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= 048417
(453 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 = 128 bits (322), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 132/485 (27%), Positives = 182/485 (37%), Gaps = 89/485 (18%)
Query: 37 KHLNYLDLSYSGIIGTIPNIFWSSASQIYVLDLSFNQIHGQIP----------------- 79
K L YL L+ + G IP+ + + LDLS N +G +P
Sbjct: 269 KSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSN 328
Query: 80 ---------NLTNAAQLEVLSLGSNSFSIALPL----ISSYLIELDFSNNSISGSIFHFI 126
L L+VL L N FS LP +S+ L+ LD S+N+ SG I +
Sbjct: 329 NFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNL 388
Query: 127 CYRANELNKWQILYLSGNFLQGELPDCWMNYQNLMILDLSNNKFTGNXXXXXXX------ 180
C N N Q LYL N G++P N L+ L LS N +G
Sbjct: 389 C--QNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRD 446
Query: 181 ------------------XXXXXXXXXRKNNLCGTIHS-LENCTALMTLDVGENELVENI 221
N+L G I S L NCT L + + N L I
Sbjct: 447 LKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEI 506
Query: 222 PTWIRERFSRIVVLILRSNKFYNLLPKELCDLAFLQIVDLADNNLSGEVPRCIHNLRAMV 281
P WI R + +L L +N F +P EL D L +DL N +G +P + +
Sbjct: 507 PKWIG-RLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKI 565
Query: 282 TMNSHAGKAIQY-------------------------QFLLYASRAPLIATLLEDAFVVM 316
N AGK Y Q ++R P T V
Sbjct: 566 AANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNIT-----SRVY 620
Query: 317 KGREAKYERTLNLVRIIDFSKNNFSGKIPLEVTNLKVLQSVNLSNNFFTGRIPESVGTMR 376
G + + +D S N SG IP E+ ++ L +NL +N +G IP+ VG +R
Sbjct: 621 GGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLR 680
Query: 377 SLESIDFSLNQLSGEIPQSMXXXXXXXXXXXXXXXXTGKIPSSTQLQSFDASSFSGN-DL 435
L +D S N+L G IPQ+M +G IP Q ++F + F N L
Sbjct: 681 GLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNPGL 740
Query: 436 CRAPL 440
C PL
Sbjct: 741 CGYPL 745
Score = 90.5 bits (223), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 107/402 (26%), Positives = 162/402 (40%), Gaps = 41/402 (10%)
Query: 39 LNYLDLSYSGIIGTIPNIF-WSSASQIYVLDLSFNQIH--GQIPNLTNAAQLEVLSLGSN 95
L LDLS + + G + + S S + L++S N + G++ LEVL L +N
Sbjct: 102 LTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSAN 161
Query: 96 SFSIA------LPLISSYLIELDFSNNSISGSIFHFICYRANELNKWQILYLSGNFLQGE 149
S S A L L L S N ISG + C + L +S N
Sbjct: 162 SISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVN------LEFLDVSSNNFSTG 215
Query: 150 LP---DCWMNYQNLMILDLSNNKFTGNXXXXXXXXXXXXXXXXRKNNLCGTIHSLENCTA 206
+P DC L LD+S NK +G+ N G I L +
Sbjct: 216 IPFLGDC----SALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLP-LKS 270
Query: 207 LMTLDVGENELVENIPTWIRERFSRIVVLILRSNKFYNLLPKELCDLAFLQIVDLADNNL 266
L L + EN+ IP ++ + L L N FY +P + L+ + L+ NN
Sbjct: 271 LQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNF 330
Query: 267 SGEVPRCIHNLRAMVTMNSHAG-KAIQYQFLLYASRAPLIATLLEDAFVVMKGREAKYER 325
SGE+P M T+ G K + F ++ P T L + + + +
Sbjct: 331 SGELP--------MDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSG 382
Query: 326 TL---------NLVRIIDFSKNNFSGKIPLEVTNLKVLQSVNLSNNFFTGRIPESVGTMR 376
+ N ++ + N F+GKIP ++N L S++LS N+ +G IP S+G++
Sbjct: 383 PILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLS 442
Query: 377 SLESIDFSLNQLSGEIPQSMXXXXXXXXXXXXXXXXTGKIPS 418
L + LN L GEIPQ + TG+IPS
Sbjct: 443 KLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPS 484
>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 = 128 bits (322), Expect = 5e-30, Method: Compositional matrix adjust.
Identities = 132/485 (27%), Positives = 182/485 (37%), Gaps = 89/485 (18%)
Query: 37 KHLNYLDLSYSGIIGTIPNIFWSSASQIYVLDLSFNQIHGQIP----------------- 79
K L YL L+ + G IP+ + + LDLS N +G +P
Sbjct: 266 KSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSN 325
Query: 80 ---------NLTNAAQLEVLSLGSNSFSIALPL----ISSYLIELDFSNNSISGSIFHFI 126
L L+VL L N FS LP +S+ L+ LD S+N+ SG I +
Sbjct: 326 NFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNL 385
Query: 127 CYRANELNKWQILYLSGNFLQGELPDCWMNYQNLMILDLSNNKFTGNXXXXXXX------ 180
C N N Q LYL N G++P N L+ L LS N +G
Sbjct: 386 C--QNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRD 443
Query: 181 ------------------XXXXXXXXXRKNNLCGTIHS-LENCTALMTLDVGENELVENI 221
N+L G I S L NCT L + + N L I
Sbjct: 444 LKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEI 503
Query: 222 PTWIRERFSRIVVLILRSNKFYNLLPKELCDLAFLQIVDLADNNLSGEVPRCIHNLRAMV 281
P WI R + +L L +N F +P EL D L +DL N +G +P + +
Sbjct: 504 PKWIG-RLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKI 562
Query: 282 TMNSHAGKAIQY-------------------------QFLLYASRAPLIATLLEDAFVVM 316
N AGK Y Q ++R P T V
Sbjct: 563 AANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNIT-----SRVY 617
Query: 317 KGREAKYERTLNLVRIIDFSKNNFSGKIPLEVTNLKVLQSVNLSNNFFTGRIPESVGTMR 376
G + + +D S N SG IP E+ ++ L +NL +N +G IP+ VG +R
Sbjct: 618 GGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLR 677
Query: 377 SLESIDFSLNQLSGEIPQSMXXXXXXXXXXXXXXXXTGKIPSSTQLQSFDASSFSGN-DL 435
L +D S N+L G IPQ+M +G IP Q ++F + F N L
Sbjct: 678 GLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNPGL 737
Query: 436 CRAPL 440
C PL
Sbjct: 738 CGYPL 742
Score = 90.5 bits (223), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 107/402 (26%), Positives = 162/402 (40%), Gaps = 41/402 (10%)
Query: 39 LNYLDLSYSGIIGTIPNIF-WSSASQIYVLDLSFNQIH--GQIPNLTNAAQLEVLSLGSN 95
L LDLS + + G + + S S + L++S N + G++ LEVL L +N
Sbjct: 99 LTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKLNSLEVLDLSAN 158
Query: 96 SFSIA------LPLISSYLIELDFSNNSISGSIFHFICYRANELNKWQILYLSGNFLQGE 149
S S A L L L S N ISG + C + L +S N
Sbjct: 159 SISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVN------LEFLDVSSNNFSTG 212
Query: 150 LP---DCWMNYQNLMILDLSNNKFTGNXXXXXXXXXXXXXXXXRKNNLCGTIHSLENCTA 206
+P DC L LD+S NK +G+ N G I L +
Sbjct: 213 IPFLGDC----SALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLP-LKS 267
Query: 207 LMTLDVGENELVENIPTWIRERFSRIVVLILRSNKFYNLLPKELCDLAFLQIVDLADNNL 266
L L + EN+ IP ++ + L L N FY +P + L+ + L+ NN
Sbjct: 268 LQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNF 327
Query: 267 SGEVPRCIHNLRAMVTMNSHAG-KAIQYQFLLYASRAPLIATLLEDAFVVMKGREAKYER 325
SGE+P M T+ G K + F ++ P T L + + + +
Sbjct: 328 SGELP--------MDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSG 379
Query: 326 TL---------NLVRIIDFSKNNFSGKIPLEVTNLKVLQSVNLSNNFFTGRIPESVGTMR 376
+ N ++ + N F+GKIP ++N L S++LS N+ +G IP S+G++
Sbjct: 380 PILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLS 439
Query: 377 SLESIDFSLNQLSGEIPQSMXXXXXXXXXXXXXXXXTGKIPS 418
L + LN L GEIPQ + TG+IPS
Sbjct: 440 KLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPS 481
>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 = 60.5 bits (145), Expect = 2e-09, Method: Compositional matrix adjust.
Identities = 64/249 (25%), Positives = 102/249 (40%), Gaps = 62/249 (24%)
Query: 30 PSWLYSQKHLNYLDLSYSGIIGTIPNIFWSSASQIYVLDLSFNQIHGQIPNLTNAAQLEV 89
P + L+YL ++++ + G IP+ F S + LD S+N + G +P
Sbjct: 94 PPAIAKLTQLHYLYITHTNVSGAIPD-FLSQIKTLVTLDFSYNALSGTLP---------- 142
Query: 90 LSLGSNSFSIALPLISSY--LIELDFSNNSISGSIFHFICYRANELNKWQILY----LSG 143
P ISS L+ + F N ISG+I + + L+ +S
Sbjct: 143 ------------PSISSLPNLVGITFDGNRISGAI-------PDSYGSFSKLFTSMTISR 183
Query: 144 NFLQGELPDCWMNYQNLMILDLSNNKFTGNXXXXXXXXXXXXXXXXRKNNLCGTIHSLEN 203
N L G++P + N NL +DLS N G+ KN+L
Sbjct: 184 NRLTGKIPPTFANL-NLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSL--------- 233
Query: 204 CTALMTLDVGENELVENIPTWIRERFSRIVVLILRSNKFYNLLPKELCDLAFLQIVDLAD 263
D+G+ L +N+ L LR+N+ Y LP+ L L FL ++++
Sbjct: 234 -----AFDLGKVGLSKNLNG-----------LDLRNNRIYGTLPQGLTQLKFLHSLNVSF 277
Query: 264 NNLSGEVPR 272
NNL GE+P+
Sbjct: 278 NNLCGEIPQ 286
Score = 53.1 bits (126), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 63/259 (24%), Positives = 102/259 (39%), Gaps = 46/259 (17%)
Query: 192 NNLCGTIH-SLENCTALMTLDVGENELVENIPTWIRERFSRIVVLILRSNKFYNLLPKEL 250
NNL G I ++ T L L + + IP ++ + +V L N LP +
Sbjct: 87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQ-IKTLVTLDFSYNALSGTLPPSI 145
Query: 251 CDLAFLQIVDLADNNLSGEVPRCIHNLRAM-----VTMNSHAGKAIQYQFLLYASRAPLI 305
L L + N +SG +P + + ++ N GK L + L
Sbjct: 146 SSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDLS 205
Query: 306 ATLLEDAFVVMKGREAKYERTLNLVRIIDFSKNNFS---GKIPLEVTNLKVLQSVNLSNN 362
+LE V+ G + ++ I +KN+ + GK+ L K L ++L NN
Sbjct: 206 RNMLEGDASVLFGSDKNTQK-------IHLAKNSLAFDLGKVGLS----KNLNGLDLRNN 254
Query: 363 FFTGRIPESVGTMRSLESIDFSLNQLSGEIPQSMXXXXXXXXXXXXXXXXTGKIPSSTQL 422
G +P+ + ++ L S++ S N L GEIPQ L
Sbjct: 255 RIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ------------------------GGNL 290
Query: 423 QSFDASSFSGND-LCRAPL 440
Q FD S+++ N LC +PL
Sbjct: 291 QRFDVSAYANNKCLCGSPL 309
Score = 43.5 bits (101), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 52/111 (46%), Gaps = 6/111 (5%)
Query: 336 SKNNFSGKIPLEVTNLKVLQSVNLSNNFFTGRIPESVGTMRSLESIDFSLNQLSGEIPQS 395
+ N SG IP ++ +K L +++ S N +G +P S+ ++ +L I F N++SG IP S
Sbjct: 109 THTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDS 168
Query: 396 MXX-XXXXXXXXXXXXXXTGKIPSSTQLQSFDASSFSGNDLCRAPLSGNCS 445
TGKIP +F + + DL R L G+ S
Sbjct: 169 YGSFSKLFTSMTISRNRLTGKIPP-----TFANLNLAFVDLSRNMLEGDAS 214
Score = 33.1 bits (74), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 36/67 (53%), Gaps = 1/67 (1%)
Query: 37 KHLNYLDLSYSGIIGTIPNIFWSSASQIYVLDLSFNQIHGQIPNLTNAAQLEVLSLGSNS 96
K+LN LDL + I GT+P + ++ L++SFN + G+IP N + +V + +N
Sbjct: 244 KNLNGLDLRNNRIYGTLPQGL-TQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNK 302
Query: 97 FSIALPL 103
PL
Sbjct: 303 CLCGSPL 309
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 63/248 (25%), Positives = 101/248 (40%), Gaps = 53/248 (21%)
Query: 36 QKHLNYLDLSYSG-------IIGTIPNIFWSSASQIYVLDLSFNQIHGQIPNLTNAAQLE 88
Q L++ D YSG I + ++F S IY + + N I N T +
Sbjct: 260 QGQLDFRDFDYSGTSLKALSIHQVVSDVFGFPQSYIYEIFSNMN-----IKNFTVS---- 310
Query: 89 VLSLGSNSFSIALPLISSYLIELDFSNNSISGSIFHFICYRANELNKWQILYLSGNFLQ- 147
G+ + P S + LDFSNN ++ ++F L + + L L N L+
Sbjct: 311 ----GTRMVHMLCPSKISPFLHLDFSNNLLTDTVFE----NCGHLTELETLILQMNQLKE 362
Query: 148 -GELPDCWMNYQNLMILDLSNNKFTGNXXXXXXXXXXXXXXXXRKNNLCGTIHSLENCTA 206
++ + ++L LD+S N + + K C S
Sbjct: 363 LSKIAEMTTQMKSLQQLDISQNSVSYD----------------EKKGDCSWTKS------ 400
Query: 207 LMTLDVGENELVENIPTWIRERFSRIVVLILRSNKFYNLLPKELCDLAFLQIVDLADNNL 266
L++L++ N L + I R RI VL L SNK + +PK++ L LQ +++A N L
Sbjct: 401 LLSLNMSSNILTDTI---FRCLPPRIKVLDLHSNKIKS-IPKQVVKLEALQELNVASNQL 456
Query: 267 SGEVPRCI 274
VP I
Sbjct: 457 KS-VPDGI 463
>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 = 37.0 bits (84), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 46/140 (32%), Positives = 64/140 (45%), Gaps = 22/140 (15%)
Query: 39 LNYLDLSYSGI--IGTIPNIFWSSASQIYVLDLSFNQIHGQIPNLTNAAQLEVLSLGSN- 95
L +LDLS +G+ G + + S Y LDLSFN + N QLE L +
Sbjct: 349 LEFLDLSRNGLSFKGCCSQSDFGTTSLKY-LDLSFNGVITMSSNFLGLEQLEHLDFQHSN 407
Query: 96 -----SFSIALPLISSYLIELDFSNNSIS---GSIFHFICYRANELNKWQILYLSGN-FL 146
FS+ L L + LI LD S+ IF N L+ ++L ++GN F
Sbjct: 408 LKQMSEFSVFLSLRN--LIYLDISHTHTRVAFNGIF-------NGLSSLEVLKMAGNSFQ 458
Query: 147 QGELPDCWMNYQNLMILDLS 166
+ LPD + +NL LDLS
Sbjct: 459 ENFLPDIFTELRNLTFLDLS 478
>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 = 0.030, Method: Compositional matrix adjust.
Identities = 41/138 (29%), Positives = 66/138 (47%), Gaps = 18/138 (13%)
Query: 39 LNYLDLSYSGI--IGTIPNIFWSSASQIYVLDLSFNQIHGQIPNLTNAAQLEVLSLGSNS 96
L +LDLS +G+ G + + S Y LDLSFN + N QLE L ++
Sbjct: 349 LEFLDLSRNGLSFKGCCSQSDFGTTSLKY-LDLSFNGVITMSSNFLGLEQLEHLDFQHSN 407
Query: 97 ------FSIALPLISSYLIELDFSNNSIS-GSIFHFICYRANELNKWQILYLSGN-FLQG 148
FS+ L L + +++ ++ ++ IF N L+ ++L ++GN F +
Sbjct: 408 LKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIF-------NGLSSLEVLKMAGNSFQEN 460
Query: 149 ELPDCWMNYQNLMILDLS 166
LPD + +NL LDLS
Sbjct: 461 FLPDIFTELRNLTFLDLS 478
>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 = 36.2 bits (82), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 46/140 (32%), Positives = 64/140 (45%), Gaps = 22/140 (15%)
Query: 39 LNYLDLSYSGI--IGTIPNIFWSSASQIYVLDLSFNQIHGQIPNLTNAAQLEVLSLGSN- 95
L +LDLS +G+ G + + S Y LDLSFN + N QLE L +
Sbjct: 373 LEFLDLSRNGLSFKGCCSQSDFGTISLKY-LDLSFNGVITMSSNFLGLEQLEHLDFQHSN 431
Query: 96 -----SFSIALPLISSYLIELDFSNNSIS---GSIFHFICYRANELNKWQILYLSGN-FL 146
FS+ L L + LI LD S+ IF N L+ ++L ++GN F
Sbjct: 432 LKQMSEFSVFLSLRN--LIYLDISHTHTRVAFNGIF-------NGLSSLEVLKMAGNSFQ 482
Query: 147 QGELPDCWMNYQNLMILDLS 166
+ LPD + +NL LDLS
Sbjct: 483 ENFLPDIFTELRNLTFLDLS 502
>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 = 0.37, Method: Compositional matrix adjust.
Identities = 37/116 (31%), Positives = 53/116 (45%), Gaps = 19/116 (16%)
Query: 61 ASQIYVLDLSFNQIHGQIPNLTNAAQLEVLSLGSNS------FSIALPLISSYLIELDFS 114
+ + LDLSFN + N QLE L ++ FS+ L L + LI LD S
Sbjct: 77 TTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRN--LIYLDIS 134
Query: 115 NNSIS---GSIFHFICYRANELNKWQILYLSGN-FLQGELPDCWMNYQNLMILDLS 166
+ IF N L+ ++L ++GN F + LPD + +NL LDLS
Sbjct: 135 HTHTRVAFNGIF-------NGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLS 183
>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 = 32.0 bits (71), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 34/58 (58%), Gaps = 3/58 (5%)
Query: 37 KHLNYLDLSYSGIIGTIPNIFWSSASQIYVLDLSFNQIHGQIPN--LTNAAQLEVLSL 92
+HL YL+LSY+ +G + + + Q+ +LD++F +H + P+ N L VL+L
Sbjct: 375 RHLQYLNLSYNEPLG-LEDQAFKECPQLELLDVAFTHLHVKAPHSPFQNLHLLRVLNL 431
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 31.6 bits (70), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 24/101 (23%), Positives = 49/101 (48%), Gaps = 16/101 (15%)
Query: 258 IVDLADNNLSGEVPRCIHNLRAMVTMNSHAGKAIQYQFLLYASRAPLIATLLEDAFVVMK 317
++D NNL+ +V N R + +N H G + L+ + +D +++
Sbjct: 844 LLDKNGNNLAAQVEFETFN-RQLNAVNRHTG-------------SKLVNAVQQDVHAILQ 889
Query: 318 GREAKYERTLNLVRIIDFSKNNFSGKIPLEVTNLKVLQSVN 358
EA+ E++ +ID ++N K+ E++ L+ L++VN
Sbjct: 890 LGEAQIEKSARA--LIDAARNEADEKLSAELSRLEALRAVN 928
>pdb|2FI9|A Chain A, The Crystal Structure Of An Outer Membrane Protein From
The Bartonella Henselae
Length = 128
Score = 31.2 bits (69), Expect = 1.3, Method: Composition-based stats.
Identities = 25/90 (27%), Positives = 38/90 (42%), Gaps = 19/90 (21%)
Query: 20 LRHCHLGSRFPSWLYSQKHLNYLDLSYSGIIGTIPNIFWSSASQIYVLDLSFNQIHGQIP 79
+R H R P Y + D+S+ G I IP S IY +D++ G +P
Sbjct: 7 IREAHFPGRAPIDAYGNGGFRFADMSHRGSIICIP-------SGIYGIDMT-----GPVP 54
Query: 80 N-------LTNAAQLEVLSLGSNSFSIALP 102
L + Q+EVL +G+ + LP
Sbjct: 55 TQEDISRVLEESDQIEVLLIGTGVELLRLP 84
>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 = 31.2 bits (69), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 42/80 (52%), Gaps = 4/80 (5%)
Query: 204 CTALMTLDVGENELVENIPTWIRERFSRIVVLILRSNKFYNLLPKELCDLAFLQIVDLAD 263
CT L T+ N+ ++ +P I + L L N+F L+PKEL + L ++DL++
Sbjct: 8 CTCLDTVVRCSNKGLKVLPKGIPRD---VTELYLDGNQF-TLVPKELSNYKHLTLIDLSN 63
Query: 264 NNLSGEVPRCIHNLRAMVTM 283
N +S + N+ ++T+
Sbjct: 64 NRISTLSNQSFSNMTQLLTL 83
>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 = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 18/33 (54%), Positives = 22/33 (66%), Gaps = 1/33 (3%)
Query: 139 LYLSGNFLQGELPDCWMNYQNLMILDLSNNKFT 171
LYL+GN L ELP N NL +LDLS+N+ T
Sbjct: 252 LYLNGNSLT-ELPAEIKNLSNLRVLDLSHNRLT 283
>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 = 2.7, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 2/68 (2%)
Query: 330 VRIIDFSKNNFSGK--IPLEVTNLKVLQSVNLSNNFFTGRIPESVGTMRSLESIDFSLNQ 387
++ +D S N+ L++ NL LQ++NLS+N G ++ LE +D + +
Sbjct: 349 LQTLDLSHNDIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQAFKECPQLELLDLAFTR 408
Query: 388 LSGEIPQS 395
L PQS
Sbjct: 409 LHINAPQS 416
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 35/115 (30%), Positives = 55/115 (47%), Gaps = 16/115 (13%)
Query: 62 SQIYVLDLSFNQIHGQIP--NLTNAAQLEVLSLGSNSFSIALPLISSYLIELDFSN---- 115
+ I VL+L+ NQ+ ++P N T +QL L +G N+ S P + L L N
Sbjct: 25 TNITVLNLTHNQLR-RLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHN 83
Query: 116 --NSISGSIFHFICYRANELNKWQILYLSGNFLQGELPDCWMNYQNLMILDLSNN 168
+ +S F F C EL +L N +Q + ++ +NL+ LDLS+N
Sbjct: 84 ELSQLSDKTFAF-CTNLTEL------HLMSNSIQKIKNNPFVKQKNLITLDLSHN 131
>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 = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 35/115 (30%), Positives = 55/115 (47%), Gaps = 16/115 (13%)
Query: 62 SQIYVLDLSFNQIHGQIP--NLTNAAQLEVLSLGSNSFSIALPLISSYLIELDFSN---- 115
+ I VL+L+ NQ+ ++P N T +QL L +G N+ S P + L L N
Sbjct: 35 TNITVLNLTHNQLR-RLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHN 93
Query: 116 --NSISGSIFHFICYRANELNKWQILYLSGNFLQGELPDCWMNYQNLMILDLSNN 168
+ +S F F C EL +L N +Q + ++ +NL+ LDLS+N
Sbjct: 94 ELSQLSDKTFAF-CTNLTEL------HLMSNSIQKIKNNPFVKQKNLITLDLSHN 141
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 30.0 bits (66), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 35/115 (30%), Positives = 55/115 (47%), Gaps = 16/115 (13%)
Query: 62 SQIYVLDLSFNQIHGQIP--NLTNAAQLEVLSLGSNSFSIALPLISSYLIELDFSN---- 115
+ I VL+L+ NQ+ ++P N T +QL L +G N+ S P + L L N
Sbjct: 30 TNITVLNLTHNQLR-RLPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHN 88
Query: 116 --NSISGSIFHFICYRANELNKWQILYLSGNFLQGELPDCWMNYQNLMILDLSNN 168
+ +S F F C EL +L N +Q + ++ +NL+ LDLS+N
Sbjct: 89 ELSQLSDKTFAF-CTNLTEL------HLMSNSIQKIKNNPFVKQKNLITLDLSHN 136
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 28.5 bits (62), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 20/63 (31%), Positives = 34/63 (53%), Gaps = 6/63 (9%)
Query: 333 IDFSKNNFSGKIPLEVTNLKVLQSVNLS----NNFFTGRIPESVGTMRSLESIDFSLNQL 388
++F++N F+ + + LK LQ++ L NFF ++ M SLE++D SLN L
Sbjct: 358 LNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFF--KVALMTKNMSSLETLDVSLNSL 415
Query: 389 SGE 391
+
Sbjct: 416 NSH 418
>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 = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 18/40 (45%), Positives = 24/40 (60%), Gaps = 1/40 (2%)
Query: 350 NLKVLQSVNLSNNFFTG-RIPESVGTMRSLESIDFSLNQL 388
NLK L ++LS N + S G + SL+SIDFS NQ+
Sbjct: 121 NLKALTRLDLSKNQIRSLYLHPSFGKLNSLKSIDFSSNQI 160
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 0.136 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,010,412
Number of Sequences: 62578
Number of extensions: 451021
Number of successful extensions: 1174
Number of sequences better than 100.0: 40
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 31
Number of HSP's that attempted gapping in prelim test: 949
Number of HSP's gapped (non-prelim): 115
length of query: 453
length of database: 14,973,337
effective HSP length: 102
effective length of query: 351
effective length of database: 8,590,381
effective search space: 3015223731
effective search space used: 3015223731
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: 53 (25.0 bits)