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= 003683
(803 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 = 65.1 bits (157), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 54/200 (27%), Positives = 88/200 (44%), Gaps = 14/200 (7%)
Query: 269 LKLRKFPHVVGSMECLQELLLDGTDIKELPLSIEHLFGLVQLTLNDCKN-LSSLPVAISS 327
+ L +FP + LQ +D + ELP + + GL LTL +N L +LP +I+S
Sbjct: 91 VPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTL--ARNPLRALPASIAS 148
Query: 328 FQCLRNLKLSGCSKLKKFPQIVTTME---------DLSELNLDGTSITEVPSSIXXXXXX 378
LR L + C +L + P+ + + + +L L L+ T I +P+SI
Sbjct: 149 LNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNL 208
Query: 379 XXXXXXDCKNFARVPSSINGLKSLKTLNLSGCCKLENVPDTLGQVESLEELDISE-TAVR 437
+ A P +I+ L L+ L+L GC L N P G L+ L + + + +
Sbjct: 209 KSLKIRNSPLSALGP-AIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLL 267
Query: 438 RPPSSVFLMKNLRTLSFSGC 457
P + + L L GC
Sbjct: 268 TLPLDIHRLTQLEKLDLRGC 287
Score = 61.2 bits (147), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 61/230 (26%), Positives = 94/230 (40%), Gaps = 38/230 (16%)
Query: 208 KVMKLSHSENL-IKTPDFTEAPNLEELY--LEGCTKLRKVHPSLLLHNKLIFVESLKILI 264
+ +LSH ++ I E P+ + + LE T R +P L + + L+ L
Sbjct: 99 QAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLAR--NPLRALPASIASLNRLRELS 156
Query: 265 LSGCLKLRKFPHVVGSMEC---------LQELLLDGTDIKELPLSIEHLFGLVQLTLNDC 315
+ C +L + P + S + LQ L L+ T I+ LP SI +L L L + +
Sbjct: 157 IRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNS 216
Query: 316 KNLSSLPVAISSFQCLRNLKLSGCSKLKKFPQIVTTMEDLSELNLDGTSITEVPSSIXXX 375
LS+L AI L L L GC+ L+ +P I L L L
Sbjct: 217 P-LSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILK-------------- 261
Query: 376 XXXXXXXXXDCKNFARVPSSINGLKSLKTLNLSGCCKLENVPDTLGQVES 425
DC N +P I+ L L+ L+L GC L +P + Q+ +
Sbjct: 262 ---------DCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPA 302
Score = 58.2 bits (139), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 59/241 (24%), Positives = 98/241 (40%), Gaps = 41/241 (17%)
Query: 342 LKKFPQIVTTMEDLSELNLDGTSITEVPSSIXXXXXXXXXXXXDCKNFAR-VPSSINGLK 400
L +FP + L +D + E+P + +N R +P+SI L
Sbjct: 93 LPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTL--ARNPLRALPASIASLN 150
Query: 401 SLKTLNLSGCCKLENVPDTLGQVES---------LEELDISETAVRRPPSSVFLMKNLRT 451
L+ L++ C +L +P+ L ++ L+ L + T +R P+S+ ++NL++
Sbjct: 151 RLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIRSLPASIANLQNLKS 210
Query: 452 LSFSGCNGPPSSASWHLHLPFNLMGKSSCLVALMLPSLSGLRSLTKLDLSDCGLGEGAIP 511
L P + +G P++ L L +LDL C P
Sbjct: 211 LKIRNS-------------PLSALG----------PAIHHLPKLEELDLRGCTALRN-YP 246
Query: 512 SDIGNLHSLNELYLSK-NNFVTLPASINSLLNLKELEMEDCKRLQFLP----QLPPNIIF 566
G L L L +N +TLP I+ L L++L++ C L LP QLP N I
Sbjct: 247 PIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQLPANCII 306
Query: 567 V 567
+
Sbjct: 307 L 307
Score = 48.5 bits (114), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 41/143 (28%), Positives = 58/143 (40%), Gaps = 31/143 (21%)
Query: 187 FKMCYSRIEELWKGIKHLNMLKVMKLSHSENLIKTPDFTEAPNLEELYLEGCTKLRKVHP 246
++ ++ I L I +L LK +K+ +S P P LEEL L GCT
Sbjct: 188 LRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCT------- 240
Query: 247 SLLLHNKLIFVESLKILILSGCLKLRKFPHVVGSMECLQELLL-DGTDIKELPLSIEHLF 305
LR +P + G L+ L+L D +++ LPL I L
Sbjct: 241 -----------------------ALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLT 277
Query: 306 GLVQLTLNDCKNLSSLPVAISSF 328
L +L L C NLS LP I+
Sbjct: 278 QLEKLDLRGCVNLSRLPSLIAQL 300
Score = 45.4 bits (106), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 50/180 (27%), Positives = 80/180 (44%), Gaps = 25/180 (13%)
Query: 404 TLNLSGCCKLENVPDTLGQVESLEELDISETAVRRPPSSVFLMKNLRTLSFSGCNGPPSS 463
T++ +G L +PDT Q LE L ++ +R P+S+ + LR LS C P
Sbjct: 110 TIDAAG---LXELPDTXQQFAGLETLTLARNPLRALPASIASLNRLRELSIRAC---PEL 163
Query: 464 ASWHLHLPFNLMGKSSCLVALMLPSLSGLRSLTKLDLSDCGLGEGAIPSDIGNLHSLNEL 523
LP L + GL +L L L G+ ++P+ I NL +L L
Sbjct: 164 TE----LPEPLASTDASG------EHQGLVNLQSLRLEWTGI--RSLPASIANLQNLKSL 211
Query: 524 YLSKNNFVTLPASINSLLNLKELEMEDCKRLQFLPQL-----PPNIIFVKVNGCSSLVTL 578
+ + L +I+ L L+EL++ C L+ P + P + +K CS+L+TL
Sbjct: 212 KIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILK--DCSNLLTL 269
>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 = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 53/150 (35%), Positives = 71/150 (47%), Gaps = 25/150 (16%)
Query: 398 GLKSLKTLNLSGCCKLENVPDTLGQVESLEELDISETAVRRPPS-SVFL-MKNLRTLSFS 455
G SLK L+LS + + LG +E LE LD + +++ SVFL ++NL L S
Sbjct: 371 GTTSLKYLDLSFNGVITMSSNFLG-LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 429
Query: 456 GCNGPPSSASWHLHLPFN--LMGKSSCLVALM---------LPSL-SGLRSLTKLDLSDC 503
H + FN G SS V M LP + + LR+LT LDLS C
Sbjct: 430 HT---------HTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC 480
Query: 504 GLGEGAIPSDIGNLHSLNELYLSKNNFVTL 533
L E P+ +L SL L +S NNF +L
Sbjct: 481 QL-EQLSPTAFNSLSSLQVLNMSHNNFFSL 509
>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 = 39.7 bits (91), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 53/150 (35%), Positives = 71/150 (47%), Gaps = 25/150 (16%)
Query: 398 GLKSLKTLNLSGCCKLENVPDTLGQVESLEELDISETAVRRPPS-SVFL-MKNLRTLSFS 455
G SLK L+LS + + LG +E LE LD + +++ SVFL ++NL L S
Sbjct: 395 GTISLKYLDLSFNGVITMSSNFLG-LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 453
Query: 456 GCNGPPSSASWHLHLPFN--LMGKSSCLVALM---------LPSL-SGLRSLTKLDLSDC 503
H + FN G SS V M LP + + LR+LT LDLS C
Sbjct: 454 HT---------HTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC 504
Query: 504 GLGEGAIPSDIGNLHSLNELYLSKNNFVTL 533
L E P+ +L SL L +S NNF +L
Sbjct: 505 QL-EQLSPTAFNSLSSLQVLNMSHNNFFSL 533
>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 = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 53/150 (35%), Positives = 71/150 (47%), Gaps = 25/150 (16%)
Query: 398 GLKSLKTLNLSGCCKLENVPDTLGQVESLEELDISETAVRRPPS-SVFL-MKNLRTLSFS 455
G SLK L+LS + + LG +E LE LD + +++ SVFL ++NL L S
Sbjct: 76 GTTSLKYLDLSFNGVITMSSNFLG-LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 134
Query: 456 GCNGPPSSASWHLHLPFN--LMGKSSCLVALM---------LPSL-SGLRSLTKLDLSDC 503
H + FN G SS V M LP + + LR+LT LDLS C
Sbjct: 135 ---------HTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC 185
Query: 504 GLGEGAIPSDIGNLHSLNELYLSKNNFVTL 533
L E P+ +L SL L +S NNF +L
Sbjct: 186 QL-EQLSPTAFNSLSSLQVLNMSHNNFFSL 214
>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 = 37.7 bits (86), Expect = 0.027, Method: Compositional matrix adjust.
Identities = 42/151 (27%), Positives = 65/151 (43%), Gaps = 12/151 (7%)
Query: 294 IKELPLSIEHLFGLVQLTLNDCKNLSSL-----------PVAISSFQCLRNLKLSGCSKL 342
++EL L G + TL++C L SL P ++ S LR+LKL
Sbjct: 393 LQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLE 452
Query: 343 KKFPQIVTTMEDLSELNLDGTSIT-EVPSSIXXXXXXXXXXXXDCKNFARVPSSINGLKS 401
+ PQ + ++ L L LD +T E+PS + + + +P I L++
Sbjct: 453 GEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLEN 512
Query: 402 LKTLNLSGCCKLENVPDTLGQVESLEELDIS 432
L L LS N+P LG SL LD++
Sbjct: 513 LAILKLSNNSFSGNIPAELGDCRSLIWLDLN 543
Score = 29.3 bits (64), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 32/55 (58%), Gaps = 1/55 (1%)
Query: 507 EGAIPSDIGNLHSLNELYLSKNNF-VTLPASINSLLNLKELEMEDCKRLQFLPQL 560
G+IP ++G+L LN L LS N +P ++++L L E+++ + +P++
Sbjct: 666 SGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEM 720
>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 = 37.4 bits (85), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 42/151 (27%), Positives = 65/151 (43%), Gaps = 12/151 (7%)
Query: 294 IKELPLSIEHLFGLVQLTLNDCKNLSSL-----------PVAISSFQCLRNLKLSGCSKL 342
++EL L G + TL++C L SL P ++ S LR+LKL
Sbjct: 396 LQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLE 455
Query: 343 KKFPQIVTTMEDLSELNLDGTSIT-EVPSSIXXXXXXXXXXXXDCKNFARVPSSINGLKS 401
+ PQ + ++ L L LD +T E+PS + + + +P I L++
Sbjct: 456 GEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLEN 515
Query: 402 LKTLNLSGCCKLENVPDTLGQVESLEELDIS 432
L L LS N+P LG SL LD++
Sbjct: 516 LAILKLSNNSFSGNIPAELGDCRSLIWLDLN 546
Score = 29.3 bits (64), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 32/55 (58%), Gaps = 1/55 (1%)
Query: 507 EGAIPSDIGNLHSLNELYLSKNNF-VTLPASINSLLNLKELEMEDCKRLQFLPQL 560
G+IP ++G+L LN L LS N +P ++++L L E+++ + +P++
Sbjct: 669 SGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEM 723
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 36.6 bits (83), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 56/183 (30%), Positives = 85/183 (46%), Gaps = 32/183 (17%)
Query: 398 GLKSLKTLNLSGCCKLENVPDTLGQVESLEELDISETAVRRPPS-SVFL-MKNLRTLSFS 455
G SLK L+LS + + LG +E LE LD + +++ SVFL ++NL L S
Sbjct: 371 GTTSLKYLDLSFNGVITMSSNFLG-LEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 429
Query: 456 GCNGPPSSASWHLHLPFN--LMGKSSCLVALM---------LPSL-SGLRSLTKLDLSDC 503
H + FN G SS V M LP + + LR+LT LDLS C
Sbjct: 430 HT---------HTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC 480
Query: 504 GLGEGAIPSDIGNLHSLNELYLSKNNFVTLPASI-NSLLNLKELEME------DCKRLQF 556
L E P+ +L SL L ++ N ++P I + L +L+++ + C R+ +
Sbjct: 481 QL-EQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDY 539
Query: 557 LPQ 559
L +
Sbjct: 540 LSR 542
>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 = 34.7 bits (78), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 72/306 (23%), Positives = 124/306 (40%), Gaps = 31/306 (10%)
Query: 152 LEGLEYLSNKLRLLDWHRYPLKSLPSNLQLDKIVEFKMCYSRIEELWKGIKHLNMLKVMK 211
EGL +S + L HR+ S + ++ E + + + L GI+ +N LK +
Sbjct: 247 FEGLCDMSVESINLQKHRFSDLSSSTFRCFTRVQELDLTAAHLNGLPSGIEGMNSLKKLV 306
Query: 212 L-SHSENLIKTPDFTEAPNLEELYLEGCTKLRKVHPSLLLHNKLIFVESLKILILSGCLK 270
L ++S + + + P+L +LY++G +RK+ KL E+L+ L LS
Sbjct: 307 LNANSFDQLCQINAASFPSLRDLYIKG--NMRKLDLGTRCLEKL---ENLQKLDLSHS-- 359
Query: 271 LRKFPHVVGSMECLQELLLDGTDIKELPLSIEHLFGLVQLTLNDCKNLSSLPVAI----- 325
+ + +C L + ++ L LS GL +C L L VA
Sbjct: 360 ------DIEASDCCNLQLKNLRHLQYLNLSYNEPLGLEDQAFKECPQLELLDVAFTHLHV 413
Query: 326 ----SSFQ---CLRNLKLSGCSKLKKFPQIVTTMEDLSELNLDGTSITEVPSS----IXX 374
S FQ LR L LS C ++ ++DL LNL G S + S +
Sbjct: 414 KAPHSPFQNLHLLRVLNLSHCLLDTSNQHLLAGLQDLRHLNLQGNSFQDGSISKTNLLQM 473
Query: 375 XXXXXXXXXXDCKNFARVPSSINGLKSLKTLNLSGCCKLENVPDTLGQVESLEELDISET 434
C + + +GL+++ L+LS + D L ++ L L+++
Sbjct: 474 VGSLEILILSSCNLLSIDQQAFHGLRNVNHLDLSHNSLTGDSMDALSHLKGL-YLNMASN 532
Query: 435 AVRRPP 440
+R P
Sbjct: 533 NIRIIP 538
>pdb|3IM9|A Chain A, Crystal Structure Of Mcat From Staphylococcus Aureus
Length = 316
Score = 33.1 bits (74), Expect = 0.69, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 39/87 (44%), Gaps = 17/87 (19%)
Query: 212 LSHSENLIKT-----PDFTEAPNLEELYLEGCTKLRKVHPSLLLHNKLIFVESLKILILS 266
L+HS L+ PDFT +L E + SL+ + L F +++KI+
Sbjct: 75 LTHSSALLAALKNLNPDFTMGHSLGE------------YSSLVAADVLSFEDAVKIVRKR 122
Query: 267 GCLKLRKFPHVVGSMECLQELLLDGTD 293
G L + FP VGSM + L D D
Sbjct: 123 GQLMAQAFPTGVGSMAAVLGLDFDKVD 149
>pdb|2P1M|B Chain B, Tir1-ask1 Complex Structure
pdb|2P1N|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1N|E Chain E, Mechanism Of Auxin Perception By The Tir1 Ubiqutin Ligase
pdb|2P1O|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1P|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|2P1Q|B Chain B, Mechanism Of Auxin Perception By The Tir1 Ubiquitin Ligase
pdb|3C6N|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
pdb|3C6O|B Chain B, Small Molecule Agonists And Antagonists Of F-Box
Protein-Substrate Interactions In Auxin Perception And
Signaling
pdb|3C6P|B Chain B, Small Molecule Agonists And Antagonists Of F-Box Protein-
Substrate Interactions In Auxin Perception And Signaling
Length = 594
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 24/38 (63%)
Query: 489 LSGLRSLTKLDLSDCGLGEGAIPSDIGNLHSLNELYLS 526
LSG SL KL++ DC G+ A+ ++ L ++ L++S
Sbjct: 477 LSGCDSLRKLEIRDCPFGDKALLANASKLETMRSLWMS 514
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 3/98 (3%)
Query: 276 HVVGSMECLQELL-LDGTDIKELPLSIEHLFGLVQLTLNDCKNLSSLPVAISSFQCLRNL 334
H + C ++ G + E+P ++ ++L N K + P A S ++ LR +
Sbjct: 4 HCPAACTCSNNIVDCRGKGLTEIPTNLPETITEIRLEQNTIKVIP--PGAFSPYKKLRRI 61
Query: 335 KLSGCSKLKKFPQIVTTMEDLSELNLDGTSITEVPSSI 372
LS + P + L+ L L G ITE+P S+
Sbjct: 62 DLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSL 99
>pdb|2V9S|A Chain A, Second Lrr Domain Of Human Slit2
pdb|2V9S|B Chain B, Second Lrr Domain Of Human Slit2
pdb|2V9S|C Chain C, Second Lrr Domain Of Human Slit2
pdb|2V9S|D Chain D, Second Lrr Domain Of Human Slit2
Length = 220
Score = 32.0 bits (71), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 3/98 (3%)
Query: 276 HVVGSMECLQELL-LDGTDIKELPLSIEHLFGLVQLTLNDCKNLSSLPVAISSFQCLRNL 334
H + C ++ G + E+P ++ ++L N K + P A S ++ LR +
Sbjct: 4 HCPAACTCSNNIVDCRGKGLTEIPTNLPETITEIRLEQNTIKVIP--PGAFSPYKKLRRI 61
Query: 335 KLSGCSKLKKFPQIVTTMEDLSELNLDGTSITEVPSSI 372
LS + P + L+ L L G ITE+P S+
Sbjct: 62 DLSNNQISELAPDAFQGLRSLNSLVLYGNKITELPKSL 99
>pdb|2ZU2|A Chain A, Complex Structure Of Cov 229e 3cl Protease With Epdtc
pdb|2ZU2|B Chain B, Complex Structure Of Cov 229e 3cl Protease With Epdtc
Length = 302
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 671 HVPRHSTRIKKRRHSYELQCCMDGSDRGFF 700
H PRHS R K + + C DG +G F
Sbjct: 96 HTPRHSFRTLKSGEGFNILACYDGCAQGVF 125
>pdb|1P9S|A Chain A, Coronavirus Main Proteinase (3clpro) Structure: Basis For
Design Of Anti-Sars Drugs
pdb|1P9S|B Chain B, Coronavirus Main Proteinase (3clpro) Structure: Basis For
Design Of Anti-Sars Drugs
Length = 300
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 12/30 (40%), Positives = 15/30 (50%)
Query: 671 HVPRHSTRIKKRRHSYELQCCMDGSDRGFF 700
H PRHS R K + + C DG +G F
Sbjct: 96 HTPRHSFRTLKSGEGFNILACYDGCAQGVF 125
>pdb|4DHZ|A Chain A, The Structure Of HCEOTUB1-Ubiquitin Aldehyde-Ubc13~ub
Length = 288
Score = 30.8 bits (68), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 188 KMCYSRIEELWKGIKHLNMLKVMKLSHSENLIKTPDFTEAPN 229
+ C IE +WK HL + ++K + + I+ D T APN
Sbjct: 204 QYCEQEIEPMWKDADHLAINSLIKAAGTRVRIEYMDRTAAPN 245
>pdb|4DHI|B Chain B, Structure Of C. Elegans Otub1 Bound To Human Ubc13
pdb|4DHJ|A Chain A, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
pdb|4DHJ|E Chain E, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
pdb|4DHJ|I Chain I, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
pdb|4DHJ|L Chain L, The Structure Of A Ceotub1 Ubiquitin Aldehyde Ubc13~ub
Complex
Length = 284
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 14/42 (33%), Positives = 22/42 (52%)
Query: 188 KMCYSRIEELWKGIKHLNMLKVMKLSHSENLIKTPDFTEAPN 229
+ C IE +WK HL + ++K + + I+ D T APN
Sbjct: 200 QYCEQEIEPMWKDADHLAINSLIKAAGTRVRIEYMDRTAAPN 241
>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 = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 28/99 (28%), Positives = 52/99 (52%), Gaps = 9/99 (9%)
Query: 151 LLEGLEYLSNKLRLLDWHRYPLKSLPSNLQLDKIVEFKMCYSRIEELWKGIKHLNMLK-- 208
+L+GL +S + L HR+ S + ++ E + + ++ L G+K LN+LK
Sbjct: 244 MLKGLCEMSVESLNLQEHRFSDISSTTFQCFTQLQELDLTATHLKGLPSGMKGLNLLKKL 303
Query: 209 VMKLSHSENL--IKTPDFTEAPNLEELYLEGCTKLRKVH 245
V+ ++H + L I +F P+L LY+ G ++K+H
Sbjct: 304 VLSVNHFDQLCQISAANF---PSLTHLYIRG--NVKKLH 337
>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 = 30.0 bits (66), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 23/61 (37%), Positives = 33/61 (54%), Gaps = 3/61 (4%)
Query: 498 LDLSDCGLGEGAIPSDIGNLHSLNELYLSKNNFVTLPASINSLLNLKELEMEDCKRLQFL 557
LDLS+ + I ++I L LYL+ N+ LPA I +L NL+ L++ RL L
Sbjct: 229 LDLSNLQIFN--ISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSH-NRLTSL 285
Query: 558 P 558
P
Sbjct: 286 P 286
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 30.0 bits (66), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 34/123 (27%), Positives = 54/123 (43%), Gaps = 25/123 (20%)
Query: 262 ILILSGCLKLRKFPHVVGSMECLQELLLDGTDIKELPLSIEHLFGLVQLTLNDCK----- 316
IL ++ +L K + M+ LQ+L DI + +S + G DC
Sbjct: 354 ILQMNQLKELSKIAEMTTQMKSLQQL-----DISQNSVSYDEKKG-------DCSWTKSL 401
Query: 317 ---NLSSLPVAISSFQCL----RNLKLSGCSKLKKFPQIVTTMEDLSELNLDGTSITEVP 369
N+SS + + F+CL + L L +K+K P+ V +E L ELN+ + VP
Sbjct: 402 LSLNMSSNILTDTIFRCLPPRIKVLDLHS-NKIKSIPKQVVKLEALQELNVASNQLKSVP 460
Query: 370 SSI 372
I
Sbjct: 461 DGI 463
>pdb|3T6Q|A Chain A, Crystal Structure Of Mouse Rp105MD-1 Complex
pdb|3T6Q|B Chain B, Crystal Structure Of Mouse Rp105MD-1 Complex
Length = 606
Score = 30.0 bits (66), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 42/155 (27%), Positives = 67/155 (43%), Gaps = 22/155 (14%)
Query: 284 LQELLLDGTDIKELPLSIEHLFGLVQLTLNDCKNLSSLPVAISSFQCLRNLKLSGCSK-L 342
LQEL L T + ELP + L L +L L+ K + ++ S+F L +L + G +K L
Sbjct: 280 LQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISASNFPSLTHLSIKGNTKRL 339
Query: 343 KKFPQIVTTMEDLSELNLDGTSITEVPSSIXXXXXXXXXXXXDCKNFARVPSSINGLKSL 402
+ + +E+L EL+L I DC N + L L
Sbjct: 340 ELGTGCLENLENLRELDLSHDDI----------------ETSDCCNL-----QLRNLSHL 378
Query: 403 KTLNLSGCCKLENVPDTLGQVESLEELDISETAVR 437
++LNLS L + + LE LD++ T ++
Sbjct: 379 QSLNLSYNEPLSLKTEAFKECPQLELLDLAFTRLK 413
>pdb|3IT8|D Chain D, Crystal Structure Of Tnf Alpha Complexed With A Poxvirus
Mhc-Related Tnf Binding Protein
pdb|3IT8|E Chain E, Crystal Structure Of Tnf Alpha Complexed With A Poxvirus
Mhc-Related Tnf Binding Protein
pdb|3IT8|F Chain F, Crystal Structure Of Tnf Alpha Complexed With A Poxvirus
Mhc-Related Tnf Binding Protein
pdb|3IT8|J Chain J, Crystal Structure Of Tnf Alpha Complexed With A Poxvirus
Mhc-Related Tnf Binding Protein
pdb|3IT8|K Chain K, Crystal Structure Of Tnf Alpha Complexed With A Poxvirus
Mhc-Related Tnf Binding Protein
pdb|3IT8|L Chain L, Crystal Structure Of Tnf Alpha Complexed With A Poxvirus
Mhc-Related Tnf Binding Protein
Length = 324
Score = 30.0 bits (66), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 32/153 (20%), Positives = 55/153 (35%), Gaps = 31/153 (20%)
Query: 57 LLTVDDYNTLGMHNSLQELGQLIVTRQSPEEPGKRSRL--WRQ--EEVRHVLRKNTGSEL 112
L+T YN H ++ +SP PG W +E + KN ++
Sbjct: 29 LVTKISYNHETRHGNVNFRADWFNISRSPHTPGNDYNFNFWYSLMKETLEEINKNDSTKT 88
Query: 113 VE----------GMIIDDYFF------PVNEVHLSAKAFSLMTN-----LGLLKINNV-- 149
G++ Y + P+ H K F+ MT+ +G+L + N
Sbjct: 89 TSLSLITGCYETGLLFGSYGYVETANGPLARYHTGDKRFTKMTHKGFPKVGMLTVKNTLW 148
Query: 150 ----QLLEGLEYLSNKLRLLDWHRYPLKSLPSN 178
L G EY+ L +LD+ + +P +
Sbjct: 149 KDVKAYLGGFEYMGCSLAILDYQKMAKGKIPKD 181
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 30.0 bits (66), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 46/167 (27%), Positives = 74/167 (44%), Gaps = 37/167 (22%)
Query: 425 SLEELDISETAVRRPPSSVF-LMKNLRTL--SFSGCNGPPSSASWHL------HLPFNLM 475
S+ LD+S V S VF +K+L+ L +++ N A + L +L +NL+
Sbjct: 267 SVRHLDLSHGFVFSLNSRVFETLKDLKVLNLAYNKINKIADEAFYGLDNLQVLNLSYNLL 326
Query: 476 GKSSCLVALMLPSLSG------------------LRSLTKLDLSDCGLGEGAIPSDIGNL 517
G+ LP ++ L L LDL D L + I +
Sbjct: 327 GELYSSNFYGLPKVAYIDLQKNHIAIIQDQTFKFLEKLQTLDLRDNAL------TTIHFI 380
Query: 518 HSLNELYLSKNNFVTLPASIN---SLLNLKELEMEDCKRLQFLPQLP 561
S+ +++LS N VTLP IN +L++L E +E+ L FL ++P
Sbjct: 381 PSIPDIFLSGNKLVTLP-KINLTANLIHLSENRLENLDILYFLLRVP 426
>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 = 30.0 bits (66), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 48/177 (27%), Positives = 71/177 (40%), Gaps = 47/177 (26%)
Query: 387 KNFARVPSSIN--------GLKSLKTLNLSGCCKLENVPDTLGQVESLEELDISETAVRR 438
K F VP I G +KTLN D LEEL+++E V
Sbjct: 21 KRFVAVPEGIPTETRLLDLGKNRIKTLN----------QDEFASFPHLEELELNENIVSA 70
Query: 439 -PPSSVFLMKNLRTLSFSGCNGPPSSASWHLHLPFNLMGKSSCLVALMLPSLSGLRSLTK 497
P + + NLRTL +S+ L + L +GL +LTK
Sbjct: 71 VEPGAFNNLFNLRTLGL----------------------RSNRLKLIPLGVFTGLSNLTK 108
Query: 498 LDLSDCGLGEGAIPSD--IGNLHSLNELYLSKNNFVTLPASINSLLN-LKELEMEDC 551
LD+S+ + I D +L++L L + N+ V + S LN L++L +E C
Sbjct: 109 LDISENKI---VILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKC 162
>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 = 29.6 bits (65), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 42/160 (26%), Positives = 62/160 (38%), Gaps = 25/160 (15%)
Query: 393 PSSINGLKSLKTLNLSGCCKLENVPDTLGQVESLEELDISETAVRRPPSSVFL-MKNLRT 451
P++ GL L TL+L C E P + +L+ L + + ++ P + F + NL
Sbjct: 97 PTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNNLQALPDNTFRDLGNLTH 156
Query: 452 LSFSGCNGPPSSASWHLHLPFNLMGKSSCLVALMLPSLSGLRSLTKLDLSDCGLGEGAIP 511
L G P S H + GL SL +L L + P
Sbjct: 157 LFLHGNRIP--SVPEH--------------------AFRGLHSLDRLLLHQNHVAR-VHP 193
Query: 512 SDIGNLHSLNELYLSKNNFVTLPASI-NSLLNLKELEMED 550
+L L LYL NN LPA + L +L+ L + D
Sbjct: 194 HAFRDLGRLMTLYLFANNLSMLPAEVLVPLRSLQYLRLND 233
>pdb|1W2W|A Chain A, Crystal Structure Of Yeast Ypr118w, A Methylthioribose-1-
Phosphate Isomerase Related To Regulatory Eif2b Subunits
pdb|1W2W|E Chain E, Crystal Structure Of Yeast Ypr118w, A Methylthioribose-1-
Phosphate Isomerase Related To Regulatory Eif2b Subunits
pdb|1W2W|I Chain I, Crystal Structure Of Yeast Ypr118w, A Methylthioribose-1-
Phosphate Isomerase Related To Regulatory Eif2b Subunits
pdb|1W2W|M Chain M, Crystal Structure Of Yeast Ypr118w, A Methylthioribose-1-
Phosphate Isomerase Related To Regulatory Eif2b Subunits
Length = 211
Score = 29.6 bits (65), Expect = 7.1, Method: Composition-based stats.
Identities = 24/70 (34%), Positives = 36/70 (51%), Gaps = 4/70 (5%)
Query: 514 IGNLHSLNELYLSKNNFVTLPASINSLLNLKELEMEDCKRLQFLPQLPPNIIFVKVNGCS 573
+G+L L E+ L K+N + A++ SL+N + + KRL FL P VN +
Sbjct: 59 VGSLSVLTEVQLIKHNPTSDVATLYSLVNWESTKTVLNKRLDFLLSSRP----TAVNLSN 114
Query: 574 SLVTLLGALK 583
SLV + LK
Sbjct: 115 SLVEIKNILK 124
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 0.418
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,565,716
Number of Sequences: 62578
Number of extensions: 975464
Number of successful extensions: 2385
Number of sequences better than 100.0: 46
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 36
Number of HSP's that attempted gapping in prelim test: 2306
Number of HSP's gapped (non-prelim): 90
length of query: 803
length of database: 14,973,337
effective HSP length: 107
effective length of query: 696
effective length of database: 8,277,491
effective search space: 5761133736
effective search space used: 5761133736
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)