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= 042537
(789 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 186 bits (472), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 204/699 (29%), Positives = 314/699 (44%), Gaps = 101/699 (14%)
Query: 96 IGSLNKLRYLSLSSA--EFEGPIPSQLGNLSRLKYLDLSYINLNKSR--DWLRIIDKLPS 151
+GS + L++L++SS +F G + L L+ L+ LDLS +++ + W+ + D
Sbjct: 119 LGSCSGLKFLNVSSNTLDFPGKVSGGL-KLNSLEVLDLSANSISGANVVGWV-LSDGCGE 176
Query: 152 LRTLNLEHCHLPPIIP-SDLLHLNFSTSSLGALYLFENSLSSSIYPWLFNISSKLVVLDL 210
L+ L + + + S ++L F L + N+ S+ I P+L + S+ L LD+
Sbjct: 177 LKHLAISGNKISGDVDVSRCVNLEF-------LDVSSNNFSTGI-PFLGDCSA-LQHLDI 227
Query: 211 DSNLLQGSLLEPFDRMVSLRTXXXXXXXXXXXXXXKNRLNGTINQWLSR-----MYKLDA 265
N L G F R +S T LN + NQ++ + L
Sbjct: 228 SGNKLSGD----FSRAISTCTELKL-------------LNISSNQFVGPIPPLPLKSLQY 270
Query: 266 LSLSGNSLTGVVTESVFSELSNLKALHLDDNSFTLKFSHDWIPPF-----QLIIILLGSC 320
LSL+ N TG + + + L L L N F + +PPF L + L S
Sbjct: 271 LSLAENKFTGEIPDFLSGACDTLTGLDLSGNHF-----YGAVPPFFGSCSLLESLALSSN 325
Query: 321 QMGPHFP-KWLQTQNQIEVLDISDAGISDTVPDWFWDLSHTIADFNLSNNHIKGK-LPNL 378
P L ++VLD+S S +P+ +LS ++ +LS+N+ G LPNL
Sbjct: 326 NFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNL 385
Query: 379 SLRXXXXXXXXXXXXNYFEGLIPPLPSNASVLNLSRNKFSESISFLCSINGHKLEFLDLS 438
N F G IPP SN S +L L LS
Sbjct: 386 CQNPKNTLQELYLQNNGFTGKIPPTLSNCS----------------------ELVSLHLS 423
Query: 439 NNILSGRLPDCWMQFDRLAVLSLANNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSFF 498
N LSG +P +L L L N G+IP+ + ++ +++TL L N L GE+PS
Sbjct: 424 FNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGL 483
Query: 499 KSCSQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDL 558
+C+ L + L N L+GEIP WIG L L +L L +N F GNIP ++ + LDL
Sbjct: 484 SNCTNLNWISLSNNRLTGEIPKWIGR-LENLAILKLSNNSFSGNIPAELGDCRSLIWLDL 542
Query: 559 SLNNISGIIPKCLNNFTGMAQKSSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHE 618
+ N +G IP + +G K ++N Y + + E + +L ++G + E
Sbjct: 543 NTNLFNGTIPAAMFKQSG---KIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSE 599
Query: 619 YRSTL------------------------GLVKILDFSMNKLSGTIPEEIMDLVGLVALN 654
+ L G + LD S N LSG IP+EI + L LN
Sbjct: 600 QLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILN 659
Query: 655 LSRNNLTGQITPKIDQLKSLDFLDLSQNQFVGGIPSSLCQLSRLSVMNLSYNNLSGKIPL 714
L N+++G I ++ L+ L+ LDLS N+ G IP ++ L+ L+ ++LS NNLSG IP
Sbjct: 660 LGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE 719
Query: 715 GTQLQSFNASVYAGNPELCGLPLRNKCP-DEDSAASPER 752
Q ++F + + NP LCG PL P + D A +R
Sbjct: 720 MGQFETFPPAKFLNNPGLCGYPLPRCDPSNADGYAHHQR 758
>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 = 185 bits (469), Expect = 1e-46, Method: Compositional matrix adjust.
Identities = 200/683 (29%), Positives = 308/683 (45%), Gaps = 100/683 (14%)
Query: 96 IGSLNKLRYLSLSSA--EFEGPIPSQLGNLSRLKYLDLSYINLNKSR--DWLRIIDKLPS 151
+GS + L++L++SS +F G + L L+ L+ LDLS +++ + W+ + D
Sbjct: 122 LGSCSGLKFLNVSSNTLDFPGKVSGGL-KLNSLEVLDLSANSISGANVVGWV-LSDGCGE 179
Query: 152 LRTLNLEHCHLPPIIP-SDLLHLNFSTSSLGALYLFENSLSSSIYPWLFNISSKLVVLDL 210
L+ L + + + S ++L F L + N+ S+ I P+L + S+ L LD+
Sbjct: 180 LKHLAISGNKISGDVDVSRCVNLEF-------LDVSSNNFSTGI-PFLGDCSA-LQHLDI 230
Query: 211 DSNLLQGSLLEPFDRMVSLRTXXXXXXXXXXXXXXKNRLNGTINQWLSR-----MYKLDA 265
N L G F R +S T LN + NQ++ + L
Sbjct: 231 SGNKLSGD----FSRAISTCTELKL-------------LNISSNQFVGPIPPLPLKSLQY 273
Query: 266 LSLSGNSLTGVVTESVFSELSNLKALHLDDNSFTLKFSHDWIPPF-----QLIIILLGSC 320
LSL+ N TG + + + L L L N F + +PPF L + L S
Sbjct: 274 LSLAENKFTGEIPDFLSGACDTLTGLDLSGNHF-----YGAVPPFFGSCSLLESLALSSN 328
Query: 321 QMGPHFP-KWLQTQNQIEVLDISDAGISDTVPDWFWDLSHTIADFNLSNNHIKGK-LPNL 378
P L ++VLD+S S +P+ +LS ++ +LS+N+ G LPNL
Sbjct: 329 NFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNL 388
Query: 379 SLRXXXXXXXXXXXXNYFEGLIPPLPSNASVLNLSRNKFSESISFLCSINGHKLEFLDLS 438
N F G IPP SN S +L L LS
Sbjct: 389 CQNPKNTLQELYLQNNGFTGKIPPTLSNCS----------------------ELVSLHLS 426
Query: 439 NNILSGRLPDCWMQFDRLAVLSLANNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSFF 498
N LSG +P +L L L N G+IP+ + ++ +++TL L N L GE+PS
Sbjct: 427 FNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGL 486
Query: 499 KSCSQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDL 558
+C+ L + L N L+GEIP WIG L L +L L +N F GNIP ++ + LDL
Sbjct: 487 SNCTNLNWISLSNNRLTGEIPKWIGR-LENLAILKLSNNSFSGNIPAELGDCRSLIWLDL 545
Query: 559 SLNNISGIIPKCLNNFTGMAQKSSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHE 618
+ N +G IP + +G K ++N Y + + E + +L ++G + E
Sbjct: 546 NTNLFNGTIPAAMFKQSG---KIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSE 602
Query: 619 YRSTL------------------------GLVKILDFSMNKLSGTIPEEIMDLVGLVALN 654
+ L G + LD S N LSG IP+EI + L LN
Sbjct: 603 QLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILN 662
Query: 655 LSRNNLTGQITPKIDQLKSLDFLDLSQNQFVGGIPSSLCQLSRLSVMNLSYNNLSGKIPL 714
L N+++G I ++ L+ L+ LDLS N+ G IP ++ L+ L+ ++LS NNLSG IP
Sbjct: 663 LGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE 722
Query: 715 GTQLQSFNASVYAGNPELCGLPL 737
Q ++F + + NP LCG PL
Sbjct: 723 MGQFETFPPAKFLNNPGLCGYPL 745
>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 = 85.5 bits (210), Expect = 9e-17, Method: Compositional matrix adjust.
Identities = 75/251 (29%), Positives = 107/251 (42%), Gaps = 49/251 (19%)
Query: 510 GKNGLSGEIPTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNISGIIPK 569
G N L G IP I + L +L L + G IP + Q+ + LD S N +SG +P
Sbjct: 85 GINNLVGPIPPAIAK-LTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPP 143
Query: 570 CLNNFTGMAQKSSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEYRSTLGLVKIL 629
+++ + GI F + + + Y S L +
Sbjct: 144 SISSLPNLV------------------GITFDGNRISGAI------PDSYGSFSKLFTSM 179
Query: 630 DFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQIT-----------------------P 666
S N+L+G IP +L L ++LSRN L G +
Sbjct: 180 TISRNRLTGKIPPTFANL-NLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLG 238
Query: 667 KIDQLKSLDFLDLSQNQFVGGIPSSLCQLSRLSVMNLSYNNLSGKIPLGTQLQSFNASVY 726
K+ K+L+ LDL N+ G +P L QL L +N+S+NNL G+IP G LQ F+ S Y
Sbjct: 239 KVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAY 298
Query: 727 AGNPELCGLPL 737
A N LCG PL
Sbjct: 299 ANNKCLCGSPL 309
Score = 60.5 bits (145), Expect = 3e-09, Method: Compositional matrix adjust.
Identities = 62/254 (24%), Positives = 103/254 (40%), Gaps = 28/254 (11%)
Query: 440 NILSGRLPDCWMQFDRLAVLSLANNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSFFK 499
N L G +P + +L L + + SG IP + + ++ TL N+L G LP
Sbjct: 87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSIS 146
Query: 500 SCSQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLS 559
S L+ + N +SG IP G +++ N+ G IP L+ + +DLS
Sbjct: 147 SLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLS 205
Query: 560 LNNISGIIPKCLNNFTGMAQKSSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEY 619
N + G + K++ + + N G L ++
Sbjct: 206 RNMLEGDASVLFG-----SDKNTQKIHLAKNSLAFDLGKVGLSKNLNG------------ 248
Query: 620 RSTLGLVKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDL 679
LD N++ GT+P+ + L L +LN+S NNL G+I P+ L+ D
Sbjct: 249 ---------LDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEI-PQGGNLQRFDVSAY 298
Query: 680 SQNQFVGGIPSSLC 693
+ N+ + G P C
Sbjct: 299 ANNKCLCGSPLPAC 312
Score = 53.9 bits (128), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 45/185 (24%), Positives = 79/185 (42%), Gaps = 46/185 (24%)
Query: 431 KLEFLDLSNNILSGRLPDCWMQFDRLAVLSLANNFFSGKIPKSMGFLHSIQTLSLYNNSL 490
+L +L +++ +SG +PD Q L L + N SG +P S+ L ++ ++ N +
Sbjct: 102 QLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRI 161
Query: 491 IGELPSFFKSCSQLIL-MDLGKNGLSGEIPTWIGE------------------------- 524
G +P + S S+L M + +N L+G+IP
Sbjct: 162 SGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDK 221
Query: 525 -------------------GLPK-LVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNIS 564
GL K L L L++N+ +G +P + QL ++ L++S NN+
Sbjct: 222 NTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLC 281
Query: 565 GIIPK 569
G IP+
Sbjct: 282 GEIPQ 286
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 60/231 (25%), Positives = 93/231 (40%), Gaps = 12/231 (5%)
Query: 322 MGPHFPKWLQTQNQIEVLDISDAGISDTVPDWFWDLSHTIADFNLSNNHIKGKLPNLSLR 381
+GP P + Q+ L I+ +S +PD+ + T+ + S N + G LP S+
Sbjct: 90 VGP-IPPAIAKLTQLHYLYITHTNVSGAIPDFLSQI-KTLVTLDFSYNALSGTLPP-SIS 146
Query: 382 XXXXXXXXXXXXNYFEGLIPPLPSNASVL----NLSRNKFSESISFLCSINGHKLEFLDL 437
N G IP + S L +SRN+ + I + L F+DL
Sbjct: 147 SLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIP--PTFANLNLAFVDL 204
Query: 438 SNNILSGRLPDCWMQFDRLAVLSLANNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSF 497
S N+L G + + LA N + + K +G ++ L L NN + G LP
Sbjct: 205 SRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGK-VGLSKNLNGLDLRNNRIYGTLPQG 263
Query: 498 FKSCSQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSLKSNKFHGNIPFQVC 548
L +++ N L GEIP G L + V + +NK P C
Sbjct: 264 LTQLKFLHSLNVSFNNLCGEIPQ--GGNLQRFDVSAYANNKCLCGSPLPAC 312
Score = 48.9 bits (115), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 77/293 (26%), Positives = 121/293 (41%), Gaps = 28/293 (9%)
Query: 3 EEREALLEFKQSLVDEYGILSSWGREDDKRDCC--YWRGVRCSNTTGHVIVLDLQVLVHS 60
++++ALL+ K+ L + LSSW DCC W GV C T V +L + +
Sbjct: 6 QDKQALLQIKKDLGNPT-TLSSW---LPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGLN 61
Query: 61 EPLKGTISPSXXXXXXXXXXXXSE-NDFSGSRIPEFIGSLNKLRYLSLSSAEFEGPIPSQ 119
P I S N+ G IP I L +L YL ++ G IP
Sbjct: 62 LPKPYPIPSSLANLPYLNFLYIGGINNLVGP-IPPAIAKLTQLHYLYITHTNVSGAIPDF 120
Query: 120 LGNLSRLKYLDLSYINLNKSRDWLRIIDKLPSLRTLNLEHCHLPPIIPSDLLHLNFSTSS 179
L + L LD SY L S I LP+L + + + IP + +FS
Sbjct: 121 LSQIKTLVTLDFSYNAL--SGTLPPSISSLPNLVGITFDGNRISGAIPDS--YGSFS-KL 175
Query: 180 LGALYLFENSLSSSIYPWLFNISSKLVVLDLDSNLLQG--SLLEPFDR---MVSLRTXXX 234
++ + N L+ I P N++ L +DL N+L+G S+L D+ + L
Sbjct: 176 FTSMTISRNRLTGKIPPTFANLN--LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSL 233
Query: 235 X--------XXXXXXXXXXKNRLNGTINQWLSRMYKLDALSLSGNSLTGVVTE 279
NR+ GT+ Q L+++ L +L++S N+L G + +
Sbjct: 234 AFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ 286
>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 = 47.0 bits (110), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 83/313 (26%), Positives = 127/313 (40%), Gaps = 44/313 (14%)
Query: 403 LPSNASVLNLSRNKFSESISFLCSINGHKLEFLDLSNNILSGRLPDCWMQFDRLAVLSLA 462
LPSN +VLNL+ N+ + +L LD N +S P+ L VL+L
Sbjct: 23 LPSNITVLNLTHNQLRR-LPPTNFTRYSQLAILDAGFNSISKLEPELCQILPLLKVLNLQ 81
Query: 463 NNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSGEIPTWI 522
+N S ++ F ++ L L +NS+ + FK+ LI +DL NGLS T +
Sbjct: 82 HNELSQISDQTFVFCTNLTELDLMSNSIHKIKSNPFKNQKNLIKLDLSHNGLSS---TKL 138
Query: 523 GEGL----------PKLVVLSLKSN--KFHGNIPFQVCQLSYIQILDLSLNNISGIIPKC 570
G G+ K +L+L+S +F GN S ++ LDLS N + P C
Sbjct: 139 GTGVQLENLQELLLAKNKILALRSEELEFLGN--------SSLRKLDLSSNPLKEFSPGC 190
Query: 571 LNNFTGMAQKSSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEYRSTLGLVKILD 630
+ +N + + T E+ E + + N+ +L ++L
Sbjct: 191 FQTIGKLFALLLNNAQLNPHLT-EKLCWELSNTSIQNL-------------SLANNQLLA 236
Query: 631 FSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFVGGIPS 690
S + SG + L L+LS NNL L SL +L L N P
Sbjct: 237 TSESTFSG------LKWTNLTQLDLSYNNLHDVGNGSFSYLPSLRYLSLEYNNIQRLSPR 290
Query: 691 SLCQLSRLSVMNL 703
S LS L ++L
Sbjct: 291 SFYGLSNLRYLSL 303
Score = 36.6 bits (83), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 93/372 (25%), Positives = 139/372 (37%), Gaps = 96/372 (25%)
Query: 418 SESISFLCSINGHKLEFLDLSNNILSGRLPDCWMQFDRLAVLSLANNFFSGKIPKSMGFL 477
SE + FL L LDLS+N L P C+ +L L L N + + + + +
Sbjct: 162 SEELEFL---GNSSLRKLDLSSNPLKEFSPGCFQTIGKLFALLLNNAQLNPHLTEKLCWE 218
Query: 478 ---HSIQTLSLYNNSLIGELPSFFKSC--SQLILMDLGKNGLSGEIPTWIGEG----LPK 528
SIQ LSL NN L+ S F + L +DL N L +G G LP
Sbjct: 219 LSNTSIQNLSLANNQLLATSESTFSGLKWTNLTQLDLSYNNLHD-----VGNGSFSYLPS 273
Query: 529 LVVLSLKSNKF--------------------------------HGNIP-FQVCQLSYIQI 555
L LSL+ N H NI F L Y++
Sbjct: 274 LRYLSLEYNNIQRLSPRSFYGLSNLRYLSLKRAFTKQSVSLASHPNIDDFSFQWLKYLEY 333
Query: 556 LDLSLNNISGIIPKCLNNFTGMAQKSSSNLAITSNYT-FERQGIEFLESYVDNVVLTWKG 614
L++ NNI N FTG+ S L+++ +T + E S + +LT
Sbjct: 334 LNMDDNNIPSTKS---NTFTGLV--SLKYLSLSKTFTSLQTLTNETFVSLAHSPLLTLNL 388
Query: 615 SQHEYR-------STLGLVKILDFSMN----KLSGTIPEEIMDLVGLVALNLSRNNL--- 660
+++ S LG ++ILD +N KLSG +E L + + LS N
Sbjct: 389 TKNHISKIANGTFSWLGQLRILDLGLNEIEQKLSG---QEWRGLRNIFEIYLSYNKYLQL 445
Query: 661 ---TGQITPKIDQL--------------------KSLDFLDLSQNQFVGGIPSSLCQLSR 697
+ + P + +L ++L LDLS N L L
Sbjct: 446 STSSFALVPSLQRLMLRRVALKNVDISPSPFRPLRNLTILDLSNNNIANINEDLLEGLEN 505
Query: 698 LSVMNLSYNNLS 709
L +++ +NNL+
Sbjct: 506 LEILDFQHNNLA 517
>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 = 43.1 bits (100), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 118/532 (22%), Positives = 204/532 (38%), Gaps = 89/532 (16%)
Query: 256 WLSRMYKLDALSLSGNSLTGVVTESVFSELSNLKALHLDDNSFTLKFSHDWIPPFQLIII 315
+ + L L LS N + + F +L++LK++ N L H+ + P Q +
Sbjct: 118 YFRNLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHE-LEPLQGKTL 176
Query: 316 LLGSCQMGPHFPK----WLQTQNQ-----IEVLDISDAGISDTVPDWFWD---------- 356
S + + W + N +E+LD+S G + + F +
Sbjct: 177 SFFSLAANSLYSRVSVDWGKCMNPFRNMVLEILDVSGNGWTVDITGNFSNAISKSQAFSL 236
Query: 357 -LSHTIADFNLSNNHIK-------GKLPNLSLRXXXXXXXXXXXXN--YFEGLIPPLPSN 406
L+H I ++IK L S+R N FE L +
Sbjct: 237 ILAHHIMGAGFGFHNIKDPDQNTFAGLARSSVRHLDLSHGFVFSLNSRVFETL-----KD 291
Query: 407 ASVLNLSRNKFSESISFLCSINGHKLEFLDLSNNILSGRLPDCWMQFDRLAVLSLANNFF 466
VLNL+ NK ++ I+ L+ L+LS N+L + ++A + L N
Sbjct: 292 LKVLNLAYNKINK-IADEAFYGLDNLQVLNLSYNLLGELYSSNFYGLPKVAYIDLQKNHI 350
Query: 467 SGKIPKSMGFLHSIQTLSLYNNSL-----IGELPSFFKSCSQLILMDLGKNGLSGEIPTW 521
+ ++ FL +QTL L +N+L I +P F S ++L+ L K L+ +
Sbjct: 351 AIIQDQTFKFLEKLQTLDLRDNALTTIHFIPSIPDIFLSGNKLV--TLPKINLTANL--- 405
Query: 522 IGEGLPKLVVLSLKSNKFHG-NIPFQVCQLSYIQILDLSLNNISGIIPKCLNNFTGMAQK 580
+ L N+ +I + + ++ ++QIL L+ N S C + T
Sbjct: 406 ----------IHLSENRLENLDILYFLLRVPHLQILILNQNRFSS----CSGDQTPSENP 451
Query: 581 SSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQH-EYRSTLGLVKILDFSMNKLSGT 639
S L + N + L W+ + L +++L + N L+
Sbjct: 452 SLEQLFLGENM----------------LQLAWETELCWDVFEGLSHLQVLYLNHNYLNSL 495
Query: 640 IPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFVGGIPSSLCQLSRLS 699
P L L L+L+ N LT + D +L+ LD+S+NQ + P LS
Sbjct: 496 PPGVFSHLTALRGLSLNSNRLT--VLSHNDLPANLEILDISRNQLLAPNPDVFVS---LS 550
Query: 700 VMNLSYNNLSGKIPLGTQLQSFNASVYAGNPELCGLPLRNKC--PDEDSAAS 749
V+++++N + L T + N + N + G P C PD S S
Sbjct: 551 VLDITHNKFICECELSTFINWLNHT----NVTIAGPPADIYCVYPDSFSGVS 598
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 70/287 (24%), Positives = 127/287 (44%), Gaps = 12/287 (4%)
Query: 403 LPSNASVLNLSRNKFSE--SISFLCSINGHKLEFLDLSNNILSGRLPDCWMQFDRLAVLS 460
LP+N +VLNL+ N+ + +F +L LD+ N +S P+ + L VL+
Sbjct: 28 LPTNITVLNLTHNQLRRLPAANF---TRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLN 84
Query: 461 LANNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSG-EIP 519
L +N S K+ F ++ L L +NS+ + F LI +DL NGLS ++
Sbjct: 85 LQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLG 144
Query: 520 TWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNISGIIPKCLNNFTGMAQ 579
T + + ++LS + + + S ++ L+LS N I P C + +
Sbjct: 145 TQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFG 204
Query: 580 KSSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEYRST-LGL----VKILDFSMN 634
+N+ + + T E+ +E + + N+ L+ +T LGL + +LD S N
Sbjct: 205 LFLNNVQLGPSLT-EKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYN 263
Query: 635 KLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQ 681
L+ + L L L NN+ + + L ++ +L+L +
Sbjct: 264 NLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKR 310
Score = 38.9 bits (89), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 57/200 (28%), Positives = 87/200 (43%), Gaps = 37/200 (18%)
Query: 409 VLNLSRNKFSESISFLCSINGHKLEFLDLSNNILSGRLP-DCWMQFDRLAVLSLANNFFS 467
+LNL++NK S+ S S GH LE LDL N + L W + + + L+ N +
Sbjct: 390 ILNLTKNKISKIESDAFSWLGH-LEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYL 448
Query: 468 GKIPKSMGFLHSIQTLSLYNNSL--IGELPSFFKSCSQLILMDLGK-----------NGL 514
S + S+Q L L +L + PS F+ L ++DL GL
Sbjct: 449 QLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGL 508
Query: 515 SG-EI-------------------PTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQ-LSYI 553
EI P + +GL L +L+L+SN F IP +V + L +
Sbjct: 509 EKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGF-DEIPVEVFKDLFEL 567
Query: 554 QILDLSLNNISGIIPKCLNN 573
+I+DL LNN++ + NN
Sbjct: 568 KIIDLGLNNLNTLPASVFNN 587
Score = 32.7 bits (73), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 144/595 (24%), Positives = 233/595 (39%), Gaps = 85/595 (14%)
Query: 124 SRLKYLDLSYINLNKSRDWLRIIDKLPSLRTLNLEHCHLPPIIPSDLLHLNFS-TSSLGA 182
S+L LD+ + ++K + KLP L+ LNL+H L S L F+ ++L
Sbjct: 54 SQLTSLDVGFNTISKLEP--ELCQKLPMLKVLNLQHNEL-----SQLSDKTFAFCTNLTE 106
Query: 183 LYLFENSLSSSIYPWLFNISSKLVVLDLDSNLLQGSLLEPFDRMVSLRTXXXXXXXXXXX 242
L+L NS+ I F L+ LDL N L + L
Sbjct: 107 LHLMSNSI-QKIKNNPFVKQKNLITLDLSHNGLSSTKL---------------------- 143
Query: 243 XXXKNRLNGTINQWLSRMYKLDALSLSGNSLTGVVTES--VFSELSNLKALHLDDNSFTL 300
GT ++ L L LS N + + +E +F+ S+LK L L N
Sbjct: 144 --------GT----QVQLENLQELLLSNNKIQALKSEELDIFAN-SSLKKLELSSNQIK- 189
Query: 301 KFSHDWIPPF-QLIIILLGSCQMGPHFPKWLQTQ---NQIEVLDISDAGISDTVPDWFWD 356
+FS +L + L + Q+GP + L + I L +S++ +S T F
Sbjct: 190 EFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLG 249
Query: 357 L---SHTIADFNLSNNHIKGK-----LPNLSLRXXXXXXXXXXXXNYFEGLIPPLPSNAS 408
L + T+ D + +N ++ G LP L + GL N
Sbjct: 250 LKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLF-----NVR 304
Query: 409 VLNLSRNKFSESISF--LCSINGHK------LEFLDLSNNILSGRLPDCWMQFDRLAVLS 460
LNL R+ +SIS L I+ LE L++ +N + G + + L LS
Sbjct: 305 YLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLS 364
Query: 461 LANNFFSGKIPKSMGFL---HS-IQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSG 516
L+N+F S + + F+ HS + L+L N + F L ++DLG N +
Sbjct: 365 LSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQ 424
Query: 517 EIPTWIGEGLPKLVVLSLKSNKF---HGNIPFQVCQLSYIQILDLSLNNI-SGIIP-KCL 571
E+ GL + + L NK+ N V L + + ++L N+ S P + L
Sbjct: 425 ELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPL 484
Query: 572 NNFTGMAQKSSSNLAITSNYTFERQGIEFLESYVDNVVLTWK----GSQHEYRSTLGLVK 627
N T + +++ I + + +E L+ +N+ WK G + L +
Sbjct: 485 RNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLH 544
Query: 628 ILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQN 682
IL+ N E DL L ++L NNL + SL L+L +N
Sbjct: 545 ILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKN 599
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 70/287 (24%), Positives = 127/287 (44%), Gaps = 12/287 (4%)
Query: 403 LPSNASVLNLSRNKFSE--SISFLCSINGHKLEFLDLSNNILSGRLPDCWMQFDRLAVLS 460
LP+N +VLNL+ N+ + +F +L LD+ N +S P+ + L VL+
Sbjct: 33 LPTNITVLNLTHNQLRRLPAANF---TRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLN 89
Query: 461 LANNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSG-EIP 519
L +N S K+ F ++ L L +NS+ + F LI +DL NGLS ++
Sbjct: 90 LQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLG 149
Query: 520 TWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNISGIIPKCLNNFTGMAQ 579
T + + ++LS + + + S ++ L+LS N I P C + +
Sbjct: 150 TQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFG 209
Query: 580 KSSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEYRST-LGL----VKILDFSMN 634
+N+ + + T E+ +E + + N+ L+ +T LGL + +LD S N
Sbjct: 210 LFLNNVQLGPSLT-EKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYN 268
Query: 635 KLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQ 681
L+ + L L L NN+ + + L ++ +L+L +
Sbjct: 269 NLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKR 315
Score = 38.9 bits (89), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 57/200 (28%), Positives = 87/200 (43%), Gaps = 37/200 (18%)
Query: 409 VLNLSRNKFSESISFLCSINGHKLEFLDLSNNILSGRLP-DCWMQFDRLAVLSLANNFFS 467
+LNL++NK S+ S S GH LE LDL N + L W + + + L+ N +
Sbjct: 395 ILNLTKNKISKIESDAFSWLGH-LEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYL 453
Query: 468 GKIPKSMGFLHSIQTLSLYNNSL--IGELPSFFKSCSQLILMDLGK-----------NGL 514
S + S+Q L L +L + PS F+ L ++DL GL
Sbjct: 454 QLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGL 513
Query: 515 SG-EI-------------------PTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQ-LSYI 553
EI P + +GL L +L+L+SN F IP +V + L +
Sbjct: 514 EKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGF-DEIPVEVFKDLFEL 572
Query: 554 QILDLSLNNISGIIPKCLNN 573
+I+DL LNN++ + NN
Sbjct: 573 KIIDLGLNNLNTLPASVFNN 592
Score = 32.7 bits (73), Expect = 0.87, Method: Compositional matrix adjust.
Identities = 144/595 (24%), Positives = 233/595 (39%), Gaps = 85/595 (14%)
Query: 124 SRLKYLDLSYINLNKSRDWLRIIDKLPSLRTLNLEHCHLPPIIPSDLLHLNFS-TSSLGA 182
S+L LD+ + ++K + KLP L+ LNL+H L S L F+ ++L
Sbjct: 59 SQLTSLDVGFNTISKLEP--ELCQKLPMLKVLNLQHNEL-----SQLSDKTFAFCTNLTE 111
Query: 183 LYLFENSLSSSIYPWLFNISSKLVVLDLDSNLLQGSLLEPFDRMVSLRTXXXXXXXXXXX 242
L+L NS+ I F L+ LDL N L + L
Sbjct: 112 LHLMSNSI-QKIKNNPFVKQKNLITLDLSHNGLSSTKL---------------------- 148
Query: 243 XXXKNRLNGTINQWLSRMYKLDALSLSGNSLTGVVTES--VFSELSNLKALHLDDNSFTL 300
GT ++ L L LS N + + +E +F+ S+LK L L N
Sbjct: 149 --------GT----QVQLENLQELLLSNNKIQALKSEELDIFAN-SSLKKLELSSNQIK- 194
Query: 301 KFSHDWIPPF-QLIIILLGSCQMGPHFPKWLQTQ---NQIEVLDISDAGISDTVPDWFWD 356
+FS +L + L + Q+GP + L + I L +S++ +S T F
Sbjct: 195 EFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLG 254
Query: 357 L---SHTIADFNLSNNHIKGK-----LPNLSLRXXXXXXXXXXXXNYFEGLIPPLPSNAS 408
L + T+ D + +N ++ G LP L + GL N
Sbjct: 255 LKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLF-----NVR 309
Query: 409 VLNLSRNKFSESISF--LCSINGHK------LEFLDLSNNILSGRLPDCWMQFDRLAVLS 460
LNL R+ +SIS L I+ LE L++ +N + G + + L LS
Sbjct: 310 YLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLS 369
Query: 461 LANNFFSGKIPKSMGFL---HS-IQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSG 516
L+N+F S + + F+ HS + L+L N + F L ++DLG N +
Sbjct: 370 LSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQ 429
Query: 517 EIPTWIGEGLPKLVVLSLKSNKF---HGNIPFQVCQLSYIQILDLSLNNI-SGIIP-KCL 571
E+ GL + + L NK+ N V L + + ++L N+ S P + L
Sbjct: 430 ELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPL 489
Query: 572 NNFTGMAQKSSSNLAITSNYTFERQGIEFLESYVDNVVLTWK----GSQHEYRSTLGLVK 627
N T + +++ I + + +E L+ +N+ WK G + L +
Sbjct: 490 RNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLH 549
Query: 628 ILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQN 682
IL+ N E DL L ++L NNL + SL L+L +N
Sbjct: 550 ILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKN 604
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 70/287 (24%), Positives = 127/287 (44%), Gaps = 12/287 (4%)
Query: 403 LPSNASVLNLSRNKFSE--SISFLCSINGHKLEFLDLSNNILSGRLPDCWMQFDRLAVLS 460
LP+N +VLNL+ N+ + +F +L LD+ N +S P+ + L VL+
Sbjct: 23 LPTNITVLNLTHNQLRRLPAANF---TRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLN 79
Query: 461 LANNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSG-EIP 519
L +N S K+ F ++ L L +NS+ + F LI +DL NGLS ++
Sbjct: 80 LQHNELSQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSSTKLG 139
Query: 520 TWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNISGIIPKCLNNFTGMAQ 579
T + + ++LS + + + S ++ L+LS N I P C + +
Sbjct: 140 TQVQLENLQELLLSNNKIQALKSEELDIFANSSLKKLELSSNQIKEFSPGCFHAIGRLFG 199
Query: 580 KSSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEYRST-LGL----VKILDFSMN 634
+N+ + + T E+ +E + + N+ L+ +T LGL + +LD S N
Sbjct: 200 LFLNNVQLGPSLT-EKLCLELANTSIRNLSLSNSQLSTTSNTTFLGLKWTNLTMLDLSYN 258
Query: 635 KLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQ 681
L+ + L L L NN+ + + L ++ +L+L +
Sbjct: 259 NLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLFNVRYLNLKR 305
Score = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 57/200 (28%), Positives = 87/200 (43%), Gaps = 37/200 (18%)
Query: 409 VLNLSRNKFSESISFLCSINGHKLEFLDLSNNILSGRLP-DCWMQFDRLAVLSLANNFFS 467
+LNL++NK S+ S S GH LE LDL N + L W + + + L+ N +
Sbjct: 385 ILNLTKNKISKIESDAFSWLGH-LEVLDLGLNEIGQELTGQEWRGLENIFEIYLSYNKYL 443
Query: 468 GKIPKSMGFLHSIQTLSLYNNSL--IGELPSFFKSCSQLILMDLGK-----------NGL 514
S + S+Q L L +L + PS F+ L ++DL GL
Sbjct: 444 QLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGL 503
Query: 515 SG-EI-------------------PTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQ-LSYI 553
EI P + +GL L +L+L+SN F IP +V + L +
Sbjct: 504 EKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGF-DEIPVEVFKDLFEL 562
Query: 554 QILDLSLNNISGIIPKCLNN 573
+I+DL LNN++ + NN
Sbjct: 563 KIIDLGLNNLNTLPASVFNN 582
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 144/595 (24%), Positives = 233/595 (39%), Gaps = 85/595 (14%)
Query: 124 SRLKYLDLSYINLNKSRDWLRIIDKLPSLRTLNLEHCHLPPIIPSDLLHLNFS-TSSLGA 182
S+L LD+ + ++K + KLP L+ LNL+H L S L F+ ++L
Sbjct: 49 SQLTSLDVGFNTISKLEP--ELCQKLPMLKVLNLQHNEL-----SQLSDKTFAFCTNLTE 101
Query: 183 LYLFENSLSSSIYPWLFNISSKLVVLDLDSNLLQGSLLEPFDRMVSLRTXXXXXXXXXXX 242
L+L NS+ I F L+ LDL N L + L
Sbjct: 102 LHLMSNSI-QKIKNNPFVKQKNLITLDLSHNGLSSTKL---------------------- 138
Query: 243 XXXKNRLNGTINQWLSRMYKLDALSLSGNSLTGVVTES--VFSELSNLKALHLDDNSFTL 300
GT ++ L L LS N + + +E +F+ S+LK L L N
Sbjct: 139 --------GT----QVQLENLQELLLSNNKIQALKSEELDIFAN-SSLKKLELSSNQIK- 184
Query: 301 KFSHDWIPPF-QLIIILLGSCQMGPHFPKWLQTQ---NQIEVLDISDAGISDTVPDWFWD 356
+FS +L + L + Q+GP + L + I L +S++ +S T F
Sbjct: 185 EFSPGCFHAIGRLFGLFLNNVQLGPSLTEKLCLELANTSIRNLSLSNSQLSTTSNTTFLG 244
Query: 357 L---SHTIADFNLSNNHIKGK-----LPNLSLRXXXXXXXXXXXXNYFEGLIPPLPSNAS 408
L + T+ D + +N ++ G LP L + GL N
Sbjct: 245 LKWTNLTMLDLSYNNLNVVGNDSFAWLPQLEYFFLEYNNIQHLFSHSLHGLF-----NVR 299
Query: 409 VLNLSRNKFSESISF--LCSINGHK------LEFLDLSNNILSGRLPDCWMQFDRLAVLS 460
LNL R+ +SIS L I+ LE L++ +N + G + + L LS
Sbjct: 300 YLNLKRSFTKQSISLASLPKIDDFSFQWLKCLEHLNMEDNDIPGIKSNMFTGLINLKYLS 359
Query: 461 LANNFFSGKIPKSMGFL---HS-IQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSG 516
L+N+F S + + F+ HS + L+L N + F L ++DLG N +
Sbjct: 360 LSNSFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQ 419
Query: 517 EIPTWIGEGLPKLVVLSLKSNKF---HGNIPFQVCQLSYIQILDLSLNNI-SGIIP-KCL 571
E+ GL + + L NK+ N V L + + ++L N+ S P + L
Sbjct: 420 ELTGQEWRGLENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSSPSPFQPL 479
Query: 572 NNFTGMAQKSSSNLAITSNYTFERQGIEFLESYVDNVVLTWK----GSQHEYRSTLGLVK 627
N T + +++ I + + +E L+ +N+ WK G + L +
Sbjct: 480 RNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLH 539
Query: 628 ILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQN 682
IL+ N E DL L ++L NNL + SL L+L +N
Sbjct: 540 ILNLESNGFDEIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKN 594
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 44/169 (26%), Positives = 75/169 (44%), Gaps = 24/169 (14%)
Query: 403 LPSNASVLNLSRNKFSESISFLCSINGHKLEFLDLSNNILSGRLPDCWMQFDRLAVLSLA 462
LP + ++L+L NK +E I N L L L NN +S P + +L L L+
Sbjct: 50 LPPDTALLDLQNNKITE-IKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLS 108
Query: 463 NNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSGEIPTWI 522
N ++P+ M ++Q L ++ N + S F +Q+I+++LG N L
Sbjct: 109 KNQLK-ELPEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSS----- 160
Query: 523 GEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNISGIIPKCL 571
+++ F G + +LSYI+I D ++ I +P L
Sbjct: 161 ----------GIENGAFQG-----MKKLSYIRIADTNITTIPQGLPPSL 194
>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 = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 44/169 (26%), Positives = 75/169 (44%), Gaps = 24/169 (14%)
Query: 403 LPSNASVLNLSRNKFSESISFLCSINGHKLEFLDLSNNILSGRLPDCWMQFDRLAVLSLA 462
LP + ++L+L NK +E I N L L L NN +S P + +L L L+
Sbjct: 50 LPPDTALLDLQNNKITE-IKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLS 108
Query: 463 NNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSGEIPTWI 522
N ++P+ M ++Q L ++ N + S F +Q+I+++LG N L
Sbjct: 109 KNQLK-ELPEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSS----- 160
Query: 523 GEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNISGIIPKCL 571
+++ F G + +LSYI+I D ++ I +P L
Sbjct: 161 ----------GIENGAFQG-----MKKLSYIRIADTNITTIPQGLPPSL 194
>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 = 40.0 bits (92), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 41/139 (29%), Positives = 66/139 (47%), Gaps = 2/139 (1%)
Query: 403 LPSNASVLNLSRNKFSESISFLCSINGHKLEFLDLSNNILSGRLPDCWMQFDRLAVLSLA 462
LPS ++L+LS N S + L L LS+N L+ + ++ L L L+
Sbjct: 37 LPSYTALLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLS 96
Query: 463 NNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSGEIPTWI 522
+N L +++ L LYNN ++ + F+ +QL + L +N +S I
Sbjct: 97 SNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELI 156
Query: 523 GEG--LPKLVVLSLKSNKF 539
+G LPKL++L L SNK
Sbjct: 157 KDGNKLPKLMLLDLSSNKL 175
Score = 29.6 bits (65), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 39/121 (32%), Positives = 52/121 (42%), Gaps = 12/121 (9%)
Query: 626 VKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFV 685
++ LD S N L DL L L L N++ + + L L LSQNQ +
Sbjct: 90 LRYLDLSSNHLHTLDEFLFSDLQALEVLLLYNNHIVVVDRNAFEDMAQLQKLYLSQNQ-I 148
Query: 686 GGIPSSLC----QLSRLSVMNLSYNNLSGKIPLGTQLQSFNASVYAG-----NPELCGLP 736
P L +L +L +++LS N L K+PL T LQ A V G NP C
Sbjct: 149 SRFPVELIKDGNKLPKLMLLDLSSNKLK-KLPL-TDLQKLPAWVKNGLYLHNNPLECDCK 206
Query: 737 L 737
L
Sbjct: 207 L 207
>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 = 39.7 bits (91), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 61/199 (30%), Positives = 87/199 (43%), Gaps = 15/199 (7%)
Query: 516 GEIPTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNISGIIPKCLNNFT 575
G+ PT L L L+ SNK G F L ++ LDLS N +S ++F
Sbjct: 341 GQFPTL---KLKSLKRLTFTSNK--GGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFG 395
Query: 576 GMAQKS---SSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEYRSTLGLVKI--LD 630
++ K S N IT + F G+E LE ++D K E+ L L + LD
Sbjct: 396 TISLKYLDLSFNGVITMSSNF--LGLEQLE-HLDFQHSNLK-QMSEFSVFLSLRNLIYLD 451
Query: 631 FSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKI-DQLKSLDFLDLSQNQFVGGIP 689
S L L L ++ N+ P I +L++L FLDLSQ Q P
Sbjct: 452 ISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSP 511
Query: 690 SSLCQLSRLSVMNLSYNNL 708
++ LS L V+N+S+NN
Sbjct: 512 TAFNSLSSLQVLNMSHNNF 530
Score = 36.6 bits (83), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 56/208 (26%), Positives = 91/208 (43%), Gaps = 17/208 (8%)
Query: 432 LEFLDLSNNILSGRLPDCWMQFD----RLAVLSLANNFFSGKIPKSMGFLHSIQTLSL-Y 486
LEFLDLS N LS + C Q D L L L+ F+G I S FL Q L +
Sbjct: 373 LEFLDLSRNGLSFK--GCCSQSDFGTISLKYLDLS---FNGVITMSSNFLGLEQLEHLDF 427
Query: 487 NNSLIGELPSF--FKSCSQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSLKSNKFHGN-I 543
+S + ++ F F S LI +D+ I GL L VL + N F N +
Sbjct: 428 QHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAF-NGIFNGLSSLEVLKMAGNSFQENFL 486
Query: 544 PFQVCQLSYIQILDLSLNNISGIIPKCLNNFTGMAQKSSSNLAITSNYTFERQ---GIEF 600
P +L + LDLS + + P N+ + + + S+ S TF + ++
Sbjct: 487 PDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQV 546
Query: 601 LESYVDNVVLTWKGSQHEYRSTLGLVKI 628
L+ +++++ + K + S+L + +
Sbjct: 547 LDYSLNHIMTSKKQELQHFPSSLAFLNL 574
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 48/111 (43%), Gaps = 9/111 (8%)
Query: 85 NDFSGSRIPEFIGSLNKLRYLSLSSAEFEGPIPSQLGNLSRLKYLDLSYINLNKSRDWLR 144
N F + +P+ L L +L LS + E P+ +LS L+ L++S+ N
Sbjct: 479 NSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFS------ 532
Query: 145 IIDKLP--SLRTLNLEHCHLPPIIPSDLLHLNFSTSSLGALYLFENSLSSS 193
+D P L +L + L I+ S L SSL L L +N + +
Sbjct: 533 -LDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACT 582
Score = 30.0 bits (66), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 35/85 (41%), Gaps = 1/85 (1%)
Query: 626 VKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFV 685
+ LD S +L P L L LN+S NN T L SL LD S N +
Sbjct: 496 LTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIM 555
Query: 686 GGIPSSLCQL-SRLSVMNLSYNNLS 709
L S L+ +NL+ N+ +
Sbjct: 556 TSKKQELQHFPSSLAFLNLTQNDFA 580
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 39.7 bits (91), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 45/186 (24%), Positives = 85/186 (45%), Gaps = 32/186 (17%)
Query: 395 YFEGLIPPLPSNASVLNLSRNKFSESISFLCSINGHKLEFLDLSNNILSGRLPDCWMQFD 454
+ + PP PS+ + LN ++N F++S+ CS +L+ L L N
Sbjct: 343 FIHMVCPPSPSSFTFLNFTQNVFTDSVFQGCS-TLKRLQTLILQRN-------------- 387
Query: 455 RLAVLSLANNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSFFKSCS---QLILMDLGK 511
L N F + K+M S++TL + NSL ++ ++C+ +++++L
Sbjct: 388 -----GLKNFFKVALMTKNMS---SLETLDVSLNSLNSH--AYDRTCAWAESILVLNLSS 437
Query: 512 NGLSGEIPTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNISGIIPKCL 571
N L+G + + PK+ VL L +N+ IP V L +Q L+++ N + +
Sbjct: 438 NMLTGSVFRCLP---PKVKVLDLHNNRIMS-IPKDVTHLQALQELNVASNQLKSVPDGVF 493
Query: 572 NNFTGM 577
+ T +
Sbjct: 494 DRLTSL 499
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 37/138 (26%), Positives = 67/138 (48%), Gaps = 25/138 (18%)
Query: 178 SSLGALYLFENSLSSSIYPWLFNISSKLVVLDLDSNLLQGSL---LEPFDRMVSLRTXXX 234
SSL L + NSL+S Y + ++VL+L SN+L GS+ L P +++ L
Sbjct: 403 SSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDLH---- 458
Query: 235 XXXXXXXXXXXKNRLNGTINQWLSRMYKLDALSLSGNSLTGVVTESVFSELSNLKALHLD 294
NR+ +I + ++ + L L+++ N L V + VF L++L+ + L
Sbjct: 459 -----------NNRI-MSIPKDVTHLQALQELNVASNQLKS-VPDGVFDRLTSLQYIWLH 505
Query: 295 DNSFT-----LKFSHDWI 307
DN + +++ +WI
Sbjct: 506 DNPWDCTCPGIRYLSEWI 523
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 626 VKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFV 685
VK+LD N++ +IP+++ L L LN++ N L D+L SL ++ L N +
Sbjct: 452 VKVLDLHNNRI-MSIPKDVTHLQALQELNVASNQLKSVPDGVFDRLTSLQYIWLHDNPWD 510
Query: 686 GGIP 689
P
Sbjct: 511 CTCP 514
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 34/118 (28%), Positives = 51/118 (43%), Gaps = 15/118 (12%)
Query: 626 VKILDFSMNKLSGTIPEEIMDLV-GLVALNLSRNNLTGQI----TPKIDQLKSLDFLDLS 680
++ LD S+N L+ + ++ LNLS N LTG + PK+ LDL
Sbjct: 405 LETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKV------KVLDLH 458
Query: 681 QNQFVGGIPSSLCQLSRLSVMNLSYNNLSGKIPLGT--QLQSFNASVYAGNPELCGLP 736
N+ + IP + L L +N++ N L +P G +L S NP C P
Sbjct: 459 NNR-IMSIPKDVTHLQALQELNVASNQLKS-VPDGVFDRLTSLQYIWLHDNPWDCTCP 514
>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 = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 54/205 (26%), Positives = 87/205 (42%), Gaps = 29/205 (14%)
Query: 507 MDLGKNGLSGEIPTWIGEGLPKLVVLSLKSN--KFHGNIPFQVCQLSYIQILDLSLNNIS 564
++L N L +P + + L +L LSL SN F G + ++ LDLS N
Sbjct: 33 LELESNKLQS-LPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFN--- 88
Query: 565 GIIPKCLNNFTGMAQKSSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEYRSTLG 624
G+I +NF G+ Q + F+ ++ + + +V L+ +
Sbjct: 89 GVITMS-SNFLGLEQ--------LEHLDFQHSNLKQMSEF--SVFLSLRN---------- 127
Query: 625 LVKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKI-DQLKSLDFLDLSQNQ 683
+ LD S L L L ++ N+ P I +L++L FLDLSQ Q
Sbjct: 128 -LIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ 186
Query: 684 FVGGIPSSLCQLSRLSVMNLSYNNL 708
P++ LS L V+N+S+NN
Sbjct: 187 LEQLSPTAFNSLSSLQVLNMSHNNF 211
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/52 (30%), Positives = 27/52 (51%)
Query: 85 NDFSGSRIPEFIGSLNKLRYLSLSSAEFEGPIPSQLGNLSRLKYLDLSYINL 136
N F + +P+ L L +L LS + E P+ +LS L+ L++S+ N
Sbjct: 160 NSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNF 211
Score = 29.6 bits (65), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 35/85 (41%), Gaps = 1/85 (1%)
Query: 626 VKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFV 685
+ LD S +L P L L LN+S NN T L SL LD S N +
Sbjct: 177 LTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIM 236
Query: 686 GGIPSSLCQL-SRLSVMNLSYNNLS 709
L S L+ +NL+ N+ +
Sbjct: 237 TSKKQELQHFPSSLAFLNLTQNDFA 261
>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 = 38.5 bits (88), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 61/199 (30%), Positives = 86/199 (43%), Gaps = 15/199 (7%)
Query: 516 GEIPTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNISGIIPKCLNNFT 575
G+ PT L L L+ SNK G F L ++ LDLS N +S ++F
Sbjct: 317 GQFPTL---KLKSLKRLTFTSNK--GGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFG 371
Query: 576 GMAQKS---SSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEYRSTLGLVKI--LD 630
+ K S N IT + F G+E LE ++D K E+ L L + LD
Sbjct: 372 TTSLKYLDLSFNGVITMSSNF--LGLEQLE-HLDFQHSNLK-QMSEFSVFLSLRNLIYLD 427
Query: 631 FSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKI-DQLKSLDFLDLSQNQFVGGIP 689
S L L L ++ N+ P I +L++L FLDLSQ Q P
Sbjct: 428 ISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSP 487
Query: 690 SSLCQLSRLSVMNLSYNNL 708
++ LS L V+N+S+NN
Sbjct: 488 TAFNSLSSLQVLNMSHNNF 506
Score = 36.6 bits (83), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 56/208 (26%), Positives = 91/208 (43%), Gaps = 17/208 (8%)
Query: 432 LEFLDLSNNILSGRLPDCWMQFD----RLAVLSLANNFFSGKIPKSMGFLHSIQTLSL-Y 486
LEFLDLS N LS + C Q D L L L+ F+G I S FL Q L +
Sbjct: 349 LEFLDLSRNGLSFK--GCCSQSDFGTTSLKYLDLS---FNGVITMSSNFLGLEQLEHLDF 403
Query: 487 NNSLIGELPSF--FKSCSQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSLKSNKFHGN-I 543
+S + ++ F F S LI +D+ I GL L VL + N F N +
Sbjct: 404 QHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAF-NGIFNGLSSLEVLKMAGNSFQENFL 462
Query: 544 PFQVCQLSYIQILDLSLNNISGIIPKCLNNFTGMAQKSSSNLAITSNYTFERQ---GIEF 600
P +L + LDLS + + P N+ + + + S+ S TF + ++
Sbjct: 463 PDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQV 522
Query: 601 LESYVDNVVLTWKGSQHEYRSTLGLVKI 628
L+ +++++ + K + S+L + +
Sbjct: 523 LDYSLNHIMTSKKQELQHFPSSLAFLNL 550
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 48/111 (43%), Gaps = 9/111 (8%)
Query: 85 NDFSGSRIPEFIGSLNKLRYLSLSSAEFEGPIPSQLGNLSRLKYLDLSYINLNKSRDWLR 144
N F + +P+ L L +L LS + E P+ +LS L+ L++S+ N
Sbjct: 455 NSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFS------ 508
Query: 145 IIDKLP--SLRTLNLEHCHLPPIIPSDLLHLNFSTSSLGALYLFENSLSSS 193
+D P L +L + L I+ S L SSL L L +N + +
Sbjct: 509 -LDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACT 558
Score = 30.0 bits (66), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 26/85 (30%), Positives = 35/85 (41%), Gaps = 1/85 (1%)
Query: 626 VKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFV 685
+ LD S +L P L L LN+S NN T L SL LD S N +
Sbjct: 472 LTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIM 531
Query: 686 GGIPSSLCQL-SRLSVMNLSYNNLS 709
L S L+ +NL+ N+ +
Sbjct: 532 TSKKQELQHFPSSLAFLNLTQNDFA 556
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 38.1 bits (87), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 68/229 (29%), Positives = 95/229 (41%), Gaps = 18/229 (7%)
Query: 516 GEIPTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNISGIIPKCLNNFT 575
G+ PT L L L+ SNK G F L ++ LDLS N +S ++F
Sbjct: 317 GQFPTL---KLKSLKRLTFTSNK--GGNAFSEVDLPSLEFLDLSRNGLSFKGCCSQSDFG 371
Query: 576 GMAQKS---SSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEYRSTLGLVKI--LD 630
+ K S N IT + F G+E LE ++D K E+ L L + LD
Sbjct: 372 TTSLKYLDLSFNGVITMSSNF--LGLEQLE-HLDFQHSNLK-QMSEFSVFLSLRNLIYLD 427
Query: 631 FSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKI-DQLKSLDFLDLSQNQFVGGIP 689
S L L L ++ N+ P I +L++L FLDLSQ Q P
Sbjct: 428 ISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSP 487
Query: 690 SSLCQLSRLSVMNLSYNNLSGKIPLGT--QLQSFNASVYAGNPELCGLP 736
++ LS L V+N++ N L +P G +L S NP C P
Sbjct: 488 TAFNSLSSLQVLNMASNQLKS-VPDGIFDRLTSLQKIWLHTNPWDCSCP 535
Score = 35.4 bits (80), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 52/174 (29%), Positives = 75/174 (43%), Gaps = 16/174 (9%)
Query: 432 LEFLDLSNNILSGRLPDCWMQFD----RLAVLSLANNFFSGKIPKSMGFLHSIQTLSL-Y 486
LEFLDLS N LS + C Q D L L L+ F+G I S FL Q L +
Sbjct: 349 LEFLDLSRNGLSFK--GCCSQSDFGTTSLKYLDLS---FNGVITMSSNFLGLEQLEHLDF 403
Query: 487 NNSLIGELPSF--FKSCSQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSLKSNKFHGN-I 543
+S + ++ F F S LI +D+ I GL L VL + N F N +
Sbjct: 404 QHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAF-NGIFNGLSSLEVLKMAGNSFQENFL 462
Query: 544 PFQVCQLSYIQILDLSLNNISGIIPKCLNNFTGMA--QKSSSNLAITSNYTFER 595
P +L + LDLS + + P N+ + + +S+ L + F+R
Sbjct: 463 PDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDR 516
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/71 (29%), Positives = 35/71 (49%), Gaps = 2/71 (2%)
Query: 85 NDFSGSRIPEFIGSLNKLRYLSLSSAEFEGPIPSQLGNLSRLKYLDLSYINLNKSRDWLR 144
N F + +P+ L L +L LS + E P+ +LS L+ L+++ L D
Sbjct: 455 NSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDG-- 512
Query: 145 IIDKLPSLRTL 155
I D+L SL+ +
Sbjct: 513 IFDRLTSLQKI 523
>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 = 37.4 bits (85), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 39/143 (27%), Positives = 62/143 (43%), Gaps = 8/143 (5%)
Query: 434 FLDLSNNILSGRLPDCWMQFDRLAVLSLANNFFSGKIPKSMGFLHSIQTLSLYNNSLIGE 493
LDL NN +S D + L L L NN S K+ L +Q L + N L+
Sbjct: 58 LLDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHLVEI 117
Query: 494 LPSFFKSCSQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSLKSNKFH--GNIP--FQVCQ 549
P+ S +L + D N + ++P + GL + + + N G P F +
Sbjct: 118 PPNLPSSLVELRIHD---NRIR-KVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLK 173
Query: 550 LSYIQILDLSLNNISGIIPKCLN 572
L+Y++I + L I +P+ LN
Sbjct: 174 LNYLRISEAKLTGIPKDLPETLN 196
>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 = 35.8 bits (81), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 51/214 (23%), Positives = 87/214 (40%), Gaps = 28/214 (13%)
Query: 99 LNKLRYLSLSSAEFEGPIPSQLGNLSRLKYLDLSYINLNKSRDWLRIIDKLPSLRTLNLE 158
LN L L+L L +L L L L ++N+N RD+ +L L+ L +
Sbjct: 151 LNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDY--SFKRLYRLKVLEIS 208
Query: 159 H-CHLPPIIPSDLLHLNFSTSSLGALYLFEN---SLSSSIYPWLFNISSKLVVLDLDSNL 214
H +L + P+ L LN ++ S+ L ++ +Y N+S + +
Sbjct: 209 HWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNLSYNPI------ST 262
Query: 215 LQGSLLEPFDRMVSLRTXXXXXXXXXXXXXXKNRLNGTINQWLSR-MYKLDALSLSGNSL 273
++GS+L R+ ++ + + R + L L++SGN L
Sbjct: 263 IEGSMLHELLRLQEIQLVGGQL--------------AVVEPYAFRGLNYLRVLNVSGNQL 308
Query: 274 TGVVTESVFSELSNLKALHLDDNSFTLKFSHDWI 307
T + ESVF + NL+ L LD N W+
Sbjct: 309 T-TLEESVFHSVGNLETLILDSNPLACDCRLLWV 341
Score = 32.7 bits (73), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 69/303 (22%), Positives = 116/303 (38%), Gaps = 54/303 (17%)
Query: 433 EFLDLSNNILSGRLPDCWMQFDRLAVLSLANNFFSGKIPKSMGFLHSIQTLSLYNNSLIG 492
LDL N + D + F L L L N S P + L +++TL L +N L
Sbjct: 35 RLLDLGKNRIKTLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKL 94
Query: 493 ELPSFFKSCSQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSY 552
F S L +D+ +N + + ++ + L L L + N L+
Sbjct: 95 IPLGVFTGLSNLTKLDISENKIVILL-DYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNS 153
Query: 553 IQILDLSLNNISGIIPKCLNNFTGMAQKSSSNLAITS--NYTFERQGIEFLESYVDNVVL 610
++ L L N++ I + L++ G+ +L I + +Y+F+R
Sbjct: 154 LEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRL-------------- 199
Query: 611 TWKGSQHEYRSTLGLVKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQ 670
YR +K+L+ S T+ + + L +L+++ NLT +
Sbjct: 200 --------YR-----LKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRH 246
Query: 671 LKSLDFLDLSQN-------------------QFVGGI-----PSSLCQLSRLSVMNLSYN 706
L L FL+LS N Q VGG P + L+ L V+N+S N
Sbjct: 247 LVYLRFLNLSYNPISTIEGSMLHELLRLQEIQLVGGQLAVVEPYAFRGLNYLRVLNVSGN 306
Query: 707 NLS 709
L+
Sbjct: 307 QLT 309
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 37/148 (25%), Positives = 64/148 (43%), Gaps = 31/148 (20%)
Query: 459 LSLANNFFSGKIPKSMGFLHSIQTLSLYNNSL-----IGELPSFFKSCSQLILMDLGKNG 513
L +NN + + ++ G L ++TL L N L I E+ + KS QL D+ +N
Sbjct: 329 LDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQL---DISQNS 385
Query: 514 LSGEIP----TWIGEGL------------------PKLVVLSLKSNKFHGNIPFQVCQLS 551
+S + +W L P++ VL L SNK +IP QV +L
Sbjct: 386 VSYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKVLDLHSNKI-KSIPKQVVKLE 444
Query: 552 YIQILDLSLNNISGIIPKCLNNFTGMAQ 579
+Q L+++ N + + + T + +
Sbjct: 445 ALQELNVASNQLKSVPDGIFDRLTSLQK 472
Score = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 31/87 (35%), Positives = 41/87 (47%), Gaps = 3/87 (3%)
Query: 629 LDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLT--GQITPKIDQLKSLDFLDLSQNQFVG 686
LDFS N L+ T+ E L L L L N L +I Q+KSL LD+SQN
Sbjct: 329 LDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSY 388
Query: 687 GIPSSLCQLSR-LSVMNLSYNNLSGKI 712
C ++ L +N+S N L+ I
Sbjct: 389 DEKKGDCSWTKSLLSLNMSSNILTDTI 415
Score = 32.7 bits (73), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 18/39 (46%), Positives = 26/39 (66%), Gaps = 1/39 (2%)
Query: 102 LRYLSLSSAEFEG-PIPSQLGNLSRLKYLDLSYINLNKS 139
L++L LS F+ PI + GN+S+LK+L LS +L KS
Sbjct: 92 LKHLDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKS 130
Score = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 20/64 (31%), Positives = 33/64 (51%), Gaps = 1/64 (1%)
Query: 626 VKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFV 685
+K+LD NK+ +IP++++ L L LN++ N L D+L SL + L N +
Sbjct: 423 IKVLDLHSNKIK-SIPKQVVKLEALQELNVASNQLKSVPDGIFDRLTSLQKIWLHTNPWD 481
Query: 686 GGIP 689
P
Sbjct: 482 CSCP 485
>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 = 34.3 bits (77), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 81/363 (22%), Positives = 139/363 (38%), Gaps = 67/363 (18%)
Query: 400 IPPLPSNASVLNLSRNKFSE----SISFLCSINGHKLE----FLDLSNNILSGRLPDCWM 451
+P LP++ + ++LS N +E S S L + K+E L + NN G +
Sbjct: 25 VPELPAHVNYVDLSLNSIAELNETSFSRLQDLQFLKVEQQTPGLVIRNNTFRGLSSLIIL 84
Query: 452 QFDRLAVLSLANNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPS--FFKSCSQLILMDL 509
+ D L L F+G L +++ L+L +L G + S FFK + L ++ L
Sbjct: 85 KLDYNQFLQLETGAFNG--------LANLEVLTLTQCNLDGAVLSGNFFKPLTSLEMLVL 136
Query: 510 GKNGLSGEIPTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQ--LSYIQILDLSLNNISGII 567
N + P + + VL L NK +C+ L Q +L +S I
Sbjct: 137 RDNNIKKIQPASFFLNMRRFHVLDLTFNKVKS-----ICEEDLLNFQGKHFTLLRLSSIT 191
Query: 568 PKCLNNFTGMAQKSSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQ---------HE 618
+ +N + +K + TS T + G F ES G++ +
Sbjct: 192 LQDMNEYWLGWEKCGNPFKNTSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYN 251
Query: 619 YRSTLGLVKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLD 678
S+ G D G ++ G+ +LS++ + + L+ L
Sbjct: 252 MGSSFGHTNFKDPDNFTFKG------LEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLT 305
Query: 679 LSQNQ-----------------------FVGGIPSSLCQ-LSRLSVMNLSYNNLSGKIPL 714
L+QN+ F+G I S + + L +L V++LSYN++ L
Sbjct: 306 LAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRA---L 362
Query: 715 GTQ 717
G Q
Sbjct: 363 GDQ 365
>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 = 33.9 bits (76), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 70/306 (22%), Positives = 121/306 (39%), Gaps = 26/306 (8%)
Query: 409 VLNLSRNKFSESISFLCSING-----------------HKLEFLDLSNNILSGRLPDCWM 451
+++LS+ + S S C NG ++ LDLSNN ++
Sbjct: 14 IISLSKEESSNQASLSCDRNGICKGSSGSLNSIPSGLTEAVKSLDLSNNRITYISNSDLQ 73
Query: 452 QFDRLAVLSLANNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGK 511
+ L L L +N + S L S++ L L N L S+FK S L ++L
Sbjct: 74 RCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLG 133
Query: 512 NGLSGEIPTWIGEGLPKLVVLSLKSNKFHGNIPFQ-VCQLSYIQILDLSLNNISGIIPKC 570
N T + L KL +L + + I + L++++ L++ +++ PK
Sbjct: 134 NPYKTLGETSLFSHLTKLQILRVGNMDTFTKIQRKDFAGLTFLEELEIDASDLQSYEPKS 193
Query: 571 L---NNFTGMAQKSSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEYRSTLGLVK 627
L N + + ++ + + +E LE D + T+ S+ T L+K
Sbjct: 194 LKSIQNVSHLILHMKQHILLLEIFVDVTSSVECLE-LRDTDLDTFHFSELSTGETNSLIK 252
Query: 628 ILDFSMNKLSGTIPEEIMDLV----GLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQ 683
F K++ ++M L+ GL+ L SRN L D+L SL + L N
Sbjct: 253 KFTFRNVKITDESLFQVMKLLNQISGLLELEFSRNQLKSVPDGIFDRLTSLQKIWLHTNP 312
Query: 684 FVGGIP 689
+ P
Sbjct: 313 WDCSCP 318
Score = 30.0 bits (66), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 36/78 (46%)
Query: 626 VKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFV 685
VK LD S N+++ ++ V L AL L+ N + L SL+ LDLS N
Sbjct: 54 VKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLS 113
Query: 686 GGIPSSLCQLSRLSVMNL 703
S LS L+ +NL
Sbjct: 114 NLSSSWFKPLSSLTFLNL 131
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 33.9 bits (76), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 52/125 (41%), Gaps = 7/125 (5%)
Query: 435 LDLSNNILSGRLPDCWMQFDRLAVLSLANNFFSGKIPKSMGFLHSIQTLSLYNNSLIGEL 494
L+L N L+G P+ + + L L N K LH ++TL+LY+N + +
Sbjct: 59 LELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDNQISCVM 118
Query: 495 PSFFKSCSQLILMDLGKNGLSGEIP-TWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSYI 553
P F+ + L ++L N + W E L K SL P +V +
Sbjct: 119 PGSFEHLNSLTSLNLASNPFNCNCHLAWFAEWLRK---KSLNGGAARCGAPSKV---RDV 172
Query: 554 QILDL 558
QI DL
Sbjct: 173 QIKDL 177
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 32/116 (27%), Positives = 49/116 (42%), Gaps = 9/116 (7%)
Query: 625 LVKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKI----DQLKSLDFLDLS 680
LVK L+ N+L+G P + L L N + +I+ K+ QLK+L+ D
Sbjct: 56 LVK-LELKRNQLTGIEPNAFEGASHIQELQLGENKIK-EISNKMFLGLHQLKTLNLYD-- 111
Query: 681 QNQFVGGIPSSLCQLSRLSVMNLSYNNLSGKIPLGTQLQSFNASVYAGNPELCGLP 736
NQ +P S L+ L+ +NL+ N + L + G CG P
Sbjct: 112 -NQISCVMPGSFEHLNSLTSLNLASNPFNCNCHLAWFAEWLRKKSLNGGAARCGAP 166
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 30/102 (29%), Positives = 49/102 (48%), Gaps = 6/102 (5%)
Query: 366 LSNNHIKGKLPNLSLRXXXXXXXXXXXXNYFEGLIPPLPSNASVLNLSRNKFSESISFLC 425
+S++ + G+LP+L N FEG S+ L L NK E IS
Sbjct: 44 ISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEG-----ASHIQELQLGENKIKE-ISNKM 97
Query: 426 SINGHKLEFLDLSNNILSGRLPDCWMQFDRLAVLSLANNFFS 467
+ H+L+ L+L +N +S +P + + L L+LA+N F+
Sbjct: 98 FLGLHQLKTLNLYDNQISCVMPGSFEHLNSLTSLNLASNPFN 139
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 33.9 bits (76), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 52/215 (24%), Positives = 85/215 (39%), Gaps = 9/215 (4%)
Query: 475 GFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSL 534
G S Q + L+ N + + F+SC L ++ L N L+G I GL L L L
Sbjct: 28 GIPASSQRIFLHGNRISYVPAASFQSCRNLTILWLHSNALAG-IDAAAFTGLTLLEQLDL 86
Query: 535 KSN-KFHGNIPFQVCQLSYIQILDLSLNNISGIIPKCLNNFTGMA--QKSSSNLAITSNY 591
N + P L ++ L L + + P + +NL +
Sbjct: 87 SDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNNLQALPDN 146
Query: 592 TFERQG-IEFLESYVDNVVLTWKGSQHEYRSTLGLVKILDFSMNKLSGTIPEEIMDLVGL 650
TF G + L + + + +H +R L ++L N ++ P DL L
Sbjct: 147 TFRDLGNLTHLFLHGNRIPSV---PEHAFRGLHSLDRLL-LHQNHVARVHPHAFRDLGRL 202
Query: 651 VALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFV 685
+ L L NNL+ + L+SL +L L+ N +V
Sbjct: 203 MTLYLFANNLSMLPAEVLVPLRSLQYLRLNDNPWV 237
Score = 33.5 bits (75), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 53/197 (26%), Positives = 77/197 (39%), Gaps = 17/197 (8%)
Query: 524 EGLPKLVVLSLKSNKFHGN----IP---FQVCQLSYIQILDLSLNNISGIIPKCLNNFTG 576
+ +P + S + HGN +P FQ C+ + IL L N ++GI T
Sbjct: 23 QAVPTGIPASSQRIFLHGNRISYVPAASFQSCR--NLTILWLHSNALAGIDAAAFTGLTL 80
Query: 577 MAQ---KSSSNLAITSNYTFERQGIEFLES-YVDNVVLTWKGSQHEYRSTLGLVKILDFS 632
+ Q ++ L + TF +G+ L + ++D L G +R L ++ L
Sbjct: 81 LEQLDLSDNAQLRVVDPTTF--RGLGHLHTLHLDRCGLQELGPG-LFRG-LAALQYLYLQ 136
Query: 633 MNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFVGGIPSSL 692
N L DL L L L N + L SLD L L QN P +
Sbjct: 137 DNNLQALPDNTFRDLGNLTHLFLHGNRIPSVPEHAFRGLHSLDRLLLHQNHVARVHPHAF 196
Query: 693 CQLSRLSVMNLSYNNLS 709
L RL + L NNLS
Sbjct: 197 RDLGRLMTLYLFANNLS 213
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 33.5 bits (75), Expect = 0.48, Method: Composition-based stats.
Identities = 33/110 (30%), Positives = 56/110 (50%), Gaps = 4/110 (3%)
Query: 458 VLSLANNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELP-SFFKSCSQLILMDLGKNGLSG 516
+L L +N + P L +++ L L +N L G LP F S +QL ++DLG N L+
Sbjct: 44 ILYLHDNQITKLEPGVFDSLINLKELYLGSNQL-GALPVGVFDSLTQLTVLDLGTNQLT- 101
Query: 517 EIPTWIGEGLPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNISGI 566
+P+ + + L L L + NK +P + +L+++ L L N + I
Sbjct: 102 VLPSAVFDRLVHLKELFMCCNKL-TELPRGIERLTHLTHLALDQNQLKSI 150
>pdb|3G3A|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
Length = 178
Score = 33.1 bits (74), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 475 GFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSL 534
G + Q L LY+N + P F +QL +DL N L+ +P + + L +L LSL
Sbjct: 35 GIPTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLT-VLPAGVFDKLTQLTQLSL 93
Query: 535 KSNKFH 540
N+
Sbjct: 94 NDNQLK 99
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 33.1 bits (74), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 32/66 (48%), Gaps = 1/66 (1%)
Query: 475 GFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSL 534
G + Q L LY+N + P F +QL +DL N L+ +P + + L +L LSL
Sbjct: 27 GIPTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLT-VLPAGVFDKLTQLTQLSL 85
Query: 535 KSNKFH 540
N+
Sbjct: 86 NDNQLK 91
>pdb|3G3B|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
Length = 170
Score = 33.1 bits (74), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 32/65 (49%), Gaps = 1/65 (1%)
Query: 475 GFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSL 534
G + Q L LY+N + P F +QL +DL N L+ +P + + L +L LSL
Sbjct: 27 GIPTTTQVLYLYDNRITKLEPGVFDRLTQLTRLDLDNNQLT-VLPAGVFDKLTQLTQLSL 85
Query: 535 KSNKF 539
N+
Sbjct: 86 NDNQL 90
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 33.1 bits (74), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 41/135 (30%), Positives = 63/135 (46%), Gaps = 9/135 (6%)
Query: 96 IGSLNKLRYLSLSSAEFEGPIPSQLGNLSRLKYLDLSYINLNKSRDWLRIIDKLPSLRTL 155
I L +RYL+L + S L L+ L YL L+ L + + DKL +L+ L
Sbjct: 59 IQYLPNVRYLALGGNKLHDI--SALKELTNLTYLILTGNQLQSLPNG--VFDKLTNLKEL 114
Query: 156 NLEHCHLPPIIPSDLLHLNFSTSSLGALYLFENSLSSSIYPWLFNISSKLVVLDLDSNLL 215
L L + P + ++L LYL+ N L S + +F+ + L LDLD+N L
Sbjct: 115 VLVENQLQSL-PDGVFD---KLTNLTYLYLYHNQLQS-LPKGVFDKLTNLTRLDLDNNQL 169
Query: 216 QGSLLEPFDRMVSLR 230
Q FD++ L+
Sbjct: 170 QSLPEGVFDKLTQLK 184
>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 = 32.7 bits (73), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 41/165 (24%), Positives = 70/165 (42%), Gaps = 31/165 (18%)
Query: 162 LPPIIPSDLLHLNFSTSSLGAL--------------YLFENSLSSSIYPWLFNISSKLVV 207
+P IP+ +L+ T+SL +L YL N L S + +FN + L
Sbjct: 22 VPTGIPAQTTYLDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQS-LPNGVFNKLTSLTY 80
Query: 208 LDLDSNLLQGSLLEPFDRMVSLRTXXXXXXXXXXXXXXKNRLNGTINQWLSRMYKLDALS 267
L+L +N LQ FD++ L+ N+L + ++ +L L
Sbjct: 81 LNLSTNQLQSLPNGVFDKLTQLK----------ELALNTNQLQSLPDGVFDKLTQLKDLR 130
Query: 268 LSGNSLTGVVTESVFSELSNLKALHLDDNSFT-----LKFSHDWI 307
L N L V + VF L++L+ + L DN + +++ +WI
Sbjct: 131 LYQNQLKS-VPDGVFDRLTSLQYIWLHDNPWDCTCPGIRYLSEWI 174
>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 = 32.7 bits (73), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 64/245 (26%), Positives = 99/245 (40%), Gaps = 17/245 (6%)
Query: 468 GKIPKSMGFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSGEIPTWIGEGLP 527
++P S+ + + L+L NS+ FK L ++ L KN L +I GLP
Sbjct: 27 AEVPASIPV--NTRYLNLQENSIQVIRTDTFKHLRHLEILQLSKN-LVRKIEVGAFNGLP 83
Query: 528 KLVVLSLKSNKFHGNIPFQVCQ-LSYIQILDLSLNNISGIIPKCLNNFTGMAQ---KSSS 583
L L L N+ +P Q + LS ++ L L N I I N + +
Sbjct: 84 SLNTLELFDNRL-TTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELK 142
Query: 584 NLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEYRSTLGLVKI--LDFSMNKLSGTIP 641
L S FE G+ L Y++ + K + + LV++ L+ S N+L P
Sbjct: 143 RLEYISEAAFE--GLVNLR-YLNLGMCNLK----DIPNLTALVRLEELELSGNRLDLIRP 195
Query: 642 EEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFVGGIPSSLCQLSRLSVM 701
L L L L + D LKSL+ L+LS N + L RL +
Sbjct: 196 GSFQGLTSLRKLWLMHAQVATIERNAFDDLKSLEELNLSHNNLMSLPHDLFTPLHRLERV 255
Query: 702 NLSYN 706
+L++N
Sbjct: 256 HLNHN 260
>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 = 32.3 bits (72), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 54/196 (27%), Positives = 85/196 (43%), Gaps = 26/196 (13%)
Query: 526 LPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNISGIIPKCLNNFTGMAQKS---- 581
LP L L+L NK G+I F+ L + LDLS N +S C + ++ + S
Sbjct: 327 LPFLKSLTLTMNK--GSISFKKVALPSLSYLDLSRNALS--FSGCCS-YSDLGTNSLRHL 381
Query: 582 --SSNLAITSNYTF----ERQGIEFLESYVDNVVLTWKGSQHEYRSTLGLVKILDFSMNK 635
S N AI + F E Q ++F S + V E+ + L L K+L ++
Sbjct: 382 DLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVT--------EFSAFLSLEKLLYLDISY 433
Query: 636 LSGTIPEE--IMDLVGLVALNLSRNNLTGQITPKI-DQLKSLDFLDLSQNQFVGGIPSSL 692
+ I + + L L L ++ N+ + +L FLDLS+ Q
Sbjct: 434 TNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVF 493
Query: 693 CQLSRLSVMNLSYNNL 708
L RL ++N+S+NNL
Sbjct: 494 DTLHRLQLLNMSHNNL 509
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 32.3 bits (72), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 54/196 (27%), Positives = 85/196 (43%), Gaps = 26/196 (13%)
Query: 526 LPKLVVLSLKSNKFHGNIPFQVCQLSYIQILDLSLNNISGIIPKCLNNFTGMAQKS---- 581
LP L L+L NK G+I F+ L + LDLS N +S C + ++ + S
Sbjct: 322 LPFLKSLTLTMNK--GSISFKKVALPSLSYLDLSRNALS--FSGCCS-YSDLGTNSLRHL 376
Query: 582 --SSNLAITSNYTF----ERQGIEFLESYVDNVVLTWKGSQHEYRSTLGLVKILDFSMNK 635
S N AI + F E Q ++F S + V E+ + L L K+L ++
Sbjct: 377 DLSFNGAIIMSANFMGLEELQHLDFQHSTLKRVT--------EFSAFLSLEKLLYLDISY 428
Query: 636 LSGTIPEE--IMDLVGLVALNLSRNNLTGQITPKI-DQLKSLDFLDLSQNQFVGGIPSSL 692
+ I + + L L L ++ N+ + +L FLDLS+ Q
Sbjct: 429 TNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLEQISWGVF 488
Query: 693 CQLSRLSVMNLSYNNL 708
L RL ++N+S+NNL
Sbjct: 489 DTLHRLQLLNMSHNNL 504
>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 = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 44/86 (51%), Gaps = 1/86 (1%)
Query: 623 LGLVKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQN 682
+G ++IL S L + L + L+LS N+LTG + LK L +L+++ N
Sbjct: 474 VGSLEILILSSCNLLSIDQQAFHGLRNVNHLDLSHNSLTGDSMDALSHLKGL-YLNMASN 532
Query: 683 QFVGGIPSSLCQLSRLSVMNLSYNNL 708
P L LS+ S++NLS+N L
Sbjct: 533 NIRIIPPHLLPALSQQSIINLSHNPL 558
>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 = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 28/88 (31%), Positives = 39/88 (44%), Gaps = 2/88 (2%)
Query: 449 CWMQFDRLAVLSLANNFFSGKIPKSMGF--LHSIQTLSLYNNSLIGELPSFFKSCSQLIL 506
C + L L L++N S+ L +QTL+L +N +G FK C QL L
Sbjct: 342 CLEKLGNLQTLDLSHNDIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQAFKECPQLEL 401
Query: 507 MDLGKNGLSGEIPTWIGEGLPKLVVLSL 534
+DL L P + L L VL+L
Sbjct: 402 LDLAFTRLHINAPQSPFQNLHFLQVLNL 429
Score = 30.8 bits (68), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 41/86 (47%), Gaps = 3/86 (3%)
Query: 623 LGLVKILDFSMNKL--SGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLS 680
LG ++ LD S N + S ++ +L L LNLS N G + + L+ LDL+
Sbjct: 346 LGNLQTLDLSHNDIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQAFKECPQLELLDLA 405
Query: 681 QNQFVGGIPSSLCQ-LSRLSVMNLSY 705
+ P S Q L L V+NL+Y
Sbjct: 406 FTRLHINAPQSPFQNLHFLQVLNLTY 431
Score = 30.0 bits (66), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 81/330 (24%), Positives = 138/330 (41%), Gaps = 60/330 (18%)
Query: 410 LNLSRNKFSE--SISFLCSINGHKLEFLDLSNNILSG------------RLPDCWMQFDR 455
LNL ++FS+ S +F C +L+ LDL+ L G +L FD+
Sbjct: 256 LNLQEHRFSDISSTTFQCFT---QLQELDLTATHLKGLPSGMKGLNLLKKLVLSVNHFDQ 312
Query: 456 LAVLSLANN------FFSGKIPK------SMGFLHSIQTLSLYNNSL-IGELPSF-FKSC 501
L +S AN + G + K + L ++QTL L +N + + S K+
Sbjct: 313 LCQISAANFPSLTHLYIRGNVKKLHLGVGCLEKLGNLQTLDLSHNDIEASDCCSLQLKNL 372
Query: 502 SQLILMDLGKNGLSGEIPTWIGEGLPKLVVLSLKSNKFHGNIP---FQVCQLSYIQILDL 558
S L ++L N G + + + P+L +L L + H N P FQ L ++Q+L+L
Sbjct: 373 SHLQTLNLSHNEPLG-LQSQAFKECPQLELLDLAFTRLHINAPQSPFQ--NLHFLQVLNL 429
Query: 559 SLNNISGIIPKCLNNFTGMAQKSSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHE 618
+ C + + Q + L + + +G F + + L
Sbjct: 430 TY---------CFLDTSN--QHLLAGLPVLRHLNL--KGNHFQDGTITKTNLL------- 469
Query: 619 YRSTLGLVKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLD 678
T+G +++L S L + L + ++LS N+LT + LK + +L+
Sbjct: 470 --QTVGSLEVLILSSCGLLSIDQQAFHSLGKMSHVDLSHNSLTCDSIDSLSHLKGI-YLN 526
Query: 679 LSQNQFVGGIPSSLCQLSRLSVMNLSYNNL 708
L+ N P L LS+ S +NLS+N L
Sbjct: 527 LAANSINIISPRLLPILSQQSTINLSHNPL 556
>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 = 31.6 bits (70), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 35/88 (39%)
Query: 623 LGLVKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQN 682
L ++ L N L + DL L L L N ++ L SLD L L QN
Sbjct: 128 LAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQN 187
Query: 683 QFVGGIPSSLCQLSRLSVMNLSYNNLSG 710
+ P + L RL + L NNLS
Sbjct: 188 RVAHVHPHAFRDLGRLMTLYLFANNLSA 215
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 35/88 (39%)
Query: 623 LGLVKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQN 682
L ++ L N L + DL L L L N ++ L SLD L L QN
Sbjct: 127 LAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQN 186
Query: 683 QFVGGIPSSLCQLSRLSVMNLSYNNLSG 710
+ P + L RL + L NNLS
Sbjct: 187 RVAHVHPHAFRDLGRLMTLYLFANNLSA 214
>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 = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 41/87 (47%), Gaps = 1/87 (1%)
Query: 622 TLGLVKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQ 681
TLG ++IL S LS L + ++LS N LT + LK + +L+L+
Sbjct: 474 TLGRLEILVLSFCDLSSIDQHAFTSLKMMNHVDLSHNRLTSSSIEALSHLKGI-YLNLAS 532
Query: 682 NQFVGGIPSSLCQLSRLSVMNLSYNNL 708
N +PS L LS+ +NL N L
Sbjct: 533 NHISIILPSLLPILSQQRTINLRQNPL 559
>pdb|1WWL|A Chain A, Crystal Structure Of Cd14
pdb|1WWL|B Chain B, Crystal Structure Of Cd14
Length = 312
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 34/113 (30%), Positives = 48/113 (42%), Gaps = 11/113 (9%)
Query: 622 TLGLVKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQI-TPKID---QLKSLDFL 677
TL ++ + + M SG V L L+LS N+L P D QL SL+
Sbjct: 202 TLQVLALRNAGMETPSGVCSALAAARVQLQGLDLSHNSLRDAAGAPSCDWPSQLNSLNLS 261
Query: 678 DLSQNQFVGGIPSSLCQLSRLSVMNLSYNNLSGKIPLGTQLQSFNASVYAGNP 730
Q G+P+ +LSV++LSYN L + P +L GNP
Sbjct: 262 FTGLKQVPKGLPA------KLSVLDLSYNRLD-RNPSPDELPQVGNLSLKGNP 307
>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 = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 64/245 (26%), Positives = 99/245 (40%), Gaps = 17/245 (6%)
Query: 468 GKIPKSMGFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSGEIPTWIGEGLP 527
++P S+ + + L+L NS+ FK L ++ L KN L +I GLP
Sbjct: 27 AEVPASIPV--NTRYLNLQENSIQVIRTDTFKHLRHLEILQLSKN-LVRKIEVGAFNGLP 83
Query: 528 KLVVLSLKSNKFHGNIPFQVCQ-LSYIQILDLSLNNISGIIPKCLNNFTGMAQ---KSSS 583
L L L N+ +P Q + LS ++ L L N I I N + +
Sbjct: 84 SLNTLELFDNRL-TTVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELK 142
Query: 584 NLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEYRSTLGLVKI--LDFSMNKLSGTIP 641
L S FE G+ L Y++ + K + + LV++ L+ S N+L P
Sbjct: 143 RLEYISEAAFE--GLVNLR-YLNLGMCNLK----DIPNLTALVRLEELELSGNRLDLIRP 195
Query: 642 EEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFVGGIPSSLCQLSRLSVM 701
L L L L + D LKSL+ L+LS N + L RL +
Sbjct: 196 GSFQGLTSLRKLWLMHAQVATIERNAFDDLKSLEELNLSHNNLMSLPHDLFTPLHRLERV 255
Query: 702 NLSYN 706
+L++N
Sbjct: 256 HLNHN 260
>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 = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 44/104 (42%), Gaps = 10/104 (9%)
Query: 639 TIPEEIMD-LVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFVG---GIPSSLCQ 694
++P+ + D L L LNL+ N L D+L +L LDLS NQ G+ L Q
Sbjct: 123 SLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQ 182
Query: 695 LSRLSVMNLSYNNLSGKIPLGT--QLQSFNASVYAGNPELCGLP 736
L L + Y N +P G +L S NP C P
Sbjct: 183 LKDLRL----YQNQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCP 222
>pdb|4FFD|A Chain A, Crystal Structure Of Engineered Protein. Northeast
Structural Genomics Consortium Target Or48
Length = 234
Score = 30.0 bits (66), Expect = 5.0, Method: Composition-based stats.
Identities = 14/53 (26%), Positives = 28/53 (52%)
Query: 472 KSMGFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGLSGEIPTWIGE 524
++M FL ++ L+++ E FFK ++ + L K G+ GE ++G+
Sbjct: 128 QAMAFLDALGIKDLFDSITTSEEAGFFKPHPRIFELALKKAGVKGEEAVYVGD 180
>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 = 30.0 bits (66), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 28/101 (27%), Positives = 46/101 (45%), Gaps = 7/101 (6%)
Query: 121 GNLSRLKYLDLSYINLNKSRDWLRIIDKLPSLRTLNLEHCHLPPIIPSDLLHLNFSTSSL 180
N+ + +L Y+N N + I L +LR L+L H L +P++L S L
Sbjct: 241 ANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTS-LPAEL----GSCFQL 295
Query: 181 GALYLFENSLSSSIYPWLFNISSKLVVLDLDSNLLQGSLLE 221
Y F+N +++ PW F L L ++ N L+ L+
Sbjct: 296 KYFYFFDNMVTT--LPWEFGNLCNLQFLGVEGNPLEKQFLK 334
>pdb|2WQW|A Chain A, Double-Disulfide Cross-Linked Crystal Dimer Of The
Listeria Monocytogenes Inlb Internalin Domain
pdb|2WQW|B Chain B, Double-Disulfide Cross-Linked Crystal Dimer Of The
Listeria Monocytogenes Inlb Internalin Domain
Length = 286
Score = 29.6 bits (65), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 21/32 (65%)
Query: 257 LSRMYKLDALSLSGNSLTGVVTESVFSELSNL 288
LSR+ KLD LSL N ++ +V + ++L NL
Sbjct: 147 LSRLTKLDTLSLEDNQISDIVPLACLTKLQNL 178
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 29.6 bits (65), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 41/152 (26%), Positives = 69/152 (45%), Gaps = 10/152 (6%)
Query: 565 GIIPKCLNNFTGMAQKSSSNLAITSNYTFERQGIEFLESYVDNVVLTWKGSQHEYRSTLG 624
G + C NN + S AI SN + + ++ + + ++ S+ +R L
Sbjct: 9 GGVCSCNNNKNSVDCSSKKLTAIPSNIPADTKKLDLQSNKLSSLP-----SKAFHR--LT 61
Query: 625 LVKILDFSMNKLSGTIPEEIM-DLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQ 683
+++L + NKL T+P I +L L L ++ N L DQL +L L L +NQ
Sbjct: 62 KLRLLYLNDNKLQ-TLPAGIFKELKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQ 120
Query: 684 FVGGIPSSLCQLSRLSVMNLSYNNLSGKIPLG 715
P L++L+ ++L YN L +P G
Sbjct: 121 LKSLPPRVFDSLTKLTYLSLGYNELQS-LPKG 151
>pdb|1PGV|A Chain A, Structural Genomics Of Caenorhabditis Elegans:
Tropomodulin C-Terminal Domain
Length = 197
Score = 29.6 bits (65), Expect = 7.2, Method: Composition-based stats.
Identities = 16/47 (34%), Positives = 27/47 (57%)
Query: 134 INLNKSRDWLRIIDKLPSLRTLNLEHCHLPPIIPSDLLHLNFSTSSL 180
I+ +++R + +I+ PSLR LN+E L P + + LL T S+
Sbjct: 82 ISDSEARGLIELIETSPSLRVLNVESNFLTPELLARLLRSTLVTQSI 128
>pdb|2WFH|A Chain A, The Human Slit 2 Dimerization Domain D4
pdb|2WFH|B Chain B, The Human Slit 2 Dimerization Domain D4
Length = 193
Score = 29.6 bits (65), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 49/112 (43%), Gaps = 2/112 (1%)
Query: 403 LPSNASVLNLSRNKFSESISFLCSINGHKLEFLDLSNNILSGRLPDCWMQFDRLAVLSLA 462
+P + + L L N+F+ L N L +DLSNN +S + +L L L+
Sbjct: 29 IPRDVTELYLDGNQFTLVPKEL--SNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILS 86
Query: 463 NNFFSGKIPKSMGFLHSIQTLSLYNNSLIGELPSFFKSCSQLILMDLGKNGL 514
N P++ L S++ LSL+ N + F S L + +G N L
Sbjct: 87 YNRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPL 138
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 29.6 bits (65), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 36/78 (46%)
Query: 626 VKILDFSMNKLSGTIPEEIMDLVGLVALNLSRNNLTGQITPKIDQLKSLDFLDLSQNQFV 685
VK LD S N+++ ++ V L AL L+ N + L SL+ LDLS N
Sbjct: 28 VKSLDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLS 87
Query: 686 GGIPSSLCQLSRLSVMNL 703
S LS L+ +NL
Sbjct: 88 NLSSSWFKPLSSLTFLNL 105
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
0.319 0.137 0.411
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 21,940,607
Number of Sequences: 62578
Number of extensions: 884637
Number of successful extensions: 2505
Number of sequences better than 100.0: 71
Number of HSP's better than 100.0 without gapping: 42
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 1961
Number of HSP's gapped (non-prelim): 280
length of query: 789
length of database: 14,973,337
effective HSP length: 107
effective length of query: 682
effective length of database: 8,277,491
effective search space: 5645248862
effective search space used: 5645248862
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)