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= 019584
(338 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 54.3 bits (129), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 65/225 (28%), Positives = 93/225 (41%), Gaps = 27/225 (12%)
Query: 35 LCHDRERSALLNFKESLVINQTASSYSSTYPKVATWKPDEKNKDCC--SWDGVKCNEDTG 92
LC+ +++ ALL K+ L T SS W P DCC +W GV C+ DT
Sbjct: 2 LCNPQDKQALLQIKKDLGNPTTLSS----------WLP---TTDCCNRTWLGVLCDTDTQ 48
Query: 93 --HVVELDLASSCLYGSINSTSSLFQLVHLQRLSLFDNNFNFSEIPSAILNFSRLTHLNL 150
V LDL+ L SSL L +L L + N IP AI ++L +L +
Sbjct: 49 TYRVNNLDLSGLNLPKPYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYI 108
Query: 151 SQSYFSGQIPAXXXXXXXXXXXXXSYSNFDTFYLKLQKPGLANLAENLTNLKALDLINVH 210
+ + SG IP SY+ P +++L NL +
Sbjct: 109 THTNVSGAIPDFLSQIKTLVTLDFSYNALSGTL----PPSISSLP----NLVGITFDGNR 160
Query: 211 ISSTVPHTLANLSSLRFS-SLSGCRLQGEFPQEIFQLPNLQFLGL 254
IS +P + + S L S ++S RL G+ P L NL F+ L
Sbjct: 161 ISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANL-NLAFVDL 204
Score = 35.4 bits (80), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 55/204 (26%), Positives = 80/204 (39%), Gaps = 59/204 (28%)
Query: 94 VVELDLASSCLYGSIN-STSSLFQLVHLQRLSLFDNNFNFSEIPSAILNFSRL-THLNLS 151
+V LD + + L G++ S SSL LV + FD N IP + +FS+L T + +S
Sbjct: 127 LVTLDFSYNALSGTLPPSISSLPNLVGIT----FDGNRISGAIPDSYGSFSKLFTSMTIS 182
Query: 152 QSYFSGQIPAXXXXXXXXXXXXXSYSNFDTFYLKLQKPGLANLAENL------------- 198
++ +G+IP +++N + ++ L + L A L
Sbjct: 183 RNRLTGKIPP-------------TFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLA 229
Query: 199 --------------TNLKALDLINVHISSTVPHTLANLSSLRFSSLSGCRLQGEFPQEIF 244
NL LDL N I T+P L L L ++S L GE PQ
Sbjct: 230 KNSLAFDLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG-- 287
Query: 245 QLPNLQFLG---------LCGGPL 259
NLQ LCG PL
Sbjct: 288 --GNLQRFDVSAYANNKCLCGSPL 309
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 47/164 (28%), Positives = 73/164 (44%), Gaps = 9/164 (5%)
Query: 91 TGHVVELDLASSCLYGSINSTSSLFQLVHLQRLSLFDNNFNFSEIPSAILNFSRLTHLNL 150
+ ++ LDL+S+ G I LQ L L +N F +IP + N S L L+L
Sbjct: 364 SASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFT-GKIPPTLSNCSELVSLHL 422
Query: 151 SQSYFSGQIPAXXXXXXXXXXXXXSYSNFDTFYLKLQKPGLANLAENLTNLKALDLINVH 210
S +Y SG IP+ +L + + + + L+ L L
Sbjct: 423 SFNYLSGTIPSSLGSLSKLRDL--------KLWLNMLEGEIPQELMYVKTLETLILDFND 474
Query: 211 ISSTVPHTLANLSSLRFSSLSGCRLQGEFPQEIFQLPNLQFLGL 254
++ +P L+N ++L + SLS RL GE P+ I +L NL L L
Sbjct: 475 LTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKL 518
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 46/139 (33%), Positives = 70/139 (50%), Gaps = 9/139 (6%)
Query: 117 LVHLQRLSLFDNNFN-FS-EIPSAILNFS-RLTHLNLSQSYFSGQIPAXXXXXXXXXXXX 173
L+ ++ L + D +FN FS E+P ++ N S L L+LS + FSG I
Sbjct: 336 LLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQE 395
Query: 174 XSYSNFDTFYLKLQKPGLANLAENLTNLKALDLINVHISSTVPHTLANLSSLRFSSLSGC 233
N + F K+ P L+N +E L +L L ++S T+P +L +LS LR L
Sbjct: 396 LYLQN-NGFTGKI-PPTLSNCSE----LVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLN 449
Query: 234 RLQGEFPQEIFQLPNLQFL 252
L+GE PQE+ + L+ L
Sbjct: 450 MLEGEIPQELMYVKTLETL 468
Score = 32.3 bits (72), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 42/176 (23%), Positives = 77/176 (43%), Gaps = 15/176 (8%)
Query: 81 SWDGVKCNEDTGHVVELDLASSCLYGSINSTSSLFQLVHLQRLSLFDNNFNFSEIPSAIL 140
S G KC + + LDL+ + L G + + +SL L+ L++ N +F S L
Sbjct: 89 SVSGFKC---SASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGL 145
Query: 141 NFSRLTHLNLSQSYFSGQIPAXXXXXXXXXXXXXSYSNFDTFYLKLQKPGLANLAE--NL 198
+ L L+LS + SG S + +L + ++ +
Sbjct: 146 KLNSLEVLDLSANSISGA---------NVVGWVLSDGCGELKHLAISGNKISGDVDVSRC 196
Query: 199 TNLKALDLINVHISSTVPHTLANLSSLRFSSLSGCRLQGEFPQEIFQLPNLQFLGL 254
NL+ LD+ + + S+ +P L + S+L+ +SG +L G+F + I L+ L +
Sbjct: 197 VNLEFLDVSSNNFSTGIPF-LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNI 251
Score = 32.3 bits (72), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 55/220 (25%), Positives = 93/220 (42%), Gaps = 32/220 (14%)
Query: 39 RERSALLNFKESLVINQTASSYSSTYPKVATWKPDEKNKDCCSWDGVKCNEDTGHVVELD 98
RE L++FK+ L +SS NK+ C++DGV C +D V +D
Sbjct: 9 REIHQLISFKDVLPDKNLLPDWSS-------------NKNPCTFDGVTCRDD--KVTSID 53
Query: 99 LASSCLYGSINSTSSLFQLVHLQRLSLFDNNFNFSEIPSAILNF---SRLTHLNLSQSYF 155
L+S L ++ SS + N S I ++ F + LT L+LS++
Sbjct: 54 LSSKPLNVGFSAVSSSLLSLTGLESLFLSN----SHINGSVSGFKCSASLTSLDLSRNSL 109
Query: 156 SGQIPAXXXXXXXXXXXXXSYSNFDTFYLKLQKPGLANLAENLTNLKALDLINVHIS--S 213
SG + + S+ L PG + L +L+ LDL IS +
Sbjct: 110 SGPVTTLTSLGSCSGLKFLNVSSN-----TLDFPGKVSGGLKLNSLEVLDLSANSISGAN 164
Query: 214 TVPHTLAN-LSSLRFSSLSGCRLQGEFPQEIFQLPNLQFL 252
V L++ L+ ++SG ++ G+ ++ + NL+FL
Sbjct: 165 VVGWVLSDGCGELKHLAISGNKISGDV--DVSRCVNLEFL 202
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 42/154 (27%), Positives = 63/154 (40%), Gaps = 17/154 (11%)
Query: 116 QLVHLQRLSLFDNNFNFSEIPSAILNFSRLTHLNLSQSYFSGQIPAXXXXXXXXXXXX-- 173
+L +L L L +N+F+ IP+ + + L L+L+ + F+G IPA
Sbjct: 509 RLENLAILKLSNNSFS-GNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFI 567
Query: 174 --XSYSNFDTFYLKLQKPGLANL-------AENLTNLKALDLIN----VHISSTVPHTLA 220
Y +K + G NL +E L L + N V+ T P T
Sbjct: 568 AGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSP-TFD 626
Query: 221 NLSSLRFSSLSGCRLQGEFPQEIFQLPNLQFLGL 254
N S+ F +S L G P+EI +P L L L
Sbjct: 627 NNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNL 660
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 112 SSLFQLVHLQRLSLFDNNFNFSEIPSAILNFSRLTHLNLSQSYFSGQIPA 161
S L +L +SL +N EIP I L L LS + FSG IPA
Sbjct: 481 SGLSNCTNLNWISLSNNRLT-GEIPKWIGRLENLAILKLSNNSFSGNIPA 529
Score = 27.7 bits (60), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 37/94 (39%), Gaps = 30/94 (31%)
Query: 204 LDLINVHISSTVPHTLANLSSLRFSSLSGCRLQGEFPQEIFQL----------------- 246
L+L + IS ++P + +L L LS +L G PQ + L
Sbjct: 658 LNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPI 717
Query: 247 ---------PNLQFL---GLCGGPLSKKCNNSEA 268
P +FL GLCG PL +C+ S A
Sbjct: 718 PEMGQFETFPPAKFLNNPGLCGYPL-PRCDPSNA 750
>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 = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 47/164 (28%), Positives = 73/164 (44%), Gaps = 9/164 (5%)
Query: 91 TGHVVELDLASSCLYGSINSTSSLFQLVHLQRLSLFDNNFNFSEIPSAILNFSRLTHLNL 150
+ ++ LDL+S+ G I LQ L L +N F +IP + N S L L+L
Sbjct: 367 SASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFT-GKIPPTLSNCSELVSLHL 425
Query: 151 SQSYFSGQIPAXXXXXXXXXXXXXSYSNFDTFYLKLQKPGLANLAENLTNLKALDLINVH 210
S +Y SG IP+ +L + + + + L+ L L
Sbjct: 426 SFNYLSGTIPSSLGSLSKLRDL--------KLWLNMLEGEIPQELMYVKTLETLILDFND 477
Query: 211 ISSTVPHTLANLSSLRFSSLSGCRLQGEFPQEIFQLPNLQFLGL 254
++ +P L+N ++L + SLS RL GE P+ I +L NL L L
Sbjct: 478 LTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKL 521
Score = 42.0 bits (97), Expect = 5e-04, Method: Compositional matrix adjust.
Identities = 46/139 (33%), Positives = 70/139 (50%), Gaps = 9/139 (6%)
Query: 117 LVHLQRLSLFDNNFN-FS-EIPSAILNFS-RLTHLNLSQSYFSGQIPAXXXXXXXXXXXX 173
L+ ++ L + D +FN FS E+P ++ N S L L+LS + FSG I
Sbjct: 339 LLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQE 398
Query: 174 XSYSNFDTFYLKLQKPGLANLAENLTNLKALDLINVHISSTVPHTLANLSSLRFSSLSGC 233
N + F K+ P L+N +E L +L L ++S T+P +L +LS LR L
Sbjct: 399 LYLQN-NGFTGKI-PPTLSNCSE----LVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLN 452
Query: 234 RLQGEFPQEIFQLPNLQFL 252
L+GE PQE+ + L+ L
Sbjct: 453 MLEGEIPQELMYVKTLETL 471
Score = 32.3 bits (72), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 42/176 (23%), Positives = 77/176 (43%), Gaps = 15/176 (8%)
Query: 81 SWDGVKCNEDTGHVVELDLASSCLYGSINSTSSLFQLVHLQRLSLFDNNFNFSEIPSAIL 140
S G KC + + LDL+ + L G + + +SL L+ L++ N +F S L
Sbjct: 92 SVSGFKC---SASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGL 148
Query: 141 NFSRLTHLNLSQSYFSGQIPAXXXXXXXXXXXXXSYSNFDTFYLKLQKPGLANLAE--NL 198
+ L L+LS + SG S + +L + ++ +
Sbjct: 149 KLNSLEVLDLSANSISGA---------NVVGWVLSDGCGELKHLAISGNKISGDVDVSRC 199
Query: 199 TNLKALDLINVHISSTVPHTLANLSSLRFSSLSGCRLQGEFPQEIFQLPNLQFLGL 254
NL+ LD+ + + S+ +P L + S+L+ +SG +L G+F + I L+ L +
Sbjct: 200 VNLEFLDVSSNNFSTGIPF-LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNI 254
Score = 32.3 bits (72), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 55/220 (25%), Positives = 93/220 (42%), Gaps = 32/220 (14%)
Query: 39 RERSALLNFKESLVINQTASSYSSTYPKVATWKPDEKNKDCCSWDGVKCNEDTGHVVELD 98
RE L++FK+ L +SS NK+ C++DGV C +D V +D
Sbjct: 12 REIHQLISFKDVLPDKNLLPDWSS-------------NKNPCTFDGVTCRDD--KVTSID 56
Query: 99 LASSCLYGSINSTSSLFQLVHLQRLSLFDNNFNFSEIPSAILNF---SRLTHLNLSQSYF 155
L+S L ++ SS + N S I ++ F + LT L+LS++
Sbjct: 57 LSSKPLNVGFSAVSSSLLSLTGLESLFLSN----SHINGSVSGFKCSASLTSLDLSRNSL 112
Query: 156 SGQIPAXXXXXXXXXXXXXSYSNFDTFYLKLQKPGLANLAENLTNLKALDLINVHIS--S 213
SG + + S+ L PG + L +L+ LDL IS +
Sbjct: 113 SGPVTTLTSLGSCSGLKFLNVSSN-----TLDFPGKVSGGLKLNSLEVLDLSANSISGAN 167
Query: 214 TVPHTLAN-LSSLRFSSLSGCRLQGEFPQEIFQLPNLQFL 252
V L++ L+ ++SG ++ G+ ++ + NL+FL
Sbjct: 168 VVGWVLSDGCGELKHLAISGNKISGDV--DVSRCVNLEFL 205
Score = 29.3 bits (64), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 42/154 (27%), Positives = 63/154 (40%), Gaps = 17/154 (11%)
Query: 116 QLVHLQRLSLFDNNFNFSEIPSAILNFSRLTHLNLSQSYFSGQIPAXXXXXXXXXXXX-- 173
+L +L L L +N+F+ IP+ + + L L+L+ + F+G IPA
Sbjct: 512 RLENLAILKLSNNSFS-GNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFI 570
Query: 174 --XSYSNFDTFYLKLQKPGLANL-------AENLTNLKALDLIN----VHISSTVPHTLA 220
Y +K + G NL +E L L + N V+ T P T
Sbjct: 571 AGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSP-TFD 629
Query: 221 NLSSLRFSSLSGCRLQGEFPQEIFQLPNLQFLGL 254
N S+ F +S L G P+EI +P L L L
Sbjct: 630 NNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNL 663
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 20/50 (40%), Positives = 24/50 (48%), Gaps = 1/50 (2%)
Query: 112 SSLFQLVHLQRLSLFDNNFNFSEIPSAILNFSRLTHLNLSQSYFSGQIPA 161
S L +L +SL +N EIP I L L LS + FSG IPA
Sbjct: 484 SGLSNCTNLNWISLSNNRLT-GEIPKWIGRLENLAILKLSNNSFSGNIPA 532
Score = 27.7 bits (60), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 26/94 (27%), Positives = 37/94 (39%), Gaps = 30/94 (31%)
Query: 204 LDLINVHISSTVPHTLANLSSLRFSSLSGCRLQGEFPQEIFQL----------------- 246
L+L + IS ++P + +L L LS +L G PQ + L
Sbjct: 661 LNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPI 720
Query: 247 ---------PNLQFL---GLCGGPLSKKCNNSEA 268
P +FL GLCG PL +C+ S A
Sbjct: 721 PEMGQFETFPPAKFLNNPGLCGYPL-PRCDPSNA 753
>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 = 35.0 bits (79), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 37/67 (55%), Gaps = 2/67 (2%)
Query: 196 ENLTNLKALDLINVHISSTVPHTLANLSSLRFSSLSGCRLQGEFPQEIFQLPNLQFLGLC 255
+NL+NL+ LDL + ++S +P L + L++ + P E L NLQFLG+
Sbjct: 267 KNLSNLRVLDLSHNRLTS-LPAELGSCFQLKYFYFFD-NMVTTLPWEFGNLCNLQFLGVE 324
Query: 256 GGPLSKK 262
G PL K+
Sbjct: 325 GNPLEKQ 331
>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 = 30.8 bits (68), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 39/148 (26%), Positives = 60/148 (40%), Gaps = 28/148 (18%)
Query: 183 YLKLQKPGLANLAE-----NLTNLKALDLINVHISSTVPHTLANLSSLRFSSLSGCRLQG 237
+L Q L ++E +L NL LD+ + H LSSL ++G Q
Sbjct: 400 HLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQE 459
Query: 238 EFPQEIF-QLPNLQFLGLCGGPLSKKCNNSEASPPEEDPHSE------------SVFTFG 284
F +IF +L NL FL L +C + SP + S S+ TF
Sbjct: 460 NFLPDIFTELRNLTFLDL------SQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFP 513
Query: 285 WKTVVIGYASGTIIGVILGHIFSTRKYE 312
+K + S ++ L HI +++K E
Sbjct: 514 YKCL----NSLQVLDYSLNHIMTSKKQE 537
>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 = 30.8 bits (68), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 39/148 (26%), Positives = 60/148 (40%), Gaps = 28/148 (18%)
Query: 183 YLKLQKPGLANLAE-----NLTNLKALDLINVHISSTVPHTLANLSSLRFSSLSGCRLQG 237
+L Q L ++E +L NL LD+ + H LSSL ++G Q
Sbjct: 424 HLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQE 483
Query: 238 EFPQEIF-QLPNLQFLGLCGGPLSKKCNNSEASPPEEDPHSE------------SVFTFG 284
F +IF +L NL FL L +C + SP + S S+ TF
Sbjct: 484 NFLPDIFTELRNLTFLDL------SQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFP 537
Query: 285 WKTVVIGYASGTIIGVILGHIFSTRKYE 312
+K + S ++ L HI +++K E
Sbjct: 538 YKCL----NSLQVLDYSLNHIMTSKKQE 561
>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 = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 39/148 (26%), Positives = 60/148 (40%), Gaps = 28/148 (18%)
Query: 183 YLKLQKPGLANLAE-----NLTNLKALDLINVHISSTVPHTLANLSSLRFSSLSGCRLQG 237
+L Q L ++E +L NL LD+ + H LSSL ++G Q
Sbjct: 105 HLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQE 164
Query: 238 EFPQEIF-QLPNLQFLGLCGGPLSKKCNNSEASPPEEDPHSE------------SVFTFG 284
F +IF +L NL FL L +C + SP + S S+ TF
Sbjct: 165 NFLPDIFTELRNLTFLDL------SQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFP 218
Query: 285 WKTVVIGYASGTIIGVILGHIFSTRKYE 312
+K + S ++ L HI +++K E
Sbjct: 219 YKCL----NSLQVLDYSLNHIMTSKKQE 242
>pdb|2P1M|B Chain B, Tir1-ask1 Complex Structure
pdb|2P1N|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1N|E Chain E, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1O|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1P|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1Q|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|3C6N|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
pdb|3C6O|B Chain B, Small Molecule Agonists And Antagonists Of F-Box
Protein-Substrate Interactions In Auxin Perception And
Signaling
pdb|3C6P|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
Length = 594
Score = 30.4 bits (67), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 33/112 (29%), Positives = 46/112 (41%), Gaps = 12/112 (10%)
Query: 175 SYSNFDTFYLK----LQKPGLANLAENLTNLKALDL-------INVHISSTVPHTLANLS 223
S+ NF L GLA +A NLK LDL ++ H S P T +L
Sbjct: 128 SFKNFKVLVLSSCEGFSTDGLAAIAATCRNLKELDLRESDVDDVSGHWLSHFPDTYTSLV 187
Query: 224 SLRFSSLSGCRLQGEFPQEIFQLPNLQFLGLCGG-PLSKKCNNSEASPPEED 274
SL S L+ + + + PNL+ L L PL K + +P E+
Sbjct: 188 SLNISCLASEVSFSALERLVTRCPNLKSLKLNRAVPLEKLATLLQRAPQLEE 239
>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 = 28.5 bits (62), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 36/130 (27%), Positives = 53/130 (40%), Gaps = 23/130 (17%)
Query: 199 TNLKALDLINVHISSTVPHTLANLSSLRFSSLSGCRLQGEFPQEIFQLPNLQFLGLCGGP 258
TNL LDL ++ + + L SLR+ SL +Q P+ + L NL++L L
Sbjct: 248 TNLTQLDLSYNNLHDVGNGSFSYLPSLRYLSLEYNNIQRLSPRSFYGLSNLRYLSLKRAF 307
Query: 259 LSKKCNNSEASPPEEDPHSESVFTFGW----------KTVVIGYASGTIIGVILGHIFST 308
+ S AS P D F+F W + S T G++ +
Sbjct: 308 TKQSV--SLASHPNIDD-----FSFQWLKYLEYLNMDDNNIPSTKSNTFTGLV------S 354
Query: 309 RKYEWLAKTF 318
KY L+KTF
Sbjct: 355 LKYLSLSKTF 364
>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 = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 39/81 (48%), Gaps = 10/81 (12%)
Query: 84 GVKCNEDTGHVVELDLASSCLYGSINSTSSLFQLVHLQRLSLFDN------NFNFSEIPS 137
GV C E G++ LDL+ + + S + L L HLQ L+L N + F E P
Sbjct: 339 GVGCLEKLGNLQTLDLSHNDIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQAFKECPQ 398
Query: 138 ---AILNFSRLTHLNLSQSYF 155
L F+RL H+N QS F
Sbjct: 399 LELLDLAFTRL-HINAPQSPF 418
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 28.1 bits (61), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 26/45 (57%), Gaps = 3/45 (6%)
Query: 112 SSLF-QLVHLQRLSLFDNNFNFSEIPSAILNFSRLTHLNLSQSYF 155
S++F +LVHL+ L + N +E+P I + LTHL L Q+
Sbjct: 105 SAVFDRLVHLKELFMCCNKL--TELPRGIERLTHLTHLALDQNQL 147
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 0.135 0.409
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,142,088
Number of Sequences: 62578
Number of extensions: 344938
Number of successful extensions: 639
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 581
Number of HSP's gapped (non-prelim): 56
length of query: 338
length of database: 14,973,337
effective HSP length: 99
effective length of query: 239
effective length of database: 8,778,115
effective search space: 2097969485
effective search space used: 2097969485
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: 52 (24.6 bits)