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= 036772
(583 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 49.7 bits (117), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 65/222 (29%), Positives = 97/222 (43%), Gaps = 22/222 (9%)
Query: 58 LKSLPSKNIPE------HLVSLEMPHSNIEQLWNGVQNLAALKRLNLSYCKQLSRIPDLS 111
L+S+P P+ HL + + + +L + Q A L+ L L+ L +P
Sbjct: 88 LRSVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLAR-NPLRALPASI 146
Query: 112 LALN-LEWLDLVGCASLIEIHSSI---------QHLNKLVFLNLGRCISLKSLPTGI-NL 160
+LN L L + C L E+ + Q L L L L ++SLP I NL
Sbjct: 147 ASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRL-EWTGIRSLPASIANL 205
Query: 161 DSLKVLYLGGC--SNLKRFLEISCNIENLDLSE-TAIEELPSSIGNLSRLVRLDLTNCSR 217
+LK L + S L + +E LDL TA+ P G + L RL L +CS
Sbjct: 206 QNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSN 265
Query: 218 LKSVSNSLCNLKSLQYLFLSGCLKLEKLPEEIGNLESLKIML 259
L ++ + L L+ L L GC+ L +LP I L + I+L
Sbjct: 266 LLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIIL 307
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 49/184 (26%), Positives = 76/184 (41%), Gaps = 21/184 (11%)
Query: 169 GGCSNLKRFLEISCNIENLDLSETAIEELPSSIGNLSRLVRLDLTNCSRLKSVSNSLCN- 227
G L + +E L L+ + LP+SI +L+RL L + C L + L +
Sbjct: 114 AGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRACPELTELPEPLAST 173
Query: 228 --------LKSLQYLFLSGCLKLEKLPEEIGNLESLKIMLANETAISQ---------NLV 270
L +LQ L L + LP I NL++LK + + +S L
Sbjct: 174 DASGEHQGLVNLQSLRLEWT-GIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLE 232
Query: 271 DMSLVDC-GITELPESLGRSPSLKFLNLAE-NDFEKIPSSIKQLSNLLFLTLQNCKRLQS 328
++ L C + P G LK L L + ++ +P I +L+ L L L+ C L
Sbjct: 233 ELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSR 292
Query: 329 LPEL 332
LP L
Sbjct: 293 LPSL 296
>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 = 38.1 bits (87), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 34/93 (36%), Positives = 51/93 (54%), Gaps = 9/93 (9%)
Query: 172 SNLKRFLEISCNIENLD------LSETAIEELPSSIGNLSRLVRLDLTNCSRLKSVSNSL 225
SNL+ F IS NI D L+ ++ ELP+ I NLS L LDL++ +RL S+ L
Sbjct: 232 SNLQIF-NISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSH-NRLTSLPAEL 289
Query: 226 CNLKSLQYLFLSGCLKLEKLPEEIGNLESLKIM 258
+ L+Y + + + LP E GNL +L+ +
Sbjct: 290 GSCFQLKYFYFFDNM-VTTLPWEFGNLCNLQFL 321
Score = 35.0 bits (79), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 32/112 (28%), Positives = 52/112 (46%), Gaps = 16/112 (14%)
Query: 210 LDLTNCSRLKSVSNSLCNLKSLQYLFLSGCLKLEKLPEEIGNLESLKIMLANETAISQNL 269
LDL+N ++ ++S ++ L L+L+G L +LP EI NL +L+++
Sbjct: 229 LDLSNL-QIFNISANIFKYDFLTRLYLNGN-SLTELPAEIKNLSNLRVL----------- 275
Query: 270 VDMSLVDCGITELPESLGRSPSLKFLNLAENDFEKIPSSIKQLSNLLFLTLQ 321
L +T LP LG LK+ +N +P L NL FL ++
Sbjct: 276 ---DLSHNRLTSLPAELGSCFQLKYFYFFDNMVTTLPWEFGNLCNLQFLGVE 324
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
From Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
Effector Protein From Yersinia Pestis
Length = 454
Score = 34.7 bits (78), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 53/168 (31%), Positives = 81/168 (48%), Gaps = 48/168 (28%)
Query: 181 SCNIENLDLSETAIEELPSSIGNLSRLVRLDLTNCSRLKSVSNSLCNLKSLQYLFLSGCL 240
SCN S T + ELP S+ +L L + + LK++S+ L L L+YL +S
Sbjct: 99 SCN------SLTELPELPQSLKSL-------LVDNNNLKALSD-LPPL--LEYLGVSNN- 141
Query: 241 KLEKLPEEIGNLESLKIMLANETAISQNLVDMSLVDCGITELPESLGRSPSLKFLNLAEN 300
+LEKLPE + N LKI+ + ++ + + +LP PSL+F+ N
Sbjct: 142 QLEKLPE-LQNSSFLKIIDVDNNSLKK-----------LPDLP------PSLEFIAAGNN 183
Query: 301 DFEKIPSSIKQLSNLLFLTL--QNCKRLQSLPELP-------CGSNIF 339
E++P +L NL FLT + L+ LP+LP G+NI
Sbjct: 184 QLEELP----ELQNLPFLTAIYADNNSLKKLPDLPLSLESIVAGNNIL 227
Score = 30.4 bits (67), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 85/344 (24%), Positives = 144/344 (41%), Gaps = 85/344 (24%)
Query: 29 EMNKCKVRHSRCLESFFNELRYFQWDGYPLKSLPSKNIPEHLVSL-----------EMPH 77
EM ++R CL+ +EL + + L SLP +P HL SL E+P
Sbjct: 59 EMAVSRLRD--CLDRQAHEL---ELNNLGLSSLPE--LPPHLESLVASCNSLTELPELPQ 111
Query: 78 SNIEQLWNGVQNLAALKRLN--LSYC----KQLSRIPDLSLALNLEWLDLVGCA--SLIE 129
S ++ L NL AL L L Y QL ++P+L + L+ +D+ + L +
Sbjct: 112 S-LKSLLVDNNNLKALSDLPPLLEYLGVSNNQLEKLPELQNSSFLKIIDVDNNSLKKLPD 170
Query: 130 IHSSIQHLNKLVFLNLGRCISLKSLPTGINLDSLKVLYLGGCSNLKRFLEISCNIENLDL 189
+ S++ F+ G L+ LP NL L +Y S LK+ ++ ++E++
Sbjct: 171 LPPSLE------FIAAGNN-QLEELPELQNLPFLTAIYADNNS-LKKLPDLPLSLESIVA 222
Query: 190 SETAIEELPSSIGNLSRLVRLDLTNCSRLKSVSNSLCNLKSLQYLFLSGCLKLEKLPEEI 249
+EELP L NL L ++ L L+ LP+
Sbjct: 223 GNNILEELPE-------------------------LQNLPFLTTIYADNNL-LKTLPDLP 256
Query: 250 GNLESLKIM---LANETAISQNLVDMSLVD---CGITELPESL--------------GRS 289
+LE+L + L + + Q+L + + + G++ELP +L
Sbjct: 257 PSLEALNVRDNYLTDLPELPQSLTFLDVSENIFSGLSELPPNLYYLNASSNEIRSLCDLP 316
Query: 290 PSLKFLNLAENDFEKIPSSIKQLSNLLFLTLQNCKRLQSLPELP 333
PSL+ LN++ N ++P+ +L L + + L +PELP
Sbjct: 317 PSLEELNVSNNKLIELPALPPRLERL----IASFNHLAEVPELP 356
>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 = 33.9 bits (76), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 41/145 (28%), Positives = 65/145 (44%), Gaps = 16/145 (11%)
Query: 179 EISCNIENLDLSETAIEELPS-SIGNLSRLVRLDLTNCSRLKSVSNSLCNLKSLQYLFLS 237
+I + +N+DLS ++ L S S N S L LDL+ C + L L L L+
Sbjct: 29 DIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILT 88
Query: 238 GCLKLEKLPEEIGNLESLKIMLANETAISQNLVDMSLVDCGITELPESLGRSPSLKFLNL 297
G P L SL+ ++A ET ++ + P +G+ +LK LN+
Sbjct: 89 GNPIQSFSPGSFSGLTSLENLVAVETKLA-----------SLESFP--IGQLITLKKLNV 135
Query: 298 AENDFE--KIPSSIKQLSNLLFLTL 320
A N K+P+ L+NL+ + L
Sbjct: 136 AHNFIHSCKLPAYFSNLTNLVHVDL 160
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 33.9 bits (76), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 41/145 (28%), Positives = 65/145 (44%), Gaps = 16/145 (11%)
Query: 179 EISCNIENLDLSETAIEELPS-SIGNLSRLVRLDLTNCSRLKSVSNSLCNLKSLQYLFLS 237
+I + +N+DLS ++ L S S N S L LDL+ C + L L L L+
Sbjct: 24 DIPSSTKNIDLSFNPLKILKSYSFSNFSELQWLDLSRCEIETIEDKAWHGLHHLSNLILT 83
Query: 238 GCLKLEKLPEEIGNLESLKIMLANETAISQNLVDMSLVDCGITELPESLGRSPSLKFLNL 297
G P L SL+ ++A ET ++ + P +G+ +LK LN+
Sbjct: 84 GNPIQSFSPGSFSGLTSLENLVAVETKLA-----------SLESFP--IGQLITLKKLNV 130
Query: 298 AENDFE--KIPSSIKQLSNLLFLTL 320
A N K+P+ L+NL+ + L
Sbjct: 131 AHNFIHSCKLPAYFSNLTNLVHVDL 155
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 33.5 bits (75), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 51/162 (31%), Positives = 85/162 (52%), Gaps = 25/162 (15%)
Query: 91 AALKRLNLSYCKQLSRIPDLSLALNLEWLDLVGCASLIEIHSSIQHLNKL-VFLNLGRCI 149
+LK L+LS+ ++ + LE LD HS+++ +++ VFL+L I
Sbjct: 373 TSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQ--------HSNLKQMSEFSVFLSLRNLI 424
Query: 150 SLKSLPT-------GI--NLDSLKVLYLGGCSNLKRFL-EISCNIENL---DLSETAIEE 196
L T GI L SL+VL + G S + FL +I + NL DLS+ +E+
Sbjct: 425 YLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQ 484
Query: 197 L-PSSIGNLSRLVRLDLTNCSRLKSVSNSLCN-LKSLQYLFL 236
L P++ +LS L L++ + ++LKSV + + + L SLQ ++L
Sbjct: 485 LSPTAFNSLSSLQVLNMAS-NQLKSVPDGIFDRLTSLQKIWL 525
>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 = 32.3 bits (72), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 70/269 (26%), Positives = 114/269 (42%), Gaps = 51/269 (18%)
Query: 58 LKSLPSKNIPEHLVSLEMPHSNIEQLWNGV-QNLAALKRLNLSY--------CKQLS--- 105
L S+P+ IP LE+ + ++ L +GV L L +L+LS C Q
Sbjct: 19 LTSVPT-GIPSSATRLELESNKLQSLPHGVFDKLTQLTKLSLSSNGLSFKGCCSQSDFGT 77
Query: 106 ---RIPDLS----LALNLEWLDLVGCASLIEIHSSIQHLNKL-VFLNLGRCISLKSLPTG 157
+ DLS + ++ +L L L HS+++ +++ VFL+L I L
Sbjct: 78 TSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLD----- 132
Query: 158 INLDSLKVLYLGGCSNLKRFLEISCNIENLDLSETAIEE--LPSSIGNLSRLVRLDLTNC 215
I+ +V + G + L ++E L ++ + +E LP L L LDL+ C
Sbjct: 133 ISHTHTRVAFNGIFNGLS-------SLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC 185
Query: 216 SRLKSVSNSLCNLKSLQYLFLS--GCLKLEKLPEEIGNLESLKIMLANETAISQNLVDMS 273
+ + +L SLQ L +S L+ P + L SL+++ D S
Sbjct: 186 QLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKC--LNSLQVL------------DYS 231
Query: 274 LVDCGITELPESLGRSPSLKFLNLAENDF 302
L ++ E SL FLNL +NDF
Sbjct: 232 LNHIMTSKKQELQHFPSSLAFLNLTQNDF 260
>pdb|3B2D|A Chain A, Crystal Structure Of Human Rp105MD-1 Complex
pdb|3B2D|B Chain B, Crystal Structure Of Human Rp105MD-1 Complex
Length = 603
Score = 32.0 bits (71), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 28/93 (30%), Positives = 48/93 (51%), Gaps = 11/93 (11%)
Query: 176 RFLEIS-------CNIENLDLSETAIEELPSSIGNLSRLVRLDLTNCSRLKSVSNSLCNL 228
RF +IS ++ LDL+ T ++ LPS + L+ L +L L+ + S N
Sbjct: 262 RFSDISSTTFQCFTQLQELDLTATHLKGLPSGMKGLNLLKKLVLSVNHFDQLCQISAANF 321
Query: 229 KSLQYLFLSGCLKLEKLP----EEIGNLESLKI 257
SL +L++ G +K L E++GNL++L +
Sbjct: 322 PSLTHLYIRGNVKKLHLGVGCLEKLGNLQTLDL 354
>pdb|4H09|A Chain A, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|B Chain B, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|C Chain C, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|D Chain D, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
pdb|4H09|E Chain E, Crystal Structure Of A Hypothetical Leucine Rich Repeat
Protein (Eubven_01088) From Eubacterium Ventriosum Atcc
27560 At 2.50 A Resolution
Length = 379
Score = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/68 (33%), Positives = 37/68 (54%), Gaps = 7/68 (10%)
Query: 189 LSETAIEELPSSIGNLSRLVRLDLTNCSRLKSVSNSLCNLKSLQYLFLSGCLKLEKLPEE 248
L E AI + +SIG+ L NC+ LK++ N +K++ YL SGC L K+ +
Sbjct: 242 LDEIAIPKNVTSIGSFL------LQNCTALKTL-NFYAKVKTVPYLLCSGCSNLTKVVXD 294
Query: 249 IGNLESLK 256
+E+L+
Sbjct: 295 NSAIETLE 302
Score = 29.3 bits (64), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 41/101 (40%), Gaps = 1/101 (0%)
Query: 88 QNLAALKRLNLSYCKQLSRIPDLSLALNLEWLDLVGCASLIEIHSSIQHLNKLVFLNLGR 147
+ + SY K L +I S L G +L EI + FL L
Sbjct: 203 STVKTVTAYGFSYGKNLKKITITSGVTTLGDGAFYGXKALDEIAIPKNVTSIGSFL-LQN 261
Query: 148 CISLKSLPTGINLDSLKVLYLGGCSNLKRFLEISCNIENLD 188
C +LK+L + ++ L GCSNL + + + IE L+
Sbjct: 262 CTALKTLNFYAKVKTVPYLLCSGCSNLTKVVXDNSAIETLE 302
>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 = 1.2, Method: Compositional matrix adjust.
Identities = 49/180 (27%), Positives = 86/180 (47%), Gaps = 31/180 (17%)
Query: 68 EHLVSLEMPHSNIE-------QLWNGVQNLAALKRLNLSYCKQLSRIPDLSLAL--NLEW 118
E+L L++ HS+IE QL +NL L+ LNLSY + L + D + LE
Sbjct: 349 ENLQKLDLSHSDIEASDCCNLQL----KNLRHLQYLNLSYNEPLG-LEDQAFKECPQLEL 403
Query: 119 LDLVGCASLIEI-HSSIQHLNKLVFLNLGRCISLKSLPTGINLDSLKVLYLGGCSNLKRF 177
LD+ ++ HS Q+L+ L LNL C+ LD+ L G +L+
Sbjct: 404 LDVAFTHLHVKAPHSPFQNLHLLRVLNLSHCL----------LDTSNQHLLAGLQDLRHL 453
Query: 178 LEISCNIENLDLSETAIEELPSSIGNLSRLVRLDLTNCSRLKSVSNSLCNLKSLQYLFLS 237
+ ++ +S+T + ++ +G+L L+ L++C+ L + L+++ +L LS
Sbjct: 454 NLQGNSFQDGSISKTNLLQM---VGSLEILI---LSSCNLLSIDQQAFHGLRNVNHLDLS 507
>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 = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 72/138 (52%), Gaps = 12/138 (8%)
Query: 196 ELPSSIGNLSRLVRLDLTNCSRLKSVSNSLCNLKSLQYLFLSGCLKLEKLPEEIGNLESL 255
++P ++ N S LV L L+ ++ +SL +L L+ L L + ++P+E+ +++L
Sbjct: 406 KIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTL 465
Query: 256 KIMLANETAIS----------QNLVDMSLVDCGIT-ELPESLGRSPSLKFLNLAENDFE- 303
+ ++ + ++ NL +SL + +T E+P+ +GR +L L L+ N F
Sbjct: 466 ETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSG 525
Query: 304 KIPSSIKQLSNLLFLTLQ 321
IP+ + +L++L L
Sbjct: 526 NIPAELGDCRSLIWLDLN 543
>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 = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 72/138 (52%), Gaps = 12/138 (8%)
Query: 196 ELPSSIGNLSRLVRLDLTNCSRLKSVSNSLCNLKSLQYLFLSGCLKLEKLPEEIGNLESL 255
++P ++ N S LV L L+ ++ +SL +L L+ L L + ++P+E+ +++L
Sbjct: 409 KIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTL 468
Query: 256 KIMLANETAIS----------QNLVDMSLVDCGIT-ELPESLGRSPSLKFLNLAENDFE- 303
+ ++ + ++ NL +SL + +T E+P+ +GR +L L L+ N F
Sbjct: 469 ETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSG 528
Query: 304 KIPSSIKQLSNLLFLTLQ 321
IP+ + +L++L L
Sbjct: 529 NIPAELGDCRSLIWLDLN 546
>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 = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 56/216 (25%), Positives = 92/216 (42%), Gaps = 39/216 (18%)
Query: 92 ALKRLNLSYCKQLSRIPDLSLALNLEWLDLVGCASLIEIHSSIQHLNKL-VFLNLGRCIS 150
+LK L+LS+ ++ + LE LD HS+++ +++ VFL+L I
Sbjct: 398 SLKYLDLSFNGVITMSSNFLGLEQLEHLDFQ--------HSNLKQMSEFSVFLSLRNLIY 449
Query: 151 LKSLPTGINLDSLKVLYLGGCSNLKRFLEISCNIENLDLSETAIEE--LPSSIGNLSRLV 208
L I+ +V + G + L ++E L ++ + +E LP L L
Sbjct: 450 LD-----ISHTHTRVAFNGIFNGLS-------SLEVLKMAGNSFQENFLPDIFTELRNLT 497
Query: 209 RLDLTNCSRLKSVSNSLCNLKSLQYLFLS--GCLKLEKLPEEIGNLESLKIMLANETAIS 266
LDL+ C + + +L SLQ L +S L+ P + L SL+++
Sbjct: 498 FLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKC--LNSLQVL-------- 547
Query: 267 QNLVDMSLVDCGITELPESLGRSPSLKFLNLAENDF 302
D SL ++ E SL FLNL +NDF
Sbjct: 548 ----DYSLNHIMTSKKQELQHFPSSLAFLNLTQNDF 579
>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 = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 56/217 (25%), Positives = 92/217 (42%), Gaps = 39/217 (17%)
Query: 91 AALKRLNLSYCKQLSRIPDLSLALNLEWLDLVGCASLIEIHSSIQHLNKL-VFLNLGRCI 149
+LK L+LS+ ++ + LE LD HS+++ +++ VFL+L I
Sbjct: 373 TSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQ--------HSNLKQMSEFSVFLSLRNLI 424
Query: 150 SLKSLPTGINLDSLKVLYLGGCSNLKRFLEISCNIENLDLSETAIEE--LPSSIGNLSRL 207
L I+ +V + G + L ++E L ++ + +E LP L L
Sbjct: 425 YLD-----ISHTHTRVAFNGIFNGLS-------SLEVLKMAGNSFQENFLPDIFTELRNL 472
Query: 208 VRLDLTNCSRLKSVSNSLCNLKSLQYLFLS--GCLKLEKLPEEIGNLESLKIMLANETAI 265
LDL+ C + + +L SLQ L +S L+ P + L SL+++
Sbjct: 473 TFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKC--LNSLQVL------- 523
Query: 266 SQNLVDMSLVDCGITELPESLGRSPSLKFLNLAENDF 302
D SL ++ E SL FLNL +NDF
Sbjct: 524 -----DYSLNHIMTSKKQELQHFPSSLAFLNLTQNDF 555
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 51/165 (30%), Positives = 78/165 (47%), Gaps = 24/165 (14%)
Query: 86 GVQNLAALKRLNLSYCKQLSRIPDLSLALNLEWLDLVGCASLIEIHSSIQHLNKLVF--- 142
G+Q L ++ L L K L I L NL +L L G + +Q L VF
Sbjct: 58 GIQYLPNVRYLALGGNK-LHDISALKELTNLTYLILTG--------NQLQSLPNGVFDKL 108
Query: 143 LNLGRCI----SLKSLPTGI--NLDSLKVLYL--GGCSNL-KRFLEISCNIENLDLSETA 193
NL + L+SLP G+ L +L LYL +L K + N+ LDL
Sbjct: 109 TNLKELVLVENQLQSLPDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQ 168
Query: 194 IEELPSSI-GNLSRLVRLDLTNCSRLKSVSNSLCN-LKSLQYLFL 236
++ LP + L++L +L L N ++LKSV + + + L SL +++L
Sbjct: 169 LQSLPEGVFDKLTQLKQLSL-NDNQLKSVPDGVFDRLTSLTHIWL 212
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 30.0 bits (66), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 40/141 (28%), Positives = 58/141 (41%), Gaps = 18/141 (12%)
Query: 184 IENLDLSETAIEEL--PSSIGNLSRLVRLDLTNCSRLKSVSNSLCNLKSLQYLFLSGCLK 241
+E LDLS+ A P++ L RL L L C + L +LQYL+L
Sbjct: 81 LEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDN-A 139
Query: 242 LEKLPEEIGNLESLKIMLANETAISQNLVDMSLVDCGITELPESLGRS-PSLKFLNLAEN 300
L+ LP++ L NL + L I+ +PE R SL L L +N
Sbjct: 140 LQALPDD--TFRDLG-----------NLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQN 186
Query: 301 DFEKI-PSSIKQLSNLLFLTL 320
+ P + + L L+ L L
Sbjct: 187 RVAHVHPHAFRDLGRLMTLYL 207
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 30.0 bits (66), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 42/166 (25%), Positives = 83/166 (50%), Gaps = 16/166 (9%)
Query: 180 ISCNIENLDLSETAIEELPSSIGNLSRLVRLDLTNCSRLKSVSNSLCN-LKSLQYLFLSG 238
I + + LDL + LPS + +RL N ++L+++ + LK+L+ L+++
Sbjct: 35 IPADTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTD 94
Query: 239 CLKLEKLP----EEIGNLESLKI----MLANETAISQNLVDMSLVDCGITE---LPESL- 286
KL+ LP +++ NL L++ + + + +L ++ + G E LP+ +
Sbjct: 95 N-KLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVF 153
Query: 287 GRSPSLKFLNLAENDFEKIP-SSIKQLSNLLFLTLQNCKRLQSLPE 331
+ SLK L L N +++P + +L+ L L L N +L+ +PE
Sbjct: 154 DKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDN-NQLKRVPE 198
>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 = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 49/107 (45%), Gaps = 4/107 (3%)
Query: 43 SFFNELRYFQWDGYPLKSLPSKNIPE--HLVSLEMPHSNIEQLWN-GVQNLAALKRLNLS 99
S N L + L S+P++ + L+ L + H NI + + + L LK L +S
Sbjct: 149 SGLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEIS 208
Query: 100 YCKQLSRI-PDLSLALNLEWLDLVGCASLIEIHSSIQHLNKLVFLNL 145
+ L + P+ LNL L + C + +++HL L FLNL
Sbjct: 209 HWPYLDTMTPNCLYGLNLTSLSITHCNLTAVPYLAVRHLVYLRFLNL 255
>pdb|1OZN|A Chain A, 1.5a Crystal Structure Of The Nogo Receptor Ligand Binding
Domain Reveals A Convergent Recognition Scaffold
Mediating Inhibition Of Myelination
Length = 285
Score = 29.6 bits (65), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 40/141 (28%), Positives = 58/141 (41%), Gaps = 18/141 (12%)
Query: 184 IENLDLSETAIEEL--PSSIGNLSRLVRLDLTNCSRLKSVSNSLCNLKSLQYLFLSGCLK 241
+E LDLS+ A P++ L RL L L C + L +LQYL+L
Sbjct: 82 LEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDN-A 140
Query: 242 LEKLPEEIGNLESLKIMLANETAISQNLVDMSLVDCGITELPESLGRS-PSLKFLNLAEN 300
L+ LP++ L NL + L I+ +PE R SL L L +N
Sbjct: 141 LQALPDD--TFRDLG-----------NLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQN 187
Query: 301 DFEKI-PSSIKQLSNLLFLTL 320
+ P + + L L+ L L
Sbjct: 188 RVAHVHPHAFRDLGRLMTLYL 208
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 29.6 bits (65), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 39/152 (25%), Positives = 69/152 (45%), Gaps = 21/152 (13%)
Query: 179 EISCNIENLDLSETAIEELPSSIGNLSRLVRLDLTNCSRLK-SVSNSLCNLKSLQYLFLS 237
+ SC+ +D +P+ I ++++ L ++L+ V +SL NLK L YL
Sbjct: 16 QCSCSGTTVDCRSKRHASVPAGIPTNAQILYLHDNQITKLEPGVFDSLINLKEL-YL--- 71
Query: 238 GCLKLEKLPEEIGNLESLKIMLANETAISQ-------------NLVDMSLVDCGITELPE 284
G +L LP +G +SL + + +Q +L ++ + +TELP
Sbjct: 72 GSNQLGALP--VGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCCNKLTELPR 129
Query: 285 SLGRSPSLKFLNLAENDFEKIP-SSIKQLSNL 315
+ R L L L +N + IP + +LS+L
Sbjct: 130 GIERLTHLTHLALDQNQLKSIPHGAFDRLSSL 161
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 29.3 bits (64), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 39/141 (27%), Positives = 57/141 (40%), Gaps = 18/141 (12%)
Query: 184 IENLDLSETAIEEL--PSSIGNLSRLVRLDLTNCSRLKSVSNSLCNLKSLQYLFLSGCLK 241
+E LDLS+ A + P++ L L L L C + L +LQYL+L
Sbjct: 81 LEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDN-N 139
Query: 242 LEKLPEEIGNLESLKIMLANETAISQNLVDMSLVDCGITELPESLGRS-PSLKFLNLAEN 300
L+ LP+ N NL + L I +PE R SL L L +N
Sbjct: 140 LQALPD-------------NTFRDLGNLTHLFLHGNRIPSVPEHAFRGLHSLDRLLLHQN 186
Query: 301 DFEKI-PSSIKQLSNLLFLTL 320
++ P + + L L+ L L
Sbjct: 187 HVARVHPHAFRDLGRLMTLYL 207
>pdb|2R9U|A Chain A, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|B Chain B, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|C Chain C, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|D Chain D, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
Length = 174
Score = 28.9 bits (63), Expect = 7.9, Method: Composition-based stats.
Identities = 28/93 (30%), Positives = 48/93 (51%), Gaps = 7/93 (7%)
Query: 149 ISLKSLPTGINLDSLKVLYLGGCSNLKR---FLEISCNIENLDLSETAIEELPSSI-GNL 204
I L S+P GI D + L+L K + N++ L + + +P+ + L
Sbjct: 22 IRLASVPAGIPTDKQR-LWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTAIPTGVFDKL 80
Query: 205 SRLVRLDLTNCSRLKSV-SNSLCNLKSLQYLFL 236
++L +LDL N + LKS+ + NLKSL +++L
Sbjct: 81 TQLTQLDL-NDNHLKSIPRGAFDNLKSLTHIYL 112
>pdb|3UVV|A Chain A, Crystal Structure Of The Ligand Binding Domains Of The
Thyroid Receptor:retinoid X Receptor Complexed With
3,3',5 Triiodo-L- Thyronine And 9-Cis Retinoic Acid
Length = 265
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 25/58 (43%)
Query: 282 LPESLGRSPSLKFLNLAENDFEKIPSSIKQLSNLLFLTLQNCKRLQSLPELPCGSNIF 339
LPE +G+SP + + D E K ++ + + K+L ELPC I
Sbjct: 47 LPEDIGQSPMASMPDGDKVDLEAFSEFTKIITPAITRVVDFAKKLPMFSELPCEDQII 104
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 28.9 bits (63), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 27/113 (23%), Positives = 48/113 (42%), Gaps = 31/113 (27%)
Query: 291 SLKFLNLAENDFEKIPSSI-KQLSNLLFLTLQNCKRLQSLPELPCGSNIFARYCXXXXXX 349
SL +LNL+ N + +P+ + +L+ L L L N +LQSLP+ +F +
Sbjct: 77 SLTYLNLSTNQLQSLPNGVFDKLTQLKELAL-NTNQLQSLPD-----GVFDK-------- 122
Query: 350 XXXXXXXXRSSELWQAFDFCNCFKLNRNEIGEIVDGALKKIQVMATWWKQQDP 402
L Q D +L +N++ + DG ++ + W +P
Sbjct: 123 ------------LTQLKD----LRLYQNQLKSVPDGVFDRLTSLQYIWLHDNP 159
>pdb|3V96|B Chain B, Complex Of Matrix Metalloproteinase-10 Catalytic Domain
(Mmp-10cd) With Tissue Inhibitor Of Metalloproteinases-1
(Timp-1)
Length = 165
Score = 28.9 bits (63), Expect = 9.4, Method: Composition-based stats.
Identities = 17/71 (23%), Positives = 31/71 (43%), Gaps = 7/71 (9%)
Query: 374 LNRNEIGEIVDGALKKIQVMATWWKQQDPVTLYEDYHNPPRGCVSYPGSEIPEWFSYQSM 433
L R+ + ++ ALK W++ P+T Y +S+ E +++S+
Sbjct: 26 LPRDAVDSAIEKALKV-------WEEVTPLTFSRLYEGEADIMISFAVKEHGDFYSFDGP 78
Query: 434 GSSVTLELPPG 444
G S+ PPG
Sbjct: 79 GHSLAHAYPPG 89
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.138 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,262,521
Number of Sequences: 62578
Number of extensions: 629308
Number of successful extensions: 1260
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 38
Number of HSP's that attempted gapping in prelim test: 1208
Number of HSP's gapped (non-prelim): 71
length of query: 583
length of database: 14,973,337
effective HSP length: 104
effective length of query: 479
effective length of database: 8,465,225
effective search space: 4054842775
effective search space used: 4054842775
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: 54 (25.4 bits)