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= 002600
(902 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 125 bits (313), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 186/706 (26%), Positives = 287/706 (40%), Gaps = 86/706 (12%)
Query: 162 SNLQYLDLSKSYYELQVESISWLSGLSFLEHLDLS--LVDLTKSSDGLVTINSLPSLKVL 219
++L LDLS++ V +++ L S L+ L++S +D G + +NSL L +
Sbjct: 97 ASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLS 156
Query: 220 KLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHG 279
S + + S LK L +SGN + + S V NL F D+S N F
Sbjct: 157 ANSISGANVVGWVLSDGCGELKHLAISGNKISGDV-DVSRCV----NLEFLDVSSNNFST 211
Query: 280 KIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSL--RELGGQIPTSFVRLCKL 337
IP LG+ + L+HLD+S N+ + +S +L+ L++ + G IP L
Sbjct: 212 GIPF-LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIP-------PL 263
Query: 338 TSIDVSYVKLGQD-LSQVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELR 396
+ Y+ L ++ + + F S L L LSG H G + G L +L L
Sbjct: 264 PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALS 323
Query: 397 DNSLSGPLP-PALGELSSMKNLDLFNNTLDGAIPMSLGQLS-HLELLDLSNNRLNGTLSE 454
N+ SG LP L ++ +K LDL N G +P SL LS L LDLS+N +G +
Sbjct: 324 SNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPI-- 381
Query: 455 IHFVNLTKLTSFSAFGNSLIFKVNQSWVPPFQLEKLRLRSCHLGPQFPSWLRSQKHLFIL 514
NL + P L++L L++ + P L + L L
Sbjct: 382 --LPNLCQ-------------------NPKNTLQELYLQNNGFTGKIPPTLSNCSELVSL 420
Query: 515 DISNTRISDTIPRWFWNSISQYVYLNLSTNQIYGEIPNCDRPLPLVPSPGLLDLSNNALS 574
+S +S TIP S+S+ L L N + GEIP + L V + L L N L+
Sbjct: 421 HLSFNYLSGTIPSSL-GSLSKLRDLKLWLNMLEGEIP---QELMYVKTLETLILDFNDLT 476
Query: 575 GSIFHLICKRENEADNIYVYLKLSKNYFSGDIPDCWMXXXXXXXXXXXXXXXXXRSNKLH 634
G I + N ++ LS N +G+IP W+ +N
Sbjct: 477 GEIPSGLSNCTN-----LNWISLSNNRLTGEIPK-WIGRLENLAILKL------SNNSFS 524
Query: 635 GSLPIQLCRLNSLQILDVAHNSLSGIIPRCINNFTAMAAANSSDQDNAISYIRGGVSDVF 694
G++P +L SL LD+ N +G IP + + AAN + G+
Sbjct: 525 GNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKEC 584
Query: 695 EDAS--VVTKGFMVEYNTILNLVRIMDISNNNFSGEVPKELTNLMGLQSLNFSHNLFTGK 752
A + +G E L+ +I++ + G N + L+ S+N+ +G
Sbjct: 585 HGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGY 644
Query: 753 IPENIGNM------------------------RSIESLDFSMNQLSGKVPQXXXXXXXXX 788
IP+ IG+M R + LD S N+L G++PQ
Sbjct: 645 IPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLT 704
Query: 789 XXXXXXXXXTGKIPSSTQLQSMDASSFAGN-NLCGAPLPNCPEKNA 833
+G IP Q ++ + F N LCG PLP C NA
Sbjct: 705 EIDLSNNNLSGPIPEMGQFETFPPAKFLNNPGLCGYPLPRCDPSNA 750
Score = 114 bits (285), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 158/540 (29%), Positives = 233/540 (43%), Gaps = 76/540 (14%)
Query: 97 TGSKLVGKINPSLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPH 156
+G+KL G + ++ L L++S N F G P LK+L+YL+L+ +F G IP
Sbjct: 228 SGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL---PLKSLQYLSLAENKFTGEIPD 284
Query: 157 QL-GNISNLQYLDLSKSYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPS 215
L G L LDLS +++ ++ G L + + T+ +
Sbjct: 285 FLSGACDTLTGLDLSGNHF---YGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRG 341
Query: 216 LKVLKLSYCELHHFPSLPSTNFS-SLKALDLSGNHFNNSLFQYSSWVFGLRN-LVFFDLS 273
LKVL LS+ E TN S SL LDLS N+F+ + + +N L L
Sbjct: 342 LKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILP--NLCQNPKNTLQELYLQ 399
Query: 274 DNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIP---GWLSKLNDLEFLSLRELGGQIPTS 330
+N F GKIP L N + L L LS N + IP G LSKL DL+ L L L G+IP
Sbjct: 400 NNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLK-LWLNMLEGEIPQE 458
Query: 331 FVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSL 390
+ YVK LE+L+L + G + + L +L
Sbjct: 459 LM-----------YVK------------------TLETLILDFNDLTGEIPSGLSNCTNL 489
Query: 391 HTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDLSNNRLNG 450
+ + L +N L+G +P +G L ++ L L NN+ G IP LG L LDL+ N NG
Sbjct: 490 NWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNG 549
Query: 451 TLSEIHFVNLTKLTSFSAFGNSLIFKVNQSW---------------VPPFQLEKLRLRS- 494
T+ F K+ + G ++ N + QL +L R+
Sbjct: 550 TIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNP 609
Query: 495 CHL------GPQFPSWLRSQKHLFILDISNTRISDTIPRWFWNSISQYVYLNLSTNQIYG 548
C++ G P++ + +F LD+S +S IP+ S+ LNL N I G
Sbjct: 610 CNITSRVYGGHTSPTFDNNGSMMF-LDMSYNMLSGYIPKEI-GSMPYLFILNLGHNDISG 667
Query: 549 EIPNCDRPLPLVPSPGLLDLSNNALSGSIFHLICKRENEADNIYVYLKLSKNYFSGDIPD 608
IP+ L + +LDLS+N L G I + A + + LS N SG IP+
Sbjct: 668 SIPDEVGDLRGL---NILDLSSNKLDGRIPQAM-----SALTMLTEIDLSNNNLSGPIPE 719
Score = 79.7 bits (195), Expect = 7e-15, Method: Compositional matrix adjust.
Identities = 125/455 (27%), Positives = 195/455 (42%), Gaps = 75/455 (16%)
Query: 77 NNFTGHVLQLNLGNPNPNYG---TGSKLVGKINPSLFDLKHLIHLDLSDNDFQGIQTPSY 133
N FTG + G + G +G+ G + P L L LS N+F G
Sbjct: 276 NKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDT 335
Query: 134 LGSLKNLRYLNLSGAEFAGVIPHQLGNIS-NLQYLDLSKSYY-----------------E 175
L ++ L+ L+LS EF+G +P L N+S +L LDLS + + E
Sbjct: 336 LLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQE 395
Query: 176 LQVESISW-------LSGLSFLEHLDL-----------SLVDLTKSSDGLVTINSL---- 213
L +++ + LS S L L L SL L+K D + +N L
Sbjct: 396 LYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEI 455
Query: 214 -------PSLKVLKLSYCELHHFPSLPS--TNFSSLKALDLSGNHFNNSLFQYSSWVFGL 264
+L+ L L + +L +PS +N ++L + LS N + W+ L
Sbjct: 456 PQELMYVKTLETLILDFNDLTG--EIPSGLSNCTNLNWISLSNNRLTG---EIPKWIGRL 510
Query: 265 RNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSLRELG 324
NL LS+N F G IP+ LG+ L LDL++N FN IP + K +
Sbjct: 511 ENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQS----------- 559
Query: 325 GQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYALESL-VLSGCHIC-----G 378
G+I +F+ + I +K + L F + L L + C+I G
Sbjct: 560 GKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGG 619
Query: 379 HLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHL 438
H + S+ L++ N LSG +P +G + + L+L +N + G+IP +G L L
Sbjct: 620 HTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGL 679
Query: 439 ELLDLSNNRLNGTLSEIHFVNLTKLTSFSAFGNSL 473
+LDLS+N+L+G + + LT LT N+L
Sbjct: 680 NILDLSSNKLDGRIPQAMSA-LTMLTEIDLSNNNL 713
>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 = 125 bits (313), Expect = 1e-28, Method: Compositional matrix adjust.
Identities = 186/706 (26%), Positives = 287/706 (40%), Gaps = 86/706 (12%)
Query: 162 SNLQYLDLSKSYYELQVESISWLSGLSFLEHLDLS--LVDLTKSSDGLVTINSLPSLKVL 219
++L LDLS++ V +++ L S L+ L++S +D G + +NSL L +
Sbjct: 100 ASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLS 159
Query: 220 KLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHG 279
S + + S LK L +SGN + + S V NL F D+S N F
Sbjct: 160 ANSISGANVVGWVLSDGCGELKHLAISGNKISGDV-DVSRCV----NLEFLDVSSNNFST 214
Query: 280 KIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSL--RELGGQIPTSFVRLCKL 337
IP LG+ + L+HLD+S N+ + +S +L+ L++ + G IP L
Sbjct: 215 GIPF-LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIP-------PL 266
Query: 338 TSIDVSYVKLGQD-LSQVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELR 396
+ Y+ L ++ + + F S L L LSG H G + G L +L L
Sbjct: 267 PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALS 326
Query: 397 DNSLSGPLP-PALGELSSMKNLDLFNNTLDGAIPMSLGQLS-HLELLDLSNNRLNGTLSE 454
N+ SG LP L ++ +K LDL N G +P SL LS L LDLS+N +G +
Sbjct: 327 SNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPI-- 384
Query: 455 IHFVNLTKLTSFSAFGNSLIFKVNQSWVPPFQLEKLRLRSCHLGPQFPSWLRSQKHLFIL 514
NL + P L++L L++ + P L + L L
Sbjct: 385 --LPNLCQ-------------------NPKNTLQELYLQNNGFTGKIPPTLSNCSELVSL 423
Query: 515 DISNTRISDTIPRWFWNSISQYVYLNLSTNQIYGEIPNCDRPLPLVPSPGLLDLSNNALS 574
+S +S TIP S+S+ L L N + GEIP + L V + L L N L+
Sbjct: 424 HLSFNYLSGTIPSSL-GSLSKLRDLKLWLNMLEGEIP---QELMYVKTLETLILDFNDLT 479
Query: 575 GSIFHLICKRENEADNIYVYLKLSKNYFSGDIPDCWMXXXXXXXXXXXXXXXXXRSNKLH 634
G I + N ++ LS N +G+IP W+ +N
Sbjct: 480 GEIPSGLSNCTN-----LNWISLSNNRLTGEIPK-WIGRLENLAILKL------SNNSFS 527
Query: 635 GSLPIQLCRLNSLQILDVAHNSLSGIIPRCINNFTAMAAANSSDQDNAISYIRGGVSDVF 694
G++P +L SL LD+ N +G IP + + AAN + G+
Sbjct: 528 GNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKEC 587
Query: 695 EDAS--VVTKGFMVEYNTILNLVRIMDISNNNFSGEVPKELTNLMGLQSLNFSHNLFTGK 752
A + +G E L+ +I++ + G N + L+ S+N+ +G
Sbjct: 588 HGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGY 647
Query: 753 IPENIGNM------------------------RSIESLDFSMNQLSGKVPQXXXXXXXXX 788
IP+ IG+M R + LD S N+L G++PQ
Sbjct: 648 IPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLT 707
Query: 789 XXXXXXXXXTGKIPSSTQLQSMDASSFAGN-NLCGAPLPNCPEKNA 833
+G IP Q ++ + F N LCG PLP C NA
Sbjct: 708 EIDLSNNNLSGPIPEMGQFETFPPAKFLNNPGLCGYPLPRCDPSNA 753
Score = 114 bits (286), Expect = 2e-25, Method: Compositional matrix adjust.
Identities = 158/540 (29%), Positives = 233/540 (43%), Gaps = 76/540 (14%)
Query: 97 TGSKLVGKINPSLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPH 156
+G+KL G + ++ L L++S N F G P LK+L+YL+L+ +F G IP
Sbjct: 231 SGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL---PLKSLQYLSLAENKFTGEIPD 287
Query: 157 QL-GNISNLQYLDLSKSYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPS 215
L G L LDLS +++ ++ G L + + T+ +
Sbjct: 288 FLSGACDTLTGLDLSGNHF---YGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRG 344
Query: 216 LKVLKLSYCELHHFPSLPSTNFS-SLKALDLSGNHFNNSLFQYSSWVFGLRN-LVFFDLS 273
LKVL LS+ E TN S SL LDLS N+F+ + + +N L L
Sbjct: 345 LKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILP--NLCQNPKNTLQELYLQ 402
Query: 274 DNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIP---GWLSKLNDLEFLSLRELGGQIPTS 330
+N F GKIP L N + L L LS N + IP G LSKL DL+ L L L G+IP
Sbjct: 403 NNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLK-LWLNMLEGEIPQE 461
Query: 331 FVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSL 390
+ YVK LE+L+L + G + + L +L
Sbjct: 462 LM-----------YVK------------------TLETLILDFNDLTGEIPSGLSNCTNL 492
Query: 391 HTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDLSNNRLNG 450
+ + L +N L+G +P +G L ++ L L NN+ G IP LG L LDL+ N NG
Sbjct: 493 NWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNG 552
Query: 451 TLSEIHFVNLTKLTSFSAFGNSLIFKVNQSW---------------VPPFQLEKLRLRS- 494
T+ F K+ + G ++ N + QL +L R+
Sbjct: 553 TIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNP 612
Query: 495 CHL------GPQFPSWLRSQKHLFILDISNTRISDTIPRWFWNSISQYVYLNLSTNQIYG 548
C++ G P++ + +F LD+S +S IP+ S+ LNL N I G
Sbjct: 613 CNITSRVYGGHTSPTFDNNGSMMF-LDMSYNMLSGYIPKEI-GSMPYLFILNLGHNDISG 670
Query: 549 EIPNCDRPLPLVPSPGLLDLSNNALSGSIFHLICKRENEADNIYVYLKLSKNYFSGDIPD 608
IP+ L + +LDLS+N L G I + A + + LS N SG IP+
Sbjct: 671 SIPDEVGDLRGL---NILDLSSNKLDGRIPQAM-----SALTMLTEIDLSNNNLSGPIPE 722
Score = 79.7 bits (195), Expect = 6e-15, Method: Compositional matrix adjust.
Identities = 125/455 (27%), Positives = 195/455 (42%), Gaps = 75/455 (16%)
Query: 77 NNFTGHVLQLNLGNPNPNYG---TGSKLVGKINPSLFDLKHLIHLDLSDNDFQGIQTPSY 133
N FTG + G + G +G+ G + P L L LS N+F G
Sbjct: 279 NKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDT 338
Query: 134 LGSLKNLRYLNLSGAEFAGVIPHQLGNIS-NLQYLDLSKSYY-----------------E 175
L ++ L+ L+LS EF+G +P L N+S +L LDLS + + E
Sbjct: 339 LLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQE 398
Query: 176 LQVESISW-------LSGLSFLEHLDL-----------SLVDLTKSSDGLVTINSL---- 213
L +++ + LS S L L L SL L+K D + +N L
Sbjct: 399 LYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEI 458
Query: 214 -------PSLKVLKLSYCELHHFPSLPS--TNFSSLKALDLSGNHFNNSLFQYSSWVFGL 264
+L+ L L + +L +PS +N ++L + LS N + W+ L
Sbjct: 459 PQELMYVKTLETLILDFNDLTG--EIPSGLSNCTNLNWISLSNNRLTG---EIPKWIGRL 513
Query: 265 RNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSLRELG 324
NL LS+N F G IP+ LG+ L LDL++N FN IP + K +
Sbjct: 514 ENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQS----------- 562
Query: 325 GQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYALESL-VLSGCHIC-----G 378
G+I +F+ + I +K + L F + L L + C+I G
Sbjct: 563 GKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGG 622
Query: 379 HLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHL 438
H + S+ L++ N LSG +P +G + + L+L +N + G+IP +G L L
Sbjct: 623 HTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGL 682
Query: 439 ELLDLSNNRLNGTLSEIHFVNLTKLTSFSAFGNSL 473
+LDLS+N+L+G + + LT LT N+L
Sbjct: 683 NILDLSSNKLDGRIPQAMSA-LTMLTEIDLSNNNL 716
>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 = 67.0 bits (162), Expect = 4e-11, Method: Compositional matrix adjust.
Identities = 79/297 (26%), Positives = 126/297 (42%), Gaps = 40/297 (13%)
Query: 36 CVDSERQALLKLKQDLSDPSNRLASWNIGDGDCC--AWDGVVCNNFTG-------HVLQL 86
C ++QALL++K+DL +P+ L+SW + DCC W GV+C+ T + L
Sbjct: 3 CNPQDKQALLQIKKDLGNPTT-LSSW-LPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGL 60
Query: 87 NLGNPNP-----------NY---GTGSKLVGKINPSLFDLKHLIHLDLSDNDFQGIQTPS 132
NL P P N+ G + LVG I P++ L L +L ++ + G P
Sbjct: 61 NLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSG-AIPD 119
Query: 133 YLGSLKNLRYLNLSGAEFAGVIPHQLGNISNLQYLDLSKSYYELQVESISWLSGLSFLEH 192
+L +K L L+ S +G +P + ++ NL + + + S+ S
Sbjct: 120 FLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPD-SYGSFSKLFTS 178
Query: 193 LDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHH--FPSLPSTNFSSLKALDLSGNHF 250
+ +S LT P+ L L++ +L S F S K + H
Sbjct: 179 MTISRNRLTGKIP--------PTFANLNLAFVDLSRNMLEGDASVLFGSDK--NTQKIHL 228
Query: 251 NNSLFQYSSWVFGL-RNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIP 306
+ + GL +NL DL +N +G +P GL L FL L++S N IP
Sbjct: 229 AKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIP 285
Score = 64.3 bits (155), Expect = 3e-10, Method: Compositional matrix adjust.
Identities = 57/228 (25%), Positives = 91/228 (39%), Gaps = 32/228 (14%)
Query: 631 NKLHGSLPIQLCRLNSLQILDVAHNSLSGIIPRCINNFTAMAA------ANSSDQDNAIS 684
N L G +P + +L L L + H ++SG IP ++ + A S +IS
Sbjct: 87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSIS 146
Query: 685 YIRGGVSDVFEDASVVTKGFMVEYNTILNLVRIMDISNNNFSGEVPKELTNLMGLQSLNF 744
+ V F D + ++ Y + L M IS N +G++P NL L ++
Sbjct: 147 SLPNLVGITF-DGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANL-NLAFVDL 204
Query: 745 SHNLFTGK---------------IPEN--------IGNMRSIESLDFSMNQLSGKVPQXX 781
S N+ G + +N +G +++ LD N++ G +PQ
Sbjct: 205 SRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGL 264
Query: 782 XXXXXXXXXXXXXXXXTGKIPSSTQLQSMDASSFAGNN-LCGAPLPNC 828
G+IP LQ D S++A N LCG+PLP C
Sbjct: 265 TQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCLCGSPLPAC 312
Score = 62.0 bits (149), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 71/280 (25%), Positives = 110/280 (39%), Gaps = 68/280 (24%)
Query: 398 NSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDLSNNRLNGTLSEIHF 457
N+L GP+PPA+ +L+ + L + + + GAIP L Q+ L LD S N L+GTL
Sbjct: 87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTL----- 141
Query: 458 VNLTKLTSFSAFGNSLIFKVNQSWVPPFQLEKLRLRSCHLGPQFPSWLRSQKHLFILDIS 517
P + S +L +
Sbjct: 142 --------------------------------------------PPSISSLPNLVGITFD 157
Query: 518 NTRISDTIPRWFWNSISQYVYLNLSTNQIYGEIPNCDRPLPLVPSPGLLDLSNNALSGSI 577
RIS IP + + + + +S N++ G+IP L L +DLS N L G
Sbjct: 158 GNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLA----FVDLSRNMLEGDA 213
Query: 578 FHLICKRENEADNIYVYLKLSKNYFSGDIPDCWMXXXXXXXXXXXXXXXXXRSNKLHGSL 637
L +N + L+KN + D+ + R+N+++G+L
Sbjct: 214 SVLFGSDKNTQK-----IHLAKNSLAFDLGKVGLSKNLNGLDL--------RNNRIYGTL 260
Query: 638 PIQLCRLNSLQILDVAHNSLSGIIPRCIN--NFTAMAAAN 675
P L +L L L+V+ N+L G IP+ N F A AN
Sbjct: 261 PQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYAN 300
Score = 59.7 bits (143), Expect = 7e-09, Method: Compositional matrix adjust.
Identities = 57/196 (29%), Positives = 97/196 (49%), Gaps = 23/196 (11%)
Query: 366 LESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLD 425
L L ++ ++ G + + L Q K+L TL+ N+LSG LPP++ L ++ + N +
Sbjct: 103 LHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRIS 162
Query: 426 GAIPMSLGQLSHL-ELLDLSNNRLNGTLS------EIHFVNLTKLTSFSAFGNSLIFKVN 478
GAIP S G S L + +S NRL G + + FV+L++ + S++F +
Sbjct: 163 GAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSR--NMLEGDASVLFGSD 220
Query: 479 QSWVPPFQLEKLRLRSCHLGPQFPSWLRSQKHLFILDISNTRISDTIPRWFWNSISQYVY 538
++ +K+ L L + K+L LD+ N RI T+P+ ++Q +
Sbjct: 221 KNT------QKIHLAKNSLAFDL-GKVGLSKNLNGLDLRNNRIYGTLPQ----GLTQLKF 269
Query: 539 ---LNLSTNQIYGEIP 551
LN+S N + GEIP
Sbjct: 270 LHSLNVSFNNLCGEIP 285
Score = 51.6 bits (122), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 66/269 (24%), Positives = 114/269 (42%), Gaps = 38/269 (14%)
Query: 190 LEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPS-TNFSSLKALDLSGN 248
+ +LDLS ++L K ++ +LP L L + P P+ + L L ++
Sbjct: 52 VNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHT 111
Query: 249 HFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIP-- 306
+ + ++ + S + + LV D S N G +P + +L L + N + AIP
Sbjct: 112 NVSGAIPDFLSQI---KTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS 168
Query: 307 -GWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYA 365
G SKL +S L G+IP +F L ++++V L +++ +
Sbjct: 169 YGSFSKLFTSMTISRNRLTGKIPPTFANL------NLAFVDLSRNMLE------------ 210
Query: 366 LESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLD 425
G + G K+ + L NSL+ L +G ++ LDL NN +
Sbjct: 211 ------------GDASVLFGSDKNTQKIHLAKNSLAFDLG-KVGLSKNLNGLDLRNNRIY 257
Query: 426 GAIPMSLGQLSHLELLDLSNNRLNGTLSE 454
G +P L QL L L++S N L G + +
Sbjct: 258 GTLPQGLTQLKFLHSLNVSFNNLCGEIPQ 286
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 55.1 bits (131), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 55/182 (30%), Positives = 86/182 (47%), Gaps = 8/182 (4%)
Query: 137 LKNLRYLNLS--GAEFAGVIPHQLGNISNLQYLDLSKSYYELQVESISWLSGLSFLEHLD 194
L +L +L+LS G F G ++L+YLDLS + + S GL LEHLD
Sbjct: 346 LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLS---FNGVITMSSNFLGLEQLEHLD 402
Query: 195 LSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSL 254
+L + S+ V + SL +L L +S+ + SSL+ L ++GN F +
Sbjct: 403 FQHSNLKQMSEFSVFL-SLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENF 461
Query: 255 FQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLND 314
LRNL F DLS + P+ +L+ L+ L+++SN+ S G +L
Sbjct: 462 L--PDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTS 519
Query: 315 LE 316
L+
Sbjct: 520 LQ 521
Score = 40.0 bits (92), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 87/339 (25%), Positives = 134/339 (39%), Gaps = 62/339 (18%)
Query: 145 LSGAEFAGVIPHQLGNISNLQYLDLSKSYYELQVESISWLSGLSF-LEHLDLSLVDLTKS 203
L+G E ++ + N NL+ D S +E + L+ F L +LD L D+
Sbjct: 224 LAGLEVHRLVLGEFRNEGNLEKFDKSA------LEGLCNLTIEEFRLAYLDYYLDDIIDL 277
Query: 204 SDGLVTINSLPSLKV----------------LKLSYCELHHFPSLPSTNFSSLKALDLSG 247
+ L ++S + V L+L C+ FP+L SLK L +
Sbjct: 278 FNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTL---KLKSLKRLTFTS 334
Query: 248 NHFNNSLFQYSSWVFGLRNLVFFDLSDN--EFHGKIPSGLGNLTFLRHLDLSSNEFNSAI 305
N N+ + L +L F DLS N F G T L++LDLS FN I
Sbjct: 335 NKGGNAFSEVD-----LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLS---FNGVI 386
Query: 306 PGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYA 365
+ ++F+ L +L +D + L Q +S+ +F S
Sbjct: 387 T--------------------MSSNFLGLEQLEHLDFQHSNLKQ-MSE-FSVFLS--LRN 422
Query: 366 LESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGP-LPPALGELSSMKNLDLFNNTL 424
L L +S H SL L++ NS LP EL ++ LDL L
Sbjct: 423 LIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQL 482
Query: 425 DGAIPMSLGQLSHLELLDLSNNRLNGTLSEIHFVNLTKL 463
+ P + LS L++L++++N+L I F LT L
Sbjct: 483 EQLSPTAFNSLSSLQVLNMASNQLKSVPDGI-FDRLTSL 520
Score = 37.0 bits (84), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 55/218 (25%), Positives = 82/218 (37%), Gaps = 36/218 (16%)
Query: 206 GLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLR 265
G + S P L+VL LS CE+ + S L L L+GN + S + L+
Sbjct: 44 GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ 103
Query: 266 NLVFFDLSDNEFHG----------------------KIPSGLGNLTFLRHLDLSSNEFNS 303
LV + + K+P NLT L HLDLSSN+ S
Sbjct: 104 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 163
Query: 304 AIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSC-- 361
L L+ + L+L P +F++ I + + L + L++ +C
Sbjct: 164 IYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDS-LNVMKTCIQ 222
Query: 362 GAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNS 399
G LE L LG+F++ LE D S
Sbjct: 223 GLAGLEVHRLV-----------LGEFRNEGNLEKFDKS 249
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 39/149 (26%), Positives = 69/149 (46%), Gaps = 7/149 (4%)
Query: 102 VGKINPSLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNI 161
V ++ + L+ L HLD ++ + + S SL+NL YL++S +
Sbjct: 385 VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGL 444
Query: 162 SNLQYLDLSKSYYELQV--ESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVL 219
S+L+ L ++ + ++ + + L L+F LDLS L + S NSL SL+VL
Sbjct: 445 SSLEVLKMAGNSFQENFLPDIFTELRNLTF---LDLSQCQLEQLSP--TAFNSLSSLQVL 499
Query: 220 KLSYCELHHFPSLPSTNFSSLKALDLSGN 248
++ +L P +SL+ + L N
Sbjct: 500 NMASNQLKSVPDGIFDRLTSLQKIWLHTN 528
>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 = 54.3 bits (129), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 96/344 (27%), Positives = 152/344 (44%), Gaps = 47/344 (13%)
Query: 125 FQGIQTPS----YLGSLKNLRYLNLSGAEFAGVIPHQLGNISNLQYLDLSKSYYELQVES 180
F+G++ + +LG+ +++ ++S A F G+ + +I NLQ ++ + +
Sbjct: 219 FKGLKNSTIQSLWLGTFEDMDDEDISPAVFEGLCEMSVESI-NLQ----KHYFFNISSNT 273
Query: 181 ISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSL 240
SGL + LDL+ L++ GLV L +LK L LS + + + ++NF SL
Sbjct: 274 FHCFSGL---QELDLTATHLSELPSGLV---GLSTLKKLVLSANKFENLCQISASNFPSL 327
Query: 241 KALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSG------LGNLTFLRHL 294
L + GN L + + L NL DLS H I + L NL+ L+ L
Sbjct: 328 THLSIKGN--TKRLELGTGCLENLENLRELDLS----HDDIETSDCCNLQLRNLSHLQSL 381
Query: 295 DLSSNEFNSAIPGWLS-----KLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQ 349
+LS NE S +L DL F L+ Q P + L K+ ++ S + +
Sbjct: 382 NLSYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISS 441
Query: 350 DLSQVLDIFSSCGAYALESLVLSGCHICG---HLTNQLGQFKSLHTLELRDNSLSGPLPP 406
+ Q+ D G AL+ L L G H TN L L L L LS
Sbjct: 442 E--QLFD-----GLPALQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQH 494
Query: 407 ALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLE--LLDLSNNRL 448
A L M ++DL +N L + S+ LSHL+ L+L++N +
Sbjct: 495 AFTSLKMMNHVDLSHNRLTSS---SIEALSHLKGIYLNLASNHI 535
Score = 47.0 bits (110), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 65/205 (31%), Positives = 88/205 (42%), Gaps = 15/205 (7%)
Query: 115 LIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLS--GAEFAGVIPHQLGNISNLQYLDLSKS 172
L HL + N + L +L+NLR L+LS E + QL N+S+LQ L+LS
Sbjct: 327 LTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQLRNLSHLQSLNLS-- 384
Query: 173 YYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCEL-----H 227
Y E LE LDL+ L K D +L LKVL LS+ L
Sbjct: 385 YNEPLSLKTEAFKECPQLELLDLAFTRL-KVKDAQSPFQNLHLLKVLNLSHSLLDISSEQ 443
Query: 228 HFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGN 287
F LP+ L+ L+L GNHF Q ++ + L L LS + +
Sbjct: 444 LFDGLPA-----LQHLNLQGNHFPKGNIQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTS 498
Query: 288 LTFLRHLDLSSNEFNSAIPGWLSKL 312
L + H+DLS N S+ LS L
Sbjct: 499 LKMMNHVDLSHNRLTSSSIEALSHL 523
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 96/383 (25%), Positives = 149/383 (38%), Gaps = 75/383 (19%)
Query: 237 FSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFH---------------GKI 281
F + D+S F L + S L+ FF++S N FH ++
Sbjct: 235 FEDMDDEDISPAVFE-GLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSEL 293
Query: 282 PSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSLR------ELGGQIPTSFVRLC 335
PSGL L+ L+ L LS+N+F + S L LS++ ELG L
Sbjct: 294 PSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELG---TGCLENLE 350
Query: 336 KLTSIDVSYVKLGQDLSQVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLEL 395
L +D+S+ + S C C++ QL L +L L
Sbjct: 351 NLRELDLSHDDIET---------SDC------------CNL------QLRNLSHLQSLNL 383
Query: 396 RDNSLSGPLPPALGELSSMKNLDLFNNTL---DGAIP------MSLGQLSHLELLDLSNN 446
N A E ++ LDL L D P + + LSH LLD+S+
Sbjct: 384 SYNEPLSLKTEAFKECPQLELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSH-SLLDISSE 442
Query: 447 RLNGTLSEIHFVNLTKLTSFSAFGNSLIFKVNQSWVPPFQLEKLRLRSCHLGPQFPSWLR 506
+L L + +NL + F I K N S +LE L L C L
Sbjct: 443 QLFDGLPALQHLNLQG----NHFPKGNIQKTN-SLQTLGRLEILVLSFCDLSSIDQHAFT 497
Query: 507 SQKHLFILDISNTRISDTIPRWFWNSISQYVYLNLSTNQIYGEIPNCDRPLPLVPSPGLL 566
S K + +D+S+ R++ + S + +YLNL++N I +P+ LP++ +
Sbjct: 498 SLKMMNHVDLSHNRLTSSSIEAL--SHLKGIYLNLASNHISIILPSL---LPILSQQRTI 552
Query: 567 DLSNNALS---GSIFHLICKREN 586
+L N L +I+ L +EN
Sbjct: 553 NLRQNPLDCTCSNIYFLEWYKEN 575
>pdb|2Z81|A Chain A, Crystal Structure Of The Tlr1-tlr2 Heterodimer Induced By
Binding Of A Tri-acylated Lipopeptide
pdb|2Z82|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 50.8 bits (120), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 82/307 (26%), Positives = 128/307 (41%), Gaps = 47/307 (15%)
Query: 108 SLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGV-IPHQLGNISNLQY 166
+ + L L HLDLSDN + + S+ G L +L+YLNL G + + + N++NLQ
Sbjct: 69 AFYSLGSLEHLDLSDNHLSSLSS-SWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQT 127
Query: 167 LDLS--KSYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYC 224
L + +++ E++ + L+ L+ LE LSL + S + S+ + L L
Sbjct: 128 LRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQS-----LKSIRDIHHLTLHLS 182
Query: 225 ELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSW----------VFGLRNLVFFDLSD 274
E + + SS++ L+L N + FQ+S R V D S
Sbjct: 183 ESAFLLEIFADILSSVRYLELRDT--NLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESF 240
Query: 275 NEFHGKIPSGLGNLTFLRH-LDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVR 333
NE L LR+ L+LS EF+ L N E + EL G++ T +R
Sbjct: 241 NEL----------LKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSEL-GKVETVTIR 289
Query: 334 LCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYALE--SLVLSGCHICGHLTNQLGQFKSLH 391
+ + Y DLS V + +E + L C HL KSL
Sbjct: 290 RLHIPQFYLFY-----DLSTVYSLLEKVKRITVENSKVFLVPCSFSQHL-------KSLE 337
Query: 392 TLELRDN 398
L+L +N
Sbjct: 338 FLDLSEN 344
Score = 38.5 bits (88), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 48/201 (23%), Positives = 87/201 (43%), Gaps = 14/201 (6%)
Query: 229 FPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNL 288
F S+PS +++K+LDLS FN + + NL L + + +L
Sbjct: 17 FTSIPSGLTAAMKSLDLS---FNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSL 73
Query: 289 TFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSL-----RELGGQIPTSFVRLCKLTSIDVS 343
L HLDLS N +S W L+ L++L+L + LG + + F L L ++ +
Sbjct: 74 GSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLG--VTSLFPNLTNLQTLRIG 131
Query: 344 YVKLGQDLSQVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGP 403
V+ ++ ++ G +L L + + + + L + +H L L + +
Sbjct: 132 NVETFSEIRRI----DFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESAFL 187
Query: 404 LPPALGELSSMKNLDLFNNTL 424
L LSS++ L+L + L
Sbjct: 188 LEIFADILSSVRYLELRDTNL 208
Score = 33.5 bits (75), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 47/150 (31%), Positives = 71/150 (47%), Gaps = 13/150 (8%)
Query: 185 SGLSF-LEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKAL 243
SGL+ ++ LDLS +T G + + +L+VL L ++ + SL+ L
Sbjct: 22 SGLTAAMKSLDLSFNKITYIGHG--DLRACANLQVLILKSSRINTIEGDAFYSLGSLEHL 79
Query: 244 DLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHG-KIPSGLGNLTFLRHLDLSSNEFN 302
DLS NH ++ SSW L +L + +L N + + S NLT L+ L + + E
Sbjct: 80 DLSDNHLSS---LSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETF 136
Query: 303 SAIP----GWLSKLNDLEF--LSLRELGGQ 326
S I L+ LN+LE LSLR Q
Sbjct: 137 SEIRRIDFAGLTSLNELEIKALSLRNYQSQ 166
Score = 29.6 bits (65), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 58/197 (29%), Positives = 81/197 (41%), Gaps = 23/197 (11%)
Query: 137 LKNLRY-LNLSGAEFAGVIPHQLGNISNLQYLDLSKSYYELQVESISWLSGLSFLEHLDL 195
LK LRY L LS EF + LG+ N D+ +++ +I L F DL
Sbjct: 244 LKLLRYILELSEVEFDDCTLNGLGDF-NPSESDVVSELGKVETVTIRRLHIPQFYLFYDL 302
Query: 196 SLV-DLTKSSDGLVTINS------------LPSLKVLKLS---YCELHHFPSLPSTNFSS 239
S V L + + NS L SL+ L LS E + S + S
Sbjct: 303 STVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPS 362
Query: 240 LKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSN 299
L+ L LS NH S+ + + L+NL D+S N FH +P +R L+LSS
Sbjct: 363 LQTLVLSQNHLR-SMQKTGEILLTLKNLTSLDISRNTFH-PMPDSCQWPEKMRFLNLSST 420
Query: 300 EF---NSAIPGWLSKLN 313
+ IP L L+
Sbjct: 421 GIRVVKTCIPQTLEVLD 437
>pdb|3A79|A Chain A, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
pdb|3A7B|A Chain A, Crystal Structure Of Tlr2-Streptococcus Pneumoniae
Lipoteichoic Acid Complex
pdb|3A7C|A Chain A, Crystal Structure Of Tlr2-Pe-Dtpa Complex
Length = 580
Score = 50.4 bits (119), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 82/307 (26%), Positives = 128/307 (41%), Gaps = 47/307 (15%)
Query: 108 SLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGV-IPHQLGNISNLQY 166
+ + L L HLDLSDN + + S+ G L +L+YLNL G + + + N++NLQ
Sbjct: 95 AFYSLGSLEHLDLSDNHLSSLSS-SWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQT 153
Query: 167 LDLS--KSYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYC 224
L + +++ E++ + L+ L+ LE LSL + S + S+ + L L
Sbjct: 154 LRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQS-----LKSIRDIHHLTLHLS 208
Query: 225 ELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSW----------VFGLRNLVFFDLSD 274
E + + SS++ L+L N + FQ+S R V D S
Sbjct: 209 ESAFLLEIFADILSSVRYLELRDT--NLARFQFSPLPVDEVSSPMKKLAFRGSVLTDESF 266
Query: 275 NEFHGKIPSGLGNLTFLRH-LDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVR 333
NE L LR+ L+LS EF+ L N E + EL G++ T +R
Sbjct: 267 NEL----------LKLLRYILELSEVEFDDCTLNGLGDFNPSESDVVSEL-GKVETVTIR 315
Query: 334 LCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYALE--SLVLSGCHICGHLTNQLGQFKSLH 391
+ + Y DLS V + +E + L C HL KSL
Sbjct: 316 RLHIPQFYLFY-----DLSTVYSLLEKVKRITVENSKVFLVPCSFSQHL-------KSLE 363
Query: 392 TLELRDN 398
L+L +N
Sbjct: 364 FLDLSEN 370
Score = 38.5 bits (88), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 49/201 (24%), Positives = 86/201 (42%), Gaps = 14/201 (6%)
Query: 229 FPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNL 288
F S+PS +++K+LDLS N L+ L+ N G LG+L
Sbjct: 43 FTSIPSGLTAAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEGDAFYSLGSL 102
Query: 289 TFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSL-----RELGGQIPTSFVRLCKLTSIDVS 343
HLDLS N +S W L+ L++L+L + LG + + F L L ++ +
Sbjct: 103 ---EHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLG--VTSLFPNLTNLQTLRIG 157
Query: 344 YVKLGQDLSQVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGP 403
V+ ++ ++ G +L L + + + + L + +H L L + +
Sbjct: 158 NVETFSEIRRI----DFAGLTSLNELEIKALSLRNYQSQSLKSIRDIHHLTLHLSESAFL 213
Query: 404 LPPALGELSSMKNLDLFNNTL 424
L LSS++ L+L + L
Sbjct: 214 LEIFADILSSVRYLELRDTNL 234
Score = 33.5 bits (75), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 47/150 (31%), Positives = 71/150 (47%), Gaps = 13/150 (8%)
Query: 185 SGLSF-LEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKAL 243
SGL+ ++ LDLS +T G + + +L+VL L ++ + SL+ L
Sbjct: 48 SGLTAAMKSLDLSFNKITYIGHG--DLRACANLQVLILKSSRINTIEGDAFYSLGSLEHL 105
Query: 244 DLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHG-KIPSGLGNLTFLRHLDLSSNEFN 302
DLS NH ++ SSW L +L + +L N + + S NLT L+ L + + E
Sbjct: 106 DLSDNHLSS---LSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETF 162
Query: 303 SAIP----GWLSKLNDLEF--LSLRELGGQ 326
S I L+ LN+LE LSLR Q
Sbjct: 163 SEIRRIDFAGLTSLNELEIKALSLRNYQSQ 192
Score = 29.6 bits (65), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 54/180 (30%), Positives = 75/180 (41%), Gaps = 20/180 (11%)
Query: 137 LKNLRY-LNLSGAEFAGVIPHQLGNISNLQYLDLSKSYYELQVESISWLSGLSFLEHLDL 195
LK LRY L LS EF + LG+ N D+ +++ +I L F DL
Sbjct: 270 LKLLRYILELSEVEFDDCTLNGLGDF-NPSESDVVSELGKVETVTIRRLHIPQFYLFYDL 328
Query: 196 SLV-DLTKSSDGLVTINS------------LPSLKVLKLS---YCELHHFPSLPSTNFSS 239
S V L + + NS L SL+ L LS E + S + S
Sbjct: 329 STVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPS 388
Query: 240 LKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSN 299
L+ L LS NH S+ + + L+NL D+S N FH +P +R L+LSS
Sbjct: 389 LQTLVLSQNHLR-SMQKTGEILLTLKNLTSLDISRNTFH-PMPDSCQWPEKMRFLNLSST 446
>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 = 49.3 bits (116), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 60/198 (30%), Positives = 88/198 (44%), Gaps = 15/198 (7%)
Query: 123 NDFQGIQTPSYLGSLKNLRYLNLS--GAEFAGVIPHQLGNISNLQYLDLSKSYYELQVES 180
N F + PS L +L+LS G F G ++L+YLDLS + +
Sbjct: 339 NAFSEVDLPS-------LEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLS---FNGVITM 388
Query: 181 ISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSL 240
S GL LEHLD +L + S+ V + SL +L L +S+ + SSL
Sbjct: 389 SSNFLGLEQLEHLDFQHSNLKQMSEFSVFL-SLRNLIYLDISHTHTRVAFNGIFNGLSSL 447
Query: 241 KALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNE 300
+ L ++GN F + LRNL F DLS + P+ +L+ L+ L++S N
Sbjct: 448 EVLKMAGNSFQENFL--PDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNN 505
Query: 301 FNSAIPGWLSKLNDLEFL 318
F S LN L+ L
Sbjct: 506 FFSLDTFPYKCLNSLQVL 523
Score = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 48/178 (26%), Positives = 82/178 (46%), Gaps = 9/178 (5%)
Query: 102 VGKINPSLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNI 161
V ++ + L+ L HLD ++ + + S SL+NL YL++S +
Sbjct: 385 VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGL 444
Query: 162 SNLQYLDLSKSYYELQV--ESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVL 219
S+L+ L ++ + ++ + + L L+FL DLS L + S NSL SL+VL
Sbjct: 445 SSLEVLKMAGNSFQENFLPDIFTELRNLTFL---DLSQCQLEQLSP--TAFNSLSSLQVL 499
Query: 220 KLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEF 277
+S+ + P +SL+ LD S NH S + +L F +L+ N+F
Sbjct: 500 NMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTS--KKQELQHFPSSLAFLNLTQNDF 555
Score = 37.7 bits (86), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 85/349 (24%), Positives = 142/349 (40%), Gaps = 51/349 (14%)
Query: 145 LSGAEFAGVIPHQLGNISNLQYLDLSKSYYELQVESISWLSGLSF-LEHLDLSLVDLTKS 203
L+G E ++ + N NL+ D S +E + L+ F L +LD L D+
Sbjct: 224 LAGLEVHRLVLGEFRNEGNLEKFDKSA------LEGLCNLTIEEFRLAYLDYYLDDIIDL 277
Query: 204 SDGLVTINSLPSLKV----------------LKLSYCELHHFPSLPSTNFSSLKALDLSG 247
+ L ++S + V L+L C+ FP+L SLK L +
Sbjct: 278 FNCLTNVSSFSLVSVTIERVKDFSYNFGWQHLELVNCKFGQFPTL---KLKSLKRLTFTS 334
Query: 248 NHFNNSLFQYSSWVFGLRNLVFFDLSDN--EFHGKIPSGLGNLTFLRHLDLSSNEFNSAI 305
N N+ + L +L F DLS N F G T L++LDLS N +
Sbjct: 335 NKGGNAFSEVD-----LPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMS 389
Query: 306 PGWLSKLNDLEFLSLRELGGQIPTSF---VRLCKLTSIDVSYVKLGQDLSQVLDIFSSCG 362
+L L LE L + + + F + L L +D+S+ + + + G
Sbjct: 390 SNFLG-LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFN-----G 443
Query: 363 AYALESLVLSGCHICGH-LTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFN 421
+LE L ++G + L + + ++L L+L L P A LSS++ L++ +
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 503
Query: 422 NTLDGAIPMSLGQLSHLELLDLSNNRLNGTL--------SEIHFVNLTK 462
N L+ L++LD S N + + S + F+NLT+
Sbjct: 504 NNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQ 552
Score = 36.2 bits (82), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 56/218 (25%), Positives = 84/218 (38%), Gaps = 36/218 (16%)
Query: 206 GLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLR 265
G + S P L+VL LS CE+ + S L L L+GN + S + L+
Sbjct: 44 GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ 103
Query: 266 NLVFFD---------------------LSDNEFHG-KIPSGLGNLTFLRHLDLSSNEFNS 303
LV + ++ N K+P NLT L HLDLSSN+ S
Sbjct: 104 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 163
Query: 304 AIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSC-- 361
L L+ + L+L P +F++ I + + L + L++ +C
Sbjct: 164 IYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDS-LNVMKTCIQ 222
Query: 362 GAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNS 399
G LE L LG+F++ LE D S
Sbjct: 223 GLAGLEVHRLV-----------LGEFRNEGNLEKFDKS 249
>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 = 49.3 bits (116), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 61/203 (30%), Positives = 90/203 (44%), Gaps = 9/203 (4%)
Query: 118 LDLSDNDFQGIQTPSYLGSLKNLRYLNLS--GAEFAGVIPHQLGNISNLQYLDLSKSYYE 175
L+L N Q + + L L L+LS G F G ++L+YLDLS +
Sbjct: 33 LELESNKLQSLPHGVF-DKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLS---FN 88
Query: 176 LQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPST 235
+ S GL LEHLD +L + S+ V + SL +L L +S+ +
Sbjct: 89 GVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFL-SLRNLIYLDISHTHTRVAFNGIFN 147
Query: 236 NFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLD 295
SSL+ L ++GN F + LRNL F DLS + P+ +L+ L+ L+
Sbjct: 148 GLSSLEVLKMAGNSFQENFL--PDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLN 205
Query: 296 LSSNEFNSAIPGWLSKLNDLEFL 318
+S N F S LN L+ L
Sbjct: 206 MSHNNFFSLDTFPYKCLNSLQVL 228
Score = 46.2 bits (108), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 49/178 (27%), Positives = 82/178 (46%), Gaps = 9/178 (5%)
Query: 102 VGKINPSLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNI 161
V ++ + L+ L HLD ++ + + S SL+NL YL++S +
Sbjct: 90 VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGL 149
Query: 162 SNLQYLDLSKSYYELQV--ESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVL 219
S+L+ L ++ + ++ + + L L+FL DLS L + S NSL SL+VL
Sbjct: 150 SSLEVLKMAGNSFQENFLPDIFTELRNLTFL---DLSQCQLEQLSP--TAFNSLSSLQVL 204
Query: 220 KLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEF 277
+S+ + P +SL+ LD S NH S Q +L F +L+ N+F
Sbjct: 205 NMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPS--SLAFLNLTQNDF 260
>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 = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 63/199 (31%), Positives = 89/199 (44%), Gaps = 17/199 (8%)
Query: 123 NDFQGIQTPSYLGSLKNLRYLNLS--GAEFAGVIPH-QLGNISNLQYLDLSKSYYELQVE 179
N F + PS L +L+LS G F G G IS L+YLDLS + +
Sbjct: 363 NAFSEVDLPS-------LEFLDLSRNGLSFKGCCSQSDFGTIS-LKYLDLS---FNGVIT 411
Query: 180 SISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSS 239
S GL LEHLD +L + S+ V + SL +L L +S+ + SS
Sbjct: 412 MSSNFLGLEQLEHLDFQHSNLKQMSEFSVFL-SLRNLIYLDISHTHTRVAFNGIFNGLSS 470
Query: 240 LKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSN 299
L+ L ++GN F + LRNL F DLS + P+ +L+ L+ L++S N
Sbjct: 471 LEVLKMAGNSFQENFL--PDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHN 528
Query: 300 EFNSAIPGWLSKLNDLEFL 318
F S LN L+ L
Sbjct: 529 NFFSLDTFPYKCLNSLQVL 547
Score = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 48/178 (26%), Positives = 82/178 (46%), Gaps = 9/178 (5%)
Query: 102 VGKINPSLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNI 161
V ++ + L+ L HLD ++ + + S SL+NL YL++S +
Sbjct: 409 VITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGL 468
Query: 162 SNLQYLDLSKSYYELQV--ESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVL 219
S+L+ L ++ + ++ + + L L+FL DLS L + S NSL SL+VL
Sbjct: 469 SSLEVLKMAGNSFQENFLPDIFTELRNLTFL---DLSQCQLEQLSP--TAFNSLSSLQVL 523
Query: 220 KLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEF 277
+S+ + P +SL+ LD S NH S + +L F +L+ N+F
Sbjct: 524 NMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTS--KKQELQHFPSSLAFLNLTQNDF 579
Score = 38.1 bits (87), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 138/603 (22%), Positives = 210/603 (34%), Gaps = 139/603 (23%)
Query: 206 GLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLR 265
G + S P L+VL LS CE+ + S L L L+GN + S + L+
Sbjct: 68 GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ 127
Query: 266 NLVFFD---------------------LSDNEFHG-KIPSGLGNLTFLRHLDLSSNEFNS 303
LV + ++ N K+P NLT L HLDLSSN+ S
Sbjct: 128 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 187
Query: 304 AIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSC-- 361
L L+ + L+L P +F++ I + + L + L++ +C
Sbjct: 188 IYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDS-LNVMKTCIQ 246
Query: 362 GAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFN 421
G LE L LG+F++ LE D S L E + LD +
Sbjct: 247 GLAGLEVHRLV-----------LGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYY- 294
Query: 422 NTLDGAIPMSLGQLSHLELLDLSNNRLNGTLSEIHFVNLTKLTSFSAFGNSLIFKVNQSW 481
LDG I + F LT ++SFS S+ + + +
Sbjct: 295 --LDGIIDL--------------------------FNCLTNVSSFSLV--SVTIERVKDF 324
Query: 482 VPPFQLEKLRLRSCHLGPQFPSW-LRSQKHLFILDISNTRISDTIPRWFWNSISQYVYLN 540
F + L L +C G QFP+ L+S K L
Sbjct: 325 SYNFGWQHLELVNCKFG-QFPTLKLKSLKR----------------------------LT 355
Query: 541 LSTNQIYGEIPNCDRPLPLVPSPGLLDLSNNALSGSIFHLICKRENEADNIYVYLKLSKN 600
++N+ D +PS LDLS N LS F C + + YL LS
Sbjct: 356 FTSNKGGNAFSEVD-----LPSLEFLDLSRNGLS---FKGCCSQSDFGTISLKYLDLS-- 405
Query: 601 YFSGDIPDCWMXXXXXXXXXXXXXXXXXRSNKLHGSLPIQLCRLNSLQILDVAHN----S 656
F+G I SN S L +L LD++H +
Sbjct: 406 -FNGVI----TMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVA 460
Query: 657 LSGIIPRCINNFTAMAAANSSDQDNAISYIRGGVSDVFEDASVVTKGFMVEYNTILNLVR 716
+GI +++ + A +S Q+N + D+F + +T
Sbjct: 461 FNGIF-NGLSSLEVLKMAGNSFQENFL-------PDIFTELRNLT--------------- 497
Query: 717 IMDISNNNFSGEVPKELTNLMGLQSLNFSHNLFTGKIPENIGNMRSIESLDFSMNQLSGK 776
+D+S P +L LQ LN SHN F + S++ LD+S+N +
Sbjct: 498 FLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTS 557
Query: 777 VPQ 779
Q
Sbjct: 558 KKQ 560
Score = 35.0 bits (79), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 67/259 (25%), Positives = 110/259 (42%), Gaps = 30/259 (11%)
Query: 219 LKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFH 278
L+L C+ FP+L SLK L + N N+ + L +L F DLS N
Sbjct: 333 LELVNCKFGQFPTL---KLKSLKRLTFTSNKGGNAFSEVD-----LPSLEFLDLSRNGLS 384
Query: 279 GK---IPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSF---V 332
K S G ++ L++LDLS N + +L L LE L + + + F +
Sbjct: 385 FKGCCSQSDFGTIS-LKYLDLSFNGVITMSSNFLG-LEQLEHLDFQHSNLKQMSEFSVFL 442
Query: 333 RLCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYALESLVLSGCHICGH-LTNQLGQFKSLH 391
L L +D+S+ + + + G +LE L ++G + L + + ++L
Sbjct: 443 SLRNLIYLDISHTHTRVAFNGIFN-----GLSSLEVLKMAGNSFQENFLPDIFTELRNLT 497
Query: 392 TLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDLSNN----- 446
L+L L P A LSS++ L++ +N L+ L++LD S N
Sbjct: 498 FLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTS 557
Query: 447 ---RLNGTLSEIHFVNLTK 462
L S + F+NLT+
Sbjct: 558 KKQELQHFPSSLAFLNLTQ 576
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 44.3 bits (103), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 65/209 (31%), Positives = 98/209 (46%), Gaps = 21/209 (10%)
Query: 233 PSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLR 292
P N ++L L+LS N ++ S + GL +L + S N+ P L NLT L
Sbjct: 124 PLKNLTNLNRLELSSNTISDI-----SALSGLTSLQQLNFSSNQVTDLKP--LANLTTLE 176
Query: 293 HLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLS 352
LD+SSN+ + L+KL +LE SL QI + L LT++D +L + +
Sbjct: 177 RLDISSNKVSDI--SVLAKLTNLE--SLIATNNQI-SDITPLGILTNLD----ELSLNGN 227
Query: 353 QVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELS 412
Q+ DI + L L L+ I L L L+L N +S P L L+
Sbjct: 228 QLKDIGTLASLTNLTDLDLANNQISNLA--PLSGLTKLTELKLGANQISNISP--LAGLT 283
Query: 413 SMKNLDLFNNTLDGAIPMS-LGQLSHLEL 440
++ NL+L N L+ P+S L L++L L
Sbjct: 284 ALTNLELNENQLEDISPISNLKNLTYLTL 312
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 43.5 bits (101), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 65/209 (31%), Positives = 97/209 (46%), Gaps = 21/209 (10%)
Query: 233 PSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLR 292
P N ++L L+LS N ++ S + GL +L S N+ P L NLT L
Sbjct: 124 PLKNLTNLNRLELSSNTISDI-----SALSGLTSLQQLSFSSNQVTDLKP--LANLTTLE 176
Query: 293 HLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLS 352
LD+SSN+ + L+KL +LE SL QI + L LT++D +L + +
Sbjct: 177 RLDISSNKVSDI--SVLAKLTNLE--SLIATNNQI-SDITPLGILTNLD----ELSLNGN 227
Query: 353 QVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELS 412
Q+ DI + L L L+ I L L L+L N +S P L L+
Sbjct: 228 QLKDIGTLASLTNLTDLDLANNQISNLA--PLSGLTKLTELKLGANQISNISP--LAGLT 283
Query: 413 SMKNLDLFNNTLDGAIPMS-LGQLSHLEL 440
++ NL+L N L+ P+S L L++L L
Sbjct: 284 ALTNLELNENQLEDISPISNLKNLTYLTL 312
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 43.5 bits (101), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 65/209 (31%), Positives = 97/209 (46%), Gaps = 21/209 (10%)
Query: 233 PSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLR 292
P N ++L L+LS N ++ S + GL +L S N+ P L NLT L
Sbjct: 124 PLKNLTNLNRLELSSNTISDI-----SALSGLTSLQQLSFSSNQVTDLKP--LANLTTLE 176
Query: 293 HLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLS 352
LD+SSN+ + L+KL +LE SL QI + L LT++D +L + +
Sbjct: 177 RLDISSNKVSDI--SVLAKLTNLE--SLIATNNQI-SDITPLGILTNLD----ELSLNGN 227
Query: 353 QVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELS 412
Q+ DI + L L L+ I L L L+L N +S P L L+
Sbjct: 228 QLKDIGTLASLTNLTDLDLANNQISNLA--PLSGLTKLTELKLGANQISNISP--LAGLT 283
Query: 413 SMKNLDLFNNTLDGAIPMS-LGQLSHLEL 440
++ NL+L N L+ P+S L L++L L
Sbjct: 284 ALTNLELNENQLEDISPISNLKNLTYLTL 312
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 43.5 bits (101), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 83/331 (25%), Positives = 130/331 (39%), Gaps = 25/331 (7%)
Query: 159 GNISNLQYLDLSKSYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKV 218
G + + LDL K+ ++ + + LE L+L+ ++ G N+L +L+
Sbjct: 29 GIPTETRLLDLGKN--RIKTLNQDEFASFPHLEELELNENIVSAVEPG--AFNNLFNLRT 84
Query: 219 LKLSYCELHHFPSLPSTNFSSLKALDLSGNHFN---NSLFQYSSWVFGLRNLVFFDLSDN 275
L L L P T S+L LD+S N + +FQ L NL ++ DN
Sbjct: 85 LGLRSNRLKLIPLGVFTGLSNLTKLDISENKIVILLDYMFQ------DLYNLKSLEVGDN 138
Query: 276 EFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSLREL--GGQIPTSFVR 333
+ L L L L S LS L+ L L LR L SF R
Sbjct: 139 DLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKR 198
Query: 334 LCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYA--LESLVLSGCHICGHLTNQLGQFKSLH 391
L +L +++S+ LD + Y L SL ++ C++ + L
Sbjct: 199 LYRLKVLEISHWP-------YLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLR 251
Query: 392 TLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDLSNNRLNGT 451
L L N +S L EL ++ + L L P + L++L +L++S N+L T
Sbjct: 252 FLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGNQLT-T 310
Query: 452 LSEIHFVNLTKLTSFSAFGNSLIFKVNQSWV 482
L E F ++ L + N L WV
Sbjct: 311 LEESVFHSVGNLETLILDSNPLACDCRLLWV 341
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 42.7 bits (99), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 58/212 (27%), Positives = 96/212 (45%), Gaps = 11/212 (5%)
Query: 339 SIDVSYVKLGQDLSQVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQF---KSLHTLEL 395
S + + L ++ Q++ + S LE L LS HI T ++G F +L+TLEL
Sbjct: 63 STNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHI---RTIEIGAFNGLANLNTLEL 119
Query: 396 RDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDLSNNRLNGTLSEI 455
DN L+ A LS +K L L NN ++ + ++ L LDL + +SE
Sbjct: 120 FDNRLTTIPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEG 179
Query: 456 HFVNLTKLTSFS-AFGNSLIFKVNQSWVPPFQLEKLRLRSCHLGPQFPSWLRSQKHLFIL 514
F L+ L + A N + + P +L++L L HL P + HL L
Sbjct: 180 AFEGLSNLRYLNLAMCN---LREIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKL 236
Query: 515 DISNTRISDTIPRWFWNSISQYVYLNLSTNQI 546
+ ++I I R ++++ V +NL+ N +
Sbjct: 237 WMIQSQI-QVIERNAFDNLQSLVEINLAHNNL 267
Score = 39.3 bits (90), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 48/148 (32%), Positives = 69/148 (46%), Gaps = 9/148 (6%)
Query: 104 KINPSLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNISN 163
K+N S L+HL L LS N + I+ ++ G L NL L L + +S
Sbjct: 80 KVN-SFKHLRHLEILQLSRNHIRTIEIGAFNG-LANLNTLELFDNRLTTIPNGAFVYLSK 137
Query: 164 LQYLDLSKSYYELQVESISWLSGLSFLEHLDL-SLVDLTKSSDGLVTINSLPSLKVLKLS 222
L+ L L + E + S ++ + + L LDL L L+ S+G L +L+ L L+
Sbjct: 138 LKELWLRNNPIE-SIPSYAF-NRIPSLRRLDLGELKRLSYISEG--AFEGLSNLRYLNLA 193
Query: 223 YCELHHFPSLPSTNFSSLKALDLSGNHF 250
C L P+L T L LDLSGNH
Sbjct: 194 MCNLREIPNL--TPLIKLDELDLSGNHL 219
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 49/160 (30%), Positives = 72/160 (45%), Gaps = 8/160 (5%)
Query: 417 LDLFNNTLDGAIPMSLGQLSHLELLDLSNNRLNGTLSEIHFVNLTKLTSFSAFGNSLIFK 476
L+L N + S L HLE+L LS N + T+ F L L + F N L
Sbjct: 69 LNLHENQIQIIKVNSFKHLRHLEILQLSRNHIR-TIEIGAFNGLANLNTLELFDNRLTTI 127
Query: 477 VNQSWVPPFQLEKLRLRSCHLGPQFPSWLRSQ-KHLFILDISNTRISDTIPRWFWNSISQ 535
N ++V +L++L LR+ + PS+ ++ L LD+ + I + +S
Sbjct: 128 PNGAFVYLSKLKELWLRNNPI-ESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSN 186
Query: 536 YVYLNLSTNQIYGEIPNCDRPLPLVPSPGLLDLSNNALSG 575
YLNL+ + EIPN PL+ LDLS N LS
Sbjct: 187 LRYLNLAMCNLR-EIPNLT---PLIKLDE-LDLSGNHLSA 221
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 78/255 (30%), Positives = 113/255 (44%), Gaps = 39/255 (15%)
Query: 112 LKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGA---------EFAGVIPHQLGNIS 162
LK L HL++ DND GI++ + G L NL+YL+LS + E + H +I
Sbjct: 333 LKCLEHLNMEDNDIPGIKSNMFTG-LINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHIL 391
Query: 163 NLQYLDLSKSYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLS 222
NL +SK ++ ++ SWL LE LDL L ++ + G L ++ + LS
Sbjct: 392 NLTKNKISK----IESDAFSWLGH---LEVLDLGLNEIGQELTG-QEWRGLENIFEIYLS 443
Query: 223 YCEL-----HHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEF 277
Y + + F +PS L+ + L + S FQ LRNL DLS+N
Sbjct: 444 YNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQ------PLRNLTILDLSNNNI 497
Query: 278 HGKIPSGLGNLTFLRHLDLSSNE----FNSAIPG----WLSKLNDLEFLSLRELG-GQIP 328
L L L LDL N + A PG +L L+ L L+L G +IP
Sbjct: 498 ANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIP 557
Query: 329 TS-FVRLCKLTSIDV 342
F L +L ID+
Sbjct: 558 VEVFKDLFELKIIDL 572
Score = 38.5 bits (88), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 108/413 (26%), Positives = 171/413 (41%), Gaps = 74/413 (17%)
Query: 97 TGSKLVGKINPSLFDLK--HLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVI 154
+ S+L N + LK +L LDLS N+ + S+ L L Y L +
Sbjct: 235 SNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSF-AWLPQLEYFFLEYNNIQHLF 293
Query: 155 PHQLGNISNLQYLDLSKSYYE--LQVESISWLSGLSF-----LEHLDLSLVDL--TKSS- 204
H L + N++YL+L +S+ + + + S+ + SF LEHL++ D+ KS+
Sbjct: 294 SHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNM 353
Query: 205 -DGLVTI------NSLPSLKVLK-LSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQ 256
GL+ + NS SL+ L ++ L H P L L+L+ N +
Sbjct: 354 FTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSP---------LHILNLTKNKISKIESD 404
Query: 257 YSSWVFGLRNLVFFDLSDNE----FHGKIPSGLGN-----LTFLRHLDLSSNEFNSAIPG 307
SW L +L DL NE G+ GL N L++ ++L L+ N F + +P
Sbjct: 405 AFSW---LGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSF-ALVPS 460
Query: 308 WLSKLNDLEFLSLRELG----GQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGA 363
L+ L LR + P+ F L LT +D+S + +L+ G
Sbjct: 461 -------LQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLE-----GL 508
Query: 364 YALESLVLSGCHIC--------GHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMK 415
LE L L ++ G L LH L L N +L +K
Sbjct: 509 EKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELK 568
Query: 416 NLDLFNNTLDGAIPMSL--GQLSHLELLDLSNNRLNGTLSEIH---FVNLTKL 463
+DL N L+ +P S+ Q+S L+ L+L N + ++ F NLT+L
Sbjct: 569 IIDLGLNNLN-TLPASVFNNQVS-LKSLNLQKNLITSVEKKVFGPAFRNLTEL 619
>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 = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 78/255 (30%), Positives = 113/255 (44%), Gaps = 39/255 (15%)
Query: 112 LKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGA---------EFAGVIPHQLGNIS 162
LK L HL++ DND GI++ + G L NL+YL+LS + E + H +I
Sbjct: 338 LKCLEHLNMEDNDIPGIKSNMFTG-LINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHIL 396
Query: 163 NLQYLDLSKSYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLS 222
NL +SK ++ ++ SWL LE LDL L ++ + G L ++ + LS
Sbjct: 397 NLTKNKISK----IESDAFSWLGH---LEVLDLGLNEIGQELTG-QEWRGLENIFEIYLS 448
Query: 223 YCEL-----HHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEF 277
Y + + F +PS L+ + L + S FQ LRNL DLS+N
Sbjct: 449 YNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQ------PLRNLTILDLSNNNI 502
Query: 278 HGKIPSGLGNLTFLRHLDLSSNE----FNSAIPG----WLSKLNDLEFLSLRELG-GQIP 328
L L L LDL N + A PG +L L+ L L+L G +IP
Sbjct: 503 ANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIP 562
Query: 329 TS-FVRLCKLTSIDV 342
F L +L ID+
Sbjct: 563 VEVFKDLFELKIIDL 577
Score = 38.1 bits (87), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 108/413 (26%), Positives = 171/413 (41%), Gaps = 74/413 (17%)
Query: 97 TGSKLVGKINPSLFDLK--HLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVI 154
+ S+L N + LK +L LDLS N+ + S+ L L Y L +
Sbjct: 240 SNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSF-AWLPQLEYFFLEYNNIQHLF 298
Query: 155 PHQLGNISNLQYLDLSKSYYE--LQVESISWLSGLSF-----LEHLDLSLVDL--TKSS- 204
H L + N++YL+L +S+ + + + S+ + SF LEHL++ D+ KS+
Sbjct: 299 SHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNM 358
Query: 205 -DGLVTI------NSLPSLKVLK-LSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQ 256
GL+ + NS SL+ L ++ L H P L L+L+ N +
Sbjct: 359 FTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSP---------LHILNLTKNKISKIESD 409
Query: 257 YSSWVFGLRNLVFFDLSDNE----FHGKIPSGLGN-----LTFLRHLDLSSNEFNSAIPG 307
SW L +L DL NE G+ GL N L++ ++L L+ N F + +P
Sbjct: 410 AFSW---LGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSF-ALVPS 465
Query: 308 WLSKLNDLEFLSLRELG----GQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGA 363
L+ L LR + P+ F L LT +D+S + +L+ G
Sbjct: 466 -------LQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLE-----GL 513
Query: 364 YALESLVLSGCHIC--------GHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMK 415
LE L L ++ G L LH L L N +L +K
Sbjct: 514 EKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELK 573
Query: 416 NLDLFNNTLDGAIPMSL--GQLSHLELLDLSNNRLNGTLSEIH---FVNLTKL 463
+DL N L+ +P S+ Q+S L+ L+L N + ++ F NLT+L
Sbjct: 574 IIDLGLNNLN-TLPASVFNNQVS-LKSLNLQKNLITSVEKKVFGPAFRNLTEL 624
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 78/255 (30%), Positives = 113/255 (44%), Gaps = 39/255 (15%)
Query: 112 LKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGA---------EFAGVIPHQLGNIS 162
LK L HL++ DND GI++ + G L NL+YL+LS + E + H +I
Sbjct: 328 LKCLEHLNMEDNDIPGIKSNMFTG-LINLKYLSLSNSFTSLRTLTNETFVSLAHSPLHIL 386
Query: 163 NLQYLDLSKSYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLS 222
NL +SK ++ ++ SWL LE LDL L ++ + G L ++ + LS
Sbjct: 387 NLTKNKISK----IESDAFSWLGH---LEVLDLGLNEIGQELTG-QEWRGLENIFEIYLS 438
Query: 223 YCEL-----HHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEF 277
Y + + F +PS L+ + L + S FQ LRNL DLS+N
Sbjct: 439 YNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQ------PLRNLTILDLSNNNI 492
Query: 278 HGKIPSGLGNLTFLRHLDLSSNE----FNSAIPG----WLSKLNDLEFLSLRELG-GQIP 328
L L L LDL N + A PG +L L+ L L+L G +IP
Sbjct: 493 ANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIP 552
Query: 329 TS-FVRLCKLTSIDV 342
F L +L ID+
Sbjct: 553 VEVFKDLFELKIIDL 567
Score = 38.1 bits (87), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 108/413 (26%), Positives = 171/413 (41%), Gaps = 74/413 (17%)
Query: 97 TGSKLVGKINPSLFDLK--HLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVI 154
+ S+L N + LK +L LDLS N+ + S+ L L Y L +
Sbjct: 230 SNSQLSTTSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSF-AWLPQLEYFFLEYNNIQHLF 288
Query: 155 PHQLGNISNLQYLDLSKSYYE--LQVESISWLSGLSF-----LEHLDLSLVDL--TKSS- 204
H L + N++YL+L +S+ + + + S+ + SF LEHL++ D+ KS+
Sbjct: 289 SHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNM 348
Query: 205 -DGLVTI------NSLPSLKVLK-LSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQ 256
GL+ + NS SL+ L ++ L H P L L+L+ N +
Sbjct: 349 FTGLINLKYLSLSNSFTSLRTLTNETFVSLAHSP---------LHILNLTKNKISKIESD 399
Query: 257 YSSWVFGLRNLVFFDLSDNE----FHGKIPSGLGN-----LTFLRHLDLSSNEFNSAIPG 307
SW L +L DL NE G+ GL N L++ ++L L+ N F + +P
Sbjct: 400 AFSW---LGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSF-ALVPS 455
Query: 308 WLSKLNDLEFLSLRELG----GQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGA 363
L+ L LR + P+ F L LT +D+S + +L+ G
Sbjct: 456 -------LQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLE-----GL 503
Query: 364 YALESLVLSGCHIC--------GHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMK 415
LE L L ++ G L LH L L N +L +K
Sbjct: 504 EKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELK 563
Query: 416 NLDLFNNTLDGAIPMSL--GQLSHLELLDLSNNRLNGTLSEIH---FVNLTKL 463
+DL N L+ +P S+ Q+S L+ L+L N + ++ F NLT+L
Sbjct: 564 IIDLGLNNLN-TLPASVFNNQVS-LKSLNLQKNLITSVEKKVFGPAFRNLTEL 614
>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 = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 91/353 (25%), Positives = 143/353 (40%), Gaps = 64/353 (18%)
Query: 115 LIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNISNLQYLDLSKSYY 174
L LDL+ +G+ PS + L L+ L LS F + N +L +L + +
Sbjct: 277 LQELDLTATHLKGL--PSGMKGLNLLKKLVLSVNHFDQLCQISAANFPSLTHLYIRGNVK 334
Query: 175 ELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPS 234
+L + + L L L+ LDLS D+ S + + +L L+ L LS+ E S
Sbjct: 335 KLHL-GVGCLEKLGNLQTLDLSHNDIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQAF 393
Query: 235 TNFSSLKALDLSGN--HFN--NSLFQYSSWVFGLR-NLVFFDLSDNEFHGKIPSGLGNLT 289
L+ LDL+ H N S FQ ++ L F D S+ L L
Sbjct: 394 KECPQLELLDLAFTRLHINAPQSPFQNLHFLQVLNLTYCFLDTSNQHL-------LAGLP 446
Query: 290 FLRHLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQ 349
LRHL+L N F G ++K N L+ + S++V
Sbjct: 447 VLRHLNLKGNHFQD---GTITKTNLLQ-------------------TVGSLEVL------ 478
Query: 350 DLSQVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALG 409
I SSCG +++ H G +++ ++L NSL+ +L
Sbjct: 479 -------ILSSCGLLSIDQ---QAFHSLGKMSH----------VDLSHNSLTCDSIDSLS 518
Query: 410 ELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDLSNNRLNGTLSEIHFVNLTK 462
L + L+L N+++ P L LS ++LS+N L+ T S IHF+ K
Sbjct: 519 HLKGIY-LNLAANSINIISPRLLPILSQQSTINLSHNPLDCTCSNIHFLTWYK 570
Score = 33.1 bits (74), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 41/97 (42%), Gaps = 11/97 (11%)
Query: 685 YIRGGVSDVFEDASVVTKGFMVEYNTILNLVRIMDISNNNFSGE--VPKELTNLMGLQSL 742
YIRG V + + K L ++ +D+S+N+ +L NL LQ+L
Sbjct: 328 YIRGNVKKLHLGVGCLEK---------LGNLQTLDLSHNDIEASDCCSLQLKNLSHLQTL 378
Query: 743 NFSHNLFTGKIPENIGNMRSIESLDFSMNQLSGKVPQ 779
N SHN G + +E LD + +L PQ
Sbjct: 379 NLSHNEPLGLQSQAFKECPQLELLDLAFTRLHINAPQ 415
>pdb|3V44|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Zebrafish
Tlr5
Length = 407
Score = 39.3 bits (90), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 69/320 (21%), Positives = 127/320 (39%), Gaps = 33/320 (10%)
Query: 173 YYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLV----TINSLPSLKVLKLSYCELHH 228
Y +L + SI+ L+ SF DL + + + + GLV T L SL +LKL Y +
Sbjct: 34 YVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQFLQ 93
Query: 229 FPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLG-N 287
+ ++L+ L L+ + + ++ ++ L +L L DN P+ N
Sbjct: 94 LETGAFNGLANLEVLTLTQCNLDGAVLS-GNFFKPLTSLEMLVLRDNNIKKIQPASFFLN 152
Query: 288 LTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSLR------------ELGGQIPTSFVRLC 335
+ LDL+ N+ S L F LR LG + + +
Sbjct: 153 MRRFHVLDLTFNKVKSICEEDLLNFQGKHFTLLRLSSITLQDMNEYWLGWEKCGNPFKNT 212
Query: 336 KLTSIDVSYVKLGQDLSQVLDIFSSCGAYALESLVLSGCHICG------------HLTNQ 383
+T++D+S + +++ F + ++SL+LS + G + T +
Sbjct: 213 SITTLDLSGNGFKESMAK--RFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFK 270
Query: 384 LGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDL 443
+ + T +L + + L + ++ L L N ++ + L+HL+ L L
Sbjct: 271 GLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLKELAL 330
Query: 444 SNNRLNGTLSEIHFVNLTKL 463
N+L I F LT L
Sbjct: 331 DTNQLKSVPDGI-FDRLTSL 349
Score = 33.5 bits (75), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 54/122 (44%), Gaps = 8/122 (6%)
Query: 291 LRHLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQD 350
+ ++DLS N S+L DL+FL + + Q P +R + S + L D
Sbjct: 32 VNYVDLSLNSIAELNETSFSRLQDLQFLKVEQ---QTPGLVIRNNTFRGLS-SLIILKLD 87
Query: 351 LSQVLDIFSSC--GAYALESLVLSGCHICGHLT--NQLGQFKSLHTLELRDNSLSGPLPP 406
+Q L + + G LE L L+ C++ G + N SL L LRDN++ P
Sbjct: 88 YNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPA 147
Query: 407 AL 408
+
Sbjct: 148 SF 149
>pdb|1O6S|A Chain A, Internalin (Listeria Monocytogenes) E-Cadherin (Human)
Recognition Complex
pdb|1O6T|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|B Chain B, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
Length = 466
Score = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 64/209 (30%), Positives = 96/209 (45%), Gaps = 22/209 (10%)
Query: 233 PSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLR 292
P N ++L L+LS N ++ S + L+ L F N+ P L NLT L
Sbjct: 129 PLKNLTNLNRLELSSNTISD--ISALSGLTSLQQLSF----GNQVTDLKP--LANLTTLE 180
Query: 293 HLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLS 352
LD+SSN+ + L+KL +LE SL QI + L LT++D +L + +
Sbjct: 181 RLDISSNKVSDI--SVLAKLTNLE--SLIATNNQI-SDITPLGILTNLD----ELSLNGN 231
Query: 353 QVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELS 412
Q+ DI + L L L+ I L L L+L N +S P L L+
Sbjct: 232 QLKDIGTLASLTNLTDLDLANNQISNLA--PLSGLTKLTELKLGANQISNISP--LAGLT 287
Query: 413 SMKNLDLFNNTLDGAIPMS-LGQLSHLEL 440
++ NL+L N L+ P+S L L++L L
Sbjct: 288 ALTNLELNENQLEDISPISNLKNLTYLTL 316
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 64/209 (30%), Positives = 96/209 (45%), Gaps = 22/209 (10%)
Query: 233 PSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLR 292
P N ++L L+LS N ++ S + L+ L F N+ P L NLT L
Sbjct: 128 PLKNLTNLNRLELSSNTISD--ISALSGLTSLQQLSF----GNQVTDLKP--LANLTTLE 179
Query: 293 HLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLS 352
LD+SSN+ + L+KL +LE SL QI + L LT++D +L + +
Sbjct: 180 RLDISSNKVSDI--SVLAKLTNLE--SLIATNNQI-SDITPLGILTNLD----ELSLNGN 230
Query: 353 QVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELS 412
Q+ DI + L L L+ I L L L+L N +S P L L+
Sbjct: 231 QLKDIGTLASLTNLTDLDLANNQISNLA--PLSGLTKLTELKLGANQISNISP--LAGLT 286
Query: 413 SMKNLDLFNNTLDGAIPMS-LGQLSHLEL 440
++ NL+L N L+ P+S L L++L L
Sbjct: 287 ALTNLELNENQLEDISPISNLKNLTYLTL 315
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 38.5 bits (88), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 64/209 (30%), Positives = 96/209 (45%), Gaps = 22/209 (10%)
Query: 233 PSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLR 292
P N ++L L+LS N ++ S + L+ L F N+ P L NLT L
Sbjct: 124 PLKNLTNLNRLELSSNTISD--ISALSGLTSLQQLNF----GNQVTDLKP--LANLTTLE 175
Query: 293 HLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLS 352
LD+SSN+ + L+KL +LE SL QI + L LT++D +L + +
Sbjct: 176 RLDISSNKVSDI--SVLAKLTNLE--SLIATNNQI-SDITPLGILTNLD----ELSLNGN 226
Query: 353 QVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELS 412
Q+ DI + L L L+ I L L L+L N +S P L L+
Sbjct: 227 QLKDIGTLASLTNLTDLDLANNQISNLA--PLSGLTKLTELKLGANQISNISP--LAGLT 282
Query: 413 SMKNLDLFNNTLDGAIPMS-LGQLSHLEL 440
++ NL+L N L+ P+S L L++L L
Sbjct: 283 ALTNLELNENQLEDISPISNLKNLTYLTL 311
>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 = 38.5 bits (88), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 64/209 (30%), Positives = 96/209 (45%), Gaps = 22/209 (10%)
Query: 233 PSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLR 292
P N ++L L+LS N ++ S + L+ L F N+ P L NLT L
Sbjct: 124 PLKNLTNLNRLELSSNTISD--ISALSGLTSLQQLNF----GNQVTDLKP--LANLTTLE 175
Query: 293 HLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLS 352
LD+SSN+ + L+KL +LE SL QI + L LT++D +L + +
Sbjct: 176 RLDISSNKVSDI--SVLAKLTNLE--SLIATNNQI-SDITPLGILTNLD----ELSLNGN 226
Query: 353 QVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELS 412
Q+ DI + L L L+ I L L L+L N +S P L L+
Sbjct: 227 QLKDIGTLASLTNLTDLDLANNQISNLA--PLSGLTKLTELKLGANQISNISP--LAGLT 282
Query: 413 SMKNLDLFNNTLDGAIPMS-LGQLSHLEL 440
++ NL+L N L+ P+S L L++L L
Sbjct: 283 ALTNLELNENQLEDISPISNLKNLTYLTL 311
>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 = 37.7 bits (86), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 53/121 (43%), Gaps = 28/121 (23%)
Query: 428 IPMSLGQLSHLELLDLSNNRLNGTLSEIHFVNLTKLTSFSAFGNSLIFKVNQ-SWVPPFQ 486
+P L HL L+DLSNNR++ TLS F N+T+L +LI N+ +PP
Sbjct: 46 VPKELSNYKHLTLIDLSNNRIS-TLSNQSFSNMTQLL-------TLILSYNRLRCIPPRT 97
Query: 487 LEKLRLRSCHLGPQFPSWLRSQKHLFILDISNTRISDTIPRWFWNSISQYVYLNLSTNQI 546
+ L K L +L + IS +P +N +S +L + N +
Sbjct: 98 FDGL------------------KSLRLLSLHGNDIS-VVPEGAFNDLSALSHLAIGANPL 138
Query: 547 Y 547
Y
Sbjct: 139 Y 139
>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 = 37.7 bits (86), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 47/146 (32%), Positives = 66/146 (45%), Gaps = 3/146 (2%)
Query: 428 IPMSLGQLSHLELLDLSNNRLNGTLSEIHFVNLTKLTSFSAFGNSLIFKVNQSWVPPFQL 487
+P SL S+ LLDLS+N L+ +E LT L S N L F ++++VP L
Sbjct: 33 VPQSLP--SYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNL 90
Query: 488 EKLRLRSCHLGPQFPSWLRSQKHLFILDISNTRISDTIPRWFWNSISQYVYLNLSTNQIY 547
L L S HL + L +L + N I + R + ++Q L LS NQI
Sbjct: 91 RYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIV-VVDRNAFEDMAQLQKLYLSQNQIS 149
Query: 548 GEIPNCDRPLPLVPSPGLLDLSNNAL 573
+ +P LLDLS+N L
Sbjct: 150 RFPVELIKDGNKLPKLMLLDLSSNKL 175
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 37.0 bits (84), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 42/164 (25%), Positives = 62/164 (37%), Gaps = 22/164 (13%)
Query: 206 GLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLR 265
G + S P L+VL LS CE+ + S L L L+GN + S + L+
Sbjct: 45 GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ 104
Query: 266 NLVFFDLSDNEFHG----------------------KIPSGLGNLTFLRHLDLSSNEFNS 303
LV + + K+P NLT L HLDLSSN+ S
Sbjct: 105 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 164
Query: 304 AIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKL 347
L L+ + L+L P +F++ I + + L
Sbjct: 165 IYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELAL 208
Score = 33.9 bits (76), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 63/138 (45%), Gaps = 9/138 (6%)
Query: 314 DLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYALESLVLSG 373
DL + LR LG SF +L +D+S ++ Q ++ + L +L+L+G
Sbjct: 35 DLSWNPLRHLGS---YSFFSFPELQVLDLSRCEI-----QTIEDGAYQSLSHLSTLILTG 86
Query: 374 CHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDG-AIPMSL 432
I SL L + +L+ +G L ++K L++ +N + +P
Sbjct: 87 NPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYF 146
Query: 433 GQLSHLELLDLSNNRLNG 450
L++LE LDLS+N++
Sbjct: 147 SNLTNLEHLDLSSNKIQS 164
>pdb|3ULA|A Chain A, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
pdb|3ULA|C Chain C, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
Length = 279
Score = 37.0 bits (84), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 42/164 (25%), Positives = 62/164 (37%), Gaps = 22/164 (13%)
Query: 206 GLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLR 265
G + S P L+VL LS CE+ + S L L L+GN + S + L+
Sbjct: 46 GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ 105
Query: 266 NLVFFDLSDNEFHG----------------------KIPSGLGNLTFLRHLDLSSNEFNS 303
LV + + K+P NLT L HLDLSSN+ S
Sbjct: 106 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 165
Query: 304 AIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKL 347
L L+ + L+L P +F++ I + + L
Sbjct: 166 IYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELAL 209
Score = 33.9 bits (76), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 63/138 (45%), Gaps = 9/138 (6%)
Query: 314 DLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYALESLVLSG 373
DL + LR LG SF +L +D+S ++ Q ++ + L +L+L+G
Sbjct: 36 DLSWNPLRHLGS---YSFFSFPELQVLDLSRCEI-----QTIEDGAYQSLSHLSTLILTG 87
Query: 374 CHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDG-AIPMSL 432
I SL L + +L+ +G L ++K L++ +N + +P
Sbjct: 88 NPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYF 147
Query: 433 GQLSHLELLDLSNNRLNG 450
L++LE LDLS+N++
Sbjct: 148 SNLTNLEHLDLSSNKIQS 165
>pdb|2Z62|A Chain A, Crystal Structure Of The Tv3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z65|A Chain A, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
pdb|2Z65|B Chain B, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
Length = 276
Score = 37.0 bits (84), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 42/164 (25%), Positives = 62/164 (37%), Gaps = 22/164 (13%)
Query: 206 GLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLR 265
G + S P L+VL LS CE+ + S L L L+GN + S + L+
Sbjct: 44 GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ 103
Query: 266 NLVFFDLSDNEFHG----------------------KIPSGLGNLTFLRHLDLSSNEFNS 303
LV + + K+P NLT L HLDLSSN+ S
Sbjct: 104 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 163
Query: 304 AIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKL 347
L L+ + L+L P +F++ I + + L
Sbjct: 164 IYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELAL 207
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 37.0 bits (84), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 42/164 (25%), Positives = 62/164 (37%), Gaps = 22/164 (13%)
Query: 206 GLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLR 265
G + S P L+VL LS CE+ + S L L L+GN + S + L+
Sbjct: 46 GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ 105
Query: 266 NLVFFDLSDNEFHG----------------------KIPSGLGNLTFLRHLDLSSNEFNS 303
LV + + K+P NLT L HLDLSSN+ S
Sbjct: 106 KLVALETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 165
Query: 304 AIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKL 347
L L+ + L+L P +F++ I + + L
Sbjct: 166 IYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELAL 209
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 37.0 bits (84), Expect = 0.047, Method: Compositional matrix adjust.
Identities = 42/164 (25%), Positives = 62/164 (37%), Gaps = 22/164 (13%)
Query: 206 GLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLR 265
G + S P L+VL LS CE+ + S L L L+GN + S + L+
Sbjct: 45 GSYSFFSFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQ 104
Query: 266 NLVFFDLSDNEFHG----------------------KIPSGLGNLTFLRHLDLSSNEFNS 303
LV + + K+P NLT L HLDLSSN+ S
Sbjct: 105 KLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS 164
Query: 304 AIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKL 347
L L+ + L+L P +F++ I + + L
Sbjct: 165 IYCTDLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELAL 208
>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 = 37.0 bits (84), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 97/377 (25%), Positives = 150/377 (39%), Gaps = 69/377 (18%)
Query: 125 FQGIQTPS----YLGSLKNLRYLNLSGAEFAGVIPHQLGNISNLQYLDLSKSYYELQVES 180
F+G+Q + +LG+ ++ L+ A F G+ D+S LQ
Sbjct: 218 FKGLQNSTLQSLWLGTFEDTDDQYLTSATFEGLC-------------DMSVESINLQKHR 264
Query: 181 ISWLSGLSF-----LEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPST 235
S LS +F ++ LDL+ L G+ +NSL L + S+ +L + +
Sbjct: 265 FSDLSSSTFRCFTRVQELDLTAAHLNGLPSGIEGMNSLKKLVLNANSFDQL---CQINAA 321
Query: 236 NFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGL--GNLTFLRH 293
+F SL+ L + GN L + + L NL DLS ++ L NL L++
Sbjct: 322 SFPSLRDLYIKGNM--RKLDLGTRCLEKLENLQKLDLSHSDIEASDCCNLQLKNLRHLQY 379
Query: 294 LDLSSNEFNSAIPGWLSKLNDLEFL--SLRELGGQIPTS-FVRLCKLTSIDVSYVKLGQD 350
L+LS NE + LE L + L + P S F L L +++S+ L
Sbjct: 380 LNLSYNEPLGLEDQAFKECPQLELLDVAFTHLHVKAPHSPFQNLHLLRVLNLSHCLLDTS 439
Query: 351 LSQVLDIFSSCGAYALESLVLSGCHICG---HLTNQLGQFKSLHTLELRDNSLSGPLPPA 407
+L G L L L G TN L SL L L +L A
Sbjct: 440 NQHLL-----AGLQDLRHLNLQGNSFQDGSISKTNLLQMVGSLEILILSSCNLLSIDQQA 494
Query: 408 LGELSSMKNLDLFNNTLDGAIPMSLGQLSHLE--------------------------LL 441
L ++ +LDL +N+L G S+ LSHL+ ++
Sbjct: 495 FHGLRNVNHLDLSHNSLTGD---SMDALSHLKGLYLNMASNNIRIIPPHLLPALSQQSII 551
Query: 442 DLSNNRLNGTLSEIHFV 458
+LS+N L+ T S IHF+
Sbjct: 552 NLSHNPLDCTCSNIHFI 568
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 35.8 bits (81), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 45/163 (27%), Positives = 69/163 (42%), Gaps = 36/163 (22%)
Query: 156 HQLGNISNLQYLDLSKSYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPS 215
+ N S LQ+LDLS+ E +E +W GL L +L L+ + S G + + L S
Sbjct: 45 YSFSNFSELQWLDLSRCEIE-TIEDKAW-HGLHHLSNLILTGNPIQSFSPG--SFSGLTS 100
Query: 216 LKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDN 275
L+ L +L S P +LK L+++ N ++
Sbjct: 101 LENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSC---------------------- 138
Query: 276 EFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFL 318
K+P+ NLT L H+DLS N + +NDL+FL
Sbjct: 139 ----KLPAYFSNLTNLVHVDLSYNYIQTI------TVNDLQFL 171
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 41/97 (42%), Gaps = 29/97 (29%)
Query: 112 LKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLS----GAEFAGV-------------- 153
L+ L HLD + + + S SL+ L YL++S +F G+
Sbjct: 393 LEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAG 452
Query: 154 -------IPHQLGNISNLQYLDLSKSYYELQVESISW 183
+ + N +NL +LDLSK Q+E ISW
Sbjct: 453 NSFKDNTLSNVFANTTNLTFLDLSKC----QLEQISW 485
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 52/196 (26%), Positives = 80/196 (40%), Gaps = 20/196 (10%)
Query: 139 NLRYLNLSGAEFAGVIPHQLGNISNLQYLDLSKS-YYELQVESISWLSGLSFLEHLDLSL 197
N RYLNL + ++ +L+ L LSK+ +++V + + L L+ LE D L
Sbjct: 36 NTRYLNLQENSIQVIRTDTFKHLRHLEILQLSKNLVRKIEVGAFNGLPSLNTLELFDNRL 95
Query: 198 VDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSG----NHFNNS 253
+ + L L+ L L + PS SL+ LDL + + +
Sbjct: 96 TTVPTQA-----FEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEA 150
Query: 254 LFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLN 313
F+ GL NL + +L IP+ L L L L+LS N + PG L
Sbjct: 151 AFE------GLVNLRYLNLGMCNLK-DIPN-LTALVRLEELELSGNRLDLIRPGSFQGLT 202
Query: 314 DLEFLSLRELGGQIPT 329
L L L + Q+ T
Sbjct: 203 SLRKLWL--MHAQVAT 216
Score = 34.7 bits (78), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 39/143 (27%), Positives = 60/143 (41%), Gaps = 8/143 (5%)
Query: 321 RELGGQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYALESLVLSGCHICGHL 380
REL ++P S ++ Y+ L ++ QV+ + LE L LS +
Sbjct: 24 RELA-EVPASI-------PVNTRYLNLQENSIQVIRTDTFKHLRHLEILQLSKNLVRKIE 75
Query: 381 TNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLEL 440
SL+TLEL DN L+ A LS ++ L L NN ++ + ++ L
Sbjct: 76 VGAFNGLPSLNTLELFDNRLTTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRR 135
Query: 441 LDLSNNRLNGTLSEIHFVNLTKL 463
LDL + +SE F L L
Sbjct: 136 LDLGELKRLEYISEAAFEGLVNL 158
>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 = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 45/163 (27%), Positives = 69/163 (42%), Gaps = 36/163 (22%)
Query: 156 HQLGNISNLQYLDLSKSYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPS 215
+ N S LQ+LDLS+ E +E +W GL L +L L+ + S G + + L S
Sbjct: 50 YSFSNFSELQWLDLSRCEIE-TIEDKAW-HGLHHLSNLILTGNPIQSFSPG--SFSGLTS 105
Query: 216 LKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDN 275
L+ L +L S P +LK L+++ N ++
Sbjct: 106 LENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSC---------------------- 143
Query: 276 EFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFL 318
K+P+ NLT L H+DLS N + +NDL+FL
Sbjct: 144 ----KLPAYFSNLTNLVHVDLSYNYIQTI------TVNDLQFL 176
Score = 30.4 bits (67), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 27/97 (27%), Positives = 41/97 (42%), Gaps = 29/97 (29%)
Query: 112 LKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLS----GAEFAGV-------------- 153
L+ L HLD + + + S SL+ L YL++S +F G+
Sbjct: 398 LEELQHLDFQHSTLKRVTEFSAFLSLEKLLYLDISYTNTKIDFDGIFLGLTSLNTLKMAG 457
Query: 154 -------IPHQLGNISNLQYLDLSKSYYELQVESISW 183
+ + N +NL +LDLSK Q+E ISW
Sbjct: 458 NSFKDNTLSNVFANTTNLTFLDLSKC----QLEQISW 490
>pdb|1FQV|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|E Chain E, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|G Chain G, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|I Chain I, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|K Chain K, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|M Chain M, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FQV|O Chain O, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|2ASS|B Chain B, Crystal Structure Of The Skp1-Skp2-Cks1 Complex
pdb|2AST|B Chain B, Crystal Structure Of Skp1-Skp2-Cks1 In Complex With A P27
Peptide
Length = 336
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 57/224 (25%), Positives = 90/224 (40%), Gaps = 32/224 (14%)
Query: 117 HLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNISNLQYLDLS--KSYY 174
H+DLS++ + L L+ L+L G + I + L SNL L+LS +
Sbjct: 97 HMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFS 156
Query: 175 ELQVESISWLSGLSFLEHLDLS-LVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLP 233
E ++++ LS S L+ L+LS D T+ H
Sbjct: 157 EFALQTL--LSSCSRLDELNLSWCFDFTEK------------------------HVQVAV 190
Query: 234 STNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDN-EFHGKIPSGLGNLTFLR 292
+ ++ L+LSG N S+ V NLV DLSD+ L +L+
Sbjct: 191 AHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQ 250
Query: 293 HLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCK 336
HL LS IP L +L ++ L ++ G +P ++L K
Sbjct: 251 HLSLS--RCYDIIPETLLELGEIPTLKTLQVFGIVPDGTLQLLK 292
>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 = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 95/369 (25%), Positives = 145/369 (39%), Gaps = 60/369 (16%)
Query: 115 LIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQL-GNISNLQYLDLSKSY 173
L LDLS N + +P ++ L L L+ A+ + +L +SN +LS +
Sbjct: 173 LRKLDLSSNPLKEF-SPGCFQTIGKLFALLLNNAQLNPHLTEKLCWELSNTSIQNLSLAN 231
Query: 174 YELQVESISWLSGLSF--LEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPS 231
+L S S SGL + L LDLS +L +G + + LPSL+ L L Y +
Sbjct: 232 NQLLATSESTFSGLKWTNLTQLDLSYNNLHDVGNG--SFSYLPSLRYLSLEYNNIQRLSP 289
Query: 232 LPSTNFSSLKALDLS----------GNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKI 281
S+L+ L L +H N F + W L+ L + ++ DN
Sbjct: 290 RSFYGLSNLRYLSLKRAFTKQSVSLASHPNIDDFSFQ-W---LKYLEYLNMDDNNIPSTK 345
Query: 282 PSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSL------------RELGGQIPT 329
+ L L++L LS F S L L + F+SL +
Sbjct: 346 SNTFTGLVSLKYLSLSKT-FTS-----LQTLTNETFVSLAHSPLLTLNLTKNHISKIANG 399
Query: 330 SFVRLCKLTSIDVSYVKLGQDLS--------QVLDIFSSCGAYALESLVLSGCHICGHLT 381
+F L +L +D+ ++ Q LS + +I+ S Y L LS T
Sbjct: 400 TFSWLGQLRILDLGLNEIEQKLSGQEWRGLRNIFEIYLSYNKY----LQLS--------T 447
Query: 382 NQLGQFKSLHTLELRDNSLSGP--LPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLE 439
+ SL L LR +L P L ++ LDL NN + L L +LE
Sbjct: 448 SSFALVPSLQRLMLRRVALKNVDISPSPFRPLRNLTILDLSNNNIANINEDLLEGLENLE 507
Query: 440 LLDLSNNRL 448
+LD +N L
Sbjct: 508 ILDFQHNNL 516
Score = 33.9 bits (76), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 73/284 (25%), Positives = 106/284 (37%), Gaps = 31/284 (10%)
Query: 251 NNSLFQYSSWVF-GLR--NLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPG 307
NN L S F GL+ NL DLS N H L LR+L L N P
Sbjct: 231 NNQLLATSESTFSGLKWTNLTQLDLSYNNLHDVGNGSFSYLPSLRYLSLEYNNIQRLSPR 290
Query: 308 WLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVK----LGQDLSQVLDIFSS--C 361
L++L +LSL+ + S + ++K L D + + S+
Sbjct: 291 SFYGLSNLRYLSLKRAFTKQSVSLASHPNIDDFSFQWLKYLEYLNMDDNNIPSTKSNTFT 350
Query: 362 GAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFN 421
G +L+ L LS F SL TL + +S P L L+L
Sbjct: 351 GLVSLKYLSLSKT------------FTSLQTLT-NETFVSLAHSPLL-------TLNLTK 390
Query: 422 NTLDGAIPMSLGQLSHLELLDLSNNRLNGTLSEIHFVNLTKLTSFSAFGNSLIFKVNQSW 481
N + + L L +LDL N + LS + L + N + S+
Sbjct: 391 NHISKIANGTFSWLGQLRILDLGLNEIEQKLSGQEWRGLRNIFEIYLSYNKYLQLSTSSF 450
Query: 482 VPPFQLEKLRLRSCHLG--PQFPSWLRSQKHLFILDISNTRISD 523
L++L LR L PS R ++L ILD+SN I++
Sbjct: 451 ALVPSLQRLMLRRVALKNVDISPSPFRPLRNLTILDLSNNNIAN 494
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 109/436 (25%), Positives = 162/436 (37%), Gaps = 86/436 (19%)
Query: 213 LPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVF-GLRNLVFFD 271
LP LKVL L + EL ++L LDL +NS+ + S F +NL+ D
Sbjct: 72 LPLLKVLNLQHNELSQISDQTFVFCTNLTELDL----MSNSIHKIKSNPFKNQKNLIKLD 127
Query: 272 LSDNEFHG-KIPSG--------------------------LGNLTFLRHLDLSSNEFNSA 304
LS N K+ +G LGN + LR LDLSSN
Sbjct: 128 LSHNGLSSTKLGTGVQLENLQELLLAKNKILALRSEELEFLGN-SSLRKLDLSSNPLKEF 186
Query: 305 IPGWLSKLNDLEFLSLRELGGQI-PTSFVRLC-KLTSIDVSYVKLG--QDLSQVLDIFSS 360
PG + L L L Q+ P +LC +L++ + + L Q L+ FS
Sbjct: 187 SPGCFQTIGKLFALLLN--NAQLNPHLTEKLCWELSNTSIQNLSLANNQLLATSESTFSG 244
Query: 361 CGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLF 420
L L LS ++ SL L L N++ P + LS+++ L L
Sbjct: 245 LKWTNLTQLDLSYNNLHDVGNGSFSYLPSLRYLSLEYNNIQRLSPRSFYGLSNLRYLSLK 304
Query: 421 NNTLDGAIPM---------SLGQLSHLELLDLSNNRLNGT-------LSEIHFVNLTK-L 463
++ + S L +LE L++ +N + T L + +++L+K
Sbjct: 305 RAFTKQSVSLASHPNIDDFSFQWLKYLEYLNMDDNNIPSTKSNTFTGLVSLKYLSLSKTF 364
Query: 464 TSFSAFGNSLIFKVNQSWVPPFQLEKLRLRSCHLGPQFPSWLRSQKHLFILDISNTRISD 523
TS N + S + L K + G SWL L ILD+ I
Sbjct: 365 TSLQTLTNETFVSLAHSPLLTLNLTKNHISKIANGTF--SWL---GQLRILDLGLNEIEQ 419
Query: 524 TIPRWFWNS--------ISQYVYLNLSTNQIYGEIPNCDR--------------PLPLVP 561
+ W +S YL LST+ + +P+ R P P P
Sbjct: 420 KLSGQEWRGLRNIFEIYLSYNKYLQLSTSS-FALVPSLQRLMLRRVALKNVDISPSPFRP 478
Query: 562 SPGL--LDLSNNALSG 575
L LDLSNN ++
Sbjct: 479 LRNLTILDLSNNNIAN 494
Score = 30.8 bits (68), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 74/256 (28%), Positives = 110/256 (42%), Gaps = 45/256 (17%)
Query: 112 LKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGA---------EFAGVIPHQLGNIS 162
LK+L +L++ DN+ ++ ++ G L +L+YL+LS E + H S
Sbjct: 328 LKYLEYLNMDDNNIPSTKSNTFTG-LVSLKYLSLSKTFTSLQTLTNETFVSLAH-----S 381
Query: 163 NLQYLDLSKSYY-ELQVESISWLSGLSFLEHLDLSLVDLTKSSD---GLVTINS--LPSL 216
L L+L+K++ ++ + SWL L L+ L L+ ++ S GL I L
Sbjct: 382 PLLTLNLTKNHISKIANGTFSWLGQLRILD-LGLNEIEQKLSGQEWRGLRNIFEIYLSYN 440
Query: 217 KVLKLSYCELHHFPSLPSTNFS--SLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSD 274
K L+LS PSL +LK +D+S + F LRNL DLS+
Sbjct: 441 KYLQLSTSSFALVPSLQRLMLRRVALKNVDISPSPFR-----------PLRNLTILDLSN 489
Query: 275 NEFHGKIPSGLGNLTFLRHLDLSSNE----FNSAIPG----WLSKLNDLEFLSLRELG-G 325
N L L L LD N + A PG +L L+ L L+L G
Sbjct: 490 NNIANINEDLLEGLENLEILDFQHNNLARLWKRANPGGPVNFLKGLSHLHILNLESNGLD 549
Query: 326 QIPTS-FVRLCKLTSI 340
+IP F L +L SI
Sbjct: 550 EIPVGVFKNLFELKSI 565
>pdb|3ZYN|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
pdb|3ZYN|B Chain B, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
Length = 321
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 56/215 (26%), Positives = 89/215 (41%), Gaps = 24/215 (11%)
Query: 139 NLRYLNLSGAEFAGVIPHQLGNISNLQYLDLSKS-YYELQVESISWLSGLSFLEHLDLSL 197
N RYLNL + ++ +L+ L LSK+ +++V + + L L+ LE D L
Sbjct: 36 NTRYLNLQENSIQVIRTDTFKHLRHLEILQLSKNLVRKIEVGAFNGLPSLNTLELFDNRL 95
Query: 198 VDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSG----NHFNNS 253
+ + L L+ L L + PS SL+ LDL + + +
Sbjct: 96 TTVPTQA-----FEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEA 150
Query: 254 LFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLN 313
F+ GL NL + +L IP+ L L L L+LS N + PG L
Sbjct: 151 AFE------GLVNLRYLNLGMCNL-KDIPN-LTALVRLEELELSGNRLDLIRPGSFQGLT 202
Query: 314 DLEFLSLRELGGQIPT----SFVRLCKLTSIDVSY 344
L L L + Q+ T +F L L +++S+
Sbjct: 203 SLRKLWL--MHAQVATIERNAFDDLKSLEELNLSH 235
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 39/143 (27%), Positives = 60/143 (41%), Gaps = 8/143 (5%)
Query: 321 RELGGQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYALESLVLSGCHICGHL 380
REL ++P S ++ Y+ L ++ QV+ + LE L LS +
Sbjct: 24 RELA-EVPASI-------PVNTRYLNLQENSIQVIRTDTFKHLRHLEILQLSKNLVRKIE 75
Query: 381 TNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLEL 440
SL+TLEL DN L+ A LS ++ L L NN ++ + ++ L
Sbjct: 76 VGAFNGLPSLNTLELFDNRLTTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRR 135
Query: 441 LDLSNNRLNGTLSEIHFVNLTKL 463
LDL + +SE F L L
Sbjct: 136 LDLGELKRLEYISEAAFEGLVNL 158
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 46/155 (29%), Positives = 62/155 (40%), Gaps = 27/155 (17%)
Query: 210 INSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFN------------------ 251
I LP+++ L L +LH +L ++L L L+GN
Sbjct: 59 IQYLPNVRYLALGGNKLHDISALKE--LTNLTYLILTGNQLQSLPNGVFDKLTNLKELVL 116
Query: 252 --NSLFQYSSWVFG-LRNLVFFDLSDNEFHGKIPSGL-GNLTFLRHLDLSSNEFNSAIPG 307
N L VF L NL + L N+ +P G+ LT L LDL +N+ S G
Sbjct: 117 VENQLQSLPDGVFDKLTNLTYLYLYHNQLQS-LPKGVFDKLTNLTRLDLDNNQLQSLPEG 175
Query: 308 WLSKLNDLEFLSL--RELGGQIPTSFVRLCKLTSI 340
KL L+ LSL +L F RL LT I
Sbjct: 176 VFDKLTQLKQLSLNDNQLKSVPDGVFDRLTSLTHI 210
Score = 33.1 bits (74), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 37/133 (27%), Positives = 61/133 (45%), Gaps = 3/133 (2%)
Query: 341 DVSYVKLGQDLSQVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSL 400
+V Y+ LG + ++ DI + L L+L+G + + +L L L +N L
Sbjct: 64 NVRYLALGGN--KLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQL 121
Query: 401 SGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDLSNNRLNGTLSEIHFVNL 460
+L+++ L L++N L +L++L LDL NN+L +L E F L
Sbjct: 122 QSLPDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQ-SLPEGVFDKL 180
Query: 461 TKLTSFSAFGNSL 473
T+L S N L
Sbjct: 181 TQLKQLSLNDNQL 193
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 50/179 (27%), Positives = 78/179 (43%), Gaps = 9/179 (5%)
Query: 251 NNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLS 310
NNS + + L N+ + L N+ H S L LT L +L L+ N+ S G
Sbjct: 49 NNSDIKSVQGIQYLPNVRYLALGGNKLHDI--SALKELTNLTYLILTGNQLQSLPNGVFD 106
Query: 311 KLNDLEFLSLRELGGQ-IPTS-FVRLCKLTSIDVSYVKLGQDLSQVLDIFSSCGAYALES 368
KL +L+ L L E Q +P F +L LT + + + +L V D ++ L++
Sbjct: 107 KLTNLKELVLVENQLQSLPDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDN 166
Query: 369 LVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGA 427
L + + ++L Q K L L DN L L+S+ ++ L NN D A
Sbjct: 167 NQLQS--LPEGVFDKLTQLKQL---SLNDNQLKSVPDGVFDRLTSLTHIWLLNNPWDCA 220
>pdb|1FS2|A Chain A, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
pdb|1FS2|C Chain C, Insights Into Scf Ubiquitin Ligases From The Structure Of
The Skp1-Skp2 Complex
Length = 272
Score = 35.0 bits (79), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 57/224 (25%), Positives = 90/224 (40%), Gaps = 32/224 (14%)
Query: 117 HLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNISNLQYLDLS--KSYY 174
H+DLS++ + L L+ L+L G + I + L SNL L+LS +
Sbjct: 59 HMDLSNSVIEVSTLHGILSQCSKLQNLSLEGLRLSDPIVNTLAKNSNLVRLNLSGCSGFS 118
Query: 175 ELQVESISWLSGLSFLEHLDLS-LVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLP 233
E ++++ LS S L+ L+LS D T+ H
Sbjct: 119 EFALQTL--LSSCSRLDELNLSWCFDFTEK------------------------HVQVAV 152
Query: 234 STNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDN-EFHGKIPSGLGNLTFLR 292
+ ++ L+LSG N S+ V NLV DLSD+ L +L+
Sbjct: 153 AHVSETITQLNLSGYRKNLQKSDLSTLVRRCPNLVHLDLSDSVMLKNDCFQEFFQLNYLQ 212
Query: 293 HLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCK 336
HL LS IP L +L ++ L ++ G +P ++L K
Sbjct: 213 HLSLS--RCYDIIPETLLELGEIPTLKTLQVFGIVPDGTLQLLK 254
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 44/94 (46%), Gaps = 19/94 (20%)
Query: 686 IRGGVSDVFEDASVVTKGFMVEYNTILNLVRIMDISNNNFSGE------VPKELTNLMGL 739
I VSDVF GF Y I + M+I N SG P +++ + L
Sbjct: 280 IHQVVSDVF--------GFPQSY--IYEIFSNMNIKNFTVSGTRMVHMLCPSKISPFLHL 329
Query: 740 QSLNFSHNLFTGKIPENIGNMRSIESLDFSMNQL 773
+FS+NL T + EN G++ +E+L MNQL
Sbjct: 330 ---DFSNNLLTDTVFENCGHLTELETLILQMNQL 360
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 33.9 bits (76), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 57/206 (27%), Positives = 82/206 (39%), Gaps = 18/206 (8%)
Query: 117 HLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNISNLQYLDLSKSYYEL 176
LDL N + + ++ L LR L L+ + + + NL+ L ++ + +L
Sbjct: 41 KLDLQSNKLSSLPSKAF-HRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDN--KL 97
Query: 177 QVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPSTN 236
Q I L L L L L KS V +SL L L L Y EL P
Sbjct: 98 QALPIGVFDQLVNLAELRLDRNQL-KSLPPRV-FDSLTKLTYLSLGYNELQSLPKGVFDK 155
Query: 237 FSSLKALDLSGNHFNNSLFQYSSWVF-GLRNLVFFDLSDNEFHGKIPSG-LGNLTFLRHL 294
+SLK L L +NN L + F L L L +N+ ++P G +L L+ L
Sbjct: 156 LTSLKELRL----YNNQLKRVPEGAFDKLTELKTLKLDNNQLK-RVPEGAFDSLEKLKML 210
Query: 295 DLSSNEFNSAIPG------WLSKLND 314
L N ++ G WL K D
Sbjct: 211 QLQENPWDCTCNGIIYMAKWLKKKAD 236
Score = 33.5 bits (75), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 38/117 (32%), Positives = 50/117 (42%), Gaps = 7/117 (5%)
Query: 210 INSLPS-----LKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFG- 263
++SLPS L L+L Y + +LP+ F LK L+ +N L VF
Sbjct: 49 LSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLW-VTDNKLQALPIGVFDQ 107
Query: 264 LRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSL 320
L NL L N+ P +LT L +L L NE S G KL L+ L L
Sbjct: 108 LVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRL 164
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 53/185 (28%), Positives = 75/185 (40%), Gaps = 10/185 (5%)
Query: 281 IPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQ-IPTS-FVRLCKLT 338
IPS + T + LDL SN+ +S +L L L L + Q +P F L L
Sbjct: 31 IPSNIPADT--KKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLE 88
Query: 339 SIDVSYVKLGQDLSQVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDN 398
++ V+ KL Q L I L L L + L L L N
Sbjct: 89 TLWVTDNKL-----QALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYN 143
Query: 399 SLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDLSNNRLNGTLSEIHFV 458
L +L+S+K L L+NN L + +L+ L+ L L NN+L + E F
Sbjct: 144 ELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLK-RVPEGAFD 202
Query: 459 NLTKL 463
+L KL
Sbjct: 203 SLEKL 207
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 33.9 bits (76), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 80/307 (26%), Positives = 131/307 (42%), Gaps = 65/307 (21%)
Query: 231 SLPSTNFSSLKALDLSGN---HFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGN 287
S+PS ++K+LDLS N + +NS Q L+ LV N S LG+
Sbjct: 19 SIPSGLTEAVKSLDLSNNRITYISNSDLQR---CVNLQALVLTSNGINTIEEDSFSSLGS 75
Query: 288 LTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSL-----RELGGQIPTSFVRLCKLTSIDV 342
L HLDLS N ++ W L+ L FL+L + LG + F L KL + V
Sbjct: 76 L---EHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNPYKTLGE--TSLFSHLTKLQILRV 130
Query: 343 ----SYVKL------GQDLSQVLDIFSS-CGAYALESL--VLSGCHICGHLTNQLGQFK- 388
++ K+ G + L+I +S +Y +SL + + H+ H+ + +
Sbjct: 131 GNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHLILHMKQHILLLEI 190
Query: 389 ------SLHTLELRDNSLSGPLPPAL--GELSSM------KNLDLFNNTLDGAIPMSLGQ 434
S+ LELRD L L GE +S+ +N+ + + +L + + L Q
Sbjct: 191 FVDVTSSVECLELRDTDLDTFHFSELSTGETNSLIKKFTFRNVKITDESLFQVMKL-LNQ 249
Query: 435 LSHLELLDLSNNRLNGTLSEIHFVNLTKLTSFSAFGNSLIFKVNQSWVPPFQLEKLRLRS 494
+S L L+ + LNG + +F A N + + P ++E L +R
Sbjct: 250 ISGLLELEFDDCTLNG------------VGNFRASDNDRV-------IDPGKVETLTIRR 290
Query: 495 CHLGPQF 501
H+ P+F
Sbjct: 291 LHI-PRF 296
Score = 30.4 bits (67), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 38/78 (48%), Gaps = 5/78 (6%)
Query: 239 SLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSS 298
SL+ L L NH SL + + L+NL D+S N FH +P +++L+LSS
Sbjct: 362 SLQTLILRQNHLA-SLEKTGETLLTLKNLTNIDISKNSFHS-MPETCQWPEKMKYLNLSS 419
Query: 299 NEFNSA---IPGWLSKLN 313
+S IP L L+
Sbjct: 420 TRIHSVTGCIPKTLEILD 437
Score = 30.0 bits (66), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 42/138 (30%), Positives = 66/138 (47%), Gaps = 20/138 (14%)
Query: 195 LSLVDLTKSSDGLVTI-----NSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNH 249
++L L +S+G+ TI +SL SL+ L LSY L + S SSL L+L GN
Sbjct: 50 VNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNP 109
Query: 250 FN----NSLFQYSSWVFGLR--NL-VFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFN 302
+ SLF + + + LR N+ F + +F G LTFL L++ +++
Sbjct: 110 YKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAG--------LTFLEELEIDASDLQ 161
Query: 303 SAIPGWLSKLNDLEFLSL 320
S P L + ++ L L
Sbjct: 162 SYEPKSLKSIQNVSHLIL 179
Score = 29.6 bits (65), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 5/58 (8%)
Query: 104 KINPSLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEF---AGVIPHQL 158
K +L LK+L ++D+S N F + P + ++YLNLS G IP L
Sbjct: 378 KTGETLLTLKNLTNIDISKNSFHSM--PETCQWPEKMKYLNLSSTRIHSVTGCIPKTL 433
>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 = 33.9 bits (76), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 55/187 (29%), Positives = 68/187 (36%), Gaps = 12/187 (6%)
Query: 265 RNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSN-EFNSAIPGWLSKLNDLEFLSLREL 323
RNL L N G + LT L LDLS N + P L L L L
Sbjct: 55 RNLTILWLHSNALAGIDAAAFTGLTLLEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRC 114
Query: 324 GGQI--PTSFVRLCKLTSIDVSYVKLGQDLSQVL--DIFSSCGAYALESLVLSGCHICGH 379
G Q P F L L Y+ L + Q L + F G L L L G I
Sbjct: 115 GLQELGPGLFRGLAAL-----QYLYLQDNNLQALPDNTFRDLG--NLTHLFLHGNRIPSV 167
Query: 380 LTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLE 439
+ SL L L N ++ P A +L + L LF N L L L L+
Sbjct: 168 PEHAFRGLHSLDRLLLHQNHVARVHPHAFRDLGRLMTLYLFANNLSMLPAEVLVPLRSLQ 227
Query: 440 LLDLSNN 446
L L++N
Sbjct: 228 YLRLNDN 234
>pdb|3V47|A Chain A, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
pdb|3V47|B Chain B, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
Length = 455
Score = 33.5 bits (75), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 54/122 (44%), Gaps = 8/122 (6%)
Query: 291 LRHLDLSSNEFNSAIPGWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQD 350
+ ++DLS N S+L DL+FL + + Q P +R + S + L D
Sbjct: 32 VNYVDLSLNSIAELNETSFSRLQDLQFLKVEQ---QTPGLVIRNNTFRGLS-SLIILKLD 87
Query: 351 LSQVLDIFSSC--GAYALESLVLSGCHICGHLT--NQLGQFKSLHTLELRDNSLSGPLPP 406
+Q L + + G LE L L+ C++ G + N SL L LRDN++ P
Sbjct: 88 YNQFLQLETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVLRDNNIKKIQPA 147
Query: 407 AL 408
+
Sbjct: 148 SF 149
>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 = 33.1 bits (74), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 87/363 (23%), Positives = 146/363 (40%), Gaps = 66/363 (18%)
Query: 111 DLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNI--SNLQYLD 168
+LK L LDLS N + + G L +L+ ++ S + V H+L + L +
Sbjct: 121 NLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFS 180
Query: 169 LSKSYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDG-LVTINSLPSLKVLKLSYCELH 227
L+ + +V S+ W ++ ++ L ++D+ S +G V I S + K
Sbjct: 181 LAANSLYSRV-SVDWGKCMNPFRNMVLEILDV--SGNGWTVDITGNFSNAISK------- 230
Query: 228 HFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGN 287
S FS + A + G FG N+ D N F G S
Sbjct: 231 ------SQAFSLILAHHIMGAG------------FGFHNIK--DPDQNTFAGLARSS--- 267
Query: 288 LTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSL--RELGGQIPTSFVRLCKLTSIDVSYV 345
+RHLDLS S L DL+ L+L ++ +F L L +++SY
Sbjct: 268 ---VRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYN 324
Query: 346 KLGQDLSQVLDIFSS--CGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSG- 402
LG+ ++SS G + + L HI + L TL+LRDN+L+
Sbjct: 325 LLGE-------LYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNALTTI 377
Query: 403 ---PLPPAL----GELSSMKNLDLFNNTLDGA--------IPMSLGQLSHLELLDLSNNR 447
P P + +L ++ ++L N + + I L ++ HL++L L+ NR
Sbjct: 378 HFIPSIPDIFLSGNKLVTLPKINLTANLIHLSENRLENLDILYFLLRVPHLQILILNQNR 437
Query: 448 LNG 450
+
Sbjct: 438 FSS 440
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 24/45 (53%)
Query: 106 NPSLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEF 150
N S + L HLDLS NDF + G+L L +L LS A+F
Sbjct: 114 NISCCPMASLRHLDLSFNDFDVLPVCKEFGNLTKLTFLGLSAAKF 158
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 27/114 (23%), Positives = 51/114 (44%), Gaps = 25/114 (21%)
Query: 231 SLPSTNFSSLKALDLSGNHFNNSLFQYS-SWVFGLRNLVFFDLSDNEFHGK--------- 280
+L + N SSL+ LD+S N N+ + + +W +++ +LS N G
Sbjct: 396 ALMTKNMSSLETLDVSLNSLNSHAYDRTCAWA---ESILVLNLSSNMLTGSVFRCLPPKV 452
Query: 281 ------------IPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSLRE 322
IP + +L L+ L+++SN+ S G +L L+++ L +
Sbjct: 453 KVLDLHNNRIMSIPKDVTHLQALQELNVASNQLKSVPDGVFDRLTSLQYIWLHD 506
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 121/558 (21%), Positives = 207/558 (37%), Gaps = 114/558 (20%)
Query: 196 SLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPSTNF-SSLKALDLSGNHFNNSL 254
S+VD + + V + P K L LS + +P +F S L+ L LS N +
Sbjct: 34 SMVDYSNRNLTHVPKDLPPRTKALSLSQNSISEL-RMPDISFLSELRVLRLSHNRIRS-- 90
Query: 255 FQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLND 314
+ ++F ++L + D+S N + +L RHLDLS N+F+ +P
Sbjct: 91 LDFHVFLFN-QDLEYLDVSHNRLQNISCCPMASL---RHLDLSFNDFD-VLP-------- 137
Query: 315 LEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKLGQ-DLSQVLDIFSSCGAYALESLVLSG 373
+E G L KLT + +S K Q DL V + SC L S
Sbjct: 138 ----VCKEFGN--------LTKLTFLGLSAAKFRQLDLLPVAHLHLSCILLDLVSY---- 181
Query: 374 CHICGHLTN--QLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMS 431
HI G T Q+ LH L NSL + MS
Sbjct: 182 -HIKGGETESLQIPNTTVLH-LVFHPNSL-----------------------FSVQVNMS 216
Query: 432 LGQLSHLELLDLSNNRLNGTLSEIHFVNLTKLTSFSAFGNSLIFKVNQSWVPPFQLEKLR 491
+ L HL+ LSN +LN + L++LT N + + +W +L +
Sbjct: 217 VNALGHLQ---LSNIKLNDENCQRLMTFLSELTRGPTLLNVTLQHIETTWKCSVKLFQF- 272
Query: 492 LRSCHLGPQFPSWLRSQKHLFILDISNTRISDTIPRWFWNSISQYVYLNLSTNQIYGEIP 551
W R ++L I +++ T D + + + + + NQ++
Sbjct: 273 -----------FWPRPVEYLNIYNLTITERIDREEFTYSETALKSLMIEHVKNQVFLFSK 321
Query: 552 NCDRPLPLVPSPGLLDLSNNALSGSIFHLICKRENEADNIYVYLKLSKNYFSGDIPDCWM 611
+ + +L +S+ H++C + + + +L ++N F+ +
Sbjct: 322 EALYSVFAEMNIKMLSISDTPF----IHMVCP---PSPSSFTFLNFTQNVFTDSV----- 369
Query: 612 XXXXXXXXXXXXXXXXXRSNKLHGSLPIQLCRLN--SLQILDVAHNSLSGIIPRCINNFT 669
+ N L + L N SL+ LDV+ NSL
Sbjct: 370 --FQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSL------------ 415
Query: 670 AMAAANSSDQDNAISYIRGGVSDVFEDASVVTKGFMVEYNTILNLVRIMDISNNNFSGEV 729
NS D ++ + V +S + G + + + V+++D+ NN +
Sbjct: 416 -----NSHAYDRTCAWAESIL--VLNLSSNMLTGSV--FRCLPPKVKVLDLHNNRIMS-I 465
Query: 730 PKELTNLMGLQSLNFSHN 747
PK++T+L LQ LN + N
Sbjct: 466 PKDVTHLQALQELNVASN 483
>pdb|1DCE|A Chain A, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
pdb|1DCE|C Chain C, Crystal Structure Of Rab Geranylgeranyltransferase From
Rat Brain
Length = 567
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 42/90 (46%), Gaps = 3/90 (3%)
Query: 384 LGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDL 443
L Q + L+L N L LPPAL L ++ L +N L+ + L L+ L L
Sbjct: 459 LEQLLLVTHLDLSHNRLRA-LPPALAALRCLEVLQASDNALENVD--GVANLPRLQELLL 515
Query: 444 SNNRLNGTLSEIHFVNLTKLTSFSAFGNSL 473
NNRL + + V+ +L + GNSL
Sbjct: 516 CNNRLQQSAAIQPLVSCPRLVLLNLQGNSL 545
>pdb|1LTX|A Chain A, Structure Of Rab Escort Protein-1 In Complex With Rab
Geranylgeranyl Transferase And Isoprenoid
Length = 567
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 42/90 (46%), Gaps = 3/90 (3%)
Query: 384 LGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDL 443
L Q + L+L N L LPPAL L ++ L +N L+ + L L+ L L
Sbjct: 459 LEQLLLVTHLDLSHNRLRA-LPPALAALRCLEVLQASDNALENVD--GVANLPRLQELLL 515
Query: 444 SNNRLNGTLSEIHFVNLTKLTSFSAFGNSL 473
NNRL + + V+ +L + GNSL
Sbjct: 516 CNNRLQQSAAIQPLVSCPRLVLLNLQGNSL 545
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 32/93 (34%), Positives = 44/93 (47%), Gaps = 9/93 (9%)
Query: 231 SLPSTNFSSLKALDLSGN---HFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGN 287
S+PS ++K+LDLS N + +NS Q L+ LV N S LG+
Sbjct: 45 SIPSGLTEAVKSLDLSNNRITYISNSDLQR---CVNLQALVLTSNGINTIEEDSFSSLGS 101
Query: 288 LTFLRHLDLSSNEFNSAIPGWLSKLNDLEFLSL 320
L HLDLS N ++ W L+ L FL+L
Sbjct: 102 L---EHLDLSYNYLSNLSSSWFKPLSSLTFLNL 131
Score = 30.0 bits (66), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 42/138 (30%), Positives = 66/138 (47%), Gaps = 20/138 (14%)
Query: 195 LSLVDLTKSSDGLVTI-----NSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNH 249
++L L +S+G+ TI +SL SL+ L LSY L + S SSL L+L GN
Sbjct: 76 VNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGNP 135
Query: 250 F----NNSLFQYSSWVFGLR--NL-VFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFN 302
+ SLF + + + LR N+ F + +F G LTFL L++ +++
Sbjct: 136 YKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAG--------LTFLEELEIDASDLQ 187
Query: 303 SAIPGWLSKLNDLEFLSL 320
S P L + ++ L L
Sbjct: 188 SYEPKSLKSIQNVSHLIL 205
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 47/167 (28%), Positives = 74/167 (44%), Gaps = 6/167 (3%)
Query: 383 QLGQF---KSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLE 439
++G F SL+TLEL DN L+ A LS ++ L L NN ++ + ++ L
Sbjct: 115 EVGAFNGLASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLM 174
Query: 440 LLDLSNNRLNGTLSEIHFVNLTKLTSFSAFGNSLIFKVNQSWVPPFQLEKLRLRSCHLGP 499
LDL + +SE F L L + G I K + P LE+L + H
Sbjct: 175 RLDLGELKKLEYISEGAFEGLFNL-KYLNLGMCNI-KDMPNLTPLVGLEELEMSGNHFPE 232
Query: 500 QFPSWLRSQKHLFILDISNTRISDTIPRWFWNSISQYVYLNLSTNQI 546
P L L + N+++S I R ++ ++ V LNL+ N +
Sbjct: 233 IRPGSFHGLSSLKKLWVMNSQVS-LIERNAFDGLASLVELNLAHNNL 278
Score = 30.4 bits (67), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 43/142 (30%), Positives = 62/142 (43%), Gaps = 12/142 (8%)
Query: 112 LKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNISNLQYLDLSK 171
L HL L L N + I+ ++ G L +L L L + +S L+ L L
Sbjct: 98 LHHLEVLQLGRNSIRQIEVGAFNG-LASLNTLELFDNWLTVIPSGAFEYLSKLRELWLRN 156
Query: 172 SYYELQVESIS--WLSGLSFLEHLDL-SLVDLTKSSDGLVTINSLPSLKVLKLSYCELHH 228
+ +ESI + + L LDL L L S+G L +LK L L C +
Sbjct: 157 N----PIESIPSYAFNRVPSLMRLDLGELKKLEYISEG--AFEGLFNLKYLNLGMCNIKD 210
Query: 229 FPSLPSTNFSSLKALDLSGNHF 250
P+L T L+ L++SGNHF
Sbjct: 211 MPNL--TPLVGLEELEMSGNHF 230
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 32.0 bits (71), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 46/101 (45%), Gaps = 7/101 (6%)
Query: 203 SSDGLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVF 262
SSDGL LP L L+L +L S ++ L L N + + S+ +F
Sbjct: 45 SSDGL--FGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLG----ENKIKEISNKMF 98
Query: 263 -GLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFN 302
GL L +L DN+ +P +L L L+L+SN FN
Sbjct: 99 LGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFN 139
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 42/82 (51%), Gaps = 3/82 (3%)
Query: 105 INPSLFD-LKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNISN 163
I P+ F+ H+ L L +N + I +LG L L+ LNL + + V+P ++++
Sbjct: 69 IEPNAFEGASHIQELQLGENKIKEISNKMFLG-LHQLKTLNLYDNQISCVMPGSFEHLNS 127
Query: 164 LQYLDLSKSYYELQVESISWLS 185
L L+L+ + + ++W +
Sbjct: 128 LTSLNLASNPFNCNCH-LAWFA 148
Score = 30.4 bits (67), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 37/126 (29%), Positives = 56/126 (44%), Gaps = 22/126 (17%)
Query: 384 LGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTL-DGAIPMSLGQLSHLELLD 442
G+ L LEL+ N L+G P A S ++ L L N + + + M LG L L+ L+
Sbjct: 50 FGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLG-LHQLKTLN 108
Query: 443 LSNNRLNGTLSEIHFVNLTKLTSFSAFGNSLIFKVNQSWVPPFQLEKLRLRSCHLGPQFP 502
L +N+++ + F +L LTS + N PF +CHL F
Sbjct: 109 LYDNQISCVMPG-SFEHLNSLTSLNLASN------------PFNC------NCHLA-WFA 148
Query: 503 SWLRSQ 508
WLR +
Sbjct: 149 EWLRKK 154
>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 = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 36/133 (27%), Positives = 61/133 (45%), Gaps = 3/133 (2%)
Query: 341 DVSYVKLGQDLSQVLDIFSSCGAYALESLVLSGCHICGHLTNQLGQFKSLHTLELRDNSL 400
+V Y+ LG + ++ DI + L L+L+G + + +L L L +N L
Sbjct: 64 NVRYLALGGN--KLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQL 121
Query: 401 SGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDLSNNRLNGTLSEIHFVNL 460
+L+++ L+L +N L +L++L LDLS N+L +L E F L
Sbjct: 122 QSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQ-SLPEGVFDKL 180
Query: 461 TKLTSFSAFGNSL 473
T+L + N L
Sbjct: 181 TQLKDLRLYQNQL 193
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 48/172 (27%), Positives = 73/172 (42%), Gaps = 12/172 (6%)
Query: 112 LKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNISNLQYLDLSK 171
L ++ +L L N I S L L NL YL L+G + + ++NL+ L L +
Sbjct: 62 LPNVRYLALGGNKLHDI---SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE 118
Query: 172 SYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSLKVLKLSYCELHHFPS 231
+ +LQ L+ L +L+L+ L G+ + L +L L LSY +L P
Sbjct: 119 N--QLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGV--FDKLTNLTELDLSYNQLQSLPE 174
Query: 232 LPSTNFSSLKALDLSGNHFNNSLFQYSSWVFG-LRNLVFFDLSDNEFHGKIP 282
+ LK L L + N L VF L +L + L DN + P
Sbjct: 175 GVFDKLTQLKDLRL----YQNQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCP 222
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 38/134 (28%), Positives = 55/134 (41%), Gaps = 10/134 (7%)
Query: 97 TGSKLVGKINPSLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPH 156
TG++L N L +L L L +N Q + + L NL YLNL+ + +
Sbjct: 93 TGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVF-DKLTNLTYLNLAHNQLQSLPKG 151
Query: 157 QLGNISNLQYLDLSKSYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSL 216
++NL LDL SY +LQ L+ L+ L L L DG+
Sbjct: 152 VFDKLTNLTELDL--SYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFD------- 202
Query: 217 KVLKLSYCELHHFP 230
++ L Y LH P
Sbjct: 203 RLTSLQYIWLHDNP 216
>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 = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 36/122 (29%), Positives = 55/122 (45%), Gaps = 7/122 (5%)
Query: 242 ALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEF 301
ALDLS N +F S+ +F L L+ N ++P+ + NL+ LR LDLS N
Sbjct: 228 ALDLS----NLQIFNISANIFKYDFLTRLYLNGNSL-TELPAEIKNLSNLRVLDLSHNRL 282
Query: 302 NSAIPGWLSKLNDLEFLSLRE-LGGQIPTSFVRLCKLTSIDVSYVKLGQDLSQVLDIFSS 360
S +P L L++ + + +P F LC L + V L + ++L S
Sbjct: 283 TS-LPAELGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVEGNPLEKQFLKILTEKSV 341
Query: 361 CG 362
G
Sbjct: 342 TG 343
>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 = 31.2 bits (69), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 82/339 (24%), Positives = 140/339 (41%), Gaps = 42/339 (12%)
Query: 111 DLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNISNLQYLDLS 170
+L+ + L ++ IQ YL NL YLNL+G + + P L N+ L L +
Sbjct: 42 ELESITKLVVAGEKVASIQGIEYL---TNLEYLNLNGNQITDISP--LSNLVKLTNLYIG 96
Query: 171 KSYYELQVESISWLSGLSFLEHLDLSLVDLTKSSDGLVTINSLPSL-KVLKLSYCELHHF 229
+ ++ IS L L+ L L L + D + I+ L +L K L+ H+
Sbjct: 97 TN----KITDISALQNLTNLRELYL-------NEDNISDISPLANLTKXYSLNLGANHNL 145
Query: 230 PSL-PSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRNLVFFDLSDNEFHGKIPSGLGNL 288
L P +N + L L ++ S + + + L +L L+ N+ P L +L
Sbjct: 146 SDLSPLSNXTGLNYLTVT-----ESKVKDVTPIANLTDLYSLSLNYNQIEDISP--LASL 198
Query: 289 TFLRHLDLSSNEFNSAIP-GWLSKLNDLEFLSLRELGGQIPTSFVRLCKLTSIDVSYVKL 347
T L + N+ P ++LN L ++G T L L+ + +++++
Sbjct: 199 TSLHYFTAYVNQITDITPVANXTRLNSL------KIGNNKITDLSPLANLSQL--TWLEI 250
Query: 348 GQDLSQVLDIFSSCGAYALESLVLSGCHICG-HLTNQLGQFKSLHTLELRDNSLSGPLPP 406
G + Q+ DI + L+ L + I + N L Q SL L +N L
Sbjct: 251 GTN--QISDINAVKDLTKLKXLNVGSNQISDISVLNNLSQLNSLF---LNNNQLGNEDXE 305
Query: 407 ALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELLDLSN 445
+G L+++ L L N + P L LS + D +N
Sbjct: 306 VIGGLTNLTTLFLSQNHITDIRP--LASLSKXDSADFAN 342
>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 = 30.8 bits (68), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 56/224 (25%), Positives = 90/224 (40%), Gaps = 39/224 (17%)
Query: 108 SLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNISNLQYL 167
+L DL++ ++ D DF+ +LKNL L L + + + P + L+ L
Sbjct: 55 ALLDLQNNKITEIKDGDFK---------NLKNLHTLILINNKISKISPGAFAPLVKLERL 105
Query: 168 DLS------------KSYYELQVES-------ISWLSGLSFLEHLDLSLVDLTKSSDGLV 208
LS K+ EL+V S +GL+ + ++L L S +
Sbjct: 106 YLSKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSG---I 162
Query: 209 TINSLPSLKVLKLSYCELH--HFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRN 266
+ +K KLSY + + ++P SL L L GN ++ + GL N
Sbjct: 163 ENGAFQGMK--KLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKV---DAASLKGLNN 217
Query: 267 LVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLS 310
L LS N L N LR L L++N+ +PG L+
Sbjct: 218 LAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKL-VKVPGGLA 260
Score = 30.4 bits (67), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 56/228 (24%), Positives = 93/228 (40%), Gaps = 28/228 (12%)
Query: 268 VFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFL-----SLRE 322
DL +N+ NL L L L +N+ + PG + L LE L L+E
Sbjct: 55 ALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKE 114
Query: 323 LGGQIPTSFVRLC----KLTSIDVSY---------VKLGQDLSQVLDIFSSC--GAYALE 367
L ++P + L ++T + S V+LG + + I + G L
Sbjct: 115 LPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLS 174
Query: 368 SLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGA 427
+ ++ +I T G SL L L N ++ +L L+++ L L N++
Sbjct: 175 YIRIADTNIT---TIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAV 231
Query: 428 IPMSLGQLSHLELLDLSNNRL---NGTLSEIHFVNLTKL--TSFSAFG 470
SL HL L L+NN+L G L++ ++ + L + SA G
Sbjct: 232 DNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIG 279
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 56/224 (25%), Positives = 90/224 (40%), Gaps = 39/224 (17%)
Query: 108 SLFDLKHLIHLDLSDNDFQGIQTPSYLGSLKNLRYLNLSGAEFAGVIPHQLGNISNLQYL 167
+L DL++ ++ D DF+ +LKNL L L + + + P + L+ L
Sbjct: 55 ALLDLQNNKITEIKDGDFK---------NLKNLHTLILINNKISKISPGAFAPLVKLERL 105
Query: 168 DLS------------KSYYELQVES-------ISWLSGLSFLEHLDLSLVDLTKSSDGLV 208
LS K+ EL+V S +GL+ + ++L L S +
Sbjct: 106 YLSKNQLKELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSG---I 162
Query: 209 TINSLPSLKVLKLSYCELH--HFPSLPSTNFSSLKALDLSGNHFNNSLFQYSSWVFGLRN 266
+ +K KLSY + + ++P SL L L GN ++ + GL N
Sbjct: 163 ENGAFQGMK--KLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKV---DAASLKGLNN 217
Query: 267 LVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLS 310
L LS N L N LR L L++N+ +PG L+
Sbjct: 218 LAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKL-VKVPGGLA 260
Score = 30.4 bits (67), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 56/228 (24%), Positives = 93/228 (40%), Gaps = 28/228 (12%)
Query: 268 VFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDLEFL-----SLRE 322
DL +N+ NL L L L +N+ + PG + L LE L L+E
Sbjct: 55 ALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKE 114
Query: 323 LGGQIPTSFVRLC----KLTSIDVSY---------VKLGQDLSQVLDIFSSC--GAYALE 367
L ++P + L ++T + S V+LG + + I + G L
Sbjct: 115 LPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLS 174
Query: 368 SLVLSGCHICGHLTNQLGQFKSLHTLELRDNSLSGPLPPALGELSSMKNLDLFNNTLDGA 427
+ ++ +I T G SL L L N ++ +L L+++ L L N++
Sbjct: 175 YIRIADTNIT---TIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAV 231
Query: 428 IPMSLGQLSHLELLDLSNNRL---NGTLSEIHFVNLTKL--TSFSAFG 470
SL HL L L+NN+L G L++ ++ + L + SA G
Sbjct: 232 DNGSLANTPHLRELHLNNNKLVKVPGGLADHKYIQVVYLHNNNISAIG 279
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 30.4 bits (67), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 51/114 (44%), Gaps = 10/114 (8%)
Query: 385 GQFKSLHTLE---LRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELL 441
G F+ L L+ L+DN+L +L ++ +L L N + + L L+ L
Sbjct: 122 GLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRL 181
Query: 442 DLSNNRLNGTLSEIH---FVNLTKLTSFSAFGNSLIFKVNQSWVPPFQLEKLRL 492
L NR ++ +H F +L +L + F N+L ++ P L+ LRL
Sbjct: 182 LLHQNR----VAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRL 231
>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 = 30.0 bits (66), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 51/114 (44%), Gaps = 10/114 (8%)
Query: 385 GQFKSLHTLE---LRDNSLSGPLPPALGELSSMKNLDLFNNTLDGAIPMSLGQLSHLELL 441
G F+ L L+ L+DN+L +L ++ +L L N + + L L+ L
Sbjct: 123 GLFRGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRL 182
Query: 442 DLSNNRLNGTLSEIH---FVNLTKLTSFSAFGNSLIFKVNQSWVPPFQLEKLRL 492
L NR ++ +H F +L +L + F N+L ++ P L+ LRL
Sbjct: 183 LLHQNR----VAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRL 232
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 29.3 bits (64), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 52/117 (44%), Gaps = 8/117 (6%)
Query: 200 LTKSSDGLVTINSLPSLKVLKLSYCELHHFPSLPSTNFSSLKALDLSGNHFNNSLFQYSS 259
+TK G+ +SL +LK L L +L P + + L LDL N L S
Sbjct: 52 ITKLEPGV--FDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLG----TNQLTVLPS 105
Query: 260 WVFG-LRNLVFFDLSDNEFHGKIPSGLGNLTFLRHLDLSSNEFNSAIPGWLSKLNDL 315
VF L +L + N+ ++P G+ LT L HL L N+ S G +L+ L
Sbjct: 106 AVFDRLVHLKELFMCCNKL-TELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSL 161
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 0.138 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,247,867
Number of Sequences: 62578
Number of extensions: 1034451
Number of successful extensions: 2668
Number of sequences better than 100.0: 72
Number of HSP's better than 100.0 without gapping: 39
Number of HSP's successfully gapped in prelim test: 33
Number of HSP's that attempted gapping in prelim test: 1882
Number of HSP's gapped (non-prelim): 354
length of query: 902
length of database: 14,973,337
effective HSP length: 108
effective length of query: 794
effective length of database: 8,214,913
effective search space: 6522640922
effective search space used: 6522640922
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: 56 (26.2 bits)