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= 045837
(527 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 92.4 bits (228), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 72/234 (30%), Positives = 115/234 (49%), Gaps = 6/234 (2%)
Query: 101 VVAGIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIP-ESLSNWKLIYEFDVSNNR 159
+ G+DL+GN G P G S L ++SN F G +P ++L + + D+S N
Sbjct: 292 TLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNE 351
Query: 160 LVGSFPNVCLSWT-SLRYLDLRYNNFEGEVPRELF---KMKLDAIFLNNNRFSSWIPETI 215
G P + + SL LDL NNF G + L K L ++L NN F+ IP T+
Sbjct: 352 FSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTL 411
Query: 216 GE-STVSVVTFAHNNFSGCVPRSIGNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDAS 274
S + + + N SG +P S+G++ + ++ L N L G +P E+ ++K L
Sbjct: 412 SNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILD 471
Query: 275 SNSFYGSVPQSFSSLESIHRLVLSYNQLTGYVSEQICKLPNINNFTFSYNYFQG 328
N G +P S+ +++ + LS N+LTG + + I +L N+ S N F G
Sbjct: 472 FNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSG 525
Score = 88.2 bits (217), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 68/259 (26%), Positives = 114/259 (44%), Gaps = 48/259 (18%)
Query: 99 ITVVAGIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLSNWKLIYEFDVSNN 158
+ + + L+ ND+ G P+ L ++L +++NR G IP+ + + + +SNN
Sbjct: 462 VKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNN 521
Query: 159 RLVGSFPNVCLSWTSLRYLDLRYNNFEGEVPRELFKM--KLDAIFLNN------------ 204
G+ P SL +LDL N F G +P +FK K+ A F+
Sbjct: 522 SFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMK 581
Query: 205 --------------------NRFSSWIPETI--------------GESTVSVVTFAHNNF 230
NR S+ P I ++ + ++N
Sbjct: 582 KECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNML 641
Query: 231 SGCVPRSIGNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDASSNSFYGSVPQSFSSLE 290
SG +P+ IG+MP + + L +ND+ G +P E+G L+ L + D SSN G +PQ+ S+L
Sbjct: 642 SGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALT 701
Query: 291 SIHRLVLSYNQLTGYVSEQ 309
+ + LS N L+G + E
Sbjct: 702 MLTEIDLSNNNLSGPIPEM 720
Score = 86.3 bits (212), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 73/293 (24%), Positives = 123/293 (41%), Gaps = 53/293 (18%)
Query: 89 FCAPAPDNSNITVVAGIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPE------ 142
F P + + + +D++GN ++G F + ++L L +++SN+F G IP
Sbjct: 209 FSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSL 268
Query: 143 ---SLSNWKLIYE--------------FDVSNNRLVGSFP-------------------- 165
SL+ K E D+S N G+ P
Sbjct: 269 QYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFS 328
Query: 166 -----NVCLSWTSLRYLDLRYNNFEGEVPREL--FKMKLDAIFLNNNRFSSWIPETIGE- 217
+ L L+ LDL +N F GE+P L L + L++N FS I + +
Sbjct: 329 GELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQN 388
Query: 218 --STVSVVTFAHNNFSGCVPRSIGNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDASS 275
+T+ + +N F+G +P ++ N + + LS N L G +PS +G L KL
Sbjct: 389 PKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWL 448
Query: 276 NSFYGSVPQSFSSLESIHRLVLSYNQLTGYVSEQICKLPNINNFTFSYNYFQG 328
N G +PQ ++++ L+L +N LTG + + N+N + S N G
Sbjct: 449 NMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTG 501
Score = 84.0 bits (206), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 58/187 (31%), Positives = 87/187 (46%), Gaps = 22/187 (11%)
Query: 126 LALFHVNSNRFCGIIPESLSNWKLIYEFDVSNNRLVGSFPNVCLSWTSLRYLDLRYNNFE 185
L ++ +N F G IP +LSN + +S N L G+ P+ S + LR L L N E
Sbjct: 393 LQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLE 452
Query: 186 GEVPRELFKMKLDAIFLNNNRFSSWIPETIGESTVSVVTFAHNNFSGCVPRSIGNMPNVN 245
GE+P+EL +K T+ + N+ +G +P + N N+N
Sbjct: 453 GEIPQELMYVK----------------------TLETLILDFNDLTGEIPSGLSNCTNLN 490
Query: 246 EIILSNNDLMGCLPSEIGWLKKLTVFDASSNSFYGSVPQSFSSLESIHRLVLSYNQLTGY 305
I LSNN L G +P IG L+ L + S+NSF G++P S+ L L+ N G
Sbjct: 491 WISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGT 550
Query: 306 VSEQICK 312
+ + K
Sbjct: 551 IPAAMFK 557
Score = 71.2 bits (173), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 71/302 (23%), Positives = 124/302 (41%), Gaps = 48/302 (15%)
Query: 107 LNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLSNWKLIYEFDVSNNRLVGSFPN 166
L N G P L S+L H++ N G IP SL + + + + N L G P
Sbjct: 398 LQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQ 457
Query: 167 VCLSWTSLRYLDLRYNNFEGEVPRELFK-MKLDAIFLNNNRFSSWIPETIGE-STVSVVT 224
+ +L L L +N+ GE+P L L+ I L+NNR + IP+ IG ++++
Sbjct: 458 ELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILK 517
Query: 225 FAHNNFSGCVPRSIGNMPNVNEIILSNNDLMGCLPSEI---------------------- 262
++N+FSG +P +G+ ++ + L+ N G +P+ +
Sbjct: 518 LSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKN 577
Query: 263 GWLKK-------LTVFDA-----------------SSNSFYGSVPQSFSSLESIHRLVLS 298
+KK L F +S + G +F + S+ L +S
Sbjct: 578 DGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMS 637
Query: 299 YNQLTGYVSEQICKLPNINNFTFSYNYFQGLGNECIPGSKEGGVFDDTSNCLAQRPSQKW 358
YN L+GY+ ++I +P + +N G + + + + D +SN L R Q
Sbjct: 638 YNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAM 697
Query: 359 AT 360
+
Sbjct: 698 SA 699
Score = 59.7 bits (143), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 37/120 (30%), Positives = 62/120 (51%), Gaps = 3/120 (2%)
Query: 86 YGVFCAPAPDNSNITVVAGIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLS 145
YG +P DN+ + +D++ N ++GY P E+G + L + ++ N G IP+ +
Sbjct: 617 YGGHTSPTFDNNGSMMF--LDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVG 674
Query: 146 NWKLIYEFDVSNNRLVGSFPNVCLSWTSLRYLDLRYNNFEGEVPRE-LFKMKLDAIFLNN 204
+ + + D+S+N+L G P + T L +DL NN G +P F+ A FLNN
Sbjct: 675 DLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNN 734
>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 = 92.0 bits (227), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 72/234 (30%), Positives = 115/234 (49%), Gaps = 6/234 (2%)
Query: 101 VVAGIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIP-ESLSNWKLIYEFDVSNNR 159
+ G+DL+GN G P G S L ++SN F G +P ++L + + D+S N
Sbjct: 295 TLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNE 354
Query: 160 LVGSFPNVCLSWT-SLRYLDLRYNNFEGEVPRELF---KMKLDAIFLNNNRFSSWIPETI 215
G P + + SL LDL NNF G + L K L ++L NN F+ IP T+
Sbjct: 355 FSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTL 414
Query: 216 GE-STVSVVTFAHNNFSGCVPRSIGNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDAS 274
S + + + N SG +P S+G++ + ++ L N L G +P E+ ++K L
Sbjct: 415 SNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILD 474
Query: 275 SNSFYGSVPQSFSSLESIHRLVLSYNQLTGYVSEQICKLPNINNFTFSYNYFQG 328
N G +P S+ +++ + LS N+LTG + + I +L N+ S N F G
Sbjct: 475 FNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSG 528
Score = 87.8 bits (216), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 68/259 (26%), Positives = 114/259 (44%), Gaps = 48/259 (18%)
Query: 99 ITVVAGIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLSNWKLIYEFDVSNN 158
+ + + L+ ND+ G P+ L ++L +++NR G IP+ + + + +SNN
Sbjct: 465 VKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNN 524
Query: 159 RLVGSFPNVCLSWTSLRYLDLRYNNFEGEVPRELFKM--KLDAIFLNN------------ 204
G+ P SL +LDL N F G +P +FK K+ A F+
Sbjct: 525 SFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMK 584
Query: 205 --------------------NRFSSWIPETI--------------GESTVSVVTFAHNNF 230
NR S+ P I ++ + ++N
Sbjct: 585 KECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNML 644
Query: 231 SGCVPRSIGNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDASSNSFYGSVPQSFSSLE 290
SG +P+ IG+MP + + L +ND+ G +P E+G L+ L + D SSN G +PQ+ S+L
Sbjct: 645 SGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALT 704
Query: 291 SIHRLVLSYNQLTGYVSEQ 309
+ + LS N L+G + E
Sbjct: 705 MLTEIDLSNNNLSGPIPEM 723
Score = 85.9 bits (211), Expect = 5e-17, Method: Compositional matrix adjust.
Identities = 73/293 (24%), Positives = 123/293 (41%), Gaps = 53/293 (18%)
Query: 89 FCAPAPDNSNITVVAGIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPE------ 142
F P + + + +D++GN ++G F + ++L L +++SN+F G IP
Sbjct: 212 FSTGIPFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLPLKSL 271
Query: 143 ---SLSNWKLIYE--------------FDVSNNRLVGSFP-------------------- 165
SL+ K E D+S N G+ P
Sbjct: 272 QYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFS 331
Query: 166 -----NVCLSWTSLRYLDLRYNNFEGEVPREL--FKMKLDAIFLNNNRFSSWIPETIGE- 217
+ L L+ LDL +N F GE+P L L + L++N FS I + +
Sbjct: 332 GELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQN 391
Query: 218 --STVSVVTFAHNNFSGCVPRSIGNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDASS 275
+T+ + +N F+G +P ++ N + + LS N L G +PS +G L KL
Sbjct: 392 PKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWL 451
Query: 276 NSFYGSVPQSFSSLESIHRLVLSYNQLTGYVSEQICKLPNINNFTFSYNYFQG 328
N G +PQ ++++ L+L +N LTG + + N+N + S N G
Sbjct: 452 NMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTG 504
Score = 84.0 bits (206), Expect = 2e-16, Method: Compositional matrix adjust.
Identities = 58/187 (31%), Positives = 87/187 (46%), Gaps = 22/187 (11%)
Query: 126 LALFHVNSNRFCGIIPESLSNWKLIYEFDVSNNRLVGSFPNVCLSWTSLRYLDLRYNNFE 185
L ++ +N F G IP +LSN + +S N L G+ P+ S + LR L L N E
Sbjct: 396 LQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLE 455
Query: 186 GEVPRELFKMKLDAIFLNNNRFSSWIPETIGESTVSVVTFAHNNFSGCVPRSIGNMPNVN 245
GE+P+EL +K T+ + N+ +G +P + N N+N
Sbjct: 456 GEIPQELMYVK----------------------TLETLILDFNDLTGEIPSGLSNCTNLN 493
Query: 246 EIILSNNDLMGCLPSEIGWLKKLTVFDASSNSFYGSVPQSFSSLESIHRLVLSYNQLTGY 305
I LSNN L G +P IG L+ L + S+NSF G++P S+ L L+ N G
Sbjct: 494 WISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGT 553
Query: 306 VSEQICK 312
+ + K
Sbjct: 554 IPAAMFK 560
Score = 70.9 bits (172), Expect = 2e-12, Method: Compositional matrix adjust.
Identities = 71/302 (23%), Positives = 124/302 (41%), Gaps = 48/302 (15%)
Query: 107 LNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLSNWKLIYEFDVSNNRLVGSFPN 166
L N G P L S+L H++ N G IP SL + + + + N L G P
Sbjct: 401 LQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQ 460
Query: 167 VCLSWTSLRYLDLRYNNFEGEVPRELFK-MKLDAIFLNNNRFSSWIPETIGE-STVSVVT 224
+ +L L L +N+ GE+P L L+ I L+NNR + IP+ IG ++++
Sbjct: 461 ELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILK 520
Query: 225 FAHNNFSGCVPRSIGNMPNVNEIILSNNDLMGCLPSEI---------------------- 262
++N+FSG +P +G+ ++ + L+ N G +P+ +
Sbjct: 521 LSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKN 580
Query: 263 GWLKK-------LTVFDA-----------------SSNSFYGSVPQSFSSLESIHRLVLS 298
+KK L F +S + G +F + S+ L +S
Sbjct: 581 DGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMS 640
Query: 299 YNQLTGYVSEQICKLPNINNFTFSYNYFQGLGNECIPGSKEGGVFDDTSNCLAQRPSQKW 358
YN L+GY+ ++I +P + +N G + + + + D +SN L R Q
Sbjct: 641 YNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAM 700
Query: 359 AT 360
+
Sbjct: 701 SA 702
Score = 59.3 bits (142), Expect = 5e-09, Method: Compositional matrix adjust.
Identities = 37/120 (30%), Positives = 62/120 (51%), Gaps = 3/120 (2%)
Query: 86 YGVFCAPAPDNSNITVVAGIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLS 145
YG +P DN+ + +D++ N ++GY P E+G + L + ++ N G IP+ +
Sbjct: 620 YGGHTSPTFDNNGSMMF--LDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVG 677
Query: 146 NWKLIYEFDVSNNRLVGSFPNVCLSWTSLRYLDLRYNNFEGEVPRE-LFKMKLDAIFLNN 204
+ + + D+S+N+L G P + T L +DL NN G +P F+ A FLNN
Sbjct: 678 DLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNN 737
>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 = 82.8 bits (203), Expect = 4e-16, Method: Compositional matrix adjust.
Identities = 57/213 (26%), Positives = 93/213 (43%), Gaps = 7/213 (3%)
Query: 98 NITVVAGIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLSNWKLIYEFDVSN 157
N + GI N++ G P + L+ L ++ G IP+ LS K + D S
Sbjct: 79 NFLYIGGI----NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSY 134
Query: 158 NRLVGSFPNVCLSWTSLRYLDLRYNNFEGEVPREL--FKMKLDAIFLNNNRFSSWIPETI 215
N L G+ P S +L + N G +P F ++ ++ NR + IP T
Sbjct: 135 NALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTF 194
Query: 216 GESTVSVVTFAHNNFSGCVPRSIGNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDASS 275
++ V + N G G+ N +I L+ N L L ++G K L D +
Sbjct: 195 ANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDL-GKVGLSKNLNGLDLRN 253
Query: 276 NSFYGSVPQSFSSLESIHRLVLSYNQLTGYVSE 308
N YG++PQ + L+ +H L +S+N L G + +
Sbjct: 254 NRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ 286
Score = 52.8 bits (125), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 40/157 (25%), Positives = 70/157 (44%), Gaps = 20/157 (12%)
Query: 190 RELFKMKLDAIFLNNNRFSSWIPET----------IGESTVSVVTFAHNNFSGC------ 233
+ L ++K D N SSW+P T + ++ + + SG
Sbjct: 9 QALLQIKKD--LGNPTTLSSWLPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGLNLPKPY 66
Query: 234 -VPRSIGNMPNVNEIILSN-NDLMGCLPSEIGWLKKLTVFDASSNSFYGSVPQSFSSLES 291
+P S+ N+P +N + + N+L+G +P I L +L + + G++P S +++
Sbjct: 67 PIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKT 126
Query: 292 IHRLVLSYNQLTGYVSEQICKLPNINNFTFSYNYFQG 328
+ L SYN L+G + I LPN+ TF N G
Sbjct: 127 LVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISG 163
Score = 48.5 bits (114), Expect = 9e-06, Method: Compositional matrix adjust.
Identities = 43/171 (25%), Positives = 77/171 (45%), Gaps = 4/171 (2%)
Query: 84 SYYGVFCAPAPDNSNITVVAGIDLNGNDIAGYFPAELGWLSDL-ALFHVNSNRFCGIIPE 142
SY + P S++ + GI +GN I+G P G S L ++ NR G IP
Sbjct: 133 SYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPP 192
Query: 143 SLSNWKLIYEFDVSNNRLVGSFPNVCLSWTSLRYLDLRYNNFEGEVPRELFKMKLDAIFL 202
+ +N L + D+S N L G + S + + + L N+ ++ + L+ + L
Sbjct: 193 TFANLNLAF-VDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDL 251
Query: 203 NNNRFSSWIPETIGE-STVSVVTFAHNNFSGCVPRSIGNMPNVNEIILSNN 252
NNR +P+ + + + + + NN G +P+ GN+ + +NN
Sbjct: 252 RNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQG-GNLQRFDVSAYANN 301
>pdb|2FT3|A Chain A, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|B Chain B, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|C Chain C, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|D Chain D, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|E Chain E, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|F Chain F, Crystal Structure Of The Biglycan Dimer Core Protein
Length = 332
Score = 38.5 bits (88), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 49/225 (21%), Positives = 91/225 (40%), Gaps = 14/225 (6%)
Query: 83 CSYYGVFCAPAPDNSNITVVAGIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPE 142
CS G+ P + + T+ +DL NDI+ + L L + +N+ I +
Sbjct: 40 CSDLGLKAVPKEISPDTTL---LDLQNNDISELRKDDFKGLQHLYALVLVNNKISKIHEK 96
Query: 143 SLSNWKLIYEFDVSNNRLVGSFPNVCLSWTSLRYLDLRYNNFEGEVPRELFK--MKLDAI 200
+ S + + + +S N LV PN+ S LR D R +VP+ +F ++ I
Sbjct: 97 AFSPLRKLQKLYISKNHLVEIPPNLPSSLVELRIHDNRIR----KVPKGVFSGLRNMNCI 152
Query: 201 FLNNNRF--SSWIPETIGESTVSVVTFAHNNFSGCVPRSIGNMPNVNEIILSNNDLMGCL 258
+ N S + P ++ + + +G +P+ + +NE+ L +N +
Sbjct: 153 EMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTG-IPKDLPE--TLNELHLDHNKIQAIE 209
Query: 259 PSEIGWLKKLTVFDASSNSFYGSVPQSFSSLESIHRLVLSYNQLT 303
++ KL N S S L ++ L L N+L+
Sbjct: 210 LEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNKLS 254
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 37.7 bits (86), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 46/197 (23%), Positives = 73/197 (37%), Gaps = 16/197 (8%)
Query: 175 RYLDLRYNNFEGEVPRELFK--MKLDAIFLNNNRFSSWIPETIGESTVSVVTF-AHNNFS 231
+ LDL+ N +P + F KL ++LN+N+ + +P I + ++ T +N
Sbjct: 40 KKLDLQSNKLSS-LPSKAFHRLTKLRLLYLNDNKLQT-LPAGIFKELKNLETLWVTDNKL 97
Query: 232 GCVPRSI-GNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDASSNSFYGSVPQSFSSLE 290
+P + + N+ E+ L N L P L KLT N F L
Sbjct: 98 QALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLT 157
Query: 291 SIHRLVLSYNQLTGYVSEQICKLPNINNFTFSYNYFQGLGNECIPGSKEGGVFDDTSNC- 349
S+ L L NQL KL + N + +P G FD
Sbjct: 158 SLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKR-----VP----EGAFDSLEKLK 208
Query: 350 LAQRPSQKWATTCSPVV 366
+ Q W TC+ ++
Sbjct: 209 MLQLQENPWDCTCNGII 225
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 36.6 bits (83), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 42/200 (21%), Positives = 81/200 (40%), Gaps = 5/200 (2%)
Query: 105 IDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLSNWKLIYEFDVSNNRLVGSF 164
I L+GN I+ A +L + ++SN I + + L+ + D+S+N + S
Sbjct: 36 IFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSV 95
Query: 165 -PNVCLSWTSLRYLDLRYNNFEGEVPRELFK--MKLDAIFLNNNRFSSWIPETIGESTVS 221
P L L L + E+ LF+ L ++L +N + +T +
Sbjct: 96 DPATFHGLGRLHTLHLDRCGLQ-ELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNL 154
Query: 222 VVTFAHNNFSGCVP-RSIGNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDASSNSFYG 280
F H N VP R+ + +++ ++L N + P L +L +N+
Sbjct: 155 THLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSA 214
Query: 281 SVPQSFSSLESIHRLVLSYN 300
++ + L ++ L L+ N
Sbjct: 215 LPTEALAPLRALQYLRLNDN 234
>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 = 36.6 bits (83), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 42/200 (21%), Positives = 81/200 (40%), Gaps = 5/200 (2%)
Query: 105 IDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLSNWKLIYEFDVSNNRLVGSF 164
I L+GN I+ A +L + ++SN I + + L+ + D+S+N + S
Sbjct: 37 IFLHGNRISHVPAASFRACRNLTILWLHSNVLARIDAAAFTGLALLEQLDLSDNAQLRSV 96
Query: 165 -PNVCLSWTSLRYLDLRYNNFEGEVPRELFK--MKLDAIFLNNNRFSSWIPETIGESTVS 221
P L L L + E+ LF+ L ++L +N + +T +
Sbjct: 97 DPATFHGLGRLHTLHLDRCGLQ-ELGPGLFRGLAALQYLYLQDNALQALPDDTFRDLGNL 155
Query: 222 VVTFAHNNFSGCVP-RSIGNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDASSNSFYG 280
F H N VP R+ + +++ ++L N + P L +L +N+
Sbjct: 156 THLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSA 215
Query: 281 SVPQSFSSLESIHRLVLSYN 300
++ + L ++ L L+ N
Sbjct: 216 LPTEALAPLRALQYLRLNDN 235
>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 = 36.6 bits (83), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 49/231 (21%), Positives = 96/231 (41%), Gaps = 14/231 (6%)
Query: 106 DLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLSNWKLIYEFDVSNNRLVGSFP 165
D++ DI+ L +S +L ++ +RF I + + + E D++ L G P
Sbjct: 234 DIDDEDISSAMLKGLCEMSVESL-NLQEHRFSDISSTTFQCFTQLQELDLTATHLKG-LP 291
Query: 166 NVCLSWTSLRYLDLRYNNFEG--EVPRELFKMKLDAIFLNNN----RFSSWIPETIGEST 219
+ L+ L L N+F+ ++ F L +++ N E +G
Sbjct: 292 SGMKGLNLLKKLVLSVNHFDQLCQISAANFP-SLTHLYIRGNVKKLHLGVGCLEKLG--N 348
Query: 220 VSVVTFAHNNF--SGCVPRSIGNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDASSNS 277
+ + +HN+ S C + N+ ++ + LS+N+ +G +L + D +
Sbjct: 349 LQTLDLSHNDIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQAFKECPQLELLDLAFTR 408
Query: 278 FYGSVPQS-FSSLESIHRLVLSYNQLTGYVSEQICKLPNINNFTFSYNYFQ 327
+ + PQS F +L + L L+Y L + LP + + N+FQ
Sbjct: 409 LHINAPQSPFQNLHFLQVLNLTYCFLDTSNQHLLAGLPVLRHLNLKGNHFQ 459
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 36.2 bits (82), Expect = 0.048, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 45/84 (53%), Gaps = 7/84 (8%)
Query: 104 GIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGI-IPESLSNWKLIYEFDVSNNRLVG 162
+ L+ N I+ ++ +LS+L + ++ NR + L N L Y DVS+NRL
Sbjct: 56 ALSLSQNSISELRMPDISFLSELRVLRLSHNRIRSLDFHVFLFNQDLEY-LDVSHNRL-- 112
Query: 163 SFPNV-CLSWTSLRYLDLRYNNFE 185
N+ C SLR+LDL +N+F+
Sbjct: 113 --QNISCCPMASLRHLDLSFNDFD 134
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 36.2 bits (82), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 35/81 (43%), Gaps = 5/81 (6%)
Query: 228 NNFSGCVPRSIGNMPN-----VNEIILSNNDLMGCLPSEIGWLKKLTVFDASSNSFYGSV 282
NN C + + +P + EI L N + P KKL D S+N
Sbjct: 13 NNIVDCRGKGLTEIPTNLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELA 72
Query: 283 PQSFSSLESIHRLVLSYNQLT 303
P +F L S++ LVL N++T
Sbjct: 73 PDAFQGLRSLNSLVLYGNKIT 93
Score = 29.6 bits (65), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 139 IIPESLSNWKLIYEFDVSNNRLVGSFPNVCLSWTSLRYLDLRYNNFEGEVPRELFK 194
I P + S +K + D+SNN++ P+ SL L L Y N E+P+ LF+
Sbjct: 47 IPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVL-YGNKITELPKSLFE 101
>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 = 36.2 bits (82), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 35/81 (43%), Gaps = 5/81 (6%)
Query: 228 NNFSGCVPRSIGNMPN-----VNEIILSNNDLMGCLPSEIGWLKKLTVFDASSNSFYGSV 282
NN C + + +P + EI L N + P KKL D S+N
Sbjct: 13 NNIVDCRGKGLTEIPTNLPETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQISELA 72
Query: 283 PQSFSSLESIHRLVLSYNQLT 303
P +F L S++ LVL N++T
Sbjct: 73 PDAFQGLRSLNSLVLYGNKIT 93
Score = 29.6 bits (65), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 19/56 (33%), Positives = 29/56 (51%), Gaps = 1/56 (1%)
Query: 139 IIPESLSNWKLIYEFDVSNNRLVGSFPNVCLSWTSLRYLDLRYNNFEGEVPRELFK 194
I P + S +K + D+SNN++ P+ SL L L Y N E+P+ LF+
Sbjct: 47 IPPGAFSPYKKLRRIDLSNNQISELAPDAFQGLRSLNSLVL-YGNKITELPKSLFE 101
>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 = 34.7 bits (78), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 27/115 (23%), Positives = 49/115 (42%), Gaps = 5/115 (4%)
Query: 188 VPRELFKMKLDAIFLNNNRFSSWIPETIGESTVSVVTFAHNNFSGCVPRSIGNMPNVNEI 247
+PR++ ++ LD N+F+ E ++++ ++N S +S NM + +
Sbjct: 29 IPRDVTELYLDG-----NQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTL 83
Query: 248 ILSNNDLMGCLPSEIGWLKKLTVFDASSNSFYGSVPQSFSSLESIHRLVLSYNQL 302
ILS N L P LK L + N +F+ L ++ L + N L
Sbjct: 84 ILSYNRLRCIPPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPL 138
Score = 30.8 bits (68), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 25/83 (30%), Positives = 35/83 (42%), Gaps = 1/83 (1%)
Query: 102 VAGIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLSNWKLIYEFDVSNNRLV 161
V + L+GN P EL L L +++NR + +S SN + +S NRL
Sbjct: 33 VTELYLDGNQFT-LVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLR 91
Query: 162 GSFPNVCLSWTSLRYLDLRYNNF 184
P SLR L L N+
Sbjct: 92 CIPPRTFDGLKSLRLLSLHGNDI 114
Score = 29.3 bits (64), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 26/107 (24%), Positives = 47/107 (43%), Gaps = 2/107 (1%)
Query: 197 LDAIFLNNNRFSSWIPETIGESTVSVVTFAHNNFSGCVPRSIGNMPNVNEIILSNNDLMG 256
LD + +N+ +P+ I V+ + N F+ VP+ + N ++ I LSNN +
Sbjct: 11 LDTVVRCSNKGLKVLPKGIPRD-VTELYLDGNQFT-LVPKELSNYKHLTLIDLSNNRIST 68
Query: 257 CLPSEIGWLKKLTVFDASSNSFYGSVPQSFSSLESIHRLVLSYNQLT 303
+ +L S N P++F L+S+ L L N ++
Sbjct: 69 LSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGNDIS 115
>pdb|3V47|A Chain A, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
pdb|3V47|B Chain B, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
Length = 455
Score = 33.5 bits (75), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 46/220 (20%), Positives = 85/220 (38%), Gaps = 39/220 (17%)
Query: 172 TSLRYLDLRYNNFEGEVPRELFKM----KLDAIFLNN--NRFSSW-----------IPET 214
TS+ LDL N F+ + + F K+ ++ L+N N SS+ +
Sbjct: 212 TSITTLDLSGNGFKESMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKG 271
Query: 215 IGESTVSVVTFAHNNFSGCVPRSIGNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDAS 274
+ S V + + + + ++ ++ L+ N++ + L L + S
Sbjct: 272 LEASGVKTCDLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLS 331
Query: 275 SNSFYGSV-PQSFSSLESIHRLVLSYNQLTGYVSEQICKLPNINNFTFSYNYFQGLGNEC 333
N F GS+ + F +L+ + L LSYN + + LPN+ N + + +
Sbjct: 332 QN-FLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTNQLKSVPD-- 388
Query: 334 IPGSKEGGVFDDTSNCLAQRPSQKWATTCSPVVSNPVDCS 373
G+FD ++ + W T NP DCS
Sbjct: 389 -------GIFDRLTSL-----QKIWLHT------NPWDCS 410
>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 = 33.5 bits (75), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 59/261 (22%), Positives = 102/261 (39%), Gaps = 30/261 (11%)
Query: 83 CSYYGVFCAPAPDNSNITVVAGIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPE 142
CS+ + P SNITV ++L N + P S LA+ N + PE
Sbjct: 11 CSHLKLTHIPDDLPSNITV---LNLTHNQLRRLPPTNFTRYSQLAILDAGFNSISKLEPE 67
Query: 143 SLSNWKLIYEFDVSNNRLVGSFPNVCLSWTSLRYLDLRYNNFEGEVPRELFKMKLDAIFL 202
L+ ++ +N L + T+L LDL N+ ++ FK + + I L
Sbjct: 68 LCQILPLLKVLNLQHNELSQISDQTFVFCTNLTELDLMSNSIH-KIKSNPFKNQKNLIKL 126
Query: 203 NNNRFSSWIPETIGESTVSVVTFAHNNFSGCVPRSIGNMPNVNEIILSNNDLMGCLPSEI 262
+ +HN S + + N+ E++L+ N ++ E+
Sbjct: 127 D---------------------LSHNGLSSTKLGTGVQLENLQELLLAKNKILALRSEEL 165
Query: 263 GWL--KKLTVFDASSNSFYGSVPQSFSSLESIHRLVLSYNQLTGYVSEQIC-KLPN--IN 317
+L L D SSN P F ++ + L+L+ QL +++E++C +L N I
Sbjct: 166 EFLGNSSLRKLDLSSNPLKEFSPGCFQTIGKLFALLLNNAQLNPHLTEKLCWELSNTSIQ 225
Query: 318 NFTFSYNYFQGLGNECIPGSK 338
N + + N G K
Sbjct: 226 NLSLANNQLLATSESTFSGLK 246
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 49/221 (22%), Positives = 81/221 (36%), Gaps = 50/221 (22%)
Query: 147 WKLIYEFDVSNNRLV----GSFPNVCLSWTSLRYLDLRYNNFEGEVPRELFKMKLDAIFL 202
W + + D+S N L GSF + SLRYL L YNN + PR + L
Sbjct: 247 WTNLTQLDLSYNNLHDVGNGSFSYL----PSLRYLSLEYNNIQRLSPRSFYG-------L 295
Query: 203 NNNRFSSWIPETIGESTVSVVTFAHNNFSGCVPRSIGNMPNVNEIILSNNDLMGCLPSEI 262
+N R+ S +S S+ + PN+++
Sbjct: 296 SNLRYLSLKRAFTKQSV-----------------SLASHPNIDDF-------------SF 325
Query: 263 GWLKKLTVFDASSNSFYGSVPQSFSSLESIHRLVLS--YNQLTGYVSEQICKLPN--INN 318
WLK L + N+ + +F+ L S+ L LS + L +E L + +
Sbjct: 326 QWLKYLEYLNMDDNNIPSTKSNTFTGLVSLKYLSLSKTFTSLQTLTNETFVSLAHSPLLT 385
Query: 319 FTFSYNYFQGLGNECIPGSKEGGVFDDTSNCLAQRPS-QKW 358
+ N+ + N + + D N + Q+ S Q+W
Sbjct: 386 LNLTKNHISKIANGTFSWLGQLRILDLGLNEIEQKLSGQEW 426
Score = 29.6 bits (65), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 50/195 (25%), Positives = 78/195 (40%), Gaps = 48/195 (24%)
Query: 172 TSLRYLDLRYNNFEGEVPRELFKM-KLDAIFLNNNRFSSWIPETIGESTVSVVTFAHNNF 230
+SLR LDL N + P + KL A+ LNN + + + E +
Sbjct: 171 SSLRKLDLSSNPLKEFSPGCFQTIGKLFALLLNNAQLNPHLTEKL--------------- 215
Query: 231 SGCVPRSIGNMPNVNEIILSNNDLMGCLPSEIGWLK--KLTVFDASSNSFYGSVPQSFSS 288
C S ++ N++ L+NN L+ S LK LT D S N+ + SFS
Sbjct: 216 --CWELSNTSIQNLS---LANNQLLATSESTFSGLKWTNLTQLDLSYNNLHDVGNGSFSY 270
Query: 289 LESIHRLVLSYNQLT-------------GYVSEQ---------ICKLPNINNFTFS---Y 323
L S+ L L YN + Y+S + + PNI++F+F Y
Sbjct: 271 LPSLRYLSLEYNNIQRLSPRSFYGLSNLRYLSLKRAFTKQSVSLASHPNIDDFSFQWLKY 330
Query: 324 NYFQGLGNECIPGSK 338
+ + + IP +K
Sbjct: 331 LEYLNMDDNNIPSTK 345
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 33.1 bits (74), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 42/113 (37%), Gaps = 11/113 (9%)
Query: 236 RSIGNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDASSNSFYGSVPQSFSSLESIHRL 295
+ I +PNV + L N L S + L LT + N F L ++ L
Sbjct: 57 QGIQYLPNVRYLALGGNKLHDI--SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKEL 114
Query: 296 VLSYNQLTGYVSEQICKLPNINNFTFSYNYFQGLGNECIPGSKEGGVFDDTSN 348
VL NQL KL N+ ++N Q L GVFD +N
Sbjct: 115 VLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSL---------PKGVFDKLTN 158
Score = 30.4 bits (67), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 25/104 (24%), Positives = 38/104 (36%), Gaps = 9/104 (8%)
Query: 241 MPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDASSNSFYGSVPQSFSSLESIHRLVLSYN 300
+ N+ E++L N L L LT + + N F L ++ L LSYN
Sbjct: 108 LTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYN 167
Query: 301 QLTGYVSEQICKLPNINNFTFSYNYFQGLGNECIPGSKEGGVFD 344
QL KL + + N + + + GVFD
Sbjct: 168 QLQSLPEGVFDKLTQLKDLRLYQNQLKSVPD---------GVFD 202
>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 597
Score = 32.7 bits (73), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 30/113 (26%), Positives = 47/113 (41%), Gaps = 5/113 (4%)
Query: 219 TVSVVTFAHNNFSGCVPRSIGNMPNVNEIILSNNDLMGCLPSEIGW-LKKLTVFDASSNS 277
T+ + N P N+P + ++L NDL LP I KLT S+N+
Sbjct: 100 TIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDL-SSLPRGIFHNTPKLTTLSMSNNN 158
Query: 278 FYGSVPQSFSSLESIHRLVLSYNQLTGYVSEQICKLPNINNFTFSYNYFQGLG 330
+F + S+ L LS N+LT + +P++ + SYN L
Sbjct: 159 LERIEDDTFQATTSLQNLQLSSNRLTHV---DLSLIPSLFHANVSYNLLSTLA 208
>pdb|3O6N|A Chain A, Crystal Structure Of Apl1 Leucine-Rich Repeat Domain
Length = 390
Score = 32.0 bits (71), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 33/122 (27%), Positives = 51/122 (41%), Gaps = 8/122 (6%)
Query: 219 TVSVVTFAHNNFSGCVPRSIGNMPNVNEIILSNNDLMGCLPSEIGW-LKKLTVFDASSNS 277
T+ + N P N+P + ++L NDL LP I KLT S+N+
Sbjct: 94 TIQKLYMGFNAIRYLPPHVFQNVPLLTVLVLERNDL-SSLPRGIFHNTPKLTTLSMSNNN 152
Query: 278 FYGSVPQSFSSLESIHRLVLSYNQLTGYVSEQICKLPNINNFTFSYNYFQGLGNECIPGS 337
+F + S+ L LS N+LT + +P++ + SYN L IP +
Sbjct: 153 LERIEDDTFQATTSLQNLQLSSNRLTHV---DLSLIPSLFHANVSYNLLSTLA---IPIA 206
Query: 338 KE 339
E
Sbjct: 207 VE 208
>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 = 31.6 bits (70), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 30/104 (28%), Positives = 49/104 (47%), Gaps = 9/104 (8%)
Query: 107 LNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPE--SLSNWKLIYEFDVSNNRLVGSF 164
LNGN + PAE+ LS+L + ++ NR + E S K Y FD L F
Sbjct: 254 LNGNSLTE-LPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYFFDNMVTTLPWEF 312
Query: 165 PNVCLSWTSLRYLDLRYNNFEGEVPRELFKMKLDAI--FLNNNR 206
N+C +L++L + N E + + L + + + +L +NR
Sbjct: 313 GNLC----NLQFLGVEGNPLEKQFLKILTEKSVTGLIFYLRDNR 352
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 31.2 bits (69), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 41/113 (36%), Gaps = 11/113 (9%)
Query: 236 RSIGNMPNVNEIILSNNDLMGCLPSEIGWLKKLTVFDASSNSFYGSVPQSFSSLESIHRL 295
+ I +PNV + L N L S + L LT + N F L ++ L
Sbjct: 57 QGIQYLPNVRYLALGGNKLHDI--SALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKEL 114
Query: 296 VLSYNQLTGYVSEQICKLPNINNFTFSYNYFQGLGNECIPGSKEGGVFDDTSN 348
VL NQL KL N+ +N Q L GVFD +N
Sbjct: 115 VLVENQLQSLPDGVFDKLTNLTYLYLYHNQLQSL---------PKGVFDKLTN 158
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 30.8 bits (68), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 28/116 (24%), Positives = 51/116 (43%), Gaps = 4/116 (3%)
Query: 216 GESTVSVVTFAHNN-FSGCVPRSIGNMPNVNEIILSNNDLMGCLPSEI-GWLKKLTVFDA 273
G T + + + H+N + P ++ N+ E+ L +N L G LP + L +LTV D
Sbjct: 37 GIPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQL-GALPVGVFDSLTQLTVLDL 95
Query: 274 SSNSFYGSVPQSFSSLESIHRLVLSYNQLTGYVSEQICKLPNINNFTFSYNYFQGL 329
+N F L + L + N+LT + I +L ++ + N + +
Sbjct: 96 GTNQLTVLPSAVFDRLVHLKELFMCCNKLT-ELPRGIERLTHLTHLALDQNQLKSI 150
>pdb|4FMZ|A Chain A, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
pdb|4FMZ|B Chain B, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
Length = 347
Score = 30.4 bits (67), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 38/161 (23%), Positives = 67/161 (41%), Gaps = 28/161 (17%)
Query: 97 SNITVVAGIDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLSNWKLIYEFDVS 156
+N+T + + LN N I P L L+ L F N+ I P ++N + +
Sbjct: 174 ANLTDLYSLSLNYNQIEDISP--LASLTSLHYFTAYVNQITDITP--VANXTRLNSLKIG 229
Query: 157 NNRLVGSFPNVCLSWTSLRYLDLRYNNFEG-EVPRELFKMK------------------- 196
NN++ P LS L +L++ N ++L K+K
Sbjct: 230 NNKITDLSPLANLSQ--LTWLEIGTNQISDINAVKDLTKLKXLNVGSNQISDISVLNNLS 287
Query: 197 -LDAIFLNNNRFSSWIPETIGEST-VSVVTFAHNNFSGCVP 235
L+++FLNNN+ + E IG T ++ + + N+ + P
Sbjct: 288 QLNSLFLNNNQLGNEDXEVIGGLTNLTTLFLSQNHITDIRP 328
>pdb|2VEO|A Chain A, X-Ray Structure Of Candida Antarctica Lipase A In Its
Closed State.
pdb|2VEO|B Chain B, X-Ray Structure Of Candida Antarctica Lipase A In Its
Closed State
Length = 441
Score = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 43/88 (48%), Gaps = 6/88 (6%)
Query: 233 CVPRSIGNMPNVNEIILSNN-DLMGCLPSEIGWLKKLTVFDASSNSFYGSVPQSFSSL-- 289
C+P+ + P +N L N+ +L+ P G LK+ TV A + S+ SVP+ F
Sbjct: 273 CLPQVVLTYPFLNVFSLVNDTNLLNEAPIA-GILKQETVVQAEA-SYTVSVPK-FPRFIW 329
Query: 290 ESIHRLVLSYNQLTGYVSEQICKLPNIN 317
+I ++ Y YV EQ K NIN
Sbjct: 330 HAIPDEIVPYQPAATYVKEQCAKGANIN 357
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 30.0 bits (66), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%)
Query: 105 IDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLSNWKLIYEFDVSNNRLV 161
+ L+GN I A L L++LA ++ N + SL+N + E ++NN+LV
Sbjct: 197 LHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV 253
>pdb|1XCD|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 1
pdb|1XEC|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
pdb|1XEC|B Chain B, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
Length = 329
Score = 30.0 bits (66), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%)
Query: 105 IDLNGNDIAGYFPAELGWLSDLALFHVNSNRFCGIIPESLSNWKLIYEFDVSNNRLV 161
+ L+GN I A L L++LA ++ N + SL+N + E ++NN+LV
Sbjct: 197 LHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLV 253
>pdb|3FBY|A Chain A, The Crystal Structure Of The Signature Domain Of Cartilage
Oligomeric Matrix Protein.
pdb|3FBY|B Chain B, The Crystal Structure Of The Signature Domain Of Cartilage
Oligomeric Matrix Protein.
pdb|3FBY|C Chain C, The Crystal Structure Of The Signature Domain Of Cartilage
Oligomeric Matrix Protein
Length = 551
Score = 28.5 bits (62), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 25/60 (41%), Gaps = 7/60 (11%)
Query: 328 GLGNECIPGSKEGGVFDDTSNC-LAQRPSQ------KWATTCSPVVSNPVDCSKDVCLGG 380
G+G+ C P + GV ++ NC L + P Q KW C S D KD G
Sbjct: 99 GIGDACDPDADGDGVPNEKDNCPLVRNPDQRNTDEDKWGDACDNCRSQKNDDQKDTDQDG 158
>pdb|2XOT|A Chain A, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
pdb|2XOT|B Chain B, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
Length = 361
Score = 28.5 bits (62), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 14/43 (32%), Positives = 22/43 (51%)
Query: 287 SSLESIHRLVLSYNQLTGYVSEQICKLPNINNFTFSYNYFQGL 329
+ L ++H L+LS+N L SE +PN+ S N+ L
Sbjct: 61 TRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHLHTL 103
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 0.137 0.434
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,937,683
Number of Sequences: 62578
Number of extensions: 500016
Number of successful extensions: 1195
Number of sequences better than 100.0: 37
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 1016
Number of HSP's gapped (non-prelim): 102
length of query: 527
length of database: 14,973,337
effective HSP length: 103
effective length of query: 424
effective length of database: 8,527,803
effective search space: 3615788472
effective search space used: 3615788472
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)