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= 048443
(486 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 = 99.0 bits (245), Expect = 5e-21, Method: Compositional matrix adjust.
Identities = 126/455 (27%), Positives = 184/455 (40%), Gaps = 71/455 (15%)
Query: 36 FSGQIPPSLGNLNQLQWLDLAFNNFLRELPA-SIGSLSSLERLDTFPPMKIHGNIPKWLL 94
F G +PP G+ + L+ L L+ NNF ELP ++ + L+ LD + G +P+ L
Sbjct: 303 FYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLD-LSFNEFSGELPESLT 361
Query: 95 NPSMKNFSYLNLSKNYF-----PRFDQHPTVLPWTTLSTKIRHYLISKNNLTGEIPSWIC 149
N S + L+LS N F P Q+P ++ + N TG+IP +
Sbjct: 362 NLSASLLT-LDLSSNNFSGPILPNLCQNP--------KNTLQELYLQNNGFTGKIPPTLS 412
Query: 150 NLSSLYVLDLSDNNLSGELLQCLGNFSGGLSVLSLQGKNFFGTTPDTFMNGSDLRMVDLS 209
N S L L LS N LSG + LG+ S L L L G P M L + L
Sbjct: 413 NCSELVSLHLSFNYLSGTIPSSLGSLS-KLRDLKLWLNMLEGEIPQELMYVKTLETLILD 471
Query: 210 HNLLQGKIPKSLANCAVLEISDLRNNQINDTFPIWLGSLLELNILVLIQQLPCFMGKLPS 269
N L G+IP L+NC L L NN++ P W+G L L IL L F G +P+
Sbjct: 472 FNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNN--SFSGNIPA 529
Query: 270 KYFQCWNAMKFA-NSSQLRYMENXXXXXXXXXXXXXXPQNDYSITMSNEGQMMTHDKIPD 328
+ C + + N++ + + N+G +
Sbjct: 530 ELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGN 589
Query: 329 IL--KGII--------------LSSNRFDGEMPTSIANLKGLQVLGLASNNLQGHIPSCL 372
+L +GI ++S + G + N + L ++ N L G+IP +
Sbjct: 590 LLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEI 649
Query: 373 GS------------------------LTNLESLDLSKNR-----------LTFLEFFNAT 397
GS L L LDLS N+ LT L + +
Sbjct: 650 GSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLS 709
Query: 398 HNNLTGPIPQANQFPTFGYSSFNGNSRLCGKPLPK 432
+NNL+GPIP+ QF TF + F N LCG PLP+
Sbjct: 710 NNNLSGPIPEMGQFETFPPAKFLNNPGLCGYPLPR 744
Score = 88.2 bits (217), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 108/369 (29%), Positives = 166/369 (44%), Gaps = 61/369 (16%)
Query: 42 PSLGNLNQLQWLDLAFNNFLRELPASIGSLSSLERLDT--------FPPM---------- 83
P LG+ + LQ LD++ N + +I + + L+ L+ PP+
Sbjct: 214 PFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSL 273
Query: 84 ---KIHGNIPKWLLNPSMKNFSYLNLSKNYFPRFDQHPTVLPWTTLSTKIRHYLISKNNL 140
K G IP + L+ + + L+LS N+F + V P+ + + +S NN
Sbjct: 274 AENKFTGEIPDF-LSGACDTLTGLDLSGNHF-----YGAVPPFFGSCSLLESLALSSNNF 327
Query: 141 TGEIP-SWICNLSSLYVLDLSDNNLSGELLQCLGNFSGGLSVLSLQGKNFFGTT-PDTFM 198
+GE+P + + L VLDLS N SGEL + L N S L L L NF G P+
Sbjct: 328 SGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQ 387
Query: 199 NGSD-LRMVDLSHNLLQGKIPKSLANCAVLEISDLRNNQINDTFPIWLGSLLELNILVLI 257
N + L+ + L +N GKIP +L+NC+ L L N ++ T P LGSL +L L L
Sbjct: 388 NPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKL- 446
Query: 258 QQLPCFMGKLPSKYFQCWNAMKFANSSQLRYMENXXXXXXXXXXXXXXPQNDYSITMSNE 317
L G++P +L Y++ ND + + +
Sbjct: 447 -WLNMLEGEIP---------------QELMYVKTLETLILDF--------NDLTGEIPSG 482
Query: 318 GQMMTHDKIPDILKGIILSSNRFDGEMPTSIANLKGLQVLGLASNNLQGHIPSCLGSLTN 377
T+ L I LS+NR GE+P I L+ L +L L++N+ G+IP+ LG +
Sbjct: 483 LSNCTN------LNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRS 536
Query: 378 LESLDLSKN 386
L LDL+ N
Sbjct: 537 LIWLDLNTN 545
Score = 73.6 bits (179), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 100/344 (29%), Positives = 151/344 (43%), Gaps = 46/344 (13%)
Query: 50 LQWLDLAFNNFLRELPASIGSLSSLERLDTFPPMKIHGNIPKWLLNPSMKNFSYLNLSKN 109
L++LD++ NNF +P +G S+L+ LD K+ G+ + + + LN+S N
Sbjct: 199 LEFLDVSSNNFSTGIPF-LGDCSALQHLD-ISGNKLSGDFSRAI--STCTELKLLNISSN 254
Query: 110 YFPRFDQHPTVLPWTTLSTKIRHYL-ISKNNLTGEIPSWICNL-SSLYVLDLSDNNLSGE 167
F V P L K YL +++N TGEIP ++ +L LDLS N+ G
Sbjct: 255 QF--------VGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGA 306
Query: 168 LLQCLGNFSGGLSVLSLQGKNFFGTTP-DTFMNGSDLRMVDLSHNLLQGKIPKSLAN-CA 225
+ G+ S S+ NF G P DT + L+++DLS N G++P+SL N A
Sbjct: 307 VPPFFGSCSLLESLALSS-NNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSA 365
Query: 226 VLEISDLRNNQINDTFPIWLGSLLELNILVLIQQLPCFMGKLPSKYFQCWNAMKFANSSQ 285
L DL +N + L + + L Q F GK+P C + S
Sbjct: 366 SLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLS-- 423
Query: 286 LRYMENXXXXXXXXXXXXXXPQNDYSITMSNEGQMMTHDKIPDILKGIILSSNRFDGEMP 345
Y+ P + S++ L+ + L N +GE+P
Sbjct: 424 FNYLSGTI------------PSSLGSLSK---------------LRDLKLWLNMLEGEIP 456
Query: 346 TSIANLKGLQVLGLASNNLQGHIPSCLGSLTNLESLDLSKNRLT 389
+ +K L+ L L N+L G IPS L + TNL + LS NRLT
Sbjct: 457 QELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLT 500
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 90/370 (24%), Positives = 144/370 (38%), Gaps = 71/370 (19%)
Query: 49 QLQWLDLAFNNFLRELPA--SIGSLSSLERLDTFP-----PMKIHGNIPKWLLNPSMKNF 101
L LDL+ N+ + S+GS S L+ L+ P K+ G + + +
Sbjct: 98 SLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGL-------KLNSL 150
Query: 102 SYLNLSKNYFPRFDQHPTVLPW--TTLSTKIRHYLISKNNLTGEIPSWICNLSSLYVLDL 159
L+LS N V+ W + +++H IS N ++G++ C +L LD+
Sbjct: 151 EVLDLSANSI----SGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRC--VNLEFLDV 204
Query: 160 SDNNLSGELLQCLGNFSGGLSVLSLQGKNFFGTTPDTFMNGSDLRMVDLSHNLLQGKIPK 219
S NN S G F G S L+ +D+S N L G +
Sbjct: 205 SSNNFS-------------------TGIPFLGDC-------SALQHLDISGNKLSGDFSR 238
Query: 220 SLANCAVLEISDLRNNQINDTFPIWLGSLLELNILVLIQQLPCFMGKLPSKYFQCWNAMK 279
+++ C L++ ++ +NQ PI L L L L + F G++P + +
Sbjct: 239 AISTCTELKLLNISSNQF--VGPIPPLPLKSLQYLSLAENK--FTGEIPDFLSGACDTL- 293
Query: 280 FANSSQLRYMENXXXXXXXXXXXXXXPQNDYSITMSNEGQMMTHDKIPDI--LKGIILSS 337
+ L N +++ +N + D + + LK + LS
Sbjct: 294 ----TGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSF 349
Query: 338 NRFDGEMPTSIANLKG-LQVLGLASNNLQGHIPSCLGSLTNLESLDLSKNRLTFLEFFNA 396
N F GE+P S+ NL L L L+SNN G I L N L +N L+
Sbjct: 350 NEFSGELPESLTNLSASLLTLDLSSNNFSGPI------LPN-----LCQNPKNTLQELYL 398
Query: 397 THNNLTGPIP 406
+N TG IP
Sbjct: 399 QNNGFTGKIP 408
Score = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 31/71 (43%), Gaps = 17/71 (23%)
Query: 35 DFSGQIPPSLGNLNQLQWLDLAFNNFLRELPASIGSLSSLERLD---------------- 78
D SG IP +G+L L LDL+ N +P ++ +L+ L +D
Sbjct: 664 DISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQF 723
Query: 79 -TFPPMKIHGN 88
TFPP K N
Sbjct: 724 ETFPPAKFLNN 734
>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 = 98.6 bits (244), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 126/455 (27%), Positives = 184/455 (40%), Gaps = 71/455 (15%)
Query: 36 FSGQIPPSLGNLNQLQWLDLAFNNFLRELPA-SIGSLSSLERLDTFPPMKIHGNIPKWLL 94
F G +PP G+ + L+ L L+ NNF ELP ++ + L+ LD + G +P+ L
Sbjct: 306 FYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLD-LSFNEFSGELPESLT 364
Query: 95 NPSMKNFSYLNLSKNYF-----PRFDQHPTVLPWTTLSTKIRHYLISKNNLTGEIPSWIC 149
N S + L+LS N F P Q+P ++ + N TG+IP +
Sbjct: 365 NLSASLLT-LDLSSNNFSGPILPNLCQNP--------KNTLQELYLQNNGFTGKIPPTLS 415
Query: 150 NLSSLYVLDLSDNNLSGELLQCLGNFSGGLSVLSLQGKNFFGTTPDTFMNGSDLRMVDLS 209
N S L L LS N LSG + LG+ S L L L G P M L + L
Sbjct: 416 NCSELVSLHLSFNYLSGTIPSSLGSLS-KLRDLKLWLNMLEGEIPQELMYVKTLETLILD 474
Query: 210 HNLLQGKIPKSLANCAVLEISDLRNNQINDTFPIWLGSLLELNILVLIQQLPCFMGKLPS 269
N L G+IP L+NC L L NN++ P W+G L L IL L F G +P+
Sbjct: 475 FNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNN--SFSGNIPA 532
Query: 270 KYFQCWNAMKFA-NSSQLRYMENXXXXXXXXXXXXXXPQNDYSITMSNEGQMMTHDKIPD 328
+ C + + N++ + + N+G +
Sbjct: 533 ELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGN 592
Query: 329 IL--KGII--------------LSSNRFDGEMPTSIANLKGLQVLGLASNNLQGHIPSCL 372
+L +GI ++S + G + N + L ++ N L G+IP +
Sbjct: 593 LLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEI 652
Query: 373 GS------------------------LTNLESLDLSKNR-----------LTFLEFFNAT 397
GS L L LDLS N+ LT L + +
Sbjct: 653 GSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLS 712
Query: 398 HNNLTGPIPQANQFPTFGYSSFNGNSRLCGKPLPK 432
+NNL+GPIP+ QF TF + F N LCG PLP+
Sbjct: 713 NNNLSGPIPEMGQFETFPPAKFLNNPGLCGYPLPR 747
Score = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 108/369 (29%), Positives = 166/369 (44%), Gaps = 61/369 (16%)
Query: 42 PSLGNLNQLQWLDLAFNNFLRELPASIGSLSSLERLDT--------FPPM---------- 83
P LG+ + LQ LD++ N + +I + + L+ L+ PP+
Sbjct: 217 PFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSL 276
Query: 84 ---KIHGNIPKWLLNPSMKNFSYLNLSKNYFPRFDQHPTVLPWTTLSTKIRHYLISKNNL 140
K G IP + L+ + + L+LS N+F + V P+ + + +S NN
Sbjct: 277 AENKFTGEIPDF-LSGACDTLTGLDLSGNHF-----YGAVPPFFGSCSLLESLALSSNNF 330
Query: 141 TGEIP-SWICNLSSLYVLDLSDNNLSGELLQCLGNFSGGLSVLSLQGKNFFGTT-PDTFM 198
+GE+P + + L VLDLS N SGEL + L N S L L L NF G P+
Sbjct: 331 SGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQ 390
Query: 199 NGSD-LRMVDLSHNLLQGKIPKSLANCAVLEISDLRNNQINDTFPIWLGSLLELNILVLI 257
N + L+ + L +N GKIP +L+NC+ L L N ++ T P LGSL +L L L
Sbjct: 391 NPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKL- 449
Query: 258 QQLPCFMGKLPSKYFQCWNAMKFANSSQLRYMENXXXXXXXXXXXXXXPQNDYSITMSNE 317
L G++P +L Y++ ND + + +
Sbjct: 450 -WLNMLEGEIP---------------QELMYVKTLETLILDF--------NDLTGEIPSG 485
Query: 318 GQMMTHDKIPDILKGIILSSNRFDGEMPTSIANLKGLQVLGLASNNLQGHIPSCLGSLTN 377
T+ L I LS+NR GE+P I L+ L +L L++N+ G+IP+ LG +
Sbjct: 486 LSNCTN------LNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRS 539
Query: 378 LESLDLSKN 386
L LDL+ N
Sbjct: 540 LIWLDLNTN 548
Score = 73.2 bits (178), Expect = 3e-13, Method: Compositional matrix adjust.
Identities = 100/344 (29%), Positives = 151/344 (43%), Gaps = 46/344 (13%)
Query: 50 LQWLDLAFNNFLRELPASIGSLSSLERLDTFPPMKIHGNIPKWLLNPSMKNFSYLNLSKN 109
L++LD++ NNF +P +G S+L+ LD K+ G+ + + + LN+S N
Sbjct: 202 LEFLDVSSNNFSTGIPF-LGDCSALQHLD-ISGNKLSGDFSRAI--STCTELKLLNISSN 257
Query: 110 YFPRFDQHPTVLPWTTLSTKIRHYL-ISKNNLTGEIPSWICN-LSSLYVLDLSDNNLSGE 167
F V P L K YL +++N TGEIP ++ +L LDLS N+ G
Sbjct: 258 QF--------VGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGA 309
Query: 168 LLQCLGNFSGGLSVLSLQGKNFFGTTP-DTFMNGSDLRMVDLSHNLLQGKIPKSLAN-CA 225
+ G+ S S+ NF G P DT + L+++DLS N G++P+SL N A
Sbjct: 310 VPPFFGSCSLLESLALSS-NNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSA 368
Query: 226 VLEISDLRNNQINDTFPIWLGSLLELNILVLIQQLPCFMGKLPSKYFQCWNAMKFANSSQ 285
L DL +N + L + + L Q F GK+P C + S
Sbjct: 369 SLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLS-- 426
Query: 286 LRYMENXXXXXXXXXXXXXXPQNDYSITMSNEGQMMTHDKIPDILKGIILSSNRFDGEMP 345
Y+ P + S++ L+ + L N +GE+P
Sbjct: 427 FNYLSGTI------------PSSLGSLSK---------------LRDLKLWLNMLEGEIP 459
Query: 346 TSIANLKGLQVLGLASNNLQGHIPSCLGSLTNLESLDLSKNRLT 389
+ +K L+ L L N+L G IPS L + TNL + LS NRLT
Sbjct: 460 QELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLT 503
Score = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 90/370 (24%), Positives = 144/370 (38%), Gaps = 71/370 (19%)
Query: 49 QLQWLDLAFNNFLRELPA--SIGSLSSLERLDTFP-----PMKIHGNIPKWLLNPSMKNF 101
L LDL+ N+ + S+GS S L+ L+ P K+ G + + +
Sbjct: 101 SLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGL-------KLNSL 153
Query: 102 SYLNLSKNYFPRFDQHPTVLPW--TTLSTKIRHYLISKNNLTGEIPSWICNLSSLYVLDL 159
L+LS N V+ W + +++H IS N ++G++ C +L LD+
Sbjct: 154 EVLDLSANSI----SGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRC--VNLEFLDV 207
Query: 160 SDNNLSGELLQCLGNFSGGLSVLSLQGKNFFGTTPDTFMNGSDLRMVDLSHNLLQGKIPK 219
S NN S G F G S L+ +D+S N L G +
Sbjct: 208 SSNNFS-------------------TGIPFLGDC-------SALQHLDISGNKLSGDFSR 241
Query: 220 SLANCAVLEISDLRNNQINDTFPIWLGSLLELNILVLIQQLPCFMGKLPSKYFQCWNAMK 279
+++ C L++ ++ +NQ PI L L L L + F G++P + +
Sbjct: 242 AISTCTELKLLNISSNQF--VGPIPPLPLKSLQYLSLAENK--FTGEIPDFLSGACDTL- 296
Query: 280 FANSSQLRYMENXXXXXXXXXXXXXXPQNDYSITMSNEGQMMTHDKIPDI--LKGIILSS 337
+ L N +++ +N + D + + LK + LS
Sbjct: 297 ----TGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSF 352
Query: 338 NRFDGEMPTSIANLKG-LQVLGLASNNLQGHIPSCLGSLTNLESLDLSKNRLTFLEFFNA 396
N F GE+P S+ NL L L L+SNN G I L N L +N L+
Sbjct: 353 NEFSGELPESLTNLSASLLTLDLSSNNFSGPI------LPN-----LCQNPKNTLQELYL 401
Query: 397 THNNLTGPIP 406
+N TG IP
Sbjct: 402 QNNGFTGKIP 411
Score = 34.3 bits (77), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 22/71 (30%), Positives = 31/71 (43%), Gaps = 17/71 (23%)
Query: 35 DFSGQIPPSLGNLNQLQWLDLAFNNFLRELPASIGSLSSLERLD---------------- 78
D SG IP +G+L L LDL+ N +P ++ +L+ L +D
Sbjct: 667 DISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQF 726
Query: 79 -TFPPMKIHGN 88
TFPP K N
Sbjct: 727 ETFPPAKFLNN 737
>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 = 52.8 bits (125), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 39/137 (28%), Positives = 55/137 (40%), Gaps = 35/137 (25%)
Query: 329 ILKGIILSSNRFDGEMPTSIANLKGLQVLGLASNNLQGHIPSCLGSLTNLESLDLSKN-- 386
+ + +S NR G++P + ANL L + L+ N L+G GS N + + L+KN
Sbjct: 175 LFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSL 233
Query: 387 --------------------------------RLTFLEFFNATHNNLTGPIPQANQFPTF 414
+L FL N + NNL G IPQ F
Sbjct: 234 AFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRF 293
Query: 415 GYSSFNGNSRLCGKPLP 431
S++ N LCG PLP
Sbjct: 294 DVSAYANNKCLCGSPLP 310
Score = 47.0 bits (110), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 48/177 (27%), Positives = 73/177 (41%), Gaps = 34/177 (19%)
Query: 40 IPPSLGNLNQLQWLDLA-FNNFLRELPASIGSLSSLERLDTFPPMKIHGNIPKWLLNPSM 98
IP SL NL L +L + NN + +P +I L+ L L + G IP +L +
Sbjct: 68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYL-YITHTNVSGAIPDFL--SQI 124
Query: 99 KNFSYLNLSKNYFPRFDQHPTVLPWTTLSTKIRHYLISKNNLTGEIPSWICNLSSLYVLD 158
K L+ S N L+G +P I +L +L +
Sbjct: 125 KTLVTLDFSYNA-----------------------------LSGTLPPSISSLPNLVGIT 155
Query: 159 LSDNNLSGELLQCLGNFSGGLSVLSLQGKNFFGTTPDTFMNGSDLRMVDLSHNLLQG 215
N +SG + G+FS + +++ G P TF N +L VDLS N+L+G
Sbjct: 156 FDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFAN-LNLAFVDLSRNMLEG 211
Score = 38.9 bits (89), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 43/156 (27%), Positives = 62/156 (39%), Gaps = 27/156 (17%)
Query: 36 FSGQIPPSLGNLNQLQWLDLAFNNFLRELPASIGSLSSLERLDTFPPMKIHGNIPKWLLN 95
SG +PPS+ +L L + N +P S GS S L T ++ G IP N
Sbjct: 137 LSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFAN 196
Query: 96 ---------------------PSMKNFSYLNLSKNYFPRFDQHPTVLPWTTLSTKIRHYL 134
S KN ++L+KN FD L LS +
Sbjct: 197 LNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSL-AFD-----LGKVGLSKNLNGLD 250
Query: 135 ISKNNLTGEIPSWICNLSSLYVLDLSDNNLSGELLQ 170
+ N + G +P + L L+ L++S NNL GE+ Q
Sbjct: 251 LRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ 286
Score = 34.3 bits (77), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 26/52 (50%)
Query: 338 NRFDGEMPTSIANLKGLQVLGLASNNLQGHIPSCLGSLTNLESLDLSKNRLT 389
N G +P +IA L L L + N+ G IP L + L +LD S N L+
Sbjct: 87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALS 138
>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 = 37.7 bits (86), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 32/95 (33%), Positives = 44/95 (46%), Gaps = 14/95 (14%)
Query: 328 DILKGIILSSNRFDGEMPTSIANLKGLQVLGLASNNLQGHI-PSCLGSLTNLESLDLSKN 386
++LK ++LS N FD S AN L L + N + H+ CL L NL++LDLS N
Sbjct: 298 NLLKKLVLSVNHFDQLCQISAANFPSLTHLYIRGNVKKLHLGVGCLEKLGNLQTLDLSHN 357
Query: 387 -------------RLTFLEFFNATHNNLTGPIPQA 408
L+ L+ N +HN G QA
Sbjct: 358 DIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQA 392
>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
Length = 635
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 348 IANLKGLQVLGLASNNLQG-HIPSCLGSLTNLESLDLSKNRL 388
I +LK L+ L +A N +Q +P +LTNLE LDLS N++
Sbjct: 144 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKI 185
Score = 28.9 bits (63), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 3/73 (4%)
Query: 172 LGNFSGGLSVLSLQGKNFFGTTPDTFMNG--SDLRMVDLSHNLLQG-KIPKSLANCAVLE 228
LG FSG S+ L + + F G L+ ++++HNL+Q K+P+ +N LE
Sbjct: 117 LGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLE 176
Query: 229 ISDLRNNQINDTF 241
DL +N+I +
Sbjct: 177 HLDLSSNKIQSIY 189
Score = 28.5 bits (62), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 51/129 (39%), Gaps = 25/129 (19%)
Query: 40 IPPSLGNLNQLQWLDLAFNNFLRELPASIGSLSSLE----------RLDTFPPMKIHG-N 88
+P L L +LDL+ + P + SLSSL+ LDTFP ++
Sbjct: 486 LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQ 545
Query: 89 IPKWLLNPSM-----------KNFSYLNLSKNYFPRFDQHPTVLPWTTLSTKIRHYLISK 137
+ + LN M + ++LNL++N F +H + L W R L+
Sbjct: 546 VLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCEHQSFLQWI---KDQRQLLVEV 602
Query: 138 NNLTGEIPS 146
+ PS
Sbjct: 603 ERMECATPS 611
>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
Length = 605
Score = 33.5 bits (75), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 348 IANLKGLQVLGLASNNLQG-HIPSCLGSLTNLESLDLSKNRL 388
I +LK L+ L +A N +Q +P +LTNLE LDLS N++
Sbjct: 120 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKI 161
Score = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 51/129 (39%), Gaps = 25/129 (19%)
Query: 40 IPPSLGNLNQLQWLDLAFNNFLRELPASIGSLSSLE----------RLDTFPPMKIHG-N 88
+P L L +LDL+ + P + SLSSL+ LDTFP ++
Sbjct: 462 LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQ 521
Query: 89 IPKWLLNPSM-----------KNFSYLNLSKNYFPRFDQHPTVLPWTTLSTKIRHYLISK 137
+ + LN M + ++LNL++N F +H + L W R L+
Sbjct: 522 VLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCEHQSFLQWI---KDQRQLLVEV 578
Query: 138 NNLTGEIPS 146
+ PS
Sbjct: 579 ERMECATPS 587
Score = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 3/73 (4%)
Query: 172 LGNFSGGLSVLSLQGKNFFGTTPDTFMNG--SDLRMVDLSHNLLQG-KIPKSLANCAVLE 228
LG FSG S+ L + + F G L+ ++++HNL+Q K+P+ +N LE
Sbjct: 93 LGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLE 152
Query: 229 ISDLRNNQINDTF 241
DL +N+I +
Sbjct: 153 HLDLSSNKIQSIY 165
>pdb|2Z62|A Chain A, Crystal Structure Of The Tv3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z65|A Chain A, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
pdb|2Z65|B Chain B, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
Length = 276
Score = 33.1 bits (74), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 348 IANLKGLQVLGLASNNLQG-HIPSCLGSLTNLESLDLSKNRL 388
I +LK L+ L +A N +Q +P +LTNLE LDLS N++
Sbjct: 120 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKI 161
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 43/83 (51%), Gaps = 5/83 (6%)
Query: 164 LSGELLQ--CLGNFSGGLSVLSLQGKNFFGTTPDTFMNG--SDLRMVDLSHNLLQG-KIP 218
L+G +Q LG FSG S+ L + + F G L+ ++++HNL+Q K+P
Sbjct: 83 LTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLP 142
Query: 219 KSLANCAVLEISDLRNNQINDTF 241
+ +N LE DL +N+I +
Sbjct: 143 EYFSNLTNLEHLDLSSNKIQSIY 165
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 33.1 bits (74), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 348 IANLKGLQVLGLASNNLQG-HIPSCLGSLTNLESLDLSKNRL 388
I +LK L+ L +A N +Q +P +LTNLE LDLS N++
Sbjct: 121 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKI 162
Score = 30.0 bits (66), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 43/83 (51%), Gaps = 5/83 (6%)
Query: 164 LSGELLQ--CLGNFSGGLSVLSLQGKNFFGTTPDTFMNG--SDLRMVDLSHNLLQG-KIP 218
L+G +Q LG FSG S+ L + + F G L+ ++++HNL+Q K+P
Sbjct: 84 LTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLP 143
Query: 219 KSLANCAVLEISDLRNNQINDTF 241
+ +N LE DL +N+I +
Sbjct: 144 EYFSNLTNLEHLDLSSNKIQSIY 166
>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 = 33.1 bits (74), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 348 IANLKGLQVLGLASNNLQG-HIPSCLGSLTNLESLDLSKNRL 388
I +LK L+ L +A N +Q +P +LTNLE LDLS N++
Sbjct: 122 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKI 163
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 43/83 (51%), Gaps = 5/83 (6%)
Query: 164 LSGELLQ--CLGNFSGGLSVLSLQGKNFFGTTPDTFMNG--SDLRMVDLSHNLLQG-KIP 218
L+G +Q LG FSG S+ L + + F G L+ ++++HNL+Q K+P
Sbjct: 85 LTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLP 144
Query: 219 KSLANCAVLEISDLRNNQINDTF 241
+ +N LE DL +N+I +
Sbjct: 145 EYFSNLTNLEHLDLSSNKIQSIY 167
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 33.1 bits (74), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 348 IANLKGLQVLGLASNNLQG-HIPSCLGSLTNLESLDLSKNRL 388
I +LK L+ L +A N +Q +P +LTNLE LDLS N++
Sbjct: 122 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKI 163
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 43/83 (51%), Gaps = 5/83 (6%)
Query: 164 LSGELLQ--CLGNFSGGLSVLSLQGKNFFGTTPDTFMNG--SDLRMVDLSHNLLQG-KIP 218
L+G +Q LG FSG S+ L + + F G L+ ++++HNL+Q K+P
Sbjct: 85 LTGNPIQSLALGAFSGLSSLQKLVALETNLASLENFPIGHLKTLKELNVAHNLIQSFKLP 144
Query: 219 KSLANCAVLEISDLRNNQINDTF 241
+ +N LE DL +N+I +
Sbjct: 145 EYFSNLTNLEHLDLSSNKIQSIY 167
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 33.1 bits (74), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 348 IANLKGLQVLGLASNNLQG-HIPSCLGSLTNLESLDLSKNRL 388
I +LK L+ L +A N +Q +P +LTNLE LDLS N++
Sbjct: 120 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKI 161
Score = 28.9 bits (63), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 35/75 (46%), Gaps = 6/75 (8%)
Query: 318 GQMMTHDKIPDI------LKGIILSSNRFDGEMPTSIANLKGLQVLGLASNNLQGHIPSC 371
G + +PDI L + LS + + PT+ +L LQVL +ASN L+
Sbjct: 454 GNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGI 513
Query: 372 LGSLTNLESLDLSKN 386
LT+L+ + L N
Sbjct: 514 FDRLTSLQKIWLHTN 528
Score = 28.9 bits (63), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 23/73 (31%), Positives = 38/73 (52%), Gaps = 3/73 (4%)
Query: 172 LGNFSGGLSVLSLQGKNFFGTTPDTFMNG--SDLRMVDLSHNLLQG-KIPKSLANCAVLE 228
LG FSG S+ L + + F G L+ ++++HNL+Q K+P+ +N LE
Sbjct: 93 LGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLE 152
Query: 229 ISDLRNNQINDTF 241
DL +N+I +
Sbjct: 153 HLDLSSNKIQSIY 165
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 33.1 bits (74), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 27/42 (64%), Gaps = 1/42 (2%)
Query: 348 IANLKGLQVLGLASNNLQG-HIPSCLGSLTNLESLDLSKNRL 388
I +LK L+ L +A N +Q +P +LTNLE LDLS N++
Sbjct: 121 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKI 162
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 43/83 (51%), Gaps = 5/83 (6%)
Query: 164 LSGELLQ--CLGNFSGGLSVLSLQGKNFFGTTPDTFMNG--SDLRMVDLSHNLLQG-KIP 218
L+G +Q LG FSG S+ L + + F G L+ ++++HNL+Q K+P
Sbjct: 84 LTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQSFKLP 143
Query: 219 KSLANCAVLEISDLRNNQINDTF 241
+ +N LE DL +N+I +
Sbjct: 144 EYFSNLTNLEHLDLSSNKIQSIY 166
>pdb|1HDS|A Chain A, Macromolecular Structure Refinement By Restrained Least-
Squares And Interactive Graphics As Applied To Sickling
Deer Type Iii Hemoglobin
pdb|1HDS|C Chain C, Macromolecular Structure Refinement By Restrained Least-
Squares And Interactive Graphics As Applied To Sickling
Deer Type Iii Hemoglobin
Length = 141
Score = 32.3 bits (72), Expect = 0.58, Method: Composition-based stats.
Identities = 22/86 (25%), Positives = 36/86 (41%)
Query: 84 KIHGNIPKWLLNPSMKNFSYLNLSKNYFPRFDQHPTVLPWTTLSTKIRHYLISKNNLTGE 143
K+ GN P + + F +K YFP FD K+ + L +
Sbjct: 16 KVGGNAPAYGAQALQRMFLSFPTTKTYFPHFDLSHGSAQQKAHGQKVANALTKAQGHLND 75
Query: 144 IPSWICNLSSLYVLDLSDNNLSGELL 169
+P + NLS+L+ L N ++ +LL
Sbjct: 76 LPGTLSNLSNLHAHKLRVNPVNFKLL 101
>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 = 32.0 bits (71), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 21/62 (33%), Positives = 32/62 (51%)
Query: 330 LKGIILSSNRFDGEMPTSIANLKGLQVLGLASNNLQGHIPSCLGSLTNLESLDLSKNRLT 389
L+ + L+ N P + NL L+ LGL SN L+ L+NL LD+S+N++
Sbjct: 58 LEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKLDISENKIV 117
Query: 390 FL 391
L
Sbjct: 118 IL 119
>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 = 32.0 bits (71), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 20/60 (33%), Positives = 33/60 (55%), Gaps = 1/60 (1%)
Query: 330 LKGIILSSNRFDGEMPTSIANLKGLQVLGLASNNLQGHIPS-CLGSLTNLESLDLSKNRL 388
LK ++LS+N+F+ S +N L L + N + + + CL +L NL LDLS + +
Sbjct: 303 LKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDI 362
Score = 28.5 bits (62), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 35/60 (58%), Gaps = 1/60 (1%)
Query: 329 ILKGIILSSNRFDGEMPTSIANLKGLQVLGLASNNLQGHIPSCLGSLTNLESLDLSKNRL 388
++ + LS NR ++++LKG+ L LASN++ +PS L L+ +++L +N L
Sbjct: 501 MMNHVDLSHNRLTSSSIEALSHLKGI-YLNLASNHISIILPSLLPILSQQRTINLRQNPL 559
>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 = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 46/163 (28%), Positives = 79/163 (48%), Gaps = 31/163 (19%)
Query: 16 LFYLMTSDSPFLDRLQRLSDFSGQI---PPSLG-NLNQLQWLDLAFNNFLREL---PASI 68
LFY +++ L++++R++ + ++ P S +L L++LDL+ N + E A
Sbjct: 324 LFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACK 383
Query: 69 GSLSSLERL----DTFPPMKIHGNIPKWLLNPSMKNFSYLNLSKNYF---PRFDQHPTVL 121
G+ SL+ L + M+ G I LL ++KN + L++S+N F P Q P +
Sbjct: 384 GAWPSLQTLVLSQNHLRSMQKTGEI---LL--TLKNLTSLDISRNTFHPMPDSCQWPEKM 438
Query: 122 PWTTLSTKIRHYLISKNNLTGEIPSWICNLSSLYVLDLSDNNL 164
+ LS+ TG C +L VLD+S+NNL
Sbjct: 439 RFLNLSS------------TGIRVVKTCIPQTLEVLDVSNNNL 469
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 32/144 (22%), Positives = 69/144 (47%), Gaps = 10/144 (6%)
Query: 96 PSMKNFSYLNLSKNYFPRFDQHPTVLPWTTLSTKIRHYLISKNNLTG--EIPSWICNLSS 153
PS +F++LN ++N F +V + +++ ++ +N L ++ N+SS
Sbjct: 350 PSPSSFTFLNFTQNVFTD-----SVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSS 404
Query: 154 LYVLDLSDNNLSGELLQCLGNFSGGLSVLSLQGKNFFGTTPDTFMNGSDLRMVDLSHNLL 213
L LD+S N+L+ ++ + VL+L G+ ++++DL +N +
Sbjct: 405 LETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCL--PPKVKVLDLHNNRI 462
Query: 214 QGKIPKSLANCAVLEISDLRNNQI 237
IPK + + L+ ++ +NQ+
Sbjct: 463 MS-IPKDVTHLQALQELNVASNQL 485
>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 = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 46/163 (28%), Positives = 79/163 (48%), Gaps = 31/163 (19%)
Query: 16 LFYLMTSDSPFLDRLQRLSDFSGQI---PPSLG-NLNQLQWLDLAFNNFLREL---PASI 68
LFY +++ L++++R++ + ++ P S +L L++LDL+ N + E A
Sbjct: 298 LFYDLSTVYSLLEKVKRITVENSKVFLVPCSFSQHLKSLEFLDLSENLMVEEYLKNSACK 357
Query: 69 GSLSSLERL----DTFPPMKIHGNIPKWLLNPSMKNFSYLNLSKNYF---PRFDQHPTVL 121
G+ SL+ L + M+ G I LL ++KN + L++S+N F P Q P +
Sbjct: 358 GAWPSLQTLVLSQNHLRSMQKTGEI---LL--TLKNLTSLDISRNTFHPMPDSCQWPEKM 412
Query: 122 PWTTLSTKIRHYLISKNNLTGEIPSWICNLSSLYVLDLSDNNL 164
+ LS+ TG C +L VLD+S+NNL
Sbjct: 413 RFLNLSS------------TGIRVVKTCIPQTLEVLDVSNNNL 443
>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 = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/62 (37%), Positives = 27/62 (43%)
Query: 330 LKGIILSSNRFDGEMPTSIANLKGLQVLGLASNNLQGHIPSCLGSLTNLESLDLSKNRLT 389
LK ++L N+ L L L LA N LQ LTNL LDLS N+L
Sbjct: 111 LKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQ 170
Query: 390 FL 391
L
Sbjct: 171 SL 172
>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 = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 27/85 (31%), Positives = 32/85 (37%), Gaps = 11/85 (12%)
Query: 351 LKGLQVLGLASNNLQGHIPSCLGSLTNLESLDLSKNRLTF---------LEFFNATHNNL 401
L LQVL L N L P LT L L L+ NRLT LE + + N L
Sbjct: 479 LSHLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSNRLTVLSHNDLPANLEILDISRNQL 538
Query: 402 TGPIPQANQFPTFGYSSFNGNSRLC 426
P P F + N +C
Sbjct: 539 LAPNPDV--FVSLSVLDITHNKFIC 561
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 38/71 (53%), Gaps = 4/71 (5%)
Query: 335 LSSNRFDGEMPTSI-ANLKGLQVLGLASNNLQGHIPSCLGSLTNLESLDLSKNRLTFLE- 392
L SN FD E+P + +L L+++ L NNL S + +L+SL+L KN +T +E
Sbjct: 543 LESNGFD-EIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEK 601
Query: 393 -FFNATHNNLT 402
F NLT
Sbjct: 602 KVFGPAFRNLT 612
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 38/71 (53%), Gaps = 4/71 (5%)
Query: 335 LSSNRFDGEMPTSI-ANLKGLQVLGLASNNLQGHIPSCLGSLTNLESLDLSKNRLTFLE- 392
L SN FD E+P + +L L+++ L NNL S + +L+SL+L KN +T +E
Sbjct: 548 LESNGFD-EIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEK 606
Query: 393 -FFNATHNNLT 402
F NLT
Sbjct: 607 KVFGPAFRNLT 617
>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 = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 32/129 (24%), Positives = 51/129 (39%), Gaps = 25/129 (19%)
Query: 40 IPPSLGNLNQLQWLDLAFNNFLRELPASIGSLSSLE----------RLDTFPPMKIHG-N 88
+P L L +LDL+ + P + SLSSL+ LDTFP ++
Sbjct: 167 LPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQ 226
Query: 89 IPKWLLNPSM-----------KNFSYLNLSKNYFPRFDQHPTVLPWTTLSTKIRHYLISK 137
+ + LN M + ++LNL++N F +H + L W R L+
Sbjct: 227 VLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFACTCEHQSFLQWI---KDQRQLLVEV 283
Query: 138 NNLTGEIPS 146
+ PS
Sbjct: 284 ERMECATPS 292
>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 = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 26/71 (36%), Positives = 38/71 (53%), Gaps = 4/71 (5%)
Query: 335 LSSNRFDGEMPTSI-ANLKGLQVLGLASNNLQGHIPSCLGSLTNLESLDLSKNRLTFLE- 392
L SN FD E+P + +L L+++ L NNL S + +L+SL+L KN +T +E
Sbjct: 553 LESNGFD-EIPVEVFKDLFELKIIDLGLNNLNTLPASVFNNQVSLKSLNLQKNLITSVEK 611
Query: 393 -FFNATHNNLT 402
F NLT
Sbjct: 612 KVFGPAFRNLT 622
>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 = 3.4, Method: Compositional matrix adjust.
Identities = 20/38 (52%), Positives = 25/38 (65%), Gaps = 4/38 (10%)
Query: 138 NNLTGEIPSWICNLSSLYVLDLSDNNLS---GELLQCL 172
N+LT E+P+ I NLS+L VLDLS N L+ EL C
Sbjct: 257 NSLT-ELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCF 293
Score = 28.9 bits (63), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 22/83 (26%), Positives = 43/83 (51%), Gaps = 16/83 (19%)
Query: 324 DKIPDILKGIILSSN-RFDGEMPTSIANLKGLQVLGLASN--------------NLQGHI 368
D+ DI +++ + ++D ++ ++ +L LQ+ +++N N +
Sbjct: 204 DEDDDIENRMVMPKDSKYDDQLWHAL-DLSNLQIFNISANIFKYDFLTRLYLNGNSLTEL 262
Query: 369 PSCLGSLTNLESLDLSKNRLTFL 391
P+ + +L+NL LDLS NRLT L
Sbjct: 263 PAEIKNLSNLRVLDLSHNRLTSL 285
Score = 28.5 bits (62), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 30/58 (51%), Gaps = 1/58 (1%)
Query: 26 FLDRLQRLSDFSGQIPPSLGNLNQLQWLDLAFNNFLRELPASIGSLSSLERLDTFPPM 83
FL RL + ++P + NL+ L+ LDL+ N L LPA +GS L+ F M
Sbjct: 248 FLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNR-LTSLPAELGSCFQLKYFYFFDNM 304
>pdb|3FS4|A Chain A, Crystal Structure Determination Of Ostrich Hemoglobin At
2.2 Angstrom Resolution
pdb|3FS4|C Chain C, Crystal Structure Determination Of Ostrich Hemoglobin At
2.2 Angstrom Resolution
pdb|3A59|A Chain A, Structure Of Hemoglobin From Flightless Bird (Struthio
Camelus)
pdb|3A59|C Chain C, Structure Of Hemoglobin From Flightless Bird (Struthio
Camelus)
pdb|3A59|E Chain E, Structure Of Hemoglobin From Flightless Bird (Struthio
Camelus)
pdb|3A59|G Chain G, Structure Of Hemoglobin From Flightless Bird (Struthio
Camelus)
Length = 141
Score = 29.3 bits (64), Expect = 5.3, Method: Composition-based stats.
Identities = 20/67 (29%), Positives = 30/67 (44%), Gaps = 1/67 (1%)
Query: 107 SKNYFPRFDQHPTVLPWTTLSTKIRHYLISKNNLTGEIPSWICNLSSLYVLDLSDNNLSG 166
+K YFP FD H K+ + LI N +I + LS L+ L + ++
Sbjct: 39 TKTYFPHFDLHHGSAQIKAHGKKVANALIEAVNHIDDISGALSKLSDLHAQKLRVDPVNF 98
Query: 167 ELL-QCL 172
+LL QC
Sbjct: 99 KLLGQCF 105
>pdb|4FMZ|A Chain A, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
pdb|4FMZ|B Chain B, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
Length = 347
Score = 28.5 bits (62), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 81/343 (23%), Positives = 136/343 (39%), Gaps = 69/343 (20%)
Query: 66 ASIGSLSSLERLDTFPPMKIHGNIPKWLLNPS-MKNFSYLNLSKNYFPRFDQHPTVLPWT 124
AS+ + + E L++ + + G + + N YLNL+ N ++ T
Sbjct: 32 ASVTDVVTQEELESITKLVVAGEKVASIQGIEYLTNLEYLNLNGNQITDISPLSNLVKLT 91
Query: 125 TLS---------------TKIRHYLISKNNLTGEIPSWICNLSSLYVLDLSDN-NLSGEL 168
L T +R ++++N++ P + NL+ Y L+L N NLS
Sbjct: 92 NLYIGTNKITDISALQNLTNLRELYLNEDNISDISP--LANLTKXYSLNLGANHNLSD-- 147
Query: 169 LQCLGNFSGGLSVLSLQGKNFFGTTPDTFMNGSDLRMVDLSHNLLQGKIPKSLANCAVLE 228
L L N +G L+ L++ TP N +DL + L++N ++ P LA+ L
Sbjct: 148 LSPLSNXTG-LNYLTVTESKVKDVTP--IANLTDLYSLSLNYNQIEDISP--LASLTSLH 202
Query: 229 ISDLRNNQINDTFPIWLGSLLELNILVLIQQLPCFMGKLPSKYFQCWNAMKFANSSQLRY 288
NQI D P+ + LN L K+ + + + AN SQL +
Sbjct: 203 YFTAYVNQITDITPV--ANXTRLNSL-----------KIGNN--KITDLSPLANLSQLTW 247
Query: 289 MENXXXXXXXXXXXXXXPQNDYSITMSNEGQMMTHDKIPDI--LKGIILSSNRFDGEMPT 346
+E Q+ + + D+ LK + + SN+ +
Sbjct: 248 LE------------------------IGTNQISDINAVKDLTKLKXLNVGSNQISD--IS 281
Query: 347 SIANLKGLQVLGLASNNLQGHIPSCLGSLTNLESLDLSKNRLT 389
+ NL L L L +N L +G LTNL +L LS+N +T
Sbjct: 282 VLNNLSQLNSLFLNNNQLGNEDXEVIGGLTNLTTLFLSQNHIT 324
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
0.321 0.138 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 14,129,256
Number of Sequences: 62578
Number of extensions: 584947
Number of successful extensions: 1491
Number of sequences better than 100.0: 49
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 1131
Number of HSP's gapped (non-prelim): 254
length of query: 486
length of database: 14,973,337
effective HSP length: 103
effective length of query: 383
effective length of database: 8,527,803
effective search space: 3266148549
effective search space used: 3266148549
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 53 (25.0 bits)