTIFTG---- 125
++L SP + A G+SV + C A + + W ++ ++ + + +G
Sbjct: 2 IVLTQSPAIMSAFPGESVTMTCSASSS-VSYMYWYQQKPGSSPRLLIYDTSNLASGVPVR 60
Query: 126 ---------STLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
+L I R+ ED YYC + GA K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTINRLEAEDGATYYCQQWTSYPLTFGAGTKLELKRADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/84 (22%), Positives = 37/84 (44%), Gaps = 8/84 (9%)
Query: 72 TPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ-----TIFTGS 126
+ P I++ L+++ EG+ +L+C P+ ++ W N +L + ++
Sbjct: 351 SAPFIMDAPRDLNIS-EGRMAELKCRTP--PMSSVKWLLPNGTVLSHASRHPRISVLNDG 407
Query: 127 TLQIPRITKEDRGAYYCVAQNGIG 150
TL + D G Y C+ N G
Sbjct: 408 TLNFSHVLLSDTGVYTCMVTNVAG 431
>pdb|3QG6|A Chain A, Structural Basis For Ligand Recognition And Discrimination
Of A Quorum Quenching Antibody
pdb|3QG6|L Chain L, Structural Basis For Ligand Recognition And Discrimination
Of A Quorum Quenching Antibody
Length = 218
Score = 33.1 bits (74), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVESEDLGIYYCSQTTHVPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|2ADF|H Chain H, Crystal Structure And Paratope Determination Of 82d6a3, An
Antithrombotic Antibody Directed Against The Von
Willebrand Factor A3-Domain
Length = 218
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 33/158 (20%), Positives = 57/158 (36%), Gaps = 37/158 (23%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHP----------------IPTISWRRENNAILPNG 119
++ + P+L K G++V++ C A G+ + + W+ N G
Sbjct: 4 LVQSGPELK--KPGETVKISCKASGYTFINYGMNWVKQAPGKGLKWMGWKNTNTGETTYG 61
Query: 120 Q-----------TIFTGSTLQIPRITKEDRGAYYCVAQNGI------GRGARRKIEVKVE 162
+ T + + LQI + ED Y+C N G+G +
Sbjct: 62 EEFRGRFAFSLETSVSTAYLQINNLKNEDTATYFCARDNPYYALDYWGQGTTVTVSSAKT 121
Query: 163 FAPIVTVQSTRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
AP V + G + L C ++ Y P P+ L W
Sbjct: 122 TAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|1RU9|L Chain L, Crystal Structure (A) Of U.V.-Irradiated Cationic
Cyclization Antibody 4c6 Fab At Ph 4.6 With A Data Set
Collected In-House.
pdb|1RUA|L Chain L, Crystal Structure (b) Of U.v.-irradiated Cationic
Cyclization Antibody 4c6 Fab At Ph 4.6 With A Data Set
Collected At Ssrl Beamline 11-1.
pdb|1RUL|L Chain L, Crystal Structure (d) Of U.v.-irradiated Cationic
Cyclization Antibody 4c6 Fab At Ph 5.6 With A Data Set
Collected At Ssrl Beamline 11-1.
pdb|1RUM|L Chain L, Crystal Structure (F) Of H2o2-Soaked Cationic Cyclization
Antibody 4c6 Fab At Ph 8.5 With A Data Set Collected At
Ssrl Beamline 9-1
Length = 219
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 39/91 (42%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL+I R+ ED G YYC G K+E+K + AP V++
Sbjct: 67 FTGSGSGTDFTLKISRVEAEDLGVYYCWQGTHFPYTFGGGTKLEIKRADAAPTVSIFPPS 126
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 127 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3H3B|C Chain C, Crystal Structure Of The Single-Chain Fv (Scfv) Fragment
Of An Anti- Erbb2 Antibody Cha21 In Complex With
Residues 1-192 Of Erbb2 Extracellular Domain
pdb|3H3B|D Chain D, Crystal Structure Of The Single-Chain Fv (Scfv) Fragment
Of An Anti- Erbb2 Antibody Cha21 In Complex With
Residues 1-192 Of Erbb2 Extracellular Domain
Length = 259
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 27/87 (31%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISWRRENNAILP-------------------NGQTIF 123
V K G SV++ C A G+ I+W ++N+ P + F
Sbjct: 150 VVKTGASVKISCKASGYSFTGYFINWVKKNSGKSPEWIGHISSSYATSTYNQKFKNKAAF 209
Query: 124 TGST------LQIPRITKEDRGAYYCV 144
T T +Q+ +T ED YYCV
Sbjct: 210 TVDTSSSTAFMQLNSLTSEDSAVYYCV 236
>pdb|1GL4|B Chain B, Nidogen-1 G2PERLECAN IG3 COMPLEX
Length = 98
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 26/62 (41%), Gaps = 2/62 (3%)
Query: 87 KEGQSVQLECHAEGH-PIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVA 145
+ G V C A+ P T+ W R +N LP+ F G L I + D G Y C
Sbjct: 23 RPGADVTFICTAKSKSPAYTLVWTRLHNGKLPSRAMDFNG-ILTIRNVQPSDAGTYVCTG 81
Query: 146 QN 147
N
Sbjct: 82 SN 83
>pdb|1VFA|A Chain A, Bound Water Molecules And Conformational Stabilization
Help Mediate An Antigen-Antibody Association
pdb|1DVF|A Chain A, Idiotopic Antibody D1.3 Fv Fragment-Antiidiotopic Antibody
E5.2 Fv Fragment Complex
Length = 108
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 47/106 (44%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-----------ILPNGQ-TI 122
++L SP A G++V + C A G+ ++W ++ L +G +
Sbjct: 2 IVLTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS +L+I + ED G+YYC R G K+E+K
Sbjct: 62 FSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPRTFGGGTKLEIK 107
>pdb|2DL9|A Chain A, Solution Structure Of The Ig-Like Domain Of Human Leucine-
Rich Repeat-Containing Protein 4
Length = 103
Score = 33.1 bits (74), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 19/82 (23%), Positives = 36/82 (43%), Gaps = 8/82 (9%)
Query: 74 PVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ-----TIFTGSTL 128
P I++ L+++ EG+ +L+C P+ ++ W N +L + ++ TL
Sbjct: 8 PFIMDAPRDLNIS-EGRMAELKCRTP--PMSSVKWLLPNGTVLSHASRHPRISVLNDGTL 64
Query: 129 QIPRITKEDRGAYYCVAQNGIG 150
+ D G Y C+ N G
Sbjct: 65 NFSHVLLSDTGVYTCMVTNVAG 86
>pdb|1K6Q|L Chain L, Crystal Structure Of Antibody Fab Fragment D3
Length = 210
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 36/151 (23%), Positives = 61/151 (40%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----------NAILPNGQ-TI 122
+ + SP A G+SV + C A +SW ++ L +G +
Sbjct: 2 IKMTQSPSSMSASLGESVTITCKASRDIKSYLSWYQQKPWKSPKTLIYYATSLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L I + +D YYC+ ++ G+ K+E+K + AP V++
Sbjct: 62 FSGSGSGQDYSLTISSLESDDTATYYCLQHGESPFTFGSGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3QG7|L Chain L, Structural Basis For Ligand Recognition And Discrimination
Of A Quorum Quenching Antibody
Length = 216
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVESEDLGIYYCSQTTHVPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3VI3|H Chain H, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI3|F Chain F, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI4|H Chain H, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
pdb|3VI4|F Chain F, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
Length = 218
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 33/145 (22%), Positives = 53/145 (36%), Gaps = 34/145 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-----------NGQTIF 123
+ K G SV++ C A G+ + I W ++ ILP G+ F
Sbjct: 11 LMKPGASVKISCKATGYTFTSYWIEWVKQRPGHGLEWLGEILPGSGYIHYNEKFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYC------VAQNGIGRGARRKIEVKVEFAPIVTVQS 171
T T +Q+ +T ED YYC A + G+G + P V +
Sbjct: 71 TTDTSSNTAYMQLSSLTSEDSAVYYCSRALALYAMDYWGQGTSVTVSSAKTTPPSVYPLA 130
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 PGSAAQTNSMVTLGCLVKGYFPEPV 155
>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 = 0.14, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 58/151 (38%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+++ SP A G+ V L C A +SW +E ++ T+
Sbjct: 2 ILMTQSPSSLSASLGERVSLTCRASQEISGYLSWLQEKPDGTIKRLIYAASTLDSGVPKR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L I + ED YYC+ G K+E+K + AP V++
Sbjct: 62 FSGSRSGSDYSLTISSLESEDFADYYCLQYVSYPWTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1JGU|H Chain H, Structural Basis For Disfavored Elimination Reaction In
Catalytic Antibody 1d4
Length = 217
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 55/149 (36%), Gaps = 35/149 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISW-------RRENNAILPNGQTI---------FTGS 126
+ K G S+QL C A G +SW R E A + NG I FT S
Sbjct: 11 LVKPGGSLQLSCAASGFTFSGYAMSWFRLTPEKRLEWVASIYNGFRIHYLDSVKGRFTIS 70
Query: 127 T--------LQIPRITKEDRGAYYCVAQNGIGR-----GARRKIEVKVE--FAPIVTVQS 171
+ LQ+ + ED YYC + R GA + V AP V +
Sbjct: 71 SDYARNILYLQMSTLRSEDTAMYYCSRGDAYSRYFDVWGAGTTVTVSAAKTTAPSVYPLA 130
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 131 PVCGDTTGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|1CL7|L Chain L, Anti Hiv1 Protease Fab
Length = 216
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 37/84 (44%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGIYYCFQGSHFPPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3G5X|B Chain B, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
pdb|3G5X|D Chain D, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 216
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 33/139 (23%), Positives = 51/139 (36%), Gaps = 31/139 (22%)
Query: 84 SVAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST----------- 127
S+ K QS+ L C G+ I + +W R+ N + G ++G+T
Sbjct: 10 SLVKPSQSLSLTCTVTGYSITSDFAWNWIRQFPGNKLEWMGYISYSGNTRYNPSLKSRIS 69
Query: 128 -----------LQIPRITKEDRGAYYCV-AQNGI---GRGARRKIEVKVEFAPIVTVQST 172
LQ+ +T ED YYCV A G G+G + P V +
Sbjct: 70 ITRDTSKNQFFLQLNSVTIEDTATYYCVTAGRGFPYWGQGTLVTVSAAKTTPPSVYPLAP 129
Query: 173 RIGQALHHDMDLDCHIEAY 191
G + L C ++ Y
Sbjct: 130 GCGDTTGSSVTLGCLVKGY 148
>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 = 32.7 bits (73), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 35/117 (29%), Positives = 48/117 (41%), Gaps = 36/117 (30%)
Query: 6 ESQVDTPP---------VILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGR 56
E +V+ PP V+L N+ Q A EG+ EC P + R R
Sbjct: 64 EGRVEQPPPPRNPLDGSVLLRNAVQ---ADEGE---YECRVSTFPAGSFQARL------R 111
Query: 57 LHLAIPYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQL--ECHAEGHPIPTISWRRE 111
L + +P P LN P L +EGQ + L C AEG P P+++W E
Sbjct: 112 LRVLVP----------PLPSLNPGPAL---EEGQGLTLAASCTAEGSPAPSVTWDTE 155
Score = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 12/29 (41%), Positives = 17/29 (58%), Gaps = 2/29 (6%)
Query: 26 KEGQSVQL--ECHAEGHPIPTISWRRNFK 52
+EGQ + L C AEG P P+++W K
Sbjct: 129 EEGQGLTLAASCTAEGSPAPSVTWDTEVK 157
>pdb|2ZJS|H Chain H, Crystal Structure Of Secye Translocon From Thermus
Thermophilus With A Fab Fragment
Length = 221
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 35/87 (40%), Gaps = 27/87 (31%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SV++ C A G+ + I+W ++ ILP G+ F
Sbjct: 11 LMKPGASVKISCKATGYTFSSYWIAWVKQRPGHGLEWIGEILPGSGSTNYNEKFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCV 144
T T +Q+ +T ED YYC
Sbjct: 71 TADTSSNTAYMQLSSLTSEDSAVYYCA 97
>pdb|1YEE|L Chain L, Structure Of A Catalytic Antibody, Igg2a Fab Fragment
(D2.5)
Length = 219
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 40/92 (43%), Gaps = 13/92 (14%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQN----GIGRGARRKIEVKVEFAPIVTVQST 172
FTGS TL+I R+ D G YYCV G G + +I ++ + AP V++
Sbjct: 67 FTGSGSGTDFTLKISRVEAADLGLYYCVQGTHFPYTFGGGTKLEI-LRADAAPTVSIFPP 125
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 126 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|4F9L|D Chain D, Crystal Structure Of The Human Btn3a1 Ectodomain In
Complex With The 20.1 Single Chain Antibody
pdb|4F9L|C Chain C, Crystal Structure Of The Human Btn3a1 Ectodomain In
Complex With The 20.1 Single Chain Antibody
Length = 259
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 34/87 (39%), Gaps = 18/87 (20%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP----------------- 117
++L SP A G ++ + CHA + +SW ++ +P
Sbjct: 2 IVLTQSPSSLSASLGDTITITCHASQNINLWLSWYQQRPGNIPKLLIYRASNLHTGVPSR 61
Query: 118 -NGQTIFTGSTLQIPRITKEDRGAYYC 143
+G TG TL I + ED YYC
Sbjct: 62 FSGSGSATGFTLTISSLQPEDIATYYC 88
>pdb|1PLG|L Chain L, Evidence For The Extended Helical Nature Of Polysaccharide
Epitopes. The 2.8 Angstroms Resolution Structure And
Thermodynamics Of Ligand Binding Of An Antigen Binding
Fragment Specific For Alpha-(2->8)- Polysialic Acid
Length = 215
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 38/85 (44%), Gaps = 7/85 (8%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI----GRGARRKIEVKVEFAPIVTVQSTRIGQALH 179
T TL+I R+ ED G Y+C + G G R +I+ + + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYFCFQGTHVPYTFGGGTRLEIK-RADAAPTVSIFPPSSEQLTS 132
Query: 180 HDMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 133 GGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3S58|A Chain A, Rage Recognizes Nucleic Acids And Promotes Inflammatory
Responses To Dna
pdb|3S58|B Chain B, Rage Recognizes Nucleic Acids And Promotes Inflammatory
Responses To Dna
pdb|3S59|A Chain A, Rage Recognizes Nucleic Acids And Promotes Inflammatory
Responses To Dna
pdb|3S59|B Chain B, Rage Recognizes Nucleic Acids And Promotes Inflammatory
Responses To Dna
Length = 223
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 23/98 (23%), Positives = 43/98 (43%), Gaps = 10/98 (10%)
Query: 115 ILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKV---EFAPIVTVQS 171
+LPNG +L +P + +D G + C A N G+ + V+V P + +
Sbjct: 60 VLPNG-------SLFLPAVGIQDEGIFRCQAMNRNGKETKSNYRVRVYQIPGKPEIVDSA 112
Query: 172 TRIGQALHHDMDLDCHIEAYPHPILYWAKDGEIVVNDE 209
+ + + + + +YP L W DG+ +V +E
Sbjct: 113 SELTAGVPNKVGTCVSEGSYPAGTLSWHLDGKPLVPNE 150
>pdb|3BGF|H Chain H, X-Ray Crystal Structure Of The Sars Coronavirus Spike
Receptor Binding Domain In Complex With F26g19 Fab
pdb|3BGF|B Chain B, X-Ray Crystal Structure Of The Sars Coronavirus Spike
Receptor Binding Domain In Complex With F26g19 Fab
Length = 220
Score = 32.7 bits (73), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 34/153 (22%), Positives = 58/153 (37%), Gaps = 40/153 (26%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-NGQTIF---------- 123
+A+ G SV++ C A G+ T + W ++ AI P N T +
Sbjct: 11 LARPGASVKMSCKASGYTFTTYRMHWIKQRPGQGLEWIGAIYPGNSDTTYNQKFKDKAKL 70
Query: 124 ------TGSTLQIPRITKEDRGAYYCVAQNGI----------GRGARRKIEVKVEFAPIV 167
+ + +++ +T ED Y+C + GI G+G + AP V
Sbjct: 71 TAVTSTSSAYMELSSLTNEDSAVYFCT-REGIPQLLRTLDYWGQGTSVTVSSAKTTAPSV 129
Query: 168 TVQSTRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 130 YPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 162
>pdb|1QKZ|L Chain L, Fab Fragment (Mn14c11.6) In Complex With A Peptide Antigen
Derived From Neisseria Meningitidis P1.7 Serosubtype
Antigen And Domain Ii From Streptococcal Protein G
Length = 217
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 37/84 (44%), Gaps = 4/84 (4%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI-GRGARRKIEVK-VEFAPIVTVQSTRIGQALHHD 181
T TL+I R+ ED G Y+C G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGVYFCSQSTHFPTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGG 133
Query: 182 MDLDCHI-EAYPHPI-LYWAKDGE 203
+ C + YP I + W DG+
Sbjct: 134 ASVVCFLNNFYPKDINVKWKIDGK 157
>pdb|1JGV|H Chain H, Structural Basis For Disfavored Elimination Reaction In
Catalytic Antibody 1d4
Length = 218
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 55/149 (36%), Gaps = 35/149 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISW-------RRENNAILPNGQTI---------FTGS 126
+ K G S+QL C A G +SW R E A + NG I FT S
Sbjct: 11 LVKPGGSLQLSCAASGFTFSGYAMSWFRLTPEKRLEWVASIYNGFRIHYLDSVKGRFTIS 70
Query: 127 T--------LQIPRITKEDRGAYYCVAQNGIGR-----GARRKIEVKVE--FAPIVTVQS 171
+ LQ+ + ED YYC + R GA + V AP V +
Sbjct: 71 SDYARNILYLQMSTLRSEDTAMYYCSRGDAYSRYFDVWGAGTTVTVSAAKTTAPSVYPLA 130
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 131 PVCGDTTGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|3A67|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Ln31d Complexed
With White Lysozyme
Length = 107
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 41/106 (38%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV L C A + W ++ + P Q+I
Sbjct: 2 IVLTQSPATLSVTPGNSVSLSCRASQSIGDNLHWYQQKSHESPRLLIKYASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
F+GS TL I + ED G Y+C N G K+E+K
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIK 107
>pdb|1CR9|L Chain L, Crystal Structure Of The Anti-Prion Fab 3f4
pdb|1CU4|L Chain L, Crystal Structure Of The Anti-Prion Fab 3f4 In Complex
With Its Peptide Epitope
Length = 219
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 41/92 (44%), Gaps = 13/92 (14%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQ----NGIGRGARRKIEVKVEFAPIVTVQST 172
FTGS TL+I R+ ED G YYC + +G G + +I + + AP V++
Sbjct: 67 FTGSGSGTDFTLKISRVEAEDVGVYYCWQGTHFPHTVGGGTKLEI-ARADAAPTVSIFPP 125
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 126 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1FOR|L Chain L, Structure Determination Of An Fab Fragment That
Neutralizes Human Rhinovirus And Analysis Of The
Fab-Virus Complex
Length = 210
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 60/151 (39%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTIFTG---- 125
++L SP + A G+ V + C A + + W ++ P + + +G
Sbjct: 2 IVLTQSPAIMSAFPGEKVTITCSATSS-VNYMHWFQQKPGTSPKLWIYSSSNLASGVPAR 60
Query: 126 ---------STLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
+L I R+ ED YYC ++ I G+ K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTISRMEAEDAATYYCQQRSSYPITFGSGTKLEIKRADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|3CJJ|A Chain A, Crystal Structure Of Human Rage Ligand-Binding Domain
Length = 219
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 23/98 (23%), Positives = 43/98 (43%), Gaps = 10/98 (10%)
Query: 115 ILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKV---EFAPIVTVQS 171
+LPNG +L +P + +D G + C A N G+ + V+V P + +
Sbjct: 57 VLPNG-------SLFLPAVGIQDEGIFRCQAMNRNGKETKSNYRVRVYQIPGKPEIVDSA 109
Query: 172 TRIGQALHHDMDLDCHIEAYPHPILYWAKDGEIVVNDE 209
+ + + + + +YP L W DG+ +V +E
Sbjct: 110 SELTAGVPNKVGTCVSEGSYPAGTLSWHLDGKPLVPNE 147
>pdb|2DM2|A Chain A, Solution Structure Of The First Ig Domain Of Human
Palladin
Length = 110
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 29/70 (41%), Gaps = 6/70 (8%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNG-----QTIFTGS-TLQIPRITKEDRGAY 141
EG V C G+P P I W ++ I P Q G+ +L T +D G Y
Sbjct: 22 EGMPVTFTCRVAGNPKPKIYWFKDGKQISPKSDHYTIQRDLDGTCSLHTTASTLDDDGNY 81
Query: 142 YCVAQNGIGR 151
+A N GR
Sbjct: 82 TIMAANPQGR 91
>pdb|1LO4|L Chain L, Retro-Diels-Alderase Catalytic Antibody 9d9
Length = 217
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + + G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISRVEAEDLGLYYCFQGSHSPWTFGGGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|2Q8B|H Chain H, Structure Of The Malaria Antigen Ama1 In Complex With A
Growth- Inhibitory Antibody
Length = 210
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 16/64 (25%), Positives = 25/64 (39%)
Query: 128 LQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLDCH 187
LQ+ +T ED YYC + G+G + P V + G + L C
Sbjct: 81 LQLSSLTSEDTAVYYCTLSHFWGQGTTLTVSSAKTTPPSVYPLAPGCGDTTGSSVTLGCL 140
Query: 188 IEAY 191
++ Y
Sbjct: 141 VKGY 144
>pdb|2A77|L Chain L, Anti-cocaine Antibody 7.5.21, Crystal Form Ii
Length = 216
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 37/84 (44%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + I G K+E K + AP V++ Q
Sbjct: 74 TDFTLRISRVEAEDLGVYYCFQGSHIPWTFGGGTKLESKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|2DQI|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant (Ly50a) Complexed
With Hen Egg Lysozyme
Length = 107
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 41/106 (38%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENN------AILPNGQTI------ 122
++L SP G SV L C A + W ++ + I Q+I
Sbjct: 2 IVLTQSPATLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKAASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
F+GS TL I + ED G Y+C N G K+E+K
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIK 107
>pdb|1P2C|A Chain A, Crystal Structure Analysis Of An Anti-Lysozyme Antibody
pdb|1P2C|D Chain D, Crystal Structure Analysis Of An Anti-Lysozyme Antibody
pdb|2Q76|A Chain A, Mouse Anti-Hen Egg White Lysozyme Antibody F10.6.6 Fab
Fragment
pdb|2Q76|C Chain C, Mouse Anti-Hen Egg White Lysozyme Antibody F10.6.6 Fab
Fragment
Length = 212
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 38/149 (25%), Positives = 56/149 (37%), Gaps = 23/149 (15%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP------NGQTI------FT 124
L SP G SV L C A + W ++ + P Q++ F+
Sbjct: 4 LTQSPATLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYTSQSMSGIPSRFS 63
Query: 125 GS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTRIG 175
GS TL I + ED G Y+C R G K+++K + AP V++
Sbjct: 64 GSGSGTDFTLSINSVETEDFGVYFCQQSGSWPRTFGGGTKLDIKRADAAPTVSIFPPSSE 123
Query: 176 QALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 124 QLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|4F9P|D Chain D, Crystal Structure Of The Human Btn3a1 Ectodomain In
Complex With The 103.2 Single Chain Antibody
pdb|4F9P|C Chain C, Crystal Structure Of The Human Btn3a1 Ectodomain In
Complex With The 103.2 Single Chain Antibody
Length = 254
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 30/106 (28%), Positives = 41/106 (38%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV L C A + W R+ + P Q+I
Sbjct: 138 IVLTQSPVTLSVTPGDSVSLSCRASQSISNNLHWYRQKSHESPRLLIKYASQSIFGIPSR 197
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
F+GS TL I + ED G Y+C N G K+E+K
Sbjct: 198 FSGSGSGTEFTLSINSVETEDFGIYFCQQSNSWPHTFGTGTKLELK 243
>pdb|2AI0|L Chain L, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|M Chain M, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|N Chain N, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|O Chain O, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
Length = 217
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 37/84 (44%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + I G K+E K + AP V++ Q
Sbjct: 74 TDFTLRISRVEAEDLGVYYCFQGSHIPWTFGGGTKLESKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3O11|H Chain H, Anti-Beta-Amyloid Antibody C706 Fab In Space Group C2
pdb|3O11|B Chain B, Anti-Beta-Amyloid Antibody C706 Fab In Space Group C2
pdb|3MCL|H Chain H, Anti-Beta-Amyloid Antibody C706 Fab In Space Group P21
Length = 228
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 36/151 (23%), Positives = 55/151 (36%), Gaps = 45/151 (29%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SV++ C A G+ T I W ++ +LP G+ F
Sbjct: 11 LMKPGASVKISCKATGYTFSTSWIEWIKQRPGHGLEWIGEVLPGSGKSNHNANFKGRATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNG-------IGRGARRKIEVKVEFAPIV--- 167
T T +Q+ +T ED YYC + G+G + P V
Sbjct: 71 TADTASNTAYMQLSSLTSEDSAVYYCAREGSNNNALAYWGQGTLVTVSAASTKGPSVFPL 130
Query: 168 --TVQSTRIGQALHHDMDLDCHIEAY-PHPI 195
+ +ST G A L C ++ Y P P+
Sbjct: 131 APSSKSTSGGTAA-----LGCLVKDYFPEPV 156
>pdb|2LQR|A Chain A, Nmr Structure Of Ig3 Domain Of Palladin
Length = 108
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 29/70 (41%), Gaps = 6/70 (8%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNG-----QTIFTGS-TLQIPRITKEDRGAY 141
EG V C G+P P I W ++ I P Q G+ +L T +D G Y
Sbjct: 21 EGMPVTFTCRVAGNPKPKIYWFKDGKQISPKSDHYTIQRDLDGTCSLHTTASTLDDDGNY 80
Query: 142 YCVAQNGIGR 151
+A N GR
Sbjct: 81 TIMAANPQGR 90
>pdb|2A1W|L Chain L, Anti-Cocaine Antibody 7.5.21, Crystal Form I
pdb|2A1W|M Chain M, Anti-Cocaine Antibody 7.5.21, Crystal Form I
Length = 216
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 37/84 (44%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ ED G YYC + I G K+E K + AP V++ Q
Sbjct: 74 TDFTLRISRVEAEDLGVYYCFQGSHIPWTFGGGTKLESKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3OF6|A Chain A, Human Pre-T Cell Receptor Crystal Structure
pdb|3OF6|B Chain B, Human Pre-T Cell Receptor Crystal Structure
pdb|3OF6|C Chain C, Human Pre-T Cell Receptor Crystal Structure
Length = 255
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 47/125 (37%), Gaps = 34/125 (27%)
Query: 77 LNNSPQLSVAKEGQSVQLECH-AEGHPIPTISWRRENNAILPNGQTIFTG---------- 125
++ SP+ VAK GQ V L C GH ++ W ++ P T F
Sbjct: 7 VSQSPRYKVAKRGQDVALRCDPISGH--VSLFWYQQALGQGPEFLTYFQNEAQLDKSGLP 64
Query: 126 -------------STLQIPRITKEDRGAYYCVAQNG------IGRGARRKI--EVKVEFA 164
STL+I R +ED Y C + G G G R + ++K F
Sbjct: 65 SDRFFAERPEGSVSTLKIQRTQQEDSAVYLCASSLGQAYEQYFGPGTRLTVTEDLKNVFP 124
Query: 165 PIVTV 169
P V V
Sbjct: 125 PEVAV 129
>pdb|1IGI|H Chain H, 26-10 Fab:digoxin Complex-Affinity And Specificity Due To
Surface Complementarity
pdb|1IGJ|B Chain B, 26-10 Fab:digoxin Complex-Affinity And Specificity Due To
Surface Complementarity
pdb|1IGJ|D Chain D, 26-10 Fab:digoxin Complex-Affinity And Specificity Due To
Surface Complementarity
Length = 218
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 33/150 (22%), Positives = 56/150 (37%), Gaps = 36/150 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRENNA--------ILP-----------NGQTIF 123
+ K G SV++ C + G+ ++W R+++ I P G+
Sbjct: 11 LVKPGASVRMSCKSSGYIFTDFYMNWVRQSHGKSLDYIGYISPYSGVTGYNQKFKGKATL 70
Query: 124 T------GSTLQIPRITKEDRGAYYCVAQNG-------IGRGARRKIEVKVEFAPIVTVQ 170
T + +++ +T ED YYC +G G GA + AP V
Sbjct: 71 TVDKSSSTAYMELRSLTSEDSAVYYCAGSSGNKWAMDYWGHGASVTVSSAKTTAPSVYPL 130
Query: 171 STRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 131 APVCGDTTGSSVTLGCLVKGYFPEPVTLTW 160
>pdb|3LEY|L Chain L, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 6a7 In Complex With Hiv-1 Gp41
Length = 219
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 29/91 (31%), Positives = 39/91 (42%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL+I R+ ED G YYC G K+E+K + AP V++
Sbjct: 67 FTGSGSGTDFTLKINRVEAEDLGIYYCWQGTHFPWTFGGGTKLEIKRADAAPTVSIFPPS 126
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 127 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1KGC|E Chain E, Immune Receptor
Length = 242
Score = 32.3 bits (72), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 47/125 (37%), Gaps = 34/125 (27%)
Query: 77 LNNSPQLSVAKEGQSVQLECH-AEGHPIPTISWRRENNAILPNGQTIFTG---------- 125
++ SP+ VAK GQ V L C GH ++ W ++ P T F
Sbjct: 3 VSQSPRYKVAKRGQDVALRCDPISGH--VSLFWYQQALGQGPEFLTYFQNEAQLDKSGLP 60
Query: 126 -------------STLQIPRITKEDRGAYYCVAQNG------IGRGARRKI--EVKVEFA 164
STL+I R +ED Y C + G G G R + ++K F
Sbjct: 61 SDRFFAERPEGSVSTLKIQRTQQEDSAVYLCASSLGQAYEQYFGPGTRLTVTEDLKNVFP 120
Query: 165 PIVTV 169
P V V
Sbjct: 121 PEVAV 125
>pdb|1MI5|E Chain E, The Crystal Structure Of Lc13 Tcr In Complex With
Hlab8-Ebv Peptide Complex
pdb|3KPR|E Chain E, Crystal Structure Of The Lc13 Tcr In Complex With Hla
B4405 Bound To Eeylkawtf A Mimotope
pdb|3KPR|J Chain J, Crystal Structure Of The Lc13 Tcr In Complex With Hla
B4405 Bound To Eeylkawtf A Mimotope
pdb|3KPS|E Chain E, Crystal Structure Of The Lc13 Tcr In Complex With Hla
B4405 Bound To Eeylqafty A Self Peptide From The Abcd3
Protein
Length = 241
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 47/125 (37%), Gaps = 34/125 (27%)
Query: 77 LNNSPQLSVAKEGQSVQLECH-AEGHPIPTISWRRENNAILPNGQTIFTG---------- 125
++ SP+ VAK GQ V L C GH ++ W ++ P T F
Sbjct: 2 VSQSPRYKVAKRGQDVALRCDPISGH--VSLFWYQQALGQGPEFLTYFQNEAQLDKSGLP 59
Query: 126 -------------STLQIPRITKEDRGAYYCVAQNG------IGRGARRKI--EVKVEFA 164
STL+I R +ED Y C + G G G R + ++K F
Sbjct: 60 SDRFFAERPEGSVSTLKIQRTQQEDSAVYLCASSLGQAYEQYFGPGTRLTVTEDLKNVFP 119
Query: 165 PIVTV 169
P V V
Sbjct: 120 PEVAV 124
>pdb|3CXD|H Chain H, Crystal Structure Of Anti-Osteopontin Antibody 23c3 In
Complex With Its Epitope Peptide
pdb|3DSF|H Chain H, Crystal Structure Of Anti-Osteopontin Antibody 23c3 In
Complex With W43a Mutated Epitope Peptide
Length = 216
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 31/71 (43%), Gaps = 3/71 (4%)
Query: 128 LQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLD 185
LQ+ + ED YYCV Q G G+G + V+ P V + G + + L
Sbjct: 83 LQMNNLKTEDTAMYYCVRQMGDYWGQGTTLTVSSAVKTPPSVYPLAPGGGAISNSMVTLG 142
Query: 186 CHIEAY-PHPI 195
C + Y P P+
Sbjct: 143 CLVNGYFPEPV 153
>pdb|3IFO|L Chain L, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:10d5) Complex
pdb|3IFO|B Chain B, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:10d5) Complex
Length = 219
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 39/85 (45%), Gaps = 7/85 (8%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI----GRGARRKIEVKVEFAPIVTVQSTRIGQALH 179
T TL+I ++ ED G YYC + + G G + ++E + + AP V++ Q
Sbjct: 74 TDFTLKIKKVEAEDLGIYYCFQGSHVPLTFGAGTKLELE-RADAAPTVSIFPPSSEQLTS 132
Query: 180 HDMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 133 GGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1L7T|H Chain H, Crystal Structure Analysis Of The Anti-Testosterone Fab
Fragment
pdb|1VPO|H Chain H, Crystal Structure Analysis Of The Anti-testosterone Fab In
Complex With Testosterone
Length = 221
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 33/85 (38%), Gaps = 26/85 (30%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISWRRENN--------AILPNGQTIFTGST------- 127
+ K G S++L C A G +SW R+ +I+ G T ++GS
Sbjct: 11 LVKPGGSLKLSCAASGFTFSRYALSWVRQTADKRLEWVASIVSGGNTYYSGSVKGRFTIS 70
Query: 128 ---------LQIPRITKEDRGAYYC 143
LQ+ + ED YYC
Sbjct: 71 RDIARNILYLQMSSLRSEDTAMYYC 95
>pdb|1CT8|A Chain A, Catalytic Antibody 7c8 Complex
pdb|1CT8|C Chain C, Catalytic Antibody 7c8 Complex
Length = 214
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 55/151 (36%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS-------- 126
+++ +P G SV L C A + W ++ + P F
Sbjct: 2 LVMTQTPATLSVTPGDSVSLSCRASQSVSNKLHWYQQKSHESPRLLIKFASQSIPGIPSR 61
Query: 127 ----------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
TL I + ED G Y+C +G + GA K+E+K + AP V++
Sbjct: 62 FSGSGSGSDFTLSINSVETEDFGIYFCHQTHGRPLTFGAGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1VCA|A Chain A, Crystal Structure Of An Integrin-Binding Fragment Of
Vascular Cell Adhesion Molecule-1 At 1.8 Angstroms
Resolution
pdb|1VCA|B Chain B, Crystal Structure Of An Integrin-Binding Fragment Of
Vascular Cell Adhesion Molecule-1 At 1.8 Angstroms
Resolution
Length = 202
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 4/83 (4%)
Query: 85 VAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTG--STLQIPRITKEDRGAYY 142
+A+ G SV L C G P SWR + ++ L NG+ G STL + ++ + +Y
Sbjct: 12 LAQIGDSVSLTCSTTGCESPFFSWRTQIDSPL-NGKVTNEGTTSTLTMNPVSFGNEHSYL 70
Query: 143 CVAQNGIGRGARRKIEVKVEFAP 165
C A R + I+V++ P
Sbjct: 71 CTATCE-SRKLEKGIQVEIYSFP 92
>pdb|1F97|A Chain A, Soluble Part Of The Junction Adhesion Molecule From Mouse
Length = 212
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 33/81 (40%), Gaps = 13/81 (16%)
Query: 89 GQSVQLECHA-EGHPIPTISWRRENNAIL---PNGQTIFTGSTLQI-PR--------ITK 135
G L C +G P SW ++ ++L F S+ I P+ +T
Sbjct: 119 GNRAVLTCSEHDGSPPSEYSWFKDGISMLTADAKKTRAFMNSSFTIDPKSGDLIFDPVTA 178
Query: 136 EDRGAYYCVAQNGIGRGARRK 156
D G YYC AQNG G R +
Sbjct: 179 FDSGEYYCQAQNGYGTAMRSE 199
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 20/92 (21%), Positives = 36/92 (39%), Gaps = 15/92 (16%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNA----ILPNGQ--------TIFTGSTLQIPRITK 135
E +S++L C G P + W+ + + N Q F+ S + +T+
Sbjct: 15 ENESIKLTCTYSGFSSPRVEWKFVQGSTTALVCYNSQITAPYADRVTFSSSGITFSSVTR 74
Query: 136 EDRGAYYCVAQNGIGRGARRKIEVKVEFAPIV 167
+D G Y C+ G + EV + +V
Sbjct: 75 KDNGEYTCMVSE---EGGQNYGEVSIHLTVLV 103
>pdb|1J1X|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Ls93a Complexed
With Hen Egg White Lysozyme
Length = 107
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 41/106 (38%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV L C A + W ++ + P Q+I
Sbjct: 2 IVLTQSPATLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKYASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
F+GS TL I + ED G Y+C N G K+E+K
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQSNAWPYTFGGGTKLEIK 107
>pdb|1Q0Y|H Chain H, Anti-Morphine Antibody 9b1 Complexed With Morphine
Length = 221
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 27/87 (31%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SV++ C A G+ + I W ++ ILP G+ F
Sbjct: 11 LMKPGASVKISCKATGYTFSSYWIEWVKQRPGHGLEWIGEILPGSGDTIFNEKFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCV 144
T T +Q+ +T ED YYC
Sbjct: 71 TADTSSNTAYMQLSSLTSEDSAVYYCA 97
>pdb|1Q0X|H Chain H, Anti-Morphine Antibody 9b1 Unliganded Form
Length = 221
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 27/87 (31%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SV++ C A G+ + I W ++ ILP G+ F
Sbjct: 11 LMKPGASVKISCKATGYTFSSYWIEWVKQRPGHGLEWIGEILPGSGDTIFNEKFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCV 144
T T +Q+ +T ED YYC
Sbjct: 71 TADTSSNTAYMQLSSLTSEDSAVYYCA 97
>pdb|2RCS|H Chain H, Immunoglobulin 48g7 Germline Fab-Affinity Maturation Of An
Esterolytic Antibody
pdb|1AJ7|H Chain H, Immunoglobulin 48g7 Germline Fab Antibody Complexed With
Hapten 5-(Para-Nitrophenyl Phosphonate)-Pentanoic Acid.
Affinity Maturation Of An Esterolytic Antibody
Length = 217
Score = 32.3 bits (72), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 38/146 (26%), Positives = 54/146 (36%), Gaps = 40/146 (27%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRE-----------------NNAILPN--GQTIF 123
+ K G SV+L C A G I + W ++ N P G+
Sbjct: 11 LVKPGASVKLSCTASGFNIKDTYMHWVKQRPEQGLEWIGRIDPANGNTKYDPKFQGKATI 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVKVEFAPIV-----TVQ 170
T T LQ+ +T ED YYC + GI G+G + P V + +
Sbjct: 71 TADTSSNTAYLQLSSLTSEDTAVYYCASYYGIYWGQGTTLTVSSASTKGPSVFPLAPSSK 130
Query: 171 STRIGQALHHDMDLDCHIEAY-PHPI 195
ST G A L C ++ Y P P+
Sbjct: 131 STSGGTAA-----LGCLVKDYFPEPV 151
>pdb|3V0V|L Chain L, Fab Wn1 222-5 Unliganded
pdb|3V0V|B Chain B, Fab Wn1 222-5 Unliganded
pdb|3V0W|L Chain L, Crystal Structure Of Fab Wn1 222-5 In Complex With Lps
Length = 212
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 36/151 (23%), Positives = 57/151 (37%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP----------------- 117
+ +N SP A G ++ + C A + +SW ++ +P
Sbjct: 2 IQMNQSPSSLSASLGDTISITCRASQNINIWLSWYQQKPGNVPKLLIYKASNLHTGVPSR 61
Query: 118 -NGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVKV-EFAPIVTVQSTR 173
+G T TL I + ED YYC+ R G K+E+K + AP V++
Sbjct: 62 FSGSGSGTDFTLIISSLQPEDIATYYCLQGQSYPRTFGGGTKLEIKRGDAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3Q5T|A Chain A, V BetaV BETA HOMODIMERIZATION-Based Pre-Tcr Model
Suggested By Tcr Beta Crystal Structures
Length = 241
Score = 32.3 bits (72), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 41/98 (41%), Gaps = 26/98 (26%)
Query: 77 LNNSPQLSVAKEGQSVQLECH-AEGHPIPTISWRRE-------------NNAILPNGQT- 121
+ SP+ +V +EGQSV C GH T+ W ++ + A++ N Q
Sbjct: 5 VTQSPRYAVLQEGQSVSFWCDPISGHD--TLYWYQQPRDQGPQLLVYFRDEAVIDNSQLP 62
Query: 122 ---------IFTGSTLQIPRITKEDRGAYYCVAQNGIG 150
T STL+I + D Y C + +G+G
Sbjct: 63 SDRFSAVRPKGTNSTLKIQSAKQGDTATYLCASSSGVG 100
>pdb|2GJJ|A Chain A, Crystal Structure Of A Single Chain Antibody Sca21 Against
Her2ERBB2
pdb|2GJJ|B Chain B, Crystal Structure Of A Single Chain Antibody Sca21 Against
Her2ERBB2
Length = 264
Score = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 27/87 (31%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISWRRENNAILP-------------------NGQTIF 123
V K G SV++ C A G+ I+W ++N+ P + F
Sbjct: 149 VVKTGASVKISCKASGYSFTGYFINWVKKNSGKSPEWIGHISSSYATSTYNQKFKNKAAF 208
Query: 124 TGST------LQIPRITKEDRGAYYCV 144
T T +Q+ +T ED YYCV
Sbjct: 209 TVDTSSSTAFMQLNSLTSEDSADYYCV 235
>pdb|1IJ9|A Chain A, Highly Hydrated Human Vcam-1 Fragment
Length = 196
Score = 32.3 bits (72), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 4/83 (4%)
Query: 85 VAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTG--STLQIPRITKEDRGAYY 142
+A+ G SV L C G P SWR + ++ L NG+ G STL + ++ + +Y
Sbjct: 12 LAQIGDSVSLTCSTTGCESPFFSWRTQIDSPL-NGKVTNEGTTSTLTMNPVSFGNEHSYL 70
Query: 143 CVAQNGIGRGARRKIEVKVEFAP 165
C A R + I+V++ P
Sbjct: 71 CTATCE-SRKLEKGIQVEIYSFP 92
>pdb|2JEL|L Chain L, Jel42 FabHPR COMPLEX
Length = 217
Score = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 27/49 (55%), Gaps = 3/49 (6%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTV 169
T TL+I R+ ED G YYC + + G K+E+K + AP V++
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPYTFGGGTKLEIKRADAAPTVSI 122
>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 = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 38/164 (23%), Positives = 66/164 (40%), Gaps = 23/164 (14%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA----ILPNGQT--------I 122
+++ SP+ G++V L C A + +SW ++ +L G +
Sbjct: 2 IVMTQSPKSMGMSVGEAVTLNCKASENVGTYVSWYQQKPGQSPVLLIYGASNRYTGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL I + +D YYC + + G K+E+K + AP ++
Sbjct: 62 FTGSGSATDFTLTISSVQADDDADYYCGQSYSSPLTFGGGTKLELKRADAAPTSSIFPPS 121
Query: 174 IGQALHHDMDLDCHIEA-YPHPI-LYWAKDGEIVVNDEYHSISN 215
Q + C + + YP I + W DG N +S ++
Sbjct: 122 SEQLSSGGASVVCFLNSFYPKSIAVKWKVDGSKRANGTANSWTD 165
>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 = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 54/151 (35%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+++ S + G V + C A + ++W +E P
Sbjct: 2 IVMTQSQKFMSTSVGDRVSVTCKASQNVDTNVAWYQEKPGQSPKTLIYSASNRYSGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL I + ED Y+C N G K+E+K + AP V++
Sbjct: 62 FTGSASGTDFTLTITNVQSEDLAEYFCQQYNSYPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|2KDG|A Chain A, Solution Structure Of The 1st Ig Domain Of Myotilin
Length = 100
Score = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 37/90 (41%), Gaps = 20/90 (22%)
Query: 73 PPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS------ 126
PP + +S+ EG+ +++ G P P +SW NG+T+ +
Sbjct: 5 PPRFIQVPENMSI-DEGRFCRMDFKVSGLPAPDVSW-------YLNGRTVQSDDLHKMIV 56
Query: 127 ------TLQIPRITKEDRGAYYCVAQNGIG 150
+L + D GAY CVA+N G
Sbjct: 57 SEKGLHSLIFEVVRASDAGAYACVAKNRAG 86
>pdb|3CLE|L Chain L, Hiv Neutralizing Monoclonal Antibody Yz23
pdb|3CLF|L Chain L, Hiv Neutralizing Monoclonal Antibody Yz23
Length = 214
Score = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 56/151 (37%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+++ S + G V + C A + I+W ++ P
Sbjct: 2 IVMTQSQKFMSTSVGDRVSISCKASQNVGNIIAWYQQKPGQSPKALIYLASYRYSGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL I + ED Y+C + + GA K+E+K + AP V++
Sbjct: 62 FTGSGSGTDFTLTISNVQSEDLAEYFCQQYSSFPLTFGAGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1D5I|H Chain H, Unliganded Germline Precursor Of An Oxy-Cope Catalytic
Antibody
pdb|1D6V|H Chain H, Conformation Effects In Biological Catalysis Introduced By
Oxy-Cope Antibody Maturation
Length = 221
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 27/87 (31%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SV++ C A G+ + I W ++ ILP G+ F
Sbjct: 11 LMKPGASVKISCKATGYTFSSYWIEWVKQRPGHGLEWIGEILPGSGSTNYNEKFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCV 144
T T +Q+ +T ED YYC
Sbjct: 71 TADTSSNTAYMQLSSLTSEDSAVYYCA 97
>pdb|1J1O|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Ly50f Complexed
With Hen Egg White Lysozyme
Length = 107
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 41/106 (38%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV L C A + W ++ + P Q+I
Sbjct: 2 IVLTQSPATLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKFASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
F+GS TL I + ED G Y+C N G K+E+K
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIK 107
>pdb|1C08|A Chain A, Crystal Structure Of Hyhel-10 Fv-Hen Lysozyme Complex
pdb|1IC4|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant(Hd32a)-Hen
Lysozyme Complex
pdb|1IC5|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant(Hd99a)-Hen
Lysozyme Complex
pdb|1IC7|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant(Hd32a99a)-Hen
Lysozyme Complex
pdb|1UA6|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Sfsf Complexed
With Hen Egg White Lysozyme Complex
pdb|1UAC|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Sfsf Complexed
With Turkey White Lysozyme
pdb|2DQC|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant(Hy33f) Complexed
With Hen Egg Lysozyme
pdb|2DQD|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant (Hy50f) Complexed
With Hen Egg Lysozyme
pdb|2DQE|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant (Hy53a) Complexed
With Hen Egg Lysozyme
pdb|2DQF|A Chain A, Crystal Structure Of Hyhel-10 Fv Mutant (Y33ay53a)
Complexed With Hen Egg Lysozyme
pdb|2DQF|D Chain D, Crystal Structure Of Hyhel-10 Fv Mutant (Y33ay53a)
Complexed With Hen Egg Lysozyme
pdb|2DQG|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant (Hy53f) Complexed
With Hen Egg Lysozyme
pdb|2DQH|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant (Hy58a) Complexed
With Hen Egg Lysozyme
pdb|2DQJ|L Chain L, Crystal Structure Of Hyhel-10 Fv (Wild-Type) Complexed
With Hen Egg Lysozyme At 1.8a Resolution
Length = 107
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 41/106 (38%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV L C A + W ++ + P Q+I
Sbjct: 2 IVLTQSPATLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKYASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
F+GS TL I + ED G Y+C N G K+E+K
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIK 107
>pdb|1VSC|A Chain A, Vcam-1
pdb|1VSC|B Chain B, Vcam-1
Length = 196
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 40/83 (48%), Gaps = 4/83 (4%)
Query: 85 VAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTG--STLQIPRITKEDRGAYY 142
+A+ G SV L C G P SWR + ++ L NG+ G STL + ++ + +Y
Sbjct: 12 LAQIGDSVSLTCSTTGCESPFFSWRTQIDSPL-NGKVTNEGTTSTLTMNPVSFGNEHSYL 70
Query: 143 CVAQNGIGRGARRKIEVKVEFAP 165
C A R + I+V++ P
Sbjct: 71 CTATCE-SRKLEKGIQVEIYSFP 92
>pdb|1RU9|H Chain H, Crystal Structure (A) Of U.V.-Irradiated Cationic
Cyclization Antibody 4c6 Fab At Ph 4.6 With A Data Set
Collected In-House.
pdb|1RUA|H Chain H, Crystal Structure (b) Of U.v.-irradiated Cationic
Cyclization Antibody 4c6 Fab At Ph 4.6 With A Data Set
Collected At Ssrl Beamline 11-1.
pdb|1RUL|H Chain H, Crystal Structure (d) Of U.v.-irradiated Cationic
Cyclization Antibody 4c6 Fab At Ph 5.6 With A Data Set
Collected At Ssrl Beamline 11-1
Length = 222
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 34/150 (22%), Positives = 52/150 (34%), Gaps = 36/150 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST------------ 127
+ K QS+ L C G+ I + +W R+ N + G ++G T
Sbjct: 11 LVKPSQSLSLTCTVTGYSITSDFAWNWIRQFPGNKLEWMGYINYSGFTSHNPSLKSRISI 70
Query: 128 ----------LQIPRITKEDRGAYYCV-------AQNGIGRGARRKIEVKVEFAPIVTVQ 170
LQ+ +T ED YYC G+G + AP V
Sbjct: 71 TRDTSKNQFFLQLNSVTTEDTATYYCAGLLWYDGGAGSWGQGTLVTVSAAKTTAPSVYPL 130
Query: 171 STRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 131 APVCGDTTGSSVTLGCLVKGYFPEPVTLTW 160
>pdb|1MIE|L Chain L, Crystal Structure Of The Fab Fragment Of Esterolytic
Antibody Ms5-393
pdb|1MJ7|L Chain L, Crystal Structure Of The Complex Of The Fab Fragment Of
Esterolytic Antibody Ms5-393 And A Transition-State
Analog
Length = 219
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVA--QNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+ R+ ED G YYC+ + G+ K+E+K + AP V++ Q
Sbjct: 74 TAFTLRTSRVEAEDVGVYYCMQHLEYPFTFGSGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1A7N|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) Variant For Chain L Glu81->asp And Chain H
Leu312->val
pdb|1A7R|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) Variant Chain L Glu81->asp
Length = 107
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 47/106 (44%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-----------ILPNGQ-TI 122
++L SP A G++V + C A G+ ++W ++ L +G +
Sbjct: 2 IVLTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS +L+I + +D G+YYC R G K+E+K
Sbjct: 62 FSGSGSGTQYSLKINSLQPDDFGSYYCQHFWSTPRTFGGGTKLEIK 107
>pdb|1FL6|L Chain L, The Hapten Complexed Germline Precursor To Sulfide Oxidase
Catalytic Antibody 28b4
pdb|1FL6|A Chain A, The Hapten Complexed Germline Precursor To Sulfide Oxidase
Catalytic Antibody 28b4
pdb|1FL5|L Chain L, The Unliganded Germline Precursor To The Sulfide Oxidase
Catalytic Antibody 28b4.
pdb|1FL5|A Chain A, The Unliganded Germline Precursor To The Sulfide Oxidase
Catalytic Antibody 28b4
Length = 217
Score = 32.0 bits (71), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 8/46 (17%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS TL+I R+ ED G YYC + + R G K+E+K
Sbjct: 67 FSGSGSGTDFTLKISRVEAEDLGVYYCFQGSHVPRTFGGGTKLEIK 112
>pdb|1NCW|H Chain H, Cationic Cyclization Antibody 4c6 In Complex With Benzoic
Acid
pdb|1ND0|B Chain B, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1ND0|D Chain D, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1ND0|F Chain F, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1ND0|H Chain H, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1RUK|H Chain H, Crystal Structure (C) Of Native Cationic Cyclization
Antibody 4c6 Fab At Ph 4.6 With A Data Set Collected At
Ssrl Beamline 9-1
pdb|1RUM|H Chain H, Crystal Structure (F) Of H2o2-Soaked Cationic Cyclization
Antibody 4c6 Fab At Ph 8.5 With A Data Set Collected At
Ssrl Beamline 9-1.
pdb|1RUP|H Chain H, Crystal Structure (g) Of Native Cationic Cyclization
Antibody 4c6 Fab At Ph 8.5 With A Data Set Collected At
Aps Beamline 19-id
Length = 222
Score = 32.0 bits (71), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 34/150 (22%), Positives = 52/150 (34%), Gaps = 36/150 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST------------ 127
+ K QS+ L C G+ I + +W R+ N + G ++G T
Sbjct: 11 LVKPSQSLSLTCTVTGYSITSDFAWNWIRQFPGNKLEWMGYINYSGFTSHNPSLKSRISI 70
Query: 128 ----------LQIPRITKEDRGAYYCV-------AQNGIGRGARRKIEVKVEFAPIVTVQ 170
LQ+ +T ED YYC G+G + AP V
Sbjct: 71 TRDTSKNQFFLQLNSVTTEDTATYYCAGLLWYDGGAGSWGQGTLVTVSAAKTTAPSVYPL 130
Query: 171 STRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 131 APVCGDTTGSSVTLGCLVKGYFPEPVTLTW 160
>pdb|3A6B|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Ln32d Complexed
With White Lysozyme
Length = 107
Score = 32.0 bits (71), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 41/106 (38%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV L C A + W ++ + P Q+I
Sbjct: 2 IVLTQSPATLSVTPGNSVSLSCRASQSIGNDLHWYQQKSHESPRLLIKYASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
F+GS TL I + ED G Y+C N G K+E+K
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIK 107
>pdb|3LIZ|L Chain L, Crystal Structure Of Bla G 2 Complexed With Fab 4c3
Length = 211
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 56/151 (37%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP----------------- 117
++L SP A G+ V + C A +SW ++ P
Sbjct: 2 IVLTQSPSSMYASLGERVTITCKASQDINNYLSWFQQKPGKSPKTLIYRADRLVDGVPSR 61
Query: 118 -NGQTIFTGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
+G +L I + ED G YYC+ + + G K+E+K + AP V++
Sbjct: 62 VSGSGSGQDYSLTISSLEYEDLGIYYCLQYDELPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>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 = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 39/155 (25%), Positives = 62/155 (40%), Gaps = 31/155 (20%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR----ENNAILPNGQT--------I 122
+++ SP+ G+ V L C A + + +SW + ++ +L G +
Sbjct: 2 IVMTQSPKSMSMSVGERVTLTCKASENVVTYVSWYQQKPEQSPKLLIYGASNRYTGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR------GARRKIEVK-VEFAPIVTV 169
FTGS TL I + ED Y+C G G G K+E+K + AP V++
Sbjct: 62 FTGSGSATDFTLTISSVQAEDLADYHC----GQGYSYPYTFGGGTKLELKRADAAPTVSI 117
Query: 170 QSTRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 118 FPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3FMG|H Chain H, Structure Of Rotavirus Outer Capsid Protein Vp7 Trimer In
Co A Neutralizing Fab
Length = 221
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 33/148 (22%), Positives = 53/148 (35%), Gaps = 37/148 (25%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-----------NGQTIF 123
+ K G V++ C A G+ + I W ++ ILP G+ F
Sbjct: 11 LMKPGALVKISCKATGYTFSSYWIEWVKQRPGHGLEWIGEILPGSGSINYNEKFKGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNG---------IGRGARRKIEVKVEFAPIVT 168
T T +Q+ +T ED YYC +G G+G + AP V
Sbjct: 71 TADTSSNTAYMQLNSLTSEDSAVYYCARNHGSPDFHVMDYWGQGTSITVSSAKTTAPPVY 130
Query: 169 VQSTRIGQALHHDMDLDCHIEAY-PHPI 195
+ + + L C ++ Y P P+
Sbjct: 131 PLAPGSAAQTNSMVTLGCLVKGYFPEPV 158
>pdb|4AL8|H Chain H, Structure Of Dengue Virus Diii In Complex With Fab 2h12
pdb|4ALA|H Chain H, Structure Of Dengue Virus Diii In Complex With Fab 2h12
Length = 217
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 28/143 (19%), Positives = 49/143 (34%), Gaps = 32/143 (22%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPNGQTI-------- 122
P + + G SV++ C A G+ + I+W ++ I P T+
Sbjct: 7 PGAELVQPGASVKMSCKASGYTFSSYWINWEKQRPGKGLEWIGNIYPGSGTVNYDDKFKS 66
Query: 123 ---------FTGSTLQIPRITKEDRGAYYCV-----AQNGIGRGARRKIEVKVEFAPIVT 168
+ +Q+ +T ED YYC A + G+G + P V
Sbjct: 67 KATLTIDTSSNTAYMQLSSLTSEDSAVYYCTRGGSHAMDYWGQGTSVTVSSAKTTPPSVY 126
Query: 169 VQSTRIGQALHHDMDLDCHIEAY 191
+ G + L C ++ Y
Sbjct: 127 PLAPGCGDTTGSSVTLGCLVKGY 149
>pdb|3G5Y|B Chain B, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 216
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 35/148 (23%), Positives = 55/148 (37%), Gaps = 33/148 (22%)
Query: 84 SVAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST----------- 127
++ K QS+ L C G+ I + +W R+ N + G ++ +T
Sbjct: 10 ALVKPSQSLSLTCTVTGYSITSDYAWNWIRQFPGNKLEWMGYISYSANTRYNPSLKSRIS 69
Query: 128 -----------LQIPRITKEDRGAYYCV-AQNGI---GRGARRKIEVKVEFAPIVTVQST 172
LQ+ +T ED YYC A G G+G + AP V +
Sbjct: 70 ITRDTSKNQFFLQLNSVTVEDTATYYCATAGRGFPYWGQGTLVTVSAAKTTAPSVYPLAP 129
Query: 173 RIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 130 VCGDTTGSSVTLGCLVKGYFPEPVTLTW 157
>pdb|3G5Y|A Chain A, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 213
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 59/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+++ SP G +V + CH+ I W ++ ++ +G +
Sbjct: 2 ILMTQSPVSMSLSLGDTVSITCHSSQDISSNIGWLQQAPGKSFKGLIYHGTNLEDGVPGR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L I ++ ED YYCV Q G +E+K + AP V++
Sbjct: 62 FSGSGSGADYSLTISSLSSEDFVDYYCVQYGQFPWTFGGGTSLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 TEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1J1P|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Ls91a Complexed
With Hen Egg White Lysozyme
Length = 107
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 41/106 (38%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV L C A + W ++ + P Q+I
Sbjct: 2 IVLTQSPATLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKYASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
F+GS TL I + ED G Y+C N G K+E+K
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQANSWPYTFGGGTKLEIK 107
>pdb|3MFG|B Chain B, Crystal Structure Of Toxic Shock Syndrome Toxin 1 (Tsst-1)
In Complex With The Human T Cell Receptor Beta Chain
Vbeta2.1 (Ep-8)
Length = 118
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 25/100 (25%), Positives = 37/100 (37%), Gaps = 26/100 (26%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR------------------------- 110
+++ P + K G SV++EC + T+ W R
Sbjct: 3 VVSQHPSRVIVKSGTSVKIECRSLDFQATTMFWYRQFPKQSLMLMATSNEGSKATYEQGV 62
Query: 111 ENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIG 150
E + L N ++ T STL + ED G Y C A G G
Sbjct: 63 EKDKFLINHASL-TLSTLTVTSAHPEDSGFYICSALAGSG 101
>pdb|1IGT|B Chain B, Structure Of Immunoglobulin
pdb|1IGT|D Chain D, Structure Of Immunoglobulin
Length = 444
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 31/79 (39%), Gaps = 8/79 (10%)
Query: 128 LQIPRITKEDRGAYYCVAQNGI------GRGARRKIEVKVEFAPIVTVQSTRIGQALHHD 181
LQ+ R+ ED YYC G G+G + AP V + G
Sbjct: 81 LQMSRLKSEDTAMYYCARHGGYYAMDYWGQGTTVTVSSAKTTAPSVYPLAPVCGDTTGSS 140
Query: 182 MDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 141 VTLGCLVKGYFPEPVTLTW 159
>pdb|1YEI|L Chain L, Catalytic Antibody D2.3 Complex
pdb|1YEJ|L Chain L, Catalytic Antibody Complex
pdb|1YEK|L Chain L, Catalytic Antibody D2.3 Complex
pdb|1KN2|L Chain L, Catalytic Antibody D2.3 Complex
pdb|1KN4|L Chain L, Catalytic Antibody D2.3 Complex
Length = 219
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 7/85 (8%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQN----GIGRGARRKIEVKVEFAPIVTVQSTRIGQALH 179
T TL+I R+ D G YYCV G G + +I ++ + AP V++ Q
Sbjct: 74 TDFTLKISRVEAADLGVYYCVQGTHFPYTFGGGTKLEI-LRADAAPTVSIFPPSSEQLTS 132
Query: 180 HDMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 133 GGASVVCFLNNFYPKDINVKWKIDG 157
>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 = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 25/106 (23%), Positives = 44/106 (41%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN------------NAILPNGQTI 122
++L SP A G+ V + C A ++W ++ N ++ +
Sbjct: 2 LVLTQSPSSMYASLGERVTITCKASQDINSYLNWFQQKPGKSPKTLIYRTNRLVDGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
F+GS +L I + ED G YYC+ + G+ K+E+K
Sbjct: 62 FSGSGSGQDYSLTISSLEYEDMGIYYCLQYDEFPYTFGSGTKLEIK 107
>pdb|2BDN|H Chain H, Crystal Structure Of Human Mcp-1 Bound To A Blocking
Antibody, 11k2
Length = 217
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 37/150 (24%), Positives = 53/150 (35%), Gaps = 38/150 (25%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRE-----------------NNAILPN--GQTIF 123
+ K G SV+L C A G I + W ++ N P G+
Sbjct: 11 LVKAGASVKLSCPASGLNIKDTYMHWVKQRPEQGLEWIGRIDPANGNTKFDPKFQGKATI 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNGI-------GRGARRKIEVKVEFAPIVTVQ 170
T T LQ+ +T ED YYC G+ G+G + AP V
Sbjct: 71 TADTSSNTAYLQLSSLTSEDTAVYYCA--RGVFGFFDYWGQGTTLTVSSAKTTAPSVYPL 128
Query: 171 STRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 129 APVCGDTTGSSVTLGCLVKGYFPEPVTLTW 158
>pdb|1E0O|B Chain B, Crystal Structure Of A Ternary Fgf1-Fgfr2-Heparin Complex
pdb|1E0O|D Chain D, Crystal Structure Of A Ternary Fgf1-Fgfr2-Heparin Complex
Length = 219
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 39/185 (21%), Positives = 61/185 (32%), Gaps = 55/185 (29%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLH-------------LAIPYTSPE 67
+L +V+ C A G+P+PT+ W +N K + H L + P
Sbjct: 18 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 77
Query: 68 AQVDTPPVI------LNNSPQLSVAKE-------------------GQSVQLECHAEGHP 102
+ + V+ +N++ L V + G V+ C
Sbjct: 78 DKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANASTVVGGDVEFVCKVYSDA 137
Query: 103 IPTISW----RRENNAILPNG-------------QTIFTGSTLQIPRITKEDRGAYYCVA 145
P I W + + P+G T L I +T ED G Y C+A
Sbjct: 138 QPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEYTCLA 197
Query: 146 QNGIG 150
N IG
Sbjct: 198 GNSIG 202
>pdb|1A7O|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) R96l Deletion Mutant On Variant For Chain L
Glu81->asp And Chain H Leu312->val
Length = 106
Score = 32.0 bits (71), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 40/87 (45%), Gaps = 18/87 (20%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNA-----------ILPNGQ-TI 122
++L SP A G++V + C A G+ ++W ++ L +G +
Sbjct: 2 IVLTQSPASLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTTLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYC 143
F+GS +L+I + +D G+YYC
Sbjct: 62 FSGSGSGTQYSLKINSLQPDDFGSYYC 88
>pdb|1EV2|E Chain E, Crystal Structure Of Fgf2 In Complex With The
Extracellular Ligand Binding Domain Of Fgf Receptor 2
(Fgfr2)
pdb|1EV2|F Chain F, Crystal Structure Of Fgf2 In Complex With The
Extracellular Ligand Binding Domain Of Fgf Receptor 2
(Fgfr2)
pdb|1EV2|G Chain G, Crystal Structure Of Fgf2 In Complex With The
Extracellular Ligand Binding Domain Of Fgf Receptor 2
(Fgfr2)
pdb|1EV2|H Chain H, Crystal Structure Of Fgf2 In Complex With The
Extracellular Ligand Binding Domain Of Fgf Receptor 2
(Fgfr2)
Length = 220
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 39/185 (21%), Positives = 61/185 (32%), Gaps = 55/185 (29%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLH-------------LAIPYTSPE 67
+L +V+ C A G+P+PT+ W +N K + H L + P
Sbjct: 19 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 78
Query: 68 AQVDTPPVI------LNNSPQLSVAKE-------------------GQSVQLECHAEGHP 102
+ + V+ +N++ L V + G V+ C
Sbjct: 79 DKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANASTVVGGDVEFVCKVYSDA 138
Query: 103 IPTISW----RRENNAILPNG-------------QTIFTGSTLQIPRITKEDRGAYYCVA 145
P I W + + P+G T L I +T ED G Y C+A
Sbjct: 139 QPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEYTCLA 198
Query: 146 QNGIG 150
N IG
Sbjct: 199 GNSIG 203
>pdb|1IIL|E Chain E, Crystal Structure Of Pro253arg Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1IIL|F Chain F, Crystal Structure Of Pro253arg Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1IIL|G Chain G, Crystal Structure Of Pro253arg Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1IIL|H Chain H, Crystal Structure Of Pro253arg Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
Length = 220
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 39/185 (21%), Positives = 61/185 (32%), Gaps = 55/185 (29%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLH-------------LAIPYTSPE 67
+L +V+ C A G+P+PT+ W +N K + H L + P
Sbjct: 19 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 78
Query: 68 AQVDTPPVI------LNNSPQLSVAKE-------------------GQSVQLECHAEGHP 102
+ + V+ +N++ L V + G V+ C
Sbjct: 79 DKGNYTCVVENEYGSINHTYHLDVVERSRHRPILQAGLPANASTVVGGDVEFVCKVYSDA 138
Query: 103 IPTISW----RRENNAILPNG-------------QTIFTGSTLQIPRITKEDRGAYYCVA 145
P I W + + P+G T L I +T ED G Y C+A
Sbjct: 139 QPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEYTCLA 198
Query: 146 QNGIG 150
N IG
Sbjct: 199 GNSIG 203
>pdb|3L5X|L Chain L, Crystal Structure Of The Complex Between Il-13 And H2l6
Fab
pdb|3L7F|L Chain L, Structure Of Il-13 Antibody H2l6, A Humanized Variant Of
C836
pdb|3L7F|A Chain A, Structure Of Il-13 Antibody H2l6, A Humanized Variant Of
C836
pdb|3L7F|D Chain D, Structure Of Il-13 Antibody H2l6, A Humanized Variant Of
C836
Length = 214
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 47/117 (40%), Gaps = 23/117 (19%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
++L SP G+ L C A ++W ++ ++ +G T+
Sbjct: 2 IVLTQSPATLSLSPGERATLSCRASKSISKYLAWYQQKPGQAPRLLIYSGSTLQSGIPAR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQN----GIGRGARRKIEVKVEFAPIVTV 169
F+GS TL I + ED YYC N G+G + +I+ V AP V +
Sbjct: 62 FSGSGSGTDFTLTISSLEPEDFAVYYCQQHNEYPYTFGQGTKLEIKRTVA-APSVFI 117
>pdb|1II4|E Chain E, Crystal Structure Of Ser252trp Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1II4|F Chain F, Crystal Structure Of Ser252trp Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1II4|G Chain G, Crystal Structure Of Ser252trp Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1II4|H Chain H, Crystal Structure Of Ser252trp Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
Length = 220
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 39/185 (21%), Positives = 61/185 (32%), Gaps = 55/185 (29%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLH-------------LAIPYTSPE 67
+L +V+ C A G+P+PT+ W +N K + H L + P
Sbjct: 19 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 78
Query: 68 AQVDTPPVI------LNNSPQLSVAKE-------------------GQSVQLECHAEGHP 102
+ + V+ +N++ L V + G V+ C
Sbjct: 79 DKGNYTCVVENEYGSINHTYHLDVVERWPHRPILQAGLPANASTVVGGDVEFVCKVYSDA 138
Query: 103 IPTISW----RRENNAILPNG-------------QTIFTGSTLQIPRITKEDRGAYYCVA 145
P I W + + P+G T L I +T ED G Y C+A
Sbjct: 139 QPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEYTCLA 198
Query: 146 QNGIG 150
N IG
Sbjct: 199 GNSIG 203
>pdb|1SY6|H Chain H, Crystal Structure Of Cd3gammaepsilon Heterodimer In
Complex With Okt3 Fab Fragment
Length = 219
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 32/150 (21%), Positives = 54/150 (36%), Gaps = 36/150 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISWRREN--------------------NAILPNGQTI 122
+A+ G SV++ C A G+ T+ W ++ N + T+
Sbjct: 11 LARPGASVKMSCKASGYTFTRYTMHWVKQRPGQGLEWIGYINPSRGYTNYNQKFKDKATL 70
Query: 123 FTGST-----LQIPRITKEDRGAYYCV-------AQNGIGRGARRKIEVKVEFAPIVTVQ 170
T + +Q+ +T ED YYC + G+G + AP V
Sbjct: 71 TTDKSSSTAYMQLSSLTSEDSAVYYCARYYDDHYCLDYWGQGTTLTVSSAKTTAPSVYPL 130
Query: 171 STRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 131 APVCGGTTGSSVTLGCLVKGYFPEPVTLTW 160
>pdb|1XGY|L Chain L, Crystal Structure Of Anti-Meta I Rhodopsin Fab Fragment
K42- 41l
pdb|1XGY|M Chain M, Crystal Structure Of Anti-Meta I Rhodopsin Fab Fragment
K42- 41l
Length = 216
Score = 31.6 bits (70), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 39/84 (46%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T L+I R+ ED G YYC + ++ + G K+E+K + AP V++ Q
Sbjct: 74 TDFALRISRVEAEDVGVYYCGQMLEHPLTFGTGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|1BOG|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Homologous Peptide
Length = 214
Score = 31.6 bits (70), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 59/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN------------NAILPNGQTI 122
+ + SP G+ V + C A ++W + N ++ +
Sbjct: 2 IKMTQSPSSMYTSLGERVTITCKASQDINSFLTWFLQKPGKSPKTLIYRANRLMIGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L I + ED G YYC+ + + GA K+++K + AP V++
Sbjct: 62 FSGSGSGQTYSLTISSLEYEDMGIYYCLQYDDFPLTFGAGTKLDLKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGTASVVCFLNNFYPKEINVKWKIDG 152
>pdb|1CLO|L Chain L, Anti-Carcinoembryonic Antigen Monoclonal Antibody A5b7
Length = 213
Score = 31.6 bits (70), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 34/152 (22%), Positives = 56/152 (36%), Gaps = 26/152 (17%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS-------- 126
+L+ SP + A G+ V + C A + I W ++ P T +
Sbjct: 2 TVLSQSPAILSASPGEKVTMTCRASSS-VTYIHWYQQKPGSSPKSWIYATSNLASGVPAR 60
Query: 127 ----------TLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTVQST 172
+L I R+ ED YYC + G G + +I+ + + AP V++
Sbjct: 61 FSGSGSGTSYSLTISRVEAEDAATYYCQHWSSKPPTFGGGTKLEIK-RADAAPTVSIFPP 119
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 120 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|2FDB|P Chain P, Crystal Structure Of Fibroblast Growth Factor (Fgf)8b In
Complex With Fgf Receptor (Fgfr) 2c
pdb|2FDB|R Chain R, Crystal Structure Of Fibroblast Growth Factor (Fgf)8b In
Complex With Fgf Receptor (Fgfr) 2c
Length = 220
Score = 31.6 bits (70), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 39/185 (21%), Positives = 61/185 (32%), Gaps = 55/185 (29%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLH-------------LAIPYTSPE 67
+L +V+ C A G+P+PT+ W +N K + H L + P
Sbjct: 17 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 76
Query: 68 AQVDTPPVI------LNNSPQLSVAKE-------------------GQSVQLECHAEGHP 102
+ + V+ +N++ L V + G V+ C
Sbjct: 77 DKGNYTCVVENEYGSINHTYHLDVVERSRHRPILQAGLPANASTVVGGDVEFVCKVYSDA 136
Query: 103 IPTISW----RRENNAILPNG-------------QTIFTGSTLQIPRITKEDRGAYYCVA 145
P I W + + P+G T L I +T ED G Y C+A
Sbjct: 137 QPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEYTCLA 196
Query: 146 QNGIG 150
N IG
Sbjct: 197 GNSIG 201
>pdb|1JNN|H Chain H, Crystal Structure Of Fab-Estradiol Complexes
Length = 214
Score = 31.6 bits (70), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 33/141 (23%), Positives = 51/141 (36%), Gaps = 30/141 (21%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------------NAILP-----NGQTIF 123
+ K G SV+L C A G I + W ++ N I G+
Sbjct: 11 LVKPGASVRLSCSASGFNIKDTYMFWVKQRPEQGLDWIGRINPANGISKYDPRFQGKATL 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVKVEFAPIVTVQSTRIG 175
T T LQ+ +T ED YYC + + G+G + V P V +
Sbjct: 71 TADTSSNTAYLQLDNLTSEDTAVYYCAIEKDLPWGQGTLVTVSVAKTTPPSVYPLAPGSA 130
Query: 176 QALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 AQTNSMVTLGCLVKGYFPEPV 151
>pdb|1KB5|H Chain H, Murine T-Cell Receptor Variable DomainFAB COMPLEX
Length = 219
Score = 31.6 bits (70), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 33/148 (22%), Positives = 54/148 (36%), Gaps = 36/148 (24%)
Query: 87 KEGQSVQLECHAEGHPIP--TISWRRENNA--------ILP-----------NGQTIFT- 124
K G SV++ C A G+ ++W +++N I P G+ T
Sbjct: 13 KPGASVKISCKASGYSFTGYNMNWVKQSNGKSLEWIGNIDPYYGGISYNQKFKGRATLTV 72
Query: 125 -----GSTLQIPRITKEDRGAYYCVAQ-------NGIGRGARRKIEVKVEFAPIVTVQST 172
+ +Q+ +T ED YYC + G+G + AP V +
Sbjct: 73 DKSSSTAYMQLKSLTSEDSAVYYCARSRTDLYYFDYWGQGTTLTVSSAKTTAPSVYPLAP 132
Query: 173 RIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 133 VCGDTTGSSVTLGCLVKGYFPEPVTLTW 160
>pdb|3G5Z|B Chain B, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 217
Score = 31.6 bits (70), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 32/139 (23%), Positives = 50/139 (35%), Gaps = 31/139 (22%)
Query: 84 SVAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST----------- 127
S+ K QS+ L C G+ I + +W R+ N + G ++G+T
Sbjct: 10 SLVKPSQSLSLTCTVTGYSITSDFAWNWIRQFPGNKLEWMGYISYSGNTRYNPSLKSRIS 69
Query: 128 -----------LQIPRITKEDRGAYYC-VAQNGI---GRGARRKIEVKVEFAPIVTVQST 172
LQ+ +T ED YYC A G G+G + P V +
Sbjct: 70 ITRDTSSNQFFLQLNSVTPEDTATYYCATAGRGFPYWGQGTLVTVSAAKTTPPSVYPLAP 129
Query: 173 RIGQALHHDMDLDCHIEAY 191
G + L C ++ Y
Sbjct: 130 GCGDTTGSSVTLGCLVKGY 148
>pdb|1JNL|H Chain H, Crystal Structure Of Fab-Estradiol Complexes
Length = 216
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 33/141 (23%), Positives = 51/141 (36%), Gaps = 30/141 (21%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------------NAILP-----NGQTIF 123
+ K G SV+L C A G I + W ++ N I G+
Sbjct: 11 LVKPGASVRLSCSASGFNIKDTYMFWVKQRPEQGLDWIGRINPANGISKYDPRFQGKATL 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVKVEFAPIVTVQSTRIG 175
T T LQ+ +T ED YYC + + G+G + V P V +
Sbjct: 71 TADTSSNTAYLQLDNLTSEDTAVYYCAIEKDLPWGQGTLVTVSVAKTTPPSVYPLAPGSA 130
Query: 176 QALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 AQTNSMVTLGCLVKGYFPEPV 151
>pdb|3T0E|E Chain E, Crystal Structure Of A Complete Ternary Complex Of T Cell
Receptor, Peptide-Mhc And Cd4
Length = 373
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 42/88 (47%), Gaps = 13/88 (14%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 110 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 163
Query: 147 NGIGRGARRKIEVKVEFAPIVTVQSTRI 174
N ++K+E K++ + +++ I
Sbjct: 164 N------QKKVEFKIDIVVLAFQKASSI 185
>pdb|1BAF|L Chain L, 2.9 Angstroms Resolution Structure Of An
Anti-Dinitrophenyl- Spin-Label Monoclonal Antibody Fab
Fragment With Bound Hapten
Length = 214
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 34/152 (22%), Positives = 59/152 (38%), Gaps = 25/152 (16%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTIFTG---- 125
++L SP + A G+ V + C A + + W ++ ++ + + +G
Sbjct: 2 IVLTQSPAIMSASPGEKVTMTCSASSS-VYYMYWYQQKPGSSPRLLIYDTSNLASGVPVR 60
Query: 126 ---------STLQIPRITKEDRGAYYCVAQNG---IGRGARRKIEVK-VEFAPIVTVQST 172
+L I R+ ED YYC + I G K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTISRMEAEDAATYYCQQWSSYPPITFGVGTKLELKRADAAPTVSIFPP 120
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1WIO|A Chain A, Structure Of T-Cell Surface Glycoprotein Cd4, Tetragonal
Crystal Form
pdb|1WIO|B Chain B, Structure Of T-Cell Surface Glycoprotein Cd4, Tetragonal
Crystal Form
pdb|1WIP|A Chain A, Structure Of T-Cell Surface Glycoprotein Cd4, Monoclinic
Crystal Form
pdb|1WIP|B Chain B, Structure Of T-Cell Surface Glycoprotein Cd4, Monoclinic
Crystal Form
pdb|1WIQ|A Chain A, Structure Of T-Cell Surface Glycoprotein Cd4, Trigonal
Crystal Form
pdb|1WIQ|B Chain B, Structure Of T-Cell Surface Glycoprotein Cd4, Trigonal
Crystal Form
Length = 363
Score = 31.6 bits (70), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 42/88 (47%), Gaps = 13/88 (14%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 110 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 163
Query: 147 NGIGRGARRKIEVKVEFAPIVTVQSTRI 174
N ++K+E K++ + +++ I
Sbjct: 164 N------QKKVEFKIDIVVLAFQKASSI 185
>pdb|1A6T|B Chain B, Fab Fragment Of Mab1-Ia Monoclonal Antibody To Human
Rhinovirus 14 Nim-Ia Site
pdb|1A6T|D Chain D, Fab Fragment Of Mab1-Ia Monoclonal Antibody To Human
Rhinovirus 14 Nim-Ia Site
Length = 217
Score = 31.6 bits (70), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 32/148 (21%), Positives = 57/148 (38%), Gaps = 34/148 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRENNA--------ILP-NGQTIF---------- 123
+ K G SV++ C A G+ T + W ++++ + P NG T F
Sbjct: 11 LVKPGASVKISCKASGYSFSTYYMHWVKQSHGKSLEWIGRVDPDNGGTSFNQKFKGKAIL 70
Query: 124 ------TGSTLQIPRITKEDRGAYYCVAQNGI-----GRGARRKIEVKVEFAPIVTVQST 172
+ + +++ +T ED YYC ++ G+G + P V +
Sbjct: 71 TVDKSSSTAYMELGSLTSEDSAVYYCARRDDYYFDFWGQGTSLTVSSAKTTPPSVYPLAP 130
Query: 173 RIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 131 VCGGTTGSSVTLGCLVKGYFPEPVTLTW 158
>pdb|3CXD|L Chain L, Crystal Structure Of Anti-Osteopontin Antibody 23c3 In
Complex With Its Epitope Peptide
pdb|3DSF|L Chain L, Crystal Structure Of Anti-Osteopontin Antibody 23c3 In
Complex With W43a Mutated Epitope Peptide
Length = 213
Score = 31.6 bits (70), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 36/151 (23%), Positives = 61/151 (40%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----------NGQ-TI 122
+ + SP G++V + C A + ++W ++ P +G +
Sbjct: 2 IQMTQSPASLSVSVGETVTITCRASENIYSFLAWYQQKQGKSPQLLVYAATNLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L+I + ED G YYC G G+ K+E+K + AP V++
Sbjct: 62 FSGSGSGTQFSLKINSLQSEDFGTYYCQHFWGTPFTFGSGTKLEIKRSDAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 AAQLSSGGGSVVCFLNNFYPKDINVKWKIDG 152
>pdb|1CFS|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Unrelated Peptide
pdb|1CFT|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Unrelated D-Peptide
pdb|1CFN|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Related Peptide
pdb|1CFQ|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41
pdb|1HH6|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With A
Peptide
pdb|1HH9|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With A
Peptide
pdb|1HI6|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With A
Peptide
Length = 214
Score = 31.6 bits (70), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 59/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN------------NAILPNGQTI 122
+ + SP G+ V + C A ++W + N ++ +
Sbjct: 2 IKMTQSPSSMYTSLGERVTITCKASQDINSFLTWFLQKPGKSPKTLIYRANRLMIGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L I + ED G YYC+ + + GA K+++K + AP V++
Sbjct: 62 FSGSGSGQTYSLTISSLEYEDMGIYYCLQYDDFPLTFGAGTKLDLKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKEINVKWKIDG 152
>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 = 31.6 bits (70), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 40/93 (43%), Gaps = 6/93 (6%)
Query: 107 SWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPI 166
S+R+ A L Q + LQI + +D G Y C+ G ++I VKV AP
Sbjct: 63 SYRQR--ARLLKDQLSLGNAALQITDVKLQDAGVYRCMI--SYGGADYKRITVKVN-APY 117
Query: 167 VTV-QSTRIGQALHHDMDLDCHIEAYPHPILYW 198
+ Q + + + +L C E YP + W
Sbjct: 118 NKINQRILVVDPVTSEHELTCQAEGYPKAEVIW 150
Score = 27.3 bits (59), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 15/62 (24%)
Query: 93 QLECHAEGHPIPTISWRRENNAILPNGQTIFTG-----------STLQIPRITKEDRGAY 141
+L C AEG+P + W ++ +L +G+T T STL+I T E +
Sbjct: 135 ELTCQAEGYPKAEVIWTSSDHQVL-SGKTTTTNSKREEKLFNVTSTLRINTTTNE---IF 190
Query: 142 YC 143
YC
Sbjct: 191 YC 192
>pdb|2V7H|B Chain B, Crystal Structure Of An Immunogen Specific Anti-
Mannopyranoside Monoclonal Antibody Fab Fragment
pdb|2V7H|H Chain H, Crystal Structure Of An Immunogen Specific Anti-
Mannopyranoside Monoclonal Antibody Fab Fragment
Length = 220
Score = 31.6 bits (70), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 33/87 (37%), Gaps = 27/87 (31%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SV++ C A G+ I W ++ ILP G+ F
Sbjct: 11 LMKPGASVKISCKATGYTFSNYWIDWIKQRPGHGLEWIGEILPGSGSTNYNEKFRGKATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCV 144
T T +Q+ +T ED YYC
Sbjct: 71 TADTSSNTAYMQLSSLTSEDSAVYYCT 97
>pdb|4AEH|L Chain L, Crystal Structure Of The Anti-Aahi Fab9c2 Antibody
Length = 214
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 36/151 (23%), Positives = 59/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
V + SP G++V + C A + ++W ++ P
Sbjct: 2 VQMTQSPASLSVSVGETVTITCRASENIYRNLAWYQQKQGKSPQLLVYAATNLAAGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L+I + ED G+YYC I G+ K+E+K + AP V++
Sbjct: 62 FSGSGSGTQYSLKINSLQSEDFGSYYCQHFWNIPFTFGSGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3FN3|A Chain A, Dimeric Structure Of Pd-L1
pdb|3FN3|B Chain B, Dimeric Structure Of Pd-L1
Length = 221
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 40/93 (43%), Gaps = 6/93 (6%)
Query: 107 SWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPI 166
S+R+ A L Q + LQI + +D G Y C+ G ++I VKV AP
Sbjct: 63 SYRQR--ARLLKDQLSLGNAALQITDVKLQDAGVYRCMI--SYGGADYKRITVKVN-APY 117
Query: 167 VTV-QSTRIGQALHHDMDLDCHIEAYPHPILYW 198
+ Q + + + +L C E YP + W
Sbjct: 118 NKINQRILVVDPVTSEHELTCQAEGYPKAEVIW 150
Score = 27.3 bits (59), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 15/62 (24%)
Query: 93 QLECHAEGHPIPTISWRRENNAILPNGQTIFTG-----------STLQIPRITKEDRGAY 141
+L C AEG+P + W ++ +L +G+T T STL+I T E +
Sbjct: 135 ELTCQAEGYPKAEVIWTSSDHQVL-SGKTTTTNSKREEKLFNVTSTLRINTTTNE---IF 190
Query: 142 YC 143
YC
Sbjct: 191 YC 192
>pdb|3QEH|B Chain B, Crystal Structure Of Human N12-I15, An Adcc And
Non-Neutralizing Anti- Hiv-1 Env Antibody
pdb|3QEH|D Chain D, Crystal Structure Of Human N12-I15, An Adcc And
Non-Neutralizing Anti- Hiv-1 Env Antibody
pdb|3QEH|F Chain F, Crystal Structure Of Human N12-I15, An Adcc And
Non-Neutralizing Anti- Hiv-1 Env Antibody
pdb|3QEH|H Chain H, Crystal Structure Of Human N12-I15, An Adcc And
Non-Neutralizing Anti- Hiv-1 Env Antibody
Length = 218
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 18/45 (40%), Positives = 25/45 (55%), Gaps = 7/45 (15%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCV-AQNGIGRGARRKIEVK 160
F+GS TL+I R+ ED G YYC+ A+ G K+E+K
Sbjct: 67 FSGSGSGTEFTLKISRVEAEDVGVYYCMQAKESPTFGQGTKVEIK 111
>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 = 31.6 bits (70), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 40/93 (43%), Gaps = 6/93 (6%)
Query: 107 SWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPI 166
S+R+ A L Q + LQI + +D G Y C+ G ++I VKV AP
Sbjct: 63 SYRQR--ARLLKDQLSLGNAALQITDVKLQDAGVYRCMI--SYGGADYKRITVKVN-APY 117
Query: 167 VTV-QSTRIGQALHHDMDLDCHIEAYPHPILYW 198
+ Q + + + +L C E YP + W
Sbjct: 118 NKINQRILVVDPVTSEHELTCQAEGYPKAEVIW 150
Score = 27.3 bits (59), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 19/62 (30%), Positives = 29/62 (46%), Gaps = 15/62 (24%)
Query: 93 QLECHAEGHPIPTISWRRENNAILPNGQTIFTG-----------STLQIPRITKEDRGAY 141
+L C AEG+P + W ++ +L +G+T T STL+I T E +
Sbjct: 135 ELTCQAEGYPKAEVIWTSSDHQVL-SGKTTTTNSKREEKLFNVTSTLRINTTTNE---IF 190
Query: 142 YC 143
YC
Sbjct: 191 YC 192
>pdb|1NJ9|H Chain H, Cocaine Hydrolytic Antibody 15a10
pdb|1NJ9|B Chain B, Cocaine Hydrolytic Antibody 15a10
Length = 215
Score = 31.2 bits (69), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 32/149 (21%), Positives = 55/149 (36%), Gaps = 45/149 (30%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISWRRENNA--------ILP-NGQTIF---------- 123
+ K G SV++ C A G+ + W ++N+ I P NG T +
Sbjct: 11 LVKPGASVKVSCKASGYSFTDYNMYWVKQNHGESLEWIAYIDPSNGDTFYNQKFQGKATV 70
Query: 124 ------TGSTLQIPRITKEDRGAYYCVAQNGI----GRGARRKIEVKVE------FAPIV 167
+ + + + +T ED YYC G+ G+G + K AP
Sbjct: 71 TLDKSSSTAFMHLNSLTSEDSAVYYCARGGGLFAFWGQGTLVTVSAKTTPPSVYPLAPGS 130
Query: 168 TVQSTRIGQALHHDMDLDCHIEAY-PHPI 195
Q+ + + L C ++ Y P P+
Sbjct: 131 AAQTNSM-------VTLGCLVKGYFPEPV 152
>pdb|1OB1|B Chain B, Crystal Structure Of A Fab Complex Whith Plasmodium
Falciparum Msp1-19
pdb|1OB1|E Chain E, Crystal Structure Of A Fab Complex Whith Plasmodium
Falciparum Msp1-19
Length = 219
Score = 31.2 bits (69), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 35/161 (21%), Positives = 57/161 (35%), Gaps = 41/161 (25%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPT----------------ISWRRENNAILPNG 119
++ + PQL K G++V++ C A G+ T I W ++ + P
Sbjct: 4 LVQSGPQLK--KPGETVRISCKASGYTFTTAGIQWVQRLPGKDLKWIGWINTHSGV-PQY 60
Query: 120 QTIFTG------------STLQIPRITKEDRGAYYCV--------AQNGIGRGARRKIEV 159
F G + LQI + ED Y+C + G+G +
Sbjct: 61 ADDFKGRFAFSLETSASTAFLQIINLKNEDTATYFCARNYYRFDGGMDFWGQGTSVTVSS 120
Query: 160 KVEFAPIVTVQSTRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
AP V + G + L C ++ Y P P+ L W
Sbjct: 121 AKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 161
>pdb|1NAK|L Chain L, Igg1 Fab Fragment (83.1) Complex With 16-Residue Peptide
(Residues 304-321 Of Hiv-1 Gp120 (Mn Isolate))
pdb|1NAK|M Chain M, Igg1 Fab Fragment (83.1) Complex With 16-Residue Peptide
(Residues 304-321 Of Hiv-1 Gp120 (Mn Isolate))
Length = 219
Score = 31.2 bits (69), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 36/84 (42%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T T +I R+ ED G Y+C + G K+E+K + AP V++ Q
Sbjct: 74 TDFTFKISRVEAEDLGVYFCFQTTHDPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|2J4W|L Chain L, Structure Of A Plasmodium Vivax Apical Membrane Antigen 1-
Fab F8.12.19 Complex
pdb|2J5L|B Chain B, Structure Of A Plasmodium Falciparum Apical Membrane
Antigen 1-Fab F8.12.19 Complex
Length = 213
Score = 31.2 bits (69), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 33/151 (21%), Positives = 58/151 (38%), Gaps = 26/151 (17%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN-----GQTIFTG----- 125
+L+ SP + A G+ V + C A + + W ++ + P + +G
Sbjct: 3 VLSQSPAILSASPGEKVTMTCRARSS-VSYMHWYQQKSGSSPKPWIHATSNLASGVPARF 61
Query: 126 --------STLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTVQSTR 173
+L I R+ ED YYC + G G + +I+ + + AP V++
Sbjct: 62 SGSGSGTSYSLTISRVEAEDAATYYCQQWSSHPPTFGSGTKLEIK-RADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|3VI3|L Chain L, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI3|E Chain E, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI4|L Chain L, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
pdb|3VI4|E Chain E, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
Length = 219
Score = 31.2 bits (69), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I R+ D G Y+C+ + GA K+E+K + AP V++ Q
Sbjct: 74 TAFTLRISRVEAADVGIYFCLQHLEYPFTFGAGTKLELKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3R4D|A Chain A, Crystal Structure Of Mouse Coronavirus Receptor-Binding
Domain Complexed With Its Murine Receptor
pdb|3R4D|C Chain C, Crystal Structure Of Mouse Coronavirus Receptor-Binding
Domain Complexed With Its Murine Receptor
Length = 208
Score = 31.2 bits (69), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 42/112 (37%), Gaps = 14/112 (12%)
Query: 56 RLHLAIPYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI 115
R H+ P T P QV V KE SV L C + I W + ++
Sbjct: 103 RFHVHQPVTQPFLQVTNTTV-----------KELDSVTLTCLSNDIG-ANIQWLFNSQSL 150
Query: 116 LPNGQTIFT--GSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAP 165
+ + S L+I I +ED G Y C N + I++ + F P
Sbjct: 151 QLTERMTLSQNNSILRIDPIKREDAGEYQCEISNPVSVRRSNSIKLDIIFDP 202
>pdb|2CKN|A Chain A, Nmr Structure Of The First Ig Module Of Mouse Fgfr1
Length = 95
Score = 31.2 bits (69), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 16/62 (25%), Positives = 29/62 (46%), Gaps = 1/62 (1%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNG 148
G +QL C + +I+W R+ ++ + +T TG +++ D G Y CV +
Sbjct: 24 GDLLQLRCRLRDD-VQSINWLRDGVQLVESNRTRITGEEVEVRDSIPADSGLYACVTSSP 82
Query: 149 IG 150
G
Sbjct: 83 SG 84
>pdb|4I9W|D Chain D, Human Two Pore Domain K+ Channel Traak (k2p4.1) - Fab
Complex Structure
pdb|4I9W|F Chain F, Human Two Pore Domain K+ Channel Traak (k2p4.1) - Fab
Complex Structure
Length = 211
Score = 31.2 bits (69), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 32/152 (21%), Positives = 59/152 (38%), Gaps = 26/152 (17%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTIFTG---- 125
++L SP + A G+ V + C A + + W ++ + P + + +G
Sbjct: 2 IVLTQSPAIMSASPGEKVTMTCSASSS-VSYMHWYQQKSGTSPKRWIYDTSKLASGVPAR 60
Query: 126 ---------STLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTVQST 172
+L I + ED YYC + G GA+ +++ + + AP V++
Sbjct: 61 FSGSGSGTSYSLTISSMEAEDAATYYCQQWSNSPPTFGAGAKLELK-RADAAPTVSIFPP 119
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 120 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|3CAF|A Chain A, Crystal Structure Of Hfgfr2 D2 Domain
pdb|3CU1|A Chain A, Crystal Structure Of 2:2:2 Fgfr2d2:fgf1:sos Complex
pdb|3CU1|C Chain C, Crystal Structure Of 2:2:2 Fgfr2d2:fgf1:sos Complex
pdb|3EUU|A Chain A, Crystal Structure Of The Fgfr2 D2 Domain
pdb|3EUU|B Chain B, Crystal Structure Of The Fgfr2 D2 Domain
Length = 100
Score = 31.2 bits (69), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 5/74 (6%)
Query: 82 QLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI-----LPNGQTIFTGSTLQIPRITKE 136
+L +V+ C A G+P+PT+ W + + + +L + +
Sbjct: 16 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 75
Query: 137 DRGAYYCVAQNGIG 150
D+G Y CV +N G
Sbjct: 76 DKGNYTCVVENEYG 89
Score = 30.4 bits (67), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 20/38 (52%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLH 58
+L +V+ C A G+P+PT+ W +N K + H
Sbjct: 16 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEH 53
>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 = 31.2 bits (69), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 36/151 (23%), Positives = 59/151 (39%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+ + SP A G+ V L C A +SW ++ ++ T+
Sbjct: 2 IQMTQSPSSLSASLGERVSLTCRASQEISGYLSWLQQKPDGTIKRLIYAASTLDSGVPKR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEV-KVEFAPIVTVQSTR 173
F+GS +L I + ED YYC+ A + G K+E+ + + AP V++
Sbjct: 62 FSGSRSGSDYSLTISSLESEDFADYYCLQYASSPYTFGGGTKLEILRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1FL3|L Chain L, Crystal Structure Of The Blue Fluorescent Antibody (19g2)
In Complex With Stilbene Hapten At 277k
pdb|1FL3|B Chain B, Crystal Structure Of The Blue Fluorescent Antibody (19g2)
In Complex With Stilbene Hapten At 277k
Length = 214
Score = 31.2 bits (69), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 39/85 (45%), Gaps = 7/85 (8%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI---GRGARRKIEVK-VEFAPIVTVQSTRIGQALH 179
T TL+I + ED G YYC AQN GA K+E+K + AP V++ Q
Sbjct: 73 TDFTLRINTVEAEDVGVYYC-AQNLELPPTFGAGTKLELKRADAAPTVSIFPPSSEQLTS 131
Query: 180 HDMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 132 GGASVVCFLNNFYPKDINVKWKIDG 156
>pdb|1KCR|L Chain L, Crystal Structure Of Antibody Pc283 In Complex With Ps1
Peptide
Length = 213
Score = 31.2 bits (69), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 61/151 (40%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR----ENNAILPNGQT--------I 122
++L SP+ G+ V L C A + +SW + ++ +L G +
Sbjct: 2 IVLTQSPKSMSMSVGERVTLSCKASENVGTYVSWYQQKPEQSPKLLIYGASNRYTGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYC---VAQNGIGRGARRKIEVKVEFAPIVTVQSTR 173
FTGS TL+I + ED Y+C + G G + I+ + + AP V++
Sbjct: 62 FTGSGSATDFTLKISSVQAEDLADYHCGQTYSYPTFGGGTKLAIK-RADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTAGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|1WVZ|A Chain A, Solution Structure Of The D2 Domain Of The Fibroblast
Growth Factor
Length = 104
Score = 31.2 bits (69), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 32/81 (39%), Gaps = 19/81 (23%)
Query: 82 QLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS------------TLQ 129
+L +V+ C A G+P+PT+ W L NG+ +L
Sbjct: 20 RLHAVPAANTVKFRCPAGGNPMPTMRW-------LKNGKEFKQEHRIGGYKVRNQHWSLI 72
Query: 130 IPRITKEDRGAYYCVAQNGIG 150
+ + D+G Y CV +N G
Sbjct: 73 MESVVPSDKGNYTCVVENEYG 93
Score = 30.4 bits (67), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 20/38 (52%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLH 58
+L +V+ C A G+P+PT+ W +N K + H
Sbjct: 20 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEH 57
>pdb|1A7Q|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) High Affinity Expressed Variant Containing
Ser26l->gly, Ile29l->thr, Glu81l->asp, Thr97l->ser,
Pro240h->leu, Asp258h->ala, Lys281h->glu, Asn283h->asp
And Leu312h->val
Length = 106
Score = 31.2 bits (69), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 18/87 (20%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
++L SP A G++V + C A G+ ++W ++ P
Sbjct: 2 IVLTQSPASLSASVGETVTITCRAGGNTHNYLAWYQQKQGKSPQLLVYYTTTLAAGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYC 143
F+GS +L+I + +D G+YYC
Sbjct: 62 FSGSGSGTQYSLKINSLQPDDFGSYYC 88
>pdb|1UB6|L Chain L, Crystal Structure Of Antibody 19g2 With Sera Ligand
pdb|1UB6|B Chain B, Crystal Structure Of Antibody 19g2 With Sera Ligand
Length = 213
Score = 31.2 bits (69), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 39/85 (45%), Gaps = 7/85 (8%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI---GRGARRKIEVK-VEFAPIVTVQSTRIGQALH 179
T TL+I + ED G YYC AQN GA K+E+K + AP V++ Q
Sbjct: 73 TDFTLRINTVEAEDVGVYYC-AQNLELPPTFGAGTKLELKRADAAPTVSIFPPSSEQLTS 131
Query: 180 HDMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 132 GGASVVCFLNNFYPKDINVKWKIDG 156
>pdb|12E8|H Chain H, 2e8 Fab Fragment
pdb|12E8|P Chain P, 2e8 Fab Fragment
Length = 221
Score = 31.2 bits (69), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 36/95 (37%), Gaps = 27/95 (28%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRE-----------------NNAILPN--GQTIF 123
V + G SV+L C A G I I W ++ + +P G+
Sbjct: 11 VVRSGASVKLSCTASGFNIKDYYIHWVKQRPEKGLEWIGWIDPEIGDTEYVPKFQGKATM 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNGIGRG 152
T T LQ+ +T ED YYC A + RG
Sbjct: 71 TADTSSNTAYLQLSSLTSEDTAVYYCNAGHDYDRG 105
>pdb|3M8O|L Chain L, Human Iga1 Fab Fragment
pdb|3QNX|A Chain A, Orthorhombic Form Of Human Iga1 Fab Fragment, Sharing Same
Fv As Igg
pdb|3QNY|A Chain A, Monoclinic Form Of Human Iga1 Fab Fragment, Sharing Same
Fv As Igg
pdb|3QNY|C Chain C, Monoclinic Form Of Human Iga1 Fab Fragment, Sharing Same
Fv As Igg
pdb|3QNZ|A Chain A, Orthorhombic Form Of Igg1 Fab Fragment (in Complex With
Antigenic Tubulin Peptide) Sharing Same Fv As Iga
pdb|3QO0|A Chain A, Monoclinic Form Of Igg1 Fab Fragment (In Complex With
Antigenic Peptide) Sharing Same Fv As Iga
pdb|3QO1|A Chain A, Monoclinic Form Of Igg1 Fab Fragment (apo Form) Sharing
Same Fv As Iga
Length = 219
Score = 31.2 bits (69), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 29/57 (50%), Gaps = 11/57 (19%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQN----GIGRGARRKIEVKVEFAPIVTV 169
F+GS TL+I R+ ED G YYC+ G+G R +I+ V AP V +
Sbjct: 67 FSGSGSGTDFTLKIIRVEAEDAGTYYCMQNKQTPLTFGQGTRLEIKRTVA-APSVFI 122
>pdb|1GGI|H Chain H, Crystal Structure Of An Hiv-1 Neutralizing Antibody 50.1
In Complex With Its V3 Loop Peptide Antigen
pdb|1GGI|J Chain J, Crystal Structure Of An Hiv-1 Neutralizing Antibody 50.1
In Complex With Its V3 Loop Peptide Antigen
Length = 222
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 4/75 (5%)
Query: 128 LQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLD 185
L+I + D YYCV + I G+G + AP V + G + L
Sbjct: 82 LKITSVDTADTATYYCVQEGYIYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 141
Query: 186 CHIEAY-PHPI-LYW 198
C ++ Y P P+ L W
Sbjct: 142 CLVKGYFPEPVTLTW 156
>pdb|1FRG|H Chain H, 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 = 220
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 37/155 (23%), Positives = 54/155 (34%), Gaps = 45/155 (29%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISW-------RRENNAILPNG---------------- 119
+ K G ++L C A G + +SW R E A + NG
Sbjct: 11 LVKPGGFLKLSCAASGFTFSSFGMSWVRHTPDKRLEWVATISNGGGYTYYQDSVKGRFTI 70
Query: 120 ------QTIFTGSTLQIPRITKEDRGAYYCVA-----QNGI---GRGARRKIEVKVEFAP 165
T+F L++ + ED G YYC + G GRG + AP
Sbjct: 71 SRDNAKNTLF----LEMTSLKSEDAGLYYCARRERYDEKGFAYWGRGTLVTVSAAKTTAP 126
Query: 166 IVTVQSTRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
V + G + L C ++ Y P P+ L W
Sbjct: 127 SVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 161
>pdb|3IXX|H Chain H, The Pseudo-Atomic Structure Of West Nile Immature Virus In
Complex With Fab Fragments Of The Anti-Fusion Loop
Antibody E53
pdb|3IXX|J Chain J, The Pseudo-Atomic Structure Of West Nile Immature Virus In
Complex With Fab Fragments Of The Anti-Fusion Loop
Antibody E53
pdb|3IXY|H Chain H, The Pseudo-Atomic Structure Of Dengue Immature Virus In
Complex With Fab Fragments Of The Anti-Fusion Loop
Antibody E53
pdb|3IXY|J Chain J, The Pseudo-Atomic Structure Of Dengue Immature Virus In
Complex With Fab Fragments Of The Anti-Fusion Loop
Antibody E53
Length = 215
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 34/153 (22%), Positives = 58/153 (37%), Gaps = 26/153 (16%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN-----GQTIFTG---- 125
++L SP + A G+ V + C A + + W ++ + P + +G
Sbjct: 2 IVLTQSPAIMSASPGEKVTMTCSASSS-VSYMHWYQQKSGTSPKIWIYESSKLASGVPVR 60
Query: 126 ---------STLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVK-VEFAPIVTVQS 171
+L I + ED YYC + + GA K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTISSMEAEDVATYYCQQWSSHPHPLTFGAGTKLELKRADAAPTVSIFP 120
Query: 172 TRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 PSSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 153
>pdb|3DAR|A Chain A, Crystal Structure Of D2 Domain From Human Fgfr2
pdb|3DAR|B Chain B, Crystal Structure Of D2 Domain From Human Fgfr2
Length = 105
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 32/81 (39%), Gaps = 19/81 (23%)
Query: 82 QLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS------------TLQ 129
+L +V+ C A G+P+PT+ W L NG+ +L
Sbjct: 21 RLHAVPAANTVKFRCPAGGNPMPTMRW-------LKNGKEFKQEHRIGGYKVRNQHWSLI 73
Query: 130 IPRITKEDRGAYYCVAQNGIG 150
+ + D+G Y CV +N G
Sbjct: 74 MESVVPSDKGNYTCVVENEYG 94
Score = 30.4 bits (67), Expect = 0.86, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 20/38 (52%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLH 58
+L +V+ C A G+P+PT+ W +N K + H
Sbjct: 21 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEH 58
>pdb|3EOY|G Chain G, Structure Of Reovirus Sigma1 In Complex With Its Receptor
Junctional Adhesion Molecule-A
pdb|3EOY|H Chain H, Structure Of Reovirus Sigma1 In Complex With Its Receptor
Junctional Adhesion Molecule-A
pdb|3EOY|I Chain I, Structure Of Reovirus Sigma1 In Complex With Its Receptor
Junctional Adhesion Molecule-A
pdb|3EOY|J Chain J, Structure Of Reovirus Sigma1 In Complex With Its Receptor
Junctional Adhesion Molecule-A
pdb|3EOY|K Chain K, Structure Of Reovirus Sigma1 In Complex With Its Receptor
Junctional Adhesion Molecule-A
pdb|3EOY|L Chain L, Structure Of Reovirus Sigma1 In Complex With Its Receptor
Junctional Adhesion Molecule-A
Length = 104
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 34/88 (38%), Gaps = 15/88 (17%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRE----------NNAILPN--GQTIFTGSTLQIPRITK 135
E V+L C G P + W+ + NN I + + F + + +T+
Sbjct: 17 ENNPVKLSCAYSGFSSPRVEWKFDQGDTTRLVCYNNKITASYEDRVTFLPTGITFKSVTR 76
Query: 136 EDRGAYYCVAQNGIGRGARRKIEVKVEF 163
ED G Y C+ G EVKV+
Sbjct: 77 EDTGTYTCMVSE---EGGNSYGEVKVKL 101
>pdb|1PLG|H Chain H, Evidence For The Extended Helical Nature Of Polysaccharide
Epitopes. The 2.8 Angstroms Resolution Structure And
Thermodynamics Of Ligand Binding Of An Antigen Binding
Fragment Specific For Alpha-(2->8)- Polysialic Acid
Length = 215
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 33/148 (22%), Positives = 53/148 (35%), Gaps = 34/148 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ + G SV++ C A G+ I W ++ I P G+
Sbjct: 11 LVRPGASVKISCKASGYTFTDYYIHWVKQRPGEGLEWIGWIYPGSGNTKYNEKFKGKATL 70
Query: 124 TGST------LQIPRITKEDRGAYYC-----VAQNGIGRGARRKIEVKVEFAPIVTVQST 172
T T +Q+ +T ED Y+C A + G+G + AP V +
Sbjct: 71 TVDTSSSTAYMQLSSLTSEDSAVYFCARGGKFAMDYWGQGTSVTVSSAKTTAPSVYPLAP 130
Query: 173 RIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 131 VCGDTTGSSVTLGCLVKGYFPEPVTLTW 158
>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 = 31.2 bits (69), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 43/103 (41%), Gaps = 25/103 (24%)
Query: 110 RENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEF--APIV 167
R +IL +G T + L+I +T D G Y C Q+G +F +V
Sbjct: 68 RGRTSILRDGITAGK-AALRIHNVTASDSGKYLCYFQDG-------------DFYEKALV 113
Query: 168 TVQSTRIGQALHHDM----DLDCHIEA-----YPHPILYWAKD 201
++ +G LH D+ D H+E YP P + W+ +
Sbjct: 114 ELKVAALGSDLHVDVKGYKDGGIHLECRSTGWYPQPQIQWSNN 156
>pdb|4F80|A Chain A, Crystal Structure Of The Human Btn3a1 Ectodomain
Length = 226
Score = 31.2 bits (69), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 43/103 (41%), Gaps = 25/103 (24%)
Query: 110 RENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEF--APIV 167
R +IL +G T + L+I +T D G Y C Q+G +F +V
Sbjct: 68 RGRTSILRDGITAGK-AALRIHNVTASDSGKYLCYFQDG-------------DFYEKALV 113
Query: 168 TVQSTRIGQALHHDM----DLDCHIEA-----YPHPILYWAKD 201
++ +G LH D+ D H+E YP P + W+ +
Sbjct: 114 ELKVAALGSDLHVDVKGYKDGGIHLECRSTGWYPQPQIQWSNN 156
>pdb|1GGB|H Chain H, Major Antigen-Induced Domain Rearrangements In An Antibody
pdb|1GGC|H Chain H, Major Antigen-Induced Domain Rearrangements In An Antibody
Length = 215
Score = 31.2 bits (69), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 4/75 (5%)
Query: 128 LQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDLD 185
L+I + D YYCV + I G+G + AP V + G + L
Sbjct: 82 LKITSVDTADTATYYCVQEGYIYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 141
Query: 186 CHIEAY-PHPI-LYW 198
C ++ Y P P+ L W
Sbjct: 142 CLVKGYFPEPVTLTW 156
>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 = 31.2 bits (69), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 25/106 (23%), Positives = 43/106 (40%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN------------NAILPNGQTI 122
+ + SP A G+ V + C A +SW ++ N ++ +
Sbjct: 2 IKMTQSPSSMYASLGERVTITCKASQDINSYLSWFQQKPGKSPKTLIYRANRLVDGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
F+GS +L I + ED G YYC+ + G+ K+E+K
Sbjct: 62 FSGSGSGQDYSLTISSLEYEDMGIYYCLQYDEFPYTFGSGTKLEIK 107
>pdb|1MRC|H Chain H, Preparation, Characterization And Crystallization Of An
Antibody Fab Fragment That Recognizes Rna. Crystal
Structures Of Native Fab And Three Fab-Mononucleotide
Complexes
pdb|1MRD|H Chain H, Preparation, Characterization And Crystallization Of An
Antibody Fab Fragment That Recognizes Rna. Crystal
Structures Of Native Fab And Three Fab-Mononucleotide
Complexes
pdb|1MRE|H Chain H, Preparation, Characterization And Crystallization Of An
Antibody Fab Fragment That Recognizes Rna. Crystal
Structures Of Native Fab And Three Fab-Mononucleotide
Complexes
pdb|1MRF|H Chain H, Preparation, Characterization And Crystallization Of An
Antibody Fab Fragment That Recognizes Rna. Crystal
Structures Of Native Fab And Three Fab-Mononucleotide
Complexes
Length = 215
Score = 31.2 bits (69), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 30/138 (21%), Positives = 48/138 (34%), Gaps = 31/138 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SV+L C A G+ + + W ++ I P+ G+
Sbjct: 11 LVKPGASVKLSCKASGYTFTSYWMQWVKQRPGQGLEWIGEIDPSDSYTNYNQKFKGKATL 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNGI----GRGARRKIEVKVEFAPIVTVQSTR 173
T T +Q+ +T ED YYC G G+G + P V +
Sbjct: 71 TVDTSSSTAYMQLSSLTSEDSAVYYCANLRGYFDYWGQGTTLTVSSAKTTPPSVYPLAPG 130
Query: 174 IGQALHHDMDLDCHIEAY 191
G + L C ++ Y
Sbjct: 131 CGDTTGSSVTLGCLVKGY 148
>pdb|1KTK|E Chain E, Complex Of Streptococcal Pyrogenic Enterotoxin C (Spec)
With A Human T Cell Receptor Beta Chain (Vbeta2.1)
pdb|1KTK|F Chain F, Complex Of Streptococcal Pyrogenic Enterotoxin C (Spec)
With A Human T Cell Receptor Beta Chain (Vbeta2.1)
Length = 247
Score = 31.2 bits (69), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 25/101 (24%), Positives = 37/101 (36%), Gaps = 26/101 (25%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR------------------------ 110
+++ P +AK G SV++EC + T+ W R
Sbjct: 2 AVVSQHPSRVIAKSGTSVKIECRSLDFQATTMFWYRQFPKQSLMLMATSAEGSKATYEQG 61
Query: 111 -ENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIG 150
E + L N ++ T STL + ED Y C A G G
Sbjct: 62 VEKDKFLINHASL-TLSTLTVTSAHPEDSSFYICSALAGSG 101
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 12/37 (32%), Positives = 20/37 (54%)
Query: 24 VAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLHLA 60
+AK G SV++EC + T+ W R F + + +A
Sbjct: 12 IAKSGTSVKIECRSLDFQATTMFWYRQFPKQSLMLMA 48
>pdb|1L6Z|A Chain A, Crystal Structure Of Murine Ceacam1a[1,4]: A Coronavirus
Receptor And Cell Adhesion Molecule In The Cea Family
Length = 216
Score = 31.2 bits (69), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 42/112 (37%), Gaps = 14/112 (12%)
Query: 56 RLHLAIPYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI 115
R H+ P T P QV V KE SV L C + I W + ++
Sbjct: 103 RFHVHQPVTQPFLQVTNTTV-----------KELDSVTLTCLSNDIG-ANIQWLFNSQSL 150
Query: 116 LPNGQTIFT--GSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAP 165
+ + S L+I I +ED G Y C N + I++ + F P
Sbjct: 151 QLTERMTLSQNNSILRIDPIKREDAGEYQCEISNPVSVRRSNSIKLDIIFDP 202
>pdb|1FL3|H Chain H, Crystal Structure Of The Blue Fluorescent Antibody (19g2)
In Complex With Stilbene Hapten At 277k
pdb|1FL3|A Chain A, Crystal Structure Of The Blue Fluorescent Antibody (19g2)
In Complex With Stilbene Hapten At 277k
Length = 208
Score = 30.8 bits (68), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 35/152 (23%), Positives = 52/152 (34%), Gaps = 31/152 (20%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISWRRE--------NNAILPNGQTIFTGST------- 127
+ K G S++L C A G +SW R+ +I G T + S
Sbjct: 10 LVKPGGSLKLSCTASGITFSRYIMSWVRQIPEKRLEWVASISSGGITYYPDSVAGRFTIS 69
Query: 128 ---------LQIPRITKEDRGAYYCVAQNG---IGRGARRKIEVKVEFAPIVTVQSTRIG 175
LQ+ + ED YYC G G+G + P V + G
Sbjct: 70 RDNVRNILYLQMSSLRSEDTALYYCARGQGRPYWGQGTSVTVSAAKTTPPSVYPAAPGCG 129
Query: 176 QALHHDMDLDCHIEAY-PHPI-LYWAKDGEIV 205
+ L C ++ Y P P+ + W G V
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTVTWNSGGSSV 161
>pdb|3S62|L Chain L, Structure Of Fab Fragment Of Malaria Transmission Blocking
Antibody 2a8 Against P. Vivax P25 Protein
Length = 213
Score = 30.8 bits (68), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 58/151 (38%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTIFTG---- 125
++L SP + A G+ V + C A + + W ++ + P + + +G
Sbjct: 2 IVLTQSPAIMSASPGEKVTMTCSASSS-VSYMHWYQQKSGTSPKRWIYDTSKLASGVPAR 60
Query: 126 ---------STLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
+L I + ED YYC + N G K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTISSMEAEDAATYYCQQWSSNPPTFGGGTKLELKRADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|3OJM|B Chain B, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr2b Harboring P253r Apert Mutation
Length = 231
Score = 30.8 bits (68), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 31/74 (41%), Gaps = 5/74 (6%)
Query: 82 QLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI-----LPNGQTIFTGSTLQIPRITKE 136
+L +V+ C A G+P+PT+ W + + + +L + +
Sbjct: 27 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 86
Query: 137 DRGAYYCVAQNGIG 150
D+G Y CV +N G
Sbjct: 87 DKGNYTCVVENEYG 100
Score = 30.8 bits (68), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 20/38 (52%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLH 58
+L +V+ C A G+P+PT+ W +N K + H
Sbjct: 27 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEH 64
>pdb|1SEQ|L Chain L, Fab Mnac13
Length = 213
Score = 30.8 bits (68), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 35/152 (23%), Positives = 54/152 (35%), Gaps = 24/152 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP----------------- 117
++L SP + A G SV L C A + + W ++ + P
Sbjct: 2 IVLTQSPAIMSASLGSSVTLTCSASS-SVSYMHWYQQKSGTSPVLLIYTTSNLASGVPSR 60
Query: 118 -NGQTIFTGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
+G T +L I + D YYC + G K+E+K + AP V++
Sbjct: 61 FSGSGSGTFYSLTISSVEASDAADYYCHQWSSYPWTFGGGTKLEIKRADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDGE 203
Q + C + YP I W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKSINSKWKIDGS 152
>pdb|1CDY|A Chain A, Structure Of T-Cell Surface Glycoprotein Cd4 Mutant With
Gly 47 Replaced By Ser
Length = 178
Score = 30.8 bits (68), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 110 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 163
Query: 147 NGIGRGARRKIEVKVEFAPI 166
N ++K+E K++ +
Sbjct: 164 N------QKKVEFKIDIVVL 177
>pdb|1CDU|A Chain A, Structure Of T-Cell Surface Glycoprotein Cd4 Mutant With
Phe 43 Replaced By Val
Length = 178
Score = 30.8 bits (68), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 110 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 163
Query: 147 NGIGRGARRKIEVKVEFAPI 166
N ++K+E K++ +
Sbjct: 164 N------QKKVEFKIDIVVL 177
>pdb|1CDI|A Chain A, Structures Of An Hiv And Mhc Binding Fragment From Human
Cd4 As Refined In Two Crystal Lattices
Length = 179
Score = 30.8 bits (68), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 111 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 164
Query: 147 NGIGRGARRKIEVKVEFAPI 166
N ++K+E K++ +
Sbjct: 165 N------QKKVEFKIDIVVL 178
>pdb|1JL4|D Chain D, Crystal Structure Of The Human Cd4 N-Terminal Two Domain
Fragment Complexed To A Class Ii Mhc Molecule
pdb|1CDH|A Chain A, Structures Of An Hiv And Mhc Binding Fragment From Human
Cd4 As Refined In Two Crystal Lattices
pdb|1CDJ|A Chain A, Structure Of T-Cell Surface Glycoprotein Cd4
Length = 178
Score = 30.8 bits (68), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 110 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 163
Query: 147 NGIGRGARRKIEVKVEFAPI 166
N ++K+E K++ +
Sbjct: 164 N------QKKVEFKIDIVVL 177
>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 = 30.8 bits (68), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 57/151 (37%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+ + SP G++V + C A ++W ++ P
Sbjct: 2 IQMTQSPASLSVSVGETVTITCRASEIIYSNLAWYQQKQGKSPQLLVYSATNLAEGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L+I + ED G+YYC N G K+E+K + AP V++
Sbjct: 62 FSGSGSGTQYSLKINSLQSEDFGSYYCQHFWGNPWTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3OJ2|C Chain C, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr2b Harboring The A172f Pfeiffer Syndrome Mutation
pdb|3OJ2|D Chain D, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr2b Harboring The A172f Pfeiffer Syndrome Mutation
Length = 231
Score = 30.8 bits (68), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 16/65 (24%), Positives = 29/65 (44%), Gaps = 5/65 (7%)
Query: 91 SVQLECHAEGHPIPTISWRRENNAI-----LPNGQTIFTGSTLQIPRITKEDRGAYYCVA 145
+V+ C A G+P+PT+ W + + + +L + + D+G Y CV
Sbjct: 36 TVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVV 95
Query: 146 QNGIG 150
+N G
Sbjct: 96 ENEYG 100
Score = 30.4 bits (67), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 11/29 (37%), Positives = 18/29 (62%)
Query: 30 SVQLECHAEGHPIPTISWRRNFKRLGRLH 58
+V+ C A G+P+PT+ W +N K + H
Sbjct: 36 TVKFRCPAGGNPMPTMRWLKNGKEFKQEH 64
>pdb|1GC1|C Chain C, Hiv-1 Gp120 Core Complexed With Cd4 And A Neutralizing
Human Antibody
pdb|1G9M|C Chain C, Hiv-1 Hxbc2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1G9N|C Chain C, Hiv-1 Yu2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1RZJ|C Chain C, Hiv-1 Hxbc2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1RZK|C Chain C, Hiv-1 Yu2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
Length = 185
Score = 30.8 bits (68), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 110 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 163
Query: 147 NGIGRGARRKIEVKVEFAPI 166
N ++K+E K++ +
Sbjct: 164 N------QKKVEFKIDIVVL 177
>pdb|3UTZ|A Chain A, Endogenous-Like Inhibitory Antibodies Targeting Activated
Metalloproteinase Motifs Show Therapeutic Potential
pdb|3UTZ|D Chain D, Endogenous-Like Inhibitory Antibodies Targeting Activated
Metalloproteinase Motifs Show Therapeutic Potential
pdb|3UTZ|E Chain E, Endogenous-Like Inhibitory Antibodies Targeting Activated
Metalloproteinase Motifs Show Therapeutic Potential
Length = 219
Score = 30.8 bits (68), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
T TL+I R+ ED G YYC + + G+ K+E+K
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQASHVPPTFGSGTKLEIK 112
>pdb|2XKN|B Chain B, Crystal Structure Of The Fab Fragment Of The Anti-Egfr
Antibody 7a7
pdb|2XKN|D Chain D, Crystal Structure Of The Fab Fragment Of The Anti-Egfr
Antibody 7a7
Length = 216
Score = 30.8 bits (68), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 51/143 (35%), Gaps = 32/143 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISW-------RRENNAILPNGQTI----------FTG 125
+ K G S++L C A G +SW R E A + +G + FT
Sbjct: 11 LVKPGGSLKLSCAASGFTFSRYAMSWVRQTPEKRLEWVATISSGGSYSYYPDSVKGRFTI 70
Query: 126 S--------TLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTVQSTR 173
S LQ+ + ED YYC +G G+G + P V +
Sbjct: 71 SRDNVKNTLYLQMSSLRSEDTAMYYCARDSGGFAYWGQGTLVTVSAAKTTPPSVYPLAPV 130
Query: 174 IGQALHHDMDLDCHIEAY-PHPI 195
G + L C ++ Y P P+
Sbjct: 131 CGDTTGSSVTLGCLVKGYFPEPV 153
>pdb|1K4D|A Chain A, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
K+
pdb|1K4C|A Chain A, Potassium Channel Kcsa-Fab Complex In High Concentration
Of K+
pdb|1R3I|H Chain H, Potassium Channel Kcsa-Fab Complex In Rb+
pdb|1R3J|B Chain B, Potassium Channel Kcsa-Fab Complex In High Concentration
Of Tl+
pdb|1R3K|B Chain B, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
Tl+
pdb|1R3L|B Chain B, Potassium Channel Kcsa-Fab Complex In Cs+
pdb|1S5H|B Chain B, Potassium Channel Kcsa-Fab Complex T75c Mutant In K+
pdb|2BOB|A Chain A, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetrabutylammonium (Tba)
pdb|2BOC|A Chain A, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetraethylarsonium (Teas)
pdb|1ZWI|A Chain A, Structure Of Mutant Kcsa Potassium Channel
pdb|2ATK|A Chain A, Structure Of A Mutant Kcsa K+ Channel
pdb|2H8P|A Chain A, Structure Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HFE|A Chain A, Rb+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HG5|A Chain A, Cs+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HJF|A Chain A, Potassium Channel Kcsa-Fab Complex With Tetrabutylammonium
(Tba)
pdb|2IH1|A Chain A, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2IH3|A Chain A, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2DWD|A Chain A, Crystal Structure Of Kcsa-Fab-Tba Complex In Tl+
pdb|2DWE|A Chain A, Crystal Structure Of Kcsa-Fab-Tba Complex In Rb+
pdb|2HVJ|A Chain A, Crystal Structure Of Kcsa-fab-tba Complex In Low K+
pdb|2HVK|A Chain A, Crystal Structure Of The Kcsa-Fab-Tba Complex In High K+
pdb|2ITC|A Chain A, Potassium Channel Kcsa-Fab Complex In Sodium Chloride
pdb|2ITD|A Chain A, Potassium Channel Kcsa-Fab Complex In Barium Chloride
pdb|2NLJ|B Chain B, Potassium Channel Kcsa(M96v)-Fab Complex In Kcl
pdb|2P7T|A Chain A, Crystal Structure Of Kcsa Mutant
pdb|2JK5|A Chain A, Potassium Channel Kcsa In Complex With Tetrabutylammonium
In High K
pdb|2W0F|A Chain A, Potassium Channel Kcsa-Fab Complex With Tetraoctylammonium
pdb|3GB7|A Chain A, Potassium Channel Kcsa-Fab Complex In Li+
pdb|3IGA|A Chain A, Potassium Channel Kcsa-Fab Complex In Li+ And K+
pdb|3F5W|A Chain A, Kcsa Potassium Channel In The Open-Inactivated State With
32 A Opening At T112
pdb|3F7V|A Chain A, Kcsa Potassium Channel In The Open-Inactivated State With
23 A Opening At T112
pdb|3F7Y|A Chain A, Kcsa Potassium Channel In The Partially Open State With 17
A Opening At T112
pdb|3FB5|A Chain A, Kcsa Potassium Channel In The Partially Open State With
14.5 A Opening At T112
pdb|3FB6|A Chain A, Kcsa Potassium Channel In The Partially Open State With 16
A Opening At T112
pdb|3FB8|A Chain A, Kcsa Potassium Channel In The Open-Conductive State With
20 At T112 In The Presence Of Rb+ Ion
pdb|3HPL|A Chain A, Kcsa E71h-F103a Mutant In The Closed State
pdb|3FB7|A Chain A, Open Kcsa Potassium Channel In The Presence Of Rb+ Ion
pdb|3OR6|A Chain A, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71q
pdb|3OR7|A Chain A, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71i
pdb|3OGC|A Chain A, Kcsa E71a Variant In Presence Of Na+
pdb|3STL|A Chain A, Kcsa Potassium Channel Mutant Y82c With Cadmium Bound
pdb|3STZ|A Chain A, Kcsa Potassium Channel Mutant Y82c With Nitroxide Spin
Label
Length = 219
Score = 30.8 bits (68), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 34/149 (22%), Positives = 57/149 (38%), Gaps = 34/149 (22%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-GQTIF------ 123
P + K G SV+L C A G+ + I W ++ I+P+ G+ +
Sbjct: 7 PGAELVKPGASVKLSCKASGYTFTSDWIHWVKQRPGHGLEWIGEIIPSYGRANYNEKIQK 66
Query: 124 ----------TGSTLQIPRITKEDRGAYYCVAQNGIGR----GARRKIEVKVEFAPIVTV 169
+ + +Q+ +T ED YYC + G G GA + V +V
Sbjct: 67 KATLTADKSSSTAFMQLSSLTSEDSAVYYCARERGDGYFAVWGAGTTVTVSSAKTTPPSV 126
Query: 170 QSTRIGQALHHD--MDLDCHIEAY-PHPI 195
G A + + L C ++ Y P P+
Sbjct: 127 YPLAPGSAAQTNSMVTLGCLVKGYFPEPV 155
>pdb|2NXY|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein(S334a) Complexed With
Cd4 And Antibody 17b
pdb|2NXZ|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (t257s, S334a, S375w)
Complexed With Cd4 And Antibody 17b
pdb|2NY0|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (M95w, W96c, T257s,
V275c, S334a, S375w, A433m) Complexed With Cd4 And
Antibody 17b
pdb|2NY1|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (I109c, T257s, S334a,
S375w, Q428c) Complexed With Cd4 And Antibody 17b
pdb|2NY2|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (T123c, T257s, S334a,
S375w, G431c) Complexed With Cd4 And Antibody 17b
pdb|2NY3|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (K231c, T257s, E267c,
S334a, S375w) Complexed With Cd4 And Antibody 17b
pdb|2NY4|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (K231c, T257s, E268c,
S334a, S375w) Complexed With Cd4 And Antibody 17b
pdb|2NY5|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (m95w, W96c, I109c,
T257s, V275c, S334a, S375w, Q428c, A433m) Complexed With
Cd4 And Antibody 17b
pdb|2NY6|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (m95w, W96c, I109c,
T123c, T257s, V275c,s334a, S375w, Q428c, G431c)
Complexed With Cd4 And Antibody 17b
pdb|3JWD|C Chain C, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
pdb|3JWD|D Chain D, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
pdb|3JWO|C Chain C, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
Length = 184
Score = 30.8 bits (68), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 111 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 164
Query: 147 NGIGRGARRKIEVKVEFAPI 166
N ++K+E K++ +
Sbjct: 165 N------QKKVEFKIDIVVL 178
>pdb|1YY8|A Chain A, Crystal Structure Of The Fab Fragment From The Monoclonal
Antibody CetuximabERBITUXIMC-C225
pdb|1YY8|C Chain C, Crystal Structure Of The Fab Fragment From The Monoclonal
Antibody CetuximabERBITUXIMC-C225
pdb|1YY9|C Chain C, Structure Of The Extracellular Domain Of The Epidermal
Growth Factor Receptor In Complex With The Fab Fragment
Of Cetuximab/erbitux/imc- C225
Length = 213
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 31/100 (31%), Positives = 43/100 (43%), Gaps = 13/100 (13%)
Query: 74 PVILNNSPQLSVA---KEGQSVQLECH-----AEGHPIPTISWRRENNAILPN---GQTI 122
PVIL+ SP V+ + QS+ H G P I + E+ + +P+ G
Sbjct: 8 PVILSVSPGERVSFSCRASQSIGTNIHWYQQRTNGSPRLLIKYASESISGIPSRFSGSGS 67
Query: 123 FTGSTLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
T TL I + ED YYC N GA K+E+K
Sbjct: 68 GTDFTLSINSVESEDIADYYCQQNNNWPTTFGAGTKLELK 107
>pdb|3S4S|G Chain G, Crystal Structure Of Cd4 Mutant Bound To Hla-Dr1
pdb|3S4S|H Chain H, Crystal Structure Of Cd4 Mutant Bound To Hla-Dr1
Length = 191
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 114 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 167
Query: 147 NGIGRGARRKIEVKVEFAPI 166
N ++K+E K++ +
Sbjct: 168 N------QKKVEFKIDIVVL 181
>pdb|2G2R|H Chain H, Green-Fluorescent Antibody 11g10 In Complex With Its
Hapten (Nitro-Stilbene Derivative)
pdb|2G2R|B Chain B, Green-Fluorescent Antibody 11g10 In Complex With Its
Hapten (Nitro-Stilbene Derivative)
Length = 219
Score = 30.8 bits (68), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 36/149 (24%), Positives = 58/149 (38%), Gaps = 35/149 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRENNA--------ILP-NGQTI----FTG-STL 128
+ K G S+++ C A G+ ++W ++++ I P NG T F G +TL
Sbjct: 11 LVKPGTSLKMSCKASGYTFTAYYMNWMKQSHGKRLEWIAVINPYNGFTTYNQKFKGKATL 70
Query: 129 QIPR-----------ITKEDRGAYYCVAQNGI------GRGARRKIEVKVEFAPIVTVQS 171
+ + +T ED YYCV + G G + AP V +
Sbjct: 71 TVDKSSNTAYMDLNSLTSEDSAVYYCVPYDYAADRVYWGHGTLVTVSTAKTTAPSVYPLA 130
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
G + L C ++ Y P P+ L W
Sbjct: 131 PVCGGTTGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|2OSL|H Chain H, Crystal Structure Of Rituximab Fab In Complex With An
Epitope Peptide
pdb|2OSL|A Chain A, Crystal Structure Of Rituximab Fab In Complex With An
Epitope Peptide
Length = 224
Score = 30.8 bits (68), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 36/91 (39%), Gaps = 27/91 (29%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-NGQTIF------ 123
P + K G SV++ C A G+ + + W ++ AI P NG T +
Sbjct: 7 PGAELVKPGASVKMSCKASGYTFTSYNMHWVKQTPGRGLEWIGAIYPGNGDTSYNQKFKG 66
Query: 124 ----------TGSTLQIPRITKEDRGAYYCV 144
+ + +Q+ +T ED YYC
Sbjct: 67 KATLTADKSSSTAYMQLSSLTSEDSAVYYCA 97
>pdb|1C1E|L Chain L, Crystal Structure Of A Diels-alderase Catalytic Antibody
1e9 In Complex With Its Hapten
Length = 216
Score = 30.8 bits (68), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 34/80 (42%), Gaps = 5/80 (6%)
Query: 128 LQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTRIGQALHHDMDL 184
L+I R+ ED G Y+C G K+E+K + AP V++ Q +
Sbjct: 78 LKISRVEAEDLGVYFCFQSTHFFPTFGGGTKLEIKSADAAPTVSIFPPSSEQLTSGGASV 137
Query: 185 DCHI-EAYPHPI-LYWAKDG 202
C + YP I + W DG
Sbjct: 138 VCFLNNFYPKDINVKWKIDG 157
>pdb|2ZNW|A Chain A, Crystal Structure Of Scfv10 In Complex With Hen Egg
Lysozyme
pdb|2ZNW|B Chain B, Crystal Structure Of Scfv10 In Complex With Hen Egg
Lysozyme
Length = 242
Score = 30.8 bits (68), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 40/105 (38%), Gaps = 22/105 (20%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV L C A + W ++ + P Q+I
Sbjct: 2 IVLTQSPATLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKYASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG----IGRGARRKI 157
F+GS TL I + ED G Y+C N G G + +I
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEI 106
>pdb|2EH8|L Chain L, Crystal Structure Of The Complex Of Humanized Kr127 Fab
And Pres1 Peptide Epitope
Length = 218
Score = 30.8 bits (68), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 8/46 (17%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS TL+I R+ ED G YYCV + G K+E+K
Sbjct: 67 FSGSGSGTDFTLKISRVEAEDVGVYYCVQGTHFPQTFGGGTKVEIK 112
>pdb|2EH7|L Chain L, Crystal Structure Of Humanized Kr127 Fab
Length = 219
Score = 30.8 bits (68), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 24/46 (52%), Gaps = 8/46 (17%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS TL+I R+ ED G YYCV + G K+E+K
Sbjct: 67 FSGSGSGTDFTLKISRVEAEDVGVYYCVQGTHFPQTFGGGTKVEIK 112
>pdb|3O3U|N Chain N, Crystal Structure Of Human Receptor For Advanced Glycation
Endproducts (Rage)
Length = 581
Score = 30.8 bits (68), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 23/98 (23%), Positives = 43/98 (43%), Gaps = 10/98 (10%)
Query: 115 ILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKV---EFAPIVTVQS 171
+LPNG +L +P + +D G + C A N G+ + V+V P + +
Sbjct: 428 VLPNG-------SLFLPAVGIQDEGIFRCQAMNRNGKETKSNYRVRVYQIPGKPEIVDSA 480
Query: 172 TRIGQALHHDMDLDCHIEAYPHPILYWAKDGEIVVNDE 209
+ + + + + +YP L W DG+ +V +E
Sbjct: 481 SELTAGVPNKVGTCVSEGSYPAGTLSWHLDGKPLVPNE 518
>pdb|2B4C|C Chain C, Crystal Structure Of Hiv-1 Jr-fl Gp120 Core Protein
Containing The Third Variable Region (v3) Complexed With
Cd4 And The X5 Antibody
pdb|2QAD|B Chain B, Structure Of Tyrosine-Sulfated 412d Antibody Complexed
With Hiv-1 Yu2 Gp120 And Cd4
pdb|2QAD|F Chain F, Structure Of Tyrosine-Sulfated 412d Antibody Complexed
With Hiv-1 Yu2 Gp120 And Cd4
Length = 181
Score = 30.8 bits (68), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 110 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 163
Query: 147 NGIGRGARRKIEVKVEFAPI 166
N ++K+E K++ +
Sbjct: 164 N------QKKVEFKIDIVVL 177
>pdb|3O2D|A Chain A, Crystal Structure Of Hiv-1 Primary Receptor Cd4 In Complex
With A Potent Antiviral Antibody
Length = 188
Score = 30.8 bits (68), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 110 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 163
Query: 147 NGIGRGARRKIEVKVEFAPI 166
N ++K+E K++ +
Sbjct: 164 N------QKKVEFKIDIVVL 177
>pdb|1YEC|L Chain L, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.3)
pdb|1YEF|L Chain L, Structure Of Igg2a Fab Fragment (D2.3) Complexed With
Substrate Analogue
pdb|1YEG|L Chain L, Structure Of Igg2a Fab Fragment (D2.3) Complexed With
Reaction Product
pdb|1YEH|L Chain L, Structure Of Igg2a Fab Fragment
Length = 219
Score = 30.8 bits (68), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 37/85 (43%), Gaps = 7/85 (8%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQN----GIGRGARRKIEVKVEFAPIVTVQSTRIGQALH 179
T TL+I R+ D G YYCV G G + +I ++ + AP V++ Q
Sbjct: 74 TDFTLKISRVEAADLGVYYCVQGTHFPYTFGGGTKLEI-LRGDAAPTVSIFPPSSEQLTS 132
Query: 180 HDMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 133 GGASVVCFLNNFYPKDINVKWKIDG 157
>pdb|3CD4|A Chain A, Refinement And Analysis Of The First Two Domains Of Human
Cd4
Length = 182
Score = 30.8 bits (68), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 110 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 163
Query: 147 NGIGRGARRKIEVKVEFAPI 166
N ++K+E K++ +
Sbjct: 164 N------QKKVEFKIDIVVL 177
>pdb|3L5Y|L Chain L, Crystal Structure Of The Complex Between Il-13 And M1295
Fab
Length = 213
Score = 30.8 bits (68), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 47/116 (40%), Gaps = 22/116 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
++L SP G+ L C A ++W ++ ++ +G T+
Sbjct: 2 IVLTQSPATLSLSPGERATLSCRASKSISKYLAWYQQKPGQAPRLLIYSGSTLQSGIPAR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQN---GIGRGARRKIEVKVEFAPIVTV 169
F+GS TL I + ED YYC + G+G + +I+ V AP V +
Sbjct: 62 FSGSGSGTDFTLTISSLEPEDFAVYYCQQHDYPYTFGQGTKLEIKRTVA-APSVFI 116
>pdb|3LQA|C Chain C, Crystal Structure Of Clade C Gp120 In Complex With Scd4
And
Length = 192
Score = 30.8 bits (68), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 110 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 163
Query: 147 NGIGRGARRKIEVKVEFAPI 166
N ++K+E K++ +
Sbjct: 164 N------QKKVEFKIDIVVL 177
>pdb|3A6C|L Chain L, Crystal Structure Of Hyhel-10 Fv Mutant Ln92d Complexed
With White Lysozyme
Length = 107
Score = 30.8 bits (68), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 41/106 (38%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
++L SP G SV L C A + W ++ + P Q+I
Sbjct: 2 IVLTQSPATLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKYASQSISGIPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
F+GS TL I + ED G Y+C + G K+E+K
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQSDSWPYTFGGGTKLEIK 107
>pdb|3DIF|A Chain A, Crystal Structure Of Fabox117
pdb|3DIF|C Chain C, Crystal Structure Of Fabox117
Length = 214
Score = 30.8 bits (68), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 52/151 (34%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+++ SP+ G V + C A ++W ++ P
Sbjct: 2 IVITQSPKFMSTSVGDRVSITCKASQDVSTAVAWFQQKPGQSPKLLIYSASYRYTGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS T I + ED YYC G K+E+K + AP V++
Sbjct: 62 FTGSGSGTDFTFTISSVQAEDLAVYYCQQHYSTPWTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3V4P|L Chain L, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1
pdb|3V4P|N Chain N, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1
pdb|3V4V|L Chain L, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1 And Ro0505376
pdb|3V4V|N Chain N, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1 And Ro0505376
Length = 217
Score = 30.8 bits (68), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 36/85 (42%), Gaps = 5/85 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL+I I ED G YYC+ G K+E+K + AP V++ Q
Sbjct: 74 TDFTLKISTIKPEDLGMYYCLQGTHQPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 133
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDGE 203
+ C + YP I + W DG
Sbjct: 134 GASVVCFLNNFYPKDINVKWNIDGS 158
>pdb|1GAF|H Chain H, 48g7 Hybridoma Line Fab Complexed With Hapten 5-(Para-
Nitrophenyl Phosphonate)-Pentanoic Acid
pdb|1HKL|H Chain H, Free And Liganded Form Of An Esterolytic Catalytic
Antibody
Length = 217
Score = 30.4 bits (67), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 33/76 (43%), Gaps = 13/76 (17%)
Query: 128 LQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVKVEFAPIV-----TVQSTRIGQALHH 180
LQ+ +T ED YYC + GI G+G + P V + +ST G A
Sbjct: 81 LQLSSLTSEDTAVYYCASYYGIYWGQGTTLTVSSASTKGPSVFPLAPSSKSTSGGTAA-- 138
Query: 181 DMDLDCHIEAY-PHPI 195
L C ++ Y P P+
Sbjct: 139 ---LGCLVKDYFPEPV 151
>pdb|1CF8|H Chain H, Convergence Of Catalytic Antibody And Terpene Cyclase
Mechanisms: Polyene Cyclization Directed By
Carbocation-pi Interactions
Length = 218
Score = 30.4 bits (67), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 30/138 (21%), Positives = 47/138 (34%), Gaps = 31/138 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST------------ 127
+ K QS+ L C G+ I + +W R+ N + G ++G T
Sbjct: 11 LVKPSQSLSLTCTVTGYSITSGYAWNWIRQFPGNKLEWMGYIRYSGDTRYNPSLKSRISI 70
Query: 128 ----------LQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTVQSTR 173
LQ+ +T ED YYC G G+G + P V +
Sbjct: 71 TRDTSKNQFFLQLNSVTTEDTATYYCAIGYGNSDYWGQGTLVTVSAAKTTPPSVYPLAPG 130
Query: 174 IGQALHHDMDLDCHIEAY 191
G + L C ++ Y
Sbjct: 131 CGDTTGSSVTLGCLVKGY 148
>pdb|1HQ4|B Chain B, Structure Of Native Catalytic Antibody Ha5-19a4
pdb|1HQ4|D Chain D, Structure Of Native Catalytic Antibody Ha5-19a4
Length = 218
Score = 30.4 bits (67), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 30/138 (21%), Positives = 47/138 (34%), Gaps = 31/138 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST------------ 127
+ K QS+ L C G+ I + +W R+ N + G ++G T
Sbjct: 11 LVKPSQSLSLTCTVTGYSITSGYAWNWIRQFPGNKLEWMGYIRYSGDTRYNPSLKSRISI 70
Query: 128 ----------LQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTVQSTR 173
LQ+ +T ED YYC G G+G + P V +
Sbjct: 71 TRDTSKNQFFLQLNSVTTEDTATYYCAIGYGNSDYWGQGTLVTVSAAKTTPPSVYPLAPG 130
Query: 174 IGQALHHDMDLDCHIEAY 191
G + L C ++ Y
Sbjct: 131 CGDTTGSSVTLGCLVKGY 148
>pdb|3CMO|H Chain H, Hiv Neutralizing Monoclonal Antibody Yz18
pdb|3CMO|Y Chain Y, Hiv Neutralizing Monoclonal Antibody Yz18
Length = 222
Score = 30.4 bits (67), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 31/150 (20%), Positives = 53/150 (35%), Gaps = 39/150 (26%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+A+ G SV++ C A G+ + + W ++ AI P G+
Sbjct: 11 LARPGASVKMSCKASGYTFTSYWMHWVKQRPGQGLEWIGAIYPGNSDTSYNQKFKGKAKL 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQ-----------NGIGRGARRKIEVKVEFAPI 166
T T +++ +T ED YYC + G+G + AP
Sbjct: 71 TAVTSASTAYMELSSLTNEDSAVYYCTRWPHYYGGSRYYFDYWGQGTTLTVSSAKTTAPS 130
Query: 167 VTVQSTRIGQALHHDMDLDCHIEAY-PHPI 195
V + G + L C ++ Y P P+
Sbjct: 131 VYPLAPVCGDTTGSSVTLGCLVKGYFPEPV 160
>pdb|1S5I|H Chain H, Fab (Lnkb-2) Of Monoclonal Antibody To Human
Interleukin-2, Crystal Structure
Length = 220
Score = 30.4 bits (67), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 31/145 (21%), Positives = 52/145 (35%), Gaps = 34/145 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST------------ 127
+ K QS+ L C G+ I + +W R+ N + G ++GST
Sbjct: 11 LVKPSQSLSLTCTVTGYSITSDYAWNWIRQFPGNKLEWMGYITYSGSTGYNPSLKSRISI 70
Query: 128 ----------LQIPRITKEDRGAYYCVAQNGI------GRGARRKIEVKVEFAPIVTVQS 171
LQ+ +T ED YYC + + G+G + P V +
Sbjct: 71 TRDTSKNQFFLQLNSVTTEDTATYYCASYDDYTWFTYWGQGTLVTVSAAKTTPPSVYPLA 130
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 PGSAAQTNSMVTLGCLVKGYFPEPV 155
>pdb|3S5L|G Chain G, Crystal Structure Of Cd4 Mutant Bound To Hla-Dr1
pdb|3S5L|H Chain H, Crystal Structure Of Cd4 Mutant Bound To Hla-Dr1
Length = 191
Score = 30.4 bits (67), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 13/80 (16%)
Query: 88 EGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC-VAQ 146
+GQS+ L + P++ R P G+ I G TL + ++ +D G + C V Q
Sbjct: 114 QGQSLTLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTCTVLQ 167
Query: 147 NGIGRGARRKIEVKVEFAPI 166
N ++K+E K++ +
Sbjct: 168 N------QKKVEFKIDIVVL 181
>pdb|1AXS|H Chain H, Mature Oxy-Cope Catalytic Antibody With Hapten
pdb|1AXS|B Chain B, Mature Oxy-Cope Catalytic Antibody With Hapten
Length = 221
Score = 30.4 bits (67), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 34/87 (39%), Gaps = 27/87 (31%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SV++ C A G+ + I W ++ ILP G+ F
Sbjct: 11 LMKPGASVKISCKATGYTFSSFWIEWVKQRPGHGLEWIGEILPGSGGTHYNEKFKGKATF 70
Query: 124 TG------STLQIPRITKEDRGAYYCV 144
T + +Q+ +T ED YYC
Sbjct: 71 TADKSSNTAYMQLSSLTSEDSAVYYCA 97
>pdb|3SE9|L Chain L, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc- Pg04 In Complex With Hiv-1 Gp120
pdb|4I3R|L Chain L, Crystal Structure Of The Outer Domain Of Hiv-1 Gp120 In
Complex With Vrc-pg04 Space Group P3221
pdb|4I3S|L Chain L, Crystal Structure Of The Outer Domain Of Hiv-1 Gp120 In
Complex With Vrc-pg04 Space Group P21
Length = 208
Score = 30.4 bits (67), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 31/115 (26%), Positives = 44/115 (38%), Gaps = 25/115 (21%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAE--GHPIPTISWRRENNAILPNGQTI---------- 122
++L SP G++ L C A GH ++W ++ P
Sbjct: 2 IVLTQSPGTLSLSPGETASLSCTAASYGH----MTWYQKKPGQPPKLLIFATSKRASGIP 57
Query: 123 --FTGS------TLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTV 169
F+GS TL I R+ ED YYC G+G R +I V AP V +
Sbjct: 58 DRFSGSQFGKQYTLTITRMEPEDFARYYCQQLEFFGQGTRLEIRRTVA-APSVFI 111
>pdb|1F90|H Chain H, Fab Fragment Of Monoclonal Antibody (Lnkb-2) Against Human
Interleukin-2 In Complex With Antigenic Peptide
pdb|1F8T|H Chain H, Fab (Lnkb-2) Of Monoclonal Antibody, Crystal Structure
Length = 220
Score = 30.4 bits (67), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 31/145 (21%), Positives = 52/145 (35%), Gaps = 34/145 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST------------ 127
+ K QS+ L C G+ I + +W R+ N + G ++GST
Sbjct: 11 LVKPSQSLSLTCTVTGYSITSDYAWNWIRQFPGNKLEWMGYITYSGSTGYNPSLKSRISI 70
Query: 128 ----------LQIPRITKEDRGAYYCVAQNGI------GRGARRKIEVKVEFAPIVTVQS 171
LQ+ +T ED YYC + + G+G + P V +
Sbjct: 71 TRDTSKNQFFLQLNSVTTEDTATYYCASYDDYTWFTYWGQGTLVTVSAAKTTPPSVFPLA 130
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 PGSAAQTNSMVTLGCLVKGYFPEPV 155
>pdb|1D5B|B Chain B, Unliganded Mature Oxy-Cope Catalytic Antibody
pdb|1D5B|H Chain H, Unliganded Mature Oxy-Cope Catalytic Antibody
Length = 221
Score = 30.4 bits (67), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 34/87 (39%), Gaps = 27/87 (31%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-----------GQTIF 123
+ K G SV++ C A G+ + I W ++ ILP G+ F
Sbjct: 11 LMKPGASVKISCKATGYTFSSFWIEWVKQRPGHGLEWIGEILPGSGGTHYNEKFKGKATF 70
Query: 124 TG------STLQIPRITKEDRGAYYCV 144
T + +Q+ +T ED YYC
Sbjct: 71 TADKSSNTAYMQLSSLTSEDSAVYYCA 97
>pdb|2CR3|A Chain A, Solution Structure Of The First Ig-Like Domain Of Human
Fibroblast Growth Factor Receptor 1
Length = 99
Score = 30.4 bits (67), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 15/59 (25%), Positives = 27/59 (45%), Gaps = 1/59 (1%)
Query: 89 GQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQN 147
G +QL C + +I+W R+ + + +T TG +++ D G Y CV +
Sbjct: 18 GDLLQLRCRLR-DDVQSINWLRDGVQLAESNRTRITGEEVEVQDSVPADSGLYACVTSS 75
>pdb|1CLY|L Chain L, Igg Fab (Human Igg1, Kappa) Chimeric Fragment (Cbr96)
Complexed With Lewis Y Nonoate Methyl Ester
pdb|1UCB|L Chain L, Structure Of Uncomplexed Fab Compared To Complex (1cly,
1clz)
Length = 219
Score = 30.4 bits (67), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
T TL+I R+ ED G YYC + + G+ K+E+K
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPFTFGSGTKLEIK 112
>pdb|1NFD|E Chain E, An Alpha-Beta T Cell Receptor (Tcr) Heterodimer In Complex
With An Anti-Tcr Fab Fragment Derived From A Mitogenic
Antibody
pdb|1NFD|G Chain G, An Alpha-Beta T Cell Receptor (Tcr) Heterodimer In Complex
With An Anti-Tcr Fab Fragment Derived From A Mitogenic
Antibody
Length = 212
Score = 30.4 bits (67), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 34/146 (23%), Positives = 57/146 (39%), Gaps = 27/146 (18%)
Query: 89 GQSVQLECHAEGHPIPTISW---RRENNAILP---------------NGQTIFTGSTLQI 130
G++V++ C + P W + + N +L +G T T +TL I
Sbjct: 14 GETVKITCSGDQLPKNFAYWFQQKSDKNILLLIYMDNKRPSGIPERFSGSTSGTTATLTI 73
Query: 131 PRITKEDRGAYYCVAQNG------IGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMDL 184
ED AYYC++ G G G + + + +P VTV + + L
Sbjct: 74 SGAQPEDEAAYYCLSSYGDNNDLVFGSGTQLTVLRGPKSSPKVTVFPPSPEELRTNKATL 133
Query: 185 DCHI-EAYP-HPILYWAKDGEIVVND 208
C + + YP + W +G +ND
Sbjct: 134 VCLVNDFYPGSATVTWKANG-ATIND 158
>pdb|1EO8|L Chain L, Influenza Virus Hemagglutinin Complexed With A
Neutralizing Antibody
Length = 210
Score = 30.4 bits (67), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 35/150 (23%), Positives = 58/150 (38%), Gaps = 23/150 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTIFTG---- 125
+IL SP + A G+ V + C A I + W ++ + P + + +G
Sbjct: 2 IILTQSPAIMSASPGEKVTMTCSASSD-ISYMHWYQQKSDTSPKIWIYDTSKLASGVPAR 60
Query: 126 ---------STLQIPRITKEDRGAYYCVAQNGI-GRGARRKIEVK-VEFAPIVTVQSTRI 174
+L I + ED YYC ++ G K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTISTMEAEDAATYYCHQRSSYPTFGGGTKLEIKRADAAPTVSIFPPSK 120
Query: 175 GQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 IQLTSGGASVVCFLNNFYPKDINVKWKIDG 150
>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 = 30.4 bits (67), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 34/155 (21%), Positives = 56/155 (36%), Gaps = 27/155 (17%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP------------------N 118
L P +SV GQ+ ++ C + P SW ++ P +
Sbjct: 4 LTQPPSVSVVP-GQTARISCSGDNIPYEYASWYQQKPGQAPVLVIYGDNNRPSGIPERFS 62
Query: 119 GQTIFTGSTLQIPRITKEDRGAYYCVAQNGI------GRGARRKIEVKVEFAPIVTVQST 172
G +TL I ED YYC + + + G G + + + + AP VT+
Sbjct: 63 GSNSGNTATLTISGTQAEDEADYYCASWDSMTVDGVFGGGTKLTVLGQPKAAPSVTLFPP 122
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDGEIV 205
+ + L C I + YP + + W D V
Sbjct: 123 SSEELQANKATLVCLISDFYPGAVTVAWKADSSPV 157
>pdb|4DTG|L Chain L, Hemostatic Effect Of A Monoclonal Antibody Mab 2021
Blocking The Interaction Between Fxa And Tfpi In A
Rabbit Hemophilia Model
Length = 219
Score = 30.4 bits (67), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 8/46 (17%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS TL+I R+ ED G YYC+ + G K+E+K
Sbjct: 67 FSGSGSGTDFTLKISRVEAEDVGVYYCLQATHFPQTFGGGTKVEIK 112
>pdb|3IY7|A Chain A, Variable Domains Of The Computer Generated Model (Wam) Of
Fab F Fitted Into The Cryoem Reconstruction Of The
Virus- Fab F Complex
Length = 106
Score = 30.4 bits (67), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 29/104 (27%), Positives = 38/104 (36%), Gaps = 19/104 (18%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP--------NGQT------ 121
++ P L A G V L C A + + W ++ P N QT
Sbjct: 1 LMTQIPSLLSASVGDRVTLNCKASHNINKNLEWYQQKLGEAPKLLIYYANNLQTGISSRF 60
Query: 122 ----IFTGSTLQIPRITKEDRGAYYCVAQN-GIGRGARRKIEVK 160
T TL I + ED YYC N G GA K+E+K
Sbjct: 61 SGSGSGTDYTLTISSLQPEDVATYYCYQYNSGHTFGAGTKLELK 104
>pdb|3U0T|C Chain C, Fab-Antibody Complex
pdb|3U0T|A Chain A, Fab-Antibody Complex
Length = 219
Score = 30.4 bits (67), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 26/50 (52%), Gaps = 5/50 (10%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTV 169
T TL+I R+ ED G YYC+ G+G R +I+ V AP V +
Sbjct: 74 TDFTLKISRVEAEDVGVYYCLQGTHYPVLFGQGTRLEIKRTVA-APSVFI 122
>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 = 30.0 bits (66), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T +L I + +ED Y+C N + R G K+E+K + AP V++ Q
Sbjct: 69 TDYSLTISNLEQEDIATYFCQQGNALPRTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 128
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 129 GASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3PP3|L Chain L, Epitope Characterization And Crystal Structure Of Ga101
Provide Insights Into The Molecular Basis For The Type I
TYPE II Distinction Of Anti- Cd20 Antibodies
pdb|3PP3|K Chain K, Epitope Characterization And Crystal Structure Of Ga101
Provide Insights Into The Molecular Basis For The Type I
TYPE II Distinction Of Anti- Cd20 Antibodies
pdb|3PP4|L Chain L, Epitope Characterization And Crystal Structure Of Ga101
Provide Insights Into The Molecular Basis For The Type I
TYPE II Distinction Of Anti- Cd20 Antibodies
Length = 219
Score = 30.0 bits (66), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 22/40 (55%), Gaps = 4/40 (10%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQN---GIGRGARRKIEVK 160
T TL+I R+ ED G YYC AQN G K+E+K
Sbjct: 74 TDFTLKISRVEAEDVGVYYC-AQNLELPYTFGGGTKVEIK 112
>pdb|4HPY|L Chain L, Crystal Structure Of Rv144-elicited Antibody Ch59 In
Complex With V2 Peptide
Length = 215
Score = 30.0 bits (66), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 34/155 (21%), Positives = 58/155 (37%), Gaps = 27/155 (17%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP------------------N 118
L P +SV+ GQ+ ++ C + P W ++ + P +
Sbjct: 5 LTQPPSVSVSP-GQTARITCSGDALPKNYAYWYQQKSGQAPVLVIYEDSKRPSGIPERFS 63
Query: 119 GQTIFTGSTLQIPRITKEDRGAYYCVAQNG------IGRGARRKIEVKVEFAPIVTVQST 172
G + T +TL I ED YYC + + G G + + + + AP VT+
Sbjct: 64 GSSSGTMATLTISGAQVEDEADYYCYSTDSSGNHRVFGGGTKLTVLGQPKAAPSVTLFPP 123
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDGEIV 205
+ + L C I + YP + + W D V
Sbjct: 124 SSEELQANKATLVCLISDFYPGAVTVAWKADSSPV 158
>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 = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 27/117 (23%), Positives = 47/117 (40%), Gaps = 23/117 (19%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+ + SP G++V + C A + ++W ++ P
Sbjct: 2 IQMTQSPASLSVSVGETVTITCRASENIYSNLAWYQQKQGKSPQLLVYAATNLADGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTV 169
F+GS +L+I + ED G+YYC G G G R +I+ + + AP V +
Sbjct: 62 FSGSGSGTQYSLKINSLQSEDFGSYYCQHFWGTPYTFGGGTRLEIK-RADAAPTVFI 117
>pdb|1JFQ|L Chain L, Antigen-Binding Fragment Of The Murine Anti-Phenylarsonate
Antibody 36-71, "fab 36-71"
Length = 215
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T +L I + +ED Y+C N + R G K+E+K + AP V++ Q
Sbjct: 69 TDYSLTISNLEQEDIATYFCQQGNALPRTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 128
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 129 GASVVCFLNNFYPKDINVKWKIDG 152
>pdb|4GAG|H Chain H, Structure Of The Broadly Neutralizing Antibody Ap33 In
Complex With Its Hcv Epitope (E2 Residues 412-423)
pdb|4GAJ|H Chain H, Structure Of The Broadly Neutralizing Antibody Ap33 In
Complex With Its Hcv Epitope (E2 Residues 411-424)
pdb|4GAY|H Chain H, Structure Of The Broadly Neutralizing Antibody Ap33
pdb|4GAY|A Chain A, Structure Of The Broadly Neutralizing Antibody Ap33
Length = 218
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 31/146 (21%), Positives = 50/146 (34%), Gaps = 34/146 (23%)
Query: 84 SVAKEGQSVQLECHAEGHPIPTISW----RRENNAILPNGQTIFTGST------------ 127
S+ K Q++ L C G I + W + N + G ++GST
Sbjct: 10 SLVKPSQTLSLTCSVTGDSITSGYWNWIRKFPGNKLEYMGYISYSGSTYYNLSLRSRISI 69
Query: 128 ----------LQIPRITKEDRGAYYCV-------AQNGIGRGARRKIEVKVEFAPIVTVQ 170
LQ+ +T ED YYC A + G+G + P V
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCALITTTTYAMDYWGQGTSVTVSSAKTTPPSVYPL 129
Query: 171 STRIGQALHHDMDLDCHIEAY-PHPI 195
+ + + L C ++ Y P P+
Sbjct: 130 APGSAAQTNSMVTLGCLVKGYFPEPV 155
>pdb|4ALA|L Chain L, Structure Of Dengue Virus Diii In Complex With Fab 2h12
pdb|4AM0|B Chain B, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
pdb|4AM0|D Chain D, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
pdb|4AM0|F Chain F, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
pdb|4AM0|L Chain L, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
Length = 212
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 32/152 (21%), Positives = 56/152 (36%), Gaps = 25/152 (16%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+++ S + G V + C A + +++W ++ P
Sbjct: 2 IVMTQSQKFMSTSVGDRVSITCKASQNVRTSVAWYQQKPGQSPKALIYLASNRHTGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQ----NGIGRGARRKIEVKVEFAPIVTVQST 172
FTGS TL I + ED Y+C+ G G + +I+ + + AP V++
Sbjct: 62 FTGSGSGTDFTLTISNVQSEDLADYFCLQHWTYPYTFGGGTKLEIK-RADAAPTVSIFPP 120
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1IND|H Chain H, How The Anti-(Metal Chelate) Antibody Cha255 Is Specific
For The Metal Ion Of Its Antigen: X-Ray Structures For
Two Fab'(Slash)hapten Complexes With Different Metals In
The Chelate
pdb|1INE|H Chain H, How The Anti-(Metal Chelate) Antibody Cha255 Is Specific
For The Metal Ion Of Its Antigen: X-Ray Structures For
Two Fab'(Slash)hapten Complexes With Different Metals In
The Chelate
Length = 226
Score = 30.0 bits (66), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 32/148 (21%), Positives = 54/148 (36%), Gaps = 31/148 (20%)
Query: 87 KEGQSVQLECHAEGHPIP--TISWRREN---------NAILPNGQTIFTGST-------- 127
K G S++L C A G + T+SW R+ + G T ++ S
Sbjct: 13 KPGGSLKLSCAASGFTLSGETMSWVRQTPEKRLEWVATTLSGGGFTFYSASVKGRFTISR 72
Query: 128 --------LQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALH 179
LQ+ + ED Y+C + + G + V + P +V G A
Sbjct: 73 DNAQNNLYLQLNSLRSEDTALYFCASHRFVHWGHGTLVTVSAKTTP-PSVYPLAPGSAAQ 131
Query: 180 HD--MDLDCHIEAY-PHPILYWAKDGEI 204
+ + L C ++ Y P P+ G +
Sbjct: 132 TNSMVTLGCLVKGYFPEPVTVTWNSGSL 159
>pdb|4AL8|L Chain L, Structure Of Dengue Virus Diii In Complex With Fab 2h12
Length = 213
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 32/152 (21%), Positives = 56/152 (36%), Gaps = 25/152 (16%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+++ S + G V + C A + +++W ++ P
Sbjct: 2 IVMTQSQKFMSTSVGDRVSITCKASQNVRTSVAWYQQKPGQSPKALIYLASNRHTGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQ----NGIGRGARRKIEVKVEFAPIVTVQST 172
FTGS TL I + ED Y+C+ G G + +I+ + + AP V++
Sbjct: 62 FTGSGSGTDFTLTISNVQSEDLADYFCLQHWTYPYTFGGGTKLEIK-RADAAPTVSIFPP 120
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3IY2|A Chain A, Variable Domains Of The Computer Generated Model (Wam) Of
Fab 6 Fitted Into The Cryoem Reconstruction Of The
Virus- Fab 6 Complex
Length = 107
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 21/86 (24%), Positives = 38/86 (44%), Gaps = 18/86 (20%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTI-------F 123
++ P A G++V + C A + ++W ++ P N +T+ F
Sbjct: 1 LMTQIPASLSASVGETVTITCRATKNIYSYLAWYQQKQGKSPQVLVHNAKTLTEGVPSRF 60
Query: 124 TGS------TLQIPRITKEDRGAYYC 143
+GS +L+I + ED G+YYC
Sbjct: 61 SGSGSGTQFSLKINSLQPEDFGSYYC 86
>pdb|1P53|A Chain A, The Crystal Structure Of Icam-1 D3-D5 Fragment
pdb|1P53|B Chain B, The Crystal Structure Of Icam-1 D3-D5 Fragment
Length = 266
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 10/66 (15%)
Query: 96 CHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARR 155
C A G+P+P + ++ LP G+++ +T++ G Y C A++ G R
Sbjct: 208 CQAWGNPLPELKCLKDGTFPLPIGESV---------TVTRDLEGTYLCRARSTQGE-VTR 257
Query: 156 KIEVKV 161
++ V V
Sbjct: 258 EVTVNV 263
>pdb|3V0V|H Chain H, Fab Wn1 222-5 Unliganded
pdb|3V0V|A Chain A, Fab Wn1 222-5 Unliganded
Length = 220
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 32/79 (40%), Gaps = 8/79 (10%)
Query: 128 LQIPRITKEDRGAYYCVAQ------NGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHD 181
LQ+ + ED YYCV Q + G+G + AP V + G
Sbjct: 83 LQMNALRTEDSATYYCVRQGRGYTLDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSS 142
Query: 182 MDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 143 VTLGCLVKGYFPEPVTLTW 161
>pdb|1ZTX|H Chain H, West Nile Virus Envelope Protein Diii In Complex With
Neutralizing E16 Antibody Fab
Length = 219
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 32/141 (22%), Positives = 48/141 (34%), Gaps = 34/141 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRE---------NNAILPNGQT----------IF 123
+ K G SVQ+ C A G+ I W ++ + + G+T F
Sbjct: 11 LMKPGASVQISCKATGYTFSDYWIEWVKQRPGHGLEWIGDILCGTGRTRYNEKLKAMATF 70
Query: 124 TGST------LQIPRITKEDRGAYYCV--AQNG-----IGRGARRKIEVKVEFAPIVTVQ 170
T T +Q+ +T ED YYC A G G G + P V
Sbjct: 71 TADTSSNTAFMQLSSLTSEDSAVYYCARSASYGDYADYWGHGTTLTVSSAKTTPPSVYPL 130
Query: 171 STRIGQALHHDMDLDCHIEAY 191
+ G + L C ++ Y
Sbjct: 131 APGCGDTTGSSVTLGCLVKGY 151
>pdb|3V0W|H Chain H, Crystal Structure Of Fab Wn1 222-5 In Complex With Lps
Length = 219
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 32/79 (40%), Gaps = 8/79 (10%)
Query: 128 LQIPRITKEDRGAYYCVAQ------NGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHD 181
LQ+ + ED YYCV Q + G+G + AP V + G
Sbjct: 83 LQMNALRTEDSATYYCVRQGRGYTLDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSS 142
Query: 182 MDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 143 VTLGCLVKGYFPEPVTLTW 161
>pdb|2OZ4|A Chain A, Structural Plasticity In Igsf Domain 4 Of Icam-1 Mediates
Cell Surface Dimerization
Length = 265
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 10/66 (15%)
Query: 96 CHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARR 155
C A G+P+P + ++ LP G+++ +T++ G Y C A++ G R
Sbjct: 207 CQAWGNPLPELKCLKDGTFPLPIGESV---------TVTRDLEGTYLCRARSTQGE-VTR 256
Query: 156 KIEVKV 161
++ V V
Sbjct: 257 EVTVNV 262
>pdb|4FFW|C Chain C, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With Fab + Sitagliptin
pdb|4FFW|L Chain L, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With Fab + Sitagliptin
Length = 210
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 32/152 (21%), Positives = 59/152 (38%), Gaps = 26/152 (17%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN-----GQTIFTG---- 125
++L+ SP + A G+ V + C A + + W ++ + P + +G
Sbjct: 2 IVLSQSPAILSASPGEKVTMTCRASSS-VNNMHWYQQKPSSSPKPWLHGTSNLASGVPVR 60
Query: 126 ---------STLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTVQST 172
+L I R+ ED Y+C + G G + +I+ + + AP V++
Sbjct: 61 FSGSGSGTSFSLTISRVEAEDAATYFCQQWSNHPPTFGGGTKLEID-RADAAPTVSIFPP 119
Query: 173 RIGQALHHDMDLDCHIEA-YPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 120 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|4DEP|B Chain B, Structure Of The Il-1b Signaling Complex
pdb|4DEP|E Chain E, Structure Of The Il-1b Signaling Complex
Length = 321
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/135 (22%), Positives = 58/135 (42%), Gaps = 20/135 (14%)
Query: 99 EGHPIPTISWRRENNAILPNGQTIFTG--STLQIPRITKEDRGAYYCVAQNGIGRGARRK 156
E + +P + W ++ +L + F+G L + + ++ RG Y C A G +
Sbjct: 136 ENNELPKLQWYKDCKPLLLDN-IHFSGVKDRLIVMNVAEKHRGNYTCHASYTY-LGKQYP 193
Query: 157 IEVKVEFAPIVTVQSTR--IGQALHHDMDLD--------CHIEAYPHPILYWAKDGEI-- 204
I +EF + + TR I + M++D C++ I YW +G +
Sbjct: 194 ITRVIEFITLEENKPTRPVIVSPANETMEVDLGSQIQLICNVTGQLSDIAYWKWNGSVID 253
Query: 205 ----VVNDEYHSISN 215
V+ ++Y+S+ N
Sbjct: 254 EDDPVLGEDYYSVEN 268
>pdb|3AAZ|B Chain B, Crystal Structure Of The Humanized Recombinant Fab
Fragment Of A Murine; Antibody
pdb|3AAZ|L Chain L, Crystal Structure Of The Humanized Recombinant Fab
Fragment Of A Murine; Antibody
Length = 229
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/50 (36%), Positives = 27/50 (54%), Gaps = 5/50 (10%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI----GRGARRKIEVKVEFAPIVTV 169
T TL+I R+ ED G YYC + + G+G + +I+ V AP V +
Sbjct: 74 TDFTLKISRVEAEDVGVYYCFQASLVPLTFGQGTKLEIKRTVA-APSVFI 122
>pdb|1Z7Z|I Chain I, Cryo-Em Structure Of Human Coxsackievirus A21 Complexed
With Five Domain Icam-1kilifi
Length = 450
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 32/66 (48%), Gaps = 10/66 (15%)
Query: 96 CHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARR 155
C A G+P+P + ++ LP G+++ +T++ G Y C A++ G R
Sbjct: 392 CQAWGNPLPELKCLKDGTFPLPIGESV---------TVTRDLEGTYLCRARSTQGE-VTR 441
Query: 156 KIEVKV 161
++ V V
Sbjct: 442 EVTVNV 447
>pdb|1IRA|Y Chain Y, Complex Of The Interleukin-1 Receptor With The
Interleukin-1 Receptor Antagonist (il1ra)
pdb|4GAF|B Chain B, Crystal Structure Of Ebi-005, A Chimera Of Human Il-1beta
And Il-1ra, Bound To Human Interleukin-1 Receptor Type 1
Length = 319
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 30/135 (22%), Positives = 58/135 (42%), Gaps = 20/135 (14%)
Query: 99 EGHPIPTISWRRENNAILPNGQTIFTG--STLQIPRITKEDRGAYYCVAQNGIGRGARRK 156
E + +P + W ++ +L + F+G L + + ++ RG Y C A G +
Sbjct: 134 ENNELPKLQWYKDCKPLLLDN-IHFSGVKDRLIVMNVAEKHRGNYTCHASYTY-LGKQYP 191
Query: 157 IEVKVEFAPIVTVQSTR--IGQALHHDMDLD--------CHIEAYPHPILYWAKDGEI-- 204
I +EF + + TR I + M++D C++ I YW +G +
Sbjct: 192 ITRVIEFITLEENKPTRPVIVSPANETMEVDLGSQIQLICNVTGQLSDIAYWKWNGSVID 251
Query: 205 ----VVNDEYHSISN 215
V+ ++Y+S+ N
Sbjct: 252 EDDPVLGEDYYSVEN 266
>pdb|2IFF|L Chain L, Structure Of An Antibody-Lysozyme Complex: Effect Of A
Conservative Mutation
pdb|1BQL|L Chain L, Structure Of An Anti-Hel Fab Fragment Complexed With
Bobwhite Quail Lysozyme
Length = 212
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 35/153 (22%), Positives = 58/153 (37%), Gaps = 29/153 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTIFTG---- 125
++L SP + A G+ V + C A + + W ++ + P + + +G
Sbjct: 2 IVLTQSPAIMSASPGEKVTMTCSASSS-VNYMYWYQQKSGTSPKRWIYDTSKLASGVPVR 60
Query: 126 ---------STLQIPRITKEDRGAYYCVAQNGIGR----GARRKIEVK-VEFAPIVTVQS 171
+L I + ED YYC GR G K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTISSMETEDAATYYC---QQWGRNPTFGGGTKLEIKRADAAPTVSIFP 117
Query: 172 TRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 118 PSSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 150
>pdb|1YQV|L Chain L, The Crystal Structure Of The Antibody Fab Hyhel5 Complex
With Lysozyme At 1.7a Resolution
Length = 211
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 35/153 (22%), Positives = 58/153 (37%), Gaps = 29/153 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTIFTG---- 125
++L SP + A G+ V + C A + + W ++ + P + + +G
Sbjct: 3 IVLTQSPAIMSASPGEKVTMTCSASSS-VNYMYWYQQKSGTSPKRWIYDTSKLASGVPVR 61
Query: 126 ---------STLQIPRITKEDRGAYYCVAQNGIGR----GARRKIEVK-VEFAPIVTVQS 171
+L I + ED YYC GR G K+E+K + AP V++
Sbjct: 62 FSGSGSGTSYSLTISSMETEDAATYYC---QQWGRNPTFGGGTKLEIKRADAAPTVSIFP 118
Query: 172 TRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 119 PSSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|1ITB|B Chain B, Type-1 Interleukin-1 Receptor Complexed With Interleukin-1
Beta
Length = 315
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 30/135 (22%), Positives = 58/135 (42%), Gaps = 20/135 (14%)
Query: 99 EGHPIPTISWRRENNAILPNGQTIFTG--STLQIPRITKEDRGAYYCVAQNGIGRGARRK 156
E + +P + W ++ +L + F+G L + + ++ RG Y C A G +
Sbjct: 134 ENNELPKLQWYKDCKPLLLDN-IHFSGVKDRLIVMNVAEKHRGNYTCHASYTY-LGKQYP 191
Query: 157 IEVKVEFAPIVTVQSTR--IGQALHHDMDLD--------CHIEAYPHPILYWAKDGEI-- 204
I +EF + + TR I + M++D C++ I YW +G +
Sbjct: 192 ITRVIEFITLEENKPTRPVIVSPANETMEVDLGSQIQLICNVTGQLSDIAYWKWNGSVID 251
Query: 205 ----VVNDEYHSISN 215
V+ ++Y+S+ N
Sbjct: 252 EDDPVLGEDYYSVEN 266
>pdb|1G0Y|R Chain R, Il-1 Receptor Type 1 Complexed With Antagonist Peptide
Af10847
Length = 312
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 30/135 (22%), Positives = 58/135 (42%), Gaps = 20/135 (14%)
Query: 99 EGHPIPTISWRRENNAILPNGQTIFTG--STLQIPRITKEDRGAYYCVAQNGIGRGARRK 156
E + +P + W ++ +L + F+G L + + ++ RG Y C A G +
Sbjct: 131 ENNELPKLQWYKDCKPLLLDN-IHFSGVKDRLIVMNVAEKHRGNYTCHASYTY-LGKQYP 188
Query: 157 IEVKVEFAPIVTVQSTR--IGQALHHDMDLD--------CHIEAYPHPILYWAKDGEI-- 204
I +EF + + TR I + M++D C++ I YW +G +
Sbjct: 189 ITRVIEFITLEENKPTRPVIVSPANETMEVDLGSQIQLICNVTGQLSDIAYWKWNGSVID 248
Query: 205 ----VVNDEYHSISN 215
V+ ++Y+S+ N
Sbjct: 249 EDDPVLGEDYYSVEN 263
>pdb|2W9D|L Chain L, Structure Of Fab Fragment Of The Icsm 18 - Anti-Prp
Therapeutic Antibody At 1.57 A Resolution
Length = 212
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 33/151 (21%), Positives = 57/151 (37%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTIFTG---- 125
++L SP + A G+ V + C A + + W ++ + P + + +G
Sbjct: 2 IVLTQSPAIMSASPGEKVTMTCSASS-SVSYMHWYQQKSGTSPKRWIYDTSKLASGVPAR 60
Query: 126 ---------STLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
+L I + ED Y+C N G K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTISSMEAEDAATYFCHQWRSNPYTFGGGTKLEIKRADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|1UB5|H Chain H, Crystal Structure Of Antibody 19g2 With Hapten At 100k
pdb|1UB5|A Chain A, Crystal Structure Of Antibody 19g2 With Hapten At 100k
Length = 209
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 35/152 (23%), Positives = 52/152 (34%), Gaps = 31/152 (20%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISWRRE--------NNAILPNGQTIFTGST------- 127
+ K G S++L C A G +SW R+ +I G T + S
Sbjct: 11 LVKPGGSLKLSCTASGITFSRYIMSWVRQIPEKRLEWVASISSGGITYYPDSVAGRFTIS 70
Query: 128 ---------LQIPRITKEDRGAYYCVAQNG---IGRGARRKIEVKVEFAPIVTVQSTRIG 175
LQ+ + ED YYC G G+G + P V + G
Sbjct: 71 RDNVRNILYLQMSSLRSEDTALYYCARGQGRPYWGQGTLVTVSSAKTTPPSVYPAAPGCG 130
Query: 176 QALHHDMDLDCHIEAY-PHPI-LYWAKDGEIV 205
+ L C ++ Y P P+ + W G V
Sbjct: 131 DTTGSSVTLGCLVKGYFPEPVTVTWNSGGSSV 162
>pdb|4AG4|L Chain L, Crystal Structure Of A Ddr1-Fab Complex
Length = 213
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 54/151 (35%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS-------- 126
+ L SP L A G+ V + C A + + W ++ P T +
Sbjct: 2 IQLTQSPALMSASPGEKVTMTCSASSS-VTFMYWYQQKPRSSPKPWIYLTSNLASGVPAR 60
Query: 127 ----------TLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
+L I + ED YYC + N G K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTISSMEAEDAATYYCQQWSSNPYTFGGGTKLELKRADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|1IQW|L Chain L, Crystal Structure Of The Fab Fragment Of The Mouse Anti-
Human Fas Antibody Hfe7a
Length = 218
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 28/91 (30%), Positives = 39/91 (42%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTR 173
F+GS TL I + +ED YYC N R G K+E+K + AP V++
Sbjct: 66 FSGSGSGTDFTLNIHPVEEEDAATYYCQQSNEDPRTFGGGTKLEIKRADAAPTVSIFPPS 125
Query: 174 IGQALHHDMDLDCHIEA-YPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 126 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 156
>pdb|3QUM|B Chain B, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
pdb|3QUM|D Chain D, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
Length = 219
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 30/140 (21%), Positives = 50/140 (35%), Gaps = 34/140 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRR--------------------ENNAILPNGQTI 122
+AK G SV++ C G+ + + W + ENN + T+
Sbjct: 11 LAKPGASVKMSCKTSGYSFSSYWMHWVKQRPGQGLEWIGYINPSTGYTENNQKFKDKVTL 70
Query: 123 FTGST-----LQIPRITKEDRGAYYCVAQNG------IGRGARRKIEVKVEFAPIVTVQS 171
+ +Q+ +T ED YYC A++G G G + AP V +
Sbjct: 71 TADKSSNTAYMQLNSLTSEDSAVYYC-ARSGRLYFDVWGAGTTVTVSSAKTTAPPVYPLA 129
Query: 172 TRIGQALHHDMDLDCHIEAY 191
G + L C ++ Y
Sbjct: 130 PVCGDTTGSSVTLGCLVKGY 149
>pdb|1KTR|L Chain L, Crystal Structure Of The Anti-His Tag Antibody 3d5 Single-
Chain Fragment (Scfv) In Complex With A Oligohistidine
Peptide
Length = 116
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 2/39 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
T TL+I R+ ED G YYC + + G+ K+E+K
Sbjct: 77 TDFTLKISRVEAEDLGVYYCFQGSHVPFTFGSGTKLEIK 115
>pdb|1UZ6|F Chain F, Anti-Lewis X Fab Fragment Uncomplexed
pdb|1UZ6|H Chain H, Anti-Lewis X Fab Fragment Uncomplexed
pdb|1UZ6|P Chain P, Anti-Lewis X Fab Fragment Uncomplexed
pdb|1UZ6|W Chain W, Anti-Lewis X Fab Fragment Uncomplexed
Length = 217
Score = 29.6 bits (65), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/74 (24%), Positives = 28/74 (37%), Gaps = 6/74 (8%)
Query: 128 LQIPRITKEDRGAYYCVAQNGI-----GRGARRKIEVKVEFAPIVTVQSTRIGQALHHDM 182
LQ+ ++ ED YYC + G G+G + AP V +
Sbjct: 81 LQMSKVRSEDTALYYCARETGTRFDYWGQGTTLTVSSATTTAPSVYPLVPGCSDTSGSSV 140
Query: 183 DLDCHIEAY-PHPI 195
L C ++ Y P P+
Sbjct: 141 TLGCLVKGYFPEPV 154
>pdb|3D85|A Chain A, Crystal Structure Of Il-23 In Complex With Neutralizing
Fab
Length = 214
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 40/108 (37%), Gaps = 24/108 (22%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
+++ SP G V L C A + W R+ + P Q+I
Sbjct: 2 IVMTQSPATLSVTPGDRVSLSCRASQSISDYLHWYRQKSHESPRLLIKYASQSISGIPSR 61
Query: 123 ------FTGSTLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVK 160
+ TL I + ED G YYC QNG G+ K+E+K
Sbjct: 62 FSGSGSGSDFTLSINSVEPEDVGVYYC--QNGHSFPFTFGSGTKLEIK 107
>pdb|1YNT|B Chain B, Structure Of The Immunodominant Epitope Displayed By The
Surface Antigen 1 (Sag1) Of Toxoplasma Gondii Complexed
To A Monoclonal Antibody
pdb|1YNT|D Chain D, Structure Of The Immunodominant Epitope Displayed By The
Surface Antigen 1 (Sag1) Of Toxoplasma Gondii Complexed
To A Monoclonal Antibody
Length = 218
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 32/79 (40%), Gaps = 8/79 (10%)
Query: 128 LQIPRITKEDRGAYYCVAQNG------IGRGARRKIEVKVEFAPIVTVQSTRIGQALHHD 181
+++ R+T ED YYC + G+G + AP V + G
Sbjct: 81 MELARLTSEDSAIYYCARSSTWYYFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSS 140
Query: 182 MDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 141 VTLGCLVKGYFPEPVTLTW 159
>pdb|3RBG|A Chain A, Crystal Structure Analysis Of Class-I Mhc Restricted
T-Cell Associated Molecule
pdb|3RBG|B Chain B, Crystal Structure Analysis Of Class-I Mhc Restricted
T-Cell Associated Molecule
pdb|3RBG|C Chain C, Crystal Structure Analysis Of Class-I Mhc Restricted
T-Cell Associated Molecule
pdb|3RBG|D Chain D, Crystal Structure Analysis Of Class-I Mhc Restricted
T-Cell Associated Molecule
Length = 124
Score = 29.6 bits (65), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 19/87 (21%), Positives = 34/87 (39%), Gaps = 25/87 (28%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS---------- 126
L N + +EGQ++ L+C ++ W + P+G TIF
Sbjct: 4 LTNHTETITVEEGQTLTLKCVTSLRKNSSLQW------LTPSGFTIFLNEYPVLKNSKYQ 57
Query: 127 ---------TLQIPRITKEDRGAYYCV 144
++ +P +T +D G Y C+
Sbjct: 58 LLHHSANQLSITVPNVTLQDEGVYKCL 84
>pdb|1MEX|L Chain L, Antibody Catalysis Of A Bimolecular Cycloaddition Reaction
Length = 213
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 35/153 (22%), Positives = 57/153 (37%), Gaps = 27/153 (17%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+++ S + G V + C A + ++W ++ P +T+
Sbjct: 2 IVMTQSQKFMSTSLGNRVSVTCKASQNVGTNVAWFQQKPGQSP--KTLIYSASYRYSGVP 59
Query: 123 --FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQS 171
FTGS TL I + ED Y+C N G K+E+K + AP V++
Sbjct: 60 DRFTGSGSGTDFTLTINNVQSEDLAEYFCQQYNSYPYTFGGGTKLEIKRADAAPTVSIFP 119
Query: 172 TRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 120 PSSEQLTGGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3BQU|D Chain D, Crystal Structure Of The 2f5 Fab'-3h6 Fab Complex
Length = 241
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 37/96 (38%), Gaps = 28/96 (29%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRE-------------------NNAILPNGQTIF 123
+ K G SV++ C A G+ + W ++ N + G+ F
Sbjct: 30 LVKPGASVKMSCKASGYSFTDYFMHWVKQSHGKSLDWIGYINCYTGATNYSQKFKGKATF 89
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNGIGRGA 153
T T +Q +T ED YYC A+ IG G+
Sbjct: 90 TVDTSSNTAYMQFNSLTSEDSAVYYC-ARTSIGYGS 124
>pdb|1C12|B Chain B, Insight In Odorant Perception: The Crystal Structure And
Binding Characteristics Of Antibody Fragments Directed
Against The Musk Odorant Traseolide
Length = 220
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 34/87 (39%), Gaps = 27/87 (31%)
Query: 85 VAKEGQSVQLECHAEGHPIPT---ISWRRE--NNAILPNGQTIFTGST------------ 127
+ K QS+ L C G+ I + +W R+ N + G ++GST
Sbjct: 11 LVKPSQSLSLTCTVTGYSITSDYAWNWIRQFPGNKLEWMGYISYSGSTSYSPSLKSRISL 70
Query: 128 ----------LQIPRITKEDRGAYYCV 144
LQ+ +T ED YYCV
Sbjct: 71 TRDTSKNQFFLQLNSVTTEDTATYYCV 97
>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 = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 24/106 (22%), Positives = 43/106 (40%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN------------NAILPNGQTI 122
+ + SP A G+ V + C A ++W ++ N ++ +
Sbjct: 2 IKMTQSPSSMYASLGERVTITCKASQDINSYLNWFQQKPGKSPKTLIYRTNRLVDGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
F+GS +L I + ED G YYC+ + G+ K+E+K
Sbjct: 62 FSGSGSGQDYSLTISSLEYEDMGIYYCLQYDEFPYTFGSGTKLEIK 107
>pdb|1RZ8|A Chain A, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 17b
pdb|1RZ8|C Chain C, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 17b
pdb|1RZJ|L Chain L, Hiv-1 Hxbc2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1RZK|L Chain L, Hiv-1 Yu2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1YYL|L Chain L, Crystal Structure Of Cd4m33, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|1YYL|Q Chain Q, Crystal Structure Of Cd4m33, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|1YYM|L Chain L, Crystal Structure Of F23, A Scorpion-Toxin Mimic Of Cd4,
In Complex With Hiv-1 Yu2 Gp120 Envelope Glycoprotein
And Anti-Hiv-1 Antibody 17b
pdb|1YYM|Q Chain Q, Crystal Structure Of F23, A Scorpion-Toxin Mimic Of Cd4,
In Complex With Hiv-1 Yu2 Gp120 Envelope Glycoprotein
And Anti-Hiv-1 Antibody 17b
pdb|2I5Y|L Chain L, Crystal Structure Of Cd4m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I5Y|Q Chain Q, Crystal Structure Of Cd4m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I60|L Chain L, Crystal Structure Of [phe23]m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I60|Q Chain Q, Crystal Structure Of [phe23]m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2NXY|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein(S334a) Complexed With
Cd4 And Antibody 17b
pdb|2NXZ|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (t257s, S334a, S375w)
Complexed With Cd4 And Antibody 17b
pdb|2NY0|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (M95w, W96c, T257s,
V275c, S334a, S375w, A433m) Complexed With Cd4 And
Antibody 17b
pdb|2NY1|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (I109c, T257s, S334a,
S375w, Q428c) Complexed With Cd4 And Antibody 17b
pdb|2NY2|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (T123c, T257s, S334a,
S375w, G431c) Complexed With Cd4 And Antibody 17b
pdb|2NY3|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (K231c, T257s, E267c,
S334a, S375w) Complexed With Cd4 And Antibody 17b
pdb|2NY4|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (K231c, T257s, E268c,
S334a, S375w) Complexed With Cd4 And Antibody 17b
pdb|2NY5|L Chain L, Hiv-1 Gp120 Envelope Glycoprotein (m95w, W96c, I109c,
T257s, V275c, S334a, S375w, Q428c, A433m) Complexed With
Cd4 And Antibody 17b
pdb|2NY6|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (m95w, W96c, I109c,
T123c, T257s, V275c,s334a, S375w, Q428c, G431c)
Complexed With Cd4 And Antibody 17b
Length = 214
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 29/119 (24%), Positives = 44/119 (36%), Gaps = 25/119 (21%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN----GQTI-------- 122
+++ SP G+ L C A ++W ++ P G +
Sbjct: 2 IVMTQSPATLSVSPGERATLSCRASESVSSDLAWYQQKPGQAPRLLIYGASTRATGVPAR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG------IGRGARRKIEVKVEFAPIVTV 169
F+GS TL I + ED YYC N G+G R +I+ V AP V +
Sbjct: 62 FSGSGSGAEFTLTISSLQSEDFAVYYCQQYNNWPPRYTFGQGTRLEIKRTVA-APSVFI 119
>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 = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 40/91 (43%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS TL I + +ED YYC +A+ G K+E+K + AP V++
Sbjct: 66 FSGSGSGTDFTLNIAPVEEEDAATYYCQHIAELTRTFGGGTKLEIKRADAAPTVSIFPPS 125
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 126 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 156
>pdb|4HWE|L Chain L, Crystal Structure Of Ectodomain 3 Of The Il-13 Receptor
Alpha1 In Complex With A Human Neutralizing Monoclonal
Antibody Fragment
Length = 211
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 7/53 (13%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTV 169
F+GS TL I R+ ED YYC G+G + +I+ V AP V +
Sbjct: 63 FSGSGSGTDFTLTISRLEPEDFAVYYCQQYETFGQGTKVEIKRTVA-APSVFI 114
>pdb|4HWB|L Chain L, Crystal Structure Of Ectodomain 3 Of The Il-13 Receptor
Alpha 1 In Complex With A Human Neutralizing Monoclonal
Antibody Fragment
Length = 212
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/53 (35%), Positives = 26/53 (49%), Gaps = 7/53 (13%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTV 169
F+GS TL I R+ ED YYC G+G + +I+ V AP V +
Sbjct: 63 FSGSGSGTDFTLTISRLEPEDFAVYYCQQYETFGQGTKVEIKRTVA-APSVFI 114
>pdb|4DZB|B Chain B, Mucosal-Associated Invariant T Cell Receptor,
Valpha7.2jalpha33-Vbeta2
Length = 246
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 30/129 (23%), Positives = 47/129 (36%), Gaps = 35/129 (27%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR------------------------ 110
+++ P ++K G SV++EC + T+ W R
Sbjct: 2 AVVSQHPSWVISKSGTSVKIECRSLDFQATTMFWYRQFPKQSLMLMATSNEGSKATYEQG 61
Query: 111 -ENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNG-------IGRGARRKI--EVK 160
E + L N ++ T STL + ED Y C A+ G G R + ++K
Sbjct: 62 VEKDKFLINHASL-TLSTLTVTSAHPEDSSFYICSARTSGDFGEQFFGPGTRLTVLEDLK 120
Query: 161 VEFAPIVTV 169
F P V V
Sbjct: 121 NVFPPEVAV 129
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 20/37 (54%)
Query: 24 VAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLHLA 60
++K G SV++EC + T+ W R F + + +A
Sbjct: 12 ISKSGTSVKIECRSLDFQATTMFWYRQFPKQSLMLMA 48
>pdb|1N64|L Chain L, Crystal Structure Analysis Of The Immunodominant Antigenic
Site On Hepatitis C Virus Protein Bound To Mab 19d9d6
pdb|1NLB|L Chain L, Crystal Structure Of Anti-Hcv Monoclonal Antibody 19d9d6
pdb|1XCQ|A Chain A, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|C Chain C, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|E Chain E, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|G Chain G, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCT|A Chain A, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (D55a, L57h,
Y64w) In Space Group P21212
pdb|1XCT|C Chain C, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (D55a, L57h,
Y64w) In Space Group P21212
pdb|1XF5|A Chain A, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (H74c,
Y64w)in Space Group P21212
pdb|1XF5|C Chain C, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (H74c,
Y64w)in Space Group P21212
pdb|1YMH|A Chain A, Anti-hcv Fab 19d9d6 Complexed With Protein L (ppl) Mutant
A66w
pdb|1YMH|C Chain C, Anti-hcv Fab 19d9d6 Complexed With Protein L (ppl) Mutant
A66w
Length = 220
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 35/157 (22%), Positives = 57/157 (36%), Gaps = 29/157 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGH---------------------PIPTISWRRENN 113
++++ SP G+ V + C + P I W
Sbjct: 2 IVMSQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKVLIYWASTRE 61
Query: 114 AILPN---GQTIFTGSTLQIPRITKEDRGAYYCVAQN--GIGRGARRKIEVK-VEFAPIV 167
+ +P+ G+ T TL I + ED+ YYC + GA K+E+K + AP V
Sbjct: 62 SGVPDRFTGRGSGTDFTLTISSVQAEDQAVYYCKQAYIPPLTFGAGTKLELKRADAAPTV 121
Query: 168 TVQSTRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
++ Q + C + YP I + W DG
Sbjct: 122 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 158
>pdb|1MHH|A Chain A, Antibody-Antigen Complex
pdb|1MHH|C Chain C, Antibody-Antigen Complex
Length = 220
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 35/157 (22%), Positives = 57/157 (36%), Gaps = 29/157 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGH---------------------PIPTISWRRENN 113
++++ SP G+ V + C + P I W
Sbjct: 2 IVMSQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKVLIYWASTRE 61
Query: 114 AILPN---GQTIFTGSTLQIPRITKEDRGAYYCVAQN--GIGRGARRKIEVK-VEFAPIV 167
+ +P+ G+ T TL I + ED+ YYC + GA K+E+K + AP V
Sbjct: 62 SGVPDRFTGRGSGTDFTLTISSVQAEDQAVYYCKQAYIPPLTFGAGTKLELKRADAAPTV 121
Query: 168 TVQSTRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
++ Q + C + YP I + W DG
Sbjct: 122 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 158
>pdb|4FFV|C Chain C, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With 11a19 Fab
pdb|4FFV|L Chain L, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With 11a19 Fab
Length = 210
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 32/152 (21%), Positives = 58/152 (38%), Gaps = 26/152 (17%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN-----GQTIFTG---- 125
++L+ SP + A G+ V + C A + + W ++ P + +G
Sbjct: 2 IVLSQSPAILSASPGEKVTMTCRASSS-VNNMHWYQQKPGSSPKPWLHGTSNLASGVPVR 60
Query: 126 ---------STLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTVQST 172
+L I R+ ED Y+C + G G + +I+ + + AP V++
Sbjct: 61 FSGSGSGTSFSLTISRVEAEDAATYFCQQWSNHPPTFGGGTKLEID-RADAAPTVSIFPP 119
Query: 173 RIGQALHHDMDLDCHIEA-YPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 120 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|1RMF|H Chain H, Structures Of A Monoclonal Anti-Icam-1 Antibody R6.5
Fragment At 2.8 Angstroms Resolution
Length = 216
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 34/80 (42%), Gaps = 9/80 (11%)
Query: 128 LQIPRITKEDRGAYYC-------VAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHH 180
L++ R+T ED YYC ++ + G+G + AP VT + G
Sbjct: 81 LELARLTSEDSAIYYCARGGWLLLSFDYWGQGTTLTVSSAKTTAPSVTPLAPVCGDTTGS 140
Query: 181 DMDLDCHIEAY-PHPI-LYW 198
+ L ++ Y P P+ L W
Sbjct: 141 SVTLGVLVKGYFPEPVTLTW 160
>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 = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 40/91 (43%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL I + +ED YYC + ++ G K+E+K + AP V++
Sbjct: 66 FTGSGSGTDFTLNIHPVEEEDAATYYCQQIIEDPWTFGGGTKLEIKRADAAPTVSIFPPS 125
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 126 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 156
>pdb|4HCR|L Chain L, Crystal Structure Of Human Madcam-1 D1d2 Complexed With
Fab Pf-547659
pdb|4HCR|N Chain N, Crystal Structure Of Human Madcam-1 D1d2 Complexed With
Fab Pf-547659
Length = 219
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 28/51 (54%), Gaps = 7/51 (13%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQN-----GIGRGARRKIEVKVEFAPIVTV 169
T TL+I R+ ED G YYC+ QN G+G + +I+ V AP V +
Sbjct: 74 TDFTLKISRVEAEDVGIYYCM-QNIQLPWTFGQGTKVEIKRTVA-APSVFI 122
>pdb|1QKZ|H Chain H, Fab Fragment (Mn14c11.6) In Complex With A Peptide Antigen
Derived From Neisseria Meningitidis P1.7 Serosubtype
Antigen And Domain Ii From Streptococcal Protein G
Length = 219
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 34/146 (23%), Positives = 51/146 (34%), Gaps = 35/146 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISW-------RRENNAILPNGQTI----------FTG 125
+ K G+S++L C A G + W R E A + +G FT
Sbjct: 11 LVKPGRSLKLSCAASGFTFSDYYMFWVRQTPEQRLEWVATISDGGAYTYYPDSVKGRFTI 70
Query: 126 S--------TLQIPRITKEDRGAYYCV-------AQNGIGRGARRKIEVKVEFAPIVTVQ 170
S LQ+ + ED G YYC + G+G + AP V
Sbjct: 71 SRDNAKNNLYLQMNSLKSEDTGMYYCARDPLEYYGMDYWGQGTSVAVSSAKTTAPSVYPL 130
Query: 171 STRIGQALHHDMDLDCHIEAY-PHPI 195
+ G + L C ++ Y P P+
Sbjct: 131 APVCGDTTGSSVTLGCLVKGYFPEPV 156
>pdb|1DQD|H Chain H, Crystal Structure Of Fab Hgr-2 F6, A Competitive
Antagonist Of The Glucagon Receptor
Length = 222
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 31/150 (20%), Positives = 50/150 (33%), Gaps = 38/150 (25%)
Query: 84 SVAKEGQSVQLECHAEGHPIPTISW----RRENNAILPNGQTIFTGST------------ 127
S+ K Q++ L C G I + W + N + G ++GST
Sbjct: 10 SLVKPSQTLSLTCSVTGDSITSGYWNWIRKFPGNKLEYMGYISYSGSTYYNPSLKSRLSI 69
Query: 128 ----------LQIPRITKEDRGAYYCVAQNGI-----------GRGARRKIEVKVEFAPI 166
LQ+ +T ED YYC + G G+G + P
Sbjct: 70 TRDTSRNQYYLQLKSVTPEDTATYYCASPPGYYGSGPYAMDYWGQGTSVTVSSAKTTPPS 129
Query: 167 VTVQSTRIGQALHHDMDLDCHIEAY-PHPI 195
V + + + L C ++ Y P P+
Sbjct: 130 VYPLAPGSAAQTNSMVTLGCLVKGYFPEPV 159
>pdb|2W9E|L Chain L, Structure Of Icsm 18 (Anti-Prp Therapeutic Antibody) Fab
Fragment Complexed With Human Prp Fragment 119-231
Length = 212
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 33/151 (21%), Positives = 57/151 (37%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTIFTG---- 125
++L SP + A G+ V + C A + + W ++ + P + + +G
Sbjct: 2 IVLTQSPAIMSASPGEKVTMTCSASS-SVSYMHWYQQKSGTSPKRWIYDTSKLASGVPAR 60
Query: 126 ---------STLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTVQSTR 173
+L I + ED Y+C N G K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTISSMEAEDAATYFCHQWRSNPYTFGGGTKLEIKRADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTGGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|1MFA|H Chain H, Structure Of A Single-Chain Fv Fragment Complexed With A
Carbohydrate Antigen At 1.7 Angstroms Resolution
Length = 120
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 32/87 (36%), Gaps = 27/87 (31%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPNGQTIF----------- 123
VA+ G SV++ C A G+ + W ++ AI P F
Sbjct: 11 VARPGASVKMSCKASGYTFTNYWMHWIKQRPGQGLEWIGAIYPGNSATFYNHKFRAKTKL 70
Query: 124 ------TGSTLQIPRITKEDRGAYYCV 144
T + +++ +T ED YYC
Sbjct: 71 TAVTSTTTAYMELSSLTSEDSAVYYCT 97
>pdb|4AMK|H Chain H, Fab Fragment Of Antiporphrin Antibody 13g10
Length = 217
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 32/148 (21%), Positives = 54/148 (36%), Gaps = 33/148 (22%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-NGQTIFT----- 124
P + K G SV++ C A G+ + + W ++ I P NG T ++
Sbjct: 7 PGAELVKPGASVKMSCKASGYTFTSYNMHWVKQTPGQGLEWIGVIYPGNGDTSYSQKFKG 66
Query: 125 -----------GSTLQIPRITKEDRGAYYCV-AQNGI----GRGARRKIEVKVEFAPIVT 168
+ +Q+ +T ED YYC GI G+G + P V
Sbjct: 67 KATLTADKSSSTAYMQLSSLTSEDSAVYYCSRGGAGIMAYWGQGTSVTVSSAKTTPPSVY 126
Query: 169 VQSTRIGQALHHDMDLDCHIEAY-PHPI 195
+ + + L C ++ Y P P+
Sbjct: 127 PLAPGSAAQTNSMVTLGCLVKGYFPEPV 154
>pdb|3AB0|B Chain B, Crystal Structure Of Complex Of The Bacillus Anthracis
Major Spore Surface Protein Bcla With Scfv Antibody
Fragment
pdb|3AB0|E Chain E, Crystal Structure Of Complex Of The Bacillus Anthracis
Major Spore Surface Protein Bcla With Scfv Antibody
Fragment
Length = 117
Score = 29.3 bits (64), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 34/90 (37%), Gaps = 26/90 (28%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPNGQT--------IFTGS 126
+ K G S++L C A G + +SW R+ +I G T FT S
Sbjct: 11 LVKPGGSLKLSCSASGFTFSSYAMSWVRQTPEKRLEWVASISTGGDTHYQDSVKGRFTTS 70
Query: 127 --------TLQIPRITKEDRGAYYCVAQNG 148
TLQ+ + ED YYC G
Sbjct: 71 RDNARNILTLQMSSLRSEDTAMYYCARNRG 100
>pdb|3QS9|E Chain E, Crystal Structure Of A Human Flt3 Ligand-Receptor Ternary
Complex
pdb|3QS9|F Chain F, Crystal Structure Of A Human Flt3 Ligand-Receptor Ternary
Complex
pdb|3QS9|G Chain G, Crystal Structure Of A Human Flt3 Ligand-Receptor Ternary
Complex
pdb|3QS9|H Chain H, Crystal Structure Of A Human Flt3 Ligand-Receptor Ternary
Complex
Length = 527
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 21/39 (53%)
Query: 11 TPPVILNNSTQLSVAKEGQSVQLECHAEGHPIPTISWRR 49
T LN + V E + Q C ++G+P+P+ +W++
Sbjct: 405 TKMFTLNIRRKPQVLAEASASQASCFSDGYPLPSWTWKK 443
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 11/39 (28%), Positives = 21/39 (53%)
Query: 72 TPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR 110
T LN + V E + Q C ++G+P+P+ +W++
Sbjct: 405 TKMFTLNIRRKPQVLAEASASQASCFSDGYPLPSWTWKK 443
>pdb|2BRR|L Chain L, Complex Of The Neisserial Pora P1.4 Epitope Peptide And
Two Fab-Fragments (Antibody Mn20b9.34)
pdb|2BRR|X Chain X, Complex Of The Neisserial Pora P1.4 Epitope Peptide And
Two Fab-Fragments (Antibody Mn20b9.34)
Length = 215
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 55/151 (36%), Gaps = 24/151 (15%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPT-ISWRRENNAILPNGQTIFTGS-------- 126
+L SP + A G+ V + C A + + W ++ + P T +
Sbjct: 3 VLTQSPAIMSASPGEKVTMTCRASSSVSSSYLHWYQQKSGASPKLWIYSTSNLASGVPAR 62
Query: 127 ----------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
+L I + ED YYC +G G K+E+K + AP V++
Sbjct: 63 FSGSGSGTSYSLTISSVEAEDAATYYCQQYSGYPYTFGGGTKLEIKRADAAPTVSIFPPS 122
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 123 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 153
>pdb|2PO6|C Chain C, Crystal Structure Of Cd1d-lipid-antigen Complexed With
Beta-2- Microglobulin, Nkt15 Alpha-chain And Nkt15
Beta-chain
pdb|2PO6|G Chain G, Crystal Structure Of Cd1d-lipid-antigen Complexed With
Beta-2- Microglobulin, Nkt15 Alpha-chain And Nkt15
Beta-chain
pdb|3SDX|E Chain E, Crystal Structure Of Human Autoreactive-Valpha24 Nkt Tcr
In Complex With Cd1d-Beta-Galactosylceramide
pdb|3SDX|G Chain G, Crystal Structure Of Human Autoreactive-Valpha24 Nkt Tcr
In Complex With Cd1d-Beta-Galactosylceramide
Length = 204
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%)
Query: 80 SPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS 126
SPQ + EG++ L+C+ P + W +++ P TI T S
Sbjct: 6 SPQSLIILEGKNCTLQCNYTVSPFSNLRWYKQDTGRGPVSLTIMTFS 52
>pdb|2CJU|L Chain L, Crystal Structure Of The Tepc15-Vk45.1 Anti-2-Phenyl-5-
Oxazolone Nq16-113.8 Scfv In Complex With Phoxgaba
pdb|2UUD|K Chain K, Crystal Structure Of The Tepc15-Vk45.1 Anti-2-Phenyl-5-
Oxazolone Nq10-1.12 Scfv In Complex With The Hapten
pdb|2UUD|L Chain L, Crystal Structure Of The Tepc15-Vk45.1 Anti-2-Phenyl-5-
Oxazolone Nq10-1.12 Scfv In Complex With The Hapten
Length = 113
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
T TL+I R+ ED G YYC + + G K+E+K
Sbjct: 74 TDFTLKISRVEAEDLGVYYCFQGSHVPYTFGGGTKLEIK 112
>pdb|1NQB|A Chain A, Trivalent Antibody Fragment
pdb|1NQB|C Chain C, Trivalent Antibody Fragment
Length = 256
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 24/46 (52%), Gaps = 8/46 (17%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
F+GS TL+I R+ ED G YYC + + G K+E+K
Sbjct: 187 FSGSGSGTDFTLKISRVEAEDLGVYYCFQGSHVPYTFGGGTKLEIK 232
>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 = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 24/92 (26%), Positives = 38/92 (41%), Gaps = 10/92 (10%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNG--------IGRGARRKIEVKVEFAPIVTVQSTRIG 175
T ++L I + ED G YYC A + G G + + + + AP VT+
Sbjct: 70 TSASLAISGLRPEDEGDYYCAAWDDSRGGPDWVFGGGTKLTVLAQPKAAPSVTLFPPSSE 129
Query: 176 QALHHDMDLDCHI-EAYPHPI-LYWAKDGEIV 205
+ + L C I + YP + + W D V
Sbjct: 130 ELQANKATLVCLISDFYPGAVTVAWKADSSPV 161
>pdb|3S35|X Chain X, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
pdb|3S36|X Chain X, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
pdb|3S37|X Chain X, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
Length = 122
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/46 (34%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 126 STLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEFAPIVTVQS 171
STL I +T+ D+G Y C A +G+ + V+V P V S
Sbjct: 74 STLTIDGVTRSDQGLYTCAASSGL-MTKKNSTFVRVHEKPFVAFGS 118
>pdb|1CIC|B Chain B, Idiotope-Anti-Idiotope Fab-Fab Complex; D1.3-E225
Length = 217
Score = 29.3 bits (64), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 31/148 (20%), Positives = 51/148 (34%), Gaps = 33/148 (22%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPNGQ---------- 120
P + + G SV+L C A G+ + W ++ I P
Sbjct: 7 PGSELVRPGASVKLSCKASGYTFTNYWMHWVKQRPGQGLEWIGNIYPGSGDSNYDEKFKS 66
Query: 121 ----TIFTGST---LQIPRITKEDRGAYYCVAQNGI-----GRGARRKIEVKVEFAPIVT 168
T+ T S+ +Q+ +T ED YYC G+G + + P V
Sbjct: 67 KATLTVDTSSSTAYMQLSGLTSEDSAVYYCARGLAFYFDHWGQGTTLTVSSALTTPPSVY 126
Query: 169 VQSTRIGQALHHDMDLDCHIEAY-PHPI 195
+ G + L C ++ Y P P+
Sbjct: 127 PLAPGCGDTTGSSVTLGCLVKGYFPEPV 154
>pdb|1WT5|C Chain C, The Crystal Structure Of A Humanized Antibody Fv 528
pdb|1WT5|D Chain D, The Crystal Structure Of A Humanized Antibody Fv 528
Length = 122
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
T TL+I R+ ED G YYC + I G K+E+K
Sbjct: 74 TDFTLKISRVEAEDVGVYYCFQGSHIPPTFGQGTKVEIK 112
>pdb|3NN8|B Chain B, Crystal Structure Of Engineered Antibody Fragment Based On
3d5
pdb|3NN8|E Chain E, Crystal Structure Of Engineered Antibody Fragment Based On
3d5
pdb|3NN8|F Chain F, Crystal Structure Of Engineered Antibody Fragment Based On
3d5
pdb|3NN8|H Chain H, Crystal Structure Of Engineered Antibody Fragment Based On
3d5
Length = 116
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/46 (39%), Positives = 25/46 (54%), Gaps = 8/46 (17%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
F+GS TL+I R+ ED G YYC + + GA K+E+K
Sbjct: 68 FSGSGSGTDFTLKISRVEAEDLGIYYCFQGSLVPPTFGAGTKLELK 113
>pdb|1FLR|H Chain H, 4-4-20 Fab Fragment
Length = 219
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 31/77 (40%), Gaps = 6/77 (7%)
Query: 128 LQIPRITKEDRGAYYCV----AQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMD 183
LQ+ + ED G YYC + G+G + AP V + G +
Sbjct: 83 LQMNNLRVEDMGIYYCTGSYYGMDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVT 142
Query: 184 LDCHIEAY-PHPI-LYW 198
L C ++ Y P P+ L W
Sbjct: 143 LGCLVKGYFPEPVTLTW 159
>pdb|3GBM|H Chain H, Crystal Structure Of Fab Cr6261 In Complex With A H5n1
Influenza Virus Hemagglutinin.
pdb|3GBM|I Chain I, Crystal Structure Of Fab Cr6261 In Complex With A H5n1
Influenza Virus Hemagglutinin.
pdb|3GBN|H Chain H, Crystal Structure Of Fab Cr6261 In Complex With The 1918
H1n1 Influenza Virus Hemagglutinin
Length = 226
Score = 29.3 bits (64), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 34/91 (37%), Gaps = 27/91 (29%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPNGQTI------------ 122
V K G SV++ C A G P + ISW R+ I+P T
Sbjct: 11 VKKPGSSVKVSCKASGGPFRSYAISWVRQAPGQGPEWMGGIIPIFGTTKYAPKFQGRVTI 70
Query: 123 ----FTGST-LQIPRITKEDRGAYYCVAQNG 148
F G+ +++ + ED YYC G
Sbjct: 71 TADDFAGTVYMELSSLRSEDTAMYYCAKHMG 101
>pdb|1OTS|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel And
Fab Complex
pdb|1OTS|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel And
Fab Complex
pdb|1OTT|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
E148a Mutant And Fab Complex
pdb|1OTT|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
E148a Mutant And Fab Complex
pdb|1OTU|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
E148q Mutant And Fab Complex
pdb|1OTU|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
E148q Mutant And Fab Complex
pdb|2FEC|O Chain O, Structure Of The E203q Mutant Of The Cl-H+ EXCHANGER CLC-
Ec1 From E.Coli
pdb|2FEC|L Chain L, Structure Of The E203q Mutant Of The Cl-H+ EXCHANGER CLC-
Ec1 From E.Coli
pdb|2FED|D Chain D, Structure Of The E203q Mutant Of The Cl-H+ EXCHANGER CLC-
Ec1 From E.Coli
pdb|2FED|F Chain F, Structure Of The E203q Mutant Of The Cl-H+ EXCHANGER CLC-
Ec1 From E.Coli
pdb|2FEE|O Chain O, Structure Of The Cl-H+ EXCHANGER CLC-Ec1 From E.Coli In
Nabr
pdb|2FEE|L Chain L, Structure Of The Cl-H+ EXCHANGER CLC-Ec1 From E.Coli In
Nabr
pdb|2EXW|D Chain D, Crystal Structure Of A Ecclc-Fab Complex In The Absence Of
Bound Ions
pdb|2EXW|F Chain F, Crystal Structure Of A Ecclc-Fab Complex In The Absence Of
Bound Ions
pdb|2EXY|D Chain D, Crystal Structure Of The E148q Mutant Of Ecclc, Fab
Complexed In Absence Of Bound Ions
pdb|2EXY|F Chain F, Crystal Structure Of The E148q Mutant Of Ecclc, Fab
Complexed In Absence Of Bound Ions
pdb|2EZ0|D Chain D, Crystal Structure Of The S107aE148QY445A MUTANT OF ECCLC,
In Complex With A Fab Fragment
pdb|2EZ0|F Chain F, Crystal Structure Of The S107aE148QY445A MUTANT OF ECCLC,
In Complex With A Fab Fragment
pdb|2H2P|D Chain D, Crystal Structure Of Clc-Ec1 In Complex With Fab Fragment
In Secn-
pdb|2H2P|F Chain F, Crystal Structure Of Clc-Ec1 In Complex With Fab Fragment
In Secn-
pdb|2H2S|D Chain D, Crystal Structure Of E148a Mutant Of Clc-Ec1 In Secn-
pdb|2H2S|F Chain F, Crystal Structure Of E148a Mutant Of Clc-Ec1 In Secn-
pdb|2HLF|D Chain D, Structure Of The Escherichis Coli Clc Chloride Channel
Y445e Mutant And Fab Complex
pdb|2HLF|F Chain F, Structure Of The Escherichis Coli Clc Chloride Channel
Y445e Mutant And Fab Complex
pdb|2HT2|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
Y445h Mutant And Fab Complex
pdb|2HT2|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
Y445h Mutant And Fab Complex
pdb|2HT3|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
Y445l Mutant And Fab Complex
pdb|2HT3|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
Y445l Mutant And Fab Complex
pdb|2HT4|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
Y445w Mutant And Fab Complex
pdb|2HT4|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
Y445w Mutant And Fab Complex
pdb|2HTK|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
Y445a Mutant And Fab Complex
pdb|2HTK|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
Y445a Mutant And Fab Complex
pdb|2HTL|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
Y445f Mutant And Fab Complex
pdb|2HTL|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
Y445f Mutant And Fab Complex
pdb|2R9H|D Chain D, Crystal Structure Of Q207c Mutant Of Clc-Ec1 In Complex
With Fab
pdb|2R9H|F Chain F, Crystal Structure Of Q207c Mutant Of Clc-Ec1 In Complex
With Fab
pdb|3DET|D Chain D, Structure Of The E418a, Y445a Doubly Ungated Mutant Of
E.Coli Clc_ec1, Cl-H+ ANTIPORTER
pdb|3DET|F Chain F, Structure Of The E418a, Y445a Doubly Ungated Mutant Of
E.Coli Clc_ec1, Cl-H+ ANTIPORTER
pdb|3EJY|D Chain D, Structure Of E203h Mutant Of E.Coli Cl-H+ ANTIPORTER, CLC-
Ec1
pdb|3EJY|F Chain F, Structure Of E203h Mutant Of E.Coli Cl-H+ ANTIPORTER, CLC-
Ec1
pdb|3EJZ|D Chain D, Structure Of E203v Mutant E.Coli Cl-H+ EXCHANGER, CLC-Ec1
pdb|3EJZ|F Chain F, Structure Of E203v Mutant E.Coli Cl-H+ EXCHANGER, CLC-Ec1
pdb|4FG6|D Chain D, Structure Of Ecclc E148a Mutant In Glutamate
pdb|4FG6|F Chain F, Structure Of Ecclc E148a Mutant In Glutamate
pdb|4ENE|D Chain D, Structure Of The N- And C-Terminal Trimmed Clc-Ec1 Cl-H+
ANTIPORTER And Fab Complex
pdb|4ENE|F Chain F, Structure Of The N- And C-Terminal Trimmed Clc-Ec1 Cl-H+
ANTIPORTER And Fab Complex
Length = 211
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 33/152 (21%), Positives = 57/152 (37%), Gaps = 26/152 (17%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTIFTG---- 125
++L SP + A G V + C A + I W ++ + P + + +G
Sbjct: 2 IVLTQSPAIMSAAPGDKVTMTCSASSS-VSYIHWYQQKSGTSPKRWIYDTSKLTSGVPVR 60
Query: 126 ---------STLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTVQST 172
+L I + ED YYC + G G + +I ++ + AP V++
Sbjct: 61 FSGSGSGTSYSLTINTMEAEDAATYYCQQWSSHPQTFGGGTKLEI-LRADAAPTVSIFPP 119
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 120 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>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 = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 56/151 (37%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+++ S + G V + C A + ++W ++ P
Sbjct: 2 ILMTQSQKFLSTSVGDRVSVTCKASQNVGTNVAWYQQKPGQSPKPLMYSASYRYSGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL I + ED Y+C N + G+ K+E+K + AP V++
Sbjct: 62 FTGSGSGTDFTLTISNVQSEDLAEYFCQQFNRYPLTFGSGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>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 = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 36/84 (42%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL I + +ED YYC N G+ K+E+K + AP V++ Q
Sbjct: 73 TDFTLNIHPVEEEDAATYYCQQSNEDPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSG 132
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 133 GASVVCFLNNFYPKDINVKWKIDG 156
>pdb|3OPZ|H Chain H, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
pdb|3OPZ|I Chain I, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
pdb|3OPZ|J Chain J, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
Length = 222
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 33/150 (22%), Positives = 52/150 (34%), Gaps = 36/150 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRE-------------------NNAILPNGQTIF 123
+ + G SV++ C A G+ I W ++ N G+ I
Sbjct: 10 LVRPGTSVKMSCKAVGYTFTYDWIGWVKQRPGHGLEWIGDIYLGGGYINYNEKFKGKVIL 69
Query: 124 TGST------LQIPRITKEDRGAYYCVAQ-------NGIGRGARRKIEVKVEFAPIVTVQ 170
T T +Q+ +T ED YYC + G+G + AP V
Sbjct: 70 TADTSSSTAYMQLSSLTSEDSAIYYCARGHYDGSYFDYWGQGTTLTVSSAKTTAPSVYPL 129
Query: 171 STRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 130 APVCGDTSGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|3HUJ|E Chain E, Crystal Structure Of Human Cd1d-Alpha-Galactosylceramide
In Complex With Semi-Invariant Nkt Cell Receptor
pdb|3HUJ|G Chain G, Crystal Structure Of Human Cd1d-Alpha-Galactosylceramide
In Complex With Semi-Invariant Nkt Cell Receptor
pdb|3VWJ|C Chain C, Ternary Crystal Structure Of The Human Nkt Tcr-Cd1d-C20:2
Complex
pdb|3VWK|C Chain C, Ternary Crystal Structure Of The Human Nkt
Tcr-Cd1d-4'deoxy-Alpha- Galactosylceramide Complex
Length = 209
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%)
Query: 80 SPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS 126
SPQ + EG++ L+C+ P + W +++ P TI T S
Sbjct: 8 SPQSLIILEGKNCTLQCNYTVSPFSNLRWYKQDTGRGPVSLTIMTFS 54
>pdb|1FNL|A Chain A, Crystal Structure Of The Extracellular Domain Of A Human
Fcgriii
Length = 175
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 29/67 (43%), Gaps = 19/67 (28%)
Query: 85 VAKEGQSVQLECHAEGHPIPTISWRRENNAI-----LPNGQT---IFTGSTLQIPRITKE 136
V KE + L CH SW+ N A+ L NG+ S IP+ T +
Sbjct: 99 VFKEEDPIHLRCH---------SWK--NTALHKVTYLQNGKDRKYFHHNSDFHIPKATLK 147
Query: 137 DRGAYYC 143
D G+Y+C
Sbjct: 148 DSGSYFC 154
>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 = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%)
Query: 80 SPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS 126
SPQ + EG++ L+C+ P + W +++ P TI T S
Sbjct: 9 SPQSLIILEGKNCTLQCNYTVSPFSNLRWYKQDTGRGPVSLTIMTFS 55
>pdb|1FBI|H Chain H, Crystal Structure Of A Cross-Reaction Complex Between Fab
F9.13.7 And Guinea-Fowl Lysozyme
pdb|1FBI|Q Chain Q, Crystal Structure Of A Cross-Reaction Complex Between Fab
F9.13.7 And Guinea-Fowl Lysozyme
Length = 221
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/92 (22%), Positives = 34/92 (36%), Gaps = 27/92 (29%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN-------------NAILPNGQTIFTG 125
P + K G SV+L C A G+ + + W ++ + PN F G
Sbjct: 7 PGAELVKPGASVKLSCKASGYTFTSYWMHWVKQGPGQGLEWIGEIDPSDSYPNYNEKFKG 66
Query: 126 ------------STLQIPRITKEDRGAYYCVA 145
+ +Q+ +T ED YYC +
Sbjct: 67 KATLTVDKSSSTAYMQLSSLTSEDSAVYYCAS 98
>pdb|3TYF|A Chain A, Crystal Structure Of A Cd1d-Lysophosphatidylcholine
Reactive Inkt Tcr
pdb|3TYF|C Chain C, Crystal Structure Of A Cd1d-Lysophosphatidylcholine
Reactive Inkt Tcr
pdb|3TZV|A Chain A, Crystal Structure Of An Inkt Tcr In Complex With Cd1d-
Lysophosphatidylcholine
pdb|3TZV|G Chain G, Crystal Structure Of An Inkt Tcr In Complex With Cd1d-
Lysophosphatidylcholine
Length = 213
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%)
Query: 80 SPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS 126
SPQ + EG++ L+C+ P + W +++ P TI T S
Sbjct: 9 SPQSLIILEGKNCTLQCNYTVSPFSNLRWYKQDTGRGPVSLTIMTFS 55
>pdb|2CDE|A Chain A, Structure And Binding Kinetics Of Three Different Human
Cd1d-Alpha-Galactosylceramide Specific T Cell Receptors
- Inkt-Tcr
pdb|2CDE|C Chain C, Structure And Binding Kinetics Of Three Different Human
Cd1d-Alpha-Galactosylceramide Specific T Cell Receptors
- Inkt-Tcr
pdb|2CDE|E Chain E, Structure And Binding Kinetics Of Three Different Human
Cd1d-Alpha-Galactosylceramide Specific T Cell Receptors
- Inkt-Tcr
Length = 192
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/47 (29%), Positives = 23/47 (48%)
Query: 80 SPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS 126
SPQ + EG++ L+C+ P + W +++ P TI T S
Sbjct: 6 SPQSLIILEGKNCTLQCNYTVSPFSNLRWYKQDTGRGPVSLTIMTFS 52
>pdb|3IF1|B Chain B, Crystal Structure Of 237mab In Complex With A Galnac
pdb|3IF1|D Chain D, Crystal Structure Of 237mab In Complex With A Galnac
Length = 217
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 33/78 (42%), Gaps = 6/78 (7%)
Query: 127 TLQIPRITKEDRGAYYC----VAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDM 182
+LQ+ + ED G YYC V G+G + K AP V + G +
Sbjct: 82 SLQMNSLRAEDTGIYYCSGGKVRNAYWGQGTTVTVSSKTTKAPSVYPLAPVCGDTTGSSV 141
Query: 183 DLDCHIEAY-PHPI-LYW 198
L C ++ Y P P+ L W
Sbjct: 142 TLGCLVKGYFPEPVTLTW 159
>pdb|3FO2|L Chain L, Crystal Structure Of Hapten Complex Of Catalytic
Elimination Antibody 13g5 (Glu(L39)gln Mutant)
pdb|3FO2|A Chain A, Crystal Structure Of Hapten Complex Of Catalytic
Elimination Antibody 13g5 (Glu(L39)gln Mutant)
Length = 219
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
T TL+I R+ ED G YYC + + G K+E+K
Sbjct: 74 TDFTLKINRVEAEDLGVYYCFQGSHLPPTFGGGTKLEIK 112
>pdb|3FO0|L Chain L, Crystal Structure Of Hapten Complex Of Catalytic
Elimination Antibody 13g5 (Wild-Type)
Length = 219
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
T TL+I R+ ED G YYC + + G K+E+K
Sbjct: 74 TDFTLKINRVEAEDLGVYYCFQGSHLPPTFGGGTKLEIK 112
>pdb|4FAB|H Chain H, Three-Dimensional Structure Of A Fluorescein-Fab Complex
Crystallized In 2-Methyl-2,4-Pentanediol
Length = 216
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 31/77 (40%), Gaps = 6/77 (7%)
Query: 128 LQIPRITKEDRGAYYCV----AQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMD 183
LQ+ + ED G YYC + G+G + AP V + G +
Sbjct: 83 LQMNNLRVEDMGIYYCTGSYYGMDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVT 142
Query: 184 LDCHIEAY-PHPI-LYW 198
L C ++ Y P P+ L W
Sbjct: 143 LGCLVKGYFPEPVTLTW 159
>pdb|1E4K|C Chain C, Crystal Structure Of Soluble Human Igg1 Fc
Fragment-Fc-Gamma Receptor Iii Complex
pdb|1E4J|A Chain A, Crystal Structure Of The Soluble Human Fc-Gamma Receptor
Iii
Length = 176
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 29/67 (43%), Gaps = 19/67 (28%)
Query: 85 VAKEGQSVQLECHAEGHPIPTISWRRENNAI-----LPNGQT---IFTGSTLQIPRITKE 136
V KE + L CH SW+ N A+ L NG+ S IP+ T +
Sbjct: 100 VFKEEDPIHLRCH---------SWK--NTALHKVTYLQNGKDRKYFHHNSDFHIPKATLK 148
Query: 137 DRGAYYC 143
D G+Y+C
Sbjct: 149 DSGSYFC 155
>pdb|1T83|C Chain C, Crystal Structure Of A Human Type Iii Fc Gamma Receptor In
Complex With An Fc Fragment Of Igg1 (Orthorhombic)
pdb|1T89|C Chain C, Crystal Structure Of A Human Type Iii Fc Gamma Receptor In
Complex With An Fc Fragment Of Igg1 (Hexagonal)
Length = 176
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 29/67 (43%), Gaps = 19/67 (28%)
Query: 85 VAKEGQSVQLECHAEGHPIPTISWRRENNAI-----LPNGQT---IFTGSTLQIPRITKE 136
V KE + L CH SW+ N A+ L NG+ S IP+ T +
Sbjct: 99 VFKEEDPIHLRCH---------SWK--NTALHKVTYLQNGKDRKYFHHNSDFHIPKATLK 147
Query: 137 DRGAYYC 143
D G+Y+C
Sbjct: 148 DSGSYFC 154
>pdb|3IET|B Chain B, Crystal Structure Of 237mab With Antigen
pdb|3IET|D Chain D, Crystal Structure Of 237mab With Antigen
Length = 218
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 33/78 (42%), Gaps = 6/78 (7%)
Query: 127 TLQIPRITKEDRGAYYC----VAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDM 182
+LQ+ + ED G YYC V G+G + K AP V + G +
Sbjct: 82 SLQMNSLRAEDTGIYYCSGGKVRNAYWGQGTTVTVSSKTTTAPSVYPLAPVCGDTTGSSV 141
Query: 183 DLDCHIEAY-PHPI-LYW 198
L C ++ Y P P+ L W
Sbjct: 142 TLGCLVKGYFPEPVTLTW 159
>pdb|3FO1|L Chain L, Crystal Structure Of Hapten Complex Of Catalytic
Elimination Antibody 13g5 (Glu(L39)ala Mutant)
pdb|3FO1|A Chain A, Crystal Structure Of Hapten Complex Of Catalytic
Elimination Antibody 13g5 (Glu(L39)ala Mutant)
Length = 219
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 21/39 (53%), Gaps = 2/39 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
T TL+I R+ ED G YYC + + G K+E+K
Sbjct: 74 TDFTLKINRVEAEDLGVYYCFQGSHLPPTFGGGTKLEIK 112
>pdb|4EVN|A Chain A, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|C Chain C, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|E Chain E, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|G Chain G, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|I Chain I, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|K Chain K, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|M Chain M, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|O Chain O, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
Length = 242
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 34/91 (37%), Gaps = 27/91 (29%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPNGQTI------------ 122
V K G SV++ C A G P + ISW R+ I+P T
Sbjct: 11 VKKPGSSVKVSCKASGGPFRSYAISWVRQAPGQGPEWMGGIIPIFGTTKYAPKFQGRVTI 70
Query: 123 ----FTGST-LQIPRITKEDRGAYYCVAQNG 148
F G+ +++ + ED YYC G
Sbjct: 71 TADDFAGTVYMELSSLRSEDTAMYYCAKHMG 101
>pdb|1NL0|L Chain L, Crystal Structure Of Human Factor Ix Gla Domain In Complex
Of An Inhibitory Antibody, 10c12
Length = 213
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 37/158 (23%), Positives = 58/158 (36%), Gaps = 29/158 (18%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPT--ISWRRENNAILPNGQTI----------- 122
+L P +S A GQ V + C I +SW +++ P
Sbjct: 3 VLTQPPSVSAA-PGQKVTISCSGSTSNIGNNYVSWYQQHPGKAPKLMIYDVSKRPSGVPD 61
Query: 123 -FTGS------TLQIPRITKEDRGAYYCVAQNG------IGRGARRKIEVKVEFAPIVTV 169
F+GS +L I + ED YYC A + G G + + + + AP VT+
Sbjct: 62 RFSGSKSGNSASLDISGLQSEDEADYYCAAWDDSLSEFLFGTGTKLTVLGQPKAAPSVTL 121
Query: 170 QSTRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDGEIV 205
+ + L C I + YP + + W D V
Sbjct: 122 FPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPV 159
>pdb|4DN3|H Chain H, Crystal Structure Of Anti-Mcp-1 Antibody Cnto888
Length = 225
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 55/151 (36%), Gaps = 45/151 (29%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-----NGQTIFTG---- 125
V K G SV++ C A G + ISW R+ I+P N F G
Sbjct: 11 VKKPGSSVKVSCKASGGTFSSYGISWVRQAPGQGLEWMGGIIPIFGTANYAQKFQGRVTI 70
Query: 126 --------STLQIPRITKEDRGAYYCVAQNGI-------GRGARRKIEVKVEFAPIV--- 167
+ +++ + ED YYC +GI G+G + P V
Sbjct: 71 TADESTSTAYMELSSLRSEDTAVYYCARYDGIYGELDFWGQGTLVTVSSASTKGPSVFPL 130
Query: 168 --TVQSTRIGQALHHDMDLDCHIEAY-PHPI 195
+ +ST G A L C ++ Y P P+
Sbjct: 131 APSSKSTSGGTAA-----LGCLVKDYFPEPV 156
>pdb|2XQY|G Chain G, Crystal Structure Of Pseudorabies Core Fragment Of
Glycoprotein H In Complex With Fab D6.3
pdb|2XQY|J Chain J, Crystal Structure Of Pseudorabies Core Fragment Of
Glycoprotein H In Complex With Fab D6.3
Length = 261
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 31/153 (20%), Positives = 54/153 (35%), Gaps = 35/153 (22%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------------------NAILPN 118
P + K G SV++ C A G+ + ++W ++ N +
Sbjct: 13 PGAELVKPGASVKMSCKASGYSFTSYWMNWVKQRPGRGLEWIGRIDPSDNETHYNQDFKD 72
Query: 119 GQTIFTGST-----LQIPRITKEDRGAYYC------VAQNGIGRGARRKIEVKVEFAPIV 167
T+ + +Q+ +T ED YYC + G+G + AP V
Sbjct: 73 KVTLTVDKSSSTVYIQLSSLTSEDSAVYYCGRLGYVYGFDYWGQGTTLTVSSAKTTAPSV 132
Query: 168 TVQSTRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 133 YPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 165
>pdb|2WWK|O Chain O, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig F17r
Mutant Complex
Length = 109
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 30/87 (34%), Gaps = 19/87 (21%)
Query: 72 TPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIP 131
+PP L + V G +L+C G P P + W + GQ + L P
Sbjct: 13 SPPCFLRRPRPVRVVS-GAEAELKCVVLGEPPPVVVWEK-------GGQQLAASERLSFP 64
Query: 132 RITKE-----------DRGAYYCVAQN 147
E D G Y C A+N
Sbjct: 65 ADGAEHGLLLTAALPTDAGVYVCRARN 91
>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 = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 40/91 (43%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L I + +ED Y+C N + R G K+E+K + AP V++
Sbjct: 62 FSGSGSGTDYSLTISNLEQEDIATYFCQQGNTLPRTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHIEA-YPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|4DN4|H Chain H, Crystal Structure Of The Complex Between Cnto888 Fab And
Mcp-1 Mutant P8a
Length = 228
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 55/151 (36%), Gaps = 45/151 (29%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-----NGQTIFTG---- 125
V K G SV++ C A G + ISW R+ I+P N F G
Sbjct: 11 VKKPGSSVKVSCKASGGTFSSYGISWVRQAPGQGLEWMGGIIPIFGTANYAQKFQGRVTI 70
Query: 126 --------STLQIPRITKEDRGAYYCVAQNGI-------GRGARRKIEVKVEFAPIV--- 167
+ +++ + ED YYC +GI G+G + P V
Sbjct: 71 TADESTSTAYMELSSLRSEDTAVYYCARYDGIYGELDFWGQGTLVTVSSASTKGPSVFPL 130
Query: 168 --TVQSTRIGQALHHDMDLDCHIEAY-PHPI 195
+ +ST G A L C ++ Y P P+
Sbjct: 131 APSSKSTSGGTAA-----LGCLVKDYFPEPV 156
>pdb|3QOT|H Chain H, Crystal Structure Of Human Germline Antibody 1-69B3
Length = 228
Score = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 55/151 (36%), Gaps = 45/151 (29%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-----NGQTIFTG---- 125
V K G SV++ C A G + ISW R+ I+P N F G
Sbjct: 11 VKKPGSSVKVSCKASGGTFSSYAISWVRQAPGQGLEWMGGIIPIFGTANYAQKFQGRVTI 70
Query: 126 --------STLQIPRITKEDRGAYYCVAQNGI-------GRGARRKIEVKVEFAPIV--- 167
+ +++ + ED YYC +GI G+G + P V
Sbjct: 71 TADESTSTAYMELSSLRSEDTAVYYCARYDGIYGELDFWGQGTLVTVSSASTKGPSVFPL 130
Query: 168 --TVQSTRIGQALHHDMDLDCHIEAY-PHPI 195
+ +ST G A L C ++ Y P P+
Sbjct: 131 APSSKSTSGGTAA-----LGCLVKDYFPEPV 156
>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 = 28.9 bits (63), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 37/158 (23%), Positives = 58/158 (36%), Gaps = 29/158 (18%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPT--ISWRRENNAILPNGQTI----------- 122
+L P +S A GQ V + C I +SW +++ P
Sbjct: 3 VLTQPPSVSAA-PGQKVTISCSGSTSNIGNNYVSWYQQHPGKAPKLMIYDVSKRPSGVPD 61
Query: 123 -FTGS------TLQIPRITKEDRGAYYCVAQNG------IGRGARRKIEVKVEFAPIVTV 169
F+GS +L I + ED YYC A + G G + + + + AP VT+
Sbjct: 62 RFSGSKSGNSASLDISGLQSEDEADYYCAAWDDSLSEFLFGTGTKLTVLGQPKAAPSVTL 121
Query: 170 QSTRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDGEIV 205
+ + L C I + YP + + W D V
Sbjct: 122 FPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPV 159
>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 = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 41/90 (45%), Gaps = 5/90 (5%)
Query: 118 NGQTIFTGSTLQIPRITKEDRGAYYCVA--QNGIGRGARRKIEVK-VEFAPIVTVQSTRI 174
+G+ T TL I + +ED YYC ++ + GA K+E+K + AP V++
Sbjct: 67 SGRGSGTDFTLNIHPVEEEDAATYYCQQSHEDPLTFGAGTKLELKRADAAPTVSIFPPSS 126
Query: 175 GQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 127 EQLTSGGASVVCFLNNFYPKDINVKWKIDG 156
>pdb|3QPQ|H Chain H, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|F Chain F, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|D Chain D, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|J Chain J, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
Length = 223
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 34/90 (37%), Gaps = 27/90 (30%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRRE--------------NNAILPNGQTIFT 124
P + + G SV+L C A G+ T I W ++ NN + + T
Sbjct: 7 PGAELVQPGTSVRLSCKASGYIFTTYWIHWVKQRPGQGLEWIGEINPNNGRINYNEKFKT 66
Query: 125 GSTL-----------QIPRITKEDRGAYYC 143
+TL Q+ +T ED YYC
Sbjct: 67 KATLTVDKSSSTAYMQLSSLTSEDSAVYYC 96
>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 = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 34/151 (22%), Positives = 56/151 (37%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+++ S + G V + C A + ++W ++ P
Sbjct: 2 ILMTQSQKFLSTSVGDRVSVTCKASQNVGTNVAWYQKKPGQSPKPLMYSASYRYSGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL I + ED Y+C N + G+ K+E+K + AP V++
Sbjct: 62 FTGSGSGTDFTLTISNVQSEDLAEYFCQQFNRYPLTFGSGTKLELKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|2VXV|L Chain L, Crystal Structure Of Human Igg Abt-325 Fab Fragment
Length = 214
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 28/119 (23%), Positives = 42/119 (35%), Gaps = 26/119 (21%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGST------- 127
+++ SP G+ L C A ++W ++ P I+T ST
Sbjct: 2 IVMTQSPATLSVSPGERATLSCRASESISSNLAWYQQKPGQAPR-LFIYTASTRATDIPA 60
Query: 128 ------------LQIPRITKEDRGAYYCVAQNG-----IGRGARRKIEVKVEFAPIVTV 169
L I + ED YYC N G+G R +I+ V AP V +
Sbjct: 61 RFSGSGSGTEFTLTISSLQSEDFAVYYCQQYNNWPSITFGQGTRLEIKRTVA-APSVFI 118
>pdb|1LMK|A Chain A, The Structure Of A Bivalent Diabody
pdb|1LMK|C Chain C, The Structure Of A Bivalent Diabody
pdb|1LMK|E Chain E, The Structure Of A Bivalent Diabody
pdb|1LMK|G Chain G, The Structure Of A Bivalent Diabody
Length = 238
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 33/87 (37%), Gaps = 27/87 (31%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPNG-----------QTIF 123
+ K G+S+++ C G+ I W ++ ILP G + F
Sbjct: 10 LMKPGRSLKISCKTTGYIFSNYWIEWVKQRPGHGLEWIGKILPGGGSNTYNDKFKGKATF 69
Query: 124 TGST------LQIPRITKEDRGAYYCV 144
T T +Q+ +T ED YYC
Sbjct: 70 TADTSSNIAYMQLSSLTSEDSAVYYCA 96
>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 = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 40/91 (43%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTR 173
F+GS +L I + +ED Y+C N + R G K+E+K + AP V++
Sbjct: 62 FSGSGSGTDYSLTISNLEQEDIATYFCQQGNTLPRTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|1NCA|L Chain L, Refined Crystal Structure Of The Influenza Virus N9
Neuraminidase-Nc41 Fab Complex
pdb|1NCB|L Chain L, Crystal Structures Of Two Mutant Neuraminidase-Antibody
Complexes With Amino Acid Substitutions In The Interface
pdb|1NCC|L Chain L, Crystal Structures Of Two Mutant Neuraminidase-Antibody
Complexes With Amino Acid Substitutions In The Interface
pdb|1NCD|L Chain L, Refined Crystal Structure Of The Influenza Virus N9
Neuraminidase-Nc41 Fab Complex
Length = 214
Score = 28.9 bits (63), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 32/152 (21%), Positives = 51/152 (33%), Gaps = 25/152 (16%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN---------------- 118
+++ SP+ G V + C A + W ++ P
Sbjct: 2 IVMTQSPKFMSTSVGDRVTITCKASQDVSTAVVWYQQKPGQSPKLLIYWASTRHIGVPDR 61
Query: 119 --GQTIFTGSTLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTVQST 172
G T TL I + ED YYC G G + +I+ + + AP V++
Sbjct: 62 FAGSGSGTDYTLTISSVQAEDLALYYCQQHYSPPWTFGGGTKLEIK-RADAAPTVSIFPP 120
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|2RCS|L Chain L, Immunoglobulin 48g7 Germline Fab-Affinity Maturation Of An
Esterolytic Antibody
Length = 214
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 41/106 (38%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+ + SP A G+ V L C A +SW ++ ++ T+
Sbjct: 2 IQMTQSPSSLSASLGERVSLTCRASQEISGYLSWLQQKPDGTIKRLIYAASTLDSGVPKR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS +L I + ED YYC+ R G K+E+K
Sbjct: 62 FSGSRSGSDYSLTISSLESEDFADYYCLQYASYPRTFGGGTKVEIK 107
>pdb|3DGG|A Chain A, Crystal Structure Of Fabox108
pdb|3DGG|C Chain C, Crystal Structure Of Fabox108
Length = 217
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 41/90 (45%), Gaps = 10/90 (11%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCV-AQNGIGRGARRKIEVK-VEFAPIVTVQSTRI 174
F+GS TL I + +ED YYC ++ + GA K+E+K + AP V++
Sbjct: 66 FSGSGSGTDFTLNIHPVEEEDAATYYCQHSRELLTFGAGTKLELKRADAAPTVSIFPPSS 125
Query: 175 GQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 126 EQLTSGGASVVCFLNNFYPKDINVKWKIDG 155
>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 = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 41/90 (45%), Gaps = 5/90 (5%)
Query: 118 NGQTIFTGSTLQIPRITKEDRGAYYCVA--QNGIGRGARRKIEVK-VEFAPIVTVQSTRI 174
+G+ T TL I + +ED YYC ++ + GA K+E+K + AP V++
Sbjct: 67 SGRGSGTDFTLNIHPVEEEDAATYYCQQSHEDPLTFGAGTKLELKRADAAPTVSIFPPSS 126
Query: 175 GQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 127 EQLTSGGASVVCFLNNFYPKDINVKWKIDG 156
>pdb|1UWE|L Chain L, Molecular Mechanism Of Enantioselective Proton Transfer To
Carbon In Catalytic Antibody 14d9
pdb|1UWE|U Chain U, Molecular Mechanism Of Enantioselective Proton Transfer To
Carbon In Catalytic Antibody 14d9
pdb|1UWE|X Chain X, Molecular Mechanism Of Enantioselective Proton Transfer To
Carbon In Catalytic Antibody 14d9
Length = 213
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/105 (22%), Positives = 37/105 (35%), Gaps = 20/105 (19%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------F 123
++ SP G V + C A + ++W ++ P F
Sbjct: 4 VMTQSPSFMSTSVGDRVSVTCAASQNVGTNVAWYQQKPGQPPKALIYSTSYRYSGVPDRF 63
Query: 124 TGS------TLQIPRITKEDRGAYYCVAQN--GIGRGARRKIEVK 160
TGS TL I + ED Y+C N + G K+E+K
Sbjct: 64 TGSGSGTDFTLTISNVNSEDLAEYFCQQYNIYPVTFGGGTKLEIK 108
>pdb|4F8Q|A Chain A, Crystal Structure Of The Human Btn3a2 Ectodomain
Length = 219
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 42/101 (41%), Gaps = 25/101 (24%)
Query: 110 RENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEF--APIV 167
R +IL +G T + L+I +T D G Y C Q+G +F +V
Sbjct: 68 RGRTSILRDGITAGK-AALRIHNVTASDSGKYLCYFQDG-------------DFYEKALV 113
Query: 168 TVQSTRIGQALHHDM----DLDCHIEA-----YPHPILYWA 199
++ +G LH ++ D H+E YP P + W+
Sbjct: 114 ELKVAALGSNLHVEVKGYEDGGIHLECRSTGWYPQPQIQWS 154
>pdb|3MUH|L Chain L, Crystal Structure Of Pg9 Light Chain
Length = 216
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 37/162 (22%), Positives = 65/162 (40%), Gaps = 35/162 (21%)
Query: 72 TPPVILNNSPQLSVAKEGQSVQLECHAEGHPI---PTISWRRE-----------NNAILP 117
T P ++ SP GQS+ + C+ + + ++SW ++ + + P
Sbjct: 5 TQPASVSGSP-------GQSITISCNGTSNDVGGYESVSWYQQHPGKAPKVVIYDVSKRP 57
Query: 118 NG-QTIFTGS------TLQIPRITKEDRGAYYCVAQNG-----IGRGARRKIEVKVEFAP 165
+G F+GS +L I + ED G YYC + G G + + + + AP
Sbjct: 58 SGVSNRFSGSKSGNTASLTISGLQAEDEGDYYCKSLTSTRRRVFGTGTKLTVLGQPKAAP 117
Query: 166 IVTVQSTRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDGEIV 205
VT+ + + L C I + YP + + W D V
Sbjct: 118 SVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPV 159
>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 = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 41/106 (38%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+ + SP A G+ V L C A +SW ++ ++ T+
Sbjct: 2 IQMTQSPSSLSASLGERVSLTCRASQEISGYLSWLQQKPDGTIKRLIYAASTLDSGVPKR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK 160
F+GS +L I + ED YYC+ R G K+E+K
Sbjct: 62 FSGSRSGSDYSLTISSLESEDFADYYCLQYASYPRTFGGGTKVEIK 107
>pdb|3UBX|H Chain H, Crystal Structure Of The Mouse Cd1d-C20:2-Agalcer-L363 Mab
Fab Complex
pdb|3UBX|G Chain G, Crystal Structure Of The Mouse Cd1d-C20:2-Agalcer-L363 Mab
Fab Complex
Length = 222
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 33/156 (21%), Positives = 55/156 (35%), Gaps = 38/156 (24%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGH-------------PIPTISWRRENNAILP----- 117
++ + P+L K G++V++ C A G+ P + W N
Sbjct: 4 LVQSGPELK--KPGETVRISCKASGYSFTNYGMHWVKQAPGKGLKWVGWINTYTGEPTYA 61
Query: 118 ---NGQTIFTGST------LQIPRITKEDRGAYYCVAQNGI--------GRGARRKIEVK 160
G+ F+ T L+I + ED Y C + GI G+G +
Sbjct: 62 DDFKGRFAFSLETSASTAYLEINNLKNEDMATYLCASAAGIRWAWFAWWGQGTLVTVSAA 121
Query: 161 VEFAPIVTVQSTRIGQALHHDMDLDCHIEAY-PHPI 195
AP V + G + L C ++ Y P P+
Sbjct: 122 KTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPV 157
>pdb|7FAB|L Chain L, Crystal Structure Of Human Immunoglobulin Fragment Fab New
Refined At 2.0 Angstroms Resolution
Length = 208
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 59/151 (39%), Gaps = 23/151 (15%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPT---ISWRRE------------NNAILPNGQ 120
+L P +S A GQ V + C I + W ++ NNA +
Sbjct: 3 VLTQPPSVSGA-PGQRVTISCTGSSSNIGAGHNVKWYQQLPGTAPKLLIFHNNARFSVSK 61
Query: 121 TIFTGSTLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTVQSTRIGQ 176
+ T +TL I + ED YYC + + G G + + + + AP VT+ +
Sbjct: 62 S-GTSATLAITGLQAEDEADYYCQSYDRSLRVFGGGTKLTVLRQPKAAPSVTLFPPSSEE 120
Query: 177 ALHHDMDLDCHI-EAYPHPI-LYWAKDGEIV 205
+ L C I + YP + + W DG V
Sbjct: 121 LQANKATLVCLISDFYPGAVTVAWKADGSPV 151
>pdb|3ULU|F Chain F, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|F Chain F, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 223
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 34/90 (37%), Gaps = 27/90 (30%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRRE--------------NNAILPNGQTIFT 124
P + + G SV+L C A G+ T I W ++ NN + + T
Sbjct: 7 PGAELVQPGTSVRLSCKASGYIFTTYWIHWVKQRPGQGLEWIGEINPNNGRINYNEKFKT 66
Query: 125 GSTL-----------QIPRITKEDRGAYYC 143
+TL Q+ +T ED YYC
Sbjct: 67 KATLTVDKSSSTAYMQLSSLTSEDSAVYYC 96
>pdb|2OSL|L Chain L, Crystal Structure Of Rituximab Fab In Complex With An
Epitope Peptide
pdb|2OSL|B Chain B, Crystal Structure Of Rituximab Fab In Complex With An
Epitope Peptide
Length = 213
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/106 (23%), Positives = 39/106 (36%), Gaps = 21/106 (19%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS-------- 126
++L+ SP + A G+ V + C A + I W ++ P T +
Sbjct: 2 IVLSQSPAILSASPGEKVTMTCRASSS-VSYIHWFQQKPGSSPKPWIYATSNLASGVPVR 60
Query: 127 ----------TLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK 160
+L I R+ ED YYC N G K+E+K
Sbjct: 61 FSGSGSGTSYSLTISRVEAEDAATYYCQQWTSNPPTFGGGTKLEIK 106
>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 = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 37/162 (22%), Positives = 64/162 (39%), Gaps = 35/162 (21%)
Query: 72 TPPVILNNSPQLSVAKEGQSVQLECHAEGHPI---PTISWRRE-----------NNAILP 117
T P ++ SP GQS+ + C + + ++SW ++ + + P
Sbjct: 5 TQPASVSGSP-------GQSITISCQGTSNDVGGYESVSWYQQHPGKAPKVVIYDVSKRP 57
Query: 118 NG-QTIFTGS------TLQIPRITKEDRGAYYCVAQNG-----IGRGARRKIEVKVEFAP 165
+G F+GS +L I + ED G YYC + G G + + + + AP
Sbjct: 58 SGVSNRFSGSKSGNTASLTISGLQAEDEGDYYCKSLTSTRRRVFGTGTKLTVLGQPKAAP 117
Query: 166 IVTVQSTRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDGEIV 205
VT+ + + L C I + YP + + W D V
Sbjct: 118 SVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPV 159
>pdb|2XY2|A Chain A, Crystal Structure Of Ncam2 Ig1-2
Length = 189
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 26/60 (43%), Gaps = 3/60 (5%)
Query: 87 KEGQSVQLECHAEGHPIPTISW---RRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC 143
K+G+ ++ C P P +SW E I N + + LQI I K D G Y C
Sbjct: 109 KQGEDAEVVCRVSSSPAPAVSWLYHNEEVTTISDNRFAMLANNNLQILNINKSDEGIYRC 168
>pdb|1YMM|E Chain E, TcrHLA-Dr2bMBP-Peptide Complex
Length = 249
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 30/131 (22%), Positives = 48/131 (36%), Gaps = 37/131 (28%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR------------------------ 110
+++ P ++K G SV++EC + T+ W R
Sbjct: 2 AVVSQHPSWVISKSGTSVKIECRSLDFQATTMFWYRQFPKQSLMLMATSNEGSKATYEQG 61
Query: 111 -ENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQN---------GIGRGARRKI--E 158
E + L N ++ T STL + ED Y C A++ G G R + +
Sbjct: 62 VEKDKFLINHASL-TLSTLTVTSAHPEDSSFYICSARDLTSGANNEQFFGPGTRLTVLED 120
Query: 159 VKVEFAPIVTV 169
+K F P V V
Sbjct: 121 LKNVFPPEVAV 131
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 20/37 (54%)
Query: 24 VAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLHLA 60
++K G SV++EC + T+ W R F + + +A
Sbjct: 12 ISKSGTSVKIECRSLDFQATTMFWYRQFPKQSLMLMA 48
>pdb|4F8T|A Chain A, Crystal Structure Of The Human Btn3a3 Ectodomain
Length = 226
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 26/101 (25%), Positives = 42/101 (41%), Gaps = 25/101 (24%)
Query: 110 RENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGRGARRKIEVKVEF--APIV 167
R +IL +G T + L+I +T D G Y C Q+G +F +V
Sbjct: 68 RGRTSILRDGITAGK-AALRIHNVTASDSGKYLCYFQDG-------------DFYEKALV 113
Query: 168 TVQSTRIGQALHHDM----DLDCHIEA-----YPHPILYWA 199
++ +G LH ++ D H+E YP P + W+
Sbjct: 114 ELKVAALGSDLHIEVKGYEDGGIHLECRSTGWYPQPQIKWS 154
>pdb|1J89|A Chain A, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Tetragonal Crystal Form 2
pdb|1J89|B Chain B, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Tetragonal Crystal Form 2
pdb|1J89|C Chain C, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Tetragonal Crystal Form 2
pdb|1J89|D Chain D, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Tetragonal Crystal Form 2
pdb|1J89|E Chain E, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Tetragonal Crystal Form 2
pdb|1J88|A Chain A, Human High Affinity Fc Receptor Fc(epsilon)ri(alpha),
Tetragonal Crystal Form 1
pdb|1J88|B Chain B, Human High Affinity Fc Receptor Fc(epsilon)ri(alpha),
Tetragonal Crystal Form 1
pdb|1J88|C Chain C, Human High Affinity Fc Receptor Fc(epsilon)ri(alpha),
Tetragonal Crystal Form 1
pdb|1J88|D Chain D, Human High Affinity Fc Receptor Fc(epsilon)ri(alpha),
Tetragonal Crystal Form 1
pdb|1J88|E Chain E, Human High Affinity Fc Receptor Fc(epsilon)ri(alpha),
Tetragonal Crystal Form 1
Length = 172
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 5/63 (7%)
Query: 85 VAKEGQSVQLECHA-EGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC 143
V EGQ + L CH + + + ++ A+ + + + I T ED G YYC
Sbjct: 96 VVMEGQPLFLRCHGWRNWDVYKVIYYKDGEAL----KYWYENHNISITNATVEDSGTYYC 151
Query: 144 VAQ 146
+
Sbjct: 152 TGK 154
>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 = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 35/84 (41%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL I + +ED YYC N G K+E+K + AP V++ Q
Sbjct: 73 TDFTLNIQPVEEEDAATYYCQQSNEDPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 132
Query: 181 DMDLDCHIEA-YPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 133 GASVVCFLNNFYPKDINVKWKIDG 156
>pdb|1F2Q|A Chain A, Crystal Structure Of The Human High-Affinity Ige Receptor
pdb|1J86|A Chain A, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Monoclinic Crystal Form 2
pdb|1J86|B Chain B, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Monoclinic Crystal Form 2
pdb|1RPQ|A Chain A, High Affinity Ige Receptor (Alpha Chain) Complexed With
Tight-Binding E131 'zeta' Peptide From Phage Display
pdb|1RPQ|B Chain B, High Affinity Ige Receptor (Alpha Chain) Complexed With
Tight-Binding E131 'zeta' Peptide From Phage Display
pdb|1RPQ|C Chain C, High Affinity Ige Receptor (Alpha Chain) Complexed With
Tight-Binding E131 'zeta' Peptide From Phage Display
pdb|1RPQ|D Chain D, High Affinity Ige Receptor (Alpha Chain) Complexed With
Tight-Binding E131 'zeta' Peptide From Phage Display
Length = 176
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 5/63 (7%)
Query: 85 VAKEGQSVQLECHA-EGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC 143
V EGQ + L CH + + + ++ A+ + + + I T ED G YYC
Sbjct: 96 VVMEGQPLFLRCHGWRNWDVYKVIYYKDGEAL----KYWYENHNISITNATVEDSGTYYC 151
Query: 144 VAQ 146
+
Sbjct: 152 TGK 154
>pdb|1DJS|A Chain A, Ligand-binding Portion Of Fibroblast Growth Factor
Receptor 2 In Complex With Fgf1
Length = 216
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 18/38 (47%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLH 58
+L +V+ C A G+P PT W +N K + H
Sbjct: 19 RLHAVPAANTVKFRCPAGGNPXPTXRWLKNGKEFKQEH 56
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 28/74 (37%), Gaps = 5/74 (6%)
Query: 82 QLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI-----LPNGQTIFTGSTLQIPRITKE 136
+L +V+ C A G+P PT W + + + +L +
Sbjct: 19 RLHAVPAANTVKFRCPAGGNPXPTXRWLKNGKEFKQEHRIGGYKVRNQHWSLIXESVVPS 78
Query: 137 DRGAYYCVAQNGIG 150
D+G Y CV +N G
Sbjct: 79 DKGNYTCVVENEYG 92
>pdb|1J87|A Chain A, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Hexagonal Crystal Form 1
Length = 172
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 16/63 (25%), Positives = 27/63 (42%), Gaps = 5/63 (7%)
Query: 85 VAKEGQSVQLECHA-EGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC 143
V EGQ + L CH + + + ++ A+ + + + I T ED G YYC
Sbjct: 96 VVMEGQPLFLRCHGWRNWDVYKVIYYKDGEAL----KYWYENHNISITNATVEDSGTYYC 151
Query: 144 VAQ 146
+
Sbjct: 152 TGK 154
>pdb|2ZNX|A Chain A, 5-Fluorotryptophan Incorporated Scfv10 Complexed To Hen
Egg Lysozyme
pdb|2ZNX|B Chain B, 5-Fluorotryptophan Incorporated Scfv10 Complexed To Hen
Egg Lysozyme
Length = 242
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 40/105 (38%), Gaps = 22/105 (20%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHA-------------EGHPIPTISWRRENNAI--LP-- 117
++L SP G SV L C A + H P + + + +I +P
Sbjct: 2 IVLTQSPATLSVTPGNSVSLSCRASQSIGNNLHXYQQKSHESPRLLIKYASQSISGIPSR 61
Query: 118 -NGQTIFTGSTLQIPRITKEDRGAYYCVAQNG----IGRGARRKI 157
+G T TL I + ED G Y+C N G G + +I
Sbjct: 62 FSGSGSGTDFTLSINSVETEDFGMYFCQQSNSXPYTFGGGTKLEI 106
>pdb|2ZCH|L Chain L, Crystal Structure Of Human Prostate Specific Antigen
Complexed With An Activating Antibody
Length = 215
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 35/84 (41%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T TL I + +ED YYC N G K+E+K + AP V++ Q
Sbjct: 73 TDFTLNIQPVEEEDAATYYCQQSNEDPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSG 132
Query: 181 DMDLDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 133 GASVVCFLNNFYPKDINVKWKIDG 156
>pdb|1JP5|A Chain A, Crystal Structure Of The Single-Chain Fv Fragment 1696 In
Complex With The Epitope Peptide Corresponding To N-
Terminus Of Hiv-1 Protease
pdb|1JP5|B Chain B, Crystal Structure Of The Single-Chain Fv Fragment 1696 In
Complex With The Epitope Peptide Corresponding To N-
Terminus Of Hiv-1 Protease
pdb|1SVZ|A Chain A, Crystal Structure Of The Single-Chain Fv Fragment 1696 In
Complex With The Epitope Peptide Corresponding To N-
Terminus Of Hiv-2 Protease
pdb|1SVZ|B Chain B, Crystal Structure Of The Single-Chain Fv Fragment 1696 In
Complex With The Epitope Peptide Corresponding To N-
Terminus Of Hiv-2 Protease
Length = 247
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 20/39 (51%), Gaps = 2/39 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
T TL+I R+ ED G YYC + G K+E+K
Sbjct: 74 TDFTLKISRVEAEDLGIYYCFQGSHFPPTFGGGTKLEIK 112
>pdb|3SGJ|C Chain C, Unique Carbohydrate-Carbohydrate Interactions Are Required
For High Affinity Binding Between Fcgiii And Antibodies
Lacking Core Fucose
pdb|3SGK|C Chain C, Unique CarbohydrateCARBOHYDRATE INTERACTIONS ARE REQUIRED
FOR HIGH Affinity Binding Of Fcgiii And Antibodies
Lacking Core Fucose
Length = 204
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 35/85 (41%), Gaps = 19/85 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPTISWRRENNAI-----LPNGQ---TIFTGSTLQIPRITKE 136
V KE + L CH SW+ N A+ L NG+ S IP+ T +
Sbjct: 99 VFKEEDPIHLRCH---------SWK--NTALHKVTYLQNGKGRKYFHHNSDFYIPKATLK 147
Query: 137 DRGAYYCVAQNGIGRGARRKIEVKV 161
D G+Y+C G + +++ +
Sbjct: 148 DSGSYFCRGLVGSKNVSSETVQITI 172
>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 = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 27/108 (25%), Positives = 41/108 (37%), Gaps = 22/108 (20%)
Query: 72 TPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP--------NGQ--- 120
TP + + SP A G V + C A I ++W ++ P N Q
Sbjct: 1 TPDIQMTQSPSSLSASVGDRVTITCQASQDIIKYLNWYQQKPGKAPKLLIYEASNLQAGV 60
Query: 121 -TIFTGS------TLQIPRITKEDRGAYYCVAQNGI----GRGARRKI 157
+ F+GS T I + ED YYC + G+G + +I
Sbjct: 61 PSRFSGSGSGTDYTFTISSLQPEDIATYYCQQYQSLPYTFGQGTKLQI 108
>pdb|3QHF|L Chain L, Crystal Structure Of Fab Del2d1, A Deletion Variant Of
Anti-Influenza Antibody 2d1
Length = 217
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 40/97 (41%), Gaps = 9/97 (9%)
Query: 118 NGQTIFTGSTLQIPRITKEDRGAYYCVAQ----NG---IGRGARRKIEVKVEFAPIVTVQ 170
+G T ++L I + ED YYC A NG G G + + + + AP VT+
Sbjct: 64 SGSKSATSASLAISGLQSEDEADYYCAAWDDSLNGFWVFGGGTKLTVLGQPKAAPSVTLF 123
Query: 171 STRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDGEIV 205
+ + L C I + YP + + W D V
Sbjct: 124 PPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPV 160
>pdb|2WBJ|D Chain D, Tcr Complex
pdb|2WBJ|H Chain H, Tcr Complex
Length = 279
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 22/98 (22%), Positives = 37/98 (37%), Gaps = 26/98 (26%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR------------------------ 110
+++ P ++K G SV++EC + T+ W R
Sbjct: 25 AVVSQHPSWVISKSGTSVKIECRSLDFQATTMFWYRQFPKQSLMLMATSNEGSKATYEQG 84
Query: 111 -ENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQN 147
E + L N ++ T STL + ED Y C A++
Sbjct: 85 VEKDKFLINHASL-TLSTLTVTSAHPEDSSFYICSARD 121
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 20/37 (54%)
Query: 24 VAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLHLA 60
++K G SV++EC + T+ W R F + + +A
Sbjct: 35 ISKSGTSVKIECRSLDFQATTMFWYRQFPKQSLMLMA 71
>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 = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 36/149 (24%), Positives = 57/149 (38%), Gaps = 25/149 (16%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP------------------N 118
L P +SV+ GQ+ ++ C + P W +E + P +
Sbjct: 4 LKQPPSVSVSP-GQTARITCSGDVLPKKYAYWYQERSGQAPVLVVYEDSGRPSEIPERFS 62
Query: 119 GQTIFTGSTLQIPRITKEDRGAYYCVAQNGIGR---GARRKIEV-KVEFAPIVTVQSTRI 174
G + T +TL I ED YYC + G G K+ V + + AP VT+
Sbjct: 63 GSSSGTKATLTISGAQVEDEADYYCYSDISNGYPLFGGGTKLSVGQPKAAPSVTLFPPSS 122
Query: 175 GQALHHDMDLDCHI-EAYPHPI-LYWAKD 201
+ + L C I + YP + + W D
Sbjct: 123 EELQANKATLVCLISDFYPGAVTVAWKAD 151
>pdb|2WNG|A Chain A, Complete Extracellular Structure Of Human Signal
Regulatory Protein (Sirp) Alpha
Length = 327
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 36/85 (42%), Gaps = 11/85 (12%)
Query: 127 TLQIPRITKEDRGAYYCVA------QNGIGRGARRKIEVKVE-FAPIVTVQSTRIGQALH 179
++ I IT D G YYCV GA ++ V+ + AP+V+ + R
Sbjct: 75 SISISNITPADAGTYYCVKFRKGSPDTEFKSGAGTELSVRAKPSAPVVSGPAAR--ATPQ 132
Query: 180 HDMDLDCHIEAY-PHPI-LYWAKDG 202
H + C + P I L W K+G
Sbjct: 133 HTVSFTCESHGFSPRDITLKWFKNG 157
>pdb|3MJG|X Chain X, The Structure Of A Platelet Derived Growth Factor Receptor
Complex
pdb|3MJG|Y Chain Y, The Structure Of A Platelet Derived Growth Factor Receptor
Complex
Length = 289
Score = 28.5 bits (62), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 29/69 (42%), Gaps = 9/69 (13%)
Query: 84 SVAKEGQSVQLECHAEGHPIPTISW---RRENNAILPNGQTIFTG------STLQIPRIT 134
+V ++G+++ L C G+ + W R+E+ ++ S L IP
Sbjct: 191 TVVRQGENITLMCIVIGNEVVNFEWTYPRKESGRLVEPVTDFLLDMPYHIRSILHIPSAE 250
Query: 135 KEDRGAYYC 143
ED G Y C
Sbjct: 251 LEDSGTYTC 259
>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 = 28.5 bits (62), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 40/97 (41%), Gaps = 9/97 (9%)
Query: 118 NGQTIFTGSTLQIPRITKEDRGAYYCVAQ----NG---IGRGARRKIEVKVEFAPIVTVQ 170
+G T ++L I + ED YYC A NG G G + + + + AP VT+
Sbjct: 64 SGSKSATSASLAISGLQSEDEADYYCAAWDDSLNGFWVFGGGTKLTVLGQPKAAPSVTLF 123
Query: 171 STRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDGEIV 205
+ + L C I + YP + + W D V
Sbjct: 124 PPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPV 160
>pdb|3MBE|C Chain C, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
pdb|3MBE|G Chain G, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
Length = 229
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%), Gaps = 1/29 (3%)
Query: 126 STLQIPRITKEDRGAYYCVAQNGIGRGAR 154
STL I ED G Y+C A++G G G +
Sbjct: 70 STLHIKDAQLEDSGTYFCAAEDG-GSGNK 97
>pdb|3KNB|B Chain B, Crystal Structure Of The Titin C-Terminus In Complex With
Obscurin- Like 1
Length = 107
Score = 28.5 bits (62), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/97 (23%), Positives = 32/97 (32%), Gaps = 19/97 (19%)
Query: 62 PYTSPEAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQT 121
P + +PP L + V G +L+C G P P + W + GQ
Sbjct: 2 PMKASSGDQGSPPCFLRFPRPVRVVS-GAEAELKCVVLGEPPPVVVWEK-------GGQQ 53
Query: 122 IFTGSTLQIPRITKE-----------DRGAYYCVAQN 147
+ L P E D G Y C A+N
Sbjct: 54 LAASERLSFPADGAEHGLLLTAALPTDAGVYVCRARN 90
>pdb|3NGB|L Chain L, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc01 In Complex With Hiv-1 Gp120
pdb|3NGB|C Chain C, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc01 In Complex With Hiv-1 Gp120
pdb|3NGB|F Chain F, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc01 In Complex With Hiv-1 Gp120
pdb|3NGB|K Chain K, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc01 In Complex With Hiv-1 Gp120
Length = 210
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 21/105 (20%), Positives = 41/105 (39%), Gaps = 22/105 (20%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGST------- 127
++L SP G++ + C + +++W ++ P I++GST
Sbjct: 2 IVLTQSPGTLSLSPGETAIISCRTSQYG--SLAWYQQRPGQAPR-LVIYSGSTRAAGIPD 58
Query: 128 ------------LQIPRITKEDRGAYYCVAQNGIGRGARRKIEVK 160
L I + D G YYC G+G + ++++K
Sbjct: 59 RFSGSRWGPDYNLTISNLESGDFGVYYCQQYEFFGQGTKVQVDIK 103
>pdb|4FOM|A Chain A, Crystal Structure Of Human Nectin-3 Full Ectodomain
(D1-D3)
Length = 308
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 33/69 (47%), Gaps = 2/69 (2%)
Query: 90 QSVQLECHAEGHPIPTIS-WRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNG 148
+ V L+C+A+ +P P S W R + P+G + + +T G Y C N
Sbjct: 228 KGVNLKCNADANPPPFKSVWSRLDGQ-WPDGLLASDNTLHFVHPLTFNYSGVYICKVTNS 286
Query: 149 IGRGARRKI 157
+G+ + +K+
Sbjct: 287 LGQRSDQKV 295
>pdb|3AY4|C Chain C, Crystal Structure Of Nonfucosylated Fc Complexed With
Bis-Glycosylated Soluble Form Of Fc Gamma Receptor Iiia
Length = 179
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 35/85 (41%), Gaps = 19/85 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPTISWRRENNAI-----LPNGQ---TIFTGSTLQIPRITKE 136
V KE + L CH SW+ N A+ L NG+ S IP+ T +
Sbjct: 97 VFKEEDPIHLRCH---------SWK--NTALHKVTYLQNGKGRKYFHHNSDFYIPKATLK 145
Query: 137 DRGAYYCVAQNGIGRGARRKIEVKV 161
D G+Y+C G + +++ +
Sbjct: 146 DSGSYFCRGLVGSKNVSSETVQITI 170
>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 = 28.5 bits (62), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 39/97 (40%), Gaps = 9/97 (9%)
Query: 118 NGQTIFTGSTLQIPRITKEDRGAYYCVAQNG-------IGRGARRKIEVKVEFAPIVTVQ 170
+G T ++L I + ED YYC A + G G + + + + AP VT+
Sbjct: 64 SGSKSGTSASLAISGLQSEDEAVYYCAAWDDSLSAHVVFGGGTKLTVLGQPKAAPSVTLF 123
Query: 171 STRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDGEIV 205
+ + L C I + YP + + W D V
Sbjct: 124 PPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPV 160
>pdb|1NUN|B Chain B, Crystal Structure Analysis Of The Fgf10-fgfr2b Complex
Length = 230
Score = 28.5 bits (62), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 12/38 (31%), Positives = 18/38 (47%)
Query: 21 QLSVAKEGQSVQLECHAEGHPIPTISWRRNFKRLGRLH 58
+L +V+ C A G+P PT W +N K + H
Sbjct: 26 RLHAVPAANTVKFRCPAGGNPXPTXRWLKNGKEFKQEH 63
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 17/74 (22%), Positives = 28/74 (37%), Gaps = 5/74 (6%)
Query: 82 QLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI-----LPNGQTIFTGSTLQIPRITKE 136
+L +V+ C A G+P PT W + + + +L +
Sbjct: 26 RLHAVPAANTVKFRCPAGGNPXPTXRWLKNGKEFKQEHRIGGYKVRNQHWSLIXESVVPS 85
Query: 137 DRGAYYCVAQNGIG 150
D+G Y CV +N G
Sbjct: 86 DKGNYTCVVENEYG 99
>pdb|1PG7|X Chain X, Murine 6a6 Fab In Complex With Humanized Anti-Tissue
Factor D3h44 Fab
pdb|1PG7|Z Chain Z, Murine 6a6 Fab In Complex With Humanized Anti-Tissue
Factor D3h44 Fab
Length = 220
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 33/151 (21%), Positives = 56/151 (37%), Gaps = 37/151 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIP--TISWRRE---------------NNAILPNGQ------- 120
+ K G SV++ C A G+ ++W ++ N AI N +
Sbjct: 11 LVKPGASVKISCKASGYSFTGHLLNWVKQSHGKNLEWIGLVHPHNGAITYNQKFKDKATL 70
Query: 121 TIFTGST---LQIPRITKEDRGAYYCV--------AQNGIGRGARRKIEVKVEFAPIVTV 169
T+ ST +++ R+T D YYC + + G+G + P V
Sbjct: 71 TVDRSSTTAYIELVRLTSNDSAVYYCAREDFRYHYSMDYWGQGTSVTVSSAKTTPPSVYP 130
Query: 170 QSTRIGQALHHDMDLDCHIEAY-PHPI-LYW 198
+ G + L C ++ Y P P+ L W
Sbjct: 131 LAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 161
>pdb|1AXT|H Chain H, Immune Versus Natural Selection: Antibody Aldolases With
The Rates Of Natural Enzymes
pdb|3FO9|H Chain H, Crystal Structure Of Aldolase Antibody 33f12 Fab' In
Complex With Hapten 1,3-Diketone
pdb|3FO9|B Chain B, Crystal Structure Of Aldolase Antibody 33f12 Fab' In
Complex With Hapten 1,3-Diketone
Length = 218
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 32/77 (41%), Gaps = 6/77 (7%)
Query: 128 LQIPRITKEDRGAYYC----VAQNGIGRGARRKIEVKVEFAPIVTVQSTRIGQALHHDMD 183
LQ+ + ED G YYC + + G+G + AP V + G +
Sbjct: 83 LQMNSLRTEDTGIYYCKIYFYSFSYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSVT 142
Query: 184 LDCHIEAY-PHPI-LYW 198
L C ++ Y P P+ L W
Sbjct: 143 LGCLVKGYFPEPVTLTW 159
>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 = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 30/87 (34%), Gaps = 19/87 (21%)
Query: 72 TPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGSTLQIP 131
+PP L + V G +L+C G P P + W + GQ + L P
Sbjct: 13 SPPCFLRFPRPVRVVS-GAEAELKCVVLGEPPPVVVWEK-------GGQQLAASERLSFP 64
Query: 132 RITKE-----------DRGAYYCVAQN 147
E D G Y C A+N
Sbjct: 65 ADGAEHGLLLTAALPTDAGVYVCRARN 91
>pdb|1RVF|L Chain L, Fab Complexed With Intact Human Rhinovirus
Length = 110
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 25/107 (23%), Positives = 43/107 (40%), Gaps = 23/107 (21%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS-------- 126
++L SP + A G+ V + C A + + W ++ P I++ S
Sbjct: 2 IVLTQSPAIMSAFPGEKVTITCSATSS-VNYMHWFQQKPGTSPK-LWIYSSSNLASGVPA 59
Query: 127 -----------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
+L I R+ ED YYC ++ I G+ K+E+K
Sbjct: 60 RFSGSGSGTSYSLTISRMEAEDAATYYCQQRSSYPITFGSGTKLEIK 106
>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 = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 36/151 (23%), Positives = 58/151 (38%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN-----NAILPNGQTI------- 122
+ + SP A G+ V L C A +SW ++ ++ T+
Sbjct: 2 IQMTQSPSSLSASLGERVSLTCRASQEISGYLSWLQQKPDGTIKRLIYAASTLDSGVPKR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCV--AQNGIGRGARRKIEV-KVEFAPIVTVQSTR 173
F+GS +L I + ED YYC+ A + G K+E+ + AP V++
Sbjct: 62 FSGSRSGSDYSLTISSLESEDFADYYCLQYASSPYTFGGGTKLEILRGGAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|4AG4|H Chain H, Crystal Structure Of A Ddr1-Fab Complex
Length = 215
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 33/143 (23%), Positives = 51/143 (35%), Gaps = 32/143 (22%)
Query: 85 VAKEGQSVQLECHAEGH--PIPTISWRREN--------NAILPNG------QTIFTGSTL 128
+ + G SV+L C A G+ I I+W ++ I P+G Q +TL
Sbjct: 11 LVRPGASVKLSCKASGYTFSISWINWVKQRPGQGLEWIGNIYPSGGYTNYNQKFKDKATL 70
Query: 129 -----------QIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTVQSTR 173
Q+ T ED YYC G G+G + P V +
Sbjct: 71 TVDKSSNTAYIQLSSPTSEDSAVYYCTRGYGHLDYWGQGTTLTVSAAKTTPPSVYPLAPG 130
Query: 174 IGQALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 SAAQTNSMVTLGCLVKGYFPEPV 153
>pdb|3ET9|F Chain F, Crystal Structure Of The Engineered Neutralizing Antibody
1h
Length = 252
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 25/111 (22%), Positives = 44/111 (39%), Gaps = 20/111 (18%)
Query: 70 VDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRREN------------NAILP 117
D ++L S A G V + C A ++W ++ + +LP
Sbjct: 2 ADYKDIVLIQSTSSLSASLGDRVTISCRASQDIRNYLNWYQQKPDGTVKLLIYYTSRLLP 61
Query: 118 NGQTIFTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
+ F+GS +L I + +ED G Y+C N + G K+E++
Sbjct: 62 GVPSRFSGSGSGTDYSLTISNLEQEDIGTYFCQQGNTLPWTFGGGTKLEIR 112
>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 = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 58/151 (38%), Gaps = 23/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR----ENNAILPNGQT--------I 122
++L SP+ G+ V L C A + + W + ++ +L G +
Sbjct: 2 IVLTQSPKSMSVSVGERVTLSCKASENVDTYVFWFQQKPDQSPKLLLYGPSNRYTGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
FTGS TL I + ED Y+C G K+E+K + AP V++
Sbjct: 62 FTGSGSTTDFTLTISSVQAEDLADYHCGQSYSYPYTFGGGTKLEIKRADAAPTVSIFPPS 121
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 152
>pdb|3H9S|E Chain E, The Complex Between Tcr A6 And Human Class I Mhc Hla-A2
With The Bound Tel1p Peptide
pdb|3PWP|E Chain E, The Complex Between Tcr A6 And Human Class I Mhc Hla-A2
With The Bound Hud Peptide
pdb|3QFJ|E Chain E, The Complex Between Tcr A6 And Human Class I Mhc Hla-A2
With The Modified Tax (Y5f) Peptide
Length = 245
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 40/98 (40%), Gaps = 23/98 (23%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI------------------LPN 118
+ +P+ V K GQS+ L+C A+ +SW R++ + +PN
Sbjct: 4 VTQTPKFQVLKTGQSMTLQC-AQDMNHEYMSWYRQDPGMGLRLIHYSVGAGITDQGEVPN 62
Query: 119 GQTIFTGST----LQIPRITKEDRGAYYCVAQNGIGRG 152
G + +T L++ Y+C ++ G+ G
Sbjct: 63 GYNVSRSTTEDFPLRLLSAAPSQTSVYFCASRPGLAGG 100
>pdb|1YUH|H Chain H, Fab Fragment
pdb|1YUH|B Chain B, Fab Fragment
Length = 218
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 36/192 (18%), Positives = 69/192 (35%), Gaps = 46/192 (23%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRRE--------------NNAILPNGQTIFTGSTL 128
+ K G SV+L C A G+ + + W ++ NN + + + +TL
Sbjct: 11 LVKPGASVKLSCKASGYTFTSYLMHWIKQRPGRGLEWIGRIDPNNVVTKFNEKFKSKATL 70
Query: 129 QIPR-----------ITKEDRGAYYCVA------QNGIGRGARRKIEVKVEFAPIVTVQS 171
+ + +T ED YYC + G+G + P V +
Sbjct: 71 TVDKPSSTAYMELSSLTSEDSAVYYCARYAYCRPMDYWGQGTTVTVSSAATTPPSVYPLA 130
Query: 172 TRIGQALHHDMDLDCHIEAY-PHPILYWAKDGEI---------VVNDEYHSISNFGTSEG 221
+ + L C ++ Y P P+ G + V+ + +++S+ T
Sbjct: 131 PGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGALSSGVHTFPAVLQSDLYTLSSSVTVPA 190
Query: 222 TT---GSLQCKV 230
+T G++ C V
Sbjct: 191 STWPSGTVTCNV 202
>pdb|1QSF|E Chain E, Structure Of A6-Tcr Bound To Hla-A2 Complexed With Altered
Htlv-1 Tax Peptide Y8a
Length = 243
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 40/98 (40%), Gaps = 23/98 (23%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI------------------LPN 118
+ +P+ V K GQS+ L+C A+ +SW R++ + +PN
Sbjct: 2 VTQTPKFQVLKTGQSMTLQC-AQDMNHEYMSWYRQDPGMGLRLIHYSVGAGITDQGEVPN 60
Query: 119 GQTIFTGST----LQIPRITKEDRGAYYCVAQNGIGRG 152
G + +T L++ Y+C ++ G+ G
Sbjct: 61 GYNVSRSTTEDFPLRLLSAAPSQTSVYFCASRPGLAGG 98
>pdb|3QH3|B Chain B, The Crystal Structure Of Tcr A6
pdb|3QH3|D Chain D, The Crystal Structure Of Tcr A6
Length = 245
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 40/98 (40%), Gaps = 23/98 (23%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI------------------LPN 118
+ +P+ V K GQS+ L+C A+ +SW R++ + +PN
Sbjct: 4 VTQTPKFQVLKTGQSMTLQC-AQDMNHEYMSWYRQDPGMGLRLIHYSVGAGITDQGEVPN 62
Query: 119 GQTIFTGST----LQIPRITKEDRGAYYCVAQNGIGRG 152
G + +T L++ Y+C ++ G+ G
Sbjct: 63 GYNVSRSTTEDFPLRLLSAAPSQTSVYFCASRPGLAGG 100
>pdb|3GIZ|L Chain L, Crystal Structure Of The Fab Fragment Of Anti-Cd20
Antibody Ofatumumab
Length = 211
Score = 28.1 bits (61), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 45/117 (38%), Gaps = 23/117 (19%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP--------NGQT----I 122
++L SP G+ L C A ++W ++ P N T
Sbjct: 2 IVLTQSPATLSLSPGERATLSCRASQSVSSYLAWYQQKPGQAPRLLIYDASNRATGIPAR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG----IGRGARRKIEVKVEFAPIVTV 169
F+GS TL I + ED YYC ++ G+G R +I+ V AP V +
Sbjct: 62 FSGSGSGTDFTLTISSLEPEDFAVYYCQQRSNWPITFGQGTRLEIKRTVA-APSVFI 117
>pdb|1QSE|E Chain E, Structure Of Human A6-Tcr Bound To Hla-A2 Complexed With
Altered Htlv-1 Tax Peptide V7r
Length = 243
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 40/98 (40%), Gaps = 23/98 (23%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI------------------LPN 118
+ +P+ V K GQS+ L+C A+ +SW R++ + +PN
Sbjct: 2 VTQTPKFQVLKTGQSMTLQC-AQDMNHEYMSWYRQDPGMGLRLIHYSVGAGITDQGEVPN 60
Query: 119 GQTIFTGST----LQIPRITKEDRGAYYCVAQNGIGRG 152
G + +T L++ Y+C ++ G+ G
Sbjct: 61 GYNVSRSTTEDFPLRLLSAAPSQTSVYFCASRPGLAGG 98
>pdb|1QRN|E Chain E, Crystal Structure Of Human A6 Tcr Complexed With Hla-A2
Bound To Altered Htlv-1 Tax Peptide P6a
Length = 243
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 40/98 (40%), Gaps = 23/98 (23%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI------------------LPN 118
+ +P+ V K GQS+ L+C A+ +SW R++ + +PN
Sbjct: 2 VTQTPKFQVLKTGQSMTLQC-AQDMNHEYMSWYRQDPGMGLRLIHYSVGAGITDQGEVPN 60
Query: 119 GQTIFTGST----LQIPRITKEDRGAYYCVAQNGIGRG 152
G + +T L++ Y+C ++ G+ G
Sbjct: 61 GYNVSRSTTEDFPLRLLSAAPSQTSVYFCASRPGLAGG 98
>pdb|4DVB|B Chain B, The Crystal Structure Of The Fab Fragment Of Pro-upa
Antibody Mab-112
pdb|4DVB|L Chain L, The Crystal Structure Of The Fab Fragment Of Pro-upa
Antibody Mab-112
pdb|4DW2|L Chain L, The Crystal Structure Of Upa In Complex With The Fab
Fragment Of Mab- 112
Length = 215
Score = 28.1 bits (61), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 34/150 (22%), Positives = 53/150 (35%), Gaps = 24/150 (16%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGH-PIPTISWRRENNAILPNGQTIFTGS--------- 126
L SP + A G+ V + C A + W ++ + P T +
Sbjct: 4 LTQSPAIMSASPGEKVTMTCRASSTVSFHYLHWYQQKSGASPKLWIYATSNLASGVPARF 63
Query: 127 ---------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTRI 174
+L I + ED YYC + R G K+E+K + AP V++
Sbjct: 64 SGSGSGTSYSLTISSVETEDAATYYCQHYSAYPRTFGGGTKLEIKRADAAPTVSIFPPSS 123
Query: 175 GQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 124 EQLTSGGASVVCFLNNFYPKDINVKWKIDG 153
>pdb|1AO7|E Chain E, Complex Between Human T-Cell Receptor, Viral Peptide
(Tax), And Hla-A 0201
pdb|2GJ6|E Chain E, The Complex Between Tcr A6 And Human Class I Mhc Hla-a2
With The Modified Htlv-1 Tax (y5k-4-[3-indolyl]-butyric
Acid) Peptide
pdb|3D39|E Chain E, The Complex Between Tcr A6 And Human Class I Mhc Hla-A2
With The Modified Htlv-1 Tax (Y5(4-Fluorophenylalanine))
Peptide
pdb|3D3V|E Chain E, The Complex Between Tcr A6 And Human Class I Mhc Hla-A2
With The Modified Htlv-1 Tax
(Y5(3,4-Difluorophenylalanine)) Peptide
Length = 245
Score = 28.1 bits (61), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 21/98 (21%), Positives = 40/98 (40%), Gaps = 23/98 (23%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI------------------LPN 118
+ +P+ V K GQS+ L+C A+ +SW R++ + +PN
Sbjct: 4 VTQTPKFQVLKTGQSMTLQC-AQDMNHEYMSWYRQDPGMGLRLIHYSVGAGITDQGEVPN 62
Query: 119 GQTIFTGST----LQIPRITKEDRGAYYCVAQNGIGRG 152
G + +T L++ Y+C ++ G+ G
Sbjct: 63 GYNVSRSTTEDFPLRLLSAAPSQTSVYFCASRPGLAGG 100
>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 = 28.1 bits (61), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 24/106 (22%), Positives = 39/106 (36%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTI------------ 122
+++ SP+ G V + C A + ++W ++ P
Sbjct: 2 LVMTQSPKFMSTSVGDRVSVTCKASQNVGTHVAWYQQKPGQSPKTLIYSASYRYSGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
FTGS TL I + ED Y+C N + G K+E+K
Sbjct: 62 FTGSGSGTDFTLTIRDVQSEDAAEYFCQQYNLFPVTFGGGTKLEIK 107
>pdb|2X1X|R Chain R, Crystal Structure Of Vegf-C In Complex With Domains 2 And
3 Of Vegfr2 In A Tetragonal Crystal Form
pdb|2X1W|L Chain L, Crystal Structure Of Vegf-C In Complex With Domains 2 And
3 Of Vegfr2
pdb|2X1W|M Chain M, Crystal Structure Of Vegf-C In Complex With Domains 2 And
3 Of Vegfr2
pdb|2X1W|N Chain N, Crystal Structure Of Vegf-C In Complex With Domains 2 And
3 Of Vegfr2
pdb|2X1W|O Chain O, Crystal Structure Of Vegf-C In Complex With Domains 2 And
3 Of Vegfr2
Length = 213
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 16/24 (66%)
Query: 126 STLQIPRITKEDRGAYYCVAQNGI 149
STL I +T+ D+G Y C A +G+
Sbjct: 171 STLTIDGVTRSDQGLYTCAASSGL 194
>pdb|1AHW|B Chain B, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1AHW|E Chain E, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1FGN|H Chain H, Monoclonal Murine Antibody 5g9-Anti-Human Tissue Factor
Length = 214
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 34/144 (23%), Positives = 51/144 (35%), Gaps = 33/144 (22%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILP-NGQTIF---------- 123
+ + G V+L C A G I + W ++ I P NG TI+
Sbjct: 11 LVRPGALVKLSCKASGFNIKDYYMHWVKQRPEQGLEWIGLIDPENGNTIYDPKFQGKASI 70
Query: 124 TGST------LQIPRITKEDRGAYYCVAQNGI-----GRGARRKIEVKVEFAPIVTVQST 172
T T LQ+ +T ED YYC N G+G + P V +
Sbjct: 71 TADTSSNTAYLQLSSLTSEDTAVYYCARDNSYYFDYWGQGTTLTVSSAKTTPPSVYPLAP 130
Query: 173 RIGQALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 GSAAQTNSMVTLGCLVKGYFPEPV 154
>pdb|1IGY|A Chain A, Structure Of Immunoglobulin
pdb|1IGY|C Chain C, Structure Of Immunoglobulin
Length = 213
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 56/141 (39%), Gaps = 31/141 (21%)
Query: 89 GQSVQLECHAEGHPIPTISWRR----ENNAILPNGQT--------IFTGS------TLQI 130
G+ V L C A + + +SW + ++ +L G + FTGS TL I
Sbjct: 15 GERVTLTCKASENVVTYVSWYQQKPEQSPKLLIYGASNRYTGVPDRFTGSGSATDFTLTI 74
Query: 131 PRITKEDRGAYYCVAQNGIGR------GARRKIEVK-VEFAPIVTVQSTRIGQALHHDMD 183
+ ED Y+C G G G K+E+K + AP V++ Q
Sbjct: 75 SSVQAEDLADYHC----GQGYSYPYTFGGGTKLEIKRADAAPTVSIFPPSSEQLTSGGAS 130
Query: 184 LDCHI-EAYPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 131 VVCFLNNFYPKDINVKWKIDG 151
>pdb|3NN8|A Chain A, Crystal Structure Of Engineered Antibody Fragment Based On
3d5
pdb|3NN8|C Chain C, Crystal Structure Of Engineered Antibody Fragment Based On
3d5
pdb|3NN8|D Chain D, Crystal Structure Of Engineered Antibody Fragment Based On
3d5
pdb|3NN8|G Chain G, Crystal Structure Of Engineered Antibody Fragment Based On
3d5
Length = 122
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 36/90 (40%), Gaps = 28/90 (31%)
Query: 87 KEGQSVQLECHAEGHPIPT----ISWRREN-------------------NAILPNGQTIF 123
K G SV++ C A G+ + T ++W +++ N L + T+
Sbjct: 13 KPGASVKISCKASGYSLSTSGMGVNWVKQSPGKGLEWLAHIYWDDDKRYNPSLKSRATLT 72
Query: 124 TGST-----LQIPRITKEDRGAYYCVAQNG 148
T L++ +T ED YYC + G
Sbjct: 73 VDKTSSTVYLELRSLTSEDSSVYYCARRGG 102
>pdb|2FBJ|L Chain L, Refined Crystal Structure Of The Galactan-Binding
Immunoglobulin Fab J539 At 1.95-Angstroms Resolution
Length = 213
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 37/151 (24%), Positives = 58/151 (38%), Gaps = 24/151 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN---------------- 118
++L SP ++ A GQ V + C A + ++ W ++ + P
Sbjct: 2 IVLTQSPAITAASLGQKVTITCSASSS-VSSLHWYQQKSGTSPKPWIYEISKLASGVPAR 60
Query: 119 --GQTIFTGSTLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
G T +L I + ED YYC I GA K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTINTMEAEDAAIYYCQQWTYPLITFGAGTKLELKRADAAPTVSIFPPS 120
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>pdb|1QOK|A Chain A, Mfe-23 An Anti-Carcinoembryonic Antigen Single-Chain Fv
Antibody
Length = 282
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 24/105 (22%), Positives = 40/105 (38%), Gaps = 21/105 (20%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS--------- 126
+L SP + A G+ V + C A + + W ++ P T +
Sbjct: 164 VLTQSPAIMSASPGEKVTITCSASSS-VSYMHWFQQKPGTSPKLWIYSTSNLASGVPARF 222
Query: 127 ---------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
+L I R+ ED YYC ++ + GA K+E+K
Sbjct: 223 SGSGSGTSYSLTISRMEAEDAATYYCQQRSSYPLTFGAGTKLELK 267
>pdb|1IGY|B Chain B, Structure Of Immunoglobulin
pdb|1IGY|D Chain D, Structure Of Immunoglobulin
Length = 434
Score = 28.1 bits (61), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 30/152 (19%), Positives = 55/152 (36%), Gaps = 33/152 (21%)
Query: 85 VAKEGQSVQLECHAEGHPIPT--ISW--------------------------RRENNAIL 116
+A+ G SV++ C A G+ T I W R ++ A L
Sbjct: 10 LARPGASVKMSCKASGYTFTTYTIHWIKQRPGQGLEWIGYINPSSVYTNYNQRFKDKATL 69
Query: 117 PNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGI---GRGARRKIEVKVEFAPIVTVQSTR 173
++ T + + + +T +D YYCV + + G+G + P V +
Sbjct: 70 TRDRSSNTAN-IHLSSLTSDDSAVYYCVREGEVPYWGQGTTVTVSSAKTTPPSVYPLAPG 128
Query: 174 IGQALHHDMDLDCHIEAY-PHPILYWAKDGEI 204
+ + L C ++ Y P P+ G +
Sbjct: 129 SAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSL 160
>pdb|1VGE|L Chain L, Tr1.9 Fab Fragment Of A Human Igg1 Kappa Autoantibody
pdb|1IGA|C Chain C, Model Of Human Iga1 Determined By Solution Scattering
Curve- Fitting And Homology Modelling
pdb|1IGA|D Chain D, Model Of Human Iga1 Determined By Solution Scattering
Curve- Fitting And Homology Modelling
pdb|1R70|A Chain A, Model Of Human Iga2 Determined By Solution Scattering,
Curve Fitting And Homology Modelling
pdb|1R70|C Chain C, Model Of Human Iga2 Determined By Solution Scattering,
Curve Fitting And Homology Modelling
pdb|2ESG|L Chain L, Solution Structure Of The Complex Between Immunoglobulin
Iga1 And Human Serum Albumin
pdb|2ESG|M Chain M, Solution Structure Of The Complex Between Immunoglobulin
Iga1 And Human Serum Albumin
pdb|2QTJ|L Chain L, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|2QTJ|M Chain M, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|2QTJ|N Chain N, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|2QTJ|O Chain O, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|3CHN|L Chain L, Solution Structure Of Human Secretory Iga1
pdb|3CHN|M Chain M, Solution Structure Of Human Secretory Iga1
pdb|3CHN|N Chain N, Solution Structure Of Human Secretory Iga1
pdb|3CHN|O Chain O, Solution Structure Of Human Secretory Iga1
pdb|3CM9|L Chain L, Solution Structure Of Human Siga2
pdb|3CM9|M Chain M, Solution Structure Of Human Siga2
pdb|3CM9|N Chain N, Solution Structure Of Human Siga2
pdb|3CM9|O Chain O, Solution Structure Of Human Siga2
Length = 214
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRE-----------NNAILPNGQ-TI 122
+++ SP A G V + C A ++W ++ + + L +G +
Sbjct: 2 LVMTQSPSSLSASVGDRVNIACRASQGISSALAWYQQKPGKAPRLLIYDASNLESGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
F+GS TL I + ED YYC N + G K+E+K
Sbjct: 62 FSGSGSGTDFTLTISSLQPEDFAIYYCQQFNSYPLTFGGGTKVEIK 107
>pdb|2ESV|E Chain E, Structure Of The Hla-E-VmaprtlilKK50.4 TCR COMPLEX
Length = 240
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 31/120 (25%), Positives = 48/120 (40%), Gaps = 33/120 (27%)
Query: 81 PQLSVAKEGQSVQLECH-AEGHPIPTISWRR------------------ENNAILPNGQT 121
P SV ++GQ+V L C GH + W R ++ + +PN +
Sbjct: 6 PSHSVIEKGQTVTLRCDPISGHD--NLYWYRRVMGKEIKFLLHFVKESKQDESGMPNNRF 63
Query: 122 IF-----TGSTLQIPRITKEDRGAYYCVAQNG-----IGRGARRKI--EVKVEFAPIVTV 169
+ T STL++ ED G Y+C + G G R + ++K F P V V
Sbjct: 64 LAERTGGTYSTLKVQPAELEDSGVYFCASSQDRDTQYFGPGTRLTVLEDLKNVFPPEVAV 123
>pdb|1WC7|A Chain A, Fab Fragment Of Plp-Dependent Catalytic Antibody 15a9 In
Complex With Phosphopyridoxyl-L-Alanine
pdb|1WC7|L Chain L, Fab Fragment Of Plp-Dependent Catalytic Antibody 15a9 In
Complex With Phosphopyridoxyl-L-Alanine
pdb|1WCB|A Chain A, Plp-Dependent Catalytic Antibody 15a9 In Complex With Its
Hapten
pdb|1WCB|L Chain L, Plp-Dependent Catalytic Antibody 15a9 In Complex With Its
Hapten
pdb|2BMK|A Chain A, Fab Fragment Of Plp-Dependent Catalytic Antibody 15a9 In
Complex With Phosphopyridoxyl-D-Alanine
pdb|2BMK|L Chain L, Fab Fragment Of Plp-Dependent Catalytic Antibody 15a9 In
Complex With Phosphopyridoxyl-D-Alanine
Length = 213
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 34/149 (22%), Positives = 54/149 (36%), Gaps = 24/149 (16%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS---------- 126
L SP + A G+ V + C A + + W ++ P T +
Sbjct: 4 LTQSPAIMAASPGEKVTITCSATSG-VNYMHWFQQKPGTSPKLWIYSTSNLASAVPARFS 62
Query: 127 --------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTRIG 175
+L I R+ ED YYC ++ G K+E+K + AP V++
Sbjct: 63 GSGSGTSYSLTISRMEAEDAATYYCQQRSTYPFTFGGGTKLELKRADAAPTVSIFPPSSE 122
Query: 176 QALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 123 QLTSGGASVVCFLNNFYPKDINVKWKIDG 151
>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 = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 38/91 (41%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTR 173
F+GS TL I + +ED YYC N G K+E+K + AP V++
Sbjct: 66 FSGSGSGTDFTLNIHPVEEEDAATYYCQQSNEDPYTFGGGTKLEIKRADAAPTVSIFPPS 125
Query: 174 IGQALHHDMDLDCHIEA-YPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 126 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 156
>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 = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 39/91 (42%), Gaps = 11/91 (12%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQSTR 173
F+GS TL I + +ED YYC + R G K+E+K + AP V++
Sbjct: 66 FSGSGSGTDFTLNIHPVEEEDAATYYCSHIRELPRSSGGGTKLEIKRADAAPTVSIFPPS 125
Query: 174 IGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 126 SEQLTSGGASVVCFLNNFYPKDINVKWKIDG 156
>pdb|1QYG|H Chain H, Anti-Cocaine Antibody M82g2 Complexed With Benzoylecgonine
pdb|1RFD|H Chain H, Anti-Cocaine Antibody M82g2
pdb|1RIU|H Chain H, Anti-Cocaine Antibody M82g2 Complexed With
Norbenzoylecgonine
pdb|1RIV|H Chain H, Anti-Cocaine Antibody M82g2 Complexed With Meta-
Oxybenzoylecgonine
Length = 223
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 128 LQIPRITKEDRGAYYCVAQNGIGRG 152
LQ+ + ED G YYC + +GRG
Sbjct: 83 LQMNSLRAEDTGIYYCTSVPQLGRG 107
>pdb|2EIZ|A Chain A, Crystal Structure Of Humanized Hyhel-10 Fv Mutant(Hw47y)-
Hen Lysozyme Complex
pdb|2EKS|A Chain A, Crystal Structure Of Humanized Hyhel-10 Fv-Hen Lysozyme
Complex
pdb|2YSS|A Chain A, Crystal Structure Of Humanized Hyhel-10 Fv
Mutant(Hq39kw47y)-Hen Lysozyme Complex
Length = 107
Score = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 38/106 (35%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN------GQTI------ 122
+++ SP G+ L C A + W ++ P Q+I
Sbjct: 2 IVMTQSPATLSVSPGERATLSCRASQSIGNNLHWYQQKPGQAPRLLIYYASQSISGIPAR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
F+GS TL I + ED YYC N G K+E+K
Sbjct: 62 FSGSGSGTEFTLTISSLQSEDFAVYYCQQSNSWPYTFGGGTKVEIK 107
>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 = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 33/84 (39%), Gaps = 7/84 (8%)
Query: 73 PPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIF------TGS 126
PP I +S+ EG+ + + C G P P ++W I Q F +
Sbjct: 5 PPKIEALPSDISI-DEGKVLTVACAFTGEPTPEVTWSCGGRKIHSQEQGRFHIENTDDLT 63
Query: 127 TLQIPRITKEDRGAYYCVAQNGIG 150
TL I + K+D G Y N G
Sbjct: 64 TLIIMDVQKQDGGLYTLSLGNEFG 87
>pdb|1DQL|L Chain L, Crystal Structure Of An Unliganded (Native) Fv From A
Human Igm Anti-Peptide Antibody
Length = 106
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 26/107 (24%), Positives = 40/107 (37%), Gaps = 23/107 (21%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQ------------TI 122
+ + SP A G V + C A + W ++ P +
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQDIRNDLGWYQQKPGKAPKKLIYAASSLQSGVPSR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG---IGRGARRKIEVK 160
F+GS TL I + ED YYC+ QN G+G K+++K
Sbjct: 62 FSGSGSGTDFTLTISSLQPEDFATYYCLQQNSNWTFGQGT--KVDIK 106
>pdb|3S35|H Chain H, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
Length = 217
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 28/144 (19%), Positives = 50/144 (34%), Gaps = 33/144 (22%)
Query: 85 VAKEGQSVQLECHAEGH----------------PIPTISWRRENNAILPNGQTIFTGSTL 128
+ K G SV++ C A G+ + I W + I+ + +TL
Sbjct: 11 LVKPGASVKVSCKASGYIFTEYIIHWVKQRSGQGLEWIGWLYPESNIIKYNEKFKDKATL 70
Query: 129 -----------QIPRITKEDRGAYYCVAQNGI-----GRGARRKIEVKVEFAPIVTVQST 172
++ R+T ED Y+C +G G+G + P V +
Sbjct: 71 TADKSSSTVYMELSRLTSEDSAVYFCTRHDGTNFDYWGQGTTLTVSSAKTTPPSVYPLAP 130
Query: 173 RIGQALHHDMDLDCHIEAY-PHPI 195
+ + L C ++ Y P P+
Sbjct: 131 GSAAQTNSMVTLGCLVKGYFPEPV 154
>pdb|3EYQ|C Chain C, Crystal Structure Of Mj5 Fab, A Germline Antibody Variant
Of Anti-Human Cytomegalovirus Antibody 8f9
Length = 216
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 30/118 (25%), Positives = 45/118 (38%), Gaps = 24/118 (20%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP--------NGQT----I 122
++L SP G+ L C A ++W ++ P N T
Sbjct: 3 IVLTQSPATLSLSPGERATLSCRASQSVSSYLAWYQQKPGQAPRLLIYDASNRATGIPAR 62
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG-----IGRGARRKIEVKVEFAPIVTV 169
F+GS TL I + ED YYC ++ G+G R +I+ V AP V +
Sbjct: 63 FSGSGSGTDFTLTISSLEPEDFAVYYCQQRSNWPPITFGQGTRLEIKRTVA-APSVFI 119
>pdb|1Q72|H Chain H, Anti-Cocaine Antibody M82g2 Complexed With Cocaine
Length = 223
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 11/25 (44%), Positives = 15/25 (60%)
Query: 128 LQIPRITKEDRGAYYCVAQNGIGRG 152
LQ+ + ED G YYC + +GRG
Sbjct: 83 LQMNSLRAEDTGIYYCTSVPQLGRG 107
>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 = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 33/84 (39%), Gaps = 7/84 (8%)
Query: 73 PPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIF------TGS 126
PP I +S+ EG+ + + C G P P ++W I Q F +
Sbjct: 7 PPKIEALPSDISI-DEGKVLTVACAFTGEPTPEVTWSCGGRKIHSQEQGRFHIENTDDLT 65
Query: 127 TLQIPRITKEDRGAYYCVAQNGIG 150
TL I + K+D G Y N G
Sbjct: 66 TLIIMDVQKQDGGLYTLSLGNEFG 89
>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 = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 25/116 (21%), Positives = 47/116 (40%), Gaps = 22/116 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP-----NGQTIFTG---- 125
+++ SP + A G+ V + C A + + W ++ + P + + +G
Sbjct: 2 LVMTQSPAIMSASPGEKVTMTCSASSS-VNYMHWYQQKSGTSPKRWIYDTSKLASGVPAR 60
Query: 126 ---------STLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTV 169
+L I + ED YYC + N G K+E+K + AP V++
Sbjct: 61 FSGSGSGTSYSLTISSMEAEDAATYYCQQWSYNPPTFGGGTKLEIKRADAAPTVSI 116
>pdb|1GC1|L Chain L, Hiv-1 Gp120 Core Complexed With Cd4 And A Neutralizing
Human Antibody
Length = 213
Score = 27.7 bits (60), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 42/117 (35%), Gaps = 25/117 (21%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN----GQTI--------FT 124
L SP G+ L C A ++W ++ P G + F+
Sbjct: 4 LTQSPATLSVSPGERATLSCRASESVSSDLAWYQQKPGQAPRLLIYGASTRATGVPARFS 63
Query: 125 GS------TLQIPRITKEDRGAYYCVAQNG------IGRGARRKIEVKVEFAPIVTV 169
GS TL I + ED YYC N G+G R +I+ V AP V +
Sbjct: 64 GSGSGAEFTLTISSLQSEDFAVYYCQQYNNWPPRYTFGQGTRLEIKRTVA-APSVFI 119
>pdb|3UMT|A Chain A, Scfv12, Anti-Bcla Antibody Single Chain Variable Fragment
Length = 256
Score = 27.7 bits (60), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 35/89 (39%), Gaps = 27/89 (30%)
Query: 83 LSVAKEGQSVQLECHAEGHPIP--TISWRREN--------NAILPN-----------GQT 121
L + K G SV++ C G+ T+ W +++ I PN G+
Sbjct: 11 LELVKPGASVKISCKTSGYTFTEYTMHWVKQSHGKSLEWIGGINPNNGGTSYNQKFKGKA 70
Query: 122 IFT------GSTLQIPRITKEDRGAYYCV 144
I T + L++ +T ED YYC
Sbjct: 71 ILTVDKSSSTAYLELRSLTSEDSAVYYCA 99
>pdb|3U7W|L Chain L, Crystal Structure Of Nih45-46 Fab
pdb|3U7Y|L Chain L, Structure Of Nih45-46 Fab In Complex With Gp120 Of 93th057
Hiv
Length = 210
Score = 27.7 bits (60), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 21/105 (20%), Positives = 40/105 (38%), Gaps = 22/105 (20%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGST------- 127
++L SP G++ + C +++W ++ P I++GST
Sbjct: 2 IVLTQSPATLSLSPGETAIISCRTSQSG--SLAWYQQRPGQAPR-LVIYSGSTRAAGIPD 58
Query: 128 ------------LQIPRITKEDRGAYYCVAQNGIGRGARRKIEVK 160
L I + D G YYC G+G + ++++K
Sbjct: 59 RFSGSRWGADYNLSISNLESGDFGVYYCQQYEFFGQGTKVQVDIK 103
>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 = 27.7 bits (60), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 35/84 (41%), Gaps = 5/84 (5%)
Query: 124 TGSTLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK-VEFAPIVTVQSTRIGQALHH 180
T L I + +ED YYC N G+ K+E+K + AP V++ Q
Sbjct: 73 TDFNLNIHPVEEEDAATYYCQQSNEDPFTFGSGTKLEIKRADAAPTVSIFPPSSEQLTSG 132
Query: 181 DMDLDCHIEA-YPHPI-LYWAKDG 202
+ C + YP I + W DG
Sbjct: 133 GASVVCFLNNFYPKDINVKWKIDG 156
>pdb|1G9M|L Chain L, Hiv-1 Hxbc2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1G9N|L Chain L, Hiv-1 Yu2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
Length = 214
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 32/127 (25%), Positives = 47/127 (37%), Gaps = 32/127 (25%)
Query: 67 EAQVDTPPVILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN----GQTI 122
E ++ P L+ SP G+ L C A ++W ++ P G +
Sbjct: 1 ELELTQSPATLSVSP-------GERATLSCRASESVSSDLAWYQQKPGQAPRLLIYGAST 53
Query: 123 --------FTGS------TLQIPRITKEDRGAYYCVAQNG------IGRGARRKIEVKVE 162
F+GS TL I + ED YYC N G+G R +I+ V
Sbjct: 54 RATGVPARFSGSGSGAEFTLTISSLQSEDFAVYYCQQYNNWPPRYTFGQGTRLEIKRTVA 113
Query: 163 FAPIVTV 169
AP V +
Sbjct: 114 -APSVFI 119
>pdb|3MXV|L Chain L, Crystal Structure Of Fab Fragment Of Anti-shh 5e1 Chimera
pdb|3MXW|L Chain L, Crystal Structure Sonic Hedgehog Bound To The 5e1 Fab
Fragment
Length = 214
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 24/106 (22%), Positives = 39/106 (36%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP--------NGQT----I 122
+++ +P+ + G V + C A ++W ++ P N T
Sbjct: 2 IVMTQTPKFLLVSAGDKVTITCKASQSVSNDLTWYQQKPGQSPKLLIYYASNRYTGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNGI--GRGARRKIEVK 160
FTGS T I + ED Y+C G G K+E+K
Sbjct: 62 FTGSGYGTDFTFTISTVQAEDLAVYFCQQDYGSPPTFGGGTKVEIK 107
>pdb|3BP5|B Chain B, Crystal Structure Of The Mouse Pd-1 And Pd-L2 Complex
pdb|3BP6|B Chain B, Crystal Structure Of The Mouse Pd-1 Mutant And Pd-L2
Complex
Length = 202
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 31 VQLECHAEGHPIPTISWR 48
VQL C A G+P+ +SW+
Sbjct: 121 VQLTCQARGYPLAEVSWQ 138
Score = 27.7 bits (60), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 92 VQLECHAEGHPIPTISWR 109
VQL C A G+P+ +SW+
Sbjct: 121 VQLTCQARGYPLAEVSWQ 138
>pdb|3BKY|L Chain L, Crystal Structure Of Chimeric Antibody C2h7 Fab In Complex
With A Cd20 Peptide
Length = 213
Score = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 25/106 (23%), Positives = 42/106 (39%), Gaps = 21/106 (19%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN-----GQTIFTG---- 125
++L+ SP + A G+ V + C A + + W ++ P + +G
Sbjct: 2 IVLSQSPAILSASPGEKVTMTCRASSS-VSYMHWYQQKPGSSPKPWIYAPSNLASGVPAR 60
Query: 126 ---------STLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK 160
+L I R+ ED YYC + N GA K+E+K
Sbjct: 61 FSGSGSGTSYSLTISRVEAEDAATYYCQQWSFNPPTFGAGTKLELK 106
>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 = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 26/116 (22%), Positives = 42/116 (36%), Gaps = 22/116 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILP----------------- 117
+ + SP A G V + C A +++W ++ P
Sbjct: 2 IQMTQSPSSLSASVGDRVTITCRASQASYSSVAWYQQKPGKAPKLLIYAASYLYSGVPSR 61
Query: 118 -NGQTIFTGSTLQIPRITKEDRGAYYCVAQNG---IGRGARRKIEVKVEFAPIVTV 169
+G T TL I + ED YYC + G+G + +I+ V AP V +
Sbjct: 62 FSGSGSGTDFTLTISSLQPEDFATYYCQSSASPATFGQGTKVEIKRTVA-APSVFI 116
>pdb|3RNQ|B Chain B, Crystal Structure Of The Complex Between The Extracellular
Domains Of Mouse Pd-1 Mutant And Pd-L2
Length = 201
Score = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 31 VQLECHAEGHPIPTISWR 48
VQL C A G+P+ +SW+
Sbjct: 120 VQLTCQARGYPLAEVSWQ 137
Score = 27.7 bits (60), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 92 VQLECHAEGHPIPTISWR 109
VQL C A G+P+ +SW+
Sbjct: 120 VQLTCQARGYPLAEVSWQ 137
>pdb|3REV|B Chain B, Crystal Structure Of Human Alloreactive Tcr Nb20
Length = 240
Score = 27.7 bits (60), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 50/124 (40%), Gaps = 32/124 (25%)
Query: 77 LNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAI------------------LPN 118
+ +P+ V K GQS+ L+C A+ +SW R++ + +PN
Sbjct: 2 VTQTPKFQVLKTGQSMTLQC-AQDMNHEYMSWYRQDPGMGLRLIHYSVGAGITDQGEVPN 60
Query: 119 GQTIFTGST----LQIPRITKEDRGAYYC----VAQNG---IGRGARRKI--EVKVEFAP 165
G + +T L++ Y+C V+QN G G R + ++K F P
Sbjct: 61 GYNVSRSTTEDFPLRLLSAAPSQTSVYFCASSYVSQNNEQFFGPGTRLTVLEDLKNVFPP 120
Query: 166 IVTV 169
V V
Sbjct: 121 EVAV 124
>pdb|2XZQ|H Chain H, Crystal Structure Analysis Of The Anti-(4-Hydroxy-3-
Nitrophenyl)-Acetyl Murine Germline Monoclonal Antibody
Bbe6.12h3 Fab Fragment In Complex With A Phage Display
Derived Dodecapeptide Yqlrpnaetlrf
Length = 220
Score = 27.7 bits (60), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 39/97 (40%), Gaps = 27/97 (27%)
Query: 81 PQLSVAKEGQSVQLECHAEGHPIPT--ISWRREN--------NAILPN-GQTIF-----T 124
P + K G SV+L C A G+ + + W ++ I PN G T + +
Sbjct: 7 PGAELVKPGASVKLSCKASGYTFTSYWMHWVKQRPGRGLEWIGRIDPNSGGTAYNEKFKS 66
Query: 125 GSTLQIPR-----------ITKEDRGAYYCVAQNGIG 150
+TLQ+ + +T ED YYC + G
Sbjct: 67 KATLQVDKPSSTAYMQLSSLTSEDSAVYYCARYDYYG 103
>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 = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 26/106 (24%), Positives = 43/106 (40%), Gaps = 20/106 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRR----ENNAILPNGQT--------I 122
+++ SP+ G+ V L C A + +SW + ++ +L G +
Sbjct: 2 IVMTQSPKSMYVSIGERVTLSCKASENVDTYVSWYQQKPEQSPKLLIYGASNRYTGVPDR 61
Query: 123 FTGS------TLQIPRITKEDRGAYYCVAQNG--IGRGARRKIEVK 160
FTGS TL I + ED Y+C G+ K+E+K
Sbjct: 62 FTGSGSATDFTLTISSVQAEDLADYHCGQSYNYPFTFGSGTKLEIK 107
>pdb|1I9R|H Chain H, Structure Of Cd40l In Complex With The Fab Fragment Of
Humanized 5c8 Antibody
pdb|1I9R|K Chain K, Structure Of Cd40l In Complex With The Fab Fragment Of
Humanized 5c8 Antibody
pdb|1I9R|X Chain X, Structure Of Cd40l In Complex With The Fab Fragment Of
Humanized 5c8 Antibody
Length = 219
Score = 27.7 bits (60), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 38/152 (25%), Positives = 54/152 (35%), Gaps = 48/152 (31%)
Query: 85 VAKEGQSVQLECHAEGH-------------PIPTISWRRENNAILPNGQTIF-------- 123
V K G SV+L C A G+ P + W E N NG T F
Sbjct: 11 VVKPGASVKLSCKASGYIFTSYYMYWVKQAPGQGLEWIGEINP--SNGDTNFNEKFKSKA 68
Query: 124 ------TGST--LQIPRITKEDRGAYYCVAQNG------IGRGARRKIEVKVEFAPIV-- 167
+ ST +++ + ED YYC +G G+G + P V
Sbjct: 69 TLTVDKSASTAYMELSSLRSEDTAVYYCTRSDGRNDMDSWGQGTLVTVSSASTKGPSVFP 128
Query: 168 ---TVQSTRIGQALHHDMDLDCHIEAY-PHPI 195
+ +ST G A L C ++ Y P P+
Sbjct: 129 LAPSSKSTSGGTAA-----LGCLVKDYFPEPV 155
>pdb|2PET|A Chain A, Lutheran Glycoprotein, N-Terminal Domains 1 And 2.
pdb|2PF6|A Chain A, Lutheran Glycoprotein, N-Terminal Domains 1 And 2
pdb|2PF6|B Chain B, Lutheran Glycoprotein, N-Terminal Domains 1 And 2
Length = 231
Score = 27.7 bits (60), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 27/54 (50%), Gaps = 6/54 (11%)
Query: 2 YTSPESQVDTPPVILNNSTQLSVAKEGQSVQLECHAE-GHPIPTISWRRNFKRL 54
+ PE+ +P N LSV ++ C++ G+P P I+W RN +RL
Sbjct: 113 FAKPEATEVSP-----NKGTLSVMEDSAQEIATCNSRNGNPAPKITWYRNGQRL 161
>pdb|3J1S|L Chain L, Structure Of Adeno-Associated Virus-2 In Complex With
Neutralizing Monoclonal Antibody A20
Length = 214
Score = 27.7 bits (60), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 38/138 (27%), Positives = 56/138 (40%), Gaps = 25/138 (18%)
Query: 89 GQSVQLECHAEGHPIPTISWRREN--NA--ILPNGQTI--------FTGS------TLQI 130
G V + C A ++W ++ NA +L +G T F+GS TL I
Sbjct: 16 GDRVTITCKASEDIHNRLAWYKQKPGNAPRLLISGATSLETGVPSRFSGSGSGKDYTLSI 75
Query: 131 PRITKEDRGAYYCVAQNGIG---RGARRKIEVK-VEFAPIVTVQSTRIGQALHHDMDLDC 186
+ ED YYC Q IG G+ +E+K + AP V++ Q + C
Sbjct: 76 TSLQNEDVATYYC-QQYWIGPFTFGSGTNLEIKRADAAPTVSIFPPSSEQLTSGGASVVC 134
Query: 187 HI-EAYPHPI-LYWAKDG 202
+ YP I + W DG
Sbjct: 135 FLNNFYPKDINVKWKIDG 152
>pdb|1N4X|L Chain L, Structure Of Scfv 1696 At Acidic Ph
pdb|1N4X|M Chain M, Structure Of Scfv 1696 At Acidic Ph
Length = 113
Score = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 13/21 (61%)
Query: 124 TGSTLQIPRITKEDRGAYYCV 144
T TL+I R+ ED G YYC
Sbjct: 75 TDFTLKISRVEAEDLGIYYCF 95
>pdb|3QPX|L Chain L, Crystal Structure Of Fab C2507
Length = 213
Score = 27.7 bits (60), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 26/105 (24%), Positives = 39/105 (37%), Gaps = 19/105 (18%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT---------- 124
+ + SP L A G V L C A + ++W ++ P +T
Sbjct: 2 IQMTQSPSLLSASVGDRVTLSCKASQNIYNYLNWYQQKLGEAPKLLIYYTDRLQTGIPSR 61
Query: 125 ----GS----TLQIPRITKEDRGAYYCVAQNGIGR-GARRKIEVK 160
GS TL I + ED Y+C N GA K+++K
Sbjct: 62 FSGDGSGSDYTLTISSLQPEDVATYFCQQYNSRDTFGAGTKLDLK 106
>pdb|1KB5|B Chain B, Murine T-Cell Receptor Variable DomainFAB COMPLEX
pdb|1KJ2|B Chain B, Murine Alloreactive Scfv Tcr-peptide-mhc Class I Molecule
Complex
pdb|1KJ2|E Chain E, Murine Alloreactive Scfv Tcr-peptide-mhc Class I Molecule
Complex
Length = 117
Score = 27.3 bits (59), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT 124
+L +P+ + GQ+V L C + P +SW +++ + Q +FT
Sbjct: 3 LLEQNPRWRLVPRGQAVNLRCILKNSQYPWMSWYQQD--LQKQLQWLFT 49
>pdb|3CVH|H Chain H, How Tcr-Like Antibody Recognizes Mhc-Bound Peptide
pdb|3CVH|Q Chain Q, How Tcr-Like Antibody Recognizes Mhc-Bound Peptide
pdb|3CVI|H Chain H, How Tcr-Like Antibody Recognizes Mhc-Bound Peptide
Length = 219
Score = 27.3 bits (59), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 27/107 (25%), Positives = 45/107 (42%), Gaps = 30/107 (28%)
Query: 75 VILNNS-PQLSVAKEGQSVQLECHAEGHPIP--TISWRRENNA--------ILPN-GQTI 122
V+L S P+L K G SV++ C A G+ + W ++++ I PN G TI
Sbjct: 1 VLLQQSGPEL--VKPGASVKIPCKASGYTFTDYNMDWVKQSHGKSLEWIGDINPNNGGTI 58
Query: 123 F----------------TGSTLQIPRITKEDRGAYYCVAQNGIGRGA 153
+ + + +++ +T ED YYC + G A
Sbjct: 59 YNQKFKGKATLTVDKSSSAAYMEVRSLTSEDTAVYYCARKPYYGNFA 105
>pdb|1FO0|B Chain B, Murine Alloreactive Scfv Tcr-Peptide-Mhc Class I Molecule
Complex
Length = 112
Score = 27.3 bits (59), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT 124
+L +P+ + GQ+V L C + P +SW +++ + Q +FT
Sbjct: 3 LLEQNPRWRLVPRGQAVNLRCILKNSQYPWMSWYQQD--LQKQLQWLFT 49
>pdb|2Y7Q|A Chain A, The High-Affinity Complex Between Ige And Its Receptor Fc
Epsilon Ri
Length = 188
Score = 27.3 bits (59), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 15/63 (23%), Positives = 26/63 (41%), Gaps = 5/63 (7%)
Query: 85 VAKEGQSVQLECHA-EGHPIPTISWRRENNAILPNGQTIFTGSTLQIPRITKEDRGAYYC 143
V EGQ + L CH + + + ++ A+ + + + I ED G YYC
Sbjct: 99 VVMEGQPLFLRCHGWRNWDVYKVIYYKDGEAL----KYWYENHAISITNAAAEDSGTYYC 154
Query: 144 VAQ 146
+
Sbjct: 155 TGK 157
>pdb|1KEN|L Chain L, Influenza Virus Hemagglutinin Complexed With An Antibody
That Prevents The Hemagglutinin Low Ph Fusogenic
Transition
pdb|1KEN|U Chain U, Influenza Virus Hemagglutinin Complexed With An Antibody
That Prevents The Hemagglutinin Low Ph Fusogenic
Transition
Length = 213
Score = 27.3 bits (59), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 34/152 (22%), Positives = 55/152 (36%), Gaps = 24/152 (15%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPT-ISWRRENNAILPNGQTIFTGS------- 126
++L SP + A G+ V L C A + + W ++ P T +
Sbjct: 2 IVLTQSPAIMSASPGEKVTLTCSASSTITSSFLYWYQQKPGSSPKLWIYSTSNLASGVPA 61
Query: 127 -----------TLQIPRITKEDRGAYYCVAQNGIGR--GARRKIEVK-VEFAPIVTVQST 172
+L I + ED +Y+C R G K+E+K + AP V++
Sbjct: 62 RFSGSGSGTSYSLTISSLEAEDGASYFCHQWETFPRTFGGGTKLEIKRADAAPTVSIFPP 121
Query: 173 RIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 122 SKIQLTSGGASVVCFLNNFYPKDINVKWKIDG 153
>pdb|1NAM|B Chain B, Murine Alloreactive Scfv Tcr-Peptide-Mhc Class I Molecule
Complex
pdb|2OL3|B Chain B, Crystal Structure Of Bm3.3 Scfv Tcr In Complex With
Pbm8-h-2kbm8 Mhc Class I Molecule
Length = 113
Score = 27.3 bits (59), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 25/49 (51%), Gaps = 2/49 (4%)
Query: 76 ILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT 124
+L +P+ + GQ+V L C + P +SW +++ + Q +FT
Sbjct: 3 LLEQNPRWRLVPRGQAVNLRCILKNSQYPWMSWYQQD--LQKQLQWLFT 49
>pdb|4GG6|E Chain E, Protein Complex
pdb|4GG6|G Chain G, Protein Complex
pdb|4GG8|E Chain E, Immune Receptor
pdb|4GG8|A Chain A, Immune Receptor
Length = 207
Score = 27.3 bits (59), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 125 GSTLQIPRITKEDRGAYYCVAQNGIG 150
STL + R T D YYC+ ++G G
Sbjct: 71 SSTLILHRATLRDAAVYYCILRDGRG 96
>pdb|1A5F|H Chain H, Fab Fragment Of A Monoclonal Anti-E-Selectin Antibody
Length = 217
Score = 27.3 bits (59), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 50/147 (34%), Gaps = 36/147 (24%)
Query: 85 VAKEGQSVQLECHAEGHPIPT-------------ISW--RRENNAILPNGQTIFTG---- 125
+ K G SV+L C A G I + W R ++ + N F G
Sbjct: 11 LVKPGASVKLSCAASGFTIKDAYMHWVKQKPEQGLEWIGRIDSGSSNTNYDPTFKGKATI 70
Query: 126 --------STLQIPRITKEDRGAYYCV--------AQNGIGRGARRKIEVKVEFAPIVTV 169
+ LQ+ +T ED YYC A + G+G + P V
Sbjct: 71 TADDSSNTAYLQMSSLTSEDTAVYYCARVGLSYWYAMDYWGQGTSVTVSSAKTTPPSVYP 130
Query: 170 QSTRIGQALHHDMDLDCHIEAY-PHPI 195
+ + + L C ++ Y P P+
Sbjct: 131 LAPGSAAQTNSMVTLGCLVKGYFPEPV 157
>pdb|2EC8|A Chain A, Crystal Structure Of The Exctracellular Domain Of The
Receptor Tyrosine Kinase, Kit
Length = 524
Score = 27.3 bits (59), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISW 108
V +N P++ + L+C A G P PTI W
Sbjct: 407 VYVNTKPEILTYDRLVNGMLQCVAAGFPEPTIDW 440
>pdb|2E9W|A Chain A, Crystal Structure Of The Extracellular Domain Of Kit In
Complex With Stem Cell Factor (Scf)
pdb|2E9W|B Chain B, Crystal Structure Of The Extracellular Domain Of Kit In
Complex With Stem Cell Factor (Scf)
Length = 489
Score = 27.3 bits (59), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 12/34 (35%), Positives = 17/34 (50%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISW 108
V +N P++ + L+C A G P PTI W
Sbjct: 382 VYVNTKPEILTYDRLVNGMLQCVAAGFPEPTIDW 415
>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 = 27.3 bits (59), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 28/117 (23%), Positives = 42/117 (35%), Gaps = 23/117 (19%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFTGS-------- 126
+ L SP A G V + C A ++W ++ P FT S
Sbjct: 2 IQLTQSPSSLSASVGDRVTITCSASQDISNYLNWYQQKPGKAPKVLIYFTSSLHSGVPSR 61
Query: 127 ----------TLQIPRITKEDRGAYYCVAQNGI----GRGARRKIEVKVEFAPIVTV 169
TL I + ED YYC + + G+G + +I+ V AP V +
Sbjct: 62 FSGSGSGTDFTLTISSLQPEDFATYYCQQYSTVPWTFGQGTKVEIKRTVA-APSVFI 117
>pdb|1XQ4|A Chain A, Crystal Structure Of The Putative Apaa Protein From
Bordetella Pertussis, Northeast Structural Genomics
Target Ber40
pdb|1XQ4|B Chain B, Crystal Structure Of The Putative Apaa Protein From
Bordetella Pertussis, Northeast Structural Genomics
Target Ber40
pdb|1XQ4|C Chain C, Crystal Structure Of The Putative Apaa Protein From
Bordetella Pertussis, Northeast Structural Genomics
Target Ber40
pdb|1XQ4|D Chain D, Crystal Structure Of The Putative Apaa Protein From
Bordetella Pertussis, Northeast Structural Genomics
Target Ber40
Length = 139
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 18/35 (51%)
Query: 115 ILPNGQTIFTGSTLQIPRITKEDRGAYYCVAQNGI 149
+L G+T S +P RG Y+CV +NGI
Sbjct: 79 LLAPGETFEYTSGCPLPTPIGTXRGTYHCVGENGI 113
>pdb|3TO4|D Chain D, Structure Of Mouse
Valpha14vbeta2-Mousecd1d-Alpha-Galactosylceramide
Length = 253
Score = 27.3 bits (59), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 13/50 (26%), Positives = 25/50 (50%), Gaps = 2/50 (4%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPNGQTIFT 124
+L +P+ + GQ+V L C + P +SW +++ + Q +FT
Sbjct: 2 TLLEQNPRWRLVPRGQAVNLRCILKNSQYPWMSWYQQD--LQKQLQWLFT 49
>pdb|3VG9|C Chain C, Crystal Structure Of Human Adenosine A2a Receptor With An
Allosteric Inverse-Agonist Antibody At 2.7 A Resolution
pdb|3VGA|C Chain C, Crystal Structure Of Human Adenosine A2a Receptor With An
Allosteric Inverse-Agonist Antibody At 3.1 A Resolution
Length = 226
Score = 27.3 bits (59), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 20/85 (23%), Positives = 31/85 (36%), Gaps = 14/85 (16%)
Query: 128 LQIPRITKEDRGAYYCVAQNGI------------GRGARRKIEVKVEFAPIVTVQSTRIG 175
+Q+ +T ED YYC + G+G + AP V + G
Sbjct: 81 IQLNSLTSEDSAVYYCAREGNYYDGGSVRYFDYWGQGTTLTVSSAKTTAPSVYPLAPVCG 140
Query: 176 QALHHDMDLDCHIEAY-PHPI-LYW 198
+ L C ++ Y P P+ L W
Sbjct: 141 DTSGSSVTLGCLVKGYFPEPVTLTW 165
>pdb|2ENS|A Chain A, Solution Structure Of The Third Ig-Like Domain From Human
Advanced Glycosylation End Product-Specific Receptor
Length = 96
Score = 27.3 bits (59), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 182 MDLDCHIEAYPHPILYWAKDG 202
+ L C + A P P ++W KDG
Sbjct: 28 VTLTCEVPAQPSPQIHWMKDG 48
>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 = 27.3 bits (59), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 28/117 (23%), Positives = 41/117 (35%), Gaps = 23/117 (19%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPTISWRRENNAILPN---------------- 118
+ L SP A G V + C A ++W ++ PN
Sbjct: 2 IQLTQSPSSLSASVGDRVTITCQASQDIRKYLNWYQQKPGKAPNLLIYDASNVKTGVPSR 61
Query: 119 --GQTIFTGSTLQIPRITKEDRGAYYCVAQNGI----GRGARRKIEVKVEFAPIVTV 169
G T T I + ED YYC + + G+G R +I+ V AP V +
Sbjct: 62 FRGSGSGTDFTFTISSLQPEDIATYYCQQYDNLPITFGQGTRLEIKRTVA-APSVFI 117
>pdb|32C2|A Chain A, Structure Of An Activity Suppressing Fab Fragment To
Cytochrome P450 Aromatase
Length = 217
Score = 26.9 bits (58), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 39/90 (43%), Gaps = 10/90 (11%)
Query: 123 FTGS------TLQIPRITKEDRGAYYCV-AQNGIGRGARRKIEVK-VEFAPIVTVQSTRI 174
F+GS TL I + +ED YYC + + G K+E+K + AP V++
Sbjct: 66 FSGSGSGTDFTLNIHPVEEEDAATYYCQHIREPLTFGGGTKLEIKRADAAPTVSIFPPSS 125
Query: 175 GQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 126 EQLTSGGASVVCFLNNFYPKDINVKWKIDG 155
>pdb|2LE9|A Chain A, Ragec2-S100a13 Tetrameric Complex
pdb|2LE9|D Chain D, Ragec2-S100a13 Tetrameric Complex
Length = 93
Score = 26.9 bits (58), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 9/21 (42%), Positives = 13/21 (61%)
Query: 182 MDLDCHIEAYPHPILYWAKDG 202
+ L C + A P P ++W KDG
Sbjct: 21 VTLTCEVPAQPSPQIHWMKDG 41
>pdb|1IBG|L Chain L, Structure And Specificity Of The Anti-Digoxin Antibody
40-50
Length = 217
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 60/155 (38%), Gaps = 27/155 (17%)
Query: 75 VILNNSPQLSVAKEGQSVQLECHAEGHPIPT----ISWRREN-----------NAILPNG 119
++L SP GQ + C A + I W ++ +IL +G
Sbjct: 1 IVLTQSPASLAVSLGQRATISCRASKSVSTSGYSHIHWYQQKPGQPPKLLIYLASILESG 60
Query: 120 Q-TIFTGS------TLQIPRITKEDRGAYYC--VAQNGIGRGARRKIEVK-VEFAPIVTV 169
F+GS TL I + +ED YYC + + GA ++E+K + AP V++
Sbjct: 61 VPARFSGSGSGTDFTLNIHPVEEEDAATYYCQHSREYPLTFGAGTELELKRADAAPTVSI 120
Query: 170 QSTRIGQALHHDMDLDCHI-EAYPHPI-LYWAKDG 202
Q + C + YP I + W DG
Sbjct: 121 FPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 155
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 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,546,787
Number of Sequences: 62578
Number of extensions: 318543
Number of successful extensions: 2527
Number of sequences better than 100.0: 706
Number of HSP's better than 100.0 without gapping: 220
Number of HSP's successfully gapped in prelim test: 486
Number of HSP's that attempted gapping in prelim test: 1711
Number of HSP's gapped (non-prelim): 1102
length of query: 232
length of database: 14,973,337
effective HSP length: 96
effective length of query: 136
effective length of database: 8,965,849
effective search space: 1219355464
effective search space used: 1219355464
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: 50 (23.9 bits)