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= 044855
(279 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RGX|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
pdb|3RGZ|A Chain A, Structural Insight Into Brassinosteroid Perception By Bri1
Length = 768
Score = 92.8 bits (229), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 90/280 (32%), Positives = 125/280 (44%), Gaps = 62/280 (22%)
Query: 5 NNFEGHLP-QCLNHLTHLKVLDIFNNQLSGNFPSTLTNFT-SLEYLDLSSINFQGTFSIN 62
NNF G LP L + LKVLD+ N+ SG P +LTN + SL LDLSS NF G N
Sbjct: 328 NNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPN 387
Query: 63 SLANHSKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQL-HVIPSFLLQQDHLKFL 121
N P + L+ L L + IP L L L
Sbjct: 388 LCQN------------------------PKNTLQELYLQNNGFTGKIPPTLSNCSELVSL 423
Query: 122 DLSHNKLVGNFPICGKMDDGLRSSTSLEGLDISGNIPNWIGNISTLRVLLMSKNYLEANI 181
LS N L SG IP+ +G++S LR L + N LE I
Sbjct: 424 HLSFNYL-------------------------SGTIPSSLGSLSKLRDLKLWLNMLEGEI 458
Query: 182 PVQLNHLKSLELIDIFENSLSSKLIT----------LDLRDNKFFGRIPYQINELSNLHV 231
P +L ++K+LE + + N L+ ++ + + L +N+ G IP I L NL +
Sbjct: 459 PQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAI 518
Query: 232 LLLRGNSLQGHIPNELCQLAKLRIMDLSNNIFSGSIPSCL 271
L L NS G+IP EL L +DL+ N+F+G+IP+ +
Sbjct: 519 LKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 558
Score = 81.3 bits (199), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 91/281 (32%), Positives = 142/281 (50%), Gaps = 34/281 (12%)
Query: 20 HLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFSINSLANHSKLEVLLLSSGS 79
LK L I N++SG+ ++ +LE+LD+SS NF + I L + S L+ L +S G+
Sbjct: 179 ELKHLAISGNKISGDV--DVSRCVNLEFLDVSSNNF--STGIPFLGDCSALQHLDIS-GN 233
Query: 80 NMLQVKTESWHPTSQLKVLKLSDCQLHVIPSFLLQQDHLKFLDLSHNKLVGNFP--ICGK 137
+ + + ++LK+L +S Q V P L L++L L+ NK G P + G
Sbjct: 234 KLSGDFSRAISTCTELKLLNISSNQF-VGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGA 292
Query: 138 MDDGLRSSTSLEGLDISGN-----IPNWIGNISTLRVLLMSKNYLEANIPVQ-LNHLKSL 191
D +L GLD+SGN +P + G+ S L L +S N +P+ L ++ L
Sbjct: 293 CD-------TLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGL 345
Query: 192 ELIDIFEN-----------SLSSKLITLDLRDNKFFGRIPYQI--NELSNLHVLLLRGNS 238
+++D+ N +LS+ L+TLDL N F G I + N + L L L+ N
Sbjct: 346 KVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNG 405
Query: 239 LQGHIPNELCQLAKLRIMDLSNNIFSGSIPSCLGNVSFWRE 279
G IP L ++L + LS N SG+IPS LG++S R+
Sbjct: 406 FTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRD 446
Score = 72.8 bits (177), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 93/315 (29%), Positives = 131/315 (41%), Gaps = 52/315 (16%)
Query: 1 DLSSNNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFS 60
D+SSNNF +P L + L+ LDI N+LSG+F ++ T L+ L++SS F G
Sbjct: 206 DVSSNNFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIP 264
Query: 61 INSLANHSKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQLH-VIPSF-------- 111
L + L+ L L+ ++ L L LS + +P F
Sbjct: 265 PLPLKS---LQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLE 321
Query: 112 -----------------LLQQDHLKFLDLSHNKLVGNFPICGKMDDGLRSSTSLEGLDIS 154
LL+ LK LDLS N+ G P + S SL LD+S
Sbjct: 322 SLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELP-----ESLTNLSASLLTLDLS 376
Query: 155 GN------IPNWIGNI-STLRVLLMSKNYLEANIPVQLNHLKSLELIDIFENSLS----- 202
N +PN N +TL+ L + N IP L++ L + + N LS
Sbjct: 377 SNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPS 436
Query: 203 -----SKLITLDLRDNKFFGRIPYQINELSNLHVLLLRGNSLQGHIPNELCQLAKLRIMD 257
SKL L L N G IP ++ + L L+L N L G IP+ L L +
Sbjct: 437 SLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWIS 496
Query: 258 LSNNIFSGSIPSCLG 272
LSNN +G IP +G
Sbjct: 497 LSNNRLTGEIPKWIG 511
Score = 69.7 bits (169), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 71/269 (26%), Positives = 113/269 (42%), Gaps = 46/269 (17%)
Query: 2 LSSNNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFSI 61
LS+N G +P+ + L +L +L + NN SGN P+ L + SL +LDL++ F GT
Sbjct: 497 LSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPA 556
Query: 62 NSLANHSKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQLHVIPSFLLQQDHLKFL 121
K+ ++ G + +K + +C LL+ ++
Sbjct: 557 AMFKQSGKIAANFIA-GKRYVYIKNDGMK----------KECHGA---GNLLEFQGIRSE 602
Query: 122 DLSHNKLVGNFP--ICGKMDDGLRSSTSLEGLDISGNIPNWIGNISTLRVLLMSKNYLEA 179
L N+L P I ++ G S T N ++ L MS N L
Sbjct: 603 QL--NRLSTRNPCNITSRVYGGHTSPT--------------FDNNGSMMFLDMSYNMLSG 646
Query: 180 NIPVQLNHLKSLELIDIFENSLSSKLITLDLRDNKFFGRIPYQINELSNLHVLLLRGNSL 239
IP ++ + L ++++ N +S G IP ++ +L L++L L N L
Sbjct: 647 YIPKEIGSMPYLFILNLGHNDIS--------------GSIPDEVGDLRGLNILDLSSNKL 692
Query: 240 QGHIPNELCQLAKLRIMDLSNNIFSGSIP 268
G IP + L L +DLSNN SG IP
Sbjct: 693 DGRIPQAMSALTMLTEIDLSNNNLSGPIP 721
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 24/36 (66%)
Query: 1 DLSSNNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFP 36
DLSSN +G +PQ ++ LT L +D+ NN LSG P
Sbjct: 686 DLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIP 721
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 44/173 (25%), Positives = 72/173 (41%), Gaps = 48/173 (27%)
Query: 141 GLRSSTSLEGLDISGN-------IPNWIGNISTLRVLLMSKNYLEANIPVQLN---HLKS 190
G + S SL LD+S N +G+ S L+ L +S N L+ P +++ L S
Sbjct: 95 GFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLD--FPGKVSGGLKLNS 152
Query: 191 LELIDIFENSLSSKLIT-----------------------------------LDLRDNKF 215
LE++D+ NS+S + LD+ N F
Sbjct: 153 LEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVNLEFLDVSSNNF 212
Query: 216 FGRIPYQINELSNLHVLLLRGNSLQGHIPNELCQLAKLRIMDLSNNIFSGSIP 268
IP+ + + S L L + GN L G + +L+++++S+N F G IP
Sbjct: 213 STGIPF-LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIP 264
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 31/57 (54%)
Query: 1 DLSSNNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQG 57
+L N+ G +P + L L +LD+ +N+L G P ++ T L +DLS+ N G
Sbjct: 662 NLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSG 718
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%)
Query: 1 DLSSNNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQG 57
D+S N G++P+ + + +L +L++ +N +SG+ P + + L LDLSS G
Sbjct: 638 DMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDG 694
>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 = 92.8 bits (229), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 90/280 (32%), Positives = 125/280 (44%), Gaps = 62/280 (22%)
Query: 5 NNFEGHLP-QCLNHLTHLKVLDIFNNQLSGNFPSTLTNFT-SLEYLDLSSINFQGTFSIN 62
NNF G LP L + LKVLD+ N+ SG P +LTN + SL LDLSS NF G N
Sbjct: 325 NNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPN 384
Query: 63 SLANHSKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQL-HVIPSFLLQQDHLKFL 121
N P + L+ L L + IP L L L
Sbjct: 385 LCQN------------------------PKNTLQELYLQNNGFTGKIPPTLSNCSELVSL 420
Query: 122 DLSHNKLVGNFPICGKMDDGLRSSTSLEGLDISGNIPNWIGNISTLRVLLMSKNYLEANI 181
LS N L SG IP+ +G++S LR L + N LE I
Sbjct: 421 HLSFNYL-------------------------SGTIPSSLGSLSKLRDLKLWLNMLEGEI 455
Query: 182 PVQLNHLKSLELIDIFENSLSSKLIT----------LDLRDNKFFGRIPYQINELSNLHV 231
P +L ++K+LE + + N L+ ++ + + L +N+ G IP I L NL +
Sbjct: 456 PQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAI 515
Query: 232 LLLRGNSLQGHIPNELCQLAKLRIMDLSNNIFSGSIPSCL 271
L L NS G+IP EL L +DL+ N+F+G+IP+ +
Sbjct: 516 LKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 555
Score = 80.9 bits (198), Expect = 6e-16, Method: Compositional matrix adjust.
Identities = 91/281 (32%), Positives = 142/281 (50%), Gaps = 34/281 (12%)
Query: 20 HLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFSINSLANHSKLEVLLLSSGS 79
LK L I N++SG+ ++ +LE+LD+SS NF + I L + S L+ L +S G+
Sbjct: 176 ELKHLAISGNKISGDV--DVSRCVNLEFLDVSSNNF--STGIPFLGDCSALQHLDIS-GN 230
Query: 80 NMLQVKTESWHPTSQLKVLKLSDCQLHVIPSFLLQQDHLKFLDLSHNKLVGNFP--ICGK 137
+ + + ++LK+L +S Q V P L L++L L+ NK G P + G
Sbjct: 231 KLSGDFSRAISTCTELKLLNISSNQF-VGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGA 289
Query: 138 MDDGLRSSTSLEGLDISGN-----IPNWIGNISTLRVLLMSKNYLEANIPVQ-LNHLKSL 191
D +L GLD+SGN +P + G+ S L L +S N +P+ L ++ L
Sbjct: 290 CD-------TLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGL 342
Query: 192 ELIDIFEN-----------SLSSKLITLDLRDNKFFGRIPYQI--NELSNLHVLLLRGNS 238
+++D+ N +LS+ L+TLDL N F G I + N + L L L+ N
Sbjct: 343 KVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNG 402
Query: 239 LQGHIPNELCQLAKLRIMDLSNNIFSGSIPSCLGNVSFWRE 279
G IP L ++L + LS N SG+IPS LG++S R+
Sbjct: 403 FTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRD 443
Score = 72.8 bits (177), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 93/317 (29%), Positives = 132/317 (41%), Gaps = 52/317 (16%)
Query: 1 DLSSNNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFS 60
D+SSNNF +P L + L+ LDI N+LSG+F ++ T L+ L++SS F G
Sbjct: 203 DVSSNNFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIP 261
Query: 61 INSLANHSKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQLH-VIPSF-------- 111
L + L+ L L+ ++ L L LS + +P F
Sbjct: 262 PLPLKS---LQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLE 318
Query: 112 -----------------LLQQDHLKFLDLSHNKLVGNFPICGKMDDGLRSSTSLEGLDIS 154
LL+ LK LDLS N+ G P + S SL LD+S
Sbjct: 319 SLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELP-----ESLTNLSASLLTLDLS 373
Query: 155 GN------IPNWIGNI-STLRVLLMSKNYLEANIPVQLNHLKSLELIDIFENSLS----- 202
N +PN N +TL+ L + N IP L++ L + + N LS
Sbjct: 374 SNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPS 433
Query: 203 -----SKLITLDLRDNKFFGRIPYQINELSNLHVLLLRGNSLQGHIPNELCQLAKLRIMD 257
SKL L L N G IP ++ + L L+L N L G IP+ L L +
Sbjct: 434 SLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWIS 493
Query: 258 LSNNIFSGSIPSCLGNV 274
LSNN +G IP +G +
Sbjct: 494 LSNNRLTGEIPKWIGRL 510
Score = 69.3 bits (168), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 71/269 (26%), Positives = 113/269 (42%), Gaps = 46/269 (17%)
Query: 2 LSSNNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFSI 61
LS+N G +P+ + L +L +L + NN SGN P+ L + SL +LDL++ F GT
Sbjct: 494 LSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPA 553
Query: 62 NSLANHSKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQLHVIPSFLLQQDHLKFL 121
K+ ++ G + +K + +C LL+ ++
Sbjct: 554 AMFKQSGKIAANFIA-GKRYVYIKNDGMK----------KECHGA---GNLLEFQGIRSE 599
Query: 122 DLSHNKLVGNFP--ICGKMDDGLRSSTSLEGLDISGNIPNWIGNISTLRVLLMSKNYLEA 179
L N+L P I ++ G S T N ++ L MS N L
Sbjct: 600 QL--NRLSTRNPCNITSRVYGGHTSPT--------------FDNNGSMMFLDMSYNMLSG 643
Query: 180 NIPVQLNHLKSLELIDIFENSLSSKLITLDLRDNKFFGRIPYQINELSNLHVLLLRGNSL 239
IP ++ + L ++++ N +S G IP ++ +L L++L L N L
Sbjct: 644 YIPKEIGSMPYLFILNLGHNDIS--------------GSIPDEVGDLRGLNILDLSSNKL 689
Query: 240 QGHIPNELCQLAKLRIMDLSNNIFSGSIP 268
G IP + L L +DLSNN SG IP
Sbjct: 690 DGRIPQAMSALTMLTEIDLSNNNLSGPIP 718
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 18/36 (50%), Positives = 24/36 (66%)
Query: 1 DLSSNNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFP 36
DLSSN +G +PQ ++ LT L +D+ NN LSG P
Sbjct: 683 DLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIP 718
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 44/173 (25%), Positives = 72/173 (41%), Gaps = 48/173 (27%)
Query: 141 GLRSSTSLEGLDISGN-------IPNWIGNISTLRVLLMSKNYLEANIPVQLN---HLKS 190
G + S SL LD+S N +G+ S L+ L +S N L+ P +++ L S
Sbjct: 92 GFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLD--FPGKVSGGLKLNS 149
Query: 191 LELIDIFENSLSSKLIT-----------------------------------LDLRDNKF 215
LE++D+ NS+S + LD+ N F
Sbjct: 150 LEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVNLEFLDVSSNNF 209
Query: 216 FGRIPYQINELSNLHVLLLRGNSLQGHIPNELCQLAKLRIMDLSNNIFSGSIP 268
IP+ + + S L L + GN L G + +L+++++S+N F G IP
Sbjct: 210 STGIPF-LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIP 261
Score = 37.0 bits (84), Expect = 0.011, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 31/57 (54%)
Query: 1 DLSSNNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQG 57
+L N+ G +P + L L +LD+ +N+L G P ++ T L +DLS+ N G
Sbjct: 659 NLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSG 715
Score = 37.0 bits (84), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 33/57 (57%)
Query: 1 DLSSNNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQG 57
D+S N G++P+ + + +L +L++ +N +SG+ P + + L LDLSS G
Sbjct: 635 DMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDG 691
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 67.8 bits (164), Expect = 6e-12, Method: Compositional matrix adjust.
Identities = 82/290 (28%), Positives = 124/290 (42%), Gaps = 45/290 (15%)
Query: 21 LKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFSI-NSLANHSKLEVLLLSSGS 79
L D N G T T + LDLS +N + I +SLAN L L + +
Sbjct: 28 LPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGIN 87
Query: 80 NMLQVKTESWHPTSQLKVLKLSDCQLH-VIPSFLLQQDHLKFLDLSHNKLVGNFP----- 133
N++ + +QL L ++ + IP FL Q L LD S+N L G P
Sbjct: 88 NLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISS 147
Query: 134 -------------ICGKMDDG------LRSSTSLEGLDISGNIPNWIGNISTLRVLLMSK 174
I G + D L +S ++ ++G IP N++ L + +S+
Sbjct: 148 LPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSR 206
Query: 175 NYLEANIPVQLNHLKSLELIDIFENSL---------SSKLITLDLRDNKFFGRIPYQINE 225
N LE + V K+ + I + +NSL S L LDLR+N+ +G +P + +
Sbjct: 207 NMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQ 266
Query: 226 LSNLHVLLLRGNSLQGHIPNELCQLAKLRIMDLS----NNIFSGS-IPSC 270
L LH L + N+L G IP Q L+ D+S N GS +P+C
Sbjct: 267 LKFLHSLNVSFNNLCGEIP----QGGNLQRFDVSAYANNKCLCGSPLPAC 312
Score = 35.8 bits (81), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 48/200 (24%), Positives = 75/200 (37%), Gaps = 42/200 (21%)
Query: 81 MLQVKTESWHPTSQLKVLKLSDC----QLHVIPSFLLQQDHLKFLDLSHNKLVGNFPICG 136
+LQ+K + +PT+ L +DC L V+ Q + LDLS L +PI
Sbjct: 11 LLQIKKDLGNPTTLSSWLPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGLNLPKPYPI-- 68
Query: 137 KMDDGLRSSTSLEGLDISGNIPNWIGNISTLRVLLMSK-NYLEANIPVQLNHLKSLELID 195
P+ + N+ L L + N L IP + L L +
Sbjct: 69 ---------------------PSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLY 107
Query: 196 IFENSLSSKLITLDLRDNKFFGRIPYQINELSNLHVLLLRGNSLQGHIPNELCQLAKLRI 255
I ++S G IP ++++ L L N+L G +P + L L
Sbjct: 108 ITHTNVS--------------GAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVG 153
Query: 256 MDLSNNIFSGSIPSCLGNVS 275
+ N SG+IP G+ S
Sbjct: 154 ITFDGNRISGAIPDSYGSFS 173
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 33.1 bits (74), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 40/71 (56%), Gaps = 3/71 (4%)
Query: 204 KLITLDLRDN--KFFGRIPYQINELSNLHVLLLRGNSLQGHIPNELCQLAK-LRIMDLSN 260
+L TL L+ N K F ++ +S+L L + NSL H + C A+ + +++LS+
Sbjct: 378 RLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSS 437
Query: 261 NIFSGSIPSCL 271
N+ +GS+ CL
Sbjct: 438 NMLTGSVFRCL 448
Score = 28.9 bits (63), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 30/89 (33%), Positives = 45/89 (50%), Gaps = 18/89 (20%)
Query: 93 SQLKVLKLSDCQLHVIP--SFLLQQDHLKFLDLSHNKLVGNFPICGKMDDGLRSSTSLEG 150
S+L+VL+LS ++ + FL QD L++LD+SHN+L N C SL
Sbjct: 76 SELRVLRLSHNRIRSLDFHVFLFNQD-LEYLDVSHNRL-QNISCCPM--------ASLRH 125
Query: 151 LDISGN------IPNWIGNISTLRVLLMS 173
LD+S N + GN++ L L +S
Sbjct: 126 LDLSFNDFDVLPVCKEFGNLTKLTFLGLS 154
>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 = 32.7 bits (73), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 24/84 (28%), Positives = 40/84 (47%), Gaps = 16/84 (19%)
Query: 157 IPNWIGNISTLRVLLMSKNYLEANIPVQLNHLKSLELIDIFENSLSSKLITLDLRDNKFF 216
+P I N+S LRVL +S N L ++P +L L+ F+N +++
Sbjct: 262 LPAEIKNLSNLRVLDLSHNRL-TSLPAELGSCFQLKYFYFFDNMVTT------------- 307
Query: 217 GRIPYQINELSNLHVLLLRGNSLQ 240
+P++ L NL L + GN L+
Sbjct: 308 --LPWEFGNLCNLQFLGVEGNPLE 329
Score = 31.2 bits (69), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 19/42 (45%), Positives = 29/42 (69%), Gaps = 2/42 (4%)
Query: 232 LLLRGNSLQGHIPNELCQLAKLRIMDLSNNIFSGSIPSCLGN 273
L L GNSL +P E+ L+ LR++DLS+N + S+P+ LG+
Sbjct: 252 LYLNGNSLT-ELPAEIKNLSNLRVLDLSHNRLT-SLPAELGS 291
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 32.7 bits (73), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 33/104 (31%), Positives = 53/104 (50%), Gaps = 18/104 (17%)
Query: 93 SQLKVLKLSDCQLHV--IPSFLLQQDHLKFLDLSHNKLVGNFPICGKMDDGLRSSTSLEG 150
S+L++L +S ++ I F Q+ L++LDLSHNKLV + +L+
Sbjct: 45 SKLRILIISHNRIQYLDISVFKFNQE-LEYLDLSHNKLVK---------ISCHPTVNLKH 94
Query: 151 LDISGN------IPNWIGNISTLRVLLMSKNYLEANIPVQLNHL 188
LD+S N I GN+S L+ L +S +LE + + + HL
Sbjct: 95 LDLSFNAFDALPICKEFGNMSQLKFLGLSTTHLEKSSVLPIAHL 138
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 29/117 (24%), Positives = 58/117 (49%), Gaps = 24/117 (20%)
Query: 162 GNISTLRVLLMSKNYLE--ANIPVQLNHLKSLELIDIFENSLS-----------SKLITL 208
G+++ L L++ N L+ + I +KSL+ +DI +NS+S L++L
Sbjct: 345 GHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSVSYDEKKGDCSWTKSLLSL 404
Query: 209 DLRDN----KFFGRIPYQINELSNLHVLLLRGNSLQGHIPNELCQLAKLRIMDLSNN 261
++ N F +P +I VL L N ++ IP ++ +L L+ +++++N
Sbjct: 405 NMSSNILTDTIFRCLPPRIK------VLDLHSNKIKS-IPKQVVKLEALQELNVASN 454
>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 = 31.6 bits (70), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 75/284 (26%), Positives = 116/284 (40%), Gaps = 38/284 (13%)
Query: 1 DLSSNNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFS 60
DLSS+ F +C T ++ LD+ L+G PS + SL+ L L++ +F
Sbjct: 267 DLSSSTF-----RCF---TRVQELDLTAAHLNG-LPSGIEGMNSLKKLVLNANSFDQLCQ 317
Query: 61 INSLANHSKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQLHVIPSFLLQQD---H 117
IN+ A+ L L + L + T L+ L LS + LQ H
Sbjct: 318 INA-ASFPSLRDLYIKGNMRKLDLGTRCLEKLENLQKLDLSHSDIEASDCCNLQLKNLRH 376
Query: 118 LKFLDLSHNKLVGNFPICGKMDDGLRSSTSLEGLDIS-----GNIPNW-IGNISTLRVLL 171
L++L+LS+N+ P+ G D + LE LD++ P+ N+ LRVL
Sbjct: 377 LQYLNLSYNE-----PL-GLEDQAFKECPQLELLDVAFTHLHVKAPHSPFQNLHLLRVLN 430
Query: 172 MSKNYLEANIPVQLNHLKSLELIDIFENSLSSKLIT-------------LDLRDNKFFGR 218
+S L+ + L L+ L +++ NS I+ L L
Sbjct: 431 LSHCLLDTSNQHLLAGLQDLRHLNLQGNSFQDGSISKTNLLQMVGSLEILILSSCNLLSI 490
Query: 219 IPYQINELSNLHVLLLRGNSLQGHIPNELCQLAKLRIMDLSNNI 262
+ L N++ L L NSL G + L L L + SNNI
Sbjct: 491 DQQAFHGLRNVNHLDLSHNSLTGDSMDALSHLKGLYLNMASNNI 534
>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 = 31.2 bits (69), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 49/103 (47%), Gaps = 6/103 (5%)
Query: 2 LSSNNF-EGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFS 60
++ N+F E LP L +L LD+ QL P+ + +SL+ L++S NF FS
Sbjct: 476 MAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNF---FS 532
Query: 61 INSLANH--SKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLS 101
+++ + L+VL S M K E H S L L L+
Sbjct: 533 LDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLT 575
Score = 29.3 bits (64), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 15 LNHLTHLKVLDIFNNQL-SGNFPSTLTNFTSLEYLDLSSINFQGTFSIN 62
+ HL LK L++ +N + S P +N T+LE+LDLSS Q + +
Sbjct: 144 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 192
>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 = 31.2 bits (69), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 49/103 (47%), Gaps = 6/103 (5%)
Query: 2 LSSNNF-EGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFS 60
++ N+F E LP L +L LD+ QL P+ + +SL+ L++S NF FS
Sbjct: 452 MAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNF---FS 508
Query: 61 INSLANH--SKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLS 101
+++ + L+VL S M K E H S L L L+
Sbjct: 509 LDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLT 551
Score = 28.9 bits (63), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 15 LNHLTHLKVLDIFNNQL-SGNFPSTLTNFTSLEYLDLSSINFQGTFSIN 62
+ HL LK L++ +N + S P +N T+LE+LDLSS Q + +
Sbjct: 120 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 168
>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 = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 33/109 (30%), Positives = 50/109 (45%), Gaps = 2/109 (1%)
Query: 1 DLSSNNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFS 60
DLS + L +H T L+ L + N+++ + T L L+LS NF G+
Sbjct: 281 DLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQ-NFLGSID 339
Query: 61 INSLANHSKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQLHVIP 109
N KLEVL LS +++ + +S+ LK L L QL +P
Sbjct: 340 SRMFENLDKLEVLDLSY-NHIRALGDQSFLGLPNLKELALDTNQLKSVP 387
>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 = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 15 LNHLTHLKVLDIFNNQL-SGNFPSTLTNFTSLEYLDLSSINFQGTFSIN 62
+ HL LK L++ +N + S P +N T+LE+LDLSS Q + +
Sbjct: 122 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 170
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 15 LNHLTHLKVLDIFNNQL-SGNFPSTLTNFTSLEYLDLSSINFQGTFSIN 62
+ HL LK L++ +N + S P +N T+LE+LDLSS Q + +
Sbjct: 121 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 169
>pdb|2Z62|A Chain A, Crystal Structure Of The Tv3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z65|A Chain A, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
pdb|2Z65|B Chain B, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
Length = 276
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 15 LNHLTHLKVLDIFNNQL-SGNFPSTLTNFTSLEYLDLSSINFQGTFSIN 62
+ HL LK L++ +N + S P +N T+LE+LDLSS Q + +
Sbjct: 120 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 168
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 15 LNHLTHLKVLDIFNNQL-SGNFPSTLTNFTSLEYLDLSSINFQGTFSIN 62
+ HL LK L++ +N + S P +N T+LE+LDLSS Q + +
Sbjct: 122 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 170
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 15 LNHLTHLKVLDIFNNQL-SGNFPSTLTNFTSLEYLDLSSINFQGTFSIN 62
+ HL LK L++ +N + S P +N T+LE+LDLSS Q + +
Sbjct: 121 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 169
>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 = 1.3, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 48/103 (46%), Gaps = 6/103 (5%)
Query: 2 LSSNNF-EGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFS 60
++ N+F E LP L +L LD+ QL P+ + +SL+ L++S NF FS
Sbjct: 157 MAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNF---FS 213
Query: 61 INSLANHS--KLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLS 101
+++ L+VL S M K E H S L L L+
Sbjct: 214 LDTFPYKCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLT 256
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 72/284 (25%), Positives = 134/284 (47%), Gaps = 38/284 (13%)
Query: 5 NNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLS----SINFQGTFS 60
++F +CL HL ++ +N + G + T +L+YL LS S+ +
Sbjct: 326 DDFSFQWLKCLEHL------NMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNET 379
Query: 61 INSLANHSKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQLHVIPSFLLQQD---- 116
SLA HS L +L L+ + +++++++ L+VL D L+ I L Q+
Sbjct: 380 FVSLA-HSPLHILNLTKNK-ISKIESDAFSWLGHLEVL---DLGLNEIGQELTGQEWRGL 434
Query: 117 -HLKFLDLSHNKLV----GNFPICGKMDDGLRSSTSLEGLDISGNIPNWIGNISTLRVLL 171
++ + LS+NK + +F + + + +L+ +D S P+ + L +L
Sbjct: 435 ENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSS---PSPFQPLRNLTILD 491
Query: 172 MSKNYLEANIPVQLNHLKSLELIDIFENSLSSKLITLDLRDNKFFGRIPYQINELSNLHV 231
+S N + L L+ LE++D+ N+L+ L + G Y + LS+LH+
Sbjct: 492 LSNNNIANINDDMLEGLEKLEILDLQHNNLAR------LWKHANPGGPIYFLKGLSHLHI 545
Query: 232 LLLRGNSLQGHIPNELCQ-LAKLRIMDLS-NNIFSGSIPSCLGN 273
L L N IP E+ + L +L+I+DL NN+ ++P+ + N
Sbjct: 546 LNLESNGFD-EIPVEVFKDLFELKIIDLGLNNL--NTLPASVFN 586
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 72/284 (25%), Positives = 134/284 (47%), Gaps = 38/284 (13%)
Query: 5 NNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLS----SINFQGTFS 60
++F +CL HL ++ +N + G + T +L+YL LS S+ +
Sbjct: 321 DDFSFQWLKCLEHL------NMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNET 374
Query: 61 INSLANHSKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQLHVIPSFLLQQD---- 116
SLA HS L +L L+ + +++++++ L+VL D L+ I L Q+
Sbjct: 375 FVSLA-HSPLHILNLTKNK-ISKIESDAFSWLGHLEVL---DLGLNEIGQELTGQEWRGL 429
Query: 117 -HLKFLDLSHNKLV----GNFPICGKMDDGLRSSTSLEGLDISGNIPNWIGNISTLRVLL 171
++ + LS+NK + +F + + + +L+ +D S P+ + L +L
Sbjct: 430 ENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSS---PSPFQPLRNLTILD 486
Query: 172 MSKNYLEANIPVQLNHLKSLELIDIFENSLSSKLITLDLRDNKFFGRIPYQINELSNLHV 231
+S N + L L+ LE++D+ N+L+ L + G Y + LS+LH+
Sbjct: 487 LSNNNIANINDDMLEGLEKLEILDLQHNNLAR------LWKHANPGGPIYFLKGLSHLHI 540
Query: 232 LLLRGNSLQGHIPNELCQ-LAKLRIMDLS-NNIFSGSIPSCLGN 273
L L N IP E+ + L +L+I+DL NN+ ++P+ + N
Sbjct: 541 LNLESNGFD-EIPVEVFKDLFELKIIDLGLNNL--NTLPASVFN 581
>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 = 1.5, Method: Compositional matrix adjust.
Identities = 72/284 (25%), Positives = 134/284 (47%), Gaps = 38/284 (13%)
Query: 5 NNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLS----SINFQGTFS 60
++F +CL HL ++ +N + G + T +L+YL LS S+ +
Sbjct: 331 DDFSFQWLKCLEHL------NMEDNDIPGIKSNMFTGLINLKYLSLSNSFTSLRTLTNET 384
Query: 61 INSLANHSKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQLHVIPSFLLQQD---- 116
SLA HS L +L L+ + +++++++ L+VL D L+ I L Q+
Sbjct: 385 FVSLA-HSPLHILNLTKNK-ISKIESDAFSWLGHLEVL---DLGLNEIGQELTGQEWRGL 439
Query: 117 -HLKFLDLSHNKLV----GNFPICGKMDDGLRSSTSLEGLDISGNIPNWIGNISTLRVLL 171
++ + LS+NK + +F + + + +L+ +D S P+ + L +L
Sbjct: 440 ENIFEIYLSYNKYLQLTRNSFALVPSLQRLMLRRVALKNVDSS---PSPFQPLRNLTILD 496
Query: 172 MSKNYLEANIPVQLNHLKSLELIDIFENSLSSKLITLDLRDNKFFGRIPYQINELSNLHV 231
+S N + L L+ LE++D+ N+L+ L + G Y + LS+LH+
Sbjct: 497 LSNNNIANINDDMLEGLEKLEILDLQHNNLAR------LWKHANPGGPIYFLKGLSHLHI 550
Query: 232 LLLRGNSLQGHIPNELCQ-LAKLRIMDLS-NNIFSGSIPSCLGN 273
L L N IP E+ + L +L+I+DL NN+ ++P+ + N
Sbjct: 551 LNLESNGFD-EIPVEVFKDLFELKIIDLGLNNL--NTLPASVFN 591
>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 = 1.7, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 39/78 (50%), Gaps = 14/78 (17%)
Query: 176 YLEAN----IPVQLNHLKSLELIDIFENSLSS----------KLITLDLRDNKFFGRIPY 221
YL+ N +P +L++ K L LID+ N +S+ +L+TL L N+ P
Sbjct: 37 YLDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPR 96
Query: 222 QINELSNLHVLLLRGNSL 239
+ L +L +L L GN +
Sbjct: 97 TFDGLKSLRLLSLHGNDI 114
>pdb|4AY9|X Chain X, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Y Chain Y, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Z Chain Z, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
Length = 350
Score = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 32/53 (60%)
Query: 62 NSLANHSKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQLHVIPSFLLQ 114
NS N ++L+ L LS +N+ ++ + +H S +L +S ++H +PS+ L+
Sbjct: 171 NSAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSYGLE 223
>pdb|4ECO|A Chain A, Crystal Structure Of A Hypothetical Protein (Bacegg_03329)
From Bacteroides Eggerthii Dsm 20697 At 2.70 A
Resolution
pdb|4ECO|B Chain B, Crystal Structure Of A Hypothetical Protein (Bacegg_03329)
From Bacteroides Eggerthii Dsm 20697 At 2.70 A
Resolution
Length = 636
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 13/33 (39%), Positives = 20/33 (60%)
Query: 140 DGLRSSTSLEGLDISGNIPNWIGNISTLRVLLM 172
+G + SLEG SG +P+ IG ++ L VL +
Sbjct: 80 NGRVTGLSLEGFGASGRVPDAIGQLTELEVLAL 112
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 28/49 (57%), Gaps = 1/49 (2%)
Query: 15 LNHLTHLKVLDIFNNQL-SGNFPSTLTNFTSLEYLDLSSINFQGTFSIN 62
+ HL LK L++ +N + S P +N T+LE+LDLSS Q + +
Sbjct: 120 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTD 168
>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 = 29.3 bits (64), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 38/115 (33%), Positives = 58/115 (50%), Gaps = 6/115 (5%)
Query: 18 LTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFSINSLANHSKLEVLLLSS 77
LT+L L + +N L+ +L YLDLSS N T ++ LEVLLL +
Sbjct: 63 LTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSS-NHLHTLDEFLFSDLQALEVLLLYN 121
Query: 78 GSNMLQVKTESWHPTSQLKVLKLSDCQLHVIPSFLLQQDH----LKFLDLSHNKL 128
++++ V ++ +QL+ L LS Q+ P L++ + L LDLS NKL
Sbjct: 122 -NHIVVVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDGNKLPKLMLLDLSSNKL 175
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 73/264 (27%), Positives = 123/264 (46%), Gaps = 40/264 (15%)
Query: 15 LNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQGTFS-INSLANHSKLEVL 73
L +LT+L L +FNNQ++ P L N T+L L+LSS T S I++L+ + L+ L
Sbjct: 103 LANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSS----NTISDISALSGLTSLQQL 156
Query: 74 LLSSGSNMLQVKTESWHPTSQLKVLKLSDCQLHVIP--SFLLQQDHLKFLDLSHNKLVGN 131
SS + P + L L+ D + + S L + +L+ L ++N++
Sbjct: 157 SFSSN------QVTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDI 210
Query: 132 FPICGKMDDGLRSSTSLEGLDISGNIPNWIGNISTLRVLL---MSKNYLEANIPVQLNHL 188
P+ G+ T+L+ L ++GN IG +++L L ++ N + P L+ L
Sbjct: 211 TPL------GIL--TNLDELSLNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGL 260
Query: 189 KSLELIDIFENSLS--------SKLITLDLRDNKFFGRIPYQINELSNLHVLLLRGNSLQ 240
L + + N +S + L L+L +N+ P I+ L NL L L N++
Sbjct: 261 TKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISP--ISNLKNLTYLTLYFNNIS 318
Query: 241 GHIPNELCQLAKLRIMDLSNNIFS 264
P + L KL+ + SNN S
Sbjct: 319 DISP--VSSLTKLQRLFFSNNKVS 340
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 49/116 (42%), Gaps = 11/116 (9%)
Query: 16 NHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYLDLSSINFQ----GTFSINSLANHSKLE 71
+ L +L L + NQL P + T L YL L Q G F + L + +L
Sbjct: 106 DQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVF--DKLTSLKELR 163
Query: 72 VLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQLHVIPSFLLQQ-DHLKFLDLSHN 126
+ + + +V ++ ++LK LKL + QL +P + LK L L N
Sbjct: 164 LY----NNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQEN 215
>pdb|1XWD|C Chain C, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
pdb|1XWD|F Chain F, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
Length = 252
Score = 28.5 bits (62), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 37/63 (58%), Gaps = 1/63 (1%)
Query: 53 INFQGTFSINSLA-NHSKLEVLLLSSGSNMLQVKTESWHPTSQLKVLKLSDCQLHVIPSF 111
+N G I++ A N ++L+ L LS +N+ ++ + +H S +L +S ++H +PS+
Sbjct: 161 LNKNGIQEIHNCAFNGTQLDELNLSDNNNLEELPNDVFHGASGPVILDISRTRIHSLPSY 220
Query: 112 LLQ 114
L+
Sbjct: 221 GLE 223
>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 = 27.7 bits (60), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 32/79 (40%), Gaps = 4/79 (5%)
Query: 187 HLKSLELIDI----FENSLSSKLITLDLRDNKFFGRIPYQINELSNLHVLLLRGNSLQGH 242
HL+ ++ D+ L LDL++NK L NLH L+L N +
Sbjct: 32 HLRVVQCSDLGLEKVPKDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKI 91
Query: 243 IPNELCQLAKLRIMDLSNN 261
P L KL + LS N
Sbjct: 92 SPGAFAPLVKLERLYLSKN 110
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 27.7 bits (60), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 23/79 (29%), Positives = 32/79 (40%), Gaps = 4/79 (5%)
Query: 187 HLKSLELIDI----FENSLSSKLITLDLRDNKFFGRIPYQINELSNLHVLLLRGNSLQGH 242
HL+ ++ D+ L LDL++NK L NLH L+L N +
Sbjct: 32 HLRVVQCSDLGLEKVPKDLPPDTALLDLQNNKITEIKDGDFKNLKNLHTLILINNKISKI 91
Query: 243 IPNELCQLAKLRIMDLSNN 261
P L KL + LS N
Sbjct: 92 SPGAFAPLVKLERLYLSKN 110
>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 = 27.7 bits (60), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 22/48 (45%)
Query: 1 DLSSNNFEGHLPQCLNHLTHLKVLDIFNNQLSGNFPSTLTNFTSLEYL 48
DLS N + + LT LK L ++ NQL TSL+Y+
Sbjct: 163 DLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYI 210
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 27.3 bits (59), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 30/112 (26%), Positives = 50/112 (44%), Gaps = 16/112 (14%)
Query: 162 GNISTLRVLLMSKNYLEANIPVQLNHLKSLELIDIFENSLSSKLITLDLRDNKFFGRIPY 221
G + L L +S N L++ +P+ L +L ++D+ N L+S +
Sbjct: 74 GTLPVLGTLDLSHNQLQS-LPLLGQTLPALTVLDVSFNRLTSLPLG-------------- 118
Query: 222 QINELSNLHVLLLRGNSLQGHIPNELCQLAKLRIMDLSNNIFSGSIPSCLGN 273
+ L L L L+GN L+ P L KL + L+NN + +P+ L N
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLT-ELPAGLLN 169
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 27.3 bits (59), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 44/100 (44%), Gaps = 15/100 (15%)
Query: 162 GNISTLRVLLMSKNYLEANIPVQLNHLKSLELIDIFENSLSSKLITLDLRDNKFFGRIPY 221
G + L L +S N L++ +P+ L +L ++D+ N L+S +
Sbjct: 75 GTLPVLGTLDLSHNQLQS-LPLLGQTLPALTVLDVSFNRLTSLPLG-------------- 119
Query: 222 QINELSNLHVLLLRGNSLQGHIPNELCQLAKLRIMDLSNN 261
+ L L L L+GN L+ P L KL + L+NN
Sbjct: 120 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANN 159
>pdb|1SQ0|B Chain B, Crystal Structure Of The Complex Of The Wild-Type Von
Willebrand Factor A1 Domain And Glycoprotein Ib Alpha At
2.6 Angstrom Resolution
Length = 288
Score = 27.3 bits (59), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 44/100 (44%), Gaps = 15/100 (15%)
Query: 162 GNISTLRVLLMSKNYLEANIPVQLNHLKSLELIDIFENSLSSKLITLDLRDNKFFGRIPY 221
G + L L +S N L++ +P+ L +L ++D+ N L+S +
Sbjct: 74 GTLPVLGTLDLSHNQLQS-LPLLGQTLPALTVLDVSFNRLTSLPLG-------------- 118
Query: 222 QINELSNLHVLLLRGNSLQGHIPNELCQLAKLRIMDLSNN 261
+ L L L L+GN L+ P L KL + L+NN
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANN 158
>pdb|1P9A|G Chain G, Crystal Structure Of N-terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-alpha At 1.7 Angstrom
Resolution
pdb|1QYY|A Chain A, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
pdb|1QYY|G Chain G, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
Length = 290
Score = 27.3 bits (59), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 27/100 (27%), Positives = 44/100 (44%), Gaps = 15/100 (15%)
Query: 162 GNISTLRVLLMSKNYLEANIPVQLNHLKSLELIDIFENSLSSKLITLDLRDNKFFGRIPY 221
G + L L +S N L++ +P+ L +L ++D+ N L+S +
Sbjct: 74 GTLPVLGTLDLSHNQLQS-LPLLGQTLPALTVLDVSFNRLTSLPLG-------------- 118
Query: 222 QINELSNLHVLLLRGNSLQGHIPNELCQLAKLRIMDLSNN 261
+ L L L L+GN L+ P L KL + L+NN
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANN 158
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 0.136 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,801,029
Number of Sequences: 62578
Number of extensions: 292050
Number of successful extensions: 1163
Number of sequences better than 100.0: 75
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 55
Number of HSP's that attempted gapping in prelim test: 822
Number of HSP's gapped (non-prelim): 240
length of query: 279
length of database: 14,973,337
effective HSP length: 98
effective length of query: 181
effective length of database: 8,840,693
effective search space: 1600165433
effective search space used: 1600165433
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)