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= 048125
(258 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 = 99.4 bits (246), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 77/237 (32%), Positives = 117/237 (49%), Gaps = 6/237 (2%)
Query: 7 NQLQGSLPSDLGFTLPNLEGLNLAGNQFTGPIPVSISN-ASNLRELMIGKNGFSGKVPSL 65
N G LP D + L+ L+L+ N+F+G +P S++N +++L L + N FSG P L
Sbjct: 328 NNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSG--PIL 385
Query: 66 ENLHKLQRVIISQNHLGNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAVGNFST 125
NL + + + + +L N G + +L N S L L +S N G +P ++G+ S
Sbjct: 386 PNLCQNPKNTLQELYLQNNGFTGKIP--PTLSNCSELVSLHLSFNYLSGTIPSSLGSLS- 442
Query: 126 RLGILSVAENQLFGNIPSGXXXXXXXXXXXXXXXQFTSRIPGSIGDLQKLQMLGLNGNKF 185
+L L + N L G IP T IP + + L + L+ N+
Sbjct: 443 KLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRL 502
Query: 186 LGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIPSEVI 242
GEIP IG L L L + N G+IP+ LG C++LI LDL N +GTIP+ +
Sbjct: 503 TGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMF 559
Score = 74.3 bits (181), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 83/300 (27%), Positives = 125/300 (41%), Gaps = 57/300 (19%)
Query: 6 FNQLQGSLPSDLGFTLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPS- 64
FN L G++PS LG +L L L L N G IP + L L++ N +G++PS
Sbjct: 427 FNYLSGTIPSSLG-SLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSG 485
Query: 65 LENLHKLQRVIISQNHLGNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAVGNFS 124
L N L + +S N L GE +++ L N L +L++S+N+F G +P +G+
Sbjct: 486 LSNCTNLNWISLSNNRL--TGEIP--KWIGRLEN---LAILKLSNNSFSGNIPAELGDCR 538
Query: 125 TRLGILSVAENQLFGNIPS----------------------------------------- 143
+ L L + N G IP+
Sbjct: 539 S-LIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQ 597
Query: 144 GXXXXXXXXXXXXXXXQFTSRIPG-----SIGDLQKLQMLGLNGNKFLGEIPSSIGNLTL 198
G TSR+ G + + + L ++ N G IP IG++
Sbjct: 598 GIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPY 657
Query: 199 LMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIPSEVIGLSSLSIYLDLSQNQL 258
L LN N + GSIP +G + L +LDL +N L G IP + L+ L+ +DLS N L
Sbjct: 658 LFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLT-EIDLSNNNL 716
Score = 71.6 bits (174), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 72/267 (26%), Positives = 116/267 (43%), Gaps = 45/267 (16%)
Query: 24 LEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNHL-G 82
L+ L ++GN+ +G V +S NL L + N FS +P L + LQ + IS N L G
Sbjct: 180 LKHLAISGNKISGD--VDVSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSG 237
Query: 83 NYGEKDNLEFVNSLVNASR--------------LELLQISDNNFGGMLPEAVGNFSTRLG 128
++ + L+N S L+ L +++N F G +P+ + L
Sbjct: 238 DFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLT 297
Query: 129 ILSVAENQLFGNIPSGXXXXXXXXXXXXXXXQFTSRIP-GSIGDLQKLQMLGLNGNKFLG 187
L ++ N +G +P F+ +P ++ ++ L++L L+ N+F G
Sbjct: 298 GLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSG 357
Query: 188 EIPSSIGNLTL-LMTLNFAENMLE--------------------------GSIPSSLGKC 220
E+P S+ NL+ L+TL+ + N G IP +L C
Sbjct: 358 ELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNC 417
Query: 221 QNLIVLDLYNNNLSGTIPSEVIGLSSL 247
L+ L L N LSGTIPS + LS L
Sbjct: 418 SELVSLHLSFNYLSGTIPSSLGSLSKL 444
Score = 67.4 bits (163), Expect = 8e-12, Method: Compositional matrix adjust.
Identities = 65/237 (27%), Positives = 100/237 (42%), Gaps = 20/237 (8%)
Query: 7 NQLQGSLPSDLGFTLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPS-- 64
N+L G +P +G L NL L L+ N F+G IP + + +L L + N F+G +P+
Sbjct: 500 NRLTGEIPKWIG-RLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 558
Query: 65 LENLHKLQRVIISQN---HLGNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAVG 121
+ K+ I+ ++ N G K +L+ F G+ E +
Sbjct: 559 FKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLE-------------FQGIRSEQLN 605
Query: 122 NFSTRLGILSVAENQLFGNIPSGXXXXXXXXXXXXXXXQFTSRIPGSIGDLQKLQMLGLN 181
STR ++ G+ + IP IG + L +L L
Sbjct: 606 RLSTR-NPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLG 664
Query: 182 GNKFLGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIP 238
N G IP +G+L L L+ + N L+G IP ++ L +DL NNNLSG IP
Sbjct: 665 HNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIP 721
Score = 48.9 bits (115), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 58/219 (26%), Positives = 98/219 (44%), Gaps = 16/219 (7%)
Query: 45 ASNLRELMIGKNGFSGKVPSLENLHK---LQRVIISQNHLGNYGEKDNLEFVNSLVNASR 101
+++L L + +N SG V +L +L L+ + +S N L G+ V+ + +
Sbjct: 99 SASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGK------VSGGLKLNS 152
Query: 102 LELLQISDNNFGG--MLPEAVGNFSTRLGILSVAENQLFGNIPSGXXXXXXXXXXXXXXX 159
LE+L +S N+ G ++ + + L L+++ N++ G++
Sbjct: 153 LEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDV--DVSRCVNLEFLDVSSN 210
Query: 160 QFTSRIPGSIGDLQKLQMLGLNGNKFLGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGK 219
F++ IP +GD LQ L ++GNK G+ +I T L LN + N G IP
Sbjct: 211 NFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL--P 267
Query: 220 CQNLIVLDLYNNNLSGTIPSEVIGLSSLSIYLDLSQNQL 258
++L L L N +G IP + G LDLS N
Sbjct: 268 LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHF 306
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 2/81 (2%)
Query: 2 FDFPFNQLQGSLPSDLGFTLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGK 61
D +N L G +P ++G ++P L LNL N +G IP + + L L + N G+
Sbjct: 637 LDMSYNMLSGYIPKEIG-SMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGR 695
Query: 62 VP-SLENLHKLQRVIISQNHL 81
+P ++ L L + +S N+L
Sbjct: 696 IPQAMSALTMLTEIDLSNNNL 716
>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 = 99.4 bits (246), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 77/237 (32%), Positives = 117/237 (49%), Gaps = 6/237 (2%)
Query: 7 NQLQGSLPSDLGFTLPNLEGLNLAGNQFTGPIPVSISN-ASNLRELMIGKNGFSGKVPSL 65
N G LP D + L+ L+L+ N+F+G +P S++N +++L L + N FSG P L
Sbjct: 325 NNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSG--PIL 382
Query: 66 ENLHKLQRVIISQNHLGNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAVGNFST 125
NL + + + + +L N G + +L N S L L +S N G +P ++G+ S
Sbjct: 383 PNLCQNPKNTLQELYLQNNGFTGKIP--PTLSNCSELVSLHLSFNYLSGTIPSSLGSLS- 439
Query: 126 RLGILSVAENQLFGNIPSGXXXXXXXXXXXXXXXQFTSRIPGSIGDLQKLQMLGLNGNKF 185
+L L + N L G IP T IP + + L + L+ N+
Sbjct: 440 KLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRL 499
Query: 186 LGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIPSEVI 242
GEIP IG L L L + N G+IP+ LG C++LI LDL N +GTIP+ +
Sbjct: 500 TGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMF 556
Score = 74.3 bits (181), Expect = 7e-14, Method: Compositional matrix adjust.
Identities = 83/300 (27%), Positives = 125/300 (41%), Gaps = 57/300 (19%)
Query: 6 FNQLQGSLPSDLGFTLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPS- 64
FN L G++PS LG +L L L L N G IP + L L++ N +G++PS
Sbjct: 424 FNYLSGTIPSSLG-SLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSG 482
Query: 65 LENLHKLQRVIISQNHLGNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAVGNFS 124
L N L + +S N L GE +++ L N L +L++S+N+F G +P +G+
Sbjct: 483 LSNCTNLNWISLSNNRL--TGEIP--KWIGRLEN---LAILKLSNNSFSGNIPAELGDCR 535
Query: 125 TRLGILSVAENQLFGNIPS----------------------------------------- 143
+ L L + N G IP+
Sbjct: 536 S-LIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQ 594
Query: 144 GXXXXXXXXXXXXXXXQFTSRIPG-----SIGDLQKLQMLGLNGNKFLGEIPSSIGNLTL 198
G TSR+ G + + + L ++ N G IP IG++
Sbjct: 595 GIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPY 654
Query: 199 LMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIPSEVIGLSSLSIYLDLSQNQL 258
L LN N + GSIP +G + L +LDL +N L G IP + L+ L+ +DLS N L
Sbjct: 655 LFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLT-EIDLSNNNL 713
Score = 71.6 bits (174), Expect = 4e-13, Method: Compositional matrix adjust.
Identities = 72/267 (26%), Positives = 116/267 (43%), Gaps = 45/267 (16%)
Query: 24 LEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNHL-G 82
L+ L ++GN+ +G V +S NL L + N FS +P L + LQ + IS N L G
Sbjct: 177 LKHLAISGNKISGD--VDVSRCVNLEFLDVSSNNFSTGIPFLGDCSALQHLDISGNKLSG 234
Query: 83 NYGEKDNLEFVNSLVNASR--------------LELLQISDNNFGGMLPEAVGNFSTRLG 128
++ + L+N S L+ L +++N F G +P+ + L
Sbjct: 235 DFSRAISTCTELKLLNISSNQFVGPIPPLPLKSLQYLSLAENKFTGEIPDFLSGACDTLT 294
Query: 129 ILSVAENQLFGNIPSGXXXXXXXXXXXXXXXQFTSRIP-GSIGDLQKLQMLGLNGNKFLG 187
L ++ N +G +P F+ +P ++ ++ L++L L+ N+F G
Sbjct: 295 GLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSG 354
Query: 188 EIPSSIGNLTL-LMTLNFAENMLE--------------------------GSIPSSLGKC 220
E+P S+ NL+ L+TL+ + N G IP +L C
Sbjct: 355 ELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNC 414
Query: 221 QNLIVLDLYNNNLSGTIPSEVIGLSSL 247
L+ L L N LSGTIPS + LS L
Sbjct: 415 SELVSLHLSFNYLSGTIPSSLGSLSKL 441
Score = 67.4 bits (163), Expect = 7e-12, Method: Compositional matrix adjust.
Identities = 65/237 (27%), Positives = 100/237 (42%), Gaps = 20/237 (8%)
Query: 7 NQLQGSLPSDLGFTLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPS-- 64
N+L G +P +G L NL L L+ N F+G IP + + +L L + N F+G +P+
Sbjct: 497 NRLTGEIPKWIG-RLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 555
Query: 65 LENLHKLQRVIISQN---HLGNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAVG 121
+ K+ I+ ++ N G K +L+ F G+ E +
Sbjct: 556 FKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLE-------------FQGIRSEQLN 602
Query: 122 NFSTRLGILSVAENQLFGNIPSGXXXXXXXXXXXXXXXQFTSRIPGSIGDLQKLQMLGLN 181
STR ++ G+ + IP IG + L +L L
Sbjct: 603 RLSTR-NPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLG 661
Query: 182 GNKFLGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIP 238
N G IP +G+L L L+ + N L+G IP ++ L +DL NNNLSG IP
Sbjct: 662 HNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIP 718
Score = 48.9 bits (115), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 58/219 (26%), Positives = 98/219 (44%), Gaps = 16/219 (7%)
Query: 45 ASNLRELMIGKNGFSGKVPSLENLHK---LQRVIISQNHLGNYGEKDNLEFVNSLVNASR 101
+++L L + +N SG V +L +L L+ + +S N L G+ V+ + +
Sbjct: 96 SASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGK------VSGGLKLNS 149
Query: 102 LELLQISDNNFGG--MLPEAVGNFSTRLGILSVAENQLFGNIPSGXXXXXXXXXXXXXXX 159
LE+L +S N+ G ++ + + L L+++ N++ G++
Sbjct: 150 LEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDV--DVSRCVNLEFLDVSSN 207
Query: 160 QFTSRIPGSIGDLQKLQMLGLNGNKFLGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGK 219
F++ IP +GD LQ L ++GNK G+ +I T L LN + N G IP
Sbjct: 208 NFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPL--P 264
Query: 220 CQNLIVLDLYNNNLSGTIPSEVIGLSSLSIYLDLSQNQL 258
++L L L N +G IP + G LDLS N
Sbjct: 265 LKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHF 303
Score = 39.3 bits (90), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 25/81 (30%), Positives = 42/81 (51%), Gaps = 2/81 (2%)
Query: 2 FDFPFNQLQGSLPSDLGFTLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGK 61
D +N L G +P ++G ++P L LNL N +G IP + + L L + N G+
Sbjct: 634 LDMSYNMLSGYIPKEIG-SMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGR 692
Query: 62 VP-SLENLHKLQRVIISQNHL 81
+P ++ L L + +S N+L
Sbjct: 693 IPQAMSALTMLTEIDLSNNNL 713
>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 = 53.9 bits (128), Expect = 9e-08, Method: Compositional matrix adjust.
Identities = 50/161 (31%), Positives = 78/161 (48%), Gaps = 21/161 (13%)
Query: 2 FDFPFNQLQGSLPSDLGFTLPNLEGLNLAGNQFTGPIPVSISNASNL-RELMIGKNGFSG 60
DF +N L G+LP + +LPNL G+ GN+ +G IP S + S L + I +N +G
Sbjct: 130 LDFSYNALSGTLPPSIS-SLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTG 188
Query: 61 KV-PSLENLHKLQRVIISQNHLGN-----YGEKDNLEFVNSLVNASRLEL---------- 104
K+ P+ NL+ L V +S+N L +G N + ++ N+ +L
Sbjct: 189 KIPPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLN 247
Query: 105 -LQISDNNFGGMLPEAVGNFSTRLGILSVAENQLFGNIPSG 144
L + +N G LP+ + L L+V+ N L G IP G
Sbjct: 248 GLDLRNNRIYGTLPQGLTQLK-FLHSLNVSFNNLCGEIPQG 287
Score = 53.5 bits (127), Expect = 1e-07, Method: Compositional matrix adjust.
Identities = 30/94 (31%), Positives = 48/94 (51%)
Query: 165 IPGSIGDLQKLQMLGLNGNKFLGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLI 224
IP +I L +L L + G IP + + L+TL+F+ N L G++P S+ NL+
Sbjct: 93 IPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSISSLPNLV 152
Query: 225 VLDLYNNNLSGTIPSEVIGLSSLSIYLDLSQNQL 258
+ N +SG IP S L + +S+N+L
Sbjct: 153 GITFDGNRISGAIPDSYGSFSKLFTSMTISRNRL 186
Score = 50.8 bits (120), Expect = 8e-07, Method: Compositional matrix adjust.
Identities = 31/84 (36%), Positives = 44/84 (52%), Gaps = 1/84 (1%)
Query: 165 IPGSIGDLQKLQMLGLNG-NKFLGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNL 223
IP S+ +L L L + G N +G IP +I LT L L + G+IP L + + L
Sbjct: 68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTL 127
Query: 224 IVLDLYNNNLSGTIPSEVIGLSSL 247
+ LD N LSGT+P + L +L
Sbjct: 128 VTLDFSYNALSGTLPPSISSLPNL 151
Score = 47.4 bits (111), Expect = 8e-06, Method: Compositional matrix adjust.
Identities = 62/241 (25%), Positives = 91/241 (37%), Gaps = 60/241 (24%)
Query: 23 NLEGLNLAGNQFTGPIPVSISNASNLRELMIGK-NGFSGKVPSLENLHKLQRVIISQNHL 81
+L GLNL PIP S++N L L IG N G +P
Sbjct: 56 DLSGLNLPKPY---PIPSSLANLPYLNFLYIGGINNLVGPIPP----------------- 95
Query: 82 GNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAVGNFSTRLGILSVAENQLFGNI 141
++ ++L L I+ N G +P+ + T L L + N L G +
Sbjct: 96 -------------AIAKLTQLHYLYITHTNVSGAIPDFLSQIKT-LVTLDFSYNALSGTL 141
Query: 142 PSGXXXXXXXXXXXXXXXQFTSRIPGSIGDLQKL-QMLGLNGNKFLGEIPSSIGNLTLLM 200
P + + IP S G KL + ++ N+ G+IP + NL L
Sbjct: 142 PPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAF 201
Query: 201 TLNFAENMLEG--------------------SIPSSLGKC---QNLIVLDLYNNNLSGTI 237
++ + NMLEG S+ LGK +NL LDL NN + GT+
Sbjct: 202 -VDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTL 260
Query: 238 P 238
P
Sbjct: 261 P 261
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 63/231 (27%), Positives = 96/231 (41%), Gaps = 18/231 (7%)
Query: 13 LPSDLGFTLPNLEGLNLAG-NQFTGPIPVSISNASNLRELMIGKNGFSGKVPS-LENLHK 70
+PS L LP L L + G N GPIP +I+ + L L I SG +P L +
Sbjct: 68 IPSSLA-NLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKT 126
Query: 71 LQRVIISQNHLGNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAVGNFSTRLGIL 130
L + S N L S+ + L + N G +P++ G+FS +
Sbjct: 127 LVTLDFSYNALSG-------TLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSM 179
Query: 131 SVAENQLFGNIPS--GXXXXXXXXXXXXXXXQFTSRIPGSIGDLQKLQMLGLNGNKF-LG 187
+++ N+L G IP S + GS + QK+ L N F LG
Sbjct: 180 TISRNRLTGKIPPTFANLNLAFVDLSRNMLEGDASVLFGSDKNTQKIH-LAKNSLAFDLG 238
Query: 188 EIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIP 238
++ S L L+ N + G++P L + + L L++ NNL G IP
Sbjct: 239 KVGLSKN----LNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIP 285
Score = 28.5 bits (62), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 16/59 (27%), Positives = 26/59 (44%)
Query: 23 NLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNHL 81
NL GL+L N+ G +P ++ L L + N G++P NL + + N
Sbjct: 245 NLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYANNKC 303
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 30/83 (36%), Positives = 44/83 (53%), Gaps = 3/83 (3%)
Query: 165 IPGSIGDLQKLQMLGLNGNKFLGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLI 224
I +I L L LNGN L E+P+ I NL+ L L+ + N L S+P+ LG C L
Sbjct: 239 ISANIFKYDFLTRLYLNGNS-LTELPAEIKNLSNLRVLDLSHNRL-TSLPAELGSCFQLK 296
Query: 225 VLDLYNNNLSGTIPSEVIGLSSL 247
++N ++ T+P E L +L
Sbjct: 297 YFYFFDNMVT-TLPWEFGNLCNL 318
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 71/246 (28%), Positives = 98/246 (39%), Gaps = 32/246 (13%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
L NL GL L NQ T P + N +NL L + N S + +L L LQ++ S N
Sbjct: 106 LTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTISD-ISALSGLTSLQQLSFSSNQ 162
Query: 81 ------LGNYGEKDNLEF-------VNSLVNASRLELLQISDNNFGGMLPEAVGNFSTRL 127
L N + L+ ++ L + LE L ++N + P + T L
Sbjct: 163 VTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITPLGIL---TNL 219
Query: 128 GILSVAENQL--FGNIPSGXXXXXXXXXXXXXXXQFTSRIPGSIGDLQKLQMLGLNGNKF 185
LS+ NQL G + S Q ++ P + L KL L L N+
Sbjct: 220 DELSLNGNQLKDIGTLAS----LTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQI 273
Query: 186 LGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIP-SEVIGL 244
P + LT L L EN LE P + +NL L LY NN+S P S + L
Sbjct: 274 SNISP--LAGLTALTNLELNENQLEDISP--ISNLKNLTYLTLYFNNISDISPVSSLTKL 329
Query: 245 SSLSIY 250
L Y
Sbjct: 330 QRLFFY 335
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 9 LQGSLPSDLGF--TLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLE 66
L G+ D+G +L NL L+LA NQ + P +S + L EL +G N S P L
Sbjct: 224 LNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNISP-LA 280
Query: 67 NLHKLQRVIISQNHLGNYGEKDNLE 91
L L + +++N L + NL+
Sbjct: 281 GLTALTNLELNENQLEDISPISNLK 305
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 67/233 (28%), Positives = 93/233 (39%), Gaps = 31/233 (13%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
L NL GL L NQ T P + N +NL L + N S + +L L LQ++ S N
Sbjct: 106 LTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTISD-ISALSGLTSLQQLSFSSNQ 162
Query: 81 ------LGNYGEKDNLEF-------VNSLVNASRLELLQISDNNFGGMLPEAVGNFSTRL 127
L N + L+ ++ L + LE L ++N + P + T L
Sbjct: 163 VTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITPLGIL---TNL 219
Query: 128 GILSVAENQL--FGNIPSGXXXXXXXXXXXXXXXQFTSRIPGSIGDLQKLQMLGLNGNKF 185
LS+ NQL G + S Q ++ P + L KL L L N+
Sbjct: 220 DELSLNGNQLKDIGTLAS----LTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQI 273
Query: 186 LGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIP 238
P + LT L L EN LE P + +NL L LY NN+S P
Sbjct: 274 SNISP--LAGLTALTNLELNENQLEDISP--ISNLKNLTYLTLYFNNISDISP 322
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 9 LQGSLPSDLGF--TLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLE 66
L G+ D+G +L NL L+LA NQ + P +S + L EL +G N S P L
Sbjct: 224 LNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNISP-LA 280
Query: 67 NLHKLQRVIISQNHLGNYGEKDNLE 91
L L + +++N L + NL+
Sbjct: 281 GLTALTNLELNENQLEDISPISNLK 305
>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 = 37.4 bits (85), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 39/131 (29%), Positives = 63/131 (48%), Gaps = 20/131 (15%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
L NLE LNL GNQ T P +SN L L IG N + + +L+NL L+ + +++++
Sbjct: 65 LTNLEYLNLNGNQITDISP--LSNLVKLTNLYIGTNKITD-ISALQNLTNLRELYLNEDN 121
Query: 81 LG--------------NYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAVGNFSTR 126
+ N G NL ++ L N + L L ++++ + P + N T
Sbjct: 122 ISDISPLANLTKXYSLNLGANHNLSDLSPLSNXTGLNYLTVTESKVKDVTP--IANL-TD 178
Query: 127 LGILSVAENQL 137
L LS+ NQ+
Sbjct: 179 LYSLSLNYNQI 189
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 37.0 bits (84), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 71/246 (28%), Positives = 98/246 (39%), Gaps = 32/246 (13%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
L NL GL L NQ T P + N +NL L + N S + +L L LQ++ S N
Sbjct: 106 LTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTISD-ISALSGLTSLQQLNFSSNQ 162
Query: 81 ------LGNYGEKDNLEF-------VNSLVNASRLELLQISDNNFGGMLPEAVGNFSTRL 127
L N + L+ ++ L + LE L ++N + P + T L
Sbjct: 163 VTDLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNNQISDITPLGIL---TNL 219
Query: 128 GILSVAENQL--FGNIPSGXXXXXXXXXXXXXXXQFTSRIPGSIGDLQKLQMLGLNGNKF 185
LS+ NQL G + S Q ++ P + L KL L L N+
Sbjct: 220 DELSLNGNQLKDIGTLAS----LTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQI 273
Query: 186 LGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIP-SEVIGL 244
P + LT L L EN LE P + +NL L LY NN+S P S + L
Sbjct: 274 SNISP--LAGLTALTNLELNENQLEDISP--ISNLKNLTYLTLYFNNISDISPVSSLTKL 329
Query: 245 SSLSIY 250
L Y
Sbjct: 330 QRLFFY 335
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 9 LQGSLPSDLGF--TLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLE 66
L G+ D+G +L NL L+LA NQ + P +S + L EL +G N S P L
Sbjct: 224 LNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNISP-LA 280
Query: 67 NLHKLQRVIISQNHLGNYGEKDNLE 91
L L + +++N L + NL+
Sbjct: 281 GLTALTNLELNENQLEDISPISNLK 305
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 35.4 bits (80), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 70/253 (27%), Positives = 96/253 (37%), Gaps = 47/253 (18%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSG-------------------- 60
L NL GL L NQ T P + N +NL L + N S
Sbjct: 106 LTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTISDISALSGLTSLQQLNFGNQVT 163
Query: 61 KVPSLENLHKLQRVIISQNHLGNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAV 120
+ L NL L+R+ IS N + + ++ L + LE L ++N + P +
Sbjct: 164 DLKPLANLTTLERLDISSNKVSD---------ISVLAKLTNLESLIATNNQISDITPLGI 214
Query: 121 GNFSTRLGILSVAENQL--FGNIPSGXXXXXXXXXXXXXXXQFTSRIPGSIGDLQKLQML 178
T L LS+ NQL G + S Q ++ P + L KL L
Sbjct: 215 L---TNLDELSLNGNQLKDIGTLAS----LTNLTDLDLANNQISNLAP--LSGLTKLTEL 265
Query: 179 GLNGNKFLGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIP 238
L N+ P + LT L L EN LE P + +NL L LY NN+S P
Sbjct: 266 KLGANQISNISP--LAGLTALTNLELNENQLEDISP--ISNLKNLTYLTLYFNNISDISP 321
Query: 239 -SEVIGLSSLSIY 250
S + L L Y
Sbjct: 322 VSSLTKLQRLFFY 334
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 9 LQGSLPSDLGF--TLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLE 66
L G+ D+G +L NL L+LA NQ + P +S + L EL +G N S P L
Sbjct: 223 LNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNISP-LA 279
Query: 67 NLHKLQRVIISQNHLGNYGEKDNLE 91
L L + +++N L + NL+
Sbjct: 280 GLTALTNLELNENQLEDISPISNLK 304
>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 = 35.4 bits (80), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 70/253 (27%), Positives = 96/253 (37%), Gaps = 47/253 (18%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSG-------------------- 60
L NL GL L NQ T P + N +NL L + N S
Sbjct: 111 LTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVT 168
Query: 61 KVPSLENLHKLQRVIISQNHLGNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAV 120
+ L NL L+R+ IS N + + ++ L + LE L ++N + P +
Sbjct: 169 DLKPLANLTTLERLDISSNKVSD---------ISVLAKLTNLESLIATNNQISDITPLGI 219
Query: 121 GNFSTRLGILSVAENQL--FGNIPSGXXXXXXXXXXXXXXXQFTSRIPGSIGDLQKLQML 178
T L LS+ NQL G + S Q ++ P + L KL L
Sbjct: 220 ---LTNLDELSLNGNQLKDIGTLAS----LTNLTDLDLANNQISNLAP--LSGLTKLTEL 270
Query: 179 GLNGNKFLGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIP 238
L N+ P + LT L L EN LE P + +NL L LY NN+S P
Sbjct: 271 KLGANQISNISP--LAGLTALTNLELNENQLEDISP--ISNLKNLTYLTLYFNNISDISP 326
Query: 239 -SEVIGLSSLSIY 250
S + L L Y
Sbjct: 327 VSSLTKLQRLFFY 339
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 9 LQGSLPSDLGF--TLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLE 66
L G+ D+G +L NL L+LA NQ + P +S + L EL +G N S P L
Sbjct: 228 LNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNISP-LA 284
Query: 67 NLHKLQRVIISQNHLGNYGEKDNLE 91
L L + +++N L + NL+
Sbjct: 285 GLTALTNLELNENQLEDISPISNLK 309
>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 = 35.0 bits (79), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 66/240 (27%), Positives = 91/240 (37%), Gaps = 46/240 (19%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSG-------------------- 60
L NL GL L NQ T P + N +NL L + N S
Sbjct: 106 LTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTISDISALSGLTSLQQLNFGNQVT 163
Query: 61 KVPSLENLHKLQRVIISQNHLGNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAV 120
+ L NL L+R+ IS N + + ++ L + LE L ++N + P +
Sbjct: 164 DLKPLANLTTLERLDISSNKVSD---------ISVLAKLTNLESLIATNNQISDITPLGI 214
Query: 121 GNFSTRLGILSVAENQL--FGNIPSGXXXXXXXXXXXXXXXQFTSRIPGSIGDLQKLQML 178
T L LS+ NQL G + S Q ++ P + L KL L
Sbjct: 215 L---TNLDELSLNGNQLKDIGTLAS----LTNLTDLDLANNQISNLAP--LSGLTKLTEL 265
Query: 179 GLNGNKFLGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIP 238
L N+ P + LT L L EN LE P + +NL L LY NN+S P
Sbjct: 266 KLGANQISNISP--LAGLTALTNLELNENQLEDISP--ISNLKNLTYLTLYFNNISDISP 321
Score = 28.9 bits (63), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 9 LQGSLPSDLGF--TLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLE 66
L G+ D+G +L NL L+LA NQ + P +S + L EL +G N S P L
Sbjct: 223 LNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNISP-LA 279
Query: 67 NLHKLQRVIISQNHLGNYGEKDNLE 91
L L + +++N L + NL+
Sbjct: 280 GLTALTNLELNENQLEDISPISNLK 304
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 35.0 bits (79), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 69/240 (28%), Positives = 91/240 (37%), Gaps = 46/240 (19%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSG-------------------- 60
L NL GL L NQ T P + N +NL L + N S
Sbjct: 110 LTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTISDISALSGLTSLQQLSFGNQVT 167
Query: 61 KVPSLENLHKLQRVIISQNHLGNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAV 120
+ L NL L+R+ IS N + + L + SL+ + QISD G+L
Sbjct: 168 DLKPLANLTTLERLDISSNKVSDISVLAKLTNLESLIATNN----QISDITPLGIL---- 219
Query: 121 GNFSTRLGILSVAENQL--FGNIPSGXXXXXXXXXXXXXXXQFTSRIPGSIGDLQKLQML 178
T L LS+ NQL G + S Q ++ P + L KL L
Sbjct: 220 ----TNLDELSLNGNQLKDIGTLAS----LTNLTDLDLANNQISNLAP--LSGLTKLTEL 269
Query: 179 GLNGNKFLGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIP 238
L N+ P + LT L L EN LE P + +NL L LY NN+S P
Sbjct: 270 KLGANQISNISP--LAGLTALTNLELNENQLEDISP--ISNLKNLTYLTLYFNNISDISP 325
Score = 28.5 bits (62), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 28/85 (32%), Positives = 42/85 (49%), Gaps = 5/85 (5%)
Query: 9 LQGSLPSDLGF--TLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLE 66
L G+ D+G +L NL L+LA NQ + P +S + L EL +G N S P L
Sbjct: 227 LNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLTKLTELKLGANQISNISP-LA 283
Query: 67 NLHKLQRVIISQNHLGNYGEKDNLE 91
L L + +++N L + NL+
Sbjct: 284 GLTALTNLELNENQLEDISPISNLK 308
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 33.1 bits (74), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 39/126 (30%), Positives = 59/126 (46%), Gaps = 12/126 (9%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPS--LENLHKLQRVIISQ 78
L NL L L GNQ +NL+EL++ +N +P + L L + +
Sbjct: 84 LTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQS-LPDGVFDKLTNLTYLYLYH 142
Query: 79 NHLGNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAVGNFSTRLGILSVAENQLF 138
N L + + + L N +RL+L DNN LPE V + T+L LS+ +NQL
Sbjct: 143 NQLQSLPKG----VFDKLTNLTRLDL----DNNQLQSLPEGVFDKLTQLKQLSLNDNQL- 193
Query: 139 GNIPSG 144
++P G
Sbjct: 194 KSVPDG 199
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 31/93 (33%), Positives = 43/93 (46%), Gaps = 3/93 (3%)
Query: 167 GSIGDLQKLQMLGLNGNKFLGEIPSSI-GNLTLLMTLNFAENMLEGSIPSSLGKCQNLIV 225
++ +L L L L GN+ L +P+ + LT L L EN L+ K NL
Sbjct: 79 SALKELTNLTYLILTGNQ-LQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTY 137
Query: 226 LDLYNNNLSGTIPSEVIGLSSLSIYLDLSQNQL 258
L LY+N L ++P V + LDL NQL
Sbjct: 138 LYLYHNQLQ-SLPKGVFDKLTNLTRLDLDNNQL 169
>pdb|4AW4|A Chain A, Engineered Variant Of Listeria Monocytogenes Inlb
Internalin Domain With An Additional Leucine Rich Repeat
Inserted
pdb|4AW4|B Chain B, Engineered Variant Of Listeria Monocytogenes Inlb
Internalin Domain With An Additional Leucine Rich Repeat
Inserted
pdb|4AW4|C Chain C, Engineered Variant Of Listeria Monocytogenes Inlb
Internalin Domain With An Additional Leucine Rich Repeat
Inserted
Length = 311
Score = 33.1 bits (74), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 37/135 (27%), Positives = 60/135 (44%), Gaps = 19/135 (14%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
LPNL LNL+ NQ T P I N+ +L + N + P L NL L + + +N
Sbjct: 65 LPNLTSLNLSNNQITDISP--IQYLPNVTKLFLNGNKLTDIKP-LANLKNLGWLFLDENK 121
Query: 81 L-------------GNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAVGNFSTRL 127
+ E + + +N LV+ +LE L + +N + V + T+L
Sbjct: 122 VKDLSSLKDLKKLKSLSLEHNGISDINGLVHLPQLESLYLGNNKITDI---TVLSRLTKL 178
Query: 128 GILSVAENQLFGNIP 142
LS+ +NQ+ +P
Sbjct: 179 DTLSLEDNQISDIVP 193
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 32.7 bits (73), Expect = 0.20, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 41/77 (53%), Gaps = 10/77 (12%)
Query: 11 GSLPSDLGF-TLPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLEN-- 67
G + SD F LP+L L L NQ TG P + AS+++EL +G+N K+ + N
Sbjct: 42 GRISSDGLFGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGEN----KIKEISNKM 97
Query: 68 ---LHKLQRVIISQNHL 81
LH+L+ + + N +
Sbjct: 98 FLGLHQLKTLNLYDNQI 114
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 32.0 bits (71), Expect = 0.32, Method: Compositional matrix adjust.
Identities = 23/60 (38%), Positives = 36/60 (60%), Gaps = 4/60 (6%)
Query: 199 LMTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGTIPSEVIGLSSLSIYLDLSQNQL 258
++ LN + NML GS+ L + VLDL+NN + +IP +V L +L L+++ NQL
Sbjct: 430 ILVLNLSSNMLTGSVFRCLPP--KVKVLDLHNNRI-MSIPKDVTHLQALQ-ELNVASNQL 485
>pdb|1D0B|A Chain A, Internalin B Leucine Rich Repeat Domain
Length = 213
Score = 31.6 bits (70), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 34/63 (53%), Gaps = 3/63 (4%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
LP LE L L N+ T I V +S + L L + N S VP L L KLQ + +S+NH
Sbjct: 128 LPQLESLYLGNNKITD-ITV-LSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNH 184
Query: 81 LGN 83
+ +
Sbjct: 185 ISD 187
>pdb|1OTN|A Chain A, Calcium-Binding Mutant Of The Internalin B Lrr Domain
Length = 236
Score = 31.2 bits (69), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 34/63 (53%), Gaps = 3/63 (4%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
LP LE L L N+ T I V +S + L L + N S VP L L KLQ + +S+NH
Sbjct: 151 LPQLESLYLGNNKITD-ITV-LSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNH 207
Query: 81 LGN 83
+ +
Sbjct: 208 ISD 210
>pdb|1OTO|A Chain A, Calcium-Binding Mutant Of The Internalin B Lrr Domain
Length = 236
Score = 31.2 bits (69), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 34/63 (53%), Gaps = 3/63 (4%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
LP LE L L N+ T I V +S + L L + N S VP L L KLQ + +S+NH
Sbjct: 151 LPQLESLYLGNNKITD-ITV-LSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNH 207
Query: 81 LGN 83
+ +
Sbjct: 208 ISD 210
>pdb|1OTM|A Chain A, Calcium-Binding Mutant Of The Internalin B Lrr Domain
Length = 236
Score = 31.2 bits (69), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 34/63 (53%), Gaps = 3/63 (4%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
LP LE L L N+ T I V +S + L L + N S VP L L KLQ + +S+NH
Sbjct: 151 LPQLESLYLGNNKITD-ITV-LSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNH 207
Query: 81 LGN 83
+ +
Sbjct: 208 ISD 210
>pdb|2UZX|A Chain A, Structure Of The Human Receptor Tyrosine Kinase Met In
Complex With The Listeria Monocytogenes Invasion Protein
Inlb: Crystal Form I
pdb|2UZX|C Chain C, Structure Of The Human Receptor Tyrosine Kinase Met In
Complex With The Listeria Monocytogenes Invasion Protein
Inlb: Crystal Form I
pdb|2UZY|A Chain A, Structure Of The Human Receptor Tyrosine Kinase Met In
Complex With The Listeria Monocytogenes Invasion Protein
Inlb: Low Resolution, Crystal Form Ii
pdb|2UZY|C Chain C, Structure Of The Human Receptor Tyrosine Kinase Met In
Complex With The Listeria Monocytogenes Invasion Protein
Inlb: Low Resolution, Crystal Form Ii
pdb|2WQU|A Chain A, Internalin Domain Of Listeria Monocytogenes Inlb:
Triclinic Crystal Form
pdb|2WQU|B Chain B, Internalin Domain Of Listeria Monocytogenes Inlb:
Triclinic Crystal Form
pdb|2WQU|C Chain C, Internalin Domain Of Listeria Monocytogenes Inlb:
Triclinic Crystal Form
pdb|2WQU|D Chain D, Internalin Domain Of Listeria Monocytogenes Inlb:
Triclinic Crystal Form
pdb|2WQU|E Chain E, Internalin Domain Of Listeria Monocytogenes Inlb:
Triclinic Crystal Form
pdb|2WQU|F Chain F, Internalin Domain Of Listeria Monocytogenes Inlb:
Triclinic Crystal Form
pdb|2WQV|A Chain A, Internalin Domain Of Listeria Monocytogenes Inlb:
Rhombohedral Crystal Form
pdb|2WQV|B Chain B, Internalin Domain Of Listeria Monocytogenes Inlb:
Rhombohedral Crystal Form
Length = 289
Score = 31.2 bits (69), Expect = 0.64, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 34/63 (53%), Gaps = 3/63 (4%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
LP LE L L N+ T I V +S + L L + N S VP L L KLQ + +S+NH
Sbjct: 131 LPQLESLYLGNNKITD-ITV-LSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNH 187
Query: 81 LGN 83
+ +
Sbjct: 188 ISD 190
>pdb|2Y5Q|A Chain A, Listeria Monocytogenes Inlb (Internalin B) Residues 36-392
Length = 362
Score = 30.8 bits (68), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 34/63 (53%), Gaps = 3/63 (4%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
LP LE L L N+ T I V +S + L L + N S VP L L KLQ + +S+NH
Sbjct: 133 LPQLESLYLGNNKITD-ITV-LSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNH 189
Query: 81 LGN 83
+ +
Sbjct: 190 ISD 192
>pdb|1H6T|A Chain A, Internalin B: Crystal Structure Of Fused N-Terminal
Domains
Length = 291
Score = 30.8 bits (68), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 34/63 (53%), Gaps = 3/63 (4%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
LP LE L L N+ T I V +S + L L + N S VP L L KLQ + +S+NH
Sbjct: 133 LPQLESLYLGNNKITD-ITV-LSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNH 189
Query: 81 LGN 83
+ +
Sbjct: 190 ISD 192
>pdb|1M9S|A Chain A, Crystal Structure Of Internalin B (Inlb), A Listeria
Monocytogenes Virulence Protein Containing Sh3-Like
Domains
Length = 605
Score = 30.4 bits (67), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 25/63 (39%), Positives = 34/63 (53%), Gaps = 3/63 (4%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
LP LE L L N+ T I V +S + L L + N S VP L L KLQ + +S+NH
Sbjct: 130 LPQLESLYLGNNKITD-ITV-LSRLTKLDTLSLEDNQISDIVP-LAGLTKLQNLYLSKNH 186
Query: 81 LGN 83
+ +
Sbjct: 187 ISD 189
>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 = 30.4 bits (67), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 29/108 (26%), Positives = 52/108 (48%), Gaps = 11/108 (10%)
Query: 160 QFTSRIPGSIGDLQKLQMLGLNGNKFLGEIPSSIGNLTLLMTLNFAENMLEGSIPSSLGK 219
QFT +P + + + L ++ L+ N+ S N+T L+TL + N L P +
Sbjct: 42 QFT-LVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPRTFDG 100
Query: 220 CQNLIVLDLYNNNLSGTIPS----EVIGLSSLSI-----YLDLSQNQL 258
++L +L L+ N++S +P ++ LS L+I Y D + L
Sbjct: 101 LKSLRLLSLHGNDIS-VVPEGAFNDLSALSHLAIGANPLYCDCNMQWL 147
>pdb|2R9U|A Chain A, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|B Chain B, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|C Chain C, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|D Chain D, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
Length = 174
Score = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 28/74 (37%), Positives = 37/74 (50%), Gaps = 4/74 (5%)
Query: 160 QFTSRIPGSIGDLQKLQMLGLNGNKFLGEIPSSI-GNLTLLMTLNFAENMLEGSIPS-SL 217
Q T PG L LQ L N NK L IP+ + LT L L+ +N L+ SIP +
Sbjct: 44 QITKLEPGVFDHLVNLQQLYFNSNK-LTAIPTGVFDKLTQLTQLDLNDNHLK-SIPRGAF 101
Query: 218 GKCQNLIVLDLYNN 231
++L + LYNN
Sbjct: 102 DNLKSLTHIYLYNN 115
>pdb|4AY9|X Chain X, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Y Chain Y, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
pdb|4AY9|Z Chain Z, Structure Of Follicle-Stimulating Hormone In Complex With
The Entire Ectodomain Of Its Receptor
Length = 350
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 36/152 (23%), Positives = 67/152 (44%), Gaps = 23/152 (15%)
Query: 13 LPSDLGFTLPNLEGLNL-AGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKL 71
+ +D+ LP L + + N P + N NL+ L+I G +P + +H L
Sbjct: 70 IEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIK-HLPDVHKIHSL 128
Query: 72 QRVIIS-QNHLGNYGEKDN-------------------LEFVNSLVNASRLELLQISDNN 111
Q+V++ Q+++ + + N E NS N ++L+ L +SDNN
Sbjct: 129 QKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNSAFNGTQLDELNLSDNN 188
Query: 112 FGGMLPEAVGNFSTRLGILSVAENQLFGNIPS 143
LP V + ++ IL ++ ++ +PS
Sbjct: 189 NLEELPNDVFHGASGPVILDISRTRIHS-LPS 219
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 29.6 bits (65), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 38/84 (45%), Gaps = 10/84 (11%)
Query: 165 IPGSIGDLQKLQMLGLNGNKFLGEIPSSIGN---------LTLLMTLNFAENMLEGSIPS 215
+P SI L +L+ L + L E+P + + L L +L + S+P+
Sbjct: 142 LPASIASLNRLRELSIRACPELTELPEPLASTDASGEHQGLVNLQSLRLEWTGIR-SLPA 200
Query: 216 SLGKCQNLIVLDLYNNNLSGTIPS 239
S+ QNL L + N+ LS P+
Sbjct: 201 SIANLQNLKSLKIRNSPLSALGPA 224
Score = 28.5 bits (62), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/52 (36%), Positives = 30/52 (57%), Gaps = 5/52 (9%)
Query: 23 NLEGLNLAGNQFTG--PIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQ 72
NL+ L L ++TG +P SI+N NL+ L I + S P++ +L KL+
Sbjct: 184 NLQSLRL---EWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLE 232
>pdb|2WQX|A Chain A, Inlb321_4r: S199r, D200r, G206r, A227r, C242a Mutant Of
The Listeria Monocytogenes Inlb Internalin Domain
pdb|2WQX|B Chain B, Inlb321_4r: S199r, D200r, G206r, A227r, C242a Mutant Of
The Listeria Monocytogenes Inlb Internalin Domain
Length = 289
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 24/63 (38%), Positives = 33/63 (52%), Gaps = 3/63 (4%)
Query: 21 LPNLEGLNLAGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSLENLHKLQRVIISQNH 80
LP LE L L N+ T I V +S + L L + N VP L L KLQ + +S+NH
Sbjct: 131 LPQLESLYLGNNKITD-ITV-LSRLTKLDTLSLEDNQIRRIVP-LARLTKLQNLYLSKNH 187
Query: 81 LGN 83
+ +
Sbjct: 188 ISD 190
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 17/42 (40%), Positives = 25/42 (59%), Gaps = 1/42 (2%)
Query: 215 SSLGKCQNLIVLDLYNNNLSGTIPSEVIGLSSLSIYLDLSQN 256
+S C+NL +L L++N L+G + GL+ L LDLS N
Sbjct: 49 ASFQSCRNLTILWLHSNALAGIDAAAFTGLTLLE-QLDLSDN 89
>pdb|1XWD|C Chain C, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
pdb|1XWD|F Chain F, Crystal Structure Of Human Follicle Stimulating Hormone
Complexed With Its Receptor
Length = 252
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 36/158 (22%), Positives = 68/158 (43%), Gaps = 23/158 (14%)
Query: 7 NQLQGSLPSDLGFTLPNLEGLNL-AGNQFTGPIPVSISNASNLRELMIGKNGFSGKVPSL 65
N + + +D+ LP L + + N P + N NL+ L+I G +P +
Sbjct: 64 NDVLEVIEADVFSNLPKLHEIRIEKANNLLYINPEAFQNLPNLQYLLISNTGIK-HLPDV 122
Query: 66 ENLHKLQRVIIS-QNHLGNYGEKDN-------------------LEFVNSLVNASRLELL 105
+H LQ+V++ Q+++ + + N E N N ++L+ L
Sbjct: 123 HKIHSLQKVLLDIQDNINIHTIERNSFVGLSFESVILWLNKNGIQEIHNCAFNGTQLDEL 182
Query: 106 QISDNNFGGMLPEAVGNFSTRLGILSVAENQLFGNIPS 143
+SDNN LP V + ++ IL ++ ++ +PS
Sbjct: 183 NLSDNNNLEELPNDVFHGASGPVILDISRTRIHS-LPS 219
>pdb|3R24|A Chain A, Crystal Structure Of Nsp10/nsp16 Complex Of Sars
Coronavirus" If Possible
Length = 344
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 18/23 (78%)
Query: 64 SLENLHKLQRVIISQNHLGNYGE 86
++ NL+K+QR+++ + L NYGE
Sbjct: 56 AMPNLYKMQRMLLEKCDLQNYGE 78
>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 = 28.1 bits (61), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 37/157 (23%), Positives = 62/157 (39%), Gaps = 14/157 (8%)
Query: 81 LGNYGEKDNLEFVNSLVNASRLELLQISDNNFGGMLPEAVGNFSTRLGILSVAENQLFGN 140
LG+ + + + S L+L Q+ D+ LP T + +L++ NQL
Sbjct: 3 LGSASSTTKCTVSHEVADCSHLKLTQVPDD-----LP-------TNITVLNLTHNQL-RR 49
Query: 141 IPSGXXXXXXXXXXXXXXXQFTSRI-PGSIGDLQKLQMLGLNGNKFLGEIPSSIGNLTLL 199
+P+ S++ P L L++L L N+ + T L
Sbjct: 50 LPAANFTRYSQLTSLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNL 109
Query: 200 MTLNFAENMLEGSIPSSLGKCQNLIVLDLYNNNLSGT 236
L+ N ++ + K +NLI LDL +N LS T
Sbjct: 110 TELHLMSNSIQKIKNNPFVKQKNLITLDLSHNGLSST 146
>pdb|2XYR|A Chain A, Crystal Structure Of The Nsp16 Nsp10 Sars Coronavirus
Complex
pdb|2XYV|A Chain A, Crystal Structure Of The Nsp16 Nsp10 Sars Coronavirus
Complex
Length = 292
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 18/23 (78%)
Query: 64 SLENLHKLQRVIISQNHLGNYGE 86
++ NL+K+QR+++ + L NYGE
Sbjct: 10 AMPNLYKMQRMLLEKCDLQNYGE 32
>pdb|2XYQ|A Chain A, Crystal Structure Of The Nsp16 Nsp10 Sars Coronavirus
Complex
Length = 290
Score = 28.1 bits (61), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 10/23 (43%), Positives = 18/23 (78%)
Query: 64 SLENLHKLQRVIISQNHLGNYGE 86
++ NL+K+QR+++ + L NYGE
Sbjct: 10 AMPNLYKMQRMLLEKCDLQNYGE 32
>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 = 27.7 bits (60), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 31/93 (33%), Positives = 44/93 (47%), Gaps = 3/93 (3%)
Query: 167 GSIGDLQKLQMLGLNGNKFLGEIPSSI-GNLTLLMTLNFAENMLEGSIPSSLGKCQNLIV 225
++ +L L L L GN+ L +P+ + LT L L EN L+ K NL
Sbjct: 79 SALKELTNLTYLILTGNQ-LQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTY 137
Query: 226 LDLYNNNLSGTIPSEVIGLSSLSIYLDLSQNQL 258
L+L +N L ++P V + LDLS NQL
Sbjct: 138 LNLAHNQLQ-SLPKGVFDKLTNLTELDLSYNQL 169
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 27.3 bits (59), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 59/144 (40%), Gaps = 14/144 (9%)
Query: 94 NSLVNASRLELLQISDNNFGGMLPEAVGNFSTRLGILSVAENQLFGNIPSGXXXXXXXXX 153
+ + + S L+L Q+ D+ LP T + +L++ NQL +P+
Sbjct: 6 HEVADCSHLKLTQVPDD-----LP-------TNITVLNLTHNQL-RRLPAANFTRYSQLT 52
Query: 154 XXXXXXQFTSRI-PGSIGDLQKLQMLGLNGNKFLGEIPSSIGNLTLLMTLNFAENMLEGS 212
S++ P L L++L L N+ + T L L+ N ++
Sbjct: 53 SLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKI 112
Query: 213 IPSSLGKCQNLIVLDLYNNNLSGT 236
+ K +NLI LDL +N LS T
Sbjct: 113 KNNPFVKQKNLITLDLSHNGLSST 136
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 27.3 bits (59), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 35/144 (24%), Positives = 59/144 (40%), Gaps = 14/144 (9%)
Query: 94 NSLVNASRLELLQISDNNFGGMLPEAVGNFSTRLGILSVAENQLFGNIPSGXXXXXXXXX 153
+ + + S L+L Q+ D+ LP T + +L++ NQL +P+
Sbjct: 11 HEVADCSHLKLTQVPDD-----LP-------TNITVLNLTHNQL-RRLPAANFTRYSQLT 57
Query: 154 XXXXXXQFTSRI-PGSIGDLQKLQMLGLNGNKFLGEIPSSIGNLTLLMTLNFAENMLEGS 212
S++ P L L++L L N+ + T L L+ N ++
Sbjct: 58 SLDVGFNTISKLEPELCQKLPMLKVLNLQHNELSQLSDKTFAFCTNLTELHLMSNSIQKI 117
Query: 213 IPSSLGKCQNLIVLDLYNNNLSGT 236
+ K +NLI LDL +N LS T
Sbjct: 118 KNNPFVKQKNLITLDLSHNGLSST 141
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
0.315 0.137 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,090,529
Number of Sequences: 62578
Number of extensions: 273008
Number of successful extensions: 613
Number of sequences better than 100.0: 72
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 55
Number of HSP's that attempted gapping in prelim test: 422
Number of HSP's gapped (non-prelim): 158
length of query: 258
length of database: 14,973,337
effective HSP length: 97
effective length of query: 161
effective length of database: 8,903,271
effective search space: 1433426631
effective search space used: 1433426631
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 50 (23.9 bits)