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= 038552
(659 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3RIZ|A Chain A, Crystal Structure Of The Plant Steroid Receptor Bri1
Ectodomain
pdb|3RJ0|A Chain A, Plant Steroid Receptor Bri1 Ectodomain In Complex With
Brassinolide
Length = 772
Score = 147 bits (371), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 126/409 (30%), Positives = 193/409 (47%), Gaps = 39/409 (9%)
Query: 9 LIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYIIGNSLG 68
L L +S NK+ G + ++ +NL+ L + N + +P F+G+ SAL+ I GN L
Sbjct: 177 LKHLAISGNKISGDV--DVSRCVNLEFLDVSSNNFSTGIP-FLGDCSALQHLDISGNKLS 233
Query: 69 GKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLP 128
G + L LN+ N+F G P + SL+++ L N+F+G +P ++
Sbjct: 234 GDFSRAISTCTELKLLNISSNQFVGPIPP--LPLKSLQYLSLAENKFTGEIPDFLSGACD 291
Query: 129 NLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSID-FSSLKNLSWLNLEQNN 187
L L + GN+F+G++P + S LE L L+SN G++ +D ++ L L+L N
Sbjct: 292 TLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNE 351
Query: 188 LGMGTANDLDFVTFLTNCS-SLKVISLYANQFGGE-LPHSIANLSSTMTDFRIGANQISG 245
+ LTN S SL + L +N F G LP+ N +T+ + + N +G
Sbjct: 352 FSG------ELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTG 405
Query: 246 TIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXXXXXXXXXIPSSLGNLTKL 305
IPP + N L++L + N L GTIP ++G IP L + L
Sbjct: 406 KIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTL 465
Query: 306 VELPLSYNNLQGNIPSSLGNCQILRMFNASRNKLTGALPHQXXXXXXXXXXXXXXXXXXX 365
L L +N+L G IPS L NC L + S N+LTG +P
Sbjct: 466 ETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKW------------------- 506
Query: 366 XXXXXQVGNLKNLVKLDISGNQFSGVIPVTLSACVSLEYLNISRNFFHG 414
+G L+NL L +S N FSG IP L C SL +L+++ N F+G
Sbjct: 507 ------IGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNG 549
Score = 129 bits (325), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 141/514 (27%), Positives = 211/514 (41%), Gaps = 34/514 (6%)
Query: 3 LSRYSNLIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYI 62
L S L L +S NKL G I + L+ L I N G +P L +L+ +
Sbjct: 216 LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLP--LKSLQYLSL 273
Query: 63 IGNSLGGKIPTTL-GLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPL 121
N G+IP L G L L++ N F G P + S LE + L N FSG LP+
Sbjct: 274 AENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPM 333
Query: 122 DIAVNLPNLKALAIGGNNFFGSIPNSLSN-ASNLEILDLTSNQLKGKVSIDF-SSLKNLS 179
D + + LK L + N F G +P SL+N +++L LDL+SN G + + + KN
Sbjct: 334 DTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTL 393
Query: 180 WLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIG 239
QNN G L+NCS L + L N G +P S+ +LS + D ++
Sbjct: 394 QELYLQNNGFTGK-----IPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSK-LRDLKLW 447
Query: 240 ANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXXXXXXXXXIPSSL 299
N + G IP + + L L ++ N L G IP + IP +
Sbjct: 448 LNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWI 507
Query: 300 GNLTKLVELPLSYNNLQGNIPSSLGNCQILRMFNASRNKLTGALP----HQXXXXXXXXX 355
G L L L LS N+ GNIP+ LG+C+ L + + N G +P Q
Sbjct: 508 GRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFI 567
Query: 356 XXXXXXXXXXXXXXXQVGNLKNLVKL-----------------DISGNQFSGVIPVTLSA 398
+ NL++ +I+ + G T
Sbjct: 568 AGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDN 627
Query: 399 CVSLEYLNISRNFFHGXXXXXXXXXXXXXEFNVSSNNLSGLIPEFLKNLSFMEFLDLSYN 458
S+ +L++S N G N+ N++SG IP+ + +L + LDLS N
Sbjct: 628 NGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSN 687
Query: 459 HFEGEVPKK-GVFSNKTKISLQGNVKLCGGIDEL 491
+G +P+ + T+I L N L G I E+
Sbjct: 688 KLDGRIPQAMSALTMLTEIDLSNN-NLSGPIPEM 720
Score = 128 bits (321), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 143/522 (27%), Positives = 215/522 (41%), Gaps = 44/522 (8%)
Query: 3 LSRYSNLIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFV-GNLSALKVFY 61
+S + L L +S N+ G IP L +LQ L++ N TG++PDF+ G L
Sbjct: 240 ISTCTELKLLNISSNQFVGPIPPL--PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLD 297
Query: 62 IIGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMFP-RSICNISSLEWIYLPFNRFSGSLP 120
+ GN G +P G L L + N FSG P ++ + L+ + L FN FSG LP
Sbjct: 298 LSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELP 357
Query: 121 LDIAVNLPNLKALAIGGNNFFGSI-PNSLSNASN-LEILDLTSNQLKGKVSIDFSSLKNL 178
+ +L L + NNF G I PN N N L+ L L +N GK+ S+ L
Sbjct: 358 ESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSEL 417
Query: 179 SWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPHS---IANLSSTMTD 235
L+L N L GT + L + S L+ + L+ N GE+P + L + + D
Sbjct: 418 VSLHLSFNYLS-GT-----IPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILD 471
Query: 236 FRIGANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXXXXXXXXXI 295
F N ++G IP G+ N NL +++ N+L G IP IG I
Sbjct: 472 F----NDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNI 527
Query: 296 PSSLGNLTKLVELPLSYNNLQGNIPSSL-------------GNCQILRMFNASRNKLTGA 342
P+ LG+ L+ L L+ N G IP+++ G + + + + GA
Sbjct: 528 PAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGA 587
Query: 343 --------LPHQXXXXXXXXXXXXXXXXXXXXXXXXQVGNLKNLVKLDISGNQFSGVIPV 394
+ + N +++ LD+S N SG IP
Sbjct: 588 GNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPK 647
Query: 395 TLSACVSLEYLNISRNFFHGXXXXXXXXXXXXXEFNVSSNNLSGLIPEFLKNLSFMEFLD 454
+ + L LN+ N G ++SSN L G IP+ + L+ + +D
Sbjct: 648 EIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEID 707
Query: 455 LSYNHFEGEVPKKGVFSNKTKISLQGNVKLCGGIDELHLPSC 496
LS N+ G +P+ G F N LCG LP C
Sbjct: 708 LSNNNLSGPIPEMGQFETFPPAKFLNNPGLCG----YPLPRC 745
Score = 93.2 bits (230), Expect = 4e-19, Method: Compositional matrix adjust.
Identities = 121/447 (27%), Positives = 183/447 (40%), Gaps = 53/447 (11%)
Query: 33 LQTLAIDFNYLTGQLPDF--VGNLSALKVFYIIGNSLG--GKIPTTLGLLRNLVDLNVGE 88
L +L + N L+G + +G+ S LK + N+L GK+ L L +L L++
Sbjct: 99 LTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKL-NSLEVLDLSA 157
Query: 89 NRFSGMFPRSIC---NISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIP 145
N SG L+ + + N+ SG + + VNL + L + NNF IP
Sbjct: 158 NSISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVNL---EFLDVSSNNFSTGIP 214
Query: 146 NSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFLTNC 205
L + S L+ LD++ N+L G S S+ L LN+ N +G L
Sbjct: 215 -FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQF-VGPIPPLPL------- 265
Query: 206 SSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIPPGIRNLVNLIALTMEIN 265
SL+ +SL N+F GE+P ++ T+T + N G +PP + L +L + N
Sbjct: 266 KSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSN 325
Query: 266 KLHGTIP-DTIGEXXXXXXXXXXXXXXXXXIPSSLGNLT-KLVELPLSYNNLQGNIPSSL 323
G +P DT+ + +P SL NL+ L+ L LS NN G I +L
Sbjct: 326 NFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNL 385
Query: 324 GNCQ----ILRMFNASRNKLTGALPHQXXXXXXXXXXXXXXXXXXXXXXXXQVGNLKNLV 379
CQ L+ N TG +P + N LV
Sbjct: 386 --CQNPKNTLQELYLQNNGFTGKIP-------------------------PTLSNCSELV 418
Query: 380 KLDISGNQFSGVIPVTLSACVSLEYLNISRNFFHGXXXXXXXXXXXXXEFNVSSNNLSGL 439
L +S N SG IP +L + L L + N G + N+L+G
Sbjct: 419 SLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGE 478
Query: 440 IPEFLKNLSFMEFLDLSYNHFEGEVPK 466
IP L N + + ++ LS N GE+PK
Sbjct: 479 IPSGLSNCTNLNWISLSNNRLTGEIPK 505
Score = 70.5 bits (171), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 66/247 (26%), Positives = 113/247 (45%), Gaps = 47/247 (19%)
Query: 1 ANLSRYSNLIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVF 60
+ LS +NL + +S N+L G+IP+ IG L NL L + N +G +P +G+ +L
Sbjct: 481 SGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWL 540
Query: 61 YIIGNSLGGKIPTTL-----------------------GLLR------NLVDLN-VGENR 90
+ N G IP + G+ + NL++ + +
Sbjct: 541 DLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQ 600
Query: 91 FSGMFPRSICNISS----------------LEWIYLPFNRFSGSLPLDIAVNLPNLKALA 134
+ + R+ CNI+S + ++ + +N SG +P +I ++P L L
Sbjct: 601 LNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIG-SMPYLFILN 659
Query: 135 IGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTAN 194
+G N+ GSIP+ + + L ILDL+SN+L G++ S+L L+ ++L NNL
Sbjct: 660 LGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE 719
Query: 195 DLDFVTF 201
F TF
Sbjct: 720 MGQFETF 726
>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 = 147 bits (371), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 126/409 (30%), Positives = 193/409 (47%), Gaps = 39/409 (9%)
Query: 9 LIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYIIGNSLG 68
L L +S NK+ G + ++ +NL+ L + N + +P F+G+ SAL+ I GN L
Sbjct: 180 LKHLAISGNKISGDV--DVSRCVNLEFLDVSSNNFSTGIP-FLGDCSALQHLDISGNKLS 236
Query: 69 GKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLP 128
G + L LN+ N+F G P + SL+++ L N+F+G +P ++
Sbjct: 237 GDFSRAISTCTELKLLNISSNQFVGPIPP--LPLKSLQYLSLAENKFTGEIPDFLSGACD 294
Query: 129 NLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSID-FSSLKNLSWLNLEQNN 187
L L + GN+F+G++P + S LE L L+SN G++ +D ++ L L+L N
Sbjct: 295 TLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNE 354
Query: 188 LGMGTANDLDFVTFLTNCS-SLKVISLYANQFGGE-LPHSIANLSSTMTDFRIGANQISG 245
+ LTN S SL + L +N F G LP+ N +T+ + + N +G
Sbjct: 355 FSG------ELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTG 408
Query: 246 TIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXXXXXXXXXIPSSLGNLTKL 305
IPP + N L++L + N L GTIP ++G IP L + L
Sbjct: 409 KIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTL 468
Query: 306 VELPLSYNNLQGNIPSSLGNCQILRMFNASRNKLTGALPHQXXXXXXXXXXXXXXXXXXX 365
L L +N+L G IPS L NC L + S N+LTG +P
Sbjct: 469 ETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKW------------------- 509
Query: 366 XXXXXQVGNLKNLVKLDISGNQFSGVIPVTLSACVSLEYLNISRNFFHG 414
+G L+NL L +S N FSG IP L C SL +L+++ N F+G
Sbjct: 510 ------IGRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNG 552
Score = 129 bits (325), Expect = 4e-30, Method: Compositional matrix adjust.
Identities = 141/514 (27%), Positives = 211/514 (41%), Gaps = 34/514 (6%)
Query: 3 LSRYSNLIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYI 62
L S L L +S NKL G I + L+ L I N G +P L +L+ +
Sbjct: 219 LGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPIPPLP--LKSLQYLSL 276
Query: 63 IGNSLGGKIPTTL-GLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPL 121
N G+IP L G L L++ N F G P + S LE + L N FSG LP+
Sbjct: 277 AENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPM 336
Query: 122 DIAVNLPNLKALAIGGNNFFGSIPNSLSN-ASNLEILDLTSNQLKGKVSIDF-SSLKNLS 179
D + + LK L + N F G +P SL+N +++L LDL+SN G + + + KN
Sbjct: 337 DTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTL 396
Query: 180 WLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIG 239
QNN G L+NCS L + L N G +P S+ +LS + D ++
Sbjct: 397 QELYLQNNGFTGK-----IPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSK-LRDLKLW 450
Query: 240 ANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXXXXXXXXXIPSSL 299
N + G IP + + L L ++ N L G IP + IP +
Sbjct: 451 LNMLEGEIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWI 510
Query: 300 GNLTKLVELPLSYNNLQGNIPSSLGNCQILRMFNASRNKLTGALP----HQXXXXXXXXX 355
G L L L LS N+ GNIP+ LG+C+ L + + N G +P Q
Sbjct: 511 GRLENLAILKLSNNSFSGNIPAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFI 570
Query: 356 XXXXXXXXXXXXXXXQVGNLKNLVKL-----------------DISGNQFSGVIPVTLSA 398
+ NL++ +I+ + G T
Sbjct: 571 AGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDN 630
Query: 399 CVSLEYLNISRNFFHGXXXXXXXXXXXXXEFNVSSNNLSGLIPEFLKNLSFMEFLDLSYN 458
S+ +L++S N G N+ N++SG IP+ + +L + LDLS N
Sbjct: 631 NGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSN 690
Query: 459 HFEGEVPKK-GVFSNKTKISLQGNVKLCGGIDEL 491
+G +P+ + T+I L N L G I E+
Sbjct: 691 KLDGRIPQAMSALTMLTEIDLSNN-NLSGPIPEM 723
Score = 128 bits (321), Expect = 1e-29, Method: Compositional matrix adjust.
Identities = 143/522 (27%), Positives = 215/522 (41%), Gaps = 44/522 (8%)
Query: 3 LSRYSNLIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFV-GNLSALKVFY 61
+S + L L +S N+ G IP L +LQ L++ N TG++PDF+ G L
Sbjct: 243 ISTCTELKLLNISSNQFVGPIPPL--PLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLD 300
Query: 62 IIGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMFP-RSICNISSLEWIYLPFNRFSGSLP 120
+ GN G +P G L L + N FSG P ++ + L+ + L FN FSG LP
Sbjct: 301 LSGNHFYGAVPPFFGSCSLLESLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELP 360
Query: 121 LDIAVNLPNLKALAIGGNNFFGSI-PNSLSNASN-LEILDLTSNQLKGKVSIDFSSLKNL 178
+ +L L + NNF G I PN N N L+ L L +N GK+ S+ L
Sbjct: 361 ESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSEL 420
Query: 179 SWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPHS---IANLSSTMTD 235
L+L N L GT + L + S L+ + L+ N GE+P + L + + D
Sbjct: 421 VSLHLSFNYLS-GT-----IPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILD 474
Query: 236 FRIGANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXXXXXXXXXI 295
F N ++G IP G+ N NL +++ N+L G IP IG I
Sbjct: 475 F----NDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNI 530
Query: 296 PSSLGNLTKLVELPLSYNNLQGNIPSSL-------------GNCQILRMFNASRNKLTGA 342
P+ LG+ L+ L L+ N G IP+++ G + + + + GA
Sbjct: 531 PAELGDCRSLIWLDLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGA 590
Query: 343 --------LPHQXXXXXXXXXXXXXXXXXXXXXXXXQVGNLKNLVKLDISGNQFSGVIPV 394
+ + N +++ LD+S N SG IP
Sbjct: 591 GNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPK 650
Query: 395 TLSACVSLEYLNISRNFFHGXXXXXXXXXXXXXEFNVSSNNLSGLIPEFLKNLSFMEFLD 454
+ + L LN+ N G ++SSN L G IP+ + L+ + +D
Sbjct: 651 EIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEID 710
Query: 455 LSYNHFEGEVPKKGVFSNKTKISLQGNVKLCGGIDELHLPSC 496
LS N+ G +P+ G F N LCG LP C
Sbjct: 711 LSNNNLSGPIPEMGQFETFPPAKFLNNPGLCG----YPLPRC 748
Score = 92.8 bits (229), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 121/447 (27%), Positives = 183/447 (40%), Gaps = 53/447 (11%)
Query: 33 LQTLAIDFNYLTGQLPDF--VGNLSALKVFYIIGNSLG--GKIPTTLGLLRNLVDLNVGE 88
L +L + N L+G + +G+ S LK + N+L GK+ L L +L L++
Sbjct: 102 LTSLDLSRNSLSGPVTTLTSLGSCSGLKFLNVSSNTLDFPGKVSGGLKL-NSLEVLDLSA 160
Query: 89 NRFSGMFPRSIC---NISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIP 145
N SG L+ + + N+ SG + + VNL + L + NNF IP
Sbjct: 161 NSISGANVVGWVLSDGCGELKHLAISGNKISGDVDVSRCVNL---EFLDVSSNNFSTGIP 217
Query: 146 NSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFLTNC 205
L + S L+ LD++ N+L G S S+ L LN+ N +G L
Sbjct: 218 -FLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQF-VGPIPPLPL------- 268
Query: 206 SSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIPPGIRNLVNLIALTMEIN 265
SL+ +SL N+F GE+P ++ T+T + N G +PP + L +L + N
Sbjct: 269 KSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLESLALSSN 328
Query: 266 KLHGTIP-DTIGEXXXXXXXXXXXXXXXXXIPSSLGNLT-KLVELPLSYNNLQGNIPSSL 323
G +P DT+ + +P SL NL+ L+ L LS NN G I +L
Sbjct: 329 NFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNL 388
Query: 324 GNCQ----ILRMFNASRNKLTGALPHQXXXXXXXXXXXXXXXXXXXXXXXXQVGNLKNLV 379
CQ L+ N TG +P + N LV
Sbjct: 389 --CQNPKNTLQELYLQNNGFTGKIP-------------------------PTLSNCSELV 421
Query: 380 KLDISGNQFSGVIPVTLSACVSLEYLNISRNFFHGXXXXXXXXXXXXXEFNVSSNNLSGL 439
L +S N SG IP +L + L L + N G + N+L+G
Sbjct: 422 SLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQELMYVKTLETLILDFNDLTGE 481
Query: 440 IPEFLKNLSFMEFLDLSYNHFEGEVPK 466
IP L N + + ++ LS N GE+PK
Sbjct: 482 IPSGLSNCTNLNWISLSNNRLTGEIPK 508
Score = 70.1 bits (170), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 66/247 (26%), Positives = 113/247 (45%), Gaps = 47/247 (19%)
Query: 1 ANLSRYSNLIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVF 60
+ LS +NL + +S N+L G+IP+ IG L NL L + N +G +P +G+ +L
Sbjct: 484 SGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNIPAELGDCRSLIWL 543
Query: 61 YIIGNSLGGKIPTTL-----------------------GLLR------NLVDLN-VGENR 90
+ N G IP + G+ + NL++ + +
Sbjct: 544 DLNTNLFNGTIPAAMFKQSGKIAANFIAGKRYVYIKNDGMKKECHGAGNLLEFQGIRSEQ 603
Query: 91 FSGMFPRSICNISS----------------LEWIYLPFNRFSGSLPLDIAVNLPNLKALA 134
+ + R+ CNI+S + ++ + +N SG +P +I ++P L L
Sbjct: 604 LNRLSTRNPCNITSRVYGGHTSPTFDNNGSMMFLDMSYNMLSGYIPKEIG-SMPYLFILN 662
Query: 135 IGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTAN 194
+G N+ GSIP+ + + L ILDL+SN+L G++ S+L L+ ++L NNL
Sbjct: 663 LGHNDISGSIPDEVGDLRGLNILDLSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIPE 722
Query: 195 DLDFVTF 201
F TF
Sbjct: 723 MGQFETF 729
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 82.4 bits (202), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 75/251 (29%), Positives = 109/251 (43%), Gaps = 34/251 (13%)
Query: 23 IPEEIGSLLNLQTLAID-FNYLTGQLPDFVGNLSALKVFYIIGNSLGGKIPTTLGLLRNL 81
IP + +L L L I N L G +P + L+ L YI ++ G IP L ++ L
Sbjct: 68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTL 127
Query: 82 VDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFF 141
V L+ N SG P SI ++ +L I NR SG++P ++ I N
Sbjct: 128 VTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLT 187
Query: 142 GSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTF 201
G IP + +N NL +DL+ N L+G S+ F S KN ++L +N+L A DL V
Sbjct: 188 GKIPPTFANL-NLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSL----AFDLGKV-- 240
Query: 202 LTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIPPGIRNLVNLIALT 261
LS + + N+I GT+P G+ L L +L
Sbjct: 241 --------------------------GLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLN 274
Query: 262 MEINKLHGTIP 272
+ N L G IP
Sbjct: 275 VSFNNLCGEIP 285
Score = 76.6 bits (187), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 69/234 (29%), Positives = 98/234 (41%), Gaps = 33/234 (14%)
Query: 17 NKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYIIGNSLGGKIPTTLG 76
N L G IP I L L L I ++G +PDF+ + L N+L G +P ++
Sbjct: 87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSIS 146
Query: 77 LLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIG 136
L NLV + NR SG P S + S L ++ I
Sbjct: 147 SLPNLVGITFDGNRISGAIPDSYGSFSKL------------------------FTSMTIS 182
Query: 137 GNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDL 196
N G IP + +N NL +DL+ N L+G S+ F S KN ++L +N+L A DL
Sbjct: 183 RNRLTGKIPPTFANL-NLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSL----AFDL 237
Query: 197 DFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIPPG 250
V N L + L N+ G LP + L + + N + G IP G
Sbjct: 238 GKVGLSKN---LNGLDLRNNRIYGTLPQGLTQL-KFLHSLNVSFNNLCGEIPQG 287
Score = 72.0 bits (175), Expect = 1e-12, Method: Compositional matrix adjust.
Identities = 78/321 (24%), Positives = 125/321 (38%), Gaps = 37/321 (11%)
Query: 179 SWLNLEQ--NNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDF 236
SWL N +G D D T+ N L ++L +P S+ANL +
Sbjct: 26 SWLPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGLNLPKPY---PIPSSLANLPYLNFLY 82
Query: 237 RIGANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXXXXXXXXXIP 296
G N + G IPP I L L L + + G IPD + + +P
Sbjct: 83 IGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLP 142
Query: 297 SSLGNLTKLVELPLSYNNLQGNIPSSLGN-CQILRMFNASRNKLTGALPHQXXXXXXXXX 355
S+ +L LV + N + G IP S G+ ++ SRN+LTG +P
Sbjct: 143 PSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIP----------- 191
Query: 356 XXXXXXXXXXXXXXXQVGNLKNLVKLDISGNQFSGVIPVTLSACVSLEYLNISRNFFHGX 415
NL NL +D+S N G V + + + +++++N
Sbjct: 192 --------------PTFANL-NLAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSL-AF 235
Query: 416 XXXXXXXXXXXXEFNVSSNNLSGLIPEFLKNLSFMEFLDLSYNHFEGEVPKKGVFSNKTK 475
++ +N + G +P+ L L F+ L++S+N+ GE+P+ G
Sbjct: 236 DLGKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDV 295
Query: 476 ISLQGNVKLCGGIDELHLPSC 496
+ N LCG LP+C
Sbjct: 296 SAYANNKCLCGS----PLPAC 312
Score = 57.8 bits (138), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 72/262 (27%), Positives = 106/262 (40%), Gaps = 38/262 (14%)
Query: 157 LDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDL--DFVTFLTNCSSLKVISLY 214
LDL+ L I SSL NL +LN L +G N+L + + L + +
Sbjct: 55 LDLSGLNLPKPYPIP-SSLANLPYLNF----LYIGGINNLVGPIPPAIAKLTQLHYLYIT 109
Query: 215 ANQFGGELPHSIANLSSTMT-DFRIGANQISGTIPPGIRNLVNLIALTMEINKLHGTIPD 273
G +P ++ + + +T DF N +SGT+PP I +L NL+ +T + N++ G IPD
Sbjct: 110 HTNVSGAIPDFLSQIKTLVTLDFSY--NALSGTLPPSISSLPNLVGITFDGNRISGAIPD 167
Query: 274 TIGEXXXXXXXXXXXXXXXXXIPSSLGNLTKL-VELPLSYNNLQGNIPSSLGNCQILRMF 332
S G+ +KL + +S N L G IP + N L
Sbjct: 168 ------------------------SYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFV 202
Query: 333 NASRNKLTGALPHQXXXXXXXXXXXXXXXXXXXXXXXXQVGNLKNLVKLDISGNQFSGVI 392
+ SRN L G +VG KNL LD+ N+ G +
Sbjct: 203 DLSRNMLEGD--ASVLFGSDKNTQKIHLAKNSLAFDLGKVGLSKNLNGLDLRNNRIYGTL 260
Query: 393 PVTLSACVSLEYLNISRNFFHG 414
P L+ L LN+S N G
Sbjct: 261 PQGLTQLKFLHSLNVSFNNLCG 282
Score = 43.1 bits (100), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 39/145 (26%), Positives = 61/145 (42%), Gaps = 31/145 (21%)
Query: 3 LSRYSNLIELRVSKNKLEGQIPEEIGSLLNLQT-LAIDFNYLTGQLPDFVGNLSALKV-- 59
+S NL+ + N++ G IP+ GS L T + I N LTG++P NL+ V
Sbjct: 145 ISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLNLAFVDL 204
Query: 60 ---------------------FYIIGNSLG---GKIPTTLGLLRNLVDLNVGENRFSGMF 95
++ NSL GK+ GL +NL L++ NR G
Sbjct: 205 SRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKV----GLSKNLNGLDLRNNRIYGTL 260
Query: 96 PRSICNISSLEWIYLPFNRFSGSLP 120
P+ + + L + + FN G +P
Sbjct: 261 PQGLTQLKFLHSLNVSFNNLCGEIP 285
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 32/57 (56%), Gaps = 3/57 (5%)
Query: 3 LSRYSNLIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKV 59
LS+ N ++LR N++ G +P+ + L L +L + FN L G++P GNL V
Sbjct: 242 LSKNLNGLDLR--NNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQ-GGNLQRFDV 295
>pdb|4FMZ|A Chain A, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
pdb|4FMZ|B Chain B, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
Length = 347
Score = 44.7 bits (104), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 52/186 (27%), Positives = 92/186 (49%), Gaps = 13/186 (6%)
Query: 3 LSRYSNLIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYI 62
LS + L L V+++K++ P I +L +L +L++++N + P + +L++L F
Sbjct: 151 LSNXTGLNYLTVTESKVKDVTP--IANLTDLYSLSLNYNQIEDISP--LASLTSLHYFTA 206
Query: 63 IGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLD 122
N + P + L L +G N+ + + P + N+S L W+ + N+ S ++
Sbjct: 207 YVNQITDITP--VANXTRLNSLKIGNNKITDLSP--LANLSQLTWLEIGTNQISD---IN 259
Query: 123 IAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLN 182
+L LK L +G N S + L+N S L L L +NQL + L NL+ L
Sbjct: 260 AVKDLTKLKXLNVGSNQI--SDISVLNNLSQLNSLFLNNNQLGNEDXEVIGGLTNLTTLF 317
Query: 183 LEQNNL 188
L QN++
Sbjct: 318 LSQNHI 323
Score = 38.5 bits (88), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 47/176 (26%), Positives = 82/176 (46%), Gaps = 18/176 (10%)
Query: 73 TTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKA 132
T + L +L L++ N+ + P + +++SL + N+ + P+ N L +
Sbjct: 171 TPIANLTDLYSLSLNYNQIEDISP--LASLTSLHYFTAYVNQITDITPV---ANXTRLNS 225
Query: 133 LAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGT 192
L IG N P L+N S L L++ +NQ+ D +++K+L+ L L +G
Sbjct: 226 LKIGNNKITDLSP--LANLSQLTWLEIGTNQIS-----DINAVKDLTKLKX----LNVG- 273
Query: 193 ANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIP 248
+N + ++ L N S L + L NQ G E I L++ T F + N I+ P
Sbjct: 274 SNQISDISVLNNLSQLNSLFLNNNQLGNEDXEVIGGLTNLTTLF-LSQNHITDIRP 328
Score = 34.3 bits (77), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 72/281 (25%), Positives = 120/281 (42%), Gaps = 28/281 (9%)
Query: 67 LGGKIPTTLGLLRNLVDLN---VGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDI 123
L G T + L NLV L +G N+ + + ++ N+++L +YL + S PL
Sbjct: 73 LNGNQITDISPLSNLVKLTNLYIGTNKITDI--SALQNLTNLRELYLNEDNISDISPL-- 128
Query: 124 AVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNL 183
NL +L +G N+ + + LSN + L L +T +++K I ++L +L L+L
Sbjct: 129 -ANLTKXYSLNLGANHNLSDL-SPLSNXTGLNYLTVTESKVKDVTPI--ANLTDLYSLSL 184
Query: 184 EQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQI 243
N ++ ++ L + +SL + Y NQ P +AN + + +IG N+I
Sbjct: 185 NYN--------QIEDISPLASLTSLHYFTAYVNQITDITP--VANXTR-LNSLKIGNNKI 233
Query: 244 SGTIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXXXXXXXXXIPSSLGNLT 303
+ P + NL L L + N+ I D S L NL+
Sbjct: 234 TDLSP--LANLSQLTWLEIGTNQ----ISDINAVKDLTKLKXLNVGSNQISDISVLNNLS 287
Query: 304 KLVELPLSYNNLQGNIPSSLGNCQILRMFNASRNKLTGALP 344
+L L L+ N L +G L S+N +T P
Sbjct: 288 QLNSLFLNNNQLGNEDXEVIGGLTNLTTLFLSQNHITDIRP 328
Score = 33.5 bits (75), Expect = 0.42, Method: Compositional matrix adjust.
Identities = 53/193 (27%), Positives = 80/193 (41%), Gaps = 42/193 (21%)
Query: 152 SNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVI 211
+NLE L+L NQ+ D S L NL L NL +GT N + ++ L N ++L+
Sbjct: 66 TNLEYLNLNGNQIT-----DISPLSNLVKLT----NLYIGT-NKITDISALQNLTNLR-- 113
Query: 212 SLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIPPGIRNLVNLIALTMEINKLHGTI 271
LY N+ +ANL+ + +GAN + P + N L LT+ +K+
Sbjct: 114 ELYLNEDNISDISPLANLTKXYS-LNLGANHNLSDLSP-LSNXTGLNYLTVTESKVKDVT 171
Query: 272 PDTIGEXXXXXXXXXXXXXXXXXIPSSLGNLTKLVELPLSYNNLQGNIPSSLGNCQILRM 331
P + NLT L L L+YN ++ P L + L
Sbjct: 172 P--------------------------IANLTDLYSLSLNYNQIEDISP--LASLTSLHY 203
Query: 332 FNASRNKLTGALP 344
F A N++T P
Sbjct: 204 FTAYVNQITDITP 216
>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 = 43.9 bits (102), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 48/169 (28%), Positives = 74/169 (43%), Gaps = 31/169 (18%)
Query: 127 LPNLKALAIGGN---------------------NFFGSIPNSLSNA-SNLEILDLTSNQL 164
LPN++ LA+GGN N S+PN + + +NL+ L L NQL
Sbjct: 62 LPNVRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQL 121
Query: 165 KGKVSIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPH 224
+ F L NL++LNL N L D +T LT + L NQ LP
Sbjct: 122 QSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTE------LDLSYNQLQS-LPE 174
Query: 225 SIANLSSTMTDFRIGANQISGTIPPGIRN-LVNLIALTMEINKLHGTIP 272
+ + + + D R+ NQ+ ++P G+ + L +L + + N T P
Sbjct: 175 GVFDKLTQLKDLRLYQNQLK-SVPDGVFDRLTSLQYIWLHDNPWDCTCP 222
Score = 30.0 bits (66), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 46/103 (44%), Gaps = 6/103 (5%)
Query: 218 FGGELPHSIANLS--STMTDFRIGANQISGTIPPGI-RNLVNLIALTMEINKLHGTIPDT 274
GG H I+ L + +T + NQ+ ++P G+ L NL L + N+L ++PD
Sbjct: 70 LGGNKLHDISALKELTNLTYLILTGNQLQ-SLPNGVFDKLTNLKELVLVENQLQ-SLPDG 127
Query: 275 IGEXXXXXXXXXXXXXXXXXIPSSL-GNLTKLVELPLSYNNLQ 316
+ + +P + LT L EL LSYN LQ
Sbjct: 128 VFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQ 170
>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 = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 34/95 (35%), Positives = 47/95 (49%), Gaps = 3/95 (3%)
Query: 1 ANLSRYSNLIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVF 60
AN+ +Y L L ++ N L ++P EI +L NL+ L + N LT LP +G+ LK F
Sbjct: 241 ANIFKYDFLTRLYLNGNSL-TELPAEIKNLSNLRVLDLSHNRLTS-LPAELGSCFQLKYF 298
Query: 61 YIIGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMF 95
Y N + +P G L NL L V N F
Sbjct: 299 YFFDN-MVTTLPWEFGNLCNLQFLGVEGNPLEKQF 332
Score = 29.6 bits (65), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 28/46 (60%), Gaps = 1/46 (2%)
Query: 295 IPSSLGNLTKLVELPLSYNNLQGNIPSSLGNCQILRMFNASRNKLT 340
+P+ + NL+ L L LS+N L ++P+ LG+C L+ F N +T
Sbjct: 262 LPAEIKNLSNLRVLDLSHNRL-TSLPAELGSCFQLKYFYFFDNMVT 306
>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 = 40.4 bits (93), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 52/195 (26%), Positives = 80/195 (41%), Gaps = 40/195 (20%)
Query: 143 SIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFL 202
S+P+ + ++ E LDL S L F L L+WLNL+ N L +A D +T
Sbjct: 28 SVPSGI--PADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLT-- 83
Query: 203 TNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIPPGIRN-LVNLIALT 261
L + L NQ LP + + + + +G NQ+ ++P G+ + L L L
Sbjct: 84 ----ELGTLGLANNQL-ASLPLGVFDHLTQLDKLYLGGNQLK-SLPSGVFDRLTKLKELR 137
Query: 262 MEINKLHGTIPDTIGEXXXXXXXXXXXXXXXXXIPSSLGNLTKLVELPLSYNNLQGNIP- 320
+ N+L +IP + LT L L LS N LQ ++P
Sbjct: 138 LNTNQLQ-SIP-----------------------AGAFDKLTNLQTLSLSTNQLQ-SVPH 172
Query: 321 ---SSLGNCQILRMF 332
LG Q + +F
Sbjct: 173 GAFDRLGKLQTITLF 187
Score = 39.7 bits (91), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 41/142 (28%), Positives = 66/142 (46%), Gaps = 9/142 (6%)
Query: 78 LRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGG 137
L L LN+ N+ + +++ L + L N+ + SLPL + +L L L +GG
Sbjct: 58 LTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLA-SLPLGVFDHLTQLDKLYLGG 116
Query: 138 NNFFGSIPNSL-SNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDL 196
N S+P+ + + L+ L L +NQL+ + F L NL L+L N L
Sbjct: 117 NQ-LKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAF 175
Query: 197 DFVTFLTNCSSLKVISLYANQF 218
D + L+ I+L+ NQF
Sbjct: 176 DRL------GKLQTITLFGNQF 191
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 40.0 bits (92), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 52/195 (26%), Positives = 80/195 (41%), Gaps = 40/195 (20%)
Query: 143 SIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFL 202
S+P+ + ++ E LDL S L F L L+WLNL+ N L +A D +T
Sbjct: 28 SVPSGI--PADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLT-- 83
Query: 203 TNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIPPGIRN-LVNLIALT 261
L + L NQ LP + + + + +G NQ+ ++P G+ + L L L
Sbjct: 84 ----ELGTLGLANNQL-ASLPLGVFDHLTQLDKLYLGGNQLK-SLPSGVFDRLTKLKELR 137
Query: 262 MEINKLHGTIPDTIGEXXXXXXXXXXXXXXXXXIPSSLGNLTKLVELPLSYNNLQGNIP- 320
+ N+L +IP + LT L L LS N LQ ++P
Sbjct: 138 LNTNQLQ-SIP-----------------------AGAFDKLTNLQTLSLSTNQLQ-SVPH 172
Query: 321 ---SSLGNCQILRMF 332
LG Q + +F
Sbjct: 173 GAFDRLGKLQTITLF 187
Score = 39.3 bits (90), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 41/142 (28%), Positives = 66/142 (46%), Gaps = 9/142 (6%)
Query: 78 LRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGG 137
L L LN+ N+ + +++ L + L N+ + SLPL + +L L L +GG
Sbjct: 58 LTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLA-SLPLGVFDHLTQLDKLYLGG 116
Query: 138 NNFFGSIPNSL-SNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDL 196
N S+P+ + + L+ L L +NQL+ + F L NL L+L N L
Sbjct: 117 NQ-LKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAF 175
Query: 197 DFVTFLTNCSSLKVISLYANQF 218
D + L+ I+L+ NQF
Sbjct: 176 DRL------GKLQTITLFGNQF 191
>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 = 38.9 bits (89), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 96/363 (26%), Positives = 143/363 (39%), Gaps = 60/363 (16%)
Query: 49 DFVGNLSALKVFYIIGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWI 108
D V +V + + LG K + L NL +N N+ + + P + N++ L I
Sbjct: 33 DTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDI 90
Query: 109 YLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKV 168
+ N+ + PL NL NL L + N P L N +NL L+L+SN +
Sbjct: 91 LMNNNQIADITPL---ANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTIS--- 142
Query: 169 SIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGG-ELPHSIA 227
D S+L L+ +L+Q N G N + + L N ++L+ + + +N+ + +
Sbjct: 143 --DISALSGLT--SLQQLNFG----NQVTDLKPLANLTTLERLDISSNKVSDISVLAKLT 194
Query: 228 NLSSTMTDFRIGANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXX 287
NL S + NQIS P GI L NL L++ N+L T+
Sbjct: 195 NLESLIA----TNNQISDITPLGI--LTNLDELSLNGNQLKDI--GTLASLTNLTDLDLA 246
Query: 288 XXXXXXXIPSSLGNLTKLVELPLSYNNLQGNIPSSLGNCQILRMFNASRNKLTGALPHQX 347
P L LTKL EL L N + NI S L L + N+L P
Sbjct: 247 NNQISNLAP--LSGLTKLTELKLGANQI-SNI-SPLAGLTALTNLELNENQLEDISP--- 299
Query: 348 XXXXXXXXXXXXXXXXXXXXXXXQVGNLKNLVKLDISGNQFSGVIPVTLSACVSLEYLNI 407
+ NLKNL L + N S + PV S+ L+ L
Sbjct: 300 ------------------------ISNLKNLTYLTLYFNNISDISPV--SSLTKLQRLFF 333
Query: 408 SRN 410
S N
Sbjct: 334 SNN 336
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 38.9 bits (89), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 119/465 (25%), Positives = 175/465 (37%), Gaps = 78/465 (16%)
Query: 49 DFVGNLSALKVFYIIGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWI 108
D V +V + + LG K + L NL +N N+ + + P + N++ L I
Sbjct: 33 DTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDI 90
Query: 109 YLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKV 168
+ N+ + PL NL NL L + N P L N +NL L+L+SN +
Sbjct: 91 LMNNNQIADITPL---ANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTIS--- 142
Query: 169 SIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGG-ELPHSIA 227
D S+L L+ +L+Q N DL L N ++L+ + + +N+ + +
Sbjct: 143 --DISALSGLT--SLQQLNFSSNQVTDLKP---LANLTTLERLDISSNKVSDISVLAKLT 195
Query: 228 NLSSTMTDFRIGANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXX 287
NL S + NQIS P GI L NL L++ N+L T+
Sbjct: 196 NLESLIA----TNNQISDITPLGI--LTNLDELSLNGNQLKDI--GTLASLTNLTDLDLA 247
Query: 288 XXXXXXXIPSSLGNLTKLVELPLSYNNLQGNIPSSLGNCQILRMFNASRNKLTGALPHQX 347
P L LTKL EL L N + NI S L L + N+L P
Sbjct: 248 NNQISNLAP--LSGLTKLTELKLGANQI-SNI-SPLAGLTALTNLELNENQLEDISP--- 300
Query: 348 XXXXXXXXXXXXXXXXXXXXXXXQVGNLKNLVKLDISGNQFSGVIPVTLSACVSLEYLNI 407
+ NLKNL L + N S + PV S+ L+ L
Sbjct: 301 ------------------------ISNLKNLTYLTLYFNNISDISPV--SSLTKLQRL-- 332
Query: 408 SRNFFHGXXXXXXXXXXXXXEFNVSS---NNLSGLIPEFLKNLSFMEFLDLSYNHFEGEV 464
FF+ N S N +S L P L NL+ + L L+ +
Sbjct: 333 ---FFYNNKVSDVSSLANLTNINWLSAGHNQISDLTP--LANLTRITQLGLNDQAW---- 383
Query: 465 PKKGVFSNKTKISLQGNVKLCGGIDELHLPSCPSKGS--IKPKIT 507
+ K +S+ VK G L P+ S G +P IT
Sbjct: 384 -TNAPVNYKANVSIPNTVKNVTG--ALIAPATISDGGSYTEPDIT 425
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 38.9 bits (89), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 119/465 (25%), Positives = 177/465 (38%), Gaps = 79/465 (16%)
Query: 49 DFVGNLSALKVFYIIGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWI 108
D V +V + + LG K + L NL +N N+ + + P + N++ L I
Sbjct: 33 DTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDI 90
Query: 109 YLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKV 168
+ N+ + PL NL NL L + N P L N +NL L+L+SN +
Sbjct: 91 LMNNNQIADITPL---ANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTIS--- 142
Query: 169 SIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGG-ELPHSIA 227
D S+L L+ +L+Q N G N + + L N ++L+ + + +N+ + +
Sbjct: 143 --DISALSGLT--SLQQLNFG----NQVTDLKPLANLTTLERLDISSNKVSDISVLAKLT 194
Query: 228 NLSSTMTDFRIGANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXX 287
NL S + NQIS P GI L NL L++ N+L T+
Sbjct: 195 NLESLIA----TNNQISDITPLGI--LTNLDELSLNGNQLKDI--GTLASLTNLTDLDLA 246
Query: 288 XXXXXXXIPSSLGNLTKLVELPLSYNNLQGNIPSSLGNCQILRMFNASRNKLTGALPHQX 347
P L LTKL EL L N + NI S L L + N+L P
Sbjct: 247 NNQISNLAP--LSGLTKLTELKLGANQI-SNI-SPLAGLTALTNLELNENQLEDISP--- 299
Query: 348 XXXXXXXXXXXXXXXXXXXXXXXQVGNLKNLVKLDISGNQFSGVIPVTLSACVSLEYLNI 407
+ NLKNL L + N S + PV S+ L+ L
Sbjct: 300 ------------------------ISNLKNLTYLTLYFNNISDISPV--SSLTKLQRL-- 331
Query: 408 SRNFFHGXXXXXXXXXXXXXEFNVSS---NNLSGLIPEFLKNLSFMEFLDLSYNHFEGEV 464
FF+ N S N +S L P L NL+ + L L+ +
Sbjct: 332 ---FFYNNKVSDVSSLANLTNINWLSAGHNQISDLTP--LANLTRITQLGLNDQAW---- 382
Query: 465 PKKGVFSNKTKISLQGNVKLCGGIDELHLPSCPSKGS--IKPKIT 507
+ K +S+ VK G L P+ S G +P IT
Sbjct: 383 -TNAPVNYKANVSIPNTVKNVTG--ALIAPATISDGGSYTEPDIT 424
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 38.1 bits (87), Expect = 0.014, Method: Compositional matrix adjust.
Identities = 32/107 (29%), Positives = 50/107 (46%), Gaps = 2/107 (1%)
Query: 78 LRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGG 137
LRNL+ L++ F +SSLE + + N F + DI L NL L +
Sbjct: 420 LRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQ 479
Query: 138 NNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLS--WLN 182
P + ++ S+L++L++ SNQLK F L +L WL+
Sbjct: 480 CQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLH 526
Score = 34.7 bits (78), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 30/98 (30%), Positives = 47/98 (47%), Gaps = 7/98 (7%)
Query: 127 LPNLKALAIGGNNFFGS-IPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQ 185
L +L+ L + GN+F + +P+ + NL LDL+ QL+ F+SL +L LN+
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMAS 503
Query: 186 NNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELP 223
N L D +T SL+ I L+ N + P
Sbjct: 504 NQLKSVPDGIFDRLT------SLQKIWLHTNPWDCSCP 535
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 42/172 (24%), Positives = 70/172 (40%), Gaps = 23/172 (13%)
Query: 125 VNLPNLKALAIGGN--NFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLN 182
V+LP+L+ L + N +F G S ++L+ LDL+ N + +S +F L+ L L+
Sbjct: 344 VDLPSLEFLDLSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVI-TMSSNFLGLEQLEHLD 402
Query: 183 LEQNNLGM-------------------GTANDLDFVTFLTNCSSLKVISLYANQFGGELP 223
+ +NL T + F SSL+V+ + N F
Sbjct: 403 FQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFL 462
Query: 224 HSIANLSSTMTDFRIGANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTI 275
I +T + Q+ P +L +L L M N+L ++PD I
Sbjct: 463 PDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLK-SVPDGI 513
>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 = 37.7 bits (86), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 47/160 (29%), Positives = 72/160 (45%), Gaps = 16/160 (10%)
Query: 118 SLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNA-SNLEILDLTSNQLKGKVSIDFSSLK 176
SLP + L +L L +GGN S+PN + N ++L L+L++NQL+ + F L
Sbjct: 42 SLPNGVFDELTSLTQLYLGGNKL-QSLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLT 100
Query: 177 NLSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDF 236
L L L N L D +T LK + LY NQ +P + + +++
Sbjct: 101 QLKELALNTNQLQSLPDGVFDKLT------QLKDLRLYQNQL-KSVPDGVFDRLTSLQYI 153
Query: 237 RIGANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTIG 276
+ N T PGIR L+ INK G + ++ G
Sbjct: 154 WLHDNPWDCTC-PGIR------YLSEWINKHSGVVRNSAG 186
>pdb|2Z66|A Chain A, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|B Chain B, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|C Chain C, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z66|D Chain D, Crystal Structure Of The Vt3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 306
Score = 37.4 bits (85), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 53/227 (23%), Positives = 98/227 (43%), Gaps = 17/227 (7%)
Query: 5 RYSNLIELRVSKNKL--EGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYI 62
+ + L +L +S N L +G + +L+ L + FN + +F+G L L+
Sbjct: 50 KLTQLTKLSLSSNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLG-LEQLEHLDF 108
Query: 63 IGNSLGGKIPTTLGL-LRNLVDLNVGENR----FSGMFPRSICNISSLEWIYLPFNRFSG 117
++L ++ L LRNL+ L++ F+G+F +SSLE + + N F
Sbjct: 109 QHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFN----GLSSLEVLKMAGNSFQE 164
Query: 118 SLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKN 177
+ DI L NL L + P + ++ S+L++L+++ N + + L +
Sbjct: 165 NFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNS 224
Query: 178 LSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPH 224
L L+ N++ +L SSL ++L N F H
Sbjct: 225 LQVLDYSLNHIMTSKKQELQHFP-----SSLAFLNLTQNDFACTCEH 266
>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
Length = 605
Score = 37.0 bits (84), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 61/147 (41%), Gaps = 5/147 (3%)
Query: 78 LRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGG 137
LRNL+ L++ F +SSLE + + N F + DI L NL L +
Sbjct: 420 LRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQ 479
Query: 138 NNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDLD 197
P + ++ S+L++L+++ N + + L +L L+ N++ +L
Sbjct: 480 CQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQ 539
Query: 198 FVTFLTNCSSLKVISLYANQFGGELPH 224
SSL ++L N F H
Sbjct: 540 HFP-----SSLAFLNLTQNDFACTCEH 561
Score = 32.0 bits (71), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 39/138 (28%), Positives = 61/138 (44%), Gaps = 3/138 (2%)
Query: 29 SLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYIIGNSLGGK-IPTTLGLLRNLVDLNVG 87
SL NL L I + LS+L+V + GNS +P LRNL L++
Sbjct: 419 SLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLS 478
Query: 88 ENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNS 147
+ + + P + ++SSL+ + + N F SL L +L+ L N+ S
Sbjct: 479 QCQLEQLSPTAFNSLSSLQVLNMSHNNF-FSLDTFPYKCLNSLQVLDYSLNHIMTSKKQE 537
Query: 148 LSN-ASNLEILDLTSNQL 164
L + S+L L+LT N
Sbjct: 538 LQHFPSSLAFLNLTQNDF 555
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 36.6 bits (83), Expect = 0.043, Method: Compositional matrix adjust.
Identities = 44/155 (28%), Positives = 64/155 (41%), Gaps = 2/155 (1%)
Query: 9 LIELRVSKN-KLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYIIGNSL 67
L +L +S N +L P L L TL +D L P L+AL+ Y+ N+L
Sbjct: 81 LEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNAL 140
Query: 68 GGKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNL 127
T L NL L + NR S + R+ + SL+ + L NR + P +L
Sbjct: 141 QALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFR-DL 199
Query: 128 PNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSN 162
L L + NN +L+ L+ L L N
Sbjct: 200 GRLMTLYLFANNLSALPTEALAPLRALQYLRLNDN 234
>pdb|1OZN|A Chain A, 1.5a Crystal Structure Of The Nogo Receptor Ligand Binding
Domain Reveals A Convergent Recognition Scaffold
Mediating Inhibition Of Myelination
Length = 285
Score = 36.6 bits (83), Expect = 0.045, Method: Compositional matrix adjust.
Identities = 44/155 (28%), Positives = 64/155 (41%), Gaps = 2/155 (1%)
Query: 9 LIELRVSKN-KLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYIIGNSL 67
L +L +S N +L P L L TL +D L P L+AL+ Y+ N+L
Sbjct: 82 LEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNAL 141
Query: 68 GGKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNL 127
T L NL L + NR S + R+ + SL+ + L NR + P +L
Sbjct: 142 QALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFR-DL 200
Query: 128 PNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSN 162
L L + NN +L+ L+ L L N
Sbjct: 201 GRLMTLYLFANNLSALPTEALAPLRALQYLRLNDN 235
>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 = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 118/465 (25%), Positives = 177/465 (38%), Gaps = 79/465 (16%)
Query: 49 DFVGNLSALKVFYIIGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWI 108
D V +V + + LG K + L NL +N N+ + + P + N++ L I
Sbjct: 38 DTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDI 95
Query: 109 YLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKV 168
+ N+ + PL NL NL L + N P L N +NL L+L+SN +
Sbjct: 96 LMNNNQIADITPL---ANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTIS--- 147
Query: 169 SIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGG-ELPHSIA 227
D S+L L+ +L+Q + G N + + L N ++L+ + + +N+ + +
Sbjct: 148 --DISALSGLT--SLQQLSFG----NQVTDLKPLANLTTLERLDISSNKVSDISVLAKLT 199
Query: 228 NLSSTMTDFRIGANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXX 287
NL S + NQIS P GI L NL L++ N+L T+
Sbjct: 200 NLESLIA----TNNQISDITPLGI--LTNLDELSLNGNQLKDI--GTLASLTNLTDLDLA 251
Query: 288 XXXXXXXIPSSLGNLTKLVELPLSYNNLQGNIPSSLGNCQILRMFNASRNKLTGALPHQX 347
P L LTKL EL L N + NI S L L + N+L P
Sbjct: 252 NNQISNLAP--LSGLTKLTELKLGANQI-SNI-SPLAGLTALTNLELNENQLEDISP--- 304
Query: 348 XXXXXXXXXXXXXXXXXXXXXXXQVGNLKNLVKLDISGNQFSGVIPVTLSACVSLEYLNI 407
+ NLKNL L + N S + PV S+ L+ L
Sbjct: 305 ------------------------ISNLKNLTYLTLYFNNISDISPV--SSLTKLQRL-- 336
Query: 408 SRNFFHGXXXXXXXXXXXXXEFNVSS---NNLSGLIPEFLKNLSFMEFLDLSYNHFEGEV 464
FF+ N S N +S L P L NL+ + L L+ +
Sbjct: 337 ---FFYNNKVSDVSSLANLTNINWLSAGHNQISDLTP--LANLTRITQLGLNDQAW---- 387
Query: 465 PKKGVFSNKTKISLQGNVKLCGGIDELHLPSCPSKGS--IKPKIT 507
+ K +S+ VK G L P+ S G +P IT
Sbjct: 388 -TNAPVNYKANVSIPNTVKNVTG--ALIAPATISDGGSYTEPDIT 429
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 36.6 bits (83), Expect = 0.046, Method: Compositional matrix adjust.
Identities = 95/363 (26%), Positives = 141/363 (38%), Gaps = 59/363 (16%)
Query: 49 DFVGNLSALKVFYIIGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWI 108
D V +V + + LG K + L NL +N N+ + + P + N++ L I
Sbjct: 33 DTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDI 90
Query: 109 YLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKV 168
+ N+ + PL NL NL L + N P L N +NL L+L+SN +
Sbjct: 91 LMNNNQIADITPL---ANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTIS--- 142
Query: 169 SIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGG-ELPHSIA 227
D S+L L+ +L+Q + DL L N ++L+ + + +N+ + +
Sbjct: 143 --DISALSGLT--SLQQLSFSSNQVTDLKP---LANLTTLERLDISSNKVSDISVLAKLT 195
Query: 228 NLSSTMTDFRIGANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXX 287
NL S + NQIS P GI L NL L++ N+L T+
Sbjct: 196 NLESLIA----TNNQISDITPLGI--LTNLDELSLNGNQLKDI--GTLASLTNLTDLDLA 247
Query: 288 XXXXXXXIPSSLGNLTKLVELPLSYNNLQGNIPSSLGNCQILRMFNASRNKLTGALPHQX 347
P L LTKL EL L N + NI S L L + N+L P
Sbjct: 248 NNQISNLAP--LSGLTKLTELKLGANQI-SNI-SPLAGLTALTNLELNENQLEDISP--- 300
Query: 348 XXXXXXXXXXXXXXXXXXXXXXXQVGNLKNLVKLDISGNQFSGVIPVTLSACVSLEYLNI 407
+ NLKNL L + N S + PV S+ L+ L
Sbjct: 301 ------------------------ISNLKNLTYLTLYFNNISDISPV--SSLTKLQRLFF 334
Query: 408 SRN 410
S N
Sbjct: 335 SNN 337
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 36.6 bits (83), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 43/83 (51%), Gaps = 2/83 (2%)
Query: 108 IYLPFNRFSGSLPLD-IAVNLPNLKALAIGGNNFFG-SIPNSLSNASNLEILDLTSNQLK 165
+YL + + + D I + L +L L + GN+F ++ N +N +NL LDL+ QL+
Sbjct: 422 LYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLE 481
Query: 166 GKVSIDFSSLKNLSWLNLEQNNL 188
F +L L LN+ NNL
Sbjct: 482 QISWGVFDTLHRLQLLNMSHNNL 504
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 36.6 bits (83), Expect = 0.051, Method: Compositional matrix adjust.
Identities = 118/465 (25%), Positives = 175/465 (37%), Gaps = 78/465 (16%)
Query: 49 DFVGNLSALKVFYIIGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWI 108
D V +V + + LG K + L NL +N N+ + + P + N++ L I
Sbjct: 33 DTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDI 90
Query: 109 YLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKV 168
+ N+ + PL NL NL L + N P L N +NL L+L+SN +
Sbjct: 91 LMNNNQIADITPL---ANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTIS--- 142
Query: 169 SIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGG-ELPHSIA 227
D S+L L+ +L+Q + DL L N ++L+ + + +N+ + +
Sbjct: 143 --DISALSGLT--SLQQLSFSSNQVTDLKP---LANLTTLERLDISSNKVSDISVLAKLT 195
Query: 228 NLSSTMTDFRIGANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXX 287
NL S + NQIS P GI L NL L++ N+L T+
Sbjct: 196 NLESLIA----TNNQISDITPLGI--LTNLDELSLNGNQLKDI--GTLASLTNLTDLDLA 247
Query: 288 XXXXXXXIPSSLGNLTKLVELPLSYNNLQGNIPSSLGNCQILRMFNASRNKLTGALPHQX 347
P L LTKL EL L N + NI S L L + N+L P
Sbjct: 248 NNQISNLAP--LSGLTKLTELKLGANQI-SNI-SPLAGLTALTNLELNENQLEDISP--- 300
Query: 348 XXXXXXXXXXXXXXXXXXXXXXXQVGNLKNLVKLDISGNQFSGVIPVTLSACVSLEYLNI 407
+ NLKNL L + N S + PV S+ L+ L
Sbjct: 301 ------------------------ISNLKNLTYLTLYFNNISDISPV--SSLTKLQRL-- 332
Query: 408 SRNFFHGXXXXXXXXXXXXXEFNVSS---NNLSGLIPEFLKNLSFMEFLDLSYNHFEGEV 464
FF+ N S N +S L P L NL+ + L L+ +
Sbjct: 333 ---FFYNNKVSDVSSLANLTNINWLSAGHNQISDLTP--LANLTRITQLGLNDQAW---- 383
Query: 465 PKKGVFSNKTKISLQGNVKLCGGIDELHLPSCPSKGS--IKPKIT 507
+ K +S+ VK G L P+ S G +P IT
Sbjct: 384 -TNAPVNYKANVSIPNTVKNVTG--ALIAPATISDGGSYTEPDIT 425
>pdb|4G8A|A Chain A, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
pdb|4G8A|B Chain B, Crystal Structure Of Human Tlr4 Polymorphic Variant D299g
And T399i In Complex With Md-2 And Lps
Length = 635
Score = 36.2 bits (82), Expect = 0.052, Method: Compositional matrix adjust.
Identities = 35/147 (23%), Positives = 61/147 (41%), Gaps = 5/147 (3%)
Query: 78 LRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGG 137
LRNL+ L++ F +SSLE + + N F + DI L NL L +
Sbjct: 444 LRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQ 503
Query: 138 NNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDLD 197
P + ++ S+L++L+++ N + + L +L L+ N++ +L
Sbjct: 504 CQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPYKCLNSLQVLDYSLNHIMTSKKQELQ 563
Query: 198 FVTFLTNCSSLKVISLYANQFGGELPH 224
SSL ++L N F H
Sbjct: 564 HFP-----SSLAFLNLTQNDFACTCEH 585
>pdb|3VQ1|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ1|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LIPID IVA COMPLEX
pdb|3VQ2|A Chain A, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
pdb|3VQ2|B Chain B, Crystal Structure Of Mouse Tlr4MD-2LPS COMPLEX
Length = 606
Score = 36.2 bits (82), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 43/83 (51%), Gaps = 2/83 (2%)
Query: 108 IYLPFNRFSGSLPLD-IAVNLPNLKALAIGGNNFFG-SIPNSLSNASNLEILDLTSNQLK 165
+YL + + + D I + L +L L + GN+F ++ N +N +NL LDL+ QL+
Sbjct: 427 LYLDISYTNTKIDFDGIFLGLTSLNTLKMAGNSFKDNTLSNVFANTTNLTFLDLSKCQLE 486
Query: 166 GKVSIDFSSLKNLSWLNLEQNNL 188
F +L L LN+ NNL
Sbjct: 487 QISWGVFDTLHRLQLLNMSHNNL 509
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 36.2 bits (82), Expect = 0.060, Method: Compositional matrix adjust.
Identities = 27/115 (23%), Positives = 45/115 (39%)
Query: 373 GNLKNLVKLDISGNQFSGVIPVTLSACVSLEYLNISRNFFHGXXXXXXXXXXXXXEFNVS 432
G L +LVKL++ NQ +G+ P ++ L + N N+
Sbjct: 51 GRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLY 110
Query: 433 SNNLSGLIPEFLKNLSFMEFLDLSYNHFEGEVPKKGVFSNKTKISLQGNVKLCGG 487
N +S ++P ++L+ + L+L+ N F K SL G CG
Sbjct: 111 DNQISCVMPGSFEHLNSLTSLNLASNPFNCNCHLAWFAEWLRKKSLNGGAARCGA 165
Score = 32.3 bits (72), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 23/77 (29%), Positives = 35/77 (45%)
Query: 127 LPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQN 186
LP+L L + N G PN+ AS+++ L L N++K + F L L LNL N
Sbjct: 53 LPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNLYDN 112
Query: 187 NLGMGTANDLDFVTFLT 203
+ + + LT
Sbjct: 113 QISCVMPGSFEHLNSLT 129
>pdb|2WFH|A Chain A, The Human Slit 2 Dimerization Domain D4
pdb|2WFH|B Chain B, The Human Slit 2 Dimerization Domain D4
Length = 193
Score = 36.2 bits (82), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 32/115 (27%), Positives = 55/115 (47%), Gaps = 8/115 (6%)
Query: 129 NLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNL 188
++ L + GN F +P LSN +L ++DL++N++ + FS++ L L L N L
Sbjct: 32 DVTELYLDGNQF-TLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRL 90
Query: 189 GMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQI 243
D + SL+++SL+ N +P N S ++ IGAN +
Sbjct: 91 RCIPPRTFDGL------KSLRLLSLHGNDI-SVVPEGAFNDLSALSHLAIGANPL 138
Score = 30.0 bits (66), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 30/132 (22%), Positives = 59/132 (44%), Gaps = 6/132 (4%)
Query: 60 FYIIGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSL 119
Y+ GN +P L ++L +++ NR S + +S N++ L + L +NR +
Sbjct: 36 LYLDGNQFT-LVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLR-CI 93
Query: 120 PLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLS 179
P L +L+ L++ GN+ + ++ S L L + +N L ++ + S
Sbjct: 94 PPRTFDGLKSLRLLSLHGNDISVVPEGAFNDLSALSHLAIGANPLYCDCNMQWLS----D 149
Query: 180 WLNLEQNNLGMG 191
W+ E G+
Sbjct: 150 WVKSEYKEPGIA 161
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 35.4 bits (80), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 94/363 (25%), Positives = 143/363 (39%), Gaps = 60/363 (16%)
Query: 49 DFVGNLSALKVFYIIGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWI 108
D V +V + + LG K + L NL +N N+ + + P + N++ L I
Sbjct: 37 DTVSQTDLDQVTTLQADRLGIKSIDGVEYLNNLTQINFSNNQLTDITP--LKNLTKLVDI 94
Query: 109 YLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKV 168
+ N+ + PL NL NL L + N P L N +NL L+L+SN +
Sbjct: 95 LMNNNQIADITPL---ANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLELSSNTIS--- 146
Query: 169 SIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGG-ELPHSIA 227
D S+L L+ +L+Q + G N + + L N ++L+ + + +N+ + +
Sbjct: 147 --DISALSGLT--SLQQLSFG----NQVTDLKPLANLTTLERLDISSNKVSDISVLAKLT 198
Query: 228 NLSSTMTDFRIGANQISGTIPPGIRNLVNLIALTMEINKLHGTIPDTIGEXXXXXXXXXX 287
NL S + NQIS P GI L NL L++ N+L T+
Sbjct: 199 NLESLIA----TNNQISDITPLGI--LTNLDELSLNGNQLKDI--GTLASLTNLTDLDLA 250
Query: 288 XXXXXXXIPSSLGNLTKLVELPLSYNNLQGNIPSSLGNCQILRMFNASRNKLTGALPHQX 347
P L LTKL EL L N + NI S L L + N+L P
Sbjct: 251 NNQISNLAP--LSGLTKLTELKLGANQI-SNI-SPLAGLTALTNLELNENQLEDISP--- 303
Query: 348 XXXXXXXXXXXXXXXXXXXXXXXQVGNLKNLVKLDISGNQFSGVIPVTLSACVSLEYLNI 407
+ NLKNL L + N S + PV S+ L+ L
Sbjct: 304 ------------------------ISNLKNLTYLTLYFNNISDISPV--SSLTKLQRLFF 337
Query: 408 SRN 410
+ N
Sbjct: 338 ANN 340
>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 = 34.3 bits (77), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 45/149 (30%), Positives = 69/149 (46%), Gaps = 13/149 (8%)
Query: 75 LGLLRNL-VDLNVGENRFSGMFPRSICNISSLEWIYLPFNRF----SGSLPLDIAVNLPN 129
LG LR L + LN E + SG R + NI IYL +N++ + S L ++
Sbjct: 404 LGQLRILDLGLNEIEQKLSGQEWRGLRNIFE---IYLSYNKYLQLSTSSFALVPSLQRLM 460
Query: 130 LKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLG 189
L+ +A+ + P+ NL ILDL++N + L+NL L+ + NNL
Sbjct: 461 LRRVALKNVDI---SPSPFRPLRNLTILDLSNNNIANINEDLLEGLENLEILDFQHNNLA 517
Query: 190 --MGTANDLDFVTFLTNCSSLKVISLYAN 216
AN V FL S L +++L +N
Sbjct: 518 RLWKRANPGGPVNFLKGLSHLHILNLESN 546
Score = 32.3 bits (72), Expect = 0.92, Method: Compositional matrix adjust.
Identities = 33/96 (34%), Positives = 44/96 (45%), Gaps = 15/96 (15%)
Query: 127 LPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSI---------DFSSLKN 177
LP+L+ L++ NN P S SNL L L K VS+ F LK
Sbjct: 271 LPSLRYLSLEYNNIQRLSPRSFYGLSNLRYLSLKRAFTKQSVSLASHPNIDDFSFQWLKY 330
Query: 178 LSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISL 213
L +LN++ NN+ +N TF T SLK +SL
Sbjct: 331 LEYLNMDDNNIPSTKSN-----TF-TGLVSLKYLSL 360
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 33/110 (30%), Positives = 47/110 (42%), Gaps = 1/110 (0%)
Query: 80 NLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGGNN 139
N+ LN+ N+ + P + S L + FN S P ++ LP LK L + N
Sbjct: 26 NITVLNLTHNQLRRLPPTNFTRYSQLAILDAGFNSISKLEP-ELCQILPLLKVLNLQHNE 84
Query: 140 FFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLG 189
+ +NL LDL SN + S F + KNL L+L N L
Sbjct: 85 LSQISDQTFVFCTNLTELDLMSNSIHKIKSNPFKNQKNLIKLDLSHNGLS 134
>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 = 33.9 bits (76), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 39/77 (50%), Gaps = 1/77 (1%)
Query: 112 FNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSID 171
FNR + SLPL L L+ L + GN P L+ LE L L +NQL +
Sbjct: 109 FNRLT-SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGL 167
Query: 172 FSSLKNLSWLNLEQNNL 188
+ L+NL L L++N+L
Sbjct: 168 LNGLENLDTLLLQENSL 184
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 39/77 (50%), Gaps = 1/77 (1%)
Query: 112 FNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSID 171
FNR + SLPL L L+ L + GN P L+ LE L L +NQL +
Sbjct: 109 FNRLT-SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGL 167
Query: 172 FSSLKNLSWLNLEQNNL 188
+ L+NL L L++N+L
Sbjct: 168 LNGLENLDTLLLQENSL 184
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 33.9 bits (76), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 39/77 (50%), Gaps = 1/77 (1%)
Query: 112 FNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSID 171
FNR + SLPL L L+ L + GN P L+ LE L L +NQL +
Sbjct: 109 FNRLT-SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGL 167
Query: 172 FSSLKNLSWLNLEQNNL 188
+ L+NL L L++N+L
Sbjct: 168 LNGLENLDTLLLQENSL 184
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 33.9 bits (76), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 28/77 (36%), Positives = 39/77 (50%), Gaps = 1/77 (1%)
Query: 112 FNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSID 171
FNR + SLPL L L+ L + GN P L+ LE L L +NQL +
Sbjct: 109 FNRLT-SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGL 167
Query: 172 FSSLKNLSWLNLEQNNL 188
+ L+NL L L++N+L
Sbjct: 168 LNGLENLDTLLLQENSL 184
>pdb|3PRJ|A Chain A, Role Of Packing Defects In The Evolution Of Allostery And
Induced Fit In Human Udp-Glucose Dehydrogenase.
pdb|3PRJ|B Chain B, Role Of Packing Defects In The Evolution Of Allostery And
Induced Fit In Human Udp-Glucose Dehydrogenase.
pdb|3PRJ|C Chain C, Role Of Packing Defects In The Evolution Of Allostery And
Induced Fit In Human Udp-Glucose Dehydrogenase.
pdb|3PRJ|D Chain D, Role Of Packing Defects In The Evolution Of Allostery And
Induced Fit In Human Udp-Glucose Dehydrogenase.
pdb|3PRJ|E Chain E, Role Of Packing Defects In The Evolution Of Allostery And
Induced Fit In Human Udp-Glucose Dehydrogenase.
pdb|3PRJ|F Chain F, Role Of Packing Defects In The Evolution Of Allostery And
Induced Fit In Human Udp-Glucose Dehydrogenase.
pdb|3PTZ|A Chain A, Role Of Packing Defects In The Evolution Of Allostery And
Induced Fit In Human Udp-Glucose Dehydrogenase.
pdb|3PTZ|B Chain B, Role Of Packing Defects In The Evolution Of Allostery And
Induced Fit In Human Udp-Glucose Dehydrogenase.
pdb|3PTZ|C Chain C, Role Of Packing Defects In The Evolution Of Allostery And
Induced Fit In Human Udp-Glucose Dehydrogenase.
pdb|3PTZ|D Chain D, Role Of Packing Defects In The Evolution Of Allostery And
Induced Fit In Human Udp-Glucose Dehydrogenase.
pdb|3PTZ|E Chain E, Role Of Packing Defects In The Evolution Of Allostery And
Induced Fit In Human Udp-Glucose Dehydrogenase.
pdb|3PTZ|F Chain F, Role Of Packing Defects In The Evolution Of Allostery And
Induced Fit In Human Udp-Glucose Dehydrogenase
Length = 494
Score = 33.9 bits (76), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 63/140 (45%), Gaps = 17/140 (12%)
Query: 532 RRRRFAHNSVDT---SPMEKQFPMVSYAELSKATSEFASSN--------MIEGLTLHEY- 579
+RRRFA +D+ + +K+ ++ +A K T + S+ M EG LH Y
Sbjct: 310 QRRRFASRIIDSLFNTVTDKKIAILGFA-FKKDTGDTRESSSIYISKYLMDEGAHLHIYD 368
Query: 580 AKMALQEKVMEIIDPSLLMDVIENNSKIREDRRAKLEECLNAIIRTGVLCSMESPFERMD 639
K+ ++ V+++ P + D + S++ + E C A V+C+ F+ +D
Sbjct: 369 PKVPREQIVVDLSHPGVSED--DQVSRLVTISKDPYEACDGA--HAVVICTEWDMFKELD 424
Query: 640 MRDIVAKLCHTRESFLGRRV 659
I K+ F GRRV
Sbjct: 425 YERIHKKMLKPAFIFDGRRV 444
>pdb|3TDK|A Chain A, Crystal Structure Of Human Udp-Glucose Dehydrogenase
pdb|3TDK|B Chain B, Crystal Structure Of Human Udp-Glucose Dehydrogenase
pdb|3TDK|G Chain G, Crystal Structure Of Human Udp-Glucose Dehydrogenase
pdb|3TDK|H Chain H, Crystal Structure Of Human Udp-Glucose Dehydrogenase
pdb|3TDK|L Chain L, Crystal Structure Of Human Udp-Glucose Dehydrogenase
pdb|3TDK|K Chain K, Crystal Structure Of Human Udp-Glucose Dehydrogenase
pdb|3TDK|F Chain F, Crystal Structure Of Human Udp-Glucose Dehydrogenase
pdb|3TDK|E Chain E, Crystal Structure Of Human Udp-Glucose Dehydrogenase
pdb|3TDK|D Chain D, Crystal Structure Of Human Udp-Glucose Dehydrogenase
pdb|3TDK|C Chain C, Crystal Structure Of Human Udp-Glucose Dehydrogenase
pdb|3TDK|J Chain J, Crystal Structure Of Human Udp-Glucose Dehydrogenase
pdb|3TDK|I Chain I, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Length = 487
Score = 33.9 bits (76), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 63/140 (45%), Gaps = 17/140 (12%)
Query: 532 RRRRFAHNSVDT---SPMEKQFPMVSYAELSKATSEFASSN--------MIEGLTLHEY- 579
+RRRFA +D+ + +K+ ++ +A K T + S+ M EG LH Y
Sbjct: 310 QRRRFASRIIDSLFNTVTDKKIAILGFA-FKKDTGDTRESSSIYISKYLMDEGAHLHIYD 368
Query: 580 AKMALQEKVMEIIDPSLLMDVIENNSKIREDRRAKLEECLNAIIRTGVLCSMESPFERMD 639
K+ ++ V+++ P + D + S++ + E C A V+C+ F+ +D
Sbjct: 369 PKVPREQIVVDLSHPGVSED--DQVSRLVTISKDPYEACDGA--HAVVICTEWDMFKELD 424
Query: 640 MRDIVAKLCHTRESFLGRRV 659
I K+ F GRRV
Sbjct: 425 YERIHKKMLKPAFIFDGRRV 444
>pdb|3TF5|A Chain A, Structure Of Udp-Glucose Dehydrogenase V132 Deletion
pdb|3TF5|B Chain B, Structure Of Udp-Glucose Dehydrogenase V132 Deletion
pdb|3TF5|C Chain C, Structure Of Udp-Glucose Dehydrogenase V132 Deletion
Length = 493
Score = 33.9 bits (76), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 63/140 (45%), Gaps = 17/140 (12%)
Query: 532 RRRRFAHNSVDT---SPMEKQFPMVSYAELSKATSEFASSN--------MIEGLTLHEY- 579
+RRRFA +D+ + +K+ ++ +A K T + S+ M EG LH Y
Sbjct: 309 QRRRFASRIIDSLFNTVTDKKIAILGFA-FKKDTGDTRESSSIYISKYLMDEGAHLHIYD 367
Query: 580 AKMALQEKVMEIIDPSLLMDVIENNSKIREDRRAKLEECLNAIIRTGVLCSMESPFERMD 639
K+ ++ V+++ P + D + S++ + E C A V+C+ F+ +D
Sbjct: 368 PKVPREQIVVDLSHPGVSED--DQVSRLVTISKDPYEACDGA--HAVVICTEWDMFKELD 423
Query: 640 MRDIVAKLCHTRESFLGRRV 659
I K+ F GRRV
Sbjct: 424 YERIHKKMLKPAFIFDGRRV 443
>pdb|3V47|A Chain A, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
pdb|3V47|B Chain B, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
Length = 455
Score = 33.5 bits (75), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 21/81 (25%), Positives = 35/81 (43%)
Query: 382 DISGNQFSGVIPVTLSACVSLEYLNISRNFFHGXXXXXXXXXXXXXEFNVSSNNLSGLIP 441
D+S ++ ++ S LE L +++N + + N+S N L +
Sbjct: 281 DLSKSKIFALLKSVFSHFTDLEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQNFLGSIDS 340
Query: 442 EFLKNLSFMEFLDLSYNHFEG 462
+NL +E LDLSYNH
Sbjct: 341 RMFENLDKLEVLDLSYNHIRA 361
Score = 32.3 bits (72), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 36/121 (29%), Positives = 56/121 (46%), Gaps = 12/121 (9%)
Query: 139 NFFGSIPNSL-SNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDLD 197
NF GSI + + N LE+LDL+ N ++ F L NL L L+ N L D
Sbjct: 333 NFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTNQLKSVPDGIFD 392
Query: 198 FVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTM---TDFRIGANQISGTIPPGIRNL 254
+T SL+ I L+ N + P I LS + + G+ + SG+ P +R++
Sbjct: 393 RLT------SLQKIWLHTNPWDCSCPR-IDYLSRWLNKNSQKEQGSAKCSGSGKP-VRSI 444
Query: 255 V 255
+
Sbjct: 445 I 445
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 29/134 (21%), Positives = 51/134 (38%), Gaps = 3/134 (2%)
Query: 375 LKNLVKLDISGNQFSGVIPVTLSACVSLEYLNISRNFFHGXXXXXXXXXXXXXEFNVSSN 434
L +L+KL++S N + LE L++S N E + +N
Sbjct: 322 LTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTN 381
Query: 435 NLSGLIPEFLKNLSFMEFLDLSYNHFEGEVPKKGVFS---NKTKISLQGNVKLCGGIDEL 491
L + L+ ++ + L N ++ P+ S NK QG+ K G +
Sbjct: 382 QLKSVPDGIFDRLTSLQKIWLHTNPWDCSCPRIDYLSRWLNKNSQKEQGSAKCSGSGKPV 441
Query: 492 HLPSCPSKGSIKPK 505
CP+ S+ P+
Sbjct: 442 RSIICPTSASLVPR 455
>pdb|3KHU|A Chain A, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Glu161gln, In Complex With Thiohemiacetal Intermediate
pdb|3KHU|B Chain B, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Glu161gln, In Complex With Thiohemiacetal Intermediate
pdb|3KHU|C Chain C, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Glu161gln, In Complex With Thiohemiacetal Intermediate
pdb|3KHU|D Chain D, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Glu161gln, In Complex With Thiohemiacetal Intermediate
pdb|3KHU|E Chain E, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Glu161gln, In Complex With Thiohemiacetal Intermediate
pdb|3KHU|F Chain F, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Glu161gln, In Complex With Thiohemiacetal Intermediate
Length = 467
Score = 33.5 bits (75), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 63/140 (45%), Gaps = 17/140 (12%)
Query: 532 RRRRFAHNSVDT---SPMEKQFPMVSYAELSKATSEFASSN--------MIEGLTLHEY- 579
+RRRFA +D+ + +K+ ++ +A K T + S+ M EG LH Y
Sbjct: 311 QRRRFASRIIDSLFNTVTDKKIAILGFA-FKKDTGDTRESSSIYISKYLMDEGAHLHIYD 369
Query: 580 AKMALQEKVMEIIDPSLLMDVIENNSKIREDRRAKLEECLNAIIRTGVLCSMESPFERMD 639
K+ ++ V+++ P + D + S++ + E C A V+C+ F+ +D
Sbjct: 370 PKVPREQIVVDLSHPGVSED--DQVSRLVTISKDPYEACDGA--HAVVICTEWDMFKELD 425
Query: 640 MRDIVAKLCHTRESFLGRRV 659
I K+ F GRRV
Sbjct: 426 YERIHKKMLKPAFIFDGRRV 445
>pdb|4EDF|A Chain A, Dimeric Hugdh, K94e
pdb|4EDF|B Chain B, Dimeric Hugdh, K94e
pdb|4EDF|C Chain C, Dimeric Hugdh, K94e
pdb|4EDF|D Chain D, Dimeric Hugdh, K94e
Length = 494
Score = 33.5 bits (75), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 63/140 (45%), Gaps = 17/140 (12%)
Query: 532 RRRRFAHNSVDT---SPMEKQFPMVSYAELSKATSEFASSN--------MIEGLTLHEY- 579
+RRRFA +D+ + +K+ ++ +A K T + S+ M EG LH Y
Sbjct: 310 QRRRFASRIIDSLFNTVTDKKIAILGFA-FKKDTGDTRESSSIYISKYLMDEGAHLHIYD 368
Query: 580 AKMALQEKVMEIIDPSLLMDVIENNSKIREDRRAKLEECLNAIIRTGVLCSMESPFERMD 639
K+ ++ V+++ P + D + S++ + E C A V+C+ F+ +D
Sbjct: 369 PKVPREQIVVDLSHPGVSED--DQVSRLVTISKDPYEACDGA--HAVVICTEWDMFKELD 424
Query: 640 MRDIVAKLCHTRESFLGRRV 659
I K+ F GRRV
Sbjct: 425 YERIHKKMLKPAFIFDGRRV 444
>pdb|2Q3E|A Chain A, Structure Of Human Udp-Glucose Dehydrogenase Complexed
With Nadh And Udp-Glucose
pdb|2Q3E|B Chain B, Structure Of Human Udp-Glucose Dehydrogenase Complexed
With Nadh And Udp-Glucose
pdb|2Q3E|C Chain C, Structure Of Human Udp-Glucose Dehydrogenase Complexed
With Nadh And Udp-Glucose
pdb|2Q3E|D Chain D, Structure Of Human Udp-Glucose Dehydrogenase Complexed
With Nadh And Udp-Glucose
pdb|2Q3E|E Chain E, Structure Of Human Udp-Glucose Dehydrogenase Complexed
With Nadh And Udp-Glucose
pdb|2Q3E|F Chain F, Structure Of Human Udp-Glucose Dehydrogenase Complexed
With Nadh And Udp-Glucose
pdb|2Q3E|G Chain G, Structure Of Human Udp-Glucose Dehydrogenase Complexed
With Nadh And Udp-Glucose
pdb|2Q3E|H Chain H, Structure Of Human Udp-Glucose Dehydrogenase Complexed
With Nadh And Udp-Glucose
pdb|2Q3E|I Chain I, Structure Of Human Udp-Glucose Dehydrogenase Complexed
With Nadh And Udp-Glucose
pdb|2Q3E|J Chain J, Structure Of Human Udp-Glucose Dehydrogenase Complexed
With Nadh And Udp-Glucose
pdb|2Q3E|K Chain K, Structure Of Human Udp-Glucose Dehydrogenase Complexed
With Nadh And Udp-Glucose
pdb|2Q3E|L Chain L, Structure Of Human Udp-Glucose Dehydrogenase Complexed
With Nadh And Udp-Glucose
pdb|2QG4|A Chain A, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Product Complex With Udp-Glucuronate
pdb|2QG4|B Chain B, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Product Complex With Udp-Glucuronate
pdb|2QG4|C Chain C, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Product Complex With Udp-Glucuronate
pdb|2QG4|D Chain D, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Product Complex With Udp-Glucuronate
pdb|2QG4|E Chain E, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Product Complex With Udp-Glucuronate
pdb|2QG4|F Chain F, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Product Complex With Udp-Glucuronate
pdb|2QG4|G Chain G, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Product Complex With Udp-Glucuronate
pdb|2QG4|H Chain H, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Product Complex With Udp-Glucuronate
Length = 467
Score = 33.5 bits (75), Expect = 0.37, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 63/140 (45%), Gaps = 17/140 (12%)
Query: 532 RRRRFAHNSVDT---SPMEKQFPMVSYAELSKATSEFASSN--------MIEGLTLHEY- 579
+RRRFA +D+ + +K+ ++ +A K T + S+ M EG LH Y
Sbjct: 311 QRRRFASRIIDSLFNTVTDKKIAILGFA-FKKDTGDTRESSSIYISKYLMDEGAHLHIYD 369
Query: 580 AKMALQEKVMEIIDPSLLMDVIENNSKIREDRRAKLEECLNAIIRTGVLCSMESPFERMD 639
K+ ++ V+++ P + D + S++ + E C A V+C+ F+ +D
Sbjct: 370 PKVPREQIVVDLSHPGVSED--DQVSRLVTISKDPYEACDGA--HAVVICTEWDMFKELD 425
Query: 640 MRDIVAKLCHTRESFLGRRV 659
I K+ F GRRV
Sbjct: 426 YERIHKKMLKPAFIFDGRRV 445
>pdb|3ITK|A Chain A, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Thr131ala, Apo Form.
pdb|3ITK|B Chain B, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Thr131ala, Apo Form.
pdb|3ITK|C Chain C, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Thr131ala, Apo Form.
pdb|3ITK|D Chain D, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Thr131ala, Apo Form.
pdb|3ITK|E Chain E, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Thr131ala, Apo Form.
pdb|3ITK|F Chain F, Crystal Structure Of Human Udp-Glucose Dehydrogenase
Thr131ala, Apo Form
Length = 467
Score = 33.5 bits (75), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 36/140 (25%), Positives = 63/140 (45%), Gaps = 17/140 (12%)
Query: 532 RRRRFAHNSVDT---SPMEKQFPMVSYAELSKATSEFASSN--------MIEGLTLHEY- 579
+RRRFA +D+ + +K+ ++ +A K T + S+ M EG LH Y
Sbjct: 311 QRRRFASRIIDSLFNTVTDKKIAILGFA-FKKDTGDTRESSSIYISKYLMDEGAHLHIYD 369
Query: 580 AKMALQEKVMEIIDPSLLMDVIENNSKIREDRRAKLEECLNAIIRTGVLCSMESPFERMD 639
K+ ++ V+++ P + D + S++ + E C A V+C+ F+ +D
Sbjct: 370 PKVPREQIVVDLSHPGVSED--DQVSRLVTISKDPYEACDGA--HAVVICTEWDMFKELD 425
Query: 640 MRDIVAKLCHTRESFLGRRV 659
I K+ F GRRV
Sbjct: 426 YERIHKKMLKPAFIFDGRRV 445
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 33.1 bits (74), Expect = 0.54, Method: Compositional matrix adjust.
Identities = 38/131 (29%), Positives = 59/131 (45%), Gaps = 5/131 (3%)
Query: 54 LSALKVFYIIGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFN 113
L+ L + GN L L NL +L + EN+ + +++L ++YL N
Sbjct: 84 LTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQLQSLPDGVFDKLTNLTYLYLYHN 143
Query: 114 RFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNA-SNLEILDLTSNQLKGKVSIDF 172
+ SLP + L NL L + NN S+P + + + L+ L L NQLK F
Sbjct: 144 QLQ-SLPKGVFDKLTNLTRLDL-DNNQLQSLPEGVFDKLTQLKQLSLNDNQLKSVPDGVF 201
Query: 173 SSLKNLS--WL 181
L +L+ WL
Sbjct: 202 DRLTSLTHIWL 212
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 46/158 (29%), Positives = 73/158 (46%), Gaps = 11/158 (6%)
Query: 62 IIGNSLGGKIPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPL 121
II N+ K + L N+ L +G N+ + ++ +++L ++ L N+ SLP
Sbjct: 46 IIANNSDIKSVQGIQYLPNVRYLALGGNKLHDI--SALKELTNLTYLILTGNQLQ-SLPN 102
Query: 122 DIAVNLPNLKALAIGGNNFFGSIPNSLSNA-SNLEILDLTSNQLKGKVSIDFSSLKNLSW 180
+ L NLK L + N S+P+ + + +NL L L NQL+ F L NL+
Sbjct: 103 GVFDKLTNLKELVLVENQL-QSLPDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTR 161
Query: 181 LNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQF 218
L+L+ N L D +T LK +SL NQ
Sbjct: 162 LDLDNNQLQSLPEGVFDKLT------QLKQLSLNDNQL 193
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 32.7 bits (73), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 42/159 (26%), Positives = 65/159 (40%), Gaps = 8/159 (5%)
Query: 110 LPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVS 169
L N+ S SLP L L+ L + N NLE L +T N+L+
Sbjct: 44 LQSNKLS-SLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALPI 102
Query: 170 IDFSSLKNLSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANL 229
F L NL+ L L++N L D +T LT +SL N+ LP + +
Sbjct: 103 GVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLT------YLSLGYNELQS-LPKGVFDK 155
Query: 230 SSTMTDFRIGANQISGTIPPGIRNLVNLIALTMEINKLH 268
+++ + R+ NQ+ L L L ++ N+L
Sbjct: 156 LTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLK 194
Score = 30.4 bits (67), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 29/60 (48%)
Query: 8 NLIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYIIGNSL 67
NL ELR+ +N+L+ P SL L L++ +N L L++LK + N L
Sbjct: 110 NLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQL 169
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 32.0 bits (71), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 29/90 (32%), Positives = 45/90 (50%), Gaps = 8/90 (8%)
Query: 80 NLVDLNVGENRFSGMFPRSIC-----NISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALA 134
+L L +GEN + +C +S L+ +YL N + SLP + +L L+ L+
Sbjct: 452 SLEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHN-YLNSLPPGVFSHLTALRGLS 510
Query: 135 IGGNNFFGSIPNSLSNASNLEILDLTSNQL 164
+ N N L +NLEILD++ NQL
Sbjct: 511 LNSNRLTVLSHNDL--PANLEILDISRNQL 538
Score = 29.3 bits (64), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 34/125 (27%), Positives = 54/125 (43%), Gaps = 8/125 (6%)
Query: 126 NLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSID--FSSLKNLSWLNL 183
NLPNL+ L +G + + P++ +L L L L V D F +LK L+ L+L
Sbjct: 71 NLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRLYFCGLSDAVLKDGYFRNLKALTRLDL 130
Query: 184 EQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLS-STMTDFRIGANQ 242
+N + L +SLK I +NQ H + L T++ F + AN
Sbjct: 131 SKNQI-----RSLYLHPSFGKLNSLKSIDFSSNQIFLVCEHELEPLQGKTLSFFSLAANS 185
Query: 243 ISGTI 247
+ +
Sbjct: 186 LYSRV 190
>pdb|2Z7X|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 549
Score = 32.0 bits (71), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 48/98 (48%), Gaps = 1/98 (1%)
Query: 381 LDISGNQFSGVIPVTLSACVSLEYLNISRNFFHGXXXXXXXXXXXXXEFNVSSNNLSGLI 440
LD+S N+ + + L CV+L+ L ++ N + ++S N LS L
Sbjct: 31 LDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLS 90
Query: 441 PEFLKNLSFMEFLDLSYNHFEGEVPKKGVFSNKTKISL 478
+ K LS + FL+L N ++ + + +FS+ TK+ +
Sbjct: 91 SSWFKPLSSLTFLNLLGNPYKT-LGETSLFSHLTKLQI 127
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 63/138 (45%), Gaps = 5/138 (3%)
Query: 129 NLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNL 188
NL+AL + N +S S+ +LE LDL+ N L S F L +L++LNL N
Sbjct: 51 NLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGN-- 108
Query: 189 GMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIP 248
T + + LT L+V ++ + F A L + + + I A+ + P
Sbjct: 109 PYKTLGETSLFSHLTKLQILRVGNM--DTFTKIQRKDFAGL-TFLEELEIDASDLQSYEP 165
Query: 249 PGIRNLVNLIALTMEINK 266
++++ N+ L + + +
Sbjct: 166 KSLKSIQNVSHLILHMKQ 183
Score = 28.9 bits (63), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 16/40 (40%), Positives = 21/40 (52%), Gaps = 1/40 (2%)
Query: 375 LKNLVKLDISGNQFSGVIPVTLSACVSLEYLNISRNFFHG 414
LKNL +DIS N F +P T ++YLN+S H
Sbjct: 386 LKNLTNIDISKNSFHS-MPETCQWPEKMKYLNLSSTRIHS 424
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 23/93 (24%), Positives = 42/93 (45%), Gaps = 3/93 (3%)
Query: 371 QVGNLKNLVKLD---ISGNQFSGVIPVTLSACVSLEYLNISRNFFHGXXXXXXXXXXXXX 427
++ NL L+KLD +SGN S + P + + L+ L + ++
Sbjct: 199 EIPNLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLV 258
Query: 428 EFNVSSNNLSGLIPEFLKNLSFMEFLDLSYNHF 460
E N++ NNL+ L + L +E + L +N +
Sbjct: 259 EINLAHNNLTLLPHDLFTPLHHLERIHLHHNPW 291
>pdb|2Z80|A Chain A, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
pdb|2Z80|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 353
Score = 31.6 bits (70), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 48/98 (48%), Gaps = 1/98 (1%)
Query: 381 LDISGNQFSGVIPVTLSACVSLEYLNISRNFFHGXXXXXXXXXXXXXEFNVSSNNLSGLI 440
LD+S N+ + + L CV+L+ L ++ N + ++S N LS L
Sbjct: 57 LDLSNNRITYISNSDLQRCVNLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLS 116
Query: 441 PEFLKNLSFMEFLDLSYNHFEGEVPKKGVFSNKTKISL 478
+ K LS + FL+L N ++ + + +FS+ TK+ +
Sbjct: 117 SSWFKPLSSLTFLNLLGNPYK-TLGETSLFSHLTKLQI 153
Score = 29.3 bits (64), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 35/138 (25%), Positives = 63/138 (45%), Gaps = 5/138 (3%)
Query: 129 NLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNL 188
NL+AL + N +S S+ +LE LDL+ N L S F L +L++LNL N
Sbjct: 77 NLQALVLTSNGINTIEEDSFSSLGSLEHLDLSYNYLSNLSSSWFKPLSSLTFLNLLGN-- 134
Query: 189 GMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIP 248
T + + LT L+V ++ + F A L + + + I A+ + P
Sbjct: 135 PYKTLGETSLFSHLTKLQILRVGNM--DTFTKIQRKDFAGL-TFLEELEIDASDLQSYEP 191
Query: 249 PGIRNLVNLIALTMEINK 266
++++ N+ L + + +
Sbjct: 192 KSLKSIQNVSHLILHMKQ 209
>pdb|1SQ0|B Chain B, Crystal Structure Of The Complex Of The Wild-Type Von
Willebrand Factor A1 Domain And Glycoprotein Ib Alpha At
2.6 Angstrom Resolution
Length = 288
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 1/77 (1%)
Query: 112 FNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSID 171
FNR + SLPL L L+ L + GN P L+ LE L L +N L +
Sbjct: 109 FNRLT-SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNDLTELPAGL 167
Query: 172 FSSLKNLSWLNLEQNNL 188
+ L+NL L L++N+L
Sbjct: 168 LNGLENLDTLLLQENSL 184
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 31.6 bits (70), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 51/194 (26%), Positives = 87/194 (44%), Gaps = 17/194 (8%)
Query: 81 LVDLNVGE--NRFSGMFPRSICNISSLEWIYLPFNRF----SGSLPLDIAVNLPNLKALA 134
++DL + E +G R + NI IYL +N++ S L ++ L+ +A
Sbjct: 409 VLDLGLNEIGQELTGQEWRGLENIFE---IYLSYNKYLQLTRNSFALVPSLQRLMLRRVA 465
Query: 135 IGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLG--MGT 192
+ S P+ NL ILDL++N + L+ L L+L+ NNL
Sbjct: 466 LKN---VDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKH 522
Query: 193 ANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIPPGI- 251
AN + FL S L +++L +N F E+P + + +G N + T+P +
Sbjct: 523 ANPGGPIYFLKGLSHLHILNLESNGF-DEIPVEVFKDLFELKIIDLGLNNL-NTLPASVF 580
Query: 252 RNLVNLIALTMEIN 265
N V+L +L ++ N
Sbjct: 581 NNQVSLKSLNLQKN 594
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 31.6 bits (70), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 51/194 (26%), Positives = 87/194 (44%), Gaps = 17/194 (8%)
Query: 81 LVDLNVGE--NRFSGMFPRSICNISSLEWIYLPFNRF----SGSLPLDIAVNLPNLKALA 134
++DL + E +G R + NI IYL +N++ S L ++ L+ +A
Sbjct: 414 VLDLGLNEIGQELTGQEWRGLENIFE---IYLSYNKYLQLTRNSFALVPSLQRLMLRRVA 470
Query: 135 IGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLG--MGT 192
+ S P+ NL ILDL++N + L+ L L+L+ NNL
Sbjct: 471 LKN---VDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKH 527
Query: 193 ANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIPPGI- 251
AN + FL S L +++L +N F E+P + + +G N + T+P +
Sbjct: 528 ANPGGPIYFLKGLSHLHILNLESNGF-DEIPVEVFKDLFELKIIDLGLNNL-NTLPASVF 585
Query: 252 RNLVNLIALTMEIN 265
N V+L +L ++ N
Sbjct: 586 NNQVSLKSLNLQKN 599
>pdb|3ULU|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 694
Score = 31.2 bits (69), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 51/194 (26%), Positives = 87/194 (44%), Gaps = 17/194 (8%)
Query: 81 LVDLNVGE--NRFSGMFPRSICNISSLEWIYLPFNRF----SGSLPLDIAVNLPNLKALA 134
++DL + E +G R + NI IYL +N++ S L ++ L+ +A
Sbjct: 419 VLDLGLNEIGQELTGQEWRGLENIFE---IYLSYNKYLQLTRNSFALVPSLQRLMLRRVA 475
Query: 135 IGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLG--MGT 192
+ S P+ NL ILDL++N + L+ L L+L+ NNL
Sbjct: 476 LKN---VDSSPSPFQPLRNLTILDLSNNNIANINDDMLEGLEKLEILDLQHNNLARLWKH 532
Query: 193 ANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIPPGI- 251
AN + FL S L +++L +N F E+P + + +G N + T+P +
Sbjct: 533 ANPGGPIYFLKGLSHLHILNLESNGF-DEIPVEVFKDLFELKIIDLGLNNL-NTLPASVF 590
Query: 252 RNLVNLIALTMEIN 265
N V+L +L ++ N
Sbjct: 591 NNQVSLKSLNLQKN 604
>pdb|1P9A|G Chain G, Crystal Structure Of N-terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-alpha At 1.7 Angstrom
Resolution
pdb|1QYY|A Chain A, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
pdb|1QYY|G Chain G, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
Length = 290
Score = 31.2 bits (69), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 1/77 (1%)
Query: 112 FNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSID 171
FNR + SLPL L L+ L + GN P L+ LE L L +N L +
Sbjct: 109 FNRLT-SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGL 167
Query: 172 FSSLKNLSWLNLEQNNL 188
+ L+NL L L++N+L
Sbjct: 168 LNGLENLDTLLLQENSL 184
>pdb|1OOK|G Chain G, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Human Alpha-thrombin
Length = 290
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 1/77 (1%)
Query: 112 FNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSID 171
FNR + SLPL L L+ L + GN P L+ LE L L +N L +
Sbjct: 109 FNRLT-SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGL 167
Query: 172 FSSLKNLSWLNLEQNNL 188
+ L+NL L L++N+L
Sbjct: 168 LNGLENLDTLLLQENSL 184
>pdb|3PMH|G Chain G, Mechanism Of Sulfotyrosine-Mediated Glycoprotein Ib
Interaction With Two Distinct Alpha-Thrombin Sites
Length = 290
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 1/77 (1%)
Query: 112 FNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSID 171
FNR + SLPL L L+ L + GN P L+ LE L L +N L +
Sbjct: 109 FNRLT-SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGL 167
Query: 172 FSSLKNLSWLNLEQNNL 188
+ L+NL L L++N+L
Sbjct: 168 LNGLENLDTLLLQENSL 184
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 43/154 (27%), Positives = 67/154 (43%), Gaps = 11/154 (7%)
Query: 36 LAIDF--NYLTGQLPDFVGNLSALKVFYIIGNSLG--GKIPTTLGLLRNLVDLNVGENRF 91
L +DF N LT + + G+L+ L+ + N L KI +++L L++ +N
Sbjct: 327 LHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQLDISQNSV 386
Query: 92 SGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLP-NLKALAIGGNNFFGSIPNSLSN 150
S + C+ + L N S L I LP +K L + N SIP +
Sbjct: 387 SYDEKKGDCSWTK---SLLSLNMSSNILTDTIFRCLPPRIKVLDLHSNKI-KSIPKQVVK 442
Query: 151 ASNLEILDLTSNQLKGKVSIDFSSLKNLS--WLN 182
L+ L++ SNQLK F L +L WL+
Sbjct: 443 LEALQELNVASNQLKSVPDGIFDRLTSLQKIWLH 476
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 48/217 (22%), Positives = 82/217 (37%), Gaps = 44/217 (20%)
Query: 7 SNLIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTG--QLPDFVGNLSALKVFYIIG 64
S+ L ++N + + +L LQTL + N L ++ N+S+L+ +
Sbjct: 353 SSFTFLNFTQNVFTDSVFQGCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSL 412
Query: 65 NSLGGK-IPTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDI 123
NSL T +++ LN+ N +G R LP
Sbjct: 413 NSLNSHAYDRTCAWAESILVLNLSSNMLTGSVFRC--------------------LP--- 449
Query: 124 AVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNL 183
P +K L + NN SIP +++ L+ L++ SNQLK F L +L ++ L
Sbjct: 450 ----PKVKVLDLH-NNRIMSIPKDVTHLQALQELNVASNQLKSVPDGVFDRLTSLQYIWL 504
Query: 184 EQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGG 220
N C ++ +S + N+ G
Sbjct: 505 HDNPWD-------------CTCPGIRYLSEWINKHSG 528
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 1/77 (1%)
Query: 112 FNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSID 171
FNR + SLPL L L+ L + GN P L+ LE L L +N L +
Sbjct: 109 FNRLT-SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGL 167
Query: 172 FSSLKNLSWLNLEQNNL 188
+ L+NL L L++N+L
Sbjct: 168 LNGLENLDTLLLQENSL 184
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 31.2 bits (69), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 27/77 (35%), Positives = 38/77 (49%), Gaps = 1/77 (1%)
Query: 112 FNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSID 171
FNR + SLPL L L+ L + GN P L+ LE L L +N L +
Sbjct: 110 FNRLT-SLPLGALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGL 168
Query: 172 FSSLKNLSWLNLEQNNL 188
+ L+NL L L++N+L
Sbjct: 169 LNGLENLDTLLLQENSL 185
>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 = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 47/194 (24%), Positives = 80/194 (41%), Gaps = 11/194 (5%)
Query: 72 PTTLGLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLK 131
PTT L +L L++ + P +++L+++YL N +LP + +L NL
Sbjct: 97 PTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNNLQ-ALPDNTFRDLGNLT 155
Query: 132 ALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMG 191
L + GN ++ +L+ L L N + F L L L L NNL M
Sbjct: 156 HLFLHGNRIPSVPEHAFRGLHSLDRLLLHQNHVARVHPHAFRDLGRLMTLYLFANNLSML 215
Query: 192 TANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIPPGI 251
A L SL+ + L N + + L + + FR ++++ +P +
Sbjct: 216 PAE------VLVPLRSLQYLRLNDNPWVCDC--RARPLWAWLQKFRGSSSEVPCNLPQRL 267
Query: 252 --RNLVNLIALTME 263
R+L L A +E
Sbjct: 268 AGRDLKRLAASDLE 281
>pdb|2V70|A Chain A, Third Lrr Domain Of Human Slit2
pdb|2V70|B Chain B, Third Lrr Domain Of Human Slit2
pdb|2V70|C Chain C, Third Lrr Domain Of Human Slit2
pdb|2V70|D Chain D, Third Lrr Domain Of Human Slit2
Length = 220
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 51/122 (41%), Gaps = 6/122 (4%)
Query: 113 NRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDF 172
N F+ I LP L+ + N + AS + + LTSN+L+ F
Sbjct: 42 NEFTVLEATGIFKKLPQLRKINFSNNKITDIEEGAFEGASGVNEILLTSNRLENVQHKMF 101
Query: 173 SSLKNLSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSST 232
L++L L L N + ND F+ SS++++SLY NQ P + L S
Sbjct: 102 KGLESLKTLMLRSNRITC-VGND-SFIGL----SSVRLLSLYDNQITTVAPGAFDTLHSL 155
Query: 233 MT 234
T
Sbjct: 156 ST 157
>pdb|3OJA|B Chain B, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 597
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 47/103 (45%), Gaps = 4/103 (3%)
Query: 84 LNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGS 143
L +G N + P N+ L + L N S SLP I N P L L++ NN
Sbjct: 104 LYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLS-SLPRGIFHNTPKLTTLSMSNNNLERI 162
Query: 144 IPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQN 186
++ ++L+ L L+SN+L +D S + +L N+ N
Sbjct: 163 EDDTFQATTSLQNLQLSSNRL---THVDLSLIPSLFHANVSYN 202
>pdb|1M9L|A Chain A, Relaxation-Based Refined Structure Of Chlamydomonas Outer
Arm Dynein Light Chain 1
Length = 199
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 10/79 (12%)
Query: 192 TANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSS---TMTDFRIGANQISGTIP 248
+ N+++ ++ L+ +L+++SL G L I NL + T+ + I NQI+
Sbjct: 57 STNNIEKISSLSGMENLRILSL-----GRNLIKKIENLDAVADTLEELWISYNQIASL-- 109
Query: 249 PGIRNLVNLIALTMEINKL 267
GI LVNL L M NK+
Sbjct: 110 SGIEKLVNLRVLYMSNNKI 128
>pdb|1DS9|A Chain A, Solution Structure Of Chlamydomonas Outer Arm Dynein Light
Chain 1
Length = 198
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 25/79 (31%), Positives = 41/79 (51%), Gaps = 10/79 (12%)
Query: 192 TANDLDFVTFLTNCSSLKVISLYANQFGGELPHSIANLSS---TMTDFRIGANQISGTIP 248
+ N+++ ++ L+ +L+++SL G L I NL + T+ + I NQI+
Sbjct: 56 STNNIEKISSLSGMENLRILSL-----GRNLIKKIENLDAVADTLEELWISYNQIASL-- 108
Query: 249 PGIRNLVNLIALTMEINKL 267
GI LVNL L M NK+
Sbjct: 109 SGIEKLVNLRVLYMSNNKI 127
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 30.4 bits (67), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 39/92 (42%), Gaps = 16/92 (17%)
Query: 375 LKNLVKLDISGNQFSGVIPVTLSACVSLEYLN--------ISRNFFHGXXXXXXXXXXXX 426
L L +L++SGN F + P + SL+ L I RN F G
Sbjct: 217 LVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLV------- 269
Query: 427 XEFNVSSNNLSGLIPEFLKNLSFMEFLDLSYN 458
E N++ NNLS L + L ++ L L +N
Sbjct: 270 -ELNLAHNNLSSLPHDLFTPLRYLVELHLHHN 300
>pdb|1A6D|B Chain B, Thermosome From T. Acidophilum
pdb|1A6E|B Chain B, Thermosome-Mg-Adp-Alf3 Complex
Length = 543
Score = 30.4 bits (67), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 12/39 (30%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 197 DFVTFLTNCSSLKVISLYANQFGGELPHSIANLSSTMTD 235
D++TF+T C + K +S+ GE H + + ++TD
Sbjct: 356 DYMTFVTGCKNPKAVSILVR---GETEHVVDEMERSITD 391
>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 = 30.4 bits (67), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 34/67 (50%)
Query: 122 DIAVNLPNLKALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWL 181
D + P+L+ L + N P + +N NL L L SN+LK F+ L NL+ L
Sbjct: 50 DEFASFPHLEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRLKLIPLGVFTGLSNLTKL 109
Query: 182 NLEQNNL 188
++ +N +
Sbjct: 110 DISENKI 116
>pdb|3B2D|A Chain A, Crystal Structure Of Human Rp105MD-1 Complex
pdb|3B2D|B Chain B, Crystal Structure Of Human Rp105MD-1 Complex
Length = 603
Score = 30.0 bits (66), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 64/254 (25%), Positives = 100/254 (39%), Gaps = 64/254 (25%)
Query: 6 YSNLIELRVSKNKLEGQIPEEIGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYIIGN 65
++ L EL ++ L+G +P + L L+ L + N+ N +L YI GN
Sbjct: 274 FTQLQELDLTATHLKG-LPSGMKGLNLLKKLVLSVNHFDQLCQISAANFPSLTHLYIRGN 332
Query: 66 ----SLGGKIPTTLGLLR-----------------------NLVDLNVGENRFSGMFPRS 98
LG LG L+ +L LN+ N G+ ++
Sbjct: 333 VKKLHLGVGCLEKLGNLQTLDLSHNDIEASDCCSLQLKNLSHLQTLNLSHNEPLGLQSQA 392
Query: 99 ICNISSLEWIYLPFNRFSGSLP-------------------LDIA-----VNLPNLKALA 134
LE + L F R + P LD + LP L+ L
Sbjct: 393 FKECPQLELLDLAFTRLHINAPQSPFQNLHFLQVLNLTYCFLDTSNQHLLAGLPVLRHLN 452
Query: 135 IGGNNFF-GSIP--NSLSNASNLEILDLTSNQLKGKVSID---FSSLKNLSWLNLEQNNL 188
+ GN+F G+I N L +LE+L L+S G +SID F SL +S ++L N+L
Sbjct: 453 LKGNHFQDGTITKTNLLQTVGSLEVLILSS---CGLLSIDQQAFHSLGKMSHVDLSHNSL 509
Query: 189 GMGTANDLDFVTFL 202
T + +D ++ L
Sbjct: 510 ---TCDSIDSLSHL 520
>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 = 30.0 bits (66), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 39/134 (29%), Positives = 56/134 (41%), Gaps = 33/134 (24%)
Query: 27 IGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYIIGNSLGGKIPTTLGLLRNLVDLNV 86
+ L NLQ L +D N +T P L G L NL L++
Sbjct: 131 LAGLSNLQVLYLDLNQITNISP------------------LAG--------LTNLQYLSI 164
Query: 87 GENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPN 146
G N+ + + P + N+S L + N+ S PL +LPNL + + N P
Sbjct: 165 GNNQVNDLTP--LANLSKLTTLRADDNKISDISPL---ASLPNLIEVHLKDNQISDVSP- 218
Query: 147 SLSNASNLEILDLT 160
L+N SNL I+ LT
Sbjct: 219 -LANLSNLFIVTLT 231
>pdb|4ARN|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|C Chain C, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARN|D Chain D, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor
pdb|4ARR|A Chain A, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
pdb|4ARR|B Chain B, Crystal Structure Of The N-terminal Domain Of Drosophila
Toll Receptor With The Magic Triangle I3c
Length = 279
Score = 30.0 bits (66), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 46/106 (43%), Gaps = 9/106 (8%)
Query: 119 LPLDIAVNLPNLKALAIGGNNFFGSIPNSL-SNASNLEILDLTSNQLKGKVSIDFSSLKN 177
+P ++ ++ NL L + N +P+ L + NLE ++ SN+L+ F +
Sbjct: 138 IPANLLTDMRNLSHLELRAN--IEEMPSHLFDDLENLESIEFGSNKLRQMPRGIFGKMPK 195
Query: 178 LSWLNLEQNNLGMGTANDLDFVTFLTNCSSLKVISLYANQFGGELP 223
L LNL N L D +T SL+ I L+ N + P
Sbjct: 196 LKQLNLASNQLKSVPDGIFDRLT------SLQKIWLHTNPWDCSCP 235
>pdb|3O6N|A Chain A, Crystal Structure Of Apl1 Leucine-Rich Repeat Domain
Length = 390
Score = 29.6 bits (65), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 30/103 (29%), Positives = 47/103 (45%), Gaps = 4/103 (3%)
Query: 84 LNVGENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGS 143
L +G N + P N+ L + L N S SLP I N P L L++ NN
Sbjct: 98 LYMGFNAIRYLPPHVFQNVPLLTVLVLERNDLS-SLPRGIFHNTPKLTTLSMSNNNLERI 156
Query: 144 IPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQN 186
++ ++L+ L L+SN+L +D S + +L N+ N
Sbjct: 157 EDDTFQATTSLQNLQLSSNRL---THVDLSLIPSLFHANVSYN 196
>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 = 29.3 bits (64), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 51/101 (50%), Gaps = 10/101 (9%)
Query: 76 GLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFS----GSLPLDIAVNLPNLK 131
GL +L +L++ N+ + + S+ +++L + L FN S GSL N P+L+
Sbjct: 189 GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSL-----ANTPHLR 243
Query: 132 ALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDF 172
L + NN +P L++ ++++ L +N + S DF
Sbjct: 244 ELHLN-NNKLVKVPGGLADHKYIQVVYLHNNNISAIGSNDF 283
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 29.3 bits (64), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 27/101 (26%), Positives = 51/101 (50%), Gaps = 10/101 (9%)
Query: 76 GLLRNLVDLNVGENRFSGMFPRSICNISSLEWIYLPFNRFS----GSLPLDIAVNLPNLK 131
GL +L +L++ N+ + + S+ +++L + L FN S GSL N P+L+
Sbjct: 189 GLPPSLTELHLDGNKITKVDAASLKGLNNLAKLGLSFNSISAVDNGSL-----ANTPHLR 243
Query: 132 ALAIGGNNFFGSIPNSLSNASNLEILDLTSNQLKGKVSIDF 172
L + NN +P L++ ++++ L +N + S DF
Sbjct: 244 ELHLN-NNKLVKVPGGLADHKYIQVVYLHNNNISAIGSNDF 283
>pdb|2O6R|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B61
Length = 177
Score = 28.9 bits (63), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 62/132 (46%), Gaps = 13/132 (9%)
Query: 143 SIPNSL-SNASNLEILDLTSNQLKGKVSIDFSSLKNLSWLNLEQNNLGMGTANDLDFVTF 201
S+P + S+A+ LE L SN+L+ F L L+ L+L QN + D +T
Sbjct: 21 SVPTGIPSSATRLE---LESNKLQSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTK 77
Query: 202 LTNCSSLKVISLYANQFGGELPHSIANLSSTMTDFRIGANQISGTIPPGI-RNLVNLIAL 260
LT ++ L+ N+ LP+ + + + + + + NQ+ ++P GI L +L +
Sbjct: 78 LT------ILYLHENKLQS-LPNGVFDKLTQLKELALDTNQLK-SVPDGIFDRLTSLQKI 129
Query: 261 TMEINKLHGTIP 272
+ N + P
Sbjct: 130 WLHTNPWDCSCP 141
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 28.9 bits (63), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 38/141 (26%), Positives = 57/141 (40%), Gaps = 33/141 (23%)
Query: 27 IGSLLNLQTLAIDFNYLTGQLPDFVGNLSALKVFYIIGNSLGGKIPTTLGLLRNLVDLNV 86
+ L NLQ L +D N +T P L L NL L++
Sbjct: 125 LAGLSNLQVLYLDLNQITNISP--------------------------LAGLTNLQYLSI 158
Query: 87 GENRFSGMFPRSICNISSLEWIYLPFNRFSGSLPLDIAVNLPNLKALAIGGNNFFGSIPN 146
G + S + P + N+S L + N+ S PL +LPNL + + N P
Sbjct: 159 GNAQVSDLTP--LANLSKLTTLKADDNKISDISPL---ASLPNLIEVHLKNNQISDVSP- 212
Query: 147 SLSNASNLEILDLTSNQLKGK 167
L+N SNL I+ LT+ + +
Sbjct: 213 -LANTSNLFIVTLTNQTITNQ 232
>pdb|1FO1|A Chain A, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
pdb|1FO1|B Chain B, Crystal Structure Of The Rna-Binding Domain Of The Mrna
Export Factor Tap
Length = 271
Score = 28.9 bits (63), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 21/68 (30%), Positives = 36/68 (52%), Gaps = 2/68 (2%)
Query: 123 IAVNLPNLKALAIGGNNFF--GSIPNSLSNASNLEILDLTSNQLKGKVSIDFSSLKNLSW 180
I N+P L +L + N + + + + A NL+IL+L+ N+LK + +D L
Sbjct: 159 IEENIPELLSLNLSNNRLYRLDDMSSIVQKAPNLKILNLSGNELKSERELDKIKGLKLEE 218
Query: 181 LNLEQNNL 188
L L+ N+L
Sbjct: 219 LWLDGNSL 226
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
0.319 0.136 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,735,611
Number of Sequences: 62578
Number of extensions: 643246
Number of successful extensions: 1838
Number of sequences better than 100.0: 110
Number of HSP's better than 100.0 without gapping: 48
Number of HSP's successfully gapped in prelim test: 62
Number of HSP's that attempted gapping in prelim test: 1197
Number of HSP's gapped (non-prelim): 419
length of query: 659
length of database: 14,973,337
effective HSP length: 105
effective length of query: 554
effective length of database: 8,402,647
effective search space: 4655066438
effective search space used: 4655066438
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 55 (25.8 bits)