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= 043372
(342 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 114 bits (284), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 94/310 (30%), Positives = 146/310 (47%), Gaps = 25/310 (8%)
Query: 2 GKVPGKLGSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKR 61
GK+P L + +L L + NYLSG IPSS G+LS L L N G IP+ L +K
Sbjct: 408 GKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKT 467
Query: 62 MRIIAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQF 121
+ + N L+GEIP + N ++L+ N+L G P +G L NL +L +++N F
Sbjct: 468 LETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIG-RLENLAILKLSNNSF 526
Query: 122 AGPIPASISNTSNLMTLAIGGNGFSGKVPS--FENLHKLREVSISQNPLGNGEKDDLEFV 179
+G IPA + + +L+ L + N F+G +P+ F+ K+ I+ + D ++
Sbjct: 527 SGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMK-- 584
Query: 180 NSLVNTSRLELLEISDTNCGGMLPEAVGNLSTRLRKLSVGN-----NQLFGNIPSXXXXX 234
+ + G L E G S +L +LS N ++++G S
Sbjct: 585 --------------KECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDN 630
Query: 235 XXXXXXXXXXXQFI-GRIPESIGYLQKLQGLWLNGNKFLGEIPSSIGNLASLTILDFSAN 293
+ G IP+ IG + L L L N G IP +G+L L ILD S+N
Sbjct: 631 NGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSN 690
Query: 294 LLEGSIPSSL 303
L+G IP ++
Sbjct: 691 KLDGRIPQAM 700
Score = 112 bits (281), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 99/352 (28%), Positives = 156/352 (44%), Gaps = 42/352 (11%)
Query: 8 LGSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRMRIIAF 67
LG L+ L + N LSG+ + + L++L+ ++NQFVG IP +K ++ ++
Sbjct: 219 LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL--PLKSLQYLSL 276
Query: 68 GINKLSGEIP-FSIYNLSSLSVFDFPVNQLQGSFPSDLG--------------------- 105
NK +GEIP F +L+ D N G+ P G
Sbjct: 277 AENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPM 336
Query: 106 ---FTLPNLELLNVADNQFAGPIPASISN-TSNLMTLAIGGNGFSGKVPSFENL-----H 156
+ L++L+++ N+F+G +P S++N +++L+TL + N FSG P NL +
Sbjct: 337 DTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSG--PILPNLCQNPKN 394
Query: 157 KLREVSISQNPLGNGEKDDLEFVNSLVNTSRLELLEISDTNCGGMLPEAVGNLSTRLRKL 216
L+E+ + N + +L N S L L +S G +P ++G+LS +LR L
Sbjct: 395 TLQELYLQNNGFTG------KIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLS-KLRDL 447
Query: 217 SVGNNQLFGNIPSXXXXXXXXXXXXXXXXQFIGRIPESIGYLQKLQGLWLNGNKFLGEIP 276
+ N L G IP G IP + L + L+ N+ GEIP
Sbjct: 448 KLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIP 507
Query: 277 SSIGNLASLTILDFSANLLEGSIPSSLGKCQXXXXXXXXXXXXXGTIPTEVI 328
IG L +L IL S N G+IP+ LG C+ GTIP +
Sbjct: 508 KWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMF 559
Score = 111 bits (278), Expect = 5e-25, Method: Compositional matrix adjust.
Identities = 99/309 (32%), Positives = 155/309 (50%), Gaps = 36/309 (11%)
Query: 2 GKVPGKL-GSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIP-ETLRDI 59
G++P L G+ L L + N+ G +P FG+ S LE L+ ++N F G +P +TL +
Sbjct: 283 GEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKM 342
Query: 60 KRMRIIAFGINKLSGEIPFSIYNLS-SLSVFDFPVNQLQGSFPSDLGFTLPN-LELLNVA 117
+ ++++ N+ SGE+P S+ NLS SL D N G +L N L+ L +
Sbjct: 343 RGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQ 402
Query: 118 DNQFAGPIPASISNTSNLMTLAIGGNGFSGKVPS-FENLHKLREVSISQNPLGNGEKDDL 176
+N F G IP ++SN S L++L + N SG +PS +L KLR++ + N L +L
Sbjct: 403 NNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQEL 462
Query: 177 EFVNSLVNTSRLELLEISDTNCGGMLPEAVGNLSTRLRKLSVGNNQLFGNIPSXXXXXXX 236
+V +L E L + + G +P + N T L +S+ NN+L
Sbjct: 463 MYVKTL------ETLILDFNDLTGEIPSGLSN-CTNLNWISLSNNRL------------- 502
Query: 237 XXXXXXXXXQFIGRIPESIGYLQKLQGLWLNGNKFLGEIPSSIGNLASLTILDFSANLLE 296
G IP+ IG L+ L L L+ N F G IP+ +G+ SL LD + NL
Sbjct: 503 -----------TGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFN 551
Query: 297 GSIPSSLGK 305
G+IP+++ K
Sbjct: 552 GTIPAAMFK 560
Score = 64.7 bits (156), Expect = 8e-11, Method: Compositional matrix adjust.
Identities = 85/309 (27%), Positives = 132/309 (42%), Gaps = 49/309 (15%)
Query: 8 LGSIPKLRILTVHANYLSGEIPSSFG-NLSSLEVLSATANQFVGR--IPETLRD-IKRMR 63
LGS L+ L V +N L S G L+SLEVL +AN G + L D ++
Sbjct: 122 LGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELK 181
Query: 64 IIAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQFAG 123
+A NK+SG++ S NLE L+V+ N F+
Sbjct: 182 HLAISGNKISGDVDVS---------------------------RCVNLEFLDVSSNNFST 214
Query: 124 PIPASISNTSNLMTLAIGGNGFSGKVP-SFENLHKLREVSISQNPLGNGEKDDLEFVNSL 182
IP + + S L L I GN SG + +L+ ++IS N +FV +
Sbjct: 215 GIPF-LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSN----------QFVGPI 263
Query: 183 --VNTSRLELLEISDTNCGGMLPEAVGNLSTRLRKLSVGNNQLFGNIPSXXXXXXXXXXX 240
+ L+ L +++ G +P+ + L L + N +G +P
Sbjct: 264 PPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESL 323
Query: 241 XXXXXQFIGRIP-ESIGYLQKLQGLWLNGNKFLGEIPSSIGNL-ASLTILDFSANLLEGS 298
F G +P +++ ++ L+ L L+ N+F GE+P S+ NL ASL LD S+N G
Sbjct: 324 ALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGP 383
Query: 299 IPSSLGKCQ 307
I +L CQ
Sbjct: 384 ILPNL--CQ 390
Score = 35.8 bits (81), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%)
Query: 2 GKVPGKLGSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPE 54
G +P ++G + L IL + +N L G IP + L+ L + + N G IPE
Sbjct: 670 GSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE 722
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 114 bits (284), Expect = 1e-25, Method: Compositional matrix adjust.
Identities = 94/310 (30%), Positives = 146/310 (47%), Gaps = 25/310 (8%)
Query: 2 GKVPGKLGSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKR 61
GK+P L + +L L + NYLSG IPSS G+LS L L N G IP+ L +K
Sbjct: 405 GKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKT 464
Query: 62 MRIIAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQF 121
+ + N L+GEIP + N ++L+ N+L G P +G L NL +L +++N F
Sbjct: 465 LETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIG-RLENLAILKLSNNSF 523
Query: 122 AGPIPASISNTSNLMTLAIGGNGFSGKVPS--FENLHKLREVSISQNPLGNGEKDDLEFV 179
+G IPA + + +L+ L + N F+G +P+ F+ K+ I+ + D ++
Sbjct: 524 SGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMK-- 581
Query: 180 NSLVNTSRLELLEISDTNCGGMLPEAVGNLSTRLRKLSVGN-----NQLFGNIPSXXXXX 234
+ + G L E G S +L +LS N ++++G S
Sbjct: 582 --------------KECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDN 627
Query: 235 XXXXXXXXXXXQFI-GRIPESIGYLQKLQGLWLNGNKFLGEIPSSIGNLASLTILDFSAN 293
+ G IP+ IG + L L L N G IP +G+L L ILD S+N
Sbjct: 628 NGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSN 687
Query: 294 LLEGSIPSSL 303
L+G IP ++
Sbjct: 688 KLDGRIPQAM 697
Score = 112 bits (280), Expect = 3e-25, Method: Compositional matrix adjust.
Identities = 99/352 (28%), Positives = 156/352 (44%), Gaps = 42/352 (11%)
Query: 8 LGSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRMRIIAF 67
LG L+ L + N LSG+ + + L++L+ ++NQFVG IP +K ++ ++
Sbjct: 216 LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL--PLKSLQYLSL 273
Query: 68 GINKLSGEIP-FSIYNLSSLSVFDFPVNQLQGSFPSDLG--------------------- 105
NK +GEIP F +L+ D N G+ P G
Sbjct: 274 AENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPM 333
Query: 106 ---FTLPNLELLNVADNQFAGPIPASISN-TSNLMTLAIGGNGFSGKVPSFENL-----H 156
+ L++L+++ N+F+G +P S++N +++L+TL + N FSG P NL +
Sbjct: 334 DTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSG--PILPNLCQNPKN 391
Query: 157 KLREVSISQNPLGNGEKDDLEFVNSLVNTSRLELLEISDTNCGGMLPEAVGNLSTRLRKL 216
L+E+ + N + +L N S L L +S G +P ++G+LS +LR L
Sbjct: 392 TLQELYLQNNGFTG------KIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLS-KLRDL 444
Query: 217 SVGNNQLFGNIPSXXXXXXXXXXXXXXXXQFIGRIPESIGYLQKLQGLWLNGNKFLGEIP 276
+ N L G IP G IP + L + L+ N+ GEIP
Sbjct: 445 KLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIP 504
Query: 277 SSIGNLASLTILDFSANLLEGSIPSSLGKCQXXXXXXXXXXXXXGTIPTEVI 328
IG L +L IL S N G+IP+ LG C+ GTIP +
Sbjct: 505 KWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMF 556
Score = 111 bits (277), Expect = 6e-25, Method: Compositional matrix adjust.
Identities = 99/309 (32%), Positives = 155/309 (50%), Gaps = 36/309 (11%)
Query: 2 GKVPGKL-GSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIP-ETLRDI 59
G++P L G+ L L + N+ G +P FG+ S LE L+ ++N F G +P +TL +
Sbjct: 280 GEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKM 339
Query: 60 KRMRIIAFGINKLSGEIPFSIYNLS-SLSVFDFPVNQLQGSFPSDLGFTLPN-LELLNVA 117
+ ++++ N+ SGE+P S+ NLS SL D N G +L N L+ L +
Sbjct: 340 RGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQ 399
Query: 118 DNQFAGPIPASISNTSNLMTLAIGGNGFSGKVPS-FENLHKLREVSISQNPLGNGEKDDL 176
+N F G IP ++SN S L++L + N SG +PS +L KLR++ + N L +L
Sbjct: 400 NNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQEL 459
Query: 177 EFVNSLVNTSRLELLEISDTNCGGMLPEAVGNLSTRLRKLSVGNNQLFGNIPSXXXXXXX 236
+V +L E L + + G +P + N T L +S+ NN+L
Sbjct: 460 MYVKTL------ETLILDFNDLTGEIPSGLSN-CTNLNWISLSNNRL------------- 499
Query: 237 XXXXXXXXXQFIGRIPESIGYLQKLQGLWLNGNKFLGEIPSSIGNLASLTILDFSANLLE 296
G IP+ IG L+ L L L+ N F G IP+ +G+ SL LD + NL
Sbjct: 500 -----------TGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFN 548
Query: 297 GSIPSSLGK 305
G+IP+++ K
Sbjct: 549 GTIPAAMFK 557
Score = 64.3 bits (155), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 84/310 (27%), Positives = 133/310 (42%), Gaps = 51/310 (16%)
Query: 8 LGSIPKLRILTVHANYLS--GEIPSSFGNLSSLEVLSATANQFVGR--IPETLRD-IKRM 62
LGS L+ L V +N L G++ L+SLEVL +AN G + L D +
Sbjct: 119 LGSCSGLKFLNVSSNTLDFPGKVSGGL-KLNSLEVLDLSANSISGANVVGWVLSDGCGEL 177
Query: 63 RIIAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQFA 122
+ +A NK+SG++ S NLE L+V+ N F+
Sbjct: 178 KHLAISGNKISGDVDVS---------------------------RCVNLEFLDVSSNNFS 210
Query: 123 GPIPASISNTSNLMTLAIGGNGFSGKVP-SFENLHKLREVSISQNPLGNGEKDDLEFVNS 181
IP + + S L L I GN SG + +L+ ++IS N +FV
Sbjct: 211 TGIPF-LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSN----------QFVGP 259
Query: 182 L--VNTSRLELLEISDTNCGGMLPEAVGNLSTRLRKLSVGNNQLFGNIPSXXXXXXXXXX 239
+ + L+ L +++ G +P+ + L L + N +G +P
Sbjct: 260 IPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLES 319
Query: 240 XXXXXXQFIGRIP-ESIGYLQKLQGLWLNGNKFLGEIPSSIGNL-ASLTILDFSANLLEG 297
F G +P +++ ++ L+ L L+ N+F GE+P S+ NL ASL LD S+N G
Sbjct: 320 LALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSG 379
Query: 298 SIPSSLGKCQ 307
I +L CQ
Sbjct: 380 PILPNL--CQ 387
Score = 35.8 bits (81), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 18/53 (33%), Positives = 28/53 (52%)
Query: 2 GKVPGKLGSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPE 54
G +P ++G + L IL + +N L G IP + L+ L + + N G IPE
Sbjct: 667 GSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE 719
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 78/271 (28%), Positives = 118/271 (43%), Gaps = 42/271 (15%)
Query: 28 IPSSFGNLSSLEVLSATA-NQFVGRIPETLRDIKRMRIIAFGINKLSGEIPFSIYNLSSL 86
IPSS NL L L N VG IP + + ++ + +SG IP + + +L
Sbjct: 68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTL 127
Query: 87 SVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQFAGPIPASISNTSNLMT-LAIGGNGF 145
DF N L G+ P + +LPNL + N+ +G IP S + S L T + I N
Sbjct: 128 VTLDFSYNALSGTLPPSIS-SLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRL 186
Query: 146 SGKVP-SFENLHKLREVSISQNPLGNGEKDDLEFVNSLVNTSRLELLEISDTNCGGMLPE 204
+GK+P +F NL+ L V +S+N L E D S NT ++ L + S L
Sbjct: 187 TGKIPPTFANLN-LAFVDLSRNML---EGDASVLFGSDKNTQKIHLAKNS-------LAF 235
Query: 205 AVGN--LSTRLRKLSVGNNQLFGNIPSXXXXXXXXXXXXXXXXQFIGRIPESIGYLQKLQ 262
+G LS L L + NN+++G +P + + L+ L
Sbjct: 236 DLGKVGLSKNLNGLDLRNNRIYGTLP------------------------QGLTQLKFLH 271
Query: 263 GLWLNGNKFLGEIPSSIGNLASLTILDFSAN 293
L ++ N GEIP GNL + ++ N
Sbjct: 272 SLNVSFNNLCGEIPQG-GNLQRFDVSAYANN 301
Score = 68.6 bits (166), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 80/278 (28%), Positives = 113/278 (40%), Gaps = 42/278 (15%)
Query: 4 VPGKLGSIPKLRILTVHA-NYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRM 62
+P L ++P L L + N L G IP + L+ L L T G IP+ L IK +
Sbjct: 68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTL 127
Query: 63 RIIAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQFA 122
+ F N LSG +P SI +LPNL + N+ +
Sbjct: 128 VTLDFSYNALSGTLPPSIS-------------------------SLPNLVGITFDGNRIS 162
Query: 123 GPIPASISNTSNLMT-LAIGGNGFSGKV-PSFENLHKLREVSISQNPLGNGEKDDLEFVN 180
G IP S + S L T + I N +GK+ P+F NL+ L V +S+N L E D
Sbjct: 163 GAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNML---EGDASVLFG 218
Query: 181 SLVNTSRLELLEISDTNCGGMLPEAVGN--LSTRLRKLSVGNNQLFGNIPSXXXXXXXXX 238
S NT ++ L + S L +G LS L L + NN+++G +P
Sbjct: 219 SDKNTQKIHLAKNS-------LAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLH 271
Query: 239 XXXXXXXQFIGRIPESIGYLQKLQGLWLNGNKFLGEIP 276
G IP+ G LQ+ NK L P
Sbjct: 272 SLNVSFNNLCGEIPQG-GNLQRFDVSAYANNKCLCGSP 308
Score = 48.9 bits (115), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 47/176 (26%), Positives = 72/176 (40%), Gaps = 33/176 (18%)
Query: 124 PIPASISNTSNLMTLAIGG-NGFSGKVPSFENLHKLREVSISQNPLGNGEKDDLEFVNSL 182
PIP+S++N L L IGG N G +P ++
Sbjct: 67 PIPSSLANLPYLNFLYIGGINNLVGPIPP-----------------------------AI 97
Query: 183 VNTSRLELLEISDTNCGGMLPEAVGNLSTRLRKLSVGNNQLFGNIPSXXXXXXXXXXXXX 242
++L L I+ TN G +P+ + + T L L N L G +P
Sbjct: 98 AKLTQLHYLYITHTNVSGAIPDFLSQIKT-LVTLDFSYNALSGTLPPSISSLPNLVGITF 156
Query: 243 XXXQFIGRIPESIGYLQKL-QGLWLNGNKFLGEIPSSIGNLASLTILDFSANLLEG 297
+ G IP+S G KL + ++ N+ G+IP + NL +L +D S N+LEG
Sbjct: 157 DGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANL-NLAFVDLSRNMLEG 211
Score = 46.2 bits (108), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 40/162 (24%), Positives = 70/162 (43%), Gaps = 6/162 (3%)
Query: 1 MGKVPGKLGSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIK 60
+G +P + + +L L + +SG IP + +L L + N G +P ++ +
Sbjct: 90 VGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLP 149
Query: 61 RMRIIAFGINKLSGEIPFSIYNLSSL-SVFDFPVNQLQGSFPSDLGFTLPNLELLNVADN 119
+ I F N++SG IP S + S L + N+L G P F NL ++++ N
Sbjct: 150 NLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPT--FANLNLAFVDLSRN 207
Query: 120 QFAGPIPASISNTSNLMTLAIGGNGFS---GKVPSFENLHKL 158
G + N + + N + GKV +NL+ L
Sbjct: 208 MLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGL 249
Score = 43.9 bits (102), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 41/96 (42%)
Query: 247 FIGRIPESIGYLQKLQGLWLNGNKFLGEIPSSIGNLASLTILDFSANLLEGSIPSSLGKC 306
+G IP +I L +L L++ G IP + + +L LDFS N L G++P S+
Sbjct: 89 LVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSL 148
Query: 307 QXXXXXXXXXXXXXGTIPTEVIGLSSLSIYLDLSQN 342
G IP S L + +S+N
Sbjct: 149 PNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRN 184
Score = 34.3 bits (77), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 37/84 (44%), Gaps = 1/84 (1%)
Query: 251 IPESIGYLQKLQGLWLNG-NKFLGEIPSSIGNLASLTILDFSANLLEGSIPSSLGKCQXX 309
IP S+ L L L++ G N +G IP +I L L L + + G+IP L + +
Sbjct: 68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTL 127
Query: 310 XXXXXXXXXXXGTIPTEVIGLSSL 333
GT+P + L +L
Sbjct: 128 VTLDFSYNALSGTLPPSISSLPNL 151
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 23/46 (50%), Positives = 31/46 (67%), Gaps = 2/46 (4%)
Query: 261 LQGLWLNGNKFLGEIPSSIGNLASLTILDFSANLLEGSIPSSLGKC 306
L L+LNGN L E+P+ I NL++L +LD S N L S+P+ LG C
Sbjct: 249 LTRLYLNGNS-LTELPAEIKNLSNLRVLDLSHNRL-TSLPAELGSC 292
Score = 32.7 bits (73), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 25/69 (36%), Positives = 33/69 (47%), Gaps = 3/69 (4%)
Query: 75 EIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQFAGPIPASISNTSN 134
E+P I NLS+L V D N+L S P++LG L+ DN +P N N
Sbjct: 261 ELPAEIKNLSNLRVLDLSHNRL-TSLPAELGSCF-QLKYFYFFDN-MVTTLPWEFGNLCN 317
Query: 135 LMTLAIGGN 143
L L + GN
Sbjct: 318 LQFLGVEGN 326
Score = 28.1 bits (61), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 39/82 (47%), Gaps = 6/82 (7%)
Query: 23 YLSG----EIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRMRIIAFGINKLSGEIPF 78
YL+G E+P+ NLS+L VL + N+ +P L +++ F N ++ +P+
Sbjct: 253 YLNGNSLTELPAEIKNLSNLRVLDLSHNRLTS-LPAELGSCFQLKYFYFFDNMVTT-LPW 310
Query: 79 SIYNLSSLSVFDFPVNQLQGSF 100
NL +L N L+ F
Sbjct: 311 EFGNLCNLQFLGVEGNPLEKQF 332
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 36.2 bits (82), Expect = 0.026, Method: Compositional matrix adjust.
Identities = 59/249 (23%), Positives = 94/249 (37%), Gaps = 41/249 (16%)
Query: 25 SGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRMRIIAFGINKLSGEIPFSIYNLS 84
G + S N +S++ S IP D K++ + + NKLS + + L+
Sbjct: 8 DGGVCSCNNNKNSVDCSSKKLTAIPSNIPA---DTKKLDLQS---NKLSSLPSKAFHRLT 61
Query: 85 SLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQFAGPIPASISNTSNLMTLAIGGNG 144
L + N+LQ + P+ + L NLE L V DN+ NL L + N
Sbjct: 62 KLRLLYLNDNKLQ-TLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQ 120
Query: 145 FSGKVPS-FENLHKLREVSISQNPLGNGEKDDLEFVNSLVNTSRLELLEISDTNCGGMLP 203
P F++L KL +S+ N L + LP
Sbjct: 121 LKSLPPRVFDSLTKLTYLSLGYNELQS-------------------------------LP 149
Query: 204 EAVGNLSTRLRKLSVGNNQLFGNIPSXXXXXXXXXXXXXXXXQFIGRIPE-SIGYLQKLQ 262
+ V + T L++L + NNQL +P + R+PE + L+KL+
Sbjct: 150 KGVFDKLTSLKELRLYNNQL-KRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLK 208
Query: 263 GLWLNGNKF 271
L L N +
Sbjct: 209 MLQLQENPW 217
Score = 30.4 bits (67), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 35/164 (21%), Positives = 59/164 (35%), Gaps = 28/164 (17%)
Query: 6 GKLGSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRMRII 65
G + L L V N L F L +L L NQ P + ++ +
Sbjct: 79 GIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYL 138
Query: 66 AFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQFAGPI 125
+ G N+L S P + L +L+ L + +NQ
Sbjct: 139 SLGYNELQ-------------------------SLPKGVFDKLTSLKELRLYNNQLKRVP 173
Query: 126 PASISNTSNLMTLAIGGNGFSGKVP--SFENLHKLREVSISQNP 167
+ + L TL + N +VP +F++L KL+ + + +NP
Sbjct: 174 EGAFDKLTELKTLKLDNNQLK-RVPEGAFDSLEKLKMLQLQENP 216
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 34.7 bits (78), Expect = 0.083, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 45/97 (46%), Gaps = 4/97 (4%)
Query: 50 GRIPETLRDIKRMRIIAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLP 109
R+ ETL+D+K + + INK++ E + Y L +L V + N L + S+ + LP
Sbjct: 283 SRVFETLKDLKVLNLAYNKINKIADE---AFYGLDNLQVLNLSYNLLGELYSSNF-YGLP 338
Query: 110 NLELLNVADNQFAGPIPASISNTSNLMTLAIGGNGFS 146
+ +++ N A + L TL + N +
Sbjct: 339 KVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALT 375
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 39/168 (23%), Positives = 68/168 (40%), Gaps = 5/168 (2%)
Query: 11 IPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRMRIIAFGIN 70
+ KL L + N L F +L+ L L NQ + ++ + G N
Sbjct: 58 LTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGN 117
Query: 71 KLSGEIPFSIYN-LSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQFAGPIPASI 129
+L +P +++ L+ L NQLQ S P+ L NL+ L+++ NQ +
Sbjct: 118 QLKS-LPSGVFDRLTKLKELRLNTNQLQ-SIPAGAFDKLTNLQTLSLSTNQLQSVPHGAF 175
Query: 130 SNTSNLMTLAIGGNGFSGKVPSFENLHKLREVSISQNPLGNGEKDDLE 177
L T+ + GN F E L+ + + + N + +G +L
Sbjct: 176 DRLGKLQTITLFGNQFD--CSRCETLYLSQWIRENSNKVKDGTGQNLH 221
>pdb|3M19|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R5.1
pdb|3M19|B Chain B, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R5.1
Length = 251
Score = 33.9 bits (76), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 34/137 (24%), Positives = 56/137 (40%), Gaps = 3/137 (2%)
Query: 11 IPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRMRIIAFGIN 70
+ KL L + N L F +L+ L L NQ + ++ + G N
Sbjct: 58 LTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLPLGVFDHLTQLDKLYLGGN 117
Query: 71 KLSGEIPFSIYN-LSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQFAGPIPASI 129
+L +P +++ L+ L NQLQ S P+ L NL+ L+++ NQ +
Sbjct: 118 QLKS-LPSGVFDRLTKLKELRLNTNQLQ-SIPAGAFDKLTNLQTLSLSTNQLQSVPHGAF 175
Query: 130 SNTSNLMTLAIGGNGFS 146
L T+ + GN F
Sbjct: 176 DRLGKLQTITLFGNQFD 192
>pdb|2Z66|A Chain A, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|B Chain B, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|C Chain C, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|D Chain D, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 306
Score = 33.1 bits (74), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 27/118 (22%), Positives = 46/118 (38%), Gaps = 1/118 (0%)
Query: 6 GKLGSIPKLRILTVHAN-YLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRMRI 64
G + L +L + N + +P F L +L L + Q P + +++
Sbjct: 144 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQV 203
Query: 65 IAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQFA 122
+ N F L+SL V D+ +N + S +L +L LN+ N FA
Sbjct: 204 LNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFA 261
>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
Length = 635
Score = 33.1 bits (74), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 27/118 (22%), Positives = 46/118 (38%), Gaps = 1/118 (0%)
Query: 6 GKLGSIPKLRILTVHAN-YLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRMRI 64
G + L +L + N + +P F L +L L + Q P + +++
Sbjct: 463 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQV 522
Query: 65 IAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQFA 122
+ N F L+SL V D+ +N + S +L +L LN+ N FA
Sbjct: 523 LNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFA 580
>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
Length = 605
Score = 33.1 bits (74), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 27/118 (22%), Positives = 46/118 (38%), Gaps = 1/118 (0%)
Query: 6 GKLGSIPKLRILTVHAN-YLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRMRI 64
G + L +L + N + +P F L +L L + Q P + +++
Sbjct: 439 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQV 498
Query: 65 IAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQFA 122
+ N F L+SL V D+ +N + S +L +L LN+ N FA
Sbjct: 499 LNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFA 556
>pdb|2V4U|A Chain A, Human Ctp Synthetase 2 - Glutaminase Domain In Complex
With 5-Oxo-L-Norleucine
Length = 289
Score = 32.7 bits (73), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 147 GKVPSFENLHKLREVSISQNPLGNGEKDDLEFVNSLVNTSRLELLEISD 195
G VP E H+ R ++ N + E++DL FV V+ R+E++E+++
Sbjct: 196 GDVPFIEERHRHR-FEVNPNLIKQFEQNDLSFVGQDVDGDRMEIIELAN 243
>pdb|2VKT|A Chain A, Human Ctp Synthetase 2 - Glutaminase Domain
Length = 289
Score = 32.7 bits (73), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 29/49 (59%), Gaps = 1/49 (2%)
Query: 147 GKVPSFENLHKLREVSISQNPLGNGEKDDLEFVNSLVNTSRLELLEISD 195
G VP E H+ R ++ N + E++DL FV V+ R+E++E+++
Sbjct: 196 GDVPFIEERHRHR-FEVNPNLIKQFEQNDLSFVGQDVDGDRMEIIELAN 243
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 32.7 bits (73), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 45/96 (46%), Gaps = 2/96 (2%)
Query: 32 FGNLSSLEVLSATANQFVGR-IPETLRDIKRMRIIAFGINKLSGEIPFSIYNLSSLSVFD 90
F LSSLEVL N F +P+ +++ + + +L P + +LSSL V +
Sbjct: 441 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLN 500
Query: 91 FPVNQLQGSFPSDLGFTLPNLELLNVADNQFAGPIP 126
NQL+ S P + L +L+ + + N + P
Sbjct: 501 MASNQLK-SVPDGIFDRLTSLQKIWLHTNPWDCSCP 535
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 32.7 bits (73), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 46/162 (28%), Positives = 74/162 (45%), Gaps = 33/162 (20%)
Query: 62 MRIIAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQF 121
+R +A G NKL +I ++ L++L+ NQLQ S P+ + L NL+ L + +NQ
Sbjct: 65 VRYLALGGNKLH-DIS-ALKELTNLTYLILTGNQLQ-SLPNGVFDKLTNLKELVLVENQL 121
Query: 122 AGPIPASISNTSNLMTLAIGGNGFSGKVPSFENLHKLREVSISQNPLGNGEKDDLEFVNS 181
+P + F+ L L + + N L + K +
Sbjct: 122 QS-LPDGV----------------------FDKLTNLTYLYLYHNQLQSLPKG---VFDK 155
Query: 182 LVNTSRLELLEISDTNCGGMLPEAVGNLSTRLRKLSVGNNQL 223
L N +RL+L D N LPE V + T+L++LS+ +NQL
Sbjct: 156 LTNLTRLDL----DNNQLQSLPEGVFDKLTQLKQLSLNDNQL 193
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 31.6 bits (70), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 24/104 (23%), Positives = 51/104 (49%), Gaps = 10/104 (9%)
Query: 44 TANQFVGRIPETLR-DIKRMRIIAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPS 102
+++ GR+P ++ ++KR N+L+G P + S + N+++ +
Sbjct: 45 SSDGLFGRLPHLVKLELKR--------NQLTGIEPNAFEGASHIQELQLGENKIK-EISN 95
Query: 103 DLGFTLPNLELLNVADNQFAGPIPASISNTSNLMTLAIGGNGFS 146
+ L L+ LN+ DNQ + +P S + ++L +L + N F+
Sbjct: 96 KMFLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFN 139
Score = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 26/93 (27%), Positives = 41/93 (44%), Gaps = 7/93 (7%)
Query: 32 FGNLSSLEVLSATANQFVGRIPETLRDIKRMRIIAFGINK---LSGEIPFSIYNLSSLSV 88
FG L L L NQ G P ++ + G NK +S ++ ++ L +L++
Sbjct: 50 FGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNL 109
Query: 89 FDFPVNQLQGSFPSDLGFTLPNLELLNVADNQF 121
+D NQ+ P L +L LN+A N F
Sbjct: 110 YD---NQISCVMPGSFEH-LNSLTSLNLASNPF 138
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 31.6 bits (70), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 32/122 (26%), Positives = 52/122 (42%), Gaps = 14/122 (11%)
Query: 52 IPETLRDIKRMRIIAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFT---- 107
+P+T + + + N L +P SI +L+ L P L T
Sbjct: 119 LPDTXQQFAGLETLTLARNPLRA-LPASIASLNRLRELSIRACPELTELPEPLASTDASG 177
Query: 108 ----LPNLELLNVADNQFAG--PIPASISNTSNLMTLAIGGNGFSGKVPSFENLHKLREV 161
L NL+ L + ++ G +PASI+N NL +L I + S P+ +L KL E+
Sbjct: 178 EHQGLVNLQSLRL---EWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEEL 234
Query: 162 SI 163
+
Sbjct: 235 DL 236
>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 = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 45/171 (26%), Positives = 73/171 (42%), Gaps = 20/171 (11%)
Query: 7 KLGSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQ--------FVGRIPETLRD 58
+ S P L L ++ N +S P +F NL +L L +N+ F G T D
Sbjct: 51 EFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLD 110
Query: 59 IKRMRIIAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFT-LPNLELLNVA 117
I +I+ L + +YNL SL V D N L + S F+ L +LE L +
Sbjct: 111 ISENKIVI-----LLDYMFQDLYNLKSLEVGD---NDL--VYISHRAFSGLNSLEQLTLE 160
Query: 118 DNQFAGPIPASISNTSNLMTLAIGGNGFSG-KVPSFENLHKLREVSISQNP 167
++S+ L+ L + + + SF+ L++L+ + IS P
Sbjct: 161 KCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWP 211
>pdb|4FHO|A Chain A, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
pdb|4FHO|B Chain B, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
Length = 231
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/109 (26%), Positives = 50/109 (45%), Gaps = 28/109 (25%)
Query: 134 NLMTLAIGGNGFSGKVPSFENLHKLREVSISQNPLGNGEKDDLEFVNSLVNTSRLELLEI 193
NL+ L + N + P +NL K+ E+ +S NPL N V+++ ++ L++
Sbjct: 70 NLIGLELKDNQITDLTP-LKNLTKITELELSGNPLKN--------VSAIAGLQSIKTLDL 120
Query: 194 SDTNCGGMLPEA--------------VGNLS-----TRLRKLSVGNNQL 223
+ T + P A + N+S T L+ LS+GNNQ+
Sbjct: 121 TSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNNQV 169
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 30/104 (28%), Positives = 51/104 (49%), Gaps = 9/104 (8%)
Query: 32 FGNLSSLEVLSATANQFVGRIPETLRDIKRMRIIAFGINKLSGEIPFSIYNLSSLSVFDF 91
LS+L+VL NQ P L + ++ ++ G N+++ P + NLS L+
Sbjct: 131 LAGLSNLQVLYLDLNQITNISP--LAGLTNLQYLSIGNNQVNDLTPLA--NLSKLTTLRA 186
Query: 92 PVNQLQGSFPSDLGFTLPNLELLNVADNQFAGPIPASISNTSNL 135
N++ P +LPNL +++ DNQ + P ++N SNL
Sbjct: 187 DDNKISDISPL---ASLPNLIEVHLKDNQISDVSP--LANLSNL 225
>pdb|2XOT|A Chain A, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
pdb|2XOT|B Chain B, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
Length = 361
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 30/128 (23%), Positives = 51/128 (39%), Gaps = 29/128 (22%)
Query: 11 IPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRMRIIAFGIN 70
+P LR L + +N+L F +L +LEVL N V D+ +++ + N
Sbjct: 87 VPNLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQN 146
Query: 71 KLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQFAG------- 123
++S FPV ++ G LP L LL+++ N+
Sbjct: 147 QISR----------------FPVELIKD------GNKLPKLMLLDLSSNKLKKLPLTDLQ 184
Query: 124 PIPASISN 131
+PA + N
Sbjct: 185 KLPAWVKN 192
>pdb|2WFH|A Chain A, The Human Slit 2 Dimerization Domain D4
pdb|2WFH|B Chain B, The Human Slit 2 Dimerization Domain D4
Length = 193
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 45/94 (47%), Gaps = 2/94 (2%)
Query: 4 VPGKLGSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRMR 63
VP +L + L ++ + N +S SF N++ L L + N+ P T +K +R
Sbjct: 46 VPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLR 105
Query: 64 IIAFGINKLSGEIPFSIYN-LSSLSVFDFPVNQL 96
+++ N +S +P +N LS+LS N L
Sbjct: 106 LLSLHGNDIS-VVPEGAFNDLSALSHLAIGANPL 138
Score = 28.1 bits (61), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 27/98 (27%), Positives = 45/98 (45%), Gaps = 2/98 (2%)
Query: 46 NQFVGRIPETLRDIKRMRIIAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLG 105
NQF +P+ L + K + +I N++S S N++ L N+L+ P
Sbjct: 41 NQFT-LVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFD 99
Query: 106 FTLPNLELLNVADNQFAGPIPASISNTSNLMTLAIGGN 143
L +L LL++ N + + ++ S L LAIG N
Sbjct: 100 -GLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGAN 136
>pdb|4FMZ|A Chain A, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
pdb|4FMZ|B Chain B, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
Length = 347
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 77/310 (24%), Positives = 125/310 (40%), Gaps = 79/310 (25%)
Query: 35 LSSLEVLSATANQFVGRIPETLRDIKRMRIIAFGINKLSG-----------EIPFSIYNL 83
L++LE L+ NQ P L ++ ++ + G NK++ E+ + N+
Sbjct: 65 LTNLEYLNLNGNQITDISP--LSNLVKLTNLYIGTNKITDISALQNLTNLRELYLNEDNI 122
Query: 84 SSLSVFDFPVNQLQGSFPSDLGFT--------LPN---LELLNVADNQFAGPIPASISNT 132
S +S P+ L + +LG L N L L V +++ P I+N
Sbjct: 123 SDIS----PLANLTKXYSLNLGANHNLSDLSPLSNXTGLNYLTVTESKVKDVTP--IANL 176
Query: 133 SNLMTLAIGGNGFSGKVP--SFENLH-------KLREVSISQN-------PLGNGEKDDL 176
++L +L++ N P S +LH ++ +++ N +GN + DL
Sbjct: 177 TDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQITDITPVANXTRLNSLKIGNNKITDL 236
Query: 177 EFVNSLVNTSRLELLEISDTNCGGMLPEAVGNLSTRLRKLSVGNNQLFGNIPSXXXXXXX 236
L N S+L LEI + AV +L T+L+ L+VG+NQ
Sbjct: 237 S---PLANLSQLTWLEIGTNQISDI--NAVKDL-TKLKXLNVGSNQ-------------- 276
Query: 237 XXXXXXXXXQFIGRIPESIGYLQKLQGLWLNGNKFLGEIPSSIGNLASLTILDFSANLLE 296
I I + L +L L+LN N+ E IG L +LT L S N +
Sbjct: 277 -----------ISDI-SVLNNLSQLNSLFLNNNQLGNEDXEVIGGLTNLTTLFLSQNHIT 324
Query: 297 GSIP-SSLGK 305
P +SL K
Sbjct: 325 DIRPLASLSK 334
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 28.9 bits (63), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 38/161 (23%), Positives = 58/161 (36%), Gaps = 24/161 (14%)
Query: 10 SIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRI-PETLRDIKRMRIIAFG 68
S L IL +H+N L+G ++F L+ LE L + N + + P T R + + +
Sbjct: 53 SCRNLTILWLHSNALAGIDAAAFTGLTLLEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLD 112
Query: 69 INKLSGEIPFSIYNLSSLSVFDFPVNQLQG-----------------------SFPSDLG 105
L P L++L N LQ S P
Sbjct: 113 RCGLQELGPGLFRGLAALQYLYLQDNNLQALPDNTFRDLGNLTHLFLHGNRIPSVPEHAF 172
Query: 106 FTLPNLELLNVADNQFAGPIPASISNTSNLMTLAIGGNGFS 146
L +L+ L + N A P + + LMTL + N S
Sbjct: 173 RGLHSLDRLLLHQNHVARVHPHAFRDLGRLMTLYLFANNLS 213
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 28.5 bits (62), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 42/164 (25%), Positives = 65/164 (39%), Gaps = 37/164 (22%)
Query: 62 MRIIAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQGSFPSDLGFTLPNLELLNVADNQF 121
+R +A G NKL ++ L++L+ NQLQ S P+ + L NL+ L + +NQ
Sbjct: 65 VRYLALGGNKLHD--ISALKELTNLTYLILTGNQLQ-SLPNGVFDKLTNLKELVLVENQL 121
Query: 122 AGPIPASISNTSNLMTLAIGGNGFSGKVPS--FENLHKLREVSISQNPLGNGEKDDLEFV 179
+NL L + N +P F+ L L E+ +S N L +
Sbjct: 122 QSLPDGVFDKLTNLTYLNLAHNQLQS-LPKGVFDKLTNLTELDLSYNQLQS--------- 171
Query: 180 NSLVNTSRLELLEISDTNCGGMLPEAVGNLSTRLRKLSVGNNQL 223
LPE V + T+L+ L + NQL
Sbjct: 172 ----------------------LPEGVFDKLTQLKDLRLYQNQL 193
>pdb|1XCD|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 1
pdb|1XEC|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
pdb|1XEC|B Chain B, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
Length = 329
Score = 28.1 bits (61), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 46/188 (24%), Positives = 79/188 (42%), Gaps = 30/188 (15%)
Query: 6 GKLGSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETL-RDIKRMRI 64
G ++ L L + N +S P +F L LE L + NQ + +PE + + ++ +R+
Sbjct: 70 GDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQ-LKELPEKMPKTLQELRV 128
Query: 65 IAFGINKLSGEIPFSIYN-LSSLSVFDFPVNQLQ------GSFP----------SDLGFT 107
I K+ S++N L+ + V + N L+ G+F +D T
Sbjct: 129 HENEITKVRK----SVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT 184
Query: 108 L------PNLELLNVADNQFAGPIPASISNTSNLMTLAIGGNGFSG-KVPSFENLHKLRE 160
P+L L++ N+ AS+ +NL L + N S S N LRE
Sbjct: 185 TIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRE 244
Query: 161 VSISQNPL 168
+ ++ N L
Sbjct: 245 LHLNNNKL 252
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 46/188 (24%), Positives = 79/188 (42%), Gaps = 30/188 (15%)
Query: 6 GKLGSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETL-RDIKRMRI 64
G ++ L L + N +S P +F L LE L + NQ + +PE + + ++ +R+
Sbjct: 70 GDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQ-LKELPEKMPKTLQELRV 128
Query: 65 IAFGINKLSGEIPFSIYN-LSSLSVFDFPVNQLQ------GSFP----------SDLGFT 107
I K+ S++N L+ + V + N L+ G+F +D T
Sbjct: 129 HENEITKVRK----SVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT 184
Query: 108 L------PNLELLNVADNQFAGPIPASISNTSNLMTLAIGGNGFSG-KVPSFENLHKLRE 160
P+L L++ N+ AS+ +NL L + N S S N LRE
Sbjct: 185 TIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRE 244
Query: 161 VSISQNPL 168
+ ++ N L
Sbjct: 245 LHLNNNKL 252
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 28.1 bits (61), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 28/109 (25%), Positives = 49/109 (44%), Gaps = 28/109 (25%)
Query: 134 NLMTLAIGGNGFSGKVPSFENLHKLREVSISQNPLGNGEKDDLEFVNSLVNTSRLELLEI 193
NL+ L + N + P +NL K+ E+ +S NPL N V+++ ++ L++
Sbjct: 64 NLIGLELKDNQITDLAP-LKNLTKITELELSGNPLKN--------VSAIAGLQSIKTLDL 114
Query: 194 SDTNCGGMLPEA--------------VGNLS-----TRLRKLSVGNNQL 223
+ T + P A + N+S T L+ LS+GN Q+
Sbjct: 115 TSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQV 163
>pdb|3TWI|D Chain D, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
pdb|3TWI|E Chain E, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
pdb|3TWI|F Chain F, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
Length = 179
Score = 28.1 bits (61), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 22/86 (25%), Positives = 40/86 (46%), Gaps = 7/86 (8%)
Query: 8 LGSIPK-----LRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRDIKRM 62
L S+P ++L ++ N ++ P F +L+ L L+ NQ + ++
Sbjct: 31 LASVPAGIPTTTQVLHLYINQITKLEPGVFDSLTQLTYLNLAVNQLTALPVGVFDKLTKL 90
Query: 63 RIIAFGINKLSGEIPFSIY-NLSSLS 87
+A IN+L IP ++ NL SL+
Sbjct: 91 THLALHINQLKS-IPMGVFDNLKSLT 115
>pdb|2V9S|A Chain A, Second Lrr Domain Of Human Slit2
pdb|2V9S|B Chain B, Second Lrr Domain Of Human Slit2
pdb|2V9S|C Chain C, Second Lrr Domain Of Human Slit2
pdb|2V9S|D Chain D, Second Lrr Domain Of Human Slit2
Length = 220
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 61/125 (48%), Gaps = 17/125 (13%)
Query: 5 PGKLGSIPKLRILTVHANYLSGEIPSSFGNLSSLEVLSATANQFVGRIPETLRD----IK 60
PG KLR + + N +S P +F L SL L N+ + +P++L + ++
Sbjct: 49 PGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNK-ITELPKSLFEGLFSLQ 107
Query: 61 RMRIIAFGINKLSGEIPFSIYNLSSLSVFDFPVNQLQ----GSFPSDLGFTLPNLELLNV 116
+ + A IN L + ++NL+ LS++D N+LQ G+F L ++ +++
Sbjct: 108 LLLLNANKINXLRVDAFQDLHNLNLLSLYD---NKLQTIAKGTFSP-----LRAIQTMHL 159
Query: 117 ADNQF 121
A N F
Sbjct: 160 AQNPF 164
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.316 0.137 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,117,356
Number of Sequences: 62578
Number of extensions: 352819
Number of successful extensions: 1019
Number of sequences better than 100.0: 58
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 45
Number of HSP's that attempted gapping in prelim test: 778
Number of HSP's gapped (non-prelim): 144
length of query: 342
length of database: 14,973,337
effective HSP length: 100
effective length of query: 242
effective length of database: 8,715,537
effective search space: 2109159954
effective search space used: 2109159954
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 52 (24.6 bits)