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= 039528
(136 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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 30/64 (46%)
Query: 7 LFELNLKGNNVEGHLPNCLKYLSHLKVFDISQNQXXXXXXXXXXXXXXXEYLDLSYNNFE 66
LF LNL N++ G +P+ + L L + D+S N+ +DLS NN
Sbjct: 658 LFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLS 717
Query: 67 GPCP 70
GP P
Sbjct: 718 GPIP 721
Score = 31.6 bits (70), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 37/95 (38%)
Query: 1 LCELKNLFELNLKGNNVEGHLPNCLKYLSHLKVFDISQNQXXXXXXXXXXXXXXXEYLDL 60
L NL ++L N + G +P + L +L + +S N +LDL
Sbjct: 486 LSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDL 545
Query: 61 SYNNFEGPCPLSLLAHHSKLEVLVLSSTILVKTEN 95
+ N F G P ++ K+ ++ V +N
Sbjct: 546 NTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKN 580
Score = 27.3 bits (59), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 34/87 (39%), Gaps = 2/87 (2%)
Query: 1 LCELKNLFELNLKGNNVEGHLPNCLKYLSHLKVFDISQNQXXXXXXXXXXXXXXXEYLDL 60
L + L L++ GN + G + + LK+ +IS NQ +YL L
Sbjct: 219 LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQ--FVGPIPPLPLKSLQYLSL 276
Query: 61 SYNNFEGPCPLSLLAHHSKLEVLVLSS 87
+ N F G P L L L LS
Sbjct: 277 AENKFTGEIPDFLSGACDTLTGLDLSG 303
>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 = 38.5 bits (88), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 30/64 (46%)
Query: 7 LFELNLKGNNVEGHLPNCLKYLSHLKVFDISQNQXXXXXXXXXXXXXXXEYLDLSYNNFE 66
LF LNL N++ G +P+ + L L + D+S N+ +DLS NN
Sbjct: 655 LFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLS 714
Query: 67 GPCP 70
GP P
Sbjct: 715 GPIP 718
Score = 31.6 bits (70), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 21/95 (22%), Positives = 37/95 (38%)
Query: 1 LCELKNLFELNLKGNNVEGHLPNCLKYLSHLKVFDISQNQXXXXXXXXXXXXXXXEYLDL 60
L NL ++L N + G +P + L +L + +S N +LDL
Sbjct: 483 LSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDL 542
Query: 61 SYNNFEGPCPLSLLAHHSKLEVLVLSSTILVKTEN 95
+ N F G P ++ K+ ++ V +N
Sbjct: 543 NTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKN 577
Score = 26.9 bits (58), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 24/87 (27%), Positives = 34/87 (39%), Gaps = 2/87 (2%)
Query: 1 LCELKNLFELNLKGNNVEGHLPNCLKYLSHLKVFDISQNQXXXXXXXXXXXXXXXEYLDL 60
L + L L++ GN + G + + LK+ +IS NQ +YL L
Sbjct: 216 LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQ--FVGPIPPLPLKSLQYLSL 273
Query: 61 SYNNFEGPCPLSLLAHHSKLEVLVLSS 87
+ N F G P L L L LS
Sbjct: 274 AENKFTGEIPDFLSGACDTLTGLDLSG 300
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 30.0 bits (66), Expect = 0.40, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 41/83 (49%), Gaps = 4/83 (4%)
Query: 56 EYLDLSYN--NFEGPCPLSLLAHHSKLEVLVLSSTILVKTENFLPTFQLKELGLANCSLN 113
YLDLS N +F G C S L +S + + + ++ + NF+ +L+ L + +L
Sbjct: 348 SYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLK 407
Query: 114 VVPTF--LLHQYDLKYLDLSHNN 134
V F L L YLD+S+ N
Sbjct: 408 RVTEFSAFLSLEKLLYLDISYTN 430
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 30.0 bits (66), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 36/70 (51%), Gaps = 4/70 (5%)
Query: 10 LNLKGNNV-EGHLPNCLKYLSHLKVFDISQNQXXXXXXXXXXXXXXXEYLDLSYNNFE-- 66
L+L N++ E +P+ + +LS L+V +S N+ EYLD+S+N +
Sbjct: 57 LSLSQNSISELRMPD-ISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEYLDVSHNRLQNI 115
Query: 67 GPCPLSLLAH 76
CP++ L H
Sbjct: 116 SCCPMASLRH 125
>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 = 30.0 bits (66), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 41/83 (49%), Gaps = 4/83 (4%)
Query: 56 EYLDLSYN--NFEGPCPLSLLAHHSKLEVLVLSSTILVKTENFLPTFQLKELGLANCSLN 113
YLDLS N +F G C S L +S + + + ++ + NF+ +L+ L + +L
Sbjct: 353 SYLDLSRNALSFSGCCSYSDLGTNSLRHLDLSFNGAIIMSANFMGLEELQHLDFQHSTLK 412
Query: 114 VVPTF--LLHQYDLKYLDLSHNN 134
V F L L YLD+S+ N
Sbjct: 413 RVTEFSAFLSLEKLLYLDISYTN 435
>pdb|2ATM|A Chain A, Crystal Structure Of The Recombinant Allergen Ves V 2
Length = 331
Score = 26.9 bits (58), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 10/21 (47%), Positives = 17/21 (80%)
Query: 115 VPTFLLHQYDLKYLDLSHNNL 135
VPTF+ HQYDL + ++++ N+
Sbjct: 14 VPTFMCHQYDLYFDEVTNFNI 34
>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 = 26.2 bits (56), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 40/88 (45%), Gaps = 6/88 (6%)
Query: 3 ELKNLFELNLKGNNVEGHLPNC----LKYLSHLKVFDISQNQXXXXXXXXXXXXXXXEYL 58
+L NL L+L N++E +C LK LSHL+ ++S N+ E L
Sbjct: 345 KLGNLQTLDLSHNDIEA--SDCCSLQLKNLSHLQTLNLSHNEPLGLQSQAFKECPQLELL 402
Query: 59 DLSYNNFEGPCPLSLLAHHSKLEVLVLS 86
DL++ P S + L+VL L+
Sbjct: 403 DLAFTRLHINAPQSPFQNLHFLQVLNLT 430
>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 = 25.8 bits (55), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 1/63 (1%)
Query: 4 LKNLFELNLKGNNV-EGHLPNCLKYLSHLKVFDISQNQXXXXXXXXXXXXXXXEYLDLSY 62
L +L L + GN+ E LP+ L +L D+SQ Q + L++S+
Sbjct: 149 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 208
Query: 63 NNF 65
NNF
Sbjct: 209 NNF 211
>pdb|1U8S|A Chain A, Crystal Structure Of Putative Glycine Cleavage System
Transcriptional Repressor
pdb|1U8S|B Chain B, Crystal Structure Of Putative Glycine Cleavage System
Transcriptional Repressor
Length = 192
Score = 25.8 bits (55), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 22/47 (46%)
Query: 75 AHHSKLEVLVLSSTILVKTENFLPTFQLKELGLANCSLNVVPTFLLH 121
H +EV V S L TE F F +++G+A+ S + LH
Sbjct: 89 THAYTVEVYVESDDKLGLTEKFTQFFAQRQIGMASLSAQTISKDKLH 135
>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 = 25.8 bits (55), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 1/63 (1%)
Query: 4 LKNLFELNLKGNNV-EGHLPNCLKYLSHLKVFDISQNQXXXXXXXXXXXXXXXEYLDLSY 62
L +L L + GN+ E LP+ L +L D+SQ Q + L++S+
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 503
Query: 63 NNF 65
NNF
Sbjct: 504 NNF 506
>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 = 25.8 bits (55), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 19/63 (30%), Positives = 29/63 (46%), Gaps = 1/63 (1%)
Query: 4 LKNLFELNLKGNNV-EGHLPNCLKYLSHLKVFDISQNQXXXXXXXXXXXXXXXEYLDLSY 62
L +L L + GN+ E LP+ L +L D+SQ Q + L++S+
Sbjct: 468 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSH 527
Query: 63 NNF 65
NNF
Sbjct: 528 NNF 530
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 0.139 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,626,242
Number of Sequences: 62578
Number of extensions: 111620
Number of successful extensions: 375
Number of sequences better than 100.0: 43
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 29
Number of HSP's that attempted gapping in prelim test: 295
Number of HSP's gapped (non-prelim): 95
length of query: 136
length of database: 14,973,337
effective HSP length: 88
effective length of query: 48
effective length of database: 9,466,473
effective search space: 454390704
effective search space used: 454390704
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: 46 (22.3 bits)