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= 042092
(179 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 = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/55 (49%), Positives = 37/55 (67%)
Query: 73 SLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQLREKKL 127
+L L L++ F G IPP+ N ++L+ L LS N LSG IPSSL +L +LR+ KL
Sbjct: 395 TLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKL 449
Score = 45.8 bits (107), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/55 (49%), Positives = 32/55 (58%)
Query: 74 LTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQLREKKLT 128
L ILNL H + GSIP +L L LDLSSN L G IP ++S L L E L+
Sbjct: 658 LFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLS 712
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 27/62 (43%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 52 LNLCGNDFNYSKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGH 111
LNL ND + S I R L IL+L G IP + LT L +DLS+N LSG
Sbjct: 661 LNLGHNDISGS-IPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGP 719
Query: 112 IP 113
IP
Sbjct: 720 IP 721
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 32/55 (58%)
Query: 62 SKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSL 116
+I + +L IL L + +F G+IP + L+ LDL++N+ +G IP+++
Sbjct: 504 GEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 558
Score = 34.3 bits (77), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 70 QFRSLTILNLRHYNFRGSIPPSFCNLTQ-LMHLDLSSNILSGHI 112
+ R L +L+L F G +P S NL+ L+ LDLSSN SG I
Sbjct: 341 KMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPI 384
Score = 34.3 bits (77), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 29/57 (50%)
Query: 72 RSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQLREKKLT 128
++L L L + G IP N T L + LS+N L+G IP + LE L KL+
Sbjct: 466 KTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLS 522
Score = 33.9 bits (76), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 43/105 (40%), Gaps = 30/105 (28%)
Query: 78 NLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLE-----QLREKKLTCSIS 132
N+ + G P+F N +M LD+S N+LSG+IP + ++ L ++ SI
Sbjct: 614 NITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIP 673
Query: 133 SCIFEXXXXXXXXXXXXXXXXXXXXYMFTKLKSLEVLDLSYNKLS 177
+ + L+ L +LDLS NKL
Sbjct: 674 DEVGD-------------------------LRGLNILDLSSNKLD 693
Score = 33.1 bits (74), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 33/69 (47%), Gaps = 3/69 (4%)
Query: 50 QNLNLCGNDFNYSKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILS 109
Q+L++ GN + S S L +LN+ F G IPP L L +L L+ N +
Sbjct: 226 QHLDISGNKLS-GDFSRAISTCTELKLLNISSNQFVGPIPP--LPLKSLQYLSLAENKFT 282
Query: 110 GHIPSSLSN 118
G IP LS
Sbjct: 283 GEIPDFLSG 291
Score = 32.7 bits (73), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 2/67 (2%)
Query: 58 DFN--YSKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSS 115
DFN +I G S +L ++L + G IP L L L LS+N SG+IP+
Sbjct: 474 DFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAE 533
Query: 116 LSNLEQL 122
L + L
Sbjct: 534 LGDCRSL 540
Score = 31.2 bits (69), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 34/70 (48%), Gaps = 2/70 (2%)
Query: 51 NLNLCGNDFNYSKISYGFSQFRSLTILNLRHYNFRGSIP-PSFCNLTQLMHLDLSSNILS 109
L+L GN F Y + F L L L NF G +P + + L LDLS N S
Sbjct: 298 GLDLSGNHF-YGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFS 356
Query: 110 GHIPSSLSNL 119
G +P SL+NL
Sbjct: 357 GELPESLTNL 366
Score = 30.0 bits (66), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 31/67 (46%), Gaps = 1/67 (1%)
Query: 50 QNLNLCGNDFNYSKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILS 109
Q L L N F KI S L L+L G+IP S +L++L L L N+L
Sbjct: 397 QELYLQNNGFT-GKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLE 455
Query: 110 GHIPSSL 116
G IP L
Sbjct: 456 GEIPQEL 462
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 26/55 (47%)
Query: 68 FSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQL 122
F S+ L++ + G IP ++ L L+L N +SG IP + +L L
Sbjct: 628 FDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGL 682
Score = 26.9 bits (58), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 74 LTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQLR 123
L L++ NF IP + + L HLD+S N LSG ++S +L+
Sbjct: 202 LEFLDVSSNNFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELK 250
Score = 26.9 bits (58), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 30/84 (35%), Gaps = 7/84 (8%)
Query: 59 FNY--SKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSL 116
FNY I L L L G IP + L L L N L+G IPS L
Sbjct: 427 FNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGL 486
Query: 117 SNLEQLR-----EKKLTCSISSCI 135
SN L +LT I I
Sbjct: 487 SNCTNLNWISLSNNRLTGEIPKWI 510
>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 = 47.8 bits (112), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 27/55 (49%), Positives = 37/55 (67%)
Query: 73 SLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQLREKKL 127
+L L L++ F G IPP+ N ++L+ L LS N LSG IPSSL +L +LR+ KL
Sbjct: 392 TLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKL 446
Score = 45.4 bits (106), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 27/55 (49%), Positives = 32/55 (58%)
Query: 74 LTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQLREKKLT 128
L ILNL H + GSIP +L L LDLSSN L G IP ++S L L E L+
Sbjct: 655 LFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLS 709
Score = 41.6 bits (96), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 27/62 (43%), Positives = 32/62 (51%), Gaps = 1/62 (1%)
Query: 52 LNLCGNDFNYSKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGH 111
LNL ND + S I R L IL+L G IP + LT L +DLS+N LSG
Sbjct: 658 LNLGHNDISGS-IPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGP 716
Query: 112 IP 113
IP
Sbjct: 717 IP 718
Score = 36.6 bits (83), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 32/55 (58%)
Query: 62 SKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSL 116
+I + +L IL L + +F G+IP + L+ LDL++N+ +G IP+++
Sbjct: 501 GEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 555
Score = 34.3 bits (77), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 26/44 (59%), Gaps = 1/44 (2%)
Query: 70 QFRSLTILNLRHYNFRGSIPPSFCNLTQ-LMHLDLSSNILSGHI 112
+ R L +L+L F G +P S NL+ L+ LDLSSN SG I
Sbjct: 338 KMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPI 381
Score = 34.3 bits (77), Expect = 0.042, Method: Compositional matrix adjust.
Identities = 21/57 (36%), Positives = 29/57 (50%)
Query: 72 RSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQLREKKLT 128
++L L L + G IP N T L + LS+N L+G IP + LE L KL+
Sbjct: 463 KTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLS 519
Score = 33.9 bits (76), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 27/105 (25%), Positives = 43/105 (40%), Gaps = 30/105 (28%)
Query: 78 NLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLE-----QLREKKLTCSIS 132
N+ + G P+F N +M LD+S N+LSG+IP + ++ L ++ SI
Sbjct: 611 NITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIP 670
Query: 133 SCIFEXXXXXXXXXXXXXXXXXXXXYMFTKLKSLEVLDLSYNKLS 177
+ + L+ L +LDLS NKL
Sbjct: 671 DEVGD-------------------------LRGLNILDLSSNKLD 690
Score = 33.1 bits (74), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 33/69 (47%), Gaps = 3/69 (4%)
Query: 50 QNLNLCGNDFNYSKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILS 109
Q+L++ GN + S S L +LN+ F G IPP L L +L L+ N +
Sbjct: 223 QHLDISGNKLS-GDFSRAISTCTELKLLNISSNQFVGPIPP--LPLKSLQYLSLAENKFT 279
Query: 110 GHIPSSLSN 118
G IP LS
Sbjct: 280 GEIPDFLSG 288
Score = 32.7 bits (73), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 2/67 (2%)
Query: 58 DFN--YSKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSS 115
DFN +I G S +L ++L + G IP L L L LS+N SG+IP+
Sbjct: 471 DFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAE 530
Query: 116 LSNLEQL 122
L + L
Sbjct: 531 LGDCRSL 537
Score = 31.2 bits (69), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 27/70 (38%), Positives = 34/70 (48%), Gaps = 2/70 (2%)
Query: 51 NLNLCGNDFNYSKISYGFSQFRSLTILNLRHYNFRGSIP-PSFCNLTQLMHLDLSSNILS 109
L+L GN F Y + F L L L NF G +P + + L LDLS N S
Sbjct: 295 GLDLSGNHF-YGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFS 353
Query: 110 GHIPSSLSNL 119
G +P SL+NL
Sbjct: 354 GELPESLTNL 363
Score = 30.0 bits (66), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 31/67 (46%), Gaps = 1/67 (1%)
Query: 50 QNLNLCGNDFNYSKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILS 109
Q L L N F KI S L L+L G+IP S +L++L L L N+L
Sbjct: 394 QELYLQNNGFT-GKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLE 452
Query: 110 GHIPSSL 116
G IP L
Sbjct: 453 GEIPQEL 459
Score = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 26/55 (47%)
Query: 68 FSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQL 122
F S+ L++ + G IP ++ L L+L N +SG IP + +L L
Sbjct: 625 FDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGL 679
Score = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 27/84 (32%), Positives = 30/84 (35%), Gaps = 7/84 (8%)
Query: 59 FNY--SKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSL 116
FNY I L L L G IP + L L L N L+G IPS L
Sbjct: 424 FNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGL 483
Query: 117 SNLEQLR-----EKKLTCSISSCI 135
SN L +LT I I
Sbjct: 484 SNCTNLNWISLSNNRLTGEIPKWI 507
Score = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 26/50 (52%), Gaps = 1/50 (2%)
Query: 74 LTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQLR 123
L L++ NF IP + + L HLD+S N LSG ++S +L+
Sbjct: 199 LEFLDVSSNNFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELK 247
>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 = 37.4 bits (85), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 21/61 (34%), Positives = 30/61 (49%)
Query: 62 SKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQ 121
I ++ L L + H N G+IP + L+ LD S N LSG +P S+S+L
Sbjct: 91 GPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPN 150
Query: 122 L 122
L
Sbjct: 151 L 151
Score = 37.0 bits (84), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 29/55 (52%)
Query: 68 FSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQL 122
SQ ++L L+ + G++PPS +L L+ + N +SG IP S + +L
Sbjct: 121 LSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKL 175
Score = 33.9 bits (76), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 17/40 (42%), Positives = 24/40 (60%)
Query: 83 NFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQL 122
N G IPP+ LTQL +L ++ +SG IP LS ++ L
Sbjct: 88 NLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTL 127
Score = 33.5 bits (75), Expect = 0.059, Method: Compositional matrix adjust.
Identities = 29/67 (43%), Positives = 37/67 (55%), Gaps = 12/67 (17%)
Query: 53 NLCGNDFNYSKIS------YG-FSQ-FRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLS 104
NL G F+ ++IS YG FS+ F S+TI R G IPP+F NL L +DLS
Sbjct: 150 NLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNR---LTGKIPPTFANL-NLAFVDLS 205
Query: 105 SNILSGH 111
N+L G
Sbjct: 206 RNMLEGD 212
Score = 27.7 bits (60), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/67 (28%), Positives = 34/67 (50%), Gaps = 5/67 (7%)
Query: 58 DFNYSKIS----YGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQL-MHLDLSSNILSGHI 112
DF+Y+ +S S +L + G+IP S+ + ++L + +S N L+G I
Sbjct: 131 DFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKI 190
Query: 113 PSSLSNL 119
P + +NL
Sbjct: 191 PPTFANL 197
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 31.6 bits (70), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 36/62 (58%), Gaps = 6/62 (9%)
Query: 65 SYGFSQFRSLTILNLRHYNFRGS--IPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQL 122
S+ Q +L LN+ H NF S +P F NLT L+H+DLS N + ++++L+ L
Sbjct: 116 SFPIGQLITLKKLNVAH-NFIHSCKLPAYFSNLTNLVHVDLSYNYIQ---TITVNDLQFL 171
Query: 123 RE 124
RE
Sbjct: 172 RE 173
>pdb|3VQ1|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ1|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ2|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
pdb|3VQ2|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
Length = 606
Score = 31.6 bits (70), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 24/62 (38%), Positives = 36/62 (58%), Gaps = 6/62 (9%)
Query: 65 SYGFSQFRSLTILNLRHYNFRGS--IPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQL 122
S+ Q +L LN+ H NF S +P F NLT L+H+DLS N + ++++L+ L
Sbjct: 121 SFPIGQLITLKKLNVAH-NFIHSCKLPAYFSNLTNLVHVDLSYNYIQ---TITVNDLQFL 176
Query: 123 RE 124
RE
Sbjct: 177 RE 178
>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 = 30.4 bits (67), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 28/75 (37%), Positives = 36/75 (48%), Gaps = 2/75 (2%)
Query: 50 QNLNLCGNDFNYSKISYG--FSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNI 107
++LNL GN F IS SL IL L N +F L + HLDLS N
Sbjct: 451 RHLNLQGNSFQDGSISKTNLLQMVGSLEILILSSCNLLSIDQQAFHGLRNVNHLDLSHNS 510
Query: 108 LSGHIPSSLSNLEQL 122
L+G +LS+L+ L
Sbjct: 511 LTGDSMDALSHLKGL 525
>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 = 29.6 bits (65), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 68 FSQFRSLTILNLRHYNFRGSIPPS-FCNLTQLMHLDLSSNILSGHIPSSLSNLEQLREKK 126
F + +LT LNL H + S+P F LT L LDLS N L L QL++ +
Sbjct: 129 FDKLTNLTYLNLAHNQLQ-SLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLR 187
Query: 127 L 127
L
Sbjct: 188 L 188
>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 = 29.6 bits (65), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/59 (33%), Positives = 30/59 (50%), Gaps = 1/59 (1%)
Query: 65 SYGFSQFRSLTILNLRHYNFRG-SIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQL 122
++ ++L LN+ H + +P F NLT L HLDLSSN + + L L Q+
Sbjct: 117 NFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQM 175
>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 = 29.3 bits (64), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 66 YGFSQFRSLTILNLRHYNFRG-SIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQL 122
+ ++L LN+ H + +P F NLT L HLDLSSN + + L L Q+
Sbjct: 142 FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQM 199
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 29.3 bits (64), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/58 (39%), Positives = 28/58 (48%), Gaps = 1/58 (1%)
Query: 49 SQNLNLCGNDFNYSKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSN 106
SQ + L GN +Y + F R+LTIL L G +F LT L LDLS N
Sbjct: 33 SQRIFLHGNRISYVPAA-SFQSCRNLTILWLHSNALAGIDAAAFTGLTLLEQLDLSDN 89
>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 = 1.2, Method: Compositional matrix adjust.
Identities = 20/58 (34%), Positives = 29/58 (50%), Gaps = 1/58 (1%)
Query: 66 YGFSQFRSLTILNLRHYNFRG-SIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQL 122
+ ++L LN+ H + +P F NLT L HLDLSSN + + L L Q+
Sbjct: 118 FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQSIYCTDLRVLHQM 175
>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 = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 66 YGFSQFRSLTILNLRHYNFRG-SIPPSFCNLTQLMHLDLSSN 106
+ ++L LN+ H + +P F NLT L HLDLSSN
Sbjct: 118 FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN 159
>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 = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 66 YGFSQFRSLTILNLRHYNFRG-SIPPSFCNLTQLMHLDLSSN 106
+ ++L LN+ H + +P F NLT L HLDLSSN
Sbjct: 120 FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN 161
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 66 YGFSQFRSLTILNLRHYNFRG-SIPPSFCNLTQLMHLDLSSN 106
+ ++L LN+ H + +P F NLT L HLDLSSN
Sbjct: 119 FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN 160
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 66 YGFSQFRSLTILNLRHYNFRG-SIPPSFCNLTQLMHLDLSSN 106
+ ++L LN+ H + +P F NLT L HLDLSSN
Sbjct: 120 FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN 161
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 23/42 (54%), Gaps = 1/42 (2%)
Query: 66 YGFSQFRSLTILNLRHYNFRG-SIPPSFCNLTQLMHLDLSSN 106
+ ++L LN+ H + +P F NLT L HLDLSSN
Sbjct: 119 FPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN 160
>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 = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 31/112 (27%), Positives = 47/112 (41%), Gaps = 10/112 (8%)
Query: 73 SLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQLREKKLT---- 128
S+ LNL+ + F +F TQL LDL++ L G +PS + L L++ L+
Sbjct: 252 SVESLNLQEHRFSDISSTTFQCFTQLQELDLTATHLKG-LPSGMKGLNLLKKLVLSVNHF 310
Query: 129 ---CSISSCIFEXXXXXXXXXXXXXXXXXXXXYMFTKLKSLEVLDLSYNKLS 177
C IS+ F KL +L+ LDLS+N +
Sbjct: 311 DQLCQISAANFPSLTHLYIRGNVKKLHLGVG--CLEKLGNLQTLDLSHNDIE 360
>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 = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 35/72 (48%), Gaps = 2/72 (2%)
Query: 52 LNLCGNDFNYSKISYGFSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGH 111
L L GN F + S ++ LT+++L + SF N+TQL+ L LS N L
Sbjct: 36 LYLDGNQFTL--VPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCI 93
Query: 112 IPSSLSNLEQLR 123
P + L+ LR
Sbjct: 94 PPRTFDGLKSLR 105
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 41/109 (37%), Gaps = 4/109 (3%)
Query: 73 SLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQLREKKLT---- 128
++T+LNL H R +F +QL LD+ N +S P L L+ L
Sbjct: 31 NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNEL 90
Query: 129 CSISSCIFEXXXXXXXXXXXXXXXXXXXXYMFTKLKSLEVLDLSYNKLS 177
+S F F K K+L LDLS+N LS
Sbjct: 91 SQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLS 139
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 41/109 (37%), Gaps = 4/109 (3%)
Query: 73 SLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQLREKKLT---- 128
++T+LNL H R +F +QL LD+ N +S P L L+ L
Sbjct: 26 NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNEL 85
Query: 129 CSISSCIFEXXXXXXXXXXXXXXXXXXXXYMFTKLKSLEVLDLSYNKLS 177
+S F F K K+L LDLS+N LS
Sbjct: 86 SQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLS 134
>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 = 27.7 bits (60), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 30/109 (27%), Positives = 41/109 (37%), Gaps = 4/109 (3%)
Query: 73 SLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLEQLREKKLT---- 128
++T+LNL H R +F +QL LD+ N +S P L L+ L
Sbjct: 36 NITVLNLTHNQLRRLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNEL 95
Query: 129 CSISSCIFEXXXXXXXXXXXXXXXXXXXXYMFTKLKSLEVLDLSYNKLS 177
+S F F K K+L LDLS+N LS
Sbjct: 96 SQLSDKTFAFCTNLTELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLS 144
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 26.9 bits (58), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 25/64 (39%), Positives = 30/64 (46%), Gaps = 3/64 (4%)
Query: 62 SKISYG-FSQFRSLTILNLRHYNFRGSIPPSFCNLTQLMHLDLSSNILSGHIPSSLSNLE 120
S IS G F +L LNL N R P+ L +L LDLS N LS P S L
Sbjct: 174 SYISEGAFEGLSNLRYLNLAMCNLREI--PNLTPLIKLDELDLSGNHLSAIRPGSFQGLM 231
Query: 121 QLRE 124
L++
Sbjct: 232 HLQK 235
>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 = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 12/18 (66%), Positives = 13/18 (72%)
Query: 159 MFTKLKSLEVLDLSYNKL 176
MF L LEVLDLSYN +
Sbjct: 342 MFENLDKLEVLDLSYNHI 359
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
0.325 0.137 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,048,584
Number of Sequences: 62578
Number of extensions: 130797
Number of successful extensions: 512
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 23
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 374
Number of HSP's gapped (non-prelim): 149
length of query: 179
length of database: 14,973,337
effective HSP length: 93
effective length of query: 86
effective length of database: 9,153,583
effective search space: 787208138
effective search space used: 787208138
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 48 (23.1 bits)