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= 002055
(974 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 182 bits (461), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 209/740 (28%), Positives = 300/740 (40%), Gaps = 167/740 (22%)
Query: 245 STLTTLDLSHNQFDNSFVPSWVFG-LSHLLFLNLGYN--NFHGPIPEGLQSLTSLKHLDL 301
++LT+LDLS N G S L FLN+ N +F G + GL+ L SL+ LDL
Sbjct: 100 ASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLK-LNSLEVLDL 158
Query: 302 SFNHFNSSIPNLLCRXXXXXXXXXXXXXXEGRIPRSMARLC-NLKRLYLSGAKLNQEISE 360
S N + + + ++ C LK L +SG K++ ++
Sbjct: 159 SANSISGA----------------------NVVGWVLSDGCGELKHLAISGNKISGDVD- 195
Query: 361 ILDIFSGCVPNGLESLVLPNSSIFGHLTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSS 420
S CV NL+ LD+S+N+ +P G S+
Sbjct: 196 ----VSRCV--------------------------NLEFLDVSSNNFSTGIP-FLGDCSA 224
Query: 421 LRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGENTLTLKVRRDWIPPFQLIELGLRSCNV 480
L+ L + NKL G S T+L + + N IPP L
Sbjct: 225 LQHLDISGNKLSGDFSRA-ISTCTELKLLNISSNQFV-----GPIPPLPL---------- 268
Query: 481 GSRFPLWLYSQKDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHGE-------- 532
K LQ+L L + +G P+ L + L LDL N +G
Sbjct: 269 -----------KSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSC 317
Query: 533 ------------------LTNLTKASQLSFLRLMANNLSGPLPL----ISSNLIGLDLSG 570
+ L K L L L N SG LP +S++L+ LDLS
Sbjct: 318 SLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSS 377
Query: 571 NSFSGSIFHFLCYTINAGMKLQFLFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLP 630
N+FSG I LC N LQ L+L N G +P + L+ L LS N G +P
Sbjct: 378 NNFSGPILPNLCQ--NPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIP 435
Query: 631 TSFGSLSSLVSLHL------------------------RKNRLSGTMPISLKNCTSLMTL 666
+S GSLS L L L N L+G +P L NCT+L +
Sbjct: 436 SSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWI 495
Query: 667 DVGENEFFGNIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLADNNLSGTL 726
+ N G IP W G + ++ + L L +N F G +P +L D L LDL N +GT+
Sbjct: 496 SLSNNRLTGEIPKWIGRLENLAI-LKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTI 554
Query: 727 PNCIHNLTAMATVNPFTGNA---IKYSIPLNSTYALGSVTEQALV--------------- 768
P + + N G IK + G++ E +
Sbjct: 555 PAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCN 614
Query: 769 ----VMKGVAADYSEILNLVRIIDVSKNFFSGTLPIGLTNLKALQSLNLSYNIFTGRIPE 824
V G + + + +D+S N SG +P + ++ L LNL +N +G IP+
Sbjct: 615 ITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPD 674
Query: 825 TIGAMRSLESIDFSVNKFTGEIPQSMSSLTFLNHLNLSNNYLTGKIPSSTQLQSFNASCF 884
+G +R L +D S NK G IPQ+MS+LT L ++LSNN L+G IP Q ++F + F
Sbjct: 675 EVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKF 734
Query: 885 LGN-NLCGAPLPKNCTDENV 903
L N LCG PLP+ C N
Sbjct: 735 LNNPGLCGYPLPR-CDPSNA 753
Score = 99.4 bits (246), Expect = 8e-21, Method: Compositional matrix adjust.
Identities = 152/509 (29%), Positives = 217/509 (42%), Gaps = 101/509 (19%)
Query: 141 RFIGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHL 200
R I + LK LN+S ++FVG IP L SLQYL L+ N +G E
Sbjct: 241 RAISTCTELKLLNISSNQFVGPIPPL--PLKSLQYLSLAEN--------KFTG----EIP 286
Query: 201 DFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNS 260
DF LS A D +L LDLS + P + S L +L LS N F
Sbjct: 287 DF----LSGACD---------TLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGE 333
Query: 261 FVPSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLT-SLKHLDLSFNHFNSSI-PNL----- 313
+ + L L+L +N F G +PE L +L+ SL LDLS N+F+ I PNL
Sbjct: 334 LPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPK 393
Query: 314 --------------------LCRXXXXXXXXXXXXXXEGRIPRSMARLCNLKRLYLSGAK 353
L G IP S+ L L+ L L
Sbjct: 394 NTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNM 453
Query: 354 LNQEISE-----------ILDI--FSGCVPNGLES------LVLPNSSIFGHLTDQIGLF 394
L EI + ILD +G +P+GL + + L N+ + G + IG
Sbjct: 454 LEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRL 513
Query: 395 KNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSV-FLVGE 453
+NL L LSNNS G +P G SL L L N +GT+ F K++ F+ G+
Sbjct: 514 ENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGK 573
Query: 454 NTLTLK---VRRDWIPPFQLIEL-GLRS-----------CNVGSRF------PLWLYSQK 492
+ +K ++++ L+E G+RS CN+ SR P + +
Sbjct: 574 RYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTF-DNNG 632
Query: 493 DLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHGELTN-LTKASQLSFLRLMANN 551
+ FLD+ + +SG P + + S L++L+LGHN I G + + + L+ L L +N
Sbjct: 633 SMMFLDMSYNMLSGYIP-KEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNK 691
Query: 552 LSGPLPLISSNLIGL---DLSGNSFSGSI 577
L G +P S L L DLS N+ SG I
Sbjct: 692 LDGRIPQAMSALTMLTEIDLSNNNLSGPI 720
Score = 57.0 bits (136), Expect = 5e-08, Method: Compositional matrix adjust.
Identities = 58/219 (26%), Positives = 90/219 (41%), Gaps = 45/219 (20%)
Query: 139 IPRFIGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRN----------------- 181
IP++IG + NL L LS + F G IP +LG+ SL +L L+ N
Sbjct: 506 IPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKI 565
Query: 182 ---------FLHLVNFGW------------LSGLSFLEHLDFSYVNLSKASDWLLVTHML 220
++++ N G G+ + S N + + H
Sbjct: 566 AANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTS 625
Query: 221 P------SLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLF 274
P S++ LD+S L + P + + L L+L HN S +P V L L
Sbjct: 626 PTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGS-IPDEVGDLRGLNI 684
Query: 275 LNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNL 313
L+L N G IP+ + +LT L +DLS N+ + IP +
Sbjct: 685 LDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEM 723
>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 = 181 bits (460), Expect = 1e-45, Method: Compositional matrix adjust.
Identities = 209/740 (28%), Positives = 300/740 (40%), Gaps = 167/740 (22%)
Query: 245 STLTTLDLSHNQFDNSFVPSWVFG-LSHLLFLNLGYN--NFHGPIPEGLQSLTSLKHLDL 301
++LT+LDLS N G S L FLN+ N +F G + GL+ L SL+ LDL
Sbjct: 97 ASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLK-LNSLEVLDL 155
Query: 302 SFNHFNSSIPNLLCRXXXXXXXXXXXXXXEGRIPRSMARLC-NLKRLYLSGAKLNQEISE 360
S N + + + ++ C LK L +SG K++ ++
Sbjct: 156 SANSISGA----------------------NVVGWVLSDGCGELKHLAISGNKISGDVD- 192
Query: 361 ILDIFSGCVPNGLESLVLPNSSIFGHLTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSS 420
S CV NL+ LD+S+N+ +P G S+
Sbjct: 193 ----VSRCV--------------------------NLEFLDVSSNNFSTGIP-FLGDCSA 221
Query: 421 LRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGENTLTLKVRRDWIPPFQLIELGLRSCNV 480
L+ L + NKL G S T+L + + N IPP L
Sbjct: 222 LQHLDISGNKLSGDFSRA-ISTCTELKLLNISSNQFV-----GPIPPLPL---------- 265
Query: 481 GSRFPLWLYSQKDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHGE-------- 532
K LQ+L L + +G P+ L + L LDL N +G
Sbjct: 266 -----------KSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSC 314
Query: 533 ------------------LTNLTKASQLSFLRLMANNLSGPLPL----ISSNLIGLDLSG 570
+ L K L L L N SG LP +S++L+ LDLS
Sbjct: 315 SLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSS 374
Query: 571 NSFSGSIFHFLCYTINAGMKLQFLFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLP 630
N+FSG I LC N LQ L+L N G +P + L+ L LS N G +P
Sbjct: 375 NNFSGPILPNLCQ--NPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIP 432
Query: 631 TSFGSLSSLVSLHL------------------------RKNRLSGTMPISLKNCTSLMTL 666
+S GSLS L L L N L+G +P L NCT+L +
Sbjct: 433 SSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWI 492
Query: 667 DVGENEFFGNIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLADNNLSGTL 726
+ N G IP W G + ++ + L L +N F G +P +L D L LDL N +GT+
Sbjct: 493 SLSNNRLTGEIPKWIGRLENLAI-LKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTI 551
Query: 727 PNCIHNLTAMATVNPFTGNA---IKYSIPLNSTYALGSVTEQALV--------------- 768
P + + N G IK + G++ E +
Sbjct: 552 PAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCN 611
Query: 769 ----VMKGVAADYSEILNLVRIIDVSKNFFSGTLPIGLTNLKALQSLNLSYNIFTGRIPE 824
V G + + + +D+S N SG +P + ++ L LNL +N +G IP+
Sbjct: 612 ITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPD 671
Query: 825 TIGAMRSLESIDFSVNKFTGEIPQSMSSLTFLNHLNLSNNYLTGKIPSSTQLQSFNASCF 884
+G +R L +D S NK G IPQ+MS+LT L ++LSNN L+G IP Q ++F + F
Sbjct: 672 EVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKF 731
Query: 885 LGN-NLCGAPLPKNCTDENV 903
L N LCG PLP+ C N
Sbjct: 732 LNNPGLCGYPLPR-CDPSNA 750
Score = 98.6 bits (244), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 152/509 (29%), Positives = 217/509 (42%), Gaps = 101/509 (19%)
Query: 141 RFIGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHL 200
R I + LK LN+S ++FVG IP L SLQYL L+ N +G E
Sbjct: 238 RAISTCTELKLLNISSNQFVGPIPPL--PLKSLQYLSLAEN--------KFTG----EIP 283
Query: 201 DFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNS 260
DF LS A D +L LDLS + P + S L +L LS N F
Sbjct: 284 DF----LSGACD---------TLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGE 330
Query: 261 FVPSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLT-SLKHLDLSFNHFNSSI-PNL----- 313
+ + L L+L +N F G +PE L +L+ SL LDLS N+F+ I PNL
Sbjct: 331 LPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPK 390
Query: 314 --------------------LCRXXXXXXXXXXXXXXEGRIPRSMARLCNLKRLYLSGAK 353
L G IP S+ L L+ L L
Sbjct: 391 NTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNM 450
Query: 354 LNQEISE-----------ILDI--FSGCVPNGLES------LVLPNSSIFGHLTDQIGLF 394
L EI + ILD +G +P+GL + + L N+ + G + IG
Sbjct: 451 LEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRL 510
Query: 395 KNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSV-FLVGE 453
+NL L LSNNS G +P G SL L L N +GT+ F K++ F+ G+
Sbjct: 511 ENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGK 570
Query: 454 NTLTLK---VRRDWIPPFQLIEL-GLRS-----------CNVGSRF------PLWLYSQK 492
+ +K ++++ L+E G+RS CN+ SR P + +
Sbjct: 571 RYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTF-DNNG 629
Query: 493 DLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHGELTN-LTKASQLSFLRLMANN 551
+ FLD+ + +SG P + + S L++L+LGHN I G + + + L+ L L +N
Sbjct: 630 SMMFLDMSYNMLSGYIP-KEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNK 688
Query: 552 LSGPLPLISSNLIGL---DLSGNSFSGSI 577
L G +P S L L DLS N+ SG I
Sbjct: 689 LDGRIPQAMSALTMLTEIDLSNNNLSGPI 717
Score = 56.6 bits (135), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 58/219 (26%), Positives = 90/219 (41%), Gaps = 45/219 (20%)
Query: 139 IPRFIGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRN----------------- 181
IP++IG + NL L LS + F G IP +LG+ SL +L L+ N
Sbjct: 503 IPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKI 562
Query: 182 ---------FLHLVNFGW------------LSGLSFLEHLDFSYVNLSKASDWLLVTHML 220
++++ N G G+ + S N + + H
Sbjct: 563 AANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTS 622
Query: 221 P------SLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLF 274
P S++ LD+S L + P + + L L+L HN S +P V L L
Sbjct: 623 PTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGS-IPDEVGDLRGLNI 681
Query: 275 LNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNL 313
L+L N G IP+ + +LT L +DLS N+ + IP +
Sbjct: 682 LDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEM 720
>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 = 90.1 bits (222), Expect = 5e-18, Method: Compositional matrix adjust.
Identities = 79/253 (31%), Positives = 121/253 (47%), Gaps = 13/253 (5%)
Query: 653 MPISLKNCTSLMTLDVGE-NEFFGNIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAF 711
+P SL N L L +G N G IP ++ + I +N G +P L +
Sbjct: 68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTN-VSGAIPDFLSQIKT 126
Query: 712 LQILDLADNNLSGTLPNCIHNLTAMATVNPFTGNAIKYSIPLNSTYALGSVTEQALVV-- 769
L LD + N LSGTLP I +L + + F GN I +IP +Y S ++ +
Sbjct: 127 LVTLDFSYNALSGTLPPSISSLPNLVGIT-FDGNRISGAIP--DSYGSFSKLFTSMTISR 183
Query: 770 --MKGVAADYSEILNLVRIIDVSKNFFSGTLPIGLTNLKALQSLNLSYNIFTGRIPETIG 827
+ G LNL +D+S+N G + + K Q ++L+ N + + +G
Sbjct: 184 NRLTGKIPPTFANLNLA-FVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGK-VG 241
Query: 828 AMRSLESIDFSVNKFTGEIPQSMSSLTFLNHLNLSNNYLTGKIPSSTQLQSFNASCFLGN 887
++L +D N+ G +PQ ++ L FL+ LN+S N L G+IP LQ F+ S + N
Sbjct: 242 LSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANN 301
Query: 888 N-LCGAPLPKNCT 899
LCG+PLP CT
Sbjct: 302 KCLCGSPLPA-CT 313
Score = 62.8 bits (151), Expect = 8e-10, Method: Compositional matrix adjust.
Identities = 77/330 (23%), Positives = 125/330 (37%), Gaps = 103/330 (31%)
Query: 38 CLESEREALLRFKQDLQDPSYRLASWIGNRDCC--AWAGIFCDNVTG-------HIVELN 88
C +++ALL+ K+DL +P+ L+SW+ DCC W G+ CD T + LN
Sbjct: 3 CNPQDKQALLQIKKDLGNPT-TLSSWLPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGLN 61
Query: 89 LRNPFTYYVQPDQYEANPRSMLVGKVNPXXXXXXXXXXXXXXFNDFQGVPIPRFIGSMGN 148
L P+ PIP + ++
Sbjct: 62 LPKPY--------------------------------------------PIPSSLANLPY 77
Query: 149 LKYLNLSG-SRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNL 207
L +L + G + VG IP + L+ L YL ++ + +LS + L LDFSY L
Sbjct: 78 LNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNAL 137
Query: 208 SKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTL-TTLDLSHNQFDNSFVPSW- 265
S + + LP+LV + ++ P +FS L T++ +S N+ P++
Sbjct: 138 SGTLPPSISS--LPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFA 195
Query: 266 -------------VFGLSHLLF-------------------------------LNLGYNN 281
+ G + +LF L+L N
Sbjct: 196 NLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNR 255
Query: 282 FHGPIPEGLQSLTSLKHLDLSFNHFNSSIP 311
+G +P+GL L L L++SFN+ IP
Sbjct: 256 IYGTLPQGLTQLKFLHSLNVSFNNLCGEIP 285
Score = 60.5 bits (145), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 75/287 (26%), Positives = 120/287 (41%), Gaps = 60/287 (20%)
Query: 250 LDLSHNQFDNSF-VPSWVFGLSHLLFLNLG-YNNFHGPIPEGLQSLTSLKHLDLSFNHFN 307
LDLS + +PS + L +L FL +G NN GPIP + LT L +L ++ + +
Sbjct: 55 LDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVS 114
Query: 308 SSIPNLLCRXXXXXXXXXXXXXXEGRIPRSMARLCNLKRLYLSGAKLNQEISEILDIFSG 367
+IP+ L + G +P S++ L NL + G ++ SG
Sbjct: 115 GAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRI-----------SG 163
Query: 368 CVPNGLESLVLPNSSIFGHLTDQIGLFKNL-DSLDLSNNSIVGLVPQSFGRLSSLRVLQL 426
+P D G F L S+ +S N + G +P +F L +L + L
Sbjct: 164 AIP------------------DSYGSFSKLFTSMTISRNRLTGKIPPTFANL-NLAFVDL 204
Query: 427 YRNKLHGTLSEIHFVNLTKLSVFLVGENTLTLKVRRDWIPPFQLIELGLRSCNVGSRFPL 486
RN L G S + F +NT + + ++ + F L ++GL
Sbjct: 205 SRNMLEGDASVL----------FGSDKNTQKIHLAKNSL-AFDLGKVGL----------- 242
Query: 487 WLYSQKDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHGEL 533
K+L LDL N+ I GT P L + L+ L++ N + GE+
Sbjct: 243 ----SKNLNGLDLRNNRIYGTLPQGLTQ-LKFLHSLNVSFNNLCGEI 284
Score = 60.1 bits (144), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 72/239 (30%), Positives = 111/239 (46%), Gaps = 31/239 (12%)
Query: 468 FQLIELGLRSCNVGSRFPLWLYSQKDLQFLD-LFNSGIS---GTFPNRLLKSASQLYLLD 523
+++ L L N+ +P+ S +L +L+ L+ GI+ G P + K +QL+ L
Sbjct: 50 YRVNNLDLSGLNLPKPYPIP-SSLANLPYLNFLYIGGINNLVGPIPPAIAK-LTQLHYLY 107
Query: 524 LGHNQIHGELTN-LTKASQLSFLRLMANNLSGPLPL-ISS--NLIGLDLSGNSFSGSIFH 579
+ H + G + + L++ L L N LSG LP ISS NL+G+ GN SG+I
Sbjct: 108 ITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPD 167
Query: 580 --------FLCYTIN------------AGMKLQFLFLDRNILQGNLPDCWMSYQNLMMLD 619
F TI+ A + L F+ L RN+L+G+ + S +N +
Sbjct: 168 SYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIH 227
Query: 620 LSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTLDVGENEFFGNIP 678
L+ N +L G +L L LR NR+ GT+P L L +L+V N G IP
Sbjct: 228 LAKNSLAFDL-GKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIP 285
Score = 59.3 bits (142), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 50/184 (27%), Positives = 75/184 (40%), Gaps = 46/184 (25%)
Query: 590 KLQFLFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRL 649
+L +L++ + G +PD + L+ LD S N G LP S SL +LV + NR+
Sbjct: 102 QLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRI 161
Query: 650 SGTMPISLKNCTSLMT-LDVGENEFFGNIPSWFG--------------EMFSIMVF---- 690
SG +P S + + L T + + N G IP F E + ++F
Sbjct: 162 SGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDK 221
Query: 691 ---------------------------LILRSNYFHGLLPTKLCDLAFLQILDLADNNLS 723
L LR+N +G LP L L FL L+++ NNL
Sbjct: 222 NTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLC 281
Query: 724 GTLP 727
G +P
Sbjct: 282 GEIP 285
>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 = 59.7 bits (143), Expect = 8e-09, Method: Compositional matrix adjust.
Identities = 56/177 (31%), Positives = 89/177 (50%), Gaps = 11/177 (6%)
Query: 132 NDFQGVPIPRFIGSMGNLKYLNLS--GSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFG 189
N F V +P +L++L+LS G F G +SL+YL LS N + ++
Sbjct: 339 NAFSEVDLP-------SLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSN 391
Query: 190 WLSGLSFLEHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTT 249
+L GL LEHLDF + NL + S++ + L +L+ LD+S+ + S+L
Sbjct: 392 FL-GLEQLEHLDFQHSNLKQMSEFSVFLS-LRNLIYLDISHTHTRVAFNGIFNGLSSLEV 449
Query: 250 LDLSHNQFDNSFVPSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHF 306
L ++ N F +F+P L +L FL+L P SL+SL+ L++S N+F
Sbjct: 450 LKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNF 506
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 144/587 (24%), Positives = 217/587 (36%), Gaps = 114/587 (19%)
Query: 145 SMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSY 204
S L+ L+LS + +LS L L+L+ N + + G SGLS L+ L
Sbjct: 50 SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVE 109
Query: 205 VNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPS 264
NL+ ++ P+ + TL L+++HN + S
Sbjct: 110 TNLASLENF--------------------------PIGHLKTLKELNVAHN-----LIQS 138
Query: 265 WVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXX 324
+ +PE +LT+L+HLDLS N I ++ C
Sbjct: 139 F-------------------KLPEYFSNLTNLEHLDLSSN----KIQSIYCTDLRVLHQM 175
Query: 325 --XXXXXXEGRIPRSMARLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSS 382
P + + K + L L + L++ C+ GL L + +
Sbjct: 176 PLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNF-DSLNVMKTCI-QGLAGLEV-HRL 232
Query: 383 IFGHLTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVN 442
+ G ++ NL+ D S ++ GL + L L Y + + I N
Sbjct: 233 VLGEFRNE----GNLEKFDKS--ALEGLCNLTIEEFR-LAYLDYYLDDI------IDLFN 279
Query: 443 -LTKLSVFLVGENTLTLKVRRDWIPPFQLIELGLRSCNVGSRFPLWLYSQK--------- 492
LT +S F + ++T++ +D+ F L L +C G L L S K
Sbjct: 280 CLTNVSSFSLV--SVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKG 337
Query: 493 ----------DLQFLDLFNSGIS--GTFPNRLLKSASQLYLLDLGHNQIHGELTNLTKAS 540
L+FLDL +G+S G + S YL DL N + +N
Sbjct: 338 GNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYL-DLSFNGVITMSSNFLGLE 396
Query: 541 QLSFLRLMANNLSG----PLPLISSNLIGLDLSGN----SFSGSIFHFLCYTINAGMKLQ 592
QL L +NL + L NLI LD+S +F+G IF N L+
Sbjct: 397 QLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNG-IF-------NGLSSLE 448
Query: 593 FLFLDRNILQGN-LPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSG 651
L + N Q N LPD + +NL LDLS + PT+F SLSSL L++ N
Sbjct: 449 VLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFS 508
Query: 652 TMPISLKNCTSLMTLDVGENEFFGNIPSWFGEMFSIMVFLILRSNYF 698
K SL LD N + S + FL L N F
Sbjct: 509 LDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDF 555
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 64/132 (48%), Gaps = 27/132 (20%)
Query: 712 LQILDLADNNLSGTLPNCIHNLTAMATVNPFTGNAIKYSIPLNSTYALGSVTEQALVVMK 771
LQ+LDL+ + +L+ ++T+ TGN I+ + ALG+
Sbjct: 54 LQVLDLSRCEIQTIEDGAYQSLSHLSTL-ILTGNPIQ-------SLALGA---------- 95
Query: 772 GVAADYSEILNLVRIIDVSKNFFS-GTLPIGLTNLKALQSLNLSYNIFTG-RIPETIGAM 829
+S + +L +++ V N S PIG +LK L+ LN+++N+ ++PE +
Sbjct: 96 -----FSGLSSLQKLVAVETNLASLENFPIG--HLKTLKELNVAHNLIQSFKLPEYFSNL 148
Query: 830 RSLESIDFSVNK 841
+LE +D S NK
Sbjct: 149 TNLEHLDLSSNK 160
Score = 34.3 bits (77), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 777 YSEILNLVRIIDVSKNFFSGTLPIGLTNLKALQSLNLSYNIFTGRIPETIGAMRSLESID 836
++E+ NL +D+S+ P +L +LQ LN+S+N F + SL+ +D
Sbjct: 466 FTELRNLT-FLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLD 524
Query: 837 FSVNKFTGEIPQSM----SSLTFLN 857
+S+N Q + SSL FLN
Sbjct: 525 YSLNHIMTSKKQELQHFPSSLAFLN 549
>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 = 58.9 bits (141), Expect = 1e-08, Method: Compositional matrix adjust.
Identities = 56/177 (31%), Positives = 87/177 (49%), Gaps = 5/177 (2%)
Query: 132 NDFQGVPIPRFIGSMGNLKYLNLS--GSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFG 189
N Q +P F + L L+LS G F G +SL+YL LS N + ++
Sbjct: 38 NKLQSLPHGVF-DKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSN 96
Query: 190 WLSGLSFLEHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTT 249
+L GL LEHLDF + NL + S++ + L +L+ LD+S+ + S+L
Sbjct: 97 FL-GLEQLEHLDFQHSNLKQMSEFSVFLS-LRNLIYLDISHTHTRVAFNGIFNGLSSLEV 154
Query: 250 LDLSHNQFDNSFVPSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHF 306
L ++ N F +F+P L +L FL+L P SL+SL+ L++S N+F
Sbjct: 155 LKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNF 211
Score = 43.1 bits (100), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 88/300 (29%), Positives = 113/300 (37%), Gaps = 67/300 (22%)
Query: 409 GLVPQSFGRLSSLRVLQLYRNKL----HGTLSEIHFVNLTKLSVFLVGENTLTLKVRRDW 464
GL G SS L+L NKL HG ++ LTKLS+ G
Sbjct: 18 GLTSVPTGIPSSATRLELESNKLQSLPHGVFDKL--TQLTKLSLSSNG------------ 63
Query: 465 IPPFQLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGTFPNRLLKSASQLYLLDL 524
L + C S F L++LDL +G+ N L QL LD
Sbjct: 64 --------LSFKGCCSQSDF-----GTTSLKYLDLSFNGVITMSSNFL--GLEQLEHLDF 108
Query: 525 GHNQIHGELTNLTKASQLS-FLRLMANNLSGPLPLISSNLIGLDLSGN----SFSGSIFH 579
H +NL + S+ S FL L NLI LD+S +F+G IF
Sbjct: 109 QH-------SNLKQMSEFSVFLSL-------------RNLIYLDISHTHTRVAFNG-IF- 146
Query: 580 FLCYTINAGMKLQFLFLDRNILQGN-LPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSS 638
N L+ L + N Q N LPD + +NL LDLS + PT+F SLSS
Sbjct: 147 ------NGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSS 200
Query: 639 LVSLHLRKNRLSGTMPISLKNCTSLMTLDVGENEFFGNIPSWFGEMFSIMVFLILRSNYF 698
L L++ N K SL LD N + S + FL L N F
Sbjct: 201 LQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDF 260
Score = 37.4 bits (85), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 60/198 (30%), Positives = 86/198 (43%), Gaps = 17/198 (8%)
Query: 239 LPVANFSTLTTLDLSHNQFDNSFVPSWVFG-LSHLLFLNLGYN--NFHGPIPEGLQSLTS 295
+P S+ T L+L N+ + +P VF L+ L L+L N +F G + TS
Sbjct: 22 VPTGIPSSATRLELESNKLQS--LPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTS 79
Query: 296 LKHLDLSFNHFNSSIPNLLCRXXXXXXXXXXXXXXEGRIPRSMARLCNLKRLYLSGAKLN 355
LK+LDLSFN + N L + L NL +YL + +
Sbjct: 80 LKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNL--IYLDISHTH 137
Query: 356 QEISEILDIFSGCVPNGLESL----VLPNSSIFGHLTDQIGLFKNLDSLDLSNNSIVGLV 411
++ F+G + NGL SL + NS L D +NL LDLS + L
Sbjct: 138 TRVA-----FNG-IFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLS 191
Query: 412 PQSFGRLSSLRVLQLYRN 429
P +F LSSL+VL + N
Sbjct: 192 PTAFNSLSSLQVLNMSHN 209
Score = 34.7 bits (78), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 33/101 (32%), Positives = 51/101 (50%), Gaps = 7/101 (6%)
Query: 132 NDFQGVPIPRFIGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSR-NFLHLVNFGW 190
N FQ +P + NL +L+LS + + P +LSSLQ L +S NF L F +
Sbjct: 160 NSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPY 219
Query: 191 LSGLSFLEHLDFS--YVNLSKASDWLLVTHMLPSLVELDLS 229
L+ L+ LD+S ++ SK + + H SL L+L+
Sbjct: 220 -KCLNSLQVLDYSLNHIMTSKKQE---LQHFPSSLAFLNLT 256
Score = 34.3 bits (77), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 777 YSEILNLVRIIDVSKNFFSGTLPIGLTNLKALQSLNLSYNIFTGRIPETIGAMRSLESID 836
++E+ NL +D+S+ P +L +LQ LN+S+N F + SL+ +D
Sbjct: 171 FTELRNLT-FLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLD 229
Query: 837 FSVNKFTGEIPQSM----SSLTFLN 857
+S+N Q + SSL FLN
Sbjct: 230 YSLNHIMTSKKQELQHFPSSLAFLN 254
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 58.2 bits (139), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 56/183 (30%), Positives = 91/183 (49%), Gaps = 12/183 (6%)
Query: 132 NDFQGVPIPRFIGSMGNLKYLNLS--GSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFG 189
N F V +P +L++L+LS G F G +SL+YL LS N + ++
Sbjct: 339 NAFSEVDLP-------SLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSN 391
Query: 190 WLSGLSFLEHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTT 249
+L GL LEHLDF + NL + S++ + L +L+ LD+S+ + S+L
Sbjct: 392 FL-GLEQLEHLDFQHSNLKQMSEFSVFLS-LRNLIYLDISHTHTRVAFNGIFNGLSSLEV 449
Query: 250 LDLSHNQFDNSFVPSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSS 309
L ++ N F +F+P L +L FL+L P SL+SL+ L+++ N S
Sbjct: 450 LKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQL-KS 508
Query: 310 IPN 312
+P+
Sbjct: 509 VPD 511
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 136/556 (24%), Positives = 208/556 (37%), Gaps = 116/556 (20%)
Query: 145 SMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSY 204
S L+ L+LS + +LS L L+L+ N + + G SGLS L+ L
Sbjct: 50 SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVE 109
Query: 205 VNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPS 264
NL+ ++ P+ + TL L+++HN + S
Sbjct: 110 TNLASLENF--------------------------PIGHLKTLKELNVAHN-----LIQS 138
Query: 265 WVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXX 324
+ +PE +LT+L+HLDLS N I ++ C
Sbjct: 139 F-------------------KLPEYFSNLTNLEHLDLSSN----KIQSIYCTDLRVLHQM 175
Query: 325 --XXXXXXEGRIPRSMARLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSS 382
P + + K + L L + L++ C+ GL L + +
Sbjct: 176 PLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNF-DSLNVMKTCI-QGLAGLEV-HRL 232
Query: 383 IFGHLTDQIGLFKNLDSLDLSN-NSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFV 441
+ G ++ NL+ D S + L + F L L Y + + I
Sbjct: 233 VLGEFRNE----GNLEKFDKSALEGLCNLTIEEF----RLAYLDYYLDDI------IDLF 278
Query: 442 N-LTKLSVFLVGENTLTLKVRRDWIPPFQLIELGLRSCNVGSRFPLWLYSQK-------- 492
N LT +S F + ++T++ +D+ F L L +C G L L S K
Sbjct: 279 NCLTNVSSFSLV--SVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNK 336
Query: 493 -----------DLQFLDLFNSGIS--GTFPNRLLKSASQLYLLDLGHNQIHGELTNLTKA 539
L+FLDL +G+S G + S YL DL N + +N
Sbjct: 337 GGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYL-DLSFNGVITMSSNFLGL 395
Query: 540 SQLSFLRLMANNLSG----PLPLISSNLIGLDLSGN----SFSGSIFHFLCYTINAGMKL 591
QL L +NL + L NLI LD+S +F+G IF N L
Sbjct: 396 EQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNG-IF-------NGLSSL 447
Query: 592 QFLFLDRNILQGN-LPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLS 650
+ L + N Q N LPD + +NL LDLS + PT+F SLSSL L++ N+L
Sbjct: 448 EVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLK 507
Query: 651 GTMPISLKNCTSLMTL 666
TSL +
Sbjct: 508 SVPDGIFDRLTSLQKI 523
Score = 37.4 bits (85), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 64/132 (48%), Gaps = 27/132 (20%)
Query: 712 LQILDLADNNLSGTLPNCIHNLTAMATVNPFTGNAIKYSIPLNSTYALGSVTEQALVVMK 771
LQ+LDL+ + +L+ ++T+ TGN I+ + ALG+
Sbjct: 54 LQVLDLSRCEIQTIEDGAYQSLSHLSTL-ILTGNPIQ-------SLALGA---------- 95
Query: 772 GVAADYSEILNLVRIIDVSKNFFS-GTLPIGLTNLKALQSLNLSYNIFTG-RIPETIGAM 829
+S + +L +++ V N S PIG +LK L+ LN+++N+ ++PE +
Sbjct: 96 -----FSGLSSLQKLVAVETNLASLENFPIG--HLKTLKELNVAHNLIQSFKLPEYFSNL 148
Query: 830 RSLESIDFSVNK 841
+LE +D S NK
Sbjct: 149 TNLEHLDLSSNK 160
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/69 (31%), Positives = 34/69 (49%)
Query: 132 NDFQGVPIPRFIGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWL 191
N FQ +P + NL +L+LS + + P +LSSLQ L ++ N L V G
Sbjct: 455 NSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIF 514
Query: 192 SGLSFLEHL 200
L+ L+ +
Sbjct: 515 DRLTSLQKI 523
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 24/80 (30%), Positives = 37/80 (46%), Gaps = 2/80 (2%)
Query: 661 TSLMTLDVGENEFFGN-IPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLAD 719
+SL L + N F N +P F E+ + + FL L L PT L+ LQ+L++A
Sbjct: 445 SSLEVLKMAGNSFQENFLPDIFTELRN-LTFLDLSQCQLEQLSPTAFNSLSSLQVLNMAS 503
Query: 720 NNLSGTLPNCIHNLTAMATV 739
N L LT++ +
Sbjct: 504 NQLKSVPDGIFDRLTSLQKI 523
Score = 30.0 bits (66), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 44/168 (26%), Positives = 74/168 (44%), Gaps = 12/168 (7%)
Query: 591 LQFLFLDRNIL--QGNLPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNR 648
L+FL L RN L +G +L LDLS N I + ++F L L L + +
Sbjct: 349 LEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVI-TMSSNFLGLEQLEHLDFQHSN 407
Query: 649 LSG----TMPISLKNCTSLMTLDVGENEFFGNIPSWFGEMFSIMVFLILRSNYFHGLLPT 704
L ++ +SL+N L+ LD+ F + S+ V + +++ LP
Sbjct: 408 LKQMSEFSVFLSLRN---LIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPD 464
Query: 705 KLCDLAFLQILDLADNNLSGTLPNCIHNLTAMATVNPFTGNAIKYSIP 752
+L L LDL+ L P ++L+++ +N N +K S+P
Sbjct: 465 IFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLN-MASNQLK-SVP 510
>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 = 57.8 bits (138), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 56/177 (31%), Positives = 88/177 (49%), Gaps = 11/177 (6%)
Query: 132 NDFQGVPIPRFIGSMGNLKYLNLS--GSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFG 189
N F V +P +L++L+LS G F G SL+YL LS N + ++
Sbjct: 363 NAFSEVDLP-------SLEFLDLSRNGLSFKGCCSQSDFGTISLKYLDLSFNGVITMSSN 415
Query: 190 WLSGLSFLEHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTT 249
+L GL LEHLDF + NL + S++ + L +L+ LD+S+ + S+L
Sbjct: 416 FL-GLEQLEHLDFQHSNLKQMSEFSVFLS-LRNLIYLDISHTHTRVAFNGIFNGLSSLEV 473
Query: 250 LDLSHNQFDNSFVPSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHF 306
L ++ N F +F+P L +L FL+L P SL+SL+ L++S N+F
Sbjct: 474 LKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNF 530
Score = 47.4 bits (111), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 145/586 (24%), Positives = 217/586 (37%), Gaps = 112/586 (19%)
Query: 145 SMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSY 204
S L+ L+LS + +LS L L+L+ N + + G SGLS L+ L
Sbjct: 74 SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVE 133
Query: 205 VNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPS 264
NL+ ++ P+ + TL L+++HN + S
Sbjct: 134 TNLASLENF--------------------------PIGHLKTLKELNVAHN-----LIQS 162
Query: 265 WVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXX 324
+ +PE +LT+L+HLDLS N I ++ C
Sbjct: 163 F-------------------KLPEYFSNLTNLEHLDLSSN----KIQSIYCTDLRVLHQM 199
Query: 325 --XXXXXXEGRIPRSMARLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSS 382
P + + K + L L + L++ C+ GL L + +
Sbjct: 200 PLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNF-DSLNVMKTCI-QGLAGLEV-HRL 256
Query: 383 IFGHLTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVN 442
+ G ++ NL+ D S ++ GL + L L Y L G + F
Sbjct: 257 VLGEFRNE----GNLEKFDKS--ALEGLCNLTIEEFR-LAYLDYY---LDGIID--LFNC 304
Query: 443 LTKLSVFLVGENTLTLKVRRDWIPPFQLIELGLRSCNVGSRFPLWLYSQK---------- 492
LT +S F + ++T++ +D+ F L L +C G L L S K
Sbjct: 305 LTNVSSFSLV--SVTIERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGG 362
Query: 493 ---------DLQFLDLFNSGIS--GTFPNRLLKSASQLYLLDLGHNQIHGELTNLTKASQ 541
L+FLDL +G+S G + S YL DL N + +N Q
Sbjct: 363 NAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTISLKYL-DLSFNGVITMSSNFLGLEQ 421
Query: 542 LSFLRLMANNLSG----PLPLISSNLIGLDLSGN----SFSGSIFHFLCYTINAGMKLQF 593
L L +NL + L NLI LD+S +F+G IF N L+
Sbjct: 422 LEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNG-IF-------NGLSSLEV 473
Query: 594 LFLDRNILQGN-LPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGT 652
L + N Q N LPD + +NL LDLS + PT+F SLSSL L++ N
Sbjct: 474 LKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSL 533
Query: 653 MPISLKNCTSLMTLDVGENEFFGNIPSWFGEMFSIMVFLILRSNYF 698
K SL LD N + S + FL L N F
Sbjct: 534 DTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDF 579
Score = 37.7 bits (86), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 36/132 (27%), Positives = 64/132 (48%), Gaps = 27/132 (20%)
Query: 712 LQILDLADNNLSGTLPNCIHNLTAMATVNPFTGNAIKYSIPLNSTYALGSVTEQALVVMK 771
LQ+LDL+ + +L+ ++T+ TGN I+ + ALG+
Sbjct: 78 LQVLDLSRCEIQTIEDGAYQSLSHLSTL-ILTGNPIQ-------SLALGA---------- 119
Query: 772 GVAADYSEILNLVRIIDVSKNFFS-GTLPIGLTNLKALQSLNLSYNIFTG-RIPETIGAM 829
+S + +L +++ V N S PIG +LK L+ LN+++N+ ++PE +
Sbjct: 120 -----FSGLSSLQKLVAVETNLASLENFPIG--HLKTLKELNVAHNLIQSFKLPEYFSNL 172
Query: 830 RSLESIDFSVNK 841
+LE +D S NK
Sbjct: 173 TNLEHLDLSSNK 184
Score = 34.3 bits (77), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 777 YSEILNLVRIIDVSKNFFSGTLPIGLTNLKALQSLNLSYNIFTGRIPETIGAMRSLESID 836
++E+ NL +D+S+ P +L +LQ LN+S+N F + SL+ +D
Sbjct: 490 FTELRNLT-FLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLD 548
Query: 837 FSVNKFTGEIPQSM----SSLTFLN 857
+S+N Q + SSL FLN
Sbjct: 549 YSLNHIMTSKKQELQHFPSSLAFLN 573
>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 = 52.8 bits (125), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 123/523 (23%), Positives = 216/523 (41%), Gaps = 92/523 (17%)
Query: 405 NSIVGLVPQSFGRLS-SLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGENTLTLKVRRD 463
N I G +P S L S VL +N L + F++LT+ ++ + E+T + R D
Sbjct: 25 NEIPGTLPNSTECLEFSFNVLPTIQNTTFSRLINLTFLDLTRCQIYWIHEDTFQSQHRLD 84
Query: 464 WI----------------PPFQLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGT 507
+ P L L + S + L++QK L+ L L ++ IS
Sbjct: 85 TLVLTANPLIFMAETALSGPKALKHLFFIQTGISSIDFIPLHNQKTLESLYLGSNHISSI 144
Query: 508 -----FPNRLLKSASQLYLLDLGHNQIH----GELTNLTKASQLSFLRLMANNLSGPLPL 558
FP LK +LD +N IH ++++L +A+ LS L L N+++G P
Sbjct: 145 KLPKGFPTEKLK------VLDFQNNAIHYLSKEDMSSLQQATNLS-LNLNGNDIAGIEP- 196
Query: 559 ISSNLIGLDLSGNSFSGSIFHFLCYTINAGMKLQFLFLDRNILQ----GNLPD------- 607
+F ++F L + + + F L + +Q G D
Sbjct: 197 ------------GAFDSAVFQSLNFGGTQNLLVIFKGLKNSTIQSLWLGTFEDMDDEDIS 244
Query: 608 -------CWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNC 660
C MS ++ ++L + F +F S L L L LS +P L
Sbjct: 245 PAVFEGLCEMSVES---INLQKHYFFNISSNTFHCFSGLQELDLTATHLS-ELPSGLVGL 300
Query: 661 TSLMTLDVGENEFFGNIPSWFGEMFSIMVFLILRSNYFHGLLPTK-LCDLAFLQILDLAD 719
++L L + N+ F N+ F + L ++ N L T L +L L+ LDL+
Sbjct: 301 STLKKLVLSANK-FENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSH 359
Query: 720 NNLSGTLPNC----IHNLTAMATVNPFTGNAIKYSIPLN-STYALGSVTEQALVVMKGVA 774
+++ + +C + NL+ + ++N + Y+ PL+ T A + L+ +
Sbjct: 360 DDIETS--DCCNLQLRNLSHLQSLN------LSYNEPLSLKTEAFKECPQLELLDLAFTR 411
Query: 775 ADYSEI------LNLVRIIDVSKNFFSGTLPIGLTNLKALQSLNLSYNIF-TGRIPET-- 825
+ L+L++++++S + + L ALQ LNL N F G I +T
Sbjct: 412 LKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQKTNS 471
Query: 826 IGAMRSLESIDFSVNKFTGEIPQSMSSLTFLNHLNLSNNYLTG 868
+ + LE + S + + +SL +NH++LS+N LT
Sbjct: 472 LQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHNRLTS 514
Score = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 49/176 (27%), Positives = 81/176 (46%), Gaps = 22/176 (12%)
Query: 149 LKYLNLSGSRF-VGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNL 207
L+ L+L+ +R V NL L+ L LS + L + + GL L+HL+ +
Sbjct: 402 LELLDLAFTRLKVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHF 461
Query: 208 SKASDWLLVTHMLPSLVEL--------DLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDN 259
K + + T+ L +L L DLS+ H F L + N +DLSHN+ +
Sbjct: 462 PKGN--IQKTNSLQTLGRLEILVLSFCDLSSIDQHAFTSLKMMNH-----VDLSHNRLTS 514
Query: 260 SFVPSWVFGLSHL--LFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNL 313
S + LSHL ++LNL N+ +P L L+ + ++L N + + N+
Sbjct: 515 SSIE----ALSHLKGIYLNLASNHISIILPSLLPILSQQRTINLRQNPLDCTCSNI 566
Score = 34.3 bits (77), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 82/341 (24%), Positives = 124/341 (36%), Gaps = 52/341 (15%)
Query: 139 IPRFIGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHL-VNFGWLSGLSFL 197
+P + + LK L LS ++F + N SL +L + N L + G L L L
Sbjct: 293 LPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENL 352
Query: 198 EHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQF 257
LD S+ ++ + L L L L+LS + L LDL+ +
Sbjct: 353 RELDLSHDDIETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRL 412
Query: 258 DNSFVPSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRX 317
S L L LNL ++ + L +L+HL+L NHF
Sbjct: 413 KVKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQGNHF----------- 461
Query: 318 XXXXXXXXXXXXXEGRIPR--SMARLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLES 375
+G I + S+ L L+ L LS L S + S
Sbjct: 462 ------------PKGNIQKTNSLQTLGRLEILVLSFCDL-----------SSIDQHAFTS 498
Query: 376 LVLPNSSIFGH---LTDQIGLFKNLDS--LDLSNNSIVGLVPQSFGRLSSLRVLQLYRNK 430
L + N H + I +L L+L++N I ++P LS R + L +N
Sbjct: 499 LKMMNHVDLSHNRLTSSSIEALSHLKGIYLNLASNHISIILPSLLPILSQQRTINLRQNP 558
Query: 431 LHGTLSEIHFVNLTKLSVFLVGENTLTLKVRRDWI---PPF 468
L T S I+F+ K EN L+ D + PP
Sbjct: 559 LDCTCSNIYFLEWYK-------ENMQKLEDTEDTLCENPPL 592
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 84/323 (26%), Positives = 137/323 (42%), Gaps = 27/323 (8%)
Query: 364 IFSGCVPNGLESLVLPNSSIFGHLTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRV 423
+F G +ES+ L F ++ F L LDL+ + L P LS+L+
Sbjct: 247 VFEGLCEMSVESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSEL-PSGLVGLSTLKK 305
Query: 424 LQLYRNKLHGTLSEIHFVNLTKLSVFLVGENTLTLKVRRDWIPPFQ-LIELGLRSCNVGS 482
L L NK L +I N L+ + NT L++ + + L EL L ++ +
Sbjct: 306 LVLSANKFEN-LCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIET 364
Query: 483 R--FPLWLYSQKDLQFLDL-FNSGISGTFPNRLLKSASQLYLLDLGHNQIHGELTNLTKA 539
L L + LQ L+L +N +S K QL LLDL ++ + +
Sbjct: 365 SDCCNLQLRNLSHLQSLNLSYNEPLS--LKTEAFKECPQLELLDLAFTRLKVKDAQ-SPF 421
Query: 540 SQLSFLRLMANNLSGPLPLISSN--------LIGLDLSGNSF-SGSIFHFLCYTINAGMK 590
L L+++ NLS L ISS L L+L GN F G+I ++ +
Sbjct: 422 QNLHLLKVL--NLSHSLLDISSEQLFDGLPALQHLNLQGNHFPKGNIQK--TNSLQTLGR 477
Query: 591 LQFLFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSL--VSLHLRKNR 648
L+ L L L + S + + +DLS+N+ +S +LS L + L+L N
Sbjct: 478 LEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHNRLTS---SSIEALSHLKGIYLNLASNH 534
Query: 649 LSGTMPISLKNCTSLMTLDVGEN 671
+S +P L + T+++ +N
Sbjct: 535 ISIILPSLLPILSQQRTINLRQN 557
Score = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 48/160 (30%), Positives = 68/160 (42%), Gaps = 11/160 (6%)
Query: 149 LKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFS---YV 205
++ +NL F + + S LQ L L+ L + G L GLS L+ L S +
Sbjct: 256 VESINLQKHYFFNISSNTFHCFSGLQELDLTATHLSELPSG-LVGLSTLKKLVLSANKFE 314
Query: 206 NLSKASDWLLVTHMLPSLVELDLS-NCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPS 264
NL + S PSL L + N + + N L LDLSH+ + S +
Sbjct: 315 NLCQIS-----ASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCN 369
Query: 265 -WVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSF 303
+ LSHL LNL YN E + L+ LDL+F
Sbjct: 370 LQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAF 409
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 57/235 (24%), Positives = 91/235 (38%), Gaps = 61/235 (25%)
Query: 274 FLNLGYNNFH---------------GPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXX 318
F N+ N FH +P GL L++LK L LS N F + LC+
Sbjct: 266 FFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFEN-----LCQI- 319
Query: 319 XXXXXXXXXXXXEGRIPRSMARLCNLKRLYLSGAKLNQEISEILDIFSGCVPN--GLESL 376
S + +L L + G ++ L++ +GC+ N L L
Sbjct: 320 ------------------SASNFPSLTHLSIKGN------TKRLELGTGCLENLENLREL 355
Query: 377 VLPNSSIFGHLTD----QIGLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLH 432
L + I +D Q+ +L SL+LS N + L ++F L +L L +L
Sbjct: 356 DLSHDDI--ETSDCCNLQLRNLSHLQSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLK 413
Query: 433 GTLSEIHFVNLTKLSVFLVGENTLTLKVRR--DWIPPFQLIELGLRSCNVGSRFP 485
++ F NL L V + + L + + D +P Q + L G+ FP
Sbjct: 414 VKDAQSPFQNLHLLKVLNLSHSLLDISSEQLFDGLPALQHLNLQ------GNHFP 462
>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 = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 130/509 (25%), Positives = 205/509 (40%), Gaps = 96/509 (18%)
Query: 384 FGHLTDQI---GLFKNLDSL---DLSNNSIVGL-VPQSFGRLSSLRVLQLYRNKLHGTLS 436
F L+D + G F+NL +L DLS N I L + SFG+L+SL+ + N++
Sbjct: 106 FCGLSDAVLKDGYFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCE 165
Query: 437 -EIHFVNLTKLSVFLVGENTLTLKVRRDW---IPPFQLIELGLRSCNVGSRFPLWLYSQK 492
E+ + LS F + N+L +V DW + PF+
Sbjct: 166 HELEPLQGKTLSFFSLAANSLYSRVSVDWGKCMNPFR---------------------NM 204
Query: 493 DLQFLDLFNSG----ISGTFPNRLLKSASQLYLLDLGHNQIHGE---LTNLTKASQLSFL 545
L+ LD+ +G I+G F N + S SQ + L L H+ I G N+ Q
Sbjct: 205 VLEILDVSGNGWTVDITGNFSNAI--SKSQAFSLILAHH-IMGAGFGFHNIKDPDQ---- 257
Query: 546 RLMANNLSGPLPLISSNLIGLDLSGNSFSGSIFHFLCYTINAGMKLQFLFLDRNILQGNL 605
N +G L S++ LDLS G +F L+ L L N +
Sbjct: 258 ----NTFAG---LARSSVRHLDLS----HGFVFSLNSRVFETLKDLKVLNLAYNKINKIA 306
Query: 606 PDCWMSYQNLMMLDLSNNKFIGNLPTS-FGSLSSLVSLHLRKNRLSGTMPISLKNCTSLM 664
+ + NL +L+LS N +G L +S F L + + L+KN ++ + K L
Sbjct: 307 DEAFYGLDNLQVLNLSYN-LLGELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQ 365
Query: 665 TLDVGEN-----EFFGNIPSWF--GEMFSIMVFLILRSNYFHGLLPTKLCDLAF------ 711
TLD+ +N F +IP F G + + L +N H L +L +L
Sbjct: 366 TLDLRDNALTTIHFIPSIPDIFLSGNKLVTLPKINLTANLIH-LSENRLENLDILYFLLR 424
Query: 712 ---LQILDLADNNLSGTLPNCIHNLTAMATVNPFTGNAIKYSIPLNSTYALGSVTEQALV 768
LQIL L N S +G+ P LG Q L
Sbjct: 425 VPHLQILILNQNRFSSC-----------------SGDQTPSENPSLEQLFLGENMLQ-LA 466
Query: 769 VMKGVAADYSEILNLVRIIDVSKNFFSGTLPIGLTNLKALQSLNLSYNIFTGRIPETIGA 828
+ D E L+ ++++ ++ N+ + P ++L AL+ L+L+ N T + A
Sbjct: 467 WETELCWDVFEGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSNRLTVLSHNDLPA 526
Query: 829 MRSLESIDFSVNKFTGEIPQSMSSLTFLN 857
+LE +D S N+ P SL+ L+
Sbjct: 527 --NLEILDISRNQLLAPNPDVFVSLSVLD 553
Score = 33.1 bits (74), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 64/152 (42%), Gaps = 12/152 (7%)
Query: 131 FNDFQGVPIPRFIGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGW 190
+N + F G + NL+ LNLS + + L + Y+ L +N + ++
Sbjct: 299 YNKINKIADEAFYG-LDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIAIIQDQT 357
Query: 191 LSGLSFLEHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTL 250
L L+ LD + L H +PS+ ++ LS +L P + + T +
Sbjct: 358 FKFLEKLQTLDLR-------DNALTTIHFIPSIPDIFLSGNKLVTLPKINL----TANLI 406
Query: 251 DLSHNQFDNSFVPSWVFGLSHLLFLNLGYNNF 282
LS N+ +N + ++ + HL L L N F
Sbjct: 407 HLSENRLENLDILYFLLRVPHLQILILNQNRF 438
Score = 31.2 bits (69), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 70/306 (22%), Positives = 115/306 (37%), Gaps = 56/306 (18%)
Query: 614 NLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPIS--LKNCTSLMTLDVGEN 671
NL +LDL ++K P +F L L L L LS + +N +L LD+ +N
Sbjct: 74 NLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDLSKN 133
Query: 672 EF--------FGNIPSWFGEMFSI-MVFLILRSNYFHGLLPTKLCDLAF----------- 711
+ FG + S FS +FL+ H L P + L+F
Sbjct: 134 QIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCE----HELEPLQGKTLSFFSLAANSLYSR 189
Query: 712 ----------------LQILDLADN----NLSGTLPNCIHNLTAMATV--NPFTGNAIKY 749
L+ILD++ N +++G N I A + + + G +
Sbjct: 190 VSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSLILAHHIMGAGFGF 249
Query: 750 ---SIPLNSTYA-LGSVTEQALVVMKGVA----ADYSEILNLVRIIDVSKNFFSGTLPIG 801
P +T+A L + + L + G + E L +++++++ N +
Sbjct: 250 HNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEA 309
Query: 802 LTNLKALQSLNLSYNIFTGRIPETIGAMRSLESIDFSVNKFTGEIPQSMSSLTFLNHLNL 861
L LQ LNLSYN+ + + ID N Q+ L L L+L
Sbjct: 310 FYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDL 369
Query: 862 SNNYLT 867
+N LT
Sbjct: 370 RDNALT 375
>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 = 49.3 bits (116), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 92/375 (24%), Positives = 148/375 (39%), Gaps = 44/375 (11%)
Query: 400 LDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGENTLTLK 459
+DLS NSI L SF RL L+ L++ + + F L+ L + + N L+
Sbjct: 35 VDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQF-LQ 93
Query: 460 VRRDWIPPFQLIE-LGLRSCNV------GSRF-PLWLYSQKDLQFLDLFNSGISGTFPNR 511
+ +E L L CN+ G+ F PL L+ L L ++ I P
Sbjct: 94 LETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPL-----TSLEMLVLRDNNIKKIQPAS 148
Query: 512 LLKSASQLYLLDLGHNQIHG----ELTNLTKASQLSFLRLMANNLSG-----------PL 556
+ + ++LDL N++ +L N + + LRL + L
Sbjct: 149 FFLNMRRFHVLDLTFNKVKSICEEDLLNF-QGKHFTLLRLSSITLQDMNEYWLGWEKCGN 207
Query: 557 PLISSNLIGLDLSGNSFSGSIFHFLCYTINAGMKLQFLFLDRNILQGNL--------PDC 608
P ++++ LDLSGN F S+ I AG K+Q L L + G+ PD
Sbjct: 208 PFKNTSITTLDLSGNGFKESMAKRFFDAI-AGTKIQSLILSNSYNMGSSFGHTNFKDPDN 266
Query: 609 W----MSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLM 664
+ + + DLS +K L + F + L L L +N ++ + T L+
Sbjct: 267 FTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLL 326
Query: 665 TLDVGENEFFGNIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLADNNLSG 724
L++ +N F G+I S E + L L N+ L L L+ L L N L
Sbjct: 327 KLNLSQN-FLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTNQLKS 385
Query: 725 TLPNCIHNLTAMATV 739
LT++ +
Sbjct: 386 VPDGIFDRLTSLQKI 400
Score = 38.1 bits (87), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 31/87 (35%), Positives = 47/87 (54%), Gaps = 11/87 (12%)
Query: 227 DLSNCQLHIFPPLPVANFSTLTTLDLSHNQF----DNSFVPSWVFGLSHLLFLNLGYNNF 282
DLS ++ ++F+ L L L+ N+ DN+F +GL+HLL LNL NF
Sbjct: 281 DLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAF-----WGLTHLLKLNLS-QNF 334
Query: 283 HGPIPEGL-QSLTSLKHLDLSFNHFNS 308
G I + ++L L+ LDLS+NH +
Sbjct: 335 LGSIDSRMFENLDKLEVLDLSYNHIRA 361
Score = 33.1 bits (74), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 51/113 (45%), Gaps = 2/113 (1%)
Query: 148 NLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNL 207
+L+ L L+ + + + L+ L L LS+NFL ++ L LE LD SY ++
Sbjct: 300 DLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHI 359
Query: 208 SKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNS 260
D + LP+L EL L QL P ++L + L N +D S
Sbjct: 360 RALGDQSFLG--LPNLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCS 410
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 50/168 (29%), Positives = 72/168 (42%), Gaps = 4/168 (2%)
Query: 144 GSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFS 203
G N + LNL ++ + + +L L+ L LSRN + + G +GL+ L L+
Sbjct: 61 GISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELF 120
Query: 204 YVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVP 263
L+ + V L L EL L N + P +L LDL + +
Sbjct: 121 DNRLTTIPNGAFV--YLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISE 178
Query: 264 SWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIP 311
GLS+L +LNL N IP L L L LDLS NH ++ P
Sbjct: 179 GAFEGLSNLRYLNLAMCNLR-EIP-NLTPLIKLDELDLSGNHLSAIRP 224
Score = 35.0 bits (79), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 66/257 (25%), Positives = 106/257 (41%), Gaps = 29/257 (11%)
Query: 392 GLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLV 451
G+ N L+L N I + SF L L +LQL RN + T+ F L L+ +
Sbjct: 61 GISTNTRLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIR-TIEIGAFNGLANLNTLEL 119
Query: 452 GENTLTLKVRRDWIPPFQLIELGLRSCNVGSRFPLWLYSQ-KDLQFLDLFNSGISGTFPN 510
+N LT ++ +L EL LR+ + S P + +++ L+ LDL
Sbjct: 120 FDNRLTTIPNGAFVYLSKLKELWLRNNPIES-IPSYAFNRIPSLRRLDLGELKRLSYISE 178
Query: 511 RLLKSASQLYLLDLGHNQIHGELTNLTKASQLSFLRLMANNLSGPLPLISSNLIGLDLSG 570
+ S L L+L + E+ NLT +L L L N+LS P
Sbjct: 179 GAFEGLSNLRYLNLAMCNLR-EIPNLTPLIKLDELDLSGNHLSAIRP------------- 224
Query: 571 NSFSGSIFHFLCYTINAGMKLQFLFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLP 630
SF G M LQ L++ ++ +Q + + + Q+L+ ++L++N
Sbjct: 225 GSFQGL------------MHLQKLWMIQSQIQVIERNAFDNLQSLVEINLAHNNLTLLPH 272
Query: 631 TSFGSLSSLVSLHLRKN 647
F L L +HL N
Sbjct: 273 DLFTPLHHLERIHLHHN 289
Score = 31.2 bits (69), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 39/137 (28%), Positives = 56/137 (40%), Gaps = 2/137 (1%)
Query: 591 LQFLFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLS 650
L+ L L RN ++ + NL L+L +N+ +F LS L L LR N +
Sbjct: 90 LEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIE 149
Query: 651 GTMPISLKNCTSLMTLDVGENEFFGNIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLA 710
+ SL LD+GE + I E S + +L L + L L
Sbjct: 150 SIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMCNLREI--PNLTPLI 207
Query: 711 FLQILDLADNNLSGTLP 727
L LDL+ N+LS P
Sbjct: 208 KLDELDLSGNHLSAIRP 224
>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 = 43.9 bits (102), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 44/173 (25%), Positives = 85/173 (49%), Gaps = 4/173 (2%)
Query: 132 NDFQGVPIPRFIGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWL 191
N + +P+ F G + NL L++S ++ V ++ + +L +L+ L + N L ++
Sbjct: 90 NRLKLIPLGVFTG-LSNLTKLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAF 148
Query: 192 SGLSFLEHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLD 251
SGL+ LE L NL+ L +H L L+ L L + ++ L L+
Sbjct: 149 SGLNSLEQLTLEKCNLTSIPTEAL-SH-LHGLIVLRLRHLNINAIRDYSFKRLYRLKVLE 206
Query: 252 LSHNQFDNSFVPSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFN 304
+SH + ++ P+ ++GL+ L L++ + N ++ L L+ L+LS+N
Sbjct: 207 ISHWPYLDTMTPNCLYGLN-LTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYN 258
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 72/292 (24%), Positives = 116/292 (39%), Gaps = 38/292 (13%)
Query: 389 DQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLH---------------- 432
D+ F +L+ L+L+ N + + P +F L +LR L L N+L
Sbjct: 50 DEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKL 109
Query: 433 -------GTLSEIHFVNLTKLSVFLVGENTLTLKVRRDWIPPFQLIELGLRSCNVGSRFP 485
L + F +L L VG+N L R + L +L L CN+ S
Sbjct: 110 DISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPT 169
Query: 486 LWLYSQKDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHGELT-NLTKASQLSF 544
L L L L + I+ + K +L +L++ H +T N L+
Sbjct: 170 EALSHLHGLIVLRLRHLNINA-IRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTS 228
Query: 545 LRLMANNLSGPLPLISSNLIG---LDLSGNSFS---GSIFHFLCYTINAGMKLQFLFLDR 598
L + NL+ L +L+ L+LS N S GS+ H L ++LQ + L
Sbjct: 229 LSITHCNLTAVPYLAVRHLVYLRFLNLSYNPISTIEGSMLHEL-------LRLQEIQLVG 281
Query: 599 NILQGNLPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLS 650
L P + L +L++S N+ + F S+ +L +L L N L+
Sbjct: 282 GQLAVVEPYAFRGLNYLRVLNVSGNQLTTLEESVFHSVGNLETLILDSNPLA 333
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 98/333 (29%), Positives = 138/333 (41%), Gaps = 72/333 (21%)
Query: 220 LPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGY 279
L +L L L N Q+ PL N + L L+LS N + S + GL+ L LN
Sbjct: 106 LTNLTGLTLFNNQITDIDPL--KNLTNLNRLELSSNTISD---ISALSGLTSLQQLNFSS 160
Query: 280 NNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXXXXXXXEGRIPRSMA 339
N P L +LT+L+ LD+S N S I +A
Sbjct: 161 NQVTDLKP--LANLTTLERLDISSNKV-SDI-------------------------SVLA 192
Query: 340 RLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSSIFGHLTDQIGLFK---N 396
+L NL+ L + N +IS+I + G + N L+ L S+ G+ IG N
Sbjct: 193 KLTNLESLIAT----NNQISDITPL--GILTN-LDEL-----SLNGNQLKDIGTLASLTN 240
Query: 397 LDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIH-FVNLTKLSVFLVGENT 455
L LDL+NN I L P L+ L L+L N+ +S I LT L+ + EN
Sbjct: 241 LTDLDLANNQISNLAP--LSGLTKLTELKLGANQ----ISNISPLAGLTALTNLELNENQ 294
Query: 456 LTLKVRRDWIPPF----QLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGTFPNR 511
L + I P L L L N+ P + S LQ L +N+ +S
Sbjct: 295 L------EDISPISNLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFYNNKVSDVSS-- 344
Query: 512 LLKSASQLYLLDLGHNQIHG--ELTNLTKASQL 542
L + + + L GHNQI L NLT+ +QL
Sbjct: 345 -LANLTNINWLSAGHNQISDLTPLANLTRITQL 376
Score = 35.8 bits (81), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 44/153 (28%), Positives = 70/153 (45%), Gaps = 15/153 (9%)
Query: 154 LSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNLSKASDW 213
++ ++ + P L NL++L L L N + + L L+ L L+ S +S S
Sbjct: 92 MNNNQIADITP--LANLTNLTGLTLFNN--QITDIDPLKNLTNLNRLELSSNTISDIS-- 145
Query: 214 LLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLL 273
L SL +L+ S+ Q+ PL AN +TL LD+S N+ + V + + L L+
Sbjct: 146 --ALSGLTSLQQLNFSSNQVTDLKPL--ANLTTLERLDISSNKVSDISVLAKLTNLESLI 201
Query: 274 FLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHF 306
N N P G+ LT+L L L+ N
Sbjct: 202 ATN---NQISDITPLGI--LTNLDELSLNGNQL 229
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 67/233 (28%), Positives = 98/233 (42%), Gaps = 46/233 (19%)
Query: 469 QLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQ 528
+L+++ + + + PL + +L L LFN+ I+ P LK+ + L L+L N
Sbjct: 86 KLVDILMNNNQIADITPL--ANLTNLTGLTLFNNQITDIDP---LKNLTNLNRLELSSNT 140
Query: 529 IH--GELTNLTKASQLSFLRLMANNLSGPLPLIS-SNLIGLDLSGNSFSG-------SIF 578
I L+ LT QL+F +N ++ PL + + L LD+S N S +
Sbjct: 141 ISDISALSGLTSLQQLNF---SSNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNL 197
Query: 579 HFLCYTINAGMKLQFL----FLDRNILQGN-LPD--CWMSYQNLMMLDLSNNKFIGNLPT 631
L T N + L LD L GN L D S NL LDL+NN+ P
Sbjct: 198 ESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPL 257
Query: 632 S--------------------FGSLSSLVSLHLRKNRLSGTMPIS-LKNCTSL 663
S L++L +L L +N+L PIS LKN T L
Sbjct: 258 SGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYL 310
>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 = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 122/506 (24%), Positives = 213/506 (42%), Gaps = 68/506 (13%)
Query: 400 LDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGENTLTLK 459
L+ S N + + ++F RL +L L L R +++ + E F + +LS ++ N L
Sbjct: 35 LEFSFNFLPTIHNRTFSRLMNLTFLDLTRCQINW-IHEDTFQSHHQLSTLVLTGNPLIFM 93
Query: 460 VRRDWIPPFQLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISG-TFPNRLLKSASQ 518
P L L L + + + +++ ++L+ L L ++ IS FP A
Sbjct: 94 AETSLNGPKSLKHLFLIQTGISNLEFIPVHNLENLESLYLGSNHISSIKFPKDF--PARN 151
Query: 519 LYLLDLGHNQIH----GELTNLTKASQLSFLRLMANNLSGPLPLISSNLIGLDLSGNSFS 574
L +LD +N IH ++ +L +A LS N +G +N+ G++L +F
Sbjct: 152 LKVLDFQNNAIHYISREDMRSLEQAINLSL------NFNG------NNVKGIELG--AFD 197
Query: 575 GSIFHFLCYTINAGMKLQFLFLDRNILQ----GNLPD--------------CWMSYQNLM 616
+IF L + + + F L + Q G D C MS ++L
Sbjct: 198 STIFQSLNFGGTPNLSVIFNGLQNSTTQSLWLGTFEDIDDEDISSAMLKGLCEMSVESL- 256
Query: 617 MLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTLDVGENEFFGN 676
+L ++F T+F + L L L L G +P +K L L + N F
Sbjct: 257 --NLQEHRFSDISSTTFQCFTQLQELDLTATHLKG-LPSGMKGLNLLKKLVLSVNHF-DQ 312
Query: 677 IPSWFGEMFSIMVFLILRSNYFHGLLPTK-LCDLAFLQILDLADNNLSGTLPNC----IH 731
+ F + L +R N L L L LQ LDL+ N++ + +C +
Sbjct: 313 LCQISAANFPSLTHLYIRGNVKKLHLGVGCLEKLGNLQTLDLSHNDIEAS--DCCSLQLK 370
Query: 732 NLTAMATVNPFTGNAIKYSIPLN-STYALGSVTEQALVVMK----GVAADYSEILNL--V 784
NL+ + T+N + ++ PL + A + L+ + + A S NL +
Sbjct: 371 NLSHLQTLN------LSHNEPLGLQSQAFKECPQLELLDLAFTRLHINAPQSPFQNLHFL 424
Query: 785 RIIDVSKNFFSGTLPIGLTNLKALQSLNLSYNIFT-GRIPET--IGAMRSLESIDFSVNK 841
++++++ F + L L L+ LNL N F G I +T + + SLE + S
Sbjct: 425 QVLNLTYCFLDTSNQHLLAGLPVLRHLNLKGNHFQDGTITKTNLLQTVGSLEVLILSSCG 484
Query: 842 FTGEIPQSMSSLTFLNHLNLSNNYLT 867
Q+ SL ++H++LS+N LT
Sbjct: 485 LLSIDQQAFHSLGKMSHVDLSHNSLT 510
Score = 37.7 bits (86), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 56/209 (26%), Positives = 91/209 (43%), Gaps = 38/209 (18%)
Query: 246 TLTTLDLSHNQFDNSFVPSWVFG-LSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFN 304
++ +L+L ++F S + S F + L L+L + G +P G++ L LK L LS N
Sbjct: 252 SVESLNLQEHRF--SDISSTTFQCFTQLQELDLTATHLKG-LPSGMKGLNLLKKLVLSVN 308
Query: 305 HFNSSIPNLLCRXXXXXXXXXXXXXXEGRIPRSMARLCNLKRLYLSGAKLNQEISEILDI 364
HF+ LC+ S A +L LY+ G + L +
Sbjct: 309 HFDQ-----LCQI-------------------SAANFPSLTHLYIRGN------VKKLHL 338
Query: 365 FSGCVPN--GLESLVLPNSSIFGH--LTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSS 420
GC+ L++L L ++ I + Q+ +L +L+LS+N +GL Q+F
Sbjct: 339 GVGCLEKLGNLQTLDLSHNDIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQAFKECPQ 398
Query: 421 LRVLQLYRNKLHGTLSEIHFVNLTKLSVF 449
L +L L +LH + F NL L V
Sbjct: 399 LELLDLAFTRLHINAPQSPFQNLHFLQVL 427
Score = 36.6 bits (83), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 48/171 (28%), Positives = 79/171 (46%), Gaps = 12/171 (7%)
Query: 149 LKYLNLSGSRFVGMIPHQ-LGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNL 207
L+ L+L+ +R P NL LQ L L+ FL N L+GL L HL+ +
Sbjct: 399 LELLDLAFTRLHINAPQSPFQNLHFLQVLNLTYCFLDTSNQHLLAGLPVLRHLNLKGNHF 458
Query: 208 SKASDWLLVTHMLPSLVELD---LSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPS 264
+ + T++L ++ L+ LS+C L + ++ +DLSH NS
Sbjct: 459 QDGT--ITKTNLLQTVGSLEVLILSSCGLLSIDQQAFHSLGKMSHVDLSH----NSLTCD 512
Query: 265 WVFGLSHL--LFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNL 313
+ LSHL ++LNL N+ + P L L+ ++LS N + + N+
Sbjct: 513 SIDSLSHLKGIYLNLAANSINIISPRLLPILSQQSTINLSHNPLDCTCSNI 563
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 99/350 (28%), Positives = 138/350 (39%), Gaps = 84/350 (24%)
Query: 220 LPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGY 279
L LV++ ++N Q+ PL AN + LT L L +NQ + P + L++L L L
Sbjct: 84 LTKLVDILMNNNQIADITPL--ANLTNLTGLTLFNNQITD-IDP--LKNLTNLNRLELSS 138
Query: 280 NNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXXXXXXXEGRIPRSMA 339
N L LTSL+ L S N P +A
Sbjct: 139 NTISDI--SALSGLTSLQQLSFSSNQVTDLKP--------------------------LA 170
Query: 340 RLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSSI-----FGHLT--DQIG 392
L L+RL +S K++ DI LESL+ N+ I G LT D++
Sbjct: 171 NLTTLERLDISSNKVS-------DISVLAKLTNLESLIATNNQISDITPLGILTNLDELS 223
Query: 393 L-------------FKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIH 439
L NL LDL+NN I L P L+ L L+L N+ +S I
Sbjct: 224 LNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQ----ISNIS 277
Query: 440 -FVNLTKLSVFLVGENTLTLKVRRDWIPPF----QLIELGLRSCNVGSRFPLWLYSQKDL 494
LT L+ + EN L + I P L L L N+ P + S L
Sbjct: 278 PLAGLTALTNLELNENQL------EDISPISNLKNLTYLTLYFNNISDISP--VSSLTKL 329
Query: 495 QFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHG--ELTNLTKASQL 542
Q L +N+ +S L + + + L GHNQI L NLT+ +QL
Sbjct: 330 QRLFFYNNKVSDVSS---LANLTNINWLSAGHNQISDLTPLANLTRITQL 376
Score = 35.0 bits (79), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 44/153 (28%), Positives = 69/153 (45%), Gaps = 15/153 (9%)
Query: 154 LSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNLSKASDW 213
++ ++ + P L NL++L L L N + + L L+ L L+ S +S S
Sbjct: 92 MNNNQIADITP--LANLTNLTGLTLFNN--QITDIDPLKNLTNLNRLELSSNTISDIS-- 145
Query: 214 LLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLL 273
L SL +L S+ Q+ PL AN +TL LD+S N+ + V + + L L+
Sbjct: 146 --ALSGLTSLQQLSFSSNQVTDLKPL--ANLTTLERLDISSNKVSDISVLAKLTNLESLI 201
Query: 274 FLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHF 306
N N P G+ LT+L L L+ N
Sbjct: 202 ATN---NQISDITPLGI--LTNLDELSLNGNQL 229
Score = 33.1 bits (74), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 68/233 (29%), Positives = 98/233 (42%), Gaps = 46/233 (19%)
Query: 469 QLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQ 528
+L+++ + + + PL + +L L LFN+ I+ P LK+ + L L+L N
Sbjct: 86 KLVDILMNNNQIADITPL--ANLTNLTGLTLFNNQITDIDP---LKNLTNLNRLELSSNT 140
Query: 529 IH--GELTNLTKASQLSFLRLMANNLSGPLPLIS-SNLIGLDLSGNSFSG-------SIF 578
I L+ LT QLSF +N ++ PL + + L LD+S N S +
Sbjct: 141 ISDISALSGLTSLQQLSF---SSNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNL 197
Query: 579 HFLCYTINAGMKLQFL----FLDRNILQGN-LPD--CWMSYQNLMMLDLSNNKFIGNLPT 631
L T N + L LD L GN L D S NL LDL+NN+ P
Sbjct: 198 ESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPL 257
Query: 632 S--------------------FGSLSSLVSLHLRKNRLSGTMPIS-LKNCTSL 663
S L++L +L L +N+L PIS LKN T L
Sbjct: 258 SGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYL 310
>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 = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 165/701 (23%), Positives = 263/701 (37%), Gaps = 109/701 (15%)
Query: 147 GNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVN 206
N+ LNL+ ++ + P S L L N + + L L+ L+ +
Sbjct: 25 SNITVLNLTHNQLRRLPPTNFTRYSQLAILDAGFNSISKLEPELCQILPLLKVLNLQHNE 84
Query: 207 LSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWV 266
LS+ SD V +L ELDL + +H P N L LDLSHN ++ + + V
Sbjct: 85 LSQISDQTFV--FCTNLTELDLMSNSIHKIKSNPFKNQKNLIKLDLSHNGLSSTKLGTGV 142
Query: 267 FGLSHLLFLNLGYNNFHGPIPEGLQSL--TSLKHLDLSFNHFNSSIPNLLCRXXXXXXXX 324
+ L L N E L+ L +SL+ LDLS N P
Sbjct: 143 QLENLQELL-LAKNKILALRSEELEFLGNSSLRKLDLSSNPLKEFSPGCFQTIGKLFALL 201
Query: 325 XXXXXXEGRIPRSMA-RLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSSI 383
+ + L N LS A NQ ++ FSG L L L +++
Sbjct: 202 LNNAQLNPHLTEKLCWELSNTSIQNLSLAN-NQLLATSESTFSGLKWTNLTQLDLSYNNL 260
Query: 384 FGHLTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNL 443
+L L L N+I L P+SF LS+LR L L R
Sbjct: 261 HDVGNGSFSYLPSLRYLSLEYNNIQRLSPRSFYGLSNLRYLSLKR-------------AF 307
Query: 444 TKLSVFLVGENTLTLKVRRDWIPPFQLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSG 503
TK SV L N+ WL K L++L++ ++
Sbjct: 308 TKQSVSLASH------------------------PNIDDFSFQWL---KYLEYLNMDDNN 340
Query: 504 ISGTFPNRLLKSASQLYLLDLGHNQIHGELTNLTKASQLSFLRLMANNLSGPLPLISSNL 563
I T KS + L+ L + + T+L + +F+ L + PL++ NL
Sbjct: 341 IPST------KSNTFTGLVSLKYLSLSKTFTSLQTLTNETFVSLAHS------PLLTLNL 388
Query: 564 IGLDLSGNSFSGSIFHFLCYTINAGMKLQFLFLDRNILQGNLP-DCWMSYQNLMMLDLSN 622
+S + F +L +L+ L L N ++ L W +N+ + LS
Sbjct: 389 TKNHIS--KIANGTFSWLG-------QLRILDLGLNEIEQKLSGQEWRGLRNIFEIYLSY 439
Query: 623 NKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTLDVGENEFFGNIPSWFG 682
NK++ +SF + SL L LR+ ++LKN +D+ PS F
Sbjct: 440 NKYLQLSTSSFALVPSLQRLMLRR--------VALKN------VDIS--------PSPFR 477
Query: 683 EMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLADNNLSGTLPNCIHNLTAMATVNPF 742
+ ++ + L L +N + L L L+ILD NNL+ NP
Sbjct: 478 PLRNLTI-LDLSNNNIANINEDLLEGLENLEILDFQHNNLA----------RLWKRANP- 525
Query: 743 TGNAIKYSIPLNSTYALGSVTEQALVVMKGVAADYSEILNLVRIIDVSKNFFSGTLPIGL 802
G + + L+ + L + + GV + E+ + I++ N + P
Sbjct: 526 -GGPVNFLKGLSHLHILNLESNGLDEIPVGVFKNLFEL----KSINLGLNNLNKLEPFIF 580
Query: 803 TNLKALQSLNLSYNIFTGRIPETIG-AMRSLESIDFSVNKF 842
+ +L+SLNL N+ T + G ++L S+D N F
Sbjct: 581 DDQTSLRSLNLQKNLITSVEKDVFGPPFQNLNSLDMRFNPF 621
>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 = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 45/160 (28%), Positives = 66/160 (41%), Gaps = 4/160 (2%)
Query: 148 NLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNL 207
N +YLNL + + +L L+ L LS+N + + G +GL L L+ L
Sbjct: 36 NTRYLNLQENSIQVIRTDTFKHLRHLEILQLSKNLVRKIEVGAFNGLPSLNTLELFDNRL 95
Query: 208 SKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVF 267
+ L L EL L N + P +L LDL + +
Sbjct: 96 TTVPTQAF--EYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEAAFE 153
Query: 268 GLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFN 307
GL +L +LNLG N IP L +L L+ L+LS N +
Sbjct: 154 GLVNLRYLNLGMCNLKD-IP-NLTALVRLEELELSGNRLD 191
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 51/182 (28%), Positives = 72/182 (39%), Gaps = 22/182 (12%)
Query: 135 QGVPIPRFIGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGL 194
QG+P N +YLNL + + +L L+ L L RN + + G +GL
Sbjct: 71 QGIP--------SNTRYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGL 122
Query: 195 SFLEHLDFSYVNLSKASDWLLVT-----HMLPSLVELDLSNCQLHIFPPLPVANFSTLTT 249
+ L L+ +WL V L L EL L N + P +L
Sbjct: 123 ASLNTLEL-------FDNWLTVIPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMR 175
Query: 250 LDLSHNQFDNSFVPSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSS 309
LDL + GL +L +LNLG N +P L L L+ L++S NHF
Sbjct: 176 LDLGELKKLEYISEGAFEGLFNLKYLNLGMCNIKD-MP-NLTPLVGLEELEMSGNHFPEI 233
Query: 310 IP 311
P
Sbjct: 234 RP 235
>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 = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 45/160 (28%), Positives = 66/160 (41%), Gaps = 4/160 (2%)
Query: 148 NLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNL 207
N +YLNL + + +L L+ L LS+N + + G +GL L L+ L
Sbjct: 36 NTRYLNLQENSIQVIRTDTFKHLRHLEILQLSKNLVRKIEVGAFNGLPSLNTLELFDNRL 95
Query: 208 SKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVF 267
+ L L EL L N + P +L LDL + +
Sbjct: 96 TTVPTQAF--EYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEAAFE 153
Query: 268 GLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFN 307
GL +L +LNLG N IP L +L L+ L+LS N +
Sbjct: 154 GLVNLRYLNLGMCNLKD-IP-NLTALVRLEELELSGNRLD 191
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 139/333 (41%), Gaps = 73/333 (21%)
Query: 220 LPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGY 279
L +L L L N Q+ PL N + L L+LS N + S + GL+ L LN G
Sbjct: 106 LTNLTGLTLFNNQITDIDPL--KNLTNLNRLELSSNTISDI---SALSGLTSLQQLNFG- 159
Query: 280 NNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXXXXXXXEGRIPRSMA 339
N P L +LT+L+ LD+S N S I +A
Sbjct: 160 NQVTDLKP--LANLTTLERLDISSNKV-SDI-------------------------SVLA 191
Query: 340 RLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSSIFGHLTDQIGLFK---N 396
+L NL+ L + N +IS+I + G + N L+ L S+ G+ IG N
Sbjct: 192 KLTNLESLIAT----NNQISDITPL--GILTN-LDEL-----SLNGNQLKDIGTLASLTN 239
Query: 397 LDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIH-FVNLTKLSVFLVGENT 455
L LDL+NN I L P L+ L L+L N+ +S I LT L+ + EN
Sbjct: 240 LTDLDLANNQISNLAP--LSGLTKLTELKLGANQ----ISNISPLAGLTALTNLELNENQ 293
Query: 456 LTLKVRRDWIPPF----QLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGTFPNR 511
L + I P L L L N+ P + S LQ L +N+ +S
Sbjct: 294 L------EDISPISNLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFYNNKVSDVSS-- 343
Query: 512 LLKSASQLYLLDLGHNQIHG--ELTNLTKASQL 542
L + + + L GHNQI L NLT+ +QL
Sbjct: 344 -LANLTNINWLSAGHNQISDLTPLANLTRITQL 375
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 43/164 (26%), Positives = 70/164 (42%), Gaps = 38/164 (23%)
Query: 143 IGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDF 202
+ ++ NL L L ++ + P L NL++L L LS N + + LSGL+ L+ L+F
Sbjct: 103 LANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTIS--DISALSGLTSLQQLNF 158
Query: 203 SYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFV 262
++ +D P+AN +TL LD+S N+ + V
Sbjct: 159 G----NQVTDLK-------------------------PLANLTTLERLDISSNKVSDISV 189
Query: 263 PSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHF 306
+ + L L+ N N P G+ LT+L L L+ N
Sbjct: 190 LAKLTNLESLIATN---NQISDITPLGI--LTNLDELSLNGNQL 228
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 67/233 (28%), Positives = 97/233 (41%), Gaps = 47/233 (20%)
Query: 469 QLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQ 528
+L+++ + + + PL + +L L LFN+ I+ P LK+ + L L+L N
Sbjct: 86 KLVDILMNNNQIADITPL--ANLTNLTGLTLFNNQITDIDP---LKNLTNLNRLELSSNT 140
Query: 529 IH--GELTNLTKASQLSFLRLMANNLSGPLPLIS-SNLIGLDLSGNSFSG-------SIF 578
I L+ LT QL+F N ++ PL + + L LD+S N S +
Sbjct: 141 ISDISALSGLTSLQQLNF----GNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNL 196
Query: 579 HFLCYTINAGMKLQFL----FLDRNILQGN-LPD--CWMSYQNLMMLDLSNNKFIGNLPT 631
L T N + L LD L GN L D S NL LDL+NN+ P
Sbjct: 197 ESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPL 256
Query: 632 S--------------------FGSLSSLVSLHLRKNRLSGTMPIS-LKNCTSL 663
S L++L +L L +N+L PIS LKN T L
Sbjct: 257 SGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYL 309
>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 = 40.4 bits (93), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 121/501 (24%), Positives = 214/501 (42%), Gaps = 56/501 (11%)
Query: 400 LDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGENTLTLK 459
L+ S N + + +F RL +L L L R +++ + E F + +L+ ++ N L
Sbjct: 37 LEFSFNFLPTIQNTTFSRLINLIFLDLTRCQINW-VHEDTFQSHHQLNTIVLTGNPLIFM 95
Query: 460 VRRDWIPPFQLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISG-----TFPNRLLK 514
P L L L + + + +++ ++L+ L L ++ IS FP + LK
Sbjct: 96 AETSLTGPKFLKHLFLTQTGISNLEFIPVHNLENLESLHLGSNHISSINLPENFPTQNLK 155
Query: 515 SASQLYLLDLGHNQIH----GELTNLTKASQLSFLRLMANNLSGPLPLISSNLIGLDLSG 570
+LD +N IH + +L +A+ LS L N++ G P I
Sbjct: 156 ------VLDFQNNAIHYISRKDTNSLEQATNLS-LNFNGNDIKGIEP---GAFISKIFQS 205
Query: 571 NSFSGSIFHFLCYTINAGMKLQFLFL-------DRNILQGNLPD-CWMSYQNLMMLDLSN 622
F GS+ F+ + LQ L+L D+ + C MS +++ +L
Sbjct: 206 LKFGGSLNLFIIFKGLQNSTLQSLWLGTFEDTDDQYLTSATFEGLCDMSVESI---NLQK 262
Query: 623 NKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTLDVGENEFFGNIPSWFG 682
++F ++F + + L L L+G +P ++ SL L + N F +
Sbjct: 263 HRFSDLSSSTFRCFTRVQELDLTAAHLNG-LPSGIEGMNSLKKLVLNANSF-DQLCQINA 320
Query: 683 EMFSIMVFLILRSNYFHGLLPTK-LCDLAFLQILDLADNNLSGTLPNC----IHNLTAMA 737
F + L ++ N L T+ L L LQ LDL+ +++ + +C + NL +
Sbjct: 321 ASFPSLRDLYIKGNMRKLDLGTRCLEKLENLQKLDLSHSDIEAS--DCCNLQLKNLRHLQ 378
Query: 738 TVNPFTGNAIKYSIPLN-STYALGSVTEQALVVMK----GVAADYS--EILNLVRIIDVS 790
+N + Y+ PL A + L+ + V A +S + L+L+R++++S
Sbjct: 379 YLN------LSYNEPLGLEDQAFKECPQLELLDVAFTHLHVKAPHSPFQNLHLLRVLNLS 432
Query: 791 KNFFSGTLPIGLTNLKALQSLNLSYNIFT-GRIPET--IGAMRSLESIDFSVNKFTGEIP 847
+ L L+ L+ LNL N F G I +T + + SLE + S
Sbjct: 433 HCLLDTSNQHLLAGLQDLRHLNLQGNSFQDGSISKTNLLQMVGSLEILILSSCNLLSIDQ 492
Query: 848 QSMSSLTFLNHLNLSNNYLTG 868
Q+ L +NHL+LS+N LTG
Sbjct: 493 QAFHGLRNVNHLDLSHNSLTG 513
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 53/171 (30%), Positives = 77/171 (45%), Gaps = 12/171 (7%)
Query: 149 LKYLNLSGSRFVGMIPHQ-LGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDF---SY 204
L+ L+++ + PH NL L+ L LS L N L+GL L HL+ S+
Sbjct: 401 LELLDVAFTHLHVKAPHSPFQNLHLLRVLNLSHCLLDTSNQHLLAGLQDLRHLNLQGNSF 460
Query: 205 VNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPS 264
+ S + LL M+ SL L LS+C L + LDLSH NS
Sbjct: 461 QDGSISKTNLL--QMVGSLEILILSSCNLLSIDQQAFHGLRNVNHLDLSH----NSLTGD 514
Query: 265 WVFGLSHL--LFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNL 313
+ LSHL L+LN+ NN P L +L+ ++LS N + + N+
Sbjct: 515 SMDALSHLKGLYLNMASNNIRIIPPHLLPALSQQSIINLSHNPLDCTCSNI 565
Score = 36.2 bits (82), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 51/226 (22%), Positives = 84/226 (37%), Gaps = 27/226 (11%)
Query: 241 VANFSTLTTLDLSHNQFDNSFVPS-WVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHL 299
+ L LDLSH+ + S + + L HL +LNL YN G + + L+ L
Sbjct: 345 LEKLENLQKLDLSHSDIEASDCCNLQLKNLRHLQYLNLSYNEPLGLEDQAFKECPQLELL 404
Query: 300 DLSFNHFNSSIPNL-LCRXXXXXXXXXXXXXXEGRIPRSMARLCNLKRLYLSGAKLNQEI 358
D++F H + P+ + +A L +L+ L L G
Sbjct: 405 DVAFTHLHVKAPHSPFQNLHLLRVLNLSHCLLDTSNQHLLAGLQDLRHLNLQGNSFQDGS 464
Query: 359 SEILDIFSGCVPNGLESLVLPNSSIFGHLTDQIGLFKNLDSLDLSNNSIVG--------- 409
++ + LE L+L + ++ +N++ LDLS+NS+ G
Sbjct: 465 ISKTNLLQ--MVGSLEILILSSCNLLSIDQQAFHGLRNVNHLDLSHNSLTGDSMDALSHL 522
Query: 410 --------------LVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFV 441
+ P LS ++ L N L T S IHF+
Sbjct: 523 KGLYLNMASNNIRIIPPHLLPALSQQSIINLSHNPLDCTCSNIHFI 568
Score = 35.4 bits (80), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 60/121 (49%), Gaps = 6/121 (4%)
Query: 141 RFIGSMGNLKYLNLSGSRFV-GMIPHQ--LGNLSSLQYLVLSRNFLHLVNFGWLSGLSFL 197
+ + +L++LNL G+ F G I L + SL+ L+LS L ++ GL +
Sbjct: 442 HLLAGLQDLRHLNLQGNSFQDGSISKTNLLQMVGSLEILILSSCNLLSIDQQAFHGLRNV 501
Query: 198 EHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQF 257
HLD S+ +L+ D + L L L++++ + I PP + S + ++LSHN
Sbjct: 502 NHLDLSHNSLT--GDSMDALSHLKGLY-LNMASNNIRIIPPHLLPALSQQSIINLSHNPL 558
Query: 258 D 258
D
Sbjct: 559 D 559
Score = 30.4 bits (67), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 44/170 (25%), Positives = 69/170 (40%), Gaps = 38/170 (22%)
Query: 286 IPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXXXXXXXEGRIPRSMARLCNLK 345
+P G++ + SLK L L+ N F+ LC+ + A +L+
Sbjct: 292 LPSGIEGMNSLKKLVLNANSFDQ-----LCQI-------------------NAASFPSLR 327
Query: 346 RLYLSGAKLNQEISEILDIFSGCVP--NGLESLVLPNSSIFGHLTD----QIGLFKNLDS 399
LY+ G LD+ + C+ L+ L L +S I +D Q+ ++L
Sbjct: 328 DLYIKGNM------RKLDLGTRCLEKLENLQKLDLSHSDIEA--SDCCNLQLKNLRHLQY 379
Query: 400 LDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVF 449
L+LS N +GL Q+F L +L + LH F NL L V
Sbjct: 380 LNLSYNEPLGLEDQAFKECPQLELLDVAFTHLHVKAPHSPFQNLHLLRVL 429
>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 = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 50/173 (28%), Positives = 77/173 (44%), Gaps = 8/173 (4%)
Query: 143 IGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDF 202
+ + NL YL L+G++ + L++L+ LVL N L + G L+ L +L+
Sbjct: 81 LKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNL 140
Query: 203 SYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFV 262
++ L V L +L ELDLS QL P + L L L NQ + V
Sbjct: 141 AHNQLQSLPKG--VFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKS--V 196
Query: 263 PSWVFG-LSHLLFLNLGYNNFHGPIPEGLQSLTSL--KHLDLSFNHFNSSIPN 312
P VF L+ L ++ L N + P G++ L+ KH + N S P+
Sbjct: 197 PDGVFDRLTSLQYIWLHDNPWDCTCP-GIRYLSEWINKHSGVVRNSAGSVAPD 248
Score = 38.1 bits (87), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 36/120 (30%), Positives = 59/120 (49%), Gaps = 6/120 (5%)
Query: 191 LSGLSFLEHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTL 250
+ G+ +L ++ + + +K D + L +L L L+ QL P + L L
Sbjct: 56 VQGIQYLPNVRYLALGGNKLHD-ISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKEL 114
Query: 251 DLSHNQFDNSFVPSWVFG-LSHLLFLNLGYNNFHGPIPEGL-QSLTSLKHLDLSFNHFNS 308
L NQ + +P VF L++L +LNL +N +P+G+ LT+L LDLS+N S
Sbjct: 115 VLVENQLQS--LPDGVFDKLTNLTYLNLAHNQLQS-LPKGVFDKLTNLTELDLSYNQLQS 171
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 52/191 (27%), Positives = 77/191 (40%), Gaps = 42/191 (21%)
Query: 269 LSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXXXXX 328
L ++ +L LG N H L+ LT+L +L L+ N S+PN +
Sbjct: 62 LPNVRYLALGGNKLHDI--SALKELTNLTYLILTGNQL-QSLPNGV-------------- 104
Query: 329 XXEGRIPRSMARLCNLKRLYLSGAKLNQEISEILDIFSGC-----VPNGLESLVLPNSSI 383
+L NLK L L +L + D + N L+SL +
Sbjct: 105 ---------FDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLP---KGV 152
Query: 384 FGHLTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNL 443
F LT NL LDLS N + L F +L+ L+ L+LY+N+L + F L
Sbjct: 153 FDKLT-------NLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGV-FDRL 204
Query: 444 TKLSVFLVGEN 454
T L + +N
Sbjct: 205 TSLQYIWLHDN 215
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 39.7 bits (91), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 99/350 (28%), Positives = 137/350 (39%), Gaps = 84/350 (24%)
Query: 220 LPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGY 279
L LV++ ++N Q+ PL AN + LT L L +NQ + P + L++L L L
Sbjct: 84 LTKLVDILMNNNQIADITPL--ANLTNLTGLTLFNNQITD-IDP--LKNLTNLNRLELSS 138
Query: 280 NNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXXXXXXXEGRIPRSMA 339
N L LTSL+ L S N P +A
Sbjct: 139 NTISDI--SALSGLTSLQQLSFSSNQVTDLKP--------------------------LA 170
Query: 340 RLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSSI-----FGHLT--DQIG 392
L L+RL +S K++ DI LESL+ N+ I G LT D++
Sbjct: 171 NLTTLERLDISSNKVS-------DISVLAKLTNLESLIATNNQISDITPLGILTNLDELS 223
Query: 393 L-------------FKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIH 439
L NL LDL+NN I L P L+ L L+L N+ +S I
Sbjct: 224 LNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQ----ISNIS 277
Query: 440 -FVNLTKLSVFLVGENTLTLKVRRDWIPPF----QLIELGLRSCNVGSRFPLWLYSQKDL 494
LT L+ + EN L + I P L L L N+ P + S L
Sbjct: 278 PLAGLTALTNLELNENQL------EDISPISNLKNLTYLTLYFNNISDISP--VSSLTKL 329
Query: 495 QFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHG--ELTNLTKASQL 542
Q L N+ +S L + + + L GHNQI L NLT+ +QL
Sbjct: 330 QRLFFSNNKVSDVSS---LANLTNINWLSAGHNQISDLTPLANLTRITQL 376
Score = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 49/181 (27%), Positives = 77/181 (42%), Gaps = 33/181 (18%)
Query: 146 MGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLH----LVNFGWLSGLSF----- 196
+ NL +N S ++ + P L NL+ L ++++ N + L N L+GL+
Sbjct: 62 LNNLTQINFSNNQLTDITP--LKNLTKLVDILMNNNQIADITPLANLTNLTGLTLFNNQI 119
Query: 197 -----------LEHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFS 245
L L+ S +S S L SL +L S+ Q+ PL AN +
Sbjct: 120 TDIDPLKNLTNLNRLELSSNTISDIS----ALSGLTSLQQLSFSSNQVTDLKPL--ANLT 173
Query: 246 TLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNH 305
TL LD+S N+ + V + + L L+ N N P G+ LT+L L L+ N
Sbjct: 174 TLERLDISSNKVSDISVLAKLTNLESLIATN---NQISDITPLGI--LTNLDELSLNGNQ 228
Query: 306 F 306
Sbjct: 229 L 229
Score = 33.5 bits (75), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 68/233 (29%), Positives = 98/233 (42%), Gaps = 46/233 (19%)
Query: 469 QLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQ 528
+L+++ + + + PL + +L L LFN+ I+ P LK+ + L L+L N
Sbjct: 86 KLVDILMNNNQIADITPL--ANLTNLTGLTLFNNQITDIDP---LKNLTNLNRLELSSNT 140
Query: 529 IH--GELTNLTKASQLSFLRLMANNLSGPLPLIS-SNLIGLDLSGNSFSG-------SIF 578
I L+ LT QLSF +N ++ PL + + L LD+S N S +
Sbjct: 141 ISDISALSGLTSLQQLSF---SSNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNL 197
Query: 579 HFLCYTINAGMKLQFL----FLDRNILQGN-LPD--CWMSYQNLMMLDLSNNKFIGNLPT 631
L T N + L LD L GN L D S NL LDL+NN+ P
Sbjct: 198 ESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPL 257
Query: 632 S--------------------FGSLSSLVSLHLRKNRLSGTMPIS-LKNCTSL 663
S L++L +L L +N+L PIS LKN T L
Sbjct: 258 SGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYL 310
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 39.7 bits (91), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 30/91 (32%), Positives = 44/91 (48%), Gaps = 1/91 (1%)
Query: 594 LFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTM 653
L L RN L G P+ + ++ L L NK F L L +L+L N++S M
Sbjct: 59 LELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVM 118
Query: 654 PISLKNCTSLMTLDVGENEFFGNIP-SWFGE 683
P S ++ SL +L++ N F N +WF E
Sbjct: 119 PGSFEHLNSLTSLNLASNPFNCNCHLAWFAE 149
Score = 38.9 bits (89), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 52/118 (44%), Gaps = 29/118 (24%)
Query: 633 FGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTLDVGENEFFGNIPSWFGEMFSIMVFLI 692
FG L LV L L++N+L+G P + + + + L +GEN+ + S +FL
Sbjct: 50 FGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKI---------KEISNKMFLG 100
Query: 693 LRSNYFHGLLPTKLCDLAFLQILDLADNNLSGTLPNCIHNLTAMATV----NPFTGNA 746
L L+ L+L DN +S +P +L ++ ++ NPF N
Sbjct: 101 LHQ----------------LKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFNCNC 142
Score = 34.7 bits (78), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 37/88 (42%), Gaps = 1/88 (1%)
Query: 220 LPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGY 279
LP LV+L+L QL P S + L L N+ GL L LNL
Sbjct: 53 LPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKI-KEISNKMFLGLHQLKTLNLYD 111
Query: 280 NNFHGPIPEGLQSLTSLKHLDLSFNHFN 307
N +P + L SL L+L+ N FN
Sbjct: 112 NQISCVMPGSFEHLNSLTSLNLASNPFN 139
Score = 30.8 bits (68), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 19/66 (28%), Positives = 34/66 (51%), Gaps = 1/66 (1%)
Query: 392 GLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLV 451
G +L L+L N + G+ P +F S ++ LQL NK+ +S F+ L +L +
Sbjct: 51 GRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIK-EISNKMFLGLHQLKTLNL 109
Query: 452 GENTLT 457
+N ++
Sbjct: 110 YDNQIS 115
Score = 29.6 bits (65), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 45/98 (45%), Gaps = 2/98 (2%)
Query: 168 GNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNLSKASDWLLVTHMLPSLVELD 227
G L L L L RN L + G S ++ L + + S+ + + L L L+
Sbjct: 51 GRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLG--LHQLKTLN 108
Query: 228 LSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSW 265
L + Q+ P + ++LT+L+L+ N F+ + +W
Sbjct: 109 LYDNQISCVMPGSFEHLNSLTSLNLASNPFNCNCHLAW 146
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 39.7 bits (91), Expect = 0.009, Method: Composition-based stats.
Identities = 47/168 (27%), Positives = 72/168 (42%), Gaps = 13/168 (7%)
Query: 559 ISSNLIGLDLSGNSFSG---SIFHFLCYTINAGMKLQFLFLDRNILQGNLPDCWMSYQNL 615
I ++ LDL N S FH L KL+ L+L+ N LQ + +NL
Sbjct: 35 IPADTKKLDLQSNKLSSLPSKAFHRL-------TKLRLLYLNDNKLQTLPAGIFKELKNL 87
Query: 616 MMLDLSNNKFIGNLPTS-FGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTLDVGENEFF 674
L +++NK + LP F L +L L L +N+L P + T L L +G NE
Sbjct: 88 ETLWVTDNK-LQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNE-L 145
Query: 675 GNIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLADNNL 722
++P + + + L L +N + L L+ L L +N L
Sbjct: 146 QSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQL 193
Score = 37.7 bits (86), Expect = 0.029, Method: Composition-based stats.
Identities = 43/155 (27%), Positives = 65/155 (41%), Gaps = 29/155 (18%)
Query: 400 LDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGENTLTLK 459
LDL +N + L ++F RL+ LR+L L NKL TL F L L V +N L
Sbjct: 42 LDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQ-TLPAGIFKELKNLETLWVTDNKL--- 97
Query: 460 VRRDWIPPFQLIELGLRSCNVGSRFPLWLYSQ-KDLQFLDLFNSGISGTFPNRLLKSASQ 518
P+ ++ Q +L L L + + + P R+ S ++
Sbjct: 98 ----------------------QALPIGVFDQLVNLAELRLDRNQLK-SLPPRVFDSLTK 134
Query: 519 LYLLDLGHNQIHGELTNL-TKASQLSFLRLMANNL 552
L L LG+N++ + K + L LRL N L
Sbjct: 135 LTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQL 169
Score = 33.9 bits (76), Expect = 0.48, Method: Composition-based stats.
Identities = 30/89 (33%), Positives = 43/89 (48%), Gaps = 5/89 (5%)
Query: 220 LPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVF-GLSHLLFLNLG 278
L +L L +++ +L P L L L NQ + +P VF L+ L +L+LG
Sbjct: 84 LKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKS--LPPRVFDSLTKLTYLSLG 141
Query: 279 YNNFHGPIPEGL-QSLTSLKHLDLSFNHF 306
YN +P+G+ LTSLK L L N
Sbjct: 142 YNELQS-LPKGVFDKLTSLKELRLYNNQL 169
Score = 32.0 bits (71), Expect = 1.6, Method: Composition-based stats.
Identities = 22/63 (34%), Positives = 36/63 (57%), Gaps = 1/63 (1%)
Query: 394 FKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGE 453
KNL++L +++N + L F +L +L L+L RN+L + F +LTKL+ +G
Sbjct: 84 LKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRV-FDSLTKLTYLSLGY 142
Query: 454 NTL 456
N L
Sbjct: 143 NEL 145
Score = 30.0 bits (66), Expect = 6.4, Method: Composition-based stats.
Identities = 36/121 (29%), Positives = 54/121 (44%), Gaps = 5/121 (4%)
Query: 618 LDLSNNKFIGNLPT-SFGSLSSLVSLHLRKNRLSGTMPISL-KNCTSLMTLDVGENEFFG 675
LDL +NK + +LP+ +F L+ L L+L N+L T+P + K +L TL V +N+
Sbjct: 42 LDLQSNK-LSSLPSKAFHRLTKLRLLYLNDNKLQ-TLPAGIFKELKNLETLWVTDNKLQA 99
Query: 676 NIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLADNNLSGTLPNCIHNLTA 735
+P + + L L N L P L L L L N L LT+
Sbjct: 100 -LPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTS 158
Query: 736 M 736
+
Sbjct: 159 L 159
>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 = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 36/93 (38%), Positives = 50/93 (53%), Gaps = 2/93 (2%)
Query: 396 NLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGENT 455
NL SL LS+N + + ++F + +LR L L N LH TL E F +L L V L+ N
Sbjct: 65 NLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLH-TLDEFLFSDLQALEVLLLYNNH 123
Query: 456 LTLKVRRDWIPPFQLIELGLRSCNVGSRFPLWL 488
+ + R + QL +L L S N SRFP+ L
Sbjct: 124 IVVVDRNAFEDMAQLQKLYL-SQNQISRFPVEL 155
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 29/102 (28%), Positives = 51/102 (50%), Gaps = 8/102 (7%)
Query: 137 VPIPRFIGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSF 196
VP+P NL+YL+LS + + +L +L+ L+L N + +V+ ++
Sbjct: 85 VPVP-------NLRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQ 137
Query: 197 LEHLDFSYVNLSKASDWLLVT-HMLPSLVELDLSNCQLHIFP 237
L+ L S +S+ L+ + LP L+ LDLS+ +L P
Sbjct: 138 LQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKLKKLP 179
>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 = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 96/352 (27%), Positives = 144/352 (40%), Gaps = 63/352 (17%)
Query: 218 HMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNL 277
L +L +++ SN QL PL N + L + +++NQ + P + L++L L L
Sbjct: 65 EYLNNLTQINFSNNQLTDITPL--KNLTKLVDILMNNNQIAD-ITP--LANLTNLTGLTL 119
Query: 278 GYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXXXXXXXEGRIPRS 337
N P L++LT+L L+LS N + + + +
Sbjct: 120 FNNQITDIDP--LKNLTNLNRLELSSNTISD-----ISALSGLTSLQQLSFGNQVTDLKP 172
Query: 338 MARLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSSI-----FGHLT--DQ 390
+A L L+RL +S K++ DI LESL+ N+ I G LT D+
Sbjct: 173 LANLTTLERLDISSNKVS-------DISVLAKLTNLESLIATNNQISDITPLGILTNLDE 225
Query: 391 IGL-------------FKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSE 437
+ L NL LDL+NN I L P L+ L L+L N+ +S
Sbjct: 226 LSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQ----ISN 279
Query: 438 IH-FVNLTKLSVFLVGENTLTLKVRRDWIPPF----QLIELGLRSCNVGSRFPLWLYSQK 492
I LT L+ + EN L + I P L L L N+ P + S
Sbjct: 280 ISPLAGLTALTNLELNENQL------EDISPISNLKNLTYLTLYFNNISDISP--VSSLT 331
Query: 493 DLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHG--ELTNLTKASQL 542
LQ L +N+ +S L + + + L GHNQI L NLT+ +QL
Sbjct: 332 KLQRLFFYNNKVSDVSS---LANLTNINWLSAGHNQISDLTPLANLTRITQL 380
Score = 32.7 bits (73), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 68/233 (29%), Positives = 97/233 (41%), Gaps = 47/233 (20%)
Query: 469 QLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQ 528
+L+++ + + + PL + +L L LFN+ I+ P LK+ + L L+L N
Sbjct: 91 KLVDILMNNNQIADITPL--ANLTNLTGLTLFNNQITDIDP---LKNLTNLNRLELSSNT 145
Query: 529 IH--GELTNLTKASQLSFLRLMANNLSGPLPLIS-SNLIGLDLSGNSFSG-------SIF 578
I L+ LT QLSF N ++ PL + + L LD+S N S +
Sbjct: 146 ISDISALSGLTSLQQLSF----GNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNL 201
Query: 579 HFLCYTINAGMKLQFL----FLDRNILQGN-LPD--CWMSYQNLMMLDLSNNKFIGNLPT 631
L T N + L LD L GN L D S NL LDL+NN+ P
Sbjct: 202 ESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPL 261
Query: 632 S--------------------FGSLSSLVSLHLRKNRLSGTMPIS-LKNCTSL 663
S L++L +L L +N+L PIS LKN T L
Sbjct: 262 SGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYL 314
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 43/164 (26%), Positives = 69/164 (42%), Gaps = 38/164 (23%)
Query: 143 IGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDF 202
+ ++ NL L L ++ + P L NL++L L LS N + + LSGL+ L+ L F
Sbjct: 108 LANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTIS--DISALSGLTSLQQLSF 163
Query: 203 SYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFV 262
++ +D P+AN +TL LD+S N+ + V
Sbjct: 164 G----NQVTDLK-------------------------PLANLTTLERLDISSNKVSDISV 194
Query: 263 PSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHF 306
+ + L L+ N N P G+ LT+L L L+ N
Sbjct: 195 LAKLTNLESLIATN---NQISDITPLGI--LTNLDELSLNGNQL 233
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 39.3 bits (90), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 41/138 (29%), Positives = 60/138 (43%), Gaps = 8/138 (5%)
Query: 143 IGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDF 202
+ + NL YL L+G++ + L++L+ LVL N L + G L+ L +L
Sbjct: 81 LKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLYL 140
Query: 203 SYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFV 262
+ L V L +L LDL N QL P + L L L+ NQ + V
Sbjct: 141 YHNQLQSLPKG--VFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQLSLNDNQLKS--V 196
Query: 263 PSWVF----GLSHLLFLN 276
P VF L+H+ LN
Sbjct: 197 PDGVFDRLTSLTHIWLLN 214
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 50/184 (27%), Positives = 72/184 (39%), Gaps = 42/184 (22%)
Query: 269 LSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXXXXX 328
L ++ +L LG N H L+ LT+L +L L+ N S+PN +
Sbjct: 62 LPNVRYLALGGNKLHDI--SALKELTNLTYLILTGNQL-QSLPNGV-------------- 104
Query: 329 XXEGRIPRSMARLCNLKRLYLSGAKLNQEISEILDIFSGCV-----PNGLESLVLPNSSI 383
+L NLK L L +L + D + N L+SL +
Sbjct: 105 ---------FDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLYLYHNQLQSLP---KGV 152
Query: 384 FGHLTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNL 443
F LT NL LDL NN + L F +L+ L+ L L N+L + F L
Sbjct: 153 FDKLT-------NLTRLDLDNNQLQSLPEGVFDKLTQLKQLSLNDNQLKSVPDGV-FDRL 204
Query: 444 TKLS 447
T L+
Sbjct: 205 TSLT 208
Score = 29.6 bits (65), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 42/137 (30%), Positives = 62/137 (45%), Gaps = 16/137 (11%)
Query: 522 LDLGHNQIHGELTNLTKASQLSFLRLMANNLSG-PLPLIS--SNLIGLDLSGN---SFSG 575
L LG N++H +++ L + + L++L L N L P + +NL L L N S
Sbjct: 68 LALGGNKLH-DISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPD 126
Query: 576 SIFHFLCYTINAGMKLQFLFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLPTS-FG 634
+F L L +L+L N LQ + NL LDL NN+ + +LP F
Sbjct: 127 GVFDKLT-------NLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQ-LQSLPEGVFD 178
Query: 635 SLSSLVSLHLRKNRLSG 651
L+ L L L N+L
Sbjct: 179 KLTQLKQLSLNDNQLKS 195
>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 = 38.5 bits (88), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 45/132 (34%), Positives = 65/132 (49%), Gaps = 5/132 (3%)
Query: 368 CVPNGLESLVLPNSSIFGHLTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLY 427
CV L++LVL ++ I D +L+ LDLS N + L F LSSL L L
Sbjct: 75 CV--NLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLL 132
Query: 428 RNKLHGTLSEIH-FVNLTKLSVFLVGE-NTLTLKVRRDWIPPFQLIELGLRSCNVGSRFP 485
N + TL E F +LTKL + VG +T T R+D+ L EL + + ++ S P
Sbjct: 133 GNP-YKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEP 191
Query: 486 LWLYSQKDLQFL 497
L S +++ L
Sbjct: 192 KSLKSIQNVSHL 203
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 44/162 (27%), Positives = 68/162 (41%), Gaps = 23/162 (14%)
Query: 149 LKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNLS 208
+K L+LS +R + L +LQ LVL+ N ++ + S L LEHLD SY LS
Sbjct: 54 VKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLS 113
Query: 209 K-ASDWL----------LVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQF 257
+S W L+ + +L E L + L L V N T T +
Sbjct: 114 NLSSSWFKPLSSLTFLNLLGNPYKTLGETSLFS-HLTKLQILRVGNMDTFTKIQRKD--- 169
Query: 258 DNSFVPSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHL 299
GL+ L L + ++ P+ L+S+ ++ HL
Sbjct: 170 --------FAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHL 203
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 33/97 (34%), Positives = 51/97 (52%), Gaps = 6/97 (6%)
Query: 797 TLPIGLTNLKALQSLNLSYNIFTGRIPETIGAMRSLESIDFSVNKFTGEIPQSMSSLTFL 856
++P GLT +A++SL+LS N T + +L+++ + N S SSL L
Sbjct: 45 SIPSGLT--EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSL 102
Query: 857 NHLNLSNNYLTGKIPSSTQLQSFNASCFLGNNLCGAP 893
HL+LS NYL+ SS+ + ++ FL NL G P
Sbjct: 103 EHLDLSYNYLSN--LSSSWFKPLSSLTFL--NLLGNP 135
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 38.5 bits (88), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 37/76 (48%)
Query: 591 LQFLFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLS 650
LQ+L+L N LQ D + NL L L N+ +F L SL L L +NR++
Sbjct: 130 LQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVA 189
Query: 651 GTMPISLKNCTSLMTL 666
P + ++ LMTL
Sbjct: 190 HVHPHAFRDLGRLMTL 205
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 38.5 bits (88), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 45/132 (34%), Positives = 65/132 (49%), Gaps = 5/132 (3%)
Query: 368 CVPNGLESLVLPNSSIFGHLTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLY 427
CV L++LVL ++ I D +L+ LDLS N + L F LSSL L L
Sbjct: 49 CV--NLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLL 106
Query: 428 RNKLHGTLSEIH-FVNLTKLSVFLVGE-NTLTLKVRRDWIPPFQLIELGLRSCNVGSRFP 485
N + TL E F +LTKL + VG +T T R+D+ L EL + + ++ S P
Sbjct: 107 GNP-YKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEP 165
Query: 486 LWLYSQKDLQFL 497
L S +++ L
Sbjct: 166 KSLKSIQNVSHL 177
Score = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 46/160 (28%), Positives = 70/160 (43%), Gaps = 9/160 (5%)
Query: 144 GSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFS 203
G +K L+LS +R + L +LQ LVL+ N ++ + S L LEHLD S
Sbjct: 23 GLTEAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLS 82
Query: 204 YVNLSK-ASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFV 262
Y LS +S W L SL L+L + FS LT L + ++F
Sbjct: 83 YNYLSNLSSSWF---KPLSSLTFLNLLGNPYKTLGETSL--FSHLTKLQILRVGNMDTFT 137
Query: 263 P---SWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHL 299
GL+ L L + ++ P+ L+S+ ++ HL
Sbjct: 138 KIQRKDFAGLTFLEELEIDASDLQSYEPKSLKSIQNVSHL 177
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 33/97 (34%), Positives = 51/97 (52%), Gaps = 6/97 (6%)
Query: 797 TLPIGLTNLKALQSLNLSYNIFTGRIPETIGAMRSLESIDFSVNKFTGEIPQSMSSLTFL 856
++P GLT +A++SL+LS N T + +L+++ + N S SSL L
Sbjct: 19 SIPSGLT--EAVKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSL 76
Query: 857 NHLNLSNNYLTGKIPSSTQLQSFNASCFLGNNLCGAP 893
HL+LS NYL+ SS+ + ++ FL NL G P
Sbjct: 77 EHLDLSYNYLSN--LSSSWFKPLSSLTFL--NLLGNP 109
>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 = 38.5 bits (88), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 26/76 (34%), Positives = 37/76 (48%)
Query: 591 LQFLFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLS 650
LQ+L+L N LQ D + NL L L N+ +F L SL L L +NR++
Sbjct: 131 LQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVA 190
Query: 651 GTMPISLKNCTSLMTL 666
P + ++ LMTL
Sbjct: 191 HVHPHAFRDLGRLMTL 206
>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 = 38.1 bits (87), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 99/333 (29%), Positives = 138/333 (41%), Gaps = 73/333 (21%)
Query: 220 LPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGY 279
L +L L L N Q+ PL N + L L+LS N + S + GL+ L LN G
Sbjct: 106 LTNLTGLTLFNNQITDIDPL--KNLTNLNRLELSSNTISD---ISALSGLTSLQQLNFG- 159
Query: 280 NNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXXXXXXXEGRIPRSMA 339
N P L +LT+L+ LD+S N S I +A
Sbjct: 160 NQVTDLKP--LANLTTLERLDISSNKV-SDI-------------------------SVLA 191
Query: 340 RLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSSIFGHLTDQIGLFK---N 396
+L NL+ L + N +IS+I + G + N L+ L S+ G+ IG N
Sbjct: 192 KLTNLESLIAT----NNQISDITPL--GILTN-LDEL-----SLNGNQLKDIGTLASLTN 239
Query: 397 LDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIH-FVNLTKLSVFLVGENT 455
L LDL+NN I L P L+ L L+L N+ +S I LT L+ + EN
Sbjct: 240 LTDLDLANNQISNLAP--LSGLTKLTELKLGANQ----ISNISPLAGLTALTNLELNENQ 293
Query: 456 LTLKVRRDWIPPF----QLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGTFPNR 511
L + I P L L L N+ P + S LQ L N+ +S
Sbjct: 294 L------EDISPISNLKNLTYLTLYFNNISDISP--VSSLTKLQRLFFSNNKVSDVSS-- 343
Query: 512 LLKSASQLYLLDLGHNQIHG--ELTNLTKASQL 542
L + + + L GHNQI L NLT+ +QL
Sbjct: 344 -LANLTNINWLSAGHNQISDLTPLANLTRITQL 375
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 42/164 (25%), Positives = 67/164 (40%), Gaps = 38/164 (23%)
Query: 143 IGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDF 202
+ ++ NL L L ++ + P L NL++L L LS N + + LSGL+ L+ L+F
Sbjct: 103 LANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTIS--DISALSGLTSLQQLNF 158
Query: 203 SYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFV 262
+ P+AN +TL LD+S N+ + V
Sbjct: 159 GN-----------------------------QVTDLKPLANLTTLERLDISSNKVSDISV 189
Query: 263 PSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHF 306
+ + L L+ N N P G+ LT+L L L+ N
Sbjct: 190 LAKLTNLESLIATN---NQISDITPLGI--LTNLDELSLNGNQL 228
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 67/233 (28%), Positives = 97/233 (41%), Gaps = 47/233 (20%)
Query: 469 QLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQ 528
+L+++ + + + PL + +L L LFN+ I+ P LK+ + L L+L N
Sbjct: 86 KLVDILMNNNQIADITPL--ANLTNLTGLTLFNNQITDIDP---LKNLTNLNRLELSSNT 140
Query: 529 IH--GELTNLTKASQLSFLRLMANNLSGPLPLIS-SNLIGLDLSGNSFSG-------SIF 578
I L+ LT QL+F N ++ PL + + L LD+S N S +
Sbjct: 141 ISDISALSGLTSLQQLNF----GNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNL 196
Query: 579 HFLCYTINAGMKLQFL----FLDRNILQGN-LPD--CWMSYQNLMMLDLSNNKFIGNLPT 631
L T N + L LD L GN L D S NL LDL+NN+ P
Sbjct: 197 ESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPL 256
Query: 632 S--------------------FGSLSSLVSLHLRKNRLSGTMPIS-LKNCTSL 663
S L++L +L L +N+L PIS LKN T L
Sbjct: 257 SGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYL 309
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 37.4 bits (85), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 35/91 (38%), Positives = 45/91 (49%), Gaps = 5/91 (5%)
Query: 223 LVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFG-LSHLLFLNLGYNN 281
L EL L + QL P + + LT LDL NQ + +PS VF L HL L + N
Sbjct: 66 LKELYLGSNQLGALPVGVFDSLTQLTVLDLGTNQL--TVLPSAVFDRLVHLKELFMCCNK 123
Query: 282 FHGPIPEGLQSLTSLKHLDLSFNHFNSSIPN 312
+P G++ LT L HL L N SIP+
Sbjct: 124 L-TELPRGIERLTHLTHLALDQNQLK-SIPH 152
Score = 33.1 bits (74), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 30/95 (31%), Positives = 42/95 (44%), Gaps = 5/95 (5%)
Query: 796 GTLPIGL-TNLKALQSLNLSYNIFTGRIPETIGAMRSLESIDFSVNKFTGEIPQSMSSLT 854
G LP+G+ +L L L+L N T + L+ + NK T E+P+ + LT
Sbjct: 77 GALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCCNKLT-ELPRGIERLT 135
Query: 855 FLNHLNLSNNYLTGKIPSST--QLQSFNASCFLGN 887
L HL L N L IP +L S + GN
Sbjct: 136 HLTHLALDQNQLKS-IPHGAFDRLSSLTHAYLFGN 169
>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 = 37.4 bits (85), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 36/133 (27%), Positives = 64/133 (48%), Gaps = 27/133 (20%)
Query: 712 LQILDLADNNLSGTLPNCIHNLTAMATVNPFTGNAIKYSIPLNSTYALGSVTEQALVVMK 771
LQ+LDL+ + +L+ ++T+ TGN I+ + ALG+
Sbjct: 54 LQVLDLSRCEIQTIEDGAYQSLSHLSTLI-LTGNPIQ-------SLALGA---------- 95
Query: 772 GVAADYSEILNLVRIIDVSKNFFS-GTLPIGLTNLKALQSLNLSYNIFTG-RIPETIGAM 829
+S + +L +++ V N S PIG +LK L+ LN+++N+ ++PE +
Sbjct: 96 -----FSGLSSLQKLVAVETNLASLENFPIG--HLKTLKELNVAHNLIQSFKLPEYFSNL 148
Query: 830 RSLESIDFSVNKF 842
+LE +D S NK
Sbjct: 149 TNLEHLDLSSNKI 161
Score = 33.1 bits (74), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 50/197 (25%), Positives = 83/197 (42%), Gaps = 31/197 (15%)
Query: 145 SMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSY 204
S L+ L+LS + +LS L L+L+ N + + G SGLS L+ L
Sbjct: 50 SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVE 109
Query: 205 VNLSKASDWLLVTHMLPSLVELDLSNCQLHIFP-PLPVANFSTLTTLDLSHNQFDN---- 259
NL+ ++ + H L +L EL++++ + F P +N + L LDLS N+ +
Sbjct: 110 TNLASLENF-PIGH-LKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCT 167
Query: 260 ----------------------SFVPSWVFGLSHLLFLNLGYNNFHGPIPEGL-QSLTSL 296
+F+ F L L L N +P+G+ LTSL
Sbjct: 168 DLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKS-VPDGIFDRLTSL 226
Query: 297 KHLDLSFNHFNSSIPNL 313
+ + L N ++ S P +
Sbjct: 227 QKIWLHTNPWDCSCPRI 243
>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 = 37.4 bits (85), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 36/133 (27%), Positives = 64/133 (48%), Gaps = 27/133 (20%)
Query: 712 LQILDLADNNLSGTLPNCIHNLTAMATVNPFTGNAIKYSIPLNSTYALGSVTEQALVVMK 771
LQ+LDL+ + +L+ ++T+ TGN I+ + ALG+
Sbjct: 56 LQVLDLSRCEIQTIEDGAYQSLSHLSTLI-LTGNPIQ-------SLALGA---------- 97
Query: 772 GVAADYSEILNLVRIIDVSKNFFS-GTLPIGLTNLKALQSLNLSYNIFTG-RIPETIGAM 829
+S + +L +++ V N S PIG +LK L+ LN+++N+ ++PE +
Sbjct: 98 -----FSGLSSLQKLVAVETNLASLENFPIG--HLKTLKELNVAHNLIQSFKLPEYFSNL 150
Query: 830 RSLESIDFSVNKF 842
+LE +D S NK
Sbjct: 151 TNLEHLDLSSNKI 163
Score = 33.1 bits (74), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 50/197 (25%), Positives = 83/197 (42%), Gaps = 31/197 (15%)
Query: 145 SMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSY 204
S L+ L+LS + +LS L L+L+ N + + G SGLS L+ L
Sbjct: 52 SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVE 111
Query: 205 VNLSKASDWLLVTHMLPSLVELDLSNCQLHIFP-PLPVANFSTLTTLDLSHNQFDN---- 259
NL+ ++ + H L +L EL++++ + F P +N + L LDLS N+ +
Sbjct: 112 TNLASLENF-PIGH-LKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCT 169
Query: 260 ----------------------SFVPSWVFGLSHLLFLNLGYNNFHGPIPEGL-QSLTSL 296
+F+ F L L L N +P+G+ LTSL
Sbjct: 170 DLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKS-VPDGIFDRLTSL 228
Query: 297 KHLDLSFNHFNSSIPNL 313
+ + L N ++ S P +
Sbjct: 229 QKIWLHTNPWDCSCPRI 245
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 37.4 bits (85), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 36/133 (27%), Positives = 64/133 (48%), Gaps = 27/133 (20%)
Query: 712 LQILDLADNNLSGTLPNCIHNLTAMATVNPFTGNAIKYSIPLNSTYALGSVTEQALVVMK 771
LQ+LDL+ + +L+ ++T+ TGN I+ + ALG+
Sbjct: 55 LQVLDLSRCEIQTIEDGAYQSLSHLSTLI-LTGNPIQ-------SLALGA---------- 96
Query: 772 GVAADYSEILNLVRIIDVSKNFFS-GTLPIGLTNLKALQSLNLSYNIFTG-RIPETIGAM 829
+S + +L +++ V N S PIG +LK L+ LN+++N+ ++PE +
Sbjct: 97 -----FSGLSSLQKLVAVETNLASLENFPIG--HLKTLKELNVAHNLIQSFKLPEYFSNL 149
Query: 830 RSLESIDFSVNKF 842
+LE +D S NK
Sbjct: 150 TNLEHLDLSSNKI 162
Score = 33.1 bits (74), Expect = 0.85, Method: Compositional matrix adjust.
Identities = 50/197 (25%), Positives = 83/197 (42%), Gaps = 31/197 (15%)
Query: 145 SMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSY 204
S L+ L+LS + +LS L L+L+ N + + G SGLS L+ L
Sbjct: 51 SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVE 110
Query: 205 VNLSKASDWLLVTHMLPSLVELDLSNCQLHIFP-PLPVANFSTLTTLDLSHNQFDN---- 259
NL+ ++ + H L +L EL++++ + F P +N + L LDLS N+ +
Sbjct: 111 TNLASLENF-PIGH-LKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCT 168
Query: 260 ----------------------SFVPSWVFGLSHLLFLNLGYNNFHGPIPEGL-QSLTSL 296
+F+ F L L L N +P+G+ LTSL
Sbjct: 169 DLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKS-VPDGIFDRLTSL 227
Query: 297 KHLDLSFNHFNSSIPNL 313
+ + L N ++ S P +
Sbjct: 228 QKIWLHTNPWDCSCPRI 244
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 37.4 bits (85), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 96/352 (27%), Positives = 143/352 (40%), Gaps = 63/352 (17%)
Query: 218 HMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNL 277
L +L +++ SN QL PL N + L + +++NQ + P + L++L L L
Sbjct: 64 EYLNNLTQINFSNNQLTDITPL--KNLTKLVDILMNNNQIAD-ITP--LANLTNLTGLTL 118
Query: 278 GYNNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXXXXXXXEGRIPRS 337
N P L++LT+L L+LS N + + + +
Sbjct: 119 FNNQITDIDP--LKNLTNLNRLELSSNTISD-----ISALSGLTSLQQLSFGNQVTDLKP 171
Query: 338 MARLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSSI-----FGHLT--DQ 390
+A L L+RL +S K++ DI LESL+ N+ I G LT D+
Sbjct: 172 LANLTTLERLDISSNKVS-------DISVLAKLTNLESLIATNNQISDITPLGILTNLDE 224
Query: 391 IGL-------------FKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSE 437
+ L NL LDL+NN I L P L+ L L+L N+ +S
Sbjct: 225 LSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQ----ISN 278
Query: 438 IH-FVNLTKLSVFLVGENTLTLKVRRDWIPPF----QLIELGLRSCNVGSRFPLWLYSQK 492
I LT L+ + EN L + I P L L L N+ P + S
Sbjct: 279 ISPLAGLTALTNLELNENQL------EDISPISNLKNLTYLTLYFNNISDISP--VSSLT 330
Query: 493 DLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHG--ELTNLTKASQL 542
LQ L N+ +S L + + + L GHNQI L NLT+ +QL
Sbjct: 331 KLQRLFFANNKVSDVSS---LANLTNINWLSAGHNQISDLTPLANLTRITQL 379
Score = 32.7 bits (73), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 68/233 (29%), Positives = 97/233 (41%), Gaps = 47/233 (20%)
Query: 469 QLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQ 528
+L+++ + + + PL + +L L LFN+ I+ P LK+ + L L+L N
Sbjct: 90 KLVDILMNNNQIADITPL--ANLTNLTGLTLFNNQITDIDP---LKNLTNLNRLELSSNT 144
Query: 529 IH--GELTNLTKASQLSFLRLMANNLSGPLPLIS-SNLIGLDLSGNSFSG-------SIF 578
I L+ LT QLSF N ++ PL + + L LD+S N S +
Sbjct: 145 ISDISALSGLTSLQQLSF----GNQVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNL 200
Query: 579 HFLCYTINAGMKLQFL----FLDRNILQGN-LPD--CWMSYQNLMMLDLSNNKFIGNLPT 631
L T N + L LD L GN L D S NL LDL+NN+ P
Sbjct: 201 ESLIATNNQISDITPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAPL 260
Query: 632 S--------------------FGSLSSLVSLHLRKNRLSGTMPIS-LKNCTSL 663
S L++L +L L +N+L PIS LKN T L
Sbjct: 261 SGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPISNLKNLTYL 313
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 43/164 (26%), Positives = 69/164 (42%), Gaps = 38/164 (23%)
Query: 143 IGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDF 202
+ ++ NL L L ++ + P L NL++L L LS N + + LSGL+ L+ L F
Sbjct: 107 LANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTIS--DISALSGLTSLQQLSF 162
Query: 203 SYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFV 262
++ +D P+AN +TL LD+S N+ + V
Sbjct: 163 G----NQVTDLK-------------------------PLANLTTLERLDISSNKVSDISV 193
Query: 263 PSWVFGLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHF 306
+ + L L+ N N P G+ LT+L L L+ N
Sbjct: 194 LAKLTNLESLIATN---NQISDITPLGI--LTNLDELSLNGNQL 232
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 37.4 bits (85), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 36/133 (27%), Positives = 64/133 (48%), Gaps = 27/133 (20%)
Query: 712 LQILDLADNNLSGTLPNCIHNLTAMATVNPFTGNAIKYSIPLNSTYALGSVTEQALVVMK 771
LQ+LDL+ + +L+ ++T+ TGN I+ + ALG+
Sbjct: 55 LQVLDLSRCEIQTIEDGAYQSLSHLSTLI-LTGNPIQ-------SLALGA---------- 96
Query: 772 GVAADYSEILNLVRIIDVSKNFFS-GTLPIGLTNLKALQSLNLSYNIFTG-RIPETIGAM 829
+S + +L +++ V N S PIG +LK L+ LN+++N+ ++PE +
Sbjct: 97 -----FSGLSSLQKLVAVETNLASLENFPIG--HLKTLKELNVAHNLIQSFKLPEYFSNL 149
Query: 830 RSLESIDFSVNKF 842
+LE +D S NK
Sbjct: 150 TNLEHLDLSSNKI 162
Score = 33.1 bits (74), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 50/197 (25%), Positives = 83/197 (42%), Gaps = 31/197 (15%)
Query: 145 SMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSY 204
S L+ L+LS + +LS L L+L+ N + + G SGLS L+ L
Sbjct: 51 SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVAVE 110
Query: 205 VNLSKASDWLLVTHMLPSLVELDLSNCQLHIFP-PLPVANFSTLTTLDLSHNQFDN---- 259
NL+ ++ + H L +L EL++++ + F P +N + L LDLS N+ +
Sbjct: 111 TNLASLENF-PIGH-LKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCT 168
Query: 260 ----------------------SFVPSWVFGLSHLLFLNLGYNNFHGPIPEGL-QSLTSL 296
+F+ F L L L N +P+G+ LTSL
Sbjct: 169 DLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKS-VPDGIFDRLTSL 227
Query: 297 KHLDLSFNHFNSSIPNL 313
+ + L N ++ S P +
Sbjct: 228 QKIWLHTNPWDCSCPRI 244
>pdb|3V44|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Zebrafish
Tlr5
Length = 407
Score = 37.0 bits (84), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 75/308 (24%), Positives = 122/308 (39%), Gaps = 43/308 (13%)
Query: 400 LDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGENTLTLK 459
+DLS NSI L SF RL L+ L++ + + F L+ L + + N L+
Sbjct: 35 VDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIILKLDYNQF-LQ 93
Query: 460 VRRDWIPPFQLIE-LGLRSCNV------GSRF-PLWLYSQKDLQFLDLFNSGISGTFPNR 511
+ +E L L CN+ G+ F PL L+ L L ++ I P
Sbjct: 94 LETGAFNGLANLEVLTLTQCNLDGAVLSGNFFKPL-----TSLEMLVLRDNNIKKIQPAS 148
Query: 512 LLKSASQLYLLDLGHNQIHG----ELTNLTKASQLSFLRLMANNLSG-----------PL 556
+ + ++LDL N++ +L N + + LRL + L
Sbjct: 149 FFLNMRRFHVLDLTFNKVKSICEEDLLNF-QGKHFTLLRLSSITLQDMNEYWLGWEKCGN 207
Query: 557 PLISSNLIGLDLSGNSFSGSIFHFLCYTINAGMKLQFLFLDRNILQGNL--------PDC 608
P ++++ LDLSGN F S+ I AG K+Q L L + G+ PD
Sbjct: 208 PFKNTSITTLDLSGNGFKESMAKRFFDAI-AGTKIQSLILSNSYNMGSSFGHTNFKDPDN 266
Query: 609 W----MSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLM 664
+ + + DLS +K L + F + L L L +N ++ + T L
Sbjct: 267 FTFKGLEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLK 326
Query: 665 TLDVGENE 672
L + N+
Sbjct: 327 ELALDTNQ 334
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 46/92 (50%), Gaps = 11/92 (11%)
Query: 227 DLSNCQLHIFPPLPVANFSTLTTLDLSHNQF----DNSFVPSWVFGLSHLLFLNLGYNNF 282
DLS ++ ++F+ L L L+ N+ DN+F +GL+HL L L N
Sbjct: 281 DLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAF-----WGLTHLKELALDTNQL 335
Query: 283 HGPIPEGL-QSLTSLKHLDLSFNHFNSSIPNL 313
+P+G+ LTSL+ + L N ++ S P +
Sbjct: 336 KS-VPDGIFDRLTSLQKIWLHTNPWDCSCPRI 366
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 37.0 bits (84), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 39/138 (28%), Positives = 62/138 (44%), Gaps = 24/138 (17%)
Query: 143 IGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDF 202
I + ++K L+L+ ++ + P L LS+LQ L L N + N L+GL+ L++L
Sbjct: 103 IAGLQSIKTLDLTSTQITDVTP--LAGLSNLQVLYLDLN--QITNISPLAGLTNLQYLSI 158
Query: 203 SYVNLS--------------KASDWLLVT----HMLPSLVELDLSNCQLHIFPPLPVANF 244
+S KA D + LP+L+E+ L N Q+ PL AN
Sbjct: 159 GNAQVSDLTPLANLSKLTTLKADDNKISDISPLASLPNLIEVHLKNNQISDVSPL--ANT 216
Query: 245 STLTTLDLSHNQFDNSFV 262
S L + L++ N V
Sbjct: 217 SNLFIVTLTNQTITNQPV 234
Score = 34.7 bits (78), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 45/180 (25%), Positives = 70/180 (38%), Gaps = 25/180 (13%)
Query: 99 PDQYEANPRSMLVGKVNPXXXXXXXXXXXXXXFNDF-QGVPIPRFIGSMGNLKYLNLSGS 157
PD AN + GK N + F GV + + NL L L +
Sbjct: 14 PDPALANAIKIAAGKSNVTDTVTQADLDGITTLSAFGTGVTTIEGVQYLNNLIGLELKDN 73
Query: 158 RFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNLSKAS------ 211
+ + P L NL+ + L LS N L N ++GL ++ LD + ++ +
Sbjct: 74 QITDLAP--LKNLTKITELELSGNPLK--NVSAIAGLQSIKTLDLTSTQITDVTPLAGLS 129
Query: 212 -------DWLLVTHMLP-----SLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDN 259
D +T++ P +L L + N Q+ PL AN S LTTL N+ +
Sbjct: 130 NLQVLYLDLNQITNISPLAGLTNLQYLSIGNAQVSDLTPL--ANLSKLTTLKADDNKISD 187
>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 = 36.6 bits (83), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 39/128 (30%), Positives = 59/128 (46%), Gaps = 1/128 (0%)
Query: 373 LESLVLPNSSIFGHLTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLH 432
L+ L+L +S I D +L+ LDLS+N + L FG LSSL+ L L N
Sbjct: 52 LQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQ 111
Query: 433 GTLSEIHFVNLTKLSVFLVGENTLTLKVRR-DWIPPFQLIELGLRSCNVGSRFPLWLYSQ 491
F NLT L +G ++RR D+ L EL +++ ++ + L S
Sbjct: 112 TLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSI 171
Query: 492 KDLQFLDL 499
+D+ L L
Sbjct: 172 RDIHHLTL 179
Score = 33.1 bits (74), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 39/120 (32%), Positives = 61/120 (50%), Gaps = 20/120 (16%)
Query: 613 QNLMMLDLSNN----KFIGN--LPTSFGSLSSLV--SLHLRKNRLSGTMPISLKNCTSLM 664
++L LDLS N +++ N ++ SL +LV HLR + +G + ++LKN TS
Sbjct: 334 KSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTS-- 391
Query: 665 TLDVGENEF--FGNIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLADNNL 722
LD+ N F + W + M FL L S G+ K C L++LD+++NNL
Sbjct: 392 -LDISRNTFHPMPDSCQWPEK----MRFLNLSST---GIRVVKTCIPQTLEVLDVSNNNL 443
Score = 33.1 bits (74), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 43/94 (45%), Gaps = 1/94 (1%)
Query: 585 INAGMKLQFLFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHL 644
+ A LQ L L + + D + S +L LDLS+N + FG LSSL L+L
Sbjct: 46 LRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNL 105
Query: 645 RKNRLSGTMPISL-KNCTSLMTLDVGENEFFGNI 677
N SL N T+L TL +G E F I
Sbjct: 106 MGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEI 139
>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 = 36.2 bits (82), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 39/128 (30%), Positives = 59/128 (46%), Gaps = 1/128 (0%)
Query: 373 LESLVLPNSSIFGHLTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLH 432
L+ L+L +S I D +L+ LDLS+N + L FG LSSL+ L L N
Sbjct: 78 LQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQ 137
Query: 433 GTLSEIHFVNLTKLSVFLVGENTLTLKVRR-DWIPPFQLIELGLRSCNVGSRFPLWLYSQ 491
F NLT L +G ++RR D+ L EL +++ ++ + L S
Sbjct: 138 TLGVTSLFPNLTNLQTLRIGNVETFSEIRRIDFAGLTSLNELEIKALSLRNYQSQSLKSI 197
Query: 492 KDLQFLDL 499
+D+ L L
Sbjct: 198 RDIHHLTL 205
Score = 33.1 bits (74), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 39/122 (31%), Positives = 61/122 (50%), Gaps = 20/122 (16%)
Query: 613 QNLMMLDLSNN----KFIGN--LPTSFGSLSSLV--SLHLRKNRLSGTMPISLKNCTSLM 664
++L LDLS N +++ N ++ SL +LV HLR + +G + ++LKN TS
Sbjct: 360 KSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILLTLKNLTS-- 417
Query: 665 TLDVGENEF--FGNIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLADNNL 722
LD+ N F + W + M FL L S G+ K C L++LD+++NNL
Sbjct: 418 -LDISRNTFHPMPDSCQWPEK----MRFLNLSST---GIRVVKTCIPQTLEVLDVSNNNL 469
Query: 723 SG 724
Sbjct: 470 DS 471
Score = 33.1 bits (74), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 43/94 (45%), Gaps = 1/94 (1%)
Query: 585 INAGMKLQFLFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHL 644
+ A LQ L L + + D + S +L LDLS+N + FG LSSL L+L
Sbjct: 72 LRACANLQVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNL 131
Query: 645 RKNRLSGTMPISL-KNCTSLMTLDVGENEFFGNI 677
N SL N T+L TL +G E F I
Sbjct: 132 MGNPYQTLGVTSLFPNLTNLQTLRIGNVETFSEI 165
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/38 (50%), Positives = 23/38 (60%)
Query: 394 FKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKL 431
+K L +DLSNN I L P +F L SL L LY NK+
Sbjct: 55 YKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKI 92
Score = 33.5 bits (75), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 36/64 (56%), Gaps = 1/64 (1%)
Query: 594 LFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTM 653
+ L++N ++ P + Y+ L +DLSNN+ P +F L SL SL L N+++ +
Sbjct: 37 IRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKIT-EL 95
Query: 654 PISL 657
P SL
Sbjct: 96 PKSL 99
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 1/80 (1%)
Query: 771 KGVAADYSEILNLVRIIDVSKNFFSGTLPIGLTNLKALQSLNLSYNIFTGRIPETIGAMR 830
KG+ + + + I + +N P + K L+ ++LS N + P+ +R
Sbjct: 21 KGLTEIPTNLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLR 80
Query: 831 SLESIDFSVNKFTGEIPQSM 850
SL S+ NK T E+P+S+
Sbjct: 81 SLNSLVLYGNKIT-ELPKSL 99
>pdb|2V9S|A Chain A, Second Lrr Domain Of Human Slit2
pdb|2V9S|B Chain B, Second Lrr Domain Of Human Slit2
pdb|2V9S|C Chain C, Second Lrr Domain Of Human Slit2
pdb|2V9S|D Chain D, Second Lrr Domain Of Human Slit2
Length = 220
Score = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/38 (50%), Positives = 23/38 (60%)
Query: 394 FKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKL 431
+K L +DLSNN I L P +F L SL L LY NK+
Sbjct: 55 YKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKI 92
Score = 33.5 bits (75), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 22/64 (34%), Positives = 36/64 (56%), Gaps = 1/64 (1%)
Query: 594 LFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTM 653
+ L++N ++ P + Y+ L +DLSNN+ P +F L SL SL L N+++ +
Sbjct: 37 IRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVLYGNKIT-EL 95
Query: 654 PISL 657
P SL
Sbjct: 96 PKSL 99
Score = 30.8 bits (68), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 21/80 (26%), Positives = 38/80 (47%), Gaps = 1/80 (1%)
Query: 771 KGVAADYSEILNLVRIIDVSKNFFSGTLPIGLTNLKALQSLNLSYNIFTGRIPETIGAMR 830
KG+ + + + I + +N P + K L+ ++LS N + P+ +R
Sbjct: 21 KGLTEIPTNLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLR 80
Query: 831 SLESIDFSVNKFTGEIPQSM 850
SL S+ NK T E+P+S+
Sbjct: 81 SLNSLVLYGNKIT-ELPKSL 99
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 35/133 (26%), Positives = 64/133 (48%), Gaps = 27/133 (20%)
Query: 712 LQILDLADNNLSGTLPNCIHNLTAMATVNPFTGNAIKYSIPLNSTYALGSVTEQALVVMK 771
LQ+LDL+ + +L+ ++T+ TGN I+ + ALG+
Sbjct: 56 LQVLDLSRCEIQTIEDGAYQSLSHLSTLI-LTGNPIQ-------SLALGA---------- 97
Query: 772 GVAADYSEILNLVRIIDVSKNFFS-GTLPIGLTNLKALQSLNLSYNIFTG-RIPETIGAM 829
+S + +L +++ + N S PIG +LK L+ LN+++N+ ++PE +
Sbjct: 98 -----FSGLSSLQKLVALETNLASLENFPIG--HLKTLKELNVAHNLIQSFKLPEYFSNL 150
Query: 830 RSLESIDFSVNKF 842
+LE +D S NK
Sbjct: 151 TNLEHLDLSSNKI 163
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 50/197 (25%), Positives = 83/197 (42%), Gaps = 31/197 (15%)
Query: 145 SMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSY 204
S L+ L+LS + +LS L L+L+ N + + G SGLS L+ L
Sbjct: 52 SFPELQVLDLSRCEIQTIEDGAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVALE 111
Query: 205 VNLSKASDWLLVTHMLPSLVELDLSNCQLHIFP-PLPVANFSTLTTLDLSHNQFDN---- 259
NL+ ++ + H L +L EL++++ + F P +N + L LDLS N+ +
Sbjct: 112 TNLASLENF-PIGH-LKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCT 169
Query: 260 ----------------------SFVPSWVFGLSHLLFLNLGYNNFHGPIPEGL-QSLTSL 296
+F+ F L L L N +P+G+ LTSL
Sbjct: 170 DLRVLHQMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKS-VPDGIFDRLTSL 228
Query: 297 KHLDLSFNHFNSSIPNL 313
+ + L N ++ S P +
Sbjct: 229 QKIWLHTNPWDCSCPRI 245
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 35.4 bits (80), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 61/205 (29%), Positives = 90/205 (43%), Gaps = 41/205 (20%)
Query: 134 FQGVPIPRFIGSMGNLKYLNLSGS--RFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWL 191
F+ V +P +L YL+LS + F G + +SL++L LS N +++ ++
Sbjct: 339 FKKVALP-------SLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFM 391
Query: 192 SGLSFLEHLDFSYVNLSKASDWLLVTHMLPSLVELDLS--NCQLH---IFPPLP------ 240
GL L+HLDF + L + +++ L L+ LD+S N ++ IF L
Sbjct: 392 -GLEELQHLDFQHSTLKRVTEFSAFLS-LEKLLYLDISYTNTKIDFDGIFLGLTSLNTLK 449
Query: 241 --------------VANFSTLTTLDLSHNQFDNSFVPSW-VFGLSH-LLFLNLGYNNFHG 284
AN + LT LDLS Q + SW VF H L LN+ +NN
Sbjct: 450 MAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQ---ISWGVFDTLHRLQLLNMSHNNLLF 506
Query: 285 PIPEGLQSLTSLKHLDLSFNHFNSS 309
L SL LD SFN +S
Sbjct: 507 LDSSHYNQLYSLSTLDCSFNRIETS 531
Score = 33.1 bits (74), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 66/155 (42%), Gaps = 2/155 (1%)
Query: 150 KYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNLSK 209
K ++LS + + + N S LQ+L LSR + + GL L +L + +
Sbjct: 30 KNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQS 89
Query: 210 ASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGL 269
S L SL L +L P+ TL L+++HN + +P++ L
Sbjct: 90 FSPGSFSG--LTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNL 147
Query: 270 SHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFN 304
++L+ ++L YN LQ L ++LS +
Sbjct: 148 TNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLD 182
Score = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 45/147 (30%), Positives = 69/147 (46%), Gaps = 12/147 (8%)
Query: 171 SSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNLSKASD--WLLVTHMLPSLVELDL 228
SS + + LS N L ++ S S L+ LD S + D W H L L L L
Sbjct: 27 SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAW----HGLHHLSNLIL 82
Query: 229 SNCQLHIFPPLPVANFSTLTTLD-LSHNQFDNSFVPSWVFG-LSHLLFLNLGYNNFHG-P 285
+ + F P +FS LT+L+ L + + + S+ G L L LN+ +N H
Sbjct: 83 TGNPIQSFSP---GSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCK 139
Query: 286 IPEGLQSLTSLKHLDLSFNHFNSSIPN 312
+P +LT+L H+DLS+N+ + N
Sbjct: 140 LPAYFSNLTNLVHVDLSYNYIQTITVN 166
>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 = 35.0 bits (79), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 61/205 (29%), Positives = 90/205 (43%), Gaps = 41/205 (20%)
Query: 134 FQGVPIPRFIGSMGNLKYLNLSGS--RFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWL 191
F+ V +P +L YL+LS + F G + +SL++L LS N +++ ++
Sbjct: 344 FKKVALP-------SLSYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFM 396
Query: 192 SGLSFLEHLDFSYVNLSKASDWLLVTHMLPSLVELDLS--NCQLH---IFPPLP------ 240
GL L+HLDF + L + +++ L L+ LD+S N ++ IF L
Sbjct: 397 -GLEELQHLDFQHSTLKRVTEFSAFLS-LEKLLYLDISYTNTKIDFDGIFLGLTSLNTLK 454
Query: 241 --------------VANFSTLTTLDLSHNQFDNSFVPSW-VFGLSH-LLFLNLGYNNFHG 284
AN + LT LDLS Q + SW VF H L LN+ +NN
Sbjct: 455 MAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQ---ISWGVFDTLHRLQLLNMSHNNLLF 511
Query: 285 PIPEGLQSLTSLKHLDLSFNHFNSS 309
L SL LD SFN +S
Sbjct: 512 LDSSHYNQLYSLSTLDCSFNRIETS 536
Score = 33.1 bits (74), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 38/155 (24%), Positives = 66/155 (42%), Gaps = 2/155 (1%)
Query: 150 KYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNLSK 209
K ++LS + + + N S LQ+L LSR + + GL L +L + +
Sbjct: 35 KNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILTGNPIQS 94
Query: 210 ASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGL 269
S L SL L +L P+ TL L+++HN + +P++ L
Sbjct: 95 FSPGSFSG--LTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNL 152
Query: 270 SHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFN 304
++L+ ++L YN LQ L ++LS +
Sbjct: 153 TNLVHVDLSYNYIQTITVNDLQFLRENPQVNLSLD 187
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 44/143 (30%), Positives = 68/143 (47%), Gaps = 12/143 (8%)
Query: 171 SSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNLSKASD--WLLVTHMLPSLVELDL 228
SS + + LS N L ++ S S L+ LD S + D W H L L L L
Sbjct: 32 SSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAW----HGLHHLSNLIL 87
Query: 229 SNCQLHIFPPLPVANFSTLTTLD-LSHNQFDNSFVPSWVFG-LSHLLFLNLGYNNFHG-P 285
+ + F P +FS LT+L+ L + + + S+ G L L LN+ +N H
Sbjct: 88 TGNPIQSFSP---GSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNVAHNFIHSCK 144
Query: 286 IPEGLQSLTSLKHLDLSFNHFNS 308
+P +LT+L H+DLS+N+ +
Sbjct: 145 LPAYFSNLTNLVHVDLSYNYIQT 167
>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 = 34.3 bits (77), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 39/131 (29%), Positives = 60/131 (45%), Gaps = 9/131 (6%)
Query: 394 FKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGE 453
KNL +L L NN I + P +F L L L L +N+L L E L +L V E
Sbjct: 75 LKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLK-ELPEKMPKTLQELRVH---E 130
Query: 454 NTLTLKVRR---DWIPPFQLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGTFPN 510
N +T KVR+ + + ++ELG K L ++ + ++ I+ T P
Sbjct: 131 NEIT-KVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT-TIPQ 188
Query: 511 RLLKSASQLYL 521
L S ++L+L
Sbjct: 189 GLPPSLTELHL 199
Score = 30.4 bits (67), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 55/121 (45%), Gaps = 7/121 (5%)
Query: 609 WMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTLDV 668
+ + +NL L L NNK P +F L L L+L KN+L + K +L L V
Sbjct: 72 FKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKE---LPEKMPKTLQELRV 128
Query: 669 GENEFFGNIPSWFGEMFSIMVFLILRSNYFH--GLLPTKLCDLAFLQILDLADNNLSGTL 726
ENE S F + + M+ + L +N G+ + L + +AD N++ T+
Sbjct: 129 HENEITKVRKSVFNGL-NQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT-TI 186
Query: 727 P 727
P
Sbjct: 187 P 187
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 33.9 bits (76), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 39/131 (29%), Positives = 60/131 (45%), Gaps = 9/131 (6%)
Query: 394 FKNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGE 453
KNL +L L NN I + P +F L L L L +N+L L E L +L V E
Sbjct: 75 LKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLK-ELPEKMPKTLQELRVH---E 130
Query: 454 NTLTLKVRR---DWIPPFQLIELGLRSCNVGSRFPLWLYSQKDLQFLDLFNSGISGTFPN 510
N +T KVR+ + + ++ELG K L ++ + ++ I+ T P
Sbjct: 131 NEIT-KVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT-TIPQ 188
Query: 511 RLLKSASQLYL 521
L S ++L+L
Sbjct: 189 GLPPSLTELHL 199
Score = 30.4 bits (67), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 55/121 (45%), Gaps = 7/121 (5%)
Query: 609 WMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTLDV 668
+ + +NL L L NNK P +F L L L+L KN+L + K +L L V
Sbjct: 72 FKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKE---LPEKMPKTLQELRV 128
Query: 669 GENEFFGNIPSWFGEMFSIMVFLILRSNYFH--GLLPTKLCDLAFLQILDLADNNLSGTL 726
ENE S F + + M+ + L +N G+ + L + +AD N++ T+
Sbjct: 129 HENEITKVRKSVFNGL-NQMIVVELGTNPLKSSGIENGAFQGMKKLSYIRIADTNIT-TI 186
Query: 727 P 727
P
Sbjct: 187 P 187
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 33.9 bits (76), Expect = 0.51, Method: Compositional matrix adjust.
Identities = 164/685 (23%), Positives = 258/685 (37%), Gaps = 133/685 (19%)
Query: 224 VELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFG-LSHLLFLNLGYNNF 282
V ++++C +P + +T L+L+HNQ +P+ F S L L++G+N
Sbjct: 4 VSHEVADCSHLKLTQVPDDLPTNITVLNLTHNQLRR--LPAANFTRYSQLTSLDVGFNTI 61
Query: 283 HGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXXXXXXXEGRIPRSMARLC 342
PE Q L LK L+L N + + +
Sbjct: 62 SKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQK 121
Query: 343 NLKRLYLS-----GAKLNQEISEILDIFSGCVPNGLESLVLPNSSIFGHLTDQIGLFKN- 396
NL L LS KL ++ N +++L ++++ +F N
Sbjct: 122 NLITLDLSHNGLSSTKLGTQVQLENLQELLLSNNKIQALK----------SEELDIFANS 171
Query: 397 -LDSLDLSNNSIVGLVPQSF---GRL------------------------SSLRVLQLYR 428
L L+LS+N I P F GRL +S+R L L
Sbjct: 172 SLKKLELSSNQIKEFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSN 231
Query: 429 NKLHGTLSEIHFVNL--TKLSVFLVGENTLTLKVRRD---WIPPFQLIELGLRSCNVGSR 483
++L T S F+ L T L++ + N L + V D W+P QL L N+
Sbjct: 232 SQL-STTSNTTFLGLKWTNLTMLDLSYNNLNV-VGNDSFAWLP--QLEYFFLEYNNIQHL 287
Query: 484 FPLWLYSQKDLQFLDLFNSGISGT-----------FPNRLLKSASQLYLLDLGHNQIHGE 532
F L+ ++++L+L S + F + LK L + D N I G
Sbjct: 288 FSHSLHGLFNVRYLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMED---NDIPGI 344
Query: 533 LTNL-TKASQLSFLRLMANNLSGPLPLISSNLIGLDLSGNSFSGSIFHFLCYTINAGMK- 590
+N+ T L +L L +N+ + L + + L + S H L T N K
Sbjct: 345 KSNMFTGLINLKYLSL-SNSFTSLRTLTNETFVSL-------AHSPLHILNLTKNKISKI 396
Query: 591 ----------LQFLFLDRNILQGNLP-DCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSL 639
L+ L L N + L W +N+ + LS NK++ SF + SL
Sbjct: 397 ESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSL 456
Query: 640 VSLHLRKNRLSGTMPISLKNCTSLMTLDVGENEFFGNIPSWFGEMFSIMVFLILRSNYFH 699
L LR+ ++LKN S PS F + ++ + L L +N
Sbjct: 457 QRLMLRR--------VALKNVDS--------------SPSPFQPLRNLTI-LDLSNNNIA 493
Query: 700 GLLPTKLCDLAFLQILDLADNNLSGTLPNCIHNLTAMATVNPFTGNAIKYSIPLNSTYAL 759
+ L L L+ILDL NNL+ + NP G I + L+ + L
Sbjct: 494 NINDDMLEGLEKLEILDLQHNNLARLWKHA----------NP--GGPIYFLKGLSHLHIL 541
Query: 760 GSVTEQALVVMKGVAADYSEILNLVRIIDVSKNFFSGTLPIGL-TNLKALQSLNLSYNIF 818
+ + V D E+ +IID+ N TLP + N +L+SLNL N+
Sbjct: 542 NLESNGFDEIPVEVFKDLFEL----KIIDLGLNNL-NTLPASVFNNQVSLKSLNLQKNLI 596
Query: 819 TGRIPETIG-AMRSLESIDFSVNKF 842
T + G A R+L +D N F
Sbjct: 597 TSVEKKVFGPAFRNLTELDMRFNPF 621
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 152/613 (24%), Positives = 247/613 (40%), Gaps = 85/613 (13%)
Query: 148 NLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNL 207
N+ LNL+ ++ + S L L + N + + L L+ L+ + L
Sbjct: 26 NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNEL 85
Query: 208 SKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVF 267
S+ SD +L EL L + + P L TLDLSHN ++ + + V
Sbjct: 86 SQLSDKTFA--FCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQ 143
Query: 268 GLSHLLFLNLGYNNFHGPIPEGLQ--SLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXX 325
+ L L L N E L + +SLK L+LS N P
Sbjct: 144 LEN-LQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCF----------- 191
Query: 326 XXXXXEGRIPRSMARLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSSIFG 385
++ RL L +L+ +L ++E L + + +L L NS +
Sbjct: 192 ----------HAIGRLFGL---FLNNVQLGPSLTEKLCL--ELANTSIRNLSLSNSQLST 236
Query: 386 HL-TDQIGL-FKNLDSLDLSNNSIVGLVPQSFGRLSSLR--------VLQLYRNKLHGTL 435
T +GL + NL LDLS N++ + SF L L + L+ + LHG L
Sbjct: 237 TSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHG-L 295
Query: 436 SEIHFVNL----TKLSVFLVGENTLTLKVRRDWIPPFQLIELGLRSCNVGSRFPLWLYSQ 491
+ ++NL TK S+ L + W+ + L + ++
Sbjct: 296 FNVRYLNLKRSFTKQSISLASLPKID-DFSFQWLKCLE--HLNMEDNDIPGIKSNMFTGL 352
Query: 492 KDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHGELTNLTKASQLSFLRLMANN 551
+L++L L NS S L++ + + L H+ +H + NLTK +++S + A +
Sbjct: 353 INLKYLSLSNSFTS-------LRTLTNETFVSLAHSPLH--ILNLTK-NKISKIESDAFS 402
Query: 552 LSGPLPLISS--NLIGLDLSGNSFSG--SIFH-FLCYTINAGMKLQFLFLDRNILQGNLP 606
G L ++ N IG +L+G + G +IF +L Y ++L L RN +P
Sbjct: 403 WLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYN-------KYLQLTRNSF-ALVP 454
Query: 607 DCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTL 666
S Q LM+ ++ K + + P+ F L +L L L N ++ L+ L L
Sbjct: 455 ----SLQRLMLRRVAL-KNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEIL 509
Query: 667 DVGENEFFG-------NIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLAD 719
D+ N P +F + S + L L SN F + DL L+I+DL
Sbjct: 510 DLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGL 569
Query: 720 NNLSGTLPNCIHN 732
NNL TLP + N
Sbjct: 570 NNL-NTLPASVFN 581
Score = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 54/179 (30%), Positives = 70/179 (39%), Gaps = 24/179 (13%)
Query: 146 MGNLKYLNLS----GSRFVGMIPHQLGN-----LSSLQYLVLSRNFLHLVNFGWLSGLSF 196
+G+L+ L+L G G L N LS +YL L+RN LV
Sbjct: 404 LGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALV--------PS 455
Query: 197 LEHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHN- 255
L+ L V L L +L LDLSN + + L LDL HN
Sbjct: 456 LQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNN 515
Query: 256 -----QFDNSFVPSWVF-GLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNS 308
+ N P + GLSHL LNL N F E + L LK +DL N+ N+
Sbjct: 516 LARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNT 574
>pdb|2FT3|A Chain A, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|B Chain B, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|C Chain C, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|D Chain D, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|E Chain E, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|F Chain F, Crystal Structure Of The Biglycan Dimer Core Protein
Length = 332
Score = 33.5 bits (75), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 51/182 (28%), Positives = 73/182 (40%), Gaps = 40/182 (21%)
Query: 400 LDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGENTLTLK 459
LDL NN I L F L L L L NK+ + E F L KL + +N L
Sbjct: 59 LDLQNNDISELRKDDFKGLQHLYALVLVNNKI-SKIHEKAFSPLRKLQKLYISKNHLV-- 115
Query: 460 VRRDWIP---PFQLIEL----------------GLRSCNV---------GSRFPLWLYSQ 491
IP P L+EL GLR+ N S F +
Sbjct: 116 ----EIPPNLPSSLVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDG 171
Query: 492 KDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHG-ELTNLTKASQLSFLRLMAN 550
L +L + + ++G P L ++ ++L+ L HN+I EL +L + S+L L L N
Sbjct: 172 LKLNYLRISEAKLTG-IPKDLPETLNELH---LDHNKIQAIELEDLLRYSKLYRLGLGHN 227
Query: 551 NL 552
+
Sbjct: 228 QI 229
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 33.1 bits (74), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 64/236 (27%), Positives = 97/236 (41%), Gaps = 42/236 (17%)
Query: 609 WMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTLDV 668
W +N+ + LS NK++ SF + SL L LR+ ++LKN S
Sbjct: 431 WRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRR--------VALKNVDS------ 476
Query: 669 GENEFFGNIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLADNNLSGTLPN 728
PS F + ++ + L L +N + L L L+ILDL NNL+ +
Sbjct: 477 --------SPSPFQPLRNLTI-LDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKH 527
Query: 729 CIHNLTAMATVNPFTGNAIKYSIPLNSTYALGSVTEQALVVMKGVAADYSEILNLVRIID 788
NP G I + L+ + L + + V D E+ +IID
Sbjct: 528 A----------NP--GGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFEL----KIID 571
Query: 789 VSKNFFSGTLPIGL-TNLKALQSLNLSYNIFTGRIPETIG-AMRSLESIDFSVNKF 842
+ N TLP + N +L+SLNL N+ T + G A R+L +D N F
Sbjct: 572 LGLNNL-NTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTELDMRFNPF 626
Score = 32.0 bits (71), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 152/613 (24%), Positives = 247/613 (40%), Gaps = 85/613 (13%)
Query: 148 NLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNL 207
N+ LNL+ ++ + S L L + N + + L L+ L+ + L
Sbjct: 31 NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNEL 90
Query: 208 SKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVF 267
S+ SD +L EL L + + P L TLDLSHN ++ + + V
Sbjct: 91 SQLSDKTFA--FCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQ 148
Query: 268 GLSHLLFLNLGYNNFHGPIPEGLQ--SLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXX 325
+ L L L N E L + +SLK L+LS N P
Sbjct: 149 LEN-LQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCF----------- 196
Query: 326 XXXXXEGRIPRSMARLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSSIFG 385
++ RL L +L+ +L ++E L + + +L L NS +
Sbjct: 197 ----------HAIGRLFGL---FLNNVQLGPSLTEKLCL--ELANTSIRNLSLSNSQLST 241
Query: 386 HL-TDQIGL-FKNLDSLDLSNNSIVGLVPQSFGRLSSLR--------VLQLYRNKLHGTL 435
T +GL + NL LDLS N++ + SF L L + L+ + LHG L
Sbjct: 242 TSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHG-L 300
Query: 436 SEIHFVNL----TKLSVFLVGENTLTLKVRRDWIPPFQLIELGLRSCNVGSRFPLWLYSQ 491
+ ++NL TK S+ L + W+ + L + ++
Sbjct: 301 FNVRYLNLKRSFTKQSISLASLPKID-DFSFQWLKCLE--HLNMEDNDIPGIKSNMFTGL 357
Query: 492 KDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHGELTNLTKASQLSFLRLMANN 551
+L++L L NS S L++ + + L H+ +H + NLTK +++S + A +
Sbjct: 358 INLKYLSLSNSFTS-------LRTLTNETFVSLAHSPLH--ILNLTK-NKISKIESDAFS 407
Query: 552 LSGPLPLISS--NLIGLDLSGNSFSG--SIFH-FLCYTINAGMKLQFLFLDRNILQGNLP 606
G L ++ N IG +L+G + G +IF +L Y ++L L RN +P
Sbjct: 408 WLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYN-------KYLQLTRNSF-ALVP 459
Query: 607 DCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTL 666
S Q LM+ ++ K + + P+ F L +L L L N ++ L+ L L
Sbjct: 460 ----SLQRLMLRRVAL-KNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEIL 514
Query: 667 DVGENEFFG-------NIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLAD 719
D+ N P +F + S + L L SN F + DL L+I+DL
Sbjct: 515 DLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGL 574
Query: 720 NNLSGTLPNCIHN 732
NNL TLP + N
Sbjct: 575 NNL-NTLPASVFN 586
Score = 31.2 bits (69), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 54/179 (30%), Positives = 70/179 (39%), Gaps = 24/179 (13%)
Query: 146 MGNLKYLNLS----GSRFVGMIPHQLGN-----LSSLQYLVLSRNFLHLVNFGWLSGLSF 196
+G+L+ L+L G G L N LS +YL L+RN LV
Sbjct: 409 LGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALV--------PS 460
Query: 197 LEHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHN- 255
L+ L V L L +L LDLSN + + L LDL HN
Sbjct: 461 LQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNN 520
Query: 256 -----QFDNSFVPSWVF-GLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNS 308
+ N P + GLSHL LNL N F E + L LK +DL N+ N+
Sbjct: 521 LARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNT 579
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 33.1 bits (74), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 53/200 (26%), Positives = 79/200 (39%), Gaps = 39/200 (19%)
Query: 143 IGSMGNLKYLNLSGSRFVGMI-PHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLD 201
I S N+K +SG+R V M+ P +S +L S N L F L+ LE L
Sbjct: 298 IFSNMNIKNFTVSGTRMVHMLCP---SKISPFLHLDFSNNLLTDTVFENCGHLTELETLI 354
Query: 202 FSYVNLSKASDWLLVTHMLPSLVELDLSNCQLH--------------------------- 234
L + S +T + SL +LD+S +
Sbjct: 355 LQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSLNMSSNILTDT 414
Query: 235 IFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGYNNFHGPIPEGL-QSL 293
IF LP + LDL N+ + +P V L L LN+ N +P+G+ L
Sbjct: 415 IFRCLP----PRIKVLDLHSNKIKS--IPKQVVKLEALQELNVASNQLKS-VPDGIFDRL 467
Query: 294 TSLKHLDLSFNHFNSSIPNL 313
TSL+ + L N ++ S P +
Sbjct: 468 TSLQKIWLHTNPWDCSCPRI 487
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 41/145 (28%), Positives = 65/145 (44%), Gaps = 19/145 (13%)
Query: 616 MMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPIS--LKNCTSLMTLDVGEN-- 671
+ LD SNN + + G L+ L +L L+ N+L I+ SL LD+ +N
Sbjct: 327 LHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSV 386
Query: 672 ---EFFGNIPSWFGEMFSI-MVFLILRSNYFHGLLPTKLCDLAFLQILDLADNNLSGTLP 727
E G+ SW + S+ M IL F L P +++LDL N + ++P
Sbjct: 387 SYDEKKGDC-SWTKSLLSLNMSSNILTDTIFRCLPPR-------IKVLDLHSNKI-KSIP 437
Query: 728 NCIHNLTAMATVNPFTGNAIKYSIP 752
+ L A+ +N N +K S+P
Sbjct: 438 KQVVKLEALQELN-VASNQLK-SVP 460
>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 = 33.1 bits (74), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 36/143 (25%), Positives = 58/143 (40%), Gaps = 27/143 (18%)
Query: 362 LDIFSGCVPNGLESLVLPNSSIFGHLTDQIGLFKNLDSLDLSNNSIVGLVPQSFGRLSSL 421
L + +P + L L + + F + ++ +K+L +DLSNN I L QSF ++ L
Sbjct: 22 LKVLPKGIPRDVTELYL-DGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQL 80
Query: 422 RVLQLYRNK-------------------LHG----TLSEIHFVNLTKLSVFLVGENTLTL 458
L L N+ LHG + E F +L+ LS +G N L
Sbjct: 81 LTLILSYNRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPLYC 140
Query: 459 KVRRDWIPPF---QLIELGLRSC 478
W+ + + E G+ C
Sbjct: 141 DCNMQWLSDWVKSEYKEPGIARC 163
Score = 32.7 bits (73), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 28/96 (29%), Positives = 48/96 (50%), Gaps = 8/96 (8%)
Query: 586 NAGMKLQFLFLDRNI----LQGN----LPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLS 637
N G+K+ + R++ L GN +P +Y++L ++DLSNN+ SF +++
Sbjct: 19 NKGLKVLPKGIPRDVTELYLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMT 78
Query: 638 SLVSLHLRKNRLSGTMPISLKNCTSLMTLDVGENEF 673
L++L L NRL P + SL L + N+
Sbjct: 79 QLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGNDI 114
Score = 30.0 bits (66), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 37/81 (45%)
Query: 786 IIDVSKNFFSGTLPIGLTNLKALQSLNLSYNIFTGRIPETIGAMRSLESIDFSVNKFTGE 845
+ID+S N S +N+ L +L LSYN P T ++SL + N +
Sbjct: 58 LIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGNDISVV 117
Query: 846 IPQSMSSLTFLNHLNLSNNYL 866
+ + L+ L+HL + N L
Sbjct: 118 PEGAFNDLSALSHLAIGANPL 138
Score = 30.0 bits (66), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 42/84 (50%), Gaps = 5/84 (5%)
Query: 223 LVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVF-GLSHLLFLNLGYNN 281
L +DLSN ++ +N + L TL LS+N+ +P F GL L L+L N+
Sbjct: 56 LTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRL--RCIPPRTFDGLKSLRLLSLHGND 113
Query: 282 FHGPIPEG-LQSLTSLKHLDLSFN 304
+PEG L++L HL + N
Sbjct: 114 I-SVVPEGAFNDLSALSHLAIGAN 136
>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 = 33.1 bits (74), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 64/236 (27%), Positives = 97/236 (41%), Gaps = 42/236 (17%)
Query: 609 WMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTLDV 668
W +N+ + LS NK++ SF + SL L LR+ ++LKN S
Sbjct: 436 WRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRR--------VALKNVDS------ 481
Query: 669 GENEFFGNIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLADNNLSGTLPN 728
PS F + ++ + L L +N + L L L+ILDL NNL+ +
Sbjct: 482 --------SPSPFQPLRNLTI-LDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKH 532
Query: 729 CIHNLTAMATVNPFTGNAIKYSIPLNSTYALGSVTEQALVVMKGVAADYSEILNLVRIID 788
NP G I + L+ + L + + V D E+ +IID
Sbjct: 533 A----------NP--GGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFEL----KIID 576
Query: 789 VSKNFFSGTLPIGL-TNLKALQSLNLSYNIFTGRIPETIG-AMRSLESIDFSVNKF 842
+ N TLP + N +L+SLNL N+ T + G A R+L +D N F
Sbjct: 577 LGLNNL-NTLPASVFNNQVSLKSLNLQKNLITSVEKKVFGPAFRNLTELDMRFNPF 631
Score = 32.0 bits (71), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 152/613 (24%), Positives = 247/613 (40%), Gaps = 85/613 (13%)
Query: 148 NLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNL 207
N+ LNL+ ++ + S L L + N + + L L+ L+ + L
Sbjct: 36 NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNEL 95
Query: 208 SKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVF 267
S+ SD +L EL L + + P L TLDLSHN ++ + + V
Sbjct: 96 SQLSDKTFA--FCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLGTQVQ 153
Query: 268 GLSHLLFLNLGYNNFHGPIPEGLQ--SLTSLKHLDLSFNHFNSSIPNLLCRXXXXXXXXX 325
+ L L L N E L + +SLK L+LS N P
Sbjct: 154 LEN-LQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCF----------- 201
Query: 326 XXXXXEGRIPRSMARLCNLKRLYLSGAKLNQEISEILDIFSGCVPNGLESLVLPNSSIFG 385
++ RL L +L+ +L ++E L + + +L L NS +
Sbjct: 202 ----------HAIGRLFGL---FLNNVQLGPSLTEKLCL--ELANTSIRNLSLSNSQLST 246
Query: 386 HL-TDQIGL-FKNLDSLDLSNNSIVGLVPQSFGRLSSLR--------VLQLYRNKLHGTL 435
T +GL + NL LDLS N++ + SF L L + L+ + LHG L
Sbjct: 247 TSNTTFLGLKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHG-L 305
Query: 436 SEIHFVNL----TKLSVFLVGENTLTLKVRRDWIPPFQLIELGLRSCNVGSRFPLWLYSQ 491
+ ++NL TK S+ L + W+ + L + ++
Sbjct: 306 FNVRYLNLKRSFTKQSISLASLPKID-DFSFQWLKCLE--HLNMEDNDIPGIKSNMFTGL 362
Query: 492 KDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIHGELTNLTKASQLSFLRLMANN 551
+L++L L NS S L++ + + L H+ +H + NLTK +++S + A +
Sbjct: 363 INLKYLSLSNSFTS-------LRTLTNETFVSLAHSPLH--ILNLTK-NKISKIESDAFS 412
Query: 552 LSGPLPLISS--NLIGLDLSGNSFSG--SIFH-FLCYTINAGMKLQFLFLDRNILQGNLP 606
G L ++ N IG +L+G + G +IF +L Y ++L L RN +P
Sbjct: 413 WLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYN-------KYLQLTRNSF-ALVP 464
Query: 607 DCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTL 666
S Q LM+ ++ K + + P+ F L +L L L N ++ L+ L L
Sbjct: 465 ----SLQRLMLRRVAL-KNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEIL 519
Query: 667 DVGENEFFG-------NIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLAD 719
D+ N P +F + S + L L SN F + DL L+I+DL
Sbjct: 520 DLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGL 579
Query: 720 NNLSGTLPNCIHN 732
NNL TLP + N
Sbjct: 580 NNL-NTLPASVFN 591
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 54/179 (30%), Positives = 70/179 (39%), Gaps = 24/179 (13%)
Query: 146 MGNLKYLNLS----GSRFVGMIPHQLGN-----LSSLQYLVLSRNFLHLVNFGWLSGLSF 196
+G+L+ L+L G G L N LS +YL L+RN LV
Sbjct: 414 LGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALV--------PS 465
Query: 197 LEHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHN- 255
L+ L V L L +L LDLSN + + L LDL HN
Sbjct: 466 LQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNN 525
Query: 256 -----QFDNSFVPSWVF-GLSHLLFLNLGYNNFHGPIPEGLQSLTSLKHLDLSFNHFNS 308
+ N P + GLSHL LNL N F E + L LK +DL N+ N+
Sbjct: 526 LARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNT 584
>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 = 32.7 bits (73), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 2/77 (2%)
Query: 591 LQFLFLDRNILQGNLPD-CWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRL 649
LQ+L+L N LQ LPD + NL L L N+ +F L SL L L +N +
Sbjct: 130 LQYLYLQDNNLQA-LPDNTFRDLGNLTHLFLHGNRIPSVPEHAFRGLHSLDRLLLHQNHV 188
Query: 650 SGTMPISLKNCTSLMTL 666
+ P + ++ LMTL
Sbjct: 189 ARVHPHAFRDLGRLMTL 205
Score = 29.6 bits (65), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 39/156 (25%), Positives = 64/156 (41%), Gaps = 2/156 (1%)
Query: 591 LQFLFLDRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNL-PTSFGSLSSLVSLHLRKNRL 649
L L+L N L G + L LDLS+N + + PT+F L L +LHL + L
Sbjct: 57 LTILWLHSNALAGIDAAAFTGLTLLEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGL 116
Query: 650 SGTMPISLKNCTSLMTLDVGENEFFGNIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDL 709
P + +L L + +N + F ++ + + L L N + L
Sbjct: 117 QELGPGLFRGLAALQYLYLQDNNLQALPDNTFRDLGN-LTHLFLHGNRIPSVPEHAFRGL 175
Query: 710 AFLQILDLADNNLSGTLPNCIHNLTAMATVNPFTGN 745
L L L N+++ P+ +L + T+ F N
Sbjct: 176 HSLDRLLLHQNHVARVHPHAFRDLGRLMTLYLFANN 211
Score = 29.6 bits (65), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 52/216 (24%), Positives = 83/216 (38%), Gaps = 26/216 (12%)
Query: 631 TSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTLDVGENEFFGNI-PSWFGEMFSIMV 689
SF S +L L L N L+G + T L LD+ +N + P+ F + +
Sbjct: 49 ASFQSCRNLTILWLHSNALAGIDAAAFTGLTLLEQLDLSDNAQLRVVDPTTFRGLGHLHT 108
Query: 690 FLILRSNYFHGLLPTKLCDLAFLQILDLADNNLSGTLPNCIHNLTAMATVNPFTGNAIKY 749
+ R L P LA LQ L L DNNL N +L + + GN I
Sbjct: 109 LHLDRCG-LQELGPGLFRGLAALQYLYLQDNNLQALPDNTFRDLGNLTHLF-LHGNRIP- 165
Query: 750 SIPLNSTYALGSVTEQALVVMKGVAADYSEILNLVRIIDVSKNFFSGTLPIGLTNLKALQ 809
SV E A + + +L R++ + +N + P +L L
Sbjct: 166 -----------SVPEHA----------FRGLHSLDRLL-LHQNHVARVHPHAFRDLGRLM 203
Query: 810 SLNLSYNIFTGRIPETIGAMRSLESIDFSVNKFTGE 845
+L L N + E + +RSL+ + + N + +
Sbjct: 204 TLYLFANNLSMLPAEVLVPLRSLQYLRLNDNPWVCD 239
>pdb|3F3X|A Chain A, Crystal Structure Of The Transcriptional Regulator Bldr
From Sulfolobus Solfataricus
Length = 144
Score = 32.3 bits (72), Expect = 1.4, Method: Composition-based stats.
Identities = 19/51 (37%), Positives = 28/51 (54%), Gaps = 3/51 (5%)
Query: 806 KALQSLNLSYNIFTGRIPE---TIGAMRSLESIDFSVNKFTGEIPQSMSSL 853
+ LQ +N I+ G I E +G + +L +DFS+ K T E P+SM L
Sbjct: 6 EKLQLMNTIAKIYRGSIKEFNNRLGKLMNLSYLDFSILKATSEEPRSMVYL 56
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 45/87 (51%), Gaps = 3/87 (3%)
Query: 787 IDVSKNFFSGTLPIGLTNLKALQSLNLSYNIFTG--RIPETIGAMRSLESIDFSVNKFTG 844
++ ++N F+ ++ G + LK LQ+L L N ++ M SLE++D S+N
Sbjct: 358 LNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNS 417
Query: 845 EI-PQSMSSLTFLNHLNLSNNYLTGKI 870
++ + + LNLS+N LTG +
Sbjct: 418 HAYDRTCAWAESILVLNLSSNMLTGSV 444
Score = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 52/177 (29%), Positives = 83/177 (46%), Gaps = 19/177 (10%)
Query: 145 SMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLS----GLSFLEHL 200
S + +LN + + F + L LQ L+L RN L NF ++ +S LE L
Sbjct: 351 SPSSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLK--NFFKVALMTKNMSSLETL 408
Query: 201 DFSYVNL-SKASDWLLVTHMLPSLVELDLSNCQL--HIFPPLPVANFSTLTTLDLSHNQF 257
D S +L S A D S++ L+LS+ L +F LP + LDL +N+
Sbjct: 409 DVSLNSLNSHAYDRTCA--WAESILVLNLSSNMLTGSVFRCLP----PKVKVLDLHNNRI 462
Query: 258 DNSFVPSWVFGLSHLLFLNLGYNNFHGPIPEGL-QSLTSLKHLDLSFNHFNSSIPNL 313
+ +P V L L LN+ N +P+G+ LTSL+++ L N ++ + P +
Sbjct: 463 MS--IPKDVTHLQALQELNVASNQLKS-VPDGVFDRLTSLQYIWLHDNPWDCTCPGI 516
>pdb|1XEU|A Chain A, Crystal Structure Of Internalin C From Listeria
Monocytogenes
Length = 263
Score = 31.6 bits (70), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 50/176 (28%), Positives = 68/176 (38%), Gaps = 37/176 (21%)
Query: 479 NVGSRFPLWLYSQKDLQFLDLFNSGISGTFPNRLLKSASQLYLLDLGHNQIH--GELTNL 536
N+G + L SQK+L + FN S ++ + L L L HNQI L +L
Sbjct: 25 NLGKQSVTDLVSQKELSGVQNFNGDNSNIQSLAGMQFFTNLKELHLSHNQISDLSPLKDL 84
Query: 537 TKASQLSFLRLMANNLSGPLPLISSNLIGLDLSGNSFSGSIFHFLCYTINAGMKLQFLFL 596
TK +LS R NL+G C L LFL
Sbjct: 85 TKLEELSVNRNRLKNLNG-----------------------IPSAC--------LSRLFL 113
Query: 597 DRNILQGNLPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGT 652
D N L+ D + +NL +L + NNK + G LS L L L N ++ T
Sbjct: 114 DNNELRDT--DSLIHLKNLEILSIRNNKLKSIV--MLGFLSKLEVLDLHGNEITNT 165
>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 = 31.6 bits (70), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 36/134 (26%), Positives = 59/134 (44%), Gaps = 21/134 (15%)
Query: 143 IGSMGNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDF 202
I + NL+YLNL+G++ + P L NL L L + N + + L L+ L L
Sbjct: 62 IEYLTNLEYLNLNGNQITDISP--LSNLVKLTNLYIGTN--KITDISALQNLTNLRELYL 117
Query: 203 SYVNLSKASDWLLVT----------HMLPSLVELD-------LSNCQLHIFPPLPVANFS 245
+ N+S S +T H L L L L+ + + P+AN +
Sbjct: 118 NEDNISDISPLANLTKXYSLNLGANHNLSDLSPLSNXTGLNYLTVTESKVKDVTPIANLT 177
Query: 246 TLTTLDLSHNQFDN 259
L +L L++NQ ++
Sbjct: 178 DLYSLSLNYNQIED 191
Score = 30.0 bits (66), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 40/132 (30%), Positives = 64/132 (48%), Gaps = 13/132 (9%)
Query: 149 LKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNLS 208
L YL ++ S+ + P + NL+ L L L N+ + + L+ L+ L H +YVN
Sbjct: 157 LNYLTVTESKVKDVTP--IANLTDLYSLSL--NYNQIEDISPLASLTSL-HYFTAYVN-- 209
Query: 209 KASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFG 268
+ +D V + L L + N ++ PL AN S LT L++ NQ + + V
Sbjct: 210 QITDITPVANX-TRLNSLKIGNNKITDLSPL--ANLSQLTWLEIGTNQISD---INAVKD 263
Query: 269 LSHLLFLNLGYN 280
L+ L LN+G N
Sbjct: 264 LTKLKXLNVGSN 275
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
From Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
Effector Protein From Yersinia Pestis
Length = 454
Score = 30.8 bits (68), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 71/306 (23%), Positives = 121/306 (39%), Gaps = 74/306 (24%)
Query: 605 LPDCWMSYQNLMMLDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLM 664
LP+ S ++L++ D +N K + +LP L + N+L +P L+N + L
Sbjct: 106 LPELPQSLKSLLV-DNNNLKALSDLPPLLEYLG------VSNNQLEK-LP-ELQNSSFLK 156
Query: 665 TLDVGENEFFGNIPSWFGEMFSIMVFLILRSNYFHGLLPTKLCDLAFLQILDLADNNLSG 724
+DV N ++ + F+ +N L +L +L FL + ADNN
Sbjct: 157 IIDVDNNSL-----KKLPDLPPSLEFIAAGNNQLEEL--PELQNLPFLTAI-YADNNSLK 208
Query: 725 TLPNCIHNLTAMATVNPFTGNAIKYSIP-------LNSTYALGSVTE---------QALV 768
LP+ +L ++ GN I +P L + YA ++ + +AL
Sbjct: 209 KLPDLPLSLESIVA-----GNNILEELPELQNLPFLTTIYADNNLLKTLPDLPPSLEALN 263
Query: 769 VMKGVAADYSEILNLVRIIDVSKNFFSG--TLPIGLTNLKA--------------LQSLN 812
V D E+ + +DVS+N FSG LP L L A L+ LN
Sbjct: 264 VRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLPPSLEELN 323
Query: 813 LSYNIFT-------------------GRIPETIGAMRSLESIDFSVNKFTGEIPQSMSSL 853
+S N +PE ++ L ++++ + +IP+S+ L
Sbjct: 324 VSNNKLIELPALPPRLERLIASFNHLAEVPELPQNLKQL-HVEYNPLREFPDIPESVEDL 382
Query: 854 TFLNHL 859
+HL
Sbjct: 383 RMNSHL 388
>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 = 30.8 bits (68), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 49/103 (47%), Gaps = 14/103 (13%)
Query: 618 LDLSNNKFIGNLPTSFGSLSSLVSLHLRKNRLSGTMPISLKNCTSLMTLDVGENEFFGNI 677
LDLSN + I N+ + L L+L N L+ +P +KN ++L LD+ N ++
Sbjct: 229 LDLSNLQ-IFNISANIFKYDFLTRLYLNGNSLT-ELPAEIKNLSNLRVLDLSHNR-LTSL 285
Query: 678 PSWFGEMFSIMVFLILRSNYFHGLLPT------KLCDLAFLQI 714
P+ G F + F +F ++ T LC+L FL +
Sbjct: 286 PAELGSCFQLKYFY-----FFDNMVTTLPWEFGNLCNLQFLGV 323
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 30.8 bits (68), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 35/120 (29%), Positives = 54/120 (45%), Gaps = 16/120 (13%)
Query: 340 RLCNLKRLYLSGAKLNQEISEILDIFSGCV-----PNGLESLVLPNSSIFGHLTDQIGLF 394
L +L +LYL G KL + + + + N L+SL PN +F LT
Sbjct: 50 ELTSLTQLYLGGNKLQSLPNGVFNKLTSLTYLNLSTNQLQSL--PNG-VFDKLT------ 100
Query: 395 KNLDSLDLSNNSIVGLVPQSFGRLSSLRVLQLYRNKLHGTLSEIHFVNLTKLSVFLVGEN 454
L L L+ N + L F +L+ L+ L+LY+N+L + F LT L + +N
Sbjct: 101 -QLKELALNTNQLQSLPDGVFDKLTQLKDLRLYQNQLKSVPDGV-FDRLTSLQYIWLHDN 158
>pdb|4GLP|A Chain A, The Crystal Structure Of Soluble Human Cd14 Reveals A Bent
Solenoid With A Hydrophobic Amino-terminal Pocket
Length = 310
Score = 30.0 bits (66), Expect = 6.1, Method: Composition-based stats.
Identities = 34/124 (27%), Positives = 47/124 (37%), Gaps = 25/124 (20%)
Query: 137 VPIPRFIGSM-----GNLKYLNLSGSRFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWL 191
VP +G++ LK L L + G +P L+ L+ + L L N W
Sbjct: 76 VPAQLLVGALRVLAYSRLKELTLEDLKITGTMPPL-----PLEATGLALSSLRLRNVSWA 130
Query: 192 SGLSFLEHLDFSYVNLSKASDWLLVTHMLPSLVELDLSNCQLHIFPPLPVANFSTLTTLD 251
+G S+L L WL P L L ++ F V F LT+LD
Sbjct: 131 TGRSWLAEL----------QQWLK-----PGLKVLSIAQAHSPAFSCEQVRAFPALTSLD 175
Query: 252 LSHN 255
LS N
Sbjct: 176 LSDN 179
>pdb|1M0Z|A Chain A, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
pdb|1M0Z|B Chain B, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
Length = 290
Score = 30.0 bits (66), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 43/95 (45%), Gaps = 10/95 (10%)
Query: 223 LVELDLSNCQL---HIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGY 279
L +L+L C+L + LPV L TLDLSHNQ + +P L L L++ +
Sbjct: 57 LTQLNLDRCELTKLQVDGTLPV-----LGTLDLSHNQLQS--LPLLGQTLPALTVLDVSF 109
Query: 280 NNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLL 314
N L+ L L+ L L N + P LL
Sbjct: 110 NRLTSLPLGALRGLGELQELYLKGNELKTLPPGLL 144
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 30.0 bits (66), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 43/95 (45%), Gaps = 10/95 (10%)
Query: 223 LVELDLSNCQL---HIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGY 279
L +L+L C+L + LPV L TLDLSHNQ + +P L L L++ +
Sbjct: 57 LTQLNLDRCELTKLQVDGTLPV-----LGTLDLSHNQLQS--LPLLGQTLPALTVLDVSF 109
Query: 280 NNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLL 314
N L+ L L+ L L N + P LL
Sbjct: 110 NRLTSLPLGALRGLGELQELYLKGNELKTLPPGLL 144
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 30.0 bits (66), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 33/96 (34%), Positives = 46/96 (47%), Gaps = 12/96 (12%)
Query: 223 LVELDLSNCQL---HIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGY 279
L +L+L C+L + LPV L TLDLSHNQ + +P L L L++ +
Sbjct: 57 LTQLNLDRCELTKLQVDGTLPV-----LGTLDLSHNQLQS--LPLLGQTLPALTVLDVSF 109
Query: 280 NNFHGPIPEG-LQSLTSLKHLDLSFNHFNSSIPNLL 314
N +P G L+ L L+ L L N + P LL
Sbjct: 110 NRLTS-LPLGALRGLGELQELYLKGNELKTLPPGLL 144
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 30.0 bits (66), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 43/95 (45%), Gaps = 10/95 (10%)
Query: 223 LVELDLSNCQL---HIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGY 279
L +L+L C+L + LPV L TLDLSHNQ + +P L L L++ +
Sbjct: 57 LTQLNLDRCELTKLQVDGTLPV-----LGTLDLSHNQLQS--LPLLGQTLPALTVLDVSF 109
Query: 280 NNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLL 314
N L+ L L+ L L N + P LL
Sbjct: 110 NRLTSLPLGALRGLGELQELYLKGNELKTLPPGLL 144
>pdb|1SQ0|B Chain B, Crystal Structure Of The Complex Of The Wild-Type Von
Willebrand Factor A1 Domain And Glycoprotein Ib Alpha At
2.6 Angstrom Resolution
Length = 288
Score = 29.6 bits (65), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 43/95 (45%), Gaps = 10/95 (10%)
Query: 223 LVELDLSNCQL---HIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGY 279
L +L+L C+L + LPV L TLDLSHNQ + +P L L L++ +
Sbjct: 57 LTQLNLDRCELTKLQVDGTLPV-----LGTLDLSHNQLQS--LPLLGQTLPALTVLDVSF 109
Query: 280 NNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLL 314
N L+ L L+ L L N + P LL
Sbjct: 110 NRLTSLPLGALRGLGELQELYLKGNELKTLPPGLL 144
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 29.6 bits (65), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 31/95 (32%), Positives = 43/95 (45%), Gaps = 10/95 (10%)
Query: 223 LVELDLSNCQL---HIFPPLPVANFSTLTTLDLSHNQFDNSFVPSWVFGLSHLLFLNLGY 279
L +L+L C+L + LPV L TLDLSHNQ + +P L L L++ +
Sbjct: 57 LTQLNLDRCELTKLQVDGTLPV-----LGTLDLSHNQLQS--LPLLGQTLPALTVLDVSF 109
Query: 280 NNFHGPIPEGLQSLTSLKHLDLSFNHFNSSIPNLL 314
N L+ L L+ L L N + P LL
Sbjct: 110 NRLTSLPLGALRGLGELQELYLKGNELKTLPPGLL 144
>pdb|4FHO|A Chain A, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
pdb|4FHO|B Chain B, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
Length = 231
Score = 29.6 bits (65), Expect = 8.7, Method: Composition-based stats.
Identities = 46/180 (25%), Positives = 70/180 (38%), Gaps = 25/180 (13%)
Query: 99 PDQYEANPRSMLVGKVNPXXXXXXXXXXXXXXFNDFQ-GVPIPRFIGSMGNLKYLNLSGS 157
PD AN GK N + F GV I + NL L L +
Sbjct: 20 PDPALANAVKTATGKSNVTDAVTQADLDGIATLSAFNTGVTTIEGIQYLNNLIGLELKDN 79
Query: 158 RFVGMIPHQLGNLSSLQYLVLSRNFLHLVNFGWLSGLSFLEHLDFSYVNLSKAS------ 211
+ + P L NL+ + L LS N L N ++GL ++ LD + ++ +
Sbjct: 80 QITDLTP--LKNLTKITELELSGNPLK--NVSAIAGLQSIKTLDLTSTQITDVTPLAGLS 135
Query: 212 -------DWLLVTHMLP-----SLVELDLSNCQLHIFPPLPVANFSTLTTLDLSHNQFDN 259
D +T++ P +L L + N Q++ PL AN S LTTL N+ +
Sbjct: 136 NLQVLYLDLNQITNISPLAGLTNLQYLSIGNNQVNDLTPL--ANLSKLTTLRADDNKISD 193
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
0.324 0.140 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 26,300,734
Number of Sequences: 62578
Number of extensions: 1037155
Number of successful extensions: 2779
Number of sequences better than 100.0: 90
Number of HSP's better than 100.0 without gapping: 35
Number of HSP's successfully gapped in prelim test: 55
Number of HSP's that attempted gapping in prelim test: 1782
Number of HSP's gapped (non-prelim): 536
length of query: 974
length of database: 14,973,337
effective HSP length: 108
effective length of query: 866
effective length of database: 8,214,913
effective search space: 7114114658
effective search space used: 7114114658
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (26.2 bits)