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= psy14532
(258 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 188 bits (477), Expect = 3e-48, Method: Compositional matrix adjust.
Identities = 103/261 (39%), Positives = 155/261 (59%), Gaps = 19/261 (7%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P + F ++T++PGP V LKC+A GNPTP ISW+LDG +A + ++ ++G Q +
Sbjct: 430 PVIRQAFQEETMEPGPSVFLKCVAGGNPTPEISWELDGKKIANN---DRYQVG----QYV 482
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNV 122
+N + N T + N D G+Y C A +K G + + ++V G P++R M
Sbjct: 483 TVNGDVVSYLNITSVHAN-----DGGLYKCIAKSKVG-VAEHSAKLNVYGLPYIRQMEKK 536
Query: 123 SAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYW 182
+ +AGE L + CPVAGYPI+SI W++ + LP+NR+QKVFPNGTL+IENV+++ D+ Y
Sbjct: 537 AIVAGETLIVTCPVAGYPIDSIVWERDNRALPINRKQKVFPNGTLIIENVERNSDQATYT 596
Query: 183 CTATNKQGRSSSQNVHISVTVPPKIAPFEFQPD-LHSGDRAGVQCLVTKGDPPLTISWLK 241
C A N++G S+ ++ + V V P+I PF F+ G + C V GD PL I W
Sbjct: 597 CVAKNQEGYSARGSLEVQVMVLPRIIPFAFEEGPAQVGQYLTLHCSVPGGDLPLNIDWTL 656
Query: 242 NGLPILSAMG-----VGRKGN 257
+G I +G VGR+G+
Sbjct: 657 DGQAISEDLGITTSRVGRRGS 677
Score = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 66/245 (26%), Positives = 105/245 (42%), Gaps = 30/245 (12%)
Query: 6 IYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLN 65
+ KF +T ++L C A G P P W K G R Q + LN
Sbjct: 252 LAKFDMKTYSGSSTMALLCPAQGYPVPVFRWY-------------KFIEGTTRKQAVVLN 298
Query: 66 RRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMG--NVS 123
R K +GTL+I++ + D G Y C N G S + V ++VT AP + +
Sbjct: 299 DRVKQV-SGTLIIKDAVVE-DSGKYLCVVNNSVGGESVETV-LTVT-APLSAKIDPPTQT 354
Query: 124 AIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWC 183
G P C G PI++++W K + + + L IE+V+K+ D+G+Y C
Sbjct: 355 VDFGRPAVFTCQYTGNPIKTVSWMKDGKAIGHSE-------SVLRIESVKKE-DKGMYQC 406
Query: 184 TATN-KQGRSSSQNVHISVTVPPKIAPFEFQPD-LHSGDRAGVQCLVTKGDPPLTISWLK 241
N ++ +S + + P + FQ + + G ++C V G+P ISW
Sbjct: 407 FVRNDRESAEASAELKLGGRFDPPVIRQAFQEETMEPGPSVFLKC-VAGGNPTPEISWEL 465
Query: 242 NGLPI 246
+G I
Sbjct: 466 DGKKI 470
Score = 57.8 bits (138), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 59/208 (28%), Positives = 88/208 (42%), Gaps = 27/208 (12%)
Query: 3 PQLI-YKFIQQTLQPGPPVSLKCIATGNPTP-HISWKLDGYPLAGDRHENKNRIGEARVQ 60
P++I + F + Q G ++L C G P +I W LDG ++ D +R+G
Sbjct: 619 PRIIPFAFEEGPAQVGQYLTLHCSVPGGDLPLNIDWTLDGQAISEDLGITTSRVG----- 673
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQN-VHISVTGAPFVRPM 119
RR V L IE V+ H G + C A N G +++ V + P
Sbjct: 674 -----RRGSV-----LTIEAVEASH-AGNFTCHARNLAGHQQFTTPLNVYVPPRWILEPT 722
Query: 120 GNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLP-----LNRRQKV-FPNGTLLIENVQ 173
A G + C G+P +TW+K V P L + + GTL ++N+Q
Sbjct: 723 DKAFA-QGSDAKVECKADGFPKPQVTWKKAVGDTPGEYKDLKKSDNIRVEEGTLHVDNIQ 781
Query: 174 KDHDRGVYWCTATNKQGRSSSQNVHISV 201
K ++ G Y C A N G S + ISV
Sbjct: 782 KTNE-GYYLCEAINGIGSGLSAVIMISV 808
Score = 54.7 bits (130), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 66/248 (26%), Positives = 104/248 (41%), Gaps = 44/248 (17%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF 71
QT+ G P C TGNP +SW DG IG +
Sbjct: 353 QTVDFGRPAVFTCQYTGNPIKTVSWMKDG-----------KAIGHSE------------- 388
Query: 72 PNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA---PFVRPMGNVSAIA-G 127
L IE+V+K+ D+G+Y C N + S+ + + + G P +R + G
Sbjct: 389 --SVLRIESVKKE-DKGMYQCFVRNDR-ESAEASAELKLGGRFDPPVIRQAFQEETMEPG 444
Query: 128 EPLYLGCPVAGYPIESITWQKGVQQLPLNRR----QKVFPNGTLL-IENVQKDH--DRGV 180
++L C G P I+W+ +++ N R Q V NG ++ N+ H D G+
Sbjct: 445 PSVFLKCVAGGNPTPEISWELDGKKIANNDRYQVGQYVTVNGDVVSYLNITSVHANDGGL 504
Query: 181 YWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDPPLTISWL 240
Y C A +K G + + ++V P I E + + +G+ V C V G P +I W
Sbjct: 505 YKCIAKSKVG-VAEHSAKLNVYGLPYIRQME-KKAIVAGETLIVTCPVA-GYPIDSIVWE 561
Query: 241 KN--GLPI 246
++ LPI
Sbjct: 562 RDNRALPI 569
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 60/205 (29%), Positives = 88/205 (42%), Gaps = 27/205 (13%)
Query: 70 VFPNGTLLIENVQKDHDRGVYWCTATNK---QGRSSSQNVHISVTGAPFVRPMGNVSAIA 126
V P+G L I V + Y C ++ + R S+ + +T P + V ++A
Sbjct: 195 VLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVIT-EPISSAVPKVVSLA 253
Query: 127 ---------GEPLYLGCPVAGYPIESITWQKGV------QQLPLNRRQKVFPNGTLLIEN 171
+ L CP GYP+ W K + Q + LN R K +GTL+I++
Sbjct: 254 KFDMKTYSGSSTMALLCPAQGYPVPVFRWYKFIEGTTRKQAVVLNDRVKQV-SGTLIIKD 312
Query: 172 VQKDHDRGVYWCTATNKQGRSSSQNVHISVTVP--PKIAPFEFQPDLHSGDRAGVQCLVT 229
+ D G Y C N G S + V ++VT P KI P D G A C T
Sbjct: 313 AVVE-DSGKYLCVVNNSVGGESVETV-LTVTAPLSAKIDPPTQTVDF--GRPAVFTCQYT 368
Query: 230 KGDPPLTISWLKNGLPILSAMGVGR 254
G+P T+SW+K+G I + V R
Sbjct: 369 -GNPIKTVSWMKDGKAIGHSESVLR 392
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 51/238 (21%), Positives = 89/238 (37%), Gaps = 30/238 (12%)
Query: 22 LKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIENV 81
++C A+GNP P I W GD + + ++ VFP E+
Sbjct: 59 IECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGKL----------VFP--PFRAEDY 106
Query: 82 QKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVS-AIAGEPLYLGCPVAGYP 140
+++ VY C A N+ G S++VH+ A + N I G + C + +
Sbjct: 107 RQEVHAQVYACLARNQFGSIISRDVHVRAVVAQYYEADVNKEHVIRGNSAVIKCLIPSFV 166
Query: 141 ---IESITWQKGVQQ-----LPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNK---Q 189
+E ++W ++ + + V P+G L I V + Y C ++ +
Sbjct: 167 ADFVEVVSWHTDEEENYFPGAEYDGKYLVLPSGELHIREVGPEDGYKSYQCRTKHRLTGE 226
Query: 190 GRSSSQNVHISVTVP-----PKIAPF-EFQPDLHSGDRAGVQCLVTKGDPPLTISWLK 241
R S+ + +T P PK+ +F +SG +G P W K
Sbjct: 227 TRLSATKGRLVITEPISSAVPKVVSLAKFDMKTYSGSSTMALLCPAQGYPVPVFRWYK 284
>pdb|3LAF|A Chain A, Structure Of Dcc, A Netrin-1 Receptor
Length = 403
Score = 89.7 bits (221), Expect = 1e-18, Method: Compositional matrix adjust.
Identities = 75/248 (30%), Positives = 109/248 (43%), Gaps = 32/248 (12%)
Query: 8 KFIQQTLQ----PGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLP 63
+F+ QT G V LKC G+P P I W+ KN + + +P
Sbjct: 123 RFLSQTESITAFMGDTVLLKCEVIGDPMPTIHWQ-------------KN---QQDLNPIP 166
Query: 64 LNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP-------FV 116
+ R V P+G L I +Q D GVY C+A N + + + P F+
Sbjct: 167 GDSRVVVLPSGALQISRLQPG-DSGVYRCSARNPASTRTGNEAEVRILSDPGLHRQLYFL 225
Query: 117 RPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGT-LLIENVQKD 175
+ NV AI G+ L C V+GYP S TW +G + + L ++ G+ LLI NV D
Sbjct: 226 QRPSNVIAIEGKDAVLECCVSGYPPPSFTWLRGEEVIQLRSKKYSLLGGSNLLISNV-TD 284
Query: 176 HDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDPPL 235
D G Y C T K + S + ++V VPP + +C V+ G P
Sbjct: 285 DDSGTYTCVVTYKN-ENISASAELTVLVPPWFLNHPSNLYAYESMDIEFECAVS-GKPVP 342
Query: 236 TISWLKNG 243
T++W+KNG
Sbjct: 343 TVNWMKNG 350
Score = 82.8 bits (203), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 73/241 (30%), Positives = 109/241 (45%), Gaps = 35/241 (14%)
Query: 17 GPPVSLKCIATGNP-TPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGT 75
G V L C A + P I WK DG LA L ++ R++ PNG+
Sbjct: 36 GGNVLLNCSAESDRGVPVIKWKKDGLILA-----------------LGMDDRKQQLPNGS 78
Query: 76 LLIENV--QKDH--DRGVYWCTAT-NKQGRSSSQNVHISVTG-APFVRPMGNVSAIAGEP 129
LLI+N+ + H D G+Y C A+ G S+ + V G F+ +++A G+
Sbjct: 79 LLIQNILHSRHHKPDEGLYQCEASLGDSGSIISRTAKVMVAGPLRFLSQTESITAFMGDT 138
Query: 130 LYLGCPVAGYPIESITWQKGVQQL---PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTAT 186
+ L C V G P+ +I WQK Q L P + R V P+G L I +Q D GVY C+A
Sbjct: 139 VLLKCEVIGDPMPTIHWQKNQQDLNPIPGDSRVVVLPSGALQISRLQPG-DSGVYRCSAR 197
Query: 187 NKQGRSSSQNVHISVTVPPKI---APFEFQPD---LHSGDRAGVQCLVTKGDPPLTISWL 240
N + + + P + F +P G A ++C V+ G PP + +WL
Sbjct: 198 NPASTRTGNEAEVRILSDPGLHRQLYFLQRPSNVIAIEGKDAVLECCVS-GYPPPSFTWL 256
Query: 241 K 241
+
Sbjct: 257 R 257
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 48/179 (26%), Positives = 73/179 (40%), Gaps = 22/179 (12%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTL 76
G L+C +G P P +W L G+ V QL +++ + L
Sbjct: 236 GKDAVLECCVSGYPPPSFTW------LRGEE-----------VIQLR-SKKYSLLGGSNL 277
Query: 77 LIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP-FVRPMGNVSAIAGEPLYLGCP 135
LI NV D D G Y C T K + S + ++V P F+ N+ A + C
Sbjct: 278 LISNV-TDDDSGTYTCVVTYKN-ENISASAELTVLVPPWFLNHPSNLYAYESMDIEFECA 335
Query: 136 VAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSS 194
V+G P+ ++ W K + + ++ L I V K D G Y C A N+ G + S
Sbjct: 336 VSGKPVPTVNWMKNGDVVIPSDYFQIVGGSNLRILGVVKS-DEGFYQCVAENEAGNAQS 393
>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 = 78.2 bits (191), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 61/184 (33%), Positives = 80/184 (43%), Gaps = 20/184 (10%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIEN 80
+ C P P ISW +N+I + +L + R + NG LL
Sbjct: 26 TFMCAVESYPQPEISW-------------TRNKI----LIKL-FDTRYSIRENGQLLTIL 67
Query: 81 VQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP-FVRPMGNVSAIAGEPLYLGCPVAGY 139
+D D G+Y CTA N G + + V P RP NV I G L C G
Sbjct: 68 SVEDSDDGIYCCTANNGVGGAVESCGALQVKMKPKITRPPINVKIIEGLKAVLPCTTMGN 127
Query: 140 PIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHI 199
P S++W KG L N R V +G+L I NVQK+ D G Y C A N G + S+ V +
Sbjct: 128 PKPSVSWIKGDSALRENSRIAVLESGSLRIHNVQKE-DAGQYRCVAKNSLGTAYSKLVKL 186
Query: 200 SVTV 203
V V
Sbjct: 187 EVEV 190
Score = 57.4 bits (137), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 40/131 (30%), Positives = 60/131 (45%), Gaps = 3/131 (2%)
Query: 113 APFVR-PMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPL-NRRQKVFPNGTLLIE 170
AP + P+ V A+ E C V YP I+W + + L + R + NG LL
Sbjct: 7 APVITTPLETVDALVEEVATFMCAVESYPQPEISWTRNKILIKLFDTRYSIRENGQLLTI 66
Query: 171 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTK 230
+D D G+Y CTA N G + + V + PKI + G +A + C T
Sbjct: 67 LSVEDSDDGIYCCTANNGVGGAVESCGALQVKMKPKITRPPINVKIIEGLKAVLPC-TTM 125
Query: 231 GDPPLTISWLK 241
G+P ++SW+K
Sbjct: 126 GNPKPSVSWIK 136
Score = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 32/94 (34%), Positives = 40/94 (42%), Gaps = 20/94 (21%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTL 76
G L C GNP P +SW + GD L N R V +G+L
Sbjct: 115 GLKAVLPCTTMGNPKPSVSW------IKGD-------------SALRENSRIAVLESGSL 155
Query: 77 LIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV 110
I NVQK+ D G Y C A N G + S+ V + V
Sbjct: 156 RIHNVQKE-DAGQYRCVAKNSLGTAYSKLVKLEV 188
>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 = 72.0 bits (175), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 53/212 (25%), Positives = 89/212 (41%), Gaps = 22/212 (10%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P+++ + G P +L C A G PTP I W G + D+ + ++
Sbjct: 10 PRIVEHPSDLIVSKGEPATLNCKAEGRPTPTIEWYKGGERVETDKDDPRS---------- 59
Query: 63 PLNRRQKVFPNGTL----LIENVQKDHDRGVYWCTATNKQGRSSSQN--VHISVTGAPFV 116
+ + P+G+L ++ + D GVY C A N G + S + + +++ F
Sbjct: 60 ----HRMLLPSGSLFFLRIVHGRKSRPDEGVYVCVARNYLGEAVSHDASLEVAILRDDFR 115
Query: 117 RPMGNVSAIAGEPLYLGC-PVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKD 175
+ +V GEP + C P G+P +I+W+K L + G L+I +K
Sbjct: 116 QNPSDVMVAVGEPAVMECQPPRGHPEPTISWKKDGSPLDDKDERITIRGGKLMITYTRKS 175
Query: 176 HDRGVYWCTATNKQGRSSSQNVHISVTVPPKI 207
D G Y C TN G S+ ++V P
Sbjct: 176 -DAGKYVCVGTNMVGERESEVAELTVLERPSF 206
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 38/132 (28%), Positives = 62/132 (46%), Gaps = 14/132 (10%)
Query: 127 GEPLYLGCPVAGYPIESITWQKGVQQLPLNR-----RQKVFPNGTL----LIENVQKDHD 177
GEP L C G P +I W KG +++ ++ + + P+G+L ++ + D
Sbjct: 24 GEPATLNCKAEGRPTPTIEWYKGGERVETDKDDPRSHRMLLPSGSLFFLRIVHGRKSRPD 83
Query: 178 RGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPD---LHSGDRAGVQCLVTKGDPP 234
GVY C A N G + S + + V + F P + G+ A ++C +G P
Sbjct: 84 EGVYVCVARNYLGEAVSHDASLEVAILRD--DFRQNPSDVMVAVGEPAVMECQPPRGHPE 141
Query: 235 LTISWLKNGLPI 246
TISW K+G P+
Sbjct: 142 PTISWKKDGSPL 153
>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 = 67.4 bits (163), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 58/215 (26%), Positives = 86/215 (40%), Gaps = 31/215 (14%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P++I ++ P +L C G P P I W DG P++ + ++ RVQ
Sbjct: 10 PRIIEHPTDLVVKKNEPATLNCKVEGKPEPTIEWFKDGEPVSTNEKKSH------RVQ-- 61
Query: 63 PLNRRQKVFPNGTLLIENV---QKDHDRGVYWCTATNKQGRSSSQ--NVHISVTGAPFVR 117
F +G L +K+ D G YWC A N+ G++ S+ ++ I+V F
Sbjct: 62 --------FKDGALFFYRTMQGKKEQDGGEYWCVAKNRVGQAVSRHASLQIAVLRDDFRV 113
Query: 118 PMGNVSAIAGEPLYLGC-PVAGYPIESITWQKG--------VQQLPLNRRQKVFPNGTLL 168
+ GE L C P G P ++ W K + R ++ G LL
Sbjct: 114 EPKDTRVAKGETALLECGPPKGIPEPTLIWIKDGVPLDDLKAMSFGASSRVRIVDGGNLL 173
Query: 169 IENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTV 203
I NV+ D G Y C A N G S + V V
Sbjct: 174 ISNVEP-IDEGNYKCIAQNLVGTRESSYAKLIVQV 207
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 43/137 (31%), Positives = 67/137 (48%), Gaps = 13/137 (9%)
Query: 128 EPLYLGCPVAGYPIESITWQKGVQQLPLNRRQK---VFPNGTLLIENV---QKDHDRGVY 181
EP L C V G P +I W K + + N ++ F +G L +K+ D G Y
Sbjct: 25 EPATLNCKVEGKPEPTIEWFKDGEPVSTNEKKSHRVQFKDGALFFYRTMQGKKEQDGGEY 84
Query: 182 WCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPD---LHSGDRAGVQCLVTKGDPPLTIS 238
WC A N+ G++ S+ H S+ + F +P + G+ A ++C KG P T+
Sbjct: 85 WCVAKNRVGQAVSR--HASLQIAVLRDDFRVEPKDTRVAKGETALLECGPPKGIPEPTLI 142
Query: 239 WLKNGLPI--LSAMGVG 253
W+K+G+P+ L AM G
Sbjct: 143 WIKDGVPLDDLKAMSFG 159
>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 = 67.4 bits (163), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 58/215 (26%), Positives = 86/215 (40%), Gaps = 31/215 (14%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P++I ++ P +L C G P P I W DG P++ + ++ RVQ
Sbjct: 10 PRIIEHPTDLVVKKNEPATLNCKVEGKPEPTIEWFKDGEPVSTNEKKSH------RVQ-- 61
Query: 63 PLNRRQKVFPNGTLLIENV---QKDHDRGVYWCTATNKQGRSSSQ--NVHISVTGAPFVR 117
F +G L +K+ D G YWC A N+ G++ S+ ++ I+V F
Sbjct: 62 --------FKDGALFFYRTMQGKKEQDGGEYWCVAKNRVGQAVSRHASLQIAVLRDDFRV 113
Query: 118 PMGNVSAIAGEPLYLGC-PVAGYPIESITWQKG--------VQQLPLNRRQKVFPNGTLL 168
+ GE L C P G P ++ W K + R ++ G LL
Sbjct: 114 EPKDTRVAKGETALLECGPPKGIPEPTLIWIKDGVPLDDLKAMSFGASSRVRIVDGGNLL 173
Query: 169 IENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTV 203
I NV+ D G Y C A N G S + V V
Sbjct: 174 ISNVEP-IDEGNYKCIAQNLVGTRESSYAKLIVQV 207
Score = 63.5 bits (153), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 43/137 (31%), Positives = 67/137 (48%), Gaps = 13/137 (9%)
Query: 128 EPLYLGCPVAGYPIESITWQKGVQQLPLNRRQK---VFPNGTLLIENV---QKDHDRGVY 181
EP L C V G P +I W K + + N ++ F +G L +K+ D G Y
Sbjct: 25 EPATLNCKVEGKPEPTIEWFKDGEPVSTNEKKSHRVQFKDGALFFYRTMQGKKEQDGGEY 84
Query: 182 WCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPD---LHSGDRAGVQCLVTKGDPPLTIS 238
WC A N+ G++ S+ H S+ + F +P + G+ A ++C KG P T+
Sbjct: 85 WCVAKNRVGQAVSR--HASLQIAVLRDDFRVEPKDTRVAKGETALLECGPPKGIPEPTLI 142
Query: 239 WLKNGLPI--LSAMGVG 253
W+K+G+P+ L AM G
Sbjct: 143 WIKDGVPLDDLKAMSFG 159
>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 = 64.3 bits (155), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 52/177 (29%), Positives = 75/177 (42%), Gaps = 24/177 (13%)
Query: 15 QPGPPVSLKCIATGNPTPHISW-KLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPN 73
+ G V L+C A GNP P I W + DG P+A +K+ N
Sbjct: 217 EKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKS--------------------N 256
Query: 74 GTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSAIAGEPLYLG 133
G L I N Q++ D G Y C A N +G++ ++ +V+ + ++ E ++
Sbjct: 257 GILEIPNFQQE-DAGSYECVAENSRGKNVAKGQLTFYAQPNWVQIINDIHVAMEESVFWE 315
Query: 134 CPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQG 190
C G P + W K L L R + GTL I V D G+Y C A NK G
Sbjct: 316 CKANGRPKPTYRWLKNGDPL-LTRDRIQIEQGTLNITIVNLS-DAGMYQCVAENKHG 370
Score = 55.5 bits (132), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 53/176 (30%), Positives = 70/176 (39%), Gaps = 31/176 (17%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V L C GNP PHI WKL+G + + ++ R V +G+LLI
Sbjct: 25 VKLSCEVKGNPKPHIRWKLNGTDV-----------------DIGMDFRYSVV-DGSLLIN 66
Query: 80 NVQKDHDRGVYWCTATNKQGR--SSSQNVHISVTGAPFVRPMGNVSAIAGEPLYLGC--- 134
N K D G Y C ATN G S + + R VS G+ + L C
Sbjct: 67 NPNKTQDAGTYQCIATNSFGTIVSREAKLQFAYLENFKTRTRSTVSVRRGQGMVLLCGPP 126
Query: 135 PVAGYPIESITWQKGVQQLPL---NRRQKVFPNGTLLIENVQKDHDRGVYWCTATN 187
P +G +++ + P NRR G L I V+K D G Y C TN
Sbjct: 127 PHSG----ELSYAWIFNEYPSYQDNRRFVSQETGNLYIAKVEKS-DVGNYTCVVTN 177
Score = 47.8 bits (112), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 56/204 (27%), Positives = 81/204 (39%), Gaps = 33/204 (16%)
Query: 65 NRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP---FVRPMG- 120
NRR G L I V+K D G Y C TN + V G P +R G
Sbjct: 147 NRRFVSQETGNLYIAKVEKS-DVGNYTCVVTNTV-------TNHKVLGPPTPLILRNDGV 198
Query: 121 --------------NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGT 166
V A G + L C G P+ +I W++ + + ++ NG
Sbjct: 199 MGEYEPKIEVQFPETVPAEKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKSNGI 258
Query: 167 LLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGV-- 224
L I N Q++ D G Y C A N +G++ ++ P + + D+H V
Sbjct: 259 LEIPNFQQE-DAGSYECVAENSRGKNVAKGQLTFYAQPNWV---QIINDIHVAMEESVFW 314
Query: 225 QCLVTKGDPPLTISWLKNGLPILS 248
+C G P T WLKNG P+L+
Sbjct: 315 ECKAN-GRPKPTYRWLKNGDPLLT 337
>pdb|3KLD|A Chain A, Ptprg Cntn4 Complex
Length = 384
Score = 63.9 bits (154), Expect = 7e-11, Method: Compositional matrix adjust.
Identities = 52/177 (29%), Positives = 75/177 (42%), Gaps = 24/177 (13%)
Query: 15 QPGPPVSLKCIATGNPTPHISW-KLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPN 73
+ G V L+C A GNP P I W + DG P+A +K+ N
Sbjct: 218 EKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKS--------------------N 257
Query: 74 GTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSAIAGEPLYLG 133
G L I N Q++ D G Y C A N +G++ ++ +V+ + ++ E ++
Sbjct: 258 GILEIPNFQQE-DAGSYECVAENSRGKNVAKGQLTFYAQPNWVQIINDIHVAMEESVFWE 316
Query: 134 CPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQG 190
C G P + W K L L R + GTL I V D G+Y C A NK G
Sbjct: 317 CKANGRPKPTYRWLKNGDPL-LTRDRIQIEQGTLNITIVNLS-DAGMYQCVAENKHG 371
Score = 55.5 bits (132), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 53/176 (30%), Positives = 70/176 (39%), Gaps = 31/176 (17%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V L C GNP PHI WKL+G + + ++ R V +G+LLI
Sbjct: 26 VKLSCEVKGNPKPHIRWKLNGTDV-----------------DIGMDFRYSVV-DGSLLIN 67
Query: 80 NVQKDHDRGVYWCTATNKQGR--SSSQNVHISVTGAPFVRPMGNVSAIAGEPLYLGC--- 134
N K D G Y C ATN G S + + R VS G+ + L C
Sbjct: 68 NPNKTQDAGTYQCIATNSFGTIVSREAKLQFAYLENFKTRTRSTVSVRRGQGMVLLCGPP 127
Query: 135 PVAGYPIESITWQKGVQQLPL---NRRQKVFPNGTLLIENVQKDHDRGVYWCTATN 187
P +G +++ + P NRR G L I V+K D G Y C TN
Sbjct: 128 PHSG----ELSYAWIFNEYPSYQDNRRFVSQETGNLYIAKVEKS-DVGNYTCVVTN 178
Score = 47.8 bits (112), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 56/204 (27%), Positives = 81/204 (39%), Gaps = 33/204 (16%)
Query: 65 NRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP---FVRPMG- 120
NRR G L I V+K D G Y C TN + V G P +R G
Sbjct: 148 NRRFVSQETGNLYIAKVEKS-DVGNYTCVVTNTV-------TNHKVLGPPTPLILRNDGV 199
Query: 121 --------------NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGT 166
V A G + L C G P+ +I W++ + + ++ NG
Sbjct: 200 MGEYEPKIEVQFPETVPAEKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKSNGI 259
Query: 167 LLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGV-- 224
L I N Q++ D G Y C A N +G++ ++ P + + D+H V
Sbjct: 260 LEIPNFQQE-DAGSYECVAENSRGKNVAKGQLTFYAQPNWV---QIINDIHVAMEESVFW 315
Query: 225 QCLVTKGDPPLTISWLKNGLPILS 248
+C G P T WLKNG P+L+
Sbjct: 316 ECKAN-GRPKPTYRWLKNGDPLLT 338
>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 = 63.2 bits (152), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 58/219 (26%), Positives = 93/219 (42%), Gaps = 30/219 (13%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P++I K Q ++ G S C A G+P P I W+ +G ++G ++R L
Sbjct: 9 PEIIRKPQNQGVRVGGVASFYCAARGDPPPSIVWRKNGKKVSGT---------QSRYTVL 59
Query: 63 PLNRRQKVFPNG--TLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV-------TGA 113
P G L IE V+ D Y C A N G + S + +++ G
Sbjct: 60 EQ-------PGGISILRIEPVRAGRDDAPYECVAENGVGDAVSADATLTIYEGDKTPAGF 112
Query: 114 PFVRPMGNVSAI-AGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENV 172
P + I G + + C G P +I W K ++ ++ + +G L IEN
Sbjct: 113 PVITQGPGTRVIEVGHTVLMTCKAIGNPTPNIYWIKNQTKVDMSNPRYSLKDGFLQIEN- 171
Query: 173 QKDHDRGVYWCTATNKQG--RSSSQNVHISV-TVPPKIA 208
++ D+G Y C A N G S + N+++ V VPP +
Sbjct: 172 SREEDQGKYECVAENSMGTEHSKATNLYVKVRRVPPTFS 210
>pdb|2YD1|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Drosophila Receptor Protein Tyrosine Phosphatase Dlar
Length = 212
Score = 62.8 bits (151), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 55/211 (26%), Positives = 88/211 (41%), Gaps = 27/211 (12%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P++I K Q ++ G S C A G+P P I W+ +G ++G ++R L
Sbjct: 7 PEIIRKPQNQGVRVGGVASFYCAARGDPPPSIVWRKNGKKVSGT---------QSRYTVL 57
Query: 63 PLNRRQKVFPNG--TLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV-------TGA 113
P G L IE V+ D Y C A N G + S + +++ G
Sbjct: 58 EQ-------PGGISILRIEPVRAGRDDAPYECVAENGVGDAVSADATLTIYEGDKTPAGF 110
Query: 114 PFVRPMGNVSAI-AGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENV 172
P + I G + + C G P +I W K ++ ++ + +G L IEN
Sbjct: 111 PVITQGPGTRVIEVGHTVLMTCKAIGNPTPNIYWIKNQTKVDMSNPRYSLKDGFLQIEN- 169
Query: 173 QKDHDRGVYWCTATNKQGRSSSQNVHISVTV 203
++ D+G Y C A N G S+ ++ V V
Sbjct: 170 SREEDQGKYECVAENSMGTEHSKATNLYVKV 200
>pdb|3B43|A Chain A, I-band Fragment I65-i70 From Titin
Length = 570
Score = 62.4 bits (150), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 68/241 (28%), Positives = 100/241 (41%), Gaps = 33/241 (13%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTL 76
G P++L+C G P I+W + K R A Q N +L
Sbjct: 20 GEPITLQCKVDGTPEIRIAWY---------KEHTKLRSAPAYKMQFKNNV-------ASL 63
Query: 77 LIENVQKDH-DRGVYWCTATNKQGRSSSQNVHISVTGA---PFVRPMGNVSAIAGEPLYL 132
+I V DH D G Y C A N G +S V + F R + +V G P+
Sbjct: 64 VINKV--DHSDVGEYTCKAENSVGAVASSAVLVIKERKLPPSFARKLKDVHETLGFPVAF 121
Query: 133 GCPVAGYPIESITWQKGVQQLPLNRR-QKVFPNGTLLIENVQKDHDR-GVYWCTATNKQG 190
C + G ++W K + L + Q F + ++ +Q D G Y C+A+N G
Sbjct: 122 ECRINGSEPLQVSWYKDGELLKDDANLQTSFIHNVATLQILQTDQSHVGQYNCSASNPLG 181
Query: 191 R-SSSQNVHISV-TVPPKIAPFEFQP---DLHSGDRAGVQCLVTKGDPPLTISWLKNGLP 245
SSS + +S VPP F+ +P DL G+ +C VT G P+ I+W K+
Sbjct: 182 TASSSAKLTLSEHEVPPF---FDLKPVSVDLALGESGTFKCHVT-GTAPIKITWAKDNRE 237
Query: 246 I 246
I
Sbjct: 238 I 238
Score = 55.5 bits (132), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 46/137 (33%), Positives = 62/137 (45%), Gaps = 13/137 (9%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQL---PLNRRQKVFPNGTLLIEN 171
F+ P+ +V A GEP+ L C V G P I W K +L P + Q +L+I
Sbjct: 8 FIEPLEHVEAAIGEPITLQCKVDGTPEIRIAWYKEHTKLRSAPAYKMQFKNNVASLVINK 67
Query: 172 VQKDH-DRGVYWCTATNKQGRSSSQNVHI--SVTVPPKIAPFEFQPDLHS--GDRAGVQC 226
V DH D G Y C A N G +S V + +PP A D+H G +C
Sbjct: 68 V--DHSDVGEYTCKAENSVGAVASSAVLVIKERKLPPSFA--RKLKDVHETLGFPVAFEC 123
Query: 227 LVTKGDPPLTISWLKNG 243
+ G PL +SW K+G
Sbjct: 124 RIN-GSEPLQVSWYKDG 139
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 48/191 (25%), Positives = 81/191 (42%), Gaps = 9/191 (4%)
Query: 56 EARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPF 115
E +Q+ R V L + N+ + D G Y C A N G +SS + V P
Sbjct: 329 ETEIQESSKFRMSFVESVAVLEMYNLSVE-DSGDYTCEAHNAAGSASSSTS-LKVKEPPV 386
Query: 116 VRPMGN-VSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLL---IEN 171
R + V + G ++L C + G P ++W K ++L ++ K+ L I N
Sbjct: 387 FRKKPHPVETLKGADVHLECELQGTPPFQVSWHKDKRELRSGKKYKIMSENFLTSIHILN 446
Query: 172 VQKDHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKG 231
V D G Y C A+N G + I++ PP+ G+ +Q + +G
Sbjct: 447 VD-SADIGEYQCKASNDVGSDTCVG-SITLKAPPRFVKKLSDISTVVGEEVQLQATI-EG 503
Query: 232 DPPLTISWLKN 242
P++++W K+
Sbjct: 504 AEPISVAWFKD 514
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 60/141 (42%), Gaps = 26/141 (18%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF 71
+TL+ G V L+C G P +SW H++K ++L ++ K+
Sbjct: 395 ETLK-GADVHLECELQGTPPFQVSW-----------HKDK--------RELRSGKKYKIM 434
Query: 72 PNGTLL---IENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP-FVRPMGNVSAIAG 127
L I NV D G Y C A+N G + I++ P FV+ + ++S + G
Sbjct: 435 SENFLTSIHILNVD-SADIGEYQCKASNDVGSDTCVG-SITLKAPPRFVKKLSDISTVVG 492
Query: 128 EPLYLGCPVAGYPIESITWQK 148
E + L + G S+ W K
Sbjct: 493 EEVQLQATIEGAEPISVAWFK 513
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 61/245 (24%), Positives = 90/245 (36%), Gaps = 26/245 (10%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P K + L G + KC TG I+W D + R G L
Sbjct: 198 PFFDLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREI---------RPGGNYKMTL 248
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP-FVRPMGN 121
N TL + V K D G Y C A+N G+ S + + V P F++ +
Sbjct: 249 VEN-------TATLTVLKVTKG-DAGQYTCYASNVAGKDSC-SAQLGVQEPPRFIKKLEP 299
Query: 122 VSAIA-GEPLYLGCPVAGYPIESITWQKG---VQQLPLNRRQKVFPNGTLLIENVQKDHD 177
+ E C + G P + W K +Q+ R V L + N+ + D
Sbjct: 300 SRIVKQDEHTRYECKIGGSPEIKVLWYKDETEIQESSKFRMSFVESVAVLEMYNLSVE-D 358
Query: 178 RGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDPPLTI 237
G Y C A N G +SS + V PP + G ++C + +G PP +
Sbjct: 359 SGDYTCEAHNAAGSASSSTS-LKVKEPPVFRKKPHPVETLKGADVHLECEL-QGTPPFQV 416
Query: 238 SWLKN 242
SW K+
Sbjct: 417 SWHKD 421
>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 = 61.6 bits (148), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 66/250 (26%), Positives = 112/250 (44%), Gaps = 35/250 (14%)
Query: 14 LQPGPPVSLKCIAT-GNPTPHISWKLDGY-PLAGDRHENKNRIGEARVQQLPLNRRQKVF 71
+Q G P++L+C G P+P I W P+ D+ ++ G+ F
Sbjct: 128 VQEGAPLTLQCNPPPGLPSPVIFWMSSSMEPITQDKRVSQGHNGDL------------YF 175
Query: 72 PNGTLLIENVQKDHD-RGVYWCTATNKQGRSSSQNV----HISVTGAPFVRPMGNVSA-- 124
N ++++++Q D+ + T T +Q + V ++ F+ P G S+
Sbjct: 176 SN--VMLQDMQTDYSCNARFHFTHTIQQKNPFTLKVLTTRGVAERTPSFMYPQGTASSQM 233
Query: 125 -IAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWC 183
+ G L L C +G P I W K LP ++ + N L I NV ++ D G Y+C
Sbjct: 234 VLRGMDLLLECIASGVPTPDIAWYKKGGDLPSDKAKFENFNKALRITNVSEE-DSGEYFC 292
Query: 184 TATNKQGRSSSQNVHISVTVPPKIAPFEF-QPD---LHSGDRAGVQCLVTKGDPPLTISW 239
A+NK G ++ +++V K AP+ +P L G+ + C G+P T+ W
Sbjct: 293 LASNKMG-----SIRHTISVRVKAAPYWLDEPKNLILAPGEDGRLVCRAN-GNPKPTVQW 346
Query: 240 LKNGLPILSA 249
+ NG P+ SA
Sbjct: 347 MVNGEPLQSA 356
Score = 61.2 bits (147), Expect = 5e-10, Method: Compositional matrix adjust.
Identities = 53/183 (28%), Positives = 80/183 (43%), Gaps = 27/183 (14%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF 71
Q + G + L+CIA+G PTP I+W G L D+ + +N
Sbjct: 232 QMVLRGMDLLLECIASGVPTPDIAWYKKGGDLPSDKAKFENF------------------ 273
Query: 72 PNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPF-VRPMGNVSAIAGEPL 130
N L I NV ++ D G Y+C A+NK G S + + V AP+ + N+ GE
Sbjct: 274 -NKALRITNVSEE-DSGEYFCLASNKMG-SIRHTISVRVKAAPYWLDEPKNLILAPGEDG 330
Query: 131 YLGCPVAGYPIESITWQ---KGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATN 187
L C G P ++ W + +Q P N ++V G +I + R VY C +N
Sbjct: 331 RLVCRANGNPKPTVQWMVNGEPLQSAPPNPNREV--AGDTIIFRDTQISSRAVYQCNTSN 388
Query: 188 KQG 190
+ G
Sbjct: 389 EHG 391
Score = 47.8 bits (112), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 48/181 (26%), Positives = 75/181 (41%), Gaps = 27/181 (14%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPN 73
+ P + ++C A GNP P W N A+ ++ + RR +
Sbjct: 29 VDPRDNILIECEAKGNPAPSFHWT-----------RNSRFFNIAKDPRVSMRRR-----S 72
Query: 74 GTLLIE---NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSAIA---G 127
GTL+I+ + + G Y C A NK G + S + + V+ +P + P N+ + G
Sbjct: 73 GTLVIDFRSGGRPEEYEGEYQCFARNKFGTALSNRIRLQVSKSP-LWPKENLDPVVVQEG 131
Query: 128 EPLYLGC-PVAGYPIESITWQKGVQQLPLNRRQKVFP--NGTLLIENVQKDHDRGVYWCT 184
PL L C P G P I W + P+ + ++V NG L NV + Y C
Sbjct: 132 APLTLQCNPPPGLPSPVIFWMSSSME-PITQDKRVSQGHNGDLYFSNVMLQDMQTDYSCN 190
Query: 185 A 185
A
Sbjct: 191 A 191
>pdb|2OM5|A Chain A, N-Terminal Fragment Of Human Tax1
Length = 381
Score = 60.5 bits (145), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 51/175 (29%), Positives = 71/175 (40%), Gaps = 27/175 (15%)
Query: 17 GPPVSLKCIATGNPTPHISW-KLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGT 75
G V+L+C A GNP P I W K+DG Q T
Sbjct: 221 GQQVTLECFAFGNPVPRIKWRKVDGSL-----------------------SPQWTTAEPT 257
Query: 76 LLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSAIAGEPLYLGCP 135
L I +V + D G Y C A N +GR + Q I +++ + + A G L GC
Sbjct: 258 LQIPSVSFE-DEGTYECEAENSKGRDTVQGRIIVQAQPEWLKVISDTEADIGSNLRWGCA 316
Query: 136 VAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQG 190
AG P ++ W + + L R +V G L + + D G+Y C A NK G
Sbjct: 317 AAGKPRPTVRWLRNGEPLASQNRVEVLA-GDLRFSKLSLE-DSGMYQCVAENKHG 369
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 49/176 (27%), Positives = 73/176 (41%), Gaps = 20/176 (11%)
Query: 86 DRGVYWCTATNKQGRSS----SQNVHISVTG------APFVRPM--GNVSAIAGEPLYLG 133
D G Y C AT+ S+ S+ +++ AP ++ A+ G+ + L
Sbjct: 168 DLGNYSCLATSHMDFSTKSVFSKFAQLNLAAEDTRLFAPSIKARFPAETYALVGQQVTLE 227
Query: 134 CPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSS 193
C G P+ I W+K L Q TL I +V + D G Y C A N +GR +
Sbjct: 228 CFAFGNPVPRIKWRKVDGSL---SPQWTTAEPTLQIPSVSFE-DEGTYECEAENSKGRDT 283
Query: 194 SQNVHISVTVPPKIAPF-EFQPDLHSGDRAGVQCLVTKGDPPLTISWLKNGLPILS 248
Q I P + + + D+ S R G G P T+ WL+NG P+ S
Sbjct: 284 VQGRIIVQAQPEWLKVISDTEADIGSNLRWGC---AAAGKPRPTVRWLRNGEPLAS 336
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 48/122 (39%), Gaps = 6/122 (4%)
Query: 128 EPLYLGCPVAGYPIESITWQKGVQQLPL---NRRQKVFPNGTLLIENVQKDHDRGVYWCT 184
E + L C P + W+ ++ L +R Q V G L+I N K D GVY C
Sbjct: 22 EQVLLACRARASPPATYRWKMNGTEMKLEPGSRHQLV--GGNLVIMNPTKAQDAGVYQCL 79
Query: 185 ATNKQGRSSSQNVHISVTVPPKIAPFEFQP-DLHSGDRAGVQCLVTKGDPPLTISWLKNG 243
A+N G S+ + + + E P H G + C P L+ WL N
Sbjct: 80 ASNPVGTVVSREAILRFGFLQEFSKEERDPVKAHEGWGVMLPCNPPAHYPGLSYRWLLNE 139
Query: 244 LP 245
P
Sbjct: 140 FP 141
Score = 35.4 bits (80), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 51/183 (27%), Positives = 69/183 (37%), Gaps = 31/183 (16%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V L C A +P WK++G ++ P +R Q V G L+I
Sbjct: 24 VLLACRARASPPATYRWKMNG----------------TEMKLEPGSRHQLV--GGNLVIM 65
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGN-----VSAIAGEPLYLGC 134
N K D GVY C A+N G S+ + F++ V A G + L C
Sbjct: 66 NPTKAQDAGVYQCLASNPVGTVVSREAILRFG---FLQEFSKEERDPVKAHEGWGVMLPC 122
Query: 135 -PVAGYPIESITW--QKGVQQLPLNRRQKVF-PNGTLLIENVQKDHDRGVYWCTATNKQG 190
P A YP S W + +P + R V G L I D G Y C AT+
Sbjct: 123 NPPAHYPGLSYRWLLNEFPNFIPTDGRHFVSQTTGNLYIARTNAS-DLGNYSCLATSHMD 181
Query: 191 RSS 193
S+
Sbjct: 182 FST 184
>pdb|2YD9|A Chain A, Crystal Structure Of The N-Terminal Ig1-3 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 304
Score = 58.9 bits (141), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 68/272 (25%), Positives = 106/272 (38%), Gaps = 42/272 (15%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P+ I + Q G S C ATG+P P ++W G ++ R + +
Sbjct: 7 PRFIKEPKDQIGVSGGVASFVCQATGDPKPRVTWNKKG-----------KKVNSQRFETI 55
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVT---------GA 113
+ L I+ ++ D VY C A N G + VH +T G
Sbjct: 56 EFDESA----GAVLRIQPLRTPRDENVYECVAQNSVGEIT---VHAKLTVLREDQLPSGF 108
Query: 114 PFVRPMGNVSAIA-GEPLYLGCPVAGYPIESITWQKGVQQLPL-----NRRQKVFPNGTL 167
P + + + + C +G P ITW K LP+ N R K +G L
Sbjct: 109 PNIDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDF--LPVDPSASNGRIKQLRSGAL 166
Query: 168 LIENVQKDHDRGVYWCTATNKQG--RSSSQNVHISV-TVPPKIAPFEFQPDLHSGDRAGV 224
IE+ ++ D+G Y C ATN G SS N+++ V V P+ + ++ G +
Sbjct: 167 QIES-SEETDQGKYECVATNSAGVRYSSPANLYVRVQNVAPRFSILPMSHEIMPGGNVNI 225
Query: 225 QCLVTKGDPPLTISWLKNGLPIL--SAMGVGR 254
C V G P + W++ + M VGR
Sbjct: 226 TC-VAVGSPMPYVKWMQGAEDLTPEDDMPVGR 256
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 54/193 (27%), Positives = 86/193 (44%), Gaps = 33/193 (17%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
PQL K +++T ++ C A+GNP P I+W D P+ D + RI + R
Sbjct: 115 PQL--KVVERTRT----ATMLCAASGNPDPEITWFKDFLPV--DPSASNGRIKQLR---- 162
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQG--RSSSQNVHISVTG-AP--FVR 117
+G L IE+ ++ D+G Y C ATN G SS N+++ V AP +
Sbjct: 163 ----------SGALQIES-SEETDQGKYECVATNSAGVRYSSPANLYVRVQNVAPRFSIL 211
Query: 118 PMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHD 177
PM + + G + + C G P+ + W +G + L + P G ++E + D
Sbjct: 212 PMSH-EIMPGGNVNITCVAVGSPMPYVKWMQGAEDL---TPEDDMPVGRNVLE-LTDVKD 266
Query: 178 RGVYWCTATNKQG 190
Y C A + G
Sbjct: 267 SANYTCVAMSSLG 279
>pdb|1CS6|A Chain A, N-terminal Fragment Of Axonin-1 From Chicken
Length = 382
Score = 58.5 bits (140), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 55/191 (28%), Positives = 79/191 (41%), Gaps = 30/191 (15%)
Query: 3 PQLIYKFIQQTLQ-PGPPVSLKCIATGNPTPHISW-KLDGYPLAGDRHENKNRIGEARVQ 60
P + KF T G V+L+C A GNP P I W KLDG
Sbjct: 207 PSIKAKFPADTYALTGQMVTLECFAFGNPVPQIKWRKLDG-------------------- 246
Query: 61 QLPLNRRQKVFPNGTLL-IENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM 119
++ K + LL I+NV + D G Y C A N +GR + Q I ++ +
Sbjct: 247 ----SQTSKWLSSEPLLHIQNVDFE-DEGTYECEAENIKGRDTYQGRIIIHAQPDWLDVI 301
Query: 120 GNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRG 179
+ A G L C +G P ++ W + Q PL + ++ +G L + D G
Sbjct: 302 TDTEADIGSDLRWSCVASGKPRPAVRWLRDGQ--PLASQNRIEVSGGELRFSKLVLEDSG 359
Query: 180 VYWCTATNKQG 190
+Y C A NK G
Sbjct: 360 MYQCVAENKHG 370
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 50/189 (26%), Positives = 74/189 (39%), Gaps = 21/189 (11%)
Query: 73 NGTLLIENVQKDHDRGVYWCTATN------KQGRSSSQNVHISVTGAPFVRPM------G 120
G L I + D G Y C AT+ K S + ++ A P
Sbjct: 157 TGNLYIAKTEAS-DLGNYSCFATSHIDFITKSVFSKFSQLSLAAEDARQYAPSIKAKFPA 215
Query: 121 NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLL-IENVQKDHDRG 179
+ A+ G+ + L C G P+ I W+K L ++ K + LL I+NV + D G
Sbjct: 216 DTYALTGQMVTLECFAFGNPVPQIKWRK----LDGSQTSKWLSSEPLLHIQNVDFE-DEG 270
Query: 180 VYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDPPLTISW 239
Y C A N +GR + Q I + P + G C V G P + W
Sbjct: 271 TYECEAENIKGRDTYQG-RIIIHAQPDWLDVITDTEADIGSDLRWSC-VASGKPRPAVRW 328
Query: 240 LKNGLPILS 248
L++G P+ S
Sbjct: 329 LRDGQPLAS 337
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 62/242 (25%), Positives = 92/242 (38%), Gaps = 43/242 (17%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V+L C A NP WK++G L ++G P +R + V G L+I
Sbjct: 25 VTLTCRARANPPATYRWKMNGTEL---------KMG-------PDSRYRLV--AGDLVIS 66
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGN-----VSAIAGEPLYLGC 134
N K D G Y C ATN +G S+ + F++ V G + C
Sbjct: 67 NPVKAKDAGSYQCVATNARGTVVSREASLRFG---FLQEFSAEERDPVKITEGWGVMFTC 123
Query: 135 -PVAGYPIESITW--QKGVQQLPLNRRQKVF-PNGTLLIENVQKDHDRGVYWCTATN--- 187
P YP S W + +P + R+ V G L I + D G Y C AT+
Sbjct: 124 SPPPHYPALSYRWLLNEFPNFIPADGRRFVSQTTGNLYIAKTEAS-DLGNYSCFATSHID 182
Query: 188 ---KQGRSSSQNVHISVTVPPKIAP---FEFQPDLH--SGDRAGVQCLVTKGDPPLTISW 239
K S + ++ + AP +F D + +G ++C G+P I W
Sbjct: 183 FITKSVFSKFSQLSLAAEDARQYAPSIKAKFPADTYALTGQMVTLECFAF-GNPVPQIKW 241
Query: 240 LK 241
K
Sbjct: 242 RK 243
>pdb|2JLL|A Chain A, Crystal Structure Of Ncam2 Igiv-Fn3ii
Length = 389
Score = 57.8 bits (138), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 56/206 (27%), Positives = 87/206 (42%), Gaps = 20/206 (9%)
Query: 6 IYKFIQQTLQPGPPVSLKCIATGNPTPHISWK--LDGYPLAGDRHENKNRIGEARVQQLP 63
I + +T V+L C A G P P I+WK +DG+ RI E + Q
Sbjct: 4 IIQLKNETTYENGQVTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRI-EVKGQH-- 60
Query: 64 LNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP-FVRPMGNV 122
+ +L I++V K D G Y C A ++ G +++++ + AP F+
Sbjct: 61 --------GSSSLHIKDV-KLSDSGRYDCEAASRIG-GHQKSMYLDIEYAPKFISNQTIY 110
Query: 123 SAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQ--KVFPNGTLLIENVQ--KDHDR 178
+ G P+ + C V P SI W++ LP K + G +I + D+D
Sbjct: 111 YSWEGNPINISCDVKSNPPASIHWRRDKLVLPAKNTTNLKTYSTGRKMILEIAPTSDNDF 170
Query: 179 GVYWCTATNKQGRSSSQNVHISVTVP 204
G Y CTATN G + + VP
Sbjct: 171 GRYNCTATNHIGTRFQEYILALADVP 196
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 37/159 (23%), Positives = 63/159 (39%), Gaps = 20/159 (12%)
Query: 114 PFVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFP---------- 163
P + + N + + L C G PI ITW++ V K
Sbjct: 2 PHIIQLKNETTYENGQVTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHG 61
Query: 164 NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAG 223
+ +L I++V K D G Y C A ++ G +++++ + PK + G+
Sbjct: 62 SSSLHIKDV-KLSDSGRYDCEAASRIG-GHQKSMYLDIEYAPKFISNQTIYYSWEGNPIN 119
Query: 224 VQCLVTKGDPPLTISWLKNGLPI-------LSAMGVGRK 255
+ C V K +PP +I W ++ L + L GRK
Sbjct: 120 ISCDV-KSNPPASIHWRRDKLVLPAKNTTNLKTYSTGRK 157
>pdb|2XYC|A Chain A, Crystal Structure Of Ncam2 Igiv-Fn3i
Length = 291
Score = 57.8 bits (138), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 56/206 (27%), Positives = 87/206 (42%), Gaps = 20/206 (9%)
Query: 6 IYKFIQQTLQPGPPVSLKCIATGNPTPHISWK--LDGYPLAGDRHENKNRIGEARVQQLP 63
I + +T V+L C A G P P I+WK +DG+ RI E + Q
Sbjct: 4 IIQLKNETTYENGQVTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRI-EVKGQH-- 60
Query: 64 LNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP-FVRPMGNV 122
+ +L I++V K D G Y C A ++ G +++++ + AP F+
Sbjct: 61 --------GSSSLHIKDV-KLSDSGRYDCEAASRIG-GHQKSMYLDIEYAPKFISNQTIY 110
Query: 123 SAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQ--KVFPNGTLLIENVQ--KDHDR 178
+ G P+ + C V P SI W++ LP K + G +I + D+D
Sbjct: 111 YSWEGNPINISCDVKSNPPASIHWRRDKLVLPAKNTTNLKTYSTGRKMILEIAPTSDNDF 170
Query: 179 GVYWCTATNKQGRSSSQNVHISVTVP 204
G Y CTATN G + + VP
Sbjct: 171 GRYNCTATNHIGTRFQEYILALADVP 196
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 37/159 (23%), Positives = 63/159 (39%), Gaps = 20/159 (12%)
Query: 114 PFVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFP---------- 163
P + + N + + L C G PI ITW++ V K
Sbjct: 2 PHIIQLKNETTYENGQVTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHG 61
Query: 164 NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAG 223
+ +L I++V K D G Y C A ++ G +++++ + PK + G+
Sbjct: 62 SSSLHIKDV-KLSDSGRYDCEAASRIG-GHQKSMYLDIEYAPKFISNQTIYYSWEGNPIN 119
Query: 224 VQCLVTKGDPPLTISWLKNGLPI-------LSAMGVGRK 255
+ C V K +PP +I W ++ L + L GRK
Sbjct: 120 ISCDV-KSNPPASIHWRRDKLVLPAKNTTNLKTYSTGRK 157
>pdb|2XY1|A Chain A, Crystal Structure Of Ncam2 Ig3-4
Length = 192
Score = 57.0 bits (136), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 54/200 (27%), Positives = 79/200 (39%), Gaps = 34/200 (17%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
S PQ K T + G ++ C A+G+P P ISW +G + EN+ I +
Sbjct: 6 SMPQ---KSFNATAERGEEMTFSCRASGSPEPAISWFRNGKLI----EENEKYILKG--- 55
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMG 120
N L + N+ + D G Y C ATNK G Q + V P + +
Sbjct: 56 -----------SNTELTVRNI-INSDGGPYVCRATNKAGEDEKQ-AFLQVFVQPHIIQLK 102
Query: 121 NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFP----------NGTLLIE 170
N + + L C G PI ITW++ V K + +L I+
Sbjct: 103 NETTYENGQVTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHGSSSLHIK 162
Query: 171 NVQKDHDRGVYWCTATNKQG 190
+V K D G Y C A ++ G
Sbjct: 163 DV-KLSDSGRYDCEAASRIG 181
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 51/119 (42%), Gaps = 3/119 (2%)
Query: 121 NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGV 180
N +A GE + C +G P +I+W + + + N + + + T L + D G
Sbjct: 13 NATAERGEEMTFSCRASGSPEPAISWFRNGKLIEENEKYILKGSNTELTVRNIINSDGGP 72
Query: 181 YWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDPPLTISW 239
Y C ATNK G Q + V V P I + + +G V +G+P I+W
Sbjct: 73 YVCRATNKAGEDEKQ-AFLQVFVQPHIIQLKNETTYENGQVTLV--CDAEGEPIPEITW 128
>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 = 56.6 bits (135), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 55/190 (28%), Positives = 82/190 (43%), Gaps = 29/190 (15%)
Query: 2 HPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQ 61
+PQ ++FI L SL C+A PTP W K G R Q
Sbjct: 217 NPQDKHQFIDVEL--ASSYSLLCMAQSYPTPSFRWY-------------KFIEGTTRKQA 261
Query: 62 LPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMG- 120
+ LN R K +GTL+I++ + D G Y C N G S + V ++VT AP +
Sbjct: 262 VVLNDRVKQV-SGTLIIKDAVVE-DSGKYLCVVNNSVGGESVETV-LTVT-APLSAKIDP 317
Query: 121 -NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRG 179
+ G P C G PI++++W K + + L IE+V+K+ D+G
Sbjct: 318 PTQTVDFGRPAVFTCQYTGNPIKTVSWMKDGKAIG-------HSESVLRIESVKKE-DKG 369
Query: 180 VYWCTATNKQ 189
+Y C N +
Sbjct: 370 MYQCFVRNDR 379
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 60/204 (29%), Positives = 84/204 (41%), Gaps = 25/204 (12%)
Query: 70 VFPNGTLLIENVQKDHDRGVYWCTATNK---QGRSSSQNVHISVTG-APFVRPMGN---- 121
V P+G L I V + Y C ++ + R S+ + +T VRP N
Sbjct: 162 VLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVITEPVGSVRPKVNPQDK 221
Query: 122 ---VSAIAGEPLYLGCPVAGYPIESITWQKGV------QQLPLNRRQKVFPNGTLLIENV 172
+ L C YP S W K + Q + LN R K +GTL+I++
Sbjct: 222 HQFIDVELASSYSLLCMAQSYPTPSFRWYKFIEGTTRKQAVVLNDRVKQV-SGTLIIKDA 280
Query: 173 QKDHDRGVYWCTATNKQGRSSSQNVHISVTVP--PKIAPFEFQPDLHSGDRAGVQCLVTK 230
+ D G Y C N G S + V ++VT P KI P D G A C T
Sbjct: 281 VVE-DSGKYLCVVNNSVGGESVETV-LTVTAPLSAKIDPPTQTVDF--GRPAVFTCQYT- 335
Query: 231 GDPPLTISWLKNGLPILSAMGVGR 254
G+P T+SW+K+G I + V R
Sbjct: 336 GNPIKTVSWMKDGKAIGHSESVLR 359
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 48/207 (23%), Positives = 81/207 (39%), Gaps = 31/207 (14%)
Query: 22 LKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIENV 81
++C A+GNP P I W GD + + ++ VFP E+
Sbjct: 24 IECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGKL----------VFP--PFRAEDY 71
Query: 82 QKDHDRGVYWCTATNKQGRSSSQNVHI-SVTGAPFVRPMGNVSAIAGEPLYLGCPVAGYP 140
+++ VY C A N+ G S++VH+ +V + N I G + + C + Y
Sbjct: 72 RQEVHAQVYACLARNQFGSIISRDVHVRAVVIQSYESEADNEYVIRGNSVVMKCEIPSYV 131
Query: 141 IESI---TW--QKGVQQLPLNRRQK-----VFPNGTLLIENVQKDHDRGVYWCTATNK-- 188
+ + W +G P N + V P+G L I V + Y C ++
Sbjct: 132 ADFVFVDLWLDSEGRNYYPNNAAETDGKYLVLPSGELHIREVGPEDGYKSYQCRTKHRLT 191
Query: 189 -QGRSSSQNVHISVTVP-----PKIAP 209
+ R S+ + +T P PK+ P
Sbjct: 192 GETRLSATKGRLVITEPVGSVRPKVNP 218
>pdb|3PXH|A Chain A, Tandem Ig Domains Of Tyrosine Phosphatase Lar
Length = 201
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 58/215 (26%), Positives = 84/215 (39%), Gaps = 34/215 (15%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
S P + QT G S C ATG P P I+W G ++ R E
Sbjct: 6 SKPVFVKVPEDQTGLSGGVASFVCQATGEPKPRITWMKKGKKVSSQRFEVIE-------- 57
Query: 61 QLPLNRRQKVFPNGT---LLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV------- 110
F +G L I+ ++ D +Y CTATN G ++ + +SV
Sbjct: 58 ----------FDDGAGSVLRIQPLRVQRDEAIYECTATNSLGEINT-SAKLSVLEEDQLP 106
Query: 111 TGAPFVRPMGNVSAIA-GEPLYLGCPVAGYPIESITWQKG---VQQLPLNRRQKVFPNGT 166
+G P + + + G + C G P I+W K V N R K +G
Sbjct: 107 SGFPTIDMGPQLKVVEKGRTATMLCAAGGNPDPEISWFKDFLPVDPAASNGRIKQLRSGA 166
Query: 167 LLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV 201
L IE+ ++ D+G Y C ATN G S ++ V
Sbjct: 167 LQIES-SEESDQGKYECVATNSAGTRYSAPANLYV 200
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 42/150 (28%), Positives = 65/150 (43%), Gaps = 11/150 (7%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKV-FPNGT---LLIE 170
FV+ + + ++G C G P ITW K +++ R + + F +G L I+
Sbjct: 10 FVKVPEDQTGLSGGVASFVCQATGEPKPRITWMKKGKKVSSQRFEVIEFDDGAGSVLRIQ 69
Query: 171 NVQKDHDRGVYWCTATNKQGR---SSSQNVHISVTVPPKIAPFEFQPDL---HSGDRAGV 224
++ D +Y CTATN G S+ +V +P + P L G A +
Sbjct: 70 PLRVQRDEAIYECTATNSLGEINTSAKLSVLEEDQLPSGFPTIDMGPQLKVVEKGRTATM 129
Query: 225 QCLVTKGDPPLTISWLKNGLPILSAMGVGR 254
C G+P ISW K+ LP+ A GR
Sbjct: 130 LC-AAGGNPDPEISWFKDFLPVDPAASNGR 158
>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 = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 64/220 (29%), Positives = 86/220 (39%), Gaps = 40/220 (18%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
S P I QT G S C ATG P P I+W G ++ R E
Sbjct: 5 SKPVFIKVPEDQTGLSGGVASFVCQATGEPKPRITWMKKGKKVSSQRFEVIE-------- 56
Query: 61 QLPLNRRQKVFPNGT---LLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVT------ 111
F +G L I+ ++ D +Y CTATN G ++ + +SV
Sbjct: 57 ----------FDDGAGSVLRIQPLRVQRDEAIYECTATNSLGEINT-SAKLSVLEEEQLP 105
Query: 112 -GAPFVR--PMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPL-----NRRQKVFP 163
G P + P V A L C G P I+W K LP+ N R K
Sbjct: 106 PGFPSIDMGPQLKVVEKARTATML-CAAGGNPDPEISWFKDF--LPVDPATSNGRIKQLR 162
Query: 164 NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTV 203
+G L IE+ ++ D+G Y C ATN G S ++ V V
Sbjct: 163 SGALQIES-SEESDQGKYECVATNSAGTRYSAPANLYVRV 201
Score = 52.8 bits (125), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 40/149 (26%), Positives = 67/149 (44%), Gaps = 9/149 (6%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKV-FPNGT---LLIE 170
F++ + + ++G C G P ITW K +++ R + + F +G L I+
Sbjct: 9 FIKVPEDQTGLSGGVASFVCQATGEPKPRITWMKKGKKVSSQRFEVIEFDDGAGSVLRIQ 68
Query: 171 NVQKDHDRGVYWCTATNKQGR---SSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCL 227
++ D +Y CTATN G S+ +V +PP + P L ++A +
Sbjct: 69 PLRVQRDEAIYECTATNSLGEINTSAKLSVLEEEQLPPGFPSIDMGPQLKVVEKARTATM 128
Query: 228 VTK--GDPPLTISWLKNGLPILSAMGVGR 254
+ G+P ISW K+ LP+ A GR
Sbjct: 129 LCAAGGNPDPEISWFKDFLPVDPATSNGR 157
>pdb|2V5M|A Chain A, Structural Basis For Dscam Isoform Specificity
Length = 388
Score = 53.9 bits (128), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 54/189 (28%), Positives = 82/189 (43%), Gaps = 29/189 (15%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P L+ K ++ L +SL C A G P P W K G R Q +
Sbjct: 215 PALVQKPLE--LMVAHTISLLCPAQGFPAPSFRW-------------YKFIEGTTRKQAV 259
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMG-- 120
LN R K +GTL+I++ + D G Y C N G S + V ++VT AP +
Sbjct: 260 VLNDRVKQV-SGTLIIKDAVVE-DSGKYLCVVNNSVGGESVETV-LTVT-APLSAKIDPP 315
Query: 121 NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGV 180
+ G P C G PI++++W K + + + L IE+V+K+ D+G+
Sbjct: 316 TQTVDFGRPAVFTCQYTGNPIKTVSWMKDGKAIGHS-------ESVLRIESVKKE-DKGM 367
Query: 181 YWCTATNKQ 189
Y C N +
Sbjct: 368 YQCFVRNDR 376
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 61/204 (29%), Positives = 87/204 (42%), Gaps = 26/204 (12%)
Query: 70 VFPNGTLLIENVQKDHDRGVYWCTATNK---QGRSSSQNVHISVTGAPFVRPMGNVSAIA 126
V P+G L I V + Y C ++ + R S+ + +T P A+
Sbjct: 160 VLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVIT-EPISSSAPRTPALV 218
Query: 127 GEPLYLG--------CPVAGYPIESITWQKGV------QQLPLNRRQKVFPNGTLLIENV 172
+PL L CP G+P S W K + Q + LN R K +GTL+I++
Sbjct: 219 QKPLELMVAHTISLLCPAQGFPAPSFRWYKFIEGTTRKQAVVLNDRVKQV-SGTLIIKDA 277
Query: 173 QKDHDRGVYWCTATNKQGRSSSQNVHISVTVP--PKIAPFEFQPDLHSGDRAGVQCLVTK 230
+ D G Y C N G S + V ++VT P KI P D G A C T
Sbjct: 278 VVE-DSGKYLCVVNNSVGGESVETV-LTVTAPLSAKIDPPTQTVDF--GRPAVFTCQYT- 332
Query: 231 GDPPLTISWLKNGLPILSAMGVGR 254
G+P T+SW+K+G I + V R
Sbjct: 333 GNPIKTVSWMKDGKAIGHSESVLR 356
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 42/195 (21%), Positives = 76/195 (38%), Gaps = 24/195 (12%)
Query: 22 LKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIENV 81
++C A+GNP P I W GD + + ++ VFP E+
Sbjct: 24 IECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGKL----------VFP--PFRAEDY 71
Query: 82 QKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVS-AIAGEPLYLGCPVAGYP 140
+++ VY C A N+ G S++VH+ A + N I G + C + +
Sbjct: 72 RQEVHAQVYACLARNQFGSIISRDVHVRAVVAQYYEADVNKEHVIRGNSAVIKCLIPSFV 131
Query: 141 ---IESITWQKGVQQ-----LPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNK---Q 189
+E ++W ++ + + V P+G L I V + Y C ++ +
Sbjct: 132 ADFVEVVSWHTDEEENYFPGAEYDGKYLVLPSGELHIREVGPEDGYKSYQCRTKHRLTGE 191
Query: 190 GRSSSQNVHISVTVP 204
R S+ + +T P
Sbjct: 192 TRLSATKGRLVITEP 206
>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 = 53.9 bits (128), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 54/189 (28%), Positives = 82/189 (43%), Gaps = 29/189 (15%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P L+ K ++ L +SL C A G P P W K G R Q +
Sbjct: 221 PALVQKPLE--LMVAHTISLLCPAQGFPAPSFRW-------------YKFIEGTTRKQAV 265
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMG-- 120
LN R K +GTL+I++ + D G Y C N G S + V ++VT AP +
Sbjct: 266 VLNDRVKQV-SGTLIIKDAVVE-DSGKYLCVVNNSVGGESVETV-LTVT-APLSAKIDPP 321
Query: 121 NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGV 180
+ G P C G PI++++W K + + + L IE+V+K+ D+G+
Sbjct: 322 TQTVDFGRPAVFTCQYTGNPIKTVSWMKDGKAIGHS-------ESVLRIESVKKE-DKGM 373
Query: 181 YWCTATNKQ 189
Y C N +
Sbjct: 374 YQCFVRNDR 382
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 61/204 (29%), Positives = 87/204 (42%), Gaps = 26/204 (12%)
Query: 70 VFPNGTLLIENVQKDHDRGVYWCTATNK---QGRSSSQNVHISVTGAPFVRPMGNVSAIA 126
V P+G L I V + Y C ++ + R S+ + +T P A+
Sbjct: 166 VLPSGELHIREVGPEDGYKSYQCRTKHRLTGETRLSATKGRLVIT-EPISSSAPRTPALV 224
Query: 127 GEPLYLG--------CPVAGYPIESITWQKGV------QQLPLNRRQKVFPNGTLLIENV 172
+PL L CP G+P S W K + Q + LN R K +GTL+I++
Sbjct: 225 QKPLELMVAHTISLLCPAQGFPAPSFRWYKFIEGTTRKQAVVLNDRVKQV-SGTLIIKDA 283
Query: 173 QKDHDRGVYWCTATNKQGRSSSQNVHISVTVP--PKIAPFEFQPDLHSGDRAGVQCLVTK 230
+ D G Y C N G S + V ++VT P KI P D G A C T
Sbjct: 284 VVE-DSGKYLCVVNNSVGGESVETV-LTVTAPLSAKIDPPTQTVDF--GRPAVFTCQYT- 338
Query: 231 GDPPLTISWLKNGLPILSAMGVGR 254
G+P T+SW+K+G I + V R
Sbjct: 339 GNPIKTVSWMKDGKAIGHSESVLR 362
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 42/195 (21%), Positives = 76/195 (38%), Gaps = 24/195 (12%)
Query: 22 LKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIENV 81
++C A+GNP P I W GD + + ++ VFP E+
Sbjct: 30 IECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGKL----------VFP--PFRAEDY 77
Query: 82 QKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVS-AIAGEPLYLGCPVAGYP 140
+++ VY C A N+ G S++VH+ A + N I G + C + +
Sbjct: 78 RQEVHAQVYACLARNQFGSIISRDVHVRAVVAQYYEADVNKEHVIRGNSAVIKCLIPSFV 137
Query: 141 ---IESITWQKGVQQ-----LPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNK---Q 189
+E ++W ++ + + V P+G L I V + Y C ++ +
Sbjct: 138 ADFVEVVSWHTDEEENYFPGAEYDGKYLVLPSGELHIREVGPEDGYKSYQCRTKHRLTGE 197
Query: 190 GRSSSQNVHISVTVP 204
R S+ + +T P
Sbjct: 198 TRLSATKGRLVITEP 212
>pdb|2YD4|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Chicken Receptor Protein Tyrosine Phosphatase Sigma
Length = 210
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 56/218 (25%), Positives = 86/218 (39%), Gaps = 38/218 (17%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
S P I K + Q G S C ATG+P P ++W G ++ R +
Sbjct: 5 SPPVFIKKPVDQIGVSGGVASFVCQATGDPKPRVTWNKKG-----------KKVNSQRFE 53
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVT--------- 111
+ + L I+ ++ D +Y C A N G + VH +T
Sbjct: 54 TIEFDESA----GAVLRIQPLRTPRDENIYECVAQNPHGEVT---VHAKLTVLREDQLPP 106
Query: 112 GAPFVRPMGNVSAIA-GEPLYLGCPVAGYPIESITWQKGVQQLPL-----NRRQKVFPNG 165
G P + + + + C +G P ITW K LP+ N R K +G
Sbjct: 107 GFPNIDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDF--LPVDPSTSNGRIKQLRSG 164
Query: 166 TLLIENVQKDHDRGVYWCTATNKQG--RSSSQNVHISV 201
L IE+ ++ D+G Y C A+N G SS N+++ V
Sbjct: 165 GLQIES-SEETDQGKYECVASNSAGVRYSSPANLYVRV 201
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 35/152 (23%), Positives = 61/152 (40%), Gaps = 15/152 (9%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKV----FPNGTLLIE 170
F++ + ++G C G P +TW K +++ R + + L I+
Sbjct: 9 FIKKPVDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAVLRIQ 68
Query: 171 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTV------PPKIAPFEFQPDLHSGDRAGV 224
++ D +Y C A N G + VH +TV PP + P L +R
Sbjct: 69 PLRTPRDENIYECVAQNPHGEVT---VHAKLTVLREDQLPPGFPNIDMGPQLKVVERTRT 125
Query: 225 QCLV--TKGDPPLTISWLKNGLPILSAMGVGR 254
++ G+P I+W K+ LP+ + GR
Sbjct: 126 ATMLCAASGNPDPEITWFKDFLPVDPSTSNGR 157
>pdb|2ILL|A Chain A, Anomalous Substructure Of Titin-A168169
Length = 195
Score = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 50/178 (28%), Positives = 75/178 (42%), Gaps = 23/178 (12%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIEN 80
+L C TG+P P + W G + D + R+Q+ Q L+I +
Sbjct: 21 TLVCKVTGHPKPIVKWYRQGKEIIADGLK-------YRIQEFKGGYHQ-------LIIAS 66
Query: 81 VQKDHDRGVYWCTATNKQGR-SSSQNVHISVTGA----PFVRPMGNVSAIAGEPLYLGCP 135
V D D VY ATN+ G S + ++ + V + MG V A+ GE + + P
Sbjct: 67 VTDD-DATVYQVRATNQGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVSIKIP 125
Query: 136 VAGYPIESITWQKGVQQLPLNRRQKVFPN---GTLLIENVQKDHDRGVYWCTATNKQG 190
+G P ITWQKG + N +V +L+ N + D G Y A N+ G
Sbjct: 126 FSGKPDPVITWQKGQDLIDNNGHYQVIVTRSFTSLVFPNGVERKDAGFYVVCAKNRFG 183
>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 = 52.4 bits (124), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 50/178 (28%), Positives = 75/178 (42%), Gaps = 23/178 (12%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIEN 80
+L C TG+P P + W G + D + R+Q+ Q L+I +
Sbjct: 23 TLVCKVTGHPKPIVKWYRQGKEIIADGLK-------YRIQEFKGGYHQ-------LIIAS 68
Query: 81 VQKDHDRGVYWCTATNKQGR-SSSQNVHISVTGA----PFVRPMGNVSAIAGEPLYLGCP 135
V D D VY ATN+ G S + ++ + V + MG V A+ GE + + P
Sbjct: 69 VTDD-DATVYQVRATNQGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVSIKIP 127
Query: 136 VAGYPIESITWQKGVQQLPLNRRQKVFPN---GTLLIENVQKDHDRGVYWCTATNKQG 190
+G P ITWQKG + N +V +L+ N + D G Y A N+ G
Sbjct: 128 FSGKPDPVITWQKGQDLIDNNGHYQVIVTRSFTSLVFPNGVERKDAGFYVVCAKNRFG 185
>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 = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 50/178 (28%), Positives = 75/178 (42%), Gaps = 23/178 (12%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIEN 80
+L C TG+P P + W G + D + R+Q+ Q L+I +
Sbjct: 23 TLVCKVTGHPKPIVKWYRQGKEIIADGLK-------YRIQEFKGGYHQ-------LIIAS 68
Query: 81 VQKDHDRGVYWCTATNKQGR-SSSQNVHISVTGA----PFVRPMGNVSAIAGEPLYLGCP 135
V D D VY ATN+ G S + ++ + V + MG V A+ GE + + P
Sbjct: 69 VT-DDDATVYQVRATNQGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVSIKIP 127
Query: 136 VAGYPIESITWQKGVQQLPLNRRQKVFPN---GTLLIENVQKDHDRGVYWCTATNKQG 190
+G P ITWQKG + N +V +L+ N + D G Y A N+ G
Sbjct: 128 FSGKPDPVITWQKGQDLIDNNGHYQVIVTRSFTSLVFPNGVERKDAGFYVVCAKNRFG 185
>pdb|2YD3|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 202
Score = 51.6 bits (122), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 58/216 (26%), Positives = 83/216 (38%), Gaps = 38/216 (17%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P+ I + Q G S C ATG+P P ++W G + R E A
Sbjct: 7 PRFIKEPKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESA----- 61
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVT---------GA 113
L I+ ++ D VY C A N G + VH +T G
Sbjct: 62 ----------GAVLRIQPLRTPRDENVYECVAQNSVGEIT---VHAKLTVLREDQLPSGF 108
Query: 114 PFVRPMGNVSAIA-GEPLYLGCPVAGYPIESITWQKGVQQLPL-----NRRQKVFPNGTL 167
P + + + + C +G P ITW K LP+ N R K +G L
Sbjct: 109 PNIDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDF--LPVDPSASNGRIKQLRSGAL 166
Query: 168 LIENVQKDHDRGVYWCTATNKQG--RSSSQNVHISV 201
IE+ ++ D+G Y C ATN G SS N+++ V
Sbjct: 167 QIES-SEETDQGKYECVATNSAGVRYSSPANLYVRV 201
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 35/152 (23%), Positives = 60/152 (39%), Gaps = 15/152 (9%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKV----FPNGTLLIE 170
F++ + ++G C G P +TW K +++ R + + L I+
Sbjct: 9 FIKEPKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAVLRIQ 68
Query: 171 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTV------PPKIAPFEFQPDLHSGDRAGV 224
++ D VY C A N G + VH +TV P + P L +R
Sbjct: 69 PLRTPRDENVYECVAQNSVGEIT---VHAKLTVLREDQLPSGFPNIDMGPQLKVVERTRT 125
Query: 225 QCLV--TKGDPPLTISWLKNGLPILSAMGVGR 254
++ G+P I+W K+ LP+ + GR
Sbjct: 126 ATMLCAASGNPDPEITWFKDFLPVDPSASNGR 157
>pdb|2YD2|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 214
Score = 51.6 bits (122), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 58/216 (26%), Positives = 83/216 (38%), Gaps = 38/216 (17%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P+ I + Q G S C ATG+P P ++W G + R E A
Sbjct: 7 PRFIKEPKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESA----- 61
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVT---------GA 113
L I+ ++ D VY C A N G + VH +T G
Sbjct: 62 ----------GAVLRIQPLRTPRDENVYECVAQNSVGEIT---VHAKLTVLREDQLPSGF 108
Query: 114 PFVRPMGNVSAIA-GEPLYLGCPVAGYPIESITWQKGVQQLPL-----NRRQKVFPNGTL 167
P + + + + C +G P ITW K LP+ N R K +G L
Sbjct: 109 PNIDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDF--LPVDPSASNGRIKQLRSGAL 166
Query: 168 LIENVQKDHDRGVYWCTATNKQG--RSSSQNVHISV 201
IE+ ++ D+G Y C ATN G SS N+++ V
Sbjct: 167 QIES-SEETDQGKYECVATNSAGVRYSSPANLYVRV 201
Score = 40.4 bits (93), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 35/152 (23%), Positives = 60/152 (39%), Gaps = 15/152 (9%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKV----FPNGTLLIE 170
F++ + ++G C G P +TW K +++ R + + L I+
Sbjct: 9 FIKEPKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAVLRIQ 68
Query: 171 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTV------PPKIAPFEFQPDLHSGDRAGV 224
++ D VY C A N G + VH +TV P + P L +R
Sbjct: 69 PLRTPRDENVYECVAQNSVGEIT---VHAKLTVLREDQLPSGFPNIDMGPQLKVVERTRT 125
Query: 225 QCLV--TKGDPPLTISWLKNGLPILSAMGVGR 254
++ G+P I+W K+ LP+ + GR
Sbjct: 126 ATMLCAASGNPDPEITWFKDFLPVDPSASNGR 157
>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 = 50.4 bits (119), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 56/120 (46%), Gaps = 5/120 (4%)
Query: 73 NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFV--RPMGNVSAIAGEPL 130
+G L+ D GVY C N G+ ++ ++V AP +P + G+ +
Sbjct: 268 SGKRLLFKTTLPEDEGVYTCEVDNGVGKPQKHSLKLTVVSAPKYEQKPEKVIVVKQGQDV 327
Query: 131 YLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQG 190
+ C V G P ++ W + PL+ + + L+I+ V K+ D+G Y C ATN+ G
Sbjct: 328 TIPCKVTGLPAPNVVWSHNAK--PLSGGRATVTDSGLVIKGV-KNGDKGYYGCRATNEHG 384
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 58/258 (22%), Positives = 94/258 (36%), Gaps = 38/258 (14%)
Query: 11 QQTLQPGPPVSLKCIA-TGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQK 69
++T G P L C+ P P I+WK L+G + +RR
Sbjct: 109 EKTPIEGRPFQLDCVLPNAYPKPLITWKKR---LSG---------ADPNADVTDFDRRIT 156
Query: 70 VFPNGTLLIENVQKDH--DRGVYWCTATNKQGRSSSQNVHISVTGA----------PFVR 117
P+G L V K+ D Y CTA N V + G P +
Sbjct: 157 AGPDGNLYFTIVTKEDVSDIYKYVCTAKNAAVDEEVVLVEYEIKGVTKDNSGYKGEPVPQ 216
Query: 118 PMG-NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVF----PNGTLLIENV 172
+ ++ A AG+ + C P+ + K + + N ++ +G L+
Sbjct: 217 YVSKDMMAKAGDVTMIYCMYGSNPMGYPNYFKNGKDVNGNPEDRITRHNRTSGKRLLFKT 276
Query: 173 QKDHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPD----LHSGDRAGVQCLV 228
D GVY C N G+ ++ ++V PK +E +P+ + G + C V
Sbjct: 277 TLPEDEGVYTCEVDNGVGKPQKHSLKLTVVSAPK---YEQKPEKVIVVKQGQDVTIPCKV 333
Query: 229 TKGDPPLTISWLKNGLPI 246
T G P + W N P+
Sbjct: 334 T-GLPAPNVVWSHNAKPL 350
Score = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 38/86 (44%), Gaps = 22/86 (25%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPN 73
++ G V++ C TG P P++ W + PL+G R +
Sbjct: 321 VKQGQDVTIPCKVTGLPAPNVVWSHNAKPLSGGR---------------------ATVTD 359
Query: 74 GTLLIENVQKDHDRGVYWCTATNKQG 99
L+I+ V K+ D+G Y C ATN+ G
Sbjct: 360 SGLVIKGV-KNGDKGYYGCRATNEHG 384
>pdb|3GRW|A Chain A, Fgfr3 In Complex With A Fab
Length = 241
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 58/195 (29%), Positives = 77/195 (39%), Gaps = 45/195 (23%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNPTP ISW +G GE R+ + L +Q +L++E
Sbjct: 33 VRFRCPAAGNPTPSISWLKNGREFR----------GEHRIGGIKLRHQQ-----WSLVME 77
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V DRG Y C NK G S Q + V RP+ N +A+ G +
Sbjct: 78 SVVPS-DRGNYTCVVENKFG-SIRQTYTLDVLERSPHRPILQAGLPANQTAVLGSDVEFH 135
Query: 134 CPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLI--------ENVQKD---------- 175
C V I W K V+ KV P+GT + E+V+ D
Sbjct: 136 CKVYSDAQPHIQWLKHVEV----NGSKVGPDGTPYVTVLKSWISESVEADVRLRLANVSE 191
Query: 176 HDRGVYWCTATNKQG 190
D G Y C ATN G
Sbjct: 192 RDGGEYLCRATNFIG 206
Score = 32.0 bits (71), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 40/89 (44%), Gaps = 10/89 (11%)
Query: 111 TGAPF-VRPMGN----VSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRR----QKV 161
TGAP+ RP ++ A + CP AG P SI+W K ++ R +
Sbjct: 9 TGAPYWTRPERMDKKLLAVPAANTVRFRCPAAGNPTPSISWLKNGREFRGEHRIGGIKLR 68
Query: 162 FPNGTLLIENVQKDHDRGVYWCTATNKQG 190
+L++E+V DRG Y C NK G
Sbjct: 69 HQQWSLVMESVVPS-DRGNYTCVVENKFG 96
>pdb|2OCW|A Chain A, Solution Structure Of Human Secretory Component
pdb|3CHN|S Chain S, Solution Structure Of Human Secretory Iga1
pdb|3CM9|S Chain S, Solution Structure Of Human Siga2
Length = 585
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 46/164 (28%), Positives = 61/164 (37%), Gaps = 17/164 (10%)
Query: 73 NGTL-LIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSAIAGE--- 128
NGT +I N D G YWC ++ + I + G P ++ GNV+A+ GE
Sbjct: 403 NGTFTVILNQLTSRDAGFYWCLTNGDTLWRTTVEIKI-IEGEPNLKVPGNVTAVLGETLK 461
Query: 129 -PLYLGCPVAGYPIESITWQK-GVQQLPLNRR--QKVFPNG------TLLIENVQKDHDR 178
P + C + Y W G Q LP K F N L N+ D
Sbjct: 462 VPCHFPCKFSSYEKYWCKWNNTGCQALPSQDEGPSKAFVNCDENSRLVSLTLNLVTRADE 521
Query: 179 GVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRA 222
G YWC KQG + + V V + A L D A
Sbjct: 522 GWYWCGV--KQGHFYGETAAVYVAVEERKAAGSRDVSLAKADAA 563
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 48/193 (24%), Positives = 83/193 (43%), Gaps = 26/193 (13%)
Query: 10 IQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQK 69
++ T+ G PV L C G P I W DG + +N +++ +P++ +
Sbjct: 10 VKLTVSQGQPVKLNCSVEGXEEPDIQWVKDGAVV-----QNLDQL------YIPVSEQHW 58
Query: 70 VFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPF--VRPMGNVSAIAG 127
+ G L +++V++ D G YWC + SQ V ++V G PF V P +++
Sbjct: 59 I---GFLSLKSVERS-DAGRYWCQVEDGGETEISQPVWLTVEGVPFFTVEPK-DLAVPPN 113
Query: 128 EPLYLGCPVAGYPIE-SITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTAT 186
P L C G P +I W +G ++ P + + NV + C A
Sbjct: 114 APFQLSCEAVGPPEPVTIVWWRGTTKIG-------GPAPSPSVLNVTGVTQSTXFSCEAH 166
Query: 187 NKQGRSSSQNVHI 199
N +G +SS+ +
Sbjct: 167 NLKGLASSRTATV 179
Score = 32.0 bits (71), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 40/145 (27%), Positives = 61/145 (42%), Gaps = 23/145 (15%)
Query: 108 ISVTGAPFVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKG---VQQL-----PLNRRQ 159
+ + GAP ++ G+P+ L C V G I W K VQ L P++ +
Sbjct: 3 LKLMGAPV-----KLTVSQGQPVKLNCSVEGXEEPDIQWVKDGAVVQNLDQLYIPVSEQH 57
Query: 160 KVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQP-DLHS 218
+ G L +++V++ D G YWC + SQ V ++V P F +P DL
Sbjct: 58 WI---GFLSLKSVERS-DAGRYWCQVEDGGETEISQPVWLTVEGVPF---FTVEPKDLAV 110
Query: 219 GDRAGVQ--CLVTKGDPPLTISWLK 241
A Q C P+TI W +
Sbjct: 111 PPNAPFQLSCEAVGPPEPVTIVWWR 135
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 39/142 (27%), Positives = 65/142 (45%), Gaps = 16/142 (11%)
Query: 121 NVSAIAGEPLYLGCPVA-GYPIESITWQKGVQQL------------PLNRRQKVFPNGTL 167
N++A GEPL L C A P + + W+ + P + +V PNG+L
Sbjct: 7 NITARIGEPLVLKCKGAPKKPPQRLEWKLNTGRTEAWKVLSPQGGGPWDSVARVLPNGSL 66
Query: 168 LIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV-TVPPKIAPFEFQPDLHSGDRAGVQC 226
+ V D G++ C A N+ G+ + N + V +P K + +L +G V
Sbjct: 67 FLPAV-GIQDEGIFRCQAMNRNGKETKSNYRVRVYQIPGKPEIVDSASELTAGVPNKVGT 125
Query: 227 LVTKGDPPL-TISWLKNGLPIL 247
V++G P T+SW +G P++
Sbjct: 126 CVSEGSYPAGTLSWHLDGKPLV 147
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 43/178 (24%), Positives = 74/178 (41%), Gaps = 27/178 (15%)
Query: 13 TLQPGPPVSLKCI-ATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL----PLNRR 67
T + G P+ LKC A P + WKL N R +V P +
Sbjct: 9 TARIGEPLVLKCKGAPKKPPQRLEWKL-----------NTGRTEAWKVLSPQGGGPWDSV 57
Query: 68 QKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA--I 125
+V PNG+L + V D G++ C A N+ G+ + N + V P + + ++
Sbjct: 58 ARVLPNGSLFLPAV-GIQDEGIFRCQAMNRNGKETKSNYRVRVYQIPGKPEIVDSASELT 116
Query: 126 AGEPLYLGCPVA--GYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVY 181
AG P +G V+ YP +++W + L N + G + E ++ + G++
Sbjct: 117 AGVPNKVGTCVSEGSYPAGTLSWHLDGKPLVPNEK------GVSVKEQTRRHPETGLF 168
>pdb|3S97|C Chain C, Ptprz Cntn1 Complex
pdb|3S97|D Chain D, Ptprz Cntn1 Complex
Length = 201
Score = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 38/134 (28%), Positives = 62/134 (46%), Gaps = 15/134 (11%)
Query: 73 NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP----------FVRPMGNV 122
NG L I NV+ D+G Y C ++ S + I + P V +V
Sbjct: 65 NGNLYIANVEA-SDKGNYSCFVSSPSITKSVFSKFIPLIPIPERTTKPYPADIVVQFKDV 123
Query: 123 SAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLL-IENVQKDHDRGVY 181
A+ G+ + L C G P+ I W+K ++ +P ++ +G +L I N+Q + D G+Y
Sbjct: 124 YALMGQNVTLECFALGNPVPDIRWRKVLEPMP--STAEISTSGAVLKIFNIQLE-DEGIY 180
Query: 182 WCTATNKQGRSSSQ 195
C A N +G+ Q
Sbjct: 181 ECEAENIRGKDKHQ 194
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 40/86 (46%), Gaps = 23/86 (26%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLL-I 78
V+L+C A GNP P I W+ ++ E P+ ++ +G +L I
Sbjct: 131 VTLECFALGNPVPDIRWR---------------KVLE------PMPSTAEISTSGAVLKI 169
Query: 79 ENVQKDHDRGVYWCTATNKQGRSSSQ 104
N+Q + D G+Y C A N +G+ Q
Sbjct: 170 FNIQLE-DEGIYECEAENIRGKDKHQ 194
>pdb|3CJJ|A Chain A, Crystal Structure Of Human Rage Ligand-Binding Domain
Length = 219
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 39/142 (27%), Positives = 65/142 (45%), Gaps = 16/142 (11%)
Query: 121 NVSAIAGEPLYLGCPVA-GYPIESITWQKGVQQL------------PLNRRQKVFPNGTL 167
N++A GEPL L C A P + + W+ + P + +V PNG+L
Sbjct: 4 NITARIGEPLVLKCKGAPKKPPQRLEWKLNTGRTEAWKVLSPQGGGPWDSVARVLPNGSL 63
Query: 168 LIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV-TVPPKIAPFEFQPDLHSGDRAGVQC 226
+ V D G++ C A N+ G+ + N + V +P K + +L +G V
Sbjct: 64 FLPAV-GIQDEGIFRCQAMNRNGKETKSNYRVRVYQIPGKPEIVDSASELTAGVPNKVGT 122
Query: 227 LVTKGDPPL-TISWLKNGLPIL 247
V++G P T+SW +G P++
Sbjct: 123 CVSEGSYPAGTLSWHLDGKPLV 144
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 38/143 (26%), Positives = 61/143 (42%), Gaps = 21/143 (14%)
Query: 13 TLQPGPPVSLKCI-ATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL----PLNRR 67
T + G P+ LKC A P + WKL N R +V P +
Sbjct: 6 TARIGEPLVLKCKGAPKKPPQRLEWKL-----------NTGRTEAWKVLSPQGGGPWDSV 54
Query: 68 QKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA--I 125
+V PNG+L + V D G++ C A N+ G+ + N + V P + + ++
Sbjct: 55 ARVLPNGSLFLPAV-GIQDEGIFRCQAMNRNGKETKSNYRVRVYQIPGKPEIVDSASELT 113
Query: 126 AGEPLYLGCPVA--GYPIESITW 146
AG P +G V+ YP +++W
Sbjct: 114 AGVPNKVGTCVSEGSYPAGTLSW 136
>pdb|1F97|A Chain A, Soluble Part Of The Junction Adhesion Molecule From Mouse
Length = 212
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 35/135 (25%), Positives = 61/135 (45%), Gaps = 15/135 (11%)
Query: 128 EPLYLGCPVAGYPIESITWQKGVQ-----------QLPLNRRQKV-FPNGTLLIENVQKD 175
E + L C +G+ + W K VQ Q+ +V F + + +V +
Sbjct: 17 ESIKLTCTYSGFSSPRVEW-KFVQGSTTALVCYNSQITAPYADRVTFSSSGITFSSVTR- 74
Query: 176 HDRGVYWCTATNKQGRSSSQ-NVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDPP 234
D G Y C + + G++ + ++H++V VPP + G+RA + C G PP
Sbjct: 75 KDNGEYTCMVSEEGGQNYGEVSIHLTVLVPPSKPTISVPSSVTIGNRAVLTCSEHDGSPP 134
Query: 235 LTISWLKNGLPILSA 249
SW K+G+ +L+A
Sbjct: 135 SEYSWFKDGISMLTA 149
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 45/196 (22%), Positives = 78/196 (39%), Gaps = 27/196 (13%)
Query: 20 VSLKCIATGNPTPHISWKL-DGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLI 78
+ L C +G +P + WK G A + ++ P R +G
Sbjct: 19 IKLTCTYSGFSSPRVEWKFVQGSTTALVCYNSQ--------ITAPYADRVTFSSSGITFS 70
Query: 79 ENVQKDHDRGVYWCTATNKQGRSSSQ-NVHISVTGAPFVRPMGNV--SAIAGEPLYLGCP 135
+KD+ G Y C + + G++ + ++H++V P +P +V S G L C
Sbjct: 71 SVTRKDN--GEYTCMVSEEGGQNYGEVSIHLTVL-VPPSKPTISVPSSVTIGNRAVLTCS 127
Query: 136 V-AGYPIESITWQK-GVQQLPLN-RRQKVFPNGTLLIENVQKD--------HDRGVYWCT 184
G P +W K G+ L + ++ + F N + I+ D D G Y+C
Sbjct: 128 EHDGSPPSEYSWFKDGISMLTADAKKTRAFMNSSFTIDPKSGDLIFDPVTAFDSGEYYCQ 187
Query: 185 ATNKQGRS-SSQNVHI 199
A N G + S+ H+
Sbjct: 188 AQNGYGTAMRSEAAHM 203
>pdb|3O3U|N Chain N, Crystal Structure Of Human Receptor For Advanced Glycation
Endproducts (Rage)
Length = 581
Score = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 39/142 (27%), Positives = 65/142 (45%), Gaps = 16/142 (11%)
Query: 121 NVSAIAGEPLYLGCPVA-GYPIESITWQKGVQQL------------PLNRRQKVFPNGTL 167
N++A GEPL L C A P + + W+ + P + +V PNG+L
Sbjct: 375 NITARIGEPLVLKCKGAPKKPPQRLEWKLNTGRTEAWKVLSPQGGGPWDSVARVLPNGSL 434
Query: 168 LIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV-TVPPKIAPFEFQPDLHSGDRAGVQC 226
+ V D G++ C A N+ G+ + N + V +P K + +L +G V
Sbjct: 435 FLPAVGI-QDEGIFRCQAMNRNGKETKSNYRVRVYQIPGKPEIVDSASELTAGVPNKVGT 493
Query: 227 LVTKGDPPL-TISWLKNGLPIL 247
V++G P T+SW +G P++
Sbjct: 494 CVSEGSYPAGTLSWHLDGKPLV 515
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 38/144 (26%), Positives = 61/144 (42%), Gaps = 21/144 (14%)
Query: 13 TLQPGPPVSLKCI-ATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQ----LPLNRR 67
T + G P+ LKC A P + WKL N R +V P +
Sbjct: 377 TARIGEPLVLKCKGAPKKPPQRLEWKL-----------NTGRTEAWKVLSPQGGGPWDSV 425
Query: 68 QKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA--I 125
+V PNG+L + V D G++ C A N+ G+ + N + V P + + ++
Sbjct: 426 ARVLPNGSLFLPAVGI-QDEGIFRCQAMNRNGKETKSNYRVRVYQIPGKPEIVDSASELT 484
Query: 126 AGEPLYLGCPVA--GYPIESITWQ 147
AG P +G V+ YP +++W
Sbjct: 485 AGVPNKVGTCVSEGSYPAGTLSWH 508
>pdb|3OQ3|B Chain B, Structural Basis Of Type-I Interferon Sequestration By A
Poxvirus Decoy Receptor
Length = 329
Score = 47.8 bits (112), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 41/147 (27%), Positives = 57/147 (38%), Gaps = 22/147 (14%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIES-------------ITWQK-GVQQLPLNRRQK 160
F M +++A+ GEP CP PIE + W+K G + PLNRR K
Sbjct: 33 FGGTMNDMAAL-GEPFSAKCP----PIEDSLLSHRYNDKDNVVNWEKIGKTRRPLNRRVK 87
Query: 161 VFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGD 220
NG L I N + Y CT T K G V + PP P ++ H
Sbjct: 88 ---NGDLWIANYTSNDSHRRYLCTVTTKNGDCVQGIVRSHIRKPPSCIPETYELGTHDKY 144
Query: 221 RAGVQCLVTKGDPPLTISWLKNGLPIL 247
+ C + I+W KN ++
Sbjct: 145 GIDLYCGILYAKHYNNITWYKNNQELI 171
Score = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 43/138 (31%), Positives = 57/138 (41%), Gaps = 13/138 (9%)
Query: 50 NKNRIGEARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHIS 109
N +IG+ R PLNRR K NG L I N + Y CT T K G V
Sbjct: 71 NWEKIGKTR---RPLNRRVK---NGDLWIANYTSNDSHRRYLCTVTTKNGDCVQGIVRSH 124
Query: 110 VTGAPFVRP----MGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNG 165
+ P P +G G LY G A + +ITW K Q+L ++ +
Sbjct: 125 IRKPPSCIPETYELGTHDK-YGIDLYCGILYAKH-YNNITWYKNNQELIIDGTKYSQSGQ 182
Query: 166 TLLIENVQKDHDRGVYWC 183
L+I N + + D G Y C
Sbjct: 183 NLIIHNPELE-DSGRYDC 199
>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 = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 113 APFVR-PMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGT--LLI 169
AP +R M +V+ GE L C + G P+ I W + ++L +R+ K+ +G L
Sbjct: 7 APGIRKEMKDVTTKLGEAAQLSCQIVGRPLPDIKWYRFGKELIQSRKYKMSSDGRTHTLT 66
Query: 170 ENVQKDHDRGVYWCTATNKQGRSSSQN 196
++ D GVY C ATN+ G + +
Sbjct: 67 VMTEEQEDEGVYTCIATNEVGEVETSS 93
Score = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 47/188 (25%), Positives = 70/188 (37%), Gaps = 31/188 (16%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFP 72
T + G L C G P P I W R G+ +Q +R+ K+
Sbjct: 18 TTKLGEAAQLSCQIVGRPLPDIKW---------------YRFGKELIQ----SRKYKMSS 58
Query: 73 NGTL--LIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRP----MGNVSAIA 126
+G L ++ D GVY C ATN+ G + + + + P P
Sbjct: 59 DGRTHTLTVMTEEQEDEGVYTCIATNEVGEVETSS-KLLLQATPQFHPGYPLKEKYYGAV 117
Query: 127 GEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGT----LLIENVQKDHDRGVYW 182
G L L G P+ ++TW G Q+L N N L+++NVQ+ G Y
Sbjct: 118 GSTLRLHVMYIGRPVPAMTWFHG-QKLLQNSENITIENTEHYTHLVMKNVQRKTHAGKYK 176
Query: 183 CTATNKQG 190
+N G
Sbjct: 177 VQLSNVFG 184
>pdb|1RY7|B Chain B, Crystal Structure Of The 3 Ig Form Of Fgfr3c In Complex
With Fgf1
Length = 334
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 59/199 (29%), Positives = 79/199 (39%), Gaps = 48/199 (24%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNPTP ISW +G G+ +RIG ++ R Q+ +L++E
Sbjct: 141 VRFRCPAAGNPTPSISWLKNGREFRGE-----HRIGGIKL------RHQQ----WSLVME 185
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V DRG Y C NK G S Q + V RP+ N +A+ G +
Sbjct: 186 SVVPS-DRGNYTCVVENKFG-SIRQTYTLDVLERSPHRPILQAGLPANQTAVLGSDVEFH 243
Query: 134 CPVAGYPIESITWQKGVQQLPLNRRQKVFPNGT--------------------LLIENVQ 173
C V I W K V+ KV P+GT L + NV
Sbjct: 244 CKVYSDAQPHIQWLKHVEV----NGSKVGPDGTPYVTVLKTAGANTTDKELEVLSLHNVT 299
Query: 174 KDHDRGVYWCTATNKQGRS 192
+ D G Y C A N G S
Sbjct: 300 FE-DAGEYTCLAGNSIGFS 317
>pdb|2DM3|A Chain A, Solution Structure Of The Second Ig Domain Of Human
Palladin
Length = 110
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 31/90 (34%), Positives = 48/90 (53%), Gaps = 16/90 (17%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFP 72
T+Q G + C +G PTP +SW+LDG P+ R ++ +++ L R V
Sbjct: 20 TVQEGKLCRMDCKVSGLPTPDLSWQLDGKPV---RPDSAHKM---------LVRENGVH- 66
Query: 73 NGTLLIENVQKDHDRGVYWCTATNKQGRSS 102
+L+IE V D G+Y C ATN+ G++S
Sbjct: 67 --SLIIEPVTS-RDAGIYTCIATNRAGQNS 93
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 45/83 (54%), Gaps = 5/83 (6%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVF--PNG--TLLIE 170
F++ G+++ G+ + C V+G P ++WQ + + + K+ NG +L+IE
Sbjct: 12 FLQAPGDLTVQEGKLCRMDCKVSGLPTPDLSWQLDGKPVRPDSAHKMLVRENGVHSLIIE 71
Query: 171 NVQKDHDRGVYWCTATNKQGRSS 193
V D G+Y C ATN+ G++S
Sbjct: 72 PVTS-RDAGIYTCIATNRAGQNS 93
>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 = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 35/110 (31%), Positives = 51/110 (46%), Gaps = 20/110 (18%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
PQL K +++T ++ C A+GNP P I+W D P+ D N RI + R + +
Sbjct: 115 PQL--KVVERTRT----ATMLCAASGNPDPEITWFKDFLPV--DTSNNNGRIKQLRSESI 166
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTG 112
G L IE ++ D+G Y C ATN G S ++ V G
Sbjct: 167 -----------GALQIEQ-SEESDQGKYECVATNSAGTRYSAPANLYVRG 204
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 58/219 (26%), Positives = 84/219 (38%), Gaps = 43/219 (19%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P+ + QT G S C ATG+P P I W G ++ R E
Sbjct: 7 PRFTRTPVDQTGVSGGVASFICQATGDPRPKIVWNKKGKKVSNQRFEVIE---------- 56
Query: 63 PLNRRQKVFPNGT---LLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM 119
F +G+ L I+ ++ D +Y C A+N G S + ++V + P
Sbjct: 57 --------FDDGSGSVLRIQPLRTPRDEAIYECVASNNVGEISV-STRLTVLREDQI-PR 106
Query: 120 GNVSAIAGEPL---------YLGCPVAGYPIESITWQKGVQQLPL-----NRRQKVFPN- 164
G + G L + C +G P ITW K LP+ N R K +
Sbjct: 107 GFPTIDMGPQLKVVERTRTATMLCAASGNPDPEITWFKDF--LPVDTSNNNGRIKQLRSE 164
Query: 165 --GTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV 201
G L IE ++ D+G Y C ATN G S ++ V
Sbjct: 165 SIGALQIEQ-SEESDQGKYECVATNSAGTRYSAPANLYV 202
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 35/149 (23%), Positives = 63/149 (42%), Gaps = 9/149 (6%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKV-FPNGT---LLIE 170
F R + + ++G C G P I W K +++ R + + F +G+ L I+
Sbjct: 9 FTRTPVDQTGVSGGVASFICQATGDPRPKIVWNKKGKKVSNQRFEVIEFDDGSGSVLRIQ 68
Query: 171 NVQKDHDRGVYWCTATNKQGR---SSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCL 227
++ D +Y C A+N G S+ V +P + P L +R +
Sbjct: 69 PLRTPRDEAIYECVASNNVGEISVSTRLTVLREDQIPRGFPTIDMGPQLKVVERTRTATM 128
Query: 228 V--TKGDPPLTISWLKNGLPILSAMGVGR 254
+ G+P I+W K+ LP+ ++ GR
Sbjct: 129 LCAASGNPDPEITWFKDFLPVDTSNNNGR 157
>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 = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 53/237 (22%), Positives = 93/237 (39%), Gaps = 27/237 (11%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPN 73
L G C A G P +D Y G++ + R+ VQ+ + R ++ N
Sbjct: 16 LSVGESKFFTCTAIGEPES-----IDWYNPQGEKIISTQRV---VVQKEGVRSRLTIY-N 66
Query: 74 GTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSAIA-GEPLYL 132
+ D G+Y C AT+ +G++ V + + R + + GE +
Sbjct: 67 ANI--------EDAGIYRCQATDAKGQTQEATVVLEIYQKLTFREVVSPQEFKQGEDAEV 118
Query: 133 GCPVAGYPIESITW---QKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTA-TNK 188
C V+ P +++W + V + NR + N ++ + D G+Y C
Sbjct: 119 VCRVSSSPAPAVSWLYHNEEVTTISDNRFAMLANNNLQILNINKSDE--GIYRCEGRVEA 176
Query: 189 QGRSSSQNVHISVTVPPKIA--PFEFQPDLHSGDRAGVQCLVTKGDPPLTISWLKNG 243
+G +++ + V VPP I+ F G+ C + G P ISW +NG
Sbjct: 177 RGEIDFRDIIVIVNVPPAISMPQKSFNATAERGEEMTFSCRAS-GSPEPAISWFRNG 232
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 43/189 (22%), Positives = 71/189 (37%), Gaps = 24/189 (12%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF 71
Q + G + C + +P P +SW +E I + R L N Q
Sbjct: 108 QEFKQGEDAEVVCRVSSSPAPAVSWLY--------HNEEVTTISDNRFAMLANNNLQI-- 157
Query: 72 PNGTLLIENVQKDHDRGVYWCTA-TNKQGRSSSQNVHISVTGAPFV---RPMGNVSAIAG 127
D G+Y C +G +++ + V P + + N +A G
Sbjct: 158 --------LNINKSDEGIYRCEGRVEARGEIDFRDIIVIVNVPPAISMPQKSFNATAERG 209
Query: 128 EPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVF-PNGTLLIENVQKDHDRGVYWCTAT 186
E + C +G P +I+W + + + N + + N L + N+ + D G Y C AT
Sbjct: 210 EEMTFSCRASGSPEPAISWFRNGKLIEENEKYILKGSNTELTVRNI-INSDGGPYVCRAT 268
Query: 187 NKQGRSSSQ 195
NK G Q
Sbjct: 269 NKAGEDEKQ 277
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 31/104 (29%), Positives = 43/104 (41%), Gaps = 22/104 (21%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
S PQ K T + G ++ C A+G+P P ISW +G + EN+ I +
Sbjct: 196 SMPQ---KSFNATAERGEEMTFSCRASGSPEPAISWFRNGKLI----EENEKYILKG--- 245
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQ 104
N L + N+ + D G Y C ATNK G Q
Sbjct: 246 -----------SNTELTVRNI-INSDGGPYVCRATNKAGEDEKQ 277
>pdb|1QZ1|A Chain A, Crystal Structure Of The Ig 1-2-3 Fragment Of Ncam
Length = 291
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 46/180 (25%), Positives = 73/180 (40%), Gaps = 9/180 (5%)
Query: 73 NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSAI-AGEPLY 131
+ TL I N D D G+Y C T + G S V++ + + GE
Sbjct: 61 SSTLTIYNANID-DAGIYKCVVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGEDAV 119
Query: 132 LGCPVAGYPIESITWQKGVQQLPLNR--RQKVFPNGTLLIENVQKDHDRGVYWCTA-TNK 188
+ C V +I W+ + + L + R V N L I ++K D G Y C
Sbjct: 120 IVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYLQIRGIKK-TDEGTYRCEGRILA 178
Query: 189 QGRSSSQNVHISVTVPPKIAPFE--FQPDLHSGDRAGVQCLVTKGDPPLTISWLKNGLPI 246
+G + +++ + V VPP + + + G + C G P T+SW K+G PI
Sbjct: 179 RGEINFKDIQVIVNVPPTVQARQSIVNATANLGQSVTLVCD-ADGFPEPTMSWTKDGEPI 237
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 43/102 (42%), Gaps = 16/102 (15%)
Query: 9 FIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQ 68
+ T G V+L C A G P P +SW DG P+ + +++ I
Sbjct: 203 IVNATANLGQSVTLVCDADGFPEPTMSWTKDGEPIENEEEDDEKHIFSD----------- 251
Query: 69 KVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV 110
+ L I NV K +D Y C A NK G + ++H+ V
Sbjct: 252 ---DSSELTIRNVDK-NDEAEYVCIAENKAGEQDA-SIHLKV 288
>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 = 43.9 bits (102), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 43/154 (27%), Positives = 56/154 (36%), Gaps = 25/154 (16%)
Query: 66 RRQKVFPNG--TLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP--FVRPMGN 121
+ K PNG + LI N D G Y C N SQ + V P F R +
Sbjct: 54 KMNKEIPNGNTSELIFNAVHVKDAGFYVCRVNNNFTFEFSQWSQLDVCDIPESFQRSVDG 113
Query: 122 VSA--------------IAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTL 167
VS + G L L C G PI W K +LPL K
Sbjct: 114 VSESKLQICVEPTSQKLMPGSTLVLQCVAVGSPIPHYQWFKN--ELPLTHETKKL----Y 167
Query: 168 LIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV 201
++ V +H +G YWC N + S+ V I +
Sbjct: 168 MVPYVDLEH-QGTYWCHVYNDRDSQDSKKVEIII 200
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 39/99 (39%), Gaps = 26/99 (26%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF 71
Q L PG + L+C+A G+P PH W + PL HE K
Sbjct: 128 QKLMPGSTLVLQCVAVGSPIPHYQWFKNELPLT---HETKK------------------- 165
Query: 72 PNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV 110
++ V +H +G YWC N + S+ V I +
Sbjct: 166 ---LYMVPYVDLEH-QGTYWCHVYNDRDSQDSKKVEIII 200
Score = 33.9 bits (76), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 35/139 (25%), Positives = 51/139 (36%), Gaps = 23/139 (16%)
Query: 123 SAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYW 182
+ +AG+ + L C G+P W K +++P N + LI N D G Y
Sbjct: 29 AVLAGQFVKLCCRATGHPFVQYQWFKMNKEIPNG-------NTSELIFNAVHVKDAGFYV 81
Query: 183 CTATNKQGRSSSQNVHISVTVPPK--------IAPFEFQ-------PDLHSGDRAGVQCL 227
C N SQ + V P+ ++ + Q L G +QC
Sbjct: 82 CRVNNNFTFEFSQWSQLDVCDIPESFQRSVDGVSESKLQICVEPTSQKLMPGSTLVLQC- 140
Query: 228 VTKGDPPLTISWLKNGLPI 246
V G P W KN LP+
Sbjct: 141 VAVGSPIPHYQWFKNELPL 159
>pdb|2V9T|A Chain A, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 117
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 39/84 (46%), Gaps = 9/84 (10%)
Query: 127 GEPLYLGCPVAGYPIESITWQKGVQQLPLNR-----RQKVFPNGTLLIENV----QKDHD 177
GEP L C G P +I W KG +++ ++ + + P+G+L + + D
Sbjct: 24 GEPATLNCKAEGRPTPTIEWYKGGERVETDKDDPRSHRMLLPSGSLFFLRIVHGRKSRPD 83
Query: 178 RGVYWCTATNKQGRSSSQNVHISV 201
GVY C A N G + S + + V
Sbjct: 84 EGVYVCVARNYLGEAVSHDASLEV 107
Score = 42.4 bits (98), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/112 (24%), Positives = 46/112 (41%), Gaps = 18/112 (16%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P+++ + G P +L C A G PTP I W G + D+ + ++
Sbjct: 10 PRIVEHPSDLIVSKGEPATLNCKAEGRPTPTIEWYKGGERVETDKDDPRS---------- 59
Query: 63 PLNRRQKVFPNGTLLIENV----QKDHDRGVYWCTATNKQGRSSSQNVHISV 110
+ + P+G+L + + D GVY C A N G + S + + V
Sbjct: 60 ----HRMLLPSGSLFFLRIVHGRKSRPDEGVYVCVARNYLGEAVSHDASLEV 107
>pdb|1T66|H Chain H, The Structure Of Fab With Intermediate Affinity For
Fluorescein.
pdb|1T66|D Chain D, The Structure Of Fab With Intermediate Affinity For
Fluorescein
Length = 220
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 39/158 (24%), Positives = 71/158 (44%), Gaps = 29/158 (18%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAGDRHENKNRIGEAR 58
+QPG P+ L C+A+G +P + W ++ P + + + + G
Sbjct: 12 VQPGRPMKLSCVASGFTFSDYWMNWVRQSPEKGLEWVAQIRNKPYNYETYYSDSVKGRFT 71
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV----TGAP 114
+ + + + V+ L + N++ + D G+Y+CT+ G Q ++V T AP
Sbjct: 72 ISRD--DSKSSVY----LQMNNLRAE-DMGIYYCTSYGYHGAYWGQGTLVTVSAAKTTAP 124
Query: 115 FVRPMG-NVSAIAGEPLYLGCPVAGYPIE--SITWQKG 149
V P+ +A+ + LGC V GY E ++TW G
Sbjct: 125 SVYPLAPGTAALKSSMVTLGCLVKGYFPEPVTVTWNSG 162
Score = 31.6 bits (70), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 38/173 (21%), Positives = 59/173 (34%), Gaps = 42/173 (24%)
Query: 105 NVHISVTGAPFVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLP-------LNR 157
V + TG V+P G P+ L C +G+ S W V+Q P
Sbjct: 1 EVKLDETGGGLVQP--------GRPMKLSCVASGFTF-SDYWMNWVRQSPEKGLEWVAQI 51
Query: 158 RQKVFPNGTLLIENVQ---------------------KDHDRGVYWCTATNKQGRSSSQN 196
R K + T ++V+ + D G+Y+CT+ G Q
Sbjct: 52 RNKPYNYETYYSDSVKGRFTISRDDSKSSVYLQMNNLRAEDMGIYYCTSYGYHGAYWGQG 111
Query: 197 VHISV----TVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
++V T P + P + CLV P P+T++W L
Sbjct: 112 TLVTVSAAKTTAPSVYPLAPGTAALKSSMVTLGCLVKGYFPEPVTVTWNSGSL 164
>pdb|2EDJ|A Chain A, Solution Structure Of The Fifth Ig-Like Domain From Human
Roundabout Homolog 2
Length = 100
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 42/91 (46%), Gaps = 19/91 (20%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF 71
QTL LKC ATG+P P ISW +G+ G R A +Q+
Sbjct: 18 QTLAVDGTALLKCKATGDPLPVISWLKEGFTFPG-------RDPRATIQE---------- 60
Query: 72 PNGTLLIENVQKDHDRGVYWCTATNKQGRSS 102
GTL I+N+ + D G Y C AT+ G +S
Sbjct: 61 -QGTLQIKNL-RISDTGTYTCVATSSSGETS 89
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 36/77 (46%), Gaps = 3/77 (3%)
Query: 118 PMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLP-LNRRQKVFPNGTLLIENVQKDH 176
P A+ G L L C G P+ I+W K P + R + GTL I+N+ +
Sbjct: 15 PANQTLAVDGTAL-LKCKATGDPLPVISWLKEGFTFPGRDPRATIQEQGTLQIKNL-RIS 72
Query: 177 DRGVYWCTATNKQGRSS 193
D G Y C AT+ G +S
Sbjct: 73 DTGTYTCVATSSSGETS 89
>pdb|3V6B|R Chain R, Vegfr-2VEGF-E Complex Structure
Length = 424
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 62/236 (26%), Positives = 92/236 (38%), Gaps = 23/236 (9%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPN 73
L G + L C A I + + YP +H++K + Q ++ +
Sbjct: 106 LSVGEKLVLNCTARTELNVGIDFNWE-YP--SSKHQHKKLVNRDLKTQSGSEMKKFL--- 159
Query: 74 GTLLIENVQKDHDRGVYWCTATNKQGRSSSQN-VHISVTGAPFVRPMGN-----VSAIAG 127
TL I+ V + D+G+Y C A++ G + +N + V PFV G+ V A G
Sbjct: 160 STLTIDGVTRS-DQGLYTCAASS--GLMTKKNSTFVRVHEKPFV-AFGSGMESLVEATVG 215
Query: 128 EPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATN 187
E + + GYP I W K +PL + L I V + D G Y TN
Sbjct: 216 ERVRIPAKYLGYPPPEIKWYK--NGIPLESNHTIKAGHVLTIMEVS-ERDTGNYTVILTN 272
Query: 188 KQGRSS-SQNVHISVTVPPKIAPFEFQPDLHS---GDRAGVQCLVTKGDPPLTISW 239
+ S V + V VPP+I + S G + C V PP I W
Sbjct: 273 PISKEKQSHVVSLVVYVPPQIGEKSLISPVDSYQYGTTQTLTCTVYAIPPPHHIHW 328
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 42/88 (47%), Gaps = 8/88 (9%)
Query: 165 GTLLIENVQKDHDRGVYWCTATNKQGRSSSQN-VHISVTVPPKIA---PFEFQPDLHSGD 220
TL I+ V + D+G+Y C A++ G + +N + V P +A E + G+
Sbjct: 160 STLTIDGVTRS-DQGLYTCAASS--GLMTKKNSTFVRVHEKPFVAFGSGMESLVEATVGE 216
Query: 221 RAGVQCLVTKGDPPLTISWLKNGLPILS 248
R + G PP I W KNG+P+ S
Sbjct: 217 RVRIPAKYL-GYPPPEIKWYKNGIPLES 243
>pdb|1E07|A Chain A, Model Of Human Carcinoembryonic Antigen By Homology
Modelling And Curve-Fitting To Experimental Solution
Scattering Data
Length = 642
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 62/240 (25%), Positives = 90/240 (37%), Gaps = 43/240 (17%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNG 74
+PG +SL C A NP SW +DG +QQ Q++F
Sbjct: 394 RPGVNLSLSCHAASNPPAQYSWLIDG-----------------NIQQ----HTQELF--- 429
Query: 75 TLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSAIAGEP----- 129
I N+ + + G+Y C A N S V A +P ++S+ +P
Sbjct: 430 ---ISNI-TEKNSGLYTCQANNSASGHSRTTVKTITVSAELPKP--SISSNNSKPVEDKD 483
Query: 130 -LYLGCPVAGYPIESITWQKGVQQLPLN-RRQKVFPNGTLLIENVQKDHDRGVYWCTATN 187
+ C + W G Q LP++ R Q N TL + NV ++ R Y C N
Sbjct: 484 AVAFTCEPEAQNTTYLWWVNG-QSLPVSPRLQLSNGNRTLTLFNVTRNDARA-YVCGIQN 541
Query: 188 KQGRSSSQNVHISVTVPPKIAPFEFQPD--LHSGDRAGVQCLVTKGDPPLTISWLKNGLP 245
+ S V + V P P PD SG + C + +P SW NG+P
Sbjct: 542 SVSANRSDPVTLDVLYGPD-TPIISPPDSSYLSGANLNLSCH-SASNPSPQYSWRINGIP 599
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 52/190 (27%), Positives = 79/190 (41%), Gaps = 25/190 (13%)
Query: 67 RQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVR---PMGNVS 123
R+ ++PN +LLI+N+ ++ D G Y S V+ TG V P ++S
Sbjct: 64 REIIYPNASLLIQNIIQN-DTGFYTLHVI------KSDLVNEEATGQFRVYPELPKPSIS 116
Query: 124 AIAGEPLYLGCPVAGYPIESIT------WQKGVQQLPLN-RRQKVFPNGTLLIENVQKDH 176
+ +P+ VA + E T W Q LP++ R Q N TL + NV ++
Sbjct: 117 SNNSKPVEDKDAVA-FTCEPETQDATYLWWVNNQSLPVSPRLQLSNGNRTLTLFNVTRN- 174
Query: 177 DRGVYWCTATNKQGRSSSQNVHISVTV---PPKIAPFEFQPDLHSGDRAGVQCLVTKGDP 233
D Y C N S +V ++V P I+P SG+ + C +P
Sbjct: 175 DTASYKCETQNPVSARRSDSVILNVLYGPDAPTISP--LNTSYRSGENLNLSCHA-ASNP 231
Query: 234 PLTISWLKNG 243
P SW NG
Sbjct: 232 PAQYSWFVNG 241
Score = 28.5 bits (62), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 60/248 (24%), Positives = 97/248 (39%), Gaps = 53/248 (21%)
Query: 10 IQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQK 69
+ + + G ++L C A NP SW ++G QQ Q+
Sbjct: 211 LNTSYRSGENLNLSCHAASNPPAQYSWFVNG-----------------TFQQ----STQE 249
Query: 70 VF-PNGTLLIENVQKDHDRGVYWCTATNKQ-GRSSSQNVHISVTGA---PFVRPMGNVSA 124
+F PN T+ ++ G Y C A N G + + I+V PF+ +
Sbjct: 250 LFIPNITV--------NNSGSYTCQAHNSDTGLNRTTVTTITVYAEPPKPFITSNNSNPV 301
Query: 125 IAGEPLYLGCPVAGYPIESIT--WQKGVQQLPLN-RRQKVFPNGTLLIENVQKDHDRGVY 181
+ + L C I++ T W Q LP++ R Q N TL + +V ++ D G Y
Sbjct: 302 EDEDAVALTCEPE---IQNTTYLWWVNNQSLPVSPRLQLSNDNRTLTLLSVTRN-DVGPY 357
Query: 182 WCTATNKQGRSSSQNVHISVTV---PPKIAPFEFQPDLHSGDRAGVQCLVT---KGDPPL 235
C N+ S V ++V P I+P ++ R GV ++ +PP
Sbjct: 358 ECGIQNELSVDHSDPVILNVLYGPDDPTISPS------YTYYRPGVNLSLSCHAASNPPA 411
Query: 236 TISWLKNG 243
SWL +G
Sbjct: 412 QYSWLIDG 419
>pdb|2V5T|A Chain A, Crystal Structure Of Ncam2 Ig2-3
Length = 189
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 42/188 (22%), Positives = 69/188 (36%), Gaps = 22/188 (11%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF 71
Q + G + C + +P P +SW +E I + R L N Q
Sbjct: 12 QEFKQGEDAEVVCRVSSSPAPAVSWLY--------HNEEVTTISDNRFAMLANNNLQI-- 61
Query: 72 PNGTLLIENVQKDHDRGVYWCTA-TNKQGRSSSQNVHISVTGAPFV---RPMGNVSAIAG 127
D G+Y C +G +++ + V P + + N +A G
Sbjct: 62 --------LNINKSDEGIYRCEGRVEARGEIDFRDIIVIVNVPPAISMPQKSFNATAERG 113
Query: 128 EPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATN 187
E + C +G P +I+W + + + N + + + T L + D G Y C ATN
Sbjct: 114 EEMTFSCRASGSPEPAISWFRNGKLIEENEKYILKGSNTELTVRNIINSDGGPYVCRATN 173
Query: 188 KQGRSSSQ 195
K G Q
Sbjct: 174 KAGEDEKQ 181
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 31/104 (29%), Positives = 43/104 (41%), Gaps = 22/104 (21%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
S PQ K T + G ++ C A+G+P P ISW +G + EN+ I +
Sbjct: 100 SMPQ---KSFNATAERGEEMTFSCRASGSPEPAISWFRNGKLI----EENEKYILKG--- 149
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQ 104
N L + N+ + D G Y C ATNK G Q
Sbjct: 150 -----------SNTELTVRNI-INSDGGPYVCRATNKAGEDEKQ 181
Score = 35.8 bits (81), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 30/123 (24%), Positives = 51/123 (41%), Gaps = 9/123 (7%)
Query: 127 GEPLYLGCPVAGYPIESITW---QKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWC 183
GE + C V+ P +++W + V + NR + N ++ + D G+Y C
Sbjct: 17 GEDAEVVCRVSSSPAPAVSWLYHNEEVTTISDNRFAMLANNNLQILNINKSDE--GIYRC 74
Query: 184 TA-TNKQGRSSSQNVHISVTVPPKIA--PFEFQPDLHSGDRAGVQCLVTKGDPPLTISWL 240
+G +++ + V VPP I+ F G+ C + G P ISW
Sbjct: 75 EGRVEARGEIDFRDIIVIVNVPPAISMPQKSFNATAERGEEMTFSCRAS-GSPEPAISWF 133
Query: 241 KNG 243
+NG
Sbjct: 134 RNG 136
>pdb|4FAB|H Chain H, Three-Dimensional Structure Of A Fluorescein-Fab Complex
Crystallized In 2-Methyl-2,4-Pentanediol
Length = 216
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 40/158 (25%), Positives = 69/158 (43%), Gaps = 29/158 (18%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAGDRHENKNRIGEAR 58
+QPG P+ L C+A+G +P + W ++ P + + + + G
Sbjct: 12 VQPGRPMKLSCVASGFTFSDYWMNWVRQSPEKGLEWVAQIRNKPYNYETYYSDSVKGRFT 71
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTAT----NKQGRSSSQNVHISVTGAP 114
+ + + + V+ L N + D G+Y+CT + + G+ +S V + T AP
Sbjct: 72 ISR--DDSKSSVY-----LQMNNLRVEDMGIYYCTGSYYGMDYWGQGTSVTVSSAKTTAP 124
Query: 115 FVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V P+ V G + LGC V GY E ++TW G
Sbjct: 125 SVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
>pdb|1FLR|H Chain H, 4-4-20 Fab Fragment
Length = 219
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 40/158 (25%), Positives = 69/158 (43%), Gaps = 29/158 (18%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAGDRHENKNRIGEAR 58
+QPG P+ L C+A+G +P + W ++ P + + + + G
Sbjct: 12 VQPGRPMKLSCVASGFTFSDYWMNWVRQSPEKGLEWVAQIRNKPYNYETYYSDSVKGRFT 71
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTAT----NKQGRSSSQNVHISVTGAP 114
+ + + + V+ L N + D G+Y+CT + + G+ +S V + T AP
Sbjct: 72 ISR--DDSKSSVY-----LQMNNLRVEDMGIYYCTGSYYGMDYWGQGTSVTVSSAKTTAP 124
Query: 115 FVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V P+ V G + LGC V GY E ++TW G
Sbjct: 125 SVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 49/193 (25%), Positives = 72/193 (37%), Gaps = 27/193 (13%)
Query: 19 PVSLKCIATGNPTPHISWKLDGYPLAGDRHE---NKNRIGEARVQQLPLNRRQKVFPNGT 75
PV L C +G +P + WK D GD N+I + R P G
Sbjct: 21 PVKLSCAYSGFSSPRVEWKFD----QGDTTRLVCYNNKITAS------YEDRVTFLPTG- 69
Query: 76 LLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNV--SAIAGEPLYLG 133
+ ++V ++ D G Y C + + G S + + P +P N+ SA G L
Sbjct: 70 ITFKSVTRE-DTGTYTCMVSEEGGNSYGEVKVKLIVLVPPSKPTVNIPSSATIGNRAVLT 128
Query: 134 CPVA-GYPIESITWQKGVQQLPLN-RRQKVFPNGTL--------LIENVQKDHDRGVYWC 183
C G P TW K +P N + + F N + L+ + D G Y C
Sbjct: 129 CSEQDGSPPSEYTWFKDGIVMPTNPKSTRAFSNSSYVLNPTTGELVFDPLSASDTGEYSC 188
Query: 184 TATNKQGRSSSQN 196
A N G + N
Sbjct: 189 EARNGYGTPMTSN 201
Score = 41.2 bits (95), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 58/148 (39%), Gaps = 24/148 (16%)
Query: 119 MGNVSAIAGEP---------LYLGCPVAGYPIESITW---QKGVQQL---------PLNR 157
MG+V+ + EP + L C +G+ + W Q +L
Sbjct: 2 MGSVTVHSSEPEVRIPENNPVKLSCAYSGFSSPRVEWKFDQGDTTRLVCYNNKITASYED 61
Query: 158 RQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQ-NVHISVTVPPKIAPFEFQPDL 216
R P G + ++V ++ D G Y C + + G S + V + V VPP
Sbjct: 62 RVTFLPTG-ITFKSVTRE-DTGTYTCMVSEEGGNSYGEVKVKLIVLVPPSKPTVNIPSSA 119
Query: 217 HSGDRAGVQCLVTKGDPPLTISWLKNGL 244
G+RA + C G PP +W K+G+
Sbjct: 120 TIGNRAVLTCSEQDGSPPSEYTWFKDGI 147
>pdb|3V2A|R Chain R, Vegfr-2VEGF-A Complex Structure
Length = 772
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 61/260 (23%), Positives = 105/260 (40%), Gaps = 42/260 (16%)
Query: 23 KCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIENVQ 82
+ ++ NP P W+ + + + N+I + Q + + K TL+I Q
Sbjct: 472 QAVSVTNPYPCEEWR------SVEDFQGGNKIEVNKNQFALIEGKNKTV--STLVI---Q 520
Query: 83 KDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSAIAGEPLYLGCPVAGYPIE 142
+ +Y C A NK GR + + VT P + ++ E + L C E
Sbjct: 521 AANVSALYKCEAVNKVGRGE-RVISFHVTRGPEITLQPDMQPTEQESVSLWCTADRSTFE 579
Query: 143 SITWQK-GVQQLPLNRRQ-----------------KVFPNGT--LLIENVQKD--HDRGV 180
++TW K G Q LP++ + +F N T +LI ++ D+G
Sbjct: 580 NLTWYKLGPQPLPIHVGELPTPVCKNLDTLWKLNATMFSNSTNDILIMELKNASLQDQGD 639
Query: 181 YWCTATNKQGRSSSQNVHISVTVPPKIAP-----FEFQPDLHSGDRAGVQCLVTKGDPPL 235
Y C A +++ + V +TV ++AP E Q G+ V C + G+PP
Sbjct: 640 YVCLAQDRKTKKRHCVVR-QLTVLERVAPTITGNLENQTT-SIGESIEVSCTAS-GNPPP 696
Query: 236 TISWLKNGLPILSAMGVGRK 255
I W K+ ++ G+ K
Sbjct: 697 QIMWFKDNETLVEDSGIVLK 716
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 64/236 (27%), Positives = 93/236 (39%), Gaps = 23/236 (9%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPN 73
L G + L C A I + + YP +H++K + R + K F +
Sbjct: 236 LSVGEKLVLNCTARTELNVGIDFNWE-YP--SSKHQHKKLVN--RDLKTQSGSEMKKFLS 290
Query: 74 GTLLIENVQKDHDRGVYWCTATNKQGRSSSQN-VHISVTGAPFVRPMGN-----VSAIAG 127
TL I+ V + D+G+Y C A++ G + +N + V PFV G+ V A G
Sbjct: 291 -TLTIDGVTRS-DQGLYTCAASS--GLMTKKNSTFVRVHEKPFV-AFGSGMESLVEATVG 345
Query: 128 EPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATN 187
E + + GYP I W K +PL + L I V + D G Y TN
Sbjct: 346 ERVRIPAKYLGYPPPEIKWYKN--GIPLESNHTIKAGHVLTIMEVS-ERDTGNYTVILTN 402
Query: 188 KQGRSS-SQNVHISVTVPPKIAPFEFQPDLHS---GDRAGVQCLVTKGDPPLTISW 239
+ S V + V VPP+I + S G + C V PP I W
Sbjct: 403 PISKEKQSHVVSLVVYVPPQIGEKSLISPVDSYQYGTTQTLTCTVYAIPPPHHIHW 458
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 41/107 (38%), Gaps = 30/107 (28%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGD-----RHENKNRIGEARVQQLPLNR 66
QT G + + C A+GNP P I W D L D + N+N
Sbjct: 676 QTTSIGESIEVSCTASGNPPPQIMWFKDNETLVEDSGIVLKDGNRN-------------- 721
Query: 67 RQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA 113
L I V+K+ D G+Y C A + G + + I + GA
Sbjct: 722 ---------LTIRRVRKE-DEGLYTCQACSVLGCAKVEAFFI-IEGA 757
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 54/205 (26%), Positives = 84/205 (40%), Gaps = 23/205 (11%)
Query: 13 TLQPG------PPVSLKCIATGNPTPHISW-KLDGYPLAGDRHENKNRIGEARVQQLPLN 65
TLQP VSL C A + +++W KL PL E + + LN
Sbjct: 554 TLQPDMQPTEQESVSLWCTADRSTFENLTWYKLGPQPLPIHVGELPTPVCKNLDTLWKLN 613
Query: 66 RRQKVFPNGT--LLIENVQKD--HDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRP--- 118
+F N T +LI ++ D+G Y C A +++ + V +T V P
Sbjct: 614 --ATMFSNSTNDILIMELKNASLQDQGDYVCLAQDRKTKKRHCVVR-QLTVLERVAPTIT 670
Query: 119 --MGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNG--TLLIENVQK 174
+ N + GE + + C +G P I W K + L + V +G L I V+K
Sbjct: 671 GNLENQTTSIGESIEVSCTASGNPPPQIMWFKDNETL-VEDSGIVLKDGNRNLTIRRVRK 729
Query: 175 DHDRGVYWCTATNKQGRSSSQNVHI 199
+ D G+Y C A + G + + I
Sbjct: 730 E-DEGLYTCQACSVLGCAKVEAFFI 753
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 42/88 (47%), Gaps = 8/88 (9%)
Query: 165 GTLLIENVQKDHDRGVYWCTATNKQGRSSSQN-VHISVTVPPKIA---PFEFQPDLHSGD 220
TL I+ V + D+G+Y C A++ G + +N + V P +A E + G+
Sbjct: 290 STLTIDGVTRS-DQGLYTCAASS--GLMTKKNSTFVRVHEKPFVAFGSGMESLVEATVGE 346
Query: 221 RAGVQCLVTKGDPPLTISWLKNGLPILS 248
R + G PP I W KNG+P+ S
Sbjct: 347 RVRIPAKYL-GYPPPEIKWYKNGIPLES 373
>pdb|1RJL|B Chain B, Structure Of The Complex Between Ospb-Ct And Bactericidal
Fab-H6831
Length = 221
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 43/160 (26%), Positives = 65/160 (40%), Gaps = 31/160 (19%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
++PG V L C A+G P + W + +P +G+ H N+ G+A +
Sbjct: 12 VRPGASVKLSCKASGFTFTSSWMHWAKQRPGQGLEWIGEIHPNSGNTHYNEKFKGKATLT 71
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT--------ATNKQGRSSSQNVHISVTG 112
+ + +L E D VY+C A + G+ +S V + T
Sbjct: 72 -VDTSSSTAYVDLSSLTSE------DSAVYYCARMRYGDYYAMDNWGQGTSVTVSSAKTT 124
Query: 113 APFVRPMGNVSA-IAGEPLYLGCPVAGYPIESIT--WQKG 149
AP V P+ V G + LGC V GY ES+T W G
Sbjct: 125 APPVYPLAPVCGDTTGSSVTLGCLVKGYFPESVTLLWNSG 164
>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 = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 42/99 (42%), Gaps = 26/99 (26%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF 71
Q L PG + L+C+A G+P PH W + PL HE K K++
Sbjct: 13 QKLMPGSTLVLQCVAVGSPIPHYQWFKNELPLT---HETK-----------------KLY 52
Query: 72 PNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV 110
++ V +H +G YWC N + S+ V I +
Sbjct: 53 -----MVPYVDLEH-QGTYWCHVYNDRDSQDSKKVEIII 85
Score = 34.7 bits (78), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 31/75 (41%), Gaps = 7/75 (9%)
Query: 127 GEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTAT 186
G L L C G PI W K +LPL K ++ V +H +G YWC
Sbjct: 18 GSTLVLQCVAVGSPIPHYQWFKN--ELPLTHETKKL----YMVPYVDLEH-QGTYWCHVY 70
Query: 187 NKQGRSSSQNVHISV 201
N + S+ V I +
Sbjct: 71 NDRDSQDSKKVEIII 85
>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 = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 34/142 (23%), Positives = 61/142 (42%), Gaps = 6/142 (4%)
Query: 67 RQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV---TGAPFVRPMGNVS 123
R+ ++ NG+LL + + D GVY T++ R + V V PF++ + N +
Sbjct: 64 REIIYSNGSLLFQMITM-KDMGVYTLDMTDENYRRTQATVRFHVHQPVTQPFLQ-VTNTT 121
Query: 124 AIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWC 183
+ + L C ++ +I W Q L L R + N ++L + K D G Y C
Sbjct: 122 VKELDSVTLTC-LSNDIGANIQWLFNSQSLQLTERMTLSQNNSILRIDPIKREDAGEYQC 180
Query: 184 TATNKQGRSSSQNVHISVTVPP 205
+N S ++ + + P
Sbjct: 181 EISNPVSVRRSNSIKLDIIFDP 202
>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 = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 34/142 (23%), Positives = 61/142 (42%), Gaps = 6/142 (4%)
Query: 67 RQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV---TGAPFVRPMGNVS 123
R+ ++ NG+LL + + D GVY T++ R + V V PF++ + N +
Sbjct: 64 REIIYSNGSLLFQMITM-KDMGVYTLDMTDENYRRTQATVRFHVHQPVTQPFLQ-VTNTT 121
Query: 124 AIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWC 183
+ + L C ++ +I W Q L L R + N ++L + K D G Y C
Sbjct: 122 VKELDSVTLTC-LSNDIGANIQWLFNSQSLQLTERMTLSQNNSILRIDPIKREDAGEYQC 180
Query: 184 TATNKQGRSSSQNVHISVTVPP 205
+N S ++ + + P
Sbjct: 181 EISNPVSVRRSNSIKLDIIFDP 202
>pdb|1IE5|A Chain A, Nmr Structure Of The Third Immunoglobulin Domain From The
Neural Cell Adhesion Molecule
Length = 107
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 38/91 (41%), Gaps = 17/91 (18%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V+L C A G P P ++W DG P+ + +E K + L+I+
Sbjct: 31 VTLACDADGFPEPTMTWTKDGEPIEQEDNEEKYSFN---------------YDGSELIIK 75
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISV 110
V K D Y C A NK G + +H+ V
Sbjct: 76 KVDK-SDEAEYICIAENKAGEQDA-TIHLKV 104
Score = 38.1 bits (87), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 48/105 (45%), Gaps = 9/105 (8%)
Query: 104 QNVHISVTGAPFVRP---MGNVSAIAGEPLYLGCPVAGYPIESITWQKG---VQQLPLNR 157
+++ + V P VR N +A + + L C G+P ++TW K ++Q
Sbjct: 2 KDIQVIVNVPPSVRARQSTMNATANLSQSVTLACDADGFPEPTMTWTKDGEPIEQEDNEE 61
Query: 158 RQKVFPNGT-LLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV 201
+ +G+ L+I+ V K D Y C A NK G + +H+ V
Sbjct: 62 KYSFNYDGSELIIKKVDK-SDEAEYICIAENKAGEQDA-TIHLKV 104
>pdb|1EHL|H Chain H, 64m-2 Antibody Fab Complexed With D(5ht)(6-4)t
Length = 219
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 43/160 (26%), Positives = 63/160 (39%), Gaps = 33/160 (20%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQQ 61
+PG V + C A+G P + W YP D N+ G+A++
Sbjct: 13 RPGASVKMSCKASGYSFTSFWMHWVKQRPGQGLEWIGTIYPGNSDTSYNQKFKGKAKLT- 71
Query: 62 LPLNRRQKVFPNGTLLIE-NVQKDHDRGVYWCT--------ATNKQGRSSSQNVHISVTG 112
V T +E + + D VY+CT A + G+ +S V + T
Sbjct: 72 -------AVTSASTAYMEVSSLTNEDSAVYYCTRRSGYKYYALDYWGQGTSVTVSSAKTT 124
Query: 113 APFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 125 APSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 164
>pdb|1PZ5|B Chain B, Structural Basis Of Peptide-Carbohydrate Mimicry In An
Antibody Combining Site
Length = 220
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 44/177 (24%), Positives = 71/177 (40%), Gaps = 33/177 (18%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKN---RIGEA 57
+QPG + L C+A+G +P + W +A R ++ N E+
Sbjct: 12 VQPGGSMKLSCVASGFTFSNYWMEWVRQSPEKGLEW------VAEIRLKSNNYATHYAES 65
Query: 58 RVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT------ATNKQGRSSSQNVHISVT 111
+ ++R + L N + D G+Y+CT A + G+ +S V + T
Sbjct: 66 VKGRFTISRDDS--KSSVYLQMNNLRAEDTGIYYCTRGGAVGAMDYWGQGTSVTVSSATT 123
Query: 112 GAPFVRPMG-NVSAIAGEPLYLGCPVAGYPIESIT--WQKGVQQLPLNRRQKVFPNG 165
AP V P+ S +G + LGC V GY E +T W G + V +G
Sbjct: 124 TAPSVYPLVPGCSDTSGSSVTLGCLVKGYFPEPVTVKWNYGALSSGVRTVSSVLQSG 180
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 41/91 (45%), Gaps = 11/91 (12%)
Query: 171 NVQKDHDRGVYWCT------ATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGV 224
N + D G+Y+CT A + G+ +S V + T P + P SG +
Sbjct: 86 NNLRAEDTGIYYCTRGGAVGAMDYWGQGTSVTVSSATTTAPSVYPLVPGCSDTSGSSVTL 145
Query: 225 QCLVTKGDP-PLTISW----LKNGLPILSAM 250
CLV P P+T+ W L +G+ +S++
Sbjct: 146 GCLVKGYFPEPVTVKWNYGALSSGVRTVSSV 176
>pdb|1M71|B Chain B, Crystal Structure Of A Monoclonal Fab Specific For
Shigella Flexneri Y Lipopolysaccharide
pdb|1M7D|B Chain B, Crystal Structure Of A Monoclonal Fab Specific For
Shigella Flexneri Y Lipopolysaccharide Complexed With A
Trisaccharide
pdb|1M7I|B Chain B, Crystal Structure Of A Monoclonal Fab Specific For
Shigella Flexneri Y Lipopolysaccharide Complexed With A
Pentasaccharide
Length = 220
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 44/177 (24%), Positives = 71/177 (40%), Gaps = 33/177 (18%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKN---RIGEA 57
+QPG + L C+A+G +P + W +A R ++ N E+
Sbjct: 12 VQPGGSMKLSCVASGFTFSNYWMEWVRQSPEKGLEW------VAEIRLKSNNYATHYAES 65
Query: 58 RVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT------ATNKQGRSSSQNVHISVT 111
+ ++R + L N + D G+Y+CT A + G+ +S V + T
Sbjct: 66 VKGRFTISRDDS--KSSVYLQMNNLRAEDTGIYYCTRGGAVGAMDYWGQGTSVTVSSATT 123
Query: 112 GAPFVRPMG-NVSAIAGEPLYLGCPVAGYPIESIT--WQKGVQQLPLNRRQKVFPNG 165
AP V P+ S +G + LGC V GY E +T W G + V +G
Sbjct: 124 TAPSVYPLVPGCSDTSGSSVTLGCLVKGYFPEPVTVKWNYGALSSGVRTVSSVLQSG 180
Score = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 41/91 (45%), Gaps = 11/91 (12%)
Query: 171 NVQKDHDRGVYWCT------ATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGV 224
N + D G+Y+CT A + G+ +S V + T P + P SG +
Sbjct: 86 NNLRAEDTGIYYCTRGGAVGAMDYWGQGTSVTVSSATTTAPSVYPLVPGCSDTSGSSVTL 145
Query: 225 QCLVTKGDP-PLTISW----LKNGLPILSAM 250
CLV P P+T+ W L +G+ +S++
Sbjct: 146 GCLVKGYFPEPVTVKWNYGALSSGVRTVSSV 176
>pdb|1KEG|H Chain H, Antibody 64m-2 Fab Complexed With Dtt(6-4)tt
Length = 220
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 43/160 (26%), Positives = 63/160 (39%), Gaps = 33/160 (20%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQQ 61
+PG V + C A+G P + W YP D N+ G+A++
Sbjct: 13 RPGASVKMSCKASGYSFTSFWMHWVKQRPGQGLEWIGTIYPGNSDTSYNQKFKGKAKLT- 71
Query: 62 LPLNRRQKVFPNGTLLIE-NVQKDHDRGVYWCT--------ATNKQGRSSSQNVHISVTG 112
V T +E + + D VY+CT A + G+ +S V + T
Sbjct: 72 -------AVTSASTAYMEVSSLTNEDSAVYYCTRRSGYKYYALDYWGQGTSVTVSSAKTT 124
Query: 113 APFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 125 APSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 164
>pdb|2XY2|A Chain A, Crystal Structure Of Ncam2 Ig1-2
Length = 189
Score = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 38/131 (29%), Positives = 57/131 (43%), Gaps = 15/131 (11%)
Query: 118 PMGNVSAIAGEPLYLGCPVAGYPIESITWQ--KGVQQLPLNRR--QKVFPNGTLLIENVQ 173
+ V GE + C G P ESI W +G + + R QK L I N
Sbjct: 8 SLSKVELSVGESKFFTCTAIGEP-ESIDWYNPQGEKIISTQRVVVQKEGVRSRLTIYNAN 66
Query: 174 KDHDRGVYWCTATNKQGRSSSQNVHISV----TVPPKIAPFEFQPDLHSGDRAGVQCLVT 229
+ D G+Y C AT+ +G++ V + + T ++P EF+ G+ A V C V+
Sbjct: 67 IE-DAGIYRCQATDAKGQTQEATVVLEIYQKLTFREVVSPQEFK----QGEDAEVVCRVS 121
Query: 230 KGDPPLTISWL 240
P +SWL
Sbjct: 122 SSPAP-AVSWL 131
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/134 (21%), Positives = 53/134 (39%), Gaps = 18/134 (13%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPN 73
L G C A G P +D Y G++ + R+ VQ+ + R ++ N
Sbjct: 14 LSVGESKFFTCTAIGEPES-----IDWYNPQGEKIISTQRVV---VQKEGVRSRLTIY-N 64
Query: 74 GTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSAIA-GEPLYL 132
+ D G+Y C AT+ +G++ V + + R + + GE +
Sbjct: 65 ANI--------EDAGIYRCQATDAKGQTQEATVVLEIYQKLTFREVVSPQEFKQGEDAEV 116
Query: 133 GCPVAGYPIESITW 146
C V+ P +++W
Sbjct: 117 VCRVSSSPAPAVSW 130
>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 = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 52/195 (26%), Positives = 76/195 (38%), Gaps = 40/195 (20%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNP P + W +G + ++RIG +V+ + +L++E
Sbjct: 27 VKFRCPAGGNPMPTMRWLKNGKEF-----KQEHRIGGYKVRN----------QHWSLIME 71
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V D+G Y C N+ G S + H+ V RP+ N S + G +
Sbjct: 72 SVVPS-DKGNYTCVVENEYG-SINHTYHLDVVERSRHRPILQAGLPANASTVVGGDVEFV 129
Query: 134 CPVAGYPIESITWQKGVQQ---------LPLNRRQKVFPNGT-------LLIENVQKDHD 177
C V I W K V++ LP + K T L I NV + D
Sbjct: 130 CKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFE-D 188
Query: 178 RGVYWCTATNKQGRS 192
G Y C A N G S
Sbjct: 189 AGEYTCLAGNSIGIS 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 = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 52/195 (26%), Positives = 76/195 (38%), Gaps = 40/195 (20%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNP P + W +G + ++RIG +V+ + +L++E
Sbjct: 29 VKFRCPAGGNPMPTMRWLKNGKEF-----KQEHRIGGYKVRN----------QHWSLIME 73
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V D+G Y C N+ G S + H+ V RP+ N S + G +
Sbjct: 74 SVVPS-DKGNYTCVVENEYG-SINHTYHLDVVERSRHRPILQAGLPANASTVVGGDVEFV 131
Query: 134 CPVAGYPIESITWQKGVQQ---------LPLNRRQKVFPNGT-------LLIENVQKDHD 177
C V I W K V++ LP + K T L I NV + D
Sbjct: 132 CKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFE-D 190
Query: 178 RGVYWCTATNKQGRS 192
G Y C A N G S
Sbjct: 191 AGEYTCLAGNSIGIS 205
>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 = 41.2 bits (95), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 52/195 (26%), Positives = 76/195 (38%), Gaps = 40/195 (20%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNP P + W + G + ++RIG +V+ + +L++E
Sbjct: 28 VKFRCPAGGNPMPTMRWLKN-----GKEFKQEHRIGGYKVRN----------QHWSLIME 72
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V D+G Y C N+ G S + H+ V RP+ N S + G +
Sbjct: 73 SVVPS-DKGNYTCVVENEYG-SINHTYHLDVVERSPHRPILQAGLPANASTVVGGDVEFV 130
Query: 134 CPVAGYPIESITWQKGVQQ---------LPLNRRQKVFPNGT-------LLIENVQKDHD 177
C V I W K V++ LP + K T L I NV + D
Sbjct: 131 CKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFE-D 189
Query: 178 RGVYWCTATNKQGRS 192
G Y C A N G S
Sbjct: 190 AGEYTCLAGNSIGIS 204
>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 = 40.8 bits (94), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 52/195 (26%), Positives = 76/195 (38%), Gaps = 40/195 (20%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNP P + W + G + ++RIG +V+ + +L++E
Sbjct: 29 VKFRCPAGGNPMPTMRWLKN-----GKEFKQEHRIGGYKVRN----------QHWSLIME 73
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V D+G Y C N+ G S + H+ V RP+ N S + G +
Sbjct: 74 SVVPS-DKGNYTCVVENEYG-SINHTYHLDVVERSPHRPILQAGLPANASTVVGGDVEFV 131
Query: 134 CPVAGYPIESITWQKGVQQ---------LPLNRRQKVFPNGT-------LLIENVQKDHD 177
C V I W K V++ LP + K T L I NV + D
Sbjct: 132 CKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFE-D 190
Query: 178 RGVYWCTATNKQGRS 192
G Y C A N G S
Sbjct: 191 AGEYTCLAGNSIGIS 205
>pdb|4AM0|A Chain A, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
pdb|4AM0|C Chain C, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
pdb|4AM0|E Chain E, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
pdb|4AM0|H Chain H, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
Length = 217
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 45/173 (26%), Positives = 65/173 (37%), Gaps = 32/173 (18%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRH---ENKNRIGEARVQQLPLNRRQ 68
+ +QPG V + C A+G + Y + ++ + IG +N
Sbjct: 10 ELVQPGASVKMSCKASG-------YTFSSYWINWEKQRPGKGLEWIGNIYPGSGTVNYDD 62
Query: 69 KVFPNGTLLIENVQ----------KDHDRGVYWCT-----ATNKQGRSSSQNVHISVTGA 113
K TL I+ D VY+CT A + G+ +S V + T
Sbjct: 63 KFKSKATLTIDTSSNTAYMQLSSLTSEDSAVYYCTRGGSHAMDYWGQGTSVTVSSAKTTP 122
Query: 114 PFVRPMGNVSA-IAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
P V P+ SA G + LGC V GY ES +TW G L+ FP
Sbjct: 123 PSVYPLAPGSADTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 171
>pdb|2L7U|A Chain A, Structure Of Cel-Pep-Rage V Domain Complex
Length = 105
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 42/94 (44%), Gaps = 14/94 (14%)
Query: 121 NVSAIAGEPLYLGCPVA-GYPIESITWQKGVQQL------------PLNRRQKVFPNGTL 167
N++A GEPL L C A P + + W+ + P + +V PNG+L
Sbjct: 5 NITARIGEPLVLKCKGAPKKPPQRLEWKLNTGRTEAWKVLSPQGGGPWDSVARVLPNGSL 64
Query: 168 LIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV 201
+ V D G++ C A N+ G+ + N + V
Sbjct: 65 FLPAV-GIQDEGIFRCQAMNRNGKETKSNYRVRV 97
Score = 36.6 bits (83), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 44/107 (41%), Gaps = 17/107 (15%)
Query: 13 TLQPGPPVSLKCI-ATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQ----LPLNRR 67
T + G P+ LKC A P + WKL N R +V P +
Sbjct: 7 TARIGEPLVLKCKGAPKKPPQRLEWKL-----------NTGRTEAWKVLSPQGGGPWDSV 55
Query: 68 QKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP 114
+V PNG+L + V D G++ C A N+ G+ + N + V P
Sbjct: 56 ARVLPNGSLFLPAV-GIQDEGIFRCQAMNRNGKETKSNYRVRVYQIP 101
>pdb|2E5E|A Chain A, Solution Structure Of Variable-Type Domain Of Human
Receptor For Advanced Glycation Endproducts
Length = 101
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 42/94 (44%), Gaps = 14/94 (14%)
Query: 121 NVSAIAGEPLYLGCPVA-GYPIESITWQKGVQQL------------PLNRRQKVFPNGTL 167
N++A GEPL L C A P + + W+ + P + +V PNG+L
Sbjct: 5 NITARIGEPLVLKCKGAPKKPPQRLEWKLNTGRTEAWKVLSPQGGGPWDSVARVLPNGSL 64
Query: 168 LIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV 201
+ V D G++ C A N+ G+ + N + V
Sbjct: 65 FLPAV-GIQDEGIFRCQAMNRNGKETKSNYRVRV 97
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 44/107 (41%), Gaps = 17/107 (15%)
Query: 13 TLQPGPPVSLKCI-ATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQ----LPLNRR 67
T + G P+ LKC A P + WKL N R +V P +
Sbjct: 7 TARIGEPLVLKCKGAPKKPPQRLEWKL-----------NTGRTEAWKVLSPQGGGPWDSV 55
Query: 68 QKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP 114
+V PNG+L + V D G++ C A N+ G+ + N + V P
Sbjct: 56 ARVLPNGSLFLPAV-GIQDEGIFRCQAMNRNGKETKSNYRVRVYQIP 101
>pdb|2Q8A|H Chain H, Structure Of The Malaria Antigen Ama1 In Complex With A
Growth- Inhibitory Antibody
Length = 210
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 44/171 (25%), Positives = 65/171 (38%), Gaps = 33/171 (19%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAGDRHENKNRI-G 55
+ L+PG V L CI +G P + W ++D A D E + G
Sbjct: 10 ELLKPGASVKLSCIVSGFKIKDTSMHWVKQRPEQGLEWIGRIDP---ANDNSEYDPKFQG 66
Query: 56 EARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPF 115
+A + N L + D VY+CT ++ G+ ++ V + T P
Sbjct: 67 KATI-------TADTSSNTAYLQLSSLTSEDTAVYYCTLSHFWGQGTTLTVSSAKTTPPS 119
Query: 116 VRPMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
V P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 120 VYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 166
Score = 35.4 bits (80), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 39/167 (23%), Positives = 68/167 (40%), Gaps = 36/167 (21%)
Query: 105 NVHISVTGAPFVRPMGNVSAIAGEPLYLGCPVAGYPIE--SITW-----QKGVQQL---- 153
V + +GA ++P G + L C V+G+ I+ S+ W ++G++ +
Sbjct: 1 EVQLQQSGAELLKP--------GASVKLSCIVSGFKIKDTSMHWVKQRPEQGLEWIGRID 52
Query: 154 PLNRRQKVFP--------------NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHI 199
P N + P N L + D VY+CT ++ G+ ++ V
Sbjct: 53 PANDNSEYDPKFQGKATITADTSSNTAYLQLSSLTSEDTAVYYCTLSHFWGQGTTLTVSS 112
Query: 200 SVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDPP--LTISWLKNGL 244
+ T PP + P +G + CLV KG P +T++W L
Sbjct: 113 AKTTPPSVYPLAPGCGDTTGSSVTLGCLV-KGYFPESVTVTWNSGSL 158
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 52/195 (26%), Positives = 76/195 (38%), Gaps = 40/195 (20%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNP P + W + G + ++RIG +V+ + +L++E
Sbjct: 29 VKFRCPAGGNPMPTMRWLKN-----GKEFKQEHRIGGYKVRN----------QHWSLIME 73
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V D+G Y C N+ G S + H+ V RP+ N S + G +
Sbjct: 74 SVVPS-DKGNYTCVVENEYG-SINHTYHLDVVERWPHRPILQAGLPANASTVVGGDVEFV 131
Query: 134 CPVAGYPIESITWQKGVQQ---------LPLNRRQKVFPNGT-------LLIENVQKDHD 177
C V I W K V++ LP + K T L I NV + D
Sbjct: 132 CKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFE-D 190
Query: 178 RGVYWCTATNKQGRS 192
G Y C A N G S
Sbjct: 191 AGEYTCLAGNSIGIS 205
>pdb|2Q8B|H Chain H, Structure Of The Malaria Antigen Ama1 In Complex With A
Growth- Inhibitory Antibody
Length = 210
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 44/171 (25%), Positives = 65/171 (38%), Gaps = 33/171 (19%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAGDRHENKNRI-G 55
+ L+PG V L CI +G P + W ++D A D E + G
Sbjct: 10 ELLRPGASVKLSCIVSGFKIKDTSMHWVKQRPEQGLEWIGRIDP---ANDNSEYDPKFQG 66
Query: 56 EARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPF 115
+A + N L + D VY+CT ++ G+ ++ V + T P
Sbjct: 67 KATI-------TADTSSNTAYLQLSSLTSEDTAVYYCTLSHFWGQGTTLTVSSAKTTPPS 119
Query: 116 VRPMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
V P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 120 VYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 166
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 40/167 (23%), Positives = 68/167 (40%), Gaps = 36/167 (21%)
Query: 105 NVHISVTGAPFVRPMGNVSAIAGEPLYLGCPVAGYPIE--SITW-----QKGVQQL---- 153
V + +GA +RP G + L C V+G+ I+ S+ W ++G++ +
Sbjct: 1 EVQLQQSGAELLRP--------GASVKLSCIVSGFKIKDTSMHWVKQRPEQGLEWIGRID 52
Query: 154 PLNRRQKVFP--------------NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHI 199
P N + P N L + D VY+CT ++ G+ ++ V
Sbjct: 53 PANDNSEYDPKFQGKATITADTSSNTAYLQLSSLTSEDTAVYYCTLSHFWGQGTTLTVSS 112
Query: 200 SVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDPP--LTISWLKNGL 244
+ T PP + P +G + CLV KG P +T++W L
Sbjct: 113 AKTTPPSVYPLAPGCGDTTGSSVTLGCLV-KGYFPESVTVTWNSGSL 158
>pdb|3OJM|B Chain B, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr2b Harboring P253r Apert Mutation
Length = 231
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 54/209 (25%), Positives = 83/209 (39%), Gaps = 45/209 (21%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNP P + W +G + ++RIG +V R Q + +L++E
Sbjct: 37 VKFRCPAGGNPMPTMRWLKNGKEF-----KQEHRIGGYKV------RNQ----HWSLIME 81
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V D+G Y C N+ G S + H+ V RP+ N S + G +
Sbjct: 82 SVVPS-DKGNYTCVVENEYG-SINHTYHLDVVERSRHRPILQAGLPANASTVVGGDVEFV 139
Query: 134 CPVAGYPIESITWQKGVQQ---------LPLNRRQKVFPNGTLLIENVQ-------KDHD 177
C V I W K V++ LP KV + + N + + D
Sbjct: 140 CKVYSDAQPHIQWIKHVEKNGSKYGPDGLPY---LKVLKHSGINSSNAEVLALFNVTEAD 196
Query: 178 RGVYWCTATNKQGRSSSQNVHISVTVPPK 206
G Y C +N G++ N +TV PK
Sbjct: 197 AGEYICKVSNYIGQA---NQSAWLTVLPK 222
>pdb|3CLF|H Chain H, Hiv Neutralizing Monoclonal Antibody Yz23
Length = 220
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 40/160 (25%), Positives = 63/160 (39%), Gaps = 29/160 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A+G P + W YP GD N+ G+A
Sbjct: 10 ELVRPGASVKMSCKASGYRFTSYNMHWVKQTPRQGLEWIGAIYPGNGDTSYNQKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT------ATNKQGRSSSQNVHISVTG 112
+ K + + ++ + D VY+C + G+ S+ V + T
Sbjct: 70 LT------VDKSSSTAYMQLSSLTSE-DSAVYFCARGRLSLGFDYWGQGSTLTVSSAKTT 122
Query: 113 APFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 123 APSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
>pdb|3CLE|H Chain H, Hiv Neutralizing Monoclonal Antibody Yz23
Length = 220
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 40/160 (25%), Positives = 63/160 (39%), Gaps = 29/160 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A+G P + W YP GD N+ G+A
Sbjct: 10 ELVRPGASVKMSCKASGYRFTSYNMHWVKQTPRQGLEWIGAIYPGNGDTSYNQKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT------ATNKQGRSSSQNVHISVTG 112
+ K + + ++ + D VY+C + G+ S+ V + T
Sbjct: 70 LT------VDKSSSTAYMQLSSLTSE-DSAVYFCARGRLSLGFDYWGQGSTLTVSSAKTT 122
Query: 113 APFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 123 APSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
>pdb|1FOR|H Chain H, Structure Determination Of An Fab Fragment That
Neutralizes Human Rhinovirus And Analysis Of The
Fab-Virus Complex
Length = 219
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 41/161 (25%), Positives = 63/161 (39%), Gaps = 30/161 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A+G P + W YP GD N G+A
Sbjct: 10 ELVRPGSSVKISCKASGYAFSSFWVNWVKQRPGQGLEWIGQIYPGDGDNKYNGKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-------ATNKQGRSSSQNVHISVT 111
+ K + + ++ + D VY+C A + G+ +S V + T
Sbjct: 70 L------TADKSSTTAYMQLYSLTSE-DSAVYFCARSGNYPYAMDYWGQGTSVTVSSAKT 122
Query: 112 GAPFVRPMGNV-SAIAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 123 TAPSVYPLAPVCGGTTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>pdb|1E4X|I Chain I, Crossreactive Binding Of A Circularized Peptide To An
Anti-Tgfalpha Antibody Fab-Fragment
Length = 217
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/160 (26%), Positives = 63/160 (39%), Gaps = 33/160 (20%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNR-------IGEARVQQLPL 64
+ ++PGP V L C A+G + Y + H K R IGE
Sbjct: 10 ELVKPGPSVKLSCKASG-------FTFTNYWM----HWVKQRPGQGLEWIGEILPSNGRT 58
Query: 65 NRRQKVFPNGTLLIENVQK----------DHDRGVYWC--TATNKQGRSSSQNVHISVTG 112
N +K TL ++ D VY+C + ++ G+ ++ V + T
Sbjct: 59 NYNEKFKTKATLTVDKSSNTAYMQLSSLTSEDSAVYYCARSPSDYWGQGTTLTVSSAKTT 118
Query: 113 APFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 119 APSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 158
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 41/159 (25%), Positives = 64/159 (40%), Gaps = 28/159 (17%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A+G P + W YP +G+ N+ G+A
Sbjct: 10 ELVRPGASVKISCKASGYTFTDYYIHWVKQRPGEGLEWIGWIYPGSGNTKYNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-----ATNKQGRSSSQNVHISVTGA 113
+ + + +L E D VY+C A + G+ +S V + T A
Sbjct: 70 LT-VDTSSSTAYMQLSSLTSE------DSAVYFCARGGKFAMDYWGQGTSVTVSSAKTTA 122
Query: 114 PFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
P V P+ V G + LGC V GY E ++TW G
Sbjct: 123 PSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 161
>pdb|2IFG|A Chain A, Structure Of The Extracellular Segment Of Human Trka In
Complex With Nerve Growth Factor
pdb|2IFG|B Chain B, Structure Of The Extracellular Segment Of Human Trka In
Complex With Nerve Growth Factor
Length = 347
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 33/126 (26%), Positives = 52/126 (41%), Gaps = 11/126 (8%)
Query: 121 NVSAIAGEPLYLGCPVAGYPIESITW-QKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRG 179
N S G+ + L C V G +E W ++Q + P+ L + NV D +R
Sbjct: 167 NASVDVGDDVLLRCQVEGRGLEQAGWILTELEQSATVMKSGGLPSLGLTLANVTSDLNRK 226
Query: 180 VYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCL--VTKGDPPLTI 237
C A N GR+ +V ++V+ P + LH+ C+ G P ++
Sbjct: 227 NVTCWAENDVGRAEV-SVQVNVSFPASV-------QLHTAVEMHHWCIPFSVDGQPAPSL 278
Query: 238 SWLKNG 243
WL NG
Sbjct: 279 RWLFNG 284
>pdb|1DJS|A Chain A, Ligand-binding Portion Of Fibroblast Growth Factor
Receptor 2 In Complex With Fgf1
Length = 216
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 54/195 (27%), Positives = 75/195 (38%), Gaps = 40/195 (20%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNP P W + G + ++RIG +V R Q + +L+ E
Sbjct: 29 VKFRCPAGGNPXPTXRWLKN-----GKEFKQEHRIGGYKV------RNQ----HWSLIXE 73
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V D+G Y C N+ G S + H+ V RP+ N S + G +
Sbjct: 74 SVVPS-DKGNYTCVVENEYG-SINHTYHLDVVERSPHRPILQAGLPANASTVVGGDVEFV 131
Query: 134 CPVAGYPIESITWQKGVQQ---------LPLNRRQKVFPNGT-------LLIENVQKDHD 177
C V I W K V++ LP + K T L I NV + D
Sbjct: 132 CKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFE-D 190
Query: 178 RGVYWCTATNKQGRS 192
G Y C A N G S
Sbjct: 191 AGEYTCLAGNSIGIS 205
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 54/206 (26%), Positives = 82/206 (39%), Gaps = 39/206 (18%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNP P + W + G + ++RIG +V R Q + +L++E
Sbjct: 37 VKFRCPAGGNPMPTMRWLKN-----GKEFKQEHRIGGYKV------RNQ----HWSLIME 81
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V D+G Y C N+ G S + H+ V RP+ N S + G +
Sbjct: 82 SVVPS-DKGNYTCVVENEYG-SINHTYHLDVVERSPHRPILQAGLPANASTVVGGDVEFV 139
Query: 134 CPVAGYPIESITWQKGVQQ---------LPLNRRQK----VFPNGTLLIENVQKDHDRGV 180
C V I W K V++ LP + K N +L + D G
Sbjct: 140 CKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKHSGINSSNAEVLALFNVTEADAGE 199
Query: 181 YWCTATNKQGRSSSQNVHISVTVPPK 206
Y C +N G++ N +TV PK
Sbjct: 200 YICKVSNYIGQA---NQSAWLTVLPK 222
>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 = 38.5 bits (88), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 43/173 (24%), Positives = 63/173 (36%), Gaps = 32/173 (18%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRH---ENKNRIGEARVQQLPLNRRQ 68
+ +QPG V + C A+G + Y + ++ + IG +N
Sbjct: 10 ELVQPGASVKMSCKASG-------YTFSSYWINWEKQRPGKGLEWIGNIYPGSGTVNYDD 62
Query: 69 KVFPNGTLLIENVQK----------DHDRGVYWCT-----ATNKQGRSSSQNVHISVTGA 113
K TL I+ D VY+CT A + G+ +S V + T
Sbjct: 63 KFKSKATLTIDTSSNTAYMQLSSLTSEDSAVYYCTRGGSHAMDYWGQGTSVTVSSAKTTP 122
Query: 114 PFVRPMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
P V P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 123 PSVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 171
>pdb|2WWK|O Chain O, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig F17r
Mutant Complex
Length = 109
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 33/75 (44%), Gaps = 2/75 (2%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTL--LIENV 172
F+R V ++G L C V G P + W+KG QQL + R +G L+
Sbjct: 17 FLRRPRPVRVVSGAEAELKCVVLGEPPPVVVWEKGGQQLAASERLSFPADGAEHGLLLTA 76
Query: 173 QKDHDRGVYWCTATN 187
D GVY C A N
Sbjct: 77 ALPTDAGVYVCRARN 91
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 28/82 (34%), Gaps = 21/82 (25%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTL 76
G LKC+ G P P + W+ G QQL + R +G
Sbjct: 29 GAEAELKCVVLGEPPPVVVWEKGG-------------------QQLAASERLSFPADGAE 69
Query: 77 --LIENVQKDHDRGVYWCTATN 96
L+ D GVY C A N
Sbjct: 70 HGLLLTAALPTDAGVYVCRARN 91
>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 = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 38/154 (24%), Positives = 61/154 (39%), Gaps = 23/154 (14%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V L C A G P + W +P + N+ G+A
Sbjct: 10 ELVRPGASVKLSCKALGYIFTDYEIHWVKQTPVHGLEWIGGIHPGSSGTAYNQKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRP 118
+ K + + ++ + D VY+CT + G+ + V + T AP V P
Sbjct: 70 L------TADKSSTTAFMELSSLTSE-DSAVYYCTRKDYWGQGTLVTVSAAKTTAPSVYP 122
Query: 119 MGNVS-AIAGEPLYLGCPVAGYPIE--SITWQKG 149
+ V G + LGC V GY E ++TW G
Sbjct: 123 LVPVCGGTTGSSVTLGCLVKGYFPEPVTLTWNSG 156
Score = 32.0 bits (71), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 36/160 (22%), Positives = 53/160 (33%), Gaps = 34/160 (21%)
Query: 111 TGAPFVRPMGNVSAIAGEPLYLGCPVAGY-------------PIESITWQKGVQ--QLPL 155
+GA VRP G + L C GY P+ + W G+
Sbjct: 7 SGAELVRP--------GASVKLSCKALGYIFTDYEIHWVKQTPVHGLEWIGGIHPGSSGT 58
Query: 156 NRRQKVFPNGTLLIENVQK----------DHDRGVYWCTATNKQGRSSSQNVHISVTVPP 205
QK TL + D VY+CT + G+ + V + T P
Sbjct: 59 AYNQKFKGKATLTADKSSTTAFMELSSLTSEDSAVYYCTRKDYWGQGTLVTVSAAKTTAP 118
Query: 206 KIAPFEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
+ P +G + CLV P P+T++W L
Sbjct: 119 SVYPLVPVCGGTTGSSVTLGCLVKGYFPEPVTLTWNSGSL 158
>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 = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 40/82 (48%), Gaps = 4/82 (4%)
Query: 127 GEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQ--KVF--PNGTLLIENVQKDHDRGVYW 182
G + + C V YP +I+W + Q LP + K++ P+ + L ++D G Y
Sbjct: 33 GNQVNITCEVFAYPSATISWFRDGQLLPSSNYSNIKIYNTPSASYLEVTPDSENDFGNYN 92
Query: 183 CTATNKQGRSSSQNVHISVTVP 204
CTA N+ G+ S + + + P
Sbjct: 93 CTAVNRIGQESLEFILVQADTP 114
Score = 31.2 bits (69), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 38/92 (41%), Gaps = 15/92 (16%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTL 76
G V++ C P+ ISW DG L + N ++ P +V P+
Sbjct: 33 GNQVNITCEVFAYPSATISWFRDGQLLPSSNYSN------IKIYNTPSASYLEVTPD--- 83
Query: 77 LIENVQKDHDRGVYWCTATNKQGRSSSQNVHI 108
++D G Y CTA N+ G+ S + + +
Sbjct: 84 ------SENDFGNYNCTAVNRIGQESLEFILV 109
>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 = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 33/75 (44%), Gaps = 5/75 (6%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTL--LIENV 172
F RP+ VS E L C V G P + W+KG QQL + R +G L+
Sbjct: 20 FPRPVRVVSGAEAE---LKCVVLGEPPPVVVWEKGGQQLAASERLSFPADGAEHGLLLTA 76
Query: 173 QKDHDRGVYWCTATN 187
D GVY C A N
Sbjct: 77 ALPTDAGVYVCRARN 91
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 28/82 (34%), Gaps = 21/82 (25%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTL 76
G LKC+ G P P + W+ G QQL + R +G
Sbjct: 29 GAEAELKCVVLGEPPPVVVWEKGG-------------------QQLAASERLSFPADGAE 69
Query: 77 --LIENVQKDHDRGVYWCTATN 96
L+ D GVY C A N
Sbjct: 70 HGLLLTAALPTDAGVYVCRARN 91
>pdb|3KNB|B Chain B, Crystal Structure Of The Titin C-Terminus In Complex With
Obscurin- Like 1
Length = 107
Score = 37.7 bits (86), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/75 (36%), Positives = 33/75 (44%), Gaps = 5/75 (6%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTL--LIENV 172
F RP+ VS E L C V G P + W+KG QQL + R +G L+
Sbjct: 19 FPRPVRVVSGAEAE---LKCVVLGEPPPVVVWEKGGQQLAASERLSFPADGAEHGLLLTA 75
Query: 173 QKDHDRGVYWCTATN 187
D GVY C A N
Sbjct: 76 ALPTDAGVYVCRARN 90
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 28/82 (34%), Gaps = 21/82 (25%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTL 76
G LKC+ G P P + W+ G QQL + R +G
Sbjct: 28 GAEAELKCVVLGEPPPVVVWEKGG-------------------QQLAASERLSFPADGAE 68
Query: 77 --LIENVQKDHDRGVYWCTATN 96
L+ D GVY C A N
Sbjct: 69 HGLLLTAALPTDAGVYVCRARN 90
>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 = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 64/160 (40%), Gaps = 32/160 (20%)
Query: 15 QPGPPVSLKCIATGNPTPH-------------ISWKLDGYPLAGDRHENKNRIGEARVQQ 61
+PG V L C A+G + W + YP G + ++ G+A +
Sbjct: 13 RPGASVKLSCKASGYTFTDYYINWMKQRTGQGLEWIGEIYPGVGTTYYDEKFKGKATLTA 72
Query: 62 LPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT---------ATNKQGRSSSQNVHISVTG 112
+R + + + ++ + D VY+C A + G+ +S V + T
Sbjct: 73 DKSSR------SAYMQLSSLTSE-DSAVYFCARRTVTMGRYAMDYWGQGTSVTVSSAKTT 125
Query: 113 APFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 126 APSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 165
>pdb|2RJM|A Chain A, 3ig Structure Of Titin Domains I67-I69 E-To-A Mutated
Variant
Length = 284
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 60/245 (24%), Positives = 90/245 (36%), Gaps = 26/245 (10%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P K + L G + KC TG I+W D + R G L
Sbjct: 6 PFFDLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREI---------RPGGNYKMTL 56
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP-FVRPMGN 121
N TL + V K D G Y C A+N G+ S + + V P F++ +
Sbjct: 57 VEN-------TATLTVLKVTKG-DAGQYTCYASNVAGKDSC-SAQLGVQAPPRFIKKLEP 107
Query: 122 VSAIA-GEPLYLGCPVAGYPIESITWQKG---VQQLPLNRRQKVFPNGTLLIENVQKDHD 177
+ E C + G P + W K +Q+ R V L + N+ + D
Sbjct: 108 SRIVKQDEHTRYECKIGGSPEIKVLWYKDETEIQESSKFRMSFVESVAVLEMYNLSVE-D 166
Query: 178 RGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDPPLTI 237
G Y C A N S+S + + V PP + G ++C + +G PP +
Sbjct: 167 SGDYTCEAHNAA-GSASSSTSLKVKEPPVFRKKPHPVETLKGADVHLECEL-QGTPPFQV 224
Query: 238 SWLKN 242
SW K+
Sbjct: 225 SWHKD 229
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 59/139 (42%), Gaps = 7/139 (5%)
Query: 56 EARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPF 115
E +Q+ R V L + N+ + D G Y C A N S+S + + V P
Sbjct: 137 ETEIQESSKFRMSFVESVAVLEMYNLSVE-DSGDYTCEAHNAA-GSASSSTSLKVKEPPV 194
Query: 116 VRPMGN-VSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLL---IEN 171
R + V + G ++L C + G P ++W K ++L ++ K+ L I N
Sbjct: 195 FRKKPHPVETLKGADVHLECELQGTPPFQVSWHKDKRELRSGKKYKIMSENFLTSIHILN 254
Query: 172 VQKDHDRGVYWCTATNKQG 190
V D G Y C A+N G
Sbjct: 255 VD-SADIGEYQCKASNDVG 272
>pdb|2RIK|A Chain A, I-Band Fragment I67-I69 From Titin
Length = 284
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 59/139 (42%), Gaps = 7/139 (5%)
Query: 56 EARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPF 115
E +Q+ R V L + N+ + D G Y C A N S+S + + V P
Sbjct: 137 ETEIQESSKFRMSFVESVAVLEMYNLSVE-DSGDYTCEAHNAA-GSASSSTSLKVKEPPV 194
Query: 116 VRPMGN-VSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLL---IEN 171
R + V + G ++L C + G P ++W K ++L ++ K+ L I N
Sbjct: 195 FRKKPHPVETLKGADVHLECELQGTPPFQVSWHKDKRELRSGKKYKIMSENFLTSIHILN 254
Query: 172 VQKDHDRGVYWCTATNKQG 190
V D G Y C A+N G
Sbjct: 255 VD-SADIGEYQCKASNDVG 272
Score = 36.6 bits (83), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 60/245 (24%), Positives = 90/245 (36%), Gaps = 26/245 (10%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P K + L G + KC TG I+W D + R G L
Sbjct: 6 PFFDLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREI---------RPGGNYKMTL 56
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP-FVRPMGN 121
N TL + V K D G Y C A+N G+ S + + V P F++ +
Sbjct: 57 VEN-------TATLTVLKVTKG-DAGQYTCYASNVAGKDSC-SAQLGVQEPPRFIKKLEP 107
Query: 122 VSAIA-GEPLYLGCPVAGYPIESITWQKG---VQQLPLNRRQKVFPNGTLLIENVQKDHD 177
+ E C + G P + W K +Q+ R V L + N+ + D
Sbjct: 108 SRIVKQDEHTRYECKIGGSPEIKVLWYKDETEIQESSKFRMSFVESVAVLEMYNLSVE-D 166
Query: 178 RGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDPPLTI 237
G Y C A N S+S + + V PP + G ++C + +G PP +
Sbjct: 167 SGDYTCEAHNAA-GSASSSTSLKVKEPPVFRKKPHPVETLKGADVHLECEL-QGTPPFQV 224
Query: 238 SWLKN 242
SW K+
Sbjct: 225 SWHKD 229
>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 = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 40/160 (25%), Positives = 62/160 (38%), Gaps = 31/160 (19%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRI---------GEARVQQLPL 64
++PG + L C A+G + + ++ RH R+ G Q +
Sbjct: 12 VKPGGFLKLSCAASG-------FTFSSFGMSWVRHTPDKRLEWVATISNGGGYTYYQDSV 64
Query: 65 NRRQKVFPNG---TLLIENVQ-KDHDRGVYWCTATNKQ--------GRSSSQNVHISVTG 112
R + + TL +E K D G+Y+C + GR + V + T
Sbjct: 65 KGRFTISRDNAKNTLFLEMTSLKSEDAGLYYCARRERYDEKGFAYWGRGTLVTVSAAKTT 124
Query: 113 APFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 125 APSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 164
>pdb|2EO9|A Chain A, Solution Structure Of The Fifth Ig-Like Domain From Human
Roundabout Homo1
Length = 118
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 43/98 (43%), Gaps = 20/98 (20%)
Query: 22 LKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIENV 81
L C+ATG+P P I W+ DG ++ ++R++QL NG L I
Sbjct: 28 LSCVATGSPVPTILWRKDGVLVSTQ---------DSRIKQL---------ENGVLQIRYA 69
Query: 82 QKDHDRGVYWCTATNKQGRSS-SQNVHISVTGAPFVRP 118
K D G Y C A+ G ++ S + + G P P
Sbjct: 70 -KLGDTGRYTCIASTPSGEATWSAYIEVQEFGVPVQPP 106
Score = 36.6 bits (83), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 39/86 (45%), Gaps = 5/86 (5%)
Query: 111 TGAPFVR--PMGNVSAIAGEPLYLGCPVAGYPIESITWQK-GVQQLPLNRRQKVFPNGTL 167
+G P +R P+ A+ G L C G P+ +I W+K GV + R K NG L
Sbjct: 6 SGPPVIRQGPVNQTVAVDGT-FVLSCVATGSPVPTILWRKDGVLVSTQDSRIKQLENGVL 64
Query: 168 LIENVQKDHDRGVYWCTATNKQGRSS 193
I K D G Y C A+ G ++
Sbjct: 65 QIRYA-KLGDTGRYTCIASTPSGEAT 89
>pdb|1PSK|H Chain H, The Crystal Structure Of An Fab Fragment That Binds To The
Melanoma-Associated Gd2 Ganglioside
Length = 209
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 60/149 (40%), Gaps = 11/149 (7%)
Query: 12 QTLQPGPPVSLKCIATGNP----TPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRR 67
+ ++PG V + C +G T H + G L N N G Q+
Sbjct: 10 ELVKPGASVKISCKTSGYTFTKYTMHWVKQSHGKSLEWIGDINPNNGGTNYNQKFKGTAT 69
Query: 68 QKVFPNGTLLIENVQK--DHDRGVYWCTAT--NKQGRSSSQNVHISVTGAPFVRPMGNVS 123
V + T ++ D VY+CT+ + G+ ++ V + T AP V P+ V
Sbjct: 70 LTVHKSSTTAYMELRSLTSEDSAVYYCTSKSFDYWGQGTTLTVSSAKTTAPSVYPLAPVC 129
Query: 124 A-IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 130 GDTTGSAVTLGCLVKGYFPEPVTLTWNSG 158
>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 = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 40/160 (25%), Positives = 61/160 (38%), Gaps = 29/160 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C ATG P + W + P +G H N+ G+A
Sbjct: 10 ELMKPGASVKISCKATGYTFTSYWIEWVKQRPGHGLEWLGEILPGSGYIHYNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT------ATNKQGRSSSQNVHISVTG 112
N + + D VY+C+ A + G+ +S V + T
Sbjct: 70 F-------TTDTSSNTAYMQLSSLTSEDSAVYYCSRALALYAMDYWGQGTSVTVSSAKTT 122
Query: 113 APFVRPMGNVSAIAGEPLY-LGCPVAGYPIE--SITWQKG 149
P V P+ SA + LGC V GY E ++TW G
Sbjct: 123 PPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSG 162
>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 = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 40/159 (25%), Positives = 60/159 (37%), Gaps = 28/159 (17%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNR---IGEARVQQLPLNRRQ 68
+ ++PG V + C A+G + Y + + N IG + N Q
Sbjct: 10 ELVKPGASVKISCKASG-------YSFTDYNINWMKQSNGKSLEWIGVVIPKYGTTNYNQ 62
Query: 69 KVFPNGTLLIE----------NVQKDHDRGVYWCT-----ATNKQGRSSSQNVHISVTGA 113
K TL ++ N D VY+CT + G ++ V + T A
Sbjct: 63 KFQGKATLTVDQSSSTAYIQLNSLTSEDSAVYYCTRFRDVFFDVWGTGTTVTVSSAKTTA 122
Query: 114 PFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
P V P+ V G + LGC V GY E ++TW G
Sbjct: 123 PSVYPLAPVCGGTTGSSVTLGCLVKGYFPEPVTLTWNSG 161
>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 = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 36/129 (27%), Positives = 51/129 (39%), Gaps = 9/129 (6%)
Query: 126 AGEPLYLGCPVAGYPIE-SITWQK--GVQQLPLNRRQKVFPN----GTLLIENVQKDHDR 178
GE + C VAG + I+W G + P +R V N TL I N D D
Sbjct: 16 VGESKFFLCQVAGDAKDKDISWFSPNGEKLSPNQQRISVVWNDDDSSTLTIYNANID-DA 74
Query: 179 GVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDPPLTIS 238
G+Y C T + G S V++ + + G+ A + C V PP TI
Sbjct: 75 GIYKCVVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGEDAVIVCDVVSSLPP-TII 133
Query: 239 WLKNGLPIL 247
W G ++
Sbjct: 134 WKHKGRDVI 142
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 45/114 (39%), Gaps = 5/114 (4%)
Query: 73 NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSAI-AGEPLY 131
+ TL I N D D G+Y C T + G S V++ + + GE
Sbjct: 61 SSTLTIYNANID-DAGIYKCVVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGEDAV 119
Query: 132 LGCPVAGYPIESITWQKGVQQLPLNR--RQKVFPNGTLLIENVQKDHDRGVYWC 183
+ C V +I W+ + + L + R V N L I ++K D G Y C
Sbjct: 120 IVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYLQIRGIKK-TDEGTYRC 172
>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 = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 38/87 (43%), Gaps = 10/87 (11%)
Query: 73 NGTLLIENVQKDHDRGVYWCT-------ATNKQGRSSSQNVHISVTGAPFVRPMGNVSA- 124
N L N K D G+Y+C + G+ +S V + T AP V P+ V
Sbjct: 77 NNLYLQMNSLKSEDTGMYYCARDPLEYYGMDYWGQGTSVAVSSAKTTAPSVYPLAPVCGD 136
Query: 125 IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 137 TTGSSVTLGCLVKGYFPEPVTVTWNSG 163
>pdb|3HNS|H Chain H, Cs-35 Fab Complex With Oligoarabinofuranosyl
Hexasaccharide
pdb|3HNT|H Chain H, Cs-35 Fab Complex With A Linear, Terminal
Oligoarabinofuranosyl Tetrasaccharide From
Lipoarabinomannan
pdb|3HNV|H Chain H, Cs-35 Fab Complex With Oligoarabinofuranosyl
Tetrasaccharide (Branch Part Of Hexasaccharide)
Length = 220
Score = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 43/174 (24%), Positives = 64/174 (36%), Gaps = 31/174 (17%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQQ 61
+PG V + C A+G P + W YP D + + G+A++
Sbjct: 13 RPGTSVKMSCKASGYSFTNYWMHWVKQRPGQGLEWIGSIYPGNSDTNYKQKFKGKAKLT- 71
Query: 62 LPLNRRQKVFPNGTLLIE-NVQKDHDRGVYWCTATNKQ------GRSSSQNVHISVTGAP 114
V T +E N + D VY+CT G+ + V + T AP
Sbjct: 72 -------AVTSASTAYMEVNSLTNEDSAVYYCTRFGNYVPFAYWGQGTLVTVSAATTTAP 124
Query: 115 FVRPMG-NVSAIAGEPLYLGCPVAGYPIESIT--WQKGVQQLPLNRRQKVFPNG 165
V P+ S +G + LGC V GY E +T W G + V +G
Sbjct: 125 SVYPLVPGCSDTSGSSVTLGCLVKGYFPEPVTVKWNYGALSSGVRTVSSVLQSG 178
>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 = 37.0 bits (84), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 37/159 (23%), Positives = 62/159 (38%), Gaps = 28/159 (17%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRHENKNR 53
+ ++PG V L C A+G P + W + YP + ++ +NK
Sbjct: 10 ELVKPGASVKLSCKASGYTFTSSWINWVKQRPGQGLEWIGNVYPGSSSTNYNEKFKNKAT 69
Query: 54 IGEARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA 113
+ + + + + V+KD+ YW G+ + V + T A
Sbjct: 70 LTVDTSSSTAYMQLSSLTSDDSAFYYCVRKDYSWFPYW-------GQGTLVTVSAAKTTA 122
Query: 114 PFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
P V P+ V +G + LGC V GY E ++TW G
Sbjct: 123 PSVYPLAPVCGDTSGSSVTLGCLVKGYFPEPVTLTWNSG 161
>pdb|1SBS|H Chain H, Crystal Structure Of An Anti-Hcg Fab
Length = 222
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 39/161 (24%), Positives = 63/161 (39%), Gaps = 30/161 (18%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
+QPG + L C+A+G +P + W D + + E+
Sbjct: 12 VQPGGSMKLSCVASGFTFSNYWMNWVRQSPEKGLEWVAD---IRLKSNNYATLYAESVKG 68
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT---------ATNKQGRSSSQNVHISVT 111
+ ++R + L N + D G+Y+CT A + G+ +S V + T
Sbjct: 69 RFTISRDDS--KSSVYLQMNNLRAEDTGIYYCTRGAYYRYDYAMDYWGQGTSVTVSSAKT 126
Query: 112 GAPFVRPMGNVSAIAGEPLY-LGCPVAGYPIE--SITWQKG 149
P V P+ SA + LGC V GY E ++TW G
Sbjct: 127 TPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSG 167
>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 = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 45/173 (26%), Positives = 63/173 (36%), Gaps = 33/173 (19%)
Query: 12 QTLQPGPPVSLKCIATGNPTPH--ISWKLD--GYPLAGDRHENKNRIGEARVQQLPLNRR 67
+ ++PG V + C ATG I W + G+ L IGE N R
Sbjct: 10 ELMKPGASVQISCKATGYTFSEYWIEWVKERPGHGL--------EWIGEILPGSGRTNYR 61
Query: 68 QKVFPNGTLLIENVQ----------KDHDRGVYWCT----ATNKQGRSSSQNVHISVTGA 113
+K T + D VY+CT + + G+ +S V + T
Sbjct: 62 EKFKGKATFTADTSSNTAYMQLSSLTSEDSAVYYCTRGYSSMDYWGQGTSVTVSAAKTTP 121
Query: 114 PFVRPMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
P V P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 122 PSVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 170
>pdb|3NZH|H Chain H, Crystal Structure Of Anti-Emmprin Antibody 5f6 Fab
Length = 226
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 40/160 (25%), Positives = 70/160 (43%), Gaps = 33/160 (20%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW----KLDGYPLAGDRHEN-KNRIG 55
+QPG + L C+A+G +P + W +L Y A E+ K R
Sbjct: 13 VQPGGSMKLSCVASGFTFSNYWMNWVRQSPEKGLEWVAQIRLKSYNYATHYAESVKGRFT 72
Query: 56 EARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT--ATNKQGRSSSQNVHISVTGA 113
+R + + V+ L + N++ + D G+Y+CT ++ G+ ++ V + T
Sbjct: 73 ISRD-----DSKSSVY----LQMNNLRAE-DTGIYYCTPDGSDYWGQGTTLTVSSASTKG 122
Query: 114 PFVRPMGNVS-AIAGEPLYLGCPVAGYPIE--SITWQKGV 150
P V P+ S + +G LGC V Y E +++W G
Sbjct: 123 PSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGA 162
>pdb|1E4W|H Chain H, Crossreactive Binding Of A Circularized Peptide To An
Anti- Tgfalpha Antibody Fab-Fragment
Length = 213
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 41/160 (25%), Positives = 62/160 (38%), Gaps = 33/160 (20%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNR-------IGEARVQQLPL 64
+ ++PG V L C A+G + Y + H K R IGE
Sbjct: 10 ELVKPGASVKLSCKASG-------FTFTNYWM----HWVKQRPGQGLEWIGEILPSNGRT 58
Query: 65 NRRQKVFPNGTLLIENVQK----------DHDRGVYWC--TATNKQGRSSSQNVHISVTG 112
N +K TL ++ D VY+C + ++ G+ ++ V + T
Sbjct: 59 NYNEKFKTKATLTVDKSSNTAYMQLSSLTSEDSAVYYCARSPSDYWGQGTTLTVSSAKTT 118
Query: 113 APFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 119 APSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 158
>pdb|1E4X|H Chain H, Crossreactive Binding Of A Circularized Peptide To An
Anti-Tgfalpha Antibody Fab-Fragment
Length = 217
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 41/160 (25%), Positives = 62/160 (38%), Gaps = 33/160 (20%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNR-------IGEARVQQLPL 64
+ ++PG V L C A+G + Y + H K R IGE
Sbjct: 10 ELVKPGASVKLSCKASG-------FTFTNYWM----HWVKQRPGQGLEWIGEILPSNGRT 58
Query: 65 NRRQKVFPNGTLLIENVQK----------DHDRGVYWC--TATNKQGRSSSQNVHISVTG 112
N +K TL ++ D VY+C + ++ G+ ++ V + T
Sbjct: 59 NYNEKFKTKATLTVDKSSNTAYMQLSSLTSEDSAVYYCARSPSDYWGQGTTLTVSSAKTT 118
Query: 113 APFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 119 APSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 158
>pdb|3CMO|H Chain H, Hiv Neutralizing Monoclonal Antibody Yz18
pdb|3CMO|Y Chain Y, Hiv Neutralizing Monoclonal Antibody Yz18
Length = 222
Score = 36.6 bits (83), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 41/163 (25%), Positives = 62/163 (38%), Gaps = 36/163 (22%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQQ 61
+PG V + C A+G P + W YP D N+ G+A++
Sbjct: 13 RPGASVKMSCKASGYTFTSYWMHWVKQRPGQGLEWIGAIYPGNSDTSYNQKFKGKAKLT- 71
Query: 62 LPLNRRQKVFPNGTLLIE-NVQKDHDRGVYWCT-----------ATNKQGRSSSQNVHIS 109
V T +E + + D VY+CT + G+ ++ V +
Sbjct: 72 -------AVTSASTAYMELSSLTNEDSAVYYCTRWPHYYGGSRYYFDYWGQGTTLTVSSA 124
Query: 110 VTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
T AP V P+ V G + LGC V GY E ++TW G
Sbjct: 125 KTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 167
>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 = 36.6 bits (83), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 45/173 (26%), Positives = 63/173 (36%), Gaps = 33/173 (19%)
Query: 12 QTLQPGPPVSLKCIATGNPTPH--ISWKLD--GYPLAGDRHENKNRIGEARVQQLPLNRR 67
+ ++PG V + C ATG I W + G+ L IGE N R
Sbjct: 10 ELMKPGASVQISCKATGYTFSEYWIEWVKERPGHGL--------EWIGEILPGSGRTNYR 61
Query: 68 QKVFPNGTLLIENVQ----------KDHDRGVYWCT----ATNKQGRSSSQNVHISVTGA 113
+K T + D VY+CT + + G+ +S V + T
Sbjct: 62 EKFKGKATFTADTSSNTAYMQLSSLTSEDSAVYYCTRGYSSMDYWGQGTSVTVSAAKTTP 121
Query: 114 PFVRPMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
P V P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 122 PSVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 170
>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 = 36.6 bits (83), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 41/175 (23%), Positives = 65/175 (37%), Gaps = 34/175 (19%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNR---IGEARVQQLPLNRRQ 68
+ ++PG V + C A+G + Y ++ + N IG + +N Q
Sbjct: 10 ELVKPGASVKISCKASG-------YSFSDYNMSWVKQSNGKSLEWIGIIDPKYGTINYNQ 62
Query: 69 KVFPNGTLLIE----------NVQKDHDRGVYWC-------TATNKQGRSSSQNVHISVT 111
K TL ++ N D VY+C + + G+ ++ V + T
Sbjct: 63 KFKGKATLTVDQASSTAYMQLNSLTSEDSAVYYCVRDYYGSSYFDYWGQGTTLTVSSAKT 122
Query: 112 GAPFVRPMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
P V P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 123 TPPSVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 173
>pdb|3O0R|H Chain H, Crystal Structure Of Nitric Oxide Reductase From
Pseudomonas Aeruginosa In Complex With Antibody Fragment
Length = 225
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 40/164 (24%), Positives = 63/164 (38%), Gaps = 37/164 (22%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQQ 61
+PG V + C A+G P + W YP D N+ G+A++
Sbjct: 13 RPGASVKMSCKASGYSFTSYWMHWVKQRPGQGLEWIGAVYPGNSDTSYNQKFKGKAKLT- 71
Query: 62 LPLNRRQKVFPNGTLLIE-NVQKDHDRGVYWCTATNKQG------------RSSSQNVHI 108
V T +E + + D VY+C+ ++ G + ++ V
Sbjct: 72 -------AVTSASTAYMELSSLTNEDSAVYYCSRSSLDGYYVKNWCFDVWGQGTTVTVSS 124
Query: 109 SVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
+ T AP V P+ V G + LGC V GY E ++TW G
Sbjct: 125 AKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 168
>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 = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 41/172 (23%), Positives = 63/172 (36%), Gaps = 31/172 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C ATG P + W + P +G + + G+A
Sbjct: 10 ELMKPGASVQISCKATGYTFSFYWIEWVKERPGHGLEWIGEILPGSGRTNYREKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT----ATNKQGRSSSQNVHISVTGAP 114
N + + D VY+CT + + G+ +S V + T P
Sbjct: 70 FTA-------DTSSNTAYMQLSSLTSEDSAVYYCTRGYSSMDYWGQGTSVTVSAAKTTPP 122
Query: 115 FVRPMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
V P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 123 SVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 170
>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 = 36.2 bits (82), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 35/145 (24%), Positives = 48/145 (33%), Gaps = 28/145 (19%)
Query: 127 GEPLYLGCPVAGYPIESITWQKGVQQLP----------------LNRRQKVFPNGTLLIE 170
G + L C +GY S W V+Q P N K TL ++
Sbjct: 15 GASVKLSCRASGYSFTSY-WMHWVKQRPGQGLEWIGLIDPSNGRTNFNDKFKSRATLTVD 73
Query: 171 NVQK----------DHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGD 220
D VY+C G+ + V + T P + P SG
Sbjct: 74 TSSSTAYMQLSSLTSEDSAVYYCVRIAYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGG 133
Query: 221 RAGVQCLVTKGDP-PLTISWLKNGL 244
A + CLV P P+T+SW L
Sbjct: 134 TAALGCLVKDYFPEPVTVSWNSGAL 158
Score = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 37/160 (23%), Positives = 59/160 (36%), Gaps = 33/160 (20%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPL------- 64
+ ++PG V L C A+G + Y + H K R G+ ++ + L
Sbjct: 10 ELVKPGASVKLSCRASG-------YSFTSYWM----HWVKQRPGQG-LEWIGLIDPSNGR 57
Query: 65 -NRRQKVFPNGTLLIENVQK----------DHDRGVYWCTATNKQGRSSSQNVHISVTGA 113
N K TL ++ D VY+C G+ + V + T
Sbjct: 58 TNFNDKFKSRATLTVDTSSSTAYMQLSSLTSEDSAVYYCVRIAYWGQGTLVTVSSASTKG 117
Query: 114 PFVRPMGNVS-AIAGEPLYLGCPVAGYPIE--SITWQKGV 150
P V P+ S + +G LGC V Y E +++W G
Sbjct: 118 PSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGA 157
>pdb|1YEC|H Chain H, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.3)
pdb|1YEF|H Chain H, Structure Of Igg2a Fab Fragment (D2.3) Complexed With
Substrate Analogue
pdb|1YEG|H Chain H, Structure Of Igg2a Fab Fragment (D2.3) Complexed With
Reaction Product
pdb|1YEH|H Chain H, Structure Of Igg2a Fab Fragment
pdb|1YEI|H Chain H, Catalytic Antibody D2.3 Complex
pdb|1YEK|H Chain H, Catalytic Antibody D2.3 Complex
pdb|1YEJ|H Chain H, Catalytic Antibody Complex
pdb|1KN2|H Chain H, Catalytic Antibody D2.3 Complex
pdb|1KN4|H Chain H, Catalytic Antibody D2.3 Complex
Length = 222
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 40/165 (24%), Positives = 60/165 (36%), Gaps = 34/165 (20%)
Query: 12 QTLQPGPPVSLKCIATGNPTPH-------------ISWKLDGYPLAGDRHENKNRIGEAR 58
+ L+PG V L C +G + W YP G + N+ G+A
Sbjct: 10 ELLRPGTSVKLSCKTSGYIFTSYWIHWVKQRSGQGLEWIARIYPGTGSTYYNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-----------ATNKQGRSSSQNVH 107
+ K + + + K D VY+CT + G+ + V
Sbjct: 70 LTA------DKSSSTAYMQLSTL-KSEDSAVYFCTRWGFIPVREDYVMDYWGQGTLVTVS 122
Query: 108 ISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
+ T AP V P+ V G + LGC V GY E ++TW G
Sbjct: 123 SAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 167
>pdb|2WP3|T Chain T, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig
Complex
pdb|2WWK|T Chain T, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig F17r
Mutant Complex
pdb|2WWM|D Chain D, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig
Complex In Space Group P1
pdb|2WWM|T Chain T, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig
Complex In Space Group P1
pdb|2Y9R|T Chain T, Crystal Structure Of The M10 Domain Of Titin
Length = 102
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 43/97 (44%), Gaps = 16/97 (16%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFP 72
++ G +++ C TG PTP ++W G + + + R L
Sbjct: 18 SIDEGKVLTVACAFTGEPTPEVTWSCGGRKI---HSQEQGRFHIENTDDLT--------- 65
Query: 73 NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQ-NVHI 108
TL+I +VQK D G+Y + N+ G S+ N+HI
Sbjct: 66 --TLIIMDVQK-QDGGLYTLSLGNEFGSDSATVNIHI 99
Score = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 41/85 (48%), Gaps = 7/85 (8%)
Query: 121 NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNG-----TLLIENVQKD 175
++S G+ L + C G P +TW G +++ + + TL+I +VQK
Sbjct: 16 DISIDEGKVLTVACAFTGEPTPEVTWSCGGRKIHSQEQGRFHIENTDDLTTLIIMDVQK- 74
Query: 176 HDRGVYWCTATNKQGRSSSQ-NVHI 199
D G+Y + N+ G S+ N+HI
Sbjct: 75 QDGGLYTLSLGNEFGSDSATVNIHI 99
>pdb|1NUN|B Chain B, Crystal Structure Analysis Of The Fgf10-fgfr2b Complex
Length = 230
Score = 36.2 bits (82), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 57/139 (41%), Gaps = 23/139 (16%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNP P W +G + ++RIG +V R Q + +L+ E
Sbjct: 36 VKFRCPAGGNPXPTXRWLKNGKEF-----KQEHRIGGYKV------RNQ----HWSLIXE 80
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V D+G Y C N+ G S + H+ V RP+ N S + G +
Sbjct: 81 SVVPS-DKGNYTCVVENEYG-SINHTYHLDVVERSPHRPILQAGLPANASTVVGGDVEFV 138
Query: 134 CPVAGYPIESITWQKGVQQ 152
C V I W K V++
Sbjct: 139 CKVYSDAQPHIQWIKHVEK 157
>pdb|3KNB|A Chain A, Crystal Structure Of The Titin C-Terminus In Complex With
Obscurin- Like 1
pdb|3Q5O|A Chain A, Crystal Structure Of Human Titin Domain M10
pdb|3Q5O|B Chain B, Crystal Structure Of Human Titin Domain M10
Length = 100
Score = 36.2 bits (82), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 43/97 (44%), Gaps = 16/97 (16%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFP 72
++ G +++ C TG PTP ++W G + + + R L
Sbjct: 16 SIDEGKVLTVACAFTGEPTPEVTWSCGGRKI---HSQEQGRFHIENTDDLT--------- 63
Query: 73 NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQ-NVHI 108
TL+I +VQK D G+Y + N+ G S+ N+HI
Sbjct: 64 --TLIIMDVQK-QDGGLYTLSLGNEFGSDSATVNIHI 97
Score = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 41/85 (48%), Gaps = 7/85 (8%)
Query: 121 NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNG-----TLLIENVQKD 175
++S G+ L + C G P +TW G +++ + + TL+I +VQK
Sbjct: 14 DISIDEGKVLTVACAFTGEPTPEVTWSCGGRKIHSQEQGRFHIENTDDLTTLIIMDVQK- 72
Query: 176 HDRGVYWCTATNKQGRSSSQ-NVHI 199
D G+Y + N+ G S+ N+HI
Sbjct: 73 QDGGLYTLSLGNEFGSDSATVNIHI 97
>pdb|2V17|H Chain H, Structure Of The Complex Of Antibody Mn423 With A Fragment
Of Tau Protein
Length = 222
Score = 36.2 bits (82), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 42/172 (24%), Positives = 66/172 (38%), Gaps = 31/172 (18%)
Query: 15 QPGPPVSLKCIATGNPTP--HISW-------KLDGYPLAGDRHENKNRIGEARVQ---QL 62
Q G +SL C A+G ++SW L+ L ++ + A V+ +
Sbjct: 13 QSGGSLSLSCAASGFTFTDYYMSWVRQPPGKALEWLALIRNKAKGYTTEYSASVKGRFTI 72
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSS----SQNVHISVTGA----P 114
+ Q + L N + D +Y+C N R++ Q ++V+ A P
Sbjct: 73 SRDNSQSIL----YLQMNALRAEDSAIYYCARDNGAARATFAYWGQGTLVTVSAAKTTPP 128
Query: 115 FVRPMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
V P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 129 SVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 176
>pdb|3L1O|H Chain H, Crystal Structure Of Monoclonal Antibody Mn423 Fab
Fragment With Free Combining Site, Crystallized In The
Presence Of Zinc
Length = 227
Score = 35.8 bits (81), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 42/172 (24%), Positives = 66/172 (38%), Gaps = 31/172 (18%)
Query: 15 QPGPPVSLKCIATGNPTP--HISW-------KLDGYPLAGDRHENKNRIGEARVQ---QL 62
Q G +SL C A+G ++SW L+ L ++ + A V+ +
Sbjct: 13 QSGGSLSLSCAASGFTFTDYYMSWVRQPPGKALEWLALIRNKAKGYTTEYSASVKGRFTI 72
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSS----SQNVHISVTGA----P 114
+ Q + L N + D +Y+C N R++ Q ++V+ A P
Sbjct: 73 SRDNSQSIL----YLQMNALRAEDSAIYYCARDNGAARATFAYWGQGTLVTVSAAKTTPP 128
Query: 115 FVRPMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
V P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 129 SVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 176
>pdb|1NDM|B Chain B, Crystal Structure Of Fab Fragment Of Antibody Hyhel-26
Complexed With Lysozyme
Length = 210
Score = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 37/148 (25%), Positives = 59/148 (39%), Gaps = 14/148 (9%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWK-LDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF- 71
++P +SL C TG+ W + +P G++ E I + + + ++
Sbjct: 12 VKPSQTLSLTCSVTGDSITSDYWSWIRKFP--GNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 72 -----PNGTLLIENVQKDHDRGVYWCT--ATNKQGRSSSQNVHISVTGAPFVRPMGNVSA 124
N L N D Y+C + G+ +S V + T AP V P+ V
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCARWEMDYWGQGTSVTVSSAKTTAPSVYPLAPVCG 129
Query: 125 -IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTWNSG 157
>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 = 35.8 bits (81), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 39/153 (25%), Positives = 62/153 (40%), Gaps = 24/153 (15%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
++PG V L C A+G P + W + +P +G+ + N+ G+A +
Sbjct: 12 VRPGASVKLSCKASGYTFTSSWMHWAKQRPGQGLEWIGEIHPNSGNTNYNEKFKGKATLT 71
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-ATNKQGRSSSQNVHISVTGAPFVRPM 119
+ + +L E D VY+C G+ + V + T AP V P+
Sbjct: 72 -VDTSSSTAYVDLSSLTSE------DSAVYYCVRGFAYWGQGTLVTVSAAKTTAPSVYPL 124
Query: 120 GNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V G + LGC V GY E ++TW G
Sbjct: 125 APVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 157
>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 = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 36/92 (39%), Gaps = 17/92 (18%)
Query: 11 QQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKV 70
Q + G V C A G+P P I W L+ +H + N R V
Sbjct: 394 QVFVDEGHTVQFVCRADGDPPPAILW------LSPRKH----------LVSAKSNGRLTV 437
Query: 71 FPNGTLLIENVQKDHDRGVYWCTATNKQGRSS 102
FP+GTL + Q D G Y C A N G S
Sbjct: 438 FPDGTLEVRYAQV-QDNGTYLCIAANAGGNDS 468
Score = 35.0 bits (79), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 32/80 (40%), Gaps = 4/80 (5%)
Query: 117 RPMGNVSAIAGEPLYLGCPVAGYPIESITW---QKGVQQLPLNRRQKVFPNGTLLIENVQ 173
R V G + C G P +I W +K + N R VFP+GTL + Q
Sbjct: 390 RKAQQVFVDEGHTVQFVCRADGDPPPAILWLSPRKHLVSAKSNGRLTVFPDGTLEVRYAQ 449
Query: 174 KDHDRGVYWCTATNKQGRSS 193
D G Y C A N G S
Sbjct: 450 V-QDNGTYLCIAANAGGNDS 468
>pdb|3FZU|H Chain H, Igg1 Fab Characterized By HD EXCHANGE
pdb|3FZU|C Chain C, Igg1 Fab Characterized By HD EXCHANGE
Length = 223
Score = 35.8 bits (81), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 35/86 (40%), Gaps = 5/86 (5%)
Query: 164 NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISV----TVPPKIAPFEFQPDLHSG 219
N L N + D VY+C + S Q V ++V T P + P SG
Sbjct: 79 NTLFLQMNSLRAEDTAVYYCASLTTGSDSWGQGVLVTVSSASTKGPSVFPLAPSSKSTSG 138
Query: 220 DRAGVQCLVTKGDP-PLTISWLKNGL 244
A + CLV P P+T+SW L
Sbjct: 139 GTAALGCLVKDYFPEPVTVSWNSGAL 164
Score = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 38/153 (24%), Positives = 62/153 (40%), Gaps = 19/153 (12%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLDGYPLA-GDRHENKNRI---------GEARVQQLPL 64
+PG + L C A+G ++ +D A G E +RI ++ + +
Sbjct: 13 KPGGSLRLSCAASGFRFTFNNYYMDWVRQAPGQGLEWVSRISSSGDPTWYADSVKGRFTI 72
Query: 65 NRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA----PFVRPMG 120
+R N L N + D VY+C + S Q V ++V+ A P V P+
Sbjct: 73 SRENA--KNTLFLQMNSLRAEDTAVYYCASLTTGSDSWGQGVLVTVSSASTKGPSVFPLA 130
Query: 121 NVS-AIAGEPLYLGCPVAGYPIE--SITWQKGV 150
S + +G LGC V Y E +++W G
Sbjct: 131 PSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGA 163
>pdb|1KB5|H Chain H, Murine T-Cell Receptor Variable DomainFAB COMPLEX
Length = 219
Score = 35.8 bits (81), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 38/158 (24%), Positives = 58/158 (36%), Gaps = 30/158 (18%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNR---IGEARVQQLPLNRRQKVF 71
+PG V + C A+G + GY + + N IG ++ QK
Sbjct: 13 KPGASVKISCKASG-------YSFTGYNMNWVKQSNGKSLEWIGNIDPYYGGISYNQKFK 65
Query: 72 PNGTLLIENVQK----------DHDRGVYWCTATNKQ-------GRSSSQNVHISVTGAP 114
TL ++ D VY+C + G+ ++ V + T AP
Sbjct: 66 GRATLTVDKSSSTAYMQLKSLTSEDSAVYYCARSRTDLYYFDYWGQGTTLTVSSAKTTAP 125
Query: 115 FVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V P+ V G + LGC V GY E ++TW G
Sbjct: 126 SVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>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 = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 40/154 (25%), Positives = 64/154 (41%), Gaps = 23/154 (14%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLD--------GYPLAGDRHEN--KNRIGEARVQQLPL 64
+PG V + C A+G I++ ++ G G ++ N + GE +
Sbjct: 13 KPGETVKISCKASGYT--FINYGMNWVKQAPGKGLKWMGWKNTNTGETTYGEEFRGRFAF 70
Query: 65 NRRQKVFPNGTLLIENVQKDHDRGVYWCT------ATNKQGRSSSQNVHISVTGAPFVRP 118
+ V L I N+ K+ D Y+C A + G+ ++ V + T AP V P
Sbjct: 71 SLETSV-STAYLQINNL-KNEDTATYFCARDNPYYALDYWGQGTTVTVSSAKTTAPSVYP 128
Query: 119 MGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
+ V G + LGC V GY E ++TW G
Sbjct: 129 LAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
>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 = 35.4 bits (80), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 37/156 (23%), Positives = 62/156 (39%), Gaps = 25/156 (16%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
+QPG + L C+ +G +P + W + L D + E+
Sbjct: 12 VQPGGSMKLSCVVSGLTFSRFWMSWVRQSPEKGLEWVAE-IRLKSDNY--ATHYAESVKG 68
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT----ATNKQGRSSSQNVHISVTGAPFV 116
+ ++R + L N + D G+Y+C + + G+ + V + T AP V
Sbjct: 69 KFTISRDDS--KSRLYLQMNSLRTEDTGIYYCKIYFYSFSYWGQGTLVTVSAAKTTAPSV 126
Query: 117 RPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
P+ V G + LGC V GY E ++TW G
Sbjct: 127 YPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
>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 = 35.4 bits (80), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 41/163 (25%), Positives = 61/163 (37%), Gaps = 34/163 (20%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAGDRHENKNRIGE 56
+ ++PG V L C A+G P + W ++D P G + G+
Sbjct: 10 ELVKPGASVKLSCTASGFNIKDTYVHWVKQRPEQGLEWIGRID--PANGYTKYDPKFQGK 67
Query: 57 ARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-------ATNKQGRSSSQNVHIS 109
A + N L + D VY+C A + G+ +S V +
Sbjct: 68 ATI-------TADTSSNTAYLQLSSLTSEDTAVYYCVRPLYDYYAMDYWGQGTSVTVSSA 120
Query: 110 VTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
T AP V P+ V G + LGC V GY E ++TW G
Sbjct: 121 KTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>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 = 35.4 bits (80), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 40/151 (26%), Positives = 68/151 (45%), Gaps = 16/151 (10%)
Query: 111 TGAP-FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRR---QKVFPNG- 165
T AP F +P+ +V + G ++G+P+ ++W + Q + + Q F +G
Sbjct: 3 TQAPTFTQPLQSVVVLEGSTATFEAHISGFPVPEVSWFRDGQVISTSTLPGVQISFSDGR 62
Query: 166 -TLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHS-----G 219
L I V K + G Y ATN G+++S + V + AP F L S G
Sbjct: 63 AKLTIPAVTK-ANSGRYSLKATNGSGQATS---TAELLVKAETAPPNFVQRLQSMTVRQG 118
Query: 220 DRAGVQCLVTKGDPPLTISWLKNGLPILSAM 250
+ +Q VT G P + + ++G I S++
Sbjct: 119 SQVRLQVRVT-GIPTPVVKFYRDGAEIQSSL 148
Score = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 45/186 (24%), Positives = 76/186 (40%), Gaps = 26/186 (13%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNG-- 74
G + + +G P P +SW DG ++ L Q F +G
Sbjct: 20 GSTATFEAHISGFPVPEVSWFRDGQVISTS----------------TLPGVQISFSDGRA 63
Query: 75 TLLIENVQKDHDRGVYWCTATNKQGR-SSSQNVHISVTGAP--FVRPMGNVSAIAGEPLY 131
L I V K + G Y ATN G+ +S+ + + AP FV+ + +++ G +
Sbjct: 64 KLTIPAVTK-ANSGRYSLKATNGSGQATSTAELLVKAETAPPNFVQRLQSMTVRQGSQVR 122
Query: 132 LGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNG---TLLIENVQKDHDRGVYWCTATNK 188
L V G P + + + ++ + ++ G +LLI + D G Y ATN
Sbjct: 123 LQVRVTGIPTPVVKFYRDGAEIQSSLDFQISQEGDLYSLLIAEAYPE-DSGTYSVNATNS 181
Query: 189 QGRSSS 194
GR++S
Sbjct: 182 VGRATS 187
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 25/101 (24%), Positives = 40/101 (39%), Gaps = 17/101 (16%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P + + T++ G V L+ TG PTP + + DG + ++ G+
Sbjct: 104 PNFVQRLQSMTVRQGSQVRLQVRVTGIPTPVVKFYRDGAEIQSSLDFQISQEGDLY---- 159
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSS 103
+LLI + D G Y ATN GR++S
Sbjct: 160 ------------SLLIAEAYPE-DSGTYSVNATNSVGRATS 187
>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 = 35.4 bits (80), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 40/161 (24%), Positives = 61/161 (37%), Gaps = 34/161 (21%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQQ 61
+PG V + C A+G P + W YP D N+ +A++
Sbjct: 13 RPGASVKMSCKASGYTFTTYRMHWIKQRPGQGLEWIGAIYPGNSDTTYNQKFKDKAKLT- 71
Query: 62 LPLNRRQKVFPNGTLLIE-NVQKDHDRGVYWCT---------ATNKQGRSSSQNVHISVT 111
V + +E + + D VY+CT + G+ +S V + T
Sbjct: 72 -------AVTSTSSAYMELSSLTNEDSAVYFCTREGIPQLLRTLDYWGQGTSVTVSSAKT 124
Query: 112 GAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 125 TAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 165
>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 = 35.4 bits (80), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 40/151 (26%), Positives = 68/151 (45%), Gaps = 16/151 (10%)
Query: 111 TGAP-FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRR---QKVFPNG- 165
T AP F +P+ +V + G ++G+P+ ++W + Q + + Q F +G
Sbjct: 3 TQAPTFTQPLQSVVVLEGSTATFEAHISGFPVPEVSWFRDGQVISTSTLPGVQISFSDGR 62
Query: 166 -TLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHS-----G 219
L I V K + G Y ATN G+++S + V + AP F L S G
Sbjct: 63 AKLTIPAVTK-ANSGRYSLKATNGSGQATS---TAELLVKAETAPPNFVQRLQSMTVRQG 118
Query: 220 DRAGVQCLVTKGDPPLTISWLKNGLPILSAM 250
+ +Q VT G P + + ++G I S++
Sbjct: 119 SQVRLQVRVT-GIPTPVVKFYRDGAEIQSSL 148
Score = 35.0 bits (79), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 45/186 (24%), Positives = 76/186 (40%), Gaps = 26/186 (13%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNG-- 74
G + + +G P P +SW DG ++ L Q F +G
Sbjct: 20 GSTATFEAHISGFPVPEVSWFRDGQVISTST----------------LPGVQISFSDGRA 63
Query: 75 TLLIENVQKDHDRGVYWCTATNKQGR-SSSQNVHISVTGAP--FVRPMGNVSAIAGEPLY 131
L I V K + G Y ATN G+ +S+ + + AP FV+ + +++ G +
Sbjct: 64 KLTIPAVTK-ANSGRYSLKATNGSGQATSTAELLVKAETAPPNFVQRLQSMTVRQGSQVR 122
Query: 132 LGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNG---TLLIENVQKDHDRGVYWCTATNK 188
L V G P + + + ++ + ++ G +LLI + D G Y ATN
Sbjct: 123 LQVRVTGIPTPVVKFYRDGAEIQSSLDFQISQEGDLYSLLIAEAYPE-DSGTYSVNATNS 181
Query: 189 QGRSSS 194
GR++S
Sbjct: 182 VGRATS 187
Score = 31.2 bits (69), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 25/101 (24%), Positives = 40/101 (39%), Gaps = 17/101 (16%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P + + T++ G V L+ TG PTP + + DG + ++ G+
Sbjct: 104 PNFVQRLQSMTVRQGSQVRLQVRVTGIPTPVVKFYRDGAEIQSSLDFQISQEGDLY---- 159
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSS 103
+LLI + D G Y ATN GR++S
Sbjct: 160 ------------SLLIAEAYPE-DSGTYSVNATNSVGRATS 187
>pdb|4EBQ|H Chain H, Fab Structure Of Anti-Vaccinia Virus D8l Antigen Mouse
Igg2a La5
Length = 221
Score = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 35/75 (46%), Gaps = 10/75 (13%)
Query: 85 HDRGVYWCTATNKQ-------GRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPV 136
D VY+CT +N + G ++ V + T AP V P+ V G + LGC V
Sbjct: 89 EDSAVYYCTRSNYRYDYFDVWGAGTTVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLV 148
Query: 137 AGYPIE--SITWQKG 149
GY E ++TW G
Sbjct: 149 KGYFPEPVTLTWNSG 163
>pdb|4ETQ|H Chain H, Vaccinia Virus D8l Imv Envelope Protein In Complex With
Fab Of Murine Igg2a La5
pdb|4ETQ|A Chain A, Vaccinia Virus D8l Imv Envelope Protein In Complex With
Fab Of Murine Igg2a La5
Length = 221
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 35/75 (46%), Gaps = 10/75 (13%)
Query: 85 HDRGVYWCTATNKQ-------GRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPV 136
D VY+CT +N + G ++ V + T AP V P+ V G + LGC V
Sbjct: 89 EDSAVYYCTRSNYRYDYFDVWGAGTTVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLV 148
Query: 137 AGYPIE--SITWQKG 149
GY E ++TW G
Sbjct: 149 KGYFPEPVTLTWNSG 163
>pdb|2NR6|D Chain D, Crystal Structure Of The Complex Of Antibody And The
Allergen Bla G 2
pdb|2NR6|F Chain F, Crystal Structure Of The Complex Of Antibody And The
Allergen Bla G 2
Length = 213
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 40/158 (25%), Positives = 58/158 (36%), Gaps = 27/158 (17%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V L C A+G P + W P G+ +G+A
Sbjct: 10 ELVKPGASVKLSCTASGFNIKDTYIHWVKQRPEQGLEWIGRIDPANGNTRYGPKFLGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQ----GRSSSQNVHISVTGAP 114
+ N L N D VY+C +Q G+ +S V + T P
Sbjct: 70 I-------TADTSSNTAYLHLNSLTSEDTAVYFCARWVRQMDYWGQGTSVTVSSAKTTPP 122
Query: 115 FVRPMGNVSAIAGEPLY-LGCPVAGYPIE--SITWQKG 149
V P+ SA + LGC V GY E ++TW G
Sbjct: 123 SVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSG 160
Score = 32.0 bits (71), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 38/170 (22%), Positives = 63/170 (37%), Gaps = 38/170 (22%)
Query: 105 NVHISVTGAPFVRPMGNVSAIAGEPLYLGCPVAGYPIES--ITW-----QKGVQQL---- 153
+ + +GA V+P G + L C +G+ I+ I W ++G++ +
Sbjct: 1 EIQLQQSGAELVKP--------GASVKLSCTASGFNIKDTYIHWVKQRPEQGLEWIGRID 52
Query: 154 PLNRRQKVFP--------------NGTLLIENVQKDHDRGVYWCTATNKQ----GRSSSQ 195
P N + P N L N D VY+C +Q G+ +S
Sbjct: 53 PANGNTRYGPKFLGKATITADTSSNTAYLHLNSLTSEDTAVYFCARWVRQMDYWGQGTSV 112
Query: 196 NVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
V + T PP + P + + CLV P P+T++W L
Sbjct: 113 TVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSL 162
>pdb|3V0V|H Chain H, Fab Wn1 222-5 Unliganded
pdb|3V0V|A Chain A, Fab Wn1 222-5 Unliganded
Length = 220
Score = 35.0 bits (79), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 38/153 (24%), Positives = 60/153 (39%), Gaps = 17/153 (11%)
Query: 14 LQPGPPVSLKCIATGNPTP--HISWKLDG-----YPLAGDRHENKNRIGEARVQQLPLNR 66
+QPG +SL C A+G +++W LA R++ E
Sbjct: 12 VQPGGSLSLSCAASGFTFSDYYMTWVRQAPGKAPEWLALIRNKRNGDTAEYSASVKGRFT 71
Query: 67 RQKVFPNGTLLIE-NVQKDHDRGVYWCT------ATNKQGRSSSQNVHISVTGAPFVRPM 119
+ + L ++ N + D Y+C + G+ +S V + T AP V P+
Sbjct: 72 ISRDYSRSILHLQMNALRTEDSATYYCVRQGRGYTLDYWGQGTSVTVSSAKTTAPSVYPL 131
Query: 120 GNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V G + LGC V GY E ++TW G
Sbjct: 132 APVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 164
>pdb|1XGP|B Chain B, Structure For Antibody Hyhel-63 Y33a Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 35.0 bits (79), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 60/148 (40%), Gaps = 14/148 (9%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWK-LDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF- 71
++P +SL C TG+ +W + +P G++ E I + + + ++
Sbjct: 12 VKPSQTLSLTCSVTGDSVTSDAWSWIRKFP--GNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 72 -----PNGTLLIENVQKDHDRGVYWCTA--TNKQGRSSSQNVHISVTGAPFVRPMGNVSA 124
N L N D Y+C + + G ++ V + T AP V P+ V
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCG 129
Query: 125 -IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTWNSG 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 = 35.0 bits (79), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 34/69 (49%), Gaps = 4/69 (5%)
Query: 85 HDRGVYWCTAT-NKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE 142
D G Y+CT + G+ ++ V + T AP V P+ V G + LGC V GY E
Sbjct: 89 EDTGTYFCTREGDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPE 148
Query: 143 --SITWQKG 149
++TW G
Sbjct: 149 PVTLTWNSG 157
>pdb|1MJJ|B Chain B, High Resolution Crystal Structure Of The Complex Of The
Fab Fragment Of Esterolytic Antibody Ms6-12 And A
Transition- State Analog
pdb|1MJJ|H Chain H, High Resolution Crystal Structure Of The Complex Of The
Fab Fragment Of Esterolytic Antibody Ms6-12 And A
Transition- State Analog
pdb|1MJU|H Chain H, 1.22 Angstrom Resolution Crystal Structure Of The Fab
Fragment Of Esterolytic Antibody Ms6-12
Length = 227
Score = 35.0 bits (79), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 41/160 (25%), Positives = 65/160 (40%), Gaps = 31/160 (19%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V L C A+G P + W + YP + H N+ +A
Sbjct: 10 ELVKPGASVKLSCKASGYTFTNYWINWVKQRPGQGLEWIGNIYPGSSYTHYNEKFKNKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNK------QGRSSSQNVHISVTG 112
L ++ + + ++ D D VY+C NK G+ + V + T
Sbjct: 70 ---LTVDTSSS---TAYMQLSSLTSD-DSAVYYCA--NKLGWFPYWGQGTLVTVSAAKTT 120
Query: 113 APFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V +G + LGC V GY E ++TW G
Sbjct: 121 APSVYPLAPVCGDTSGSSVTLGCLVKGYFPEPVTLTWNSG 160
>pdb|3V0W|H Chain H, Crystal Structure Of Fab Wn1 222-5 In Complex With Lps
Length = 219
Score = 35.0 bits (79), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 38/153 (24%), Positives = 60/153 (39%), Gaps = 17/153 (11%)
Query: 14 LQPGPPVSLKCIATGNPTP--HISWKLDG-----YPLAGDRHENKNRIGEARVQQLPLNR 66
+QPG +SL C A+G +++W LA R++ E
Sbjct: 12 VQPGGSLSLSCAASGFTFSDYYMTWVRQAPGKAPEWLALIRNKRNGDTAEYSASVKGRFT 71
Query: 67 RQKVFPNGTLLIE-NVQKDHDRGVYWCT------ATNKQGRSSSQNVHISVTGAPFVRPM 119
+ + L ++ N + D Y+C + G+ +S V + T AP V P+
Sbjct: 72 ISRDYSRSILHLQMNALRTEDSATYYCVRQGRGYTLDYWGQGTSVTVSSAKTTAPSVYPL 131
Query: 120 GNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V G + LGC V GY E ++TW G
Sbjct: 132 APVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 164
>pdb|3I75|B Chain B, Antibody Structure
Length = 225
Score = 35.0 bits (79), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 39/166 (23%), Positives = 61/166 (36%), Gaps = 35/166 (21%)
Query: 12 QTLQPGPPVSLKCIATGN-------------PTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V+L C A+G P + W P G N+N G A
Sbjct: 10 ELVRPGASVTLSCAASGYTFTDFEIHWVKQPPVGGLEWIGTLDPETGGTAYNQNFKGRAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-------------ATNKQGRSSSQN 105
+ K + + ++ + D VY+CT A + G+ +S
Sbjct: 70 LTA------DKSSSTAYMELRSLTSE-DSAVYYCTRWGKKFYYYGTSYAMDYWGQGTSVT 122
Query: 106 VHISVTGAPFVRPMGNVSAIAGEPLYLGCPVAGYPIE--SITWQKG 149
V + T P V P+ + LGC V GY E ++TW G
Sbjct: 123 VSSAKTTPPSVYPLAPGXXATNSMVTLGCLVKGYFPEPVTVTWNSG 168
>pdb|1TPX|B Chain B, Ovine Recombinant Prp(114-234), Arq Variant In Complex
With The Fab Of The Vrq14 Antibody
pdb|1TQB|B Chain B, Ovine Recombinant Prp(114-234), Vrq Variant In Complex
With The Fab Of The Vrq14 Antibody
pdb|1TQC|B Chain B, Ovine Recombinant Prp(114-234), Arr Variant In Complex
With The Vrq14 Fab Fragment (Igg2a)
Length = 212
Score = 35.0 bits (79), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 37/77 (48%), Gaps = 3/77 (3%)
Query: 76 LLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGC 134
L I N++ + ++ T+ G+ ++ V + T AP V P+ V G + LGC
Sbjct: 81 LQINNLKNEDTATYFFTRGTDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGC 140
Query: 135 PVAGYPIE--SITWQKG 149
V GY E ++TW G
Sbjct: 141 LVKGYFPEPVTLTWNSG 157
>pdb|1CIC|B Chain B, Idiotope-Anti-Idiotope Fab-Fab Complex; D1.3-E225
Length = 217
Score = 35.0 bits (79), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 39/174 (22%), Positives = 66/174 (37%), Gaps = 32/174 (18%)
Query: 11 QQTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEA 57
+ ++PG V L C A+G P + W + YP +GD + ++ +A
Sbjct: 9 SELVRPGASVKLSCKASGYTFTNYWMHWVKQRPGQGLEWIGNIYPGSGDSNYDEKFKSKA 68
Query: 58 RVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-----ATNKQGRSSSQNVHISVTG 112
+ + + +G D VY+C + G+ ++ V ++T
Sbjct: 69 TLTVDTSSSTAYMQLSGL-------TSEDSAVYYCARGLAFYFDHWGQGTTLTVSSALTT 121
Query: 113 APFVRPMG-NVSAIAGEPLYLGCPVAGYPIE--SITWQKGVQQLPLNRRQKVFP 163
P V P+ G + LGC V GY E ++TW G L+ FP
Sbjct: 122 PPSVYPLAPGCGDTTGSSVTLGCLVKGYFPEPVTVTWNSG----SLSSSVHTFP 171
>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 = 35.0 bits (79), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 24/70 (34%), Positives = 34/70 (48%), Gaps = 5/70 (7%)
Query: 85 HDRGVYWCTAT--NKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPI 141
D VY+C A + G+ ++ V + T AP V P+ V G + LGC V GY
Sbjct: 89 EDTAVYYCNADLHDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFP 148
Query: 142 E--SITWQKG 149
E ++TW G
Sbjct: 149 EPVTLTWNSG 158
>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 = 34.7 bits (78), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 41/172 (23%), Positives = 61/172 (35%), Gaps = 31/172 (18%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRH---ENKNRIGEARVQQLPLNRRQ 68
+ ++PG V L C A+G + Y + + + IGE N Q
Sbjct: 10 ELVKPGASVKLSCKASG-------YTFTSYWMQWVKQRPGQGLEWIGEIDPSDSYTNYNQ 62
Query: 69 KVFPNGTLLIENVQK----------DHDRGVYWCT----ATNKQGRSSSQNVHISVTGAP 114
K TL ++ D VY+C + G+ ++ V + T P
Sbjct: 63 KFKGKATLTVDTSSSTAYMQLSSLTSEDSAVYYCANLRGYFDYWGQGTTLTVSSAKTTPP 122
Query: 115 FVRPMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
V P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 123 SVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 170
>pdb|2ZCK|H Chain H, Crystal Structure Of A Ternary Complex Between Psa, A
Substrat-Acyl Intermediate And An Activating Antibody
pdb|2ZCL|H Chain H, Crystal Structure Of Human Prostate Specific Antigen
Complexed With An Activating Antibody
Length = 230
Score = 34.7 bits (78), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 43/162 (26%), Positives = 61/162 (37%), Gaps = 33/162 (20%)
Query: 14 LQPGPPVSLKCIATGNP--TPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF 71
++PG V L C A+G T +I+W G E RI A ++F
Sbjct: 12 VKPGASVKLSCKASGYTFTTYYINWMRQ---RPGQGLEWIGRIAPAS----GTTYSSEMF 64
Query: 72 PNGTLLIENVQKD-----------HDRGVYWCT----------ATNKQGRSSSQNVHISV 110
+ L + + D VY+C A + G+ +S V +
Sbjct: 65 KDKATLTVDTSSNTAYIQLSSLSSEDSAVYFCARADYGFNSGEAMDYWGQGTSVTVSSAK 124
Query: 111 TGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIESIT--WQKG 149
T AP V P+ V G + LGC V GY ES+T W G
Sbjct: 125 TTAPPVYPLAPVCGDTTGSSVTLGCLVKGYFPESVTLLWNSG 166
>pdb|2ZCH|H Chain H, Crystal Structure Of Human Prostate Specific Antigen
Complexed With An Activating Antibody
Length = 229
Score = 34.7 bits (78), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 43/162 (26%), Positives = 61/162 (37%), Gaps = 33/162 (20%)
Query: 14 LQPGPPVSLKCIATGNP--TPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF 71
++PG V L C A+G T +I+W G E RI A ++F
Sbjct: 12 VKPGASVKLSCKASGYTFTTYYINWMRQ---RPGQGLEWIGRIAPAS----GTTYSSEMF 64
Query: 72 PNGTLLIENVQKD-----------HDRGVYWCT----------ATNKQGRSSSQNVHISV 110
+ L + + D VY+C A + G+ +S V +
Sbjct: 65 KDKATLTVDTSSNTAYIQLSSLSSEDSAVYFCARADYGFNSGEAMDYWGQGTSVTVSSAK 124
Query: 111 TGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIESIT--WQKG 149
T AP V P+ V G + LGC V GY ES+T W G
Sbjct: 125 TTAPPVYPLAPVCGDTTGSSVTLGCLVKGYFPESVTLLWNSG 166
>pdb|2ZUQ|C Chain C, Crystal Structure Of Dsbb-Fab Complex
pdb|2ZUQ|F Chain F, Crystal Structure Of Dsbb-Fab Complex
pdb|2LTQ|C Chain C, High Resolution Structure Of Dsbb C41s By Joint
Calculation With Solid-state Nmr And X-ray Data
pdb|2LTQ|F Chain F, High Resolution Structure Of Dsbb C41s By Joint
Calculation With Solid-state Nmr And X-ray Data
Length = 221
Score = 34.7 bits (78), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 38/87 (43%), Gaps = 10/87 (11%)
Query: 73 NGTLLIENVQKDHDRGVYWCT-------ATNKQGRSSSQNVHISVTGAPFVRPMGNVSA- 124
N L + K D +Y+C A + G+ +S V + T AP V P+ V
Sbjct: 77 NTLYLQMSSLKSEDTAMYYCARPDYRSYAMDYWGQGTSVTVSSAKTTAPSVYPLAPVCGD 136
Query: 125 IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 137 TTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>pdb|2YR3|A Chain A, Solution Structure Of The Fourth Ig-Like Domain From
Myosin Light Chain Kinase, Smooth Muscle
Length = 99
Score = 34.7 bits (78), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 33/79 (41%), Gaps = 1/79 (1%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQK 174
F + + + I G+ L C V G P+ ITW Q + R L I++
Sbjct: 14 FSSVLKDCAVIEGQDFVLQCSVRGTPVPRITWLLNGQPIQYARSTCEAGVAELHIQDALP 73
Query: 175 DHDRGVYWCTATNKQGRSS 193
+ D G Y C A N G+ S
Sbjct: 74 E-DHGTYTCLAENALGQVS 91
Score = 34.7 bits (78), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 32/87 (36%), Gaps = 22/87 (25%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQ-LPLNRRQKVFPNGT 75
G L+C G P P I+W L+G P+ R + + E +Q LP
Sbjct: 26 GQDFVLQCSVRGTPVPRITWLLNGQPIQYARSTCEAGVAELHIQDALP------------ 73
Query: 76 LLIENVQKDHDRGVYWCTATNKQGRSS 102
D G Y C A N G+ S
Sbjct: 74 ---------EDHGTYTCLAENALGQVS 91
>pdb|1IGT|B Chain B, Structure Of Immunoglobulin
pdb|1IGT|D Chain D, Structure Of Immunoglobulin
Length = 444
Score = 34.7 bits (78), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 35/76 (46%), Gaps = 9/76 (11%)
Query: 83 KDHDRGVYWCT------ATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCP 135
K D +Y+C A + G+ ++ V + T AP V P+ V G + LGC
Sbjct: 87 KSEDTAMYYCARHGGYYAMDYWGQGTTVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCL 146
Query: 136 VAGYPIE--SITWQKG 149
V GY E ++TW G
Sbjct: 147 VKGYFPEPVTLTWNSG 162
>pdb|2Z4Q|B Chain B, Crystal Structure Of A Murine Antibody Fab 528
Length = 218
Score = 34.7 bits (78), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 35/75 (46%), Gaps = 9/75 (12%)
Query: 84 DHDRGVYWCTAT------NKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPV 136
D VY+CT + + G+ +S V + T AP V P+ V G + LGC V
Sbjct: 88 SEDSAVYYCTRSGGPYFFDYWGQGTSLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLV 147
Query: 137 AGYPIE--SITWQKG 149
GY E ++TW G
Sbjct: 148 KGYFPEPVTLTWNSG 162
>pdb|1YEE|H Chain H, Structure Of A Catalytic Antibody, Igg2a Fab Fragment
(D2.5)
Length = 222
Score = 34.3 bits (77), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 38/165 (23%), Positives = 60/165 (36%), Gaps = 34/165 (20%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V L C +G + W YP G + N G+A
Sbjct: 10 ELVRPGASVKLSCKTSGYIFTSYWIHWVKQRAAAGLEWIARIYPGTGSSYYNVKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-----------ATNKQGRSSSQNVH 107
+ K + + +++ D D VY+C + G+ + V
Sbjct: 70 LTA------DKSSSTAYMQLSSLKSD-DSAVYFCVRWGFIPVREDYVLDYWGQGTLVTVS 122
Query: 108 ISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
+ T AP V P+ V G + LGC V GY E ++TW G
Sbjct: 123 SAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 167
>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 = 34.3 bits (77), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 38/162 (23%), Positives = 61/162 (37%), Gaps = 31/162 (19%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRH---ENKNRIGEARVQQLPLNRRQ 68
+ ++PG V + C A+G + G+ L + +N IG + Q
Sbjct: 10 ELVKPGASVKISCKASG-------YSFTGHLLNWVKQSHGKNLEWIGLVHPHNGAITYNQ 62
Query: 69 KVFPNGTLLIENVQK----------DHDRGVYWCT--------ATNKQGRSSSQNVHISV 110
K TL ++ +D VY+C + + G+ +S V +
Sbjct: 63 KFKDKATLTVDRSSTTAYIELVRLTSNDSAVYYCAREDFRYHYSMDYWGQGTSVTVSSAK 122
Query: 111 TGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
T P V P+ V G + LGC V GY E ++TW G
Sbjct: 123 TTPPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 164
>pdb|4F2M|A Chain A, Crystal Structure Of A Tgev Coronavirus Spike Fragment In
Complex With The Tgev Neutralizing Monoclonal Antibody
1af10
pdb|4F2M|C Chain C, Crystal Structure Of A Tgev Coronavirus Spike Fragment In
Complex With The Tgev Neutralizing Monoclonal Antibody
1af10
Length = 221
Score = 34.3 bits (77), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 39/164 (23%), Positives = 64/164 (39%), Gaps = 33/164 (20%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A+G P + W YP G+ + ++ G+A
Sbjct: 10 ELVKPGASVKISCKASGYAFSSSWMNWVKQRPGQGLEWIGRIYPGDGETNYSEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT----------ATNKQGRSSSQNVHI 108
+ K + + ++ D VY+C A + G+ +S V
Sbjct: 70 L------TADKSSSTAYMHLSSL-TSVDSAVYFCARGGYRYDPYYAMDYWGQGTSVTVSS 122
Query: 109 SVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
+ T AP V P+ V G + LGC V GY E ++TW G
Sbjct: 123 AKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 166
>pdb|1Q0Y|H Chain H, Anti-Morphine Antibody 9b1 Complexed With Morphine
Length = 221
Score = 34.3 bits (77), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 42/177 (23%), Positives = 62/177 (35%), Gaps = 36/177 (20%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C ATG P + W + P +GD N+ G+A
Sbjct: 10 ELMKPGASVKISCKATGYTFSSYWIEWVKQRPGHGLEWIGEILPGSGDTIFNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-------ATNKQGRSSSQNVHISVT 111
N + + D VY+C + G+ +S V + T
Sbjct: 70 F-------TADTSSNTAYMQLSSLTSEDSAVYYCARWVLDYYGMDYWGQGTSLTVSSAST 122
Query: 112 GAPFVRPM---GNVSAIAGEPLYLGCPVAGYPIESIT--WQKGVQQLPLNRRQKVFP 163
P V P+ G + LGC V GY E +T W KG L+ FP
Sbjct: 123 TPPSVYPLAPGGXXXXXXSAMVTLGCLVKGYFPEPVTVVWNKG----SLSTGTHTFP 175
>pdb|1Q0X|H Chain H, Anti-Morphine Antibody 9b1 Unliganded Form
Length = 221
Score = 34.3 bits (77), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 42/177 (23%), Positives = 63/177 (35%), Gaps = 36/177 (20%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C ATG P + W + P +GD N+ G+A
Sbjct: 10 ELMKPGASVKISCKATGYTFSSYWIEWVKQRPGHGLEWIGEILPGSGDTIFNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-------ATNKQGRSSSQNVHISVT 111
N + + D VY+C + G+ +S V + T
Sbjct: 70 F-------TADTSSNTAYMQLSSLTSEDSAVYYCARWVLDYYGMDYWGQGTSLTVSSAST 122
Query: 112 GAPFVRPM---GNVSAIAGEPLYLGCPVAGYPIESIT--WQKGVQQLPLNRRQKVFP 163
P V P+ G+ + LGC V GY E +T W KG L+ FP
Sbjct: 123 TPPSVYPLAPGGHHHHHHSAMVTLGCLVKGYFPEPVTVVWNKG----SLSTGTHTFP 175
>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 = 34.3 bits (77), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 33/112 (29%), Positives = 50/112 (44%), Gaps = 16/112 (14%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P IYK + + G V L+C + P P + WK + + N +RI L
Sbjct: 16 PMFIYKPQSKKVLEGDSVKLECQISAIPPPKLFWKRNNEMV----QFNTDRIS------L 65
Query: 63 PLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAP 114
+ +V TLLI++V K D G Y +A N+ G ++ N + VT P
Sbjct: 66 YQDNTGRV----TLLIKDVNK-KDAGWYTVSAVNEAGVTTC-NTRLDVTARP 111
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 43/87 (49%), Gaps = 7/87 (8%)
Query: 124 AIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNR-RQKVFPNG----TLLIENVQKDHDR 178
+ G+ + L C ++ P + W++ + + N R ++ + TLLI++V K D
Sbjct: 27 VLEGDSVKLECQISAIPPPKLFWKRNNEMVQFNTDRISLYQDNTGRVTLLIKDVNK-KDA 85
Query: 179 GVYWCTATNKQGRSSSQNVHISVTVPP 205
G Y +A N+ G ++ N + VT P
Sbjct: 86 GWYTVSAVNEAGVTTC-NTRLDVTARP 111
>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 = 34.3 bits (77), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 41/161 (25%), Positives = 67/161 (41%), Gaps = 30/161 (18%)
Query: 12 QTLQPGPPVSLKCIATGN--PTPHISW-------KLD--GY--PLAGDRHENKNRIGEAR 58
+ ++PG V + C ++G +++W LD GY P +G N+ G+A
Sbjct: 10 ELVKPGASVRMSCKSSGYIFTDFYMNWVRQSHGKSLDYIGYISPYSGVTGYNQKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-------ATNKQGRSSSQNVHISVT 111
+ K + + ++ + D VY+C A + G +S V + T
Sbjct: 70 L------TVDKSSSTAYMELRSLTSE-DSAVYYCAGSSGNKWAMDYWGHGASVTVSSAKT 122
Query: 112 GAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 123 TAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>pdb|1IAI|H Chain H, Idiotype-Anti-Idiotype Fab Complex
Length = 219
Score = 34.3 bits (77), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 39/86 (45%), Gaps = 13/86 (15%)
Query: 76 LLIENVQKDHDRGVYWCT---------ATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-I 125
L I N+ K+ D Y+C A + G+ +S V + T AP V P+ V
Sbjct: 81 LQINNL-KNEDTATYFCARDGYYENYYAMDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDT 139
Query: 126 AGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 140 TGSSVTLGCLVKGYFPEPVTLTWNSG 165
>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 = 34.3 bits (77), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 47/195 (24%), Positives = 73/195 (37%), Gaps = 40/195 (20%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V KC ++G P P + W +G D +RIG +V+ + +++++
Sbjct: 34 VKFKCPSSGTPNPTLRWLKNGKEFKPD-----HRIGGYKVR----------YATWSIIMD 78
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V D+G Y C N+ G S + + V RP+ N + G +
Sbjct: 79 SVVPS-DKGNYTCIVENEYG-SINHTYQLDVVERSPHRPILQAGLPANKTVALGSNVEFM 136
Query: 134 CPVAGYPIESITWQKGVQ---------QLPLNRRQKVFPNGT-------LLIENVQKDHD 177
C V P I W K ++ LP + K T L + NV + D
Sbjct: 137 CKVYSDPQPHIQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEMEVLHLRNVSFE-D 195
Query: 178 RGVYWCTATNKQGRS 192
G Y C A N G S
Sbjct: 196 AGEYTCLAGNSIGLS 210
>pdb|2R56|H Chain H, Crystal Structure Of A Recombinant Ige Fab Fragment In
Complex With Bovine Beta-Lactoglobulin Allergen
pdb|2R56|I Chain I, Crystal Structure Of A Recombinant Ige Fab Fragment In
Complex With Bovine Beta-Lactoglobulin Allergen
Length = 221
Score = 34.3 bits (77), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 37/88 (42%), Gaps = 11/88 (12%)
Query: 167 LLIENVQKDHDRGVYWCTATNK---------QGRSSSQNVHISVTVPPKIAPFEFQPDLH 217
L ++NV +D D +Y+C + GR + V + T P + P
Sbjct: 81 LQMDNV-RDEDTAIYYCAKAKRVGATGYFDLWGRGTLVTVSSASTKGPSVFPLAPSSKST 139
Query: 218 SGDRAGVQCLVTKGDP-PLTISWLKNGL 244
SG A + CLV P P+T+SW L
Sbjct: 140 SGGTAALGCLVKDYFPEPVTVSWNSGAL 167
>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 = 34.3 bits (77), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 59/148 (39%), Gaps = 14/148 (9%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWK-LDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF- 71
++P +SL C TG+ W + +P G++ E I + + + ++
Sbjct: 12 VKPSQTLSLTCSVTGDSVTSDYWSWIRKFP--GNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 72 -----PNGTLLIENVQKDHDRGVYWCTA--TNKQGRSSSQNVHISVTGAPFVRPMGNVSA 124
N L N D Y+C + + G ++ V + T AP V P+ V
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCG 129
Query: 125 -IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTWNSG 157
>pdb|3VFG|H Chain H, Crystal Structure Of Monoclonal Anitbody 3f8 Fab Fragment
That Binds To Gd2 Ganglioside
Length = 219
Score = 33.9 bits (76), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 34/127 (26%), Positives = 53/127 (41%), Gaps = 16/127 (12%)
Query: 50 NKNRIGEARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT--------ATNKQGRS 101
N N +R+ N + +VF L + ++Q D D +Y+C A + G+
Sbjct: 58 NYNSAFMSRLSISKDNSKSQVF----LKMNSLQID-DTAMYYCASRGGHYGYALDYWGQG 112
Query: 102 SSQNVHISVTGAPFVRPMG-NVSAIAGEPLYLGCPVAGYPIESIT--WQKGVQQLPLNRR 158
+S V + T P V P+ S +G + LGC V GY E +T W G +
Sbjct: 113 TSVTVSSASTKGPSVYPLVPGCSDTSGSSVTLGCLVKGYFPEPVTVKWNYGALSSGVRTV 172
Query: 159 QKVFPNG 165
V +G
Sbjct: 173 SSVLQSG 179
>pdb|1XGU|B Chain B, Structure For Antibody Hyhel-63 Y33f Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 33.9 bits (76), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 59/148 (39%), Gaps = 14/148 (9%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWK-LDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF- 71
++P +SL C TG+ W + +P G++ E I + + + ++
Sbjct: 12 VKPSQTLSLTCSVTGDSVTSDFWSWIRKFP--GNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 72 -----PNGTLLIENVQKDHDRGVYWCTA--TNKQGRSSSQNVHISVTGAPFVRPMGNVSA 124
N L N D Y+C + + G ++ V + T AP V P+ V
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCG 129
Query: 125 -IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTWNSG 157
>pdb|1XGQ|B Chain B, Structure For Antibody Hyhel-63 Y33v Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 33.9 bits (76), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 59/148 (39%), Gaps = 14/148 (9%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWK-LDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF- 71
++P +SL C TG+ W + +P G++ E I + + + ++
Sbjct: 12 VKPSQTLSLTCSVTGDSVTSDVWSWIRKFP--GNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 72 -----PNGTLLIENVQKDHDRGVYWCTA--TNKQGRSSSQNVHISVTGAPFVRPMGNVSA 124
N L N D Y+C + + G ++ V + T AP V P+ V
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCG 129
Query: 125 -IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTWNSG 157
>pdb|1FJ1|B Chain B, Lyme Disease Antigen Ospa In Complex With Neutralizing
Antibody Fab La-2
pdb|1FJ1|D Chain D, Lyme Disease Antigen Ospa In Complex With Neutralizing
Antibody Fab La-2
Length = 213
Score = 33.9 bits (76), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 29/92 (31%), Positives = 40/92 (43%), Gaps = 9/92 (9%)
Query: 76 LLIENVQKDHDRGVYWCT-ATNKQGRSSSQNVHISVTGAPFVRPMG-NVSAIAGEPLYLG 133
L I N+ K+ D Y+C + G+ +S V + T P V P+ G + LG
Sbjct: 81 LHISNL-KNEDTATYFCARGLDSWGQGTSVTVSSAKTTPPSVYPLAPGCGDTTGSSVTLG 139
Query: 134 CPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
C V GY ES +TW G L+ FP
Sbjct: 140 CLVKGYFPESVTVTWNSG----SLSSSVHTFP 167
>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 = 33.9 bits (76), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 39/157 (24%), Positives = 57/157 (36%), Gaps = 29/157 (18%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQQ 61
+PG V + C ATG P + W + P G + N+N G+A
Sbjct: 13 KPGASVKISCKATGYTFSSYWIEWIKQRPGHGLEWIGEILPEIGMTNYNENFKGKATF-- 70
Query: 62 LPLNRRQKVFPNGTLLIENVQKDHDRGVYWC------TATNKQGRSSSQNVHISVTGAPF 115
N + + D VY+C + G+ + V + T AP
Sbjct: 71 -----TANTSSNTVYMQLSSLTSEDSAVYYCARPYDYSWFAYWGQGTLVTVSAAKTTAPS 125
Query: 116 VRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V P+ V G + LGC V GY E ++TW G
Sbjct: 126 VYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
>pdb|3KVQ|A Chain A, Crystal Structure Of Vegfr2 Extracellular Domain D7
Length = 108
Score = 33.9 bits (76), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 42/113 (37%), Gaps = 24/113 (21%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQL 62
P + QT G + + C A+GNP P I W D L D
Sbjct: 11 PTITGNLENQTTSIGESIEVSCTASGNPPPQIMWFKDNETLVEDSG-------------- 56
Query: 63 PLNRRQKVFPNG--TLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA 113
V +G L I V+K+ D G+Y C A + G + + I + GA
Sbjct: 57 ------IVLKDGNRNLTIRRVRKE-DEGLYTCQACSVLGCAKVEAFFI-IEGA 101
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 37/83 (44%), Gaps = 4/83 (4%)
Query: 119 MGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNG--TLLIENVQKDH 176
+ N + GE + + C +G P I W K + L + V +G L I V+K+
Sbjct: 17 LENQTTSIGESIEVSCTASGNPPPQIMWFKDNETL-VEDSGIVLKDGNRNLTIRRVRKE- 74
Query: 177 DRGVYWCTATNKQGRSSSQNVHI 199
D G+Y C A + G + + I
Sbjct: 75 DEGLYTCQACSVLGCAKVEAFFI 97
>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 = 33.9 bits (76), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 40/173 (23%), Positives = 65/173 (37%), Gaps = 28/173 (16%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRH---ENKNRIGEARVQQLPLNRRQKV 70
+QPG L C A+G + GY ++ R + IGE +N +
Sbjct: 12 VQPGGSQKLSCAASG-------FDFSGYWMSWVRQAPGKGLEWIGEINPDSSTINYTPSL 64
Query: 71 FPNGTLLIENVQ----------KDHDRGVYWC-----TATNKQGRSSSQNVHISVTGAPF 115
+ +N + + D +Y+C T + G+ ++ V + T AP
Sbjct: 65 KDKFIISRDNAKNTLYLQMSKVRSEDTALYYCARETGTRFDYWGQGTTLTVSSATTTAPS 124
Query: 116 VRPMG-NVSAIAGEPLYLGCPVAGYPIESIT--WQKGVQQLPLNRRQKVFPNG 165
V P+ S +G + LGC V GY E +T W G + V +G
Sbjct: 125 VYPLVPGCSDTSGSSVTLGCLVKGYFPEPVTVKWNYGALSSGVRTVSSVLQSG 177
>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 = 33.9 bits (76), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 47/195 (24%), Positives = 73/195 (37%), Gaps = 40/195 (20%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V KC ++G P P + W +G D +RIG +V+ + +++++
Sbjct: 34 VKFKCPSSGTPQPTLRWLKNGKEFKPD-----HRIGGYKVR----------YATWSIIMD 78
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V D+G Y C N+ G S + + V RP+ N + G +
Sbjct: 79 SVVPS-DKGNYTCIVENEYG-SINHTYQLDVVERSPHRPILQAGLPANKTVALGSNVEFM 136
Query: 134 CPVAGYPIESITWQKGVQ---------QLPLNRRQKVFPNGT-------LLIENVQKDHD 177
C V P I W K ++ LP + K T L + NV + D
Sbjct: 137 CKVYSDPQPHIQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEMEVLHLRNVSFE-D 195
Query: 178 RGVYWCTATNKQGRS 192
G Y C A N G S
Sbjct: 196 AGEYTCLAGNSIGLS 210
>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 = 33.9 bits (76), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 7/86 (8%)
Query: 121 NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPN---GTLLIENVQKDHD 177
+++ GE C G P+ ++TW + Q L + R +V T I +VQ D
Sbjct: 17 SMTVYEGESARFSCDTDGEPVPTVTWLRKGQVLSTSARHQVTTTKYKSTFEISSVQAS-D 75
Query: 178 RGVYWCTATNKQGRSSSQNVHISVTV 203
G Y N +G+ Q ++T+
Sbjct: 76 EGNYSVVVENSEGK---QEAEFTLTI 98
>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 = 33.9 bits (76), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 7/86 (8%)
Query: 121 NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPN---GTLLIENVQKDHD 177
+++ GE C G P+ ++TW + Q L + R +V T I +VQ D
Sbjct: 23 SMTVYEGESARFSCDTDGEPVPTVTWLRKGQVLSTSARHQVTTTKYKSTFEISSVQAS-D 81
Query: 178 RGVYWCTATNKQGRSSSQNVHISVTV 203
G Y N +G+ Q ++T+
Sbjct: 82 EGNYSVVVENSEGK---QEAEFTLTI 104
>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 = 33.9 bits (76), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 21/38 (55%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHEN 50
T+Q G ++L C G+P P +SW + LA D H N
Sbjct: 233 TIQEGKALNLTCNVWGDPPPEVSWLKNEKALASDDHCN 270
>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 = 33.9 bits (76), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 37/158 (23%), Positives = 59/158 (37%), Gaps = 27/158 (17%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C ATG P + W + P +G + N+ G+A
Sbjct: 10 EVMKPGASVKISCKATGYTFSTYWIEWVKQRPGHGLEWIGEILPGSGSTYYNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQ----GRSSSQNVHISVTGAP 114
N + + D VY+C + G+ ++ V + T P
Sbjct: 70 F-------TADTSSNTAYMQLSSLTSEDSAVYYCARGDGNYGYWGQGTTLTVSSASTTPP 122
Query: 115 FVRPMGNVSAIAGEPLY-LGCPVAGYPIE--SITWQKG 149
V P+ SA + LGC V GY E ++TW G
Sbjct: 123 SVFPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSG 160
>pdb|1MJ8|H Chain H, High Resolution Crystal Structure Of The Fab Fragment Of
The Esterolytic Antibody Ms6-126
Length = 230
Score = 33.9 bits (76), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 39/161 (24%), Positives = 65/161 (40%), Gaps = 30/161 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V L C A+G P + W + YP +G + N+ +A
Sbjct: 10 ELVKPGASVKLSCKASGYTFTSNWINWVKQRPGQGLEWIGNIYPGSGYTNYNERFKSKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNK-------QGRSSSQNVHISVT 111
L ++ + + ++ D D VY+C + G+ + V + T
Sbjct: 70 ---LTVDTSSS---TAYMQLSSLTSD-DSAVYYCARKHYFYDGVVYWGQGTLVTVSAAKT 122
Query: 112 GAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V +G + LGC V GY E ++TW G
Sbjct: 123 TAPSVYPLAPVCGDTSGSSVTLGCLVKGYFPEPVTLTWNSG 163
>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 = 33.9 bits (76), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 47/195 (24%), Positives = 73/195 (37%), Gaps = 40/195 (20%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V KC ++G P P + W +G D +RIG +V+ + +++++
Sbjct: 35 VKFKCPSSGTPQPTLRWLKNGKEFKPD-----HRIGGYKVR----------YATWSIIMD 79
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPM------GNVSAIAGEPLYLG 133
+V D+G Y C N+ G S + + V RP+ N + G +
Sbjct: 80 SVVPS-DKGNYTCIVENEYG-SINHTYQLDVVERSPHRPILQAGLPANKTVALGSNVEFM 137
Query: 134 CPVAGYPIESITWQKGVQ---------QLPLNRRQKVFPNGT-------LLIENVQKDHD 177
C V P I W K ++ LP + K T L + NV + D
Sbjct: 138 CKVYSDPQPHIQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEMEVLHLRNVSFE-D 196
Query: 178 RGVYWCTATNKQGRS 192
G Y C A N G S
Sbjct: 197 AGEYTCLAGNSIGLS 211
>pdb|1XGT|B Chain B, Structure For Antibody Hyhel-63 Y33l Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 33.9 bits (76), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 59/148 (39%), Gaps = 14/148 (9%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWK-LDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF- 71
++P +SL C TG+ W + +P G++ E I + + + ++
Sbjct: 12 VKPSQTLSLTCSVTGDSVTSDLWSWIRKFP--GNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 72 -----PNGTLLIENVQKDHDRGVYWCTA--TNKQGRSSSQNVHISVTGAPFVRPMGNVSA 124
N L N D Y+C + + G ++ V + T AP V P+ V
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCG 129
Query: 125 -IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTWNSG 157
>pdb|1XGR|B Chain B, Structure For Antibody Hyhel-63 Y33i Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 33.9 bits (76), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 59/148 (39%), Gaps = 14/148 (9%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWK-LDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF- 71
++P +SL C TG+ W + +P G++ E I + + + ++
Sbjct: 12 VKPSQTLSLTCSVTGDSVTSDIWSWIRKFP--GNKLEYMGYISYSGSTYYHPSLKSRISI 69
Query: 72 -----PNGTLLIENVQKDHDRGVYWCTA--TNKQGRSSSQNVHISVTGAPFVRPMGNVSA 124
N L N D Y+C + + G ++ V + T AP V P+ V
Sbjct: 70 TRDTSKNQYYLQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCG 129
Query: 125 -IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 130 DTTGSSVTLGCLVKGYFPEPVTLTWNSG 157
>pdb|1Q72|H Chain H, Anti-Cocaine Antibody M82g2 Complexed With Cocaine
Length = 223
Score = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 68/161 (42%), Gaps = 30/161 (18%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
+QPG + L C A+G +P + W + + + + + E+
Sbjct: 12 VQPGGSMKLSCAASGFTFSDAWVDWVRQSPGKGLEWVAE---IRNKANNHATKYTESVKG 68
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSS---QNVHISVTGA---- 113
+ ++R + L N + D G+Y+CT+ + GR + Q ++V+ A
Sbjct: 69 RFTISRDDS--KSSVYLQMNSLRAEDTGIYYCTSVPQLGRGFAYWGQGTLVTVSAASTTP 126
Query: 114 PFVRPMG---NVSAIAGEPLYLGCPVAGYPIE--SITWQKG 149
P V P+ ++ +G + LGC V GY E ++TW G
Sbjct: 127 PSVYPLAPGSGGASTSGSMVTLGCLVKGYFPEPVTVTWNSG 167
Score = 27.7 bits (60), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 36/87 (41%), Gaps = 10/87 (11%)
Query: 168 LIENVQKDHDRGVYWCTATNKQGRSSSQ-------NVHISVTVPPKIAPFE--FQPDLHS 218
L N + D G+Y+CT+ + GR + V + T PP + P S
Sbjct: 83 LQMNSLRAEDTGIYYCTSVPQLGRGFAYWGQGTLVTVSAASTTPPSVYPLAPGSGGASTS 142
Query: 219 GDRAGVQCLVTKGDP-PLTISWLKNGL 244
G + CLV P P+T++W L
Sbjct: 143 GSMVTLGCLVKGYFPEPVTVTWNSGAL 169
>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 = 33.5 bits (75), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 68/161 (42%), Gaps = 30/161 (18%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
+QPG + L C A+G +P + W + + + + + E+
Sbjct: 12 VQPGGSMKLSCAASGFTFSDAWVDWVRQSPGKGLEWVAE---IRNKANNHATKYTESVKG 68
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSS---QNVHISVTGA---- 113
+ ++R + L N + D G+Y+CT+ + GR + Q ++V+ A
Sbjct: 69 RFTISRDDS--KSSVYLQMNSLRAEDTGIYYCTSVPQLGRGFAYWGQGTLVTVSAASTTP 126
Query: 114 PFVRPMG---NVSAIAGEPLYLGCPVAGYPIE--SITWQKG 149
P V P+ ++ +G + LGC V GY E ++TW G
Sbjct: 127 PSVYPLAPGSGGASTSGSMVTLGCLVKGYFPEPVTVTWNSG 167
Score = 27.7 bits (60), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 35/84 (41%), Gaps = 10/84 (11%)
Query: 171 NVQKDHDRGVYWCTATNKQGRSSSQ-------NVHISVTVPPKIAPFE--FQPDLHSGDR 221
N + D G+Y+CT+ + GR + V + T PP + P SG
Sbjct: 86 NSLRAEDTGIYYCTSVPQLGRGFAYWGQGTLVTVSAASTTPPSVYPLAPGSGGASTSGSM 145
Query: 222 AGVQCLVTKGDP-PLTISWLKNGL 244
+ CLV P P+T++W L
Sbjct: 146 VTLGCLVKGYFPEPVTVTWNSGAL 169
>pdb|1EGJ|H Chain H, Domain 4 Of The Beta Common Chain In Complex With An
Antibody
Length = 220
Score = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 60/161 (37%), Gaps = 30/161 (18%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNR---IGEARVQQLPLNRRQ 68
+ ++PG V + C A+G + Y + +H + IG+ Q
Sbjct: 10 ELVKPGTSVKMSCKASG-------YTFTDYYMKWVKHSHGKSLEWIGDINPSNGGTLYNQ 62
Query: 69 KVFPNGTLLIENVQK----------DHDRGVYWCTATN-------KQGRSSSQNVHISVT 111
K TL ++ D VY+C+ + G+ ++ V + T
Sbjct: 63 KFKGKATLTVDKSSSTASMQLSRLTSEDSAVYYCSRGDGIHGGFAYWGQGTTVTVSSAKT 122
Query: 112 GAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 123 TAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>pdb|1FPT|H Chain H, Three-Dimensional Structure Of The Complex Between The Fab
Fragment Of An Neutralizing Antibody For Type 1
Poliovirus And Its Viral Epitope
Length = 220
Score = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 39/162 (24%), Positives = 64/162 (39%), Gaps = 31/162 (19%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A+G P + W P +G N N G+A
Sbjct: 10 ELVRPGTSVKVSCKASGYAFTNYLIQWIKQRPGQGLEWIGVINPGSGGTDYNANFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT--------ATNKQGRSSSQNVHISV 110
L ++ + + + ++ D D VY+C + G+ ++ V +
Sbjct: 70 ---LTADKSSSIV---YMQLSSLTSD-DSAVYFCARDFYDYDVGFDYWGQGTTLTVSSAK 122
Query: 111 TGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
T AP V P+ V G + LGC V GY E ++TW G
Sbjct: 123 TTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 164
>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 = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 36/85 (42%), Gaps = 8/85 (9%)
Query: 73 NGTLLIENVQKDHDRGVYWCTATNK-----QGRSSSQNVHISVTGAPFVRPMGNVSA-IA 126
N + N D VY+C + + G ++ V + T AP V P+ V
Sbjct: 77 NTAYMQLNSLTSEDSAVYYCARSGRLYFDVWGAGTTVTVSSAKTTAPPVYPLAPVCGDTT 136
Query: 127 GEPLYLGCPVAGYPIESIT--WQKG 149
G + LGC V GY ES+T W G
Sbjct: 137 GSSVTLGCLVKGYFPESVTLLWNSG 161
>pdb|1JGV|H Chain H, Structural Basis For Disfavored Elimination Reaction In
Catalytic Antibody 1d4
Length = 218
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 36/158 (22%), Positives = 59/158 (37%), Gaps = 29/158 (18%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEA-------RVQQLP--- 63
++PG + L C A+G + GY ++ R + R+ R+ L
Sbjct: 12 VKPGGSLQLSCAASG-------FTFSGYAMSWFRLTPEKRLEWVASIYNGFRIHYLDSVK 64
Query: 64 --LNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGR-------SSSQNVHISVTGAP 114
N L + + D +Y+C+ + R ++ V + T AP
Sbjct: 65 GRFTISSDYARNILYLQMSTLRSEDTAMYYCSRGDAYSRYFDVWGAGTTVTVSAAKTTAP 124
Query: 115 FVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V P+ V G + LGC V GY E ++TW G
Sbjct: 125 SVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
>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 = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 36/155 (23%), Positives = 61/155 (39%), Gaps = 21/155 (13%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISWK-LDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF 71
++P +SL C TG + T +W + +P G++ E I + + + ++
Sbjct: 12 VKPSQSLSLTCTVTGYSITSDYAWNWIRQFP--GNKLEWMGYISYSGSTSYSPSLKSRIS 69
Query: 72 ------PNGTLLIENVQKDHDRGVYWCTAT---------NKQGRSSSQNVHISVTGAPFV 116
N L N D Y+C + + G+ ++ V + T P V
Sbjct: 70 LTRDTSKNQFFLQLNSVTTEDTATYYCVTSLTWLLRRKRSYWGQGTTVTVSSASTKGPSV 129
Query: 117 RPMGNVSAIAGEPLYLGCPVAGYPIE--SITWQKG 149
P+ S A + LGC V GY E ++TW G
Sbjct: 130 YPLAPGSKAAASMVTLGCLVKGYFPEPVTVTWNSG 164
>pdb|2QHR|H Chain H, Crystal Structure Of The 13f6-1-2 Fab Fragment Bound To
Its Ebola Virus Glycoprotein Peptide Epitope
Length = 222
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 39/91 (42%), Gaps = 14/91 (15%)
Query: 73 NGTLLIENVQKDHDRGVYWCT-----------ATNKQGRSSSQNVHISVTGAPFVRPMGN 121
N L + K D +Y+C+ A + G+ +S V + T AP V P+
Sbjct: 77 NTLYLQMSSLKSEDTAMYYCSRHIYYGSSHYYAMDYWGQGTSVTVSSAKTTAPSVYPLAP 136
Query: 122 VSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V G + LGC V GY E ++TW G
Sbjct: 137 VCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 167
>pdb|1JGU|H Chain H, Structural Basis For Disfavored Elimination Reaction In
Catalytic Antibody 1d4
Length = 217
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 36/158 (22%), Positives = 59/158 (37%), Gaps = 29/158 (18%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEA-------RVQQLP--- 63
++PG + L C A+G + GY ++ R + R+ R+ L
Sbjct: 12 VKPGGSLQLSCAASG-------FTFSGYAMSWFRLTPEKRLEWVASIYNGFRIHYLDSVK 64
Query: 64 --LNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGR-------SSSQNVHISVTGAP 114
N L + + D +Y+C+ + R ++ V + T AP
Sbjct: 65 GRFTISSDYARNILYLQMSTLRSEDTAMYYCSRGDAYSRYFDVWGAGTTVTVSAAKTTAP 124
Query: 115 FVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V P+ V G + LGC V GY E ++TW G
Sbjct: 125 SVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
>pdb|1ORQ|B Chain B, X-Ray Structure Of A Voltage-Dependent Potassium Channel
In Complex With An Fab
Length = 219
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 42/157 (26%), Positives = 67/157 (42%), Gaps = 27/157 (17%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISW---------KLD--GYPLAGDRHENKNRIGEARVQQ 61
++P +SL C TG + T +W KL+ GY + + + N ++R+
Sbjct: 12 VKPSQSLSLTCTVTGYSITSLYAWNWIRQFPGNKLEWMGY-INYSGYTSYNPSLKSRISI 70
Query: 62 LPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT------ATNKQGRSSSQNVHISVTGAPF 115
+ + F L + +V + D Y CT A + G+ +S V + T AP
Sbjct: 71 TRDTSKNQFF----LQLHSVTTE-DTATYSCTRGVDYFAMDYWGQGASVTVSSAKTTAPS 125
Query: 116 VRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V P+ V G + LGC V GY E ++TW G
Sbjct: 126 VYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
>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 = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 5/83 (6%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKV----FPNGTLLIE 170
F + + ++ + G C V GYP + W K + +R ++ N +L I
Sbjct: 44 FTKTILDMDVVEGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHFQIDYDEEGNCSLTIS 103
Query: 171 NVQKDHDRGVYWCTATNKQGRSS 193
V D D Y C A N G ++
Sbjct: 104 EVCGDDD-AKYTCKAVNSLGEAT 125
>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 = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 37/158 (23%), Positives = 59/158 (37%), Gaps = 27/158 (17%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A+G P + W + P +G + ++ G+A
Sbjct: 10 ELMKPGASVKISCKASGYTFSDYWIEWVKQRPGHGLEWIGEILPGSGSTNYHERFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA----P 114
+ + N D GVY+C N Q ++V+ A P
Sbjct: 70 F-------TADTSSSTAYMQLNSLTSEDSGVYYCLHGNYDFDGWGQGTTLTVSSAKTTPP 122
Query: 115 FVRPMGNVSAIAGEPLY-LGCPVAGYPIE--SITWQKG 149
V P+ SA + LGC V GY E ++TW G
Sbjct: 123 SVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSG 160
>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 = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 4/85 (4%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTL 76
G V L C A G+P P I W +G G AR+ ++ ++ T+
Sbjct: 36 GGSVELHCEAVGSPVPEIQWWFEG---QGPNDIXSQLWDGARLDRVHIHATYHQHAASTI 92
Query: 77 LIENVQKDHDRGVYWCTATNKQGRS 101
I+ + ++ D G Y C A+N R+
Sbjct: 93 SIDTLVEE-DTGTYECRASNDPDRN 116
>pdb|1YQV|H Chain H, The Crystal Structure Of The Antibody Fab Hyhel5 Complex
With Lysozyme At 1.7a Resolution
Length = 215
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 37/158 (23%), Positives = 59/158 (37%), Gaps = 27/158 (17%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A+G P + W + P +G + ++ G+A
Sbjct: 10 ELMKPGASVKISCKASGYTFSDYWIEWVKQRPGHGLEWIGEILPGSGSTNYHERFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA----P 114
+ + N D GVY+C N Q ++V+ A P
Sbjct: 70 F-------TADTSSSTAYMQLNSLTSEDSGVYYCLHGNYDFDGWGQGTTLTVSSAKTTPP 122
Query: 115 FVRPMGNVSAIAGEPLY-LGCPVAGYPIE--SITWQKG 149
V P+ SA + LGC V GY E ++TW G
Sbjct: 123 SVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSG 160
>pdb|1IGC|H Chain H, Igg1 Fab Fragment (Mopc21) Complex With Domain Iii Of
Protein G From Streptococcus
Length = 222
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 38/92 (41%), Gaps = 10/92 (10%)
Query: 163 PNGTLLIENVQ-KDHDRGVYWCT--------ATNKQGRSSSQNVHISVTVPPKIAPFEFQ 213
P TL ++ + D G+Y+C A + G+ +S V + T PP + P
Sbjct: 75 PKNTLFLQMTSLRSEDTGMYYCARWGNYPYYAMDYWGQGTSVTVSSAKTTPPSVYPLAPG 134
Query: 214 PDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
+ + CLV P P+T++W L
Sbjct: 135 SAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSL 166
>pdb|3LEY|H Chain H, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 6a7 In Complex With Hiv-1 Gp41
Length = 221
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 40/153 (26%), Positives = 59/153 (38%), Gaps = 21/153 (13%)
Query: 14 LQPGPPVSLKCIATGN-PTPHISWK-LDGYPLAGDRHENKNRIGEARV--------QQLP 63
++P +SL C TG T +W + +P G++ E I + Q+
Sbjct: 12 VKPSQSLSLTCTVTGYLITTDYAWNWIRQFP--GNKLEWMGYISYSGFTSYNPSLKSQIS 69
Query: 64 LNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNK----QGRSSSQNVHISVTGAPFVRPM 119
+ R N L N D Y+C N G+ + V + T AP V P+
Sbjct: 70 ITRDTS--KNQFFLQLNSVTTEDTATYYCAFGNYLPAYWGQGTLVTVSAAKTTAPSVYPL 127
Query: 120 GNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V G + LGC V GY E ++TW G
Sbjct: 128 APVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 160
>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 = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 38/161 (23%), Positives = 60/161 (37%), Gaps = 30/161 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C ATG P + W + P +G + N+ G+A
Sbjct: 10 ELMKPGASVKISCKATGYTFSNYWIDWIKQRPGHGLEWIGEILPGSGSTNYNEKFRGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-------ATNKQGRSSSQNVHISVT 111
N + + D VY+CT + G+ ++ V + T
Sbjct: 70 FT-------ADTSSNTAYMQLSSLTSEDSAVYYCTRRGYWAYDFDYWGQGTTLTVSSAKT 122
Query: 112 GAPFVRPMGNVSAIAGEPLY-LGCPVAGYPIE--SITWQKG 149
P V P+ SA + LGC V GY E ++TW G
Sbjct: 123 TPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSG 163
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 19/78 (24%), Positives = 31/78 (39%), Gaps = 8/78 (10%)
Query: 175 DHDRGVYWCT-------ATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCL 227
D VY+CT + G+ ++ V + T PP + P + + CL
Sbjct: 88 SEDSAVYYCTRRGYWAYDFDYWGQGTTLTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCL 147
Query: 228 VTKGDP-PLTISWLKNGL 244
V P P+T++W L
Sbjct: 148 VKGYFPEPVTVTWNSGSL 165
>pdb|4EOW|H Chain H, Crystal Structure Of A Disease-Associated Anti-Human
Gm-Csf Autoantibody Mb007
Length = 228
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 30/70 (42%), Gaps = 1/70 (1%)
Query: 176 HDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDP-P 234
+D+ YW + GR + V + T P + P SG A + CLV P P
Sbjct: 104 YDKTEYWEDGFDVWGRGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEP 163
Query: 235 LTISWLKNGL 244
+T+SW L
Sbjct: 164 VTVSWNSGAL 173
>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 = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 39/165 (23%), Positives = 60/165 (36%), Gaps = 21/165 (12%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISWK-LDGYP------LAGDRHENKNRIGEARVQQLPLN 65
++P +SL C TG + T +W + +P + R+ R + ++ +
Sbjct: 12 VKPSQSLSLTCTVTGYSITSGYAWNWIRQFPGNKLEWMGYIRYSGDTRYNPSLKSRISIT 71
Query: 66 RRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA----PFVRPMG- 120
R N L N D Y+C Q ++V+ A P V P+
Sbjct: 72 RDTS--KNQFFLQLNSVTTEDTATYYCAIGYGNSDYWGQGTLVTVSAAKTTPPSVYPLAP 129
Query: 121 NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
G + LGC V GY ES +TW G L+ FP
Sbjct: 130 GCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHAFP 170
>pdb|1FHG|A Chain A, High Resolution Refinement Of Telokin
Length = 154
Score = 33.1 bits (74), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 34/83 (40%), Gaps = 5/83 (6%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKV----FPNGTLLIE 170
F + + ++ + G C V GYP + W K + +R ++ N +L I
Sbjct: 44 FTKTILDMEVVEGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHFQIDYDEEGNCSLTIS 103
Query: 171 NVQKDHDRGVYWCTATNKQGRSS 193
V D D Y C A N G ++
Sbjct: 104 EVCGDDD-AKYTCKAVNSLGEAT 125
>pdb|1CF8|H Chain H, Convergence Of Catalytic Antibody And Terpene Cyclase
Mechanisms: Polyene Cyclization Directed By
Carbocation-pi Interactions
Length = 218
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 39/165 (23%), Positives = 60/165 (36%), Gaps = 21/165 (12%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISWK-LDGYP------LAGDRHENKNRIGEARVQQLPLN 65
++P +SL C TG + T +W + +P + R+ R + ++ +
Sbjct: 12 VKPSQSLSLTCTVTGYSITSGYAWNWIRQFPGNKLEWMGYIRYSGDTRYNPSLKSRISIT 71
Query: 66 RRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA----PFVRPMG- 120
R N L N D Y+C Q ++V+ A P V P+
Sbjct: 72 RDTS--KNQFFLQLNSVTTEDTATYYCAIGYGNSDYWGQGTLVTVSAAKTTPPSVYPLAP 129
Query: 121 NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
G + LGC V GY ES +TW G L+ FP
Sbjct: 130 GCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHAFP 170
>pdb|2VWE|E Chain E, Crystal Structure Of Vascular Endothelial Growth Factor-B
In Complex With A Neutralizing Antibody Fab Fragment
pdb|2VWE|L Chain L, Crystal Structure Of Vascular Endothelial Growth Factor-B
In Complex With A Neutralizing Antibody Fab Fragment
Length = 219
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 42/166 (25%), Positives = 61/166 (36%), Gaps = 39/166 (23%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNR-------IGEARVQQLPL 64
+ ++PG V L C A+G + G+ + H K R IG
Sbjct: 10 ELVKPGASVKLSCKASG-------YTFTGFWI----HWVKQRPGQGLEWIGHINPGNGGT 58
Query: 65 NRRQKVFPNGTLLIENVQK----------DHDRGVYWCT--------ATNKQGRSSSQNV 106
N +K TL ++ D VY+C A + G+ +S V
Sbjct: 59 NYNEKFKRMATLTVDKSSSTAYMQLSSLTSEDSAVYYCARSYSNYVRAMDYWGQGTSVTV 118
Query: 107 HISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
+ T AP V P+ V G + LGC V GY E ++TW G
Sbjct: 119 SSAKTTAPSVYPLVPVCGGTTGSSVTLGCLVKGYFPEPVTLTWNSG 164
>pdb|1NCB|H Chain H, Crystal Structures Of Two Mutant Neuraminidase-Antibody
Complexes With Amino Acid Substitutions In The Interface
pdb|1NCD|H Chain H, Refined Crystal Structure Of The Influenza Virus N9
Neuraminidase-Nc41 Fab Complex
Length = 221
Score = 33.1 bits (74), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 41/85 (48%), Gaps = 12/85 (14%)
Query: 76 LLIENVQKDHDRGVYWC--------TATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IA 126
L I N+ K+ D+ ++C + ++ G+ ++ V + T AP V P+ V
Sbjct: 81 LQINNL-KNEDKATFFCARGEDNFGSLSDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTT 139
Query: 127 GEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 140 GSSVTLGCLVKGYFPEPVTLTWNSG 164
>pdb|2GJZ|H Chain H, Structure Of Catalytic Elimination Antibody 13g5 From A
Crystal In Space Group P2(1)
pdb|2GJZ|B Chain B, Structure Of Catalytic Elimination Antibody 13g5 From A
Crystal In Space Group P2(1)
pdb|2GK0|H Chain H, Structure Of Catalytic Elimination Antibody 13g5 From A
Twinned Crystal In Space Group C2
pdb|2GK0|B Chain B, Structure Of Catalytic Elimination Antibody 13g5 From A
Twinned Crystal In Space Group C2
Length = 221
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 33/127 (25%), Positives = 51/127 (40%), Gaps = 22/127 (17%)
Query: 50 NKNRIGEARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT----------ATNKQG 99
N N +R+ N + +VF L + ++Q D D VY+C + G
Sbjct: 58 NYNSALMSRLSISKDNSKSQVF----LKMNSLQTD-DTAVYYCAKHWGGYYIPYGMDHWG 112
Query: 100 RSSSQNVHISVTGAPFVRPMG-NVSAIAGEPLYLGCPVAGYPIE--SITWQKGVQQLPLN 156
+ ++ V + T P V P+ G + LGC V GY E ++TW G L+
Sbjct: 113 QGTTVTVSSAKTTPPSVYPLAPGCGDTTGSSVTLGCLVKGYFPEPVTVTWNSG----SLS 168
Query: 157 RRQKVFP 163
FP
Sbjct: 169 SSVHTFP 175
>pdb|15C8|H Chain H, Catalytic Antibody 5c8, Free Fab
pdb|25C8|H Chain H, Catalytic Antibody 5c8, Fab-Hapten Complex
pdb|35C8|H Chain H, Catalytic Antibody 5c8, Fab-Inhibitor Complex
Length = 217
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 38/161 (23%), Positives = 58/161 (36%), Gaps = 30/161 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V L C A+G P + W P G+ + G+A
Sbjct: 10 ELVKPGASVKLSCTASGFNIKDTYMHWVKQKPEQGLEWIAQIDPANGNTKYDPKFQGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTAT-------NKQGRSSSQNVHISVT 111
+ N L + D VY+C A + G+ ++ V + T
Sbjct: 70 I-------TADTSSNTAYLHLSSLTSEDSAVYYCAADPPYYGHGDYWGQGTTLTVSSAKT 122
Query: 112 GAPFVRPMGNVSAIAGEPLY-LGCPVAGYPIE--SITWQKG 149
P V P+ SA + LGC V GY E ++TW G
Sbjct: 123 TPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSG 163
>pdb|2Y6S|D Chain D, Structure Of An Ebolavirus-Protective Antibody In Complex
With Its Mucin-Domain Linear Epitope
pdb|2Y6S|H Chain H, Structure Of An Ebolavirus-Protective Antibody In Complex
With Its Mucin-Domain Linear Epitope
Length = 213
Score = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 32/72 (44%), Gaps = 2/72 (2%)
Query: 175 DHDRGVYWC-TATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDP 233
D VY+C TA + G+ ++ V + T PP + P + + CLV P
Sbjct: 88 SEDSAVYFCATAFDYWGQGTTLTVSSAATTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFP 147
Query: 234 -PLTISWLKNGL 244
P+T++W L
Sbjct: 148 EPVTVTWNSGSL 159
>pdb|3G5Y|B Chain B, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 216
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 36/151 (23%), Positives = 58/151 (38%), Gaps = 17/151 (11%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISWK-LDGYP------LAGDRHENKNRIGEARVQQLPLN 65
++P +SL C TG + T +W + +P + + R + ++ +
Sbjct: 12 VKPSQSLSLTCTVTGYSITSDYAWNWIRQFPGNKLEWMGYISYSANTRYNPSLKSRISIT 71
Query: 66 RRQKVFPNGTLLIENVQKDHDRGVYWCTATNK----QGRSSSQNVHISVTGAPFVRPMGN 121
R N L N D Y+C + G+ + V + T AP V P+
Sbjct: 72 RDTS--KNQFFLQLNSVTVEDTATYYCATAGRGFPYWGQGTLVTVSAAKTTAPSVYPLAP 129
Query: 122 VSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V G + LGC V GY E ++TW G
Sbjct: 130 VCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 160
>pdb|1MEX|H Chain H, Antibody Catalysis Of A Bimolecular Cycloaddition Reaction
Length = 215
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 42/157 (26%), Positives = 64/157 (40%), Gaps = 26/157 (16%)
Query: 12 QTLQPGPPVSLKCIATGNP-TPH-ISW---------KLDGY--PLAGDRHENKNRIGEAR 58
+ ++PG V + C A+G T H I W + GY P GD N+ G+A
Sbjct: 10 ELVKPGASVKISCKASGYTFTDHAIHWVKQKPEQGLEWIGYISPGNGDIKYNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTAT--NKQGRSSSQNVHISVTGAPFV 116
L ++ + N D VY+C + G+ ++ V T P V
Sbjct: 70 ---LTADKSSST----AYMQLNSLTSEDSAVYFCKMEYLDYWGQGTTLTVSSGGTTPPSV 122
Query: 117 RPM--GNVSAIAGEPLYLGCPVAGYPIE--SITWQKG 149
P+ G+ + A + LGC V GY E ++TW G
Sbjct: 123 YPLAPGSAAQAATNSVTLGCLVKGYFPEPVTVTWNSG 159
>pdb|4AEH|H Chain H, Crystal Structure Of The Anti-Aahi Fab9c2 Antibody
Length = 231
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 63/161 (39%), Gaps = 30/161 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V L C A+G P + W + P G + N N +++
Sbjct: 10 EVVKPGASVRLSCKASGYSFTSNWINWVKQRPGQGLEWIGNISP--GGSNTNHNEKFKSK 67
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-------ATNKQGRSSSQNVHISVT 111
+ + + ++ D D VY+C + + G+ ++ V + T
Sbjct: 68 ATLTADTSSSTAY----MQLSSLTSD-DSAVYYCARYDGDYGSFDYWGQGTTLTVSSAKT 122
Query: 112 GAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 123 TAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>pdb|3QR2|A Chain A, Wild Type Cd147 Ig0 Domain
pdb|3QR2|B Chain B, Wild Type Cd147 Ig0 Domain
Length = 137
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 4/85 (4%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTL 76
G V L C A G+P P I W +G G AR+ ++ ++ T+
Sbjct: 36 GGSVELHCEAVGSPVPEIQWWFEG---QGPNDICSQLWDGARLDRVHIHATYHQHAASTI 92
Query: 77 LIENVQKDHDRGVYWCTATNKQGRS 101
I+ + ++ D G Y C A+N R+
Sbjct: 93 SIDTLVEE-DTGTYECRASNDPDRN 116
>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 = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 38/161 (23%), Positives = 61/161 (37%), Gaps = 30/161 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V L C A+G P + W + YP D + R
Sbjct: 10 ELVKPGASVKLSCKASGYTFTSNWINWVKQRPGQGLEWIGNIYP---DSYRTNYNEKFKR 66
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQ-------GRSSSQNVHISVT 111
L ++ + + ++ D D VY+C + G+ + V + T
Sbjct: 67 KATLTVDTSSS---TAYMQLSSLTSD-DSAVYYCVRKHYSYDGVVYWGQGTLVTVSAAKT 122
Query: 112 GAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V +G + LGC V GY E ++TW G
Sbjct: 123 TAPSVYPLAPVCGDTSGSSVTLGCLVKGYFPEPVTLTWNSG 163
>pdb|3V6F|A Chain A, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6F|C Chain C, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6F|E Chain E, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6F|H Chain H, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6Z|A Chain A, Crystal Structure Of Hepatitis B Virus E-antigen
pdb|3V6Z|C Chain C, Crystal Structure Of Hepatitis B Virus E-antigen
Length = 224
Score = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 38/95 (40%), Gaps = 18/95 (18%)
Query: 83 KDHDRGVYWCTATNKQGRSSS-------QNVHISVTGA----PFVRPMG-NVSAIAGEPL 130
K D +Y+CT SSS Q ++V+ A P V P+ G +
Sbjct: 87 KSEDTAMYYCTREGAYSGSSSYPMDYWGQGTSVTVSSAKTTPPSVYPLAPGCGDTTGSSV 146
Query: 131 YLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
LGC V GY ES +TW G L+ FP
Sbjct: 147 TLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 177
>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 = 32.7 bits (73), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 50/122 (40%), Gaps = 19/122 (15%)
Query: 33 HISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWC 92
HI W GD+ N + ++ + N + VF L I +V D Y+C
Sbjct: 52 HIFWD-------GDKRYNPSLKSRLKISKDTSNNQ--VF----LKITSVDT-ADTATYYC 97
Query: 93 TATNK--QGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQ 147
G+ +S V + T AP V P+ V G + LGC V GY E ++TW
Sbjct: 98 VQEGYIYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWN 157
Query: 148 KG 149
G
Sbjct: 158 SG 159
>pdb|3VG0|H Chain H, Antibody Fab Fragment
Length = 223
Score = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 12/96 (12%)
Query: 156 NRRQKVFPNGTLLIENVQKDHDRGVYWCT------ATNKQGRSSSQNVHISVTVPPKIAP 209
N + +VF L ++++Q D D +Y+C + G+ +S V S T PP + P
Sbjct: 75 NSKSQVF----LEMDSLQTD-DTAMYYCAKHDGHETMDYWGQGTSVTVSSSKTTPPSVYP 129
Query: 210 FEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
+ + CLV P P+T++W L
Sbjct: 130 LAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSL 165
>pdb|3V6O|C Chain C, Leptin Receptor-Antibody Complex
pdb|3V6O|D Chain D, Leptin Receptor-Antibody Complex
Length = 221
Score = 32.3 bits (72), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 25/96 (26%), Positives = 42/96 (43%), Gaps = 12/96 (12%)
Query: 156 NRRQKVFPNGTLLIENVQKDHDRGVYWCT------ATNKQGRSSSQNVHISVTVPPKIAP 209
N + +VF L ++++Q D D +Y+C + G+ +S V S T PP + P
Sbjct: 74 NSKSQVF----LEMDSLQTD-DTAMYYCAKHDGHETMDYWGQGTSVTVSSSKTTPPSVYP 128
Query: 210 FEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
+ + CLV P P+T++W L
Sbjct: 129 LAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSL 164
>pdb|2AEP|H Chain H, An Epidemiologically Significant Epitope Of A 1998
Influenza Virus Neuraminidase Forms A Highly Hydrated
Interface In The Na-Antibody Complex.
pdb|2AEQ|H Chain H, An Epidemiologically Significant Epitope Of A 1998
Influenza Virus Neuraminidase Forms A Highly Hydrated
Interface In The Na-Antibody Complex
Length = 217
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 62/155 (40%), Gaps = 21/155 (13%)
Query: 14 LQPGPPVSLKCIATGNP--TPHISW-------KLDGYPLAGDRHENKNRIGEARVQ-QLP 63
+QPG +SL C +G ++SW L+ L ++ A ++ +
Sbjct: 12 VQPGGSLSLSCATSGFTFIDYYMSWFRQPPGKALEWLGLIRNKGNGYTMEYSASLKGRFT 71
Query: 64 LNRRQKVFPNGTLLIENVQKDHDRGVYWC------TATNKQGRSSSQNVHISVTGAPFVR 117
++R + L N D Y+C T + G+ ++ V + T AP V
Sbjct: 72 ISRDNS--QSIVYLHMNTLTAEDSATYYCARVDYGTNYDYWGQGTTLTVSSAKTTAPSVY 129
Query: 118 PMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
P+ V G + LGC V GY E ++TW G
Sbjct: 130 PLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 164
>pdb|3OZ9|H Chain H, Crystal Structure Of Anti-Gp41 Fab Nc-1
Length = 219
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 39/161 (24%), Positives = 56/161 (34%), Gaps = 30/161 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C ATG P + W P G N+ G+A
Sbjct: 10 ELMKPGSSVKISCKATGYRFSSYWVEWVKQRPGHGLEWIGKILPGIGSTSYNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWC-------TATNKQGRSSSQNVHISVT 111
N + + D VY+C T G+ + V + T
Sbjct: 70 F-------TADTSSNTAYMQLSSLTSEDSAVYYCARGYYGPTWFAYWGQGTLVTVSSAKT 122
Query: 112 GAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 123 TAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>pdb|3QUM|H Chain H, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
pdb|3QUM|K Chain K, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
Length = 219
Score = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 40/160 (25%), Positives = 60/160 (37%), Gaps = 29/160 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C +G P + W YP GD N +A
Sbjct: 10 ELVKPGASVKISCKVSGYAISSSWMNWVKQRPGQGLEWIGRIYPGDGDTKYNGKFKDKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQ------GRSSSQNVHISVTG 112
L +++ + +V D VY+C + G+ +S V + T
Sbjct: 70 ---LTVDKSSSTAYMQLSSLTSV----DSAVYFCARDGYRYYFDYWGQGTSVTVSSAKTT 122
Query: 113 APFVRPMGNVSA-IAGEPLYLGCPVAGYPIESIT--WQKG 149
AP V P+ V G + LGC V GY ES+T W G
Sbjct: 123 APPVYPLAPVCGDTTGSSVTLGCLVKGYFPESVTLLWNSG 162
>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 = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 58/159 (36%), Gaps = 31/159 (19%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLN----RRQK 69
++PG + + C A+G + Y + + + R+ V P N QK
Sbjct: 12 VKPGTSLKMSCKASG-------YTFTAYYMNWMKQSHGKRLEWIAVIN-PYNGFTTYNQK 63
Query: 70 VFPNGTLLIE----------NVQKDHDRGVYWCTATNKQ------GRSSSQNVHISVTGA 113
TL ++ N D VY+C + G + V + T A
Sbjct: 64 FKGKATLTVDKSSNTAYMDLNSLTSEDSAVYYCVPYDYAADRVYWGHGTLVTVSTAKTTA 123
Query: 114 PFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
P V P+ V G + LGC V GY E ++TW G
Sbjct: 124 PSVYPLAPVCGGTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
>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 = 32.3 bits (72), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 35/122 (28%), Positives = 50/122 (40%), Gaps = 19/122 (15%)
Query: 33 HISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWC 92
HI W GD+ N + ++ + N + VF L I +V D Y+C
Sbjct: 52 HIFWD-------GDKRYNPSLKSRLKISKDTSNNQ--VF----LKITSVDT-ADTATYYC 97
Query: 93 TATNK--QGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQ 147
G+ +S V + T AP V P+ V G + LGC V GY E ++TW
Sbjct: 98 VQEGYIYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWN 157
Query: 148 KG 149
G
Sbjct: 158 SG 159
>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 = 32.3 bits (72), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 34/78 (43%), Gaps = 11/78 (14%)
Query: 83 KDHDRGVYWCT--------ATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLG 133
K+ D Y+C + G+ +S V + T AP V P+ V G + LG
Sbjct: 87 KNEDTATYFCARNYYRFDGGMDFWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 146
Query: 134 CPVAGYPIE--SITWQKG 149
C V GY E ++TW G
Sbjct: 147 CLVKGYFPEPVTLTWNSG 164
>pdb|2BRR|H Chain H, Complex Of The Neisserial Pora P1.4 Epitope Peptide And
Two Fab-Fragments (Antibody Mn20b9.34)
pdb|2BRR|Y Chain Y, Complex Of The Neisserial Pora P1.4 Epitope Peptide And
Two Fab-Fragments (Antibody Mn20b9.34)
Length = 225
Score = 32.3 bits (72), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 39/88 (44%), Gaps = 15/88 (17%)
Query: 76 LLIENVQKDHDRGVYWCT-----------ATNKQGRSSSQNVHISVTGAPFVRPMGNVSA 124
L I N+ K+ D Y+C A + G+ ++ V + T AP V P+ V
Sbjct: 81 LQINNL-KNEDTATYFCARDYYGSTYPYYAMDYWGQGTTVTVSSAKTTAPSVYPLAPVCG 139
Query: 125 -IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 140 DTTGSSVTLGCLVKGYFPEPVTLTWNSG 167
>pdb|1IAI|I Chain I, Idiotype-Anti-Idiotype Fab Complex
pdb|1AIF|H Chain H, Anti-Idiotypic Fab 409.5.3 (Igg2a) Fab From Mouse
pdb|1AIF|B Chain B, Anti-Idiotypic Fab 409.5.3 (Igg2a) Fab From Mouse
Length = 218
Score = 32.3 bits (72), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 33/77 (42%), Gaps = 8/77 (10%)
Query: 171 NVQKDHDRGVYWCT-------ATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAG 223
N + D G+Y+C A + G+ +S V + T PP + P +
Sbjct: 86 NSLRAEDTGIYYCVLRPLFYYAVDYWGQGTSVTVSSAKTTPPSVYPLAPGSAAQTNSMVT 145
Query: 224 VQCLVTKGDP-PLTISW 239
+ CLV P P+T++W
Sbjct: 146 LGCLVKGYFPEPVTVTW 162
>pdb|2C1P|B Chain B, Fab-Fragment Of Enantioselective Antibody Complexed With
Finrozole
pdb|2C1P|H Chain H, Fab-Fragment Of Enantioselective Antibody Complexed With
Finrozole
Length = 217
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 58/159 (36%), Gaps = 29/159 (18%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRH---ENKNRIGEARVQQLPLNRRQ 68
+ ++PG V L C A+G + Y + R + + IG Q
Sbjct: 9 ELVRPGTSVKLSCKASG-------YSFTNYWMNWLRQRPGQGLDWIGMIHPSDSETRLNQ 61
Query: 69 KVFPNGTLLIENVQK----------DHDRGVYWCTATNKQGRSSSQNVHISVTGA----P 114
K TL ++ D VY+C + G Q ++V+ A P
Sbjct: 62 KFKDKATLTVDRSSSTAYIQLSSPTSEDSAVYYCARDDYDGAFWGQGTLVTVSAAKTTPP 121
Query: 115 FVRPMGNVSAIAGEPLY-LGCPVAGY---PIESITWQKG 149
V P+ SA + LGC V GY P+ ++TW G
Sbjct: 122 SVYPLAPGSAAQTNSMVTLGCLVKGYFPAPV-TVTWNSG 159
>pdb|2C1O|B Chain B, Enaiihis Fab Fragment In The Free Form
pdb|2C1O|H Chain H, Enaiihis Fab Fragment In The Free Form
Length = 218
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 58/159 (36%), Gaps = 29/159 (18%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRH---ENKNRIGEARVQQLPLNRRQ 68
+ ++PG V L C A+G + Y + R + + IG Q
Sbjct: 10 ELVRPGTSVKLSCKASG-------YSFTNYWMNWLRQRPGQGLDWIGMIHPSDSETRLNQ 62
Query: 69 KVFPNGTLLIENVQK----------DHDRGVYWCTATNKQGRSSSQNVHISVTGA----P 114
K TL ++ D VY+C + G Q ++V+ A P
Sbjct: 63 KFKDKATLTVDRSSSTAYIQLSSPTSEDSAVYYCARDDYDGAFWGQGTLVTVSAAKTTPP 122
Query: 115 FVRPMGNVSAIAGEPLY-LGCPVAGY---PIESITWQKG 149
V P+ SA + LGC V GY P+ ++TW G
Sbjct: 123 SVYPLAPGSAAQTNSMVTLGCLVKGYFPAPV-TVTWNSG 160
>pdb|1F6A|A Chain A, Structure Of The Human Ige-Fc Bound To Its High Affinity
Receptor Fc(Epsilon)ri(Alpha)
Length = 176
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 36/146 (24%), Positives = 61/146 (41%), Gaps = 17/146 (11%)
Query: 69 KVFPNGTLLIE-----NV--QKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGN 121
K F NG+L E N+ K D G Y C Q + S+ V++ V +
Sbjct: 38 KWFHNGSLSEETNSSLNIVNAKFEDSGEYKC---QHQQVAESEPVYLEVFSDWLLLQASA 94
Query: 122 VSAIAGEPLYLGCP-VAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGV 180
+ G+PL+L C + + + + K + L + + N + I N + D G
Sbjct: 95 EVVMEGQPLFLRCHGWRNWDVYKVIYYKDGEAL-----KYWYENHAISITNAAAE-DSGT 148
Query: 181 YWCTATNKQGRSSSQNVHISVTVPPK 206
Y+CT Q S+ ++I+V P+
Sbjct: 149 YYCTGKVWQLDYESEPLNITVIKAPR 174
>pdb|2ZJS|H Chain H, Crystal Structure Of Secye Translocon From Thermus
Thermophilus With A Fab Fragment
Length = 221
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 60/161 (37%), Gaps = 30/161 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C ATG P + W + P +G + N+ G+A
Sbjct: 10 ELMKPGASVKISCKATGYTFSSYWIAWVKQRPGHGLEWIGEILPGSGSTNYNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTAT-------NKQGRSSSQNVHISVT 111
N + + D VY+C + + G+ ++ V + T
Sbjct: 70 F-------TADTSSNTAYMQLSSLTSEDSAVYYCARSPYYYGNWDYWGQGTTLTVSSAKT 122
Query: 112 GAPFVRPMGNVSAIAGEPLY-LGCPVAGYPIE--SITWQKG 149
P V P+ SA + LGC V GY E ++TW G
Sbjct: 123 TPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSG 163
>pdb|2OR9|H Chain H, The Structure Of The Anti-C-Myc Antibody 9e10 Fab
FragmentEPITOPE PEPTIDE COMPLEX REVEALS A NOVEL BINDING
Mode Dominated By The Heavy Chain Hypervariable Loops
pdb|2OR9|I Chain I, The Structure Of The Anti-C-Myc Antibody 9e10 Fab
FragmentEPITOPE PEPTIDE COMPLEX REVEALS A NOVEL BINDING
Mode Dominated By The Heavy Chain Hypervariable Loops
pdb|2ORB|H Chain H, The Structure Of The Anti-C-Myc Antibody 9e10 Fab Fragment
pdb|2ORB|I Chain I, The Structure Of The Anti-C-Myc Antibody 9e10 Fab Fragment
Length = 228
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 40/184 (21%), Positives = 64/184 (34%), Gaps = 55/184 (29%)
Query: 105 NVHISVTGAPFVRPMGNVSAIAGEPLYLGCPVAGYPIE--SITWQKGVQQLPLNRRQKV- 161
VH+ +G V+P G+ L L C +G+ ++W V+Q P R + V
Sbjct: 1 EVHLVESGGDLVKPGGS--------LKLSCAASGFTFSHYGMSW---VRQTPDKRLEWVA 49
Query: 162 ----------FP---------------NGTLLIENVQKDHDRGVYWC------------- 183
+P N L N K D +Y+C
Sbjct: 50 TIGSRGTYTHYPDSVKGRFTISRDNDKNALYLQMNSLKSEDTAMYYCARRSEFYYYGNTY 109
Query: 184 --TATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDP-PLTISWL 240
+A + G+ +S V + T PP + P + + CLV P P+T++W
Sbjct: 110 YYSAMDYWGQGASVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWN 169
Query: 241 KNGL 244
L
Sbjct: 170 SGSL 173
>pdb|3V4P|H Chain H, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1
pdb|3V4P|M Chain M, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1
pdb|3V4V|H Chain H, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1 And Ro0505376
pdb|3V4V|M Chain M, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1 And Ro0505376
Length = 219
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 39/169 (23%), Positives = 56/169 (33%), Gaps = 45/169 (26%)
Query: 112 GAPFVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLP----------------L 155
GA V+P G + L C GY S W V+Q P
Sbjct: 8 GAELVKP--------GTSVKLSCKGYGYTFTSY-WMHWVKQRPGQGLEWIGEIDPSESNT 58
Query: 156 NRRQKVFPNGTLLIE----------NVQKDHDRGVYWCT---------ATNKQGRSSSQN 196
N QK TL ++ + D VY+C A + G+ +S
Sbjct: 59 NYNQKFKGKATLTVDISSSTAYMQLSSLTSEDSAVYYCARGGYDGWDYAIDYWGQGTSVT 118
Query: 197 VHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
V + T PP + P + + CLV P P+T++W L
Sbjct: 119 VSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSL 167
>pdb|3MCK|H Chain H, Crystal Structure Of Anti-Beta-Amyloid Antibody C705
pdb|3MCK|B Chain B, Crystal Structure Of Anti-Beta-Amyloid Antibody C705
Length = 228
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 43/161 (26%), Positives = 66/161 (40%), Gaps = 30/161 (18%)
Query: 14 LQPGPPVSLKCIATGNPTPH----ISW--KLDGYPLAGDRH---ENKNRIGEARVQQLPL 64
LQP +SL C +G +SW + G L H ++ R + +L +
Sbjct: 12 LQPSQTLSLTCSFSGFSLSTSGMGVSWIRQPSGKGLEWLAHIYWDDDKRYNPSLKSRLTI 71
Query: 65 NR---RQKVFPNGTLLIENVQKDHDRGVYWCTATNKQ----------GRSSSQNVHISVT 111
++ R +VF L I +V D Y+CT ++ G+ + V + T
Sbjct: 72 SKDTSRNQVF----LKITSVDTT-DTATYYCTRSSGSIVIATGFAYWGQGTLVTVSAAKT 126
Query: 112 GAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 127 TAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 167
>pdb|2GFB|B Chain B, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|D Chain D, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|F Chain F, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|H Chain H, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|J Chain J, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|L Chain L, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|N Chain N, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|P Chain P, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
Length = 219
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 39/88 (44%), Gaps = 10/88 (11%)
Query: 72 PNGTLLIENVQ-KDHDRGVYWCTATNKQGRSSS---QNVHISV---TGAPFVRPMGNVSA 124
P TL ++ + D +Y+C + G + Q ++V T AP V P+ V
Sbjct: 75 PKNTLFLQMTSLRSEDTAMYYCARGDYYGSRGAYWGQGTLVTVSAKTTAPSVYPLAPVCG 134
Query: 125 -IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 135 DTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
>pdb|1T2Q|H Chain H, The Crystal Structure Of An Nna7 Fab That Recognizes An
N-Type Blood Group Antigen
Length = 221
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 41/97 (42%), Gaps = 13/97 (13%)
Query: 156 NRRQKVFPNGTLLIENVQKDHDRGVYWCT-------ATNKQGRSSSQNVHISVTVPPKIA 208
N + +VF + ++Q D D +Y+C A + G+ +S V + T PP +
Sbjct: 74 NSKSQVF----FKMNSLQAD-DTAIYYCARNRGYSYAMDSWGQGTSVTVSSAKTTPPSVY 128
Query: 209 PFEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
P + + CLV P P+T++W L
Sbjct: 129 PLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSL 165
>pdb|2DDQ|H Chain H, Crystal Structure Of The Fab Fragment Of A R310 Antibody
Complexed With (R)-Hne-Histidine Adduct
Length = 213
Score = 32.0 bits (71), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 32/70 (45%), Gaps = 4/70 (5%)
Query: 84 DHDRGVYWCTATNKQ-GRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPI 141
D VY+C G+ ++ V + T AP V P+ V G + LGC V GY
Sbjct: 88 SEDSAVYYCAPYGGYWGQGTTVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFP 147
Query: 142 E--SITWQKG 149
E ++TW G
Sbjct: 148 EPVTLTWNSG 157
>pdb|2Y7Q|A Chain A, The High-Affinity Complex Between Ige And Its Receptor Fc
Epsilon Ri
Length = 188
Score = 32.0 bits (71), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 36/146 (24%), Positives = 61/146 (41%), Gaps = 17/146 (11%)
Query: 69 KVFPNGTLLIE-----NV--QKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGN 121
K F NG+L E N+ K D G Y C Q + S+ V++ V +
Sbjct: 41 KWFHNGSLSEETNSSLNIVNAKFEDSGEYKC---QHQQVAESEPVYLEVFSDWLLLQASA 97
Query: 122 VSAIAGEPLYLGCP-VAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGV 180
+ G+PL+L C + + + + K + L + + N + I N + D G
Sbjct: 98 EVVMEGQPLFLRCHGWRNWDVYKVIYYKDGEAL-----KYWYENHAISITNAAAE-DSGT 151
Query: 181 YWCTATNKQGRSSSQNVHISVTVPPK 206
Y+CT Q S+ ++I+V P+
Sbjct: 152 YYCTGKVWQLDYESEPLNITVIKAPR 177
>pdb|1NL0|H Chain H, Crystal Structure Of Human Factor Ix Gla Domain In Complex
Of An Inhibitory Antibody, 10c12
pdb|3D69|H Chain H, Crystal Structure Of The Fab Fragment Of An Anti-Factor Ix
Antibody 10c12
pdb|3D69|B Chain B, Crystal Structure Of The Fab Fragment Of An Anti-Factor Ix
Antibody 10c12
Length = 224
Score = 32.0 bits (71), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 34/90 (37%), Gaps = 9/90 (10%)
Query: 164 NGTLLIENVQKDHDRGVYWCT--------ATNKQGRSSSQNVHISVTVPPKIAPFEFQPD 215
N L N + D VY+C + GR + V + T P + P
Sbjct: 77 NTLYLQMNSLRAEDTAVYYCARASIAAARVLDYWGRGTMVTVSSASTKGPSVFPLAPSSK 136
Query: 216 LHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
SG A + CLV P P+T+SW L
Sbjct: 137 STSGGTAALGCLVKDYFPEPVTVSWNSGAL 166
>pdb|2D03|H Chain H, Crystal Structure Of The G91s Mutant Of The Nna7 Fab
Length = 223
Score = 32.0 bits (71), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 24/97 (24%), Positives = 41/97 (42%), Gaps = 13/97 (13%)
Query: 156 NRRQKVFPNGTLLIENVQKDHDRGVYWCT-------ATNKQGRSSSQNVHISVTVPPKIA 208
N + +VF + ++Q D D +Y+C A + G+ +S V + T PP +
Sbjct: 74 NSKSQVF----FKMNSLQAD-DTAIYYCARNRGYSYAMDSWGQGTSVTVSSAKTTPPSVY 128
Query: 209 PFEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
P + + CLV P P+T++W L
Sbjct: 129 PLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSL 165
>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 = 32.0 bits (71), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 37/163 (22%), Positives = 60/163 (36%), Gaps = 31/163 (19%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C ATG P + W + P +G H N+ G+A
Sbjct: 10 ELMKPGASVKISCKATGYTFSSFWIEWVKQRPGHGLEWIGEILPGSGGTHYNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQ--------GRSSSQNVHISV 110
+ N + + D VY+C + G+ +S V +
Sbjct: 70 FTADKSS-------NTAYMQLSSLTSEDSAVYYCARGHSYYFYDGDYWGQGTSVTVSSAS 122
Query: 111 TGAPFVRPMGNVS-AIAGEPLYLGCPVAGYPIE--SITWQKGV 150
T P V P+ S + +G LGC V Y E +++W G
Sbjct: 123 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGA 165
>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 = 32.0 bits (71), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 37/163 (22%), Positives = 60/163 (36%), Gaps = 31/163 (19%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C ATG P + W + P +G H N+ G+A
Sbjct: 10 ELMKPGASVKISCKATGYTFSSFWIEWVKQRPGHGLEWIGEILPGSGGTHYNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQ--------GRSSSQNVHISV 110
+ N + + D VY+C + G+ +S V +
Sbjct: 70 FTADKSS-------NTAYMQLSSLTSEDSAVYYCARGHSYYFYDGDYWGQGTSVTVSSAS 122
Query: 111 TGAPFVRPMGNVS-AIAGEPLYLGCPVAGYPIE--SITWQKGV 150
T P V P+ S + +G LGC V Y E +++W G
Sbjct: 123 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGA 165
>pdb|1KNO|B Chain B, Crystal Structure Of The Complex Of A Catalytic Antibody
Fab With A Transition State Analog: Structural
Similarities In Esterase-Like Abzymes
pdb|1KNO|D Chain D, Crystal Structure Of The Complex Of A Catalytic Antibody
Fab With A Transition State Analog: Structural
Similarities In Esterase-Like Abzymes
pdb|1KNO|F Chain F, Crystal Structure Of The Complex Of A Catalytic Antibody
Fab With A Transition State Analog: Structural
Similarities In Esterase-Like Abzymes
Length = 220
Score = 32.0 bits (71), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 37/89 (41%), Gaps = 11/89 (12%)
Query: 72 PNGTLLIENVQ-KDHDRGVYWCTATNKQGRSSSQ-------NVHISVTGAPFVRPMGNVS 123
P TL ++ + D +Y+C + G + V + T AP V P+ V
Sbjct: 75 PKNTLFLQMTSLRSEDTAMYYCARGDYYGSRGAYWGQGTLVTVSAAKTTAPSVYPLAPVC 134
Query: 124 A-IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 135 GDTTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>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 = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 60/161 (37%), Gaps = 30/161 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A G P + W D Y G + N N + +
Sbjct: 9 ELVRPGTSVKMSCKAVGYTFTYDWIGWVKQRPGHGLEWIGDIY--LGGGYINYNEKFKGK 66
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWC-------TATNKQGRSSSQNVHISVT 111
V + + L D +Y+C + + G+ ++ V + T
Sbjct: 67 VILTADTSSSTAYMQLSSLTS-----EDSAIYYCARGHYDGSYFDYWGQGTTLTVSSAKT 121
Query: 112 GAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V +G + LGC V GY E ++TW G
Sbjct: 122 TAPSVYPLAPVCGDTSGSSVTLGCLVKGYFPEPVTLTWNSG 162
>pdb|3E8U|H Chain H, Crystal Structure And Thermodynamic Analysis Of Diagnostic
Fab 106.3 Complexed With Bnp 5-13 (C10a) Reveal Basis Of
Selective Molecular Recognition
Length = 217
Score = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 42/86 (48%), Gaps = 9/86 (10%)
Query: 73 NGTLLIENVQKDHDRGVYWCTATNK-----QGRSSSQNVHISVTGAPFVRPM--GNVSAI 125
N L N + D G Y+CT +++ G+ +S V + T P V P+ G+ +A
Sbjct: 77 NTAYLQINNLNNGDMGTYFCTRSHRFGLDYWGQGTSVTVSSAKTTPPSVYPLAPGSAAAA 136
Query: 126 AGEPLYLGCPVAGYPIE--SITWQKG 149
A + LGC V GY E ++TW G
Sbjct: 137 AASMVTLGCLVKGYFPEPVTVTWNSG 162
>pdb|1ZTX|H Chain H, West Nile Virus Envelope Protein Diii In Complex With
Neutralizing E16 Antibody Fab
Length = 219
Score = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 39/169 (23%), Positives = 56/169 (33%), Gaps = 20/169 (11%)
Query: 11 QQTLQPGPPVSLKCIATGNPTPH--ISWKLD----GYPLAGDRHENKNRIGEARVQQLPL 64
+ ++PG V + C ATG I W G GD R +
Sbjct: 9 SELMKPGASVQISCKATGYTFSDYWIEWVKQRPGHGLEWIGDILCGTGRTRYNEKLKAMA 68
Query: 65 NRRQKVFPNGTLLIENVQKDHDRGVYWCTAT-------NKQGRSSSQNVHISVTGAPFVR 117
N + + D VY+C + + G ++ V + T P V
Sbjct: 69 TFTADTSSNTAFMQLSSLTSEDSAVYYCARSASYGDYADYWGHGTTLTVSSAKTTPPSVY 128
Query: 118 PMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 129 PLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 173
>pdb|2WV3|A Chain A, Neuroplastin-55 Binds To And Signals Through The
Fibroblast Growth Factor Receptor
Length = 190
Score = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 27/79 (34%), Positives = 34/79 (43%), Gaps = 8/79 (10%)
Query: 127 GEPLYLGCPVAGYPIESITWQK---GVQQLPLNRRQKVF----PNGTLL-IENVQKDHDR 178
G+ + C GYP W+K GV + N + F N T L I N+Q D
Sbjct: 107 GQDAMMYCKSVGYPHPEWMWRKKENGVFEEISNSSGRFFIINKENYTELNIVNLQITEDP 166
Query: 179 GVYWCTATNKQGRSSSQNV 197
G Y C ATN G +S V
Sbjct: 167 GEYECNATNSIGSASVSTV 185
>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 = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 37/162 (22%), Positives = 57/162 (35%), Gaps = 30/162 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C ATG P + W + P +G + N N G A
Sbjct: 10 ELMKPGASVKISCKATGYTFSTSWIEWIKQRPGHGLEWIGEVLPGSGKSNHNANFKGRAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-------ATNKQGRSSSQNVHISVT 111
N + + D VY+C A G+ + V + T
Sbjct: 70 F-------TADTASNTAYMQLSSLTSEDSAVYYCAREGSNNNALAYWGQGTLVTVSAAST 122
Query: 112 GAPFVRPMGNVS-AIAGEPLYLGCPVAGYPIE--SITWQKGV 150
P V P+ S + +G LGC V Y E +++W G
Sbjct: 123 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGA 164
>pdb|1EO8|H Chain H, Influenza Virus Hemagglutinin Complexed With A
Neutralizing Antibody
Length = 217
Score = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 41/159 (25%), Positives = 61/159 (38%), Gaps = 27/159 (16%)
Query: 12 QTLQPGPPVSLKCIATGN--PTPHISW---------KLDGYPLAGDRHENKNRIGEARVQ 60
+ ++PGP V + C ATG T I W + G L G + N N + R
Sbjct: 10 ELMKPGPSVKISCKATGYSFSTYFIEWIRQRPGHGLEWIGEILPGSDNTNFNEKFKDRAT 69
Query: 61 QLPLNRRQKVFPNGTLLIE-NVQKDHDRGVYWCTATNKQ------GRSSSQNVHISVTGA 113
P+ T ++ + D VY+C + G+ + V + T
Sbjct: 70 FTADT------PSNTAYMQLSSLTSEDSAVYYCARPTGRLWFSYWGQGTLVTVSAAKTTP 123
Query: 114 PFVRPMGNVSAIAGEPLY-LGCPVAGYPIE--SITWQKG 149
P V P+ SA + LGC V GY E ++TW G
Sbjct: 124 PSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSG 162
>pdb|3G5Z|B Chain B, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 217
Score = 31.6 bits (70), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 35/151 (23%), Positives = 56/151 (37%), Gaps = 17/151 (11%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISWK-LDGYP------LAGDRHENKNRIGEARVQQLPLN 65
++P +SL C TG + T +W + +P + + R + ++ +
Sbjct: 12 VKPSQSLSLTCTVTGYSITSDFAWNWIRQFPGNKLEWMGYISYSGNTRYNPSLKSRISIT 71
Query: 66 RRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA----PFVRPMG- 120
R N L N D Y+C + Q ++V+ A P V P+
Sbjct: 72 RDTS--SNQFFLQLNSVTPEDTATYYCATAGRGFPYWGQGTLVTVSAAKTTPPSVYPLAP 129
Query: 121 NVSAIAGEPLYLGCPVAGYPIES--ITWQKG 149
G + LGC V GY ES +TW G
Sbjct: 130 GCGDTTGSSVTLGCLVKGYFPESVTVTWNSG 160
>pdb|2BDN|H Chain H, Crystal Structure Of Human Mcp-1 Bound To A Blocking
Antibody, 11k2
Length = 217
Score = 31.6 bits (70), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 33/73 (45%), Gaps = 8/73 (10%)
Query: 85 HDRGVYWCT-----ATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAG 138
D VY+C + G+ ++ V + T AP V P+ V G + LGC V G
Sbjct: 89 EDTAVYYCARGVFGFFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKG 148
Query: 139 YPIE--SITWQKG 149
Y E ++TW G
Sbjct: 149 YFPEPVTLTWNSG 161
>pdb|1MPA|H Chain H, Bactericidal Antibody Against Neisseria Meningitidis
pdb|1MNU|H Chain H, Unliganded Bactericidal Antibody Against Neisseria
Meningitidis
pdb|2MPA|H Chain H, Bactericidal Antibody Against Neisseria Meningitidis
Length = 225
Score = 31.6 bits (70), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 36/160 (22%), Positives = 60/160 (37%), Gaps = 32/160 (20%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQQ 61
+PG V + C A+G P + W YP G+R + + + +
Sbjct: 13 RPGASVRMSCKASGYSFTSYWLHWIKQRPGQGLEWIGGIYP--GNRDTRYTQRFKDKAKL 70
Query: 62 LPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTA---------TNKQGRSSSQNVHISVTG 112
+ + + L + D VY+C+ + G+ ++ V + T
Sbjct: 71 TAVTSANTAYMELSSL-----TNEDSAVYYCSIIYFDYADFIMDYWGQGTTVTVSSAKTT 125
Query: 113 APFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
AP V P+ V G + LGC V GY E ++TW G
Sbjct: 126 APSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 165
>pdb|1NCA|H Chain H, Refined Crystal Structure Of The Influenza Virus N9
Neuraminidase-Nc41 Fab Complex
pdb|1NCC|H Chain H, Crystal Structures Of Two Mutant Neuraminidase-Antibody
Complexes With Amino Acid Substitutions In The Interface
Length = 221
Score = 31.6 bits (70), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 40/85 (47%), Gaps = 12/85 (14%)
Query: 76 LLIENVQKDHDRGVYWC--------TATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IA 126
L I N+ K+ D ++C + ++ G+ ++ V + T AP V P+ V
Sbjct: 81 LQINNL-KNEDTATFFCARGEDNFGSLSDYWGQGTTVTVSSAKTTAPSVYPLAPVCGDTT 139
Query: 127 GEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 140 GSSVTLGCLVKGYFPEPVTLTWNSG 164
>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 = 31.6 bits (70), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 38/165 (23%), Positives = 60/165 (36%), Gaps = 21/165 (12%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISWK-LDGYP------LAGDRHENKNRIGEARVQQLPLN 65
++P +SL C TG + T +W + +P + + R + ++ +
Sbjct: 12 VKPSQSLSLTCTVTGYSITSDFAWNWIRQFPGNKLEWMGYISYSGNTRYNPSLKSRISIT 71
Query: 66 RRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA----PFVRPMG- 120
R N L N D Y+C + Q ++V+ A P V P+
Sbjct: 72 RDTS--KNQFFLQLNSVTIEDTATYYCVTAGRGFPYWGQGTLVTVSAAKTTPPSVYPLAP 129
Query: 121 NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
G + LGC V GY ES +TW G L+ FP
Sbjct: 130 GCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 170
>pdb|1SY6|H Chain H, Crystal Structure Of Cd3gammaepsilon Heterodimer In
Complex With Okt3 Fab Fragment
Length = 219
Score = 31.6 bits (70), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 40/162 (24%), Positives = 57/162 (35%), Gaps = 38/162 (23%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNR-------IGEARVQQLPLNRR 67
+PG V + C A+G + Y + H K R IG + N
Sbjct: 13 RPGASVKMSCKASG-------YTFTRYTM----HWVKQRPGQGLEWIGYINPSRGYTNYN 61
Query: 68 QKVFPNGTLLIENVQK----------DHDRGVYWCT-------ATNKQGRSSSQNVHISV 110
QK TL + D VY+C + G+ ++ V +
Sbjct: 62 QKFKDKATLTTDKSSSTAYMQLSSLTSEDSAVYYCARYYDDHYCLDYWGQGTTLTVSSAK 121
Query: 111 TGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
T AP V P+ V G + LGC V GY E ++TW G
Sbjct: 122 TTAPSVYPLAPVCGGTTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>pdb|1B4J|H Chain H, Comparison Of The Three-Dimensional Structures Of A
Humanized And A Chimeric Fab Of An Anti-Gamma-Interferon
Antibody
Length = 220
Score = 31.6 bits (70), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 39/159 (24%), Positives = 62/159 (38%), Gaps = 30/159 (18%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
+ PG PV L C+A+G P + W P G+ H N++ +A
Sbjct: 12 VMPGAPVKLSCLASGYIFTSSWINWVKQRPGRGLEWIGRIDPSDGEVHYNQDFKDKAT-- 69
Query: 61 QLPLNRRQKVFPNGTLLIE-NVQKDHDRGVYWCTA-----TNKQGRSSSQNVHISVTGAP 114
L +++ + T I+ N D VY+C G+ + V + T P
Sbjct: 70 -LTVDKS-----SSTAYIQLNSLTSEDSAVYYCARGFLPWFADWGQGTLVTVSAASTKGP 123
Query: 115 FVRPMGNVS-AIAGEPLYLGCPVAGYPIE--SITWQKGV 150
V P+ S + +G LGC V Y E +++W G
Sbjct: 124 SVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGA 162
>pdb|1UZ8|B Chain B, Anti-Lewis X Fab Fragment In Complex With Lewis X
pdb|1UZ8|H Chain H, Anti-Lewis X Fab Fragment In Complex With Lewis X
Length = 212
Score = 31.6 bits (70), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 39/172 (22%), Positives = 63/172 (36%), Gaps = 31/172 (18%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRH---ENKNRIGEARVQQLPLNRRQKV 70
+QPG L C A+G + GY ++ R + IGE +N +
Sbjct: 12 VQPGGSQKLSCAASG-------FDFSGYWMSWVRQAPGKGLEWIGEINPDSSTINYTPSL 64
Query: 71 FPNGTLLIENVQ----------KDHDRGVYWC-----TATNKQGRSSSQNVHISVTGAPF 115
+ +N + + D +Y+C T + G+ ++ V + T AP
Sbjct: 65 KDKFIISRDNAKNTLYLQMSKVRSEDTALYYCARETGTRFDYWGQGTTLTVSSATTTAPS 124
Query: 116 VRPMGNVSAIAGEPLYLGCPVAGYPIESIT--WQKGVQQLPLNRRQKVFPNG 165
V P+ G + LGC V GY E +T W G + V +G
Sbjct: 125 VYPL----VPGGSSVTLGCLVKGYFPEPVTVKWNYGALSSGVRTVSSVLQSG 172
>pdb|2W9E|H Chain H, Structure Of Icsm 18 (Anti-Prp Therapeutic Antibody) Fab
Fragment Complexed With Human Prp Fragment 119-231
Length = 215
Score = 31.6 bits (70), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 38/158 (24%), Positives = 61/158 (38%), Gaps = 28/158 (17%)
Query: 12 QTLQPGPPVSLKCIATGNPTPH-------------ISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A+ N + W + YP G N+ G+A
Sbjct: 10 ELVKPGSSVKISCKASRNTFTDYNLDWVKQSHGKTLEWIGNVYPNNGVTGYNQKFRGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIE-NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA---- 113
L +++ + T +E + D VY+C Q ++V+ A
Sbjct: 70 ---LTVDKS-----SSTAYMELHSLTSEDSAVYYCALYYYDVSYWGQGTLVTVSSAKTTP 121
Query: 114 PFVRPMGNVSAIAGEPLYLGCPVAGYPIE--SITWQKG 149
P V P+ SA + LGC V GY E ++TW G
Sbjct: 122 PSVYPLAPGSAAQTNSVTLGCLVKGYFPEPVTVTWNSG 159
>pdb|3UO1|H Chain H, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
pdb|3UYR|H Chain H, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
pdb|3V4U|H Chain H, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
pdb|3V52|H Chain H, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
Length = 216
Score = 31.2 bits (69), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 61/171 (35%), Gaps = 32/171 (18%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRH---------ENKNRIGEARVQQLPL 64
+QPG + L C A+G + Y +A R N N G + L
Sbjct: 12 VQPGSSMKLSCTASG-------FTFSDYYMAWVRQVPEKGLEWVANINYDGSSTYYLDSL 64
Query: 65 NRR----QKVFPNGTLLIENVQKDHDRGVYWCT-ATNKQ----GRSSSQNVHISVTGAPF 115
R + + N L + + D Y+C TN G ++ V + T P
Sbjct: 65 KGRFIISRDIAKNILYLQMSSLRCEDTATYYCARLTNGYLDVWGAGTTVTVSSAKTTPPS 124
Query: 116 VRPMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
V P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 125 VYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 171
>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 = 31.2 bits (69), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 41/156 (26%), Positives = 63/156 (40%), Gaps = 24/156 (15%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISW---------KLD--GY-PLAGDRHEN---KNRIGEA 57
++P +SL C TG + T +W KL+ GY +G N K+RI
Sbjct: 12 VKPSQSLSLTCTVTGYSITSDFAWNWIRQFPGNKLEWMGYINYSGFTSHNPSLKSRISIT 71
Query: 58 RVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTA-TNKQGRSSSQNVHISVTGAPFV 116
R ++ Q ++ E+ + G+ W G+ + V + T AP V
Sbjct: 72 R----DTSKNQFFLQLNSVTTEDTATYYCAGLLWYDGGAGSWGQGTLVTVSAAKTTAPSV 127
Query: 117 RPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
P+ V G + LGC V GY E ++TW G
Sbjct: 128 YPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>pdb|1UWX|H Chain H, P1.2 Serosubtype Antigen Derived From N. Meningitidis Pora
In Complex With Fab Fragment
pdb|1UWX|M Chain M, P1.2 Serosubtype Antigen Derived From N. Meningitidis Pora
In Complex With Fab Fragment
Length = 225
Score = 31.2 bits (69), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 38/88 (43%), Gaps = 15/88 (17%)
Query: 76 LLIENVQKDHDRGVYWCT-----------ATNKQGRSSSQNVHISVTGAPFVRPMGNVSA 124
L I NV K+ D Y+C + G+ ++ V + T AP V P+ V
Sbjct: 81 LQINNV-KNEDTATYFCARGFYYYGSRYFYFDYWGQGTTLTVSSAKTTAPSVYPLAPVCG 139
Query: 125 -IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 140 DTTGSSVTLGCLVKGYFPEPVTLTWNSG 167
>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 = 31.2 bits (69), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 39/157 (24%), Positives = 61/157 (38%), Gaps = 28/157 (17%)
Query: 14 LQPGPPVSLKCIATGNP--TPHISWKLDGY-----------PLAGDRHENKNRIGEARVQ 60
++PG V + C A+G T ++ W + P G N+ G+A +
Sbjct: 12 VKPGASVKISCKASGYSFSTYYMHWVKQSHGKSLEWIGRVDPDNGGTSFNQKFKGKA-IL 70
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQ-----GRSSSQNVHISVTGAPF 115
+ + G+L E D VY+C + G+ +S V + T P
Sbjct: 71 TVDKSSSTAYMELGSLTSE------DSAVYYCARRDDYYFDFWGQGTSLTVSSAKTTPPS 124
Query: 116 VRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V P+ V G + LGC V GY E ++TW G
Sbjct: 125 VYPLAPVCGGTTGSSVTLGCLVKGYFPEPVTLTWNSG 161
>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 = 31.2 bits (69), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 38/167 (22%), Positives = 64/167 (38%), Gaps = 37/167 (22%)
Query: 12 QTLQPGPPVSLKCIATGNPTP-------------HISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C +G+ + W + P G N+ G+A
Sbjct: 10 ELVKPGSSVKISCKTSGDSFTAYNMNWVKQSHGKSLEWIGNINPYYGSTRYNQKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIE-NVQKDHDRGVYWCTAT------------NKQGRSSSQN 105
L +++ + T I+ N D VY+C + G+ ++
Sbjct: 70 ---LTVDKS-----SSTAYIQLNSLTSEDSAVYYCAREGNYYDGGSVRYFDYWGQGTTLT 121
Query: 106 VHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V + T AP V P+ V +G + LGC V GY E ++TW G
Sbjct: 122 VSSAKTTAPSVYPLAPVCGDTSGSSVTLGCLVKGYFPEPVTLTWNSG 168
>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 = 31.2 bits (69), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 23/74 (31%), Positives = 33/74 (44%), Gaps = 9/74 (12%)
Query: 85 HDRGVYWC------TATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVA 137
D VY+C + G+ ++ V + T AP V P+ V G + LGC V
Sbjct: 95 EDSAVYYCGRLGYVYGFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVK 154
Query: 138 GYPIE--SITWQKG 149
GY E ++TW G
Sbjct: 155 GYFPEPVTLTWNSG 168
>pdb|2W9D|H Chain H, Structure Of Fab Fragment Of The Icsm 18 - Anti-Prp
Therapeutic Antibody At 1.57 A Resolution
Length = 215
Score = 31.2 bits (69), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 38/158 (24%), Positives = 61/158 (38%), Gaps = 28/158 (17%)
Query: 12 QTLQPGPPVSLKCIATGNPTPH-------------ISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A+ N + W + YP G N+ G+A
Sbjct: 10 ELVKPGSSVKISCKASRNTFTDYNLDWVKQSHGKTLEWIGNVYPNNGVTGYNQKFRGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIE-NVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA---- 113
L +++ + T +E + D VY+C Q ++V+ A
Sbjct: 70 ---LTVDKS-----SSTAYMELHSLTSEDSAVYYCALYYYDVSYWGQGTLVTVSSAKTTP 121
Query: 114 PFVRPMGNVSAIAGEPLYLGCPVAGYPIE--SITWQKG 149
P V P+ SA + LGC V GY E ++TW G
Sbjct: 122 PSVYPLAPGSAAQTSMVTLGCLVKGYFPEPVTVTWNSG 159
>pdb|3HZM|B Chain B, Crystal Structure Of S73-2 Antibody In Complex With
Antigen Kdo
Length = 225
Score = 31.2 bits (69), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 35/87 (40%), Gaps = 14/87 (16%)
Query: 77 LIENVQKDHDRGVYWCT------------ATNKQGRSSSQNVHISVTGAPFVRPMGNVSA 124
L N + D Y+C A + G+ +S V + T P V P+ SA
Sbjct: 83 LQMNTLRAEDSATYYCARDINPGSDGYYDALDYWGQGTSVTVSRAKTTPPSVYPLAPGSA 142
Query: 125 IAGEPLYLGCPVAGYPIE--SITWQKG 149
+ LGC V GY E ++TW G
Sbjct: 143 AQNSMVTLGCLVKGYFPEPVTVTWNSG 169
>pdb|3GO1|H Chain H, Crystal Structure Of Anti-Hiv-1 Fab 268-D In Complex With
V3 Peptide Mn
Length = 222
Score = 31.2 bits (69), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 38/153 (24%), Positives = 55/153 (35%), Gaps = 36/153 (23%)
Query: 128 EPLYLGCPVAGYPIESITWQ-------KGVQQLPL-------NRRQKVFPNGTLLIENVQ 173
E L L C V+G PI + W KG++ L N + T+ I+ +
Sbjct: 16 ETLSLTCTVSGGPINNAYWTWIRQPPGKGLEYLGYVYHTGVTNYNPSLKSRLTITIDTSR 75
Query: 174 KD----------HDRGVYWCT-----------ATNKQGRSSSQNVHISVTVPPKIAPFEF 212
K D VY+C A + G+ + V + T P + P
Sbjct: 76 KQLSLSLKFVTAADSAVYYCAREWAEDGDFGNAFHVWGQGTMVAVSSASTKGPSVFPLAP 135
Query: 213 QPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
SG A + CLV P P+T+SW L
Sbjct: 136 SSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 168
>pdb|2VAJ|A Chain A, Crystal Structure Of Ncam2 Ig1 (I4122 Cell Unit)
Length = 93
Score = 31.2 bits (69), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 38/88 (43%), Gaps = 6/88 (6%)
Query: 118 PMGNVSAIAGEPLYLGCPVAGYPIESITWQ--KGVQQLPLNRR--QKVFPNGTLLIENVQ 173
+ V GE + C G P ESI W +G + + R QK L I N
Sbjct: 6 SLSKVELSVGESKFFTCTAIGEP-ESIDWYNPQGEKIISTQRVVVQKEGVRSRLTIYNAN 64
Query: 174 KDHDRGVYWCTATNKQGRSSSQNVHISV 201
+ D G+Y C AT+ +G++ V + +
Sbjct: 65 IE-DAGIYRCQATDAKGQTQEATVVLEI 91
>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 = 31.2 bits (69), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 34/75 (45%), Gaps = 9/75 (12%)
Query: 84 DHDRGVYWCTAT------NKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPV 136
D +Y+C + + G+ ++ V + T AP V P+ V G + LGC V
Sbjct: 88 SEDSAIYYCARSSTWYYFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLV 147
Query: 137 AGYPIE--SITWQKG 149
GY E ++TW G
Sbjct: 148 KGYFPEPVTLTWNSG 162
>pdb|2KDG|A Chain A, Solution Structure Of The 1st Ig Domain Of Myotilin
Length = 100
Score = 31.2 bits (69), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 24/99 (24%), Positives = 39/99 (39%), Gaps = 20/99 (20%)
Query: 8 KFIQ----QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLP 63
+FIQ ++ G + +G P P +SW L+G + D +K + E + L
Sbjct: 7 RFIQVPENMSIDEGRFCRMDFKVSGLPAPDVSWYLNGRTVQSD-DLHKMIVSEKGLHSL- 64
Query: 64 LNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSS 102
I V + D G Y C A N+ G ++
Sbjct: 65 --------------IFEVVRASDAGAYACVAKNRAGEAT 89
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 35/82 (42%), Gaps = 3/82 (3%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQ---KGVQQLPLNRRQKVFPNGTLLIEN 171
F++ N+S G + V+G P ++W + VQ L++ LI
Sbjct: 8 FIQVPENMSIDEGRFCRMDFKVSGLPAPDVSWYLNGRTVQSDDLHKMIVSEKGLHSLIFE 67
Query: 172 VQKDHDRGVYWCTATNKQGRSS 193
V + D G Y C A N+ G ++
Sbjct: 68 VVRASDAGAYACVAKNRAGEAT 89
>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 = 31.2 bits (69), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 41/156 (26%), Positives = 63/156 (40%), Gaps = 24/156 (15%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISW---------KLD--GY-PLAGDRHEN---KNRIGEA 57
++P +SL C TG + T +W KL+ GY +G N K+RI
Sbjct: 12 VKPSQSLSLTCTVTGYSITSDFAWNWIRQFPGNKLEWMGYINYSGFTSHNPSLKSRISIT 71
Query: 58 RVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTA-TNKQGRSSSQNVHISVTGAPFV 116
R ++ Q ++ E+ + G+ W G+ + V + T AP V
Sbjct: 72 R----DTSKNQFFLQLNSVTTEDTATYYCAGLLWYDGGAGSWGQGTLVTVSAAKTTAPSV 127
Query: 117 RPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
P+ V G + LGC V GY E ++TW G
Sbjct: 128 YPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>pdb|2FL5|H Chain H, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
pdb|2FL5|B Chain B, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
pdb|2FL5|D Chain D, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
pdb|2FL5|F Chain F, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
Length = 220
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 39/161 (24%), Positives = 60/161 (37%), Gaps = 31/161 (19%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
+QPG + L C A+G P + W + P ++ + + G V
Sbjct: 12 VQPGESLKLSCTASGFSLSNYYMTWVRQAPGKGLEWVTNIRPDETEKFYSDSVKGRFTVS 71
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSS----SQNVHISVTGA--- 113
+ N R +F + +L Q+ D Y+C + G Q +SVT A
Sbjct: 72 R--DNARNSLFNSMSL-----QRVEDTATYYCARVSDFGDYGPDFWGQGTLVSVTSASTK 124
Query: 114 -PFVRPMGNVSAIAGEPL-YLGCPVAGYPIE--SITWQKGV 150
P V P+ S E LGC V Y E +++W G
Sbjct: 125 GPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSWNSGA 165
>pdb|2NCM|A Chain A, Neural Cell Adhesion Molecule, Nmr, 20 Structures
Length = 99
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 36/82 (43%), Gaps = 8/82 (9%)
Query: 127 GEPLYLGCPVAGYPIE-SITWQK--GVQQLPLNRRQKVFPN----GTLLIENVQKDHDRG 179
GE + C VAG + I+W G + P +R V N TL I N D D G
Sbjct: 17 GESKFFLCQVAGDAKDKDISWFSPNGEKLSPNQQRISVVWNDDDSSTLTIYNANID-DAG 75
Query: 180 VYWCTATNKQGRSSSQNVHISV 201
+Y C T + G S V++ +
Sbjct: 76 IYKCVVTAEDGTQSEATVNVKI 97
>pdb|3GNM|H Chain H, The Crystal Structure Of The Jaa-f11 Monoclonal Antibody
Fab Fragment
Length = 223
Score = 31.2 bits (69), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 38/91 (41%), Gaps = 9/91 (9%)
Query: 84 DHDRGVYWCTAT------NKQGRSSSQNVHISVTGAPFVRPMG-NVSAIAGEPLYLGCPV 136
D VY+C + + G+ ++ V + T AP V P+ S +G + LGC V
Sbjct: 88 SEDSAVYYCARSFIGYNFDFWGQGTTLTVSSATTTAPSVYPLVPGCSDTSGSSVTLGCLV 147
Query: 137 AGYPIESIT--WQKGVQQLPLNRRQKVFPNG 165
GY E +T W G + V +G
Sbjct: 148 KGYFPEPVTVKWNYGALSSGVRTVSSVLQSG 178
>pdb|1K8I|B Chain B, Crystal Structure Of Mouse H2-Dm
Length = 191
Score = 31.2 bits (69), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 31/66 (46%), Gaps = 4/66 (6%)
Query: 111 TGAPFVRPMGNVSAIAGEPLYLGCPVAG-YPIE-SITWQKGVQQLP--LNRRQKVFPNGT 166
T AP VR EP+ L C V G YP + +ITW K Q +P N+ + PNG
Sbjct: 93 TRAPSVRVAQTTPFNTREPVMLACYVWGFYPADVTITWMKNGQLVPSHSNKEKTAQPNGD 152
Query: 167 LLIENV 172
+ V
Sbjct: 153 WTYQTV 158
>pdb|1WWC|A Chain A, Nt3 Binding Domain Of Human Trkc Receptor
Length = 118
Score = 31.2 bits (69), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 29/52 (55%), Gaps = 8/52 (15%)
Query: 197 VHISVTVPPKIAPFEFQPDLHSGDRAGVQCL--VTKGDPPLTISWLKNGLPI 246
V ++V PP++ E +P+L C+ V +G+PP T+ WL NG P+
Sbjct: 1 VALTVYYPPRVVSLE-EPELRLE-----HCIEFVVRGNPPPTLHWLHNGQPL 46
>pdb|2DM2|A Chain A, Solution Structure Of The First Ig Domain Of Human
Palladin
Length = 110
Score = 30.8 bits (68), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 34/88 (38%), Gaps = 5/88 (5%)
Query: 111 TGAPFVR-PMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFP---NGT 166
+GAPF + + G P+ C VAG P I W K +Q+ +GT
Sbjct: 6 SGAPFFEMKLKHYKIFEGMPVTFTCRVAGNPKPKIYWFKDGKQISPKSDHYTIQRDLDGT 65
Query: 167 LLIENVQKD-HDRGVYWCTATNKQGRSS 193
+ D G Y A N QGR S
Sbjct: 66 CSLHTTASTLDDDGNYTIMAANPQGRIS 93
Score = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 16/38 (42%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDG 40
P K + G PV+ C GNP P I W DG
Sbjct: 9 PFFEMKLKHYKIFEGMPVTFTCRVAGNPKPKIYWFKDG 46
>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 = 30.8 bits (68), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 42/91 (46%), Gaps = 17/91 (18%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNP P + W +G + ++RIG +V+ + +L++E
Sbjct: 26 VKFRCPAGGNPMPTMRWLKNGKEF-----KQEHRIGGYKVRN----------QHWSLIME 70
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISV 110
+V D+G Y C N+ G S + H+ V
Sbjct: 71 SVVPS-DKGNYTCVVENEYG-SINHTYHLDV 99
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 36/80 (45%), Gaps = 6/80 (7%)
Query: 126 AGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFP----NGTLLIENVQKDHDRGVY 181
A + CP G P+ ++ W K ++ R + + +L++E+V D+G Y
Sbjct: 22 AANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS-DKGNY 80
Query: 182 WCTATNKQGRSSSQNVHISV 201
C N+ G S + H+ V
Sbjct: 81 TCVVENEYG-SINHTYHLDV 99
>pdb|4G6F|H Chain H, Crystal Structure Of 10e8 Fab In Complex With An Hiv-1
Gp41 Peptide
pdb|4G6F|B Chain B, Crystal Structure Of 10e8 Fab In Complex With An Hiv-1
Gp41 Peptide
Length = 236
Score = 30.8 bits (68), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 36/99 (36%), Gaps = 18/99 (18%)
Query: 164 NGTLLIENVQKDHDRGVYWCTATNKQ-----------------GRSSSQNVHISVTVPPK 206
N L N + D G+Y+C T K GR + V + T P
Sbjct: 79 NFLYLEMNNLRMEDSGLYFCARTGKYYDFWSGYPPGEEYFQDWGRGTLVTVSSASTKGPS 138
Query: 207 IAPFEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
+ P SG A + CLV P P+T+SW L
Sbjct: 139 VFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 177
>pdb|1C1E|H Chain H, Crystal Structure Of A Diels-alderase Catalytic Antibody
1e9 In Complex With Its Hapten
Length = 219
Score = 30.8 bits (68), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 35/81 (43%), Gaps = 9/81 (11%)
Query: 167 LLIENVQKDHDRGVYWCT-------ATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSG 219
L I N+ K+ D Y+C A + G+ +S V + T PP + P +
Sbjct: 81 LQINNL-KNEDMATYFCARGTTIVRAMDYWGQGTSLTVSSAKTTPPSVYPLAPGSAAQTN 139
Query: 220 DRAGVQCLVTKGDP-PLTISW 239
+ CLV P P+T++W
Sbjct: 140 SMVTLGCLVKGYFPEPVTVTW 160
>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 = 30.8 bits (68), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 37/158 (23%), Positives = 58/158 (36%), Gaps = 28/158 (17%)
Query: 14 LQPGPPVSLKCIATGNPTP--HISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVF 71
++PG V + C A+G +++W + R ++ +G QK
Sbjct: 12 VKPGASVKMSCKASGYTFTDYYVNW------VKQSRGKSLEWLGLIIPSNGGTTYNQKFR 65
Query: 72 PNGTLLIE----------NVQKDHDRGVYWCTATNKQG-------RSSSQNVHISVTGAP 114
TL ++ N D VY+C G + + V + T AP
Sbjct: 66 GKATLTVDKSSSTAYMELNSLTSEDSAVYYCARRGLTGALFAYWGQGTLVTVSAAKTTAP 125
Query: 115 FVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V P+ V G + LGC V GY E ++TW G
Sbjct: 126 SVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>pdb|3GI8|H Chain H, Crystal Structure Of Apct K158a Transporter Bound To 7f11
Monoclonal Fab Fragment
pdb|3GI9|H Chain H, Crystal Structure Of Apct Transporter Bound To 7f11
Monoclonal Fab Fragment
Length = 223
Score = 30.8 bits (68), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 41/180 (22%), Positives = 61/180 (33%), Gaps = 39/180 (21%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRH---ENKNRIGEARVQQLPLNRRQ 68
+ ++PG V L C A+G + Y + + + IGE N Q
Sbjct: 10 ELVKPGASVKLSCKASG-------YTFTSYWMYWVKQRPGQGLEWIGEIDPSDSYTNYNQ 62
Query: 69 KVFPNGTLLIENVQK----------DHDRGVYWCTAT------------NKQGRSSSQNV 106
TL ++ D VY+C + + G+ +S V
Sbjct: 63 NFKGKATLTVDKSSSTAFMQLSSLTSQDSAVYFCARSPHYYGTTYNYPMDYWGQGTSVTV 122
Query: 107 HISVTGAPFVRPMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
+ T P V P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 123 SSAKTTPPSVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 178
>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 = 30.8 bits (68), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 33/135 (24%), Positives = 57/135 (42%), Gaps = 11/135 (8%)
Query: 73 NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSAIAGEPLYL 132
N +L I N K D G Y C Q + S+ V++ V + + G+PL+L
Sbjct: 50 NSSLNIVNA-KFEDSGEYKC---QHQQVNESEPVYLEVFSDWLLLQASAEVVMEGQPLFL 105
Query: 133 GCP-VAGYPIESITWQKGVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGR 191
C + + + + K + L + + N + I N + D G Y+CT Q
Sbjct: 106 RCHGWRNWDVYKVIYYKDGEAL-----KYWYENHNISITNATVE-DSGTYYCTGKVWQLD 159
Query: 192 SSSQNVHISVTVPPK 206
S+ ++I+V P+
Sbjct: 160 YESEPLNITVIKAPR 174
>pdb|1GXE|A Chain A, Central Domain Of Cardiac Myosin Binding Protein C
Length = 139
Score = 30.8 bits (68), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 11/32 (34%), Positives = 18/32 (56%)
Query: 121 NVSAIAGEPLYLGCPVAGYPIESITWQKGVQQ 152
+ +AG L L P++G P ++ WQK + Q
Sbjct: 27 TIVVVAGNKLRLDVPISGDPAPTVIWQKAITQ 58
>pdb|3G5V|B Chain B, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 213
Score = 30.8 bits (68), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 33/145 (22%), Positives = 54/145 (37%), Gaps = 15/145 (10%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISWK-LDGYP------LAGDRHENKNRIGEARVQQLPLN 65
++P +SL C TG + T +W + +P + + R + ++ +
Sbjct: 12 VKPSQSLSLTCTVTGYSITSDFAWNWIRQFPGNKLEWMGYISYSGNTRYNPSLKSRISIT 71
Query: 66 RRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGA----PFVRPMG- 120
R N L N D Y+C + Q ++V+ A P V P+
Sbjct: 72 RDTS--SNQFFLQLNSVTIEDTATYYCVTAGRGFPYWGQGTLVTVSAAKTTPPSVYPLAP 129
Query: 121 NVSAIAGEPLYLGCPVAGYPIESIT 145
G + LGC V GY ES+T
Sbjct: 130 GCGDTTGSSVTLGCLVKGYFPESVT 154
>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 = 30.8 bits (68), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 33/78 (42%), Gaps = 11/78 (14%)
Query: 83 KDHDRGVYWCTATNKQ--------GRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLG 133
K D +Y+C + G+ + V + T AP V P+ V G + LG
Sbjct: 87 KSEDSAMYYCARRERYDENGFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSVTLG 146
Query: 134 CPVAGYPIE--SITWQKG 149
C V GY E ++TW G
Sbjct: 147 CLVKGYFPEPVTLTWNSG 164
>pdb|3I50|H Chain H, Crystal Structure Of The West Nile Virus Envelope
Glycoprotein In Complex With The E53 Antibody Fab
Length = 221
Score = 30.8 bits (68), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 37/93 (39%), Gaps = 10/93 (10%)
Query: 83 KDHDRGVYWCTAT-------NKQGRSSSQNVHISVTGAPFVRPMG-NVSAIAGEPLYLGC 134
+ DR Y+C + G ++ V + T AP V P+ S +G + LGC
Sbjct: 89 RAEDRATYYCATVYGNYPYFDVWGVGTTVAVSSATTTAPSVYPLVPGCSDTSGSSVTLGC 148
Query: 135 PVAGYPIESIT--WQKGVQQLPLNRRQKVFPNG 165
V GY E +T W G + V +G
Sbjct: 149 LVKGYFPEPVTVKWNYGALSSGVRTVSSVLQSG 181
>pdb|2DL9|A Chain A, Solution Structure Of The Ig-Like Domain Of Human Leucine-
Rich Repeat-Containing Protein 4
Length = 103
Score = 30.8 bits (68), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 40/86 (46%), Gaps = 18/86 (20%)
Query: 46 DRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE-------NVQKD----------HDRG 88
D + ++ R+ E + + P++ + + PNGT+L +V D D G
Sbjct: 16 DLNISEGRMAELKCRTPPMSSVKWLLPNGTVLSHASRHPRISVLNDGTLNFSHVLLSDTG 75
Query: 89 VYWCTATNKQGRSSSQNVHISVTGAP 114
VY C TN G S++ +++V+ P
Sbjct: 76 VYTCMVTNVAGNSNAS-AYLNVSSGP 100
>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 = 0.86, Method: Compositional matrix adjust.
Identities = 35/158 (22%), Positives = 61/158 (38%), Gaps = 31/158 (19%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPN 73
++PG + L C A+G + Y ++ R + R+ V + +P+
Sbjct: 12 VKPGGSLKLSCAASG-------FTFSRYAMSWVRQTPEKRL--EWVATISSGGSYSYYPD 62
Query: 74 G-----TLLIENVQ----------KDHDRGVYWCTATNKQGRSSSQNVHISVTGA----P 114
T+ +NV+ + D +Y+C + Q ++V+ A P
Sbjct: 63 SVKGRFTISRDNVKNTLYLQMSSLRSEDTAMYYCARDSGGFAYWGQGTLVTVSAAKTTPP 122
Query: 115 FVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
V P+ V G + LGC V GY E ++TW G
Sbjct: 123 SVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTVTWNSG 160
>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 = 30.8 bits (68), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 42/91 (46%), Gaps = 17/91 (18%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNP P + W +G + ++RIG +V+ + +L++E
Sbjct: 31 VKFRCPAGGNPMPTMRWLKNGKEF-----KQEHRIGGYKVRN----------QHWSLIME 75
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISV 110
+V D+G Y C N+ G S + H+ V
Sbjct: 76 SVVPS-DKGNYTCVVENEYG-SINHTYHLDV 104
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 36/80 (45%), Gaps = 6/80 (7%)
Query: 126 AGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFP----NGTLLIENVQKDHDRGVY 181
A + CP G P+ ++ W K ++ R + + +L++E+V D+G Y
Sbjct: 27 AANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS-DKGNY 85
Query: 182 WCTATNKQGRSSSQNVHISV 201
C N+ G S + H+ V
Sbjct: 86 TCVVENEYG-SINHTYHLDV 104
>pdb|1OPG|H Chain H, Opg2 Fab Fragment
pdb|1BM3|H Chain H, Immunoglobulin Opg2 Fab-Peptide Complex
Length = 227
Score = 30.8 bits (68), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 35/160 (21%), Positives = 59/160 (36%), Gaps = 45/160 (28%)
Query: 127 GEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKV-----------FPNG-----TLL 168
G L L C +G+ S ++W V+Q P R + V +P+ T+
Sbjct: 15 GRSLKLSCAASGFTFSSYGMSW---VRQTPEKRLEWVAAISGGGTYIHYPDSVKGRFTIS 71
Query: 169 IENVQ----------KDHDRGVYWCT-------------ATNKQGRSSSQNVHISVTVPP 205
+N + + D +Y+CT A + G+ +S V + T PP
Sbjct: 72 RDNAKNNLYLQMSSLRSEDTALYYCTRHPFYRYDGGNYYAMDHWGQGTSVTVSAAKTTPP 131
Query: 206 KIAPFEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
+ P + + CLV P P+T++W L
Sbjct: 132 SVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSL 171
>pdb|1WVZ|A Chain A, Solution Structure Of The D2 Domain Of The Fibroblast
Growth Factor
Length = 104
Score = 30.4 bits (67), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 25/91 (27%), Positives = 42/91 (46%), Gaps = 17/91 (18%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE 79
V +C A GNP P + W +G + ++RIG +V+ + +L++E
Sbjct: 30 VKFRCPAGGNPMPTMRWLKNGKEF-----KQEHRIGGYKVRN----------QHWSLIME 74
Query: 80 NVQKDHDRGVYWCTATNKQGRSSSQNVHISV 110
+V D+G Y C N+ G S + H+ V
Sbjct: 75 SVVPS-DKGNYTCVVENEYG-SINHTYHLDV 103
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 20/80 (25%), Positives = 36/80 (45%), Gaps = 6/80 (7%)
Query: 126 AGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFP----NGTLLIENVQKDHDRGVY 181
A + CP G P+ ++ W K ++ R + + +L++E+V D+G Y
Sbjct: 26 AANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS-DKGNY 84
Query: 182 WCTATNKQGRSSSQNVHISV 201
C N+ G S + H+ V
Sbjct: 85 TCVVENEYG-SINHTYHLDV 103
>pdb|1OSP|H Chain H, Crystal Structure Of Outer Surface Protein A Of Borrelia
Burgdorferi Complexed With A Murine Monoclonal Antibody
Fab
Length = 218
Score = 30.4 bits (67), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 40/167 (23%), Positives = 59/167 (35%), Gaps = 21/167 (12%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWK-LDGYPLAGDRHENKNRIGEARVQ----QLPLNRRQ 68
++P +SL C TG P W + +P R G + P++ +
Sbjct: 12 VKPSQTLSLTCSVTGEPITSGFWDWIRKFPGNKLEFMGYIRYGGGTYYNPSLKSPISITR 71
Query: 69 KVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSS-----QNVHISVTGA----PFVRPM 119
N L N D Y+C + SS + ++V+ A P V P+
Sbjct: 72 DTSKNHYYLQLNSVVTEDTATYYCARSRDYYGSSGFAFWGEGTLVTVSAAKTTPPSVYPL 131
Query: 120 G-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
G + LGC V GY ES +TW G L+ FP
Sbjct: 132 APGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 174
>pdb|2LQR|A Chain A, Nmr Structure Of Ig3 Domain Of Palladin
Length = 108
Score = 30.4 bits (67), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 16/38 (42%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDG 40
P K + G PV+ C GNP P I W DG
Sbjct: 8 PFFEMKLKHYKIFEGMPVTFTCRVAGNPKPKIYWFKDG 45
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 32/86 (37%), Gaps = 5/86 (5%)
Query: 113 APFVR-PMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFP---NGTLL 168
APF + + G P+ C VAG P I W K +Q+ +GT
Sbjct: 7 APFFEMKLKHYKIFEGMPVTFTCRVAGNPKPKIYWFKDGKQISPKSDHYTIQRDLDGTCS 66
Query: 169 IENVQKD-HDRGVYWCTATNKQGRSS 193
+ D G Y A N QGR S
Sbjct: 67 LHTTASTLDDDGNYTIMAANPQGRVS 92
>pdb|1F4W|H Chain H, Crystal Structure Of An Anti-Carbohydrate Antibody
Directed Against Vibrio Cholerae O1 In Complex With
Antigen
pdb|1F4X|H Chain H, Crystal Structure Of An Anti-Carbohydrate Antibody
Directed Against Vibrio Cholerae O1 In Complex With
Antigen
pdb|1F4Y|H Chain H, Crystal Structure Of An Anti-Carbohydrate Antibody
Directed Against Vibrio Cholerae O1 In Complex With
Antigen
Length = 216
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 38/174 (21%), Positives = 65/174 (37%), Gaps = 45/174 (25%)
Query: 105 NVHISVTGAPFVRPMGNVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKV- 161
V + +G V P G+ L L C +GY + ++W V+Q P R + V
Sbjct: 1 EVQLEESGGGLVTPGGS--------LRLSCAASGYVFSTYDMSW---VRQTPEKRLEWVA 49
Query: 162 ----------FPN--------------GTLLIE-NVQKDHDRGVYWCT-----ATNKQGR 191
+P+ TL ++ + + D +Y+CT + GR
Sbjct: 50 FISSGGGRTSYPDTVKGRFTISRDDAKNTLYLQMSSLQSEDTAMYYCTRHFYAVLDYWGR 109
Query: 192 SSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
++ V + T PP + P + + CLV P P+T++W L
Sbjct: 110 GTTLTVSSAKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSL 163
>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 = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 36/163 (22%), Positives = 59/163 (36%), Gaps = 31/163 (19%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C ATG P + W + P +G + N+ G+A
Sbjct: 10 ELMKPGASVKISCKATGYTFSSYWIEWVKQRPGHGLEWIGEILPGSGSTNYNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQ--------GRSSSQNVHISV 110
N + + D VY+C + G+ +S V +
Sbjct: 70 F-------TADTSSNTAYMQLSSLTSEDSAVYYCARGHSYYFYDGDYWGQGTSVTVSSAS 122
Query: 111 TGAPFVRPMGNVS-AIAGEPLYLGCPVAGYPIE--SITWQKGV 150
T P V P+ S + +G LGC V Y E +++W G
Sbjct: 123 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGA 165
>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 = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 7/80 (8%)
Query: 77 LIENVQKDHDRGVYWCTATNKQ----GRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLY 131
L N + D G+Y+C+ + G+ ++ V T AP V P+ V G +
Sbjct: 83 LQMNSLRAEDTGIYYCSGGKVRNAYWGQGTTVTVSSKTTTAPSVYPLAPVCGDTTGSSVT 142
Query: 132 LGCPVAGYPIE--SITWQKG 149
LGC V GY E ++TW G
Sbjct: 143 LGCLVKGYFPEPVTLTWNSG 162
>pdb|3HC4|H Chain H, Bha10 Igg1 Fab Quadruple Mutant Variant - Antibody
Directed At Human Ltbr
Length = 213
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 30/72 (41%), Gaps = 1/72 (1%)
Query: 174 KDHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDP 233
+ D VY+C + + Q ++V+ P F SG A + CLV P
Sbjct: 87 RSEDTAVYYCARSWEGFDYWGQGTTVTVSSASTKGPSVFPLAPSSGGTAALGCLVKDYFP 146
Query: 234 -PLTISWLKNGL 244
P+T+SW L
Sbjct: 147 EPVTVSWNSGAL 158
>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 = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 31/72 (43%), Gaps = 7/72 (9%)
Query: 85 HDRGVYWCTATNK----QGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGY 139
D Y+C N G+ + V + T AP V P+ V G + LGC V GY
Sbjct: 89 EDTATYFCAYGNYLPAYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGY 148
Query: 140 PIE--SITWQKG 149
E ++TW G
Sbjct: 149 FPEPVTLTWNSG 160
>pdb|1LO4|H Chain H, Retro-Diels-Alderase Catalytic Antibody 9d9
Length = 220
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 33/77 (42%), Gaps = 10/77 (12%)
Query: 83 KDHDRGVYWCT-------ATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGC 134
+ D +Y+C + G ++ V + T AP V P+ V G + LGC
Sbjct: 86 RSEDTAIYYCARGTSFVRYFDVWGAGTTVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGC 145
Query: 135 PVAGYPIE--SITWQKG 149
V GY E ++TW G
Sbjct: 146 LVKGYFPEPVTLTWNSG 162
>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 = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 37/80 (46%), Gaps = 7/80 (8%)
Query: 77 LIENVQKDHDRGVYWCTATNKQ----GRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLY 131
L N + D G+Y+C+ + G+ ++ V T AP V P+ V G +
Sbjct: 83 LQMNSLRAEDTGIYYCSGGKVRNAYWGQGTTVTVSSKTTKAPSVYPLAPVCGDTTGSSVT 142
Query: 132 LGCPVAGYPIE--SITWQKG 149
LGC V GY E ++TW G
Sbjct: 143 LGCLVKGYFPEPVTLTWNSG 162
>pdb|2VL5|A Chain A, Structure Of Anti-Collagen Type Ii Fab Ciic1
pdb|2VL5|C Chain C, Structure Of Anti-Collagen Type Ii Fab Ciic1
Length = 218
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 32/76 (42%), Gaps = 10/76 (13%)
Query: 84 DHDRGVYWC-------TATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCP 135
D VY+C T G+ + V + T AP V P+ V G + LGC
Sbjct: 88 SEDSAVYYCARLKPGGTWFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSVTLGCL 147
Query: 136 VAGYPIE--SITWQKG 149
V GY E ++TW G
Sbjct: 148 VKGYFPEPVTLTWNSG 163
>pdb|2Y5T|A Chain A, Crystal Structure Of The Pathogenic Autoantibody Ciic1 In
Complex With The Triple-Helical C1 Peptide
Length = 232
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 32/76 (42%), Gaps = 10/76 (13%)
Query: 84 DHDRGVYWC-------TATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCP 135
D VY+C T G+ + V + T AP V P+ V G + LGC
Sbjct: 88 SEDSAVYYCARLKPGGTWFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSVTLGCL 147
Query: 136 VAGYPIE--SITWQKG 149
V GY E ++TW G
Sbjct: 148 VKGYFPEPVTLTWNSG 163
>pdb|3BKJ|H Chain H, Crystal Structure Of Fab Wo2 Bound To The N Terminal
Domain Of Amyloid Beta Peptide (1-16)
pdb|3BKM|H Chain H, Structure Of Anti-Amyloid-Beta Fab Wo2 (Form A, P212121)
Length = 224
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 47/132 (35%), Gaps = 29/132 (21%)
Query: 33 HISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWC 92
HI W D + N E+R+ R VF + I +V D Y+C
Sbjct: 51 HIYW---------DDDKRYNPSLESRLTISKDTSRDMVF----MKITSVDT-ADTATYYC 96
Query: 93 TATNKQGRSSSQN------------VHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGY 139
GR N V + T AP V P+ V G + LGC V GY
Sbjct: 97 ARRGFYGRKYEVNHFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGY 156
Query: 140 PIE--SITWQKG 149
E ++TW G
Sbjct: 157 FPEPVTLTWNSG 168
>pdb|2HMI|D Chain D, Hiv-1 Reverse TranscriptaseFRAGMENT OF FAB 28DNA COMPLEX
pdb|1HYS|D Chain D, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
pdb|1J5O|H Chain H, Crystal Structure Of Met184ile Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Double Stranded Dna
Template- Primer
Length = 220
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 31/154 (20%), Positives = 54/154 (35%), Gaps = 37/154 (24%)
Query: 128 EPLYLGCPVAGYPIES----ITW-----QKGVQQLP-----------------LNRRQKV 161
+P L C +G+ + + +TW KG++ L L +
Sbjct: 16 QPFRLTCTFSGFSLSTSGIGVTWIRQPSGKGLEWLATIWWDDDNRYNPSLKSRLTVSKDT 75
Query: 162 FPNGTLLIENVQKDHDRGVYWC----------TATNKQGRSSSQNVHISVTVPPKIAPFE 211
N L + D +Y+C +A + G+ +S V + T PP + P
Sbjct: 76 SNNQAFLNMMTVETADTAIYYCAQSAITSVTDSAMDHWGQGTSVTVSSAATTPPSVYPLA 135
Query: 212 FQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
+ + CLV P P+T++W L
Sbjct: 136 PGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSL 169
>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 = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 41/164 (25%), Positives = 57/164 (34%), Gaps = 36/164 (21%)
Query: 12 QTLQPGPPVSLKCIATGN--PTPHISWKL----DGYPLAGDRHENKNRIGEARVQQLPLN 65
+ +QPG V L C A+G T I W G G+ + N RI N
Sbjct: 10 ELVQPGTSVRLSCKASGYIFTTYWIHWVKQRPGQGLEWIGEINPNNGRI----------N 59
Query: 66 RRQKVFPNGTLLIENVQK----------DHDRGVYWCTATNKQ-------GRSSSQNVHI 108
+K TL ++ D VY+CT G+ + V
Sbjct: 60 YNEKFKTKATLTVDKSSSTAYMQLSSLTSEDSAVYYCTRVGVMITTFPYWGQGTLVTVSA 119
Query: 109 SVTGAPFVRPMGNVSAIAGEPL-YLGCPVAGYPIE--SITWQKG 149
+ T P V P+ S E LGC V Y E +++W G
Sbjct: 120 ASTKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSWNSG 163
>pdb|3BAE|H Chain H, Crystal Structure Of Fab Wo2 Bound To The N Terminal
Domain Of Amyloid Beta Peptide (1-28)
pdb|3BKC|H Chain H, Crystal Structure Of Anti-Amyloid Beta Fab Wo2 (P21,
Formb)
Length = 228
Score = 30.0 bits (66), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 47/132 (35%), Gaps = 29/132 (21%)
Query: 33 HISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWC 92
HI W D + N E+R+ R VF + I +V D Y+C
Sbjct: 52 HIYW---------DDDKRYNPSLESRLTISKDTSRDMVF----MKITSVDT-ADTATYYC 97
Query: 93 TATNKQGRSSSQN------------VHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGY 139
GR N V + T AP V P+ V G + LGC V GY
Sbjct: 98 ARRGFYGRKYEVNHFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGY 157
Query: 140 PIE--SITWQKG 149
E ++TW G
Sbjct: 158 FPEPVTLTWNSG 169
>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 = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 35/75 (46%), Gaps = 5/75 (6%)
Query: 80 NVQKDHDRGVYWCT--ATNKQGRSSSQNVHISVTGAPFVRPMG-NVSAIAGEPLYLGCPV 136
N K D +Y+C + G+ ++ V +V P V P+ AI+ + LGC V
Sbjct: 86 NNLKTEDTAMYYCVRQMGDYWGQGTTLTVSSAVKTPPSVYPLAPGGGAISNSMVTLGCLV 145
Query: 137 AGYPIE--SITWQKG 149
GY E ++TW G
Sbjct: 146 NGYFPEPVTVTWNAG 160
>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 = 30.0 bits (66), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 41/164 (25%), Positives = 57/164 (34%), Gaps = 36/164 (21%)
Query: 12 QTLQPGPPVSLKCIATGN--PTPHISWKL----DGYPLAGDRHENKNRIGEARVQQLPLN 65
+ +QPG V L C A+G T I W G G+ + N RI N
Sbjct: 10 ELVQPGTSVRLSCKASGYIFTTYWIHWVKQRPGQGLEWIGEINPNNGRI----------N 59
Query: 66 RRQKVFPNGTLLIENVQK----------DHDRGVYWCTATNKQ-------GRSSSQNVHI 108
+K TL ++ D VY+CT G+ + V
Sbjct: 60 YNEKFKTKATLTVDKSSSTAYMQLSSLTSEDSAVYYCTRVGVMITTFPYWGQGTLVTVSA 119
Query: 109 SVTGAPFVRPMGNVSAIAGEPL-YLGCPVAGYPIE--SITWQKG 149
+ T P V P+ S E LGC V Y E +++W G
Sbjct: 120 ASTKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSWNSG 163
>pdb|4HC1|H Chain H, Crystal Structure Of A Loop Deleted Mutant Of Human
Madcam-1 D1d2 Complexed With Fab 10g3
pdb|4HC1|M Chain M, Crystal Structure Of A Loop Deleted Mutant Of Human
Madcam-1 D1d2 Complexed With Fab 10g3
Length = 220
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 35/172 (20%), Positives = 60/172 (34%), Gaps = 40/172 (23%)
Query: 105 NVHISVTGAPFVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKV--- 161
+V + +G V+P + L L C V GY I S + ++Q P N+ + +
Sbjct: 1 DVQLQESGPGLVKP--------SQSLSLTCSVTGYSITSGYYWNWIRQFPGNKLEWMGYI 52
Query: 162 -----------FPNGTLLIENVQKDH-----------DRGVYWCTATNKQ------GRSS 193
N + + K+H D Y+C + G+ +
Sbjct: 53 SYDGSNNYNPSLKNRVSITRDTSKNHFFLKLSSVTTEDTATYYCARASDSDGFAYWGQGT 112
Query: 194 SQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
V + T P + P +G + CLV P P+T++W L
Sbjct: 113 LVTVSAAKTTAPSVYPLAPVCGGTTGSSVTLGCLVKGYFPEPVTLTWNSGSL 164
>pdb|1NDG|B Chain B, Crystal Structure Of Fab Fragment Of Antibody Hyhel-8
Complexed With Its Antigen Lysozyme
Length = 210
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 37/149 (24%), Positives = 60/149 (40%), Gaps = 16/149 (10%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWK-LDGYPLAGDRHENKNRIGEA--RVQQLPLNRRQKV 70
++P +SL C TG+ W + +P G++ E I + L R +
Sbjct: 12 VKPSQTLSLTCSVTGDSIIRDYWSWIRKFP--GNKLEYMGYISFSGNTFYHPSLKSRISI 69
Query: 71 FPNGT-----LLIENVQKDHDRGVYWCTATNKQ--GRSSSQNVHISVTGAPFVRPMGNVS 123
+ + L + +V + D Y+C + G + V + T AP V P+ V
Sbjct: 70 TRDTSKNQHYLQLSSVTTE-DTATYYCANWDGTYWGEGTLVTVSAAKTTAPSVYPLAPVC 128
Query: 124 A-IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 129 GDTTGSSVTLGCLVKGYFPEPVTLTWNSG 157
>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 = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 20/38 (52%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHEN 50
T+Q G ++L C G+P P +SW + LA H N
Sbjct: 128 TIQEGKALNLTCNVWGDPPPEVSWLKNEKALAQTDHCN 165
>pdb|3SGD|H Chain H, Crystal Structure Of The Mouse Mab 17.2
pdb|3SGD|J Chain J, Crystal Structure Of The Mouse Mab 17.2
pdb|3SGE|H Chain H, Crystal Structure Of Mab 17.2 In Complex With R13 Peptide
pdb|3SGE|J Chain J, Crystal Structure Of Mab 17.2 In Complex With R13 Peptide
Length = 217
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 30/71 (42%), Gaps = 2/71 (2%)
Query: 171 NVQKDHDRGVYWCT-ATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVT 229
N K D +Y+C T G+ + V + T PP + P + + CLV
Sbjct: 86 NNLKTEDTAMYYCVRGTTYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGCLVK 145
Query: 230 KGDP-PLTISW 239
P P+T++W
Sbjct: 146 GYFPEPVTVTW 156
>pdb|3QPX|H Chain H, Crystal Structure Of Fab C2507
Length = 228
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 60/160 (37%), Gaps = 30/160 (18%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
+QPG P+ L C A+G P + W P G + G V
Sbjct: 12 VQPGSPLKLSCAASGLTFSANWLNWIRQAPGKGLEWVASISPDGGSTSYSDTVKGRFVVS 71
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT--AT-----NKQGRSSSQNVHISVTGA 113
+ G L + N++ + D +Y+C AT + G+ + V + T
Sbjct: 72 ------KDNAKKTGYLQMNNLRSE-DTAMYYCARRATRVSPFDYWGQGVTVTVSSASTKG 124
Query: 114 PFVRPMGNVS-AIAGEPLYLGCPVAGYPIE--SITWQKGV 150
P V P+ S + +G LGC V Y E +++W G
Sbjct: 125 PSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGA 164
>pdb|3U9U|A Chain A, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
pdb|3U9U|C Chain C, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
Length = 224
Score = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 32/73 (43%), Gaps = 9/73 (12%)
Query: 86 DRGVYWCTAT------NKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAG 138
D Y+C + G+ ++ V + T AP V P+ V G + LGC V G
Sbjct: 91 DTATYYCARIPDDHYFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKG 150
Query: 139 YPIE--SITWQKG 149
Y E ++TW G
Sbjct: 151 YFPEPVTLTWNSG 163
>pdb|1VSC|A Chain A, Vcam-1
pdb|1VSC|B Chain B, Vcam-1
Length = 196
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 37/134 (27%), Positives = 53/134 (39%), Gaps = 27/134 (20%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLD-GYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPN 73
Q G VSL C TG +P SW+ PL G E L +N F N
Sbjct: 14 QIGDSVSLTCSTTGCESPFFSWRTQIDSPLNG------KVTNEGTTSTLTMNPVS--FGN 65
Query: 74 GTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA--IAGEPLY 131
+H Y CTAT + R + + + + P P ++S AG+P+
Sbjct: 66 ----------EHS---YLCTATC-ESRKLEKGIQVEIYSFP-KDPEIHLSGPLEAGKPIT 110
Query: 132 LGCPVAG-YPIESI 144
+ C VA YP + +
Sbjct: 111 VKCSVADVYPFDRL 124
>pdb|1MAM|H Chain H, Crystal Structure To 2.45 A Resolution Of A Monoclonal Fab
Specific For The Brucella A Cell Wall Polysaccharide
Antigen
Length = 217
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 35/92 (38%), Gaps = 12/92 (13%)
Query: 80 NVQKDHDRGVYWCTA-----TNKQGRSSSQNVHISVTGAPFVRPMG-NVSAIAGEPLYLG 133
N + D Y+CT G+ + V + T P V P+ G + LG
Sbjct: 86 NTLRAEDSATYYCTRDPYGPAAYWGQGTLVTVSAAKTTPPSVYPLAPGCGDTTGSSVTLG 145
Query: 134 CPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
C V GY ES +TW G L+ FP
Sbjct: 146 CLVKGYFPESVTVTWNSG----SLSSSVHTFP 173
>pdb|2VQ1|B Chain B, Anti Trimeric Lewis X Fab54-5c10-A
pdb|2VQ1|F Chain F, Anti Trimeric Lewis X Fab54-5c10-A
Length = 218
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 36/88 (40%), Gaps = 8/88 (9%)
Query: 86 DRGVYWCT-----ATNKQGRSSSQNVHISVTGAPFVRPMG-NVSAIAGEPLYLGCPVAGY 139
D Y+C + G+ ++ V + T AP V P+ S +G + LGC V GY
Sbjct: 91 DTATYYCARIPGFGFDYWGQGTTLTVSSATTTAPSVYPLVPGCSDTSGSSVTLGCLVKGY 150
Query: 140 PIESIT--WQKGVQQLPLNRRQKVFPNG 165
E +T W G + V +G
Sbjct: 151 FPEPVTVKWNYGALSSGVRTVSSVLQSG 178
>pdb|4FFZ|H Chain H, Crystal Structure Of Denv1-E111 Fab Fragment Bound To
Denv-1 Diii (Western Pacific-74 Strain).
pdb|4FFZ|Z Chain Z, Crystal Structure Of Denv1-E111 Fab Fragment Bound To
Denv-1 Diii (Western Pacific-74 Strain)
Length = 217
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 32/75 (42%), Gaps = 9/75 (12%)
Query: 84 DHDRGVYWCT------ATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPV 136
D +Y+C + G ++ V + T AP V P+ V G + LGC V
Sbjct: 88 SEDSAIYYCARWFFPWYFDVWGTGTTVTVSSAKTTAPSVYPLAPVCGGTTGSSVTLGCLV 147
Query: 137 AGYPIE--SITWQKG 149
GY E ++TW G
Sbjct: 148 KGYFPEPVTLTWNSG 162
>pdb|3KYK|H Chain H, Crystal Structure Of Li33 Igg1 Fab
Length = 227
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 32/89 (35%), Gaps = 8/89 (8%)
Query: 164 NGTLLIENVQKDHDRGVYWCTATNKQ-------GRSSSQNVHISVTVPPKIAPFEFQPDL 216
N L N + D Y+C GR + V + T P + P
Sbjct: 77 NTLYLQMNSLRAEDTATYYCAREGHNDWYFDLWGRGTLVTVSSASTKGPSVFPLAPSSKS 136
Query: 217 HSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
SG A + CLV P P+T+SW L
Sbjct: 137 TSGGTAALGCLVKDYFPEPVTVSWNSGAL 165
>pdb|4DGI|H Chain H, Structure Of Pom1 Fab Fragment Complexed With Human Prpc
Fragment 120- 230
Length = 218
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 31/75 (41%), Gaps = 9/75 (12%)
Query: 84 DHDRGVYWCT-------ATNKQGRSSSQNVHISVTGAPFVRPMGNVSAIAGEPLYLGCPV 136
D VY+C+ A G+ +S V + T P V P+ + LGC V
Sbjct: 88 SEDSAVYFCSRSGYGYYAMEYWGQGTSVTVSSAKTTPPSVYPLAPGGGATNSMVTLGCLV 147
Query: 137 AGYPIE--SITWQKG 149
GY E ++TW G
Sbjct: 148 KGYFPEPVTVTWNSG 162
>pdb|1BLN|B Chain B, Anti-P-Glycoprotein Fab Mrk-16
pdb|1BLN|D Chain D, Anti-P-Glycoprotein Fab Mrk-16
Length = 218
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 36/87 (41%), Gaps = 10/87 (11%)
Query: 73 NGTLLIENVQKDHDRGVYWCTATNKQ-------GRSSSQNVHISVTGAPFVRPMGNVSA- 124
N L + + D +Y+C + G+ + V + T AP V P+ V
Sbjct: 77 NNLYLQMSSLRSEDTALYYCARYYRYEAWFASWGQGTLVTVSAAKTTAPSVYPLAPVCGD 136
Query: 125 IAGEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 137 TTGSSVTLGCLVKGYFPEPVTLTWNSG 163
>pdb|1IJ9|A Chain A, Highly Hydrated Human Vcam-1 Fragment
Length = 196
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 38/135 (28%), Positives = 55/135 (40%), Gaps = 29/135 (21%)
Query: 15 QPGPPVSLKCIATGNPTPHISWK--LDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFP 72
Q G VSL C TG +P SW+ +D PL G E L +N F
Sbjct: 14 QIGDSVSLTCSTTGCESPFFSWRTQIDS-PLNG------KVTNEGTTSTLTMNPVS--FG 64
Query: 73 NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA--IAGEPL 130
N +H Y CTAT + R + + + + P P ++S AG+P+
Sbjct: 65 N----------EHS---YLCTATC-ESRKLEKGIQVEIYSFP-KDPEIHLSGPLEAGKPI 109
Query: 131 YLGCPVAG-YPIESI 144
+ C VA YP + +
Sbjct: 110 TVKCSVADVYPFDRL 124
>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 = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 38/135 (28%), Positives = 55/135 (40%), Gaps = 29/135 (21%)
Query: 15 QPGPPVSLKCIATGNPTPHISWK--LDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFP 72
Q G VSL C TG +P SW+ +D PL G E L +N F
Sbjct: 14 QIGDSVSLTCSTTGCESPFFSWRTQIDS-PLNG------KVTNEGTTSTLTMNPVS--FG 64
Query: 73 NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA--IAGEPL 130
N +H Y CTAT + R + + + + P P ++S AG+P+
Sbjct: 65 N----------EHS---YLCTATC-ESRKLEKGIQVEIYSFP-KDPEIHLSGPLEAGKPI 109
Query: 131 YLGCPVAG-YPIESI 144
+ C VA YP + +
Sbjct: 110 TVKCSVADVYPFDRL 124
>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 = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 36/89 (40%), Gaps = 21/89 (23%)
Query: 19 PVSLKCIATGNPTPHISWKLDGYPLAGDRHE---NKNRIG---EARVQQLPLNRRQKVFP 72
PV L C +G +P + WK D GD N+I E RV LP
Sbjct: 20 PVKLSCAYSGFSSPRVEWKFD----QGDTTRLVCYNNKITASYEDRVTFLPTG------- 68
Query: 73 NGTLLIENVQKDHDRGVYWCTATNKQGRS 101
+ ++V ++ D G Y C + + G S
Sbjct: 69 ---ITFKSVTRE-DTGTYTCMVSEEGGNS 93
>pdb|1B2W|H Chain H, Comparison Of The Three-Dimensional Structures Of A
Humanized And A Chimeric Fab Of An Anti-Gamma-Interferon
Antibody
Length = 220
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 37/158 (23%), Positives = 60/158 (37%), Gaps = 28/158 (17%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEARVQ 60
+QPG + L C+A+G P + W P G+ H N++
Sbjct: 12 VQPGRSLKLSCLASGYIFTSSWINWVKQRPGRGLEWIGRIDPSDGEVHYNQD-----FKD 66
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTA-----TNKQGRSSSQNVHISVTGAPF 115
+ ++R + N L N + D VY+C G+ + V + T P
Sbjct: 67 RFTISRDKS--KNTLYLQMNSLRPEDTAVYYCARGFLPWFADWGQGTLVTVSSASTKGPS 124
Query: 116 VRPMGNVS-AIAGEPLYLGCPVAGYPIE--SITWQKGV 150
V P+ S + +G LGC V Y E +++W G
Sbjct: 125 VFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGA 162
>pdb|3NCY|Q Chain Q, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
pdb|3NCY|P Chain P, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
Length = 219
Score = 29.3 bits (64), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 37/162 (22%), Positives = 61/162 (37%), Gaps = 31/162 (19%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A+G P + W YP G N+ G+A
Sbjct: 10 ELVKPGALVKISCKASGYTFTNYDINWVKQRPGQGLEWIGWIYPGDGSTMYNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQ--------GRSSSQNVHISV 110
+ K + + ++ ++ VY+C + G+ +S V +
Sbjct: 70 L------TADKSSSTAYMQLSSLTSENSS-VYFCARLDGNYGGWFAYWGQGTSVTVSSAK 122
Query: 111 TGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
T P V P+ V G + LGC V GY E ++TW G
Sbjct: 123 TTPPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTVTWNSG 164
>pdb|2HKF|H Chain H, Crystal Structure Of The Complex Fab M75- Peptide
pdb|2HKH|H Chain H, Crystal Structure Of The Fab M75
Length = 218
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 36/95 (37%), Gaps = 12/95 (12%)
Query: 77 LIENVQKDHDRGVYWCTATNKQ-----GRSSSQNVHISVTGAPFVRPMG-NVSAIAGEPL 130
L N K D +Y+C G+ + V + T P V P+ G +
Sbjct: 83 LQMNNLKTEDTAMYYCVTYGNHPFAYWGQGTLVTVSAAKTTPPSVYPLAPGCGDTTGSSV 142
Query: 131 YLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
LGC V GY ES +TW G L+ FP
Sbjct: 143 TLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 173
>pdb|1EAP|B Chain B, Crystal Structure Of A Catalytic Antibody With A Serine
Protease Active Site
Length = 216
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 33/80 (41%), Gaps = 10/80 (12%)
Query: 80 NVQKDHDRGVYWC-------TATNKQGRSSSQNVHISVTGAPFVRPMG-NVSAIAGEPLY 131
N D VY+C + + G+ ++ V + T P V P+ G +
Sbjct: 84 NSLTSEDSAVYFCKRSYYGSSYVDYWGQGTTLTVSSAKTTPPSVYPLAPGCGDTTGSSVT 143
Query: 132 LGCPVAGYPIES--ITWQKG 149
LGC V GY ES +TW G
Sbjct: 144 LGCLVKGYFPESVTVTWNSG 163
>pdb|3W14|C Chain C, Insulin Receptor Ectodomain Construct Comprising Domains
L1,cr,l2, Fniii-1 And Alphact Peptide In Complex With
Bovine Insulin And Fab 83-14
pdb|3W14|P Chain P, Insulin Receptor Ectodomain Construct Comprising Domains
L1,cr,l2, Fniii-1 And Alphact Peptide In Complex With
Bovine Insulin And Fab 83-14
Length = 207
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 36/155 (23%), Positives = 58/155 (37%), Gaps = 24/155 (15%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A+G P + W YP G N+ G+A
Sbjct: 10 ELVKPGALVKISCKASGYTFTNYDIHWVKQRPGQGLEWIGWIYPGDGSTKYNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCT-ATNKQGRSSSQNVHISVTGAPFVR 117
+ K + + ++ + VY+C G+ + V + T AP V
Sbjct: 70 L------TADKSSSTAYMHLSSLTSEKS-AVYFCAREWAYWGQGTLVTVSAAKTTAPSVY 122
Query: 118 PMG-NVSAIAGEPLYLGCPVAGYPIE--SITWQKG 149
P+ G + LGC V GY E ++TW G
Sbjct: 123 PLAPGCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 157
>pdb|1AE6|H Chain H, Igg-Fab Fragment Of Mouse Monoclonal Antibody Ctm01
Length = 218
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 31/79 (39%), Gaps = 9/79 (11%)
Query: 175 DHDRGVYWCT--------ATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQC 226
D VY+C A + G+ +S V + T PP + P + + C
Sbjct: 88 SEDTAVYFCAREKTTYYYAMDYWGQGTSVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLGC 147
Query: 227 LVTKGDP-PLTISWLKNGL 244
LV P P+T++W L
Sbjct: 148 LVKGYFPEPVTVTWNSGSL 166
>pdb|1YUH|H Chain H, Fab Fragment
pdb|1YUH|B Chain B, Fab Fragment
Length = 218
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/90 (23%), Positives = 36/90 (40%), Gaps = 8/90 (8%)
Query: 163 PNGTLLIE-NVQKDHDRGVYWCTA------TNKQGRSSSQNVHISVTVPPKIAPFEFQPD 215
P+ T +E + D VY+C + G+ ++ V + T PP + P
Sbjct: 75 PSSTAYMELSSLTSEDSAVYYCARYAYCRPMDYWGQGTTVTVSSAATTPPSVYPLAPGSA 134
Query: 216 LHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
+ + CLV P P+T++W L
Sbjct: 135 AQTNSMVTLGCLVKGYFPEPVTVTWNSGAL 164
>pdb|3U7W|H Chain H, Crystal Structure Of Nih45-46 Fab
pdb|3U7Y|H Chain H, Structure Of Nih45-46 Fab In Complex With Gp120 Of 93th057
Hiv
Length = 229
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 26/100 (26%), Positives = 37/100 (37%), Gaps = 14/100 (14%)
Query: 159 QKVFPNGTLLIENVQKDHDRGVYWCT----ATNKQ---------GRSSSQNVHISVTVPP 205
+ V+ + L D VY+CT T + GR + V + T P
Sbjct: 72 RDVYSDTAFLELRSLTSDDTAVYFCTRGKYCTARDYYNWDFEHWGRGAPVTVSSASTKGP 131
Query: 206 KIAPFEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
+ P SG A + CLV P P+T+SW L
Sbjct: 132 SVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 171
>pdb|1UYW|H Chain H, Crystal Structure Of The Antiflavivirus Fab4g2
pdb|1UYW|M Chain M, Crystal Structure Of The Antiflavivirus Fab4g2
Length = 218
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 32/75 (42%), Gaps = 10/75 (13%)
Query: 85 HDRGVYWCTAT-------NKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPV 136
D VY+C + G ++ V + T AP V P+ V G + LGC V
Sbjct: 88 EDSAVYFCARIYHYDGYFDVWGAGTAVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLV 147
Query: 137 AGYPIE--SITWQKG 149
GY E ++TW G
Sbjct: 148 KGYFPEPVTLTWNSG 162
>pdb|1EJO|H Chain H, Fab Fragment Of Neutralising Monoclonal Antibody 4c4
Complexed With G-H Loop From Fmdv
Length = 220
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 35/162 (21%), Positives = 59/162 (36%), Gaps = 35/162 (21%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRHENKNRIGEARVQQLPLNRRQKVFPN 73
++PG + L C A+G + Y ++ R + R+ V + +P+
Sbjct: 12 VKPGGSLKLSCAASG-------FTFSSYTMSWVRQTPEKRL--EWVATISSGGAYTYYPD 62
Query: 74 G-----TLLIENVQ----------KDHDRGVYWCT--------ATNKQGRSSSQNVHISV 110
T+ +N + + D +Y+C G + V +
Sbjct: 63 SVKGRFTISDDNAESTLYLQMSSLRSEDTAMYYCVRRAFDSDVGFASWGHRTLVTVSAAK 122
Query: 111 TGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
T AP V P+ V G + LGC V GY E ++TW G
Sbjct: 123 TTAPSVYPLAPVCGGTTGSSVTLGCLVKGYFPEPVTLTWNSG 164
>pdb|2AW2|A Chain A, Crystal Structure Of The Human Btla-hvem Complex
pdb|2AW2|X Chain X, Crystal Structure Of The Human Btla-hvem Complex
Length = 120
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 43/98 (43%), Gaps = 12/98 (12%)
Query: 115 FVRPMGNVSAIAGEPLYLGCPV---AGYPIESITWQK--GVQQLPLNRRQ---KVFPNGT 166
+++ S +AG+P L CPV A P +TW K G + L RQ K N +
Sbjct: 14 YIKRQSEHSILAGDPFELECPVKYCANRP--HVTWCKLNGTTCVKLEDRQTSWKEEKNIS 71
Query: 167 LLIENVQ--KDHDRGVYWCTATNKQGRSSSQNVHISVT 202
I + + +D G Y C+A + S + + VT
Sbjct: 72 FFILHFEPVLPNDNGSYRCSANFQSNLIESHSTTLYVT 109
>pdb|3LOH|C Chain C, Structure Of The Insulin Receptor Ectodomain, Including Ct
P
Length = 220
Score = 28.9 bits (63), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 36/155 (23%), Positives = 58/155 (37%), Gaps = 24/155 (15%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRHENKNRIGEAR 58
+ ++PG V + C A+G P + W YP G N+ G+A
Sbjct: 10 ELVKPGALVKISCKASGYTFTNYDIHWVKQRPGQGLEWIGWIYPGDGSTKYNEKFKGKAT 69
Query: 59 VQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTAT-NKQGRSSSQNVHISVTGAPFVR 117
+ K + + ++ + VY+C G+ + V + T AP V
Sbjct: 70 L------TADKSSSTAYMHLSSLTSEKS-AVYFCAREWAYWGQGTLVTVSAAKTTAPSVY 122
Query: 118 PMG-NVSAIAGEPLYLGCPVAGYPIE--SITWQKG 149
P+ G + LGC V GY E ++TW G
Sbjct: 123 PLAPGCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 157
>pdb|2CRY|A Chain A, Solution Structure Of The Fifth Ig-Like Domain Of Human
Kin Of Irre Like 3
Length = 122
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/48 (31%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 192 SSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDPPLTISW 239
SS + ++V PP I+ + Q LH G++ ++C + PP I+W
Sbjct: 2 SSGSSGTLTVNGPPIISSTQTQHALH-GEKGQIKCFIRSTPPPDRIAW 48
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 39/86 (45%), Gaps = 18/86 (20%)
Query: 46 DRHENKNRIGEARVQQLPLNRRQKVFPNGTLLIE-------NVQKD----------HDRG 88
D + ++ R+ E + + P++ + + PNGT+L +V D D G
Sbjct: 361 DLNISEGRMAELKCRTPPMSSVKWLLPNGTVLSHASRHPRISVLNDGTLNFSHVLLSDTG 420
Query: 89 VYWCTATNKQGRS-SSQNVHISVTGA 113
VY C TN G S +S +++S G
Sbjct: 421 VYTCMVTNVAGNSNASAYLNVSTAGT 446
>pdb|3ALP|A Chain A, Cell Adhesion Protein
pdb|3ALP|B Chain B, Cell Adhesion Protein
pdb|3U83|A Chain A, Crystal Structure Of Nectin-1
Length = 331
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 46/178 (25%), Positives = 68/178 (38%), Gaps = 43/178 (24%)
Query: 93 TATNKQGRSSSQNVHISVTGAPFVRPMGNVSAIAGEPLYLGC----PVAGYPIESITWQK 148
T + GR SQ V ++ + F+ G + L C P+ I +TWQK
Sbjct: 5 TGGQQMGRDPSQVVQVNDSMYGFI----------GTDVVLHCSFANPLPSVKITQVTWQK 54
Query: 149 ----------------GVQQL-PLNRRQKV----FPNGTLLIENVQKDHDRGVYWCT-AT 186
GV L P R + F +GT+ + ++ + D GVY C AT
Sbjct: 55 STNGSKQNVAIYNPSMGVSVLAPYRERVEFLRPSFTDGTIRLSRLELE-DEGVYICEFAT 113
Query: 187 NKQGRSSSQNVHISVTVPPKIAPFEFQPDLHS----GDRAGVQ-CLVTKGDPPLTISW 239
G SQ ++++V P Q L + D+ V C G PP +SW
Sbjct: 114 FPTGNRESQ-LNLTVMAKPTNWIEGTQAVLRAKKGQDDKVLVATCTSANGKPPSVVSW 170
>pdb|1A5F|H Chain H, Fab Fragment Of A Monoclonal Anti-E-Selectin Antibody
Length = 217
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 34/90 (37%), Gaps = 9/90 (10%)
Query: 164 NGTLLIENVQKDHDRGVYWCT--------ATNKQGRSSSQNVHISVTVPPKIAPFEFQPD 215
N L + D VY+C A + G+ +S V + T PP + P
Sbjct: 77 NTAYLQMSSLTSEDTAVYYCARVGLSYWYAMDYWGQGTSVTVSSAKTTPPSVYPLAPGSA 136
Query: 216 LHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
+ + CLV P P+T++W L
Sbjct: 137 AQTNSMVTLGCLVKGYFPEPVTVTWNSGSL 166
>pdb|1N5Y|H Chain H, Hiv-1 Reverse Transcriptase Crosslinked To Post-
Translocation Aztmp-Terminated Dna (Complex P)
pdb|1N6Q|H Chain H, Hiv-1 Reverse Transcriptase Crosslinked To Pre-
Translocation Aztmp-Terminated Dna (Complex N)
pdb|1T03|H Chain H, Hiv-1 Reverse Transcriptase Crosslinked To Tenofovir
Terminated Template-Primer (Complex P)
pdb|1R0A|H Chain H, Crystal Structure Of Hiv-1 Reverse Transcriptase
Covalently Tethered To Dna Template-primer Solved To 2.8
Angstroms
pdb|3KLH|D Chain D, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Post-Translocation
Aztmp-Terminated Dna (Complex P)
Length = 225
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 31/154 (20%), Positives = 54/154 (35%), Gaps = 37/154 (24%)
Query: 128 EPLYLGCPVAGYPIES----ITW-----QKGVQQLP-----------------LNRRQKV 161
+P L C +G+ + + +TW KG++ L L +
Sbjct: 16 QPFRLTCTFSGFSLSTSGIGVTWIRQPSGKGLEWLATIWWDDDNRYNPSLKSRLTVSKDT 75
Query: 162 FPNGTLLIENVQKDHDRGVYWC----------TATNKQGRSSSQNVHISVTVPPKIAPFE 211
N L + D +Y+C +A + G+ +S V + T PP + P
Sbjct: 76 SNNQAFLNMMTVETADTAIYYCAQSAITSVTDSAMDHWGQGTSVTVSSAKTTPPSVYPLA 135
Query: 212 FQPDLHSGDRAGVQCLVTKGDP-PLTISWLKNGL 244
+ + CLV P P+T++W L
Sbjct: 136 PGSAAQTNSMVTLGCLVKGYFPEPVTVTWNSGSL 169
>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 = 3.2, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 36/85 (42%), Gaps = 12/85 (14%)
Query: 76 LLIENVQKDHDRGVYWCTATNK--------QGRSSSQNVHISVTGAPFVRPMGNVSA-IA 126
L I N+ K+ D Y C + G+ + V + T AP V P+ V
Sbjct: 81 LEINNL-KNEDMATYLCASAAGIRWAWFAWWGQGTLVTVSAAKTTAPSVYPLAPVCGDTT 139
Query: 127 GEPLYLGCPVAGYPIE--SITWQKG 149
G + LGC V GY E ++TW G
Sbjct: 140 GSSVTLGCLVKGYFPEPVTLTWNSG 164
>pdb|3IXX|G Chain G, The Pseudo-Atomic Structure Of West Nile Immature Virus In
Complex With Fab Fragments Of The Anti-Fusion Loop
Antibody E53
pdb|3IXX|I Chain I, The Pseudo-Atomic Structure Of West Nile Immature Virus In
Complex With Fab Fragments Of The Anti-Fusion Loop
Antibody E53
pdb|3IXY|G Chain G, The Pseudo-Atomic Structure Of Dengue Immature Virus In
Complex With Fab Fragments Of The Anti-Fusion Loop
Antibody E53
pdb|3IXY|I Chain I, The Pseudo-Atomic Structure Of Dengue Immature Virus In
Complex With Fab Fragments Of The Anti-Fusion Loop
Antibody E53
Length = 221
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 32/77 (41%), Gaps = 10/77 (12%)
Query: 83 KDHDRGVYWCTAT-------NKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGC 134
+ DR Y+C + G ++ V + T P V P+ V G + LGC
Sbjct: 89 RAEDRATYYCATVYGNYPYFDVWGAGTTVAVSSAKTTPPSVYPLAPVCGGTTGSSVTLGC 148
Query: 135 PVAGYPIE--SITWQKG 149
V GY E ++TW G
Sbjct: 149 LVKGYFPEPVTLTWNSG 165
>pdb|2GK2|A Chain A, Crystal Structure Of The N Terminal Domain Of Human
Ceacam1
pdb|2GK2|B Chain B, Crystal Structure Of The N Terminal Domain Of Human
Ceacam1
Length = 111
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 30/57 (52%), Gaps = 3/57 (5%)
Query: 35 SWKLDGYPLAGDRHENKNRIGEARVQQLPLNR-RQKVFPNGTLLIENVQKDHDRGVY 90
SW G + G+R IG + P N R+ ++PN +LLI+NV ++ D G Y
Sbjct: 36 SW-YKGERVDGNRQIVGYAIGTQQATPGPANSGRETIYPNASLLIQNVTQN-DTGFY 90
>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 = 28.5 bits (62), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 36/159 (22%), Positives = 60/159 (37%), Gaps = 29/159 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAGDRHENKNRIGE 56
+ ++PG V L C A+G P + W ++D P G+ + G+
Sbjct: 10 ELVKPGASVKLSCTASGFNIKDTYMHWVKQRPEQGLEWIGRID--PANGNTKYDPKFQGK 67
Query: 57 ARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATN--KQGRSSSQNVHISVTGAP 114
A + N L + D VY+C + G+ ++ V + T P
Sbjct: 68 ATI-------TADTSSNTAYLQLSSLTSEDTAVYYCASYYGIYWGQGTTLTVSSASTKGP 120
Query: 115 FVRPMGNVS-AIAGEPLYLGCPVAGYPIE--SITWQKGV 150
V P+ S + +G LGC V Y E +++W G
Sbjct: 121 SVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGA 159
>pdb|2W59|A Chain A, Structure Of An Avian Igy-Fc 3-4 Fragment
pdb|2W59|B Chain B, Structure Of An Avian Igy-Fc 3-4 Fragment
Length = 231
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 202 TVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDP-PLTISWLKN 242
T PP I PF P+ S R + CLV P + I WL++
Sbjct: 116 TTPPLIYPFAPHPEELSLSRVTLSCLVRGFRPRDIEIRWLRD 157
>pdb|4FQX|A Chain A, Crystal Structure Of Hla-Dm Bound To Hla-Dr1
pdb|4GBX|A Chain A, Crystal Structure Of An Immune Complex At Ph 6.5
Length = 191
Score = 28.5 bits (62), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/70 (22%), Positives = 31/70 (44%), Gaps = 2/70 (2%)
Query: 183 CTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDPPLT-ISWLK 241
C N + + N VPP++ P + + + C + K PP+ ++WL+
Sbjct: 65 CDKANLEIMTKRSNYTPITNVPPEVTVLTNSP-VELREPNVLICFIDKFTPPVVNVTWLR 123
Query: 242 NGLPILSAMG 251
NG P+ + +
Sbjct: 124 NGKPVTTGVS 133
>pdb|1SEQ|H Chain H, Fab Mnac13
Length = 225
Score = 28.5 bits (62), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 19/83 (22%), Positives = 32/83 (38%), Gaps = 12/83 (14%)
Query: 174 KDHDRGVYWCTA-----------TNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRA 222
K D +Y+C ++ G+ +S V + T PP + P +
Sbjct: 87 KSEDTALYYCARGAMFGNDFKYPMDRWGQGTSVTVSSAATTPPSVYPLAPGSAAQTNSMV 146
Query: 223 GVQCLVTKGDP-PLTISWLKNGL 244
+ CLV P P+T++W L
Sbjct: 147 TLGCLVKGYFPEPVTVTWNSGSL 169
>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 = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 42/107 (39%), Gaps = 6/107 (5%)
Query: 56 EARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPF 115
E RV+Q P R +G++L+ N + D G Y C + S + + V P
Sbjct: 64 EGRVEQPPPPRNPL---DGSVLLRNAVQ-ADEGEYECRVSTFPAGSFQARLRLRVLVPPL 119
Query: 116 --VRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQK 160
+ P + G L C G P S+TW V+ +R K
Sbjct: 120 PSLNPGPALEEGQGLTLAASCTAEGSPAPSVTWDTEVKGTTSSRSFK 166
>pdb|3CFB|H Chain H, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2 In Complex With Stilbene Hapten At 100k
pdb|3CFB|B Chain B, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2 In Complex With Stilbene Hapten At 100k
Length = 213
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 33/75 (44%), Gaps = 10/75 (13%)
Query: 83 KDHDRGVYWCTATNKQGRSS-SQNVHISVTGA----PFVRPMG-NVSAIAGEPLYLGCPV 136
+ D +Y+C QGR Q ++V+ A P V P+ G + LGC V
Sbjct: 86 RSEDTALYYCA--RGQGRPYWGQGTLVTVSSAKTTPPSVYPLAPGCGDTTGSSVTLGCLV 143
Query: 137 AGYPIES--ITWQKG 149
GY ES +TW G
Sbjct: 144 KGYFPESVTVTWNSG 158
>pdb|3CFC|H Chain H, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2
Length = 213
Score = 28.1 bits (61), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 33/75 (44%), Gaps = 10/75 (13%)
Query: 83 KDHDRGVYWCTATNKQGRSS-SQNVHISVTGA----PFVRPMG-NVSAIAGEPLYLGCPV 136
+ D +Y+C QGR Q ++V+ A P V P+ G + LGC V
Sbjct: 86 RSEDTALYYCA--RGQGRPYWGQGTLVTVSSAKTTPPSVYPLAPGCGDTTGSSVTLGCLV 143
Query: 137 AGYPIES--ITWQKG 149
GY ES +TW G
Sbjct: 144 KGYFPESVTVTWNSG 158
>pdb|4FC6|A Chain A, Studies On Dcr Shed New Light On Peroxisomal
Beta-Oxidation: Crystal Structure Of The Ternary Complex
Of Pdcr
pdb|4FC6|B Chain B, Studies On Dcr Shed New Light On Peroxisomal
Beta-Oxidation: Crystal Structure Of The Ternary Complex
Of Pdcr
pdb|4FC6|C Chain C, Studies On Dcr Shed New Light On Peroxisomal
Beta-Oxidation: Crystal Structure Of The Ternary Complex
Of Pdcr
pdb|4FC6|D Chain D, Studies On Dcr Shed New Light On Peroxisomal
Beta-Oxidation: Crystal Structure Of The Ternary Complex
Of Pdcr
pdb|4FC7|A Chain A, Studies On Dcr Shed New Light On Peroxisomal
Beta-Oxidation: Crystal Structure Of The Ternary Complex
Of Pdcr
pdb|4FC7|B Chain B, Studies On Dcr Shed New Light On Peroxisomal
Beta-Oxidation: Crystal Structure Of The Ternary Complex
Of Pdcr
pdb|4FC7|C Chain C, Studies On Dcr Shed New Light On Peroxisomal
Beta-Oxidation: Crystal Structure Of The Ternary Complex
Of Pdcr
pdb|4FC7|D Chain D, Studies On Dcr Shed New Light On Peroxisomal
Beta-Oxidation: Crystal Structure Of The Ternary Complex
Of Pdcr
Length = 277
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 20/56 (35%), Positives = 26/56 (46%), Gaps = 8/56 (14%)
Query: 110 VTGAPFVRPMGNVSAIAGEPLYLGCPVAGYPIESITWQKGVQQLPLNRRQKVFPNG 165
VT +P R +GN + IA LYL P+A Y ++ G L FPNG
Sbjct: 230 VTASPLQR-LGNKTEIAHSVLYLASPLASYVTGAVLVADGGAWL-------TFPNG 277
>pdb|2R0W|H Chain H, Pfa2 Fab Complexed With Abeta1-8
Length = 223
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 29/67 (43%), Gaps = 10/67 (14%)
Query: 86 DRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE-- 142
D YW G+ + V + T AP V P+ V G + LGC V GY E
Sbjct: 108 DWFAYW-------GQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPV 160
Query: 143 SITWQKG 149
++TW G
Sbjct: 161 TLTWNSG 167
>pdb|1BBD|H Chain H, Three Dimensional Structure Of The Fab Fragment Of A
Neutralizing Antibody To Human Rhinovirus Serotype 2
pdb|1A3R|H Chain H, Fab Fragment (Antibody 8f5) Complexed With Peptide From
Human Rhinovirus (Serotype 2) Viral Capsid Protein Vp2
(Residues 156-170)
Length = 218
Score = 28.1 bits (61), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 20/54 (37%), Positives = 26/54 (48%), Gaps = 3/54 (5%)
Query: 99 GRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
G +S V + T AP V P+ V G + LGC V GY E ++TW G
Sbjct: 109 GPGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
>pdb|2R0Z|H Chain H, Pfa1 Fab Complexed With Gripi Peptide Fragment
Length = 223
Score = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 29/67 (43%), Gaps = 10/67 (14%)
Query: 86 DRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE-- 142
D YW G+ + V + T AP V P+ V G + LGC V GY E
Sbjct: 108 DWFAYW-------GQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPV 160
Query: 143 SITWQKG 149
++TW G
Sbjct: 161 TLTWNSG 167
>pdb|1U2H|A Chain A, X-Ray Structure Of The N-Terminally Truncated Human
Apep-1
Length = 99
Score = 28.1 bits (61), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 23/99 (23%), Positives = 35/99 (35%), Gaps = 20/99 (20%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGD--RHENKNRIGEARVQ 60
P + Q+++ G V + G P P +SW + P+ D R + G R++
Sbjct: 6 PTFKVSLMDQSVREGQDVIMSIRVQGEPKPVVSWLRNRQPVRPDQRRFAEEAEGGLCRLR 65
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQG 99
L R D G Y C A N+ G
Sbjct: 66 ILAAER------------------GDAGFYTCKAVNEYG 86
>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 = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 31/73 (42%), Gaps = 6/73 (8%)
Query: 83 KDHDRGVYWCTATNKQ---GRSSSQNVHISVTGAPFVRPMG-NVSAIAGEPLYLGCPVAG 138
+ D +Y+C + G+ +S V + T P V P G + LGC V G
Sbjct: 85 RSEDTALYYCARGQGRPYWGQGTSVTVSAAKTTPPSVYPAAPGCGDTTGSSVTLGCLVKG 144
Query: 139 YPIE--SITWQKG 149
Y E ++TW G
Sbjct: 145 YFPEPVTVTWNSG 157
>pdb|3J1S|H Chain H, Structure Of Adeno-Associated Virus-2 In Complex With
Neutralizing Monoclonal Antibody A20
Length = 218
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 42/173 (24%), Positives = 64/173 (36%), Gaps = 34/173 (19%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISWK-LDGYPLAGDRHE-----------NKNRIGEARVQ 60
++P +SL C TG + T +W + +P G++ E N N ++RV
Sbjct: 13 VKPSQSLSLTCTVTGYSITSGYTWHWIRQFP--GNKQEWMGYIHFSGYTNYNPSLKSRVS 70
Query: 61 QLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNK-------QGRSSSQNVHISVTGA 113
+ + F L N D Y+C + G+ + V + T
Sbjct: 71 ITRDTSKNQFF-----LHLNSVTTEDTATYYCARGDYGYEWFTYWGQGTLVTVSAAKTTP 125
Query: 114 PFVRPMG-NVSAIAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
P V P+ G + LGC V GY ES +TW G L+ FP
Sbjct: 126 PSVYPLAPGCGDTTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 174
>pdb|2IQ9|H Chain H, Pfa2 Fab Fragment, Triclinic Apo Form
pdb|2IQA|H Chain H, Pfa2 Fab Fragment, Monoclinic Apo Form
pdb|2IQA|B Chain B, Pfa2 Fab Fragment, Monoclinic Apo Form
Length = 223
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 29/67 (43%), Gaps = 10/67 (14%)
Query: 86 DRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE-- 142
D YW G+ + V + T AP V P+ V G + LGC V GY E
Sbjct: 108 DWFAYW-------GQGTLVTVSAAKTTAPSVYPLAPVCGGTTGSSVTLGCLVKGYFPEPV 160
Query: 143 SITWQKG 149
++TW G
Sbjct: 161 TLTWNSG 167
>pdb|3EYU|H Chain H, Pfa1 Fab Fragment Complexed With Ror2(518-525)
Length = 226
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 29/67 (43%), Gaps = 10/67 (14%)
Query: 86 DRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE-- 142
D YW G+ + V + T AP V P+ V G + LGC V GY E
Sbjct: 108 DWFAYW-------GQGTLVTVSAAKTTAPSVYPLAPVXGGTTGSSVTLGCLVKGYFPEPV 160
Query: 143 SITWQKG 149
++TW G
Sbjct: 161 TLTWNSG 167
>pdb|4I0K|A Chain A, Crystal Structure Of Murine B7-H3 Extracellular Domain
Length = 222
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 22/109 (20%), Positives = 44/109 (40%), Gaps = 8/109 (7%)
Query: 156 NRRQKVFP------NGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTVPPKIAP 209
+ R +FP N +L ++ V + D G Y C + + S++ ++ ++
Sbjct: 57 SNRTALFPDLLVQGNASLRLQRV-RVTDEGSYTCFVSIQDFDSAAVSLQVAAPYSKPSMT 115
Query: 210 FEFQPDLHSGDRAGVQCLVTKGDPPLTISWLK-NGLPILSAMGVGRKGN 257
E DL G+ + C +G P + W G+P+ + + N
Sbjct: 116 LEPNKDLRPGNMVTITCSSYQGYPEAEVFWKDGQGVPLTGNVTTSQMAN 164
>pdb|2ENS|A Chain A, Solution Structure Of The Third Ig-Like Domain From
Human Advanced Glycosylation End Product-Specific
Receptor
Length = 96
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 4 QLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDG 40
QL+ + + PG V+L C P+P I W DG
Sbjct: 12 QLVVEPEGGAVAPGGTVTLTCEVPAQPSPQIHWMKDG 48
>pdb|2LE9|A Chain A, Ragec2-S100a13 Tetrameric Complex
pdb|2LE9|D Chain D, Ragec2-S100a13 Tetrameric Complex
Length = 93
Score = 27.7 bits (60), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 13/37 (35%), Positives = 18/37 (48%)
Query: 4 QLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDG 40
QL+ + + PG V+L C P+P I W DG
Sbjct: 5 QLVVEPEGGAVAPGGTVTLTCEVPAQPSPQIHWMKDG 41
>pdb|3EYS|H Chain H, Pfa1 Fab Fragment Complexed With Pyro-Glu3-A-Beta (3-8)
Length = 223
Score = 27.7 bits (60), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 29/67 (43%), Gaps = 10/67 (14%)
Query: 86 DRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE-- 142
D YW G+ + V + T AP V P+ V G + LGC V GY E
Sbjct: 108 DWFAYW-------GQGTLVTVSAAKTTAPSVYPLAPVCGGTTGSSVTLGCLVKGYFPEPV 160
Query: 143 SITWQKG 149
++TW G
Sbjct: 161 TLTWNSG 167
>pdb|2IPT|H Chain H, Pfa1 Fab Fragment
Length = 223
Score = 27.7 bits (60), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 29/67 (43%), Gaps = 10/67 (14%)
Query: 86 DRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE-- 142
D YW G+ + V + T AP V P+ V G + LGC V GY E
Sbjct: 108 DWFAYW-------GQGTLVTVSAAKTTAPSVYPLAPVCGGTTGSSVTLGCLVKGYFPEPV 160
Query: 143 SITWQKG 149
++TW G
Sbjct: 161 TLTWNSG 167
>pdb|2IPU|H Chain H, Pfa1 Fab Fragment Complexed With Abeta 1-8 Peptide
pdb|2IPU|G Chain G, Pfa1 Fab Fragment Complexed With Abeta 1-8 Peptide
Length = 226
Score = 27.7 bits (60), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 29/67 (43%), Gaps = 10/67 (14%)
Query: 86 DRGVYWCTATNKQGRSSSQNVHISVTGAPFVRPMGNVSA-IAGEPLYLGCPVAGYPIE-- 142
D YW G+ + V + T AP V P+ V G + LGC V GY E
Sbjct: 108 DWFAYW-------GQGTLVTVSAAKTTAPSVYPLAPVCGGTTGSSVTLGCLVKGYFPEPV 160
Query: 143 SITWQKG 149
++TW G
Sbjct: 161 TLTWNSG 167
>pdb|1CBV|H Chain H, An Autoantibody To Single-Stranded Dna: Comparison Of The
Three-Dimensional Structures Of The Unliganded Fab And A
Deoxynucleotide-Fab Complex
pdb|1NBV|H Chain H, An Autoantibody To Single-Stranded Dna: Comparison Of The
Three-Dimensional Structures Of The Unliganded Fab And A
Deoxynucleotide-Fab Complex
Length = 219
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 37/101 (36%), Gaps = 14/101 (13%)
Query: 73 NGTLLIENVQKDHDRGVYWCTATNK-------QGRSSSQNVHISVTGAPFVRPMG-NVSA 124
N L N K D +Y+C G+ + V + T P V P+
Sbjct: 79 NMLYLQMNNLKTEDTAMYYCVRDQTGTAWFAYWGQGTLVTVSAAKTTPPSVYPLAPGCGD 138
Query: 125 IAGEPLYLGCPVAGYPIES--ITWQKGVQQLPLNRRQKVFP 163
G + LGC V GY ES +TW G L+ FP
Sbjct: 139 TTGSSVTLGCLVKGYFPESVTVTWNSG----SLSSSVHTFP 175
>pdb|1KCR|H Chain H, Crystal Structure Of Antibody Pc283 In Complex With Ps1
Peptide
Length = 218
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 41/151 (27%), Positives = 59/151 (39%), Gaps = 17/151 (11%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISWK-LDGYPLAGDRHENKNRI--GEARVQQLPLNRRQK 69
++P +SL C TG + T +W + +P G++ E I G + L R
Sbjct: 12 VKPSQSLSLTCTVTGYSITSDYAWNWIRQFP--GNKLEWMGYIRNGGSTTYNPSLASRIS 69
Query: 70 VF----PNGTLLIENVQKDHDRGVYWC----TATNKQGRSSSQNVHISVTGAPFVRPMGN 121
+ N L N D Y+C T G + V + T P V P+
Sbjct: 70 ITRDTSKNQFFLQLNSVTTEDTATYYCARGGTGFTYWGAGTLVTVSAAATTPPSVYPLAP 129
Query: 122 VSAIAGEPLY-LGCPVAGYPIE--SITWQKG 149
SA A + LGC V GY E ++TW G
Sbjct: 130 GSAAAAAAMVTLGCLVKGYFPEPVTVTWNSG 160
>pdb|1UB6|H Chain H, Crystal Structure Of Antibody 19g2 With Sera Ligand
pdb|1UB6|A Chain A, Crystal Structure Of Antibody 19g2 With Sera Ligand
Length = 208
Score = 27.3 bits (59), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 32/75 (42%), Gaps = 10/75 (13%)
Query: 83 KDHDRGVYWCTATNKQGRSS-SQNVHISVTGA----PFVRPMG-NVSAIAGEPLYLGCPV 136
+ D +Y+C QGR Q ++V+ A P V P G + LGC V
Sbjct: 85 RSEDTALYYCA--RGQGRPYWGQGTLVTVSAAKTTPPSVYPAAPGCGDTTGSSVTLGCLV 142
Query: 137 AGYPIES--ITWQKG 149
GY ES +TW G
Sbjct: 143 KGYFPESVTVTWNSG 157
>pdb|3LZF|H Chain H, Crystal Structure Of Fab 2d1 In Complex With The 1918
Influenza Virus Hemagglutinin
Length = 230
Score = 27.3 bits (59), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 30/80 (37%), Gaps = 12/80 (15%)
Query: 177 DRGVYWCTAT-----------NKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQ 225
D Y+C T + GR + V + T P + P SG A +
Sbjct: 94 DTATYYCARTLRVSGDYVRDFDLWGRGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALG 153
Query: 226 CLVTKGDP-PLTISWLKNGL 244
CLV P P+T+SW L
Sbjct: 154 CLVKDYFPEPVTVSWNSGAL 173
>pdb|3QHF|H Chain H, Crystal Structure Of Fab Del2d1, A Deletion Variant Of
Anti-Influenza Antibody 2d1
Length = 227
Score = 27.3 bits (59), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 30/80 (37%), Gaps = 12/80 (15%)
Query: 177 DRGVYWCTAT-----------NKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQ 225
D Y+C T + GR + V + T P + P SG A +
Sbjct: 91 DTATYYCARTLRVSGDYVRDFDLWGRGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALG 150
Query: 226 CLVTKGDP-PLTISWLKNGL 244
CLV P P+T+SW L
Sbjct: 151 CLVKDYFPEPVTVSWNSGAL 170
>pdb|3QHZ|H Chain H, Crystal Structure Of Human Anti-Influenza Fab 2d1
pdb|3QHZ|I Chain I, Crystal Structure Of Human Anti-Influenza Fab 2d1
Length = 232
Score = 26.9 bits (58), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 30/80 (37%), Gaps = 12/80 (15%)
Query: 177 DRGVYWCTAT-----------NKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQ 225
D Y+C T + GR + V + T P + P SG A +
Sbjct: 94 DTATYYCARTLRVSGDYVRDFDLWGRGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALG 153
Query: 226 CLVTKGDP-PLTISWLKNGL 244
CLV P P+T+SW L
Sbjct: 154 CLVKDYFPEPVTVSWNSGAL 173
>pdb|3TCL|H Chain H, Crystal Structure Of Hiv-1 Neutralizing Antibody Ch04
pdb|3TCL|A Chain A, Crystal Structure Of Hiv-1 Neutralizing Antibody Ch04
Length = 237
Score = 26.9 bits (58), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 28/67 (41%), Gaps = 3/67 (4%)
Query: 179 GVYWCTATNKQGRSSSQNVHISVTVPPKIAPFEFQPDLHSGDRAGVQCLVTKGDP-PLTI 237
G +W + GR + V + T P + P SG A + CLV P P+T+
Sbjct: 115 GTFW--YFDVWGRGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTV 172
Query: 238 SWLKNGL 244
SW L
Sbjct: 173 SWNSGAL 179
>pdb|1LO0|Y Chain Y, Catalytic Retro-Diels-Alderase Transition State Analogue
Complex
pdb|1LO0|H Chain H, Catalytic Retro-Diels-Alderase Transition State Analogue
Complex
pdb|1LO2|Y Chain Y, Retro-Diels-Alderase Catalytic Antibody
pdb|1LO2|H Chain H, Retro-Diels-Alderase Catalytic Antibody
pdb|1LO3|Y Chain Y, Retro-Diels-Alderase Catalytic Antibody: Product Analogue
pdb|1LO3|H Chain H, Retro-Diels-Alderase Catalytic Antibody: Product Analogue
Length = 220
Score = 26.9 bits (58), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 35/156 (22%), Positives = 56/156 (35%), Gaps = 25/156 (16%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW----KLDGYPLAGDRHENKNRIGE 56
++PG + L C A+G P + W G D + + I
Sbjct: 12 VKPGGSLKLSCAASGFSFRNYGMSWVRQTPEKRLEWVASISYGGLIYYPDSIKGRFTISR 71
Query: 57 ARVQQLPLNRRQKVFPNGTLLIENVQKDHDRGVYWCTATNKQGRSSSQNVHISVTGAPFV 116
Q + + + T + ++ D + W T G+ + V + T AP V
Sbjct: 72 DIAQNILYLQMSSLRSEDTAMYHCIRGDSF--LVWFTF---WGQGTLVTVSAAKTTAPSV 126
Query: 117 RPMGNVSA-IAGEPLYLGCPVAGYPIE--SITWQKG 149
P+ V G + LGC V GY E ++TW G
Sbjct: 127 YPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTWNSG 162
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.136 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,741,973
Number of Sequences: 62578
Number of extensions: 388095
Number of successful extensions: 1898
Number of sequences better than 100.0: 402
Number of HSP's better than 100.0 without gapping: 74
Number of HSP's successfully gapped in prelim test: 328
Number of HSP's that attempted gapping in prelim test: 1371
Number of HSP's gapped (non-prelim): 648
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
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)