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= 041065
(148 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 50.1 bits (118), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 48/97 (49%), Gaps = 10/97 (10%)
Query: 43 SKTSPCNDAGRVINISLPNRGVNGTLHDFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSN 102
S +PCN RV G +F + + +LD+++N G IP +I ++
Sbjct: 605 STRNPCNITSRVY----------GGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPY 654
Query: 103 LRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNRLDG 139
L + LG N G+IP EVG L L +L + N+LDG
Sbjct: 655 LFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDG 691
Score = 47.4 bits (111), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/61 (45%), Positives = 35/61 (57%)
Query: 79 LAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNRLD 138
L L L NGF G IPP +SN S L ++L N G IP+ +G LS L L + LN L+
Sbjct: 393 LQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLE 452
Query: 139 G 139
G
Sbjct: 453 G 453
Score = 41.2 bits (95), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 40/81 (49%), Gaps = 1/81 (1%)
Query: 59 LPNRGVNGTLHDFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIP 118
L N G G + + S+ L L L++N GTIP + +LS LR + L N G IP
Sbjct: 398 LQNNGFTGKIPP-TLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIP 456
Query: 119 AEVGLLSHLEVLHIQLNRLDG 139
E+ + LE L + N L G
Sbjct: 457 QELMYVKTLETLILDFNDLTG 477
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 33/61 (54%)
Query: 79 LAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNRLD 138
L L L +N G IP +SN +NL +I L +N+ G IP +G L +L +L + N
Sbjct: 465 LETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFS 524
Query: 139 G 139
G
Sbjct: 525 G 525
Score = 39.3 bits (90), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 34/63 (53%)
Query: 78 HLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNRL 137
+L ++ L+ N G IP I L NL + L +N F GNIPAE+G L L + N
Sbjct: 488 NLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLF 547
Query: 138 DGS 140
+G+
Sbjct: 548 NGT 550
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Query: 57 ISLPNRGVNGTLHDFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGN 116
+SL G + DF + L LDL+ N F+G +PP + S L + L SN F G
Sbjct: 271 LSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGE 330
Query: 117 IPAEVGL-LSHLEVLHIQLNRLDG 139
+P + L + L+VL + N G
Sbjct: 331 LPMDTLLKMRGLKVLDLSFNEFSG 354
Score = 36.2 bits (82), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 79 LAYLDLTWNGFFGTIPPQI-SNLSN-LRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNR 136
L LDL+ N F G I P + N N L+ +YL +N F G IP + S L LH+ N
Sbjct: 367 LLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNY 426
Query: 137 LDGS 140
L G+
Sbjct: 427 LSGT 430
Score = 33.9 bits (76), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 57 ISLPNRGVNGTLHDFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGN 116
ISL N + G + + +LA L L+ N F G IP ++ + +L ++ L +N F G
Sbjct: 492 ISLSNNRLTGEIPKW-IGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGT 550
Query: 117 IPAEV 121
IPA +
Sbjct: 551 IPAAM 555
Score = 33.9 bits (76), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 4/51 (7%)
Query: 70 DFS--FSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIP 118
DFS S+ L L+++ N F G IPP L +L+Y+ L N+F G IP
Sbjct: 235 DFSRAISTCTELKLLNISSNQFVGPIPPLP--LKSLQYLSLAENKFTGEIP 283
Score = 31.6 bits (70), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 79 LAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNRLD 138
L +LD++ N G IS + L+ + + SNQF G IP L L+ L + N+
Sbjct: 222 LQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLP--LKSLQYLSLAENKFT 279
Query: 139 G 139
G
Sbjct: 280 G 280
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 30/68 (44%)
Query: 72 SFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLH 131
S S L L L N G IP ++ + L + L N G IP+ + ++L +
Sbjct: 434 SLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWIS 493
Query: 132 IQLNRLDG 139
+ NRL G
Sbjct: 494 LSNNRLTG 501
>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 = 50.1 bits (118), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 32/97 (32%), Positives = 48/97 (49%), Gaps = 10/97 (10%)
Query: 43 SKTSPCNDAGRVINISLPNRGVNGTLHDFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSN 102
S +PCN RV G +F + + +LD+++N G IP +I ++
Sbjct: 608 STRNPCNITSRVY----------GGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPY 657
Query: 103 LRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNRLDG 139
L + LG N G+IP EVG L L +L + N+LDG
Sbjct: 658 LFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDG 694
Score = 47.4 bits (111), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 28/61 (45%), Positives = 35/61 (57%)
Query: 79 LAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNRLD 138
L L L NGF G IPP +SN S L ++L N G IP+ +G LS L L + LN L+
Sbjct: 396 LQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLE 455
Query: 139 G 139
G
Sbjct: 456 G 456
Score = 41.6 bits (96), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 29/81 (35%), Positives = 40/81 (49%), Gaps = 1/81 (1%)
Query: 59 LPNRGVNGTLHDFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIP 118
L N G G + + S+ L L L++N GTIP + +LS LR + L N G IP
Sbjct: 401 LQNNGFTGKIPP-TLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIP 459
Query: 119 AEVGLLSHLEVLHIQLNRLDG 139
E+ + LE L + N L G
Sbjct: 460 QELMYVKTLETLILDFNDLTG 480
Score = 40.8 bits (94), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 33/61 (54%)
Query: 79 LAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNRLD 138
L L L +N G IP +SN +NL +I L +N+ G IP +G L +L +L + N
Sbjct: 468 LETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFS 527
Query: 139 G 139
G
Sbjct: 528 G 528
Score = 39.3 bits (90), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 34/63 (53%)
Query: 78 HLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNRL 137
+L ++ L+ N G IP I L NL + L +N F GNIPAE+G L L + N
Sbjct: 491 NLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLF 550
Query: 138 DGS 140
+G+
Sbjct: 551 NGT 553
Score = 36.6 bits (83), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Query: 57 ISLPNRGVNGTLHDFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGN 116
+SL G + DF + L LDL+ N F+G +PP + S L + L SN F G
Sbjct: 274 LSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGE 333
Query: 117 IPAEVGL-LSHLEVLHIQLNRLDG 139
+P + L + L+VL + N G
Sbjct: 334 LPMDTLLKMRGLKVLDLSFNEFSG 357
Score = 36.6 bits (83), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 26/64 (40%), Positives = 34/64 (53%), Gaps = 2/64 (3%)
Query: 79 LAYLDLTWNGFFGTIPPQI-SNLSN-LRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNR 136
L LDL+ N F G I P + N N L+ +YL +N F G IP + S L LH+ N
Sbjct: 370 LLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNY 429
Query: 137 LDGS 140
L G+
Sbjct: 430 LSGT 433
Score = 33.9 bits (76), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 22/65 (33%), Positives = 35/65 (53%), Gaps = 1/65 (1%)
Query: 57 ISLPNRGVNGTLHDFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGN 116
ISL N + G + + +LA L L+ N F G IP ++ + +L ++ L +N F G
Sbjct: 495 ISLSNNRLTGEIPKW-IGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGT 553
Query: 117 IPAEV 121
IPA +
Sbjct: 554 IPAAM 558
Score = 33.9 bits (76), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 29/51 (56%), Gaps = 4/51 (7%)
Query: 70 DFS--FSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIP 118
DFS S+ L L+++ N F G IPP L +L+Y+ L N+F G IP
Sbjct: 238 DFSRAISTCTELKLLNISSNQFVGPIPPLP--LKSLQYLSLAENKFTGEIP 286
Score = 31.6 bits (70), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 2/61 (3%)
Query: 79 LAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNRLD 138
L +LD++ N G IS + L+ + + SNQF G IP L L+ L + N+
Sbjct: 225 LQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLP--LKSLQYLSLAENKFT 282
Query: 139 G 139
G
Sbjct: 283 G 283
Score = 28.1 bits (61), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 30/68 (44%)
Query: 72 SFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLH 131
S S L L L N G IP ++ + L + L N G IP+ + ++L +
Sbjct: 437 SLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWIS 496
Query: 132 IQLNRLDG 139
+ NRL G
Sbjct: 497 LSNNRLTG 504
>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 = 47.0 bits (110), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 31/77 (40%), Positives = 39/77 (50%), Gaps = 2/77 (2%)
Query: 64 VNGTLHDFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGL 123
V+G + DF S L LD ++N GT+PP IS+L NL I N+ G IP G
Sbjct: 113 VSGAIPDF-LSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGS 171
Query: 124 LSHL-EVLHIQLNRLDG 139
S L + I NRL G
Sbjct: 172 FSKLFTSMTISRNRLTG 188
Score = 38.5 bits (88), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 4/71 (5%)
Query: 74 SSFPHLAYLDLTW----NGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEV 129
SS +L YL+ + N G IPP I+ L+ L Y+Y+ G IP + + L
Sbjct: 70 SSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVT 129
Query: 130 LHIQLNRLDGS 140
L N L G+
Sbjct: 130 LDFSYNALSGT 140
Score = 31.6 bits (70), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 16/49 (32%), Positives = 26/49 (53%), Gaps = 1/49 (2%)
Query: 93 IPPQISNLSNLRYIYLGS-NQFFGNIPAEVGLLSHLEVLHIQLNRLDGS 140
IP ++NL L ++Y+G N G IP + L+ L L+I + G+
Sbjct: 68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGA 116
Score = 30.4 bits (67), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 41/85 (48%), Gaps = 3/85 (3%)
Query: 54 VINISLPNRGVNGTLHDFSFSSFPHL-AYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQ 112
++ I+ ++G + D S+ SF L + ++ N G IPP +NL NL ++ L N
Sbjct: 151 LVGITFDGNRISGAIPD-SYGSFSKLFTSMTISRNRLTGKIPPTFANL-NLAFVDLSRNM 208
Query: 113 FFGNIPAEVGLLSHLEVLHIQLNRL 137
G+ G + + +H+ N L
Sbjct: 209 LEGDASVLFGSDKNTQKIHLAKNSL 233
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 34.7 bits (78), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 20/47 (42%), Positives = 26/47 (55%)
Query: 67 TLHDFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQF 113
TL+ F+SFPHL L+L N P +NL NLR + L SN+
Sbjct: 46 TLNQDEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRL 92
>pdb|2Z80|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
pdb|2Z80|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 353
Score = 33.1 bits (74), Expect = 0.055, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 42/87 (48%), Gaps = 6/87 (6%)
Query: 49 NDAGRVINIS---LPNRGVNGTLHDFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRY 105
+D R +N+ L + G+N T+ + SFSS L +LDL++N LS+L +
Sbjct: 70 SDLQRCVNLQALVLTSNGIN-TIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTF 128
Query: 106 IYLGSNQFFGNIPAEVGLLSHLEVLHI 132
+ L N + E L SHL L I
Sbjct: 129 LNLLGNPY--KTLGETSLFSHLTKLQI 153
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 32.7 bits (73), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 42/87 (48%), Gaps = 6/87 (6%)
Query: 49 NDAGRVINIS---LPNRGVNGTLHDFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRY 105
+D R +N+ L + G+N T+ + SFSS L +LDL++N LS+L +
Sbjct: 44 SDLQRCVNLQALVLTSNGIN-TIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTF 102
Query: 106 IYLGSNQFFGNIPAEVGLLSHLEVLHI 132
+ L N + E L SHL L I
Sbjct: 103 LNLLGNPY--KTLGETSLFSHLTKLQI 127
>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 = 31.6 bits (70), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 20/44 (45%), Positives = 22/44 (50%), Gaps = 3/44 (6%)
Query: 68 LHDF---SFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYL 108
LHD SFS P L YL L +N P LSNLRY+ L
Sbjct: 260 LHDVGNGSFSYLPSLRYLSLEYNNIQRLSPRSFYGLSNLRYLSL 303
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 30.4 bits (67), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 20/44 (45%)
Query: 70 DFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQF 113
D F PHL L+L N G P S+++ + LG N+
Sbjct: 47 DGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKI 90
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 28.9 bits (63), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 26/45 (57%), Gaps = 2/45 (4%)
Query: 94 PPQISNLSNLRYIYLGSNQFFGNIPAEV-GLLSHLEVLHIQLNRL 137
P +L NL+ +YLGSNQ G +P V L+ L VL + N+L
Sbjct: 57 PGVFDSLINLKELYLGSNQ-LGALPVGVFDSLTQLTVLDLGTNQL 100
>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 = 28.5 bits (62), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 15/40 (37%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 93 IPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHI 132
+P +I NLSNLR + L N+ ++PAE+G L+ +
Sbjct: 262 LPAEIKNLSNLRVLDLSHNR-LTSLPAELGSCFQLKYFYF 300
>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 = 27.7 bits (60), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 33/70 (47%)
Query: 73 FSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHI 132
F+ +L +LDL+ P ++LS+L+ + + N FF L+ L+VL
Sbjct: 171 FTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDY 230
Query: 133 QLNRLDGSWR 142
LN + S +
Sbjct: 231 SLNHIMTSKK 240
>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 = 26.6 bits (57), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 28/87 (32%), Positives = 38/87 (43%), Gaps = 20/87 (22%)
Query: 61 NRGVNGTLHDFSFSSFPHLAYLDLTWNGF----------FGTIPPQISNLSNLRYIYLGS 110
N+G N FS P L +LDL+ NG FGTI + +LS I + S
Sbjct: 359 NKGGNA----FSEVDLPSLEFLDLSRNGLSFKGCCSQSDFGTISLKYLDLSFNGVITMSS 414
Query: 111 NQFFGNIPAEVGLLSHLEVLHIQLNRL 137
N F G + L HL+ H L ++
Sbjct: 415 N-FLG-----LEQLEHLDFQHSNLKQM 435
Score = 26.6 bits (57), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 33/70 (47%)
Query: 73 FSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHI 132
F+ +L +LDL+ P ++LS+L+ + + N FF L+ L+VL
Sbjct: 490 FTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDY 549
Query: 133 QLNRLDGSWR 142
LN + S +
Sbjct: 550 SLNHIMTSKK 559
>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 = 26.2 bits (56), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 19/70 (27%), Positives = 33/70 (47%)
Query: 73 FSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHI 132
F+ +L +LDL+ P ++LS+L+ + + N FF L+ L+VL
Sbjct: 466 FTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDY 525
Query: 133 QLNRLDGSWR 142
LN + S +
Sbjct: 526 SLNHIMTSKK 535
>pdb|4FHO|A Chain A, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
pdb|4FHO|B Chain B, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
Length = 231
Score = 26.2 bits (56), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 33/68 (48%), Gaps = 5/68 (7%)
Query: 72 SFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGL--LSHLEV 129
+ + + LDLT P ++ LSNL+ +YL NQ NI GL L +L +
Sbjct: 108 AIAGLQSIKTLDLTSTQITDVTP--LAGLSNLQVLYLDLNQIT-NISPLAGLTNLQYLSI 164
Query: 130 LHIQLNRL 137
+ Q+N L
Sbjct: 165 GNNQVNDL 172
>pdb|2YCU|A Chain A, Crystal Structure Of Human Non Muscle Myosin 2c In
Pre-power Stroke State
Length = 995
Score = 26.2 bits (56), Expect = 7.0, Method: Composition-based stats.
Identities = 14/50 (28%), Positives = 25/50 (50%)
Query: 90 FGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNRLDG 139
+ I ++ N + + +YLGSN+ +I A L +LE + L+G
Sbjct: 883 YNRILKKLENWATTKSVYLGSNETGDSITAVQAKLKNLEAFDGECQSLEG 932
>pdb|1G8X|A Chain A, Structure Of A Genetically Engineered Molecular Motor
pdb|1G8X|B Chain B, Structure Of A Genetically Engineered Molecular Motor
Length = 1010
Score = 26.2 bits (56), Expect = 7.1, Method: Composition-based stats.
Identities = 14/50 (28%), Positives = 25/50 (50%)
Query: 90 FGTIPPQISNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLHIQLNRLDG 139
+ I ++ N + + +YLGSN+ +I A L +LE + L+G
Sbjct: 891 YNRILKKLENWATTKSVYLGSNETGDSITAVQAKLKNLEAFDGECQSLEG 940
>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 = 25.8 bits (55), Expect = 9.3, Method: Compositional matrix adjust.
Identities = 13/35 (37%), Positives = 20/35 (57%), Gaps = 1/35 (2%)
Query: 70 DFSFSSFPHLAYLDLTWNGFFGTIPPQISNLSNLR 104
DF ++ P+L +DL++N F P Q N S L+
Sbjct: 506 DFRATTLPYLVGIDLSYNS-FSKFPTQPLNSSTLK 539
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 25.8 bits (55), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 4/66 (6%)
Query: 73 FSSFPHLAYLDLTWNGFFGTIPPQI-SNLSNLRYIYLGSNQFFGNIPAEVGLLSHLEVLH 131
F HL L L N + ++PP + S+L+ LR + L SN+ + + L ++LE+L
Sbjct: 476 FEGLSHLQVLYLNHN-YLNSLPPGVFSHLTALRGLSLNSNRL--TVLSHNDLPANLEILD 532
Query: 132 IQLNRL 137
I N+L
Sbjct: 533 ISRNQL 538
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 0.135 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,390,061
Number of Sequences: 62578
Number of extensions: 168923
Number of successful extensions: 452
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 373
Number of HSP's gapped (non-prelim): 85
length of query: 148
length of database: 14,973,337
effective HSP length: 90
effective length of query: 58
effective length of database: 9,341,317
effective search space: 541796386
effective search space used: 541796386
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: 47 (22.7 bits)