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= 001955
(991 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 45.8 bits (107), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 74/328 (22%), Positives = 133/328 (40%), Gaps = 63/328 (19%)
Query: 198 GIGGLGKTAVAQLVYNDEDVKTHFNLR-------MWVCVSD------IFDVTTIVEKMIR 244
G+ G GK+ +A E V+ H L WV V + + + ++ +
Sbjct: 154 GMAGCGKSVLAA-----EAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQ 208
Query: 245 SATNRESEKLDLDQLQERLRGEIDGK--RYLLVLDDVWNENRDKWLELEALLMNGVSGSK 302
+ + L++++ ++RLR + K R LL+LDDVW D W+ L S +
Sbjct: 209 DESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVW----DSWV-----LKAFDSQCQ 259
Query: 303 IVVTTRSERVARITSK----LPFHALRGLPEDMS-WSLFTRMAFEQGSEPKDSKLVQIGK 357
I++TTR + V +P + G + + SLF M K + L +
Sbjct: 260 ILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNM--------KKADLPEQAH 311
Query: 358 DVVGKCAGVPLAIRTIGRLL--YYNNTETYWLHFRDDELSKVPQEES----DILPKLKLS 411
++ +C G PL + IG LL + N E Y ++ + ++ + S + + +S
Sbjct: 312 SIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSIS 371
Query: 412 YDHLPSPLKQCFAYCALFPKDYLIVKEQLVLLWMAQGFLGLSIDNQCPEDVGHEYFMSLL 471
+ L +K + ++ KD + + L +LW ++ + ED+ E+ L
Sbjct: 372 VEMLREDIKDYYTDLSILQKDVKVPTKVLCILW--------DMETEEVEDILQEFVNKSL 423
Query: 472 SRSFFQDAEYDEWGNIIRCKIHDLMHDL 499
F D G R +HDL D
Sbjct: 424 ---LFCDRN----GKSFRYYLHDLQVDF 444
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 45.1 bits (105), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 63/273 (23%), Positives = 117/273 (42%), Gaps = 48/273 (17%)
Query: 198 GIGGLGKTAVAQLVYNDEDVKTHFNLR-------MWVCVSD------IFDVTTIVEKMIR 244
G+ G GK+ +A E V+ H L WV V + + + ++ +
Sbjct: 160 GMAGCGKSVLAA-----EAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQ 214
Query: 245 SATNRESEKLDLDQLQERLRGEIDGK--RYLLVLDDVWNENRDKWLELEALLMNGVSGSK 302
+ + L++++ ++RLR + K R LL+LDDVW D W+ L+A S +
Sbjct: 215 DESFSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVW----DSWV-LKAF----DSQCQ 265
Query: 303 IVVTTRSERVARITSK----LPFHALRGLPEDMS-WSLFTRMAFEQGSEPKDSKLVQIGK 357
I++TTR + V +P + G + + SLF M K + L +
Sbjct: 266 ILLTTRDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNM--------KKADLPEQAH 317
Query: 358 DVVGKCAGVPLAIRTIGRLL--YYNNTETYWLHFRDDELSKVPQEES----DILPKLKLS 411
++ +C G PL + IG LL + N E Y ++ + ++ + S + + +S
Sbjct: 318 SIIKECKGSPLVVSLIGALLRDFPNRWEYYLKQLQNKQFKRIRKSSSYDYEALDEAMSIS 377
Query: 412 YDHLPSPLKQCFAYCALFPKDYLIVKEQLVLLW 444
+ L +K + ++ KD + + L +LW
Sbjct: 378 VEMLREDIKDYYTDLSILQKDVKVPTKVLCILW 410
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 42.7 bits (99), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 25/99 (25%), Positives = 50/99 (50%)
Query: 571 VSSFKCLRTLNLSNSEIETVPSLIGKLKHLRYFNLSHNADIKSLPDSVSRLLNLQTLDLS 630
+++ + L++L + NS + + I L L +L +++ P L+ L L
Sbjct: 202 IANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILK 261
Query: 631 CCDDLVELPRDIGKMVSLRHLAIESCLSLTDMPNGLGQL 669
C +L+ LP DI ++ L L + C++L+ +P+ + QL
Sbjct: 262 DCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
Score = 33.5 bits (75), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 34/129 (26%), Positives = 59/129 (45%), Gaps = 18/129 (13%)
Query: 590 VPSLIGKLKHLRYFNLSHNADIKSLPDSVSRLLNLQTLDLSCCDDLVELPRDIGK----- 644
+P + L L+ N +++LP S++ L L+ L + C +L ELP +
Sbjct: 119 LPDTXQQFAGLETLTLARNP-LRALPASIASLNRLRELSIRACPELTELPEPLASTDASG 177
Query: 645 ----MVSLRHLAIESCLSLTDMPNGLGQLTNLRTL-----PLFMVGRKT-QLSQLNGLNK 694
+V+L+ L +E + +P + L NL++L PL +G L +L L+
Sbjct: 178 EHQGLVNLQSLRLE-WTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELD- 235
Query: 695 LRGSLRIEN 703
LRG + N
Sbjct: 236 LRGCTALRN 244
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 39.3 bits (90), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 34/105 (32%), Positives = 57/105 (54%), Gaps = 6/105 (5%)
Query: 577 LRTLNLSNSEIETVP-SLIGKLKHLRYFNLSHNADIKSLPDSV-SRLLNLQTLDLSCCDD 634
L+ L L ++++ +P + L L +L N + LP +V RL++L+ L CC+
Sbjct: 66 LKELYLGSNQLGALPVGVFDSLTQLTVLDLGTN-QLTVLPSAVFDRLVHLKEL-FMCCNK 123
Query: 635 LVELPRDIGKMVSLRHLAIESCLSLTDMPNG-LGQLTNLRTLPLF 678
L ELPR I ++ L HLA++ L +P+G +L++L LF
Sbjct: 124 LTELPRGIERLTHLTHLALDQ-NQLKSIPHGAFDRLSSLTHAYLF 167
>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 = 39.3 bits (90), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 37/114 (32%), Positives = 63/114 (55%), Gaps = 7/114 (6%)
Query: 564 ESYCNKIVSSFKCLRTLNLSNSEIETVP-SLIGKLKHLRYFNLSHNADIKSLPDSV-SRL 621
+S N + L+ L L ++++++P + KL +L Y NL+HN ++SLP V +L
Sbjct: 98 QSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHN-QLQSLPKGVFDKL 156
Query: 622 LNLQTLDLSCCDDLVELPRDI-GKMVSLRHLAIESCLSLTDMPNGL-GQLTNLR 673
NL LDLS + L LP + K+ L+ L + L +P+G+ +LT+L+
Sbjct: 157 TNLTELDLS-YNQLQSLPEGVFDKLTQLKDLRLYQN-QLKSVPDGVFDRLTSLQ 208
>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 = 38.5 bits (88), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 31/98 (31%), Positives = 49/98 (50%), Gaps = 3/98 (3%)
Query: 578 RTLNLSNSEIETVPSLIGKLKHLRYFNLSHNADIKSLPDSVSRLLNLQTLDLSCCDDLVE 637
L+LSN +I + + I K L L+ N+ + LP + L NL+ LDLS + L
Sbjct: 227 HALDLSNLQIFNISANIFKYDFLTRLYLNGNS-LTELPAEIKNLSNLRVLDLS-HNRLTS 284
Query: 638 LPRDIGKMVSLRHLAIESCLSLTDMPNGLGQLTNLRTL 675
LP ++G L++ + +T +P G L NL+ L
Sbjct: 285 LPAELGSCFQLKYFYFFDNM-VTTLPWEFGNLCNLQFL 321
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 38.5 bits (88), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 63/274 (22%), Positives = 117/274 (42%), Gaps = 50/274 (18%)
Query: 198 GIGGLGKTAVAQLVYNDEDVKTHFNLR-------MWVCVSD------IFDVTTIVEKMIR 244
G+ G GK+ +A E V+ H L WV + + + + ++ +
Sbjct: 154 GMAGCGKSVLAA-----EAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQ 208
Query: 245 SATNRESEKLDLDQLQERLRGEIDGK--RYLLVLDDVWNENRDKWLELEALLMNGVSGSK 302
+ + L++++ ++RLR + K R LL+LDDVW D W+ L+A + +
Sbjct: 209 EESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW----DPWV-LKAF----DNQCQ 259
Query: 303 IVVTTRSERVARITSKLPFHAL---RGLPEDMS---WSLFTRMAFEQGSEPKDSKLVQIG 356
I++TTR + V + P H + GL + SLF M K L
Sbjct: 260 ILLTTRDKSVTD-SVMGPKHVVPVESGLGREKGLEILSLFVNM--------KKEDLPAEA 310
Query: 357 KDVVGKCAGVPLAIRTIGRLLY-YNNTETYWL-HFRDDELSKVPQEES----DILPKLKL 410
++ +C G PL + IG LL + N Y+L ++ + ++ + S + + +
Sbjct: 311 HSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSI 370
Query: 411 SYDHLPSPLKQCFAYCALFPKDYLIVKEQLVLLW 444
S + L +K + ++ KD + + L +LW
Sbjct: 371 SVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW 404
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 36.6 bits (83), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 57/274 (20%), Positives = 109/274 (39%), Gaps = 50/274 (18%)
Query: 198 GIGGLGKTAVAQLVYNDEDVKTHFNLR-------MWVCVSD------IFDVTTIVEKMIR 244
G+ G GK+ +A E V+ H L WV + + + + ++ +
Sbjct: 161 GMAGCGKSVLAA-----EAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQ 215
Query: 245 SATNRESEKLDLDQLQERLRGEIDGK--RYLLVLDDVWNENRDKWLELEALLMNGVSGSK 302
+ + L++++ ++RLR + K R LL+LDDVW D W ++
Sbjct: 216 EESFSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVW----DPW------VLKAFDNQC 265
Query: 303 IVVTTRSERVARITSKLPFHAL---RGLPEDMS---WSLFTRMAFEQGSEPKDSKLVQIG 356
++ T S++ + P H + GL + SLF M K L
Sbjct: 266 QILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNM--------KKEDLPAEA 317
Query: 357 KDVVGKCAGVPLAIRTIGRLL--YYNNTETYWLHFRDDELSKVPQEES----DILPKLKL 410
++ +C G PL + IG LL + N Y ++ + ++ + S + + +
Sbjct: 318 HSIIKECKGSPLVVSLIGALLRDFPNRWAYYLRQLQNKQFKRIRKSSSYDYEALDEAMSI 377
Query: 411 SYDHLPSPLKQCFAYCALFPKDYLIVKEQLVLLW 444
S + L +K + ++ KD + + L +LW
Sbjct: 378 SVEMLREDIKDYYTDLSILQKDVKVPTKVLCVLW 411
>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 = 36.6 bits (83), Expect = 0.071, Method: Composition-based stats.
Identities = 24/91 (26%), Positives = 41/91 (45%)
Query: 584 NSEIETVPSLIGKLKHLRYFNLSHNADIKSLPDSVSRLLNLQTLDLSCCDDLVELPRDIG 643
N+ + +P I KL L Y ++H ++PD +S++ L TLD S LP I
Sbjct: 87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSIS 146
Query: 644 KMVSLRHLAIESCLSLTDMPNGLGQLTNLRT 674
+ +L + + +P+ G + L T
Sbjct: 147 SLPNLVGITFDGNRISGAIPDSYGSFSKLFT 177
>pdb|4GHK|A Chain A, X-Ray Crystal Structure Of Gamma-Glutamyl Phosphate
Reductase From Burkholderia Thailandensis
pdb|4GHK|B Chain B, X-Ray Crystal Structure Of Gamma-Glutamyl Phosphate
Reductase From Burkholderia Thailandensis
pdb|4GHK|C Chain C, X-Ray Crystal Structure Of Gamma-Glutamyl Phosphate
Reductase From Burkholderia Thailandensis
pdb|4GHK|D Chain D, X-Ray Crystal Structure Of Gamma-Glutamyl Phosphate
Reductase From Burkholderia Thailandensis
Length = 444
Score = 35.4 bits (80), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 38/69 (55%), Gaps = 4/69 (5%)
Query: 534 SLEFPTALLRAKNLRTFLSTVYSSSDRQLNESYCNKIVSSFKCLRTLNLSNSEIETVPSL 593
++E L+A N R V + D+ L+ ++ +++ S K L+T+ ++ T+P
Sbjct: 60 AIERDAGALKAANARD----VARAKDKGLDAAFVDRLTLSDKALKTMVEGLRQVATLPDP 115
Query: 594 IGKLKHLRY 602
IG++ +L+Y
Sbjct: 116 IGEMSNLKY 124
>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 = 34.3 bits (77), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 22/41 (53%)
Query: 590 VPSLIGKLKHLRYFNLSHNADIKSLPDSVSRLLNLQTLDLS 630
+P IG + +L NL HN S+PD V L L LDLS
Sbjct: 648 IPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLS 688
Score = 32.0 bits (71), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 564 ESYCNKIVSSFKCLRTLNLSNSEIE-TVPSLIGKLKHLRYFNLSHNADIKSLPDSVSRLL 622
Y K + S L LNL +++I ++P +G L+ L +LS N +P ++S L
Sbjct: 645 SGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALT 704
Query: 623 NLQTLDLS 630
L +DLS
Sbjct: 705 MLTEIDLS 712
Score = 31.2 bits (69), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 56/119 (47%), Gaps = 4/119 (3%)
Query: 563 NESYCNKI---VSSFKCLRTLNLS-NSEIETVPSLIGKLKHLRYFNLSHNADIKSLPDSV 618
N + KI +S+ L +L+LS N T+PS +G L LR L N +P +
Sbjct: 403 NNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQEL 462
Query: 619 SRLLNLQTLDLSCCDDLVELPRDIGKMVSLRHLAIESCLSLTDMPNGLGQLTNLRTLPL 677
+ L+TL L D E+P + +L +++ + ++P +G+L NL L L
Sbjct: 463 MYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKL 521
>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 = 34.3 bits (77), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 22/41 (53%)
Query: 590 VPSLIGKLKHLRYFNLSHNADIKSLPDSVSRLLNLQTLDLS 630
+P IG + +L NL HN S+PD V L L LDLS
Sbjct: 645 IPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLS 685
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 22/68 (32%), Positives = 35/68 (51%), Gaps = 1/68 (1%)
Query: 564 ESYCNKIVSSFKCLRTLNLSNSEIE-TVPSLIGKLKHLRYFNLSHNADIKSLPDSVSRLL 622
Y K + S L LNL +++I ++P +G L+ L +LS N +P ++S L
Sbjct: 642 SGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALT 701
Query: 623 NLQTLDLS 630
L +DLS
Sbjct: 702 MLTEIDLS 709
Score = 31.2 bits (69), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 34/119 (28%), Positives = 56/119 (47%), Gaps = 4/119 (3%)
Query: 563 NESYCNKI---VSSFKCLRTLNLS-NSEIETVPSLIGKLKHLRYFNLSHNADIKSLPDSV 618
N + KI +S+ L +L+LS N T+PS +G L LR L N +P +
Sbjct: 400 NNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQEL 459
Query: 619 SRLLNLQTLDLSCCDDLVELPRDIGKMVSLRHLAIESCLSLTDMPNGLGQLTNLRTLPL 677
+ L+TL L D E+P + +L +++ + ++P +G+L NL L L
Sbjct: 460 MYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKL 518
Score = 29.6 bits (65), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 58/262 (22%), Positives = 113/262 (43%), Gaps = 43/262 (16%)
Query: 575 KCLRTLNLSNSEIET-VPSLIGKLKHLRYFNLSHNADIKSLPDSVSRLLNLQTLDLSCCD 633
K L TL L +++ +PS + +L + +LS+N +P + RL NL L LS
Sbjct: 463 KTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNS 522
Query: 634 DLVELPRDIGKMVSLRHLAIESCLSLTDMPNGLGQLTNLRTLPLFMVGRKTQLSQLNGLN 693
+P ++G SL L + + L +P + + + + F+ G++ + +G+
Sbjct: 523 FSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSG-KIAANFIAGKRYVYIKNDGMK 581
Query: 694 K-LRGS---LRIENLGEKQNSRLA-----NLEAKEGLQSLVLQWDANKTVIYIDDA--LL 742
K G+ L + + +Q +RL+ N+ ++ +D N +++++D + +L
Sbjct: 582 KECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNML 641
Query: 743 EGLKPHQ--NLKELTIIRFG----------------GI------------RLSSWLSSVT 772
G P + ++ L I+ G G+ R+ +S++T
Sbjct: 642 SGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALT 701
Query: 773 NLTMIDISICIKCQYIPELDQL 794
LT ID+S IPE+ Q
Sbjct: 702 MLTEIDLSNNNLSGPIPEMGQF 723
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 33.5 bits (75), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 26/62 (41%), Positives = 37/62 (59%), Gaps = 5/62 (8%)
Query: 571 VSSFKCLRTLNLSNSEIETVPSLIGKLKHLRYFNLSHNADIKS--LPDSVSRLLNLQTLD 628
+SS + L L + + +E P IG LK L+ N++HN I+S LP+ S L NL+ LD
Sbjct: 101 LSSLQKLVALETNLASLENFP--IGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLD 157
Query: 629 LS 630
LS
Sbjct: 158 LS 159
>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 = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 37/62 (59%), Gaps = 5/62 (8%)
Query: 571 VSSFKCLRTLNLSNSEIETVPSLIGKLKHLRYFNLSHNADIKS--LPDSVSRLLNLQTLD 628
+SS + L + + + +E P IG LK L+ N++HN I+S LP+ S L NL+ LD
Sbjct: 123 LSSLQKLVAVETNLASLENFP--IGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLD 179
Query: 629 LS 630
LS
Sbjct: 180 LS 181
>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 = 32.7 bits (73), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 37/62 (59%), Gaps = 5/62 (8%)
Query: 571 VSSFKCLRTLNLSNSEIETVPSLIGKLKHLRYFNLSHNADIKS--LPDSVSRLLNLQTLD 628
+SS + L + + + +E P IG LK L+ N++HN I+S LP+ S L NL+ LD
Sbjct: 101 LSSLQKLVAVETNLASLENFP--IGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLD 157
Query: 629 LS 630
LS
Sbjct: 158 LS 159
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 37/62 (59%), Gaps = 5/62 (8%)
Query: 571 VSSFKCLRTLNLSNSEIETVPSLIGKLKHLRYFNLSHNADIKS--LPDSVSRLLNLQTLD 628
+SS + L + + + +E P IG LK L+ N++HN I+S LP+ S L NL+ LD
Sbjct: 100 LSSLQKLVAVETNLASLENFP--IGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLD 156
Query: 629 LS 630
LS
Sbjct: 157 LS 158
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 32.3 bits (72), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 37/62 (59%), Gaps = 5/62 (8%)
Query: 571 VSSFKCLRTLNLSNSEIETVPSLIGKLKHLRYFNLSHNADIKS--LPDSVSRLLNLQTLD 628
+SS + L + + + +E P IG LK L+ N++HN I+S LP+ S L NL+ LD
Sbjct: 100 LSSLQKLVAVETNLASLENFP--IGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLD 156
Query: 629 LS 630
LS
Sbjct: 157 LS 158
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 37/62 (59%), Gaps = 5/62 (8%)
Query: 571 VSSFKCLRTLNLSNSEIETVPSLIGKLKHLRYFNLSHNADIKS--LPDSVSRLLNLQTLD 628
+SS + L + + + +E P IG LK L+ N++HN I+S LP+ S L NL+ LD
Sbjct: 99 LSSLQKLVAVETNLASLENFP--IGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLD 155
Query: 629 LS 630
LS
Sbjct: 156 LS 157
>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 = 32.3 bits (72), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 37/62 (59%), Gaps = 5/62 (8%)
Query: 571 VSSFKCLRTLNLSNSEIETVPSLIGKLKHLRYFNLSHNADIKS--LPDSVSRLLNLQTLD 628
+SS + L + + + +E P IG LK L+ N++HN I+S LP+ S L NL+ LD
Sbjct: 99 LSSLQKLVAVETNLASLENFP--IGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLD 155
Query: 629 LS 630
LS
Sbjct: 156 LS 157
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 32.3 bits (72), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/62 (40%), Positives = 37/62 (59%), Gaps = 5/62 (8%)
Query: 571 VSSFKCLRTLNLSNSEIETVPSLIGKLKHLRYFNLSHNADIKS--LPDSVSRLLNLQTLD 628
+SS + L + + + +E P IG LK L+ N++HN I+S LP+ S L NL+ LD
Sbjct: 99 LSSLQKLVAVETNLASLENFP--IGHLKTLKELNVAHNL-IQSFKLPEYFSNLTNLEHLD 155
Query: 629 LS 630
LS
Sbjct: 156 LS 157
>pdb|3KB1|A Chain A, Crystal Structure Of The Nucleotide-Binding Protein Af_226
In Complex With Adp From Archaeoglobus Fulgidus,
Northeast Structural Genomics Consortium Target Gr157
pdb|3KB1|B Chain B, Crystal Structure Of The Nucleotide-Binding Protein Af_226
In Complex With Adp From Archaeoglobus Fulgidus,
Northeast Structural Genomics Consortium Target Gr157
Length = 262
Score = 32.0 bits (71), Expect = 1.9, Method: Composition-based stats.
Identities = 25/83 (30%), Positives = 39/83 (46%), Gaps = 9/83 (10%)
Query: 912 LISLPQRLNKATTLKTVGIYDCPNMAILPEGLQLQSLEIIQCPQLSERC---GNNMAVDW 968
++S PQ L A K + + A+L G+ +++ +CP ER G A +
Sbjct: 158 IVSTPQELTAAVVEKAITXAEQTKTAVL--GI-VENXAYFECPNCGERTYLFGEGKASEL 214
Query: 969 P---KIAHIPNIRIDNDLIQLGD 988
KI I I ID+DL++L D
Sbjct: 215 ARKYKIEFITEIPIDSDLLKLSD 237
>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 = 31.6 bits (70), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 39/125 (31%), Positives = 58/125 (46%), Gaps = 10/125 (8%)
Query: 577 LRTLNLSNSEIETVPSL---IGKLKHLRYFNLSHNADIKSLPDSVSRLLNLQTLDLSCCD 633
L+ L+LS+S+IE + L+HL+Y NLS+N + + L+ LD++
Sbjct: 351 LQKLDLSHSDIEASDCCNLQLKNLRHLQYLNLSYNEPLGLEDQAFKECPQLELLDVAFTH 410
Query: 634 DLVELPRD-IGKMVSLRHLAIESCLSLTDMPNGLGQLTNLRTLPL----FMVG--RKTQL 686
V+ P + LR L + CL T + L L +LR L L F G KT L
Sbjct: 411 LHVKAPHSPFQNLHLLRVLNLSHCLLDTSNQHLLAGLQDLRHLNLQGNSFQDGSISKTNL 470
Query: 687 SQLNG 691
Q+ G
Sbjct: 471 LQMVG 475
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
0.320 0.136 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 27,055,323
Number of Sequences: 62578
Number of extensions: 1067452
Number of successful extensions: 2570
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 2510
Number of HSP's gapped (non-prelim): 71
length of query: 991
length of database: 14,973,337
effective HSP length: 108
effective length of query: 883
effective length of database: 8,214,913
effective search space: 7253768179
effective search space used: 7253768179
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: 56 (26.2 bits)