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= psy8823
(386 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2OM5|A Chain A, N-Terminal Fragment Of Human Tax1
Length = 381
Score = 76.3 bits (186), Expect = 3e-14, Method: Compositional matrix adjust.
Identities = 67/249 (26%), Positives = 110/249 (44%), Gaps = 36/249 (14%)
Query: 88 RYDTASSTYTLLVKDIQETDAGYYRCQVIIGIN-------NKIS----AEVDLQVRRPPV 136
R+ + +T L + +D G Y C ++ +K + A D ++ P +
Sbjct: 149 RHFVSQTTGNLYIARTNASDLGNYSCLATSHMDFSTKSVFSKFAQLNLAAEDTRLFAPSI 208
Query: 137 ISD--NSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQI 194
+ T +LV GQ V LECFA G+P PRI WR+ + ++ P + L+IP +
Sbjct: 209 KARFPAETYALV---GQQVTLECFAFGNPVPRIKWRKVDGSLSPQWTTAE--PTLQIPSV 263
Query: 195 TKEDRGTYYCVAENGVGKGT---RRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEA 251
+ ED GTY C AEN G+ T R + + E+ VI+ + +G L++ C
Sbjct: 264 SFEDEGTYECEAENSKGRDTVQGRIIVQAQPEWLKVISDTEADIGSNLRWG----CAAAG 319
Query: 252 YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKL 311
P P + W++ + + + + N+ E +R + G Y C A NK
Sbjct: 320 KPRPTVRWLR-NGEPLASQNRV----------EVLAGDLRFSKLSLEDSGMYQCVAENKH 368
Query: 312 GTSEKTVEL 320
GT + EL
Sbjct: 369 GTIYASAEL 377
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 60/233 (25%), Positives = 89/233 (38%), Gaps = 33/233 (14%)
Query: 98 LLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLEC 157
+++ + DAG Y+C + +S E L+ S + EG V L C
Sbjct: 63 VIMNPTKAQDAGVYQCLASNPVGTVVSREAILRFGFLQEFSKEERDPVKAHEGWGVMLPC 122
Query: 158 FAGGHPTPRISWR---RENNAILPTGGSIYRGSI---LKIPQITKEDRGTYYCVAENGVG 211
H P +S+R E +PT G + L I + D G Y C+A + +
Sbjct: 123 NPPAH-YPGLSYRWLLNEFPNFIPTDGRHFVSQTTGNLYIARTNASDLGNYSCLATSHMD 181
Query: 212 KGTRR--------NIAVEVE--FAPVITVPKPRLGQAL-QYDMDLECHVEAYPPPAIVWI 260
T+ N+A E FAP I P AL + LEC P P I W
Sbjct: 182 FSTKSVFSKFAQLNLAAEDTRLFAPSIKARFPAETYALVGQQVTLECFAFGNPVPRIKWR 241
Query: 261 KEDTQQVLTNNQHYSIS-HFATADEFTDTTIRVITIEKRQYGSYICRAANKLG 312
K D S+S + TA + T+++ ++ G+Y C A N G
Sbjct: 242 KVDG----------SLSPQWTTA----EPTLQIPSVSFEDEGTYECEAENSKG 280
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 44/191 (23%), Positives = 72/191 (37%), Gaps = 14/191 (7%)
Query: 135 PVISDNSTRSLVVSEG--QPVQLECFAGGHPTPRISWRRENNAILPTGGSIYR--GSILK 190
PV D L E + V L C A P W+ + GS ++ G L
Sbjct: 4 PVFEDQPLSVLFPEESTEEQVLLACRARASPPATYRWKMNGTEMKLEPGSRHQLVGGNLV 63
Query: 191 IPQITK-EDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQ-YDMDLECH 248
I TK +D G Y C+A N VG R + F + + +A + + + L C+
Sbjct: 64 IMNPTKAQDAGVYQCLASNPVGTVVSREAILRFGFLQEFSKEERDPVKAHEGWGVMLPCN 123
Query: 249 VEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRA 307
A YP + W+ + + + + +S T + + G+Y C A
Sbjct: 124 PPAHYPGLSYRWLLNEFPNFIPTDGRHFVSQ-------TTGNLYIARTNASDLGNYSCLA 176
Query: 308 ANKLGTSEKTV 318
+ + S K+V
Sbjct: 177 TSHMDFSTKSV 187
>pdb|3LAF|A Chain A, Structure Of Dcc, A Netrin-1 Receptor
Length = 403
Score = 75.5 bits (184), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 73/298 (24%), Positives = 118/298 (39%), Gaps = 48/298 (16%)
Query: 38 IGGTVELKCSVQYAQDYPVI-WMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTY 96
+G TV LKC V P I W K ++ P+P DSR + A
Sbjct: 135 MGDTVLLKCEV-IGDPMPTIHWQKNQQD--LNPIP---------GDSRVVVLPSGA---- 178
Query: 97 TLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDN-----STRSLVVSEGQ 151
L + +Q D+G YRC + + E ++++ P + +++ EG+
Sbjct: 179 -LQISRLQPGDSGVYRCSARNPASTRTGNEAEVRILSDPGLHRQLYFLQRPSNVIAIEGK 237
Query: 152 PVQLECFAGGHPTPRISWRRENNAILPTGG--SIYRGSILKIPQITKEDRGTYYCVAENG 209
LEC G+P P +W R I S+ GS L I +T +D GTY CV
Sbjct: 238 DAVLECCVSGYPPPSFTWLRGEEVIQLRSKKYSLLGGSNLLISNVTDDDSGTYTCVV--- 294
Query: 210 VGKGTRRNIAVEVEFAPVITVPKPRLGQALQ------YDMDLECHVEAYPPPAIVWIKED 263
T +N + + VP L D++ EC V P P + W+K
Sbjct: 295 ----TYKNENISASAELTVLVPPWFLNHPSNLYAYESMDIEFECAVSGKPVPTVNWMKNG 350
Query: 264 TQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVELF 321
V+ + ++ I + +R++ + K G Y C A N+ G ++ + +L
Sbjct: 351 --DVVIPSDYFQI--------VGGSNLRILGVVKSDEGFYQCVAENEAGNAQSSAQLI 398
Score = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 44/138 (31%), Positives = 66/138 (47%), Gaps = 12/138 (8%)
Query: 97 TLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLE 156
LL+ ++ + D+G Y C V+ N ISA +L V PP N +L E ++ E
Sbjct: 276 NLLISNVTDDDSGTYTC-VVTYKNENISASAELTVLVPPWFL-NHPSNLYAYESMDIEFE 333
Query: 157 CFAGGHPTPRISWRRENNAILPTG-GSIYRGSILKIPQITKEDRGTYYCVAENGVGKGTR 215
C G P P ++W + + ++P+ I GS L+I + K D G Y CVAEN G
Sbjct: 334 CAVSGKPVPTVNWMKNGDVVIPSDYFQIVGGSNLRILGVVKSDEGFYQCVAENEAGN--- 390
Query: 216 RNIAVEVEFAPVITVPKP 233
+ + + VPKP
Sbjct: 391 ------AQSSAQLIVPKP 402
Score = 65.5 bits (158), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 67/292 (22%), Positives = 113/292 (38%), Gaps = 30/292 (10%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
GG V L CS + + PVI K D L ++ G D R + + +
Sbjct: 36 GGNVLLNCSAESDRGVPVIKWKKDG------LILALG-----MDDRKQQLPNGSLLIQNI 84
Query: 99 LVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECF 158
L + D G Y+C+ +G + I + + P+ + T S+ G V L+C
Sbjct: 85 LHSRHHKPDEGLYQCEASLGDSGSIISRTAKVMVAGPLRFLSQTESITAFMGDTVLLKCE 144
Query: 159 AGGHPTPRISWRRENNAILPTGGS----IYRGSILKIPQITKEDRGTYYCVAENGVGKGT 214
G P P I W++ + P G + L+I ++ D G Y C A N T
Sbjct: 145 VIGDPMPTIHWQKNQQDLNPIPGDSRVVVLPSGALQISRLQPGDSGVYRCSARNPASTRT 204
Query: 215 RRNIAVEVEFAPVIT-----VPKPRLGQALQ-YDMDLECHVEAYPPPAIVWIKEDTQQVL 268
V + P + + +P A++ D LEC V YPPP+ W++ + + +
Sbjct: 205 GNEAEVRILSDPGLHRQLYFLQRPSNVIAIEGKDAVLECCVSGYPPPSFTWLRGE-EVIQ 263
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVEL 320
++ YS+ + + + + G+Y C K + EL
Sbjct: 264 LRSKKYSL--------LGGSNLLISNVTDDDSGTYTCVVTYKNENISASAEL 307
>pdb|3B43|A Chain A, I-band Fragment I65-i70 From Titin
Length = 570
Score = 75.1 bits (183), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 70/283 (24%), Positives = 123/283 (43%), Gaps = 35/283 (12%)
Query: 38 IGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYT 97
+G + KC V + W K +R I G + + +T T
Sbjct: 211 LGESGTFKCHVTGTAPIKITWAKDNRE-------IRPGGNY---------KMTLVENTAT 254
Query: 98 LLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLEC 157
L V + + DAG Y C + K S L V+ PP S +V + + + EC
Sbjct: 255 LTVLKVTKGDAGQYTCYAS-NVAGKDSCSAQLGVQEPPRFIKKLEPSRIVKQDEHTRYEC 313
Query: 158 FAGGHPTPRISWRRENNAILPTGGSIYRGS------ILKIPQITKEDRGTYYCVAENGVG 211
GG P ++ W ++ I + S +R S +L++ ++ ED G Y C A N
Sbjct: 314 KIGGSPEIKVLWYKDETEIQES--SKFRMSFVESVAVLEMYNLSVEDSGDYTCEAHN-AA 370
Query: 212 KGTRRNIAVEVEFAPVITVPKPRLGQALQ-YDMDLECHVEAYPPPAIVWIKEDTQQVLTN 270
+ +++V+ PV KP + L+ D+ LEC ++ PP + W K+ ++ L +
Sbjct: 371 GSASSSTSLKVKEPPVFR-KKPHPVETLKGADVHLECELQGTPPFQVSWHKD--KRELRS 427
Query: 271 NQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGT 313
+ Y I ++ F T+I ++ ++ G Y C+A+N +G+
Sbjct: 428 GKKYKI----MSENFL-TSIHILNVDSADIGEYQCKASNDVGS 465
Score = 65.9 bits (159), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 43/177 (24%), Positives = 80/177 (45%), Gaps = 13/177 (7%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAI--LPTGGSIYRGSI--LKIPQITKEDRGTYYCV 205
G+P+ L+C G P RI+W +E+ + P ++ ++ L I ++ D G Y C
Sbjct: 20 GEPITLQCKVDGTPEIRIAWYKEHTKLRSAPAYKMQFKNNVASLVINKVDHSDVGEYTCK 79
Query: 206 AENGVGKGTRRNIAV--EVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKED 263
AEN VG + V E + P + + L + + EC + P + W K+
Sbjct: 80 AENSVGAVASSAVLVIKERKLPPSFARKLKDVHETLGFPVAFECRINGSEPLQVSWYKDG 139
Query: 264 TQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVEL 320
++L ++ + S T++++ ++ G Y C A+N LGT+ + +L
Sbjct: 140 --ELLKDDANLQTSFIHNV-----ATLQILQTDQSHVGQYNCSASNPLGTASSSAKL 189
Score = 61.2 bits (147), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 62/291 (21%), Positives = 110/291 (37%), Gaps = 32/291 (10%)
Query: 38 IGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYT 97
IG + L+C V + + W K + P A + ++ +
Sbjct: 19 IGEPITLQCKVDGTPEIRIAWYKEHTKLRSAP----------------AYKMQFKNNVAS 62
Query: 98 LLVKDIQETDAGYYRCQVIIGINNKISAEV-DLQVRRPPVISDNSTRSLVVSEGQPVQLE 156
L++ + +D G Y C+ + S+ V ++ R+ P + + + G PV E
Sbjct: 63 LVINKVDHSDVGEYTCKAENSVGAVASSAVLVIKERKLPPSFARKLKDVHETLGFPVAFE 122
Query: 157 CFAGGHPTPRISWRRE-----NNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAEN--G 209
C G ++SW ++ ++A L T I+ + L+I Q + G Y C A N G
Sbjct: 123 CRINGSEPLQVSWYKDGELLKDDANLQT-SFIHNVATLQILQTDQSHVGQYNCSASNPLG 181
Query: 210 VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKEDTQQVLT 269
+ + E E P + + AL +CHV P I W K++ +
Sbjct: 182 TASSSAKLTLSEHEVPPFFDLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREIRPG 241
Query: 270 NNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVEL 320
N ++ T+ V+ + K G Y C A+N G + +L
Sbjct: 242 GNYKMTLVE-------NTATLTVLKVTKGDAGQYTCYASNVAGKDSCSAQL 285
Score = 56.6 bits (135), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 67/311 (21%), Positives = 125/311 (40%), Gaps = 27/311 (8%)
Query: 67 TEPLPIS--TGSSLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVI--IGINNK 122
+EPL +S L+ D+ + +T +L D ++ G Y C +G +
Sbjct: 128 SEPLQVSWYKDGELLKDDANLQTSFIHNVATLQILQTD--QSHVGQYNCSASNPLGTASS 185
Query: 123 ISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGS 182
SA++ L P D S+ ++ G+ +C G +I+W ++N I P G
Sbjct: 186 -SAKLTLSEHEVPPFFDLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREIRPGGNY 244
Query: 183 ----IYRGSILKIPQITKEDRGTYYCVAENGVGKGT-RRNIAVEVEFAPVITVPKPRLGQ 237
+ + L + ++TK D G Y C A N GK + + V+ P + K +
Sbjct: 245 KMTLVENTATLTVLKVTKGDAGQYTCYASNVAGKDSCSAQLGVQ---EPPRFIKKLEPSR 301
Query: 238 ALQYDMD--LECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITI 295
++ D EC + P ++W K++T+ + + + +S + + + +
Sbjct: 302 IVKQDEHTRYECKIGGSPEIKVLWYKDETE--IQESSKFRMSFVESV-----AVLEMYNL 354
Query: 296 EKRQYGSYICRAANKLGTSEKTVELFESIIPVCPPQTQPSELLPLRNVNMAVIFAEQP-- 353
G Y C A N G++ + L PV + P E L +V++ P
Sbjct: 355 SVEDSGDYTCEAHNAAGSASSSTSLKVKEPPVFRKKPHPVETLKGADVHLECELQGTPPF 414
Query: 354 -TSWEPQRKQL 363
SW +++L
Sbjct: 415 QVSWHKDKREL 425
Score = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 63/284 (22%), Positives = 112/284 (39%), Gaps = 43/284 (15%)
Query: 38 IGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYT 97
IGG+ E+K V+W K D ++ E S+F + + S
Sbjct: 315 IGGSPEIK----------VLWYK-DETEIQE-------------SSKFRMSF--VESVAV 348
Query: 98 LLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLEC 157
L + ++ D+G Y C+ S+ L+V+ PPV + +G V LEC
Sbjct: 349 LEMYNLSVEDSGDYTCEAH-NAAGSASSSTSLKVKEPPVFR-KKPHPVETLKGADVHLEC 406
Query: 158 FAGGHPTPRISWRRENNAILPTGGSIYR------GSILKIPQITKEDRGTYYCVAENGVG 211
G P ++SW ++ + G Y+ + + I + D G Y C A N VG
Sbjct: 407 ELQGTPPFQVSWHKDKREL--RSGKKYKIMSENFLTSIHILNVDSADIGEYQCKASNDVG 464
Query: 212 KGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKEDTQQVLTNN 271
T ++ ++ P + + ++ L+ +E P ++ W K D +++ +
Sbjct: 465 SDTCVG-SITLKAPPRFVKKLSDISTVVGEEVQLQATIEGAEPISVAWFK-DKGEIVRES 522
Query: 272 QHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSE 315
+ IS+ T++ E G Y C+ N+ GT E
Sbjct: 523 DNIWISYSENI-----ATLQFSRAEPANAGKYTCQIKNEAGTQE 561
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 21/89 (23%), Positives = 37/89 (41%), Gaps = 11/89 (12%)
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEF 285
P P + A+ + L+C V+ P I W KE T+ L + Y + +F
Sbjct: 6 PYFIEPLEHVEAAIGEPITLQCKVDGTPEIRIAWYKEHTK--LRSAPAYKM-------QF 56
Query: 286 TDTTIRVI--TIEKRQYGSYICRAANKLG 312
+ ++ ++ G Y C+A N +G
Sbjct: 57 KNNVASLVINKVDHSDVGEYTCKAENSVG 85
>pdb|2RIK|A Chain A, I-Band Fragment I67-I69 From Titin
Length = 284
Score = 75.1 bits (183), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 70/283 (24%), Positives = 123/283 (43%), Gaps = 35/283 (12%)
Query: 38 IGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYT 97
+G + KC V + W K +R I G + + +T T
Sbjct: 19 LGESGTFKCHVTGTAPIKITWAKDNRE-------IRPGGNY---------KMTLVENTAT 62
Query: 98 LLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLEC 157
L V + + DAG Y C + K S L V+ PP S +V + + + EC
Sbjct: 63 LTVLKVTKGDAGQYTCYAS-NVAGKDSCSAQLGVQEPPRFIKKLEPSRIVKQDEHTRYEC 121
Query: 158 FAGGHPTPRISWRRENNAILPTGGSIYRGS------ILKIPQITKEDRGTYYCVAENGVG 211
GG P ++ W ++ I + S +R S +L++ ++ ED G Y C A N
Sbjct: 122 KIGGSPEIKVLWYKDETEIQES--SKFRMSFVESVAVLEMYNLSVEDSGDYTCEAHN-AA 178
Query: 212 KGTRRNIAVEVEFAPVITVPKPRLGQALQ-YDMDLECHVEAYPPPAIVWIKEDTQQVLTN 270
+ +++V+ PV KP + L+ D+ LEC ++ PP + W K+ ++ L +
Sbjct: 179 GSASSSTSLKVKEPPVFR-KKPHPVETLKGADVHLECELQGTPPFQVSWHKD--KRELRS 235
Query: 271 NQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGT 313
+ Y I ++ F T+I ++ ++ G Y C+A+N +G+
Sbjct: 236 GKKYKI----MSENFL-TSIHILNVDSADIGEYQCKASNDVGS 273
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 52/240 (21%), Positives = 97/240 (40%), Gaps = 21/240 (8%)
Query: 134 PPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGS----IYRGSIL 189
PP D S+ ++ G+ +C G +I+W ++N I P G + + L
Sbjct: 5 PPFF-DLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREIRPGGNYKMTLVENTATL 63
Query: 190 KIPQITKEDRGTYYCVAENGVGKGT-RRNIAVEVEFAPVITVPKPRLGQALQYDMD--LE 246
+ ++TK D G Y C A N GK + + V+ P + K + ++ D E
Sbjct: 64 TVLKVTKGDAGQYTCYASNVAGKDSCSAQLGVQ---EPPRFIKKLEPSRIVKQDEHTRYE 120
Query: 247 CHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICR 306
C + P ++W K++T+ + + + +S + + + + G Y C
Sbjct: 121 CKIGGSPEIKVLWYKDETE--IQESSKFRMSFVESV-----AVLEMYNLSVEDSGDYTCE 173
Query: 307 AANKLGTSEKTVELFESIIPVCPPQTQPSELLPLRNVNMAVIFAEQP---TSWEPQRKQL 363
A N G++ + L PV + P E L +V++ P SW +++L
Sbjct: 174 AHNAAGSASSSTSLKVKEPPVFRKKPHPVETLKGADVHLECELQGTPPFQVSWHKDKREL 233
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 41/176 (23%), Positives = 70/176 (39%), Gaps = 26/176 (14%)
Query: 45 KCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTLLVKDIQ 104
+C + + + V+W K D ++ E S+F + + S L + ++
Sbjct: 120 ECKIGGSPEIKVLWYK-DETEIQE-------------SSKFRMSF--VESVAVLEMYNLS 163
Query: 105 ETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPT 164
D+G Y C+ S+ L+V+ PPV + +G V LEC G P
Sbjct: 164 VEDSGDYTCEAH-NAAGSASSSTSLKVKEPPVFR-KKPHPVETLKGADVHLECELQGTPP 221
Query: 165 PRISWRRENNAILPTGGSIYR------GSILKIPQITKEDRGTYYCVAENGVGKGT 214
++SW ++ + G Y+ + + I + D G Y C A N VG T
Sbjct: 222 FQVSWHKDKREL--RSGKKYKIMSENFLTSIHILNVDSADIGEYQCKASNDVGSYT 275
>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 = 75.1 bits (183), Expect = 6e-14, Method: Compositional matrix adjust.
Identities = 61/246 (24%), Positives = 104/246 (42%), Gaps = 28/246 (11%)
Query: 88 RYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNK--ISAEVDLQVRRPPVISDNSTR-- 143
R + T L + ++++D G Y C V + N + L +R V+ + +
Sbjct: 148 RRFVSQETGNLYIAKVEKSDVGNYTCVVTNTVTNHKVLGPPTPLILRNDGVMGEYEPKIE 207
Query: 144 -----SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGS-ILKIPQITKE 197
++ +G V+LECFA G+P P I WRR + + ++ + IL+IP +E
Sbjct: 208 VQFPETVPAEKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKSNGILEIPNFQQE 267
Query: 198 DRGTYYCVAENGVGKGTRRN---IAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPP 254
D G+Y CVAEN GK + + + +I + A++ + EC P
Sbjct: 268 DAGSYECVAENSRGKNVAKGQLTFYAQPNWVQIIN----DIHVAMEESVFWECKANGRPK 323
Query: 255 PAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
P W+K + +LT ++ + T+ + + G Y C A NK G
Sbjct: 324 PTYRWLK-NGDPLLTRDR----------IQIEQGTLNITIVNLSDAGMYQCVAENKHGVI 372
Query: 315 EKTVEL 320
+ EL
Sbjct: 373 FSSAEL 378
Score = 45.8 bits (107), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 57/253 (22%), Positives = 90/253 (35%), Gaps = 38/253 (15%)
Query: 82 DSRFAIRYDTASSTYTLLVKDIQET-DAGYYRCQVIIGINNKISAEVDLQVRRPPVISDN 140
D RY + LL+ + +T DAG Y+C +S E LQ
Sbjct: 49 DIGMDFRYSVVDGS--LLINNPNKTQDAGTYQCIATNSFGTIVSREAKLQFAYLENFKTR 106
Query: 141 STRSLVVSEGQPVQLECFAGGHP---------TPRISWRRENNAILPTGGSIYRGSILKI 191
+ ++ V GQ + L C H S++ + G++Y I
Sbjct: 107 TRSTVSVRRGQGMVLLCGPPPHSGELSYAWIFNEYPSYQDNRRFVSQETGNLY------I 160
Query: 192 PQITKEDRGTYYCVAENGVGKGT---------RRNIAVEVEFAPVITVPKPRLGQALQ-Y 241
++ K D G Y CV N V RN V E+ P I V P A +
Sbjct: 161 AKVEKSDVGNYTCVVTNTVTNHKVLGPPTPLILRNDGVMGEYEPKIEVQFPETVPAEKGT 220
Query: 242 DMDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
+ LEC P P I+W + D + + + + ++ + + ++ G
Sbjct: 221 TVKLECFALGNPVPTILWRRADGKPIARKARRHK----------SNGILEIPNFQQEDAG 270
Query: 302 SYICRAANKLGTS 314
SY C A N G +
Sbjct: 271 SYECVAENSRGKN 283
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 49/180 (27%), Positives = 70/180 (38%), Gaps = 35/180 (19%)
Query: 39 GGTVELKCSVQYAQDYPV---IWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASST 95
G TV+L+C +A PV +W + D + +R A R+ S
Sbjct: 219 GTTVKLEC---FALGNPVPTILWRRADGKPI----------------ARKARRH---KSN 256
Query: 96 YTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPP----VISDNSTRSLVVSEGQ 151
L + + Q+ DAG Y C V K A+ L P +I+D + V+ +
Sbjct: 257 GILEIPNFQQEDAGSYEC-VAENSRGKNVAKGQLTFYAQPNWVQIIND-----IHVAMEE 310
Query: 152 PVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVG 211
V EC A G P P W + + +L L I + D G Y CVAEN G
Sbjct: 311 SVFWECKANGRPKPTYRWLKNGDPLLTRDRIQIEQGTLNITIVNLSDAGMYQCVAENKHG 370
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 42/175 (24%), Positives = 63/175 (36%), Gaps = 30/175 (17%)
Query: 148 SEGQPVQLECFAGGHPTPRISWRRENNAI---LPTGGSIYRGSILKIPQITKEDRGTYYC 204
SE + V+L C G+P P I W+ + + S+ GS+L +D GTY C
Sbjct: 20 SEEKKVKLSCEVKGNPKPHIRWKLNGTDVDIGMDFRYSVVDGSLLINNPNKTQDAGTYQC 79
Query: 205 VAENGVGKGTRRNIAVEVEFAPVI-----TVPKPRLGQALQYDMDLECHVEAYPPP---- 255
+A N G R ++ + + R GQ M L C PPP
Sbjct: 80 IATNSFGTIVSREAKLQFAYLENFKTRTRSTVSVRRGQG----MVLLCG----PPPHSGE 131
Query: 256 -AIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAAN 309
+ WI + N + S + + +EK G+Y C N
Sbjct: 132 LSYAWIFNEYPSYQDNRRFVSQE---------TGNLYIAKVEKSDVGNYTCVVTN 177
>pdb|3KLD|A Chain A, Ptprg Cntn4 Complex
Length = 384
Score = 75.1 bits (183), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 61/246 (24%), Positives = 104/246 (42%), Gaps = 28/246 (11%)
Query: 88 RYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNK--ISAEVDLQVRRPPVISDNSTR-- 143
R + T L + ++++D G Y C V + N + L +R V+ + +
Sbjct: 149 RRFVSQETGNLYIAKVEKSDVGNYTCVVTNTVTNHKVLGPPTPLILRNDGVMGEYEPKIE 208
Query: 144 -----SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGS-ILKIPQITKE 197
++ +G V+LECFA G+P P I WRR + + ++ + IL+IP +E
Sbjct: 209 VQFPETVPAEKGTTVKLECFALGNPVPTILWRRADGKPIARKARRHKSNGILEIPNFQQE 268
Query: 198 DRGTYYCVAENGVGKGTRRN---IAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPP 254
D G+Y CVAEN GK + + + +I + A++ + EC P
Sbjct: 269 DAGSYECVAENSRGKNVAKGQLTFYAQPNWVQIIN----DIHVAMEESVFWECKANGRPK 324
Query: 255 PAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
P W+K + +LT ++ + T+ + + G Y C A NK G
Sbjct: 325 PTYRWLK-NGDPLLTRDR----------IQIEQGTLNITIVNLSDAGMYQCVAENKHGVI 373
Query: 315 EKTVEL 320
+ EL
Sbjct: 374 FSSAEL 379
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 57/253 (22%), Positives = 90/253 (35%), Gaps = 38/253 (15%)
Query: 82 DSRFAIRYDTASSTYTLLVKDIQET-DAGYYRCQVIIGINNKISAEVDLQVRRPPVISDN 140
D RY + LL+ + +T DAG Y+C +S E LQ
Sbjct: 50 DIGMDFRYSVVDGS--LLINNPNKTQDAGTYQCIATNSFGTIVSREAKLQFAYLENFKTR 107
Query: 141 STRSLVVSEGQPVQLECFAGGHP---------TPRISWRRENNAILPTGGSIYRGSILKI 191
+ ++ V GQ + L C H S++ + G++Y I
Sbjct: 108 TRSTVSVRRGQGMVLLCGPPPHSGELSYAWIFNEYPSYQDNRRFVSQETGNLY------I 161
Query: 192 PQITKEDRGTYYCVAENGVGKGT---------RRNIAVEVEFAPVITVPKPRLGQALQ-Y 241
++ K D G Y CV N V RN V E+ P I V P A +
Sbjct: 162 AKVEKSDVGNYTCVVTNTVTNHKVLGPPTPLILRNDGVMGEYEPKIEVQFPETVPAEKGT 221
Query: 242 DMDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
+ LEC P P I+W + D + + + + ++ + + ++ G
Sbjct: 222 TVKLECFALGNPVPTILWRRADGKPIARKARRHK----------SNGILEIPNFQQEDAG 271
Query: 302 SYICRAANKLGTS 314
SY C A N G +
Sbjct: 272 SYECVAENSRGKN 284
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 49/180 (27%), Positives = 70/180 (38%), Gaps = 35/180 (19%)
Query: 39 GGTVELKCSVQYAQDYPV---IWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASST 95
G TV+L+C +A PV +W + D + +R A R+ S
Sbjct: 220 GTTVKLEC---FALGNPVPTILWRRADGKPI----------------ARKARRH---KSN 257
Query: 96 YTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPP----VISDNSTRSLVVSEGQ 151
L + + Q+ DAG Y C V K A+ L P +I+D + V+ +
Sbjct: 258 GILEIPNFQQEDAGSYEC-VAENSRGKNVAKGQLTFYAQPNWVQIIND-----IHVAMEE 311
Query: 152 PVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVG 211
V EC A G P P W + + +L L I + D G Y CVAEN G
Sbjct: 312 SVFWECKANGRPKPTYRWLKNGDPLLTRDRIQIEQGTLNITIVNLSDAGMYQCVAENKHG 371
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 42/175 (24%), Positives = 63/175 (36%), Gaps = 30/175 (17%)
Query: 148 SEGQPVQLECFAGGHPTPRISWRRENNAI---LPTGGSIYRGSILKIPQITKEDRGTYYC 204
SE + V+L C G+P P I W+ + + S+ GS+L +D GTY C
Sbjct: 21 SEEKKVKLSCEVKGNPKPHIRWKLNGTDVDIGMDFRYSVVDGSLLINNPNKTQDAGTYQC 80
Query: 205 VAENGVGKGTRRNIAVEVEFAPVI-----TVPKPRLGQALQYDMDLECHVEAYPPP---- 255
+A N G R ++ + + R GQ M L C PPP
Sbjct: 81 IATNSFGTIVSREAKLQFAYLENFKTRTRSTVSVRRGQG----MVLLCG----PPPHSGE 132
Query: 256 -AIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAAN 309
+ WI + N + S + + +EK G+Y C N
Sbjct: 133 LSYAWIFNEYPSYQDNRRFVSQE---------TGNLYIAKVEKSDVGNYTCVVTN 178
>pdb|1CS6|A Chain A, N-terminal Fragment Of Axonin-1 From Chicken
Length = 382
Score = 74.7 bits (182), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 64/242 (26%), Positives = 101/242 (41%), Gaps = 30/242 (12%)
Query: 92 ASSTYTLLVKDIQETDAGYYRCQVIIGIN----------NKISAEVDLQVRRPPVISDNS 141
+ +T L + + +D G Y C I+ +++S + + P I
Sbjct: 154 SQTTGNLYIAKTEASDLGNYSCFATSHIDFITKSVFSKFSQLSLAAEDARQYAPSIKAKF 213
Query: 142 TRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGT 201
GQ V LECFA G+P P+I WR+ + + T + +L I + ED GT
Sbjct: 214 PADTYALTGQMVTLECFAFGNPVPQIKWRKLDGS--QTSKWLSSEPLLHIQNVDFEDEGT 271
Query: 202 YYCVAENGVGKGTRRN---IAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIV 258
Y C AEN G+ T + I + ++ VIT + +G D+ C P PA+
Sbjct: 272 YECEAENIKGRDTYQGRIIIHAQPDWLDVITDTEADIGS----DLRWSCVASGKPRPAVR 327
Query: 259 WIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTV 318
W++ D Q + + N+ E + +R + G Y C A NK GT +
Sbjct: 328 WLR-DGQPLASQNRI----------EVSGGELRFSKLVLEDSGMYQCVAENKHGTVYASA 376
Query: 319 EL 320
EL
Sbjct: 377 EL 378
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 61/242 (25%), Positives = 85/242 (35%), Gaps = 37/242 (15%)
Query: 94 STYTLLVKD------IQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVV 147
S Y L+ D ++ DAG Y+C +S E L+ S + +
Sbjct: 54 SRYRLVAGDLVISNPVKAKDAGSYQCVATNARGTVVSREASLRFGFLQEFSAEERDPVKI 113
Query: 148 SEGQPVQLECFAGGHPTPRISWR---RENNAILPTGGSIYRGSI---LKIPQITKEDRGT 201
+EG V C H P +S+R E +P G + L I + D G
Sbjct: 114 TEGWGVMFTCSPPPH-YPALSYRWLLNEFPNFIPADGRRFVSQTTGNLYIAKTEASDLGN 172
Query: 202 YYCVAENGV--------GKGTRRNIAVE--VEFAPVITVPKPRLGQALQYDM-DLECHVE 250
Y C A + + K ++ ++A E ++AP I P AL M LEC
Sbjct: 173 YSCFATSHIDFITKSVFSKFSQLSLAAEDARQYAPSIKAKFPADTYALTGQMVTLECFAF 232
Query: 251 AYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANK 310
P P I W K D Q + H D F D G+Y C A N
Sbjct: 233 GNPVPQIKWRKLDGSQTSKWLSSEPLLHIQNVD-FEDE------------GTYECEAENI 279
Query: 311 LG 312
G
Sbjct: 280 KG 281
Score = 31.2 bits (69), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 37/95 (38%), Gaps = 5/95 (5%)
Query: 135 PVISDNSTRSLV--VSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYR---GSIL 189
PV + +L S + V L C A +P W+ + S YR G ++
Sbjct: 5 PVFEEQPAHTLFPEGSAEEKVTLTCRARANPPATYRWKMNGTELKMGPDSRYRLVAGDLV 64
Query: 190 KIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVEF 224
+ +D G+Y CVA N G R ++ F
Sbjct: 65 ISNPVKAKDAGSYQCVATNARGTVVSREASLRFGF 99
>pdb|2RJM|A Chain A, 3ig Structure Of Titin Domains I67-I69 E-To-A Mutated
Variant
Length = 284
Score = 74.7 bits (182), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 70/283 (24%), Positives = 123/283 (43%), Gaps = 35/283 (12%)
Query: 38 IGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYT 97
+G + KC V + W K +R I G + + +T T
Sbjct: 19 LGESGTFKCHVTGTAPIKITWAKDNRE-------IRPGGNY---------KMTLVENTAT 62
Query: 98 LLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLEC 157
L V + + DAG Y C + K S L V+ PP S +V + + + EC
Sbjct: 63 LTVLKVTKGDAGQYTCYAS-NVAGKDSCSAQLGVQAPPRFIKKLEPSRIVKQDEHTRYEC 121
Query: 158 FAGGHPTPRISWRRENNAILPTGGSIYRGS------ILKIPQITKEDRGTYYCVAENGVG 211
GG P ++ W ++ I + S +R S +L++ ++ ED G Y C A N
Sbjct: 122 KIGGSPEIKVLWYKDETEIQES--SKFRMSFVESVAVLEMYNLSVEDSGDYTCEAHN-AA 178
Query: 212 KGTRRNIAVEVEFAPVITVPKPRLGQALQ-YDMDLECHVEAYPPPAIVWIKEDTQQVLTN 270
+ +++V+ PV KP + L+ D+ LEC ++ PP + W K+ ++ L +
Sbjct: 179 GSASSSTSLKVKEPPVFR-KKPHPVETLKGADVHLECELQGTPPFQVSWHKD--KRELRS 235
Query: 271 NQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGT 313
+ Y I ++ F T+I ++ ++ G Y C+A+N +G+
Sbjct: 236 GKKYKI----MSENFL-TSIHILNVDSADIGEYQCKASNDVGS 273
Score = 52.0 bits (123), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 53/240 (22%), Positives = 98/240 (40%), Gaps = 21/240 (8%)
Query: 134 PPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGS----IYRGSIL 189
PP D S+ ++ G+ +C G +I+W ++N I P G + + L
Sbjct: 5 PPFF-DLKPVSVDLALGESGTFKCHVTGTAPIKITWAKDNREIRPGGNYKMTLVENTATL 63
Query: 190 KIPQITKEDRGTYYCVAENGVGKGT-RRNIAVEVEFAPVITVPKPRLGQALQYDMD--LE 246
+ ++TK D G Y C A N GK + + V+ AP + K + ++ D E
Sbjct: 64 TVLKVTKGDAGQYTCYASNVAGKDSCSAQLGVQ---APPRFIKKLEPSRIVKQDEHTRYE 120
Query: 247 CHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICR 306
C + P ++W K++T+ + + + +S + + + + G Y C
Sbjct: 121 CKIGGSPEIKVLWYKDETE--IQESSKFRMSFVESV-----AVLEMYNLSVEDSGDYTCE 173
Query: 307 AANKLGTSEKTVELFESIIPVCPPQTQPSELLPLRNVNMAVIFAEQP---TSWEPQRKQL 363
A N G++ + L PV + P E L +V++ P SW +++L
Sbjct: 174 AHNAAGSASSSTSLKVKEPPVFRKKPHPVETLKGADVHLECELQGTPPFQVSWHKDKREL 233
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 41/176 (23%), Positives = 70/176 (39%), Gaps = 26/176 (14%)
Query: 45 KCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTLLVKDIQ 104
+C + + + V+W K D ++ E S+F + + S L + ++
Sbjct: 120 ECKIGGSPEIKVLWYK-DETEIQE-------------SSKFRMSF--VESVAVLEMYNLS 163
Query: 105 ETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPT 164
D+G Y C+ S+ L+V+ PPV + +G V LEC G P
Sbjct: 164 VEDSGDYTCEAH-NAAGSASSSTSLKVKEPPVFR-KKPHPVETLKGADVHLECELQGTPP 221
Query: 165 PRISWRRENNAILPTGGSIYR------GSILKIPQITKEDRGTYYCVAENGVGKGT 214
++SW ++ + G Y+ + + I + D G Y C A N VG T
Sbjct: 222 FQVSWHKDKREL--RSGKKYKIMSENFLTSIHILNVDSADIGEYQCKASNDVGSYT 275
>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 = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 61/234 (26%), Positives = 98/234 (41%), Gaps = 28/234 (11%)
Query: 97 TLLVKDIQETDAGYYRCQVIIGINNKI---SAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
TL++KD D+G Y C V NN + S E L V P+ + + V G+P
Sbjct: 307 TLIIKDAVVEDSGKYLCVV----NNSVGGESVETVLTVT-APLSAKIDPPTQTVDFGRPA 361
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVGKG 213
C G+P +SW ++ AI + S+L+I + KED+G Y C N
Sbjct: 362 VFTCQYTGNPIKTVSWMKDGKAIG------HSESVLRIESVKKEDKGMYQCFVRN----- 410
Query: 214 TRRNIAVEVEFAPVITVPKPRLGQALQYD-------MDLECHVEAYPPPAIVWIKEDTQQ 266
R + E P + QA Q + + L+C P P I W E +
Sbjct: 411 DRESAEASAELKLGGRFDPPVIRQAFQEETMEPGPSVFLKCVAGGNPTPEISW--ELDGK 468
Query: 267 VLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVEL 320
+ NN Y + + T + + + + ++ G Y C A +K+G +E + +L
Sbjct: 469 KIANNDRYQVGQYVTVNGDVVSYLNITSVHANDGGLYKCIAKSKVGVAEHSAKL 522
Score = 61.6 bits (148), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 63/253 (24%), Positives = 111/253 (43%), Gaps = 36/253 (14%)
Query: 92 ASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVR-----RPPVISDNSTRSLV 146
S L ++ +++ D G Y+C V N++ SAE +++ PPVI + +
Sbjct: 385 GHSESVLRIESVKKEDKGMYQCFVR---NDRESAEASAELKLGGRFDPPVIR-QAFQEET 440
Query: 147 VSEGQPVQLECFAGGHPTPRISWRRENNAI-----------LPTGGSIYRGSILKIPQIT 195
+ G V L+C AGG+PTP ISW + I + G + S L I +
Sbjct: 441 MEPGPSVFLKCVAGGNPTPEISWELDGKKIANNDRYQVGQYVTVNGDVV--SYLNITSVH 498
Query: 196 KEDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPP 255
D G Y C+A++ VG + + V P I + + A + + + C V YP
Sbjct: 499 ANDGGLYKCIAKSKVGV-AEHSAKLNVYGLPYIRQMEKKAIVAGE-TLIVTCPVAGYPID 556
Query: 256 AIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKR-QYGSYICRAANKLGTS 314
+IVW +++ + Q F + T+ + +E+ +Y C A N+ G S
Sbjct: 557 SIVWERDNRALPINRKQKV----------FPNGTLIIENVERNSDQATYTCVAKNQEGYS 606
Query: 315 EK-TVELFESIIP 326
+ ++E+ ++P
Sbjct: 607 ARGSLEVQVMVLP 619
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 71/303 (23%), Positives = 118/303 (38%), Gaps = 30/303 (9%)
Query: 25 PTISYISQEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSR 84
P I QE+ + G +V LKC V P I ++D K+ G + +
Sbjct: 430 PVIRQAFQEETMEPGPSVFLKC-VAGGNPTPEISWELDGKKIANNDRYQVGQYVTVNGD- 487
Query: 85 FAIRYDTASSTYTLLVKDIQETDAGYYRC--QVIIGINNKISAEVDLQVRRPPVISDNST 142
+ Y L + + D G Y+C + +G+ L V P I
Sbjct: 488 -VVSY--------LNITSVHANDGGLYKCIAKSKVGVAEH---SAKLNVYGLPYIRQMEK 535
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAI-LPTGGSIYRGSILKIPQITKE-DRG 200
+++V G+ + + C G+P I W R+N A+ + ++ L I + + D+
Sbjct: 536 KAIVA--GETLIVTCPVAGYPIDSIVWERDNRALPINRKQKVFPNGTLIIENVERNSDQA 593
Query: 201 TYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLG--QALQYDMDLECHVEAYPPPA-I 257
TY CVA+N G R ++ V+V P I G Q QY + L C V P I
Sbjct: 594 TYTCVAKNQEGYSARGSLEVQVMVLPRIIPFAFEEGPAQVGQY-LTLHCSVPGGDLPLNI 652
Query: 258 VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKT 317
W + Q ++ + + S + + + +E G++ C A N G + T
Sbjct: 653 DWTLDG--QAISEDLGITTSRVGR----RGSVLTIEAVEASHAGNFTCHARNLAGHQQFT 706
Query: 318 VEL 320
L
Sbjct: 707 TPL 709
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 73/304 (24%), Positives = 114/304 (37%), Gaps = 39/304 (12%)
Query: 27 ISYISQEQIKDI--GGTVELKCSVQYAQDYPVIWMKVDR----NKVTEPLPISTGSSLII 80
+ YI Q + K I G T+ + C V ++W + +R N+ + P T LII
Sbjct: 527 LPYIRQMEKKAIVAGETLIVTCPVAGYPIDSIVWERDNRALPINRKQKVFPNGT---LII 583
Query: 81 RDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDN 140
+ + ++ +TYT + K+ QE GY +++QV P I
Sbjct: 584 EN----VERNSDQATYTCVAKN-QE---GY-----------SARGSLEVQVMVLPRIIPF 624
Query: 141 STRSLVVSEGQPVQLECFAGGHPTP-RISWRRENNAI-----LPTGGSIYRGSILKIPQI 194
+ GQ + L C G P I W + AI + T RGS+L I +
Sbjct: 625 AFEEGPAQVGQYLTLHCSVPGGDLPLNIDWTLDGQAISEDLGITTSRVGRRGSVLTIEAV 684
Query: 195 TKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPP 254
G + C A N G + + V P + A D +EC + +P
Sbjct: 685 EASHAGNFTCHARNLAGH-QQFTTPLNVYVPPRWILEPTDKAFAQGSDAKVECKADGFPK 743
Query: 255 PAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
P + W K V Y + + T+ V I+K G Y+C A N +G+
Sbjct: 744 PQVTWKK----AVGDTPGEYKDLKKSDNIRVEEGTLHVDNIQKTNEGYYLCEAINGIGSG 799
Query: 315 EKTV 318
V
Sbjct: 800 LSAV 803
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 52/210 (24%), Positives = 89/210 (42%), Gaps = 35/210 (16%)
Query: 27 ISYISQEQIKDIGGTVELKCSVQYAQDYPV-IWMKVDRNKVTEPLPISTGSSLIIRDSRF 85
I + +E +G + L CSV D P+ I +D ++E L I+T SR
Sbjct: 622 IPFAFEEGPAQVGQYLTLHCSVP-GGDLPLNIDWTLDGQAISEDLGITT--------SRV 672
Query: 86 AIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPP-VISDNSTRS 144
R L ++ ++ + AG + C + L V PP I + + ++
Sbjct: 673 GRR------GSVLTIEAVEASHAGNFTCHAR-NLAGHQQFTTPLNVYVPPRWILEPTDKA 725
Query: 145 LVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGS-----------IYRGSILKIPQ 193
++G ++EC A G P P+++W++ A+ T G + G+ L +
Sbjct: 726 F--AQGSDAKVECKADGFPKPQVTWKK---AVGDTPGEYKDLKKSDNIRVEEGT-LHVDN 779
Query: 194 ITKEDRGTYYCVAENGVGKGTRRNIAVEVE 223
I K + G Y C A NG+G G I + V+
Sbjct: 780 IQKTNEGYYLCEAINGIGSGLSAVIMISVQ 809
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 54/245 (22%), Positives = 86/245 (35%), Gaps = 36/245 (14%)
Query: 134 PPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISW-------RRENNAILPTGGSIYRG 186
P V+S S + L C A G+P P W R+ +L G
Sbjct: 247 PKVVSLAKFDMKTYSGSSTMALLCPAQGYPVPVFRWYKFIEGTTRKQAVVLNDRVKQVSG 306
Query: 187 SILKIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
+++ I ED G Y CV N VG G + V + P
Sbjct: 307 TLI-IKDAVVEDSGKYLCVVNNSVG-GESVETVLTVTAPLSAKIDPPTQTVDFGRPAVFT 364
Query: 247 CHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICR 306
C P + W+K+ +I H +++ +R+ +++K G Y C
Sbjct: 365 CQYTGNPIKTVSWMKDGK----------AIGH-------SESVLRIESVKKEDKGMYQCF 407
Query: 307 AANKLGTSEKTVEL-----FESIIPVCPPQTQPSELLPLRNVNMAVIFAEQPT---SWEP 358
N ++E + EL F+ PV Q + P +V + + PT SWE
Sbjct: 408 VRNDRESAEASAELKLGGRFDP--PVIRQAFQEETMEPGPSVFLKCVAGGNPTPEISWEL 465
Query: 359 QRKQL 363
K++
Sbjct: 466 DGKKI 470
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 28/103 (27%), Positives = 40/103 (38%), Gaps = 9/103 (8%)
Query: 132 RRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISW-RRENNAI--LPTGGSIYRGSI 188
++ PV T + S ++EC A G+P P I W R + A+ +P I
Sbjct: 36 QKGPVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGK 95
Query: 189 LKIPQITKED------RGTYYCVAENGVGKGTRRNIAVEVEFA 225
L P ED Y C+A N G R++ V A
Sbjct: 96 LVFPPFRAEDYRQEVHAQVYACLARNQFGSIISRDVHVRAVVA 138
>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 = 69.7 bits (169), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 50/169 (29%), Positives = 72/169 (42%), Gaps = 16/169 (9%)
Query: 157 CFAGGHPTPRISWRRENNAILPTGGSIY----RGSILKIPQITKEDRGTYYCVAENGVGK 212
C +P P ISW R N ++ + Y G +L I + D G Y C A NGVG
Sbjct: 29 CAVESYPQPEISWTR-NKILIKLFDTRYSIRENGQLLTILSVEDSDDGIYCCTANNGVGG 87
Query: 213 GTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKEDTQQVLTNNQ 272
A++V+ P IT P + L C P P++ WIK D+ L N
Sbjct: 88 AVESCGALQVKMKPKITRPPINVKIIEGLKAVLPCTTMGNPKPSVSWIKGDS--ALRENS 145
Query: 273 HYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS-EKTVEL 320
++ ++R+ ++K G Y C A N LGT+ K V+L
Sbjct: 146 RIAV--------LESGSLRIHNVQKEDAGQYRCVAKNSLGTAYSKLVKL 186
Score = 66.2 bits (160), Expect = 3e-11, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 69/143 (48%), Gaps = 3/143 (2%)
Query: 85 FAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRS 144
F RY + L + ++++D G Y C G+ + + LQV+ P I+
Sbjct: 51 FDTRYSIRENGQLLTILSVEDSDDGIYCCTANNGVGGAVESCGALQVKMKPKITRPPINV 110
Query: 145 LVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGG-SIYRGSILKIPQITKEDRGTYY 203
++ EG L C G+P P +SW + ++A+ ++ L+I + KED G Y
Sbjct: 111 KII-EGLKAVLPCTTMGNPKPSVSWIKGDSALRENSRIAVLESGSLRIHNVQKEDAGQYR 169
Query: 204 CVAENGVGKGTRRNIAVEVE-FA 225
CVA+N +G + + +EVE FA
Sbjct: 170 CVAKNSLGTAYSKLVKLEVEVFA 192
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/88 (28%), Positives = 38/88 (43%), Gaps = 8/88 (9%)
Query: 225 APVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
APVIT P + ++ C VE+YP P I W + L + + YSI
Sbjct: 7 APVITTPLETVDALVEEVATFMCAVESYPQPEISWTRNKILIKLFDTR-YSIRE------ 59
Query: 285 FTDTTIRVITIEKRQYGSYICRAANKLG 312
+ ++++E G Y C A N +G
Sbjct: 60 -NGQLLTILSVEDSDDGIYCCTANNGVG 86
>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 = 68.9 bits (167), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 66/255 (25%), Positives = 102/255 (40%), Gaps = 32/255 (12%)
Query: 79 IIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVIS 138
II R ++ + S T+ +I+ DAG YRCQ A V L++ +
Sbjct: 45 IISTQRVVVQKEGVRSRLTIYNANIE--DAGIYRCQATDAKGQTQEATVVLEIYQKLTFR 102
Query: 139 DNSTRSLVVS-----EGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQ 193
+ VVS +G+ ++ C P P +SW N + T S R ++L
Sbjct: 103 E------VVSPQEFKQGEDAEVVCRVSSSPAPAVSWLYHNEEV--TTISDNRFAMLANNN 154
Query: 194 IT-----KEDRGTYYCVAE-NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQY--DMDL 245
+ K D G Y C G+ R+I V V P I++P+ + +M
Sbjct: 155 LQILNINKSDEGIYRCEGRVEARGEIDFRDIIVIVNVPPAISMPQKSFNATAERGEEMTF 214
Query: 246 ECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYIC 305
C P PAI W + +++ N+ Y + ++T + V I G Y+C
Sbjct: 215 SCRASGSPEPAISWFRNG--KLIEENEKYILKG-------SNTELTVRNIINSDGGPYVC 265
Query: 306 RAANKLGTSEKTVEL 320
RA NK G EK L
Sbjct: 266 RATNKAGEDEKQAFL 280
>pdb|3GRW|A Chain A, Fgfr3 In Complex With A Fab
Length = 241
Score = 65.5 bits (158), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 55/191 (28%), Positives = 81/191 (42%), Gaps = 16/191 (8%)
Query: 145 LVVSEGQPVQLECFAGGHPTPRISW---RRENNAILPTGGSIYRGS--ILKIPQITKEDR 199
L V V+ C A G+PTP ISW RE GG R L + + DR
Sbjct: 25 LAVPAANTVRFRCPAAGNPTPSISWLKNGREFRGEHRIGGIKLRHQQWSLVMESVVPSDR 84
Query: 200 GTYYCVAENGVGKGTRRNIAVEV----EFAPVITVPKPRLGQA-LQYDMDLECHVEAYPP 254
G Y CV EN G R+ ++V P++ P A L D++ C V +
Sbjct: 85 GNYTCVVENKFGS-IRQTYTLDVLERSPHRPILQAGLPANQTAVLGSDVEFHCKVYSDAQ 143
Query: 255 PAIVWIKE---DTQQVLTNNQHYS--ISHFATADEFTDTTIRVITIEKRQYGSYICRAAN 309
P I W+K + +V + Y + + + D +R+ + +R G Y+CRA N
Sbjct: 144 PHIQWLKHVEVNGSKVGPDGTPYVTVLKSWISESVEADVRLRLANVSERDGGEYLCRATN 203
Query: 310 KLGTSEKTVEL 320
+G +EK L
Sbjct: 204 FIGVAEKAFWL 214
>pdb|3P3Y|A Chain A, Crystal Structure Of Neurofascin Homophilic Adhesion
Complex In Space Group P6522
pdb|3P40|A Chain A, Crystal Structure Of Neurofascin Adhesion Complex In Space
Group P3221
Length = 404
Score = 64.7 bits (156), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 57/232 (24%), Positives = 99/232 (42%), Gaps = 25/232 (10%)
Query: 39 GGTVELKCSVQYAQDYPVI-WMKVDRNKVTEPLPISTG-------SSLIIRDSRFAIRYD 90
G + L+C+ PVI WM +T+ +S G S+++++D ++ D
Sbjct: 131 GAPLTLQCNPPPGLPSPVIFWMSSSMEPITQDKRVSQGHNGDLYFSNVMLQD----MQTD 186
Query: 91 TASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEG 150
+ + IQ+ + + G+ + + + Q + S +V G
Sbjct: 187 YSCNARFHFTHTIQQKNPFTLKVLTTRGVAERTPSFMYPQ---------GTASSQMVLRG 237
Query: 151 QPVQLECFAGGHPTPRISWRRENNAILPTGGSIYR--GSILKIPQITKEDRGTYYCVAEN 208
+ LEC A G PTP I+W ++ LP+ + + L+I +++ED G Y+C+A N
Sbjct: 238 MDLLLECIASGVPTPDIAWYKK-GGDLPSDKAKFENFNKALRITNVSEEDSGEYFCLASN 296
Query: 209 GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWI 260
+G R I+V V+ AP L A D L C P P + W+
Sbjct: 297 KMGS-IRHTISVRVKAAPYWLDEPKNLILAPGEDGRLVCRANGNPKPTVQWM 347
Score = 54.3 bits (129), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 59/261 (22%), Positives = 96/261 (36%), Gaps = 32/261 (12%)
Query: 79 IIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVIS 138
I +D R ++R + + E G Y+C +S + LQV + P+
Sbjct: 60 IAKDPRVSMRRRSGTLVIDFRSGGRPEEYEGEYQCFARNKFGTALSNRIRLQVSKSPLWP 119
Query: 139 DNSTRSLVVSEGQPVQLECF-AGGHPTPRISWRRENNAILPTGGSIYRG--SILKIPQIT 195
+ +VV EG P+ L+C G P+P I W + + + +G L +
Sbjct: 120 KENLDPVVVQEGAPLTLQCNPPPGLPSPVIFWMSSSMEPITQDKRVSQGHNGDLYFSNVM 179
Query: 196 KEDRGT-YYCVAENGVGKG------------TRRNIAVEVEFAPVITVPKPRLGQAL--- 239
+D T Y C A T R +A E P P+ +
Sbjct: 180 LQDMQTDYSCNARFHFTHTIQQKNPFTLKVLTTRGVA---ERTPSFMYPQGTASSQMVLR 236
Query: 240 QYDMDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
D+ LEC P P I W K+ S A + F + +R+ + +
Sbjct: 237 GMDLLLECIASGVPTPDIAWYKKGGDLP---------SDKAKFENF-NKALRITNVSEED 286
Query: 300 YGSYICRAANKLGTSEKTVEL 320
G Y C A+NK+G+ T+ +
Sbjct: 287 SGEYFCLASNKMGSIRHTISV 307
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 41/161 (25%), Positives = 67/161 (41%), Gaps = 15/161 (9%)
Query: 130 QVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRE----NNAILPTGGSIYR 185
++ +PP I+ S + +V + +EC A G+P P W R N A P R
Sbjct: 12 ELTQPPTITKQSAKDHIVDPRDNILIECEAKGNPAPSFHWTRNSRFFNIAKDPRVSMRRR 71
Query: 186 GSILKIPQIT----KEDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L I + +E G Y C A N G I ++V +P+ PK L +
Sbjct: 72 SGTLVIDFRSGGRPEEYEGEYQCFARNKFGTALSNRIRLQVSKSPLW--PKENLDPVVVQ 129
Query: 242 D---MDLECH-VEAYPPPAIVWIKEDTQQVLTNNQHYSISH 278
+ + L+C+ P P I W+ + + +T ++ S H
Sbjct: 130 EGAPLTLQCNPPPGLPSPVIFWMSS-SMEPITQDKRVSQGH 169
>pdb|3V2A|R Chain R, Vegfr-2VEGF-A Complex Structure
Length = 772
Score = 61.6 bits (148), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 70/299 (23%), Positives = 118/299 (39%), Gaps = 47/299 (15%)
Query: 78 LIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVI 137
L+ RD + + TL + + +D G Y C G+ K ++ +P V
Sbjct: 272 LVNRDLKTQSGSEMKKFLSTLTIDGVTRSDQGLYTCAASSGLMTKKNSTFVRVHEKPFVA 331
Query: 138 SDNSTRSLV-VSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITK 196
+ SLV + G+ V++ G+P P I W + N L + +I G +L I ++++
Sbjct: 332 FGSGMESLVEATVGERVRIPAKYLGYPPPEIKWYK-NGIPLESNHTIKAGHVLTIMEVSE 390
Query: 197 EDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQ--------ALQYD--MDLE 246
D G Y + N + K + ++ V + P P++G+ + QY L
Sbjct: 391 RDTGNYTVILTNPISKEKQSHVVSLVVYVP------PQIGEKSLISPVDSYQYGTTQTLT 444
Query: 247 CHVEAYPPP-AIVW--------IKEDTQQVLTNN-----QHYSISHFATAD--------- 283
C V A PPP I W E +Q V N + S+ F +
Sbjct: 445 CTVYAIPPPHHIHWYWQLEEECANEPSQAVSVTNPYPCEEWRSVEDFQGGNKIEVNKNQF 504
Query: 284 ---EFTDTTIRVITIEKRQYGS-YICRAANKLGTSEKTVELFESIIP--VCPPQTQPSE 336
E + T+ + I+ + Y C A NK+G E+ + + P P QP+E
Sbjct: 505 ALIEGKNKTVSTLVIQAANVSALYKCEAVNKVGRGERVISFHVTRGPEITLQPDMQPTE 563
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 43/184 (23%), Positives = 84/184 (45%), Gaps = 18/184 (9%)
Query: 41 TVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGS--SLIIRDSRFAIRYDT---ASST 95
+V L C+ + + W K+ +PLPI G + + ++ + + ++ST
Sbjct: 566 SVSLWCTADRSTFENLTWYKLG----PQPLPIHVGELPTPVCKNLDTLWKLNATMFSNST 621
Query: 96 YTLLVKDIQET---DAGYYRCQVIIGINNK---ISAEVDLQVRRPPVISDNSTRSLVVSE 149
+L+ +++ D G Y C K + ++ + R P I+ N + S
Sbjct: 622 NDILIMELKNASLQDQGDYVCLAQDRKTKKRHCVVRQLTVLERVAPTITGN-LENQTTSI 680
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGS--ILKIPQITKEDRGTYYCVAE 207
G+ +++ C A G+P P+I W ++N ++ G + + L I ++ KED G Y C A
Sbjct: 681 GESIEVSCTASGNPPPQIMWFKDNETLVEDSGIVLKDGNRNLTIRRVRKEDEGLYTCQAC 740
Query: 208 NGVG 211
+ +G
Sbjct: 741 SVLG 744
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 57/276 (20%), Positives = 109/276 (39%), Gaps = 47/276 (17%)
Query: 75 GSSLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVI--IGINNKISAEVDLQVR 132
G+ + + ++FA+ + TL+++ + Y+C+ + +G ++ + V
Sbjct: 494 GNKIEVNKNQFALIEGKNKTVSTLVIQ--AANVSALYKCEAVNKVGRGERV---ISFHVT 548
Query: 133 RPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPT------------- 179
R P I+ + +E + V L C A ++W + LP
Sbjct: 549 RGPEITLQP--DMQPTEQESVSLWCTADRSTFENLTWYKLGPQPLPIHVGELPTPVCKNL 606
Query: 180 ------GGSIYRGS-----ILKIPQITKEDRGTYYCVAENGVGKGTR---RNIAVEVEFA 225
+++ S I+++ + +D+G Y C+A++ K R + V A
Sbjct: 607 DTLWKLNATMFSNSTNDILIMELKNASLQDQGDYVCLAQDRKTKKRHCVVRQLTVLERVA 666
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEF 285
P IT ++ +++ C PPP I+W K++ V S D
Sbjct: 667 PTITGNLENQTTSIGESIEVSCTASGNPPPQIMWFKDNETLV-------EDSGIVLKDGN 719
Query: 286 TDTTIRVITIEKRQYGSYICRAANKLGTSEKTVELF 321
+ TIR + K G Y C+A + LG ++ VE F
Sbjct: 720 RNLTIR--RVRKEDEGLYTCQACSVLGCAK--VEAF 751
Score = 34.7 bits (78), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 62/160 (38%), Gaps = 28/160 (17%)
Query: 187 SILKIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD-- 244
S L I +T+ D+G Y C A +G+ T++N F V P G ++ ++
Sbjct: 290 STLTIDGVTRSDQGLYTCAASSGL--MTKKNST----FVRVHEKPFVAFGSGMESLVEAT 343
Query: 245 ------LECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKR 298
+ YPPP I W K L +N H T ++ + +R
Sbjct: 344 VGERVRIPAKYLGYPPPEIKWYKNGIP--LESNHTIKAGHVLT----------IMEVSER 391
Query: 299 QYGSYICRAANKLGTSEKTVELFESIIPVCPPQTQPSELL 338
G+Y N + + EK + S++ PPQ L+
Sbjct: 392 DTGNYTVILTNPI-SKEKQSHVV-SLVVYVPPQIGEKSLI 429
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 22/98 (22%), Positives = 42/98 (42%), Gaps = 19/98 (19%)
Query: 18 LTTAQR-TPTISYISQEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGS 76
LT +R PTI+ + Q IG ++E+ C+ ++W K + V + S
Sbjct: 659 LTVLERVAPTITGNLENQTTSIGESIEVSCTASGNPPPQIMWFKDNETLVED-------S 711
Query: 77 SLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQ 114
++++D L ++ +++ D G Y CQ
Sbjct: 712 GIVLKDGN-----------RNLTIRRVRKEDEGLYTCQ 738
>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 = 61.2 bits (147), Expect = 9e-10, Method: Compositional matrix adjust.
Identities = 55/206 (26%), Positives = 86/206 (41%), Gaps = 18/206 (8%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSI----YRGSI--LKIPQITK 196
R+L V L C GHP P + W R+ I+ G ++G L I +T
Sbjct: 12 RNLNVRYQSNATLVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQLIIASVTD 71
Query: 197 EDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM-----DLECHVEA 251
+D T Y V G ++EVE I +PK G + + ++
Sbjct: 72 DD-ATVYQVRATNQGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVSIKIPFSG 130
Query: 252 YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKL 311
P P I W K Q ++ NN HY + FT + + +E++ G Y+ A N+
Sbjct: 131 KPDPVITWQK--GQDLIDNNGHYQV---IVTRSFT-SLVFPNGVERKDAGFYVVCAKNRF 184
Query: 312 GTSEKTVELFESIIPVCPPQTQPSEL 337
G +KTVEL + +P P + S++
Sbjct: 185 GIDQKTVELDVADVPDPPRGVKVSDV 210
>pdb|1QZ1|A Chain A, Crystal Structure Of The Ig 1-2-3 Fragment Of Ncam
Length = 291
Score = 60.5 bits (145), Expect = 1e-09, Method: Compositional matrix adjust.
Identities = 61/258 (23%), Positives = 109/258 (42%), Gaps = 23/258 (8%)
Query: 74 TGSSLIIRDSRFAIRY-DTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVR 132
G L R ++ + D SST T+ +I DAG Y+C V + A V++++
Sbjct: 41 NGEKLSPNQQRISVVWNDDDSSTLTIYNANID--DAGIYKCVVTAEDGTQSEATVNVKIF 98
Query: 133 RPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGS---IYRGSIL 189
+ ++ N+ EG+ + C P I W+ + ++ + + L
Sbjct: 99 Q-KLMFKNAPTPQEFKEGEDAVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYL 157
Query: 190 KIPQITKEDRGTYYCVAE-NGVGKGTRRNIAVEVEFAPVITVPK------PRLGQALQYD 242
+I I K D GTY C G+ ++I V V P + + LGQ++
Sbjct: 158 QIRGIKKTDEGTYRCEGRILARGEINFKDIQVIVNVPPTVQARQSIVNATANLGQSVT-- 215
Query: 243 MDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGS 302
L C + +P P + W K+ + + N + H + D+ ++ TIR ++K
Sbjct: 216 --LVCDADGFPEPTMSWTKD--GEPIENEEEDDEKHIFS-DDSSELTIR--NVDKNDEAE 268
Query: 303 YICRAANKLGTSEKTVEL 320
Y+C A NK G + ++ L
Sbjct: 269 YVCIAENKAGEQDASIHL 286
>pdb|2ILL|A Chain A, Anomalous Substructure Of Titin-A168169
Length = 195
Score = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 52/189 (27%), Positives = 78/189 (41%), Gaps = 18/189 (9%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSI----YRGSI--LKIPQITK 196
R+L V L C GHP P + W R+ I+ G ++G L I +T
Sbjct: 10 RNLNVRYQSNATLVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQLIIASVTD 69
Query: 197 EDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM-----DLECHVEA 251
+D T Y V G ++EVE I +PK G + + ++
Sbjct: 70 DD-ATVYQVRATNQGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVSIKIPFSG 128
Query: 252 YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKL 311
P P I W K Q ++ NN HY + FT + + +E++ G Y+ A N+
Sbjct: 129 KPDPVITWQK--GQDLIDNNGHYQV---IVTRSFT-SLVFPNGVERKDAGFYVVCAKNRF 182
Query: 312 GTSEKTVEL 320
G +KTVEL
Sbjct: 183 GIDQKTVEL 191
>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 = 59.7 bits (143), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 52/189 (27%), Positives = 78/189 (41%), Gaps = 18/189 (9%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSI----YRGSI--LKIPQITK 196
R+L V L C GHP P + W R+ I+ G ++G L I +T
Sbjct: 12 RNLNVRYQSNATLVCKVTGHPKPIVKWYRQGKEIIADGLKYRIQEFKGGYHQLIIASVTD 71
Query: 197 EDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM-----DLECHVEA 251
+D T Y V G ++EVE I +PK G + + ++
Sbjct: 72 DD-ATVYQVRATNQGGSVSGTASLEVEVPAKIHLPKTLEGMGAVHALRGEVVSIKIPFSG 130
Query: 252 YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKL 311
P P I W K Q ++ NN HY + FT + + +E++ G Y+ A N+
Sbjct: 131 KPDPVITWQK--GQDLIDNNGHYQV---IVTRSFT-SLVFPNGVERKDAGFYVVCAKNRF 184
Query: 312 GTSEKTVEL 320
G +KTVEL
Sbjct: 185 GIDQKTVEL 193
>pdb|3V6B|R Chain R, Vegfr-2VEGF-E Complex Structure
Length = 424
Score = 58.9 bits (141), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 65/281 (23%), Positives = 111/281 (39%), Gaps = 45/281 (16%)
Query: 78 LIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVI 137
L+ RD + + TL + + +D G Y C G+ K ++ +P V
Sbjct: 142 LVNRDLKTQSGSEMKKFLSTLTIDGVTRSDQGLYTCAASSGLMTKKNSTFVRVHEKPFVA 201
Query: 138 SDNSTRSLV-VSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITK 196
+ SLV + G+ V++ G+P P I W + N L + +I G +L I ++++
Sbjct: 202 FGSGMESLVEATVGERVRIPAKYLGYPPPEIKWYK-NGIPLESNHTIKAGHVLTIMEVSE 260
Query: 197 EDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQ--------ALQYD--MDLE 246
D G Y + N + K + ++ V + P P++G+ + QY L
Sbjct: 261 RDTGNYTVILTNPISKEKQSHVVSLVVYVP------PQIGEKSLISPVDSYQYGTTQTLT 314
Query: 247 CHVEAYPPP-AIVWI--------KEDTQQVLTNN-----QHYSISHFATAD--------- 283
C V A PPP I W E +Q V N + S+ F +
Sbjct: 315 CTVYAIPPPHHIHWYWQLEEECANEPSQAVSVTNPYPCEEWRSVEDFQGGNKIEVNKNQF 374
Query: 284 ---EFTDTTIRVITIEKRQYGS-YICRAANKLGTSEKTVEL 320
E + T+ + I+ + Y C A NK+G E+ +
Sbjct: 375 ALIEGKNKTVSTLVIQAANVSALYKCEAVNKVGRGERVISF 415
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 38/160 (23%), Positives = 62/160 (38%), Gaps = 28/160 (17%)
Query: 187 SILKIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD-- 244
S L I +T+ D+G Y C A +G+ T++N F V P G ++ ++
Sbjct: 160 STLTIDGVTRSDQGLYTCAASSGL--MTKKNST----FVRVHEKPFVAFGSGMESLVEAT 213
Query: 245 ------LECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKR 298
+ YPPP I W K L +N H T ++ + +R
Sbjct: 214 VGERVRIPAKYLGYPPPEIKWYKNGIP--LESNHTIKAGHVLT----------IMEVSER 261
Query: 299 QYGSYICRAANKLGTSEKTVELFESIIPVCPPQTQPSELL 338
G+Y N + + EK + S++ PPQ L+
Sbjct: 262 DTGNYTVILTNPI-SKEKQSHVV-SLVVYVPPQIGEKSLI 299
>pdb|2V5T|A Chain A, Crystal Structure Of Ncam2 Ig2-3
Length = 189
Score = 58.9 bits (141), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 47/180 (26%), Positives = 73/180 (40%), Gaps = 19/180 (10%)
Query: 149 EGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQIT-----KEDRGTYY 203
+G+ ++ C P P +SW N + T S R ++L + K D G Y
Sbjct: 16 QGEDAEVVCRVSSSPAPAVSWLYHNEEV--TTISDNRFAMLANNNLQILNINKSDEGIYR 73
Query: 204 CVAE-NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQY--DMDLECHVEAYPPPAIVWI 260
C G+ R+I V V P I++P+ + +M C P PAI W
Sbjct: 74 CEGRVEARGEIDFRDIIVIVNVPPAISMPQKSFNATAERGEEMTFSCRASGSPEPAISWF 133
Query: 261 KEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVEL 320
+ +++ N+ Y + ++T + V I G Y+CRA NK G EK L
Sbjct: 134 R--NGKLIEENEKYILKG-------SNTELTVRNIINSDGGPYVCRATNKAGEDEKQAFL 184
Score = 49.7 bits (117), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 41/141 (29%), Positives = 63/141 (44%), Gaps = 9/141 (6%)
Query: 80 IRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKIS-AEVDLQVRRPPVIS 138
I D+RFA+ + L + +I ++D G YRC+ + +I ++ + V PP IS
Sbjct: 46 ISDNRFAML-----ANNNLQILNINKSDEGIYRCEGRVEARGEIDFRDIIVIVNVPPAIS 100
Query: 139 -DNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSI--LKIPQIT 195
+ + G+ + C A G P P ISW R I I +GS L + I
Sbjct: 101 MPQKSFNATAERGEEMTFSCRASGSPEPAISWFRNGKLIEENEKYILKGSNTELTVRNII 160
Query: 196 KEDRGTYYCVAENGVGKGTRR 216
D G Y C A N G+ ++
Sbjct: 161 NSDGGPYVCRATNKAGEDEKQ 181
>pdb|2XYC|A Chain A, Crystal Structure Of Ncam2 Igiv-Fn3i
Length = 291
Score = 58.2 bits (139), Expect = 9e-09, Method: Compositional matrix adjust.
Identities = 50/205 (24%), Positives = 88/205 (42%), Gaps = 27/205 (13%)
Query: 149 EGQPVQLECFAGGHPTPRISWRRENNAILPTGGSI-----------YRGSILKIPQITKE 197
E V L C A G P P I+W+R + T G + S L I +
Sbjct: 14 ENGQVTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHGSSSLHIKDVKLS 73
Query: 198 DRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD-----MDLECHVEAY 252
D G Y C A + +G G ++++ +++E+A PK Q + Y +++ C V++
Sbjct: 74 DSGRYDCEAASRIG-GHQKSMYLDIEYA-----PKFISNQTIYYSWEGNPINISCDVKSN 127
Query: 253 PPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLG 312
PP +I W ++ + VL ++ ++T + + + +G Y C A N +G
Sbjct: 128 PPASIHWRRD--KLVLPAKNTTNLKTYSTGRKM---ILEIAPTSDNDFGRYNCTATNHIG 182
Query: 313 TSEKTVELFESIIPVCPPQTQPSEL 337
T + L + +P P + EL
Sbjct: 183 TRFQEYILALADVPSSPYGVKIIEL 207
Score = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 42/139 (30%), Positives = 65/139 (46%), Gaps = 16/139 (11%)
Query: 82 DSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVI--IGINNKISAEVDLQVRRPPVISD 139
D R ++ SS+ L +KD++ +D+G Y C+ IG + K S +D++ P IS+
Sbjct: 51 DGRIEVKGQHGSSS--LHIKDVKLSDSGRYDCEAASRIGGHQK-SMYLDIEY-APKFISN 106
Query: 140 NSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGG-------SIYRGSILKIP 192
+ EG P+ + C +P I WRR+ +LP S R IL+I
Sbjct: 107 QTI--YYSWEGNPINISCDVKSNPPASIHWRRD-KLVLPAKNTTNLKTYSTGRKMILEIA 163
Query: 193 QITKEDRGTYYCVAENGVG 211
+ D G Y C A N +G
Sbjct: 164 PTSDNDFGRYNCTATNHIG 182
>pdb|2JLL|A Chain A, Crystal Structure Of Ncam2 Igiv-Fn3ii
Length = 389
Score = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 47/197 (23%), Positives = 84/197 (42%), Gaps = 27/197 (13%)
Query: 149 EGQPVQLECFAGGHPTPRISWRRENNAILPTGGSI-----------YRGSILKIPQITKE 197
E V L C A G P P I+W+R + T G + S L I +
Sbjct: 14 ENGQVTLVCDAEGEPIPEITWKRAVDGFTFTEGDKSLDGRIEVKGQHGSSSLHIKDVKLS 73
Query: 198 DRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD-----MDLECHVEAY 252
D G Y C A + +G G ++++ +++E+AP Q + Y +++ C V++
Sbjct: 74 DSGRYDCEAASRIG-GHQKSMYLDIEYAPKFIS-----NQTIYYSWEGNPINISCDVKSN 127
Query: 253 PPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLG 312
PP +I W ++ + VL ++ ++T + + + +G Y C A N +G
Sbjct: 128 PPASIHWRRD--KLVLPAKNTTNLKTYSTGRKM---ILEIAPTSDNDFGRYNCTATNHIG 182
Query: 313 TSEKTVELFESIIPVCP 329
T + L + +P P
Sbjct: 183 TRFQEYILALADVPSSP 199
Score = 52.8 bits (125), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 42/139 (30%), Positives = 65/139 (46%), Gaps = 16/139 (11%)
Query: 82 DSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVI--IGINNKISAEVDLQVRRPPVISD 139
D R ++ SS+ L +KD++ +D+G Y C+ IG + K S +D++ P IS+
Sbjct: 51 DGRIEVKGQHGSSS--LHIKDVKLSDSGRYDCEAASRIGGHQK-SMYLDIEY-APKFISN 106
Query: 140 NSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGG-------SIYRGSILKIP 192
+ EG P+ + C +P I WRR+ +LP S R IL+I
Sbjct: 107 QTI--YYSWEGNPINISCDVKSNPPASIHWRRD-KLVLPAKNTTNLKTYSTGRKMILEIA 163
Query: 193 QITKEDRGTYYCVAENGVG 211
+ D G Y C A N +G
Sbjct: 164 PTSDNDFGRYNCTATNHIG 182
>pdb|1RY7|B Chain B, Crystal Structure Of The 3 Ig Form Of Fgfr3c In Complex
With Fgf1
Length = 334
Score = 57.8 bits (138), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 53/192 (27%), Positives = 76/192 (39%), Gaps = 17/192 (8%)
Query: 145 LVVSEGQPVQLECFAGGHPTPRISW---RRENNAILPTGGSIYRGS--ILKIPQITKEDR 199
L V V+ C A G+PTP ISW RE GG R L + + DR
Sbjct: 133 LAVPAANTVRFRCPAAGNPTPSISWLKNGREFRGEHRIGGIKLRHQQWSLVMESVVPSDR 192
Query: 200 GTYYCVAENGVGKGTRRNIAVEV----EFAPVITVPKPRLGQA-LQYDMDLECHVEAYPP 254
G Y CV EN G R+ ++V P++ P A L D++ C V +
Sbjct: 193 GNYTCVVENKFGS-IRQTYTLDVLERSPHRPILQAGLPANQTAVLGSDVEFHCKVYSDAQ 251
Query: 255 PAIVWIKE---DTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY---GSYICRAA 308
P I W+K + +V + Y TD + V+++ + G Y C A
Sbjct: 252 PHIQWLKHVEVNGSKVGPDGTPYVTVLKTAGANTTDKELEVLSLHNVTFEDAGEYTCLAG 311
Query: 309 NKLGTSEKTVEL 320
N +G S + L
Sbjct: 312 NSIGFSHHSAWL 323
>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 = 57.4 bits (137), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 52/202 (25%), Positives = 84/202 (41%), Gaps = 32/202 (15%)
Query: 134 PPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWR-------------RENNAILPTG 180
PP I ++ + L+VS+G+P L C A G PTP I W R + +LP+G
Sbjct: 9 PPRIVEHPS-DLIVSKGEPATLNCKAEGRPTPTIEWYKGGERVETDKDDPRSHRMLLPSG 67
Query: 181 GSIYRGSILKI--PQITKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPR-LGQ 237
+ L+I + ++ D G Y CVA N +G+ + ++EV P +
Sbjct: 68 SLFF----LRIVHGRKSRPDEGVYVCVARNYLGEAVSHDASLEVAILRDDFRQNPSDVMV 123
Query: 238 ALQYDMDLECH-VEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIE 296
A+ +EC +P P I W K+D + ++ +I + +
Sbjct: 124 AVGEPAVMECQPPRGHPEPTISW-KKDGSPLDDKDERITIR---------GGKLMITYTR 173
Query: 297 KRQYGSYICRAANKLGTSEKTV 318
K G Y+C N +G E V
Sbjct: 174 KSDAGKYVCVGTNMVGERESEV 195
>pdb|2XY1|A Chain A, Crystal Structure Of Ncam2 Ig3-4
Length = 192
Score = 56.2 bits (134), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 44/176 (25%), Positives = 70/176 (39%), Gaps = 10/176 (5%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSI--LKIPQITKEDRGTYYCVAE 207
G+ + C A G P P ISW R I I +GS L + I D G Y C A
Sbjct: 19 GEEMTFSCRASGSPEPAISWFRNGKLIEENEKYILKGSNTELTVRNIINSDGGPYVCRAT 78
Query: 208 NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD---MDLECHVEAYPPPAIVWIKEDT 264
N G+ ++ ++V P I +L Y+ + L C E P P I W +
Sbjct: 79 NKAGEDEKQAF-LQVFVQPHII----QLKNETTYENGQVTLVCDAEGEPIPEITWKRAVD 133
Query: 265 QQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVEL 320
T + +++ + ++ G Y C AA+++G +K++ L
Sbjct: 134 GFTFTEGDKSLDGRIEVKGQHGSSSLHIKDVKLSDSGRYDCEAASRIGGHQKSMYL 189
>pdb|3S97|C Chain C, Ptprz Cntn1 Complex
pdb|3S97|D Chain D, Ptprz Cntn1 Complex
Length = 201
Score = 55.1 bits (131), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 30/63 (47%), Positives = 35/63 (55%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENG 209
GQ V LECFA G+P P I WR+ + T G++LKI I ED G Y C AEN
Sbjct: 128 GQNVTLECFALGNPVPDIRWRKVLEPMPSTAEISTSGAVLKIFNIQLEDEGIYECEAENI 187
Query: 210 VGK 212
GK
Sbjct: 188 RGK 190
>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 = 54.7 bits (130), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 46/183 (25%), Positives = 81/183 (44%), Gaps = 12/183 (6%)
Query: 145 LVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYR-----GSIL--KIPQITKE 197
LVV + +P L C G P P I W ++ + +R G++ + Q KE
Sbjct: 19 LVVKKNEPATLNCKVEGKPEPTIEWFKDGEPVSTNEKKSHRVQFKDGALFFYRTMQGKKE 78
Query: 198 -DRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD-LECH-VEAYPP 254
D G Y+CVA+N VG+ R+ ++++ +P+ + + + LEC + P
Sbjct: 79 QDGGEYWCVAKNRVGQAVSRHASLQIAVLRDDFRVEPKDTRVAKGETALLECGPPKGIPE 138
Query: 255 PAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
P ++WIK+ L + + S + + + +E G+Y C A N +GT
Sbjct: 139 PTLIWIKDGVP--LDDLKAMSFGASSRVRIVDGGNLLISNVEPIDEGNYKCIAQNLVGTR 196
Query: 315 EKT 317
E +
Sbjct: 197 ESS 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 = 54.7 bits (130), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 46/183 (25%), Positives = 81/183 (44%), Gaps = 12/183 (6%)
Query: 145 LVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYR-----GSIL--KIPQITKE 197
LVV + +P L C G P P I W ++ + +R G++ + Q KE
Sbjct: 19 LVVKKNEPATLNCKVEGKPEPTIEWFKDGEPVSTNEKKSHRVQFKDGALFFYRTMQGKKE 78
Query: 198 -DRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD-LECH-VEAYPP 254
D G Y+CVA+N VG+ R+ ++++ +P+ + + + LEC + P
Sbjct: 79 QDGGEYWCVAKNRVGQAVSRHASLQIAVLRDDFRVEPKDTRVAKGETALLECGPPKGIPE 138
Query: 255 PAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
P ++WIK+ L + + S + + + +E G+Y C A N +GT
Sbjct: 139 PTLIWIKDGVP--LDDLKAMSFGASSRVRIVDGGNLLISNVEPIDEGNYKCIAQNLVGTR 196
Query: 315 EKT 317
E +
Sbjct: 197 ESS 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 = 53.5 bits (127), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 57/199 (28%), Positives = 79/199 (39%), Gaps = 33/199 (16%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENN---------AILPTGGSIYRGSILKI-PQITKEDR 199
G C A G P P I WR+ +L G I SIL+I P D
Sbjct: 23 GGVASFYCAARGDPPPSIVWRKNGKKVSGTQSRYTVLEQPGGI---SILRIEPVRAGRDD 79
Query: 200 GTYYCVAENGVGKGTRRNIAVEVEFA-------PVIT-VPKPRLGQALQYDMDLECHVEA 251
Y CVAENGVG + + + PVIT P R+ + + + + + C
Sbjct: 80 APYECVAENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRVIE-VGHTVLMTCKAIG 138
Query: 252 YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKL 311
P P I WIK T +V +N YS+ D +++ + G Y C A N +
Sbjct: 139 NPTPNIYWIKNQT-KVDMSNPRYSLK---------DGFLQIENSREEDQGKYECVAENSM 188
Query: 312 GTSE-KTVELFESIIPVCP 329
GT K L+ + V P
Sbjct: 189 GTEHSKATNLYVKVRRVPP 207
Score = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 50/202 (24%), Positives = 82/202 (40%), Gaps = 26/202 (12%)
Query: 20 TAQRTPTISYISQEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLI 79
+A P I Q Q +GG C+ + ++W K G +
Sbjct: 4 SAAHPPEIIRKPQNQGVRVGGVASFYCAARGDPPPSIVWRK-------------NGKKVS 50
Query: 80 IRDSRFAIRYDTASSTYTLLVKDIQET-DAGYYRCQVIIGINNKISAEVDLQV----RRP 134
SR+ + + L ++ ++ D Y C G+ + +SA+ L + + P
Sbjct: 51 GTQSRYTV-LEQPGGISILRIEPVRAGRDDAPYECVAENGVGDAVSADATLTIYEGDKTP 109
Query: 135 ---PVISDN-STRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAI-LPTGGSIYRGSIL 189
PVI+ TR V+ G V + C A G+PTP I W + + + + L
Sbjct: 110 AGFPVITQGPGTR--VIEVGHTVLMTCKAIGNPTPNIYWIKNQTKVDMSNPRYSLKDGFL 167
Query: 190 KIPQITKEDRGTYYCVAENGVG 211
+I +ED+G Y CVAEN +G
Sbjct: 168 QIENSREEDQGKYECVAENSMG 189
>pdb|2YD1|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Drosophila Receptor Protein Tyrosine Phosphatase Dlar
Length = 212
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 55/191 (28%), Positives = 76/191 (39%), Gaps = 33/191 (17%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENN---------AILPTGGSIYRGSILKI-PQITKEDR 199
G C A G P P I WR+ +L G I SIL+I P D
Sbjct: 21 GGVASFYCAARGDPPPSIVWRKNGKKVSGTQSRYTVLEQPGGI---SILRIEPVRAGRDD 77
Query: 200 GTYYCVAENGVGKGTRRNIAVEVEFA-------PVIT-VPKPRLGQALQYDMDLECHVEA 251
Y CVAENGVG + + + PVIT P R+ + + + + + C
Sbjct: 78 APYECVAENGVGDAVSADATLTIYEGDKTPAGFPVITQGPGTRVIE-VGHTVLMTCKAIG 136
Query: 252 YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKL 311
P P I WIK T +V +N YS+ D +++ + G Y C A N +
Sbjct: 137 NPTPNIYWIKNQT-KVDMSNPRYSLK---------DGFLQIENSREEDQGKYECVAENSM 186
Query: 312 GTSE-KTVELF 321
GT K L+
Sbjct: 187 GTEHSKATNLY 197
Score = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 50/202 (24%), Positives = 81/202 (40%), Gaps = 26/202 (12%)
Query: 20 TAQRTPTISYISQEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLI 79
T P I Q Q +GG C+ + ++W K G +
Sbjct: 2 TGAHPPEIIRKPQNQGVRVGGVASFYCAARGDPPPSIVWRK-------------NGKKVS 48
Query: 80 IRDSRFAIRYDTASSTYTLLVKDIQET-DAGYYRCQVIIGINNKISAEVDLQV----RRP 134
SR+ + + L ++ ++ D Y C G+ + +SA+ L + + P
Sbjct: 49 GTQSRYTV-LEQPGGISILRIEPVRAGRDDAPYECVAENGVGDAVSADATLTIYEGDKTP 107
Query: 135 ---PVISDN-STRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAI-LPTGGSIYRGSIL 189
PVI+ TR V+ G V + C A G+PTP I W + + + + L
Sbjct: 108 AGFPVITQGPGTR--VIEVGHTVLMTCKAIGNPTPNIYWIKNQTKVDMSNPRYSLKDGFL 165
Query: 190 KIPQITKEDRGTYYCVAENGVG 211
+I +ED+G Y CVAEN +G
Sbjct: 166 QIENSREEDQGKYECVAENSMG 187
>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 = 52.4 bits (124), Expect = 4e-07, Method: Compositional matrix adjust.
Identities = 50/186 (26%), Positives = 75/186 (40%), Gaps = 21/186 (11%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G V+L CSV+ ++ + W+K +++ + I L
Sbjct: 17 GQPVKLNCSVEGXEEPDIQWVK--------------DGAVVQNLDQLYIPVSEQHWIGFL 62
Query: 99 LVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECF 158
+K ++ +DAG Y CQV G +IS V L V P + + L V P QL C
Sbjct: 63 SLKSVERSDAGRYWCQVEDGGETEISQPVWLTVEGVPFFTVEP-KDLAVPPNAPFQLSCE 121
Query: 159 AGGHPTP-RISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVGKGTRRN 217
A G P P I W R I GG S+L + +T+ + C A N G + R
Sbjct: 122 AVGPPEPVTIVWWRGTTKI---GGPAPSPSVLNVTGVTQST--XFSCEAHNLKGLASSRT 176
Query: 218 IAVEVE 223
V ++
Sbjct: 177 ATVHLQ 182
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 36/129 (27%), Positives = 53/129 (41%), Gaps = 9/129 (6%)
Query: 145 LVVSEGQPVQLECFAGGHPTPRISWRRENNAI-------LPTGGSIYRGSILKIPQITKE 197
L VS+GQPV+L C G P I W ++ + +P + G L + + +
Sbjct: 12 LTVSQGQPVKLNCSVEGXEEPDIQWVKDGAVVQNLDQLYIPVSEQHWIG-FLSLKSVERS 70
Query: 198 DRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPA- 256
D G Y+C E+G + + + VE P TV L L C P P
Sbjct: 71 DAGRYWCQVEDGGETEISQPVWLTVEGVPFFTVEPKDLAVPPNAPFQLSCEAVGPPEPVT 130
Query: 257 IVWIKEDTQ 265
IVW + T+
Sbjct: 131 IVWWRGTTK 139
>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 = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 53/195 (27%), Positives = 80/195 (41%), Gaps = 31/195 (15%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAI----LPTGG---SIYRG-SILKIPQI 194
+S+VV EG E G P P +SW R+ I LP G S G + L IP +
Sbjct: 13 QSVVVLEGSTATFEAHISGFPVPEVSWFRDGQVISTSTLP--GVQISFSDGRAKLTIPAV 70
Query: 195 TKEDRGTYYCVAENGVGKGTR-RNIAVEVEFAPVITVPKPRLGQALQ-------YDMDLE 246
TK + G Y A NG G+ T + V+ E AP P Q LQ + L+
Sbjct: 71 TKANSGRYSLKATNGSGQATSTAELLVKAETAP------PNFVQRLQSMTVRQGSQVRLQ 124
Query: 247 CHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICR 306
V P P + + ++ + + ++ + IS E ++ + G+Y
Sbjct: 125 VRVTGIPTPVVKFYRDGAE--IQSSLDFQISQ-----EGDLYSLLIAEAYPEDSGTYSVN 177
Query: 307 AANKLGTSEKTVELF 321
A N +G + T EL
Sbjct: 178 ATNSVGRATSTAELL 192
>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 = 51.6 bits (122), Expect = 7e-07, Method: Compositional matrix adjust.
Identities = 53/195 (27%), Positives = 81/195 (41%), Gaps = 31/195 (15%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAI----LPTGG---SIYRG-SILKIPQI 194
+S+VV EG E G P P +SW R+ I LP G S G + L IP +
Sbjct: 13 QSVVVLEGSTATFEAHISGFPVPEVSWFRDGQVISTSTLP--GVQISFSDGRAKLTIPAV 70
Query: 195 TKEDRGTYYCVAENGVGKGTR-RNIAVEVEFAPVITVPKPRLGQALQ-------YDMDLE 246
TK + G Y A NG G+ T + V+ E AP P Q LQ + L+
Sbjct: 71 TKANSGRYSLKATNGSGQATSTAELLVKAETAP------PNFVQRLQSMTVRQGSQVRLQ 124
Query: 247 CHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICR 306
V P P + + ++ + + ++ + IS D + ++ + G+Y
Sbjct: 125 VRVTGIPTPVVKFYRDGAE--IQSSLDFQISQ--EGDLY---SLLIAEAYPEDSGTYSVN 177
Query: 307 AANKLGTSEKTVELF 321
A N +G + T EL
Sbjct: 178 ATNSVGRATSTAELL 192
>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 = 51.2 bits (121), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 43/161 (26%), Positives = 60/161 (37%), Gaps = 2/161 (1%)
Query: 51 AQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGY 110
A D +I+ N + P G + R++ S LL K D G
Sbjct: 226 AGDVTMIYCMYGSNPMGYPNYFKNGKDVNGNPEDRITRHNRTSGK-RLLFKTTLPEDEGV 284
Query: 111 YRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWR 170
Y C+V G+ + L V P + +VV +GQ V + C G P P + W
Sbjct: 285 YTCEVDNGVGKPQKHSLKLTVVSAPKYEQKPEKVIVVKQGQDVTIPCKVTGLPAPNVVWS 344
Query: 171 RENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVG 211
N L G + S L I + D+G Y C A N G
Sbjct: 345 H-NAKPLSGGRATVTDSGLVIKGVKNGDKGYYGCRATNEHG 384
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 58/139 (41%), Gaps = 32/139 (23%)
Query: 197 EDRGTYYCVAENGVGKGTRRNIAVEVEFAP--------VITVPKPRLGQALQYDMDLECH 248
ED G Y C +NGVGK + ++ + V AP VI V + GQ D+ + C
Sbjct: 280 EDEGVYTCEVDNGVGKPQKHSLKLTVVSAPKYEQKPEKVIVV---KQGQ----DVTIPCK 332
Query: 249 VEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAA 308
V P P +VW H + TD+ + + ++ G Y CRA
Sbjct: 333 VTGLPAPNVVW------------SHNAKPLSGGRATVTDSGLVIKGVKNGDKGYYGCRAT 380
Query: 309 NKLGTSEKTVELFESIIPV 327
N+ G + FE+++ V
Sbjct: 381 NEHGD-----KYFETLVQV 394
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 44/147 (29%), Positives = 60/147 (40%), Gaps = 24/147 (16%)
Query: 129 LQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTP-RISWRRE---------NNAILP 178
L V + PV+ D L E P LEC G+ + SW+++ N A+
Sbjct: 1 LPVDKYPVLKDQPAEVLF-RENNPTVLECIIEGNDQGVKYSWKKDGKSYNWQEHNAALRK 59
Query: 179 TGGSIYRGSILKIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVEF---APVITVPK-PR 234
GS+ + PQ + D G Y C AE G + R I+ + +P T K P
Sbjct: 60 DEGSL----VFLRPQAS--DEGHYQCFAETPAGVASSRVISFRKTYLIASPAKTHEKTPI 113
Query: 235 LGQALQYDMDLECHVEAYPPPAIVWIK 261
G+ Q D L AYP P I W K
Sbjct: 114 EGRPFQLDCVLP---NAYPKPLITWKK 137
>pdb|2V9T|A Chain A, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 117
Score = 51.2 bits (121), Expect = 1e-06, Method: Composition-based stats.
Identities = 33/104 (31%), Positives = 52/104 (50%), Gaps = 20/104 (19%)
Query: 134 PPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWR-------------RENNAILPTG 180
PP I ++ + L+VS+G+P L C A G PTP I W R + +LP+G
Sbjct: 9 PPRIVEHPS-DLIVSKGEPATLNCKAEGRPTPTIEWYKGGERVETDKDDPRSHRMLLPSG 67
Query: 181 GSIYRGSILKI--PQITKEDRGTYYCVAENGVGKGTRRNIAVEV 222
+ L+I + ++ D G Y CVA N +G+ + ++EV
Sbjct: 68 SLFF----LRIVHGRKSRPDEGVYVCVARNYLGEAVSHDASLEV 107
>pdb|2V5M|A Chain A, Structural Basis For Dscam Isoform Specificity
Length = 388
Score = 50.1 bits (118), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 53/115 (46%), Gaps = 14/115 (12%)
Query: 97 TLLVKDIQETDAGYYRCQVIIGINNKI---SAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
TL++KD D+G Y C V NN + S E L V P+ + + V G+P
Sbjct: 271 TLIIKDAVVEDSGKYLCVV----NNSVGGESVETVLTVT-APLSAKIDPPTQTVDFGRPA 325
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAEN 208
C G+P +SW ++ AI + S+L+I + KED+G Y C N
Sbjct: 326 VFTCQYTGNPIKTVSWMKDGKAIG------HSESVLRIESVKKEDKGMYQCFVRN 374
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 38/175 (21%), Positives = 61/175 (34%), Gaps = 26/175 (14%)
Query: 153 VQLECFAGGHPTPRISW-------RRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCV 205
+ L C A G P P W R+ +L G+++ I ED G Y CV
Sbjct: 230 ISLLCPAQGFPAPSFRWYKFIEGTTRKQAVVLNDRVKQVSGTLI-IKDAVVEDSGKYLCV 288
Query: 206 AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKEDTQ 265
N VG G + V + P C P + W+K+
Sbjct: 289 VNNSVG-GESVETVLTVTAPLSAKIDPPTQTVDFGRPAVFTCQYTGNPIKTVSWMKDGK- 346
Query: 266 QVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVEL 320
+I H +++ +R+ +++K G Y C N ++E + EL
Sbjct: 347 ---------AIGH-------SESVLRIESVKKEDKGMYQCFVRNDRESAEASAEL 385
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 39/98 (39%), Gaps = 9/98 (9%)
Query: 132 RRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISW-RRENNAI--LPTGGSIYRGSI 188
++ PV T + S ++EC A G+P P I W R + A+ +P I
Sbjct: 1 QKGPVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGK 60
Query: 189 LKIPQITKED------RGTYYCVAENGVGKGTRRNIAV 220
L P ED Y C+A N G R++ V
Sbjct: 61 LVFPPFRAEDYRQEVHAQVYACLARNQFGSIISRDVHV 98
>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 = 2e-06, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 53/115 (46%), Gaps = 14/115 (12%)
Query: 97 TLLVKDIQETDAGYYRCQVIIGINNKI---SAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
TL++KD D+G Y C V NN + S E L V P+ + + V G+P
Sbjct: 277 TLIIKDAVVEDSGKYLCVV----NNSVGGESVETVLTVT-APLSAKIDPPTQTVDFGRPA 331
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAEN 208
C G+P +SW ++ AI + S+L+I + KED+G Y C N
Sbjct: 332 VFTCQYTGNPIKTVSWMKDGKAIG------HSESVLRIESVKKEDKGMYQCFVRN 380
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 38/175 (21%), Positives = 61/175 (34%), Gaps = 26/175 (14%)
Query: 153 VQLECFAGGHPTPRISW-------RRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCV 205
+ L C A G P P W R+ +L G+++ I ED G Y CV
Sbjct: 236 ISLLCPAQGFPAPSFRWYKFIEGTTRKQAVVLNDRVKQVSGTLI-IKDAVVEDSGKYLCV 294
Query: 206 AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKEDTQ 265
N VG G + V + P C P + W+K+
Sbjct: 295 VNNSVG-GESVETVLTVTAPLSAKIDPPTQTVDFGRPAVFTCQYTGNPIKTVSWMKDGK- 352
Query: 266 QVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVEL 320
+I H +++ +R+ +++K G Y C N ++E + EL
Sbjct: 353 ---------AIGH-------SESVLRIESVKKEDKGMYQCFVRNDRESAEASAEL 391
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 39/98 (39%), Gaps = 9/98 (9%)
Query: 132 RRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISW-RRENNAI--LPTGGSIYRGSI 188
++ PV T + S ++EC A G+P P I W R + A+ +P I
Sbjct: 7 QKGPVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGK 66
Query: 189 LKIPQITKED------RGTYYCVAENGVGKGTRRNIAV 220
L P ED Y C+A N G R++ V
Sbjct: 67 LVFPPFRAEDYRQEVHAQVYACLARNQFGSIISRDVHV 104
>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 = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 36/115 (31%), Positives = 53/115 (46%), Gaps = 14/115 (12%)
Query: 97 TLLVKDIQETDAGYYRCQVIIGINNKI---SAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
TL++KD D+G Y C V NN + S E L V P+ + + V G+P
Sbjct: 274 TLIIKDAVVEDSGKYLCVV----NNSVGGESVETVLTVT-APLSAKIDPPTQTVDFGRPA 328
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAEN 208
C G+P +SW ++ AI + S+L+I + KED+G Y C N
Sbjct: 329 VFTCQYTGNPIKTVSWMKDGKAIG------HSESVLRIESVKKEDKGMYQCFVRN 377
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 59/293 (20%), Positives = 99/293 (33%), Gaps = 33/293 (11%)
Query: 39 GGTVELKCSV-QYAQDYPVIWMKVD---RNKVTEPLPISTGSSLIIRDSRFAIRYDTASS 94
G +V +KC + Y D+ + + +D RN + G L++ IR
Sbjct: 118 GNSVVMKCEIPSYVADFVFVDLWLDSEGRNYYPNNAAETDGKYLVLPSGELHIREVGPED 177
Query: 95 TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQ 154
Y + G R G ++ + RP V + + + V
Sbjct: 178 GYKSYQCRTKHRLTGETRLSATKG---RLVITEPVGSVRPKVNPQDKHQFIDVELASSYS 234
Query: 155 LECFAGGHPTPRISW-------RRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAE 207
L C A +PTP W R+ +L G+++ I ED G Y CV
Sbjct: 235 LLCMAQSYPTPSFRWYKFIEGTTRKQAVVLNDRVKQVSGTLI-IKDAVVEDSGKYLCVVN 293
Query: 208 NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKEDTQQV 267
N VG G + V + P C P + W+K+
Sbjct: 294 NSVG-GESVETVLTVTAPLSAKIDPPTQTVDFGRPAVFTCQYTGNPIKTVSWMKDGK--- 349
Query: 268 LTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVEL 320
+I H +++ +R+ +++K G Y C N ++E + EL
Sbjct: 350 -------AIGH-------SESVLRIESVKKEDKGMYQCFVRNDRESAEASAEL 388
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 76/203 (37%), Gaps = 36/203 (17%)
Query: 132 RRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISW-RRENNAI--LPTGGSIYRGSI 188
++ PV T + S ++EC A G+P P I W R + A+ +P I
Sbjct: 1 QKGPVFLKEPTNRIDFSNSTGAEIECKASGNPMPEIIWIRSDGTAVGDVPGLRQISSDGK 60
Query: 189 LKIPQITKED------RGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L P ED Y C+A N G R++ V A VI Q+ + +
Sbjct: 61 LVFPPFRAEDYRQEVHAQVYACLARNQFGSIISRDVHVR---AVVI--------QSYESE 109
Query: 243 MD-----------LECHVEAYPPPAI---VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
D ++C + +Y + +W+ + + NN + + +
Sbjct: 110 ADNEYVIRGNSVVMKCEIPSYVADFVFVDLWLDSEGRNYYPNNAAETDGKYLVLPS-GEL 168
Query: 289 TIRVITIEKRQYGSYICRAANKL 311
IR + E Y SY CR ++L
Sbjct: 169 HIREVGPED-GYKSYQCRTKHRL 190
>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 = 49.7 bits (117), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 45/190 (23%), Positives = 73/190 (38%), Gaps = 15/190 (7%)
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRRENNAILPT---GGSIYRGSILKI--PQITKEDRG 200
V + V+ +C + G P P + W + P GG R + I + D+G
Sbjct: 27 AVPAAKTVKFKCPSSGTPNPTLRWLKNGKEFKPDHRIGGYKVRYATWSIIMDSVVPSDKG 86
Query: 201 TYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQ----ALQYDMDLECHVEAYPPPA 256
Y C+ EN G VE +P + + L AL +++ C V + P P
Sbjct: 87 NYTCIVENEYGSINHTYQLDVVERSPHRPILQAGLPANKTVALGSNVEFMCKVYSDPQPH 146
Query: 257 IVWIKE---DTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY---GSYICRAANK 310
I W+K + ++ +N Y TD + V+ + + G Y C A N
Sbjct: 147 IQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEMEVLHLRNVSFEDAGEYTCLAGNS 206
Query: 311 LGTSEKTVEL 320
+G S + L
Sbjct: 207 IGLSHHSAWL 216
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 38/153 (24%), Positives = 66/153 (43%), Gaps = 28/153 (18%)
Query: 81 RDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQV---IIGINNKISAEVDLQVRRP--P 135
R + +RY +T+++++ + +D G Y C V IN+ + ++D+ R P P
Sbjct: 62 RIGGYKVRY----ATWSIIMDSVVPSDKGNYTCIVENEYGSINH--TYQLDVVERSPHRP 115
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRR--ENNA------------ILPTGG 181
++ + V+ G V+ C P P I W + E N IL T G
Sbjct: 116 ILQAGLPANKTVALGSNVEFMCKVYSDPQPHIQWLKHIEVNGSKIGPDNLPYVQILKTAG 175
Query: 182 ---SIYRGSILKIPQITKEDRGTYYCVAENGVG 211
+ +L + ++ ED G Y C+A N +G
Sbjct: 176 VNTTDKEMEVLHLRNVSFEDAGEYTCLAGNSIG 208
>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 = 49.3 bits (116), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 45/190 (23%), Positives = 73/190 (38%), Gaps = 15/190 (7%)
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRRENNAILPT---GGSIYRGSILKI--PQITKEDRG 200
V + V+ +C + G P P + W + P GG R + I + D+G
Sbjct: 27 AVPAAKTVKFKCPSSGTPQPTLRWLKNGKEFKPDHRIGGYKVRYATWSIIMDSVVPSDKG 86
Query: 201 TYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQ----ALQYDMDLECHVEAYPPPA 256
Y C+ EN G VE +P + + L AL +++ C V + P P
Sbjct: 87 NYTCIVENEYGSINHTYQLDVVERSPHRPILQAGLPANKTVALGSNVEFMCKVYSDPQPH 146
Query: 257 IVWIKE---DTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY---GSYICRAANK 310
I W+K + ++ +N Y TD + V+ + + G Y C A N
Sbjct: 147 IQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEMEVLHLRNVSFEDAGEYTCLAGNS 206
Query: 311 LGTSEKTVEL 320
+G S + L
Sbjct: 207 IGLSHHSAWL 216
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 38/153 (24%), Positives = 66/153 (43%), Gaps = 28/153 (18%)
Query: 81 RDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQV---IIGINNKISAEVDLQVRRP--P 135
R + +RY +T+++++ + +D G Y C V IN+ + ++D+ R P P
Sbjct: 62 RIGGYKVRY----ATWSIIMDSVVPSDKGNYTCIVENEYGSINH--TYQLDVVERSPHRP 115
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRR--ENNA------------ILPTGG 181
++ + V+ G V+ C P P I W + E N IL T G
Sbjct: 116 ILQAGLPANKTVALGSNVEFMCKVYSDPQPHIQWLKHIEVNGSKIGPDNLPYVQILKTAG 175
Query: 182 ---SIYRGSILKIPQITKEDRGTYYCVAENGVG 211
+ +L + ++ ED G Y C+A N +G
Sbjct: 176 VNTTDKEMEVLHLRNVSFEDAGEYTCLAGNSIG 208
>pdb|3OJV|C Chain C, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr1c Exhibiting An Ordered Ligand
Specificity-Determining Betac'-Betae Loop
pdb|3OJV|D Chain D, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr1c Exhibiting An Ordered Ligand
Specificity-Determining Betac'-Betae Loop
Length = 226
Score = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 45/190 (23%), Positives = 73/190 (38%), Gaps = 15/190 (7%)
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRRENNAILP---TGGSIYRGSILKI--PQITKEDRG 200
V + V+ +C + G P P + W + P GG R + I + D+G
Sbjct: 28 AVPAAKTVKFKCPSSGTPQPTLRWLKNGKEFKPDHRIGGYKVRYATWSIIMDSVVPSDKG 87
Query: 201 TYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQ----ALQYDMDLECHVEAYPPPA 256
Y C+ EN G VE +P + + L AL +++ C V + P P
Sbjct: 88 NYTCIVENEYGSINHTYQLDVVERSPHRPILQAGLPANKTVALGSNVEFMCKVYSDPQPH 147
Query: 257 IVWIKE---DTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY---GSYICRAANK 310
I W+K + ++ +N Y TD + V+ + + G Y C A N
Sbjct: 148 IQWLKHIEVNGSKIGPDNLPYVQILKTAGVNTTDKEMEVLHLRNVSFEDAGEYTCLAGNS 207
Query: 311 LGTSEKTVEL 320
+G S + L
Sbjct: 208 IGLSHHSAWL 217
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 38/153 (24%), Positives = 66/153 (43%), Gaps = 28/153 (18%)
Query: 81 RDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQV---IIGINNKISAEVDLQVRRP--P 135
R + +RY +T+++++ + +D G Y C V IN+ + ++D+ R P P
Sbjct: 63 RIGGYKVRY----ATWSIIMDSVVPSDKGNYTCIVENEYGSINH--TYQLDVVERSPHRP 116
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRR--ENNA------------ILPTGG 181
++ + V+ G V+ C P P I W + E N IL T G
Sbjct: 117 ILQAGLPANKTVALGSNVEFMCKVYSDPQPHIQWLKHIEVNGSKIGPDNLPYVQILKTAG 176
Query: 182 ---SIYRGSILKIPQITKEDRGTYYCVAENGVG 211
+ +L + ++ ED G Y C+A N +G
Sbjct: 177 VNTTDKEMEVLHLRNVSFEDAGEYTCLAGNSIG 209
>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 = 47.8 bits (112), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 48/202 (23%), Positives = 74/202 (36%), Gaps = 25/202 (12%)
Query: 20 TAQRTPTISYISQEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLI 79
T P + ++Q GG C + WMK +
Sbjct: 2 TGDSKPVFIKVPEDQTGLSGGVASFVCQATGEPKPRITWMKKGKK--------------- 46
Query: 80 IRDSRF-AIRYDTASSTYTLLVKDIQETDAGYYRCQVI--IG-INNKISAEVDLQVRRPP 135
+ RF I +D + + + + D Y C +G IN V + + PP
Sbjct: 47 VSSQRFEVIEFDDGAGSVLRIQPLRVQRDEAIYECTATNSLGEINTSAKLSVLEEEQLPP 106
Query: 136 VIS--DNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--TGGSI--YRGSIL 189
D + VV + + + C AGG+P P ISW ++ + P + G I R L
Sbjct: 107 GFPSIDMGPQLKVVEKARTATMLCAAGGNPDPEISWFKDFLPVDPATSNGRIKQLRSGAL 166
Query: 190 KIPQITKEDRGTYYCVAENGVG 211
+I + D+G Y CVA N G
Sbjct: 167 QIESSEESDQGKYECVATNSAG 188
>pdb|3PXH|A Chain A, Tandem Ig Domains Of Tyrosine Phosphatase Lar
Length = 201
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 46/197 (23%), Positives = 73/197 (37%), Gaps = 25/197 (12%)
Query: 25 PTISYISQEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSR 84
P + ++Q GG C + WMK + + R
Sbjct: 8 PVFVKVPEDQTGLSGGVASFVCQATGEPKPRITWMKKGKK---------------VSSQR 52
Query: 85 F-AIRYDTASSTYTLLVKDIQETDAGYYRCQVI-----IGINNKISAEVDLQVRRPPVIS 138
F I +D + + + + D Y C I + K+S + Q+
Sbjct: 53 FEVIEFDDGAGSVLRIQPLRVQRDEAIYECTATNSLGEINTSAKLSVLEEDQLPSGFPTI 112
Query: 139 DNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--TGGSI--YRGSILKIPQI 194
D + VV +G+ + C AGG+P P ISW ++ + P + G I R L+I
Sbjct: 113 DMGPQLKVVEKGRTATMLCAAGGNPDPEISWFKDFLPVDPAASNGRIKQLRSGALQIESS 172
Query: 195 TKEDRGTYYCVAENGVG 211
+ D+G Y CVA N G
Sbjct: 173 EESDQGKYECVATNSAG 189
>pdb|1E07|A Chain A, Model Of Human Carcinoembryonic Antigen By Homology
Modelling And Curve-Fitting To Experimental Solution
Scattering Data
Length = 642
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 53/225 (23%), Positives = 89/225 (39%), Gaps = 37/225 (16%)
Query: 97 TLLVKDIQETDAGYYRCQVIIG--INNKISAEVDLQVRRP-PVISDNSTRSLVVSEGQPV 153
+LL+++I + D G+Y VI +N + + + + P P IS N+++ V + V
Sbjct: 72 SLLIQNIIQNDTGFYTLHVIKSDLVNEEATGQFRVYPELPKPSISSNNSKP--VEDKDAV 129
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGS---ILKIPQITKEDRGTYYCVAENGV 210
C + W NN LP + + L + +T+ D +Y C +N V
Sbjct: 130 AFTCEPETQDATYLWWV--NNQSLPVSPRLQLSNGNRTLTLFNVTRNDTASYKCETQNPV 187
Query: 211 GKGTRRNIAVEVEFAPVITVPKP-----RLGQALQYDMDLECHVEAYPPPAIVWIKEDTQ 265
++ + V + P P R G+ +++L CH + PP W T
Sbjct: 188 SARRSDSVILNVLYGPDAPTISPLNTSYRSGE----NLNLSCHAASNPPAQYSWFVNGTF 243
Query: 266 QVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANK 310
Q +T + F I IT+ GSY C+A N
Sbjct: 244 QQ------------STQELF----IPNITVNNS--GSYTCQAHNS 270
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 53/229 (23%), Positives = 91/229 (39%), Gaps = 24/229 (10%)
Query: 88 RYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVV 147
R ++ TL + ++ D Y+C+ ++ + S V L V P S +
Sbjct: 156 RLQLSNGNRTLTLFNVTRNDTASYKCETQNPVSARRSDSVILNVLYGPDAPTISPLNTSY 215
Query: 148 SEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSI-LKIPQITKEDRGTYYCVA 206
G+ + L C A +P + SW G+ + + L IP IT + G+Y C A
Sbjct: 216 RSGENLNLSCHAASNPPAQYSWF--------VNGTFQQSTQELFIPNITVNNSGSYTCQA 267
Query: 207 EN---GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKED 263
N G+ + T I V E PKP + ++ E V P I+
Sbjct: 268 HNSDTGLNRTTVTTITVYAE------PPKPFITSNNSNPVEDEDAVALTCEPE---IQNT 318
Query: 264 TQQVLTNNQHYSIS-HFATADEFTDTTIRVITIEKRQYGSYICRAANKL 311
T NNQ +S +++ + T+ ++++ + G Y C N+L
Sbjct: 319 TYLWWVNNQSLPVSPRLQLSND--NRTLTLLSVTRNDVGPYECGIQNEL 365
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 37/128 (28%), Positives = 53/128 (41%), Gaps = 21/128 (16%)
Query: 88 RYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAE----VDLQVR---RPPVISDN 140
R ++ TL + ++ DA Y C GI N +SA V L V P+IS
Sbjct: 512 RLQLSNGNRTLTLFNVTRNDARAYVC----GIQNSVSANRSDPVTLDVLYGPDTPIISPP 567
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRG 200
+ L G + L C + +P+P+ SWR G +L I +IT + G
Sbjct: 568 DSSYL---SGANLNLSCHSASNPSPQYSWRIN-------GIPQQHTQVLFIAKITPNNNG 617
Query: 201 TYYCVAEN 208
TY C N
Sbjct: 618 TYACFVSN 625
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 42/155 (27%), Positives = 59/155 (38%), Gaps = 24/155 (15%)
Query: 88 RYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAE----VDLQVRRPPVISDNSTR 143
R ++ TL + + D G Y C GI N++S + V L V P S
Sbjct: 334 RLQLSNDNRTLTLLSVTRNDVGPYEC----GIQNELSVDHSDPVILNVLYGPDDPTISPS 389
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYY 203
G + L C A +P + SW L G L I IT+++ G Y
Sbjct: 390 YTYYRPGVNLSLSCHAASNPPAQYSW-------LIDGNIQQHTQELFISNITEKNSGLYT 442
Query: 204 CVAEN---GVGKGTRRNIAVEVEFAPVITVPKPRL 235
C A N G + T + I V E +PKP +
Sbjct: 443 CQANNSASGHSRTTVKTITVSAE------LPKPSI 471
>pdb|3LCY|A Chain A, Titin Ig Tandem Domains A164-A165
pdb|3LCY|B Chain B, Titin Ig Tandem Domains A164-A165
pdb|3LCY|C Chain C, Titin Ig Tandem Domains A164-A165
pdb|3LCY|D Chain D, Titin Ig Tandem Domains A164-A165
Length = 197
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 42/178 (23%), Positives = 77/178 (43%), Gaps = 14/178 (7%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAILPT----GGSIYRGSILKIPQITKEDRGTYYCV 205
G+ QL C G P P I W R ++ + S R L + +ED G Y C+
Sbjct: 22 GEAAQLSCQIVGRPLPDIKWYRFGKELIQSRKYKMSSDGRTHTLTVMTEEQEDEGVYTCI 81
Query: 206 AENGVGK---GTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKE 262
A N VG+ ++ + +F P + + G A+ + L P PA+ W
Sbjct: 82 ATNEVGEVETSSKLLLQATPQFHPGYPLKEKYYG-AVGSTLRLHVMYIGRPVPAMTWF-- 138
Query: 263 DTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVEL 320
Q++L N+++ +I + + +T ++ + K G Y + +N GT + +++
Sbjct: 139 HGQKLLQNSENITIEN---TEHYTHLVMKNVQ-RKTHAGKYKVQLSNVFGTVDAILDV 192
>pdb|1IE5|A Chain A, Nmr Structure Of The Third Immunoglobulin Domain From The
Neural Cell Adhesion Molecule
Length = 107
Score = 47.4 bits (111), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 38/84 (45%), Gaps = 5/84 (5%)
Query: 134 PPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGS-----IYRGSI 188
P V + ST + + Q V L C A G P P ++W ++ I Y GS
Sbjct: 12 PSVRARQSTMNATANLSQSVTLACDADGFPEPTMTWTKDGEPIEQEDNEEKYSFNYDGSE 71
Query: 189 LKIPQITKEDRGTYYCVAENGVGK 212
L I ++ K D Y C+AEN G+
Sbjct: 72 LIIKKVDKSDEAEYICIAENKAGE 95
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 37/83 (44%), Gaps = 8/83 (9%)
Query: 239 LQYDMDLECHVEAYPPPAIVWIKE-DTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK 297
L + L C + +P P + W K+ + + N + YS + + + + + ++K
Sbjct: 27 LSQSVTLACDADGFPEPTMTWTKDGEPIEQEDNEEKYSFN-------YDGSELIIKKVDK 79
Query: 298 RQYGSYICRAANKLGTSEKTVEL 320
YIC A NK G + T+ L
Sbjct: 80 SDEAEYICIAENKAGEQDATIHL 102
>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 = 47.4 bits (111), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 42/86 (48%), Gaps = 10/86 (11%)
Query: 236 GQALQYDMDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITI 295
G A ++D C VE YP P ++W K+D + ++H+ I + DE + ++ + +
Sbjct: 56 GSAARFD----CKVEGYPDPEVMWFKDDNP--VKESRHFQIDY----DEEGNCSLTISEV 105
Query: 296 EKRQYGSYICRAANKLGTSEKTVELF 321
Y C+A N LG + T EL
Sbjct: 106 CGDDDAKYTCKAVNSLGEATCTAELL 131
Score = 35.0 bits (79), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 32/75 (42%), Gaps = 5/75 (6%)
Query: 145 LVVSEGQPVQLECFAGGHPTPRISWRRENNAI-----LPTGGSIYRGSILKIPQITKEDR 199
+ V EG + +C G+P P + W +++N + L I ++ +D
Sbjct: 51 MDVVEGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHFQIDYDEEGNCSLTISEVCGDDD 110
Query: 200 GTYYCVAENGVGKGT 214
Y C A N +G+ T
Sbjct: 111 AKYTCKAVNSLGEAT 125
>pdb|1FHG|A Chain A, High Resolution Refinement Of Telokin
Length = 154
Score = 47.0 bits (110), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 42/86 (48%), Gaps = 10/86 (11%)
Query: 236 GQALQYDMDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITI 295
G A ++D C VE YP P ++W K+D + ++H+ I + DE + ++ + +
Sbjct: 56 GSAARFD----CKVEGYPDPEVMWFKDDNP--VKESRHFQIDY----DEEGNCSLTISEV 105
Query: 296 EKRQYGSYICRAANKLGTSEKTVELF 321
Y C+A N LG + T EL
Sbjct: 106 CGDDDAKYTCKAVNSLGEATCTAELL 131
Score = 35.0 bits (79), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 18/75 (24%), Positives = 32/75 (42%), Gaps = 5/75 (6%)
Query: 145 LVVSEGQPVQLECFAGGHPTPRISWRRENNAI-----LPTGGSIYRGSILKIPQITKEDR 199
+ V EG + +C G+P P + W +++N + L I ++ +D
Sbjct: 51 MEVVEGSAARFDCKVEGYPDPEVMWFKDDNPVKESRHFQIDYDEEGNCSLTISEVCGDDD 110
Query: 200 GTYYCVAENGVGKGT 214
Y C A N +G+ T
Sbjct: 111 AKYTCKAVNSLGEAT 125
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 46/170 (27%), Positives = 70/170 (41%), Gaps = 18/170 (10%)
Query: 157 CFAGGHPTPRISWRRENNAILPTGGSIYR-----GSILKI-PQITKEDRGTYYCVAENGV 210
C A G P P+I W ++ + + GS+L+I P T D Y CVA N V
Sbjct: 28 CQATGDPRPKIVWNKKGKKVSNQRFEVIEFDDGSGSVLRIQPLRTPRDEAIYECVASNNV 87
Query: 211 GK---GTRRNIAVEVE----FAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKED 263
G+ TR + E + F + P+ ++ + + L C P P I W K D
Sbjct: 88 GEISVSTRLTVLREDQIPRGFPTIDMGPQLKVVERTRTATML-CAASGNPDPEITWFK-D 145
Query: 264 TQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGT 313
V T+N + I + + +++ E+ G Y C A N GT
Sbjct: 146 FLPVDTSNNNGRIKQLRSE---SIGALQIEQSEESDQGKYECVATNSAGT 192
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 50/211 (23%), Positives = 73/211 (34%), Gaps = 40/211 (18%)
Query: 20 TAQRTPTISYISQEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLI 79
T + P + +Q GG C ++W K +
Sbjct: 2 TGETPPRFTRTPVDQTGVSGGVASFICQATGDPRPKIVWNKKGKK--------------- 46
Query: 80 IRDSRF-AIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINN--KISAEVDLQVRRPPV 136
+ + RF I +D S + + D Y C + NN +IS L V R
Sbjct: 47 VSNQRFEVIEFDDGSGSVLRIQPLRTPRDEAIYEC---VASNNVGEISVSTRLTVLREDQ 103
Query: 137 IS------DNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSI-- 188
I D + VV + + C A G+P P I+W ++ LP S G I
Sbjct: 104 IPRGFPTIDMGPQLKVVERTRTATMLCAASGNPDPEITWFKD---FLPVDTSNNNGRIKQ 160
Query: 189 --------LKIPQITKEDRGTYYCVAENGVG 211
L+I Q + D+G Y CVA N G
Sbjct: 161 LRSESIGALQIEQSEESDQGKYECVATNSAG 191
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 25/108 (23%), Positives = 43/108 (39%), Gaps = 13/108 (12%)
Query: 25 PTISYISQEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSR 84
PTI Q ++ + T + C+ D + W K + LP+ T ++
Sbjct: 109 PTIDMGPQLKVVERTRTATMLCAASGNPDPEITWFK-------DFLPVDTS------NNN 155
Query: 85 FAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVR 132
I+ + S L ++ +E+D G Y C + SA +L VR
Sbjct: 156 GRIKQLRSESIGALQIEQSEESDQGKYECVATNSAGTRYSAPANLYVR 203
>pdb|1IIL|E Chain E, Crystal Structure Of Pro253arg Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1IIL|F Chain F, Crystal Structure Of Pro253arg Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1IIL|G Chain G, Crystal Structure Of Pro253arg Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
pdb|1IIL|H Chain H, Crystal Structure Of Pro253arg Apert Mutant Fgf Receptor 2
(Fgfr2) In Complex With Fgf2
Length = 220
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 50/204 (24%), Positives = 72/204 (35%), Gaps = 25/204 (12%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP---TGGSIYRGS--ILKIPQITKE 197
R V V+ C AGG+P P + W + GG R L + +
Sbjct: 19 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 78
Query: 198 DRGTYYCVAENGVG---KGTRRNIAVEVEFAPVITVPKP-RLGQALQYDMDLECHVEAYP 253
D+G Y CV EN G ++ P++ P + D++ C V +
Sbjct: 79 DKGNYTCVVENEYGSINHTYHLDVVERSRHRPILQAGLPANASTVVGGDVEFVCKVYSDA 138
Query: 254 PPAIVWIKEDTQQVLTNNQHYSISHF-------ATADEFTDTTIRVITIEKRQY---GSY 303
P I WIK V N Y A TD I V+ I + G Y
Sbjct: 139 QPHIQWIK----HVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEY 194
Query: 304 ICRAANKLGTSEKTVELFESIIPV 327
C A N +G S + L +++P
Sbjct: 195 TCLAGNSIGISFHSAWL--TVLPA 216
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 33/143 (23%), Positives = 55/143 (38%), Gaps = 20/143 (13%)
Query: 89 YDTASSTYTLLVKDIQETDAGYYRCQV---IIGINNKISAEVDLQVRRPPVISDNSTRSL 145
Y + ++L+++ + +D G Y C V IN+ +V + R P++ +
Sbjct: 61 YKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVERSRHRPILQAGLPANA 120
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRR--ENNA------------ILPTGG---SIYRGSI 188
G V+ C P I W + E N +L G + +
Sbjct: 121 STVVGGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEV 180
Query: 189 LKIPQITKEDRGTYYCVAENGVG 211
L I +T ED G Y C+A N +G
Sbjct: 181 LYIRNVTFEDAGEYTCLAGNSIG 203
>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 = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 50/204 (24%), Positives = 72/204 (35%), Gaps = 25/204 (12%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP---TGGSIYRGS--ILKIPQITKE 197
R V V+ C AGG+P P + W + GG R L + +
Sbjct: 17 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 76
Query: 198 DRGTYYCVAENGVG---KGTRRNIAVEVEFAPVITVPKP-RLGQALQYDMDLECHVEAYP 253
D+G Y CV EN G ++ P++ P + D++ C V +
Sbjct: 77 DKGNYTCVVENEYGSINHTYHLDVVERSRHRPILQAGLPANASTVVGGDVEFVCKVYSDA 136
Query: 254 PPAIVWIKEDTQQVLTNNQHYSISHF-------ATADEFTDTTIRVITIEKRQY---GSY 303
P I WIK V N Y A TD I V+ I + G Y
Sbjct: 137 QPHIQWIK----HVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEY 192
Query: 304 ICRAANKLGTSEKTVELFESIIPV 327
C A N +G S + L +++P
Sbjct: 193 TCLAGNSIGISFHSAWL--TVLPA 214
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 33/143 (23%), Positives = 55/143 (38%), Gaps = 20/143 (13%)
Query: 89 YDTASSTYTLLVKDIQETDAGYYRCQV---IIGINNKISAEVDLQVRRPPVISDNSTRSL 145
Y + ++L+++ + +D G Y C V IN+ +V + R P++ +
Sbjct: 59 YKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVERSRHRPILQAGLPANA 118
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRR--ENNA------------ILPTGG---SIYRGSI 188
G V+ C P I W + E N +L G + +
Sbjct: 119 STVVGGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEV 178
Query: 189 LKIPQITKEDRGTYYCVAENGVG 211
L I +T ED G Y C+A N +G
Sbjct: 179 LYIRNVTFEDAGEYTCLAGNSIG 201
>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 = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 52/204 (25%), Positives = 73/204 (35%), Gaps = 25/204 (12%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP---TGGSIYRGS--ILKIPQITKE 197
R V V+ C AGG+P P + W + GG R L + +
Sbjct: 19 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 78
Query: 198 DRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRL----GQALQYDMDLECHVEAYP 253
D+G Y CV EN G VE +P + + L + D++ C V +
Sbjct: 79 DKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANASTVVGGDVEFVCKVYSDA 138
Query: 254 PPAIVWIKEDTQQVLTNNQHYSISHF-------ATADEFTDTTIRVITIEKRQY---GSY 303
P I WIK V N Y A TD I V+ I + G Y
Sbjct: 139 QPHIQWIK----HVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEY 194
Query: 304 ICRAANKLGTSEKTVELFESIIPV 327
C A N +G S + L +++P
Sbjct: 195 TCLAGNSIGISFHSAWL--TVLPA 216
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 32/143 (22%), Positives = 54/143 (37%), Gaps = 20/143 (13%)
Query: 89 YDTASSTYTLLVKDIQETDAGYYRCQV---IIGINNKISAEVDLQVRRPPVISDNSTRSL 145
Y + ++L+++ + +D G Y C V IN+ +V + P++ +
Sbjct: 61 YKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANA 120
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRR--ENNA------------ILPTGG---SIYRGSI 188
G V+ C P I W + E N +L G + +
Sbjct: 121 STVVGGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEV 180
Query: 189 LKIPQITKEDRGTYYCVAENGVG 211
L I +T ED G Y C+A N +G
Sbjct: 181 LYIRNVTFEDAGEYTCLAGNSIG 203
>pdb|3OJM|B Chain B, Crystal Structure Of Fgf1 Complexed With The Ectodomain Of
Fgfr2b Harboring P253r Apert Mutation
Length = 231
Score = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 46/210 (21%), Positives = 74/210 (35%), Gaps = 26/210 (12%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPT---GGSIYRGS--ILKIPQITKE 197
R V V+ C AGG+P P + W + GG R L + +
Sbjct: 27 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 86
Query: 198 DRGTYYCVAENGVGKGTRR---NIAVEVEFAPVITVPKP-RLGQALQYDMDLECHVEAYP 253
D+G Y CV EN G ++ P++ P + D++ C V +
Sbjct: 87 DKGNYTCVVENEYGSINHTYHLDVVERSRHRPILQAGLPANASTVVGGDVEFVCKVYSDA 146
Query: 254 PPAIVWIKEDTQQVLTNNQHYS--------ISHFATADEFTDTTIRVITIEKRQYGSYIC 305
P I WIK V N Y + + + + + + + G YIC
Sbjct: 147 QPHIQWIK----HVEKNGSKYGPDGLPYLKVLKHSGINSSNAEVLALFNVTEADAGEYIC 202
Query: 306 RAANKLGTSEKTVELFESIIPVCPPQTQPS 335
+ +N +G + ++ L V P Q P
Sbjct: 203 KVSNYIGQANQSAWL-----TVLPKQQAPG 227
Score = 32.3 bits (72), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 31/145 (21%), Positives = 56/145 (38%), Gaps = 18/145 (12%)
Query: 89 YDTASSTYTLLVKDIQETDAGYYRCQV---IIGINNKISAEVDLQVRRPPVISDNSTRSL 145
Y + ++L+++ + +D G Y C V IN+ +V + R P++ +
Sbjct: 69 YKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVERSRHRPILQAGLPANA 128
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRR--ENNAI------LP-------TGGSIYRGSILK 190
G V+ C P I W + E N LP +G + +L
Sbjct: 129 STVVGGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKHSGINSSNAEVLA 188
Query: 191 IPQITKEDRGTYYCVAENGVGKGTR 215
+ +T+ D G Y C N +G+ +
Sbjct: 189 LFNVTEADAGEYICKVSNYIGQANQ 213
>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 = 45.8 bits (107), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 52/204 (25%), Positives = 73/204 (35%), Gaps = 25/204 (12%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP---TGGSIYRGS--ILKIPQITKE 197
R V V+ C AGG+P P + W + GG R L + +
Sbjct: 18 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 77
Query: 198 DRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRL----GQALQYDMDLECHVEAYP 253
D+G Y CV EN G VE +P + + L + D++ C V +
Sbjct: 78 DKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANASTVVGGDVEFVCKVYSDA 137
Query: 254 PPAIVWIKEDTQQVLTNNQHYSISHF-------ATADEFTDTTIRVITIEKRQY---GSY 303
P I WIK V N Y A TD I V+ I + G Y
Sbjct: 138 QPHIQWIK----HVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEY 193
Query: 304 ICRAANKLGTSEKTVELFESIIPV 327
C A N +G S + L +++P
Sbjct: 194 TCLAGNSIGISFHSAWL--TVLPA 215
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 32/143 (22%), Positives = 54/143 (37%), Gaps = 20/143 (13%)
Query: 89 YDTASSTYTLLVKDIQETDAGYYRCQV---IIGINNKISAEVDLQVRRPPVISDNSTRSL 145
Y + ++L+++ + +D G Y C V IN+ +V + P++ +
Sbjct: 60 YKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANA 119
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRR--ENNA------------ILPTGG---SIYRGSI 188
G V+ C P I W + E N +L G + +
Sbjct: 120 STVVGGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEV 179
Query: 189 LKIPQITKEDRGTYYCVAENGVG 211
L I +T ED G Y C+A N +G
Sbjct: 180 LYIRNVTFEDAGEYTCLAGNSIG 202
>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 = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 50/204 (24%), Positives = 72/204 (35%), Gaps = 25/204 (12%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP---TGGSIYRGS--ILKIPQITKE 197
R V V+ C AGG+P P + W + GG R L + +
Sbjct: 19 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 78
Query: 198 DRGTYYCVAENGVG---KGTRRNIAVEVEFAPVITVPKP-RLGQALQYDMDLECHVEAYP 253
D+G Y CV EN G ++ P++ P + D++ C V +
Sbjct: 79 DKGNYTCVVENEYGSINHTYHLDVVERWPHRPILQAGLPANASTVVGGDVEFVCKVYSDA 138
Query: 254 PPAIVWIKEDTQQVLTNNQHYSISHF-------ATADEFTDTTIRVITIEKRQY---GSY 303
P I WIK V N Y A TD I V+ I + G Y
Sbjct: 139 QPHIQWIK----HVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEY 194
Query: 304 ICRAANKLGTSEKTVELFESIIPV 327
C A N +G S + L +++P
Sbjct: 195 TCLAGNSIGISFHSAWL--TVLPA 216
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 32/143 (22%), Positives = 54/143 (37%), Gaps = 20/143 (13%)
Query: 89 YDTASSTYTLLVKDIQETDAGYYRCQV---IIGINNKISAEVDLQVRRPPVISDNSTRSL 145
Y + ++L+++ + +D G Y C V IN+ +V + P++ +
Sbjct: 61 YKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVERWPHRPILQAGLPANA 120
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRR--ENNA------------ILPTGG---SIYRGSI 188
G V+ C P I W + E N +L G + +
Sbjct: 121 STVVGGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEV 180
Query: 189 LKIPQITKEDRGTYYCVAENGVG 211
L I +T ED G Y C+A N +G
Sbjct: 181 LYIRNVTFEDAGEYTCLAGNSIG 203
>pdb|1CR9|L Chain L, Crystal Structure Of The Anti-Prion Fab 3f4
pdb|1CU4|L Chain L, Crystal Structure Of The Anti-Prion Fab 3f4 In Complex
With Its Peptide Epitope
Length = 219
Score = 45.4 bits (106), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 51/214 (23%), Positives = 87/214 (40%), Gaps = 42/214 (19%)
Query: 127 VDLQVRRPPVISDNSTRSLVVSEGQPVQLECFA--GGHPTPRISWRRENNAILP---TGG 181
+ + + +P IS S++SL+ S+G+ + F G P I + ++ +P TG
Sbjct: 11 LSVTIGQPASISCKSSQSLLDSDGKTYLIWVFQRPGQSPKRLIFLVSKRDSGVPDRFTGS 70
Query: 182 SIYRGSILKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI ++ ED G YYC + VG GT+ IA + AP +++ P Q
Sbjct: 71 GSGTDFTLKISRVEAEDVGVYYCWQGTHFPHTVGGGTKLEIA-RADAAPTVSIFPPSSEQ 129
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 130 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 181
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -------STLTLTKDEYERHNSYTCEATHKTSTS 208
>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 = 45.1 bits (105), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 46/200 (23%), Positives = 73/200 (36%), Gaps = 26/200 (13%)
Query: 153 VQLECFAGGHPTPRISWRRENNAILPT---GGSIYRGS--ILKIPQITKEDRGTYYCVAE 207
V+ C AGG+P P + W + GG R L + + D+G Y CV E
Sbjct: 37 VKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPSDKGNYTCVVE 96
Query: 208 NGVGKGTRRNIAVEVEFAPVITVPKPRL----GQALQYDMDLECHVEAYPPPAIVWIKED 263
N G VE +P + + L + D++ C V + P I WIK
Sbjct: 97 NEYGSINHTYHLDVVERSPHRPILQAGLPANASTVVGGDVEFVCKVYSDAQPHIQWIK-- 154
Query: 264 TQQVLTNNQHYS--------ISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSE 315
V N Y + + + + + + + G YIC+ +N +G +
Sbjct: 155 --HVEKNGSKYGPDGLPYLKVLKHSGINSSNAEVLALFNVTEADAGEYICKVSNYIGQAN 212
Query: 316 KTVELFESIIPVCPPQTQPS 335
++ L V P Q P
Sbjct: 213 QSAWL-----TVLPKQQAPG 227
Score = 28.9 bits (63), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 30/145 (20%), Positives = 55/145 (37%), Gaps = 18/145 (12%)
Query: 89 YDTASSTYTLLVKDIQETDAGYYRCQV---IIGINNKISAEVDLQVRRPPVISDNSTRSL 145
Y + ++L+++ + +D G Y C V IN+ +V + P++ +
Sbjct: 69 YKVRNQHWSLIMESVVPSDKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANA 128
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRR--ENNAI------LP-------TGGSIYRGSILK 190
G V+ C P I W + E N LP +G + +L
Sbjct: 129 STVVGGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKHSGINSSNAEVLA 188
Query: 191 IPQITKEDRGTYYCVAENGVGKGTR 215
+ +T+ D G Y C N +G+ +
Sbjct: 189 LFNVTEADAGEYICKVSNYIGQANQ 213
>pdb|2YD9|A Chain A, Crystal Structure Of The N-Terminal Ig1-3 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 304
Score = 45.1 bits (105), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 52/218 (23%), Positives = 83/218 (38%), Gaps = 27/218 (12%)
Query: 157 CFAGGHPTPRISWRRENNAILPTGGSIYR-----GSILKI-PQITKEDRGTYYCVAENGV 210
C A G P PR++W ++ + G++L+I P T D Y CVA+N V
Sbjct: 28 CQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAVLRIQPLRTPRDENVYECVAQNSV 87
Query: 211 GKGT-RRNIAVEVEFAPVITVPKPRLGQALQY-----DMDLECHVEAYPPPAIVWIKEDT 264
G+ T + V E P +G L+ + C P P I W K D
Sbjct: 88 GEITVHAKLTVLREDQLPSGFPNIDMGPQLKVVERTRTATMLCAASGNPDPEITWFK-DF 146
Query: 265 QQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKT-VELFES 323
V + + I + +++ + E+ G Y C A N G + L+
Sbjct: 147 LPVDPSASNGRIKQLRSG------ALQIESSEETDQGKYECVATNSAGVRYSSPANLYVR 200
Query: 324 IIPVCP-----PQTQPSELLPLRNVNMAVIFAEQPTSW 356
+ V P P + E++P NVN+ + P +
Sbjct: 201 VQNVAPRFSILPMSH--EIMPGGNVNITCVAVGSPMPY 236
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 45/188 (23%), Positives = 76/188 (40%), Gaps = 20/188 (10%)
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRRENNAILPTG--GSI--YRGSILKIPQITKEDRGT 201
VV + + C A G+P P I+W ++ + P+ G I R L+I + D+G
Sbjct: 119 VVERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSGALQIESSEETDQGK 178
Query: 202 YYCVAEN--GVGKGTRRNIAVEVE-FAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIV 258
Y CVA N GV + N+ V V+ AP ++ ++++ C P P +
Sbjct: 179 YECVATNSAGVRYSSPANLYVRVQNVAPRFSILPMSHEIMPGGNVNITCVAVGSPMPYVK 238
Query: 259 WIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTV 318
W++ + LT + E TD + +Y C A + LG E
Sbjct: 239 WMQ--GAEDLTPEDDMPVGRNVL--ELTDV---------KDSANYTCVAMSSLGVIEAVA 285
Query: 319 ELFESIIP 326
++ +P
Sbjct: 286 QITVKSLP 293
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 49/116 (42%), Gaps = 4/116 (3%)
Query: 98 LLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNST--RSLVVSEGQPVQL 155
L ++ +ETD G Y C + S+ +L VR V S S + G V +
Sbjct: 166 LQIESSEETDQGKYECVATNSAGVRYSSPANLYVRVQNVAPRFSILPMSHEIMPGGNVNI 225
Query: 156 ECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVG 211
C A G P P + W + + P ++L++ + +D Y CVA + +G
Sbjct: 226 TCVAVGSPMPYVKWMQGAEDLTPEDDMPVGRNVLELTDV--KDSANYTCVAMSSLG 279
>pdb|3KVQ|A Chain A, Crystal Structure Of Vegfr2 Extracellular Domain D7
Length = 108
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 40/77 (51%), Gaps = 3/77 (3%)
Query: 132 RRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGS--IL 189
R P I+ N + S G+ +++ C A G+P P+I W ++N ++ G + + L
Sbjct: 8 RVAPTITGN-LENQTTSIGESIEVSCTASGNPPPQIMWFKDNETLVEDSGIVLKDGNRNL 66
Query: 190 KIPQITKEDRGTYYCVA 206
I ++ KED G Y C A
Sbjct: 67 TIRRVRKEDEGLYTCQA 83
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 43/106 (40%), Gaps = 11/106 (10%)
Query: 216 RNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYS 275
R + V AP IT ++ +++ C PPP I+W K+ N
Sbjct: 1 RQLTVLERVAPTITGNLENQTTSIGESIEVSCTASGNPPPQIMWFKD-------NETLVE 53
Query: 276 ISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVELF 321
S D + TIR + K G Y C+A + LG ++ VE F
Sbjct: 54 DSGIVLKDGNRNLTIR--RVRKEDEGLYTCQACSVLGCAK--VEAF 95
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/98 (22%), Positives = 42/98 (42%), Gaps = 19/98 (19%)
Query: 18 LTTAQR-TPTISYISQEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGS 76
LT +R PTI+ + Q IG ++E+ C+ ++W K + V + S
Sbjct: 3 LTVLERVAPTITGNLENQTTSIGESIEVSCTASGNPPPQIMWFKDNETLVED-------S 55
Query: 77 SLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQ 114
++++D L ++ +++ D G Y CQ
Sbjct: 56 GIVLKD-----------GNRNLTIRRVRKEDEGLYTCQ 82
>pdb|2YR3|A Chain A, Solution Structure Of The Fourth Ig-Like Domain From
Myosin Light Chain Kinase, Smooth Muscle
Length = 99
Score = 44.7 bits (104), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 34/71 (47%), Gaps = 1/71 (1%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRG-SILKIPQITKEDRGT 201
+ V EGQ L+C G P PRI+W I + G + L I ED GT
Sbjct: 19 KDCAVIEGQDFVLQCSVRGTPVPRITWLLNGQPIQYARSTCEAGVAELHIQDALPEDHGT 78
Query: 202 YYCVAENGVGK 212
Y C+AEN +G+
Sbjct: 79 YTCLAENALGQ 89
>pdb|1DJS|A Chain A, Ligand-binding Portion Of Fibroblast Growth Factor
Receptor 2 In Complex With Fgf1
Length = 216
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 50/197 (25%), Positives = 67/197 (34%), Gaps = 23/197 (11%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP---TGGSIYRGSILKI--PQITKE 197
R V V+ C AGG+P P W + GG R + +
Sbjct: 19 RLHAVPAANTVKFRCPAGGNPXPTXRWLKNGKEFKQEHRIGGYKVRNQHWSLIXESVVPS 78
Query: 198 DRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRL----GQALQYDMDLECHVEAYP 253
D+G Y CV EN G VE +P + + L + D++ C V +
Sbjct: 79 DKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANASTVVGGDVEFVCKVYSDA 138
Query: 254 PPAIVWIKEDTQQVLTNNQHYSISHF-------ATADEFTDTTIRVITIEKRQY---GSY 303
P I WIK V N Y A TD I V+ I + G Y
Sbjct: 139 QPHIQWIK----HVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEVLYIRNVTFEDAGEY 194
Query: 304 ICRAANKLGTSEKTVEL 320
C A N +G S + L
Sbjct: 195 TCLAGNSIGISFHSAWL 211
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 32/143 (22%), Positives = 53/143 (37%), Gaps = 20/143 (13%)
Query: 89 YDTASSTYTLLVKDIQETDAGYYRCQV---IIGINNKISAEVDLQVRRPPVISDNSTRSL 145
Y + ++L+ + + +D G Y C V IN+ +V + P++ +
Sbjct: 61 YKVRNQHWSLIXESVVPSDKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANA 120
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRR--ENNA------------ILPTGG---SIYRGSI 188
G V+ C P I W + E N +L G + +
Sbjct: 121 STVVGGDVEFVCKVYSDAQPHIQWIKHVEKNGSKYGPDGLPYLKVLKAAGVNTTDKEIEV 180
Query: 189 LKIPQITKEDRGTYYCVAENGVG 211
L I +T ED G Y C+A N +G
Sbjct: 181 LYIRNVTFEDAGEYTCLAGNSIG 203
>pdb|1WIO|A Chain A, Structure Of T-Cell Surface Glycoprotein Cd4, Tetragonal
Crystal Form
pdb|1WIO|B Chain B, Structure Of T-Cell Surface Glycoprotein Cd4, Tetragonal
Crystal Form
pdb|1WIP|A Chain A, Structure Of T-Cell Surface Glycoprotein Cd4, Monoclinic
Crystal Form
pdb|1WIP|B Chain B, Structure Of T-Cell Surface Glycoprotein Cd4, Monoclinic
Crystal Form
pdb|1WIQ|A Chain A, Structure Of T-Cell Surface Glycoprotein Cd4, Trigonal
Crystal Form
pdb|1WIQ|B Chain B, Structure Of T-Cell Surface Glycoprotein Cd4, Trigonal
Crystal Form
Length = 363
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 50/226 (22%), Positives = 88/226 (38%), Gaps = 25/226 (11%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS---- 94
G TVEL C+ + W ++ K+ + GS L S+ R D+ S
Sbjct: 9 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NQGSFLTKGPSKLNDRADSRRSLWDQ 64
Query: 95 -TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ + +
Sbjct: 65 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLLQGQSLTL 116
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVGKG 213
LE G P+ + P G +I G L + Q+ +D GT+ C K
Sbjct: 117 TLESPPGSSPSVQCR--------SPRGKNIQGGKTLSVSQLELQDSGTWTCTVLQNQKKV 168
Query: 214 TRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVW 259
+ V + F ++ + G+ +++ L VE +W
Sbjct: 169 EFKIDIVVLAFQKASSIVYKKEGEQVEFSFPLAFTVEKLTGSGELW 214
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 35/76 (46%), Gaps = 8/76 (10%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGG------SIYRGSILKIPQITK 196
RS+ V EG+ + C G P P ++W R+ +L T + Y+ S +I +
Sbjct: 22 RSMTVYEGESARFSCDTDGEPVPTVTWLRKGQ-VLSTSARHQVTTTKYK-STFEISSVQA 79
Query: 197 EDRGTYYCVAENGVGK 212
D G Y V EN GK
Sbjct: 80 SDEGNYSVVVENSEGK 95
>pdb|3FMG|L Chain L, Structure Of Rotavirus Outer Capsid Protein Vp7 Trimer In
Co A Neutralizing Fab
Length = 211
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 52/226 (23%), Positives = 84/226 (37%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNA-----------I 176
D+Q+ + P SL S G+ V + C + ++W ++
Sbjct: 1 DIQMTQSPA-------SLSASVGETVTITCRPSENIYSYLAWYQQKQGKSPQLLVYKAKT 53
Query: 177 LPTG-GSIYRGS------ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFA 225
LP G S + GS LKI + ED GTYYC NG G GT+ + + A
Sbjct: 54 LPEGVPSRFSGSGSGTHFSLKISSVQPEDFGTYYCQHHNGPPLTFGAGTKLELK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSKQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>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 = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 38/82 (46%), Gaps = 4/82 (4%)
Query: 137 ISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWR--RENNAILPTGG--SIYRGSILKIP 192
I D + + V EG VQ C A G P P I W R++ + G +++ L++
Sbjct: 387 IRDRKAQQVFVDEGHTVQFVCRADGDPPPAILWLSPRKHLVSAKSNGRLTVFPDGTLEVR 446
Query: 193 QITKEDRGTYYCVAENGVGKGT 214
+D GTY C+A N G +
Sbjct: 447 YAQVQDNGTYLCIAANAGGNDS 468
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 29/74 (39%), Gaps = 7/74 (9%)
Query: 247 CHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICR 306
C + PPPAI+W+ V S F D T+ V + + G+Y+C
Sbjct: 407 CRADGDPPPAILWLSPRKHLV-------SAKSNGRLTVFPDGTLEVRYAQVQDNGTYLCI 459
Query: 307 AANKLGTSEKTVEL 320
AAN G L
Sbjct: 460 AANAGGNDSMPAHL 473
>pdb|2WV3|A Chain A, Neuroplastin-55 Binds To And Signals Through The
Fibroblast Growth Factor Receptor
Length = 190
Score = 43.1 bits (100), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 43/179 (24%), Positives = 71/179 (39%), Gaps = 39/179 (21%)
Query: 72 ISTGSSLIIRDSRF--AIRYDTASSTYTLL------------------------VKDIQE 105
I T +IIRDS ++ + SS++TL+ + +
Sbjct: 6 IVTSEEVIIRDSLLPVTLQCNLTSSSHTLMYSYWTKNGVELTATRKNASNMEYRINKPRA 65
Query: 106 TDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTP 165
D+G Y C + + A ++V+ P I+ + RS +EGQ + C + G+P P
Sbjct: 66 EDSGEYHC--VYHFVSAPKANATIEVKAAPDITGHK-RSENKNEGQDAMMYCKSVGYPHP 122
Query: 166 RISWRRENNAILPT-GGSIYRGSILKIPQITK---------EDRGTYYCVAENGVGKGT 214
WR++ N + S R I+ T+ ED G Y C A N +G +
Sbjct: 123 EWMWRKKENGVFEEISNSSGRFFIINKENYTELNIVNLQITEDPGEYECNATNSIGSAS 181
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 41/178 (23%), Positives = 63/178 (35%), Gaps = 32/178 (17%)
Query: 152 PVQLEC-FAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGV 210
PV L+C T S+ +N L +I + ED G Y+CV
Sbjct: 20 PVTLQCNLTSSSHTLMYSYWTKNGVELTATRKNASNMEYRINKPRAEDSGEYHCVYH--F 77
Query: 211 GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKEDTQQVLTN 270
+ N +EV+ AP IT K + D + C YP P +W K++
Sbjct: 78 VSAPKANATIEVKAAPDITGHKRSENKNEGQDAMMYCKSVGYPHPEWMWRKKEN------ 131
Query: 271 NQHYSISHFATADEFTDTTIRVITIEKRQY--------------GSYICRAANKLGTS 314
+E ++++ R I K Y G Y C A N +G++
Sbjct: 132 ---------GVFEEISNSSGRFFIINKENYTELNIVNLQITEDPGEYECNATNSIGSA 180
>pdb|1NUN|B Chain B, Crystal Structure Analysis Of The Fgf10-fgfr2b Complex
Length = 230
Score = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 47/210 (22%), Positives = 73/210 (34%), Gaps = 26/210 (12%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPT---GGSIYRGSILKI--PQITKE 197
R V V+ C AGG+P P W + GG R + +
Sbjct: 26 RLHAVPAANTVKFRCPAGGNPXPTXRWLKNGKEFKQEHRIGGYKVRNQHWSLIXESVVPS 85
Query: 198 DRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRL----GQALQYDMDLECHVEAYP 253
D+G Y CV EN G VE +P + + L + D++ C V +
Sbjct: 86 DKGNYTCVVENEYGSINHTYHLDVVERSPHRPILQAGLPANASTVVGGDVEFVCKVYSDA 145
Query: 254 PPAIVWIKEDTQQVLTNNQHYS--------ISHFATADEFTDTTIRVITIEKRQYGSYIC 305
P I WIK V N Y + + + + + + + G YIC
Sbjct: 146 QPHIQWIK----HVEKNGSKYGPDGLPYLKVLKHSGINSSNAEVLALFNVTEADAGEYIC 201
Query: 306 RAANKLGTSEKTVELFESIIPVCPPQTQPS 335
+ +N +G + ++ L V P Q P
Sbjct: 202 KVSNYIGQANQSAWL-----TVLPKQQAPG 226
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 35/76 (46%), Gaps = 8/76 (10%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGG------SIYRGSILKIPQITK 196
RS+ V EG+ + C G P P ++W R+ +L T + Y+ S +I +
Sbjct: 16 RSMTVYEGESARFSCDTDGEPVPTVTWLRKGQ-VLSTSARHQVTTTKYK-STFEISSVQA 73
Query: 197 EDRGTYYCVAENGVGK 212
D G Y V EN GK
Sbjct: 74 SDEGNYSVVVENSEGK 89
>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 = 43.1 bits (100), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 50/197 (25%), Positives = 75/197 (38%), Gaps = 46/197 (23%)
Query: 147 VSEGQPVQLECFAGGHPTPRISWRRE----------NNAI----------LPTGGSIYRG 186
+ E PV+L C G +PR+ W+ + NN I LPTG
Sbjct: 16 IPENNPVKLSCAYSGFSSPRVEWKFDQGDTTRLVCYNNKITASYEDRVTFLPTG------ 69
Query: 187 SILKIPQITKEDRGTYYC-VAENGVGKGTRRNIAVEVEFAPVITVP--KPRLG----QAL 239
+ +T+ED GTY C V+E G N EV+ ++ VP KP + +
Sbjct: 70 --ITFKSVTREDTGTYTCMVSEEG------GNSYGEVKVKLIVLVPPSKPTVNIPSSATI 121
Query: 240 QYDMDLEC-HVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVI--TIE 296
L C + PP W K+ V+ N + + ++ TT ++ +
Sbjct: 122 GNRAVLTCSEQDGSPPSEYTWFKDGI--VMPTNPKSTRAFSNSSYVLNPTTGELVFDPLS 179
Query: 297 KRQYGSYICRAANKLGT 313
G Y C A N GT
Sbjct: 180 ASDTGEYSCEARNGYGT 196
>pdb|3T0E|E Chain E, Crystal Structure Of A Complete Ternary Complex Of T Cell
Receptor, Peptide-Mhc And Cd4
Length = 373
Score = 42.7 bits (99), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 50/226 (22%), Positives = 88/226 (38%), Gaps = 25/226 (11%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS---- 94
G TVEL C+ + W ++ K+ + GS L S+ R D+ S
Sbjct: 9 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NYGSFLWKGPSKLNDRADSRRSLWDQ 64
Query: 95 -TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ + +
Sbjct: 65 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLLQGQSLTL 116
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVGKG 213
LE G P+ + P G +I G L + Q+ +D GT+ C K
Sbjct: 117 TLESPPGSSPSVQCR--------SPRGKNIQGGKTLSVSQLELQDSGTWTCTVLQNQKKV 168
Query: 214 TRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAIVW 259
+ V + F ++ + G+ +++ L VE +W
Sbjct: 169 EFKIDIVVLAFQKASSIVYKKEGEQVEFSFPLAFTVEKLTGSGELW 214
>pdb|4FOM|A Chain A, Crystal Structure Of Human Nectin-3 Full Ectodomain
(D1-D3)
Length = 308
Score = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 54/227 (23%), Positives = 93/227 (40%), Gaps = 24/227 (10%)
Query: 97 TLLVKDIQETDAGYYRCQ-VIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQL 155
T+ + +I +D+G Y C+ V + N S+ + P V SL+ + V
Sbjct: 75 TITLHNIGFSDSGKYICKAVTFPLGNAQSSTTVTVLVEPTVSLIKGPDSLIDGGNETVAA 134
Query: 156 ECFAG-GHPTPRISWRRENNAILPTGGSIYRGSILKIPQI----TKEDRGT-YYCVAEN- 208
C A G P I W + + T S + I Q T+ RG CV ++
Sbjct: 135 ICIAATGKPVAHIDWEGDLGEMESTTTSFPNETATIISQYKLFPTRFARGRRITCVVKHP 194
Query: 209 GVGKGTRRNIAVEVEFAPVITVPKPRLGQAL-QYDMDLECHVEAYPPP-AIVWIKEDTQQ 266
+ K R + +++++AP ++V + + ++L+C+ +A PPP VW + D Q
Sbjct: 195 ALEKDIRYSFILDIQYAPEVSVTGYDGNWFVGRKGVNLKCNADANPPPFKSVWSRLDGQ- 253
Query: 267 VLTNNQHYSISHFATADEFTDTTIRVITIEKRQY-GSYICRAANKLG 312
+ +D T+ + Y G YIC+ N LG
Sbjct: 254 ------------WPDGLLASDNTLHFVHPLTFNYSGVYICKVTNSLG 288
>pdb|2DM3|A Chain A, Solution Structure Of The Second Ig Domain Of Human
Palladin
Length = 110
Score = 42.0 bits (97), Expect = 6e-04, Method: Composition-based stats.
Identities = 22/75 (29%), Positives = 36/75 (48%), Gaps = 5/75 (6%)
Query: 145 LVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGS---IYRGSI--LKIPQITKEDR 199
L V EG+ +++C G PTP +SW+ + + P + + L I +T D
Sbjct: 19 LTVQEGKLCRMDCKVSGLPTPDLSWQLDGKPVRPDSAHKMLVRENGVHSLIIEPVTSRDA 78
Query: 200 GTYYCVAENGVGKGT 214
G Y C+A N G+ +
Sbjct: 79 GIYTCIATNRAGQNS 93
>pdb|2YD3|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 202
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 42/168 (25%), Positives = 64/168 (38%), Gaps = 19/168 (11%)
Query: 157 CFAGGHPTPRISWRRENNAILPTGGSIYR-----GSILKI-PQITKEDRGTYYCVAENGV 210
C A G P PR++W ++ + G++L+I P T D Y CVA+N V
Sbjct: 28 CQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAVLRIQPLRTPRDENVYECVAQNSV 87
Query: 211 GKGT-RRNIAVEVEFAPVITVPKPRLGQALQY-----DMDLECHVEAYPPPAIVWIKEDT 264
G+ T + V E P +G L+ + C P P I W K D
Sbjct: 88 GEITVHAKLTVLREDQLPSGFPNIDMGPQLKVVERTRTATMLCAASGNPDPEITWFK-DF 146
Query: 265 QQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLG 312
V + + I + +++ + E+ G Y C A N G
Sbjct: 147 LPVDPSASNGRIKQLRSG------ALQIESSEETDQGKYECVATNSAG 188
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 34/70 (48%), Gaps = 4/70 (5%)
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRRENNAILPTG--GSI--YRGSILKIPQITKEDRGT 201
VV + + C A G+P P I+W ++ + P+ G I R L+I + D+G
Sbjct: 119 VVERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSGALQIESSEETDQGK 178
Query: 202 YYCVAENGVG 211
Y CVA N G
Sbjct: 179 YECVATNSAG 188
>pdb|4FRW|A Chain A, Crystal Structure Of Human Nectin-4 Extracellular Fragment
D1-D2
pdb|4FRW|B Chain B, Crystal Structure Of Human Nectin-4 Extracellular Fragment
D1-D2
pdb|4FRW|C Chain C, Crystal Structure Of Human Nectin-4 Extracellular Fragment
D1-D2
pdb|4FRW|D Chain D, Crystal Structure Of Human Nectin-4 Extracellular Fragment
D1-D2
pdb|4FRW|E Chain E, Crystal Structure Of Human Nectin-4 Extracellular Fragment
D1-D2
pdb|4FRW|F Chain F, Crystal Structure Of Human Nectin-4 Extracellular Fragment
D1-D2
Length = 218
Score = 42.0 bits (97), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 37/76 (48%)
Query: 97 TLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLE 156
++L+++ + D G Y C+V A + L+V PP+ S N +L +G +
Sbjct: 80 SVLLRNAVQADEGEYECRVSTFPAGSFQARLRLRVLVPPLPSLNPGPALEEGQGLTLAAS 139
Query: 157 CFAGGHPTPRISWRRE 172
C A G P P ++W E
Sbjct: 140 CTAEGSPAPSVTWDTE 155
>pdb|3KJ4|L Chain L, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|B Chain B, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 219
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 48/223 (21%), Positives = 77/223 (34%), Gaps = 60/223 (26%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P P I W
Sbjct: 2 IVMSQSPSSLAVSAGEKVTMSCKSSQSLLNSRNRKNYLAWYQQKPGQSPKPLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC+ + G GT+ I + AP +
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCMQSYNLFTFGSGTKLEIK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNN 271
++ P Q + C + + P I W +D++ +
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----D 175
Query: 272 QHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 STYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2YD2|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of Human
Receptor Protein Tyrosine Phosphatase Sigma
Length = 214
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 42/168 (25%), Positives = 64/168 (38%), Gaps = 19/168 (11%)
Query: 157 CFAGGHPTPRISWRRENNAILPTGGSIYR-----GSILKI-PQITKEDRGTYYCVAENGV 210
C A G P PR++W ++ + G++L+I P T D Y CVA+N V
Sbjct: 28 CQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAVLRIQPLRTPRDENVYECVAQNSV 87
Query: 211 GKGT-RRNIAVEVEFAPVITVPKPRLGQALQY-----DMDLECHVEAYPPPAIVWIKEDT 264
G+ T + V E P +G L+ + C P P I W K D
Sbjct: 88 GEITVHAKLTVLREDQLPSGFPNIDMGPQLKVVERTRTATMLCAASGNPDPEITWFK-DF 146
Query: 265 QQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLG 312
V + + I + +++ + E+ G Y C A N G
Sbjct: 147 LPVDPSASNGRIKQLRSG------ALQIESSEETDQGKYECVATNSAG 188
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 34/70 (48%), Gaps = 4/70 (5%)
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRRENNAILPTG--GSI--YRGSILKIPQITKEDRGT 201
VV + + C A G+P P I+W ++ + P+ G I R L+I + D+G
Sbjct: 119 VVERTRTATMLCAASGNPDPEITWFKDFLPVDPSASNGRIKQLRSGALQIESSEETDQGK 178
Query: 202 YYCVAENGVG 211
Y CVA N G
Sbjct: 179 YECVATNSAG 188
>pdb|2YD4|A Chain A, Crystal Structure Of The N-Terminal Ig1-2 Module Of
Chicken Receptor Protein Tyrosine Phosphatase Sigma
Length = 210
Score = 41.6 bits (96), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 47/193 (24%), Positives = 73/193 (37%), Gaps = 24/193 (12%)
Query: 134 PPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYR-----GSI 188
PPV + VS G C A G P PR++W ++ + G++
Sbjct: 6 PPVFIKKPVDQIGVSGGV-ASFVCQATGDPKPRVTWNKKGKKVNSQRFETIEFDESAGAV 64
Query: 189 LKI-PQITKEDRGTYYCVAENGVGKGT---RRNIAVEVEFAPVITVPKPRLGQALQY--- 241
L+I P T D Y CVA+N G+ T + + E + P P +G L+
Sbjct: 65 LRIQPLRTPRDENIYECVAQNPHGEVTVHAKLTVLREDQLPP--GFPNIDMGPQLKVVER 122
Query: 242 --DMDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
+ C P P I W K D V + + I + +++ + E+
Sbjct: 123 TRTATMLCAASGNPDPEITWFK-DFLPVDPSTSNGRIKQLRSGG------LQIESSEETD 175
Query: 300 YGSYICRAANKLG 312
G Y C A+N G
Sbjct: 176 QGKYECVASNSAG 188
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 48/206 (23%), Positives = 70/206 (33%), Gaps = 33/206 (16%)
Query: 20 TAQRTPTISYISQEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLI 79
T + P +QI GG C V W K +
Sbjct: 2 TGESPPVFIKKPVDQIGVSGGVASFVCQATGDPKPRVTWNKKGKK--------------- 46
Query: 80 IRDSRF-AIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRR----P 134
+ RF I +D ++ + D Y C V + +++ L V R P
Sbjct: 47 VNSQRFETIEFDESAGAVLRIQPLRTPRDENIYEC-VAQNPHGEVTVHAKLTVLREDQLP 105
Query: 135 PVIS--DNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSI---- 188
P D + VV + + C A G+P P I+W ++ LP S G I
Sbjct: 106 PGFPNIDMGPQLKVVERTRTATMLCAASGNPDPEITWFKD---FLPVDPSTSNGRIKQLR 162
Query: 189 ---LKIPQITKEDRGTYYCVAENGVG 211
L+I + D+G Y CVA N G
Sbjct: 163 SGGLQIESSEETDQGKYECVASNSAG 188
>pdb|2J88|L Chain L, Hyaluronidase In Complex With A Monoclonal Igg Fab
Fragment
Length = 213
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 53/225 (23%), Positives = 83/225 (36%), Gaps = 61/225 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRE-----------NNAI 176
D+Q+ + P SL S G+ V + C A + ++W ++ N
Sbjct: 1 DIQMTQSPA-------SLSASVGETVTITCRASENIYSYLTWYQQKQGKSPQLLVYNAKT 53
Query: 177 LPTG-GSIYRGS------ILKIPQITKEDRGTYYCVAENG---VGKGTRRNIAVEVEFAP 226
L G S + GS LKI + ED G YYC G G GTR I + AP
Sbjct: 54 LAEGVPSRFSGSGSGTQFSLKISSLQPEDFGNYYCQHHYGTRTFGGGTRLEIK-RADAAP 112
Query: 227 VITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLT 269
+++ P Q + C + + P I W +D++
Sbjct: 113 TVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK---- 168
Query: 270 NNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 169 -DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 202
>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 = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/110 (27%), Positives = 45/110 (40%), Gaps = 9/110 (8%)
Query: 112 RCQVIIGINNKISAEVDLQ--VRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISW 169
RC G+ + E+D PVI + T L V+EG +L+C G T ++W
Sbjct: 288 RCHAPAGLKGRYIGELDQSHFTCYAPVIVEPPT-DLNVTEGMAAELKCRTGTSMTS-VNW 345
Query: 170 RRENNAILPTGG-----SIYRGSILKIPQITKEDRGTYYCVAENGVGKGT 214
N ++ G S+ L +T +D G Y C+ N G T
Sbjct: 346 LTPNGTLMTHGSYRVRISVLHDGTLNFTNVTVQDTGQYTCMVTNSAGNTT 395
>pdb|3SJV|D Chain D, Crystal Structure Of The Rl42 Tcr In Complex With
Hla-B8-Flr
pdb|3SJV|I Chain I, Crystal Structure Of The Rl42 Tcr In Complex With
Hla-B8-Flr
pdb|3SJV|N Chain N, Crystal Structure Of The Rl42 Tcr In Complex With
Hla-B8-Flr
pdb|3SJV|S Chain S, Crystal Structure Of The Rl42 Tcr In Complex With
Hla-B8-Flr
pdb|3SKN|A Chain A, Crystal Structure Of The Rl42 Tcr Unliganded
pdb|3SKN|C Chain C, Crystal Structure Of The Rl42 Tcr Unliganded
pdb|3SKN|E Chain E, Crystal Structure Of The Rl42 Tcr Unliganded
pdb|3SKN|G Chain G, Crystal Structure Of The Rl42 Tcr Unliganded
Length = 203
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 47/103 (45%), Gaps = 7/103 (6%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G TV C+ + W + D K EP + + S D RF + + AS +L
Sbjct: 18 GATVAFNCTYSNSASQSFFWYRQDSRK--EPKLLMSVYSSGNEDGRFTAQLNRASQYISL 75
Query: 99 LVKDIQETDAGYYRC-----QVIIGINNKISAEVDLQVRRPPV 136
L++D + +D+ Y C ++I G ++S + ++Q P V
Sbjct: 76 LIRDSKLSDSATYLCVVRAGKLIFGQGTELSVKPNIQNPDPAV 118
>pdb|1KB5|L Chain L, Murine T-Cell Receptor Variable DomainFAB COMPLEX
Length = 214
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 52/226 (23%), Positives = 84/226 (37%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------T 179
D+Q+ + P SL S G+ V + C A + ++W ++ P T
Sbjct: 1 DIQMTQSPA-------SLSASVGETVTITCRASKNIYSYLAWYQQKQGKSPQLLVYNAKT 53
Query: 180 GG----SIYRGS------ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFA 225
G S + GS LKI + ED G+YYC G G GT+ I + A
Sbjct: 54 LGEGVPSRFSGSGSGTQFSLKINSLQPEDFGSYYCQHHYGTPYTFGGGTKLEIK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2V17|L Chain L, Structure Of The Complex Of Antibody Mn423 With A Fragment
Of Tau Protein
pdb|3L1O|L Chain L, Crystal Structure Of Monoclonal Antibody Mn423 Fab
Fragment With Free Combining Site, Crystallized In The
Presence Of Zinc
Length = 214
Score = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 46/226 (20%), Positives = 82/226 (36%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRE-----NNAILPTGGS 182
D+Q+ + P L S G+ + + C A ++W RE N ++ +G +
Sbjct: 1 DVQITQSPSY-------LAASPGETITINCRASKSIRKFLAWYREKPGKTNKLLIYSGST 53
Query: 183 IYRGS-------------ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFA 225
+ G+ L I ++ ED YYC N G GT+ + + A
Sbjct: 54 LQSGTPSRFSGSGSGTDFTLTISRLEPEDFAMYYCQQHNDYPLTFGAGTKLELK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3O4O|C Chain C, Crystal Structure Of An Interleukin-1 Receptor Complex
Length = 339
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 45/187 (24%), Positives = 78/187 (41%), Gaps = 31/187 (16%)
Query: 63 RNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVII---GI 119
R+K + S L+ +D+ ++ + T LLV D+ DAGYYRC + G
Sbjct: 150 RDKTDVKIQWYKDSLLLDKDNE---KFLSVRGTTHLLVHDVALEDAGYYRCVLTFAHEGQ 206
Query: 120 NNKISAEVDLQVRR------PPVISDNSTRSLVVSEGQPVQLECFAG-GHPTPRISWRRE 172
I+ ++L++++ P +IS T S + + + F G G P + W
Sbjct: 207 QYNITRSIELRIKKKKEETIPVIISPLKTISASLGSRLTIPCKVFLGTGTPLTTMLWWTA 266
Query: 173 NNAILPT---GGSIYRG----------SILKIPQI----TKED-RGTYYCVAENGVGKGT 214
N+ + + GG + G + +++P I T+ED + CV N + T
Sbjct: 267 NDTHIESAYPGGRVTEGPRQEYSENNENYIEVPLIFDPVTREDLHMDFKCVVHNTLSFQT 326
Query: 215 RRNIAVE 221
R E
Sbjct: 327 LRTTVKE 333
Score = 32.7 bits (73), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 44/101 (43%), Gaps = 19/101 (18%)
Query: 149 EGQPVQLEC-------FAGGHPTPRISWRRENNAILPTGGSIYR-----GSILKIPQITK 196
EG+PV L C +A P ++W + ++A G R G++ +P + +
Sbjct: 32 EGEPVALRCPQVPYWLWASVSPRINLTWHKNDSARTVPGEEETRMWAQDGALWLLPAL-Q 90
Query: 197 EDRGTYYCVAENGVGKGTRRNIAVEV-----EFAPVITVPK 232
ED GTY C N + +I + V F P I+ P+
Sbjct: 91 EDSGTYVCTTRNA-SYCDKMSIELRVFENTDAFLPFISYPQ 130
>pdb|3MA9|L Chain L, Crystal Structure Of Gp41 Derived Protein Complexed With
Fab 8066
pdb|3MAC|L Chain L, Crystal Structure Of Gp41-Derived Protein Complexed With
Fab 8062
Length = 213
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 45/221 (20%), Positives = 84/221 (38%), Gaps = 33/221 (14%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------- 178
D+++ +PP +S V GQ ++ C P SW ++ P
Sbjct: 1 DIELTQPPSVS--------VVPGQTARISCSGDNIPYEYASWYQQKPGQAPVLVIYGDNN 52
Query: 179 ---------TGGSIYRGSILKIPQITKEDRGTYYCVAENGV------GKGTRRNIAVEVE 223
+G + + L I ED YYC + + + G GT+ + + +
Sbjct: 53 RPSGIPERFSGSNSGNTATLTISGTQAEDEADYYCASWDSMTVDGVFGGGTKLTVLGQPK 112
Query: 224 FAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATA 282
AP +T+ P + L C + + P A+ V K D+ V + + S +
Sbjct: 113 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 172
Query: 283 DEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVELFES 323
+ + + + + + SY C+ ++ T EKTV E+
Sbjct: 173 KYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTEA 213
>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 = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 26/91 (28%), Positives = 43/91 (47%), Gaps = 7/91 (7%)
Query: 225 APVITVPKPRLGQALQYD-MDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATAD 283
AP+ + KP+ + L+ D + LEC + A PPP + W K + + V N S+ D
Sbjct: 15 APMF-IYKPQSKKVLEGDSVKLECQISAIPPPKLFW-KRNNEMVQFNTDRISLYQ----D 68
Query: 284 EFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
T+ + + K+ G Y A N+ G +
Sbjct: 69 NTGRVTLLIKDVNKKDAGWYTVSAVNEAGVT 99
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 44/95 (46%), Gaps = 7/95 (7%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGG--SIYRGS----ILKIPQITK 196
+S V EG V+LEC P P++ W+R N + S+Y+ + L I + K
Sbjct: 23 QSKKVLEGDSVKLECQISAIPPPKLFWKRNNEMVQFNTDRISLYQDNTGRVTLLIKDVNK 82
Query: 197 EDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVP 231
+D G Y A N G T N ++V P T+P
Sbjct: 83 KDAGWYTVSAVNEAGV-TTCNTRLDVTARPNQTLP 116
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 40/95 (42%), Gaps = 14/95 (14%)
Query: 22 QRTPTISYISQEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIR 81
+R P Y Q + G +V+L+C + + W + N++ +
Sbjct: 13 KRAPMFIYKPQSKKVLEGDSVKLECQISAIPPPKLFWKR--NNEMVQ-----------FN 59
Query: 82 DSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVI 116
R ++ Y + TLL+KD+ + DAG+Y +
Sbjct: 60 TDRISL-YQDNTGRVTLLIKDVNKKDAGWYTVSAV 93
>pdb|1FDL|L Chain L, Crystallographic Refinement Of The Three-Dimensional
Structure Of The Fab D1.3-Lysozyme Complex At 2.5-
Angstroms Resolution
Length = 214
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 51/226 (22%), Positives = 83/226 (36%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------- 178
D+Q+ + P SL S G+ V + C A G+ ++W ++ P
Sbjct: 1 DIQMTQSPA-------SLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTT 53
Query: 179 -TGG--SIYRGS------ILKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFA 225
G S + GS LKI + ED G+YYC G GT+ I + A
Sbjct: 54 LADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPRTFGGGTKLEIK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1NDG|B Chain B, Crystal Structure Of Fab Fragment Of Antibody Hyhel-8
Complexed With Its Antigen Lysozyme
Length = 210
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAENGV--GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L++ +T ED TYYC +G G+GT ++ AP + P G + L
Sbjct: 80 LQLSSVTTEDTATYYCANWDGTYWGEGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSVTLG 139
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 140 CLVKGYFP 147
>pdb|1CDY|A Chain A, Structure Of T-Cell Surface Glycoprotein Cd4 Mutant With
Gly 47 Replaced By Ser
Length = 178
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 72/171 (42%), Gaps = 25/171 (14%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS---- 94
G TVEL C+ + W ++ K+ + GS L S+ R D+ S
Sbjct: 9 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NQGSFLTKSPSKLNDRADSRRSLWDQ 64
Query: 95 -TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ +GQ +
Sbjct: 65 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLL--QGQSL 114
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC 204
L + +P + R P G +I G L + Q+ +D GT+ C
Sbjct: 115 TLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTC 159
>pdb|1JGL|L Chain L, Crystal Structure Of Immunoglobulin Fab Fragment Complexed
With 17-Beta-Estradiol
pdb|1JHK|L Chain L, Crystal Structure Of The Anti-Estradiol Antibody 57-2
Length = 214
Score = 39.3 bits (90), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 52/226 (23%), Positives = 84/226 (37%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRE-----------NNAI 176
D+Q+ + P SL S G+ V + C A G+ ++W ++ N
Sbjct: 1 DIQMTQSPA-------SLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKT 53
Query: 177 LPTG-GSIYRGS------ILKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFA 225
L G S + GS LKI + ED GTYYC G GT+ + + A
Sbjct: 54 LADGVPSRFSGSGSGTQYSLKINSLQPEDFGTYYCHHFWSTPWTFGGGTKLEVK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3RJD|A Chain A, Crystal Structure Of Fc Ri And Its Implication To High
Affinity Immunoglobulin G Binding
Length = 262
Score = 39.3 bits (90), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 37/147 (25%), Positives = 65/147 (44%), Gaps = 23/147 (15%)
Query: 91 TASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEG 150
T +ST + + D+G YRCQ G++ + S + L++ R ++ S+R V +EG
Sbjct: 43 TQTSTPSYRITSASVNDSGEYRCQR--GLSGR-SDPIQLEIHRGWLLLQVSSR--VFTEG 97
Query: 151 QPVQLECFAGGHPTPRISWRRE--NNAILPTGGSIYR----GSILKIPQITKEDRGTYYC 204
+P+ L C A W+ + N + G ++ S L I + GTY+C
Sbjct: 98 EPLALRCHA---------WKDKLVYNVLYYRNGKAFKFFHWNSNLTILKTNISHNGTYHC 148
Query: 205 VAENGVGKGTRRNIAVEVEFAPVITVP 231
+G+GK + + V + P
Sbjct: 149 ---SGMGKHRYTSAGISVTVKELFPAP 172
>pdb|2B4C|C Chain C, Crystal Structure Of Hiv-1 Jr-fl Gp120 Core Protein
Containing The Third Variable Region (v3) Complexed With
Cd4 And The X5 Antibody
pdb|2QAD|B Chain B, Structure Of Tyrosine-Sulfated 412d Antibody Complexed
With Hiv-1 Yu2 Gp120 And Cd4
pdb|2QAD|F Chain F, Structure Of Tyrosine-Sulfated 412d Antibody Complexed
With Hiv-1 Yu2 Gp120 And Cd4
Length = 181
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 72/171 (42%), Gaps = 25/171 (14%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS---- 94
G TVEL C+ + W ++ K+ + GS L S+ R D+ S
Sbjct: 9 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NQGSFLTKGPSKLNDRADSRRSLWDQ 64
Query: 95 -TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ +GQ +
Sbjct: 65 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLL--QGQSL 114
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC 204
L + +P + R P G +I G L + Q+ +D GT+ C
Sbjct: 115 TLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTC 159
>pdb|1GC1|C Chain C, Hiv-1 Gp120 Core Complexed With Cd4 And A Neutralizing
Human Antibody
pdb|1G9M|C Chain C, Hiv-1 Hxbc2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1G9N|C Chain C, Hiv-1 Yu2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1RZJ|C Chain C, Hiv-1 Hxbc2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1RZK|C Chain C, Hiv-1 Yu2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
Length = 185
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 72/171 (42%), Gaps = 25/171 (14%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS---- 94
G TVEL C+ + W ++ K+ + GS L S+ R D+ S
Sbjct: 9 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NQGSFLTKGPSKLNDRADSRRSLWDQ 64
Query: 95 -TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ +GQ +
Sbjct: 65 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLL--QGQSL 114
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC 204
L + +P + R P G +I G L + Q+ +D GT+ C
Sbjct: 115 TLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTC 159
>pdb|2H1P|L Chain L, The Three-Dimensional Structures Of A Polysaccharide
Binding Antibody To Cryptococcus Neoformans And Its
Complex With A Peptide From A Phage Display Library:
Implications For The Identification Of Peptide Mimotopes
Length = 219
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED+G Y+C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDQGVYFCSQSTHVPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W ED++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDEDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|4AEH|L Chain L, Crystal Structure Of The Anti-Aahi Fab9c2 Antibody
Length = 214
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 51/226 (22%), Positives = 84/226 (37%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------- 178
D+Q+ + P SL VS G+ V + C A + ++W ++ P
Sbjct: 1 DVQMTQSPA-------SLSVSVGETVTITCRASENIYRNLAWYQQKQGKSPQLLVYAATN 53
Query: 179 -TGG--SIYRGS------ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFA 225
G S + GS LKI + ED G+YYC + G GT+ I + A
Sbjct: 54 LAAGVPSRFSGSGSGTQYSLKINSLQSEDFGSYYCQHFWNIPFTFGSGTKLEIK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1CDU|A Chain A, Structure Of T-Cell Surface Glycoprotein Cd4 Mutant With
Phe 43 Replaced By Val
Length = 178
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 72/171 (42%), Gaps = 25/171 (14%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS---- 94
G TVEL C+ + W ++ K+ + GS L S+ R D+ S
Sbjct: 9 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NQGSVLTKGPSKLNDRADSRRSLWDQ 64
Query: 95 -TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ +GQ +
Sbjct: 65 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLL--QGQSL 114
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC 204
L + +P + R P G +I G L + Q+ +D GT+ C
Sbjct: 115 TLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTC 159
>pdb|3O2D|A Chain A, Crystal Structure Of Hiv-1 Primary Receptor Cd4 In Complex
With A Potent Antiviral Antibody
Length = 188
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 72/171 (42%), Gaps = 25/171 (14%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS---- 94
G TVEL C+ + W ++ K+ + GS L S+ R D+ S
Sbjct: 9 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NQGSFLTKGPSKLNDRADSRRSLWDQ 64
Query: 95 -TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ +GQ +
Sbjct: 65 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLL--QGQSL 114
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC 204
L + +P + R P G +I G L + Q+ +D GT+ C
Sbjct: 115 TLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTC 159
>pdb|3CD4|A Chain A, Refinement And Analysis Of The First Two Domains Of Human
Cd4
Length = 182
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 72/171 (42%), Gaps = 25/171 (14%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS---- 94
G TVEL C+ + W ++ K+ + GS L S+ R D+ S
Sbjct: 9 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NQGSFLTKGPSKLNDRADSRRSLWDQ 64
Query: 95 -TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ +GQ +
Sbjct: 65 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLL--QGQSL 114
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC 204
L + +P + R P G +I G L + Q+ +D GT+ C
Sbjct: 115 TLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTC 159
>pdb|2NXY|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein(S334a) Complexed With
Cd4 And Antibody 17b
pdb|2NXZ|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (t257s, S334a, S375w)
Complexed With Cd4 And Antibody 17b
pdb|2NY0|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (M95w, W96c, T257s,
V275c, S334a, S375w, A433m) Complexed With Cd4 And
Antibody 17b
pdb|2NY1|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (I109c, T257s, S334a,
S375w, Q428c) Complexed With Cd4 And Antibody 17b
pdb|2NY2|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (T123c, T257s, S334a,
S375w, G431c) Complexed With Cd4 And Antibody 17b
pdb|2NY3|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (K231c, T257s, E267c,
S334a, S375w) Complexed With Cd4 And Antibody 17b
pdb|2NY4|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (K231c, T257s, E268c,
S334a, S375w) Complexed With Cd4 And Antibody 17b
pdb|2NY5|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (m95w, W96c, I109c,
T257s, V275c, S334a, S375w, Q428c, A433m) Complexed With
Cd4 And Antibody 17b
pdb|2NY6|B Chain B, Hiv-1 Gp120 Envelope Glycoprotein (m95w, W96c, I109c,
T123c, T257s, V275c,s334a, S375w, Q428c, G431c)
Complexed With Cd4 And Antibody 17b
pdb|3JWD|C Chain C, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
pdb|3JWD|D Chain D, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
pdb|3JWO|C Chain C, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
Length = 184
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 72/171 (42%), Gaps = 25/171 (14%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS---- 94
G TVEL C+ + W ++ K+ + GS L S+ R D+ S
Sbjct: 10 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NQGSFLTKGPSKLNDRADSRRSLWDQ 65
Query: 95 -TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ +GQ +
Sbjct: 66 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLL--QGQSL 115
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC 204
L + +P + R P G +I G L + Q+ +D GT+ C
Sbjct: 116 TLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTC 160
>pdb|1C5D|H Chain H, The Crystal Structure Of The Fab Fragment Of A Rat
Monoclonal Antibody Against The Main Immunogenic Region
Of The Human Muscle Acetylcholine Receptor
pdb|1C5D|B Chain B, The Crystal Structure Of The Fab Fragment Of A Rat
Monoclonal Antibody Against The Main Immunogenic Region
Of The Human Muscle Acetylcholine Receptor
Length = 215
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 51/141 (36%), Gaps = 32/141 (22%)
Query: 146 VVSEGQPVQLECFAGGHP--TPRISWRR-------ENNAILPTGGSIYRGS--------- 187
+V Q + L C G P T +SW R E A + +GGS Y S
Sbjct: 11 LVQPSQTLSLTCTVSGFPLTTNGVSWVRQPPGKGLEWIAAISSGGSPYYNSALKSRLSIN 70
Query: 188 --------ILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKP 233
LK+ + ED Y+C E+G G GT ++ AP + P
Sbjct: 71 RDTSKSQVFLKMNSLQTEDTAIYFCTREDGWNYFDYWGPGTMVTVSSAQTTAPSVYPLAP 130
Query: 234 RLGQALQYDMDLECHVEAYPP 254
G + L C V+ Y P
Sbjct: 131 GCGDTTSSTVTLGCLVKGYFP 151
>pdb|1JL4|D Chain D, Crystal Structure Of The Human Cd4 N-Terminal Two Domain
Fragment Complexed To A Class Ii Mhc Molecule
pdb|1CDH|A Chain A, Structures Of An Hiv And Mhc Binding Fragment From Human
Cd4 As Refined In Two Crystal Lattices
pdb|1CDJ|A Chain A, Structure Of T-Cell Surface Glycoprotein Cd4
Length = 178
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 72/171 (42%), Gaps = 25/171 (14%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS---- 94
G TVEL C+ + W ++ K+ + GS L S+ R D+ S
Sbjct: 9 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NQGSFLTKGPSKLNDRADSRRSLWDQ 64
Query: 95 -TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ +GQ +
Sbjct: 65 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLL--QGQSL 114
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC 204
L + +P + R P G +I G L + Q+ +D GT+ C
Sbjct: 115 TLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTC 159
>pdb|1WEJ|L Chain L, Igg1 Fab Fragment (Of E8 Antibody) Complexed With Horse
Cytochrome C At 1.8 A Resolution
pdb|1QBL|L Chain L, Fab E8 (Fabe8a) X-Ray Structure At 2.26 Angstrom
Resolution
pdb|1QBM|L Chain L, Fab E8b Antibody, X-Ray Structure At 2.37 Angstroms
Resolution
Length = 214
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 52/226 (23%), Positives = 84/226 (37%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRE-----------NNAI 176
D+Q+ + P SL S G+ V + C A G+ ++W ++ N
Sbjct: 1 DIQMTQSPA-------SLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKT 53
Query: 177 LPTG-GSIYRGS------ILKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFA 225
L G S + GS LKI + ED G+YYC G GT+ I + A
Sbjct: 54 LADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPWTFGGGTKLEIK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1CDI|A Chain A, Structures Of An Hiv And Mhc Binding Fragment From Human
Cd4 As Refined In Two Crystal Lattices
Length = 179
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 72/171 (42%), Gaps = 25/171 (14%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS---- 94
G TVEL C+ + W ++ K+ + GS L S+ R D+ S
Sbjct: 10 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NQGSFLTKGPSKLNDRADSRRSLWDQ 65
Query: 95 -TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ +GQ +
Sbjct: 66 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLL--QGQSL 115
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC 204
L + +P + R P G +I G L + Q+ +D GT+ C
Sbjct: 116 TLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTC 160
>pdb|1FH5|L Chain L, Crystal Structure Of The Fab Fragment Of The Monoclonal
Antibody Mak33
Length = 213
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 48/213 (22%), Positives = 79/213 (37%), Gaps = 61/213 (28%)
Query: 144 SLVVSEGQPVQLECFAG-------------GHPTPRISWRRENNAI--LPTGGSIYRGS- 187
+L V+ G+ V L C A H +PR+ + + +I +P S + GS
Sbjct: 10 TLSVTPGESVSLSCRASQSISNNLHWYQQKSHESPRLLIKYASQSISGIP---SRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED G YYC N G GT+ + + AP +++ P Q
Sbjct: 67 SGTDFTLSINSVETEDFGMYYCQQSNSWPLTFGAGTKLELK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>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 = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 33/139 (23%), Positives = 58/139 (41%), Gaps = 9/139 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENG--------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L I + ED G YYC A + G GT+ + + + AP +T+ P +
Sbjct: 74 LAISGLRPEDEGDYYCAAWDDSRGGPDWVFGGGTKLTVLAQPKAAPSVTLFPPSSEELQA 133
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 134 NKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKS 193
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 194 HKSYSCQVTHEGSTVEKTV 212
>pdb|3IKC|A Chain A, Structure Of S67-27 In Complex With
Kdo(2.8)-7-O-Methyl-Kdo
pdb|3IKC|C Chain C, Structure Of S67-27 In Complex With
Kdo(2.8)-7-O-Methyl-Kdo
Length = 218
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 48/223 (21%), Positives = 76/223 (34%), Gaps = 60/223 (26%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 IVMTQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC N + G GT+ I + AP +
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSNNLRTFGGGTKLEIK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNN 271
++ P Q + C + + P I W +D++ +
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----D 175
Query: 272 QHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 STYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3IJY|A Chain A, Structure Of S67-27 In Complex With Kdo(2.8)kdo
pdb|3IJY|C Chain C, Structure Of S67-27 In Complex With Kdo(2.8)kdo
Length = 218
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 48/223 (21%), Positives = 76/223 (34%), Gaps = 60/223 (26%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 IVMTQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC N + G GT+ I + AP +
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSNNLRTFGGGTKLEIK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNN 271
++ P Q + C + + P I W +D++ +
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----D 175
Query: 272 QHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 STYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3IJH|A Chain A, Structure Of S67-27 In Complex With Ko
pdb|3IJH|C Chain C, Structure Of S67-27 In Complex With Ko
pdb|3IJS|A Chain A, Structure Of S67-27 In Complex With Tsbp
pdb|3IJS|C Chain C, Structure Of S67-27 In Complex With Tsbp
Length = 219
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 48/223 (21%), Positives = 76/223 (34%), Gaps = 60/223 (26%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 IVMTQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC N + G GT+ I + AP +
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSNNLRTFGGGTKLEIK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNN 271
++ P Q + C + + P I W +D++ +
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----D 175
Query: 272 QHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 STYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3QG6|B Chain B, Structural Basis For Ligand Recognition And Discrimination
Of A Quorum Quenching Antibody
pdb|3QG6|H Chain H, Structural Basis For Ligand Recognition And Discrimination
Of A Quorum Quenching Antibody
pdb|3QG7|H Chain H, Structural Basis For Ligand Recognition And Discrimination
Of A Quorum Quenching Antibody
Length = 213
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 1/68 (1%)
Query: 188 ILKIPQITKEDRGTYYCVAENGV-GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L++ +T ED GTY+C E G+GT ++ AP + P G + L
Sbjct: 80 FLQLHSVTIEDTGTYFCTREGDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 139
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 140 CLVKGYFP 147
>pdb|3LQA|C Chain C, Crystal Structure Of Clade C Gp120 In Complex With Scd4
And
Length = 192
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 72/171 (42%), Gaps = 25/171 (14%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS---- 94
G TVEL C+ + W ++ K+ + GS L S+ R D+ S
Sbjct: 9 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NQGSFLTKGPSKLNDRADSRRSLWDQ 64
Query: 95 -TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ +GQ +
Sbjct: 65 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLL--QGQSL 114
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC 204
L + +P + R P G +I G L + Q+ +D GT+ C
Sbjct: 115 TLTLESPPGSSPSVQCRS------PRGKNIQGGKTLSVSQLELQDSGTWTC 159
>pdb|1CIC|C Chain C, Idiotope-Anti-Idiotope Fab-Fab Complex; D1.3-E225
Length = 214
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 50/226 (22%), Positives = 83/226 (36%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------- 178
D+Q+ + P SL S G+ V + C A G+ ++W ++ P
Sbjct: 1 DIQMTQSPA-------SLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYYTTT 53
Query: 179 -TGG--SIYRGS------ILKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFA 225
G S + GS LKI + ED G+YYC G GT+ + + A
Sbjct: 54 LADGVPSRFSGSGSGTQYSLKINSLQPEDFGSYYCQHFWSTPRTFGGGTKLELK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLDSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1YC8|A Chain A, Caban33- Y37vE44GR45L TRIPLE MUTANT
pdb|1YC8|B Chain B, Caban33- Y37vE44GR45L TRIPLE MUTANT
pdb|1YZZ|A Chain A, Humanized Caban33 At Room Temperature
pdb|1YZZ|B Chain B, Humanized Caban33 At Room Temperature
Length = 124
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 44/89 (49%), Gaps = 6/89 (6%)
Query: 39 GGTVELKCSVQYAQDYPVI--WMKVDRNKVTEPLP-ISTGSSLIIRDS---RFAIRYDTA 92
GG++ L C+V + P W++ K E + IS+ ++ +DS RF I D A
Sbjct: 15 GGSLRLSCAVSGSTYSPCTTGWVRQAPGKGLEWVSSISSPGTIYYQDSVKGRFTISRDNA 74
Query: 93 SSTYTLLVKDIQETDAGYYRCQVIIGINN 121
+T L + +Q D G Y CQ+ G+ +
Sbjct: 75 KNTVYLQMNSLQREDTGMYYCQIQCGVRS 103
>pdb|1I8M|L Chain L, Crystal Structure Of A Recombinant Anti-Single-Stranded
Dna Antibody Fragment Complexed With Dt5
pdb|1I8M|A Chain A, Crystal Structure Of A Recombinant Anti-Single-Stranded
Dna Antibody Fragment Complexed With Dt5
pdb|1P7K|L Chain L, Crystal Structure Of An Anti-Ssdna Antigen-Binding
Fragment (Fab) Bound To
4-(2-Hydroxyethyl)piperazine-1-Ethanesulfonic Acid
(Hepes)
pdb|1P7K|A Chain A, Crystal Structure Of An Anti-Ssdna Antigen-Binding
Fragment (Fab) Bound To
4-(2-Hydroxyethyl)piperazine-1-Ethanesulfonic Acid
(Hepes)
pdb|1XF2|L Chain L, Structure Of Fab Dna-1 Complexed With Dt3
pdb|1XF2|A Chain A, Structure Of Fab Dna-1 Complexed With Dt3
pdb|1XF3|L Chain L, Structure Of Ligand-Free Fab Dna-1 In Space Group P65
pdb|1XF3|A Chain A, Structure Of Ligand-Free Fab Dna-1 In Space Group P65
pdb|1XF4|L Chain L, Structure Of Ligand-Free Fab Dna-1 In Space Group P321
Solved From Crystals With Perfect Hemihedral Twinning
pdb|1XF4|A Chain A, Structure Of Ligand-Free Fab Dna-1 In Space Group P321
Solved From Crystals With Perfect Hemihedral Twinning
pdb|2FR4|L Chain L, Structure Of Fab Dna-1 Complexed With A Stem-loop Dna
Ligand
pdb|2FR4|A Chain A, Structure Of Fab Dna-1 Complexed With A Stem-loop Dna
Ligand
Length = 214
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 51/226 (22%), Positives = 84/226 (37%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRE-----------NNAI 176
+LQ+ + P SL S G+ V + C A + ++W ++ N
Sbjct: 1 ELQMTQSPA-------SLSASVGETVTITCRASENIYSYLAWYQQKQGKSPQLLVYNAKT 53
Query: 177 LPTG-GSIYRGS------ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFA 225
L G S + GS LKI + ED G+YYC G G GT+ + + A
Sbjct: 54 LAEGVPSRFSGSGSGTQFSLKINSLQPEDFGSYYCQHHYGTPLTFGAGTKLELK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1YEI|L Chain L, Catalytic Antibody D2.3 Complex
pdb|1YEJ|L Chain L, Catalytic Antibody Complex
pdb|1YEK|L Chain L, Catalytic Antibody D2.3 Complex
pdb|1KN2|L Chain L, Catalytic Antibody D2.3 Complex
pdb|1KN4|L Chain L, Catalytic Antibody D2.3 Complex
Length = 219
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 49/214 (22%), Positives = 83/214 (38%), Gaps = 42/214 (19%)
Query: 127 VDLQVRRPPVISDNSTRSLVVSEGQPV--QLECFAGGHPTPRISWRRENNAILP---TGG 181
+ + + +P IS S++SL+ S G+ L G P I + ++ +P TG
Sbjct: 11 LSVTIGQPASISCKSSQSLLYSNGKTYLNWLLQRPGQSPKRLIHLVSKLDSGVPDRITGS 70
Query: 182 SIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI ++ D G YYCV G GT+ I + + AP +++ P Q
Sbjct: 71 GSGTDFTLKISRVEAADLGVYYCVQGTHFPYTFGGGTKLEI-LRADAAPTVSIFPPSSEQ 129
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 130 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 181
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3NZ8|B Chain B, Crystal Structure Of The Hiv-2 Neutralizing Fab Fragment
7c8
pdb|3NZ8|L Chain L, Crystal Structure Of The Hiv-2 Neutralizing Fab Fragment
7c8
Length = 218
Score = 38.5 bits (88), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1XGR|B Chain B, Structure For Antibody Hyhel-63 Y33i Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAENG--VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L++ +T ED TYYC + G G GT ++ AP + P G + L
Sbjct: 80 LQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 139
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 140 CLVKGYFP 147
>pdb|2R0W|L Chain L, Pfa2 Fab Complexed With Abeta1-8
Length = 219
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1XGT|B Chain B, Structure For Antibody Hyhel-63 Y33l Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAENG--VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L++ +T ED TYYC + G G GT ++ AP + P G + L
Sbjct: 80 LQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 139
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 140 CLVKGYFP 147
>pdb|1XGU|B Chain B, Structure For Antibody Hyhel-63 Y33f Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAENG--VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L++ +T ED TYYC + G G GT ++ AP + P G + L
Sbjct: 80 LQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 139
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 140 CLVKGYFP 147
>pdb|1CLZ|L Chain L, Igg Fab (Igg3, Kappa) Fragment (Mbr96) Complexed With
Lewis Y Nonoate Methyl Ester
Length = 219
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1XGP|B Chain B, Structure For Antibody Hyhel-63 Y33a Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAENG--VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L++ +T ED TYYC + G G GT ++ AP + P G + L
Sbjct: 80 LQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 139
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 140 CLVKGYFP 147
>pdb|2IPT|L Chain L, Pfa1 Fab Fragment
pdb|2IQA|L Chain L, Pfa2 Fab Fragment, Monoclinic Apo Form
pdb|2IQA|A Chain A, Pfa2 Fab Fragment, Monoclinic Apo Form
Length = 219
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1XGQ|B Chain B, Structure For Antibody Hyhel-63 Y33v Mutant Complexed With
Hen Egg Lysozyme
Length = 210
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAENG--VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L++ +T ED TYYC + G G GT ++ AP + P G + L
Sbjct: 80 LQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 139
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 140 CLVKGYFP 147
>pdb|2DQT|L Chain L, High Resolution Crystal Structure Of The Complex Of The
Hydrolytic Antibody Fab 6d9 And A Transition-State
Analog
pdb|2DQU|L Chain L, Crystal Form Ii: High Resolution Crystal Structure Of The
Complex Of The Hydrolytic Antibody Fab 6d9 And A
Transition-State Analog
pdb|2DTM|L Chain L, Thermodynamic And Structural Analyses Of Hydrolytic
Mechanism By Catalytic Antibodies
Length = 219
Score = 38.5 bits (88), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1DQJ|B Chain B, Crystal Structure Of The Anti-Lysozyme Antibody Hyhel-63
Complexed With Hen Egg White Lysozyme
pdb|1DQM|H Chain H, Crystal Structure Of Anti-Lysozyme Antibody
pdb|1DQQ|B Chain B, Crystal Structure Of Anti-Lysozyme Antibody Hyhel-63
pdb|1DQQ|D Chain D, Crystal Structure Of Anti-Lysozyme Antibody Hyhel-63
pdb|1NBY|B Chain B, Crystal Structure Of Hyhel-63 Complexed With Hel Mutant
K96a
pdb|1NBZ|B Chain B, Crystal Structure Of Hyhel-63 Complexed With Hel Mutant
K97a
Length = 210
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAENG--VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L++ +T ED TYYC + G G GT ++ AP + P G + L
Sbjct: 80 LQLNSVTTEDTATYYCASWGGDVWGAGTTVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 139
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 140 CLVKGYFP 147
>pdb|3RKD|L Chain L, Hepatitis E Virus E2s Domain (Genotype I) In Complex With
A Neutralizing Antibody
pdb|3RKD|C Chain C, Hepatitis E Virus E2s Domain (Genotype I) In Complex With
A Neutralizing Antibody
Length = 214
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 49/226 (21%), Positives = 80/226 (35%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------- 178
D+Q+ + P SL VS G+ V + C A ++W ++ P
Sbjct: 1 DIQMTQSPA-------SLSVSVGETVTITCRASEIIYSNLAWYQQKQGKSPQLLVYSATN 53
Query: 179 ---------TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFA 225
+G LKI + ED G+YYC G G GT+ I + A
Sbjct: 54 LAEGVPSRFSGSGSGTQYSLKINSLQSEDFGSYYCQHFWGNPWTFGGGTKLEIK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1GGB|H Chain H, Major Antigen-Induced Domain Rearrangements In An Antibody
pdb|1GGC|H Chain H, Major Antigen-Induced Domain Rearrangements In An Antibody
Length = 215
Score = 38.1 bits (87), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 2/69 (2%)
Query: 188 ILKIPQITKEDRGTYYCVAENGV--GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
LKI + D TYYCV E + G+GT ++ AP + P G + L
Sbjct: 81 FLKITSVDTADTATYYCVQEGYIYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVTL 140
Query: 246 ECHVEAYPP 254
C V+ Y P
Sbjct: 141 GCLVKGYFP 149
>pdb|1KEM|L Chain L, Catalytic Antibody 28b4 Fab Fragment
pdb|1KEL|L Chain L, Catalytic Antibody 28b4 Fab Fragment Complexed With Hapten
(1-[n-4'-Nitrobenzyl-N-4'-Carboxybutylamino]
Methylphosphonic Acid)
Length = 217
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3NH7|L Chain L, Crystal Structure Of The Neutralizing Fab Fragment Abd1556
Bound To The Bmp Type I Receptor Ia
pdb|3NH7|M Chain M, Crystal Structure Of The Neutralizing Fab Fragment Abd1556
Bound To The Bmp Type I Receptor Ia
pdb|3NH7|N Chain N, Crystal Structure Of The Neutralizing Fab Fragment Abd1556
Bound To The Bmp Type I Receptor Ia
pdb|3NH7|O Chain O, Crystal Structure Of The Neutralizing Fab Fragment Abd1556
Bound To The Bmp Type I Receptor Ia
Length = 213
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 45/221 (20%), Positives = 86/221 (38%), Gaps = 33/221 (14%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------- 178
D+++ +PP +S V+ GQ ++ C + + W ++ P
Sbjct: 1 DIELTQPPSVS--------VAPGQTARISCSGDSLGSKYVIWYQQKPGQAPVLVIYDDSN 52
Query: 179 ---------TGGSIYRGSILKIPQITKEDRGTYYC----VAENGV--GKGTRRNIAVEVE 223
+G + + L I ED YYC ++ NG G GT+ + + +
Sbjct: 53 RPSGIPERFSGSNSGNTATLTISGTQAEDEADYYCSTFTMSGNGTVFGGGTKLTVLGQPK 112
Query: 224 FAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATA 282
AP +T+ P + L C + + P A+ V K D+ V + + S +
Sbjct: 113 AAPSVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNN 172
Query: 283 DEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVELFES 323
+ + + + + + SY C+ ++ T EKTV E+
Sbjct: 173 KYAASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTVAPTEA 213
>pdb|1MLB|A Chain A, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme
pdb|1MLC|A Chain A, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme Complexed With Lysozyme
pdb|1MLC|C Chain C, Monoclonal Antibody Fab D44.1 Raised Against Chicken Egg-
White Lysozyme Complexed With Lysozyme
Length = 214
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 48/213 (22%), Positives = 79/213 (37%), Gaps = 61/213 (28%)
Query: 144 SLVVSEGQPVQLECFAG-------------GHPTPR--ISWRRENNAILPTGGSIYRGS- 187
+L V+ G V L C A H +PR I + ++++ +P S + GS
Sbjct: 10 TLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYVSQSSSGIP---SRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED G Y+C N G GT+ I + AP +++ P Q
Sbjct: 67 SGTDFTLSINSVETEDFGMYFCQQSNSWPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1IGF|L Chain L, Crystal Structures Of An Antibody To A Peptide And Its
Complex With Peptide Antigen At 2.8 Angstroms
pdb|1IGF|M Chain M, Crystal Structures Of An Antibody To A Peptide And Its
Complex With Peptide Antigen At 2.8 Angstroms
pdb|2IGF|L Chain L, Crystal Structures Of An Antibody To A Peptide And Its
Complex With Peptide Antigen At 2.8 Angstroms
Length = 219
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1I9I|L Chain L, Native Crystal Structure Of The Recombinant Monoclonal
Wild Type Anti-Testosterone Fab Fragment
pdb|1I9J|L Chain L, Testosterone Complex Structure Of The Recombinant
Monoclonal Wild Type Anti-Testosterone Fab Fragment
Length = 219
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3V7A|G Chain G, Structural Basis For Broad Detection Of Genogroup Ii
Noroviruses By A Monoclonal Antibody That Binds To A
Site Occluded In The Viral Particle
pdb|3V7A|H Chain H, Structural Basis For Broad Detection Of Genogroup Ii
Noroviruses By A Monoclonal Antibody That Binds To A
Site Occluded In The Viral Particle
Length = 215
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 48/227 (21%), Positives = 80/227 (35%), Gaps = 63/227 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------- 178
D+Q+ + P SL S G+ V + C A + ++W ++ P
Sbjct: 1 DIQMTQSPA-------SLSASVGETVTITCRASENIYSYLAWYQQKQGKSPQLLVYNVKT 53
Query: 179 ---------TGGSIYRGSILKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEF 224
+G LKI + ED G+YYC G G GT+ I +
Sbjct: 54 LAEGVPSRFSGSGSGTQFSLKINSLQPEDFGSYYCQHHYGSPPWTFGGGTKLEIK-RADA 112
Query: 225 APVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQV 267
AP +++ P Q + C + + P I W +D++
Sbjct: 113 APTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-- 170
Query: 268 LTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 171 ---DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|1F3D|L Chain L, Catalytic Antibody 4b2 In Complex With Its Amidinium
Hapten.
pdb|1F3D|J Chain J, Catalytic Antibody 4b2 In Complex With Its Amidinium
Hapten
Length = 219
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3OJD|A Chain A, Anti-Indolicidin Monoclonal Antibody V2d2 (Fab Fragment)
Length = 214
Score = 38.1 bits (87), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 48/209 (22%), Positives = 80/209 (38%), Gaps = 53/209 (25%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRE-----------NNAILPTG-GSIYRGS---- 187
SL S G+ V + C A G+ ++W ++ N + L G S + GS
Sbjct: 10 SLSASVGESVTITCKASGNIHNYLAWYQQKGGKSPQLLVFNASTLADGVPSRFSGSGSGT 69
Query: 188 --ILKIPQITKEDRGTYYC--VAENGVGKGTRRNIAVE-VEFAPVITVPKPRLGQALQYD 242
LKI + ED G+YYC GT N+ ++ + AP +++ P Q
Sbjct: 70 QYSLKINSLQPEDFGSYYCQHFWSTPFTFGTGTNLEIKRADAAPTVSIFPPSSEQLTSGG 129
Query: 243 MDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEF 285
+ C + + P I W +D++ + YS+S
Sbjct: 130 ASVVCFLNNFYPKDINVKWKIDGSERQGGVLNSWTDQDSK-----DSTYSMS-------- 176
Query: 286 TDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 --STLTLTKDEYERHNSYTCEATHKTTTS 203
>pdb|1F90|L Chain L, Fab Fragment Of Monoclonal Antibody (Lnkb-2) Against Human
Interleukin-2 In Complex With Antigenic Peptide
pdb|1F8T|L Chain L, Fab (Lnkb-2) Of Monoclonal Antibody, Crystal Structure
pdb|1S5I|L Chain L, Fab (Lnkb-2) Of Monoclonal Antibody To Human
Interleukin-2, Crystal Structure
Length = 219
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 49/214 (22%), Positives = 83/214 (38%), Gaps = 42/214 (19%)
Query: 127 VDLQVRRPPVISDNSTRSLVVSEGQPV--QLECFAGGHPTPRISWRRENNAILP---TGG 181
+ + + +P IS S++SL+ S G+ L G P I + ++ +P TG
Sbjct: 11 LSVTIGQPASISCESSQSLLYSNGKTYLNWLLQRPGQSPKRLIYLVSKLDSGVPDRFTGS 70
Query: 182 SIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
L+I ++ ED G YYCV G GT+ I + AP +++ P Q
Sbjct: 71 GSGTDFTLRISRVEAEDLGVYYCVQGTHFPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQ 129
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 130 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 181
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3U9U|B Chain B, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
pdb|3U9U|D Chain D, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
Length = 219
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1GGI|H Chain H, Crystal Structure Of An Hiv-1 Neutralizing Antibody 50.1
In Complex With Its V3 Loop Peptide Antigen
pdb|1GGI|J Chain J, Crystal Structure Of An Hiv-1 Neutralizing Antibody 50.1
In Complex With Its V3 Loop Peptide Antigen
Length = 222
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 30/69 (43%), Gaps = 2/69 (2%)
Query: 188 ILKIPQITKEDRGTYYCVAENGV--GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
LKI + D TYYCV E + G+GT ++ AP + P G + L
Sbjct: 81 FLKITSVDTADTATYYCVQEGYIYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVTL 140
Query: 246 ECHVEAYPP 254
C V+ Y P
Sbjct: 141 GCLVKGYFP 149
>pdb|1ZEA|L Chain L, Structure Of The Anti-Cholera Toxin Antibody Fab Fragment
Te33 In Complex With A D-Peptide
Length = 216
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + + G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHIPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3G6D|L Chain L, Crystal Structure Of The Complex Between Cnto607 Fab And
Il-13
pdb|3G6A|L Chain L, Crystal Structure Of Anti-Il-13 Antibody Cnto607
pdb|3G6A|A Chain A, Crystal Structure Of Anti-Il-13 Antibody Cnto607
Length = 213
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 42/199 (21%), Positives = 75/199 (37%), Gaps = 24/199 (12%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
S+ V+ GQ ++ C +SW ++ P +G +
Sbjct: 9 SVSVAPGQTARISCSGDNIGGTFVSWYQQKPGQAPVLVIYDDNDRPSGIPERFSGSNSGN 68
Query: 186 GSILKIPQITKEDRGTYYC-----VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+ L I ED YYC V N G GT+ + + + AP +T+ P +
Sbjct: 69 TATLTISGTQAEDEADYYCGTWDMVTNNVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQA 128
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 129 NKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKS 188
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 189 HRSYSCQVTHEGSTVEKTV 207
>pdb|1MRC|L Chain L, Preparation, Characterization And Crystallization Of An
Antibody Fab Fragment That Recognizes Rna. Crystal
Structures Of Native Fab And Three Fab-Mononucleotide
Complexes
pdb|1MRD|L Chain L, Preparation, Characterization And Crystallization Of An
Antibody Fab Fragment That Recognizes Rna. Crystal
Structures Of Native Fab And Three Fab-Mononucleotide
Complexes
pdb|1MRE|L Chain L, Preparation, Characterization And Crystallization Of An
Antibody Fab Fragment That Recognizes Rna. Crystal
Structures Of Native Fab And Three Fab-Mononucleotide
Complexes
pdb|1MRF|L Chain L, Preparation, Characterization And Crystallization Of An
Antibody Fab Fragment That Recognizes Rna. Crystal
Structures Of Native Fab And Three Fab-Mononucleotide
Complexes
Length = 219
Score = 38.1 bits (87), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 36/137 (26%), Positives = 59/137 (43%), Gaps = 17/137 (12%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQSTHVPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI--VWI---KEDTQQVLTN--NQHYSISHFATADEFTDTTIRVITIEK 297
+ C + + P I W KE VL + +Q+ S ++ + +T+ + E
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGKERQNGVLNSWTDQNSKDSTYSMS-----STLTLTKDEY 191
Query: 298 RQYGSYICRAANKLGTS 314
++ SY C A +K TS
Sbjct: 192 ERHNSYTCEATHKTSTS 208
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 43/117 (36%), Gaps = 26/117 (22%)
Query: 103 IQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGH 162
I E D Y+ C + + PP L V+EG +L+C A
Sbjct: 329 IGELDQNYFTCYAPV-------------IVEPPA-------DLNVTEGMAAELKCRASTS 368
Query: 163 PTPRISWRRENNAILPTGG-----SIYRGSILKIPQITKEDRGTYYCVAENGVGKGT 214
T +SW N ++ G ++ L +T +D G Y C+ N VG T
Sbjct: 369 LT-SVSWITPNGTVMTHGAYKVRIAVLSDGTLNFTNVTVQDTGMYTCMVSNSVGNTT 424
>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 = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 26/84 (30%), Positives = 36/84 (42%), Gaps = 29/84 (34%)
Query: 147 VSEGQPVQLECFAGGHPTPRISWRRE----------NNAI----------LPTGGSIYRG 186
+ E PV+L C G +PR+ W+ + NN I LPTG
Sbjct: 15 IPENNPVKLSCAYSGFSSPRVEWKFDQGDTTRLVCYNNKITASYEDRVTFLPTG------ 68
Query: 187 SILKIPQITKEDRGTYYC-VAENG 209
+ +T+ED GTY C V+E G
Sbjct: 69 --ITFKSVTREDTGTYTCMVSEEG 90
>pdb|1EHL|L Chain L, 64m-2 Antibody Fab Complexed With D(5ht)(6-4)t
Length = 217
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 35/146 (23%), Positives = 57/146 (39%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q +
Sbjct: 78 LKISRVEAEDLGVYYCFQGSLVPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 136
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 137 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 181
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 182 TLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|1YC7|A Chain A, Caban33 Vhh Fragment Against Vsg
pdb|1YC7|B Chain B, Caban33 Vhh Fragment Against Vsg
Length = 124
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 6/89 (6%)
Query: 39 GGTVELKCSVQYAQDYPVI--WMKVDRNKVTEPLP-ISTGSSLIIRDS---RFAIRYDTA 92
GG++ L C+V + P W + K E + IS+ ++ +DS RF I D A
Sbjct: 15 GGSLRLSCAVSGSTYSPCTTGWYRQAPGKEREWVSSISSPGTIYYQDSVKGRFTISRDNA 74
Query: 93 SSTYTLLVKDIQETDAGYYRCQVIIGINN 121
+T L + +Q D G Y CQ+ G+ +
Sbjct: 75 KNTVYLQMNSLQREDTGMYYCQIQCGVRS 103
>pdb|3VG9|B Chain B, Crystal Structure Of Human Adenosine A2a Receptor With An
Allosteric Inverse-Agonist Antibody At 2.7 A Resolution
pdb|3VGA|B Chain B, Crystal Structure Of Human Adenosine A2a Receptor With An
Allosteric Inverse-Agonist Antibody At 3.1 A Resolution
Length = 214
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 36/147 (24%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED GTYYC G G GT+ I + AP +++ P Q
Sbjct: 73 LKINRLQPEDFGTYYCQHFYGSTWAFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1PLG|L Chain L, Evidence For The Extended Helical Nature Of Polysaccharide
Epitopes. The 2.8 Angstroms Resolution Structure And
Thermodynamics Of Ligand Binding Of An Antigen Binding
Fragment Specific For Alpha-(2->8)- Polysialic Acid
Length = 215
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 50/204 (24%), Positives = 75/204 (36%), Gaps = 42/204 (20%)
Query: 137 ISDNSTRSLVVSEGQPVQLECFA--GGHPTP---RISWRRENNAILPTGGSIYRGSILKI 191
IS S++SLV S G G P P R+S R +G LKI
Sbjct: 21 ISCRSSQSLVHSNGNTYLYWYLQKPGQSPKPLIYRVSNRFSGVPDRFSGSGSGTDFTLKI 80
Query: 192 PQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLEC 247
++ ED G Y+C V G GTR I + AP +++ P Q + C
Sbjct: 81 SRVEAEDLGVYFCFQGTHVPYTFGGGTRLEIK-RADAAPTVSIFPPSSEQLTSGGASVVC 139
Query: 248 HVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDTTI 290
+ + P I W +D++ + YS+S +T+
Sbjct: 140 FLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------STL 184
Query: 291 RVITIEKRQYGSYICRAANKLGTS 314
+ E ++ SY C A +K TS
Sbjct: 185 TLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1YEE|L Chain L, Structure Of A Catalytic Antibody, Igg2a Fab Fragment
(D2.5)
Length = 219
Score = 37.7 bits (86), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 49/214 (22%), Positives = 83/214 (38%), Gaps = 42/214 (19%)
Query: 127 VDLQVRRPPVISDNSTRSLVVSEGQPV--QLECFAGGHPTPRISWRRENNAILP---TGG 181
+ + + +P IS S++SL+ S G+ L G P I + ++ +P TG
Sbjct: 11 LSVTIGQPASISCKSSQSLLYSNGKTYLSWLLQRPGQSPKRLIYLVSKLDSGVPDRFTGS 70
Query: 182 SIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI ++ D G YYCV G GT+ I + + AP +++ P Q
Sbjct: 71 GSGTDFTLKISRVEAADLGLYYCVQGTHFPYTFGGGTKLEI-LRADAAPTVSIFPPSSEQ 129
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 130 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 181
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1KEG|L Chain L, Antibody 64m-2 Fab Complexed With Dtt(6-4)tt
Length = 216
Score = 37.7 bits (86), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 35/146 (23%), Positives = 57/146 (39%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q +
Sbjct: 78 LKISRVEAEDLGVYYCFQGSLVPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 136
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 137 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 181
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 182 TLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3S4S|G Chain G, Crystal Structure Of Cd4 Mutant Bound To Hla-Dr1
pdb|3S4S|H Chain H, Crystal Structure Of Cd4 Mutant Bound To Hla-Dr1
Length = 191
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 42/171 (24%), Positives = 70/171 (40%), Gaps = 25/171 (14%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS---- 94
G TVEL C+ + W ++ K+ + GS L S+ R D+ S
Sbjct: 13 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NYGSFLWKGPSKLNDRADSRRSLWDQ 68
Query: 95 -TYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ + +
Sbjct: 69 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLLQGQSLTL 120
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC 204
LE G P+ + P G +I G L + Q+ +D GT+ C
Sbjct: 121 TLESPPGSSPSVQCR--------SPRGKNIQGGKTLSVSQLELQDSGTWTC 163
>pdb|2R0Z|L Chain L, Pfa1 Fab Complexed With Gripi Peptide Fragment
pdb|3EYS|L Chain L, Pfa1 Fab Fragment Complexed With Pyro-Glu3-A-Beta (3-8)
pdb|3EYU|L Chain L, Pfa1 Fab Fragment Complexed With Ror2(518-525)
Length = 219
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2DDQ|L Chain L, Crystal Structure Of The Fab Fragment Of A R310 Antibody
Complexed With (R)-Hne-Histidine Adduct
Length = 218
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|4AEI|L Chain L, Crystal Structure Of The Aahii-Fab4c1 Complex
pdb|4AEI|M Chain M, Crystal Structure Of The Aahii-Fab4c1 Complex
pdb|4AEI|N Chain N, Crystal Structure Of The Aahii-Fab4c1 Complex
Length = 219
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2ARJ|L Chain L, Cd8alpha-Alpha In Complex With Yts 105.18 Fab
pdb|2ARJ|A Chain A, Cd8alpha-Alpha In Complex With Yts 105.18 Fab
Length = 211
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 44/213 (20%), Positives = 80/213 (37%), Gaps = 45/213 (21%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S SL VS G+ V L C A + I+W ++ P
Sbjct: 2 IVMTQSPSSLAVSAGERVTLNCKASQNVRNNIAWYQQKPGQSPKLLIYYASYRYTGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCV----AENGVGKGTRRNIAVEVEFAPVITVPKP 233
TG L I + +D YYC + G GT+ + + + AP +++ P
Sbjct: 62 FTGDGFGTDFTLAINSVQADDAAFYYCQRIYNSPYTFGAGTKLEL-IRADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPP--AIVWIKEDTQQ---VL-------TNNQHYSISHFAT 281
+ Q + C V + P ++ W + ++Q VL + + YS+S
Sbjct: 121 SMEQLTSGGASVVCFVNNFYPRDISVKWKIDGSEQRDGVLDSVTDQDSKDSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + +E ++ Y C +K +S
Sbjct: 177 ------STLSLTKVEYERHNLYTCEVVHKTSSS 203
>pdb|1C1E|L Chain L, Crystal Structure Of A Diels-alderase Catalytic Antibody
1e9 In Complex With Its Hapten
Length = 216
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 34/148 (22%), Positives = 56/148 (37%), Gaps = 37/148 (25%)
Query: 188 ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
ILKI ++ ED G Y+C G GT+ I + AP +++ P Q
Sbjct: 77 ILKISRVEAEDLGVYFCFQSTHFFPTFGGGTKLEIK-SADAAPTVSIFPPSSEQLTSGGA 135
Query: 244 DLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFT 286
+ C + + P I W +D++ + YS+S
Sbjct: 136 SVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--------- 181
Query: 287 DTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3CXD|L Chain L, Crystal Structure Of Anti-Osteopontin Antibody 23c3 In
Complex With Its Epitope Peptide
pdb|3DSF|L Chain L, Crystal Structure Of Anti-Osteopontin Antibody 23c3 In
Complex With W43a Mutated Epitope Peptide
Length = 213
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 47/195 (24%), Positives = 75/195 (38%), Gaps = 25/195 (12%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------TGG--SIYRGS---- 187
SL VS G+ V + C A + ++W ++ P G S + GS
Sbjct: 10 SLSVSVGETVTITCRASENIYSFLAWYQQKQGKSPQLLVYAATNLADGVPSRFSGSGSGT 69
Query: 188 --ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
LKI + ED GTYYC G G GT+ I + AP +++ P Q
Sbjct: 70 QFSLKINSLQSEDFGTYYCQHFWGTPFTFGSGTKLEIK-RSDAAPTVSIFPPSAAQLSSG 128
Query: 242 DMDLECHVEAYPPPAI--VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
+ C + + P I W + ++ ++ A + +T+ E +
Sbjct: 129 GGSVVCFLNNFYPKDINVKWKIDGAERGNGVLNSWTSQDSADSTYSMSSTLTSGGDEYER 188
Query: 300 YGSYICRAANKLGTS 314
+ SY C A +K TS
Sbjct: 189 HNSYTCEATHKTSTS 203
>pdb|3SGD|L Chain L, Crystal Structure Of The Mouse Mab 17.2
pdb|3SGD|I Chain I, Crystal Structure Of The Mouse Mab 17.2
pdb|3SGE|L Chain L, Crystal Structure Of Mab 17.2 In Complex With R13 Peptide
pdb|3SGE|I Chain I, Crystal Structure Of Mab 17.2 In Complex With R13 Peptide
Length = 219
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 49/214 (22%), Positives = 84/214 (39%), Gaps = 42/214 (19%)
Query: 127 VDLQVRRPPVISDNSTRSLVVSEGQPV--QLECFAGGHPTPRISWRRENNAILP---TGG 181
+ + + +P IS S++SL+ S+G+ L G P I + ++ +P TG
Sbjct: 11 LSVTIGQPASISCKSSQSLLDSDGKTYLNWLLQRPGQSPKRLIYLVSKLDSGVPDRFTGS 70
Query: 182 SIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI ++ ED G YYC + G GT+ I + AP +++ P Q
Sbjct: 71 GSGTDFTLKISRVEAEDLGVYYCWQGSHFPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQ 129
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 130 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 181
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3IFP|L Chain L, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:12b4) Complex
pdb|3IFP|B Chain B, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:12b4) Complex
pdb|3IFP|D Chain D, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:12b4) Complex
pdb|3IFP|F Chain F, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:12b4) Complex
Length = 219
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2IPU|L Chain L, Pfa1 Fab Fragment Complexed With Abeta 1-8 Peptide
pdb|2IPU|K Chain K, Pfa1 Fab Fragment Complexed With Abeta 1-8 Peptide
pdb|2IQ9|L Chain L, Pfa2 Fab Fragment, Triclinic Apo Form
Length = 219
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2FL5|L Chain L, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
pdb|2FL5|A Chain A, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
pdb|2FL5|C Chain C, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
pdb|2FL5|E Chain E, Cofactor-Containing Antibodies: Crystal Structure Of The
Original Yellow Antibody
Length = 209
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 46/213 (21%), Positives = 84/213 (39%), Gaps = 33/213 (15%)
Query: 130 QVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------- 178
++++PP +S VS GQ ++ C P W +E + P
Sbjct: 3 ELKQPPSVS--------VSPGQTARITCSGDVLPKKYAYWYQERSGQAPVLVVYEDSGRP 54
Query: 179 -------TGGSIYRGSILKIPQITKEDRGTYYCVAE--NG---VGKGTRRNIAVEVEFAP 226
+G S + L I ED YYC ++ NG G GT+ ++ + + AP
Sbjct: 55 SEIPERFSGSSSGTKATLTISGAQVEDEADYYCYSDISNGYPLFGGGTKLSVG-QPKAAP 113
Query: 227 VITVPKPRLGQALQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEF 285
+T+ P + L C + + P A+ V K D+ + + + S +
Sbjct: 114 SVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPIKAGVETTTPSKQSNNKYA 173
Query: 286 TDTTIRVITIEKRQYGSYICRAANKLGTSEKTV 318
+ + + + + + SY C+ ++ T EKTV
Sbjct: 174 ASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTV 206
>pdb|2EO9|A Chain A, Solution Structure Of The Fifth Ig-Like Domain From Human
Roundabout Homo1
Length = 118
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 40/102 (39%), Gaps = 3/102 (2%)
Query: 134 PPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSI--YRGSILKI 191
PPVI V +G V L C A G P P I WR++ + I +L+I
Sbjct: 8 PPVIRQGPVNQTVAVDGTFV-LSCVATGSPVPTILWRKDGVLVSTQDSRIKQLENGVLQI 66
Query: 192 PQITKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKP 233
D G Y C+A G+ T EF + P+P
Sbjct: 67 RYAKLGDTGRYTCIASTPSGEATWSAYIEVQEFGVPVQPPRP 108
>pdb|3IFL|L Chain L, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:12a11) Complex
pdb|3IFN|L Chain L, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
40:12a11) Complex
Length = 219
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGIYYCFQSSHVPLTFGAGTKLELK-GADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2ZCK|L Chain L, Crystal Structure Of A Ternary Complex Between Psa, A
Substrat-Acyl Intermediate And An Activating Antibody
pdb|2ZCL|L Chain L, Crystal Structure Of Human Prostate Specific Antigen
Complexed With An Activating Antibody
Length = 218
Score = 37.4 bits (85), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 43/186 (23%), Positives = 69/186 (37%), Gaps = 44/186 (23%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAEN- 208
GQP +L FA + I R + G+ + L I + +ED TYYC N
Sbjct: 45 GQPPKLLIFAASNLASGIPARLSGSG----SGTDF---TLNIQPVEEEDAATYYCQQSNE 97
Query: 209 ---GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI-------- 257
G GT+ I + AP +++ P Q + C + + P I
Sbjct: 98 DPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 156
Query: 258 ---------VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAA 308
W +D++ + YS+S +T+ + E ++ SY C A
Sbjct: 157 SERQNGVLNSWTDQDSK-----DSTYSMS----------STLTLTKDEYERHNSYTCEAT 201
Query: 309 NKLGTS 314
+K TS
Sbjct: 202 HKTSTS 207
>pdb|2Q8B|H Chain H, Structure Of The Malaria Antigen Ama1 In Complex With A
Growth- Inhibitory Antibody
Length = 210
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 30/70 (42%)
Query: 189 LKIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECH 248
L++ +T ED YYC + G+GT ++ P + P G + L C
Sbjct: 81 LQLSSLTSEDTAVYYCTLSHFWGQGTTLTVSSAKTTPPSVYPLAPGCGDTTGSSVTLGCL 140
Query: 249 VEAYPPPAIV 258
V+ Y P ++
Sbjct: 141 VKGYFPESVT 150
>pdb|1IGC|L Chain L, Igg1 Fab Fragment (Mopc21) Complex With Domain Iii Of
Protein G From Streptococcus
Length = 213
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 46/204 (22%), Positives = 76/204 (37%), Gaps = 28/204 (13%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S +S+ +S G+ V L C A + +SW ++ P
Sbjct: 2 IVMTQSPKSMSMSVGERVTLTCKASENVVTYVSWYQQKPEQSPKLLIYGASNRYTGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
TG L I + ED Y+C N G GT+ I + AP +++ P
Sbjct: 62 FTGSGSATDFTLTISSVQAEDLADYHCGQGNSYPYTFGGGTKLEIK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI--VW-IKEDTQQVLTNNQHYSISHFATADEFTDTTI 290
Q + C + + P I W I + Q + N+ S +T +T+
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDSERQNGVLNSWTDQDSKDSTYS--MSSTL 178
Query: 291 RVITIEKRQYGSYICRAANKLGTS 314
+ E ++ SY C A +K TS
Sbjct: 179 TLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1YEC|L Chain L, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.3)
pdb|1YEF|L Chain L, Structure Of Igg2a Fab Fragment (D2.3) Complexed With
Substrate Analogue
pdb|1YEG|L Chain L, Structure Of Igg2a Fab Fragment (D2.3) Complexed With
Reaction Product
pdb|1YEH|L Chain L, Structure Of Igg2a Fab Fragment
Length = 219
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 49/214 (22%), Positives = 83/214 (38%), Gaps = 42/214 (19%)
Query: 127 VDLQVRRPPVISDNSTRSLVVSEGQPV--QLECFAGGHPTPRISWRRENNAILP---TGG 181
+ + + +P IS S++SL+ S G+ L G P I + ++ +P TG
Sbjct: 11 LSVTIGQPASISCKSSQSLLYSNGKTYLNWLLQRPGQSPKRLIHLVSKLDSGVPDRITGS 70
Query: 182 SIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI ++ D G YYCV G GT+ I + + AP +++ P Q
Sbjct: 71 GSGTDFTLKISRVEAADLGVYYCVQGTHFPYTFGGGTKLEI-LRGDAAPTVSIFPPSSEQ 129
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 130 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 181
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1XGP|A Chain A, Structure For Antibody Hyhel-63 Y33a Mutant Complexed With
Hen Egg Lysozyme
pdb|1XGQ|A Chain A, Structure For Antibody Hyhel-63 Y33v Mutant Complexed With
Hen Egg Lysozyme
pdb|1XGR|A Chain A, Structure For Antibody Hyhel-63 Y33i Mutant Complexed With
Hen Egg Lysozyme
pdb|1XGT|A Chain A, Structure For Antibody Hyhel-63 Y33l Mutant Complexed With
Hen Egg Lysozyme
Length = 215
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 48/213 (22%), Positives = 78/213 (36%), Gaps = 61/213 (28%)
Query: 144 SLVVSEGQPVQLECFAG-------------GHPTPRISWRRENNAI--LPTGGSIYRGS- 187
+L V+ G V L C A H +PR+ + + +I +P S + GS
Sbjct: 11 TLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYASQSISGIP---SRFSGSG 67
Query: 188 -----ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED G Y+C N G GT+ I + AP +++ P Q
Sbjct: 68 SGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 126
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 127 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 177
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 ------STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|2Q8A|H Chain H, Structure Of The Malaria Antigen Ama1 In Complex With A
Growth- Inhibitory Antibody
Length = 210
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 30/70 (42%)
Query: 189 LKIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECH 248
L++ +T ED YYC + G+GT ++ P + P G + L C
Sbjct: 81 LQLSSLTSEDTAVYYCTLSHFWGQGTTLTVSSAKTTPPSVYPLAPGCGDTTGSSVTLGCL 140
Query: 249 VEAYPPPAIV 258
V+ Y P ++
Sbjct: 141 VKGYFPESVT 150
>pdb|3QG6|A Chain A, Structural Basis For Ligand Recognition And Discrimination
Of A Quorum Quenching Antibody
pdb|3QG6|L Chain L, Structural Basis For Ligand Recognition And Discrimination
Of A Quorum Quenching Antibody
Length = 218
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVESEDLGIYYCSQTTHVPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2ZCH|L Chain L, Crystal Structure Of Human Prostate Specific Antigen
Complexed With An Activating Antibody
Length = 215
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 43/186 (23%), Positives = 69/186 (37%), Gaps = 44/186 (23%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAEN- 208
GQP +L FA + I R + G+ + L I + +ED TYYC N
Sbjct: 45 GQPPKLLIFAASNLASGIPARLSGSG----SGTDF---TLNIQPVEEEDAATYYCQQSNE 97
Query: 209 ---GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI-------- 257
G GT+ I + AP +++ P Q + C + + P I
Sbjct: 98 DPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 156
Query: 258 ---------VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAA 308
W +D++ + YS+S +T+ + E ++ SY C A
Sbjct: 157 SERQNGVLNSWTDQDSK-----DSTYSMS----------STLTLTKDEYERHNSYTCEAT 201
Query: 309 NKLGTS 314
+K TS
Sbjct: 202 HKTSTS 207
>pdb|1TET|L Chain L, Crystal Structure Of An Anticholera Toxin Peptide Complex
At 2.3 Angstroms
Length = 216
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + + G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHIPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E + SY C A +K TS
Sbjct: 182 STLTLTKDEYEWHNSYTCEATHKTSTS 208
>pdb|1DQJ|A Chain A, Crystal Structure Of The Anti-Lysozyme Antibody Hyhel-63
Complexed With Hen Egg White Lysozyme
pdb|1DQM|L Chain L, Crystal Structure Of Anti-Lysozyme Antibody
pdb|1DQQ|A Chain A, Crystal Structure Of Anti-Lysozyme Antibody Hyhel-63
pdb|1DQQ|C Chain C, Crystal Structure Of Anti-Lysozyme Antibody Hyhel-63
pdb|1NBY|A Chain A, Crystal Structure Of Hyhel-63 Complexed With Hel Mutant
K96a
pdb|1NBZ|A Chain A, Crystal Structure Of Hyhel-63 Complexed With Hel Mutant
K97a
pdb|1NDG|A Chain A, Crystal Structure Of Fab Fragment Of Antibody Hyhel-8
Complexed With Its Antigen Lysozyme
pdb|1NDM|A Chain A, Crystal Structure Of Fab Fragment Of Antibody Hyhel-26
Complexed With Lysozyme
pdb|1XGU|A Chain A, Structure For Antibody Hyhel-63 Y33f Mutant Complexed With
Hen Egg Lysozyme
Length = 214
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 48/213 (22%), Positives = 78/213 (36%), Gaps = 61/213 (28%)
Query: 144 SLVVSEGQPVQLECFAG-------------GHPTPRISWRRENNAI--LPTGGSIYRGS- 187
+L V+ G V L C A H +PR+ + + +I +P S + GS
Sbjct: 10 TLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYASQSISGIP---SRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED G Y+C N G GT+ I + AP +++ P Q
Sbjct: 67 SGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3O41|L Chain L, Crystal Structure Of 101f Fab Bound To 15-Mer Peptide
Epitope
pdb|3O41|B Chain B, Crystal Structure Of 101f Fab Bound To 15-Mer Peptide
Epitope
pdb|3O45|L Chain L, Crystal Structure Of 101f Fab Bound To 17-Mer Peptide
Epitope
pdb|3O45|B Chain B, Crystal Structure Of 101f Fab Bound To 17-Mer Peptide
Epitope
Length = 218
Score = 37.4 bits (85), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 44/186 (23%), Positives = 70/186 (37%), Gaps = 44/186 (23%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC--VAE 207
GQP +L +A +P I R TG L I + +ED TYYC + E
Sbjct: 45 GQPPKLLIYAASNPESGIPARF-------TGSGSGTDFTLNIHPVEEEDAATYYCQQIIE 97
Query: 208 N--GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI-------- 257
+ G GT+ I + AP +++ P Q + C + + P I
Sbjct: 98 DPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDG 156
Query: 258 ---------VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAA 308
W +D++ + YS+S +T+ + E ++ SY C A
Sbjct: 157 SERQNGVLNSWTDQDSK-----DSTYSMS----------STLTLTKDEYERHNSYTCEAT 201
Query: 309 NKLGTS 314
+K TS
Sbjct: 202 HKTSTS 207
>pdb|4HPY|L Chain L, Crystal Structure Of Rv144-elicited Antibody Ch59 In
Complex With V2 Peptide
Length = 215
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 42/200 (21%), Positives = 75/200 (37%), Gaps = 25/200 (12%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
S+ VS GQ ++ C P W ++ + P +G S
Sbjct: 10 SVSVSPGQTARITCSGDALPKNYAYWYQQKSGQAPVLVIYEDSKRPSGIPERFSGSSSGT 69
Query: 186 GSILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
+ L I ED YYC + + G GT+ + + + AP +T+ P +
Sbjct: 70 MATLTISGAQVEDEADYYCYSTDSSGNHRVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQ 129
Query: 240 QYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKR 298
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 130 ANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWK 189
Query: 299 QYGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 190 SHRSYSCQVTHEGSTVEKTV 209
>pdb|1L7T|L Chain L, Crystal Structure Analysis Of The Anti-Testosterone Fab
Fragment
pdb|1VPO|L Chain L, Crystal Structure Analysis Of The Anti-testosterone Fab In
Complex With Testosterone
Length = 219
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFDGSTVPPKFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1KCR|L Chain L, Crystal Structure Of Antibody Pc283 In Complex With Ps1
Peptide
Length = 213
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 46/208 (22%), Positives = 81/208 (38%), Gaps = 36/208 (17%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S +S+ +S G+ V L C A + +SW ++ P
Sbjct: 2 IVLTQSPKSMSMSVGERVTLSCKASENVGTYVSWYQQKPEQSPKLLIYGASNRYTGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYC---VAENGVGKGTRRNIAVEVEFAPVITVPKPR 234
TG LKI + ED Y+C + G GT+ I + AP +++ P
Sbjct: 62 FTGSGSATDFTLKISSVQAEDLADYHCGQTYSYPTFGGGTKLAIK-RADAAPTVSIFPPS 120
Query: 235 LGQALQYDMDLECHVEAYPPPAI--VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRV 292
Q + C + + P I W ++ + + +++ TA + D+T +
Sbjct: 121 SEQLTAGGASVVCFLNNFYPKDINVKW------KIDGSERQNGVANSWTAQDSADSTYSM 174
Query: 293 ---ITIEKRQY---GSYICRAANKLGTS 314
+T+ K +Y SY C A +K TS
Sbjct: 175 SSTLTLTKDEYERHNSYTCEATHKTSTS 202
>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 = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 30/130 (23%), Positives = 47/130 (36%), Gaps = 19/130 (14%)
Query: 93 SSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSE--- 149
+T L+ + DAG+Y C+V + S L V P S + S+
Sbjct: 62 GNTSELIFNAVHVKDAGFYVCRVNNNFTFEFSQWSQLDVCDIPESFQRSVDGVSESKLQI 121
Query: 150 -----------GQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKED 198
G + L+C A G P P W + + +Y +P + E
Sbjct: 122 CVEPTSQKLMPGSTLVLQCVAVGSPIPHYQWFKNELPLTHETKKLYM-----VPYVDLEH 176
Query: 199 RGTYYCVAEN 208
+GTY+C N
Sbjct: 177 QGTYWCHVYN 186
>pdb|3QG7|L Chain L, Structural Basis For Ligand Recognition And Discrimination
Of A Quorum Quenching Antibody
Length = 216
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVESEDLGIYYCSQTTHVPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3LZF|L Chain L, Crystal Structure Of Fab 2d1 In Complex With The 1918
Influenza Virus Hemagglutinin
pdb|3QHZ|L Chain L, Crystal Structure Of Human Anti-Influenza Fab 2d1
pdb|3QHZ|M Chain M, Crystal Structure Of Human Anti-Influenza Fab 2d1
Length = 217
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 58/138 (42%), Gaps = 8/138 (5%)
Query: 189 LKIPQITKEDRGTYYCVAE----NG---VGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L I + ED YYC A NG G GT+ + + + AP +T+ P +
Sbjct: 74 LAISGLQSEDEADYYCAAWDDSLNGFWVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQAN 133
Query: 242 DMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 KATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSH 193
Query: 301 GSYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 KSYSCQVTHEGSTVEKTV 211
>pdb|1FPT|L Chain L, Three-Dimensional Structure Of The Complex Between The Fab
Fragment Of An Neutralizing Antibody For Type 1
Poliovirus And Its Viral Epitope
Length = 219
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 36/136 (26%), Positives = 57/136 (41%), Gaps = 15/136 (11%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQSTHVPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDT-----TIRVITIEKR 298
+ C + + P I V K D +V Q+ ++ + D T T+ + E
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSEV----QNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYE 192
Query: 299 QYGSYICRAANKLGTS 314
++ SY C A +K TS
Sbjct: 193 RHNSYTCEATHKTSTS 208
>pdb|3QHF|L Chain L, Crystal Structure Of Fab Del2d1, A Deletion Variant Of
Anti-Influenza Antibody 2d1
Length = 217
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 58/138 (42%), Gaps = 8/138 (5%)
Query: 189 LKIPQITKEDRGTYYCVAE----NG---VGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L I + ED YYC A NG G GT+ + + + AP +T+ P +
Sbjct: 74 LAISGLQSEDEADYYCAAWDDSLNGFWVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQAN 133
Query: 242 DMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 KATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSH 193
Query: 301 GSYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 KSYSCQVTHEGSTVEKTV 211
>pdb|2HKF|L Chain L, Crystal Structure Of The Complex Fab M75- Peptide
pdb|2HKH|L Chain L, Crystal Structure Of The Fab M75
Length = 219
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQSTHVPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2C1P|A Chain A, Fab-Fragment Of Enantioselective Antibody Complexed With
Finrozole
pdb|2C1P|L Chain L, Fab-Fragment Of Enantioselective Antibody Complexed With
Finrozole
Length = 218
Score = 37.4 bits (85), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYCV + G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGIYYCVQGSHFPPTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1YED|L Chain L, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.4)
pdb|1YED|A Chain A, Structure Of A Catalytic Antibody Igg2a Fab Fragment
(D2.4)
Length = 219
Score = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 49/214 (22%), Positives = 82/214 (38%), Gaps = 42/214 (19%)
Query: 127 VDLQVRRPPVISDNSTRSLVVSEGQPV--QLECFAGGHPTPRISWRRENNAILP---TGG 181
+ + + +P IS S++SL+ S G+ L G P I + + +P TG
Sbjct: 11 LSVTIGQPASISCKSSQSLLYSNGKTYLNWLLQRPGQSPKRLIYLVSKLESGVPDRFTGS 70
Query: 182 SIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI ++ D G YYCV G GT+ I + + AP +++ P Q
Sbjct: 71 GSGTDFTLKISRVEAADLGVYYCVQGTHFPYTFGGGTKLEI-LRADAAPTVSIFPPSSEQ 129
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 130 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 181
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3IFO|L Chain L, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:10d5) Complex
pdb|3IFO|B Chain B, X-Ray Structure Of Amyloid Beta Peptide:antibody (Abeta1-
7:10d5) Complex
Length = 219
Score = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ + + AP +++ P Q
Sbjct: 78 LKIKKVEAEDLGIYYCFQGSHVPLTFGAGTKLELE-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3MBE|C Chain C, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
pdb|3MBE|G Chain G, Tcr 21.30 In Complex With Mhc Class Ii I-Ag7hel(11-27)
Length = 229
Score = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 32/69 (46%), Gaps = 3/69 (4%)
Query: 171 RENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVGKGTRR--NIAVEVEFAPVI 228
+EN + T S R S L I ED GTY+C AE+G G G + + P I
Sbjct: 54 KENGRLKSTFNSKERYSTLHIKDAQLEDSGTYFCAAEDG-GSGNKLIFGTGTLLSVKPNI 112
Query: 229 TVPKPRLGQ 237
P+P + Q
Sbjct: 113 QNPEPAVYQ 121
>pdb|2PCP|A Chain A, Antibody Fab Complexed With Phencyclidine
pdb|2PCP|C Chain C, Antibody Fab Complexed With Phencyclidine
Length = 216
Score = 37.4 bits (85), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCV----AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC A G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGTHAPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3UO1|L Chain L, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
pdb|3UYR|L Chain L, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
pdb|3V4U|L Chain L, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
pdb|3V52|L Chain L, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
Length = 218
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 34/146 (23%), Positives = 56/146 (38%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q +
Sbjct: 78 LKISRVEAEDLGVYFCSQSTHVPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 136
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 137 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 181
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 182 TLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3HFM|L Chain L, Structure Of An Antibody-Antigen Complex. Crystal
Structure Of The HyHEL-10 Fab-Lysozyme Complex
Length = 214
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 48/213 (22%), Positives = 78/213 (36%), Gaps = 61/213 (28%)
Query: 144 SLVVSEGQPVQLECFAG-------------GHPTPRISWRRENNAI--LPTGGSIYRGS- 187
+L V+ G V L C A H +PR+ + + +I +P S + GS
Sbjct: 10 TLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKYASQSISGIP---SRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED G Y+C N G GT+ I + AP +++ P Q
Sbjct: 67 SGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2C1O|A Chain A, Enaiihis Fab Fragment In The Free Form
pdb|2C1O|L Chain L, Enaiihis Fab Fragment In The Free Form
Length = 254
Score = 37.0 bits (84), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 58/137 (42%), Gaps = 17/137 (12%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYCV + G GT+ + + AP +++ P Q
Sbjct: 115 LKISRVEAEDLGIYYCVQGSHFPPTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 173
Query: 245 LECHVEAYPPPAI--VWIKEDTQQVLTNNQHYSISHFATADEFTDT-----TIRVITIEK 297
+ C + + P I W + +++ Q+ ++ + D T T+ + E
Sbjct: 174 VVCFLNNFYPKDINVKWKIDGSER-----QNGVLNSWTDQDSKDSTYSMSSTLTLTKDEY 228
Query: 298 RQYGSYICRAANKLGTS 314
++ SY C A +K TS
Sbjct: 229 ERHNSYTCEATHKTSTS 245
>pdb|1NLD|L Chain L, Fab Fragment Of A Neutralizing Antibody Directed Against
An Epitope Of Gp41 From Hiv-1
Length = 219
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 49/214 (22%), Positives = 83/214 (38%), Gaps = 42/214 (19%)
Query: 127 VDLQVRRPPVISDNSTRSLVVSEGQPV--QLECFAGGHPTPRISWRRENNAILP---TGG 181
+ + + +P IS S++SL+ S+G+ L G P I + ++ +P TG
Sbjct: 11 LSVTIGQPASISCKSSQSLLDSDGKTYLNWLLQRPGQSPKRLIYLVSKLDSGVPDRFTGS 70
Query: 182 SIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI ++ ED G YYC G GT+ I + AP +++ P Q
Sbjct: 71 GSGTDFTLKISRVEAEDLGVYYCWQGTHFPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQ 129
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 130 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 181
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1CFS|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Unrelated Peptide
pdb|1CFT|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Unrelated D-Peptide
pdb|1CFN|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Related Peptide
pdb|1CFQ|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41
pdb|1BOG|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Homologous Peptide
pdb|1HH6|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With A
Peptide
pdb|1HH9|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With A
Peptide
pdb|1HI6|B Chain B, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With A
Peptide
Length = 213
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 31/68 (45%)
Query: 187 SILKIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
+ +++ +T ED YYC ++ G+GT ++ AP + P G + L
Sbjct: 79 AFMELSSLTSEDSAVYYCTRKDYWGQGTLVTVSAAKTTAPSVYPLVPVCGGTTGSSVTLG 138
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 139 CLVKGYFP 146
>pdb|2YKL|L Chain L, Structure Of Human Anti-Nicotine Fab Fragment In Complex
With
Nicotine-11-Yl-Methyl-(4-Ethylamino-4-Oxo)-Butanoate
Length = 216
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 58/137 (42%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC A + G GT+ +I + + AP +T+ P +
Sbjct: 74 LAISGLRSEDEADYYCAAWDDSLSAWVFGGGTQLDILGQPKAAPSVTLFPPSSEELQANK 133
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|3D9A|L Chain L, High Resolution Crystal Structure Structure Of Hyhel10 Fab
Complexed To Hen Egg Lysozyme
Length = 213
Score = 37.0 bits (84), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 48/213 (22%), Positives = 78/213 (36%), Gaps = 61/213 (28%)
Query: 144 SLVVSEGQPVQLECFAG-------------GHPTPRISWRRENNAI--LPTGGSIYRGS- 187
+L V+ G V L C A H +PR+ + + +I +P S + GS
Sbjct: 10 TLSVTPGNSVSLSCRASQSIGNNLHWYQQKSHESPRLLIKYASQSISGIP---SRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED G Y+C N G GT+ I + AP +++ P Q
Sbjct: 67 SGTDFTLSINSVETEDFGMYFCQQSNSWPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3LEY|H Chain H, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 6a7 In Complex With Hiv-1 Gp41
Length = 221
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 31/71 (43%), Gaps = 4/71 (5%)
Query: 188 ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L++ +T ED TYYC N + G+GT ++ AP + P G +
Sbjct: 80 FLQLNSVTTEDTATYYCAFGNYLPAYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSV 139
Query: 244 DLECHVEAYPP 254
L C V+ Y P
Sbjct: 140 TLGCLVKGYFP 150
>pdb|3D69|L Chain L, Crystal Structure Of The Fab Fragment Of An Anti-Factor Ix
Antibody 10c12
pdb|3D69|A Chain A, Crystal Structure Of The Fab Fragment Of An Anti-Factor Ix
Antibody 10c12
Length = 216
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 57/137 (41%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVA------ENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC A E G GT+ + + + AP +T+ P +
Sbjct: 74 LDISGLQSEDEADYYCAAWDDSLSEFLFGTGTKLTVLGQPKAAPSVTLFPPSSEELQANK 133
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHK 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|1NL0|L Chain L, Crystal Structure Of Human Factor Ix Gla Domain In Complex
Of An Inhibitory Antibody, 10c12
Length = 213
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 57/137 (41%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVA------ENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC A E G GT+ + + + AP +T+ P +
Sbjct: 74 LDISGLQSEDEADYYCAAWDDSLSEFLFGTGTKLTVLGQPKAAPSVTLFPPSSEELQANK 133
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHK 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|3G5Z|A Chain A, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 213
Score = 37.0 bits (84), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 48/214 (22%), Positives = 73/214 (34%), Gaps = 57/214 (26%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILK---------- 190
S S+ VS G V + C A I W ++ G IY G+ L
Sbjct: 7 SPSSMSVSLGDTVSITCHASQDIISNIGWLQQKPG-KSFAGLIYHGTNLSDGVPSRFSGS 65
Query: 191 ---------IPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
I + ED YYCV G GT+ IA + AP +++ P Q
Sbjct: 66 GSGADYSLTISSLESEDFADYYCVQYAQFPWTFGGGTKLEIA-RADAAPTVSIFPPSSEQ 124
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 125 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 176
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 -------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2G60|L Chain L, Structure Of Anti-Flag M2 Fab Domain
Length = 216
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCV----AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC A G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGAHAPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1RJL|A Chain A, Structure Of The Complex Between Ospb-Ct And Bactericidal
Fab-H6831
Length = 212
Score = 37.0 bits (84), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 46/226 (20%), Positives = 78/226 (34%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------- 178
D+Q+ + P SL S G + + C A + ++W ++ +P
Sbjct: 1 DIQMNQSP-------SSLSASLGDTITITCHASQNINVWLNWFQQKPGSIPKLLIYMASN 53
Query: 179 ---------TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFA 225
+G G L I + ED TYYC G GT+ I + A
Sbjct: 54 LHTGVPSRFSGSGSGTGFTLTISSLQPEDIATYYCQQGQSFPLTFGGGTKLEIK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3I02|A Chain A, Crystal Structure Of S54-10 Antibody In Complex With
Antigen Kdo(2.4)kdo(2.4)kdo
pdb|3I02|C Chain C, Crystal Structure Of S54-10 Antibody In Complex With
Antigen Kdo(2.4)kdo(2.4)kdo
Length = 219
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 47/223 (21%), Positives = 76/223 (34%), Gaps = 60/223 (26%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 IVMTQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIFWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC + G+GT+ I + AP +
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNLRTFGRGTKLEIK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNN 271
++ P Q + C + + P I W +D++ +
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----D 175
Query: 272 QHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 STYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3GNM|L Chain L, The Crystal Structure Of The Jaa-f11 Monoclonal Antibody
Fab Fragment
Length = 219
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ +D G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEADDLGVYYCFQGSHVPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNGWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3IF1|A Chain A, Crystal Structure Of 237mab In Complex With A Galnac
pdb|3IF1|C Chain C, Crystal Structure Of 237mab In Complex With A Galnac
Length = 215
Score = 37.0 bits (84), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 34/146 (23%), Positives = 55/146 (37%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
LKI + ED G Y+C V G GT+ I + AP +++ P Q +
Sbjct: 77 LKISSVEAEDLGVYFCSQSTHVPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 135
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 136 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 180
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 181 TLTLTKDEYERHNSYTCEATHKTSTS 206
>pdb|3IET|A Chain A, Crystal Structure Of 237mab With Antigen
pdb|3IET|C Chain C, Crystal Structure Of 237mab With Antigen
Length = 217
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 34/146 (23%), Positives = 55/146 (37%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
LKI + ED G Y+C V G GT+ I + AP +++ P Q +
Sbjct: 78 LKISSVEAEDLGVYFCSQSTHVPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 136
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 137 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 181
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 182 TLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|1A3L|L Chain L, Catalysis Of A Disfavored Reaction: An Antibody Exo Diels-
Alderase-Tsa-Inhibitor Complex At 1.95 A Resolution
pdb|1RUQ|L Chain L, Crystal Structure (H) Of U.V.-Irradiated Diels-Alder
Antibody 13g5 Fab At Ph 8.0 With A Data Set Collected In
House.
pdb|1RUR|L Chain L, Crystal Structure (i) Of Native Diels-alder Antibody 13g5
Fab At Ph 8.0 With A Data Set Collected At Ssrl Beamline
9- 1
Length = 217
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 36/148 (24%), Positives = 58/148 (39%), Gaps = 39/148 (26%)
Query: 189 LKIPQITKEDRGTYYCVAEN-----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L+I ++ ED G YYC A+N G GT+ I + AP +++ P Q
Sbjct: 78 LRISRVEAEDVGVYYC-AQNLELPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGA 135
Query: 244 DLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFT 286
+ C + + P I W +DT+ + YS+S
Sbjct: 136 SVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDTK-----DSTYSMS--------- 181
Query: 287 DTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1RMF|L Chain L, Structures Of A Monoclonal Anti-Icam-1 Antibody R6.5
Fragment At 2.8 Angstroms Resolution
Length = 219
Score = 36.6 bits (83), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQSTHVPLTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2OJZ|L Chain L, Anti-Dna Antibody Ed10
pdb|2OJZ|M Chain M, Anti-Dna Antibody Ed10
pdb|2OK0|L Chain L, Fab Ed10-Dna Complex
Length = 219
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + + G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHIPLTFGAGTKLEVK-RSDAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2YK1|L Chain L, Structure Of Human Anti-Nicotine Fab Fragment In Complex
With Nicotine
Length = 216
Score = 36.6 bits (83), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 58/137 (42%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC A + G GT+ +I + + AP +T+ P +
Sbjct: 74 LAISGLRSEDEADYYCAAWDDSLSAWVFGGGTQLDILGQPKAAPSVTLFPPSSEELQAPK 133
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|1T66|L Chain L, The Structure Of Fab With Intermediate Affinity For
Fluorescein.
pdb|1T66|C Chain C, The Structure Of Fab With Intermediate Affinity For
Fluorescein
Length = 219
Score = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 30/132 (22%), Positives = 55/132 (41%), Gaps = 7/132 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQSTHVPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI--VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGS 302
+ C + + P I W + +++ ++ + + +T+ + E ++ S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQNSKDSTYSMSSTLTLTKDEYERHNS 196
Query: 303 YICRAANKLGTS 314
Y C A +K TS
Sbjct: 197 YTCEATHKTSTS 208
>pdb|1M71|A Chain A, Crystal Structure Of A Monoclonal Fab Specific For
Shigella Flexneri Y Lipopolysaccharide
pdb|1M7D|A Chain A, Crystal Structure Of A Monoclonal Fab Specific For
Shigella Flexneri Y Lipopolysaccharide Complexed With A
Trisaccharide
pdb|1M7I|A Chain A, Crystal Structure Of A Monoclonal Fab Specific For
Shigella Flexneri Y Lipopolysaccharide Complexed With A
Pentasaccharide
pdb|1PZ5|A Chain A, Structural Basis Of Peptide-Carbohydrate Mimicry In An
Antibody Combining Site
Length = 215
Score = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 34/146 (23%), Positives = 56/146 (38%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q +
Sbjct: 78 LKISRVEAEDLGVYFCSQTTHVPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 136
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 137 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 181
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 182 TLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3HZK|A Chain A, Crystal Structure Of S73-2 Antibody In Complex With
Antigen Kdo(2.4)kdo
pdb|3HZM|A Chain A, Crystal Structure Of S73-2 Antibody In Complex With
Antigen Kdo
pdb|3HZV|A Chain A, Crystal Structure Of S73-2 Antibody In Complex With
Antigen Kdo(2.8) Kdo(2.4)kdo
Length = 219
Score = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 45/213 (21%), Positives = 78/213 (36%), Gaps = 40/213 (18%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 IVMTQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC + G GT+ + + AP +
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNLRTFGGGTKLELK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAIV--WIKEDTQQVLTNNQHYSISHFATADEFT 286
++ P Q + C + + P +I W + +++ Q+ ++ + D+
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKSIAVKWKIDGSER-----QNGVLNSWTDQDKKD 175
Query: 287 DT-----TIRVITIEKRQYGSYICRAANKLGTS 314
T T+ + E ++ SY C A +K TS
Sbjct: 176 STYSMSSTLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|4FAB|L Chain L, Three-Dimensional Structure Of A Fluorescein-Fab Complex
Crystallized In 2-Methyl-2,4-Pentanediol
Length = 219
Score = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQSTHVPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1IGT|A Chain A, Structure Of Immunoglobulin
pdb|1IGT|C Chain C, Structure Of Immunoglobulin
Length = 214
Score = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 45/218 (20%), Positives = 75/218 (34%), Gaps = 55/218 (25%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S SL S G + + C A + +SW ++ +P
Sbjct: 2 IVLTQSPSSLSASLGDTITITCHASQNINVWLSWYQQKPGNIPKLLIYKASNLHTGVPSR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
+G G L I + ED TYYC G GT+ I + AP +++ P
Sbjct: 62 FSGSGSGTGFTLTISSLQPEDIATYYCQQGQSYPLTFGGGTKLEIK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 175
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 176 S----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1FLR|L Chain L, 4-4-20 Fab Fragment
Length = 219
Score = 36.6 bits (83), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQSTHVPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1IL1|B Chain B, Crystal Structure Of G3-519, An Anti-Hiv Monoclonal
Antibody
Length = 219
Score = 36.6 bits (83), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 48/216 (22%), Positives = 77/216 (35%), Gaps = 42/216 (19%)
Query: 125 AEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFA---GGHPTPRISWRRENNAILP--- 178
+ + + V +S S++SL+ S Q L + G P I W + +P
Sbjct: 9 SSLAVSVGEKVTMSCKSSQSLLYSRNQMNYLSWYQQKPGQSPKLLIYWASTRESGVPDRF 68
Query: 179 TGGSIYRGSILKIPQITKEDRGTYYC---VAENGVGKGTRRNIAVEVEFAPVITVPKPRL 235
TG L I + ED YYC G GTR I + AP +++ P
Sbjct: 69 TGSGSGTDFTLTISSVKAEDLAVYYCQQYYHYRTFGGGTRLEIR-RADAAPTVSIFPPSS 127
Query: 236 GQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISH 278
Q + C + + P I W +D++ + YS+S
Sbjct: 128 EQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS- 181
Query: 279 FATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 ---------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2GJZ|L Chain L, Structure Of Catalytic Elimination Antibody 13g5 From A
Crystal In Space Group P2(1)
pdb|2GJZ|A Chain A, Structure Of Catalytic Elimination Antibody 13g5 From A
Crystal In Space Group P2(1)
pdb|2GK0|L Chain L, Structure Of Catalytic Elimination Antibody 13g5 From A
Twinned Crystal In Space Group C2
pdb|2GK0|A Chain A, Structure Of Catalytic Elimination Antibody 13g5 From A
Twinned Crystal In Space Group C2
Length = 217
Score = 36.6 bits (83), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + + G GT+ I + AP +++ P Q
Sbjct: 78 LKINRVEAEDLGVYYCFQGSHLPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3G04|A Chain A, Crystal Structure Of The Tsh Receptor In Complex With A
Thyroid- Stimulating Autoantibody
Length = 216
Score = 36.6 bits (83), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 32/137 (23%), Positives = 57/137 (41%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC + + G GTR + + + AP +T+ P +
Sbjct: 74 LAIRGLQSEDEADYYCTSWDDSLDSQLFGGGTRLTVLGQPKAAPSVTLFPPSSEELQANK 133
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHK 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|2Z4Q|A Chain A, Crystal Structure Of A Murine Antibody Fab 528
Length = 219
Score = 36.6 bits (83), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + + G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGIYYCFQGSHIPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPRDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1PSK|L Chain L, The Crystal Structure Of An Fab Fragment That Binds To The
Melanoma-Associated Gd2 Ganglioside
Length = 213
Score = 36.6 bits (83), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED TYYC +G G GT+ I + AP +++ P Q
Sbjct: 72 LTISRMGAEDAATYYCQQRSGYPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|2W60|B Chain B, Anti Citrullinated Collagen Type 2 Antibody Acc4
pdb|2W65|B Chain B, Anti Citrullinated Collagen Type 2 Antibody Acc4 In
Complex With A Citrullinated Peptide
pdb|2W65|D Chain D, Anti Citrullinated Collagen Type 2 Antibody Acc4 In
Complex With A Citrullinated Peptide
Length = 217
Score = 36.6 bits (83), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 48/214 (22%), Positives = 83/214 (38%), Gaps = 42/214 (19%)
Query: 127 VDLQVRRPPVISDNSTRSLVVSEGQPV--QLECFAGGHPTPRISWRRENNAILP---TGG 181
+ + + +P IS S++SL+ S+G+ L G P I + ++ +P TG
Sbjct: 11 LSVTIGQPASISCKSSQSLLDSDGKTYLNWLLQRPGQSPKRLIYLVSKLDSGVPDRFTGS 70
Query: 182 SIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI ++ ED G YYC G GT+ + + AP +++ P Q
Sbjct: 71 GSGTDFTLKISRVEAEDLGVYYCWQGTHFPLTFGAGTKLELK-RADAAPTVSIFPPSSEQ 129
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 130 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 181
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2I9L|A Chain A, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
pdb|2I9L|C Chain C, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
pdb|2I9L|E Chain E, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
pdb|2I9L|G Chain G, Structure Of Fab 7d11 From A Neutralizing Antibody Against
The Poxvirus L1 Protein
Length = 219
Score = 36.6 bits (83), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 43/208 (20%), Positives = 73/208 (35%), Gaps = 30/208 (14%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 MVMSQSPSSLAVSAGEKVSMSCKSSQTLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC + G GT+ I + AP +
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNLWTFGGGTKLEIK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI--VWIKEDTQQVLTNNQHYSISHFATADEFT 286
++ P Q + C + + P I W + +++ ++ +
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERAAGVLNSWTDQDSKDSTYSM 180
Query: 287 DTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 SSTLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|4GXU|N Chain N, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|P Chain P, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|R Chain R, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|T Chain T, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|V Chain V, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXU|X Chain X, Crystal Structure Of Antibody 1f1 Bound To The 1918
Influenza Hemagglutinin
pdb|4GXV|L Chain L, Crystal Structure Of Anti-Influenza Virus Antibody 1f1
pdb|4GXV|M Chain M, Crystal Structure Of Anti-Influenza Virus Antibody 1f1
Length = 217
Score = 36.6 bits (83), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 33/142 (23%), Positives = 58/142 (40%), Gaps = 8/142 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG-------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L I + ED YYC A + G GT+ + + + AP +T+ P +
Sbjct: 74 LAISGLQSEDEAVYYCAAWDDSLSAHVVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQAN 133
Query: 242 DMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 KATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSH 193
Query: 301 GSYICRAANKLGTSEKTVELFE 322
SY C+ ++ T EKTV E
Sbjct: 194 RSYSCQVTHEGSTVEKTVAPTE 215
>pdb|1DBA|L Chain L, Three-Dimensional Structure Of An Anti-Steroid Fab' And
Progesterone-Fab' Complex
pdb|1DBB|L Chain L, Three-Dimensional Structure Of An Anti-Steroid Fab' And
Progesterone-Fab' Complex
pdb|1DBJ|L Chain L, Molecular Basis Of Cross-Reactivity And The Limits Of
Antibody-Antigen Complementarity
pdb|1DBK|L Chain L, Molecular Basis Of Cross-Reactivity And The Limits Of
Antibody-Antigen Complementarity
pdb|1DBM|L Chain L, Molecular Basis Of Cross-Reactivity And The Limits Of
Antibody-Antigen Complementarity
pdb|2DBL|L Chain L, Molecular Basis Of Cross-Reactivity And The Limits Of
Antibody-Antigen Complementarity
Length = 216
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGIYFCSQSSHVPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1LO0|X Chain X, Catalytic Retro-Diels-Alderase Transition State Analogue
Complex
pdb|1LO0|L Chain L, Catalytic Retro-Diels-Alderase Transition State Analogue
Complex
pdb|1LO2|X Chain X, Retro-Diels-Alderase Catalytic Antibody
pdb|1LO2|L Chain L, Retro-Diels-Alderase Catalytic Antibody
pdb|1LO3|X Chain X, Retro-Diels-Alderase Catalytic Antibody: Product Analogue
pdb|1LO3|L Chain L, Retro-Diels-Alderase Catalytic Antibody: Product Analogue
Length = 219
Score = 36.6 bits (83), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVETEDLGIYYCFQGSHFPLAFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3TWC|L Chain L, Crystal Structure Of Broad And Potent Hiv-1 Neutralizing
Antibody Pgt127 In Complex With Man9
Length = 211
Score = 36.2 bits (82), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 31/136 (22%), Positives = 58/136 (42%), Gaps = 6/136 (4%)
Query: 189 LKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L + + +D G YYC + G G GT+ + + + AP +T+ P +
Sbjct: 70 LTVSGLQADDEGVYYCSSLVGNWDVIFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKA 129
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGS 302
L C + + P A+ V K D+ V + + S + + + + + + + S
Sbjct: 130 TLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRS 189
Query: 303 YICRAANKLGTSEKTV 318
Y C+ ++ T EKTV
Sbjct: 190 YSCQVTHEGSTVEKTV 205
>pdb|1KFA|L Chain L, Crystal Structure Of Fab Fragment Complexed With
Gibberellin A4
pdb|1KFA|M Chain M, Crystal Structure Of Fab Fragment Complexed With
Gibberellin A4
Length = 217
Score = 36.2 bits (82), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I + P ++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQSTHVPFTFGSGTKLEIK-RADAGPTVSSFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C AA+K TS
Sbjct: 182 STLTLTKDEYERHASYTCEAAHKTSTS 208
>pdb|3S5L|G Chain G, Crystal Structure Of Cd4 Mutant Bound To Hla-Dr1
pdb|3S5L|H Chain H, Crystal Structure Of Cd4 Mutant Bound To Hla-Dr1
Length = 191
Score = 36.2 bits (82), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 41/171 (23%), Positives = 69/171 (40%), Gaps = 25/171 (14%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTA-----S 93
G TVEL C+ + W ++ K+ + GS L S+ R D+
Sbjct: 13 GDTVELTCTASQKKSIQFHWKNSNQIKILG----NYGSFLWKGPSKLNDRADSRRRLWRQ 68
Query: 94 STYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
+ L++K+++ D+ Y C+V EV L V ++ NS L+ + +
Sbjct: 69 GNFPLIIKNLKIEDSDTYICEV-----EDQKEEVQLLVFG---LTANSDTHLLQGQSLTL 120
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC 204
LE G P+ + P G +I G L + Q+ +D GT+ C
Sbjct: 121 TLESPPGSSPSVQCR--------SPRGKNIQGGKTLSVSQLELQDSGTWTC 163
>pdb|1P2C|A Chain A, Crystal Structure Analysis Of An Anti-Lysozyme Antibody
pdb|1P2C|D Chain D, Crystal Structure Analysis Of An Anti-Lysozyme Antibody
pdb|2Q76|A Chain A, Mouse Anti-Hen Egg White Lysozyme Antibody F10.6.6 Fab
Fragment
pdb|2Q76|C Chain C, Mouse Anti-Hen Egg White Lysozyme Antibody F10.6.6 Fab
Fragment
Length = 212
Score = 36.2 bits (82), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 47/213 (22%), Positives = 78/213 (36%), Gaps = 61/213 (28%)
Query: 144 SLVVSEGQPVQLECFAG-------------GHPTPR--ISWRRENNAILPTGGSIYRGS- 187
+L V+ G V L C A H +PR I + ++ + +P S + GS
Sbjct: 10 TLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYTSQSMSGIP---SRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED G Y+C G GT+ +I + AP +++ P Q
Sbjct: 67 SGTDFTLSINSVETEDFGVYFCQQSGSWPRTFGGGTKLDIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2UYL|A Chain A, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
pdb|2UYL|M Chain M, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
pdb|2UYL|V Chain V, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
pdb|2UYL|X Chain X, Crystal Structure Of A Monoclonal Antibody Directed
Against An Antigenic Determinant Common To Ogawa And
Inaba Serotypes Of Vibrio Cholerae O1
Length = 219
Score = 36.2 bits (82), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+I ++ ED G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LEISRVEAEDLGVYYCFQGSHVPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1GL4|B Chain B, Nidogen-1 G2PERLECAN IG3 COMPLEX
Length = 98
Score = 36.2 bits (82), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 33/77 (42%), Gaps = 2/77 (2%)
Query: 133 RPPVISDNSTRSLVVSEGQPVQLECFAGGH-PTPRISWRRENNAILPTGGSIYRGSILKI 191
+P +++ RS V G V C A P + W R +N LP+ + G IL I
Sbjct: 8 KPIMVTVEEQRSQSVRPGADVTFICTAKSKSPAYTLVWTRLHNGKLPSRAMDFNG-ILTI 66
Query: 192 PQITKEDRGTYYCVAEN 208
+ D GTY C N
Sbjct: 67 RNVQPSDAGTYVCTGSN 83
>pdb|3O6K|L Chain L, Crystal Structure Of Anti-Tat Hiv Fab'11h6h1
pdb|3O6L|L Chain L, Anti-Tat Hiv 11h6h1 Fab' Complexed With A 15-Mer Tat
Peptide
pdb|3O6M|L Chain L, Anti-Tat Hiv 11h6h1 Fab' Complexed With A 9-Mer Tat
Peptide
Length = 219
Score = 36.2 bits (82), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 49/214 (22%), Positives = 82/214 (38%), Gaps = 42/214 (19%)
Query: 127 VDLQVRRPPVISDNSTRSLVVSEGQPV--QLECFAGGHPTPRISWRRENNAILP---TGG 181
+ + + +P IS S +SL+ S+G+ L G P I + ++ +P TG
Sbjct: 11 LSVTIGQPASISCKSGQSLLYSDGKTYLNWLLQRPGQSPKRLIYLVSKLDSGVPDRFTGS 70
Query: 182 SIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI ++ ED G YYC G GT+ I + AP +++ P Q
Sbjct: 71 GSGTDFTLKISRVEAEDLGIYYCWQGTHFPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQ 129
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 130 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 181
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1OPG|L Chain L, Opg2 Fab Fragment
pdb|1BM3|L Chain L, Immunoglobulin Opg2 Fab-Peptide Complex
Length = 214
Score = 36.2 bits (82), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 47/213 (22%), Positives = 78/213 (36%), Gaps = 61/213 (28%)
Query: 144 SLVVSEGQPVQLECFAG-------------GHPTPRISWRRENNAI--LPTGGSIYRGS- 187
+L V+ G V L C A H +PR+ + + +I +P S + GS
Sbjct: 10 TLSVTPGDSVSLSCRASQSISNNLHWYQQKSHESPRLLIKYASQSISGIP---SRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED G Y+C N G G++ I + AP +++ P Q
Sbjct: 67 SGTDFTLSINSVETEDFGMYFCQQSNSWPLTFGGGSKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3BKC|L Chain L, Crystal Structure Of Anti-Amyloid Beta Fab Wo2 (P21,
Formb)
pdb|3BKJ|L Chain L, Crystal Structure Of Fab Wo2 Bound To The N Terminal
Domain Of Amyloid Beta Peptide (1-16)
pdb|3BKM|L Chain L, Structure Of Anti-Amyloid-Beta Fab Wo2 (Form A, P212121)
Length = 252
Score = 36.2 bits (82), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+I ++ ED G YYC + V G GT+ + + AP +++ P Q
Sbjct: 111 LRISRVEAEDLGVYYCFQASLVPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 169
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 170 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 214
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 215 STLTLTKDEYERHNSYTCEATHKTSTS 241
>pdb|3O0R|L Chain L, Crystal Structure Of Nitric Oxide Reductase From
Pseudomonas Aeruginosa In Complex With Antibody Fragment
Length = 213
Score = 36.2 bits (82), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 45/209 (21%), Positives = 74/209 (35%), Gaps = 55/209 (26%)
Query: 145 LVVSEGQPVQLECFAGGHPTPRISWRREN----NAILPTGGSI--------YRGS----- 187
L S G+ + + C A ++W +E N +L GS + GS
Sbjct: 11 LAASPGETITINCRASKSIRKYLAWYQEKPGKTNKLLIYSGSTLQFGIPSRFSGSGSGTE 70
Query: 188 -ILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC N G GT+ + + AP +++ P Q
Sbjct: 71 FTLTISSLEPEDFAMYYCQQHNEYPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGG 129
Query: 243 MDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEF 285
+ C + + P I W +D++ + YS+S
Sbjct: 130 ASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS-------- 176
Query: 286 TDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 --STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1V7M|L Chain L, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7M|M Chain M, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|L Chain L, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|M Chain M, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|N Chain N, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|1V7N|O Chain O, Human Thrombopoietin Functional Domain Complexed To
Neutralizing Antibody Tn1 Fab
pdb|2ZKH|L Chain L, Human Thrombopoietin Neutralizing Antibody Tn1 Fab
Length = 213
Score = 36.2 bits (82), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 37/158 (23%), Positives = 60/158 (37%), Gaps = 43/158 (27%)
Query: 184 YRGS------ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
+RGS L I ++ ED TYYC +G G GT+ I + AP +++ P
Sbjct: 61 FRGSGSGTSYSLTISRMEAEDAATYYCQQRSGYPRTFGGGTKLEIK-RADAAPTVSIFPP 119
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 120 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 174
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 175 S----------STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1ZVO|A Chain A, Semi-Extended Solution Structure Of Human Myeloma
Immunoglobulin D Determined By Constrained X-Ray
Scattering
pdb|1ZVO|B Chain B, Semi-Extended Solution Structure Of Human Myeloma
Immunoglobulin D Determined By Constrained X-Ray
Scattering
Length = 214
Score = 36.2 bits (82), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 32/135 (23%), Positives = 56/135 (41%), Gaps = 5/135 (3%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED YYC A + G GT + + + AP +T+ P +
Sbjct: 74 LAISGLRSEDEADYYCAAWDDSLWVFGGGTTLTVLSQPKAAPSVTLFPPSSEELQANKAT 133
Query: 245 LECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSY 303
L C + + P A+ V K D+ V + + S + + + + + + + SY
Sbjct: 134 LVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSY 193
Query: 304 ICRAANKLGTSEKTV 318
C+ ++ T EKTV
Sbjct: 194 SCQVTHEGSTVEKTV 208
>pdb|3MUH|L Chain L, Crystal Structure Of Pg9 Light Chain
Length = 216
Score = 36.2 bits (82), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 34/137 (24%), Positives = 62/137 (45%), Gaps = 8/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENGV-----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L I + ED G YYC + G GT+ + + + AP +T+ P +
Sbjct: 75 LTISGLQAEDEGDYYCKSLTSTRRRVFGTGTKLTVLGQPKAAPSVTLFPPSSEELQANKA 134
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQYG 301
L C + + P A+ V K D+ V + + S + +++ ++ +T E+ + +
Sbjct: 135 TLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSK-QSNNKYAASSYLSLTPEQWKSHK 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|2D03|L Chain L, Crystal Structure Of The G91s Mutant Of The Nna7 Fab
Length = 217
Score = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED G YYC + V G GT+ + + AP +++ P Q
Sbjct: 78 LTISRVEAEDLGVYYCFQSSHVPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1JVK|A Chain A, Three-Dimensional Structure Of An Immunoglobulin Light
Chain Dimer Acting As A Lethal Amyloid Precursor
pdb|1JVK|B Chain B, Three-Dimensional Structure Of An Immunoglobulin Light
Chain Dimer Acting As A Lethal Amyloid Precursor
pdb|1LGV|A Chain A, Structure Of A Human Bence-Jones Dimer Crystallized In
U.S. Space Shuttle Mission Sts-95: 100k
pdb|1LGV|B Chain B, Structure Of A Human Bence-Jones Dimer Crystallized In
U.S. Space Shuttle Mission Sts-95: 100k
pdb|1LHZ|A Chain A, Structure Of A Human Bence-Jones Dimer Crystallized In
U.S. Space Shuttle Mission Sts-95: 293k
pdb|1LHZ|B Chain B, Structure Of A Human Bence-Jones Dimer Crystallized In
U.S. Space Shuttle Mission Sts-95: 293k
Length = 216
Score = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 62/138 (44%), Gaps = 9/138 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC + +G G GT+ + + + AP +T+ P +
Sbjct: 75 LTISGLQAEDEADYYCSSYDGSSTSVVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANK 134
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQY 300
L C + + P A+ V K D+ V + S + +++ ++ +T E+ + +
Sbjct: 135 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTKPSK-QSNNKYAASSYLSLTPEQWKSH 193
Query: 301 GSYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 RSYSCQVTHEGSTVEKTV 211
>pdb|3FO9|L Chain L, Crystal Structure Of Aldolase Antibody 33f12 Fab' In
Complex With Hapten 1,3-Diketone
pdb|3FO9|A Chain A, Crystal Structure Of Aldolase Antibody 33f12 Fab' In
Complex With Hapten 1,3-Diketone
Length = 219
Score = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQGTHVPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3U2S|L Chain L, Crystal Structure Of Pg9 Fab In Complex With V1v2 Region
From Hiv-1 Strain Zm109
pdb|3U2S|B Chain B, Crystal Structure Of Pg9 Fab In Complex With V1v2 Region
From Hiv-1 Strain Zm109
pdb|3U36|L Chain L, Crystal Structure Of Pg9 Fab
pdb|3U36|B Chain B, Crystal Structure Of Pg9 Fab
pdb|3U36|D Chain D, Crystal Structure Of Pg9 Fab
pdb|3U36|F Chain F, Crystal Structure Of Pg9 Fab
pdb|3U4E|L Chain L, Crystal Structure Of Pg9 Fab In Complex With V1v2 Region
From Hiv-1 Strain Cap45
pdb|3U4E|B Chain B, Crystal Structure Of Pg9 Fab In Complex With V1v2 Region
From Hiv-1 Strain Cap45
Length = 216
Score = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 34/137 (24%), Positives = 62/137 (45%), Gaps = 8/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENGV-----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L I + ED G YYC + G GT+ + + + AP +T+ P +
Sbjct: 75 LTISGLQAEDEGDYYCKSLTSTRRRVFGTGTKLTVLGQPKAAPSVTLFPPSSEELQANKA 134
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQYG 301
L C + + P A+ V K D+ V + + S + +++ ++ +T E+ + +
Sbjct: 135 TLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSK-QSNNKYAASSYLSLTPEQWKSHK 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|1CL7|L Chain L, Anti Hiv1 Protease Fab
Length = 216
Score = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGIYYCFQGSHFPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3V4P|L Chain L, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1
pdb|3V4P|N Chain N, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1
pdb|3V4V|L Chain L, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1 And Ro0505376
pdb|3V4V|N Chain N, Crystal Structure Of A4b7 Headpiece Complexed With Fab
Act-1 And Ro0505376
Length = 217
Score = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI I ED G YYC+ G GT+ I + AP +++ P Q
Sbjct: 78 LKISTIKPEDLGMYYCLQGTHQPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWNIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1QKZ|L Chain L, Fab Fragment (Mn14c11.6) In Complex With A Peptide Antigen
Derived From Neisseria Meningitidis P1.7 Serosubtype
Antigen And Domain Ii From Streptococcal Protein G
Length = 217
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 35/136 (25%), Positives = 57/136 (41%), Gaps = 16/136 (11%)
Query: 189 LKIPQITKEDRGTYYCVAENG---VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
LKI ++ ED G Y+C G GT+ I + AP +++ P Q +
Sbjct: 78 LKISRVEAEDLGVYFCSQSTHFPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 136
Query: 246 ECHVEAYPPPAI--VWI---KEDTQQVLTN--NQHYSISHFATADEFTDTTIRVITIEKR 298
C + + P I W KE VL + +Q S ++ + +T+ + E
Sbjct: 137 VCFLNNFYPKDINVKWKIDGKERQNGVLNSWTDQDSKDSTYSMS-----STLTLTKDEYE 191
Query: 299 QYGSYICRAANKLGTS 314
++ SY C A +K TS
Sbjct: 192 RHNSYTCEATHKTSTS 207
>pdb|1SBS|L Chain L, Crystal Structure Of An Anti-Hcg Fab
Length = 220
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 45/201 (22%), Positives = 72/201 (35%), Gaps = 43/201 (21%)
Query: 141 STRSLVVSEGQPVQLECFA---GGHPTPRISWRRENNAILP---TGGSIYRGSILKIPQI 194
S++SL+ S Q L + G P I W + +P TG L I +
Sbjct: 25 SSQSLLYSSNQMNYLAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSV 84
Query: 195 TKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVE 250
ED YYC + G GT+ I + AP +++ P Q + C +
Sbjct: 85 EAEDLAVYYCQQYHSYPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASVVCFLN 143
Query: 251 AYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVI 293
+ P I W +D++ + YS+S +T+ +
Sbjct: 144 NFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------STLTLT 188
Query: 294 TIEKRQYGSYICRAANKLGTS 314
E ++ SY C A +K TS
Sbjct: 189 KDEYERHNSYTCEATHKTSTS 209
>pdb|3BAE|L Chain L, Crystal Structure Of Fab Wo2 Bound To The N Terminal
Domain Of Amyloid Beta Peptide (1-28)
Length = 218
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+I ++ ED G YYC + V G GT+ + + AP +++ P Q
Sbjct: 78 LRISRVEAEDLGVYYCFQASLVPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1AXT|L Chain L, Immune Versus Natural Selection: Antibody Aldolases With
The Rates Of Natural Enzymes
Length = 216
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQGTHVPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|8FAB|A Chain A, Crystal Structure Of The Fab Fragment From The Human
Myeloma Immunoglobulin Igg Hil At 1.8 Angstroms
Resolution
pdb|8FAB|C Chain C, Crystal Structure Of The Fab Fragment From The Human
Myeloma Immunoglobulin Igg Hil At 1.8 Angstroms
Resolution
Length = 212
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 44/199 (22%), Positives = 77/199 (38%), Gaps = 25/199 (12%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGS--ILKIPQ-------- 193
S+ VS GQ ++ C A P W ++ P IY+ + IPQ
Sbjct: 9 SVSVSPGQTARITCSANALPNQYAYWYQQKPGRAPVM-VIYKDTQRPSGIPQRFSSSTSG 67
Query: 194 ---------ITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+ ED YYC A + G GT+ + + + AP +T+ P +
Sbjct: 68 TTVTLTISGVQAEDEADYYCQAWDNSASIFGGGTKLTVLGQPKAAPSVTLFPPSSEELQA 127
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C + + P A+ V K D+ + + + S + + + + + +
Sbjct: 128 NKATLVCLISDFYPGAVTVAWKADSSPIKAGVETTTPSKQSNNKYAASSYLSLTPEQWKS 187
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 188 HRSYSCQVTHEGSTVEKTV 206
>pdb|1CBV|L Chain L, An Autoantibody To Single-Stranded Dna: Comparison Of The
Three-Dimensional Structures Of The Unliganded Fab And A
Deoxynucleotide-Fab Complex
pdb|1NBV|L Chain L, An Autoantibody To Single-Stranded Dna: Comparison Of The
Three-Dimensional Structures Of The Unliganded Fab And A
Deoxynucleotide-Fab Complex
Length = 219
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQSTHVPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1JNL|L Chain L, Crystal Structure Of Fab-Estradiol Complexes
pdb|1JNN|L Chain L, Crystal Structure Of Fab-Estradiol Complexes
Length = 211
Score = 36.2 bits (82), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 45/210 (21%), Positives = 73/210 (34%), Gaps = 55/210 (26%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
SL S G+ V + C A G+ ++W ++ P +G
Sbjct: 10 SLSASVGETVTITCRASGNIYNYLAWYQQKQGKSPQLLVYNAKTLVDGVPLRFSGSGSGT 69
Query: 186 GSILKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
LKI + ED G YYC G GT+ I + AP +++ P Q
Sbjct: 70 QYSLKINSLQPEDFGNYYCHHFWNTPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSG 128
Query: 242 DMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADE 284
+ C + + P I W +D++ + YS+S
Sbjct: 129 GASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS------- 176
Query: 285 FTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ---STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1IGI|L Chain L, 26-10 Fab:digoxin Complex-Affinity And Specificity Due To
Surface Complementarity
pdb|1IGJ|A Chain A, 26-10 Fab:digoxin Complex-Affinity And Specificity Due To
Surface Complementarity
pdb|1IGJ|C Chain C, 26-10 Fab:digoxin Complex-Affinity And Specificity Due To
Surface Complementarity
Length = 219
Score = 36.2 bits (82), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGIYFCSQTTHVPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3HZY|A Chain A, Crystal Structure Of S73-2 Antibody In Complex With
Antigen Kdo(2.4)kdo(2.4)kdo
Length = 219
Score = 36.2 bits (82), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 45/213 (21%), Positives = 77/213 (36%), Gaps = 40/213 (18%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 IVMTQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC + G GT+ + + AP +
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNLRTFGGGTKLELK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPP--AIVWIKEDTQQVLTNNQHYSISHFATADEFT 286
++ P Q + C + + P A+ W + +++ Q+ ++ + D
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKDIAVKWKIDGSER-----QNGVLNSWTDQDSKD 175
Query: 287 DT-----TIRVITIEKRQYGSYICRAANKLGTS 314
T T+ + E ++ SY C A +K TS
Sbjct: 176 STYSMSSTLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2ADG|A Chain A, Crystal Structure Of Monoclonal Anti-Cd4 Antibody Q425
pdb|2ADI|A Chain A, Crystal Structure Of Monoclonal Anti-Cd4 Antibody Q425 In
Complex With Barium
pdb|2ADJ|A Chain A, Crystal Structure Of Monoclonal Anti-Cd4 Antibody Q425 In
Complex With Calcium
Length = 214
Score = 35.8 bits (81), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 43/210 (20%), Positives = 75/210 (35%), Gaps = 55/210 (26%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRR------------ENNAILPTGGSIYRGS---- 187
SL V+ G+ V + C ++W + E N + P S + S
Sbjct: 10 SLSVAIGEKVTIRCITSTDIDDDMNWYQQKPGEPPKFFISEGNTLRPGVPSRFSSSGYGT 69
Query: 188 --ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
+ I + ED YYC+ + + G GT+ I + AP +++ P Q
Sbjct: 70 DFVFTIENMLSEDVADYYCLQSDTLPLTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSG 128
Query: 242 DMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADE 284
+ C + + P I W +D++ + YS+S
Sbjct: 129 GASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS------- 176
Query: 285 FTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ---STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1T4K|A Chain A, Crystal Structure Of Unliganded Aldolase Antibody 93f3 Fab
pdb|1T4K|C Chain C, Crystal Structure Of Unliganded Aldolase Antibody 93f3 Fab
Length = 217
Score = 35.8 bits (81), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 49/231 (21%), Positives = 79/231 (34%), Gaps = 67/231 (29%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPR 166
D+Q+ + P SL VS G+ V + C + G PT
Sbjct: 1 DIQMTQSP-------SSLAVSPGEKVTMSCRSSQSLFNSRTRKNYLAWYQQKPGQSPTKL 53
Query: 167 ISWRRENNAILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAV 220
I W + +P TG L I + ED YYC + G GT+ +
Sbjct: 54 IYWASTRESGVPDRFTGSGSGTDFTLTISSVQAEDLAIYYCKQSYDLPTFGAGTKLELK- 112
Query: 221 EVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKED 263
+ AP +++ P Q + C + + P I W +D
Sbjct: 113 RSDAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQD 172
Query: 264 TQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
++ + YS+S +T+ + E ++ SY C A +K TS
Sbjct: 173 SK-----DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1KCU|L Chain L, Crystal Structure Of Antibody Pc287
pdb|1KC5|L Chain L, Crystal Structure Of Antibody Pc287 In Complex With Ps1
Peptide
Length = 214
Score = 35.8 bits (81), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 47/209 (22%), Positives = 84/209 (40%), Gaps = 37/209 (17%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRREN----NAILPTGGSI-------- 183
++ S +S+ +S G+ V L C A + +SW ++ A+L G S
Sbjct: 2 IVLTQSPKSMSMSVGEKVTLSCKASENVDTYVSWYQQRPEQPPALLIYGASNRYTGVPDR 61
Query: 184 YRGS------ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
+ GS L I + ED Y+C G GT+ + + AP +++ P
Sbjct: 62 FTGSGSATDFTLTISSVQAEDLADYHCGQSYSYPLTFGGGTKLELK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI--VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIR 291
Q + C + + P I W ++ + + +++ TA + D+T
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKW------KIDGSERQNGVANSWTAQDSKDSTYS 174
Query: 292 V---ITIEKRQY---GSYICRAANKLGTS 314
+ +T+ K +Y SY C A +K TS
Sbjct: 175 MSSTLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2ZUQ|B Chain B, Crystal Structure Of Dsbb-Fab Complex
pdb|2ZUQ|E Chain E, Crystal Structure Of Dsbb-Fab Complex
pdb|2LTQ|B Chain B, High Resolution Structure Of Dsbb C41s By Joint
Calculation With Solid-state Nmr And X-ray Data
pdb|2LTQ|E Chain E, High Resolution Structure Of Dsbb C41s By Joint
Calculation With Solid-state Nmr And X-ray Data
Length = 239
Score = 35.8 bits (81), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 47/223 (21%), Positives = 75/223 (33%), Gaps = 60/223 (26%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 22 IVMSQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRE 81
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC + G GT+ I + AP +
Sbjct: 82 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNLYTFGGGTKLEIK-RADAAPTV 140
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNN 271
++ P Q + C + + P I W +D++ +
Sbjct: 141 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----D 195
Query: 272 QHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
YS+S +T+ + E ++ SY C A +K TS
Sbjct: 196 STYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 228
>pdb|4FQH|L Chain L, Crystal Structure Of Fab Cr9114
pdb|4FQH|B Chain B, Crystal Structure Of Fab Cr9114
pdb|4FQI|L Chain L, Crystal Structure Of Fab Cr9114 In Complex With A H5n1
Influenza Virus Hemagglutinin
pdb|4FQV|L Chain L, Crystal Structure Of Broadly Neutralizing Antibody Cr9114
Bound To H7 Influenza Hemagglutinin
pdb|4FQV|M Chain M, Crystal Structure Of Broadly Neutralizing Antibody Cr9114
Bound To H7 Influenza Hemagglutinin
pdb|4FQV|N Chain N, Crystal Structure Of Broadly Neutralizing Antibody Cr9114
Bound To H7 Influenza Hemagglutinin
pdb|4FQY|L Chain L, Crystal Structure Of Broadly Neutralizing Antibody Cr9114
Bound To H3 Influenza Hemagglutinin
Length = 216
Score = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 32/137 (23%), Positives = 57/137 (41%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC A + G GT+ + + + AP +T+ P +
Sbjct: 74 LAISGLQSEDEAEYYCAAWDDSLKGAVFGGGTQLTVLGQPKAAPSVTLFPPSSEELQANK 133
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|2ZCK|H Chain H, Crystal Structure Of A Ternary Complex Between Psa, A
Substrat-Acyl Intermediate And An Activating Antibody
pdb|2ZCL|H Chain H, Crystal Structure Of Human Prostate Specific Antigen
Complexed With An Activating Antibody
Length = 230
Score = 35.8 bits (81), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 34/149 (22%), Positives = 54/149 (36%), Gaps = 37/149 (24%)
Query: 146 VVSEGQPVQLECFAGGHP--TPRISWRREN--------NAILPTGGSIYRGSILK----- 190
+V G V+L C A G+ T I+W R+ I P G+ Y + K
Sbjct: 11 LVKPGASVKLSCKASGYTFTTYYINWMRQRPGQGLEWIGRIAPASGTTYSSEMFKDKATL 70
Query: 191 ------------IPQITKEDRGTYYCV-AENGV---------GKGTRRNIAVEVEFAPVI 228
+ ++ ED Y+C A+ G G+GT ++ AP +
Sbjct: 71 TVDTSSNTAYIQLSSLSSEDSAVYFCARADYGFNSGEAMDYWGQGTSVTVSSAKTTAPPV 130
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI 257
P G + L C V+ Y P ++
Sbjct: 131 YPLAPVCGDTTGSSVTLGCLVKGYFPESV 159
>pdb|2EDJ|A Chain A, Solution Structure Of The Fifth Ig-Like Domain From Human
Roundabout Homolog 2
Length = 100
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 36/81 (44%), Gaps = 3/81 (3%)
Query: 134 PPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTG--GSIYRGSILKI 191
PP+I + +G + L+C A G P P ISW +E +I L+I
Sbjct: 8 PPIILQGPANQTLAVDGTAL-LKCKATGDPLPVISWLKEGFTFPGRDPRATIQEQGTLQI 66
Query: 192 PQITKEDRGTYYCVAENGVGK 212
+ D GTY CVA + G+
Sbjct: 67 KNLRISDTGTYTCVATSSSGE 87
>pdb|1JRH|L Chain L, Complex (AntibodyANTIGEN)
Length = 213
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 49/209 (23%), Positives = 78/209 (37%), Gaps = 54/209 (25%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISW--RRENNA--ILPTGG--------SIYRGS---- 187
S VS G V + C A R++W ++ NA +L +G S + GS
Sbjct: 10 SFSVSLGDRVTITCKASEDIYNRLAWYQQKPGNAPRLLISGATSLETEVPSRFSGSGSGK 69
Query: 188 --ILKIPQITKEDRGTYYC---VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 70 DYTLSITSLQTEDVATYYCQQYWSTWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGG 128
Query: 243 MDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEF 285
+ C + + P I W +D++ + YS+S
Sbjct: 129 ASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS-------- 175
Query: 286 TDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 --STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1CK0|L Chain L, Anti-Anti-Idiotypic Antibody Against Human Angiotensin Ii,
Unliganded Form
pdb|2CK0|L Chain L, Anti-Anti-Idiotypic Antibody Against Human Angiotensin Ii,
Complex With A Synthetic Cyclic Peptide
pdb|3CK0|L Chain L, Anti-Anti-Idiotypic Antibody Against Human Angiotensin Ii,
Complex With Human Angiotensin Ii
Length = 216
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 49/231 (21%), Positives = 78/231 (33%), Gaps = 67/231 (29%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPR 166
D+Q+ + P SL VS G+ V + C + G P
Sbjct: 1 DIQLTQSP-------SSLAVSAGEKVTMNCKSSQNLLHSITRKNYLAWYRQKPGQSPKLL 53
Query: 167 ISWRRENNAILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAV 220
I W + +P TG L I + ED YYC + G GT+ I
Sbjct: 54 IYWASTRGSGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYNLYTFGGGTKLEIK- 112
Query: 221 EVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKED 263
+ AP +++ P Q + C + + P I W +D
Sbjct: 113 RADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQD 172
Query: 264 TQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
++ + YS+S +T+ + E ++ SY C A +K TS
Sbjct: 173 SK-----DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|4F2M|B Chain B, Crystal Structure Of A Tgev Coronavirus Spike Fragment In
Complex With The Tgev Neutralizing Monoclonal Antibody
1af10
pdb|4F2M|D Chain D, Crystal Structure Of A Tgev Coronavirus Spike Fragment In
Complex With The Tgev Neutralizing Monoclonal Antibody
1af10
Length = 214
Score = 35.8 bits (81), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 47/212 (22%), Positives = 76/212 (35%), Gaps = 61/212 (28%)
Query: 145 LVVSEGQPVQLECFA---------------GGHPTPRISWRRENNAILPTGGSIYRGS-- 187
L VS G+ V L C A G P P I + E+ + +P S + GS
Sbjct: 11 LSVSPGERVSLSCRASQSIGTSIHWYQQRTNGSPRPLIKYASESISGIP---SRFSGSGS 67
Query: 188 ----ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
L I + ED Y+C + G GT+ + + AP +++ P Q
Sbjct: 68 GTDFTLNINSVESEDIADYFCQQTDSWPTTFGAGTKLELK-RADAAPTVSIFPPSSEQLT 126
Query: 240 QYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATA 282
+ C + + P I W +D++ + YS+S
Sbjct: 127 SGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----- 176
Query: 283 DEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 -----STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2ZCH|H Chain H, Crystal Structure Of Human Prostate Specific Antigen
Complexed With An Activating Antibody
Length = 229
Score = 35.8 bits (81), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 34/149 (22%), Positives = 54/149 (36%), Gaps = 37/149 (24%)
Query: 146 VVSEGQPVQLECFAGGHP--TPRISWRREN--------NAILPTGGSIYRGSILK----- 190
+V G V+L C A G+ T I+W R+ I P G+ Y + K
Sbjct: 11 LVKPGASVKLSCKASGYTFTTYYINWMRQRPGQGLEWIGRIAPASGTTYSSEMFKDKATL 70
Query: 191 ------------IPQITKEDRGTYYCV-AENGV---------GKGTRRNIAVEVEFAPVI 228
+ ++ ED Y+C A+ G G+GT ++ AP +
Sbjct: 71 TVDTSSNTAYIQLSSLSSEDSAVYFCARADYGFNSGEAMDYWGQGTSVTVSSAKTTAPPV 130
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI 257
P G + L C V+ Y P ++
Sbjct: 131 YPLAPVCGDTTGSSVTLGCLVKGYFPESV 159
>pdb|3MCK|L Chain L, Crystal Structure Of Anti-Beta-Amyloid Antibody C705
pdb|3MCK|A Chain A, Crystal Structure Of Anti-Beta-Amyloid Antibody C705
Length = 219
Score = 35.8 bits (81), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI + ED G +YC + V G GT+ + + AP +++ P Q
Sbjct: 78 LKISSVEAEDLGVFYCFQGSRVPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3Q6G|L Chain L, Crystal Structure Of Fab Of Rhesus Mab 2.5b Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
pdb|3Q6G|M Chain M, Crystal Structure Of Fab Of Rhesus Mab 2.5b Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
Length = 209
Score = 35.8 bits (81), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 42/201 (20%), Positives = 77/201 (38%), Gaps = 25/201 (12%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRR---------------ENNAILP---TGGSIY 184
RS+ VS GQ ++ C + + W + E ++ +P +G +
Sbjct: 7 RSVSVSPGQTARVTCGGDNIGSKSVQWYQQKPPQAPVLVMSADDERSSGIPERFSGSNSG 66
Query: 185 RGSILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
+ L I + D YYC + G GTR + + + AP +T+ P +
Sbjct: 67 NTATLTISGVEAGDEADYYCQVWDSSSHHMLFGGGTRLTVLGQPKAAPSVTLFPPSSEEL 126
Query: 239 LQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK 297
L C + + P A+ V K D V + S + + + + + +
Sbjct: 127 QANKATLVCLISDFYPGAVEVAWKADGSAVNAGVETTKPSKQSNNKYAASSYLSLTSDQW 186
Query: 298 RQYGSYICRAANKLGTSEKTV 318
+ + SY C+ ++ T EKTV
Sbjct: 187 KSHKSYSCQVTHEGSTVEKTV 207
>pdb|4HC1|H Chain H, Crystal Structure Of A Loop Deleted Mutant Of Human
Madcam-1 D1d2 Complexed With Fab 10g3
pdb|4HC1|M Chain M, Crystal Structure Of A Loop Deleted Mutant Of Human
Madcam-1 D1d2 Complexed With Fab 10g3
Length = 220
Score = 35.8 bits (81), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 22/73 (30%), Positives = 31/73 (42%), Gaps = 6/73 (8%)
Query: 188 ILKIPQITKEDRGTYYCV---AENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
LK+ +T ED TYYC +G G+GT ++ AP + P G
Sbjct: 80 FLKLSSVTTEDTATYYCARASDSDGFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGGTTGS 139
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 140 SVTLGCLVKGYFP 152
>pdb|3G5V|B Chain B, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 213
Score = 35.8 bits (81), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 33/74 (44%), Gaps = 4/74 (5%)
Query: 188 ILKIPQITKEDRGTYYCV-AENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L++ +T ED TYYCV A G G+GT ++ P + P G +
Sbjct: 80 FLQLNSVTIEDTATYYCVTAGRGFPYWGQGTLVTVSAAKTTPPSVYPLAPGCGDTTGSSV 139
Query: 244 DLECHVEAYPPPAI 257
L C V+ Y P ++
Sbjct: 140 TLGCLVKGYFPESV 153
>pdb|2DTG|B Chain B, Insulin Receptor (Ir) Ectodomain In Complex With Fab's
pdb|3LOH|B Chain B, Structure Of The Insulin Receptor Ectodomain, Including Ct
P
Length = 219
Score = 35.8 bits (81), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 48/223 (21%), Positives = 75/223 (33%), Gaps = 60/223 (26%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SLVVS G+ V + C + G P I W
Sbjct: 2 IVMSQSPSSLVVSVGEKVTMSCKSSQSLLYSSNQKNFLAWYQQKPGQSPKLLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYC---VAENGVGKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC G GT+ I + AP +
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVKAEDLAVYYCQQYFRYRTFGGGTKLEIK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNN 271
++ P Q + C + + P I W +D++ +
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----D 175
Query: 272 QHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 STYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3B9K|L Chain L, Crystal Structure Of Cd8alpha-Beta In Complex With Yts
156.7 Fab
pdb|3B9K|C Chain C, Crystal Structure Of Cd8alpha-Beta In Complex With Yts
156.7 Fab
Length = 213
Score = 35.8 bits (81), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 41/204 (20%), Positives = 77/204 (37%), Gaps = 44/204 (21%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
SL S G V + C A + I+W ++ P +G R
Sbjct: 10 SLSASLGDKVTITCQASQNIDKYIAWYQQKPGKAPRQLIHYTSTLVSGTPSRFSGSGSGR 69
Query: 186 GSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
I + ED +YYC+ + + G GT+ + + AP +++ P + Q
Sbjct: 70 DYTFSISSVESEDIASYYCLQYDTLYTFGAGTKLELK-RADAAPTVSIFPPSMEQLTSGG 128
Query: 243 MDLECHVEAYPPP--AIVWIKEDTQQ---VL-------TNNQHYSISHFATADEFTDTTI 290
+ C V + P ++ W + ++Q VL + + YS+S +T+
Sbjct: 129 ATVVCFVNNFYPRDISVKWKIDGSEQRDGVLDSVTDQDSKDSTYSMS----------STL 178
Query: 291 RVITIEKRQYGSYICRAANKLGTS 314
+ +E ++ Y C +K +S
Sbjct: 179 SLTKVEYERHNLYTCEVVHKTSSS 202
>pdb|3VFG|L Chain L, Crystal Structure Of Monoclonal Anitbody 3f8 Fab Fragment
That Binds To Gd2 Ganglioside
Length = 211
Score = 35.8 bits (81), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 41/206 (19%), Positives = 71/206 (34%), Gaps = 52/206 (25%)
Query: 145 LVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYRG 186
L+VS G V + C A + ++W ++ P TG
Sbjct: 11 LLVSAGDRVTITCKASQSVSNDVTWYQQKAGQSPKLLIYSASNRYSGVPDRFTGSGYGTA 70
Query: 187 SILKIPQITKEDRGTYYCVAE-NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
I + ED Y+C + + G GT+ I + AP +++ P Q +
Sbjct: 71 FTFTISTVQAEDLAVYFCQQDYSSFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 129
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 130 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 174
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 175 TLTLTKDEYERHNSYTCEATHKTSTS 200
>pdb|1UZ8|A Chain A, Anti-Lewis X Fab Fragment In Complex With Lewis X
pdb|1UZ8|L Chain L, Anti-Lewis X Fab Fragment In Complex With Lewis X
Length = 218
Score = 35.8 bits (81), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 35/148 (23%), Positives = 58/148 (39%), Gaps = 39/148 (26%)
Query: 189 LKIPQITKEDRGTYYCVAEN-----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L+I ++ ED G YYC A+N G GT+ I + AP +++ P Q
Sbjct: 78 LRISRVEAEDVGVYYC-AQNLEVPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGA 135
Query: 244 DLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFT 286
+ C + + P I W +D++ + YS+S
Sbjct: 136 SVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--------- 181
Query: 287 DTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1ORQ|A Chain A, X-Ray Structure Of A Voltage-Dependent Potassium Channel
In Complex With An Fab
Length = 215
Score = 35.8 bits (81), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC +G G GT+ I + AP +++ P Q
Sbjct: 74 LTISSVEAEDTATYYCQQYSGNPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 132
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 133 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 177
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|1QFU|L Chain L, Influenza Virus Hemagglutinin Complexed With A
Neutralizing Antibody
Length = 217
Score = 35.8 bits (81), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQNTHVPYTFGGGTKLEIK-RADAAPTVSIFPPSKIQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2VQ1|A Chain A, Anti Trimeric Lewis X Fab54-5c10-A
pdb|2VQ1|E Chain E, Anti Trimeric Lewis X Fab54-5c10-A
Length = 217
Score = 35.8 bits (81), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRMEAEDLGIYFCSQTTHVPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2XY2|A Chain A, Crystal Structure Of Ncam2 Ig1-2
Length = 189
Score = 35.8 bits (81), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 31/139 (22%), Positives = 59/139 (42%), Gaps = 14/139 (10%)
Query: 147 VSEGQPVQLECFAGGHPTPRISWRR-ENNAILPTGGSIYRG----SILKIPQITKEDRGT 201
+S G+ C A G P I W + I+ T + + S L I ED G
Sbjct: 14 LSVGESKFFTCTAIGEPES-IDWYNPQGEKIISTQRVVVQKEGVRSRLTIYNANIEDAGI 72
Query: 202 YYCVAENGVGKGTRRNIAVEV----EFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI 257
Y C A + G+ + +E+ F V++ + + G+ D ++ C V + P PA+
Sbjct: 73 YRCQATDAKGQTQEATVVLEIYQKLTFREVVSPQEFKQGE----DAEVVCRVSSSPAPAV 128
Query: 258 VWIKEDTQQVLTNNQHYSI 276
W+ + + ++ +++
Sbjct: 129 SWLYHNEEVTTISDNRFAM 147
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 37/136 (27%), Positives = 55/136 (40%), Gaps = 20/136 (14%)
Query: 79 IIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVIS 138
II R ++ + S T+ +I+ DAG YRCQ A V L++ +
Sbjct: 43 IISTQRVVVQKEGVRSRLTIYNANIE--DAGIYRCQATDAKGQTQEATVVLEIYQKLTFR 100
Query: 139 DNSTRSLVVS-----EGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILK--- 190
+ VVS +G+ ++ C P P +SW N + T S R ++L
Sbjct: 101 E------VVSPQEFKQGEDAEVVCRVSSSPAPAVSWLYHNEEV--TTISDNRFAMLANNN 152
Query: 191 --IPQITKEDRGTYYC 204
I I K D G Y C
Sbjct: 153 LQILNINKSDEGIYRC 168
>pdb|3CFB|L Chain L, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2 In Complex With Stilbene Hapten At 100k
pdb|3CFB|A Chain A, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2 In Complex With Stilbene Hapten At 100k
pdb|3CFC|L Chain L, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2
Length = 219
Score = 35.8 bits (81), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 35/148 (23%), Positives = 58/148 (39%), Gaps = 39/148 (26%)
Query: 189 LKIPQITKEDRGTYYCVAEN-----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L+I ++ ED G YYC A+N G GT+ I + AP +++ P Q
Sbjct: 78 LRISRVEAEDVGVYYC-AQNLELPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGA 135
Query: 244 DLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFT 286
+ C + + P I W +D++ + YS+S
Sbjct: 136 SVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--------- 181
Query: 287 DTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3MLU|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Zam18 V3 Peptide
Length = 218
Score = 35.8 bits (81), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 45/208 (21%), Positives = 75/208 (36%), Gaps = 33/208 (15%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
S+ VS GQ + C +SW + P +G +
Sbjct: 8 SVSVSPGQTASISCSGDKLDDKYVSWYYQRPGQSPVLLMYQDFKRPSGIPERLSGSKSGK 67
Query: 186 GSILKIPQITKEDRGTYYCVA---ENGV-----------GKGTRRNIAVEVEFAPVITVP 231
+ L I D G YYC A GV G+GTR + + + AP +T+
Sbjct: 68 TATLTISGTQSLDEGDYYCQAWDASTGVSGGGTKLTVLFGEGTRLTVLAQPKAAPSVTLF 127
Query: 232 KPRLGQALQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTI 290
P + L C + + P A+ V K D+ V + + S + + +
Sbjct: 128 PPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYL 187
Query: 291 RVITIEKRQYGSYICRAANKLGTSEKTV 318
+ + + + SY C+ ++ T EKTV
Sbjct: 188 SLTPEQWKSHKSYSCQVTHEGSTVEKTV 215
>pdb|3MLV|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With An Nof V3 Peptide
pdb|3MLV|M Chain M, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With An Nof V3 Peptide
Length = 219
Score = 35.8 bits (81), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 45/208 (21%), Positives = 75/208 (36%), Gaps = 33/208 (15%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
S+ VS GQ + C +SW + P +G +
Sbjct: 9 SVSVSPGQTASISCSGDKLDDKYVSWYYQRPGQSPVLLMYQDFKRPSGIPERLSGSKSGK 68
Query: 186 GSILKIPQITKEDRGTYYCVA---ENGV-----------GKGTRRNIAVEVEFAPVITVP 231
+ L I D G YYC A GV G+GTR + + + AP +T+
Sbjct: 69 TATLTISGTQSLDEGDYYCQAWDASTGVSGGGTKLTVLFGEGTRLTVLAQPKAAPSVTLF 128
Query: 232 KPRLGQALQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTI 290
P + L C + + P A+ V K D+ V + + S + + +
Sbjct: 129 PPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYL 188
Query: 291 RVITIEKRQYGSYICRAANKLGTSEKTV 318
+ + + + SY C+ ++ T EKTV
Sbjct: 189 SLTPEQWKSHKSYSCQVTHEGSTVEKTV 216
>pdb|3G5X|B Chain B, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
pdb|3G5X|D Chain D, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 216
Score = 35.8 bits (81), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 33/74 (44%), Gaps = 4/74 (5%)
Query: 188 ILKIPQITKEDRGTYYCV-AENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L++ +T ED TYYCV A G G+GT ++ P + P G +
Sbjct: 80 FLQLNSVTIEDTATYYCVTAGRGFPYWGQGTLVTVSAAKTTPPSVYPLAPGCGDTTGSSV 139
Query: 244 DLECHVEAYPPPAI 257
L C V+ Y P ++
Sbjct: 140 TLGCLVKGYFPESV 153
>pdb|1CF8|H Chain H, Convergence Of Catalytic Antibody And Terpene Cyclase
Mechanisms: Polyene Cyclization Directed By
Carbocation-pi Interactions
Length = 218
Score = 35.8 bits (81), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 4/75 (5%)
Query: 188 ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L++ +T ED TYYC G G+GT ++ P + P G +
Sbjct: 80 FLQLNSVTTEDTATYYCAIGYGNSDYWGQGTLVTVSAAKTTPPSVYPLAPGCGDTTGSSV 139
Query: 244 DLECHVEAYPPPAIV 258
L C V+ Y P ++
Sbjct: 140 TLGCLVKGYFPESVT 154
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 35.8 bits (81), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 26/109 (23%), Positives = 42/109 (38%), Gaps = 12/109 (11%)
Query: 112 RCQVIIGINNKISAEVD---LQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRIS 168
RC + + + EVD Q P ++ ++ R L +SEG+ +L+C P +
Sbjct: 328 RCHAPMHMRGRYLVEVDQASFQCSAPFIM--DAPRDLNISEGRMAELKCRTP--PMSSVK 383
Query: 169 WRRENNAILPTGG-----SIYRGSILKIPQITKEDRGTYYCVAENGVGK 212
W N +L S+ L + D G Y C+ N G
Sbjct: 384 WLLPNGTVLSHASRHPRISVLNDGTLNFSHVLLSDTGVYTCMVTNVAGN 432
>pdb|1HQ4|B Chain B, Structure Of Native Catalytic Antibody Ha5-19a4
pdb|1HQ4|D Chain D, Structure Of Native Catalytic Antibody Ha5-19a4
Length = 218
Score = 35.8 bits (81), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 4/75 (5%)
Query: 188 ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L++ +T ED TYYC G G+GT ++ P + P G +
Sbjct: 80 FLQLNSVTTEDTATYYCAIGYGNSDYWGQGTLVTVSAAKTTPPSVYPLAPGCGDTTGSSV 139
Query: 244 DLECHVEAYPPPAIV 258
L C V+ Y P ++
Sbjct: 140 TLGCLVKGYFPESVT 154
>pdb|2JEL|L Chain L, Jel42 FabHPR COMPLEX
Length = 217
Score = 35.8 bits (81), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIGDGARQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K S
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSDS 208
>pdb|4FQK|F Chain F, Influenza BBRISBANE602008 HEMAGGLUTININ FAB CR8059 COMPLEX
pdb|4FQK|L Chain L, Influenza BBRISBANE602008 HEMAGGLUTININ FAB CR8059 COMPLEX
Length = 216
Score = 35.8 bits (81), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 58/137 (42%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCV----AENG--VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC + NG G GT+ + + + AP +T+ P +
Sbjct: 74 LAISGLQSEDEADYYCATWDDSLNGWVFGGGTKLTVLRQPKAAPSVTLFPPSSEELQANK 133
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|1UZ6|E Chain E, Anti-Lewis X Fab Fragment Uncomplexed
pdb|1UZ6|L Chain L, Anti-Lewis X Fab Fragment Uncomplexed
pdb|1UZ6|M Chain M, Anti-Lewis X Fab Fragment Uncomplexed
pdb|1UZ6|V Chain V, Anti-Lewis X Fab Fragment Uncomplexed
Length = 218
Score = 35.4 bits (80), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 35/148 (23%), Positives = 58/148 (39%), Gaps = 39/148 (26%)
Query: 189 LKIPQITKEDRGTYYCVAEN-----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L+I ++ ED G YYC A+N G GT+ I + AP +++ P Q
Sbjct: 78 LRISRVEAEDVGVYYC-AQNLEVPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGA 135
Query: 244 DLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFT 286
+ C + + P I W +D++ + YS+S
Sbjct: 136 SVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--------- 181
Query: 287 DTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1JGV|L Chain L, Structural Basis For Disfavored Elimination Reaction In
Catalytic Antibody 1d4
pdb|1JGU|L Chain L, Structural Basis For Disfavored Elimination Reaction In
Catalytic Antibody 1d4
Length = 220
Score = 35.4 bits (80), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 33/148 (22%), Positives = 56/148 (37%), Gaps = 38/148 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV-----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
LKI ++ ED G Y+C V G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQSTHVPPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGA 136
Query: 244 DLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFT 286
+ C + + P I W +D++ + YS+S
Sbjct: 137 SVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--------- 182
Query: 287 DTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 183 -STLTLTKDEYERHNSYTCEATHKTSTS 209
>pdb|3P30|L Chain L, Crystal Structure Of The Cluster Ii Fab 1281 In Complex
With Hiv-1 Gp41 Ectodomain
Length = 213
Score = 35.4 bits (80), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 31/138 (22%), Positives = 57/138 (41%), Gaps = 8/138 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG-------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L I + ED YYC A + G GT+ + + + AP +T+ P +
Sbjct: 74 LAISGLRSEDEADYYCAAWDDSLSGPYVFGAGTKLTVLGQPKAAPSVTLFPPSSEELQAN 133
Query: 242 DMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
L C + + P A+ V K D+ + + + S + + + + + + +
Sbjct: 134 KATLVCLISDFYPGAVTVAWKADSSPIKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSH 193
Query: 301 GSYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 RSYSCQVTHEGSTVEKTV 211
>pdb|4HF5|L Chain L, Crystal Structure Of Fab 8f8 In Complex A H2n2 Influenza
Virus Hemagglutinin
Length = 218
Score = 35.4 bits (80), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 32/139 (23%), Positives = 57/139 (41%), Gaps = 9/139 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENG--------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L I + ED YYC A + G GT+ + + + AP +T+ P +
Sbjct: 74 LAISGLQSEDEADYYCAAWDDSLSGPAVVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQA 133
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 134 NKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKS 193
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 194 HRSYSCQVTHEGSTVEKTV 212
>pdb|3OKK|A Chain A, Crystal Structure Of S25-39 In Complex With Kdo(2.4)kdo
Length = 220
Score = 35.4 bits (80), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 43/208 (20%), Positives = 74/208 (35%), Gaps = 30/208 (14%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 IVMTQSPSSLAVSAGEKVTMNCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC + G GT+ I + AP +
Sbjct: 62 SGVPDRFTGSGSGTDFALTISSVQAEDLAVYYCKQSYNLRTFGGGTKLEIK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI--VWIKEDTQQVLTNNQHYSISHFATADEFT 286
++ P Q + C + + P I W + +++ ++ +
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERANGVLNSWTDQDSKDSTYSM 180
Query: 287 DTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A++K TS
Sbjct: 181 TSTLTLTKDEYERHNSYTCEASHKTSTS 208
>pdb|3OKD|A Chain A, Crystal Structure Of S25-39 In Complex With Kdo
pdb|3OKE|A Chain A, Crystal Structure Of S25-39 In Complex With Ko
pdb|3OKL|A Chain A, Crystal Structure Of S25-39 In Complex With Kdo(2.8)kdo
pdb|3OKM|A Chain A, Crystal Structure Of Unliganded S25-39
pdb|3OKN|A Chain A, Crystal Structure Of S25-39 In Complex With
Kdo(2.4)kdo(2.4)kdo
pdb|3OKO|A Chain A, Crystal Structure Of S25-39 In Complex With
Kdo(2.8)kdo(2.4)kdo
Length = 219
Score = 35.4 bits (80), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 43/208 (20%), Positives = 74/208 (35%), Gaps = 30/208 (14%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 IVMTQSPSSLAVSAGEKVTMNCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC + G GT+ I + AP +
Sbjct: 62 SGVPDRFTGSGSGTDFALTISSVQAEDLAVYYCKQSYNLRTFGGGTKLEIK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI--VWIKEDTQQVLTNNQHYSISHFATADEFT 286
++ P Q + C + + P I W + +++ ++ +
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERANGVLNSWTDQDSKDSTYSM 180
Query: 287 DTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A++K TS
Sbjct: 181 TSTLTLTKDEYERHNSYTCEASHKTSTS 208
>pdb|1CR9|H Chain H, Crystal Structure Of The Anti-Prion Fab 3f4
pdb|1CU4|H Chain H, Crystal Structure Of The Anti-Prion Fab 3f4 In Complex
With Its Peptide Epitope
Length = 217
Score = 35.4 bits (80), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 23/87 (26%), Positives = 39/87 (44%), Gaps = 3/87 (3%)
Query: 170 RRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAE--NGVGKGTRRNIAVEVEFAPV 227
R + A + T ++ + L++ +T ED YYC A+ + G+GT ++ AP
Sbjct: 63 RFQGKATM-TADTLSNTAYLQLSSLTSEDTAVYYCNADLHDYWGQGTTLTVSSAKTTAPS 121
Query: 228 ITVPKPRLGQALQYDMDLECHVEAYPP 254
+ P G + L C V+ Y P
Sbjct: 122 VYPLAPVCGDTTGSSVTLGCLVKGYFP 148
>pdb|1F11|A Chain A, F124 Fab Fragment From A Monoclonal Anti-Pres2 Antibody
pdb|1F11|C Chain C, F124 Fab Fragment From A Monoclonal Anti-Pres2 Antibody
Length = 218
Score = 35.4 bits (80), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED TYYC N G GT+ I + AP +++ P Q
Sbjct: 77 LNIHPVEEEDAATYYCQQSNEDPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3UTP|D Chain D, 1e6 Tcr Specific For Hla-A0201-Alwgpdpaaa
pdb|3UTP|K Chain K, 1e6 Tcr Specific For Hla-A0201-Alwgpdpaaa
pdb|3UTS|D Chain D, 1e6-A0201-Alwgpdpaaa Complex, Monoclinic
pdb|3UTS|I Chain I, 1e6-A0201-Alwgpdpaaa Complex, Monoclinic
Length = 201
Score = 35.4 bits (80), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 45/106 (42%), Gaps = 9/106 (8%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G V L C+ + +W + K E L + T SS D RF + D +S +L
Sbjct: 15 GAIVSLNCTYSNSAFQYFMWYRQYSRKGPELL-MYTYSSGNKEDGRFTAQVDKSSKYISL 73
Query: 99 LVKDIQETDAGYYRC--------QVIIGINNKISAEVDLQVRRPPV 136
++D Q +D+ Y C ++I G ++ D+Q P V
Sbjct: 74 FIRDSQPSDSATYLCAMRGDSSYKLIFGSGTRLLVRPDIQNPDPAV 119
>pdb|3E8U|L Chain L, Crystal Structure And Thermodynamic Analysis Of Diagnostic
Fab 106.3 Complexed With Bnp 5-13 (C10a) Reveal Basis Of
Selective Molecular Recognition
Length = 216
Score = 35.4 bits (80), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED TYYC N G GT+ I + AP +++ P Q
Sbjct: 77 LNIHPVEEEDAATYYCQQSNEDPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|1Q9K|A Chain A, S25-2 Fab Unliganded 1
pdb|1Q9L|A Chain A, S25-2 Fab Unliganded 2
pdb|1Q9L|C Chain C, S25-2 Fab Unliganded 2
pdb|2R1W|A Chain A, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R1X|A Chain A, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R1Y|A Chain A, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R23|A Chain A, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R2B|A Chain A, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R2E|A Chain A, Crystal Structure Of S25-2 Fab In Complex With Kdo
Analogues
pdb|2R2H|A Chain A, Structure Of S25-2 In Complex With Ko
pdb|3BPC|A Chain A, Co-Crystal Structure Of S25-2 Fab In Complex With
5-Deoxy-4- Epi-2,3-Dehydro Kdo (4.8) Kdo
pdb|3SY0|A Chain A, S25-2- A(2-8)-A(2-4)kdo Trisaccharide Complex
pdb|3T4Y|A Chain A, S25-2- Kdo Monosaccharide Complex
pdb|3T65|A Chain A, S25-2- A(2-8)kdo Disaccharide Complex
pdb|3T77|A Chain A, S25-2- A(2-4)kdo Disaccharide Complex
pdb|4HGW|A Chain A, Crystal Structure Of S25-2 In Complex With A
5,6-dehydro-kdo Disaccharide
Length = 219
Score = 35.4 bits (80), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 47/223 (21%), Positives = 75/223 (33%), Gaps = 60/223 (26%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 IVMSQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKLLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC + G GT+ I + AP +
Sbjct: 62 SGVPDRFTGSGSGTDFTLTITSVQAEDLAVYYCKQSYNLRTFGGGTKLEIK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNN 271
++ P Q + C + + P I W +D++ +
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----D 175
Query: 272 QHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 STYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1LO4|L Chain L, Retro-Diels-Alderase Catalytic Antibody 9d9
Length = 217
Score = 35.4 bits (80), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGLYYCFQGSHSPWTFGGGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2YPV|L Chain L, Crystal Structure Of The Meningococcal Vaccine Antigen
Factor H Binding Protein In Complex With A Bactericidal
Antibody
Length = 214
Score = 35.4 bits (80), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 46/218 (21%), Positives = 77/218 (35%), Gaps = 55/218 (25%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S S+ S G+ V L C A ++W ++ P
Sbjct: 2 IVLTQSPSSIYASLGERVTLTCKASQDIHNYLNWFQQKPGKSPKTLIYRANRLVDGVPSR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKP 233
+GG + L I + ED G YYC+ + G GTR I + AP +++ P
Sbjct: 62 FSGGGSGQDYSLTISSLEFEDIGIYYCLQYDEFPPTFGGGTRLEIK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 175
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 176 S----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>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 = 35.4 bits (80), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 21/87 (24%), Positives = 42/87 (48%), Gaps = 5/87 (5%)
Query: 243 MDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGS 302
+++ C V AYP I W ++ Q+L ++ + +I + T + + + V + +G+
Sbjct: 36 VNITCEVFAYPSATISWFRDG--QLLPSSNYSNIKIYNTP---SASYLEVTPDSENDFGN 90
Query: 303 YICRAANKLGTSEKTVELFESIIPVCP 329
Y C A N++G L ++ P P
Sbjct: 91 YNCTAVNRIGQESLEFILVQADTPSSP 117
Score = 35.4 bits (80), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 39/82 (47%), Gaps = 8/82 (9%)
Query: 149 EGQPVQLECFAGGHPTPRISWRRENNAILPTGG----SIYR---GSILKIPQITKEDRGT 201
EG V + C +P+ ISW R+ +LP+ IY S L++ ++ D G
Sbjct: 32 EGNQVNITCEVFAYPSATISWFRDGQ-LLPSSNYSNIKIYNTPSASYLEVTPDSENDFGN 90
Query: 202 YYCVAENGVGKGTRRNIAVEVE 223
Y C A N +G+ + I V+ +
Sbjct: 91 YNCTAVNRIGQESLEFILVQAD 112
>pdb|3TNN|L Chain L, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody.
pdb|3TNN|B Chain B, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody.
pdb|3TNN|D Chain D, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody.
pdb|3TNN|F Chain F, Crystal Structure Of N5-I5 Fab, An Adcc Mediating And
Non-Neutralizing Cd4i Anti-Hiv- 1 Antibody
Length = 217
Score = 35.4 bits (80), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 62/138 (44%), Gaps = 9/138 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC + G G GT+ + + + AP +T+ P +
Sbjct: 75 LTISGLQAEDEADYYCSSYAGSTTFRVFGGGTKLTVRGQPKAAPSVTLFPPSSEELQANK 134
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQY 300
L C + + P A+ V K D+ V + + S + +++ ++ +T E+ + +
Sbjct: 135 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSK-QSNNKYAASSYLSLTPEQWKSH 193
Query: 301 GSYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 RSYSCQVTHEGSTVEKTV 211
>pdb|1T2Q|L Chain L, The Crystal Structure Of An Nna7 Fab That Recognizes An
N-Type Blood Group Antigen
Length = 217
Score = 35.4 bits (80), Expect = 0.054, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED G YYC + V G GT+ + + AP +++ P Q
Sbjct: 78 LTISRVEAEDLGVYYCFQGSHVPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2YPV|H Chain H, Crystal Structure Of The Meningococcal Vaccine Antigen
Factor H Binding Protein In Complex With A Bactericidal
Antibody
Length = 218
Score = 35.4 bits (80), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 32/146 (21%), Positives = 58/146 (39%), Gaps = 34/146 (23%)
Query: 146 VVSEGQPVQLECFAGGHPTP--RISWRRENNA--------ILPTGGSI-----YRG---- 186
+V G V++ C A G+ +SW +++N I P G+I ++G
Sbjct: 11 LVKPGASVKISCKASGYSFSDYNMSWVKQSNGKSLEWIGIIDPKYGTINYNQKFKGKATL 70
Query: 187 --------SILKIPQITKEDRGTYYCVAE-------NGVGKGTRRNIAVEVEFAPVITVP 231
+ +++ +T ED YYCV + + G+GT ++ P +
Sbjct: 71 TVDQASSTAYMQLNSLTSEDSAVYYCVRDYYGSSYFDYWGQGTTLTVSSAKTTPPSVYPL 130
Query: 232 KPRLGQALQYDMDLECHVEAYPPPAI 257
P G + L C V+ Y P ++
Sbjct: 131 APGCGDTTGSSVTLGCLVKGYFPESV 156
>pdb|1KNO|A Chain A, Crystal Structure Of The Complex Of A Catalytic Antibody
Fab With A Transition State Analog: Structural
Similarities In Esterase-Like Abzymes
pdb|1KNO|C Chain C, Crystal Structure Of The Complex Of A Catalytic Antibody
Fab With A Transition State Analog: Structural
Similarities In Esterase-Like Abzymes
pdb|1KNO|E Chain E, Crystal Structure Of The Complex Of A Catalytic Antibody
Fab With A Transition State Analog: Structural
Similarities In Esterase-Like Abzymes
Length = 214
Score = 35.4 bits (80), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 47/213 (22%), Positives = 76/213 (35%), Gaps = 61/213 (28%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG----------GS 182
SL S G+ V L C A + +SW ++ + L +G GS
Sbjct: 10 SLSASLGERVSLTCRASQEISGYLSWLQQKPDGTIKRLIYAASTLDSGVPKRFSGSRSGS 69
Query: 183 IYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
Y L I + ED YYC+ G GT+ I + + AP +++ P Q
Sbjct: 70 DYS---LTISSLESEDFADYYCLQYASSPYTFGGGTKLEI-LRADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1TPX|C Chain C, Ovine Recombinant Prp(114-234), Arq Variant In Complex
With The Fab Of The Vrq14 Antibody
pdb|1TQB|C Chain C, Ovine Recombinant Prp(114-234), Vrq Variant In Complex
With The Fab Of The Vrq14 Antibody
pdb|1TQC|C Chain C, Ovine Recombinant Prp(114-234), Arr Variant In Complex
With The Vrq14 Fab Fragment (Igg2a)
Length = 219
Score = 35.4 bits (80), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 48/214 (22%), Positives = 83/214 (38%), Gaps = 42/214 (19%)
Query: 127 VDLQVRRPPVISDNSTRSLVVSEGQPV--QLECFAGGHPTPRISWRRENNAILP---TGG 181
+ + + +P IS S++SL+ S+G+ L G P I ++ +P TG
Sbjct: 11 LSVTIGQPASISCKSSQSLLDSDGKTYLNWLLQRPGQSPKRLIYLVSRLDSGVPDRFTGS 70
Query: 182 SIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI ++ ED G Y+C + G GT+ I + AP +++ P Q
Sbjct: 71 GSGTDFTLKISRVEAEDLGIYFCWQGSHFPQTFGGGTKLEIK-RADAAPTVSIFPPSSEQ 129
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 130 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 181
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2BRR|L Chain L, Complex Of The Neisserial Pora P1.4 Epitope Peptide And
Two Fab-Fragments (Antibody Mn20b9.34)
pdb|2BRR|X Chain X, Complex Of The Neisserial Pora P1.4 Epitope Peptide And
Two Fab-Fragments (Antibody Mn20b9.34)
Length = 215
Score = 35.4 bits (80), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC +G G GT+ I + AP +++ P Q
Sbjct: 74 LTISSVEAEDAATYYCQQYSGYPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 132
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 133 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 177
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|1MNU|L Chain L, Unliganded Bactericidal Antibody Against Neisseria
Meningitidis
pdb|2MPA|L Chain L, Bactericidal Antibody Against Neisseria Meningitidis
pdb|1MPA|L Chain L, Bactericidal Antibody Against Neisseria Meningitidis
Length = 219
Score = 35.4 bits (80), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G ++C V G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVFFCSQSTHVPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3UTT|D Chain D, 1e6-A0201-Alwgpdpaaa Complex, Triclinic
pdb|3UTT|I Chain I, 1e6-A0201-Alwgpdpaaa Complex, Triclinic
Length = 199
Score = 35.4 bits (80), Expect = 0.057, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 45/106 (42%), Gaps = 9/106 (8%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G V L C+ + +W + K E L + T SS D RF + D +S +L
Sbjct: 14 GAIVSLNCTYSNSAFQYFMWYRQYSRKGPELL-MYTYSSGNKEDGRFTAQVDKSSKYISL 72
Query: 99 LVKDIQETDAGYYRC--------QVIIGINNKISAEVDLQVRRPPV 136
++D Q +D+ Y C ++I G ++ D+Q P V
Sbjct: 73 FIRDSQPSDSATYLCAMRGDSSYKLIFGSGTRLLVRPDIQNPDPAV 118
>pdb|1NSN|H Chain H, The Crystal Structure Of Antibody N10-Staphylococcal
Nuclease Complex At 2.9 Angstroms Resolution
Length = 210
Score = 35.4 bits (80), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 30/68 (44%), Gaps = 1/68 (1%)
Query: 188 ILKIPQITKEDRGTYYCVAENG-VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
+++ +T ED GT+YC NG G+GT ++ P + P + L
Sbjct: 80 FMQLNSVTTEDTGTFYCTRGNGDWGQGTTLTVSSAKTTPPSVYPLAPGSAAQTNSMVTLG 139
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 140 CLVKGYFP 147
>pdb|1FIG|L Chain L, Routes To Catalysis: Structure Of A Catalytic Antibody And
Comparison With Its Natural Counterpart
Length = 215
Score = 35.4 bits (80), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC +G G GT+ + + AP +++ P Q
Sbjct: 74 LTISSVEAEDAATYYCQQYSGYPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 132
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 133 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 177
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|2XKN|B Chain B, Crystal Structure Of The Fab Fragment Of The Anti-Egfr
Antibody 7a7
pdb|2XKN|D Chain D, Crystal Structure Of The Fab Fragment Of The Anti-Egfr
Antibody 7a7
Length = 216
Score = 35.4 bits (80), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 35/141 (24%), Positives = 55/141 (39%), Gaps = 31/141 (21%)
Query: 145 LVVSEGQPVQLECFAGGHPTPR--ISW-------RRENNAILPTGGS------------- 182
++V G ++L C A G R +SW R E A + +GGS
Sbjct: 10 VLVKPGGSLKLSCAASGFTFSRYAMSWVRQTPEKRLEWVATISSGGSYSYYPDSVKGRFT 69
Query: 183 IYRGSI-----LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
I R ++ L++ + ED YYC ++G G+GT ++ P + P
Sbjct: 70 ISRDNVKNTLYLQMSSLRSEDTAMYYCARDSGGFAYWGQGTLVTVSAAKTTPPSVYPLAP 129
Query: 234 RLGQALQYDMDLECHVEAYPP 254
G + L C V+ Y P
Sbjct: 130 VCGDTTGSSVTLGCLVKGYFP 150
>pdb|1L6Z|A Chain A, Crystal Structure Of Murine Ceacam1a[1,4]: A Coronavirus
Receptor And Cell Adhesion Molecule In The Cea Family
Length = 216
Score = 35.4 bits (80), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 36/141 (25%), Positives = 53/141 (37%), Gaps = 3/141 (2%)
Query: 94 STYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
S +LL + I D G Y + + A V V +P + V E V
Sbjct: 69 SNGSLLFQMITMKDMGVYTLDMTDENYRRTQATVRFHVHQPVTQPFLQVTNTTVKELDSV 128
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIY--RGSILKIPQITKEDRGTYYCVAENGVG 211
L C + I W + ++ T SIL+I I +ED G Y C N V
Sbjct: 129 TLTCLSN-DIGANIQWLFNSQSLQLTERMTLSQNNSILRIDPIKREDAGEYQCEISNPVS 187
Query: 212 KGTRRNIAVEVEFAPVITVPK 232
+I +++ F P VP+
Sbjct: 188 VRRSNSIKLDIIFDPSRLVPR 208
>pdb|2ADF|L Chain L, Crystal Structure And Paratope Determination Of 82d6a3, An
Antithrombotic Antibody Directed Against The Von
Willebrand Factor A3-Domain
Length = 209
Score = 35.4 bits (80), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 47/225 (20%), Positives = 77/225 (34%), Gaps = 61/225 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------- 178
D+Q+ + P SL S G V + C A I+W + P
Sbjct: 1 DIQMTQSP-------SSLSASLGGKVTITCKASQDINKYIAWYQHKPGKGPRLLIHYTST 53
Query: 179 ---------TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAP 226
+G R I + ED TYYC+ + + G GT+ I + AP
Sbjct: 54 LQPGIPSRFSGSGSGRDYSFSISNLEPEDIATYYCLQYDNLRTFGGGTKLEIK-RADAAP 112
Query: 227 VITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLT 269
+++ P Q + C + + P I W +D++
Sbjct: 113 TVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK---- 168
Query: 270 NNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 169 -DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1RU9|H Chain H, Crystal Structure (A) Of U.V.-Irradiated Cationic
Cyclization Antibody 4c6 Fab At Ph 4.6 With A Data Set
Collected In-House.
pdb|1RUA|H Chain H, Crystal Structure (b) Of U.v.-irradiated Cationic
Cyclization Antibody 4c6 Fab At Ph 4.6 With A Data Set
Collected At Ssrl Beamline 11-1.
pdb|1RUL|H Chain H, Crystal Structure (d) Of U.v.-irradiated Cationic
Cyclization Antibody 4c6 Fab At Ph 5.6 With A Data Set
Collected At Ssrl Beamline 11-1
Length = 222
Score = 35.0 bits (79), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 31/74 (41%), Gaps = 7/74 (9%)
Query: 188 ILKIPQITKEDRGTYYCVA----ENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L++ +T ED TYYC + G G+GT ++ AP + P G
Sbjct: 80 FLQLNSVTTEDTATYYCAGLLWYDGGAGSWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTG 139
Query: 241 YDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 140 SSVTLGCLVKGYFP 153
>pdb|1NCW|H Chain H, Cationic Cyclization Antibody 4c6 In Complex With Benzoic
Acid
pdb|1ND0|B Chain B, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1ND0|D Chain D, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1ND0|F Chain F, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1ND0|H Chain H, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1RUK|H Chain H, Crystal Structure (C) Of Native Cationic Cyclization
Antibody 4c6 Fab At Ph 4.6 With A Data Set Collected At
Ssrl Beamline 9-1
pdb|1RUM|H Chain H, Crystal Structure (F) Of H2o2-Soaked Cationic Cyclization
Antibody 4c6 Fab At Ph 8.5 With A Data Set Collected At
Ssrl Beamline 9-1.
pdb|1RUP|H Chain H, Crystal Structure (g) Of Native Cationic Cyclization
Antibody 4c6 Fab At Ph 8.5 With A Data Set Collected At
Aps Beamline 19-id
Length = 222
Score = 35.0 bits (79), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 31/74 (41%), Gaps = 7/74 (9%)
Query: 188 ILKIPQITKEDRGTYYCVA----ENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L++ +T ED TYYC + G G+GT ++ AP + P G
Sbjct: 80 FLQLNSVTTEDTATYYCAGLLWYDGGAGSWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTG 139
Query: 241 YDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 140 SSVTLGCLVKGYFP 153
>pdb|3LEX|H Chain H, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 11f10 In Complex With Hiv-1 Gp41
pdb|3LEX|A Chain A, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 11f10 In Complex With Hiv-1 Gp41
Length = 221
Score = 35.0 bits (79), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 31/71 (43%), Gaps = 4/71 (5%)
Query: 188 ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L++ +T ED TY+C N + G+GT ++ AP + P G +
Sbjct: 80 FLQLHSVTPEDTATYFCAYGNYLPAYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSV 139
Query: 244 DLECHVEAYPP 254
L C V+ Y P
Sbjct: 140 TLGCLVKGYFP 150
>pdb|2B2X|L Chain L, Vla1 Rdeltah I-Domain Complexed With A Quadruple Mutant Of
The Aqc2 Fab
pdb|2B2X|M Chain M, Vla1 Rdeltah I-Domain Complexed With A Quadruple Mutant Of
The Aqc2 Fab
Length = 213
Score = 35.0 bits (79), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC +G G+GT+ I + AP +++ P Q
Sbjct: 72 LTISSLQPEDFATYYCQQWSGNPWTFGQGTKVEIK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1C12|A Chain A, Insight In Odorant Perception: The Crystal Structure And
Binding Characteristics Of Antibody Fragments Directed
Against The Musk Odorant Traseolide
Length = 214
Score = 35.0 bits (79), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 47/214 (21%), Positives = 74/214 (34%), Gaps = 57/214 (26%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILK---------- 190
S S+ VS G V + C A + I W ++ G IY G+ L+
Sbjct: 7 SPSSMSVSLGDTVSITCHASQGISSNIGWLQQKPG-KSFKGLIYHGTNLEDGVPSRFSGS 65
Query: 191 ---------IPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
I + ED YYCV G GT+ I + AP +++ P Q
Sbjct: 66 GSGADYSLTISSLESEDFADYYCVQYVQFPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQ 124
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 125 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 176
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 -------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2RCJ|C Chain C, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|D Chain D, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|G Chain G, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|H Chain H, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|K Chain K, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|L Chain L, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|O Chain O, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|P Chain P, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|S Chain S, Solution Structure Of Human Immunoglobulin M
pdb|2RCJ|T Chain T, Solution Structure Of Human Immunoglobulin M
Length = 523
Score = 35.0 bits (79), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 46/216 (21%), Positives = 82/216 (37%), Gaps = 30/216 (13%)
Query: 150 GQPVQLECFAGGHPTPRISWRRE-----------NNAILPTG-GSIYRGS------ILKI 191
GQ V + C + ++W ++ +A+ P+G + + GS L I
Sbjct: 15 GQRVTISCTGTSSGSITVNWYQQLPGMAPKLLIYRDAMRPSGVPTRFSGSKSGTSASLAI 74
Query: 192 PQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
+ ED YYC + N G GT+ + + + P +T+ P + L
Sbjct: 75 SGLEAEDESDYYCASWNSSDNSYVFGTGTKVTVLGQPKANPTVTLFPPSSEELQANKATL 134
Query: 246 ECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYI 304
C + + P A+ V K D V + S + + + + + + + SY
Sbjct: 135 VCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHRSYS 194
Query: 305 CRAANKLGTSEKTVELFESIIPVCPPQTQPSELLPL 340
C+ ++ T EKTV E C T+ + PL
Sbjct: 195 CQVTHEGSTVEKTVAPTE-----CSASTKGPSVFPL 225
>pdb|1CFS|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Unrelated Peptide
pdb|1CFT|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Unrelated D-Peptide
pdb|1CFN|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Related Peptide
pdb|1CFQ|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41
pdb|1HH6|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With A
Peptide
pdb|1HH9|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With A
Peptide
pdb|1HI6|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With A
Peptide
Length = 214
Score = 35.0 bits (79), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED G YYC+ + G GT+ ++ + AP +++ P Q
Sbjct: 73 LTISSLEYEDMGIYYCLQYDDFPLTFGAGTKLDLK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W ++D++ + YS+S
Sbjct: 132 VVCFLNNFYPKEINVKWKIDGSERQNGVLDSWTEQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1NCW|L Chain L, Cationic Cyclization Antibody 4c6 In Complex With Benzoic
Acid
pdb|1ND0|A Chain A, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1ND0|C Chain C, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1ND0|E Chain E, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1ND0|G Chain G, Cationic Cyclization Antibody 4c6 Complex With Transition
State Analog
pdb|1RUK|L Chain L, Crystal Structure (C) Of Native Cationic Cyclization
Antibody 4c6 Fab At Ph 4.6 With A Data Set Collected At
Ssrl Beamline 9-1
pdb|1RUP|L Chain L, Crystal Structure (g) Of Native Cationic Cyclization
Antibody 4c6 Fab At Ph 8.5 With A Data Set Collected At
Aps Beamline 19-id
Length = 219
Score = 35.0 bits (79), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCWQGTHFPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3G5Y|B Chain B, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 216
Score = 35.0 bits (79), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 31/71 (43%), Gaps = 4/71 (5%)
Query: 188 ILKIPQITKEDRGTYYCV-AENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L++ +T ED TYYC A G G+GT ++ AP + P G +
Sbjct: 80 FLQLNSVTVEDTATYYCATAGRGFPYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSV 139
Query: 244 DLECHVEAYPP 254
L C V+ Y P
Sbjct: 140 TLGCLVKGYFP 150
>pdb|1AQK|L Chain L, Three-Dimensional Structure Of A Human Fab With High
Affinity For Tetanus Toxoid
Length = 216
Score = 35.0 bits (79), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 35/141 (24%), Positives = 62/141 (43%), Gaps = 8/141 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L I + ED YYC + + G GTR + + + AP +T+ P +
Sbjct: 75 LAITGLQAEDEADYYCQSYDSSLSARFGGGTRLTVLGQPKAAPSVTLFPPSSEELQANKA 134
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQYG 301
L C + + P A+ V K D+ V + S + +++ ++ +T E+ + +
Sbjct: 135 TLVCLISDFYPGAVTVAWKADSSPVNAGVETTKPSK-QSNNKYAASSYLSLTPEQWKSHK 193
Query: 302 SYICRAANKLGTSEKTVELFE 322
SY C+ ++ T EKTV E
Sbjct: 194 SYSCQVTHEGSTVEKTVAPAE 214
>pdb|1YJD|L Chain L, Crystal Structure Of Human Cd28 In Complex With The Fab
Fragment Of A Mitogenic Antibody (5.11a1)
Length = 212
Score = 35.0 bits (79), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 47/228 (20%), Positives = 80/228 (35%), Gaps = 66/228 (28%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------- 178
D+Q+ + P SL S G + + C A + ++W ++ +P
Sbjct: 1 DIQMNQSP-------SSLSASLGDTITITCHASQNIYVWLNWYQQKPGNIPKLLIYKASN 53
Query: 179 ---------TGGSIYRGSILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVE 223
+G G L I + ED TYYC + G G GT+ I +
Sbjct: 54 LHTGVPSRFSGSGSGTGFTLTISSLQPEDIATYYC--QQGQTYPYTFGGGTKLEIK-RAD 110
Query: 224 FAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQ 266
AP +++ P Q + C + + P I W +D++
Sbjct: 111 AAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK- 169
Query: 267 VLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 ----DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|4HC1|L Chain L, Crystal Structure Of A Loop Deleted Mutant Of Human
Madcam-1 D1d2 Complexed With Fab 10g3
pdb|4HC1|N Chain N, Crystal Structure Of A Loop Deleted Mutant Of Human
Madcam-1 D1d2 Complexed With Fab 10g3
Length = 214
Score = 35.0 bits (79), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 48/219 (21%), Positives = 75/219 (34%), Gaps = 57/219 (26%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILK----- 190
++ S S+ VS G V C A I W ++ G IY G+ LK
Sbjct: 2 ILMTQSPSSMSVSLGDTVSFTCHASQGIGRNIGWLQQKPG-KSFKGLIYHGTNLKDGVPS 60
Query: 191 --------------IPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPK 232
I +I ED YYC+ G GT+ I + AP +++
Sbjct: 61 RFSGSGSGADYSLTISRIESEDFADYYCIQYVQFPYTFGGGTKLEIK-RADAAPTVSIFP 119
Query: 233 PRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYS 275
P Q + C + + P I W +D++ + YS
Sbjct: 120 PSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYS 174
Query: 276 ISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+S +T+ + E ++ SY C A +K TS
Sbjct: 175 MS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3BGF|L Chain L, X-Ray Crystal Structure Of The Sars Coronavirus Spike
Receptor Binding Domain In Complex With F26g19 Fab
pdb|3BGF|C Chain C, X-Ray Crystal Structure Of The Sars Coronavirus Spike
Receptor Binding Domain In Complex With F26g19 Fab
Length = 212
Score = 35.0 bits (79), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 49/221 (22%), Positives = 78/221 (35%), Gaps = 61/221 (27%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG---- 180
++ S SL S G+ V L C A + +SW +E + L +G
Sbjct: 2 ILMTQSPSSLSASLGERVSLTCRASQEISGYLSWLQEKPDGTIKRLIYAASTLDSGVPKR 61
Query: 181 ------GSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITV 230
GS Y L I + ED YYC+ G GT+ I + AP +++
Sbjct: 62 FSGSRSGSDYS---LTISSLESEDFADYYCLQYVSYPWTFGGGTKLEIK-RADAAPTVSI 117
Query: 231 PKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQH 273
P Q + C + + P I W +D++ +
Sbjct: 118 FPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DST 172
Query: 274 YSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
YS+S +T+ + E ++ SY C A +K TS
Sbjct: 173 YSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|6FAB|L Chain L, Three-Dimensional Structure Of Murine Anti-P-
Azophenylarsonate Fab 36-71. 1. X-Ray Crystallography,
Site-Directed Mutagenesis, And Modeling Of The Complex
With Hapten
Length = 214
Score = 35.0 bits (79), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED TY+C N + G GT+ I + AP +++ P Q
Sbjct: 73 LTISNLEQEDIATYFCQQGNALPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3BZ4|A Chain A, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3BZ4|C Chain C, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3BZ4|E Chain E, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3BZ4|G Chain G, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Decasaccharide
pdb|3C5S|A Chain A, Crystal Structure Of Monoclonal Fab F22-4 Specific For
Shigella Flexneri 2a O-Ag
pdb|3C5S|C Chain C, Crystal Structure Of Monoclonal Fab F22-4 Specific For
Shigella Flexneri 2a O-Ag
pdb|3C6S|A Chain A, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3C6S|C Chain C, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3C6S|E Chain E, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3C6S|G Chain G, Crystal Structure Of Fab F22-4 In Complex With A Shigella
Flexneri 2a O-Ag Pentadecasaccharide
pdb|3GGW|A Chain A, Crystal Structure Of Fab F22-4 In Complex With A
Carbohydrate-Mimetic Peptide
pdb|3GGW|C Chain C, Crystal Structure Of Fab F22-4 In Complex With A
Carbohydrate-Mimetic Peptide
Length = 219
Score = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+I ++ ED G YYC G GT+ I + AP +++ P Q
Sbjct: 78 LRISRVEAEDVGIYYCAHNVELPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2DDQ|H Chain H, Crystal Structure Of The Fab Fragment Of A R310 Antibody
Complexed With (R)-Hne-Histidine Adduct
Length = 213
Score = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 30/69 (43%), Gaps = 1/69 (1%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV-GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
+ +++ +T ED YYC G G+GT ++ AP + P G + L
Sbjct: 79 AYMELSSLTSEDSAVYYCAPYGGYWGQGTTVTVSSAKTTAPSVYPLAPVCGDTTGSSVTL 138
Query: 246 ECHVEAYPP 254
C V+ Y P
Sbjct: 139 GCLVKGYFP 147
>pdb|1JFQ|L Chain L, Antigen-Binding Fragment Of The Murine Anti-Phenylarsonate
Antibody 36-71, "fab 36-71"
Length = 215
Score = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED TY+C N + G GT+ I + AP +++ P Q
Sbjct: 73 LTISNLEQEDIATYFCQQGNALPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1BOG|A Chain A, Anti-P24 (Hiv-1) Fab Fragment Cb41 Complexed With An
Epitope-Homologous Peptide
Length = 214
Score = 35.0 bits (79), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED G YYC+ + G GT+ ++ + AP +++ P Q
Sbjct: 73 LTISSLEYEDMGIYYCLQYDDFPLTFGAGTKLDLK-RADAAPTVSIFPPSSEQLTSGTAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W ++D++ + YS+S
Sbjct: 132 VVCFLNNFYPKEINVKWKIDGSERQNGVLDSWTEQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2VC2|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist L-739758
pdb|2VDK|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDL|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDM|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist Tirofiban
pdb|2VDN|L Chain L, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist Eptifibatide
pdb|2VDO|L Chain L, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen Gamma
Chain Peptide, Hhlggakqagdv
pdb|2VDP|L Chain L, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen Gamma
Chain Peptide,Lggakqagdv
pdb|2VDQ|L Chain L, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Hhlggakqrgdv
pdb|2VDR|L Chain L, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Lggakqrgdv
pdb|3NID|F Chain F, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NID|L Chain L, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NIF|F Chain F, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIF|L Chain L, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|F Chain F, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|L Chain L, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3T3M|F Chain F, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3M|L Chain L, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|F Chain F, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|L Chain L, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
Length = 214
Score = 35.0 bits (79), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 47/216 (21%), Positives = 76/216 (35%), Gaps = 61/216 (28%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISW--RRENNAILPTGGSIYRGS----------- 187
S S+ VS G V + C A + I W ++ + + G IY G+
Sbjct: 7 SPSSMSVSLGDTVSITCHASQGISSNIGWLQQKPGKSFM---GLIYYGTNLVDGVPSRFS 63
Query: 188 --------ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRL 235
L I + ED YYCV + G GT+ I + AP +++ P
Sbjct: 64 GSGSGADYSLTISSLDSEDFADYYCVQYAQLPYTFGGGTKLEIK-RADAAPTVSIFPPSS 122
Query: 236 GQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISH 278
Q + C + + P I W +D++ + YS+S
Sbjct: 123 EQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS- 176
Query: 279 FATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ---------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1IQW|L Chain L, Crystal Structure Of The Fab Fragment Of The Mouse Anti-
Human Fas Antibody Hfe7a
Length = 218
Score = 35.0 bits (79), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED TYYC N G GT+ I + AP +++ P Q
Sbjct: 77 LNIHPVEEEDAATYYCQQSNEDPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|1RIH|L Chain L, Crystal Structure Of Fab 14f7, A Unique Anti-Tumor
Antibody Specific For N-Glycolyl Gm3
Length = 214
Score = 35.0 bits (79), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 46/213 (21%), Positives = 77/213 (36%), Gaps = 61/213 (28%)
Query: 144 SLVVSEGQPVQLECFAG-------------GHPTPRISWRRENNAI--LPTGGSIYRGS- 187
+L V+ G V C A H +PR+ + + +I +P S + GS
Sbjct: 10 TLSVTPGDSVSFSCRASQSISNNLHWYQQRTHESPRLLIKYASQSISGIP---SRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED G Y+C N G GT+ + + AP +++ P Q
Sbjct: 67 SGTDFTLSISSVETEDFGMYFCQQSNRWPLTFGAGTKLELK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1CGS|L Chain L, Local And Transmitted Conformational Changes On
Complexation Of An Anti-Sweetener Fab
pdb|2CGR|L Chain L, Local And Transmitted Conformational Changes On
Complexation Of An Anti-Sweetener Fab
pdb|1YNK|L Chain L, Identification Of Key Residues Of The Nc6.8 Fab Antibody
Fragment Binding To Synthetic Sweeteners: Crystal
Structure Of Nc6.8 Co-Crystalized With High Potency
Sweetener Compound Sc45647
pdb|1YNL|L Chain L, Identification Of Key Residues Of The Nc6.8 Fab Antibody
Fragment Binding To Synthetic Sweeterners: Crystal
Structure Of Nc6.8 Co-Crystalized With High Potency
Sweetener Compound Sc45647
Length = 219
Score = 35.0 bits (79), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQGTHVPYTFGGGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2DM2|A Chain A, Solution Structure Of The First Ig Domain Of Human
Palladin
Length = 110
Score = 35.0 bits (79), Expect = 0.077, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 31/72 (43%), Gaps = 6/72 (8%)
Query: 147 VSEGQPVQLECFAGGHPTPRISWRRENNAILPTGG--SIYRG----SILKIPQITKEDRG 200
+ EG PV C G+P P+I W ++ I P +I R L T +D G
Sbjct: 20 IFEGMPVTFTCRVAGNPKPKIYWFKDGKQISPKSDHYTIQRDLDGTCSLHTTASTLDDDG 79
Query: 201 TYYCVAENGVGK 212
Y +A N G+
Sbjct: 80 NYTIMAANPQGR 91
Score = 28.9 bits (63), Expect = 4.5, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 27/66 (40%), Gaps = 5/66 (7%)
Query: 247 CHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICR 306
C V P P I W K D +Q+ + HY+I TT + + G+Y
Sbjct: 30 CRVAGNPKPKIYWFK-DGKQISPKSDHYTIQRDLDGTCSLHTTASTLDDD----GNYTIM 84
Query: 307 AANKLG 312
AAN G
Sbjct: 85 AANPQG 90
>pdb|3TT1|L Chain L, Crystal Structure Of Leut In The Outward-Open Conformation
In Complex With Fab
pdb|3TT1|M Chain M, Crystal Structure Of Leut In The Outward-Open Conformation
In Complex With Fab
Length = 218
Score = 35.0 bits (79), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED TYYC N G GT+ I + AP +++ P Q
Sbjct: 77 LNIHPVEEEDAATYYCQQSNEDPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3HNS|L Chain L, Cs-35 Fab Complex With Oligoarabinofuranosyl
Hexasaccharide
pdb|3HNT|L Chain L, Cs-35 Fab Complex With A Linear, Terminal
Oligoarabinofuranosyl Tetrasaccharide From
Lipoarabinomannan
pdb|3HNV|L Chain L, Cs-35 Fab Complex With Oligoarabinofuranosyl
Tetrasaccharide (Branch Part Of Hexasaccharide)
Length = 214
Score = 35.0 bits (79), Expect = 0.077, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED GTY+C + G GT+ I + AP +++ P Q
Sbjct: 73 LTISNLEQEDIGTYFCHQDTKPPYTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1RU9|L Chain L, Crystal Structure (A) Of U.V.-Irradiated Cationic
Cyclization Antibody 4c6 Fab At Ph 4.6 With A Data Set
Collected In-House.
pdb|1RUA|L Chain L, Crystal Structure (b) Of U.v.-irradiated Cationic
Cyclization Antibody 4c6 Fab At Ph 4.6 With A Data Set
Collected At Ssrl Beamline 11-1.
pdb|1RUL|L Chain L, Crystal Structure (d) Of U.v.-irradiated Cationic
Cyclization Antibody 4c6 Fab At Ph 5.6 With A Data Set
Collected At Ssrl Beamline 11-1.
pdb|1RUM|L Chain L, Crystal Structure (F) Of H2o2-Soaked Cationic Cyclization
Antibody 4c6 Fab At Ph 8.5 With A Data Set Collected At
Ssrl Beamline 9-1
Length = 219
Score = 35.0 bits (79), Expect = 0.078, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 57/138 (41%), Gaps = 19/138 (13%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCWQGTHFPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI--VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRV---ITIEKRQ 299
+ C + + P I W ++ + + + + T + D+T + +T+ K +
Sbjct: 137 VVCFLNNFYPKDINVKW------KIDGSERQNGVLNSXTDQDSKDSTYSMSSTLTLTKDE 190
Query: 300 Y---GSYICRAANKLGTS 314
Y SY C A +K TS
Sbjct: 191 YERHNSYTCEATHKTSTS 208
>pdb|4EOW|L Chain L, Crystal Structure Of A Disease-Associated Anti-Human
Gm-Csf Autoantibody Mb007
Length = 216
Score = 35.0 bits (79), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 31/137 (22%), Positives = 56/137 (40%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC + G GT+ + + + AP +T+ P +
Sbjct: 74 LAISGLRSEDEADYYCATWDDSLSGRLFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANK 133
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|2HFE|B Chain B, Rb+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
Length = 211
Score = 34.7 bits (78), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 48/212 (22%), Positives = 74/212 (34%), Gaps = 61/212 (28%)
Query: 145 LVVSEGQPVQLECFA---------------GGHPTPRISWRRENNAILPTGGSIYRGS-- 187
L VS G+ V C A G P I + E+ + +P S + GS
Sbjct: 11 LSVSPGERVSFSCRASQSIGTDIHWYQQRTNGSPRLLIKYASESISGIP---SRFSGSGS 67
Query: 188 ----ILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
L I + ED YYC N G GT+ I + AP +++ P Q
Sbjct: 68 GTDFTLSINSVESEDIANYYCQQSNRWPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLT 126
Query: 240 QYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATA 282
+ C + + P I W +D++ + YS+S
Sbjct: 127 SGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----- 176
Query: 283 DEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 -----STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1K4D|B Chain B, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
K+
pdb|1K4C|B Chain B, Potassium Channel Kcsa-Fab Complex In High Concentration
Of K+
pdb|1R3I|L Chain L, Potassium Channel Kcsa-Fab Complex In Rb+
pdb|1R3J|A Chain A, Potassium Channel Kcsa-Fab Complex In High Concentration
Of Tl+
pdb|1R3K|A Chain A, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
Tl+
pdb|1R3L|A Chain A, Potassium Channel Kcsa-Fab Complex In Cs+
pdb|1S5H|A Chain A, Potassium Channel Kcsa-Fab Complex T75c Mutant In K+
pdb|2BOB|B Chain B, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetrabutylammonium (Tba)
pdb|2BOC|B Chain B, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetraethylarsonium (Teas)
pdb|1ZWI|B Chain B, Structure Of Mutant Kcsa Potassium Channel
pdb|2ATK|B Chain B, Structure Of A Mutant Kcsa K+ Channel
pdb|2H8P|B Chain B, Structure Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HG5|B Chain B, Cs+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HJF|B Chain B, Potassium Channel Kcsa-Fab Complex With Tetrabutylammonium
(Tba)
pdb|2IH1|B Chain B, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2IH3|B Chain B, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2DWD|B Chain B, Crystal Structure Of Kcsa-Fab-Tba Complex In Tl+
pdb|2DWE|B Chain B, Crystal Structure Of Kcsa-Fab-Tba Complex In Rb+
pdb|2HVJ|B Chain B, Crystal Structure Of Kcsa-fab-tba Complex In Low K+
pdb|2HVK|B Chain B, Crystal Structure Of The Kcsa-Fab-Tba Complex In High K+
pdb|2ITC|B Chain B, Potassium Channel Kcsa-Fab Complex In Sodium Chloride
pdb|2ITD|B Chain B, Potassium Channel Kcsa-Fab Complex In Barium Chloride
pdb|2NLJ|A Chain A, Potassium Channel Kcsa(M96v)-Fab Complex In Kcl
pdb|2P7T|B Chain B, Crystal Structure Of Kcsa Mutant
pdb|2JK5|B Chain B, Potassium Channel Kcsa In Complex With Tetrabutylammonium
In High K
pdb|2W0F|B Chain B, Potassium Channel Kcsa-Fab Complex With Tetraoctylammonium
pdb|3GB7|B Chain B, Potassium Channel Kcsa-Fab Complex In Li+
pdb|3IGA|B Chain B, Potassium Channel Kcsa-Fab Complex In Li+ And K+
pdb|3F5W|B Chain B, Kcsa Potassium Channel In The Open-Inactivated State With
32 A Opening At T112
pdb|3F7V|B Chain B, Kcsa Potassium Channel In The Open-Inactivated State With
23 A Opening At T112
pdb|3F7Y|B Chain B, Kcsa Potassium Channel In The Partially Open State With 17
A Opening At T112
pdb|3FB5|B Chain B, Kcsa Potassium Channel In The Partially Open State With
14.5 A Opening At T112
pdb|3FB6|B Chain B, Kcsa Potassium Channel In The Partially Open State With 16
A Opening At T112
pdb|3FB8|B Chain B, Kcsa Potassium Channel In The Open-Conductive State With
20 At T112 In The Presence Of Rb+ Ion
pdb|3HPL|B Chain B, Kcsa E71h-F103a Mutant In The Closed State
pdb|3FB7|B Chain B, Open Kcsa Potassium Channel In The Presence Of Rb+ Ion
pdb|3OR6|B Chain B, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71q
pdb|3OR7|B Chain B, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71i
pdb|3OGC|B Chain B, Kcsa E71a Variant In Presence Of Na+
pdb|3STL|B Chain B, Kcsa Potassium Channel Mutant Y82c With Cadmium Bound
pdb|3STZ|B Chain B, Kcsa Potassium Channel Mutant Y82c With Nitroxide Spin
Label
Length = 212
Score = 34.7 bits (78), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 48/212 (22%), Positives = 74/212 (34%), Gaps = 61/212 (28%)
Query: 145 LVVSEGQPVQLECFA---------------GGHPTPRISWRRENNAILPTGGSIYRGS-- 187
L VS G+ V C A G P I + E+ + +P S + GS
Sbjct: 11 LSVSPGERVSFSCRASQSIGTDIHWYQQRTNGSPRLLIKYASESISGIP---SRFSGSGS 67
Query: 188 ----ILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
L I + ED YYC N G GT+ I + AP +++ P Q
Sbjct: 68 GTDFTLSINSVESEDIANYYCQQSNRWPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLT 126
Query: 240 QYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATA 282
+ C + + P I W +D++ + YS+S
Sbjct: 127 SGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----- 176
Query: 283 DEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 -----STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2G2R|L Chain L, Green-Fluorescent Antibody 11g10 In Complex With Its
Hapten (Nitro-Stilbene Derivative)
pdb|2G2R|A Chain A, Green-Fluorescent Antibody 11g10 In Complex With Its
Hapten (Nitro-Stilbene Derivative)
Length = 219
Score = 34.7 bits (78), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C+ G GT+ + + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGIYFCLQSTHFPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPRDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2LQR|A Chain A, Nmr Structure Of Ig3 Domain Of Palladin
Length = 108
Score = 34.7 bits (78), Expect = 0.082, Method: Composition-based stats.
Identities = 22/72 (30%), Positives = 31/72 (43%), Gaps = 6/72 (8%)
Query: 147 VSEGQPVQLECFAGGHPTPRISWRRENNAILPTGG--SIYRG----SILKIPQITKEDRG 200
+ EG PV C G+P P+I W ++ I P +I R L T +D G
Sbjct: 19 IFEGMPVTFTCRVAGNPKPKIYWFKDGKQISPKSDHYTIQRDLDGTCSLHTTASTLDDDG 78
Query: 201 TYYCVAENGVGK 212
Y +A N G+
Sbjct: 79 NYTIMAANPQGR 90
Score = 28.9 bits (63), Expect = 4.8, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 27/66 (40%), Gaps = 5/66 (7%)
Query: 247 CHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICR 306
C V P P I W K D +Q+ + HY+I TT + + G+Y
Sbjct: 29 CRVAGNPKPKIYWFK-DGKQISPKSDHYTIQRDLDGTCSLHTTASTLDDD----GNYTIM 83
Query: 307 AANKLG 312
AAN G
Sbjct: 84 AANPQG 89
>pdb|3RNQ|B Chain B, Crystal Structure Of The Complex Between The Extracellular
Domains Of Mouse Pd-1 Mutant And Pd-L2
Length = 201
Score = 34.7 bits (78), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 43/155 (27%), Positives = 57/155 (36%), Gaps = 25/155 (16%)
Query: 37 DIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTY 96
D+G +V L+C D+ DR + TE I + D+ T
Sbjct: 14 DVGSSVSLEC------DF-------DRRECTELEGIRASLQKVENDTSLQSERATLLEEQ 60
Query: 97 TLLVK------DIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEG 150
L K +Q D+G YRC VI G L V+ TR L V
Sbjct: 61 LPLGKALFHIPSVQVRDSGQYRCLVICGAAWDYKY---LTVKVKASYMRIDTRILEVPGT 117
Query: 151 QPVQLECFAGGHPTPRISWRRENNAILPTGGSIYR 185
VQL C A G+P +SW+ N +P S R
Sbjct: 118 GEVQLTCQARGYPLAEVSWQ---NVSVPANTSHIR 149
>pdb|3BP5|B Chain B, Crystal Structure Of The Mouse Pd-1 And Pd-L2 Complex
pdb|3BP6|B Chain B, Crystal Structure Of The Mouse Pd-1 Mutant And Pd-L2
Complex
Length = 202
Score = 34.7 bits (78), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 36/86 (41%), Gaps = 6/86 (6%)
Query: 100 VKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFA 159
+ +Q D+G YRC VI G L V+ TR L V VQL C A
Sbjct: 71 IPSVQVRDSGQYRCLVICGAAWDYKY---LTVKVKASYMRIDTRILEVPGTGEVQLTCQA 127
Query: 160 GGHPTPRISWRRENNAILPTGGSIYR 185
G+P +SW+ N +P S R
Sbjct: 128 RGYPLAEVSWQ---NVSVPANTSHIR 150
>pdb|3H0T|A Chain A, Hepcidin-Fab Complex
Length = 216
Score = 34.7 bits (78), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 31/135 (22%), Positives = 57/135 (42%), Gaps = 5/135 (3%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED YYC + + G GT+ + + + AP +T+ P +
Sbjct: 76 LTISGLKTEDEADYYCQSYDSSNVVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKAT 135
Query: 245 LECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSY 303
L C + + P A+ V K D+ V + + S + + + + + + + SY
Sbjct: 136 LVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSY 195
Query: 304 ICRAANKLGTSEKTV 318
C+ ++ T EKTV
Sbjct: 196 SCQVTHEGSTVEKTV 210
>pdb|4HPO|L Chain L, Crystal Structure Of Rv144-elicited Antibody Ch58 In
Complex With V2 Peptide
pdb|4HQQ|L Chain L, Crystal Structure Of Rv144-elicited Antibody Ch58
Length = 216
Score = 34.7 bits (78), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 31/135 (22%), Positives = 57/135 (42%), Gaps = 5/135 (3%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED YYC + + G GT+ + + + AP +T+ P +
Sbjct: 76 LTISGLKTEDEADYYCQSYDNSSWVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKAT 135
Query: 245 LECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSY 303
L C + + P A+ V K D+ V + + S + + + + + + + SY
Sbjct: 136 LVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSY 195
Query: 304 ICRAANKLGTSEKTV 318
C+ ++ T EKTV
Sbjct: 196 SCQVTHEGSTVEKTV 210
>pdb|1F97|A Chain A, Soluble Part Of The Junction Adhesion Molecule From Mouse
Length = 212
Score = 34.7 bits (78), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 43/192 (22%), Positives = 73/192 (38%), Gaps = 27/192 (14%)
Query: 147 VSEGQPVQLECFAGGHPTPRISWR---RENNAILPTGGSI---------YRGSILKIPQI 194
V E + ++L C G +PR+ W+ A++ I + S + +
Sbjct: 13 VPENESIKLTCTYSGFSSPRVEWKFVQGSTTALVCYNSQITAPYADRVTFSSSGITFSSV 72
Query: 195 TKEDRGTYYC-VAENGVGKGTRRNIAVEVEF---APVITVPKP-RLGQALQYDMDLEC-H 248
T++D G Y C V+E G +I + V P I+VP +G L C
Sbjct: 73 TRKDNGEYTCMVSEEGGQNYGEVSIHLTVLVPPSKPTISVPSSVTIGNRAV----LTCSE 128
Query: 249 VEAYPPPAIVWIKEDTQQVLTNNQH---YSISHFATADEFTDTTIRVITIEKRQYGSYIC 305
+ PP W K+ + + + + S F + D +T G Y C
Sbjct: 129 HDGSPPSEYSWFKDGISMLTADAKKTRAFMNSSFTIDPKSGDLIFDPVTAFDS--GEYYC 186
Query: 306 RAANKLGTSEKT 317
+A N GT+ ++
Sbjct: 187 QAQNGYGTAMRS 198
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 40/149 (26%), Positives = 53/149 (35%), Gaps = 17/149 (11%)
Query: 85 FAIRYDTASSTYTLLVKDIQETDAGYYRCQVII-GINNKISAEVDLQVRRPPVISDNSTR 143
+A R +SS T + D G Y C V G N + L V PP S
Sbjct: 56 YADRVTFSSSGITF--SSVTRKDNGEYTCMVSEEGGQNYGEVSIHLTVLVPPSKPTISVP 113
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYR-------------GSILK 190
S V + V G P SW ++ ++L R G ++
Sbjct: 114 SSVTIGNRAVLTCSEHDGSPPSEYSWFKDGISMLTADAKKTRAFMNSSFTIDPKSGDLIF 173
Query: 191 IPQITKEDRGTYYCVAENGVGKGTRRNIA 219
P +T D G YYC A+NG G R A
Sbjct: 174 DP-VTAFDSGEYYCQAQNGYGTAMRSEAA 201
>pdb|1Q9O|A Chain A, S45-18 Fab Unliganded
pdb|1Q9O|C Chain C, S45-18 Fab Unliganded
pdb|1Q9W|A Chain A, S45-18 Fab Pentasaccharide Bisphosphate Complex
pdb|1Q9W|C Chain C, S45-18 Fab Pentasaccharide Bisphosphate Complex
Length = 219
Score = 34.7 bits (78), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 46/215 (21%), Positives = 72/215 (33%), Gaps = 60/215 (27%)
Query: 144 SLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENNAILP---T 179
SL VS G+ V + C + G P I W + +P T
Sbjct: 10 SLAVSAGEKVTMSCKSSQSLLNSRTRKSYLAWYQQKPGQFPKLLIYWAATRESGVPDRFT 69
Query: 180 GGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLG 236
G L I + ED YYC + G GT+ I + AP +++ P
Sbjct: 70 GSGSGTDFTLTISSVQAEDLAVYYCKQSYNLRTFGGGTKLEIK-RADAAPTVSIFPPSSE 128
Query: 237 QALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHF 279
Q + C + + P I W +D++ + YS+S
Sbjct: 129 QLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS-- 181
Query: 280 ATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 --------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3LEY|L Chain L, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 6a7 In Complex With Hiv-1 Gp41
Length = 219
Score = 34.7 bits (78), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC G GT+ I + AP +++ P Q
Sbjct: 78 LKINRVEAEDLGIYYCWQGTHFPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1HKF|A Chain A, The Three Dimensional Structure Of Nk Cell Receptor Nkp44,
A Triggering Partner In Natural Cytotoxicity
Length = 122
Score = 34.7 bits (78), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 34/70 (48%)
Query: 58 WMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVII 117
W K V L S+ + SRF I D + +T+ + D++E D+G+Y C++
Sbjct: 46 WCKEASALVCIRLVTSSKPRTMAWTSRFTIWDDPDAGFFTVTMTDLREEDSGHYWCRIYR 105
Query: 118 GINNKISAEV 127
+N +S V
Sbjct: 106 PSDNSVSKSV 115
>pdb|4H20|H Chain H, Crystal Structure And Computational Modeling Of The Fab
Fragment From The Protective Anti-ricin Monoclonal
Antibody Rac18
Length = 220
Score = 34.7 bits (78), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 39/164 (23%), Positives = 64/164 (39%), Gaps = 46/164 (28%)
Query: 126 EVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTP--RISWRRENNA-------- 175
EV LQ P ++V G V++ C A G+ ++W +++
Sbjct: 1 EVQLQQSGP----------VLVKPGASVKMSCKASGYTFTDYYVNWVKQSRGKSLEWLGL 50
Query: 176 ILPT-GGSIY----RG------------SILKIPQITKEDRGTYYCVAENGV-------- 210
I+P+ GG+ Y RG + +++ +T ED YYC A G+
Sbjct: 51 IIPSNGGTTYNQKFRGKATLTVDKSSSTAYMELNSLTSEDSAVYYC-ARRGLTGALFAYW 109
Query: 211 GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPP 254
G+GT ++ AP + P G + L C V+ Y P
Sbjct: 110 GQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFP 153
>pdb|2AI0|L Chain L, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|M Chain M, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|N Chain N, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|O Chain O, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
Length = 217
Score = 34.7 bits (78), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+I ++ ED G YYC + + G GT+ + + AP +++ P Q
Sbjct: 78 LRISRVEAEDLGVYYCFQGSHIPWTFGGGTKLE-SKRADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|4FQJ|L Chain L, Influenza BFLORIDA42006 HEMAGGLUTININ FAB CR8071 COMPLEX
Length = 216
Score = 34.7 bits (78), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 31/137 (22%), Positives = 56/137 (40%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC + G GT+ + + + AP +T+ P +
Sbjct: 74 LAISGLQSEDEADYYCATWDDSLDGWVFGGGTKLTVLRQPKAAPSVTLFPPSSEELQANK 133
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|2Y6S|C Chain C, Structure Of An Ebolavirus-Protective Antibody In Complex
With Its Mucin-Domain Linear Epitope
pdb|2Y6S|L Chain L, Structure Of An Ebolavirus-Protective Antibody In Complex
With Its Mucin-Domain Linear Epitope
Length = 217
Score = 34.7 bits (78), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYC--VAE--NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED TYYC +AE G GT+ I + AP +++ P Q
Sbjct: 77 LNIAPVEEEDAATYYCQHIAELTRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3G5Z|B Chain B, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 217
Score = 34.7 bits (78), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 4/75 (5%)
Query: 188 ILKIPQITKEDRGTYYCV-AENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L++ +T ED TYYC A G G+GT ++ P + P G +
Sbjct: 80 FLQLNSVTPEDTATYYCATAGRGFPYWGQGTLVTVSAAKTTPPSVYPLAPGCGDTTGSSV 139
Query: 244 DLECHVEAYPPPAIV 258
L C V+ Y P ++
Sbjct: 140 TLGCLVKGYFPESVT 154
>pdb|2A1W|L Chain L, Anti-Cocaine Antibody 7.5.21, Crystal Form I
pdb|2A1W|M Chain M, Anti-Cocaine Antibody 7.5.21, Crystal Form I
Length = 216
Score = 34.7 bits (78), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+I ++ ED G YYC + + G GT+ + + AP +++ P Q
Sbjct: 78 LRISRVEAEDLGVYYCFQGSHIPWTFGGGTKLE-SKRADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1EAP|A Chain A, Crystal Structure Of A Catalytic Antibody With A Serine
Protease Active Site
Length = 213
Score = 34.7 bits (78), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 49/202 (24%), Positives = 76/202 (37%), Gaps = 34/202 (16%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN------------NAILPTGGSIYRGS- 187
S SL S G V + C A I W + + +LP S +RGS
Sbjct: 7 SPSSLSASLGGKVTITCKASQDIKKYIGWYQHKPGKGPRLLIHYTSTLLPGIPSRFRGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
I + D TYYC+ + G GT+ I + AP +++ P Q
Sbjct: 67 SGRDYSFSISNLEGGDIATYYCLQYYNLRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLT 125
Query: 240 QYDMDLECHVEAYPPPAI--VWI---KEDTQQVLTN--NQHYSISHFATADEFTDTTIRV 292
+ C + + P I W E Q VL + +Q S ++ + +T+ +
Sbjct: 126 SGGASVVCFLNNFYPKDINVKWKIDGSERAQGVLNSWTDQDSKDSTYSMS-----STLTL 180
Query: 293 ITIEKRQYGSYICRAANKLGTS 314
E ++ SY C A +K TS
Sbjct: 181 TKDEYERHNSYTCEATHKTSTS 202
>pdb|4GAG|L Chain L, Structure Of The Broadly Neutralizing Antibody Ap33 In
Complex With Its Hcv Epitope (E2 Residues 412-423)
pdb|4GAJ|L Chain L, Structure Of The Broadly Neutralizing Antibody Ap33 In
Complex With Its Hcv Epitope (E2 Residues 411-424)
pdb|4GAY|L Chain L, Structure Of The Broadly Neutralizing Antibody Ap33
pdb|4GAY|B Chain B, Structure Of The Broadly Neutralizing Antibody Ap33
Length = 218
Score = 34.7 bits (78), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 48/214 (22%), Positives = 76/214 (35%), Gaps = 59/214 (27%)
Query: 144 SLVVSEGQPVQLECFAG----GHPTPRISWRREN---------------NAILPT--GGS 182
SL VS GQ + C A G+ + W ++ N+ +P GS
Sbjct: 10 SLAVSLGQRATISCRASESVDGYGNSFLHWFQQKPGQPPKLLIYLASNLNSGVPARFSGS 69
Query: 183 IYRGSI-LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
R L I + +D TYYC N G GT+ I + AP +++ P Q
Sbjct: 70 GSRTDFTLTIDPVEADDAATYYCQQNNVDPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQ 128
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 129 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 180
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 -------STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|2A77|L Chain L, Anti-cocaine Antibody 7.5.21, Crystal Form Ii
Length = 216
Score = 34.7 bits (78), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 57/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+I ++ ED G YYC + + G GT+ + + AP +++ P Q
Sbjct: 78 LRISRVEAEDLGVYYCFQGSHIPWTFGGGTKLE-SKRADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1EGJ|H Chain H, Domain 4 Of The Beta Common Chain In Complex With An
Antibody
Length = 220
Score = 34.7 bits (78), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 32/73 (43%), Gaps = 7/73 (9%)
Query: 189 LKIPQITKEDRGTYYCVAENGV-------GKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
+++ ++T ED YYC +G+ G+GT ++ AP + P G
Sbjct: 81 MQLSRLTSEDSAVYYCSRGDGIHGGFAYWGQGTTVTVSSAKTTAPSVYPLAPVCGDTTGS 140
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 SVTLGCLVKGYFP 153
>pdb|3MLY|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With A Ur29 V3 Peptide
pdb|3MLY|M Chain M, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With A Ur29 V3 Peptide
pdb|3MLZ|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With A Vi191 V3 Peptide
Length = 214
Score = 34.7 bits (78), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 31/138 (22%), Positives = 57/138 (41%), Gaps = 6/138 (4%)
Query: 187 SILKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
+ L I + D YYC +G G GT+ + + + AP +T+ P +
Sbjct: 72 ATLGIIGLQTGDEAEYYCATWDGSLRTVFGGGTKLTVLSQPKAAPSVTLFPPSSEELQAN 131
Query: 242 DMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 132 KATLVCLISDFYPGAVTVAWKADSSPVRAGVETTTPSKQSNNKYAASSYLSLTPEQWKSH 191
Query: 301 GSYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 192 RSYSCQVTHEGSTVEKTV 209
>pdb|1IAI|M Chain M, Idiotype-Anti-Idiotype Fab Complex
pdb|1AIF|L Chain L, Anti-Idiotypic Fab 409.5.3 (Igg2a) Fab From Mouse
pdb|1AIF|A Chain A, Anti-Idiotypic Fab 409.5.3 (Igg2a) Fab From Mouse
Length = 215
Score = 34.7 bits (78), Expect = 0.096, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC N G GT+ I + AP +++ P Q
Sbjct: 74 LTISSMEAEDAATYYCQQWNSYPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 132
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 133 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 177
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|2XKN|A Chain A, Crystal Structure Of The Fab Fragment Of The Anti-Egfr
Antibody 7a7
pdb|2XKN|C Chain C, Crystal Structure Of The Fab Fragment Of The Anti-Egfr
Antibody 7a7
Length = 223
Score = 34.7 bits (78), Expect = 0.097, Method: Compositional matrix adjust.
Identities = 47/213 (22%), Positives = 80/213 (37%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V + C A + ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTISCRASQDISNYLNWYQQKPDGTVKLLIYYTSRLHSGVTSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + +ED TY+C N + G GT+ I + AP +++ P Q
Sbjct: 67 SGTDYSLTISNLEQEDIATYFCQQGNTLPWTFGGGTKVEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1CT8|A Chain A, Catalytic Antibody 7c8 Complex
pdb|1CT8|C Chain C, Catalytic Antibody 7c8 Complex
Length = 214
Score = 34.7 bits (78), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED G Y+C +G G GT+ + + AP +++ P Q
Sbjct: 73 LSINSVETEDFGIYFCHQTHGRPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>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 = 34.7 bits (78), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 30/118 (25%), Positives = 51/118 (43%), Gaps = 6/118 (5%)
Query: 90 DTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSE 149
D SST T+ +I DAG Y+C V + A V++++ + ++ N+ E
Sbjct: 58 DDDSSTLTIYNANID--DAGIYKCVVTAEDGTQSEATVNVKIFQ-KLMFKNAPTPQEFKE 114
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAILPTGGS---IYRGSILKIPQITKEDRGTYYC 204
G+ + C P I W+ + ++ + + L+I I K D GTY C
Sbjct: 115 GEDAVIVCDVVSSLPPTIIWKHKGRDVILKKDVRFIVLSNNYLQIRGIKKTDEGTYRC 172
Score = 32.0 bits (71), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 41/160 (25%), Positives = 62/160 (38%), Gaps = 24/160 (15%)
Query: 147 VSEGQPVQLEC-FAGGHPTPRISWRRENNAIL-PTGGSIY------RGSILKIPQITKED 198
+S G+ C AG ISW N L P I S L I +D
Sbjct: 14 ISVGESKFFLCQVAGDAKDKDISWFSPNGEKLSPNQQRISVVWNDDDSSTLTIYNANIDD 73
Query: 199 RGTYYCV--AENGVGKGTRRNIAV--EVEFAPVITVPKPRLGQALQYDMDLECHVEAYPP 254
G Y CV AE+G N+ + ++ F T + + G+ D + C V + P
Sbjct: 74 AGIYKCVVTAEDGTQSEATVNVKIFQKLMFKNAPTPQEFKEGE----DAVIVCDVVSSLP 129
Query: 255 PAIVW--------IKEDTQQVLTNNQHYSISHFATADEFT 286
P I+W +K+D + ++ +N + I DE T
Sbjct: 130 PTIIWKHKGRDVILKKDVRFIVLSNNYLQIRGIKKTDEGT 169
>pdb|3QUM|L Chain L, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
pdb|3QUM|M Chain M, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
Length = 219
Score = 34.7 bits (78), Expect = 0.098, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+I ++ ED G YYC+ G GT+ I + AP +++ P Q
Sbjct: 78 LRISRVEAEDVGVYYCMQHLEYPVTFGAGTKVEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1WVZ|A Chain A, Solution Structure Of The D2 Domain Of The Fibroblast
Growth Factor
Length = 104
Score = 34.7 bits (78), Expect = 0.10, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 29/74 (39%), Gaps = 5/74 (6%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP---TGGSIYRGS--ILKIPQITKE 197
R V V+ C AGG+P P + W + GG R L + +
Sbjct: 20 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 79
Query: 198 DRGTYYCVAENGVG 211
D+G Y CV EN G
Sbjct: 80 DKGNYTCVVENEYG 93
>pdb|1NDM|B Chain B, Crystal Structure Of Fab Fragment Of Antibody Hyhel-26
Complexed With Lysozyme
Length = 210
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCV--AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L++ +T ED TYYC + G+GT ++ AP + P G + L
Sbjct: 80 LQLNSVTTEDTATYYCARWEMDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 139
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 140 CLVKGYFP 147
>pdb|3MLX|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With An Mn V3 Peptide
pdb|3MLX|M Chain M, Crystal Structure Of Anti-Hiv-1 V3 Fab 3074 In Complex
With An Mn V3 Peptide
Length = 211
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 31/138 (22%), Positives = 57/138 (41%), Gaps = 6/138 (4%)
Query: 187 SILKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
+ L I + D YYC +G G GT+ + + + AP +T+ P +
Sbjct: 71 ATLGIIGLQTGDEAEYYCATWDGSLRTVFGGGTKLTVLSQPKAAPSVTLFPPSSEELQAN 130
Query: 242 DMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 131 KATLVCLISDFYPGAVTVAWKADSSPVRAGVETTTPSKQSNNKYAASSYLSLTPEQWKSH 190
Query: 301 GSYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 191 RSYSCQVTHEGSTVEKTV 208
>pdb|3M8O|L Chain L, Human Iga1 Fab Fragment
pdb|3QNX|A Chain A, Orthorhombic Form Of Human Iga1 Fab Fragment, Sharing Same
Fv As Igg
pdb|3QNY|A Chain A, Monoclinic Form Of Human Iga1 Fab Fragment, Sharing Same
Fv As Igg
pdb|3QNY|C Chain C, Monoclinic Form Of Human Iga1 Fab Fragment, Sharing Same
Fv As Igg
pdb|3QNZ|A Chain A, Orthorhombic Form Of Igg1 Fab Fragment (in Complex With
Antigenic Tubulin Peptide) Sharing Same Fv As Iga
pdb|3QO0|A Chain A, Monoclinic Form Of Igg1 Fab Fragment (In Complex With
Antigenic Peptide) Sharing Same Fv As Iga
pdb|3QO1|A Chain A, Monoclinic Form Of Igg1 Fab Fragment (apo Form) Sharing
Same Fv As Iga
Length = 219
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 49/178 (27%), Positives = 73/178 (41%), Gaps = 15/178 (8%)
Query: 134 PPVISDNSTRSLVVSEGQPVQLECFA---GGHPTPRISWRRENNAILP---TGGSIYRGS 187
P IS S++SL+ +G LE + G P P I + +P +G
Sbjct: 18 PASISCRSSQSLLRRDGHN-DLEWYLQKPGQSPQPLIYLGSTRASGVPDRFSGSGSGTDF 76
Query: 188 ILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
LKI ++ ED GTYYC+ G+GTR I V AP + + P Q
Sbjct: 77 TLKIIRVEAEDAGTYYCMQNKQTPLTFGQGTRLEIKRTVA-APSVFIFPPSDEQLKSGTA 135
Query: 244 DLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 136 SVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|3EOT|L Chain L, Crystal Structure Of Lac031, An Engineered Anti-Vla1 Fab
Length = 215
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC +G G+GT+ I + AP +++ P Q
Sbjct: 74 LTISSLQPEDFATYYCQQISGNPWTFGQGTKVEIK-RADAAPTVSIFPPSSEQLTSGGAS 132
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 133 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 177
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|1YNT|A Chain A, Structure Of The Immunodominant Epitope Displayed By The
Surface Antigen 1 (Sag1) Of Toxoplasma Gondii Complexed
To A Monoclonal Antibody
pdb|1YNT|C Chain C, Structure Of The Immunodominant Epitope Displayed By The
Surface Antigen 1 (Sag1) Of Toxoplasma Gondii Complexed
To A Monoclonal Antibody
Length = 213
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 47/213 (22%), Positives = 80/213 (37%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V + C A + ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTISCRASQDISNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + +ED TY+C N + G GT+ I + AP +++ P Q
Sbjct: 67 SGTDYSLTISNLEQEDIATYFCQQGNTLPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1ZOX|A Chain A, Clm-1 Mouse Myeloid Receptor Extracellular Domain
Length = 113
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 18/80 (22%), Positives = 41/80 (51%), Gaps = 1/80 (1%)
Query: 40 GTVELKCSVQYA-QDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G++ ++C +DY W + + + L + S +++ +R +IR + +T+
Sbjct: 17 GSLTVQCRYTSGWKDYKKYWCQGVPQRSCKTLVETDASEQLVKKNRVSIRDNQRDFIFTV 76
Query: 99 LVKDIQETDAGYYRCQVIIG 118
++D++ +DAG Y C + G
Sbjct: 77 TMEDLRMSDAGIYWCGITKG 96
>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 = 34.3 bits (77), Expect = 0.11, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 29/74 (39%), Gaps = 5/74 (6%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP---TGGSIYRGS--ILKIPQITKE 197
R V V+ C AGG+P P + W + GG R L + +
Sbjct: 21 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 80
Query: 198 DRGTYYCVAENGVG 211
D+G Y CV EN G
Sbjct: 81 DKGNYTCVVENEYG 94
>pdb|2OZ4|L Chain L, Structural Plasticity In Igsf Domain 4 Of Icam-1 Mediates
Cell Surface Dimerization
Length = 214
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 49/226 (21%), Positives = 78/226 (34%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFA---------------GGHPTPRISWRRE 172
D+ + + P I L VS G+ V C A G P I + E
Sbjct: 1 DILLTQSPAI-------LSVSPGERVSFSCRASQSIGTSIHWFQQRINGSPRLLIEYASE 53
Query: 173 NNAILPT---GGSIYRGSILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFA 225
+ + +P+ G L I + ED YYC N G GT+ I + A
Sbjct: 54 SISGIPSRFSGSGSGTDFTLTINSVESEDIADYYCQQSNVWPFTFGSGTKLEIK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2A6D|L Chain L, Crystal Structure Analysis Of The Anti-Arsonate Germline
Antibody 36-65 In Complex With A Phage Display Derived
Dodecapeptide Rlliadppspre
pdb|2A6D|A Chain A, Crystal Structure Analysis Of The Anti-Arsonate Germline
Antibody 36-65 In Complex With A Phage Display Derived
Dodecapeptide Rlliadppspre
pdb|2A6I|A Chain A, Crystal Structure Analysis Of The Anti-Arsonate Germline
Antibody 36-65 In Complex With A Phage Display Derived
Dodecapeptide Klasipthtspl
pdb|2A6J|L Chain L, Crystal Structure Analysis Of The Anti-Arsonate Germline
Antibody 36- 65
pdb|2A6J|A Chain A, Crystal Structure Analysis Of The Anti-Arsonate Germline
Antibody 36- 65
pdb|2A6K|A Chain A, Crystal Structure Analysis Of The Germline Antibody 36-65
Fab In Complex With The Dodecapeptide Slgdnltnhnlr
pdb|2A6K|L Chain L, Crystal Structure Analysis Of The Germline Antibody 36-65
Fab In Complex With The Dodecapeptide Slgdnltnhnlr
Length = 214
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 47/213 (22%), Positives = 80/213 (37%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V + C A + ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTISCRASQDISNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + +ED TY+C N + G GT+ I + AP +++ P Q
Sbjct: 67 SGTDYSLTISNLEQEDIATYFCQQGNTLPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>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 = 34.3 bits (77), Expect = 0.11, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 29/74 (39%), Gaps = 5/74 (6%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP---TGGSIYRGS--ILKIPQITKE 197
R V V+ C AGG+P P + W + GG R L + +
Sbjct: 16 RLHAVPAANTVKFRCPAGGNPMPTMRWLKNGKEFKQEHRIGGYKVRNQHWSLIMESVVPS 75
Query: 198 DRGTYYCVAENGVG 211
D+G Y CV EN G
Sbjct: 76 DKGNYTCVVENEYG 89
>pdb|1U9K|A Chain A, Crystal Structure Of Mouse Triggering Receptor Expressed
On Myeloid Cells 1 (Trem-1) At 1.76
pdb|1U9K|B Chain B, Crystal Structure Of Mouse Triggering Receptor Expressed
On Myeloid Cells 1 (Trem-1) At 1.76
Length = 114
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 44/93 (47%), Gaps = 11/93 (11%)
Query: 39 GGTVELKCS---VQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDS-----RFAIRYD 90
G T+ +KC ++YA W ++ K EPL + R S +F +++D
Sbjct: 14 GQTLTVKCPFNIMKYANSQKA-WQRLPDGK--EPLTLVVTQRPFTRPSEVHMGKFTLKHD 70
Query: 91 TASSTYTLLVKDIQETDAGYYRCQVIIGINNKI 123
+ + + + D+Q TD+G YRC + N+ +
Sbjct: 71 PSEAMLQVQMTDLQVTDSGLYRCVIYHPPNDPV 103
>pdb|1MH5|A Chain A, The Structure Of The Complex Of The Fab Fragment Of The
Esterolytic Antibody Ms6-164 And A Transition-State
Analog
pdb|1MH5|L Chain L, The Structure Of The Complex Of The Fab Fragment Of The
Esterolytic Antibody Ms6-164 And A Transition-State
Analog
Length = 219
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+I ++ ED G YYC+ G GT+ + + AP +++ P Q
Sbjct: 78 LRISRVEAEDVGVYYCLQHLEYPFTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2ZJS|L Chain L, Crystal Structure Of Secye Translocon From Thermus
Thermophilus With A Fab Fragment
Length = 214
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 47/213 (22%), Positives = 80/213 (37%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V + C A + ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTISCRASQDISNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + +ED TY+C N + G GT+ I + AP +++ P Q
Sbjct: 67 SGTDYSLTISNLEQEDIATYFCQQGNTLPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2R0W|H Chain H, Pfa2 Fab Complexed With Abeta1-8
Length = 223
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 31/77 (40%), Gaps = 10/77 (12%)
Query: 188 ILKIPQITKEDRGTYYCV--AENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI + D TYYCV A N V G+GT ++ AP + P G
Sbjct: 81 FLKITSVDTADTATYYCVRRAHNVVLGDWFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGD 140
Query: 238 ALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 TTGSSVTLGCLVKGYFP 157
>pdb|1MJJ|A Chain A, High Resolution Crystal Structure Of The Complex Of The
Fab Fragment Of Esterolytic Antibody Ms6-12 And A
Transition- State Analog
pdb|1MJJ|L Chain L, High Resolution Crystal Structure Of The Complex Of The
Fab Fragment Of Esterolytic Antibody Ms6-12 And A
Transition- State Analog
pdb|1MJU|L Chain L, 1.22 Angstrom Resolution Crystal Structure Of The Fab
Fragment Of Esterolytic Antibody Ms6-12
Length = 219
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+I ++ ED G YYC+ G GT+ + + AP +++ P Q
Sbjct: 78 LRISRVEAEDVGVYYCLQHLEYPFTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1BBJ|L Chain L, Crystal Structure Of A Chimeric Fab' Fragment Of An
Antibody Binding Tumour Cells
pdb|1BBJ|A Chain A, Crystal Structure Of A Chimeric Fab' Fragment Of An
Antibody Binding Tumour Cells
Length = 211
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 50/196 (25%), Positives = 76/196 (38%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------- 178
D+Q+ + P SL VS G+ V + C A + ++W ++ P
Sbjct: 1 DIQMTQSPA-------SLSVSVGETVTITCRASENIYSNLAWYQQKQGKSPQLLVYAATN 53
Query: 179 -TGG--SIYRGS------ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFA 225
G S + GS LKI + ED G+YYC G G GTR I + A
Sbjct: 54 LADGVPSRFSGSGSGTQYSLKINSLQSEDFGSYYCQHFWGTPYTFGGGTRLEIK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 PTVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS 171
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 172 -TYSLSSTLTLSKADY 186
>pdb|1MJ8|L Chain L, High Resolution Crystal Structure Of The Fab Fragment Of
The Esterolytic Antibody Ms6-126
Length = 219
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+I ++ ED G YYC+ G GT+ + + AP +++ P Q
Sbjct: 78 LRISRVEAEDVGVYYCLQHLEYPFTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1H3P|L Chain L, Structural Characterisation Of A Monoclonal Antibody
Specific For The Pres1 Region Of The Hepatitis B Virus
Length = 240
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 47/223 (21%), Positives = 75/223 (33%), Gaps = 60/223 (26%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 IVMTQSPSSLAVSVGEKVTMSCRSSQSLLNTRTRKSYLAWFQQKPGQSPKMLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC + G GT+ I + AP +
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCKQSYSLYTFGGGTKLEIK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNN 271
++ P Q + C + + P I W +D++ +
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----D 175
Query: 272 QHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 STYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 208
>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 = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 31/126 (24%), Positives = 51/126 (40%), Gaps = 5/126 (3%)
Query: 98 LLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLEC 157
L + +Q +D G Y+C V +G +S + + P + V+ P L C
Sbjct: 70 LRITSLQLSDTGQYQCLVFLGHQTFVSQPGYVGLEGLPYFLEEP-EDRTVAANTPFNLSC 128
Query: 158 FAGGHPTP-RISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVGKGTRR 216
A G P P + W ++ + G + S L +P + K ++ C A N G T R
Sbjct: 129 QAQGPPEPVDLLWLQDAVPLATAPGHGPQRS-LHVPGLNKTS--SFSCEAHNAKGVTTSR 185
Query: 217 NIAVEV 222
+ V
Sbjct: 186 TATITV 191
>pdb|1QGC|4 Chain 4, Structure Of The Complex Of An Fab Fragment Of A
Neutralizing Antibody With Foot And Mouth Disease Virus
Length = 438
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 45/198 (22%), Positives = 70/198 (35%), Gaps = 50/198 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +D TYYC N V G GT+ ++ + AP +++ P Q
Sbjct: 77 LTIDPVEADDVATYYCQQSNEVPLTFGAGTKLDLK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS---------EKTVELFESIIPVCPPQTQPSELL 338
+T+ + E ++ SY C A +K TS E V L ES + +P L
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTSPIVKSFNRNEXEVMLVESGGGL----VKPGGSL 236
Query: 339 PLRNVNMAVIFAEQPTSW 356
L IF SW
Sbjct: 237 KLSCTASGFIFNRCAMSW 254
>pdb|2OLD|A Chain A, Bence Jones Kwr Protein- Immunoglobulin Light Chain Dimer,
P3(2)21 Crystal Form
pdb|2OLD|B Chain B, Bence Jones Kwr Protein- Immunoglobulin Light Chain Dimer,
P3(2)21 Crystal Form
pdb|2OMB|A Chain A, Bence Jones Kwr Protein- Immunoglobulin Light Chain Dimer,
P3(1)21 Crystal Form
pdb|2OMB|B Chain B, Bence Jones Kwr Protein- Immunoglobulin Light Chain Dimer,
P3(1)21 Crystal Form
pdb|2OMB|C Chain C, Bence Jones Kwr Protein- Immunoglobulin Light Chain Dimer,
P3(1)21 Crystal Form
pdb|2OMB|D Chain D, Bence Jones Kwr Protein- Immunoglobulin Light Chain Dimer,
P3(1)21 Crystal Form
pdb|2OMN|A Chain A, Bence Jones Kwr Protein- Immunoglobulin Light Chain Dimer,
P4(3)2(1)2 Crystal Form
pdb|2OMN|B Chain B, Bence Jones Kwr Protein- Immunoglobulin Light Chain Dimer,
P4(3)2(1)2 Crystal Form
Length = 217
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 34/141 (24%), Positives = 59/141 (41%), Gaps = 7/141 (4%)
Query: 189 LKIPQITKEDRGTYYCVA-ENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC + +G G GTR + + + AP +T+ P +
Sbjct: 75 LTISGLQAEDEADYYCSSYASGSTPRIFGGGTRLTVLGQPKAAPSVTLFPPSSEELQANK 134
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 135 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHR 194
Query: 302 SYICRAANKLGTSEKTVELFE 322
SY C+ ++ T EKTV E
Sbjct: 195 SYSCQVTHEGSTVEKTVAPTE 215
>pdb|1GGI|L Chain L, Crystal Structure Of An Hiv-1 Neutralizing Antibody 50.1
In Complex With Its V3 Loop Peptide Antigen
pdb|1GGI|M Chain M, Crystal Structure Of An Hiv-1 Neutralizing Antibody 50.1
In Complex With Its V3 Loop Peptide Antigen
Length = 218
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 49/215 (22%), Positives = 76/215 (35%), Gaps = 61/215 (28%)
Query: 144 SLVVSEGQPVQLECFAG------------------GHPTPRISWRRENNAI--LP---TG 180
SL VS GQ + C A G P P++ R +N I +P +G
Sbjct: 10 SLAVSLGQRATISCRASESVDDDGNSFLHWYQQKPGQP-PKLLIYRSSNLISGIPDRFSG 68
Query: 181 GSIYRGSILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLG 236
L I + +D TYYC N G GT+ I + AP +++ P
Sbjct: 69 SGSRTDFTLTINPVEADDVATYYCQQSNEDPLTFGAGTKLEIK-RADAAPTVSIFPPSSE 127
Query: 237 QALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHF 279
Q + C + + P I W +D++ + YS+S
Sbjct: 128 QLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS-- 180
Query: 280 ATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 --------STLTLTKDEYERHNSYTCEATHKTSTS 207
>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 = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 31/132 (23%), Positives = 55/132 (41%), Gaps = 7/132 (5%)
Query: 194 ITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLEC 247
+ ED YYC A +G G GT + + + AP +T+ P + L C
Sbjct: 75 VQAEDEAVYYCGAYDGSAGGGIFGAGTTLTVLGQPKAAPSVTLFPPSSEELQANKATLVC 134
Query: 248 HVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICR 306
+ + P A+ V K D+ V + + S + + + + + + + SY C+
Sbjct: 135 LISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRSYSCQ 194
Query: 307 AANKLGTSEKTV 318
++ T EKTV
Sbjct: 195 VTHEGSTVEKTV 206
>pdb|1NAK|L Chain L, Igg1 Fab Fragment (83.1) Complex With 16-Residue Peptide
(Residues 304-321 Of Hiv-1 Gp120 (Mn Isolate))
pdb|1NAK|M Chain M, Igg1 Fab Fragment (83.1) Complex With 16-Residue Peptide
(Residues 304-321 Of Hiv-1 Gp120 (Mn Isolate))
Length = 219
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
KI ++ ED G Y+C G GT+ I + AP +++ P Q
Sbjct: 78 FKISRVEAEDLGVYFCFQTTHDPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3OZ9|L Chain L, Crystal Structure Of Anti-Gp41 Fab Nc-1
Length = 211
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 35/154 (22%), Positives = 57/154 (37%), Gaps = 39/154 (25%)
Query: 181 GSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQ 237
G+ Y L I + ED YYC +G G GT+ I + AP +++ P Q
Sbjct: 67 GTFYS---LTISSVEAEDAADYYCHQWSGFYTFGGGTKLEIQ-RADAAPTVSIFPPSSEQ 122
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 123 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 174
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 175 -------STLTLTKDEYERHNSYTCEATHKTSTS 201
>pdb|3BQU|C Chain C, Crystal Structure Of The 2f5 Fab'-3h6 Fab Complex
Length = 233
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 42/210 (20%), Positives = 74/210 (35%), Gaps = 55/210 (26%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRR------------ENNAILPTGGSIYRGS---- 187
SL +S G+ V + C ++W + + N + P S + S
Sbjct: 32 SLSMSIGEKVTIRCITSTDIDDDMNWYQQKPGEPPRLLISDGNTLRPGVPSRFSSSGYGT 91
Query: 188 --ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
+ I + ED YYC+ + + G GT I + AP +++ P Q
Sbjct: 92 DFVFTIENMLSEDVADYYCLQSDNLPYTFGGGTNLEIK-RADAAPTVSIFPPSSEQLTSG 150
Query: 242 DMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADE 284
+ C + + P I W +D++ + YS+S
Sbjct: 151 GASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS------- 198
Query: 285 FTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 199 ---STLTLTKDEYERHNSYTCEATHKTSTS 225
>pdb|1N64|L Chain L, Crystal Structure Analysis Of The Immunodominant Antigenic
Site On Hepatitis C Virus Protein Bound To Mab 19d9d6
pdb|1NLB|L Chain L, Crystal Structure Of Anti-Hcv Monoclonal Antibody 19d9d6
pdb|1XCQ|A Chain A, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|C Chain C, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|E Chain E, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCQ|G Chain G, Complex Hcv Core-Fab 19d9d6-Protein L Mutant
(D55a,L57h,Y64w) In Space Group P21
pdb|1XCT|A Chain A, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (D55a, L57h,
Y64w) In Space Group P21212
pdb|1XCT|C Chain C, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (D55a, L57h,
Y64w) In Space Group P21212
pdb|1XF5|A Chain A, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (H74c,
Y64w)in Space Group P21212
pdb|1XF5|C Chain C, Complex Hcv Core-Fab 19d9d6-Protein L Mutant (H74c,
Y64w)in Space Group P21212
pdb|1YMH|A Chain A, Anti-hcv Fab 19d9d6 Complexed With Protein L (ppl) Mutant
A66w
pdb|1YMH|C Chain C, Anti-hcv Fab 19d9d6 Complexed With Protein L (ppl) Mutant
A66w
Length = 220
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 46/224 (20%), Positives = 76/224 (33%), Gaps = 61/224 (27%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 IVMSQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKVLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFAPV 227
+ +P TG L I + ED+ YYC + G GT+ + + AP
Sbjct: 62 SGVPDRFTGRGSGTDFTLTISSVQAEDQAVYYCKQAYIPPLTFGAGTKLELK-RADAAPT 120
Query: 228 ITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTN 270
+++ P Q + C + + P I W +D++
Sbjct: 121 VSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK----- 175
Query: 271 NQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 209
>pdb|1GGB|L Chain L, Major Antigen-Induced Domain Rearrangements In An Antibody
pdb|1GGC|L Chain L, Major Antigen-Induced Domain Rearrangements In An Antibody
Length = 215
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 49/215 (22%), Positives = 76/215 (35%), Gaps = 61/215 (28%)
Query: 144 SLVVSEGQPVQLECFAG------------------GHPTPRISWRRENNAI--LP---TG 180
SL VS GQ + C A G P P++ R +N I +P +G
Sbjct: 10 SLAVSLGQRATISCRASESVDDDGNSFLHWYQQKPGQP-PKLLIYRSSNLISGIPDRFSG 68
Query: 181 GSIYRGSILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLG 236
L I + +D TYYC N G GT+ I + AP +++ P
Sbjct: 69 SGSRTDFTLTINPVEADDVATYYCQQSNEDPLTFGAGTKLEIK-RADAAPTVSIFPPSSE 127
Query: 237 QALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHF 279
Q + C + + P I W +D++ + YS+S
Sbjct: 128 QLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS-- 180
Query: 280 ATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 --------STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3MCK|H Chain H, Crystal Structure Of Anti-Beta-Amyloid Antibody C705
pdb|3MCK|B Chain B, Crystal Structure Of Anti-Beta-Amyloid Antibody C705
Length = 228
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 21/77 (27%), Positives = 29/77 (37%), Gaps = 10/77 (12%)
Query: 188 ILKIPQITKEDRGTYYCVAENGV----------GKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI + D TYYC +G G+GT ++ AP + P G
Sbjct: 81 FLKITSVDTTDTATYYCTRSSGSIVIATGFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGD 140
Query: 238 ALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 TTGSSVTLGCLVKGYFP 157
>pdb|2GSI|A Chain A, Crystal Structure Of A Murine Fab In Complex With An 11
Residue Peptide Derived From Staphylococcal Nuclease
pdb|2GSI|C Chain C, Crystal Structure Of A Murine Fab In Complex With An 11
Residue Peptide Derived From Staphylococcal Nuclease
pdb|2GSI|E Chain E, Crystal Structure Of A Murine Fab In Complex With An 11
Residue Peptide Derived From Staphylococcal Nuclease
pdb|2GSI|G Chain G, Crystal Structure Of A Murine Fab In Complex With An 11
Residue Peptide Derived From Staphylococcal Nuclease
Length = 215
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 48/214 (22%), Positives = 75/214 (35%), Gaps = 59/214 (27%)
Query: 144 SLVVSEGQPVQLECFAG------------------GHPTPRISWRREN-NAILP---TGG 181
SL VS GQP + C A G P R+ + N + +P +G
Sbjct: 10 SLAVSLGQPATISCGASKSVRTSGYSYMDWNQQKPGQPPRRLIYLVSNLESGVPARFSGS 69
Query: 182 SIYRGSILKIPQITKEDRGTYYCVA----ENGVGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
L I + +ED TYYC G GT+ I + AP +++ P Q
Sbjct: 70 GSGTDFTLNIHPVEEEDAATYYCSHIRELPRSSGGGTKLEIK-RADAAPTVSIFPPSSEQ 128
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 129 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 180
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 -------STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|4GMS|L Chain L, Crystal Structure Of Heterosubtypic Fab S1391 IN COMPLEX
WITH Influenza A H3 Hemagglutinin
pdb|4GMS|M Chain M, Crystal Structure Of Heterosubtypic Fab S1391 IN COMPLEX
WITH Influenza A H3 Hemagglutinin
pdb|4GMS|N Chain N, Crystal Structure Of Heterosubtypic Fab S1391 IN COMPLEX
WITH Influenza A H3 Hemagglutinin
pdb|4GMT|L Chain L, Crystal Structure Of Heterosubtypic Fab S1391
pdb|4GMT|M Chain M, Crystal Structure Of Heterosubtypic Fab S1391
Length = 214
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 43/218 (19%), Positives = 74/218 (33%), Gaps = 55/218 (25%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S + + S G V + C A + ++W +E P
Sbjct: 2 IVMTQSQKFMSTSVGDRVSVTCKASQNVDTNVAWYQEKPGQSPKTLIYSASNRYSGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
TG + L I + ED Y+C N G GT+ I + AP +++ P
Sbjct: 62 FTGSASGTDFTLTITNVQSEDLAEYFCQQYNSYPYTFGGGTKLEIK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 175
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 176 S----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1MHH|A Chain A, Antibody-Antigen Complex
pdb|1MHH|C Chain C, Antibody-Antigen Complex
Length = 220
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 46/224 (20%), Positives = 76/224 (33%), Gaps = 61/224 (27%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 IVMSQSPSSLAVSAGEKVTMSCKSSQSLLNSRTRKNYLAWYQQKPGQSPKVLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFAPV 227
+ +P TG L I + ED+ YYC + G GT+ + + AP
Sbjct: 62 SGVPDRFTGRGSGTDFTLTISSVQAEDQAVYYCKQAYIPPLTFGAGTKLELK-RADAAPT 120
Query: 228 ITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTN 270
+++ P Q + C + + P I W +D++
Sbjct: 121 VSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK----- 175
Query: 271 NQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 209
>pdb|3MLR|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ny5 V3 Peptide
pdb|3MLS|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Mab 2557 Fab In Complex
With A Hiv- 1 Gp120 V3 Mimotope
pdb|3MLS|M Chain M, Crystal Structure Of Anti-Hiv-1 V3 Mab 2557 Fab In Complex
With A Hiv- 1 Gp120 V3 Mimotope
pdb|3MLS|N Chain N, Crystal Structure Of Anti-Hiv-1 V3 Mab 2557 Fab In Complex
With A Hiv- 1 Gp120 V3 Mimotope
pdb|3MLS|O Chain O, Crystal Structure Of Anti-Hiv-1 V3 Mab 2557 Fab In Complex
With A Hiv- 1 Gp120 V3 Mimotope
pdb|3MLT|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ug1033 V3 Peptide
pdb|3MLT|A Chain A, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ug1033 V3 Peptide
pdb|3MLT|D Chain D, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ug1033 V3 Peptide
pdb|3MLT|G Chain G, Crystal Structure Of Anti-Hiv-1 V3 Fab 2557 In Complex
With A Ug1033 V3 Peptide
Length = 219
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 45/208 (21%), Positives = 74/208 (35%), Gaps = 33/208 (15%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
S+ VS GQ + C +SW + P +G +
Sbjct: 9 SVSVSPGQTASISCSGDKLDDKYVSWYYQRPGQSPVLLMYQDFKRPSGIPERLSGSKSGK 68
Query: 186 GSILKIPQITKEDRGTYYCVA---ENGV-----------GKGTRRNIAVEVEFAPVITVP 231
+ L I D G YYC A GV G GTR + + + AP +T+
Sbjct: 69 TATLTISGTQSLDEGDYYCQAWDASTGVSGGGTKLTVLFGDGTRLTVLGQPKAAPSVTLF 128
Query: 232 KPRLGQALQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTI 290
P + L C + + P A+ V K D+ V + + S + + +
Sbjct: 129 PPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYL 188
Query: 291 RVITIEKRQYGSYICRAANKLGTSEKTV 318
+ + + + SY C+ ++ T EKTV
Sbjct: 189 SLTPEQWKSHKSYSCQVTHEGSTVEKTV 216
>pdb|2R15|A Chain A, Crystal Structure Of The Myomesin Domains 12 And 13
pdb|2R15|B Chain B, Crystal Structure Of The Myomesin Domains 12 And 13
Length = 212
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 31/75 (41%), Gaps = 5/75 (6%)
Query: 145 LVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGG-----SIYRGSILKIPQITKEDR 199
+ + EG+ + L C G P P +SW + A+ T R + I ++ D
Sbjct: 127 VTIQEGKALNLTCNVWGDPPPEVSWLKNEKALAQTDHCNLKFEAGRTAYFTINGVSTADS 186
Query: 200 GTYYCVAENGVGKGT 214
G Y V +N G T
Sbjct: 187 GKYGLVVKNKYGSET 201
Score = 31.2 bits (69), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 39/81 (48%), Gaps = 8/81 (9%)
Query: 243 MDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGS 302
++L C+V PPP + W+K ++ L H ++ A + T V T + +YG
Sbjct: 135 LNLTCNVWGDPPPEVSWLK--NEKALAQTDHCNLKFEAGRTAYF-TINGVSTADSGKYGL 191
Query: 303 YICRAANKLG--TSEKTVELF 321
+ NK G TS+ TV +F
Sbjct: 192 VV---KNKYGSETSDFTVSVF 209
>pdb|1FOR|L Chain L, Structure Determination Of An Fab Fragment That
Neutralizes Human Rhinovirus And Analysis Of The
Fab-Virus Complex
Length = 210
Score = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 72 LTISRMEAEDAATYYCQQRSSYPITFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|2V7H|A Chain A, Crystal Structure Of An Immunogen Specific Anti-
Mannopyranoside Monoclonal Antibody Fab Fragment
pdb|2V7H|L Chain L, Crystal Structure Of An Immunogen Specific Anti-
Mannopyranoside Monoclonal Antibody Fab Fragment
Length = 214
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 47/213 (22%), Positives = 79/213 (37%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V + C A ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTISCRASQDINNYLNWYQQKPDGTVKILIYYTSNLHSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + +ED TY+C N + G GT+ I + AP +++ P Q
Sbjct: 67 SGTDYSLTISNLEQEDIATYFCQQGNTLPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSARQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3MBX|L Chain L, Crystal Structure Of Chimeric Antibody X836
Length = 220
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 46/217 (21%), Positives = 77/217 (35%), Gaps = 43/217 (19%)
Query: 125 AEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFA---GGHPTPRISWRRENNAILP--- 178
+ + + V +S S++SL+ + Q L + G P I W + +P
Sbjct: 9 SSLAVSVGEKVTMSCKSSQSLLYNNNQKNYLAWYQQKPGQSPKLLIYWASTRESGVPDRF 68
Query: 179 TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPR 234
TG L I + ED YYC G GT+ I + AP +++ P
Sbjct: 69 TGSGSGTDFTLTISSVKAEDLAVYYCQQYYSYPFTFGSGTKLEIK-RADAAPTVSIFPPS 127
Query: 235 LGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSIS 277
Q + C + + P I W +D++ + YS+S
Sbjct: 128 SEQLTSGGASVVCFLNNFYPRDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS 182
Query: 278 HFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 183 ----------STLTLTKDEYERHNSYTCEATHKTSTS 209
>pdb|1UB5|L Chain L, Crystal Structure Of Antibody 19g2 With Hapten At 100k
pdb|1UB5|B Chain B, Crystal Structure Of Antibody 19g2 With Hapten At 100k
Length = 214
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 34/148 (22%), Positives = 57/148 (38%), Gaps = 39/148 (26%)
Query: 189 LKIPQITKEDRGTYYCVAEN-----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L+I ++ ED G YYC A+N G GT+ I + AP +++ P Q
Sbjct: 78 LRISRVEAEDVGVYYC-AQNLELPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGA 135
Query: 244 DLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFT 286
+ C + + P I W +D++ + YS+S
Sbjct: 136 SVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--------- 181
Query: 287 DTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ Y C A +K TS
Sbjct: 182 -STLTLTKDEYERHNGYTCEATHKTSTS 208
>pdb|1YQV|H Chain H, The Crystal Structure Of The Antibody Fab Hyhel5 Complex
With Lysozyme At 1.7a Resolution
Length = 215
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 33/139 (23%), Positives = 51/139 (36%), Gaps = 37/139 (26%)
Query: 150 GQPVQLECFAGGH-------------PTPRISWRRENNAILPTGGSI-----YRG----- 186
G V++ C A G+ P + W E ILP GS ++G
Sbjct: 15 GASVKISCKASGYTFSDYWIEWVKQRPGHGLEWIGE---ILPGSGSTNYHERFKGKATFT 71
Query: 187 -------SILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRL 235
+ +++ +T ED G YYC+ N G G+GT ++ P + P
Sbjct: 72 ADTSSSTAYMQLNSLTSEDSGVYYCLHGNYDFDGWGQGTTLTVSSAKTTPPSVYPLAPGS 131
Query: 236 GQALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 132 AAQTNSMVTLGCLVKGYFP 150
>pdb|4FFZ|L Chain L, Crystal Structure Of Denv1-E111 Fab Fragment Bound To
Denv-1 Diii (Western Pacific-74 Strain).
pdb|4FFZ|Y Chain Y, Crystal Structure Of Denv1-E111 Fab Fragment Bound To
Denv-1 Diii (Western Pacific-74 Strain)
Length = 216
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +D TYYC N G GT+ I + AP +++ P Q
Sbjct: 77 LTIDSVETDDAATYYCQQNNEDPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3H42|L Chain L, Crystal Structure Of Pcsk9 In Complex With Fab From Ldlr
Competitive Antibody
Length = 217
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 63/138 (45%), Gaps = 9/138 (6%)
Query: 189 LKIPQITKEDRGTYYC------VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC ++ + G GT+ + + + AP +T+ P +
Sbjct: 75 LAITGLQAEDEADYYCQSYDSSLSGSVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANK 134
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQY 300
L C + + P A+ V K D+ V + + S + +++ ++ +T E+ + +
Sbjct: 135 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSN-NKYAASSYLSLTPEQWKSH 193
Query: 301 GSYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 RSYSCQVTHEGSTVEKTV 211
>pdb|2G5B|A Chain A, Crystal Structure Of The Anti-Bax Monoclonal Antibody 6a7
And A Bax Peptide.
pdb|2G5B|C Chain C, Crystal Structure Of The Anti-Bax Monoclonal Antibody 6a7
And A Bax Peptide.
pdb|2G5B|E Chain E, Crystal Structure Of The Anti-Bax Monoclonal Antibody 6a7
And A Bax Peptide.
pdb|2G5B|G Chain G, Crystal Structure Of The Anti-Bax Monoclonal Antibody 6a7
And A Bax Peptide
Length = 217
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 47/223 (21%), Positives = 75/223 (33%), Gaps = 60/223 (26%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFA---------------------GGHPTPRISWRRENN 174
++ S SL VS G+ V + C + G P I W
Sbjct: 2 IVMSQSPSSLAVSAGERVTMTCKSSQSLFNSKTRRNYLAWYQQKPGQSPKLLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVI 228
+ +P TG L I + ED YYC + G GT+ I + AP +
Sbjct: 62 SGVPDRFTGSGSGTEFTLTISSVQAEDLAVYYCKQSYNLRTFGGGTKLEIK-RADAAPTV 120
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNN 271
++ P Q + C + + P I W +D++ +
Sbjct: 121 SIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----D 175
Query: 272 QHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 STYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3LIZ|L Chain L, Crystal Structure Of Bla G 2 Complexed With Fab 4c3
Length = 211
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 44/218 (20%), Positives = 77/218 (35%), Gaps = 55/218 (25%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S S+ S G+ V + C A +SW ++ P
Sbjct: 2 IVLTQSPSSMYASLGERVTITCKASQDINNYLSWFQQKPGKSPKTLIYRADRLVDGVPSR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKP 233
+G + L I + ED G YYC+ + + G GT+ I + AP +++ P
Sbjct: 62 VSGSGSGQDYSLTISSLEYEDLGIYYCLQYDELPYTFGGGTKLEIK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 175
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 176 S----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>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 = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 30/64 (46%), Gaps = 2/64 (3%)
Query: 143 RSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTY 202
+ VV+ G+ ++L+C ISW ++ + P ++ G L+I T D G Y
Sbjct: 9 EAYVVAPGESLELQCML--KDAAVISWTKDGVHLGPNNRTVLIGEYLQIKGATPRDSGLY 66
Query: 203 YCVA 206
C A
Sbjct: 67 ACTA 70
>pdb|2ADF|H Chain H, Crystal Structure And Paratope Determination Of 82d6a3, An
Antithrombotic Antibody Directed Against The Von
Willebrand Factor A3-Domain
Length = 218
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 32/138 (23%), Positives = 50/138 (36%), Gaps = 33/138 (23%)
Query: 150 GQPVQLECFAGGH-------------PTPRISWR--RENNAILPTGGSIYRG-------- 186
G+ V++ C A G+ P + W + N T G +RG
Sbjct: 15 GETVKISCKASGYTFINYGMNWVKQAPGKGLKWMGWKNTNTGETTYGEEFRGRFAFSLET 74
Query: 187 ----SILKIPQITKEDRGTYYCVAENGV------GKGTRRNIAVEVEFAPVITVPKPRLG 236
+ L+I + ED TY+C +N G+GT ++ AP + P G
Sbjct: 75 SVSTAYLQINNLKNEDTATYFCARDNPYYALDYWGQGTTVTVSSAKTTAPSVYPLAPVCG 134
Query: 237 QALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 135 DTTGSSVTLGCLVKGYFP 152
>pdb|2IQ9|H Chain H, Pfa2 Fab Fragment, Triclinic Apo Form
pdb|2IQA|H Chain H, Pfa2 Fab Fragment, Monoclinic Apo Form
pdb|2IQA|B Chain B, Pfa2 Fab Fragment, Monoclinic Apo Form
Length = 223
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 24/77 (31%), Positives = 31/77 (40%), Gaps = 10/77 (12%)
Query: 188 ILKIPQITKEDRGTYYCV--AENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI + D TYYCV A N V G+GT ++ AP + P G
Sbjct: 81 FLKITSVDTADTATYYCVRRAHNVVLGDWFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGG 140
Query: 238 ALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 TTGSSVTLGCLVKGYFP 157
>pdb|1AO7|D Chain D, Complex Between Human T-Cell Receptor, Viral Peptide
(Tax), And Hla-A 0201
Length = 204
Score = 33.9 bits (76), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 39/99 (39%), Gaps = 1/99 (1%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G L C+ W + K E L +S S+ D RF + + AS +L
Sbjct: 15 GAIASLNCTYSDRGSQSFFWYRQYSGKSPE-LIMSIYSNGDKEDGRFTAQLNKASQYVSL 73
Query: 99 LVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVI 137
L++D Q +D+ Y C V K+ QV P I
Sbjct: 74 LIRDSQPSDSATYLCAVTTDSWGKLQFGAGTQVVVTPDI 112
>pdb|1AE6|L Chain L, Igg-Fab Fragment Of Mouse Monoclonal Antibody Ctm01
Length = 219
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L++ ++ ED G YYC+ G GT+ + + AP +++ P Q
Sbjct: 78 LRVSRVEAEDVGVYYCMQHLEYPFTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|3THM|L Chain L, Crystal Structure Of Fas Receptor Extracellular Domain In
Complex With Fab Ep6b_b01
Length = 216
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 31/137 (22%), Positives = 56/137 (40%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENGV------GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC + G GT+ + + + AP +T+ P +
Sbjct: 74 LAIRDLLSEDEADYYCSTWDDTLEGWVFGGGTKVTVLGQPKAAPSVTLFPPSSEELQANK 133
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|3G5V|A Chain A, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 212
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 46/214 (21%), Positives = 72/214 (33%), Gaps = 57/214 (26%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGS------------- 187
S S+ VS G V + C + I W ++ G IY G+
Sbjct: 7 SPSSMSVSLGDTVSITCHSSQDINSNIGWLQQKPG-KSFKGLIYHGTNLDDEVPSRFSGS 65
Query: 188 ------ILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
L I + ED YYCV G GT+ I + AP +++ P Q
Sbjct: 66 GSGADYSLTISSLESEDFADYYCVQYAQFPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQ 124
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 125 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 176
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 -------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3G5X|A Chain A, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
pdb|3G5X|C Chain C, Antibodies Specifically Targeting A Locally Misfolded
Region Of Tumor Associated Egfr
Length = 214
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 46/214 (21%), Positives = 72/214 (33%), Gaps = 57/214 (26%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGS------------- 187
S S+ VS G V + C + I W ++ G IY G+
Sbjct: 7 SPSSMSVSLGDTVSITCHSSQDINSNIGWLQQKPG-KSFKGLIYHGTNLDDEVPSRFSGS 65
Query: 188 ------ILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
L I + ED YYCV G GT+ I + AP +++ P Q
Sbjct: 66 GSGADYSLTISSLESEDFADYYCVQYAQFPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQ 124
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 125 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 176
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 -------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3UJJ|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 4025 In Complex
With Con A Peptide
Length = 213
Score = 33.9 bits (76), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 42/201 (20%), Positives = 78/201 (38%), Gaps = 27/201 (13%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
S+ VS GQ ++ C P W ++ + P +G
Sbjct: 9 SVSVSPGQTARITCSGDALPEKYAYWYQQKSGQAPVLIIYEDSKRPSGIPERFSGSRSGT 68
Query: 186 GSILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
+ L I +D YYC + N G GT+ + + + P +T+ P +
Sbjct: 69 MATLTISGAQVDDEADYYCYSTNSGGTFFVFGTGTKVTVLGQPKANPTVTLFPPSSEELQ 128
Query: 240 QYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK- 297
L C + + P A+ V K D+ V + + S + +++ ++ +T E+
Sbjct: 129 ANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSK-QSNNKYAASSYLSLTPEQW 187
Query: 298 RQYGSYICRAANKLGTSEKTV 318
+ + SY C+ ++ T EKTV
Sbjct: 188 KSHRSYSCQVTHEGSTVEKTV 208
>pdb|1XGY|L Chain L, Crystal Structure Of Anti-Meta I Rhodopsin Fab Fragment
K42- 41l
pdb|1XGY|M Chain M, Crystal Structure Of Anti-Meta I Rhodopsin Fab Fragment
K42- 41l
Length = 216
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 32/146 (21%), Positives = 59/146 (40%), Gaps = 35/146 (23%)
Query: 189 LKIPQITKEDRGTYYC--VAENGVGKGTRRNIAVE-VEFAPVITVPKPRLGQALQYDMDL 245
L+I ++ ED G YYC + E+ + GT + ++ + AP +++ P Q +
Sbjct: 78 LRISRVEAEDVGVYYCGQMLEHPLTFGTGTKLELKRADAAPTVSIFPPSSEQLTSGGASV 137
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 138 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 182
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 183 TLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1QSE|D Chain D, Structure Of Human A6-Tcr Bound To Hla-A2 Complexed With
Altered Htlv-1 Tax Peptide V7r
pdb|1QSF|D Chain D, Structure Of A6-Tcr Bound To Hla-A2 Complexed With Altered
Htlv-1 Tax Peptide Y8a
pdb|2GJ6|D Chain D, The Complex Between Tcr A6 And Human Class I Mhc Hla-a2
With The Modified Htlv-1 Tax (y5k-4-[3-indolyl]-butyric
Acid) Peptide
pdb|3D39|D Chain D, The Complex Between Tcr A6 And Human Class I Mhc Hla-A2
With The Modified Htlv-1 Tax (Y5(4-Fluorophenylalanine))
Peptide
pdb|3D3V|D Chain D, The Complex Between Tcr A6 And Human Class I Mhc Hla-A2
With The Modified Htlv-1 Tax
(Y5(3,4-Difluorophenylalanine)) Peptide
pdb|3H9S|D Chain D, The Complex Between Tcr A6 And Human Class I Mhc Hla-A2
With The Bound Tel1p Peptide
pdb|3PWP|D Chain D, The Complex Between Tcr A6 And Human Class I Mhc Hla-A2
With The Bound Hud Peptide
pdb|3QFJ|D Chain D, The Complex Between Tcr A6 And Human Class I Mhc Hla-A2
With The Modified Tax (Y5f) Peptide
Length = 200
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 39/99 (39%), Gaps = 1/99 (1%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G L C+ W + K E L +S S+ D RF + + AS +L
Sbjct: 15 GAIASLNCTYSDRGSQSFFWYRQYSGKSPE-LIMSIYSNGDKEDGRFTAQLNKASQYVSL 73
Query: 99 LVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVI 137
L++D Q +D+ Y C V K+ QV P I
Sbjct: 74 LIRDSQPSDSATYLCAVTTDSWGKLQFGAGTQVVVTPDI 112
>pdb|2Z4Q|B Chain B, Crystal Structure Of A Murine Antibody Fab 528
Length = 218
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 29/72 (40%), Gaps = 6/72 (8%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
+ + ++T ED YYC G G+GT ++ AP + P G
Sbjct: 81 MHLSRLTSEDSAVYYCTRSGGPYFFDYWGQGTSLTVSSAKTTAPSVYPLAPVCGDTTGSS 140
Query: 243 MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 VTLGCLVKGYFP 152
>pdb|3QH3|A Chain A, The Crystal Structure Of Tcr A6
pdb|3QH3|C Chain C, The Crystal Structure Of Tcr A6
Length = 194
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 39/99 (39%), Gaps = 1/99 (1%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G L C+ W + K E L +S S+ D RF + + AS +L
Sbjct: 15 GAIASLNCTYSDRGSQSFFWYRQYSGKSPE-LIMSIYSNGDKEDGRFTAQLNKASQYVSL 73
Query: 99 LVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVI 137
L++D Q +D+ Y C V K+ QV P I
Sbjct: 74 LIRDSQPSDSATYLCAVTTDSWGKLQFGAGTQVVVTPDI 112
>pdb|3NCY|W Chain W, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
pdb|3NCY|S Chain S, X-Ray Crystal Structure Of An Arginine Agmatine Antiporter
(Adic) In Complex With A Fab Fragment
Length = 211
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 34/137 (24%), Positives = 54/137 (39%), Gaps = 16/137 (11%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 72 LTISSMEAEDAATYYCQQWSYNPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI--VWIKEDTQQVLTNNQHYSISHFATADEFTDT-----TIRVITIEK 297
+ C + + P I W K D + Q+ ++ + D T T+ + E
Sbjct: 131 VVCFLNNFYPKDINVKWKKIDGSE----RQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEY 186
Query: 298 RQYGSYICRAANKLGTS 314
++ SY C A +K TS
Sbjct: 187 ERHNSYTCEATHKTSTS 203
>pdb|1MCP|L Chain L, Phosphocholine Binding Immunoglobulin Fab McPC603. AN
X-Ray Diffraction Study At 2.7 Angstroms
pdb|2MCP|L Chain L, Refined Crystal Structure Of The Mc/pc603
Fab-phosphocholine Complex At 3.1 Angstroms Resolution
Length = 220
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 47/224 (20%), Positives = 80/224 (35%), Gaps = 61/224 (27%)
Query: 136 VISDNSTRSLVVSEGQPVQLEC------FAGGHPTPRISWRRENNA----ILPTGGSI-- 183
++ S SL VS G+ V + C G+ ++W ++ +L G S
Sbjct: 2 IVMTQSPSSLSVSAGERVTMSCKSSQSLLNSGNQKNFLAWYQQKPGQPPKLLIYGASTRE 61
Query: 184 ------YRGS------ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPV 227
+ GS L I + ED YYC ++ G GT+ I + AP
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQNDHSYPLTFGAGTKLEIK-RADAAPT 120
Query: 228 ITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTN 270
+++ P Q + C + + P I W +D++
Sbjct: 121 VSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK----- 175
Query: 271 NQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 209
>pdb|2IFF|H Chain H, Structure Of An Antibody-Lysozyme Complex: Effect Of A
Conservative Mutation
pdb|1BQL|H Chain H, Structure Of An Anti-Hel Fab Fragment Complexed With
Bobwhite Quail Lysozyme
Length = 215
Score = 33.9 bits (76), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 33/139 (23%), Positives = 51/139 (36%), Gaps = 37/139 (26%)
Query: 150 GQPVQLECFAGGH-------------PTPRISWRRENNAILPTGGSI-----YRG----- 186
G V++ C A G+ P + W E ILP GS ++G
Sbjct: 15 GASVKISCKASGYTFSDYWIEWVKQRPGHGLEWIGE---ILPGSGSTNYHERFKGKATFT 71
Query: 187 -------SILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRL 235
+ +++ +T ED G YYC+ N G G+GT ++ P + P
Sbjct: 72 ADTSSSTAYMQLNSLTSEDSGVYYCLHGNYDFDGWGQGTTLTVSSAKTTPPSVYPLAPGS 131
Query: 236 GQALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 132 AAQTNSMVTLGCLVKGYFP 150
>pdb|1QRN|D Chain D, Crystal Structure Of Human A6 Tcr Complexed With Hla-A2
Bound To Altered Htlv-1 Tax Peptide P6a
Length = 200
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 27/99 (27%), Positives = 39/99 (39%), Gaps = 1/99 (1%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G L C+ W + K E L +S S+ D RF + + AS +L
Sbjct: 15 GAIASLNCTYSDRGSQSFFWYRQYSGKSPE-LIMSIYSNGDKEDGRFTAQLNKASQYVSL 73
Query: 99 LVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVI 137
L++D Q +D+ Y C V K+ QV P I
Sbjct: 74 LIRDSQPSDSATYLCAVTTDSWGKLQFGAGTQVVVTPDI 112
>pdb|3T2N|L Chain L, Human Hepsin Protease In Complex With The Fab Fragment Of
An Inhibitory Antibody
pdb|3T2N|M Chain M, Human Hepsin Protease In Complex With The Fab Fragment Of
An Inhibitory Antibody
Length = 215
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 33/144 (22%), Positives = 60/144 (41%), Gaps = 6/144 (4%)
Query: 181 GSIYRG-SILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRL 235
GS+ G + L + + ED YYC G GT+ + + + AP +T+ P
Sbjct: 66 GSLLGGKAALTLSGVQPEDEAEYYCALWYSNHFIFGSGTKVTVLGQPKAAPSVTLFPPSS 125
Query: 236 GQALQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVIT 294
+ L C + + P A+ V K D+ V + + S + + + +
Sbjct: 126 EELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTP 185
Query: 295 IEKRQYGSYICRAANKLGTSEKTV 318
+ + + SY C+ ++ T EKTV
Sbjct: 186 EQWKSHRSYSCQVTHEGSTVEKTV 209
>pdb|1EHL|H Chain H, 64m-2 Antibody Fab Complexed With D(5ht)(6-4)t
Length = 219
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 31/76 (40%), Gaps = 8/76 (10%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
+ +++ +T ED YYC +G G+GT ++ AP + P G
Sbjct: 79 AYMEVSSLTNEDSAVYYCTRRSGYKYYALDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDT 138
Query: 239 LQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 139 TGSSVTLGCLVKGYFP 154
>pdb|1BLN|A Chain A, Anti-P-Glycoprotein Fab Mrk-16
pdb|1BLN|C Chain C, Anti-P-Glycoprotein Fab Mrk-16
Length = 214
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 32/142 (22%), Positives = 53/142 (37%), Gaps = 37/142 (26%)
Query: 189 LKIPQITKEDRGTYYCV----AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC A G GT+ I + AP +++ P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQASHAPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAAN 309
+T+ + E ++ SY C A +
Sbjct: 182 STLTLTKDEYERHNSYTCEATS 203
>pdb|3IYW|L Chain L, West Nile Virus In Complex With Fab Fragments Of Mab
Cr4354 (Fitted Coordinates Of Envelope Proteins And Fab
Fragments Of One Icosahedral Asu)
pdb|3IYW|M Chain M, West Nile Virus In Complex With Fab Fragments Of Mab
Cr4354 (Fitted Coordinates Of Envelope Proteins And Fab
Fragments Of One Icosahedral Asu)
pdb|3N9G|L Chain L, Crystal Structure Of The Fab Fragment Of The Human
Neutralizing Anti- West Nile Virus Mab Cr4354
Length = 220
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 35/141 (24%), Positives = 59/141 (41%), Gaps = 11/141 (7%)
Query: 189 LKIPQITKEDRGTYYCVAE----NG--VGKGTRRNI----AVEVEFAPVITVPKPRLGQA 238
L I + ED YYC A NG G GT+ + A + + AP +T+ P +
Sbjct: 74 LAISGLQSEDEADYYCAAWDDSLNGPVFGGGTKLTVLGAAAGQPKAAPSVTLFPPSSEEL 133
Query: 239 LQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK 297
L C + + P A+ V K D+ V + + S + + + + +
Sbjct: 134 QANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQW 193
Query: 298 RQYGSYICRAANKLGTSEKTV 318
+ + SY C+ ++ T EKTV
Sbjct: 194 KSHRSYSCQVTHEGSTVEKTV 214
>pdb|4FFV|D Chain D, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With 11a19 Fab
pdb|4FFV|H Chain H, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With 11a19 Fab
pdb|4FFW|D Chain D, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With Fab + Sitagliptin
pdb|4FFW|H Chain H, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With Fab + Sitagliptin
Length = 217
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 31/141 (21%), Positives = 54/141 (38%), Gaps = 32/141 (22%)
Query: 146 VVSEGQPVQLECFAGGHPTP--RISWRRENNA--------ILPTGGSI-----YRG---- 186
+V G V++ C A G+ I+W +++N ++P G+ ++G
Sbjct: 11 LVKPGASVKISCKASGYSFTDYNINWMKQSNGKSLEWIGVVIPKYGTTNYNQKFQGKATL 70
Query: 187 --------SILKIPQITKEDRGTYYCVAENGV-----GKGTRRNIAVEVEFAPVITVPKP 233
+ +++ +T ED YYC V G GT ++ AP + P
Sbjct: 71 TVDQSSSTAYIQLNSLTSEDSAVYYCTRFRDVFFDVWGTGTTVTVSSAKTTAPSVYPLAP 130
Query: 234 RLGQALQYDMDLECHVEAYPP 254
G + L C V+ Y P
Sbjct: 131 VCGGTTGSSVTLGCLVKGYFP 151
>pdb|2J4W|L Chain L, Structure Of A Plasmodium Vivax Apical Membrane Antigen 1-
Fab F8.12.19 Complex
pdb|2J5L|B Chain B, Structure Of A Plasmodium Falciparum Apical Membrane
Antigen 1-Fab F8.12.19 Complex
Length = 213
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 72 LTISRVEAEDAATYYCQQWSSHPPTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1KEG|H Chain H, Antibody 64m-2 Fab Complexed With Dtt(6-4)tt
Length = 220
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 19/76 (25%), Positives = 31/76 (40%), Gaps = 8/76 (10%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
+ +++ +T ED YYC +G G+GT ++ AP + P G
Sbjct: 79 AYMEVSSLTNEDSAVYYCTRRSGYKYYALDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDT 138
Query: 239 LQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 139 TGSSVTLGCLVKGYFP 154
>pdb|3TNM|L Chain L, Crystal Structure Of A32 Fab, An Adcc Mediating Anti-Hiv-1
Antibody
pdb|3TNM|B Chain B, Crystal Structure Of A32 Fab, An Adcc Mediating Anti-Hiv-1
Antibody
Length = 216
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 32/137 (23%), Positives = 62/137 (45%), Gaps = 8/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENGV-----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L + + ED YYC + + G GT+ + + + AP +T+ P +
Sbjct: 75 LTVSGLQAEDEAEYYCSSYTDIHNFVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKA 134
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQYG 301
L C + + P A+ V K D+ V + + S + +++ ++ +T E+ + +
Sbjct: 135 TLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSK-QSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|4H20|L Chain L, Crystal Structure And Computational Modeling Of The Fab
Fragment From The Protective Anti-ricin Monoclonal
Antibody Rac18
Length = 214
Score = 33.5 bits (75), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 42/218 (19%), Positives = 72/218 (33%), Gaps = 55/218 (25%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S + + S G V + C A T ++W ++ P
Sbjct: 2 IVMTQSHKFMSTSVGDRVSITCKASQDVTSAVAWFQQKPGQSPKLLIYSASYRYTGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
TG I + ED YYC G G GT+ + + AP +++ P
Sbjct: 62 FTGSGSGTDFTFTISSVQAEDLAVYYCQQHYGTPLTFGAGTKLELK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 175
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 176 S----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3UJI|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 2558 In Complex
With Mn Peptide
Length = 209
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 43/199 (21%), Positives = 75/199 (37%), Gaps = 24/199 (12%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
S+ VS GQ + C +SW ++ + P +G
Sbjct: 9 SVSVSPGQTASITCSGDILGDKYVSWYQQKSGQSPLLVIYEDTKRPSGIPDRFSGSKSGN 68
Query: 186 GSILKIPQITKEDRGTYYCVAEN---GV--GKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+ L I D YYC A + GV G GT+ + + + AP +T+ P +
Sbjct: 69 TATLTISGTQAMDEADYYCQAWDSTLGVVFGGGTKVTVLGQPKAAPSVTLFPPSSEELQA 128
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 129 NKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKS 188
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 189 HKSYSCQVTHEGSTVEKTV 207
>pdb|3FN3|A Chain A, Dimeric Structure Of Pd-L1
pdb|3FN3|B Chain B, Dimeric Structure Of Pd-L1
Length = 221
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 33/83 (39%), Gaps = 8/83 (9%)
Query: 186 GSILKIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPV---ITVPKPRLGQALQYD 242
+ L+I + +D G Y C+ G R + V + + I V P + +
Sbjct: 79 NAALQITDVKLQDAGVYRCMISYGGADYKRITVKVNAPYNKINQRILVVDP-----VTSE 133
Query: 243 MDLECHVEAYPPPAIVWIKEDTQ 265
+L C E YP ++W D Q
Sbjct: 134 HELTCQAEGYPKAEVIWTSSDHQ 156
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 11/84 (13%)
Query: 98 LLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV---- 153
L + D++ DAG YRC + G + + ++V P + + R LVV PV
Sbjct: 82 LQITDVKLQDAGVYRCMISYGGAD--YKRITVKVNAP--YNKINQRILVVD---PVTSEH 134
Query: 154 QLECFAGGHPTPRISWRRENNAIL 177
+L C A G+P + W ++ +L
Sbjct: 135 ELTCQAEGYPKAEVIWTSSDHQVL 158
>pdb|3TJE|L Chain L, Crystal Structure Of Fas Receptor Extracellular Domain In
Complex With Fab E09
Length = 216
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 31/137 (22%), Positives = 56/137 (40%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENGV------GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC + G GT+ + + + AP +T+ P +
Sbjct: 74 LAIRDLLSEDEADYYCSTWDDTLKGWVFGGGTKVTVLGQPKAAPSVTLFPPSSEELQANK 133
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|2Y25|A Chain A, Crystal Structure Of The Myomesin Domains My11-My13
pdb|2Y25|B Chain B, Crystal Structure Of The Myomesin Domains My11-My13
pdb|2Y25|C Chain C, Crystal Structure Of The Myomesin Domains My11-My13
pdb|2Y25|D Chain D, Crystal Structure Of The Myomesin Domains My11-My13
Length = 317
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 61/276 (22%), Positives = 112/276 (40%), Gaps = 56/276 (20%)
Query: 88 RYDTASSTYTLLVKDIQETDAGYY---------RCQVIIGINNKISAEVDLQVRRPPVIS 138
++D TLL+ + + DAG Y + + + + ++ E+ ++V + +S
Sbjct: 53 KHDFKDGICTLLITEFSKKDAGIYEVILKDDRGKDKSRLKLVDEAFKELMMEVCKKIALS 112
Query: 139 DNSTRSLVVSEGQPVQLECFAGGHPTP-RISWRRENNAIL--------PTGGSIYRGSIL 189
+ +EG +QL F + +++W +AI TG I+ L
Sbjct: 113 ATDLKIQSTAEG--IQLYSFVTYYVEDLKVNWSHNGSAIRYSDRVKTGVTGEQIW----L 166
Query: 190 KIPQITKEDRGTYYCVAENGVGK-GTRRNIAVEVEFAPVITVPKPRLGQALQYD------ 242
+I + T D+G Y V E GK G ++ + + + RL QA +
Sbjct: 167 QINEPTPNDKGKY--VMELFDGKTGHQKTVDLSGQAYDEAYAEFQRLKQAAIAEKNRARV 224
Query: 243 ---------------MDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTD 287
++L C+V PPP + W+K ++ L ++ H ++ A +
Sbjct: 225 LGGLPDVVTIQEGKALNLTCNVWGDPPPEVSWLK--NEKALASDDHCNLKFEAGRTAYF- 281
Query: 288 TTIRVITIEKRQYGSYICRAANKLG--TSEKTVELF 321
T V T + +YG + NK G TS+ TV +F
Sbjct: 282 TINGVSTADSGKYGLVV---KNKYGSETSDFTVSVF 314
>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 = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 36/80 (45%), Gaps = 2/80 (2%)
Query: 39 GGTVELKCSV-QYAQDYPVIWMKVD-RNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTY 96
G CS+ +++D + W ++ N+ + S G S ++D+RF I +
Sbjct: 14 GANATFTCSLSNWSEDLMLNWNRLSPSNQTEKQAAFSNGLSQPVQDARFQIIQLPNRHDF 73
Query: 97 TLLVKDIQETDAGYYRCQVI 116
+ + D + D+G Y C I
Sbjct: 74 HMNILDTRRNDSGIYLCGAI 93
>pdb|3V0V|L Chain L, Fab Wn1 222-5 Unliganded
pdb|3V0V|B Chain B, Fab Wn1 222-5 Unliganded
pdb|3V0W|L Chain L, Crystal Structure Of Fab Wn1 222-5 In Complex With Lps
Length = 212
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 49/216 (22%), Positives = 83/216 (38%), Gaps = 42/216 (19%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------- 178
D+Q+ + P SL S G + + C A + +SW ++ +P
Sbjct: 1 DIQMNQSP-------SSLSASLGDTISITCRASQNINIWLSWYQQKPGNVPKLLIYKASN 53
Query: 179 --TG-GSIYRGS------ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFA 225
TG S + GS L I + ED TYYC+ G GT+ I + A
Sbjct: 54 LHTGVPSRFSGSGSGTDFTLIISSLQPEDIATYYCLQGQSYPRTFGGGTKLEIK-RGDAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI--VWIKEDTQQVLTNNQHYSISHFATAD 283
P +++ P Q + C + + P I W + +++ Q+ ++ + D
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSER-----QNGVLNSWTDQD 167
Query: 284 EFTDT-----TIRVITIEKRQYGSYICRAANKLGTS 314
T T+ + E ++ SY C A +K TS
Sbjct: 168 SKDSTYSMSSTLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1NPU|A Chain A, Crystal Structure Of The Extracellular Domain Of Murine
Pd-1
pdb|3BP5|A Chain A, Crystal Structure Of The Mouse Pd-1 And Pd-L2 Complex
Length = 117
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 36/80 (45%), Gaps = 2/80 (2%)
Query: 39 GGTVELKCSV-QYAQDYPVIWMKVD-RNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTY 96
G CS+ +++D + W ++ N+ + S G S ++D+RF I +
Sbjct: 14 GANATFTCSLSNWSEDLMLNWNRLSPSNQTEKQAAFSNGLSQPVQDARFQIIQLPNRHDF 73
Query: 97 TLLVKDIQETDAGYYRCQVI 116
+ + D + D+G Y C I
Sbjct: 74 HMNILDTRRNDSGIYLCGAI 93
>pdb|3UJT|H Chain H, Structure Of The Fab Fragment Of Ab-52, An Antibody That
Binds The O- Antigen Of Francisella Tularensis
pdb|3UJT|I Chain I, Structure Of The Fab Fragment Of Ab-52, An Antibody That
Binds The O- Antigen Of Francisella Tularensis
Length = 213
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 32/139 (23%), Positives = 53/139 (38%), Gaps = 28/139 (20%)
Query: 144 SLVVSEGQPVQLECFAGGHP--TPRISWRREN--------NAILPTGGSI-----YRG-- 186
S++V G V+L C A G+ + + W ++ I P G+ ++G
Sbjct: 9 SVLVRPGASVKLSCKASGYTFTSSWMHWAKQRPGQGLEWIGEIHPNSGNTNYNEKFKGKA 68
Query: 187 ----------SILKIPQITKEDRGTYYCVAENGV-GKGTRRNIAVEVEFAPVITVPKPRL 235
+ + + +T ED YYCV G+GT ++ AP + P
Sbjct: 69 TLTVDTSSSTAYVDLSSLTSEDSAVYYCVRGFAYWGQGTLVTVSAAKTTAPSVYPLAPVC 128
Query: 236 GQALQYDMDLECHVEAYPP 254
G + L C V+ Y P
Sbjct: 129 GDTTGSSVTLGCLVKGYFP 147
>pdb|3SBW|C Chain C, Crystal Structure Of The Complex Between The Extracellular
Domains Of Mouse Pd-1 Mutant And Human Pd-L1
Length = 222
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 33/83 (39%), Gaps = 8/83 (9%)
Query: 186 GSILKIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPV---ITVPKPRLGQALQYD 242
+ L+I + +D G Y C+ G R + V + + I V P + +
Sbjct: 79 NAALQITDVKLQDAGVYRCMISYGGADYKRITVKVNAPYNKINQRILVVDP-----VTSE 133
Query: 243 MDLECHVEAYPPPAIVWIKEDTQ 265
+L C E YP ++W D Q
Sbjct: 134 HELTCQAEGYPKAEVIWTSSDHQ 156
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 11/84 (13%)
Query: 98 LLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV---- 153
L + D++ DAG YRC + G + + ++V P + + R LVV PV
Sbjct: 82 LQITDVKLQDAGVYRCMISYGGAD--YKRITVKVNAP--YNKINQRILVVD---PVTSEH 134
Query: 154 QLECFAGGHPTPRISWRRENNAIL 177
+L C A G+P + W ++ +L
Sbjct: 135 ELTCQAEGYPKAEVIWTSSDHQVL 158
>pdb|3BIK|A Chain A, Crystal Structure Of The Pd-1PD-L1 Complex
pdb|3BIS|A Chain A, Crystal Structure Of The Pd-L1
pdb|3BIS|B Chain B, Crystal Structure Of The Pd-L1
Length = 222
Score = 33.5 bits (75), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/83 (24%), Positives = 33/83 (39%), Gaps = 8/83 (9%)
Query: 186 GSILKIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPV---ITVPKPRLGQALQYD 242
+ L+I + +D G Y C+ G R + V + + I V P + +
Sbjct: 79 NAALQITDVKLQDAGVYRCMISYGGADYKRITVKVNAPYNKINQRILVVDP-----VTSE 133
Query: 243 MDLECHVEAYPPPAIVWIKEDTQ 265
+L C E YP ++W D Q
Sbjct: 134 HELTCQAEGYPKAEVIWTSSDHQ 156
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 11/84 (13%)
Query: 98 LLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV---- 153
L + D++ DAG YRC + G + + ++V P + + R LVV PV
Sbjct: 82 LQITDVKLQDAGVYRCMISYGGAD--YKRITVKVNAP--YNKINQRILVVD---PVTSEH 134
Query: 154 QLECFAGGHPTPRISWRRENNAIL 177
+L C A G+P + W ++ +L
Sbjct: 135 ELTCQAEGYPKAEVIWTSSDHQVL 158
>pdb|1DBA|H Chain H, Three-Dimensional Structure Of An Anti-Steroid Fab' And
Progesterone-Fab' Complex
pdb|1DBB|H Chain H, Three-Dimensional Structure Of An Anti-Steroid Fab' And
Progesterone-Fab' Complex
pdb|1DBJ|H Chain H, Molecular Basis Of Cross-Reactivity And The Limits Of
Antibody-Antigen Complementarity
pdb|1DBK|H Chain H, Molecular Basis Of Cross-Reactivity And The Limits Of
Antibody-Antigen Complementarity
pdb|1DBM|H Chain H, Molecular Basis Of Cross-Reactivity And The Limits Of
Antibody-Antigen Complementarity
pdb|2DBL|H Chain H, Molecular Basis Of Cross-Reactivity And The Limits Of
Antibody-Antigen Complementarity
Length = 219
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 43/90 (47%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKCSVQ-YA-QDYPVIWMKVDRNKVTEPLP---ISTGSSLIIRD--S 83
S ++K G TV++ C YA +Y V W+K K + + I TG + D
Sbjct: 7 SGPELKKPGETVKISCKASGYAFTNYGVNWVKEAPGKELKWMGWINIYTGEPTYVDDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA +T++ST L + +++ D Y C
Sbjct: 67 RFAFSLETSASTAYLEINNLKNEDTATYFC 96
>pdb|2VC2|H Chain H, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist L-739758
pdb|2VDK|H Chain H, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDL|H Chain H, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece
pdb|2VDM|H Chain H, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist Tirofiban
pdb|2VDN|H Chain H, Re-Refinement Of Integrin Alphaiibbeta3 Headpiece Bound To
Antagonist Eptifibatide
pdb|2VDO|H Chain H, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen Gamma
Chain Peptide, Hhlggakqagdv
pdb|2VDP|H Chain H, Integrin Alphaiibbeta3 Headpiece Bound To Fibrinogen Gamma
Chain Peptide,Lggakqagdv
pdb|2VDQ|H Chain H, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Hhlggakqrgdv
pdb|2VDR|H Chain H, Integrin Alphaiibbeta3 Headpiece Bound To A Chimeric
Fibrinogen Gamma Chain Peptide, Lggakqrgdv
pdb|3NID|E Chain E, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NID|H Chain H, The Closed Headpiece Of Integrin Alphaiib Beta3 And Its
Complex With An Alpahiib Beta3 -Specific Antagonist That
Does Not Induce Opening
pdb|3NIF|E Chain E, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIF|H Chain H, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|E Chain E, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3NIG|H Chain H, The Closed Headpiece Of Integrin Iib 3 And Its Complex
With An Iib 3 - Specific Antagonist That Does Not Induce
Opening
pdb|3T3M|E Chain E, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3M|H Chain H, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|E Chain E, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
pdb|3T3P|H Chain H, A Novel High Affinity Integrin Alphaiibbeta3 Receptor
Antagonist That Unexpectedly Displaces Mg2+ From The
Beta3 Midas
Length = 221
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 7/75 (9%)
Query: 187 SILKIPQITKEDRGTYYCV-------AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
+ L++ +T ED YYCV A + G+GT ++ AP + P G
Sbjct: 79 AYLQLSSLTSEDTAVYYCVRPLYDYYAMDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTT 138
Query: 240 QYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 139 GSSVTLGCLVKGYFP 153
>pdb|1MAM|L Chain L, Crystal Structure To 2.45 A Resolution Of A Monoclonal Fab
Specific For The Brucella A Cell Wall Polysaccharide
Antigen
Length = 214
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED TY C N + G GT+ I + AP +++ P Q
Sbjct: 73 LTISNLNQEDMATYICQQGNTLPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3ULS|L Chain L, Crystal Structure Of Fab12
pdb|3ULS|A Chain A, Crystal Structure Of Fab12
Length = 213
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 39/199 (19%), Positives = 75/199 (37%), Gaps = 24/199 (12%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
S+ V+ GQ ++ C + + W ++ P +G +
Sbjct: 9 SVSVAPGQTARISCSGDNIGSYYVHWYQQKPGQAPVLVIYEDSERPSGIPERFSGSNSGN 68
Query: 186 GSILKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+ L I ED YYC + + G GT+ + + + AP +T+ P +
Sbjct: 69 TATLTISGTQAEDEADYYCSSYDDPNFQVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQA 128
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 129 NKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKS 188
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 189 HRSYSCQVTHEGSTVEKTV 207
>pdb|3BIK|B Chain B, Crystal Structure Of The Pd-1PD-L1 Complex
pdb|3BIK|C Chain C, Crystal Structure Of The Pd-1PD-L1 Complex
Length = 134
Score = 33.5 bits (75), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 36/80 (45%), Gaps = 2/80 (2%)
Query: 39 GGTVELKCSV-QYAQDYPVIWMKVD-RNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTY 96
G CS+ +++D + W ++ N+ + S G S ++D+RF I +
Sbjct: 24 GANATFTCSLSNWSEDLMLNWNRLSPSNQTEKQAAFSNGLSQPVQDARFQIIQLPNRHDF 83
Query: 97 TLLVKDIQETDAGYYRCQVI 116
+ + D + D+G Y C I
Sbjct: 84 HMNILDTRRNDSGIYLCGAI 103
>pdb|3FFD|B Chain B, Structure Of Parathyroid Hormone-Related Protein Complexed
To A Neutralizing Monoclonal Antibody
Length = 220
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 33/143 (23%), Positives = 57/143 (39%), Gaps = 18/143 (12%)
Query: 189 LKIPQITKEDRGTYYCVAENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L I I ED Y C + + G GT+ + E + P +TV P + +
Sbjct: 77 LSISNIQPEDEAMYICGVGDTIKEQFVYVFGGGTKVTVLGEPKSTPTLTVFPPSSEELKE 136
Query: 241 YDMDLECHVEAYPPPA--IVWIKED---TQQVLTNNQHYSISHFATADEFTDTTIRVITI 295
L C + + P + W TQ V T+N + F A F + + +
Sbjct: 137 NKATLVCLISNFSPSGVTVAWKANGTPITQGVDTSNPTKEGNKFM-ASSF----LHLTSD 191
Query: 296 EKRQYGSYICRAANKLGTSEKTV 318
+ R + S+ C+ ++ T EK++
Sbjct: 192 QWRSHNSFTCQVTHEGDTVEKSL 214
>pdb|3BP6|A Chain A, Crystal Structure Of The Mouse Pd-1 Mutant And Pd-L2
Complex
pdb|3RNK|A Chain A, Crystal Structure Of The Complex Between Mouse Pd-1 Mutant
And Pd-L2 Igv Domain
pdb|3SBW|A Chain A, Crystal Structure Of The Complex Between The Extracellular
Domains Of Mouse Pd-1 Mutant And Human Pd-L1
pdb|3SBW|B Chain B, Crystal Structure Of The Complex Between The Extracellular
Domains Of Mouse Pd-1 Mutant And Human Pd-L1
Length = 117
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 36/80 (45%), Gaps = 2/80 (2%)
Query: 39 GGTVELKCSV-QYAQDYPVIWMKVD-RNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTY 96
G CS+ +++D + W ++ N+ + S G S ++D+RF I +
Sbjct: 14 GANATFTCSLSNWSEDLMLNWNRLSPSNQTEKQAAFSNGLSQPVQDARFQIIQLPNRHDF 73
Query: 97 TLLVKDIQETDAGYYRCQVI 116
+ + D + D+G Y C I
Sbjct: 74 HMNILDTRRNDSGIYLCGAI 93
>pdb|2VXS|L Chain L, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
pdb|2VXS|M Chain M, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
pdb|2VXS|N Chain N, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
pdb|2VXS|O Chain O, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
Length = 216
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 33/136 (24%), Positives = 61/136 (44%), Gaps = 7/136 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED YYC + G GT+ + + + AP +T+ P +
Sbjct: 76 LTISGLKTEDEADYYCQTYDPYSVVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKAT 135
Query: 245 LECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQYGS 302
L C + + P A+ V K D+ V + + S + +++ ++ +T E+ + + S
Sbjct: 136 LVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSK-QSNNKYAASSYLSLTPEQWKSHRS 194
Query: 303 YICRAANKLGTSEKTV 318
Y C+ ++ T EKTV
Sbjct: 195 YSCQVTHEGSTVEKTV 210
>pdb|1HIL|A Chain A, Structural Evidence For Induced Fit As A Mechanism For
Antigen-Antibody Recognition
pdb|1HIL|C Chain C, Structural Evidence For Induced Fit As A Mechanism For
Antigen-Antibody Recognition
pdb|1HIM|H Chain H, Structural Evidence For Induced Fit As A Mechanism For
Antibody-Antigen Recognition
pdb|1HIM|J Chain J, Structural Evidence For Induced Fit As A Mechanism For
Antibody-Antigen Recognition
pdb|1HIN|L Chain L, Structural Evidence For Induced Fit As A Mechanism For
Antibody-Antigen Recognition
Length = 217
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 44/224 (19%), Positives = 75/224 (33%), Gaps = 61/224 (27%)
Query: 136 VISDNSTRSLVVSEGQPVQLEC------FAGGHPTPRISWRRENNAILP----------- 178
++ S SL V+ G+ V + C F G ++W ++ P
Sbjct: 2 IVMTQSPSSLTVTAGEKVTMSCTSSQSLFNSGKQKNYLTWYQQKPGQPPKVLIYWASTRE 61
Query: 179 -------TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPV 227
TG L I + ED YYC + G GT+ + + AP
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQNDYSNPLTFGGGTKLELK-RADAAPT 120
Query: 228 ITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTN 270
+++ P Q + C + + P I W +D++
Sbjct: 121 VSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK----- 175
Query: 271 NQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 209
>pdb|1K6Q|L Chain L, Crystal Structure Of Antibody Fab Fragment D3
Length = 210
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 42/210 (20%), Positives = 72/210 (34%), Gaps = 55/210 (26%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSI--------------- 188
S+ S G+ V + C A +SW ++ P Y S+
Sbjct: 10 SMSASLGESVTITCKASRDIKSYLSWYQQKPWKSPKTLIYYATSLADGVPSRFSGSGSGQ 69
Query: 189 ---LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L I + +D TYYC+ G GT+ + + AP +++ P Q
Sbjct: 70 DYSLTISSLESDDTATYYCLQHGESPFTFGSGTKLELK-RADAAPTVSIFPPSSEQLTSG 128
Query: 242 DMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADE 284
+ C + + P I W +D++ + YS+S
Sbjct: 129 GASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS------- 176
Query: 285 FTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ---STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3ULU|C Chain C, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|C Chain C, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 213
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 31/138 (22%), Positives = 57/138 (41%), Gaps = 6/138 (4%)
Query: 187 SILKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
+ L I ED YYC + + G GT+ + + + AP +T+ P +
Sbjct: 70 ATLTISGTQAEDEADYYCSSYDDPNFQVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQAN 129
Query: 242 DMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 130 KATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSH 189
Query: 301 GSYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 190 RSYSCQVTHEGSTVEKTV 207
>pdb|3C5Z|A Chain A, Crystal Structure Of Mouse Mhc Class Ii I-Ab3K PEPTIDE
COMPLEXED WITH Mouse Tcr B3k506
pdb|3C5Z|E Chain E, Crystal Structure Of Mouse Mhc Class Ii I-Ab3K PEPTIDE
COMPLEXED WITH Mouse Tcr B3k506
Length = 202
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 34/76 (44%), Gaps = 12/76 (15%)
Query: 48 VQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTLLVKDIQETD 107
VQY + P + R+K GSS F YD ++++ L +QE+D
Sbjct: 36 VQYPGEGPQFLFRASRDK-------EKGSS-----RGFEATYDKGTTSFHLRKASVQESD 83
Query: 108 AGYYRCQVIIGINNKI 123
+ Y C ++I NK+
Sbjct: 84 SAVYYCALVISNTNKV 99
>pdb|2JB5|L Chain L, Fab Fragment In Complex With Small Molecule Hapten,
Crystal Form-1
pdb|2JB6|A Chain A, Fab Fragment In Complex With Small Molecule Hapten,
Crystal Form-2
pdb|2JB6|L Chain L, Fab Fragment In Complex With Small Molecule Hapten,
Crystal Form-2
Length = 216
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 32/142 (22%), Positives = 59/142 (41%), Gaps = 7/142 (4%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC + + G GT+ + + + AP +T+ P +
Sbjct: 75 LTISGLQAEDEADYYCRSWDSNLSYSVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANK 134
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 135 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHR 194
Query: 302 SYICRAANKLGTSEKTVELFES 323
SY C+ ++ T EKTV E+
Sbjct: 195 SYSCQVTHEGSTVEKTVAPTEA 216
>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 = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 31/141 (21%), Positives = 50/141 (35%), Gaps = 36/141 (25%)
Query: 150 GQPVQLECFAGGHPTP--RISWRRENNA--------ILPTGGSIY--------------- 184
G V+L C A G+ I+W ++ I P G+ Y
Sbjct: 15 GASVKLSCKASGYTFTDYYINWMKQRTGQGLEWIGEIYPGVGTTYYDEKFKGKATLTADK 74
Query: 185 --RGSILKIPQITKEDRGTYYCV---------AENGVGKGTRRNIAVEVEFAPVITVPKP 233
R + +++ +T ED Y+C A + G+GT ++ AP + P
Sbjct: 75 SSRSAYMQLSSLTSEDSAVYFCARRTVTMGRYAMDYWGQGTSVTVSSAKTTAPSVYPLAP 134
Query: 234 RLGQALQYDMDLECHVEAYPP 254
G + L C V+ Y P
Sbjct: 135 VCGDTTGSSVTLGCLVKGYFP 155
>pdb|1ZTX|L Chain L, West Nile Virus Envelope Protein Diii In Complex With
Neutralizing E16 Antibody Fab
Length = 212
Score = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 39/179 (21%), Positives = 62/179 (34%), Gaps = 40/179 (22%)
Query: 160 GGHPTPRISWRRENNAILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV----GK 212
G P ISW + +P TG L I + ED YYC G
Sbjct: 41 GQSPKLLISWASTRHTGVPDRFTGSGSGTDYTLTISSVQAEDLALYYCQQHYTTPLTFGA 100
Query: 213 GTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI--------------- 257
GT+ + + AP +++ P Q + C + + P I
Sbjct: 101 GTKLELK-RADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGV 159
Query: 258 --VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
W +D++ + YS+S +T+ + E ++ SY C A +K TS
Sbjct: 160 LNSWTDQDSK-----DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3J1S|L Chain L, Structure Of Adeno-Associated Virus-2 In Complex With
Neutralizing Monoclonal Antibody A20
Length = 214
Score = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 46/204 (22%), Positives = 74/204 (36%), Gaps = 55/204 (26%)
Query: 150 GQPVQLECFAGGHPTPRISWRRE--NNA--ILPTGG--------SIYRGS------ILKI 191
G V + C A R++W ++ NA +L +G S + GS L I
Sbjct: 16 GDRVTITCKASEDIHNRLAWYKQKPGNAPRLLISGATSLETGVPSRFSGSGSGKDYTLSI 75
Query: 192 PQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLEC 247
+ ED TYYC + G GT I + AP +++ P Q + C
Sbjct: 76 TSLQNEDVATYYCQQYWIGPFTFGSGTNLEIK-RADAAPTVSIFPPSSEQLTSGGASVVC 134
Query: 248 HVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDTTI 290
+ + P I W +D++ + YS+S +T+
Sbjct: 135 FLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------STL 179
Query: 291 RVITIEKRQYGSYICRAANKLGTS 314
+ E ++ SY C A +K TS
Sbjct: 180 TLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1NLD|H Chain H, Fab Fragment Of A Neutralizing Antibody Directed Against
An Epitope Of Gp41 From Hiv-1
Length = 215
Score = 33.5 bits (75), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 27/69 (39%), Gaps = 2/69 (2%)
Query: 188 ILKIPQITKEDRGTYYCVAENG--VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
K+ + DR YYC G G+GT ++ AP + P G + L
Sbjct: 79 FFKMNSLQPNDRAIYYCARRGGDFWGQGTTVTVSSASTTAPSVYPLAPVSGDQTNSSVTL 138
Query: 246 ECHVEAYPP 254
C V+ Y P
Sbjct: 139 GCLVKGYFP 147
>pdb|2WNG|A Chain A, Complete Extracellular Structure Of Human Signal
Regulatory Protein (Sirp) Alpha
Length = 327
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 35/87 (40%), Gaps = 13/87 (14%)
Query: 189 LKIPQITKEDRGTYYCV--------AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+ I IT D GTYYCV E G GT ++ + APV++ P R Q
Sbjct: 76 ISISNITPADAGTYYCVKFRKGSPDTEFKSGAGTELSVRAKPS-APVVSGPAARA--TPQ 132
Query: 241 YDMDLECHVEAYPPPAIV--WIKEDTQ 265
+ + C + P I W K +
Sbjct: 133 HTVSFTCESHGFSPRDITLKWFKNGNE 159
>pdb|1IFH|L Chain L, A Detailed Analysis Of The Free And Bound Conformation Of
An Antibody: X-Ray Structures Of Anti-Peptide Fab
17(Slash)9 And Three Different Fab-Peptide Complexes
Length = 218
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 44/224 (19%), Positives = 75/224 (33%), Gaps = 61/224 (27%)
Query: 136 VISDNSTRSLVVSEGQPVQLEC------FAGGHPTPRISWRRENNAILP----------- 178
++ S SL V+ G+ V + C F G ++W ++ P
Sbjct: 2 IVMTQSPSSLTVTAGEKVTMSCTSSQSLFNSGKQKNYLTWYQQKPGQPPKVLIYWASTRE 61
Query: 179 -------TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPV 227
TG L I + ED YYC + G GT+ + + AP
Sbjct: 62 SGVPDRFTGSGSGTDFTLTISSVQAEDLAVYYCQNDYSNPLTFGGGTKLELK-RADAAPT 120
Query: 228 ITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTN 270
+++ P Q + C + + P I W +D++
Sbjct: 121 VSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK----- 175
Query: 271 NQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 209
>pdb|1A5F|L Chain L, Fab Fragment Of A Monoclonal Anti-E-Selectin Antibody
Length = 220
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 44/201 (21%), Positives = 71/201 (35%), Gaps = 43/201 (21%)
Query: 141 STRSLVVSEGQPVQLECFA---GGHPTPRISWRRENNAILP---TGGSIYRGSILKIPQI 194
S++SL+ S Q L + G P I W + +P TG L I +
Sbjct: 25 SSQSLLNSGAQKNYLTWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLSISGV 84
Query: 195 TKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVE 250
ED YYC G GT+ + + AP +++ P Q + C +
Sbjct: 85 QAEDLAVYYCQNNYNYPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGASVVCFLN 143
Query: 251 AYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVI 293
+ P I W +D++ + YS+S +T+ +
Sbjct: 144 NFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------STLTLT 188
Query: 294 TIEKRQYGSYICRAANKLGTS 314
E ++ SY C A +K TS
Sbjct: 189 KDEYERHNSYTCEATHKTSTS 209
>pdb|4ZNB|A Chain A, Metallo-Beta-Lactamase (C181s Mutant)
pdb|4ZNB|B Chain B, Metallo-Beta-Lactamase (C181s Mutant)
Length = 232
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 43/90 (47%), Gaps = 12/90 (13%)
Query: 109 GYYRCQVIIGINNKISAEVDLQVRRP-PVISDNSTRSLVVS-EGQPVQLECFAGGHPTPR 166
GY + + + N+++ +DL + PV T SL VS +G P+Q GGH T
Sbjct: 92 GYLQKKGVQSYANQMT--IDLAKEKGLPVPEHGFTDSLTVSLDGMPLQCYYLGGGHATDN 149
Query: 167 I-SWRRENNAILPTGGSIYRGSILKIPQIT 195
I W LPT ++ GS+LK Q T
Sbjct: 150 IVVW-------LPTENILFGGSMLKDNQAT 172
>pdb|1IKF|L Chain L, A Conformation Of Cyclosporin A In Aqueous Environment
Revealed By The X-Ray Structure Of A Cyclosporin-Fab
Complex
Length = 214
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 46/213 (21%), Positives = 81/213 (38%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V + C A + ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTISCRASQDISTYLNWYQQKPDGTVKLLIFYTSRLRSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + +ED TY+C + + G GT+ I + + AP +++ P Q
Sbjct: 67 SGTDYSLTISNLEQEDIATYFCQQGSRIPPTFGGGTKLEI-LRADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3MUG|A Chain A, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|C Chain C, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|E Chain E, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|G Chain G, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|I Chain I, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
pdb|3MUG|K Chain K, Crystal Structure Of Human Fab Pg16, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
Length = 216
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 62/137 (45%), Gaps = 8/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L I + ED G Y+C + G GT+ + + + AP +T+ P +
Sbjct: 75 LTISGLHIEDEGDYFCSSLTDRSHRIFGGGTKVTVLGQPKAAPSVTLFPPSSEELQANKA 134
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQYG 301
L C + + P A+ V K D+ V + + S + +++ ++ +T E+ + +
Sbjct: 135 TLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSK-QSNNKYAASSYLSLTPEQWKSHK 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|3MME|L Chain L, Structure And Functional Dissection Of Pg16, An Antibody
With Broad And Potent Neutralization Of Hiv-1
pdb|3MME|B Chain B, Structure And Functional Dissection Of Pg16, An Antibody
With Broad And Potent Neutralization Of Hiv-1
pdb|3MME|D Chain D, Structure And Functional Dissection Of Pg16, An Antibody
With Broad And Potent Neutralization Of Hiv-1
Length = 216
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 62/137 (45%), Gaps = 8/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L I + ED G Y+C + G GT+ + + + AP +T+ P +
Sbjct: 75 LTISGLHIEDEGDYFCSSLTDRSHRIFGGGTKVTVLGQPKAAPSVTLFPPSSEELQANKA 134
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQYG 301
L C + + P A+ V K D+ V + + S + +++ ++ +T E+ + +
Sbjct: 135 TLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSK-QSNNKYAASSYLSLTPEQWKSHK 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|3Q3G|C Chain C, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|A Chain A, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|F Chain F, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3Q3G|J Chain J, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|C Chain C, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|A Chain A, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|F Chain F, Crystal Structure Of A-Domain In Complex With Antibody
pdb|3QA3|J Chain J, Crystal Structure Of A-Domain In Complex With Antibody
Length = 220
Score = 33.5 bits (75), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 45/217 (20%), Positives = 77/217 (35%), Gaps = 43/217 (19%)
Query: 125 AEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFA---GGHPTPRISWRRENNAILP--- 178
+ + + V +S S+++L+ S Q L + G P I W + +P
Sbjct: 9 SSLGVSVGEKVTMSCKSSQNLLYSSNQKNYLAWYQQKPGQSPKLLIYWASTRESGVPDRF 68
Query: 179 TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPR 234
TG L I + ED YYC G GT+ + + AP +++ P
Sbjct: 69 TGTGSGTDFTLTISSVKAEDLAVYYCQQYYSYPLTFGAGTKLELK-RADAAPTVSIFPPS 127
Query: 235 LGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSIS 277
Q + C + + P I W +D++ + YS+S
Sbjct: 128 SEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS 182
Query: 278 HFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 183 ----------STLTLTKDEYERHNSYTCEATHKTSTS 209
>pdb|2VWE|C Chain C, Crystal Structure Of Vascular Endothelial Growth Factor-B
In Complex With A Neutralizing Antibody Fab Fragment
pdb|2VWE|J Chain J, Crystal Structure Of Vascular Endothelial Growth Factor-B
In Complex With A Neutralizing Antibody Fab Fragment
Length = 214
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 46/213 (21%), Positives = 80/213 (37%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V + C A + ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTISCRASQDISNFLNWYQQKPDGTVKLLIYYTSTLHSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + +ED TY+C + G GT+ I + AP +++ P Q
Sbjct: 67 SGTDYSLTISNLEQEDIATYFCQQGKTLPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W ++D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKEINVKWKIDGSERQNGVLDSWTEQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1FJ1|B Chain B, Lyme Disease Antigen Ospa In Complex With Neutralizing
Antibody Fab La-2
pdb|1FJ1|D Chain D, Lyme Disease Antigen Ospa In Complex With Neutralizing
Antibody Fab La-2
Length = 213
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLP---ISTGSSLIIRD--S 83
S ++K G TV++ C S DY + W+K K + + TG D
Sbjct: 7 SGPELKKPGETVKISCKASGYTFTDYSMYWVKQAPGKGLKRMGWINTETGEPTYADDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA+ DT++ST L + +++ D Y C
Sbjct: 67 RFALSLDTSASTAYLHISNLKNEDTATYFC 96
Score = 32.3 bits (72), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 29/71 (40%), Gaps = 1/71 (1%)
Query: 189 LKIPQITKEDRGTYYCV-AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLEC 247
L I + ED TY+C + G+GT ++ P + P G + L C
Sbjct: 81 LHISNLKNEDTATYFCARGLDSWGQGTSVTVSSAKTTPPSVYPLAPGCGDTTGSSVTLGC 140
Query: 248 HVEAYPPPAIV 258
V+ Y P ++
Sbjct: 141 LVKGYFPESVT 151
>pdb|2V17|H Chain H, Structure Of The Complex Of Antibody Mn423 With A Fragment
Of Tau Protein
Length = 222
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 31/77 (40%), Gaps = 8/77 (10%)
Query: 189 LKIPQITKEDRGTYYCVAENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L++ + ED YYC +NG G+GT ++ P + P G
Sbjct: 83 LQMNALRAEDSAIYYCARDNGAARATFAYWGQGTLVTVSAAKTTPPSVYPLAPGCGDTTG 142
Query: 241 YDMDLECHVEAYPPPAI 257
+ L C V+ Y P ++
Sbjct: 143 SSVTLGCLVKGYFPESV 159
>pdb|1J89|A Chain A, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Tetragonal Crystal Form 2
pdb|1J89|B Chain B, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Tetragonal Crystal Form 2
pdb|1J89|C Chain C, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Tetragonal Crystal Form 2
pdb|1J89|D Chain D, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Tetragonal Crystal Form 2
pdb|1J89|E Chain E, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Tetragonal Crystal Form 2
pdb|1J88|A Chain A, Human High Affinity Fc Receptor Fc(epsilon)ri(alpha),
Tetragonal Crystal Form 1
pdb|1J88|B Chain B, Human High Affinity Fc Receptor Fc(epsilon)ri(alpha),
Tetragonal Crystal Form 1
pdb|1J88|C Chain C, Human High Affinity Fc Receptor Fc(epsilon)ri(alpha),
Tetragonal Crystal Form 1
pdb|1J88|D Chain D, Human High Affinity Fc Receptor Fc(epsilon)ri(alpha),
Tetragonal Crystal Form 1
pdb|1J88|E Chain E, Human High Affinity Fc Receptor Fc(epsilon)ri(alpha),
Tetragonal Crystal Form 1
Length = 172
Score = 33.1 bits (74), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 50/112 (44%), Gaps = 10/112 (8%)
Query: 97 TLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLE 156
+L + + + D+G Y+CQ +N S V L+V ++ S VV EGQP+ L
Sbjct: 52 SLNIVNAKFEDSGEYKCQ-HQQVNE--SEPVYLEVFSDWLLLQASAE--VVMEGQPLFLR 106
Query: 157 CFAG-GHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAE 207
C ++ + ++ A+ Y + I T ED GTYYC +
Sbjct: 107 CHGWRNWDVYKVIYYKDGEAL----KYWYENHNISITNATVEDSGTYYCTGK 154
>pdb|1MRC|H Chain H, Preparation, Characterization And Crystallization Of An
Antibody Fab Fragment That Recognizes Rna. Crystal
Structures Of Native Fab And Three Fab-Mononucleotide
Complexes
pdb|1MRD|H Chain H, Preparation, Characterization And Crystallization Of An
Antibody Fab Fragment That Recognizes Rna. Crystal
Structures Of Native Fab And Three Fab-Mononucleotide
Complexes
pdb|1MRE|H Chain H, Preparation, Characterization And Crystallization Of An
Antibody Fab Fragment That Recognizes Rna. Crystal
Structures Of Native Fab And Three Fab-Mononucleotide
Complexes
pdb|1MRF|H Chain H, Preparation, Characterization And Crystallization Of An
Antibody Fab Fragment That Recognizes Rna. Crystal
Structures Of Native Fab And Three Fab-Mononucleotide
Complexes
Length = 215
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 18/76 (23%), Positives = 31/76 (40%), Gaps = 4/76 (5%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
+ +++ +T ED YYC G G+GT ++ P + P G
Sbjct: 79 AYMQLSSLTSEDSAVYYCANLRGYFDYWGQGTTLTVSSAKTTPPSVYPLAPGCGDTTGSS 138
Query: 243 MDLECHVEAYPPPAIV 258
+ L C V+ Y P ++
Sbjct: 139 VTLGCLVKGYFPESVT 154
>pdb|3AB0|B Chain B, Crystal Structure Of Complex Of The Bacillus Anthracis
Major Spore Surface Protein Bcla With Scfv Antibody
Fragment
pdb|3AB0|E Chain E, Crystal Structure Of Complex Of The Bacillus Anthracis
Major Spore Surface Protein Bcla With Scfv Antibody
Fragment
Length = 117
Score = 33.1 bits (74), Expect = 0.25, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 36/81 (44%), Gaps = 6/81 (7%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLP-ISTGSSLIIRDS---RFAIRYDTA 92
GG+++L CS Y + W++ K E + ISTG +DS RF D A
Sbjct: 15 GGSLKLSCSASGFTFSSYAMSWVRQTPEKRLEWVASISTGGDTHYQDSVKGRFTTSRDNA 74
Query: 93 SSTYTLLVKDIQETDAGYYRC 113
+ TL + ++ D Y C
Sbjct: 75 RNILTLQMSSLRSEDTAMYYC 95
>pdb|3LRS|L Chain L, Structure Of Pg16, An Antibody With Broad And Potent
Neutralization Of Hiv-1
pdb|3LRS|B Chain B, Structure Of Pg16, An Antibody With Broad And Potent
Neutralization Of Hiv-1
pdb|3LRS|D Chain D, Structure Of Pg16, An Antibody With Broad And Potent
Neutralization Of Hiv-1
pdb|3LRS|F Chain F, Structure Of Pg16, An Antibody With Broad And Potent
Neutralization Of Hiv-1
Length = 211
Score = 33.1 bits (74), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 33/137 (24%), Positives = 62/137 (45%), Gaps = 8/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L I + ED G Y+C + G GT+ + + + AP +T+ P +
Sbjct: 73 LTISGLHIEDEGDYFCSSLTDRSHRIFGGGTKVTVLGQPKAAPSVTLFPPSSEELQANKA 132
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQYG 301
L C + + P A+ V K D+ V + + S + +++ ++ +T E+ + +
Sbjct: 133 TLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSK-QSNNKYAASSYLSLTPEQWKSHK 191
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 192 SYSCQVTHEGSTVEKTV 208
>pdb|1J87|A Chain A, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Hexagonal Crystal Form 1
Length = 172
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 50/112 (44%), Gaps = 10/112 (8%)
Query: 97 TLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLE 156
+L + + + D+G Y+CQ +N S V L+V ++ S VV EGQP+ L
Sbjct: 52 SLNIVNAKFEDSGEYKCQ-HQQVNE--SEPVYLEVFSDWLLLQASAE--VVMEGQPLFLR 106
Query: 157 CFAG-GHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAE 207
C ++ + ++ A+ Y + I T ED GTYYC +
Sbjct: 107 CHGWRNWDVYKVIYYKDGEAL----KYWYENHNISITNATVEDSGTYYCTGK 154
>pdb|3TV3|L Chain L, Crystal Structure Of Broad And Potent Hiv-1 Neutralizing
Antibody Pgt128 In Complex With Man9
Length = 211
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 30/136 (22%), Positives = 57/136 (41%), Gaps = 6/136 (4%)
Query: 189 LKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L + + +D YYC + G G GT+ + + + AP +T+ P +
Sbjct: 70 LTVSGLQTDDEAVYYCGSLVGNWDVIFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKA 129
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGS 302
L C + + P A+ V K D+ V + + S + + + + + + + S
Sbjct: 130 TLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRS 189
Query: 303 YICRAANKLGTSEKTV 318
Y C+ ++ T EKTV
Sbjct: 190 YSCQVTHEGSTVEKTV 205
>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 = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 31/77 (40%), Gaps = 8/77 (10%)
Query: 189 LKIPQITKEDRGTYYCVAENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L++ + ED YYC +NG G+GT ++ P + P G
Sbjct: 83 LQMNALRAEDSAIYYCARDNGAARATFAYWGQGTLVTVSAAKTTPPSVYPLAPGCGDTTG 142
Query: 241 YDMDLECHVEAYPPPAI 257
+ L C V+ Y P ++
Sbjct: 143 SSVTLGCLVKGYFPESV 159
>pdb|3QQN|A Chain A, The Retinal Specific Cd147 Ig0 Domain: From Molecular
Structure To Biological Activity
pdb|3QQN|B Chain B, The Retinal Specific Cd147 Ig0 Domain: From Molecular
Structure To Biological Activity
Length = 137
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 28/76 (36%), Gaps = 17/76 (22%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRG-----------------SILKIP 192
G V+L C A G P P I W E ++ G S + I
Sbjct: 36 GGSVELHCEAVGSPVPEIQWWFEGQGPNDIXSQLWDGARLDRVHIHATYHQHAASTISID 95
Query: 193 QITKEDRGTYYCVAEN 208
+ +ED GTY C A N
Sbjct: 96 TLVEEDTGTYECRASN 111
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 31/73 (42%), Gaps = 6/73 (8%)
Query: 243 MDLECHVEAYPPPAIVWIKE-----DTQQVLTNNQHYSISHF-ATADEFTDTTIRVITIE 296
++L C P P I W E D L + H AT + +TI + T+
Sbjct: 39 VELHCEAVGSPVPEIQWWFEGQGPNDIXSQLWDGARLDRVHIHATYHQHAASTISIDTLV 98
Query: 297 KRQYGSYICRAAN 309
+ G+Y CRA+N
Sbjct: 99 EEDTGTYECRASN 111
>pdb|1CLO|L Chain L, Anti-Carcinoembryonic Antigen Monoclonal Antibody A5b7
Length = 213
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 72 LTISRVEAEDAATYYCQHWSSKPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|3BSZ|L Chain L, Crystal Structure Of The Transthyretin-Retinol Binding
Protein-Fab Complex
pdb|3BSZ|M Chain M, Crystal Structure Of The Transthyretin-Retinol Binding
Protein-Fab Complex
Length = 215
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 50/217 (23%), Positives = 76/217 (35%), Gaps = 59/217 (27%)
Query: 141 STRSLVVSEGQPVQLECFAG------------------GHPTPRISWRREN-NAILPT-- 179
S SL VS GQ + C A G P + +R N + +P
Sbjct: 7 SPSSLAVSLGQRATISCRASESVDSYGNSFMHWYQQKPGQPPKLLIYRASNLESGIPARF 66
Query: 180 GGSIYRGSI-LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPR 234
GS R L I + +D TYYC N G GT+ I + AP +++ P
Sbjct: 67 SGSGSRTDFTLTINPVEADDVATYYCQQSNEDPYTFGGGTKLEIK-RADAAPTVSIFPPS 125
Query: 235 LGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSIS 277
Q + C + + P I W +D++ + YS+S
Sbjct: 126 SEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS 180
Query: 278 HFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 ----------STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|1F2Q|A Chain A, Crystal Structure Of The Human High-Affinity Ige Receptor
pdb|1J86|A Chain A, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Monoclinic Crystal Form 2
pdb|1J86|B Chain B, Human High Affinity Fc Receptor Fc(Epsilon)ri(Alpha),
Monoclinic Crystal Form 2
pdb|1RPQ|A Chain A, High Affinity Ige Receptor (Alpha Chain) Complexed With
Tight-Binding E131 'zeta' Peptide From Phage Display
pdb|1RPQ|B Chain B, High Affinity Ige Receptor (Alpha Chain) Complexed With
Tight-Binding E131 'zeta' Peptide From Phage Display
pdb|1RPQ|C Chain C, High Affinity Ige Receptor (Alpha Chain) Complexed With
Tight-Binding E131 'zeta' Peptide From Phage Display
pdb|1RPQ|D Chain D, High Affinity Ige Receptor (Alpha Chain) Complexed With
Tight-Binding E131 'zeta' Peptide From Phage Display
Length = 176
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 50/112 (44%), Gaps = 10/112 (8%)
Query: 97 TLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLE 156
+L + + + D+G Y+CQ +N S V L+V ++ S VV EGQP+ L
Sbjct: 52 SLNIVNAKFEDSGEYKCQ-HQQVNE--SEPVYLEVFSDWLLLQASAE--VVMEGQPLFLR 106
Query: 157 CFAG-GHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAE 207
C ++ + ++ A+ Y + I T ED GTYYC +
Sbjct: 107 CHGWRNWDVYKVIYYKDGEAL----KYWYENHNISITNATVEDSGTYYCTGK 154
>pdb|4DVB|B Chain B, The Crystal Structure Of The Fab Fragment Of Pro-upa
Antibody Mab-112
pdb|4DVB|L Chain L, The Crystal Structure Of The Fab Fragment Of Pro-upa
Antibody Mab-112
pdb|4DW2|L Chain L, The Crystal Structure Of Upa In Complex With The Fab
Fragment Of Mab- 112
Length = 215
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 74 LTISSVETEDAATYYCQHYSAYPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 132
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 133 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 177
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|3R4D|A Chain A, Crystal Structure Of Mouse Coronavirus Receptor-Binding
Domain Complexed With Its Murine Receptor
pdb|3R4D|C Chain C, Crystal Structure Of Mouse Coronavirus Receptor-Binding
Domain Complexed With Its Murine Receptor
Length = 208
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 34/135 (25%), Positives = 50/135 (37%), Gaps = 3/135 (2%)
Query: 94 STYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPV 153
S +LL + I D G Y + + A V V +P + V E V
Sbjct: 69 SNGSLLFQMITMKDMGVYTLDMTDENYRRTQATVRFHVHQPVTQPFLQVTNTTVKELDSV 128
Query: 154 QLECFAGGHPTPRISWRRENNAILPTGGSIY--RGSILKIPQITKEDRGTYYCVAENGVG 211
L C + I W + ++ T SIL+I I +ED G Y C N V
Sbjct: 129 TLTCLSND-IGANIQWLFNSQSLQLTERMTLSQNNSILRIDPIKREDAGEYQCEISNPVS 187
Query: 212 KGTRRNIAVEVEFAP 226
+I +++ F P
Sbjct: 188 VRRSNSIKLDIIFDP 202
>pdb|2XQB|L Chain L, Crystal Structure Of Anti-Il-15 Antibody In Complex With
Human Il-15
Length = 211
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 32/137 (23%), Positives = 59/137 (43%), Gaps = 8/137 (5%)
Query: 189 LKIPQITKEDRGTYYC------VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC ++E G GT+ + ++ + AP +T+ P +
Sbjct: 70 LAISGLRSEDEADYYCAWYDRELSEWVFGGGTKLTV-LQPKAAPSVTLFPPSSEELQANK 128
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 129 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHR 188
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 189 SYSCQVTHEGSTVEKTV 205
>pdb|1BBD|L Chain L, Three Dimensional Structure Of The Fab Fragment Of A
Neutralizing Antibody To Human Rhinovirus Serotype 2
pdb|1A3R|L Chain L, Fab Fragment (Antibody 8f5) Complexed With Peptide From
Human Rhinovirus (Serotype 2) Viral Capsid Protein Vp2
(Residues 156-170)
Length = 220
Score = 33.1 bits (74), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 44/201 (21%), Positives = 71/201 (35%), Gaps = 43/201 (21%)
Query: 141 STRSLVVSEGQPVQLECFA---GGHPTPRISWRRENNAILP---TGGSIYRGSILKIPQI 194
S++SL+ S Q L + G P I W + +P TG L I +
Sbjct: 25 SSQSLLNSRTQKNYLTWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLSISGV 84
Query: 195 TKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVE 250
ED YYC G GT+ + + AP +++ P Q + C +
Sbjct: 85 QAEDLAVYYCQNNYNYPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGASVVCFLN 143
Query: 251 AYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVI 293
+ P I W +D++ + YS+S +T+ +
Sbjct: 144 NFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------STLTLT 188
Query: 294 TIEKRQYGSYICRAANKLGTS 314
E ++ SY C A +K TS
Sbjct: 189 KDEYERHNSYTCEATHKTSTS 209
>pdb|3TYG|L Chain L, Crystal Structure Of Broad And Potent Hiv-1 Neutralizing
Antibody Pgt128 In Complex With A Glycosylated
Engineered Gp120 Outer Domain With Miniv3 (Eodmv3)
Length = 211
Score = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 30/136 (22%), Positives = 57/136 (41%), Gaps = 6/136 (4%)
Query: 189 LKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L + + +D YYC + G G GT+ + + + AP +T+ P +
Sbjct: 70 LTVSGLQTDDEAVYYCGSLVGNWDVIFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANKA 129
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGS 302
L C + + P A+ V K D+ V + + S + + + + + + + S
Sbjct: 130 TLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHRS 189
Query: 303 YICRAANKLGTSEKTV 318
Y C+ ++ T EKTV
Sbjct: 190 YSCQVTHEGSTVEKTV 205
>pdb|2Q87|A Chain A, The Crystal Structure Of The Human Irp60 Ectodomain
pdb|2Q87|B Chain B, The Crystal Structure Of The Human Irp60 Ectodomain
pdb|2Q87|C Chain C, The Crystal Structure Of The Human Irp60 Ectodomain
Length = 110
Score = 33.1 bits (74), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 20/81 (24%), Positives = 45/81 (55%), Gaps = 6/81 (7%)
Query: 38 IGGTVELKCSVQYAQDYPVI---WMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASS 94
+GG++ ++C Y +++ + W + + + + + + T S R+ R +IR A+
Sbjct: 10 VGGSLSVQCP--YEKEHRTLNKYWCRPPQIFLCDKI-VETKGSAGKRNGRVSIRDSPANL 66
Query: 95 TYTLLVKDIQETDAGYYRCQV 115
++T+ ++++ E DAG Y C V
Sbjct: 67 SFTVTLENLTEEDAGTYWCGV 87
>pdb|1DQD|L Chain L, Crystal Structure Of Fab Hgr-2 F6, A Competitive
Antagonist Of The Glucagon Receptor
Length = 221
Score = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 79 LTISRMEAEDAATYYCQQRSTYPPTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 137
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 138 VVCFLNNFYPRDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 182
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 183 STLTLTKDEYERHNSYTCEATHKTSTS 209
>pdb|4HK0|B Chain B, Uca Fab (unbound) From Ch65-ch67 Lineage
pdb|4HK0|D Chain D, Uca Fab (unbound) From Ch65-ch67 Lineage
pdb|4HK3|N Chain N, I2 Fab (unbound) From Ch65-ch67 Lineage
Length = 214
Score = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 39/204 (19%), Positives = 76/204 (37%), Gaps = 25/204 (12%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
S+ V+ GQ ++ C + + W ++ P +G +
Sbjct: 9 SVSVAPGQTARITCGGNNIGSKSVHWYQQKPGQAPVLVVYDDSDRPSGIPERFSGSNSGN 68
Query: 186 GSILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
+ L I ++ D YYC + G GT+ + + + AP +T+ P +
Sbjct: 69 TATLTISRVEAGDEADYYCQVWDSSSDHVVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQ 128
Query: 240 QYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKR 298
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 129 ANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWK 188
Query: 299 QYGSYICRAANKLGTSEKTVELFE 322
+ SY C+ ++ T EKTV E
Sbjct: 189 SHRSYSCQVTHEGSTVEKTVAPTE 212
>pdb|2VL5|B Chain B, Structure Of Anti-Collagen Type Ii Fab Ciic1
pdb|2VL5|D Chain D, Structure Of Anti-Collagen Type Ii Fab Ciic1
pdb|2Y5T|B Chain B, Crystal Structure Of The Pathogenic Autoantibody Ciic1 In
Complex With The Triple-Helical C1 Peptide
Length = 218
Score = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 49/214 (22%), Positives = 75/214 (35%), Gaps = 59/214 (27%)
Query: 144 SLVVSEGQPVQLECFAG------------------GHPTPRISWRREN-NAILPT--GGS 182
SL VS GQ + C A G P + +R N + +P GS
Sbjct: 10 SLTVSLGQRATISCRASKSVDSYGNSFMEWYQQKPGQPPKLLIYRASNLESGIPARFSGS 69
Query: 183 IYRGSI-LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
R L I + +D TYYC N G GT+ I + AP +++ P Q
Sbjct: 70 GSRTDFTLTINPVEADDVATYYCQQSNEDPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQ 128
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 129 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 180
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 -------STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3QEU|A Chain A, The Crystal Structure Of Tcr Dmf5
pdb|3QEU|D Chain D, The Crystal Structure Of Tcr Dmf5
Length = 202
Score = 33.1 bits (74), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 43/105 (40%), Gaps = 8/105 (7%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G L C+ W + K E L + S+ D RF + + AS +L
Sbjct: 16 GAIASLNCTYSDRGSQSFFWYRQYSGKSPE-LIMFIYSNGDKEDGRFTAQLNKASQYVSL 74
Query: 99 LVKDIQETDAGYYRCQV-------IIGINNKISAEVDLQVRRPPV 136
L++D Q +D+ Y C V I G ++S + ++Q P V
Sbjct: 75 LIRDSQPSDSATYLCAVNFGGGKLIFGQGTELSVKPNIQNPDPAV 119
>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 = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 25/59 (42%), Gaps = 5/59 (8%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAEN 208
G + L+C A G P P W + + +Y +P + E +GTY+C N
Sbjct: 18 GSTLVLQCVAVGSPIPHYQWFKNELPLTHETKKLYM-----VPYVDLEHQGTYWCHVYN 71
>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 = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 44/80 (55%), Gaps = 8/80 (10%)
Query: 83 SRFAIRYDTAS----STYTLLVKDIQETDAGYYRCQVIIGINNK-ISAEVDLQVRRPPVI 137
S++A R + + T+ + + + + D+G Y+C +GIN++ +S +V L+V + P +
Sbjct: 58 SKYAGRANLTNFPENGTFVVNIAQLSQDDSGRYKCG--LGINSRGLSFDVSLEVSQGPGL 115
Query: 138 SDNSTRSLVVSEGQPVQLEC 157
N T+ V G+ V + C
Sbjct: 116 L-NDTKVYTVDLGRTVTINC 134
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 32/154 (20%), Positives = 58/154 (37%), Gaps = 12/154 (7%)
Query: 82 DSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRRPPV-ISDN 140
+ R ++ + + T+T+++ + DAG+Y C + + E+ + P + + N
Sbjct: 392 EGRLSLLEEPGNGTFTVILNQLTSRDAGFYWCLTNGDTLWRTTVEIKIIEGEPNLKVPGN 451
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPT---GGSIY--------RGSIL 189
T L + P C + W LP+ G S R L
Sbjct: 452 VTAVLGETLKVPCHFPCKFSSYEKYWCKWNNTGCQALPSQDEGPSKAFVNCDENSRLVSL 511
Query: 190 KIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVE 223
+ +T+ D G Y+C + G G + V VE
Sbjct: 512 TLNLVTRADEGWYWCGVKQGHFYGETAAVYVAVE 545
Score = 28.1 bits (61), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 28/104 (26%), Positives = 49/104 (47%), Gaps = 12/104 (11%)
Query: 37 DIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYD---T 91
D+G TV + C + AQ ++ ++ P+ + S + + IR D T
Sbjct: 125 DLGRTVTINCPFKTENAQKRKSLYKQIG----LYPVLVIDSSGYVNPNYTGRIRLDIQGT 180
Query: 92 ASSTYTLLVKDIQETDAGYYRCQVIIGIN-NKISAEVDLQVRRP 134
+++++ ++ +DAG Y CQ N NK +A DLQV +P
Sbjct: 181 GQLLFSVVINQLRLSDAGQYLCQAGDDSNSNKKNA--DLQVLKP 222
>pdb|1ORS|A Chain A, X-Ray Structure Of The Kvap Potassium Channel Voltage
Sensor In Complex With An Fab
Length = 214
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 54/146 (36%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAEN---GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
L I + ED TYYC + G GT+ I + AP +++ P Q +
Sbjct: 74 LTISSMEAEDAATYYCHQFHRSLTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 132
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 133 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 177
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 178 TLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1OTS|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel And
Fab Complex
pdb|1OTS|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel And
Fab Complex
pdb|1OTT|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
E148a Mutant And Fab Complex
pdb|1OTT|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
E148a Mutant And Fab Complex
pdb|1OTU|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
E148q Mutant And Fab Complex
pdb|1OTU|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
E148q Mutant And Fab Complex
pdb|2FEC|O Chain O, Structure Of The E203q Mutant Of The Cl-H+ EXCHANGER CLC-
Ec1 From E.Coli
pdb|2FEC|L Chain L, Structure Of The E203q Mutant Of The Cl-H+ EXCHANGER CLC-
Ec1 From E.Coli
pdb|2FED|D Chain D, Structure Of The E203q Mutant Of The Cl-H+ EXCHANGER CLC-
Ec1 From E.Coli
pdb|2FED|F Chain F, Structure Of The E203q Mutant Of The Cl-H+ EXCHANGER CLC-
Ec1 From E.Coli
pdb|2FEE|O Chain O, Structure Of The Cl-H+ EXCHANGER CLC-Ec1 From E.Coli In
Nabr
pdb|2FEE|L Chain L, Structure Of The Cl-H+ EXCHANGER CLC-Ec1 From E.Coli In
Nabr
pdb|2EXW|D Chain D, Crystal Structure Of A Ecclc-Fab Complex In The Absence Of
Bound Ions
pdb|2EXW|F Chain F, Crystal Structure Of A Ecclc-Fab Complex In The Absence Of
Bound Ions
pdb|2EXY|D Chain D, Crystal Structure Of The E148q Mutant Of Ecclc, Fab
Complexed In Absence Of Bound Ions
pdb|2EXY|F Chain F, Crystal Structure Of The E148q Mutant Of Ecclc, Fab
Complexed In Absence Of Bound Ions
pdb|2EZ0|D Chain D, Crystal Structure Of The S107aE148QY445A MUTANT OF ECCLC,
In Complex With A Fab Fragment
pdb|2EZ0|F Chain F, Crystal Structure Of The S107aE148QY445A MUTANT OF ECCLC,
In Complex With A Fab Fragment
pdb|2H2P|D Chain D, Crystal Structure Of Clc-Ec1 In Complex With Fab Fragment
In Secn-
pdb|2H2P|F Chain F, Crystal Structure Of Clc-Ec1 In Complex With Fab Fragment
In Secn-
pdb|2H2S|D Chain D, Crystal Structure Of E148a Mutant Of Clc-Ec1 In Secn-
pdb|2H2S|F Chain F, Crystal Structure Of E148a Mutant Of Clc-Ec1 In Secn-
pdb|2HLF|D Chain D, Structure Of The Escherichis Coli Clc Chloride Channel
Y445e Mutant And Fab Complex
pdb|2HLF|F Chain F, Structure Of The Escherichis Coli Clc Chloride Channel
Y445e Mutant And Fab Complex
pdb|2HT2|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
Y445h Mutant And Fab Complex
pdb|2HT2|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
Y445h Mutant And Fab Complex
pdb|2HT3|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
Y445l Mutant And Fab Complex
pdb|2HT3|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
Y445l Mutant And Fab Complex
pdb|2HT4|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
Y445w Mutant And Fab Complex
pdb|2HT4|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
Y445w Mutant And Fab Complex
pdb|2HTK|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
Y445a Mutant And Fab Complex
pdb|2HTK|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
Y445a Mutant And Fab Complex
pdb|2HTL|D Chain D, Structure Of The Escherichia Coli Clc Chloride Channel
Y445f Mutant And Fab Complex
pdb|2HTL|F Chain F, Structure Of The Escherichia Coli Clc Chloride Channel
Y445f Mutant And Fab Complex
pdb|2R9H|D Chain D, Crystal Structure Of Q207c Mutant Of Clc-Ec1 In Complex
With Fab
pdb|2R9H|F Chain F, Crystal Structure Of Q207c Mutant Of Clc-Ec1 In Complex
With Fab
pdb|3DET|D Chain D, Structure Of The E418a, Y445a Doubly Ungated Mutant Of
E.Coli Clc_ec1, Cl-H+ ANTIPORTER
pdb|3DET|F Chain F, Structure Of The E418a, Y445a Doubly Ungated Mutant Of
E.Coli Clc_ec1, Cl-H+ ANTIPORTER
pdb|3EJY|D Chain D, Structure Of E203h Mutant Of E.Coli Cl-H+ ANTIPORTER, CLC-
Ec1
pdb|3EJY|F Chain F, Structure Of E203h Mutant Of E.Coli Cl-H+ ANTIPORTER, CLC-
Ec1
pdb|3EJZ|D Chain D, Structure Of E203v Mutant E.Coli Cl-H+ EXCHANGER, CLC-Ec1
pdb|3EJZ|F Chain F, Structure Of E203v Mutant E.Coli Cl-H+ EXCHANGER, CLC-Ec1
pdb|4FG6|D Chain D, Structure Of Ecclc E148a Mutant In Glutamate
pdb|4FG6|F Chain F, Structure Of Ecclc E148a Mutant In Glutamate
pdb|4ENE|D Chain D, Structure Of The N- And C-Terminal Trimmed Clc-Ec1 Cl-H+
ANTIPORTER And Fab Complex
pdb|4ENE|F Chain F, Structure Of The N- And C-Terminal Trimmed Clc-Ec1 Cl-H+
ANTIPORTER And Fab Complex
Length = 211
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G GT+ I + + AP +++ P Q
Sbjct: 72 LTINTMEAEDAATYYCQQWSSHPQTFGGGTKLEI-LRADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|3TT3|L Chain L, Crystal Structure Of Leut In The Inward-Open Conformation
In Complex With Fab
Length = 218
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +D TYYC N G GT+ I + AP +++ P Q
Sbjct: 77 LTINPVETDDVATYYCQQSNEDPLTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|1A0Q|L Chain L, 29g11 Complexed With Phenyl [1-(1-N-Succinylamino)pentyl]
Phosphonate
Length = 212
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 47/212 (22%), Positives = 74/212 (34%), Gaps = 54/212 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN------------NAILPTGGSIYRGS- 187
S SL S G V + C A I W + + +LP S +RGS
Sbjct: 7 SPSSLSASLGGKVTITCKASQDIKKYIGWYQHKPGKQPRLLIHYTSTLLPGIPSRFRGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
I + ED TYYC+ + G GT+ I + AP +++ P Q
Sbjct: 67 SGRDYSFSISNLEPEDIATYYCLQYYNLRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLT 125
Query: 240 QYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATA 282
+ C + + I W +D++ + YS+S
Sbjct: 126 SGGASVVCFLNNFYSKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----- 175
Query: 283 DEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 -----STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1AHW|A Chain A, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1AHW|D Chain D, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1FGN|L Chain L, Monoclonal Murine Antibody 5g9-Anti-Human Tissue Factor
Length = 214
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +D TYYC+ G GT+ I + AP +++ P Q
Sbjct: 73 LTISSLESDDTATYYCLQHGESPYTFGGGTKLEIN-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2AJS|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Heptaethylene Glycol
pdb|2AJU|L Chain L, Cyrstal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
pdb|2AJV|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Cocaine
pdb|2AJX|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Transition State Analog
pdb|2AJY|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Ecgonine Methyl Ester And Benzoic Acid
pdb|2AJZ|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Ecgonine Methyl Ester
pdb|2AJZ|A Chain A, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Ecgonine Methyl Ester
pdb|2AK1|L Chain L, Crystal Structure Of Cocaine Catalytic Antibody 7a1 Fab'
In Complex With Benzoic Acid
Length = 216
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 56/147 (38%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYC--VAEN--GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+I ++ ED G YYC E G GT+ I + AP +++ P Q
Sbjct: 78 LEISRVKAEDVGVYYCQQFVEYPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2J6E|L Chain L, Crystal Structure Of An Autoimmune Complex Between A Human
Igm Rheumatoid Factor And Igg1 Fc Reveals A Novel Fc
Epitope And Evidence For Affinity Maturation
pdb|2J6E|M Chain M, Crystal Structure Of An Autoimmune Complex Between A Human
Igm Rheumatoid Factor And Igg1 Fc Reveals A Novel Fc
Epitope And Evidence For Affinity Maturation
Length = 234
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 31/137 (22%), Positives = 54/137 (39%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC + G GT+ + + + AP +T+ P +
Sbjct: 93 LAISGLRSEDEADYYCATWDDSLSAVIFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANK 152
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D V + S + + + + + + +
Sbjct: 153 ATLVCLISDFFPGAVTVAWKADGAPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHR 212
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 213 SYSCQVTHEGSTVEKTV 229
>pdb|3CXD|H Chain H, Crystal Structure Of Anti-Osteopontin Antibody 23c3 In
Complex With Its Epitope Peptide
pdb|3DSF|H Chain H, Crystal Structure Of Anti-Osteopontin Antibody 23c3 In
Complex With W43a Mutated Epitope Peptide
Length = 216
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 30/68 (44%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAENG--VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L++ + ED YYCV + G G+GT ++ V+ P + P G + L
Sbjct: 83 LQMNNLKTEDTAMYYCVRQMGDYWGQGTTLTVSSAVKTPPSVYPLAPGGGAISNSMVTLG 142
Query: 247 CHVEAYPP 254
C V Y P
Sbjct: 143 CLVNGYFP 150
>pdb|3QR2|A Chain A, Wild Type Cd147 Ig0 Domain
pdb|3QR2|B Chain B, Wild Type Cd147 Ig0 Domain
Length = 137
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 24/76 (31%), Positives = 30/76 (39%), Gaps = 17/76 (22%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENN------AILPTGGSIYR-----------GSILKIP 192
G V+L C A G P P I W E + L G + R S + I
Sbjct: 36 GGSVELHCEAVGSPVPEIQWWFEGQGPNDICSQLWDGARLDRVHIHATYHQHAASTISID 95
Query: 193 QITKEDRGTYYCVAEN 208
+ +ED GTY C A N
Sbjct: 96 TLVEEDTGTYECRASN 111
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 31/73 (42%), Gaps = 6/73 (8%)
Query: 243 MDLECHVEAYPPPAIVWIKED------TQQVLTNNQHYSISHFATADEFTDTTIRVITIE 296
++L C P P I W E Q+ + + AT + +TI + T+
Sbjct: 39 VELHCEAVGSPVPEIQWWFEGQGPNDICSQLWDGARLDRVHIHATYHQHAASTISIDTLV 98
Query: 297 KRQYGSYICRAAN 309
+ G+Y CRA+N
Sbjct: 99 EEDTGTYECRASN 111
>pdb|1EGJ|L Chain L, Domain 4 Of The Beta Common Chain In Complex With An
Antibody
Length = 215
Score = 32.7 bits (73), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 35/136 (25%), Positives = 54/136 (39%), Gaps = 15/136 (11%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +D TYYC N G GT+ I + AP +++ P Q
Sbjct: 77 LTIDPVETDDAATYYCQQNNEDPWTFGGGTKLEIK-RGDAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDT-----TIRVITIEKR 298
+ C + YP A V K D + Q+ ++ + D T T+ + E
Sbjct: 136 VVCFLNNFYPKDANVAWKIDGSE----RQNGVLNSWTDQDSKDSTYSMSSTLTLTKDEYE 191
Query: 299 QYGSYICRAANKLGTS 314
++ SY C A +K TS
Sbjct: 192 RHNSYTCEATHKTSTS 207
>pdb|1UZ6|F Chain F, Anti-Lewis X Fab Fragment Uncomplexed
pdb|1UZ6|H Chain H, Anti-Lewis X Fab Fragment Uncomplexed
pdb|1UZ6|P Chain P, Anti-Lewis X Fab Fragment Uncomplexed
pdb|1UZ6|W Chain W, Anti-Lewis X Fab Fragment Uncomplexed
Length = 217
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 29/71 (40%), Gaps = 5/71 (7%)
Query: 189 LKIPQITKEDRGTYYCVAENGV-----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L++ ++ ED YYC E G G+GT ++ AP + P +
Sbjct: 81 LQMSKVRSEDTALYYCARETGTRFDYWGQGTTLTVSSATTTAPSVYPLVPGCSDTSGSSV 140
Query: 244 DLECHVEAYPP 254
L C V+ Y P
Sbjct: 141 TLGCLVKGYFP 151
>pdb|1MIE|L Chain L, Crystal Structure Of The Fab Fragment Of Esterolytic
Antibody Ms5-393
pdb|1MJ7|L Chain L, Crystal Structure Of The Complex Of The Fab Fragment Of
Esterolytic Antibody Ms5-393 And A Transition-State
Analog
Length = 219
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+ ++ ED G YYC+ G GT+ + + AP +++ P Q
Sbjct: 78 LRTSRVEAEDVGVYYCMQHLEYPFTFGSGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 137 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 181
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|2NMS|A Chain A, The Crystal Structure Of The Extracellular Domain Of The
Inhibitor Receptor Expressed On Myeloid Cells Irem-1
Length = 124
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 19/75 (25%), Positives = 39/75 (52%), Gaps = 1/75 (1%)
Query: 70 LPISTGSSLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINNKISAEVDL 129
L ++GS ++ R +I+ + + T+T+ ++D+ +TDA Y C I N + V +
Sbjct: 49 LVKTSGSEQEVKRDRVSIKDNQKNRTFTVTMEDLMKTDADTYWCG-IEKTGNDLGVTVQV 107
Query: 130 QVRRPPVISDNSTRS 144
+ PV + ++ S
Sbjct: 108 TIDPAPVTQEETSSS 122
>pdb|3QDG|D Chain D, The Complex Between Tcr Dmf5 And Human Class I Mhc Hla-A2
With The Bound Mart-1(26-35)(A27l) Peptide
pdb|3QDJ|D Chain D, The Complex Between Tcr Dmf5 And Human Class I Mhc Hla-A2
With The Bound Mart-1(27-35) Nonameric Peptide
Length = 199
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 43/105 (40%), Gaps = 8/105 (7%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G L C+ W + K E L + S+ D RF + + AS +L
Sbjct: 15 GAIASLNCTYSDRGSQSFFWYRQYSGKSPE-LIMFIYSNGDKEDGRFTAQLNKASQYVSL 73
Query: 99 LVKDIQETDAGYYRCQV-------IIGINNKISAEVDLQVRRPPV 136
L++D Q +D+ Y C V I G ++S + ++Q P V
Sbjct: 74 LIRDSQPSDSATYLCAVNFGGGKLIFGQGTELSVKPNIQNPDPAV 118
>pdb|2BDN|L Chain L, Crystal Structure Of Human Mcp-1 Bound To A Blocking
Antibody, 11k2
Length = 214
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 34/147 (23%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC A G GT+ I + AP +++ P Q
Sbjct: 73 LSITSLQTEDVATYYCQQFWSAPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|7FAB|L Chain L, Crystal Structure Of Human Immunoglobulin Fragment Fab New
Refined At 2.0 Angstroms Resolution
Length = 208
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 33/138 (23%), Positives = 62/138 (44%), Gaps = 7/138 (5%)
Query: 187 SILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
+ L I + ED YYC + + G GT+ + + + AP +T+ P +
Sbjct: 66 ATLAITGLQAEDEADYYCQSYDRSLRVFGGGTKLTVLRQPKAAPSVTLFPPSSEELQANK 125
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQY 300
L C + + P A+ V K D V + + S + +++ ++ +T E+ + +
Sbjct: 126 ATLVCLISDFYPGAVTVAWKADGSPVKAGVETTTPSK-QSNNKYAASSYLSLTPEQWKSH 184
Query: 301 GSYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 185 KSYSCQVTHEGSTVEKTV 202
>pdb|1N5Y|L Chain L, Hiv-1 Reverse Transcriptase Crosslinked To Post-
Translocation Aztmp-Terminated Dna (Complex P)
pdb|1N6Q|L Chain L, Hiv-1 Reverse Transcriptase Crosslinked To Pre-
Translocation Aztmp-Terminated Dna (Complex N)
pdb|1T03|L Chain L, Hiv-1 Reverse Transcriptase Crosslinked To Tenofovir
Terminated Template-Primer (Complex P)
pdb|1R0A|L Chain L, Crystal Structure Of Hiv-1 Reverse Transcriptase
Covalently Tethered To Dna Template-primer Solved To 2.8
Angstroms
pdb|3KLH|C Chain C, Crystal Structure Of Azt-Resistant Hiv-1 Reverse
Transcriptase Crosslinked To Post-Translocation
Aztmp-Terminated Dna (Complex P)
Length = 211
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 47/213 (22%), Positives = 78/213 (36%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V + C A + ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTISCSASQDISSYLNWYQQKPEGTVKLLIYYTSSLHSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 67 SGTDYSLTISNLEPEDIATYYCQQYSKFPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3PHO|A Chain A, Crystal Structure Of S64-4 In Complex With Psbp
pdb|3PHQ|A Chain A, Crystal Structure Of S64-4 In Complex With Kdo
Length = 217
Score = 32.7 bits (73), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 55/146 (37%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
L I + +ED TYYC + G GT+ I + AP +++ P Q +
Sbjct: 77 LNIHPVEEEDAATYYCQHSRELRTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 135
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 136 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 180
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 181 TLTLTKDEYERHNSYTCEATHKTSTS 206
>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 = 32.7 bits (73), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 32/145 (22%), Positives = 54/145 (37%), Gaps = 32/145 (22%)
Query: 146 VVSEGQPVQLECFAGGH--PTPRISWRREN-NAILPTGGSIYRGS--------------- 187
+V G V++ C A G+ + I+W ++ L G+IY GS
Sbjct: 11 LVQPGASVKMSCKASGYTFSSYWINWEKQRPGKGLEWIGNIYPGSGTVNYDDKFKSKATL 70
Query: 188 ---------ILKIPQITKEDRGTYYCV-----AENGVGKGTRRNIAVEVEFAPVITVPKP 233
+++ +T ED YYC A + G+GT ++ P + P
Sbjct: 71 TIDTSSNTAYMQLSSLTSEDSAVYYCTRGGSHAMDYWGQGTSVTVSSAKTTPPSVYPLAP 130
Query: 234 RLGQALQYDMDLECHVEAYPPPAIV 258
G + L C V+ Y P ++
Sbjct: 131 GCGDTTGSSVTLGCLVKGYFPESVT 155
>pdb|3UBX|H Chain H, Crystal Structure Of The Mouse Cd1d-C20:2-Agalcer-L363 Mab
Fab Complex
pdb|3UBX|G Chain G, Crystal Structure Of The Mouse Cd1d-C20:2-Agalcer-L363 Mab
Fab Complex
Length = 222
Score = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 31/76 (40%), Gaps = 8/76 (10%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
+ L+I + ED TY C + G+ G+GT ++ AP + P G
Sbjct: 79 AYLEINNLKNEDMATYLCASAAGIRWAWFAWWGQGTLVTVSAAKTTAPSVYPLAPVCGDT 138
Query: 239 LQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 139 TGSSVTLGCLVKGYFP 154
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 42/96 (43%), Gaps = 7/96 (7%)
Query: 31 SQEQIKDIGGTVELKCSVQ-YA-QDYPVIWMKVDRNKVTEPLP---ISTGSSLIIRD--S 83
S ++K G TV + C Y+ +Y + W+K K + + TG D
Sbjct: 7 SGPELKKPGETVRISCKASGYSFTNYGMHWVKQAPGKGLKWVGWINTYTGEPTYADDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGI 119
RFA +T++ST L + +++ D Y C GI
Sbjct: 67 RFAFSLETSASTAYLEINNLKNEDMATYLCASAAGI 102
>pdb|1UB6|H Chain H, Crystal Structure Of Antibody 19g2 With Sera Ligand
pdb|1UB6|A Chain A, Crystal Structure Of Antibody 19g2 With Sera Ligand
Length = 208
Score = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 35/141 (24%), Positives = 53/141 (37%), Gaps = 29/141 (20%)
Query: 146 VVSEGQPVQLECFAGGHPTPR--ISW-------RRENNAILPTGGSIY-------RGSI- 188
+V G ++L C A G R +SW R E A + +GG Y R +I
Sbjct: 10 LVKPGGSLKLSCTASGITFSRYIMSWVRQIPEKRLEWVASISSGGITYYPDSVAGRFTIS 69
Query: 189 ---------LKIPQITKEDRGTYYCVAENG---VGKGTRRNIAVEVEFAPVITVPKPRLG 236
L++ + ED YYC G G+GT ++ P + P G
Sbjct: 70 RDNVRNILYLQMSSLRSEDTALYYCARGQGRPYWGQGTLVTVSAAKTTPPSVYPAAPGCG 129
Query: 237 QALQYDMDLECHVEAYPPPAI 257
+ L C V+ Y P ++
Sbjct: 130 DTTGSSVTLGCLVKGYFPESV 150
>pdb|1F58|L Chain L, Igg1 Fab Fragment (58.2) Complex With 24-Residue Peptide
(Residues 308-333 Of Hiv-1 Gp120 (Mn Isolate) With Ala
To Aib Substitution At Position 323
pdb|2F58|L Chain L, Igg1 Fab Fragment (58.2) Complex With 12-Residue Cyclic
Peptide (Including Residues 315-324 Of Hiv-1 Gp120) (Mn
Isolate)
Length = 216
Score = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 35/155 (22%), Positives = 58/155 (37%), Gaps = 41/155 (26%)
Query: 185 RGS----ILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLG 236
RGS L I + +ED TYYC + G GT+ + + AP +++ P
Sbjct: 69 RGSGTDFTLNIHPVEEEDAATYYCQQSHEDPLTFGAGTKLELK-RADAAPTVSIFPPSSE 127
Query: 237 QALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHF 279
Q + C + + P I W +D++ + YS+S
Sbjct: 128 QLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS-- 180
Query: 280 ATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 --------STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3F58|L Chain L, Igg1 Fab Fragment (58.2) Complex With 12-Residue Cyclic
Peptide (Including Residues 315-324 Of Hiv-1 Gp120 (Mn
Isolate); H315s Mutation
Length = 215
Score = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 35/155 (22%), Positives = 58/155 (37%), Gaps = 41/155 (26%)
Query: 185 RGS----ILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLG 236
RGS L I + +ED TYYC + G GT+ + + AP +++ P
Sbjct: 69 RGSGTDFTLNIHPVEEEDAATYYCQQSHEDPLTFGAGTKLELK-RADAAPTVSIFPPSSE 127
Query: 237 QALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHF 279
Q + C + + P I W +D++ + YS+S
Sbjct: 128 QLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS-- 180
Query: 280 ATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 --------STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|1E6O|L Chain L, Crystal Structure Of Fab13b5 Against Hiv-1 Capsid Protein
P24
Length = 212
Score = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 53/146 (36%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAEN---GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
L I + ED YYC N G GT+ I + AP +++ P Q +
Sbjct: 72 LTISSMEAEDAAIYYCQQWNYPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 130
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 131 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 175
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 176 TLTLTKDEYERHNSYTCEATHKTSTS 201
>pdb|3I2C|L Chain L, Crystal Structure Of Anti-Il-23 Antibody Cnto4088
Length = 218
Score = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 77 LNIHPVEAEDAATYYCQHSGELPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|2R29|L Chain L, Neutralization Of Dengue Virus By A Serotype
Cross-Reactive Antibody Elucidated By Cryoelectron
Microscopy And X-Ray Crystallography
Length = 217
Score = 32.7 bits (73), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +D TYYC N G GT+ I + AP +++ P Q
Sbjct: 77 LTINPVEADDVATYYCQQTNVDPWAFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3CMO|L Chain L, Hiv Neutralizing Monoclonal Antibody Yz18
pdb|3CMO|X Chain X, Hiv Neutralizing Monoclonal Antibody Yz18
Length = 210
Score = 32.7 bits (73), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 55/146 (37%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
L I + ED TYYC + + G GT+ I + AP +++ P Q +
Sbjct: 73 LTISNLVPEDIATYYCQQYSKLFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 131
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 132 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 176
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 177 TLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|3QJH|A Chain A, The Crystal Structure Of The 5c.C7 Tcr
pdb|3QJH|C Chain C, The Crystal Structure Of The 5c.C7 Tcr
Length = 205
Score = 32.7 bits (73), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 30/73 (41%), Gaps = 12/73 (16%)
Query: 171 RENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEF 224
+EN + S R S L I ED GTY+C AE G GTR ++
Sbjct: 56 KENGRLKSAFDSKERYSTLHIRDAQLEDSGTYFCAAEASNTNKVVFGTGTR------LQV 109
Query: 225 APVITVPKPRLGQ 237
P I P P + Q
Sbjct: 110 LPNIQNPDPAVYQ 122
>pdb|1FE8|L Chain L, Crystal Structure Of The Von Willebrand Factor A3 Domain
In Complex With A Fab Fragment Of Igg Ru5 That Inhibits
Collagen Binding
pdb|1FE8|M Chain M, Crystal Structure Of The Von Willebrand Factor A3 Domain
In Complex With A Fab Fragment Of Igg Ru5 That Inhibits
Collagen Binding
pdb|1FE8|N Chain N, Crystal Structure Of The Von Willebrand Factor A3 Domain
In Complex With A Fab Fragment Of Igg Ru5 That Inhibits
Collagen Binding
Length = 211
Score = 32.7 bits (73), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 48/215 (22%), Positives = 79/215 (36%), Gaps = 59/215 (27%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S GQ V + C A ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGQKVTISCRASQDIGNYLNWYQQKPDGTVRLLIYYTSRLHSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLG 236
L I + ED TY+C +NG G GT+ + + AP ++ P
Sbjct: 67 SGTDYSLTISNLESEDIATYFC--QNGGTNPWTFGGGTKLEVK-RADAAPTTSIFPPSSE 123
Query: 237 QALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHF 279
Q + C + + P I W +D++ + YS+S
Sbjct: 124 QLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS-- 176
Query: 280 ATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 --------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1EO8|L Chain L, Influenza Virus Hemagglutinin Complexed With A
Neutralizing Antibody
Length = 210
Score = 32.7 bits (73), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 54/146 (36%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAENG---VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
L I + ED TYYC + G GT+ I + AP +++ P Q +
Sbjct: 72 LTISTMEAEDAATYYCHQRSSYPTFGGGTKLEIK-RADAAPTVSIFPPSKIQLTSGGASV 130
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 131 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 175
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 176 TLTLTKDEYERHNSYTCEATHKTSTS 201
>pdb|3S35|L Chain L, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
Length = 217
Score = 32.7 bits (73), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 48/214 (22%), Positives = 75/214 (35%), Gaps = 59/214 (27%)
Query: 144 SLVVSEGQPVQLECFAG------------------GHPTPRISWRREN-NAILPT--GGS 182
SL VS GQ + C A G P + +R N + +P GS
Sbjct: 10 SLAVSLGQRATISCRASESVDSYGNSFMHWYQQKPGQPPKLLIYRASNLESGIPARFSGS 69
Query: 183 IYRGSI-LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
R L I + +D TYYC N G GT+ + + AP +++ P Q
Sbjct: 70 GSRTDFTLTINPVEADDVATYYCQQSNEDPLTFGAGTKLELK-RADAAPTVSIFPPSSEQ 128
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 129 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 180
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 -------STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|1E6J|L Chain L, Crystal Structure Of Hiv-1 Capsid Protein (P24) In Complex
With Fab13b5
Length = 210
Score = 32.7 bits (73), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 53/146 (36%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAEN---GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
L I + ED YYC N G GT+ I + AP +++ P Q +
Sbjct: 72 LTISSMEAEDAAIYYCQQWNYPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 130
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 131 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 175
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 176 TLTLTKDEYERHNSYTCEATHKTSTS 201
>pdb|1F6A|A Chain A, Structure Of The Human Ige-Fc Bound To Its High Affinity
Receptor Fc(Epsilon)ri(Alpha)
Length = 176
Score = 32.7 bits (73), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 30/115 (26%), Positives = 50/115 (43%), Gaps = 16/115 (13%)
Query: 97 TLLVKDIQETDAGYYRCQVIIGINNKISAE---VDLQVRRPPVISDNSTRSLVVSEGQPV 153
+L + + + D+G Y+CQ ++ AE V L+V ++ S VV EGQP+
Sbjct: 52 SLNIVNAKFEDSGEYKCQ------HQQVAESEPVYLEVFSDWLLLQASAE--VVMEGQPL 103
Query: 154 QLECFAG-GHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAE 207
L C ++ + ++ A+ Y + I ED GTYYC +
Sbjct: 104 FLRCHGWRNWDVYKVIYYKDGEAL----KYWYENHAISITNAAAEDSGTYYCTGK 154
>pdb|1PSK|H Chain H, The Crystal Structure Of An Fab Fragment That Binds To The
Melanoma-Associated Gd2 Ganglioside
Length = 209
Score = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 31/68 (45%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAE--NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
+++ +T ED YYC ++ + G+GT ++ AP + P G + L
Sbjct: 81 MELRSLTSEDSAVYYCTSKSFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSAVTLG 140
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 141 CLVKGYFP 148
>pdb|3SM5|L Chain L, Influenza Hemagglutinin In Complex With A Neutralizing
Antibody
pdb|3SM5|M Chain M, Influenza Hemagglutinin In Complex With A Neutralizing
Antibody
pdb|3SM5|N Chain N, Influenza Hemagglutinin In Complex With A Neutralizing
Antibody
Length = 211
Score = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 41/202 (20%), Positives = 78/202 (38%), Gaps = 29/202 (14%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPR--ISWRRENNAILP------------------TGGSI 183
S+ V+ GQ ++ C GG+ R + W ++ P +G +
Sbjct: 9 SVSVAPGQTARITC--GGNDIGRKSVHWNQQKPGQAPVLVVCYDSDRPSGIPERFSGSNS 66
Query: 184 YRGSILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
+ L I ++ D YYC + G GT+ + + + AP +T+ P +
Sbjct: 67 GNTATLTISRVEAGDEADYYCQVWDSSSDHVIFGGGTKLTVLGQPKAAPSVTLFPPSSEE 126
Query: 238 ALQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIE 296
L C + + P A+ V K D+ V + + S + + + + +
Sbjct: 127 LQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQ 186
Query: 297 KRQYGSYICRAANKLGTSEKTV 318
+ + SY C+ ++ T EKTV
Sbjct: 187 WKSHRSYSCQVTHEGSTVEKTV 208
>pdb|1CGS|H Chain H, Local And Transmitted Conformational Changes On
Complexation Of An Anti-Sweetener Fab
pdb|2CGR|H Chain H, Local And Transmitted Conformational Changes On
Complexation Of An Anti-Sweetener Fab
Length = 214
Score = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 31/140 (22%), Positives = 51/140 (36%), Gaps = 31/140 (22%)
Query: 150 GQPVQLECFAGGHPTPR--ISWRREN--------NAILPTGGSI-----YRG-------- 186
G VQ+ C A G+ I W +E ILP G ++G
Sbjct: 15 GASVQISCKATGYTFSEYWIEWVKERPGHGLEWIGEILPGSGRTNYREKFKGKATFTADT 74
Query: 187 ----SILKIPQITKEDRGTYYCV----AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
+ +++ +T ED YYC + + G+GT ++ P + P G
Sbjct: 75 SSNTAYMQLSSLTSEDSAVYYCTRGYSSMDYWGQGTSVTVSAAKTTPPSVYPLAPGCGDT 134
Query: 239 LQYDMDLECHVEAYPPPAIV 258
+ L C V+ Y P ++
Sbjct: 135 TGSSVTLGCLVKGYFPESVT 154
>pdb|1SY6|L Chain L, Crystal Structure Of Cd3gammaepsilon Heterodimer In
Complex With Okt3 Fab Fragment
Length = 213
Score = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 36/158 (22%), Positives = 58/158 (36%), Gaps = 43/158 (27%)
Query: 184 YRGS------ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
+RGS L I + ED TYYC + G GT+ I + AP +++ P
Sbjct: 61 FRGSGSGTSYSLTISGMEAEDAATYYCQQWSSNPFTFGSGTKLEIN-RADTAPTVSIFPP 119
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 120 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 174
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 175 S----------STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1EJO|L Chain L, Fab Fragment Of Neutralising Monoclonal Antibody 4c4
Complexed With G-H Loop From Fmdv
Length = 216
Score = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 48/214 (22%), Positives = 75/214 (35%), Gaps = 59/214 (27%)
Query: 144 SLVVSEGQPVQLECFAG------------------GHPTPRISWRREN-NAILPT--GGS 182
SL VS GQ + C A G P + +R N + +P GS
Sbjct: 10 SLAVSLGQRATISCRASESVDSYGNSFMHWYQQKPGQPPKLLIYRASNLESGIPARFSGS 69
Query: 183 IYRGSI-LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
R L I + +D TYYC N G GT+ + + AP +++ P Q
Sbjct: 70 GSRTDFTLTINPVEADDVATYYCQQSNEDPLTFGAGTKLELK-RADAAPTVSIFPPSSEQ 128
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 129 LTSGGASVVCFLNNFYPKDINVRWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 180
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 -------STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|4FQQ|L Chain L, Crystal Structure Of Germline Antibody Pgt121-Gl Fab
pdb|4FQQ|A Chain A, Crystal Structure Of Germline Antibody Pgt121-Gl Fab
pdb|4FQQ|C Chain C, Crystal Structure Of Germline Antibody Pgt121-Gl Fab
pdb|4FQQ|E Chain E, Crystal Structure Of Germline Antibody Pgt121-Gl Fab
Length = 215
Score = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 39/205 (19%), Positives = 76/205 (37%), Gaps = 26/205 (12%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
S+ V+ GQ ++ C + + W ++ P +G +
Sbjct: 9 SVSVAPGQTARITCGGNNIGSKSVHWYQQKPGQAPVLVVYDDSDRPSGIPERFSGSNSGN 68
Query: 186 GSILKIPQITKEDRGTYYCVAENG-------VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
+ L I ++ D YYC + G GT+ + + + AP +T+ P +
Sbjct: 69 TATLTISRVEAGDEADYYCQVWDSSSDHPWVFGGGTKLTVLGQPKAAPSVTLFPPSSEEL 128
Query: 239 LQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK 297
L C + + P A+ V K D+ V + + S + + + + +
Sbjct: 129 QANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQW 188
Query: 298 RQYGSYICRAANKLGTSEKTVELFE 322
+ + SY C+ ++ T EKTV E
Sbjct: 189 KSHRSYSCQVTHEGSTVEKTVAPTE 213
>pdb|3J1S|H Chain H, Structure Of Adeno-Associated Virus-2 In Complex With
Neutralizing Monoclonal Antibody A20
Length = 218
Score = 32.7 bits (73), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 20/78 (25%), Positives = 31/78 (39%), Gaps = 7/78 (8%)
Query: 188 ILKIPQITKEDRGTYYCV-AENGV------GKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L + +T ED TYYC + G G+GT ++ P + P G
Sbjct: 81 FLHLNSVTTEDTATYYCARGDYGYEWFTYWGQGTLVTVSAAKTTPPSVYPLAPGCGDTTG 140
Query: 241 YDMDLECHVEAYPPPAIV 258
+ L C V+ Y P ++
Sbjct: 141 SSVTLGCLVKGYFPESVT 158
>pdb|3RVW|C Chain C, Crystal Structure Of Der P 1 Complexed With Fab 4c1
Length = 212
Score = 32.7 bits (73), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED G YYC+ + G GT+ + + AP +++ P Q
Sbjct: 73 LTISSLEYEDMGIYYCLQYDEFPYTFGGGTKLEMK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3RVT|C Chain C, Structure Of 4c1 Fab In P212121 Space Group
pdb|3RVU|C Chain C, Structure Of 4c1 Fab In C2221 Space Group
pdb|3RVV|C Chain C, Crystal Structure Of Der F 1 Complexed With Fab 4c1
pdb|3RVX|C Chain C, Crystal Structure Of Der P 1 Complexed With Fab 4c1
Length = 213
Score = 32.7 bits (73), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED G YYC+ + G GT+ + + AP +++ P Q
Sbjct: 73 LTISSLEYEDMGIYYCLQYDEFPYTFGGGTKLEMK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2GFB|A Chain A, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|C Chain C, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|E Chain E, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|G Chain G, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|I Chain I, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|K Chain K, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|M Chain M, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
pdb|2GFB|O Chain O, Crystal Structure Of A Catalytic Fab Having Esterase-Like
Activity
Length = 214
Score = 32.3 bits (72), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 47/213 (22%), Positives = 75/213 (35%), Gaps = 61/213 (28%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG----------GS 182
SL S G+ V L C A + +SW ++ + L +G GS
Sbjct: 10 SLSASLGERVSLTCRASQEISGYLSWLQQKPDGTIKRLIYAASTLDSGVPKRFSGSRSGS 69
Query: 183 IYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
Y L I + ED YYC+ G GT+ I + AP +++ P Q
Sbjct: 70 DYS---LTISSLESEDFADYYCLQYASSPYTFGGGTKLEI-LRGGAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1Z3G|L Chain L, Crystal Structure Of Complex Between Pvs25 And Fab
Fragment Of Malaria Transmission Blocking Antibody 2a8
pdb|1Z3G|M Chain M, Crystal Structure Of Complex Between Pvs25 And Fab
Fragment Of Malaria Transmission Blocking Antibody 2a8
Length = 213
Score = 32.3 bits (72), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 36/158 (22%), Positives = 58/158 (36%), Gaps = 43/158 (27%)
Query: 184 YRGS------ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
+RGS L I + ED TYYC + G GT+ I + AP +++ P
Sbjct: 61 FRGSGSGTSYSLTISGMEAEDAATYYCQQWSSNPPTFGSGTKLEIN-RADTAPTVSIFPP 119
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 120 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 174
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 175 S----------STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|4D9R|L Chain L, Inhibiting Alternative Pathway Complement Activation By
Targeting The Exosite On Factor D
pdb|4D9R|D Chain D, Inhibiting Alternative Pathway Complement Activation By
Targeting The Exosite On Factor D
Length = 214
Score = 32.3 bits (72), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 46/196 (23%), Positives = 75/196 (38%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----TGGSI 183
D+QV + P SL S G V + C ++W ++ +P +GG+
Sbjct: 1 DIQVTQSP-------SSLSASVGDRVTITCITSTDIDDDMNWYQQKPGKVPKLLISGGNT 53
Query: 184 YRGSI--------------LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFA 225
R + L I + ED TYYC+ + + G+GT+ I V A
Sbjct: 54 LRPGVPSRFSGSGSGTDFTLTISSLQPEDVATYYCLQSDSLPYTFGQGTKVEIKRTVA-A 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 PSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS 171
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 172 -TYSLSSTLTLSKADY 186
>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 = 32.3 bits (72), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 52/140 (37%), Gaps = 31/140 (22%)
Query: 146 VVSEGQPVQLECFAGGH--PTPRISWRREN--------NAILPTGGSIY-----RG---- 186
V+ G V++ C A G+ T I W ++ ILP GS Y +G
Sbjct: 11 VMKPGASVKISCKATGYTFSTYWIEWVKQRPGHGLEWIGEILPGSGSTYYNEKFKGKATF 70
Query: 187 --------SILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPR 234
+ +++ +T ED YYC +G G+GT ++ P + P
Sbjct: 71 TADTSSNTAYMQLSSLTSEDSAVYYCARGDGNYGYWGQGTTLTVSSASTTPPSVFPLAPG 130
Query: 235 LGQALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 131 SAAQTNSMVTLGCLVKGYFP 150
>pdb|1FL3|L Chain L, Crystal Structure Of The Blue Fluorescent Antibody (19g2)
In Complex With Stilbene Hapten At 277k
pdb|1FL3|B Chain B, Crystal Structure Of The Blue Fluorescent Antibody (19g2)
In Complex With Stilbene Hapten At 277k
Length = 214
Score = 32.3 bits (72), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 33/148 (22%), Positives = 56/148 (37%), Gaps = 39/148 (26%)
Query: 189 LKIPQITKEDRGTYYCVAEN-----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L+I + ED G YYC A+N G GT+ + + AP +++ P Q
Sbjct: 77 LRINTVEAEDVGVYYC-AQNLELPPTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGA 134
Query: 244 DLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFT 286
+ C + + P I W +D++ + YS+S
Sbjct: 135 SVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--------- 180
Query: 287 DTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ Y C A +K TS
Sbjct: 181 -STLTLTKDEYERHNGYTCEATHKTSTS 207
>pdb|2HMI|C Chain C, Hiv-1 Reverse TranscriptaseFRAGMENT OF FAB 28DNA COMPLEX
pdb|1J5O|L Chain L, Crystal Structure Of Met184ile Mutant Of Hiv-1 Reverse
Transcriptase In Complex With Double Stranded Dna
Template- Primer
Length = 214
Score = 32.3 bits (72), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 47/213 (22%), Positives = 76/213 (35%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V + C A + ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTISCSASQDISSYLNWYQQKPEGTVKLLIYYTSSLHSGVPSAFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 67 SGTDYSLTISNLEPEDFATYYCQQYSKFPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVAWAIDGSAAANGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E SY C A +K TS
Sbjct: 177 ------STLTLTADEYEAANSYTCAATHKTSTS 203
>pdb|1FL3|H Chain H, Crystal Structure Of The Blue Fluorescent Antibody (19g2)
In Complex With Stilbene Hapten At 277k
pdb|1FL3|A Chain A, Crystal Structure Of The Blue Fluorescent Antibody (19g2)
In Complex With Stilbene Hapten At 277k
Length = 208
Score = 32.3 bits (72), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 51/138 (36%), Gaps = 29/138 (21%)
Query: 146 VVSEGQPVQLECFAGGHPTPR--ISW-------RRENNAILPTGGSIY-------RGSI- 188
+V G ++L C A G R +SW R E A + +GG Y R +I
Sbjct: 10 LVKPGGSLKLSCTASGITFSRYIMSWVRQIPEKRLEWVASISSGGITYYPDSVAGRFTIS 69
Query: 189 ---------LKIPQITKEDRGTYYCVAENG---VGKGTRRNIAVEVEFAPVITVPKPRLG 236
L++ + ED YYC G G+GT ++ P + P G
Sbjct: 70 RDNVRNILYLQMSSLRSEDTALYYCARGQGRPYWGQGTSVTVSAAKTTPPSVYPAAPGCG 129
Query: 237 QALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 130 DTTGSSVTLGCLVKGYFP 147
>pdb|4HBC|H Chain H, Crystal Structure Of A Conformation-Dependent Rabbit Igg
Fab Specific For Amyloid Prefibrillar Oligomers
Length = 215
Score = 32.3 bits (72), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 30/73 (41%), Gaps = 7/73 (9%)
Query: 189 LKIPQITKEDRGTYYCVAENGV-------GKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
LKI T ED TY+CV + G G GT ++ AP + P G
Sbjct: 77 LKITSPTTEDTATYFCVRKYGSEWGGDLWGPGTLVTVSSGQPKAPSVFPLAPCCGDTPSS 136
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 137 TVTLGCLVKGYLP 149
>pdb|1MJJ|B Chain B, High Resolution Crystal Structure Of The Complex Of The
Fab Fragment Of Esterolytic Antibody Ms6-12 And A
Transition- State Analog
pdb|1MJJ|H Chain H, High Resolution Crystal Structure Of The Complex Of The
Fab Fragment Of Esterolytic Antibody Ms6-12 And A
Transition- State Analog
pdb|1MJU|H Chain H, 1.22 Angstrom Resolution Crystal Structure Of The Fab
Fragment Of Esterolytic Antibody Ms6-12
Length = 227
Score = 32.3 bits (72), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 33/140 (23%), Positives = 52/140 (37%), Gaps = 31/140 (22%)
Query: 146 VVSEGQPVQLECFAGGHPTPR--ISWRREN-NAILPTGGSIYRGS--------------- 187
+V G V+L C A G+ I+W ++ L G+IY GS
Sbjct: 11 LVKPGASVKLSCKASGYTFTNYWINWVKQRPGQGLEWIGNIYPGSSYTHYNEKFKNKATL 70
Query: 188 ---------ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPR 234
+++ +T +D YYC + G G+GT ++ AP + P
Sbjct: 71 TVDTSSSTAYMQLSSLTSDDSAVYYCANKLGWFPYWGQGTLVTVSAAKTTAPSVYPLAPV 130
Query: 235 LGQALQYDMDLECHVEAYPP 254
G + L C V+ Y P
Sbjct: 131 CGDTSGSSVTLGCLVKGYFP 150
>pdb|1ADQ|L Chain L, Crystal Structure Of A Human Igm Rheumatoid Factor Fab In
Complex With Its Autoantigen Igg Fc
Length = 213
Score = 32.3 bits (72), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 40/204 (19%), Positives = 78/204 (38%), Gaps = 25/204 (12%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
S+ V+ GQ ++ C + + W ++ P +G +
Sbjct: 8 SVSVAPGQTARITCGGNNIGSKSVHWYQQKPGQAPVLVVYDDSDRPPGIPERFSGSNSGN 67
Query: 186 GSILKIPQITKEDRGTYYC-----VAENGV-GKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
+ L I ++ D YYC +++ V G GT+ + + + AP +T+ P +
Sbjct: 68 TATLTISRVEAGDEADYYCQVWDSSSDHAVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQ 127
Query: 240 QYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKR 298
L C + + P A+ V K D V + + S + + + + + +
Sbjct: 128 ANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWK 187
Query: 299 QYGSYICRAANKLGTSEKTVELFE 322
+ SY C+ ++ T EKTV E
Sbjct: 188 SHKSYSCQVTHEGSTVEKTVAPTE 211
>pdb|1E4W|H Chain H, Crossreactive Binding Of A Circularized Peptide To An
Anti- Tgfalpha Antibody Fab-Fragment
Length = 213
Score = 32.3 bits (72), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCV--AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
+++ +T ED YYC + G+GT ++ AP + P G + L
Sbjct: 81 MQLSSLTSEDSAVYYCARSPSDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 140
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 141 CLVKGYFP 148
>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 = 32.3 bits (72), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 33/139 (23%), Positives = 61/139 (43%), Gaps = 10/139 (7%)
Query: 189 LKIPQITKEDRGTYYCVAENG-------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L I ED YYC + + G GT+ + + + AP +T+ P +
Sbjct: 72 LTISGAQAEDDAEYYCSSRDKSGSRLSVFGGGTKLTVLSQPKAAPSVTLFPPSSEELQAN 131
Query: 242 DMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQ 299
L C + + P A+ V K D+ V + + S + +++ ++ +T E+ +
Sbjct: 132 KATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSK-QSNNKYAASSYLSLTPEQWKS 190
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 191 HRSYSCQVTHEGSTVEKTV 209
>pdb|1E4X|H Chain H, Crossreactive Binding Of A Circularized Peptide To An
Anti-Tgfalpha Antibody Fab-Fragment
Length = 217
Score = 32.3 bits (72), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCV--AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
+++ +T ED YYC + G+GT ++ AP + P G + L
Sbjct: 81 MQLSSLTSEDSAVYYCARSPSDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 140
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 141 CLVKGYFP 148
>pdb|1UB6|L Chain L, Crystal Structure Of Antibody 19g2 With Sera Ligand
pdb|1UB6|B Chain B, Crystal Structure Of Antibody 19g2 With Sera Ligand
Length = 213
Score = 32.3 bits (72), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 33/148 (22%), Positives = 56/148 (37%), Gaps = 39/148 (26%)
Query: 189 LKIPQITKEDRGTYYCVAEN-----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L+I + ED G YYC A+N G GT+ + + AP +++ P Q
Sbjct: 77 LRINTVEAEDVGVYYC-AQNLELPPTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGA 134
Query: 244 DLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFT 286
+ C + + P I W +D++ + YS+S
Sbjct: 135 SVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--------- 180
Query: 287 DTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ Y C A +K TS
Sbjct: 181 -STLTLTKDEYERHNGYTCEATHKTSTS 207
>pdb|3V6F|B Chain B, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6F|D Chain D, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6F|F Chain F, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6F|L Chain L, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6Z|B Chain B, Crystal Structure Of Hepatitis B Virus E-antigen
pdb|3V6Z|D Chain D, Crystal Structure Of Hepatitis B Virus E-antigen
Length = 219
Score = 32.3 bits (72), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 44/202 (21%), Positives = 71/202 (35%), Gaps = 44/202 (21%)
Query: 141 STRSLVVSEGQPVQLECFA---GGHPTPRISWRRENNAILP---TGGSIYRGSILKIPQI 194
S++S++ S Q L + G P I W + +P TG L I +
Sbjct: 25 SSQSVLYSSNQKNYLAWYQQKPGQSPKLLIYWASTRESGVPDRFTGSGSGTDFTLTISSV 84
Query: 195 TKEDRGTYYC-----VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHV 249
ED YYC G GT+ I + AP +++ P Q + C +
Sbjct: 85 QTEDLAVYYCHQYLSSYMYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASVVCFL 143
Query: 250 EAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRV 292
+ P I W +D++ + YS+S +T+ +
Sbjct: 144 NNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------STLTL 188
Query: 293 ITIEKRQYGSYICRAANKLGTS 314
E ++ SY C A +K TS
Sbjct: 189 TKDEYERHNSYTCEATHKTSTS 210
>pdb|2FAT|L Chain L, An Anti-Urokinase Plasminogen Activator Receptor (Upar)
Antibody: Crystal Structure And Binding Epitope
pdb|3BT2|L Chain L, Structure Of Urokinase Receptor, Urokinase And Vitronectin
Complex
Length = 212
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 53/146 (36%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAEN---GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
L I + ED YYC N G GT+ I + AP +++ P Q +
Sbjct: 72 LTISSMEAEDAAIYYCQQWNYPFTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 130
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 131 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 175
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 176 TLTLTKDEYERHNSYTCEATHKTSTS 201
>pdb|2FD6|L Chain L, Structure Of Human Urokinase Plasminogen Activator In
Complex With Urokinase Receptor And An Anti-Upar
Antibody At 1.9 A
Length = 214
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 53/146 (36%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAEN---GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
L I + ED YYC N G GT+ I + AP +++ P Q +
Sbjct: 72 LTISSMEAEDAAIYYCQQWNYPFTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 130
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 131 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 175
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 176 TLTLTKDEYERHNSYTCEATHKTSTS 201
>pdb|1E4X|I Chain I, Crossreactive Binding Of A Circularized Peptide To An
Anti-Tgfalpha Antibody Fab-Fragment
Length = 217
Score = 32.3 bits (72), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 18/68 (26%), Positives = 29/68 (42%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCV--AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
+++ +T ED YYC + G+GT ++ AP + P G + L
Sbjct: 81 MQLSSLTSEDSAVYYCARSPSDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSSVTLG 140
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 141 CLVKGYFP 148
>pdb|1FRG|H Chain H, Crystal Structure, Sequence, And Epitope Mapping Of A
Peptide Complex Of An Anti-Influenza Ha Peptide Antibody
Fab 26(Slash)9: Fine-Tuning Antibody Specificity
Length = 220
Score = 32.3 bits (72), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 30/75 (40%), Gaps = 8/75 (10%)
Query: 188 ILKIPQITKEDRGTYYCVA-----ENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
L++ + ED G YYC E G G+GT ++ AP + P G
Sbjct: 80 FLEMTSLKSEDAGLYYCARRERYDEKGFAYWGRGTLVTVSAAKTTAPSVYPLAPVCGDTT 139
Query: 240 QYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 140 GSSVTLGCLVKGYFP 154
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 24/82 (29%), Positives = 38/82 (46%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLP-ISTGSSLII-RDS---RFAIRYDT 91
GG ++L C+ + + W++ +K E + IS G +DS RF I D
Sbjct: 15 GGFLKLSCAASGFTFSSFGMSWVRHTPDKRLEWVATISNGGGYTYYQDSVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A +T L + ++ DAG Y C
Sbjct: 75 AKNTLFLEMTSLKSEDAGLYYC 96
>pdb|1OB1|A Chain A, Crystal Structure Of A Fab Complex Whith Plasmodium
Falciparum Msp1-19
pdb|1OB1|D Chain D, Crystal Structure Of A Fab Complex Whith Plasmodium
Falciparum Msp1-19
Length = 215
Score = 32.3 bits (72), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 74 LTISSMEAEDAATYYCHQFHHSPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 132
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 133 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 177
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|2Y7Q|A Chain A, The High-Affinity Complex Between Ige And Its Receptor Fc
Epsilon Ri
Length = 188
Score = 32.3 bits (72), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 30/115 (26%), Positives = 50/115 (43%), Gaps = 16/115 (13%)
Query: 97 TLLVKDIQETDAGYYRCQVIIGINNKISAE---VDLQVRRPPVISDNSTRSLVVSEGQPV 153
+L + + + D+G Y+CQ ++ AE V L+V ++ S VV EGQP+
Sbjct: 55 SLNIVNAKFEDSGEYKCQ------HQQVAESEPVYLEVFSDWLLLQASAE--VVMEGQPL 106
Query: 154 QLECFAG-GHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAE 207
L C ++ + ++ A+ Y + I ED GTYYC +
Sbjct: 107 FLRCHGWRNWDVYKVIYYKDGEAL----KYWYENHAISITNAAAEDSGTYYCTGK 157
>pdb|3O3U|N Chain N, Crystal Structure Of Human Receptor For Advanced Glycation
Endproducts (Rage)
Length = 581
Score = 32.3 bits (72), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 40/88 (45%), Gaps = 16/88 (18%)
Query: 150 GQPVQLEC-FAGGHPTPRISW-----RRENNAIL-PTGGSIY--------RGSILKIPQI 194
G+P+ L+C A P R+ W R E +L P GG + GS+ +P +
Sbjct: 381 GEPLVLKCKGAPKKPPQRLEWKLNTGRTEAWKVLSPQGGGPWDSVARVLPNGSLF-LPAV 439
Query: 195 TKEDRGTYYCVAENGVGKGTRRNIAVEV 222
+D G + C A N GK T+ N V V
Sbjct: 440 GIQDEGIFRCQAMNRNGKETKSNYRVRV 467
>pdb|2AEP|H Chain H, An Epidemiologically Significant Epitope Of A 1998
Influenza Virus Neuraminidase Forms A Highly Hydrated
Interface In The Na-Antibody Complex.
pdb|2AEQ|H Chain H, An Epidemiologically Significant Epitope Of A 1998
Influenza Virus Neuraminidase Forms A Highly Hydrated
Interface In The Na-Antibody Complex
Length = 217
Score = 32.3 bits (72), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 30/72 (41%), Gaps = 6/72 (8%)
Query: 189 LKIPQITKEDRGTYYCV-AENGV-----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L + +T ED TYYC + G G+GT ++ AP + P G
Sbjct: 83 LHMNTLTAEDSATYYCARVDYGTNYDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSS 142
Query: 243 MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 143 VTLGCLVKGYFP 154
>pdb|4D9Q|D Chain D, Inhibiting Alternative Pathway Complement Activation By
Targeting The Exosite On Factor D
pdb|4D9Q|L Chain L, Inhibiting Alternative Pathway Complement Activation By
Targeting The Exosite On Factor D
Length = 213
Score = 32.3 bits (72), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 46/196 (23%), Positives = 75/196 (38%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----TGGSI 183
D+QV + P SL S G V + C ++W ++ +P +GG+
Sbjct: 1 DIQVTQSP-------SSLSASVGDRVTITCITSTDIDDDMNWYQQKPGKVPKLLISGGNT 53
Query: 184 YRGSI--------------LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFA 225
R + L I + ED TYYC+ + + G+GT+ I V A
Sbjct: 54 LRPGVPSRFSGSGSGTDFTLTISSLQPEDVATYYCLQSDSLPYTFGQGTKVEIKRTVA-A 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 PSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS 171
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 172 -TYSLSSTLTLSKADY 186
>pdb|3DGG|A Chain A, Crystal Structure Of Fabox108
pdb|3DGG|C Chain C, Crystal Structure Of Fabox108
Length = 217
Score = 32.3 bits (72), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 32/146 (21%), Positives = 55/146 (37%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
L I + +ED TYYC + G GT+ + + AP +++ P Q +
Sbjct: 77 LNIHPVEEEDAATYYCQHSRELLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGASV 135
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 136 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 180
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 181 TLTLTKDEYERHNSYTCEATHKTSTS 206
>pdb|2XQY|K Chain K, Crystal Structure Of Pseudorabies Core Fragment Of
Glycoprotein H In Complex With Fab D6.3
pdb|2XQY|L Chain L, Crystal Structure Of Pseudorabies Core Fragment Of
Glycoprotein H In Complex With Fab D6.3
Length = 220
Score = 32.3 bits (72), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 79 LNIHPVEEEDAATYYCQHSRELPWTFGGGTKLEIN-RADAAPTVSIFPPSSEQLTSGGAS 137
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 138 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 182
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 183 STLTLTKDEYERHNSYTCEATHKTSTS 209
>pdb|15C8|L Chain L, Catalytic Antibody 5c8, Free Fab
Length = 213
Score = 32.3 bits (72), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 74 LTISSMEAEDAATYYCHQYHRSPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 132
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 133 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 177
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|3MJ9|L Chain L, Crystal Structure Of Jaml In Complex With The Stimulatory
Antibody Hl4e10
pdb|3MJ8|L Chain L, Crystal Structure Of Hl4e10 Fab, A Hamster Ab Stimulatory
For Gammadelta T Cells
pdb|3MJ8|A Chain A, Crystal Structure Of Hl4e10 Fab, A Hamster Ab Stimulatory
For Gammadelta T Cells
Length = 213
Score = 32.3 bits (72), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 32/144 (22%), Positives = 54/144 (37%), Gaps = 16/144 (11%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV------GKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+ L I + D YYC + +G G GT+ + + AP +T+ P +
Sbjct: 70 ATLTISKAQAGDEADYYCQSWDGTNSAWVFGSGTKVTVLGQPNAAPSVTLFPPSSEELKT 129
Query: 241 YDMDLECHVEAYPPP--AIVWIKED---TQQVLTNNQHYSISHFATADEFTDTTIRVITI 295
L C + + P A+ W + TQ V T S S + T T
Sbjct: 130 NQATLVCMINGFYPADVAVTWEADGTPITQGVKTTQPSKSDSKYMATSYLTMTADAW--- 186
Query: 296 EKRQYGSYICRAANKLGTSEKTVE 319
+ ++IC+ + T EK++
Sbjct: 187 --KSRNTFICKVTHGGNTVEKSLS 208
>pdb|3GO1|L Chain L, Crystal Structure Of Anti-Hiv-1 Fab 268-D In Complex With
V3 Peptide Mn
Length = 209
Score = 32.3 bits (72), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 41/199 (20%), Positives = 71/199 (35%), Gaps = 24/199 (12%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
S+ VS GQ ++ C A W R+ P +G +
Sbjct: 9 SVSVSPGQTARITCSAEALSNQYAYWYRQRPGQAPLLIIYKDTKRPSGIPERFSGSTSGT 68
Query: 186 GSILKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L I + ED YYC + + G GT+ + + + P +T+ P +
Sbjct: 69 TVTLTISGVQAEDEADYYCQSADSSGDYVFGGGTKVTVLGQPKANPTVTLFPPSSEELQA 128
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C + + P A+ V K D V + S + + + + + +
Sbjct: 129 NKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKS 188
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 189 HRSYSCQVTHEGSTVEKTV 207
>pdb|1NSN|L Chain L, The Crystal Structure Of Antibody N10-Staphylococcal
Nuclease Complex At 2.9 Angstroms Resolution
Length = 218
Score = 32.3 bits (72), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 77 LNIHPVEEEDTATYYCQHSWEIPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3LEX|L Chain L, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 11f10 In Complex With Hiv-1 Gp41
pdb|3LEX|B Chain B, 2f5 Epitope Scaffold Elicited Anti-Hiv-1 Monoclonal
Antibody 11f10 In Complex With Hiv-1 Gp41
Length = 219
Score = 32.3 bits (72), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 48/214 (22%), Positives = 81/214 (37%), Gaps = 42/214 (19%)
Query: 127 VDLQVRRPPVISDNSTRSLVVSEGQPV--QLECFAGGHPTPRISWRRENNAILP---TGG 181
+ + + +P IS S++SL+ S+G+ L G P I + + +P TG
Sbjct: 11 LSVTIGQPASISCKSSQSLLDSDGKTYLNWLLQRPGQSPKRLIYLVSKLASGVPDRFTGS 70
Query: 182 SIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
LKI ++ ED G YYC G T+ I + AP +++ P Q
Sbjct: 71 GSGTDFTLKISRVEAEDLGVYYCWQGTHFPWTFGGYTKLEIK-RADAAPTVSIFPPSSEQ 129
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 130 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 181
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 182 -------STLTLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1FNL|A Chain A, Crystal Structure Of The Extracellular Domain Of A Human
Fcgriii
Length = 175
Score = 32.3 bits (72), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 43/106 (40%), Gaps = 24/106 (22%)
Query: 107 DAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPR 166
D+G YRCQ + +S V L+V ++ V E P+ L C
Sbjct: 65 DSGEYRCQTNLST---LSDPVQLEVHIGWLLL--QAPRWVFKEEDPIHLRCH-------- 111
Query: 167 ISWRRENNAI-----LPTGGS---IYRGSILKIPQITKEDRGTYYC 204
SW+ N A+ L G + S IP+ T +D G+Y+C
Sbjct: 112 -SWK--NTALHKVTYLQNGKDRKYFHHNSDFHIPKATLKDSGSYFC 154
>pdb|1IFH|H Chain H, A Detailed Analysis Of The Free And Bound Conformation Of
An Antibody: X-Ray Structures Of Anti-Peptide Fab
17(Slash)9 And Three Different Fab-Peptide Complexes
pdb|1HIL|B Chain B, Structural Evidence For Induced Fit As A Mechanism For
Antigen-Antibody Recognition
pdb|1HIL|D Chain D, Structural Evidence For Induced Fit As A Mechanism For
Antigen-Antibody Recognition
pdb|1HIM|L Chain L, Structural Evidence For Induced Fit As A Mechanism For
Antibody-Antigen Recognition
pdb|1HIM|M Chain M, Structural Evidence For Induced Fit As A Mechanism For
Antibody-Antigen Recognition
pdb|1HIN|H Chain H, Structural Evidence For Induced Fit As A Mechanism For
Antibody-Antigen Recognition
Length = 220
Score = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 30/74 (40%), Gaps = 8/74 (10%)
Query: 189 LKIPQITKEDRGTYYCV-----AENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L++ + ED YYC ENG G+GT ++ AP + P G
Sbjct: 81 LQMSSLKSEDSAMYYCARRERYDENGFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTG 140
Query: 241 YDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 SSVTLGCLVKGYFP 154
>pdb|25C8|L Chain L, Catalytic Antibody 5c8, Fab-Hapten Complex
pdb|35C8|L Chain L, Catalytic Antibody 5c8, Fab-Inhibitor Complex
Length = 212
Score = 32.0 bits (71), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 33/147 (22%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 74 LTISSMEAEDAATYYCHQYHRSPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 132
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 133 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 177
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|4AG4|L Chain L, Crystal Structure Of A Ddr1-Fab Complex
Length = 213
Score = 32.0 bits (71), Expect = 0.53, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G GT+ + + AP +++ P Q
Sbjct: 72 LTISSMEAEDAATYYCQQWSSNPYTFGGGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1YNK|H Chain H, Identification Of Key Residues Of The Nc6.8 Fab Antibody
Fragment Binding To Synthetic Sweeteners: Crystal
Structure Of Nc6.8 Co-Crystalized With High Potency
Sweetener Compound Sc45647
Length = 219
Score = 32.0 bits (71), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 31/140 (22%), Positives = 51/140 (36%), Gaps = 31/140 (22%)
Query: 150 GQPVQLECFAGGHPTPR--ISWRREN--------NAILPTGGSI-----YRG-------- 186
G VQ+ C A G+ I W +E ILP G ++G
Sbjct: 15 GASVQISCKATGYTFSEYWIEWVKERPGHGLEWIGEILPGSGRTNYREKFKGKATFTADT 74
Query: 187 ----SILKIPQITKEDRGTYYCV----AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
+ +++ +T ED YYC + + G+GT ++ P + P G
Sbjct: 75 SSNTAYMQLSSLTSEDSAVYYCTRGYSSMDYWGQGTSVTVSAAKTTPPSVYPLAPGCGDT 134
Query: 239 LQYDMDLECHVEAYPPPAIV 258
+ L C V+ Y P ++
Sbjct: 135 TGSSVTLGCLVKGYFPESVT 154
>pdb|3OPZ|L Chain L, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
pdb|3OPZ|M Chain M, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
pdb|3OPZ|N Chain N, Crystal Structure Of Trans-Sialidase In Complex With The
Fab Fragment Of A Neutralizing Monoclonal Igg Antibody
Length = 213
Score = 32.0 bits (71), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 34/155 (21%), Positives = 56/155 (36%), Gaps = 40/155 (25%)
Query: 181 GSIYRGSILKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFAPVITVPKPRLG 236
G+ Y L I + ED YYC + G GT+ I + AP +++ P
Sbjct: 67 GTFYS---LTISSVEAEDAADYYCHQWSTFPSTFGSGTKLEIK-RADAAPTVSIFPPSSE 122
Query: 237 QALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHF 279
Q + C + + P I W +D++ + YS+S
Sbjct: 123 QLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS-- 175
Query: 280 ATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 --------STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1UWX|H Chain H, P1.2 Serosubtype Antigen Derived From N. Meningitidis Pora
In Complex With Fab Fragment
pdb|1UWX|M Chain M, P1.2 Serosubtype Antigen Derived From N. Meningitidis Pora
In Complex With Fab Fragment
Length = 225
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLP---ISTGSSLIIRD--S 83
S ++K G TV+L C S ++ + WMK K + + TG S D
Sbjct: 7 SGPELKKPGETVKLSCKASGYTFTNFGLNWMKQAPGKGLKWMGWINTYTGESTYADDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA +T++ST L + +++ D Y C
Sbjct: 67 RFAFSLETSASTAYLQINNVKNEDTATYFC 96
>pdb|2IFF|L Chain L, Structure Of An Antibody-Lysozyme Complex: Effect Of A
Conservative Mutation
pdb|1BQL|L Chain L, Structure Of An Anti-Hel Fab Fragment Complexed With
Bobwhite Quail Lysozyme
Length = 212
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 53/146 (36%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAEN---GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
L I + ED TYYC G GT+ I + AP +++ P Q +
Sbjct: 72 LTISSMETEDAATYYCQQWGRNPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 130
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 131 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 175
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 176 TLTLTKDEYERHNSYTCEATHKTSTS 201
>pdb|1ACY|L Chain L, Crystal Structure Of The Principal Neutralizing Site Of
Hiv- 1
pdb|1AI1|L Chain L, Hiv-1 V3 Loop Mimic
Length = 215
Score = 32.0 bits (71), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +D TYYC N G GT+ + + AP +++ P Q
Sbjct: 77 LTIDPVEADDAATYYCQQNNEDPPTFGAGTKLEMR-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|1WC7|A Chain A, Fab Fragment Of Plp-Dependent Catalytic Antibody 15a9 In
Complex With Phosphopyridoxyl-L-Alanine
pdb|1WC7|L Chain L, Fab Fragment Of Plp-Dependent Catalytic Antibody 15a9 In
Complex With Phosphopyridoxyl-L-Alanine
pdb|1WCB|A Chain A, Plp-Dependent Catalytic Antibody 15a9 In Complex With Its
Hapten
pdb|1WCB|L Chain L, Plp-Dependent Catalytic Antibody 15a9 In Complex With Its
Hapten
pdb|2BMK|A Chain A, Fab Fragment Of Plp-Dependent Catalytic Antibody 15a9 In
Complex With Phosphopyridoxyl-D-Alanine
pdb|2BMK|L Chain L, Fab Fragment Of Plp-Dependent Catalytic Antibody 15a9 In
Complex With Phosphopyridoxyl-D-Alanine
Length = 213
Score = 32.0 bits (71), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED TYYC + G GT+ + + AP +++ P Q
Sbjct: 72 LTISRMEAEDAATYYCQQRSTYPFTFGGGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|2R4R|L Chain L, Crystal Structure Of The Human Beta2 Adrenoceptor
pdb|2R4S|L Chain L, Crystal Structure Of The Human Beta2 Adrenoceptor
pdb|3KJ6|L Chain L, Crystal Structure Of A Methylated Beta2 Adrenergic
Receptor- Fab Complex
Length = 214
Score = 32.0 bits (71), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 45/214 (21%), Positives = 74/214 (34%), Gaps = 57/214 (26%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGS------------- 187
S S+ S G+ V + C A +SW ++ P IYR +
Sbjct: 7 SPSSMYASLGERVTITCKASQDINSYLSWFQQKPGKSPKT-LIYRANRLVDGVPSRFIGT 65
Query: 188 ------ILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQ 237
L I + D G YYC+ + G GT+ I + AP +++ P Q
Sbjct: 66 GSGQDYSLTISSLDYADMGIYYCLQYDEFPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQ 124
Query: 238 ALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFA 280
+ C + + P I W +D++ + YS+S
Sbjct: 125 LTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--- 176
Query: 281 TADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 -------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1YQV|L Chain L, The Crystal Structure Of The Antibody Fab Hyhel5 Complex
With Lysozyme At 1.7a Resolution
Length = 211
Score = 32.0 bits (71), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 33/146 (22%), Positives = 53/146 (36%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYCVAEN---GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
L I + ED TYYC G GT+ I + AP +++ P Q +
Sbjct: 73 LTISSMETEDAATYYCQQWGRNPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 131
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 132 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 176
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 177 TLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1MH5|B Chain B, The Structure Of The Complex Of The Fab Fragment Of The
Esterolytic Antibody Ms6-164 And A Transition-State
Analog
pdb|1MH5|H Chain H, The Structure Of The Complex Of The Fab Fragment Of The
Esterolytic Antibody Ms6-164 And A Transition-State
Analog
Length = 230
Score = 32.0 bits (71), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 34/75 (45%), Gaps = 7/75 (9%)
Query: 187 SILKIPQITKEDRGTYYCV----AENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
+ +++ +T +D YYCV + +GV G+GT ++ AP + P G
Sbjct: 79 AYMQLSSLTSDDSAVYYCVRKHYSYDGVVYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTS 138
Query: 240 QYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 139 GSSVTLGCLVKGYFP 153
>pdb|1E4K|C Chain C, Crystal Structure Of Soluble Human Igg1 Fc
Fragment-Fc-Gamma Receptor Iii Complex
pdb|1E4J|A Chain A, Crystal Structure Of The Soluble Human Fc-Gamma Receptor
Iii
Length = 176
Score = 32.0 bits (71), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 43/106 (40%), Gaps = 24/106 (22%)
Query: 107 DAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPR 166
D+G YRCQ + +S V L+V ++ V E P+ L C
Sbjct: 66 DSGEYRCQTNLST---LSDPVQLEVHIGWLLL--QAPRWVFKEEDPIHLRCH-------- 112
Query: 167 ISWRRENNAI-----LPTGGS---IYRGSILKIPQITKEDRGTYYC 204
SW+ N A+ L G + S IP+ T +D G+Y+C
Sbjct: 113 -SWK--NTALHKVTYLQNGKDRKYFHHNSDFHIPKATLKDSGSYFC 155
>pdb|3MJ6|A Chain A, Crystal Structure Of The Gammadelta T Cell Costimulatory
Receptor Junctional Adhesion Molecule-Like Protein, Jaml
pdb|3MJ7|A Chain A, Crystal Structure Of The Complex Of Jaml And Coxsackie And
Adenovirus Receptor, Car
pdb|3MJ9|A Chain A, Crystal Structure Of Jaml In Complex With The Stimulatory
Antibody Hl4e10
Length = 268
Score = 32.0 bits (71), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 26/103 (25%), Positives = 50/103 (48%), Gaps = 9/103 (8%)
Query: 21 AQRTPTISYISQEQIKDIGGTVELKCSVQYAQDYPVI---WM-KVDRNKVTEPLPISTGS 76
+Q P ++ S + +G +V + C VQ ++ V W+ D++ +E + S
Sbjct: 2 SQGLPGLTVSSPQLRVHVGESVLMGCVVQRTEEKHVDRVDWLFSKDKDDASEYVLFYY-S 60
Query: 77 SLIIRDSRFAIRYDTASSTY----TLLVKDIQETDAGYYRCQV 115
+L + RF R T+ +LL++D+Q+ D G Y C++
Sbjct: 61 NLSVPTGRFQNRSHLVGDTFHNDGSLLLQDVQKADEGIYTCEI 103
Score = 32.0 bits (71), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 24/119 (20%), Positives = 54/119 (45%), Gaps = 19/119 (15%)
Query: 17 NLTTAQRTPTISYISQEQIKD----IGGTVELKCSVQYAQDYPVI---WMKVDRNKVTEP 69
N + + P ++ E+ +D +G T +++CS+Q ++ V WM + E
Sbjct: 107 NESMVMKKPVELWVLPEEPRDLRVRVGDTTQMRCSIQSTEEKRVTKVNWMFSSGSHTEEE 166
Query: 70 LPISTGSSLIIRDSRFA----------IRYDTASSTYTLLVKDIQETDAGYYRCQVIIG 118
+S S++ R +F + D + + ++ ++ ++E+D G Y C + +G
Sbjct: 167 TVLSYDSNM--RSGKFQSLGRFRNRVDLTGDISRNDGSIKLQTVKESDQGIYTCSIYVG 223
>pdb|2Z91|B Chain B, Crystal Structure Of The Fab Fragment Of Anti-Ciguatoxin
Antibody 10c9
pdb|2Z91|D Chain D, Crystal Structure Of The Fab Fragment Of Anti-Ciguatoxin
Antibody 10c9
pdb|2Z92|B Chain B, Crystal Structure Of The Fab Fragment Of Anti-Ciguatoxin
Antibody 10c9 In Complex With Ctx3c_abcde
pdb|2Z93|B Chain B, Crystal Structure Of Fab Fragment Of Anti-Ciguatoxin
Antibody 10c9 In Complex With Ctx3c-Abcd
pdb|2Z93|D Chain D, Crystal Structure Of Fab Fragment Of Anti-Ciguatoxin
Antibody 10c9 In Complex With Ctx3c-Abcd
Length = 213
Score = 32.0 bits (71), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G GT+ + + AP +++ P Q
Sbjct: 72 LTISSMEAEDAATYYCQQWSSNPPTFGAGTKLEVK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|4HKB|N Chain N, Ch67 Fab (unbound) From The Ch65-67 Lineage
pdb|4HKB|B Chain B, Ch67 Fab (unbound) From The Ch65-67 Lineage
pdb|4HKB|D Chain D, Ch67 Fab (unbound) From The Ch65-67 Lineage
pdb|4HKB|F Chain F, Ch67 Fab (unbound) From The Ch65-67 Lineage
pdb|4HKB|H Chain H, Ch67 Fab (unbound) From The Ch65-67 Lineage
pdb|4HKB|K Chain K, Ch67 Fab (unbound) From The Ch65-67 Lineage
Length = 213
Score = 32.0 bits (71), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 30/139 (21%), Positives = 57/139 (41%), Gaps = 7/139 (5%)
Query: 187 SILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+ L I ++ D YYC + G GT+ + + + AP +T+ P +
Sbjct: 69 ATLTISRVEAGDEADYYCQVWDSDSDHVVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQA 128
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 129 NKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKS 188
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 189 HRSYSCQVTHEGSTVEKTV 207
>pdb|1AY1|L Chain L, Anti Taq Fab Tp7
pdb|1BGX|L Chain L, Taq Polymerase In Complex With Tp7, An Inhibitory Fab
Length = 210
Score = 32.0 bits (71), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED TYYC + G GT+ + + AP +++ P Q
Sbjct: 72 LTISRMEAEDAATYYCQQWSTYPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1KOA|A Chain A, Twitchin Kinase Fragment (C.Elegans), Autoregulated
Protein Kinase And Immunoglobulin Domains
Length = 491
Score = 32.0 bits (71), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 11/79 (13%)
Query: 244 DLECHVEAYPPPAIVWIKEDTQ--QVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
+ C V A PP + W K+D + Q + + Y+ +++ T RV +K G
Sbjct: 395 NFYCRVIASSPPVVTWHKDDRELKQSVKYMKRYN------GNDYGLTINRVKGDDK---G 445
Query: 302 SYICRAANKLGTSEKTVEL 320
Y RA N GT E+ V L
Sbjct: 446 EYTVRAKNSYGTKEEIVFL 464
>pdb|3PGF|L Chain L, Crystal Structure Of Maltose Bound Mbp With A
Conformationally Specific Synthetic Antigen Binder (Sab)
Length = 215
Score = 32.0 bits (71), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 46/196 (23%), Positives = 74/196 (37%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A + ++W ++ P + S
Sbjct: 2 DIQMTQSP-------SSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASS 54
Query: 183 IYRG-------------SILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFA 225
+Y G L I + ED TYYC + + G+GT+ I V A
Sbjct: 55 LYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQSSYIPVTFGQGTKVEIKRTVA-A 113
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 114 PSVFIFPPSDSQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS 172
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 173 -TYSLSSTLTLSKADY 187
>pdb|1T83|C Chain C, Crystal Structure Of A Human Type Iii Fc Gamma Receptor In
Complex With An Fc Fragment Of Igg1 (Orthorhombic)
pdb|1T89|C Chain C, Crystal Structure Of A Human Type Iii Fc Gamma Receptor In
Complex With An Fc Fragment Of Igg1 (Hexagonal)
Length = 176
Score = 32.0 bits (71), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 43/106 (40%), Gaps = 24/106 (22%)
Query: 107 DAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPR 166
D+G YRCQ + +S V L+V ++ V E P+ L C
Sbjct: 65 DSGEYRCQTNLST---LSDPVQLEVHIGWLLL--QAPRWVFKEEDPIHLRCH-------- 111
Query: 167 ISWRRENNAI-----LPTGGS---IYRGSILKIPQITKEDRGTYYC 204
SW+ N A+ L G + S IP+ T +D G+Y+C
Sbjct: 112 -SWK--NTALHKVTYLQNGKDRKYFHHNSDFHIPKATLKDSGSYFC 154
>pdb|3I75|A Chain A, Antibody Structure
Length = 212
Score = 32.0 bits (71), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 32/144 (22%), Positives = 59/144 (40%), Gaps = 11/144 (7%)
Query: 179 TGGSIYRGSILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPR 234
+G R I + ED TYYC+ + + G GT+ + + AP +++ P
Sbjct: 63 SGSGSGRDYSFSISNLEPEDTATYYCLQYDDLLLTFGAGTKLELK-RADAAPTVSIFPPS 121
Query: 235 LGQALQYDMDLECHVEAYPPPAI--VWIKEDT--QQVLTNNQHYSISHFATADEFTDTTI 290
Q + C + + P I W + + Q + N++ S +T +T+
Sbjct: 122 SEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSETDQDSKDSTYS--MSSTL 179
Query: 291 RVITIEKRQYGSYICRAANKLGTS 314
+ E ++ +Y C A +K TS
Sbjct: 180 TLTKDEYERHNTYTCEATHKTSTS 203
>pdb|1IKF|H Chain H, A Conformation Of Cyclosporin A In Aqueous Environment
Revealed By The X-Ray Structure Of A Cyclosporin-Fab
Complex
Length = 228
Score = 32.0 bits (71), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 36/82 (43%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPI--STGSSLIIRD---SRFAIRYDT 91
GG+++L C+ DY + W++ + K E + + G S D RF I D
Sbjct: 15 GGSLKLSCATSGFTFSDYYMYWVRQNSEKRLEWVAFISNGGGSAFYADIVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A +T L + ++ D Y C
Sbjct: 75 AKNTLYLQMSRLKSEDTAMYYC 96
>pdb|3S62|L Chain L, Structure Of Fab Fragment Of Malaria Transmission Blocking
Antibody 2a8 Against P. Vivax P25 Protein
Length = 213
Score = 32.0 bits (71), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G GT+ + + AP +++ P Q
Sbjct: 72 LTISSMEAEDAATYYCQQWSSNPPTFGGGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|2L7U|A Chain A, Structure Of Cel-Pep-Rage V Domain Complex
Length = 105
Score = 32.0 bits (71), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 29/98 (29%), Positives = 44/98 (44%), Gaps = 16/98 (16%)
Query: 140 NSTRSLVVSEGQPVQLEC-FAGGHPTPRISW-----RRENNAIL-PTGGSIY-------- 184
S +++ G+P+ L+C A P R+ W R E +L P GG +
Sbjct: 1 GSAQNITARIGEPLVLKCKGAPKKPPQRLEWKLNTGRTEAWKVLSPQGGGPWDSVARVLP 60
Query: 185 RGSILKIPQITKEDRGTYYCVAENGVGKGTRRNIAVEV 222
GS+ +P + +D G + C A N GK T+ N V V
Sbjct: 61 NGSLF-LPAVGIQDEGIFRCQAMNRNGKETKSNYRVRV 97
>pdb|3RAJ|L Chain L, Crystal Structure Of Human Cd38 In Complex With The Fab
Fragment Of Antibody Hb7
Length = 211
Score = 32.0 bits (71), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 46/203 (22%), Positives = 75/203 (36%), Gaps = 54/203 (26%)
Query: 150 GQPVQLECFAGGHPTPRISW--RRENNA--ILPTGG--------SIYRGS------ILKI 191
G V + C A R++W ++ NA +L +G S + GS L I
Sbjct: 15 GDRVTITCKASEDIYNRLAWYQQKPGNAPRLLISGATSLETGVPSRFSGSGSGKDYTLSI 74
Query: 192 PQITKEDRGTYYC---VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECH 248
+ ED TYYC + G GT+ I + AP +++ P Q + C
Sbjct: 75 TSLQTEDVATYYCQQYWSTPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASVVCF 133
Query: 249 VEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIR 291
+ + P I W +D++ + YS+S +T+
Sbjct: 134 LNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------STLT 178
Query: 292 VITIEKRQYGSYICRAANKLGTS 314
+ E ++ SY C A +K TS
Sbjct: 179 LTKDEYERHNSYTCEATHKTSTS 201
>pdb|1RJL|B Chain B, Structure Of The Complex Between Ospb-Ct And Bactericidal
Fab-H6831
Length = 221
Score = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 32/149 (21%), Positives = 52/149 (34%), Gaps = 35/149 (23%)
Query: 144 SLVVSEGQPVQLECFAGGHP--TPRISWRREN--------NAILPTGGSIYRGSILK--- 190
S++V G V+L C A G + + W ++ I P G+ + K
Sbjct: 9 SVLVRPGASVKLSCKASGFTFTSSWMHWAKQRPGQGLEWIGEIHPNSGNTHYNEKFKGKA 68
Query: 191 --------------IPQITKEDRGTYYCV--------AENGVGKGTRRNIAVEVEFAPVI 228
+ +T ED YYC A + G+GT ++ AP +
Sbjct: 69 TLTVDTSSSTAYVDLSSLTSEDSAVYYCARMRYGDYYAMDNWGQGTSVTVSSAKTTAPPV 128
Query: 229 TVPKPRLGQALQYDMDLECHVEAYPPPAI 257
P G + L C V+ Y P ++
Sbjct: 129 YPLAPVCGDTTGSSVTLGCLVKGYFPESV 157
>pdb|4FFW|C Chain C, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With Fab + Sitagliptin
pdb|4FFW|L Chain L, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With Fab + Sitagliptin
Length = 210
Score = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED TY+C + G GT+ I + AP +++ P Q
Sbjct: 72 LTISRVEAEDAATYFCQQWSNHPPTFGGGTKLEID-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|4DGI|L Chain L, Structure Of Pom1 Fab Fragment Complexed With Human Prpc
Fragment 120- 230
Length = 213
Score = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 42/196 (21%), Positives = 70/196 (35%), Gaps = 29/196 (14%)
Query: 145 LVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYRG 186
L VS G+ V C A + I W ++ P +G
Sbjct: 11 LSVSPGERVSFSCRASQNIGTSIHWYQQRTNESPRLIIKYASESISGIPSRFSGSGSGTD 70
Query: 187 SILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC N G GT+ + + AP +++ P Q
Sbjct: 71 FTLSINSVESEDIADYYCQQSNTWPYTFGGGTKLELK-RADAAPTVSIFPPSSEQLTSGG 129
Query: 243 MDLECHVEAYPPPAI--VWIKEDT--QQVLTNNQHYSISHFATADEFTDTTIRVITIEKR 298
+ C + + P I W + + Q + N++ S +T +T+ + E
Sbjct: 130 ASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSETDQDSKDSTYS--MSSTLTLTKDEYE 187
Query: 299 QYGSYICRAANKLGTS 314
++ +Y C A +K TS
Sbjct: 188 RHNTYTCEATHKTSTS 203
>pdb|4AEH|H Chain H, Crystal Structure Of The Anti-Aahi Fab9c2 Antibody
Length = 231
Score = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 30/73 (41%), Gaps = 7/73 (9%)
Query: 189 LKIPQITKEDRGTYYCVAENG-------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
+++ +T +D YYC +G G+GT ++ AP + P G
Sbjct: 81 MQLSSLTSDDSAVYYCARYDGDYGSFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGS 140
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 SVTLGCLVKGYFP 153
>pdb|3UTO|A Chain A, Twitchin Kinase Region From C.Elegans
(Fn31-Nl-Kin-Crd-Ig26)
pdb|3UTO|B Chain B, Twitchin Kinase Region From C.Elegans
(Fn31-Nl-Kin-Crd-Ig26)
Length = 573
Score = 32.0 bits (71), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 36/79 (45%), Gaps = 11/79 (13%)
Query: 244 DLECHVEAYPPPAIVWIKEDTQ--QVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
+ C V A PP + W K+D + Q + + Y+ +++ T RV +K G
Sbjct: 501 NFYCRVIASSPPVVTWHKDDRELKQSVKYMKRYN------GNDYGLTINRVKGDDK---G 551
Query: 302 SYICRAANKLGTSEKTVEL 320
Y RA N GT E+ V L
Sbjct: 552 EYTVRAKNSYGTKEEIVFL 570
>pdb|1IGI|H Chain H, 26-10 Fab:digoxin Complex-Affinity And Specificity Due To
Surface Complementarity
pdb|1IGJ|B Chain B, 26-10 Fab:digoxin Complex-Affinity And Specificity Due To
Surface Complementarity
pdb|1IGJ|D Chain D, 26-10 Fab:digoxin Complex-Affinity And Specificity Due To
Surface Complementarity
Length = 218
Score = 32.0 bits (71), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 28/73 (38%), Gaps = 7/73 (9%)
Query: 189 LKIPQITKEDRGTYYCVAENG-------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
+++ +T ED YYC +G G G ++ AP + P G
Sbjct: 81 MELRSLTSEDSAVYYCAGSSGNKWAMDYWGHGASVTVSSAKTTAPSVYPLAPVCGDTTGS 140
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 SVTLGCLVKGYFP 153
>pdb|1Q72|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With Cocaine
pdb|1QYG|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With Benzoylecgonine
pdb|1RFD|L Chain L, Anti-Cocaine Antibody M82g2
pdb|1RIU|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With
Norbenzoylecgonine
pdb|1RIV|L Chain L, Anti-Cocaine Antibody M82g2 Complexed With Meta-
Oxybenzoylecgonine
Length = 218
Score = 32.0 bits (71), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 28/132 (21%), Positives = 53/132 (40%), Gaps = 7/132 (5%)
Query: 189 LKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L+ ++ ED G YYC+ G GT+ I + AP +++ P Q
Sbjct: 78 LRFSRVEAEDVGVYYCMQHLEYPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 136
Query: 245 LECHVEAYPPPAIV--WIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGS 302
+ C + + P I W + ++ ++ + + +T+ + E ++ S
Sbjct: 137 VVCFLNNFYPQDITVSWKIDGAERSSGVLNSWTDQDSSDSTYSMSSTLTLTKDEYERHSS 196
Query: 303 YICRAANKLGTS 314
Y C A +K TS
Sbjct: 197 YTCEATHKTSTS 208
>pdb|1IGY|A Chain A, Structure Of Immunoglobulin
pdb|1IGY|C Chain C, Structure Of Immunoglobulin
Length = 213
Score = 32.0 bits (71), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 43/212 (20%), Positives = 73/212 (34%), Gaps = 55/212 (25%)
Query: 142 TRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSI 183
++S+ +S G+ V L C A + +SW ++ P TG
Sbjct: 7 SKSMSMSVGERVTLTCKASENVVTYVSWYQQKPEQSPKLLIYGASNRYTGVPDRFTGSGS 66
Query: 184 YRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
L I + ED Y+C G GT+ I + AP +++ P Q
Sbjct: 67 ATDFTLTISSVQAEDLADYHCGQGYSYPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLT 125
Query: 240 QYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATA 282
+ C + + P I W +D++ + YS+S
Sbjct: 126 SGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----- 175
Query: 283 DEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 -----STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|4HKX|B Chain B, Influenza Hemagglutinin In Complex With Ch67 Fab
Length = 214
Score = 32.0 bits (71), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 30/139 (21%), Positives = 57/139 (41%), Gaps = 7/139 (5%)
Query: 187 SILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+ L I ++ D YYC + G GT+ + + + AP +T+ P +
Sbjct: 70 ATLTISRVEAGDEADYYCQVWDSDSDHVVFGGGTKLTVLGQPKAAPSVTLFPPSSEELQA 129
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 130 NKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKS 189
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 190 HRSYSCQVTHEGSTVEKTV 208
>pdb|3GJE|L Chain L, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3GJE|A Chain A, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3GJF|L Chain L, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3GJF|K Chain K, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
Length = 212
Score = 32.0 bits (71), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 44/204 (21%), Positives = 75/204 (36%), Gaps = 30/204 (14%)
Query: 143 RSLVVSEGQPVQLECFA-----GGHPTPRISWRRENNAILP------------------T 179
RS+ S GQ V + C GG+ +SW +++ P +
Sbjct: 8 RSVSGSPGQSVTISCTGTSRDVGGYN--YVSWYQQHPGKAPKLIIHDVIERSSGVPDRFS 65
Query: 180 GGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRL 235
G + L I + ED YYC + G G GT + + + P +T+ P
Sbjct: 66 GSKSGNTASLTISGLQAEDEADYYCWSFAGSYYVFGTGTDVTVLGQPKANPTVTLFPPSS 125
Query: 236 GQALQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVIT 294
+ L C + + P A+ V K D V + S + + + +
Sbjct: 126 EELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTP 185
Query: 295 IEKRQYGSYICRAANKLGTSEKTV 318
+ + + SY C+ ++ T EKTV
Sbjct: 186 EQWKSHRSYSCQVTHEGNTVEKTV 209
>pdb|1DCL|A Chain A, Mcg, A Lambda V Type Light-Chain Dimer (Bence-Jones
Protein), Crystallized From Ammonium Sulfate
pdb|1DCL|B Chain B, Mcg, A Lambda V Type Light-Chain Dimer (Bence-Jones
Protein), Crystallized From Ammonium Sulfate
Length = 216
Score = 32.0 bits (71), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 32/137 (23%), Positives = 59/137 (43%), Gaps = 8/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L + + ED YYC + G G GT+ + + + P +T+ P +
Sbjct: 75 LTVSGLQAEDEADYYCSSYEGSDNFVFGTGTKVTVLGQPKANPTVTLFPPSSEELQANKA 134
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQYG 301
L C + + P A+ V K D V + S + +++ ++ +T E+ + +
Sbjct: 135 TLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSK-QSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|2FBO|J Chain J, Crystal Structure Of The Two Tandem V-Type Regions Of
Vcbp3 (V-Region-Containing Chitin Binding Protein) To
1.85 A
Length = 250
Score = 32.0 bits (71), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 44/143 (30%), Positives = 56/143 (39%), Gaps = 25/143 (17%)
Query: 39 GGTVELKCSVQYAQDY--PVI-WMKV---DR---------NKVTEPLPISTGSSLIIRDS 83
GGTVEL CS Q A D PVI W+K DR N E L S
Sbjct: 17 GGTVELPCSYQLANDTQPPVISWLKGASPDRSTKVFKGNYNWQGEGLGFVESDSYKESFG 76
Query: 84 RFAIRYDTAS-STYTLLVKDIQETDAGYYRCQVI-------IGINNKISAEVDLQVRRPP 135
F R A+ + TL + + D G Y CQV G++ K S + + P
Sbjct: 77 DFLGRASVANLAAPTLRLTHVHPQDGGRYWCQVAQWSIRTEFGLDAK-SVVLKVTGHTPS 135
Query: 136 VISDNSTRSLV-VSEGQPVQLEC 157
ST +V V EG + + C
Sbjct: 136 NNVHVSTAEVVQVDEGNDITMTC 158
>pdb|1MCB|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCB|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCC|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCC|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCD|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCD|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCE|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCE|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCF|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCF|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCH|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCH|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCI|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCI|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCJ|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCJ|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCK|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCK|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCL|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCL|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCN|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCN|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCQ|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCQ|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCR|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCR|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCS|A Chain A, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
pdb|1MCS|B Chain B, Principles And Pitfalls In Designing Site Directed Peptide
Ligands
Length = 216
Score = 32.0 bits (71), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 32/137 (23%), Positives = 59/137 (43%), Gaps = 8/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L + + ED YYC + G G GT+ + + + P +T+ P +
Sbjct: 75 LTVSGLQAEDEADYYCSSYEGSDNFVFGTGTKVTVLGQPKANPTVTLFPPSSEELQANKA 134
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQYG 301
L C + + P A+ V K D V + S + +++ ++ +T E+ + +
Sbjct: 135 TLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSK-QSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|3QPQ|L Chain L, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|E Chain E, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|C Chain C, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3QPQ|I Chain I, Crystal Structure Of Anti-Tlr3 Antibody C1068 Fab
pdb|3ULU|E Chain E, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|E Chain E, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 215
Score = 32.0 bits (71), Expect = 0.65, Method: Compositional matrix adjust.
Identities = 48/196 (24%), Positives = 75/196 (38%), Gaps = 32/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRE-----------NNAI 176
D+Q+ + P SL S G+ V + C A G+ ++W ++ N
Sbjct: 1 DIQMTQSPA-------SLSASVGETVTITCRASGNIHNYLAWYQQKQGKSPQLLVYNAKT 53
Query: 177 LPTG-GSIYRGS------ILKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFA 225
L G S + GS LKI + ED G+YYC G GT+ + A
Sbjct: 54 LADGVPSRFSGSESGTQYSLKINSLQPEDFGSYYCQHFWSTPFTFGSGTKLELKRGTVAA 113
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 114 PSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS 172
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 173 -TYSLSSTLTLSKADY 187
>pdb|3CFC|H Chain H, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2
Length = 213
Score = 32.0 bits (71), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 34/141 (24%), Positives = 52/141 (36%), Gaps = 29/141 (20%)
Query: 146 VVSEGQPVQLECFAGGHPTPR--ISW-------RRENNAILPTGGSIY-----RGSI--- 188
+V G ++L C A G R +SW R E A + +GG Y +G
Sbjct: 11 LVKPGGSLKLSCTASGITFSRYIMSWVRQIPEKRLEWVASISSGGITYYPDSVKGRFTIS 70
Query: 189 ---------LKIPQITKEDRGTYYCVAENG---VGKGTRRNIAVEVEFAPVITVPKPRLG 236
L++ + ED YYC G G+GT ++ P + P G
Sbjct: 71 RDNVRNILYLQMSSLRSEDTALYYCARGQGRPYWGQGTLVTVSSAKTTPPSVYPLAPGCG 130
Query: 237 QALQYDMDLECHVEAYPPPAI 257
+ L C V+ Y P ++
Sbjct: 131 DTTGSSVTLGCLVKGYFPESV 151
>pdb|4FFV|C Chain C, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With 11a19 Fab
pdb|4FFV|L Chain L, Crystal Structure Of Dipeptidyl Peptidase Iv (Dpp4,
Dpp-Iv, Cd26) In Complex With 11a19 Fab
Length = 210
Score = 32.0 bits (71), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED TY+C + G GT+ I + AP +++ P Q
Sbjct: 72 LTISRVEAEDAATYFCQQWSNHPPTFGGGTKLEID-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|2VQ1|B Chain B, Anti Trimeric Lewis X Fab54-5c10-A
pdb|2VQ1|F Chain F, Anti Trimeric Lewis X Fab54-5c10-A
Length = 218
Score = 32.0 bits (71), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 27/72 (37%), Gaps = 5/72 (6%)
Query: 188 ILKIPQITKEDRGTYYCVAENGV-----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
LKI + D TYYC G G+GT ++ AP + P
Sbjct: 81 FLKIASVVTADTATYYCARIPGFGFDYWGQGTTLTVSSATTTAPSVYPLVPGCSDTSGSS 140
Query: 243 MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 VTLGCLVKGYFP 152
>pdb|1FJ1|A Chain A, Lyme Disease Antigen Ospa In Complex With Neutralizing
Antibody Fab La-2
pdb|1FJ1|C Chain C, Lyme Disease Antigen Ospa In Complex With Neutralizing
Antibody Fab La-2
Length = 213
Score = 32.0 bits (71), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 46/226 (20%), Positives = 79/226 (34%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRREN------------NA 175
D+Q+ + P SL + G V + C A I+W + +
Sbjct: 1 DIQMTQSP-------SSLSATLGGKVTITCKASQDINKYIAWYQHKPGKGPRLLIHYTST 53
Query: 176 ILPTGGSIYRGS------ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFA 225
+ P S + GS I + ED YYC+ + + G GT+ I + A
Sbjct: 54 LQPGNPSRFSGSGSGRDYSFSISNLEAEDIAIYYCLQYDNLQRTFGGGTKVEIK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1FSK|B Chain B, Complex Formation Between A Fab Fragment Of A Monoclonal
Igg Antibody And The Major Allergen From Birch Pollen
Bet V 1
pdb|1FSK|E Chain E, Complex Formation Between A Fab Fragment Of A Monoclonal
Igg Antibody And The Major Allergen From Birch Pollen
Bet V 1
pdb|1FSK|H Chain H, Complex Formation Between A Fab Fragment Of A Monoclonal
Igg Antibody And The Major Allergen From Birch Pollen
Bet V 1
pdb|1FSK|K Chain K, Complex Formation Between A Fab Fragment Of A Monoclonal
Igg Antibody And The Major Allergen From Birch Pollen
Bet V 1
Length = 214
Score = 32.0 bits (71), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 44/213 (20%), Positives = 72/213 (33%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGS 182
S +S+ VS G+ V L C A + + W ++ P TG
Sbjct: 7 SPKSMSVSVGERVTLSCKASENVDTYVFWFQQKPDQSPKLLLYGPSNRYTGVPDRFTGSG 66
Query: 183 IYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED Y+C G GT+ I + AP +++ P Q
Sbjct: 67 STTDFTLTISSVQAEDLADYHCGQSYSYPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3LS4|L Chain L, Crystal Structure Of Anti-Tetrahydrocannabinol Fab
Fragment With Thc
pdb|3LS5|L Chain L, Anti-Tetrahydrocannabinol Fab Fragment, Free Form
Length = 215
Score = 31.6 bits (70), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + + G GT+ + + AP +++ P Q
Sbjct: 74 LTIGTMEAEDVATYYCQQGSSIPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 132
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 133 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 177
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|1IGT|B Chain B, Structure Of Immunoglobulin
pdb|1IGT|D Chain D, Structure Of Immunoglobulin
Length = 444
Score = 31.6 bits (70), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 29/72 (40%), Gaps = 6/72 (8%)
Query: 189 LKIPQITKEDRGTYYCVAENGV------GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L++ ++ ED YYC G G+GT ++ AP + P G
Sbjct: 81 LQMSRLKSEDTAMYYCARHGGYYAMDYWGQGTTVTVSSAKTTAPSVYPLAPVCGDTTGSS 140
Query: 243 MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 VTLGCLVKGYFP 152
Score = 28.9 bits (63), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 36/82 (43%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIRYDT 91
GG+++L C+ DY + W++ K E + + G S D+ RF I D
Sbjct: 15 GGSLKLSCATSGFTFSDYYMYWVRQTPEKRLEWVAYISNGGGSTYYPDTVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A +T L + ++ D Y C
Sbjct: 75 AKNTLYLQMSRLKSEDTAMYYC 96
>pdb|1MCW|M Chain M, Three-Dimensional Structure Of A Hybrid Light Chain Dimer.
Protein Engineering Of A Binding Cavity
pdb|2MCG|1 Chain 1, Three-Dimensional Structure Of A Light Chain Dimer
Crystallized In Water. Conformational Flexibility Of A
Molecule In Two Crystal Forms
pdb|2MCG|2 Chain 2, Three-Dimensional Structure Of A Light Chain Dimer
Crystallized In Water. Conformational Flexibility Of A
Molecule In Two Crystal Forms
pdb|3MCG|1 Chain 1, Three-Dimensional Structure Of A Light Chain Dimer
Crystallized In Water. Conformational Flexibility Of A
Molecule In Two Crystal Forms
pdb|3MCG|2 Chain 2, Three-Dimensional Structure Of A Light Chain Dimer
Crystallized In Water. Conformational Flexibility Of A
Molecule In Two Crystal Forms
pdb|1A8J|L Chain L, Immunoglobulin Lambda Light Chain Dimer (Mcg) Complex With
Aspartame
pdb|1A8J|H Chain H, Immunoglobulin Lambda Light Chain Dimer (Mcg) Complex With
Aspartame
Length = 216
Score = 31.6 bits (70), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 32/137 (23%), Positives = 59/137 (43%), Gaps = 8/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L + + ED YYC + G G GT+ + + + P +T+ P +
Sbjct: 75 LTVSGLQAEDEADYYCSSYEGSDNFVFGTGTKVTVLGQPKANPTVTLFPPSSEELQANKA 134
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQYG 301
L C + + P A+ V K D V + S + +++ ++ +T E+ + +
Sbjct: 135 TLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSK-QSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|3CFB|H Chain H, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2 In Complex With Stilbene Hapten At 100k
pdb|3CFB|B Chain B, High-Resolution Structure Of Blue Fluorescent Antibody
Ep2-19g2 In Complex With Stilbene Hapten At 100k
Length = 213
Score = 31.6 bits (70), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 34/141 (24%), Positives = 52/141 (36%), Gaps = 29/141 (20%)
Query: 146 VVSEGQPVQLECFAGGHPTPR--ISW-------RRENNAILPTGGSIY-----RGSI--- 188
+V G ++L C A G R +SW R E A + +GG Y +G
Sbjct: 11 LVKPGGSLKLSCTASGITFSRYIMSWVRQIPEKRLEWVASISSGGITYYPDSVKGRFTIS 70
Query: 189 ---------LKIPQITKEDRGTYYCVAENG---VGKGTRRNIAVEVEFAPVITVPKPRLG 236
L++ + ED YYC G G+GT ++ P + P G
Sbjct: 71 RDNVRNILYLQMSSLRSEDTALYYCARGQGRPYWGQGTLVTVSSAKTTPPSVYPLAPGCG 130
Query: 237 QALQYDMDLECHVEAYPPPAI 257
+ L C V+ Y P ++
Sbjct: 131 DTTGSSVTLGCLVKGYFPESV 151
>pdb|3HAE|L Chain L, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3HAE|G Chain G, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3HAE|N Chain N, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
pdb|3HAE|S Chain S, Rational Development Of High-Affinity T-Cell Receptor-Like
Antibodies
Length = 212
Score = 31.6 bits (70), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 44/204 (21%), Positives = 75/204 (36%), Gaps = 30/204 (14%)
Query: 143 RSLVVSEGQPVQLECFA-----GGHPTPRISWRRENNAILP------------------T 179
RS+ S GQ V + C GG+ +SW +++ P +
Sbjct: 8 RSVSGSPGQSVTISCTGTSRDVGGYN--YVSWYQQHPGKAPKLIIHDVIIRPSGVPDRFS 65
Query: 180 GGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRL 235
G + L I + ED YYC + G G GT + + + P +T+ P
Sbjct: 66 GSKSGNTASLTISGLQAEDEAHYYCWSFAGSYYVFGTGTDVTVLGQPKANPTVTLFPPSS 125
Query: 236 GQALQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVIT 294
+ L C + + P A+ V K D V + S + + + +
Sbjct: 126 EELQANKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTP 185
Query: 295 IEKRQYGSYICRAANKLGTSEKTV 318
+ + + SY C+ ++ T EKTV
Sbjct: 186 EQWKSHRSYSCQVTHEGNTVEKTV 209
>pdb|2BDN|H Chain H, Crystal Structure Of Human Mcp-1 Bound To A Blocking
Antibody, 11k2
Length = 217
Score = 31.6 bits (70), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 30/73 (41%), Gaps = 9/73 (12%)
Query: 189 LKIPQITKEDRGTYYCVAENGV-------GKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L++ +T ED YYC GV G+GT ++ AP + P G
Sbjct: 81 LQLSSLTSEDTAVYYCA--RGVFGFFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGS 138
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 139 SVTLGCLVKGYFP 151
>pdb|1ZAN|H Chain H, Crystal Structure Of Anti-Ngf Ad11 Fab
Length = 224
Score = 31.6 bits (70), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 33/80 (41%), Gaps = 15/80 (18%)
Query: 188 ILKIPQITKEDRGTYYCVAENGV-----------GKGTRRNIAVEVEFAPVITVPKPRLG 236
LK+ + ED TYYC + G G+GT ++ AP + P G
Sbjct: 79 FLKMHSLQSEDTATYYCARDGGYSSSTLYAMDAWGQGTTVTVSSASTTAPSVYPLAP--G 136
Query: 237 QALQYD--MDLECHVEAYPP 254
A Q + + L C V+ Y P
Sbjct: 137 SAAQTNSMVTLGCLVKGYFP 156
>pdb|1LIL|A Chain A, Bence Jones Protein Cle, A Lambda Iii Immunoglobulin
Light- Chain Dimer
pdb|1LIL|B Chain B, Bence Jones Protein Cle, A Lambda Iii Immunoglobulin
Light- Chain Dimer
Length = 212
Score = 31.6 bits (70), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 44/213 (20%), Positives = 77/213 (36%), Gaps = 32/213 (15%)
Query: 130 QVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------- 178
+V +PP SL VS GQ ++ C + W ++ P
Sbjct: 2 EVTQPP--------SLSVSPGQTARITCSGEKLGDAYVCWYQQRPGQSPVVVIYQDNRRP 53
Query: 179 -------TGGSIYRGSILKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAP 226
+G S + L I D YYC + G GT+ + + + AP
Sbjct: 54 SGIPERFSGSSSGNTATLTISGTQTLDEADYYCQVWDSNASVVFGGGTKLTVLGQPKAAP 113
Query: 227 VITVPKPRLGQALQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEF 285
+T+ P + L C + + P A+ V K D+ V + + S +
Sbjct: 114 SVTLFPPSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYA 173
Query: 286 TDTTIRVITIEKRQYGSYICRAANKLGTSEKTV 318
+ + + + + + SY C+ ++ T EKTV
Sbjct: 174 ASSYLSLTPEQWKSHRSYSCQVTHEGSTVEKTV 206
>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 = 31.6 bits (70), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 32/143 (22%), Positives = 57/143 (39%), Gaps = 18/143 (12%)
Query: 189 LKIPQITKEDRGTYYCVAENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L I I ED Y C + + G GT+ + + + P +TV P + +
Sbjct: 77 LSISNIQPEDEAIYICGVGDTIKEQFVYVFGGGTKVTVLGQPKSTPTLTVFPPSSEELKE 136
Query: 241 YDMDLECHVEAYPPPA--IVWIKED---TQQVLTNNQHYSISHFATADEFTDTTIRVITI 295
L C + + P + W TQ V T+N + F A F + + +
Sbjct: 137 NKATLVCLISNFSPSGVTVAWKANGTPITQGVDTSNPTKEGNKFM-ASSF----LHLTSD 191
Query: 296 EKRQYGSYICRAANKLGTSEKTV 318
+ R + S+ C+ ++ T EK++
Sbjct: 192 QWRSHNSFTCQVTHEGDTVEKSL 214
>pdb|1XT5|A Chain A, Crystal Structure Of Vcbp3, Domain 1, From Branchiostoma
Floridae
Length = 135
Score = 31.6 bits (70), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 33/93 (35%), Positives = 38/93 (40%), Gaps = 16/93 (17%)
Query: 39 GGTVELKCSVQYAQDY--PVI-WMKV---DR---------NKVTEPLPISTGSSLIIRDS 83
GGTVEL CS Q A D PVI W+K DR N E L S
Sbjct: 19 GGTVELPCSYQLANDTQPPVISWLKGASPDRSTKVFKGNYNWQGEGLGFVESDSYKESFG 78
Query: 84 RFAIRYDTAS-STYTLLVKDIQETDAGYYRCQV 115
F R A+ + TL + + D G Y CQV
Sbjct: 79 DFLGRASVANLAAPTLRLTHVHPQDGGRYWCQV 111
>pdb|3CJJ|A Chain A, Crystal Structure Of Human Rage Ligand-Binding Domain
Length = 219
Score = 31.6 bits (70), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 40/88 (45%), Gaps = 16/88 (18%)
Query: 150 GQPVQLEC-FAGGHPTPRISW-----RRENNAIL-PTGGSIY--------RGSILKIPQI 194
G+P+ L+C A P R+ W R E +L P GG + GS+ +P +
Sbjct: 10 GEPLVLKCKGAPKKPPQRLEWKLNTGRTEAWKVLSPQGGGPWDSVARVLPNGSLF-LPAV 68
Query: 195 TKEDRGTYYCVAENGVGKGTRRNIAVEV 222
+D G + C A N GK T+ N V V
Sbjct: 69 GIQDEGIFRCQAMNRNGKETKSNYRVRV 96
>pdb|4ETQ|L Chain L, Vaccinia Virus D8l Imv Envelope Protein In Complex With
Fab Of Murine Igg2a La5
pdb|4ETQ|B Chain B, Vaccinia Virus D8l Imv Envelope Protein In Complex With
Fab Of Murine Igg2a La5
Length = 212
Score = 31.6 bits (70), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED TYYC G GT+ + + AP +++ P Q
Sbjct: 72 LTINRLEAEDGATYYCQQWTSYPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|3S96|B Chain B, Crystal Structure Of 3b5h10
pdb|3S96|D Chain D, Crystal Structure Of 3b5h10
Length = 218
Score = 31.6 bits (70), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 32/143 (22%), Positives = 57/143 (39%), Gaps = 18/143 (12%)
Query: 189 LKIPQITKEDRGTYYCVAENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L I I ED Y C + + G GT+ + + + P +TV P + +
Sbjct: 77 LSISNIQPEDEAIYICGVGDTIKEQFVYVFGGGTKVTVLGQPKSTPTLTVFPPSSEELKE 136
Query: 241 YDMDLECHVEAYPPPA--IVWIKED---TQQVLTNNQHYSISHFATADEFTDTTIRVITI 295
L C + + P + W TQ V T+N + F A F + + +
Sbjct: 137 NKATLVCLISNFSPSGVTVAWKANGTPITQGVDTSNPTKEGNKFM-ASSF----LHLTSD 191
Query: 296 EKRQYGSYICRAANKLGTSEKTV 318
+ R + S+ C+ ++ T EK++
Sbjct: 192 QWRSHNSFTCQVTHEGDTVEKSL 214
>pdb|1YNL|H Chain H, Identification Of Key Residues Of The Nc6.8 Fab Antibody
Fragment Binding To Synthetic Sweeterners: Crystal
Structure Of Nc6.8 Co-Crystalized With High Potency
Sweetener Compound Sc45647
Length = 219
Score = 31.6 bits (70), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 31/140 (22%), Positives = 51/140 (36%), Gaps = 31/140 (22%)
Query: 150 GQPVQLECFAGGHPTP--RISWRREN--------NAILPTGGSI-----YRG-------- 186
G VQ+ C A G+ I W +E ILP G ++G
Sbjct: 15 GASVQISCKATGYTFSFYWIEWVKERPGHGLEWIGEILPGSGRTNYREKFKGKATFTADT 74
Query: 187 ----SILKIPQITKEDRGTYYCV----AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
+ +++ +T ED YYC + + G+GT ++ P + P G
Sbjct: 75 SSNTAYMQLSSLTSEDSAVYYCTRGYSSMDYWGQGTSVTVSAAKTTPPSVYPLAPGCGDT 134
Query: 239 LQYDMDLECHVEAYPPPAIV 258
+ L C V+ Y P ++
Sbjct: 135 TGSSVTLGCLVKGYFPESVT 154
>pdb|1UYW|L Chain L, Crystal Structure Of The Antiflavivirus Fab4g2
pdb|1UYW|N Chain N, Crystal Structure Of The Antiflavivirus Fab4g2
Length = 212
Score = 31.6 bits (70), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 43/218 (19%), Positives = 75/218 (34%), Gaps = 55/218 (25%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S +S+ +S G+ V L C A + +SW ++ P
Sbjct: 2 IVMTQSPKSMSMSVGERVTLTCKASENVVTYVSWYQQKPEQSPKLLIYGASNRYTGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
TG L I + ED Y+C G GT+ + + AP +++ P
Sbjct: 62 FTGSGSATDFTLTISSVQAEDLADYHCGQGYSYPYTFGGGTKLELK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 175
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 176 S----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3SCM|D Chain D, Crystal Structure Of Autoreactive-Valpha14-Vbeta6 Nkt Tcr
In Complex With Cd1d-Isoglobotrihexosylceramide
pdb|3SDA|D Chain D, Crystal Structure Of Autoreactive-Valpha14-Vbeta6 Nkt Tcr
In Complex With Cd1d-Beta-Galactosylceramide
pdb|3SDC|D Chain D, Crystal Structure Of Autoreactive-Valpha14-Vbeta6 Nkt Tcr
In Complex With Cd1d-Globotrihexosylceramide
pdb|3SDD|D Chain D, Crystal Structure Of Autoreactive-Valpha14-Vbeta6 Nkt Tcr
In Complex With Cd1d-Beta-Lactosylceramide
Length = 245
Score = 31.6 bits (70), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 29/135 (21%), Positives = 52/135 (38%), Gaps = 14/135 (10%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTA---SST 95
G + LKC + D + W + D K + S G+ + + YD + S+
Sbjct: 18 GQKLTLKCQQNFNHD-TMYWYRQDSGKGLRLIYYSYGAGSTEKGD-LSEGYDASREKKSS 75
Query: 96 YTLLVKDIQETDAGYYRC---------QVIIGINNKISAEVDLQVRRPPVISDNSTRSLV 146
++L V Q+ + + C +V G +++ DL+ PP ++
Sbjct: 76 FSLTVTSAQKNEMAVFLCASGSLLDVREVFFGKGTRLTVVEDLKNVFPPEVAVFEPSEAE 135
Query: 147 VSEGQPVQLECFAGG 161
+S Q L C A G
Sbjct: 136 ISHTQKATLVCLATG 150
>pdb|4DVB|A Chain A, The Crystal Structure Of The Fab Fragment Of Pro-upa
Antibody Mab-112
pdb|4DVB|H Chain H, The Crystal Structure Of The Fab Fragment Of Pro-upa
Antibody Mab-112
Length = 213
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 41/92 (44%), Gaps = 9/92 (9%)
Query: 32 QEQIKDI---GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLP-ISTGSSLIIRDS-- 83
QE D+ GG+++L CS Y + W++ K E + I+ G S DS
Sbjct: 5 QESGGDLVKPGGSLKLSCSASGFTFSRYAMSWVRQTPEKRLEWVASITNGGSTYYSDSVK 64
Query: 84 -RFAIRYDTASSTYTLLVKDIQETDAGYYRCQ 114
RF I D A + +L + ++ D Y C+
Sbjct: 65 GRFIISRDNARNILSLQMSSLRSEDTAMYYCE 96
>pdb|2AEQ|L Chain L, An Epidemiologically Significant Epitope Of A 1998
Influenza Virus Neuraminidase Forms A Highly Hydrated
Interface In The Na-Antibody Complex
Length = 214
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 42/218 (19%), Positives = 73/218 (33%), Gaps = 55/218 (25%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S + L S G V + C A + ++W ++ P
Sbjct: 2 ILMTQSQKFLSTSVGDRVSVTCKASQNVGTNVAWYQQKPGQSPKPLMYSASYRYSGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKP 233
TG L I + ED Y+C N G GT+ + + AP +++ P
Sbjct: 62 FTGSGSGTDFTLTISNVQSEDLAEYFCQQFNRYPLTFGSGTKLELK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 175
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 176 S----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|4DW2|H Chain H, The Crystal Structure Of Upa In Complex With The Fab
Fragment Of Mab- 112
Length = 212
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 26/92 (28%), Positives = 41/92 (44%), Gaps = 9/92 (9%)
Query: 32 QEQIKDI---GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLP-ISTGSSLIIRDS-- 83
QE D+ GG+++L CS Y + W++ K E + I+ G S DS
Sbjct: 5 QESGGDLVKPGGSLKLSCSASGFTFSRYAMSWVRQTPEKRLEWVASITNGGSTYYSDSVK 64
Query: 84 -RFAIRYDTASSTYTLLVKDIQETDAGYYRCQ 114
RF I D A + +L + ++ D Y C+
Sbjct: 65 GRFIISRDNARNILSLQMSSLRSEDTAMYYCE 96
>pdb|1A6T|A Chain A, Fab Fragment Of Mab1-Ia Monoclonal Antibody To Human
Rhinovirus 14 Nim-Ia Site
pdb|1A6T|C Chain C, Fab Fragment Of Mab1-Ia Monoclonal Antibody To Human
Rhinovirus 14 Nim-Ia Site
Length = 210
Score = 31.6 bits (70), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G GT+ + + AP +++ P Q
Sbjct: 72 LTISGVEAEDAATYYCQQYSSHPLTFGGGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1MIE|H Chain H, Crystal Structure Of The Fab Fragment Of Esterolytic
Antibody Ms5-393
pdb|1MJ7|H Chain H, Crystal Structure Of The Complex Of The Fab Fragment Of
Esterolytic Antibody Ms5-393 And A Transition-State
Analog
Length = 228
Score = 31.6 bits (70), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 32/141 (22%), Positives = 54/141 (38%), Gaps = 32/141 (22%)
Query: 146 VVSEGQPVQLECFAGGHP--TPRISWRREN-NAILPTGGSIYRGS--------------- 187
+V G V+L C A G+ + I+W ++ L G++Y GS
Sbjct: 11 LVKPGASVKLSCKASGYTFTSSWINWVKQRPGQGLEWIGNVYPGSSSTNYNEKFKNKATL 70
Query: 188 ---------ILKIPQITKEDRGTYYCVAENGV-----GKGTRRNIAVEVEFAPVITVPKP 233
+++ +T +D YYCV ++ G+GT ++ AP + P
Sbjct: 71 TVDTSSSTAYMQLSSLTSDDSAFYYCVRKDYSWFPYWGQGTLVTVSAAKTTAPSVYPLAP 130
Query: 234 RLGQALQYDMDLECHVEAYPP 254
G + L C V+ Y P
Sbjct: 131 VCGDTSGSSVTLGCLVKGYFP 151
>pdb|3V0W|H Chain H, Crystal Structure Of Fab Wn1 222-5 In Complex With Lps
Length = 219
Score = 31.6 bits (70), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 6/72 (8%)
Query: 189 LKIPQITKEDRGTYYCVAE------NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L++ + ED TYYCV + + G+GT ++ AP + P G
Sbjct: 83 LQMNALRTEDSATYYCVRQGRGYTLDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSS 142
Query: 243 MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 143 VTLGCLVKGYFP 154
>pdb|3V0V|H Chain H, Fab Wn1 222-5 Unliganded
pdb|3V0V|A Chain A, Fab Wn1 222-5 Unliganded
Length = 220
Score = 31.6 bits (70), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 31/72 (43%), Gaps = 6/72 (8%)
Query: 189 LKIPQITKEDRGTYYCVAE------NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L++ + ED TYYCV + + G+GT ++ AP + P G
Sbjct: 83 LQMNALRTEDSATYYCVRQGRGYTLDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSS 142
Query: 243 MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 143 VTLGCLVKGYFP 154
>pdb|4D9L|L Chain L, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|M Chain M, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|N Chain N, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
pdb|4D9L|O Chain O, Fab Structure Of Anti-Hiv-1 Gp120 V2 Mab 697
Length = 215
Score = 31.6 bits (70), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 30/137 (21%), Positives = 56/137 (40%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC + + G GT+ + + + P +T+ P +
Sbjct: 75 LAITGLQAEDEADYYCQSYDSSLSGYVFGTGTKVTVLGQPKANPTVTLFPPSSEELQANK 134
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 135 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHR 194
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 195 SYSCQVTHEGSTVEKTV 211
>pdb|2R0Z|H Chain H, Pfa1 Fab Complexed With Gripi Peptide Fragment
Length = 223
Score = 31.6 bits (70), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 30/77 (38%), Gaps = 10/77 (12%)
Query: 188 ILKIPQITKEDRGTYYCV--AENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQ 237
L+I + D TYYCV A V G+GT ++ AP + P G
Sbjct: 81 FLRITSVDTADTATYYCVRRAHTTVLGDWFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGD 140
Query: 238 ALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 TTGSSVTLGCLVKGYFP 157
>pdb|2VXT|L Chain L, Crystal Structure Of Human Il-18 Complexed To Murine
Reference Antibody 125-2h Fab
pdb|2VXU|L Chain L, Crystal Structure Of Murine Reference Antibody 125-2h Fab
Fragment
pdb|2VXU|M Chain M, Crystal Structure Of Murine Reference Antibody 125-2h Fab
Fragment
Length = 214
Score = 31.6 bits (70), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 49/229 (21%), Positives = 80/229 (34%), Gaps = 68/229 (29%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAI 176
D+Q+ + P SL S G+ V L C A ++ W ++ +
Sbjct: 1 DIQMTQSP-------SSLSASLGERVSLTCRASQDIGSKLYWLQQEPDGTFKRLIYATSS 53
Query: 177 LPTG----------GSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEV 222
L +G GS Y L I + ED YYC+ G GT+ I
Sbjct: 54 LDSGVPKRFSGSRSGSDYS---LTISSLESEDFVDYYCLQYASSPYTFGGGTKLAIK-RA 109
Query: 223 EFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQ 265
+ AP +++ P Q + C + + P I W +D++
Sbjct: 110 DAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK 169
Query: 266 QVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 -----DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3D9A|H Chain H, High Resolution Crystal Structure Structure Of Hyhel10 Fab
Complexed To Hen Egg Lysozyme
Length = 210
Score = 31.6 bits (70), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 28/68 (41%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAENG--VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L + +T ED TYYC +G G+GT ++ P + P + L
Sbjct: 80 LDLNSVTTEDTATYYCANWDGDYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLG 139
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 140 CLVKGYFP 147
>pdb|2E5E|A Chain A, Solution Structure Of Variable-Type Domain Of Human
Receptor For Advanced Glycation Endproducts
Length = 101
Score = 31.6 bits (70), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 40/88 (45%), Gaps = 16/88 (18%)
Query: 150 GQPVQLEC-FAGGHPTPRISW-----RRENNAIL-PTGGSIY--------RGSILKIPQI 194
G+P+ L+C A P R+ W R E +L P GG + GS+ +P +
Sbjct: 11 GEPLVLKCKGAPKKPPQRLEWKLNTGRTEAWKVLSPQGGGPWDSVARVLPNGSLF-LPAV 69
Query: 195 TKEDRGTYYCVAENGVGKGTRRNIAVEV 222
+D G + C A N GK T+ N V V
Sbjct: 70 GIQDEGIFRCQAMNRNGKETKSNYRVRV 97
>pdb|1FAI|L Chain L, Three-Dimensional Structure Of Two Crystal Forms Of Fab
R19.9, From A Monoclonal Anti-Arsonate Antibody
pdb|2F19|L Chain L, Three-Dimensional Structure Of Two Crystal Forms Of Fab
R19.9, From A Monoclonal Anti-Arsonate Antibody
Length = 214
Score = 31.6 bits (70), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 46/213 (21%), Positives = 79/213 (37%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V + C A + ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTISCRASQDISNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED TY+C + + G GT+ I + AP +++ P Q
Sbjct: 67 SGTDYSLTISNLEHEDIATYFCQQGSTLPRTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1NCB|H Chain H, Crystal Structures Of Two Mutant Neuraminidase-Antibody
Complexes With Amino Acid Substitutions In The Interface
pdb|1NCD|H Chain H, Refined Crystal Structure Of The Influenza Virus N9
Neuraminidase-Nc41 Fab Complex
Length = 221
Score = 31.6 bits (70), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 31/140 (22%), Positives = 50/140 (35%), Gaps = 35/140 (25%)
Query: 150 GQPVQLECFAGGH-------------PTPRISWRR--ENNAILPTGGSIYRGSI------ 188
G+ V++ C A G+ P + W N PT G ++G
Sbjct: 15 GETVKISCKASGYTFTNYGMNWVKQAPGKGLEWMGWINTNTGEPTYGEEFKGRFAFSLET 74
Query: 189 ------LKIPQITKEDRGTYYCV-AENGVG-------KGTRRNIAVEVEFAPVITVPKPR 234
L+I + ED+ T++C E+ G +GT ++ AP + P
Sbjct: 75 SASTANLQINNLKNEDKATFFCARGEDNFGSLSDYWGQGTTLTVSSAKTTAPSVYPLAPV 134
Query: 235 LGQALQYDMDLECHVEAYPP 254
G + L C V+ Y P
Sbjct: 135 CGDTTGSSVTLGCLVKGYFP 154
>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 = 31.2 bits (69), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 40/88 (45%), Gaps = 16/88 (18%)
Query: 150 GQPVQLEC-FAGGHPTPRISW-----RRENNAIL-PTGGSIY--------RGSILKIPQI 194
G+P+ L+C A P R+ W R E +L P GG + GS+ +P +
Sbjct: 13 GEPLVLKCKGAPKKPPQRLEWKLNTGRTEAWKVLSPQGGGPWDSVARVLPNGSLF-LPAV 71
Query: 195 TKEDRGTYYCVAENGVGKGTRRNIAVEV 222
+D G + C A N GK T+ N V V
Sbjct: 72 GIQDEGIFRCQAMNRNGKETKSNYRVRV 99
>pdb|1EMT|L Chain L, Fab Antibody Fragment Of An C60 Antifullerene Antibody
Length = 214
Score = 31.2 bits (69), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 46/213 (21%), Positives = 78/213 (36%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V C A + ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTFSCSASQDISNYLNWYQQKPDGTIKLLIYYTSSLRSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED TY+C + + G GT+ I + AP +++ P Q
Sbjct: 67 SGTDYSLTINNLEPEDIATYFCQQYSRLPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>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 = 0.92, Method: Composition-based stats.
Identities = 22/82 (26%), Positives = 32/82 (39%), Gaps = 8/82 (9%)
Query: 135 PVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGG-----SIYRGSIL 189
P I D + R L +SEG+ +L+C P + W N +L S+ L
Sbjct: 8 PFIMD-APRDLNISEGRMAELKCRTP--PMSSVKWLLPNGTVLSHASRHPRISVLNDGTL 64
Query: 190 KIPQITKEDRGTYYCVAENGVG 211
+ D G Y C+ N G
Sbjct: 65 NFSHVLLSDTGVYTCMVTNVAG 86
>pdb|3UTT|E Chain E, 1e6-A0201-Alwgpdpaaa Complex, Triclinic
pdb|3UTT|J Chain J, 1e6-A0201-Alwgpdpaaa Complex, Triclinic
Length = 245
Score = 31.2 bits (69), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 34/146 (23%), Positives = 59/146 (40%), Gaps = 19/146 (13%)
Query: 32 QEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDS-----RFA 86
+ ++ ++G V L+C DY + W + + E L I +++ I DS RF+
Sbjct: 8 RHEVTEMGQQVTLRCKPISGHDY-LFWYRQTMMRGLELL-IYFNNNVPIDDSGMPEDRFS 65
Query: 87 IRYDTASSTYTLLVKDIQETDAGYYRCQV-----------IIGINNKISAEVDLQVRRPP 135
+ AS + TL ++ + D+ Y C G ++S DL+ PP
Sbjct: 66 AKMPNASFS-TLKIQPSEPRDSAVYFCASSLWEKLAKNIQYFGAGTRLSVLEDLKNVFPP 124
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGG 161
++ +S Q L C A G
Sbjct: 125 EVAVFEPSEAEISHTQKATLVCLATG 150
>pdb|3GHE|L Chain L, Crystal Structure Of Anti-Hiv-1 Fab 537-10d In Complex
With V3 Peptide Mn
Length = 217
Score = 31.2 bits (69), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 32/138 (23%), Positives = 61/138 (44%), Gaps = 9/138 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED Y+C + G GT+ + + + AP +T+ P +
Sbjct: 75 LTISGLQAEDEADYHCSSYTSSTPYVLFGGGTKLTVLGQPKAAPSVTLFPPSSEELQANK 134
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQY 300
L C + + P A+ V K D+ V + + S + +++ ++ +T E+ + +
Sbjct: 135 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSK-QSNNKYAASSYLSLTPEQWKSH 193
Query: 301 GSYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 RSYSCQVTHEGSTVEKTV 211
>pdb|1PLG|H Chain H, Evidence For The Extended Helical Nature Of Polysaccharide
Epitopes. The 2.8 Angstroms Resolution Structure And
Thermodynamics Of Ligand Binding Of An Antigen Binding
Fragment Specific For Alpha-(2->8)- Polysialic Acid
Length = 215
Score = 31.2 bits (69), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 30/71 (42%), Gaps = 5/71 (7%)
Query: 189 LKIPQITKEDRGTYYCV-----AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
+++ +T ED Y+C A + G+GT ++ AP + P G +
Sbjct: 81 MQLSSLTSEDSAVYFCARGGKFAMDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSV 140
Query: 244 DLECHVEAYPP 254
L C V+ Y P
Sbjct: 141 TLGCLVKGYFP 151
>pdb|1ZNB|A Chain A, Metallo-Beta-Lactamase
pdb|1ZNB|B Chain B, Metallo-Beta-Lactamase
pdb|2ZNB|A Chain A, Metallo-Beta-Lactamase (Cadmium-Bound Form)
pdb|2ZNB|B Chain B, Metallo-Beta-Lactamase (Cadmium-Bound Form)
pdb|3ZNB|A Chain A, Metallo-Beta-Lactamase (Zn, Hg-Bound Form)
pdb|3ZNB|B Chain B, Metallo-Beta-Lactamase (Zn, Hg-Bound Form)
Length = 232
Score = 31.2 bits (69), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 42/90 (46%), Gaps = 12/90 (13%)
Query: 109 GYYRCQVIIGINNKISAEVDLQVRRP-PVISDNSTRSLVVS-EGQPVQLECFAGGHPTPR 166
GY + + + N+++ +DL + PV T SL VS +G P+Q GGH T
Sbjct: 92 GYLQKKGVQSYANQMT--IDLAKEKGLPVPEHGFTDSLTVSLDGMPLQCYYLGGGHATDN 149
Query: 167 I-SWRRENNAILPTGGSIYRGSILKIPQIT 195
I W LPT ++ G +LK Q T
Sbjct: 150 IVVW-------LPTENILFGGCMLKDNQAT 172
>pdb|1GHF|L Chain L, Anti-Anti-Idiotype Gh1002 Fab Fragment
Length = 211
Score = 31.2 bits (69), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED TY+C N + G GT+ I + A +++ P Q
Sbjct: 73 LTISNLEQEDFATYFCQQGNTLPYTFGGGTKLEIK-RADAAQTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3Q5T|A Chain A, V BetaV BETA HOMODIMERIZATION-Based Pre-Tcr Model
Suggested By Tcr Beta Crystal Structures
Length = 241
Score = 31.2 bits (69), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 49/176 (27%), Positives = 74/176 (42%), Gaps = 36/176 (20%)
Query: 141 STRSLVVSEGQPVQLECFA-GGHPT------PR-------ISWRRE---NNAILPTGG-S 182
S R V+ EGQ V C GH T PR + +R E +N+ LP+ S
Sbjct: 8 SPRYAVLQEGQSVSFWCDPISGHDTLYWYQQPRDQGPQLLVYFRDEAVIDNSQLPSDRFS 67
Query: 183 IYR----GSILKIPQITKEDRGTYYCVAENGV------GKGTRRNIAVEVEFA--PVITV 230
R S LKI + D TY C + +GV GKGTR + ++ P +++
Sbjct: 68 AVRPKGTNSTLKIQSAKQGDTATYLCASSSGVGTEVFFGKGTRLTVVEDLRNVTPPKVSL 127
Query: 231 PKPRLGQ-ALQYDMDLECHVEAYPPPAI---VWI--KEDTQQVLTNNQHYSISHFA 280
+P + A + L C + P + W+ KE V T+ Q Y S+++
Sbjct: 128 FEPSKAEIANKQKATLVCLARGFFPDHVELSWWVNGKEVHSGVSTDPQAYKESNYS 183
>pdb|1GPO|L Chain L, Crystal Structure Of The Rationally Designed Antibody M41
As A Fab Fragment
pdb|1GPO|M Chain M, Crystal Structure Of The Rationally Designed Antibody M41
As A Fab Fragment
Length = 219
Score = 31.2 bits (69), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 43/204 (21%), Positives = 75/204 (36%), Gaps = 42/204 (20%)
Query: 137 ISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAI--LPT---GGSIYRGSILKI 191
IS +++SLV +G H +PR+ + + +I +P+ G L I
Sbjct: 21 ISCRASQSLVNEDGNTYLFWYQQKSHESPRLLIKYASQSISGIPSRFSGSGSGTDFTLSI 80
Query: 192 PQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLEC 247
+ ED Y+C G GT+ I + AP +++ P Q + C
Sbjct: 81 NSVETEDLAVYFCQQITDWPFTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASVVC 139
Query: 248 HVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDTTI 290
+ + P I W +D++ + YS+S +T+
Sbjct: 140 FLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------STL 184
Query: 291 RVITIEKRQYGSYICRAANKLGTS 314
+ E ++ SY C A +K TS
Sbjct: 185 TLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1FRG|L Chain L, Crystal Structure, Sequence, And Epitope Mapping Of A
Peptide Complex Of An Anti-Influenza Ha Peptide Antibody
Fab 26(Slash)9: Fine-Tuning Antibody Specificity
Length = 217
Score = 31.2 bits (69), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 46/224 (20%), Positives = 76/224 (33%), Gaps = 61/224 (27%)
Query: 136 VISDNSTRSLVVSEGQPVQLEC------FAGG---------HPTPR------ISWRRENN 174
++ S SL V+ G+ V + C F G H P I W
Sbjct: 2 IVMTQSPSSLTVTAGEKVTMSCKSSQSLFNSGKRKNFLTWYHQKPGQPPKLLIYWASTRE 61
Query: 175 AILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPV 227
+ +P +G L I + ED YYC + G GT+ + + AP
Sbjct: 62 SGVPDRFSGSGSGTDFTLTITSVQAEDLAIYYCQNDYSHPLTFGAGTKLELK-RADAAPT 120
Query: 228 ITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTN 270
+++ P Q + C + + P I W +D++
Sbjct: 121 VSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK----- 175
Query: 271 NQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 176 DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 209
>pdb|1MJ8|H Chain H, High Resolution Crystal Structure Of The Fab Fragment Of
The Esterolytic Antibody Ms6-126
Length = 230
Score = 31.2 bits (69), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 55/143 (38%), Gaps = 34/143 (23%)
Query: 146 VVSEGQPVQLECFAGGHP--TPRISWRREN-NAILPTGGSIYRGS--------------- 187
+V G V+L C A G+ + I+W ++ L G+IY GS
Sbjct: 11 LVKPGASVKLSCKASGYTFTSNWINWVKQRPGQGLEWIGNIYPGSGYTNYNERFKSKATL 70
Query: 188 ---------ILKIPQITKEDRGTYYCVAE----NGV---GKGTRRNIAVEVEFAPVITVP 231
+++ +T +D YYC + +GV G+GT ++ AP +
Sbjct: 71 TVDTSSSTAYMQLSSLTSDDSAVYYCARKHYFYDGVVYWGQGTLVTVSAAKTTAPSVYPL 130
Query: 232 KPRLGQALQYDMDLECHVEAYPP 254
P G + L C V+ Y P
Sbjct: 131 APVCGDTSGSSVTLGCLVKGYFP 153
>pdb|1UB5|H Chain H, Crystal Structure Of Antibody 19g2 With Hapten At 100k
pdb|1UB5|A Chain A, Crystal Structure Of Antibody 19g2 With Hapten At 100k
Length = 209
Score = 31.2 bits (69), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 51/138 (36%), Gaps = 29/138 (21%)
Query: 146 VVSEGQPVQLECFAGGHPTPR--ISW-------RRENNAILPTGGSIY-------RGSI- 188
+V G ++L C A G R +SW R E A + +GG Y R +I
Sbjct: 11 LVKPGGSLKLSCTASGITFSRYIMSWVRQIPEKRLEWVASISSGGITYYPDSVAGRFTIS 70
Query: 189 ---------LKIPQITKEDRGTYYCVAENG---VGKGTRRNIAVEVEFAPVITVPKPRLG 236
L++ + ED YYC G G+GT ++ P + P G
Sbjct: 71 RDNVRNILYLQMSSLRSEDTALYYCARGQGRPYWGQGTLVTVSSAKTTPPSVYPAAPGCG 130
Query: 237 QALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 131 DTTGSSVTLGCLVKGYFP 148
>pdb|3I50|L Chain L, Crystal Structure Of The West Nile Virus Envelope
Glycoprotein In Complex With The E53 Antibody Fab
Length = 207
Score = 31.2 bits (69), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G GT+ + + AP +++ P Q
Sbjct: 72 LTISSMEAEDVATYYCQQWSSHPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1JNL|H Chain H, Crystal Structure Of Fab-Estradiol Complexes
Length = 216
Score = 31.2 bits (69), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAENGV--GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L++ +T ED YYC E + G+GT ++V P + P + L
Sbjct: 81 LQLDNLTSEDTAVYYCAIEKDLPWGQGTLVTVSVAKTTPPSVYPLAPGSAAQTNSMVTLG 140
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 141 CLVKGYFP 148
>pdb|2AEP|L Chain L, An Epidemiologically Significant Epitope Of A 1998
Influenza Virus Neuraminidase Forms A Highly Hydrated
Interface In The Na-Antibody Complex
Length = 214
Score = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 42/218 (19%), Positives = 73/218 (33%), Gaps = 55/218 (25%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S + L S G V + C A + ++W ++ P
Sbjct: 2 ILMTQSQKFLSTSVGDRVSVTCKASQNVGTNVAWYQKKPGQSPKPLMYSASYRYSGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKP 233
TG L I + ED Y+C N G GT+ + + AP +++ P
Sbjct: 62 FTGSGSGTDFTLTISNVQSEDLAEYFCQQFNRYPLTFGSGTKLELK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 175
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 176 S----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1CF8|L Chain L, Convergence Of Catalytic Antibody And Terpene Cyclase
Mechanisms: Polyene Cyclization Directed By
Carbocation-pi Interactions
pdb|1HQ4|A Chain A, Structure Of Native Catalytic Antibody Ha5-19a4
pdb|1HQ4|C Chain C, Structure Of Native Catalytic Antibody Ha5-19a4
Length = 215
Score = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 30/147 (20%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED +Y+C+ + G GT+ + + AP +++ P Q
Sbjct: 74 LTISSMEAEDAASYFCLQWSSFPYTFGGGTKLELK-RADVAPTVSIFPPSSEQLTSGGAS 132
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 133 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 177
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|3RA7|L Chain L, Bispecific Digoxigenin Binding Antibodies For Targeted
Payload Delivery
pdb|3RA7|M Chain M, Bispecific Digoxigenin Binding Antibodies For Targeted
Payload Delivery
Length = 214
Score = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 47/213 (22%), Positives = 79/213 (37%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRRE------------NNAILPTGGSIY--RG 186
ST SL S G V + C A ++W ++ ++ +L S + RG
Sbjct: 7 STSSLSASLGDRVTISCRASQDIKNYLNWYQQKPGGTVKLLIYYSSTLLSGVPSRFSGRG 66
Query: 187 S----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
S L I + +ED TY+C + G GT+ I + AP +++ P Q
Sbjct: 67 SGTDFSLTITNLEREDIATYFCQQSITLPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3UTP|E Chain E, 1e6 Tcr Specific For Hla-A0201-Alwgpdpaaa
pdb|3UTP|L Chain L, 1e6 Tcr Specific For Hla-A0201-Alwgpdpaaa
pdb|3UTS|E Chain E, 1e6-A0201-Alwgpdpaaa Complex, Monoclinic
pdb|3UTS|J Chain J, 1e6-A0201-Alwgpdpaaa Complex, Monoclinic
Length = 246
Score = 31.2 bits (69), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 34/146 (23%), Positives = 59/146 (40%), Gaps = 19/146 (13%)
Query: 32 QEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDS-----RFA 86
+ ++ ++G V L+C DY + W + + E L I +++ I DS RF+
Sbjct: 9 RHEVTEMGQQVTLRCKPISGHDY-LFWYRQTMMRGLELL-IYFNNNVPIDDSGMPEDRFS 66
Query: 87 IRYDTASSTYTLLVKDIQETDAGYYRCQV-----------IIGINNKISAEVDLQVRRPP 135
+ AS + TL ++ + D+ Y C G ++S DL+ PP
Sbjct: 67 AKMPNASFS-TLKIQPSEPRDSAVYFCASSLWEKLAKNIQYFGAGTRLSVLEDLKNVFPP 125
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGG 161
++ +S Q L C A G
Sbjct: 126 EVAVFEPSEAEISHTQKATLVCLATG 151
>pdb|3LS4|H Chain H, Crystal Structure Of Anti-Tetrahydrocannabinol Fab
Fragment With Thc
pdb|3LS5|H Chain H, Anti-Tetrahydrocannabinol Fab Fragment, Free Form
Length = 219
Score = 31.2 bits (69), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%), Gaps = 6/81 (7%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLP-ISTGSSLIIRDS---RFAIRYDTA 92
GG+++L C+ +Y ++W++ K E + IS G S DS RF I D A
Sbjct: 15 GGSLKLSCAASGFTFNNYVMVWLRQTPEKRLEWVASISRGGSTYYPDSVKGRFTISRDNA 74
Query: 93 SSTYTLLVKDIQETDAGYYRC 113
+ L + ++ D Y C
Sbjct: 75 RNILYLQMSSLRSEDTAMYYC 95
>pdb|1KCS|L Chain L, Crystal Structure Of Antibody Pc282 In Complex With Ps1
Peptide
pdb|1KCV|L Chain L, Crystal Structure Of Antibody Pc282
Length = 214
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 38/203 (18%), Positives = 76/203 (37%), Gaps = 25/203 (12%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S +S+ +S G+ V L C A + +SW ++ P
Sbjct: 2 IVMTQSPKSMGMSVGEAVTLNCKASENVGTYVSWYQQKPGQSPVLLIYGASNRYTGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
TG L I + +D YYC G GT+ + + AP ++ P
Sbjct: 62 FTGSGSATDFTLTISSVQADDDADYYCGQSYSSPLTFGGGTKLELK-RADAAPTSSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAIV--WIKEDTQQVLTNNQHYSISHFATADEFTDTTIR 291
Q + C + ++ P +I W + +++ ++ A++ +T+
Sbjct: 121 SSEQLSSGGASVVCFLNSFYPKSIAVKWKVDGSKRANGTANSWTDQDSASSTYSMSSTLT 180
Query: 292 VITIEKRQYGSYICRAANKLGTS 314
+ + ++ SY C A +K +S
Sbjct: 181 LTKDKYERHNSYTCEATHKTSSS 203
>pdb|1KCS|H Chain H, Crystal Structure Of Antibody Pc282 In Complex With Ps1
Peptide
pdb|1KCV|H Chain H, Crystal Structure Of Antibody Pc282
Length = 217
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 30/72 (41%), Gaps = 6/72 (8%)
Query: 188 ILKIPQITKEDRGTYYCVAENGV-----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L++ +T +D TYYC A G G GT ++ AP + P A
Sbjct: 80 FLQLNSVTTDDTATYYC-ARGGTGFPYWGTGTNVTVSAASTTAPSVFPLVPGSATAAASA 138
Query: 243 MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 139 VTLGCLVKGYFP 150
>pdb|3HFM|H Chain H, Structure Of An Antibody-Antigen Complex. Crystal
Structure Of The HyHEL-10 Fab-Lysozyme Complex
Length = 215
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 28/68 (41%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAENG--VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L + +T ED TYYC +G G+GT ++ P + P + L
Sbjct: 80 LDLNSVTTEDTATYYCANWDGDYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNSMVTLG 139
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 140 CLVKGYFP 147
>pdb|1JNN|H Chain H, Crystal Structure Of Fab-Estradiol Complexes
Length = 214
Score = 31.2 bits (69), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAENGV--GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
L++ +T ED YYC E + G+GT ++V P + P + L
Sbjct: 81 LQLDNLTSEDTAVYYCAIEKDLPWGQGTLVTVSVAKTTPPSVYPLAPGSAAQTNSMVTLG 140
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 141 CLVKGYFP 148
>pdb|3QUM|B Chain B, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
pdb|3QUM|D Chain D, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
Length = 219
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 32/75 (42%), Gaps = 7/75 (9%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
+++ +T ED YYC A +G G GT ++ AP + P G
Sbjct: 81 MQLNSLTSEDSAVYYC-ARSGRLYFDVWGAGTTVTVSSAKTTAPPVYPLAPVCGDTTGSS 139
Query: 243 MDLECHVEAYPPPAI 257
+ L C V+ Y P ++
Sbjct: 140 VTLGCLVKGYFPESV 154
>pdb|3EYS|H Chain H, Pfa1 Fab Fragment Complexed With Pyro-Glu3-A-Beta (3-8)
Length = 223
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 30/77 (38%), Gaps = 10/77 (12%)
Query: 188 ILKIPQITKEDRGTYYCV--AENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQ 237
L+I + D TYYCV A V G+GT ++ AP + P G
Sbjct: 81 FLRITSVDTADTATYYCVRRAHTTVLGDWFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGG 140
Query: 238 ALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 TTGSSVTLGCLVKGYFP 157
>pdb|3PUC|A Chain A, Atomic Resolution Structure Of Titin Domain M7
Length = 99
Score = 31.2 bits (69), Expect = 1.1, Method: Composition-based stats.
Identities = 24/83 (28%), Positives = 32/83 (38%), Gaps = 9/83 (10%)
Query: 135 PVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYR------GSI 188
PVI + VS + A G P P W ++ AI T G Y+ G
Sbjct: 7 PVIV-TGLQDTTVSSDSVAKFAVKATGEPRPTAIWTKDGKAI--TQGGKYKLSEDKGGFF 63
Query: 189 LKIPQITKEDRGTYYCVAENGVG 211
L+I + D G Y C +N G
Sbjct: 64 LEIHKTDTSDSGLYTCTVKNSAG 86
>pdb|3U9U|A Chain A, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
pdb|3U9U|C Chain C, Crystal Structure Of Extracellular Domain Of Human
Erbb4HER4 IN Complex With The Fab Fragment Of Mab1479
Length = 224
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 28/73 (38%), Gaps = 6/73 (8%)
Query: 188 ILKIPQITKEDRGTYYCV------AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
LKI + D TYYC + G+GT ++ AP + P G
Sbjct: 81 FLKIASVDTADTATYYCARIPDDHYFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGS 140
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 SVTLGCLVKGYFP 153
>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 = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 7/98 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLP---ISTGSSLIIRD--S 83
S ++K G +V++ C S +Y + W++ + E + TG + D
Sbjct: 7 SGPELKKPGASVKVSCKASGYTFTNYGMNWVRQAPGQGLEWMGWINTYTGETTYADDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINN 121
RF DT+ ST L + ++ D Y C+ G+NN
Sbjct: 67 RFVFSLDTSVSTAYLQISSLKAEDTAVYYCEREGGVNN 104
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 28/71 (39%), Gaps = 3/71 (4%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
+ L+I + ED YYC E GV G+GT ++ P + P
Sbjct: 79 AYLQISSLKAEDTAVYYCEREGGVNNWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTA 138
Query: 244 DLECHVEAYPP 254
L C V+ Y P
Sbjct: 139 ALGCLVKDYFP 149
>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 = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 7/98 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLP---ISTGSSLIIRD--S 83
S ++K G +V++ C S +Y + W++ + E + TG + D
Sbjct: 7 SGPELKKPGASVKVSCKASGYTFTNYGMNWVRQAPGQGLEWMGWINTYTGETTYADDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRCQVIIGINN 121
RF DT+ ST L + ++ D Y C+ G+NN
Sbjct: 67 RFVFSLDTSVSTAYLQISSLKAEDTAVYYCEREGGVNN 104
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 28/71 (39%), Gaps = 3/71 (4%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
+ L+I + ED YYC E GV G+GT ++ P + P
Sbjct: 79 AYLQISSLKAEDTAVYYCEREGGVNNWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTA 138
Query: 244 DLECHVEAYPP 254
L C V+ Y P
Sbjct: 139 ALGCLVKDYFP 149
>pdb|3S88|L Chain L, Crystal Structure Of Sudan Ebolavirus Glycoprotein (Strain
Gulu) Bound To 16f6
pdb|3VE0|B Chain B, Crystal Structure Of Sudan Ebolavirus Glycoprotein (Strain
Boniface) Bound To 16f6
Length = 212
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 37/179 (20%), Positives = 61/179 (34%), Gaps = 40/179 (22%)
Query: 160 GGHPTPRISWRRENNAILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENGV----GK 212
G P I W + +P TG L + + ED YYC G
Sbjct: 41 GHSPKLLIYWASTRHTGVPDRFTGSGSGTAFTLTLNSVQAEDLALYYCQQHYSTPLTFGA 100
Query: 213 GTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI--------------- 257
GT+ + + AP +++ P Q + C + + P I
Sbjct: 101 GTKLELK-RADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGV 159
Query: 258 --VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
W +D++ + YS+S +T+ + E ++ SY C A +K TS
Sbjct: 160 LNSWTDQDSK-----DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3AY4|C Chain C, Crystal Structure Of Nonfucosylated Fc Complexed With
Bis-Glycosylated Soluble Form Of Fc Gamma Receptor Iiia
Length = 179
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 44/106 (41%), Gaps = 24/106 (22%)
Query: 107 DAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPR 166
D+G YRCQ + + +S V L+V ++ V E P+ L C
Sbjct: 63 DSGEYRCQTQL---STLSDPVQLEVHIGWLLL--QAPRWVFKEEDPIHLRCH-------- 109
Query: 167 ISWRRENNAI-----LPTGGS---IYRGSILKIPQITKEDRGTYYC 204
SW+ N A+ L G + S IP+ T +D G+Y+C
Sbjct: 110 -SWK--NTALHKVTYLQNGKGRKYFHHNSDFYIPKATLKDSGSYFC 152
>pdb|2IPT|H Chain H, Pfa1 Fab Fragment
Length = 223
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 30/77 (38%), Gaps = 10/77 (12%)
Query: 188 ILKIPQITKEDRGTYYCV--AENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQ 237
L+I + D TYYCV A V G+GT ++ AP + P G
Sbjct: 81 FLRITSVDTADTATYYCVRRAHTTVLGDWFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGG 140
Query: 238 ALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 TTGSSVTLGCLVKGYFP 157
>pdb|1YNT|B Chain B, Structure Of The Immunodominant Epitope Displayed By The
Surface Antigen 1 (Sag1) Of Toxoplasma Gondii Complexed
To A Monoclonal Antibody
pdb|1YNT|D Chain D, Structure Of The Immunodominant Epitope Displayed By The
Surface Antigen 1 (Sag1) Of Toxoplasma Gondii Complexed
To A Monoclonal Antibody
Length = 218
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 30/72 (41%), Gaps = 6/72 (8%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
+++ ++T ED YYC + G+GT ++ AP + P G
Sbjct: 81 MELARLTSEDSAIYYCARSSTWYYFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSS 140
Query: 243 MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 VTLGCLVKGYFP 152
>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 = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/85 (23%), Positives = 34/85 (40%), Gaps = 25/85 (29%)
Query: 140 NSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGS--ILK------- 190
N T ++ V EGQ + L+C + W + P+G +I+ +LK
Sbjct: 6 NHTETITVEEGQTLTLKCVTSLRKNSSLQW------LTPSGFTIFLNEYPVLKNSKYQLL 59
Query: 191 ----------IPQITKEDRGTYYCV 205
+P +T +D G Y C+
Sbjct: 60 HHSANQLSITVPNVTLQDEGVYKCL 84
>pdb|32C2|A Chain A, Structure Of An Activity Suppressing Fab Fragment To
Cytochrome P450 Aromatase
Length = 217
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 34/146 (23%), Positives = 56/146 (38%), Gaps = 36/146 (24%)
Query: 189 LKIPQITKEDRGTYYC--VAEN-GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
L I + +ED TYYC + E G GT+ I + AP +++ P Q +
Sbjct: 77 LNIHPVEEEDAATYYCQHIREPLTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASV 135
Query: 246 ECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDT 288
C + + P I W +D++ + YS+S +
Sbjct: 136 VCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------S 180
Query: 289 TIRVITIEKRQYGSYICRAANKLGTS 314
T+ + E ++ SY C A +K TS
Sbjct: 181 TLTLTKDEYERHNSYTCEATHKTSTS 206
>pdb|1CIC|A Chain A, Idiotope-Anti-Idiotope Fab-Fab Complex; D1.3-E225
Length = 214
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 38/179 (21%), Positives = 61/179 (34%), Gaps = 40/179 (22%)
Query: 160 GGHPTPRISWRRENNAILP---TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGK 212
G P I W + +P TG L I + ED Y+C G
Sbjct: 41 GQSPKLLIYWASTRHTGVPDRFTGSGSGTDFTLTISNVQSEDLADYFCQHCGSYPFTFGS 100
Query: 213 GTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI--------------- 257
GT+ I + AP +++ P Q + C + + P I
Sbjct: 101 GTKLEIK-RADAAPTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGV 159
Query: 258 --VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
W +D++ + YS+S +T+ + E ++ SY C A +K TS
Sbjct: 160 LDSWTDQDSK-----DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1BAF|L Chain L, 2.9 Angstroms Resolution Structure Of An
Anti-Dinitrophenyl- Spin-Label Monoclonal Antibody Fab
Fragment With Bound Hapten
Length = 214
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 32/148 (21%), Positives = 55/148 (37%), Gaps = 38/148 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L I ++ ED TYYC + G GT+ + + AP +++ P Q
Sbjct: 72 LTISRMEAEDAATYYCQQWSSYPPITFGVGTKLELK-RADAAPTVSIFPPSSEQLTSGGA 130
Query: 244 DLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFT 286
+ C + + P I W +D++ + YS+S
Sbjct: 131 SVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS--------- 176
Query: 287 DTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 -STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1OAK|L Chain L, Crystal Structure Of The Von Willebrand Factor (Vwf) A1
Domain In Complex With The Function Blocking Nmc-4 Fab
Length = 212
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 48/226 (21%), Positives = 81/226 (35%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAI 176
D+Q+ + P SL S G V + C A ++W ++ +
Sbjct: 1 DIQMTQSP-------SSLSASLGDRVTISCSASQDINKYLNWYQQKPDGAVKLLIFYTSS 53
Query: 177 LPTG-GSIYRGS------ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFA 225
L +G S + GS L I + ED TYYC + G GT+ + + A
Sbjct: 54 LHSGVPSRFSGSGSGTDYSLTISNLEPEDIATYYCQQYEKLPWTFGGGTKLEVK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2IPU|H Chain H, Pfa1 Fab Fragment Complexed With Abeta 1-8 Peptide
pdb|2IPU|G Chain G, Pfa1 Fab Fragment Complexed With Abeta 1-8 Peptide
Length = 226
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 30/77 (38%), Gaps = 10/77 (12%)
Query: 188 ILKIPQITKEDRGTYYCV--AENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQ 237
L+I + D TYYCV A V G+GT ++ AP + P G
Sbjct: 81 FLRITSVDTADTATYYCVRRAHTTVLGDWFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGG 140
Query: 238 ALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 TTGSSVTLGCLVKGYFP 157
>pdb|3PIQ|L Chain L, Crystal Structure Of Human 2909 Fab, A Quaternary
Structure-Specific Antibody Against Hiv-1
pdb|3PIQ|B Chain B, Crystal Structure Of Human 2909 Fab, A Quaternary
Structure-Specific Antibody Against Hiv-1
pdb|3PIQ|D Chain D, Crystal Structure Of Human 2909 Fab, A Quaternary
Structure-Specific Antibody Against Hiv-1
pdb|3PIQ|F Chain F, Crystal Structure Of Human 2909 Fab, A Quaternary
Structure-Specific Antibody Against Hiv-1
pdb|3PIQ|I Chain I, Crystal Structure Of Human 2909 Fab, A Quaternary
Structure-Specific Antibody Against Hiv-1
pdb|3PIQ|K Chain K, Crystal Structure Of Human 2909 Fab, A Quaternary
Structure-Specific Antibody Against Hiv-1
Length = 211
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 60/147 (40%), Gaps = 7/147 (4%)
Query: 179 TGGSIYRGSILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPK 232
+G + + L I ++ D YYC + G GT+ + + + AP +T+
Sbjct: 62 SGSNSGNTATLTISRVEAGDEADYYCQVWDSNSDHVVFGGGTQLTVLGQPKAAPSVTLFP 121
Query: 233 PRLGQALQYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIR 291
P + L C + + P A+ V K D+ V + + S + + +
Sbjct: 122 PSSEELQANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLS 181
Query: 292 VITIEKRQYGSYICRAANKLGTSEKTV 318
+ + + + SY C+ ++ T EKTV
Sbjct: 182 LTPEQWKSHRSYSCQVTHEGSTVEKTV 208
>pdb|1FNS|L Chain L, Crystal Structure Of The Von Willebrand Factor (Vwf) A1
Domain I546v Mutant In Complex With The Function
Blocking Fab Nmc4
Length = 214
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 48/226 (21%), Positives = 81/226 (35%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAI 176
D+Q+ + P SL S G V + C A ++W ++ +
Sbjct: 1 DIQMTQSP-------SSLSASLGDRVTISCSASQDINKYLNWYQQKPDGAVKLLIFYTSS 53
Query: 177 LPTG-GSIYRGS------ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFA 225
L +G S + GS L I + ED TYYC + G GT+ + + A
Sbjct: 54 LHSGVPSRFSGSGSGTDYSLTISNLEPEDIATYYCQQYEKLPWTFGGGTKLEVK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3CFD|L Chain L, Purple-fluorescent Antibody Ep2-25c10 In Complex With Its
Stilbene Hapten
pdb|3CFD|A Chain A, Purple-fluorescent Antibody Ep2-25c10 In Complex With Its
Stilbene Hapten
pdb|3CFE|L Chain L, Crystal Structure Of Purple-Fluorescent Antibody Ep2-25c10
pdb|3CFE|A Chain A, Crystal Structure Of Purple-Fluorescent Antibody Ep2-25c10
Length = 214
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 45/213 (21%), Positives = 79/213 (37%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V + C A + ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTISCRASQDISNYLNWYQQKPDGTVKLLIYYTSRLHSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ++D TY+C + G GT+ I + AP +++ P Q
Sbjct: 67 SGTDYSLTISNLDQDDIATYFCQQGTTLPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 ------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3QSK|B Chain B, 5 Histidine Variant Of The Anti-Rnase A Vhh In Complex
With Rnase A
Length = 123
Score = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 24/88 (27%), Positives = 36/88 (40%), Gaps = 27/88 (30%)
Query: 146 VVSEGQPVQLECFAGG--HPTPRISW-------RRENNAILPTGG--SIYRGSI------ 188
+V G ++L C A G HP + W RE A + +GG ++Y S+
Sbjct: 13 LVQAGGSLRLSCAASGYHHPYIYMGWFRQAPGKEREGVAAMDSGGGGTLYADSVKGRFTI 72
Query: 189 ----------LKIPQITKEDRGTYYCVA 206
L++ + ED TYYC A
Sbjct: 73 SRDKGKNTVYLQMDSLKPEDTATYYCAA 100
>pdb|3EYU|H Chain H, Pfa1 Fab Fragment Complexed With Ror2(518-525)
Length = 226
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 30/77 (38%), Gaps = 10/77 (12%)
Query: 188 ILKIPQITKEDRGTYYCV--AENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQ 237
L+I + D TYYCV A V G+GT ++ AP + P G
Sbjct: 81 FLRITSVDTADTATYYCVRRAHTTVLGDWFAYWGQGTLVTVSAAKTTAPSVYPLAPVXGG 140
Query: 238 ALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 TTGSSVTLGCLVKGYFP 157
>pdb|2G2R|H Chain H, Green-Fluorescent Antibody 11g10 In Complex With Its
Hapten (Nitro-Stilbene Derivative)
pdb|2G2R|B Chain B, Green-Fluorescent Antibody 11g10 In Complex With Its
Hapten (Nitro-Stilbene Derivative)
Length = 219
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 31/74 (41%), Gaps = 6/74 (8%)
Query: 187 SILKIPQITKEDRGTYYCV----AENGV--GKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+ + + +T ED YYCV A + V G GT ++ AP + P G
Sbjct: 79 AYMDLNSLTSEDSAVYYCVPYDYAADRVYWGHGTLVTVSTAKTTAPSVYPLAPVCGGTTG 138
Query: 241 YDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 139 SSVTLGCLVKGYFP 152
>pdb|1A7T|A Chain A, Metallo-Beta-Lactamase With Mes
pdb|1A7T|B Chain B, Metallo-Beta-Lactamase With Mes
pdb|1A8T|A Chain A, Metallo-Beta-Lactamase In Complex With L-159,061
pdb|1A8T|B Chain B, Metallo-Beta-Lactamase In Complex With L-159,061
Length = 232
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 33/72 (45%), Gaps = 10/72 (13%)
Query: 127 VDLQVRRP-PVISDNSTRSLVVS-EGQPVQLECFAGGHPTPRI-SWRRENNAILPTGGSI 183
+DL + PV T SL VS +G P+Q GGH T I W LPT +
Sbjct: 108 IDLAKEKGLPVPEHGFTDSLTVSLDGMPLQCYYLGGGHATDNIVVW-------LPTENIL 160
Query: 184 YRGSILKIPQIT 195
+ G +LK Q T
Sbjct: 161 FGGCMLKDNQTT 172
>pdb|2FB4|L Chain L, Dir Primaerstruktur Des Kristallisierbaren Monoklonalen
Immunoglobulins Igg1 Kol. Ii. Aminosaeuresequenz Der L-
Kette, Lambda-Typ, Subgruppe I (German)
pdb|2IG2|L Chain L, Dir Primaerstruktur Des Kristallisierbaren Monoklonalen
Immunoglobulins Igg1 Kol. Ii. Aminosaeuresequenz Der L-
Kette, Lambda-Typ, Subgruppe I (German)
Length = 216
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 31/137 (22%), Positives = 54/137 (39%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC A + G GT+ + + + P +T+ P +
Sbjct: 74 LAIGGLQSEDETDYYCAAWDVSLNAYVFGTGTKVTVLGQPKANPTVTLFPPSSEELQANK 133
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D V + S + + + + + + +
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|1CL7|H Chain H, Anti Hiv1 Protease Fab
Length = 135
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 40/90 (44%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC-SVQYA-QDYPVIWMKVDRN---KVTEPLPISTGSSLIIRD--S 83
S ++K G TV++ C + YA DY + W+K K + T D
Sbjct: 7 SGPELKKPGETVKISCKATNYAFTDYSMHWVKQAPGGDLKYVGWINTETDEPTFADDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA DT++ST L + +++ D Y C
Sbjct: 67 RFAFSLDTSTSTAFLQINNLKNEDTATYFC 96
>pdb|3DWT|A Chain A, Structure Of Cabbcii-10 Nanobody
pdb|3DWT|B Chain B, Structure Of Cabbcii-10 Nanobody
pdb|3DWT|C Chain C, Structure Of Cabbcii-10 Nanobody
pdb|3DWT|D Chain D, Structure Of Cabbcii-10 Nanobody
pdb|3DWT|E Chain E, Structure Of Cabbcii-10 Nanobody
pdb|3DWT|F Chain F, Structure Of Cabbcii-10 Nanobody
pdb|3DWT|G Chain G, Structure Of Cabbcii-10 Nanobody
pdb|3DWT|H Chain H, Structure Of Cabbcii-10 Nanobody
Length = 137
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 37/90 (41%), Gaps = 10/90 (11%)
Query: 39 GGTVELKCSVQYAQDYP-----VIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIR 88
GG++ L C+ +Y + W + + E + S G DS RF I
Sbjct: 15 GGSLRLSCTASGGSEYSYSTFSLGWFRQAPGQEREAVAAIASMGGLTYYADSVKGRFTIS 74
Query: 89 YDTASSTYTLLVKDIQETDAGYYRCQVIIG 118
D A +T TL + +++ D Y C + G
Sbjct: 75 RDNAKNTVTLQMNNLKPEDTAIYYCAAVRG 104
>pdb|1HLK|A Chain A, Metallo-Beta-Lactamase From Bacteroides Fragilis In
Complex With A Tricyclic Inhibitor
pdb|1HLK|B Chain B, Metallo-Beta-Lactamase From Bacteroides Fragilis In
Complex With A Tricyclic Inhibitor
Length = 227
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 33/72 (45%), Gaps = 10/72 (13%)
Query: 127 VDLQVRRP-PVISDNSTRSLVVS-EGQPVQLECFAGGHPTPRI-SWRRENNAILPTGGSI 183
+DL + PV T SL VS +G P+Q GGH T I W LPT +
Sbjct: 105 IDLAKEKGLPVPEHGFTDSLTVSLDGMPLQCYYLGGGHATDNIVVW-------LPTENIL 157
Query: 184 YRGSILKIPQIT 195
+ G +LK Q T
Sbjct: 158 FGGCMLKDNQAT 169
>pdb|2BK8|A Chain A, M1 Domain From Titin
Length = 97
Score = 30.8 bits (68), Expect = 1.2, Method: Composition-based stats.
Identities = 22/79 (27%), Positives = 33/79 (41%), Gaps = 17/79 (21%)
Query: 39 GGTVELKCSVQ-YAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYT 97
GG V+ C ++ Y Q V W G + ++ I Y+ +
Sbjct: 16 GGHVKYVCKIENYDQSTQVTWY--------------FGVRQLENSEKYEITYEDGVAI-- 59
Query: 98 LLVKDIQETDAGYYRCQVI 116
L VKDI + D G YRC+V+
Sbjct: 60 LYVKDITKLDDGTYRCKVV 78
>pdb|1KB5|H Chain H, Murine T-Cell Receptor Variable DomainFAB COMPLEX
Length = 219
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 30/139 (21%), Positives = 52/139 (37%), Gaps = 34/139 (24%)
Query: 150 GQPVQLECFAGGHPTP--RISWRRENNA--------ILPTGGSI-----YRG-------- 186
G V++ C A G+ ++W +++N I P G I ++G
Sbjct: 15 GASVKISCKASGYSFTGYNMNWVKQSNGKSLEWIGNIDPYYGGISYNQKFKGRATLTVDK 74
Query: 187 ----SILKIPQITKEDRGTYYCVAE-------NGVGKGTRRNIAVEVEFAPVITVPKPRL 235
+ +++ +T ED YYC + G+GT ++ AP + P
Sbjct: 75 SSSTAYMQLKSLTSEDSAVYYCARSRTDLYYFDYWGQGTTLTVSSAKTTAPSVYPLAPVC 134
Query: 236 GQALQYDMDLECHVEAYPP 254
G + L C V+ Y P
Sbjct: 135 GDTTGSSVTLGCLVKGYFP 153
>pdb|2XWT|B Chain B, Crystal Structure Of The Tsh Receptor In Complex With A
Blocking Type Tshr Autoantibody
Length = 214
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 32/139 (23%), Positives = 54/139 (38%), Gaps = 7/139 (5%)
Query: 187 SILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+ L I + D YYC + G GT+ + + + AP +T+ P +
Sbjct: 72 ATLGITGLQTGDEADYYCGTWDSRLGIAVFGGGTQLTVLGQPKAAPSVTLFPPSSEELQA 131
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C V + P A+ V K D V + S + + + + + +
Sbjct: 132 NKATLVCLVSDFYPGAVTVAWKADGSPVKVGVETTKPSKQSNNKYAASSYLSLTPEQWKS 191
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY CR ++ T EKTV
Sbjct: 192 HRSYSCRVTHEGSTVEKTV 210
>pdb|4FAB|H Chain H, Three-Dimensional Structure Of A Fluorescein-Fab Complex
Crystallized In 2-Methyl-2,4-Pentanediol
Length = 216
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 4/70 (5%)
Query: 189 LKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L++ + ED G YYC + G+GT ++ AP + P G +
Sbjct: 83 LQMNNLRVEDMGIYYCTGSYYGMDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVT 142
Query: 245 LECHVEAYPP 254
L C V+ Y P
Sbjct: 143 LGCLVKGYFP 152
>pdb|3UTZ|A Chain A, Endogenous-Like Inhibitory Antibodies Targeting Activated
Metalloproteinase Motifs Show Therapeutic Potential
pdb|3UTZ|D Chain D, Endogenous-Like Inhibitory Antibodies Targeting Activated
Metalloproteinase Motifs Show Therapeutic Potential
pdb|3UTZ|E Chain E, Endogenous-Like Inhibitory Antibodies Targeting Activated
Metalloproteinase Motifs Show Therapeutic Potential
Length = 219
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 33/117 (28%), Positives = 49/117 (41%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I V AP + + P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQASHVPPTFGSGTKLEIKRTVA-APSVFIFPPSDEQLKSGTAS 136
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|1Z7Z|I Chain I, Cryo-Em Structure Of Human Coxsackievirus A21 Complexed
With Five Domain Icam-1kilifi
Length = 450
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 9/59 (15%)
Query: 157 CFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVGKGTR 215
C A G+P P + ++ LP G S+ +T++ GTY C A + G+ TR
Sbjct: 392 CQAWGNPLPELKCLKDGTFPLPIGESVT---------VTRDLEGTYLCRARSTQGEVTR 441
>pdb|2BMI|A Chain A, Metallo-Beta-Lactamase
pdb|2BMI|B Chain B, Metallo-Beta-Lactamase
pdb|1KR3|A Chain A, Crystal Structure Of The Metallo Beta-Lactamase From
Bacteroides Fragilis (Cfia) In Complex With The
Tricyclic Inhibitor Sb-236050.
pdb|1KR3|B Chain B, Crystal Structure Of The Metallo Beta-Lactamase From
Bacteroides Fragilis (Cfia) In Complex With The
Tricyclic Inhibitor Sb-236050
Length = 232
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 26/72 (36%), Positives = 33/72 (45%), Gaps = 10/72 (13%)
Query: 127 VDLQVRRP-PVISDNSTRSLVVS-EGQPVQLECFAGGHPTPRI-SWRRENNAILPTGGSI 183
+DL + PV T SL VS +G P+Q GGH T I W LPT +
Sbjct: 108 IDLAKEKGLPVPEHGFTDSLTVSLDGMPLQCYYLGGGHATDNIVVW-------LPTENIL 160
Query: 184 YRGSILKIPQIT 195
+ G +LK Q T
Sbjct: 161 FGGCMLKDNQAT 172
>pdb|4DAG|L Chain L, Structure Of The Human Metapneumovirus Fusion Protein With
Neutralizing Antibody Identifies A Pneumovirus Antigenic
Site
Length = 213
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 31/137 (22%), Positives = 55/137 (40%), Gaps = 5/137 (3%)
Query: 187 SILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
+ L I D YYC A + G GT + + + AP +T+ P +
Sbjct: 70 ATLTISGTQAMDEADYYCQAWDSSTAVFGGGTTLTVLGQPKAAPSVTLFPPSSEELQANK 129
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D+ V + + S + + + + + + +
Sbjct: 130 ATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKSHR 189
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 190 SYSCQVTHEGSTVEKTV 206
>pdb|3SGJ|C Chain C, Unique Carbohydrate-Carbohydrate Interactions Are Required
For High Affinity Binding Between Fcgiii And Antibodies
Lacking Core Fucose
pdb|3SGK|C Chain C, Unique CarbohydrateCARBOHYDRATE INTERACTIONS ARE REQUIRED
FOR HIGH Affinity Binding Of Fcgiii And Antibodies
Lacking Core Fucose
Length = 204
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 44/106 (41%), Gaps = 24/106 (22%)
Query: 107 DAGYYRCQVIIGINNKISAEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPR 166
D+G YRCQ + + +S V L+V ++ V E P+ L C
Sbjct: 65 DSGEYRCQTQL---STLSDPVQLEVHIGWLLLQ--APRWVFKEEDPIHLRCH-------- 111
Query: 167 ISWRRENNAI-----LPTGGS---IYRGSILKIPQITKEDRGTYYC 204
SW+ N A+ L G + S IP+ T +D G+Y+C
Sbjct: 112 -SWK--NTALHKVTYLQNGKGRKYFHHNSDFYIPKATLKDSGSYFC 154
>pdb|1UWX|K Chain K, P1.2 Serosubtype Antigen Derived From N. Meningitidis Pora
In Complex With Fab Fragment
pdb|1UWX|L Chain L, P1.2 Serosubtype Antigen Derived From N. Meningitidis Pora
In Complex With Fab Fragment
Length = 213
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 34/137 (24%), Positives = 56/137 (40%), Gaps = 17/137 (12%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
KI + ED +YYC + G GT+ I + AP +++ P Q
Sbjct: 73 FKISSLQAEDFVSYYCQQLSSTPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI--VWI---KEDTQQVLTN--NQHYSISHFATADEFTDTTIRVITIEK 297
+ C + + P I W KE VL + +Q S ++ + +T+ + E
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGKERQNGVLNSWTDQDSKDSTYSMS-----STLTLTKDEY 186
Query: 298 RQYGSYICRAANKLGTS 314
++ SY C A +K TS
Sbjct: 187 ERHNSYTCEATHKTSTS 203
>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 = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/74 (25%), Positives = 30/74 (40%), Gaps = 8/74 (10%)
Query: 189 LKIPQITKEDRGTYYCV--------AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+++ +T ED YYC A + G+GT ++ AP + P G
Sbjct: 81 MQLSSLTSEDSAVYYCARSYSNYVRAMDYWGQGTSVTVSSAKTTAPSVYPLVPVCGGTTG 140
Query: 241 YDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 SSVTLGCLVKGYFP 154
>pdb|1ZTX|H Chain H, West Nile Virus Envelope Protein Diii In Complex With
Neutralizing E16 Antibody Fab
Length = 219
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 31/79 (39%), Gaps = 7/79 (8%)
Query: 187 SILKIPQITKEDRGTYYCV--AENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
+ +++ +T ED YYC A G G GT ++ P + P G
Sbjct: 79 AFMQLSSLTSEDSAVYYCARSASYGDYADYWGHGTTLTVSSAKTTPPSVYPLAPGCGDTT 138
Query: 240 QYDMDLECHVEAYPPPAIV 258
+ L C V+ Y P ++
Sbjct: 139 GSSVTLGCLVKGYFPESVT 157
>pdb|3VI3|L Chain L, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI3|E Chain E, Crystal Structure Of Alpha5beta1 Integrin Headpiece
(Ligand-Free Form)
pdb|3VI4|L Chain L, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
pdb|3VI4|E Chain E, Crystal Structure Of Alpha5beta1 Integrin Headpiece In
Complex With Rgd Peptide
Length = 219
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 43/204 (21%), Positives = 76/204 (37%), Gaps = 42/204 (20%)
Query: 137 ISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENN--AILP---TGGSIYRGSILKI 191
IS S +SL+ S G +PR+ R +N + +P +G L+I
Sbjct: 21 ISCRSNKSLLHSNGNTYLYWFLQRPGQSPRLLIFRMSNLASGVPDRFSGSGSGTAFTLRI 80
Query: 192 PQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLEC 247
++ D G Y+C+ G GT+ + + AP +++ P Q + C
Sbjct: 81 SRVEAADVGIYFCLQHLEYPFTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGASVVC 139
Query: 248 HVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDTTI 290
+ + P I W +D++ + YS+S +T+
Sbjct: 140 FLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------STL 184
Query: 291 RVITIEKRQYGSYICRAANKLGTS 314
+ E ++ SY C A +K TS
Sbjct: 185 TLTKDEYERHNSYTCEATHKTSTS 208
>pdb|1OSP|H Chain H, Crystal Structure Of Outer Surface Protein A Of Borrelia
Burgdorferi Complexed With A Murine Monoclonal Antibody
Fab
Length = 218
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 37/159 (23%), Positives = 55/159 (34%), Gaps = 29/159 (18%)
Query: 126 EVDLQVRRPPVISDNSTRSLVVS-EGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIY 184
EV LQ P ++ + T SL S G+P+ + P + E + GG Y
Sbjct: 1 EVQLQESGPSLVKPSQTLSLTCSVTGEPITSGFWDWIRKFPGN--KLEFMGYIRYGGGTY 58
Query: 185 RGSILKIP-----------------QITKEDRGTYYCV------AENGV---GKGTRRNI 218
LK P + ED TYYC +G G+GT +
Sbjct: 59 YNPSLKSPISITRDTSKNHYYLQLNSVVTEDTATYYCARSRDYYGSSGFAFWGEGTLVTV 118
Query: 219 AVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPPPAI 257
+ P + P G + L C V+ Y P ++
Sbjct: 119 SAAKTTPPSVYPLAPGCGDTTGSSVTLGCLVKGYFPESV 157
>pdb|1FLR|H Chain H, 4-4-20 Fab Fragment
Length = 219
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 29/70 (41%), Gaps = 4/70 (5%)
Query: 189 LKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L++ + ED G YYC + G+GT ++ AP + P G +
Sbjct: 83 LQMNNLRVEDMGIYYCTGSYYGMDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVT 142
Query: 245 LECHVEAYPP 254
L C V+ Y P
Sbjct: 143 LGCLVKGYFP 152
>pdb|2W9D|L Chain L, Structure Of Fab Fragment Of The Icsm 18 - Anti-Prp
Therapeutic Antibody At 1.57 A Resolution
Length = 212
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 53/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TY+C G GT+ I + AP +++ P Q
Sbjct: 72 LTISSMEAEDAATYFCHQWRSNPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|1MCO|L Chain L, Three-Dimensional Structure Of A Human Immunoglobulin With
A Hinge Deletion
Length = 216
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 62/138 (44%), Gaps = 10/138 (7%)
Query: 189 LKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L + + ED YYC + G G GT+ + + + P +T+ P + LQ +
Sbjct: 75 LTVSGLQAEDEADYYCSSYEGSDNFVFGTGTKVTVLGQPKANPTVTLFPPS-SEELQANK 133
Query: 244 DLE-CHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQY 300
E C + + P A+ V K D V + S + +++ ++ +T E+ + +
Sbjct: 134 ATEVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSK-QSNNKYAASSYLSLTPEQWKSH 192
Query: 301 GSYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 193 RSYSCQVTHEGSTVEKTV 210
>pdb|1N4X|H Chain H, Structure Of Scfv 1696 At Acidic Ph
pdb|1N4X|I Chain I, Structure Of Scfv 1696 At Acidic Ph
Length = 120
Score = 30.8 bits (68), Expect = 1.3, Method: Composition-based stats.
Identities = 26/90 (28%), Positives = 40/90 (44%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC-SVQYA-QDYPVIWMKVDRN---KVTEPLPISTGSSLIIRD--S 83
S ++K G TV++ C + YA DY + W+K K + T D
Sbjct: 7 SGPELKKPGETVKISCKATNYAFTDYSMHWVKQAPGGDLKYVGWINTETDEPTFADDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA DT++ST L + +++ D Y C
Sbjct: 67 RFAFSLDTSTSTAFLQINNLKNEDTATYFC 96
>pdb|1I9I|H Chain H, Native Crystal Structure Of The Recombinant Monoclonal
Wild Type Anti-Testosterone Fab Fragment
pdb|1I9J|H Chain H, Testosterone Complex Structure Of The Recombinant
Monoclonal Wild Type Anti-Testosterone Fab Fragment
Length = 220
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 36/144 (25%), Positives = 56/144 (38%), Gaps = 37/144 (25%)
Query: 146 VVSEGQPVQLECFAGGH--PTPRISWRRENN--------AILPTGGSIYRGSI------- 188
+V G ++L C A G T +SW R+ +I+ G + Y GS+
Sbjct: 11 LVKPGGSLKLSCAASGFTFSTYALSWVRQTADKRLEWVASIVSGGNTYYSGSVKGRFTIS 70
Query: 189 ---------LKIPQITKEDRGTYYCVAEN----GV---GKGTRRNIAVEVEFAPVITVPK 232
L++ + ED YYC E G+ G+GT ++ P +
Sbjct: 71 RDIARNILYLQMSSLRSEDTAMYYCAREYYGYVGLAYWGQGTLVTVSAAKTTPPSVYPLA 130
Query: 233 PRLGQALQYD--MDLECHVEAYPP 254
P G A Q + + L C V+ Y P
Sbjct: 131 P--GSAAQTNSMVTLGCLVKGYFP 152
>pdb|1U2H|A Chain A, X-Ray Structure Of The N-Terminally Truncated Human Apep-1
Length = 99
Score = 30.8 bits (68), Expect = 1.3, Method: Composition-based stats.
Identities = 23/73 (31%), Positives = 29/73 (39%), Gaps = 11/73 (15%)
Query: 147 VSEGQPVQLECFAGGHPTPRISWRRENNAILP--------TGGSIYRGSILKIPQITKED 198
V EGQ V + G P P +SW R + P G + R L+I + D
Sbjct: 17 VREGQDVIMSIRVQGEPKPVVSWLRNRQPVRPDQRRFAEEAEGGLCR---LRILAAERGD 73
Query: 199 RGTYYCVAENGVG 211
G Y C A N G
Sbjct: 74 AGFYTCKAVNEYG 86
Score = 30.8 bits (68), Expect = 1.5, Method: Composition-based stats.
Identities = 18/74 (24%), Positives = 34/74 (45%), Gaps = 6/74 (8%)
Query: 242 DMDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
D+ + V+ P P + W++ +Q + +Q FA E +R++ E+ G
Sbjct: 22 DVIMSIRVQGEPKPVVSWLR--NRQPVRPDQR----RFAEEAEGGLCRLRILAAERGDAG 75
Query: 302 SYICRAANKLGTSE 315
Y C+A N+ G +
Sbjct: 76 FYTCKAVNEYGARQ 89
>pdb|1P53|A Chain A, The Crystal Structure Of Icam-1 D3-D5 Fragment
pdb|1P53|B Chain B, The Crystal Structure Of Icam-1 D3-D5 Fragment
Length = 266
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 9/59 (15%)
Query: 157 CFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVGKGTR 215
C A G+P P + ++ LP G S+ +T++ GTY C A + G+ TR
Sbjct: 208 CQAWGNPLPELKCLKDGTFPLPIGESVT---------VTRDLEGTYLCRARSTQGEVTR 257
>pdb|1OB1|B Chain B, Crystal Structure Of A Fab Complex Whith Plasmodium
Falciparum Msp1-19
pdb|1OB1|E Chain E, Crystal Structure Of A Fab Complex Whith Plasmodium
Falciparum Msp1-19
Length = 219
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/76 (26%), Positives = 32/76 (42%), Gaps = 8/76 (10%)
Query: 187 SILKIPQITKEDRGTYYCV-----AENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
+ L+I + ED TY+C + G+ G+GT ++ AP + P G
Sbjct: 79 AFLQIINLKNEDTATYFCARNYYRFDGGMDFWGQGTSVTVSSAKTTAPSVYPLAPVCGDT 138
Query: 239 LQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 139 TGSSVTLGCLVKGYFP 154
>pdb|3C2A|L Chain L, Antibody Fab Fragment 447-52d In Complex With Ug1033
Peptide
pdb|3C2A|M Chain M, Antibody Fab Fragment 447-52d In Complex With Ug1033
Peptide
pdb|3GHB|L Chain L, Crystal Structure Of Anti-Hiv-1 Fab 447-52d In Complex
With V3 Peptide W2rw020
pdb|3GHB|M Chain M, Crystal Structure Of Anti-Hiv-1 Fab 447-52d In Complex
With V3 Peptide W2rw020
Length = 216
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 30/140 (21%), Positives = 59/140 (42%), Gaps = 8/140 (5%)
Query: 187 SILKIPQITKEDRGTYYCVA-ENGV------GKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
+ L I + D Y+C ++G+ G GT+ + + + AP +T+ P +
Sbjct: 72 ATLGITGLQTGDEADYFCATWDSGLSADWVFGGGTKLTVLSQPKAAPSVTLFPPSSEELQ 131
Query: 240 QYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKR 298
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 132 ANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWK 191
Query: 299 QYGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 192 SHRSYSCQVTHEGSTVEKTV 211
>pdb|2OZ4|A Chain A, Structural Plasticity In Igsf Domain 4 Of Icam-1 Mediates
Cell Surface Dimerization
Length = 265
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/59 (30%), Positives = 28/59 (47%), Gaps = 9/59 (15%)
Query: 157 CFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVGKGTR 215
C A G+P P + ++ LP G S+ +T++ GTY C A + G+ TR
Sbjct: 207 CQAWGNPLPELKCLKDGTFPLPIGESVT---------VTRDLEGTYLCRARSTQGEVTR 256
>pdb|4BJL|A Chain A, Locw, A Lambda 1 Type Light-Chain Dimer (Bence-Jones
Protein) Crystallized In Distilled Water
pdb|4BJL|B Chain B, Locw, A Lambda 1 Type Light-Chain Dimer (Bence-Jones
Protein) Crystallized In Distilled Water
pdb|3BJL|A Chain A, Loc, A Lambda 1 Type Light-Chain Dimer (Bence-Jones
Protein) Crystallized In Ammonium Sulfate
pdb|3BJL|B Chain B, Loc, A Lambda 1 Type Light-Chain Dimer (Bence-Jones
Protein) Crystallized In Ammonium Sulfate
pdb|1BJM|A Chain A, Loc Naks, A Lambda 1 Type Light-Chain Dimer (Bence-Jones
Protein) Crystallized In Nakso4
pdb|1BJM|B Chain B, Loc Naks, A Lambda 1 Type Light-Chain Dimer (Bence-Jones
Protein) Crystallized In Nakso4
Length = 216
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 31/137 (22%), Positives = 54/137 (39%), Gaps = 7/137 (5%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED YYC A + G GT+ + + + P +T+ P +
Sbjct: 74 LAISGLQPEDETDYYCAAWDDSLDVAVFGTGTKVTVLGQPKANPTVTLFPPSSEELQANK 133
Query: 243 MDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYG 301
L C + + P A+ V K D V + S + + + + + + +
Sbjct: 134 ATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|1Q1J|L Chain L, Crystal Structure Analysis Of Anti-Hiv-1 Fab 447-52d In
Complex With V3 Peptide
pdb|1Q1J|M Chain M, Crystal Structure Analysis Of Anti-Hiv-1 Fab 447-52d In
Complex With V3 Peptide
Length = 215
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 30/140 (21%), Positives = 59/140 (42%), Gaps = 8/140 (5%)
Query: 187 SILKIPQITKEDRGTYYCVA-ENGV------GKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
+ L I + D Y+C ++G+ G GT+ + + + AP +T+ P +
Sbjct: 72 ATLGITGLQTGDEADYFCATWDSGLSADWVFGGGTKLTVLSQPKAAPSVTLFPPSSEELQ 131
Query: 240 QYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKR 298
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 132 ANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWK 191
Query: 299 QYGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 192 SHRSYSCQVTHEGSTVEKTV 211
>pdb|1MEX|L Chain L, Antibody Catalysis Of A Bimolecular Cycloaddition Reaction
Length = 213
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 42/218 (19%), Positives = 73/218 (33%), Gaps = 55/218 (25%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S + + S G V + C A + ++W ++ P
Sbjct: 2 IVMTQSQKFMSTSLGNRVSVTCKASQNVGTNVAWFQQKPGQSPKTLIYSASYRYSGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
TG L I + ED Y+C N G GT+ I + AP +++ P
Sbjct: 62 FTGSGSGTDFTLTINNVQSEDLAEYFCQQYNSYPYTFGGGTKLEIK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 121 SSEQLTGGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 175
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 176 S----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3TJH|D Chain D, 42f3-P3a1H2-Ld Complex
Length = 254
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 31/134 (23%), Positives = 51/134 (38%), Gaps = 14/134 (10%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLI----IRDSRFAIRYDTASS 94
GG V L C + +Y + W + D + S G+ + + D A R T
Sbjct: 19 GGNVTLSCRQTNSHNY-MYWYRQDTGHGLRLIHYSYGAGNLQIGDVPDGYKATR--TTQE 75
Query: 95 TYTLLVKDIQETDAGYYRC-------QVIIGINNKISAEVDLQVRRPPVISDNSTRSLVV 147
+ LL++ + Y C Q+ G +K++ DL+ PP ++ +
Sbjct: 76 DFFLLLELASPSQTSLYFCASSDAPGQLYFGEGSKLTVLEDLKNVFPPEVAVFEPSEAEI 135
Query: 148 SEGQPVQLECFAGG 161
S Q L C A G
Sbjct: 136 SHTQKATLVCLATG 149
>pdb|3V6O|E Chain E, Leptin Receptor-Antibody Complex
pdb|3V6O|F Chain F, Leptin Receptor-Antibody Complex
pdb|3VG0|L Chain L, Antibody Fab Fragment
Length = 215
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 53/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED Y+C+ G GT+ I + AP +++ P Q
Sbjct: 74 LTINNVKSEDLADYFCLQHWNYPLTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 132
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 133 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 177
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|3MLW|L Chain L, Crystal Structure Of Anti-Hiv-1 V3 Fab 1006-15d In Complex
With An Mn V3 Peptide
pdb|3MLW|M Chain M, Crystal Structure Of Anti-Hiv-1 V3 Fab 1006-15d In Complex
With An Mn V3 Peptide
Length = 215
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 30/139 (21%), Positives = 54/139 (38%), Gaps = 9/139 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENG--------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L I + ED YYC + + G GT+ + + + P +T+ P +
Sbjct: 74 LAISGLRSEDEADYYCASWDDSRGGPDYVFGTGTKVTVLGQPKANPTVTLFPPSSEELQA 133
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C + + P A+ V K D V + S + + + + + +
Sbjct: 134 NKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKS 193
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 194 HRSYSCQVTHEGSTVEKTV 212
>pdb|1SEQ|L Chain L, Fab Mnac13
Length = 213
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 32/144 (22%), Positives = 57/144 (39%), Gaps = 18/144 (12%)
Query: 181 GSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLG 236
G+ Y L I + D YYC + G GT+ I + AP +++ P
Sbjct: 67 GTFYS---LTISSVEASDAADYYCHQWSSYPWTFGGGTKLEIK-RADAAPTVSIFPPSSE 122
Query: 237 QALQYDMDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRV---I 293
Q + C + + P +I ++ + + + + T + D+T + +
Sbjct: 123 QLTSGGASVVCFLNNFYPKSI----NSKWKIDGSERQNGVLNSWTDQDSKDSTYSMSSTL 178
Query: 294 TIEKRQY---GSYICRAANKLGTS 314
T+ K +Y SY C A +K TS
Sbjct: 179 TLTKNEYERHNSYTCEATHKTSTS 202
>pdb|3IXX|H Chain H, The Pseudo-Atomic Structure Of West Nile Immature Virus In
Complex With Fab Fragments Of The Anti-Fusion Loop
Antibody E53
pdb|3IXX|J Chain J, The Pseudo-Atomic Structure Of West Nile Immature Virus In
Complex With Fab Fragments Of The Anti-Fusion Loop
Antibody E53
pdb|3IXY|H Chain H, The Pseudo-Atomic Structure Of Dengue Immature Virus In
Complex With Fab Fragments Of The Anti-Fusion Loop
Antibody E53
pdb|3IXY|J Chain J, The Pseudo-Atomic Structure Of Dengue Immature Virus In
Complex With Fab Fragments Of The Anti-Fusion Loop
Antibody E53
Length = 215
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 32/149 (21%), Positives = 54/149 (36%), Gaps = 39/149 (26%)
Query: 189 LKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L I + ED TYYC + G GT+ + + AP +++ P Q
Sbjct: 72 LTISSMEAEDVATYYCQQWSSHPHPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGG 130
Query: 243 MDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEF 285
+ C + + P I W +D++ + YS+S
Sbjct: 131 ASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS-------- 177
Query: 286 TDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 --STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|2DTG|D Chain D, Insulin Receptor (Ir) Ectodomain In Complex With Fab's
pdb|3LOH|D Chain D, Structure Of The Insulin Receptor Ectodomain, Including Ct
P
pdb|3W14|D Chain D, Insulin Receptor Ectodomain Construct Comprising Domains
L1,cr,l2, Fniii-1 And Alphact Peptide In Complex With
Bovine Insulin And Fab 83-14
pdb|3W14|Q Chain Q, Insulin Receptor Ectodomain Construct Comprising Domains
L1,cr,l2, Fniii-1 And Alphact Peptide In Complex With
Bovine Insulin And Fab 83-14
Length = 214
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED YYC+ + G GT+ I + AP +++ P Q
Sbjct: 73 LTISSLKSEDFVDYYCLQYSSSPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1IAI|L Chain L, Idiotype-Anti-Idiotype Fab Complex
Length = 214
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 41/218 (18%), Positives = 71/218 (32%), Gaps = 55/218 (25%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S + + S G V + C A + ++W ++ P
Sbjct: 2 IVMTQSHKFMSTSVGDRVSITCKASQDVSTAVAWYQQKPGQSPKLLIYSASYQYTGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
TG I + ED YYC G GT+ I + AP +++ P
Sbjct: 62 FTGSGSRTDFTFTINSVQAEDLAVYYCHQHYSTPFTFGSGTKLEIK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 175
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 176 S----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|4DKD|C Chain C, Crystal Structure Of Human Interleukin-34 Bound To Human
Csf-1r
Length = 292
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 41/163 (25%), Positives = 69/163 (42%), Gaps = 21/163 (12%)
Query: 66 VTEPLPISTGSSLIIRDSRFAIRYDTASST----YTLL-VKDIQETDAGYYRCQVIIGIN 120
+T+P+ + G SL+ R +R+ S + +T+ K IQ D Y+C ++G
Sbjct: 113 LTDPV-LEAGVSLVRVRGRPLMRHTNYSFSPWHGFTIHRAKFIQSQD---YQCSALMGGR 168
Query: 121 NKISAEVDLQVRR----PPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAI 176
+S + L+V++ PP ++ LV G+ Q+ C A + + NN
Sbjct: 169 KVMSISIRLKVQKVIPGPPALTLVPAE-LVRIRGEAAQIVCSASSVDVNFDVFLQHNNTK 227
Query: 177 L--PTGGSIYRGS-----ILKIPQITKEDRGTYYCVAENGVGK 212
L P + L + Q+ + G Y CVA N GK
Sbjct: 228 LAIPQQSDFHNNRYQKVLTLNLDQVDFQHAGNYSCVASNVQGK 270
>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 = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 31/141 (21%), Positives = 51/141 (36%), Gaps = 36/141 (25%)
Query: 150 GQPVQLECFAGGHP--TPRISWRREN-NAILPTGGSIYRG-------------------- 186
G V++ C A G+ T R+ W ++ L G+IY G
Sbjct: 15 GASVKMSCKASGYTFTTYRMHWIKQRPGQGLEWIGAIYPGNSDTTYNQKFKDKAKLTAVT 74
Query: 187 ----SILKIPQITKEDRGTYYCVAE---------NGVGKGTRRNIAVEVEFAPVITVPKP 233
+ +++ +T ED Y+C E + G+GT ++ AP + P
Sbjct: 75 STSSAYMELSSLTNEDSAVYFCTREGIPQLLRTLDYWGQGTSVTVSSAKTTAPSVYPLAP 134
Query: 234 RLGQALQYDMDLECHVEAYPP 254
G + L C V+ Y P
Sbjct: 135 VCGDTTGSSVTLGCLVKGYFP 155
>pdb|3W14|C Chain C, Insulin Receptor Ectodomain Construct Comprising Domains
L1,cr,l2, Fniii-1 And Alphact Peptide In Complex With
Bovine Insulin And Fab 83-14
pdb|3W14|P Chain P, Insulin Receptor Ectodomain Construct Comprising Domains
L1,cr,l2, Fniii-1 And Alphact Peptide In Complex With
Bovine Insulin And Fab 83-14
Length = 207
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 28/69 (40%), Gaps = 1/69 (1%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV-GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
+ + + +T E Y+C E G+GT ++ AP + P G + L
Sbjct: 79 AYMHLSSLTSEKSAVYFCAREWAYWGQGTLVTVSAAKTTAPSVYPLAPGCGDTTGSSVTL 138
Query: 246 ECHVEAYPP 254
C V+ Y P
Sbjct: 139 GCLVKGYFP 147
>pdb|3TFK|D Chain D, 42f3-P4b10H2-Ld
pdb|3TPU|B Chain B, 42f3 P5e8H2-Ld Complex
pdb|3TPU|D Chain D, 42f3 P5e8H2-Ld Complex
pdb|3TPU|H Chain H, 42f3 P5e8H2-Ld Complex
pdb|3TPU|N Chain N, 42f3 P5e8H2-Ld Complex
Length = 243
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 31/134 (23%), Positives = 51/134 (38%), Gaps = 14/134 (10%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLI----IRDSRFAIRYDTASS 94
GG V L C + +Y + W + D + S G+ + + D A R T
Sbjct: 18 GGNVTLSCRQTNSHNY-MYWYRQDTGHGLRLIHYSYGAGNLQIGDVPDGYKATR--TTQE 74
Query: 95 TYTLLVKDIQETDAGYYRC-------QVIIGINNKISAEVDLQVRRPPVISDNSTRSLVV 147
+ LL++ + Y C Q+ G +K++ DL+ PP ++ +
Sbjct: 75 DFFLLLELASPSQTSLYFCASSDAPGQLYFGEGSKLTVLEDLKNVFPPEVAVFEPSEAEI 134
Query: 148 SEGQPVQLECFAGG 161
S Q L C A G
Sbjct: 135 SHTQKATLVCLATG 148
>pdb|1RMF|H Chain H, Structures Of A Monoclonal Anti-Icam-1 Antibody R6.5
Fragment At 2.8 Angstroms Resolution
Length = 216
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 30/73 (41%), Gaps = 7/73 (9%)
Query: 189 LKIPQITKEDRGTYYCVAENGV-------GKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L++ ++T ED YYC + G+GT ++ AP +T P G
Sbjct: 81 LELARLTSEDSAIYYCARGGWLLLSFDYWGQGTTLTVSSAKTTAPSVTPLAPVCGDTTGS 140
Query: 242 DMDLECHVEAYPP 254
+ L V+ Y P
Sbjct: 141 SVTLGVLVKGYFP 153
>pdb|1JP5|A Chain A, Crystal Structure Of The Single-Chain Fv Fragment 1696 In
Complex With The Epitope Peptide Corresponding To N-
Terminus Of Hiv-1 Protease
pdb|1JP5|B Chain B, Crystal Structure Of The Single-Chain Fv Fragment 1696 In
Complex With The Epitope Peptide Corresponding To N-
Terminus Of Hiv-1 Protease
pdb|1SVZ|A Chain A, Crystal Structure Of The Single-Chain Fv Fragment 1696 In
Complex With The Epitope Peptide Corresponding To N-
Terminus Of Hiv-2 Protease
pdb|1SVZ|B Chain B, Crystal Structure Of The Single-Chain Fv Fragment 1696 In
Complex With The Epitope Peptide Corresponding To N-
Terminus Of Hiv-2 Protease
Length = 247
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 40/90 (44%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC-SVQYA-QDYPVIWMKVDRN---KVTEPLPISTGSSLIIRD--S 83
S ++K G TV++ C + YA DY + W+K K + T D
Sbjct: 134 SGPELKKPGETVKISCKATNYAFTDYSMHWVKQAPGGDLKYVGWINTETDEPTFADDFKG 193
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA DT++ST L + +++ D Y C
Sbjct: 194 RFAFSLDTSTSTAFLQINNLKNEDTATYFC 223
>pdb|1IAI|H Chain H, Idiotype-Anti-Idiotype Fab Complex
Length = 219
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 27/114 (23%), Positives = 43/114 (37%), Gaps = 23/114 (20%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCV---- 205
G+P + F G R ++ E +A + L+I + ED TY+C
Sbjct: 56 GEPTYADDFKG-----RFAFSLETSA---------STAYLQINNLKNEDTATYFCARDGY 101
Query: 206 -----AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEAYPP 254
A + G+GT ++ AP + P G + L C V+ Y P
Sbjct: 102 YENYYAMDYWGQGTSVTVSSAKTTAPSVYPLAPVCGDTTGSSVTLGCLVKGYFP 155
>pdb|4ALA|L Chain L, Structure Of Dengue Virus Diii In Complex With Fab 2h12
pdb|4AM0|B Chain B, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
pdb|4AM0|D Chain D, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
pdb|4AM0|F Chain F, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
pdb|4AM0|L Chain L, Structure Of Dengue Virus Strain 4 Diii In Complex With
Fab 2h12
Length = 212
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 41/218 (18%), Positives = 73/218 (33%), Gaps = 55/218 (25%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S + + S G V + C A + ++W ++ P
Sbjct: 2 IVMTQSQKFMSTSVGDRVSITCKASQNVRTSVAWYQQKPGQSPKALIYLASNRHTGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKP 233
TG L I + ED Y+C+ G GT+ I + AP +++ P
Sbjct: 62 FTGSGSGTDFTLTISNVQSEDLADYFCLQHWTYPYTFGGGTKLEIK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 175
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 176 S----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3QIU|C Chain C, Crystal Structure Of The 226 Tcr In Complex With MccI-Ek
pdb|3QIW|C Chain C, Crystal Structure Of The 226 Tcr In Complex With
Mcc-P5eI-Ek
Length = 205
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 20/42 (47%)
Query: 171 RENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVGK 212
+EN + S R S L I ED GTY+C AE G+
Sbjct: 56 KENGRLKSAFDSKERYSTLHIRDAQLEDSGTYFCAAEPSSGQ 97
>pdb|3HG1|D Chain D, Germline-Governed Recognition Of A Cancer Epitope By An
Immunodominant Human T Cell Receptor
Length = 194
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 23/94 (24%), Positives = 37/94 (39%), Gaps = 1/94 (1%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G L C+ W + K E L + S+ D RF + + AS +L
Sbjct: 15 GAIASLNCTYSDRGSQSFFWYRQYSGKSPE-LIMFIYSNGDKEDGRFTAQLNKASQYVSL 73
Query: 99 LVKDIQETDAGYYRCQVIIGINNKISAEVDLQVR 132
L++D Q +D+ Y C V + + L V+
Sbjct: 74 LIRDSQPSDSATYLCAVNVAGKSTFGDGTTLTVK 107
>pdb|3QS9|E Chain E, Crystal Structure Of A Human Flt3 Ligand-Receptor Ternary
Complex
pdb|3QS9|F Chain F, Crystal Structure Of A Human Flt3 Ligand-Receptor Ternary
Complex
pdb|3QS9|G Chain G, Crystal Structure Of A Human Flt3 Ligand-Receptor Ternary
Complex
pdb|3QS9|H Chain H, Crystal Structure Of A Human Flt3 Ligand-Receptor Ternary
Complex
Length = 527
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 9/43 (20%)
Query: 129 LQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRR 171
L +RR P V++E Q CF+ G+P P +W++
Sbjct: 410 LNIRRKP---------QVLAEASASQASCFSDGYPLPSWTWKK 443
>pdb|4AL8|L Chain L, Structure Of Dengue Virus Diii In Complex With Fab 2h12
Length = 213
Score = 30.4 bits (67), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 41/218 (18%), Positives = 73/218 (33%), Gaps = 55/218 (25%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S + + S G V + C A + ++W ++ P
Sbjct: 2 IVMTQSQKFMSTSVGDRVSITCKASQNVRTSVAWYQQKPGQSPKALIYLASNRHTGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKP 233
TG L I + ED Y+C+ G GT+ I + AP +++ P
Sbjct: 62 FTGSGSGTDFTLTISNVQSEDLADYFCLQHWTYPYTFGGGTKLEIK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 175
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 176 S----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1DSF|H Chain H, The Crystal Structure Of The Disulfide-Stabilized Fv
Fragment Of Anticancer Antibody B1: Conformational
Influence Of An Engineered Disulfide Bond
Length = 119
Score = 30.4 bits (67), Expect = 1.7, Method: Composition-based stats.
Identities = 24/83 (28%), Positives = 40/83 (48%), Gaps = 9/83 (10%)
Query: 39 GGTVELKCSVQ---YAQDYPVIWMKVDRNKVTEPLP-ISTGSSLI-IRDS---RFAIRYD 90
GG+++L C+ ++ +Y + W++ K E + IS G + I DS RF I D
Sbjct: 13 GGSLKLSCAASGFIFSDNY-MYWVRQTPEKCLEWVATISDGGTYIDYSDSVKGRFTISRD 71
Query: 91 TASSTYTLLVKDIQETDAGYYRC 113
A + L + ++ D G Y C
Sbjct: 72 NAKNNLYLQMSSLRSEDTGMYYC 94
>pdb|3JZ7|A Chain A, Crystal Structure Of The Extracellular Domains Of
Coxsackie & Adenovirus Receptor From Mouse (Mcar)
Length = 214
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 57/130 (43%), Gaps = 15/130 (11%)
Query: 90 DTASSTYTLLVKDIQETDAGYYRCQV--IIGINNKISAEVDLQVRRPPVISDNSTRSLVV 147
D S ++ V ++Q +D G Y+C+V G+ NK + L V P + TR V
Sbjct: 78 DVKSGDASINVTNLQLSDIGTYQCKVKKAPGVANK---KFLLTVLVKP----SGTRCFVD 130
Query: 148 SE---GQPVQLECFAGGHPTP-RISWRR-ENNAILPTGGSIYRGS-ILKIPQITKEDRGT 201
G +L+C P + W++ ++ +PT S ++ + + E GT
Sbjct: 131 GSEEIGNDFKLKCEPKEGSLPLQFEWQKLSDSQTMPTPWLAEMTSPVISVKNASSEYSGT 190
Query: 202 YYCVAENGVG 211
Y C +N VG
Sbjct: 191 YSCTVQNRVG 200
>pdb|4I9W|D Chain D, Human Two Pore Domain K+ Channel Traak (k2p4.1) - Fab
Complex Structure
pdb|4I9W|F Chain F, Human Two Pore Domain K+ Channel Traak (k2p4.1) - Fab
Complex Structure
Length = 211
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 53/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G G + + + AP +++ P Q
Sbjct: 72 LTISSMEAEDAATYYCQQWSNSPPTFGAGAKLELK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|3U0T|C Chain C, Fab-Antibody Complex
pdb|3U0T|A Chain A, Fab-Antibody Complex
Length = 219
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 33/117 (28%), Positives = 49/117 (41%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC+ G+GTR I V AP + + P Q
Sbjct: 78 LKISRVEAEDVGVYYCLQGTHYPVLFGQGTRLEIKRTVA-APSVFIFPPSDEQLKSGTAS 136
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VVCLLNNFYPREAKVQWKVDN-ALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>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 = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/89 (26%), Positives = 40/89 (44%), Gaps = 7/89 (7%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPL----PISTGSSLIIRD-SRFAIRYDT 91
GG++ L C+ +Y + WM+ K E + P + G+S R RF I D
Sbjct: 15 GGSLRLSCATSGYTFTEYTMHWMRQAPGKGLEWVAGINPKNGGTSHNQRFMDRFTISVDK 74
Query: 92 ASSTYTLLVKDIQETDAGYYRCQVIIGIN 120
++ST + + ++ D Y C G+N
Sbjct: 75 STSTAYMQMNSLRAEDTAVYYCARWRGLN 103
>pdb|1IBG|L Chain L, Structure And Specificity Of The Anti-Digoxin Antibody
40-50
Length = 217
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 53/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED TYYC G GT + + AP +++ P Q
Sbjct: 76 LNIHPVEEEDAATYYCQHSREYPLTFGAGTELELK-RADAAPTVSIFPPSSEQLTSGGAS 134
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 135 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 179
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 180 STLTLTKDEYERHNSYTCEATHKTSTS 206
>pdb|2PJX|A Chain A, Crystal Structure Of The Munc18cSYNTAXIN4 N-Peptide
Complex
pdb|2PJX|B Chain B, Crystal Structure Of The Munc18cSYNTAXIN4 N-Peptide
Complex
pdb|3PUK|A Chain A, Re-Refinement Of The Crystal Structure Of Munc18-3 And
Syntaxin4 N- Peptide Complex
pdb|3PUK|B Chain B, Re-Refinement Of The Crystal Structure Of Munc18-3 And
Syntaxin4 N- Peptide Complex
Length = 592
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 30/56 (53%), Gaps = 2/56 (3%)
Query: 190 KIPQITKEDRGTYYCVAENGVGKGTRRN--IAVEVEFAPVITVPKPRLGQALQYDM 243
K+ Q+ ++ YY + E G+ KG ++ + ++ F PV TV QA+ YD+
Sbjct: 206 KLAQLVEKKLEDYYKIDEKGLIKGKTQSQLLIIDRGFDPVSTVLHELTFQAMAYDL 261
>pdb|3O2V|H Chain H, Crystal Structure Of 1e9 Phel89serLEUH47TRPMETH100BPHE, AN
Engineered Diels-Alderase Fab With Modified Specificity
And Catalytic Activity
pdb|3O2W|H Chain H, Crystal Structure Of The 1e9 Phel89serLEUH47TRPMETH100BPHE
FAB IN Complex With A 39a11 Transition State Analog
Length = 227
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLPI---STGSSLIIRD--S 83
S ++K G TV++ C S +Y + W+K K + + TG S D
Sbjct: 7 SGPELKKPGETVKISCKASGYMFTNYGMNWVKQAPGKALKWMGWINPYTGESTFADDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA +T+++T L + +++ D Y C
Sbjct: 67 RFAFFLETSATTAYLQINNLKNEDTATYFC 96
>pdb|2O5X|H Chain H, Crystal Structure Of 1e9 Leuh47trpARGH100TRP, AN
ENGINEERED DIELS- Alderase Fab With Nm Steroid-Binding
Affinity
pdb|2O5Y|H Chain H, Crystal Structure Of The 1e9 Leuh47trpARGH100TRP FAB
PROGESTERONE Complex
pdb|2O5Z|H Chain H, Crystal Structure Of The 1e9 Leuh47trpARGH100TRP FAB
5-Beta- Androstane-3,17-Dione Complex
Length = 227
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLPI---STGSSLIIRD--S 83
S ++K G TV++ C S +Y + W+K K + + TG S D
Sbjct: 7 SGPELKKPGETVKISCKASGYMFTNYGMNWVKQAPGKALKWMGWINPYTGESTFADDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA +T+++T L + +++ D Y C
Sbjct: 67 RFAFFLETSATTAYLQINNLKNEDTATYFC 96
>pdb|1CLY|L Chain L, Igg Fab (Human Igg1, Kappa) Chimeric Fragment (Cbr96)
Complexed With Lewis Y Nonoate Methyl Ester
pdb|1UCB|L Chain L, Structure Of Uncomplexed Fab Compared To Complex (1cly,
1clz)
Length = 219
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 33/117 (28%), Positives = 49/117 (41%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I V AP + + P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPFTFGSGTKLEIKRTVA-APSVFIFPPSDEQLKSGTAS 136
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|12E8|L Chain L, 2e8 Fab Fragment
pdb|12E8|M Chain M, 2e8 Fab Fragment
Length = 214
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 41/209 (19%), Positives = 76/209 (36%), Gaps = 37/209 (17%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S + + S G V + C A + ++W ++ P
Sbjct: 2 IVMTQSQKFMSTSVGDRVSITCKASQNVGTAVAWYQQKPGQSPKLMIYSASNRYTGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
TG L I + ED Y+C + G GT+ + + AP +++ P
Sbjct: 62 FTGSGSGTDFTLTISNMQSEDLADYFCQQYSSYPLTFGAGTKLELK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI--VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIR 291
Q + C + + P I W ++ + + + + AT + D+T
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKW------KIDGSERQNGVLNSATDQDSKDSTYS 174
Query: 292 V---ITIEKRQY---GSYICRAANKLGTS 314
+ +T+ K +Y SY C A +K TS
Sbjct: 175 MSSTLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1FBI|L Chain L, Crystal Structure Of A Cross-Reaction Complex Between Fab
F9.13.7 And Guinea-Fowl Lysozyme
pdb|1FBI|P Chain P, Crystal Structure Of A Cross-Reaction Complex Between Fab
F9.13.7 And Guinea-Fowl Lysozyme
Length = 214
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 47/215 (21%), Positives = 80/215 (37%), Gaps = 59/215 (27%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V + C A + ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTISCRASQDISNYLNWYQKKPDGTVKLLIYYTSRLHSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLG 236
L I + +ED TY+C + G G GT+ I + AP +++ P
Sbjct: 67 SGTDYSLTIRNLEQEDIATYFC--QQGYTLPYTFGGGTKLEIK-RADAAPTVSIFPPSSE 123
Query: 237 QALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHF 279
Q + C + + P I W +D++ + YS+S
Sbjct: 124 QLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS-- 176
Query: 280 ATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 --------STLTLTKDEYERHNSYTCEATHKTSTS 203
>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 = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 189 LKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L++ + ED G YYC + + G+GT ++ AP + P G +
Sbjct: 83 LQMNSLRTEDTGIYYCKIYFYSFSYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSSVT 142
Query: 245 LECHVEAYPP 254
L C V+ Y P
Sbjct: 143 LGCLVKGYFP 152
>pdb|1E4W|L Chain L, Crossreactive Binding Of A Circularized Peptide To An
Anti- Tgfalpha Antibody Fab-Fragment
pdb|1E4X|L Chain L, Crossreactive Binding Of A Circularized Peptide To An
Anti-Tgfalpha Antibody Fab-Fragment
pdb|1E4X|M Chain M, Crossreactive Binding Of A Circularized Peptide To An
Anti-Tgfalpha Antibody Fab-Fragment
Length = 214
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 47/226 (20%), Positives = 82/226 (36%), Gaps = 62/226 (27%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAI 176
D+Q+ + P SL S G V + C A + ++W ++ +
Sbjct: 1 DIQMTQTP-------SSLSASLGDRVTISCRASQDISHYLNWFQQKPDGTVKLLIYYTST 53
Query: 177 LPTG-GSIYRGS------ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFA 225
L +G S + GS L I + +ED Y+C + G GT+ I + A
Sbjct: 54 LHSGVPSRFSGSGSGTDYSLTISNLEEEDIAFYFCQQGGALPFTFGSGTKLAIK-RADAA 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVL 268
P +++ P Q + C + + P I W +D++
Sbjct: 113 PTVSIFPPSSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLDSWTDQDSK--- 169
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+ YS+S +T+ + E ++ SY C A +K TS
Sbjct: 170 --DSTYSMS----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3UBX|L Chain L, Crystal Structure Of The Mouse Cd1d-C20:2-Agalcer-L363 Mab
Fab Complex
pdb|3UBX|I Chain I, Crystal Structure Of The Mouse Cd1d-C20:2-Agalcer-L363 Mab
Fab Complex
Length = 214
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC + G GT+ + + AP +++ P Q
Sbjct: 73 LSITSLQTEDVATYYCQHYWSSPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3IVK|L Chain L, Crystal Structure Of The Catalytic Core Of An Rna
Polymerase Ribozyme Complexed With An Antigen Binding
Antibody Fragment
pdb|3IVK|B Chain B, Crystal Structure Of The Catalytic Core Of An Rna
Polymerase Ribozyme Complexed With An Antigen Binding
Antibody Fragment
Length = 213
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 46/196 (23%), Positives = 73/196 (37%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A + ++W ++ P + S
Sbjct: 2 DIQMTQSP-------SSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASS 54
Query: 183 IYRG-------------SILKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFA 225
+Y G L I + ED TYYC + G+GT+ I V A
Sbjct: 55 LYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQSYSFPSTFGQGTKVEIKRTVA-A 113
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 114 PSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS 172
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 173 -TYSLSSTLTLSKADY 187
>pdb|3SO3|C Chain C, Structures Of Fab-Protease Complexes Reveal A Highly
Specific Non- Canonical Mechanism Of Inhibition
Length = 228
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 40/163 (24%), Positives = 65/163 (39%), Gaps = 24/163 (14%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIRYDT 91
GG++ L C+ Y + W++ K E + +G S DS RF I D
Sbjct: 15 GGSLRLSCAASGFTFSSYAMSWVRQAPGKGLEWVSAISGSGGSTYYADSVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRCQVIIGINNK--ISAEVDLQVRRPPV-ISDNSTRSLVV- 147
+ +T L + ++ D Y C +GI + +S D+ + V +S ST+ V
Sbjct: 75 SKNTLYLQMSSLRAEDTAVYYCVKDLGIAARRFVSGAFDIWGQGTMVTVSSASTKGPSVF 134
Query: 148 --------SEGQPVQLECFAGGH-PTP-RISWRRENNAILPTG 180
+ G L C + P P +SW N+ L +G
Sbjct: 135 PLAPSSKSTSGGTAALGCLVKDYFPEPVTVSW---NSGALTSG 174
>pdb|1C1E|H Chain H, Crystal Structure Of A Diels-alderase Catalytic Antibody
1e9 In Complex With Its Hapten
Length = 219
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLPI---STGSSLIIRD--S 83
S ++K G TV++ C S +Y + W+K K + + TG S D
Sbjct: 7 SGPELKKPGETVKISCKASGYMFTNYGMNWVKQAPGKALKLMGWINPYTGESTFADDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA +T+++T L + +++ D Y C
Sbjct: 67 RFAFFLETSATTAYLQINNLKNEDMATYFC 96
>pdb|1CIC|B Chain B, Idiotope-Anti-Idiotope Fab-Fab Complex; D1.3-E225
Length = 217
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 17/73 (23%), Positives = 30/73 (41%), Gaps = 5/73 (6%)
Query: 187 SILKIPQITKEDRGTYYCVAE-----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
+ +++ +T ED YYC + G+GT ++ + P + P G
Sbjct: 79 AYMQLSGLTSEDSAVYYCARGLAFYFDHWGQGTTLTVSSALTTPPSVYPLAPGCGDTTGS 138
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 139 SVTLGCLVKGYFP 151
>pdb|3LOH|C Chain C, Structure Of The Insulin Receptor Ectodomain, Including Ct
P
Length = 220
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 28/69 (40%), Gaps = 1/69 (1%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV-GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
+ + + +T E Y+C E G+GT ++ AP + P G + L
Sbjct: 79 AYMHLSSLTSEKSAVYFCAREWAYWGQGTLVTVSAAKTTAPSVYPLAPGCGDTTGSSVTL 138
Query: 246 ECHVEAYPP 254
C V+ Y P
Sbjct: 139 GCLVKGYFP 147
>pdb|2W65|A Chain A, Anti Citrullinated Collagen Type 2 Antibody Acc4 In
Complex With A Citrullinated Peptide
pdb|2W65|C Chain C, Anti Citrullinated Collagen Type 2 Antibody Acc4 In
Complex With A Citrullinated Peptide
Length = 218
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 40/90 (44%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLP---ISTGSSLIIRD--S 83
S ++K G TV++ C S DY + W+K K + + TG D
Sbjct: 7 SGPELKKPGETVKISCKASGYTFTDYSIHWVKQAPGKGLKWMGWINTETGEPTYTDDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA ++++ST L + +++ D Y C
Sbjct: 67 RFAFSLESSASTAFLQINNLKNEDTATYFC 96
>pdb|3MJ7|B Chain B, Crystal Structure Of The Complex Of Jaml And Coxsackie And
Adenovirus Receptor, Car
Length = 225
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 33/130 (25%), Positives = 58/130 (44%), Gaps = 15/130 (11%)
Query: 90 DTASSTYTLLVKDIQETDAGYYRCQV--IIGINNKISAEVDLQVRRPPVISDNSTRSLVV 147
D S ++ V ++Q +D G Y+C+V G+ NK + L V ++ + TR V
Sbjct: 80 DVKSGDASINVTNLQLSDIGTYQCKVKKAPGVANK---KFLLTV----LVKPSGTRCFVD 132
Query: 148 SE---GQPVQLECFAGGHPTP-RISWRR-ENNAILPTGGSIYRGS-ILKIPQITKEDRGT 201
G +L+C P + W++ ++ +PT S ++ + + E GT
Sbjct: 133 GSEEIGNDFKLKCEPKEGSLPLQFEWQKLSDSQTMPTPWLAEMTSPVISVKNASSEYSGT 192
Query: 202 YYCVAENGVG 211
Y C +N VG
Sbjct: 193 YSCTVQNRVG 202
>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 = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 31/68 (45%), Gaps = 9/68 (13%)
Query: 146 VVSEGQPVQLECFAGGHPTPRISW---RRENNAIL-PTGGSI-----YRGSILKIPQITK 196
VV +G+ + L C G+ W R+E+ ++ P + + SIL IP
Sbjct: 192 VVRQGENITLMCIVIGNEVVNFEWTYPRKESGRLVEPVTDFLLDMPYHIRSILHIPSAEL 251
Query: 197 EDRGTYYC 204
ED GTY C
Sbjct: 252 EDSGTYTC 259
>pdb|1FL6|L Chain L, The Hapten Complexed Germline Precursor To Sulfide Oxidase
Catalytic Antibody 28b4
pdb|1FL6|A Chain A, The Hapten Complexed Germline Precursor To Sulfide Oxidase
Catalytic Antibody 28b4
pdb|1FL5|L Chain L, The Unliganded Germline Precursor To The Sulfide Oxidase
Catalytic Antibody 28b4.
pdb|1FL5|A Chain A, The Unliganded Germline Precursor To The Sulfide Oxidase
Catalytic Antibody 28b4
Length = 217
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 33/117 (28%), Positives = 49/117 (41%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G GT+ I V AP + + P Q
Sbjct: 78 LKISRVEAEDLGVYYCFQGSHVPRTFGGGTKLEIKRTVA-APSVFIFPPSDEQLKSGTAS 136
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|1NAK|H Chain H, Igg1 Fab Fragment (83.1) Complex With 16-Residue Peptide
(Residues 304-321 Of Hiv-1 Gp120 (Mn Isolate))
pdb|1NAK|I Chain I, Igg1 Fab Fragment (83.1) Complex With 16-Residue Peptide
(Residues 304-321 Of Hiv-1 Gp120 (Mn Isolate))
Length = 214
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 19/68 (27%), Positives = 28/68 (41%), Gaps = 2/68 (2%)
Query: 189 LKIPQITKEDRGTYYCVAENG--VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLE 246
LK+ +T ED TYYC ++ G GT ++ P + P + L
Sbjct: 80 LKLNSVTTEDTATYYCAIDDFDIWGAGTTVTVSSAKTTPPSVYPLAPGSAAQTNSMVTLG 139
Query: 247 CHVEAYPP 254
C V+ Y P
Sbjct: 140 CLVKGYFP 147
>pdb|3QUM|A Chain A, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
pdb|3QUM|C Chain C, Crystal Structure Of Human Prostate Specific Antigen (Psa)
In Fab Sandwich With A High Affinity And A Pca Selective
Antibody
Length = 218
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 51/217 (23%), Positives = 77/217 (35%), Gaps = 65/217 (29%)
Query: 144 SLVVSEGQPVQLECFAG------------------GHPTPRISWRRENNAILPTG----- 180
SL VS GQ + C A G P P+I R +N L +G
Sbjct: 10 SLAVSLGQRATISCRASESIDLYGFTFMHWYQQKPGQP-PKILIYRASN--LESGIPARF 66
Query: 181 -GSIYRGSI-LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPR 234
GS R L I + +D TYYC + G GT+ I + AP +++ P
Sbjct: 67 SGSGSRTDFTLTINPVEADDVATYYCQQTHEDPYTFGGGTKLEIK-RADAAPTVSIFPPS 125
Query: 235 LGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSIS 277
Q + C + + P I W +D++ + YS+S
Sbjct: 126 SEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS 180
Query: 278 HFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 ----------STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|2P4A|B Chain B, X-Ray Structure Of A Camelid Affinity Matured
Single-Domain Vhh Antibody Fragment In Complex With
Rnase A
pdb|2P4A|D Chain D, X-Ray Structure Of A Camelid Affinity Matured
Single-Domain Vhh Antibody Fragment In Complex With
Rnase A
Length = 121
Score = 30.0 bits (66), Expect = 2.0, Method: Composition-based stats.
Identities = 26/97 (26%), Positives = 38/97 (39%), Gaps = 27/97 (27%)
Query: 146 VVSEGQPVQLECFAGGHPTPRI--SW-------RRENNAILPTGG--SIYRGSI------ 188
+V G ++L C A G+P I W RE A + +GG ++Y S+
Sbjct: 11 LVQAGGSLRLSCAASGYPWTYIYMGWFRQAPGKEREGVAAMDSGGGGTLYADSVKGRFTI 70
Query: 189 ----------LKIPQITKEDRGTYYCVAENGVGKGTR 215
L++ + ED TYYC A TR
Sbjct: 71 SRDKGKNTVYLQMDSLKPEDTATYYCAAGGDALVATR 107
>pdb|1GAF|H Chain H, 48g7 Hybridoma Line Fab Complexed With Hapten 5-(Para-
Nitrophenyl Phosphonate)-Pentanoic Acid
pdb|1HKL|H Chain H, Free And Liganded Form Of An Esterolytic Catalytic
Antibody
Length = 217
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 30/72 (41%), Gaps = 2/72 (2%)
Query: 185 RGSILKIPQITKEDRGTYYCVAENGV--GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
+ + L++ +T ED YYC + G+ G+GT ++ P + P
Sbjct: 77 KTTYLQLSSLTSEDTAVYYCASYYGIYWGQGTTLTVSSASTKGPSVFPLAPSSKSTSGGT 136
Query: 243 MDLECHVEAYPP 254
L C V+ Y P
Sbjct: 137 AALGCLVKDYFP 148
>pdb|1C5D|L Chain L, The Crystal Structure Of The Fab Fragment Of A Rat
Monoclonal Antibody Against The Main Immunogenic Region
Of The Human Muscle Acetylcholine Receptor
pdb|1C5D|A Chain A, The Crystal Structure Of The Fab Fragment Of A Rat
Monoclonal Antibody Against The Main Immunogenic Region
Of The Human Muscle Acetylcholine Receptor
Length = 213
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 30/146 (20%), Positives = 52/146 (35%), Gaps = 24/146 (16%)
Query: 144 SLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP------------------TGGSIYR 185
SL S G V + C A I+W ++ P +G R
Sbjct: 10 SLSASLGDKVTITCQASQDINKYIAWYQQKPGKAPRQLIRYTSILVLGTPSRFSGSGSGR 69
Query: 186 GSILKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
I + ED +YYC+ + G GT+ I + AP +++ P Q
Sbjct: 70 DFSFSISNVASEDIASYYCLQYGNLYTFGAGTKLEIK-RADAAPTVSIFPPSTEQLATGG 128
Query: 243 MDLECHVEAYPPP--AIVWIKEDTQQ 266
+ C + + P ++ W + T++
Sbjct: 129 ASVVCLMNNFYPRDISVKWKIDGTER 154
>pdb|4DCQ|A Chain A, Crystal Structure Of The Fab Fragment Of 3b5h10, An
Antibody-Specific For Extended Polyglutamine Repeats
(Orthorhombic Form)
Length = 218
Score = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 32/143 (22%), Positives = 57/143 (39%), Gaps = 18/143 (12%)
Query: 189 LKIPQITKEDRGTYYCVAENGV--------GKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
L I I ED Y C + + G GT+ + + + P +TV P + +
Sbjct: 76 LLISNIQPEDEAIYICGVGDTIKEQFVYVFGGGTKVTVLGQPKSTPTLTVFPPSSEELKE 135
Query: 241 YDMDLECHVEAYPPPA--IVWIKED---TQQVLTNNQHYSISHFATADEFTDTTIRVITI 295
L C + + P + W TQ V T+N + F A F + + +
Sbjct: 136 NKATLVCLISNFSPSGVTVAWKANGTPITQGVDTSNPTKKGNKFM-ASSF----LHLTSD 190
Query: 296 EKRQYGSYICRAANKLGTSEKTV 318
+ R + S+ C+ ++ T EK++
Sbjct: 191 QWRSHQSFTCQVTHEGDTVEKSL 213
>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 = 30.0 bits (66), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 29/75 (38%), Gaps = 9/75 (12%)
Query: 189 LKIPQITKEDRGTYYCVAENGV---------GKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
L++ + ED TYYCV +NG G GT ++ P + P
Sbjct: 83 LQMNTLRTEDSATYYCVRDNGSDYRWYFDVWGAGTTVTVSSAKTTPPSVYPLAPGSAAGT 142
Query: 240 QYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 143 NSMVTLGCLVKGYFP 157
>pdb|2W60|A Chain A, Anti Citrullinated Collagen Type 2 Antibody Acc4
Length = 218
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 40/90 (44%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLP---ISTGSSLIIRD--S 83
S ++K G TV++ C S DY + W+K K + + TG D
Sbjct: 7 SGPELKKPGETVKISCKASGYTFTDYSIHWVKQAPGKGLKWMGWINTETGEPTYTDDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA ++++ST L + +++ D Y C
Sbjct: 67 RFAFSLESSASTAFLQINNLKNEDTATYFC 96
>pdb|2W9E|L Chain L, Structure Of Icsm 18 (Anti-Prp Therapeutic Antibody) Fab
Fragment Complexed With Human Prp Fragment 119-231
Length = 212
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 53/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TY+C G GT+ I + AP +++ P Q
Sbjct: 72 LTISSMEAEDAATYFCHQWRSNPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTGGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHKTSTS 202
>pdb|3HG1|E Chain E, Germline-Governed Recognition Of A Cancer Epitope By An
Immunodominant Human T Cell Receptor
Length = 244
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 31/144 (21%), Positives = 57/144 (39%), Gaps = 23/144 (15%)
Query: 35 IKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLI-------IRDSRFAI 87
++ +G + L+C+V+ + + W + + + L S G I + SR
Sbjct: 12 VQPVGSPLSLECTVEGTSNPNLYWYRQAAGRGLQLLFYSVGIGQISSEVPQNLSASRPQD 71
Query: 88 RYDTASSTYTLLVKDIQETDAGYYRC----------QVIIGINNKISAEVDLQVRRPPVI 137
R SS LL +D+G+Y C ++ G ++++ DL+ PP +
Sbjct: 72 RQFILSSKKLLL------SDSGFYLCAWSETGLGTGELFFGEGSRLTVLEDLKNVFPPEV 125
Query: 138 SDNSTRSLVVSEGQPVQLECFAGG 161
+ +S Q L C A G
Sbjct: 126 AVFEPSEAEISHTQKATLVCLATG 149
>pdb|1P2C|B Chain B, Crystal Structure Analysis Of An Anti-Lysozyme Antibody
pdb|1P2C|E Chain E, Crystal Structure Analysis Of An Anti-Lysozyme Antibody
Length = 218
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 31/136 (22%), Positives = 49/136 (36%), Gaps = 31/136 (22%)
Query: 150 GQPVQLECFAGGHP--TPRISWRREN--------NAILPTGGSIY-----RGSI------ 188
G V++ C A G+ T I W ++ ILP S Y +G +
Sbjct: 15 GASVKISCKATGYTFTTYWIEWIKQRPGHSLEWIGEILPGSDSTYYNEKVKGKVTFTADA 74
Query: 189 ------LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
+++ +T ED YYC +G G+GT ++ P + P
Sbjct: 75 SSNTAYMQLSSLTSEDSAVYYCARGDGFYVYWGQGTTLTVSSASTTPPSVYPLAPGSAAQ 134
Query: 239 LQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 135 TNSMVTLGCLVKGYFP 150
>pdb|1QKZ|H Chain H, Fab Fragment (Mn14c11.6) In Complex With A Peptide Antigen
Derived From Neisseria Meningitidis P1.7 Serosubtype
Antigen And Domain Ii From Streptococcal Protein G
Length = 219
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 30/73 (41%), Gaps = 7/73 (9%)
Query: 189 LKIPQITKEDRGTYYCVAE-------NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L++ + ED G YYC + + G+GT ++ AP + P G
Sbjct: 81 LQMNSLKSEDTGMYYCARDPLEYYGMDYWGQGTSVAVSSAKTTAPSVYPLAPVCGDTTGS 140
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 SVTLGCLVKGYFP 153
>pdb|2Q76|B Chain B, Mouse Anti-Hen Egg White Lysozyme Antibody F10.6.6 Fab
Fragment
pdb|2Q76|D Chain D, Mouse Anti-Hen Egg White Lysozyme Antibody F10.6.6 Fab
Fragment
Length = 216
Score = 30.0 bits (66), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 31/136 (22%), Positives = 49/136 (36%), Gaps = 31/136 (22%)
Query: 150 GQPVQLECFAGGHP--TPRISWRREN--------NAILPTGGSIY-----RGSI------ 188
G V++ C A G+ T I W ++ ILP S Y +G +
Sbjct: 15 GASVKISCKATGYTFTTYWIEWIKQRPGHSLEWIGEILPGSDSTYYNEKVKGKVTFTADA 74
Query: 189 ------LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
+++ +T ED YYC +G G+GT ++ P + P
Sbjct: 75 SSNTAYMQLSSLTSEDSAVYYCARGDGFYVYWGQGTTLTVSSASTTPPSVYPLAPGSAAQ 134
Query: 239 LQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 135 TNSMVTLGCLVKGYFP 150
>pdb|1Z9M|A Chain A, Crystal Structure Of Nectin-Like Molecule-1 Protein Domain
1
pdb|1Z9M|B Chain B, Crystal Structure Of Nectin-Like Molecule-1 Protein Domain
1
Length = 145
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 34/78 (43%), Gaps = 7/78 (8%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
GGTV LKC V+ +D + W N + L G +RD+R + T ++
Sbjct: 53 GGTVVLKCQVKDHEDSSLQW----SNPAQQTLYF--GEKRALRDNRIQLVTSTPHE-LSI 105
Query: 99 LVKDIQETDAGYYRCQVI 116
+ ++ D G Y C +
Sbjct: 106 SISNVALADEGEYTCSIF 123
>pdb|1OSP|L Chain L, Crystal Structure Of Outer Surface Protein A Of Borrelia
Burgdorferi Complexed With A Murine Monoclonal Antibody
Fab
Length = 214
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 45/204 (22%), Positives = 74/204 (36%), Gaps = 55/204 (26%)
Query: 150 GQPVQLECFAGGHPTPRISW--RRENNA--ILPTGG--------SIYRGS------ILKI 191
G V + C A R++W ++ NA +L +G S + GS L I
Sbjct: 16 GDRVTITCKASEDIYSRLAWYQQKPGNAPRLLISGATSLETWVPSRFSGSDSGKDYTLSI 75
Query: 192 PQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLEC 247
+ ED TY+C G GT+ I + AP +++ P Q + C
Sbjct: 76 TSLQTEDVATYFCQQYWSPPPTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGASVVC 134
Query: 248 HVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTDTTI 290
+ + P I W +D++ + YS+S +T+
Sbjct: 135 FLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS----------STL 179
Query: 291 RVITIEKRQYGSYICRAANKLGTS 314
+ E ++ SY C A +K TS
Sbjct: 180 TLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1PZ5|B Chain B, Structural Basis Of Peptide-Carbohydrate Mimicry In An
Antibody Combining Site
Length = 220
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 28/72 (38%), Gaps = 6/72 (8%)
Query: 189 LKIPQITKEDRGTYYCVAENGV------GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L++ + ED G YYC V G+GT ++ AP + P
Sbjct: 83 LQMNNLRAEDTGIYYCTRGGAVGAMDYWGQGTSVTVSSATTTAPSVYPLVPGCSDTSGSS 142
Query: 243 MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 143 VTLGCLVKGYFP 154
>pdb|1HYS|C Chain C, Crystal Structure Of Hiv-1 Reverse Transcriptase In
Complex With A Polypurine Tract Rna:dna
Length = 214
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 46/213 (21%), Positives = 75/213 (35%), Gaps = 55/213 (25%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
+T SL S G V + C A + ++W ++ + L +G S + GS
Sbjct: 7 TTSSLSASLGDRVTISCSASQDISSYLNWYQQKPEGTVKLLIYYTSSLHSGVPSAFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED TYYC + G GT+ I + AP +++ P Q
Sbjct: 67 SGTDYSLTISNLEPEDFATYYCQQYSKFPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQL 125
Query: 239 LQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFAT 281
+ C + + P I W +D++ + YS+S
Sbjct: 126 TSGGASVVCFLNNFYPKDINVAWAIDGSAAANGVLNSWTDQDSK-----DSTYSMS---- 176
Query: 282 ADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + SY C A +K TS
Sbjct: 177 ------STLTLTADAYEAANSYTCAATHKTSTS 203
>pdb|3AAZ|B Chain B, Crystal Structure Of The Humanized Recombinant Fab
Fragment Of A Murine; Antibody
pdb|3AAZ|L Chain L, Crystal Structure Of The Humanized Recombinant Fab
Fragment Of A Murine; Antibody
Length = 229
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 33/117 (28%), Positives = 50/117 (42%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + V G+GT+ I V AP + + P Q
Sbjct: 78 LKISRVEAEDVGVYYCFQASLVPLTFGQGTKLEIKRTVA-APSVFIFPPSDEQLKSGTAS 136
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|1NCA|L Chain L, Refined Crystal Structure Of The Influenza Virus N9
Neuraminidase-Nc41 Fab Complex
pdb|1NCB|L Chain L, Crystal Structures Of Two Mutant Neuraminidase-Antibody
Complexes With Amino Acid Substitutions In The Interface
pdb|1NCC|L Chain L, Crystal Structures Of Two Mutant Neuraminidase-Antibody
Complexes With Amino Acid Substitutions In The Interface
pdb|1NCD|L Chain L, Refined Crystal Structure Of The Influenza Virus N9
Neuraminidase-Nc41 Fab Complex
Length = 214
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 32/147 (21%), Positives = 52/147 (35%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED YYC G GT+ I + AP +++ P Q
Sbjct: 73 LTISSVQAEDLALYYCQQHYSPPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3PNW|A Chain A, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|D Chain D, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|G Chain G, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|J Chain J, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|M Chain M, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|P Chain P, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|S Chain S, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
pdb|3PNW|V Chain V, Crystal Structure Of The Tudor Domain Of Human Tdrd3 In
Complex With An Anti-tdrd3 Fab
Length = 228
Score = 30.0 bits (66), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 47/199 (23%), Positives = 75/199 (37%), Gaps = 37/199 (18%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A + ++W ++ P + S
Sbjct: 2 DIQMTQSP-------SSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASS 54
Query: 183 IYRG-------------SILKIPQITKEDRGTYYCVAENG-------VGKGTRRNIAVEV 222
+Y G L I + ED TYYC ++G G+GT+ I V
Sbjct: 55 LYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYC-QQHGPFYWLFTFGQGTKVEIKRTV 113
Query: 223 EFAPVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFAT 281
AP + + P Q + C + YP A V K D + + N S++ +
Sbjct: 114 A-APSVFIFPPSDSQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDS 171
Query: 282 ADEFTDTTIRVITIEKRQY 300
D T + +T+ K Y
Sbjct: 172 KDS-TYSLSSTLTLSKADY 189
>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 = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 19/72 (26%), Positives = 28/72 (38%), Gaps = 6/72 (8%)
Query: 189 LKIPQITKEDRGTYYCVAENGV------GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L++ + ED G YYC V G+GT ++ AP + P
Sbjct: 83 LQMNNLRAEDTGIYYCTRGGAVGAMDYWGQGTSVTVSSATTTAPSVYPLVPGCSDTSGSS 142
Query: 243 MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 143 VTLGCLVKGYFP 154
>pdb|4ELK|B Chain B, Crystal Structure Of The Hy19.3 Type Ii Nkt Tcr
pdb|4ELK|D Chain D, Crystal Structure Of The Hy19.3 Type Ii Nkt Tcr
pdb|4ELM|F Chain F, Crystal Structure Of The Mouse Cd1d-lysosulfatide-hy19.3
Tcr Complex
pdb|4ELM|H Chain H, Crystal Structure Of The Mouse Cd1d-lysosulfatide-hy19.3
Tcr Complex
Length = 244
Score = 30.0 bits (66), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 33/149 (22%), Positives = 52/149 (34%), Gaps = 13/149 (8%)
Query: 25 PTISYISQEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSR 84
P + I QI D+G V L C Y W K + E L ++ +
Sbjct: 3 PKVLQIPSHQIIDMGQMVTLNCDPVSNHLY-FYWYKQILGQQMEFLVNFYNGKVMEKSKL 61
Query: 85 FAIRYDTA---SSTYTLLVKDIQETDAGYYRC---------QVIIGINNKISAEVDLQVR 132
F ++ S +TL ++ D+ Y C + G +++ DL+
Sbjct: 62 FKDQFSVERPDGSYFTLKIQPTALEDSAVYFCASSFWGAYAEQFFGPGTRLTVLEDLRNV 121
Query: 133 RPPVISDNSTRSLVVSEGQPVQLECFAGG 161
PP +S +S Q L C A G
Sbjct: 122 TPPKVSLFEPSKAEISHTQKATLVCLATG 150
>pdb|2R8S|L Chain L, High Resolution Structure Of A Specific Synthetic Fab
Bound To P4-P6 Rna Ribozyme Domain
Length = 214
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 46/196 (23%), Positives = 72/196 (36%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A + ++W ++ P + S
Sbjct: 1 DIQMTQSP-------SSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASS 53
Query: 183 IYRG-------------SILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFA 225
+Y G L I + ED TYYC G+GT+ I V A
Sbjct: 54 LYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQSYSSPITFGQGTKVEIKRTVA-A 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 PSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS 171
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 172 -TYSLSSTLTLSKADY 186
>pdb|3EFD|L Chain L, The Crystal Structure Of The Cytoplasmic Domain Of Kcsa
Length = 211
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 47/196 (23%), Positives = 73/196 (37%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A + ++W ++ P + S
Sbjct: 1 DIQMTQSP-------SSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASS 53
Query: 183 IYRG-------------SILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFA 225
+Y G L I + ED TYYC + G+GT+ I V A
Sbjct: 54 LYSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQYSYSLLTFGQGTKVEIKRTVA-A 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D N+Q S++ + D
Sbjct: 113 PSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDNALQAGNSQE-SVTEQDSKDS 171
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 172 -TYSLSSTLTLSKADY 186
>pdb|3I50|H Chain H, Crystal Structure Of The West Nile Virus Envelope
Glycoprotein In Complex With The E53 Antibody Fab
Length = 221
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/73 (27%), Positives = 28/73 (38%), Gaps = 7/73 (9%)
Query: 189 LKIPQITKEDRGTYYCVAENG-------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L++ + EDR TYYC G G GT ++ AP + P
Sbjct: 83 LQMSTLRAEDRATYYCATVYGNYPYFDVWGVGTTVAVSSATTTAPSVYPLVPGCSDTSGS 142
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 143 SVTLGCLVKGYFP 155
>pdb|2GSG|B Chain B, Crystal Structure Of The Fv Fragment Of A Monoclonal
Antibody Specific For Poly-Glutamine
pdb|2GSG|D Chain D, Crystal Structure Of The Fv Fragment Of A Monoclonal
Antibody Specific For Poly-Glutamine
pdb|2OTU|B Chain B, Crystal Structure Of Fv Polyglutamine Complex
pdb|2OTU|D Chain D, Crystal Structure Of Fv Polyglutamine Complex
pdb|2OTU|F Chain F, Crystal Structure Of Fv Polyglutamine Complex
pdb|2OTU|H Chain H, Crystal Structure Of Fv Polyglutamine Complex
pdb|2OTW|B Chain B, Crystal Structure Of Fv Polyglutamine Complex
pdb|2OTW|D Chain D, Crystal Structure Of Fv Polyglutamine Complex
Length = 118
Score = 30.0 bits (66), Expect = 2.4, Method: Composition-based stats.
Identities = 22/82 (26%), Positives = 37/82 (45%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPIST--GSSLIIRDS---RFAIRYDT 91
GG+++L C+ +DY + W++ K E + + G S D+ RF I D
Sbjct: 15 GGSLKLSCAASGFTFRDYYMYWVRQTPEKRLEWVAFISNGGGSTYYPDTVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A +T L + ++ D Y C
Sbjct: 75 AKNTLYLQMSRLKSEDTAMYYC 96
>pdb|1R24|A Chain A, Fab From Murine Igg3 Kappa
pdb|1R24|C Chain C, Fab From Murine Igg3 Kappa
Length = 206
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 55/147 (37%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED T++C + G GT+ I + AP +++ P Q
Sbjct: 73 LTISNLEEEDIATFFCQQGKTLPYTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|3UJT|L Chain L, Structure Of The Fab Fragment Of Ab-52, An Antibody That
Binds The O- Antigen Of Francisella Tularensis
pdb|3UJT|M Chain M, Structure Of The Fab Fragment Of Ab-52, An Antibody That
Binds The O- Antigen Of Francisella Tularensis
Length = 217
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 52/147 (35%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED Y+C G GT+ I + AP +++ P Q
Sbjct: 79 LTISSVQAEDLADYFCQQHYSTPFTFGSGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 137
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 138 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 182
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 183 STLTLTKDEYERHNSYTCEATHKTSTS 209
>pdb|3RA7|H Chain H, Bispecific Digoxigenin Binding Antibodies For Targeted
Payload Delivery
pdb|3RA7|I Chain I, Bispecific Digoxigenin Binding Antibodies For Targeted
Payload Delivery
Length = 228
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 36/82 (43%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMK-VDRNKVTEPLPISTGSSLIIR----DSRFAIRYDT 91
GG+++L C+V DY + W++ N++ I+ G++ RF I D
Sbjct: 15 GGSLKLSCAVSGFTFSDYAMSWIRQTPENRLEWVASINIGATYAYYPDSVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A +T L + + D Y C
Sbjct: 75 AKNTLFLQMSSLGSEDTAMYYC 96
>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 = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/70 (25%), Positives = 29/70 (41%), Gaps = 2/70 (2%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV--GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
+ L++ +T ED YYC + G+ G+GT ++ P + P
Sbjct: 79 AYLQLSSLTSEDTAVYYCASYYGIYWGQGTTLTVSSASTKGPSVFPLAPSSKSTSGGTAA 138
Query: 245 LECHVEAYPP 254
L C V+ Y P
Sbjct: 139 LGCLVKDYFP 148
>pdb|4DKE|L Chain L, Crystal Structure Of Human Interleukin-34 Bound To Fab1.1
pdb|4DKE|M Chain M, Crystal Structure Of Human Interleukin-34 Bound To Fab1.1
Length = 214
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 46/196 (23%), Positives = 72/196 (36%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A + ++W ++ P +
Sbjct: 1 DIQMTQSP-------SSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASF 53
Query: 183 IYRG-------------SILKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFA 225
+Y G L I + ED TYYC N G+GT+ I V A
Sbjct: 54 LYSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQSFYFPNTFGQGTKVEIKRTVA-A 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 PSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS 171
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 172 -TYSLSSTLTLSKADY 186
>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 = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 19/80 (23%), Positives = 30/80 (37%), Gaps = 12/80 (15%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV------------GKGTRRNIAVEVEFAPVITVPKPR 234
+ +++ +T ED YYC E G+GT ++ AP + P
Sbjct: 79 AYIQLNSLTSEDSAVYYCAREGNYYDGGSVRYFDYWGQGTTLTVSSAKTTAPSVYPLAPV 138
Query: 235 LGQALQYDMDLECHVEAYPP 254
G + L C V+ Y P
Sbjct: 139 CGDTSGSSVTLGCLVKGYFP 158
>pdb|3UO1|H Chain H, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
pdb|3UYR|H Chain H, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
pdb|3V4U|H Chain H, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
pdb|3V52|H Chain H, Structure Of A Monoclonal Antibody Complexed With Its
Mhc-I Antigen
Length = 216
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 20/74 (27%), Positives = 30/74 (40%), Gaps = 5/74 (6%)
Query: 189 LKIPQITKEDRGTYYCV-AENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L++ + ED TYYC NG G GT ++ P + P G +
Sbjct: 81 LQMSSLRCEDTATYYCARLTNGYLDVWGAGTTVTVSSAKTTPPSVYPLAPGCGDTTGSSV 140
Query: 244 DLECHVEAYPPPAI 257
L C V+ Y P ++
Sbjct: 141 TLGCLVKGYFPESV 154
>pdb|3MNV|B Chain B, Crystal Structure Of The Non-Neutralizing Hiv Antibody
13h11 Fab Fragment
pdb|3MNV|D Chain D, Crystal Structure Of The Non-Neutralizing Hiv Antibody
13h11 Fab Fragment
pdb|3MNW|B Chain B, Crystal Structure Of The Non-Neutralizing Hiv Antibody
13h11 Fab Fragment With A Gp41 Mper-Derived Peptide In A
Helical Conformation
pdb|3MNZ|B Chain B, Crystal Structure Of The Non-Neutralizing Hiv Antibody
13h11 Fab Fragment With A Gp41 Mper-Derived Peptide
Bearing Ala Substitutions In A Helical Conformation
pdb|3MO1|B Chain B, Crystal Structure Of The Non-Neutralizing Hiv Antibody
13h11 Fab Fragment
Length = 219
Score = 30.0 bits (66), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 41/92 (44%), Gaps = 7/92 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLP---ISTGSSLIIRD--S 83
S ++K G TV++ C S DY V W+K K + + TG D
Sbjct: 8 SGPELKKPGETVKISCKASGYTFTDYSVHWVKQVPGKGLKWMGWINTETGEPTYADDFKG 67
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRCQV 115
RFA ++++ST L + +++ D Y C +
Sbjct: 68 RFAFSLESSASTAYLEIHNLKNEDTATYFCAL 99
>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 = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 31/145 (21%), Positives = 53/145 (36%), Gaps = 32/145 (22%)
Query: 146 VVSEGQPVQLECFAGGH--PTPRISWRREN-NAILPTGGSIYRGS--------------- 187
+V G V++ C A G+ + I+W ++ L G+IY GS
Sbjct: 11 LVQPGASVKMSCKASGYTFSSYWINWEKQRPGKGLEWIGNIYPGSGTVNYDDKFKSKATL 70
Query: 188 ---------ILKIPQITKEDRGTYYCV-----AENGVGKGTRRNIAVEVEFAPVITVPKP 233
+++ +T ED YYC A + G+GT ++ P + P
Sbjct: 71 TIDTSSNTAYMQLSSLTSEDSAVYYCTRGGSHAMDYWGQGTSVTVSSAKTTPPSVYPLAP 130
Query: 234 RLGQALQYDMDLECHVEAYPPPAIV 258
+ L C V+ Y P ++
Sbjct: 131 GSADTTGSSVTLGCLVKGYFPESVT 155
>pdb|3DVN|A Chain A, Crystal Structure Of K63-specific Fab Apu2.16 Bound To
K63-linked Di- Ubiquitin
pdb|3DVN|L Chain L, Crystal Structure Of K63-specific Fab Apu2.16 Bound To
K63-linked Di- Ubiquitin
Length = 217
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 46/198 (23%), Positives = 73/198 (36%), Gaps = 35/198 (17%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A + ++W ++ P + S
Sbjct: 2 DIQMTQSP-------SSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASS 54
Query: 183 IYRG-------------SILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVE 223
+Y G L I + ED TYYC + G+GT+ I V
Sbjct: 55 LYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQYSSYSSLFTFGQGTKVEIKRTVA 114
Query: 224 FAPVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATA 282
AP + + P Q + C + YP A V K D + + N S++ +
Sbjct: 115 -APSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSK 172
Query: 283 DEFTDTTIRVITIEKRQY 300
D T + +T+ K Y
Sbjct: 173 DS-TYSLSSTLTLSKADY 189
>pdb|4FQ2|L Chain L, Crystal Structure Of 10-1074 Fab
Length = 214
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 30/140 (21%), Positives = 55/140 (39%), Gaps = 8/140 (5%)
Query: 187 SILKIPQITKEDRGTYYCVAENG-------VGKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
+ L I + D YYC + G TR + + + AP +T+ P +
Sbjct: 69 ATLTISGVEAGDEADYYCHMWDSRSGFSWSFGGATRLTVLGQPKAAPSVTLFPPSSEELQ 128
Query: 240 QYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKR 298
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 129 ANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWK 188
Query: 299 QYGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 189 SHRSYSCQVTHEGSTVEKTV 208
>pdb|3LMJ|L Chain L, Structure Of Human Anti Hiv 21c Fab
pdb|3LQA|L Chain L, Crystal Structure Of Clade C Gp120 In Complex With Scd4
And
Length = 217
Score = 29.6 bits (65), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 30/144 (20%), Positives = 57/144 (39%), Gaps = 8/144 (5%)
Query: 187 SILKIPQITKEDRGTYYCVAENG-------VGKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
+ L I + D YYC + G GT+ + + + AP +T+ P +
Sbjct: 72 ATLAITGLQTGDEADYYCGTWDSSLSTGQLFGGGTKLTVLGQPKAAPSVTLFPPSSEELQ 131
Query: 240 QYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKR 298
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 132 ANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWK 191
Query: 299 QYGSYICRAANKLGTSEKTVELFE 322
+ SY C+ ++ T EKT+ E
Sbjct: 192 SHRSYSCQVTHEGSTVEKTMAHAE 215
>pdb|1K4D|A Chain A, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
K+
pdb|1K4C|A Chain A, Potassium Channel Kcsa-Fab Complex In High Concentration
Of K+
pdb|1R3I|H Chain H, Potassium Channel Kcsa-Fab Complex In Rb+
pdb|1R3J|B Chain B, Potassium Channel Kcsa-Fab Complex In High Concentration
Of Tl+
pdb|1R3K|B Chain B, Potassium Channel Kcsa-Fab Complex In Low Concentration Of
Tl+
pdb|1R3L|B Chain B, Potassium Channel Kcsa-Fab Complex In Cs+
pdb|1S5H|B Chain B, Potassium Channel Kcsa-Fab Complex T75c Mutant In K+
pdb|2BOB|A Chain A, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetrabutylammonium (Tba)
pdb|2BOC|A Chain A, Potassium Channel Kcsa-Fab Complex In Thallium With
Tetraethylarsonium (Teas)
pdb|1ZWI|A Chain A, Structure Of Mutant Kcsa Potassium Channel
pdb|2ATK|A Chain A, Structure Of A Mutant Kcsa K+ Channel
pdb|2H8P|A Chain A, Structure Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HFE|A Chain A, Rb+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HG5|A Chain A, Cs+ Complex Of A K Channel With An Amide To Ester
Substitution In The Selectivity Filter
pdb|2HJF|A Chain A, Potassium Channel Kcsa-Fab Complex With Tetrabutylammonium
(Tba)
pdb|2IH1|A Chain A, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2IH3|A Chain A, Ion Selectivity In A Semi-Synthetic K+ Channel Locked In
The Conductive Conformation
pdb|2DWD|A Chain A, Crystal Structure Of Kcsa-Fab-Tba Complex In Tl+
pdb|2DWE|A Chain A, Crystal Structure Of Kcsa-Fab-Tba Complex In Rb+
pdb|2HVJ|A Chain A, Crystal Structure Of Kcsa-fab-tba Complex In Low K+
pdb|2HVK|A Chain A, Crystal Structure Of The Kcsa-Fab-Tba Complex In High K+
pdb|2ITC|A Chain A, Potassium Channel Kcsa-Fab Complex In Sodium Chloride
pdb|2ITD|A Chain A, Potassium Channel Kcsa-Fab Complex In Barium Chloride
pdb|2NLJ|B Chain B, Potassium Channel Kcsa(M96v)-Fab Complex In Kcl
pdb|2P7T|A Chain A, Crystal Structure Of Kcsa Mutant
pdb|2JK5|A Chain A, Potassium Channel Kcsa In Complex With Tetrabutylammonium
In High K
pdb|2W0F|A Chain A, Potassium Channel Kcsa-Fab Complex With Tetraoctylammonium
pdb|3GB7|A Chain A, Potassium Channel Kcsa-Fab Complex In Li+
pdb|3IGA|A Chain A, Potassium Channel Kcsa-Fab Complex In Li+ And K+
pdb|3F5W|A Chain A, Kcsa Potassium Channel In The Open-Inactivated State With
32 A Opening At T112
pdb|3F7V|A Chain A, Kcsa Potassium Channel In The Open-Inactivated State With
23 A Opening At T112
pdb|3F7Y|A Chain A, Kcsa Potassium Channel In The Partially Open State With 17
A Opening At T112
pdb|3FB5|A Chain A, Kcsa Potassium Channel In The Partially Open State With
14.5 A Opening At T112
pdb|3FB6|A Chain A, Kcsa Potassium Channel In The Partially Open State With 16
A Opening At T112
pdb|3FB8|A Chain A, Kcsa Potassium Channel In The Open-Conductive State With
20 At T112 In The Presence Of Rb+ Ion
pdb|3HPL|A Chain A, Kcsa E71h-F103a Mutant In The Closed State
pdb|3FB7|A Chain A, Open Kcsa Potassium Channel In The Presence Of Rb+ Ion
pdb|3OR6|A Chain A, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71q
pdb|3OR7|A Chain A, On The Structural Basis Of Modal Gating Behavior In
K+channels - E71i
pdb|3OGC|A Chain A, Kcsa E71a Variant In Presence Of Na+
pdb|3STL|A Chain A, Kcsa Potassium Channel Mutant Y82c With Cadmium Bound
pdb|3STZ|A Chain A, Kcsa Potassium Channel Mutant Y82c With Nitroxide Spin
Label
Length = 219
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 31/75 (41%), Gaps = 8/75 (10%)
Query: 187 SILKIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRL-----GQALQY 241
+ +++ +T ED YYC E G G V + T P P + G A Q
Sbjct: 79 AFMQLSSLTSEDSAVYYCARERGDGYFAVWGAGTTVTVSSAKTTP-PSVYPLAPGSAAQT 137
Query: 242 D--MDLECHVEAYPP 254
+ + L C V+ Y P
Sbjct: 138 NSMVTLGCLVKGYFP 152
>pdb|1KCR|H Chain H, Crystal Structure Of Antibody Pc283 In Complex With Ps1
Peptide
Length = 218
Score = 29.6 bits (65), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 29/72 (40%), Gaps = 6/72 (8%)
Query: 188 ILKIPQITKEDRGTYYCVAENGV-----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
L++ +T ED TYYC A G G GT ++ P + P A
Sbjct: 80 FLQLNSVTTEDTATYYC-ARGGTGFTYWGAGTLVTVSAAATTPPSVYPLAPGSAAAAAAM 138
Query: 243 MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 139 VTLGCLVKGYFP 150
>pdb|4HFU|L Chain L, Crystal Structure Of Fab 8m2 In Complex With A H2n2
Influenza Virus Hemagglutinin
Length = 215
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 48/197 (24%), Positives = 73/197 (37%), Gaps = 34/197 (17%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPT----GGSI 183
D+Q+ + P SL VS G+ L C A ++W ++ P G S
Sbjct: 1 DIQLTQSPA-------SLSVSPGERATLSCRASQSVAGNLAWYQQKPGQAPRLLIYGAST 53
Query: 184 --------YRGS------ILKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEF 224
+ GS L I + ED YYC N G+GT+ +I V
Sbjct: 54 RATGIPARFSGSGSGTEFTLTITSLQSEDFAVYYCQQYNNWPPWTFGQGTKVDIKRTVA- 112
Query: 225 APVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATAD 283
AP + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 APSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKD 171
Query: 284 EFTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 172 S-TYSLSSTLTLSKADY 187
>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 = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 36/82 (43%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLP--ISTGSSLIIRDS---RFAIRYDT 91
GG++ L C+ Y + W++ K E + +S+G S DS RF I D
Sbjct: 15 GGSLRLSCAASGFTFSTYQMSWVRQAPGKGLEWVSGIVSSGGSTAYADSVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
+ +T L + ++ D Y C
Sbjct: 75 SKNTLYLQMNSLRAEDTAVYYC 96
>pdb|4HBC|L Chain L, Crystal Structure Of A Conformation-Dependent Rabbit Igg
Fab Specific For Amyloid Prefibrillar Oligomers
Length = 213
Score = 29.6 bits (65), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 34/77 (44%), Gaps = 2/77 (2%)
Query: 38 IGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYT 97
+GGTV +KC + + W + + L T + SRF + + + +T
Sbjct: 15 VGGTVTIKCQASQSISSYLAWYQQKPGQRPRLLIYETSTLASGVPSRF--KGSGSGTDFT 72
Query: 98 LLVKDIQETDAGYYRCQ 114
L + D++ DA Y CQ
Sbjct: 73 LTISDLECADAATYYCQ 89
>pdb|2WUB|L Chain L, Crystal Structure Of Hgfa In Complex With The Allosteric
Non-Inhibitory Antibody Fab40.Deltatrp
pdb|2WUB|Q Chain Q, Crystal Structure Of Hgfa In Complex With The Allosteric
Non-Inhibitory Antibody Fab40.Deltatrp
pdb|2WUC|L Chain L, Crystal Structure Of Hgfa In Complex With The Allosteric
Non- Inhibitory Antibody Fab40.Deltatrp And
Ac-Kqlr-Chloromethylketone
pdb|3K2U|L Chain L, Crystal Structure Of Hgfa In Complex With The Allosteric
Inhibitory Antibody Fab40
Length = 214
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 46/196 (23%), Positives = 72/196 (36%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A + ++W ++ P +
Sbjct: 1 DIQMTQSP-------SSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASF 53
Query: 183 IYRG-------------SILKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFA 225
+Y G L I + ED TYYC N G+GT+ I V A
Sbjct: 54 LYSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQSNRAPATFGQGTKVEIKRTVA-A 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 PSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS 171
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 172 -TYSLSSTLTLSKADY 186
>pdb|1A7Q|L Chain L, Fv Fragment Of Mouse Monoclonal Antibody D1.3 (BalbC,
IGG1, K) High Affinity Expressed Variant Containing
Ser26l->gly, Ile29l->thr, Glu81l->asp, Thr97l->ser,
Pro240h->leu, Asp258h->ala, Lys281h->glu, Asn283h->asp
And Leu312h->val
Length = 106
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 37/87 (42%), Gaps = 18/87 (20%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------TGG--SI 183
++ S SL S G+ V + C AGG+ ++W ++ P G S
Sbjct: 2 IVLTQSPASLSASVGETVTITCRAGGNTHNYLAWYQQKQGKSPQLLVYYTTTLAAGVPSR 61
Query: 184 YRGS------ILKIPQITKEDRGTYYC 204
+ GS LKI + +D G+YYC
Sbjct: 62 FSGSGSGTQYSLKINSLQPDDFGSYYC 88
>pdb|3Q6F|A Chain A, Crystal Structure Of Fab Of Human Mab 2909 Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
pdb|3Q6F|C Chain C, Crystal Structure Of Fab Of Human Mab 2909 Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
pdb|3Q6F|E Chain E, Crystal Structure Of Fab Of Human Mab 2909 Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
pdb|3Q6F|G Chain G, Crystal Structure Of Fab Of Human Mab 2909 Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
pdb|3Q6F|I Chain I, Crystal Structure Of Fab Of Human Mab 2909 Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
pdb|3Q6F|K Chain K, Crystal Structure Of Fab Of Human Mab 2909 Specific For
Quaternary Neutralizing Epitope Of Hiv-1 Gp120
Length = 213
Score = 29.6 bits (65), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 31/143 (21%), Positives = 56/143 (39%), Gaps = 7/143 (4%)
Query: 187 SILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+ L I ++ D YYC + G GT+ + + + AP +T+ P +
Sbjct: 70 ATLTISRVEAGDEADYYCQVWDSNSDHVVFGGGTQLTVLGQPKAAPSVTLFPPSSEELQA 129
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C + + P A+ V K D V + S + + + + + +
Sbjct: 130 NKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKS 189
Query: 300 YGSYICRAANKLGTSEKTVELFE 322
+ SY C+ ++ T EKTV E
Sbjct: 190 HRSYSCQVTHEGSTVEKTVAPTE 212
>pdb|4FNL|L Chain L, Crystal Structure Of Broadly Neutralizing Antibody C05
pdb|4FNL|M Chain M, Crystal Structure Of Broadly Neutralizing Antibody C05
pdb|4FP8|L Chain L, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FP8|M Chain M, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FP8|N Chain N, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FP8|O Chain O, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin, Ha1 Subunit
pdb|4FQR|BB Chain b, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|DD Chain d, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|FF Chain f, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|HH Chain h, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|JJ Chain j, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|LL Chain l, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|NN Chain n, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|PP Chain p, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|RR Chain r, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|TT Chain t, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|VV Chain v, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
pdb|4FQR|XX Chain x, Crystal Structure Of Broadly Neutralizing Antibody C05
Bound To H3 Influenza Hemagglutinin
Length = 214
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 48/196 (24%), Positives = 72/196 (36%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP--------- 178
D+Q+ + P SL S G V L C A ++W ++ P
Sbjct: 1 DIQLTQSP-------SSLSASVGDRVTLTCQASQDIRKFLNWYQQKPGKGPKLLIYDASN 53
Query: 179 ---------TGGSIYRGSILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFA 225
+GG L I + ED GTYYC +G+ G GT+ I V A
Sbjct: 54 LQRGVPSRFSGGGSGTDFTLIISSLQPEDVGTYYCQQYDGLPFTFGGGTKVVIKRTVA-A 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 PSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVDN-ALQSGNSQESVTEQDSKDS 171
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 172 -TYSLSSTLTLSKADY 186
>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 = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 38/92 (41%), Gaps = 7/92 (7%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIRYDT 91
GG++ L C+ Y + W++ K E + +G S DS RF I D
Sbjct: 15 GGSLRLSCAASGFTFSSYAMSWVRQAPGKGLEWVSAISGSGGSTYYADSVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRCQVIIGINNKI 123
+ +T L + ++ D Y C GI ++
Sbjct: 75 SKNTLYLQMNSLRAEDTAVYYCAKYDGIYGEL 106
>pdb|4GMS|H Chain H, Crystal Structure Of Heterosubtypic Fab S1391 IN COMPLEX
WITH Influenza A H3 Hemagglutinin
pdb|4GMS|I Chain I, Crystal Structure Of Heterosubtypic Fab S1391 IN COMPLEX
WITH Influenza A H3 Hemagglutinin
pdb|4GMS|J Chain J, Crystal Structure Of Heterosubtypic Fab S1391 IN COMPLEX
WITH Influenza A H3 Hemagglutinin
pdb|4GMT|H Chain H, Crystal Structure Of Heterosubtypic Fab S1391
pdb|4GMT|I Chain I, Crystal Structure Of Heterosubtypic Fab S1391
Length = 225
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 28/72 (38%), Gaps = 6/72 (8%)
Query: 189 LKIPQITKEDRGTYYCVAENGV------GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
+++ +T ED YYC G+GT ++ AP + P G
Sbjct: 81 MQLSSLTSEDSAVYYCARPYDYSWFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTGSS 140
Query: 243 MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 VTLGCLVKGYFP 152
>pdb|1BFO|B Chain B, Campath-1g Igg2b Rat Monoclonal Fab
pdb|1BFO|D Chain D, Campath-1g Igg2b Rat Monoclonal Fab
pdb|1BFO|F Chain F, Campath-1g Igg2b Rat Monoclonal Fab
pdb|1BFO|H Chain H, Campath-1g Igg2b Rat Monoclonal Fab
Length = 216
Score = 29.6 bits (65), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 28/73 (38%), Gaps = 7/73 (9%)
Query: 189 LKIPQITKEDRGTYYCVAENGV-------GKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L++ + ED TYYC E G+G ++ AP + P G
Sbjct: 83 LQMNTLRAEDTATYYCAREGHTAAPFDYWGQGVMVTVSSAQTTAPSVYPLAPGCGDTTSS 142
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 143 TVTLGCLVKGYFP 155
>pdb|2XQY|G Chain G, Crystal Structure Of Pseudorabies Core Fragment Of
Glycoprotein H In Complex With Fab D6.3
pdb|2XQY|J Chain J, Crystal Structure Of Pseudorabies Core Fragment Of
Glycoprotein H In Complex With Fab D6.3
Length = 261
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 18/72 (25%), Positives = 29/72 (40%), Gaps = 6/72 (8%)
Query: 189 LKIPQITKEDRGTYYC------VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYD 242
+++ +T ED YYC + G+GT ++ AP + P G
Sbjct: 87 IQLSSLTSEDSAVYYCGRLGYVYGFDYWGQGTTLTVSSAKTTAPSVYPLAPVCGDTTGSS 146
Query: 243 MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 147 VTLGCLVKGYFP 158
>pdb|1F2X|K Chain K, Structure Of The Single-Domain Camelid Antibody Cab-Ca05
pdb|1F2X|L Chain L, Structure Of The Single-Domain Camelid Antibody Cab-Ca05
Length = 135
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 32/80 (40%), Gaps = 5/80 (6%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDS---RFAIRYDTAS 93
GG++ L C+ Y + W + K E + G S DS RF I D A
Sbjct: 15 GGSLRLSCAASGYTVSTYCMGWFRQAPGKEREGVATILGGSTYYGDSVKGRFTISQDNAK 74
Query: 94 STYTLLVKDIQETDAGYYRC 113
+T L + ++ D Y C
Sbjct: 75 NTVYLQMNSLKPEDTAIYYC 94
>pdb|4EBQ|L Chain L, Fab Structure Of Anti-Vaccinia Virus D8l Antigen Mouse
Igg2a La5
Length = 213
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 53/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED TYYC G GT+ + + AP +++ P Q
Sbjct: 72 LTINRLEAEDGATYYCQQWTSYPLTFGAGTKLELK-RADAAPTVSIFPPSSEQLTSGGAS 130
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 131 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 175
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A + TS
Sbjct: 176 STLTLTKDEYERHNSYTCEATHATSTS 202
>pdb|3UAJ|L Chain L, Crystal Structure Of The Envelope Glycoprotein Ectodomain
From Dengue Virus Serotype 4 In Complex With The Fab
Fragment Of The Chimpanzee Monoclonal Antibody 5h2
pdb|3UAJ|D Chain D, Crystal Structure Of The Envelope Glycoprotein Ectodomain
From Dengue Virus Serotype 4 In Complex With The Fab
Fragment Of The Chimpanzee Monoclonal Antibody 5h2
pdb|3UC0|L Chain L, Crystal Structure Of Domain I Of The Envelope Glycoprotein
Ectodomain From Dengue Virus Serotype 4 In Complex With
The Fab Fragment Of The Chimpanzee Monoclonal Antibody
5h2
pdb|3UC0|M Chain M, Crystal Structure Of Domain I Of The Envelope Glycoprotein
Ectodomain From Dengue Virus Serotype 4 In Complex With
The Fab Fragment Of The Chimpanzee Monoclonal Antibody
5h2
Length = 215
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 47/183 (25%), Positives = 71/183 (38%), Gaps = 26/183 (14%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRRE-----------NNAILPTG-GSIYRGS- 187
S SL S G V + C A + R++W ++ + + L +G S + GS
Sbjct: 8 SPSSLSASVGDRVTITCRASQDISIRLNWYQQKPGKAPKLLIYDASTLESGVPSRFSGSG 67
Query: 188 -----ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + ED TYYC N G GT+ I V AP + + P Q
Sbjct: 68 SGTDFTLTISSLQPEDFATYYCQQFNSYPLTFGGGTKVEIKRTVA-APSVFIFPPSDEQL 126
Query: 239 LQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK 297
+ C + YP A V K D + + N S++ + D T + +T+ K
Sbjct: 127 KSGTASVACLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDN-TYSLSSTLTLSK 184
Query: 298 RQY 300
Y
Sbjct: 185 ADY 187
>pdb|3EO9|L Chain L, Crystal Structure The Fab Fragment Of Efalizumab
pdb|3EOA|L Chain L, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form I
pdb|3EOA|A Chain A, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form I
pdb|3EOB|L Chain L, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form Ii
pdb|3EOB|A Chain A, Crystal Structure The Fab Fragment Of Efalizumab In
Complex With Lfa-1 I Domain, Form Ii
Length = 214
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 48/197 (24%), Positives = 73/197 (37%), Gaps = 35/197 (17%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGS 187
D+Q+ + P SL S G V + C A + ++W ++ P IY GS
Sbjct: 1 DIQMTQSP-------SSLSASVGDRVTITCRASKTISKYLAWYQQKPGKAPKL-LIYSGS 52
Query: 188 ILK-------------------IPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEF 224
L+ I + ED TYYC N G+GT+ I V
Sbjct: 53 TLQSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQHNEYPLTFGQGTKVEIKRTVA- 111
Query: 225 APVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATAD 283
AP + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 112 APSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKD 170
Query: 284 EFTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 171 S-TYSLSSTLTLSKADY 186
>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 = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 5/77 (6%)
Query: 54 YPVIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIRYDTASSTYTLLVKDIQETDA 108
Y V W++ K E L I + G + DS RF I D + T L + +++ D
Sbjct: 37 YAVSWVRQAPGKGLEWLSIINAGGGDIDYADSVEGRFTISRDNSKETLYLQMTNLRVEDT 96
Query: 109 GYYRCQVIIGINNKISA 125
G Y C + + +SA
Sbjct: 97 GVYYCAKHMSMQQVVSA 113
>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 = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 34/77 (44%), Gaps = 5/77 (6%)
Query: 54 YPVIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIRYDTASSTYTLLVKDIQETDA 108
Y V W++ K E L I + G + DS RF I D + T L + +++ D
Sbjct: 37 YAVSWVRQAPGKGLEWLSIINAGGGDIDYADSVEGRFTISRDNSKETLYLQMTNLRVEDT 96
Query: 109 GYYRCQVIIGINNKISA 125
G Y C + + +SA
Sbjct: 97 GVYYCAKHMSMQQVVSA 113
>pdb|3FMG|H Chain H, Structure Of Rotavirus Outer Capsid Protein Vp7 Trimer In
Co A Neutralizing Fab
Length = 221
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 33/144 (22%), Positives = 51/144 (35%), Gaps = 42/144 (29%)
Query: 150 GQPVQLECFAGGH-------------PTPRISWRRENNAILPTGGSI-----YRG----- 186
G V++ C A G+ P + W E ILP GSI ++G
Sbjct: 15 GALVKISCKATGYTFSSYWIEWVKQRPGHGLEWIGE---ILPGSGSINYNEKFKGKATFT 71
Query: 187 -------SILKIPQITKEDRGTYYCVAENGV---------GKGTRRNIAVEVEFAPVITV 230
+ +++ +T ED YYC +G G+GT ++ AP +
Sbjct: 72 ADTSSNTAYMQLNSLTSEDSAVYYCARNHGSPDFHVMDYWGQGTSITVSSAKTTAPPVYP 131
Query: 231 PKPRLGQALQYDMDLECHVEAYPP 254
P + L C V+ Y P
Sbjct: 132 LAPGSAAQTNSMVTLGCLVKGYFP 155
>pdb|2ADG|B Chain B, Crystal Structure Of Monoclonal Anti-Cd4 Antibody Q425
pdb|2ADI|B Chain B, Crystal Structure Of Monoclonal Anti-Cd4 Antibody Q425 In
Complex With Barium
pdb|2ADJ|B Chain B, Crystal Structure Of Monoclonal Anti-Cd4 Antibody Q425 In
Complex With Calcium
Length = 222
Score = 29.6 bits (65), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 36/82 (43%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLP-ISTGSSLIIR----DSRFAIRYDT 91
GG+++L C+ Y + W++ +K E + IS+G S RF I D
Sbjct: 15 GGSLKLSCAASGFTFSSYGMSWVRQTPDKGLEWVATISSGGSYTYYPDNVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A +T L + ++ D Y C
Sbjct: 75 AKNTLYLQMSSLKSEDTAMYYC 96
>pdb|1G6V|K Chain K, Complex Of The Camelid Heavy-Chain Antibody Fragment Cab-
Ca05 With Bovine Carbonic Anhydrase
Length = 126
Score = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 22/80 (27%), Positives = 32/80 (40%), Gaps = 5/80 (6%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDS---RFAIRYDTAS 93
GG++ L C+ Y + W + K E + G S DS RF I D A
Sbjct: 15 GGSLRLSCAASGYTVSTYCMGWFRQAPGKEREGVATILGGSTYYGDSVKGRFTISQDNAK 74
Query: 94 STYTLLVKDIQETDAGYYRC 113
+T L + ++ D Y C
Sbjct: 75 NTVYLQMNSLKPEDTAIYYC 94
>pdb|1SM3|H Chain H, Crystal Structure Of The Tumor Specific Antibody Sm3
Complex With Its Peptide Epitope
Length = 218
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 189 LKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
L++ + ED G YYC G+GT ++ P + P A Q + L
Sbjct: 83 LQMNNLRAEDTGIYYCTGVGQFAYWGQGTTVTVSSAKTTPPTVYPLAPGSNAASQSMVTL 142
Query: 246 ECHVEAYPP 254
C V+ Y P
Sbjct: 143 GCLVKGYFP 151
>pdb|3DIF|A Chain A, Crystal Structure Of Fabox117
pdb|3DIF|C Chain C, Crystal Structure Of Fabox117
Length = 214
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 51/147 (34%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
I + ED YYC G GT+ I + AP +++ P Q
Sbjct: 73 FTISSVQAEDLAVYYCQQHYSTPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2O5X|L Chain L, Crystal Structure Of 1e9 Leuh47trpARGH100TRP, AN
ENGINEERED DIELS- Alderase Fab With Nm Steroid-Binding
Affinity
pdb|2O5Y|L Chain L, Crystal Structure Of The 1e9 Leuh47trpARGH100TRP FAB
PROGESTERONE Complex
pdb|2O5Z|L Chain L, Crystal Structure Of The 1e9 Leuh47trpARGH100TRP FAB
5-Beta- Androstane-3,17-Dione Complex
Length = 219
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 32/118 (27%), Positives = 48/118 (40%), Gaps = 8/118 (6%)
Query: 188 ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
ILKI ++ ED G Y+C G GT+ I V AP + + P Q
Sbjct: 77 ILKISRVEAEDLGVYFCFQSTHFFPTFGGGTKLEIKRTVA-APSVFIFPPSDEQLKSGTA 135
Query: 244 DLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 136 SVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|2NR6|C Chain C, Crystal Structure Of The Complex Of Antibody And The
Allergen Bla G 2
pdb|2NR6|E Chain E, Crystal Structure Of The Complex Of Antibody And The
Allergen Bla G 2
Length = 211
Score = 29.3 bits (64), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 51/147 (34%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAE----NGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
I + ED YYC G GT+ I + AP +++ P Q
Sbjct: 73 FTISSVQAEDLAVYYCQQHYNSPQTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 131
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 132 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 176
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 177 STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|1RZF|L Chain L, Crystal Structure Of Human Anti-hiv-1 Gp120-reactive
Antibody E51
Length = 213
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 29/139 (20%), Positives = 56/139 (40%), Gaps = 7/139 (5%)
Query: 187 SILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+ L I + D YYC + G G++ + + + AP +T+ P +
Sbjct: 72 ATLGITGLQTGDEADYYCGTWDSSLSAVVFGGGSKVTVLGQPKAAPSVTLFPPSSEELQA 131
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 132 NKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWKS 191
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 192 HRSYSCQVTHEGSTVEKTV 210
>pdb|1AFV|L Chain L, Hiv-1 Capsid Protein (P24) Complex With Fab25.3
pdb|1AFV|M Chain M, Hiv-1 Capsid Protein (P24) Complex With Fab25.3
Length = 217
Score = 29.3 bits (64), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + +ED Y+C V G GT+ + + AP +++ P Q
Sbjct: 77 LNIHPMEEEDTAMYFCQQSKEVPLTFGAGTKVELK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3N85|L Chain L, Crystallographic Trimer Of Her2 Extracellular Regions In
Complex With Tryptophan-Rich Antibody Fragment
Length = 217
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 46/196 (23%), Positives = 73/196 (37%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A + ++W ++ P + S
Sbjct: 1 DIQMTQSP-------SSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSASS 53
Query: 183 IYRG-------------SILKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFA 225
+Y G L I + ED TYYC + G+GT+ I V A
Sbjct: 54 LYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQWWWWPSTFGQGTKVEIKRTVA-A 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 PSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS 171
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 172 -TYSLSSTLTLSKADY 186
>pdb|3DA1|A Chain A, X-Ray Structure Of The Glycerol-3-Phosphate Dehydrogenase
From Bacillus Halodurans Complexed With Fad. Northeast
Structural Genomics Consortium Target Bhr167
Length = 561
Score = 29.3 bits (64), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 19/71 (26%), Positives = 36/71 (50%), Gaps = 4/71 (5%)
Query: 27 ISYISQEQIKDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFA 86
+ ++++++ D T+ K V A + + DR+K + L +S G L++ SRF
Sbjct: 204 VGVVAKDRLTDTTHTIYAKKVVNAAGPWVDTLREKDRSKHGKYLKLSKGVHLVVDQSRFP 263
Query: 87 IR----YDTAS 93
+R +DT S
Sbjct: 264 LRQAVYFDTES 274
>pdb|3CLE|L Chain L, Hiv Neutralizing Monoclonal Antibody Yz23
pdb|3CLF|L Chain L, Hiv Neutralizing Monoclonal Antibody Yz23
Length = 214
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 41/218 (18%), Positives = 73/218 (33%), Gaps = 55/218 (25%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S + + S G V + C A + I+W ++ P
Sbjct: 2 IVMTQSQKFMSTSVGDRVSISCKASQNVGNIIAWYQQKPGQSPKALIYLASYRYSGVPDR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKP 233
TG L I + ED Y+C + G GT+ + + AP +++ P
Sbjct: 62 FTGSGSGTDFTLTISNVQSEDLAEYFCQQYSSFPLTFGAGTKLELK-RADAAPTVSIFPP 120
Query: 234 RLGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSI 276
Q + C + + P I W +D++ + YS+
Sbjct: 121 SSEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSM 175
Query: 277 SHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
S +T+ + E ++ SY C A +K TS
Sbjct: 176 S----------STLTLTKDEYERHNSYTCEATHKTSTS 203
>pdb|2Z91|A Chain A, Crystal Structure Of The Fab Fragment Of Anti-Ciguatoxin
Antibody 10c9
pdb|2Z91|C Chain C, Crystal Structure Of The Fab Fragment Of Anti-Ciguatoxin
Antibody 10c9
pdb|2Z92|A Chain A, Crystal Structure Of The Fab Fragment Of Anti-Ciguatoxin
Antibody 10c9 In Complex With Ctx3c_abcde
pdb|2Z93|A Chain A, Crystal Structure Of Fab Fragment Of Anti-Ciguatoxin
Antibody 10c9 In Complex With Ctx3c-Abcd
pdb|2Z93|C Chain C, Crystal Structure Of Fab Fragment Of Anti-Ciguatoxin
Antibody 10c9 In Complex With Ctx3c-Abcd
Length = 218
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 18/71 (25%), Positives = 29/71 (40%), Gaps = 4/71 (5%)
Query: 188 ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L++ +T ED TYYC ++ G+GT ++ P + P +
Sbjct: 78 FLQLNSVTTEDTATYYCACDDFYSDYWGQGTIVTVSSAKTTPPSVYPLAPGSAAQTNSMV 137
Query: 244 DLECHVEAYPP 254
L C V+ Y P
Sbjct: 138 TLGCLVKGYFP 148
>pdb|3QEH|B Chain B, Crystal Structure Of Human N12-I15, An Adcc And
Non-Neutralizing Anti- Hiv-1 Env Antibody
pdb|3QEH|D Chain D, Crystal Structure Of Human N12-I15, An Adcc And
Non-Neutralizing Anti- Hiv-1 Env Antibody
pdb|3QEH|F Chain F, Crystal Structure Of Human N12-I15, An Adcc And
Non-Neutralizing Anti- Hiv-1 Env Antibody
pdb|3QEH|H Chain H, Crystal Structure Of Human N12-I15, An Adcc And
Non-Neutralizing Anti- Hiv-1 Env Antibody
Length = 218
Score = 29.3 bits (64), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 32/116 (27%), Positives = 49/116 (42%), Gaps = 7/116 (6%)
Query: 189 LKIPQITKEDRGTYYCVAEN---GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
LKI ++ ED G YYC+ G+GT+ I V AP + + P Q +
Sbjct: 78 LKISRVEAEDVGVYYCMQAKESPTFGQGTKVEIKRTVA-APSVFIFPPSDEQLKSGTASV 136
Query: 246 ECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 190
>pdb|1AHW|B Chain B, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1AHW|E Chain E, A Complex Of Extracellular Domain Of Tissue Factor With An
Inhibitory Fab (5g9)
pdb|1FGN|H Chain H, Monoclonal Murine Antibody 5g9-Anti-Human Tissue Factor
Length = 214
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 29/73 (39%), Gaps = 5/73 (6%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV-----GKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
+ L++ +T ED YYC +N G+GT ++ P + P
Sbjct: 79 AYLQLSSLTSEDTAVYYCARDNSYYFDYWGQGTTLTVSSAKTTPPSVYPLAPGSAAQTNS 138
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 139 MVTLGCLVKGYFP 151
>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 = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 22/109 (20%), Positives = 46/109 (42%), Gaps = 13/109 (11%)
Query: 213 GTRRNIAVEVEFAPV-ITVPKPRLGQALQYDMDLECHVEAYPPPAIVWIKEDTQQVLTNN 271
G+ R I ++E P I++ + ++ + + C P P + W + ++
Sbjct: 1 GSSRGIPPKIEALPSDISIDEGKV-------LTVACAFTGEPTPEVTWSCGGRK---IHS 50
Query: 272 QHYSISHFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTSEKTVEL 320
Q H D+ T T+ ++ ++K+ G Y N+ G+ TV +
Sbjct: 51 QEQGRFHIENTDDLT--TLIIMDVQKQDGGLYTLSLGNEFGSDSATVNI 97
>pdb|2EH7|L Chain L, Crystal Structure Of Humanized Kr127 Fab
Length = 219
Score = 29.3 bits (64), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 33/117 (28%), Positives = 48/117 (41%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYCV G GT+ I V AP + + P Q
Sbjct: 78 LKISRVEAEDVGVYYCVQGTHFPQTFGGGTKVEIKRTVA-APSVFIFPPSDEQLKSGTAS 136
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|3V6F|A Chain A, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6F|C Chain C, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6F|E Chain E, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6F|H Chain H, Crystal Structure Of An Anti-hbv E-antigen Monoclonal Fab
Fragment (e6), Unbound
pdb|3V6Z|A Chain A, Crystal Structure Of Hepatitis B Virus E-antigen
pdb|3V6Z|C Chain C, Crystal Structure Of Hepatitis B Virus E-antigen
Length = 224
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 37/82 (45%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLP-ISTGSSLIIR----DSRFAIRYDT 91
GG+++L C+ Y + W++ +K E + IS+G + I RF I D
Sbjct: 15 GGSLKLSCAASGFTFSSYGMSWVRQTPDKRLEWVATISSGGNYIYYPDTVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A +T L + ++ D Y C
Sbjct: 75 AKNTLYLQMSSLKSEDTAMYYC 96
>pdb|1W72|L Chain L, Crystal Structure Of Hla-A1:mage-A1 In Complex With Fab-
Hyb3
pdb|1W72|M Chain M, Crystal Structure Of Hla-A1:mage-A1 In Complex With Fab-
Hyb3
Length = 210
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 30/139 (21%), Positives = 54/139 (38%), Gaps = 7/139 (5%)
Query: 187 SILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVPKPRLGQALQ 240
+ L I ++ D YYC + G GT + + + AP +T+ P +
Sbjct: 70 ATLTISRVEAGDEADYYCQVWDSRTDHWVFGGGTDLTVLGQPKAAPSVTLFPPSSEELQA 129
Query: 241 YDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQ 299
L C + + P A+ V K D V + S + + + + + +
Sbjct: 130 NKATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKS 189
Query: 300 YGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 190 HRSYSCQVTHEGSTVEKTV 208
>pdb|1KEN|L Chain L, Influenza Virus Hemagglutinin Complexed With An Antibody
That Prevents The Hemagglutinin Low Ph Fusogenic
Transition
pdb|1KEN|U Chain U, Influenza Virus Hemagglutinin Complexed With An Antibody
That Prevents The Hemagglutinin Low Ph Fusogenic
Transition
Length = 213
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 53/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED +Y+C G GT+ I + AP +++ P Q
Sbjct: 74 LTISSLEAEDGASYFCHQWETFPRTFGGGTKLEIK-RADAAPTVSIFPPSKIQLTSGGAS 132
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 133 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 177
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 178 STLTLTKDEYERHNSYTCEATHKTSTS 204
>pdb|2EH8|L Chain L, Crystal Structure Of The Complex Of Humanized Kr127 Fab
And Pres1 Peptide Epitope
Length = 218
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 33/117 (28%), Positives = 48/117 (41%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYCV G GT+ I V AP + + P Q
Sbjct: 78 LKISRVEAEDVGVYYCVQGTHFPQTFGGGTKVEIKRTVA-APSVFIFPPSDEQLKSGTAS 136
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|2R4R|H Chain H, Crystal Structure Of The Human Beta2 Adrenoceptor
pdb|2R4S|H Chain H, Crystal Structure Of The Human Beta2 Adrenoceptor
pdb|3KJ6|H Chain H, Crystal Structure Of A Methylated Beta2 Adrenergic
Receptor- Fab Complex
Length = 217
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 17/69 (24%), Positives = 29/69 (42%), Gaps = 1/69 (1%)
Query: 187 SILKIPQITKEDRGTYYCVAENGV-GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
+ +++ +T ED Y+CV G G+GT ++ P + P + L
Sbjct: 79 AYMQLSSLTSEDSAVYFCVRGFGYWGQGTTLTVSSAKTTPPSVYPLAPGSAAQTNSAVTL 138
Query: 246 ECHVEAYPP 254
C V+ Y P
Sbjct: 139 GCLVKGYFP 147
>pdb|1F90|H Chain H, Fab Fragment Of Monoclonal Antibody (Lnkb-2) Against Human
Interleukin-2 In Complex With Antigenic Peptide
pdb|1F8T|H Chain H, Fab (Lnkb-2) Of Monoclonal Antibody, Crystal Structure
Length = 220
Score = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 29/73 (39%), Gaps = 6/73 (8%)
Query: 188 ILKIPQITKEDRGTYYCVAENGV------GKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L++ +T ED TYYC + + G+GT ++ P + P
Sbjct: 80 FLQLNSVTTEDTATYYCASYDDYTWFTYWGQGTLVTVSAAKTTPPSVFPLAPGSAAQTNS 139
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 140 MVTLGCLVKGYFP 152
>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 = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 24/90 (26%), Positives = 38/90 (42%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLP---ISTGSSLIIRD--S 83
S ++K G +V++ C S DY + W++ + E + TGS D
Sbjct: 7 SGSELKKPGASVKVSCKASGYTFTDYSMRWVRQAPGQGLEWMGWINTETGSPTYADDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RF DT+ ST L + ++ D Y C
Sbjct: 67 RFVFSLDTSVSTAYLQISSLKAEDTAVYYC 96
>pdb|2BRR|H Chain H, Complex Of The Neisserial Pora P1.4 Epitope Peptide And
Two Fab-Fragments (Antibody Mn20b9.34)
pdb|2BRR|Y Chain Y, Complex Of The Neisserial Pora P1.4 Epitope Peptide And
Two Fab-Fragments (Antibody Mn20b9.34)
Length = 225
Score = 29.3 bits (64), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 31/79 (39%), Gaps = 11/79 (13%)
Query: 187 SILKIPQITKEDRGTYYCV-----------AENGVGKGTRRNIAVEVEFAPVITVPKPRL 235
+ L+I + ED TY+C A + G+GT ++ AP + P
Sbjct: 79 AYLQINNLKNEDTATYFCARDYYGSTYPYYAMDYWGQGTTVTVSSAKTTAPSVYPLAPVC 138
Query: 236 GQALQYDMDLECHVEAYPP 254
G + L C V+ Y P
Sbjct: 139 GDTTGSSVTLGCLVKGYFP 157
>pdb|1RZ8|A Chain A, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 17b
pdb|1RZ8|C Chain C, Crystal Structure Of Human Anti-Hiv-1 Gp120-Reactive
Antibody 17b
pdb|1RZJ|L Chain L, Hiv-1 Hxbc2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1RZK|L Chain L, Hiv-1 Yu2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1YYL|L Chain L, Crystal Structure Of Cd4m33, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|1YYL|Q Chain Q, Crystal Structure Of Cd4m33, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|1YYM|L Chain L, Crystal Structure Of F23, A Scorpion-Toxin Mimic Of Cd4,
In Complex With Hiv-1 Yu2 Gp120 Envelope Glycoprotein
And Anti-Hiv-1 Antibody 17b
pdb|1YYM|Q Chain Q, Crystal Structure Of F23, A Scorpion-Toxin Mimic Of Cd4,
In Complex With Hiv-1 Yu2 Gp120 Envelope Glycoprotein
And Anti-Hiv-1 Antibody 17b
pdb|2I5Y|L Chain L, Crystal Structure Of Cd4m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I5Y|Q Chain Q, Crystal Structure Of Cd4m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I60|L Chain L, Crystal Structure Of [phe23]m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I60|Q Chain Q, Crystal Structure Of [phe23]m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2NXY|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein(S334a) Complexed With
Cd4 And Antibody 17b
pdb|2NXZ|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (t257s, S334a, S375w)
Complexed With Cd4 And Antibody 17b
pdb|2NY0|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (M95w, W96c, T257s,
V275c, S334a, S375w, A433m) Complexed With Cd4 And
Antibody 17b
pdb|2NY1|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (I109c, T257s, S334a,
S375w, Q428c) Complexed With Cd4 And Antibody 17b
pdb|2NY2|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (T123c, T257s, S334a,
S375w, G431c) Complexed With Cd4 And Antibody 17b
pdb|2NY3|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (K231c, T257s, E267c,
S334a, S375w) Complexed With Cd4 And Antibody 17b
pdb|2NY4|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (K231c, T257s, E268c,
S334a, S375w) Complexed With Cd4 And Antibody 17b
pdb|2NY5|L Chain L, Hiv-1 Gp120 Envelope Glycoprotein (m95w, W96c, I109c,
T257s, V275c, S334a, S375w, Q428c, A433m) Complexed With
Cd4 And Antibody 17b
pdb|2NY6|C Chain C, Hiv-1 Gp120 Envelope Glycoprotein (m95w, W96c, I109c,
T123c, T257s, V275c,s334a, S375w, Q428c, G431c)
Complexed With Cd4 And Antibody 17b
Length = 214
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 46/190 (24%), Positives = 70/190 (36%), Gaps = 28/190 (14%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPT----GGSI-------- 183
++ S +L VS G+ L C A + ++W ++ P G S
Sbjct: 2 IVMTQSPATLSVSPGERATLSCRASESVSSDLAWYQQKPGQAPRLLIYGASTRATGVPAR 61
Query: 184 YRGS------ILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVEFAPVITVP 231
+ GS L I + ED YYC N G+GTR I V AP + +
Sbjct: 62 FSGSGSGAEFTLTISSLQSEDFAVYYCQQYNNWPPRYTFGQGTRLEIKRTVA-APSVFIF 120
Query: 232 KPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTI 290
P Q + C + YP A V K D + + N S++ + D T +
Sbjct: 121 PPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLS 178
Query: 291 RVITIEKRQY 300
+T+ K Y
Sbjct: 179 STLTLSKADY 188
>pdb|4FQ1|L Chain L, Crystal Structure Of Pgt121 Fab
pdb|4FQC|L Chain L, Crystal Structure Of Pgt121 Fab Bound To A Complex-Type
Sialylated N- Glycan
Length = 211
Score = 28.9 bits (63), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 30/140 (21%), Positives = 55/140 (39%), Gaps = 8/140 (5%)
Query: 187 SILKIPQITKEDRGTYYCVAENG-------VGKGTRRNIAVEVEFAPVITVPKPRLGQAL 239
+ L I + D YYC + G GT + + + AP +T+ P +
Sbjct: 66 ATLTITSVEAGDEADYYCHIWDSRVPTKWVFGGGTTLTVLGQPKAAPSVTLFPPSSEELQ 125
Query: 240 QYDMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKR 298
L C + + P A+ V K D+ V + + S + + + + + +
Sbjct: 126 ANKATLVCLISDFYPGAVTVAWKADSSPVKAGVETTTPSKQSNNKYAASSYLSLTPEQWK 185
Query: 299 QYGSYICRAANKLGTSEKTV 318
+ SY C+ ++ T EKTV
Sbjct: 186 SHRSYSCQVTHEGSTVEKTV 205
>pdb|3AUV|A Chain A, Predicting Amino Acid Preferences In The Complementarity
Determining Regions Of An Antibody-Antigen Recognition
Interface
pdb|3AUV|B Chain B, Predicting Amino Acid Preferences In The Complementarity
Determining Regions Of An Antibody-Antigen Recognition
Interface
pdb|3AUV|C Chain C, Predicting Amino Acid Preferences In The Complementarity
Determining Regions Of An Antibody-Antigen Recognition
Interface
pdb|3AUV|D Chain D, Predicting Amino Acid Preferences In The Complementarity
Determining Regions Of An Antibody-Antigen Recognition
Interface
pdb|3AUV|E Chain E, Predicting Amino Acid Preferences In The Complementarity
Determining Regions Of An Antibody-Antigen Recognition
Interface
pdb|3AUV|F Chain F, Predicting Amino Acid Preferences In The Complementarity
Determining Regions Of An Antibody-Antigen Recognition
Interface
Length = 276
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 36/86 (41%), Gaps = 7/86 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPIST--GSSLIIRDS---RFAIRYDT 91
GG++ L C+ DY + W++ K E + T G DS RF I DT
Sbjct: 149 GGSLRLSCAASGFTISDYWIHWVRQAPGKCLEWVAGITPAGGYTYYADSVKGRFTISADT 208
Query: 92 ASSTYTLLVKDIQETDAGYYRCQVII 117
+ +T L + ++ D Y C +
Sbjct: 209 SKNTAYLQMNSLRAEDTAVYYCARFV 234
>pdb|3QQ9|L Chain L, Crystal Structure Of Fab Fragment Of Anti-Human Rsv
(Respiratory Syncytial Virus) F Protein Mab 101f
pdb|3QQ9|C Chain C, Crystal Structure Of Fab Fragment Of Anti-Human Rsv
(Respiratory Syncytial Virus) F Protein Mab 101f
Length = 218
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 42/156 (26%), Positives = 62/156 (39%), Gaps = 15/156 (9%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYC--VAE 207
GQP +L +A +P I R TG L I + +ED TYYC + E
Sbjct: 45 GQPPKLLIYAASNPESGIPARF-------TGSGSGTDFTLNIHPVEEEDAATYYCQQIIE 97
Query: 208 N--GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDT 264
+ G GT+ I V AP + + P Q + C + YP A V K D
Sbjct: 98 DPWTFGGGTKLEIKRTVA-APSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD- 155
Query: 265 QQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ + N S++ + D T + +T+ K Y
Sbjct: 156 NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 190
>pdb|3QIB|C Chain C, Crystal Structure Of The 2b4 Tcr In Complex With MccI-Ek
pdb|3QJF|A Chain A, Crystal Structure Of The 2b4 Tcr
pdb|3QJF|C Chain C, Crystal Structure Of The 2b4 Tcr
Length = 207
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 21/72 (29%), Positives = 27/72 (37%), Gaps = 2/72 (2%)
Query: 168 SWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENGVGKGTRRNI--AVEVEFA 225
S +EN + T S S L I ED GTY+C A G + +
Sbjct: 53 SGTKENGRLKSTFNSKESYSTLHIRDAQLEDSGTYFCAALRATGGNNKLTFGQGTVLSVI 112
Query: 226 PVITVPKPRLGQ 237
P I P P + Q
Sbjct: 113 PDIQNPDPAVYQ 124
>pdb|1S5I|H Chain H, Fab (Lnkb-2) Of Monoclonal Antibody To Human
Interleukin-2, Crystal Structure
Length = 220
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 18/73 (24%), Positives = 29/73 (39%), Gaps = 6/73 (8%)
Query: 188 ILKIPQITKEDRGTYYCVAENGV------GKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
L++ +T ED TYYC + + G+GT ++ P + P
Sbjct: 80 FLQLNSVTTEDTATYYCASYDDYTWFTYWGQGTLVTVSAAKTTPPSVYPLAPGSAAQTNS 139
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 140 MVTLGCLVKGYFP 152
>pdb|4G6K|L Chain L, Crystal Structure Of The Therapeutic Antibody Binding
Fragment Of Gevokizumab In Its Unbound State
Length = 212
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 46/183 (25%), Positives = 73/183 (39%), Gaps = 26/183 (14%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
ST SL S G V + C A + +SW ++ + L +G S + GS
Sbjct: 7 STSSLSASVGDRVTITCRASQDISNYLSWYQQKPGKAVKLLIYYTSKLHSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + +ED TY+C+ + G+GT+ I V AP + + P Q
Sbjct: 67 SGTDYTLTISSLQQEDFATYFCLQGKMLPWTFGQGTKLEIKRTVA-APSVFIFPPSDEQL 125
Query: 239 LQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK 297
+ C + YP A V K D + + N S++ + D T + +T+ K
Sbjct: 126 KSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSK 183
Query: 298 RQY 300
Y
Sbjct: 184 ADY 186
>pdb|1VHP|A Chain A, Vh-P8, Nmr
Length = 117
Score = 28.9 bits (63), Expect = 4.6, Method: Composition-based stats.
Identities = 22/82 (26%), Positives = 35/82 (42%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPISTGS--SLIIRDS---RFAIRYDT 91
GG++ L C+ Y + W++ K E + +GS S DS RF I D
Sbjct: 15 GGSLRLSCAASGFTFSSYAMSWVRQAPGKEREIVSAVSGSGGSTYYADSVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
+ +T L + ++ D Y C
Sbjct: 75 SKNTLYLQMNSLRAEDTAVYYC 96
>pdb|3VE0|A Chain A, Crystal Structure Of Sudan Ebolavirus Glycoprotein (Strain
Boniface) Bound To 16f6
Length = 220
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ-YAQDY-PVIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIRYDT 91
GG+++L C+ +A +Y + W++ + K E + S G + D+ RF I D
Sbjct: 15 GGSLKLSCAASGFAFNYYDMFWVRQNTEKRLEWVAYINSGGGNTYYPDTVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A T L + ++ D Y C
Sbjct: 75 AKKTLFLQMSSLRSEDTAMYYC 96
>pdb|4G6M|L Chain L, Crystal Strucure Of Human Il-1beta In Complex With
Therapeutic Antibody Binding Fragment Of Gevokizumab
Length = 213
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 46/183 (25%), Positives = 73/183 (39%), Gaps = 26/183 (14%)
Query: 141 STRSLVVSEGQPVQLECFAGGHPTPRISWRREN-----------NAILPTG-GSIYRGS- 187
ST SL S G V + C A + +SW ++ + L +G S + GS
Sbjct: 7 STSSLSASVGDRVTITCRASQDISNYLSWYQQKPGKAVKLLIYYTSKLHSGVPSRFSGSG 66
Query: 188 -----ILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQA 238
L I + +ED TY+C+ + G+GT+ I V AP + + P Q
Sbjct: 67 SGTDYTLTISSLQQEDFATYFCLQGKMLPWTFGQGTKLEIKRTVA-APSVFIFPPSDEQL 125
Query: 239 LQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK 297
+ C + YP A V K D + + N S++ + D T + +T+ K
Sbjct: 126 KSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSK 183
Query: 298 RQY 300
Y
Sbjct: 184 ADY 186
>pdb|3QYC|A Chain A, Structure Of A Dimeric Anti-Her2 Single Domain Antibody
pdb|3QYC|B Chain B, Structure Of A Dimeric Anti-Her2 Single Domain Antibody
Length = 146
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 36/82 (43%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQYAQ--DYPVIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIRYDT 91
GG++ L C+ + Y + W++ K E + S+G S DS RF I D
Sbjct: 17 GGSLRLSCAASGVRLSAYDMAWVRQAPGKGLEWVSAISSSGGSTYYADSVKGRFTISRDN 76
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
+ +T L + ++ D Y C
Sbjct: 77 SKNTVYLQMNSLRAEDTAVYYC 98
>pdb|3S88|H Chain H, Crystal Structure Of Sudan Ebolavirus Glycoprotein (Strain
Gulu) Bound To 16f6
Length = 220
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 38/82 (46%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ-YAQDY-PVIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIRYDT 91
GG+++L C+ +A +Y + W++ + K E + S G + D+ RF I D
Sbjct: 15 GGSLKLSCAASGFAFNYYDMFWVRQNTEKRLEWVAYINSGGGNTYYPDTVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A T L + ++ D Y C
Sbjct: 75 AKKTLFLQMSSLRSEDTAMYYC 96
>pdb|1MF2|L Chain L, Anti Hiv1 Protease Fab Complex
pdb|1MF2|M Chain M, Anti Hiv1 Protease Fab Complex
Length = 215
Score = 28.9 bits (63), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ++D Y+C V G GT+ I + AP +++ P Q
Sbjct: 77 LHIHPMEEDDSAMYFCQQSKEVPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3U1S|L Chain L, Crystal Structure Of Human Fab Pgt145, A Broadly Reactive
And Potent Hiv-1 Neutralizing Antibody
Length = 239
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 51/117 (43%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCV----AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ +D GTYYC+ + G+GT+ I V AP + + P Q
Sbjct: 98 LKISRVESDDVGTYYCMQGLHSPWTFGQGTKVEIKRTVA-APSVFIFPPSDEQLKSGTAS 156
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 157 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 211
>pdb|2HRP|L Chain L, Antigen-Antibody Complex
pdb|2HRP|M Chain M, Antigen-Antibody Complex
Length = 218
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ++D Y+C V G GT+ I + AP +++ P Q
Sbjct: 77 LHIHPMEEDDSAMYFCQQSKEVPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|3CVH|L Chain L, How Tcr-Like Antibody Recognizes Mhc-Bound Peptide
pdb|3CVH|R Chain R, How Tcr-Like Antibody Recognizes Mhc-Bound Peptide
pdb|3CVI|L Chain L, How Tcr-Like Antibody Recognizes Mhc-Bound Peptide
Length = 209
Score = 28.9 bits (63), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 33/157 (21%), Positives = 56/157 (35%), Gaps = 37/157 (23%)
Query: 179 TGGSIYRGSILKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPR 234
+G + L I + ED TYYC G GT+ + + AP +++ P
Sbjct: 62 SGSGSRKDYTLIITSLQTEDVATYYCQQYWSTPLTFGAGTKLELK-RADAAPTVSIFPPS 120
Query: 235 LGQALQYDMDLECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSIS 277
Q + C + + P I W +D++ + YS+S
Sbjct: 121 SEQLTSGGASVVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS 175
Query: 278 HFATADEFTDTTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 176 ----------STLTLTKDEYERHNSYTCEATHKTSTS 202
>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 = 28.9 bits (63), Expect = 5.0, Method: Composition-based stats.
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 73 STGSSLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQ 114
ST I R+ + S +++L + D++ D+G Y+CQ
Sbjct: 43 STNEQSISIGGRYVETVNKGSKSFSLRISDLRVEDSGTYKCQ 84
>pdb|2A77|H Chain H, Anti-cocaine Antibody 7.5.21, Crystal Form Ii
Length = 222
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPISTGSSLIIR-----DSRFAIRYDT 91
GG++ L C+ ++Y + W++ K E + +G+SL RF I D
Sbjct: 15 GGSLRLSCAASGFTFRNYGMSWVRQTPEKRLEWVAAISGNSLYTSYPDSVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A + L + ++ D Y C
Sbjct: 75 AKNNLYLQMSSLRSEDTALYFC 96
>pdb|1YPZ|F Chain F, Immune Receptor
pdb|1YPZ|H Chain H, Immune Receptor
Length = 230
Score = 28.9 bits (63), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 36/155 (23%), Positives = 66/155 (42%), Gaps = 22/155 (14%)
Query: 187 SILKIPQITKEDRGTYYCVAENG-------VGKGTR-----RNIAVEVEFAPVITVPKPR 234
SIL I + +ED YYC G +GT+ + ++ + +P T+ P
Sbjct: 79 SILTIYSLEEEDEAIYYCSYGEGSSGFHKVFAEGTKLIVIPSDKRLDADISPKPTIFLPS 138
Query: 235 LGQA-LQYDMDLECHVEAYPPPAI--VWIKEDTQQVLTNNQHYSISHFATADEFTDTTI- 290
+ + L C +EA+ P I W ++D +L + + ++ T +F+ T+
Sbjct: 139 VAETNLHKTGTYLCLLEAFFPDVIRVYWKEKDGNTILDSQEGDTLKTNDTYMKFSWLTVP 198
Query: 291 -RVITIEKRQYGSYICRAANKLGTSEKTVELFESI 324
R + E R I + N G +++ + F SI
Sbjct: 199 ERAMGKEHR----CIVKHENNKGGADQAI-FFPSI 228
>pdb|3O2V|L Chain L, Crystal Structure Of 1e9 Phel89serLEUH47TRPMETH100BPHE, AN
Engineered Diels-Alderase Fab With Modified Specificity
And Catalytic Activity
pdb|3O2W|L Chain L, Crystal Structure Of The 1e9 Phel89serLEUH47TRPMETH100BPHE
FAB IN Complex With A 39a11 Transition State Analog
Length = 219
Score = 28.9 bits (63), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 32/118 (27%), Positives = 48/118 (40%), Gaps = 8/118 (6%)
Query: 188 ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
ILKI ++ ED G Y+C G GT+ I V AP + + P Q
Sbjct: 77 ILKISRVEAEDLGVYFCSQSTHFFPTFGGGTKLEIKRTVA-APSVFIFPPSDEQLKSGTA 135
Query: 244 DLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 136 SVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|1XFP|A Chain A, Crystal Structure Of The Cdr2 Germline Reversion Mutant Of
Cab-lys3 In Complex With Hen Egg White Lysozyme
Length = 142
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 25/82 (30%), Positives = 35/82 (42%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ-YAQD-YPVIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIRYDT 91
GG++ L C+ Y Y + W + K E + S G S DS RF I D
Sbjct: 15 GGSLRLSCAASGYTIGPYCMGWFRQAPGKEREGVAAINSGGGSTYYADSVKGRFTISQDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A +T LL+ ++ D Y C
Sbjct: 75 AKNTVYLLMNSLEPEDTAIYYC 96
>pdb|3E8U|H Chain H, Crystal Structure And Thermodynamic Analysis Of Diagnostic
Fab 106.3 Complexed With Bnp 5-13 (C10a) Reveal Basis Of
Selective Molecular Recognition
Length = 217
Score = 28.9 bits (63), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 41/90 (45%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLP---ISTGSSLIIRD--S 83
S +++ G TV++ C S Y + W+K +K + + TG + D
Sbjct: 7 SGPELRKPGETVKISCKGSGYTFTHYGINWVKQTPSKDLKWMGWINTHTGEPIYADDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA +T+++T L + ++ D G Y C
Sbjct: 67 RFAFSLETSANTAYLQINNLNNGDMGTYFC 96
>pdb|1A6T|B Chain B, Fab Fragment Of Mab1-Ia Monoclonal Antibody To Human
Rhinovirus 14 Nim-Ia Site
pdb|1A6T|D Chain D, Fab Fragment Of Mab1-Ia Monoclonal Antibody To Human
Rhinovirus 14 Nim-Ia Site
Length = 217
Score = 28.9 bits (63), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 5/71 (7%)
Query: 189 LKIPQITKEDRGTYYCVAENGV-----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
+++ +T ED YYC + G+GT ++ P + P G +
Sbjct: 81 MELGSLTSEDSAVYYCARRDDYYFDFWGQGTSLTVSSAKTTPPSVYPLAPVCGGTTGSSV 140
Query: 244 DLECHVEAYPP 254
L C V+ Y P
Sbjct: 141 TLGCLVKGYFP 151
>pdb|3FO1|L Chain L, Crystal Structure Of Hapten Complex Of Catalytic
Elimination Antibody 13g5 (Glu(L39)ala Mutant)
pdb|3FO1|A Chain A, Crystal Structure Of Hapten Complex Of Catalytic
Elimination Antibody 13g5 (Glu(L39)ala Mutant)
Length = 219
Score = 28.9 bits (63), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 49/117 (41%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + + G GT+ I V AP + + P Q
Sbjct: 78 LKINRVEAEDLGVYYCFQGSHLPPTFGGGTKLEIKRTVA-APSVFIFPPSDEQLKSGTAS 136
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|2VXV|L Chain L, Crystal Structure Of Human Igg Abt-325 Fab Fragment
Length = 214
Score = 28.9 bits (63), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 43/189 (22%), Positives = 67/189 (35%), Gaps = 27/189 (14%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP----------------- 178
++ S +L VS G+ L C A + ++W ++ P
Sbjct: 2 IVMTQSPATLSVSPGERATLSCRASESISSNLAWYQQKPGQAPRLFIYTASTRATDIPAR 61
Query: 179 -TGGSIYRGSILKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPK 232
+G L I + ED YYC N G+GTR I V AP + +
Sbjct: 62 FSGSGSGTEFTLTISSLQSEDFAVYYCQQYNNWPSITFGQGTRLEIKRTVA-APSVFIFP 120
Query: 233 PRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIR 291
P Q + C + YP A V K D + + N S++ + D T +
Sbjct: 121 PSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSS 178
Query: 292 VITIEKRQY 300
+T+ K Y
Sbjct: 179 TLTLSKADY 187
>pdb|3FO2|L Chain L, Crystal Structure Of Hapten Complex Of Catalytic
Elimination Antibody 13g5 (Glu(L39)gln Mutant)
pdb|3FO2|A Chain A, Crystal Structure Of Hapten Complex Of Catalytic
Elimination Antibody 13g5 (Glu(L39)gln Mutant)
Length = 219
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 49/117 (41%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + + G GT+ I V AP + + P Q
Sbjct: 78 LKINRVEAEDLGVYYCFQGSHLPPTFGGGTKLEIKRTVA-APSVFIFPPSDEQLKSGTAS 136
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|2R56|L Chain L, Crystal Structure Of A Recombinant Ige Fab Fragment In
Complex With Bovine Beta-Lactoglobulin Allergen
pdb|2R56|M Chain M, Crystal Structure Of A Recombinant Ige Fab Fragment In
Complex With Bovine Beta-Lactoglobulin Allergen
Length = 211
Score = 28.9 bits (63), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 46/188 (24%), Positives = 71/188 (37%), Gaps = 26/188 (13%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPT----------GG--SI 183
++ S SL S G V + C A + R++W ++ P G S
Sbjct: 2 IVMTQSPSSLSASVGDRVTITCRASQGISSRLAWYQQKPGKAPKLLIYAASSLQSGVPSR 61
Query: 184 YRGS------ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKP 233
+ GS L I + ED TYYC + G+GT+ I V AP + + P
Sbjct: 62 FSGSGSGTEFTLTISSLQPEDFATYYCQQYHSYPWTFGQGTKLEIKRTVA-APSVFIFPP 120
Query: 234 RLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRV 292
Q + C + YP A V K D + + N S++ + D T +
Sbjct: 121 SDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSST 178
Query: 293 ITIEKRQY 300
+T+ K Y
Sbjct: 179 LTLSKADY 186
>pdb|3SE9|L Chain L, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc- Pg04 In Complex With Hiv-1 Gp120
pdb|4I3R|L Chain L, Crystal Structure Of The Outer Domain Of Hiv-1 Gp120 In
Complex With Vrc-pg04 Space Group P3221
pdb|4I3S|L Chain L, Crystal Structure Of The Outer Domain Of Hiv-1 Gp120 In
Complex With Vrc-pg04 Space Group P21
Length = 208
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 40/152 (26%), Positives = 58/152 (38%), Gaps = 11/152 (7%)
Query: 150 GQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCVAENG 209
GQP +L FA I R +G + L I ++ ED YYC
Sbjct: 39 GQPPKLLIFATSKRASGIPDRF-------SGSQFGKQYTLTITRMEPEDFARYYCQQLEF 91
Query: 210 VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVL 268
G+GTR I V AP + + P Q + C + YP A V K D +
Sbjct: 92 FGQGTRLEIRRTVA-APSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQ 149
Query: 269 TNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ N S++ + D T + +T+ K Y
Sbjct: 150 SGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 180
>pdb|3FO0|L Chain L, Crystal Structure Of Hapten Complex Of Catalytic
Elimination Antibody 13g5 (Wild-Type)
Length = 219
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 49/117 (41%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC + + G GT+ I V AP + + P Q
Sbjct: 78 LKINRVEAEDLGVYYCFQGSHLPPTFGGGTKLEIKRTVA-APSVFIFPPSDEQLKSGTAS 136
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|3DVG|A Chain A, Crystal Structure Of K63-Specific Fab Apu.3a8 Bound To
K63-Linked Di- Ubiquitin
Length = 217
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 46/198 (23%), Positives = 73/198 (36%), Gaps = 35/198 (17%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A + ++W ++ P + S
Sbjct: 2 DIQMTQSP-------SSLSASVGDRVTITCRASQSVSSAVAWYQQKPGKAPKLLIYSARS 54
Query: 183 IYRG-------------SILKIPQITKEDRGTYYCVAENG------VGKGTRRNIAVEVE 223
+Y G L I + ED TYYC + G+GT+ I V
Sbjct: 55 LYSGVPSRFSGSRSGTDFTLTISSLQPEDFATYYCQQYSSYSSLFTFGQGTKVEIKRTVA 114
Query: 224 FAPVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATA 282
AP + + P Q + C + YP A V K D + + N S++ +
Sbjct: 115 -APSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSK 172
Query: 283 DEFTDTTIRVITIEKRQY 300
D T + +T+ K Y
Sbjct: 173 DS-TYSLSSTLTLSKADY 189
>pdb|2ESV|E Chain E, Structure Of The Hla-E-VmaprtlilKK50.4 TCR COMPLEX
Length = 240
Score = 28.9 bits (63), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 22/70 (31%), Positives = 32/70 (45%), Gaps = 12/70 (17%)
Query: 173 NNAILP--TGGSIYRGSILKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVE-- 223
NN L TGG+ S LK+ ED G Y+C + G GTR + +++
Sbjct: 60 NNRFLAERTGGTY---STLKVQPAELEDSGVYFCASSQDRDTQYFGPGTRLTVLEDLKNV 116
Query: 224 FAPVITVPKP 233
F P + V +P
Sbjct: 117 FPPEVAVFEP 126
>pdb|2A1W|H Chain H, Anti-Cocaine Antibody 7.5.21, Crystal Form I
pdb|2A1W|I Chain I, Anti-Cocaine Antibody 7.5.21, Crystal Form I
Length = 225
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPISTGSSLIIR-----DSRFAIRYDT 91
GG++ L C+ ++Y + W++ K E + +G+SL RF I D
Sbjct: 15 GGSLRLSCAASGFTFRNYGMSWVRQTPEKRLEWVAAISGNSLYTSYPDSVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A + L + ++ D Y C
Sbjct: 75 AKNNLYLQMSSLRSEDTALYFC 96
>pdb|1LO0|Y Chain Y, Catalytic Retro-Diels-Alderase Transition State Analogue
Complex
pdb|1LO0|H Chain H, Catalytic Retro-Diels-Alderase Transition State Analogue
Complex
pdb|1LO2|Y Chain Y, Retro-Diels-Alderase Catalytic Antibody
pdb|1LO2|H Chain H, Retro-Diels-Alderase Catalytic Antibody
pdb|1LO3|Y Chain Y, Retro-Diels-Alderase Catalytic Antibody: Product Analogue
pdb|1LO3|H Chain H, Retro-Diels-Alderase Catalytic Antibody: Product Analogue
Length = 220
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 22/81 (27%), Positives = 37/81 (45%), Gaps = 6/81 (7%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLP-ISTGSSLIIRDS---RFAIRYDTA 92
GG+++L C+ ++Y + W++ K E + IS G + DS RF I D A
Sbjct: 15 GGSLKLSCAASGFSFRNYGMSWVRQTPEKRLEWVASISYGGLIYYPDSIKGRFTISRDIA 74
Query: 93 SSTYTLLVKDIQETDAGYYRC 113
+ L + ++ D Y C
Sbjct: 75 QNILYLQMSSLRSEDTAMYHC 95
>pdb|4DCQ|B Chain B, Crystal Structure Of The Fab Fragment Of 3b5h10, An
Antibody-Specific For Extended Polyglutamine Repeats
(Orthorhombic Form)
Length = 218
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 43/90 (47%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLP-ISTGSSL--IIRD--S 83
S ++K G TV++ C S Y + W+K K E + I+T S + + D
Sbjct: 7 SGPELKKPGETVKISCKASGYTFTTYGMSWVKQAPGKGFEWMGWINTYSGVPTYVDDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA +T++ST L + +++ D Y C
Sbjct: 67 RFAFSLETSASTAYLQINNLKNEDTAVYFC 96
>pdb|3U46|L Chain L, Ch04hCH02L P212121
pdb|3U46|B Chain B, Ch04hCH02L P212121
pdb|3U4B|L Chain L, Ch04hCH02L FAB P4
Length = 215
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 44/189 (23%), Positives = 70/189 (37%), Gaps = 27/189 (14%)
Query: 136 VISDNSTRSLVVSEGQPVQLECFAGGHPTPR-ISWRRENNAILP---------------- 178
++ S +L VS G+ L C A + PR +W ++ P
Sbjct: 2 IVLTQSPATLSVSPGERATLSCRASQNVHPRYFAWYQQKRGQSPRLLIHSGSTRAAGIAD 61
Query: 179 --TGGSIYRGSILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPK 232
+GG L I ++ ED Y+C G G+GTR + V AP + +
Sbjct: 62 RFSGGGSGMHFTLTITRVEPEDFAVYFCQQYGGSPYTFGQGTRVELRRTVA-APSVFIFP 120
Query: 233 PRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIR 291
P Q + C + YP A V K D + + N S++ + D T +
Sbjct: 121 PSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSS 178
Query: 292 VITIEKRQY 300
+T+ K Y
Sbjct: 179 TLTLSKADY 187
>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 = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 39/82 (47%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQYAQ--DYPVIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIRYDT 91
GG++ L C + D+ + W++ + + L + S G+ DS RF I D
Sbjct: 15 GGSLRLSCEGSGFKFGDHGIHWVRQAPGEGLQWLTVISSDGTDERYTDSVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
+ +T +L + +++ D G Y C
Sbjct: 75 SKNTMSLQMNNLRPEDMGLYYC 96
>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 = 28.5 bits (62), Expect = 5.9, Method: Composition-based stats.
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 73 STGSSLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQ 114
ST I R+ + S +++L + D++ D+G Y+CQ
Sbjct: 43 STNEQSISIGGRYVETVNKGSKSFSLRISDLRVEDSGTYKCQ 84
>pdb|2AI0|H Chain H, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|I Chain I, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|J Chain J, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
pdb|2AI0|K Chain K, Anti-Cocaine Antibody 7.5.21, Crystal Form Iii
Length = 224
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 20/82 (24%), Positives = 35/82 (42%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPISTGSSLIIR-----DSRFAIRYDT 91
GG++ L C+ ++Y + W++ K E + +G+SL RF I D
Sbjct: 15 GGSLRLSCAASGFTFRNYGMSWVRQTPEKRLEWVAAISGNSLYTSYPDSVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A + L + ++ D Y C
Sbjct: 75 AKNNLYLQMSSLRSEDTALYFC 96
>pdb|2I26|N Chain N, Crystal Structure Analysis Of The Nurse Shark New Antigen
Receptor Ancestral Variable Domain In Complex With
Lysozyme
pdb|2I26|O Chain O, Crystal Structure Analysis Of The Nurse Shark New Antigen
Receptor Ancestral Variable Domain In Complex With
Lysozyme
pdb|2I26|P Chain P, Crystal Structure Analysis Of The Nurse Shark New Antigen
Receptor Ancestral Variable Domain In Complex With
Lysozyme
pdb|2I27|N Chain N, Crystal Structure Analysis Of The Nurse Shark New Antigen
Receptor Ancestral Variable Domain
pdb|2I27|O Chain O, Crystal Structure Analysis Of The Nurse Shark New Antigen
Receptor Ancestral Variable Domain
Length = 121
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 23/42 (54%)
Query: 73 STGSSLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQ 114
ST I + R+ ++ S +++L + D+ D+G YRC+
Sbjct: 43 STNEESISKGGRYVETVNSGSKSFSLRINDLTVEDSGTYRCK 84
>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 = 28.5 bits (62), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 36/86 (41%), Gaps = 7/86 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPIST--GSSLIIRDS---RFAIRYDT 91
GG++ L C+ DY + W++ K E + T G DS RF I DT
Sbjct: 15 GGSLRLSCAASGFTISDYWIHWVRQAPGKGLEWVAGITPAGGYTYYADSVKGRFTISADT 74
Query: 92 ASSTYTLLVKDIQETDAGYYRCQVII 117
+ +T L + ++ D Y C +
Sbjct: 75 SKNTAYLQMNSLRAEDTAVYYCARFV 100
>pdb|1MCW|W Chain W, Three-Dimensional Structure Of A Hybrid Light Chain Dimer.
Protein Engineering Of A Binding Cavity
Length = 216
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 31/137 (22%), Positives = 59/137 (43%), Gaps = 8/137 (5%)
Query: 189 LKIPQITKEDRGTYYCV-----AENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
L I + +D Y+C+ A G GT+ + + + P +T+ P +
Sbjct: 75 LTISGLLPDDEADYFCMSYLSDASFVFGSGTKVTVLRQPKANPTVTLFPPSSEELQANKA 134
Query: 244 DLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEK-RQYG 301
L C + + P A+ V K D V + S + +++ ++ +T E+ + +
Sbjct: 135 TLVCLISDFYPGAVTVAWKADGSPVEAGVETTKPSK-QSNNKYAASSYLSLTPEQWKSHR 193
Query: 302 SYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 194 SYSCQVTHEGSTVEKTV 210
>pdb|1A4J|L Chain L, Diels Alder Catalytic Antibody Germline Precursor
pdb|1A4J|A Chain A, Diels Alder Catalytic Antibody Germline Precursor
Length = 217
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 48/117 (41%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G Y+C V G GT+ I V AP + + P Q
Sbjct: 78 LKISRVEAEDLGVYFCSQSTHVPPTFGGGTKLEIKRTVA-APSVFIFPPSDEQLKSGTAS 136
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>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 = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 17/66 (25%), Positives = 26/66 (39%)
Query: 189 LKIPQITKEDRGTYYCVAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDLECH 248
+++ +T ED YYCV G+GT ++ P + P L C
Sbjct: 81 MQLSSLTSEDSAVYYCVRIAYWGQGTLVTVSSASTKGPSVFPLAPSSKSTSGGTAALGCL 140
Query: 249 VEAYPP 254
V+ Y P
Sbjct: 141 VKDYFP 146
>pdb|2YWY|A Chain A, Structure Of New Antigen Receptor Variable Domain From
Sharks
pdb|2YWY|B Chain B, Structure Of New Antigen Receptor Variable Domain From
Sharks
pdb|2YWY|C Chain C, Structure Of New Antigen Receptor Variable Domain From
Sharks
pdb|2YWY|D Chain D, Structure Of New Antigen Receptor Variable Domain From
Sharks
Length = 113
Score = 28.5 bits (62), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 17/78 (21%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 36 KDIGGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASST 95
K+ G ++ + C+++ A D ++R ST I R+ + S +
Sbjct: 12 KETGESLTINCALKNAAD------DLERTDWYRTTLGSTNEQKISIGGRYVETVNKGSKS 65
Query: 96 YTLLVKDIQETDAGYYRC 113
++L ++D++ D+G Y+C
Sbjct: 66 FSLRIRDLRVEDSGTYKC 83
>pdb|4DTG|L Chain L, Hemostatic Effect Of A Monoclonal Antibody Mab 2021
Blocking The Interaction Between Fxa And Tfpi In A
Rabbit Hemophilia Model
Length = 219
Score = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 48/117 (41%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC+ G GT+ I V AP + + P Q
Sbjct: 78 LKISRVEAEDVGVYYCLQATHFPQTFGGGTKVEIKRTVA-APSVFIFPPSDEQLKSGTAS 136
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>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 = 28.5 bits (62), Expect = 6.6, Method: Composition-based stats.
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 73 STGSSLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQ 114
ST I R+ + S +++L + D++ D+G Y+CQ
Sbjct: 43 STNEQSISIGGRYVETVNKGSKSFSLRISDLRVEDSGTYKCQ 84
>pdb|3PHQ|B Chain B, Crystal Structure Of S64-4 In Complex With Kdo
Length = 222
Score = 28.5 bits (62), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 37/93 (39%), Gaps = 9/93 (9%)
Query: 39 GGTVELKCSVQYAQ--DYPVIWMKVDRNKVTEPLPI--STGSSLIIRDS-----RFAIRY 89
GG++ L C+ DY + W++ K E L + G+ S RF I
Sbjct: 15 GGSLRLSCATSGFTFIDYYMSWVRQPPGKALEWLGFIRNKGNGYTTEYSTSVKGRFTISR 74
Query: 90 DTASSTYTLLVKDIQETDAGYYRCQVIIGINNK 122
D + S L + ++ D+ Y C IG N
Sbjct: 75 DNSQSAVYLQMNTLRAEDSATYYCARDIGYGNS 107
>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 = 28.5 bits (62), Expect = 6.9, Method: Composition-based stats.
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 73 STGSSLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQ 114
ST I R+ + S +++L + D++ D+G Y+CQ
Sbjct: 43 STNEQSISIGGRYVETVNKGSKSFSLRISDLRVEDSGTYKCQ 84
>pdb|1ZA3|A Chain A, The Crystal Structure Of The Ysd1 Fab Bound To Dr5
pdb|1ZA3|L Chain L, The Crystal Structure Of The Ysd1 Fab Bound To Dr5
Length = 213
Score = 28.5 bits (62), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 45/195 (23%), Positives = 71/195 (36%), Gaps = 32/195 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A ++W ++ P
Sbjct: 1 DIQMTQSP-------SSLSASVGDRVTITCRASQDVNTAVAWYQQKPGKAPKLLIYAASY 53
Query: 183 IYRG-------------SILKIPQITKEDRGTYYCVAENG---VGKGTRRNIAVEVEFAP 226
+Y G L I + ED TYYC + + G+GT+ I V AP
Sbjct: 54 LYSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQSSSSPYTFGQGTKVEIKRTVA-AP 112
Query: 227 VITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEF 285
+ + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 SVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS- 170
Query: 286 TDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 171 TYSLSSTLTLSKADY 185
>pdb|3I9G|L Chain L, Crystal Structure Of The Lt1009 (Sonepcizumab) Antibody
Fab Fragment In Complex With Sphingosine-1-Phosphate
Length = 213
Score = 28.5 bits (62), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 31/117 (26%), Positives = 50/117 (42%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I ++ ED TYYC+ + + G+GT+ I V AP + + P Q
Sbjct: 73 LTISKLQPEDFATYYCLQSDNLPFTFGQGTKLEIKRTVA-APSVFIFPPSDEQLKSGTAS 131
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 132 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 186
>pdb|3KNB|A Chain A, Crystal Structure Of The Titin C-Terminus In Complex With
Obscurin- Like 1
pdb|3Q5O|A Chain A, Crystal Structure Of Human Titin Domain M10
pdb|3Q5O|B Chain B, Crystal Structure Of Human Titin Domain M10
Length = 100
Score = 28.5 bits (62), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 16/78 (20%), Positives = 32/78 (41%), Gaps = 5/78 (6%)
Query: 243 MDLECHVEAYPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQYGS 302
+ + C P P + W + ++Q H D+ T T+ ++ ++K+ G
Sbjct: 23 LTVACAFTGEPTPEVTWSCGGRK---IHSQEQGRFHIENTDDLT--TLIIMDVQKQDGGL 77
Query: 303 YICRAANKLGTSEKTVEL 320
Y N+ G+ TV +
Sbjct: 78 YTLSLGNEFGSDSATVNI 95
>pdb|3S96|A Chain A, Crystal Structure Of 3b5h10
pdb|3S96|C Chain C, Crystal Structure Of 3b5h10
Length = 220
Score = 28.5 bits (62), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 26/90 (28%), Positives = 43/90 (47%), Gaps = 7/90 (7%)
Query: 31 SQEQIKDIGGTVELKC--SVQYAQDYPVIWMKVDRNKVTEPLP-ISTGSSL--IIRD--S 83
S ++K G TV++ C S Y + W+K K E + I+T S + + D
Sbjct: 7 SGPELKKPGETVKISCKASGYTFTTYGMSWVKQAPGKGFEWMGWINTYSGVPTYVDDFKG 66
Query: 84 RFAIRYDTASSTYTLLVKDIQETDAGYYRC 113
RFA +T++ST L + +++ D Y C
Sbjct: 67 RFAFSLETSASTAYLQINNLKNEDTAVYFC 96
>pdb|3PP3|L Chain L, Epitope Characterization And Crystal Structure Of Ga101
Provide Insights Into The Molecular Basis For The Type I
TYPE II Distinction Of Anti- Cd20 Antibodies
pdb|3PP3|K Chain K, Epitope Characterization And Crystal Structure Of Ga101
Provide Insights Into The Molecular Basis For The Type I
TYPE II Distinction Of Anti- Cd20 Antibodies
pdb|3PP4|L Chain L, Epitope Characterization And Crystal Structure Of Ga101
Provide Insights Into The Molecular Basis For The Type I
TYPE II Distinction Of Anti- Cd20 Antibodies
Length = 219
Score = 28.5 bits (62), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 50/118 (42%), Gaps = 10/118 (8%)
Query: 189 LKIPQITKEDRGTYYCVAEN-----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDM 243
LKI ++ ED G YYC A+N G GT+ I V AP + + P Q
Sbjct: 78 LKISRVEAEDVGVYYC-AQNLELPYTFGGGTKVEIKRTVA-APSVFIFPPSDEQLKSGTA 135
Query: 244 DLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 136 SVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|2OR9|L Chain L, The Structure Of The Anti-C-Myc Antibody 9e10 Fab
FragmentEPITOPE PEPTIDE COMPLEX REVEALS A NOVEL BINDING
Mode Dominated By The Heavy Chain Hypervariable Loops
pdb|2OR9|M Chain M, The Structure Of The Anti-C-Myc Antibody 9e10 Fab
FragmentEPITOPE PEPTIDE COMPLEX REVEALS A NOVEL BINDING
Mode Dominated By The Heavy Chain Hypervariable Loops
pdb|2ORB|L Chain L, The Structure Of The Anti-C-Myc Antibody 9e10 Fab Fragment
pdb|2ORB|M Chain M, The Structure Of The Anti-C-Myc Antibody 9e10 Fab Fragment
Length = 218
Score = 28.5 bits (62), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 31/147 (21%), Positives = 54/147 (36%), Gaps = 37/147 (25%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ++D Y+C V G GT+ I + AP +++ P Q
Sbjct: 77 LNIHPVEEDDPAMYFCQQTKEVPWTFGGGTKLEIK-RADAAPTVSIFPPSSEQLTSGGAS 135
Query: 245 LECHVEAYPPPAI-----------------VWIKEDTQQVLTNNQHYSISHFATADEFTD 287
+ C + + P I W +D++ + YS+S
Sbjct: 136 VVCFLNNFYPKDINVKWKIDGSERQNGVLNSWTDQDSK-----DSTYSMS---------- 180
Query: 288 TTIRVITIEKRQYGSYICRAANKLGTS 314
+T+ + E ++ SY C A +K TS
Sbjct: 181 STLTLTKDEYERHNSYTCEATHKTSTS 207
>pdb|4EXP|X Chain X, Structure Of Mouse Interleukin-34 In Complex With Mouse
Fms
Length = 283
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 31/128 (24%), Positives = 51/128 (39%), Gaps = 12/128 (9%)
Query: 98 LLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRR----PPVISDNSTRSLVVSEGQPV 153
+++ + D+ Y C+ ++ S + L+V R PP I ++ LV G+
Sbjct: 146 FIIRKAKVLDSNTYVCKTMVNGRESTSTGIWLKVNRVHPEPPQIKLEPSK-LVRIRGEAA 204
Query: 154 QLECFAGGHPTPR--ISWRRENNAILPTGGSI---YRGSI--LKIPQITKEDRGTYYCVA 206
Q+ C A I R + +P Y + L + + +D G Y CVA
Sbjct: 205 QIVCSATNAEVGFNVILKRGDTKLEIPLNSDFQDNYYKKVRALSLNAVDFQDAGIYSCVA 264
Query: 207 ENGVGKGT 214
N VG T
Sbjct: 265 SNDVGTRT 272
>pdb|1KXT|B Chain B, Camelid Vhh Domains In Complex With Porcine Pancreatic
Alpha-Amylase
pdb|1KXT|D Chain D, Camelid Vhh Domains In Complex With Porcine Pancreatic
Alpha-Amylase
pdb|1KXT|F Chain F, Camelid Vhh Domains In Complex With Porcine Pancreatic
Alpha-Amylase
Length = 127
Score = 28.1 bits (61), Expect = 7.5, Method: Composition-based stats.
Identities = 24/81 (29%), Positives = 35/81 (43%), Gaps = 6/81 (7%)
Query: 39 GGTVELKCSVQ-YA-QDYPVIWMKVDRNKVTE-PLPISTGSSLIIRDS---RFAIRYDTA 92
GG++ L C+ Y YP+ W + K E I + S DS RF I D A
Sbjct: 15 GGSLRLSCAASGYTFSSYPMGWYRQAPGKECELSARIFSDGSANYADSVKGRFTISRDNA 74
Query: 93 SSTYTLLVKDIQETDAGYYRC 113
++T L + ++ D Y C
Sbjct: 75 ANTAYLQMDSLKPEDTAVYYC 95
>pdb|3EJJ|X Chain X, Structure Of M-Csf Bound To The First Three Domains Of Fms
Length = 289
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 31/128 (24%), Positives = 51/128 (39%), Gaps = 12/128 (9%)
Query: 98 LLVKDIQETDAGYYRCQVIIGINNKISAEVDLQVRR----PPVISDNSTRSLVVSEGQPV 153
+++ + D+ Y C+ ++ S + L+V R PP I ++ LV G+
Sbjct: 146 FIIRKAKVLDSNTYVCKTMVNGRESTSTGIWLKVNRVHPEPPQIKLEPSK-LVRIRGEAA 204
Query: 154 QLECFAGGHPTPR--ISWRRENNAILPTGGSI---YRGSI--LKIPQITKEDRGTYYCVA 206
Q+ C A I R + +P Y + L + + +D G Y CVA
Sbjct: 205 QIVCSATNAEVGFNVILKRGDTKLEIPLNSDFQDNYYKKVRALSLNAVDFQDAGIYSCVA 264
Query: 207 ENGVGKGT 214
N VG T
Sbjct: 265 SNDVGTRT 272
>pdb|2HFG|L Chain L, Crystal Structure Of Hbr3 Bound To Cb3s-fab
Length = 214
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 45/196 (22%), Positives = 73/196 (37%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A + ++W ++ P +
Sbjct: 1 DIQMTQSP-------SSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASF 53
Query: 183 IYRG-------------SILKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFA 225
+Y G L I + ED TYYC ++ G+GT+ I V A
Sbjct: 54 LYSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQSQISPPTFGQGTKVEIKRTVA-A 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 PSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS 171
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 172 -TYSLSSTLTLSKADY 186
>pdb|2QQN|L Chain L, Neuropilin-1 B1 Domain In Complex With A Vegf-Blocking Fab
Length = 214
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 48/196 (24%), Positives = 74/196 (37%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILPT----GGSI 183
D+Q+ + P SL S G V + C A + + ++W ++ P G S
Sbjct: 1 DIQMTQSP-------SSLSASVGDRVTITCRASQYFSSYLAWYQQKPGKAPKLLIYGASS 53
Query: 184 --------YRGS------ILKIPQITKEDRGTYYCVAENG----VGKGTRRNIAVEVEFA 225
+ GS L I + ED TYYC G G+GT+ I V A
Sbjct: 54 RASGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQYLGSPPTFGQGTKVEIKRTVA-A 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 PSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS 171
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 172 -TYSLSSTLTLSKADY 186
>pdb|2PYF|A Chain A, Crystal Structures Of High Affinity Human T-Cell Receptors
Bound To Pmhc Revealnative Diagonal Binding Geometry
Unbound Tcr Clone 5-1
Length = 205
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 29/77 (37%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G + L CS + Y + W + D K L + S R D +S + TL
Sbjct: 16 GENLVLNCSFTDSAIYNLQWFRQDPGKGLTSLLLIQSSQREQTSGRLNASLDKSSGSSTL 75
Query: 99 LVKDIQETDAGYYRCQV 115
+ Q D+ Y C V
Sbjct: 76 YIAASQPGDSATYLCAV 92
>pdb|2DD8|L Chain L, Crystal Structure Of Sars-Cov Spike Receptor-Binding
Domain Complexed With Neutralizing Antibody
pdb|2G75|B Chain B, Crystal Structure Of Anti-Sars M396 Antibody
pdb|2G75|D Chain D, Crystal Structure Of Anti-Sars M396 Antibody
Length = 213
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 29/138 (21%), Positives = 54/138 (39%), Gaps = 6/138 (4%)
Query: 187 SILKIPQITKEDRGTYYCVAENG-----VGKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
+ L I ++ D YYC + G GT+ + + + P +T+ P +
Sbjct: 70 ATLTISRVEAGDEADYYCQVWDSSSDYVFGTGTKVTVLGQPKANPTVTLFPPSSEEFQAN 129
Query: 242 DMDLECHVEAYPPPAI-VWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
L C + + P A+ V K D V + S + + + + + + +
Sbjct: 130 KATLVCLISDFYPGAVTVAWKADGSPVKAGVETTKPSKQSNNKYAASSYLSLTPEQWKSH 189
Query: 301 GSYICRAANKLGTSEKTV 318
SY C+ ++ T EKTV
Sbjct: 190 RSYSCQVTHEGSTVEKTV 207
>pdb|3S35|H Chain H, Structural Basis For The Function Of Two Anti-Vegf
Receptor Antibodies
Length = 217
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 33/73 (45%), Gaps = 9/73 (12%)
Query: 189 LKIPQITKEDRGTYYCVAENGV-----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYD- 242
+++ ++T ED Y+C +G G+GT ++ P + P G A Q +
Sbjct: 81 MELSRLTSEDSAVYFCTRHDGTNFDYWGQGTTLTVSSAKTTPPSVYPLAP--GSAAQTNS 138
Query: 243 -MDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 139 MVTLGCLVKGYFP 151
>pdb|1IGY|B Chain B, Structure Of Immunoglobulin
pdb|1IGY|D Chain D, Structure Of Immunoglobulin
Length = 434
Score = 28.1 bits (61), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 189 LKIPQITKEDRGTYYCVAENGV---GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMDL 245
+ + +T +D YYCV E V G+GT ++ P + P + L
Sbjct: 80 IHLSSLTSDDSAVYYCVREGEVPYWGQGTTVTVSSAKTTPPSVYPLAPGSAAQTNSMVTL 139
Query: 246 ECHVEAYPP 254
C V+ Y P
Sbjct: 140 GCLVKGYFP 148
>pdb|3L95|A Chain A, Crystal Structure Of The Human Notch1 Negative Regulatory
Region (Nrr) Bound To The Fab Fragment Of An Antagonist
Antibody
pdb|3L95|L Chain L, Crystal Structure Of The Human Notch1 Negative Regulatory
Region (Nrr) Bound To The Fab Fragment Of An Antagonist
Antibody
Length = 214
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 45/196 (22%), Positives = 72/196 (36%), Gaps = 33/196 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A + ++W ++ P +
Sbjct: 1 DIQMTQSP-------SSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYSASF 53
Query: 183 IYRG-------------SILKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFA 225
+Y G L I + ED TYYC + G+GT+ I V A
Sbjct: 54 LYSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQFYTTPSTFGQGTKVEIKRTVA-A 112
Query: 226 PVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADE 284
P + + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 PSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS 171
Query: 285 FTDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 172 -TYSLSSTLTLSKADY 186
>pdb|2JIX|A Chain A, Crystal Structure Of Abt-007 Fab Fragment With The Soluble
Domain Of Epo Receptor
pdb|2JIX|G Chain G, Crystal Structure Of Abt-007 Fab Fragment With The Soluble
Domain Of Epo Receptor
pdb|2JIX|L Chain L, Crystal Structure Of Abt-007 Fab Fragment With The Soluble
Domain Of Epo Receptor
Length = 214
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 48/117 (41%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAEN----GVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L I + ED TYYC+ N G+GT+ I V AP + + P Q
Sbjct: 73 LTISSLQPEDFATYYCLQHNTYPPTFGQGTKVEIKRTVA-APSVFIFPPSDEQLKSGTAS 131
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 132 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 186
>pdb|3UX9|B Chain B, Structural Insights Into A Human Anti-Ifn Antibody
Exerting Therapeutic Potential For Systemic Lupus
Erythematosus
pdb|3UX9|D Chain D, Structural Insights Into A Human Anti-Ifn Antibody
Exerting Therapeutic Potential For Systemic Lupus
Erythematosus
Length = 256
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 22/92 (23%), Positives = 37/92 (40%), Gaps = 7/92 (7%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIRYDT 91
GG++ L C+ Y + W++ K E + +G S DS RF I D
Sbjct: 149 GGSLRLSCAASGFTFSSYAMSWVRQAPGKGLEWVSAISGSGGSTYYADSVKGRFTISRDN 208
Query: 92 ASSTYTLLVKDIQETDAGYYRCQVIIGINNKI 123
+ +T L + ++ D Y C I + +
Sbjct: 209 SKNTLYLQMNSLRAEDTAVYYCARYIDFGDHM 240
>pdb|3IET|B Chain B, Crystal Structure Of 237mab With Antigen
pdb|3IET|D Chain D, Crystal Structure Of 237mab With Antigen
Length = 218
Score = 28.1 bits (61), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 189 LKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L++ + ED G YYC V G+GT ++ + AP + P G +
Sbjct: 83 LQMNSLRAEDTGIYYCSGGKVRNAYWGQGTTVTVSSKTTTAPSVYPLAPVCGDTTGSSVT 142
Query: 245 LECHVEAYPP 254
L C V+ Y P
Sbjct: 143 LGCLVKGYFP 152
>pdb|1TZI|B Chain B, Crystal Structure Of The Fab Yads2 Complexed With H-Vegf
Length = 222
Score = 28.1 bits (61), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 38/84 (45%), Gaps = 9/84 (10%)
Query: 39 GGTVELKCSVQ-YA-QDYPVIWMKVDRNKVTE------PLPISTGSSLIIRDSRFAIRYD 90
GG++ L C+ +A DY + W++ K E P +T + ++ RF I D
Sbjct: 15 GGSLRLSCAASGFAIYDYDIHWVRQAPGKGLEWVADIAPYAGATAYADSVK-GRFTISAD 73
Query: 91 TASSTYTLLVKDIQETDAGYYRCQ 114
T+ +T L + ++ D Y C
Sbjct: 74 TSKNTAYLQMNSLRAEDTAVYYCS 97
>pdb|3IF1|B Chain B, Crystal Structure Of 237mab In Complex With A Galnac
pdb|3IF1|D Chain D, Crystal Structure Of 237mab In Complex With A Galnac
Length = 217
Score = 28.1 bits (61), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 20/70 (28%), Positives = 30/70 (42%), Gaps = 4/70 (5%)
Query: 189 LKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
L++ + ED G YYC V G+GT ++ + AP + P G +
Sbjct: 83 LQMNSLRAEDTGIYYCSGGKVRNAYWGQGTTVTVSSKTTKAPSVYPLAPVCGDTTGSSVT 142
Query: 245 LECHVEAYPP 254
L C V+ Y P
Sbjct: 143 LGCLVKGYFP 152
>pdb|2X7L|L Chain L, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|B Chain B, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|D Chain D, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|K Chain K, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|F Chain F, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
pdb|2X7L|I Chain I, Implications Of The Hiv-1 Rev Dimer Structure At 3.2a
Resolution For Multimeric Binding To The Rev Response
Element
Length = 217
Score = 28.1 bits (61), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 28/80 (35%), Positives = 38/80 (47%), Gaps = 10/80 (12%)
Query: 38 IGGTVELKCSVQYAQDYPVIWMKVDRNKVTEP--LPISTGSSLIIR-DSRFAIRYDTASS 94
+GGTV +KC Q +Q W+ + K +P L I S+L SRF + S
Sbjct: 15 VGGTVTIKC--QASQSISS-WLSWYQQKPGQPPKLLIYDASNLASGVPSRFM---GSGSG 68
Query: 95 T-YTLLVKDIQETDAGYYRC 113
T YTL + +Q DA Y C
Sbjct: 69 TEYTLTISGVQREDAATYYC 88
>pdb|2ENS|A Chain A, Solution Structure Of The Third Ig-Like Domain From Human
Advanced Glycosylation End Product-Specific Receptor
Length = 96
Score = 28.1 bits (61), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 5/61 (8%)
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCV 205
V+ G V L C P+P+I W ++ + + +L +P+I +D+GTY CV
Sbjct: 21 AVAPGGTVTLTCEVPAQPSPQIHWMKDGVPL-----PLPPSPVLILPEIGPQDQGTYSCV 75
Query: 206 A 206
A
Sbjct: 76 A 76
>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 = 8.9, Method: Compositional matrix adjust.
Identities = 19/61 (31%), Positives = 31/61 (50%), Gaps = 5/61 (8%)
Query: 146 VVSEGQPVQLECFAGGHPTPRISWRRENNAILPTGGSIYRGSILKIPQITKEDRGTYYCV 205
V+ G V L C P+P+I W ++ + + +L +P+I +D+GTY CV
Sbjct: 14 AVAPGGTVTLTCEVPAQPSPQIHWMKDGVPL-----PLPPSPVLILPEIGPQDQGTYSCV 68
Query: 206 A 206
A
Sbjct: 69 A 69
>pdb|2Y5T|A Chain A, Crystal Structure Of The Pathogenic Autoantibody Ciic1 In
Complex With The Triple-Helical C1 Peptide
Length = 232
Score = 28.1 bits (61), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 19/73 (26%), Positives = 29/73 (39%), Gaps = 7/73 (9%)
Query: 189 LKIPQITKEDRGTYYC--VAENGV-----GKGTRRNIAVEVEFAPVITVPKPRLGQALQY 241
+++ T ED YYC + G G+GT ++ AP + P G
Sbjct: 81 MQLSSPTSEDSAVYYCARLKPGGTWFAYWGQGTLVTVSAAKTTAPSVYPLAPVCGDTTGS 140
Query: 242 DMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 141 SVTLGCLVKGYFP 153
>pdb|1DQD|H Chain H, Crystal Structure Of Fab Hgr-2 F6, A Competitive
Antagonist Of The Glucagon Receptor
Length = 222
Score = 28.1 bits (61), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 19/77 (24%), Positives = 29/77 (37%), Gaps = 11/77 (14%)
Query: 189 LKIPQITKEDRGTYYCVAENGV-----------GKGTRRNIAVEVEFAPVITVPKPRLGQ 237
L++ +T ED TYYC + G G+GT ++ P + P
Sbjct: 80 LQLKSVTPEDTATYYCASPPGYYGSGPYAMDYWGQGTSVTVSSAKTTPPSVYPLAPGSAA 139
Query: 238 ALQYDMDLECHVEAYPP 254
+ L C V+ Y P
Sbjct: 140 QTNSMVTLGCLVKGYFP 156
>pdb|3SOB|L Chain L, The Structure Of The First Ywtd Beta Propeller Domain Of
Lrp6 In Complex With A Fab
Length = 237
Score = 28.1 bits (61), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 46/199 (23%), Positives = 72/199 (36%), Gaps = 33/199 (16%)
Query: 125 AEVDLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----T 179
A D+Q+ + P SL S G V + C A + ++W ++ P +
Sbjct: 21 AYADIQMTQSP-------SSLSASVGDRVTITCRASQDVSTAVAWYQQKPGKAPKLLIYS 73
Query: 180 GGSIYRG-------------SILKIPQITKEDRGTYYC----VAENGVGKGTRRNIAVEV 222
+Y G L I + ED TYYC G+GT+ I V
Sbjct: 74 ASFLYSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQQSYTTPPTFGQGTKVEIKRTV 133
Query: 223 EFAPVITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFAT 281
AP + + P Q + C + YP A V K D + + N S++ +
Sbjct: 134 A-APSVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDS 191
Query: 282 ADEFTDTTIRVITIEKRQY 300
D T + +T+ K Y
Sbjct: 192 KDS-TYSLSSTLTLSKADY 209
>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 = 28.1 bits (61), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 34/82 (41%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIRYDT 91
GG++ L C+ Y + W++ K E + +G S DS RF I D
Sbjct: 15 GGSLRLSCAASGFTFSSYAMSWVRQAPGKGLEWVSAISGSGGSTYYADSVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
+ +T L + ++ D Y C
Sbjct: 75 SKNTLYLQMSSLRAEDTAVYYC 96
>pdb|2YWZ|A Chain A, Structure Of New Antigen Receptor Variable Domain From
Sharks
Length = 111
Score = 28.1 bits (61), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 22/43 (51%)
Query: 73 STGSSLIIRDSRFAIRYDTASSTYTLLVKDIQETDAGYYRCQV 115
ST I R+ D S +++L + D++ D+G Y+CQ
Sbjct: 43 STNEKTISIGGRYDETVDKGSKSFSLRISDLRVEDSGTYKCQA 85
>pdb|2PYE|D Chain D, Crystal Structures Of High Affinity Human T-Cell Receptors
Bound To Pmhc Revealnative Diagonal Binding Geometry Tcr
Clone C5c1 Complexed With Mhc
Length = 195
Score = 28.1 bits (61), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 20/77 (25%), Positives = 29/77 (37%)
Query: 39 GGTVELKCSVQYAQDYPVIWMKVDRNKVTEPLPISTGSSLIIRDSRFAIRYDTASSTYTL 98
G + L CS + Y + W + D K L + S R D +S + TL
Sbjct: 17 GENLVLNCSFTDSAIYNLQWFRQDPGKGLTSLLLIQSSQREQTSGRLNASLDKSSGSSTL 76
Query: 99 LVKDIQETDAGYYRCQV 115
+ Q D+ Y C V
Sbjct: 77 YIAASQPGDSATYLCAV 93
>pdb|4HCR|L Chain L, Crystal Structure Of Human Madcam-1 D1d2 Complexed With
Fab Pf-547659
pdb|4HCR|N Chain N, Crystal Structure Of Human Madcam-1 D1d2 Complexed With
Fab Pf-547659
Length = 219
Score = 28.1 bits (61), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 50/117 (42%), Gaps = 8/117 (6%)
Query: 189 LKIPQITKEDRGTYYCVAENGV----GKGTRRNIAVEVEFAPVITVPKPRLGQALQYDMD 244
LKI ++ ED G YYC+ + G+GT+ I V AP + + P Q
Sbjct: 78 LKISRVEAEDVGIYYCMQNIQLPWTFGQGTKVEIKRTVA-APSVFIFPPSDEQLKSGTAS 136
Query: 245 LECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEFTDTTIRVITIEKRQY 300
+ C + YP A V K D + + N S++ + D T + +T+ K Y
Sbjct: 137 VVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS-TYSLSSTLTLSKADY 191
>pdb|2VXS|H Chain H, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
pdb|2VXS|I Chain I, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
pdb|2VXS|J Chain J, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
pdb|2VXS|K Chain K, Structure Of Il-17a In Complex With A Potent, Fully Human
Neutralising Antibody
Length = 225
Score = 28.1 bits (61), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 34/82 (41%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLPI--STGSSLIIRDS---RFAIRYDT 91
GG++ L C+ Y + W++ K E + +G S DS RF I D
Sbjct: 15 GGSLRLSCAASGFTFSSYAMSWVRQAPGKGLEWVSAISGSGGSTYYADSVKGRFTISRDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
+ +T L + ++ D Y C
Sbjct: 75 SKNTLYLQMNSLRAEDTAVYYC 96
>pdb|1TZH|A Chain A, Crystal Structure Of The Fab Yads1 Complexed With H-Vegf
pdb|1TZH|L Chain L, Crystal Structure Of The Fab Yads1 Complexed With H-Vegf
Length = 213
Score = 28.1 bits (61), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 45/195 (23%), Positives = 70/195 (35%), Gaps = 32/195 (16%)
Query: 128 DLQVRRPPVISDNSTRSLVVSEGQPVQLECFAGGHPTPRISWRRENNAILP-----TGGS 182
D+Q+ + P SL S G V + C A ++W ++ P
Sbjct: 1 DIQMTQSP-------SSLSASVGDRVTITCRASQASYSSVAWYQQKPGKAPKLLIYAASY 53
Query: 183 IYRG-------------SILKIPQITKEDRGTYYCVAENG---VGKGTRRNIAVEVEFAP 226
+Y G L I + ED TYYC + G+GT+ I V AP
Sbjct: 54 LYSGVPSRFSGSGSGTDFTLTISSLQPEDFATYYCQSSASPATFGQGTKVEIKRTVA-AP 112
Query: 227 VITVPKPRLGQALQYDMDLECHVEA-YPPPAIVWIKEDTQQVLTNNQHYSISHFATADEF 285
+ + P Q + C + YP A V K D + + N S++ + D
Sbjct: 113 SVFIFPPSDEQLKSGTASVVCLLNNFYPREAKVQWKVD-NALQSGNSQESVTEQDSKDS- 170
Query: 286 TDTTIRVITIEKRQY 300
T + +T+ K Y
Sbjct: 171 TYSLSSTLTLSKADY 185
>pdb|1EJO|H Chain H, Fab Fragment Of Neutralising Monoclonal Antibody 4c4
Complexed With G-H Loop From Fmdv
Length = 220
Score = 27.7 bits (60), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 35/82 (42%), Gaps = 7/82 (8%)
Query: 39 GGTVELKCSVQ--YAQDYPVIWMKVDRNKVTEPLP-ISTGSSLIIR----DSRFAIRYDT 91
GG+++L C+ Y + W++ K E + IS+G + RF I D
Sbjct: 15 GGSLKLSCAASGFTFSSYTMSWVRQTPEKRLEWVATISSGGAYTYYPDSVKGRFTISDDN 74
Query: 92 ASSTYTLLVKDIQETDAGYYRC 113
A ST L + ++ D Y C
Sbjct: 75 AESTLYLQMSSLRSEDTAMYYC 96
>pdb|3TPK|A Chain A, Crystal Structure Of The Oligomer-Specific Kw1 Antibody
Fragment
Length = 136
Score = 27.7 bits (60), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 40/86 (46%), Gaps = 15/86 (17%)
Query: 39 GGTVELKCSVQ---YAQDYPVIWMKVDRNKVTEPLPISTGSSL-----IIRDS---RFAI 87
GG++ L C+ ++Q++ VIW + K E I +G SL DS RF I
Sbjct: 19 GGSLRLSCTASGYTFSQEF-VIWFRQAPGKERE---IVSGISLRKGWTYYADSVKGRFTI 74
Query: 88 RYDTASSTYTLLVKDIQETDAGYYRC 113
D A +T L + +++ D Y C
Sbjct: 75 SQDNAKNTVYLQMNNLKPEDTAMYYC 100
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
0.318 0.134 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,227,358
Number of Sequences: 62578
Number of extensions: 471033
Number of successful extensions: 4478
Number of sequences better than 100.0: 1000
Number of HSP's better than 100.0 without gapping: 105
Number of HSP's successfully gapped in prelim test: 920
Number of HSP's that attempted gapping in prelim test: 3130
Number of HSP's gapped (non-prelim): 1640
length of query: 386
length of database: 14,973,337
effective HSP length: 101
effective length of query: 285
effective length of database: 8,652,959
effective search space: 2466093315
effective search space used: 2466093315
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 52 (24.6 bits)