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= 004573
(744 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 47.4 bits (111), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 43/144 (29%), Positives = 65/144 (45%), Gaps = 10/144 (6%)
Query: 269 RITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNSNLLRLPDSI- 327
++T IPSN P+ L LQ N + +P F LT L++L L+ N L LP I
Sbjct: 27 KLTAIPSNIPAD----TKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNK-LQTLPAGIF 81
Query: 328 SGLINLTALMVHGCFRLRHVPXXXXXXXXXXXDLG---GTEIDVVPQGLEMLAHLTYLDL 384
L NL L V +L+ +P +L + P+ + L LTYL L
Sbjct: 82 KELKNLETLWVTD-NKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSL 140
Query: 385 NWTRILQIPDGMLSNLSRIQHLRL 408
+ + +P G+ L+ ++ LRL
Sbjct: 141 GYNELQSLPKGVFDKLTSLKELRL 164
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 47.0 bits (110), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 59/239 (24%), Positives = 105/239 (43%), Gaps = 43/239 (17%)
Query: 1 MLKERKRYVLILDDVWKRFSLDEVGIPEPTVDNGCKLVLTTRLKEVARS-MGCE-VIPVD 58
ML++ R +LILDDVW + L DN C+++LTTR K V S MG + V+PV+
Sbjct: 231 MLRKHPRSLLILDDVWDPWVL-------KAFDNQCQILLTTRDKSVTDSVMGPKHVVPVE 283
Query: 59 L-LSEDEALRLFSKHVGDYLLRIPTIEPILKQVVEQCAGLPLAIVTVASSMKSEDDVDLW 117
L ++ L + S V ++ + ++++C G PL + + + ++ D + W
Sbjct: 284 SGLGREKGLEILSLFVN---MKKEDLPAEAHSIIKECKGSPLVVSLIGALLR--DFPNRW 338
Query: 118 KNALNEL---------KENSTSVEGMGDEVIPRLKFSYDRLMDPKIKRCFLYCALFPEDF 168
L +L K +S E + + + ++ ++ IK + ++ +D
Sbjct: 339 AYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVE-----MLREDIKDYYTDLSILQKDV 393
Query: 169 DIPKEELIEYWIVEGLIDVMETRQAMHYKGLAILHKLKENCLLESAEDGK--CVKMHDL 225
+P + L W +ET + IL + LL +GK C +HDL
Sbjct: 394 KVPTKVLCVLWD-------LETEEVED-----ILQEFVNKSLLFCNRNGKSFCYYLHDL 440
>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 = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 38/137 (27%), Positives = 68/137 (49%), Gaps = 26/137 (18%)
Query: 284 SLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNSNLLRLPDSI-SGLINLTALMVHGCF 342
+L+ L+L N ++ +P F+ LT LK L L N L LPD + L NLT L
Sbjct: 86 NLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQ-LQSLPDGVFDKLTNLTYL------ 138
Query: 343 RLRHVPXXXXXXXXXXXDLGGTEIDVVPQGL-EMLAHLTYLDLNWTRILQIPDGMLSNLS 401
+L ++ +P+G+ + L +LT LDL++ ++ +P+G+ L+
Sbjct: 139 -----------------NLAHNQLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLT 181
Query: 402 RIQHLRLDRVAFENAED 418
+++ LRL + ++ D
Sbjct: 182 QLKDLRLYQNQLKSVPD 198
>pdb|3IZA|A Chain A, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|B Chain B, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|C Chain C, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|D Chain D, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|E Chain E, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|F Chain F, Structure Of An Apoptosome-Procaspase-9 Card Complex
pdb|3IZA|G Chain G, Structure Of An Apoptosome-Procaspase-9 Card Complex
Length = 1263
Score = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 47/194 (24%), Positives = 92/194 (47%), Gaps = 29/194 (14%)
Query: 1 MLKERKRYVLILDDVWKRFSLDEVGIPEPTVDNGCKLVLTTRLKEVARS-MGCE-VIPVD 58
ML++ R +LILDDVW + L D+ C+++LTTR K V S MG + V+PV+
Sbjct: 237 MLRKHPRSLLILDDVWDSWVL-------KAFDSQCQILLTTRDKSVTDSVMGPKYVVPVE 289
Query: 59 -LLSEDEALRLFSKHVGDYLLRIPTIEPILKQVVEQCAGLPLAIVTVASSMKSEDDVDLW 117
L +++ L + S V ++ + ++++C G PL + + + ++ D + W
Sbjct: 290 SSLGKEKGLEILSLFVN---MKKADLPEQAHSIIKECKGSPLVVSLIGALLR--DFPNRW 344
Query: 118 KNALNEL---------KENSTSVEGMGDEVIPRLKFSYDRLMDPKIKRCFLYCALFPEDF 168
+ L +L K +S E + + + ++ ++ IK + ++ +D
Sbjct: 345 EYYLKQLQNKQFKRIRKSSSYDYEALDEAMSISVE-----MLREDIKDYYTDLSILQKDV 399
Query: 169 DIPKEELIEYWIVE 182
+P + L W +E
Sbjct: 400 KVPTKVLCILWDME 413
>pdb|1Z6T|A Chain A, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|B Chain B, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|C Chain C, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
pdb|1Z6T|D Chain D, Structure Of The Apoptotic Protease-activating Factor 1
Bound To Adp
Length = 591
Score = 46.2 bits (108), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 37/128 (28%), Positives = 68/128 (53%), Gaps = 15/128 (11%)
Query: 1 MLKERKRYVLILDDVWKRFSLDEVGIPEPTVDNGCKLVLTTRLKEVARS-MGCE-VIPVD 58
ML++ R +LILDDVW + L D+ C+++LTTR K V S MG + V+PV+
Sbjct: 231 MLRKHPRSLLILDDVWDSWVL-------KAFDSQCQILLTTRDKSVTDSVMGPKYVVPVE 283
Query: 59 -LLSEDEALRLFSKHVGDYLLRIPTIEPILKQVVEQCAGLPLAIVTVASSMKSEDDVDLW 117
L +++ L + S V ++ + ++++C G PL + + + ++ D + W
Sbjct: 284 SSLGKEKGLEILSLFVN---MKKADLPEQAHSIIKECKGSPLVVSLIGALLR--DFPNRW 338
Query: 118 KNALNELK 125
+ L +L+
Sbjct: 339 EYYLKQLQ 346
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 53/200 (26%), Positives = 81/200 (40%), Gaps = 19/200 (9%)
Query: 242 VEAGKFGALLLEEEWKDDVEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEF 301
+E G F L ++ + L R+T IP N L L L++N IE IP +
Sbjct: 103 IEIGAFNGL-------ANLNTLELFDNRLTTIP-NGAFVYLSKLKELWLRNNPIESIPSY 154
Query: 302 FFEHLTGLKILDLSGNSNLLRLPD-SISGLINLTALMVHGCFRLRHVPXXXXXXXXXXXD 360
F + L+ LDL L + + + GL NL L + C LR +P D
Sbjct: 155 AFNRIPSLRRLDLGELKRLSYISEGAFEGLSNLRYLNLAMC-NLREIPNLTPLIKLDELD 213
Query: 361 LGGTEIDVV-PQGLEMLAHLTYLDLNWTRILQIPDGMLSNLSRIQHLRLDRVAFENAEDI 419
L G + + P + L HL L + ++I I NL + + L A +
Sbjct: 214 LSGNHLSAIRPGSFQGLMHLQKLWMIQSQIQVIERNAFDNLQSLVEINL-------AHNN 266
Query: 420 LRLMKLEIFGVRFDHLQDYH 439
L L+ ++F HL+ H
Sbjct: 267 LTLLPHDLF-TPLHHLERIH 285
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 44.3 bits (103), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 58/239 (24%), Positives = 104/239 (43%), Gaps = 43/239 (17%)
Query: 1 MLKERKRYVLILDDVWKRFSLDEVGIPEPTVDNGCKLVLTTRLKEVARS-MGCE-VIPVD 58
ML++ R +LILDDVW + L DN C+++LTT K V S MG + V+PV+
Sbjct: 238 MLRKHPRSLLILDDVWDPWVL-------KAFDNQCQILLTTSDKSVTDSVMGPKHVVPVE 290
Query: 59 L-LSEDEALRLFSKHVGDYLLRIPTIEPILKQVVEQCAGLPLAIVTVASSMKSEDDVDLW 117
L ++ L + S V ++ + ++++C G PL + + + ++ D + W
Sbjct: 291 SGLGREKGLEILSLFVN---MKKEDLPAEAHSIIKECKGSPLVVSLIGALLR--DFPNRW 345
Query: 118 KNALNEL---------KENSTSVEGMGDEVIPRLKFSYDRLMDPKIKRCFLYCALFPEDF 168
L +L K +S E + + + ++ ++ IK + ++ +D
Sbjct: 346 AYYLRQLQNKQFKRIRKSSSYDYEALDEAMSISVE-----MLREDIKDYYTDLSILQKDV 400
Query: 169 DIPKEELIEYWIVEGLIDVMETRQAMHYKGLAILHKLKENCLLESAEDGK--CVKMHDL 225
+P + L W +ET + IL + LL +GK C +HDL
Sbjct: 401 KVPTKVLCVLWD-------LETEEVED-----ILQEFVNKSLLFCNRNGKSFCYYLHDL 447
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 44.3 bits (103), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 39/126 (30%), Positives = 59/126 (46%), Gaps = 25/126 (19%)
Query: 284 SLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNSNLLRLPDSI-SGLINLTALMVHGCF 342
+L L L N + +P F+ LT L +LDL G + L LP ++ L++L L + C
Sbjct: 65 NLKELYLGSNQLGALPVGVFDSLTQLTVLDL-GTNQLTVLPSAVFDRLVHLKELFM-CCN 122
Query: 343 RLRHVPXXXXXXXXXXXDLGGTEIDVVPQGLEMLAHLTYLDLNWTRILQIPDGMLSNLSR 402
+L TE+ P+G+E L HLT+L L+ ++ IP G LS
Sbjct: 123 KL-------------------TEL---PRGIERLTHLTHLALDQNQLKSIPHGAFDRLSS 160
Query: 403 IQHLRL 408
+ H L
Sbjct: 161 LTHAYL 166
>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 = 43.5 bits (101), Expect = 4e-04, Method: Composition-based stats.
Identities = 38/150 (25%), Positives = 68/150 (45%), Gaps = 30/150 (20%)
Query: 271 TRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNSNLLRLPDSI-SG 329
T +P+ P+ + L L+ N ++ +P F+ LT L L L GN L LP+ + +
Sbjct: 20 TSVPTGIPAQ----TTYLDLETNSLKSLPNGVFDELTSLTQLYLGGN-KLQSLPNGVFNK 74
Query: 330 LINLTALMVHGCFRLRHVPXXXXXXXXXXXDLGGTEIDVVPQGL-EMLAHLTYLDLNWTR 388
L +LT L +L ++ +P G+ + L L L LN +
Sbjct: 75 LTSLTYL-----------------------NLSTNQLQSLPNGVFDKLTQLKELALNTNQ 111
Query: 389 ILQIPDGMLSNLSRIQHLRLDRVAFENAED 418
+ +PDG+ L++++ LRL + ++ D
Sbjct: 112 LQSLPDGVFDKLTQLKDLRLYQNQLKSVPD 141
>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 = 42.4 bits (98), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 56/206 (27%), Positives = 86/206 (41%), Gaps = 18/206 (8%)
Query: 233 ITTGSPRYLVEAGKFGALLLEEEWKDDVEKVSLMRCRITRIPS-NFPSSGCRSLSTLLLQ 291
+TT P+ ++A G +++ L RI+ +P+ +F S CR+L+ L L
Sbjct: 13 VTTSCPQQGLQAVPTGI-------PASSQRIFLHGNRISYVPAASFQS--CRNLTILWLH 63
Query: 292 HNYIEEIPEFFFEHLTGLKILDLSGNSNLLRL-PDSISGLINLTALMVHGCFRLRHVPXX 350
N + I F LT L+ LDLS N+ L + P + GL +L L + C P
Sbjct: 64 SNALAGIDAAAFTGLTLLEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGPGL 123
Query: 351 -XXXXXXXXXDLGGTEIDVVPQG-LEMLAHLTYLDLNWTRILQIPDGMLSNLSRIQHLRL 408
L + +P L +LT+L L+ RI +P+ L + L L
Sbjct: 124 FRGLAALQYLYLQDNNLQALPDNTFRDLGNLTHLFLHGNRIPSVPEHAFRGLHSLDRLLL 183
Query: 409 D-----RVAFENAEDILRLMKLEIFG 429
RV D+ RLM L +F
Sbjct: 184 HQNHVARVHPHAFRDLGRLMTLYLFA 209
>pdb|2V9S|A Chain A, Second Lrr Domain Of Human Slit2
pdb|2V9S|B Chain B, Second Lrr Domain Of Human Slit2
pdb|2V9S|C Chain C, Second Lrr Domain Of Human Slit2
pdb|2V9S|D Chain D, Second Lrr Domain Of Human Slit2
Length = 220
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 25/80 (31%), Positives = 44/80 (55%), Gaps = 7/80 (8%)
Query: 264 SLMRCR---ITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNSNL 320
+++ CR +T IP+N P +++ + L+ N I+ IP F L+ +DLS N
Sbjct: 14 NIVDCRGKGLTEIPTNLP----ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQIS 69
Query: 321 LRLPDSISGLINLTALMVHG 340
PD+ GL +L +L+++G
Sbjct: 70 ELAPDAFQGLRSLNSLVLYG 89
Score = 29.6 bits (65), Expect = 6.0, Method: Composition-based stats.
Identities = 29/82 (35%), Positives = 47/82 (57%), Gaps = 5/82 (6%)
Query: 260 VEKVSLMRCRITRI-PSNFPSSGCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNS 318
+ ++ L +I+ + P F G RSL++L+L N I E+P+ FE L L++L L+ N
Sbjct: 58 LRRIDLSNNQISELAPDAF--QGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANK 115
Query: 319 -NLLRLPDSISGLINLTALMVH 339
N LR+ D+ L NL L ++
Sbjct: 116 INXLRV-DAFQDLHNLNLLSLY 136
>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 = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 42/153 (27%), Positives = 72/153 (47%), Gaps = 27/153 (17%)
Query: 258 DDVEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGN 317
+ +E+++L +C +T IP+ S L L L+H I I ++ F+ L LK+L++S
Sbjct: 152 NSLEQLTLEKCNLTSIPTE-ALSHLHGLIVLRLRHLNINAIRDYSFKRLYRLKVLEISHW 210
Query: 318 SNLLRL-PDSISGLINLTALMVHGCFRLRHVPXXXXXXXXXXXDLGGTEIDVVPQ-GLEM 375
L + P+ + GL NLT+L + C + VP +
Sbjct: 211 PYLDTMTPNCLYGL-NLTSLSITHC-----------------------NLTAVPYLAVRH 246
Query: 376 LAHLTYLDLNWTRILQIPDGMLSNLSRIQHLRL 408
L +L +L+L++ I I ML L R+Q ++L
Sbjct: 247 LVYLRFLNLSYNPISTIEGSMLHELLRLQEIQL 279
>pdb|2V9T|B Chain B, Complex Between The Second Lrr Domain Of Slit2 And The
First Ig Domain From Robo1
Length = 220
Score = 42.0 bits (97), Expect = 0.001, Method: Composition-based stats.
Identities = 25/80 (31%), Positives = 44/80 (55%), Gaps = 7/80 (8%)
Query: 264 SLMRCR---ITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNSNL 320
+++ CR +T IP+N P +++ + L+ N I+ IP F L+ +DLS N
Sbjct: 14 NIVDCRGKGLTEIPTNLP----ETITEIRLEQNTIKVIPPGAFSPYKKLRRIDLSNNQIS 69
Query: 321 LRLPDSISGLINLTALMVHG 340
PD+ GL +L +L+++G
Sbjct: 70 ELAPDAFQGLRSLNSLVLYG 89
Score = 29.6 bits (65), Expect = 6.5, Method: Composition-based stats.
Identities = 29/82 (35%), Positives = 47/82 (57%), Gaps = 5/82 (6%)
Query: 260 VEKVSLMRCRITRI-PSNFPSSGCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNS 318
+ ++ L +I+ + P F G RSL++L+L N I E+P+ FE L L++L L+ N
Sbjct: 58 LRRIDLSNNQISELAPDAF--QGLRSLNSLVLYGNKITELPKSLFEGLFSLQLLLLNANK 115
Query: 319 -NLLRLPDSISGLINLTALMVH 339
N LR+ D+ L NL L ++
Sbjct: 116 INCLRV-DAFQDLHNLNLLSLY 136
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 41.6 bits (96), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/137 (26%), Positives = 66/137 (48%), Gaps = 26/137 (18%)
Query: 284 SLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNSNLLRLPDSI-SGLINLTALMVHGCF 342
+L+ L+L N ++ +P F+ LT LK L L N L LPD + L NLT L ++
Sbjct: 86 NLTYLILTGNQLQSLPNGVFDKLTNLKELVLVENQ-LQSLPDGVFDKLTNLTYLYLYH-- 142
Query: 343 RLRHVPXXXXXXXXXXXDLGGTEIDVVPQGL-EMLAHLTYLDLNWTRILQIPDGMLSNLS 401
++ +P+G+ + L +LT LDL+ ++ +P+G+ L+
Sbjct: 143 ---------------------NQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGVFDKLT 181
Query: 402 RIQHLRLDRVAFENAED 418
+++ L L+ ++ D
Sbjct: 182 QLKQLSLNDNQLKSVPD 198
>pdb|3ZYN|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
pdb|3ZYN|B Chain B, Crystal Structure Of The N-Terminal Leucine Rich Repeats
Of Netrin-G Ligand-3
Length = 321
Score = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 42/170 (24%), Positives = 70/170 (41%), Gaps = 11/170 (6%)
Query: 242 VEAGKFGALLLEEEWKDDVEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEF 301
+E G F L + + L R+T +P+ L L L++N IE IP +
Sbjct: 74 IEVGAFNGL-------PSLNTLELFDNRLTTVPTQ-AFEYLSKLRELWLRNNPIESIPSY 125
Query: 302 FFEHLTGLKILDLSGNSNLLRLPD-SISGLINLTALMVHGCFRLRHVPXXXXXXXXXXXD 360
F + L+ LDL L + + + GL+NL L + C L+ +P +
Sbjct: 126 AFNRVPSLRRLDLGELKRLEYISEAAFEGLVNLRYLNLGMC-NLKDIPNLTALVRLEELE 184
Query: 361 LGGTEIDVV-PQGLEMLAHLTYLDLNWTRILQIPDGMLSNLSRIQHLRLD 409
L G +D++ P + L L L L ++ I +L ++ L L
Sbjct: 185 LSGNRLDLIRPGSFQGLTSLRKLWLMHAQVATIERNAFDDLKSLEELNLS 234
Score = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 62/247 (25%), Positives = 103/247 (41%), Gaps = 26/247 (10%)
Query: 257 KDDVEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSG 316
+ +V R + +P++ P + L LQ N I+ I F+HL L+IL LS
Sbjct: 13 SNQASRVICTRRELAEVPASIPVNT----RYLNLQENSIQVIRTDTFKHLRHLEILQLS- 67
Query: 317 NSNLLRLPD--SISGLINLTALMVHGCFRLRHVPXXXXXXXXXXXDLG--GTEIDVVPQ- 371
NL+R + + +GL +L L + RL VP +L I+ +P
Sbjct: 68 -KNLVRKIEVGAFNGLPSLNTLELFD-NRLTTVPTQAFEYLSKLRELWLRNNPIESIPSY 125
Query: 372 GLEMLAHLTYLDLN-WTRILQIPDGMLSNLSRIQHLRLDRVAFE---NAEDILRLMKLEI 427
+ L LDL R+ I + L +++L L + N ++RL +LE+
Sbjct: 126 AFNRVPSLRRLDLGELKRLEYISEAAFEGLVNLRYLNLGMCNLKDIPNLTALVRLEELEL 185
Query: 428 FGVRFDHLQ--DYHXXXXXXXXXXXXXXXFTVEKNAYTYARGEWDKYVSLVELRICENSV 485
G R D ++ + T+E+NA+ D SL EL + N++
Sbjct: 186 SGNRLDLIRPGSFQGLTSLRKLWLMHAQVATIERNAF-------DDLKSLEELNLSHNNL 238
Query: 486 V-LPRDI 491
+ LP D+
Sbjct: 239 MSLPHDL 245
>pdb|1P8T|A Chain A, Crystal Structure Of Nogo-66 Receptor
Length = 285
Score = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 54/205 (26%), Positives = 84/205 (40%), Gaps = 16/205 (7%)
Query: 233 ITTGSPRYLVEAGKFGALLLEEEWKDDVEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQH 292
+TT P+ ++A G +++ L RI+ +P+ CR+L+ L L
Sbjct: 13 VTTSCPQQGLQAVPVGI-------PAASQRIFLHGNRISHVPAA-SFRACRNLTILWLHS 64
Query: 293 NYIEEIPEFFFEHLTGLKILDLSGNSNLLRL-PDSISGLINLTALMVHGCFRLRHVPXX- 350
N + I F L L+ LDLS N+ L + P + GL L L + C P
Sbjct: 65 NVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLF 124
Query: 351 XXXXXXXXXDLGGTEIDVVP-QGLEMLAHLTYLDLNWTRILQIPDGMLSNLSRIQHLRL- 408
L + +P L +LT+L L+ RI +P+ L + L L
Sbjct: 125 RGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLH 184
Query: 409 -DRVAFENAE---DILRLMKLEIFG 429
+RVA + D+ RLM L +F
Sbjct: 185 QNRVAHVHPHAFRDLGRLMTLYLFA 209
Score = 34.3 bits (77), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 49/172 (28%), Positives = 71/172 (41%), Gaps = 13/172 (7%)
Query: 242 VEAGKFGALLLEEEWKDDVEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEF 301
++A F L L E+ D+ + +R + P+ F G L TL L ++E+
Sbjct: 70 IDAAAFTGLALLEQL--DLSDNAQLR---SVDPATF--HGLGRLHTLHLDRCGLQELGPG 122
Query: 302 FFEHLTGLKILDLSGNSNLLRLPD-SISGLINLTALMVHGCFRLRHVPXXXXXXXXXXXD 360
F L L+ L L N+ L LPD + L NLT L +HG R+ VP
Sbjct: 123 LFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLDR 180
Query: 361 L---GGTEIDVVPQGLEMLAHLTYLDLNWTRILQIPDGMLSNLSRIQHLRLD 409
L V P L L L L + +P L+ L +Q+LRL+
Sbjct: 181 LLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLN 232
>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 = 40.8 bits (94), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 54/205 (26%), Positives = 84/205 (40%), Gaps = 16/205 (7%)
Query: 233 ITTGSPRYLVEAGKFGALLLEEEWKDDVEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQH 292
+TT P+ ++A G +++ L RI+ +P+ CR+L+ L L
Sbjct: 14 VTTSCPQQGLQAVPVGI-------PAASQRIFLHGNRISHVPAA-SFRACRNLTILWLHS 65
Query: 293 NYIEEIPEFFFEHLTGLKILDLSGNSNLLRL-PDSISGLINLTALMVHGCFRLRHVPXX- 350
N + I F L L+ LDLS N+ L + P + GL L L + C P
Sbjct: 66 NVLARIDAAAFTGLALLEQLDLSDNAQLRSVDPATFHGLGRLHTLHLDRCGLQELGPGLF 125
Query: 351 XXXXXXXXXDLGGTEIDVVP-QGLEMLAHLTYLDLNWTRILQIPDGMLSNLSRIQHLRL- 408
L + +P L +LT+L L+ RI +P+ L + L L
Sbjct: 126 RGLAALQYLYLQDNALQALPDDTFRDLGNLTHLFLHGNRISSVPERAFRGLHSLDRLLLH 185
Query: 409 -DRVAFENAE---DILRLMKLEIFG 429
+RVA + D+ RLM L +F
Sbjct: 186 QNRVAHVHPHAFRDLGRLMTLYLFA 210
Score = 33.9 bits (76), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 49/172 (28%), Positives = 71/172 (41%), Gaps = 13/172 (7%)
Query: 242 VEAGKFGALLLEEEWKDDVEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEF 301
++A F L L E+ D+ + +R + P+ F G L TL L ++E+
Sbjct: 71 IDAAAFTGLALLEQL--DLSDNAQLR---SVDPATF--HGLGRLHTLHLDRCGLQELGPG 123
Query: 302 FFEHLTGLKILDLSGNSNLLRLPD-SISGLINLTALMVHGCFRLRHVPXXXXXXXXXXXD 360
F L L+ L L N+ L LPD + L NLT L +HG R+ VP
Sbjct: 124 LFRGLAALQYLYLQDNA-LQALPDDTFRDLGNLTHLFLHG-NRISSVPERAFRGLHSLDR 181
Query: 361 L---GGTEIDVVPQGLEMLAHLTYLDLNWTRILQIPDGMLSNLSRIQHLRLD 409
L V P L L L L + +P L+ L +Q+LRL+
Sbjct: 182 LLLHQNRVAHVHPHAFRDLGRLMTLYLFANNLSALPTEALAPLRALQYLRLN 233
>pdb|3ZYO|A Chain A, Crystal Structure Of The N-Terminal Leucine Rich Repeats
And Immunoglobulin Domain Of Netrin-G Ligand-3
Length = 411
Score = 40.4 bits (93), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 42/171 (24%), Positives = 70/171 (40%), Gaps = 11/171 (6%)
Query: 242 VEAGKFGALLLEEEWKDDVEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEF 301
+E G F L + + L R+T +P+ L L L++N IE IP +
Sbjct: 74 IEVGAFNGL-------PSLNTLELFDNRLTTVPTQ-AFEYLSKLRELWLRNNPIESIPSY 125
Query: 302 FFEHLTGLKILDLSGNSNLLRLPD-SISGLINLTALMVHGCFRLRHVPXXXXXXXXXXXD 360
F + L+ LDL L + + + GL+NL L + C L+ +P +
Sbjct: 126 AFNRVPSLRRLDLGELKRLEYISEAAFEGLVNLRYLNLGMC-NLKDIPNLTALVRLEELE 184
Query: 361 LGGTEIDVV-PQGLEMLAHLTYLDLNWTRILQIPDGMLSNLSRIQHLRLDR 410
L G +D++ P + L L L L ++ I +L ++ L L
Sbjct: 185 LSGNRLDLIRPGSFQGLTSLRKLWLMHAQVATIERNAFDDLKSLEELNLSH 235
Score = 38.1 bits (87), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 62/247 (25%), Positives = 103/247 (41%), Gaps = 26/247 (10%)
Query: 257 KDDVEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSG 316
+ +V R + +P++ P + L LQ N I+ I F+HL L+IL LS
Sbjct: 13 SNQASRVICTRRELAEVPASIPVN----TRYLNLQENSIQVIRTDTFKHLRHLEILQLS- 67
Query: 317 NSNLLRLPD--SISGLINLTALMVHGCFRLRHVPXXXXXXXXXXXDLG--GTEIDVVPQ- 371
NL+R + + +GL +L L + RL VP +L I+ +P
Sbjct: 68 -KNLVRKIEVGAFNGLPSLNTLELFD-NRLTTVPTQAFEYLSKLRELWLRNNPIESIPSY 125
Query: 372 GLEMLAHLTYLDLN-WTRILQIPDGMLSNLSRIQHLRLDRVAFE---NAEDILRLMKLEI 427
+ L LDL R+ I + L +++L L + N ++RL +LE+
Sbjct: 126 AFNRVPSLRRLDLGELKRLEYISEAAFEGLVNLRYLNLGMCNLKDIPNLTALVRLEELEL 185
Query: 428 FGVRFDHLQ--DYHXXXXXXXXXXXXXXXFTVEKNAYTYARGEWDKYVSLVELRICENSV 485
G R D ++ + T+E+NA+ D SL EL + N++
Sbjct: 186 SGNRLDLIRPGSFQGLTSLRKLWLMHAQVATIERNAF-------DDLKSLEELNLSHNNL 238
Query: 486 V-LPRDI 491
+ LP D+
Sbjct: 239 MSLPHDL 245
>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 = 35.0 bits (79), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 16/37 (43%), Positives = 20/37 (54%)
Query: 281 GCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGN 317
G L L L HNY+ +P F HLT L+ L L+ N
Sbjct: 478 GLSHLQVLYLNHNYLNSLPPGVFSHLTALRGLSLNSN 514
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 260 VEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFF 303
+EK+SL ++T +P+ +G +L TLLLQ N + IP+ FF
Sbjct: 150 LEKLSLANNQLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFF 192
>pdb|1M0Z|A Chain A, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
pdb|1M0Z|B Chain B, Crystal Structure Of The Von Willebrand Factor Binding
Domain Of Glycoprotein Ib Alpha
Length = 290
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 28/44 (63%), Gaps = 1/44 (2%)
Query: 260 VEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFF 303
+EK+SL ++T +P+ +G +L TLLLQ N + IP+ FF
Sbjct: 150 LEKLSLANNQLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFF 192
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 39/138 (28%), Positives = 56/138 (40%), Gaps = 28/138 (20%)
Query: 285 LSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNSNLLRLPDSISGLINLTALMVHGCFRL 344
L TL L +N + +P F+HLT L L L GN L LP + LT L L
Sbjct: 85 LGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQ-LKSLPSGV--FDRLTKLK-----EL 136
Query: 345 RHVPXXXXXXXXXXXDLGGTEIDVVPQG-LEMLAHLTYLDLNWTRILQIPDGMLSNLSRI 403
R L ++ +P G + L +L L L+ ++ +P G L ++
Sbjct: 137 R---------------LNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKL 181
Query: 404 QHLRLDRVAFENAEDILR 421
Q + L F N D R
Sbjct: 182 QTITL----FGNQFDCSR 195
>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 = 34.7 bits (78), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 39/138 (28%), Positives = 56/138 (40%), Gaps = 28/138 (20%)
Query: 285 LSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNSNLLRLPDSISGLINLTALMVHGCFRL 344
L TL L +N + +P F+HLT L L L GN L LP + LT L L
Sbjct: 85 LGTLGLANNQLASLPLGVFDHLTQLDKLYLGGNQ-LKSLPSGV--FDRLTKLK-----EL 136
Query: 345 RHVPXXXXXXXXXXXDLGGTEIDVVPQG-LEMLAHLTYLDLNWTRILQIPDGMLSNLSRI 403
R L ++ +P G + L +L L L+ ++ +P G L ++
Sbjct: 137 R---------------LNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKL 181
Query: 404 QHLRLDRVAFENAEDILR 421
Q + L F N D R
Sbjct: 182 QTITL----FGNQFDCSR 195
>pdb|3PMH|G Chain G, Mechanism Of Sulfotyrosine-Mediated Glycoprotein Ib
Interaction With Two Distinct Alpha-Thrombin Sites
Length = 290
Score = 34.7 bits (78), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 260 VEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFF 303
+EK+SL +T +P+ +G +L TLLLQ N + IP+ FF
Sbjct: 150 LEKLSLANNNLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFF 192
>pdb|1OOK|G Chain G, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Human Alpha-thrombin
Length = 290
Score = 34.7 bits (78), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 260 VEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFF 303
+EK+SL +T +P+ +G +L TLLLQ N + IP+ FF
Sbjct: 150 LEKLSLANNNLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFF 192
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 34.7 bits (78), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 34/59 (57%), Gaps = 4/59 (6%)
Query: 260 VEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPE-FFFEHLTGLKILDLSGN 317
+EK+SL ++T +P+ +G +L TLLLQ N + IP+ FF HL L L GN
Sbjct: 150 LEKLSLANNQLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFFGSHL--LPFAFLHGN 205
>pdb|1P9A|G Chain G, Crystal Structure Of N-terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-alpha At 1.7 Angstrom
Resolution
pdb|1QYY|A Chain A, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
pdb|1QYY|G Chain G, Crystal Structure Of N-Terminal Domain Of Human Platelet
Receptor Glycoprotein Ib-Alpha At 2.8 Angstrom
Resolution
Length = 290
Score = 34.7 bits (78), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 260 VEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFF 303
+EK+SL +T +P+ +G +L TLLLQ N + IP+ FF
Sbjct: 150 LEKLSLANNNLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFF 192
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 34.7 bits (78), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 34/59 (57%), Gaps = 4/59 (6%)
Query: 260 VEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPE-FFFEHLTGLKILDLSGN 317
+EK+SL ++T +P+ +G +L TLLLQ N + IP+ FF HL L L GN
Sbjct: 150 LEKLSLANNQLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFFGSHL--LPFAFLHGN 205
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 34.3 bits (77), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 260 VEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFF 303
+EK+SL +T +P+ +G +L TLLLQ N + IP+ FF
Sbjct: 150 LEKLSLANNNLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFF 192
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 34.3 bits (77), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 260 VEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFF 303
+EK+SL +T +P+ +G +L TLLLQ N + IP+ FF
Sbjct: 151 LEKLSLANNNLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFF 193
>pdb|1SQ0|B Chain B, Crystal Structure Of The Complex Of The Wild-Type Von
Willebrand Factor A1 Domain And Glycoprotein Ib Alpha At
2.6 Angstrom Resolution
Length = 288
Score = 33.9 bits (76), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 18/44 (40%), Positives = 27/44 (61%), Gaps = 1/44 (2%)
Query: 260 VEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFF 303
+EK+SL +T +P+ +G +L TLLLQ N + IP+ FF
Sbjct: 150 LEKLSLANNDLTELPAGL-LNGLENLDTLLLQENSLYTIPKGFF 192
>pdb|3V47|A Chain A, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
pdb|3V47|B Chain B, Crystal Structure Of The N-Tetminal Fragment Of Zebrafish
Tlr5 In Complex With Salmonella Flagellin
Length = 455
Score = 33.5 bits (75), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 44/90 (48%), Gaps = 2/90 (2%)
Query: 259 DVEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNS 318
D+E+++L + I +I N G L L L N++ I FE+L L++LDLS N
Sbjct: 300 DLEQLTLAQNEINKIDDN-AFWGLTHLLKLNLSQNFLGSIDSRMFENLDKLEVLDLSYNH 358
Query: 319 NLLRLPDSISGLINLTALMVHGCFRLRHVP 348
S GL NL L + +L+ VP
Sbjct: 359 IRALGDQSFLGLPNLKELALD-TNQLKSVP 387
>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 = 32.0 bits (71), Expect = 1.3, Method: Composition-based stats.
Identities = 16/45 (35%), Positives = 24/45 (53%), Gaps = 1/45 (2%)
Query: 365 EIDVVPQGL-EMLAHLTYLDLNWTRILQIPDGMLSNLSRIQHLRL 408
++ +P G+ + L LT LDLN + IP G NL + H+ L
Sbjct: 68 KLTAIPTGVFDKLTQLTQLDLNDNHLKSIPRGAFDNLKSLTHIYL 112
>pdb|2FT3|A Chain A, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|B Chain B, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|C Chain C, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|D Chain D, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|E Chain E, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|F Chain F, Crystal Structure Of The Biglycan Dimer Core Protein
Length = 332
Score = 31.2 bits (69), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 30/58 (51%), Gaps = 4/58 (6%)
Query: 260 VEKVSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGN 317
++K+ + + + IP N PSS L L + N I ++P+ F L + +++ GN
Sbjct: 104 LQKLYISKNHLVEIPPNLPSS----LVELRIHDNRIRKVPKGVFSGLRNMNCIEMGGN 157
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 31.2 bits (69), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 34/139 (24%), Positives = 64/139 (46%), Gaps = 17/139 (12%)
Query: 281 GC---RSLSTLLLQHNYIEEIPE--FFFEHLTGLKILDLSGNSNLLRLPDSISG------ 329
GC + L TL+LQ N ++ + ++++ L+ LD+S NS D
Sbjct: 372 GCSTLKRLQTLILQRNGLKNFFKVALMTKNMSSLETLDVSLNSLNSHAYDRTCAWAESIL 431
Query: 330 LINLTALMVHGCFRLRHVPXXXXXXXXXXXDLGGTEIDVVPQGLEMLAHLTYLDLNWTRI 389
++NL++ M+ G R +P DL I +P+ + L L L++ ++
Sbjct: 432 VLNLSSNMLTGSV-FRCLPPKVKVL-----DLHNNRIMSIPKDVTHLQALQELNVASNQL 485
Query: 390 LQIPDGMLSNLSRIQHLRL 408
+PDG+ L+ +Q++ L
Sbjct: 486 KSVPDGVFDRLTSLQYIWL 504
>pdb|2WFH|A Chain A, The Human Slit 2 Dimerization Domain D4
pdb|2WFH|B Chain B, The Human Slit 2 Dimerization Domain D4
Length = 193
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 27/48 (56%)
Query: 361 LGGTEIDVVPQGLEMLAHLTYLDLNWTRILQIPDGMLSNLSRIQHLRL 408
L G + +VP+ L HLT +DL+ RI + + SN++++ L L
Sbjct: 38 LDGNQFTLVPKELSNYKHLTLIDLSNNRISTLSNQSFSNMTQLLTLIL 85
Score = 29.3 bits (64), Expect = 8.3, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 29/55 (52%), Gaps = 1/55 (1%)
Query: 263 VSLMRCRITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGN 317
+ L RI+ + SN S L TL+L +N + IP F+ L L++L L GN
Sbjct: 59 IDLSNNRISTL-SNQSFSNMTQLLTLILSYNRLRCIPPRTFDGLKSLRLLSLHGN 112
Score = 29.3 bits (64), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 34/138 (24%), Positives = 56/138 (40%), Gaps = 31/138 (22%)
Query: 273 IPSNFPSSGCRSLSTLLLQHNYIEEIPEFF--FEHLTGLKILDLSGNSNLLRLPDSISGL 330
+P P R ++ L L N +P+ ++HLT ++DLS N S S +
Sbjct: 25 LPKGIP----RDVTELYLDGNQFTLVPKELSNYKHLT---LIDLSNNRISTLSNQSFSNM 77
Query: 331 INLTALMVHGCFRLRHVPXXXXXXXXXXXDLGGTEIDVVPQGLEMLAHLTYLDLNWTRIL 390
L L++ RLR +P P+ + L L L L+ I
Sbjct: 78 TQLLTLILSY-NRLRCIP---------------------PRTFDGLKSLRLLSLHGNDIS 115
Query: 391 QIPDGMLSNLSRIQHLRL 408
+P+G ++LS + HL +
Sbjct: 116 VVPEGAFNDLSALSHLAI 133
>pdb|2DF4|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Mn2+
pdb|2DQN|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Asn
pdb|2G5H|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
pdb|2G5I|A Chain A, Structure Of Trna-dependent Amidotransferase Gatcab
Complexed With Adp-alf4
pdb|3IP4|A Chain A, The High Resolution Structure Of Gatcab
pdb|2F2A|A Chain A, Structure Of Trna-Dependent Amidotransferase Gatcab
Complexed With Gln
Length = 485
Score = 30.8 bits (68), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 13/23 (56%), Positives = 16/23 (69%)
Query: 715 DIDKDCWDALEWDDPNTKSLLAL 737
D+ KD +DA+E DP KS LAL
Sbjct: 24 DVVKDIYDAIEETDPTIKSFLAL 46
>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 = 30.4 bits (67), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 34/145 (23%), Positives = 59/145 (40%), Gaps = 24/145 (16%)
Query: 270 ITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEF-FFEHLTGLKILDLSGNSNLLRLPDSIS 328
+ + SNF G L L QH+ ++++ EF F L L LD+S + +
Sbjct: 409 VITMSSNFL--GLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFN 466
Query: 329 GLINLTALMVHGCFRLRHVPXXXXXXXXXXXDLGGTEIDVVPQGLEMLAHLTYLDLNWTR 388
GL +L L + G + + +P L +LT+LDL+ +
Sbjct: 467 GLSSLEVLKMAG---------------------NSFQENFLPDIFTELRNLTFLDLSQCQ 505
Query: 389 ILQIPDGMLSNLSRIQHLRLDRVAF 413
+ Q+ ++LS +Q L + F
Sbjct: 506 LEQLSPTAFNSLSSLQVLNMSHNNF 530
>pdb|3TWI|D Chain D, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
pdb|3TWI|E Chain E, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
pdb|3TWI|F Chain F, Variable Lymphocyte Receptor Recognition Of The
Immunodominant Glycoprotein Of Bacillus Anthracis Spores
Length = 179
Score = 30.0 bits (66), Expect = 4.3, Method: Composition-based stats.
Identities = 13/39 (33%), Positives = 22/39 (56%)
Query: 370 PQGLEMLAHLTYLDLNWTRILQIPDGMLSNLSRIQHLRL 408
P + L LTYL+L ++ +P G+ L+++ HL L
Sbjct: 57 PGVFDSLTQLTYLNLAVNQLTALPVGVFDKLTKLTHLAL 95
>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 = 30.0 bits (66), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 34/145 (23%), Positives = 59/145 (40%), Gaps = 24/145 (16%)
Query: 270 ITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEF-FFEHLTGLKILDLSGNSNLLRLPDSIS 328
+ + SNF G L L QH+ ++++ EF F L L LD+S + +
Sbjct: 385 VITMSSNFL--GLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFN 442
Query: 329 GLINLTALMVHGCFRLRHVPXXXXXXXXXXXDLGGTEIDVVPQGLEMLAHLTYLDLNWTR 388
GL +L L + G + + +P L +LT+LDL+ +
Sbjct: 443 GLSSLEVLKMAG---------------------NSFQENFLPDIFTELRNLTFLDLSQCQ 481
Query: 389 ILQIPDGMLSNLSRIQHLRLDRVAF 413
+ Q+ ++LS +Q L + F
Sbjct: 482 LEQLSPTAFNSLSSLQVLNMSHNNF 506
>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 = 30.0 bits (66), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 34/145 (23%), Positives = 59/145 (40%), Gaps = 24/145 (16%)
Query: 270 ITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEF-FFEHLTGLKILDLSGNSNLLRLPDSIS 328
+ + SNF G L L QH+ ++++ EF F L L LD+S + +
Sbjct: 90 VITMSSNFL--GLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFN 147
Query: 329 GLINLTALMVHGCFRLRHVPXXXXXXXXXXXDLGGTEIDVVPQGLEMLAHLTYLDLNWTR 388
GL +L L + G + + +P L +LT+LDL+ +
Sbjct: 148 GLSSLEVLKMAG---------------------NSFQENFLPDIFTELRNLTFLDLSQCQ 186
Query: 389 ILQIPDGMLSNLSRIQHLRLDRVAF 413
+ Q+ ++LS +Q L + F
Sbjct: 187 LEQLSPTAFNSLSSLQVLNMSHNNF 211
>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 = 29.3 bits (64), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 2/67 (2%)
Query: 371 QGLEMLAHLTYLDLNWTRILQIPDGMLSNLSRIQHLRLDRVAFENAEDILRLMKLEIFGV 430
QG+E L +L YL+LN +I I LSNL ++ +L + + + L L +
Sbjct: 60 QGIEYLTNLEYLNLNGNQITDI--SPLSNLVKLTNLYIGTNKITDISALQNLTNLRELYL 117
Query: 431 RFDHLQD 437
D++ D
Sbjct: 118 NEDNISD 124
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 29.3 bits (64), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 34/150 (22%), Positives = 61/150 (40%), Gaps = 24/150 (16%)
Query: 270 ITRIPSNFPSSGCRSLSTLLLQHNYIEEIPEF-FFEHLTGLKILDLSGNSNLLRLPDSIS 328
+ + SNF G L L QH+ ++++ EF F L L LD+S + +
Sbjct: 385 VITMSSNFL--GLEQLEHLDFQHSNLKQMSEFSVFLSLRNLIYLDISHTHTRVAFNGIFN 442
Query: 329 GLINLTALMVHGCFRLRHVPXXXXXXXXXXXDLGGTEIDVVPQGLEMLAHLTYLDLNWTR 388
GL +L L + G + + +P L +LT+LDL+ +
Sbjct: 443 GLSSLEVLKMAG---------------------NSFQENFLPDIFTELRNLTFLDLSQCQ 481
Query: 389 ILQIPDGMLSNLSRIQHLRLDRVAFENAED 418
+ Q+ ++LS +Q L + ++ D
Sbjct: 482 LEQLSPTAFNSLSSLQVLNMASNQLKSVPD 511
>pdb|2A0Z|A Chain A, The Molecular Structure Of Toll-like Receptor 3 Ligand
Binding Domain
Length = 705
Score = 28.9 bits (63), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 281 GCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNSNLLRLPDSI 327
G L L L+ N +EIP F+ L LKI+DL G +NL LP S+
Sbjct: 539 GLSHLHILNLESNGFDEIPVEVFKDLFELKIIDL-GLNNLNTLPASV 584
>pdb|3ULU|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form1)
pdb|3ULV|A Chain A, Structure Of Quaternary Complex Of Human Tlr3ecd With
Three Fabs (Form2)
Length = 694
Score = 28.9 bits (63), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 21/47 (44%), Positives = 27/47 (57%), Gaps = 1/47 (2%)
Query: 281 GCRSLSTLLLQHNYIEEIPEFFFEHLTGLKILDLSGNSNLLRLPDSI 327
G L L L+ N +EIP F+ L LKI+DL G +NL LP S+
Sbjct: 544 GLSHLHILNLESNGFDEIPVEVFKDLFELKIIDL-GLNNLNTLPASV 589
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
0.323 0.141 0.427
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 20,355,281
Number of Sequences: 62578
Number of extensions: 793246
Number of successful extensions: 2116
Number of sequences better than 100.0: 73
Number of HSP's better than 100.0 without gapping: 17
Number of HSP's successfully gapped in prelim test: 56
Number of HSP's that attempted gapping in prelim test: 2002
Number of HSP's gapped (non-prelim): 150
length of query: 744
length of database: 14,973,337
effective HSP length: 106
effective length of query: 638
effective length of database: 8,340,069
effective search space: 5320964022
effective search space used: 5320964022
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)