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= 039327
(315 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 = 97.8 bits (242), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 81/232 (34%), Positives = 117/232 (50%), Gaps = 14/232 (6%)
Query: 76 LYHQHDLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGPF--RLPIHPHRRLRF 133
L L+ + LS + +G+ P L +A L TL L +++ GP L +P L+
Sbjct: 339 LLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQE 398
Query: 134 LDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGE 193
L + NN F G IP + + L S ++S N L G+IPSS G+++ LR L L N L GE
Sbjct: 399 LYLQNNGFTGKIPPTLSNC-SELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGE 457
Query: 194 IPERLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSL 253
IP+ L LE L L N+L G + N NL + L +NR GEIP+ + + +L
Sbjct: 458 IPQELMY-VKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENL 516
Query: 254 EGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLPSCF 305
L L+NNS S G IP E SL LD++ N +G++P+
Sbjct: 517 AILKLSNNSFS----------GNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 558
Score = 78.6 bits (192), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 79/271 (29%), Positives = 129/271 (47%), Gaps = 46/271 (16%)
Query: 75 FLYHQHDLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGPFRLPIHPHRRLRFL 134
FL L+ + +S K++G F + + +L+ L + ++ GP +P P + L++L
Sbjct: 218 FLGDCSALQHLDISGNKLSGDF-SRAISTCTELKLLNISSNQFVGP--IPPLPLKSLQYL 274
Query: 135 DVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQL---- 190
++ N F G IP + +L ++S N +G++P FG+ + L L LSSN
Sbjct: 275 SLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGEL 334
Query: 191 ---------------------TGEIPERLAVGCVNLEFLALSNNNLKGHM---FCRNFNL 226
+GE+PE L +L L LS+NN G + C+N
Sbjct: 335 PMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPK- 393
Query: 227 ANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS--------------DITMPKNH 272
L++L L++N F G+IP +LS CS L L+L+ N LS D+ + N
Sbjct: 394 NTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNM 453
Query: 273 LEGPIPVEFCQLYSLHILDISDNNISGSLPS 303
LEG IP E + +L L + N+++G +PS
Sbjct: 454 LEGEIPQELMYVKTLETLILDFNDLTGEIPS 484
Score = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 41/87 (47%), Positives = 54/87 (62%), Gaps = 2/87 (2%)
Query: 131 LRFLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQL 190
+ FLD+S N G+IP EIG +P LF N+ N + GSIP G++ L ILDLSSN+L
Sbjct: 634 MMFLDMSYNMLSGYIPKEIGS-MPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKL 692
Query: 191 TGEIPERLAVGCVNLEFLALSNNNLKG 217
G IP+ ++ L + LSNNNL G
Sbjct: 693 DGRIPQAMSA-LTMLTEIDLSNNNLSG 718
Score = 68.6 bits (166), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 78/253 (30%), Positives = 103/253 (40%), Gaps = 32/253 (12%)
Query: 11 SNNHFQIPISLEPLFNHSRLKRLWAYNNEIKAEITES-HSLTAPNFXXXXXXXXXGYGDG 69
S+N+F + ++ L LK L NE E+ ES +L+A
Sbjct: 326 SSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSA----------------- 368
Query: 70 VTFPKFLYHQHDLEDVHLSHIKMNGK-FPNWLLENNAKLETLFLINDSIGGPFRLPIHPH 128
L + LS +G PN L+ L+L N+ G +
Sbjct: 369 -----------SLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNC 417
Query: 129 RRLRFLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSN 188
L L +S N G IP +G L L + N L G IP + L L L N
Sbjct: 418 SELVSLHLSFNYLSGTIPSSLGS-LSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFN 476
Query: 189 QLTGEIPERLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLS 248
LTGEIP L+ C NL +++LSNN L G + L NL L+L +N F G IP L
Sbjct: 477 DLTGEIPSGLS-NCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELG 535
Query: 249 KCSSLEGLYLNNN 261
C SL L LN N
Sbjct: 536 DCRSLIWLDLNTN 548
Score = 66.6 bits (161), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 73/247 (29%), Positives = 110/247 (44%), Gaps = 21/247 (8%)
Query: 71 TFPKFLYHQHDLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGPFRLPIHPHRR 130
T P L L D+ L + G+ P L+ LETL L + + G +
Sbjct: 433 TIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKT-LETLILDFNDLTGEIPSGLSNCTN 491
Query: 131 LRFLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQL 190
L ++ +SNN G IP IG L +L +S N+ G+IP+ G+ L LDL++N
Sbjct: 492 LNWISLSNNRLTGEIPKWIGR-LENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLF 550
Query: 191 TGEIPERL--AVGCVNLEFLA------LSNNNLKG--HMFCRNFNLANLRQLQLEDNRFI 240
G IP + G + F+A + N+ +K H +R QL NR
Sbjct: 551 NGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQL--NRLS 608
Query: 241 GEIPQSLSKCSSLEG-----LYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDN 295
P +++ S + G + NN S+ + M N L G IP E + L IL++ N
Sbjct: 609 TRNPCNIT--SRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHN 666
Query: 296 NISGSLP 302
+ISGS+P
Sbjct: 667 DISGSIP 673
Score = 61.2 bits (147), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 92/347 (26%), Positives = 138/347 (39%), Gaps = 68/347 (19%)
Query: 4 SIEELYLSNNHF--QIPISLEPLFNHSRLKRLWAYNNEIKAEITES-HSLTAPNFXXXXX 60
+++ELYL NN F +IP +L N S L L N + I S SL+
Sbjct: 395 TLQELYLQNNGFTGKIPPTLS---NCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWL 451
Query: 61 XXXXGYGDGVTFPKFLYHQHDLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGP 120
G P+ L + LE + L + G+ P+ L N L + L N+ + G
Sbjct: 452 NMLEG-----EIPQELMYVKTLETLILDFNDLTGEIPSGL-SNCTNLNWISLSNNRLTGE 505
Query: 121 FRLPIHPHRRLRFLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSF------ 174
I L L +SNN+F G+IP E+GD SL +++TN +G+IP++
Sbjct: 506 IPKWIGRLENLAILKLSNNSFSGNIPAELGDCR-SLIWLDLNTNLFNGTIPAAMFKQSGK 564
Query: 175 ------------------------GNMNFLRILDLSSNQLT-------GEIPERLAVGCV 203
G N L + S QL I R+ G
Sbjct: 565 IAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHT 624
Query: 204 N--------LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEG 255
+ + FL +S N L G++ ++ L L L N G IP + L G
Sbjct: 625 SPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGD---LRG 681
Query: 256 LYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP 302
L + + + N L+G IP L L +D+S+NN+SG +P
Sbjct: 682 LNI-------LDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIP 721
Score = 58.2 bits (139), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 62/222 (27%), Positives = 108/222 (48%), Gaps = 25/222 (11%)
Query: 87 LSHIKMNGKFPNWLLENNAKLETLFLINDSIGGPFRL--PIHPHRRLRFLDVSNNNFQGH 144
LS+ +NG + + +A L +L L +S+ GP + L+FL+VS+N
Sbjct: 84 LSNSHINGSVSGF--KCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFP 141
Query: 145 IPVEIGDILPSLFSFNISTNALHGSIPSSF---GNMNFLRILDLSSNQLTGEIPERLAVG 201
V G L SL ++S N++ G+ + L+ L +S N+++G++
Sbjct: 142 GKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVD---VSR 198
Query: 202 CVNLEFLALSNNNLK-GHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNN 260
CVNLEFL +S+NN G F + + L+ L + N+ G+ +++S C+ L+ L +++
Sbjct: 199 CVNLEFLDVSSNNFSTGIPFLG--DCSALQHLDISGNKLSGDFSRAISTCTELKLLNISS 256
Query: 261 NSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP 302
N GPIP L SL L +++N +G +P
Sbjct: 257 ----------NQFVGPIPP--LPLKSLQYLSLAENKFTGEIP 286
Score = 48.1 bits (113), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 36/116 (31%), Positives = 56/116 (48%), Gaps = 1/116 (0%)
Query: 155 SLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPERLAVGCVNLEFLALSNNN 214
S+ ++S N L G IP G+M +L IL+L N ++G IP+ + L L LS+N
Sbjct: 633 SMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVG-DLRGLNILDLSSNK 691
Query: 215 LKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPK 270
L G + L L ++ L +N G IP+ + +LNN L +P+
Sbjct: 692 LDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNPGLCGYPLPR 747
>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 = 97.8 bits (242), Expect = 6e-21, Method: Compositional matrix adjust.
Identities = 81/232 (34%), Positives = 117/232 (50%), Gaps = 14/232 (6%)
Query: 76 LYHQHDLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGPF--RLPIHPHRRLRF 133
L L+ + LS + +G+ P L +A L TL L +++ GP L +P L+
Sbjct: 336 LLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQE 395
Query: 134 LDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGE 193
L + NN F G IP + + L S ++S N L G+IPSS G+++ LR L L N L GE
Sbjct: 396 LYLQNNGFTGKIPPTLSNC-SELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGE 454
Query: 194 IPERLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSL 253
IP+ L LE L L N+L G + N NL + L +NR GEIP+ + + +L
Sbjct: 455 IPQELMY-VKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENL 513
Query: 254 EGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLPSCF 305
L L+NNS S G IP E SL LD++ N +G++P+
Sbjct: 514 AILKLSNNSFS----------GNIPAELGDCRSLIWLDLNTNLFNGTIPAAM 555
Score = 78.6 bits (192), Expect = 4e-15, Method: Compositional matrix adjust.
Identities = 79/271 (29%), Positives = 129/271 (47%), Gaps = 46/271 (16%)
Query: 75 FLYHQHDLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGPFRLPIHPHRRLRFL 134
FL L+ + +S K++G F + + +L+ L + ++ GP +P P + L++L
Sbjct: 215 FLGDCSALQHLDISGNKLSGDF-SRAISTCTELKLLNISSNQFVGP--IPPLPLKSLQYL 271
Query: 135 DVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQL---- 190
++ N F G IP + +L ++S N +G++P FG+ + L L LSSN
Sbjct: 272 SLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGEL 331
Query: 191 ---------------------TGEIPERLAVGCVNLEFLALSNNNLKGHM---FCRNFNL 226
+GE+PE L +L L LS+NN G + C+N
Sbjct: 332 PMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPK- 390
Query: 227 ANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS--------------DITMPKNH 272
L++L L++N F G+IP +LS CS L L+L+ N LS D+ + N
Sbjct: 391 NTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNM 450
Query: 273 LEGPIPVEFCQLYSLHILDISDNNISGSLPS 303
LEG IP E + +L L + N+++G +PS
Sbjct: 451 LEGEIPQELMYVKTLETLILDFNDLTGEIPS 481
Score = 68.9 bits (167), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 41/87 (47%), Positives = 54/87 (62%), Gaps = 2/87 (2%)
Query: 131 LRFLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQL 190
+ FLD+S N G+IP EIG +P LF N+ N + GSIP G++ L ILDLSSN+L
Sbjct: 631 MMFLDMSYNMLSGYIPKEIGS-MPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKL 689
Query: 191 TGEIPERLAVGCVNLEFLALSNNNLKG 217
G IP+ ++ L + LSNNNL G
Sbjct: 690 DGRIPQAMSA-LTMLTEIDLSNNNLSG 715
Score = 68.6 bits (166), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 84/275 (30%), Positives = 112/275 (40%), Gaps = 35/275 (12%)
Query: 11 SNNHFQIPISLEPLFNHSRLKRLWAYNNEIKAEITESHS-LTAPNFXXXXXXXXXGYGDG 69
S+N+F + ++ L LK L NE E+ ES + L+A
Sbjct: 323 SSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSA----------------- 365
Query: 70 VTFPKFLYHQHDLEDVHLSHIKMNGK-FPNWLLENNAKLETLFLINDSIGGPFRLPIHPH 128
L + LS +G PN L+ L+L N+ G +
Sbjct: 366 -----------SLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNC 414
Query: 129 RRLRFLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSN 188
L L +S N G IP +G L L + N L G IP + L L L N
Sbjct: 415 SELVSLHLSFNYLSGTIPSSLGS-LSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFN 473
Query: 189 QLTGEIPERLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLS 248
LTGEIP L+ C NL +++LSNN L G + L NL L+L +N F G IP L
Sbjct: 474 DLTGEIPSGLS-NCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELG 532
Query: 249 KCSSLEGLYLNNNSLSDITMPKNHLE--GPIPVEF 281
C SL L LN N L + T+P + G I F
Sbjct: 533 DCRSLIWLDLNTN-LFNGTIPAAMFKQSGKIAANF 566
Score = 67.0 bits (162), Expect = 1e-11, Method: Compositional matrix adjust.
Identities = 73/247 (29%), Positives = 110/247 (44%), Gaps = 21/247 (8%)
Query: 71 TFPKFLYHQHDLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGPFRLPIHPHRR 130
T P L L D+ L + G+ P L+ LETL L + + G +
Sbjct: 430 TIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKT-LETLILDFNDLTGEIPSGLSNCTN 488
Query: 131 LRFLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQL 190
L ++ +SNN G IP IG L +L +S N+ G+IP+ G+ L LDL++N
Sbjct: 489 LNWISLSNNRLTGEIPKWIGR-LENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLF 547
Query: 191 TGEIPERL--AVGCVNLEFLA------LSNNNLKG--HMFCRNFNLANLRQLQLEDNRFI 240
G IP + G + F+A + N+ +K H +R QL NR
Sbjct: 548 NGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQL--NRLS 605
Query: 241 GEIPQSLSKCSSLEG-----LYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDN 295
P +++ S + G + NN S+ + M N L G IP E + L IL++ N
Sbjct: 606 TRNPCNIT--SRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHN 663
Query: 296 NISGSLP 302
+ISGS+P
Sbjct: 664 DISGSIP 670
Score = 61.2 bits (147), Expect = 7e-10, Method: Compositional matrix adjust.
Identities = 92/347 (26%), Positives = 138/347 (39%), Gaps = 68/347 (19%)
Query: 4 SIEELYLSNNHF--QIPISLEPLFNHSRLKRLWAYNNEIKAEITES-HSLTAPNFXXXXX 60
+++ELYL NN F +IP +L N S L L N + I S SL+
Sbjct: 392 TLQELYLQNNGFTGKIPPTLS---NCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWL 448
Query: 61 XXXXGYGDGVTFPKFLYHQHDLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGP 120
G P+ L + LE + L + G+ P+ L N L + L N+ + G
Sbjct: 449 NMLEG-----EIPQELMYVKTLETLILDFNDLTGEIPSGL-SNCTNLNWISLSNNRLTGE 502
Query: 121 FRLPIHPHRRLRFLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSF------ 174
I L L +SNN+F G+IP E+GD SL +++TN +G+IP++
Sbjct: 503 IPKWIGRLENLAILKLSNNSFSGNIPAELGDCR-SLIWLDLNTNLFNGTIPAAMFKQSGK 561
Query: 175 ------------------------GNMNFLRILDLSSNQLT-------GEIPERLAVGCV 203
G N L + S QL I R+ G
Sbjct: 562 IAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHT 621
Query: 204 N--------LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEG 255
+ + FL +S N L G++ ++ L L L N G IP + L G
Sbjct: 622 SPTFDNNGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGD---LRG 678
Query: 256 LYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP 302
L + + + N L+G IP L L +D+S+NN+SG +P
Sbjct: 679 LNI-------LDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIP 718
Score = 58.2 bits (139), Expect = 6e-09, Method: Compositional matrix adjust.
Identities = 62/222 (27%), Positives = 108/222 (48%), Gaps = 25/222 (11%)
Query: 87 LSHIKMNGKFPNWLLENNAKLETLFLINDSIGGPFRL--PIHPHRRLRFLDVSNNNFQGH 144
LS+ +NG + + +A L +L L +S+ GP + L+FL+VS+N
Sbjct: 81 LSNSHINGSVSGF--KCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFP 138
Query: 145 IPVEIGDILPSLFSFNISTNALHGSIPSSF---GNMNFLRILDLSSNQLTGEIPERLAVG 201
V G L SL ++S N++ G+ + L+ L +S N+++G++
Sbjct: 139 GKVSGGLKLNSLEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKISGDVD---VSR 195
Query: 202 CVNLEFLALSNNNLK-GHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNN 260
CVNLEFL +S+NN G F + + L+ L + N+ G+ +++S C+ L+ L +++
Sbjct: 196 CVNLEFLDVSSNNFSTGIPFLG--DCSALQHLDISGNKLSGDFSRAISTCTELKLLNISS 253
Query: 261 NSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP 302
N GPIP L SL L +++N +G +P
Sbjct: 254 ----------NQFVGPIPP--LPLKSLQYLSLAENKFTGEIP 283
Score = 48.5 bits (114), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 36/116 (31%), Positives = 56/116 (48%), Gaps = 1/116 (0%)
Query: 155 SLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPERLAVGCVNLEFLALSNNN 214
S+ ++S N L G IP G+M +L IL+L N ++G IP+ + L L LS+N
Sbjct: 630 SMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVG-DLRGLNILDLSSNK 688
Query: 215 LKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPK 270
L G + L L ++ L +N G IP+ + +LNN L +P+
Sbjct: 689 LDGRIPQAMSALTMLTEIDLSNNNLSGPIPEMGQFETFPPAKFLNNPGLCGYPLPR 744
>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 = 55.5 bits (132), Expect = 4e-08, Method: Compositional matrix adjust.
Identities = 53/195 (27%), Positives = 89/195 (45%), Gaps = 10/195 (5%)
Query: 72 FPKFLYHQHDLEDVHLSHIKMNGKFPNWLLENNAKLETLFLIN---DSIGGPFRLPIHPH 128
P + L ++++H ++G P++L ++++TL ++ +++ G I
Sbjct: 93 IPPAIAKLTQLHYLYITHTNVSGAIPDFL----SQIKTLVTLDFSYNALSGTLPPSISSL 148
Query: 129 RRLRFLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSN 188
L + N G IP G S IS N L G IP +F N+N L +DLS N
Sbjct: 149 PNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLSRN 207
Query: 189 QLTGEIPERLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLS 248
L G+ L N + + L+ N+L + + NL L L +NR G +PQ L+
Sbjct: 208 MLEGDA-SVLFGSDKNTQKIHLAKNSLAFDLGKVGLS-KNLNGLDLRNNRIYGTLPQGLT 265
Query: 249 KCSSLEGLYLNNNSL 263
+ L L ++ N+L
Sbjct: 266 QLKFLHSLNVSFNNL 280
Score = 45.8 bits (107), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 51/187 (27%), Positives = 73/187 (39%), Gaps = 38/187 (20%)
Query: 131 LRFLDVSN-NNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQ 189
L FL + NN G IP I L L I+ + G+IP + L LD S N
Sbjct: 78 LNFLYIGGINNLVGPIPPAIAK-LTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNA 136
Query: 190 LTGEIPERLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSK 249
L+G +P ++ +L NL + + NR G IP S
Sbjct: 137 LSGTLPPSIS-------------------------SLPNLVGITFDGNRISGAIPDSYGS 171
Query: 250 CSSLEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLPSCF-HPL 308
S L + +T+ +N L G IP F L +L +D+S N + G F
Sbjct: 172 FSKL---------FTSMTISRNRLTGKIPPTFANL-NLAFVDLSRNMLEGDASVLFGSDK 221
Query: 309 YIKKVHL 315
+K+HL
Sbjct: 222 NTQKIHL 228
Score = 34.3 bits (77), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 30/60 (50%), Gaps = 9/60 (15%)
Query: 243 IPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP 302
IP SL+ L LY+ N+L GPIP +L LH L I+ N+SG++P
Sbjct: 68 IPSSLANLPYLNFLYIGG---------INNLVGPIPPAIAKLTQLHYLYITHTNVSGAIP 118
>pdb|2ID5|A Chain A, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|B Chain B, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|C Chain C, Crystal Structure Of The Lingo-1 Ectodomain
pdb|2ID5|D Chain D, Crystal Structure Of The Lingo-1 Ectodomain
Length = 477
Score = 46.6 bits (109), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 55/179 (30%), Positives = 81/179 (45%), Gaps = 22/179 (12%)
Query: 132 RFLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLT 191
R LD+ N + E P L ++ N + P +F N+ LR L L SN+L
Sbjct: 35 RLLDLGKNRIKTLNQDEFAS-FPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLK 93
Query: 192 GEIPERLAVGCVNLEFLALSNNN---LKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLS 248
IP + G NL L +S N L +MF +L NL+ L++ DN + ++ S
Sbjct: 94 -LIPLGVFTGLSNLTKLDISENKIVILLDYMF---QDLYNLKSLEVGDNDLVYISHRAFS 149
Query: 249 KCSSLEGLYLNNNSLSDI-TMPKNHLEGPIPVE-------------FCQLYSLHILDIS 293
+SLE L L +L+ I T +HL G I + F +LY L +L+IS
Sbjct: 150 GLNSLEQLTLEKCNLTSIPTEALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEIS 208
Score = 31.2 bits (69), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 19/45 (42%), Positives = 28/45 (62%), Gaps = 1/45 (2%)
Query: 171 PSSFGNMNFLRILDLSSNQLTGEIPERLAVGCVNLEFLALSNNNL 215
P +F +N+LR+L++S NQLT + E + NLE L L +N L
Sbjct: 289 PYAFRGLNYLRVLNVSGNQLT-TLEESVFHSVGNLETLILDSNPL 332
>pdb|3ZYN|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
pdb|3ZYN|B Chain B, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
Length = 321
Score = 41.2 bits (95), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 56/174 (32%), Positives = 81/174 (46%), Gaps = 17/174 (9%)
Query: 145 IPVEIGDILPSLFSFNISTNALHGSIPS-SFGNMNFLRILDLSSNQLTGEIPERLAVGCV 203
+P + + L L + N + SIPS +F + LR LDL + I E G V
Sbjct: 98 VPTQAFEYLSKLRELWLRNNPIE-SIPSYAFNRVPSLRRLDLGELKRLEYISEAAFEGLV 156
Query: 204 NLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSL 263
NL +L L NLK L L +L+L NR P S +SL L+L + +
Sbjct: 157 NLRYLNLGMCNLKD--IPNLTALVRLEELELSGNRLDLIRPGSFQGLTSLRKLWLMHAQV 214
Query: 264 SDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP-SCFHPLY-IKKVHL 315
+ T+ +N F L SL L++S NN+ SLP F PL+ +++VHL
Sbjct: 215 A--TIERN--------AFDDLKSLEELNLSHNNLM-SLPHDLFTPLHRLERVHL 257
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 40.4 bits (93), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 56/174 (32%), Positives = 81/174 (46%), Gaps = 17/174 (9%)
Query: 145 IPVEIGDILPSLFSFNISTNALHGSIPS-SFGNMNFLRILDLSSNQLTGEIPERLAVGCV 203
+P + + L L + N + SIPS +F + LR LDL + I E G V
Sbjct: 98 VPTQAFEYLSKLRELWLRNNPIE-SIPSYAFNRVPSLRRLDLGELKRLEYISEAAFEGLV 156
Query: 204 NLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSL 263
NL +L L NLK L L +L+L NR P S +SL L+L + +
Sbjct: 157 NLRYLNLGMCNLKD--IPNLTALVRLEELELSGNRLDLIRPGSFQGLTSLRKLWLMHAQV 214
Query: 264 SDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP-SCFHPLY-IKKVHL 315
+ T+ +N F L SL L++S NN+ SLP F PL+ +++VHL
Sbjct: 215 A--TIERN--------AFDDLKSLEELNLSHNNLM-SLPHDLFTPLHRLERVHL 257
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 36.6 bits (83), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 57/181 (31%), Positives = 85/181 (46%), Gaps = 19/181 (10%)
Query: 139 NNFQGHIPVEIGDILPSLFSFNISTNALHGSIPS-SFGNMNFLRILDLSSNQLTGEIPER 197
+N+ IP + L L + N + SIPS +F + L LDL + I E
Sbjct: 132 DNWLTVIPSGAFEYLSKLRELWLRNNPIE-SIPSYAFNRVPSLMRLDLGELKKLEYISEG 190
Query: 198 LAVGCVNLEFLALSNNNLKGHMFCRNFN-LANLRQLQLEDNRFIGEIPQSLSKCSSLEGL 256
G NL++L L N+K N L L +L++ N F P S SSL+ L
Sbjct: 191 AFEGLFNLKYLNLGMCNIKDM---PNLTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKL 247
Query: 257 YLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP-SCFHPL-YIKKVH 314
++ N+ +S I +N +G L SL L+++ NN+S SLP F PL Y+ ++H
Sbjct: 248 WVMNSQVSLIE--RNAFDG--------LASLVELNLAHNNLS-SLPHDLFTPLRYLVELH 296
Query: 315 L 315
L
Sbjct: 297 L 297
>pdb|1G9U|A Chain A, Crystal Structure Of Yopm-leucine Rich Effector Protein
From Yersinia Pestis
pdb|1JL5|A Chain A, Novel Molecular Architecture Of Yopm-A Leucine-Rich
Effector Protein From Yersinia Pestis
Length = 454
Score = 35.8 bits (81), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 56/198 (28%), Positives = 87/198 (43%), Gaps = 44/198 (22%)
Query: 129 RRLRFLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSN 188
+ L+ L V NNN + + D+ P L +S N L +P N +FL+I+D+ +N
Sbjct: 111 QSLKSLLVDNNNLKA-----LSDLPPLLEYLGVSNNQLEK-LPE-LQNSSFLKIIDVDNN 163
Query: 189 QLTGEIPERLAVGCVNLEFLALSNNNLK-----------GHMFCRNFNLANLRQLQLE-- 235
L ++L +LEF+A NN L+ ++ N +L L L L
Sbjct: 164 SL-----KKLPDLPPSLEFIAAGNNQLEELPELQNLPFLTAIYADNNSLKKLPDLPLSLE 218
Query: 236 ----DNRFIGEIPQSLSKCSSLEGLYLNNN----------SLSDITMPKNHLEGPIPVEF 281
N + E+P+ L L +Y +NN SL + + N+L +P E
Sbjct: 219 SIVAGNNILEELPE-LQNLPFLTTIYADNNLLKTLPDLPPSLEALNVRDNYLTD-LP-EL 275
Query: 282 CQLYSLHILDISDNNISG 299
Q SL LD+S+N SG
Sbjct: 276 PQ--SLTFLDVSENIFSG 291
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 33.1 bits (74), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 28/92 (30%), Positives = 46/92 (50%), Gaps = 5/92 (5%)
Query: 176 NMNFLRILDLSSNQLTGEIPERLAVGCVNLEFLALSNNNLKGHMF-CRNFNLANLRQLQL 234
NM+ L LD+S N L +R ++ L LS+N L G +F C ++ L L
Sbjct: 401 NMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRCLP---PKVKVLDL 457
Query: 235 EDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDI 266
+NR I IP+ ++ +L+ L + +N L +
Sbjct: 458 HNNR-IMSIPKDVTHLQALQELNVASNQLKSV 488
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 31/131 (23%), Positives = 56/131 (42%), Gaps = 24/131 (18%)
Query: 106 KLETLFLINDSIGGPFRLPIHPH--RRLRFLDVSNNNFQGHIPVEIGDILPSLFSFNIST 163
+L+TL L + + F++ + L LDVS N+ H S+ N+S+
Sbjct: 378 RLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESILVLNLSS 437
Query: 164 NALHGS---------------------IPSSFGNMNFLRILDLSSNQLTGEIPERLAVGC 202
N L GS IP ++ L+ L+++SNQL +P+ +
Sbjct: 438 NMLTGSVFRCLPPKVKVLDLHNNRIMSIPKDVTHLQALQELNVASNQLKS-VPDGVFDRL 496
Query: 203 VNLEFLALSNN 213
+L+++ L +N
Sbjct: 497 TSLQYIWLHDN 507
>pdb|1M9S|A Chain A, Crystal Structure Of Internalin B (Inlb), A Listeria
Monocytogenes Virulence Protein Containing Sh3-Like
Domains
Length = 605
Score = 32.7 bits (73), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 16/67 (23%)
Query: 253 LEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP----SCFHPL 308
LE LYL NN ++DIT+ +L L L + DN IS +P + L
Sbjct: 133 LESLYLGNNKITDITV------------LSRLTKLDTLSLEDNQISDIVPLAGLTKLQNL 180
Query: 309 YIKKVHL 315
Y+ K H+
Sbjct: 181 YLSKNHI 187
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 41/87 (47%), Gaps = 8/87 (9%)
Query: 205 LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS 264
LE L L NN + L L L LEDN+ +P L+ + L+ LYL+ N +S
Sbjct: 133 LESLYLGNNKITDITVLSR--LTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHIS 188
Query: 265 DITMPKNHLEGPIPVEFCQLYSLHILD 291
D+ L G ++ +L+S L+
Sbjct: 189 DL----RALAGLKNLDVLELFSQECLN 211
>pdb|3BY2|A Chain A, Norwalk P Polypeptide (228-523)
Length = 305
Score = 32.3 bits (72), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 12/91 (13%)
Query: 204 NLEFLALSNNNLKGHMFCRNFNLANLRQLQLE------DNRFIGEIPQSLSKCSSLEGLY 257
NL +LSN+ + + N++ +Q + D R +G P SLS + + G
Sbjct: 18 NLPLSSLSNSRAPLPISSMGISPDNVQSVQFQNGRCTLDGRLVGTTPVSLSHVAKIRG-- 75
Query: 258 LNNNSLSDIT----MPKNHLEGPIPVEFCQL 284
+N ++ ++T P + EGP P+ F L
Sbjct: 76 TSNGTVINLTELDGTPFHPFEGPAPIGFPDL 106
>pdb|2ZL6|A Chain A, Atomic Resolution Structural Characterization Of
Recognition Of Histo- Blood Group Antigens By Norwalk
Virus
pdb|2ZL6|B Chain B, Atomic Resolution Structural Characterization Of
Recognition Of Histo- Blood Group Antigens By Norwalk
Virus
pdb|2ZL7|A Chain A, Atomic Resolution Structural Characterization Of
Recognition Of Histo-Blood Group Antigens By Norwalk
Virus
pdb|2ZL7|B Chain B, Atomic Resolution Structural Characterization Of
Recognition Of Histo-Blood Group Antigens By Norwalk
Virus
Length = 295
Score = 32.3 bits (72), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 12/91 (13%)
Query: 204 NLEFLALSNNNLKGHMFCRNFNLANLRQLQLE------DNRFIGEIPQSLSKCSSLEGLY 257
NL +LSN+ + + N++ +Q + D R +G P SLS + + G
Sbjct: 11 NLPLSSLSNSRAPLPISSMGISPDNVQSVQFQNGRCTLDGRLVGTTPVSLSHVAKIRG-- 68
Query: 258 LNNNSLSDIT----MPKNHLEGPIPVEFCQL 284
+N ++ ++T P + EGP P+ F L
Sbjct: 69 TSNGTVINLTELDGTPFHPFEGPAPIGFPDL 99
>pdb|2WQW|A Chain A, Double-Disulfide Cross-Linked Crystal Dimer Of The
Listeria Monocytogenes Inlb Internalin Domain
pdb|2WQW|B Chain B, Double-Disulfide Cross-Linked Crystal Dimer Of The
Listeria Monocytogenes Inlb Internalin Domain
Length = 286
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 23/67 (34%), Positives = 32/67 (47%), Gaps = 16/67 (23%)
Query: 253 LEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP-SC---FHPL 308
LE LYL NN ++DIT+ +L L L + DN IS +P +C L
Sbjct: 131 LESLYLGNNKITDITV------------LSRLTKLDTLSLEDNQISDIVPLACLTKLQNL 178
Query: 309 YIKKVHL 315
Y+ K H+
Sbjct: 179 YLSKNHI 185
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 31/62 (50%), Gaps = 4/62 (6%)
Query: 205 LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS 264
LE L L NN + L L L LEDN+ +P L+ + L+ LYL+ N +S
Sbjct: 131 LESLYLGNNKITDITVLSR--LTKLDTLSLEDNQISDIVP--LACLTKLQNLYLSKNHIS 186
Query: 265 DI 266
D+
Sbjct: 187 DL 188
>pdb|2ZL5|A Chain A, Atomic Resolution Structural Characterization Of
Recognition Of Histo-Blood Group Antigen By Norwalk
Virus
pdb|2ZL5|B Chain B, Atomic Resolution Structural Characterization Of
Recognition Of Histo-Blood Group Antigen By Norwalk
Virus
Length = 295
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 12/91 (13%)
Query: 204 NLEFLALSNNNLKGHMFCRNFNLANLRQLQLE------DNRFIGEIPQSLSKCSSLEGLY 257
NL +LSN+ + + N++ +Q + D R +G P SLS + + G
Sbjct: 11 NLPLSSLSNSRAPLPISSMGISPDNVQSVQFQNGRCTLDGRLVGTTPVSLSHVAKIRG-- 68
Query: 258 LNNNSLSDIT----MPKNHLEGPIPVEFCQL 284
+N ++ ++T P + EGP P+ F L
Sbjct: 69 TSNGTVINLTELDGTPFHPFEGPAPIGFPDL 99
>pdb|3D26|A Chain A, Norwalk P Domain A-Trisaccharide Complex
pdb|3D26|B Chain B, Norwalk P Domain A-Trisaccharide Complex
Length = 301
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 12/91 (13%)
Query: 204 NLEFLALSNNNLKGHMFCRNFNLANLRQLQLE------DNRFIGEIPQSLSKCSSLEGLY 257
NL +LSN+ + + N++ +Q + D R +G P SLS + + G
Sbjct: 6 NLPLSSLSNSRAPLPISSMGISPDNVQSVQFQNGRCTLDGRLVGTTPVSLSHVAKIRG-- 63
Query: 258 LNNNSLSDIT----MPKNHLEGPIPVEFCQL 284
+N ++ ++T P + EGP P+ F L
Sbjct: 64 TSNGTVINLTELDGTPFHPFEGPAPIGFPDL 94
>pdb|3BY1|A Chain A, Unliganded Norvalk Virus P Domain
Length = 313
Score = 32.3 bits (72), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 12/91 (13%)
Query: 204 NLEFLALSNNNLKGHMFCRNFNLANLRQLQLE------DNRFIGEIPQSLSKCSSLEGLY 257
NL +LSN+ + + N++ +Q + D R +G P SLS + + G
Sbjct: 18 NLPLSSLSNSRAPLPISSMGISPDNVQSVQFQNGRCTLDGRLVGTTPVSLSHVAKIRG-- 75
Query: 258 LNNNSLSDIT----MPKNHLEGPIPVEFCQL 284
+N ++ ++T P + EGP P+ F L
Sbjct: 76 TSNGTVINLTELDGTPFHPFEGPAPIGFPDL 106
>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 = 32.3 bits (72), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 40/135 (29%), Positives = 69/135 (51%), Gaps = 19/135 (14%)
Query: 134 LDVSNNNFQGHIPVEIGDILPSLFSFNISTN-ALHG----SIPSSFGNMNFLRILDLSSN 188
LD+SN ++I +I ++F ++ T L+G +P+ N++ LR+LDLS N
Sbjct: 229 LDLSN--------LQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHN 280
Query: 189 QLTGEIPERLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLS 248
+LT +P L C L++ +N+ + NL NL+ L +E N + + L+
Sbjct: 281 RLTS-LPAELG-SCFQLKYFYFF-DNMVTTLPWEFGNLCNLQFLGVEGNPLEKQFLKILT 337
Query: 249 KCSSLEGL--YLNNN 261
+ S+ GL YL +N
Sbjct: 338 E-KSVTGLIFYLRDN 351
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 34/73 (46%), Gaps = 14/73 (19%)
Query: 240 IGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNIS- 298
I I ++ K L LYLN NSL++ +P E L +L +LD+S N ++
Sbjct: 236 IFNISANIFKYDFLTRLYLNGNSLTE-----------LPAEIKNLSNLRVLDLSHNRLTS 284
Query: 299 --GSLPSCFHPLY 309
L SCF Y
Sbjct: 285 LPAELGSCFQLKY 297
>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 = 32.3 bits (72), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 16/67 (23%)
Query: 253 LEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP----SCFHPL 308
LE LYL NN ++DIT+ +L L L + DN IS +P + L
Sbjct: 134 LESLYLGNNKITDITV------------LSRLTKLDTLSLEDNQISDIVPLAGLTKLQNL 181
Query: 309 YIKKVHL 315
Y+ K H+
Sbjct: 182 YLSKNHI 188
Score = 30.0 bits (66), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 31/62 (50%), Gaps = 4/62 (6%)
Query: 205 LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS 264
LE L L NN + L L L LEDN+ +P L+ + L+ LYL+ N +S
Sbjct: 134 LESLYLGNNKITDITVLSR--LTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHIS 189
Query: 265 DI 266
D+
Sbjct: 190 DL 191
>pdb|2Y5Q|A Chain A, Listeria Monocytogenes Inlb (Internalin B) Residues 36-392
Length = 362
Score = 32.0 bits (71), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 16/67 (23%)
Query: 253 LEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP----SCFHPL 308
LE LYL NN ++DIT+ +L L L + DN IS +P + L
Sbjct: 136 LESLYLGNNKITDITV------------LSRLTKLDTLSLEDNQISDIVPLAGLTKLQNL 183
Query: 309 YIKKVHL 315
Y+ K H+
Sbjct: 184 YLSKNHI 190
Score = 30.4 bits (67), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 31/62 (50%), Gaps = 4/62 (6%)
Query: 205 LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS 264
LE L L NN + L L L LEDN+ +P L+ + L+ LYL+ N +S
Sbjct: 136 LESLYLGNNKITDITVLSR--LTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHIS 191
Query: 265 DI 266
D+
Sbjct: 192 DL 193
>pdb|1H6T|A Chain A, Internalin B: Crystal Structure Of Fused N-Terminal
Domains
Length = 291
Score = 32.0 bits (71), Expect = 0.41, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 16/67 (23%)
Query: 253 LEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP----SCFHPL 308
LE LYL NN ++DIT+ +L L L + DN IS +P + L
Sbjct: 136 LESLYLGNNKITDITV------------LSRLTKLDTLSLEDNQISDIVPLAGLTKLQNL 183
Query: 309 YIKKVHL 315
Y+ K H+
Sbjct: 184 YLSKNHI 190
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 31/62 (50%), Gaps = 4/62 (6%)
Query: 205 LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS 264
LE L L NN + L L L LEDN+ +P L+ + L+ LYL+ N +S
Sbjct: 136 LESLYLGNNKITDITVLSR--LTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHIS 191
Query: 265 DI 266
D+
Sbjct: 192 DL 193
>pdb|1OTM|A Chain A, Calcium-Binding Mutant Of The Internalin B Lrr Domain
Length = 236
Score = 32.0 bits (71), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 16/67 (23%)
Query: 253 LEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP----SCFHPL 308
LE LYL NN ++DIT+ +L L L + DN IS +P + L
Sbjct: 154 LESLYLGNNKITDITV------------LSRLTKLDTLSLEDNQISDIVPLAGLTKLQNL 201
Query: 309 YIKKVHL 315
Y+ K H+
Sbjct: 202 YLSKNHI 208
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 41/87 (47%), Gaps = 8/87 (9%)
Query: 205 LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS 264
LE L L NN + L L L LEDN+ +P L+ + L+ LYL+ N +S
Sbjct: 154 LESLYLGNNKITDITVLSR--LTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHIS 209
Query: 265 DITMPKNHLEGPIPVEFCQLYSLHILD 291
D+ L G ++ +L+S L+
Sbjct: 210 DL----RALAGLKNLDVLELFSQECLN 232
>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 = 32.0 bits (71), Expect = 0.44, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 16/67 (23%)
Query: 253 LEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP----SCFHPL 308
LE LYL NN ++DIT+ +L L L + DN IS +P + L
Sbjct: 156 LESLYLGNNKITDITV------------LSRLTKLDTLSLEDNQISDIVPLAGLTKLQNL 203
Query: 309 YIKKVHL 315
Y+ K H+
Sbjct: 204 YLSKNHI 210
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 31/62 (50%), Gaps = 4/62 (6%)
Query: 205 LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS 264
LE L L NN + L L L LEDN+ +P L+ + L+ LYL+ N +S
Sbjct: 156 LESLYLGNNKITDITVLSR--LTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHIS 211
Query: 265 DI 266
D+
Sbjct: 212 DL 213
>pdb|1OTN|A Chain A, Calcium-Binding Mutant Of The Internalin B Lrr Domain
Length = 236
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 16/67 (23%)
Query: 253 LEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP----SCFHPL 308
LE LYL NN ++DIT+ +L L L + DN IS +P + L
Sbjct: 154 LESLYLGNNKITDITV------------LSRLTKLDTLSLEDNQISDIVPLAGLTKLQNL 201
Query: 309 YIKKVHL 315
Y+ K H+
Sbjct: 202 YLSKNHI 208
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 41/87 (47%), Gaps = 8/87 (9%)
Query: 205 LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS 264
LE L L NN + L L L LEDN+ +P L+ + L+ LYL+ N +S
Sbjct: 154 LESLYLGNNKITDITVLSR--LTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHIS 209
Query: 265 DITMPKNHLEGPIPVEFCQLYSLHILD 291
D+ L G ++ +L+S L+
Sbjct: 210 DL----RALAGLKNLDVLELFSQECLN 232
>pdb|1OTO|A Chain A, Calcium-Binding Mutant Of The Internalin B Lrr Domain
Length = 236
Score = 32.0 bits (71), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 16/67 (23%)
Query: 253 LEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP----SCFHPL 308
LE LYL NN ++DIT+ +L L L + DN IS +P + L
Sbjct: 154 LESLYLGNNKITDITV------------LSRLTKLDTLSLEDNQISDIVPLAGLTKLQNL 201
Query: 309 YIKKVHL 315
Y+ K H+
Sbjct: 202 YLSKNHI 208
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 41/87 (47%), Gaps = 8/87 (9%)
Query: 205 LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS 264
LE L L NN + L L L LEDN+ +P L+ + L+ LYL+ N +S
Sbjct: 154 LESLYLGNNKITDITVLSR--LTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHIS 209
Query: 265 DITMPKNHLEGPIPVEFCQLYSLHILD 291
D+ L G ++ +L+S L+
Sbjct: 210 DL----RALAGLKNLDVLELFSQECLN 232
>pdb|1IHM|A Chain A, Crystal Structure Analysis Of Norwalk Virus Capsid
pdb|1IHM|B Chain B, Crystal Structure Analysis Of Norwalk Virus Capsid
pdb|1IHM|C Chain C, Crystal Structure Analysis Of Norwalk Virus Capsid
Length = 530
Score = 32.0 bits (71), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 24/91 (26%), Positives = 42/91 (46%), Gaps = 12/91 (13%)
Query: 204 NLEFLALSNNNLKGHMFCRNFNLANLRQLQLE------DNRFIGEIPQSLSKCSSLEGLY 257
NL +LSN+ + + N++ +Q + D R +G P SLS + + G
Sbjct: 235 NLPLSSLSNSRAPLPISSMGISPDNVQSVQFQNGRCTLDGRLVGTTPVSLSHVAKIRG-- 292
Query: 258 LNNNSLSDIT----MPKNHLEGPIPVEFCQL 284
+N ++ ++T P + EGP P+ F L
Sbjct: 293 TSNGTVINLTELDGTPFHPFEGPAPIGFPDL 323
>pdb|1D0B|A Chain A, Internalin B Leucine Rich Repeat Domain
Length = 213
Score = 32.0 bits (71), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 22/67 (32%), Positives = 31/67 (46%), Gaps = 16/67 (23%)
Query: 253 LEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP----SCFHPL 308
LE LYL NN ++DIT+ +L L L + DN IS +P + L
Sbjct: 131 LESLYLGNNKITDITV------------LSRLTKLDTLSLEDNQISDIVPLAGLTKLQNL 178
Query: 309 YIKKVHL 315
Y+ K H+
Sbjct: 179 YLSKNHI 185
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 27/86 (31%), Positives = 40/86 (46%), Gaps = 8/86 (9%)
Query: 205 LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS 264
LE L L NN + L L L LEDN+ +P L+ + L+ LYL+ N +S
Sbjct: 131 LESLYLGNNKITDITVLSR--LTKLDTLSLEDNQISDIVP--LAGLTKLQNLYLSKNHIS 186
Query: 265 DITMPKNHLEGPIPVEFCQLYSLHIL 290
D+ L G ++ +L+S L
Sbjct: 187 DL----RALAGLKNLDVLELFSQECL 208
>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 = 31.6 bits (70), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 27/87 (31%), Positives = 42/87 (48%), Gaps = 8/87 (9%)
Query: 205 LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS 264
LE L L NN + L L L LEDN+ +P L++ + L+ LYL+ N +S
Sbjct: 134 LESLYLGNNKITDITVLSR--LTKLDTLSLEDNQIRRIVP--LARLTKLQNLYLSKNHIS 189
Query: 265 DITMPKNHLEGPIPVEFCQLYSLHILD 291
D+ L G ++ +L+S L+
Sbjct: 190 DLRA----LRGLKNLDVLELFSQEALN 212
Score = 30.4 bits (67), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 30/68 (44%), Gaps = 16/68 (23%)
Query: 252 SLEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNISGSLP----SCFHP 307
LE LYL NN ++DIT+ +L L L + DN I +P +
Sbjct: 133 QLESLYLGNNKITDITV------------LSRLTKLDTLSLEDNQIRRIVPLARLTKLQN 180
Query: 308 LYIKKVHL 315
LY+ K H+
Sbjct: 181 LYLSKNHI 188
>pdb|3V47|A Chain A, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
pdb|3V47|B Chain B, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
Length = 455
Score = 31.6 bits (70), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 34/97 (35%), Positives = 51/97 (52%), Gaps = 9/97 (9%)
Query: 153 LPSLFSFNISTNALHGSIPSS-FGNMNFLRILDLSSNQLTGEIPERLAVGCVNLEFLALS 211
L L N+S N L GSI S F N++ L +LDLS N + + ++ +G NL+ LAL
Sbjct: 322 LTHLLKLNLSQNFL-GSIDSRMFENLDKLEVLDLSYNHIRA-LGDQSFLGLPNLKELALD 379
Query: 212 NNNLKG---HMFCRNFNLANLRQLQLEDNRFIGEIPQ 245
N LK +F R L +L+++ L N + P+
Sbjct: 380 TNQLKSVPDGIFDR---LTSLQKIWLHTNPWDCSCPR 413
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 31.6 bits (70), Expect = 0.61, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 42/91 (46%), Gaps = 7/91 (7%)
Query: 174 FGNMNFLRILDLSSNQLTGEIPERLAVGCVNLEFLALSNNNLK---GHMFCRNFNLANLR 230
FG + L L+L NQLTG P G +++ L L N +K MF L L+
Sbjct: 50 FGRLPHLVKLELKRNQLTGIEPNAFE-GASHIQELQLGENKIKEISNKMF---LGLHQLK 105
Query: 231 QLQLEDNRFIGEIPQSLSKCSSLEGLYLNNN 261
L L DN+ +P S +SL L L +N
Sbjct: 106 TLNLYDNQISCVMPGSFEHLNSLTSLNLASN 136
>pdb|1G9N|G Chain G, Hiv-1 Yu2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1RZK|G Chain G, Hiv-1 Yu2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1YYL|G Chain G, Crystal Structure Of Cd4m33, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|1YYL|P Chain P, Crystal Structure Of Cd4m33, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|1YYM|G Chain G, Crystal Structure Of F23, A Scorpion-Toxin Mimic Of Cd4,
In Complex With Hiv-1 Yu2 Gp120 Envelope Glycoprotein
And Anti-Hiv-1 Antibody 17b
pdb|1YYM|P Chain P, Crystal Structure Of F23, A Scorpion-Toxin Mimic Of Cd4,
In Complex With Hiv-1 Yu2 Gp120 Envelope Glycoprotein
And Anti-Hiv-1 Antibody 17b
pdb|2I5Y|G Chain G, Crystal Structure Of Cd4m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I5Y|P Chain P, Crystal Structure Of Cd4m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I60|G Chain G, Crystal Structure Of [phe23]m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
pdb|2I60|P Chain P, Crystal Structure Of [phe23]m47, A Scorpion-Toxin Mimic Of
Cd4, In Complex With Hiv-1 Yu2 Gp120 Envelope
Glycoprotein And Anti-Hiv-1 Antibody 17b
Length = 313
Score = 31.6 bits (70), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 39/96 (40%), Gaps = 6/96 (6%)
Query: 223 NFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLN----NNSLSDITMPKNHLEGPIP 278
NFN+ ++ I QSL C L L + N S+ PK E PIP
Sbjct: 14 NFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTPLCVGAGSCNTSVITQACPKVSFE-PIP 72
Query: 279 VEFCQLYSLHILDISDNNISGSLPSCFHPLYIKKVH 314
+ +C IL +D +G+ P C + ++ H
Sbjct: 73 IHYCAPAGFAILKCNDKKFNGTGP-CTNVSTVQCTH 107
>pdb|3O6N|A Chain A, Crystal Structure Of Apl1 Leucine-Rich Repeat Domain
Length = 390
Score = 31.2 bits (69), Expect = 0.71, Method: Compositional matrix adjust.
Identities = 51/217 (23%), Positives = 84/217 (38%), Gaps = 45/217 (20%)
Query: 94 GKFPNWLLENNAKLETLFLINDSIGGPFRLPIHPHRRLRFLDVSNNNFQGHIPVEIGDIL 153
P + N KL TL + N+++ L+ L +S+N H+ + + +
Sbjct: 130 SSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRL-THVDLSL---I 185
Query: 154 PSLFSFNISTNAL---------------HGSIPSSFGNMNF-LRILDLSSNQLTGEIPER 197
PSLF N+S N L H SI G +N L IL L N LT
Sbjct: 186 PSLFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLL 245
Query: 198 LAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIG---------------- 241
G V ++ LS N L+ M+ + L +L + +NR +
Sbjct: 246 NYPGLVEVD---LSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDL 302
Query: 242 ------EIPQSLSKCSSLEGLYLNNNSLSDITMPKNH 272
+ ++ + LE LYL++NS+ + + +H
Sbjct: 303 SHNHLLHVERNQPQFDRLENLYLDHNSIVTLKLSTHH 339
Score = 30.8 bits (68), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 59/225 (26%), Positives = 89/225 (39%), Gaps = 48/225 (21%)
Query: 96 FPNWLLENNAKLETLFLINDSIGGPFRLPIHPHRRLRFLDVSNNN--------FQGHIPV 147
P + +N L L L + + R H +L L +SNNN FQ +
Sbjct: 108 LPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSL 167
Query: 148 E------------IGDILPSLFSFNISTNALHG-SIPSSFGNMNFLRILDLSSNQLTGEI 194
+ ++PSLF N+S N L +IP + LD S N +
Sbjct: 168 QNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEE------LDASHNSIN--- 218
Query: 195 PERLAVGCVNLEF--LALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSS 252
+ G VN+E L L +NNL + N+ L ++ L N + K
Sbjct: 219 ---VVRGPVNVELTILKLQHNNLTDTAWLLNY--PGLVEVDLSYNELEKIMYHPFVKMQR 273
Query: 253 LEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNI 297
LE LY++NN L + N PIP +L +LD+S N++
Sbjct: 274 LERLYISNNRLVAL----NLYGQPIP-------TLKVLDLSHNHL 307
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 51/115 (44%), Gaps = 23/115 (20%)
Query: 172 SSFGNMNFLRILDLSSNQLTGEIP----ERLAV---------------GCVNLEFLALSN 212
S+ + ++ LDL+S Q+T P L V G NL++L++ N
Sbjct: 101 SAIAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGN 160
Query: 213 NNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDIT 267
+ NL+ L L+ +DN+ P L+ +L ++L NN +SD++
Sbjct: 161 AQVSD--LTPLANLSKLTTLKADDNKISDISP--LASLPNLIEVHLKNNQISDVS 211
>pdb|4FHO|A Chain A, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
pdb|4FHO|B Chain B, Crystal Structure Of An Internalin C2 (Inlc2) From
Listeria Monocytogenes Str. 4b F2365 At 1.90 A
Resolution
Length = 231
Score = 31.2 bits (69), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 29/115 (25%), Positives = 52/115 (45%), Gaps = 23/115 (20%)
Query: 172 SSFGNMNFLRILDLSSNQLTGEIP----ERLAV---------------GCVNLEFLALSN 212
S+ + ++ LDL+S Q+T P L V G NL++L++ N
Sbjct: 107 SAIAGLQSIKTLDLTSTQITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTNLQYLSIGN 166
Query: 213 NNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDIT 267
N + NL+ L L+ +DN+ P L+ +L ++L +N +SD++
Sbjct: 167 NQVND--LTPLANLSKLTTLRADDNKISDISP--LASLPNLIEVHLKDNQISDVS 217
>pdb|3NGB|G Chain G, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc01 In Complex With Hiv-1 Gp120
pdb|3NGB|A Chain A, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc01 In Complex With Hiv-1 Gp120
pdb|3NGB|D Chain D, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc01 In Complex With Hiv-1 Gp120
pdb|3NGB|I Chain I, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc01 In Complex With Hiv-1 Gp120
pdb|3SE8|G Chain G, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc03 In Complex With Hiv-1 Gp120
pdb|3SE9|G Chain G, Crystal Structure Of Broadly And Potently Neutralizing
Antibody Vrc- Pg04 In Complex With Hiv-1 Gp120
pdb|3TGT|A Chain A, Crystal Structure Of Unliganded Hiv-1 Clade AE STRAIN
93TH057 GP120 Core
Length = 353
Score = 31.2 bits (69), Expect = 0.80, Method: Compositional matrix adjust.
Identities = 23/82 (28%), Positives = 33/82 (40%), Gaps = 6/82 (7%)
Query: 222 RNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEF 281
NFN+ ++ I QSL C L G S+ PK + PIP+ +
Sbjct: 48 ENFNMWKNNMVEQMQEDVISLWDQSLQPCVKLTG-----GSVIKQACPKISFD-PIPIHY 101
Query: 282 CQLYSLHILDISDNNISGSLPS 303
C IL +D N +G+ P
Sbjct: 102 CTPAGYVILKCNDKNFNGTGPC 123
>pdb|2QAD|A Chain A, Structure Of Tyrosine-Sulfated 412d Antibody Complexed
With Hiv-1 Yu2 Gp120 And Cd4
pdb|2QAD|E Chain E, Structure Of Tyrosine-Sulfated 412d Antibody Complexed
With Hiv-1 Yu2 Gp120 And Cd4
Length = 322
Score = 31.2 bits (69), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 37/92 (40%), Gaps = 7/92 (7%)
Query: 223 NFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEFC 282
NFN+ ++ I QSL C L G S+ PK E PIP+ +C
Sbjct: 4 NFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTG-----GSVITQACPKVSFE-PIPIHYC 57
Query: 283 QLYSLHILDISDNNISGSLPSCFHPLYIKKVH 314
IL +D +G+ P C + ++ H
Sbjct: 58 APAGFAILKCNDKKFNGTGP-CTNVSTVQCTH 88
>pdb|3HI1|G Chain G, Structure Of Hiv-1 Gp120 (Core With V3) In Complex With
Cd4-Binding- Site Antibody F105
pdb|3HI1|J Chain J, Structure Of Hiv-1 Gp120 (Core With V3) In Complex With
Cd4-Binding- Site Antibody F105
Length = 321
Score = 31.2 bits (69), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 37/92 (40%), Gaps = 7/92 (7%)
Query: 223 NFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEFC 282
NFN+ ++ I QSL C L G S+ PK E PIP+ +C
Sbjct: 3 NFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTG-----GSVITQACPKVSFE-PIPIHYC 56
Query: 283 QLYSLHILDISDNNISGSLPSCFHPLYIKKVH 314
IL +D +G+ P C + ++ H
Sbjct: 57 APAGFAILKCNDKKFNGTGP-CTNVSTVQCTH 87
>pdb|3TGQ|A Chain A, Crystal Structure Of Unliganded Hiv-1 Clade B Strain Yu2
Gp120 Core
pdb|3TGQ|B Chain B, Crystal Structure Of Unliganded Hiv-1 Clade B Strain Yu2
Gp120 Core
pdb|3TGQ|C Chain C, Crystal Structure Of Unliganded Hiv-1 Clade B Strain Yu2
Gp120 Core
pdb|3TGQ|D Chain D, Crystal Structure Of Unliganded Hiv-1 Clade B Strain Yu2
Gp120 Core
Length = 352
Score = 31.2 bits (69), Expect = 0.84, Method: Compositional matrix adjust.
Identities = 25/93 (26%), Positives = 37/93 (39%), Gaps = 7/93 (7%)
Query: 222 RNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEF 281
NFN+ ++ I QSL C L G S+ PK E PIP+ +
Sbjct: 48 ENFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTG-----GSVITQACPKVSFE-PIPIHY 101
Query: 282 CQLYSLHILDISDNNISGSLPSCFHPLYIKKVH 314
C IL +D +G+ P C + ++ H
Sbjct: 102 CAPAGFAILKCNDKKFNGTGP-CTNVSTVQCTH 133
>pdb|4DKO|A Chain A, Crystal Structure Of Clade AE 93TH057 HIV-1 Gp120 Core In
Complex With Ts-Ii-224
pdb|4DKO|C Chain C, Crystal Structure Of Clade AE 93TH057 HIV-1 Gp120 Core In
Complex With Ts-Ii-224
pdb|4DKP|A Chain A, Crystal Structure Of Clade AE 93TH057 HIV-1 Gp120 Core In
Complex With Aws-I-50
pdb|4DKP|C Chain C, Crystal Structure Of Clade AE 93TH057 HIV-1 Gp120 Core In
Complex With Aws-I-50
pdb|4DKQ|A Chain A, Crystal Structure Of Clade AE 93TH057 HIV-1 Gp120 Core In
Complex With Dmj-I-228
pdb|4DKR|A Chain A, Crystal Structure Of Clade AE 93TH057 HIV-1 Gp120 Core In
Complex With Aws-I-169
pdb|4DKR|C Chain C, Crystal Structure Of Clade AE 93TH057 HIV-1 Gp120 Core In
Complex With Aws-I-169
pdb|4DVS|A Chain A, Crystal Structure Of Clade A/e 93th057 Hiv-1 Gp120 Core In
Complex With Nbd-557
pdb|4DVS|B Chain B, Crystal Structure Of Clade A/e 93th057 Hiv-1 Gp120 Core In
Complex With Nbd-557
pdb|4DVT|A Chain A, Crystal Structure Of Clade A/e 93th057 Hiv-1 Gp120 Core In
Complex With As-ii-37
pdb|4DVT|B Chain B, Crystal Structure Of Clade A/e 93th057 Hiv-1 Gp120 Core In
Complex With As-ii-37
pdb|4DVV|A Chain A, Crystal Structure Of Clade A/e 93th057 Hiv-1 Gp120 Core In
Complex With As-i-261
pdb|4DVV|B Chain B, Crystal Structure Of Clade A/e 93th057 Hiv-1 Gp120 Core In
Complex With As-i-261
pdb|4DVW|A Chain A, Crystal Structure Of Clade A/e 93th057 Hiv-1 Gp120 Core In
Complex With Mae-ii-167
pdb|4DVW|B Chain B, Crystal Structure Of Clade A/e 93th057 Hiv-1 Gp120 Core In
Complex With Mae-ii-167
pdb|4DVX|A Chain A, Crystal Structure Of Clade A/e 93th057 Hiv-1 Gp120 Core In
Complex With Mae-ii-188
pdb|4DVX|B Chain B, Crystal Structure Of Clade A/e 93th057 Hiv-1 Gp120 Core In
Complex With Mae-ii-188
Length = 353
Score = 31.2 bits (69), Expect = 0.88, Method: Compositional matrix adjust.
Identities = 23/81 (28%), Positives = 33/81 (40%), Gaps = 6/81 (7%)
Query: 222 RNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEF 281
NFN+ ++ I QSL C L G S+ PK + PIP+ +
Sbjct: 48 ENFNMWKNNMVEQMQEDVISLWDQSLQPCVKLTG-----GSVIKQACPKISFD-PIPIHY 101
Query: 282 CQLYSLHILDISDNNISGSLP 302
C IL +D N +G+ P
Sbjct: 102 CTPAGYVILKCNDKNFNGTGP 122
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 31.2 bits (69), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 37/131 (28%), Positives = 55/131 (41%), Gaps = 2/131 (1%)
Query: 131 LRFLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQL 190
L +L ++ N Q +P + D L +L + N L F + L L L NQL
Sbjct: 87 LTYLILTGNQLQS-LPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLYLYHNQL 145
Query: 191 TGEIPERLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKC 250
+P+ + NL L L NN L+ L L+QL L DN+ +
Sbjct: 146 QS-LPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLKQLSLNDNQLKSVPDGVFDRL 204
Query: 251 SSLEGLYLNNN 261
+SL ++L NN
Sbjct: 205 TSLTHIWLLNN 215
>pdb|4DVR|G Chain G, Crystal Structure Of Yu2 Gp120 Core In Complex With Fab
48d And Nbd- 557
Length = 313
Score = 30.8 bits (68), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 25/92 (27%), Positives = 37/92 (40%), Gaps = 7/92 (7%)
Query: 223 NFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEFC 282
NFN+ ++ I QSL C L G S+ PK E PIP+ +C
Sbjct: 10 NFNMWKNNMVEQMHEDIISLWDQSLKPCVKLTG-----GSVITQACPKVSFE-PIPIHYC 63
Query: 283 QLYSLHILDISDNNISGSLPSCFHPLYIKKVH 314
IL +D +G+ P C + ++ H
Sbjct: 64 APAGFAILKCNDKKFNGTGP-CTNVSTVQCTH 94
>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 = 30.8 bits (68), Expect = 0.94, Method: Compositional matrix adjust.
Identities = 37/143 (25%), Positives = 62/143 (43%), Gaps = 32/143 (22%)
Query: 156 LFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPERLAVGCVNLEFLALSNNNL 215
L + N++ N + +F + LRILDL N EI ++ LS
Sbjct: 383 LLTLNLTKNHISKIANGTFSWLGQLRILDLGLN----EIEQK------------LSGQEW 426
Query: 216 KGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEG 275
+G L N+ ++ L N+++ S + SL+ L L +L ++ +
Sbjct: 427 RG--------LRNIFEIYLSYNKYLQLSTSSFALVPSLQRLMLRRVALKNVDIS------ 472
Query: 276 PIPVEFCQLYSLHILDISDNNIS 298
P F L +L ILD+S+NNI+
Sbjct: 473 --PSPFRPLRNLTILDLSNNNIA 493
Score = 30.0 bits (66), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 48/146 (32%), Positives = 64/146 (43%), Gaps = 21/146 (14%)
Query: 171 PSSFGNMNFLRILDLSSNQLTGEIPERLAVGCVNLEFLALSNNNLKGHMFCR-------N 223
PS F + L ILDLS+N + I E L G NLE L +NNL ++ R N
Sbjct: 473 PSPFRPLRNLTILDLSNNNI-ANINEDLLEGLENLEILDFQHNNL-ARLWKRANPGGPVN 530
Query: 224 F--NLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEF 281
F L++L L LE N + EIP G++ N L I + N+L P F
Sbjct: 531 FLKGLSHLHILNLESNG-LDEIPV---------GVFKNLFELKSINLGLNNLNKLEPFIF 580
Query: 282 CQLYSLHILDISDNNISGSLPSCFHP 307
SL L++ N I+ F P
Sbjct: 581 DDQTSLRSLNLQKNLITSVEKDVFGP 606
Score = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 49/186 (26%), Positives = 73/186 (39%), Gaps = 30/186 (16%)
Query: 144 HIPVEIGDILPS-LFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPERLAV-- 200
HIP D LPS + N++ N L P++F + L ILD N ++ PE +
Sbjct: 18 HIP----DDLPSNITVLNLTHNQLRRLPPTNFTRYSQLAILDAGFNSISKLEPELCQILP 73
Query: 201 --GCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYL 258
+NL+ LS + + +FC NL +L L N +L L L
Sbjct: 74 LLKVLNLQHNELSQISDQTFVFC-----TNLTELDLMSNSIHKIKSNPFKNQKNLIKLDL 128
Query: 259 NNNSLSDITM--------------PKNHLEG--PIPVEFCQLYSLHILDISDNNISGSLP 302
++N LS + KN + +EF SL LD+S N + P
Sbjct: 129 SHNGLSSTKLGTGVQLENLQELLLAKNKILALRSEELEFLGNSSLRKLDLSSNPLKEFSP 188
Query: 303 SCFHPL 308
CF +
Sbjct: 189 GCFQTI 194
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 28/81 (34%), Positives = 40/81 (49%), Gaps = 8/81 (9%)
Query: 139 NNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIP--- 195
+N G +PV + D L L ++ TN L + F + L+ L + N+LT E+P
Sbjct: 73 SNQLGALPVGVFDSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMCCNKLT-ELPRGI 131
Query: 196 ERLAVGCVNLEFLALSNNNLK 216
ERL +L LAL N LK
Sbjct: 132 ERL----THLTHLALDQNQLK 148
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 31/118 (26%), Positives = 55/118 (46%), Gaps = 18/118 (15%)
Query: 156 LFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPERLAVGCVNLEFLALSNNNL 215
L + ++ N L ++P+S ++N LR L + + E+PE LA + E
Sbjct: 129 LETLTLARNPLR-ALPASIASLNRLRELSIRACPELTELPEPLASTDASGE--------- 178
Query: 216 KGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHL 273
+ L NL+ L+LE I +P S++ +L+ L + N+ LS + +HL
Sbjct: 179 -------HQGLVNLQSLRLEWT-GIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHL 228
>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 = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 71/269 (26%), Positives = 115/269 (42%), Gaps = 33/269 (12%)
Query: 1 HLTSIEELYLSNNHFQIPISLEPLFNHSRLKRLWAYNNEIKAEITESHSLTAPNFXXXXX 60
+LT++ L L NN ++PL N + L RL +N I ++I+ LT+
Sbjct: 105 NLTNLTGLTLFNNQIT---DIDPLKNLTNLNRLELSSNTI-SDISALSGLTS-------- 152
Query: 61 XXXXGYGDGVTFPKFLYHQHDLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGP 120
+G+ VT K L + LE + +S K++ +L LE+L N+ I
Sbjct: 153 LQQLNFGNQVTDLKPLANLTTLERLDISSNKVSDIS---VLAKLTNLESLIATNNQISD- 208
Query: 121 FRLPIHPHRRLRFLDVSNNNFQGHIPVEIGDI--LPSLFSFNISTNALHGSIPSSFGNMN 178
I P L LD + G+ +IG + L +L +++ N + P +
Sbjct: 209 ----ITPLGILTNLDELS--LNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLT 260
Query: 179 FLRILDLSSNQLTGEIPERLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNR 238
L L L +NQ++ P G L L L+ N L+ NL NL L L N
Sbjct: 261 KLTELKLGANQISNISP---LAGLTALTNLELNENQLED--ISPISNLKNLTYLTLYFNN 315
Query: 239 FIGEIPQSLSKCSSLEGLYLNNNSLSDIT 267
P +S + L+ L+ +NN +SD++
Sbjct: 316 ISDISP--VSSLTKLQRLFFSNNKVSDVS 342
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 45/150 (30%), Positives = 70/150 (46%), Gaps = 23/150 (15%)
Query: 125 IHPHRRL-RFLDVSNNNFQGHIPVEIGDILP-----SLFSFNISTNALHGSIPSSFGNMN 178
I P + L + +D+ NN Q I DI P +L + N + P N+
Sbjct: 78 ITPLKNLTKLVDILMNNNQ------IADITPLANLTNLTGLTLFNNQITDIDP--LKNLT 129
Query: 179 FLRILDLSSNQLTGEIPERLAV-GCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDN 237
L L+LSSN I + A+ G +L+ L+ S+N + N L L +L + N
Sbjct: 130 NLNRLELSSN----TISDISALSGLTSLQQLSFSSNQVTDLKPLAN--LTTLERLDISSN 183
Query: 238 RFIGEIPQSLSKCSSLEGLYLNNNSLSDIT 267
+ + +I L+K ++LE L NN +SDIT
Sbjct: 184 K-VSDI-SVLAKLTNLESLIATNNQISDIT 211
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 45/150 (30%), Positives = 70/150 (46%), Gaps = 23/150 (15%)
Query: 125 IHPHRRL-RFLDVSNNNFQGHIPVEIGDILP-----SLFSFNISTNALHGSIPSSFGNMN 178
I P + L + +D+ NN Q I DI P +L + N + P N+
Sbjct: 78 ITPLKNLTKLVDILMNNNQ------IADITPLANLTNLTGLTLFNNQITDIDP--LKNLT 129
Query: 179 FLRILDLSSNQLTGEIPERLAV-GCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDN 237
L L+LSSN I + A+ G +L+ L+ S+N + N L L +L + N
Sbjct: 130 NLNRLELSSN----TISDISALSGLTSLQQLSFSSNQVTDLKPLAN--LTTLERLDISSN 183
Query: 238 RFIGEIPQSLSKCSSLEGLYLNNNSLSDIT 267
+ + +I L+K ++LE L NN +SDIT
Sbjct: 184 K-VSDI-SVLAKLTNLESLIATNNQISDIT 211
>pdb|3U7Y|G Chain G, Structure Of Nih45-46 Fab In Complex With Gp120 Of 93th057
Hiv
Length = 361
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 22/82 (26%), Positives = 32/82 (39%), Gaps = 6/82 (7%)
Query: 222 RNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEF 281
NFN+ ++ I Q L C L G S+ PK + PIP+ +
Sbjct: 48 ENFNMWKNNMVEQMQEDVISLWDQCLQPCVKLTG-----GSVIKQACPKISFD-PIPIHY 101
Query: 282 CQLYSLHILDISDNNISGSLPS 303
C IL +D N +G+ P
Sbjct: 102 CTPAGYVILKCNDKNFNGTGPC 123
>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 597
Score = 29.6 bits (65), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 59/225 (26%), Positives = 89/225 (39%), Gaps = 48/225 (21%)
Query: 96 FPNWLLENNAKLETLFLINDSIGGPFRLPIHPHRRLRFLDVSNNN--------FQGHIPV 147
P + +N L L L + + R H +L L +SNNN FQ +
Sbjct: 114 LPPHVFQNVPLLTVLVLERNDLSSLPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSL 173
Query: 148 E------------IGDILPSLFSFNISTNALHG-SIPSSFGNMNFLRILDLSSNQLTGEI 194
+ ++PSLF N+S N L +IP + LD S N +
Sbjct: 174 QNLQLSSNRLTHVDLSLIPSLFHANVSYNLLSTLAIPIAVEE------LDASHNSIN--- 224
Query: 195 PERLAVGCVNLEF--LALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSS 252
+ G VN+E L L +NNL + N+ L ++ L N + K
Sbjct: 225 ---VVRGPVNVELTILKLQHNNLTDTAWLLNY--PGLVEVDLSYNELEKIMYHPFVKMQR 279
Query: 253 LEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNI 297
LE LY++NN L + N PIP +L +LD+S N++
Sbjct: 280 LERLYISNNRLVAL----NLYGQPIP-------TLKVLDLSHNHL 313
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 51/215 (23%), Positives = 84/215 (39%), Gaps = 45/215 (20%)
Query: 96 FPNWLLENNAKLETLFLINDSIGGPFRLPIHPHRRLRFLDVSNNNFQGHIPVEIGDILPS 155
P + N KL TL + N+++ L+ L +S+N H+ + + +PS
Sbjct: 138 LPRGIFHNTPKLTTLSMSNNNLERIEDDTFQATTSLQNLQLSSNRL-THVDLSL---IPS 193
Query: 156 LFSFNISTN---------------ALHGSIPSSFGNMNF-LRILDLSSNQLTGEIPERLA 199
LF N+S N A H SI G +N L IL L N LT
Sbjct: 194 LFHANVSYNLLSTLAIPIAVEELDASHNSINVVRGPVNVELTILKLQHNNLTDTAWLLNY 253
Query: 200 VGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIG------------------ 241
G V ++ LS N L+ M+ + L +L + +NR +
Sbjct: 254 PGLVEVD---LSYNELEKIMYHPFVKMQRLERLYISNNRLVALNLYGQPIPTLKVLDLSH 310
Query: 242 ----EIPQSLSKCSSLEGLYLNNNSLSDITMPKNH 272
+ ++ + LE LYL++NS+ + + +H
Sbjct: 311 NHLLHVERNQPQFDRLENLYLDHNSIVTLKLSTHH 345
>pdb|3RFS|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
pdb|3RFS|B Chain B, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 272
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 36/117 (30%), Positives = 52/117 (44%), Gaps = 8/117 (6%)
Query: 131 LRFLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQL 190
L+ L + N Q +P + D L +L N++ N L F + L LDLS NQL
Sbjct: 111 LKELVLVENQLQS-LPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQL 169
Query: 191 TGEIPERLAVGCVNLEFLALSNNNLKG---HMFCRNFNLANLRQLQLEDNRFIGEIP 244
+PE + L+ L L N LK +F R L +L+ + L DN + P
Sbjct: 170 QS-LPEGVFDKLTQLKDLRLYQNQLKSVPDGVFDR---LTSLQYIWLHDNPWDCTCP 222
Score = 28.5 bits (62), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 36/129 (27%), Positives = 57/129 (44%), Gaps = 11/129 (8%)
Query: 174 FGNMNFLRILDLSSNQLTGEIPERLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQ 233
F + L+ L L NQL +P+ + NL +L L++N L+ L NL +L
Sbjct: 105 FDKLTNLKELVLVENQLQS-LPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELD 163
Query: 234 LEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDIS 293
L N+ QSL EG++ L D+ + +N L+ F +L SL + +
Sbjct: 164 LSYNQL-----QSLP-----EGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLH 213
Query: 294 DNNISGSLP 302
DN + P
Sbjct: 214 DNPWDCTCP 222
>pdb|3JWO|A Chain A, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
Length = 357
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 37/93 (39%), Gaps = 7/93 (7%)
Query: 222 RNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEF 281
NFN+ ++ I QSL C L G S+ PK E PIP+ +
Sbjct: 58 ENFNMWKNDMVEQMHEDIISLWDQSLKPCVKLTG-----GSVITQACPKVSFE-PIPIHY 111
Query: 282 CQLYSLHILDISDNNISGSLPSCFHPLYIKKVH 314
C IL ++ +G+ P C + ++ H
Sbjct: 112 CAPAGFAILKCNNKTFNGTGP-CTNVSTVQCTH 143
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 29.3 bits (64), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 71/269 (26%), Positives = 114/269 (42%), Gaps = 33/269 (12%)
Query: 1 HLTSIEELYLSNNHFQIPISLEPLFNHSRLKRLWAYNNEIKAEITESHSLTAPNFXXXXX 60
+LT++ L L NN ++PL N + L RL +N I ++I+ LT+
Sbjct: 109 NLTNLTGLTLFNNQIT---DIDPLKNLTNLNRLELSSNTI-SDISALSGLTS-------- 156
Query: 61 XXXXGYGDGVTFPKFLYHQHDLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGP 120
+G+ VT K L + LE + +S K++ +L LE+L N+ I
Sbjct: 157 LQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDIS---VLAKLTNLESLIATNNQISD- 212
Query: 121 FRLPIHPHRRLRFLDVSNNNFQGHIPVEIGDI--LPSLFSFNISTNALHGSIPSSFGNMN 178
I P L LD + G+ +IG + L +L +++ N + P +
Sbjct: 213 ----ITPLGILTNLDELS--LNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLT 264
Query: 179 FLRILDLSSNQLTGEIPERLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNR 238
L L L +NQ++ P G L L L+ N L+ NL NL L L N
Sbjct: 265 KLTELKLGANQISNISP---LAGLTALTNLELNENQLED--ISPISNLKNLTYLTLYFNN 319
Query: 239 FIGEIPQSLSKCSSLEGLYLNNNSLSDIT 267
P +S + L+ L+ NN +SD++
Sbjct: 320 ISDISP--VSSLTKLQRLFFANNKVSDVS 346
>pdb|2NXZ|A Chain A, Hiv-1 Gp120 Envelope Glycoprotein (t257s, S334a, S375w)
Complexed With Cd4 And Antibody 17b
Length = 317
Score = 29.3 bits (64), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 39/97 (40%), Gaps = 6/97 (6%)
Query: 222 RNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLN----NNSLSDITMPKNHLEGPI 277
NFN+ ++ I QSL C L L + N S+ PK E PI
Sbjct: 9 ENFNMWKNDMVEQMHEDIISLWDQSLKPCVKLTPLCVGAGSCNTSVITQACPKVSFE-PI 67
Query: 278 PVEFCQLYSLHILDISDNNISGSLPSCFHPLYIKKVH 314
P+ +C IL ++ +G+ P C + ++ H
Sbjct: 68 PIHYCAPAGFAILKCNNKTFNGTGP-CTNVSTVQCTH 103
>pdb|2NXY|A Chain A, Hiv-1 Gp120 Envelope Glycoprotein(S334a) Complexed With
Cd4 And Antibody 17b
Length = 317
Score = 29.3 bits (64), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 39/97 (40%), Gaps = 6/97 (6%)
Query: 222 RNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLN----NNSLSDITMPKNHLEGPI 277
NFN+ ++ I QSL C L L + N S+ PK E PI
Sbjct: 9 ENFNMWKNDMVEQMHEDIISLWDQSLKPCVKLTPLCVGAGSCNTSVITQACPKVSFE-PI 67
Query: 278 PVEFCQLYSLHILDISDNNISGSLPSCFHPLYIKKVH 314
P+ +C IL ++ +G+ P C + ++ H
Sbjct: 68 PIHYCAPAGFAILKCNNKTFNGTGP-CTNVSTVQCTH 103
>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 = 3.3, Method: Compositional matrix adjust.
Identities = 22/62 (35%), Positives = 30/62 (48%)
Query: 205 LEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLS 264
LE L LS N+++ LANL L+L DNR + S L+ L+L NN +
Sbjct: 90 LEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYLSKLKELWLRNNPIE 149
Query: 265 DI 266
I
Sbjct: 150 SI 151
>pdb|3JWD|A Chain A, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
pdb|3JWD|B Chain B, Structure Of Hiv-1 Gp120 With Gp41-Interactive Region:
Layered Architecture And Basis Of Conformational
Mobility
Length = 379
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 24/93 (25%), Positives = 37/93 (39%), Gaps = 7/93 (7%)
Query: 222 RNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEF 281
NFN+ ++ I QSL C L G S+ PK E PIP+ +
Sbjct: 61 ENFNMWKNDMVEQMHEDIISLWDQSLKPCVKLTG-----GSVITQACPKVSFE-PIPIHY 114
Query: 282 CQLYSLHILDISDNNISGSLPSCFHPLYIKKVH 314
C IL ++ +G+ P C + ++ H
Sbjct: 115 CAPAGFAILKCNNKTFNGTGP-CTNVSTVQCTH 146
>pdb|2NY0|A Chain A, Hiv-1 Gp120 Envelope Glycoprotein (M95w, W96c, T257s,
V275c, S334a, S375w, A433m) Complexed With Cd4 And
Antibody 17b
Length = 317
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 38/97 (39%), Gaps = 6/97 (6%)
Query: 222 RNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLN----NNSLSDITMPKNHLEGPI 277
NFN ++ I QSL C L L + N S+ PK E PI
Sbjct: 9 ENFNWCKNDMVEQMHEDIISLWDQSLKPCVKLTPLCVGAGSCNTSVITQACPKVSFE-PI 67
Query: 278 PVEFCQLYSLHILDISDNNISGSLPSCFHPLYIKKVH 314
P+ +C IL ++ +G+ P C + ++ H
Sbjct: 68 PIHYCAPAGFAILKCNNKTFNGTGP-CTNVSTVQCTH 103
>pdb|1GC1|G Chain G, Hiv-1 Gp120 Core Complexed With Cd4 And A Neutralizing
Human Antibody
Length = 321
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 39/97 (40%), Gaps = 6/97 (6%)
Query: 222 RNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLN----NNSLSDITMPKNHLEGPI 277
NFN+ ++ I QSL C L L + N S+ PK E PI
Sbjct: 13 ENFNMWKNDMVEQMHEDIISLWDQSLKPCVKLTPLCVGAGSCNTSVITQACPKVSFE-PI 71
Query: 278 PVEFCQLYSLHILDISDNNISGSLPSCFHPLYIKKVH 314
P+ +C IL ++ +G+ P C + ++ H
Sbjct: 72 PIHYCAPAGFAILKCNNKTFNGTGP-CTNVSTVQCTH 107
>pdb|1G9M|G Chain G, Hiv-1 Hxbc2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
pdb|1RZJ|G Chain G, Hiv-1 Hxbc2 Gp120 Envelope Glycoprotein Complexed With Cd4
And Induced Neutralizing Antibody 17b
Length = 321
Score = 29.3 bits (64), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 25/97 (25%), Positives = 39/97 (40%), Gaps = 6/97 (6%)
Query: 222 RNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLN----NNSLSDITMPKNHLEGPI 277
NFN+ ++ I QSL C L L + N S+ PK E PI
Sbjct: 13 ENFNMWKNDMVEQMHEDIISLWDQSLKPCVKLTPLCVGAGSCNTSVITQACPKVSFE-PI 71
Query: 278 PVEFCQLYSLHILDISDNNISGSLPSCFHPLYIKKVH 314
P+ +C IL ++ +G+ P C + ++ H
Sbjct: 72 PIHYCAPAGFAILKCNNKTFNGTGP-CTNVSTVQCTH 107
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 61/139 (43%), Gaps = 15/139 (10%)
Query: 79 QHDLEDVHLSHIKMNGKFP--NWLLENNAKLETLFLINDSIGGPFRLPIHPHRRLRFLDV 136
Q +L+ L+ ++++G P L ++ +L++L L+ ++ L LDV
Sbjct: 59 QLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPA-----------LTVLDV 107
Query: 137 SNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPE 196
S N +P+ L L + N L P L L L++NQLT E+P
Sbjct: 108 SFNRLTS-LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLT-ELPA 165
Query: 197 RLAVGCVNLEFLALSNNNL 215
L G NL+ L L N+L
Sbjct: 166 GLLNGLENLDTLLLQENSL 184
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 53/209 (25%), Positives = 86/209 (41%), Gaps = 34/209 (16%)
Query: 81 DLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGPFRLPIHPHRRLRFLDVSNNN 140
DL++ ++ IK +G F N L+N L TL LIN+ I P +L L +S N
Sbjct: 58 DLQNNKITEIK-DGDFKN--LKN---LHTLILINNKISKISPGAFAPLVKLERLYLSKNQ 111
Query: 141 FQGHIPVEIGDILP-SLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPERLA 199
+ E+ + +P +L + N + S F +N + +++L +N L E A
Sbjct: 112 LK-----ELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGA 166
Query: 200 V-GCVNLEFLALSNNN----------------LKGHMFCRN-----FNLANLRQLQLEDN 237
G L ++ +++ N L G+ + L NL +L L N
Sbjct: 167 FQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFN 226
Query: 238 RFIGEIPQSLSKCSSLEGLYLNNNSLSDI 266
SL+ L L+LNNN L +
Sbjct: 227 SISAVDNGSLANTPHLRELHLNNNKLVKV 255
>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 = 28.9 bits (63), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 71/269 (26%), Positives = 114/269 (42%), Gaps = 33/269 (12%)
Query: 1 HLTSIEELYLSNNHFQIPISLEPLFNHSRLKRLWAYNNEIKAEITESHSLTAPNFXXXXX 60
+LT++ L L NN ++PL N + L RL +N I ++I+ LT+
Sbjct: 110 NLTNLTGLTLFNNQIT---DIDPLKNLTNLNRLELSSNTI-SDISALSGLTS-------- 157
Query: 61 XXXXGYGDGVTFPKFLYHQHDLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGP 120
+G+ VT K L + LE + +S K++ +L LE+L N+ I
Sbjct: 158 LQQLSFGNQVTDLKPLANLTTLERLDISSNKVSDIS---VLAKLTNLESLIATNNQISD- 213
Query: 121 FRLPIHPHRRLRFLDVSNNNFQGHIPVEIGDI--LPSLFSFNISTNALHGSIPSSFGNMN 178
I P L LD + G+ +IG + L +L +++ N + P +
Sbjct: 214 ----ITPLGILTNLDELS--LNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLT 265
Query: 179 FLRILDLSSNQLTGEIPERLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNR 238
L L L +NQ++ P G L L L+ N L+ NL NL L L N
Sbjct: 266 KLTELKLGANQISNISP---LAGLTALTNLELNENQLED--ISPISNLKNLTYLTLYFNN 320
Query: 239 FIGEIPQSLSKCSSLEGLYLNNNSLSDIT 267
P +S + L+ L+ NN +SD++
Sbjct: 321 ISDISP--VSSLTKLQRLFFYNNKVSDVS 347
>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 = 3.6, Method: Compositional matrix adjust.
Identities = 45/162 (27%), Positives = 66/162 (40%), Gaps = 34/162 (20%)
Query: 161 ISTNALHGSIPSSFGNMNFLRILDLSSN-QLT-----------------------GEIPE 196
+ +NAL G ++F + L LDLS N QL E+
Sbjct: 62 LHSNALAGIDAAAFTGLTLLEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGP 121
Query: 197 RLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEGL 256
L G L++L L +NNL+ +L NL L L NR I +P+ + GL
Sbjct: 122 GLFRGLAALQYLYLQDNNLQALPDNTFRDLGNLTHLFLHGNR-IPSVPE-----HAFRGL 175
Query: 257 YLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHILDISDNNIS 298
+ SL + + +NH+ P F L L L + NN+S
Sbjct: 176 H----SLDRLLLHQNHVARVHPHAFRDLGRLMTLYLFANNLS 213
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 61/139 (43%), Gaps = 15/139 (10%)
Query: 79 QHDLEDVHLSHIKMNGKFP--NWLLENNAKLETLFLINDSIGGPFRLPIHPHRRLRFLDV 136
Q +L+ L+ ++++G P L ++ +L++L L+ ++ L LDV
Sbjct: 59 QLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPA-----------LTVLDV 107
Query: 137 SNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPE 196
S N +P+ L L + N L P L L L++NQLT E+P
Sbjct: 108 SFNRLTS-LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLT-ELPA 165
Query: 197 RLAVGCVNLEFLALSNNNL 215
L G NL+ L L N+L
Sbjct: 166 GLLNGLENLDTLLLQENSL 184
>pdb|1XCD|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 1
pdb|1XEC|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
pdb|1XEC|B Chain B, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
Length = 329
Score = 28.9 bits (63), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 53/209 (25%), Positives = 86/209 (41%), Gaps = 34/209 (16%)
Query: 81 DLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGPFRLPIHPHRRLRFLDVSNNN 140
DL++ ++ IK +G F N L+N L TL LIN+ I P +L L +S N
Sbjct: 58 DLQNNKITEIK-DGDFKN--LKN---LHTLILINNKISKISPGAFAPLVKLERLYLSKNQ 111
Query: 141 FQGHIPVEIGDILP-SLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPERLA 199
+ E+ + +P +L + N + S F +N + +++L +N L E A
Sbjct: 112 LK-----ELPEKMPKTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGA 166
Query: 200 V-GCVNLEFLALSNNN----------------LKGHMFCRN-----FNLANLRQLQLEDN 237
G L ++ +++ N L G+ + L NL +L L N
Sbjct: 167 FQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFN 226
Query: 238 RFIGEIPQSLSKCSSLEGLYLNNNSLSDI 266
SL+ L L+LNNN L +
Sbjct: 227 SISAVDNGSLANTPHLRELHLNNNKLVKV 255
>pdb|2XOT|A Chain A, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
pdb|2XOT|B Chain B, Crystal Structure Of Neuronal Leucine Rich Repeat Protein
Amigo-1
Length = 361
Score = 28.9 bits (63), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 45/141 (31%), Positives = 67/141 (47%), Gaps = 8/141 (5%)
Query: 133 FLDVSNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTG 192
LD+S+NN L +L S +S N L+ +F + LR LDLSSN L
Sbjct: 43 LLDLSHNNLSRLRAEWTPTRLTNLHSLLLSHNHLNFISSEAFVPVPNLRYLDLSSNHL-H 101
Query: 193 EIPERLAVGCVNLEFLALSNNNLKGHMFCRNF--NLANLRQLQLEDN---RFIGEIPQSL 247
+ E L LE L L NN++ + RN ++A L++L L N RF E+ +
Sbjct: 102 TLDEFLFSDLQALEVLLLYNNHIV--VVDRNAFEDMAQLQKLYLSQNQISRFPVELIKDG 159
Query: 248 SKCSSLEGLYLNNNSLSDITM 268
+K L L L++N L + +
Sbjct: 160 NKLPKLMLLDLSSNKLKKLPL 180
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 61/139 (43%), Gaps = 15/139 (10%)
Query: 79 QHDLEDVHLSHIKMNGKFP--NWLLENNAKLETLFLINDSIGGPFRLPIHPHRRLRFLDV 136
Q +L+ L+ ++++G P L ++ +L++L L+ ++ L LDV
Sbjct: 59 QLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPA-----------LTVLDV 107
Query: 137 SNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPE 196
S N +P+ L L + N L P L L L++NQLT E+P
Sbjct: 108 SFNRLTS-LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLT-ELPA 165
Query: 197 RLAVGCVNLEFLALSNNNL 215
L G NL+ L L N+L
Sbjct: 166 GLLNGLENLDTLLLQENSL 184
>pdb|1M0Z|A Chain A, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
pdb|1M0Z|B Chain B, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
Length = 290
Score = 28.5 bits (62), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 38/139 (27%), Positives = 61/139 (43%), Gaps = 15/139 (10%)
Query: 79 QHDLEDVHLSHIKMNGKFP--NWLLENNAKLETLFLINDSIGGPFRLPIHPHRRLRFLDV 136
Q +L+ L+ ++++G P L ++ +L++L L+ ++ L LDV
Sbjct: 59 QLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPA-----------LTVLDV 107
Query: 137 SNNNFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPE 196
S N +P+ L L + N L P L L L++NQLT E+P
Sbjct: 108 SFNRLTS-LPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLT-ELPA 165
Query: 197 RLAVGCVNLEFLALSNNNL 215
L G NL+ L L N+L
Sbjct: 166 GLLNGLENLDTLLLQENSL 184
>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 = 28.5 bits (62), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 38/133 (28%), Positives = 57/133 (42%), Gaps = 19/133 (14%)
Query: 170 IPSSFGN-MNFLRILDLSSNQLTGEIPERLAVGCV--NLEFLALSNNNLKGHMFCRN--F 224
+P SF + L LDLS N + E + A +L+ L LS N+L+
Sbjct: 325 VPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILL 384
Query: 225 NLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEFCQL 284
L NL L + N F +P S C E + N S + I + V+ C
Sbjct: 385 TLKNLTSLDISRNTF-HPMPDS---CQWPEKMRFLNLSSTGIRV----------VKTCIP 430
Query: 285 YSLHILDISDNNI 297
+L +LD+S+NN+
Sbjct: 431 QTLEVLDVSNNNL 443
Score = 27.7 bits (60), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 42/84 (50%), Gaps = 14/84 (16%)
Query: 227 ANLRQLQLEDNR--FIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEFCQL 284
A ++ L L N+ +IG L C++L+ L L ++ + N +EG F L
Sbjct: 26 AAMKSLDLSFNKITYIGH--GDLRACANLQVLILKSSRI-------NTIEGD---AFYSL 73
Query: 285 YSLHILDISDNNISGSLPSCFHPL 308
SL LD+SDN++S S F PL
Sbjct: 74 GSLEHLDLSDNHLSSLSSSWFGPL 97
>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 = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 43/167 (25%), Positives = 66/167 (39%), Gaps = 10/167 (5%)
Query: 81 DLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGPFRLPIHPH-RRLRFLDVSNN 139
D+ H + + NG F + LE L + +S F I R L FLD+S
Sbjct: 451 DISHTH-TRVAFNGIFNGL-----SSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC 504
Query: 140 NFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPERLA 199
+ P L SL N+S N + +N L++LD S N + + L
Sbjct: 505 QLEQLSPTAFNS-LSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQ 563
Query: 200 VGCVNLEFLALSNNNLKGHMFCRNF--NLANLRQLQLEDNRFIGEIP 244
+L FL L+ N+ ++F + + RQL +E R P
Sbjct: 564 HFPSSLAFLNLTQNDFACTCEHQSFLQWIKDQRQLLVEVERMECATP 610
>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 = 28.5 bits (62), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 38/133 (28%), Positives = 57/133 (42%), Gaps = 19/133 (14%)
Query: 170 IPSSFGN-MNFLRILDLSSNQLTGEIPERLAVGCV--NLEFLALSNNNLKGHMFCRN--F 224
+P SF + L LDLS N + E + A +L+ L LS N+L+
Sbjct: 351 VPCSFSQHLKSLEFLDLSENLMVEEYLKNSACKGAWPSLQTLVLSQNHLRSMQKTGEILL 410
Query: 225 NLANLRQLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEFCQL 284
L NL L + N F +P S C E + N S + I + V+ C
Sbjct: 411 TLKNLTSLDISRNTF-HPMPDS---CQWPEKMRFLNLSSTGIRV----------VKTCIP 456
Query: 285 YSLHILDISDNNI 297
+L +LD+S+NN+
Sbjct: 457 QTLEVLDVSNNNL 469
Score = 27.7 bits (60), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 28/84 (33%), Positives = 42/84 (50%), Gaps = 14/84 (16%)
Query: 227 ANLRQLQLEDNR--FIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEFCQL 284
A ++ L L N+ +IG L C++L+ L L ++ + N +EG F L
Sbjct: 52 AAMKSLDLSFNKITYIGH--GDLRACANLQVLILKSSRI-------NTIEGD---AFYSL 99
Query: 285 YSLHILDISDNNISGSLPSCFHPL 308
SL LD+SDN++S S F PL
Sbjct: 100 GSLEHLDLSDNHLSSLSSSWFGPL 123
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 28.5 bits (62), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 71/269 (26%), Positives = 114/269 (42%), Gaps = 33/269 (12%)
Query: 1 HLTSIEELYLSNNHFQIPISLEPLFNHSRLKRLWAYNNEIKAEITESHSLTAPNFXXXXX 60
+LT++ L L NN ++PL N + L RL +N I ++I+ LT+
Sbjct: 105 NLTNLTGLTLFNNQIT---DIDPLKNLTNLNRLELSSNTI-SDISALSGLTS-------- 152
Query: 61 XXXXGYGDGVTFPKFLYHQHDLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGP 120
+G+ VT K L + LE + +S K++ +L LE+L N+ I
Sbjct: 153 LQQLNFGNQVTDLKPLANLTTLERLDISSNKVSDIS---VLAKLTNLESLIATNNQISD- 208
Query: 121 FRLPIHPHRRLRFLDVSNNNFQGHIPVEIGDI--LPSLFSFNISTNALHGSIPSSFGNMN 178
I P L LD + G+ +IG + L +L +++ N + P +
Sbjct: 209 ----ITPLGILTNLDELS--LNGNQLKDIGTLASLTNLTDLDLANNQISNLAP--LSGLT 260
Query: 179 FLRILDLSSNQLTGEIPERLAVGCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDNR 238
L L L +NQ++ P G L L L+ N L+ NL NL L L N
Sbjct: 261 KLTELKLGANQISNISP---LAGLTALTNLELNENQLED--ISPISNLKNLTYLTLYFNN 315
Query: 239 FIGEIPQSLSKCSSLEGLYLNNNSLSDIT 267
P +S + L+ L+ NN +SD++
Sbjct: 316 ISDISP--VSSLTKLQRLFFYNNKVSDVS 342
>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 = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 43/167 (25%), Positives = 66/167 (39%), Gaps = 10/167 (5%)
Query: 81 DLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGPFRLPIHPH-RRLRFLDVSNN 139
D+ H + + NG F + LE L + +S F I R L FLD+S
Sbjct: 427 DISHTH-TRVAFNGIFNGL-----SSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC 480
Query: 140 NFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPERLA 199
+ P L SL N+S N + +N L++LD S N + + L
Sbjct: 481 QLEQLSPTAFNS-LSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQ 539
Query: 200 VGCVNLEFLALSNNNLKGHMFCRNF--NLANLRQLQLEDNRFIGEIP 244
+L FL L+ N+ ++F + + RQL +E R P
Sbjct: 540 HFPSSLAFLNLTQNDFACTCEHQSFLQWIKDQRQLLVEVERMECATP 586
>pdb|1KOH|A Chain A, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOH|B Chain B, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOH|C Chain C, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOH|D Chain D, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
Length = 277
Score = 28.1 bits (61), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 24/81 (29%), Positives = 40/81 (49%), Gaps = 3/81 (3%)
Query: 153 LPSLFSFNISTNALH--GSIPSSFGNMNFLRILDLSSNQLTGEIPERLAVGCVNLEFLAL 210
+P L S N+S N L+ + S L+IL+LS N+L E E + + LE L L
Sbjct: 169 IPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSER-ELDKIKGLKLEELWL 227
Query: 211 SNNNLKGHMFCRNFNLANLRQ 231
N+L ++ ++ +R+
Sbjct: 228 DGNSLSDTFRDQSTYISAIRE 248
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 28.1 bits (61), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 45/150 (30%), Positives = 69/150 (46%), Gaps = 23/150 (15%)
Query: 125 IHPHRRL-RFLDVSNNNFQGHIPVEIGDILP-----SLFSFNISTNALHGSIPSSFGNMN 178
I P + L + +D+ NN Q I DI P +L + N + P N+
Sbjct: 78 ITPLKNLTKLVDILMNNNQ------IADITPLANLTNLTGLTLFNNQITDIDP--LKNLT 129
Query: 179 FLRILDLSSNQLTGEIPERLAV-GCVNLEFLALSNNNLKGHMFCRNFNLANLRQLQLEDN 237
L L+LSSN I + A+ G +L+ L S+N + N L L +L + N
Sbjct: 130 NLNRLELSSN----TISDISALSGLTSLQQLNFSSNQVTDLKPLAN--LTTLERLDISSN 183
Query: 238 RFIGEIPQSLSKCSSLEGLYLNNNSLSDIT 267
+ + +I L+K ++LE L NN +SDIT
Sbjct: 184 K-VSDI-SVLAKLTNLESLIATNNQISDIT 211
>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 = 28.1 bits (61), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 43/167 (25%), Positives = 66/167 (39%), Gaps = 10/167 (5%)
Query: 81 DLEDVHLSHIKMNGKFPNWLLENNAKLETLFLINDSIGGPFRLPIHPH-RRLRFLDVSNN 139
D+ H + + NG F + LE L + +S F I R L FLD+S
Sbjct: 132 DISHTH-TRVAFNGIFNGL-----SSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC 185
Query: 140 NFQGHIPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPERLA 199
+ P L SL N+S N + +N L++LD S N + + L
Sbjct: 186 QLEQLSPTAFNS-LSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQ 244
Query: 200 VGCVNLEFLALSNNNLKGHMFCRNF--NLANLRQLQLEDNRFIGEIP 244
+L FL L+ N+ ++F + + RQL +E R P
Sbjct: 245 HFPSSLAFLNLTQNDFACTCEHQSFLQWIKDQRQLLVEVERMECATP 291
>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 = 28.1 bits (61), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 31/103 (30%), Positives = 48/103 (46%), Gaps = 7/103 (6%)
Query: 145 IPVEIGDILPSLFSFNISTNALHGSIPSSFGNMNFLRILDLSSNQLTGEIPERLAVGCVN 204
+P + + L SL N+STN L F + L+ L L++NQL +P+ +
Sbjct: 67 LPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKELALNTNQLQ-SLPDGVFDKLTQ 125
Query: 205 LEFLALSNNNLKG---HMFCRNFNLANLRQLQLEDNRFIGEIP 244
L+ L L N LK +F R L +L+ + L DN + P
Sbjct: 126 LKDLRLYQNQLKSVPDGVFDR---LTSLQYIWLHDNPWDCTCP 165
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 44/90 (48%), Gaps = 9/90 (10%)
Query: 105 AKLETLFLINDSIGGPFRLPIHPHRRLRFLD---VSNNNFQGHIPVEIGDILPSLFSFNI 161
+L TL L N+ + LP+ L LD + N + +P + D L L +
Sbjct: 83 TELGTLGLANNQLA---SLPLGVFDHLTQLDKLYLGGNQLK-SLPSGVFDRLTKLKELRL 138
Query: 162 STNALHGSIPS-SFGNMNFLRILDLSSNQL 190
+TN L SIP+ +F + L+ L LS+NQL
Sbjct: 139 NTNQLQ-SIPAGAFDKLTNLQTLSLSTNQL 167
>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 = 28.1 bits (61), Expect = 7.3, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 44/90 (48%), Gaps = 9/90 (10%)
Query: 105 AKLETLFLINDSIGGPFRLPIHPHRRLRFLD---VSNNNFQGHIPVEIGDILPSLFSFNI 161
+L TL L N+ + LP+ L LD + N + +P + D L L +
Sbjct: 83 TELGTLGLANNQLA---SLPLGVFDHLTQLDKLYLGGNQLK-SLPSGVFDRLTKLKELRL 138
Query: 162 STNALHGSIPS-SFGNMNFLRILDLSSNQL 190
+TN L SIP+ +F + L+ L LS+NQL
Sbjct: 139 NTNQLQ-SIPAGAFDKLTNLQTLSLSTNQL 167
>pdb|2FT3|A Chain A, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|B Chain B, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|C Chain C, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|D Chain D, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|E Chain E, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|F Chain F, Crystal Structure Of The Biglycan Dimer Core Protein
Length = 332
Score = 27.7 bits (60), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 48/208 (23%), Positives = 80/208 (38%), Gaps = 52/208 (25%)
Query: 107 LETLFLINDSIGGPFRLPIHPHRRLRFLDVSNNNFQGHIPVEIGDILPS-LFSFNISTNA 165
L L L+N+ I P R+L+ L +S N+ VEI LPS L I N
Sbjct: 80 LYALVLVNNKISKIHEKAFSPLRKLQKLYISKNHL-----VEIPPNLPSSLVELRIHDNR 134
Query: 166 LH--------------------------GSIPSSFG--NMNFLRILDLSSNQLTGEIPER 197
+ G P +F +N+LRI + + ++PE
Sbjct: 135 IRKVPKGVFSGLRNMNCIEMGGNPLENSGFEPGAFDGLKLNYLRISEAKLTGIPKDLPET 194
Query: 198 L--------AVGCVNLEFLALSNNNLK---GHMFCRNFN------LANLRQLQLEDNRFI 240
L + + LE L + + GH R L LR+L L++N+ +
Sbjct: 195 LNELHLDHNKIQAIELEDLLRYSKLYRLGLGHNQIRMIENGSLSFLPTLRELHLDNNK-L 253
Query: 241 GEIPQSLSKCSSLEGLYLNNNSLSDITM 268
+P L L+ +YL+ N+++ + +
Sbjct: 254 SRVPAGLPDLKLLQVVYLHTNNITKVGV 281
>pdb|4ECN|A Chain A, Crystal Structure Of A Leucine-Rich Repeat Protein
(Bt_0210) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.80 A Resolution
Length = 876
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 23/75 (30%), Positives = 34/75 (45%), Gaps = 14/75 (18%)
Query: 231 QLQLEDNRFIGEIPQSLSKCSSLEGLYLNNNSLSDITMPKNHLEGPIPVEFCQLYSLHIL 290
Q E NR + + P ++ C SL L + +N + + E P L+IL
Sbjct: 786 QRDAEGNRILRQWPTGITTCPSLIQLQIGSNDIRKVD------EKLTP-------QLYIL 832
Query: 291 DISDN-NISGSLPSC 304
DI+DN NIS + S
Sbjct: 833 DIADNPNISIDVTSV 847
>pdb|3RW6|A Chain A, Structure Of Nuclear Rna Export Factor Tap Bound To Cte
Rna
pdb|3RW6|B Chain B, Structure Of Nuclear Rna Export Factor Tap Bound To Cte
Rna
pdb|3RW7|A Chain A, Structure Of N-Terminal Domain Of Nuclear Rna Export
Factor Tap
pdb|3RW7|B Chain B, Structure Of N-Terminal Domain Of Nuclear Rna Export
Factor Tap
pdb|3RW7|C Chain C, Structure Of N-Terminal Domain Of Nuclear Rna Export
Factor Tap
pdb|3RW7|D Chain D, Structure Of N-Terminal Domain Of Nuclear Rna Export
Factor Tap
Length = 267
Score = 27.7 bits (60), Expect = 9.2, Method: Compositional matrix adjust.
Identities = 24/69 (34%), Positives = 35/69 (50%), Gaps = 3/69 (4%)
Query: 149 IGDILPSLFSFNISTNALH--GSIPSSFGNMNFLRILDLSSNQLTGEIPERLAVGCVNLE 206
I + +P L S N+S N L+ + S L+IL+LS N+L E E + + LE
Sbjct: 165 IEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSE-RELDKIKGLKLE 223
Query: 207 FLALSNNNL 215
L L N+L
Sbjct: 224 ELWLDGNSL 232
>pdb|1KOO|A Chain A, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|B Chain B, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|C Chain C, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
pdb|1KOO|D Chain D, The Crystal Structure And Mutational Analysis Of A Novel
Rna-Binding Domain Found In The Human Tap Nuclear Mrna
Export Factor
Length = 277
Score = 27.7 bits (60), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 31/109 (28%), Positives = 47/109 (43%), Gaps = 17/109 (15%)
Query: 149 IGDILPSLFSFNISTNALH--GSIPSSFGNMNFLRILDLSSNQLTGEIPERLAVGCVNLE 206
I + +P L S N+S N L+ + S L+IL+LS N+L E E + + LE
Sbjct: 165 IEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSER-ELDKIKGLKLE 223
Query: 207 FLALSNNNLKGHMFCRNFNLANLRQLQLEDNRFIGEIPQSLSKCSSLEG 255
L L N+L C F + + +I I + K L+G
Sbjct: 224 ELWLDGNSL-----CDTFR---------DQSTYISAIRERFPKLLRLDG 258
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.139 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,623,660
Number of Sequences: 62578
Number of extensions: 397462
Number of successful extensions: 1141
Number of sequences better than 100.0: 120
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 104
Number of HSP's that attempted gapping in prelim test: 769
Number of HSP's gapped (non-prelim): 294
length of query: 315
length of database: 14,973,337
effective HSP length: 99
effective length of query: 216
effective length of database: 8,778,115
effective search space: 1896072840
effective search space used: 1896072840
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 51 (24.3 bits)