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= 042446
(445 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 = 155 bits (391), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 134/395 (33%), Positives = 186/395 (47%), Gaps = 21/395 (5%)
Query: 57 RHRRVIALDLMSKALSGSLSPHIGNLSF-LREINLMDNTIQGEIPPEFGRLFR--LEALF 113
+ R + LDL SG L + NLS L ++L N G I P + + L+ L+
Sbjct: 338 KMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELY 397
Query: 114 LANNSLVGKIPANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISP 173
L NN GKIP LS CS L L L N L G+IP L KL+ L L N L G I
Sbjct: 398 LQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQ 457
Query: 174 FLGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFS 233
L + LE + L +N G IP L L +++ N L+G+IP I L L
Sbjct: 458 ELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILK 517
Query: 234 VSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFS 293
+S N G++P+ LG + +L + ++ N F G+IP ++ S +IA N +GK
Sbjct: 518 LSNNSFSGNIPAELG-DCRSLIWLDLNTNLFNGTIPAAMFKQSG----KIAANFIAGKRY 572
Query: 294 VNF--GGMKNLSHLILQSSNLGSGESDEMGFINS--LANCSKLRVLSFGRNQFRGVLPHS 349
V GMK H G+G E I S L S + + G +
Sbjct: 573 VYIKNDGMKKECH--------GAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPT 624
Query: 350 ITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLD 409
N + + L + +N L G IP IG++ L++L + N G+IP E+G L L LD
Sbjct: 625 FDN-NGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILD 683
Query: 410 FGGNHFSGKIPSTLGNLSSLSEIVLSNNNLSGVIP 444
N G+IP + L+ L+EI LSNNNLSG IP
Sbjct: 684 LSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIP 718
Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 126/386 (32%), Positives = 188/386 (48%), Gaps = 38/386 (9%)
Query: 64 LDLMSKALSGSLSPHIGNLSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKI 123
LD+ S S + P +G+ S L+ +++ N + G+ L+ L +++N VG I
Sbjct: 202 LDVSSNNFSTGI-PFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPI 260
Query: 124 PANLSYCSRLTVLSLGQNKLVGSIP-FEFVFLYKLKGLSLHKNNLTGGISPFLGNLTFLE 182
P L LSL +NK G IP F L GL L N+ G + PF G+ + LE
Sbjct: 261 PP--LPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLE 318
Query: 183 LVSLSYNSFEGNIP-DSLGQLKELKSLAIGVNNLSGKIPPSICNLSF-LVNFSVSQNQIH 240
++LS N+F G +P D+L +++ LK L + N SG++P S+ NLS L+ +S N
Sbjct: 319 SLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFS 378
Query: 241 GSLPSCLGLNFPN-LKFFQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVNFGGM 299
G + L N N L+ + N FTG IP +LSN S+L + ++ N SG + G +
Sbjct: 379 GPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSL 438
Query: 300 KNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQV 359
SKLR L N G +P + + + L+
Sbjct: 439 ------------------------------SKLRDLKLWLNMLEGEIPQELMYVKT-LET 467
Query: 360 LFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKI 419
L L FN L G IPSG+ N NL +++ N+ G IP+ +G+L NL L N FSG I
Sbjct: 468 LILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNI 527
Query: 420 PSTLGNLSSLSEIVLSNNNLSGVIPS 445
P+ LG+ SL + L+ N +G IP+
Sbjct: 528 PAELGDCRSLIWLDLNTNLFNGTIPA 553
Score = 125 bits (313), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 145/459 (31%), Positives = 216/459 (47%), Gaps = 52/459 (11%)
Query: 22 LQAFKSMIAHDPQRILNSWNDSRHFCEWDGVTCGRRHRRVIALDLMSKALSGSLSP---- 77
L +FK ++ + +L W+ +++ C +DGVTC R +V ++DL SK L+ S
Sbjct: 14 LISFKDVLPD--KNLLPDWSSNKNPCTFDGVTC--RDDKVTSIDLSSKPLNVGFSAVSSS 69
Query: 78 ---------------HI-GNLS------FLREINLMDNTIQGEIP--PEFGRLFRLEALF 113
HI G++S L ++L N++ G + G L+ L
Sbjct: 70 LLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLN 129
Query: 114 LANNSL--VGKIPANLSYCSRLTVLSLGQNKLVGSIPFEFVF---LYKLKGLSLHKNNLT 168
+++N+L GK+ L S L VL L N + G+ +V +LK L++ N ++
Sbjct: 130 VSSNTLDFPGKVSGGLKLNS-LEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKIS 188
Query: 169 GGISPFLGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSICNLSF 228
G + + LE + +S N+F IP LG L+ L I N LSG +I +
Sbjct: 189 GDVD--VSRCVNLEFLDVSSNNFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTE 245
Query: 229 LVNFSVSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNA-SKLEVIQIANNS 287
L ++S NQ G +P L +L++ + +N FTG IP LS A L + ++ N
Sbjct: 246 LKLLNISSNQFVGPIPP---LPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNH 302
Query: 288 FSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLP 347
F G FG L L L S+N SGE +++L L+VL N+F G LP
Sbjct: 303 FYGAVPPFFGSCSLLESLALSSNNF-SGELP----MDTLLKMRGLKVLDLSFNEFSGELP 357
Query: 348 HSITNLSSQLQVLFLGFNQLYGSI-PSGIGNLVN-LYLLAMEQNQFIGTIPQEMGKLLNL 405
S+TNLS+ L L L N G I P+ N N L L ++ N F G IP + L
Sbjct: 358 ESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSEL 417
Query: 406 QGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNNNLSGVIP 444
L N+ SG IPS+LG+LS L ++ L N L G IP
Sbjct: 418 VSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIP 456
>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 = 154 bits (390), Expect = 6e-38, Method: Compositional matrix adjust.
Identities = 134/395 (33%), Positives = 186/395 (47%), Gaps = 21/395 (5%)
Query: 57 RHRRVIALDLMSKALSGSLSPHIGNLSF-LREINLMDNTIQGEIPPEFGRLFR--LEALF 113
+ R + LDL SG L + NLS L ++L N G I P + + L+ L+
Sbjct: 341 KMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELY 400
Query: 114 LANNSLVGKIPANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISP 173
L NN GKIP LS CS L L L N L G+IP L KL+ L L N L G I
Sbjct: 401 LQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIPQ 460
Query: 174 FLGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFS 233
L + LE + L +N G IP L L +++ N L+G+IP I L L
Sbjct: 461 ELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILK 520
Query: 234 VSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFS 293
+S N G++P+ LG + +L + ++ N F G+IP ++ S +IA N +GK
Sbjct: 521 LSNNSFSGNIPAELG-DCRSLIWLDLNTNLFNGTIPAAMFKQSG----KIAANFIAGKRY 575
Query: 294 VNF--GGMKNLSHLILQSSNLGSGESDEMGFINS--LANCSKLRVLSFGRNQFRGVLPHS 349
V GMK H G+G E I S L S + + G +
Sbjct: 576 VYIKNDGMKKECH--------GAGNLLEFQGIRSEQLNRLSTRNPCNITSRVYGGHTSPT 627
Query: 350 ITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLD 409
N + + L + +N L G IP IG++ L++L + N G+IP E+G L L LD
Sbjct: 628 FDN-NGSMMFLDMSYNMLSGYIPKEIGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILD 686
Query: 410 FGGNHFSGKIPSTLGNLSSLSEIVLSNNNLSGVIP 444
N G+IP + L+ L+EI LSNNNLSG IP
Sbjct: 687 LSSNKLDGRIPQAMSALTMLTEIDLSNNNLSGPIP 721
Score = 150 bits (378), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 126/386 (32%), Positives = 188/386 (48%), Gaps = 38/386 (9%)
Query: 64 LDLMSKALSGSLSPHIGNLSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKI 123
LD+ S S + P +G+ S L+ +++ N + G+ L+ L +++N VG I
Sbjct: 205 LDVSSNNFSTGI-PFLGDCSALQHLDISGNKLSGDFSRAISTCTELKLLNISSNQFVGPI 263
Query: 124 PANLSYCSRLTVLSLGQNKLVGSIP-FEFVFLYKLKGLSLHKNNLTGGISPFLGNLTFLE 182
P L LSL +NK G IP F L GL L N+ G + PF G+ + LE
Sbjct: 264 PP--LPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNHFYGAVPPFFGSCSLLE 321
Query: 183 LVSLSYNSFEGNIP-DSLGQLKELKSLAIGVNNLSGKIPPSICNLSF-LVNFSVSQNQIH 240
++LS N+F G +P D+L +++ LK L + N SG++P S+ NLS L+ +S N
Sbjct: 322 SLALSSNNFSGELPMDTLLKMRGLKVLDLSFNEFSGELPESLTNLSASLLTLDLSSNNFS 381
Query: 241 GSLPSCLGLNFPN-LKFFQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVNFGGM 299
G + L N N L+ + N FTG IP +LSN S+L + ++ N SG + G +
Sbjct: 382 GPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSL 441
Query: 300 KNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQV 359
SKLR L N G +P + + + L+
Sbjct: 442 ------------------------------SKLRDLKLWLNMLEGEIPQELMYVKT-LET 470
Query: 360 LFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKI 419
L L FN L G IPSG+ N NL +++ N+ G IP+ +G+L NL L N FSG I
Sbjct: 471 LILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENLAILKLSNNSFSGNI 530
Query: 420 PSTLGNLSSLSEIVLSNNNLSGVIPS 445
P+ LG+ SL + L+ N +G IP+
Sbjct: 531 PAELGDCRSLIWLDLNTNLFNGTIPA 556
Score = 125 bits (313), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 145/459 (31%), Positives = 216/459 (47%), Gaps = 52/459 (11%)
Query: 22 LQAFKSMIAHDPQRILNSWNDSRHFCEWDGVTCGRRHRRVIALDLMSKALSGSLSP---- 77
L +FK ++ + +L W+ +++ C +DGVTC R +V ++DL SK L+ S
Sbjct: 17 LISFKDVLPD--KNLLPDWSSNKNPCTFDGVTC--RDDKVTSIDLSSKPLNVGFSAVSSS 72
Query: 78 ---------------HI-GNLS------FLREINLMDNTIQGEIP--PEFGRLFRLEALF 113
HI G++S L ++L N++ G + G L+ L
Sbjct: 73 LLSLTGLESLFLSNSHINGSVSGFKCSASLTSLDLSRNSLSGPVTTLTSLGSCSGLKFLN 132
Query: 114 LANNSL--VGKIPANLSYCSRLTVLSLGQNKLVGSIPFEFVF---LYKLKGLSLHKNNLT 168
+++N+L GK+ L S L VL L N + G+ +V +LK L++ N ++
Sbjct: 133 VSSNTLDFPGKVSGGLKLNS-LEVLDLSANSISGANVVGWVLSDGCGELKHLAISGNKIS 191
Query: 169 GGISPFLGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSICNLSF 228
G + + LE + +S N+F IP LG L+ L I N LSG +I +
Sbjct: 192 GDVD--VSRCVNLEFLDVSSNNFSTGIP-FLGDCSALQHLDISGNKLSGDFSRAISTCTE 248
Query: 229 LVNFSVSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNA-SKLEVIQIANNS 287
L ++S NQ G +P L +L++ + +N FTG IP LS A L + ++ N
Sbjct: 249 LKLLNISSNQFVGPIPP---LPLKSLQYLSLAENKFTGEIPDFLSGACDTLTGLDLSGNH 305
Query: 288 FSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLP 347
F G FG L L L S+N SGE +++L L+VL N+F G LP
Sbjct: 306 FYGAVPPFFGSCSLLESLALSSNNF-SGELP----MDTLLKMRGLKVLDLSFNEFSGELP 360
Query: 348 HSITNLSSQLQVLFLGFNQLYGSI-PSGIGNLVN-LYLLAMEQNQFIGTIPQEMGKLLNL 405
S+TNLS+ L L L N G I P+ N N L L ++ N F G IP + L
Sbjct: 361 ESLTNLSASLLTLDLSSNNFSGPILPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSEL 420
Query: 406 QGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNNNLSGVIP 444
L N+ SG IPS+LG+LS L ++ L N L G IP
Sbjct: 421 VSLHLSFNYLSGTIPSSLGSLSKLRDLKLWLNMLEGEIP 459
>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 = 94.0 bits (232), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 77/232 (33%), Positives = 110/232 (47%), Gaps = 10/232 (4%)
Query: 165 NNLTGGISPFLGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSIC 224
NNL G I P + LT L + +++ + G IPD L Q+K L +L N LSG +PPSI
Sbjct: 87 NNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQIKTLVTLDFSYNALSGTLPPSIS 146
Query: 225 NLSFLVNFSVSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNASKLEVIQIA 284
+L LV + N+I G++P G I +N TG IP + +N + L + ++
Sbjct: 147 SLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRNRLTGKIPPTFANLN-LAFVDLS 205
Query: 285 NNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRG 344
N G SV FG KN + L ++L ++G + N L L N+ G
Sbjct: 206 RNMLEGDASVLFGSDKNTQKIHLAKNSLAF----DLGKVGLSKN---LNGLDLRNNRIYG 258
Query: 345 VLPHSITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIP 396
LP +T L L L + FN L G IP G GNL + A N+ + P
Sbjct: 259 TLPQGLTQLKF-LHSLNVSFNNLCGEIPQG-GNLQRFDVSAYANNKCLCGSP 308
Score = 67.0 bits (162), Expect = 2e-11, Method: Compositional matrix adjust.
Identities = 83/308 (26%), Positives = 127/308 (41%), Gaps = 52/308 (16%)
Query: 18 DRAALQAFKSMIAHDPQRILNSWNDSRHFC--EWDGVTCGRRHR--RVIALDL----MSK 69
D+ AL K + + L+SW + C W GV C + RV LDL + K
Sbjct: 7 DKQALLQIKKDLGN--PTTLSSWLPTTDCCNRTWLGVLCDTDTQTYRVNNLDLSGLNLPK 64
Query: 70 A-----------------------LSGSLSPHIGNLSFLREINLMDNTIQGEIPPEFGRL 106
L G + P I L+ L + + + G IP ++
Sbjct: 65 PYPIPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLSQI 124
Query: 107 FRLEALFLANNSLVGKIPANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKL-KGLSLHKN 165
L L + N+L G +P ++S L ++ N++ G+IP + KL +++ +N
Sbjct: 125 KTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRN 184
Query: 166 NLTGGISPFLGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLS---GKIPPS 222
LTG I P NL L V LS N EG+ G K + + + N+L+ GK+
Sbjct: 185 RLTGKIPPTFANLN-LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGKV--- 240
Query: 223 ICNLSFLVN-FSVSQNQIHGSLPSCLGLNFPNLKFFQ---IDQNFFTGSIPVSLSNASKL 278
LS +N + N+I+G+LP L LKF + N G IP N +
Sbjct: 241 --GLSKNLNGLDLRNNRIYGTLPQGLT----QLKFLHSLNVSFNNLCGEIPQG-GNLQRF 293
Query: 279 EVIQIANN 286
+V ANN
Sbjct: 294 DVSAYANN 301
Score = 65.5 bits (158), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 68/251 (27%), Positives = 100/251 (39%), Gaps = 34/251 (13%)
Query: 195 IPDSLGQLKELKSLAIG-VNNLSGKIPPSICNLSFLVNFSVSQNQIHGSLPSCLGLNFPN 253
IP SL L L L IG +NNL G IPP+I L+ L ++ + G++P L
Sbjct: 68 IPSSLANLPYLNFLYIGGINNLVGPIPPAIAKLTQLHYLYITHTNVSGAIPDFLS-QIKT 126
Query: 254 LKFFQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLG 313
L N +G++P S+S+ L I N SG ++G L
Sbjct: 127 LVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKL----------- 175
Query: 314 SGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPS 373
++ RN+ G +P + NL+ L + L N L G
Sbjct: 176 ------------------FTSMTISRNRLTGKIPPTFANLN--LAFVDLSRNMLEGDASV 215
Query: 374 GIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSEIV 433
G+ N + + +N + ++G NL GLD N G +P L L L +
Sbjct: 216 LFGSDKNTQKIHLAKNSLAFDL-GKVGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLN 274
Query: 434 LSNNNLSGVIP 444
+S NNL G IP
Sbjct: 275 VSFNNLCGEIP 285
Score = 65.5 bits (158), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 64/193 (33%), Positives = 91/193 (47%), Gaps = 10/193 (5%)
Query: 59 RRVIALDLMSKALSGSLSPHIGNLSFLREINLMDNTIQGEIPPEFGRLFRL-EALFLANN 117
+ ++ LD ALSG+L P I +L L I N I G IP +G +L ++ ++ N
Sbjct: 125 KTLVTLDFSYNALSGTLPPSISSLPNLVGITFDGNRISGAIPDSYGSFSKLFTSMTISRN 184
Query: 118 SLVGKIP---ANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPF 174
L GKIP ANL+ L + L +N L G F + + L KN+L +
Sbjct: 185 RLTGKIPPTFANLN----LAFVDLSRNMLEGDASVLFGSDKNTQKIHLAKNSLAFDLGK- 239
Query: 175 LGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFSV 234
+G L + L N G +P L QLK L SL + NNL G+IP F V+
Sbjct: 240 VGLSKNLNGLDLRNNRIYGTLPQGLTQLKFLHSLNVSFNNLCGEIPQGGNLQRFDVSAYA 299
Query: 235 SQNQIHGS-LPSC 246
+ + GS LP+C
Sbjct: 300 NNKCLCGSPLPAC 312
>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 = 63.5 bits (153), Expect = 2e-10, Method: Compositional matrix adjust.
Identities = 92/308 (29%), Positives = 138/308 (44%), Gaps = 33/308 (10%)
Query: 106 LFRLEALFLANNSLVGKIPANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKN 165
L LE L L N + P LS +LT L +G NK+ + L L+ L L+++
Sbjct: 65 LTNLEYLNLNGNQITDISP--LSNLVKLTNLYIGTNKITDISALQN--LTNLRELYLNED 120
Query: 166 NLTGGISPFLGNLTFLELVSLSYNSFEGNIPD--SLGQLKELKSLAIGVNNLSGKIPPSI 223
N++ ISP L NLT ++L N N+ D L L L + + + P I
Sbjct: 121 NISD-ISP-LANLTKXYSLNLGANH---NLSDLSPLSNXTGLNYLTVTESKVKDVTP--I 173
Query: 224 CNLSFLVNFSVSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNASKLEVIQI 283
NL+ L + S++ NQI P + +L +F N T PV+ N ++L ++I
Sbjct: 174 ANLTDLYSLSLNYNQIEDISPLA---SLTSLHYFTAYVNQITDITPVA--NXTRLNSLKI 228
Query: 284 ANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGRNQFR 343
NN + + + NLS L L G ++++ IN++ + +KL+ L+ G NQ
Sbjct: 229 GNNKIT-----DLSPLANLSQLTW----LEIG-TNQISDINAVKDLTKLKXLNVGSNQIS 278
Query: 344 GVLPHSITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLL 403
+ S+ N SQL LFL NQL IG L NL L + QN P + L
Sbjct: 279 DI---SVLNNLSQLNSLFLNNNQLGNEDXEVIGGLTNLTTLFLSQNHITDIRP--LASLS 333
Query: 404 NLQGLDFG 411
DF
Sbjct: 334 KXDSADFA 341
Score = 35.4 bits (80), Expect = 0.069, Method: Compositional matrix adjust.
Identities = 48/175 (27%), Positives = 76/175 (43%), Gaps = 29/175 (16%)
Query: 288 FSGKFSVNFGGMKNLSHLILQSSNLG----SGESDEMGFINSLANCSKLRVLSFGRNQFR 343
+ +S+N G NLS L S+ G + ++ + +AN + L LS NQ
Sbjct: 131 LTKXYSLNLGANHNLSDLSPLSNXTGLNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIE 190
Query: 344 GVLP--------------HSITNLS-----SQLQVLFLGFNQLYGSIPSGIGNLVNLYLL 384
+ P + IT+++ ++L L +G N++ P + NL L L
Sbjct: 191 DISPLASLTSLHYFTAYVNQITDITPVANXTRLNSLKIGNNKITDLSP--LANLSQLTWL 248
Query: 385 AMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNNNL 439
+ NQ I I + L L+ L+ G N S S L NLS L+ + L+NN L
Sbjct: 249 EIGTNQ-ISDI-NAVKDLTKLKXLNVGSNQISDI--SVLNNLSQLNSLFLNNNQL 299
Score = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 24/71 (33%), Positives = 35/71 (49%), Gaps = 4/71 (5%)
Query: 374 GIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSEIV 433
GI L NL L + NQ P + L+ L L G N + S L NL++L E+
Sbjct: 61 GIEYLTNLEYLNLNGNQITDISP--LSNLVKLTNLYIGTNKITDI--SALQNLTNLRELY 116
Query: 434 LSNNNLSGVIP 444
L+ +N+S + P
Sbjct: 117 LNEDNISDISP 127
>pdb|1DS9|A Chain A, Solution Structure Of Chlamydomonas Outer Arm Dynein Light
Chain 1
Length = 198
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 60/125 (48%), Gaps = 15/125 (12%)
Query: 291 KFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSI 350
K +K HL L ++N+ I+SL+ LR+LS GRN + + ++
Sbjct: 39 KMDATLSTLKACKHLALSTNNIEK--------ISSLSGMENLRILSLGRNLIKKI--ENL 88
Query: 351 TNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFI--GTIPQEMGKLLNLQGL 408
++ L+ L++ +NQ+ SGI LVNL +L M N+ G I + + L L+ L
Sbjct: 89 DAVADTLEELWISYNQIAS--LSGIEKLVNLRVLYMSNNKITNWGEIDK-LAALDKLEDL 145
Query: 409 DFGGN 413
GN
Sbjct: 146 LLAGN 150
>pdb|1M9L|A Chain A, Relaxation-Based Refined Structure Of Chlamydomonas Outer
Arm Dynein Light Chain 1
Length = 199
Score = 47.8 bits (112), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 37/125 (29%), Positives = 60/125 (48%), Gaps = 15/125 (12%)
Query: 291 KFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSI 350
K +K HL L ++N+ I+SL+ LR+LS GRN + + ++
Sbjct: 40 KMDATLSTLKACKHLALSTNNIEK--------ISSLSGMENLRILSLGRNLIKKI--ENL 89
Query: 351 TNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFI--GTIPQEMGKLLNLQGL 408
++ L+ L++ +NQ+ SGI LVNL +L M N+ G I + + L L+ L
Sbjct: 90 DAVADTLEELWISYNQIAS--LSGIEKLVNLRVLYMSNNKITNWGEIDK-LAALDKLEDL 146
Query: 409 DFGGN 413
GN
Sbjct: 147 LLAGN 151
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 36/114 (31%), Positives = 53/114 (46%), Gaps = 3/114 (2%)
Query: 330 SKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGI-GNLVNLYLLAMEQ 388
+KLR+L N+ + LP I L+ L++ N+L ++P G+ LVNL L +++
Sbjct: 61 TKLRLLYLNDNKLQ-TLPAGIFKELKNLETLWVTDNKLQ-ALPIGVFDQLVNLAELRLDR 118
Query: 389 NQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNNNLSGV 442
NQ P+ L L L G N L+SL E+ L NN L V
Sbjct: 119 NQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKELRLYNNQLKRV 172
Score = 43.9 bits (102), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 51/158 (32%), Positives = 70/158 (44%), Gaps = 3/158 (1%)
Query: 64 LDLMSKALSGSLSPHIGNLSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKI 123
LDL S LS S L+ LR + L DN +Q F L LE L++ +N L
Sbjct: 42 LDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKLQALP 101
Query: 124 PANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPFLGNLTFLEL 183
L L L +N+L P F L KL LSL N L LT L+
Sbjct: 102 IGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGVFDKLTSLKE 161
Query: 184 VSLSYNSFEGNIPD-SLGQLKELKSLAIGVNNLSGKIP 220
+ L YN+ +P+ + +L ELK+L + N L ++P
Sbjct: 162 LRL-YNNQLKRVPEGAFDKLTELKTLKLDNNQLK-RVP 197
Score = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 42/160 (26%), Positives = 74/160 (46%), Gaps = 12/160 (7%)
Query: 276 SKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVL 335
+KL ++ + +N + F +KNL L + + L ++ +G + L N ++LR
Sbjct: 61 TKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKL---QALPIGVFDQLVNLAELR-- 115
Query: 336 SFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGI-GNLVNLYLLAMEQNQFIGT 394
RNQ + + P +L+ +L L LG+N+L S+P G+ L +L L + NQ
Sbjct: 116 -LDRNQLKSLPPRVFDSLT-KLTYLSLGYNELQ-SLPKGVFDKLTSLKELRLYNNQLKRV 172
Query: 395 IPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSEIVL 434
KL L+ L N ++P G SL ++ +
Sbjct: 173 PEGAFDKLTELKTLKLDNNQLK-RVPE--GAFDSLEKLKM 209
Score = 36.2 bits (82), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 41/129 (31%), Positives = 55/129 (42%), Gaps = 5/129 (3%)
Query: 82 LSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLSLGQN 141
L L + + DN +Q F +L L L L N L P ++LT LSLG N
Sbjct: 84 LKNLETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYN 143
Query: 142 KLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSYNSFEGNIP----D 197
+L F L LK L L+ N L LT L+ + L N + +P D
Sbjct: 144 ELQSLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLK-RVPEGAFD 202
Query: 198 SLGQLKELK 206
SL +LK L+
Sbjct: 203 SLEKLKMLQ 211
Score = 32.0 bits (71), Expect = 0.78, Method: Compositional matrix adjust.
Identities = 48/189 (25%), Positives = 82/189 (43%), Gaps = 7/189 (3%)
Query: 123 IPANLSYCSRLTVLSLGQNKLVGSIPFE-FVFLYKLKGLSLHKNNLTGGISPFLGNLTFL 181
IP+N+ ++ L L NKL S+P + F L KL+ L L+ N L + L L
Sbjct: 31 IPSNIPADTK--KLDLQSNKL-SSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNL 87
Query: 182 ELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSICN-LSFLVNFSVSQNQIH 240
E + ++ N + QL L L + N L +PP + + L+ L S+ N++
Sbjct: 88 ETLWVTDNKLQALPIGVFDQLVNLAELRLDRNQLKS-LPPRVFDSLTKLTYLSLGYNELQ 146
Query: 241 GSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVNFGGMK 300
SLP + +LK ++ N + ++L+ +++ NN F ++
Sbjct: 147 -SLPKGVFDKLTSLKELRLYNNQLKRVPEGAFDKLTELKTLKLDNNQLKRVPEGAFDSLE 205
Query: 301 NLSHLILQS 309
L L LQ
Sbjct: 206 KLKMLQLQE 214
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 44.3 bits (103), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 108/429 (25%), Positives = 157/429 (36%), Gaps = 76/429 (17%)
Query: 79 IGNLSFLREINLMDNTIQG-EIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVL- 136
IG+L L+E+N+ N IQ ++P F L LE L L++N + YC+ L VL
Sbjct: 120 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS------IYCTDLRVLH 173
Query: 137 ---SLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPF------LGNLTFLELVSLS 187
L + + P F+ K + LHK L + L LE+ L
Sbjct: 174 QMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLV 233
Query: 188 YNSF--EGNIPD-SLGQLKELKSLAIG-----------------VNNLSGKIPPSICNLS 227
F EGN+ L+ L +L I N L+ S+ +++
Sbjct: 234 LGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVT 293
Query: 228 F--LVNFSVSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFT---GSIPVSLSNASKLEVIQ 282
+ +FS + H L +C FP LK + + FT G S + LE +
Sbjct: 294 IERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLD 353
Query: 283 IANNSFSGK-------------------------FSVNFGGMKNLSHLILQSSNLGSGES 317
++ N S K S NF G++ L HL Q SNL +
Sbjct: 354 LSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNL--KQM 411
Query: 318 DEMGFINSLANCSKLRV-LSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGS-IPSGI 375
E SL N L + + R F G+ N S L+VL + N + +P
Sbjct: 412 SEFSVFLSLRNLIYLDISHTHTRVAFNGIF-----NGLSSLEVLKMAGNSFQENFLPDIF 466
Query: 376 GNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSEIVLS 435
L NL L + Q Q P L +LQ L+ N L+SL +I L
Sbjct: 467 TELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMASNQLKSVPDGIFDRLTSLQKIWLH 526
Query: 436 NNNLSGVIP 444
N P
Sbjct: 527 TNPWDCSCP 535
>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 = 42.7 bits (99), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 117/447 (26%), Positives = 163/447 (36%), Gaps = 95/447 (21%)
Query: 79 IGNLSFLREINLMDNTIQG-EIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVL- 136
IG+L L+E+N+ N IQ ++P F L LE L L++N + YC+ L VL
Sbjct: 144 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS------IYCTDLRVLH 197
Query: 137 ---SLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPF------LGNLTFLELVSLS 187
L + + P F+ K + LHK L + L LE+ L
Sbjct: 198 QMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLV 257
Query: 188 YNSF--EGNIP-------DSLGQLK-ELKSLAIGVNNLSGKIPPSIC------------N 225
F EGN+ + L L E LA L G I C
Sbjct: 258 LGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDGIIDLFNCLTNVSSFSLVSVT 317
Query: 226 LSFLVNFSVSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFT---GSIPVSLSNASKLEVIQ 282
+ + +FS + H L +C FP LK + + FT G S + LE +
Sbjct: 318 IERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLD 377
Query: 283 IANNSFSGK-------------------------FSVNFGGMKNLSHLILQSSNLG---- 313
++ N S K S NF G++ L HL Q SNL
Sbjct: 378 LSRNGLSFKGCCSQSDFGTISLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSE 437
Query: 314 ---------------SGESDEMGFINSLANCSKLRVLSFGRNQFR-GVLPHSITNLSSQL 357
S + F S L VL N F+ LP T L + L
Sbjct: 438 FSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRN-L 496
Query: 358 QVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQF--IGTIPQEMGKLLN-LQGLDFGGNH 414
L L QL P+ +L +L +L M N F + T P K LN LQ LD+ NH
Sbjct: 497 TFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPY---KCLNSLQVLDYSLNH 553
Query: 415 FSGKIPSTLGNL-SSLSEIVLSNNNLS 440
L + SSL+ + L+ N+ +
Sbjct: 554 IMTSKKQELQHFPSSLAFLNLTQNDFA 580
>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 = 41.6 bits (96), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 115/447 (25%), Positives = 166/447 (37%), Gaps = 95/447 (21%)
Query: 79 IGNLSFLREINLMDNTIQG-EIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVL- 136
IG+L L+E+N+ N IQ ++P F L LE L L++N + YC+ L VL
Sbjct: 120 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS------IYCTDLRVLH 173
Query: 137 ---SLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPF------LGNLTFLELVSLS 187
L + + P F+ K + LHK L + L LE+ L
Sbjct: 174 QMPLLNLSLDLSLNPMNFIQPGAFKEIRLHKLTLRNNFDSLNVMKTCIQGLAGLEVHRLV 233
Query: 188 YNSF--EGNIPD-SLGQLKELKSLAIG-----------------VNNLSGKIPPSICNLS 227
F EGN+ L+ L +L I N L+ S+ +++
Sbjct: 234 LGEFRNEGNLEKFDKSALEGLCNLTIEEFRLAYLDYYLDDIIDLFNCLTNVSSFSLVSVT 293
Query: 228 F--LVNFSVSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFT---GSIPVSLSNASKLEVIQ 282
+ +FS + H L +C FP LK + + FT G S + LE +
Sbjct: 294 IERVKDFSYNFGWQHLELVNCKFGQFPTLKLKSLKRLTFTSNKGGNAFSEVDLPSLEFLD 353
Query: 283 IANNSFSGK-------------------------FSVNFGGMKNLSHLILQSSNLG---- 313
++ N S K S NF G++ L HL Q SNL
Sbjct: 354 LSRNGLSFKGCCSQSDFGTTSLKYLDLSFNGVITMSSNFLGLEQLEHLDFQHSNLKQMSE 413
Query: 314 ---------------SGESDEMGFINSLANCSKLRVLSFGRNQFR-GVLPHSITNLSSQL 357
S + F S L VL N F+ LP T L + L
Sbjct: 414 FSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQENFLPDIFTELRN-L 472
Query: 358 QVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQF--IGTIPQEMGKLLN-LQGLDFGGNH 414
L L QL P+ +L +L +L M N F + T P K LN LQ LD+ NH
Sbjct: 473 TFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSLDTFPY---KCLNSLQVLDYSLNH 529
Query: 415 FSGKIPSTLGNL-SSLSEIVLSNNNLS 440
L + SSL+ + L+ N+ +
Sbjct: 530 IMTSKKQELQHFPSSLAFLNLTQNDFA 556
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 40.8 bits (94), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 44/141 (31%), Positives = 68/141 (48%), Gaps = 11/141 (7%)
Query: 299 MKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQ 358
+ NL++LIL + L S + G + L N L+ L NQ + LP + + + L
Sbjct: 84 LTNLTYLILTGNQLQSLPN---GVFDKLTN---LKELVLVENQLQS-LPDGVFDKLTNLT 136
Query: 359 VLFLGFNQLYGSIPSGI-GNLVNLYLLAMEQNQFIGTIPQEM-GKLLNLQGLDFGGNHFS 416
L+L NQL S+P G+ L NL L ++ NQ + ++P+ + KL L+ L N
Sbjct: 137 YLYLYHNQL-QSLPKGVFDKLTNLTRLDLDNNQ-LQSLPEGVFDKLTQLKQLSLNDNQLK 194
Query: 417 GKIPSTLGNLSSLSEIVLSNN 437
L+SL+ I L NN
Sbjct: 195 SVPDGVFDRLTSLTHIWLLNN 215
Score = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 50/194 (25%), Positives = 79/194 (40%), Gaps = 12/194 (6%)
Query: 251 FPNLKFFQ-IDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQS 309
FP+ F + I N S+ +++ + QI N+ K + N+ +L L
Sbjct: 13 FPDDAFAETIKANLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGG 72
Query: 310 SNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYG 369
+ L I++L + L L NQ + LP+ + + + L+ L L NQL
Sbjct: 73 NKLHD--------ISALKELTNLTYLILTGNQLQS-LPNGVFDKLTNLKELVLVENQL-Q 122
Query: 370 SIPSGI-GNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSS 428
S+P G+ L NL L + NQ KL NL LD N L+
Sbjct: 123 SLPDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLTQ 182
Query: 429 LSEIVLSNNNLSGV 442
L ++ L++N L V
Sbjct: 183 LKQLSLNDNQLKSV 196
Score = 33.9 bits (76), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 39/120 (32%), Positives = 56/120 (46%), Gaps = 4/120 (3%)
Query: 82 LSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLSLGQN 141
L+ L+E+ L++N +Q F +L L L+L +N L + LT L L N
Sbjct: 108 LTNLKELVLVENQLQSLPDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNN 167
Query: 142 KLVGSIPFEFVF--LYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSYNSFEGNIPDSL 199
+L S+P E VF L +LK LSL+ N L LT L + L N ++ D L
Sbjct: 168 QL-QSLP-EGVFDKLTQLKQLSLNDNQLKSVPDGVFDRLTSLTHIWLLNNPWDCACSDIL 225
>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 = 40.0 bits (92), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 47/146 (32%), Positives = 65/146 (44%), Gaps = 5/146 (3%)
Query: 64 LDLMSKALSGSLSPHIGNLSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKI 123
LDL S L+ L+ L +NL N +Q F L L L LANN L
Sbjct: 40 LDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLP 99
Query: 124 PANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPFLGNLTFLEL 183
+ ++L L LG N+L F L KLK L L+ N L + LT L+
Sbjct: 100 LGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQT 159
Query: 184 VSLSYNSFEGNIP----DSLGQLKEL 205
+SLS N + ++P D LG+L+ +
Sbjct: 160 LSLSTNQLQ-SVPHGAFDRLGKLQTI 184
Score = 36.6 bits (83), Expect = 0.030, Method: Compositional matrix adjust.
Identities = 47/175 (26%), Positives = 68/175 (38%), Gaps = 17/175 (9%)
Query: 267 SIPVSLSNASKLEVIQIANNSFSGKFSVNFGGMKNLSHLIL---QSSNLGSGESDEMGFI 323
S+P + + E + + + + F G+ L+ L L Q L +G D++
Sbjct: 28 SVPSGI--PADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDL--- 82
Query: 324 NSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGI-GNLVNLY 382
++L L NQ LP + + +QL L+LG NQL S+PSG+ L L
Sbjct: 83 ------TELGTLGLANNQL-ASLPLGVFDHLTQLDKLYLGGNQLK-SLPSGVFDRLTKLK 134
Query: 383 LLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNN 437
L + NQ KL NLQ L N L L I L N
Sbjct: 135 ELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLFGN 189
>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 = 0.002, Method: Compositional matrix adjust.
Identities = 47/146 (32%), Positives = 65/146 (44%), Gaps = 5/146 (3%)
Query: 64 LDLMSKALSGSLSPHIGNLSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKI 123
LDL S L+ L+ L +NL N +Q F L L L LANN L
Sbjct: 40 LDLQSTGLATLSDATFRGLTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLANNQLASLP 99
Query: 124 PANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPFLGNLTFLEL 183
+ ++L L LG N+L F L KLK L L+ N L + LT L+
Sbjct: 100 LGVFDHLTQLDKLYLGGNQLKSLPSGVFDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQT 159
Query: 184 VSLSYNSFEGNIP----DSLGQLKEL 205
+SLS N + ++P D LG+L+ +
Sbjct: 160 LSLSTNQLQ-SVPHGAFDRLGKLQTI 184
Score = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 46/172 (26%), Positives = 68/172 (39%), Gaps = 11/172 (6%)
Query: 267 SIPVSLSNASKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSL 326
S+P + + E + + + + F G+ L+ L L + L ++ G + L
Sbjct: 28 SVPSGI--PADTEKLDLQSTGLATLSDATFRGLTKLTWLNLDYNQL---QTLSAGVFDDL 82
Query: 327 ANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGI-GNLVNLYLLA 385
++L L NQ LP + + +QL L+LG NQL S+PSG+ L L L
Sbjct: 83 ---TELGTLGLANNQL-ASLPLGVFDHLTQLDKLYLGGNQLK-SLPSGVFDRLTKLKELR 137
Query: 386 MEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNN 437
+ NQ KL NLQ L N L L I L N
Sbjct: 138 LNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITLFGN 189
>pdb|2R9U|A Chain A, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|B Chain B, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|C Chain C, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
pdb|2R9U|D Chain D, Crystal Structure Of Lamprey Variable Lymphocyte Receptor
2913 Ectodomain
Length = 174
Score = 39.7 bits (91), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 35/125 (28%), Positives = 47/125 (37%), Gaps = 12/125 (9%)
Query: 313 GSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIP 372
+G + +L NC +R+ S +P I + Q L+L NQ+ P
Sbjct: 3 SAGCPSQCSCDQTLVNCQNIRLAS---------VPAGI---PTDKQRLWLNNNQITKLEP 50
Query: 373 SGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSEI 432
+LVNL L N+ KL L LD NH NL SL+ I
Sbjct: 51 GVFDHLVNLQQLYFNSNKLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKSLTHI 110
Query: 433 VLSNN 437
L NN
Sbjct: 111 YLYNN 115
Score = 31.6 bits (70), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 23/85 (27%), Positives = 37/85 (43%), Gaps = 2/85 (2%)
Query: 358 QVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSG 417
Q L N S+P+GI + L + NQ P L+NLQ L F N +
Sbjct: 14 QTLVNCQNIRLASVPAGIP--TDKQRLWLNNNQITKLEPGVFDHLVNLQQLYFNSNKLTA 71
Query: 418 KIPSTLGNLSSLSEIVLSNNNLSGV 442
L+ L+++ L++N+L +
Sbjct: 72 IPTGVFDKLTQLTQLDLNDNHLKSI 96
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 38.9 bits (89), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 41/120 (34%), Positives = 56/120 (46%), Gaps = 7/120 (5%)
Query: 319 EMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGI-GN 377
E G +SL N L+ L G NQ G LP + + +QL VL LG NQL +PS +
Sbjct: 56 EPGVFDSLIN---LKELYLGSNQL-GALPVGVFDSLTQLTVLDLGTNQL-TVLPSAVFDR 110
Query: 378 LVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNN 437
LV+L L M N+ +P+ + +L +L L N LSSL+ L N
Sbjct: 111 LVHLKELFMCCNKLT-ELPRGIERLTHLTHLALDQNQLKSIPHGAFDRLSSLTHAYLFGN 169
Score = 34.7 bits (78), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 41/120 (34%), Positives = 56/120 (46%), Gaps = 6/120 (5%)
Query: 90 LMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANL-SYCSRLTVLSLGQNKLVGSIP 148
L DN I P F L L+ L+L +N L G +P + ++LTVL LG N+L
Sbjct: 47 LHDNQITKLEPGVFDSLINLKELYLGSNQL-GALPVGVFDSLTQLTVLDLGTNQLTVLPS 105
Query: 149 FEFVFLYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSL 208
F L LK L + N LT + + LT L ++L N + +IP G L SL
Sbjct: 106 AVFDRLVHLKELFMCCNKLT-ELPRGIERLTHLTHLALDQNQLK-SIPH--GAFDRLSSL 161
Score = 31.6 bits (70), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 25/89 (28%), Positives = 41/89 (46%), Gaps = 2/89 (2%)
Query: 353 LSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEM-GKLLNLQGLDFG 411
+ + Q+L+L NQ+ P +L+NL L + NQ +G +P + L L LD G
Sbjct: 38 IPTNAQILYLHDNQITKLEPGVFDSLINLKELYLGSNQ-LGALPVGVFDSLTQLTVLDLG 96
Query: 412 GNHFSGKIPSTLGNLSSLSEIVLSNNNLS 440
N + + L L E+ + N L+
Sbjct: 97 TNQLTVLPSAVFDRLVHLKELFMCCNKLT 125
>pdb|1W8A|A Chain A, Third Lrr Domain Of Drosophila Slit
Length = 192
Score = 38.9 bits (89), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 45/93 (48%)
Query: 103 FGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSL 162
FGRL L L L N L G P S + L LG+NK+ F+ L++LK L+L
Sbjct: 50 FGRLPHLVKLELKRNQLTGIEPNAFEGASHIQELQLGENKIKEISNKMFLGLHQLKTLNL 109
Query: 163 HKNNLTGGISPFLGNLTFLELVSLSYNSFEGNI 195
+ N ++ + +L L ++L+ N F N
Sbjct: 110 YDNQISCVMPGSFEHLNSLTSLNLASNPFNCNC 142
>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 = 38.1 bits (87), Expect = 0.010, Method: Compositional matrix adjust.
Identities = 38/117 (32%), Positives = 56/117 (47%), Gaps = 4/117 (3%)
Query: 82 LSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLSLGQN 141
L+ L+E+ L++N +Q F +L L L LA+N L + LT L L N
Sbjct: 108 LTNLKELVLVENQLQSLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYN 167
Query: 142 KLVGSIPFEFVF--LYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSYNSFEGNIP 196
+L S+P E VF L +LK L L++N L LT L+ + L N ++ P
Sbjct: 168 QL-QSLP-EGVFDKLTQLKDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCP 222
Score = 37.4 bits (85), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 50/194 (25%), Positives = 77/194 (39%), Gaps = 12/194 (6%)
Query: 251 FPNLKFFQ-IDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQS 309
FP+ F + I N S+ +++ + QI N+ K + N+ +L L
Sbjct: 13 FPDDAFAETIKANLKKKSVTDAVTQNELNSIDQIIANNSDIKSVQGIQYLPNVRYLALGG 72
Query: 310 SNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYG 369
+ L I++L + L L NQ + LP+ + + + L+ L L NQL
Sbjct: 73 NKLHD--------ISALKELTNLTYLILTGNQLQS-LPNGVFDKLTNLKELVLVENQL-Q 122
Query: 370 SIPSGI-GNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSS 428
S+P G+ L NL L + NQ KL NL LD N L+
Sbjct: 123 SLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQ 182
Query: 429 LSEIVLSNNNLSGV 442
L ++ L N L V
Sbjct: 183 LKDLRLYQNQLKSV 196
Score = 36.2 bits (82), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 44/148 (29%), Positives = 66/148 (44%), Gaps = 11/148 (7%)
Query: 299 MKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQ 358
+ NL++LIL + L S + G + L N L+ L NQ + LP + + + L
Sbjct: 84 LTNLTYLILTGNQLQSLPN---GVFDKLTN---LKELVLVENQLQS-LPDGVFDKLTNLT 136
Query: 359 VLFLGFNQLYGSIPSGI-GNLVNLYLLAMEQNQFIGTIPQEM-GKLLNLQGLDFGGNHFS 416
L L NQL S+P G+ L NL L + NQ + ++P+ + KL L+ L N
Sbjct: 137 YLNLAHNQL-QSLPKGVFDKLTNLTELDLSYNQ-LQSLPEGVFDKLTQLKDLRLYQNQLK 194
Query: 417 GKIPSTLGNLSSLSEIVLSNNNLSGVIP 444
L+SL I L +N P
Sbjct: 195 SVPDGVFDRLTSLQYIWLHDNPWDCTCP 222
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 37.4 bits (85), Expect = 0.017, Method: Compositional matrix adjust.
Identities = 70/274 (25%), Positives = 111/274 (40%), Gaps = 59/274 (21%)
Query: 103 FGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLS--LGQNKLVGSIPFEFVFLYKLKGL 160
L LE L +++N + +++S ++LT L + N + I L L L
Sbjct: 172 LANLTTLERLDISSNKV-----SDISVLAKLTNLESLIATNNQISDI-TPLGILTNLDEL 225
Query: 161 SLHKNNLTG-GISPFLGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKI 219
SL+ N L G L NLT L+L + N P L L +L L +G N +S
Sbjct: 226 SLNGNQLKDIGTLASLTNLTDLDLAN---NQISNLAP--LSGLTKLTELKLGANQISNIS 280
Query: 220 PPSICNLSFLVNFSVSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNASKLE 279
P + L+ L N +++NQ+ P N NL + + N + PVS + +KL+
Sbjct: 281 P--LAGLTALTNLELNENQLEDISPIS---NLKNLTYLTLYFNNISDISPVS--SLTKLQ 333
Query: 280 VIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGR 339
+ ANN S ++SLAN + + LS G
Sbjct: 334 RLFFANNKVSD--------------------------------VSSLANLTNINWLSAGH 361
Query: 340 NQFRGVLPHSITNLSSQLQVLFLGFN-QLYGSIP 372
NQ + P L++ ++ LG N Q + + P
Sbjct: 362 NQISDLTP-----LANLTRITQLGLNDQAWTNAP 390
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 365 NQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLG 424
NQL P + NL L + M NQ P + L NL GL N + P L
Sbjct: 77 NQLTDITP--LKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQITDIDP--LK 130
Query: 425 NLSSLSEIVLSNNNLSGV 442
NL++L+ + LS+N +S +
Sbjct: 131 NLTNLNRLELSSNTISDI 148
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 37.4 bits (85), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 82/318 (25%), Positives = 129/318 (40%), Gaps = 79/318 (24%)
Query: 79 IGNLSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIP-ANLSYCSRLTVLS 137
+ NL+ L + L NTI +I G L L+ L ++N + P ANL+ RL + S
Sbjct: 125 LKNLTNLNRLELSSNTI-SDISALSG-LTSLQQLSFSSNQVTDLKPLANLTTLERLDISS 182
Query: 138 LGQNKLVGSIPFEFVFLYKLKGLS--LHKNNLTGGISPFLGNLTFLELVSLSYNSFEG-- 193
NK+ + L KL L + NN I+P LG LT L+ +SL+ N +
Sbjct: 183 ---NKV-----SDISVLAKLTNLESLIATNNQISDITP-LGILTNLDELSLNGNQLKDIG 233
Query: 194 ------NIPD------------SLGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFSVS 235
N+ D L L +L L +G N +S P + L+ L N ++
Sbjct: 234 TLASLTNLTDLDLANNQISNLAPLSGLTKLTELKLGANQISNISP--LAGLTALTNLELN 291
Query: 236 QNQIHGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVN 295
+NQ+ P N NL + + N + PVS + +KL+ + +NN S
Sbjct: 292 ENQLEDISPIS---NLKNLTYLTLYFNNISDISPVS--SLTKLQRLFFSNNKVSD----- 341
Query: 296 FGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSS 355
++SLAN + + LS G NQ + P L++
Sbjct: 342 ---------------------------VSSLANLTNINWLSAGHNQISDLTP-----LAN 369
Query: 356 QLQVLFLGFN-QLYGSIP 372
++ LG N Q + + P
Sbjct: 370 LTRITQLGLNDQAWTNAP 387
Score = 31.6 bits (70), Expect = 0.90, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 365 NQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLG 424
NQL P + NL L + M NQ P + L NL GL N + P L
Sbjct: 73 NQLTDITP--LKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQITDIDP--LK 126
Query: 425 NLSSLSEIVLSNNNLSGV 442
NL++L+ + LS+N +S +
Sbjct: 127 NLTNLNRLELSSNTISDI 144
>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 = 37.4 bits (85), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 50/173 (28%), Positives = 76/173 (43%), Gaps = 4/173 (2%)
Query: 85 LREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANL-SYCSRLTVLSLGQNKL 143
L E+ L +N + P F LF L L L +N L IP + + S LT L + +NK+
Sbjct: 58 LEELELNENIVSAVEPGAFNNLFNLRTLGLRSNRL-KLIPLGVFTGLSNLTKLDISENKI 116
Query: 144 VGSIPFEFVFLYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSYNSFEGNIPDSLGQLK 203
V + + F LY LK L + N+L L LE ++L + ++L L
Sbjct: 117 VILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSIPTEALSHLH 176
Query: 204 ELKSLAIGVNNLSGKIPPSICNLSFLVNFSVSQNQIHGSL-PSCL-GLNFPNL 254
L L + N++ S L L +S ++ P+CL GLN +L
Sbjct: 177 GLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHWPYLDTMTPNCLYGLNLTSL 229
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 52/120 (43%), Gaps = 3/120 (2%)
Query: 324 NSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGI-GNLVNLY 382
+ A+ L L N V P + NL + L+ L L N+L IP G+ L NL
Sbjct: 50 DEFASFPHLEELELNENIVSAVEPGAFNNLFN-LRTLGLRSNRL-KLIPLGVFTGLSNLT 107
Query: 383 LLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNNNLSGV 442
L + +N+ + + L NL+ L+ G N L+SL ++ L NL+ +
Sbjct: 108 KLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSI 167
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 31/113 (27%), Positives = 57/113 (50%), Gaps = 10/113 (8%)
Query: 132 RLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPFLG--NLTFLELVSLSYN 189
RL VL + + ++ ++ L LS+ NLT P+L +L +L ++LSYN
Sbjct: 201 RLKVLEISHWPYLDTMTPNCLYGLNLTSLSITHCNLTA--VPYLAVRHLVYLRFLNLSYN 258
Query: 190 ---SFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFSVSQNQI 239
+ EG++ L +L+E++ + L+ P + L++L +VS NQ+
Sbjct: 259 PISTIEGSMLHELLRLQEIQLVG---GQLAVVEPYAFRGLNYLRVLNVSGNQL 308
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 37.0 bits (84), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 74/295 (25%), Positives = 120/295 (40%), Gaps = 61/295 (20%)
Query: 82 LSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLS--LG 139
L+ L+++N N + P L LE L +++N + +++S ++LT L +
Sbjct: 150 LTSLQQLNFSSNQVTDLKP--LANLTTLERLDISSNKV-----SDISVLAKLTNLESLIA 202
Query: 140 QNKLVGSIPFEFVFLYKLKGLSLHKNNLTG-GISPFLGNLTFLELVSLSYNSFEGNIPDS 198
N + I L L LSL+ N L G L NLT L+L + N P
Sbjct: 203 TNNQISDI-TPLGILTNLDELSLNGNQLKDIGTLASLTNLTDLDLAN---NQISNLAP-- 256
Query: 199 LGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFSVSQNQIHGSLPSCLGLNFPNLKFFQ 258
L L +L L +G N +S P + L+ L N +++NQ+ P N NL +
Sbjct: 257 LSGLTKLTELKLGANQISNISP--LAGLTALTNLELNENQLEDISPIS---NLKNLTYLT 311
Query: 259 IDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESD 318
+ N + PVS + +KL+ + NN S
Sbjct: 312 LYFNNISDISPVS--SLTKLQRLFFYNNKVSD---------------------------- 341
Query: 319 EMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFN-QLYGSIP 372
++SLAN + + LS G NQ + P L++ ++ LG N Q + + P
Sbjct: 342 ----VSSLANLTNINWLSAGHNQISDLTP-----LANLTRITQLGLNDQAWTNAP 387
Score = 31.6 bits (70), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 365 NQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLG 424
NQL P + NL L + M NQ P + L NL GL N + P L
Sbjct: 73 NQLTDITP--LKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQITDIDP--LK 126
Query: 425 NLSSLSEIVLSNNNLSGV 442
NL++L+ + LS+N +S +
Sbjct: 127 NLTNLNRLELSSNTISDI 144
>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 = 36.6 bits (83), Expect = 0.033, Method: Compositional matrix adjust.
Identities = 49/184 (26%), Positives = 81/184 (44%), Gaps = 23/184 (12%)
Query: 253 NLKFFQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNL 312
NL ++ N T P L N +K+ ++++ N ++ G++++ L L S+
Sbjct: 70 NLIGLELKDNQITDLTP--LKNLTKITELELSGNPLKNVSAI--AGLQSIKTLDLTST-- 123
Query: 313 GSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHS-ITNLSSQLQVLFLGFNQLYGSI 371
++ + LA S L+VL NQ + P + +TN LQ L +G NQ+
Sbjct: 124 ------QITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTN----LQYLSIGNNQVNDLT 173
Query: 372 PSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSE 431
P + NL L L + N+ P + L NL + N S P L NLS+L
Sbjct: 174 P--LANLSKLTTLRADDNKISDISP--LASLPNLIEVHLKDNQISDVSP--LANLSNLFI 227
Query: 432 IVLS 435
+ L+
Sbjct: 228 VTLT 231
>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 = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 28/68 (41%), Positives = 37/68 (54%), Gaps = 3/68 (4%)
Query: 346 LPHSITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNL 405
LP I NLS+ L+VL L N+L S+P+ +G+ L N + T+P E G L NL
Sbjct: 262 LPAEIKNLSN-LRVLDLSHNRL-TSLPAELGSCFQLKYFYFFDN-MVTTLPWEFGNLCNL 318
Query: 406 QGLDFGGN 413
Q L GN
Sbjct: 319 QFLGVEGN 326
Score = 31.6 bits (70), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 29/84 (34%), Positives = 41/84 (48%), Gaps = 3/84 (3%)
Query: 109 LEALFLANNSLVGKIPANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLT 168
L L+L NSL ++PA + S L VL L N+L S+P E ++LK N +T
Sbjct: 249 LTRLYLNGNSLT-ELPAEIKNLSNLRVLDLSHNRLT-SLPAELGSCFQLKYFYFFDNMVT 306
Query: 169 GGISPFLGNLTFLELVSLSYNSFE 192
F GNL L+ + + N E
Sbjct: 307 TLPWEF-GNLCNLQFLGVEGNPLE 329
>pdb|3ULA|A Chain A, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
pdb|3ULA|C Chain C, Crystal Structure Of The Tv3 Mutant F63w-Md-2-Eritoran
Complex
Length = 279
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 37/128 (28%), Positives = 57/128 (44%), Gaps = 16/128 (12%)
Query: 79 IGNLSFLREINLMDNTIQG-EIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVL- 136
IG+L L+E+N+ N IQ ++P F L LE L L++N + YC+ L VL
Sbjct: 122 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS------IYCTDLRVLH 175
Query: 137 ---SLGQNKLVGSIPFEFV-----FLYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSY 188
L + + P F+ +LK L+L N L LT L+ + L
Sbjct: 176 QMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHT 235
Query: 189 NSFEGNIP 196
N ++ + P
Sbjct: 236 NPWDCSCP 243
>pdb|3UL7|A Chain A, Crystal Structure Of The Tv3 Mutant F63w
Length = 278
Score = 36.2 bits (82), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 37/128 (28%), Positives = 57/128 (44%), Gaps = 16/128 (12%)
Query: 79 IGNLSFLREINLMDNTIQG-EIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVL- 136
IG+L L+E+N+ N IQ ++P F L LE L L++N + YC+ L VL
Sbjct: 121 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS------IYCTDLRVLH 174
Query: 137 ---SLGQNKLVGSIPFEFV-----FLYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSY 188
L + + P F+ +LK L+L N L LT L+ + L
Sbjct: 175 QMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHT 234
Query: 189 NSFEGNIP 196
N ++ + P
Sbjct: 235 NPWDCSCP 242
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 36.2 bits (82), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 87/331 (26%), Positives = 135/331 (40%), Gaps = 61/331 (18%)
Query: 79 IGNLSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLSL 138
+ NL+ L +I LM+N +I P L L L L NN + P L + L L L
Sbjct: 81 LKNLTKLVDI-LMNNNQIADITP-LANLTNLTGLTLFNNQITDIDP--LKNLTNLNRLEL 136
Query: 139 GQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSYNSFEGNIPDS 198
N + S L L+ LS N +T + P L NLT LE + +S N
Sbjct: 137 SSNTI--SDISALSGLTSLQQLSFSSNQVTD-LKP-LANLTTLERLDISSNKVSD--ISV 190
Query: 199 LGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFSVSQNQIH--GSLPSCLGLNFPNLKF 256
L +L L+SL N +S P I L+ L S++ NQ+ G+L S NL
Sbjct: 191 LAKLTNLESLIATNNQISDITPLGI--LTNLDELSLNGNQLKDIGTLAS-----LTNLTD 243
Query: 257 FQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSG-----------KFSVN---------F 296
+ N + P LS +KL +++ N S +N
Sbjct: 244 LDLANNQISNLAP--LSGLTKLTELKLGANQISNISPLAGLTALTNLELNENQLEDISPI 301
Query: 297 GGMKNLSHLILQSSNLGSGE--------------SDEMGFINSLANCSKLRVLSFGRNQF 342
+KNL++L L +N+ ++++ ++SLAN + + LS G NQ
Sbjct: 302 SNLKNLTYLTLYFNNISDISPVSSLTKLQRLFFYNNKVSDVSSLANLTNINWLSAGHNQI 361
Query: 343 RGVLPHSITNLSSQLQVLFLGFN-QLYGSIP 372
+ P L++ ++ LG N Q + + P
Sbjct: 362 SDLTP-----LANLTRITQLGLNDQAWTNAP 387
Score = 31.6 bits (70), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 365 NQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLG 424
NQL P + NL L + M NQ P + L NL GL N + P L
Sbjct: 73 NQLTDITP--LKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQITDIDP--LK 126
Query: 425 NLSSLSEIVLSNNNLSGV 442
NL++L+ + LS+N +S +
Sbjct: 127 NLTNLNRLELSSNTISDI 144
>pdb|2Z62|A Chain A, Crystal Structure Of The Tv3 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
pdb|2Z65|A Chain A, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
pdb|2Z65|B Chain B, Crystal Structure Of The Human Tlr4 Tv3
Hybrid-Md-2-Eritoran Complex
Length = 276
Score = 36.2 bits (82), Expect = 0.039, Method: Compositional matrix adjust.
Identities = 37/128 (28%), Positives = 57/128 (44%), Gaps = 16/128 (12%)
Query: 79 IGNLSFLREINLMDNTIQG-EIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVL- 136
IG+L L+E+N+ N IQ ++P F L LE L L++N + YC+ L VL
Sbjct: 120 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS------IYCTDLRVLH 173
Query: 137 ---SLGQNKLVGSIPFEFV-----FLYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSY 188
L + + P F+ +LK L+L N L LT L+ + L
Sbjct: 174 QMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHT 233
Query: 189 NSFEGNIP 196
N ++ + P
Sbjct: 234 NPWDCSCP 241
>pdb|3UL9|A Chain A, Structure Of The Tv3 Mutant M41e
Length = 278
Score = 36.2 bits (82), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 37/128 (28%), Positives = 57/128 (44%), Gaps = 16/128 (12%)
Query: 79 IGNLSFLREINLMDNTIQG-EIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVL- 136
IG+L L+E+N+ N IQ ++P F L LE L L++N + YC+ L VL
Sbjct: 121 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS------IYCTDLRVLH 174
Query: 137 ---SLGQNKLVGSIPFEFV-----FLYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSY 188
L + + P F+ +LK L+L N L LT L+ + L
Sbjct: 175 QMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHT 234
Query: 189 NSFEGNIP 196
N ++ + P
Sbjct: 235 NPWDCSCP 242
>pdb|3UL8|A Chain A, Crystal Structure Of The Tv3 Mutant V134l
Length = 279
Score = 36.2 bits (82), Expect = 0.040, Method: Compositional matrix adjust.
Identities = 37/128 (28%), Positives = 57/128 (44%), Gaps = 16/128 (12%)
Query: 79 IGNLSFLREINLMDNTIQG-EIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVL- 136
IG+L L+E+N+ N IQ ++P F L LE L L++N + YC+ L VL
Sbjct: 122 IGHLKTLKELNVAHNLIQSFKLPEYFSNLTNLEHLDLSSNKIQS------IYCTDLRVLH 175
Query: 137 ---SLGQNKLVGSIPFEFV-----FLYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSY 188
L + + P F+ +LK L+L N L LT L+ + L
Sbjct: 176 QMPLLNLSLDLSLNPMNFIQPGAFKEIRLKELALDTNQLKSVPDGIFDRLTSLQKIWLHT 235
Query: 189 NSFEGNIP 196
N ++ + P
Sbjct: 236 NPWDCSCP 243
>pdb|3CIG|A Chain A, Crystal Structure Of Mouse Tlr3 Ectodomain
pdb|3CIY|A Chain A, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
pdb|3CIY|B Chain B, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
Length = 697
Score = 35.4 bits (80), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 90/378 (23%), Positives = 152/378 (40%), Gaps = 64/378 (16%)
Query: 79 IGNLSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANLSY---CSRLTV 135
+GN S LR+++L N ++ P F + +L AL L N L + L + + +
Sbjct: 168 LGN-SSLRKLDLSSNPLKEFSPGCFQTIGKLFALLLNNAQLNPHLTEKLCWELSNTSIQN 226
Query: 136 LSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSYNSFEGNI 195
LSL N+L+ + F L NLT + LSYN+
Sbjct: 227 LSLANNQLLATSESTFS--------GLKWTNLTQ--------------LDLSYNNLHDVG 264
Query: 196 PDSLGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFSVSQNQIHGSLPSCLGLNFPNLK 255
S L L+ L++ NN+ P S LS L S+ + S+ + PN+
Sbjct: 265 NGSFSYLPSLRYLSLEYNNIQRLSPRSFYGLSNLRYLSLKRAFTKQSVSLA---SHPNID 321
Query: 256 FFQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSG 315
F S LE + + +N+ S F G+ +L +L L +
Sbjct: 322 DF-------------SFQWLKYLEYLNMDDNNIPSTKSNTFTGLVSLKYLSLSKTFTSLQ 368
Query: 316 ESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQ----LYGSI 371
F+ SLA+ S L L+ +N + + + L QL++L LG N+ L G
Sbjct: 369 TLTNETFV-SLAH-SPLLTLNLTKNHISKIANGTFSWL-GQLRILDLGLNEIEQKLSGQE 425
Query: 372 PSGIGNLVNLYL-------LAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLG 424
G+ N+ +YL L+ + ++ + M + + L+ +D PS
Sbjct: 426 WRGLRNIFEIYLSYNKYLQLSTSSFALVPSLQRLMLRRVALKNVDIS--------PSPFR 477
Query: 425 NLSSLSEIVLSNNNLSGV 442
L +L+ + LSNNN++ +
Sbjct: 478 PLRNLTILDLSNNNIANI 495
Score = 33.5 bits (75), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 33/113 (29%), Positives = 48/113 (42%), Gaps = 1/113 (0%)
Query: 330 SKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQN 389
S + VL+ NQ R + P + T S QL +L GFN + P L L +L ++ N
Sbjct: 25 SNITVLNLTHNQLRRLPPTNFTRYS-QLAILDAGFNSISKLEPELCQILPLLKVLNLQHN 83
Query: 390 QFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNNNLSGV 442
+ Q NL LD N + N +L ++ LS+N LS
Sbjct: 84 ELSQISDQTFVFCTNLTELDLMSNSIHKIKSNPFKNQKNLIKLDLSHNGLSST 136
>pdb|2OMV|A Chain A, Crystal Structure Of Inla S192n Y369s/hec1 Complex
pdb|2OMW|A Chain A, Crystal Structure Of Inla S192n Y369s/mec1 Complex
Length = 461
Score = 35.4 bits (80), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 69/274 (25%), Positives = 111/274 (40%), Gaps = 59/274 (21%)
Query: 103 FGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLS--LGQNKLVGSIPFEFVFLYKLKGL 160
L LE L +++N + +++S ++LT L + N + I L L L
Sbjct: 168 LANLTTLERLDISSNKV-----SDISVLAKLTNLESLIATNNQISDI-TPLGILTNLDEL 221
Query: 161 SLHKNNLTG-GISPFLGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKI 219
SL+ N L G L NLT L+L + N P L L +L L +G N +S
Sbjct: 222 SLNGNQLKDIGTLASLTNLTDLDLAN---NQISNLAP--LSGLTKLTELKLGANQISNIS 276
Query: 220 PPSICNLSFLVNFSVSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNASKLE 279
P + L+ L N +++NQ+ P N NL + + N + PVS + +KL+
Sbjct: 277 P--LAGLTALTNLELNENQLEDISPIS---NLKNLTYLTLYFNNISDISPVS--SLTKLQ 329
Query: 280 VIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGR 339
+ +NN S ++SLAN + + LS G
Sbjct: 330 RLFFSNNKVSD--------------------------------VSSLANLTNINWLSAGH 357
Query: 340 NQFRGVLPHSITNLSSQLQVLFLGFN-QLYGSIP 372
NQ + P L++ ++ LG N Q + + P
Sbjct: 358 NQISDLTP-----LANLTRITQLGLNDQAWTNAP 386
Score = 31.6 bits (70), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 365 NQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLG 424
NQL P + NL L + M NQ P + L NL GL N + P L
Sbjct: 73 NQLTDITP--LKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQITDIDP--LK 126
Query: 425 NLSSLSEIVLSNNNLSGV 442
NL++L+ + LS+N +S +
Sbjct: 127 NLTNLNRLELSSNTISDI 144
>pdb|3ZYI|A Chain A, Netring2 In Complex With Ngl2
Length = 452
Score = 35.4 bits (80), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 67/242 (27%), Positives = 91/242 (37%), Gaps = 44/242 (18%)
Query: 86 REINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLSLGQNKLVG 145
R +NLM+N IQ F L LE L L NS+ + + L L L N L
Sbjct: 78 RYLNLMENNIQMIQADTFRHLHHLEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTV 137
Query: 146 SIPFEFVFLYKLKGLSLHKNNLTGGIS------PFLGNLTFLELVSLSY---NSFEGNIP 196
F +L KL+ L L N + S P L L EL L Y +FEG
Sbjct: 138 IPSGAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEG--- 194
Query: 197 DSLGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFSVSQNQIHGSLPSCLGLNFPNLKF 256
L LK L +G+ N+ K P++ L L +S N FP ++
Sbjct: 195 -----LFNLKYLNLGMCNI--KDMPNLTPLVGLEELEMSGNH------------FPEIR- 234
Query: 257 FQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGE 316
P S S L+ + + N+ S F G+ +L L L +NL S
Sbjct: 235 ------------PGSFHGLSSLKKLWVMNSQVSLIERNAFDGLASLVELNLAHNNLSSLP 282
Query: 317 SD 318
D
Sbjct: 283 HD 284
Score = 33.1 bits (74), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 41/163 (25%), Positives = 69/163 (42%), Gaps = 8/163 (4%)
Query: 278 LEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSF 337
LEV+Q+ NS F G+ +L+ L L + L S ++ SKLR L
Sbjct: 101 LEVLQLGRNSIRQIEVGAFNGLASLNTLELFDNWLTVIPSGAFEYL------SKLRELWL 154
Query: 338 GRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQ 397
N + ++ + S +++ +L L NL L + I +P
Sbjct: 155 RNNPIESIPSYAFNRVPSLMRLDLGELKKLEYISEGAFEGLFNLKYLNLGMCN-IKDMPN 213
Query: 398 EMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNNNLS 440
+ L+ L+ L+ GNHF P + LSSL ++ + N+ +S
Sbjct: 214 -LTPLVGLEELEMSGNHFPEIRPGSFHGLSSLKKLWVMNSQVS 255
>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 = 35.4 bits (80), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 58/211 (27%), Positives = 88/211 (41%), Gaps = 21/211 (9%)
Query: 29 IAHDPQRILNSWNDSRHFCEWDGVTC-GRRHRRVIALDLMSKALSGSLSPHIGN-----L 82
+AH P ILN + E D + G + L+ + + L+G + N L
Sbjct: 388 LAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYL 447
Query: 83 SFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLSLGQNK 142
S+ + + L N+ + P RL L + L N V P+ LT+L L N
Sbjct: 448 SYNKYLQLTRNSFA--LVPSLQRLM-LRRVALKN---VDSSPSPFQPLRNLTILDLSNNN 501
Query: 143 LVGSIPFEFVFLYKLKGLSLHKNNLT--------GGISPFLGNLTFLELVSLSYNSFEGN 194
+ L KL+ L L NNL GG FL L+ L +++L N F+
Sbjct: 502 IANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEI 561
Query: 195 IPDSLGQLKELKSLAIGVNNLSGKIPPSICN 225
+ L ELK + +G+NNL +P S+ N
Sbjct: 562 PVEVFKDLFELKIIDLGLNNL-NTLPASVFN 591
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 35.4 bits (80), Expect = 0.068, Method: Compositional matrix adjust.
Identities = 58/211 (27%), Positives = 88/211 (41%), Gaps = 21/211 (9%)
Query: 29 IAHDPQRILNSWNDSRHFCEWDGVTC-GRRHRRVIALDLMSKALSGSLSPHIGN-----L 82
+AH P ILN + E D + G + L+ + + L+G + N L
Sbjct: 383 LAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYL 442
Query: 83 SFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLSLGQNK 142
S+ + + L N+ + P RL L + L N V P+ LT+L L N
Sbjct: 443 SYNKYLQLTRNSFA--LVPSLQRLM-LRRVALKN---VDSSPSPFQPLRNLTILDLSNNN 496
Query: 143 LVGSIPFEFVFLYKLKGLSLHKNNLT--------GGISPFLGNLTFLELVSLSYNSFEGN 194
+ L KL+ L L NNL GG FL L+ L +++L N F+
Sbjct: 497 IANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEI 556
Query: 195 IPDSLGQLKELKSLAIGVNNLSGKIPPSICN 225
+ L ELK + +G+NNL +P S+ N
Sbjct: 557 PVEVFKDLFELKIIDLGLNNL-NTLPASVFN 586
>pdb|1ZIW|A Chain A, Human Toll-Like Receptor 3 Extracellular Domain Structure
Length = 680
Score = 35.4 bits (80), Expect = 0.073, Method: Compositional matrix adjust.
Identities = 58/211 (27%), Positives = 88/211 (41%), Gaps = 21/211 (9%)
Query: 29 IAHDPQRILNSWNDSRHFCEWDGVTC-GRRHRRVIALDLMSKALSGSLSPHIGN-----L 82
+AH P ILN + E D + G + L+ + + L+G + N L
Sbjct: 378 LAHSPLHILNLTKNKISKIESDAFSWLGHLEVLDLGLNEIGQELTGQEWRGLENIFEIYL 437
Query: 83 SFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLSLGQNK 142
S+ + + L N+ + P RL L + L N V P+ LT+L L N
Sbjct: 438 SYNKYLQLTRNSFA--LVPSLQRLM-LRRVALKN---VDSSPSPFQPLRNLTILDLSNNN 491
Query: 143 LVGSIPFEFVFLYKLKGLSLHKNNLT--------GGISPFLGNLTFLELVSLSYNSFEGN 194
+ L KL+ L L NNL GG FL L+ L +++L N F+
Sbjct: 492 IANINDDMLEGLEKLEILDLQHNNLARLWKHANPGGPIYFLKGLSHLHILNLESNGFDEI 551
Query: 195 IPDSLGQLKELKSLAIGVNNLSGKIPPSICN 225
+ L ELK + +G+NNL +P S+ N
Sbjct: 552 PVEVFKDLFELKIIDLGLNNL-NTLPASVFN 581
>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 = 35.0 bits (79), Expect = 0.088, Method: Compositional matrix adjust.
Identities = 57/185 (30%), Positives = 75/185 (40%), Gaps = 34/185 (18%)
Query: 287 SFSG--KFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANC--------------- 329
SF+G S NF G++ L HL Q SNL + E SL N
Sbjct: 86 SFNGVITMSSNFLGLEQLEHLDFQHSNLK--QMSEFSVFLSLRNLIYLDISHTHTRVAFN 143
Query: 330 ------SKLRVLSFGRNQFR-GVLPHSITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLY 382
S L VL N F+ LP T L + L L L QL P+ +L +L
Sbjct: 144 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRN-LTFLDLSQCQLEQLSPTAFNSLSSLQ 202
Query: 383 LLAMEQNQF--IGTIPQEMGKLLN-LQGLDFGGNHFSGKIPSTLGNL-SSLSEIVLSNNN 438
+L M N F + T P K LN LQ LD+ NH L + SSL+ + L+ N+
Sbjct: 203 VLNMSHNNFFSLDTFPY---KCLNSLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQND 259
Query: 439 LSGVI 443
+
Sbjct: 260 FACTC 264
Score = 31.6 bits (70), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 39/127 (30%), Positives = 55/127 (43%), Gaps = 13/127 (10%)
Query: 276 SKLEVIQIANNSFSGKFSVN-FGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRV 334
S LEV+++A NSF F + F ++NL+ L L L E NSL S L+V
Sbjct: 150 SSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQL---EQLSPTAFNSL---SSLQV 203
Query: 335 LSFGRNQF--RGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGIGNL-VNLYLLAMEQNQF 391
L+ N F P+ N LQVL N + S + + +L L + QN F
Sbjct: 204 LNMSHNNFFSLDTFPYKCLN---SLQVLDYSLNHIMTSKKQELQHFPSSLAFLNLTQNDF 260
Query: 392 IGTIPQE 398
T +
Sbjct: 261 ACTCEHQ 267
>pdb|3RG1|A Chain A, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|E Chain E, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|I Chain I, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|M Chain M, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|B Chain B, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|F Chain F, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|J Chain J, Crystal Structure Of The Rp105MD-1 Complex
pdb|3RG1|N Chain N, Crystal Structure Of The Rp105MD-1 Complex
Length = 612
Score = 35.0 bits (79), Expect = 0.090, Method: Compositional matrix adjust.
Identities = 47/186 (25%), Positives = 80/186 (43%), Gaps = 12/186 (6%)
Query: 175 LGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPS-ICNLSFLVNFS 233
L NL L+ ++LSYN G + + +L+ L + +L K P S NL L +
Sbjct: 371 LKNLRHLQYLNLSYNEPLGLEDQAFKECPQLELLDVAFTHLHVKAPHSPFQNLHLLRVLN 430
Query: 234 VSQNQIHGSLPSCLGLNFPNLKFFQIDQNFF-TGSIPVS--LSNASKLEVIQIANNSFSG 290
+S + S L +L+ + N F GSI + L LE++ +++ +
Sbjct: 431 LSHCLLDTSNQHLLA-GLQDLRHLNLQGNSFQDGSISKTNLLQMVGSLEILILSSCNLLS 489
Query: 291 KFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSI 350
F G++N++HL L ++L D + + L L+ N R + PH +
Sbjct: 490 IDQQAFHGLRNVNHLDLSHNSLTGDSMDALSHLKGL-------YLNMASNNIRIIPPHLL 542
Query: 351 TNLSSQ 356
LS Q
Sbjct: 543 PALSQQ 548
>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 = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 45/159 (28%), Positives = 66/159 (41%), Gaps = 15/159 (9%)
Query: 290 GKFSVNFGGMKNLSHLILQSSNLGS---GESDEMGFINSLANCSKLRVLSFGRNQFRGVL 346
G+ SV G ++L L++++L S G DE+ + L L G N+ + L
Sbjct: 18 GRTSVPTGIPAQTTYLDLETNSLKSLPNGVFDEL---------TSLTQLYLGGNKLQS-L 67
Query: 347 PHSITNLSSQLQVLFLGFNQLYGSIPSGI-GNLVNLYLLAMEQNQFIGTIPQEMGKLLNL 405
P+ + N + L L L NQL S+P+G+ L L LA+ NQ KL L
Sbjct: 68 PNGVFNKLTSLTYLNLSTNQLQ-SLPNGVFDKLTQLKELALNTNQLQSLPDGVFDKLTQL 126
Query: 406 QGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNNNLSGVIP 444
+ L N L+SL I L +N P
Sbjct: 127 KDLRLYQNQLKSVPDGVFDRLTSLQYIWLHDNPWDCTCP 165
Score = 28.9 bits (63), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 45/165 (27%), Positives = 69/165 (41%), Gaps = 15/165 (9%)
Query: 109 LEALFLANNSLVGKIPANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLT 168
+E S+ IPA +Y L L N L F L L L L N L
Sbjct: 12 VECYSQGRTSVPTGIPAQTTY------LDLETNSLKSLPNGVFDELTSLTQLYLGGNKLQ 65
Query: 169 G---GISPFLGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSICN 225
G+ L +LT+L L + S + D L QLKEL A+ N L +P + +
Sbjct: 66 SLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLTQLKEL---ALNTNQLQS-LPDGVFD 121
Query: 226 -LSFLVNFSVSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFTGSIP 269
L+ L + + QNQ+ S+P + +L++ + N + + P
Sbjct: 122 KLTQLKDLRLYQNQLK-SVPDGVFDRLTSLQYIWLHDNPWDCTCP 165
>pdb|1O6S|A Chain A, Internalin (Listeria Monocytogenes) E-Cadherin (Human)
Recognition Complex
pdb|1O6T|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|B Chain B, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
Length = 466
Score = 34.7 bits (78), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 69/274 (25%), Positives = 110/274 (40%), Gaps = 59/274 (21%)
Query: 103 FGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLS--LGQNKLVGSIPFEFVFLYKLKGL 160
L LE L +++N + +++S ++LT L + N + I L L L
Sbjct: 173 LANLTTLERLDISSNKV-----SDISVLAKLTNLESLIATNNQISDI-TPLGILTNLDEL 226
Query: 161 SLHKNNLTG-GISPFLGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKI 219
SL+ N L G L NLT L+L + N P L L +L L +G N +S
Sbjct: 227 SLNGNQLKDIGTLASLTNLTDLDLAN---NQISNLAP--LSGLTKLTELKLGANQISNIS 281
Query: 220 PPSICNLSFLVNFSVSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNASKLE 279
P + L+ L N +++NQ+ P N NL + + N + PVS + +KL+
Sbjct: 282 P--LAGLTALTNLELNENQLEDISPIS---NLKNLTYLTLYFNNISDISPVS--SLTKLQ 334
Query: 280 VIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGR 339
+ NN S ++SLAN + + LS G
Sbjct: 335 RLFFYNNKVSD--------------------------------VSSLANLTNINWLSAGH 362
Query: 340 NQFRGVLPHSITNLSSQLQVLFLGFN-QLYGSIP 372
NQ + P L++ ++ LG N Q + + P
Sbjct: 363 NQISDLTP-----LANLTRITQLGLNDQAWTNAP 391
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 365 NQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLG 424
NQL P + NL L + M NQ P + L NL GL N + P L
Sbjct: 78 NQLTDITP--LKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQITDIDP--LK 131
Query: 425 NLSSLSEIVLSNNNLSGV 442
NL++L+ + LS+N +S +
Sbjct: 132 NLTNLNRLELSSNTISDI 149
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 34.7 bits (78), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 69/274 (25%), Positives = 110/274 (40%), Gaps = 59/274 (21%)
Query: 103 FGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLS--LGQNKLVGSIPFEFVFLYKLKGL 160
L LE L +++N + +++S ++LT L + N + I L L L
Sbjct: 168 LANLTTLERLDISSNKV-----SDISVLAKLTNLESLIATNNQISDI-TPLGILTNLDEL 221
Query: 161 SLHKNNLTG-GISPFLGNLTFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKI 219
SL+ N L G L NLT L+L + N P L L +L L +G N +S
Sbjct: 222 SLNGNQLKDIGTLASLTNLTDLDLAN---NQISNLAP--LSGLTKLTELKLGANQISNIS 276
Query: 220 PPSICNLSFLVNFSVSQNQIHGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNASKLE 279
P + L+ L N +++NQ+ P N NL + + N + PVS + +KL+
Sbjct: 277 P--LAGLTALTNLELNENQLEDISPIS---NLKNLTYLTLYFNNISDISPVS--SLTKLQ 329
Query: 280 VIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGR 339
+ NN S ++SLAN + + LS G
Sbjct: 330 RLFFYNNKVSD--------------------------------VSSLANLTNINWLSAGH 357
Query: 340 NQFRGVLPHSITNLSSQLQVLFLGFN-QLYGSIP 372
NQ + P L++ ++ LG N Q + + P
Sbjct: 358 NQISDLTP-----LANLTRITQLGLNDQAWTNAP 386
Score = 31.6 bits (70), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 26/78 (33%), Positives = 37/78 (47%), Gaps = 6/78 (7%)
Query: 365 NQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLG 424
NQL P + NL L + M NQ P + L NL GL N + P L
Sbjct: 73 NQLTDITP--LKNLTKLVDILMNNNQIADITP--LANLTNLTGLTLFNNQITDIDP--LK 126
Query: 425 NLSSLSEIVLSNNNLSGV 442
NL++L+ + LS+N +S +
Sbjct: 127 NLTNLNRLELSSNTISDI 144
>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 = 34.3 bits (77), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 58/242 (23%), Positives = 106/242 (43%), Gaps = 24/242 (9%)
Query: 64 LDLMSKALSGSLSPHIGNLSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKI 123
LDL + ++ NL L + L++N I P F L +LE L+L+ N L ++
Sbjct: 57 LDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQL-KEL 115
Query: 124 PANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNL-TGGIS--PFLG--NL 178
P + L L + +N++ F L ++ + L N L + GI F G L
Sbjct: 116 PEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKL 173
Query: 179 TFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFSVSQNQ 238
+++ + + + +P SL +L + N ++ S+ L+ L +S N
Sbjct: 174 SYIRIADTNITTIPQGLPPSLTELH------LDGNKITKVDAASLKGLNNLAKLGLSFNS 227
Query: 239 I----HGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSV 294
I +GSL N P+L+ ++ N +P L++ ++V+ + NN+ S S
Sbjct: 228 ISAVDNGSL-----ANTPHLRELHLNNNKLV-KVPGGLADHKYIQVVYLHNNNISAIGSN 281
Query: 295 NF 296
+F
Sbjct: 282 DF 283
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 55/179 (30%), Positives = 71/179 (39%), Gaps = 25/179 (13%)
Query: 86 REINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLSLGQNKLVG 145
R +NL +N IQ F L LE L L+ N + + + L L L N+L
Sbjct: 67 RLLNLHENQIQIIKVNSFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTT 126
Query: 146 SIPFEFVFLYKLKGLSLHKNNLTGGIS------PFLGNLTFLELVSLSY---NSFEG--- 193
FV+L KLK L L N + S P L L EL LSY +FEG
Sbjct: 127 IPNGAFVYLSKLKELWLRNNPIESIPSYAFNRIPSLRRLDLGELKRLSYISEGAFEGLSN 186
Query: 194 ------------NIPDSLGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFSVSQNQIH 240
IP+ L L +L L + N+LS P S L L + Q+QI
Sbjct: 187 LRYLNLAMCNLREIPN-LTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQ 244
Score = 29.6 bits (65), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 42/165 (25%), Positives = 67/165 (40%), Gaps = 12/165 (7%)
Query: 122 KIPANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPFLGNLTFL 181
+IP NL+ +L L L N L P F L L+ L + ++ + NL L
Sbjct: 199 EIP-NLTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSL 257
Query: 182 ELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFSVSQNQIHG 241
++L++N+ D L L+ + + N P CN L ++
Sbjct: 258 VEINLAHNNLTLLPHDLFTPLHHLERIHLHHN-------PWNCNCDILWLSWWIKDMAPS 310
Query: 242 SLPSCLGLNFP-NLK---FFQIDQNFFTGSIPVSLSNASKLEVIQ 282
+ C N P NLK ++DQN+FT PV + + L V +
Sbjct: 311 NTACCARCNTPPNLKGRYIGELDQNYFTCYAPVIVEPPADLNVTE 355
Score = 28.9 bits (63), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 49/195 (25%), Positives = 76/195 (38%), Gaps = 34/195 (17%)
Query: 271 SLSNASKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCS 330
S + LE++Q++ N F G+ NL+ L L + L + + ++ S
Sbjct: 83 SFKHLRHLEILQLSRNHIRTIEIGAFNGLANLNTLELFDNRLTTIPNGAFVYL------S 136
Query: 331 KLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSG-IGNLVNLYLLAMEQN 389
KL+ L N + ++ + S L+ L LG + I G L NL L +
Sbjct: 137 KLKELWLRNNPIESIPSYAFNRIPS-LRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMC 195
Query: 390 QFIGTIPQEMGKLLNLQGLDFGGNHFSGKIP------------------------STLGN 425
+ IP + L+ L LD GNH S P + N
Sbjct: 196 N-LREIPN-LTPLIKLDELDLSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDN 253
Query: 426 LSSLSEIVLSNNNLS 440
L SL EI L++NNL+
Sbjct: 254 LQSLVEINLAHNNLT 268
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 34.3 bits (77), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 58/242 (23%), Positives = 106/242 (43%), Gaps = 24/242 (9%)
Query: 64 LDLMSKALSGSLSPHIGNLSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKI 123
LDL + ++ NL L + L++N I P F L +LE L+L+ N L ++
Sbjct: 57 LDLQNNKITEIKDGDFKNLKNLHTLILINNKISKISPGAFAPLVKLERLYLSKNQL-KEL 115
Query: 124 PANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNL-TGGIS--PFLG--NL 178
P + L L + +N++ F L ++ + L N L + GI F G L
Sbjct: 116 PEKMP--KTLQELRVHENEITKVRKSVFNGLNQMIVVELGTNPLKSSGIENGAFQGMKKL 173
Query: 179 TFLELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFSVSQNQ 238
+++ + + + +P SL +L + N ++ S+ L+ L +S N
Sbjct: 174 SYIRIADTNITTIPQGLPPSLTELH------LDGNKITKVDAASLKGLNNLAKLGLSFNS 227
Query: 239 I----HGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSV 294
I +GSL N P+L+ ++ N +P L++ ++V+ + NN+ S S
Sbjct: 228 ISAVDNGSL-----ANTPHLRELHLNNNKLV-KVPGGLADHKYIQVVYLHNNNISAIGSN 281
Query: 295 NF 296
+F
Sbjct: 282 DF 283
>pdb|2WFH|A Chain A, The Human Slit 2 Dimerization Domain D4
pdb|2WFH|B Chain B, The Human Slit 2 Dimerization Domain D4
Length = 193
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 36/110 (32%), Positives = 48/110 (43%), Gaps = 8/110 (7%)
Query: 259 IDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESD 318
+D N FT +P LSN L +I ++NN S + +F M L LIL + L
Sbjct: 38 LDGNQFT-LVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPPR 96
Query: 319 EMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLY 368
+ S LR+LS N V+P N S L L +G N LY
Sbjct: 97 TFDGLKS------LRLLSLHGNDI-SVVPEGAFNDLSALSHLAIGANPLY 139
Score = 31.2 bits (69), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 26/98 (26%), Positives = 42/98 (42%), Gaps = 7/98 (7%)
Query: 347 PHSITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQ 406
P T L + ++ G L IP + LYL + NQF +P+E+ +L
Sbjct: 5 PTECTCLDTVVRCSNKGLKVLPKGIPRDV---TELYL---DGNQFT-LVPKELSNYKHLT 57
Query: 407 GLDFGGNHFSGKIPSTLGNLSSLSEIVLSNNNLSGVIP 444
+D N S + N++ L ++LS N L + P
Sbjct: 58 LIDLSNNRISTLSNQSFSNMTQLLTLILSYNRLRCIPP 95
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 34.3 bits (77), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 53/164 (32%), Positives = 70/164 (42%), Gaps = 21/164 (12%)
Query: 86 REINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPAN-LSYCSRLTVLSLGQNKLV 144
R +NL +N+IQ F L LE L L+ N LV KI + L L L N+L
Sbjct: 38 RYLNLQENSIQVIRTDTFKHLRHLEILQLSKN-LVRKIEVGAFNGLPSLNTLELFDNRLT 96
Query: 145 GSIPFEFVFLYKLKGLSLHKNNLTGGIS------PFLGNLTFLELVSLSYNS---FEGNI 195
F +L KL+ L L N + S P L L EL L Y S FEG
Sbjct: 97 TVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEAAFEG-- 154
Query: 196 PDSLGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFSVSQNQI 239
L L+ L +G+ NL K P++ L L +S N++
Sbjct: 155 ------LVNLRYLNLGMCNL--KDIPNLTALVRLEELELSGNRL 190
>pdb|3ZYN|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
pdb|3ZYN|B Chain B, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
Length = 321
Score = 34.3 bits (77), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 53/164 (32%), Positives = 70/164 (42%), Gaps = 21/164 (12%)
Query: 86 REINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPAN-LSYCSRLTVLSLGQNKLV 144
R +NL +N+IQ F L LE L L+ N LV KI + L L L N+L
Sbjct: 38 RYLNLQENSIQVIRTDTFKHLRHLEILQLSKN-LVRKIEVGAFNGLPSLNTLELFDNRLT 96
Query: 145 GSIPFEFVFLYKLKGLSLHKNNLTGGIS------PFLGNLTFLELVSLSYNS---FEGNI 195
F +L KL+ L L N + S P L L EL L Y S FEG
Sbjct: 97 TVPTQAFEYLSKLRELWLRNNPIESIPSYAFNRVPSLRRLDLGELKRLEYISEAAFEG-- 154
Query: 196 PDSLGQLKELKSLAIGVNNLSGKIPPSICNLSFLVNFSVSQNQI 239
L L+ L +G+ NL K P++ L L +S N++
Sbjct: 155 ------LVNLRYLNLGMCNL--KDIPNLTALVRLEELELSGNRL 190
>pdb|2O6R|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B61
Length = 177
Score = 33.9 bits (76), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 27/94 (28%), Positives = 42/94 (44%)
Query: 103 FGRLFRLEALFLANNSLVGKIPANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSL 162
F +L +L L L+ N + ++LT+L L +NKL F L +LK L+L
Sbjct: 48 FDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELAL 107
Query: 163 HKNNLTGGISPFLGNLTFLELVSLSYNSFEGNIP 196
N L LT L+ + L N ++ + P
Sbjct: 108 DTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP 141
Score = 32.7 bits (73), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 28/100 (28%), Positives = 41/100 (41%), Gaps = 2/100 (2%)
Query: 346 LPHSITNLSSQLQVLFLGFNQLYGSIPSGI-GNLVNLYLLAMEQNQFIGTIPQEMGKLLN 404
LPH + + +QL L L NQ+ S+P G+ L L +L + +N+ KL
Sbjct: 43 LPHGVFDKLTQLTKLSLSQNQIQ-SLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQ 101
Query: 405 LQGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNNNLSGVIP 444
L+ L N L+SL +I L N P
Sbjct: 102 LKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCSCP 141
Score = 30.8 bits (68), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 27/91 (29%), Positives = 44/91 (48%), Gaps = 2/91 (2%)
Query: 131 SRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSYNS 190
++LT LSL QN++ F L KL L LH+N L + LT L+ ++L N
Sbjct: 52 TQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHENKLQSLPNGVFDKLTQLKELALDTNQ 111
Query: 191 FEGNIPDSL-GQLKELKSLAIGVNNLSGKIP 220
+ ++PD + +L L+ + + N P
Sbjct: 112 LK-SVPDGIFDRLTSLQKIWLHTNPWDCSCP 141
Score = 28.5 bits (62), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 34/89 (38%), Positives = 41/89 (46%), Gaps = 8/89 (8%)
Query: 131 SRLTVLSLGQNKLVGSIPF-EFVFLYKLKGLSLHKN---NLTGGISPFLGNLTFLELVSL 186
S T L L NKL S+P F L +L LSL +N +L G+ L LT L L
Sbjct: 28 SSATRLELESNKL-QSLPHGVFDKLTQLTKLSLSQNQIQSLPDGVFDKLTKLTILYLHEN 86
Query: 187 SYNSFEGNIPDSLGQLKELKSLAIGVNNL 215
S + D L QLKEL A+ N L
Sbjct: 87 KLQSLPNGVFDKLTQLKEL---ALDTNQL 112
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 33.1 bits (74), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 48/189 (25%), Positives = 82/189 (43%), Gaps = 23/189 (12%)
Query: 253 NLKFFQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNL 312
NL ++ N T P L N +K+ ++++ N ++ G++++ L L S+
Sbjct: 64 NLIGLELKDNQITDLAP--LKNLTKITELELSGNPLKNVSAI--AGLQSIKTLDLTST-- 117
Query: 313 GSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHS-ITNLSSQLQVLFLGFNQLYGSI 371
++ + LA S L+VL NQ + P + +TN LQ L +G Q+
Sbjct: 118 ------QITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTN----LQYLSIGNAQVSDLT 167
Query: 372 PSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDFGGNHFSGKIPSTLGNLSSLSE 431
P + NL L L + N+ P + L NL + N S P L N S+L
Sbjct: 168 P--LANLSKLTTLKADDNKISDISP--LASLPNLIEVHLKNNQISDVSP--LANTSNLFI 221
Query: 432 IVLSNNNLS 440
+ L+N ++
Sbjct: 222 VTLTNQTIT 230
>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 = 32.0 bits (71), Expect = 0.62, Method: Compositional matrix adjust.
Identities = 32/117 (27%), Positives = 49/117 (41%), Gaps = 14/117 (11%)
Query: 239 IHGSLPSCLGLNFPNLKFFQIDQNFFTGSIPVSLSNASKLEVIQIANNSFSGKFSVNFGG 298
I LP +NF N K I++ F G AS + I + +N F G
Sbjct: 52 IFKKLPQLRKINFSNNKITDIEEGAFEG--------ASGVNEILLTSNRLENVQHKMFKG 103
Query: 299 MKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVLSFGRNQFRGVLPHSITNLSS 355
+++L L+L+S+ + +D S S +R+LS NQ V P + L S
Sbjct: 104 LESLKTLMLRSNRITCVGND------SFIGLSSVRLLSLYDNQITTVAPGAFDTLHS 154
>pdb|3G3A|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
pdb|3G3A|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor In
Complex With A Protein Antigen
Length = 178
Score = 32.0 bits (71), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 33/87 (37%)
Query: 351 TNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDF 410
T + + QVL+L NQ+ P L L L ++ NQ KL L L
Sbjct: 34 TGIPTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSL 93
Query: 411 GGNHFSGKIPSTLGNLSSLSEIVLSNN 437
N NL SL+ I L NN
Sbjct: 94 NDNQLKSIPRGAFDNLKSLTHIWLLNN 120
Score = 28.1 bits (61), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 26/60 (43%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 90 LMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANL-SYCSRLTVLSLGQNKLVGSIP 148
L DN I P F RL +L L L NN L +PA + ++LT LSL N+L SIP
Sbjct: 45 LYDNQITKLEPGVFDRLTQLTRLDLDNNQLT-VLPAGVFDKLTQLTQLSLNDNQL-KSIP 102
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 32.0 bits (71), Expect = 0.76, Method: Compositional matrix adjust.
Identities = 26/87 (29%), Positives = 33/87 (37%)
Query: 351 TNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDF 410
T + + QVL+L NQ+ P L L L ++ NQ KL L L
Sbjct: 26 TGIPTTTQVLYLYDNQITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSL 85
Query: 411 GGNHFSGKIPSTLGNLSSLSEIVLSNN 437
N NL SL+ I L NN
Sbjct: 86 NDNQLKSIPRGAFDNLKSLTHIWLLNN 112
Score = 28.5 bits (62), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 26/60 (43%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 90 LMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANL-SYCSRLTVLSLGQNKLVGSIP 148
L DN I P F RL +L L L NN L +PA + ++LT LSL N+L SIP
Sbjct: 37 LYDNQITKLEPGVFDRLTQLTRLDLDNNQLT-VLPAGVFDKLTQLTQLSLNDNQL-KSIP 94
>pdb|3G3B|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|C Chain C, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|E Chain E, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
pdb|3G3B|G Chain G, Structure Of A Lamprey Variable Lymphocyte Receptor Mutant
In Complex With A Protein Antigen
Length = 170
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 25/87 (28%), Positives = 33/87 (37%)
Query: 351 TNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGKLLNLQGLDF 410
T + + QVL+L N++ P L L L ++ NQ KL L L
Sbjct: 26 TGIPTTTQVLYLYDNRITKLEPGVFDRLTQLTRLDLDNNQLTVLPAGVFDKLTQLTQLSL 85
Query: 411 GGNHFSGKIPSTLGNLSSLSEIVLSNN 437
N NL SL+ I L NN
Sbjct: 86 NDNQLKSIPRGAFDNLRSLTHIWLLNN 112
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 26/60 (43%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 90 LMDNTIQGEIPPEFGRLFRLEALFLANNSLVGKIPANL-SYCSRLTVLSLGQNKLVGSIP 148
L DN I P F RL +L L L NN L +PA + ++LT LSL N+L SIP
Sbjct: 37 LYDNRITKLEPGVFDRLTQLTRLDLDNNQLT-VLPAGVFDKLTQLTQLSLNDNQL-KSIP 94
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 34/122 (27%), Positives = 60/122 (49%), Gaps = 12/122 (9%)
Query: 73 GSLSPHIGNLSFLREINLMDNT-IQGEIPPEFGRLFRLEALFLANNSLVGKIPANLSYCS 131
GS++P L + + + + T + ++PP R +AL L+ NS+ ++S+ S
Sbjct: 23 GSMTPFSNELESMVDYSNRNLTHVPKDLPP------RTKALSLSQNSISELRMPDISFLS 76
Query: 132 RLTVLSLGQNKLVGSIPFE-FVFLYKLKGLSLHKNNLTGGISPFLGNLTFLELVSLSYNS 190
L VL L N+ + S+ F F+F L+ L + N L + +L L+ LS+N
Sbjct: 77 ELRVLRLSHNR-IRSLDFHVFLFNQDLEYLDVSHNRLQNISCCPMASLRHLD---LSFND 132
Query: 191 FE 192
F+
Sbjct: 133 FD 134
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 30.0 bits (66), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 48/192 (25%), Positives = 76/192 (39%), Gaps = 14/192 (7%)
Query: 64 LDLMSKALSGSLSPHI-GNLSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGK 122
LDL A S+ P L L ++L +Q P F L L+ L+L +N+L
Sbjct: 84 LDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQAL 143
Query: 123 IPANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNLTGGISPFLGNLTFLE 182
LT L L N++ F L+ L L LH+N + +L L
Sbjct: 144 PDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRLM 203
Query: 183 LVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSICNL------SFLVNFSVSQ 236
+ L N+ ++L L+ L+ L + N P +C+ ++L F S
Sbjct: 204 TLYLFANNLSALPTEALAPLRALQYLRLNDN-------PWVCDCRARPLWAWLQKFRGSS 256
Query: 237 NQIHGSLPSCLG 248
+++ SLP L
Sbjct: 257 SEVPCSLPQRLA 268
Score = 29.3 bits (64), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 26/117 (22%), Positives = 48/117 (41%), Gaps = 7/117 (5%)
Query: 276 SKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVL 335
+ L+ + + +N+ F + NL+HL L + + S ++SL L
Sbjct: 128 AALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDR------L 181
Query: 336 SFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFI 392
+N+ V PH+ +L +L L+L N L + L L L + N ++
Sbjct: 182 LLHQNRVAHVHPHAFRDL-GRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWV 237
>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 = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 50/193 (25%), Positives = 79/193 (40%), Gaps = 16/193 (8%)
Query: 64 LDLMSKALSGSLSPHI-GNLSFLREINLMDNTIQGEIPPEFGRLFRLEALFLANNSLVGK 122
LDL A S+ P L L ++L +Q P F L L+ L+L +N+L
Sbjct: 85 LDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLFRGLAALQYLYLQDNALQAL 144
Query: 123 IPANLSYCSRLTVLSLGQNKLVGSIPFE-FVFLYKLKGLSLHKNNLTGGISPFLGNLTFL 181
LT L L N+ + S+P F L+ L L LH+N + +L L
Sbjct: 145 PDDTFRDLGNLTHLFLHGNR-ISSVPERAFRGLHSLDRLLLHQNRVAHVHPHAFRDLGRL 203
Query: 182 ELVSLSYNSFEGNIPDSLGQLKELKSLAIGVNNLSGKIPPSICNL------SFLVNFSVS 235
+ L N+ ++L L+ L+ L + N P +C+ ++L F S
Sbjct: 204 MTLYLFANNLSALPTEALAPLRALQYLRLNDN-------PWVCDCRARPLWAWLQKFRGS 256
Query: 236 QNQIHGSLPSCLG 248
+++ SLP L
Sbjct: 257 SSEVPCSLPQRLA 269
Score = 29.3 bits (64), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 26/117 (22%), Positives = 48/117 (41%), Gaps = 7/117 (5%)
Query: 276 SKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESDEMGFINSLANCSKLRVL 335
+ L+ + + +N+ F + NL+HL L + + S ++SL L
Sbjct: 129 AALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDR------L 182
Query: 336 SFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFI 392
+N+ V PH+ +L +L L+L N L + L L L + N ++
Sbjct: 183 LLHQNRVAHVHPHAFRDL-GRLMTLYLFANNLSALPTEALAPLRALQYLRLNDNPWV 238
>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 = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 45/181 (24%), Positives = 77/181 (42%), Gaps = 26/181 (14%)
Query: 270 VSLSNASKLEVIQIANNSFSGKFSVNFGGMKNLSHLILQSSNLGSGESDE-----MGFIN 324
S + L ++ + +N+ +G + F G+ L L L S N D +G ++
Sbjct: 49 ASFQSCRNLTILWLHSNALAGIDAAAFTGLTLLEQLDL-SDNAQLRVVDPTTFRGLGHLH 107
Query: 325 SLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPS----GIGNLVN 380
+L + + + G FRG+ + LQ L+L N L ++P +GNL +
Sbjct: 108 TL-HLDRCGLQELGPGLFRGL---------AALQYLYLQDNNLQ-ALPDNTFRDLGNLTH 156
Query: 381 LYLLAMEQNQFIGTIPQEMGK-LLNLQGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNNNL 439
L+L I ++P+ + L +L L NH + P +L L + L NNL
Sbjct: 157 LFL----HGNRIPSVPEHAFRGLHSLDRLLLHQNHVARVHPHAFRDLGRLMTLYLFANNL 212
Query: 440 S 440
S
Sbjct: 213 S 213
>pdb|4ECN|A Chain A, Crystal Structure Of A Leucine-Rich Repeat Protein
(Bt_0210) From Bacteroides Thetaiotaomicron Vpi-5482 At
2.80 A Resolution
Length = 876
Score = 30.0 bits (66), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 13/30 (43%), Positives = 23/30 (76%), Gaps = 2/30 (6%)
Query: 192 EGNIPDSLGQLKELKSLAIGVNN--LSGKI 219
+G +PD++GQL ELK L+ G ++ +SG++
Sbjct: 336 KGRVPDAIGQLTELKVLSFGTHSETVSGRL 365
>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 = 30.0 bits (66), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 40/162 (24%), Positives = 69/162 (42%), Gaps = 8/162 (4%)
Query: 287 SFSGKFSVNFGGMKNLSHLILQSSNLGS--GES---DEMGFINSLANCSKLRVLSFGRNQ 341
S + +F G K S ++ S N+GS G + D F S ++ +++
Sbjct: 227 SMAKRFFDAIAGTKIQSLILSNSYNMGSSFGHTNFKDPDNFTFKGLEASGVKTCDLSKSK 286
Query: 342 FRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLLAMEQNQFIGTIPQEMGK 401
+L ++ + L+ L L N++ + L +L L + QN F+G+I M +
Sbjct: 287 IFALLKSVFSHFTD-LEQLTLAQNEINKIDDNAFWGLTHLLKLNLSQN-FLGSIDSRMFE 344
Query: 402 LLN-LQGLDFGGNHFSGKIPSTLGNLSSLSEIVLSNNNLSGV 442
L+ L+ LD NH + L +L E+ L N L V
Sbjct: 345 NLDKLEVLDLSYNHIRALGDQSFLGLPNLKELALDTNQLKSV 386
>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 = 29.6 bits (65), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 26/65 (40%), Positives = 29/65 (44%), Gaps = 5/65 (7%)
Query: 109 LEALFLANNSLVGKIPANLSY-----CSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLH 163
LE LFL N L L + S L VL L N L P F L L+GLSL+
Sbjct: 453 LEQLFLGENMLQLAWETELCWDVFEGLSHLQVLYLNHNYLNSLPPGVFSHLTALRGLSLN 512
Query: 164 KNNLT 168
N LT
Sbjct: 513 SNRLT 517
>pdb|4ECO|A Chain A, Crystal Structure Of A Hypothetical Protein (Bacegg_03329)
From Bacteroides Eggerthii Dsm 20697 At 2.70 A
Resolution
pdb|4ECO|B Chain B, Crystal Structure Of A Hypothetical Protein (Bacegg_03329)
From Bacteroides Eggerthii Dsm 20697 At 2.70 A
Resolution
Length = 636
Score = 28.9 bits (63), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 11/19 (57%), Positives = 16/19 (84%)
Query: 193 GNIPDSLGQLKELKSLAIG 211
G +PD++GQL EL+ LA+G
Sbjct: 95 GRVPDAIGQLTELEVLALG 113
>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 = 28.5 bits (62), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 29/119 (24%), Positives = 51/119 (42%), Gaps = 2/119 (1%)
Query: 325 SLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLL 384
S +N S+L+ L R + + + L L L L N + P L +L L
Sbjct: 51 SFSNFSELQWLDLSRCEIETIEDKAWHGLH-HLSNLILTGNPIQSFSPGSFSGLTSLENL 109
Query: 385 AMEQNQFIGTIPQEMGKLLNLQGLDFGGNHF-SGKIPSTLGNLSSLSEIVLSNNNLSGV 442
+ + +G+L+ L+ L+ N S K+P+ NL++L + LS N + +
Sbjct: 110 VAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTI 168
>pdb|2Z64|A Chain A, Crystal Structure Of Mouse Tlr4 And Mouse Md-2 Complex
Length = 599
Score = 28.5 bits (62), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 29/119 (24%), Positives = 51/119 (42%), Gaps = 2/119 (1%)
Query: 325 SLANCSKLRVLSFGRNQFRGVLPHSITNLSSQLQVLFLGFNQLYGSIPSGIGNLVNLYLL 384
S +N S+L+ L R + + + L L L L N + P L +L L
Sbjct: 46 SFSNFSELQWLDLSRCEIETIEDKAWHGLH-HLSNLILTGNPIQSFSPGSFSGLTSLENL 104
Query: 385 AMEQNQFIGTIPQEMGKLLNLQGLDFGGNHF-SGKIPSTLGNLSSLSEIVLSNNNLSGV 442
+ + +G+L+ L+ L+ N S K+P+ NL++L + LS N + +
Sbjct: 105 VAVETKLASLESFPIGQLITLKKLNVAHNFIHSCKLPAYFSNLTNLVHVDLSYNYIQTI 163
>pdb|1XEU|A Chain A, Crystal Structure Of Internalin C From Listeria
Monocytogenes
Length = 263
Score = 28.5 bits (62), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 25/66 (37%), Positives = 35/66 (53%), Gaps = 6/66 (9%)
Query: 109 LEALFLANNSLVGKIPANLSYCSRLTVLSLGQNKLVGSIPFEFVFLYKLKGLSLHKNNL- 167
L LFL NN L + +L + L +LS+ NKL + FL KL+ L LH N +
Sbjct: 108 LSRLFLDNNEL--RDTDSLIHLKNLEILSIRNNKLKSIVMLG--FLSKLEVLDLHGNEIT 163
Query: 168 -TGGIS 172
TGG++
Sbjct: 164 NTGGLT 169
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.139 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 12,580,821
Number of Sequences: 62578
Number of extensions: 514969
Number of successful extensions: 1607
Number of sequences better than 100.0: 90
Number of HSP's better than 100.0 without gapping: 47
Number of HSP's successfully gapped in prelim test: 43
Number of HSP's that attempted gapping in prelim test: 1051
Number of HSP's gapped (non-prelim): 330
length of query: 445
length of database: 14,973,337
effective HSP length: 102
effective length of query: 343
effective length of database: 8,590,381
effective search space: 2946500683
effective search space used: 2946500683
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)