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= 044980
(313 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 = 52.0 bits (123), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 58/188 (30%), Positives = 85/188 (45%), Gaps = 28/188 (14%)
Query: 146 LRHLFFIVLSYNQFQGKIPSTLGNLT-SLKQIDLSHNQFNFTSP---------------- 188
+R L + LS+N+F G++P +L NL+ SL +DLS N NF+ P
Sbjct: 339 MRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSN--NFSGPILPNLCQNPKNTLQEL 396
Query: 189 -----GWLSKLNELSSFLLNLVSCMVRFHQL---IPTSFIRLCKLTSIDFSSVKLSQDIS 240
G+ K+ S LVS + F+ L IP+S L KL + L +I
Sbjct: 397 YLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIP 456
Query: 241 QVLDIFSAYGTYALVSLILSHCQISAALGKLSSLRNLDFSLNMLNGSIPLSLGQISHLEY 300
Q L T L L+ +I + L ++L + S N L G IP +G++ +L
Sbjct: 457 QELMYVKTLETLILDFNDLTG-EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAI 515
Query: 301 LDLSNNKF 308
L LSNN F
Sbjct: 516 LKLSNNSF 523
Score = 50.8 bits (120), Expect = 9e-07, Method: Compositional matrix adjust.
Identities = 57/210 (27%), Positives = 85/210 (40%), Gaps = 45/210 (21%)
Query: 142 WIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFL 201
WI L +L + LS N F G IP+ LG+ SL +DL+ N FN T P + K +
Sbjct: 506 WIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFK--QSGKIA 563
Query: 202 LNLVSCM-------------------------VRFHQLIPTSFIRLCKLTSIDF---SSV 233
N ++ +R QL S C +TS + +S
Sbjct: 564 ANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSP 623
Query: 234 KLSQDISQVL-----DIFSAYGTYALVSLI------LSHCQISAAL----GKLSSLRNLD 278
+ S + ++ S Y + S+ L H IS ++ G L L LD
Sbjct: 624 TFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILD 683
Query: 279 FSLNMLNGSIPLSLGQISHLEYLDLSNNKF 308
S N L+G IP ++ ++ L +DLSNN
Sbjct: 684 LSSNKLDGRIPQAMSALTMLTEIDLSNNNL 713
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 50/160 (31%), Positives = 80/160 (50%), Gaps = 11/160 (6%)
Query: 152 IVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSP---GWLSKLNELSSFLLNLVSCM 208
+ L N F GKIP TL N + L + LS N + T P G LSKL +L LN++
Sbjct: 396 LYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDL-KLWLNMLEGE 454
Query: 209 VRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISAAL 268
+ +L+ +++ + +DF+ L+ +I L + +L + L+ +I +
Sbjct: 455 IP-QELM---YVKTLETLILDFN--DLTGEIPSGLSNCTNLNWISLSNNRLTG-EIPKWI 507
Query: 269 GKLSSLRNLDFSLNMLNGSIPLSLGQISHLEYLDLSNNKF 308
G+L +L L S N +G+IP LG L +LDL+ N F
Sbjct: 508 GRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLF 547
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 48/94 (51%), Gaps = 4/94 (4%)
Query: 149 LFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLLNLVSCM 208
+ F+ +SYN G IP +G++ L ++L HN + + P + L L+ +L+L S
Sbjct: 631 MMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLN--ILDLSSN- 687
Query: 209 VRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQV 242
+ IP + L LT ID S+ LS I ++
Sbjct: 688 -KLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEM 720
Score = 38.9 bits (89), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 48/177 (27%), Positives = 77/177 (43%), Gaps = 19/177 (10%)
Query: 148 HLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLN-----ELSSFLL 202
+L +I LS N+ G+IP +G L +L + LS+N F+ P L +L++ L
Sbjct: 488 NLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLF 547
Query: 203 N--LVSCMVRFHQLIPTSFIRLCKLTSIDFSSVKLS----------QDI-SQVLDIFSAY 249
N + + M + I +FI + I +K Q I S+ L+ S
Sbjct: 548 NGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTR 607
Query: 250 GTYALVSLILSHCQISAALGKLSSLRNLDFSLNMLNGSIPLSLGQISHLEYLDLSNN 306
+ S + S S+ LD S NML+G IP +G + +L L+L +N
Sbjct: 608 NPCNITSRVYGG-HTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHN 663
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 58/214 (27%), Positives = 79/214 (36%), Gaps = 48/214 (22%)
Query: 146 LRHLFFIVLSYNQFQGKIPSTL-GNLTSLKQIDLSHNQFNFTSPGWLS----------KL 194
L+ L ++ L+ N+F G+IP L G +L +DLS N F P +
Sbjct: 265 LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSS 324
Query: 195 NELSS-----FLLNLVSCMV------RFHQLIPTSFIRL-CKLTSIDFSSVKLS------ 236
N S LL + V F +P S L L ++D SS S
Sbjct: 325 NNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPN 384
Query: 237 --QDISQVLD--IFSAYGTYALVSLILSHCQ---------------ISAALGKLSSLRNL 277
Q+ L G + LS+C I ++LG LS LR+L
Sbjct: 385 LCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDL 444
Query: 278 DFSLNMLNGSIPLSLGQISHLEYLDLSNNKFVTK 311
LNML G IP L + LE L L N +
Sbjct: 445 KLWLNMLEGEIPQELMYVKTLETLILDFNDLTGE 478
Score = 36.2 bits (82), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 4/73 (5%)
Query: 128 IDLGQVHLGKASDCWIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTS 187
++LG + + + LR L + LS N+ G+IP + LT L +IDLS+N +
Sbjct: 658 LNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLS--- 714
Query: 188 PGWLSKLNELSSF 200
G + ++ + +F
Sbjct: 715 -GPIPEMGQFETF 726
Score = 34.3 bits (77), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 45/169 (26%), Positives = 81/169 (47%), Gaps = 28/169 (16%)
Query: 154 LSYNQFQGKIPS--TLGNLTSLKQIDLSHNQFNFTSPGWLS---KLNELSSFLLNLVSCM 208
LS N G + + +LG+ + LK +++S N +F PG +S KLN L +L+L +
Sbjct: 104 LSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDF--PGKVSGGLKLNSLE--VLDLSANS 159
Query: 209 VRFHQLIPTSFIRLC-KLTSIDFSSVKLSQDIS-------QVLDIFSAYGTYALVSLILS 260
+ ++ C +L + S K+S D+ + LD+ S + +
Sbjct: 160 ISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVNLEFLDVSSNNFSTGI------ 213
Query: 261 HCQISAALGKLSSLRNLDFSLNMLNGSIPLSLGQISHLEYLDLSNNKFV 309
LG S+L++LD S N L+G ++ + L+ L++S+N+FV
Sbjct: 214 -----PFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFV 257
Score = 33.5 bits (75), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 57/233 (24%), Positives = 86/233 (36%), Gaps = 64/233 (27%)
Query: 126 EHIDLGQVHLGKASDCWIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNF 185
+H+D+ L I + L + +S NQF G IP L SL+ + L+ N+F
Sbjct: 223 QHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL--PLKSLQYLSLAENKFTG 280
Query: 186 TSPGWLSKLNELSSFLLNLVSCMVRFHQLIPTSF-------------------------I 220
P +LS + L L F+ +P F +
Sbjct: 281 EIPDFLSGACDT---LTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLL 337
Query: 221 RLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSH-----------CQ------ 263
++ L +D S + S ++ + L SA +L++L LS CQ
Sbjct: 338 KMRGLKVLDLSFNEFSGELPESLTNLSA----SLLTLDLSSNNFSGPILPNLCQNPKNTL 393
Query: 264 -------------ISAALGKLSSLRNLDFSLNMLNGSIPLSLGQISHLEYLDL 303
I L S L +L S N L+G+IP SLG +S L L L
Sbjct: 394 QELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKL 446
>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 = 51.6 bits (122), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 58/188 (30%), Positives = 85/188 (45%), Gaps = 28/188 (14%)
Query: 146 LRHLFFIVLSYNQFQGKIPSTLGNLT-SLKQIDLSHNQFNFTSP---------------- 188
+R L + LS+N+F G++P +L NL+ SL +DLS N NF+ P
Sbjct: 342 MRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSN--NFSGPILPNLCQNPKNTLQEL 399
Query: 189 -----GWLSKLNELSSFLLNLVSCMVRFHQL---IPTSFIRLCKLTSIDFSSVKLSQDIS 240
G+ K+ S LVS + F+ L IP+S L KL + L +I
Sbjct: 400 YLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIP 459
Query: 241 QVLDIFSAYGTYALVSLILSHCQISAALGKLSSLRNLDFSLNMLNGSIPLSLGQISHLEY 300
Q L T L L+ +I + L ++L + S N L G IP +G++ +L
Sbjct: 460 QELMYVKTLETLILDFNDLTG-EIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAI 518
Query: 301 LDLSNNKF 308
L LSNN F
Sbjct: 519 LKLSNNSF 526
Score = 50.8 bits (120), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 57/210 (27%), Positives = 85/210 (40%), Gaps = 45/210 (21%)
Query: 142 WIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFL 201
WI L +L + LS N F G IP+ LG+ SL +DL+ N FN T P + K +
Sbjct: 509 WIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFK--QSGKIA 566
Query: 202 LNLVSCM-------------------------VRFHQLIPTSFIRLCKLTSIDF---SSV 233
N ++ +R QL S C +TS + +S
Sbjct: 567 ANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSP 626
Query: 234 KLSQDISQVL-----DIFSAYGTYALVSLI------LSHCQISAAL----GKLSSLRNLD 278
+ S + ++ S Y + S+ L H IS ++ G L L LD
Sbjct: 627 TFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILD 686
Query: 279 FSLNMLNGSIPLSLGQISHLEYLDLSNNKF 308
S N L+G IP ++ ++ L +DLSNN
Sbjct: 687 LSSNKLDGRIPQAMSALTMLTEIDLSNNNL 716
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 50/160 (31%), Positives = 80/160 (50%), Gaps = 11/160 (6%)
Query: 152 IVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSP---GWLSKLNELSSFLLNLVSCM 208
+ L N F GKIP TL N + L + LS N + T P G LSKL +L LN++
Sbjct: 399 LYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDL-KLWLNMLEGE 457
Query: 209 VRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISAAL 268
+ +L+ +++ + +DF+ L+ +I L + +L + L+ +I +
Sbjct: 458 IP-QELM---YVKTLETLILDFN--DLTGEIPSGLSNCTNLNWISLSNNRLTG-EIPKWI 510
Query: 269 GKLSSLRNLDFSLNMLNGSIPLSLGQISHLEYLDLSNNKF 308
G+L +L L S N +G+IP LG L +LDL+ N F
Sbjct: 511 GRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLF 550
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 29/94 (30%), Positives = 48/94 (51%), Gaps = 4/94 (4%)
Query: 149 LFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLLNLVSCM 208
+ F+ +SYN G IP +G++ L ++L HN + + P + L L+ +L+L S
Sbjct: 634 MMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLN--ILDLSSN- 690
Query: 209 VRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQV 242
+ IP + L LT ID S+ LS I ++
Sbjct: 691 -KLDGRIPQAMSALTMLTEIDLSNNNLSGPIPEM 723
Score = 38.5 bits (88), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 48/177 (27%), Positives = 77/177 (43%), Gaps = 19/177 (10%)
Query: 148 HLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLN-----ELSSFLL 202
+L +I LS N+ G+IP +G L +L + LS+N F+ P L +L++ L
Sbjct: 491 NLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLF 550
Query: 203 N--LVSCMVRFHQLIPTSFIRLCKLTSIDFSSVKLS----------QDI-SQVLDIFSAY 249
N + + M + I +FI + I +K Q I S+ L+ S
Sbjct: 551 NGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTR 610
Query: 250 GTYALVSLILSHCQISAALGKLSSLRNLDFSLNMLNGSIPLSLGQISHLEYLDLSNN 306
+ S + S S+ LD S NML+G IP +G + +L L+L +N
Sbjct: 611 NPCNITSRVYGG-HTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHN 666
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 57/214 (26%), Positives = 82/214 (38%), Gaps = 48/214 (22%)
Query: 146 LRHLFFIVLSYNQFQGKIPSTL-GNLTSLKQIDLSHNQFNFTSPGWLS----------KL 194
L+ L ++ L+ N+F G+IP L G +L +DLS N F P +
Sbjct: 268 LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSS 327
Query: 195 NELSS-----FLLNLVSCMV------RFHQLIPTSFIRL-CKLTSIDFSSVKLSQDI--- 239
N S LL + V F +P S L L ++D SS S I
Sbjct: 328 NNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPN 387
Query: 240 ------SQVLDIF-SAYGTYALVSLILSHCQ---------------ISAALGKLSSLRNL 277
+ + +++ G + LS+C I ++LG LS LR+L
Sbjct: 388 LCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDL 447
Query: 278 DFSLNMLNGSIPLSLGQISHLEYLDLSNNKFVTK 311
LNML G IP L + LE L L N +
Sbjct: 448 KLWLNMLEGEIPQELMYVKTLETLILDFNDLTGE 481
Score = 36.2 bits (82), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 21/73 (28%), Positives = 38/73 (52%), Gaps = 4/73 (5%)
Query: 128 IDLGQVHLGKASDCWIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTS 187
++LG + + + LR L + LS N+ G+IP + LT L +IDLS+N +
Sbjct: 661 LNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLS--- 717
Query: 188 PGWLSKLNELSSF 200
G + ++ + +F
Sbjct: 718 -GPIPEMGQFETF 729
Score = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 45/169 (26%), Positives = 81/169 (47%), Gaps = 28/169 (16%)
Query: 154 LSYNQFQGKIPS--TLGNLTSLKQIDLSHNQFNFTSPGWLS---KLNELSSFLLNLVSCM 208
LS N G + + +LG+ + LK +++S N +F PG +S KLN L +L+L +
Sbjct: 107 LSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDF--PGKVSGGLKLNSLE--VLDLSANS 162
Query: 209 VRFHQLIPTSFIRLC-KLTSIDFSSVKLSQDIS-------QVLDIFSAYGTYALVSLILS 260
+ ++ C +L + S K+S D+ + LD+ S + +
Sbjct: 163 ISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVNLEFLDVSSNNFSTGI------ 216
Query: 261 HCQISAALGKLSSLRNLDFSLNMLNGSIPLSLGQISHLEYLDLSNNKFV 309
LG S+L++LD S N L+G ++ + L+ L++S+N+FV
Sbjct: 217 -----PFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFV 260
Score = 33.5 bits (75), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 57/233 (24%), Positives = 86/233 (36%), Gaps = 64/233 (27%)
Query: 126 EHIDLGQVHLGKASDCWIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNF 185
+H+D+ L I + L + +S NQF G IP L SL+ + L+ N+F
Sbjct: 226 QHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL--PLKSLQYLSLAENKFTG 283
Query: 186 TSPGWLSKLNELSSFLLNLVSCMVRFHQLIPTSF-------------------------I 220
P +LS + L L F+ +P F +
Sbjct: 284 EIPDFLSGACDT---LTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLL 340
Query: 221 RLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSH-----------CQ------ 263
++ L +D S + S ++ + L SA +L++L LS CQ
Sbjct: 341 KMRGLKVLDLSFNEFSGELPESLTNLSA----SLLTLDLSSNNFSGPILPNLCQNPKNTL 396
Query: 264 -------------ISAALGKLSSLRNLDFSLNMLNGSIPLSLGQISHLEYLDL 303
I L S L +L S N L+G+IP SLG +S L L L
Sbjct: 397 QELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKL 449
>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 = 48.1 bits (113), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 76/326 (23%), Positives = 123/326 (37%), Gaps = 81/326 (24%)
Query: 16 CKESERGALLKLKRNLKDLSNCLASWNIGDGDCCK--WVGNFC---------NNLTGHIL 64
C ++ ALL++K++L + L+SW + DCC W+G C NNL +
Sbjct: 3 CNPQDKQALLQIKKDLGN-PTTLSSW-LPTTDCCNRTWLGVLCDTDTQTYRVNNL--DLS 58
Query: 65 ELNLENPFGYLKYSDAEDDDHYMRSKLVVGNLSNLQYLDLSWIDCRLHVDXXXXXXXXXX 124
LNL P+ + +L+NL YL+ +I
Sbjct: 59 GLNLPKPYP------------------IPSSLANLPYLNFLYIG---------------- 84
Query: 125 XEHIDLGQVHLGKASDCWIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFN 184
G +L I L L ++ +++ G IP L + +L +D S+N +
Sbjct: 85 ------GINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALS 138
Query: 185 FTSPGWLSKLNELSSFLLNLVSCMVRFHQLIPTSFIRLCKL-TSIDFSSVKLSQDISQVL 243
T P +S L L + R IP S+ KL TS+ S +L+ I
Sbjct: 139 GTLPPSISSLPNLVGITFD----GNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTF 194
Query: 244 -----------------DIFSAYGTYALVSLI-LSHCQISAALGKLS---SLRNLDFSLN 282
D +G+ I L+ ++ LGK+ +L LD N
Sbjct: 195 ANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNN 254
Query: 283 MLNGSIPLSLGQISHLEYLDLSNNKF 308
+ G++P L Q+ L L++S N
Sbjct: 255 RIYGTLPQGLTQLKFLHSLNVSFNNL 280
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 38.5 bits (88), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 39/151 (25%), Positives = 72/151 (47%), Gaps = 11/151 (7%)
Query: 97 SNLQYLDLSWIDCRLHVDXXXXXXXXXXXEHIDLGQVHLGKASDCWIY-SLRHLFFIVLS 155
++L+YLDLS+ + EH+D +L + S+ ++ SLR+L ++ +S
Sbjct: 373 TSLKYLDLSFNGV---ITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 429
Query: 156 YNQFQGKIPSTLGNLTSLKQIDLSHNQF--NFTSPGWLSKLNELSSFLLNLVSCMVRFHQ 213
+ + L+SL+ + ++ N F NF P ++L L+ L+L C + Q
Sbjct: 430 HTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFL-PDIFTELRNLT--FLDLSQC--QLEQ 484
Query: 214 LIPTSFIRLCKLTSIDFSSVKLSQDISQVLD 244
L PT+F L L ++ +S +L + D
Sbjct: 485 LSPTAFNSLSSLQVLNMASNQLKSVPDGIFD 515
Score = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 45/82 (54%), Gaps = 5/82 (6%)
Query: 231 SSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISA----ALGKLSSLRNLDFSLNMLNG 286
S++ L+ + Q L + + G +L L+ +++ +G L +L+ L+ + N++
Sbjct: 79 STLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQS 138
Query: 287 -SIPLSLGQISHLEYLDLSNNK 307
+P +++LE+LDLS+NK
Sbjct: 139 FKLPEYFSNLTNLEHLDLSSNK 160
>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 = 38.1 bits (87), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 56/217 (25%), Positives = 97/217 (44%), Gaps = 37/217 (17%)
Query: 97 SNLQYLDLSWIDCRLHVDXXXXXXXXXXXEHIDLGQVHLGKASDCWIY-SLRHLFFIVLS 155
++L+YLDLS+ + EH+D +L + S+ ++ SLR+L ++ +S
Sbjct: 373 TSLKYLDLSFNGV---ITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 429
Query: 156 YNQFQGKIPSTLGNLTSLKQIDLSHNQF--NFTSPGWLSKLNELSSFLLNLVSCMVRFHQ 213
+ + L+SL+ + ++ N F NF P ++L L+ L+L C + Q
Sbjct: 430 HTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFL-PDIFTELRNLT--FLDLSQC--QLEQ 484
Query: 214 LIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISAALGKLSS 273
L PT+F L L QVL++ ++ + + C L+S
Sbjct: 485 LSPTAFNSLSSL---------------QVLNM--SHNNFFSLDTFPYKC--------LNS 519
Query: 274 LRNLDFSLNMLNGSIPLSLGQI-SHLEYLDLSNNKFV 309
L+ LD+SLN + S L S L +L+L+ N F
Sbjct: 520 LQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFA 556
Score = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 45/82 (54%), Gaps = 5/82 (6%)
Query: 231 SSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISA----ALGKLSSLRNLDFSLNMLNG 286
S++ L+ + Q L + + G +L L+ +++ +G L +L+ L+ + N++
Sbjct: 79 STLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQS 138
Query: 287 -SIPLSLGQISHLEYLDLSNNK 307
+P +++LE+LDLS+NK
Sbjct: 139 FKLPEYFSNLTNLEHLDLSSNK 160
>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 = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 56/217 (25%), Positives = 97/217 (44%), Gaps = 37/217 (17%)
Query: 97 SNLQYLDLSWIDCRLHVDXXXXXXXXXXXEHIDLGQVHLGKASDCWIY-SLRHLFFIVLS 155
++L+YLDLS+ + EH+D +L + S+ ++ SLR+L ++ +S
Sbjct: 78 TSLKYLDLSFNGV---ITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDIS 134
Query: 156 YNQFQGKIPSTLGNLTSLKQIDLSHNQF--NFTSPGWLSKLNELSSFLLNLVSCMVRFHQ 213
+ + L+SL+ + ++ N F NF P ++L L+ L+L C + Q
Sbjct: 135 HTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFL-PDIFTELRNLT--FLDLSQC--QLEQ 189
Query: 214 LIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISAALGKLSS 273
L PT+F L L QVL++ ++ + + C L+S
Sbjct: 190 LSPTAFNSLSSL---------------QVLNM--SHNNFFSLDTFPYKC--------LNS 224
Query: 274 LRNLDFSLNMLNGSIPLSLGQI-SHLEYLDLSNNKFV 309
L+ LD+SLN + S L S L +L+L+ N F
Sbjct: 225 LQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFA 261
>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 = 37.7 bits (86), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 56/215 (26%), Positives = 95/215 (44%), Gaps = 37/215 (17%)
Query: 99 LQYLDLSWIDCRLHVDXXXXXXXXXXXEHIDLGQVHLGKASDCWIY-SLRHLFFIVLSYN 157
L+YLDLS+ + EH+D +L + S+ ++ SLR+L ++ +S+
Sbjct: 399 LKYLDLSFNGV---ITMSSNFLGLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHT 455
Query: 158 QFQGKIPSTLGNLTSLKQIDLSHNQF--NFTSPGWLSKLNELSSFLLNLVSCMVRFHQLI 215
+ L+SL+ + ++ N F NF P ++L L+ L+L C + QL
Sbjct: 456 HTRVAFNGIFNGLSSLEVLKMAGNSFQENFL-PDIFTELRNLT--FLDLSQC--QLEQLS 510
Query: 216 PTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISAALGKLSSLR 275
PT+F L L QVL++ ++ + + C L+SL+
Sbjct: 511 PTAFNSLSSL---------------QVLNM--SHNNFFSLDTFPYKC--------LNSLQ 545
Query: 276 NLDFSLNMLNGSIPLSLGQI-SHLEYLDLSNNKFV 309
LD+SLN + S L S L +L+L+ N F
Sbjct: 546 VLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDFA 580
Score = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 21/82 (25%), Positives = 45/82 (54%), Gaps = 5/82 (6%)
Query: 231 SSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISA----ALGKLSSLRNLDFSLNMLNG 286
S++ L+ + Q L + + G +L L+ +++ +G L +L+ L+ + N++
Sbjct: 103 STLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQS 162
Query: 287 -SIPLSLGQISHLEYLDLSNNK 307
+P +++LE+LDLS+NK
Sbjct: 163 FKLPEYFSNLTNLEHLDLSSNK 184
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 37.7 bits (86), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 29/59 (49%)
Query: 145 SLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLLN 203
SL L ++ L YN+ Q LTSLK++ L +NQ G KL EL + L+
Sbjct: 131 SLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLD 189
>pdb|3M19|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R5.1
pdb|3M19|B Chain B, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R5.1
Length = 251
Score = 36.6 bits (83), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 44/183 (24%), Positives = 67/183 (36%), Gaps = 29/183 (15%)
Query: 126 EHIDLGQVHLGKASDCWIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNF 185
E +DL L SD L L ++ L YNQ Q +LT L + L++NQ
Sbjct: 38 EKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLAS 97
Query: 186 TSPGWLSKLNELSSFLLNLVSCMVRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDI 245
G L +L L + L F RL KL + ++ +L Q I
Sbjct: 98 LPLGVFDHLTQLDKLYLG----GNQLKSLPSGVFDRLTKLKELRLNTNQL-QSIP----- 147
Query: 246 FSAYGTYALVSLILSHCQISAALGKLSSLRNLDFSLNMLNGSIPLSLGQISHLEYLDLSN 305
+ A KL++L+ L S N L + ++ L+ + L
Sbjct: 148 -------------------AGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLFG 188
Query: 306 NKF 308
N+F
Sbjct: 189 NQF 191
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 36.6 bits (83), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 44/183 (24%), Positives = 67/183 (36%), Gaps = 29/183 (15%)
Query: 126 EHIDLGQVHLGKASDCWIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNF 185
E +DL L SD L L ++ L YNQ Q +LT L + L++NQ
Sbjct: 38 EKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLAS 97
Query: 186 TSPGWLSKLNELSSFLLNLVSCMVRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDI 245
G L +L L + L F RL KL + ++ +L Q I
Sbjct: 98 LPLGVFDHLTQLDKLYLG----GNQLKSLPSGVFDRLTKLKELRLNTNQL-QSIP----- 147
Query: 246 FSAYGTYALVSLILSHCQISAALGKLSSLRNLDFSLNMLNGSIPLSLGQISHLEYLDLSN 305
+ A KL++L+ L S N L + ++ L+ + L
Sbjct: 148 -------------------AGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLFG 188
Query: 306 NKF 308
N+F
Sbjct: 189 NQF 191
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 50/160 (31%), Positives = 80/160 (50%), Gaps = 23/160 (14%)
Query: 143 IYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLL 202
+ SL+ L F S NQ P L NLT+L+++D+S N+ + S L+KL L S
Sbjct: 150 LTSLQQLSF---SSNQVTDLKP--LANLTTLERLDISSNKVSDIS--VLAKLTNLES--- 199
Query: 203 NLVSCMVRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHC 262
L++ + + P L LT++D +LS + +Q+ DI + L L L++
Sbjct: 200 -LIATNNQISDITP-----LGILTNLD----ELSLNGNQLKDIGTLASLTNLTDLDLANN 249
Query: 263 QIS--AALGKLSSLRNLDFSLNMLNGSIPLS-LGQISHLE 299
QIS A L L+ L L N ++ PL+ L +++LE
Sbjct: 250 QISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLE 289
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 50/160 (31%), Positives = 80/160 (50%), Gaps = 23/160 (14%)
Query: 143 IYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLL 202
+ SL+ L F S NQ P L NLT+L+++D+S N+ + S L+KL L S
Sbjct: 150 LTSLQQLSF---SSNQVTDLKP--LANLTTLERLDISSNKVSDIS--VLAKLTNLES--- 199
Query: 203 NLVSCMVRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHC 262
L++ + + P L LT++D +LS + +Q+ DI + L L L++
Sbjct: 200 -LIATNNQISDITP-----LGILTNLD----ELSLNGNQLKDIGTLASLTNLTDLDLANN 249
Query: 263 QIS--AALGKLSSLRNLDFSLNMLNGSIPLS-LGQISHLE 299
QIS A L L+ L L N ++ PL+ L +++LE
Sbjct: 250 QISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLE 289
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 36.2 bits (82), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 50/160 (31%), Positives = 80/160 (50%), Gaps = 23/160 (14%)
Query: 143 IYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLL 202
+ SL+ L F S NQ P L NLT+L+++D+S N+ + S L+KL L S
Sbjct: 150 LTSLQQLNF---SSNQVTDLKP--LANLTTLERLDISSNKVSDIS--VLAKLTNLES--- 199
Query: 203 NLVSCMVRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHC 262
L++ + + P L LT++D +LS + +Q+ DI + L L L++
Sbjct: 200 -LIATNNQISDITP-----LGILTNLD----ELSLNGNQLKDIGTLASLTNLTDLDLANN 249
Query: 263 QIS--AALGKLSSLRNLDFSLNMLNGSIPLS-LGQISHLE 299
QIS A L L+ L L N ++ PL+ L +++LE
Sbjct: 250 QISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLE 289
Score = 35.4 bits (80), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 44/141 (31%), Positives = 66/141 (46%), Gaps = 19/141 (13%)
Query: 170 LTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLLNLVSCMVRFHQLIPTSFIRLCKLTSID 229
L +L QI+ S+NQ +P L L +L L+N + + P L LT +
Sbjct: 62 LNNLTQINFSNNQLTDITP--LKNLTKLVDILMN----NNQIADITP--LANLTNLTGLT 113
Query: 230 FSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQIS--AALGKLSSLRNLDFSLNMLNGS 287
+ +Q+ DI L L LS IS +AL L+SL+ L+FS N +
Sbjct: 114 LFN-------NQITDIDPLKNLTNLNRLELSSNTISDISALSGLTSLQQLNFSSNQVTDL 166
Query: 288 IPLSLGQISHLEYLDLSNNKF 308
PL+ ++ LE LD+S+NK
Sbjct: 167 KPLA--NLTTLERLDISSNKV 185
>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 = 35.0 bits (79), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 45/144 (31%), Positives = 64/144 (44%), Gaps = 15/144 (10%)
Query: 167 LGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLLNLVSCMVRFHQLIPTSFIRLC--- 223
LGN +SL+++DLS N SPG + +L + LLN QL P +LC
Sbjct: 168 LGN-SSLRKLDLSSNPLKEFSPGCFQTIGKLFALLLNNA-------QLNPHLTEKLCWEL 219
Query: 224 KLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQI----SAALGKLSSLRNLDF 279
TSI S+ +Q ++ FS L L LS+ + + + L SLR L
Sbjct: 220 SNTSIQNLSLANNQLLATSESTFSGLKWTNLTQLDLSYNNLHDVGNGSFSYLPSLRYLSL 279
Query: 280 SLNMLNGSIPLSLGQISHLEYLDL 303
N + P S +S+L YL L
Sbjct: 280 EYNNIQRLSPRSFYGLSNLRYLSL 303
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 34.7 bits (78), Expect = 0.063, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 50/106 (47%), Gaps = 12/106 (11%)
Query: 129 DLGQVHLGKASDCWIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSP 188
+LG++ +SD L HL + L NQ G P+ + ++++ L N+ S
Sbjct: 40 ELGRI----SSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISN 95
Query: 189 GWLSKLNELSSFLL--NLVSCMVRFHQLIPTSFIRLCKLTSIDFSS 232
L++L + L N +SC ++P SF L LTS++ +S
Sbjct: 96 KMFLGLHQLKTLNLYDNQISC------VMPGSFEHLNSLTSLNLAS 135
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 34.7 bits (78), Expect = 0.076, Method: Compositional matrix adjust.
Identities = 50/168 (29%), Positives = 82/168 (48%), Gaps = 25/168 (14%)
Query: 143 IYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLL 202
+ SL+ L F NQ P L NLT+L+++D+S N+ + S L+KL L S
Sbjct: 154 LTSLQQLSF----GNQVTDLKP--LANLTTLERLDISSNKVSDIS--VLAKLTNLES--- 202
Query: 203 NLVSCMVRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHC 262
L++ + + P L LT++D +LS + +Q+ DI + L L L++
Sbjct: 203 -LIATNNQISDITP-----LGILTNLD----ELSLNGNQLKDIGTLASLTNLTDLDLANN 252
Query: 263 QIS--AALGKLSSLRNLDFSLNMLNGSIPLSLGQISHLEYLDLSNNKF 308
QIS A L L+ L L N ++ PL+ ++ L L+L+ N+
Sbjct: 253 QISNLAPLSGLTKLTELKLGANQISNISPLA--GLTALTNLELNENQL 298
>pdb|1O6S|A Chain A, Internalin (Listeria Monocytogenes) E-Cadherin (Human)
Recognition Complex
pdb|1O6T|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|B Chain B, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
Length = 466
Score = 34.3 bits (77), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 50/168 (29%), Positives = 82/168 (48%), Gaps = 25/168 (14%)
Query: 143 IYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLL 202
+ SL+ L F NQ P L NLT+L+++D+S N+ + S L+KL L S
Sbjct: 155 LTSLQQLSF----GNQVTDLKP--LANLTTLERLDISSNKVSDIS--VLAKLTNLES--- 203
Query: 203 NLVSCMVRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHC 262
L++ + + P L LT++D +LS + +Q+ DI + L L L++
Sbjct: 204 -LIATNNQISDITP-----LGILTNLD----ELSLNGNQLKDIGTLASLTNLTDLDLANN 253
Query: 263 QIS--AALGKLSSLRNLDFSLNMLNGSIPLSLGQISHLEYLDLSNNKF 308
QIS A L L+ L L N ++ PL+ ++ L L+L+ N+
Sbjct: 254 QISNLAPLSGLTKLTELKLGANQISNISPLA--GLTALTNLELNENQL 299
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 34.3 bits (77), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 49/160 (30%), Positives = 79/160 (49%), Gaps = 24/160 (15%)
Query: 143 IYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLL 202
+ SL+ L F NQ P L NLT+L+++D+S N+ + S L+KL L S
Sbjct: 150 LTSLQQLNF----GNQVTDLKP--LANLTTLERLDISSNKVSDIS--VLAKLTNLES--- 198
Query: 203 NLVSCMVRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHC 262
L++ + + P L LT++D +LS + +Q+ DI + L L L++
Sbjct: 199 -LIATNNQISDITP-----LGILTNLD----ELSLNGNQLKDIGTLASLTNLTDLDLANN 248
Query: 263 QIS--AALGKLSSLRNLDFSLNMLNGSIPLS-LGQISHLE 299
QIS A L L+ L L N ++ PL+ L +++LE
Sbjct: 249 QISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLE 288
>pdb|2OMV|A Chain A, Crystal Structure Of Inla S192n Y369s/hec1 Complex
pdb|2OMW|A Chain A, Crystal Structure Of Inla S192n Y369s/mec1 Complex
Length = 461
Score = 34.3 bits (77), Expect = 0.099, Method: Compositional matrix adjust.
Identities = 49/160 (30%), Positives = 79/160 (49%), Gaps = 24/160 (15%)
Query: 143 IYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLL 202
+ SL+ L F NQ P L NLT+L+++D+S N+ + S L+KL L S
Sbjct: 150 LTSLQQLNF----GNQVTDLKP--LANLTTLERLDISSNKVSDIS--VLAKLTNLES--- 198
Query: 203 NLVSCMVRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHC 262
L++ + + P L LT++D +LS + +Q+ DI + L L L++
Sbjct: 199 -LIATNNQISDITP-----LGILTNLD----ELSLNGNQLKDIGTLASLTNLTDLDLANN 248
Query: 263 QIS--AALGKLSSLRNLDFSLNMLNGSIPLS-LGQISHLE 299
QIS A L L+ L L N ++ PL+ L +++LE
Sbjct: 249 QISNLAPLSGLTKLTELKLGANQISNISPLAGLTALTNLE 288
>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 = 33.9 bits (76), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 49/183 (26%), Positives = 83/183 (45%), Gaps = 25/183 (13%)
Query: 137 KASDC---WIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSP-GWLS 192
+ASDC + +LRHL ++ LSYN+ G L+ +D++ + +P
Sbjct: 362 EASDCCNLQLKNLRHLQYLNLSYNEPLGLEDQAFKECPQLELLDVAFTHLHVKAPHSPFQ 421
Query: 193 KLNELSSFLLNLVSCMVRF---HQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAY 249
L+ L +LNL C++ H L +R L F +S+ ++
Sbjct: 422 NLHLLR--VLNLSHCLLDTSNQHLLAGLQDLRHLNLQGNSFQDGSISKT-----NLLQMV 474
Query: 250 GTYALVSLILSHCQI----SAALGKLSSLRNLDFSLNMLNGSIPLSLGQISHLE--YLDL 303
G+ + LILS C + A L ++ +LD S N L G S+ +SHL+ YL++
Sbjct: 475 GSLEI--LILSSCNLLSIDQQAFHGLRNVNHLDLSHNSLTGD---SMDALSHLKGLYLNM 529
Query: 304 SNN 306
++N
Sbjct: 530 ASN 532
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 40/158 (25%), Positives = 66/158 (41%), Gaps = 31/158 (19%)
Query: 152 IVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLLNLVSCMVRF 211
I L ++F ST T ++++DL+ N P + +N L +LN
Sbjct: 258 INLQKHRFSDLSSSTFRCFTRVQELDLTAAHLNGL-PSGIEGMNSLKKLVLN-------- 308
Query: 212 HQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISAALGKL 271
SF +LC++ + F S++ Y + L L + L KL
Sbjct: 309 ----ANSFDQLCQINAASFPSLR------------DLYIKGNMRKLDLG----TRCLEKL 348
Query: 272 SSLRNLDFSLNMLNGS--IPLSLGQISHLEYLDLSNNK 307
+L+ LD S + + S L L + HL+YL+LS N+
Sbjct: 349 ENLQKLDLSHSDIEASDCCNLQLKNLRHLQYLNLSYNE 386
>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 = 33.9 bits (76), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 29/57 (50%)
Query: 146 LRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLL 202
L +L ++ L++NQ Q LT+L ++DLS+NQ G KL +L L
Sbjct: 132 LTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRL 188
Score = 32.3 bits (72), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 39/87 (44%), Gaps = 4/87 (4%)
Query: 145 SLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLLNL 204
L +L +++L+ NQ Q LT+LK++ L NQ G KL L+ LNL
Sbjct: 83 ELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLT--YLNL 140
Query: 205 VSCMVRFHQLIPTSFIRLCKLTSIDFS 231
+ L F +L LT +D S
Sbjct: 141 AHN--QLQSLPKGVFDKLTNLTELDLS 165
Score = 27.7 bits (60), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 18/52 (34%), Positives = 22/52 (42%)
Query: 146 LRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNEL 197
L +L + LSYNQ Q LT LK + L NQ G +L L
Sbjct: 156 LTNLTELDLSYNQLQSLPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSL 207
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 32.3 bits (72), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%)
Query: 146 LRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLLN 203
L +L ++ L +NQ Q LT+L ++DL +NQ G KL +L LN
Sbjct: 132 LTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQLSLN 189
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 29/106 (27%), Positives = 45/106 (42%), Gaps = 12/106 (11%)
Query: 143 IYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLL 202
+ L +L +++L+ NQ Q LT+LK++ L NQ G KL L+ L
Sbjct: 81 LKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLYL 140
Query: 203 NLVSCMVRFH---QLIPTS-FIRLCKLTSIDFSSVKLSQDISQVLD 244
+H Q +P F +L LT +D + +L V D
Sbjct: 141 --------YHNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFD 178
>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 = 32.3 bits (72), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 20/71 (28%), Positives = 33/71 (46%)
Query: 128 IDLGQVHLGKASDCWIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTS 187
IDL + S+ ++ L ++LSYN+ + P T L SL+ + L N +
Sbjct: 59 IDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGNDISVVP 118
Query: 188 PGWLSKLNELS 198
G + L+ LS
Sbjct: 119 EGAFNDLSALS 129
>pdb|3V44|A Chain A, Crystal Structure Of The N-Terminal Fragment Of Zebrafish
Tlr5
Length = 407
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 22/74 (29%), Positives = 33/74 (44%), Gaps = 6/74 (8%)
Query: 126 EHIDLGQVHLGKASDCWIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNF 185
E + L Q + K D + L HL + L NQ + LTSL++I L N ++
Sbjct: 302 EQLTLAQNEINKIDDNAFWGLTHLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDC 361
Query: 186 TSP------GWLSK 193
+ P WL+K
Sbjct: 362 SCPRIDYLSRWLNK 375
>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 = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 21/47 (44%)
Query: 157 NQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLLN 203
NQ P LT L ++DL +NQ G KL +L+ LN
Sbjct: 48 NQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLN 94
>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 = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 5/77 (6%)
Query: 126 EHIDLGQVHLGKASDCWIYSLRHLFFIVLSYNQFQG-KIPSTLGNLTSLKQIDL----SH 180
EH+DL HL S W L L ++ L N +Q + S NLT+L+ + + +
Sbjct: 77 EHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETF 136
Query: 181 NQFNFTSPGWLSKLNEL 197
++ L+ LNEL
Sbjct: 137 SEIRRIDFAGLTSLNEL 153
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/47 (34%), Positives = 21/47 (44%)
Query: 157 NQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLLN 203
NQ P LT L ++DL +NQ G KL +L+ LN
Sbjct: 40 NQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLN 86
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 28/107 (26%), Positives = 43/107 (40%), Gaps = 4/107 (3%)
Query: 96 LSNLQYLDLSWIDCRLHVDXXXXXXXXXXXEHIDLGQVHLGKASDCWIYSLRHLFFIVLS 155
LSNL+YL+L+ + R + +DL HL L HL + +
Sbjct: 184 LSNLRYLNLAMCNLR----EIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMI 239
Query: 156 YNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLL 202
+Q Q + NL SL +I+L+HN + L+ L L
Sbjct: 240 QSQIQVIERNAFDNLQSLVEINLAHNNLTLLPHDLFTPLHHLERIHL 286
>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 = 29.3 bits (64), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 36/77 (46%), Gaps = 5/77 (6%)
Query: 126 EHIDLGQVHLGKASDCWIYSLRHLFFIVLSYNQFQG-KIPSTLGNLTSLKQIDL----SH 180
EH+DL HL S W L L ++ L N +Q + S NLT+L+ + + +
Sbjct: 103 EHLDLSDNHLSSLSSSWFGPLSSLKYLNLMGNPYQTLGVTSLFPNLTNLQTLRIGNVETF 162
Query: 181 NQFNFTSPGWLSKLNEL 197
++ L+ LNEL
Sbjct: 163 SEIRRIDFAGLTSLNEL 179
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 28.9 bits (63), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 45/84 (53%), Gaps = 5/84 (5%)
Query: 230 FSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISA----ALGKLSSLRNLDFSLNMLN 285
S++ L+ + Q L + + G +L L+ +++ +G L +L+ L+ + N++
Sbjct: 79 LSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ 138
Query: 286 G-SIPLSLGQISHLEYLDLSNNKF 308
+P +++LE+LDLS+NK
Sbjct: 139 SFKLPEYFSNLTNLEHLDLSSNKI 162
>pdb|3ULA|A Chain A, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
pdb|3ULA|C Chain C, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
Length = 279
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 45/84 (53%), Gaps = 5/84 (5%)
Query: 230 FSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISA----ALGKLSSLRNLDFSLNMLN 285
S++ L+ + Q L + + G +L L+ +++ +G L +L+ L+ + N++
Sbjct: 80 LSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ 139
Query: 286 G-SIPLSLGQISHLEYLDLSNNKF 308
+P +++LE+LDLS+NK
Sbjct: 140 SFKLPEYFSNLTNLEHLDLSSNKI 163
>pdb|2Z62|A Chain A, Crystal Structure Of The Tv3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z65|A Chain A, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
pdb|2Z65|B Chain B, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
Length = 276
Score = 28.9 bits (63), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 45/83 (54%), Gaps = 5/83 (6%)
Query: 230 FSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISA----ALGKLSSLRNLDFSLNMLN 285
S++ L+ + Q L + + G +L L+ +++ +G L +L+ L+ + N++
Sbjct: 78 LSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ 137
Query: 286 G-SIPLSLGQISHLEYLDLSNNK 307
+P +++LE+LDLS+NK
Sbjct: 138 SFKLPEYFSNLTNLEHLDLSSNK 160
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 45/83 (54%), Gaps = 5/83 (6%)
Query: 230 FSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISA----ALGKLSSLRNLDFSLNMLN 285
S++ L+ + Q L + + G +L L+ +++ +G L +L+ L+ + N++
Sbjct: 79 LSTLILTGNPIQSLALGAFSGLSSLQKLVAVETNLASLENFPIGHLKTLKELNVAHNLIQ 138
Query: 286 G-SIPLSLGQISHLEYLDLSNNK 307
+P +++LE+LDLS+NK
Sbjct: 139 SFKLPEYFSNLTNLEHLDLSSNK 161
>pdb|2KVI|A Chain A, Structure Of Nab3 Rrm
Length = 96
Score = 28.5 bits (62), Expect = 5.3, Method: Composition-based stats.
Identities = 7/21 (33%), Positives = 18/21 (85%)
Query: 61 GHILELNLENPFGYLKYSDAE 81
GHI+++N++N FG++++ + +
Sbjct: 36 GHIMQINIKNAFGFIQFDNPQ 56
>pdb|2XNQ|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 28.5 bits (62), Expect = 5.3, Method: Composition-based stats.
Identities = 7/21 (33%), Positives = 18/21 (85%)
Query: 61 GHILELNLENPFGYLKYSDAE 81
GHI+++N++N FG++++ + +
Sbjct: 48 GHIMQINIKNAFGFIQFDNPQ 68
>pdb|2O6S|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
pdb|2O6S|B Chain B, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B59
Length = 208
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 25/57 (43%)
Query: 146 LRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLL 202
L L ++ LS NQ Q LT LK++ L+ NQ G KL +L L
Sbjct: 75 LTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQLKDLRL 131
>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 = 28.5 bits (62), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 10/91 (10%)
Query: 162 KIPSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLL--NLVSCMVRFHQLIPTSF 219
++P+ + NL++L+ +DLSHN+ + P L +L F N+V+ + P F
Sbjct: 261 ELPAEIKNLSNLRVLDLSHNRLT-SLPAELGSCFQLKYFYFFDNMVTTL-------PWEF 312
Query: 220 IRLCKLTSIDFSSVKLSQDISQVLDIFSAYG 250
LC L + L + ++L S G
Sbjct: 313 GNLCNLQFLGVEGNPLEKQFLKILTEKSVTG 343
>pdb|2XNR|A Chain A, Structural Insights Into Cis Element Recognition Of Non-
Polyadenylated Rnas By The Nab3-Rrm
Length = 97
Score = 28.5 bits (62), Expect = 5.6, Method: Composition-based stats.
Identities = 7/21 (33%), Positives = 18/21 (85%)
Query: 61 GHILELNLENPFGYLKYSDAE 81
GHI+++N++N FG++++ + +
Sbjct: 48 GHIMQINIKNAFGFIQFDNPQ 68
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 28.1 bits (61), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 45/83 (54%), Gaps = 5/83 (6%)
Query: 230 FSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQISA----ALGKLSSLRNLDFSLNMLN 285
S++ L+ + Q L + + G +L L+ +++ +G L +L+ L+ + N++
Sbjct: 80 LSTLILTGNPIQSLALGAFSGLSSLQKLVALETNLASLENFPIGHLKTLKELNVAHNLIQ 139
Query: 286 G-SIPLSLGQISHLEYLDLSNNK 307
+P +++LE+LDLS+NK
Sbjct: 140 SFKLPEYFSNLTNLEHLDLSSNK 162
>pdb|2L41|A Chain A, Nab3 Rrm - Ucuu Complex
Length = 77
Score = 28.1 bits (61), Expect = 6.2, Method: Composition-based stats.
Identities = 7/21 (33%), Positives = 18/21 (85%)
Query: 61 GHILELNLENPFGYLKYSDAE 81
GHI+++N++N FG++++ + +
Sbjct: 28 GHIMQINIKNAFGFIQFDNPQ 48
>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 = 28.1 bits (61), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 14/40 (35%), Positives = 19/40 (47%)
Query: 164 PSTLGNLTSLKQIDLSHNQFNFTSPGWLSKLNELSSFLLN 203
P LT L ++DL +NQ G KL +L+ LN
Sbjct: 47 PGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSLN 86
>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 = 27.7 bits (60), Expect = 7.9, Method: Compositional matrix adjust.
Identities = 46/152 (30%), Positives = 63/152 (41%), Gaps = 39/152 (25%)
Query: 187 SPGWLSKLNELSSFLLNLVSCMVRFHQLIPTSFIRLCKLTSIDFSSVKLSQDISQVLDIF 246
S L L E+S LNL RF + T+F +L +D ++ L S +
Sbjct: 241 SSAMLKGLCEMSVESLNLQE--HRFSDISSTTFQCFTQLQELDLTATHLKGLPSGM---- 294
Query: 247 SAYGTYALVSLILS--H----CQISAA-----------------------LGKLSSLRNL 277
G L L+LS H CQISAA L KL +L+ L
Sbjct: 295 --KGLNLLKKLVLSVNHFDQLCQISAANFPSLTHLYIRGNVKKLHLGVGCLEKLGNLQTL 352
Query: 278 DFSLNMLNGS--IPLSLGQISHLEYLDLSNNK 307
D S N + S L L +SHL+ L+LS+N+
Sbjct: 353 DLSHNDIEASDCCSLQLKNLSHLQTLNLSHNE 384
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 27.3 bits (59), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 48/205 (23%), Positives = 84/205 (40%), Gaps = 31/205 (15%)
Query: 128 IDLGQVHLGKASDCWIYSLRHLFFIVLSYNQFQGKIPSTLGNLTSLKQIDLSHNQFNFTS 187
+DL + + D +L++L ++L N+ P L L+++ LS NQ
Sbjct: 57 LDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQLKELP 116
Query: 188 ---PGWLSKL----NELSS------------FLLNLVSCMVRFHQLIPTSFIRLCKLTSI 228
P L +L NE++ ++ L + ++ + +F + KL+ I
Sbjct: 117 EKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKLSYI 176
Query: 229 DFSSVKLSQDISQVLDIFSAYGTYALVSLILSHCQIS----AALGKLSSLRNLDFSLNML 284
+ ++ I Q L +L L L +I+ A+L L++L L S N +
Sbjct: 177 RIADTNITT-IPQGL-------PPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSI 228
Query: 285 NGSIPLSLGQISHLEYLDLSNNKFV 309
+ SL HL L L+NNK V
Sbjct: 229 SAVDNGSLANTPHLRELHLNNNKLV 253
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
0.322 0.138 0.423
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 8,724,079
Number of Sequences: 62578
Number of extensions: 336207
Number of successful extensions: 910
Number of sequences better than 100.0: 58
Number of HSP's better than 100.0 without gapping: 44
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 643
Number of HSP's gapped (non-prelim): 224
length of query: 313
length of database: 14,973,337
effective HSP length: 99
effective length of query: 214
effective length of database: 8,778,115
effective search space: 1878516610
effective search space used: 1878516610
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: 51 (24.3 bits)