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= 011233
(490 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 = 57.0 bits (136), Expect = 3e-08, Method: Compositional matrix adjust.
Identities = 51/173 (29%), Positives = 80/173 (46%), Gaps = 10/173 (5%)
Query: 174 IKELPSSIECLSKLDRLSIQDCTRLENISSSIFKLKSLQYIEIKRCSNLKSLE------- 226
++ LP+SI L++L LSI+ C L + + + E + NL+SL
Sbjct: 139 LRALPASIASLNRLRELSIRACPELTELPEPLASTDA--SGEHQGLVNLQSLRLEWTGIR 196
Query: 227 SLPNNLCMFKSLASLEIINCPKLERLPDELGNSKALEELRVEGAAIRERLPESLGQLALL 286
SLP ++ ++L SL+I N P L L + + LEEL + G P G A L
Sbjct: 197 SLPASIANLQNLKSLKIRNSP-LSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPL 255
Query: 287 CELKMIKCSSFESLPSSLCMLKYLTSLAIIDCKNFKRLPNELGNLKCLVVLIV 339
L + CS+ +LP + L L L + C N RLP+ + L +++V
Sbjct: 256 KRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCIILV 308
Score = 45.4 bits (106), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 39/127 (30%), Positives = 60/127 (47%), Gaps = 6/127 (4%)
Query: 38 PLETLNINGE-----NLVSLKMPGRKVKQLWNDVRNLVNLKYIDLSHSESLTKLPDLSLA 92
PL + + +GE NL SL++ ++ L + NL NLK + + +S P +
Sbjct: 169 PLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHL 228
Query: 93 RNLEILDLGSCSSLTETHSSIQYLNKLEVLDLRHCESLGSLPTSIHS-KYIEELDFVGCS 151
LE LDL C++L L+ L L+ C +L +LP IH +E+LD GC
Sbjct: 229 PKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCV 288
Query: 152 KLKNHPA 158
L P+
Sbjct: 289 NLSRLPS 295
Score = 44.7 bits (104), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 52/218 (23%), Positives = 84/218 (38%), Gaps = 39/218 (17%)
Query: 172 VGIKELPSSIECLSKLDRLSIQDCTRLENISSSIFKLKSLQYIEIKRCSNLKSLESLPNN 231
V + + P LS L +I D L + + + L+ + + R L +LP +
Sbjct: 91 VPLPQFPDQAFRLSHLQHXTI-DAAGLXELPDTXQQFAGLETLTLAR----NPLRALPAS 145
Query: 232 LCMFKSLASLEIINCPKLERLPDELGNSKA---------LEELRVEGAAIRERLPESLG- 281
+ L L I CP+L LP+ L ++ A L+ LR+E IR LP S+
Sbjct: 146 IASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRS-LPASIAN 204
Query: 282 ----------------------QLALLCELKMIKCSSFESLPSSLCMLKYLTSLAIIDCK 319
L L EL + C++ + P L L + DC
Sbjct: 205 LQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCS 264
Query: 320 NFKRLPNELGNLKCLVVLIVKG-TAIREVPESLGQLSS 356
N LP ++ L L L ++G + +P + QL +
Sbjct: 265 NLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPA 302
Score = 43.5 bits (101), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 35/119 (29%), Positives = 57/119 (47%), Gaps = 23/119 (19%)
Query: 111 SSIQYLNKLEVLDLRHCESLGSLPTSIHS-KYIEELDFVGCSKLKNHPAXXXXXXXXXXX 169
+SI L L+ L +R+ L +L +IH +EELD GC+ L+N+P
Sbjct: 200 ASIANLQNLKSLKIRNS-PLSALGPAIHHLPKLEELDLRGCTALRNYPPI---------- 248
Query: 170 XKVGIKELPSSIECLSKLDRLSIQDCTRLENISSSIFKLKSLQYIEIKRCSNLKSLESL 228
G + + L RL ++DC+ L + I +L L+ ++++ C NL L SL
Sbjct: 249 --FGGR---------APLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSL 296
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 33/94 (35%), Positives = 47/94 (50%), Gaps = 1/94 (1%)
Query: 45 NGENLVSLKMPGRKVKQLWNDVRNLVNLKYIDLSHSESLTKLPDLSLARN-LEILDLGSC 103
N +NL SLK+ + L + +L L+ +DL +L P + R L+ L L C
Sbjct: 204 NLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDC 263
Query: 104 SSLTETHSSIQYLNKLEVLDLRHCESLGSLPTSI 137
S+L I L +LE LDLR C +L LP+ I
Sbjct: 264 SNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLI 297
Score = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 45/169 (26%), Positives = 69/169 (40%), Gaps = 15/169 (8%)
Query: 244 INCPKLERLPDELGNSKALEELRVEGAAIRERLPESLGQLALLCELKMIKCSSFESLPSS 303
I+ L LPD LE L + +R LP S+ L L EL + C LP
Sbjct: 111 IDAAGLXELPDTXQQFAGLETLTLARNPLRA-LPASIASLNRLRELSIRACPELTELPEP 169
Query: 304 LCM---------LKYLTSLAIIDCKNFKRLPNELGNLKCLVVLIVKGTAIREVPESLGQL 354
L L L SL + + + LP + NL+ L L ++ + + + ++ L
Sbjct: 170 LASTDASGEHQGLVNLQSLRL-EWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHL 228
Query: 355 SSIVRLDLSN-NNLERTPASLYQLSSIKYLKLFDNNFKHRLLTLSVDLN 402
+ LDL L P + +K L L D + LLTL +D++
Sbjct: 229 PKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCS---NLLTLPLDIH 274
Score = 29.3 bits (64), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 15/65 (23%), Positives = 31/65 (47%)
Query: 321 FKRLPNELGNLKCLVVLIVKGTAIREVPESLGQLSSIVRLDLSNNNLERTPASLYQLSSI 380
+ P++ L L + + E+P++ Q + + L L+ N L PAS+ L+ +
Sbjct: 93 LPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRALPASIASLNRL 152
Query: 381 KYLKL 385
+ L +
Sbjct: 153 RELSI 157
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 91/372 (24%), Positives = 152/372 (40%), Gaps = 54/372 (14%)
Query: 65 DVRNLVNLKYIDLSHSESLTKLPDLSLARNLEILDLGSCSSLTETHSSIQYLNKLEVLDL 124
DV VNL+++D+S + T +P L L+ LD+ + +I +L++L++
Sbjct: 192 DVSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNI 251
Query: 125 RHCESLGSLP----------TSIHSKYIEEL-DFV--GCSKLK------NH-----PAXX 160
+ +G +P + +K+ E+ DF+ C L NH P
Sbjct: 252 SSNQFVGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFF 311
Query: 161 XXXXXXXXXXKVG---IKELPSSIECLSKLDRLSIQDCT----------RLENISSSIFK 207
ELP ++ L K+ L + D + L N+S+S+
Sbjct: 312 GSCSLLESLALSSNNFSGELP--MDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLT 369
Query: 208 LKSLQYIEIKRCSNLKSLESLPNNLCMF--KSLASLEIINCPKLERLPDELGNSKALEEL 265
L SN S LPN LC +L L + N ++P L N L L
Sbjct: 370 LD--------LSSNNFSGPILPN-LCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSL 420
Query: 266 RVEGAAIRERLPESLGQLALLCELKMIKCSSFESLPSSLCMLKYLTSLAIIDCKNFK-RL 324
+ + +P SLG L+ L +LK+ +P L +K L +L I+D + +
Sbjct: 421 HLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETL-ILDFNDLTGEI 479
Query: 325 PNELGNLKCLVVLIVKGTAIR-EVPESLGQLSSIVRLDLSNNNLE-RTPASLYQLSSIKY 382
P+ L N L + + + E+P+ +G+L ++ L LSNN+ PA L S+ +
Sbjct: 480 PSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIW 539
Query: 383 LKLFDNNFKHRL 394
L L N F +
Sbjct: 540 LDLNTNLFNGTI 551
Score = 37.4 bits (85), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 44/90 (48%), Gaps = 1/90 (1%)
Query: 300 LPSSLCMLKYLTSLAIIDCKNFKRLPNELGNLKCLVVLIVKGTAIR-EVPESLGQLSSIV 358
+P + + YL L + +P+E+G+L+ L +L + + +P+++ L+ +
Sbjct: 645 IPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLT 704
Query: 359 RLDLSNNNLERTPASLYQLSSIKYLKLFDN 388
+DLSNNNL + Q + K +N
Sbjct: 705 EIDLSNNNLSGPIPEMGQFETFPPAKFLNN 734
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 11/40 (27%), Positives = 24/40 (60%)
Query: 252 LPDELGNSKALEELRVEGAAIRERLPESLGQLALLCELKM 291
+PDE+G+ + L L + + R+P+++ L +L E+ +
Sbjct: 669 IPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDL 708
>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 = 40.0 bits (92), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 91/372 (24%), Positives = 152/372 (40%), Gaps = 54/372 (14%)
Query: 65 DVRNLVNLKYIDLSHSESLTKLPDLSLARNLEILDLGSCSSLTETHSSIQYLNKLEVLDL 124
DV VNL+++D+S + T +P L L+ LD+ + +I +L++L++
Sbjct: 195 DVSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNI 254
Query: 125 RHCESLGSLP----------TSIHSKYIEEL-DFV--GCSKLK------NH-----PAXX 160
+ +G +P + +K+ E+ DF+ C L NH P
Sbjct: 255 SSNQFVGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFF 314
Query: 161 XXXXXXXXXXKVG---IKELPSSIECLSKLDRLSIQDCT----------RLENISSSIFK 207
ELP ++ L K+ L + D + L N+S+S+
Sbjct: 315 GSCSLLESLALSSNNFSGELP--MDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLT 372
Query: 208 LKSLQYIEIKRCSNLKSLESLPNNLCMF--KSLASLEIINCPKLERLPDELGNSKALEEL 265
L SN S LPN LC +L L + N ++P L N L L
Sbjct: 373 LD--------LSSNNFSGPILPN-LCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSL 423
Query: 266 RVEGAAIRERLPESLGQLALLCELKMIKCSSFESLPSSLCMLKYLTSLAIIDCKNFK-RL 324
+ + +P SLG L+ L +LK+ +P L +K L +L I+D + +
Sbjct: 424 HLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETL-ILDFNDLTGEI 482
Query: 325 PNELGNLKCLVVLIVKGTAIR-EVPESLGQLSSIVRLDLSNNNLE-RTPASLYQLSSIKY 382
P+ L N L + + + E+P+ +G+L ++ L LSNN+ PA L S+ +
Sbjct: 483 PSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIW 542
Query: 383 LKLFDNNFKHRL 394
L L N F +
Sbjct: 543 LDLNTNLFNGTI 554
Score = 37.0 bits (84), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 44/90 (48%), Gaps = 1/90 (1%)
Query: 300 LPSSLCMLKYLTSLAIIDCKNFKRLPNELGNLKCLVVLIVKGTAIR-EVPESLGQLSSIV 358
+P + + YL L + +P+E+G+L+ L +L + + +P+++ L+ +
Sbjct: 648 IPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLT 707
Query: 359 RLDLSNNNLERTPASLYQLSSIKYLKLFDN 388
+DLSNNNL + Q + K +N
Sbjct: 708 EIDLSNNNLSGPIPEMGQFETFPPAKFLNN 737
Score = 29.6 bits (65), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 11/40 (27%), Positives = 24/40 (60%)
Query: 252 LPDELGNSKALEELRVEGAAIRERLPESLGQLALLCELKM 291
+PDE+G+ + L L + + R+P+++ L +L E+ +
Sbjct: 672 IPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDL 711
>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 = 39.7 bits (91), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 30/55 (54%)
Query: 334 LVVLIVKGTAIREVPESLGQLSSIVRLDLSNNNLERTPASLYQLSSIKYLKLFDN 388
L L + G ++ E+P + LS++ LDLS+N L PA L +KY FDN
Sbjct: 249 LTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDN 303
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 37/81 (45%), Gaps = 19/81 (23%)
Query: 34 WHQFPLETLNI--------NGENLVSLKMPGRKVKQLWNDVRNLVNLKYIDLSHSESLTK 85
WH L L I + L L + G + +L +++NL NL+ +DLSH+ LT
Sbjct: 226 WHALDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNR-LTS 284
Query: 86 LPDLSLARNLEILDLGSCSSL 106
LP +LGSC L
Sbjct: 285 LP----------AELGSCFQL 295
>pdb|3A79|A Chain A, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
pdb|3A7B|A Chain A, Crystal Structure Of Tlr2-Streptococcus Pneumoniae
Lipoteichoic Acid Complex
pdb|3A7C|A Chain A, Crystal Structure Of Tlr2-Pe-Dtpa Complex
Length = 580
Score = 35.4 bits (80), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 42/135 (31%), Positives = 67/135 (49%), Gaps = 18/135 (13%)
Query: 281 GQLALLCELKMI---KCSSFESLPSSLCMLKYLTSLAIIDCKNFKRLPNELGNLKC---L 334
Q +L C+ + + SF S+PS L ++ +D K G+L+ L
Sbjct: 24 AQESLSCDASGVCDGRSRSFTSIPSGLT-----AAMKSLDLSFNKITYIGHGDLRACANL 78
Query: 335 VVLIVKGTAIREVP-ESLGQLSSIVRLDLSNNNLERTPASLY-QLSSIKYLKLFDNNFKH 392
VLI+K + I + ++ L S+ LDLS+N+L +S + LSS+KYL L N ++
Sbjct: 79 QVLILKSSRINTIEGDAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQ- 137
Query: 393 RLLTLSVDLNLVPNV 407
TL V +L PN+
Sbjct: 138 ---TLGVT-SLFPNL 148
>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 597
Score = 35.4 bits (80), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 44/86 (51%), Gaps = 8/86 (9%)
Query: 325 PNELGNLKCLVVLIVKGTAIREVPESL-GQLSSIVRLDLSNNNLERTPASLYQ-LSSIKY 382
P+ N+ L VL+++ + +P + + L +SNNNLER +Q +S++
Sbjct: 116 PHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQN 175
Query: 383 LKLFDNNFKHRLLTLSVDLNLVPNVL 408
L+L N H VDL+L+P++
Sbjct: 176 LQLSSNRLTH------VDLSLIPSLF 195
>pdb|2Z81|A Chain A, Crystal Structure Of The Tlr1-tlr2 Heterodimer Induced By
Binding Of A Tri-acylated Lipopeptide
pdb|2Z82|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 35.0 bits (79), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 39/120 (32%), Positives = 61/120 (50%), Gaps = 15/120 (12%)
Query: 293 KCSSFESLPSSLCMLKYLTSLAIIDCKNFKRLPNELGNLKC---LVVLIVKGTAIREVP- 348
+ SF S+PS L ++ +D K G+L+ L VLI+K + I +
Sbjct: 13 RSRSFTSIPSGLT-----AAMKSLDLSFNKITYIGHGDLRACANLQVLILKSSRINTIEG 67
Query: 349 ESLGQLSSIVRLDLSNNNLERTPASLY-QLSSIKYLKLFDNNFKHRLLTLSVDLNLVPNV 407
++ L S+ LDLS+N+L +S + LSS+KYL L N ++ TL V +L PN+
Sbjct: 68 DAFYSLGSLEHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQ----TLGVT-SLFPNL 122
>pdb|3O6N|A Chain A, Crystal Structure Of Apl1 Leucine-Rich Repeat Domain
Length = 390
Score = 35.0 bits (79), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 44/86 (51%), Gaps = 8/86 (9%)
Query: 325 PNELGNLKCLVVLIVKGTAIREVPESL-GQLSSIVRLDLSNNNLERTPASLYQ-LSSIKY 382
P+ N+ L VL+++ + +P + + L +SNNNLER +Q +S++
Sbjct: 110 PHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQN 169
Query: 383 LKLFDNNFKHRLLTLSVDLNLVPNVL 408
L+L N H VDL+L+P++
Sbjct: 170 LQLSSNRLTH------VDLSLIPSLF 189
>pdb|4ECN|A Chain A, Crystal Structure Of A Leucine-Rich Repeat Protein
(Bt_0210) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.80 A Resolution
Length = 876
Score = 33.9 bits (76), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 55/237 (23%), Positives = 91/237 (38%), Gaps = 40/237 (16%)
Query: 184 LSKLDRLSIQDC------TRLENISSSIFKLKSLQYI----------------EIKRCSN 221
+ K R+S++D R+ IS +I +L LQ I E
Sbjct: 417 IKKDSRISLKDTQIGNLTNRITFISKAIQRLTKLQIIYFANSPFTYDNIAVDWEDANSDY 476
Query: 222 LKSLESLPNNLCMFKSLASLEIINCPKLERLPDELGNSKALEELR------VEGAAIRE- 274
K E+ + K L +E+ NCP +LPD L + L+ L + A ++
Sbjct: 477 AKQYENEELSWSNLKDLTDVELYNCPNXTQLPDFLYDLPELQSLNIACNRGISAAQLKAD 536
Query: 275 --RLPESLGQLALLCELKMIKCSSFESLPSSLCMLKYLTSLAIIDCKNFK-RLPNELGNL 331
RL + ++ ++ E P+S + K + L ++DC + K R G
Sbjct: 537 WTRLADD-EDTGPKIQIFYXGYNNLEEFPASASLQKXV-KLGLLDCVHNKVRHLEAFGTN 594
Query: 332 KCLVVLIVKGTAIREVPESLGQLSSIVR-LDLSNNNLERTP-----ASLYQLSSIKY 382
L L + I E+PE + V L S+N L+ P S+Y S+ +
Sbjct: 595 VKLTDLKLDYNQIEEIPEDFCAFTDQVEGLGFSHNKLKYIPNIFNAKSVYVXGSVDF 651
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 33.5 bits (75), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 28/105 (26%), Positives = 57/105 (54%), Gaps = 5/105 (4%)
Query: 291 MIKCSSFESLPSSLC-MLKYLTSLAIIDCKNFKRLPNEL-GNLKCLVVLIVKGTAIREVP 348
++ + +SLP+ + L L L +++ + + LP+ + L L L + ++ +P
Sbjct: 91 ILTGNQLQSLPNGVFDKLTNLKELVLVENQ-LQSLPDGVFDKLTNLTYLYLYHNQLQSLP 149
Query: 349 ESL-GQLSSIVRLDLSNNNLERTPASLY-QLSSIKYLKLFDNNFK 391
+ + +L+++ RLDL NN L+ P ++ +L+ +K L L DN K
Sbjct: 150 KGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQLSLNDNQLK 194
>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 = 33.1 bits (74), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 3/66 (4%)
Query: 328 LGNLKCLVVLIVKGTAIRE--VPESLGQLSSIVRLDLSNNNLER-TPASLYQLSSIKYLK 384
L L VL + G + +E +P+ +L ++ LDLS LE+ +P + LSS++ L
Sbjct: 146 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLN 205
Query: 385 LFDNNF 390
+ NNF
Sbjct: 206 MSHNNF 211
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 32.7 bits (73), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 61/221 (27%), Positives = 100/221 (45%), Gaps = 45/221 (20%)
Query: 177 LPSSIECLSKLDRLSIQDCTRLENISSSIF-KLKSLQYIEIKRCSNLKSLESLPNNLCMF 235
+PS+I +K +L +Q +L ++ S F +L L+ + + N L++LP + F
Sbjct: 31 IPSNIPADTK--KLDLQ-SNKLSSLPSKAFHRLTKLRLLYL----NDNKLQTLPAGI--F 81
Query: 236 KSLASLEI--INCPKLERLP----DELGNSKALEELRVEGAAIRERLPESLGQLALLCEL 289
K L +LE + KL+ LP D+L N L ELR++ ++ P L L L
Sbjct: 82 KELKNLETLWVTDNKLQALPIGVFDQLVN---LAELRLDRNQLKSLPPRVFDSLTKLTYL 138
Query: 290 KMIKCSSFESLPSSLCMLKYLTSLAIIDCKNFKRLPNELGNLKCLVVLIVKGTAIREVPE 349
+ + +SLP + LTSL + RL N ++ VPE
Sbjct: 139 SL-GYNELQSLPKG--VFDKLTSLKEL------RLYN---------------NQLKRVPE 174
Query: 350 -SLGQLSSIVRLDLSNNNLERTPASLYQ-LSSIKYLKLFDN 388
+ +L+ + L L NN L+R P + L +K L+L +N
Sbjct: 175 GAFDKLTELKTLKLDNNQLKRVPEGAFDSLEKLKMLQLQEN 215
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 2/70 (2%)
Query: 325 PNELGNLKCLVVLIVKGTAIREVPESL-GQLSSIVRLDLSNNNLERTPASLY-QLSSIKY 382
P +L L L + ++ +P+ + +L+S+ L L NN L+R P + +L+ +K
Sbjct: 126 PRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKT 185
Query: 383 LKLFDNNFKH 392
LKL +N K
Sbjct: 186 LKLDNNQLKR 195
>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 = 0.45, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 3/66 (4%)
Query: 328 LGNLKCLVVLIVKGTAIRE--VPESLGQLSSIVRLDLSNNNLER-TPASLYQLSSIKYLK 384
L L VL + G + +E +P+ +L ++ LDLS LE+ +P + LSS++ L
Sbjct: 465 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLN 524
Query: 385 LFDNNF 390
+ NNF
Sbjct: 525 MSHNNF 530
>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 = 32.7 bits (73), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 24/65 (36%), Positives = 38/65 (58%), Gaps = 4/65 (6%)
Query: 66 VRNLVNLKYIDLSHSESLTKLPDLSLAR--NLEILDLGSCS-SLTETHSSIQYLNKLEVL 122
++NL +L+Y++LS++E L L D + LE+LD+ + HS Q L+ L VL
Sbjct: 371 LKNLRHLQYLNLSYNEPL-GLEDQAFKECPQLELLDVAFTHLHVKAPHSPFQNLHLLRVL 429
Query: 123 DLRHC 127
+L HC
Sbjct: 430 NLSHC 434
>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 = 32.7 bits (73), Expect = 0.50, Method: Compositional matrix adjust.
Identities = 22/66 (33%), Positives = 36/66 (54%), Gaps = 3/66 (4%)
Query: 328 LGNLKCLVVLIVKGTAIRE--VPESLGQLSSIVRLDLSNNNLER-TPASLYQLSSIKYLK 384
L L VL + G + +E +P+ +L ++ LDLS LE+ +P + LSS++ L
Sbjct: 441 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLN 500
Query: 385 LFDNNF 390
+ NNF
Sbjct: 501 MSHNNF 506
>pdb|3G3A|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
Length = 178
Score = 32.0 bits (71), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 41/92 (44%), Gaps = 4/92 (4%)
Query: 303 SLCMLKYLTSLAIIDC--KNFKRLPNELGNLKCLVVLIVKGTAIREVPESLGQLSSIVRL 360
S C + S +DC K+ +P + V+ + + P +L+ + RL
Sbjct: 9 SACPSQCSCSGTTVDCSGKSLASVPTGIPTTT-QVLYLYDNQITKLEPGVFDRLTQLTRL 67
Query: 361 DLSNNNLERTPASLY-QLSSIKYLKLFDNNFK 391
DL NN L PA ++ +L+ + L L DN K
Sbjct: 68 DLDNNQLTVLPAGVFDKLTQLTQLSLNDNQLK 99
>pdb|3G3B|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
Length = 170
Score = 31.6 bits (70), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 348 PESLGQLSSIVRLDLSNNNLERTPASLY-QLSSIKYLKLFDNNFK 391
P +L+ + RLDL NN L PA ++ +L+ + L L DN K
Sbjct: 47 PGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQLK 91
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 31.2 bits (69), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 25/45 (55%), Gaps = 1/45 (2%)
Query: 348 PESLGQLSSIVRLDLSNNNLERTPASLY-QLSSIKYLKLFDNNFK 391
P +L+ + RLDL NN L PA ++ +L+ + L L DN K
Sbjct: 47 PGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDNQLK 91
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 37/110 (33%), Positives = 53/110 (48%), Gaps = 15/110 (13%)
Query: 20 SLEGVPLTEVRYFEWHQFPLETLNINGENLVSLKMPGRKVKQLWNDVRNLVNLKYIDLSH 79
SL +P + F+W + LE LN+ ++ PG K N L+NLKY+ LS+
Sbjct: 313 SLASLPKIDDFSFQWLKC-LEHLNMEDNDI-----PGIKS----NMFTGLINLKYLSLSN 362
Query: 80 S----ESLTKLPDLSLARN-LEILDLGSCSSLTETHSSIQYLNKLEVLDL 124
S +LT +SLA + L IL+L + +L LEVLDL
Sbjct: 363 SFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDL 412
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%)
Query: 93 RNLEILDLGSCSSLTETHSSIQYLNKLEVLDLRH 126
RNL ILDL + + ++ L KLE+LDL+H
Sbjct: 480 RNLTILDLSNNNIANINDDMLEGLEKLEILDLQH 513
>pdb|3ULU|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 694
Score = 30.8 bits (68), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 37/110 (33%), Positives = 53/110 (48%), Gaps = 15/110 (13%)
Query: 20 SLEGVPLTEVRYFEWHQFPLETLNINGENLVSLKMPGRKVKQLWNDVRNLVNLKYIDLSH 79
SL +P + F+W + LE LN+ ++ PG K N L+NLKY+ LS+
Sbjct: 323 SLASLPKIDDFSFQWLKC-LEHLNMEDNDI-----PGIKS----NMFTGLINLKYLSLSN 372
Query: 80 S----ESLTKLPDLSLARN-LEILDLGSCSSLTETHSSIQYLNKLEVLDL 124
S +LT +SLA + L IL+L + +L LEVLDL
Sbjct: 373 SFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDL 422
Score = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%)
Query: 93 RNLEILDLGSCSSLTETHSSIQYLNKLEVLDLRH 126
RNL ILDL + + ++ L KLE+LDL+H
Sbjct: 490 RNLTILDLSNNNIANINDDMLEGLEKLEILDLQH 523
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 37/110 (33%), Positives = 53/110 (48%), Gaps = 15/110 (13%)
Query: 20 SLEGVPLTEVRYFEWHQFPLETLNINGENLVSLKMPGRKVKQLWNDVRNLVNLKYIDLSH 79
SL +P + F+W + LE LN+ ++ PG K N L+NLKY+ LS+
Sbjct: 318 SLASLPKIDDFSFQWLKC-LEHLNMEDNDI-----PGIKS----NMFTGLINLKYLSLSN 367
Query: 80 S----ESLTKLPDLSLARN-LEILDLGSCSSLTETHSSIQYLNKLEVLDL 124
S +LT +SLA + L IL+L + +L LEVLDL
Sbjct: 368 SFTSLRTLTNETFVSLAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDL 417
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 21/34 (61%)
Query: 93 RNLEILDLGSCSSLTETHSSIQYLNKLEVLDLRH 126
RNL ILDL + + ++ L KLE+LDL+H
Sbjct: 485 RNLTILDLSNNNIANINDDMLEGLEKLEILDLQH 518
>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 = 30.0 bits (66), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 30/133 (22%), Positives = 62/133 (46%), Gaps = 10/133 (7%)
Query: 260 KALEELRVEGAAIRERLPESLGQLALLCELKM----IKCSSFESLPSSLCMLKYLTSLAI 315
K L E+ VE ++E + C ++ + + + LPS + L L L +
Sbjct: 246 KGLCEMSVESLNLQEHRFSDISSTTFQCFTQLQELDLTATHLKGLPSGMKGLNLLKKL-V 304
Query: 316 IDCKNFKRLPN-ELGNLKCLVVLIVKGTAIREVPESLG---QLSSIVRLDLSNNNLERTP 371
+ +F +L N L L ++G ++++ +G +L ++ LDLS+N++E +
Sbjct: 305 LSVNHFDQLCQISAANFPSLTHLYIRGN-VKKLHLGVGCLEKLGNLQTLDLSHNDIEASD 363
Query: 372 ASLYQLSSIKYLK 384
QL ++ +L+
Sbjct: 364 CCSLQLKNLSHLQ 376
>pdb|3CIG|A Chain A, Crystal Structure Of Mouse Tlr3 Ectodomain
pdb|3CIY|A Chain A, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
pdb|3CIY|B Chain B, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
Length = 697
Score = 29.3 bits (64), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 22/59 (37%), Positives = 30/59 (50%), Gaps = 6/59 (10%)
Query: 350 SLGQLSSIVRLDLSNNNLER-TPASLYQLSSIKYLKLFDNNFKHRLLTLSVDLNLVPNV 407
S L S+ L L NN++R +P S Y LS+++YL L K SV L PN+
Sbjct: 267 SFSYLPSLRYLSLEYNNIQRLSPRSFYGLSNLRYLSL-----KRAFTKQSVSLASHPNI 320
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 28.9 bits (63), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 48/169 (28%), Positives = 75/169 (44%), Gaps = 24/169 (14%)
Query: 229 PNNLCMFKSLASLEIINCPK--LERLPDELGNSKA---LEELRVEGAAIRERLPES-LGQ 282
P+ +C +AS +NC K L LP +L L E + ++ +P + L Q
Sbjct: 1 PHPICEVSKVASHLEVNCDKRNLTALPPDLPKDTTILHLSENLLYTFSLATLMPYTRLTQ 60
Query: 283 LAL-LCELKMIKCS-----------SFESLPSSLCMLKYLTSLAIIDCKNFKRLPN-ELG 329
L L CEL ++ S L S + + L +L ++D +F RL + LG
Sbjct: 61 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDV-SFNRLTSLPLG 119
Query: 330 NLKCL---VVLIVKGTAIREVPESL-GQLSSIVRLDLSNNNLERTPASL 374
L+ L L +KG ++ +P L + +L L+NNNL PA L
Sbjct: 120 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGL 168
>pdb|3G06|A Chain A, The Salmonella Virulence Effector Ssph2 Functions As A
Novel E3 Ligase
Length = 622
Score = 28.9 bits (63), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 48/120 (40%), Gaps = 13/120 (10%)
Query: 293 KCSSFESLPSSLCMLKYLTSLAIIDCKNFKRLPNELGNLKCLVVLIVKGTAIREVPESLG 352
+ +S +LPS L L I+ LP LK L+V + T++ +P
Sbjct: 212 RLTSLPALPSGLKEL-------IVSGNRLTSLPVLPSELKELMVSGNRLTSLPMLP---- 260
Query: 353 QLSSIVRLDLSNNNLERTPASLYQLSSIKYLKLFDNNFKHRLLTLSVDLNLVPNVLSEII 412
S ++ L + N L R P SL LSS + L N R L ++ P II
Sbjct: 261 --SGLLSLSVYRNQLTRLPESLIHLSSETTVNLEGNPLSERTLQALREITSAPGYSGPII 318
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 0.397
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 13,224,466
Number of Sequences: 62578
Number of extensions: 503476
Number of successful extensions: 1109
Number of sequences better than 100.0: 63
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 49
Number of HSP's that attempted gapping in prelim test: 983
Number of HSP's gapped (non-prelim): 141
length of query: 490
length of database: 14,973,337
effective HSP length: 103
effective length of query: 387
effective length of database: 8,527,803
effective search space: 3300259761
effective search space used: 3300259761
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: 53 (25.0 bits)