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= 012260
(467 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 = 79.3 bits (194), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 97/401 (24%), Positives = 149/401 (37%), Gaps = 97/401 (24%)
Query: 58 DLCSSPPHGVVCDY-----FTISANDTVSSQTETVHITELSFGYVSDYSPNPPCNANSTL 112
+LC +P + + Y FT T+S+ +E V + LSF Y+S P+
Sbjct: 387 NLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSL-HLSFNYLSGTIPSS-------- 437
Query: 113 NPLIFTSFKHLRKLFFYKCFTEKQVPVPDNIPASFGSSLEELVFIDNPSFVGPLGGIIGS 172
S LR L + E ++P +EL+++
Sbjct: 438 ----LGSLSKLRDLKLWLNMLEGEIP-------------QELMYV--------------- 465
Query: 173 FTNLRRLVLTGNGVYGGIPDKVGDLVGLEEITLSRNKLSGGFSFSXXXXXXXXXXXXSQN 232
L L+L N + G IP + + L I+LS N+L+G S N
Sbjct: 466 -KTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNN 524
Query: 233 QFDGNVPEEMGNLTNLLKLDLSSNVCSGKIP----------------------------- 263
F GN+P E+G+ +L+ LDL++N+ +G IP
Sbjct: 525 SFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMK 584
Query: 264 -----------------ESLGHLKSLEFMDLSFNGFGNFGVPTFLAEMDKLREVYLSGNF 306
E L L + +++ +G PTF + + +S N
Sbjct: 585 KECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTF-DNNGSMMFLDMSYNM 643
Query: 307 LGGEIPEIWEXXXXXXXXXXXXXXXXXKIPASMGIHLKKLSYLSLDNNKLQGNVPEEFGV 366
L G IP+ IP +G L+ L+ L L +NKL G +P+
Sbjct: 644 LSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVG-DLRGLNILDLSSNKLDGRIPQAMSA 702
Query: 367 LEFVGEINLENNNLSGRVPFSAKFSTKVGEKLKLKGNPDLC 407
L + EI+L NNNLSG +P +F T K NP LC
Sbjct: 703 LTMLTEIDLSNNNLSGPIPEMGQFETF--PPAKFLNNPGLC 741
Score = 68.2 bits (165), Expect = 9e-12, Method: Compositional matrix adjust.
Identities = 73/237 (30%), Positives = 108/237 (45%), Gaps = 7/237 (2%)
Query: 153 ELVFIDNPSFVGPLGGIIGSFTNLRRLVLTGNGVYGGIPDKV-GDLVGLEEITLSRNKLS 211
+L+ I + FVGP+ + +L+ L L N G IPD + G L + LS N
Sbjct: 250 KLLNISSNQFVGPIPPL--PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFY 307
Query: 212 GGFSFSXXXXXXXXXXXXSQNQFDGNVP-EEMGNLTNLLKLDLSSNVCSGKIPESLGHLK 270
G S N F G +P + + + L LDLS N SG++PESL +L
Sbjct: 308 GAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLS 367
Query: 271 -SLEFMDLSFNGFGNFGVPTFLAE-MDKLREVYLSGNFLGGEIPEIWEXXXXXXXXXXXX 328
SL +DLS N F +P + L+E+YL N G+IP
Sbjct: 368 ASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSF 427
Query: 329 XXXXXKIPASMGIHLKKLSYLSLDNNKLQGNVPEEFGVLEFVGEINLENNNLSGRVP 385
IP+S+G L KL L L N L+G +P+E ++ + + L+ N+L+G +P
Sbjct: 428 NYLSGTIPSSLG-SLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIP 483
Score = 48.9 bits (115), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 102/260 (39%), Gaps = 35/260 (13%)
Query: 170 IGSFTNLRRLVLTGNGVYGGIPDKVGDLVGLEEITLSRNKLSGGFSFSXXXXXXXXXXXX 229
+ NL L ++ N GIP +GD L+ + +S NKLSG FS +
Sbjct: 196 VSRCVNLEFLDVSSNNFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNI 254
Query: 230 SQNQFDGNVPEEMGNLTNLLKLDLSSNVCSGKIPESL-GHLKSLEFMDLSFNGFGNFG-V 287
S NQF G +P L +L L L+ N +G+IP+ L G +L +DLS N F +G V
Sbjct: 255 SSNQFVGPIPPLP--LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHF--YGAV 310
Query: 288 PTF-------------------------LAEMDKLREVYLSGNFLGGEIPEIWEXXXXXX 322
P F L +M L+ + LS N GE+PE
Sbjct: 311 PPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASL 370
Query: 323 XXXXXXXXXXXK--IPASMGIHLKKLSYLSLDNNKLQGNVPEEFGVLEFVGEINLENNNL 380
+P L L L NN G +P + ++L N L
Sbjct: 371 LTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYL 430
Query: 381 SGRVPFSAKFSTKVGEKLKL 400
SG +P S +K+ LKL
Sbjct: 431 SGTIPSSLGSLSKL-RDLKL 449
Score = 48.1 bits (113), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 65/239 (27%), Positives = 97/239 (40%), Gaps = 19/239 (7%)
Query: 156 FIDNPSFVGPLGGIIGSFTNLRRLVLTGNGVYGGIPD--KVGDLVGLEEITLSRN----- 208
F+ N G + G S +L L L+ N + G + +G GL+ + +S N
Sbjct: 83 FLSNSHINGSVSGFKCS-ASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFP 141
Query: 209 -KLSGGFSFSXXXXXXXXXXXXSQNQFDGNVPEEMGNLTNLLKLDLSSNVCSGKIPESLG 267
K+SGG + S G V + L L +S N SG + S
Sbjct: 142 GKVSGGLKLNSLEVLDLSANSISGANVVGWVLSD--GCGELKHLAISGNKISGDVDVS-- 197
Query: 268 HLKSLEFMDLSFNGFGNFGVPTFLAEMDKLREVYLSGNFLGGEIPEIWEXXXXXXXXXXX 327
+LEF+D+S N F G+P FL + L+ + +SGN L G+
Sbjct: 198 RCVNLEFLDVSSNNFST-GIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNIS 255
Query: 328 XXXXXXKIPASMGIHLKKLSYLSLDNNKLQGNVPEEF-GVLEFVGEINLENNNLSGRVP 385
IP + LK L YLSL NK G +P+ G + + ++L N+ G VP
Sbjct: 256 SNQFVGPIPP---LPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVP 311
>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 = 79.0 bits (193), Expect = 5e-15, Method: Compositional matrix adjust.
Identities = 97/401 (24%), Positives = 149/401 (37%), Gaps = 97/401 (24%)
Query: 58 DLCSSPPHGVVCDY-----FTISANDTVSSQTETVHITELSFGYVSDYSPNPPCNANSTL 112
+LC +P + + Y FT T+S+ +E V + LSF Y+S P+
Sbjct: 384 NLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSL-HLSFNYLSGTIPSS-------- 434
Query: 113 NPLIFTSFKHLRKLFFYKCFTEKQVPVPDNIPASFGSSLEELVFIDNPSFVGPLGGIIGS 172
S LR L + E ++P +EL+++
Sbjct: 435 ----LGSLSKLRDLKLWLNMLEGEIP-------------QELMYV--------------- 462
Query: 173 FTNLRRLVLTGNGVYGGIPDKVGDLVGLEEITLSRNKLSGGFSFSXXXXXXXXXXXXSQN 232
L L+L N + G IP + + L I+LS N+L+G S N
Sbjct: 463 -KTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNN 521
Query: 233 QFDGNVPEEMGNLTNLLKLDLSSNVCSGKIP----------------------------- 263
F GN+P E+G+ +L+ LDL++N+ +G IP
Sbjct: 522 SFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMK 581
Query: 264 -----------------ESLGHLKSLEFMDLSFNGFGNFGVPTFLAEMDKLREVYLSGNF 306
E L L + +++ +G PTF + + +S N
Sbjct: 582 KECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTF-DNNGSMMFLDMSYNM 640
Query: 307 LGGEIPEIWEXXXXXXXXXXXXXXXXXKIPASMGIHLKKLSYLSLDNNKLQGNVPEEFGV 366
L G IP+ IP +G L+ L+ L L +NKL G +P+
Sbjct: 641 LSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVG-DLRGLNILDLSSNKLDGRIPQAMSA 699
Query: 367 LEFVGEINLENNNLSGRVPFSAKFSTKVGEKLKLKGNPDLC 407
L + EI+L NNNLSG +P +F T K NP LC
Sbjct: 700 LTMLTEIDLSNNNLSGPIPEMGQFETF--PPAKFLNNPGLC 738
Score = 67.8 bits (164), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 73/237 (30%), Positives = 108/237 (45%), Gaps = 7/237 (2%)
Query: 153 ELVFIDNPSFVGPLGGIIGSFTNLRRLVLTGNGVYGGIPDKV-GDLVGLEEITLSRNKLS 211
+L+ I + FVGP+ + +L+ L L N G IPD + G L + LS N
Sbjct: 247 KLLNISSNQFVGPIPPL--PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFY 304
Query: 212 GGFSFSXXXXXXXXXXXXSQNQFDGNVP-EEMGNLTNLLKLDLSSNVCSGKIPESLGHL- 269
G S N F G +P + + + L LDLS N SG++PESL +L
Sbjct: 305 GAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLS 364
Query: 270 KSLEFMDLSFNGFGNFGVPTFLAE-MDKLREVYLSGNFLGGEIPEIWEXXXXXXXXXXXX 328
SL +DLS N F +P + L+E+YL N G+IP
Sbjct: 365 ASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSF 424
Query: 329 XXXXXKIPASMGIHLKKLSYLSLDNNKLQGNVPEEFGVLEFVGEINLENNNLSGRVP 385
IP+S+G L KL L L N L+G +P+E ++ + + L+ N+L+G +P
Sbjct: 425 NYLSGTIPSSLG-SLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIP 480
Score = 48.9 bits (115), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 73/260 (28%), Positives = 102/260 (39%), Gaps = 35/260 (13%)
Query: 170 IGSFTNLRRLVLTGNGVYGGIPDKVGDLVGLEEITLSRNKLSGGFSFSXXXXXXXXXXXX 229
+ NL L ++ N GIP +GD L+ + +S NKLSG FS +
Sbjct: 193 VSRCVNLEFLDVSSNNFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNI 251
Query: 230 SQNQFDGNVPEEMGNLTNLLKLDLSSNVCSGKIPESL-GHLKSLEFMDLSFNGFGNFG-V 287
S NQF G +P L +L L L+ N +G+IP+ L G +L +DLS N F +G V
Sbjct: 252 SSNQFVGPIPPLP--LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHF--YGAV 307
Query: 288 PTF-------------------------LAEMDKLREVYLSGNFLGGEIPEIWEXXXXXX 322
P F L +M L+ + LS N GE+PE
Sbjct: 308 PPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASL 367
Query: 323 XXXXXXXXXXXK--IPASMGIHLKKLSYLSLDNNKLQGNVPEEFGVLEFVGEINLENNNL 380
+P L L L NN G +P + ++L N L
Sbjct: 368 LTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYL 427
Query: 381 SGRVPFSAKFSTKVGEKLKL 400
SG +P S +K+ LKL
Sbjct: 428 SGTIPSSLGSLSKL-RDLKL 446
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 65/239 (27%), Positives = 97/239 (40%), Gaps = 19/239 (7%)
Query: 156 FIDNPSFVGPLGGIIGSFTNLRRLVLTGNGVYGGIPD--KVGDLVGLEEITLSRN----- 208
F+ N G + G S +L L L+ N + G + +G GL+ + +S N
Sbjct: 80 FLSNSHINGSVSGFKCS-ASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFP 138
Query: 209 -KLSGGFSFSXXXXXXXXXXXXSQNQFDGNVPEEMGNLTNLLKLDLSSNVCSGKIPESLG 267
K+SGG + S G V + L L +S N SG + S
Sbjct: 139 GKVSGGLKLNSLEVLDLSANSISGANVVGWVLSD--GCGELKHLAISGNKISGDVDVS-- 194
Query: 268 HLKSLEFMDLSFNGFGNFGVPTFLAEMDKLREVYLSGNFLGGEIPEIWEXXXXXXXXXXX 327
+LEF+D+S N F G+P FL + L+ + +SGN L G+
Sbjct: 195 RCVNLEFLDVSSNNFST-GIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNIS 252
Query: 328 XXXXXXKIPASMGIHLKKLSYLSLDNNKLQGNVPEEF-GVLEFVGEINLENNNLSGRVP 385
IP + LK L YLSL NK G +P+ G + + ++L N+ G VP
Sbjct: 253 SNQFVGPIPP---LPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVP 308
>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 = 70.9 bits (172), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 72/256 (28%), Positives = 115/256 (44%), Gaps = 39/256 (15%)
Query: 137 VPVPDNIPASFGSSLEELVF-----IDNPSFVGPLGGIIGSFTNLRRLVLTGNGVYGGIP 191
+P P IP+S ++L L F I+N VGP+ I T L L +T V G IP
Sbjct: 62 LPKPYPIPSSL-ANLPYLNFLYIGGINN--LVGPIPPAIAKLTQLHYLYITHTNVSGAIP 118
Query: 192 DKVGDLVGLEEITLSRNKLSGGFSFSXXXXXXXXXXXXSQNQFDGNVPEEMGNLTNLL-K 250
D + + L + S N LSG S N+ G +P+ G+ + L
Sbjct: 119 DFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTS 178
Query: 251 LDLSSNVCSGKIPESLGHLKSLEFMDLSFNGFGNFGVPTFLAEMDK-LREVYLSGNFLGG 309
+ +S N +GKIP + +L +L F+DLS N G + L DK ++++L+ N L
Sbjct: 179 MTISRNRLTGKIPPTFANL-NLAFVDLSRNMLE--GDASVLFGSDKNTQKIHLAKNSLAF 235
Query: 310 EIPEIWEXXXXXXXXXXXXXXXXXKIPASMGIHLKKLSYLSLDNNKLQGNVPEEFGVLEF 369
++ ++ G+ K L+ L L NN++ G +P+ L+F
Sbjct: 236 DLGKV-------------------------GLS-KNLNGLDLRNNRIYGTLPQGLTQLKF 269
Query: 370 VGEINLENNNLSGRVP 385
+ +N+ NNL G +P
Sbjct: 270 LHSLNVSFNNLCGEIP 285
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 53/208 (25%), Positives = 75/208 (36%), Gaps = 28/208 (13%)
Query: 129 YKCFTEKQVPVPDNIPASFG-----------------SSLEELVFID--NPSFVGPLGGI 169
Y+C +K VPD+IP+S S+ EL ++D
Sbjct: 16 YQCMDQKLSKVPDDIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKA 75
Query: 170 IGSFTNLRRLVLTGNGVYGGIPDKVGDLVGLEEITLSRNKLSGGFSFSXXXXXXXXXXXX 229
+L L+LTGN + P L LE + KL+ SF
Sbjct: 76 WHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNV 135
Query: 230 SQNQFDG-NVPEEMGNLTNLLKLDLSSNVCSGKIPESLGHLK-----SLEFMDLSFNGFG 283
+ N +P NLTNL+ +DLS N L L+ +L +D+S N
Sbjct: 136 AHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLS-LDMSLNPID 194
Query: 284 NFGVPTFLAEMDKLREVYLSGNFLGGEI 311
F + KL E+ L GNF I
Sbjct: 195 FIQDQAF--QGIKLHELTLRGNFNSSNI 220
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 53/208 (25%), Positives = 75/208 (36%), Gaps = 28/208 (13%)
Query: 129 YKCFTEKQVPVPDNIPASFG-----------------SSLEELVFID--NPSFVGPLGGI 169
Y+C +K VPD+IP+S S+ EL ++D
Sbjct: 11 YQCMDQKLSKVPDDIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKA 70
Query: 170 IGSFTNLRRLVLTGNGVYGGIPDKVGDLVGLEEITLSRNKLSGGFSFSXXXXXXXXXXXX 229
+L L+LTGN + P L LE + KL+ SF
Sbjct: 71 WHGLHHLSNLILTGNPIQSFSPGSFSGLTSLENLVAVETKLASLESFPIGQLITLKKLNV 130
Query: 230 SQNQFDG-NVPEEMGNLTNLLKLDLSSNVCSGKIPESLGHLK-----SLEFMDLSFNGFG 283
+ N +P NLTNL+ +DLS N L L+ +L +D+S N
Sbjct: 131 AHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTITVNDLQFLRENPQVNLS-LDMSLNPID 189
Query: 284 NFGVPTFLAEMDKLREVYLSGNFLGGEI 311
F + KL E+ L GNF I
Sbjct: 190 FIQDQAF--QGIKLHELTLRGNFNSSNI 215
>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 = 35.8 bits (81), Expect = 0.050, Method: Compositional matrix adjust.
Identities = 51/177 (28%), Positives = 71/177 (40%), Gaps = 34/177 (19%)
Query: 86 TVHITELSFGYVSDYSPNPPCNANSTLNPLI------FTSFKHLRKLFFYKCFTEKQVPV 139
T EL+F + D P N + + NPL F SF L+ L +C E Q +
Sbjct: 35 TYQCMELNFYKIPDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC--EIQT-I 91
Query: 140 PDNIPASFGSSLEELVFIDNPSFVGPLGGIIGSFTNLRRLVLTGNGVYGGIPDKVGDLVG 199
D S S L L+ NP LG G ++L++LV + +G L
Sbjct: 92 EDGAYQSL-SHLSTLILTGNPIQSLALGAFSG-LSSLQKLVAVETNLASLENFPIGHLKT 149
Query: 200 LEEITLSRNKLSGGFSFSXXXXXXXXXXXXSQNQFDGNVPEEMGNLTNLLKLDLSSN 256
L+E+ ++ N + SF +PE NLTNL LDLSSN
Sbjct: 150 LKELNVAHNLIQ---SFK--------------------LPEYFSNLTNLEHLDLSSN 183
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 35.8 bits (81), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 51/177 (28%), Positives = 71/177 (40%), Gaps = 34/177 (19%)
Query: 86 TVHITELSFGYVSDYSPNPPCNANSTLNPLI------FTSFKHLRKLFFYKCFTEKQVPV 139
T EL+F + D P N + + NPL F SF L+ L +C E Q +
Sbjct: 11 TYQCMELNFYKIPDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC--EIQT-I 67
Query: 140 PDNIPASFGSSLEELVFIDNPSFVGPLGGIIGSFTNLRRLVLTGNGVYGGIPDKVGDLVG 199
D S S L L+ NP LG G ++L++LV + +G L
Sbjct: 68 EDGAYQSL-SHLSTLILTGNPIQSLALGAFSG-LSSLQKLVAVETNLASLENFPIGHLKT 125
Query: 200 LEEITLSRNKLSGGFSFSXXXXXXXXXXXXSQNQFDGNVPEEMGNLTNLLKLDLSSN 256
L+E+ ++ N + SF +PE NLTNL LDLSSN
Sbjct: 126 LKELNVAHNLIQ---SFK--------------------LPEYFSNLTNLEHLDLSSN 159
>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 = 35.4 bits (80), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 51/177 (28%), Positives = 71/177 (40%), Gaps = 34/177 (19%)
Query: 86 TVHITELSFGYVSDYSPNPPCNANSTLNPLI------FTSFKHLRKLFFYKCFTEKQVPV 139
T EL+F + D P N + + NPL F SF L+ L +C E Q +
Sbjct: 11 TYQCMELNFYKIPDNLPFSTKNLDLSFNPLRHLGSYSFFSFPELQVLDLSRC--EIQT-I 67
Query: 140 PDNIPASFGSSLEELVFIDNPSFVGPLGGIIGSFTNLRRLVLTGNGVYGGIPDKVGDLVG 199
D S S L L+ NP LG G ++L++LV + +G L
Sbjct: 68 EDGAYQSL-SHLSTLILTGNPIQSLALGAFSG-LSSLQKLVAVETNLASLENFPIGHLKT 125
Query: 200 LEEITLSRNKLSGGFSFSXXXXXXXXXXXXSQNQFDGNVPEEMGNLTNLLKLDLSSN 256
L+E+ ++ N + SF +PE NLTNL LDLSSN
Sbjct: 126 LKELNVAHNLIQ---SFK--------------------LPEYFSNLTNLEHLDLSSN 159
>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 = 35.4 bits (80), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 33/127 (25%), Positives = 54/127 (42%), Gaps = 25/127 (19%)
Query: 181 LTGNGVYGGIPDKVGDLVGLEEITLSRNKLSGGFSFSXXXXXXXXXXXXSQNQFDGNVPE 240
L+ + ++ + LE++TL++N++ N+ D N
Sbjct: 282 LSKSKIFALLKSVFSHFTDLEQLTLAQNEI---------------------NKIDDNA-- 318
Query: 241 EMGNLTNLLKLDLSSNVCSGKIPESLGHLKSLEFMDLSFNGFGNFGVPTFLAEMDKLREV 300
LT+LLKL+LS N +L LE +DLS+N G +FL + L+E+
Sbjct: 319 -FWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLG-LPNLKEL 376
Query: 301 YLSGNFL 307
L N L
Sbjct: 377 ALDTNQL 383
>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 = 35.4 bits (80), Expect = 0.067, Method: Compositional matrix adjust.
Identities = 46/172 (26%), Positives = 66/172 (38%), Gaps = 24/172 (13%)
Query: 86 TVHITELSFGYVSDYSPNPPCNANSTLNPLIFTSFKHLRKLFFYKCFTEKQVPVPDNIPA 145
T EL+F + D P N + + NPL +HL F+ F E QV
Sbjct: 11 TYQCMELNFYKIPDNLPFSTKNLDLSFNPL-----RHLGSYSFFS-FPELQV-------- 56
Query: 146 SFGSSLEELVFIDNPSFVGPLGGIIGSFTNLRRLVLTGNGVYGGIPDKVGDLVGLEEITL 205
S E+ I++ G S ++L L+LTGN + L L+++
Sbjct: 57 -LDLSRCEIQTIED--------GAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA 107
Query: 206 SRNKLSGGFSFSXXXXXXXXXXXXSQNQFDG-NVPEEMGNLTNLLKLDLSSN 256
L+ +F + N +PE NLTNL LDLSSN
Sbjct: 108 VETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN 159
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 35.0 bits (79), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 49/177 (27%), Positives = 70/177 (39%), Gaps = 34/177 (19%)
Query: 86 TVHITELSFGYVSDYSPNPPCNANSTLNPLI------FTSFKHLRKLFFYKCFTEKQVPV 139
T EL+F + D P N + + NPL F SF L+ L +C + +
Sbjct: 12 TYQCMELNFYKIPDNLPFSTKNLDLSWNPLRHLGSYSFFSFPELQVLDLSRCEIQT---I 68
Query: 140 PDNIPASFGSSLEELVFIDNPSFVGPLGGIIGSFTNLRRLVLTGNGVYGGIPDKVGDLVG 199
D S S L L+ NP LG G ++L++LV + +G L
Sbjct: 69 EDGAYQSL-SHLSTLILTGNPIQSLALGAFSG-LSSLQKLVAVETNLASLENFPIGHLKT 126
Query: 200 LEEITLSRNKLSGGFSFSXXXXXXXXXXXXSQNQFDGNVPEEMGNLTNLLKLDLSSN 256
L+E+ ++ N + SF +PE NLTNL LDLSSN
Sbjct: 127 LKELNVAHNLIQ---SF--------------------KLPEYFSNLTNLEHLDLSSN 160
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 35.0 bits (79), Expect = 0.080, Method: Compositional matrix adjust.
Identities = 46/172 (26%), Positives = 66/172 (38%), Gaps = 24/172 (13%)
Query: 86 TVHITELSFGYVSDYSPNPPCNANSTLNPLIFTSFKHLRKLFFYKCFTEKQVPVPDNIPA 145
T EL+F + D P N + + NPL +HL F+ F E QV
Sbjct: 12 TYQCEELNFYKIPDNLPFSTKNLDLSFNPL-----RHLGSYSFFS-FPELQV-------- 57
Query: 146 SFGSSLEELVFIDNPSFVGPLGGIIGSFTNLRRLVLTGNGVYGGIPDKVGDLVGLEEITL 205
S E+ I++ G S ++L L+LTGN + L L+++
Sbjct: 58 -LDLSRCEIQTIED--------GAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA 108
Query: 206 SRNKLSGGFSFSXXXXXXXXXXXXSQNQFDG-NVPEEMGNLTNLLKLDLSSN 256
L+ +F + N +PE NLTNL LDLSSN
Sbjct: 109 VETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN 160
>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 = 35.0 bits (79), Expect = 0.082, Method: Compositional matrix adjust.
Identities = 46/172 (26%), Positives = 66/172 (38%), Gaps = 24/172 (13%)
Query: 86 TVHITELSFGYVSDYSPNPPCNANSTLNPLIFTSFKHLRKLFFYKCFTEKQVPVPDNIPA 145
T EL+F + D P N + + NPL +HL F+ F E QV
Sbjct: 13 TYQCMELNFYKIPDNLPFSTKNLDLSWNPL-----RHLGSYSFFS-FPELQV-------- 58
Query: 146 SFGSSLEELVFIDNPSFVGPLGGIIGSFTNLRRLVLTGNGVYGGIPDKVGDLVGLEEITL 205
S E+ I++ G S ++L L+LTGN + L L+++
Sbjct: 59 -LDLSRCEIQTIED--------GAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA 109
Query: 206 SRNKLSGGFSFSXXXXXXXXXXXXSQNQFDG-NVPEEMGNLTNLLKLDLSSN 256
L+ +F + N +PE NLTNL LDLSSN
Sbjct: 110 VETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN 161
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 35.0 bits (79), Expect = 0.100, Method: Compositional matrix adjust.
Identities = 46/172 (26%), Positives = 66/172 (38%), Gaps = 24/172 (13%)
Query: 86 TVHITELSFGYVSDYSPNPPCNANSTLNPLIFTSFKHLRKLFFYKCFTEKQVPVPDNIPA 145
T EL+F + D P N + + NPL +HL F+ F E QV
Sbjct: 13 TYQCMELNFYKIPDNLPFSTKNLDLSFNPL-----RHLGSYSFFS-FPELQV-------- 58
Query: 146 SFGSSLEELVFIDNPSFVGPLGGIIGSFTNLRRLVLTGNGVYGGIPDKVGDLVGLEEITL 205
S E+ I++ G S ++L L+LTGN + L L+++
Sbjct: 59 -LDLSRCEIQTIED--------GAYQSLSHLSTLILTGNPIQSLALGAFSGLSSLQKLVA 109
Query: 206 SRNKLSGGFSFSXXXXXXXXXXXXSQNQFDG-NVPEEMGNLTNLLKLDLSSN 256
L+ +F + N +PE NLTNL LDLSSN
Sbjct: 110 LETNLASLENFPIGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSN 161
>pdb|1XEU|A Chain A, Crystal Structure Of Internalin C From Listeria
Monocytogenes
Length = 263
Score = 32.7 bits (73), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 61/134 (45%), Gaps = 16/134 (11%)
Query: 173 FTNLRRLVLTGNGVYGGIPDKVGDLVGLEEITLSRNKLSGGFSFSXXXXXXXXXXXXSQN 232
FTNL+ L L+ N + P K DL LEE++++RN+L S+
Sbjct: 62 FTNLKELHLSHNQISDLSPLK--DLTKLEELSVNRNRLKN--------LNGIPSACLSRL 111
Query: 233 QFDGNVPEEMGNLTNLLKLDLSSNVCSGKIPE--SLGHLKSLEFMDLSFNGFGNFGVPTF 290
D N + +L +L L++ S + + K+ LG L LE +DL N N G
Sbjct: 112 FLDNNELRDTDSLIHLKNLEILS-IRNNKLKSIVMLGFLSKLEVLDLHGNEITNTG---G 167
Query: 291 LAEMDKLREVYLSG 304
L + K+ + L+G
Sbjct: 168 LTRLKKVNWIDLTG 181
>pdb|3NSJ|A Chain A, The X-Ray Crystal Structure Of Lymphocyte Perforin
Length = 540
Score = 32.7 bits (73), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 29/97 (29%), Positives = 43/97 (44%), Gaps = 5/97 (5%)
Query: 107 NANSTLNPLIFTSFKHLRKLFFYKCFTEKQVPVPDNIPASFGSSLEELVFIDNPSFVGP- 165
N NS SF+ ++K + F + +P N +S + EL+ F+
Sbjct: 147 NFNSDTVECRMYSFRLVQKPPLHLDFKKALRALPRNFNSSTEHAYHELISSYGTHFITAV 206
Query: 166 -LGGIIGSFTNLRRLVLTGNGVYGGIPDKVGDLVGLE 201
LGG I T LR LT NG+ D+VGD + +E
Sbjct: 207 DLGGRISVLTALRTCQLTLNGL---TADEVGDCLNVE 240
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 32.3 bits (72), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 46/169 (27%), Positives = 69/169 (40%), Gaps = 17/169 (10%)
Query: 122 HLRKLFFYKCFTEKQVPVPDNIPA--SFGSSLEELVFIDNPSFVGPLGG-------IIGS 172
+L+K T+ ++ D I A S S++ + ++ N ++ LGG +
Sbjct: 25 NLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVRYLA-LGGNKLHDISALKE 83
Query: 173 FTNLRRLVLTGNGVYGGIPDKVGD-LVGLEEITLSRNKLSGGFSFSXXXXXXXXXXXXSQ 231
TNL L+LTGN + +P+ V D L L+E+ L N+L
Sbjct: 84 LTNLTYLILTGNQL-QSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLYLYH 142
Query: 232 NQFDGNVPEEMGNLTNLLKLDLSSNVCSGKIPE----SLGHLKSLEFMD 276
NQ LTNL +LDL +N +PE L LK L D
Sbjct: 143 NQLQSLPKGVFDKLTNLTRLDLDNNQLQS-LPEGVFDKLTQLKQLSLND 190
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 32.3 bits (72), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 48/185 (25%), Positives = 75/185 (40%), Gaps = 9/185 (4%)
Query: 250 KLDLSSNVCSGKIPESLGHLKSLEFMDLSFNGFGNFGVPTFLAEMDKLREVYLSGNFLGG 309
KLDL SN S ++ L L + L+ N F E+ L ++++ N L
Sbjct: 41 KLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIF-KELKNLETLWVTDNKLQA 99
Query: 310 EIPEIWEXXXXXXXXXXXXXXXXXKIPASMGIHLKKLSYLSLDNNKLQGNVPEEFGVLEF 369
+++ +P + L KL+YLSL N+LQ F L
Sbjct: 100 LPIGVFDQLVNLAELRLDRNQLKS-LPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTS 158
Query: 370 VGEINLENNNLSGRVPFSAKFSTKVGEKLKLKGNPDLCIDEKFSIGKNASGSIGQLKLCK 429
+ E+ L NN L RVP A + LKL N + + + A S+ +LK+ +
Sbjct: 159 LKELRLYNNQLK-RVPEGAFDKLTELKTLKLDNN------QLKRVPEGAFDSLEKLKMLQ 211
Query: 430 KPDNP 434
+NP
Sbjct: 212 LQENP 216
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 32.3 bits (72), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 37/165 (22%), Positives = 66/165 (40%), Gaps = 15/165 (9%)
Query: 249 LKLDLSSNVCSGKIPESLGHLKSLEFMDLSFNGFGNFG-VPTFLAEMDKLREVYLSGNFL 307
L LD S+N+ + + E+ GHL LE + L N + +M L+++ +S N +
Sbjct: 327 LHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSV 386
Query: 308 G-----GEIPEIWEXXXXXXXXXXXXXXXXXKIPASMGIHLKKLSYLSLDNNKLQGNVPE 362
G+ +P + + L L +NK++ +P+
Sbjct: 387 SYDEKKGDCSWTKSLLSLNMSSNILTDTIFRCLPPRIKV-------LDLHSNKIKS-IPK 438
Query: 363 EFGVLEFVGEINLENNNLSGRVPFSAKFSTKVGEKLKLKGNPDLC 407
+ LE + E+N+ +N L VP +K+ L NP C
Sbjct: 439 QVVKLEALQELNVASNQLKS-VPDGIFDRLTSLQKIWLHTNPWDC 482
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 47/221 (21%), Positives = 83/221 (37%), Gaps = 49/221 (22%)
Query: 230 SQNQFDGNVPEEMGNLTNLLKLDLSSNVCSG--KIPESLGHLKSLEFMDLSFNGFGNFGV 287
+QN F +V + L L L L N K+ ++ SLE +D+S N +
Sbjct: 361 TQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAY 420
Query: 288 PTFLAEMDKLREVYLSGNFLGGEIPEIWEXXXXXXXXXXXXXXXXXKIPASMGIHLKKLS 347
A + + + LS N L G + +P K+
Sbjct: 421 DRTCAWAESILVLNLSSNMLTGSVFRC--------------------LPP-------KVK 453
Query: 348 YLSLDNNKLQGNVPEEFGVLEFVGEINLENNNLSGRVPFSAKFSTKVGEKLKLKGNPDLC 407
L L NN++ +P++ L+ + E+N+ +N L VP + + L NP C
Sbjct: 454 VLDLHNNRIMS-IPKDVTHLQALQELNVASNQLKS-VPDGVFDRLTSLQYIWLHDNPWDC 511
Query: 408 -----------IDEKFSIGKNASGSIGQLKLCKKPDNPKAA 437
I++ + +N++GS+ PD+ K +
Sbjct: 512 TCPGIRYLSEWINKHSGVVRNSAGSVA-------PDSAKCS 545
>pdb|2OMV|A Chain A, Crystal Structure Of Inla S192n Y369s/hec1 Complex
pdb|2OMW|A Chain A, Crystal Structure Of Inla S192n Y369s/mec1 Complex
Length = 461
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 48/181 (26%), Positives = 71/181 (39%), Gaps = 54/181 (29%)
Query: 242 MGNLTNLLKLDLSSNVCSGKIPES-------------------LGHLKSLEFMDLSFNGF 282
+ NLTNL +L+LSSN S S L +L +LE +D+S N
Sbjct: 125 LKNLTNLNRLELSSNTISDISALSGLTSLQQLNFGNQVTDLKPLANLTTLERLDISSNKV 184
Query: 283 GNFGVPTFLAEMDKLREVYLSGNFLGGEIPEIWEXXXXXXXXXXXXXXXXXKIPASMGIH 342
+ V LA++ L + + N + P +GI
Sbjct: 185 SDISV---LAKLTNLESLIATNNQISDITP--------------------------LGI- 214
Query: 343 LKKLSYLSLDNNKLQGNVPEEFGVLEFVGEINLENNNLSGRVPFSAKFSTKVGEKLKLKG 402
L L LSL+ N+L+ L + +++L NN +S P S TK+ E LKL
Sbjct: 215 LTNLDELSLNGNQLKD--IGTLASLTNLTDLDLANNQISNLAPLSGL--TKLTE-LKLGA 269
Query: 403 N 403
N
Sbjct: 270 N 270
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 31.2 bits (69), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 48/181 (26%), Positives = 71/181 (39%), Gaps = 54/181 (29%)
Query: 242 MGNLTNLLKLDLSSNVCSGKIPES-------------------LGHLKSLEFMDLSFNGF 282
+ NLTNL +L+LSSN S S L +L +LE +D+S N
Sbjct: 125 LKNLTNLNRLELSSNTISDISALSGLTSLQQLNFGNQVTDLKPLANLTTLERLDISSNKV 184
Query: 283 GNFGVPTFLAEMDKLREVYLSGNFLGGEIPEIWEXXXXXXXXXXXXXXXXXKIPASMGIH 342
+ V LA++ L + + N + P +GI
Sbjct: 185 SDISV---LAKLTNLESLIATNNQISDITP--------------------------LGI- 214
Query: 343 LKKLSYLSLDNNKLQGNVPEEFGVLEFVGEINLENNNLSGRVPFSAKFSTKVGEKLKLKG 402
L L LSL+ N+L+ L + +++L NN +S P S TK+ E LKL
Sbjct: 215 LTNLDELSLNGNQLKD--IGTLASLTNLTDLDLANNQISNLAPLSGL--TKLTE-LKLGA 269
Query: 403 N 403
N
Sbjct: 270 N 270
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 48/182 (26%), Positives = 71/182 (39%), Gaps = 55/182 (30%)
Query: 242 MGNLTNLLKLDLSSNVCSGKIPES--------------------LGHLKSLEFMDLSFNG 281
+ NLTNL +L+LSSN S S L +L +LE +D+S N
Sbjct: 125 LKNLTNLNRLELSSNTISDISALSGLTSLQQLSFSSNQVTDLKPLANLTTLERLDISSNK 184
Query: 282 FGNFGVPTFLAEMDKLREVYLSGNFLGGEIPEIWEXXXXXXXXXXXXXXXXXKIPASMGI 341
+ V LA++ L + + N + P +GI
Sbjct: 185 VSDISV---LAKLTNLESLIATNNQISDITP--------------------------LGI 215
Query: 342 HLKKLSYLSLDNNKLQGNVPEEFGVLEFVGEINLENNNLSGRVPFSAKFSTKVGEKLKLK 401
L L LSL+ N+L+ L + +++L NN +S P S TK+ E LKL
Sbjct: 216 -LTNLDELSLNGNQLKD--IGTLASLTNLTDLDLANNQISNLAPLSGL--TKLTE-LKLG 269
Query: 402 GN 403
N
Sbjct: 270 AN 271
>pdb|1O6S|A Chain A, Internalin (Listeria Monocytogenes) E-Cadherin (Human)
Recognition Complex
pdb|1O6T|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|B Chain B, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
Length = 466
Score = 30.8 bits (68), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 48/183 (26%), Positives = 72/183 (39%), Gaps = 54/183 (29%)
Query: 240 EEMGNLTNLLKLDLSSNVCSGKIPES-------------------LGHLKSLEFMDLSFN 280
+ + NLTNL +L+LSSN S S L +L +LE +D+S N
Sbjct: 128 DPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSN 187
Query: 281 GFGNFGVPTFLAEMDKLREVYLSGNFLGGEIPEIWEXXXXXXXXXXXXXXXXXKIPASMG 340
+ V LA++ L + + N + P +G
Sbjct: 188 KVSDISV---LAKLTNLESLIATNNQISDITP--------------------------LG 218
Query: 341 IHLKKLSYLSLDNNKLQGNVPEEFGVLEFVGEINLENNNLSGRVPFSAKFSTKVGEKLKL 400
I L L LSL+ N+L+ L + +++L NN +S P S TK+ E LKL
Sbjct: 219 I-LTNLDELSLNGNQLKD--IGTLASLTNLTDLDLANNQISNLAPLSGL--TKLTE-LKL 272
Query: 401 KGN 403
N
Sbjct: 273 GAN 275
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 48/182 (26%), Positives = 71/182 (39%), Gaps = 55/182 (30%)
Query: 242 MGNLTNLLKLDLSSNVCSGKIPES--------------------LGHLKSLEFMDLSFNG 281
+ NLTNL +L+LSSN S S L +L +LE +D+S N
Sbjct: 125 LKNLTNLNRLELSSNTISDISALSGLTSLQQLSFSSNQVTDLKPLANLTTLERLDISSNK 184
Query: 282 FGNFGVPTFLAEMDKLREVYLSGNFLGGEIPEIWEXXXXXXXXXXXXXXXXXKIPASMGI 341
+ V LA++ L + + N + P +GI
Sbjct: 185 VSDISV---LAKLTNLESLIATNNQISDITP--------------------------LGI 215
Query: 342 HLKKLSYLSLDNNKLQGNVPEEFGVLEFVGEINLENNNLSGRVPFSAKFSTKVGEKLKLK 401
L L LSL+ N+L+ L + +++L NN +S P S TK+ E LKL
Sbjct: 216 -LTNLDELSLNGNQLKD--IGTLASLTNLTDLDLANNQISNLAPLSGL--TKLTE-LKLG 269
Query: 402 GN 403
N
Sbjct: 270 AN 271
>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 = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 50/189 (26%), Positives = 79/189 (41%), Gaps = 38/189 (20%)
Query: 122 HLRKLFFYKCFTEKQVPVPDNIPA--SFGSSLEELVFIDNPSFVGPLGG-------IIGS 172
+L+K T+ ++ D I A S S++ + ++ N ++ LGG +
Sbjct: 25 NLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVRYLA-LGGNKLHDISALKE 83
Query: 173 FTNLRRLVLTGNGVYGGIPDKVGD-LVGLEEITLSRNKLSGGFSFSXXXXXXXXXXXXSQ 231
TNL L+LTGN + +P+ V D L L+E+ L N+L Q
Sbjct: 84 LTNLTYLILTGNQL-QSLPNGVFDKLTNLKELVLVENQL--------------------Q 122
Query: 232 NQFDGNVPEEMGNLTNLLKLDLSSNVCSGKIPESLGHLKSLEFMDLSFNGFGNF--GVPT 289
+ DG LTNL L+L+ N L +L +DLS+N + GV
Sbjct: 123 SLPDG----VFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFD 178
Query: 290 FLAEMDKLR 298
L ++ LR
Sbjct: 179 KLTQLKDLR 187
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 48/183 (26%), Positives = 72/183 (39%), Gaps = 54/183 (29%)
Query: 240 EEMGNLTNLLKLDLSSNVCSGKIPES-------------------LGHLKSLEFMDLSFN 280
+ + NLTNL +L+LSSN S S L +L +LE +D+S N
Sbjct: 127 DPLKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVTDLKPLANLTTLERLDISSN 186
Query: 281 GFGNFGVPTFLAEMDKLREVYLSGNFLGGEIPEIWEXXXXXXXXXXXXXXXXXKIPASMG 340
+ V LA++ L + + N + P +G
Sbjct: 187 KVSDISV---LAKLTNLESLIATNNQISDITP--------------------------LG 217
Query: 341 IHLKKLSYLSLDNNKLQGNVPEEFGVLEFVGEINLENNNLSGRVPFSAKFSTKVGEKLKL 400
I L L LSL+ N+L+ L + +++L NN +S P S TK+ E LKL
Sbjct: 218 I-LTNLDELSLNGNQLKD--IGTLASLTNLTDLDLANNQISNLAPLSGL--TKLTE-LKL 271
Query: 401 KGN 403
N
Sbjct: 272 GAN 274
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 48/182 (26%), Positives = 71/182 (39%), Gaps = 55/182 (30%)
Query: 242 MGNLTNLLKLDLSSNVCSGKIPES--------------------LGHLKSLEFMDLSFNG 281
+ NLTNL +L+LSSN S S L +L +LE +D+S N
Sbjct: 125 LKNLTNLNRLELSSNTISDISALSGLTSLQQLNFSSNQVTDLKPLANLTTLERLDISSNK 184
Query: 282 FGNFGVPTFLAEMDKLREVYLSGNFLGGEIPEIWEXXXXXXXXXXXXXXXXXKIPASMGI 341
+ V LA++ L + + N + P +GI
Sbjct: 185 VSDISV---LAKLTNLESLIATNNQISDITP--------------------------LGI 215
Query: 342 HLKKLSYLSLDNNKLQGNVPEEFGVLEFVGEINLENNNLSGRVPFSAKFSTKVGEKLKLK 401
L L LSL+ N+L+ L + +++L NN +S P S TK+ E LKL
Sbjct: 216 -LTNLDELSLNGNQLKD--IGTLASLTNLTDLDLANNQISNLAPLSGL--TKLTE-LKLG 269
Query: 402 GN 403
N
Sbjct: 270 AN 271
>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 = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 37/76 (48%), Gaps = 5/76 (6%)
Query: 234 FDGN----VPEEMGNLTNLLKLDLSSNVCSGKIPESLGHLKSLEFMDLSFNGFGNFGVPT 289
DGN VP+E+ N +L +DLS+N S +S ++ L + LS+N T
Sbjct: 38 LDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRT 97
Query: 290 FLAEMDKLREVYLSGN 305
F + LR + L GN
Sbjct: 98 F-DGLKSLRLLSLHGN 112
>pdb|1W1A|1 Chain 1, Structure Of Bacillus Subtilis Pdaa In Complex With Nag, A
Family 4 Carbohydrate Esterase.
pdb|1W1A|2 Chain 2, Structure Of Bacillus Subtilis Pdaa In Complex With Nag, A
Family 4 Carbohydrate Esterase.
pdb|1W1B|1 Chain 1, Structure Of Bacillus Subtilis Pdaa With Cadmium, A Family
4 Carbohydrate Esterase.
pdb|1W1B|2 Chain 2, Structure Of Bacillus Subtilis Pdaa With Cadmium, A Family
4 Carbohydrate Esterase
Length = 257
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 26 QQPFLSSLEQDSVYQVLDSVNPTIHWRSLFPDDLCSSPPHGVVCDY 71
P L++ D + LDSVN ++ + D+L PP GV +Y
Sbjct: 121 HHPDLTTKTADQIQDELDSVNEEVYKITGKQDNLYLRPPRGVFSEY 166
>pdb|1NY1|A Chain A, Crystal Structure Of B. Subtilis Polysaccharide
Deacetylase Northeast Structural Genomics Consortium
Target Sr127.
pdb|1NY1|B Chain B, Crystal Structure Of B. Subtilis Polysaccharide
Deacetylase Northeast Structural Genomics Consortium
Target Sr127
Length = 240
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 26 QQPFLSSLEQDSVYQVLDSVNPTIHWRSLFPDDLCSSPPHGVVCDY 71
P L++ D + LDSVN ++ + D+L PP GV +Y
Sbjct: 104 HHPDLTTKTADQIQDELDSVNEEVYKITGKQDNLYLRPPRGVFSEY 149
>pdb|1W17|A Chain A, Structure Of Bacillus Subtilis Pdaa, A Family 4
Carbohydrate Esterase.
pdb|1W17|B Chain B, Structure Of Bacillus Subtilis Pdaa, A Family 4
Carbohydrate Esterase
Length = 263
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 23/46 (50%)
Query: 26 QQPFLSSLEQDSVYQVLDSVNPTIHWRSLFPDDLCSSPPHGVVCDY 71
P L++ D + LDSVN ++ + D+L PP GV +Y
Sbjct: 127 HHPDLTTKTADQIQDELDSVNEEVYKITGKQDNLYLRPPRGVFSEY 172
>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 = 28.9 bits (63), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 27/71 (38%), Positives = 33/71 (46%), Gaps = 19/71 (26%)
Query: 245 LTNLLKLDLSSNVCS--GKIPESLGHLKSLEFMDLSFNGFGNFGVPTFLAEMDKLREVYL 302
LT L KL LSSN S G +S SL+++DLSFNG + +
Sbjct: 51 LTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGV-----------------ITM 93
Query: 303 SGNFLGGEIPE 313
S NFLG E E
Sbjct: 94 SSNFLGLEQLE 104
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 0.137 0.403
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,301,786
Number of Sequences: 62578
Number of extensions: 557070
Number of successful extensions: 1388
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 19
Number of HSP's that attempted gapping in prelim test: 1190
Number of HSP's gapped (non-prelim): 104
length of query: 467
length of database: 14,973,337
effective HSP length: 102
effective length of query: 365
effective length of database: 8,590,381
effective search space: 3135489065
effective search space used: 3135489065
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 53 (25.0 bits)