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= psy14540
(291 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 = 132 bits (333), Expect = 2e-31, Method: Compositional matrix adjust.
Identities = 97/293 (33%), Positives = 141/293 (48%), Gaps = 60/293 (20%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAG-DRFVMGQYMSLHGDVI 61
P + F ++T++PGP V LKC+A GNPTP ISW+LDG +A DR+ +GQY++++GDV+
Sbjct: 430 PVIRQAFQEETMEPGPSVFLKCVAGGNPTPEISWELDGKKIANNDRYQVGQYVTVNGDVV 489
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSG 121
S++NI+SV D G+Y+C A ++VG HSA + VY P Q K + +G
Sbjct: 490 SYLNITSVHANDGGLYKCIAKSKVGVAEHSAKLNVYGLPYIRQMEKKA--------IVAG 541
Query: 122 DRAGVQCLVTKGDPPLTISWLKN--GLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNY 179
+ V C V G P +I W ++ LPI ++ N
Sbjct: 542 ETLIVTCPVA-GYPIDSIVWERDNRALPINRKQKVF---------------------PNG 579
Query: 180 TCVASNTVASDNHSSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTVA-SDNHSSNLRVN 238
T + N + + ++ YTCVA N S S ++V
Sbjct: 580 TLIIENVERNSDQAT-----------------------YTCVAKNQEGYSARGSLEVQVM 616
Query: 239 VPPHIGPFTF--GELMEGVRTQVACVVQSGDLPLSLQWYKNGLAISQPDISIT 289
V P I PF F G G + C V GDLPL++ W +G AIS+ D+ IT
Sbjct: 617 VLPRIIPFAFEEGPAQVGQYLTLHCSVPGGDLPLNIDWTLDGQAISE-DLGIT 668
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 52/194 (26%), Positives = 79/194 (40%), Gaps = 13/194 (6%)
Query: 6 IYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVN 65
I + ++ + G + + C G P I W+ D L +R Q + +G +I N
Sbjct: 530 IRQMEKKAIVAGETLIVTCPVAGYPIDSIVWERDNRALPINR---KQKVFPNGTLIIE-N 585
Query: 66 ISSVRVEDSGIYQCTATNRVG-SQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRA 124
+ R D Y C A N+ G S S +++V P +++ G
Sbjct: 586 VE--RNSDQATYTCVAKNQEGYSARGSLEVQVMVLP------RIIPFAFEEGPAQVGQYL 637
Query: 125 GVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVAS 184
+ C V GD PL I W +G I D IT G S L+I + H+GN+TC A
Sbjct: 638 TLHCSVPGGDLPLNIDWTLDGQAISEDLGITTSRVGRRGSVLTIEAVEASHAGNFTCHAR 697
Query: 185 NTVASDNHSSNLRV 198
N ++ L V
Sbjct: 698 NLAGHQQFTTPLNV 711
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 57/228 (25%), Positives = 85/228 (37%), Gaps = 41/228 (17%)
Query: 8 KFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMG---QYMSLHGDVISHV 64
KF +T ++L C A G P P W +F+ G + + D + V
Sbjct: 254 KFDMKTYSGSSTMALLCPAQGYPVPVFRWY---------KFIEGTTRKQAVVLNDRVKQV 304
Query: 65 N----ISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS 120
+ I VEDSG Y C N VG ++ + V P K+ + + V
Sbjct: 305 SGTLIIKDAVVEDSGKYLCVVNNSVGGESVETVLTV----TAPLSAKI---DPPTQTVDF 357
Query: 121 GDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYT 180
G A C T G+P T+SW+K+G ++ G S L I ++ G Y
Sbjct: 358 GRPAVFTCQYT-GNPIKTVSWMKDG-----------KAIGHSESVLRIESVKKEDKGMYQ 405
Query: 181 CVASNTVASDNHSSNLRVNE------YTSSLSIATLSTGHSGNYTCVA 222
C N S S+ L++ + T+ G S CVA
Sbjct: 406 CFVRNDRESAEASAELKLGGRFDPPVIRQAFQEETMEPGPSVFLKCVA 453
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 49/204 (24%), Positives = 78/204 (38%), Gaps = 41/204 (20%)
Query: 3 PQLI-YKFIQQTLQPGPPVSLKCIATGNPTP-HISWKLDGYPLAGDRFVMGQYMSLHGDV 60
P++I + F + Q G ++L C G P +I W LDG ++ D + + G V
Sbjct: 619 PRIIPFAFEEGPAQVGQYLTLHCSVPGGDLPLNIDWTLDGQAISEDLGITTSRVGRRGSV 678
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPG---QPQDVKLVTSNSRSIK 117
++ I +V +G + C A N G Q + + VY P +P D
Sbjct: 679 LT---IEAVEASHAGNFTCHARNLAGHQQFTTPLNVYVPPRWILEPTDKAFA-------- 727
Query: 118 VHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTS------------S 165
G A V+C G P ++W K + D + GEY +
Sbjct: 728 --QGSDAKVECK-ADGFPKPQVTWKK----AVGD------TPGEYKDLKKSDNIRVEEGT 774
Query: 166 LSIATLSTGHSGNYTCVASNTVAS 189
L + + + G Y C A N + S
Sbjct: 775 LHVDNIQKTNEGYYLCEAINGIGS 798
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 42/89 (47%), Gaps = 4/89 (4%)
Query: 195 NLRVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVP--PHIGPFTFGELM 252
N RV + + +L I SG Y CV +N+V ++ + L V P I P T + +
Sbjct: 298 NDRVKQVSGTLIIKDAVVEDSGKYLCVVNNSVGGESVETVLTVTAPLSAKIDPPT--QTV 355
Query: 253 EGVRTQVACVVQSGDLPLSLQWYKNGLAI 281
+ R V +G+ ++ W K+G AI
Sbjct: 356 DFGRPAVFTCQYTGNPIKTVSWMKDGKAI 384
Score = 32.0 bits (71), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 40/156 (25%), Positives = 59/156 (37%), Gaps = 22/156 (14%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVE-DSGIYQC 79
++C A+GNP P I W GD + Q S V R E + +Y C
Sbjct: 58 EIECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGKLVFPPFRAEDYRQEVHAQVYAC 117
Query: 80 TATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTK--GDPPL 137
A N+ GS S D+ V Q + + + V G+ A ++CL+ D
Sbjct: 118 LARNQFGS-IISRDVHVRAVVAQYYEADVNKEH-----VIRGNSAVIKCLIPSFVADFVE 171
Query: 138 TISW----LKNGLP---------ILSDAEITIRSSG 160
+SW +N P +L E+ IR G
Sbjct: 172 VVSWHTDEEENYFPGAEYDGKYLVLPSGELHIREVG 207
>pdb|3PXH|A Chain A, Tandem Ig Domains Of Tyrosine Phosphatase Lar
Length = 201
Score = 78.2 bits (191), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 59/193 (30%), Positives = 85/193 (44%), Gaps = 12/193 (6%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDV 60
S P + QT G S C ATG P P I+W G ++ RF + ++ G V
Sbjct: 6 SKPVFVKVPEDQTGLSGGVASFVCQATGEPKPRITWMKKGKKVSSQRFEVIEFDDGAGSV 65
Query: 61 ISHVNISSVRVE-DSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH 119
+ I +RV+ D IY+CTATN +G SA + V + P + + V
Sbjct: 66 L---RIQPLRVQRDEAIYECTATNSLGEINTSAKLSVLEEDQLPSGFPTIDMGPQLKVVE 122
Query: 120 SGDRAGVQCLVTKGDPPLTISWLKNGLPI---LSDAEITIRSSGEYTSSLSIATLSTGHS 176
G A + C G+P ISW K+ LP+ S+ I SG +L I +
Sbjct: 123 KGRTATMLC-AAGGNPDPEISWFKDFLPVDPAASNGRIKQLRSG----ALQIESSEESDQ 177
Query: 177 GNYTCVASNTVAS 189
G Y CVA+N+ +
Sbjct: 178 GKYECVATNSAGT 190
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 31/97 (31%), Positives = 44/97 (45%), Gaps = 15/97 (15%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPL--AGDRFVMGQYMSLHGDV 60
PQL + ++ G ++ C A GNP P ISW D P+ A + Q S
Sbjct: 116 PQL------KVVEKGRTATMLCAAGGNPDPEISWFKDFLPVDPAASNGRIKQLRS----- 164
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY 97
+ I S D G Y+C ATN G++ +SA +Y
Sbjct: 165 -GALQIESSEESDQGKYECVATNSAGTR-YSAPANLY 199
Score = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 34/82 (41%), Gaps = 2/82 (2%)
Query: 120 SGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGH-SGN 178
SG A C T G+P I+W+K G + S I S L I L
Sbjct: 21 SGGVASFVCQAT-GEPKPRITWMKKGKKVSSQRFEVIEFDDGAGSVLRIQPLRVQRDEAI 79
Query: 179 YTCVASNTVASDNHSSNLRVNE 200
Y C A+N++ N S+ L V E
Sbjct: 80 YECTATNSLGEINTSAKLSVLE 101
>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 = 77.4 bits (189), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 59/193 (30%), Positives = 84/193 (43%), Gaps = 12/193 (6%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDV 60
S P I QT G S C ATG P P I+W G ++ RF + ++ G V
Sbjct: 5 SKPVFIKVPEDQTGLSGGVASFVCQATGEPKPRITWMKKGKKVSSQRFEVIEFDDGAGSV 64
Query: 61 ISHVNISSVRVE-DSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH 119
+ I +RV+ D IY+CTATN +G SA + V + P + + +KV
Sbjct: 65 L---RIQPLRVQRDEAIYECTATNSLGEINTSAKLSVLEEEQLPPGFPSIDMGPQ-LKVV 120
Query: 120 SGDRAGVQCLVTKGDPPLTISWLKNGLPI---LSDAEITIRSSGEYTSSLSIATLSTGHS 176
R G+P ISW K+ LP+ S+ I SG +L I +
Sbjct: 121 EKARTATMLCAAGGNPDPEISWFKDFLPVDPATSNGRIKQLRSG----ALQIESSEESDQ 176
Query: 177 GNYTCVASNTVAS 189
G Y CVA+N+ +
Sbjct: 177 GKYECVATNSAGT 189
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 36/78 (46%), Gaps = 5/78 (6%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQC 79
++ C A GNP P ISW D P+ G+ L + I S D G Y+C
Sbjct: 126 ATMLCAAGGNPDPEISWFKDFLPV-DPATSNGRIKQLRSGAL---QIESSEESDQGKYEC 181
Query: 80 TATNRVGSQTHSADMRVY 97
ATN G++ +SA +Y
Sbjct: 182 VATNSAGTR-YSAPANLY 198
Score = 32.3 bits (72), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 26/82 (31%), Positives = 34/82 (41%), Gaps = 2/82 (2%)
Query: 120 SGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGH-SGN 178
SG A C T G+P I+W+K G + S I S L I L
Sbjct: 20 SGGVASFVCQAT-GEPKPRITWMKKGKKVSSQRFEVIEFDDGAGSVLRIQPLRVQRDEAI 78
Query: 179 YTCVASNTVASDNHSSNLRVNE 200
Y C A+N++ N S+ L V E
Sbjct: 79 YECTATNSLGEINTSAKLSVLE 100
>pdb|3B43|A Chain A, I-band Fragment I65-i70 From Titin
Length = 570
Score = 77.4 bits (189), Expect = 9e-15, Method: Compositional matrix adjust.
Identities = 85/334 (25%), Positives = 126/334 (37%), Gaps = 86/334 (25%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGI 76
G P++L+C G P I+W + L R M +V S V I+ V D G
Sbjct: 20 GEPITLQCKVDGTPEIRIAWYKEHTKL---RSAPAYKMQFKNNVASLV-INKVDHSDVGE 75
Query: 77 YQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIK-VHS--GDRAGVQCLVTKG 133
Y C A N VG+ SA + + ++ KL S +R +K VH G +C + G
Sbjct: 76 YTCKAENSVGAVASSAVLVI-------KERKLPPSFARKLKDVHETLGFPVAFECRIN-G 127
Query: 134 DPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASN-------- 185
PL +SW K+G + DA + S ++L I H G Y C ASN
Sbjct: 128 SEPLQVSWYKDGELLKDDANLQT-SFIHNVATLQILQTDQSHVGQYNCSASNPLGTASSS 186
Query: 186 -------------------------------------------TVASDNHS------SNL 196
T A DN +
Sbjct: 187 AKLTLSEHEVPPFFDLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREIRPGGNYKM 246
Query: 197 RVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVPPHIGPFTFGELMEGVR 256
+ E T++L++ ++ G +G YTC ASN D+ S+ L V PP F + +E R
Sbjct: 247 TLVENTATLTVLKVTKGDAGQYTCYASNVAGKDSCSAQLGVQEPPR-----FIKKLEPSR 301
Query: 257 -------TQVACVVQSGDLPLSLQWYKNGLAISQ 283
T+ C + G + + WYK+ I +
Sbjct: 302 IVKQDEHTRYECKI-GGSPEIKVLWYKDETEIQE 334
Score = 71.2 bits (173), Expect = 7e-13, Method: Compositional matrix adjust.
Identities = 81/335 (24%), Positives = 135/335 (40%), Gaps = 87/335 (25%)
Query: 8 KFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNIS 67
K + +TL G PV+ +C G+ +SW DG L D + + +H ++ + I
Sbjct: 109 KDVHETL--GFPVAFECRINGSEPLQVSWYKDGELLKDDANLQTSF--IHN--VATLQIL 162
Query: 68 SVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQ-DVKLVTSNSRSIKVHSGDRAGV 126
G Y C+A+N +G+ + SA + + + P D+K V S+ + G+
Sbjct: 163 QTDQSHVGQYNCSASNPLGTASSSAKLTLSEHEVPPFFDLKPV-----SVDLALGESGTF 217
Query: 127 QCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEY-------TSSLSIATLSTGHSGNY 179
+C VT G P+ I+W K+ IR G Y T++L++ ++ G +G Y
Sbjct: 218 KCHVT-GTAPIKITWAKDNR--------EIRPGGNYKMTLVENTATLTVLKVTKGDAGQY 268
Query: 180 TCVASNTVASDNHSSNLRVNE--------------------------------------- 200
TC ASN D+ S+ L V E
Sbjct: 269 TCYASNVAGKDSCSAQLGVQEPPRFIKKLEPSRIVKQDEHTRYECKIGGSPEIKVLWYKD 328
Query: 201 -------------YTSSLSIATL---STGHSGNYTCVASNTVASDNHSSNLRVNVPP--H 242
+ S+++ + S SG+YTC A N S + S++L+V PP
Sbjct: 329 ETEIQESSKFRMSFVESVAVLEMYNLSVEDSGDYTCEAHNAAGSASSSTSLKVKEPPVFR 388
Query: 243 IGPFTFGELMEGVRTQVACVVQSGDLPLSLQWYKN 277
P E ++G + C +Q G P + W+K+
Sbjct: 389 KKPHPV-ETLKGADVHLECELQ-GTPPFQVSWHKD 421
Score = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 50/189 (26%), Positives = 90/189 (47%), Gaps = 13/189 (6%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRV 71
+TL+ G V L+C G P +SW D L + +Y + + ++ ++I +V
Sbjct: 395 ETLK-GADVHLECELQGTPPFQVSWHKDKRELRSGK----KYKIMSENFLTSIHILNVDS 449
Query: 72 EDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVT 131
D G YQC A+N VGS T + + AP P+ VK ++ S + G+ +Q +
Sbjct: 450 ADIGEYQCKASNDVGSDTCVGSITL-KAP--PRFVKKLSDISTVV----GEEVQLQATI- 501
Query: 132 KGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDN 191
+G P++++W K+ I+ +++ S E ++L + ++G YTC N +
Sbjct: 502 EGAEPISVAWFKDKGEIVRESDNIWISYSENIATLQFSRAEPANAGKYTCQIKNEAGTQE 561
Query: 192 HSSNLRVNE 200
+ L V E
Sbjct: 562 CFATLSVLE 570
Score = 55.1 bits (131), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 47/169 (27%), Positives = 75/169 (44%), Gaps = 15/169 (8%)
Query: 23 KCIATGNPTPHISWKLDGYPL-AGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTA 81
+C G+P + W D + +F M S+ V+ N+S VEDSG Y C A
Sbjct: 312 ECKIGGSPEIKVLWYKDETEIQESSKFRMSFVESVA--VLEMYNLS---VEDSGDYTCEA 366
Query: 82 TNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLTISW 141
N GS + S ++V + P + ++ G ++C + +G PP +SW
Sbjct: 367 HNAAGSASSSTSLKVKEPP-------VFRKKPHPVETLKGADVHLECEL-QGTPPFQVSW 418
Query: 142 LKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASD 190
K+ + S + I S + +S+ I + + G Y C ASN V SD
Sbjct: 419 HKDKRELRSGKKYKIMSEN-FLTSIHILNVDSADIGEYQCKASNDVGSD 466
>pdb|2YD9|A Chain A, Crystal Structure Of The N-Terminal Ig1-3 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 304
Score = 72.4 bits (176), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 65/230 (28%), Positives = 94/230 (40%), Gaps = 17/230 (7%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
P+ I + Q G S C ATG+P P ++W G + RF ++ G V+
Sbjct: 7 PRFIKEPKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAVLR 66
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGD 122
+ + R D +Y+C A N VG T A + V P + + +KV
Sbjct: 67 IQPLRTPR--DENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDMGPQ-LKVVERT 123
Query: 123 RAGVQCLVTKGDPPLTISWLKNGLPI---LSDAEITIRSSGEYTSSLSIATLSTGHSGNY 179
R G+P I+W K+ LP+ S+ I SG +L I + G Y
Sbjct: 124 RTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSG----ALQIESSEETDQGKY 179
Query: 180 TCVASNTVASDNHS-SNL--RVNEYTSSLSIATLS----TGHSGNYTCVA 222
CVA+N+ S +NL RV SI +S G + N TCVA
Sbjct: 180 ECVATNSAGVRYSSPANLYVRVQNVAPRFSILPMSHEIMPGGNVNITCVA 229
Score = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 38/87 (43%), Gaps = 10/87 (11%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVED 73
+ PG V++ C+A G+P P++ W L + M + +V+ + V+D
Sbjct: 217 IMPGGNVNITCVAVGSPMPYVKWMQGAEDLTPE-----DDMPVGRNVLELTD-----VKD 266
Query: 74 SGIYQCTATNRVGSQTHSADMRVYDAP 100
S Y C A + +G A + V P
Sbjct: 267 SANYTCVAMSSLGVIEAVAQITVKSLP 293
>pdb|2OM5|A Chain A, N-Terminal Fragment Of Human Tax1
Length = 381
Score = 72.4 bits (176), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 57/184 (30%), Positives = 79/184 (42%), Gaps = 25/184 (13%)
Query: 17 GPPVSLKCIATGNPTPHISW-KLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSG 75
G V+L+C A GNP P I W K+DG + Q+ + + I SV ED G
Sbjct: 221 GQQVTLECFAFGNPVPRIKWRKVDGS-------LSPQWTTAE----PTLQIPSVSFEDEG 269
Query: 76 IYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDP 135
Y+C A N G T + V QP+ +K+++ I S R G G P
Sbjct: 270 TYECEAENSKGRDTVQGRIIVQ---AQPEWLKVISDTEADIG--SNLRWGC---AAAGKP 321
Query: 136 PLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSN 195
T+ WL+NG P+ S + + L + LS SG Y CVA N + S+
Sbjct: 322 RPTVRWLRNGEPLASQNRVEV-----LAGDLRFSKLSLEDSGMYQCVAENKHGTIYASAE 376
Query: 196 LRVN 199
L V
Sbjct: 377 LAVQ 380
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 46/169 (27%), Positives = 75/169 (44%), Gaps = 17/169 (10%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQC 79
V L C A +P WK++G + + G L G + V ++ + +D+G+YQC
Sbjct: 24 VLLACRARASPPATYRWKMNGTEM---KLEPGSRHQLVGGNL--VIMNPTKAQDAGVYQC 78
Query: 80 TATNRVGS-QTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT 138
A+N VG+ + A +R G Q+ +K H G + C P L+
Sbjct: 79 LASNPVGTVVSREAILRF----GFLQE--FSKEERDPVKAHEGWGVMLPCNPPAHYPGLS 132
Query: 139 ISWLKNGLP--ILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASN 185
WL N P I +D + + T +L IA + GNY+C+A++
Sbjct: 133 YRWLLNEFPNFIPTDGRHFVSQT---TGNLYIARTNASDLGNYSCLATS 178
Score = 32.0 bits (71), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 50/223 (22%), Positives = 76/223 (34%), Gaps = 41/223 (18%)
Query: 20 VSLKCIATGNPTPHI-----SWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDS 74
V L C NP H W L+ +P F+ ++ I+ D
Sbjct: 118 VMLPC----NPPAHYPGLSYRWLLNEFP----NFIPTDGRHFVSQTTGNLYIARTNASDL 169
Query: 75 GIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS--------GDRAGV 126
G Y C AT+ + T S + +D +L SIK G + +
Sbjct: 170 GNYSCLATSHMDFSTKSVFSKFAQLNLAAEDTRLFAP---SIKARFPAETYALVGQQVTL 226
Query: 127 QCLVTKGDPPLTISWLK---NGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVA 183
+C G+P I W K + P + AE T L I ++S G Y C A
Sbjct: 227 ECFAF-GNPVPRIKWRKVDGSLSPQWTTAEPT----------LQIPSVSFEDEGTYECEA 275
Query: 184 SNTVASDNHSSNLRVN---EYTSSLSIATLSTGHSGNYTCVAS 223
N+ D + V E+ +S G + + C A+
Sbjct: 276 ENSKGRDTVQGRIIVQAQPEWLKVISDTEADIGSNLRWGCAAA 318
>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 = 72.0 bits (175), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 52/205 (25%), Positives = 87/205 (42%), Gaps = 29/205 (14%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
P++I ++ P +L C G P P I W DG P++ + + G +
Sbjct: 10 PRIIEHPTDLVVKKNEPATLNCKVEGKPEPTIEWFKDGEPVSTNEKKSHRVQFKDGALFF 69
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQT--HSA--------DMRVYDAPGQPQDVKLVTSN 112
+ + + +D G Y C A NRVG H++ D RV +P+D
Sbjct: 70 YRTMQGKKEQDGGEYWCVAKNRVGQAVSRHASLQIAVLRDDFRV-----EPKDT------ 118
Query: 113 SRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYT----SSLSI 168
+V G+ A ++C KG P T+ W+K+G+P+ ++ +S +L I
Sbjct: 119 ----RVAKGETALLECGPPKGIPEPTLIWIKDGVPLDDLKAMSFGASSRVRIVDGGNLLI 174
Query: 169 ATLSTGHSGNYTCVASNTVASDNHS 193
+ + GNY C+A N V + S
Sbjct: 175 SNVEPIDEGNYKCIAQNLVGTRESS 199
>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 = 72.0 bits (175), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 52/205 (25%), Positives = 87/205 (42%), Gaps = 29/205 (14%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
P++I ++ P +L C G P P I W DG P++ + + G +
Sbjct: 10 PRIIEHPTDLVVKKNEPATLNCKVEGKPEPTIEWFKDGEPVSTNEKKSHRVQFKDGALFF 69
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQT--HSA--------DMRVYDAPGQPQDVKLVTSN 112
+ + + +D G Y C A NRVG H++ D RV +P+D
Sbjct: 70 YRTMQGKKEQDGGEYWCVAKNRVGQAVSRHASLQIAVLRDDFRV-----EPKDT------ 118
Query: 113 SRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYT----SSLSI 168
+V G+ A ++C KG P T+ W+K+G+P+ ++ +S +L I
Sbjct: 119 ----RVAKGETALLECGPPKGIPEPTLIWIKDGVPLDDLKAMSFGASSRVRIVDGGNLLI 174
Query: 169 ATLSTGHSGNYTCVASNTVASDNHS 193
+ + GNY C+A N V + S
Sbjct: 175 SNVEPIDEGNYKCIAQNLVGTRESS 199
>pdb|1CS6|A Chain A, N-terminal Fragment Of Axonin-1 From Chicken
Length = 382
Score = 71.2 bits (173), Expect = 6e-13, Method: Compositional matrix adjust.
Identities = 62/199 (31%), Positives = 85/199 (42%), Gaps = 26/199 (13%)
Query: 3 PQLIYKFIQQTLQ-PGPPVSLKCIATGNPTPHISW-KLDGYPLAGDRFVMGQYMSLHGDV 60
P + KF T G V+L+C A GNP P I W KLDG + L +
Sbjct: 207 PSIKAKFPADTYALTGQMVTLECFAFGNPVPQIKWRKLDGSQTS---------KWLSSEP 257
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS 120
+ H I +V ED G Y+C A N G T+ + ++ QP + ++T I
Sbjct: 258 LLH--IQNVDFEDEGTYECEAENIKGRDTYQGRIIIH---AQPDWLDVITDTEADI---- 308
Query: 121 GDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYT 180
G C V G P + WL++G P+ S I + S GE L + L SG Y
Sbjct: 309 GSDLRWSC-VASGKPRPAVRWLRDGQPLASQNRIEV-SGGE----LRFSKLVLEDSGMYQ 362
Query: 181 CVASNTVASDNHSSNLRVN 199
CVA N + S+ L V
Sbjct: 363 CVAENKHGTVYASAELTVQ 381
Score = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 51/173 (29%), Positives = 76/173 (43%), Gaps = 21/173 (12%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG---QYMSLHGDVISHVNISS-VRVEDSG 75
V+L C A NP WK++G L MG +Y + GD++ IS+ V+ +D+G
Sbjct: 25 VTLTCRARANPPATYRWKMNGTELK-----MGPDSRYRLVAGDLV----ISNPVKAKDAG 75
Query: 76 IYQCTATNRVGS-QTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGD 134
YQC ATN G+ + A +R G Q+ +K+ G C
Sbjct: 76 SYQCVATNARGTVVSREASLRF----GFLQE--FSAEERDPVKITEGWGVMFTCSPPPHY 129
Query: 135 PPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTV 187
P L+ WL N P A+ R + T +L IA GNY+C A++ +
Sbjct: 130 PALSYRWLLNEFPNFIPAD-GRRFVSQTTGNLYIAKTEASDLGNYSCFATSHI 181
Score = 34.3 bits (77), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 57/248 (22%), Positives = 92/248 (37%), Gaps = 52/248 (20%)
Query: 5 LIYKFIQQ-TLQPGPPVSLK----CIATGNPTPHI-----SWKLDGYP----LAGDRFVM 50
L + F+Q+ + + PV + + T +P PH W L+ +P G RFV
Sbjct: 95 LRFGFLQEFSAEERDPVKITEGWGVMFTCSPPPHYPALSYRWLLNEFPNFIPADGRRFV- 153
Query: 51 GQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVT 110
++ I+ D G Y C AT+ + T S V+ Q + L
Sbjct: 154 -------SQTTGNLYIAKTEASDLGNYSCFATSHIDFITKS----VFSKFSQ---LSLAA 199
Query: 111 SNSR----SIKVH--------SGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRS 158
++R SIK +G ++C G+P I W K L ++ +
Sbjct: 200 EDARQYAPSIKAKFPADTYALTGQMVTLECFAF-GNPVPQIKWRK-----LDGSQTSKWL 253
Query: 159 SGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNEYTSSLSIATLSTGHSG-- 216
S E L I + G Y C A N D + + ++ L + T + G
Sbjct: 254 SSE--PLLHIQNVDFEDEGTYECEAENIKGRDTYQGRIIIHAQPDWLDVITDTEADIGSD 311
Query: 217 -NYTCVAS 223
++CVAS
Sbjct: 312 LRWSCVAS 319
>pdb|2JLL|A Chain A, Crystal Structure Of Ncam2 Igiv-Fn3ii
Length = 389
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 59/194 (30%), Positives = 89/194 (45%), Gaps = 25/194 (12%)
Query: 20 VSLKCIATGNPTPHISWK--LDGYPL-AGDRFVMG--QYMSLHGDVISHVNISSVRVEDS 74
V+L C A G P P I+WK +DG+ GD+ + G + HG S ++I V++ DS
Sbjct: 18 VTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHGS--SSLHIKDVKLSDS 75
Query: 75 GIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGD 134
G Y C A +R+G S + + AP K + SN G+ + C V K +
Sbjct: 76 GRYDCEAASRIGGHQKSMYLDIEYAP------KFI-SNQTIYYSWEGNPINISCDV-KSN 127
Query: 135 PPLTISWLKNG--LPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
PP +I W ++ LP + + S+G L IA S G Y C A+N + +
Sbjct: 128 PPASIHWRRDKLVLPAKNTTNLKTYSTGR-KMILEIAPTSDNDFGRYNCTATNHIGT--- 183
Query: 193 SSNLRVNEYTSSLS 206
R EY +L+
Sbjct: 184 ----RFQEYILALA 193
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 45/102 (44%), Gaps = 2/102 (1%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGI 76
G P+++ C NP I W+ D L + S +I + I+ D G
Sbjct: 115 GNPINISCDVKSNPPASIHWRRDKLVLPAKNTTNLKTYSTGRKMI--LEIAPTSDNDFGR 172
Query: 77 YQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKV 118
Y CTATN +G++ + + D P P VK++ + + KV
Sbjct: 173 YNCTATNHIGTRFQEYILALADVPSSPYGVKIIELSQTTAKV 214
Score = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 2/81 (2%)
Query: 202 TSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVN-VPPHIGPFTFGELMEGVRTQVA 260
+SSL I + SG Y C A++ + S L + P I T EG ++
Sbjct: 62 SSSLHIKDVKLSDSGRYDCEAASRIGGHQKSMYLDIEYAPKFISNQTIYYSWEGNPINIS 121
Query: 261 CVVQSGDLPLSLQWYKNGLAI 281
C V+S + P S+ W ++ L +
Sbjct: 122 CDVKS-NPPASIHWRRDKLVL 141
>pdb|2XYC|A Chain A, Crystal Structure Of Ncam2 Igiv-Fn3i
Length = 291
Score = 70.1 bits (170), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 61/208 (29%), Positives = 93/208 (44%), Gaps = 25/208 (12%)
Query: 6 IYKFIQQTLQPGPPVSLKCIATGNPTPHISWK--LDGYPL-AGDRFVMG--QYMSLHGDV 60
I + +T V+L C A G P P I+WK +DG+ GD+ + G + HG
Sbjct: 4 IIQLKNETTYENGQVTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHGS- 62
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS 120
S ++I V++ DSG Y C A +R+G S + + AP K + SN
Sbjct: 63 -SSLHIKDVKLSDSGRYDCEAASRIGGHQKSMYLDIEYAP------KFI-SNQTIYYSWE 114
Query: 121 GDRAGVQCLVTKGDPPLTISWLKNG--LPILSDAEITIRSSGEYTSSLSIATLSTGHSGN 178
G+ + C V K +PP +I W ++ LP + + S+G L IA S G
Sbjct: 115 GNPINISCDV-KSNPPASIHWRRDKLVLPAKNTTNLKTYSTGR-KMILEIAPTSDNDFGR 172
Query: 179 YTCVASNTVASDNHSSNLRVNEYTSSLS 206
Y C A+N + + R EY +L+
Sbjct: 173 YNCTATNHIGT-------RFQEYILALA 193
Score = 45.4 bits (106), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 33/115 (28%), Positives = 51/115 (44%), Gaps = 6/115 (5%)
Query: 8 KFI-QQTLQ---PGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISH 63
KFI QT+ G P+++ C NP I W+ D L + S +I
Sbjct: 102 KFISNQTIYYSWEGNPINISCDVKSNPPASIHWRRDKLVLPAKNTTNLKTYSTGRKMI-- 159
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKV 118
+ I+ D G Y CTATN +G++ + + D P P VK++ + + KV
Sbjct: 160 LEIAPTSDNDFGRYNCTATNHIGTRFQEYILALADVPSSPYGVKIIELSQTTAKV 214
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 2/81 (2%)
Query: 202 TSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVN-VPPHIGPFTFGELMEGVRTQVA 260
+SSL I + SG Y C A++ + S L + P I T EG ++
Sbjct: 62 SSSLHIKDVKLSDSGRYDCEAASRIGGHQKSMYLDIEYAPKFISNQTIYYSWEGNPINIS 121
Query: 261 CVVQSGDLPLSLQWYKNGLAI 281
C V+S + P S+ W ++ L +
Sbjct: 122 CDVKS-NPPASIHWRRDKLVL 141
>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 = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 51/172 (29%), Positives = 74/172 (43%), Gaps = 22/172 (12%)
Query: 15 QPGPPVSLKCIATGNPTPHISW-KLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVED 73
+ G V L+C A GNP P I W + DG P+A + + I + + ED
Sbjct: 217 EKGTTVKLECFALGNPVPTILWRRADGKPIA--------RKARRHKSNGILEIPNFQQED 268
Query: 74 SGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKG 133
+G Y+C A N G + Y QP V+++ I V + +C G
Sbjct: 269 AGSYECVAENSRGKNVAKGQLTFY---AQPNWVQIIN----DIHVAMEESVFWECKAN-G 320
Query: 134 DPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASN 185
P T WLKNG P+L+ I I +L+I ++ +G Y CVA N
Sbjct: 321 RPKPTYRWLKNGDPLLTRDRIQIEQ-----GTLNITIVNLSDAGMYQCVAEN 367
Score = 68.6 bits (166), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 55/179 (30%), Positives = 85/179 (47%), Gaps = 25/179 (13%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQC 79
V L C GNP PHI WKL+G + D + +Y + G ++ + + + +D+G YQC
Sbjct: 25 VKLSCEVKGNPKPHIRWKLNGTDV--DIGMDFRYSVVDGSLLIN---NPNKTQDAGTYQC 79
Query: 80 TATNRVGS-QTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPP-- 136
ATN G+ + A ++ ++ K T ++ S+ R G ++ G PP
Sbjct: 80 IATNSFGTIVSREAKLQF----AYLENFKTRTRSTVSV------RRGQGMVLLCGPPPHS 129
Query: 137 --LTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHS 193
L+ +W+ N P D R + T +L IA + GNYTCV +NTV NH
Sbjct: 130 GELSYAWIFNEYPSYQDNR---RFVSQETGNLYIAKVEKSDVGNYTCVVTNTVT--NHK 183
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 38/78 (48%), Gaps = 10/78 (12%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPL-AGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A G P P W +G PL DR + Q +NI+ V + D+G+YQ
Sbjct: 312 VFWECKANGRPKPTYRWLKNGDPLLTRDRIQIEQ---------GTLNITIVNLSDAGMYQ 362
Query: 79 CTATNRVGSQTHSADMRV 96
C A N+ G SA++ V
Sbjct: 363 CVAENKHGVIFSSAELSV 380
>pdb|3KLD|A Chain A, Ptprg Cntn4 Complex
Length = 384
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 51/172 (29%), Positives = 74/172 (43%), Gaps = 22/172 (12%)
Query: 15 QPGPPVSLKCIATGNPTPHISW-KLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVED 73
+ G V L+C A GNP P I W + DG P+A + + I + + ED
Sbjct: 218 EKGTTVKLECFALGNPVPTILWRRADGKPIA--------RKARRHKSNGILEIPNFQQED 269
Query: 74 SGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKG 133
+G Y+C A N G + Y QP V+++ I V + +C G
Sbjct: 270 AGSYECVAENSRGKNVAKGQLTFY---AQPNWVQIIN----DIHVAMEESVFWECKAN-G 321
Query: 134 DPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASN 185
P T WLKNG P+L+ I I +L+I ++ +G Y CVA N
Sbjct: 322 RPKPTYRWLKNGDPLLTRDRIQIEQ-----GTLNITIVNLSDAGMYQCVAEN 368
Score = 68.2 bits (165), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 55/179 (30%), Positives = 85/179 (47%), Gaps = 25/179 (13%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQC 79
V L C GNP PHI WKL+G + D + +Y + G ++ + + + +D+G YQC
Sbjct: 26 VKLSCEVKGNPKPHIRWKLNGTDV--DIGMDFRYSVVDGSLLIN---NPNKTQDAGTYQC 80
Query: 80 TATNRVGS-QTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPP-- 136
ATN G+ + A ++ ++ K T ++ S+ R G ++ G PP
Sbjct: 81 IATNSFGTIVSREAKLQF----AYLENFKTRTRSTVSV------RRGQGMVLLCGPPPHS 130
Query: 137 --LTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHS 193
L+ +W+ N P D R + T +L IA + GNYTCV +NTV NH
Sbjct: 131 GELSYAWIFNEYPSYQDNR---RFVSQETGNLYIAKVEKSDVGNYTCVVTNTVT--NHK 184
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 38/78 (48%), Gaps = 10/78 (12%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPL-AGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A G P P W +G PL DR + Q +NI+ V + D+G+YQ
Sbjct: 313 VFWECKANGRPKPTYRWLKNGDPLLTRDRIQIEQ---------GTLNITIVNLSDAGMYQ 363
Query: 79 CTATNRVGSQTHSADMRV 96
C A N+ G SA++ V
Sbjct: 364 CVAENKHGVIFSSAELSV 381
>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 = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 51/189 (26%), Positives = 80/189 (42%), Gaps = 5/189 (2%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
P+ + QT G S C ATG+P P I W G ++ RF + ++ G V+
Sbjct: 7 PRFTRTPVDQTGVSGGVASFICQATGDPRPKIVWNKKGKKVSNQRFEVIEFDDGSGSVLR 66
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGD 122
+ + R D IY+C A+N VG + S + V P+ + + +KV
Sbjct: 67 IQPLRTPR--DEAIYECVASNNVGEISVSTRLTVLREDQIPRGFPTIDMGPQ-LKVVERT 123
Query: 123 RAGVQCLVTKGDPPLTISWLKNGLPI-LSDAEITIRS-SGEYTSSLSIATLSTGHSGNYT 180
R G+P I+W K+ LP+ S+ I+ E +L I G Y
Sbjct: 124 RTATMLCAASGNPDPEITWFKDFLPVDTSNNNGRIKQLRSESIGALQIEQSEESDQGKYE 183
Query: 181 CVASNTVAS 189
CVA+N+ +
Sbjct: 184 CVATNSAGT 192
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 46/95 (48%), Gaps = 8/95 (8%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
PQL K +++T ++ C A+GNP P I+W D P+ G+ L + I
Sbjct: 115 PQL--KVVERTRT----ATMLCAASGNPDPEITWFKDFLPVDTSNN-NGRIKQLRSESIG 167
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY 97
+ I D G Y+C ATN G++ +SA +Y
Sbjct: 168 ALQIEQSEESDQGKYECVATNSAGTR-YSAPANLY 201
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 32/80 (40%), Gaps = 2/80 (2%)
Query: 120 SGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGH-SGN 178
SG A C T GDP I W K G + + I S L I L T
Sbjct: 20 SGGVASFICQAT-GDPRPKIVWNKKGKKVSNQRFEVIEFDDGSGSVLRIQPLRTPRDEAI 78
Query: 179 YTCVASNTVASDNHSSNLRV 198
Y CVASN V + S+ L V
Sbjct: 79 YECVASNNVGEISVSTRLTV 98
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 7/71 (9%)
Query: 218 YTCVASNTVASDNHSSNLRV----NVPPHIGPFTFG---ELMEGVRTQVACVVQSGDLPL 270
Y CVASN V + S+ L V +P G +++E RT SG+
Sbjct: 79 YECVASNNVGEISVSTRLTVLREDQIPRGFPTIDMGPQLKVVERTRTATMLCAASGNPDP 138
Query: 271 SLQWYKNGLAI 281
+ W+K+ L +
Sbjct: 139 EITWFKDFLPV 149
>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 = 67.4 bits (163), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 61/203 (30%), Positives = 83/203 (40%), Gaps = 25/203 (12%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRF-VMGQYMSLHGDVISHVNISSVRVE--D 73
G P +L C A G PTP I W G + D+ M L + + I R D
Sbjct: 24 GEPATLNCKAEGRPTPTIEWYKGGERVETDKDDPRSHRMLLPSGSLFFLRIVHGRKSRPD 83
Query: 74 SGIYQCTATNRVGSQ-THSADMRVY----DAPGQPQDVKLVTSNSRSIKVHSGDRAGVQC 128
G+Y C A N +G +H A + V D P DV + G+ A ++C
Sbjct: 84 EGVYVCVARNYLGEAVSHDASLEVAILRDDFRQNPSDVMVAV----------GEPAVMEC 133
Query: 129 LVTKGDPPLTISWLKNGLPI-LSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTV 187
+G P TISW K+G P+ D ITIR L I +G Y CV +N V
Sbjct: 134 QPPRGHPEPTISWKKDGSPLDDKDERITIRG-----GKLMITYTRKSDAGKYVCVGTNMV 188
Query: 188 AS-DNHSSNLRVNEYTSSLSIAT 209
++ + L V E S + A
Sbjct: 189 GERESEVAELTVLERPSFVKAAA 211
>pdb|2YD4|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Chicken Receptor Protein Tyrosine Phosphatase Sigma
Length = 210
Score = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 55/192 (28%), Positives = 78/192 (40%), Gaps = 12/192 (6%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDV 60
S P I K + Q G S C ATG+P P ++W G + RF ++ G V
Sbjct: 5 SPPVFIKKPVDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAV 64
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS 120
+ + + R D IY+C A N G T A + V P + + +KV
Sbjct: 65 LRIQPLRTPR--DENIYECVAQNPHGEVTVHAKLTVLREDQLPPGFPNIDMGPQ-LKVVE 121
Query: 121 GDRAGVQCLVTKGDPPLTISWLKNGLPI---LSDAEIT-IRSSGEYTSSLSIATLSTGHS 176
R G+P I+W K+ LP+ S+ I +RS G L I +
Sbjct: 122 RTRTATMLCAASGNPDPEITWFKDFLPVDPSTSNGRIKQLRSGG-----LQIESSEETDQ 176
Query: 177 GNYTCVASNTVA 188
G Y CVASN+
Sbjct: 177 GKYECVASNSAG 188
>pdb|2YD3|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 202
Score = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 51/187 (27%), Positives = 77/187 (41%), Gaps = 10/187 (5%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
P+ I + Q G S C ATG+P P ++W G + RF ++ G V+
Sbjct: 7 PRFIKEPKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAVLR 66
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGD 122
+ + R D +Y+C A N VG T A + V P + + +KV
Sbjct: 67 IQPLRTPR--DENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDMGPQ-LKVVERT 123
Query: 123 RAGVQCLVTKGDPPLTISWLKNGLPI---LSDAEITIRSSGEYTSSLSIATLSTGHSGNY 179
R G+P I+W K+ LP+ S+ I SG +L I + G Y
Sbjct: 124 RTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSG----ALQIESSEETDQGKY 179
Query: 180 TCVASNT 186
CVA+N+
Sbjct: 180 ECVATNS 186
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 38/84 (45%), Gaps = 10/84 (11%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
PQL K +++T ++ C A+GNP P I+W D P+ G+ L +
Sbjct: 115 PQL--KVVERTRT----ATMLCAASGNPDPEITWFKDFLPV-DPSASNGRIKQLRSGAL- 166
Query: 63 HVNISSVRVEDSGIYQCTATNRVG 86
I S D G Y+C ATN G
Sbjct: 167 --QIESSEETDQGKYECVATNSAG 188
>pdb|2YD2|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 214
Score = 66.6 bits (161), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 51/187 (27%), Positives = 77/187 (41%), Gaps = 10/187 (5%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
P+ I + Q G S C ATG+P P ++W G + RF ++ G V+
Sbjct: 7 PRFIKEPKDQIGVSGGVASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAVLR 66
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGD 122
+ + R D +Y+C A N VG T A + V P + + +KV
Sbjct: 67 IQPLRTPR--DENVYECVAQNSVGEITVHAKLTVLREDQLPSGFPNIDMGPQ-LKVVERT 123
Query: 123 RAGVQCLVTKGDPPLTISWLKNGLPI---LSDAEITIRSSGEYTSSLSIATLSTGHSGNY 179
R G+P I+W K+ LP+ S+ I SG +L I + G Y
Sbjct: 124 RTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSG----ALQIESSEETDQGKY 179
Query: 180 TCVASNT 186
CVA+N+
Sbjct: 180 ECVATNS 186
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 38/84 (45%), Gaps = 10/84 (11%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
PQL K +++T ++ C A+GNP P I+W D P+ G+ L +
Sbjct: 115 PQL--KVVERTRT----ATMLCAASGNPDPEITWFKDFLPV-DPSASNGRIKQLRSGAL- 166
Query: 63 HVNISSVRVEDSGIYQCTATNRVG 86
I S D G Y+C ATN G
Sbjct: 167 --QIESSEETDQGKYECVATNSAG 188
>pdb|3LAF|A Chain A, Structure Of Dcc, A Netrin-1 Receptor
Length = 403
Score = 65.9 bits (159), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 60/204 (29%), Positives = 99/204 (48%), Gaps = 30/204 (14%)
Query: 8 KFIQQTLQ----PGPPVSLKCIATGNPTPHISWKL---DGYPLAGD-RFVMGQYMSLHGD 59
+F+ QT G V LKC G+P P I W+ D P+ GD R V+ +L
Sbjct: 123 RFLSQTESITAFMGDTVLLKCEVIGDPMPTIHWQKNQQDLNPIPGDSRVVVLPSGALQ-- 180
Query: 60 VISHVNISSVRVEDSGIYQCTATNRVGSQT-HSADMRVYDAPGQPQDVKLVTSNSRSIKV 118
IS ++ DSG+Y+C+A N ++T + A++R+ PG + + + S I +
Sbjct: 181 ------ISRLQPGDSGVYRCSARNPASTRTGNEAEVRILSDPGLHRQLYFLQRPSNVIAI 234
Query: 119 HSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYT----SSLSIATLSTG 174
D A ++C V+ G PP + +WL+ E+ S +Y+ S+L I+ ++
Sbjct: 235 EGKD-AVLECCVS-GYPPPSFTWLRG-------EEVIQLRSKKYSLLGGSNLLISNVTDD 285
Query: 175 HSGNYTCVASNTVASDNHSSNLRV 198
SG YTCV + + + S+ L V
Sbjct: 286 DSGTYTCVVTYKNENISASAELTV 309
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 48/185 (25%), Positives = 79/185 (42%), Gaps = 24/185 (12%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVM---GQYMSLHGDVISHVNISSVRVED 73
G L+C +G P P +W L G+ + +Y L G S++ IS+V +D
Sbjct: 236 GKDAVLECCVSGYPPPSFTW------LRGEEVIQLRSKKYSLLGG---SNLLISNVTDDD 286
Query: 74 SGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKG 133
SG Y C T + + + SA++ V P ++ ++ + +C V+ G
Sbjct: 287 SGTYTCVVTYKNENISASAELTVLVPP-------WFLNHPSNLYAYESMDIEFECAVS-G 338
Query: 134 DPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHS 193
P T++W+KNG ++ I S+L I + G Y CVA N + S
Sbjct: 339 KPVPTVNWMKNGDVVIPSDYFQIVGG----SNLRILGVVKSDEGFYQCVAENEAGNAQSS 394
Query: 194 SNLRV 198
+ L V
Sbjct: 395 AQLIV 399
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 42/96 (43%), Gaps = 13/96 (13%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDV 60
+HP +Y + ++ +C +G P P ++W +G D + Y + G
Sbjct: 317 NHPSNLYAYESMDIE------FECAVSGKPVPTVNWMKNG-----DVVIPSDYFQIVGG- 364
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRV 96
S++ I V D G YQC A N G+ SA + V
Sbjct: 365 -SNLRILGVVKSDEGFYQCVAENEAGNAQSSAQLIV 399
>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 = 63.9 bits (154), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 40/129 (31%), Positives = 63/129 (48%), Gaps = 15/129 (11%)
Query: 22 LKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTA 81
L+CIA+G PTP I+W G L D+ + + I++V EDSG Y C A
Sbjct: 242 LECIASGVPTPDIAWYKKGGDLPSDKAKFENFNKA-------LRITNVSEEDSGEYFCLA 294
Query: 82 TNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLTISW 141
+N++GS H+ +RV AP +++ + G+ + C G+P T+ W
Sbjct: 295 SNKMGSIRHTISVRVKAAP-------YWLDEPKNLILAPGEDGRLVCRAN-GNPKPTVQW 346
Query: 142 LKNGLPILS 150
+ NG P+ S
Sbjct: 347 MVNGEPLQS 355
Score = 50.4 bits (119), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 71/329 (21%), Positives = 111/329 (33%), Gaps = 83/329 (25%)
Query: 20 VSLKCIATGNPTPHISWKLDG--YPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIY 77
+ ++C A GNP P W + + +A D V + S G ++ E G Y
Sbjct: 35 ILIECEAKGNPAPSFHWTRNSRFFNIAKDPRVSMRRRS--GTLVIDFRSGGRPEEYEGEY 92
Query: 78 QCTATNRVGSQ-THSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPP 136
QC A N+ G+ ++ ++V +P P++ N + V G +QC G P
Sbjct: 93 QCFARNKFGTALSNRIRLQVSKSPLWPKE------NLDPVVVQEGAPLTLQCNPPPGLPS 146
Query: 137 LTISWLKNGL-PILSDAEI----------------------------------------- 154
I W+ + + PI D +
Sbjct: 147 PVIFWMSSSMEPITQDKRVSQGHNGDLYFSNVMLQDMQTDYSCNARFHFTHTIQQKNPFT 206
Query: 155 ----TIRSSGEYTSSL-------SIATLSTGHSGNYTCVASNT---------VASDNHSS 194
T R E T S S + G C+AS D S
Sbjct: 207 LKVLTTRGVAERTPSFMYPQGTASSQMVLRGMDLLLECIASGVPTPDIAWYKKGGDLPSD 266
Query: 195 NLRVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVPPHIGPFTFGE---- 250
+ + +L I +S SG Y C+ASN + S H+ ++RV P+ E
Sbjct: 267 KAKFENFNKALRITNVSEEDSGEYFCLASNKMGSIRHTISVRVKA----APYWLDEPKNL 322
Query: 251 -LMEGVRTQVACVVQSGDLPLSLQWYKNG 278
L G ++ C P ++QW NG
Sbjct: 323 ILAPGEDGRLVCRANGNPKP-TVQWMVNG 350
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 56/231 (24%), Positives = 95/231 (41%), Gaps = 42/231 (18%)
Query: 14 LQPGPPVSLKC-IATGNPTPHISWKLDGY-PLAGDRFVMGQYMSLHGDV-ISHVNISSVR 70
+Q G P++L+C G P+P I W P+ D+ V + +GD+ S+V + ++
Sbjct: 128 VQEGAPLTLQCNPPPGLPSPVIFWMSSSMEPITQDKRVSQGH---NGDLYFSNVMLQDMQ 184
Query: 71 VEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN---------------SRS 115
+ Y C A TH+ + P +K++T+ + S
Sbjct: 185 TD----YSCNARFHF---THTIQQK------NPFTLKVLTTRGVAERTPSFMYPQGTASS 231
Query: 116 IKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGH 175
V G ++C+ + G P I+W K G + SD + +L I +S
Sbjct: 232 QMVLRGMDLLLECIAS-GVPTPDIAWYKKGGDLPSDKA----KFENFNKALRITNVSEED 286
Query: 176 SGNYTCVASNTVASDNHSSNLRVNE---YTSSLSIATLSTGHSGNYTCVAS 223
SG Y C+ASN + S H+ ++RV + L+ G G C A+
Sbjct: 287 SGEYFCLASNKMGSIRHTISVRVKAAPYWLDEPKNLILAPGEDGRLVCRAN 337
>pdb|2YD1|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Drosophila Receptor Protein Tyrosine Phosphatase Dlar
Length = 212
Score = 62.4 bits (150), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 53/202 (26%), Positives = 89/202 (44%), Gaps = 14/202 (6%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHG-DVI 61
P++I K Q ++ G S C A G+P P I W+ +G ++G +Y L I
Sbjct: 7 PEIIRKPQNQGVRVGGVASFYCAARGDPPPSIVWRKNGKKVSG---TQSRYTVLEQPGGI 63
Query: 62 SHVNISSVRV-EDSGIYQCTATNRVGSQTHS-ADMRVYDAPGQPQDVKLVTSNSRSIKVH 119
S + I VR D Y+C A N VG + A + +Y+ P ++T + +
Sbjct: 64 SILRIEPVRAGRDDAPYECVAENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRVIE 123
Query: 120 SGDRAGVQCLVTKGDPPLTISWLKNGLPI-LSDAEITIRSSGEYTSSLSIATLSTGHSGN 178
G + C G+P I W+KN + +S+ +++ L I G
Sbjct: 124 VGHTVLMTCKAI-GNPTPNIYWIKNQTKVDMSNPRYSLKD-----GFLQIENSREEDQGK 177
Query: 179 YTCVASNTVASDN-HSSNLRVN 199
Y CVA N++ +++ ++NL V
Sbjct: 178 YECVAENSMGTEHSKATNLYVK 199
>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 = 62.0 bits (149), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 53/202 (26%), Positives = 89/202 (44%), Gaps = 14/202 (6%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHG-DVI 61
P++I K Q ++ G S C A G+P P I W+ +G ++G +Y L I
Sbjct: 9 PEIIRKPQNQGVRVGGVASFYCAARGDPPPSIVWRKNGKKVSG---TQSRYTVLEQPGGI 65
Query: 62 SHVNISSVRV-EDSGIYQCTATNRVGSQTHS-ADMRVYDAPGQPQDVKLVTSNSRSIKVH 119
S + I VR D Y+C A N VG + A + +Y+ P ++T + +
Sbjct: 66 SILRIEPVRAGRDDAPYECVAENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRVIE 125
Query: 120 SGDRAGVQCLVTKGDPPLTISWLKNGLPI-LSDAEITIRSSGEYTSSLSIATLSTGHSGN 178
G + C G+P I W+KN + +S+ +++ L I G
Sbjct: 126 VGHTVLMTCKAI-GNPTPNIYWIKNQTKVDMSNPRYSLKD-----GFLQIENSREEDQGK 179
Query: 179 YTCVASNTVASDN-HSSNLRVN 199
Y CVA N++ +++ ++NL V
Sbjct: 180 YECVAENSMGTEHSKATNLYVK 201
>pdb|1RY7|B Chain B, Crystal Structure Of The 3 Ig Form Of Fgfr3c In Complex
With Fgf1
Length = 334
Score = 60.1 bits (144), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 57/193 (29%), Positives = 89/193 (46%), Gaps = 22/193 (11%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQC 79
V +C A GNPTP ISW +G G+ + G + L S V + SV D G Y C
Sbjct: 141 VRFRCPAAGNPTPSISWLKNGREFRGEHRIGG--IKLRHQQWSLV-MESVVPSDRGNYTC 197
Query: 80 TATNRVGS--QTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPL 137
N+ GS QT++ D+ + +P +P + +N ++ G C V P
Sbjct: 198 VVENKFGSIRQTYTLDV-LERSPHRPILQAGLPANQTAVL---GSDVEFHCKVYSDAQP- 252
Query: 138 TISWLK----NGLPILSDAE---ITIRSSGEYTSS-----LSIATLSTGHSGNYTCVASN 185
I WLK NG + D ++++G T+ LS+ ++ +G YTC+A N
Sbjct: 253 HIQWLKHVEVNGSKVGPDGTPYVTVLKTAGANTTDKELEVLSLHNVTFEDAGEYTCLAGN 312
Query: 186 TVASDNHSSNLRV 198
++ +HS+ L V
Sbjct: 313 SIGFSHHSAWLVV 325
Score = 32.0 bits (71), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 26/97 (26%), Positives = 40/97 (41%), Gaps = 9/97 (9%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISW----KLDGYPLAGDRFVMGQYMSLHG-----DVIS 62
QT G V C + PHI W +++G + D + G +
Sbjct: 232 QTAVLGSDVEFHCKVYSDAQPHIQWLKHVEVNGSKVGPDGTPYVTVLKTAGANTTDKELE 291
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDA 99
+++ +V ED+G Y C A N +G HSA + V A
Sbjct: 292 VLSLHNVTFEDAGEYTCLAGNSIGFSHHSAWLVVLPA 328
>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 = 57.8 bits (138), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 48/172 (27%), Positives = 78/172 (45%), Gaps = 22/172 (12%)
Query: 21 SLKCIATGNPTPHISWKLDGY--PLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQ 78
+ C P P ISW + L R+ + + +G +++ I SV D GIY
Sbjct: 26 TFMCAVESYPQPEISWTRNKILIKLFDTRYSIRE----NGQLLT---ILSVEDSDDGIYC 78
Query: 79 CTATNRVGSQTHSAD-MRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPL 137
CTA N VG S ++V P +T ++K+ G +A + C T G+P
Sbjct: 79 CTANNGVGGAVESCGALQVKMKPK-------ITRPPINVKIIEGLKAVLPC-TTMGNPKP 130
Query: 138 TISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVAS 189
++SW+K + ++ I + SG SL I + +G Y CVA N++ +
Sbjct: 131 SVSWIKGDSALRENSRIAVLESG----SLRIHNVQKEDAGQYRCVAKNSLGT 178
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 38/87 (43%), Gaps = 9/87 (10%)
Query: 2 HPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISW-KLDGYPLAGDRFVMGQYMSLHGDV 60
P++ I + G L C GNP P +SW K D R + + SL
Sbjct: 100 KPKITRPPINVKIIEGLKAVLPCTTMGNPKPSVSWIKGDSALRENSRIAVLESGSLR--- 156
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGS 87
I +V+ ED+G Y+C A N +G+
Sbjct: 157 -----IHNVQKEDAGQYRCVAKNSLGT 178
>pdb|3GRW|A Chain A, Fgfr3 In Complex With A Fab
Length = 241
Score = 56.2 bits (134), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 53/181 (29%), Positives = 78/181 (43%), Gaps = 21/181 (11%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQC 79
V +C A GNPTP ISW +G G+ + G + L S V + SV D G Y C
Sbjct: 33 VRFRCPAAGNPTPSISWLKNGREFRGEHRIGG--IKLRHQQWSLV-MESVVPSDRGNYTC 89
Query: 80 TATNRVGS--QTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPL 137
N+ GS QT++ D+ + +P +P + +N ++ G C V P
Sbjct: 90 VVENKFGSIRQTYTLDV-LERSPHRPILQAGLPANQTAV---LGSDVEFHCKVYSDAQP- 144
Query: 138 TISWLK-----------NGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNT 186
I WLK +G P ++ + I S E L +A +S G Y C A+N
Sbjct: 145 HIQWLKHVEVNGSKVGPDGTPYVTVLKSWISESVEADVRLRLANVSERDGGEYLCRATNF 204
Query: 187 V 187
+
Sbjct: 205 I 205
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 39/94 (41%), Gaps = 2/94 (2%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P +ISWLKNG + I SL + ++ GNYTCV N S
Sbjct: 41 GNPTPSISWLKNGREFRGEHRIGGIKLRHQQWSLVMESVVPSDRGNYTCVVENKFGSIRQ 100
Query: 193 SSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTV 226
+ L V E + I L G N T V + V
Sbjct: 101 TYTLDVLERSPHRPI--LQAGLPANQTAVLGSDV 132
Score = 31.2 bits (69), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 36/83 (43%), Gaps = 8/83 (9%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISW----KLDGYPLAGDRF----VMGQYMSLHGDVISH 63
QT G V C + PHI W +++G + D V+ ++S +
Sbjct: 124 QTAVLGSDVEFHCKVYSDAQPHIQWLKHVEVNGSKVGPDGTPYVTVLKSWISESVEADVR 183
Query: 64 VNISSVRVEDSGIYQCTATNRVG 86
+ +++V D G Y C ATN +G
Sbjct: 184 LRLANVSERDGGEYLCRATNFIG 206
>pdb|2DM3|A Chain A, Solution Structure Of The Second Ig Domain Of Human
Palladin
Length = 110
Score = 55.8 bits (133), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 30/84 (35%), Positives = 44/84 (52%), Gaps = 3/84 (3%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVE 72
T+Q G + C +G PTP +SW+LDG P+ D M + + + + I V
Sbjct: 20 TVQEGKLCRMDCKVSGLPTPDLSWQLDGKPVRPDS---AHKMLVRENGVHSLIIEPVTSR 76
Query: 73 DSGIYQCTATNRVGSQTHSADMRV 96
D+GIY C ATNR G + S ++ V
Sbjct: 77 DAGIYTCIATNRAGQNSFSLELVV 100
Score = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 25/85 (29%), Positives = 45/85 (52%), Gaps = 5/85 (5%)
Query: 116 IKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDA--EITIRSSGEYTSSLSIATLST 173
+ V G + C V+ G P +SW +G P+ D+ ++ +R +G + SL I +++
Sbjct: 19 LTVQEGKLCRMDCKVS-GLPTPDLSWQLDGKPVRPDSAHKMLVRENGVH--SLIIEPVTS 75
Query: 174 GHSGNYTCVASNTVASDNHSSNLRV 198
+G YTC+A+N ++ S L V
Sbjct: 76 RDAGIYTCIATNRAGQNSFSLELVV 100
>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 = 54.7 bits (130), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 49/198 (24%), Positives = 85/198 (42%), Gaps = 31/198 (15%)
Query: 19 PVSLKCIATGNPTPHISWKLDGYPLAGD--RFVM--GQYMSLHGDVISH----VNISSVR 70
PV L C +G +P + WK D GD R V + + + D ++ + SV
Sbjct: 21 PVKLSCAYSGFSSPRVEWKFD----QGDTTRLVCYNNKITASYEDRVTFLPTGITFKSVT 76
Query: 71 VEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS----GDRAGV 126
ED+G Y C + G+ +++ + LV + ++ + S G+RA +
Sbjct: 77 REDTGTYTCMVSEEGGNSYGEVKVKL---------IVLVPPSKPTVNIPSSATIGNRAVL 127
Query: 127 QCLVTKGDPPLTISWLKNGLPILSDAEIT-IRSSGEY-----TSSLSIATLSTGHSGNYT 180
C G PP +W K+G+ + ++ + T S+ Y T L LS +G Y+
Sbjct: 128 TCSEQDGSPPSEYTWFKDGIVMPTNPKSTRAFSNSSYVLNPTTGELVFDPLSASDTGEYS 187
Query: 181 CVASNTVASDNHSSNLRV 198
C A N + S+ +R+
Sbjct: 188 CEARNGYGTPMTSNAVRM 205
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 36/88 (40%), Gaps = 3/88 (3%)
Query: 197 RVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLR--VNVPPHIGPFTF-GELME 253
RV + ++ +++ +G YTC+ S + ++ V VPP
Sbjct: 62 RVTFLPTGITFKSVTREDTGTYTCMVSEEGGNSYGEVKVKLIVLVPPSKPTVNIPSSATI 121
Query: 254 GVRTQVACVVQSGDLPLSLQWYKNGLAI 281
G R + C Q G P W+K+G+ +
Sbjct: 122 GNRAVLTCSEQDGSPPSEYTWFKDGIVM 149
>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 = 54.3 bits (129), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 45/183 (24%), Positives = 75/183 (40%), Gaps = 21/183 (11%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISH-VNISSVRV 71
T + G L C G P P I W Y G + + + D +H + + +
Sbjct: 18 TTKLGEAAQLSCQIVGRPLPDIKW----YRF-GKELIQSRKYKMSSDGRTHTLTVMTEEQ 72
Query: 72 EDSGIYQCTATNRVGSQTHSADMRVYDA----PGQPQDVKLVTSNSRSIKVHSGDRAGVQ 127
ED G+Y C ATN VG S+ + + PG P K + ++++H
Sbjct: 73 EDEGVYTCIATNEVGEVETSSKLLLQATPQFHPGYPLKEKYYGAVGSTLRLH-------- 124
Query: 128 CLVTKGDPPLTISWLKNGLPILSDAE-ITIRSSGEYTSSLSIATLSTGHSGNYTCVASNT 186
++ G P ++W +G +L ++E ITI ++ YT + H+G Y SN
Sbjct: 125 -VMYIGRPVPAMTWF-HGQKLLQNSENITIENTEHYTHLVMKNVQRKTHAGKYKVQLSNV 182
Query: 187 VAS 189
+
Sbjct: 183 FGT 185
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/99 (29%), Positives = 47/99 (47%), Gaps = 9/99 (9%)
Query: 98 DAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIR 157
+APG +++K VT+ G+ A + C + G P I W + G ++ + +
Sbjct: 6 EAPGIRKEMKDVTTKL-------GEAAQLSCQIV-GRPLPDIKWYRFGKELIQSRKYKMS 57
Query: 158 SSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNL 196
S G T +L++ T G YTC+A+N V SS L
Sbjct: 58 SDGR-THTLTVMTEEQEDEGVYTCIATNEVGEVETSSKL 95
>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 = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 49/193 (25%), Positives = 84/193 (43%), Gaps = 22/193 (11%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG-QYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A GNP P + W +G + + G + + H +I + SV D G Y
Sbjct: 29 VKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLI----MESVVPSDKGNYT 84
Query: 79 CTATNRVGSQTHSADMRVYD-APGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPL 137
C N GS H+ + V + +P +P + +N+ ++ GD V + + P
Sbjct: 85 CVVENEYGSINHTYHLDVVERSPHRPILQAGLPANASTVV--GGDVEFVCKVYSDAQP-- 140
Query: 138 TISWLK-----------NGLPILSDAEIT-IRSSGEYTSSLSIATLSTGHSGNYTCVASN 185
I W+K +GLP L + + ++ + L I ++ +G YTC+A N
Sbjct: 141 HIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEYTCLAGN 200
Query: 186 TVASDNHSSNLRV 198
++ HS+ L V
Sbjct: 201 SIGISFHSAWLTV 213
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 40/94 (42%), Gaps = 2/94 (2%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P T+ WLKNG + I SL + ++ GNYTCV N S NH
Sbjct: 37 GNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINH 96
Query: 193 SSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTV 226
+ +L V E + I L G N + V V
Sbjct: 97 TYHLDVVERSPHRPI--LQAGLPANASTVVGGDV 128
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 39/95 (41%), Gaps = 9/95 (9%)
Query: 17 GPPVSLKCIATGNPTPHISW----KLDGYPLAGDRFVMGQYMSLHG-----DVISHVNIS 67
G V C + PHI W + +G D + + G I + I
Sbjct: 125 GGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIR 184
Query: 68 SVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQ 102
+V ED+G Y C A N +G HSA + V APG+
Sbjct: 185 NVTFEDAGEYTCLAGNSIGISFHSAWLTVLPAPGR 219
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 34/80 (42%), Gaps = 7/80 (8%)
Query: 204 SLSIATLSTGHSGNYTCVASNTVASDNHSSNLR-VNVPPHIGPFTFG-----ELMEGVRT 257
SL + ++ GNYTCV N S NH+ +L V PH G + G
Sbjct: 69 SLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANASTVVGGDV 128
Query: 258 QVACVVQSGDLPLSLQWYKN 277
+ C V S P +QW K+
Sbjct: 129 EFVCKVYSDAQP-HIQWIKH 147
>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 = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 49/193 (25%), Positives = 84/193 (43%), Gaps = 22/193 (11%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG-QYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A GNP P + W +G + + G + + H +I + SV D G Y
Sbjct: 28 VKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLI----MESVVPSDKGNYT 83
Query: 79 CTATNRVGSQTHSADMRVYD-APGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPL 137
C N GS H+ + V + +P +P + +N+ ++ GD V + + P
Sbjct: 84 CVVENEYGSINHTYHLDVVERSPHRPILQAGLPANASTVV--GGDVEFVCKVYSDAQP-- 139
Query: 138 TISWLK-----------NGLPILSDAEIT-IRSSGEYTSSLSIATLSTGHSGNYTCVASN 185
I W+K +GLP L + + ++ + L I ++ +G YTC+A N
Sbjct: 140 HIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEYTCLAGN 199
Query: 186 TVASDNHSSNLRV 198
++ HS+ L V
Sbjct: 200 SIGISFHSAWLTV 212
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 40/94 (42%), Gaps = 2/94 (2%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P T+ WLKNG + I SL + ++ GNYTCV N S NH
Sbjct: 36 GNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINH 95
Query: 193 SSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTV 226
+ +L V E + I L G N + V V
Sbjct: 96 TYHLDVVERSPHRPI--LQAGLPANASTVVGGDV 127
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 39/95 (41%), Gaps = 9/95 (9%)
Query: 17 GPPVSLKCIATGNPTPHISW----KLDGYPLAGDRFVMGQYMSLHG-----DVISHVNIS 67
G V C + PHI W + +G D + + G I + I
Sbjct: 124 GGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIR 183
Query: 68 SVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQ 102
+V ED+G Y C A N +G HSA + V APG+
Sbjct: 184 NVTFEDAGEYTCLAGNSIGISFHSAWLTVLPAPGR 218
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 34/80 (42%), Gaps = 7/80 (8%)
Query: 204 SLSIATLSTGHSGNYTCVASNTVASDNHSSNLR-VNVPPHIGPFTFG-----ELMEGVRT 257
SL + ++ GNYTCV N S NH+ +L V PH G + G
Sbjct: 68 SLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANASTVVGGDV 127
Query: 258 QVACVVQSGDLPLSLQWYKN 277
+ C V S P +QW K+
Sbjct: 128 EFVCKVYSDAQP-HIQWIKH 146
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 51/194 (26%), Positives = 78/194 (40%), Gaps = 20/194 (10%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQC 79
V KC ++G P P + W +G D + G + + + SV D G Y C
Sbjct: 34 VKFKCPSSGTPNPTLRWLKNGKEFKPDHRIGGYKVRY---ATWSIIMDSVVPSDKGNYTC 90
Query: 80 TATNRVGSQTHSADMRVYD-APGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT 138
N GS H+ + V + +P +P + +N V G C V DP
Sbjct: 91 IVENEYGSINHTYQLDVVERSPHRPILQAGLPANK---TVALGSNVEFMCKVY-SDPQPH 146
Query: 139 ISWLK----NGLPILSD--------AEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNT 186
I WLK NG I D + ++ + L + +S +G YTC+A N+
Sbjct: 147 IQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEMEVLHLRNVSFEDAGEYTCLAGNS 206
Query: 187 VASDNHSSNLRVNE 200
+ +HS+ L V E
Sbjct: 207 IGLSHHSAWLTVLE 220
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 44/97 (45%), Gaps = 9/97 (9%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISW----KLDGYPLAGDRFVMGQYMSLHG-----DVIS 62
+T+ G V C +P PHI W +++G + D Q + G +
Sbjct: 125 KTVALGSNVEFMCKVYSDPQPHIQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEME 184
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDA 99
+++ +V ED+G Y C A N +G HSA + V +A
Sbjct: 185 VLHLRNVSFEDAGEYTCLAGNSIGLSHHSAWLTVLEA 221
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 39/94 (41%), Gaps = 2/94 (2%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G P T+ WLKNG D I T S+ + ++ GNYTC+ N S NH
Sbjct: 42 GTPNPTLRWLKNGKEFKPDHRIGGYKVRYATWSIIMDSVVPSDKGNYTCIVENEYGSINH 101
Query: 193 SSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTV 226
+ L V E + I L G N T + V
Sbjct: 102 TYQLDVVERSPHRPI--LQAGLPANKTVALGSNV 133
Score = 30.8 bits (68), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 38/94 (40%), Gaps = 7/94 (7%)
Query: 190 DNHSSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLR-VNVPPHIGPFTF 248
D+ +V T S+ + ++ GNYTC+ N S NH+ L V PH
Sbjct: 60 DHRIGGYKVRYATWSIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVERSPHRPILQA 119
Query: 249 G-----ELMEGVRTQVACVVQSGDLPLSLQWYKN 277
G + G + C V S P +QW K+
Sbjct: 120 GLPANKTVALGSNVEFMCKVYSDPQP-HIQWLKH 152
>pdb|1CVS|C Chain C, Crystal Structure Of A Dimeric Fgf2-Fgfr1 Complex
pdb|1CVS|D Chain D, Crystal Structure Of A Dimeric Fgf2-Fgfr1 Complex
pdb|1FQ9|C Chain C, Crystal Structure Of A Ternary Fgf2-Fgfr1-Heparin Complex
pdb|1FQ9|D Chain D, Crystal Structure Of A Ternary Fgf2-Fgfr1-Heparin Complex
Length = 225
Score = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 51/194 (26%), Positives = 78/194 (40%), Gaps = 20/194 (10%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQC 79
V KC ++G P P + W +G D + G + + + SV D G Y C
Sbjct: 34 VKFKCPSSGTPQPTLRWLKNGKEFKPDHRIGGYKVRY---ATWSIIMDSVVPSDKGNYTC 90
Query: 80 TATNRVGSQTHSADMRVYD-APGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT 138
N GS H+ + V + +P +P + +N V G C V DP
Sbjct: 91 IVENEYGSINHTYQLDVVERSPHRPILQAGLPANK---TVALGSNVEFMCKVY-SDPQPH 146
Query: 139 ISWLK----NGLPILSD--------AEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNT 186
I WLK NG I D + ++ + L + +S +G YTC+A N+
Sbjct: 147 IQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEMEVLHLRNVSFEDAGEYTCLAGNS 206
Query: 187 VASDNHSSNLRVNE 200
+ +HS+ L V E
Sbjct: 207 IGLSHHSAWLTVLE 220
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 39/94 (41%), Gaps = 2/94 (2%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G P T+ WLKNG D I T S+ + ++ GNYTC+ N S NH
Sbjct: 42 GTPQPTLRWLKNGKEFKPDHRIGGYKVRYATWSIIMDSVVPSDKGNYTCIVENEYGSINH 101
Query: 193 SSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTV 226
+ L V E + I L G N T + V
Sbjct: 102 TYQLDVVERSPHRPI--LQAGLPANKTVALGSNV 133
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 44/97 (45%), Gaps = 9/97 (9%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISW----KLDGYPLAGDRFVMGQYMSLHG-----DVIS 62
+T+ G V C +P PHI W +++G + D Q + G +
Sbjct: 125 KTVALGSNVEFMCKVYSDPQPHIQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEME 184
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDA 99
+++ +V ED+G Y C A N +G HSA + V +A
Sbjct: 185 VLHLRNVSFEDAGEYTCLAGNSIGLSHHSAWLTVLEA 221
Score = 30.8 bits (68), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 38/94 (40%), Gaps = 7/94 (7%)
Query: 190 DNHSSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLR-VNVPPHIGPFTF 248
D+ +V T S+ + ++ GNYTC+ N S NH+ L V PH
Sbjct: 60 DHRIGGYKVRYATWSIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVERSPHRPILQA 119
Query: 249 G-----ELMEGVRTQVACVVQSGDLPLSLQWYKN 277
G + G + C V S P +QW K+
Sbjct: 120 GLPANKTVALGSNVEFMCKVYSDPQP-HIQWLKH 152
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 50/183 (27%), Positives = 82/183 (44%), Gaps = 8/183 (4%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGI 76
G + + +G P P +SW DG ++ + G +S D + + I +V +SG
Sbjct: 20 GSTATFEAHISGFPVPEVSWFRDGQVISTST-LPGVQISFS-DGRAKLTIPAVTKANSGR 77
Query: 77 YQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPP 136
Y ATN G T +A++ V P V+ + +S+ V G + +Q VT G P
Sbjct: 78 YSLKATNGSGQATSTAELLVKAETAPPNFVQRL----QSMTVRQGSQVRLQVRVT-GIPT 132
Query: 137 LTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNL 196
+ + ++G I S + I G+ SL IA SG Y+ A+N+V ++ L
Sbjct: 133 PVVKFYRDGAEIQSSLDFQISQEGDL-YSLLIAEAYPEDSGTYSVNATNSVGRATSTAEL 191
Query: 197 RVN 199
V
Sbjct: 192 LVQ 194
Score = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 46/94 (48%), Gaps = 4/94 (4%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
P + + T++ G V L+ TG PTP + + DG + + +S GD+ S
Sbjct: 104 PNFVQRLQSMTVRQGSQVRLQVRVTGIPTPVVKFYRDGAEIQSS---LDFQISQEGDLYS 160
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRV 96
+ I+ EDSG Y ATN VG T +A++ V
Sbjct: 161 LL-IAEAYPEDSGTYSVNATNSVGRATSTAELLV 193
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 51/194 (26%), Positives = 78/194 (40%), Gaps = 20/194 (10%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQC 79
V KC ++G P P + W +G D + G + + + SV D G Y C
Sbjct: 35 VKFKCPSSGTPQPTLRWLKNGKEFKPDHRIGGYKVRY---ATWSIIMDSVVPSDKGNYTC 91
Query: 80 TATNRVGSQTHSADMRVYD-APGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT 138
N GS H+ + V + +P +P + +N V G C V DP
Sbjct: 92 IVENEYGSINHTYQLDVVERSPHRPILQAGLPANK---TVALGSNVEFMCKVY-SDPQPH 147
Query: 139 ISWLK----NGLPILSD--------AEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNT 186
I WLK NG I D + ++ + L + +S +G YTC+A N+
Sbjct: 148 IQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEMEVLHLRNVSFEDAGEYTCLAGNS 207
Query: 187 VASDNHSSNLRVNE 200
+ +HS+ L V E
Sbjct: 208 IGLSHHSAWLTVLE 221
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 39/94 (41%), Gaps = 2/94 (2%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G P T+ WLKNG D I T S+ + ++ GNYTC+ N S NH
Sbjct: 43 GTPQPTLRWLKNGKEFKPDHRIGGYKVRYATWSIIMDSVVPSDKGNYTCIVENEYGSINH 102
Query: 193 SSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTV 226
+ L V E + I L G N T + V
Sbjct: 103 TYQLDVVERSPHRPI--LQAGLPANKTVALGSNV 134
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 44/97 (45%), Gaps = 9/97 (9%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISW----KLDGYPLAGDRFVMGQYMSLHG-----DVIS 62
+T+ G V C +P PHI W +++G + D Q + G +
Sbjct: 126 KTVALGSNVEFMCKVYSDPQPHIQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEME 185
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDA 99
+++ +V ED+G Y C A N +G HSA + V +A
Sbjct: 186 VLHLRNVSFEDAGEYTCLAGNSIGLSHHSAWLTVLEA 222
Score = 30.8 bits (68), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 38/94 (40%), Gaps = 7/94 (7%)
Query: 190 DNHSSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLR-VNVPPHIGPFTF 248
D+ +V T S+ + ++ GNYTC+ N S NH+ L V PH
Sbjct: 61 DHRIGGYKVRYATWSIIMDSVVPSDKGNYTCIVENEYGSINHTYQLDVVERSPHRPILQA 120
Query: 249 G-----ELMEGVRTQVACVVQSGDLPLSLQWYKN 277
G + G + C V S P +QW K+
Sbjct: 121 GLPANKTVALGSNVEFMCKVYSDPQP-HIQWLKH 153
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 49/193 (25%), Positives = 83/193 (43%), Gaps = 22/193 (11%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG-QYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A GNP P + W +G + + G + + H +I + SV D G Y
Sbjct: 29 VKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLI----MESVVPSDKGNYT 84
Query: 79 CTATNRVGSQTHSADMRVYDA-PGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPL 137
C N GS H+ + V + P +P + +N+ ++ GD V + + P
Sbjct: 85 CVVENEYGSINHTYHLDVVERWPHRPILQAGLPANASTVV--GGDVEFVCKVYSDAQP-- 140
Query: 138 TISWLK-----------NGLPILSDAEIT-IRSSGEYTSSLSIATLSTGHSGNYTCVASN 185
I W+K +GLP L + + ++ + L I ++ +G YTC+A N
Sbjct: 141 HIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEYTCLAGN 200
Query: 186 TVASDNHSSNLRV 198
++ HS+ L V
Sbjct: 201 SIGISFHSAWLTV 213
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 24/68 (35%), Positives = 32/68 (47%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P T+ WLKNG + I SL + ++ GNYTCV N S NH
Sbjct: 37 GNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINH 96
Query: 193 SSNLRVNE 200
+ +L V E
Sbjct: 97 TYHLDVVE 104
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 39/95 (41%), Gaps = 9/95 (9%)
Query: 17 GPPVSLKCIATGNPTPHISW----KLDGYPLAGDRFVMGQYMSLHG-----DVISHVNIS 67
G V C + PHI W + +G D + + G I + I
Sbjct: 125 GGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIR 184
Query: 68 SVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQ 102
+V ED+G Y C A N +G HSA + V APG+
Sbjct: 185 NVTFEDAGEYTCLAGNSIGISFHSAWLTVLPAPGR 219
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 204 SLSIATLSTGHSGNYTCVASNTVASDNHSSNLRV 237
SL + ++ GNYTCV N S NH+ +L V
Sbjct: 69 SLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 102
>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 = 53.1 bits (126), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 50/183 (27%), Positives = 82/183 (44%), Gaps = 8/183 (4%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGI 76
G + + +G P P +SW DG ++ + G +S D + + I +V +SG
Sbjct: 20 GSTATFEAHISGFPVPEVSWFRDGQVISTST-LPGVQISFS-DGRAKLTIPAVTKANSGR 77
Query: 77 YQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPP 136
Y ATN G T +A++ V P V+ + +S+ V G + +Q VT G P
Sbjct: 78 YSLKATNGSGQATSTAELLVKAETAPPNFVQRL----QSMTVRQGSQVRLQVRVT-GIPT 132
Query: 137 LTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNL 196
+ + ++G I S + I G+ SL IA SG Y+ A+N+V ++ L
Sbjct: 133 PVVKFYRDGAEIQSSLDFQISQEGDL-YSLLIAEAYPEDSGTYSVNATNSVGRATSTAEL 191
Query: 197 RVN 199
V
Sbjct: 192 LVQ 194
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 46/94 (48%), Gaps = 4/94 (4%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
P + + T++ G V L+ TG PTP + + DG + + +S GD+ S
Sbjct: 104 PNFVQRLQSMTVRQGSQVRLQVRVTGIPTPVVKFYRDGAEIQSS---LDFQISQEGDLYS 160
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRV 96
+ I+ EDSG Y ATN VG T +A++ V
Sbjct: 161 LL-IAEAYPEDSGTYSVNATNSVGRATSTAELLV 193
>pdb|2RIK|A Chain A, I-Band Fragment I67-I69 From Titin
Length = 284
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 50/198 (25%), Positives = 81/198 (40%), Gaps = 12/198 (6%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
P K + L G + KC TG I+W D + G Y + +
Sbjct: 6 PFFDLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREIRPG----GNYKMTLVENTA 61
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGD 122
+ + V D+G Y C A+N G + SA + V + P + + S V +
Sbjct: 62 TLTVLKVTKGDAGQYTCYASNVAGKDSCSAQLGVQEPP------RFIKKLEPSRIVKQDE 115
Query: 123 RAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCV 182
+C + G P + + W K+ I ++ + S E + L + LS SG+YTC
Sbjct: 116 HTRYECKIG-GSPEIKVLWYKDETEIQESSKFRM-SFVESVAVLEMYNLSVEDSGDYTCE 173
Query: 183 ASNTVASDNHSSNLRVNE 200
A N S + S++L+V E
Sbjct: 174 AHNAAGSASSSTSLKVKE 191
Score = 52.4 bits (124), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 51/189 (26%), Positives = 83/189 (43%), Gaps = 22/189 (11%)
Query: 8 KFIQQTLQPGPPVS------LKCIATGNPTPHISWKLDGYPL-AGDRFVMGQYMSLHGDV 60
+FI++ L+P V +C G+P + W D + +F M S+ V
Sbjct: 100 RFIKK-LEPSRIVKQDEHTRYECKIGGSPEIKVLWYKDETEIQESSKFRMSFVESVA--V 156
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS 120
+ N+S VEDSG Y C A N GS + S ++V + P + ++
Sbjct: 157 LEMYNLS---VEDSGDYTCEAHNAAGSASSSTSLKVKEPP-------VFRKKPHPVETLK 206
Query: 121 GDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYT 180
G ++C + +G PP +SW K+ + S + I S + +S+ I + + G Y
Sbjct: 207 GADVHLECEL-QGTPPFQVSWHKDKRELRSGKKYKIMSEN-FLTSIHILNVDSADIGEYQ 264
Query: 181 CVASNTVAS 189
C ASN V S
Sbjct: 265 CKASNDVGS 273
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 54/220 (24%), Positives = 86/220 (39%), Gaps = 61/220 (27%)
Query: 115 SIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTG 174
S+ + G+ +C VT G P+ I+W K+ I + + E T++L++ ++ G
Sbjct: 14 SVDLALGESGTFKCHVT-GTAPIKITWAKDNREIRPGGNYKM-TLVENTATLTVLKVTKG 71
Query: 175 HSGNYTCVASNT---------------------------VASDNH--------------- 192
+G YTC ASN V D H
Sbjct: 72 DAGQYTCYASNVAGKDSCSAQLGVQEPPRFIKKLEPSRIVKQDEHTRYECKIGGSPEIKV 131
Query: 193 -----------SSNLRVN--EYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNV 239
SS R++ E + L + LS SG+YTC A N S + S++L+V
Sbjct: 132 LWYKDETEIQESSKFRMSFVESVAVLEMYNLSVEDSGDYTCEAHNAAGSASSSTSLKVKE 191
Query: 240 PP--HIGPFTFGELMEGVRTQVACVVQSGDLPLSLQWYKN 277
PP P E ++G + C +Q G P + W+K+
Sbjct: 192 PPVFRKKPHPV-ETLKGADVHLECELQ-GTPPFQVSWHKD 229
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 58/132 (43%), Gaps = 25/132 (18%)
Query: 171 LSTGHSGNYTCVASNTV------ASDNHS------SNLRVNEYTSSLSIATLSTGHSGNY 218
L+ G SG + C + T A DN + + E T++L++ ++ G +G Y
Sbjct: 17 LALGESGTFKCHVTGTAPIKITWAKDNREIRPGGNYKMTLVENTATLTVLKVTKGDAGQY 76
Query: 219 TCVASNTVASDNHSSNLRVNVPPHIGPFTFGELMEGVR-------TQVACVVQSGDLPLS 271
TC ASN D+ S+ L V PP F + +E R T+ C + G +
Sbjct: 77 TCYASNVAGKDSCSAQLGVQEPPR-----FIKKLEPSRIVKQDEHTRYECKI-GGSPEIK 130
Query: 272 LQWYKNGLAISQ 283
+ WYK+ I +
Sbjct: 131 VLWYKDETEIQE 142
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 5/78 (6%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRV 71
+TL+ G V L+C G P +SW D L + +Y + + ++ ++I +V
Sbjct: 203 ETLK-GADVHLECELQGTPPFQVSWHKDKRELRSGK----KYKIMSENFLTSIHILNVDS 257
Query: 72 EDSGIYQCTATNRVGSQT 89
D G YQC A+N VGS T
Sbjct: 258 ADIGEYQCKASNDVGSYT 275
>pdb|2RJM|A Chain A, 3ig Structure Of Titin Domains I67-I69 E-To-A Mutated
Variant
Length = 284
Score = 52.0 bits (123), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 51/189 (26%), Positives = 83/189 (43%), Gaps = 22/189 (11%)
Query: 8 KFIQQTLQPGPPVS------LKCIATGNPTPHISWKLDGYPL-AGDRFVMGQYMSLHGDV 60
+FI++ L+P V +C G+P + W D + +F M S+ V
Sbjct: 100 RFIKK-LEPSRIVKQDEHTRYECKIGGSPEIKVLWYKDETEIQESSKFRMSFVESVA--V 156
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS 120
+ N+S VEDSG Y C A N GS + S ++V + P + ++
Sbjct: 157 LEMYNLS---VEDSGDYTCEAHNAAGSASSSTSLKVKEPP-------VFRKKPHPVETLK 206
Query: 121 GDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYT 180
G ++C + +G PP +SW K+ + S + I S + +S+ I + + G Y
Sbjct: 207 GADVHLECEL-QGTPPFQVSWHKDKRELRSGKKYKIMSEN-FLTSIHILNVDSADIGEYQ 264
Query: 181 CVASNTVAS 189
C ASN V S
Sbjct: 265 CKASNDVGS 273
Score = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 55/198 (27%), Positives = 86/198 (43%), Gaps = 12/198 (6%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
P K + L G + KC TG I+W D + G Y + +
Sbjct: 6 PFFDLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREIRPG----GNYKMTLVENTA 61
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGD 122
+ + V D+G Y C A+N G + SA + V AP P+ +K + SR +K
Sbjct: 62 TLTVLKVTKGDAGQYTCYASNVAGKDSCSAQLGV-QAP--PRFIKKLEP-SRIVKQDEHT 117
Query: 123 RAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCV 182
R +C + G P + + W K+ I ++ + S E + L + LS SG+YTC
Sbjct: 118 R--YECKIG-GSPEIKVLWYKDETEIQESSKFRM-SFVESVAVLEMYNLSVEDSGDYTCE 173
Query: 183 ASNTVASDNHSSNLRVNE 200
A N S + S++L+V E
Sbjct: 174 AHNAAGSASSSTSLKVKE 191
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 54/220 (24%), Positives = 86/220 (39%), Gaps = 61/220 (27%)
Query: 115 SIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTG 174
S+ + G+ +C VT G P+ I+W K+ I + + E T++L++ ++ G
Sbjct: 14 SVDLALGESGTFKCHVT-GTAPIKITWAKDNREIRPGGNYKM-TLVENTATLTVLKVTKG 71
Query: 175 HSGNYTCVASNT---------------------------VASDNH--------------- 192
+G YTC ASN V D H
Sbjct: 72 DAGQYTCYASNVAGKDSCSAQLGVQAPPRFIKKLEPSRIVKQDEHTRYECKIGGSPEIKV 131
Query: 193 -----------SSNLRVN--EYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNV 239
SS R++ E + L + LS SG+YTC A N S + S++L+V
Sbjct: 132 LWYKDETEIQESSKFRMSFVESVAVLEMYNLSVEDSGDYTCEAHNAAGSASSSTSLKVKE 191
Query: 240 PP--HIGPFTFGELMEGVRTQVACVVQSGDLPLSLQWYKN 277
PP P E ++G + C +Q G P + W+K+
Sbjct: 192 PPVFRKKPHPV-ETLKGADVHLECELQ-GTPPFQVSWHKD 229
Score = 49.3 bits (116), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 58/132 (43%), Gaps = 25/132 (18%)
Query: 171 LSTGHSGNYTCVASNTV------ASDNHS------SNLRVNEYTSSLSIATLSTGHSGNY 218
L+ G SG + C + T A DN + + E T++L++ ++ G +G Y
Sbjct: 17 LALGESGTFKCHVTGTAPIKITWAKDNREIRPGGNYKMTLVENTATLTVLKVTKGDAGQY 76
Query: 219 TCVASNTVASDNHSSNLRVNVPPHIGPFTFGELMEGVR-------TQVACVVQSGDLPLS 271
TC ASN D+ S+ L V PP F + +E R T+ C + G +
Sbjct: 77 TCYASNVAGKDSCSAQLGVQAPPR-----FIKKLEPSRIVKQDEHTRYECKI-GGSPEIK 130
Query: 272 LQWYKNGLAISQ 283
+ WYK+ I +
Sbjct: 131 VLWYKDETEIQE 142
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 40/78 (51%), Gaps = 5/78 (6%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRV 71
+TL+ G V L+C G P +SW D L + +Y + + ++ ++I +V
Sbjct: 203 ETLK-GADVHLECELQGTPPFQVSWHKDKRELRSGK----KYKIMSENFLTSIHILNVDS 257
Query: 72 EDSGIYQCTATNRVGSQT 89
D G YQC A+N VGS T
Sbjct: 258 ADIGEYQCKASNDVGSYT 275
>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 = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 55/204 (26%), Positives = 80/204 (39%), Gaps = 37/204 (18%)
Query: 2 HPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMG---QYMSLHG 58
+PQ ++FI L SL C+A PTP W +F+ G + +
Sbjct: 217 NPQDKHQFIDVEL--ASSYSLLCMAQSYPTPSFRWY---------KFIEGTTRKQAVVLN 265
Query: 59 DVISHVN----ISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR 114
D + V+ I VEDSG Y C N VG ++ + V P K+ +
Sbjct: 266 DRVKQVSGTLIIKDAVVEDSGKYLCVVNNSVGGESVETVLTV----TAPLSAKI---DPP 318
Query: 115 SIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTG 174
+ V G A C T G+P T+SW+K+G I G S L I ++
Sbjct: 319 TQTVDFGRPAVFTCQYT-GNPIKTVSWMKDGKAI-----------GHSESVLRIESVKKE 366
Query: 175 HSGNYTCVASNTVASDNHSSNLRV 198
G Y C N S S+ L++
Sbjct: 367 DKGMYQCFVRNDRESAEASAELKL 390
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 42/89 (47%), Gaps = 4/89 (4%)
Query: 195 NLRVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVP--PHIGPFTFGELM 252
N RV + + +L I SG Y CV +N+V ++ + L V P I P T + +
Sbjct: 265 NDRVKQVSGTLIIKDAVVEDSGKYLCVVNNSVGGESVETVLTVTAPLSAKIDPPT--QTV 322
Query: 253 EGVRTQVACVVQSGDLPLSLQWYKNGLAI 281
+ R V +G+ ++ W K+G AI
Sbjct: 323 DFGRPAVFTCQYTGNPIKTVSWMKDGKAI 351
Score = 31.2 bits (69), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 28/68 (41%), Gaps = 1/68 (1%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVE-DSGIYQC 79
++C A+GNP P I W GD + Q S V R E + +Y C
Sbjct: 23 EIECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGKLVFPPFRAEDYRQEVHAQVYAC 82
Query: 80 TATNRVGS 87
A N+ GS
Sbjct: 83 LARNQFGS 90
>pdb|1DJS|A Chain A, Ligand-binding Portion Of Fibroblast Growth Factor
Receptor 2 In Complex With Fgf1
Length = 216
Score = 52.0 bits (123), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 49/193 (25%), Positives = 82/193 (42%), Gaps = 22/193 (11%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG-QYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A GNP P W +G + + G + + H +I SV D G Y
Sbjct: 29 VKFRCPAGGNPXPTXRWLKNGKEFKQEHRIGGYKVRNQHWSLIX----ESVVPSDKGNYT 84
Query: 79 CTATNRVGSQTHSADMRVYD-APGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPL 137
C N GS H+ + V + +P +P + +N+ ++ GD V + + P
Sbjct: 85 CVVENEYGSINHTYHLDVVERSPHRPILQAGLPANASTVV--GGDVEFVCKVYSDAQP-- 140
Query: 138 TISWLK-----------NGLPILSDAEIT-IRSSGEYTSSLSIATLSTGHSGNYTCVASN 185
I W+K +GLP L + + ++ + L I ++ +G YTC+A N
Sbjct: 141 HIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEYTCLAGN 200
Query: 186 TVASDNHSSNLRV 198
++ HS+ L V
Sbjct: 201 SIGISFHSAWLTV 213
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 38/94 (40%), Gaps = 2/94 (2%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P T WLKNG + I SL ++ GNYTCV N S NH
Sbjct: 37 GNPXPTXRWLKNGKEFKQEHRIGGYKVRNQHWSLIXESVVPSDKGNYTCVVENEYGSINH 96
Query: 193 SSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTV 226
+ +L V E + I L G N + V V
Sbjct: 97 TYHLDVVERSPHRPI--LQAGLPANASTVVGGDV 128
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 36/92 (39%), Gaps = 9/92 (9%)
Query: 17 GPPVSLKCIATGNPTPHISW----KLDGYPLAGDRFVMGQYMSLHG-----DVISHVNIS 67
G V C + PHI W + +G D + + G I + I
Sbjct: 125 GGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIR 184
Query: 68 SVRVEDSGIYQCTATNRVGSQTHSADMRVYDA 99
+V ED+G Y C A N +G HSA + V A
Sbjct: 185 NVTFEDAGEYTCLAGNSIGISFHSAWLTVLPA 216
Score = 28.5 bits (62), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 33/80 (41%), Gaps = 7/80 (8%)
Query: 204 SLSIATLSTGHSGNYTCVASNTVASDNHSSNLR-VNVPPHIGPFTFG-----ELMEGVRT 257
SL ++ GNYTCV N S NH+ +L V PH G + G
Sbjct: 69 SLIXESVVPSDKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANASTVVGGDV 128
Query: 258 QVACVVQSGDLPLSLQWYKN 277
+ C V S P +QW K+
Sbjct: 129 EFVCKVYSDAQP-HIQWIKH 147
>pdb|3V6B|R Chain R, Vegfr-2VEGF-E Complex Structure
Length = 424
Score = 51.6 bits (122), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 39/148 (26%), Positives = 71/148 (47%), Gaps = 11/148 (7%)
Query: 46 DRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQD 105
+R + Q S +S + I V D G+Y C A++ + ++ +S +RV++ P
Sbjct: 144 NRDLKTQSGSEMKKFLSTLTIDGVTRSDQGLYTCAASSGLMTKKNSTFVRVHEKPF---- 199
Query: 106 VKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSS 165
V + ++ G+R + G PP I W KNG+P+ S+ TI++
Sbjct: 200 VAFGSGMESLVEATVGERVRIPAKYL-GYPPPEIKWYKNGIPLESNH--TIKAG----HV 252
Query: 166 LSIATLSTGHSGNYTCVASNTVASDNHS 193
L+I +S +GNYT + +N ++ + S
Sbjct: 253 LTIMEVSERDTGNYTVILTNPISKEKQS 280
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 47/93 (50%), Gaps = 11/93 (11%)
Query: 197 RVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVPPHIGPFTFGELME--- 253
+ ++ S+L+I ++ G YTC AS+ + + +S+ +RV+ P + FG ME
Sbjct: 154 EMKKFLSTLTIDGVTRSDQGLYTCAASSGLMTKKNSTFVRVHEKPFVA---FGSGMESLV 210
Query: 254 ----GVRTQVACVVQSGDLPLSLQWYKNGLAIS 282
G R ++ G P ++WYKNG+ +
Sbjct: 211 EATVGERVRIPAKYL-GYPPPEIKWYKNGIPLE 242
Score = 32.0 bits (71), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 33/129 (25%), Positives = 48/129 (37%), Gaps = 19/129 (14%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGI 76
G V + G P P I W +G PL + + G V++ + +S D+G
Sbjct: 215 GERVRIPAKYLGYPPPEIKWYKNGIPLESNHTIKA------GHVLTIMEVSE---RDTGN 265
Query: 77 YQCTATNRVG--SQTHSADMRVYDAP--GQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTK 132
Y TN + Q+H + VY P G+ + V S G + C V
Sbjct: 266 YTVILTNPISKEKQSHVVSLVVYVPPQIGEKSLISPVDS------YQYGTTQTLTCTVYA 319
Query: 133 GDPPLTISW 141
PP I W
Sbjct: 320 IPPPHHIHW 328
>pdb|3V2A|R Chain R, Vegfr-2VEGF-A Complex Structure
Length = 772
Score = 51.6 bits (122), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 39/148 (26%), Positives = 71/148 (47%), Gaps = 11/148 (7%)
Query: 46 DRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQD 105
+R + Q S +S + I V D G+Y C A++ + ++ +S +RV++ P
Sbjct: 274 NRDLKTQSGSEMKKFLSTLTIDGVTRSDQGLYTCAASSGLMTKKNSTFVRVHEKPF---- 329
Query: 106 VKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSS 165
V + ++ G+R + G PP I W KNG+P+ S+ TI++
Sbjct: 330 VAFGSGMESLVEATVGERVRIPAKYL-GYPPPEIKWYKNGIPLESNH--TIKAG----HV 382
Query: 166 LSIATLSTGHSGNYTCVASNTVASDNHS 193
L+I +S +GNYT + +N ++ + S
Sbjct: 383 LTIMEVSERDTGNYTVILTNPISKEKQS 410
Score = 44.3 bits (103), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 25/75 (33%), Positives = 36/75 (48%), Gaps = 6/75 (8%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRV 71
QT G + + C A+GNP P I W D L D ++ + D ++ I VR
Sbjct: 676 QTTSIGESIEVSCTASGNPPPQIMWFKDNETLVEDSGIVLK------DGNRNLTIRRVRK 729
Query: 72 EDSGIYQCTATNRVG 86
ED G+Y C A + +G
Sbjct: 730 EDEGLYTCQACSVLG 744
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 47/93 (50%), Gaps = 11/93 (11%)
Query: 197 RVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVPPHIGPFTFGELME--- 253
+ ++ S+L+I ++ G YTC AS+ + + +S+ +RV+ P + FG ME
Sbjct: 284 EMKKFLSTLTIDGVTRSDQGLYTCAASSGLMTKKNSTFVRVHEKPFVA---FGSGMESLV 340
Query: 254 ----GVRTQVACVVQSGDLPLSLQWYKNGLAIS 282
G R ++ G P ++WYKNG+ +
Sbjct: 341 EATVGERVRIPAKYL-GYPPPEIKWYKNGIPLE 372
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 28/124 (22%), Positives = 52/124 (41%), Gaps = 7/124 (5%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDR 123
+ + + ++D G Y C A +R + H V + +T N + G+
Sbjct: 627 MELKNASLQDQGDYVCLAQDRKTKKRHCV---VRQLTVLERVAPTITGNLENQTTSIGES 683
Query: 124 AGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVA 183
V C + G+PP I W K+ ++ D+ I ++ +L+I + G YTC A
Sbjct: 684 IEVSCTAS-GNPPPQIMWFKDNETLVEDSGIVLKDGNR---NLTIRRVRKEDEGLYTCQA 739
Query: 184 SNTV 187
+ +
Sbjct: 740 CSVL 743
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 57/271 (21%), Positives = 100/271 (36%), Gaps = 55/271 (20%)
Query: 23 KCIATGNPTPHISWKLDGYPLAGDRFVMG--QYMSLHGD--VISHVNISSVRVEDSGIYQ 78
+ ++ NP P W+ G++ + Q+ + G +S + I + V S +Y+
Sbjct: 472 QAVSVTNPYPCEEWRSVEDFQGGNKIEVNKNQFALIEGKNKTVSTLVIQAANV--SALYK 529
Query: 79 CTATNRVGSQTHSADMRVYDAPG---QPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDP 135
C A N+VG V P QP D++ S S+ + DR+ +
Sbjct: 530 CEAVNKVGRGERVISFHVTRGPEITLQP-DMQPTEQESVSLWC-TADRSTFE-------- 579
Query: 136 PLTISWLKNG---LPILSDAEITIRSSGEYTSSLSIATLSTGHSGNY-TCVASNTVASDN 191
++W K G LPI + L T N T N N
Sbjct: 580 --NLTWYKLGPQPLPI------------------HVGELPTPVCKNLDTLWKLNATMFSN 619
Query: 192 HSSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVPPHIGPFTFGEL 251
++++ + E ++ S G+Y C+A + H ++ V + P G L
Sbjct: 620 STNDILIMELKNA------SLQDQGDYVCLAQDRKTKKRHCVVRQLTVLERVAPTITGNL 673
Query: 252 ME-----GVRTQVACVVQSGDLPLSLQWYKN 277
G +V+C SG+ P + W+K+
Sbjct: 674 ENQTTSIGESIEVSCTA-SGNPPPQIMWFKD 703
Score = 32.0 bits (71), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 59/275 (21%), Positives = 95/275 (34%), Gaps = 45/275 (16%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGI 76
G V + G P P I W +G PL + + G V++ + +S D+G
Sbjct: 345 GERVRIPAKYLGYPPPEIKWYKNGIPLESNHTIKA------GHVLTIMEVSE---RDTGN 395
Query: 77 YQCTATNRVG--SQTHSADMRVYDAP--GQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTK 132
Y TN + Q+H + VY P G+ + V S G + C V
Sbjct: 396 YTVILTNPISKEKQSHVVSLVVYVPPQIGEKSLISPVDS------YQYGTTQTLTCTVYA 449
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
PP I W ++ + E + ++S+ + Y C +V
Sbjct: 450 IPPPHHIHWY---------WQLEEECANEPSQAVSV-------TNPYPCEEWRSVEDFQG 493
Query: 193 SSNLRVNEYTSSL------SIATL---STGHSGNYTCVASNTVASDNHSSNLRVNVPPHI 243
+ + VN+ +L +++TL + S Y C A N V + V P I
Sbjct: 494 GNKIEVNKNQFALIEGKNKTVSTLVIQAANVSALYKCEAVNKVGRGERVISFHVTRGPEI 553
Query: 244 GPFTFGELMEGVRTQVACVVQSGDLPLSLQWYKNG 278
+ E + C +L WYK G
Sbjct: 554 TLQPDMQPTEQESVSLWCTADRSTFE-NLTWYKLG 587
>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 = 51.2 bits (121), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 51/195 (26%), Positives = 84/195 (43%), Gaps = 28/195 (14%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG-QYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A GNP P + W +G + + G + + H +I + SV D G Y
Sbjct: 37 VKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLI----MESVVPSDKGNYT 92
Query: 79 CTATNRVGSQTHSADMRVYD-APGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPL 137
C N GS H+ + V + +P +P + +N+ + V GD V + + P
Sbjct: 93 CVVENEYGSINHTYHLDVVERSPHRPILQAGLPANAST--VVGGDVEFVCKVYSDAQP-- 148
Query: 138 TISWLK-----------NGLPILSDAEITIRSSGEYTSS---LSIATLSTGHSGNYTCVA 183
I W+K +GLP L ++ SG +S+ L++ ++ +G Y C
Sbjct: 149 HIQWIKHVEKNGSKYGPDGLPYLK----VLKHSGINSSNAEVLALFNVTEADAGEYICKV 204
Query: 184 SNTVASDNHSSNLRV 198
SN + N S+ L V
Sbjct: 205 SNYIGQANQSAWLTV 219
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 40/94 (42%), Gaps = 2/94 (2%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P T+ WLKNG + I SL + ++ GNYTCV N S NH
Sbjct: 45 GNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINH 104
Query: 193 SSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTV 226
+ +L V E + I L G N + V V
Sbjct: 105 TYHLDVVERSPHRPI--LQAGLPANASTVVGGDV 136
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 204 SLSIATLSTGHSGNYTCVASNTVASDNHSSNLRV 237
SL + ++ GNYTCV N S NH+ +L V
Sbjct: 77 SLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 110
>pdb|3S97|C Chain C, Ptprz Cntn1 Complex
pdb|3S97|D Chain D, Ptprz Cntn1 Complex
Length = 201
Score = 50.8 bits (120), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 30/80 (37%), Positives = 41/80 (51%), Gaps = 14/80 (17%)
Query: 20 VSLKCIATGNPTPHISWK--LDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIY 77
V+L+C A GNP P I W+ L+ P + +S G V+ NI ++ED GIY
Sbjct: 131 VTLECFALGNPVPDIRWRKVLEPMPSTAE-------ISTSGAVLKIFNI---QLEDEGIY 180
Query: 78 QCTATNRVGSQTHSADMRVY 97
+C A N G H A R+Y
Sbjct: 181 ECEAENIRGKDKHQA--RIY 198
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 38/170 (22%), Positives = 65/170 (38%), Gaps = 19/170 (11%)
Query: 36 WKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATN-RVGSQTHSADM 94
W L+ +P+ F+ ++ I++V D G Y C ++ + S +
Sbjct: 44 WLLNEFPV----FITMDKRRFVSQTNGNLYIANVEASDKGNYSCFVSSPSITKSVFSKFI 99
Query: 95 RVYDAPGQ-----PQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPIL 149
+ P + P D+ + + G ++C G+P I W K P+
Sbjct: 100 PLIPIPERTTKPYPADI---VVQFKDVYALMGQNVTLECFAL-GNPVPDIRWRKVLEPMP 155
Query: 150 SDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVN 199
S AEI+ +SG + L I + G Y C A N D H + + V
Sbjct: 156 STAEIS--TSG---AVLKIFNIQLEDEGIYECEAENIRGKDKHQARIYVQ 200
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 30/76 (39%), Gaps = 12/76 (15%)
Query: 115 SIKVHSGDRAGVQCLVTKGDPP------LTISWLKNGLPILSDAEITIRSSGEYTSSLSI 168
++V G + C DPP L+ WL N P+ + R + +L I
Sbjct: 17 EVRVKEGKGMVLLC-----DPPYHFPDDLSYRWLLNEFPVFITMD-KRRFVSQTNGNLYI 70
Query: 169 ATLSTGHSGNYTCVAS 184
A + GNY+C S
Sbjct: 71 ANVEASDKGNYSCFVS 86
>pdb|2XY1|A Chain A, Crystal Structure Of Ncam2 Ig3-4
Length = 192
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 51/207 (24%), Positives = 91/207 (43%), Gaps = 28/207 (13%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDV 60
S PQ K T + G ++ C A+G+P P ISW +G + + +Y+ L G
Sbjct: 6 SMPQ---KSFNATAERGEEMTFSCRASGSPEPAISWFRNGKLIEENE----KYI-LKGSN 57
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS 120
+ + + ++ D G Y C ATN+ G A ++V+ QP ++L + +
Sbjct: 58 -TELTVRNIINSDGGPYVCRATNKAGEDEKQAFLQVF---VQPHIIQLKNETT-----YE 108
Query: 121 GDRAGVQCLVTKGDPPLTISWLK--NGLPILS-----DAEITIRSSGEY-TSSLSIATLS 172
+ + C +G+P I+W + +G D I ++ G++ +SSL I +
Sbjct: 109 NGQVTLVC-DAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVK--GQHGSSSLHIKDVK 165
Query: 173 TGHSGNYTCVASNTVASDNHSSNLRVN 199
SG Y C A++ + S L +
Sbjct: 166 LSDSGRYDCEAASRIGGHQKSMYLDIE 192
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 24/104 (23%), Positives = 42/104 (40%), Gaps = 4/104 (3%)
Query: 118 VHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSG 177
G+ C + G P ISW +NG I + + ++ S + L++ + G
Sbjct: 16 AERGEEMTFSCRAS-GSPEPAISWFRNGKLIEENEKYILKGS---NTELTVRNIINSDGG 71
Query: 178 NYTCVASNTVASDNHSSNLRVNEYTSSLSIATLSTGHSGNYTCV 221
Y C A+N D + L+V + + +T +G T V
Sbjct: 72 PYVCRATNKAGEDEKQAFLQVFVQPHIIQLKNETTYENGQVTLV 115
Score = 34.3 bits (77), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 28/132 (21%), Positives = 52/132 (39%), Gaps = 13/132 (9%)
Query: 169 ATLSTGHSGNYTCVASNT----VASDNHSSNLRVNEY------TSSLSIATLSTGHSGNY 218
AT G ++C AS + ++ + + NE + L++ + G Y
Sbjct: 14 ATAERGEEMTFSCRASGSPEPAISWFRNGKLIEENEKYILKGSNTELTVRNIINSDGGPY 73
Query: 219 TCVASNTVASDNHSSNLRVNVPPHIGPFTFGELMEGVRTQVACVVQSGDLPLSLQWYK-- 276
C A+N D + L+V V PHI E + + C + +P + W +
Sbjct: 74 VCRATNKAGEDEKQAFLQVFVQPHIIQLKNETTYENGQVTLVCDAEGEPIP-EITWKRAV 132
Query: 277 NGLAISQPDISI 288
+G ++ D S+
Sbjct: 133 DGFTFTEGDKSL 144
>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 = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 50/186 (26%), Positives = 72/186 (38%), Gaps = 35/186 (18%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG---QYMSLHGDVISHVN----ISSVRVE 72
+SL C A G P P W +F+ G + + D + V+ I VE
Sbjct: 236 ISLLCPAQGFPAPSFRWY---------KFIEGTTRKQAVVLNDRVKQVSGTLIIKDAVVE 286
Query: 73 DSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTK 132
DSG Y C N VG ++ + V P K+ + + V G A C T
Sbjct: 287 DSGKYLCVVNNSVGGESVETVLTV----TAPLSAKI---DPPTQTVDFGRPAVFTCQYT- 338
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P T+SW+K+G I G S L I ++ G Y C N S
Sbjct: 339 GNPIKTVSWMKDGKAI-----------GHSESVLRIESVKKEDKGMYQCFVRNDRESAEA 387
Query: 193 SSNLRV 198
S+ L++
Sbjct: 388 SAELKL 393
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 38/85 (44%), Gaps = 14/85 (16%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRV 71
QT+ G P C TGNP +SW DG + G S + I SV+
Sbjct: 323 QTVDFGRPAVFTCQYTGNPIKTVSWMKDGKAI--------------GHSESVLRIESVKK 368
Query: 72 EDSGIYQCTATNRVGSQTHSADMRV 96
ED G+YQC N S SA++++
Sbjct: 369 EDKGMYQCFVRNDRESAEASAELKL 393
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 42/89 (47%), Gaps = 4/89 (4%)
Query: 195 NLRVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVP--PHIGPFTFGELM 252
N RV + + +L I SG Y CV +N+V ++ + L V P I P T + +
Sbjct: 268 NDRVKQVSGTLIIKDAVVEDSGKYLCVVNNSVGGESVETVLTVTAPLSAKIDPPT--QTV 325
Query: 253 EGVRTQVACVVQSGDLPLSLQWYKNGLAI 281
+ R V +G+ ++ W K+G AI
Sbjct: 326 DFGRPAVFTCQYTGNPIKTVSWMKDGKAI 354
Score = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 40/156 (25%), Positives = 59/156 (37%), Gaps = 22/156 (14%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVE-DSGIYQC 79
++C A+GNP P I W GD + Q S V R E + +Y C
Sbjct: 29 EIECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGKLVFPPFRAEDYRQEVHAQVYAC 88
Query: 80 TATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTK--GDPPL 137
A N+ GS S D+ V Q + + + V G+ A ++CL+ D
Sbjct: 89 LARNQFGS-IISRDVHVRAVVAQYYEADVNKEH-----VIRGNSAVIKCLIPSFVADFVE 142
Query: 138 TISW----LKNGLP---------ILSDAEITIRSSG 160
+SW +N P +L E+ IR G
Sbjct: 143 VVSWHTDEEENYFPGAEYDGKYLVLPSGELHIREVG 178
>pdb|2V5M|A Chain A, Structural Basis For Dscam Isoform Specificity
Length = 388
Score = 50.1 bits (118), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 54/203 (26%), Positives = 79/203 (38%), Gaps = 37/203 (18%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMG---QYMSLHGD 59
P L+ K ++ L +SL C A G P P W +F+ G + + D
Sbjct: 215 PALVQKPLE--LMVAHTISLLCPAQGFPAPSFRWY---------KFIEGTTRKQAVVLND 263
Query: 60 VISHVN----ISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRS 115
+ V+ I VEDSG Y C N VG ++ + V P K+ + +
Sbjct: 264 RVKQVSGTLIIKDAVVEDSGKYLCVVNNSVGGESVETVLTV----TAPLSAKI---DPPT 316
Query: 116 IKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGH 175
V G A C T G+P T+SW+K+G I G S L I ++
Sbjct: 317 QTVDFGRPAVFTCQYT-GNPIKTVSWMKDGKAI-----------GHSESVLRIESVKKED 364
Query: 176 SGNYTCVASNTVASDNHSSNLRV 198
G Y C N S S+ L++
Sbjct: 365 KGMYQCFVRNDRESAEASAELKL 387
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 42/89 (47%), Gaps = 4/89 (4%)
Query: 195 NLRVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVP--PHIGPFTFGELM 252
N RV + + +L I SG Y CV +N+V ++ + L V P I P T + +
Sbjct: 262 NDRVKQVSGTLIIKDAVVEDSGKYLCVVNNSVGGESVETVLTVTAPLSAKIDPPT--QTV 319
Query: 253 EGVRTQVACVVQSGDLPLSLQWYKNGLAI 281
+ R V +G+ ++ W K+G AI
Sbjct: 320 DFGRPAVFTCQYTGNPIKTVSWMKDGKAI 348
Score = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 40/156 (25%), Positives = 59/156 (37%), Gaps = 22/156 (14%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVE-DSGIYQC 79
++C A+GNP P I W GD + Q S V R E + +Y C
Sbjct: 23 EIECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGKLVFPPFRAEDYRQEVHAQVYAC 82
Query: 80 TATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTK--GDPPL 137
A N+ GS S D+ V Q + + + V G+ A ++CL+ D
Sbjct: 83 LARNQFGS-IISRDVHVRAVVAQYYEADVNKEH-----VIRGNSAVIKCLIPSFVADFVE 136
Query: 138 TISW----LKNGLP---------ILSDAEITIRSSG 160
+SW +N P +L E+ IR G
Sbjct: 137 VVSWHTDEEENYFPGAEYDGKYLVLPSGELHIREVG 172
>pdb|3O3U|N Chain N, Crystal Structure Of Human Receptor For Advanced Glycation
Endproducts (Rage)
Length = 581
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 41/153 (26%), Positives = 72/153 (47%), Gaps = 22/153 (14%)
Query: 13 TLQPGPPVSLKCI-ATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHG----DVISHV--- 64
T + G P+ LKC A P + WKL+ R + +S G D ++ V
Sbjct: 377 TARIGEPLVLKCKGAPKKPPQRLEWKLNT-----GRTEAWKVLSPQGGGPWDSVARVLPN 431
Query: 65 ---NISSVRVEDSGIYQCTATNRVGSQTHS-ADMRVYDAPGQPQDVKLVTSNSRSIKVHS 120
+ +V ++D GI++C A NR G +T S +RVY PG+P+ + ++ +
Sbjct: 432 GSLFLPAVGIQDEGIFRCQAMNRNGKETKSNYRVRVYQIPGKPE----IVDSASELTAGV 487
Query: 121 GDRAGVQCLVTKGDPPLTISWLKNGLPILSDAE 153
++ G C+ P T+SW +G P++ + +
Sbjct: 488 PNKVGT-CVSEGSYPAGTLSWHLDGKPLVPNEK 519
>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 = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 48/193 (24%), Positives = 83/193 (43%), Gaps = 22/193 (11%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG-QYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A GNP P + W +G + + G + + H +I + SV D G Y
Sbjct: 29 VKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLI----MESVVPSDKGNYT 84
Query: 79 CTATNRVGSQTHSADMRVYD-APGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPL 137
C N GS H+ + V + + +P + +N+ ++ GD V + + P
Sbjct: 85 CVVENEYGSINHTYHLDVVERSRHRPILQAGLPANASTVV--GGDVEFVCKVYSDAQP-- 140
Query: 138 TISWLK-----------NGLPILSDAEIT-IRSSGEYTSSLSIATLSTGHSGNYTCVASN 185
I W+K +GLP L + + ++ + L I ++ +G YTC+A N
Sbjct: 141 HIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEYTCLAGN 200
Query: 186 TVASDNHSSNLRV 198
++ HS+ L V
Sbjct: 201 SIGISFHSAWLTV 213
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 40/94 (42%), Gaps = 2/94 (2%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P T+ WLKNG + I SL + ++ GNYTCV N S NH
Sbjct: 37 GNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINH 96
Query: 193 SSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTV 226
+ +L V E + I L G N + V V
Sbjct: 97 TYHLDVVERSRHRPI--LQAGLPANASTVVGGDV 128
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 39/95 (41%), Gaps = 9/95 (9%)
Query: 17 GPPVSLKCIATGNPTPHISW----KLDGYPLAGDRFVMGQYMSLHG-----DVISHVNIS 67
G V C + PHI W + +G D + + G I + I
Sbjct: 125 GGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIR 184
Query: 68 SVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQ 102
+V ED+G Y C A N +G HSA + V APG+
Sbjct: 185 NVTFEDAGEYTCLAGNSIGISFHSAWLTVLPAPGR 219
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 204 SLSIATLSTGHSGNYTCVASNTVASDNHSSNLRV 237
SL + ++ GNYTCV N S NH+ +L V
Sbjct: 69 SLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 102
>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 = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 49/193 (25%), Positives = 83/193 (43%), Gaps = 22/193 (11%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG-QYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A GNP P + W +G + + G + + H +I + SV D G Y
Sbjct: 27 VKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLI----MESVVPSDKGNYT 82
Query: 79 CTATNRVGSQTHSADMRVYD-APGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPL 137
C N GS H+ + V + + +P + +N+ + V GD V + + P
Sbjct: 83 CVVENEYGSINHTYHLDVVERSRHRPILQAGLPANAST--VVGGDVEFVCKVYSDAQP-- 138
Query: 138 TISWLK-----------NGLPILSDAEIT-IRSSGEYTSSLSIATLSTGHSGNYTCVASN 185
I W+K +GLP L + + ++ + L I ++ +G YTC+A N
Sbjct: 139 HIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEYTCLAGN 198
Query: 186 TVASDNHSSNLRV 198
++ HS+ L V
Sbjct: 199 SIGISFHSAWLTV 211
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 40/94 (42%), Gaps = 2/94 (2%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P T+ WLKNG + I SL + ++ GNYTCV N S NH
Sbjct: 35 GNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINH 94
Query: 193 SSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTV 226
+ +L V E + I L G N + V V
Sbjct: 95 TYHLDVVERSRHRPI--LQAGLPANASTVVGGDV 126
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 41/98 (41%), Gaps = 9/98 (9%)
Query: 17 GPPVSLKCIATGNPTPHISW----KLDGYPLAGDRFVMGQYMSLHG-----DVISHVNIS 67
G V C + PHI W + +G D + + G I + I
Sbjct: 123 GGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIR 182
Query: 68 SVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQD 105
+V ED+G Y C A N +G HSA + V APG+ ++
Sbjct: 183 NVTFEDAGEYTCLAGNSIGISFHSAWLTVLPAPGREKE 220
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 204 SLSIATLSTGHSGNYTCVASNTVASDNHSSNLRV 237
SL + ++ GNYTCV N S NH+ +L V
Sbjct: 67 SLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 100
>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 = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 68/149 (45%), Gaps = 22/149 (14%)
Query: 17 GPPVSLKCI-ATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHG----DVISHV------N 65
G P+ LKC A P + WKL+ R + +S G D ++ V
Sbjct: 13 GEPLVLKCKGAPKKPPQRLEWKLNT-----GRTEAWKVLSPQGGGPWDSVARVLPNGSLF 67
Query: 66 ISSVRVEDSGIYQCTATNRVGSQTHSA-DMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRA 124
+ +V ++D GI++C A NR G +T S +RVY PG+P+ V + + + G
Sbjct: 68 LPAVGIQDEGIFRCQAMNRNGKETKSNYRVRVYQIPGKPEIVDSASELTAGVPNKVGT-- 125
Query: 125 GVQCLVTKGDPPLTISWLKNGLPILSDAE 153
C+ P T+SW +G P++ + +
Sbjct: 126 ---CVSEGSYPAGTLSWHLDGKPLVPNEK 151
>pdb|3CJJ|A Chain A, Crystal Structure Of Human Rage Ligand-Binding Domain
Length = 219
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 41/149 (27%), Positives = 68/149 (45%), Gaps = 22/149 (14%)
Query: 17 GPPVSLKCI-ATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHG----DVISHV------N 65
G P+ LKC A P + WKL+ R + +S G D ++ V
Sbjct: 10 GEPLVLKCKGAPKKPPQRLEWKLNT-----GRTEAWKVLSPQGGGPWDSVARVLPNGSLF 64
Query: 66 ISSVRVEDSGIYQCTATNRVGSQTHS-ADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRA 124
+ +V ++D GI++C A NR G +T S +RVY PG+P+ V + + + G
Sbjct: 65 LPAVGIQDEGIFRCQAMNRNGKETKSNYRVRVYQIPGKPEIVDSASELTAGVPNKVGT-- 122
Query: 125 GVQCLVTKGDPPLTISWLKNGLPILSDAE 153
C+ P T+SW +G P++ + +
Sbjct: 123 ---CVSEGSYPAGTLSWHLDGKPLVPNEK 148
>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 = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 42/129 (32%), Positives = 53/129 (41%), Gaps = 14/129 (10%)
Query: 72 EDSGIYQCTATNRVGS-QTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLV 130
ED G+Y C N VG Q HS + V AP Q + V I V G + C V
Sbjct: 280 EDEGVYTCEVDNGVGKPQKHSLKLTVVSAPKYEQKPEKV------IVVKQGQDVTIPCKV 333
Query: 131 TKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASD 190
T G P + W N P LS T+ SG L I + G G Y C A+N
Sbjct: 334 T-GLPAPNVVWSHNAKP-LSGGRATVTDSG-----LVIKGVKNGDKGYYGCRATNEHGDK 386
Query: 191 NHSSNLRVN 199
+ ++VN
Sbjct: 387 YFETLVQVN 395
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 35/75 (46%), Gaps = 9/75 (12%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVED 73
++ G V++ C TG P P++ W + PL+G R + S + I V+ D
Sbjct: 321 VKQGQDVTIPCKVTGLPAPNVVWSHNAKPLSGGRATVTD---------SGLVIKGVKNGD 371
Query: 74 SGIYQCTATNRVGSQ 88
G Y C ATN G +
Sbjct: 372 KGYYGCRATNEHGDK 386
>pdb|1NUN|B Chain B, Crystal Structure Analysis Of The Fgf10-fgfr2b Complex
Length = 230
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 51/195 (26%), Positives = 82/195 (42%), Gaps = 28/195 (14%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG-QYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A GNP P W +G + + G + + H +I SV D G Y
Sbjct: 36 VKFRCPAGGNPXPTXRWLKNGKEFKQEHRIGGYKVRNQHWSLIX----ESVVPSDKGNYT 91
Query: 79 CTATNRVGSQTHSADMRVYD-APGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPL 137
C N GS H+ + V + +P +P + +N+ + V GD V + + P
Sbjct: 92 CVVENEYGSINHTYHLDVVERSPHRPILQAGLPANAST--VVGGDVEFVCKVYSDAQP-- 147
Query: 138 TISWLK-----------NGLPILSDAEITIRSSGEYTSS---LSIATLSTGHSGNYTCVA 183
I W+K +GLP L ++ SG +S+ L++ ++ +G Y C
Sbjct: 148 HIQWIKHVEKNGSKYGPDGLPYLK----VLKHSGINSSNAEVLALFNVTEADAGEYICKV 203
Query: 184 SNTVASDNHSSNLRV 198
SN + N S+ L V
Sbjct: 204 SNYIGQANQSAWLTV 218
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 38/94 (40%), Gaps = 2/94 (2%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P T WLKNG + I SL ++ GNYTCV N S NH
Sbjct: 44 GNPXPTXRWLKNGKEFKQEHRIGGYKVRNQHWSLIXESVVPSDKGNYTCVVENEYGSINH 103
Query: 193 SSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTV 226
+ +L V E + I L G N + V V
Sbjct: 104 TYHLDVVERSPHRPI--LQAGLPANASTVVGGDV 135
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 32/79 (40%), Gaps = 7/79 (8%)
Query: 204 SLSIATLSTGHSGNYTCVASNTVASDNHSSNLR-VNVPPHIGPFTFG-----ELMEGVRT 257
SL ++ GNYTCV N S NH+ +L V PH G + G
Sbjct: 76 SLIXESVVPSDKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANASTVVGGDV 135
Query: 258 QVACVVQSGDLPLSLQWYK 276
+ C V S P +QW K
Sbjct: 136 EFVCKVYSDAQP-HIQWIK 153
>pdb|1QZ1|A Chain A, Crystal Structure Of The Ig 1-2-3 Fragment Of Ncam
Length = 291
Score = 48.5 bits (114), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 39/89 (43%), Gaps = 2/89 (2%)
Query: 9 FIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISS 68
+ T G V+L C A G P P +SW DG P+ + + D S + I +
Sbjct: 203 IVNATANLGQSVTLVCDADGFPEPTMSWTKDGEPIENEE--EDDEKHIFSDDSSELTIRN 260
Query: 69 VRVEDSGIYQCTATNRVGSQTHSADMRVY 97
V D Y C A N+ G Q S ++V+
Sbjct: 261 VDKNDEAEYVCIAENKAGEQDASIHLKVF 289
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 41/189 (21%), Positives = 80/189 (42%), Gaps = 12/189 (6%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRV 71
Q + G + C + P I WK G + + V +++ L +++ I ++
Sbjct: 110 QEFKEGEDAVIVCDVVSSLPPTIIWKHKGRDVILKKDV--RFIVLSN---NYLQIRGIKK 164
Query: 72 EDSGIYQCTATNRVGSQTHSADMRV-YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLV 130
D G Y+C + + D++V + P Q + + + + ++ G + C
Sbjct: 165 TDEGTYRCEGRILARGEINFKDIQVIVNVPPTVQARQSIVNATANL----GQSVTLVCD- 219
Query: 131 TKGDPPLTISWLKNGLPILSDAEITIRS-SGEYTSSLSIATLSTGHSGNYTCVASNTVAS 189
G P T+SW K+G PI ++ E + + +S L+I + Y C+A N
Sbjct: 220 ADGFPEPTMSWTKDGEPIENEEEDDEKHIFSDDSSELTIRNVDKNDEAEYVCIAENKAGE 279
Query: 190 DNHSSNLRV 198
+ S +L+V
Sbjct: 280 QDASIHLKV 288
Score = 36.6 bits (83), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 31/123 (25%), Positives = 56/123 (45%), Gaps = 15/123 (12%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHS-ADMRVYDAPGQPQDVKLVTSNSRS-IKVH 119
S + I + ++D+GIY+C T G+Q+ + +++++ KL+ N+ + +
Sbjct: 62 STLTIYNANIDDAGIYKCVVTAEDGTQSEATVNVKIFQ--------KLMFKNAPTPQEFK 113
Query: 120 SGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEIT-IRSSGEYTSSLSIATLSTGHSGN 178
G+ A + C V PP TI W G ++ ++ I S Y L I + G
Sbjct: 114 EGEDAVIVCDVVSSLPP-TIIWKHKGRDVILKKDVRFIVLSNNY---LQIRGIKKTDEGT 169
Query: 179 YTC 181
Y C
Sbjct: 170 YRC 172
>pdb|2EDJ|A Chain A, Solution Structure Of The Fifth Ig-Like Domain From
Human Roundabout Homolog 2
Length = 100
Score = 47.8 bits (112), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 31/99 (31%), Positives = 48/99 (48%), Gaps = 10/99 (10%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGD--RFVMGQYMSLHGDV 60
P ++ QTL LKC ATG+P P ISW +G+ G R + + +L
Sbjct: 9 PIILQGPANQTLAVDGTALLKCKATGDPLPVISWLKEGFTFPGRDPRATIQEQGTLQ--- 65
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDA 99
I ++R+ D+G Y C AT+ G + SA + V ++
Sbjct: 66 -----IKNLRISDTGTYTCVATSSSGETSWSAVLDVTES 99
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 28/76 (36%), Positives = 38/76 (50%), Gaps = 6/76 (7%)
Query: 126 VQCLVTKGDPPLTISWLKNGLPILS-DAEITIRSSGEYTSSLSIATLSTGHSGNYTCVAS 184
++C T GDP ISWLK G D TI+ G +L I L +G YTCVA+
Sbjct: 28 LKCKAT-GDPLPVISWLKEGFTFPGRDPRATIQEQG----TLQIKNLRISDTGTYTCVAT 82
Query: 185 NTVASDNHSSNLRVNE 200
++ + S+ L V E
Sbjct: 83 SSSGETSWSAVLDVTE 98
>pdb|3OJM|B Chain B, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr2b Harboring P253r Apert Mutation
Length = 231
Score = 47.0 bits (110), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 50/195 (25%), Positives = 83/195 (42%), Gaps = 28/195 (14%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG-QYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A GNP P + W +G + + G + + H +I + SV D G Y
Sbjct: 37 VKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLI----MESVVPSDKGNYT 92
Query: 79 CTATNRVGSQTHSADMRVYD-APGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPL 137
C N GS H+ + V + + +P + +N+ + V GD V + + P
Sbjct: 93 CVVENEYGSINHTYHLDVVERSRHRPILQAGLPANAST--VVGGDVEFVCKVYSDAQP-- 148
Query: 138 TISWLK-----------NGLPILSDAEITIRSSGEYTSS---LSIATLSTGHSGNYTCVA 183
I W+K +GLP L ++ SG +S+ L++ ++ +G Y C
Sbjct: 149 HIQWIKHVEKNGSKYGPDGLPYLK----VLKHSGINSSNAEVLALFNVTEADAGEYICKV 204
Query: 184 SNTVASDNHSSNLRV 198
SN + N S+ L V
Sbjct: 205 SNYIGQANQSAWLTV 219
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 40/94 (42%), Gaps = 2/94 (2%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P T+ WLKNG + I SL + ++ GNYTCV N S NH
Sbjct: 45 GNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINH 104
Query: 193 SSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTV 226
+ +L V E + I L G N + V V
Sbjct: 105 TYHLDVVERSRHRPI--LQAGLPANASTVVGGDV 136
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 204 SLSIATLSTGHSGNYTCVASNTVASDNHSSNLRV 237
SL + ++ GNYTCV N S NH+ +L V
Sbjct: 77 SLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 110
>pdb|2L7U|A Chain A, Structure Of Cel-Pep-Rage V Domain Complex
Length = 105
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 32/100 (32%), Positives = 49/100 (49%), Gaps = 17/100 (17%)
Query: 17 GPPVSLKCI-ATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHG----DVISHV------N 65
G P+ LKC A P + WKL+ R + +S G D ++ V
Sbjct: 11 GEPLVLKCKGAPKKPPQRLEWKLNT-----GRTEAWKVLSPQGGGPWDSVARVLPNGSLF 65
Query: 66 ISSVRVEDSGIYQCTATNRVGSQTHSA-DMRVYDAPGQPQ 104
+ +V ++D GI++C A NR G +T S +RVY PG+P+
Sbjct: 66 LPAVGIQDEGIFRCQAMNRNGKETKSNYRVRVYQIPGKPE 105
>pdb|3KVQ|A Chain A, Crystal Structure Of Vegfr2 Extracellular Domain D7
Length = 108
Score = 45.4 bits (106), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 38/84 (45%), Gaps = 6/84 (7%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
P + QT G + + C A+GNP P I W D L D ++ + D
Sbjct: 11 PTITGNLENQTTSIGESIEVSCTASGNPPPQIMWFKDNETLVEDSGIVLK------DGNR 64
Query: 63 HVNISSVRVEDSGIYQCTATNRVG 86
++ I VR ED G+Y C A + +G
Sbjct: 65 NLTIRRVRKEDEGLYTCQACSVLG 88
Score = 31.6 bits (70), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 34/75 (45%), Gaps = 4/75 (5%)
Query: 109 VTSNSRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSI 168
+T N + G+ V C + G+PP I W K+ ++ D+ I ++ +L+I
Sbjct: 13 ITGNLENQTTSIGESIEVSCTAS-GNPPPQIMWFKDNETLVEDSGIVLKDGN---RNLTI 68
Query: 169 ATLSTGHSGNYTCVA 183
+ G YTC A
Sbjct: 69 RRVRKEDEGLYTCQA 83
>pdb|2ILL|A Chain A, Anomalous Substructure Of Titin-A168169
Length = 195
Score = 45.1 bits (105), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 43/182 (23%), Positives = 79/182 (43%), Gaps = 13/182 (7%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGD--RFVMGQYMSLHGDVISHVNISSVRVEDSGIYQ 78
+L C TG+P P + W G + D ++ + ++ + +I I+SV +D+ +YQ
Sbjct: 21 TLVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQLI----IASVTDDDATVYQ 76
Query: 79 CTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS--GDRAGVQCLVTKGDPP 136
ATN+ GS + +A + V P + L + VH+ G+ ++ + G P
Sbjct: 77 VRATNQGGSVSGTASLEVE----VPAKIHLPKTLEGMGAVHALRGEVVSIKIPFS-GKPD 131
Query: 137 LTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNL 196
I+W K I ++ + + +TS + + +G Y A N D + L
Sbjct: 132 PVITWQKGQDLIDNNGHYQVIVTRSFTSLVFPNGVERKDAGFYVVCAKNRFGIDQKTVEL 191
Query: 197 RV 198
V
Sbjct: 192 DV 193
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 37/83 (44%), Gaps = 5/83 (6%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSL-HGDVISHVNISSVRVEDSG 75
G VS+K +G P P I+W+ G L + G Y + S V + V +D+G
Sbjct: 117 GEVVSIKIPFSGKPDPVITWQ-KGQDLIDNN---GHYQVIVTRSFTSLVFPNGVERKDAG 172
Query: 76 IYQCTATNRVGSQTHSADMRVYD 98
Y A NR G + ++ V D
Sbjct: 173 FYVVCAKNRFGIDQKTVELDVAD 195
>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 = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 43/194 (22%), Positives = 72/194 (37%), Gaps = 26/194 (13%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISW---KLDGYPLAGDRFVMGQYMSLHGDVISHVNISS 68
Q + G + C + +P P +SW + ++ +RF M +L I+
Sbjct: 108 QEFKQGEDAEVVCRVSSSPAPAVSWLYHNEEVTTISDNRFAMLANNNLQILNINK----- 162
Query: 69 VRVEDSGIYQCTATNRVGSQTHSADMRVY----DAPGQPQDVKLVTSNSRSIKVHSGDRA 124
D GIY+C + D+ V A PQ S + G+
Sbjct: 163 ---SDEGIYRCEGRVEARGEIDFRDIIVIVNVPPAISMPQ-------KSFNATAERGEEM 212
Query: 125 GVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVAS 184
C + G P ISW +NG I + + ++ S + L++ + G Y C A+
Sbjct: 213 TFSCRAS-GSPEPAISWFRNGKLIEENEKYILKGSN---TELTVRNIINSDGGPYVCRAT 268
Query: 185 NTVASDNHSSNLRV 198
N D + L+V
Sbjct: 269 NKAGEDEKQAFLQV 282
Score = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 36/131 (27%), Positives = 58/131 (44%), Gaps = 15/131 (11%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGD-VISHVNISSVRVE 72
L G C A G P +D Y G++ + Q + + + V S + I + +E
Sbjct: 16 LSVGESKFFTCTAIGEPE-----SIDWYNPQGEKIISTQRVVVQKEGVRSRLTIYNANIE 70
Query: 73 DSGIYQCTATNRVG-SQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVT 131
D+GIY+C AT+ G +Q + + +Y Q + V S + G+ A V C V+
Sbjct: 71 DAGIYRCQATDAKGQTQEATVVLEIY----QKLTFREVVSPQ---EFKQGEDAEVVCRVS 123
Query: 132 KGDPPLTISWL 142
P +SWL
Sbjct: 124 SSPAP-AVSWL 133
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 47/97 (48%), Gaps = 9/97 (9%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDV 60
S PQ K T + G ++ C A+G+P P ISW +G + + +Y+ L G
Sbjct: 196 SMPQ---KSFNATAERGEEMTFSCRASGSPEPAISWFRNGKLIEENE----KYI-LKGSN 247
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY 97
+ + + ++ D G Y C ATN+ G A ++V+
Sbjct: 248 -TELTVRNIINSDGGPYVCRATNKAGEDEKQAFLQVF 283
>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 = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 43/182 (23%), Positives = 79/182 (43%), Gaps = 13/182 (7%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGD--RFVMGQYMSLHGDVISHVNISSVRVEDSGIYQ 78
+L C TG+P P + W G + D ++ + ++ + +I I+SV +D+ +YQ
Sbjct: 23 TLVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQLI----IASVTDDDATVYQ 78
Query: 79 CTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS--GDRAGVQCLVTKGDPP 136
ATN+ GS + +A + V P + L + VH+ G+ ++ + G P
Sbjct: 79 VRATNQGGSVSGTASLEVE----VPAKIHLPKTLEGMGAVHALRGEVVSIKIPFS-GKPD 133
Query: 137 LTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNL 196
I+W K I ++ + + +TS + + +G Y A N D + L
Sbjct: 134 PVITWQKGQDLIDNNGHYQVIVTRSFTSLVFPNGVERKDAGFYVVCAKNRFGIDQKTVEL 193
Query: 197 RV 198
V
Sbjct: 194 DV 195
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 37/83 (44%), Gaps = 5/83 (6%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSL-HGDVISHVNISSVRVEDSG 75
G VS+K +G P P I+W+ G L + G Y + S V + V +D+G
Sbjct: 119 GEVVSIKIPFSGKPDPVITWQ-KGQDLIDNN---GHYQVIVTRSFTSLVFPNGVERKDAG 174
Query: 76 IYQCTATNRVGSQTHSADMRVYD 98
Y A NR G + ++ V D
Sbjct: 175 FYVVCAKNRFGIDQKTVELDVAD 197
>pdb|2V5T|A Chain A, Crystal Structure Of Ncam2 Ig2-3
Length = 189
Score = 44.7 bits (104), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 43/194 (22%), Positives = 72/194 (37%), Gaps = 26/194 (13%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISW---KLDGYPLAGDRFVMGQYMSLHGDVISHVNISS 68
Q + G + C + +P P +SW + ++ +RF M +L I+
Sbjct: 12 QEFKQGEDAEVVCRVSSSPAPAVSWLYHNEEVTTISDNRFAMLANNNLQILNINK----- 66
Query: 69 VRVEDSGIYQCTATNRVGSQTHSADM----RVYDAPGQPQDVKLVTSNSRSIKVHSGDRA 124
D GIY+C + D+ V A PQ S + G+
Sbjct: 67 ---SDEGIYRCEGRVEARGEIDFRDIIVIVNVPPAISMPQ-------KSFNATAERGEEM 116
Query: 125 GVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVAS 184
C + G P ISW +NG I + + ++ S + L++ + G Y C A+
Sbjct: 117 TFSCRAS-GSPEPAISWFRNGKLIEENEKYILKGS---NTELTVRNIINSDGGPYVCRAT 172
Query: 185 NTVASDNHSSNLRV 198
N D + L+V
Sbjct: 173 NKAGEDEKQAFLQV 186
Score = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 47/97 (48%), Gaps = 9/97 (9%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDV 60
S PQ K T + G ++ C A+G+P P ISW +G + + +Y+ L G
Sbjct: 100 SMPQ---KSFNATAERGEEMTFSCRASGSPEPAISWFRNGKLIEENE----KYI-LKGSN 151
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY 97
+ + + ++ D G Y C ATN+ G A ++V+
Sbjct: 152 -TELTVRNIINSDGGPYVCRATNKAGEDEKQAFLQVF 187
>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 = 44.3 bits (103), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 43/182 (23%), Positives = 79/182 (43%), Gaps = 13/182 (7%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGD--RFVMGQYMSLHGDVISHVNISSVRVEDSGIYQ 78
+L C TG+P P + W G + D ++ + ++ + +I I+SV +D+ +YQ
Sbjct: 23 TLVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQLI----IASVTDDDATVYQ 78
Query: 79 CTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS--GDRAGVQCLVTKGDPP 136
ATN+ GS + +A + V P + L + VH+ G+ ++ + G P
Sbjct: 79 VRATNQGGSVSGTASLEV----EVPAKIHLPKTLEGMGAVHALRGEVVSIKIPFS-GKPD 133
Query: 137 LTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNL 196
I+W K I ++ + + +TS + + +G Y A N D + L
Sbjct: 134 PVITWQKGQDLIDNNGHYQVIVTRSFTSLVFPNGVERKDAGFYVVCAKNRFGIDQKTVEL 193
Query: 197 RV 198
V
Sbjct: 194 DV 195
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 29/93 (31%), Positives = 43/93 (46%), Gaps = 5/93 (5%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSL-HGDVISHVNISSVRVEDSG 75
G VS+K +G P P I+W+ G L + G Y + S V + V +D+G
Sbjct: 119 GEVVSIKIPFSGKPDPVITWQ-KGQDLIDNN---GHYQVIVTRSFTSLVFPNGVERKDAG 174
Query: 76 IYQCTATNRVGSQTHSADMRVYDAPGQPQDVKL 108
Y A NR G + ++ V D P P+ VK+
Sbjct: 175 FYVVCAKNRFGIDQKTVELDVADVPDPPRGVKV 207
>pdb|3JZ7|A Chain A, Crystal Structure Of The Extracellular Domains Of
Coxsackie & Adenovirus Receptor From Mouse (Mcar)
Length = 214
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 42/167 (25%), Positives = 67/167 (40%), Gaps = 24/167 (14%)
Query: 44 AGDRFVMGQYMSLHGDV----------ISHVNISSVRVEDSGIYQCTATNRVGSQTHSAD 93
+GD+ Y L G V + +N++++++ D G YQC G
Sbjct: 56 SGDKIYDNYYPDLKGRVHFTSNDVKSGDASINVTNLQLSDIGTYQCKVKKAPGVANKKFL 115
Query: 94 MRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAE 153
+ V +P + S I G+ ++C +G PL W K LSD++
Sbjct: 116 LTVL---VKPSGTRCFVDGSEEI----GNDFKLKCEPKEGSLPLQFEWQK-----LSDSQ 163
Query: 154 -ITIRSSGEYTSS-LSIATLSTGHSGNYTCVASNTVASDNHSSNLRV 198
+ E TS +S+ S+ +SG Y+C N V SD L V
Sbjct: 164 TMPTPWLAEMTSPVISVKNASSEYSGTYSCTVQNRVGSDQCMLRLDV 210
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 32/86 (37%), Gaps = 1/86 (1%)
Query: 192 HSSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVPPH-IGPFTFGE 250
H ++ V +S+++ L G Y C N L V V P F G
Sbjct: 73 HFTSNDVKSGDASINVTNLQLSDIGTYQCKVKKAPGVANKKFLLTVLVKPSGTRCFVDGS 132
Query: 251 LMEGVRTQVACVVQSGDLPLSLQWYK 276
G ++ C + G LPL +W K
Sbjct: 133 EEIGNDFKLKCEPKEGSLPLQFEWQK 158
>pdb|3MJ7|B Chain B, Crystal Structure Of The Complex Of Jaml And Coxsackie And
Adenovirus Receptor, Car
Length = 225
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 42/167 (25%), Positives = 67/167 (40%), Gaps = 24/167 (14%)
Query: 44 AGDRFVMGQYMSLHGDV----------ISHVNISSVRVEDSGIYQCTATNRVGSQTHSAD 93
+GD+ Y L G V + +N++++++ D G YQC G
Sbjct: 58 SGDKIYDNYYPDLKGRVHFTSNDVKSGDASINVTNLQLSDIGTYQCKVKKAPGVANKKFL 117
Query: 94 MRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAE 153
+ V +P + S I G+ ++C +G PL W K LSD++
Sbjct: 118 LTVL---VKPSGTRCFVDGSEEI----GNDFKLKCEPKEGSLPLQFEWQK-----LSDSQ 165
Query: 154 -ITIRSSGEYTSS-LSIATLSTGHSGNYTCVASNTVASDNHSSNLRV 198
+ E TS +S+ S+ +SG Y+C N V SD L V
Sbjct: 166 TMPTPWLAEMTSPVISVKNASSEYSGTYSCTVQNRVGSDQCMLRLDV 212
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 32/86 (37%), Gaps = 1/86 (1%)
Query: 192 HSSNLRVNEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVPPH-IGPFTFGE 250
H ++ V +S+++ L G Y C N L V V P F G
Sbjct: 75 HFTSNDVKSGDASINVTNLQLSDIGTYQCKVKKAPGVANKKFLLTVLVKPSGTRCFVDGS 134
Query: 251 LMEGVRTQVACVVQSGDLPLSLQWYK 276
G ++ C + G LPL +W K
Sbjct: 135 EEIGNDFKLKCEPKEGSLPLQFEWQK 160
>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 = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 35/75 (46%), Gaps = 1/75 (1%)
Query: 116 IKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGH 175
+ + G + C V GDPP +SWLKN + SD ++ T+ +I +ST
Sbjct: 232 VTIQEGKALNLTCNVW-GDPPPEVSWLKNEKALASDDHCNLKFEAGRTAYFTINGVSTAD 290
Query: 176 SGNYTCVASNTVASD 190
SG Y V N S+
Sbjct: 291 SGKYGLVVKNKYGSE 305
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 38/85 (44%), Gaps = 3/85 (3%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVE 72
T+Q G ++L C G+P P +SW + LA D + ++ I+ V
Sbjct: 233 TIQEGKALNLTCNVWGDPPPEVSWLKNEKALASDDHCN---LKFEAGRTAYFTINGVSTA 289
Query: 73 DSGIYQCTATNRVGSQTHSADMRVY 97
DSG Y N+ GS+T + V+
Sbjct: 290 DSGKYGLVVKNKYGSETSDFTVSVF 314
>pdb|2FGW|H Chain H, X-Ray Structures Of Fragments From Binding And Nonbinding
Versions Of A Humanized Anti-Cd18 Antibody: Structural
Indications Of The Key Role Of Vh Residues 59 To 65
Length = 232
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 40/152 (26%), Positives = 67/152 (44%), Gaps = 30/152 (19%)
Query: 7 YKFIQQTL---QPGPPVSLKCIATGNP----TPHISWKLDGYPLAGDRFVMGQYMSLHGD 59
Y F + T+ + P L+ +A NP T H +D + ++ D+ YM ++
Sbjct: 27 YTFTEYTMHWMRQAPGKGLEWVAGINPKNGGTSHNQRFMDRFTISVDKSTSTAYMQMN-- 84
Query: 60 VISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR----- 114
S+R ED+ +Y C R + D+R +D GQ V + +++++
Sbjct: 85 --------SLRAEDTAVYYCA---RWRGLNYGFDVRYFDVWGQGTLVTVSSASTKGPSVF 133
Query: 115 ----SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 134 PLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 165
>pdb|2KDG|A Chain A, Solution Structure Of The 1st Ig Domain Of Myotilin
Length = 100
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 42/98 (42%), Gaps = 17/98 (17%)
Query: 8 KFIQ----QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISH 63
+FIQ ++ G + +G P P +SW L+G + D LH ++S
Sbjct: 7 RFIQVPENMSIDEGRFCRMDFKVSGLPAPDVSWYLNGRTVQSD--------DLHKMIVSE 58
Query: 64 VNISS-----VRVEDSGIYQCTATNRVGSQTHSADMRV 96
+ S VR D+G Y C A NR G T + + V
Sbjct: 59 KGLHSLIFEVVRASDAGAYACVAKNRAGEATFTVQLDV 96
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 26/66 (39%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G P +SW NG + SD + S + SL + +G Y CVA N
Sbjct: 31 GLPAPDVSWYLNGRTVQSDDLHKMIVSEKGLHSLIFEVVRASDAGAYACVAKNRAGEATF 90
Query: 193 SSNLRV 198
+ L V
Sbjct: 91 TVQLDV 96
>pdb|1F97|A Chain A, Soluble Part Of The Junction Adhesion Molecule From Mouse
Length = 212
Score = 43.5 bits (101), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 48/180 (26%), Positives = 75/180 (41%), Gaps = 22/180 (12%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI----SHVNISSVRVEDSG 75
+ L C +G +P + WK Q + + D + S + SSV +D+G
Sbjct: 19 IKLTCTYSGFSSPRVEWKFVQGSTTALVCYNSQITAPYADRVTFSSSGITFSSVTRKDNG 78
Query: 76 IYQCTATNRVGSQTH---SADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTK 132
Y C + G Q + S + V P +P S S+ + G+RA + C
Sbjct: 79 EYTCMVSEE-GGQNYGEVSIHLTVLVPPSKP-----TISVPSSVTI--GNRAVLTCSEHD 130
Query: 133 GDPPLTISWLKNGLPIL-SDAEIT---IRSS---GEYTSSLSIATLSTGHSGNYTCVASN 185
G PP SW K+G+ +L +DA+ T + SS + L ++ SG Y C A N
Sbjct: 131 GSPPSEYSWFKDGISMLTADAKKTRAFMNSSFTIDPKSGDLIFDPVTAFDSGEYYCQAQN 190
Score = 32.3 bits (72), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 24/96 (25%), Positives = 43/96 (44%), Gaps = 3/96 (3%)
Query: 197 RVNEYTSSLSIATLSTGHSGNYTCVASNTVASD--NHSSNLRVNVPPHIGPFTF-GELME 253
RV +S ++ ++++ +G YTC+ S + S +L V VPP + +
Sbjct: 59 RVTFSSSGITFSSVTRKDNGEYTCMVSEEGGQNYGEVSIHLTVLVPPSKPTISVPSSVTI 118
Query: 254 GVRTQVACVVQSGDLPLSLQWYKNGLAISQPDISIT 289
G R + C G P W+K+G+++ D T
Sbjct: 119 GNRAVLTCSEHDGSPPSEYSWFKDGISMLTADAKKT 154
>pdb|1IE5|A Chain A, Nmr Structure Of The Third Immunoglobulin Domain From The
Neural Cell Adhesion Molecule
Length = 107
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 35/78 (44%), Gaps = 3/78 (3%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQC 79
V+L C A G P P ++W DG P+ + + G S + I V D Y C
Sbjct: 31 VTLACDADGFPEPTMTWTKDGEPIEQEDNEEKYSFNYDG---SELIIKKVDKSDEAEYIC 87
Query: 80 TATNRVGSQTHSADMRVY 97
A N+ G Q + ++V+
Sbjct: 88 IAENKAGEQDATIHLKVF 105
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/66 (27%), Positives = 28/66 (42%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G P T++W K+G PI + S S L I + Y C+A N +
Sbjct: 39 GFPEPTMTWTKDGEPIEQEDNEEKYSFNYDGSELIIKKVDKSDEAEYICIAENKAGEQDA 98
Query: 193 SSNLRV 198
+ +L+V
Sbjct: 99 TIHLKV 104
>pdb|2XY2|A Chain A, Crystal Structure Of Ncam2 Ig1-2
Length = 189
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 36/139 (25%), Positives = 56/139 (40%), Gaps = 31/139 (22%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGD-VISHVNISSVRVE 72
L G C A G P +D Y G++ + Q + + + V S + I + +E
Sbjct: 14 LSVGESKFFTCTAIGEPES-----IDWYNPQGEKIISTQRVVVQKEGVRSRLTIYNANIE 68
Query: 73 DSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI---------KVHSGDR 123
D+GIY+C AT DA GQ Q+ +V + + + G+
Sbjct: 69 DAGIYRCQAT---------------DAKGQTQEATVVLEIYQKLTFREVVSPQEFKQGED 113
Query: 124 AGVQCLVTKGDPPLTISWL 142
A V C V+ P +SWL
Sbjct: 114 AEVVCRVSSSPAP-AVSWL 131
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 44/87 (50%), Gaps = 2/87 (2%)
Query: 114 RSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLST 173
RS+ V+ G+ A C T G+P T++WL+ G + + A + ++ +Y S+ I+++
Sbjct: 16 RSMTVYEGESARFSCD-TDGEPVPTVTWLRKGQVLSTSARHQV-TTTKYKSTFEISSVQA 73
Query: 174 GHSGNYTCVASNTVASDNHSSNLRVNE 200
GNY+ V N+ L + +
Sbjct: 74 SDEGNYSVVVENSEGKQEAEFTLTIQK 100
Score = 31.2 bits (69), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 27/76 (35%), Gaps = 4/76 (5%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVE 72
T+ G C G P P ++W G L+ ++ S ISSV+
Sbjct: 19 TVYEGESARFSCDTDGEPVPTVTWLRKGQVLS----TSARHQVTTTKYKSTFEISSVQAS 74
Query: 73 DSGIYQCTATNRVGSQ 88
D G Y N G Q
Sbjct: 75 DEGNYSVVVENSEGKQ 90
>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 = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 44/87 (50%), Gaps = 2/87 (2%)
Query: 114 RSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLST 173
RS+ V+ G+ A C T G+P T++WL+ G + + A + ++ +Y S+ I+++
Sbjct: 22 RSMTVYEGESARFSC-DTDGEPVPTVTWLRKGQVLSTSARHQV-TTTKYKSTFEISSVQA 79
Query: 174 GHSGNYTCVASNTVASDNHSSNLRVNE 200
GNY+ V N+ L + +
Sbjct: 80 SDEGNYSVVVENSEGKQEAEFTLTIQK 106
Score = 31.2 bits (69), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 27/76 (35%), Gaps = 4/76 (5%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVE 72
T+ G C G P P ++W G L+ ++ S ISSV+
Sbjct: 25 TVYEGESARFSCDTDGEPVPTVTWLRKGQVLS----TSARHQVTTTKYKSTFEISSVQAS 80
Query: 73 DSGIYQCTATNRVGSQ 88
D G Y N G Q
Sbjct: 81 DEGNYSVVVENSEGKQ 96
>pdb|2EO9|A Chain A, Solution Structure Of The Fifth Ig-Like Domain From Human
Roundabout Homo1
Length = 118
Score = 42.0 bits (97), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 45/95 (47%), Gaps = 11/95 (11%)
Query: 22 LKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTA 81
L C+ATG+P P I W+ DG ++ + Q L V+ I ++ D+G Y C A
Sbjct: 28 LSCVATGSPVPTILWRKDGVLVSTQDSRIKQ---LENGVL---QIRYAKLGDTGRYTCIA 81
Query: 82 TNRVGSQTHSADMRVYD-----APGQPQDVKLVTS 111
+ G T SA + V + P +P D L+ S
Sbjct: 82 STPSGEATWSAYIEVQEFGVPVQPPRPTDPNLIPS 116
Score = 33.9 bits (76), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 128 CLVTKGDPPLTISWLKNGLPI-LSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNT 186
C+ T G P TI W K+G+ + D+ I +G L I G +G YTC+AS
Sbjct: 30 CVAT-GSPVPTILWRKDGVLVSTQDSRIKQLENG----VLQIRYAKLGDTGRYTCIASTP 84
Query: 187 VASDNHSSNLRVNEY 201
S+ + V E+
Sbjct: 85 SGEATWSAYIEVQEF 99
>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 = 41.6 bits (96), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 31/66 (46%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P T+ WLKNG + I SL + ++ GNYTCV N S NH
Sbjct: 34 GNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINH 93
Query: 193 SSNLRV 198
+ +L V
Sbjct: 94 TYHLDV 99
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 34/78 (43%), Gaps = 5/78 (6%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG-QYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A GNP P + W +G + + G + + H +I + SV D G Y
Sbjct: 26 VKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLI----MESVVPSDKGNYT 81
Query: 79 CTATNRVGSQTHSADMRV 96
C N GS H+ + V
Sbjct: 82 CVVENEYGSINHTYHLDV 99
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 204 SLSIATLSTGHSGNYTCVASNTVASDNHSSNLRV 237
SL + ++ GNYTCV N S NH+ +L V
Sbjct: 66 SLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 99
>pdb|2EC8|A Chain A, Crystal Structure Of The Exctracellular Domain Of The
Receptor Tyrosine Kinase, Kit
Length = 524
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 43/175 (24%), Positives = 68/175 (38%), Gaps = 15/175 (8%)
Query: 57 HGDV----ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
HGD + + ISS RV DSG++ C A N GS + + V D + +
Sbjct: 264 HGDFNYERQATLTISSARVNDSGVFMCYANNTFGSANVTTTLEVVDKGF----INIFPMI 319
Query: 113 SRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGE----YTSSLSI 168
+ ++ V+ G+ + P W+ E +S E Y S L +
Sbjct: 320 NTTVFVNDGENVDLIVEYEAFPKPEHQQWIYMNRTFTDKWEDYPKSENESNIRYVSELHL 379
Query: 169 ATLSTGHSGNYTCVASNTVASDNHSSNLRVNEYTSSLSIATLSTGHSGNYTCVAS 223
L G YT + SN+ + + N+ VN + I T +G CVA+
Sbjct: 380 TRLKGTEGGTYTFLVSNSDVNAAIAFNVYVN---TKPEILTYDRLVNGMLQCVAA 431
Score = 32.3 bits (72), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 42/194 (21%), Positives = 78/194 (40%), Gaps = 24/194 (12%)
Query: 103 PQDVKLVTSNSRSIKVHSGDRA----GVQCLV-TKGDPPLTISWLKNGLPIL-------- 149
P+D++ + I + S RA + C V +G L+ ++ P
Sbjct: 157 PKDLRFIPDPKAGIMIKSVKRAYHRLCLHCSVDQEGKSVLSEKFILKVRPAFKAVPVVSV 216
Query: 150 SDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVN---EYTSSLS 206
S A +R E+T + +I +S+ + S T + ++S + E ++L+
Sbjct: 217 SKASYLLREGEEFTVTCTIKDVSSSVYSTWKRENSQTKLQEKYNSWHHGDFNYERQATLT 276
Query: 207 IATLSTGHSGNYTCVASNTVASDNHSSNLRV------NVPPHIGPFTFGELMEGVRTQVA 260
I++ SG + C A+NT S N ++ L V N+ P I F + +G +
Sbjct: 277 ISSARVNDSGVFMCYANNTFGSANVTTTLEVVDKGFINIFPMINTTVF--VNDGENVDLI 334
Query: 261 CVVQSGDLPLSLQW 274
++ P QW
Sbjct: 335 VEYEAFPKPEHQQW 348
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 29/74 (39%), Gaps = 8/74 (10%)
Query: 22 LKCIATGNPTPHISW--------KLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVED 73
L+C+A G P P I W + L D + G ++ +I S +
Sbjct: 426 LQCVAAGFPEPTIDWYFCPGTEQRCSASVLPVDVQTLNSSGPPFGKLVVQSSIDSSAFKH 485
Query: 74 SGIYQCTATNRVGS 87
+G +C A N VG
Sbjct: 486 NGTVECKAYNDVGK 499
>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 = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 31/66 (46%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P T+ WLKNG + I SL + ++ GNYTCV N S NH
Sbjct: 39 GNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINH 98
Query: 193 SSNLRV 198
+ +L V
Sbjct: 99 TYHLDV 104
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 34/78 (43%), Gaps = 5/78 (6%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG-QYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A GNP P + W +G + + G + + H +I + SV D G Y
Sbjct: 31 VKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLI----MESVVPSDKGNYT 86
Query: 79 CTATNRVGSQTHSADMRV 96
C N GS H+ + V
Sbjct: 87 CVVENEYGSINHTYHLDV 104
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 204 SLSIATLSTGHSGNYTCVASNTVASDNHSSNLRV 237
SL + ++ GNYTCV N S NH+ +L V
Sbjct: 71 SLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 104
>pdb|2E9W|A Chain A, Crystal Structure Of The Extracellular Domain Of Kit In
Complex With Stem Cell Factor (Scf)
pdb|2E9W|B Chain B, Crystal Structure Of The Extracellular Domain Of Kit In
Complex With Stem Cell Factor (Scf)
Length = 489
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 43/175 (24%), Positives = 68/175 (38%), Gaps = 15/175 (8%)
Query: 57 HGDV----ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
HGD + + ISS RV DSG++ C A N GS + + V D + +
Sbjct: 239 HGDFNYERQATLTISSARVNDSGVFMCYANNTFGSANVTTTLEVVDKGF----INIFPMI 294
Query: 113 SRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGE----YTSSLSI 168
+ ++ V+ G+ + P W+ E +S E Y S L +
Sbjct: 295 NTTVFVNDGENVDLIVEYEAFPKPEHQQWIYMNRTFTDKWEDYPKSENESNIRYVSELHL 354
Query: 169 ATLSTGHSGNYTCVASNTVASDNHSSNLRVNEYTSSLSIATLSTGHSGNYTCVAS 223
L G YT + SN+ + + N+ VN + I T +G CVA+
Sbjct: 355 TRLKGTEGGTYTFLVSNSDVNAAIAFNVYVN---TKPEILTYDRLVNGMLQCVAA 406
Score = 32.3 bits (72), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 42/194 (21%), Positives = 78/194 (40%), Gaps = 24/194 (12%)
Query: 103 PQDVKLVTSNSRSIKVHSGDRA----GVQCLV-TKGDPPLTISWLKNGLPIL-------- 149
P+D++ + I + S RA + C V +G L+ ++ P
Sbjct: 132 PKDLRFIPDPKAGIMIKSVKRAYHRLCLHCSVDQEGKSVLSEKFILKVRPAFKAVPVVSV 191
Query: 150 SDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVN---EYTSSLS 206
S A +R E+T + +I +S+ + S T + ++S + E ++L+
Sbjct: 192 SKASYLLREGEEFTVTCTIKDVSSSVYSTWKRENSQTKLQEKYNSWHHGDFNYERQATLT 251
Query: 207 IATLSTGHSGNYTCVASNTVASDNHSSNLRV------NVPPHIGPFTFGELMEGVRTQVA 260
I++ SG + C A+NT S N ++ L V N+ P I F + +G +
Sbjct: 252 ISSARVNDSGVFMCYANNTFGSANVTTTLEVVDKGFINIFPMINTTVF--VNDGENVDLI 309
Query: 261 CVVQSGDLPLSLQW 274
++ P QW
Sbjct: 310 VEYEAFPKPEHQQW 323
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 29/74 (39%), Gaps = 8/74 (10%)
Query: 22 LKCIATGNPTPHISW--------KLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVED 73
L+C+A G P P I W + L D + G ++ +I S +
Sbjct: 401 LQCVAAGFPEPTIDWYFCPGTEQRCSASVLPVDVQTLNSSGPPFGKLVVQSSIDSSAFKH 460
Query: 74 SGIYQCTATNRVGS 87
+G +C A N VG
Sbjct: 461 NGTVECKAYNDVGK 474
>pdb|1WVZ|A Chain A, Solution Structure Of The D2 Domain Of The Fibroblast
Growth Factor
Length = 104
Score = 41.2 bits (95), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 23/66 (34%), Positives = 31/66 (46%)
Query: 133 GDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
G+P T+ WLKNG + I SL + ++ GNYTCV N S NH
Sbjct: 38 GNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINH 97
Query: 193 SSNLRV 198
+ +L V
Sbjct: 98 TYHLDV 103
Score = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 23/78 (29%), Positives = 34/78 (43%), Gaps = 5/78 (6%)
Query: 20 VSLKCIATGNPTPHISWKLDGYPLAGDRFVMG-QYMSLHGDVISHVNISSVRVEDSGIYQ 78
V +C A GNP P + W +G + + G + + H +I + SV D G Y
Sbjct: 30 VKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLI----MESVVPSDKGNYT 85
Query: 79 CTATNRVGSQTHSADMRV 96
C N GS H+ + V
Sbjct: 86 CVVENEYGSINHTYHLDV 103
Score = 28.9 bits (63), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/34 (41%), Positives = 19/34 (55%)
Query: 204 SLSIATLSTGHSGNYTCVASNTVASDNHSSNLRV 237
SL + ++ GNYTCV N S NH+ +L V
Sbjct: 70 SLIMESVVPSDKGNYTCVVENEYGSINHTYHLDV 103
>pdb|3IVK|H Chain H, Crystal Structure Of The Catalytic Core Of An Rna
Polymerase Ribozyme Complexed With An Antigen Binding
Antibody Fragment
pdb|3IVK|A Chain A, Crystal Structure Of The Catalytic Core Of An Rna
Polymerase Ribozyme Complexed With An Antigen Binding
Antibody Fragment
Length = 224
Score = 40.8 bits (94), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 42/163 (25%), Positives = 71/163 (43%), Gaps = 36/163 (22%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRF----VMGQYMSL 56
+QPG + L C A+G P + W P +G + V G++ ++
Sbjct: 13 VQPGGSLRLSCAASGFYISYSSIHWVRQAPGKGLEWVASISPYSGSTYYADSVKGRF-TI 71
Query: 57 HGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
D +++ ++S+R ED+ +Y C R G + S R +D GQ V + ++++
Sbjct: 72 SADTSKNTAYLQMNSLRAEDTAVYYCA---RQGYRRRSG--RGFDYWGQGTLVTVSSAST 126
Query: 114 R---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+ S K SG A + CLV P P+T+SW L
Sbjct: 127 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 169
>pdb|1WWC|A Chain A, Nt3 Binding Domain Of Human Trkc Receptor
Length = 118
Score = 40.8 bits (94), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 35/70 (50%), Gaps = 3/70 (4%)
Query: 129 LVTKGDPPLTISWLKNGLPILSDAEITIR--SSGEYTSSLSIATLSTGH-SGNYTCVASN 185
V +G+PP T+ WL NG P+ I + GE + + T + +GNYT +A N
Sbjct: 27 FVVRGNPPPTLHWLHNGQPLRESKIIHVEYYQEGEISEGCLLFNKPTHYNNGNYTLIAKN 86
Query: 186 TVASDNHSSN 195
+ + N + N
Sbjct: 87 PLGTANQTIN 96
>pdb|3C08|H Chain H, Crystal Structure The Fab Fragment Of MatuzumabEMD72000
(FAB72000)
Length = 223
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 40/164 (24%), Positives = 69/164 (42%), Gaps = 35/164 (21%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFVMGQY 53
+ +PG V + C A+G P + W + P G ++F
Sbjct: 10 EVKKPGASVKVSCKASGYTFTSHWMHWVRQAPGQGLEWIGEFNPSNGRTNYNEKFKSKAT 69
Query: 54 MSLHGDV-ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
M++ +++ +SS+R ED+ +Y C S+ + D R +D GQ V + +++
Sbjct: 70 MTVDTSTNTAYMELSSLRSEDTAVYYC------ASRDYDYDGRYFDYWGQGTLVTVSSAS 123
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
++ S K SG A + CLV P P+T+SW L
Sbjct: 124 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 167
>pdb|2YR3|A Chain A, Solution Structure Of The Fourth Ig-Like Domain From
Myosin Light Chain Kinase, Smooth Muscle
Length = 99
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 9/82 (10%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDV-ISHVNISSVRVEDSG 75
G L+C G P P I+W L+G P+ QY + ++ ++I ED G
Sbjct: 26 GQDFVLQCSVRGTPVPRITWLLNGQPI--------QYARSTCEAGVAELHIQDALPEDHG 77
Query: 76 IYQCTATNRVGSQTHSADMRVY 97
Y C A N +G + SA + V+
Sbjct: 78 TYTCLAENALGQVSCSAWVTVH 99
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 39/87 (44%), Gaps = 7/87 (8%)
Query: 114 RSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEY-TSSLSIATLS 172
+ V G +QC V +G P I+WL NG PI RS+ E + L I
Sbjct: 19 KDCAVIEGQDFVLQCSV-RGTPVPRITWLLNGQPIQ-----YARSTCEAGVAELHIQDAL 72
Query: 173 TGHSGNYTCVASNTVASDNHSSNLRVN 199
G YTC+A N + + S+ + V+
Sbjct: 73 PEDHGTYTCLAENALGQVSCSAWVTVH 99
>pdb|1U2H|A Chain A, X-Ray Structure Of The N-Terminally Truncated Human Apep-1
Length = 99
Score = 40.0 bits (92), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 29/71 (40%)
Query: 129 LVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVA 188
+ +G+P +SWL+N P+ D + L I G +G YTC A N
Sbjct: 27 IRVQGEPKPVVSWLRNRQPVRPDQRRFAEEAEGGLCRLRILAAERGDAGFYTCKAVNEYG 86
Query: 189 SDNHSSNLRVN 199
+ + L V
Sbjct: 87 ARQCEARLEVR 97
Score = 36.6 bits (83), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 21/94 (22%), Positives = 38/94 (40%), Gaps = 3/94 (3%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVIS 62
P + Q+++ G V + G P P +SW + P+ D ++ +
Sbjct: 6 PTFKVSLMDQSVREGQDVIMSIRVQGEPKPVVSWLRNRQPVRPD---QRRFAEEAEGGLC 62
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRV 96
+ I + D+G Y C A N G++ A + V
Sbjct: 63 RLRILAAERGDAGFYTCKAVNEYGARQCEARLEV 96
>pdb|2E5E|A Chain A, Solution Structure Of Variable-Type Domain Of Human
Receptor For Advanced Glycation Endproducts
Length = 101
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 45/96 (46%), Gaps = 17/96 (17%)
Query: 17 GPPVSLKCI-ATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHG----DVISHV------N 65
G P+ LKC A P + WKL+ R + +S G D ++ V
Sbjct: 11 GEPLVLKCKGAPKKPPQRLEWKLNT-----GRTEAWKVLSPQGGGPWDSVARVLPNGSLF 65
Query: 66 ISSVRVEDSGIYQCTATNRVGSQTHS-ADMRVYDAP 100
+ +V ++D GI++C A NR G +T S +RVY P
Sbjct: 66 LPAVGIQDEGIFRCQAMNRNGKETKSNYRVRVYQIP 101
>pdb|3KNB|B Chain B, Crystal Structure Of The Titin C-Terminus In Complex With
Obscurin- Like 1
Length = 107
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 2/72 (2%)
Query: 114 RSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLST 173
R ++V SG A ++C+V G+PP + W K G + + ++ + G L A L T
Sbjct: 21 RPVRVVSGAEAELKCVVL-GEPPPVVVWEKGGQQLAASERLSFPADGAEHGLLLTAALPT 79
Query: 174 GHSGNYTCVASN 185
+G Y C A N
Sbjct: 80 -DAGVYVCRARN 90
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 6/81 (7%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISH-VNISSVRVEDSGIYQC 79
LKC+ G P P + W+ G LA + +S D H + +++ D+G+Y C
Sbjct: 32 ELKCVVLGEPPPVVVWEKGGQQLAAS-----ERLSFPADGAEHGLLLTAALPTDAGVYVC 86
Query: 80 TATNRVGSQTHSADMRVYDAP 100
A N G +A + V + P
Sbjct: 87 RARNAAGEAYAAAAVTVLEPP 107
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 3/85 (3%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVE 72
T+Q G ++L C G+P P +SW + LA + ++ I+ V
Sbjct: 128 TIQEGKALNLTCNVWGDPPPEVSWLKNEKALAQTDHCN---LKFEAGRTAYFTINGVSTA 184
Query: 73 DSGIYQCTATNRVGSQTHSADMRVY 97
DSG Y N+ GS+T + V+
Sbjct: 185 DSGKYGLVVKNKYGSETSDFTVSVF 209
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 33/75 (44%), Gaps = 1/75 (1%)
Query: 116 IKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGH 175
+ + G + C V GDPP +SWLKN + ++ T+ +I +ST
Sbjct: 127 VTIQEGKALNLTCNVW-GDPPPEVSWLKNEKALAQTDHCNLKFEAGRTAYFTINGVSTAD 185
Query: 176 SGNYTCVASNTVASD 190
SG Y V N S+
Sbjct: 186 SGKYGLVVKNKYGSE 200
>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 = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 33/77 (42%), Gaps = 13/77 (16%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRV 71
Q L PG + L+C+A G+P PH W + PL + + YM + V +
Sbjct: 13 QKLMPGSTLVLQCVAVGSPIPHYQWFKNELPLTHETKKL--YM-----------VPYVDL 59
Query: 72 EDSGIYQCTATNRVGSQ 88
E G Y C N SQ
Sbjct: 60 EHQGTYWCHVYNDRDSQ 76
>pdb|1TZI|B Chain B, Crystal Structure Of The Fab Yads2 Complexed With H-Vegf
Length = 222
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/165 (25%), Positives = 67/165 (40%), Gaps = 42/165 (25%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG---------DRFVMG 51
+QPG + L C A+G P + W D P AG RF +
Sbjct: 12 VQPGGSLRLSCAASGFAIYDYDIHWVRQAPGKGLEWVADIAPYAGATAYADSVKGRFTIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
S + +++ ++S+R ED+ +Y C S++ A D GQ V + ++
Sbjct: 72 ADTSKN---TAYLQMNSLRAEDTAVYYC-------SRSSYAYYAAMDYWGQGTLVTVSSA 121
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++ S K SG A + CLV P P+T+SW L
Sbjct: 122 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 166
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 2/72 (2%)
Query: 114 RSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLST 173
R ++V SG A ++C+V G+PP + W K G + + ++ + G L A L T
Sbjct: 22 RPVRVVSGAEAELKCVVL-GEPPPVVVWEKGGQQLAASERLSFPADGAEHGLLLTAALPT 80
Query: 174 GHSGNYTCVASN 185
+G Y C A N
Sbjct: 81 -DAGVYVCRARN 91
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 6/81 (7%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISH-VNISSVRVEDSGIYQC 79
LKC+ G P P + W+ G LA + +S D H + +++ D+G+Y C
Sbjct: 33 ELKCVVLGEPPPVVVWEKGGQQLAAS-----ERLSFPADGAEHGLLLTAALPTDAGVYVC 87
Query: 80 TATNRVGSQTHSADMRVYDAP 100
A N G +A + V + P
Sbjct: 88 RARNAAGEAYAAAAVTVLEPP 108
>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 = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 19/84 (22%), Positives = 42/84 (50%), Gaps = 2/84 (2%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVE 72
++ G +++ C TG PTP ++W G + G++ + D ++ + I V+ +
Sbjct: 18 SIDEGKVLTVACAFTGEPTPEVTWSCGGRKIHSQE--QGRFHIENTDDLTTLIIMDVQKQ 75
Query: 73 DSGIYQCTATNRVGSQTHSADMRV 96
D G+Y + N GS + + ++ +
Sbjct: 76 DGGLYTLSLGNEFGSDSATVNIHI 99
>pdb|2WWK|O Chain O, Crystal Structure Of The Titin M10-Obscurin Like 1 Ig F17r
Mutant Complex
Length = 109
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 2/72 (2%)
Query: 114 RSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLST 173
R ++V SG A ++C+V G+PP + W K G + + ++ + G L A L T
Sbjct: 22 RPVRVVSGAEAELKCVVL-GEPPPVVVWEKGGQQLAASERLSFPADGAEHGLLLTAALPT 80
Query: 174 GHSGNYTCVASN 185
+G Y C A N
Sbjct: 81 -DAGVYVCRARN 91
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 6/81 (7%)
Query: 21 SLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISH-VNISSVRVEDSGIYQC 79
LKC+ G P P + W+ G LA + +S D H + +++ D+G+Y C
Sbjct: 33 ELKCVVLGEPPPVVVWEKGGQQLAAS-----ERLSFPADGAEHGLLLTAALPTDAGVYVC 87
Query: 80 TATNRVGSQTHSADMRVYDAP 100
A N G +A + V + P
Sbjct: 88 RARNAAGEAYAAAAVTVLEPP 108
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 33/77 (42%), Gaps = 13/77 (16%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRV 71
Q L PG + L+C+A G+P PH W + PL + + YM + V +
Sbjct: 128 QKLMPGSTLVLQCVAVGSPIPHYQWFKNELPLTHETKKL--YM-----------VPYVDL 174
Query: 72 EDSGIYQCTATNRVGSQ 88
E G Y C N SQ
Sbjct: 175 EHQGTYWCHVYNDRDSQ 191
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 46/198 (23%), Positives = 75/198 (37%), Gaps = 42/198 (21%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDV----ISHVNISSVRVE 72
G V L C ATG+P FV Q+ ++ ++ S + ++V V+
Sbjct: 33 GQFVKLCCRATGHP-----------------FVQYQWFKMNKEIPNGNTSELIFNAVHVK 75
Query: 73 DSGIYQCTATNRVGSQ-THSADMRVYDAPGQPQDVKLVTSNSR--------SIKVHSGDR 123
D+G Y C N + + + + V D P Q S S+ S K+ G
Sbjct: 76 DAGFYVCRVNNNFTFEFSQWSQLDVCDIPESFQRSVDGVSESKLQICVEPTSQKLMPGST 135
Query: 124 AGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTC-V 182
+QC V G P W KN LP+ + E + + H G Y C V
Sbjct: 136 LVLQC-VAVGSPIPHYQWFKNELPL----------THETKKLYMVPYVDLEHQGTYWCHV 184
Query: 183 ASNTVASDNHSSNLRVNE 200
++ + D+ + ++E
Sbjct: 185 YNDRDSQDSKKVEIIIDE 202
>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 = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 19/84 (22%), Positives = 42/84 (50%), Gaps = 2/84 (2%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVE 72
++ G +++ C TG PTP ++W G + G++ + D ++ + I V+ +
Sbjct: 16 SIDEGKVLTVACAFTGEPTPEVTWSCGGRKIHSQE--QGRFHIENTDDLTTLIIMDVQKQ 73
Query: 73 DSGIYQCTATNRVGSQTHSADMRV 96
D G+Y + N GS + + ++ +
Sbjct: 74 DGGLYTLSLGNEFGSDSATVNIHI 97
>pdb|1ZA6|B Chain B, The Structure Of An Antitumor Ch2-Domain-Deleted Humanized
Antibody
pdb|1ZA6|D Chain D, The Structure Of An Antitumor Ch2-Domain-Deleted Humanized
Antibody
pdb|1ZA6|F Chain F, The Structure Of An Antitumor Ch2-Domain-Deleted Humanized
Antibody
pdb|1ZA6|H Chain H, The Structure Of An Antitumor Ch2-Domain-Deleted Humanized
Antibody
Length = 344
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 39/156 (25%), Positives = 65/156 (41%), Gaps = 25/156 (16%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRFVMGQYM---- 54
+ ++PG V + C A+G NP + W + + D F +
Sbjct: 10 EVVKPGASVKISCKASGYTFTDHAIHWVKQNPGQRLEW-IGYFSPGNDDFKYNERFKGKA 68
Query: 55 SLHGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
+L D ++V +SS+R ED+ +Y CT + + + V A + V +
Sbjct: 69 TLTADTSASTAYVELSSLRSEDTAVYFCTRSLNMAYWGQGTLVTVSSASTKGPSVFPLAP 128
Query: 112 NSRSIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+S+S SG A + CLV P P+T+SW L
Sbjct: 129 SSKST---SGGTAALGCLVKDYFPEPVTVSWNSGAL 161
>pdb|2FJH|H Chain H, Structure Of The B20-4 Fab, A Phage Derived Fab Fragment,
In Complex With Vegf
pdb|2FJH|B Chain B, Structure Of The B20-4 Fab, A Phage Derived Fab Fragment,
In Complex With Vegf
Length = 228
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 43/165 (26%), Positives = 67/165 (40%), Gaps = 41/165 (24%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG---------DRFVMG 51
+QPG + L C A+G P + W YP +G RF +
Sbjct: 12 VQPGGSLRLSCAASGFTINASWIHWVRQAPGKGLEWVGAIYPYSGYTNYADSVKGRFTIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
S + +++ ++S+R ED+ +Y C R G HS D GQ V + ++
Sbjct: 72 ADTSKN---TAYLQMNSLRAEDTAVYYCA---RWG---HSTSPWAMDYWGQGTLVTVSSA 122
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++ S K SG A + CLV P P+T+SW L
Sbjct: 123 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 167
>pdb|1PZ5|B Chain B, Structural Basis Of Peptide-Carbohydrate Mimicry In An
Antibody Combining Site
Length = 220
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 39/159 (24%), Positives = 65/159 (40%), Gaps = 40/159 (25%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW------KLDGYPLAGDRFVMGQYM 54
+QPG + L C+A+G +P + W K + Y V G++
Sbjct: 12 VQPGGSMKLSCVASGFTFSNYWMEWVRQSPEKGLEWVAEIRLKSNNYATHYAESVKGRFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
D S ++ ++++R ED+GIY CT VG+ D GQ V + ++
Sbjct: 72 ISRDDSKSSVYLQMNNLRAEDTGIYYCTRGGAVGAM---------DYWGQGTSVTVSSAT 122
Query: 113 SRSIKVH---------SGDRAGVQCLVTKGDP-PLTISW 141
+ + V+ SG + CLV P P+T+ W
Sbjct: 123 TTAPSVYPLVPGCSDTSGSSVTLGCLVKGYFPEPVTVKW 161
>pdb|3GKW|H Chain H, Crystal Structure Of The Fab Fragment Of Nimotuzumab. An
Anti- Epidermal Growth Factor Receptor Antibody
Length = 222
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 47/95 (49%), Gaps = 14/95 (14%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ +SS+R ED+ Y CT R G S D R +D GQ V + +++++
Sbjct: 79 AYMELSSLRSEDTAFYFCT---RQGLWFDS-DGRGFDFWGQGTTVTVSSASTKGPSVFPL 134
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 135 APSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 169
>pdb|3G6J|F Chain F, C3b In Complex With A C3b Specific Fab
pdb|3G6J|H Chain H, C3b In Complex With A C3b Specific Fab
Length = 226
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 40/157 (25%), Positives = 66/157 (42%), Gaps = 33/157 (21%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRF----VMGQYM-- 54
+QPG + L C A+G P + W YP G + V G++
Sbjct: 12 VQPGGSLRLSCAASGFSFTSSSVSWVRQAPGKGLEWVGLIYPYNGFNYYADSVKGRFTIS 71
Query: 55 SLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR 114
+ +++ ++S+R ED+ +Y C GS + A D GQ V + +++++
Sbjct: 72 ANTSKNTAYLQMNSLRAEDTAVYYCARNALYGSGGYYA----MDYWGQGTLVTVSSASTK 127
Query: 115 ---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 128 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 164
>pdb|3GRW|H Chain H, Fgfr3 In Complex With A Fab
Length = 235
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 41/165 (24%), Positives = 65/165 (39%), Gaps = 35/165 (21%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGD---------RFVMG 51
+QPG + L C A+G P + W YP G RF +
Sbjct: 12 VQPGGSLRLSCAASGFTFTSTGISWVRQAPGKGLEWVGRIYPTNGSTNYADSVKGRFTIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
S + +++ ++S+R ED+ +Y C T + V D GQ V + ++
Sbjct: 72 ADTSKN---TAYLQMNSLRAEDTAVYYCARTYGIYDLYVDYTEYVMDYWGQGTLVTVSSA 128
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++ S K SG A + CLV P P+T+SW L
Sbjct: 129 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 173
>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 = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 39/159 (24%), Positives = 65/159 (40%), Gaps = 40/159 (25%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW------KLDGYPLAGDRFVMGQYM 54
+QPG + L C+A+G +P + W K + Y V G++
Sbjct: 12 VQPGGSMKLSCVASGFTFSNYWMEWVRQSPEKGLEWVAEIRLKSNNYATHYAESVKGRFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
D S ++ ++++R ED+GIY CT VG+ D GQ V + ++
Sbjct: 72 ISRDDSKSSVYLQMNNLRAEDTGIYYCTRGGAVGAM---------DYWGQGTSVTVSSAT 122
Query: 113 SRSIKVH---------SGDRAGVQCLVTKGDP-PLTISW 141
+ + V+ SG + CLV P P+T+ W
Sbjct: 123 TTAPSVYPLVPGCSDTSGSSVTLGCLVKGYFPEPVTVKW 161
>pdb|2WV3|A Chain A, Neuroplastin-55 Binds To And Signals Through The
Fibroblast Growth Factor Receptor
Length = 190
Score = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 41/82 (50%), Gaps = 2/82 (2%)
Query: 17 GPPVSLKCIATGNPTPHISW-KLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRV-EDS 74
G + C + G P P W K + G++ ++ + + +NI ++++ ED
Sbjct: 107 GQDAMMYCKSVGYPHPEWMWRKKENGVFEEISNSSGRFFIINKENYTELNIVNLQITEDP 166
Query: 75 GIYQCTATNRVGSQTHSADMRV 96
G Y+C ATN +GS + S +RV
Sbjct: 167 GEYECNATNSIGSASVSTVLRV 188
Score = 34.7 bits (78), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 49/188 (26%), Positives = 74/188 (39%), Gaps = 27/188 (14%)
Query: 19 PVSLKC--IATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGI 76
PV+L+C ++ + + W +G L R I+ R EDSG
Sbjct: 20 PVTLQCNLTSSSHTLMYSYWTKNGVELTATRKNASNM---------EYRINKPRAEDSGE 70
Query: 77 YQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPP 136
Y C + V + +A + V AP +T + RS + G A + C + G P
Sbjct: 71 YHCVY-HFVSAPKANATIEVKAAPD-------ITGHKRSENKNEGQDAMMYCK-SVGYPH 121
Query: 137 LTISWLKNGLPIL-----SDAEITIRSSGEYTSSLSIATLS-TGHSGNYTCVASNTVASD 190
W K + S I + YT L+I L T G Y C A+N++ S
Sbjct: 122 PEWMWRKKENGVFEEISNSSGRFFIINKENYTE-LNIVNLQITEDPGEYECNATNSIGSA 180
Query: 191 NHSSNLRV 198
+ S+ LRV
Sbjct: 181 SVSTVLRV 188
>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 = 38.1 bits (87), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 30/106 (28%), Positives = 44/106 (41%), Gaps = 14/106 (13%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQY----MSLHG 58
P IYK + + G V L+C + P P + WK + M Q+ +SL+
Sbjct: 16 PMFIYKPQSKKVLEGDSVKLECQISAIPPPKLFWKRNNE--------MVQFNTDRISLYQ 67
Query: 59 DVISHVN--ISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQ 102
D V I V +D+G Y +A N G T + + V P Q
Sbjct: 68 DNTGRVTLLIKDVNKKDAGWYTVSAVNEAGVTTCNTRLDVTARPNQ 113
>pdb|3NZH|H Chain H, Crystal Structure Of Anti-Emmprin Antibody 5f6 Fab
Length = 226
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 42/152 (27%), Positives = 68/152 (44%), Gaps = 30/152 (19%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW----KLDGYPLAGD--RFVMGQYM 54
+QPG + L C+A+G +P + W +L Y A V G++
Sbjct: 13 VQPGGSMKLSCVASGFTFSNYWMNWVRQSPEKGLEWVAQIRLKSYNYATHYAESVKGRFT 72
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCT--ATNRVGSQTHSADMRVYDAPGQPQDVKLVT 110
D S ++ ++++R ED+GIY CT ++ G T + V A + V +
Sbjct: 73 ISRDDSKSSVYLQMNNLRAEDTGIYYCTPDGSDYWGQGT---TLTVSSASTKGPSVFPLA 129
Query: 111 SNSRSIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+S+S SG A + CLV P P+T+SW
Sbjct: 130 PSSKST---SGGTAALGCLVKDYFPEPVTVSW 158
>pdb|1FHG|A Chain A, High Resolution Refinement Of Telokin
Length = 154
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 35/95 (36%), Gaps = 3/95 (3%)
Query: 2 HPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI 61
P + + G C G P P + W D P+ R Y G+
Sbjct: 41 KPYFTKTILDMEVVEGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHFQIDY-DEEGNC- 98
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRV 96
+ IS V +D Y C A N +G T +A++ V
Sbjct: 99 -SLTISEVCGDDDAKYTCKAVNSLGEATCTAELLV 132
Score = 35.0 bits (79), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 35/84 (41%), Gaps = 1/84 (1%)
Query: 116 IKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGH 175
++V G A C V +G P + W K+ P+ I E SL+I+ +
Sbjct: 51 MEVVEGSAARFDCKV-EGYPDPEVMWFKDDNPVKESRHFQIDYDEEGNCSLTISEVCGDD 109
Query: 176 SGNYTCVASNTVASDNHSSNLRVN 199
YTC A N++ ++ L V
Sbjct: 110 DAKYTCKAVNSLGEATCTAELLVE 133
>pdb|1TLK|A Chain A, X-Ray Structure Determination Of Telokin, The C-Terminal
Domain Of Myosin Light Chain Kinase, At 2.8 Angstroms
Resolution
Length = 154
Score = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 35/95 (36%), Gaps = 3/95 (3%)
Query: 2 HPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI 61
P + + G C G P P + W D P+ R Y G+
Sbjct: 41 KPYFTKTILDMDVVEGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHFQIDY-DEEGNC- 98
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRV 96
+ IS V +D Y C A N +G T +A++ V
Sbjct: 99 -SLTISEVCGDDDAKYTCKAVNSLGEATCTAELLV 132
Score = 34.3 bits (77), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 34/84 (40%), Gaps = 1/84 (1%)
Query: 116 IKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGH 175
+ V G A C V +G P + W K+ P+ I E SL+I+ +
Sbjct: 51 MDVVEGSAARFDCKV-EGYPDPEVMWFKDDNPVKESRHFQIDYDEEGNCSLTISEVCGDD 109
Query: 176 SGNYTCVASNTVASDNHSSNLRVN 199
YTC A N++ ++ L V
Sbjct: 110 DAKYTCKAVNSLGEATCTAELLVE 133
>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 = 37.7 bits (86), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 39/91 (42%), Gaps = 19/91 (20%)
Query: 9 FIQ----QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQ------------ 52
F+Q Q G V L C A G+P P I W +G G + Q
Sbjct: 24 FVQAPLSQQRWVGGSVELHCEAVGSPVPEIQWWFEG---QGPNDIXSQLWDGARLDRVHI 80
Query: 53 YMSLHGDVISHVNISSVRVEDSGIYQCTATN 83
+ + H S ++I ++ ED+G Y+C A+N
Sbjct: 81 HATYHQHAASTISIDTLVEEDTGTYECRASN 111
>pdb|2V9T|A Chain A, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 117
Score = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 36/84 (42%), Gaps = 4/84 (4%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDR-FVMGQYMSLHGDVISHVNISSVRVE--D 73
G P +L C A G PTP I W G + D+ M L + + I R D
Sbjct: 24 GEPATLNCKAEGRPTPTIEWYKGGERVETDKDDPRSHRMLLPSGSLFFLRIVHGRKSRPD 83
Query: 74 SGIYQCTATNRVGSQ-THSADMRV 96
G+Y C A N +G +H A + V
Sbjct: 84 EGVYVCVARNYLGEAVSHDASLEV 107
>pdb|4D9L|H Chain H, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|I Chain I, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|J Chain J, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|K Chain K, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
Length = 223
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 44/161 (27%), Positives = 70/161 (43%), Gaps = 39/161 (24%)
Query: 12 QTLQPGPPVSLKCIATGNP--TPHISWKLDGYPLAGDRFVMGQYMSLHGDV--------- 60
+ +PG V + C A+G T ISW P G + MG+ + + G V
Sbjct: 10 EVKKPGSSVKVSCKASGGNFNTYTISWVRQA-PGQGLEW-MGRIIPIFGIVNPAQKFPGR 67
Query: 61 ----------ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVT 110
+++ +SS+R ED+ +Y C AT+ VG +D GQ V + +
Sbjct: 68 VTINVDKSTNTAYMELSSLRSEDTAVYYC-ATSGVG-----LHFGYFDYWGQGTQVTVSS 121
Query: 111 SNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
++++ S K SG A + CLV P P+T+SW
Sbjct: 122 ASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 162
>pdb|3QR2|A Chain A, Wild Type Cd147 Ig0 Domain
pdb|3QR2|B Chain B, Wild Type Cd147 Ig0 Domain
Length = 137
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 39/88 (44%), Gaps = 13/88 (14%)
Query: 9 FIQ----QTLQPGPPVSLKCIATGNPTPHISWKLDGYP--------LAGDRF-VMGQYMS 55
F+Q Q G V L C A G+P P I W +G G R + + +
Sbjct: 24 FVQAPLSQQRWVGGSVELHCEAVGSPVPEIQWWFEGQGPNDICSQLWDGARLDRVHIHAT 83
Query: 56 LHGDVISHVNISSVRVEDSGIYQCTATN 83
H S ++I ++ ED+G Y+C A+N
Sbjct: 84 YHQHAASTISIDTLVEEDTGTYECRASN 111
>pdb|1I9R|H Chain H, Structure Of Cd40l In Complex With The Fab Fragment Of
Humanized 5c8 Antibody
pdb|1I9R|K Chain K, Structure Of Cd40l In Complex With The Fab Fragment Of
Humanized 5c8 Antibody
pdb|1I9R|X Chain X, Structure Of Cd40l In Complex With The Fab Fragment Of
Humanized 5c8 Antibody
Length = 219
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 40/159 (25%), Positives = 68/159 (42%), Gaps = 38/159 (23%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRFVMGQYMSLHG 58
+ ++PG V L C A+G P + W + P GD ++ S
Sbjct: 10 EVVKPGASVKLSCKASGYIFTSYYMYWVKQAPGQGLEWIGEINPSNGDTNFNEKFKSKAT 69
Query: 59 DVI------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ +++ +SS+R ED+ +Y CT ++ DM D+ GQ V + +++
Sbjct: 70 LTVDKSASTAYMELSSLRSEDTAVYYCTRSD------GRNDM---DSWGQGTLVTVSSAS 120
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
++ S K SG A + CLV P P+T+SW
Sbjct: 121 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 159
>pdb|3C09|H Chain H, Crystal Structure The Fab Fragment Of Matuzumab (Fab72000)
In Complex With Domain Iii Of The Extracellular Region
Of Egfr
pdb|3C09|C Chain C, Crystal Structure The Fab Fragment Of Matuzumab (Fab72000)
In Complex With Domain Iii Of The Extracellular Region
Of Egfr
Length = 223
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 39/164 (23%), Positives = 68/164 (41%), Gaps = 35/164 (21%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFVMGQY 53
+ +PG V + C A+G P + W + P G ++F
Sbjct: 10 EVKKPGASVKVSCKASGYTFTSHWMHWVRQAPGQGLEWIGEFNPSNGRTNYNEKFKSKAT 69
Query: 54 MSLHGDV-ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
M++ +++ +SS+R ED+ +Y C S+ + R +D GQ V + +++
Sbjct: 70 MTVDTSTNTAYMELSSLRSEDTAVYYC------ASRDYDYAGRYFDYWGQGTLVTVSSAS 123
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
++ S K SG A + CLV P P+T+SW L
Sbjct: 124 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 167
>pdb|1SM3|H Chain H, Crystal Structure Of The Tumor Specific Antibody Sm3
Complex With Its Peptide Epitope
Length = 218
Score = 37.4 bits (85), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 36/150 (24%), Positives = 60/150 (40%), Gaps = 25/150 (16%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW------KLDGYPLAGDRFVMGQYM 54
+QPG + L C+A+G +P + W K + Y V G++
Sbjct: 12 VQPGGSMKLSCVASGFTFSNYWMNWVRQSPEKGLEWVAEIRLKSNNYATHYAESVKGRFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
D S ++ ++++R ED+GIY CT + + V A P V +
Sbjct: 72 ISRDDSKSSVYLQMNNLRAEDTGIYYCTGVGQFAYWGQGTTVTVSSAKTTPPTVYPLAPG 131
Query: 113 SRSIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S + S + CLV P P+T++W
Sbjct: 132 SNAA---SQSMVTLGCLVKGYFPEPVTVTW 158
>pdb|3P0V|H Chain H, Anti-EgfrHER3 FAB DL11 ALONE
pdb|3P0V|I Chain I, Anti-EgfrHER3 FAB DL11 ALONE
pdb|3P0Y|H Chain H, Anti-EgfrHER3 FAB DL11 IN COMPLEX WITH DOMAIN III OF EGFR
Extracellular Region
pdb|3P11|H Chain H, Anti-EgfrHER3 FAB DL11 IN COMPLEX WITH DOMAINS I-Iii Of
The Her3 Extracellular Region
Length = 228
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 42/159 (26%), Positives = 69/159 (43%), Gaps = 39/159 (24%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW-----KLDGYPLAGDRFVMGQYMS 55
+QPG + L C A+G P + W GY D V G++ +
Sbjct: 12 VQPGGSLRLSCAASGFTLSGDWIHWVRQAPGKGLEWLGEISAAGGYTDYADS-VKGRF-T 69
Query: 56 LHGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ D +++ ++S+R ED+ +Y C +RV + A M D GQ V + +++
Sbjct: 70 ISADTSKNTAYLQMNSLRAEDTAVYYCARESRV---SFEAAM---DYWGQGTLVTVSSAS 123
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
++ S K SG A + CLV P P+T+SW
Sbjct: 124 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 162
>pdb|3KR3|H Chain H, Crystal Structure Of Igf-Ii Antibody Complex
Length = 251
Score = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 44/159 (27%), Positives = 71/159 (44%), Gaps = 38/159 (23%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISWKLDGYPLAGDRFV--------MGQYM-SLHGDV-IS 62
+QPG + L C A+G + +I W + P G +V M +Y S+ G IS
Sbjct: 12 VQPGGSLRLSCAASGFTFSNYIMWWVRQAPGKGLEWVSVISSSGGMTRYADSVKGRFTIS 71
Query: 63 --------HVNISSVRVEDSGIYQCTATN--RVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
++ ++S+R ED+ +Y C N VG + +D GQ V + +++
Sbjct: 72 RDNSKNTLYLQMNSLRAEDTAVYYCARDNGDYVGEKG-------FDIWGQGTMVTVSSAS 124
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
++ S K SG A + CLV P P+T+SW
Sbjct: 125 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 163
>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 = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 31/123 (25%), Positives = 56/123 (45%), Gaps = 15/123 (12%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHS-ADMRVYDAPGQPQDVKLVTSNSRS-IKVH 119
S + I + ++D+GIY+C T G+Q+ + +++++ KL+ N+ + +
Sbjct: 62 STLTIYNANIDDAGIYKCVVTAEDGTQSEATVNVKIFQ--------KLMFKNAPTPQEFK 113
Query: 120 SGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEIT-IRSSGEYTSSLSIATLSTGHSGN 178
G+ A + C V PP TI W G ++ ++ I S Y L I + G
Sbjct: 114 EGEDAVIVCDVVSSLPP-TIIWKHKGRDVILKKDVRFIVLSNNY---LQIRGIKKTDEGT 169
Query: 179 YTC 181
Y C
Sbjct: 170 YRC 172
>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 = 37.0 bits (84), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 44/89 (49%), Gaps = 16/89 (17%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ + +VR ED+ IY C RVG+ + +D G+ V + +++++
Sbjct: 80 YLQMDNVRDEDTAIYYCAKAKRVGATGY------FDLWGRGTLVTVSSASTKGPSVFPLA 133
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 134 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 162
>pdb|1BZ7|B Chain B, Fab Fragment From Murine Ascites
Length = 217
Score = 36.6 bits (83), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 28/89 (31%), Positives = 46/89 (51%), Gaps = 15/89 (16%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
+ ++S+R ED+ IY CT R G+ T S + +D GQ + + +++++
Sbjct: 80 FLQMTSLRSEDTAIYYCT---RGGTGTRS--LYYFDYWGQGATLIVSSASTKGPSVFPLA 134
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 135 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 163
>pdb|2R8S|H Chain H, High Resolution Structure Of A Specific Synthetic Fab
Bound To P4-P6 Rna Ribozyme Domain
Length = 224
Score = 36.6 bits (83), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 42/164 (25%), Positives = 69/164 (42%), Gaps = 39/164 (23%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW-----KLDGYPLAGDRFVMGQYMS 55
+QPG + L C A+G P + W GY D V G++ +
Sbjct: 12 VQPGGSLRLSCAASGFNLYSSSIHWVRQAPGKGLEWVAYISSSYGYTYYADS-VKGRF-T 69
Query: 56 LHGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ D +++ ++S+R ED+ +Y C A G T+ +D GQ V + +++
Sbjct: 70 ISADTSKNTAYLQMNSLRAEDTAVYYC-ARRAAGMSTYG-----FDYWGQGTLVTVSSAS 123
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
++ S K SG A + CLV P P+T+SW L
Sbjct: 124 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 167
>pdb|1FVE|B Chain B, X-Ray Structures Of The Antigen-Binding Domains From Three
Variants Of Humanized Anti-P185-Her2 Antibody 4d5 And
Comparison With Molecular Modeling
pdb|1FVE|D Chain D, X-Ray Structures Of The Antigen-Binding Domains From Three
Variants Of Humanized Anti-P185-Her2 Antibody 4d5 And
Comparison With Molecular Modeling
Length = 223
Score = 36.6 bits (83), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 42/158 (26%), Positives = 69/158 (43%), Gaps = 38/158 (24%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-DRF---VMGQYMSL 56
+QPG + L C A+G P + W YP G R+ V G++ ++
Sbjct: 12 VQPGGSLRLSCAASGFNIKDTYIHWVRQAPGKGLEWVARIYPTNGYTRYADSVKGRF-TI 70
Query: 57 HGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
D +++ ++S+R ED+ +Y C+ R G A D GQ V + ++++
Sbjct: 71 SADTSKNTAYLQMNSLRAEDTAVYYCS---RWGGDGFYA----MDYWGQGTLVTVSSAST 123
Query: 114 R---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+ S K SG A + CLV P P+T+SW
Sbjct: 124 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 161
>pdb|2WUB|H Chain H, Crystal Structure Of Hgfa In Complex With The Allosteric
Non-Inhibitory Antibody Fab40.Deltatrp
pdb|2WUB|R Chain R, Crystal Structure Of Hgfa In Complex With The Allosteric
Non-Inhibitory Antibody Fab40.Deltatrp
pdb|2WUC|H Chain H, Crystal Structure Of Hgfa In Complex With The Allosteric
Non- Inhibitory Antibody Fab40.Deltatrp And
Ac-Kqlr-Chloromethylketone
Length = 224
Score = 36.6 bits (83), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 38/158 (24%), Positives = 65/158 (41%), Gaps = 41/158 (25%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRF----VMGQYMSL 56
+QPG + L C A+G P + W YP G + V G++ ++
Sbjct: 12 VQPGGSLRLSCAASGFTINGTYIHWVRQAPGKGLEWVGGIYPAGGATYYADSVKGRF-TI 70
Query: 57 HGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
D +++ ++S+R ED+ +Y C +D GQ V + ++++
Sbjct: 71 SADTSKNTAYLQMNSLRAEDTAVYYCA----------KWAWPAFDYWGQGTLVTVSSAST 120
Query: 114 R---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+ S K SG A + CLV P P+T+SW
Sbjct: 121 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 158
>pdb|1N8Z|B Chain B, Crystal Structure Of Extracellular Domain Of Human Her2
Complexed With Herceptin Fab
Length = 220
Score = 36.6 bits (83), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 42/158 (26%), Positives = 69/158 (43%), Gaps = 38/158 (24%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-DRF---VMGQYMSL 56
+QPG + L C A+G P + W YP G R+ V G++ ++
Sbjct: 12 VQPGGSLRLSCAASGFNIKDTYIHWVRQAPGKGLEWVARIYPTNGYTRYADSVKGRF-TI 70
Query: 57 HGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
D +++ ++S+R ED+ +Y C+ R G A D GQ V + ++++
Sbjct: 71 SADTSKNTAYLQMNSLRAEDTAVYYCS---RWGGDGFYA----MDYWGQGTLVTVSSAST 123
Query: 114 R---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+ S K SG A + CLV P P+T+SW
Sbjct: 124 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 161
>pdb|3BDY|H Chain H, Dual Specific Bh1 Fab In Complex With Vegf
pdb|3BE1|H Chain H, Dual Specific Bh1 Fab In Complex With The Extracellular
Domain Of Her2ERBB-2
Length = 230
Score = 36.6 bits (83), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 42/158 (26%), Positives = 69/158 (43%), Gaps = 38/158 (24%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-DRF---VMGQYMSL 56
+QPG + L C A+G P + W YP G R+ V G++ ++
Sbjct: 15 VQPGGSLRLSCAASGFNIKDTYIHWVRQAPGKGLEWVARIYPTNGYTRYADSVKGRF-TI 73
Query: 57 HGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
D +++ ++S+R ED+ +Y C+ R G A D GQ V + ++++
Sbjct: 74 SADTSKNTAYLQMNSLRAEDTAVYYCS---RWGGDGFYA----MDYWGQGTLVTVSSAST 126
Query: 114 R---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+ S K SG A + CLV P P+T+SW
Sbjct: 127 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 164
>pdb|4FQL|H Chain H, Influenza B Ha Antibody (Fab) Cr8033
Length = 236
Score = 36.6 bits (83), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 41/160 (25%), Positives = 66/160 (41%), Gaps = 35/160 (21%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRFVMGQYMSLHGDV 60
+QPG + L C A+G P + W + G G+ MG S+ G
Sbjct: 12 VQPGRSLRLSCAASGFSFDEYTMHWVRQAPGKGLEW-VAGINWKGN--FMGYADSVQGRF 68
Query: 61 -IS--------HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
IS ++ ++S+R ED+ +Y C S + +D GQ V + ++
Sbjct: 69 TISRDNGKNSLYLQMNSLRAEDTALYYCAKDRLESSAMDILEGGTFDIWGQGTMVTVSSA 128
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+++ S K SG A + CLV P P+T+SW
Sbjct: 129 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 168
>pdb|4FS0|A Chain A, Crystal Structure Of Mutant F136d Of Mouse Nectin-2
Extracellular Fragment D1-D2
Length = 225
Score = 36.6 bits (83), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 37/78 (47%), Gaps = 8/78 (10%)
Query: 66 ISSVRVEDSGIYQCT-ATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRA 124
+RVED G Y C AT+ G++ +RV P + + VT +S+ V
Sbjct: 87 FRGLRVEDEGNYTCEFATDPNGTRRGVTWLRVIAQPENHAEAQEVTIGPQSVAV------ 140
Query: 125 GVQCLVTKGDPPLTISWL 142
+C+ T G PP I+W+
Sbjct: 141 -ARCVSTGGRPPARITWI 157
>pdb|3PNW|B Chain B, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|E Chain E, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|H Chain H, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|K Chain K, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|N Chain N, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|Q Chain Q, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|T Chain T, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|W Chain W, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
Length = 246
Score = 36.6 bits (83), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 41/163 (25%), Positives = 68/163 (41%), Gaps = 32/163 (19%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRF----VMGQYMSL 56
+QPG + L C A+G P + W G + V G++ ++
Sbjct: 15 VQPGGSLRLSCAASGFNLSSSYMHWVRQAPGKGLEWVASISSSYGSTYYADSVKGRF-TI 73
Query: 57 HGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
D +++ ++S+R ED+ +Y C T R GS+ D GQ V + ++++
Sbjct: 74 SADTSKNTAYLQMNSLRAEDTAVYYCARTVR-GSKKPYFSGWAMDYWGQGTLVTVSSAST 132
Query: 114 R---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+ S K SG A + CLV P P+T+SW L
Sbjct: 133 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 175
>pdb|3GO1|L Chain L, Crystal Structure Of Anti-Hiv-1 Fab 268-D In Complex With
V3 Peptide Mn
Length = 209
Score = 36.2 bits (82), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 43/93 (46%), Gaps = 2/93 (2%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDR 123
+ IS V+ ED Y C + + G +V GQP+ VT S + ++
Sbjct: 72 LTISGVQAEDEADYYCQSADSSGDYVFGGGTKV-TVLGQPKANPTVTLFPPSSEELQANK 130
Query: 124 AGVQCLVTKGDP-PLTISWLKNGLPILSDAEIT 155
A + CL++ P +T++W +G P+ + E T
Sbjct: 131 ATLVCLISDFYPGAVTVAWKADGSPVKAGVETT 163
>pdb|3K2U|H Chain H, Crystal Structure Of Hgfa In Complex With The Allosteric
Inhibitory Antibody Fab40
Length = 225
Score = 36.2 bits (82), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 38/158 (24%), Positives = 65/158 (41%), Gaps = 40/158 (25%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRF----VMGQYMSL 56
+QPG + L C A+G P + W YP G + V G++ ++
Sbjct: 12 VQPGGSLRLSCAASGFTINGTYIHWVRQAPGKGLEWVGGIYPAGGATYYADSVKGRF-TI 70
Query: 57 HGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
D +++ ++S+R ED+ +Y C +D GQ V + ++++
Sbjct: 71 SADTSKNTAYLQMNSLRAEDTAVYYC---------AKWWAWPAFDYWGQGTLVTVSSAST 121
Query: 114 R---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+ S K SG A + CLV P P+T+SW
Sbjct: 122 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 159
>pdb|2QQK|H Chain H, Neuropilin-2 A1a2b1b2 Domains In Complex With A
Semaphorin-Blocking Fab
pdb|2QQL|H Chain H, Neuropilin-2 A1a2b1b2 Domains In Complex With A
Semaphorin-Blocking Fab
Length = 231
Score = 36.2 bits (82), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 41/165 (24%), Positives = 66/165 (40%), Gaps = 38/165 (23%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG---------DRFVMG 51
+QPG + L C A+G P + W YP +G RF +
Sbjct: 12 VQPGGSLRLSCAASGFTISGYGIHWVRQAPGKGLEWVAYIYPDSGYTDYADSVKGRFTIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
S + +++ ++S+R ED+ +Y C R + V D GQ V + ++
Sbjct: 72 ADTSKN---TAYLQMNSLRAEDTAVYYCA---REDFRNRRRLWYVMDYWGQGTLVTVSSA 125
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++ S K SG A + CLV P P+T+SW L
Sbjct: 126 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 170
>pdb|3INU|H Chain H, Crystal Structure Of An Unbound Kz52 Neutralizing
Anti-Ebolavirus Antibody.
pdb|3INU|M Chain M, Crystal Structure Of An Unbound Kz52 Neutralizing
Anti-Ebolavirus Antibody
Length = 226
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 44/89 (49%), Gaps = 12/89 (13%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED+ +Y C + AD V+D GQ V + +++++
Sbjct: 80 YLQMNSLRAEDTAVYYCVREGPRATGYSMAD--VFDIWGQGTMVTVSSASTKGPSVFPLA 137
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 138 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 166
>pdb|1FVD|B Chain B, X-Ray Structures Of The Antigen-Binding Domains From Three
Variants Of Humanized Anti-P185-Her2 Antibody 4d5 And
Comparison With Molecular Modeling
pdb|1FVD|D Chain D, X-Ray Structures Of The Antigen-Binding Domains From Three
Variants Of Humanized Anti-P185-Her2 Antibody 4d5 And
Comparison With Molecular Modeling
Length = 223
Score = 35.8 bits (81), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 42/158 (26%), Positives = 68/158 (43%), Gaps = 38/158 (24%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-DRF---VMGQYMSL 56
+QPG + L C A+G P + W YP G R+ V G++ ++
Sbjct: 12 VQPGGSLRLSCAASGFNIKDTYIHWVRQAPGKGLEWVARIYPTNGYTRYADSVKGRF-TI 70
Query: 57 HGDVIS---HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
D ++ ++S+R ED+ +Y C+ R G A D GQ V + ++++
Sbjct: 71 SADTSKNTLYLQMNSLRAEDTAVYYCS---RWGGDGFYA----MDVWGQGTLVTVSSAST 123
Query: 114 R---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+ S K SG A + CLV P P+T+SW
Sbjct: 124 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 161
>pdb|1E07|A Chain A, Model Of Human Carcinoembryonic Antigen By Homology
Modelling And Curve-Fitting To Experimental Solution
Scattering Data
Length = 642
Score = 35.8 bits (81), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 34/120 (28%), Positives = 50/120 (41%), Gaps = 20/120 (16%)
Query: 68 SVRVEDSGIYQCTATNRVGSQ-THSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGV 126
+V D+ Y+C N V ++ + S + V P P L TS SG+ +
Sbjct: 170 NVTRNDTASYKCETQNPVSARRSDSVILNVLYGPDAPTISPLNTS------YRSGENLNL 223
Query: 127 QCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNT 186
C +PP SW NG T + S T L I ++ +SG+YTC A N+
Sbjct: 224 SCHAA-SNPPAQYSWFVNG---------TFQQS---TQELFIPNITVNNSGSYTCQAHNS 270
Score = 35.0 bits (79), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 42/178 (23%), Positives = 73/178 (41%), Gaps = 27/178 (15%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDS 74
+PG +SL C A NP SW +DG + Q+ + IS++ ++S
Sbjct: 394 RPGVNLSLSCHAASNPPAQYSWLIDGN--------IQQHT-------QELFISNITEKNS 438
Query: 75 GIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGD 134
G+Y C A N + + + + P K S++ S V D C +
Sbjct: 439 GLYTCQANNSASGHSRTTVKTITVSAELP---KPSISSNNSKPVEDKDAVAFTCEPEAQN 495
Query: 135 PPLTISWLKNG--LPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASD 190
T W NG LP+ ++ S+G T L++ ++ + Y C N+V+++
Sbjct: 496 --TTYLWWVNGQSLPVSPRLQL---SNGNRT--LTLFNVTRNDARAYVCGIQNSVSAN 546
Score = 32.0 bits (71), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 45/190 (23%), Positives = 78/190 (41%), Gaps = 38/190 (20%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGI 76
G ++L C A NP SW FV G + ++ I ++ V +SG
Sbjct: 218 GENLNLSCHAASNPPAQYSW-----------FVNGTFQQSTQELF----IPNITVNNSGS 262
Query: 77 YQCTATNRVG--SQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGD 134
Y C A N ++T + VY P +P +TSN+ S V D + C +
Sbjct: 263 YTCQAHNSDTGLNRTTVTTITVYAEPPKP----FITSNN-SNPVEDEDAVALTC-----E 312
Query: 135 PPLT----ISWLKN-GLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVAS 189
P + + W+ N LP+ +++ +L++ +++ G Y C N ++
Sbjct: 313 PEIQNTTYLWWVNNQSLPVSPRLQLS-----NDNRTLTLLSVTRNDVGPYECGIQNELSV 367
Query: 190 DNHSSNLRVN 199
D HS + +N
Sbjct: 368 D-HSDPVILN 376
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 16/75 (21%), Positives = 32/75 (42%), Gaps = 15/75 (20%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGI 76
G ++L C + NP+P SW+++G P + + I+ + ++G
Sbjct: 574 GANLNLSCHSASNPSPQYSWRINGIPQQHTQVLF---------------IAKITPNNNGT 618
Query: 77 YQCTATNRVGSQTHS 91
Y C +N + +S
Sbjct: 619 YACFVSNLATGRNNS 633
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 54/124 (43%), Gaps = 24/124 (19%)
Query: 68 SVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQ 127
SV D G Y+C N + S HS D + + P D + S ++ R GV
Sbjct: 348 SVTRNDVGPYECGIQNEL-SVDHS-DPVILNVLYGPDDPTISPS-------YTYYRPGVN 398
Query: 128 CLVT---KGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVAS 184
++ +PP SWL +G + ++T L I+ ++ +SG YTC A+
Sbjct: 399 LSLSCHAASNPPAQYSWLIDG------------NIQQHTQELFISNITEKNSGLYTCQAN 446
Query: 185 NTVA 188
N+ +
Sbjct: 447 NSAS 450
Score = 27.7 bits (60), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 31/74 (41%), Gaps = 13/74 (17%)
Query: 120 SGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNY 179
SG + C + +P SW NG+P ++T L IA ++ ++G Y
Sbjct: 573 SGANLNLSCH-SASNPSPQYSWRINGIP------------QQHTQVLFIAKITPNNNGTY 619
Query: 180 TCVASNTVASDNHS 193
C SN N+S
Sbjct: 620 ACFVSNLATGRNNS 633
>pdb|2R0K|H Chain H, Protease Domain Of Hgfa With Inhibitor Fab58
Length = 225
Score = 35.8 bits (81), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 40/164 (24%), Positives = 67/164 (40%), Gaps = 43/164 (26%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKL-----DGYPLAGDRFVMGQYMS 55
+QPG + L C A+G P + W GY D V G++ +
Sbjct: 12 VQPGGSLRLSCAASGFTITGSAIHWVRQAPGKGLEWVAIINPNGGYTYYADS-VKGRF-T 69
Query: 56 LHGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ D +++ ++S+R ED+ +Y C + R +D GQ V + +++
Sbjct: 70 ISADTSKNTAYLQMNSLRAEDTAVYYCARSARFS----------FDYWGQGTLVTVSSAS 119
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
++ S K SG A + CLV P P+T+SW L
Sbjct: 120 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 163
>pdb|3CSY|A Chain A, Crystal Structure Of The Trimeric Prefusion Ebola Virus
Glycoprotein In Complex With A Neutralizing Antibody
From A Human Survivor
pdb|3CSY|C Chain C, Crystal Structure Of The Trimeric Prefusion Ebola Virus
Glycoprotein In Complex With A Neutralizing Antibody
From A Human Survivor
pdb|3CSY|E Chain E, Crystal Structure Of The Trimeric Prefusion Ebola Virus
Glycoprotein In Complex With A Neutralizing Antibody
From A Human Survivor
pdb|3CSY|G Chain G, Crystal Structure Of The Trimeric Prefusion Ebola Virus
Glycoprotein In Complex With A Neutralizing Antibody
From A Human Survivor
Length = 226
Score = 35.8 bits (81), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 43/89 (48%), Gaps = 12/89 (13%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ +S+R ED+ +Y C + AD V+D GQ V + +++++
Sbjct: 80 YLQXNSLRAEDTAVYYCVREGPRATGYSXAD--VFDIWGQGTXVTVSSASTKGPSVFPLA 137
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 138 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 166
>pdb|3PUC|A Chain A, Atomic Resolution Structure Of Titin Domain M7
Length = 99
Score = 35.8 bits (81), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 38/104 (36%), Gaps = 20/104 (19%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDG--------YPLAGDRFVMGQ 52
S P ++ T+ ATG P P W DG Y L+ D+ G
Sbjct: 5 SKPVIVTGLQDTTVSSDSVAKFAVKATGEPRPTAIWTKDGKAITQGGKYKLSEDK--GGF 62
Query: 53 YMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRV 96
++ +H DSG+Y CT N GS + S + +
Sbjct: 63 FLEIH----------KTDTSDSGLYTCTVKNSAGSVSSSCKLTI 96
>pdb|4FP8|H Chain H, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FP8|I Chain I, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FP8|J Chain J, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FP8|K Chain K, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FQR|AA Chain a, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|CC Chain c, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|EE Chain e, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|GG Chain g, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|II Chain i, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|KK Chain k, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|MM Chain m, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|OO Chain o, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|QQ Chain q, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|SS Chain s, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|UU Chain u, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|WW Chain w, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
Length = 241
Score = 35.8 bits (81), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 48/95 (50%), Gaps = 16/95 (16%)
Query: 63 HVNISSVRVEDSGIYQC----TATNRVGSQTHSADM--RVYDAPGQPQDVKLVTSNSR-- 114
++ ++++RVED+G+Y C + V + AD+ +D GQ V + +++++
Sbjct: 85 YLQMTNLRVEDTGVYYCAKHMSMQQVVSAGWERADLVGDAFDVWGQGTMVTVSSASTKGP 144
Query: 115 -------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 145 SVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 179
>pdb|4FNL|H Chain H, Crystal Structure Of Broadly Neutralizing Antibody C05
pdb|4FNL|I Chain I, Crystal Structure Of Broadly Neutralizing Antibody C05
Length = 247
Score = 35.8 bits (81), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 48/95 (50%), Gaps = 16/95 (16%)
Query: 63 HVNISSVRVEDSGIYQC----TATNRVGSQTHSADM--RVYDAPGQPQDVKLVTSNSR-- 114
++ ++++RVED+G+Y C + V + AD+ +D GQ V + +++++
Sbjct: 85 YLQMTNLRVEDTGVYYCAKHMSMQQVVSAGWERADLVGDAFDVWGQGTMVTVSSASTKGP 144
Query: 115 -------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 145 SVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 179
>pdb|2R0L|H Chain H, Short Form Hgfa With Inhibitory Fab75
Length = 220
Score = 35.8 bits (81), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 63/160 (39%), Gaps = 45/160 (28%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG---------DRFVMG 51
+QPG + L C A+G P + W YP G RF +
Sbjct: 12 VQPGGSLRLSCAASGFTISNSGIHWVRQAPGKGLEWVGWIYPTGGATDYADSVKGRFTIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
S + +++ ++S+R ED+ +Y C R +D GQ V + ++
Sbjct: 72 ADTSKN---TAYLQMNSLRAEDTAVYYCA----------RFWWRSFDYWGQGTLVTVSSA 118
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+++ S K SG A + CLV P P+T+SW
Sbjct: 119 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 158
>pdb|1S3K|H Chain H, Crystal Structure Of A Humanized Fab (Hu3s193) In Complex
With The Lewis Y Tetrasaccharide
pdb|3EYV|H Chain H, Anti-Lewis Y Fab Fragment With Lewis Y Antigen In The
Presence Of Zinc Ions
pdb|3EYV|B Chain B, Anti-Lewis Y Fab Fragment With Lewis Y Antigen In The
Presence Of Zinc Ions
Length = 222
Score = 35.8 bits (81), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 39/92 (42%), Gaps = 14/92 (15%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI------ 116
+ + S+R ED+G+Y C R GS Y G P V ++ S+
Sbjct: 80 FLQMDSLRPEDTGVYFCARGTRDGS------WFAYWGQGTPVTVSSASTKGPSVFPLAPS 133
Query: 117 -KVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
K SG A + CLV P P+T+SW L
Sbjct: 134 SKSTSGGTAALGCLVKDYFPQPVTVSWNSGAL 165
>pdb|1Q1J|H Chain H, Crystal Structure Analysis Of Anti-Hiv-1 Fab 447-52d In
Complex With V3 Peptide
pdb|1Q1J|I Chain I, Crystal Structure Analysis Of Anti-Hiv-1 Fab 447-52d In
Complex With V3 Peptide
pdb|3C2A|H Chain H, Antibody Fab Fragment 447-52d In Complex With Ug1033
Peptide
pdb|3C2A|I Chain I, Antibody Fab Fragment 447-52d In Complex With Ug1033
Peptide
Length = 231
Score = 35.8 bits (81), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 67/161 (41%), Gaps = 33/161 (20%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW------KLDGYPLAGDRFVMGQYM 54
++PG + L C+A+G P + W + DG V G++
Sbjct: 12 VKPGGSLRLTCVASGFTFSDVWLNWVRQAPGKGLEWVGRIKSRTDGGTTDYAASVKGRFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY--DAPGQPQDVKLVT 110
D + ++ ++S++ ED+ +Y CT + + S D Y D G+ V + +
Sbjct: 72 ISRDDSKNTLYLQMNSLKTEDTAVYSCTTDGFIMIRGVSEDYYYYYMDVWGKGTTVTVSS 131
Query: 111 SNSRSIKVH---------SGDRAGVQCLVTKGDP-PLTISW 141
++++ V SG A + CLV P P+T+SW
Sbjct: 132 ASTKGPSVFPLAPCSRSTSGGTAALGCLVKDYFPEPVTVSW 172
>pdb|4EXP|X Chain X, Structure Of Mouse Interleukin-34 In Complex With Mouse
Fms
Length = 283
Score = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 38/141 (26%), Positives = 62/141 (43%), Gaps = 13/141 (9%)
Query: 66 ISSVRVEDSGIYQC-TATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRA 124
I +V DS Y C T N S + ++V +P +KL S I+ G+ A
Sbjct: 148 IRKAKVLDSNTYVCKTMVNGRESTSTGIWLKVNRVHPEPPQIKLEPSKLVRIR---GEAA 204
Query: 125 GVQCLVTKGDPPLTISWLKNG-----LPILSDAEITIRSSGEYTSSLSIATLSTGHSGNY 179
+ C T + + LK G +P+ SD + + + +LS+ + +G Y
Sbjct: 205 QIVCSATNAEVGFNVI-LKRGDTKLEIPLNSDFQ---DNYYKKVRALSLNAVDFQDAGIY 260
Query: 180 TCVASNTVASDNHSSNLRVNE 200
+CVASN V + + N +V E
Sbjct: 261 SCVASNDVGTRTATMNFQVVE 281
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 28/39 (71%)
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDA 99
+ +++++V +D+GIY C A+N VG++T + + +V ++
Sbjct: 244 VRALSLNAVDFQDAGIYSCVASNDVGTRTATMNFQVVES 282
>pdb|3GHB|H Chain H, Crystal Structure Of Anti-Hiv-1 Fab 447-52d In Complex
With V3 Peptide W2rw020
pdb|3GHB|I Chain I, Crystal Structure Of Anti-Hiv-1 Fab 447-52d In Complex
With V3 Peptide W2rw020
Length = 235
Score = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 37/161 (22%), Positives = 67/161 (41%), Gaps = 33/161 (20%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW------KLDGYPLAGDRFVMGQYM 54
++PG + L C+A+G P + W + DG V G++
Sbjct: 12 VKPGGSLRLTCVASGFTFSDVWLNWVRQAPGKGLEWVGRIKSRTDGGTTDYAASVKGRFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY--DAPGQPQDVKLVT 110
D + ++ ++S++ ED+ +Y CT + + S D Y D G+ V + +
Sbjct: 72 ISRDDSKNTLYLQMNSLKTEDTAVYSCTTDGFIMIRGVSEDYYYYYMDVWGKGTTVTVSS 131
Query: 111 SNSRSIKVH---------SGDRAGVQCLVTKGDP-PLTISW 141
++++ V SG A + CLV P P+T+SW
Sbjct: 132 ASTKGPSVFPLAPCSRSTSGGTAALGCLVKDYFPEPVTVSW 172
>pdb|4FAB|H Chain H, Three-Dimensional Structure Of A Fluorescein-Fab Complex
Crystallized In 2-Methyl-2,4-Pentanediol
Length = 216
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 39/159 (24%), Positives = 68/159 (42%), Gaps = 42/159 (26%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAGDRF----VMGQYM 54
+QPG P+ L C+A+G +P + W ++ P + + V G++
Sbjct: 12 VQPGRPMKLSCVASGFTFSDYWMNWVRQSPEKGLEWVAQIRNKPYNYETYYSDSVKGRFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
D S ++ ++++RVED GIY CT + D GQ V + ++
Sbjct: 72 ISRDDSKSSVYLQMNNLRVEDMGIYYCTGS-----------YYGMDYWGQGTSVTVSSAK 120
Query: 113 SRSIKVH-----SGDRAG----VQCLVTKGDP-PLTISW 141
+ + V+ GD G + CLV P P+T++W
Sbjct: 121 TTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|1NFD|B Chain B, An Alpha-Beta T Cell Receptor (Tcr) Heterodimer In Complex
With An Anti-Tcr Fab Fragment Derived From A Mitogenic
Antibody
pdb|1NFD|D Chain D, An Alpha-Beta T Cell Receptor (Tcr) Heterodimer In Complex
With An Anti-Tcr Fab Fragment Derived From A Mitogenic
Antibody
Length = 239
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 33/135 (24%), Positives = 61/135 (45%), Gaps = 22/135 (16%)
Query: 47 RFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQP--- 103
RF + Q+ H S +N+S++ +EDS +Y C ++ R G + Y PG
Sbjct: 63 RFSVQQFDDYH----SEMNMSALELEDSAMYFCASSLRWGDEQ-------YFGPGTRLTV 111
Query: 104 -QDVKLVTSNSRSI------KVHSGDRAGVQCLVTKGDPP-LTISWLKNGLPILSDAEIT 155
+D++ VT S+ ++ + +A + CL P + +SW NG + S
Sbjct: 112 LEDLRNVTPPKVSLFEPSKAEIANKQKATLVCLARGFFPDHVELSWWVNGKEVHSGVSTD 171
Query: 156 IRSSGEYTSSLSIAT 170
++ E S S+++
Sbjct: 172 PQAYKESNYSYSLSS 186
>pdb|3EJJ|X Chain X, Structure Of M-Csf Bound To The First Three Domains Of Fms
Length = 289
Score = 35.4 bits (80), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 38/141 (26%), Positives = 62/141 (43%), Gaps = 13/141 (9%)
Query: 66 ISSVRVEDSGIYQC-TATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRA 124
I +V DS Y C T N S + ++V +P +KL S I+ G+ A
Sbjct: 148 IRKAKVLDSNTYVCKTMVNGRESTSTGIWLKVNRVHPEPPQIKLEPSKLVRIR---GEAA 204
Query: 125 GVQCLVTKGDPPLTISWLKNG-----LPILSDAEITIRSSGEYTSSLSIATLSTGHSGNY 179
+ C T + + LK G +P+ SD + + + +LS+ + +G Y
Sbjct: 205 QIVCSATNAEVGFNVI-LKRGDTKLEIPLNSDFQ---DNYYKKVRALSLNAVDFQDAGIY 260
Query: 180 TCVASNTVASDNHSSNLRVNE 200
+CVASN V + + N +V E
Sbjct: 261 SCVASNDVGTRTATMNFQVVE 281
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 28/39 (71%)
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDA 99
+ +++++V +D+GIY C A+N VG++T + + +V ++
Sbjct: 244 VRALSLNAVDFQDAGIYSCVASNDVGTRTATMNFQVVES 282
>pdb|2VAJ|A Chain A, Crystal Structure Of Ncam2 Ig1 (I4122 Cell Unit)
Length = 93
Score = 35.4 bits (80), Expect = 0.035, Method: Composition-based stats.
Identities = 26/90 (28%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 4 QLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGD-VIS 62
Q+ + L G C A G P +D Y G++ + Q + + + V S
Sbjct: 2 QVTISLSKVELSVGESKFFTCTAIGEPE-----SIDWYNPQGEKIISTQRVVVQKEGVRS 56
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSA 92
+ I + +ED+GIY+C AT+ G QT A
Sbjct: 57 RLTIYNANIEDAGIYRCQATDAKG-QTQEA 85
>pdb|3Q5Y|A Chain A, V BetaV BETA HOMODIMERIZATION-Based Pre-Tcr Model
Suggested By Tcr Beta Crystal Structures
pdb|3Q5Y|B Chain B, V BetaV BETA HOMODIMERIZATION-Based Pre-Tcr Model
Suggested By Tcr Beta Crystal Structures
pdb|3Q5Y|C Chain C, V BetaV BETA HOMODIMERIZATION-Based Pre-Tcr Model
Suggested By Tcr Beta Crystal Structures
pdb|3Q5Y|D Chain D, V BetaV BETA HOMODIMERIZATION-Based Pre-Tcr Model
Suggested By Tcr Beta Crystal Structures
Length = 240
Score = 35.4 bits (80), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 33/135 (24%), Positives = 61/135 (45%), Gaps = 22/135 (16%)
Query: 47 RFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQP--- 103
RF + Q+ H S +N+S++ +EDS +Y C ++ R G + Y PG
Sbjct: 64 RFSVQQFDDYH----SEMNMSALELEDSAMYFCASSLRWGDEQ-------YFGPGTRLTV 112
Query: 104 -QDVKLVTSNSRSI------KVHSGDRAGVQCLVTKGDPP-LTISWLKNGLPILSDAEIT 155
+D++ VT S+ ++ + +A + CL P + +SW NG + S
Sbjct: 113 LEDLRNVTPPKVSLFEPSKAEIANKQKATLVCLARGFFPDHVELSWWVNGKEVHSGVSTD 172
Query: 156 IRSSGEYTSSLSIAT 170
++ E S S+++
Sbjct: 173 PQAYKESNYSYSLSS 187
>pdb|1ZVO|C Chain C, Semi-Extended Solution Structure Of Human Myeloma
Immunoglobulin D Determined By Constrained X-Ray
Scattering
pdb|1ZVO|D Chain D, Semi-Extended Solution Structure Of Human Myeloma
Immunoglobulin D Determined By Constrained X-Ray
Scattering
Length = 512
Score = 35.4 bits (80), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 59/230 (25%), Positives = 84/230 (36%), Gaps = 53/230 (23%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWKLDGY--------PLAGDRFVMGQYM--------SLH 57
++P +SL CI +G P + GY P G ++ G Y SL
Sbjct: 12 VKPSETLSLTCIVSGGPI-----RRTGYYWGWIRQPPGKGLEWIGGVYYTGSIYYNPSLR 66
Query: 58 GDVISHV---------NISSVRVEDSGIYQCTATN-----RVGSQT--------HSADMR 95
G V V N+ S+ D+ +Y C N +G+ + +
Sbjct: 67 GRVTISVDTSRNQFSLNLRSMSAADTAMYYCARGNPPPYYDIGTGSDDGIDVWGQGTTVH 126
Query: 96 VYDAPGQPQDVKLVTSNSRSIKVHSGDRAGV--QCLVTKGDP-PLTISWL--KNGLPILS 150
V AP + DV + S R H D + V CL+T P +T++W P +
Sbjct: 127 VSSAPTKAPDVFPIISGCR----HPKDNSPVVLACLITGYHPTSVTVTWYMGTQSQPQRT 182
Query: 151 DAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNE 200
EI R S TSS L G Y CV +T AS + R E
Sbjct: 183 FPEIQRRDSYYMTSSQLSTPLQQWRQGEYKCVVQHT-ASKSKKEIFRWPE 231
>pdb|1BJ1|H Chain H, Vascular Endothelial Growth Factor In Complex With A
Neutralizing Antibody
pdb|1BJ1|K Chain K, Vascular Endothelial Growth Factor In Complex With A
Neutralizing Antibody
Length = 231
Score = 35.4 bits (80), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 38/157 (24%), Positives = 61/157 (38%), Gaps = 33/157 (21%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW-----KLDGYPLAGDRFVMGQYMS 55
+QPG + L C A+G P + W G P F S
Sbjct: 12 VQPGGSLRLSCAASGYTFTNYGMNWVRQAPGKGLEWVGWINTYTGEPTYAADFKRRFTFS 71
Query: 56 LH-GDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR 114
L +++ ++S+R ED+ +Y C +H +D GQ V + +++++
Sbjct: 72 LDTSKSTAYLQMNSLRAEDTAVYYCAKYPHYYGSSH----WYFDVWGQGTLVTVSSASTK 127
Query: 115 ---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 128 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 164
>pdb|3O4O|C Chain C, Crystal Structure Of An Interleukin-1 Receptor Complex
Length = 339
Score = 35.4 bits (80), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 29/114 (25%), Positives = 51/114 (44%), Gaps = 13/114 (11%)
Query: 34 ISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQ----T 89
I W D L D +++S+ G +H+ + V +ED+G Y+C T Q T
Sbjct: 157 IQWYKDSLLLDKDN---EKFLSVRG--TTHLLVHDVALEDAGYYRCVLTFAHEGQQYNIT 211
Query: 90 HSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVT--KGDPPLTISW 141
S ++R+ + + + ++ S ++I G R + C V G P T+ W
Sbjct: 212 RSIELRI--KKKKEETIPVIISPLKTISASLGSRLTIPCKVFLGTGTPLTTMLW 263
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 45/197 (22%), Positives = 76/197 (38%), Gaps = 36/197 (18%)
Query: 17 GPPVSLKC-------IATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSV 69
G PV+L+C A+ +P +++W + R V G+ + + +
Sbjct: 33 GEPVALRCPQVPYWLWASVSPRINLTWHKND----SARTVPGEEETRMWAQDGALWLLPA 88
Query: 70 RVEDSGIYQCTATNRVGSQTHSADMRVYDAP-------GQPQDVKLVTSN---SRSIKVH 119
EDSG Y CT N S ++RV++ PQ + L TS +
Sbjct: 89 LQEDSGTYVCTTRNASYCDKMSIELRVFENTDAFLPFISYPQILTLSTSGVLVCPDLSEF 148
Query: 120 SGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNY 179
+ D+ V+ I W K+ L + D E + G T+ L + ++ +G Y
Sbjct: 149 TRDKTDVK-----------IQWYKDSLLLDKDNEKFLSVRG--TTHLLVHDVALEDAGYY 195
Query: 180 TCVASNTVASDNHSSNL 196
CV T A + N+
Sbjct: 196 RCVL--TFAHEGQQYNI 210
>pdb|4FMK|A Chain A, Crystal Structure Of Mouse Nectin-2 Extracellular Fragment
D1-D2
pdb|4FN0|A Chain A, Crystal Structure Of Mouse Nectin-2 Extracellular Fragment
D1-D2, 2nd Crystal Form
pdb|4FN0|B Chain B, Crystal Structure Of Mouse Nectin-2 Extracellular Fragment
D1-D2, 2nd Crystal Form
pdb|4FN0|C Chain C, Crystal Structure Of Mouse Nectin-2 Extracellular Fragment
D1-D2, 2nd Crystal Form
Length = 225
Score = 35.0 bits (79), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 36/78 (46%), Gaps = 8/78 (10%)
Query: 66 ISSVRVEDSGIYQCT-ATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRA 124
+RVED G Y C AT G++ +RV P + + VT +S+ V
Sbjct: 87 FRGLRVEDEGNYTCEFATFPNGTRRGVTWLRVIAQPENHAEAQEVTIGPQSVAV------ 140
Query: 125 GVQCLVTKGDPPLTISWL 142
+C+ T G PP I+W+
Sbjct: 141 -ARCVSTGGRPPARITWI 157
>pdb|2QQN|H Chain H, Neuropilin-1 B1 Domain In Complex With A Vegf-Blocking Fab
Length = 230
Score = 35.0 bits (79), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 64/160 (40%), Gaps = 39/160 (24%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG---------DRFVMG 51
+QPG + L C A+G P + W P G RF +
Sbjct: 12 VQPGGSLRLSCAASGFTFSSYAMSWVRQAPGKGLEWVSQISPAGGYTNYADSVKGRFTIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
S + +++ ++S+R ED+ +Y C G + +V D GQ V + ++
Sbjct: 72 ADTSKN---TAYLQMNSLRAEDTAVYYCAR----GELPYYRMSKVMDVWGQGTLVTVSSA 124
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+++ S K SG A + CLV P P+T+SW
Sbjct: 125 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 164
>pdb|4D9R|H Chain H, Inhibiting Alternative Pathway Complement Activation By
Targeting The Exosite On Factor D
pdb|4D9R|E Chain E, Inhibiting Alternative Pathway Complement Activation By
Targeting The Exosite On Factor D
Length = 218
Score = 35.0 bits (79), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 38/147 (25%), Positives = 58/147 (39%), Gaps = 23/147 (15%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISW-----KLDGYPLAGDRFVMGQYMSL 56
+PG V + C A+G P + W G D F SL
Sbjct: 13 KPGASVKVSCKASGYTFTNYGMNWVRQAPGQGLEWMGWINTYTGETTYADDFKGRFVFSL 72
Query: 57 HGDV-ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRS 115
V +++ ISS++ ED+ +Y C V + + V A + V + +S+S
Sbjct: 73 DTSVSTAYLQISSLKAEDTAVYYCEREGGVNNWGQGTLVTVSSASTKGPSVFPLAPSSKS 132
Query: 116 IKVHSGDRAGVQCLVTKGDP-PLTISW 141
SG A + CLV P P+T+SW
Sbjct: 133 T---SGGTAALGCLVKDYFPEPVTVSW 156
>pdb|1FLR|H Chain H, 4-4-20 Fab Fragment
Length = 219
Score = 35.0 bits (79), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 39/159 (24%), Positives = 68/159 (42%), Gaps = 42/159 (26%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAGDRF----VMGQYM 54
+QPG P+ L C+A+G +P + W ++ P + + V G++
Sbjct: 12 VQPGRPMKLSCVASGFTFSDYWMNWVRQSPEKGLEWVAQIRNKPYNYETYYSDSVKGRFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
D S ++ ++++RVED GIY CT + D GQ V + ++
Sbjct: 72 ISRDDSKSSVYLQMNNLRVEDMGIYYCTGS-----------YYGMDYWGQGTSVTVSSAK 120
Query: 113 SRSIKVH-----SGDRAG----VQCLVTKGDP-PLTISW 141
+ + V+ GD G + CLV P P+T++W
Sbjct: 121 TTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|2OSL|H Chain H, Crystal Structure Of Rituximab Fab In Complex With An
Epitope Peptide
pdb|2OSL|A Chain A, Crystal Structure Of Rituximab Fab In Complex With An
Epitope Peptide
Length = 224
Score = 35.0 bits (79), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 41/162 (25%), Positives = 64/162 (39%), Gaps = 31/162 (19%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRFVMGQY---MS 55
+ ++PG V + C A+G P + W YP GD ++ +
Sbjct: 10 ELVKPGASVKMSCKASGYTFTSYNMHWVKQTPGRGLEWIGAIYPGNGDTSYNQKFKGKAT 69
Query: 56 LHGDVIS---HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
L D S ++ +SS+ EDS +Y C + G + V+ A G V ++
Sbjct: 70 LTADKSSSTAYMQLSSLTSEDSAVYYCARSTYYGGDWY---FNVWGA-GTTVTVSAASTK 125
Query: 113 SRSI-------KVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S+ K SG A + CLV P P+T+SW L
Sbjct: 126 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 167
>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 = 35.0 bits (79), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 66/159 (41%), Gaps = 36/159 (22%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFV-MGQ 52
+ ++PG V + C ATG P + W + P +G ++F
Sbjct: 10 ELMKPGASVKISCKATGYTFSSFWIEWVKQRPGHGLEWIGEILPGSGGTHYNEKFKGKAT 69
Query: 53 YMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ + +++ +SS+ EDS +Y C ++ HS D GQ V + +++
Sbjct: 70 FTADKSSNTAYMQLSSLTSEDSAVYYC-------ARGHSYYFYDGDYWGQGTSVTVSSAS 122
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
++ S K SG A + CLV P P+T+SW
Sbjct: 123 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 161
>pdb|4D9Q|E Chain E, Inhibiting Alternative Pathway Complement Activation By
Targeting The Exosite On Factor D
pdb|4D9Q|H Chain H, Inhibiting Alternative Pathway Complement Activation By
Targeting The Exosite On Factor D
Length = 217
Score = 35.0 bits (79), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 38/147 (25%), Positives = 58/147 (39%), Gaps = 23/147 (15%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISW-----KLDGYPLAGDRFVMGQYMSL 56
+PG V + C A+G P + W G D F SL
Sbjct: 13 KPGASVKVSCKASGYTFTNYGMNWVRQAPGQGLEWMGWINTYTGETTYADDFKGRFVFSL 72
Query: 57 HGDV-ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRS 115
V +++ ISS++ ED+ +Y C V + + V A + V + +S+S
Sbjct: 73 DTSVSTAYLQISSLKAEDTAVYYCEREGGVNNWGQGTLVTVSSASTKGPSVFPLAPSSKS 132
Query: 116 IKVHSGDRAGVQCLVTKGDP-PLTISW 141
SG A + CLV P P+T+SW
Sbjct: 133 T---SGGTAALGCLVKDYFPEPVTVSW 156
>pdb|3MJG|X Chain X, The Structure Of A Platelet Derived Growth Factor Receptor
Complex
pdb|3MJG|Y Chain Y, The Structure Of A Platelet Derived Growth Factor Receptor
Complex
Length = 289
Score = 35.0 bits (79), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 34/80 (42%), Gaps = 7/80 (8%)
Query: 10 IQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHV----N 65
+Q ++ G ++L CI GN + W YP ++ D+ H+ +
Sbjct: 189 VQTVVRQGENITLMCIVIGNEVVNFEWT---YPRKESGRLVEPVTDFLLDMPYHIRSILH 245
Query: 66 ISSVRVEDSGIYQCTATNRV 85
I S +EDSG Y C T V
Sbjct: 246 IPSAELEDSGTYTCNVTESV 265
>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 = 35.0 bits (79), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 40/159 (25%), Positives = 68/159 (42%), Gaps = 37/159 (23%)
Query: 12 QTLQPGPPVSLKCIATGNPTPH--ISWKLD----GYPLAGDRFVMGQYMS----LHGDVI 61
+ ++PG V + C A G + I W G GD ++ G Y++ G VI
Sbjct: 9 ELVRPGTSVKMSCKAVGYTFTYDWIGWVKQRPGHGLEWIGDIYLGGGYINYNEKFKGKVI 68
Query: 62 ---------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+++ +SS+ EDS IY C + GS +D GQ + + ++
Sbjct: 69 LTADTSSSTAYMQLSSLTSEDSAIYYCARGHYDGS--------YFDYWGQGTTLTVSSAK 120
Query: 113 SRSIKVH-----SGDRAG----VQCLVTKGDP-PLTISW 141
+ + V+ GD +G + CLV P P+T++W
Sbjct: 121 TTAPSVYPLAPVCGDTSGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|3S96|B Chain B, Crystal Structure Of 3b5h10
pdb|3S96|D Chain D, Crystal Structure Of 3b5h10
Length = 218
Score = 35.0 bits (79), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 44/90 (48%), Gaps = 5/90 (5%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQ---THSADMRVYDAPGQPQDVKLVTSNSRSIKVH 119
+++IS+++ ED IY C + + Q +V GQP+ +T S +
Sbjct: 76 YLSISNIQPEDEAIYICGVGDTIKEQFVYVFGGGTKV-TVLGQPKSTPTLTVFPPSSEEL 134
Query: 120 SGDRAGVQCLVTKGDPP-LTISWLKNGLPI 148
++A + CL++ P +T++W NG PI
Sbjct: 135 KENKATLVCLISNFSPSGVTVAWKANGTPI 164
>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 = 35.0 bits (79), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 66/159 (41%), Gaps = 36/159 (22%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFV-MGQ 52
+ ++PG V + C ATG P + W + P +G ++F
Sbjct: 10 ELMKPGASVKISCKATGYTFSSFWIEWVKQRPGHGLEWIGEILPGSGGTHYNEKFKGKAT 69
Query: 53 YMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ + +++ +SS+ EDS +Y C ++ HS D GQ V + +++
Sbjct: 70 FTADKSSNTAYMQLSSLTSEDSAVYYC-------ARGHSYYFYDGDYWGQGTSVTVSSAS 122
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
++ S K SG A + CLV P P+T+SW
Sbjct: 123 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 161
>pdb|2EH7|H Chain H, Crystal Structure Of Humanized Kr127 Fab
pdb|2EH8|H Chain H, Crystal Structure Of The Complex Of Humanized Kr127 Fab
And Pres1 Peptide Epitope
Length = 218
Score = 35.0 bits (79), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 62/155 (40%), Gaps = 23/155 (14%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRFVMGQYM---S 55
+ ++PG V + C A+G P + W YP GD ++ +
Sbjct: 10 EVVKPGASVKVSCKASGYAFSSSWMNWVRQAPGQGLEWIGRIYPGDGDTNYAQKFQGKAT 69
Query: 56 LHGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
L D +++ +SS+R ED+ +Y C + V A + V + +
Sbjct: 70 LTADKSTSTAYMELSSLRSEDTAVYFCAREYDEAYWGQGTLVTVSSASTKGPSVFPLAPS 129
Query: 113 SRSIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S+S SG A + CLV P P+T+SW L
Sbjct: 130 SKST---SGGTAALGCLVKDYFPEPVTVSWNSGAL 161
>pdb|2QHR|L Chain L, Crystal Structure Of The 13f6-1-2 Fab Fragment Bound To
Its Ebola Virus Glycoprotein Peptide Epitope
Length = 218
Score = 35.0 bits (79), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 44/90 (48%), Gaps = 5/90 (5%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQ---THSADMRVYDAPGQPQDVKLVTSNSRSIKVH 119
+++IS+++ ED IY C + + Q +V GQP+ +T S +
Sbjct: 76 YLSISNIQPEDEAIYICGVGDTIKEQFVYVFGGGTKV-TVLGQPKSTPTLTVFPPSSEEL 134
Query: 120 SGDRAGVQCLVTKGDPP-LTISWLKNGLPI 148
++A + CL++ P +T++W NG PI
Sbjct: 135 KENKATLVCLISNFSPSGVTVAWKANGTPI 164
>pdb|4EOW|H Chain H, Crystal Structure Of A Disease-Associated Anti-Human
Gm-Csf Autoantibody Mb007
Length = 228
Score = 35.0 bits (79), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 42/157 (26%), Positives = 64/157 (40%), Gaps = 31/157 (19%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISW-----KLDGYPLAGDRFVMGQYMSL 56
+PG V + C A+G P + W G P F SL
Sbjct: 13 KPGASVKVSCKASGYSFSRYGIKWVRQAPGQGLEWMGWINTRSGVPAYAQGFTGRFVFSL 72
Query: 57 HGDV-ISHVNISSVRVEDSGIYQC-TATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR 114
V + + ISS++ ED+GIY C T R +T + +D G+ V + +++++
Sbjct: 73 DTSVDTAFLEISSLKTEDTGIYYCATRPPRFYDKTEYWE-DGFDVWGRGTLVTVSSASTK 131
Query: 115 ---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 132 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 168
>pdb|3QPX|H Chain H, Crystal Structure Of Fab C2507
Length = 228
Score = 35.0 bits (79), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 37/160 (23%), Positives = 64/160 (40%), Gaps = 43/160 (26%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGD---------RFVMG 51
+QPG P+ L C A+G P + W P G RFV+
Sbjct: 12 VQPGSPLKLSCAASGLTFSANWLNWIRQAPGKGLEWVASISPDGGSTSYSDTVKGRFVVS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
+ + ++ ++++R ED+ +Y C + + +D GQ V + ++
Sbjct: 72 K---DNAKKTGYLQMNNLRSEDTAMYYCA--------RRATRVSPFDYWGQGVTVTVSSA 120
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+++ S K SG A + CLV P P+T+SW
Sbjct: 121 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>pdb|4HWU|A Chain A, Crystal Structure Of The Ig-C2 Type 1 Domain From Mouse
Fibroblast Growth Factor Receptor 2 (Fgfr2)
[nysgrc-005912]
pdb|4HWU|B Chain B, Crystal Structure Of The Ig-C2 Type 1 Domain From Mouse
Fibroblast Growth Factor Receptor 2 (Fgfr2)
[nysgrc-005912]
Length = 95
Score = 35.0 bits (79), Expect = 0.054, Method: Composition-based stats.
Identities = 26/86 (30%), Positives = 38/86 (44%), Gaps = 14/86 (16%)
Query: 16 PGPPVSLKCIATGNPTPHISWKLDGYPLAGDR--FVMGQYMSLHGDVISHVNISSVRVED 73
PG + L+C+ ISW DG L + ++G+Y+ + G D
Sbjct: 15 PGESLELQCMLKDAAV--ISWTKDGVHLGPNNRTVLIGEYLQIKG----------ATPRD 62
Query: 74 SGIYQCTATNRVGSQTHSADMRVYDA 99
SG+Y CTA V S+T + V DA
Sbjct: 63 SGLYACTAARTVDSETWIFMVNVTDA 88
>pdb|3BKY|H Chain H, Crystal Structure Of Chimeric Antibody C2h7 Fab In Complex
With A Cd20 Peptide
Length = 226
Score = 34.7 bits (78), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 42/171 (24%), Positives = 70/171 (40%), Gaps = 38/171 (22%)
Query: 9 FIQQT----LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGD----- 46
++QQ+ ++PG V + C A+G P + W YP GD
Sbjct: 3 YLQQSGAELVRPGASVKMSCKASGYTFTSYNMHWVKQTPRQGLEWIGAIYPGNGDTSYNQ 62
Query: 47 RFVMGQYMSL-HGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQD 105
+F +++ +++ +SS+ EDS +Y C RV +S +D G
Sbjct: 63 KFKGKATLTVDKSSSTAYMQLSSLTSEDSAVYFCA---RV--VYYSNSYWYFDVWGTGTT 117
Query: 106 VKLVTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
V + ++++ S K SG A + CLV P P+T+SW L
Sbjct: 118 VTVSAASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 168
>pdb|4HPY|L Chain L, Crystal Structure Of Rv144-elicited Antibody Ch59 In
Complex With V2 Peptide
Length = 215
Score = 34.7 bits (78), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 31/127 (24%), Positives = 58/127 (45%), Gaps = 6/127 (4%)
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS 120
++ + IS +VED Y C +T+ G+ GQP+ VT S +
Sbjct: 70 MATLTISGAQVEDEADYYCYSTDSSGNHRVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQ 129
Query: 121 GDRAGVQCLVTKGDP-PLTISWLKNGLPILSDAEITI---RSSGEYTSS--LSIATLSTG 174
++A + CL++ P +T++W + P+ + E T +S+ +Y +S LS+
Sbjct: 130 ANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWK 189
Query: 175 HSGNYTC 181
+Y+C
Sbjct: 190 SHRSYSC 196
>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 = 34.7 bits (78), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 39/164 (23%), Positives = 67/164 (40%), Gaps = 36/164 (21%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFV-MGQ 52
+ ++PG V + C ATG P + W + P +G ++F
Sbjct: 10 ELMKPGASVKISCKATGYTFSSYWIEWVKQRPGHGLEWIGEILPGSGSTNYNEKFKGKAT 69
Query: 53 YMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ + +++ +SS+ EDS +Y C ++ HS D GQ V + +++
Sbjct: 70 FTADTSSNTAYMQLSSLTSEDSAVYYC-------ARGHSYYFYDGDYWGQGTSVTVSSAS 122
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
++ S K SG A + CLV P P+T+SW L
Sbjct: 123 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 166
>pdb|3BN9|D Chain D, Crystal Structure Of Mt-Sp1 In Complex With Fab Inhibitor
E2
pdb|3BN9|F Chain F, Crystal Structure Of Mt-Sp1 In Complex With Fab Inhibitor
E2
Length = 257
Score = 34.7 bits (78), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 28/94 (29%), Positives = 46/94 (48%), Gaps = 19/94 (20%)
Query: 63 HVNISSVRVEDSGIYQC-----TATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR--- 114
++ +SS+R ED+ +Y C T R G Q ++ +D GQ V + +++++
Sbjct: 80 YLQMSSLRAEDTAVYYCARPYLTYPQRRGPQ----NVSPFDNWGQGTMVTVSSASTKGPS 135
Query: 115 ------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 136 VFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 169
>pdb|3ZTJ|G Chain G, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H3 Influenza Haemagglutinin.
pdb|3ZTJ|I Chain I, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H3 Influenza Haemagglutinin.
pdb|3ZTJ|K Chain K, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H3 Influenza Haemagglutinin.
pdb|3ZTN|H Chain H, Structure Of Influenza A Neutralizing Antibody Selected
From Cultures Of Single Human Plasma Cells In Complex
With Human H1 Influenza Haemagglutinin
Length = 226
Score = 34.7 bits (78), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 45/87 (51%), Gaps = 8/87 (9%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMR--VYDAPGQPQDVKLVTSNSRSIKVH- 119
++ ++S+R ED+ +Y C +++ S + + +D GQ V + +++++ V
Sbjct: 80 YLQMNSLRAEDTAVYYCAKDSQLRSLLYFEWLSQGYFDYWGQGTLVTVSSASTKGPSVFP 139
Query: 120 ----SGDRAGVQCLVTKGDP-PLTISW 141
SG A + CLV P P+T+SW
Sbjct: 140 LAPSSGGTAALGCLVKDYFPEPVTVSW 166
>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 = 34.7 bits (78), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 38/129 (29%), Positives = 58/129 (44%), Gaps = 29/129 (22%)
Query: 32 PHISWKLD-GYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTH 90
P W +D P+ G RF + + S++ ++ ++++R+EDSG+Y C T +
Sbjct: 54 PGEGWSVDYAAPVEG-RFTISRLNSIN---FLYLEMNNLRMEDSGLYFCARTGKY----- 104
Query: 91 SADMRVYDAPGQP--QDV---KLVTSNSRSI------------KVHSGDRAGVQCLVTKG 133
D PG+ QD LVT +S S K SG A + CLV
Sbjct: 105 -YDFWSGYPPGEEYFQDWGRGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDY 163
Query: 134 DP-PLTISW 141
P P+T+SW
Sbjct: 164 FPEPVTVSW 172
>pdb|3SO3|C Chain C, Structures Of Fab-Protease Complexes Reveal A Highly
Specific Non- Canonical Mechanism Of Inhibition
Length = 228
Score = 34.7 bits (78), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 44/89 (49%), Gaps = 12/89 (13%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ +SS+R ED+ +Y C + ++ + +D GQ V + +++++
Sbjct: 80 YLQMSSLRAEDTAVYYCVKDLGIAARRFVSG--AFDIWGQGTMVTVSSASTKGPSVFPLA 137
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 138 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 166
>pdb|2CMR|H Chain H, Crystal Structure Of The Hiv-1 Neutralizing Antibody D5
Fab Bound To The Gp41 Inner-Core Mimetic 5-Helix
Length = 217
Score = 34.7 bits (78), Expect = 0.071, Method: Compositional matrix adjust.
Identities = 42/166 (25%), Positives = 64/166 (38%), Gaps = 41/166 (24%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI---------- 61
+ +PG V + C A+G+ Y ++ R GQ + G +I
Sbjct: 10 EVRKPGASVKVSCKASGD-------TFSSYAISWVRQAPGQGLEWMGGIIPIFGTANYAQ 62
Query: 62 ----------------SHVNISSVRVEDSGIYQCTATN--RVGSQTHSAD--MRVYDAPG 101
+++ +SS+R ED+ IY C N +GS A + V A
Sbjct: 63 AFQGRVTITANESTSTAYMELSSLRSEDTAIYYCARDNPTLLGSDYWGAGTLVTVSSAST 122
Query: 102 QPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+ V + SRS SG A + CLV P P+T+SW L
Sbjct: 123 KGPSVFPLAPCSRST---SGGTAALGCLVKDYFPEPVTVSWNSGAL 165
>pdb|3H42|H Chain H, Crystal Structure Of Pcsk9 In Complex With Fab From Ldlr
Competitive Antibody
Length = 238
Score = 34.3 bits (77), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 43/89 (48%), Gaps = 14/89 (15%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED+ +Y C S + A +D GQ V + +++++
Sbjct: 80 YLQMNSLRAEDTAVYFCARDYDFWSAYYDA----FDVWGQGTMVTVSSASTKGPSVFPLA 135
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 136 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 164
>pdb|2LQR|A Chain A, Nmr Structure Of Ig3 Domain Of Palladin
Length = 108
Score = 34.3 bits (77), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 35/86 (40%), Gaps = 6/86 (6%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLA--GDRFVMGQYMSLHGDV 60
P K + G PV+ C GNP P I W DG ++ D + + + L G
Sbjct: 8 PFFEMKLKHYKIFEGMPVTFTCRVAGNPKPKIYWFKDGKQISPKSDHYTIQR--DLDGTC 65
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVG 86
H S+ ++D G Y A N G
Sbjct: 66 SLHTTAST--LDDDGNYTIMAANPQG 89
Score = 30.8 bits (68), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 114 RSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAE-ITIRSSGEYTSSLSIATLS 172
+ K+ G C V G+P I W K+G I ++ TI+ + T SL +
Sbjct: 15 KHYKIFEGMPVTFTCRVA-GNPKPKIYWFKDGKQISPKSDHYTIQRDLDGTCSLHTTAST 73
Query: 173 TGHSGNYTCVASN 185
GNYT +A+N
Sbjct: 74 LDDDGNYTIMAAN 86
>pdb|1MHP|H Chain H, Crystal Structure Of A Chimeric Alpha1 Integrin I-Domain
In Complex With The Fab Fragment Of A Humanized
Neutralizing Antibody
pdb|1MHP|X Chain X, Crystal Structure Of A Chimeric Alpha1 Integrin I-Domain
In Complex With The Fab Fragment Of A Humanized
Neutralizing Antibody
Length = 219
Score = 34.3 bits (77), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 18/89 (20%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED+ +Y CT D +D GQ V + +++++
Sbjct: 79 YLQMNSLRAEDTAVYYCT--------RGFGDGGYFDVWGQGTLVTVSSASTKGPSVFPLA 130
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 131 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 159
>pdb|2CQV|A Chain A, Solution Structure Of The Eighth Ig-Like Domain Of Human
Myosin Light Chain Kinase
Length = 114
Score = 34.3 bits (77), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 37/82 (45%), Gaps = 2/82 (2%)
Query: 117 KVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHS 176
KV +G+ + VT G P+T +W+K I + + +S E S L+I H
Sbjct: 18 KVRAGESVELFGKVT-GTQPITCTWMKFRKQIQESEHMKVENS-ENGSKLTILAARQEHC 75
Query: 177 GNYTCVASNTVASDNHSSNLRV 198
G YT + N + S NL V
Sbjct: 76 GCYTLLVENKLGSRQAQVNLTV 97
Score = 27.3 bits (59), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 20/42 (47%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQP 103
S + I + R E G Y N++GS+ ++ V D P P
Sbjct: 63 SKLTILAARQEHCGCYTLLVENKLGSRQAQVNLTVVDKPDPP 104
>pdb|4DAG|H Chain H, Structure Of The Human Metapneumovirus Fusion Protein With
Neutralizing Antibody Identifies A Pneumovirus Antigenic
Site
Length = 220
Score = 34.3 bits (77), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 41/157 (26%), Positives = 68/157 (43%), Gaps = 34/157 (21%)
Query: 14 LQPGPPVSLKCIATGN--PTPHISWKLDGYPLAGDRFVMGQY---MSLHGDVIS------ 62
+QPG L C A+G + ++SW + P G ++ Y + + D +
Sbjct: 12 VQPGGSRRLSCAASGFTVSSSYMSW-VRQTPGKGLEWISVFYSGGTTYYADAVKGRFSIS 70
Query: 63 --------HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR 114
H+ ++S+RVED+ IY C RV S+ S +D G V + +++++
Sbjct: 71 MDTSKNTLHLQMNSLRVEDTAIYYCA---RVLSRA-SGMPDAFDIWGPGTMVTVSSASTK 126
Query: 115 SIKVH---------SGDRAGVQCLVTKGDP-PLTISW 141
V SG A + CLV P P+T+SW
Sbjct: 127 GPSVFPLAPSSAATSGGTAALGCLVKDYFPEPVTVSW 163
>pdb|4HFU|H Chain H, Crystal Structure Of Fab 8m2 In Complex With A H2n2
Influenza Virus Hemagglutinin
Length = 226
Score = 34.3 bits (77), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 48/96 (50%), Gaps = 16/96 (16%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY-DAPGQPQDVKLVTSNSR------ 114
+++ +S++R ED+ +Y C RVG + S R Y D GQ V + +++++
Sbjct: 79 AYMEVSNLRSEDTAVYFCA---RVGGEWGSG--RYYLDHWGQGTLVTVSSASTKGPSVFP 133
Query: 115 ---SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 134 LAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 169
>pdb|3QEG|H Chain H, Crystal Structure Of Human N12-I2 Fab, An Adcc And
Neutralizing Anti- Hiv-1 Env Antibody
Length = 239
Score = 34.3 bits (77), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 48/100 (48%), Gaps = 15/100 (15%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGS-----QTHSADMRVYDAPGQPQDVKLVTSNSR-- 114
+++ + S++ EDS +Y C + +R S ++S + D GQ V + +++++
Sbjct: 79 AYMELRSLKSEDSAVYYCASDSRDFSYYEPGTSYSHYYNIMDVWGQGTTVTVSSASTKGP 138
Query: 115 -------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 139 SVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 178
>pdb|3U0W|H Chain H, Ad Related Murine Antibody Fragment
Length = 216
Score = 34.3 bits (77), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 36/151 (23%), Positives = 62/151 (41%), Gaps = 31/151 (20%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW---------KLDGYPLAGDRFVMG 51
+QPG + + C A+G P + W ++ P D+F++
Sbjct: 12 VQPGGSLKISCAASGFDFSRYWMNWVRQAPGKGLEWIGEINPDSSTINYTPSLKDKFIIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
+ + ++ +S VR ED+ IY C ++G + V A + V +
Sbjct: 72 R---DNAKNTLYLQMSKVRSEDTAIYYC--ARQMGYWGQGTTLTVSSASTKGPSVFPLAP 126
Query: 112 NSRSIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+S+S SG A + CLV P P+T+SW
Sbjct: 127 SSKST---SGGTAALGCLVKDYFPEPVTVSW 154
>pdb|1RZI|B Chain B, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|D Chain D, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|F Chain F, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|H Chain H, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|J Chain J, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|L Chain L, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|N Chain N, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
pdb|1RZI|P Chain P, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 47e Fab
Length = 230
Score = 34.3 bits (77), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 40/175 (22%), Positives = 66/175 (37%), Gaps = 49/175 (28%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI---------- 61
+ +PG V + C A+G Y ++ R GQ + G +I
Sbjct: 10 EVKKPGSSVKVSCKASGG-------TFSSYAISWVRQAPGQGLEWMGGIIPVFGSANYAQ 62
Query: 62 ----------------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY----DAPG 101
+++ +SS+R ED+ +Y C G + +D Y D G
Sbjct: 63 KFQGRVTITADEATSTTYMELSSLRSEDTAVYFCAKGGEDGD--YLSDPFYYNHGMDVWG 120
Query: 102 QPQDVKLVTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
Q V + +++++ S K SG A + CLV P P+T+SW L
Sbjct: 121 QGTTVTVASASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 175
>pdb|2H9G|B Chain B, Crystal Structure Of Phage Derived Fab Bdf1 With Human
Death Receptor 5 (dr5)
pdb|2H9G|H Chain H, Crystal Structure Of Phage Derived Fab Bdf1 With Human
Death Receptor 5 (dr5)
Length = 228
Score = 34.3 bits (77), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 41/159 (25%), Positives = 71/159 (44%), Gaps = 40/159 (25%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRF----VMGQYMSL 56
+QPG + L C A+G P + W YP G+ V G++ ++
Sbjct: 12 VQPGGSLRLSCAASGFSIGKSGIHWVRQAPGKGLEWVAVIYPHDGNTAYADSVKGRF-TI 70
Query: 57 HGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY-DAPGQPQDVKLVTSN 112
D +++ ++S+R ED+ +Y C R+ A +R++ D GQ V + +++
Sbjct: 71 SADTSKNTAYLQMNSLRAEDTAVYYC--ARRL------ALVRMWMDYWGQGTLVTVSSAS 122
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
++ S K SG A + CLV P P+T+SW
Sbjct: 123 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 161
>pdb|3EYQ|D Chain D, Crystal Structure Of Mj5 Fab, A Germline Antibody Variant
Of Anti-Human Cytomegalovirus Antibody 8f9
Length = 242
Score = 34.3 bits (77), Expect = 0.094, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 41/92 (44%), Gaps = 18/92 (19%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI------ 116
++ ++S+R ED+ +Y C + G + + + Y G LVT +S S
Sbjct: 80 YLQMNSLRAEDTAVYYCAKDGKCGGGSCYSGLLDYWGQGT-----LVTVSSASFKGPSVF 134
Query: 117 ------KVHSGDRAGVQCLVTKGDP-PLTISW 141
K SG A + CLV P P+T+SW
Sbjct: 135 PLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 166
>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 = 33.9 bits (76), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 44/89 (49%), Gaps = 17/89 (19%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED+ +Y C ++ A RV D G+ V + +++++
Sbjct: 80 YLQMNSLRAEDTAVYYC-------ARASIAAARVLDYWGRGTMVTVSSASTKGPSVFPLA 132
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 133 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 161
>pdb|2DM2|A Chain A, Solution Structure Of The First Ig Domain Of Human
Palladin
Length = 110
Score = 33.9 bits (76), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 35/86 (40%), Gaps = 6/86 (6%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLA--GDRFVMGQYMSLHGDV 60
P K + G PV+ C GNP P I W DG ++ D + + + L G
Sbjct: 9 PFFEMKLKHYKIFEGMPVTFTCRVAGNPKPKIYWFKDGKQISPKSDHYTIQR--DLDGTC 66
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVG 86
H S+ ++D G Y A N G
Sbjct: 67 SLHTTAST--LDDDGNYTIMAANPQG 90
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 33/73 (45%), Gaps = 2/73 (2%)
Query: 114 RSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAE-ITIRSSGEYTSSLSIATLS 172
+ K+ G C V G+P I W K+G I ++ TI+ + T SL +
Sbjct: 16 KHYKIFEGMPVTFTCRVA-GNPKPKIYWFKDGKQISPKSDHYTIQRDLDGTCSLHTTAST 74
Query: 173 TGHSGNYTCVASN 185
GNYT +A+N
Sbjct: 75 LDDDGNYTIMAAN 87
>pdb|1IT9|H Chain H, Crystal Structure Of An Antigen-Binding Fragment From A
Humanized Version Of The Anti-Human Fas Antibody Hfe7a
Length = 219
Score = 33.9 bits (76), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 46/90 (51%), Gaps = 16/90 (17%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ +SS+R ED+ +Y C A NR ++ +D G+ V + +++++
Sbjct: 79 AYMELSSLRSEDTAVYYC-ARNR-----DYSNNWYFDVWGEGTLVTVSSASTKGPSVFPL 132
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 133 APSSKSTSGGTAALGCLVKDYFPEPVTVSW 162
>pdb|2V7N|B Chain B, Unusual Twinning In Crystals Of The Cits Binding Antibody
Fab Fragment F3p4
pdb|2V7N|D Chain D, Unusual Twinning In Crystals Of The Cits Binding Antibody
Fab Fragment F3p4
pdb|2V7N|F Chain F, Unusual Twinning In Crystals Of The Cits Binding Antibody
Fab Fragment F3p4
pdb|2V7N|H Chain H, Unusual Twinning In Crystals Of The Cits Binding Antibody
Fab Fragment F3p4
Length = 229
Score = 33.9 bits (76), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 18/89 (20%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED+ +Y C + YD GQ V + +++++
Sbjct: 80 YLQMNSLRAEDTAVYYCA--------RFAGGWGAYDVWGQGTLVTVSSASTKGPSVFPLA 131
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 132 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>pdb|3U30|C Chain C, Crystal Structure Of A Linear-Specific Ubiquitin Fab Bound
To Linear Ubiquitin
pdb|3U30|F Chain F, Crystal Structure Of A Linear-Specific Ubiquitin Fab Bound
To Linear Ubiquitin
Length = 227
Score = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 39/160 (24%), Positives = 64/160 (40%), Gaps = 43/160 (26%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGD---------RFVMG 51
+QPG + L C A+G P + W P +G RF +
Sbjct: 12 VQPGGSLRLSCAASGFTFSNTYISWVRQAPGKGLEWVASITPSSGQTDYADSVKGRFTIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
S + +++ ++S+R ED+ +Y C T + V D GQ V + ++
Sbjct: 72 ADTSKN---TAYLQMNSLRAEDTAVYYCARTWLL--------RWVMDLWGQGTLVTVSSA 120
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+++ S K SG A + CLV P P+T+SW
Sbjct: 121 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 33.9 bits (76), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 23/33 (69%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRV 96
+N ++V V+D+G+Y C +N VG+ T SA + V
Sbjct: 399 LNFTNVTVQDTGMYTCMVSNSVGNTTASATLNV 431
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 20/84 (23%), Positives = 40/84 (47%), Gaps = 4/84 (4%)
Query: 116 IKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTG 174
+ V G A ++C + LT +SW+ +++ +R + +L+ ++
Sbjct: 351 LNVTEGMAAELKC---RASTSLTSVSWITPNGTVMTHGAYKVRIAVLSDGTLNFTNVTVQ 407
Query: 175 HSGNYTCVASNTVASDNHSSNLRV 198
+G YTC+ SN+V + S+ L V
Sbjct: 408 DTGMYTCMVSNSVGNTTASATLNV 431
>pdb|3NPS|B Chain B, Crystal Structure Of Membrane-Type Serine Protease 1
(Mt-Sp1) In Complex With The Fab Inhibitor S4
Length = 226
Score = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 45/95 (47%), Gaps = 11/95 (11%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ +SS+R ED+ +Y C T + + S D GQ V + +++++
Sbjct: 78 AYMELSSLRSEDTAVYYCARTFHI-RRYRSGYYDKMDHWGQGTLVTVSSASTKGPSVFPL 136
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 137 APSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 171
>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 = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 36/87 (41%), Gaps = 2/87 (2%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGI 76
G V++ C P+ ISW DG L + + S++ ++ D G
Sbjct: 33 GNQVNITCEVFAYPSATISWFRDGQLLPSSNY--SNIKIYNTPSASYLEVTPDSENDFGN 90
Query: 77 YQCTATNRVGSQTHSADMRVYDAPGQP 103
Y CTA NR+G ++ + D P P
Sbjct: 91 YNCTAVNRIGQESLEFILVQADTPSSP 117
Score = 30.8 bits (68), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 37/79 (46%), Gaps = 4/79 (5%)
Query: 115 SIKVHSGDRAGVQCLVTKGDPPLTISWLKNG--LPILSDAEITIRSSGEYTSSLSIATLS 172
++ G++ + C V P TISW ++G LP + + I I ++ S L + S
Sbjct: 27 AVYTWEGNQVNITCEVF-AYPSATISWFRDGQLLPSSNYSNIKIYNTPS-ASYLEVTPDS 84
Query: 173 TGHSGNYTCVASNTVASDN 191
GNY C A N + ++
Sbjct: 85 ENDFGNYNCTAVNRIGQES 103
>pdb|4GLR|H Chain H, Structure Of The Anti-ptau Fab (pt231/ps235_1) In Complex
With Phosphoepitope Pt231/ps235
pdb|4GLR|J Chain J, Structure Of The Anti-ptau Fab (pt231/ps235_1) In Complex
With Phosphoepitope Pt231/ps235
Length = 229
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 43/95 (45%), Gaps = 10/95 (10%)
Query: 57 HGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-- 114
+G + ++++R ED+G Y C Q + DA G +V + +++++
Sbjct: 74 NGQSTVRLQLNNLRAEDTGTYYCAKPALDSDQCGFPEAGCIDAWGHGTEVIVSSASTKGP 133
Query: 115 -------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 134 SVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 168
>pdb|1RZ7|H Chain H, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 48d
pdb|4DVR|H Chain H, Crystal Structure Of Yu2 Gp120 Core In Complex With Fab
48d And Nbd- 557
Length = 219
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 43/89 (48%), Gaps = 18/89 (20%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ +SS+R ED+ +Y C A ++ ++ GQ V + +++++
Sbjct: 80 YLELSSLRSEDTAVYYCAA--------DPWELNAFNVWGQGTLVSVSSASTKGPSVFPLA 131
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 132 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>pdb|2NPL|X Chain X, Nmr Structure Of Card D2 Domain
Length = 96
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 39/81 (48%), Gaps = 9/81 (11%)
Query: 121 GDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSS-GEYTSS-LSIATLSTGHSGN 178
G ++C +G PL W K LSD++ S E TSS +S+ S+ +SG
Sbjct: 16 GSDFKIKCEPKEGSLPLQYEWQK-----LSDSQKMPTSWLAEMTSSVISVKNASSEYSGT 70
Query: 179 YTCVASNTVASDNHSSNLRVN 199
Y+C N V SD LR+N
Sbjct: 71 YSCTVRNRVGSDQ--CLLRLN 89
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 25/43 (58%), Gaps = 3/43 (6%)
Query: 200 EYTSS-LSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVPP 241
E TSS +S+ S+ +SG Y+C N V SD LR+NV P
Sbjct: 52 EMTSSVISVKNASSEYSGTYSCTVRNRVGSDQ--CLLRLNVVP 92
Score = 27.3 bits (59), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 17/28 (60%), Positives = 17/28 (60%), Gaps = 3/28 (10%)
Query: 60 VISHVNISSVRVEDSGIYQCTATNRVGS 87
VIS N SS E SG Y CT NRVGS
Sbjct: 57 VISVKNASS---EYSGTYSCTVRNRVGS 81
>pdb|3JWD|H Chain H, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
pdb|3JWD|P Chain P, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
pdb|3JWO|H Chain H, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
Length = 220
Score = 33.5 bits (75), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 43/89 (48%), Gaps = 18/89 (20%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ +SS+R ED+ +Y C A ++ ++ GQ V + +++++
Sbjct: 80 YLELSSLRSEDTAVYYCAA--------DPWELNAFNVWGQGTLVSVSSASTKGPSVFPLA 131
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 132 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>pdb|1IRA|Y Chain Y, Complex Of The Interleukin-1 Receptor With The
Interleukin-1 Receptor Antagonist (il1ra)
pdb|4GAF|B Chain B, Crystal Structure Of Ebi-005, A Chimera Of Human Il-1beta
And Il-1ra, Bound To Human Interleukin-1 Receptor Type 1
Length = 319
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 53/125 (42%), Gaps = 18/125 (14%)
Query: 70 RVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI---KVHSGDRAGV 126
+VEDSG Y C N S +R+ + ++ + N+++I K+ G+
Sbjct: 70 KVEDSGHYYCVVRNS------SYCLRIKISAKFVENEPNLCYNAQAIFKQKLPVAGDGGL 123
Query: 127 QC-----LVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTC 181
C + + + W K+ P+L D I SG L + ++ H GNYTC
Sbjct: 124 VCPYMEFFKNENNELPKLQWYKDCKPLLLD---NIHFSG-VKDRLIVMNVAEKHRGNYTC 179
Query: 182 VASNT 186
AS T
Sbjct: 180 HASYT 184
>pdb|4DEP|B Chain B, Structure Of The Il-1b Signaling Complex
pdb|4DEP|E Chain E, Structure Of The Il-1b Signaling Complex
Length = 321
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 53/125 (42%), Gaps = 18/125 (14%)
Query: 70 RVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI---KVHSGDRAGV 126
+VEDSG Y C N S +R+ + ++ + N+++I K+ G+
Sbjct: 72 KVEDSGHYYCVVRNS------SYCLRIKISAKFVENEPNLCYNAQAIFKQKLPVAGDGGL 125
Query: 127 QC-----LVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTC 181
C + + + W K+ P+L D I SG L + ++ H GNYTC
Sbjct: 126 VCPYMEFFKNENNELPKLQWYKDCKPLLLD---NIHFSG-VKDRLIVMNVAEKHRGNYTC 181
Query: 182 VASNT 186
AS T
Sbjct: 182 HASYT 186
>pdb|4GG6|F Chain F, Protein Complex
pdb|4GG6|H Chain H, Protein Complex
pdb|4GG8|F Chain F, Immune Receptor
pdb|4GG8|B Chain B, Immune Receptor
Length = 245
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 53/116 (45%), Gaps = 19/116 (16%)
Query: 46 DRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQ--- 102
+RF Q+ LH S +N+SS+ + DS +Y C ++ V + T+ Y PG
Sbjct: 62 ERFSAQQFPDLH----SELNLSSLELGDSALYFCASSVAVSAGTYEQ----YFGPGTRLT 113
Query: 103 -PQDVKLVTSNSRSI------KVHSGDRAGVQCLVTKGDPP-LTISWLKNGLPILS 150
+D+K V ++ ++ +A + CL T P + +SW NG + S
Sbjct: 114 VTEDLKNVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHS 169
>pdb|1ITB|B Chain B, Type-1 Interleukin-1 Receptor Complexed With Interleukin-1
Beta
Length = 315
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 53/125 (42%), Gaps = 18/125 (14%)
Query: 70 RVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI---KVHSGDRAGV 126
+VEDSG Y C N S +R+ + ++ + N+++I K+ G+
Sbjct: 70 KVEDSGHYYCVVRNS------SYCLRIKISAKFVENEPNLCYNAQAIFKQKLPVAGDGGL 123
Query: 127 QC-----LVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTC 181
C + + + W K+ P+L D I SG L + ++ H GNYTC
Sbjct: 124 VCPYMEFFKNENNELPKLQWYKDCKPLLLD---NIHFSG-VKDRLIVMNVAEKHRGNYTC 179
Query: 182 VASNT 186
AS T
Sbjct: 180 HASYT 184
>pdb|1G0Y|R Chain R, Il-1 Receptor Type 1 Complexed With Antagonist Peptide
Af10847
Length = 312
Score = 33.5 bits (75), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 33/125 (26%), Positives = 53/125 (42%), Gaps = 18/125 (14%)
Query: 70 RVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI---KVHSGDRAGV 126
+VEDSG Y C N S +R+ + ++ + N+++I K+ G+
Sbjct: 67 KVEDSGHYYCVVRNS------SYCLRIKISAKFVENEPNLCYNAQAIFKQKLPVAGDGGL 120
Query: 127 QC-----LVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTC 181
C + + + W K+ P+L D I SG L + ++ H GNYTC
Sbjct: 121 VCPYMEFFKNENNELPKLQWYKDCKPLLLD---NIHFSG-VKDRLIVMNVAEKHRGNYTC 176
Query: 182 VASNT 186
AS T
Sbjct: 177 HASYT 181
>pdb|3IDX|H Chain H, Crystal Structure Of Hiv-Gp120 Core In Complex With
Cd4-Binding Site Antibody B13, Space Group C222
pdb|3IDY|H Chain H, Crystal Structure Of Hiv-Gp120 Core In Complex With
Cd4-Binding Site Antibody B13, Space Group C2221
pdb|3IDY|B Chain B, Crystal Structure Of Hiv-Gp120 Core In Complex With
Cd4-Binding Site Antibody B13, Space Group C2221
Length = 231
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 42/161 (26%), Positives = 63/161 (39%), Gaps = 36/161 (22%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW----KLDGYPLAGDRFVMGQYMSL 56
+QPG + L C A+G P + W K DG V G++ S+
Sbjct: 12 VQPGRSLRLSCAASGFTFRNYAMHWVRQAPGKGLEWVALIKYDGRNKYYADSVKGRF-SI 70
Query: 57 HGDVIS---HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
D ++ ++S+R ED+ +Y C +G + D+ P LVT +S
Sbjct: 71 SRDNSKNTLYLEMNSLRAEDTAVYYC--ARDIGLKGEHYDILTAYGPDYWGQGALVTVSS 128
Query: 114 RSI------------KVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 129 ASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 169
>pdb|1FL6|H Chain H, The Hapten Complexed Germline Precursor To Sulfide Oxidase
Catalytic Antibody 28b4
pdb|1FL6|B Chain B, The Hapten Complexed Germline Precursor To Sulfide Oxidase
Catalytic Antibody 28b4
pdb|1FL5|H Chain H, The Unliganded Germline Precursor To The Sulfide Oxidase
Catalytic Antibody 28b4.
pdb|1FL5|B Chain B, The Unliganded Germline Precursor To The Sulfide Oxidase
Catalytic Antibody 28b4
Length = 219
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 40/159 (25%), Positives = 63/159 (39%), Gaps = 41/159 (25%)
Query: 14 LQPGPPVSLKCIATGN-------------PTPHISW------KLDGYPLAGDRFVMGQYM 54
+QPG + L C +G P + W K +GY V G++
Sbjct: 12 VQPGGSLRLSCATSGFTFTDYYMSWVRQPPGKALEWLGFIRNKANGYTTEYSASVKGRFT 71
Query: 55 --SLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ I ++ ++++R EDS Y C R GS D GQ V + +++
Sbjct: 72 ISRDNSQSILYLQMNTLRAEDSATYYCA---RDGSYAM-------DYWGQGTSVTVSSAS 121
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
++ S K SG A + CLV P P+T+SW
Sbjct: 122 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>pdb|2O26|X Chain X, Structure Of A Class Iii Rtk Signaling Assembly
pdb|2O26|Y Chain Y, Structure Of A Class Iii Rtk Signaling Assembly
pdb|2O26|U Chain U, Structure Of A Class Iii Rtk Signaling Assembly
pdb|2O26|W Chain W, Structure Of A Class Iii Rtk Signaling Assembly
Length = 290
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 14/35 (40%), Positives = 22/35 (62%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYD 98
+ ISS RV+DSG++ C A N GS + ++V +
Sbjct: 254 LTISSARVDDSGVFMCYANNTFGSANVTTTLKVVE 288
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 32/128 (25%), Positives = 55/128 (42%), Gaps = 11/128 (8%)
Query: 81 ATNRVGSQTHSAD--MRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT 138
A R G+ HS ++V +A + + +V+ S + GD V C + +
Sbjct: 164 AAQRDGTWLHSDKFTLKVREAI---KAIPVVSVPETSHLLKKGDTFTVVCTIKDVSTSVN 220
Query: 139 ISWLKNGLPILSDAEITIRS------SGEYTSSLSIATLSTGHSGNYTCVASNTVASDNH 192
WLK A++ S + E +L+I++ SG + C A+NT S N
Sbjct: 221 SMWLKMNPQPQHIAQVKHNSWHRGDFNYERQETLTISSARVDDSGVFMCYANNTFGSANV 280
Query: 193 SSNLRVNE 200
++ L+V E
Sbjct: 281 TTTLKVVE 288
>pdb|3HI5|H Chain H, Crystal Structure Of Fab Fragment Of Al-57
pdb|3HI6|H Chain H, Crystal Structure Of Intermediate Affinity I Domain Of
Integrin Lfa-1 With The Fab Fragment Of Its Antibody
Al-57
pdb|3HI6|X Chain X, Crystal Structure Of Intermediate Affinity I Domain Of
Integrin Lfa-1 With The Fab Fragment Of Its Antibody
Al-57
Length = 220
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 36/162 (22%), Positives = 66/162 (40%), Gaps = 36/162 (22%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRF----VMGQYMSL 56
+QPG + L C A+G P + W +P G+ + V G++
Sbjct: 12 VQPGGSLRLSCAASGFTFSRYVMWWVRQAPGKGLEWVSYIWPSGGNTYYADSVKGRFTIS 71
Query: 57 HGDVIS--HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR 114
+ + ++ ++S+R ED+ +Y C ++ S +D GQ V + +++++
Sbjct: 72 RDNSKNTLYLQMNSLRAEDTAVYYCASSYDFWSN-------AFDIWGQGTMVTVSSASTK 124
Query: 115 SIKVH---------SGDRAGVQCLVTKGDP-PLTISWLKNGL 146
V S A + CLV P P+T+SW L
Sbjct: 125 GPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSWNSGAL 166
>pdb|1L7I|H Chain H, Crystal Structure Of The Anti-Erbb2 Fab2c4
Length = 222
Score = 33.5 bits (75), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 39/157 (24%), Positives = 65/157 (41%), Gaps = 37/157 (23%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFVMGQYMS 55
+QPG + L C A+G P + W D P +G RF +S
Sbjct: 12 VQPGGSLRLSCAASGFTFTDYTMDWVRQAPGKGLEWVADVNPNSGGSIYNQRFKGRFTLS 71
Query: 56 L-HGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR 114
+ ++ ++S+R ED+ +Y C +G + +D GQ V + +++++
Sbjct: 72 VDRSKNTLYLQMNSLRAEDTAVYYC--ARNLGPSFY------FDYWGQGTLVTVSSASTK 123
Query: 115 ---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 124 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>pdb|3PP3|H Chain H, Epitope Characterization And Crystal Structure Of Ga101
Provide Insights Into The Molecular Basis For The Type I
TYPE II Distinction Of Anti- Cd20 Antibodies
pdb|3PP3|I Chain I, Epitope Characterization And Crystal Structure Of Ga101
Provide Insights Into The Molecular Basis For The Type I
TYPE II Distinction Of Anti- Cd20 Antibodies
pdb|3PP4|H Chain H, Epitope Characterization And Crystal Structure Of Ga101
Provide Insights Into The Molecular Basis For The Type I
TYPE II Distinction Of Anti- Cd20 Antibodies
Length = 224
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 37/157 (23%), Positives = 61/157 (38%), Gaps = 33/157 (21%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRFVMGQY---MS 55
+ +PG V + C A+G P + W +P GD G++ ++
Sbjct: 10 EVKKPGSSVKVSCKASGYAFSYSWINWVRQAPGQGLEWMGRIFPGDGDTDYNGKFKGRVT 69
Query: 56 LHGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ D +++ +SS+R ED+ +Y C VY G V ++
Sbjct: 70 ITADKSTSTAYMELSSLRSEDTAVYYCA------RNVFDGYWLVYWGQGTLVTVSSASTK 123
Query: 113 SRSI-------KVHSGDRAGVQCLVTKGDP-PLTISW 141
S+ K SG A + CLV P P+T+SW
Sbjct: 124 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>pdb|2FX7|H Chain H, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A 16-Residue Peptide Encompassing The 4e10
Epitope On Gp41
Length = 228
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 36/163 (22%), Positives = 62/163 (38%), Gaps = 43/163 (26%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI------------- 61
+PG V++ C A+G Y L+ R G+ + G VI
Sbjct: 13 RPGSSVTVSCKASGG-------SFSTYALSWVRQAPGRGLEWMGGVIPLLTITNYAPRFQ 65
Query: 62 -------------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKL 108
+++ ++S+R ED+ +Y C G + + GQ V +
Sbjct: 66 GRITITADRSTSTAYLELNSLRPEDTAVYYCAREGTTGWGWLGKPIGAFAHWGQGTLVTV 125
Query: 109 VTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+++++ S K SG A + CLV P P+T+SW
Sbjct: 126 SSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 168
>pdb|2FX8|H Chain H, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX8|I Chain I, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX8|J Chain J, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX8|K Chain K, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With An Aib-Induced Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX9|H Chain H, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A Thioether-Linked Peptide Encompassing The
4e10 Epitope On Gp41
pdb|2FX9|I Chain I, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A Thioether-Linked Peptide Encompassing The
4e10 Epitope On Gp41
Length = 227
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 36/163 (22%), Positives = 62/163 (38%), Gaps = 43/163 (26%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI------------- 61
+PG V++ C A+G Y L+ R G+ + G VI
Sbjct: 13 RPGSSVTVSCKASGG-------SFSTYALSWVRQAPGRGLEWMGGVIPLLTITNYAPRFQ 65
Query: 62 -------------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKL 108
+++ ++S+R ED+ +Y C G + + GQ V +
Sbjct: 66 GRITITADRSTSTAYLELNSLRPEDTAVYYCAREGTTGWGWLGKPIGAFAHWGQGTLVTV 125
Query: 109 VTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+++++ S K SG A + CLV P P+T+SW
Sbjct: 126 SSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 168
>pdb|3NTC|H Chain H, Crystal Structure Of Kd-247 Fab, An Anti-V3 Antibody That
Inhibits Hiv-1 Entry
Length = 221
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 40/165 (24%), Positives = 68/165 (41%), Gaps = 40/165 (24%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG----DRFVMGQYM 54
+ +PG V + C A+G P + W D YP G + G+
Sbjct: 10 EVKKPGASVKVSCKASGYTFTNSWIGWFRQAPGQGLEWIGDIYPGGGYTNYNEIFKGK-A 68
Query: 55 SLHGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
++ D +++ +SS+R ED+ +Y C+ G ++ D GQ V + ++
Sbjct: 69 TMTADTSTNTAYMELSSLRSEDTAVYYCSR----GIPGYAMDYW-----GQGTLVTVSSA 119
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++ S K SG A + CLV P P+T+SW L
Sbjct: 120 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 164
>pdb|1S78|D Chain D, Insights Into Erbb Signaling From The Structure Of The
Erbb2- Pertuzumab Complex
pdb|1S78|F Chain F, Insights Into Erbb Signaling From The Structure Of The
Erbb2- Pertuzumab Complex
Length = 226
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 39/157 (24%), Positives = 65/157 (41%), Gaps = 37/157 (23%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFVMGQYMS 55
+QPG + L C A+G P + W D P +G RF +S
Sbjct: 12 VQPGGSLRLSCAASGFTFTDYTMDWVRQAPGKGLEWVADVNPNSGGSIYNQRFKGRFTLS 71
Query: 56 L-HGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR 114
+ ++ ++S+R ED+ +Y C +G + +D GQ V + +++++
Sbjct: 72 VDRSKNTLYLQMNSLRAEDTAVYYC--ARNLGPSFY------FDYWGQGTLVTVSSASTK 123
Query: 115 ---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 124 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>pdb|3NFP|A Chain A, Crystal Structure Of The Fab Fragment Of Therapeutic
Antibody Daclizumab In Complex With Il-2ra (Cd25)
Ectodomain
pdb|3NFP|H Chain H, Crystal Structure Of The Fab Fragment Of Therapeutic
Antibody Daclizumab In Complex With Il-2ra (Cd25)
Ectodomain
pdb|3NFS|H Chain H, Crystal Structure The Fab Fragment Of Therapeutic Antibody
Daclizumab
Length = 216
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 28/95 (29%), Positives = 45/95 (47%), Gaps = 21/95 (22%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ +SS+R ED+ +Y C R G V+D GQ V + +++++
Sbjct: 79 AYMELSSLRSEDTAVYYCA---RGGG--------VFDYWGQGTLVTVSSASTKGPSVFPL 127
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 128 APSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 162
>pdb|1VGE|H Chain H, Tr1.9 Fab Fragment Of A Human Igg1 Kappa Autoantibody
Length = 225
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 44/90 (48%), Gaps = 16/90 (17%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ +SS+R ED+ +Y C G ++ +D GQ V + +++++
Sbjct: 80 AYMGLSSLRPEDTAVYYCARDPYGGGKSE------FDYWGQGTLVTVSSASTKGPSVFPL 133
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 134 APSSKSTSGGTAALGCLVKDYFPEPVTVSW 163
>pdb|3HC4|H Chain H, Bha10 Igg1 Fab Quadruple Mutant Variant - Antibody
Directed At Human Ltbr
Length = 213
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 17/91 (18%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH-- 119
+++ +SS+R ED+ +Y C + +D GQ V + +++++ V
Sbjct: 79 AYMELSSLRSEDTAVYYC-----------ARSWEGFDYWGQGTTVTVSSASTKGPSVFPL 127
Query: 120 ---SGDRAGVQCLVTKGDP-PLTISWLKNGL 146
SG A + CLV P P+T+SW L
Sbjct: 128 APSSGGTAALGCLVKDYFPEPVTVSWNSGAL 158
>pdb|1OM3|H Chain H, Fab 2g12 Unliganded
pdb|1OM3|K Chain K, Fab 2g12 Unliganded
pdb|1OP3|H Chain H, Crystal Structure Of Fab 2g12 Bound To Man1->2man
pdb|1OP3|M Chain M, Crystal Structure Of Fab 2g12 Bound To Man1->2man
pdb|1OP5|H Chain H, Crystal Structure Of Fab 2g12 Bound To Man9glcnac2
pdb|1OP5|M Chain M, Crystal Structure Of Fab 2g12 Bound To Man9glcnac2
Length = 225
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 48/105 (45%), Gaps = 16/105 (15%)
Query: 49 VMGQYMSLHGDV--ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDA--PGQPQ 104
V G++ D+ ++ + +RVED+ IY C R GS S D +DA PG
Sbjct: 64 VKGRFTVSRDDLEDFVYLQMHKMRVEDTAIYYCA---RKGSDRLS-DNDPFDAWGPGTVV 119
Query: 105 DVKLVTSNSRSI-------KVHSGDRAGVQCLVTKGDP-PLTISW 141
V ++ S+ K SG A + CLV P P+T+SW
Sbjct: 120 TVSPASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 164
>pdb|1DGI|R Chain R, Cryo-Em Structure Of Human Poliovirus(Serotype 1)complexed
With Three Domain Cd155
pdb|1NN8|R Chain R, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus
pdb|1NN8|S Chain S, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus
pdb|1NN8|T Chain T, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus
Length = 302
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 31/123 (25%), Positives = 50/123 (40%), Gaps = 10/123 (8%)
Query: 62 SHVNISSVRVEDSGIYQCT-ATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS 120
+ + + +RVED G Y C T GS++ +RV P +V+ V + +
Sbjct: 79 ASLRMFGLRVEDEGNYTCLFVTFPQGSRSVDIWLRVLAKPQNTAEVQKVQLTGEPVPM-- 136
Query: 121 GDRAGVQCLVTKGDPPLTISWLKN--GLPILSDAEITIRSSGEYTSSLSIATLSTGHSGN 178
+C+ T G PP I+W + G+P S + + TS + S N
Sbjct: 137 -----ARCVSTGGRPPAQITWHSDLGGMPNTSQVPGFLSGTVTVTSLWILVPSSQVDGKN 191
Query: 179 YTC 181
TC
Sbjct: 192 VTC 194
>pdb|3OAZ|H Chain H, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
pdb|3OAZ|M Chain M, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
Length = 223
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 48/105 (45%), Gaps = 16/105 (15%)
Query: 49 VMGQYMSLHGDV--ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDA--PGQPQ 104
V G++ D+ ++ + +RVED+ IY C R GS S D +DA PG
Sbjct: 64 VKGRFTVSRDDLEDFVYLQMHKMRVEDTAIYYCA---RKGSDRLS-DNDPFDAWGPGTVV 119
Query: 105 DVKLVTSNSRSI-------KVHSGDRAGVQCLVTKGDP-PLTISW 141
V ++ S+ K SG A + CLV P P+T+SW
Sbjct: 120 TVSPASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 164
>pdb|1ZLS|H Chain H, Fab 2g12 + Man4
pdb|1ZLU|H Chain H, Fab 2g12 + Man5
pdb|1ZLU|M Chain M, Fab 2g12 + Man5
pdb|1ZLV|H Chain H, Fab 2g12 + Man7
pdb|1ZLV|M Chain M, Fab 2g12 + Man7
pdb|1ZLW|H Chain H, Fab 2g12 + Man8
pdb|1ZLW|M Chain M, Fab 2g12 + Man8
pdb|2OQJ|B Chain B, Crystal Structure Analysis Of Fab 2g12 In Complex With
Peptide 2g12.1
pdb|2OQJ|E Chain E, Crystal Structure Analysis Of Fab 2g12 In Complex With
Peptide 2g12.1
pdb|2OQJ|H Chain H, Crystal Structure Analysis Of Fab 2g12 In Complex With
Peptide 2g12.1
pdb|2OQJ|K Chain K, Crystal Structure Analysis Of Fab 2g12 In Complex With
Peptide 2g12.1
pdb|3OAY|M Chain M, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
pdb|3OAY|H Chain H, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
pdb|3OB0|H Chain H, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
pdb|3OB0|M Chain M, A Non-Self Sugar Mimic Of The Hiv Glycan Shield Shows
Enhanced Antigenicity
Length = 224
Score = 33.1 bits (74), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 48/105 (45%), Gaps = 16/105 (15%)
Query: 49 VMGQYMSLHGDV--ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDA--PGQPQ 104
V G++ D+ ++ + +RVED+ IY C R GS S D +DA PG
Sbjct: 64 VKGRFTVSRDDLEDFVYLQMHKMRVEDTAIYYCA---RKGSDRLS-DNDPFDAWGPGTVV 119
Query: 105 DVKLVTSNSRSI-------KVHSGDRAGVQCLVTKGDP-PLTISW 141
V ++ S+ K SG A + CLV P P+T+SW
Sbjct: 120 TVSPASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 164
>pdb|4FQP|A Chain A, Crystal Structure Of Human Nectin-Like 5 Full Ectodomain
(D1-D3)
Length = 313
Score = 33.1 bits (74), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 31/123 (25%), Positives = 50/123 (40%), Gaps = 10/123 (8%)
Query: 62 SHVNISSVRVEDSGIYQCT-ATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS 120
+ + + +RVED G Y C T GS++ +RV P +V+ V + +
Sbjct: 79 ASLRMFGLRVEDEGNYTCLFVTFPQGSRSVDIWLRVLAKPQNTAEVQKVQLTGEPVPM-- 136
Query: 121 GDRAGVQCLVTKGDPPLTISWLKN--GLPILSDAEITIRSSGEYTSSLSIATLSTGHSGN 178
+C+ T G PP I+W + G+P S + + TS + S N
Sbjct: 137 -----ARCVSTGGRPPAQITWHSDLGGMPNTSQVPGFLSGTVTVTSLWILVPSSQVDGKN 191
Query: 179 YTC 181
TC
Sbjct: 192 VTC 194
>pdb|3OAU|H Chain H, Antibody 2g12 Recognizes Di-Mannose Equivalently In
Domain- And Non- Domain-Exchanged Forms, But Only Binds
The Hiv-1 Glycan Shield If Domain-Exchanged
Length = 225
Score = 33.1 bits (74), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 33/105 (31%), Positives = 48/105 (45%), Gaps = 16/105 (15%)
Query: 49 VMGQYMSLHGDV--ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDA--PGQPQ 104
V G++ D+ ++ + +RVED+ IY C R GS S D +DA PG
Sbjct: 64 VKGRFTVSRDDLEDFVYLQMHKMRVEDTAIYYCA---RKGSDRLS-DNDPFDAWGPGTVV 119
Query: 105 DVKLVTSNSRSI-------KVHSGDRAGVQCLVTKGDP-PLTISW 141
V ++ S+ K SG A + CLV P P+T+SW
Sbjct: 120 TVSPASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 164
>pdb|3URO|R Chain R, Poliovirus Receptor Cd155 D1d2
Length = 221
Score = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 8/79 (10%)
Query: 64 VNISSVRVEDSGIYQCT-ATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGD 122
+ + +RVED G Y C T GS++ +RV P +V+ V + +
Sbjct: 80 LRMFGLRVEDEGSYTCLFVTFPQGSRSVDIWLRVLAKPQNTAEVQKVQLTGEPVPM---- 135
Query: 123 RAGVQCLVTKGDPPLTISW 141
+C+ T G PP I+W
Sbjct: 136 ---ARCVSTGGRPPAQITW 151
>pdb|3EPC|R Chain R, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus Type 1
pdb|3EPD|R Chain R, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus Type 3
pdb|3EPF|R Chain R, Cryoem Structure Of Poliovirus Receptor Bound To
Poliovirus Type 2
Length = 213
Score = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 22/79 (27%), Positives = 35/79 (44%), Gaps = 8/79 (10%)
Query: 64 VNISSVRVEDSGIYQCT-ATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGD 122
+ + +RVED G Y C T GS++ +RV P +V+ V + +
Sbjct: 79 LRMFGLRVEDEGSYTCLFVTFPQGSRSVDIWLRVLAKPQNTAEVQKVQLTGEPVPM---- 134
Query: 123 RAGVQCLVTKGDPPLTISW 141
+C+ T G PP I+W
Sbjct: 135 ---ARCVSTGGRPPAQITW 150
>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 = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 32/140 (22%), Positives = 51/140 (36%), Gaps = 8/140 (5%)
Query: 4 QLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISH 63
+L+ ++ T+ G PV L C G P I W DG + + H I
Sbjct: 4 KLMGAPVKLTVSQGQPVKLNCSVEGXEEPDIQWVKDGAVVQNLDQLYIPVSEQHW--IGF 61
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDR 123
+++ SV D+G Y C + G +T + G P T + + V
Sbjct: 62 LSLKSVERSDAGRYWCQVED--GGETEISQPVWLTVEGVP----FFTVEPKDLAVPPNAP 115
Query: 124 AGVQCLVTKGDPPLTISWLK 143
+ C P+TI W +
Sbjct: 116 FQLSCEAVGPPEPVTIVWWR 135
>pdb|1TZG|H Chain H, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A 13-residue Peptide Containing The 4e10
Epitope On Gp41
pdb|1TZG|I Chain I, Crystal Structure Of Hiv-1 Neutralizing Human Fab 4e10 In
Complex With A 13-residue Peptide Containing The 4e10
Epitope On Gp41
Length = 232
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 36/163 (22%), Positives = 62/163 (38%), Gaps = 43/163 (26%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI------------- 61
+PG V++ C A+G Y L+ R G+ + G VI
Sbjct: 13 RPGSSVTVSCKASGG-------SFSTYALSWVRQAPGRGLEWMGGVIPLLTITNYAPRFQ 65
Query: 62 -------------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKL 108
+++ ++S+R ED+ +Y C G + + GQ V +
Sbjct: 66 GRITITADRSTSTAYLELNSLRPEDTAVYYCAREGTTGWGWLGKPIGAFAHWGQGTLVTV 125
Query: 109 VTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+++++ S K SG A + CLV P P+T+SW
Sbjct: 126 SSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 168
>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 = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 42/89 (47%), Gaps = 21/89 (23%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAGDRF----VMGQYM 54
+QPG P+ L C+A+G +P + W ++ P + + V G++
Sbjct: 12 VQPGRPMKLSCVASGFTFSDYWMNWVRQSPEKGLEWVAQIRNKPYNYETYYSDSVKGRFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCTA 81
D S ++ ++++R ED GIY CT+
Sbjct: 72 ISRDDSKSSVYLQMNNLRAEDMGIYYCTS 100
>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 = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 37/86 (43%), Gaps = 12/86 (13%)
Query: 19 PVSLKCIATGNPTPHISWKLDGYPLAGD--RFVM--GQYMSLHGDVISH----VNISSVR 70
PV L C +G +P + WK D GD R V + + + D ++ + SV
Sbjct: 20 PVKLSCAYSGFSSPRVEWKFD----QGDTTRLVCYNNKITASYEDRVTFLPTGITFKSVT 75
Query: 71 VEDSGIYQCTATNRVGSQTHSADMRV 96
ED+G Y C + G+ +++
Sbjct: 76 REDTGTYTCMVSEEGGNSYGEVKVKL 101
>pdb|3UJJ|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 4025 In Complex
With Con A Peptide
Length = 213
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 31/127 (24%), Positives = 58/127 (45%), Gaps = 6/127 (4%)
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHS 120
++ + IS +V+D Y C +TN G+ GQP+ VT S +
Sbjct: 69 MATLTISGAQVDDEADYYCYSTNSGGTFFVFGTGTKVTVLGQPKANPTVTLFPPSSEELQ 128
Query: 121 GDRAGVQCLVTKGDP-PLTISWLKNGLPILSDAEITI---RSSGEYTSS--LSIATLSTG 174
++A + CL++ P +T++W + P+ + E T +S+ +Y +S LS+
Sbjct: 129 ANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWK 188
Query: 175 HSGNYTC 181
+Y+C
Sbjct: 189 SHRSYSC 195
>pdb|3IY5|B Chain B, Variable Domains Of The Mouse Fab (1aif) Fitted Into The
Cryoem Reconstruction Of The Virus-Fab 16 Complex
Length = 122
Score = 32.7 bits (73), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 23/88 (26%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRF-------VMGQY 53
+QPG + L C+A+G +P + W + L D F V G++
Sbjct: 12 VQPGGSMKLSCVASGFTFNNYWMSWVRQSPEKGLEWVAE-IRLNSDNFATHYAESVKGKF 70
Query: 54 MSLHGDVIS--HVNISSVRVEDSGIYQC 79
+ D S ++ ++S+R ED+GIY C
Sbjct: 71 IISRDDSKSRLYLQMNSLRAEDTGIYYC 98
>pdb|2QR0|B Chain B, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|F Chain F, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|H Chain H, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|L Chain L, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|N Chain N, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|R Chain R, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|T Chain T, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
pdb|2QR0|X Chain X, Structure Of Vegf Complexed To A Fab Containing Tyr And
Ser In The Cdrs
Length = 221
Score = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 36/156 (23%), Positives = 57/156 (36%), Gaps = 26/156 (16%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPL---------AGDRFVMG 51
+QPG + L C A+G P + W YP RF +
Sbjct: 12 VQPGGSLRLSCAASGFNFSSSSIHWVRQAPGKGLEWVAYIYPSYSYTSYADSVKGRFTIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
S + +++ ++S+R ED+ +Y C G+ + + V
Sbjct: 72 ADTSKN---TAYLQMNSLRAEDTAVYYCARYYGTGAMDYWGQGTLVTVSSASTKGPSVFP 128
Query: 112 NSRSIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+ S K SG A + CLV P P+T+SW L
Sbjct: 129 LAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 164
>pdb|3FFD|B Chain B, Structure Of Parathyroid Hormone-Related Protein Complexed
To A Neutralizing Monoclonal Antibody
Length = 220
Score = 32.7 bits (73), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 44/90 (48%), Gaps = 5/90 (5%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQ---THSADMRVYDAPGQPQDVKLVTSNSRSIKVH 119
+++IS+++ ED +Y C + + Q +V G+P+ +T S +
Sbjct: 76 YLSISNIQPEDEAMYICGVGDTIKEQFVYVFGGGTKV-TVLGEPKSTPTLTVFPPSSEEL 134
Query: 120 SGDRAGVQCLVTKGDPP-LTISWLKNGLPI 148
++A + CL++ P +T++W NG PI
Sbjct: 135 KENKATLVCLISNFSPSGVTVAWKANGTPI 164
>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 = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 45/90 (50%), Gaps = 13/90 (14%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH-- 119
+++ ++S+ EDS +Y C R G+ +R +D GQ + + ++ + + V+
Sbjct: 79 AYIQLNSLTSEDSAVYYCA---REGNYYDGGSVRYFDYWGQGTTLTVSSAKTTAPSVYPL 135
Query: 120 ---SGDRAG----VQCLVTKGDP-PLTISW 141
GD +G + CLV P P+T++W
Sbjct: 136 APVCGDTSGSSVTLGCLVKGYFPEPVTLTW 165
>pdb|2XOT|A Chain A, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
pdb|2XOT|B Chain B, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
Length = 361
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 14/41 (34%), Positives = 23/41 (56%), Gaps = 4/41 (9%)
Query: 58 GDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYD 98
GD+ V+VED G+Y C A ++T S +++VY+
Sbjct: 301 GDLF----FKKVQVEDGGVYTCYAMGETFNETLSVELKVYN 337
>pdb|3MV9|E Chain E, Crystal Structure Of The Tk3-Gln55ala Tcr In Complex With
Hla- B3501HPVG
Length = 241
Score = 32.7 bits (73), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 50/112 (44%), Gaps = 15/112 (13%)
Query: 46 DRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQD 105
+RF Q+ LH S +N+SS+ + DS +Y C ++ R G R+ +D
Sbjct: 62 ERFSAQQFPDLH----SELNLSSLELGDSALYFCASSARSGELFFGEGSRLTVL----ED 113
Query: 106 VKLVTSNSRSI------KVHSGDRAGVQCLVTKGDPP-LTISWLKNGLPILS 150
+K V ++ ++ +A + CL T P + +SW NG + S
Sbjct: 114 LKNVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHS 165
>pdb|3LRS|L Chain L, Structure Of Pg16, An Antibody With Broad And Potent
Neutralization Of Hiv-1
pdb|3LRS|B Chain B, Structure Of Pg16, An Antibody With Broad And Potent
Neutralization Of Hiv-1
pdb|3LRS|D Chain D, Structure Of Pg16, An Antibody With Broad And Potent
Neutralization Of Hiv-1
pdb|3LRS|F Chain F, Structure Of Pg16, An Antibody With Broad And Potent
Neutralization Of Hiv-1
Length = 211
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 57/124 (45%), Gaps = 7/124 (5%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDR 123
+ IS + +ED G Y C++ + +V GQP+ VT S + ++
Sbjct: 73 LTISGLHIEDEGDYFCSSLTDRSHRIFGGGTKV-TVLGQPKAAPSVTLFPPSSEELQANK 131
Query: 124 AGVQCLVTKGDP-PLTISWLKNGLPILSDAEITI---RSSGEYTSS--LSIATLSTGHSG 177
A + CL++ P +T++W + P+ + E T +S+ +Y +S LS+
Sbjct: 132 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHK 191
Query: 178 NYTC 181
+Y+C
Sbjct: 192 SYSC 195
>pdb|3T2N|H Chain H, Human Hepsin Protease In Complex With The Fab Fragment Of
An Inhibitory Antibody
pdb|3T2N|I Chain I, Human Hepsin Protease In Complex With The Fab Fragment Of
An Inhibitory Antibody
Length = 225
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 40/161 (24%), Positives = 61/161 (37%), Gaps = 43/161 (26%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISW-----KLDGYPLAGDRFVMGQYMSL 56
+PG V + C A+G P + W G P D F SL
Sbjct: 13 KPGASVKVSCKASGYTFTDYSMRWVRQAPGQGLEWMGWINTETGSPTYADDFKGRFVFSL 72
Query: 57 HGDV-ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR- 114
V +++ ISS++ ED+ +Y C R + GQ V + +++++
Sbjct: 73 DTSVSTAYLQISSLKAEDTAVYYC--------------ARGFAYWGQGTLVTVSSASTKG 118
Query: 115 --------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 119 PSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 159
>pdb|1Y0L|H Chain H, Catalytic Elimination Antibody 34e4 In Complex With Hapten
pdb|1Y0L|B Chain B, Catalytic Elimination Antibody 34e4 In Complex With Hapten
pdb|1Y0L|D Chain D, Catalytic Elimination Antibody 34e4 In Complex With Hapten
pdb|1Y0L|F Chain F, Catalytic Elimination Antibody 34e4 In Complex With Hapten
Length = 226
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 66/159 (41%), Gaps = 39/159 (24%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISW---------KLDGYPLAGDRFVMGQ 52
QPG + L C A+G P + W ++ P D+F++ +
Sbjct: 13 QPGGSLKLSCAASGFDFRRYWMTWVRQAPGKGLEWIGEINPDSRTINYMPSLKDKFIISR 72
Query: 53 YMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ + ++ +S +R EDS +Y C R+ ++ V D GQ V + +++
Sbjct: 73 DNAKNS---LYLQLSRLRSEDSALYYCV---RLDFDVYN-HYYVLDYWGQGTSVTVSSAS 125
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
++ S K SG A + CLV P P+T+SW
Sbjct: 126 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 164
>pdb|1Y18|H Chain H, Fab Fragment Of Catalytic Elimination Antibody 34e4
E(H50)d Mutant In Complex With Hapten
pdb|1Y18|B Chain B, Fab Fragment Of Catalytic Elimination Antibody 34e4
E(H50)d Mutant In Complex With Hapten
pdb|1Y18|D Chain D, Fab Fragment Of Catalytic Elimination Antibody 34e4
E(H50)d Mutant In Complex With Hapten
pdb|1Y18|F Chain F, Fab Fragment Of Catalytic Elimination Antibody 34e4
E(H50)d Mutant In Complex With Hapten
Length = 226
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 66/159 (41%), Gaps = 39/159 (24%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISW---------KLDGYPLAGDRFVMGQ 52
QPG + L C A+G P + W ++ P D+F++ +
Sbjct: 13 QPGGSLKLSCAASGFDFRRYWMTWVRQAPGKGLEWIGDINPDSRTINYMPSLKDKFIISR 72
Query: 53 YMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ + ++ +S +R EDS +Y C R+ ++ V D GQ V + +++
Sbjct: 73 DNAKNS---LYLQLSRLRSEDSALYYCV---RLDFDVYN-HYYVLDYWGQGTSVTVSSAS 125
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
++ S K SG A + CLV P P+T+SW
Sbjct: 126 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 164
>pdb|3GBM|H Chain H, Crystal Structure Of Fab Cr6261 In Complex With A H5n1
Influenza Virus Hemagglutinin.
pdb|3GBM|I Chain I, Crystal Structure Of Fab Cr6261 In Complex With A H5n1
Influenza Virus Hemagglutinin.
pdb|3GBN|H Chain H, Crystal Structure Of Fab Cr6261 In Complex With The 1918
H1n1 Influenza Virus Hemagglutinin
Length = 226
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 42/165 (25%), Positives = 68/165 (41%), Gaps = 37/165 (22%)
Query: 12 QTLQPGPPVSLKCIATGNP--TPHISWKLDGYPLAGDRFVMG--------QYM-SLHGDV 60
+ +PG V + C A+G P + ISW + P G ++ G +Y G V
Sbjct: 10 EVKKPGSSVKVSCKASGGPFRSYAISW-VRQAPGQGPEWMGGIIPIFGTTKYAPKFQGRV 68
Query: 61 I---------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
++ +SS+R ED+ +Y C +G Q D G+ V + ++
Sbjct: 69 TITADDFAGTVYMELSSLRSEDTAMYYC--AKHMGYQVR----ETMDVWGKGTTVTVSSA 122
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++ S K SG A + CLV P P+T+SW L
Sbjct: 123 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 167
>pdb|3MME|L Chain L, Structure And Functional Dissection Of Pg16, An Antibody
With Broad And Potent Neutralization Of Hiv-1
pdb|3MME|B Chain B, Structure And Functional Dissection Of Pg16, An Antibody
With Broad And Potent Neutralization Of Hiv-1
pdb|3MME|D Chain D, Structure And Functional Dissection Of Pg16, An Antibody
With Broad And Potent Neutralization Of Hiv-1
Length = 216
Score = 32.7 bits (73), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 57/124 (45%), Gaps = 7/124 (5%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDR 123
+ IS + +ED G Y C++ + +V GQP+ VT S + ++
Sbjct: 75 LTISGLHIEDEGDYFCSSLTDRSHRIFGGGTKV-TVLGQPKAAPSVTLFPPSSEELQANK 133
Query: 124 AGVQCLVTKGDP-PLTISWLKNGLPILSDAEITI---RSSGEYTSS--LSIATLSTGHSG 177
A + CL++ P +T++W + P+ + E T +S+ +Y +S LS+
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHK 193
Query: 178 NYTC 181
+Y+C
Sbjct: 194 SYSC 197
>pdb|3MV7|E Chain E, Crystal Structure Of The Tk3 Tcr In Complex With
Hla-B3501HPVG
Length = 241
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 50/112 (44%), Gaps = 15/112 (13%)
Query: 46 DRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQD 105
+RF Q+ LH S +N+SS+ + DS +Y C ++ R G R+ +D
Sbjct: 62 ERFSAQQFPDLH----SELNLSSLELGDSALYFCASSARSGELFFGEGSRLTVL----ED 113
Query: 106 VKLVTSNSRSI------KVHSGDRAGVQCLVTKGDPP-LTISWLKNGLPILS 150
+K V ++ ++ +A + CL T P + +SW NG + S
Sbjct: 114 LKNVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHS 165
>pdb|3CFJ|H Chain H, Crystal Structure Of Catalytic Elimination Antibody 34e4,
Orthorhombic Crystal Form
pdb|3CFJ|B Chain B, Crystal Structure Of Catalytic Elimination Antibody 34e4,
Orthorhombic Crystal Form
pdb|3CFJ|D Chain D, Crystal Structure Of Catalytic Elimination Antibody 34e4,
Orthorhombic Crystal Form
pdb|3CFJ|F Chain F, Crystal Structure Of Catalytic Elimination Antibody 34e4,
Orthorhombic Crystal Form
pdb|3CFK|H Chain H, Crystal Structure Of Catalytic Elimination Antibody 34e4,
Triclinic Crystal Form
pdb|3CFK|B Chain B, Crystal Structure Of Catalytic Elimination Antibody 34e4,
Triclinic Crystal Form
pdb|3CFK|D Chain D, Crystal Structure Of Catalytic Elimination Antibody 34e4,
Triclinic Crystal Form
pdb|3CFK|F Chain F, Crystal Structure Of Catalytic Elimination Antibody 34e4,
Triclinic Crystal Form
pdb|3CFK|I Chain I, Crystal Structure Of Catalytic Elimination Antibody 34e4,
Triclinic Crystal Form
pdb|3CFK|K Chain K, Crystal Structure Of Catalytic Elimination Antibody 34e4,
Triclinic Crystal Form
pdb|3CFK|N Chain N, Crystal Structure Of Catalytic Elimination Antibody 34e4,
Triclinic Crystal Form
pdb|3CFK|P Chain P, Crystal Structure Of Catalytic Elimination Antibody 34e4,
Triclinic Crystal Form
Length = 227
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 66/159 (41%), Gaps = 39/159 (24%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISW---------KLDGYPLAGDRFVMGQ 52
QPG + L C A+G P + W ++ P D+F++ +
Sbjct: 13 QPGGSLKLSCAASGFDFRRYWMTWVRQAPGKGLEWIGEINPDSRTINYMPSLKDKFIISR 72
Query: 53 YMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ + ++ +S +R EDS +Y C R+ ++ V D GQ V + +++
Sbjct: 73 DNAKNS---LYLQLSRLRSEDSALYYCV---RLDFDVYN-HYYVLDYWGQGTSVTVSSAS 125
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
++ S K SG A + CLV P P+T+SW
Sbjct: 126 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 164
>pdb|3MV8|E Chain E, Crystal Structure Of The Tk3-Gln55his Tcr In Complex With
Hla- B3501HPVG
Length = 242
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 50/112 (44%), Gaps = 15/112 (13%)
Query: 46 DRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQD 105
+RF Q+ LH S +N+SS+ + DS +Y C ++ R G R+ +D
Sbjct: 63 ERFSAQQFPDLH----SELNLSSLELGDSALYFCASSARSGELFFGEGSRLTVL----ED 114
Query: 106 VKLVTSNSRSI------KVHSGDRAGVQCLVTKGDPP-LTISWLKNGLPILS 150
+K V ++ ++ +A + CL T P + +SW NG + S
Sbjct: 115 LKNVFPPEVAVFEPSEAEISHTQKATLVCLATGFYPDHVELSWWVNGKEVHS 166
>pdb|1SBS|H Chain H, Crystal Structure Of An Anti-Hcg Fab
Length = 222
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 39/88 (44%), Gaps = 21/88 (23%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW------KLDGYPLAGDRFVMGQYM 54
+QPG + L C+A+G +P + W K + Y V G++
Sbjct: 12 VQPGGSMKLSCVASGFTFSNYWMNWVRQSPEKGLEWVADIRLKSNNYATLYAESVKGRFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCT 80
D S ++ ++++R ED+GIY CT
Sbjct: 72 ISRDDSKSSVYLQMNNLRAEDTGIYYCT 99
>pdb|3MUG|A Chain A, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|C Chain C, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|E Chain E, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|G Chain G, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|I Chain I, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|K Chain K, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
Length = 216
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 57/124 (45%), Gaps = 7/124 (5%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDR 123
+ IS + +ED G Y C++ + +V GQP+ VT S + ++
Sbjct: 75 LTISGLHIEDEGDYFCSSLTDRSHRIFGGGTKV-TVLGQPKAAPSVTLFPPSSEELQANK 133
Query: 124 AGVQCLVTKGDP-PLTISWLKNGLPILSDAEITI---RSSGEYTSS--LSIATLSTGHSG 177
A + CL++ P +T++W + P+ + E T +S+ +Y +S LS+
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHK 193
Query: 178 NYTC 181
+Y+C
Sbjct: 194 SYSC 197
>pdb|2HFG|H Chain H, Crystal Structure Of Hbr3 Bound To Cb3s-fab
Length = 232
Score = 32.3 bits (72), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 41/168 (24%), Positives = 65/168 (38%), Gaps = 43/168 (25%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG---------DRFVMG 51
+QPG + L C A+G P + W P G RF +
Sbjct: 12 VQPGGSLRLSCAASGFTISSSSIHWVRQAPGKGLEWVAWVLPSVGFTDYADSVKGRFTIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCT---ATNRVGSQTHSADMRVYDAPGQPQDVKL 108
S + +++ ++S+R ED+ +Y C NR+G D GQ V +
Sbjct: 72 ADTSKN---TAYLQMNSLRAEDTAVYYCARRVCYNRLGVCAGGMDYW-----GQGTLVTV 123
Query: 109 VTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++++ S K SG A + CLV P P+T+SW L
Sbjct: 124 SSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 171
>pdb|3SOB|H Chain H, The Structure Of The First Ywtd Beta Propeller Domain Of
Lrp6 In Complex With A Fab
Length = 256
Score = 32.3 bits (72), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 40/160 (25%), Positives = 68/160 (42%), Gaps = 36/160 (22%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW-----KLDGYPLAGDRFVMGQYMS 55
+QPG + L C A+G P + W GY D V G++ +
Sbjct: 35 VQPGGSLRLSCAASGFTFTNSYIHWVRQAPGKGLEWVGWITPYGGYTNYADS-VKGRF-T 92
Query: 56 LHGDV---ISHVNISSVRVEDSGIYQCT-ATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
+ D +++ ++S+R ED+ +Y C + V + + V D GQ V + ++
Sbjct: 93 ISADTSKNTAYLQMNSLRAEDTAVYYCARGSGHVNAVKNYG--YVMDYWGQGTLVTVSSA 150
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+++ S K SG A + CLV P P+T+SW
Sbjct: 151 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 190
>pdb|4DKE|H Chain H, Crystal Structure Of Human Interleukin-34 Bound To Fab1.1
pdb|4DKE|I Chain I, Crystal Structure Of Human Interleukin-34 Bound To Fab1.1
Length = 230
Score = 32.3 bits (72), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 44/90 (48%), Gaps = 15/90 (16%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ ++S+R ED+ +Y C GS+ + D GQ V + +++++
Sbjct: 79 AYLQMNSLRAEDTAVYYCARGLGKGSKRGAMDYW-----GQGTLVTVSSASTKGPSVFPL 133
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 134 APSSKSTSGGTAALGCLVKDYFPEPVTVSW 163
>pdb|3G6D|H Chain H, Crystal Structure Of The Complex Between Cnto607 Fab And
Il-13
pdb|3G6A|H Chain H, Crystal Structure Of Anti-Il-13 Antibody Cnto607
pdb|3G6A|B Chain B, Crystal Structure Of Anti-Il-13 Antibody Cnto607
Length = 229
Score = 32.3 bits (72), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 43/158 (27%), Positives = 68/158 (43%), Gaps = 36/158 (22%)
Query: 14 LQPGPPVSLKCIATGNP--TPHISWKLDGYPLAGDRFVMG-QYMS---LHGDVIS----- 62
+QPG + L C A+G + I+W P G +V G Y S L+ D +
Sbjct: 12 VQPGGSLRLSCAASGFTFNSYWINWVRQA-PGKGLEWVSGIAYDSSNTLYADSVKGRFTI 70
Query: 63 ---------HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
++ ++S+R ED+ +Y C G DM+ D GQ V + ++++
Sbjct: 71 SRDNSKNTLYLQMNSLRAEDTAVYYCAR----GLGAFHWDMQP-DYWGQGTLVTVSSAST 125
Query: 114 R---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+ S K SG A + CLV P P+T+SW
Sbjct: 126 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 163
>pdb|3PGF|H Chain H, Crystal Structure Of Maltose Bound Mbp With A
Conformationally Specific Synthetic Antigen Binder (Sab)
Length = 231
Score = 32.3 bits (72), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 40/164 (24%), Positives = 67/164 (40%), Gaps = 40/164 (24%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW-----KLDGYPLAGDRFVMGQYMS 55
+QPG + L C A+G P + W GY D V G++ +
Sbjct: 15 VQPGGSLRLSCAASGFNFSSSYIHWVRQAPGKGLEWVAYISSYSGYTSYADS-VKGRF-T 72
Query: 56 LHGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ D +++ ++S+R ED+ +Y C ++T D GQ V + +++
Sbjct: 73 ISADTSKNTAYLQMNSLRAEDTAVYYC-------ARTPWWYWSGLDYWGQGTLVTVSSAS 125
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
++ S K SG A + CLV P P+T+SW L
Sbjct: 126 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 169
>pdb|3GJE|H Chain H, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3GJE|B Chain B, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3GJF|H Chain H, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3GJF|M Chain M, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
Length = 220
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 41/158 (25%), Positives = 65/158 (41%), Gaps = 39/158 (24%)
Query: 14 LQPGPPVSLKCIATGN--PTPHISWKLDGYPLAGDRFVMGQYMS----LHGDVIS----- 62
+QPG + L C A+G T +SW P G +V G S + D +
Sbjct: 12 VQPGGSLRLSCAASGFTFSTYQMSWVRQA-PGKGLEWVSGIVSSGGSTAYADSVKGRFTI 70
Query: 63 ---------HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
++ ++S+R ED+ +Y C G M V+ GQ V + ++++
Sbjct: 71 SRDNSKNTLYLQMNSLRAEDTAVYYC-----AGELLPYYGMDVW---GQGTTVTVSSAST 122
Query: 114 R---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+ S K SG A + CLV P P+T+SW
Sbjct: 123 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>pdb|4EVN|A Chain A, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|C Chain C, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|E Chain E, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|G Chain G, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|I Chain I, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|K Chain K, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|M Chain M, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
pdb|4EVN|O Chain O, Crystal Structure Of Fab Cr6261 (Somatic Heavy Chain With
Germline- Reverted Light Chain)
Length = 242
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 42/165 (25%), Positives = 68/165 (41%), Gaps = 37/165 (22%)
Query: 12 QTLQPGPPVSLKCIATGNP--TPHISWKLDGYPLAGDRFVMG--------QYM-SLHGDV 60
+ +PG V + C A+G P + ISW + P G ++ G +Y G V
Sbjct: 10 EVKKPGSSVKVSCKASGGPFRSYAISW-VRQAPGQGPEWMGGIIPIFGTTKYAPKFQGRV 68
Query: 61 I---------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
++ +SS+R ED+ +Y C +G Q D G+ V + ++
Sbjct: 69 TITADDFAGTVYMELSSLRSEDTAMYYC--AKHMGYQVR----ETMDVWGKGTTVTVSSA 122
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++ S K SG A + CLV P P+T+SW L
Sbjct: 123 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 167
>pdb|3TNN|H Chain H, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody.
pdb|3TNN|A Chain A, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody.
pdb|3TNN|C Chain C, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody.
pdb|3TNN|E Chain E, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody
Length = 226
Score = 32.3 bits (72), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 41/86 (47%), Gaps = 18/86 (20%)
Query: 66 ISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR---------SI 116
++S+R ED+ +Y C R+G + D GQ V + +++++ S
Sbjct: 83 MNSLRAEDTAVYYCAKDLRLGGGS--------DYWGQGTLVTVSSASTKGPSVFPLAPSS 134
Query: 117 KVHSGDRAGVQCLVTKGDP-PLTISW 141
K SG A + CLV P P+T+SW
Sbjct: 135 KSTSGGTAALGCLVKDYFPEPVTVSW 160
>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 = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 42/94 (44%), Gaps = 21/94 (22%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW------KLDGYPLAGDRFVMGQYM 54
+QPG + L C A+G +P + W K + + V G++
Sbjct: 12 VQPGGSMKLSCAASGFTFSDAWVDWVRQSPGKGLEWVAEIRNKANNHATKYTESVKGRFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCTATNRVG 86
D S ++ ++S+R ED+GIY CT+ ++G
Sbjct: 72 ISRDDSKSSVYLQMNSLRAEDTGIYYCTSVPQLG 105
>pdb|4G5Z|H Chain H, Crystal Structure Of The Therapeutical Antibody Fragment
Of Canakinumab In Its Unbound State
pdb|4G6J|H Chain H, Crystal Structure Of Human Il-1beta In Complex With The
Therapeutic Antibody Binding Fragment Of Canakinumab
Length = 218
Score = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 19/89 (21%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++ +R ED+ +Y C R G +D GQ V + +++++
Sbjct: 80 YLQMNGLRAEDTAVYYCARDLRTGP---------FDYWGQGTLVTVSSASTKGPSVFPLA 130
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 131 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 159
>pdb|3HR5|H Chain H, M1prime Peptide From Ige Bound By Humanized Antibody 47h4
Fab
pdb|3HR5|B Chain B, M1prime Peptide From Ige Bound By Humanized Antibody 47h4
Fab
pdb|3HR5|I Chain I, M1prime Peptide From Ige Bound By Humanized Antibody 47h4
Fab
pdb|3HR5|J Chain J, M1prime Peptide From Ige Bound By Humanized Antibody 47h4
Fab
Length = 226
Score = 32.0 bits (71), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 38/157 (24%), Positives = 63/157 (40%), Gaps = 39/157 (24%)
Query: 14 LQPGPPVSLKCIATGNPTPH--ISW--KLDGYPLAGDRFVMG-QYMSLHGDVIS------ 62
+QPG + L C A+G I+W + G L F+ Y + D ++
Sbjct: 12 VQPGGSLRLSCAASGFTFSDYGIAWVRQAPGKGLEWVAFISDLAYTIYYADTVTGRFTIS 71
Query: 63 --------HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR 114
++ ++S+R ED+ +Y C N D GQ V + +++++
Sbjct: 72 RDNSKNTLYLQMNSLRAEDTAVYYCARDN----------WDAMDYWGQGTLVTVSSASTK 121
Query: 115 ---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 122 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 158
>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 = 0.38, Method: Compositional matrix adjust.
Identities = 39/157 (24%), Positives = 61/157 (38%), Gaps = 33/157 (21%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRFVMGQY---MS 55
+ ++PG V + C ATG P + W + P +G + +
Sbjct: 10 ELMKPGASVKISCKATGYTFSTSWIEWIKQRPGHGLEWIGEVLPGSGKSNHNANFKGRAT 69
Query: 56 LHGDVIS---HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
D S ++ +SS+ EDS +Y C R GS ++ Y G V ++
Sbjct: 70 FTADTASNTAYMQLSSLTSEDSAVYYCA---REGSNNNA---LAYWGQGTLVTVSAASTK 123
Query: 113 SRSI-------KVHSGDRAGVQCLVTKGDP-PLTISW 141
S+ K SG A + CLV P P+T+SW
Sbjct: 124 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>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 = 32.0 bits (71), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 23/88 (26%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRF-------VMGQY 53
+QPG + L C+A+G +P + W + L D F V G++
Sbjct: 12 VQPGGSMKLSCVASGFTFNNYWMSWVRQSPEKGLEWVAE-IRLNSDNFATHYAESVKGKF 70
Query: 54 MSLHGDVIS--HVNISSVRVEDSGIYQC 79
+ D S ++ ++S+R ED+GIY C
Sbjct: 71 IISRDDSKSRLYLQMNSLRAEDTGIYYC 98
>pdb|2HFF|B Chain B, Crystal Structure Of Cb2 Fab
pdb|2HFF|H Chain H, Crystal Structure Of Cb2 Fab
Length = 232
Score = 32.0 bits (71), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 41/168 (24%), Positives = 66/168 (39%), Gaps = 43/168 (25%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGD---------RFVMG 51
+QPG + L C A+G P + W P G+ RF +
Sbjct: 12 VQPGGSLRLSCAASGFTISSNSIHWVRQAPGKGLEWVAWITPSDGNTDYADSVKGRFTIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCT---ATNRVGSQTHSADMRVYDAPGQPQDVKL 108
S + +++ ++S+R ED+ +Y C NR+G D GQ V +
Sbjct: 72 ADTSKN---TAYLQMNSLRAEDTAVYYCARRVCYNRLGVCAGGMDYW-----GQGTLVTV 123
Query: 109 VTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++++ S K SG A + CLV P P+T+SW L
Sbjct: 124 SSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 171
>pdb|2C5D|C Chain C, Structure Of A Minimal Gas6-Axl Complex
pdb|2C5D|D Chain D, Structure Of A Minimal Gas6-Axl Complex
Length = 195
Score = 32.0 bits (71), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 33/136 (24%), Positives = 59/136 (43%), Gaps = 16/136 (11%)
Query: 21 SLKCI--ATGNPTPHISWKLDGYPLA-----GDRFVMGQYMSLHGDVISHVNISSVRVED 73
+L+C G P P + W DG L + +G+ V+S + I+S+++ D
Sbjct: 21 TLRCQLQVQGEP-PEVHWLRDGQILELADSTQTQVPLGEDEQDDWIVVSQLRITSLQLSD 79
Query: 74 SGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKG 133
+G YQC +G QT + G P L R++ ++ Q +G
Sbjct: 80 TGQYQCLVF--LGHQTFVSQPGYVGLEGLP--YFLEEPEDRTVAANTPFNLSCQA---QG 132
Query: 134 DP-PLTISWLKNGLPI 148
P P+ + WL++ +P+
Sbjct: 133 PPEPVDLLWLQDAVPL 148
>pdb|4AL8|H Chain H, Structure Of Dengue Virus Diii In Complex With Fab 2h12
pdb|4ALA|H Chain H, Structure Of Dengue Virus Diii In Complex With Fab 2h12
Length = 217
Score = 32.0 bits (71), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 42/160 (26%), Positives = 69/160 (43%), Gaps = 41/160 (25%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFVMGQY 53
+ +QPG V + C A+G P + W + YP +G D+F
Sbjct: 10 ELVQPGASVKMSCKASGYTFSSYWINWEKQRPGKGLEWIGNIYPGSGTVNYDDKFKSKAT 69
Query: 54 MSLHGDV-ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+++ +++ +SS+ EDS +Y CT R GS H+ D GQ V + ++
Sbjct: 70 LTIDTSSNTAYMQLSSLTSEDSAVYYCT---RGGS--HAMDYW-----GQGTSVTVSSAK 119
Query: 113 SRSIKVH-----SGDRAG----VQCLVTKGDPP--LTISW 141
+ V+ GD G + CLV KG P +T++W
Sbjct: 120 TTPPSVYPLAPGCGDTTGSSVTLGCLV-KGYFPESVTVTW 158
>pdb|2NZ9|D Chain D, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Ar2
pdb|2NZ9|F Chain F, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Ar2
Length = 224
Score = 32.0 bits (71), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 41/160 (25%), Positives = 63/160 (39%), Gaps = 34/160 (21%)
Query: 14 LQPGPPVSLKCIATG-NPTPHISWKLDGYPLAGDRFVM-----GQYM----SLHGDVIS- 62
+QPG + L C A+G + H + + P G +V G Y S+ G +
Sbjct: 12 VQPGGSLRLSCAASGFTFSDHYMYWVRQAPGKGLEWVATISDGGSYTYYSDSVEGRFTTS 71
Query: 63 --------HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR 114
++ ++S+R ED+ IY C S+ D Y G V ++
Sbjct: 72 RDNSKNTLYLQMNSLRAEDTAIYYC-------SRYRYDDAMDYWGQGTLVTVSSASTKGP 124
Query: 115 SI-------KVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S+ K SG A + CLV P P+T+SW L
Sbjct: 125 SVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 164
>pdb|1W72|H Chain H, Crystal Structure Of Hla-A1:mage-A1 In Complex With Fab-
Hyb3
pdb|1W72|I Chain I, Crystal Structure Of Hla-A1:mage-A1 In Complex With Fab-
Hyb3
Length = 223
Score = 32.0 bits (71), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 26/89 (29%), Positives = 45/89 (50%), Gaps = 15/89 (16%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED+ +Y C A R G + M ++ GQ V + +++++
Sbjct: 80 YLQMNSLRAEDTAVYYC-ARGR-GFHYYYYGMDIW---GQGTTVTVSSASTKGPSVFPLA 134
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 135 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 163
>pdb|1Q72|H Chain H, Anti-Cocaine Antibody M82g2 Complexed With Cocaine
Length = 223
Score = 32.0 bits (71), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 42/94 (44%), Gaps = 21/94 (22%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW------KLDGYPLAGDRFVMGQYM 54
+QPG + L C A+G +P + W K + + V G++
Sbjct: 12 VQPGGSMKLSCAASGFTFSDAWVDWVRQSPGKGLEWVAEIRNKANNHATKYTESVKGRFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCTATNRVG 86
D S ++ ++S+R ED+GIY CT+ ++G
Sbjct: 72 ISRDDSKSSVYLQMNSLRAEDTGIYYCTSVPQLG 105
>pdb|1VSC|A Chain A, Vcam-1
pdb|1VSC|B Chain B, Vcam-1
Length = 196
Score = 32.0 bits (71), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 35/91 (38%), Gaps = 9/91 (9%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLD-GYPLAGDRFVMGQYMSLHGDVISHVNISSVRVED 73
Q G VSL C TG +P SW+ PL G G +L + +S N S
Sbjct: 14 QIGDSVSLTCSTTGCESPFFSWRTQIDSPLNGKVTNEGTTSTLTMNPVSFGNEHS----- 68
Query: 74 SGIYQCTATNRVGSQTHSADMRVYDAPGQPQ 104
Y CTAT + +Y P P+
Sbjct: 69 ---YLCTATCESRKLEKGIQVEIYSFPKDPE 96
>pdb|3F12|B Chain B, Germline V-Genes Sculpt The Binding Site Of A Family Of
Antibodies Neutralizing Human Cytomegalovirus
pdb|3F12|D Chain D, Germline V-Genes Sculpt The Binding Site Of A Family Of
Antibodies Neutralizing Human Cytomegalovirus
Length = 242
Score = 32.0 bits (71), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 40/92 (43%), Gaps = 18/92 (19%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI------ 116
++ ++S+R ED+ +Y C + + + + Y G LVT +S S
Sbjct: 80 YLQMNSLRAEDTAVYYCAKDGKCAGGSCYSGLLDYWGQGT-----LVTVSSASFKGPSVF 134
Query: 117 ------KVHSGDRAGVQCLVTKGDP-PLTISW 141
K SG A + CLV P P+T+SW
Sbjct: 135 PLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 166
>pdb|3EFD|H Chain H, The Crystal Structure Of The Cytoplasmic Domain Of Kcsa
Length = 222
Score = 32.0 bits (71), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 41/166 (24%), Positives = 69/166 (41%), Gaps = 42/166 (25%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLD-----GYPLAGDRFVMGQYMS 55
+QPG + L C A+G P + W GY D V G++ +
Sbjct: 12 VQPGGSLRLSCAASGFNLSYSSMHWVRQAPGKGLEWVAYISPSYGYTSYADS-VKGRF-T 69
Query: 56 LHGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMR--VYDAPGQPQDVKLVT 110
+ D +++ ++S+R ED+ +Y C +++ A R D GQ V + +
Sbjct: 70 ISADTSKNTAYLQMNSLRAEDTAVYYC-------ARSWEAYWRWSAMDYWGQGTLVTVSS 122
Query: 111 SNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
++++ S K SG A + CLV P P+T+SW L
Sbjct: 123 ASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 168
>pdb|4G6F|L Chain L, Crystal Structure Of 10e8 Fab In Complex With An Hiv-1
Gp41 Peptide
pdb|4G6F|D Chain D, Crystal Structure Of 10e8 Fab In Complex With An Hiv-1
Gp41 Peptide
Length = 215
Score = 32.0 bits (71), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 29/128 (22%), Positives = 58/128 (45%), Gaps = 13/128 (10%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTH----SADMRVYDAPGQPQDVKLVTSNSRSIKVH 119
+ IS + ED Y C++ ++ GS+ + V P V L +S ++
Sbjct: 72 LTISGAQAEDDAEYYCSSRDKSGSRLSVFGGGTKLTVLSQPKAAPSVTLFPPSSEELQA- 130
Query: 120 SGDRAGVQCLVTKGDP-PLTISWLKNGLPILSDAEITI---RSSGEYTSS--LSIATLST 173
++A + CL++ P +T++W + P+ + E T +S+ +Y +S LS+
Sbjct: 131 --NKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQW 188
Query: 174 GHSGNYTC 181
+Y+C
Sbjct: 189 KSHRSYSC 196
>pdb|1VCA|A Chain A, Crystal Structure Of An Integrin-Binding Fragment Of
Vascular Cell Adhesion Molecule-1 At 1.8 Angstroms
Resolution
pdb|1VCA|B Chain B, Crystal Structure Of An Integrin-Binding Fragment Of
Vascular Cell Adhesion Molecule-1 At 1.8 Angstroms
Resolution
Length = 202
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 35/91 (38%), Gaps = 9/91 (9%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLD-GYPLAGDRFVMGQYMSLHGDVISHVNISSVRVED 73
Q G VSL C TG +P SW+ PL G G +L + +S N S
Sbjct: 14 QIGDSVSLTCSTTGCESPFFSWRTQIDSPLNGKVTNEGTTSTLTMNPVSFGNEHS----- 68
Query: 74 SGIYQCTATNRVGSQTHSADMRVYDAPGQPQ 104
Y CTAT + +Y P P+
Sbjct: 69 ---YLCTATCESRKLEKGIQVEIYSFPKDPE 96
>pdb|1IJ9|A Chain A, Highly Hydrated Human Vcam-1 Fragment
Length = 196
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 37/92 (40%), Gaps = 11/92 (11%)
Query: 15 QPGPPVSLKCIATGNPTPHISWK--LDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVE 72
Q G VSL C TG +P SW+ +D PL G G +L + +S N S
Sbjct: 14 QIGDSVSLTCSTTGCESPFFSWRTQIDS-PLNGKVTNEGTTSTLTMNPVSFGNEHS---- 68
Query: 73 DSGIYQCTATNRVGSQTHSADMRVYDAPGQPQ 104
Y CTAT + +Y P P+
Sbjct: 69 ----YLCTATCESRKLEKGIQVEIYSFPKDPE 96
>pdb|3SQO|H Chain H, Pcsk9 J16 Fab Complex
Length = 219
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 52/218 (23%), Positives = 90/218 (41%), Gaps = 48/218 (22%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFVMGQYMSL 56
+PG V + C A+G P + W + P G ++F M+
Sbjct: 13 KPGASVKVSCKASGYTFTSYYMHWVRQAPGQGLEWMGEISPFGGRTNYNEKFKSRVTMTR 72
Query: 57 HGDVIS-HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR- 114
+ ++ +SS+R ED+ +Y C A R + D GQ V + +++++
Sbjct: 73 DTSTSTVYMELSSLRSEDTAVYYC-ARER--------PLYASDLWGQGTTVTVSSASTKG 123
Query: 115 --------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGLPI-LSDAEITIRSSGEYTS 164
S + S A + CLV P P+T+SW L + ++SSG Y+
Sbjct: 124 PSVFPLAPSSRSTSESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLYSL 183
Query: 165 SLSIATLSTGHSG--NYTCVASNTVASDNHSSNLRVNE 200
S S+ T+ + + G YTC D+ SN +V++
Sbjct: 184 S-SVVTVPSSNFGTQTYTCNV------DHKPSNTKVDK 214
>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 = 32.0 bits (71), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 30/121 (24%), Positives = 54/121 (44%), Gaps = 17/121 (14%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH-- 119
+++ +SS+ EDS +Y C ++++S +R D GQ V + ++ + + V+
Sbjct: 79 AYMQLSSLTSEDSAVYYC-------ARSYSNYVRAMDYWGQGTSVTVSSAKTTAPSVYPL 131
Query: 120 -------SGDRAGVQCLVTKGDP-PLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATL 171
+G + CLV P P+T++W L + SG YT S S+
Sbjct: 132 VPVCGGTTGSSVTLGCLVKGYFPEPVTLTWNSGSLSSGVHTFPALLQSGLYTLSSSVTVT 191
Query: 172 S 172
S
Sbjct: 192 S 192
>pdb|3TWC|L Chain L, Crystal Structure Of Broad And Potent Hiv-1 Neutralizing
Antibody Pgt127 In Complex With Man9
Length = 211
Score = 31.6 bits (70), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 31/155 (20%), Positives = 63/155 (40%), Gaps = 16/155 (10%)
Query: 16 PGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVM-----------GQYMSLHGDVISHV 64
PG +++ C T N +SW YP + V+ ++ + +
Sbjct: 14 PGQSITISCTGTSNN--FVSW-YQQYPGKAPKLVIYEVNKRPSGVPDRFSGSKSGSTASL 70
Query: 65 NISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRA 124
+S ++ +D G+Y C++ ++ GQP+ VT S + ++A
Sbjct: 71 TVSGLQADDEGVYYCSSLVGNWDVIFGGGTKL-TVLGQPKAAPSVTLFPPSSEELQANKA 129
Query: 125 GVQCLVTKGDP-PLTISWLKNGLPILSDAEITIRS 158
+ CL++ P +T++W + P+ + E T S
Sbjct: 130 TLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPS 164
>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 = 31.6 bits (70), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 37/87 (42%), Gaps = 21/87 (24%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW------KLDGYPLAGDRFVMGQYM 54
+QPG + L C+ +G +P + W K D Y V G++
Sbjct: 12 VQPGGSMKLSCVVSGLTFSRFWMSWVRQSPEKGLEWVAEIRLKSDNYATHYAESVKGKFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQC 79
D S ++ ++S+R ED+GIY C
Sbjct: 72 ISRDDSKSRLYLQMNSLRTEDTGIYYC 98
>pdb|3EO9|H Chain H, Crystal Structure The Fab Fragment Of Efalizumab
Length = 219
Score = 31.6 bits (70), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 42/89 (47%), Gaps = 16/89 (17%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED+ +Y C T+ +D GQ V + +++++
Sbjct: 80 YLQMNSLRAEDTAVYYCARGIYFYGTTY------FDYWGQGTLVTVSSASTKGPSVFPLA 133
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 134 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 162
>pdb|1PKQ|B Chain B, Myelin Oligodendrocyte Glycoprotein-(8-18c5) Fab-Complex
pdb|1PKQ|G Chain G, Myelin Oligodendrocyte Glycoprotein-(8-18c5) Fab-Complex
Length = 252
Score = 31.6 bits (70), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 37/157 (23%), Positives = 64/157 (40%), Gaps = 38/157 (24%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFV-MGQYM 54
++PG V + C ATG P + W + P G ++F +
Sbjct: 33 VKPGASVEISCKATGYTFSSFWIEWVKQRPGHGLEWIGEILPGRGRTNYNEKFKGKATFT 92
Query: 55 SLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR 114
+ +++ +SS+ EDS +Y C N + +M + GQ V + +++++
Sbjct: 93 AETSSNTAYMQLSSLTSEDSAVYYCATGNTM------VNMPYW---GQGTTVTVSSASTK 143
Query: 115 ---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 144 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 180
>pdb|2CRY|A Chain A, Solution Structure Of The Fifth Ig-Like Domain Of Human
Kin Of Irre Like 3
Length = 122
Score = 31.6 bits (70), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 27/80 (33%), Positives = 35/80 (43%), Gaps = 8/80 (10%)
Query: 17 GPPVSLKCIATGNPTP-HISWKLDGYPLAGDRFVMGQY----MSLHGDVISHVNISS-VR 70
G +KC P P I+W L + G+Y +S VIS + IS+ VR
Sbjct: 28 GEKGQIKCFIRSTPPPDRIAWSWKENVL--ESGTSGRYTVETISTEEGVISTLTISNIVR 85
Query: 71 VEDSGIYQCTATNRVGSQTH 90
+ IY CTA N GS T
Sbjct: 86 ADFQTIYNCTAWNSFGSDTE 105
Score = 27.7 bits (60), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 39/92 (42%), Gaps = 8/92 (8%)
Query: 121 GDRAGVQCLVTKGDPP--LTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGN 178
G++ ++C + PP + SW +N L + T+ + +S T+S +
Sbjct: 28 GEKGQIKCFIRSTPPPDRIAWSWKENVLESGTSGRYTVETISTEEGVISTLTISNIVRAD 87
Query: 179 ----YTCVASNTVASDNHSSNLRVNEYTSSLS 206
Y C A N+ SD +R+ E S +S
Sbjct: 88 FQTIYNCTAWNSFGSDTEI--IRLKEQGSEMS 117
>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 = 31.6 bits (70), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 42/160 (26%), Positives = 69/160 (43%), Gaps = 41/160 (25%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFVMGQY 53
+ +QPG V + C A+G P + W + YP +G D+F
Sbjct: 10 ELVQPGASVKMSCKASGYTFSSYWINWEKQRPGKGLEWIGNIYPGSGTVNYDDKFKSKAT 69
Query: 54 MSLHGDV-ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+++ +++ +SS+ EDS +Y CT R GS H+ D GQ V + ++
Sbjct: 70 LTIDTSSNTAYMQLSSLTSEDSAVYYCT---RGGS--HAMDYW-----GQGTSVTVSSAK 119
Query: 113 SRSIKVH-----SGDRAG----VQCLVTKGDPP--LTISW 141
+ V+ S D G + CLV KG P +T++W
Sbjct: 120 TTPPSVYPLAPGSADTTGSSVTLGCLV-KGYFPESVTVTW 158
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 31.6 bits (70), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 14/33 (42%), Positives = 21/33 (63%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRV 96
+N ++V V+D+G Y C TN G+ T SA + V
Sbjct: 370 LNFTNVTVQDTGQYTCMVTNSAGNTTASATLNV 402
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/83 (21%), Positives = 39/83 (46%), Gaps = 2/83 (2%)
Query: 116 IKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGH 175
+ V G A ++C G +++WL +++ +R S + +L+ ++
Sbjct: 322 LNVTEGMAAELKC--RTGTSMTSVNWLTPNGTLMTHGSYRVRISVLHDGTLNFTNVTVQD 379
Query: 176 SGNYTCVASNTVASDNHSSNLRV 198
+G YTC+ +N+ + S+ L V
Sbjct: 380 TGQYTCMVTNSAGNTTASATLNV 402
>pdb|3EOA|H Chain H, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form I
pdb|3EOA|B Chain B, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form I
pdb|3EOB|H Chain H, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form Ii
pdb|3EOB|B Chain B, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form Ii
Length = 220
Score = 31.6 bits (70), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 42/89 (47%), Gaps = 16/89 (17%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED+ +Y C T+ +D GQ V + +++++
Sbjct: 80 YLQMNSLRAEDTAVYYCARGIYFYGTTY------FDYWGQGTLVTVSSASTKGPSVFPLA 133
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 134 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 162
>pdb|1R24|B Chain B, Fab From Murine Igg3 Kappa
pdb|1R24|D Chain D, Fab From Murine Igg3 Kappa
Length = 217
Score = 31.6 bits (70), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 43/89 (48%), Gaps = 15/89 (16%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH--- 119
+ ++S+R ED+ IY CT R G+ T S + +D GQ + + ++ + + V+
Sbjct: 80 FLQMTSLRSEDTAIYYCT---RGGTGTRS--LYYFDYWGQGATLIVSSATTTAPSVYPLV 134
Query: 120 ------SGDRAGVQCLVTKGDP-PLTISW 141
SG + CLV P P+T+ W
Sbjct: 135 PGCSDTSGSSVTLGCLVKGYFPGPVTVKW 163
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 31.6 bits (70), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 34/69 (49%), Gaps = 7/69 (10%)
Query: 133 GDPPLTISWL---KNGLPILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVAS 189
GDPP I WL K+ + S+ +T+ G +L + +G Y C+A+N +
Sbjct: 411 GDPPPAILWLSPRKHLVSAKSNGRLTVFPDG----TLEVRYAQVQDNGTYLCIAANAGGN 466
Query: 190 DNHSSNLRV 198
D+ ++L V
Sbjct: 467 DSMPAHLHV 475
Score = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 36/86 (41%), Gaps = 4/86 (4%)
Query: 11 QQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVR 70
Q + G V C A G+P P I W L + +++ D + + +
Sbjct: 394 QVFVDEGHTVQFVCRADGDPPPAILWLSPRKHLVSAK--SNGRLTVFPD--GTLEVRYAQ 449
Query: 71 VEDSGIYQCTATNRVGSQTHSADMRV 96
V+D+G Y C A N G+ + A + V
Sbjct: 450 VQDNGTYLCIAANAGGNDSMPAHLHV 475
>pdb|2G5B|B Chain B, Crystal Structure Of The Anti-Bax Monoclonal Antibody 6a7
And A Bax Peptide.
pdb|2G5B|D Chain D, Crystal Structure Of The Anti-Bax Monoclonal Antibody 6a7
And A Bax Peptide.
pdb|2G5B|F Chain F, Crystal Structure Of The Anti-Bax Monoclonal Antibody 6a7
And A Bax Peptide.
pdb|2G5B|H Chain H, Crystal Structure Of The Anti-Bax Monoclonal Antibody 6a7
And A Bax Peptide
Length = 222
Score = 31.6 bits (70), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 62/160 (38%), Gaps = 39/160 (24%)
Query: 14 LQPGPPVSLKCIATGN-------------PTPHISW------KLDGYPLAGDRFVMGQYM 54
+QPG + L C +G P + W K++GY V G++
Sbjct: 12 VQPGGSLRLSCATSGFTFIDNYMSWVRQPPGKALEWLGFIRNKVNGYTTEYGPSVKGRFT 71
Query: 55 SLHGDV--ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY-DAPGQPQDVKLVTS 111
D I ++ ++++R EDS Y C N +D R Y D G V + ++
Sbjct: 72 ISRDDSQSILYLQMNTLRTEDSATYYCVRDN-------GSDYRWYFDVWGAGTTVTVSSA 124
Query: 112 NSRSIKVH---SGDRAGVQCLVTKG-------DPPLTISW 141
+ V+ G AG +VT G P+T++W
Sbjct: 125 KTTPPSVYPLAPGSAAGTNSMVTLGCLVKGYFPEPVTVTW 164
>pdb|2ZG2|A Chain A, Crystal Structure Of Two N-Terminal Domains Of Native
Siglec-5
Length = 216
Score = 31.6 bits (70), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 49/209 (23%), Positives = 75/209 (35%), Gaps = 40/209 (19%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDV 60
S P +Y F + P + +AT NP + P RF L GDV
Sbjct: 35 SPPLYVYWFRDGEI----PYYAEVVATNNPDRRVK------PETQGRF------RLLGDV 78
Query: 61 ISH---VNISSVRVEDSGIYQCTATN----RVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
++I R+ED+G Y + Q + ++ V +P D+ +
Sbjct: 79 QKKNCSLSIGDARMEDTGSYFFRVERGRDVKYSYQQNKLNLEVTALIEKP-DIHFLEP-- 135
Query: 114 RSIKVHSGDRAGVQCLV---TKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIAT 170
+ SG + C + + PPLT SW N L L D E T +S L++
Sbjct: 136 ----LESGRPTRLSCSLPGSCEAGPPLTFSWTGNALSPL-DPETT------RSSELTLTP 184
Query: 171 LSTGHSGNYTCVASNTVASDNHSSNLRVN 199
H N TC A +++N
Sbjct: 185 RPEDHGTNLTCQMKRQGAQVTTERTVQLN 213
>pdb|1I3R|A Chain A, Crystal Structure Of A Mutant Iek Class Ii Mhc Molecule
pdb|1I3R|C Chain C, Crystal Structure Of A Mutant Iek Class Ii Mhc Molecule
pdb|1I3R|E Chain E, Crystal Structure Of A Mutant Iek Class Ii Mhc Molecule
pdb|1I3R|G Chain G, Crystal Structure Of A Mutant Iek Class Ii Mhc Molecule
Length = 192
Score = 31.6 bits (70), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 52/114 (45%), Gaps = 21/114 (18%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIY-----QCTATNRVGSQTHSADMRVY--- 97
G++M GD I HV+I R+E+ + Q N ++ + M+
Sbjct: 20 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVNKANLDVMKERSNN 79
Query: 98 --DAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
DA P+ VT SRS V+ G+ + C + K PP+ ++WL+NG P+
Sbjct: 80 TPDANVAPE----VTVLSRS-PVNLGEPNILICFIDKFSPPVVNVTWLRNGRPV 128
>pdb|1IEA|A Chain A, Histocompatibility Antigen
pdb|1IEA|C Chain C, Histocompatibility Antigen
pdb|1IEB|A Chain A, Histocompatibility Antigen
pdb|1IEB|C Chain C, Histocompatibility Antigen
Length = 192
Score = 31.6 bits (70), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 51/114 (44%), Gaps = 21/114 (18%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIY-----QCTATNRVGSQTHSADMRVY--- 97
G++M GD I HV+I R+E+ + Q N + + M+
Sbjct: 20 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 79
Query: 98 --DAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
DA P+ VT SRS V+ G+ + C + K PP+ ++WL+NG P+
Sbjct: 80 TPDANVAPE----VTVLSRS-PVNLGEPNILICFIDKFSPPVVNVTWLRNGRPV 128
>pdb|1KTD|A Chain A, Crystal Structure Of Class Ii Mhc Molecule Iek Bound To
Pigeon Cytochrome C Peptide
pdb|1KTD|C Chain C, Crystal Structure Of Class Ii Mhc Molecule Iek Bound To
Pigeon Cytochrome C Peptide
Length = 182
Score = 31.6 bits (70), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 51/114 (44%), Gaps = 21/114 (18%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIY-----QCTATNRVGSQTHSADMRVY--- 97
G++M GD I HV+I R+E+ + Q N + + M+
Sbjct: 20 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 79
Query: 98 --DAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
DA P+ VT SRS V+ G+ + C + K PP+ ++WL+NG P+
Sbjct: 80 TPDANVAPE----VTVLSRS-PVNLGEPNILICFIDKFSPPVVNVTWLRNGRPV 128
>pdb|2ZG1|A Chain A, Crystal Structure Of Two N-Terminal Domains Of Siglec-5 In
Complex With 6'-Sialyllactose
pdb|2ZG3|A Chain A, Crystal Structure Of Two N-terminal Domains Of Native
Siglec-5 In Complex With 3'-sialyllactose
Length = 214
Score = 31.6 bits (70), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 49/209 (23%), Positives = 75/209 (35%), Gaps = 40/209 (19%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDV 60
S P +Y F + P + +AT NP + P RF L GDV
Sbjct: 34 SPPLYVYWFRDGEI----PYYAEVVATNNPDRRVK------PETQGRF------RLLGDV 77
Query: 61 ISH---VNISSVRVEDSGIYQCTATN----RVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
++I R+ED+G Y + Q + ++ V +P D+ +
Sbjct: 78 QKKNCSLSIGDARMEDTGSYFFRVERGRDVKYSYQQNKLNLEVTALIEKP-DIHFLEP-- 134
Query: 114 RSIKVHSGDRAGVQCLV---TKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIAT 170
+ SG + C + + PPLT SW N L L D E T +S L++
Sbjct: 135 ----LESGRPTRLSCSLPGSCEAGPPLTFSWTGNALSPL-DPETT------RSSELTLTP 183
Query: 171 LSTGHSGNYTCVASNTVASDNHSSNLRVN 199
H N TC A +++N
Sbjct: 184 RPEDHGTNLTCQMKRQGAQVTTERTVQLN 212
>pdb|3QOT|H Chain H, Crystal Structure Of Human Germline Antibody 1-69B3
Length = 228
Score = 31.6 bits (70), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 37/168 (22%), Positives = 63/168 (37%), Gaps = 51/168 (30%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI------------- 61
+PG V + C A+G Y ++ R GQ + G +I
Sbjct: 13 KPGSSVKVSCKASGG-------TFSSYAISWVRQAPGQGLEWMGGIIPIFGTANYAQKFQ 65
Query: 62 -------------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKL 108
+++ +SS+R ED+ +Y C + + + D GQ V +
Sbjct: 66 GRVTITADESTSTAYMELSSLRSEDTAVYYCARYDGIYGE--------LDFWGQGTLVTV 117
Query: 109 VTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++++ S K SG A + CLV P P+T+SW L
Sbjct: 118 SSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 165
>pdb|1AD0|B Chain B, Fab Fragment Of Engineered Human Monoclonal Antibody A5b7
pdb|1AD0|D Chain D, Fab Fragment Of Engineered Human Monoclonal Antibody A5b7
Length = 220
Score = 31.6 bits (70), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 62/160 (38%), Gaps = 41/160 (25%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW------KLDGYPLAGDRFVMGQYM 54
+QPG + L C +G P + W K +GY V G++
Sbjct: 12 VQPGGSLRLSCATSGFTFTDYYMNWVRQAPGKGLEWLGFIGNKANGYTTEYSASVKGRFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY-DAPGQPQDVKLVTS 111
S ++ +++++ EDS IY C T +R Y D GQ V + ++
Sbjct: 72 ISRDKSKSTLYLQMNTLQAEDSAIYYC---------TRDRGLRFYFDYWGQGTLVTVSSA 122
Query: 112 NSRSIKVH---------SGDRAGVQCLVTKGDP-PLTISW 141
+++ V S A + CLV P P+T+SW
Sbjct: 123 STKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSW 162
>pdb|3N85|H Chain H, Crystallographic Trimer Of Her2 Extracellular Regions In
Complex With Tryptophan-Rich Antibody Fragment
Length = 224
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 40/165 (24%), Positives = 67/165 (40%), Gaps = 45/165 (27%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG---------DRFVMG 51
+QPG + L C A+G P + W P +G RF +
Sbjct: 12 VQPGGSLRLSCAASGFSIWWSWIHWVRQAPGKGLEWVASISPSSGWTSYADSVKGRFTIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
S + +++ ++S+R ED+ +Y C ++ S+ M D GQ V + ++
Sbjct: 72 ADTSKN---TAYLQMNSLRAEDTAVYYC-------ARWWSSAM---DYWGQGTLVTVSSA 118
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++ S K SG A + CLV P P+T+SW L
Sbjct: 119 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 163
>pdb|1ZVY|A Chain A, Crystal Structure Of The Vhh D3-l11 In Complex With Hen
Egg White Lysozyme
Length = 136
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 30/124 (24%), Positives = 52/124 (41%), Gaps = 26/124 (20%)
Query: 13 TLQPGPPVSLKCIATG--NPTPHISWKLDG-----------YPLAGD---------RFVM 50
++Q G + L C A+G + +++W Y G+ RF +
Sbjct: 11 SVQAGGSLRLSCAASGSTDSIEYMTWFRQAPGKAREGVAALYTHTGNTYYTDSVKGRFTI 70
Query: 51 GQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVT 110
Q + + ++++ + SV+ ED+ IY C AT + + D YD GQ V V+
Sbjct: 71 SQDKAKN---MAYLRMDSVKSEDTAIYTCGATRKYVPVRFALDQSSYDYWGQGTQV-TVS 126
Query: 111 SNSR 114
S R
Sbjct: 127 SRGR 130
>pdb|3QIU|A Chain A, Crystal Structure Of The 226 Tcr In Complex With MccI-Ek
Length = 179
Score = 31.2 bits (69), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 51/114 (44%), Gaps = 21/114 (18%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIY-----QCTATNRVGSQTHSADMRVY--- 97
G++M GD I HV+I R+E+ + Q N + + M+
Sbjct: 18 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 77
Query: 98 --DAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
DA P+ VT SRS V+ G+ + C + K PP+ ++WL+NG P+
Sbjct: 78 TPDANVAPE----VTVLSRS-PVNLGEPNILICFIDKFSPPVVNVTWLRNGRPV 126
>pdb|2DLT|A Chain A, Solution Structure Of The Ig-Like Domain(433- 525) Of
Murine Myosin-Binding Protein C, Fast-Type
Length = 106
Score = 31.2 bits (69), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 32/67 (47%), Gaps = 3/67 (4%)
Query: 116 IKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEYTSSLSIATLSTGH 175
+ V + ++A +C V+ D +T W KNG+ + ITI G + L I +
Sbjct: 18 LTVKAAEQAVFKCEVS--DEKVTGKWYKNGVEVRPSKRITISHVGRF-HKLVIDDVRPED 74
Query: 176 SGNYTCV 182
G+YT V
Sbjct: 75 EGDYTFV 81
>pdb|2DL9|A Chain A, Solution Structure Of The Ig-Like Domain Of Human Leucine-
Rich Repeat-Containing Protein 4
Length = 103
Score = 31.2 bits (69), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 14/37 (37%), Positives = 20/37 (54%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAP 100
+N S V + D+G+Y C TN G+ SA + V P
Sbjct: 64 LNFSHVLLSDTGVYTCMVTNVAGNSNASAYLNVSSGP 100
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 43/92 (46%), Gaps = 5/92 (5%)
Query: 114 RSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPILSDAEITIRSSGEYTSSLSIATLS 172
R + + G A ++C PP++ + WL +LS A R S +L+ + +
Sbjct: 15 RDLNISEGRMAELKCRT----PPMSSVKWLLPNGTVLSHASRHPRISVLNDGTLNFSHVL 70
Query: 173 TGHSGNYTCVASNTVASDNHSSNLRVNEYTSS 204
+G YTC+ +N + N S+ L V+ SS
Sbjct: 71 LSDTGVYTCMVTNVAGNSNASAYLNVSSGPSS 102
>pdb|1FNE|A Chain A, Histocompatibility Antigen
pdb|1FNE|C Chain C, Histocompatibility Antigen
pdb|1FNG|A Chain A, Histocompatibility Antigen
pdb|1FNG|C Chain C, Histocompatibility Antigen
pdb|3QIW|A Chain A, Crystal Structure Of The 226 Tcr In Complex With
Mcc-P5eI-Ek
Length = 192
Score = 31.2 bits (69), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 51/114 (44%), Gaps = 21/114 (18%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIY-----QCTATNRVGSQTHSADMRVY--- 97
G++M GD I HV+I R+E+ + Q N + + M+
Sbjct: 20 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 79
Query: 98 --DAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
DA P+ VT SRS V+ G+ + C + K PP+ ++WL+NG P+
Sbjct: 80 TPDANVAPE----VTVLSRS-PVNLGEPNILICFIDKFSPPVVNVTWLRNGRPV 128
>pdb|1R5V|A Chain A, Evidence That Structural Rearrangements AndOR FLEXIBILITY
DURING TCR Binding Can Contribute To T-Cell Activation
pdb|1R5V|C Chain C, Evidence That Structural Rearrangements AndOR FLEXIBILITY
DURING TCR Binding Can Contribute To T-Cell Activation
pdb|1R5W|A Chain A, Evidence That Structural Rearrangements And/or Flexibility
During Tcr Binding Can Contribute To T-cell Activation
pdb|1R5W|C Chain C, Evidence That Structural Rearrangements And/or Flexibility
During Tcr Binding Can Contribute To T-cell Activation
Length = 180
Score = 31.2 bits (69), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 51/114 (44%), Gaps = 21/114 (18%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIY-----QCTATNRVGSQTHSADMRVY--- 97
G++M GD I HV+I R+E+ + Q N + + M+
Sbjct: 18 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 77
Query: 98 --DAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
DA P+ VT SRS V+ G+ + C + K PP+ ++WL+NG P+
Sbjct: 78 TPDANVAPE----VTVLSRS-PVNLGEPNILICFIDKFSPPVVNVTWLRNGRPV 126
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 31.2 bits (69), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 40/86 (46%), Gaps = 5/86 (5%)
Query: 114 RSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPILSDAEITIRSSGEYTSSLSIATLS 172
R + + G A ++C PP++ + WL +LS A R S +L+ + +
Sbjct: 360 RDLNISEGRMAELKC----RTPPMSSVKWLLPNGTVLSHASRHPRISVLNDGTLNFSHVL 415
Query: 173 TGHSGNYTCVASNTVASDNHSSNLRV 198
+G YTC+ +N + N S+ L V
Sbjct: 416 LSDTGVYTCMVTNVAGNSNASAYLNV 441
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 20/36 (55%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDA 99
+N S V + D+G+Y C TN G+ SA + V A
Sbjct: 409 LNFSHVLLSDTGVYTCMVTNVAGNSNASAYLNVSTA 444
>pdb|1KT2|A Chain A, Crystal Structure Of Class Ii Mhc Molecule Iek Bound To
Moth Cytochrome C Peptide
pdb|1KT2|C Chain C, Crystal Structure Of Class Ii Mhc Molecule Iek Bound To
Moth Cytochrome C Peptide
Length = 182
Score = 31.2 bits (69), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 51/114 (44%), Gaps = 21/114 (18%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIY-----QCTATNRVGSQTHSADMRVY--- 97
G++M GD I HV+I R+E+ + Q N + + M+
Sbjct: 20 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 79
Query: 98 --DAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
DA P+ VT SRS V+ G+ + C + K PP+ ++WL+NG P+
Sbjct: 80 TPDANVAPE----VTVLSRS-PVNLGEPNILICFIDKFSPPVVNVTWLRNGRPV 128
>pdb|3QIB|A Chain A, Crystal Structure Of The 2b4 Tcr In Complex With MccI-Ek
Length = 193
Score = 31.2 bits (69), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 32/114 (28%), Positives = 51/114 (44%), Gaps = 21/114 (18%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIY-----QCTATNRVGSQTHSADMRVY--- 97
G++M GD I HV+I R+E+ + Q N + + M+
Sbjct: 20 GEFMFDFDGDEIFHVDIEKSETIWRLEEFAKFASFEAQGALANIAVDKANLDVMKERSNN 79
Query: 98 --DAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
DA P+ VT SRS V+ G+ + C + K PP+ ++WL+NG P+
Sbjct: 80 TPDANVAPE----VTVLSRS-PVNLGEPNILICFIDKFSPPVVNVTWLRNGRPV 128
>pdb|2IF7|A Chain A, Crystal Structure Of Ntb-A
pdb|2IF7|B Chain B, Crystal Structure Of Ntb-A
pdb|2IF7|C Chain C, Crystal Structure Of Ntb-A
pdb|2IF7|D Chain D, Crystal Structure Of Ntb-A
Length = 193
Score = 31.2 bits (69), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 34/163 (20%), Positives = 71/163 (43%), Gaps = 29/163 (17%)
Query: 27 TGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVG 86
T +P H++ P G R Q SL +S++++ED+G Y+ + +
Sbjct: 48 TKSPEIHVT-----NPKQGKRLNFTQSYSLQ--------LSNLKMEDTGSYRAQISTKTS 94
Query: 87 SQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGL 146
++ S +R+ Q ++++ VT++S+ + + + + C V D ++ W G
Sbjct: 95 AKLSSYTLRIL---RQLRNIQ-VTNHSQLFQNMTCE-LHLTCSVEDADDNVSFRWEALGN 149
Query: 147 PILSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVAS 189
+ S +T+ +S +YTC+A N V++
Sbjct: 150 TLSSQPNLTVSWDPRISS-----------EQDYTCIAENAVSN 181
>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 = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 36/150 (24%), Positives = 61/150 (40%), Gaps = 26/150 (17%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISW-----KLDGYPLAGDRFVMGQY 53
+ ++PG V L C A+G P + W +G D+F
Sbjct: 10 ELVKPGASVKLSCRASGYSFTSYWMHWVKQRPGQGLEWIGLIDPSNGRTNFNDKFKSRAT 69
Query: 54 MSLH-GDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+++ +++ +SS+ EDS +Y C R+ + V A + V + +
Sbjct: 70 LTVDTSSSTAYMQLSSLTSEDSAVYYCV---RIAYWGQGTLVTVSSASTKGPSVFPLAPS 126
Query: 113 SRSIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S+S SG A + CLV P P+T+SW
Sbjct: 127 SKST---SGGTAALGCLVKDYFPEPVTVSW 153
>pdb|1JGU|H Chain H, Structural Basis For Disfavored Elimination Reaction In
Catalytic Antibody 1d4
Length = 217
Score = 31.2 bits (69), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 35/156 (22%), Positives = 65/156 (41%), Gaps = 36/156 (23%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWK---LDGYPLAGDRFVMGQYM--S 55
++PG + L C A+G P + W +G+ + V G++ S
Sbjct: 12 VKPGGSLQLSCAASGFTFSGYAMSWFRLTPEKRLEWVASIYNGFRIHYLDSVKGRFTISS 71
Query: 56 LHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRS 115
+ I ++ +S++R ED+ +Y C+ + A R +D G V + + + +
Sbjct: 72 DYARNILYLQMSTLRSEDTAMYYCSRGD--------AYSRYFDVWGAGTTVTVSAAKTTA 123
Query: 116 IKVH-----SGDRAG----VQCLVTKGDP-PLTISW 141
V+ GD G + CLV P P+T++W
Sbjct: 124 PSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|1X9Q|A Chain A, 4m5.3 Anti-Fluorescein Single Chain Antibody Fragment
(Scfv)
Length = 268
Score = 31.2 bits (69), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 22/89 (24%), Positives = 40/89 (44%), Gaps = 21/89 (23%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAGDRF----VMGQYM 54
+QPG + L C+ +G +P + W + P + + V G++
Sbjct: 163 VQPGGAMKLSCVTSGFTFGHYWMNWVRQSPEKGLEWVAQFRNKPYNYETYYSDSVKGRFT 222
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCTA 81
D S ++ ++++RVED+GIY CT
Sbjct: 223 ISRDDSKSSVYLQMNNLRVEDTGIYYCTG 251
>pdb|3NH7|H Chain H, Crystal Structure Of The Neutralizing Fab Fragment Abd1556
Bound To The Bmp Type I Receptor Ia
pdb|3NH7|I Chain I, Crystal Structure Of The Neutralizing Fab Fragment Abd1556
Bound To The Bmp Type I Receptor Ia
pdb|3NH7|J Chain J, Crystal Structure Of The Neutralizing Fab Fragment Abd1556
Bound To The Bmp Type I Receptor Ia
pdb|3NH7|K Chain K, Crystal Structure Of The Neutralizing Fab Fragment Abd1556
Bound To The Bmp Type I Receptor Ia
Length = 234
Score = 31.2 bits (69), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 40/160 (25%), Positives = 67/160 (41%), Gaps = 42/160 (26%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW--------KLDGYPLA-GDRFVMG 51
+QPG + L C A+G P + W L GY + RF +
Sbjct: 12 VQPGGSLRLSCAASGFTFSNYTLNWVRQAPGKGLEWVSYTSSSGSLTGYADSVKGRFTIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
+ S + ++ ++S+R ED+ +Y C A R + + +D GQ V + ++
Sbjct: 72 RDNSKN---TLYLQMNSLRAEDTAVYYC-ARERWHVRGY------FDHWGQGTLVTVSSA 121
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+++ S K SG A + CLV P P+T+SW
Sbjct: 122 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 161
>pdb|3L95|B Chain B, Crystal Structure Of The Human Notch1 Negative Regulatory
Region (Nrr) Bound To The Fab Fragment Of An Antagonist
Antibody
pdb|3L95|H Chain H, Crystal Structure Of The Human Notch1 Negative Regulatory
Region (Nrr) Bound To The Fab Fragment Of An Antagonist
Antibody
Length = 227
Score = 31.2 bits (69), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 26/95 (27%), Positives = 43/95 (45%), Gaps = 18/95 (18%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ ++S+R ED+ +Y C S V D GQ V + +++++
Sbjct: 79 AYLQMNSLRAEDTAVYYCA--------RGSGFRWVMDYWGQGTLVTVSSASTKGPSVFPL 130
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 131 APSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 165
>pdb|3DVG|B Chain B, Crystal Structure Of K63-Specific Fab Apu.3a8 Bound To
K63-Linked Di- Ubiquitin
Length = 230
Score = 31.2 bits (69), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 38/165 (23%), Positives = 64/165 (38%), Gaps = 42/165 (25%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGD---------RFVMG 51
+QPG + L C A+G P + W P G RF +
Sbjct: 15 VQPGGSLRLSCAASGFNVKTGLIHWVRQAPGKGLEWVAYITPYYGSTSYADSVKGRFTIS 74
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
S + +++ ++S+R ED+ +Y C ++ + D GQ V + ++
Sbjct: 75 ADTSKN---TAYLQMNSLRAEDTAVYYC-------AREYYRWYTAIDYWGQGTLVTVSSA 124
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++ S K SG A + CLV P P+T+SW L
Sbjct: 125 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 169
>pdb|4DN4|H Chain H, Crystal Structure Of The Complex Between Cnto888 Fab And
Mcp-1 Mutant P8a
Length = 228
Score = 31.2 bits (69), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 37/171 (21%), Positives = 64/171 (37%), Gaps = 51/171 (29%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI---------- 61
+ +PG V + C A+G Y ++ R GQ + G +I
Sbjct: 10 EVKKPGSSVKVSCKASGG-------TFSSYGISWVRQAPGQGLEWMGGIIPIFGTANYAQ 62
Query: 62 ----------------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQD 105
+++ +SS+R ED+ +Y C + + + D GQ
Sbjct: 63 KFQGRVTITADESTSTAYMELSSLRSEDTAVYYCARYDGIYGE--------LDFWGQGTL 114
Query: 106 VKLVTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
V + +++++ S K SG A + CLV P P+T+SW L
Sbjct: 115 VTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 165
>pdb|2JB5|H Chain H, Fab Fragment In Complex With Small Molecule Hapten,
Crystal Form-1
pdb|2JB6|B Chain B, Fab Fragment In Complex With Small Molecule Hapten,
Crystal Form-2
pdb|2JB6|H Chain H, Fab Fragment In Complex With Small Molecule Hapten,
Crystal Form-2
Length = 244
Score = 31.2 bits (69), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 43/90 (47%), Gaps = 17/90 (18%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ +SS+R ED+ +Y C S H +D GQ V + +++++
Sbjct: 79 AYMELSSLRSEDTAVYYC--ARYFMSYKHLSDYW-----GQGTLVTVSSASTKGPSVFPL 131
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 132 APSSKSTSGGTAALGCLVKDYFPEPVTVSW 161
>pdb|1JGV|H Chain H, Structural Basis For Disfavored Elimination Reaction In
Catalytic Antibody 1d4
Length = 218
Score = 30.8 bits (68), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 35/156 (22%), Positives = 65/156 (41%), Gaps = 36/156 (23%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWK---LDGYPLAGDRFVMGQYM--S 55
++PG + L C A+G P + W +G+ + V G++ S
Sbjct: 12 VKPGGSLQLSCAASGFTFSGYAMSWFRLTPEKRLEWVASIYNGFRIHYLDSVKGRFTISS 71
Query: 56 LHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRS 115
+ I ++ +S++R ED+ +Y C+ + A R +D G V + + + +
Sbjct: 72 DYARNILYLQMSTLRSEDTAMYYCSRGD--------AYSRYFDVWGAGTTVTVSAAKTTA 123
Query: 116 IKVH-----SGDRAG----VQCLVTKGDP-PLTISW 141
V+ GD G + CLV P P+T++W
Sbjct: 124 PSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 159
>pdb|3S34|H Chain H, Structure Of The 1121b Fab Fragment
pdb|3S36|H Chain H, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
pdb|3S37|H Chain H, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
Length = 221
Score = 30.8 bits (68), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 21/89 (23%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED+ +Y C RV +D GQ V + +++++
Sbjct: 80 YLQMNSLRAEDTAVYYCA---RV--------TDAFDIWGQGTMVTVSSASTKGPSVFPLA 128
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 129 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 157
>pdb|3DVN|B Chain B, Crystal Structure Of K63-specific Fab Apu2.16 Bound To
K63-linked Di- Ubiquitin
pdb|3DVN|H Chain H, Crystal Structure Of K63-specific Fab Apu2.16 Bound To
K63-linked Di- Ubiquitin
Length = 230
Score = 30.8 bits (68), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 38/165 (23%), Positives = 64/165 (38%), Gaps = 42/165 (25%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGD---------RFVMG 51
+QPG + L C A+G P + W P G RF +
Sbjct: 15 VQPGGSLRLSCAASGFNVKTGLIHWVRQAPGKGLEWVAYISPYYGSTSYADSVKGRFTIS 74
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
S + +++ ++S+R ED+ +Y C ++ + D GQ V + ++
Sbjct: 75 ADTSKN---TAYLQMNSLRAEDTAVYYC-------AREYYRWYTAIDYWGQGTLVTVSSA 124
Query: 112 NSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++ S K SG A + CLV P P+T+SW L
Sbjct: 125 STKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 169
>pdb|3D85|B Chain B, Crystal Structure Of Il-23 In Complex With Neutralizing
Fab
Length = 223
Score = 30.8 bits (68), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 38/81 (46%), Gaps = 4/81 (4%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSG 121
+++ +SS+ EDS +Y C V + V A + V + +S+S SG
Sbjct: 79 AYMELSSLTSEDSAVYYCARNWDVAYWGQGTLVTVSAASTKGPSVFPLAPSSKST---SG 135
Query: 122 DRAGVQCLVTKGDP-PLTISW 141
A + CLV P P+T+SW
Sbjct: 136 GTAALGCLVKDYFPEPVTVSW 156
>pdb|2FJF|H Chain H, Structure Of The G6 Fab, A Phage Derived Vegf Binding Fab
pdb|2FJF|B Chain B, Structure Of The G6 Fab, A Phage Derived Vegf Binding Fab
pdb|2FJF|D Chain D, Structure Of The G6 Fab, A Phage Derived Vegf Binding Fab
pdb|2FJF|F Chain F, Structure Of The G6 Fab, A Phage Derived Vegf Binding Fab
pdb|2FJF|I Chain I, Structure Of The G6 Fab, A Phage Derived Vegf Binding Fab
pdb|2FJF|K Chain K, Structure Of The G6 Fab, A Phage Derived Vegf Binding Fab
pdb|2FJF|N Chain N, Structure Of The G6 Fab, A Phage Derived Vegf Binding Fab
pdb|2FJF|P Chain P, Structure Of The G6 Fab, A Phage Derived Vegf Binding Fab
pdb|2FJF|R Chain R, Structure Of The G6 Fab, A Phage Derived Vegf Binding Fab
pdb|2FJF|T Chain T, Structure Of The G6 Fab, A Phage Derived Vegf Binding Fab
pdb|2FJF|V Chain V, Structure Of The G6 Fab, A Phage Derived Vegf Binding Fab
pdb|2FJF|X Chain X, Structure Of The G6 Fab, A Phage Derived Vegf Binding Fab
pdb|2FJG|H Chain H, Structure Of The G6 Fab, A Phage Derived Fab Fragment, In
Complex With Vegf
pdb|2FJG|B Chain B, Structure Of The G6 Fab, A Phage Derived Fab Fragment, In
Complex With Vegf
Length = 227
Score = 30.8 bits (68), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 39/163 (23%), Positives = 67/163 (41%), Gaps = 38/163 (23%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRF----VMGQYMSL 56
+QPG + L C A+G P + W P G + V G++ ++
Sbjct: 12 VQPGGSLRLSCAASGFTISDYWIHWVRQAPGKGLEWVAGITPAGGYTYYADSVKGRF-TI 70
Query: 57 HGDV---ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
D +++ ++S+R ED+ +Y C V ++ D GQ V + ++++
Sbjct: 71 SADTSKNTAYLQMNSLRAEDTAVYYC--ARFVFFLPYAMDYW-----GQGTLVTVSSAST 123
Query: 114 R---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+ S K SG A + CLV P P+T+SW L
Sbjct: 124 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 166
>pdb|4DKF|H Chain H, Crystal Structure Of Human Interleukin-34 Bound To Fab2
pdb|4DKF|I Chain I, Crystal Structure Of Human Interleukin-34 Bound To Fab2
Length = 226
Score = 30.8 bits (68), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 41/167 (24%), Positives = 68/167 (40%), Gaps = 48/167 (28%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAGD---------RFV 49
+QPG + L C A+G P + W +D Y GD RF
Sbjct: 12 VQPGGSLRLSCAASGFSFTSYGISWVRQAPGKGLEWVSHIDWY--GGDTDYADSVKGRFT 69
Query: 50 MGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLV 109
+ S + +++ ++S+R ED+ +Y C G ++ D+ GQ V +
Sbjct: 70 ISADTSKN---TAYLQMNSLRAEDTAVYYCAR----GGPDYAMDVW-----GQGTLVTVS 117
Query: 110 TSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
+++++ S K SG A + CLV P P+T+SW L
Sbjct: 118 SASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 164
>pdb|2B0S|L Chain L, Crystal Structure Analysis Of Anti-Hiv-1 V3 Fab 2219 In
Complex With Mn Peptide
pdb|2B1A|L Chain L, Crystal Structure Analysis Of Anti-Hiv-1 V3 Fab 2219 In
Complex With Ug1033 Peptide
pdb|2B1H|L Chain L, Crystal Structure Analysis Of Anti-Hiv-1 V3 Fab 2219 In
Complex With Ug29 Peptide
Length = 215
Score = 30.8 bits (68), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 32/124 (25%), Positives = 54/124 (43%), Gaps = 8/124 (6%)
Query: 66 ISSVRVEDSGIYQCTATN--RVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDR 123
IS +R ED G Y C A + R G QP+ VT S + ++
Sbjct: 76 ISGLRPEDEGDYYCAAWDDSRGGPDWVFGGGTKLTVLAQPKAAPSVTLFPPSSEELQANK 135
Query: 124 AGVQCLVTKGDP-PLTISWLKNGLPILSDAEITI---RSSGEYTSS--LSIATLSTGHSG 177
A + CL++ P +T++W + P+ + E T +S+ +Y +S LS+
Sbjct: 136 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHK 195
Query: 178 NYTC 181
+Y+C
Sbjct: 196 SYSC 199
>pdb|1GL4|B Chain B, Nidogen-1 G2PERLECAN IG3 COMPLEX
Length = 98
Score = 30.8 bits (68), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 35/85 (41%), Gaps = 8/85 (9%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRV 71
Q+++PG V+ C A K Y L R G+ S D + I +V+
Sbjct: 20 QSVRPGADVTFICTAKS--------KSPAYTLVWTRLHNGKLPSRAMDFNGILTIRNVQP 71
Query: 72 EDSGIYQCTATNRVGSQTHSADMRV 96
D+G Y CT +N +A + V
Sbjct: 72 SDAGTYVCTGSNMFAMDQGTATLHV 96
>pdb|4DN3|H Chain H, Crystal Structure Of Anti-Mcp-1 Antibody Cnto888
Length = 225
Score = 30.8 bits (68), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 37/171 (21%), Positives = 64/171 (37%), Gaps = 51/171 (29%)
Query: 12 QTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI---------- 61
+ +PG V + C A+G Y ++ R GQ + G +I
Sbjct: 10 EVKKPGSSVKVSCKASGG-------TFSSYGISWVRQAPGQGLEWMGGIIPIFGTANYAQ 62
Query: 62 ----------------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQD 105
+++ +SS+R ED+ +Y C + + + D GQ
Sbjct: 63 KFQGRVTITADESTSTAYMELSSLRSEDTAVYYCARYDGIYGE--------LDFWGQGTL 114
Query: 106 VKLVTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
V + +++++ S K SG A + CLV P P+T+SW L
Sbjct: 115 VTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 165
>pdb|2FB4|H Chain H, Dir Primaerstruktur Des Kristallisierbaren Monoklonalen
Immunoglobulins Igg1 Kol. Ii. Aminosaeuresequenz Der L-
Kette, Lambda-Typ, Subgruppe I (German)
Length = 229
Score = 30.8 bits (68), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 43/95 (45%), Gaps = 15/95 (15%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY--DAPGQPQDVKLVTSNSR------- 114
+ + S+R ED+G+Y C R G + + D GQ V + +++++
Sbjct: 81 LQMDSLRPEDTGVYFCA---RDGGHGFCSSASCFGPDYWGQGTPVTVSSASTKGPSVFPL 137
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 138 APSSKSTSGGTAALGCLVKDYFPQPVTVSWNSGAL 172
>pdb|1V7M|H Chain H, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7M|I Chain I, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|H Chain H, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|I Chain I, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|J Chain J, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|K Chain K, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|2ZKH|H Chain H, Human Thrombopoietin Neutralizing Antibody Tn1 Fab
Length = 217
Score = 30.8 bits (68), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 40/88 (45%), Gaps = 21/88 (23%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW------KLDGYPLAGDRFVMGQYM 54
+QPG + L C A+G +P + W K++ + + V G++
Sbjct: 12 VQPGGSMKLSCAASGFTFSDAWMDWVRQSPEKGLEWVAEIRSKVNNHAIHYAESVKGRFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCT 80
D S ++ ++S+R ED+GIY C+
Sbjct: 72 VSRDDSKSSVYLQMNSLRAEDTGIYYCS 99
>pdb|1I9E|A Chain A, Tcr Domain
Length = 115
Score = 30.8 bits (68), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 23/105 (21%), Positives = 42/105 (40%), Gaps = 21/105 (20%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI----------- 61
T+ G + L+C + + TP++ W + YP G + ++ Y GD +
Sbjct: 11 TVSEGASLQLRCKYSYSATPYLFWYVQ-YPRQGLQLLLKYY---SGDPVVQGVNGFEAEF 66
Query: 62 ------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAP 100
H+ +SV DS +Y C + + T + +V P
Sbjct: 67 SKSNSSFHLRKASVHWSDSAVYFCAVSGFASALTFGSGTKVIVLP 111
>pdb|3GHE|H Chain H, Crystal Structure Of Anti-Hiv-1 Fab 537-10d In Complex
With V3 Peptide Mn
Length = 233
Score = 30.8 bits (68), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 35/162 (21%), Positives = 67/162 (41%), Gaps = 37/162 (22%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRF----VMGQYMSL 56
+QPG + L C+A+G P + W + D++ V G++
Sbjct: 12 VQPGGSLRLSCVASGFTFNNYWMSWVRQAPGKGLEWVANIKQDGNDKYYVDSVKGRFTIS 71
Query: 57 HGDVIS--HVNISSVRVEDSGIYQC-----TATNRVGSQTHSADMRVYDAPGQPQDVKLV 109
+ + + ++S+R ED+ +Y C + T+ + M V+ G+ V +
Sbjct: 72 RDNAKNSLFLQMNSLRAEDTAVYFCAREFSSYTDHLEYYYDYYYMDVW---GKGTTVTVS 128
Query: 110 TSNSRSIKVH---------SGDRAGVQCLVTKGDP-PLTISW 141
+++++ V SG A + CLV P P+T+SW
Sbjct: 129 SASTKGPSVFPLAPCSRSTSGGTAALGCLVKDYFPEPVTVSW 170
>pdb|3QOS|H Chain H, Crystal Structure Of Human Germline Antibody 3-23B3
pdb|3QOS|B Chain B, Crystal Structure Of Human Germline Antibody 3-23B3
Length = 228
Score = 30.8 bits (68), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 42/89 (47%), Gaps = 18/89 (20%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED+ +Y C + + + D GQ V + +++++
Sbjct: 80 YLQMNSLRAEDTAVYYCAKYDGIYGEL--------DFWGQGTLVTVSSASTKGPSVFPLA 131
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 132 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>pdb|4DTG|H Chain H, Hemostatic Effect Of A Monoclonal Antibody Mab 2021
Blocking The Interaction Between Fxa And Tfpi In A
Rabbit Hemophilia Model
Length = 222
Score = 30.8 bits (68), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 25/94 (26%), Positives = 43/94 (45%), Gaps = 16/94 (17%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH--- 119
++ ++S+R ED+ +Y C R+G M D+ GQ V + +++++ V
Sbjct: 80 YLQMNSLRAEDTAVYYCA---RLGGYDEGDAM---DSWGQGTTVTVSSASTKGPSVFPLA 133
Query: 120 ------SGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S A + CLV P P+T+SW L
Sbjct: 134 PCSRSTSESTAALGCLVKDYFPEPVTVSWNSGAL 167
>pdb|4FOM|A Chain A, Crystal Structure Of Human Nectin-3 Full Ectodomain
(D1-D3)
Length = 308
Score = 30.8 bits (68), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 40/87 (45%), Gaps = 20/87 (22%)
Query: 20 VSLKCIATGNPTPHIS-W-KLDG-YP---LAGDRFVMGQYMSLHGDVISHVNISSVRVED 73
V+LKC A NP P S W +LDG +P LA D +LH + +
Sbjct: 230 VNLKCNADANPPPFKSVWSRLDGQWPDGLLASDN-------TLH-------FVHPLTFNY 275
Query: 74 SGIYQCTATNRVGSQTHSADMRVYDAP 100
SG+Y C TN +G ++ + + D P
Sbjct: 276 SGVYICKVTNSLGQRSDQKVIYISDPP 302
>pdb|4DKD|C Chain C, Crystal Structure Of Human Interleukin-34 Bound To Human
Csf-1r
Length = 292
Score = 30.8 bits (68), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 66/299 (22%), Positives = 112/299 (37%), Gaps = 91/299 (30%)
Query: 1 SHPQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDV 60
S P+L+ K PG V+L+C+ G+ + W DG P + +L+ D
Sbjct: 10 SVPELVVK-------PGATVTLRCVGNGS----VEW--DGPP--------SPHWTLYSDG 48
Query: 61 ISHV-NISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH 119
S + + ++ +++G Y+CT + + + V D P +P +V ++ + V
Sbjct: 49 SSSILSTNNATFQNTGTYRCTEPGDPLGGSAAIHLYVKD-PARPWNVL-----AQEVVVF 102
Query: 120 SGDRAGVQCLVTKGDPPLT--ISWLK-NGLPIL-----------------------SDAE 153
A + CL+T DP L +S ++ G P++ D +
Sbjct: 103 EDQDALLPCLLT--DPVLEAGVSLVRVRGRPLMRHTNYSFSPWHGFTIHRAKFIQSQDYQ 160
Query: 154 ITIRSSGEYTSSLSI------------------ATLST--GHSGNYTCVAS--------- 184
+ G S+SI A L G + C AS
Sbjct: 161 CSALMGGRKVMSISIRLKVQKVIPGPPALTLVPAELVRIRGEAAQIVCSASSVDVNFDVF 220
Query: 185 ----NTVASDNHSSNLRVNEYTS--SLSIATLSTGHSGNYTCVASNTVASDNHSSNLRV 237
NT + S+ N Y +L++ + H+GNY+CVASN + S RV
Sbjct: 221 LQHNNTKLAIPQQSDFHNNRYQKVLTLNLDQVDFQHAGNYSCVASNVQGKHSTSMFFRV 279
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 14/36 (38%), Positives = 21/36 (58%)
Query: 165 SLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNE 200
+L++ + H+GNY+CVASN + S RV E
Sbjct: 246 TLNLDQVDFQHAGNYSCVASNVQGKHSTSMFFRVVE 281
>pdb|2XA8|H Chain H, Crystal Structure Of The Fab Domain Of Omalizumab At 2.41a
Length = 219
Score = 30.8 bits (68), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 16/89 (17%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED+ +Y C + H A GQ V + +++++
Sbjct: 80 YLQMNSLRAEDTAVYYCARGSHYFGHWHFAVW------GQGTLVTVSSASTKGPSVFPLA 133
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 134 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 162
>pdb|3U0T|D Chain D, Fab-Antibody Complex
pdb|3U0T|B Chain B, Fab-Antibody Complex
Length = 217
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 36/147 (24%), Positives = 64/147 (43%), Gaps = 22/147 (14%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI------ 116
++ +SS+R ED+ +Y C + + VY G V ++ S+
Sbjct: 80 YMELSSLRSEDTAVYYCASLY---------SLPVYWGQGTTVTVSSASTKGPSVFPLAPC 130
Query: 117 -KVHSGDRAGVQCLVTKGDP-PLTISWLKNGLPI-LSDAEITIRSSGEYTSSLSIATLST 173
+ S A + CLV P P+T+SW L + ++SSG Y S++++ T
Sbjct: 131 SRSTSESTAALGCLVKDYFPEPVTVSWNSGALTSGVHTFPAVLQSSGLY----SLSSVVT 186
Query: 174 GHSGNYTCVASNTVASDNHSSNLRVNE 200
S N+ + T D+ SN +V++
Sbjct: 187 VPSSNFGTQQTYTCNVDHKPSNTKVDK 213
>pdb|2ICW|I Chain I, Crystal Structure Of A Complete Ternary Complex Between
Tcr, Superantigen, And Peptide-Mhc Class Ii Molecule
pdb|2ICW|K Chain K, Crystal Structure Of A Complete Ternary Complex Between
Tcr, Superantigen, And Peptide-Mhc Class Ii Molecule
Length = 110
Score = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 22/101 (21%), Positives = 41/101 (40%), Gaps = 21/101 (20%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI----------- 61
T+ G + L+C + + TP++ W + YP G + ++ Y GD +
Sbjct: 11 TVSEGASLQLRCKYSYSATPYLFWYVQ-YPRQGPQLLLKYY---SGDPVVQGVNGFEAEF 66
Query: 62 ------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRV 96
H+ +SV DS +Y C + + T + +V
Sbjct: 67 SKSNSSFHLRKASVHRSDSAVYFCAVSGFASALTFGSGTKV 107
>pdb|2OI9|B Chain B, Structure Of The 2cLDQL9 ALLOGENEIC COMPLEX
Length = 113
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/101 (21%), Positives = 41/101 (40%), Gaps = 21/101 (20%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI----------- 61
T+ G + L+C + + TP++ W + YP G + ++ Y GD +
Sbjct: 11 TVSEGASLQLRCKYSYSATPYLFWYVQ-YPRQGPQLLLKYY---SGDPVVQGVNGFEAEF 66
Query: 62 ------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRV 96
H+ +SV DS +Y C + + T + +V
Sbjct: 67 SKSNSSFHLRKASVHRSDSAVYFCAVSGFASALTFGSGTKV 107
>pdb|3EFF|B Chain B, The Crystal Structure Of Full-Length Kcsa In Its Closed
Conformation
pdb|3EFF|D Chain D, The Crystal Structure Of Full-Length Kcsa In Its Closed
Conformation
pdb|3PJS|B Chain B, Mechanism Of Activation Gating In The Full-Length Kcsa K+
Channel
pdb|3PJS|D Chain D, Mechanism Of Activation Gating In The Full-Length Kcsa K+
Channel
Length = 224
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 43/90 (47%), Gaps = 13/90 (14%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ ++S+R ED+ +Y C R S + D GQ V + +++++
Sbjct: 79 AYLQMNSLRAEDTAVYYCA---RQPSYHMYSWWVALDYWGQGTLVTVSSASTKGPSVFPL 135
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 136 APSSKSTSGGTAALGCLVKDYFPEPVTVSW 165
>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 = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 35/150 (23%), Positives = 57/150 (38%), Gaps = 22/150 (14%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGDR 123
VNI+ + +DSG Y+C + + V PG D K+ T V G
Sbjct: 77 VNIAQLSQDDSGRYKCGLGINSRGLSFDVSLEVSQGPGLLNDTKVYT-------VDLGRT 129
Query: 124 AGVQCLVTKGDPPLTISWLKN-GL-PIL-------------SDAEITIRSSGEYTSSLSI 168
+ C + S K GL P+L + I+ +G+ S+ I
Sbjct: 130 VTINCPFKTENAQKRKSLYKQIGLYPVLVIDSSGYVNPNYTGRIRLDIQGTGQLLFSVVI 189
Query: 169 ATLSTGHSGNYTCVASNTVASDNHSSNLRV 198
L +G Y C A + S+ +++L+V
Sbjct: 190 NQLRLSDAGQYLCQAGDDSNSNKKNADLQV 219
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 23/39 (58%)
Query: 58 GDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRV 96
G ++ V I+ +R+ D+G Y C A + S +AD++V
Sbjct: 181 GQLLFSVVINQLRLSDAGQYLCQAGDDSNSNKKNADLQV 219
>pdb|3QXD|A Chain A, F54c Hla-Dr1 Bound With Clip Peptide
pdb|3QXD|D Chain D, F54c Hla-Dr1 Bound With Clip Peptide
Length = 182
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/113 (22%), Positives = 53/113 (46%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIY-QCTATNRVGS-QTHSADMRVYDAPGQ- 102
G++M GD I HV+++ R+E+ G + C A + + A++ +
Sbjct: 20 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASCEAQGALANIAVDKANLEIMTKRSNY 79
Query: 103 ------PQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 80 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 128
>pdb|3HAE|H Chain H, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3HAE|I Chain I, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3HAE|O Chain O, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3HAE|T Chain T, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
Length = 220
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 42/89 (47%), Gaps = 18/89 (20%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED+ +Y C G M V+ GQ V + +++++
Sbjct: 80 YLQMNSLRAEDTAVYYC-----AGELLPYYGMDVW---GQGTTVTVSSASTKGPSVFPLA 131
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 132 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>pdb|3TF7|C Chain C, 42f3 Ql9H2-Ld Complex
pdb|3TF7|G Chain G, 42f3 Ql9H2-Ld Complex
pdb|3TF7|I Chain I, 42f3 Ql9H2-Ld Complex
pdb|3TF7|K Chain K, 42f3 Ql9H2-Ld Complex
Length = 256
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 38/86 (44%), Gaps = 15/86 (17%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQY------MSLHG-------- 58
T+ G + L+C + + TP++ W + YP G + ++ Y ++G
Sbjct: 14 TVSEGASLQLRCKYSYSATPYLFWYVQ-YPRQGPQMLLKYYSGDPVVQGVNGFEAEFSKS 72
Query: 59 DVISHVNISSVRVEDSGIYQCTATNR 84
D H+ +SV DS +Y C + +
Sbjct: 73 DSSFHLRKASVHRSDSAVYFCAVSAK 98
>pdb|3MAC|H Chain H, Crystal Structure Of Gp41-Derived Protein Complexed With
Fab 8062
Length = 245
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 39/158 (24%), Positives = 64/158 (40%), Gaps = 39/158 (24%)
Query: 15 QPGPPVSLKCIATGNP--TPHISWKLDGYPLAGDRFVMGQYMSLHGDVI----------- 61
+PG V + C A+G + SW P G + MG + L G V+
Sbjct: 13 KPGSSVKVSCKASGGTFNSYAFSWVRQA-PGQGLEW-MGSIIPLFGFVVYAQKFQGRVTI 70
Query: 62 --------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
+++ +SS+R ED+ +Y C + A+ GQ V + ++++
Sbjct: 71 TADESTSTAYMELSSLRSEDTAVYYCARYFDTYNNYGFANW------GQGTLVTVSSAST 124
Query: 114 R---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+ S K SG A + CLV P P+T+SW
Sbjct: 125 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 162
>pdb|1MCP|H Chain H, Phosphocholine Binding Immunoglobulin Fab McPC603. AN
X-Ray Diffraction Study At 2.7 Angstroms
pdb|2MCP|H Chain H, Refined Crystal Structure Of The Mc/pc603
Fab-phosphocholine Complex At 3.1 Angstroms Resolution
Length = 222
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 60/130 (46%), Gaps = 21/130 (16%)
Query: 47 RFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDV 106
RF++ + S I ++ ++++R ED+ IY C A N GS + +D G V
Sbjct: 69 RFIVSRDTS---QSILYLQMNALRAEDTAIYYC-ARNYYGSTWY------FDVWGAGTTV 118
Query: 107 KLVTSNSRSIKVH--------SGDRAGVQCLVTKGDPP--LTISWLKNGLPILS-DAEIT 155
+ + ++R+ ++ S D + CL+ P + ++W K+G I + +
Sbjct: 119 TVSSESARNPTIYPLTLPPALSSDPVIIGCLIHDYFPSGTMNVTWGKSGKDITTVNFPPA 178
Query: 156 IRSSGEYTSS 165
+ S G YT S
Sbjct: 179 LASGGRYTMS 188
>pdb|2NYY|D Chain D, Crystal Structure Of Botulinum Neurotoxin Type A Complexed
With Monoclonal Antibody Cr1
Length = 223
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 38/87 (43%), Gaps = 15/87 (17%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI------ 116
++ ++S+R ED+ IY C S+ D Y G V ++ S+
Sbjct: 80 YLQMNSLRAEDTAIYYC-------SRYRYDDAMDYWGQGTLVTVSSASTKGPSVFPLAPS 132
Query: 117 -KVHSGDRAGVQCLVTKGDP-PLTISW 141
K SG A + CLV P P+T+SW
Sbjct: 133 SKSTSGGTAALGCLVKDYFPEPVTVSW 159
>pdb|3EYF|B Chain B, Crystal Structure Of Anti-Human Cytomegalovirus Antibody
8f9 Plus Gb Peptide
pdb|3EYF|D Chain D, Crystal Structure Of Anti-Human Cytomegalovirus Antibody
8f9 Plus Gb Peptide
pdb|3EYO|B Chain B, Crystal Structure Of Anti-Human Cytomegalovirus Antibody
8f9
pdb|3EYO|D Chain D, Crystal Structure Of Anti-Human Cytomegalovirus Antibody
8f9
Length = 242
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI------- 116
+ ++++R ED G+Y C + G + + Y G V + S+
Sbjct: 81 LQMNNLRPEDMGLYYCARDGKCGGGRCYSGLLDYWGQGTMVTVSSASFKGPSVFPLAPSS 140
Query: 117 KVHSGDRAGVQCLVTKGDP-PLTISW 141
K SG A + CLV P P+T+SW
Sbjct: 141 KSTSGGTAALGCLVKDYFPEPVTVSW 166
>pdb|3KDM|H Chain H, Crystal Structure Of Human Anti-Steroid Fab 5f2 In Complex
With Testosterone
pdb|3KDM|B Chain B, Crystal Structure Of Human Anti-Steroid Fab 5f2 In Complex
With Testosterone
Length = 225
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/89 (25%), Positives = 42/89 (47%), Gaps = 15/89 (16%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED+ +Y C + + D+ GQ V + +++++
Sbjct: 80 YLQMNSLRAEDTAVYYCARDPGLWDYYYGMDVW-----GQGTLVTVSSASTKGPSVFPLA 134
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 135 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 163
>pdb|1RJL|B Chain B, Structure Of The Complex Between Ospb-Ct And Bactericidal
Fab-H6831
Length = 221
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 42/159 (26%), Positives = 68/159 (42%), Gaps = 36/159 (22%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRFVMGQY---MSLH 57
++PG V L C A+G P + W + +P +G+ ++ +L
Sbjct: 12 VRPGASVKLSCKASGFTFTSSWMHWAKQRPGQGLEWIGEIHPNSGNTHYNEKFKGKATLT 71
Query: 58 GDVIS---HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR 114
D S +V++SS+ EDS +Y C A R G D D GQ V + ++ +
Sbjct: 72 VDTSSSTAYVDLSSLTSEDSAVYYC-ARMRYG------DYYAMDNWGQGTSVTVSSAKTT 124
Query: 115 SIKVH-----SGDRAG----VQCLVTKGDPPLTISWLKN 144
+ V+ GD G + CLV KG P +++ L N
Sbjct: 125 APPVYPLAPVCGDTTGSSVTLGCLV-KGYFPESVTLLWN 162
>pdb|1PG7|H Chain H, Murine 6a6 Fab In Complex With Humanized Anti-Tissue
Factor D3h44 Fab
pdb|1PG7|I Chain I, Murine 6a6 Fab In Complex With Humanized Anti-Tissue
Factor D3h44 Fab
Length = 217
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 20/90 (22%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ ++S+R ED+ +Y C +D GQ V + +++++
Sbjct: 79 AYLQMNSLRAEDTAVYYCARDTAA----------YFDYWGQGTLVTVSSASTKGPSVFPL 128
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 129 APSSKSTSGGTAALGCLVKDYFPEPVTVSW 158
>pdb|1KEG|H Chain H, Antibody 64m-2 Fab Complexed With Dtt(6-4)tt
Length = 220
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 37/156 (23%), Positives = 64/156 (41%), Gaps = 36/156 (23%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGD-----RFV-MGQYMS 55
+PG V + C A+G P + W YP D +F + +
Sbjct: 13 RPGASVKMSCKASGYSFTSFWMHWVKQRPGQGLEWIGTIYPGNSDTSYNQKFKGKAKLTA 72
Query: 56 LHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRS 115
+ +++ +SS+ EDS +Y C T R G + ++ D GQ V + ++ + +
Sbjct: 73 VTSASTAYMEVSSLTNEDSAVYYC--TRRSGYKYYALDYW-----GQGTSVTVSSAKTTA 125
Query: 116 IKVH-----SGDRAG----VQCLVTKGDP-PLTISW 141
V+ GD G + CLV P P+T++W
Sbjct: 126 PSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 161
>pdb|3RNQ|A Chain A, Crystal Structure Of The Complex Between The
Extracellular Domains Of Mouse Pd-1 Mutant And Pd-L2
Length = 117
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 42 PLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNR 84
P+ RF + Q + H H+NI R DSGIY C A +R
Sbjct: 56 PVQDARFQIIQLPNRHD---FHMNILDTRRNDSGIYLCGAISR 95
>pdb|3MA9|H Chain H, Crystal Structure Of Gp41 Derived Protein Complexed With
Fab 8066
Length = 245
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 36/163 (22%), Positives = 61/163 (37%), Gaps = 49/163 (30%)
Query: 15 QPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI------------- 61
+PG V + C A+G + Y + R GQ + G +I
Sbjct: 13 KPGSSVKVSCKASGG-------TFNSYAFSWVRQAPGQGLEWMGSIIPIFGTTNYAQKFQ 65
Query: 62 -------------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKL 108
+++ +SS+R ED+ +Y C + A+ GQ V +
Sbjct: 66 GRVTITADESTSTAYMELSSLRSEDTAVYYCARYFDTYNNYGFANW------GQGTLVTV 119
Query: 109 VTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+++++ S K SG A + CLV P P+T+SW
Sbjct: 120 SSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 162
>pdb|1FBI|H Chain H, Crystal Structure Of A Cross-Reaction Complex Between Fab
F9.13.7 And Guinea-Fowl Lysozyme
pdb|1FBI|Q Chain Q, Crystal Structure Of A Cross-Reaction Complex Between Fab
F9.13.7 And Guinea-Fowl Lysozyme
Length = 221
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 35/159 (22%), Positives = 62/159 (38%), Gaps = 34/159 (21%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISW-----KLDGYPLAGDRFVMGQY 53
+ ++PG V L C A+G P + W D YP ++F
Sbjct: 10 ELVKPGASVKLSCKASGYTFTSYWMHWVKQGPGQGLEWIGEIDPSDSYPNYNEKFKGKAT 69
Query: 54 MSL-HGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+++ +++ +SS+ EDS +Y C + G+ V D GQ V + ++
Sbjct: 70 LTVDKSSSTAYMQLSSLTSEDSAVYYCASLYYYGT-----SYGVLDYWGQGTSVTVSSAK 124
Query: 113 SRSIKVH---SGDRAGVQCLVTKG-------DPPLTISW 141
+ V+ G A +VT G P+T++W
Sbjct: 125 TTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTW 163
>pdb|1EHL|H Chain H, 64m-2 Antibody Fab Complexed With D(5ht)(6-4)t
Length = 219
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 37/156 (23%), Positives = 64/156 (41%), Gaps = 36/156 (23%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGD-----RFV-MGQYMS 55
+PG V + C A+G P + W YP D +F + +
Sbjct: 13 RPGASVKMSCKASGYSFTSFWMHWVKQRPGQGLEWIGTIYPGNSDTSYNQKFKGKAKLTA 72
Query: 56 LHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRS 115
+ +++ +SS+ EDS +Y C T R G + ++ D GQ V + ++ + +
Sbjct: 73 VTSASTAYMEVSSLTNEDSAVYYC--TRRSGYKYYALDYW-----GQGTSVTVSSAKTTA 125
Query: 116 IKVH-----SGDRAG----VQCLVTKGDP-PLTISW 141
V+ GD G + CLV P P+T++W
Sbjct: 126 PSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 161
>pdb|1JPS|H Chain H, Crystal Structure Of Tissue Factor In Complex With
Humanized Fab D3h44
pdb|1JPT|H Chain H, Crystal Structure Of Fab D3h44
Length = 225
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 20/90 (22%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ ++S+R ED+ +Y C +D GQ V + +++++
Sbjct: 79 AYLQMNSLRAEDTAVYYCARDTAA----------YFDYWGQGTLVTVSSASTKGPSVFPL 128
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 129 APSSKSTSGGTAALGCLVKDYFPEPVTVSW 158
>pdb|3LMJ|H Chain H, Structure Of Human Anti Hiv 21c Fab
pdb|3LQA|H Chain H, Crystal Structure Of Clade C Gp120 In Complex With Scd4
And
Length = 231
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 44/91 (48%), Gaps = 14/91 (15%)
Query: 62 SHVNISSVRVEDSGIYQC-TATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------ 114
+++ +SS+R ED+ +Y C T N T + + GQ V + +++++
Sbjct: 79 AYMELSSLRSEDTAVYYCATGGNYYNLWTGYYPLAYW---GQGTLVTVSSASTKGPSVFP 135
Query: 115 ---SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 136 LAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 166
>pdb|4GLR|I Chain I, Structure Of The Anti-ptau Fab (pt231/ps235_1) In Complex
With Phosphoepitope Pt231/ps235
pdb|4GLR|K Chain K, Structure Of The Anti-ptau Fab (pt231/ps235_1) In Complex
With Phosphoepitope Pt231/ps235
Length = 212
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 43/97 (44%), Gaps = 13/97 (13%)
Query: 69 VRVEDSGIYQCTATNRVGSQTHSADMRVYDAP------GQPQDVKLVTSNSRSIKVHSGD 122
V+ ED +Y C G+ SA ++ A GQP+ VT S + +
Sbjct: 75 VQAEDEAVYYC------GAYDGSAGGGIFGAGTTLTVLGQPKAAPSVTLFPPSSEELQAN 128
Query: 123 RAGVQCLVTKGDP-PLTISWLKNGLPILSDAEITIRS 158
+A + CL++ P +T++W + P+ + E T S
Sbjct: 129 KATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPS 165
>pdb|1TZH|B Chain B, Crystal Structure Of The Fab Yads1 Complexed With H-Vegf
pdb|1TZH|H Chain H, Crystal Structure Of The Fab Yads1 Complexed With H-Vegf
Length = 229
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 45/95 (47%), Gaps = 15/95 (15%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ ++S+R ED+ +Y C+ ++ + D GQ V + +++++
Sbjct: 79 AYLQMNSLRAEDTAVYYCSRSSDASYSYSAMDYW-----GQGTLVTVSSASTKGPSVFPL 133
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 134 APSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 168
>pdb|3GIZ|H Chain H, Crystal Structure Of The Fab Fragment Of Anti-Cd20
Antibody Ofatumumab
Length = 222
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 42/89 (47%), Gaps = 15/89 (16%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH--- 119
++ ++S+R ED+ +Y C + G+ + D+ GQ V + +++++ V
Sbjct: 80 YLQMNSLRAEDTALYYCAKDIQYGNYYYGMDVW-----GQGTTVTVSSASTKGPSVFPLA 134
Query: 120 ------SGDRAGVQCLVTKGDP-PLTISW 141
+ A + CLV P P+T+SW
Sbjct: 135 PGSSKSTSGTAALGCLVKDYFPEPVTVSW 163
>pdb|2IG2|H Chain H, Dir Primaerstruktur Des Kristallisierbaren Monoklonalen
Immunoglobulins Igg1 Kol. Ii. Aminosaeuresequenz Der L-
Kette, Lambda-Typ, Subgruppe I (German)
Length = 455
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/95 (28%), Positives = 43/95 (45%), Gaps = 15/95 (15%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY--DAPGQPQDVKLVTSNSR------- 114
+ + S+R ED+G+Y C R G + + D GQ V + +++++
Sbjct: 81 LQMDSLRPEDTGVYFCA---RDGGHGFCSSASCFGPDYWGQGTPVTVSSASTKGPSVFPL 137
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 138 APSSKSTSGGTAALGCLVKDYFPQPVTVSWNSGAL 172
>pdb|2Z8V|C Chain C, Structure Of An Ignar-Ama1 Complex
pdb|2Z8V|D Chain D, Structure Of An Ignar-Ama1 Complex
Length = 116
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 9/39 (23%)
Query: 52 QYMSLHGDVISHVN---------ISSVRVEDSGIYQCTA 81
Q +S+ G + VN IS +RVEDSG Y+C A
Sbjct: 47 QSISIGGRYVETVNKGSKSFSLRISDLRVEDSGTYKCQA 85
>pdb|3SKU|E Chain E, Herpes Simplex Virus Glycoprotein D Bound To The Human
Receptor Nectin-1
pdb|3SKU|D Chain D, Herpes Simplex Virus Glycoprotein D Bound To The Human
Receptor Nectin-1
pdb|3SKU|F Chain F, Herpes Simplex Virus Glycoprotein D Bound To The Human
Receptor Nectin-1
Length = 319
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 43/195 (22%), Positives = 75/195 (38%), Gaps = 31/195 (15%)
Query: 64 VNISSVRVEDSGIYQCT-ATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGD 122
+ +S + +ED G+Y C AT G++ ++ V P + ++ G
Sbjct: 79 IRLSRLELEDEGVYICEFATFPTGNRESQLNLTVMAKP-----TNWIEGTQAVLRAKKGQ 133
Query: 123 RAGV---QCLVTKGDPPLTISWLKNGLPILSDAEI-TIRSSGEYTSSLSIATL---STGH 175
V C G PP +SW + +AE IR+ + +S L H
Sbjct: 134 DDKVLVATCTSANGKPPSVVSWETR---LKGEAEYQEIRNPNGTVTVISRYRLVPSREAH 190
Query: 176 SGNYTCVASNTVASDNHSSNLRVNEYTSSLSIATLSTGHSGNY---------TCVA-SNT 225
+ C+ + + S L V +Y ++I G GN+ TC A +N
Sbjct: 191 QQSLACIVNYHMDRFKESLTLNV-QYEPEVTIE----GFDGNWYLQRMDVKLTCKADANP 245
Query: 226 VASDNHSSNLRVNVP 240
A++ H + L ++P
Sbjct: 246 PATEYHWTTLNGSLP 260
>pdb|1DFB|H Chain H, Structure Of A Human Monoclonal Antibody Fab Fragment
Against Gp41 Of Human Immunodeficiency Virus Type I
Length = 229
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 41/89 (46%), Gaps = 11/89 (12%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
++ ++S+R ED +Y C R + +D GQ V + +++++
Sbjct: 80 YLQMNSLRAEDMALYYCV-KGRDYYDSGGYFTVAFDIWGQGTMVTVSSASTKGPSVFPLA 138
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 139 PSSKSTSGGTAALGCLVKDYFPEPVTVSW 167
>pdb|2Z8W|C Chain C, Structure Of An Ignar-Ama1 Complex
pdb|2Z8W|D Chain D, Structure Of An Ignar-Ama1 Complex
Length = 116
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 9/39 (23%)
Query: 52 QYMSLHGDVISHVN---------ISSVRVEDSGIYQCTA 81
Q +S+ G + VN IS +RVEDSG Y+C A
Sbjct: 47 QSISIGGRYVETVNKGSKSFSLRISDLRVEDSGTYKCQA 85
>pdb|3RBG|A Chain A, Crystal Structure Analysis Of Class-I Mhc Restricted
T-Cell Associated Molecule
pdb|3RBG|B Chain B, Crystal Structure Analysis Of Class-I Mhc Restricted
T-Cell Associated Molecule
pdb|3RBG|C Chain C, Crystal Structure Analysis Of Class-I Mhc Restricted
T-Cell Associated Molecule
pdb|3RBG|D Chain D, Crystal Structure Analysis Of Class-I Mhc Restricted
T-Cell Associated Molecule
Length = 124
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 18/77 (23%), Positives = 38/77 (49%), Gaps = 15/77 (19%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWK--------LDGYPLAGDRFVMGQYMSLH--GDVIS 62
T++ G ++LKC+ + + W L+ YP+ + +Y LH + +S
Sbjct: 12 TVEEGQTLTLKCVTSLRKNSSLQWLTPSGFTIFLNEYPVLKN----SKYQLLHHSANQLS 67
Query: 63 HVNISSVRVEDSGIYQC 79
+ + +V ++D G+Y+C
Sbjct: 68 -ITVPNVTLQDEGVYKC 83
>pdb|1VES|A Chain A, Structure Of New Antigen Receptor Variable Domain From
Sharks
pdb|1VES|B Chain B, Structure Of New Antigen Receptor Variable Domain From
Sharks
Length = 113
Score = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 9/39 (23%)
Query: 52 QYMSLHGDVISHVN---------ISSVRVEDSGIYQCTA 81
Q +S+ G + VN IS +RVEDSG Y+C A
Sbjct: 47 QSISIGGRYVETVNKGSKSFSLRISDLRVEDSGTYKCQA 85
>pdb|3MOQ|A Chain A, Amyloid Beta(18-41) Peptide Fusion With New Antigen
Receptor Variable Domain From Sharks
pdb|3MOQ|B Chain B, Amyloid Beta(18-41) Peptide Fusion With New Antigen
Receptor Variable Domain From Sharks
pdb|3MOQ|C Chain C, Amyloid Beta(18-41) Peptide Fusion With New Antigen
Receptor Variable Domain From Sharks
pdb|3MOQ|D Chain D, Amyloid Beta(18-41) Peptide Fusion With New Antigen
Receptor Variable Domain From Sharks
Length = 126
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 21/39 (53%), Gaps = 9/39 (23%)
Query: 52 QYMSLHGDVISHVN---------ISSVRVEDSGIYQCTA 81
Q +S+ G + VN IS +RVEDSG Y+C A
Sbjct: 47 QSISIGGRYVETVNKGSKSFSLRISDLRVEDSGTYKCQA 85
>pdb|8FAB|B Chain B, Crystal Structure Of The Fab Fragment From The Human
Myeloma Immunoglobulin Igg Hil At 1.8 Angstroms
Resolution
pdb|8FAB|D Chain D, Crystal Structure Of The Fab Fragment From The Human
Myeloma Immunoglobulin Igg Hil At 1.8 Angstroms
Resolution
Length = 224
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 37/158 (23%), Positives = 66/158 (41%), Gaps = 37/158 (23%)
Query: 14 LQPGPPVSLKCIATGNPTPH--ISWKLDGYPLAGDRFVMGQYM----SLHGDVIS----- 62
+QPG + L CIA+G + + W P G +V + + +GD +
Sbjct: 12 VQPGRSLRLSCIASGFTFSNYGMHWVRQA-PGKGLEWVAVIWYNGSRTYYGDSVKGRFTI 70
Query: 63 ---------HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
++ ++S+R ED+ +Y C + + +D GQ V + ++++
Sbjct: 71 SRDNSKRTLYMQMNSLRTEDTAVYYCARDPDILTAFS------FDYWGQGVLVTVSSAST 124
Query: 114 R---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+ S K SG A + CLV P P+T+SW
Sbjct: 125 KGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 162
>pdb|3BZ4|B Chain B, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3BZ4|D Chain D, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3BZ4|F Chain F, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3BZ4|H Chain H, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3C5S|B Chain B, Crystal Structure Of Monoclonal Fab F22-4 Specific For
Shigella Flexneri 2a O-Ag
pdb|3C5S|D Chain D, Crystal Structure Of Monoclonal Fab F22-4 Specific For
Shigella Flexneri 2a O-Ag
pdb|3C6S|B Chain B, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3C6S|D Chain D, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3C6S|F Chain F, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3C6S|H Chain H, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3GGW|B Chain B, Crystal Structure Of Fab F22-4 In Complex With A
Carbohydrate-Mimetic Peptide
pdb|3GGW|D Chain D, Crystal Structure Of Fab F22-4 In Complex With A
Carbohydrate-Mimetic Peptide
Length = 217
Score = 29.6 bits (65), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 35/150 (23%), Positives = 59/150 (39%), Gaps = 27/150 (18%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW------KLDGYPLAGDRFVMGQYM 54
+QPG + + C+ +G +P + W K D Y V G++
Sbjct: 12 VQPGGSMKISCVVSGLTFSNYWMSWVRQSPEKGLEWVAEIRLKSDNYATYYAESVKGKFT 71
Query: 55 SLHGDVIS--HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
D S ++ ++++R ED+GIY C Q S + V A P V +
Sbjct: 72 ISRDDSKSRLYLQMNNLRTEDTGIYYCFLPMDYWGQGTS--VTVSSAKTTPPSVYPLAPG 129
Query: 113 SRSIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S + + + CLV P P+T++W
Sbjct: 130 SAA---QTNSMVTLGCLVKGYFPEPVTVTW 156
>pdb|1UWE|H Chain H, Molecular Mechanism Of Enantioselective Proton Transfer To
Carbon In Catalytic Antibody 14d9
pdb|1UWE|V Chain V, Molecular Mechanism Of Enantioselective Proton Transfer To
Carbon In Catalytic Antibody 14d9
pdb|1UWE|Y Chain Y, Molecular Mechanism Of Enantioselective Proton Transfer To
Carbon In Catalytic Antibody 14d9
Length = 218
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 42/95 (44%), Gaps = 20/95 (21%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
++++++S+ EDS +Y C +D GQ V + +++++
Sbjct: 77 AYIHLNSLTSEDSAVYYCAIFYG----------NFFDYWGQGTTVTVSSASTKGPSVFPL 126
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 127 APSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 161
>pdb|2RCJ|A Chain A, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|B Chain B, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|E Chain E, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|F Chain F, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|I Chain I, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|J Chain J, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|M Chain M, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|N Chain N, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|Q Chain Q, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|R Chain R, Solution Structure Of Human Immunoglobulin M
Length = 218
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 39/92 (42%), Gaps = 15/92 (16%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI------ 116
+ + S+R ED+G+Y C ++ + Y G P V ++ S+
Sbjct: 80 FLQMDSLRPEDTGVYFC-------ARDGGSSAPDYWGQGTPVTVSSASTKGPSVFPLAPS 132
Query: 117 -KVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
K SG A + CLV P P+T+SW L
Sbjct: 133 SKSTSGGTAALGCLVKDYFPQPVTVSWNSGAL 164
>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 = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 40/159 (25%), Positives = 65/159 (40%), Gaps = 33/159 (20%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRFVMGQY---MS 55
+ L+PG V L C +G + W YP G + ++ +
Sbjct: 10 ELLRPGTSVKLSCKTSGYIFTSYWIHWVKQRSGQGLEWIARIYPGTGSTYYNEKFKGKAT 69
Query: 56 LHGDVIS---HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
L D S ++ +S+++ EDS +Y CT R G D V D GQ V + ++
Sbjct: 70 LTADKSSSTAYMQLSTLKSEDSAVYFCT---RWGFIPVREDY-VMDYWGQGTLVTVSSAK 125
Query: 113 SRSIKVH-----SGDRAG----VQCLVTKGDP-PLTISW 141
+ + V+ GD G + CLV P P+T++W
Sbjct: 126 TTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 164
>pdb|1MIM|H Chain H, Igg Fab Fragment (Cd25-Binding)
pdb|3IU3|A Chain A, Crystal Structure Of The Fab Fragment Of Therapeutic
Antibody Basiliximab In Complex With Il-2ra (Cd25)
Ectodomain
pdb|3IU3|C Chain C, Crystal Structure Of The Fab Fragment Of Therapeutic
Antibody Basiliximab In Complex With Il-2ra (Cd25)
Ectodomain
pdb|3IU3|H Chain H, Crystal Structure Of The Fab Fragment Of Therapeutic
Antibody Basiliximab In Complex With Il-2ra (Cd25)
Ectodomain
Length = 215
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 39/162 (24%), Positives = 63/162 (38%), Gaps = 41/162 (25%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGD-----RFV-MGQYMS 55
+PG V + C A+G P + W YP D +F + +
Sbjct: 11 RPGASVKMSCKASGYSFTRYWMHWIKQRPGQGLEWIGAIYPGNSDTSYNQKFEGKAKLTA 70
Query: 56 LHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY-DAPGQPQDVKLVTSNSR 114
+ +++ +SS+ EDS +Y C S D Y D GQ + + +++++
Sbjct: 71 VTSASTAYMELSSLTHEDSAVYYC-----------SRDYGYYFDFWGQGTTLTVSSASTK 119
Query: 115 ---------SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 120 GPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 161
>pdb|1TCR|A Chain A, Murine T-Cell Antigen Receptor 2c Clone
pdb|2CKB|A Chain A, Structure Of The 2cKBDEV8 COMPLEX
pdb|2CKB|C Chain C, Structure Of The 2cKBDEV8 COMPLEX
pdb|1G6R|A Chain A, A Functional Hot Spot For Antigen Recognition In A
Superagonist TcrMHC COMPLEX
pdb|1G6R|C Chain C, A Functional Hot Spot For Antigen Recognition In A
Superagonist TcrMHC COMPLEX
pdb|1MWA|A Chain A, 2cH-2kbm3DEV8 ALLOGENEIC COMPLEX
pdb|1MWA|C Chain C, 2cH-2kbm3DEV8 ALLOGENEIC COMPLEX
Length = 202
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 32/161 (19%), Positives = 59/161 (36%), Gaps = 30/161 (18%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI----------- 61
T+ G + L+C + + TP++ W + YP G + ++ Y GD +
Sbjct: 11 TVSEGASLQLRCKYSYSATPYLFWYVQ-YPRQGLQLLLKYY---SGDPVVQGVNGFEAEF 66
Query: 62 ------SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAP--GQPQDVKLVTSNS 113
H+ +SV DS +Y C + + T + +V P P+ +
Sbjct: 67 SKSNSSFHLRKASVHWSDSAVYFCAVSGFASALTFGSGTKVIVLPYIQNPEPAVYALKDP 126
Query: 114 RSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLPILSDAEI 154
RS + CL T D + + ++DA +
Sbjct: 127 RS-------QDSTLCLFTDFDSQINVPKTMESGTFITDATV 160
>pdb|1YED|H Chain H, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.4)
pdb|1YED|B Chain B, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.4)
Length = 226
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 37/159 (23%), Positives = 63/159 (39%), Gaps = 32/159 (20%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRFVMGQY---MS 55
+ ++PG V L C +G + + W YP G + ++ +
Sbjct: 10 ELVRPGTSVKLSCKTSGYIFTSYWIHWLKQSSGQGLEWIARIYPGTGGTYYNEKFKGKAT 69
Query: 56 LHGDVIS---HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
L D S ++ +SS++ EDS +Y CT R G T + D GQ V + ++
Sbjct: 70 LTADKSSSTAYMQLSSLKSEDSAVYFCT---RWGFTTVRENYYAMDYWGQGTLVTVSSAK 126
Query: 113 SRSIKVH---SGDRAGVQCLVTKG-------DPPLTISW 141
+ V+ G A +VT G P+T++W
Sbjct: 127 TTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTW 165
>pdb|2GCY|B Chain B, Humanized Antibody C25 Fab Fragment
Length = 218
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 38/87 (43%), Gaps = 15/87 (17%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI------ 116
++ ++S+R ED+ +Y C S+ D Y G V ++ S+
Sbjct: 80 YLQMNSLRAEDTAMYYC-------SRYRYDDAMDYWGQGTLVTVSSASTKGPSVFPLAPS 132
Query: 117 -KVHSGDRAGVQCLVTKGDP-PLTISW 141
K SG A + CLV P P+T+SW
Sbjct: 133 SKSTSGGTAALGCLVKDYFPEPVTVSW 159
>pdb|3HC0|H Chain H, Bha10 Igg1 Wild-Type Fab - Antibody Directed At Human Ltbr
pdb|3HC0|A Chain A, Bha10 Igg1 Wild-Type Fab - Antibody Directed At Human Ltbr
Length = 217
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 42/95 (44%), Gaps = 21/95 (22%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ +SS+R ED+ +Y C + + GQ V + +++++
Sbjct: 79 AYMELSSLRSEDTAVYYC-----------ARSWEGFPYWGQGTTVTVSSASTKGPSVFPL 127
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 128 APSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 162
>pdb|2E7L|A Chain A, Structure Of A High-Affinity Mutant Of The 2c Tcr In
Complex With LdQL9
pdb|2E7L|B Chain B, Structure Of A High-Affinity Mutant Of The 2c Tcr In
Complex With LdQL9
Length = 113
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 20/89 (22%), Positives = 38/89 (42%), Gaps = 21/89 (23%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI----------- 61
T+ G + L+C + + TP++ W + YP G + ++ Y GD +
Sbjct: 11 TVSEGASLQLRCKYSYSATPYLFWYVQ-YPRQGPQLLLKYY---SGDPVVQGVNGFEAEF 66
Query: 62 ------SHVNISSVRVEDSGIYQCTATNR 84
H+ +SV DS +Y C +++
Sbjct: 67 SKSNSSFHLRKASVHRSDSAVYFCAVSHQ 95
>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 = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 39/164 (23%), Positives = 65/164 (39%), Gaps = 37/164 (22%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFVMGQY 53
+ +QPG V L C A+G P + W + P G ++F
Sbjct: 10 ELVQPGTSVRLSCKASGYIFTTYWIHWVKQRPGQGLEWIGEINPNNGRINYNEKFKTKAT 69
Query: 54 MSL-HGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+++ +++ +SS+ EDS +Y CT RVG + + GQ V + ++
Sbjct: 70 LTVDKSSSTAYMQLSSLTSEDSAVYYCT---RVGVM-----ITTFPYWGQGTLVTVSAAS 121
Query: 113 SRSIKVH---------SGDRAGVQCLVTKGDP-PLTISWLKNGL 146
++ V S A + CLV P P+T+SW L
Sbjct: 122 TKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSWNSGAL 165
>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 = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 38/159 (23%), Positives = 64/159 (40%), Gaps = 37/159 (23%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFVMGQY 53
+ +QPG V L C A+G P + W + P G ++F
Sbjct: 10 ELVQPGTSVRLSCKASGYIFTTYWIHWVKQRPGQGLEWIGEINPNNGRINYNEKFKTKAT 69
Query: 54 MSL-HGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+++ +++ +SS+ EDS +Y CT RVG + + GQ V + ++
Sbjct: 70 LTVDKSSSTAYMQLSSLTSEDSAVYYCT---RVGVM-----ITTFPYWGQGTLVTVSAAS 121
Query: 113 SRSIKVH---------SGDRAGVQCLVTKGDP-PLTISW 141
++ V S A + CLV P P+T+SW
Sbjct: 122 TKGPSVFPLAPCSRSTSESTAALGCLVKDYFPEPVTVSW 160
>pdb|1NGY|B Chain B, Chimeric Mature Fab 7g12-Apo
Length = 216
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 39/88 (44%), Gaps = 19/88 (21%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI----- 116
+++ +SS+ EDS +Y CT DM + A G V ++ S+
Sbjct: 79 AYMQLSSLTSEDSAVYYCT----------RRDMDYWGA-GTTVTVSSASTKGPSVFPLAP 127
Query: 117 --KVHSGDRAGVQCLVTKGDP-PLTISW 141
K SG A + CLV P P+T+SW
Sbjct: 128 SSKSTSGGTAALGCLVKDYFPEPVTVSW 155
>pdb|2FSE|A Chain A, Crystallographic Structure Of A Rheumatoid Arthritis Mhc
Susceptibility Allele, Hla-Dr1 (Drb10101), Complexed
With The Immunodominant Determinant Of Human Type Ii
Collagen
pdb|2FSE|C Chain C, Crystallographic Structure Of A Rheumatoid Arthritis Mhc
Susceptibility Allele, Hla-Dr1 (Drb10101), Complexed
With The Immunodominant Determinant Of Human Type Ii
Collagen
Length = 178
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 25/41 (60%), Gaps = 2/41 (4%)
Query: 109 VTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
VT SRS V+ G+ + C + K PP+ ++WL+NG P+
Sbjct: 86 VTVLSRS-PVNLGEPNILICFIDKFSPPVVNVTWLRNGRPV 125
>pdb|3FCT|B Chain B, Mature Metal Chelatase Catalytic Antibody With Hapten
pdb|3FCT|D Chain D, Mature Metal Chelatase Catalytic Antibody With Hapten
pdb|1NGW|H Chain H, Chimeric Affinity Matured Fab 7g12 Complexed With
Mesoporphyrin
pdb|1NGW|B Chain B, Chimeric Affinity Matured Fab 7g12 Complexed With
Mesoporphyrin
Length = 216
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 39/88 (44%), Gaps = 19/88 (21%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI----- 116
+++ +SS+ EDS +Y CT DM + A G V ++ S+
Sbjct: 79 AYMQLSSLTSEDSAVYYCT----------RRDMDYWGA-GTTVTVSSASTKGPSVFPLAP 127
Query: 117 --KVHSGDRAGVQCLVTKGDP-PLTISW 141
K SG A + CLV P P+T+SW
Sbjct: 128 SSKSTSGGTAALGCLVKDYFPEPVTVSW 155
>pdb|3HC3|H Chain H, Bha10 Igg1 Fab Double Mutant Variant - Antibody Directed
At Human Ltbr
Length = 217
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 42/95 (44%), Gaps = 21/95 (22%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ +SS+R ED+ +Y C + + GQ V + +++++
Sbjct: 79 AYMELSSLRSEDTAVYYC-----------ARSWEGFPYWGQGTTVTVSSASTKGPSVFPL 127
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 128 APSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 162
>pdb|3TJH|C Chain C, 42f3-P3a1H2-Ld Complex
Length = 226
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 38/86 (44%), Gaps = 15/86 (17%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQY------MSLHG-------- 58
T+ G + L+C + + TP++ W + YP G + ++ Y ++G
Sbjct: 20 TVSEGASLQLRCKYSYSATPYLFWYVQ-YPRQGLQMLLKYYSGDPVVQGVNGFEAEFSKS 78
Query: 59 DVISHVNISSVRVEDSGIYQCTATNR 84
D H+ +SV DS +Y C + +
Sbjct: 79 DSSFHLRKASVHWSDSAVYFCAVSAK 104
>pdb|1Q8M|A Chain A, Crystal Structure Of The Human Myeloid Cell Activating
Receptor Trem-1
pdb|1Q8M|B Chain B, Crystal Structure Of The Human Myeloid Cell Activating
Receptor Trem-1
pdb|1Q8M|C Chain C, Crystal Structure Of The Human Myeloid Cell Activating
Receptor Trem-1
pdb|1Q8M|D Chain D, Crystal Structure Of The Human Myeloid Cell Activating
Receptor Trem-1
Length = 127
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 18/61 (29%), Positives = 31/61 (50%), Gaps = 11/61 (18%)
Query: 19 PVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQ 78
P +L C T P+ + +P+ R ++ Y H + V + +++VEDSG+YQ
Sbjct: 49 PKTLAC--TERPSK------NSHPVQVGRIILEDY---HDHGLLRVRMVNLQVEDSGLYQ 97
Query: 79 C 79
C
Sbjct: 98 C 98
>pdb|2WNG|A Chain A, Complete Extracellular Structure Of Human Signal
Regulatory Protein (Sirp) Alpha
Length = 327
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 38/84 (45%), Gaps = 17/84 (20%)
Query: 114 RSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLP---------------ILSDAEITIRS 158
+S+ V +G+ A + C VT P I W + P + + +E T R
Sbjct: 11 KSVSVAAGESAILHCTVTSLIPVGPIQWFRGAGPARELIYNQKEGHFPRVTTVSESTKRE 70
Query: 159 SGEYTSSLSIATLSTGHSGNYTCV 182
+ ++ S+SI+ ++ +G Y CV
Sbjct: 71 NMDF--SISISNITPADAGTYYCV 92
>pdb|3TFK|C Chain C, 42f3-P4b10H2-Ld
Length = 212
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 38/86 (44%), Gaps = 15/86 (17%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQY------MSLHG-------- 58
T+ G + L+C + + TP++ W + YP G + ++ Y ++G
Sbjct: 16 TVSEGASLQLRCKYSYSATPYLFWYVQ-YPRQGLQMLLKYYSGDPVVQGVNGFEAEFSKS 74
Query: 59 DVISHVNISSVRVEDSGIYQCTATNR 84
D H+ +SV DS +Y C + +
Sbjct: 75 DSSFHLRKASVHWSDSAVYFCAVSAK 100
>pdb|2XRA|H Chain H, Crystal Structure Of The Hk20 Fab In Complex With A Gp41
Mimetic 5-Helix
Length = 223
Score = 29.3 bits (64), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 44/95 (46%), Gaps = 15/95 (15%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ + S+ EDS +Y C + S ++ +D GQ V + +++++
Sbjct: 77 AYMELRSLTSEDSAVYYCARASYSSSSPYA-----FDIWGQGTMVTVSSASTKGPSVFPL 131
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 132 APSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 166
>pdb|4AEN|A Chain A, Hla-Dr1 With Covalently Linked Clip106-120 In Reversed
Orientation
Length = 207
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 35 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 94
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 95 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 143
>pdb|3TPU|A Chain A, 42f3 P5e8H2-Ld Complex
pdb|3TPU|C Chain C, 42f3 P5e8H2-Ld Complex
pdb|3TPU|G Chain G, 42f3 P5e8H2-Ld Complex
pdb|3TPU|M Chain M, 42f3 P5e8H2-Ld Complex
Length = 211
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 20/86 (23%), Positives = 38/86 (44%), Gaps = 15/86 (17%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQY------MSLHG-------- 58
T+ G + L+C + + TP++ W + YP G + ++ Y ++G
Sbjct: 15 TVSEGASLQLRCKYSYSATPYLFWYVQ-YPRQGLQMLLKYYSGDPVVQGVNGFEAEFSKS 73
Query: 59 DVISHVNISSVRVEDSGIYQCTATNR 84
D H+ +SV DS +Y C + +
Sbjct: 74 DSSFHLRKASVHWSDSAVYFCAVSAK 99
>pdb|3O0R|H Chain H, Crystal Structure Of Nitric Oxide Reductase From
Pseudomonas Aeruginosa In Complex With Antibody Fragment
Length = 225
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 35/156 (22%), Positives = 64/156 (41%), Gaps = 32/156 (20%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGD-----RFV-MGQYMS 55
+PG V + C A+G P + W YP D +F + +
Sbjct: 13 RPGASVKMSCKASGYSFTSYWMHWVKQRPGQGLEWIGAVYPGNSDTSYNQKFKGKAKLTA 72
Query: 56 LHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRS 115
+ +++ +SS+ EDS +Y C+ ++ G + +D GQ V + ++ + +
Sbjct: 73 VTSASTAYMELSSLTNEDSAVYYCSRSSLDG---YYVKNWCFDVWGQGTTVTVSSAKTTA 129
Query: 116 IKVH-----SGDRAG----VQCLVTKGDP-PLTISW 141
V+ GD G + CLV P P+T++W
Sbjct: 130 PSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 165
>pdb|1AQD|A Chain A, Hla-Dr1 (Dra, Drb1 0101) Human Class Ii Histocompatibility
Protein (Extracellular Domain) Complexed With Endogenous
Peptide
pdb|1AQD|D Chain D, Hla-Dr1 (Dra, Drb1 0101) Human Class Ii Histocompatibility
Protein (Extracellular Domain) Complexed With Endogenous
Peptide
pdb|1AQD|G Chain G, Hla-Dr1 (Dra, Drb1 0101) Human Class Ii Histocompatibility
Protein (Extracellular Domain) Complexed With Endogenous
Peptide
pdb|1AQD|J Chain J, Hla-Dr1 (Dra, Drb1 0101) Human Class Ii Histocompatibility
Protein (Extracellular Domain) Complexed With Endogenous
Peptide
Length = 192
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 20 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 79
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 80 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 128
>pdb|3PDO|A Chain A, Crystal Structure Of Hla-Dr1 With Clip102-120
pdb|3PGC|A Chain A, Crystal Structure Of Hla-Dr1 With Clip106-120, Flipped
Peptide Orientation
pdb|3PGC|D Chain D, Crystal Structure Of Hla-Dr1 With Clip106-120, Flipped
Peptide Orientation
pdb|3PGD|A Chain A, Crystal Structure Of Hla-Dr1 With Clip106-120, Canonical
Peptide Orientation
pdb|3PGD|D Chain D, Crystal Structure Of Hla-Dr1 With Clip106-120, Canonical
Peptide Orientation
pdb|4AH2|A Chain A, Hla-Dr1 With Covalently Linked Clip106-120 In Canonical
Orientation
Length = 193
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 21 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 80
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 81 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 129
>pdb|1UM4|H Chain H, Catalytic Antibody 21h3 With Hapten
pdb|1UM5|H Chain H, Catalytic Antibody 21h3 With Alcohol Substrate
pdb|1UM6|H Chain H, Catalytic Antibody 21h3
Length = 217
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 40/88 (45%), Gaps = 15/88 (17%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI----- 116
+++ +SS+ EDS +Y C +++ +D PG V ++ S+
Sbjct: 78 AYLELSSLTSEDSAVYYC-------ARSSMSDPGANWGPGTLVTVSSASTKGPSVFPLAP 130
Query: 117 --KVHSGDRAGVQCLVTKGDP-PLTISW 141
K SG A + CLV P P+T+SW
Sbjct: 131 SSKSTSGGTAALGCLVKDYFPEPVTVSW 158
>pdb|4FMF|A Chain A, Crystal Structure Of Human Nectin-1 Full Ectodomain
(D1-D3)
pdb|4FMF|B Chain B, Crystal Structure Of Human Nectin-1 Full Ectodomain
(D1-D3)
pdb|4FMF|C Chain C, Crystal Structure Of Human Nectin-1 Full Ectodomain
(D1-D3)
pdb|4FMF|D Chain D, Crystal Structure Of Human Nectin-1 Full Ectodomain
(D1-D3)
Length = 313
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 43/195 (22%), Positives = 75/195 (38%), Gaps = 31/195 (15%)
Query: 64 VNISSVRVEDSGIYQCT-ATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGD 122
+ +S + +ED G+Y C AT G++ ++ V P + ++ G
Sbjct: 79 IRLSRLELEDEGVYICEFATFPTGNRESQLNLTVMAKP-----TNWIEGTQAVLRAKKGQ 133
Query: 123 RAGV---QCLVTKGDPPLTISWLKNGLPILSDAEI-TIRSSGEYTSSLSIATL---STGH 175
V C G PP +SW + +AE IR+ + +S L H
Sbjct: 134 DDKVLVATCTSANGKPPSVVSWETR---LKGEAEYQEIRNPNGTVTVISRYRLVPSREAH 190
Query: 176 SGNYTCVASNTVASDNHSSNLRVNEYTSSLSIATLSTGHSGNY---------TCVA-SNT 225
+ C+ + + S L V +Y ++I G GN+ TC A +N
Sbjct: 191 QQSLACIVNYHMDRFKESLTLNV-QYEPEVTIE----GFDGNWYLQRMDVKLTCKADANP 245
Query: 226 VASDNHSSNLRVNVP 240
A++ H + L ++P
Sbjct: 246 PATEYHWTTLNGSLP 260
>pdb|1YMM|A Chain A, TcrHLA-Dr2bMBP-Peptide Complex
Length = 191
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 20 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 79
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 80 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 128
>pdb|2E7B|A Chain A, Solution Structure Of The 6th Ig-Like Domain From Human
Kiaa1556
Length = 103
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 41/88 (46%), Gaps = 11/88 (12%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLA-GDRFVMGQYMSLHGDVISHVNISSVRVEDSG 75
G +L+C+ + P + W L GD++ + Q G ++ V + ++R +DSG
Sbjct: 23 GGAATLRCVLSSVAAP-VKWCYGNNVLRPGDKYSLRQ----EGAMLELV-VRNLRPQDSG 76
Query: 76 IYQCTATNRVGSQTHSADMRVYDAPGQP 103
Y C+ G QT SA + V P P
Sbjct: 77 RYSCS----FGDQTTSATLTVTALPSGP 100
>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 = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 37/158 (23%), Positives = 66/158 (41%), Gaps = 35/158 (22%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW-----KLDGYPLAGDRFVMGQYMS 55
++PG + L C A+G P + W + GY D V G++
Sbjct: 12 VKPGGSLKLSCAASGFAFSSYDMSWVRQTPEKRLEWVAYISRGGGYTYYPDT-VKGRFTI 70
Query: 56 LHGDVIS--HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
+ + ++ +SS++ ED+ +Y C+ GS + A D GQ V + ++ +
Sbjct: 71 SRDNAKNTLYLQMSSLKSEDTAMYYCSRHIYYGSSHYYA----MDYWGQGTSVTVSSAKT 126
Query: 114 RSIKVH-----SGDRAG----VQCLVTKGDP-PLTISW 141
+ V+ GD G + CLV P P+T++W
Sbjct: 127 TAPSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 164
>pdb|1N7M|L Chain L, Germline 7g12 With N-Methylmesoporphyrin
Length = 216
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 38/152 (25%), Positives = 67/152 (44%), Gaps = 28/152 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISW--KLD---GYPLAGDRFVMGQY 53
+ ++PG V L C A+G P + W ++D G ++F
Sbjct: 10 ELVKPGASVKLSCKASGYTFTSYWMHWVKQRPGRGLEWIGRIDPNSGGTKYNEKFKSKAT 69
Query: 54 MSLHG-DVISHVNISSVRVEDSGIYQCTA--TNRVGSQTHSADMRVYDAPGQPQDVKLVT 110
+++ +++ +SS+ EDS +Y CT ++ G+ T + V A + V +
Sbjct: 70 LTVDKPSSTAYMQLSSLTSEDSAVYYCTRRDSDYWGAGT---TVTVSSASTKGPSVFPLA 126
Query: 111 SNSRSIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+S+S SG A + CLV P P+T+SW
Sbjct: 127 PSSKST---SGGTAALGCLVKDYFPEPVTVSW 155
>pdb|3U46|H Chain H, Ch04hCH02L P212121
pdb|3U46|A Chain A, Ch04hCH02L P212121
pdb|3U4B|H Chain H, Ch04hCH02L FAB P4
Length = 238
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 39/164 (23%), Positives = 66/164 (40%), Gaps = 37/164 (22%)
Query: 14 LQPGPPVSLKCIATGNPTPHIS--WKLDGYPLAGDRFVMGQYM----SLHGDVIS----- 62
++PG + L C +G + W G P G +V G S +GD +
Sbjct: 12 IRPGGSLRLSCKGSGFIFENFGFGWVRQG-PGKGLEWVSGTNWNGGDSRYGDSVKGRFTI 70
Query: 63 ---------HVNISSVRVEDSGIYQC------TATNRVGSQTHSADMRVYDAPGQPQDVK 107
++ ++S+R ED+ IY C T ++ S +D G+ V
Sbjct: 71 SRDNSNNFVYLQMNSLRPEDTAIYYCARGTDYTIDDQGIRYQGSGTFWYFDVWGRGTLVT 130
Query: 108 LVTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+ +++++ S K SG A + CLV P P+T+SW
Sbjct: 131 VSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 174
>pdb|2WBJ|A Chain A, Tcr Complex
pdb|2WBJ|E Chain E, Tcr Complex
Length = 194
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 20 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 79
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 80 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 128
>pdb|3G04|B Chain B, Crystal Structure Of The Tsh Receptor In Complex With A
Thyroid- Stimulating Autoantibody
Length = 228
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 25/90 (27%), Positives = 42/90 (46%), Gaps = 16/90 (17%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ SS++ D+G+Y C S T S + GQ V + +++++
Sbjct: 79 AYLQWSSLKASDTGMYYCARLEPGYSSTWSVNW------GQGTLVTVSSASTKGPSVFPL 132
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 133 APSSKSTSGGTAALGCLVKDYFPEPVTVSW 162
>pdb|1A6A|A Chain A, The Structure Of An Intermediate In Class Ii Mhc
Maturation: Clip Bound To Hla-dr3
Length = 176
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 16 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 75
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 76 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 124
>pdb|4H1L|A Chain A, Tcr Interaction With Peptide Mimics Of Nickel Offers
Structural Insights In Nickel Contact Allergy
pdb|4H1L|D Chain D, Tcr Interaction With Peptide Mimics Of Nickel Offers
Structural Insights In Nickel Contact Allergy
Length = 178
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 18 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 77
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 78 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 126
>pdb|3IYW|H Chain H, West Nile Virus In Complex With Fab Fragments Of Mab
Cr4354 (Fitted Coordinates Of Envelope Proteins And Fab
Fragments Of One Icosahedral Asu)
pdb|3IYW|K Chain K, West Nile Virus In Complex With Fab Fragments Of Mab
Cr4354 (Fitted Coordinates Of Envelope Proteins And Fab
Fragments Of One Icosahedral Asu)
pdb|3N9G|H Chain H, Crystal Structure Of The Fab Fragment Of The Human
Neutralizing Anti- West Nile Virus Mab Cr4354
Length = 230
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 38/92 (41%), Gaps = 10/92 (10%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSI------ 116
++ +SS+R ED+ +Y C GS Y G V ++ S+
Sbjct: 80 YMELSSLRSEDTAVYYC--ARDWGSNYVWGSYPKYWGQGTLVTVSSASTKGPSVFPLAPS 137
Query: 117 -KVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
K SG A + CLV P P+T+SW L
Sbjct: 138 SKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 169
>pdb|1NGX|B Chain B, Chimeric Germline Fab 7g12 With Jeffamine Fragment Bound
pdb|1NGX|H Chain H, Chimeric Germline Fab 7g12 With Jeffamine Fragment Bound
Length = 216
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 38/152 (25%), Positives = 67/152 (44%), Gaps = 28/152 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISW--KLD---GYPLAGDRFVMGQY 53
+ ++PG V L C A+G P + W ++D G ++F
Sbjct: 10 ELVKPGASVKLSCKASGYTFTSYWMHWVKQRPGRGLEWIGRIDPNSGGTKYNEKFKSKAT 69
Query: 54 MSLHG-DVISHVNISSVRVEDSGIYQCTA--TNRVGSQTHSADMRVYDAPGQPQDVKLVT 110
+++ +++ +SS+ EDS +Y CT ++ G+ T + V A + V +
Sbjct: 70 LTVDKPSSTAYMQLSSLTSEDSAVYYCTRRDSDYWGAGT---TVTVSSASTKGPSVFPLA 126
Query: 111 SNSRSIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+S+S SG A + CLV P P+T+SW
Sbjct: 127 PSSKST---SGGTAALGCLVKDYFPEPVTVSW 155
>pdb|1KLG|A Chain A, Crystal Structure Of Hla-Dr1TPI(23-37, Thr28-->ile Mutant)
Complexed With Staphylococcal Enterotoxin C3 Variant 3b2
(Sec3-3b2)
Length = 177
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 17 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 76
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 77 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 125
>pdb|1NQB|A Chain A, Trivalent Antibody Fragment
pdb|1NQB|C Chain C, Trivalent Antibody Fragment
Length = 256
Score = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 32/141 (22%), Positives = 57/141 (40%), Gaps = 31/141 (21%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISW--KLD---GYPLAGDRFVMGQY 53
+ ++PG V L C A+G P + W ++D G ++F
Sbjct: 10 ELVKPGASVKLSCKASGYTFTSYWMHWVKQRPGRGLEWIGRIDPNSGGTKYNEKFKSKAT 69
Query: 54 MSLHG-DVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKL---- 108
+++ +++ +SS+ EDS +Y C + GS +D GQ V +
Sbjct: 70 LTVDKPSSTAYMQLSSLTSEDSAVYYCARYDYYGSS-------YFDYWGQGTTVTVSSDI 122
Query: 109 -VTSNSRSIKVHSGDRAGVQC 128
+T S+ V GD+A + C
Sbjct: 123 ELTQTPLSLPVSLGDQASISC 143
>pdb|1AQK|H Chain H, Three-Dimensional Structure Of A Human Fab With High
Affinity For Tetanus Toxoid
Length = 226
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 42/89 (47%), Gaps = 14/89 (15%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR-------- 114
+ ++S+R ED+ IY C RV Q +D GQ V + +++++
Sbjct: 80 FLQMNSLRPEDTAIYYCA---RVLFQ-QLVLYAPFDIWGQGTMVTVSSASTKGPSVFPLA 135
Query: 115 -SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 136 PSSKSTSGGTAALGCLVKDYFPQPVTVSW 164
>pdb|1KLU|A Chain A, Crystal Structure Of Hla-Dr1TPI(23-37) Complexed With
Staphylococcal Enterotoxin C3 Variant 3b2 (Sec3-3b2)
Length = 179
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 17 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 76
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 77 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 125
>pdb|3K1K|C Chain C, Green Fluorescent Protein Bound To Minimizer Nanobody
pdb|3K1K|D Chain D, Green Fluorescent Protein Bound To Minimizer Nanobody
Length = 123
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 19/85 (22%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWK------------LDGYPLAGDR-----FVMGQYMSL 56
+QPG + L C A+G P S + + G AGDR V G++
Sbjct: 14 VQPGGSLRLSCAASGFPVNRYSMRWYRQAPGKEREWVAGMSSAGDRSSYEDSVKGRFTIS 73
Query: 57 HGDVIS--HVNISSVRVEDSGIYQC 79
D + ++ ++S++ ED+ +Y C
Sbjct: 74 RDDARNTVYLQMNSLKPEDTAVYYC 98
>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 = 2.9, Method: Compositional matrix adjust.
Identities = 41/162 (25%), Positives = 67/162 (41%), Gaps = 49/162 (30%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAG---------DRFV 49
+QPG + L C+A+G P + W ++D P G DRF
Sbjct: 12 VQPGRSLKLSCLASGYIFTSSWINWVKQRPGRGLEWIGRID--PSDGEVHYNQDFKDRFT 69
Query: 50 MGQYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLV 109
+ + S + ++ ++S+R ED+ +Y C G AD GQ V +
Sbjct: 70 ISRDKSKN---TLYLQMNSLRPEDTAVYYCAR----GFLPWFADW------GQGTLVTVS 116
Query: 110 TSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+++++ S K SG A + CLV P P+T+SW
Sbjct: 117 SASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 158
>pdb|1T5X|A Chain A, Hla-Dr1 In Complex With A Synthetic Peptide
(Aaysdqatplllspr) And The Superantigen Sec3-3b2
Length = 181
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 19 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 78
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 79 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 127
>pdb|3HG1|E Chain E, Germline-Governed Recognition Of A Cancer Epitope By An
Immunodominant Human T Cell Receptor
Length = 244
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 42/94 (44%), Gaps = 22/94 (23%)
Query: 4 QLIYKFIQQTLQP-GPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLH-GDVI 61
Q I+++ +QP G P+SL+C G P++ W Y A R + + S+ G +
Sbjct: 2 QTIHQWPATLVQPVGSPLSLECTVEGTSNPNLYW----YRQAAGRGLQLLFYSVGIGQIS 57
Query: 62 SHV--NISSVR--------------VEDSGIYQC 79
S V N+S+ R + DSG Y C
Sbjct: 58 SEVPQNLSASRPQDRQFILSSKKLLLSDSGFYLC 91
>pdb|1NGZ|B Chain B, Chimeric Germline Fab 7g12-Apo
Length = 220
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 38/152 (25%), Positives = 67/152 (44%), Gaps = 28/152 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISW--KLD---GYPLAGDRFVMGQY 53
+ ++PG V L C A+G P + W ++D G ++F
Sbjct: 10 ELVKPGASVKLSCKASGYTFTSYWMHWVKQRPGRGLEWIGRIDPNSGGTKYNEKFKSKAT 69
Query: 54 MSLHG-DVISHVNISSVRVEDSGIYQCTA--TNRVGSQTHSADMRVYDAPGQPQDVKLVT 110
+++ +++ +SS+ EDS +Y CT ++ G+ T + V A + V +
Sbjct: 70 LTVDKPSSTAYMQLSSLTSEDSAVYYCTRRDSDYWGAGT---TVTVSSASTKGPSVFPLA 126
Query: 111 SNSRSIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+S+S SG A + CLV P P+T+SW
Sbjct: 127 PSSKST---SGGTAALGCLVKDYFPEPVTVSW 155
>pdb|1SEB|A Chain A, Complex Of The Human Mhc Class Ii Glycoprotein Hla-Dr1 And
The Bacterial Superantigen Seb
pdb|1SEB|E Chain E, Complex Of The Human Mhc Class Ii Glycoprotein Hla-Dr1 And
The Bacterial Superantigen Seb
pdb|2SEB|A Chain A, X-Ray Crystal Structure Of Hla-Dr4 Complexed With A
Peptide From Human Collagen Ii
pdb|1D5M|A Chain A, X-Ray Crystal Structure Of Hla-Dr4 Complexed With Peptide
And Seb
pdb|1D5X|A Chain A, X-ray Crystal Structure Of Hla-dr4 Complexed With
Dipeptide Mimetic And Seb
pdb|1D5Z|A Chain A, X-Ray Crystal Structure Of Hla-Dr4 Complexed With
Peptidomimetic And Seb
pdb|1D6E|A Chain A, Crystal Structure Of Hla-Dr4 Complex With Peptidomimetic
And Seb
pdb|1FV1|A Chain A, Structural Basis For The Binding Of An Immunodominant
Peptide From Myelin Basic Protein In Different Registers
By Two Hla-Dr2 Alleles
pdb|1FV1|D Chain D, Structural Basis For The Binding Of An Immunodominant
Peptide From Myelin Basic Protein In Different Registers
By Two Hla-Dr2 Alleles
pdb|1FYT|A Chain A, Crystal Structure Of A Complex Of A Human AlphaBETA-T Cell
Receptor, Influenza Ha Antigen Peptide, And Mhc Class Ii
Molecule, Hla-Dr1
pdb|1HQR|A Chain A, Crystal Structure Of A Superantigen Bound To The High-
Affinity, Zinc-Dependent Site On Mhc Class Ii
pdb|1J8H|A Chain A, Crystal Structure Of A Complex Of A Human AlphaBETA-T Cell
Receptor, Influenza Ha Antigen Peptide, And Mhc Class Ii
Molecule, Hla-Dr4
pdb|1ZGL|A Chain A, Crystal Structure Of 3a6 Tcr Bound To MbpHLA-Dr2a
pdb|1ZGL|D Chain D, Crystal Structure Of 3a6 Tcr Bound To MbpHLA-Dr2a
pdb|1ZGL|G Chain G, Crystal Structure Of 3a6 Tcr Bound To MbpHLA-Dr2a
pdb|1ZGL|J Chain J, Crystal Structure Of 3a6 Tcr Bound To MbpHLA-Dr2a
pdb|3C5J|A Chain A, Crystal Structure Of Hla Dr52c
Length = 181
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 20 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 79
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 80 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 128
>pdb|2IPK|A Chain A, Crystal Structure Of The Mhc Class Ii Molecule Hla-Dr1 In
Complex With The Fluorogenic Peptide, Acpkxvkqntlklat
(X3-
[5-(Dimethylamino)-1,3-Dioxo-1,
3-Dihydro-2h-Isoindol-2-Yl]- L-Alanine) And The
Superantigen, Sec3 Variant 3b2
Length = 183
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 21 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 80
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 81 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 129
>pdb|1DLH|A Chain A, Crystal Structure Of The Human Class Ii Mhc Protein
Hla-dr1 Complexed With An Influenza Virus Peptide
pdb|1DLH|D Chain D, Crystal Structure Of The Human Class Ii Mhc Protein
Hla-dr1 Complexed With An Influenza Virus Peptide
pdb|1KG0|A Chain A, Structure Of The Epstein-Barr Virus Gp42 Protein Bound To
The Mhc Class Ii Receptor Hla-Dr1
pdb|1SJE|A Chain A, Hla-Dr1 Complexed With A 16 Residue Hiv Capsid Peptide
Bound In A Hairpin Conformation
pdb|1SJH|A Chain A, Hla-Dr1 Complexed With A 13 Residue Hiv Capsid Peptide
Length = 180
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 18 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 77
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 78 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 126
>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 = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 43/198 (21%), Positives = 76/198 (38%), Gaps = 31/198 (15%)
Query: 64 VNISSVRVEDSGIYQCT-ATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGD 122
+ +S + +ED G+Y C AT G++ ++ V P + ++ G
Sbjct: 94 IRLSRLELEDEGVYICEFATFPTGNRESQLNLTVMAKP-----TNWIEGTQAVLRAKKGQ 148
Query: 123 RAGV---QCLVTKGDPPLTISWLKNGLPILSDAEI-TIRSSGEYTSSLSIATL---STGH 175
V C G PP +SW + +AE IR+ + +S L H
Sbjct: 149 DDKVLVATCTSANGKPPSVVSWETR---LKGEAEYQEIRNPNGTVTVISRYRLVPSREAH 205
Query: 176 SGNYTCVASNTVASDNHSSNLRVNEYTSSLSIATLSTGHSGNY---------TCVA-SNT 225
+ C+ + + S L V +Y ++I G GN+ TC A +N
Sbjct: 206 QQSLACIVNYHMDRFKESLTLNV-QYEPEVTIE----GFDGNWYLQRMDVKLTCKADANP 260
Query: 226 VASDNHSSNLRVNVPPHI 243
A++ H + L ++P +
Sbjct: 261 PATEYHWTTLNGSLPKGV 278
>pdb|3OGO|E Chain E, Structure Of The Gfp:gfp-Nanobody Complex At 2.8 A
Resolution In Spacegroup P21212
pdb|3OGO|F Chain F, Structure Of The Gfp:gfp-Nanobody Complex At 2.8 A
Resolution In Spacegroup P21212
pdb|3OGO|G Chain G, Structure Of The Gfp:gfp-Nanobody Complex At 2.8 A
Resolution In Spacegroup P21212
pdb|3OGO|H Chain H, Structure Of The Gfp:gfp-Nanobody Complex At 2.8 A
Resolution In Spacegroup P21212
Length = 123
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/85 (25%), Positives = 38/85 (44%), Gaps = 19/85 (22%)
Query: 14 LQPGPPVSLKCIATGNPTPHISWK------------LDGYPLAGDR-----FVMGQYMSL 56
+QPG + L C A+G P S + + G AGDR V G++
Sbjct: 13 VQPGGSLRLSCAASGFPVNRYSMRWYRQAPGKEREWVAGMSSAGDRSSYEDSVKGRFTIS 72
Query: 57 HGDVIS--HVNISSVRVEDSGIYQC 79
D + ++ ++S++ ED+ +Y C
Sbjct: 73 RDDARNTVYLQMNSLKPEDTAVYYC 97
>pdb|2JJV|A Chain A, Structure Of Human Signal Regulatory Protein (sirp)
Beta(2)
pdb|2JJV|B Chain B, Structure Of Human Signal Regulatory Protein (sirp)
Beta(2)
Length = 127
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 22/98 (22%), Positives = 43/98 (43%), Gaps = 17/98 (17%)
Query: 109 VTSNSRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLP---------------ILSDAE 153
V +SI V +G+ A + C VT P I W + P + + ++
Sbjct: 6 VIQPDKSISVAAGESATLHCTVTSLIPVGPIQWFRGAGPGRELIYNQKEGHFPRVTTVSD 65
Query: 154 ITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDN 191
+T R++ ++ S+ I+ ++ +G Y CV + D+
Sbjct: 66 LTKRNNMDF--SIRISNITPADAGTYYCVKFRKGSPDH 101
>pdb|1HXY|A Chain A, Crystal Structure Of Staphylococcal Enterotoxin H In
Complex With Human Mhc Class Ii
pdb|1H15|A Chain A, X-Ray Crystal Structure Of Hla-Dra10101DRB50101 Complexed
With A Peptide From Epstein Barr Virus Dna Polymerase
pdb|1H15|D Chain D, X-Ray Crystal Structure Of Hla-Dra10101DRB50101 Complexed
With A Peptide From Epstein Barr Virus Dna Polymerase
pdb|1LO5|A Chain A, Crystal Structure Of The D227a Variant Of Staphylococcal
Enterotoxin A In Complex With Human Mhc Class Ii
pdb|1JWM|A Chain A, Crystal Structure Of The Complex Of The Mhc Class Ii
Molecule Hla-Dr1(Ha Peptide 306-318) With The
Superantigen Sec3
pdb|1JWS|A Chain A, Crystal Structure Of The Complex Of The Mhc Class Ii
Molecule Hla-Dr1 (Ha Peptide 306-318) With The
Superantigen Sec3 Variant 3b1
pdb|1JWU|A Chain A, Crystal Structure Of The Complex Of The Mhc Class Ii
Molecule Hla-Dr1 (Ha Peptide 306-318) With The
Superantigen Sec3 Variant 3b2
pdb|1PYW|A Chain A, Human Class Ii Mhc Protein Hla-Dr1 Bound To A Designed
Peptide Related To Influenza Virus Hemagglutinin,
Fvkqna(Maa)al, In Complex With Staphylococcal
Enterotoxin C3 Variant 3b2 (Sec3-3b2)
pdb|2G9H|A Chain A, Crystal Structure Of Staphylococcal Enterotoxin I (Sei) In
Complex With A Human Mhc Class Ii Molecule
pdb|2IAM|A Chain A, Structural Basis For Recognition Of Mutant Self By A
Tumor- Specific, Mhc Class Ii-Restricted Tcr
pdb|2IAN|A Chain A, Structural Basis For Recognition Of Mutant Self By A
Tumor- Specific, Mhc Class Ii-Restricted Tcr
pdb|2IAN|F Chain F, Structural Basis For Recognition Of Mutant Self By A
Tumor- Specific, Mhc Class Ii-Restricted Tcr
pdb|2IAN|K Chain K, Structural Basis For Recognition Of Mutant Self By A
Tumor- Specific, Mhc Class Ii-Restricted Tcr
pdb|2IAN|P Chain P, Structural Basis For Recognition Of Mutant Self By A
Tumor- Specific, Mhc Class Ii-Restricted Tcr
pdb|2Q6W|A Chain A, The Structure Of Hla-Dra, Drb30101 (Dr52a) With Bound
Platelet Integrin Peptide Associated With Fetal And
Neonatal Alloimmune Thrombocytopenia
pdb|2Q6W|D Chain D, The Structure Of Hla-Dra, Drb30101 (Dr52a) With Bound
Platelet Integrin Peptide Associated With Fetal And
Neonatal Alloimmune Thrombocytopenia
pdb|2XN9|D Chain D, Crystal Structure Of The Ternary Complex Between Human T
Cell Receptor, Staphylococcal Enterotoxin H And Human
Major Histocompatibility Complex Class Ii
pdb|3O6F|A Chain A, Crystal Structure Of A Human Autoimmune Tcr Ms2-3c8 Bound
To Mhc Class Ii Self-Ligand MbpHLA-Dr4
pdb|3O6F|E Chain E, Crystal Structure Of A Human Autoimmune Tcr Ms2-3c8 Bound
To Mhc Class Ii Self-Ligand MbpHLA-Dr4
pdb|3QXA|A Chain A, Hla-Dr1 Bound With Clip Peptide
pdb|3QXA|D Chain D, Hla-Dr1 Bound With Clip Peptide
pdb|3T0E|A Chain A, Crystal Structure Of A Complete Ternary Complex Of T Cell
Receptor, Peptide-Mhc And Cd4
pdb|4E41|A Chain A, Structural Basis For The Recognition Of Mutant Self By A
Tumor- Specific, Mhc Class Ii-Restricted T Cell Receptor
G4
pdb|4E41|F Chain F, Structural Basis For The Recognition Of Mutant Self By A
Tumor- Specific, Mhc Class Ii-Restricted T Cell Receptor
G4
Length = 182
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 20 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 79
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 80 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 128
>pdb|3E2H|B Chain B, Structure Of The M67 High-Affinity Mutant Of The 2c Tcr
In Complex With LdQL9
Length = 109
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/87 (22%), Positives = 36/87 (41%), Gaps = 21/87 (24%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI----------- 61
T+ G + L+C + + TP++ W + YP G + ++ Y GD +
Sbjct: 10 TVSEGASLQLRCKYSYSATPYLFWYVQ-YPRQGPQLLLKYY---SGDPVVQGVNGFEAEF 65
Query: 62 ------SHVNISSVRVEDSGIYQCTAT 82
H+ +SV DS +Y C +
Sbjct: 66 SKSNSSFHLRKASVHRSDSAVYFCAVS 92
>pdb|3L6F|A Chain A, Structure Of Mhc Class Ii Molecule Hla-Dr1 Complexed With
Phosphopeptide Mart-1
pdb|3S4S|A Chain A, Crystal Structure Of Cd4 Mutant Bound To Hla-Dr1
pdb|3S4S|D Chain D, Crystal Structure Of Cd4 Mutant Bound To Hla-Dr1
pdb|3S5L|A Chain A, Crystal Structure Of Cd4 Mutant Bound To Hla-Dr1
pdb|3S5L|D Chain D, Crystal Structure Of Cd4 Mutant Bound To Hla-Dr1
Length = 182
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 20 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 79
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 80 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 128
>pdb|1BX2|A Chain A, Crystal Structure Of Hla-Dr2 (Dra0101,Drb11501) Complexed
With A Peptide From Human Myelin Basic Protein
pdb|1BX2|D Chain D, Crystal Structure Of Hla-Dr2 (Dra0101,Drb11501) Complexed
With A Peptide From Human Myelin Basic Protein
pdb|1T5W|A Chain A, Hla-Dr1 In Complex With A Synthetic Peptide
(Aaysdqatplllspr)
pdb|1T5W|D Chain D, Hla-Dr1 In Complex With A Synthetic Peptide
(Aaysdqatplllspr)
Length = 180
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 19 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIAVDKANLEIMTKRSNY 78
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 79 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 127
>pdb|2UV3|A Chain A, Structure Of The Signal-Regulatory Protein (Sirp) Alpha
Domain That Binds Cd47.
pdb|2UV3|B Chain B, Structure Of The Signal-Regulatory Protein (Sirp) Alpha
Domain That Binds Cd47.
pdb|2JJS|A Chain A, Structure Of Human Cd47 In Complex With Human Signal
Regulatory Protein (sirp) Alpha
pdb|2JJS|B Chain B, Structure Of Human Cd47 In Complex With Human Signal
Regulatory Protein (sirp) Alpha
pdb|2JJT|A Chain A, Structure Of Human Cd47 In Complex With Human Signal
Regulatory Protein (Sirp) Alpha
pdb|2JJT|B Chain B, Structure Of Human Cd47 In Complex With Human Signal
Regulatory Protein (Sirp) Alpha
Length = 126
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 38/84 (45%), Gaps = 17/84 (20%)
Query: 114 RSIKVHSGDRAGVQCLVTKGDPPLTISWLKNGLP---------------ILSDAEITIRS 158
+S+ V +G+ A + C VT P I W + P + + +E T R
Sbjct: 11 KSVSVAAGESAILHCTVTSLIPVGPIQWFRGAGPARELIYNQKEGHFPRVTTVSESTKRE 70
Query: 159 SGEYTSSLSIATLSTGHSGNYTCV 182
+ ++ S+SI+ ++ +G Y CV
Sbjct: 71 NMDF--SISISNITPADAGTYYCV 92
>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 = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 39/164 (23%), Positives = 66/164 (40%), Gaps = 37/164 (22%)
Query: 14 LQPGPPVSLKCIATGNPTPHIS--WKLDGYPLAGDRFVMGQYM----SLHGDVIS----- 62
++PG + L C +G + W G P G +V G S +GD +
Sbjct: 12 IRPGGSLRLSCKGSGFIFENFGFGWVRQG-PGKGLEWVSGTNWNGGDSRYGDSVKGRFTI 70
Query: 63 ---------HVNISSVRVEDSGIYQC------TATNRVGSQTHSADMRVYDAPGQPQDVK 107
++ ++S+R ED+ IY C T ++ S +D G+ V
Sbjct: 71 SRDNSNNFVYLQMNSLRPEDTAIYYCARGTDYTIDDQGIRYQGSGTFWYFDVWGRGTLVT 130
Query: 108 LVTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+ +++++ S K SG A + CLV P P+T+SW
Sbjct: 131 VSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 174
>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 = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 5/81 (6%)
Query: 63 HVNISSVRVEDSGIYQCTA-TNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSG 121
+ ++S+R ED+ +Y C + T S + V A + V + +S+S SG
Sbjct: 82 FLQMNSLRAEDTAVYYCASLTTGSDSWGQGVLVTVSSASTKGPSVFPLAPSSKST---SG 138
Query: 122 DRAGVQCLVTKGDP-PLTISW 141
A + CLV P P+T+SW
Sbjct: 139 GTAALGCLVKDYFPEPVTVSW 159
>pdb|2JJU|A Chain A, Structure Of Human Signal Regulatory Protein (Sirp) Beta
pdb|2JJU|B Chain B, Structure Of Human Signal Regulatory Protein (Sirp) Beta
Length = 127
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 23/103 (22%), Positives = 47/103 (45%), Gaps = 17/103 (16%)
Query: 104 QDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLTISWLKNG--------------LP-I 148
+D V +S+ V +G+ A ++C +T P I W + P +
Sbjct: 1 EDELQVIQPEKSVSVAAGESATLRCAMTSLIPVGPIMWFRGAGAGRELIYNQKEGHFPRV 60
Query: 149 LSDAEITIRSSGEYTSSLSIATLSTGHSGNYTCVASNTVASDN 191
+ +E+T R++ ++ S+SI+ ++ +G Y CV + D+
Sbjct: 61 TTVSELTKRNNLDF--SISISNITPADAGTYYCVKFRKGSPDD 101
>pdb|3E3Q|D Chain D, Structure Of The 3alpham13 High-Affinity Mutant Of The
2c Tcr In Complex With LdQL9
pdb|3E3Q|C Chain C, Structure Of The 3alpham13 High-Affinity Mutant Of The
2c Tcr In Complex With LdQL9
pdb|3E3Q|DD Chain d, Structure Of The 3alpham13 High-Affinity Mutant Of The
2c Tcr In Complex With LdQL9
pdb|3E3Q|I Chain I, Structure Of The 3alpham13 High-Affinity Mutant Of The
2c Tcr In Complex With LdQL9
pdb|3E3Q|M Chain M, Structure Of The 3alpham13 High-Affinity Mutant Of The
2c Tcr In Complex With LdQL9
pdb|3E3Q|R Chain R, Structure Of The 3alpham13 High-Affinity Mutant Of The
2c Tcr In Complex With LdQL9
pdb|3E3Q|V Chain V, Structure Of The 3alpham13 High-Affinity Mutant Of The
2c Tcr In Complex With LdQL9
pdb|3E3Q|Z Chain Z, Structure Of The 3alpham13 High-Affinity Mutant Of The
2c Tcr In Complex With LdQL9
Length = 109
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 20/88 (22%), Positives = 37/88 (42%), Gaps = 21/88 (23%)
Query: 13 TLQPGPPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVI----------- 61
T+ G + L+C + + TP++ W + YP G + ++ Y GD +
Sbjct: 10 TVSEGASLQLRCKYSYSATPYLFWYVQ-YPRQGPQLLLKYY---SGDPVVQGVNGFEAEF 65
Query: 62 ------SHVNISSVRVEDSGIYQCTATN 83
H+ +SV DS +Y C ++
Sbjct: 66 SKSNSSFHLRKASVHRSDSAVYFCAVSD 93
>pdb|1SMO|A Chain A, Crystal Structure Of Human Triggering Receptor Expressed
On Myeloid Cells 1 (Trem-1) At 1.47 .
pdb|1SMO|B Chain B, Crystal Structure Of Human Triggering Receptor Expressed
On Myeloid Cells 1 (Trem-1) At 1.47
Length = 119
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 13/41 (31%), Positives = 24/41 (58%), Gaps = 3/41 (7%)
Query: 39 DGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIYQC 79
+ +P+ R ++ Y H + V + +++VEDSG+YQC
Sbjct: 56 NSHPVQVGRIILEDY---HDHGLLRVRMVNLQVEDSGLYQC 93
>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 = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 23/113 (20%), Positives = 50/113 (44%), Gaps = 19/113 (16%)
Query: 51 GQYM-SLHGDVISHVNISS----VRVEDSGIYQC---------TATNRVGSQTHSADMRV 96
G++M GD I HV+++ R+E+ G + A ++ + +
Sbjct: 20 GEFMFDFDGDEIFHVDMAKKETVWRLEEFGRFASFEAQGALANIACDKANLEIMTKRSNY 79
Query: 97 YDAPGQPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPPLT-ISWLKNGLPI 148
P +V ++T++ ++ + + C + K PP+ ++WL+NG P+
Sbjct: 80 TPITNVPPEVTVLTNSPVELR----EPNVLICFIDKFTPPVVNVTWLRNGKPV 128
>pdb|1R70|B Chain B, Model Of Human Iga2 Determined By Solution Scattering,
Curve Fitting And Homology Modelling
pdb|1R70|D Chain D, Model Of Human Iga2 Determined By Solution Scattering,
Curve Fitting And Homology Modelling
pdb|3CM9|A Chain A, Solution Structure Of Human Siga2
pdb|3CM9|B Chain B, Solution Structure Of Human Siga2
pdb|3CM9|C Chain C, Solution Structure Of Human Siga2
pdb|3CM9|D Chain D, Solution Structure Of Human Siga2
Length = 462
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 46/94 (48%), Gaps = 16/94 (17%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH-- 119
+++ +SS+R ED+ +Y C G ++ +D GQ V + +++ S KV
Sbjct: 80 AYMGLSSLRPEDTAVYYCARDPYGGGKSE------FDYWGQGTLVTVSSASPTSPKVFPL 133
Query: 120 ---SGDRAG---VQCLVTKGDP--PLTISWLKNG 145
S + G V CLV P PL+++W ++G
Sbjct: 134 SLDSTPQDGNVVVACLVQGFFPQEPLSVTWSESG 167
>pdb|1IGA|A Chain A, Model Of Human Iga1 Determined By Solution Scattering
Curve- Fitting And Homology Modelling
pdb|1IGA|B Chain B, Model Of Human Iga1 Determined By Solution Scattering
Curve- Fitting And Homology Modelling
pdb|2ESG|A Chain A, Solution Structure Of The Complex Between Immunoglobulin
Iga1 And Human Serum Albumin
pdb|2ESG|B Chain B, Solution Structure Of The Complex Between Immunoglobulin
Iga1 And Human Serum Albumin
pdb|2QTJ|A Chain A, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|2QTJ|B Chain B, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|2QTJ|C Chain C, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|2QTJ|D Chain D, Solution Structure Of Human Dimeric Immunoglobulin A
pdb|3CHN|A Chain A, Solution Structure Of Human Secretory Iga1
pdb|3CHN|B Chain B, Solution Structure Of Human Secretory Iga1
pdb|3CHN|D Chain D, Solution Structure Of Human Secretory Iga1
pdb|3CHN|C Chain C, Solution Structure Of Human Secretory Iga1
Length = 475
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/94 (25%), Positives = 43/94 (45%), Gaps = 16/94 (17%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSG 121
+++ +SS+R ED+ +Y C G ++ +D GQ V + +++ S KV
Sbjct: 80 AYMGLSSLRPEDTAVYYCARDPYGGGKSE------FDYWGQGTLVTVSSASPTSPKVFPL 133
Query: 122 DRAGVQ--------CLVTKGDP--PLTISWLKNG 145
Q CLV P PL+++W ++G
Sbjct: 134 SLCSTQPDGNVVIACLVQGFFPQEPLSVTWSESG 167
>pdb|3R1G|H Chain H, Structure Basis Of Allosteric Inhibition Of Bace1 By An
Exosite- Binding Antibody
Length = 222
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 18/90 (20%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ ++S+R ED+ +Y C V D GQ V + +++++
Sbjct: 79 AYLQMNSLRAEDTAVYYCA--------RGPFSPWVMDYWGQGTLVTVSSASTKGPSVFPL 130
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 131 APSSKSTSGGTAALGCLVKDYFPEPVTVSW 160
>pdb|1OP9|A Chain A, Complex Of Human Lysozyme With Camelid Vhh Hl6 Antibody
Fragment
Length = 121
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 26/46 (56%), Gaps = 3/46 (6%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKL 108
++ ++S++ ED+ +Y C AT G D+ +YD GQ +V +
Sbjct: 77 YLQMNSLKPEDTAMYYCAATEVAG---WPLDIGIYDYWGQGTEVTV 119
>pdb|1G1C|A Chain A, I1 Domain From Titin
pdb|1G1C|B Chain B, I1 Domain From Titin
Length = 99
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 23/95 (24%), Positives = 34/95 (35%), Gaps = 5/95 (5%)
Query: 3 PQLIYKFIQQTLQPGPPVSLKCIATGNPTPHISWKLDGYPLA-GDRFVMGQYMSLHGDVI 61
P++ + QT+ G + G P P W +G + DR Y D +
Sbjct: 6 PKIFERIQSQTVGQGSDAHFRVRVVGKPDPECEWYKNGVKIERSDRI----YWYWPEDNV 61
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRV 96
+ I V EDS A N G + A + V
Sbjct: 62 CELVIRDVTGEDSASIMVKAINIAGETSSHAFLLV 96
>pdb|3U82|B Chain B, Binding Of Herpes Simplex Virus Glycoprotein D To Nectin-1
Exploits Host Cell Adhesion
Length = 317
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 41/206 (19%), Positives = 72/206 (34%), Gaps = 47/206 (22%)
Query: 64 VNISSVRVEDSGIYQCT-ATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVHSGD 122
+ +S + +ED G+Y C AT G++ ++ V P + ++ G
Sbjct: 80 IRLSRLELEDEGVYICEFATFPTGNRESQLNLTVMAKP-----TNWIEGTQAVLRAKKGQ 134
Query: 123 RAGV---QCLVTKGDPPLTISWLKNGLPILSDAEITIRSSGEY------------TSSLS 167
V C G PP +SW E ++ EY S
Sbjct: 135 DDKVLVATCTSANGKPPSVVSW-----------ETRLKGEAEYQEIRNPNGTVTVISRYR 183
Query: 168 IATLSTGHSGNYTCVASNTVASDNHSSNLRVNEYTSSLSIATLSTGHSGNY--------- 218
+ H + C+ + + S L V +Y ++I G GN+
Sbjct: 184 LVPSREAHQQSLACIVNYHMDRFKESLTLNV-QYEPEVTIE----GFDGNWYLQRMDVKL 238
Query: 219 TCVA-SNTVASDNHSSNLRVNVPPHI 243
TC A +N A++ H + L ++P +
Sbjct: 239 TCKADANPPATEYHWTTLNGSLPKGV 264
>pdb|3REV|A Chain A, Crystal Structure Of Human Alloreactive Tcr Nb20
Length = 203
Score = 28.5 bits (62), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 35/83 (42%), Gaps = 15/83 (18%)
Query: 11 QQTLQPGPPVSLKCIATGNPTPHISWKLDGYP----------LAGDRFVMGQY---MSLH 57
Q + G P+++KC + + P++ W + YP + GD V G Y +
Sbjct: 9 QVNVAEGNPLTVKCTYSVSGNPYLFWYVQ-YPNRGLQFLLKYITGDNLVKGSYGFEAEFN 67
Query: 58 GDVIS-HVNISSVRVEDSGIYQC 79
S H+ S V DS +Y C
Sbjct: 68 KSQTSFHLKKPSALVSDSALYFC 90
>pdb|4HPY|H Chain H, Crystal Structure Of Rv144-elicited Antibody Ch59 In
Complex With V2 Peptide
Length = 225
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 24/85 (28%), Positives = 40/85 (47%), Gaps = 9/85 (10%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGS-----QTHSADMRVYDAPGQPQDVKLVTSNSRSIK 117
++ ++S+RVED+ +Y C + G + V A + V + +S+S
Sbjct: 80 YLEMNSLRVEDTALYYCAKDSPRGELPLNYWGQGTLVTVSSASTKGPSVFPLAPSSKST- 138
Query: 118 VHSGDRAGVQCLVTKGDP-PLTISW 141
SG A + CLV P P+T+SW
Sbjct: 139 --SGGTAALGCLVKDYFPEPVTVSW 161
>pdb|2ENS|A Chain A, Solution Structure Of The Third Ig-Like Domain From
Human Advanced Glycosylation End Product-Specific
Receptor
Length = 96
Score = 28.5 bits (62), Expect = 4.2, 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|3MFG|B Chain B, Crystal Structure Of Toxic Shock Syndrome Toxin 1 (Tsst-1)
In Complex With The Human T Cell Receptor Beta Chain
Vbeta2.1 (Ep-8)
Length = 118
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 40/84 (47%), Gaps = 11/84 (13%)
Query: 18 PPVSLKCIATGNPTPHISWKLDGYPLAGDRFVMGQYMSLHGDVISHVNISSVRVEDSGIY 77
P SL +AT N +++ + D+F++ + SL +S + ++S EDSG Y
Sbjct: 40 PKQSLMLMATSNEGSKATYEQG---VEKDKFLI-NHASL---TLSTLTVTSAHPEDSGFY 92
Query: 78 QCTATNRVGSQTHSADMRVYDAPG 101
C+A GS T + Y PG
Sbjct: 93 ICSALAGSGSSTDTQ----YFGPG 112
>pdb|1T04|B Chain B, Three Dimensional Structure Of A Humanized Anti-Ifn-Gamma
Fab In C2 Space Group
pdb|1T04|D Chain D, Three Dimensional Structure Of A Humanized Anti-Ifn-Gamma
Fab In C2 Space Group
Length = 219
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 42/90 (46%), Gaps = 20/90 (22%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ +SS+R ED+ +Y C G AD GQ V + +++++
Sbjct: 79 AYMELSSLRSEDTAVYYCAR----GFLPWFADW------GQGTLVTVSSASTKGPSVFPL 128
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 129 APSSKSTSGGTAALGCLVKDYFPEPVTVSW 158
>pdb|3SKJ|H Chain H, Structural And Functional Characterization Of An Agonistic
Anti-Human Epha2 Monoclonal Antibody
pdb|3SKJ|I Chain I, Structural And Functional Characterization Of An Agonistic
Anti-Human Epha2 Monoclonal Antibody
Length = 231
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 11/90 (12%)
Query: 63 HVNISSVRVEDSGIYQCTATNRVGSQTHSAD-MRVYDAPGQPQDVKLVTSNSR------- 114
++ ++S+R ED+ +Y C + A + GQ V + +++++
Sbjct: 80 YLQMNSLRAEDTAVYYCAGYDSGYDYVAVAGPAEYFQHWGQGTLVTVSSASTKGPSVFPL 139
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 140 APSSKSTSGGTAALGCLVKDYFPEPVTVSW 169
>pdb|3SO5|A Chain A, Crystal Structure Of An Immunoglobulin I-Set Domain Of
Lrig3 Protein (Lrig3) From Mus Musculus At 1.70 A
Resolution
pdb|3SO5|B Chain B, Crystal Structure Of An Immunoglobulin I-Set Domain Of
Lrig3 Protein (Lrig3) From Mus Musculus At 1.70 A
Resolution
Length = 112
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 20/62 (32%), Positives = 27/62 (43%), Gaps = 9/62 (14%)
Query: 136 PLTISWLKNGLPILSDAEIT----IRSSG----EYTSSLSIATLSTGHSGNYTCVASNTV 187
P T +W + L DAE +R+ G EYT+ L + + G Y CV SN
Sbjct: 41 PXTFAWXXDN-EALQDAEXENYAHLRAQGGELXEYTTILRLRNVEFTSEGXYQCVISNHF 99
Query: 188 AS 189
S
Sbjct: 100 GS 101
>pdb|1T3F|B Chain B, Three Dimensional Structure Of A Humanized Anti-Ifn-Gamma
Fab (Huzaf) In P21 21 21 Space Group
Length = 220
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 42/90 (46%), Gaps = 20/90 (22%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR------- 114
+++ +SS+R ED+ +Y C G AD GQ V + +++++
Sbjct: 79 AYMELSSLRSEDTAVYYCAR----GFLPWFADW------GQGTLVTVSSASTKGPSVFPL 128
Query: 115 --SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S K SG A + CLV P P+T+SW
Sbjct: 129 APSSKSTSGGTAALGCLVKDYFPEPVTVSW 158
>pdb|2COQ|A Chain A, Structure Of New Antigen Receptor Variable Domain From
Sharks
Length = 108
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/28 (42%), Positives = 16/28 (57%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQT 89
+ + I +RVEDSG Y+C A R T
Sbjct: 66 ASLTIRDLRVEDSGTYKCKAYRRCAFNT 93
>pdb|2FBJ|H Chain H, Refined Crystal Structure Of The Galactan-Binding
Immunoglobulin Fab J539 At 1.95-Angstroms Resolution
Length = 220
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 39/185 (21%), Positives = 74/185 (40%), Gaps = 45/185 (24%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG---------DRFVMG 51
+QPG + L C A+G P + W + +P +G D+F++
Sbjct: 12 VQPGGSLKLSCAASGFDFSKYWMSWVRQAPGKGLEWIGEIHPDSGTINYTPSLKDKFIIS 71
Query: 52 QYMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
+ + + ++ +S VR ED+ +Y C + G + GQ V +
Sbjct: 72 RDNAKNS---LYLQMSKVRSEDTALYYCARLHYYGYNAYW---------GQGTLVTVSAE 119
Query: 112 NSRSIKVH--------SGDRAGVQCLVTKGDPP--LTISWLKNGLPILS-DAEITIRSSG 160
++R+ ++ S D + CL+ P + ++W K+G I + + + S G
Sbjct: 120 SARNPTIYPLTLPPALSSDPVIIGCLIHDYFPSGTMNVTWGKSGKDITTVNFPPALASGG 179
Query: 161 EYTSS 165
YT S
Sbjct: 180 RYTMS 184
>pdb|2QAD|D Chain D, Structure Of Tyrosine-Sulfated 412d Antibody Complexed
With Hiv-1 Yu2 Gp120 And Cd4
pdb|2QAD|H Chain H, Structure Of Tyrosine-Sulfated 412d Antibody Complexed
With Hiv-1 Yu2 Gp120 And Cd4
Length = 231
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 44/98 (44%), Gaps = 13/98 (13%)
Query: 62 SHVNISSVRVEDSGIYQCTA--TNRVGSQTHSADMRVY-DAPGQPQDVKLVTSNSR---- 114
+++ +SS+R ED+ ++ C + N M Y D G+ V + ++++
Sbjct: 79 AYMELSSLRSEDTAVFYCASPYPNDXNDXAPEEGMSWYFDLWGRGTLVTVSPASTKGPSV 138
Query: 115 -----SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 139 FPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 176
>pdb|2YZ8|A Chain A, Crystal Structure Of The 32th Ig-Like Domain Of Human
Obscurin (Kiaa1556)
Length = 103
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 40/88 (45%), Gaps = 11/88 (12%)
Query: 17 GPPVSLKCIATGNPTPHISWKLDGYPLA-GDRFVMGQYMSLHGDVISHVNISSVRVEDSG 75
G +L+C+ + P + W L GD++ + Q G + V + ++R +DSG
Sbjct: 23 GGAATLRCVLSSVAAP-VKWCYGNNVLRPGDKYSLRQ----EGAXLELV-VRNLRPQDSG 76
Query: 76 IYQCTATNRVGSQTHSADMRVYDAPGQP 103
Y C+ G QT SA + V P P
Sbjct: 77 RYSCS----FGDQTTSATLTVTALPSGP 100
>pdb|1RZG|A Chain A, Crystal Structure Of Human Anti-hiv-1 Gp120 Reactive
Antibody 412d
pdb|1RZG|C Chain C, Crystal Structure Of Human Anti-hiv-1 Gp120 Reactive
Antibody 412d
Length = 231
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 44/98 (44%), Gaps = 13/98 (13%)
Query: 62 SHVNISSVRVEDSGIYQCTA--TNRVGSQTHSADMRVY-DAPGQPQDVKLVTSNSR---- 114
+++ +SS+R ED+ ++ C + N M Y D G+ V + ++++
Sbjct: 79 AYMELSSLRSEDTAVFYCASPYPNDXNDYAPEEGMSWYFDLWGRGTLVTVSPASTKGPSV 138
Query: 115 -----SIKVHSGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S K SG A + CLV P P+T+SW L
Sbjct: 139 FPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSWNSGAL 176
>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 = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 33/151 (21%), Positives = 57/151 (37%), Gaps = 24/151 (15%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRFVMGQY---MS 55
+ ++PG V + C ATG P + W + P +G + ++ +
Sbjct: 10 EVMKPGASVKISCKATGYTFSTYWIEWVKQRPGHGLEWIGEILPGSGSTYYNEKFKGKAT 69
Query: 56 LHGDVIS---HVNISSVRVEDSGIYQCT-ATNRVGSQTHSADMRVYDAPGQPQDVKLVTS 111
D S ++ +SS+ EDS +Y C G + V A P V +
Sbjct: 70 FTADTSSNTAYMQLSSLTSEDSAVYYCARGDGNYGYWGQGTTLTVSSASTTPPSVFPLAP 129
Query: 112 NSRSIKVHSGDRAGVQCLVTKGDP-PLTISW 141
S + + + CLV P P+T++W
Sbjct: 130 GSAA---QTNSMVTLGCLVKGYFPEPVTVTW 157
>pdb|3TT1|H Chain H, Crystal Structure Of Leut In The Outward-Open Conformation
In Complex With Fab
pdb|3TT1|I Chain I, Crystal Structure Of Leut In The Outward-Open Conformation
In Complex With Fab
Length = 219
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 37/156 (23%), Positives = 62/156 (39%), Gaps = 35/156 (22%)
Query: 15 QPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRFVMGQY---MSLHG 58
+PG V L C A+G + W + YP G + ++ +L
Sbjct: 13 RPGASVKLSCKASGYTFTDYYINWMKQRTGQGLEWIGEIYPGVGTTYYDEKFKGKATLTA 72
Query: 59 DVIS---HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRS 115
D S ++ +SS+ EDS +Y C +T + D GQ V + ++ + +
Sbjct: 73 DKSSRSAYMQLSSLTSEDSAVYFC------ARRTVTMGRYAMDYWGQGTSVTVSSAKTTA 126
Query: 116 IKVH-----SGDRAG----VQCLVTKGDP-PLTISW 141
V+ GD G + CLV P P+T++W
Sbjct: 127 PSVYPLAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 162
>pdb|1LMK|A Chain A, The Structure Of A Bivalent Diabody
pdb|1LMK|C Chain C, The Structure Of A Bivalent Diabody
pdb|1LMK|E Chain E, The Structure Of A Bivalent Diabody
pdb|1LMK|G Chain G, The Structure Of A Bivalent Diabody
Length = 238
Score = 28.1 bits (61), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 35/78 (44%), Gaps = 15/78 (19%)
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKL----------VT 110
I+++ +SS+ EDS +Y C + + A V D GQ V + +T
Sbjct: 77 IAYMQLSSLTSEDSAVYYCAR-----GEDYYAYWYVLDYWGQGTTVTVSSGGGGSDIELT 131
Query: 111 SNSRSIKVHSGDRAGVQC 128
+ S+ V GD+A + C
Sbjct: 132 QSPLSLPVSLGDQASISC 149
>pdb|2LE9|A Chain A, Ragec2-S100a13 Tetrameric Complex
pdb|2LE9|D Chain D, Ragec2-S100a13 Tetrameric Complex
Length = 93
Score = 28.1 bits (61), Expect = 5.3, 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|1IGF|H Chain H, Crystal Structures Of An Antibody To A Peptide And Its
Complex With Peptide Antigen At 2.8 Angstroms
pdb|2IGF|H Chain H, Crystal Structures Of An Antibody To A Peptide And Its
Complex With Peptide Antigen At 2.8 Angstroms
pdb|1IGF|J Chain J, Crystal Structures Of An Antibody To A Peptide And Its
Complex With Peptide Antigen At 2.8 Angstroms
Length = 221
Score = 28.1 bits (61), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 23/88 (26%), Positives = 40/88 (45%), Gaps = 18/88 (20%)
Query: 64 VNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH---S 120
+ +SS+R ED+ IY CT +S+D +D GQ + + ++ + V+
Sbjct: 81 LQMSSLRSEDTAIYYCTR--------YSSDPFYFDYWGQGTTLTVSSAKTTPPSVYPLAP 132
Query: 121 GDRAGVQCLVTKG-------DPPLTISW 141
G A +VT G P+T++W
Sbjct: 133 GSAAQTNSMVTLGCLVKGYFPEPVTVTW 160
>pdb|1AFV|H Chain H, Hiv-1 Capsid Protein (P24) Complex With Fab25.3
pdb|1AFV|K Chain K, Hiv-1 Capsid Protein (P24) Complex With Fab25.3
Length = 220
Score = 28.1 bits (61), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 36/157 (22%), Positives = 66/157 (42%), Gaps = 36/157 (22%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFVMGQYMS 55
++PG V L C A+G P + W + +P +G ++F ++
Sbjct: 12 VRPGASVKLSCKASGYTFTSSWIHWAKQRPGQGLEWIGEIHPNSGNTNYNEKFKGKATLT 71
Query: 56 LH-GDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSR 114
+ ++V++SS+ EDS +Y C A R GS + +D GQ + + ++ +
Sbjct: 72 VDTSSSTAYVDLSSLTSEDSAVYYC-ARWRYGSPYY------FDYWGQGTTLTVSSAKTT 124
Query: 115 SIKVH---SGDRAGVQCLVTKG-------DPPLTISW 141
V+ G A +VT G P+T++W
Sbjct: 125 PPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTW 161
>pdb|1DD1|A Chain A, Crystal Structure Analysis Of The Smad4 Active Fragment
pdb|1DD1|B Chain B, Crystal Structure Analysis Of The Smad4 Active Fragment
pdb|1DD1|C Chain C, Crystal Structure Analysis Of The Smad4 Active Fragment
Length = 268
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 10/74 (13%)
Query: 38 LDGY--PLAGDRFVMGQYMSLHG-DVISHVNI---SSVRVEDSG----IYQCTATNRVGS 87
+DGY P GDRF +GQ ++H + I + V++E G +C + + V
Sbjct: 66 VDGYVDPSGGDRFCLGQLSNVHRTEAIERARLHIGKGVQLECKGEGDVWVRCLSDHAVFV 125
Query: 88 QTHSADMRVYDAPG 101
Q++ D APG
Sbjct: 126 QSYYLDREAGRAPG 139
>pdb|1G88|A Chain A, S4afl3arg515 Mutant
pdb|1G88|B Chain B, S4afl3arg515 Mutant
pdb|1G88|C Chain C, S4afl3arg515 Mutant
Length = 268
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 10/74 (13%)
Query: 38 LDGY--PLAGDRFVMGQYMSLHG-DVISHVNI---SSVRVEDSG----IYQCTATNRVGS 87
+DGY P GDRF +GQ ++H + I + V++E G +C + + V
Sbjct: 66 VDGYVDPSGGDRFCLGQLSNVHRTEAIERARLHIGKGVQLECKGEGDVWVRCLSDHAVFV 125
Query: 88 QTHSADMRVYDAPG 101
Q++ D APG
Sbjct: 126 QSYYLDREAGRAPG 139
>pdb|3S35|X Chain X, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
pdb|3S36|X Chain X, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
pdb|3S37|X Chain X, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
Length = 122
Score = 28.1 bits (61), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 12/41 (29%), Positives = 24/41 (58%)
Query: 60 VISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAP 100
+S + I V D G+Y C A++ + ++ +S +RV++ P
Sbjct: 72 FLSTLTIDGVTRSDQGLYTCAASSGLMTKKNSTFVRVHEKP 112
>pdb|1H0D|B Chain B, Crystal Structure Of Human Angiogenin In Complex With Fab
Fragment Of Its Monoclonal Antibody Mab 26-2f
Length = 223
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 36/158 (22%), Positives = 66/158 (41%), Gaps = 37/158 (23%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAGDRF----VMGQYMSL 56
++PG + L C A+G P + W G+ + V G++ ++
Sbjct: 12 VKPGGSLKLSCAASGFTFSSYTMSWVRQTPEKRLEWVATISSGGGNTYYPDSVKGRF-TI 70
Query: 57 HGDVIS---HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNS 113
D+ ++ +SS+R ED+ +Y CT R+G ++ M D GQ V + ++ +
Sbjct: 71 SRDIAKNTLYLQMSSLRSEDTALYYCT---RLGDYGYAYTM---DYWGQGTSVTVSSAKT 124
Query: 114 RSIKVH---------SGDRAGVQCLVTKGDP-PLTISW 141
V+ G + CLV P P+T++W
Sbjct: 125 TPPSVYPLAPGGGGGGGAMVTLGCLVKGYFPEPVTVTW 162
>pdb|1U7V|B Chain B, Crystal Structure Of The Phosphorylated Smad2SMAD4
Heterotrimeric Complex
Length = 236
Score = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 10/74 (13%)
Query: 38 LDGY--PLAGDRFVMGQYMSLHG-DVISHVNI---SSVRVEDSG----IYQCTATNRVGS 87
+DGY P GDRF +GQ ++H + I + V++E G +C + + V
Sbjct: 37 VDGYVDPSGGDRFCLGQLSNVHRTEAIERARLHIGKGVQLECKGEGDVWVRCLSDHAVFV 96
Query: 88 QTHSADMRVYDAPG 101
Q++ D APG
Sbjct: 97 QSYYLDREAGRAPG 110
>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 = 28.1 bits (61), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 40/159 (25%), Positives = 65/159 (40%), Gaps = 43/159 (27%)
Query: 14 LQPGPPVSLKCIATGN--PTPHISWKLDGYPLAGDRFVMGQYMSLHGDV----------- 60
+ PG PV L C+A+G + I+W + P G ++ G+ G+V
Sbjct: 12 VMPGAPVKLSCLASGYIFTSSWINW-VKQRPGRGLEWI-GRIDPSDGEVHYNQDFKDKAT 69
Query: 61 --------ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+++ ++S+ EDS +Y C G AD GQ V + ++
Sbjct: 70 LTVDKSSSTAYIQLNSLTSEDSAVYYCAR----GFLPWFADW------GQGTLVTVSAAS 119
Query: 113 SR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
++ S K SG A + CLV P P+T+SW
Sbjct: 120 TKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 158
>pdb|1U7F|B Chain B, Crystal Structure Of The Phosphorylated Smad3SMAD4
Heterotrimeric Complex
Length = 239
Score = 28.1 bits (61), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 10/74 (13%)
Query: 38 LDGY--PLAGDRFVMGQYMSLHG-DVISHVNI---SSVRVEDSG----IYQCTATNRVGS 87
+DGY P GDRF +GQ ++H + I + V++E G +C + + V
Sbjct: 37 VDGYVDPSGGDRFCLGQLSNVHRTEAIERARLHIGKGVQLECKGEGDVWVRCLSDHAVFV 96
Query: 88 QTHSADMRVYDAPG 101
Q++ D APG
Sbjct: 97 QSYYLDREAGRAPG 110
>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 = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 64/152 (42%), Gaps = 28/152 (18%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISW--KLDGYPLAGDRFVMGQYM-- 54
+ ++PG V L C A+G P + W ++D P G+ ++
Sbjct: 10 ELVKPGASVKLSCTASGFNIKDTYMHWVKQRPEQGLEWIGRID--PANGNTKYDPKFQGK 67
Query: 55 -SLHGDVIS---HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVT 110
++ D S ++ +SS+ ED+ +Y C + + + V A + V +
Sbjct: 68 ATITADTSSNTAYLQLSSLTSEDTAVYYCASYYGI-YWGQGTTLTVSSASTKGPSVFPLA 126
Query: 111 SNSRSIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+S+S SG A + CLV P P+T+SW
Sbjct: 127 PSSKST---SGGTAALGCLVKDYFPEPVTVSW 155
>pdb|1JV5|B Chain B, Anti-Blood Group A Fv
Length = 117
Score = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 38/87 (43%), Gaps = 19/87 (21%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFVMGQY 53
+ ++PG V L C A+G P + W D YP +G ++F
Sbjct: 10 ELVKPGTSVKLSCKASGYNFTSYWINWVKLRPGQGLEWIGDIYPGSGITNYNEKFKSKAT 69
Query: 54 MSLH-GDVISHVNISSVRVEDSGIYQC 79
+++ +++ +SS+ EDS +Y C
Sbjct: 70 LTVDTSSSTAYMQLSSLASEDSALYYC 96
>pdb|1YGS|A Chain A, Crystal Structure Of The Smad4 Tumor Suppressor C-Terminal
Domain
Length = 234
Score = 28.1 bits (61), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 10/74 (13%)
Query: 38 LDGY--PLAGDRFVMGQYMSLHG-DVISHVNI---SSVRVEDSG----IYQCTATNRVGS 87
+DGY P GDRF +GQ ++H + I + V++E G +C + + V
Sbjct: 32 VDGYVDPSGGDRFCLGQLSNVHRTEAIERARLHIGKGVQLECKGEGDVWVRCLSDHAVFV 91
Query: 88 QTHSADMRVYDAPG 101
Q++ D APG
Sbjct: 92 QSYYLDREAGRAPG 105
>pdb|1MR1|A Chain A, Crystal Structure Of A Smad4-Ski Complex
pdb|1MR1|B Chain B, Crystal Structure Of A Smad4-Ski Complex
Length = 235
Score = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 35/74 (47%), Gaps = 10/74 (13%)
Query: 38 LDGY--PLAGDRFVMGQYMSLHG-DVISHVNI---SSVRVEDSG----IYQCTATNRVGS 87
+DGY P GDRF +GQ ++H + I + V++E G +C + + V
Sbjct: 33 VDGYVDPSGGDRFCLGQLSNVHRTEAIERARLHIGKGVQLECKGEGDVWVRCLSDHAVFV 92
Query: 88 QTHSADMRVYDAPG 101
Q++ D APG
Sbjct: 93 QSYYLDREAGRAPG 106
>pdb|2V17|H Chain H, Structure Of The Complex Of Antibody Mn423 With A Fragment
Of Tau Protein
Length = 222
Score = 28.1 bits (61), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 37/98 (37%), Gaps = 21/98 (21%)
Query: 15 QPGPPVSLKCIATGN-------------PTPHISW------KLDGYPLAGDRFVMGQYM- 54
Q G +SL C A+G P + W K GY V G++
Sbjct: 13 QSGGSLSLSCAASGFTFTDYYMSWVRQPPGKALEWLALIRNKAKGYTTEYSASVKGRFTI 72
Query: 55 -SLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHS 91
+ I ++ ++++R EDS IY C N T +
Sbjct: 73 SRDNSQSILYLQMNALRAEDSAIYYCARDNGAARATFA 110
>pdb|1K4D|B Chain B, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
K+
pdb|1K4C|B Chain B, Potassium Channel Kcsa-Fab Complex In High Concentration
Of K+
pdb|1R3I|L Chain L, Potassium Channel Kcsa-Fab Complex In Rb+
pdb|1R3J|A Chain A, Potassium Channel Kcsa-Fab Complex In High Concentration
Of Tl+
pdb|1R3K|A Chain A, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
Tl+
pdb|1R3L|A Chain A, Potassium Channel Kcsa-Fab Complex In Cs+
pdb|1S5H|A Chain A, Potassium Channel Kcsa-Fab Complex T75c Mutant In K+
pdb|2BOB|B Chain B, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetrabutylammonium (Tba)
pdb|2BOC|B Chain B, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetraethylarsonium (Teas)
pdb|1ZWI|B Chain B, Structure Of Mutant Kcsa Potassium Channel
pdb|2ATK|B Chain B, Structure Of A Mutant Kcsa K+ Channel
pdb|2H8P|B Chain B, Structure Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HG5|B Chain B, Cs+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HJF|B Chain B, Potassium Channel Kcsa-Fab Complex With Tetrabutylammonium
(Tba)
pdb|2IH1|B Chain B, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2IH3|B Chain B, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2DWD|B Chain B, Crystal Structure Of Kcsa-Fab-Tba Complex In Tl+
pdb|2DWE|B Chain B, Crystal Structure Of Kcsa-Fab-Tba Complex In Rb+
pdb|2HVJ|B Chain B, Crystal Structure Of Kcsa-fab-tba Complex In Low K+
pdb|2HVK|B Chain B, Crystal Structure Of The Kcsa-Fab-Tba Complex In High K+
pdb|2ITC|B Chain B, Potassium Channel Kcsa-Fab Complex In Sodium Chloride
pdb|2ITD|B Chain B, Potassium Channel Kcsa-Fab Complex In Barium Chloride
pdb|2NLJ|A Chain A, Potassium Channel Kcsa(M96v)-Fab Complex In Kcl
pdb|2P7T|B Chain B, Crystal Structure Of Kcsa Mutant
pdb|2JK5|B Chain B, Potassium Channel Kcsa In Complex With Tetrabutylammonium
In High K
pdb|2W0F|B Chain B, Potassium Channel Kcsa-Fab Complex With Tetraoctylammonium
pdb|3GB7|B Chain B, Potassium Channel Kcsa-Fab Complex In Li+
pdb|3IGA|B Chain B, Potassium Channel Kcsa-Fab Complex In Li+ And K+
pdb|3F5W|B Chain B, Kcsa Potassium Channel In The Open-Inactivated State With
32 A Opening At T112
pdb|3F7V|B Chain B, Kcsa Potassium Channel In The Open-Inactivated State With
23 A Opening At T112
pdb|3F7Y|B Chain B, Kcsa Potassium Channel In The Partially Open State With 17
A Opening At T112
pdb|3FB5|B Chain B, Kcsa Potassium Channel In The Partially Open State With
14.5 A Opening At T112
pdb|3FB6|B Chain B, Kcsa Potassium Channel In The Partially Open State With 16
A Opening At T112
pdb|3FB8|B Chain B, Kcsa Potassium Channel In The Open-Conductive State With
20 At T112 In The Presence Of Rb+ Ion
pdb|3HPL|B Chain B, Kcsa E71h-F103a Mutant In The Closed State
pdb|3FB7|B Chain B, Open Kcsa Potassium Channel In The Presence Of Rb+ Ion
pdb|3OR6|B Chain B, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71q
pdb|3OR7|B Chain B, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71i
pdb|3OGC|B Chain B, Kcsa E71a Variant In Presence Of Na+
pdb|3STL|B Chain B, Kcsa Potassium Channel Mutant Y82c With Cadmium Bound
pdb|3STZ|B Chain B, Kcsa Potassium Channel Mutant Y82c With Nitroxide Spin
Label
Length = 212
Score = 28.1 bits (61), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 34/71 (47%)
Query: 202 TSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVPPHIGPFTFGELMEGVRTQVAC 261
T S +I ++S G +++C AS ++ +D H R N P + E + G+ ++ +
Sbjct: 5 TQSPAILSVSPGERVSFSCRASQSIGTDIHWYQQRTNGSPRLLIKYASESISGIPSRFSG 64
Query: 262 VVQSGDLPLSL 272
D LS+
Sbjct: 65 SGSGTDFTLSI 75
>pdb|3U36|H Chain H, Crystal Structure Of Pg9 Fab
pdb|3U36|A Chain A, Crystal Structure Of Pg9 Fab
pdb|3U36|C Chain C, Crystal Structure Of Pg9 Fab
pdb|3U36|E Chain E, Crystal Structure Of Pg9 Fab
Length = 248
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 41/170 (24%), Positives = 65/170 (38%), Gaps = 45/170 (26%)
Query: 14 LQPGPPVSLKCIATG-------------NPTPHISW----KLDGYPLAGDRFVMGQYMSL 56
+QPG + L C A+G P + W K DG V G+ +S+
Sbjct: 11 VQPGSSLRLSCAASGFDFSRQGMHWVRQAPGQGLEWVAFIKYDGSEKYHADSVWGR-LSI 69
Query: 57 HGDVIS---HVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVY------------DAPG 101
D ++ ++S+RVED+ Y C G + Y D G
Sbjct: 70 SRDNSKDTLYLQMNSLRVEDTATYFC--VREAGGPDYRNGYNYYDFYDGYYNYHYMDVWG 127
Query: 102 QPQDVKLVTSNSR---------SIKVHSGDRAGVQCLVTKGDP-PLTISW 141
+ V + +++++ S K SG A + CLV P P+T+SW
Sbjct: 128 KGTTVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW 177
>pdb|2HFE|B Chain B, Rb+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
Length = 211
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 34/71 (47%)
Query: 202 TSSLSIATLSTGHSGNYTCVASNTVASDNHSSNLRVNVPPHIGPFTFGELMEGVRTQVAC 261
T S +I ++S G +++C AS ++ +D H R N P + E + G+ ++ +
Sbjct: 5 TQSPAILSVSPGERVSFSCRASQSIGTDIHWYQQRTNGSPRLLIKYASESISGIPSRFSG 64
Query: 262 VVQSGDLPLSL 272
D LS+
Sbjct: 65 SGSGTDFTLSI 75
>pdb|1YQV|H Chain H, The Crystal Structure Of The Antibody Fab Hyhel5 Complex
With Lysozyme At 1.7a Resolution
Length = 215
Score = 27.7 bits (60), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 34/161 (21%), Positives = 61/161 (37%), Gaps = 44/161 (27%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFV-MGQ 52
+ ++PG V + C A+G P + W + P +G +RF
Sbjct: 10 ELMKPGASVKISCKASGYTFSDYWIEWVKQRPGHGLEWIGEILPGSGSTNYHERFKGKAT 69
Query: 53 YMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ + +++ ++S+ EDSG+Y C N YD G Q L S+
Sbjct: 70 FTADTSSSTAYMQLNSLTSEDSGVYYCLHGN-------------YDFDGWGQGTTLTVSS 116
Query: 113 SRS-----IKVHSGDRAGVQCLVTKG-------DPPLTISW 141
+++ + G A +VT G P+T++W
Sbjct: 117 AKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTW 157
>pdb|3R4C|A Chain A, Divergence Of Structure And Function Among Phosphatases
Of The Haloalkanoate (Had) Enzyme Superfamily: Analysis
Of Bt1666 From Bacteroides Thetaiotaomicron
Length = 268
Score = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 24/51 (47%), Gaps = 1/51 (1%)
Query: 49 VMGQYMSLHGDVISHVNISSVR-VEDSGIYQCTATNRVGSQTHSADMRVYD 98
V G +S +S +I +++ V DSGI AT R S H D YD
Sbjct: 19 VDGTLLSFETHKVSQSSIDALKKVHDSGIKIVIATGRAASDLHEIDAVPYD 69
>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 = 27.7 bits (60), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 22/88 (25%), Positives = 35/88 (39%), Gaps = 21/88 (23%)
Query: 14 LQPGPPVSLKCIATGN-------------PTPHISW------KLDGYPLAGDRFVMGQYM 54
+QPG + L C +G P + W K DGY V G++
Sbjct: 12 VQPGGSLRLSCATSGFTFTDYYMSWVRQPPGKALEWLGFIRNKADGYTTEYSASVKGRFT 71
Query: 55 --SLHGDVISHVNISSVRVEDSGIYQCT 80
+ I ++ ++++R EDS Y CT
Sbjct: 72 ISRDNSQSILYLQMNTLRAEDSATYYCT 99
>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 = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 34/161 (21%), Positives = 61/161 (37%), Gaps = 44/161 (27%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFV-MGQ 52
+ ++PG V + C A+G P + W + P +G +RF
Sbjct: 10 ELMKPGASVKISCKASGYTFSDYWIEWVKQRPGHGLEWIGEILPGSGSTNYHERFKGKAT 69
Query: 53 YMSLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+ + +++ ++S+ EDSG+Y C N YD G Q L S+
Sbjct: 70 FTADTSSSTAYMQLNSLTSEDSGVYYCLHGN-------------YDFDGWGQGTTLTVSS 116
Query: 113 SRS-----IKVHSGDRAGVQCLVTKG-------DPPLTISW 141
+++ + G A +VT G P+T++W
Sbjct: 117 AKTTPPSVYPLAPGSAAQTNSMVTLGCLVKGYFPEPVTVTW 157
>pdb|1MJ8|H Chain H, High Resolution Crystal Structure Of The Fab Fragment Of
The Esterolytic Antibody Ms6-126
Length = 230
Score = 27.7 bits (60), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 36/157 (22%), Positives = 65/157 (41%), Gaps = 33/157 (21%)
Query: 12 QTLQPGPPVSLKCIATG-------------NPTPHISWKLDGYPLAG-----DRFVMGQY 53
+ ++PG V L C A+G P + W + YP +G +RF
Sbjct: 10 ELVKPGASVKLSCKASGYTFTSNWINWVKQRPGQGLEWIGNIYPGSGYTNYNERFKSKAT 69
Query: 54 MSLH-GDVISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSN 112
+++ +++ +SS+ +DS +Y C + + D VY G V +
Sbjct: 70 LTVDTSSSTAYMQLSSLTSDDSAVYYC------ARKHYFYDGVVYWGQGTLVTVSAAKTT 123
Query: 113 SRSIKVHS---GDRAG----VQCLVTKGDP-PLTISW 141
+ S+ + GD +G + CLV P P+T++W
Sbjct: 124 APSVYPLAPVCGDTSGSSVTLGCLVKGYFPEPVTLTW 160
>pdb|3EO1|B Chain B, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|E Chain E, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|H Chain H, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
pdb|3EO1|K Chain K, Structure Of The Fab Fragment Of Gc-1008 In Complex With
Transforming Growth Factor-Beta 3
Length = 225
Score = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 17/95 (17%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH-- 119
+++ +SS+R ED+ +Y C +T + + D GQ V + +++++ V
Sbjct: 79 TYMELSSLRSEDTAVYYCASTLGL-------VLDAMDYWGQGTLVTVSSASTKGPSVFPL 131
Query: 120 -------SGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S A + CLV P P+T+SW L
Sbjct: 132 APCSRSTSESTAALGCLVKDYFPEPVTVSWNSGAL 166
>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 = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 24/98 (24%), Positives = 37/98 (37%), Gaps = 21/98 (21%)
Query: 15 QPGPPVSLKCIATGN-------------PTPHISW------KLDGYPLAGDRFVMGQYM- 54
Q G +SL C A+G P + W K GY V G++
Sbjct: 13 QSGGSLSLSCAASGFTFTDYYMSWVRQPPGKALEWLALIRNKAKGYTTEYSASVKGRFTI 72
Query: 55 -SLHGDVISHVNISSVRVEDSGIYQCTATNRVGSQTHS 91
+ I ++ ++++R EDS IY C N T +
Sbjct: 73 SRDNSQSILYLQMNALRAEDSAIYYCARDNGAARATFA 110
>pdb|3EO0|B Chain B, Structure Of The Transforming Growth Factor-Beta
Neutralizing Antibody Gc-1008
pdb|3EO0|D Chain D, Structure Of The Transforming Growth Factor-Beta
Neutralizing Antibody Gc-1008
Length = 225
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 43/95 (45%), Gaps = 17/95 (17%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH-- 119
+++ +SS+R ED+ +Y C +T + + D GQ V + +++++ V
Sbjct: 79 TYMELSSLRSEDTAVYYCASTLGL-------VLDAMDYWGQGTLVTVSSASTKGPSVFPL 131
Query: 120 -------SGDRAGVQCLVTKGDP-PLTISWLKNGL 146
S A + CLV P P+T+SW L
Sbjct: 132 APCSRSTSESTAALGCLVKDYFPEPVTVSWNSGAL 166
>pdb|3V0V|H Chain H, Fab Wn1 222-5 Unliganded
pdb|3V0V|A Chain A, Fab Wn1 222-5 Unliganded
Length = 220
Score = 27.7 bits (60), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 39/91 (42%), Gaps = 19/91 (20%)
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH- 119
I H+ ++++R EDS Y C R D GQ V + ++ + + V+
Sbjct: 80 ILHLQMNALRTEDSATYYCVRQGR---------GYTLDYWGQGTSVTVSSAKTTAPSVYP 130
Query: 120 ----SGDRAG----VQCLVTKGDP-PLTISW 141
GD G + CLV P P+T++W
Sbjct: 131 LAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 161
>pdb|2H3N|B Chain B, Crystal Structure Of A Surrogate Light Chain (Lambda5 And
Vpreb) Homodimer
pdb|2H3N|D Chain D, Crystal Structure Of A Surrogate Light Chain (Lambda5 And
Vpreb) Homodimer
Length = 117
Score = 27.7 bits (60), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 41/86 (47%), Gaps = 6/86 (6%)
Query: 102 QPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPP-LTISWLKNGLPILSDAEITI---R 157
QP+ VT S + ++A + CL+ P LT++W +G PI E+T +
Sbjct: 16 QPKATPSVTLFPPSSEELQANKATLVCLMNDFYPGILTVTWKADGTPITQGVEMTTPSKQ 75
Query: 158 SSGEYTSS--LSIATLSTGHSGNYTC 181
S+ +Y +S LS+ +Y+C
Sbjct: 76 SNNKYAASSYLSLTPEQWRSRRSYSC 101
>pdb|3V0W|H Chain H, Crystal Structure Of Fab Wn1 222-5 In Complex With Lps
Length = 219
Score = 27.7 bits (60), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 39/91 (42%), Gaps = 19/91 (20%)
Query: 61 ISHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH- 119
I H+ ++++R EDS Y C R D GQ V + ++ + + V+
Sbjct: 80 ILHLQMNALRTEDSATYYCVRQGR---------GYTLDYWGQGTSVTVSSAKTTAPSVYP 130
Query: 120 ----SGDRAG----VQCLVTKGDP-PLTISW 141
GD G + CLV P P+T++W
Sbjct: 131 LAPVCGDTTGSSVTLGCLVKGYFPEPVTLTW 161
>pdb|1RIH|L Chain L, Crystal Structure Of Fab 14f7, A Unique Anti-Tumor
Antibody Specific For N-Glycolyl Gm3
Length = 214
Score = 27.3 bits (59), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 11/21 (52%), Positives = 15/21 (71%)
Query: 64 VNISSVRVEDSGIYQCTATNR 84
++ISSV ED G+Y C +NR
Sbjct: 73 LSISSVETEDFGMYFCQQSNR 93
>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 = 27.3 bits (59), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 43/90 (47%), Gaps = 16/90 (17%)
Query: 62 SHVNISSVRVEDSGIYQCTATNRVGSQTHSADMRVYDAPGQPQDVKLVTSNSRSIKVH-- 119
+++ +SS+ EDS +Y CT R G +R D GQ V + ++ + + V+
Sbjct: 79 AYMELSSLTNEDSAVYFCT---REGIPQL---LRTLDYWGQGTSVTVSSAKTTAPSVYPL 132
Query: 120 ---SGDRAG----VQCLVTKGDP-PLTISW 141
GD G + CLV P P+T++W
Sbjct: 133 APVCGDTTGSSVTLGCLVKGYFPEPVTLTW 162
>pdb|2H32|B Chain B, Crystal Structure Of The Pre-B Cell Receptor
Length = 121
Score = 27.3 bits (59), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 24/86 (27%), Positives = 41/86 (47%), Gaps = 6/86 (6%)
Query: 102 QPQDVKLVTSNSRSIKVHSGDRAGVQCLVTKGDPP-LTISWLKNGLPILSDAEITI---R 157
QP+ VT S + ++A + CL+ P LT++W +G PI E+T +
Sbjct: 17 QPKATPSVTLFPPSSEELQANKATLVCLMNDFYPGILTVTWKADGTPITQGVEMTTPSKQ 76
Query: 158 SSGEYTSS--LSIATLSTGHSGNYTC 181
S+ +Y +S LS+ +Y+C
Sbjct: 77 SNNKYAASSYLSLTPEQWRSRRSYSC 102
>pdb|1R5I|A Chain A, Crystal Structure Of The Mam-Mhc Complex
pdb|1R5I|E Chain E, Crystal Structure Of The Mam-Mhc Complex
Length = 181
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 128 CLVTKGDPPLT-ISWLKNGLPI 148
C + K PP+ ++WL+NG P+
Sbjct: 107 CFIDKFTPPVVNVTWLRNGKPV 128
>pdb|2OJE|A Chain A, Mycoplasma Arthritidis-Derived Mitogen Complexed With
Class Ii Mhc Molecule Hla-Dr1HA COMPLEX IN THE PRESENCE
OF EDTA
pdb|2OJE|E Chain E, Mycoplasma Arthritidis-Derived Mitogen Complexed With
Class Ii Mhc Molecule Hla-Dr1HA COMPLEX IN THE PRESENCE
OF EDTA
Length = 180
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 128 CLVTKGDPPLT-ISWLKNGLPI 148
C + K PP+ ++WL+NG P+
Sbjct: 106 CFIDKFTPPVVNVTWLRNGKPV 127
>pdb|2ICW|A Chain A, Crystal Structure Of A Complete Ternary Complex Between
Tcr, Superantigen, And Peptide-Mhc Class Ii Molecule
pdb|2ICW|D Chain D, Crystal Structure Of A Complete Ternary Complex Between
Tcr, Superantigen, And Peptide-Mhc Class Ii Molecule
Length = 179
Score = 27.3 bits (59), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 9/22 (40%), Positives = 15/22 (68%), Gaps = 1/22 (4%)
Query: 128 CLVTKGDPPLT-ISWLKNGLPI 148
C + K PP+ ++WL+NG P+
Sbjct: 105 CFIDKFTPPVVNVTWLRNGKPV 126
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
0.314 0.129 0.384
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,911,870
Number of Sequences: 62578
Number of extensions: 358713
Number of successful extensions: 2546
Number of sequences better than 100.0: 681
Number of HSP's better than 100.0 without gapping: 130
Number of HSP's successfully gapped in prelim test: 551
Number of HSP's that attempted gapping in prelim test: 1780
Number of HSP's gapped (non-prelim): 1028
length of query: 291
length of database: 14,973,337
effective HSP length: 98
effective length of query: 193
effective length of database: 8,840,693
effective search space: 1706253749
effective search space used: 1706253749
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 51 (24.3 bits)