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= 039561
(190 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 = 65.5 bits (158), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 59/186 (31%), Positives = 89/186 (47%), Gaps = 38/186 (20%)
Query: 10 HKFSRSFPTSTGALSSL-ESLHLHRNHLSGAIPLSLQNGTHFEVLDLRENAFIRDVPKWI 68
++ S + P S G+ S L S+ + RN L+G IP + N + +DL N
Sbjct: 159 NRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFAN-LNLAFVDLSRN---------- 207
Query: 69 KKSLLALFMMKGKA-FEYSTNLNVLRVIELSKNNFLGEIAKGVTNPGASQTLN---LSQN 124
M++G A + ++ N + I L+KN+ ++ K G S+ LN L N
Sbjct: 208 --------MLEGDASVLFGSDKNTQK-IHLAKNSLAFDLGKV----GLSKNLNGLDLRNN 254
Query: 125 SFSRTIPESIGSMKSLESIDFSANHYLNLSNNNLTGEIPSGIQLQGFHQSRFAGSE-LCG 183
T+P+ + +K L H LN+S NNL GEIP G LQ F S +A ++ LCG
Sbjct: 255 RIYGTLPQGLTQLKFL--------HSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKCLCG 306
Query: 184 APFPKC 189
+P P C
Sbjct: 307 SPLPAC 312
Score = 31.6 bits (70), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 23/86 (26%), Positives = 38/86 (44%), Gaps = 9/86 (10%)
Query: 100 NNFLGEIAKGVTNPGASQTLNLSQNSFSRTIPESIGSMKSLESIDFSANHYLNLSNNNLT 159
NN +G I + L ++ + S IP+ + +K+L ++DFS N L+
Sbjct: 87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNA--------LS 138
Query: 160 GEIPSGI-QLQGFHQSRFAGSELCGA 184
G +P I L F G+ + GA
Sbjct: 139 GTLPPSISSLPNLVGITFDGNRISGA 164
>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 = 60.8 bits (146), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 64/250 (25%), Positives = 94/250 (37%), Gaps = 69/250 (27%)
Query: 9 QHKFSRSFPTSTGALSSLESLHLHRNHLSGAIPLSLQNGTHFEVLDLRENAFIRDVPKWI 68
++ + P G L +L L L N SG IP L + LDL N F +P +
Sbjct: 499 NNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 558
Query: 69 KK--SLLALFMMKGKAFEYSTN-----------------------LNVL----------R 93
K +A + GK + Y N LN L R
Sbjct: 559 FKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSR 618
Query: 94 V-----------------IELSKNNFLGEIAKGVTNPGASQTLNLSQNSFSRTIPESIGS 136
V +++S N G I K + + LNL N S +IP+ +G
Sbjct: 619 VYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGD 678
Query: 137 MKSLESIDFSANHY----------------LNLSNNNLTGEIPSGIQLQGFHQSRFAGSE 180
++ L +D S+N ++LSNNNL+G IP Q + F ++F +
Sbjct: 679 LRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNP 738
Query: 181 -LCGAPFPKC 189
LCG P P+C
Sbjct: 739 GLCGYPLPRC 748
Score = 60.5 bits (145), Expect = 6e-10, Method: Compositional matrix adjust.
Identities = 58/178 (32%), Positives = 82/178 (46%), Gaps = 19/178 (10%)
Query: 4 QGLKIQHK-FSRSFPTSTGALSSLESLHLHRNHLSGAIPLSLQNGTHFEVLDLRENAFIR 62
Q L +Q+ F+ P + S L SLHL N+LSG IP SL + + L L N
Sbjct: 397 QELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEG 456
Query: 63 DVPKWIK--KSLLALFM----MKGKAFEYSTNLNVLRVIELSKNNFLGEIAKGVTNPGAS 116
++P+ + K+L L + + G+ +N L I LS N GEI K +
Sbjct: 457 EIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENL 516
Query: 117 QTLNLSQNSFSRTIPESIGSMKSLESIDFSANHYLNLSNNNLTGEIPSGIQLQGFHQS 174
L LS NSFS IP +G +SL +L+L+ N G IP+ + F QS
Sbjct: 517 AILKLSNNSFSGNIPAELGDCRSL--------IWLDLNTNLFNGTIPAAM----FKQS 562
Score = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 55/209 (26%), Positives = 84/209 (40%), Gaps = 51/209 (24%)
Query: 9 QHKFSRSFPTS-TGALSSLESLHLHRNHLSGAIPL------------------------- 42
++KF+ P +GA +L L L NH GA+P
Sbjct: 278 ENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMD 337
Query: 43 SLQNGTHFEVLDLRENAFIRDVPKWIKKSLLALFMMKGKAFEYSTNL---------NVLR 93
+L +VLDL N F ++P+ + +L + + +S + N L+
Sbjct: 338 TLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQ 397
Query: 94 VIELSKNNFLGEIAKGVTNPGASQTLNLSQNSFSRTIPESIGSMKSLESIDFSAN----- 148
+ L N F G+I ++N +L+LS N S TIP S+GS+ L + N
Sbjct: 398 ELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGE 457
Query: 149 -----------HYLNLSNNNLTGEIPSGI 166
L L N+LTGEIPSG+
Sbjct: 458 IPQELMYVKTLETLILDFNDLTGEIPSGL 486
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 41/154 (26%), Positives = 68/154 (44%), Gaps = 19/154 (12%)
Query: 23 LSSLESLHLHRNHLSGAIPLSLQNGTHFEVLDLRENAFIRDVPKWIKKSLLALFMMKGKA 82
+ +LE+L L N L+G IP L N T+ + L N ++PKWI +
Sbjct: 465 VKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGR------------ 512
Query: 83 FEYSTNLNVLRVIELSKNNFLGEIAKGVTNPGASQTLNLSQNSFSRTIPESIGSMKSLES 142
L L +++LS N+F G I + + + L+L+ N F+ TIP ++ +
Sbjct: 513 ------LENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIA 566
Query: 143 IDFSAN-HYLNLSNNNLTGEIPSGIQLQGFHQSR 175
+F A Y+ + N+ + E L F R
Sbjct: 567 ANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIR 600
Score = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 48/176 (27%), Positives = 83/176 (47%), Gaps = 24/176 (13%)
Query: 10 HKFSRSFPTSTGALSSLESLHLHRNHLSGAIPLSLQNGTHFEVLDLRENAFIRDVPKWIK 69
+ FS P G S+L+ L + N LSG ++ T ++L++ N F+ +P
Sbjct: 210 NNFSTGIPF-LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPL 268
Query: 70 KSL----LALFMMKGKAFEY-STNLNVLRVIELSKNNFLGEIAKGVTNPGASQTLNLSQN 124
KSL LA G+ ++ S + L ++LS N+F G + + ++L LS N
Sbjct: 269 KSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSN 328
Query: 125 SFSRTIP-ESIGSMKSLESIDFSANHY-----------------LNLSNNNLTGEI 162
+FS +P +++ M+ L+ +D S N + L+LS+NN +G I
Sbjct: 329 NFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPI 384
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 40/157 (25%), Positives = 67/157 (42%), Gaps = 41/157 (26%)
Query: 26 LESLHLHRNHLSGAIPLSLQNGTHFEVLDLRENAFIRDVPKWIKKSLLALFMMKGKAFEY 85
L+ L + N +SG + +S + E LD+ N F +P F+ A ++
Sbjct: 180 LKHLAISGNKISGDVDVS--RCVNLEFLDVSSNNFSTGIP----------FLGDCSALQH 227
Query: 86 STNLNVLRVIELSKNNFLGEIAKGVTNPGASQTLNLSQNSFSRTIPESIGSMKSLESIDF 145
+++S N G+ ++ ++ + LN+S N F IP +KSL+
Sbjct: 228 ---------LDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL--PLKSLQ---- 272
Query: 146 SANHYLNLSNNNLTGEIP----------SGIQLQGFH 172
YL+L+ N TGEIP +G+ L G H
Sbjct: 273 ----YLSLAENKFTGEIPDFLSGACDTLTGLDLSGNH 305
>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 = 60.8 bits (146), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 64/250 (25%), Positives = 94/250 (37%), Gaps = 69/250 (27%)
Query: 9 QHKFSRSFPTSTGALSSLESLHLHRNHLSGAIPLSLQNGTHFEVLDLRENAFIRDVPKWI 68
++ + P G L +L L L N SG IP L + LDL N F +P +
Sbjct: 496 NNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 555
Query: 69 KK--SLLALFMMKGKAFEYSTN-----------------------LNVL----------R 93
K +A + GK + Y N LN L R
Sbjct: 556 FKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSR 615
Query: 94 V-----------------IELSKNNFLGEIAKGVTNPGASQTLNLSQNSFSRTIPESIGS 136
V +++S N G I K + + LNL N S +IP+ +G
Sbjct: 616 VYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGD 675
Query: 137 MKSLESIDFSANHY----------------LNLSNNNLTGEIPSGIQLQGFHQSRFAGSE 180
++ L +D S+N ++LSNNNL+G IP Q + F ++F +
Sbjct: 676 LRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNP 735
Query: 181 -LCGAPFPKC 189
LCG P P+C
Sbjct: 736 GLCGYPLPRC 745
Score = 60.1 bits (144), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 58/178 (32%), Positives = 82/178 (46%), Gaps = 19/178 (10%)
Query: 4 QGLKIQHK-FSRSFPTSTGALSSLESLHLHRNHLSGAIPLSLQNGTHFEVLDLRENAFIR 62
Q L +Q+ F+ P + S L SLHL N+LSG IP SL + + L L N
Sbjct: 394 QELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEG 453
Query: 63 DVPKWIK--KSLLALFM----MKGKAFEYSTNLNVLRVIELSKNNFLGEIAKGVTNPGAS 116
++P+ + K+L L + + G+ +N L I LS N GEI K +
Sbjct: 454 EIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENL 513
Query: 117 QTLNLSQNSFSRTIPESIGSMKSLESIDFSANHYLNLSNNNLTGEIPSGIQLQGFHQS 174
L LS NSFS IP +G +SL +L+L+ N G IP+ + F QS
Sbjct: 514 AILKLSNNSFSGNIPAELGDCRSL--------IWLDLNTNLFNGTIPAAM----FKQS 559
Score = 51.2 bits (121), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 55/209 (26%), Positives = 84/209 (40%), Gaps = 51/209 (24%)
Query: 9 QHKFSRSFPTS-TGALSSLESLHLHRNHLSGAIPL------------------------- 42
++KF+ P +GA +L L L NH GA+P
Sbjct: 275 ENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMD 334
Query: 43 SLQNGTHFEVLDLRENAFIRDVPKWIKKSLLALFMMKGKAFEYSTNL---------NVLR 93
+L +VLDL N F ++P+ + +L + + +S + N L+
Sbjct: 335 TLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQ 394
Query: 94 VIELSKNNFLGEIAKGVTNPGASQTLNLSQNSFSRTIPESIGSMKSLESIDFSAN----- 148
+ L N F G+I ++N +L+LS N S TIP S+GS+ L + N
Sbjct: 395 ELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGE 454
Query: 149 -----------HYLNLSNNNLTGEIPSGI 166
L L N+LTGEIPSG+
Sbjct: 455 IPQELMYVKTLETLILDFNDLTGEIPSGL 483
Score = 49.3 bits (116), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 41/154 (26%), Positives = 68/154 (44%), Gaps = 19/154 (12%)
Query: 23 LSSLESLHLHRNHLSGAIPLSLQNGTHFEVLDLRENAFIRDVPKWIKKSLLALFMMKGKA 82
+ +LE+L L N L+G IP L N T+ + L N ++PKWI +
Sbjct: 462 VKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGR------------ 509
Query: 83 FEYSTNLNVLRVIELSKNNFLGEIAKGVTNPGASQTLNLSQNSFSRTIPESIGSMKSLES 142
L L +++LS N+F G I + + + L+L+ N F+ TIP ++ +
Sbjct: 510 ------LENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIA 563
Query: 143 IDFSAN-HYLNLSNNNLTGEIPSGIQLQGFHQSR 175
+F A Y+ + N+ + E L F R
Sbjct: 564 ANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIR 597
Score = 43.9 bits (102), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 48/176 (27%), Positives = 83/176 (47%), Gaps = 24/176 (13%)
Query: 10 HKFSRSFPTSTGALSSLESLHLHRNHLSGAIPLSLQNGTHFEVLDLRENAFIRDVPKWIK 69
+ FS P G S+L+ L + N LSG ++ T ++L++ N F+ +P
Sbjct: 207 NNFSTGIPF-LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPL 265
Query: 70 KSL----LALFMMKGKAFEY-STNLNVLRVIELSKNNFLGEIAKGVTNPGASQTLNLSQN 124
KSL LA G+ ++ S + L ++LS N+F G + + ++L LS N
Sbjct: 266 KSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSN 325
Query: 125 SFSRTIP-ESIGSMKSLESIDFSANHY-----------------LNLSNNNLTGEI 162
+FS +P +++ M+ L+ +D S N + L+LS+NN +G I
Sbjct: 326 NFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPI 381
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 40/157 (25%), Positives = 67/157 (42%), Gaps = 41/157 (26%)
Query: 26 LESLHLHRNHLSGAIPLSLQNGTHFEVLDLRENAFIRDVPKWIKKSLLALFMMKGKAFEY 85
L+ L + N +SG + +S + E LD+ N F +P F+ A ++
Sbjct: 177 LKHLAISGNKISGDVDVS--RCVNLEFLDVSSNNFSTGIP----------FLGDCSALQH 224
Query: 86 STNLNVLRVIELSKNNFLGEIAKGVTNPGASQTLNLSQNSFSRTIPESIGSMKSLESIDF 145
+++S N G+ ++ ++ + LN+S N F IP +KSL+
Sbjct: 225 ---------LDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL--PLKSLQ---- 269
Query: 146 SANHYLNLSNNNLTGEIP----------SGIQLQGFH 172
YL+L+ N TGEIP +G+ L G H
Sbjct: 270 ----YLSLAENKFTGEIPDFLSGACDTLTGLDLSGNH 302
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 32.3 bits (72), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 42/153 (27%), Positives = 71/153 (46%), Gaps = 16/153 (10%)
Query: 9 QHKFSRSFPTSTGALSSLESLHLHRNHLSGAIPLSL--QNGTHFEVLD-----LRENAFI 61
Q+ F+ S L L++L L RN L ++L +N + E LD L +A+
Sbjct: 362 QNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYD 421
Query: 62 RDVPKWIKKSL---LALFMMKGKAFEYSTNLNVLRVIELSKNNFLGEIAKGVTNPGASQT 118
R W + L L+ M+ G F ++V++L NN + I K VT+ A Q
Sbjct: 422 RTC-AWAESILVLNLSSNMLTGSVFRCLPP--KVKVLDL-HNNRIMSIPKDVTHLQALQE 477
Query: 119 LNLSQNSFSRTIPESI-GSMKSLESIDFSANHY 150
LN++ N +++P+ + + SL+ I N +
Sbjct: 478 LNVASNQL-KSVPDGVFDRLTSLQYIWLHDNPW 509
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 44/104 (42%), Gaps = 23/104 (22%)
Query: 95 IELSKNNFLGEIAKGVTNPGASQTLNLSQNSFSRTIPESIGS--MKSLESIDFSANH--- 149
+ ++N F + +G + QTL L +N ++ + M SLE++D S N
Sbjct: 358 LNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNS 417
Query: 150 --------------YLNLSNNNLTGEI----PSGIQLQGFHQSR 175
LNLS+N LTG + P +++ H +R
Sbjct: 418 HAYDRTCAWAESILVLNLSSNMLTGSVFRCLPPKVKVLDLHNNR 461
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 30.8 bits (68), Expect = 0.49, Method: Compositional matrix adjust.
Identities = 32/130 (24%), Positives = 48/130 (36%), Gaps = 42/130 (32%)
Query: 21 GALSSLESLHLHRNHLSGAIPLSLQNGTHFEVLDLRENAFIRDVPKWIKKSLLALFMMKG 80
G L L L L RN L+G P + + +H + L L EN
Sbjct: 51 GRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN---------------------- 88
Query: 81 KAFEYSTNLNVLRVIELSKNNFLGEIAKGVTNPGASQTLNLSQNSFSRTIPESIGSMKSL 140
++ E+S FLG +TLNL N S +P S + SL
Sbjct: 89 ------------KIKEISNKMFLG--------LHQLKTLNLYDNQISCVMPGSFEHLNSL 128
Query: 141 ESIDFSANHY 150
S++ ++N +
Sbjct: 129 TSLNLASNPF 138
>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 = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 51/114 (44%), Gaps = 9/114 (7%)
Query: 73 LALFMMKGKAFEYS------TNLNVLRVIELSKNNFLGEIAKGVTNPGAS-QTLNLSQNS 125
L + M G +F+ + T L L ++LS+ L +++ N +S Q LN+S N+
Sbjct: 471 LEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSPTAFNSLSSLQVLNMSHNN 529
Query: 126 FSRTIPESIGSMKSLESIDFSANHYLNLSNNNLTGEIPSGIQLQGFHQSRFAGS 179
F + SL+ +D+S NH + L PS + Q+ FA +
Sbjct: 530 FFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQ-HFPSSLAFLNLTQNDFACT 582
>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 = 1.2, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 51/114 (44%), Gaps = 9/114 (7%)
Query: 73 LALFMMKGKAFEYS------TNLNVLRVIELSKNNFLGEIAKGVTNPGAS-QTLNLSQNS 125
L + M G +F+ + T L L ++LS+ L +++ N +S Q LN+S N+
Sbjct: 447 LEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSPTAFNSLSSLQVLNMSHNN 505
Query: 126 FSRTIPESIGSMKSLESIDFSANHYLNLSNNNLTGEIPSGIQLQGFHQSRFAGS 179
F + SL+ +D+S NH + L PS + Q+ FA +
Sbjct: 506 FFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQ-HFPSSLAFLNLTQNDFACT 558
>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 = 29.6 bits (65), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 30/114 (26%), Positives = 51/114 (44%), Gaps = 9/114 (7%)
Query: 73 LALFMMKGKAFEYS------TNLNVLRVIELSKNNFLGEIAKGVTNPGAS-QTLNLSQNS 125
L + M G +F+ + T L L ++LS+ L +++ N +S Q LN+S N+
Sbjct: 152 LEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQ-LEQLSPTAFNSLSSLQVLNMSHNN 210
Query: 126 FSRTIPESIGSMKSLESIDFSANHYLNLSNNNLTGEIPSGIQLQGFHQSRFAGS 179
F + SL+ +D+S NH + L PS + Q+ FA +
Sbjct: 211 FFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQ-HFPSSLAFLNLTQNDFACT 263
>pdb|2Z6E|A Chain A, Crystal Structure Of Human Daam1 Fh2
pdb|2Z6E|B Chain B, Crystal Structure Of Human Daam1 Fh2
pdb|2Z6E|C Chain C, Crystal Structure Of Human Daam1 Fh2
pdb|2Z6E|D Chain D, Crystal Structure Of Human Daam1 Fh2
Length = 419
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 21/44 (47%)
Query: 14 RSFPTSTGALSSLESLHLHRNHLSGAIPLSLQNGTHFEVLDLRE 57
+S P T AL S L N L G + + + F++LDL +
Sbjct: 8 KSIPQPTNALKSFNWSKLPENKLEGTVWTEIDDTKVFKILDLED 51
>pdb|2J1D|G Chain G, Crystallization Of Hdaam1 C-Terminal Fragment
Length = 483
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 14/44 (31%), Positives = 21/44 (47%)
Query: 14 RSFPTSTGALSSLESLHLHRNHLSGAIPLSLQNGTHFEVLDLRE 57
+S P T AL S L N L G + + + F++LDL +
Sbjct: 6 KSIPQPTNALKSFNWSKLPENKLEGTVWTEIDDTKVFKILDLED 49
>pdb|1G43|A Chain A, Crystal Structure Of A Family Iiia Cbd From Clostridium
Cellulolyticum
Length = 160
Score = 28.9 bits (63), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 33/57 (57%), Gaps = 2/57 (3%)
Query: 121 LSQNSFSRTIPESIGSMKSLESIDFSANHYLNLSNNNLTGEIPSGIQLQGFHQSRFA 177
+S +++ + GS K++ +A+HYL ++ N+ G +P+G ++ Q+RFA
Sbjct: 65 MSGSNYIDATSKVTGSFKAVSPAVTNADHYLEVALNSDAGSLPAGGSIE--IQTRFA 119
>pdb|1DGS|A Chain A, Crystal Structure Of Nad+-Dependent Dna Ligase From T.
Filiformis
pdb|1DGS|B Chain B, Crystal Structure Of Nad+-Dependent Dna Ligase From T.
Filiformis
Length = 667
Score = 27.7 bits (60), Expect = 3.9, Method: Composition-based stats.
Identities = 26/89 (29%), Positives = 38/89 (42%), Gaps = 15/89 (16%)
Query: 55 LRENAFIRDVPKWI---KKSLLALFMMKGKAFEYSTNLNVLRVIELSKNNFLGEIAKGVT 111
L E +RDV K+ LL L M K+ + N+LR IE SK+ L + +
Sbjct: 457 LLEKGLVRDVADLYHLRKEDLLGLERMGEKSAQ-----NLLRQIEESKHRGLERLLYALG 511
Query: 112 NPGASQTLNLSQNSFSRTIPESIGSMKSL 140
PG + L +R + G+M L
Sbjct: 512 LPGVGEVL-------ARNLARRFGTMDRL 533
>pdb|1A26|A Chain A, The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase
Complexed With Carba-Nad
pdb|1PAX|A Chain A, The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase
Complexed With 3,4-Dihydro-5-Methyl-Isoquinolinone
pdb|2PAW|A Chain A, The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase
pdb|2PAX|A Chain A, The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase
Complexed With 4-Amino-1,8-Naphthalimide
pdb|3PAX|A Chain A, The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase
Complexed With 3-Methoxybenzamide
pdb|4PAX|A Chain A, The Catalytic Fragment Of Poly(Adp-Ribose) Polymerase
Complexed With
8-Hydroxy-2-Methyl-3-Hydro-Quinazolin-4-One
Length = 361
Score = 26.9 bits (58), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 8/68 (11%)
Query: 78 MKGKAFEYSTNLNVLRVIELSKN------NFLGEIAKGVTNPGA-SQTLNLSQNSFSRTI 130
MK E+ +L + + +LSK + L E+ + V++ G+ SQ L+LS N F I
Sbjct: 29 MKKAMVEFEIDLQKMPLGKLSKRQIQSAYSILNEVQQAVSDGGSESQILDLS-NRFYTLI 87
Query: 131 PESIGSMK 138
P G K
Sbjct: 88 PHDFGMKK 95
>pdb|1EFY|A Chain A, Crystal Structure Of The Catalytic Fragment Of Poly (Adp-
Ribose) Polymerase Complexed With A Benzimidazole
Inhibitor
Length = 350
Score = 26.9 bits (58), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 34/68 (50%), Gaps = 8/68 (11%)
Query: 78 MKGKAFEYSTNLNVLRVIELSKN------NFLGEIAKGVTNPGA-SQTLNLSQNSFSRTI 130
MK E+ +L + + +LSK + L E+ + V++ G+ SQ L+LS N F I
Sbjct: 21 MKKAMVEFEIDLQKMPLGKLSKRQIQSAYSILNEVQQAVSDGGSESQILDLS-NRFYTLI 79
Query: 131 PESIGSMK 138
P G K
Sbjct: 80 PHDFGMKK 87
>pdb|2F68|X Chain X, Crystal Structure Of Collagen Adhesin (Cna) From S. Aureus
Length = 313
Score = 26.9 bits (58), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 113 PGASQTLNLSQNSFSRTIPESIGSMKSLESIDFSANHYLNLSN 155
PG+ T++ ++N+ TIP+ GS S FS N+ ++N
Sbjct: 227 PGSKITVDNTKNTIDVTIPQGYGSYNS-----FSINYKTKITN 264
>pdb|2F6A|A Chain A, Collagen Adhesin And Collagen Complex Structure
pdb|2F6A|B Chain B, Collagen Adhesin And Collagen Complex Structure
pdb|2F6A|C Chain C, Collagen Adhesin And Collagen Complex Structure
pdb|2F6A|D Chain D, Collagen Adhesin And Collagen Complex Structure
Length = 303
Score = 26.9 bits (58), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 24/43 (55%), Gaps = 5/43 (11%)
Query: 113 PGASQTLNLSQNSFSRTIPESIGSMKSLESIDFSANHYLNLSN 155
PG+ T++ ++N+ TIP+ GS S FS N+ ++N
Sbjct: 221 PGSKITVDNTKNTIDVTIPQGYGSYNS-----FSINYKTKITN 258
>pdb|1V9P|A Chain A, Crystal Structure Of Nad+-Dependent Dna Ligase
pdb|1V9P|B Chain B, Crystal Structure Of Nad+-Dependent Dna Ligase
Length = 584
Score = 26.9 bits (58), Expect = 7.8, Method: Composition-based stats.
Identities = 25/86 (29%), Positives = 37/86 (43%), Gaps = 15/86 (17%)
Query: 55 LRENAFIRDVPKWI---KKSLLALFMMKGKAFEYSTNLNVLRVIELSKNNFLGEIAKGVT 111
L E +RDV K+ LL L M K+ + N+LR IE SK+ L + +
Sbjct: 460 LLEKGLVRDVADLYHLRKEDLLGLERMGEKSAQ-----NLLRQIEESKHRGLERLLYALG 514
Query: 112 NPGASQTLNLSQNSFSRTIPESIGSM 137
PG + L +R + G+M
Sbjct: 515 LPGVGEVL-------ARNLARRFGTM 533
>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 = 26.6 bits (57), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 17/39 (43%), Positives = 23/39 (58%), Gaps = 1/39 (2%)
Query: 112 NPGASQTLNLSQNSF-SRTIPESIGSMKSLESIDFSANH 149
N A L+LS+N S + S G + SL+SIDFS+N
Sbjct: 121 NLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQ 159
Score = 26.6 bits (57), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 29/75 (38%), Gaps = 3/75 (4%)
Query: 75 LFMMKGKAFEYSTNLNVLRVIELSKNNFLGEIAKGVTNPGASQTLNLSQNSFSRTIPESI 134
+F + + FE +L VL + N E G+ N Q LNLS N +
Sbjct: 278 VFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDN---LQVLNLSYNLLGELYSSNF 334
Query: 135 GSMKSLESIDFSANH 149
+ + ID NH
Sbjct: 335 YGLPKVAYIDLQKNH 349
>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 = 26.6 bits (57), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 21/69 (30%), Positives = 29/69 (42%), Gaps = 3/69 (4%)
Query: 87 TNLNVLRVIELSKNNFLGEIAKGVTNPGASQTLNLSQNSFSRTIPESIGSMKSLESIDFS 146
T L + N L + KG+ P L L N F+ +P+ + + K L ID S
Sbjct: 6 TECTCLDTVVRCSNKGLKVLPKGI--PRDVTELYLDGNQFT-LVPKELSNYKHLTLIDLS 62
Query: 147 ANHYLNLSN 155
N LSN
Sbjct: 63 NNRISTLSN 71
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
0.317 0.133 0.380
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,369,595
Number of Sequences: 62578
Number of extensions: 193524
Number of successful extensions: 563
Number of sequences better than 100.0: 36
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 23
Number of HSP's that attempted gapping in prelim test: 449
Number of HSP's gapped (non-prelim): 80
length of query: 190
length of database: 14,973,337
effective HSP length: 93
effective length of query: 97
effective length of database: 9,153,583
effective search space: 887897551
effective search space used: 887897551
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)