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= 046000
(470 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 = 139 bits (350), Expect = 3e-33, Method: Compositional matrix adjust.
Identities = 154/469 (32%), Positives = 214/469 (45%), Gaps = 65/469 (13%)
Query: 6 AGLHKLKNLEALDLSFNNINGTVESQESFELNLAKNNIGGHLLDCLNNMTRLKVLDTSFN 65
+G KL +LE LDLS N+I+G N+ G +L + LK L S N
Sbjct: 145 SGGLKLNSLEVLDLSANSISGA--------------NVVGWVLS--DGCGELKHLAISGN 188
Query: 66 QLSGSLP-SVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRLSSRNNNMLQLKTE 124
++SG + S VNL E+LD+S++ F P L + S L+ L +S N L +
Sbjct: 189 KISGDVDVSRCVNL---EFLDVSSNNFSTGIPF--LGDCSALQHLDISG---NKL---SG 237
Query: 125 NFLPTFQLKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSFTGNLQLP---HSK 181
+F +LK L++S N G P L++ L+ L L N FTG ++P
Sbjct: 238 DFSRAISTCTELKLLNISSNQFVGPIPPLPLKS---LQYLSLAENKFTG--EIPDFLSGA 292
Query: 182 HDFLHHLDVSSNNFTGKLPQDKGIILQKLLYIDMANNRFEGNLP-SSIGDMKTLTFLHLS 240
D L LD+S N+F G +P G +NN F G LP ++ M+ L L LS
Sbjct: 293 CDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNN-FSGELPMDTLLKMRGLKVLDLS 351
Query: 241 KNNFSGELSTLFTG-CVSLWFLDRSHNNFHDQIFPKYMNLTR--LWFLYLDNNKFSGKIE 297
N FSGEL T SL LD S NNF I P + L LYL NN F+GKI
Sbjct: 352 FNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIP 411
Query: 298 DGLLKSNQLKELDMSNNMLSGHIPHWIANFSSYLEVLLMSKNFLKGNIPMQLLNHGSLQL 357
L ++L L +S N LSG IP + + S L L + N L+G IP +L+ +L+
Sbjct: 412 PTLSNCSELVSLHLSFNYLSGTIPSSLGSLSK-LRDLKLWLNMLEGEIPQELMYVKTLE- 469
Query: 358 LSVSENCXXXXXXXXXXXXXXVHLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIIS 417
L + NDL+G IP+ L + L + L +N +G I
Sbjct: 470 ----------------------TLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIP 507
Query: 418 DQINESSNLRVLLLRGNYLEGPISNQFCQLRRLGVMDLSHNRINGSIPS 466
I NL +L L N G I + R L +DL+ N NG+IP+
Sbjct: 508 KWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPA 556
Score = 124 bits (310), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 146/515 (28%), Positives = 221/515 (42%), Gaps = 94/515 (18%)
Query: 8 LHKLKNLEALDLSFNNINGTV----ESQESFELNLAKNNIGGHLLDCLNNMTRLKVLDTS 63
+ + NLE LD+S NN + + + L+++ N + G ++ T LK+L+ S
Sbjct: 196 VSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNIS 255
Query: 64 FNQLSGSLPSVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRLSSRNNNMLQLKT 123
NQ G +P + L S++YL L+ + F G P L L LS +
Sbjct: 256 SNQFVGPIPPL--PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNH------FY 307
Query: 124 ENFLPTFQLKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSFTGNLQLPHSKHD 183
P F L+ L LS NN +G+ P L L+VL L+ N F+G +LP S +
Sbjct: 308 GAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSG--ELPESLTN 365
Query: 184 F---LHHLDVSSNNFTGK----LPQDKGIILQKLLYIDMANNRFEGNLPSSIGDMKTLTF 236
L LD+SSNNF+G L Q+ LQ+L + NN F G +P ++ + L
Sbjct: 366 LSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELY---LQNNGFTGKIPPTLSNCSELVS 422
Query: 237 LHLSKNNFSGELSTLFTGCVSLWFLDRSHNNFHDQIFPKYMNLTRLWFLYLDNNKFSGKI 296
LHLS N SG + + L L N +I + M + L L LD N +G+I
Sbjct: 423 LHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEI 482
Query: 297 EDGLLKSNQLKELDMSNNMLSGHIPHWIANFSSYLEVLLMSKNFLKGNIPMQLLNHGSLQ 356
GL L + +SNN L+G IP WI + L +L +S N GNIP +L + SL
Sbjct: 483 PSGLSNCTNLNWISLSNNRLTGEIPKWIGRLEN-LAILKLSNNSFSGNIPAELGDCRSL- 540
Query: 357 LLSVSENCXXXXXXXXXXXXXXVHLYVQRNDLSGTIPNALFRSSKLMTLD---------L 407
+ L + N +GTIP A+F+ S + + +
Sbjct: 541 ----------------------IWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYI 578
Query: 408 RDNG-------------FSGIISDQINESS------------------------NLRVLL 430
+++G F GI S+Q+N S ++ L
Sbjct: 579 KNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLD 638
Query: 431 LRGNYLEGPISNQFCQLRRLGVMDLSHNRINGSIP 465
+ N L G I + + L +++L HN I+GSIP
Sbjct: 639 MSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIP 673
Score = 122 bits (305), Expect = 6e-28, Method: Compositional matrix adjust.
Identities = 130/422 (30%), Positives = 200/422 (47%), Gaps = 63/422 (14%)
Query: 79 ASVEYLDLSNSYFEGTFP-ISSLANHSKLKVLRLSSRNNNMLQLKTENFLPTFQLK-HDL 136
AS+ LDLS + G ++SL + S LK L +SS N L + + LK + L
Sbjct: 100 ASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSS---NTLDFPGKV---SGGLKLNSL 153
Query: 137 KYLDLSHNNLAG-DFPAWILQNNT-KLEVLCLTNNSFTGNLQLPHSKHDFLHHLDVSSNN 194
+ LDLS N+++G + W+L + +L+ L ++ N +G++ + S+ L LDVSSNN
Sbjct: 154 EVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVDV--SRCVNLEFLDVSSNN 211
Query: 195 FTGKLP--QDKGIILQKLLYIDMANNRFEGNLPSSIG----------------------D 230
F+ +P D L ++D++ N+ G+ +I
Sbjct: 212 FSTGIPFLGD----CSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLP 267
Query: 231 MKTLTFLHLSKNNFSGELSTLFTG-CVSLWFLDRSHNNFHDQIFPKYMNLTRLWFLYLDN 289
+K+L +L L++N F+GE+ +G C +L LD S N+F+ + P + + + L L L +
Sbjct: 268 LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSS 327
Query: 290 NKFSGKIE-DGLLKSNQLKELDMSNNMLSGHIPHWIANFSSYLEVLLMSKNFLKGNIPMQ 348
N FSG++ D LLK LK LD+S N SG +P + N S+ L L +S N G I
Sbjct: 328 NNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPN 387
Query: 349 LLNHGSLQLLSVSENCXXXXXXXXXXXXXXVHLYVQRNDLSGTIPNALFRSSKLMTLDLR 408
L + L LY+Q N +G IP L S+L++L L
Sbjct: 388 LCQNPKNTL---------------------QELYLQNNGFTGKIPPTLSNCSELVSLHLS 426
Query: 409 DNGFSGIISDQINESSNLRVLLLRGNYLEGPISNQFCQLRRLGVMDLSHNRINGSIPSCF 468
N SG I + S LR L L N LEG I + ++ L + L N + G IPS
Sbjct: 427 FNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGL 486
Query: 469 TN 470
+N
Sbjct: 487 SN 488
Score = 107 bits (267), Expect = 1e-23, Method: Compositional matrix adjust.
Identities = 142/483 (29%), Positives = 208/483 (43%), Gaps = 88/483 (18%)
Query: 14 LEALDLSFNNINGTVES-----QESFELNLAKNNIGGHL-LDCLNNMTRLKVLDTSFNQL 67
L LDLS N+ G V L L+ NN G L +D L M LKVLD SFN+
Sbjct: 296 LTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEF 355
Query: 68 SGSLPSVIVNL-ASVEYLDLSNSYFEGTFPISSLANHSKLKVLRLSSRNNNMLQLKTENF 126
SG LP + NL AS+ LDLS++ F G + +L + K + L +NN T
Sbjct: 356 SGELPESLTNLSASLLTLDLSSNNFSGPI-LPNLCQNPKNTLQELYLQNNGF----TGKI 410
Query: 127 LPTFQLKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSFTGNLQLPHSKHDFLH 186
PT +L L LS N L+G P+ L + +KL L L N G + L
Sbjct: 411 PPTLSNCSELVSLHLSFNYLSGTIPS-SLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLE 469
Query: 187 HLDVSSNNFTGKLPQDKGII-LQKLLYIDMANNRFEGNLPSSIGDMKTLTFLHLSKNNFS 245
L + N+ TG++P G+ L +I ++NNR G +P IG ++ L L LS N+FS
Sbjct: 470 TLILDFNDLTGEIPS--GLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFS 527
Query: 246 GELSTLFTGCVSLWFLDRSHNNFHDQIFPKYMN----------LTRLWFLYLDNNKFSGK 295
G + C SL +LD + N F+ I P M + ++Y+ N+ +
Sbjct: 528 GNIPAELGDCRSLIWLDLNTNLFNGTI-PAAMFKQSGKIAANFIAGKRYVYIKNDGMKKE 586
Query: 296 -------IEDGLLKSNQLKEL------DMSNNMLSGHIPHWIANFSSYLEVLLMSKNFLK 342
+E ++S QL L ++++ + GH N S + L MS N L
Sbjct: 587 CHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMM-FLDMSYNMLS 645
Query: 343 GNIPMQLLNHGSLQLLSVSENCXXXXXXXXXXXXXXVHLYVQRNDLSGTIPNALFRSSKL 402
G IP ++ GS+ L + L + ND+SG+IP
Sbjct: 646 GYIPKEI---GSMPYLFI--------------------LNLGHNDISGSIP--------- 673
Query: 403 MTLDLRDNGFSGIISDQINESSNLRVLLLRGNYLEGPISNQFCQLRRLGVMDLSHNRING 462
D++ + L +L L N L+G I L L +DLS+N ++G
Sbjct: 674 ---------------DEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSG 718
Query: 463 SIP 465
IP
Sbjct: 719 PIP 721
Score = 105 bits (262), Expect = 5e-23, Method: Compositional matrix adjust.
Identities = 113/388 (29%), Positives = 177/388 (45%), Gaps = 54/388 (13%)
Query: 8 LHKLKNLEALDLSFNNINGTVE------SQESFELNLAKNNIGGHLLD--CLNNMTRLKV 59
L K++ L+ LDLSFN +G + S L+L+ NN G +L C N L+
Sbjct: 339 LLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQE 398
Query: 60 LDTSFNQLSGSLPSVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRL------SS 113
L N +G +P + N + + L LS +Y GT P SSL + SKL+ L+L
Sbjct: 399 LYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIP-SSLGSLSKLRDLKLWLNMLEGE 457
Query: 114 RNNNMLQLKT-ENFLPTF-----QLKH------DLKYLDLSHNNLAGDFPAWI--LQNNT 159
++ +KT E + F ++ +L ++ LS+N L G+ P WI L+N
Sbjct: 458 IPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLEN-- 515
Query: 160 KLEVLCLTNNSFTGNLQLPHSKHDFLHHLDVSSNNFTGKLP----QDKGIILQKLL---- 211
L +L L+NNSF+GN+ L LD+++N F G +P + G I +
Sbjct: 516 -LAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKR 574
Query: 212 YIDMANN-------------RFEGNLPSSIGDMKTLTFLHLSKNNFSGELSTLFTGCVSL 258
Y+ + N+ F+G + + T +++ + G S F S+
Sbjct: 575 YVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSM 634
Query: 259 WFLDRSHNNFHDQIFPKYMNLTRLWFLYLDNNKFSGKIEDGLLKSNQLKELDMSNNMLSG 318
FLD S+N I + ++ L+ L L +N SG I D + L LD+S+N L G
Sbjct: 635 MFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDG 694
Query: 319 HIPHWIANFSSYLEVLLMSKNFLKGNIP 346
IP ++ + E+ L S N L G IP
Sbjct: 695 RIPQAMSALTMLTEIDL-SNNNLSGPIP 721
Score = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 87/342 (25%), Positives = 140/342 (40%), Gaps = 60/342 (17%)
Query: 8 LHKLKNLEALDLSFNNINGTVESQ-----ESFELNLAKNNIGGHLLDCLNNMTRLKVLDT 62
L L +L LSFN ++GT+ S + +L L N + G + L + L+ L
Sbjct: 414 LSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLIL 473
Query: 63 SFNQLSGSLPSVIVNLASVEYLDLSNSYFEGTFP--ISSLANHSKLKVLRLSSRNNNMLQ 120
FN L+G +PS + N ++ ++ LSN+ G P I L N L +L+LS NN+
Sbjct: 474 DFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLEN---LAILKLS--NNSF-- 526
Query: 121 LKTENFLPTFQLKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSFT-----GNL 175
+ N L +LDL+ N G PA + + + K+ + + G
Sbjct: 527 --SGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMK 584
Query: 176 QLPHSKHDFLHHLDVSSNNFTGKLPQDKGIILQK---------------LLYIDMANNRF 220
+ H + L + S ++ I + ++++DM+ N
Sbjct: 585 KECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNML 644
Query: 221 EGNLPSSIGDMKTLTFLHLSKNNFSGELSTLFTGCVSLWFLDRSHNNFHDQIFPKYMNLT 280
G +P IG M L L+L N+ SG + D++ +L
Sbjct: 645 SGYIPKEIGSMPYLFILNLGHNDISGSIP--------------------DEV----GDLR 680
Query: 281 RLWFLYLDNNKFSGKIEDGLLKSNQLKELDMSNNMLSGHIPH 322
L L L +NK G+I + L E+D+SNN LSG IP
Sbjct: 681 GLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE 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 = 138 bits (348), Expect = 6e-33, Method: Compositional matrix adjust.
Identities = 154/469 (32%), Positives = 214/469 (45%), Gaps = 65/469 (13%)
Query: 6 AGLHKLKNLEALDLSFNNINGTVESQESFELNLAKNNIGGHLLDCLNNMTRLKVLDTSFN 65
+G KL +LE LDLS N+I+G N+ G +L + LK L S N
Sbjct: 142 SGGLKLNSLEVLDLSANSISGA--------------NVVGWVLS--DGCGELKHLAISGN 185
Query: 66 QLSGSLP-SVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRLSSRNNNMLQLKTE 124
++SG + S VNL E+LD+S++ F P L + S L+ L +S N L +
Sbjct: 186 KISGDVDVSRCVNL---EFLDVSSNNFSTGIPF--LGDCSALQHLDISG---NKL---SG 234
Query: 125 NFLPTFQLKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSFTGNLQLP---HSK 181
+F +LK L++S N G P L++ L+ L L N FTG ++P
Sbjct: 235 DFSRAISTCTELKLLNISSNQFVGPIPPLPLKS---LQYLSLAENKFTG--EIPDFLSGA 289
Query: 182 HDFLHHLDVSSNNFTGKLPQDKGIILQKLLYIDMANNRFEGNLP-SSIGDMKTLTFLHLS 240
D L LD+S N+F G +P G +NN F G LP ++ M+ L L LS
Sbjct: 290 CDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNN-FSGELPMDTLLKMRGLKVLDLS 348
Query: 241 KNNFSGELSTLFTG-CVSLWFLDRSHNNFHDQIFPKYMNLTR--LWFLYLDNNKFSGKIE 297
N FSGEL T SL LD S NNF I P + L LYL NN F+GKI
Sbjct: 349 FNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIP 408
Query: 298 DGLLKSNQLKELDMSNNMLSGHIPHWIANFSSYLEVLLMSKNFLKGNIPMQLLNHGSLQL 357
L ++L L +S N LSG IP + + S L L + N L+G IP +L+ +L+
Sbjct: 409 PTLSNCSELVSLHLSFNYLSGTIPSSLGSLSK-LRDLKLWLNMLEGEIPQELMYVKTLE- 466
Query: 358 LSVSENCXXXXXXXXXXXXXXVHLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIIS 417
L + NDL+G IP+ L + L + L +N +G I
Sbjct: 467 ----------------------TLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIP 504
Query: 418 DQINESSNLRVLLLRGNYLEGPISNQFCQLRRLGVMDLSHNRINGSIPS 466
I NL +L L N G I + R L +DL+ N NG+IP+
Sbjct: 505 KWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPA 553
Score = 123 bits (309), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 146/515 (28%), Positives = 221/515 (42%), Gaps = 94/515 (18%)
Query: 8 LHKLKNLEALDLSFNNINGTV----ESQESFELNLAKNNIGGHLLDCLNNMTRLKVLDTS 63
+ + NLE LD+S NN + + + L+++ N + G ++ T LK+L+ S
Sbjct: 193 VSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNIS 252
Query: 64 FNQLSGSLPSVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRLSSRNNNMLQLKT 123
NQ G +P + L S++YL L+ + F G P L L LS +
Sbjct: 253 SNQFVGPIPPLP--LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNH------FY 304
Query: 124 ENFLPTFQLKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSFTGNLQLPHSKHD 183
P F L+ L LS NN +G+ P L L+VL L+ N F+G +LP S +
Sbjct: 305 GAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSG--ELPESLTN 362
Query: 184 F---LHHLDVSSNNFTGK----LPQDKGIILQKLLYIDMANNRFEGNLPSSIGDMKTLTF 236
L LD+SSNNF+G L Q+ LQ+L + NN F G +P ++ + L
Sbjct: 363 LSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELY---LQNNGFTGKIPPTLSNCSELVS 419
Query: 237 LHLSKNNFSGELSTLFTGCVSLWFLDRSHNNFHDQIFPKYMNLTRLWFLYLDNNKFSGKI 296
LHLS N SG + + L L N +I + M + L L LD N +G+I
Sbjct: 420 LHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEI 479
Query: 297 EDGLLKSNQLKELDMSNNMLSGHIPHWIANFSSYLEVLLMSKNFLKGNIPMQLLNHGSLQ 356
GL L + +SNN L+G IP WI + L +L +S N GNIP +L + SL
Sbjct: 480 PSGLSNCTNLNWISLSNNRLTGEIPKWIGRLEN-LAILKLSNNSFSGNIPAELGDCRSL- 537
Query: 357 LLSVSENCXXXXXXXXXXXXXXVHLYVQRNDLSGTIPNALFRSSKLMTLD---------L 407
+ L + N +GTIP A+F+ S + + +
Sbjct: 538 ----------------------IWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYI 575
Query: 408 RDNG-------------FSGIISDQINESS------------------------NLRVLL 430
+++G F GI S+Q+N S ++ L
Sbjct: 576 KNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLD 635
Query: 431 LRGNYLEGPISNQFCQLRRLGVMDLSHNRINGSIP 465
+ N L G I + + L +++L HN I+GSIP
Sbjct: 636 MSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIP 670
Score = 121 bits (303), Expect = 1e-27, Method: Compositional matrix adjust.
Identities = 130/422 (30%), Positives = 200/422 (47%), Gaps = 63/422 (14%)
Query: 79 ASVEYLDLSNSYFEGTFP-ISSLANHSKLKVLRLSSRNNNMLQLKTENFLPTFQLK-HDL 136
AS+ LDLS + G ++SL + S LK L +SS N L + + LK + L
Sbjct: 97 ASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSS---NTLDFPGK---VSGGLKLNSL 150
Query: 137 KYLDLSHNNLAG-DFPAWILQNNT-KLEVLCLTNNSFTGNLQLPHSKHDFLHHLDVSSNN 194
+ LDLS N+++G + W+L + +L+ L ++ N +G++ + S+ L LDVSSNN
Sbjct: 151 EVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVDV--SRCVNLEFLDVSSNN 208
Query: 195 FTGKLP--QDKGIILQKLLYIDMANNRFEGNLPSSIG----------------------D 230
F+ +P D L ++D++ N+ G+ +I
Sbjct: 209 FSTGIPFLGD----CSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLP 264
Query: 231 MKTLTFLHLSKNNFSGELSTLFTG-CVSLWFLDRSHNNFHDQIFPKYMNLTRLWFLYLDN 289
+K+L +L L++N F+GE+ +G C +L LD S N+F+ + P + + + L L L +
Sbjct: 265 LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSS 324
Query: 290 NKFSGKIE-DGLLKSNQLKELDMSNNMLSGHIPHWIANFSSYLEVLLMSKNFLKGNIPMQ 348
N FSG++ D LLK LK LD+S N SG +P + N S+ L L +S N G I
Sbjct: 325 NNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPN 384
Query: 349 LLNHGSLQLLSVSENCXXXXXXXXXXXXXXVHLYVQRNDLSGTIPNALFRSSKLMTLDLR 408
L + L LY+Q N +G IP L S+L++L L
Sbjct: 385 LCQNPKNTL---------------------QELYLQNNGFTGKIPPTLSNCSELVSLHLS 423
Query: 409 DNGFSGIISDQINESSNLRVLLLRGNYLEGPISNQFCQLRRLGVMDLSHNRINGSIPSCF 468
N SG I + S LR L L N LEG I + ++ L + L N + G IPS
Sbjct: 424 FNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGL 483
Query: 469 TN 470
+N
Sbjct: 484 SN 485
Score = 107 bits (266), Expect = 2e-23, Method: Compositional matrix adjust.
Identities = 142/483 (29%), Positives = 208/483 (43%), Gaps = 88/483 (18%)
Query: 14 LEALDLSFNNINGTVES-----QESFELNLAKNNIGGHL-LDCLNNMTRLKVLDTSFNQL 67
L LDLS N+ G V L L+ NN G L +D L M LKVLD SFN+
Sbjct: 293 LTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEF 352
Query: 68 SGSLPSVIVNL-ASVEYLDLSNSYFEGTFPISSLANHSKLKVLRLSSRNNNMLQLKTENF 126
SG LP + NL AS+ LDLS++ F G + +L + K + L +NN T
Sbjct: 353 SGELPESLTNLSASLLTLDLSSNNFSGPI-LPNLCQNPKNTLQELYLQNNGF----TGKI 407
Query: 127 LPTFQLKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSFTGNLQLPHSKHDFLH 186
PT +L L LS N L+G P+ L + +KL L L N G + L
Sbjct: 408 PPTLSNCSELVSLHLSFNYLSGTIPS-SLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLE 466
Query: 187 HLDVSSNNFTGKLPQDKGII-LQKLLYIDMANNRFEGNLPSSIGDMKTLTFLHLSKNNFS 245
L + N+ TG++P G+ L +I ++NNR G +P IG ++ L L LS N+FS
Sbjct: 467 TLILDFNDLTGEIPS--GLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFS 524
Query: 246 GELSTLFTGCVSLWFLDRSHNNFHDQIFPKYMN----------LTRLWFLYLDNNKFSGK 295
G + C SL +LD + N F+ I P M + ++Y+ N+ +
Sbjct: 525 GNIPAELGDCRSLIWLDLNTNLFNGTI-PAAMFKQSGKIAANFIAGKRYVYIKNDGMKKE 583
Query: 296 -------IEDGLLKSNQLKEL------DMSNNMLSGHIPHWIANFSSYLEVLLMSKNFLK 342
+E ++S QL L ++++ + GH N S + L MS N L
Sbjct: 584 CHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMM-FLDMSYNMLS 642
Query: 343 GNIPMQLLNHGSLQLLSVSENCXXXXXXXXXXXXXXVHLYVQRNDLSGTIPNALFRSSKL 402
G IP ++ GS+ L + L + ND+SG+IP
Sbjct: 643 GYIPKEI---GSMPYLFI--------------------LNLGHNDISGSIP--------- 670
Query: 403 MTLDLRDNGFSGIISDQINESSNLRVLLLRGNYLEGPISNQFCQLRRLGVMDLSHNRING 462
D++ + L +L L N L+G I L L +DLS+N ++G
Sbjct: 671 ---------------DEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSG 715
Query: 463 SIP 465
IP
Sbjct: 716 PIP 718
Score = 105 bits (262), Expect = 6e-23, Method: Compositional matrix adjust.
Identities = 113/388 (29%), Positives = 177/388 (45%), Gaps = 54/388 (13%)
Query: 8 LHKLKNLEALDLSFNNINGTVE------SQESFELNLAKNNIGGHLLD--CLNNMTRLKV 59
L K++ L+ LDLSFN +G + S L+L+ NN G +L C N L+
Sbjct: 336 LLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQE 395
Query: 60 LDTSFNQLSGSLPSVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRL------SS 113
L N +G +P + N + + L LS +Y GT P SSL + SKL+ L+L
Sbjct: 396 LYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIP-SSLGSLSKLRDLKLWLNMLEGE 454
Query: 114 RNNNMLQLKT-ENFLPTF-----QLKH------DLKYLDLSHNNLAGDFPAWI--LQNNT 159
++ +KT E + F ++ +L ++ LS+N L G+ P WI L+N
Sbjct: 455 IPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLEN-- 512
Query: 160 KLEVLCLTNNSFTGNLQLPHSKHDFLHHLDVSSNNFTGKLP----QDKGIILQKLL---- 211
L +L L+NNSF+GN+ L LD+++N F G +P + G I +
Sbjct: 513 -LAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKR 571
Query: 212 YIDMANN-------------RFEGNLPSSIGDMKTLTFLHLSKNNFSGELSTLFTGCVSL 258
Y+ + N+ F+G + + T +++ + G S F S+
Sbjct: 572 YVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSM 631
Query: 259 WFLDRSHNNFHDQIFPKYMNLTRLWFLYLDNNKFSGKIEDGLLKSNQLKELDMSNNMLSG 318
FLD S+N I + ++ L+ L L +N SG I D + L LD+S+N L G
Sbjct: 632 MFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDG 691
Query: 319 HIPHWIANFSSYLEVLLMSKNFLKGNIP 346
IP ++ + E+ L S N L G IP
Sbjct: 692 RIPQAMSALTMLTEIDL-SNNNLSGPIP 718
Score = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 88/350 (25%), Positives = 144/350 (41%), Gaps = 61/350 (17%)
Query: 8 LHKLKNLEALDLSFNNINGTVESQ-----ESFELNLAKNNIGGHLLDCLNNMTRLKVLDT 62
L L +L LSFN ++GT+ S + +L L N + G + L + L+ L
Sbjct: 411 LSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLIL 470
Query: 63 SFNQLSGSLPSVIVNLASVEYLDLSNSYFEGTFP--ISSLANHSKLKVLRLSSRNNNMLQ 120
FN L+G +PS + N ++ ++ LSN+ G P I L N L +L+LS NN+
Sbjct: 471 DFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLEN---LAILKLS--NNSF-- 523
Query: 121 LKTENFLPTFQLKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSFT-----GNL 175
+ N L +LDL+ N G PA + + + K+ + + G
Sbjct: 524 --SGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMK 581
Query: 176 QLPHSKHDFLHHLDVSSNNFTGKLPQDKGIILQK---------------LLYIDMANNRF 220
+ H + L + S ++ I + ++++DM+ N
Sbjct: 582 KECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNML 641
Query: 221 EGNLPSSIGDMKTLTFLHLSKNNFSGELSTLFTGCVSLWFLDRSHNNFHDQIFPKYMNLT 280
G +P IG M L L+L N+ SG + D++ +L
Sbjct: 642 SGYIPKEIGSMPYLFILNLGHNDISGSIP--------------------DEV----GDLR 677
Query: 281 RLWFLYLDNNKFSGKIEDGLLKSNQLKELDMSNNMLSGHIPHWIANFSSY 330
L L L +NK G+I + L E+D+SNN LSG IP + F ++
Sbjct: 678 GLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE-MGQFETF 726
>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 = 64.7 bits (156), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 74/302 (24%), Positives = 129/302 (42%), Gaps = 26/302 (8%)
Query: 130 FQLKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSFTGNLQLPHSKHDFLHHLD 189
Q+K DL + L+ P N T L VLC T+ ++ +++LD
Sbjct: 12 LQIKKDLG----NPTTLSSWLPTTDCCNRTWLGVLCDTD-----------TQTYRVNNLD 56
Query: 190 VSSNNFTGKLPQDKGII---LQKLLYIDMANNRFEGNLPSSIGDMKTLTFLHLSKNNFSG 246
+S N P + LYI NN G +P +I + L +L+++ N SG
Sbjct: 57 LSGLNLPKPYPIPSSLANLPYLNFLYIGGINN-LVGPIPPAIAKLTQLHYLYITHTNVSG 115
Query: 247 ELSTLFTGCVSLWFLDRSHNNFHDQIFPKYMNLTRLWFLYLDNNKFSGKIEDGLLKSNQL 306
+ + +L LD S+N + P +L L + D N+ SG I D ++L
Sbjct: 116 AIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKL 175
Query: 307 -KELDMSNNMLSGHIPHWIANFSSYLEVLLMSKNFLKGNIPMQLLNHGSLQLLSVSENCX 365
+ +S N L+G IP AN + L + +S+N L+G+ + + + Q + +++N
Sbjct: 176 FTSMTISRNRLTGKIPPTFANLN--LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSL 233
Query: 366 XXXXXXXXXXXXXVHLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSN 425
L ++ N + GT+P L + L +L++ N G +I + N
Sbjct: 234 AFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCG----EIPQGGN 289
Query: 426 LR 427
L+
Sbjct: 290 LQ 291
Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 65/208 (31%), Positives = 92/208 (44%), Gaps = 35/208 (16%)
Query: 36 LNLAKNNIGGHLLDCLNNMTRLKVLDTSFNQLSGSLPSVIVNLASVEYLDLSNSYFEGTF 95
L + N+ G + D L+ + L LD S+N LSG+LP I +L ++ + + G
Sbjct: 106 LYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAI 165
Query: 96 PISSLANHSKLKVLRLSSRNNNMLQLKTENFLPTFQLKHDLKYLDLSHNNLAGDFPAWIL 155
P S + SKL SRN T PTF +L ++DLS N L GD A +L
Sbjct: 166 P-DSYGSFSKLFTSMTISRNR-----LTGKIPPTFA-NLNLAFVDLSRNMLEGD--ASVL 216
Query: 156 ----QNNTKLEV--------------------LCLTNNSFTGNLQLPHSKHDFLHHLDVS 191
+N K+ + L L NN G L ++ FLH L+VS
Sbjct: 217 FGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVS 276
Query: 192 SNNFTGKLPQDKGIILQKLLYIDMANNR 219
NN G++PQ G LQ+ ANN+
Sbjct: 277 FNNLCGEIPQ--GGNLQRFDVSAYANNK 302
Score = 56.6 bits (135), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 31/92 (33%), Positives = 47/92 (51%), Gaps = 1/92 (1%)
Query: 380 HLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYLEGP 439
+LY+ ++SG IP+ L + L+TLD N SG + I+ NL + GN + G
Sbjct: 105 YLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGA 164
Query: 440 ISNQFCQLRRL-GVMDLSHNRINGSIPSCFTN 470
I + + +L M +S NR+ G IP F N
Sbjct: 165 IPDSYGSFSKLFTSMTISRNRLTGKIPPTFAN 196
Score = 55.1 bits (131), Expect = 8e-08, Method: Compositional matrix adjust.
Identities = 61/223 (27%), Positives = 89/223 (39%), Gaps = 47/223 (21%)
Query: 266 NNFHDQIFPKYMNLTRLWFLYLDNNKFSGKIEDGLLKSNQLKELDMSNNMLSGHIPHWIA 325
NN I P LT+L +LY+ + SG I D L + L LD S N LSG +P I+
Sbjct: 87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSIS 146
Query: 326 NFSSYLEVLLMSKNFLKGNIPMQLLNHGSLQLLSVSENCXXXXXXXXXXXXXXVHLYVQR 385
+ + + + N + G IP ++GS L S + + R
Sbjct: 147 SLPNLVGITF-DGNRISGAIPD---SYGSFSKLFTS-------------------MTISR 183
Query: 386 NDLSGTIPNALFRSSKLMTLDLRDNGFSGIIS-----------------------DQINE 422
N L+G IP F + L +DL N G S ++
Sbjct: 184 NRLTGKIP-PTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGL 242
Query: 423 SSNLRVLLLRGNYLEGPISNQFCQLRRLGVMDLSHNRINGSIP 465
S NL L LR N + G + QL+ L +++S N + G IP
Sbjct: 243 SKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIP 285
Score = 37.7 bits (86), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 39/83 (46%)
Query: 386 NDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYLEGPISNQFC 445
N+L G IP A+ + ++L L + SG I D +++ L L N L G +
Sbjct: 87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSIS 146
Query: 446 QLRRLGVMDLSHNRINGSIPSCF 468
L L + NRI+G+IP +
Sbjct: 147 SLPNLVGITFDGNRISGAIPDSY 169
>pdb|3RG1|A Chain A, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|E Chain E, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|I Chain I, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|M Chain M, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|B Chain B, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|F Chain F, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|J Chain J, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|N Chain N, Crystal Structure Of The Rp105MD-1 Complex
Length = 612
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 72/273 (26%), Positives = 118/273 (43%), Gaps = 52/273 (19%)
Query: 8 LHKLKNLEALDLSFNNINGTVESQESFELNLAKNNIGGHLLDCLN----NMTRLKVLDTS 63
L KL+NL+ LDLS ++I + DC N N+ L+ L+ S
Sbjct: 345 LEKLENLQKLDLSHSDIEAS---------------------DCCNLQLKNLRHLQYLNLS 383
Query: 64 FNQLSGSLPSVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRLSSRNNNMLQLKT 123
+N+ G +E LD++ ++ P S N L+VL LS + +L
Sbjct: 384 YNEPLGLEDQAFKECPQLELLDVAFTHLHVKAPHSPFQNLHLLRVLNLS---HCLLDTSN 440
Query: 124 ENFLPTFQLKHDLKYLDLSHNNLA-GDFPAW-ILQNNTKLEVLCLTN-NSFTGNLQLPHS 180
++ L Q DL++L+L N+ G +LQ LE+L L++ N + + Q H
Sbjct: 441 QHLLAGLQ---DLRHLNLQGNSFQDGSISKTNLLQMVGSLEILILSSCNLLSIDQQAFHG 497
Query: 181 KHDFLHHLDVSSNNFTG----KLPQDKGIILQKLLYIDMANNRFEGNLPSSIGDMKTLTF 236
+ ++HLD+S N+ TG L KG LY++MA+N P + + +
Sbjct: 498 LRN-VNHLDLSHNSLTGDSMDALSHLKG------LYLNMASNNIRIIPPHLLPALSQQSI 550
Query: 237 LHLSKNNFSGELSTLFTGCVSLWFLDRSHNNFH 269
++LS N L C ++ F+ N H
Sbjct: 551 INLSHN-------PLDCTCSNIHFITWYKENLH 576
>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 = 42.4 bits (98), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 77/265 (29%), Positives = 113/265 (42%), Gaps = 60/265 (22%)
Query: 20 SFNNINGTVESQESFELNLAKNNIGGHLLDC---------LNNMTRLKVLDTSFNQLSGS 70
SF+ ++ T+E + F N ++ L++C L ++ RL +F G
Sbjct: 286 SFSLVSVTIERVKDFSYNFGWQHL--ELVNCKFGQFPTLKLKSLKRL-----TFTSNKGG 338
Query: 71 LPSVIVNLASVEYLDLSNS--YFEGTFPISSLANHSKLKVLRLSSRNNNMLQLKTENFLP 128
V+L S+E+LDLS + F+G S S LK L LS N + + NFL
Sbjct: 339 NAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTS-LKYLDLSF---NGVITMSSNFLG 394
Query: 129 TFQLKHDLKYLDLSHNNLA--GDFPAWI-LQNNTKLEVLCLTNNSFTGNLQLPHSKHDFL 185
QL+H LD H+NL +F ++ L+N L++ H+
Sbjct: 395 LEQLEH----LDFQHSNLKQMSEFSVFLSLRNLIYLDI--------------SHT----- 431
Query: 186 HHLDVSSNN-FTGKLPQDKGIILQKLLYIDMANNRFEGN-LPSSIGDMKTLTFLHLSKNN 243
H V+ N F G L L + MA N F+ N LP +++ LTFL LS+
Sbjct: 432 -HTRVAFNGIFNG---------LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ 481
Query: 244 FSGELSTLFTGCVSLWFLDRSHNNF 268
T F SL L+ SHNNF
Sbjct: 482 LEQLSPTAFNSLSSLQVLNMSHNNF 506
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 42/146 (28%), Positives = 64/146 (43%), Gaps = 12/146 (8%)
Query: 331 LEVLLMSKNFL--KGNIPMQLLNHGSLQLLSVSENCXXXXXXXXXXXXXXVHLYVQRNDL 388
LE L +S+N L KG SL+ L +S N HL Q ++L
Sbjct: 349 LEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNL 408
Query: 389 SGTIPNALFRSSK-LMTLDLRDN----GFSGIISDQINESSNLRVLLLRGN-YLEGPISN 442
++F S + L+ LD+ F+GI N S+L VL + GN + E + +
Sbjct: 409 KQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIF----NGLSSLEVLKMAGNSFQENFLPD 464
Query: 443 QFCQLRRLGVMDLSHNRINGSIPSCF 468
F +LR L +DLS ++ P+ F
Sbjct: 465 IFTELRNLTFLDLSQCQLEQLSPTAF 490
>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 = 42.0 bits (97), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 77/265 (29%), Positives = 113/265 (42%), Gaps = 60/265 (22%)
Query: 20 SFNNINGTVESQESFELNLAKNNIGGHLLDC---------LNNMTRLKVLDTSFNQLSGS 70
SF+ ++ T+E + F N ++ L++C L ++ RL +F G
Sbjct: 310 SFSLVSVTIERVKDFSYNFGWQHL--ELVNCKFGQFPTLKLKSLKRL-----TFTSNKGG 362
Query: 71 LPSVIVNLASVEYLDLSNS--YFEGTFPISSLANHSKLKVLRLSSRNNNMLQLKTENFLP 128
V+L S+E+LDLS + F+G S S LK L LS N + + NFL
Sbjct: 363 NAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTIS-LKYLDLSF---NGVITMSSNFLG 418
Query: 129 TFQLKHDLKYLDLSHNNLA--GDFPAWI-LQNNTKLEVLCLTNNSFTGNLQLPHSKHDFL 185
QL+H LD H+NL +F ++ L+N L++ H+
Sbjct: 419 LEQLEH----LDFQHSNLKQMSEFSVFLSLRNLIYLDI--------------SHT----- 455
Query: 186 HHLDVSSNN-FTGKLPQDKGIILQKLLYIDMANNRFEGN-LPSSIGDMKTLTFLHLSKNN 243
H V+ N F G L L + MA N F+ N LP +++ LTFL LS+
Sbjct: 456 -HTRVAFNGIFNG---------LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ 505
Query: 244 FSGELSTLFTGCVSLWFLDRSHNNF 268
T F SL L+ SHNNF
Sbjct: 506 LEQLSPTAFNSLSSLQVLNMSHNNF 530
Score = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 42/146 (28%), Positives = 64/146 (43%), Gaps = 12/146 (8%)
Query: 331 LEVLLMSKNFL--KGNIPMQLLNHGSLQLLSVSENCXXXXXXXXXXXXXXVHLYVQRNDL 388
LE L +S+N L KG SL+ L +S N HL Q ++L
Sbjct: 373 LEFLDLSRNGLSFKGCCSQSDFGTISLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNL 432
Query: 389 SGTIPNALFRSSK-LMTLDLRDN----GFSGIISDQINESSNLRVLLLRGN-YLEGPISN 442
++F S + L+ LD+ F+GI N S+L VL + GN + E + +
Sbjct: 433 KQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIF----NGLSSLEVLKMAGNSFQENFLPD 488
Query: 443 QFCQLRRLGVMDLSHNRINGSIPSCF 468
F +LR L +DLS ++ P+ F
Sbjct: 489 IFTELRNLTFLDLSQCQLEQLSPTAF 514
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 41.2 bits (95), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 74/279 (26%), Positives = 115/279 (41%), Gaps = 55/279 (19%)
Query: 20 SFNNINGTVESQESFELNLAKNNIGGHLLDC---------LNNMTRLKVLDTSFNQLSGS 70
SF+ ++ T+E + F N ++ L++C L ++ RL +F G
Sbjct: 286 SFSLVSVTIERVKDFSYNFGWQHL--ELVNCKFGQFPTLKLKSLKRL-----TFTSNKGG 338
Query: 71 LPSVIVNLASVEYLDLSNS--YFEGTFPISSLANHSKLKVLRLSSRNNNMLQLKTENFLP 128
V+L S+E+LDLS + F+G S S LK L LS N + + NFL
Sbjct: 339 NAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTS-LKYLDLSF---NGVITMSSNFLG 394
Query: 129 TFQLKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSFTGNLQLPHSKHDFLHHL 188
QL+H LD H+NL + ++ V N ++ H++ F
Sbjct: 395 LEQLEH----LDFQHSNL---------KQMSEFSVFLSLRNLIYLDISHTHTRVAF---- 437
Query: 189 DVSSNNFTGKLPQDKGIILQKLLYIDMANNRFEGN-LPSSIGDMKTLTFLHLSKNNFSGE 247
+ F G L L + MA N F+ N LP +++ LTFL LS+
Sbjct: 438 ---NGIFNG---------LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQL 485
Query: 248 LSTLFTGCVSLWFLDRSHNNFH---DQIFPKYMNLTRLW 283
T F SL L+ + N D IF + +L ++W
Sbjct: 486 SPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIW 524
Score = 28.9 bits (63), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 42/146 (28%), Positives = 64/146 (43%), Gaps = 12/146 (8%)
Query: 331 LEVLLMSKNFL--KGNIPMQLLNHGSLQLLSVSENCXXXXXXXXXXXXXXVHLYVQRNDL 388
LE L +S+N L KG SL+ L +S N HL Q ++L
Sbjct: 349 LEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNL 408
Query: 389 SGTIPNALFRSSK-LMTLDLRDN----GFSGIISDQINESSNLRVLLLRGN-YLEGPISN 442
++F S + L+ LD+ F+GI N S+L VL + GN + E + +
Sbjct: 409 KQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIF----NGLSSLEVLKMAGNSFQENFLPD 464
Query: 443 QFCQLRRLGVMDLSHNRINGSIPSCF 468
F +LR L +DLS ++ P+ F
Sbjct: 465 IFTELRNLTFLDLSQCQLEQLSPTAF 490
>pdb|3T6Q|A Chain A, Crystal Structure Of Mouse Rp105MD-1 Complex
pdb|3T6Q|B Chain B, Crystal Structure Of Mouse Rp105MD-1 Complex
Length = 606
Score = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 71/280 (25%), Positives = 114/280 (40%), Gaps = 67/280 (23%)
Query: 2 LFLGAG-LHKLKNLEALDLSFNNINGTVESQESFELNLAKNNIGGHLLDCLN----NMTR 56
L LG G L L+NL LDLS ++I + DC N N++
Sbjct: 339 LELGTGCLENLENLRELDLSHDDIETS---------------------DCCNLQLRNLSH 377
Query: 57 LKVLDTSFNQLSGSLPSVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRLSSRNN 116
L+ L+ S+N+ +E LDL+ + + S N LKVL LS +
Sbjct: 378 LQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLS---H 434
Query: 117 NMLQLKTENF---LPTFQLKHDLKYLDLSHNNLAGD-FPAWILQNNT------KLEVLCL 166
++L + +E LP Q H NL G+ FP +Q +LE+L L
Sbjct: 435 SLLDISSEQLFDGLPALQ-----------HLNLQGNHFPKGNIQKTNSLQTLGRLEILVL 483
Query: 167 TNNSFTGNLQLPHSKHDFLHHLDVSSNNFTG----KLPQDKGIILQKLLYIDMANNRFEG 222
+ + Q + ++H+D+S N T L KGI Y+++A+N
Sbjct: 484 SFCDLSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKGI------YLNLASNHISI 537
Query: 223 NLPSSIGDMKTLTFLHLSKNNFSGELSTLFTGCVSLWFLD 262
LPS + + ++L +N L C +++FL+
Sbjct: 538 ILPSLLPILSQQRTINLRQN-------PLDCTCSNIYFLE 570
Score = 29.3 bits (64), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 43/146 (29%), Positives = 71/146 (48%), Gaps = 22/146 (15%)
Query: 8 LHKLKNLEALDLSFNNINGTVE-SQESFELNLAKN---NIGGHLLDCLNNMTRLKVLDTS 63
L ++++ D+S G E S ES +NL K+ NI + C + + L + T
Sbjct: 232 LGTFEDMDDEDISPAVFEGLCEMSVES--INLQKHYFFNISSNTFHCFSGLQELDLTATH 289
Query: 64 FNQLSGSLPSVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRLSSRNNNMLQLKT 123
++L PS +V L++++ L LS + FE IS+ +N L L + N L+L T
Sbjct: 290 LSEL----PSGLVGLSTLKKLVLSANKFENLCQISA-SNFPSLTHLSIKG-NTKRLELGT 343
Query: 124 ---ENFLPTFQLKHDLKYLDLSHNNL 146
EN +L+ LDLSH+++
Sbjct: 344 GCLENL-------ENLRELDLSHDDI 362
>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 = 37.0 bits (84), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 40/128 (31%), Positives = 57/128 (44%), Gaps = 9/128 (7%)
Query: 207 LQKLLYIDMANNRFEGN-LPSSIGDMKTLTFLHLSKNNFSGELSTLFTGCVSLWFLDRSH 265
L L + MA N F+ N LP +++ LTFL LS+ T F SL L+ SH
Sbjct: 149 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 208
Query: 266 NNFHD-QIFPKYMNLTRLWFL-YLDNNKFSGKIEDGLLKSNQLKELDMSNNMLSGHIPH- 322
NNF FP Y L L L Y N+ + K ++ + L L+++ N + H
Sbjct: 209 NNFFSLDTFP-YKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCEHQ 267
Query: 323 ----WIAN 326
WI +
Sbjct: 268 SFLQWIKD 275
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 52/188 (27%), Positives = 82/188 (43%), Gaps = 15/188 (7%)
Query: 289 NNKFSGKIEDGLLKSNQLKELDMSNNMLSGHIPHWIANFSSYLEVLLMSKNFL--KGNIP 346
N+K + G+ S EL+ SN + S +PH + + + L L +S N L KG
Sbjct: 15 NSKGLTSVPTGIPSSATRLELE-SNKLQS--LPHGVFDKLTQLTKLSLSSNGLSFKGCCS 71
Query: 347 MQLLNHGSLQLLSVSENCXXXXXXXXXXXXXXVHLYVQRNDLSGTIPNALFRSSK-LMTL 405
SL+ L +S N HL Q ++L ++F S + L+ L
Sbjct: 72 QSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYL 131
Query: 406 DLRDN----GFSGIISDQINESSNLRVLLLRGN-YLEGPISNQFCQLRRLGVMDLSHNRI 460
D+ F+GI N S+L VL + GN + E + + F +LR L +DLS ++
Sbjct: 132 DISHTHTRVAFNGIF----NGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQL 187
Query: 461 NGSIPSCF 468
P+ F
Sbjct: 188 EQLSPTAF 195
>pdb|3B2D|A Chain A, Crystal Structure Of Human Rp105MD-1 Complex
pdb|3B2D|B Chain B, Crystal Structure Of Human Rp105MD-1 Complex
Length = 603
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 72/279 (25%), Positives = 109/279 (39%), Gaps = 51/279 (18%)
Query: 2 LFLGAG-LHKLKNLEALDLSFNNINGTVESQESFELNLAKNNIGGHLLDC----LNNMTR 56
L LG G L KL NL+ LDLS N+I + DC L N++
Sbjct: 336 LHLGVGCLEKLGNLQTLDLSHNDIEAS---------------------DCCSLQLKNLSH 374
Query: 57 LKVLDTSFNQLSGSLPSVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRLSSRNN 116
L+ L+ S N+ G +E LDL+ + P S N L+VL L+
Sbjct: 375 LQTLNLSHNEPLGLQSQAFKECPQLELLDLAFTRLHINAPQSPFQNLHFLQVLNLTYC-- 432
Query: 117 NMLQLKTENFLPTFQLKHDLKYLDLSHNNLA-GDFPAW-ILQNNTKLEVLCLTNNSFTGN 174
L ++ L + L++L+L N+ G +LQ LEVL L++
Sbjct: 433 -FLDTSNQHLLAGLPV---LRHLNLKGNHFQDGTITKTNLLQTVGSLEVLILSSCGLLSI 488
Query: 175 LQLPHSKHDFLHHLDVSSNNFT----GKLPQDKGIILQKLLYIDMANNRFEGNLPSSIGD 230
Q + H+D+S N+ T L KGI Y+++A N P +
Sbjct: 489 DQQAFHSLGKMSHVDLSHNSLTCDSIDSLSHLKGI------YLNLAANSINIISPRLLPI 542
Query: 231 MKTLTFLHLSKNNFSGELSTLFTGCVSLWFLDRSHNNFH 269
+ + ++LS N L C ++ FL N H
Sbjct: 543 LSQQSTINLSHN-------PLDCTCSNIHFLTWYKENLH 574
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 44/163 (26%), Positives = 71/163 (43%), Gaps = 11/163 (6%)
Query: 185 LHHLDVSSNNFTGKLPQDKGIILQKLLYIDMANNRFEGNLPSSIGDMKTLTFLHLSKNNF 244
L LD+++ + G KG+ L K L + + N F+ S + +LT L++ N
Sbjct: 277 LQELDLTATHLKGLPSGMKGLNLLKKLVLSV--NHFDQLCQISAANFPSLTHLYIRGNVK 334
Query: 245 SGELSTLFTGCVS----LWFLDRSHNNFH--DQIFPKYMNLTRLWFLYLDNNKFSGKIED 298
L GC+ L LD SHN+ D + NL+ L L L +N+ G
Sbjct: 335 KLHLGV---GCLEKLGNLQTLDLSHNDIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQ 391
Query: 299 GLLKSNQLKELDMSNNMLSGHIPHWIANFSSYLEVLLMSKNFL 341
+ QL+ LD++ L + P +L+VL ++ FL
Sbjct: 392 AFKECPQLELLDLAFTRLHINAPQSPFQNLHFLQVLNLTYCFL 434
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 33.5 bits (75), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 36/114 (31%), Positives = 53/114 (46%), Gaps = 8/114 (7%)
Query: 207 LQKLLYIDMANNRFEGNLPSSIGDMKT-LTFLHLSKNNFSGELSTLFTGCVSLWFLDRSH 265
L L Y+ + N+ + +LP+ + D T L L L +N +F +L +L H
Sbjct: 84 LTNLTYLILTGNQLQ-SLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLYLYH 142
Query: 266 NNFHD---QIFPKYMNLTRLWFLYLDNNKFSGKIEDGLLKSNQLKELDMSNNML 316
N +F K NLTRL LDNN+ E K QLK+L +++N L
Sbjct: 143 NQLQSLPKGVFDKLTNLTRL---DLDNNQLQSLPEGVFDKLTQLKQLSLNDNQL 193
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 32/120 (26%), Positives = 56/120 (46%), Gaps = 7/120 (5%)
Query: 226 SSIGDMKTLTFLHLSKNNFSGELSTLF---TGCVSLWFLDRSHNNFHDQIFPKYMNLTRL 282
S++ ++ LT+L L+ N + +F T L ++ + D +F K NLT
Sbjct: 79 SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLT-- 136
Query: 283 WFLYLDNNKFSGKIEDGLLKSNQLKELDMSNNMLSGHIPHWIANFSSYLEVLLMSKNFLK 342
+LYL +N+ + K L LD+ NN L +P + + + L+ L ++ N LK
Sbjct: 137 -YLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQS-LPEGVFDKLTQLKQLSLNDNQLK 194
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
From Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
Effector Protein From Yersinia Pestis
Length = 454
Score = 33.5 bits (75), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 65/234 (27%), Positives = 102/234 (43%), Gaps = 53/234 (22%)
Query: 62 TSFNQLSGSLPSVIV---NLASV-------EYLDLSNSYFEGTFPISSLANHSKLKVLRL 111
T +L SL S++V NL ++ EYL +SN+ E + L N S LK++ +
Sbjct: 104 TELPELPQSLKSLLVDNNNLKALSDLPPLLEYLGVSNNQLEK---LPELQNSSFLKIIDV 160
Query: 112 SSRNNNMLQLKTENFLPTFQLKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSF 171
NN++ +L L L+++ +N L + P LQN L + NNS
Sbjct: 161 D--NNSLKKLP--------DLPPSLEFIAAGNNQLE-ELPE--LQNLPFLTAIYADNNSL 207
Query: 172 TGNLQLPHSKHDFLHHLDVSSNNFTGKLPQDKGIILQKLLYIDMANNRFE--GNLPSSIG 229
LP S V+ NN +LP+ + + +Y D NN + +LP S+
Sbjct: 208 KKLPDLPLSLESI-----VAGNNILEELPELQNLPFLTTIYAD--NNLLKTLPDLPPSLE 260
Query: 230 DM--------------KTLTFLHLSKNNFSGELSTLFTGCVSLWFLDRSHNNFH 269
+ ++LTFL +S+N FSG LS L L++L+ S N
Sbjct: 261 ALNVRDNYLTDLPELPQSLTFLDVSENIFSG-LSELPPN---LYYLNASSNEIR 310
>pdb|3BZ5|A Chain A, Functional Domain Of Inlj From Listeria Monocytogenes
Includes A Cysteine Ladder
Length = 457
Score = 32.0 bits (71), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 66/261 (25%), Positives = 118/261 (45%), Gaps = 44/261 (16%)
Query: 133 KHDLKYLDLSHNNLAGDFPAWILQNNTKLEV-----LCLTNNSFTGNLQLPHSKHDFLHH 187
++ L +D+SHN + + + TKL+V L + SF +L S++ L+
Sbjct: 136 RNTLTEIDVSHNTQLTELDCHLNKKITKLDVTPQTQLTTLDCSFNKITELDVSQNKLLNR 195
Query: 188 LDVSSNNFTGKLPQDKGIILQKLLYIDMANNRFEGNLPSSIGDMKTLTFLHLSKNNFS-- 245
L+ +NN T KL ++ I +L ++D ++N+ + + LT+ S N +
Sbjct: 196 LNCDTNNIT-KLDLNQNI---QLTFLDCSSNKLTE---IDVTPLTQLTYFDCSVNPLTEL 248
Query: 246 -----GELSTLFTGCVSLWFLDRSHNN----FHDQIFPKY--MNLTRLWFLYLDNNKFSG 294
+L+TL L +D +HN F + K +++T LYL + + +G
Sbjct: 249 DVSTLSKLTTLHCIQTDLLEIDLTHNTQLIYFQAEGCRKIKELDVTHNTQLYLLDCQAAG 308
Query: 295 KIEDGL----------LKSNQLKELDMSNNM----LSGHIPHWIANFSSYLEVLLMSKNF 340
E L L + +L ELD+S+N LS H I +FSS ++ ++ NF
Sbjct: 309 ITELDLSQNPKLVYLYLNNTELTELDVSHNTKLKSLSCVNAH-IQDFSSVGKIPALNNNF 367
Query: 341 -LKG---NIPMQLLNHGSLQL 357
+G +P + L + SL +
Sbjct: 368 EAEGQTITMPKETLTNNSLTI 388
>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 = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 51/224 (22%), Positives = 83/224 (37%), Gaps = 31/224 (13%)
Query: 143 HNNLAGDFPAWILQNNTKLEVLCLTNNSFTGNLQLPHSKHDFLHHLDVSSNNFTGKLPQD 202
H N PA Q+ L +L L +N+ G + L LD+S N
Sbjct: 39 HGNRISYVPAASFQSCRNLTILWLHSNALAGIDAAAFTGLTLLEQLDLSDN--------- 89
Query: 203 KGIILQKLLYIDMANNRFEGNLPSSIGDMKTLTFLHLSKNNFSGELSTLFTGCVSLWFLD 262
+L +D P++ + L LHL + LF G +L +L
Sbjct: 90 -----AQLRVVD----------PTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQYLY 134
Query: 263 RSHNNFHDQIFP--KYMNLTRLWFLYLDNNKFSGKIEDGLLKSNQLKELDMSNNMLSGHI 320
NN Q P + +L L L+L N+ E + L L + N ++
Sbjct: 135 LQDNNL--QALPDNTFRDLGNLTHLFLHGNRIPSVPEHAFRGLHSLDRLLLHQNHVARVH 192
Query: 321 PHWIANFSSYLEVLLMSKNFLKGNIPMQLLNH-GSLQLLSVSEN 363
PH + + + L + N +P ++L SLQ L +++N
Sbjct: 193 PHAFRDLGRLMTLYLFANNL--SMLPAEVLVPLRSLQYLRLNDN 234
>pdb|3CIG|A Chain A, Crystal Structure Of Mouse Tlr3 Ectodomain
pdb|3CIY|A Chain A, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
pdb|3CIY|B Chain B, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
Length = 697
Score = 30.4 bits (67), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 79/304 (25%), Positives = 127/304 (41%), Gaps = 59/304 (19%)
Query: 10 KLKNLEALDLSFNNI----NGTVESQESFE-LNLAKNNIGGHLLDCLNNMTRLKVLD--T 62
K NL LDLS+NN+ NG+ S L+L NNI ++ L+ L
Sbjct: 246 KWTNLTQLDLSYNNLHDVGNGSFSYLPSLRYLSLEYNNIQRLSPRSFYGLSNLRYLSLKR 305
Query: 63 SFNQLSGSLPS-------VIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRLSSRN 115
+F + S SL S L +EYL++ ++ T ++ LK L LS
Sbjct: 306 AFTKQSVSLASHPNIDDFSFQWLKYLEYLNMDDNNIPST-KSNTFTGLVSLKYLSLSKTF 364
Query: 116 NNMLQLKTENFLPTFQLKHD-LKYLDLSHNNLA----GDFPAWILQNNTKLEVLCLTNNS 170
++ L E F+ L H L L+L+ N+++ G F +W+ Q L +L L N
Sbjct: 365 TSLQTLTNETFV---SLAHSPLLTLNLTKNHISKIANGTF-SWLGQ----LRILDLGLNE 416
Query: 171 FTGNLQLPHSKH---------DFLHHLDVSSNNFTGKLPQDKGIILQKLLY--IDMANNR 219
L + + +L +S+++F +P + ++L+++ +D++
Sbjct: 417 IEQKLSGQEWRGLRNIFEIYLSYNKYLQLSTSSF-ALVPSLQRLMLRRVALKNVDIS--- 472
Query: 220 FEGNLPSSIGDMKTLTFLHLSKNNFSGELSTLFTGCVSLWFLDRSHNNFHDQIFPKYMNL 279
PS ++ LT L LS NN + L G +L LD HN NL
Sbjct: 473 -----PSPFRPLRNLTILDLSNNNIANINEDLLEGLENLEILDFQHN-----------NL 516
Query: 280 TRLW 283
RLW
Sbjct: 517 ARLW 520
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 53/211 (25%), Positives = 81/211 (38%), Gaps = 33/211 (15%)
Query: 132 LKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSFTGNLQLPHSKHDFLHHLDVS 191
+ D K LDL N L+ P+ TKL +L L +N LP L +L+
Sbjct: 35 IPADTKKLDLQSNKLSS-LPSKAFHRLTKLRLLYLNDNKLQ---TLPAGIFKELKNLET- 89
Query: 192 SNNFTGKLPQDKGIILQKLLYIDMANNRFEGNLPSSIGD-MKTLTFLHLSKNNFSGELST 250
L++ +N+ + LP + D + L L L +N
Sbjct: 90 -------------------LWV--TDNKLQA-LPIGVFDQLVNLAELRLDRNQLKSLPPR 127
Query: 251 LFTGCVSLWFLDRSHNNFHDQIFPK--YMNLTRLWFLYLDNNKFSGKIEDGLLKSNQLKE 308
+F L +L +N Q PK + LT L L L NN+ E K +LK
Sbjct: 128 VFDSLTKLTYLSLGYNEL--QSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKT 185
Query: 309 LDMSNNMLSGHIPHWIANFSSYLEVLLMSKN 339
L + NN L +P + L++L + +N
Sbjct: 186 LKLDNNQLK-RVPEGAFDSLEKLKMLQLQEN 215
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 42/147 (28%), Positives = 66/147 (44%), Gaps = 13/147 (8%)
Query: 4 LGAGLHK-LKNLEALDLSFNNIN----GTVESQESF-ELNLAKNNIGGHLLDCLNNMTRL 57
L AG+ K LKNLE L ++ N + G + + EL L +N + +++T+L
Sbjct: 76 LPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKL 135
Query: 58 KVLDTSFNQLSGSLPSVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRLSSRNNN 117
L +N+L V L S++ L L N+ + P + ++LK L+L +NN
Sbjct: 136 TYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLK-RVPEGAFDKLTELKTLKL---DNN 191
Query: 118 MLQLKTENFLPTFQLKHDLKYLDLSHN 144
L+ E F LK L L N
Sbjct: 192 QLKRVPEG---AFDSLEKLKMLQLQEN 215
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 37/83 (44%)
Query: 379 VHLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYLEG 438
V L ++RN L+G PNA +S + L L +N I + L+ L L N +
Sbjct: 57 VKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISC 116
Query: 439 PISNQFCQLRRLGVMDLSHNRIN 461
+ F L L ++L+ N N
Sbjct: 117 VMPGSFEHLNSLTSLNLASNPFN 139
>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 = 29.6 bits (65), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 47/106 (44%), Gaps = 7/106 (6%)
Query: 6 AGLHKLKNLEALDLSFNNINGTVESQESFELNLAKNNIGGHLLDCLNNMTRLKVLDTSFN 65
A L + L A + I G L L N I L L N+T++ L+ S N
Sbjct: 44 ADLDGIATLSAFNTGVTTIEGIQYLNNLIGLELKDNQITD--LTPLKNLTKITELELSGN 101
Query: 66 QLSGSLPSVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRL 111
L S I L S++ LDL+++ P++ L+N L+VL L
Sbjct: 102 PLKNV--SAIAGLQSIKTLDLTSTQITDVTPLAGLSN---LQVLYL 142
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 46/106 (43%), Gaps = 7/106 (6%)
Query: 6 AGLHKLKNLEALDLSFNNINGTVESQESFELNLAKNNIGGHLLDCLNNMTRLKVLDTSFN 65
A L + L A I G L L N I L L N+T++ L+ S N
Sbjct: 38 ADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDNQITD--LAPLKNLTKITELELSGN 95
Query: 66 QLSGSLPSVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRL 111
L S I L S++ LDL+++ P++ L+N L+VL L
Sbjct: 96 PLKNV--SAIAGLQSIKTLDLTSTQITDVTPLAGLSN---LQVLYL 136
>pdb|1DM5|A Chain A, Annexin Xii E105k Homohexamer Crystal Structure
pdb|1DM5|B Chain B, Annexin Xii E105k Homohexamer Crystal Structure
pdb|1DM5|C Chain C, Annexin Xii E105k Homohexamer Crystal Structure
pdb|1DM5|D Chain D, Annexin Xii E105k Homohexamer Crystal Structure
pdb|1DM5|E Chain E, Annexin Xii E105k Homohexamer Crystal Structure
pdb|1DM5|F Chain F, Annexin Xii E105k Homohexamer Crystal Structure
Length = 315
Score = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 263 RSHNNFHDQIFPKYMNLTRLWFLYLDNNKFSGKIEDGLL 301
RS+ H QIF +Y ++ L N+FSG I++GLL
Sbjct: 198 RSYPQLH-QIFHEYSKISNKTILQAIENEFSGDIKNGLL 235
>pdb|1AEI|A Chain A, Crystal Structure Of The Annexin Xii Hexamer
pdb|1AEI|B Chain B, Crystal Structure Of The Annexin Xii Hexamer
pdb|1AEI|C Chain C, Crystal Structure Of The Annexin Xii Hexamer
pdb|1AEI|D Chain D, Crystal Structure Of The Annexin Xii Hexamer
pdb|1AEI|E Chain E, Crystal Structure Of The Annexin Xii Hexamer
pdb|1AEI|F Chain F, Crystal Structure Of The Annexin Xii Hexamer
Length = 315
Score = 29.6 bits (65), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 263 RSHNNFHDQIFPKYMNLTRLWFLYLDNNKFSGKIEDGLL 301
RS+ H QIF +Y ++ L N+FSG I++GLL
Sbjct: 198 RSYPQLH-QIFHEYSKISNKTILQAIENEFSGDIKNGLL 235
>pdb|3O6N|A Chain A, Crystal Structure Of Apl1 Leucine-Rich Repeat Domain
Length = 390
Score = 29.3 bits (64), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 2/57 (3%)
Query: 381 LYVQRNDLSGTIPNALFR-SSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYL 436
L ++RNDLS ++P +F + KL TL + +N I D +++L+ L L N L
Sbjct: 122 LVLERNDLS-SLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRL 177
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 66/259 (25%), Positives = 108/259 (41%), Gaps = 37/259 (14%)
Query: 126 FLP--TFQLKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSFTGNLQLPHSKHD 183
+LP FQ L L L N+L+ P I N KL L ++NN+
Sbjct: 107 YLPPHVFQNVPLLTVLVLERNDLSS-LPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATT 165
Query: 184 FLHHLDVSSNNFTGKLPQDKGIILQKLLYIDMANNRFEG-NLPSSIGDMKT--------- 233
L +L +SSN T D +I L + +++ N +P ++ ++
Sbjct: 166 SLQNLQLSSNRLTHV---DLSLI-PSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVR 221
Query: 234 ------LTFLHLSKNNFSGELSTL-FTGCVSLWFLDRSHNNFHDQIFPKYMNLTRLWFLY 286
LT L L NN + L + G V + D S+N ++ ++ + RL LY
Sbjct: 222 GPVNVELTILKLQHNNLTDTAWLLNYPGLVEV---DLSYNELEKIMYHPFVKMQRLERLY 278
Query: 287 LDNNKFSGKIEDGLLKSNQLKELDMSNNMLSGHIPHWIANFSSY--LEVLLMSKNFLKGN 344
+ NN+ G LK LD+S+N H+ H N + LE L + N +
Sbjct: 279 ISNNRLVALNLYG-QPIPTLKVLDLSHN----HLLHVERNQPQFDRLENLYLDHNSI--- 330
Query: 345 IPMQLLNHGSLQLLSVSEN 363
+ ++L H +L+ L++S N
Sbjct: 331 VTLKLSTHHTLKNLTLSHN 349
>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 597
Score = 29.3 bits (64), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 2/57 (3%)
Query: 381 LYVQRNDLSGTIPNALFR-SSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYL 436
L ++RNDLS ++P +F + KL TL + +N I D +++L+ L L N L
Sbjct: 128 LVLERNDLS-SLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRL 183
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 29/113 (25%), Positives = 49/113 (43%), Gaps = 27/113 (23%)
Query: 11 LKNLEALDLSFNNING-----TVESQESF-ELNLAKNNIGGHLLDCL------------- 51
+ +LE LD+S N++N T ES LNL+ N + G + CL
Sbjct: 402 MSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNR 461
Query: 52 --------NNMTRLKVLDTSFNQLSGSLPSVIVNLASVEYLDLSNSYFEGTFP 96
++ L+ L+ + NQL V L S++Y+ L ++ ++ T P
Sbjct: 462 IMSIPKDVTHLQALQELNVASNQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCP 514
>pdb|3VQ1|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ1|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ2|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
pdb|3VQ2|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
Length = 606
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 56/117 (47%), Gaps = 8/117 (6%)
Query: 203 KGIILQKLLYIDMANNRFEGNLPSSIGDMKTLTFLHLSKNNFSGE--LSTLFTGCVSLWF 260
K + L L Y+D++ N + S D+ T + HL +F+G +S F G L
Sbjct: 345 KKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDL-SFNGAIIMSANFMGLEELQH 403
Query: 261 LDRSHNNFHDQI-FPKYMNLTRLWFLYLDNNKFSGKIE-DGL-LKSNQLKELDMSNN 314
LD H+ F +++L +L LYLD + + KI+ DG+ L L L M+ N
Sbjct: 404 LDFQHSTLKRVTEFSAFLSLEKL--LYLDISYTNTKIDFDGIFLGLTSLNTLKMAGN 458
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 28.9 bits (63), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 56/117 (47%), Gaps = 8/117 (6%)
Query: 203 KGIILQKLLYIDMANNRFEGNLPSSIGDMKTLTFLHLSKNNFSGE--LSTLFTGCVSLWF 260
K + L L Y+D++ N + S D+ T + HL +F+G +S F G L
Sbjct: 340 KKVALPSLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDL-SFNGAIIMSANFMGLEELQH 398
Query: 261 LDRSHNNFHDQI-FPKYMNLTRLWFLYLDNNKFSGKIE-DGL-LKSNQLKELDMSNN 314
LD H+ F +++L +L LYLD + + KI+ DG+ L L L M+ N
Sbjct: 399 LDFQHSTLKRVTEFSAFLSLEKL--LYLDISYTNTKIDFDGIFLGLTSLNTLKMAGN 453
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%)
Query: 380 HLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYL 436
LY++ N+L P L + KL L L +N + + + +N NL LLL+ N L
Sbjct: 129 ELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSL 185
>pdb|2Z80|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
pdb|2Z80|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 353
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 37/71 (52%), Gaps = 2/71 (2%)
Query: 391 TIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYLEGPISNQFCQLRRL 450
+IP+ L + K +LDL +N + I + + NL+ L+L N + + F L L
Sbjct: 45 SIPSGLTEAVK--SLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSL 102
Query: 451 GVMDLSHNRIN 461
+DLS+N ++
Sbjct: 103 EHLDLSYNYLS 113
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 28.9 bits (63), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 86/313 (27%), Positives = 131/313 (41%), Gaps = 66/313 (21%)
Query: 3 FLGAGLHKLKNLEALDLSFNNINGTVESQESFE-------LNLAKNNIG---GHLLDCLN 52
FLG K NL LDLS+NN+N V +SF L NNI H L L
Sbjct: 242 FLGL---KWTNLTMLDLSYNNLN--VVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLF 296
Query: 53 NMTRLKVLDTSFNQLS---GSLPSV----IVNLASVEYLDLSNSYFEGTFP--ISSLANH 103
N+ L L SF + S SLP + L +E+L++ ++ G + L N
Sbjct: 297 NVRYLN-LKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLIN- 354
Query: 104 SKLKVLRLSSRNNNMLQLKTENFLPTFQLKHD-LKYLDLSHNNLA---GDFPAWILQNNT 159
LK L LS+ ++ L E F+ L H L L+L+ N ++ D +W+
Sbjct: 355 --LKYLSLSNSFTSLRTLTNETFV---SLAHSPLHILNLTKNKISKIESDAFSWL----G 405
Query: 160 KLEVL---------CLTNNSFTGNLQLPHSKHDFLHHLDVSSNNFTGKLPQDKGIILQKL 210
LEVL LT + G + + +L ++ N+F +P + ++L+++
Sbjct: 406 HLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSF-ALVPSLQRLMLRRV 464
Query: 211 LYIDMANNRFEGNLPSSIGDMKTLTFLHLSKNNFSGELSTLFTGCVSLWFLDRSHNNFHD 270
++ ++ PS ++ LT L LS NN + + G L LD HN
Sbjct: 465 ALKNVDSS------PSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHN---- 514
Query: 271 QIFPKYMNLTRLW 283
NL RLW
Sbjct: 515 -------NLARLW 520
>pdb|1OZN|A Chain A, 1.5a Crystal Structure Of The Nogo Receptor Ligand Binding
Domain Reveals A Convergent Recognition Scaffold
Mediating Inhibition Of Myelination
Length = 285
Score = 28.9 bits (63), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 57/143 (39%), Gaps = 9/143 (6%)
Query: 225 PSSIGDMKTLTFLHLSKNNFSGELSTLFTGCVSLWFL---DRSHNNFHDQIFPKYMNLTR 281
P++ + L LHL + LF G +L +L D + D F NLT
Sbjct: 98 PATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTH 157
Query: 282 LWFLYLDNNKFSGKIEDGLLKSNQLKELDMSNNMLSGHIPHWIANFSSYLEVLLMSKNFL 341
L+L N+ S E + L L + N ++ PH + + + L + N
Sbjct: 158 ---LFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNL- 213
Query: 342 KGNIPMQLLNH-GSLQLLSVSEN 363
+P + L +LQ L +++N
Sbjct: 214 -SALPTEALAPLRALQYLRLNDN 235
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 37/91 (40%), Gaps = 2/91 (2%)
Query: 381 LYVQRNDLSGTIPNALFRS-SKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYLEGP 439
L++ R L P LFR + L L L+DN + D + NL L L GN +
Sbjct: 110 LHLDRCGLQELGPG-LFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSV 168
Query: 440 ISNQFCQLRRLGVMDLSHNRINGSIPSCFTN 470
F L L + L NR+ P F +
Sbjct: 169 PERAFRGLHSLDRLLLHQNRVAHVHPHAFRD 199
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 28.9 bits (63), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 34/143 (23%), Positives = 57/143 (39%), Gaps = 9/143 (6%)
Query: 225 PSSIGDMKTLTFLHLSKNNFSGELSTLFTGCVSLWFL---DRSHNNFHDQIFPKYMNLTR 281
P++ + L LHL + LF G +L +L D + D F NLT
Sbjct: 97 PATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTH 156
Query: 282 LWFLYLDNNKFSGKIEDGLLKSNQLKELDMSNNMLSGHIPHWIANFSSYLEVLLMSKNFL 341
L+L N+ S E + L L + N ++ PH + + + L + N
Sbjct: 157 ---LFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNL- 212
Query: 342 KGNIPMQLLNH-GSLQLLSVSEN 363
+P + L +LQ L +++N
Sbjct: 213 -SALPTEALAPLRALQYLRLNDN 234
Score = 28.9 bits (63), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 37/91 (40%), Gaps = 2/91 (2%)
Query: 381 LYVQRNDLSGTIPNALFRS-SKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYLEGP 439
L++ R L P LFR + L L L+DN + D + NL L L GN +
Sbjct: 109 LHLDRCGLQELGPG-LFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSV 167
Query: 440 ISNQFCQLRRLGVMDLSHNRINGSIPSCFTN 470
F L L + L NR+ P F +
Sbjct: 168 PERAFRGLHSLDRLLLHQNRVAHVHPHAFRD 198
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%)
Query: 380 HLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYL 436
LY++ N+L P L + KL L L +N + + + +N NL LLL+ N L
Sbjct: 128 ELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTLLLQENSL 184
>pdb|3PMH|G Chain G, Mechanism Of Sulfotyrosine-Mediated Glycoprotein Ib
Interaction With Two Distinct Alpha-Thrombin Sites
Length = 290
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%)
Query: 380 HLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYL 436
LY++ N+L P L + KL L L +N + + + +N NL LLL+ N L
Sbjct: 128 ELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSL 184
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%)
Query: 380 HLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYL 436
LY++ N+L P L + KL L L +N + + + +N NL LLL+ N L
Sbjct: 128 ELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTLLLQENSL 184
Score = 28.5 bits (62), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 47/113 (41%), Gaps = 2/113 (1%)
Query: 229 GDMKTLTFLHLSKNNFSGELSTLFTGCVSLWFLDRSHNNFHDQIFPKYMNLTRLWFLYLD 288
G + L L LS N L L +L LD S N L L LYL
Sbjct: 74 GTLPVLGTLDLSHNQLQS-LPLLGQTLPALTVLDVSFNRLTSLPLGALRGLGELQELYLK 132
Query: 289 NNKFSGKIEDGLLKSNQLKELDMSNNMLSGHIPHWIANFSSYLEVLLMSKNFL 341
N+ L + +L++L ++NN L+ +P + N L+ LL+ +N L
Sbjct: 133 GNELKTLPPGLLTPTPKLEKLSLANNQLT-ELPAGLLNGLENLDTLLLQENSL 184
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%)
Query: 380 HLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYL 436
LY++ N+L P L + KL L L +N + + + +N NL LLL+ N L
Sbjct: 128 ELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSL 184
>pdb|1SQ0|B Chain B, Crystal Structure Of The Complex Of The Wild-Type Von
Willebrand Factor A1 Domain And Glycoprotein Ib Alpha At
2.6 Angstrom Resolution
Length = 288
Score = 28.5 bits (62), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%)
Query: 380 HLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYL 436
LY++ N+L P L + KL L L +N + + + +N NL LLL+ N L
Sbjct: 128 ELYLKGNELKTLPPGLLTPTPKLEKLSLANNDLTELPAGLLNGLENLDTLLLQENSL 184
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 28.5 bits (62), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 35/68 (51%), Gaps = 2/68 (2%)
Query: 391 TIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYLEGPISNQFCQLRRL 450
+IP+ L + K +LDL +N + I + + NL+ L+L N + + F L L
Sbjct: 19 SIPSGLTEAVK--SLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSL 76
Query: 451 GVMDLSHN 458
+DLS+N
Sbjct: 77 EHLDLSYN 84
>pdb|1OOK|G Chain G, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Human Alpha-thrombin
Length = 290
Score = 28.5 bits (62), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%)
Query: 380 HLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYL 436
LY++ N+L P L + KL L L +N + + + +N NL LLL+ N L
Sbjct: 128 ELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSL 184
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 28.5 bits (62), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 86/313 (27%), Positives = 131/313 (41%), Gaps = 66/313 (21%)
Query: 3 FLGAGLHKLKNLEALDLSFNNINGTVESQESFE-------LNLAKNNIG---GHLLDCLN 52
FLG K NL LDLS+NN+N V +SF L NNI H L L
Sbjct: 247 FLGL---KWTNLTMLDLSYNNLN--VVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLF 301
Query: 53 NMTRLKVLDTSFNQLS---GSLPSV----IVNLASVEYLDLSNSYFEGTFP--ISSLANH 103
N+ L L SF + S SLP + L +E+L++ ++ G + L N
Sbjct: 302 NVRYLN-LKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLIN- 359
Query: 104 SKLKVLRLSSRNNNMLQLKTENFLPTFQLKHD-LKYLDLSHNNLA---GDFPAWILQNNT 159
LK L LS+ ++ L E F+ L H L L+L+ N ++ D +W+
Sbjct: 360 --LKYLSLSNSFTSLRTLTNETFV---SLAHSPLHILNLTKNKISKIESDAFSWL----G 410
Query: 160 KLEVL---------CLTNNSFTGNLQLPHSKHDFLHHLDVSSNNFTGKLPQDKGIILQKL 210
LEVL LT + G + + +L ++ N+F +P + ++L+++
Sbjct: 411 HLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSF-ALVPSLQRLMLRRV 469
Query: 211 LYIDMANNRFEGNLPSSIGDMKTLTFLHLSKNNFSGELSTLFTGCVSLWFLDRSHNNFHD 270
++ ++ PS ++ LT L LS NN + + G L LD HN
Sbjct: 470 ALKNVDSS------PSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHN---- 519
Query: 271 QIFPKYMNLTRLW 283
NL RLW
Sbjct: 520 -------NLARLW 525
>pdb|3ULU|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 694
Score = 28.5 bits (62), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 86/313 (27%), Positives = 131/313 (41%), Gaps = 66/313 (21%)
Query: 3 FLGAGLHKLKNLEALDLSFNNINGTVESQESFE-------LNLAKNNIG---GHLLDCLN 52
FLG K NL LDLS+NN+N V +SF L NNI H L L
Sbjct: 252 FLGL---KWTNLTMLDLSYNNLN--VVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLF 306
Query: 53 NMTRLKVLDTSFNQLS---GSLPSV----IVNLASVEYLDLSNSYFEGTFP--ISSLANH 103
N+ L L SF + S SLP + L +E+L++ ++ G + L N
Sbjct: 307 NVRYLN-LKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLIN- 364
Query: 104 SKLKVLRLSSRNNNMLQLKTENFLPTFQLKHD-LKYLDLSHNNLA---GDFPAWILQNNT 159
LK L LS+ ++ L E F+ L H L L+L+ N ++ D +W+
Sbjct: 365 --LKYLSLSNSFTSLRTLTNETFV---SLAHSPLHILNLTKNKISKIESDAFSWL----G 415
Query: 160 KLEVL---------CLTNNSFTGNLQLPHSKHDFLHHLDVSSNNFTGKLPQDKGIILQKL 210
LEVL LT + G + + +L ++ N+F +P + ++L+++
Sbjct: 416 HLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSF-ALVPSLQRLMLRRV 474
Query: 211 LYIDMANNRFEGNLPSSIGDMKTLTFLHLSKNNFSGELSTLFTGCVSLWFLDRSHNNFHD 270
++ ++ PS ++ LT L LS NN + + G L LD HN
Sbjct: 475 ALKNVDSS------PSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHN---- 524
Query: 271 QIFPKYMNLTRLW 283
NL RLW
Sbjct: 525 -------NLARLW 530
>pdb|1P9A|G Chain G, Crystal Structure Of N-terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-alpha At 1.7 Angstrom
Resolution
pdb|1QYY|A Chain A, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
pdb|1QYY|G Chain G, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
Length = 290
Score = 28.5 bits (62), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%)
Query: 380 HLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYL 436
LY++ N+L P L + KL L L +N + + + +N NL LLL+ N L
Sbjct: 128 ELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLLLQENSL 184
>pdb|1M0Z|A Chain A, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
pdb|1M0Z|B Chain B, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
Length = 290
Score = 28.5 bits (62), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%)
Query: 380 HLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYL 436
LY++ N+L P L + KL L L +N + + + +N NL LLL+ N L
Sbjct: 128 ELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTLLLQENSL 184
>pdb|3CVR|A Chain A, Crystal Structure Of The Full Length Ipah3
Length = 571
Score = 28.5 bits (62), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 28/78 (35%), Positives = 38/78 (48%), Gaps = 19/78 (24%)
Query: 131 QLKHDLKYLDLSHNNLA--GDFPA---WILQNN----------TKLEVLCLTNNSFTGNL 175
+L LK+LD+ +N L + PA +I +N T LEVL + NN T
Sbjct: 117 ELPASLKHLDVDNNQLTXLPELPALLEYINADNNQLTXLPELPTSLEVLSVRNNQLTFLP 176
Query: 176 QLPHSKHDFLHHLDVSSN 193
+LP S L LDVS+N
Sbjct: 177 ELPES----LEALDVSTN 190
>pdb|2OMV|A Chain A, Crystal Structure Of Inla S192n Y369s/hec1 Complex
pdb|2OMW|A Chain A, Crystal Structure Of Inla S192n Y369s/mec1 Complex
Length = 461
Score = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 81/291 (27%), Positives = 119/291 (40%), Gaps = 59/291 (20%)
Query: 8 LHKLKNLEALDLSFNNINGTVESQESFELNLAKNNIGGHLLDC--LNNMTRLKVLDTSFN 65
L L NL L+LS N I+ S S +L + N G + D L N+T L+ LD S N
Sbjct: 125 LKNLTNLNRLELSSNTISDI--SALSGLTSLQQLNFGNQVTDLKPLANLTTLERLDISSN 182
Query: 66 QLSGSLPSVIVNLASVEYLDLSNSYFEGTFPISSLANHSKLKVLRLSSRNNNMLQLKTEN 125
++S SV+ L ++E L +N+ P+ L N +L S N N QLK
Sbjct: 183 KVSDI--SVLAKLTNLESLIATNNQISDITPLGILTNLDEL------SLNGN--QLKDIG 232
Query: 126 FLPTFQLKHDLKYLDLSHNNLAGDFPAWILQNNTKLEVLCLTNNSFTGNLQLPHSKHDFL 185
L + +L LDL++N ++ NL P S L
Sbjct: 233 TLASL---TNLTDLDLANNQIS--------------------------NLA-PLSGLTKL 262
Query: 186 HHLDVSSNNFTGKLPQDKGIILQKLLYIDMANNRFEGNLPSSIGDMKTLTFLHLSKNNFS 245
L + +N + P L L +++ N+ E P I ++K LT+L L NN S
Sbjct: 263 TELKLGANQISNISPLAG---LTALTNLELNENQLEDISP--ISNLKNLTYLTLYFNNIS 317
Query: 246 GELSTLFTGCVSLWFLDR---SHNNFHDQIFPKYMNLTRLWFLYLDNNKFS 293
+ SL L R S+N D NLT + +L +N+ S
Sbjct: 318 D-----ISPVSSLTKLQRLFFSNNKVSD--VSSLANLTNINWLSAGHNQIS 361
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 28.5 bits (62), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%)
Query: 380 HLYVQRNDLSGTIPNALFRSSKLMTLDLRDNGFSGIISDQINESSNLRVLLLRGNYL 436
LY++ N+L P L + KL L L +N + + + +N NL LLL+ N L
Sbjct: 128 ELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTLLLQENSL 184
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
0.320 0.136 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,469,739
Number of Sequences: 62578
Number of extensions: 558586
Number of successful extensions: 1664
Number of sequences better than 100.0: 95
Number of HSP's better than 100.0 without gapping: 46
Number of HSP's successfully gapped in prelim test: 49
Number of HSP's that attempted gapping in prelim test: 1031
Number of HSP's gapped (non-prelim): 381
length of query: 470
length of database: 14,973,337
effective HSP length: 102
effective length of query: 368
effective length of database: 8,590,381
effective search space: 3161260208
effective search space used: 3161260208
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)