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= 003203
(839 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 51.6 bits (122), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 65/149 (43%), Gaps = 14/149 (9%)
Query: 459 LCLDQCVVGDISIIGNLKKLEILSLVDSDIERLPNEIGQLTQLRCLDLSFCRNLKVIPPN 518
L LD+C + + + G L L L L + ++ LP L L LD+SF R L +P
Sbjct: 61 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPLG 119
Query: 519 VISKLTQLEELYMGNTSVKWEFEGL--------NIERSNASLQEL-----RHLSQLTTLE 565
+ L +L+ELY+ +K GL + +N +L EL L L TL
Sbjct: 120 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLL 179
Query: 566 IQIQDAMILPKGLFSKKLERYKIYIGDEW 594
+Q +PKG F L + G+ W
Sbjct: 180 LQENSLYTIPKGFFGSHLLPFAFLHGNPW 208
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 51.2 bits (121), Expect = 3e-06, Method: Composition-based stats.
Identities = 44/149 (29%), Positives = 65/149 (43%), Gaps = 14/149 (9%)
Query: 459 LCLDQCVVGDISIIGNLKKLEILSLVDSDIERLPNEIGQLTQLRCLDLSFCRNLKVIPPN 518
L LD+C + + + G L L L L + ++ LP L L LD+SF R L +P
Sbjct: 60 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPLG 118
Query: 519 VISKLTQLEELYMGNTSVKWEFEGL--------NIERSNASLQEL-----RHLSQLTTLE 565
+ L +L+ELY+ +K GL + +N +L EL L L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLL 178
Query: 566 IQIQDAMILPKGLFSKKLERYKIYIGDEW 594
+Q +PKG F L + G+ W
Sbjct: 179 LQENSLYTIPKGFFGSHLLPFAFLHGNPW 207
>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 = 50.8 bits (120), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 64/149 (42%), Gaps = 14/149 (9%)
Query: 459 LCLDQCVVGDISIIGNLKKLEILSLVDSDIERLPNEIGQLTQLRCLDLSFCRNLKVIPPN 518
L LD+C + + + G L L L L + ++ LP L L LD+SF R L +P
Sbjct: 60 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPLG 118
Query: 519 VISKLTQLEELYMGNTSVKWEFEGL--------NIERSNASLQEL-----RHLSQLTTLE 565
+ L +L+ELY+ +K GL + +N L EL L L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNDLTELPAGLLNGLENLDTLL 178
Query: 566 IQIQDAMILPKGLFSKKLERYKIYIGDEW 594
+Q +PKG F L + G+ W
Sbjct: 179 LQENSLYTIPKGFFGSHLLPFAFLHGNPW 207
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 50.8 bits (120), Expect = 3e-06, Method: Composition-based stats.
Identities = 44/149 (29%), Positives = 64/149 (42%), Gaps = 14/149 (9%)
Query: 459 LCLDQCVVGDISIIGNLKKLEILSLVDSDIERLPNEIGQLTQLRCLDLSFCRNLKVIPPN 518
L LD+C + + + G L L L L + ++ LP L L LD+SF R L +P
Sbjct: 60 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPLG 118
Query: 519 VISKLTQLEELYMGNTSVKWEFEGL--------NIERSNASLQEL-----RHLSQLTTLE 565
+ L +L+ELY+ +K GL + +N L EL L L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTLL 178
Query: 566 IQIQDAMILPKGLFSKKLERYKIYIGDEW 594
+Q +PKG F L + G+ W
Sbjct: 179 LQENSLYTIPKGFFGSHLLPFAFLHGNPW 207
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 50.8 bits (120), Expect = 3e-06, Method: Composition-based stats.
Identities = 44/149 (29%), Positives = 64/149 (42%), Gaps = 14/149 (9%)
Query: 459 LCLDQCVVGDISIIGNLKKLEILSLVDSDIERLPNEIGQLTQLRCLDLSFCRNLKVIPPN 518
L LD+C + + + G L L L L + ++ LP L L LD+SF R L +P
Sbjct: 60 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPLG 118
Query: 519 VISKLTQLEELYMGNTSVKWEFEGL--------NIERSNASLQEL-----RHLSQLTTLE 565
+ L +L+ELY+ +K GL + +N L EL L L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTLL 178
Query: 566 IQIQDAMILPKGLFSKKLERYKIYIGDEW 594
+Q +PKG F L + G+ W
Sbjct: 179 LQENSLYTIPKGFFGSHLLPFAFLHGNPW 207
>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 = 50.8 bits (120), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 64/149 (42%), Gaps = 14/149 (9%)
Query: 459 LCLDQCVVGDISIIGNLKKLEILSLVDSDIERLPNEIGQLTQLRCLDLSFCRNLKVIPPN 518
L LD+C + + + G L L L L + ++ LP L L LD+SF R L +P
Sbjct: 60 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPLG 118
Query: 519 VISKLTQLEELYMGNTSVKWEFEGL--------NIERSNASLQEL-----RHLSQLTTLE 565
+ L +L+ELY+ +K GL + +N L EL L L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTLL 178
Query: 566 IQIQDAMILPKGLFSKKLERYKIYIGDEW 594
+Q +PKG F L + G+ W
Sbjct: 179 LQENSLYTIPKGFFGSHLLPFAFLHGNPW 207
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 50.4 bits (119), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 64/149 (42%), Gaps = 14/149 (9%)
Query: 459 LCLDQCVVGDISIIGNLKKLEILSLVDSDIERLPNEIGQLTQLRCLDLSFCRNLKVIPPN 518
L LD+C + + + G L L L L + ++ LP L L LD+SF R L +P
Sbjct: 60 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPLG 118
Query: 519 VISKLTQLEELYMGNTSVKWEFEGL--------NIERSNASLQEL-----RHLSQLTTLE 565
+ L +L+ELY+ +K GL + +N L EL L L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTLL 178
Query: 566 IQIQDAMILPKGLFSKKLERYKIYIGDEW 594
+Q +PKG F L + G+ W
Sbjct: 179 LQENSLYTIPKGFFGSHLLPFAFLHGNPW 207
>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 = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 43/149 (28%), Positives = 64/149 (42%), Gaps = 14/149 (9%)
Query: 459 LCLDQCVVGDISIIGNLKKLEILSLVDSDIERLPNEIGQLTQLRCLDLSFCRNLKVIPPN 518
L LD+ + + + G L L L L + ++ LP L L LD+SF R L +P
Sbjct: 60 LNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPLG 118
Query: 519 VISKLTQLEELYMGNTSVKWEFEGL--------NIERSNASLQEL-----RHLSQLTTLE 565
+ L +L+ELY+ +K GL + +N +L EL L L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLL 178
Query: 566 IQIQDAMILPKGLFSKKLERYKIYIGDEW 594
+Q +PKG F L + G+ W
Sbjct: 179 LQENSLYTIPKGFFGSHLLPFAFLHGNPW 207
>pdb|1OOK|G Chain G, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Human Alpha-thrombin
Length = 290
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 43/149 (28%), Positives = 64/149 (42%), Gaps = 14/149 (9%)
Query: 459 LCLDQCVVGDISIIGNLKKLEILSLVDSDIERLPNEIGQLTQLRCLDLSFCRNLKVIPPN 518
L LD+ + + + G L L L L + ++ LP L L LD+SF R L +P
Sbjct: 60 LNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPLG 118
Query: 519 VISKLTQLEELYMGNTSVKWEFEGL--------NIERSNASLQEL-----RHLSQLTTLE 565
+ L +L+ELY+ +K GL + +N +L EL L L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLL 178
Query: 566 IQIQDAMILPKGLFSKKLERYKIYIGDEW 594
+Q +PKG F L + G+ W
Sbjct: 179 LQENSLYTIPKGFFGSHLLPFAFLHGNPW 207
>pdb|3PMH|G Chain G, Mechanism Of Sulfotyrosine-Mediated Glycoprotein Ib
Interaction With Two Distinct Alpha-Thrombin Sites
Length = 290
Score = 47.8 bits (112), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 43/149 (28%), Positives = 64/149 (42%), Gaps = 14/149 (9%)
Query: 459 LCLDQCVVGDISIIGNLKKLEILSLVDSDIERLPNEIGQLTQLRCLDLSFCRNLKVIPPN 518
L LD+ + + + G L L L L + ++ LP L L LD+SF R L +P
Sbjct: 60 LNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNR-LTSLPLG 118
Query: 519 VISKLTQLEELYMGNTSVKWEFEGL--------NIERSNASLQEL-----RHLSQLTTLE 565
+ L +L+ELY+ +K GL + +N +L EL L L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLL 178
Query: 566 IQIQDAMILPKGLFSKKLERYKIYIGDEW 594
+Q +PKG F L + G+ W
Sbjct: 179 LQENSLYTIPKGFFGSHLLPFAFLHGNPW 207
>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 = 42.0 bits (97), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 41/139 (29%), Positives = 65/139 (46%), Gaps = 13/139 (9%)
Query: 122 ERARTLFDRLWKENKILVILDDICTSIDLVTVGIPFGNAHRGCKILLASRYRDILVSEMH 181
+R R L R K + L+ILDD+ S L C+ILL +R + + S M
Sbjct: 225 DRLRILMLR--KHPRSLLILDDVWDSWVLKAFD-------SQCQILLTTRDKSVTDSVMG 275
Query: 182 SQYNYCV-SVLNKEEAWSLFKKMVGDYVEDSDLESIAIQVANECGGLPLAIVIVARALRN 240
+Y V S L KE+ + V ++ +DL A + EC G PL + ++ LR+
Sbjct: 276 PKYVVPVESSLGKEKGLEILSLFVN--MKKADLPEQAHSIIKECKGSPLVVSLIGALLRD 333
Query: 241 KPLSEWKGALLKLRSSAGK 259
P + W+ L +L++ K
Sbjct: 334 FP-NRWEYYLKQLQNKQFK 351
>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 = 41.2 bits (95), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 41/139 (29%), Positives = 65/139 (46%), Gaps = 13/139 (9%)
Query: 122 ERARTLFDRLWKENKILVILDDICTSIDLVTVGIPFGNAHRGCKILLASRYRDILVSEMH 181
+R R L R K + L+ILDD+ S L C+ILL +R + + S M
Sbjct: 231 DRLRILMLR--KHPRSLLILDDVWDSWVLKAFD-------SQCQILLTTRDKSVTDSVMG 281
Query: 182 SQYNYCV-SVLNKEEAWSLFKKMVGDYVEDSDLESIAIQVANECGGLPLAIVIVARALRN 240
+Y V S L KE+ + V ++ +DL A + EC G PL + ++ LR+
Sbjct: 282 PKYVVPVESSLGKEKGLEILSLFVN--MKKADLPEQAHSIIKECKGSPLVVSLIGALLRD 339
Query: 241 KPLSEWKGALLKLRSSAGK 259
P + W+ L +L++ K
Sbjct: 340 FP-NRWEYYLKQLQNKQFK 357
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 38.9 bits (89), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 57/237 (24%), Positives = 97/237 (40%), Gaps = 33/237 (13%)
Query: 37 FESRKSILCDILD--WLTSPNVNMIGVYGIGGVGKTALMHEV-----LFEAKKQNLFDQV 89
F +RK ++ I W + + +YG+ G GK+ L E L E V
Sbjct: 126 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWV 185
Query: 90 IFVLASSTANVKRIQDEIADQLCLELCK----------GTESERARTLFDRLWKENKILV 139
+ + ++Q+ LC+ L + E + R L K + L+
Sbjct: 186 SIGKQDKSGLLMKLQN-----LCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLL 240
Query: 140 ILDDICTSIDLVTVGIPFGNAHRGCKILLASRYRDILVSEMHSQYNYCV-SVLNKEEAWS 198
ILDD+ L F N C+ILL +R + + S M ++ V S L +E+
Sbjct: 241 ILDDVWDPWVLKA----FDNQ---CQILLTTRDKSVTDSVMGPKHVVPVESGLGREKGLE 293
Query: 199 LFKKMVGDYVEDSDLESIAIQVANECGGLPLAIVIVARALRNKPLSEWKGALLKLRS 255
+ V ++ DL + A + EC G PL + ++ LR+ P + W L +L++
Sbjct: 294 ILSLFVN--MKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQN 347
>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 = 38.5 bits (88), Expect = 0.017, Method: Composition-based stats.
Identities = 24/60 (40%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 479 EILSLVDSDIERL-PNEIGQLTQLRCLDLSFCRNLKVIPPNVISKLTQLEELYMGNTSVK 537
++L L D+ I +L P +LTQL LDL L V+P V KLTQL +L + + +K
Sbjct: 41 QVLYLYDNQITKLEPGVFDRLTQLTRLDLD-NNQLTVLPAGVFDKLTQLTQLSLNDNQLK 99
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 38.1 bits (87), Expect = 0.018, Method: Composition-based stats.
Identities = 24/60 (40%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 479 EILSLVDSDIERL-PNEIGQLTQLRCLDLSFCRNLKVIPPNVISKLTQLEELYMGNTSVK 537
++L L D+ I +L P +LTQL LDL L V+P V KLTQL +L + + +K
Sbjct: 33 QVLYLYDNQITKLEPGVFDRLTQLTRLDLD-NNQLTVLPAGVFDKLTQLTQLSLNDNQLK 91
>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 = 37.4 bits (85), Expect = 0.031, Method: Composition-based stats.
Identities = 24/60 (40%), Positives = 34/60 (56%), Gaps = 2/60 (3%)
Query: 479 EILSLVDSDIERL-PNEIGQLTQLRCLDLSFCRNLKVIPPNVISKLTQLEELYMGNTSVK 537
++L L D+ I +L P +LTQL LDL L V+P V KLTQL +L + + +K
Sbjct: 33 QVLYLYDNRITKLEPGVFDRLTQLTRLDLD-NNQLTVLPAGVFDKLTQLTQLSLNDNQLK 91
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 37.4 bits (85), Expect = 0.032, Method: Compositional matrix adjust.
Identities = 35/127 (27%), Positives = 59/127 (46%), Gaps = 13/127 (10%)
Query: 468 DISIIGNLKKLEILSLVDSDIERLPNEI-GQLTQLRCLDLSFCRNLKVIPPNVISKLTQL 526
DIS + L L L L + ++ LPN + +LT L+ L L L+ +P V KLT L
Sbjct: 77 DISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVL-VENQLQSLPDGVFDKLTNL 135
Query: 527 EELYMGNTSVKWEFEGLNIERSNASLQELRHLSQLTTLEIQIQDAMILPKGLFSKKLERY 586
LY+ + ++ +G+ L+ LT L++ LP+G+F K +
Sbjct: 136 TYLYLYHNQLQSLPKGV-----------FDKLTNLTRLDLDNNQLQSLPEGVFDKLTQLK 184
Query: 587 KIYIGDE 593
++ + D
Sbjct: 185 QLSLNDN 191
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 36.2 bits (82), Expect = 0.070, Method: Compositional matrix adjust.
Identities = 56/237 (23%), Positives = 96/237 (40%), Gaps = 33/237 (13%)
Query: 37 FESRKSILCDILD--WLTSPNVNMIGVYGIGGVGKTALMHEV-----LFEAKKQNLFDQV 89
F +RK ++ I W + + +YG+ G GK+ L E L E V
Sbjct: 133 FVTRKKLVHAIQQKLWKLNGEPGWVTIYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWV 192
Query: 90 IFVLASSTANVKRIQDEIADQLCLELCK----------GTESERARTLFDRLWKENKILV 139
+ + ++Q+ LC+ L + E + R L K + L+
Sbjct: 193 SIGKQDKSGLLMKLQN-----LCMRLDQEESFSQRLPLNIEEAKDRLRVLMLRKHPRSLL 247
Query: 140 ILDDICTSIDLVTVGIPFGNAHRGCKILLASRYRDILVSEMHSQYNYCV-SVLNKEEAWS 198
ILDD+ L F N C+ILL + + + S M ++ V S L +E+
Sbjct: 248 ILDDVWDPWVLKA----FDNQ---CQILLTTSDKSVTDSVMGPKHVVPVESGLGREKGLE 300
Query: 199 LFKKMVGDYVEDSDLESIAIQVANECGGLPLAIVIVARALRNKPLSEWKGALLKLRS 255
+ V ++ DL + A + EC G PL + ++ LR+ P + W L +L++
Sbjct: 301 ILSLFVN--MKKEDLPAEAHSIIKECKGSPLVVSLIGALLRDFP-NRWAYYLRQLQN 354
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 36.2 bits (82), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 38/127 (29%), Positives = 57/127 (44%), Gaps = 15/127 (11%)
Query: 471 IIGNLKKLEILSLVDSDIERLPNEI-GQLTQLRCLDLSFCRNLKVIPPNVISKLTQLEEL 529
+ +L L+ L L + + LP + LTQL LDL L V+P V +L L+EL
Sbjct: 59 VFDSLINLKELYLGSNQLGALPVGVFDSLTQLTVLDLGT-NQLTVLPSAVFDRLVHLKEL 117
Query: 530 YMGNTSVKWEFEGLNIERSNASLQELRHLSQLTTLEIQIQDAMILPKGLFSKKLERYKIY 589
+M + G IER L HL+ L + Q++ +P G F + Y
Sbjct: 118 FMCCNKLTELPRG--IER-------LTHLTHLALDQNQLKS---IPHGAFDRLSSLTHAY 165
Query: 590 I-GDEWD 595
+ G+ WD
Sbjct: 166 LFGNPWD 172
>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 = 35.4 bits (80), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 35/125 (28%), Positives = 59/125 (47%), Gaps = 15/125 (12%)
Query: 468 DISIIGNLKKLEILSLVDSDIERLPNEI-GQLTQLRCLDLSFCRNLKVIPPNVISKLTQL 526
DIS + L L L L + ++ LPN + +LT L+ L L L+ +P V KLT L
Sbjct: 77 DISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVL-VENQLQSLPDGVFDKLTNL 135
Query: 527 EELYMGNTSVKWEFEGLNIERSNASLQELRHLSQLTTLEIQIQDAMILPKGLFSK--KLE 584
L + + ++ +G+ L+ LT L++ LP+G+F K +L+
Sbjct: 136 TYLNLAHNQLQSLPKGV-----------FDKLTNLTELDLSYNQLQSLPEGVFDKLTQLK 184
Query: 585 RYKIY 589
++Y
Sbjct: 185 DLRLY 189
>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 = 34.3 bits (77), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 2/67 (2%)
Query: 472 IGNLKKLEILSLVDSDIE-RLPNEIGQLTQLRCLDLSFCRNLKVIPPNVISKLTQLEELY 530
IG++ L IL+L +DI +P+E+G L L LDLS L P +S LT L E+
Sbjct: 652 IGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLS-SNKLDGRIPQAMSALTMLTEID 710
Query: 531 MGNTSVK 537
+ N ++
Sbjct: 711 LSNNNLS 717
>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 = 34.3 bits (77), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 25/67 (37%), Positives = 37/67 (55%), Gaps = 2/67 (2%)
Query: 472 IGNLKKLEILSLVDSDIE-RLPNEIGQLTQLRCLDLSFCRNLKVIPPNVISKLTQLEELY 530
IG++ L IL+L +DI +P+E+G L L LDLS L P +S LT L E+
Sbjct: 649 IGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLS-SNKLDGRIPQAMSALTMLTEID 707
Query: 531 MGNTSVK 537
+ N ++
Sbjct: 708 LSNNNLS 714
>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 = 33.9 bits (76), Expect = 0.36, Method: Composition-based stats.
Identities = 38/163 (23%), Positives = 71/163 (43%), Gaps = 31/163 (19%)
Query: 500 QLRCLDLSFCRNLKVIPPNVISKLTQLEELYMGNTSVKWEFEGLNIERSNASLQELRHLS 559
Q LDL +LK +P V +LT L +LY+G ++ G+ L+
Sbjct: 29 QTTYLDLE-TNSLKSLPNGVFDELTSLTQLYLGGNKLQSLPNGV-----------FNKLT 76
Query: 560 QLTTLEIQIQDAMILPKGLFSKKLERYKIYIGDEWDWSGKSDNTRALKLKLCSSIYLDEI 619
LT L + LP G+F K + ++ + NT L+ L ++ +
Sbjct: 77 SLTYLNLSTNQLQSLPNGVFDKLTQLKELAL-----------NTNQLQ-SLPDGVF--DK 122
Query: 620 LMQLKGIEHLYLDEVPGIKNVLYDLEREGFPQLKHLQVQNNPF 662
L QLK + LY +++ + + ++D L+++ + +NP+
Sbjct: 123 LTQLKDLR-LYQNQLKSVPDGVFDR----LTSLQYIWLHDNPW 160
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 33.1 bits (74), Expect = 0.71, Method: Composition-based stats.
Identities = 40/141 (28%), Positives = 65/141 (46%), Gaps = 22/141 (15%)
Query: 475 LKKLEILSLVDSDIERLPNEI-GQLTQLRCLDLSFCRNLKVIPPNVISKLTQLEELYMGN 533
L KL L+L + ++ L + LT+L L L+ L +P V LTQL++LY+G
Sbjct: 58 LTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLA-NNQLASLPLGVFDHLTQLDKLYLGG 116
Query: 534 TSVKWEFEGLNIERSNASLQELR---------------HLSQLTTLEIQIQDAMILPKGL 578
+K G+ +R L+ELR L+ L TL + +P G
Sbjct: 117 NQLKSLPSGV-FDRL-TKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGA 174
Query: 579 FSK--KLERYKIYIGDEWDWS 597
F + KL+ ++ G+++D S
Sbjct: 175 FDRLGKLQTITLF-GNQFDCS 194
>pdb|4B8C|D Chain D, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|J Chain J, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|K Chain K, Nuclease Module Of The Yeast Ccr4-Not Complex
pdb|4B8C|L Chain L, Nuclease Module Of The Yeast Ccr4-Not Complex
Length = 727
Score = 32.7 bits (73), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 44/90 (48%), Gaps = 8/90 (8%)
Query: 460 CLDQCVVGDISIIGNLKKLEILS---LVDSDIERLPNEIGQLTQLRCLDLSFCRNLKVIP 516
LD + +I N+ K + L+ L + + LP EI L+ LR LDLS R L +P
Sbjct: 228 ALDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSHNR-LTSLP 286
Query: 517 PNVISKLTQLEELYMGN---TSVKWEFEGL 543
+ S QL+ Y + T++ WEF L
Sbjct: 287 AELGSCF-QLKYFYFFDNMVTTLPWEFGNL 315
>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 = 32.7 bits (73), Expect = 0.76, Method: Composition-based stats.
Identities = 40/141 (28%), Positives = 65/141 (46%), Gaps = 22/141 (15%)
Query: 475 LKKLEILSLVDSDIERLPNEI-GQLTQLRCLDLSFCRNLKVIPPNVISKLTQLEELYMGN 533
L KL L+L + ++ L + LT+L L L+ L +P V LTQL++LY+G
Sbjct: 58 LTKLTWLNLDYNQLQTLSAGVFDDLTELGTLGLA-NNQLASLPLGVFDHLTQLDKLYLGG 116
Query: 534 TSVKWEFEGLNIERSNASLQELR---------------HLSQLTTLEIQIQDAMILPKGL 578
+K G+ +R L+ELR L+ L TL + +P G
Sbjct: 117 NQLKSLPSGV-FDRL-TKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGA 174
Query: 579 FSK--KLERYKIYIGDEWDWS 597
F + KL+ ++ G+++D S
Sbjct: 175 FDRLGKLQTITLF-GNQFDCS 194
>pdb|2FVV|A Chain A, Human Diphosphoinositol Polyphosphate Phosphohydrolase 1
pdb|2Q9P|A Chain A, Human Diphosphoinositol Polyphosphate Phosphohydrolase 1,
Mg-F Complex
Length = 194
Score = 32.3 bits (72), Expect = 1.0, Method: Composition-based stats.
Identities = 18/53 (33%), Positives = 27/53 (50%), Gaps = 9/53 (16%)
Query: 308 LGLFEGIYTMQERRDRVYALVHILKDSCLLLD-------GRTEDWFSMHDIVR 353
LG GI+ QER+ R Y V I+ + +L D GR +WF + D ++
Sbjct: 99 LGRLVGIFENQERKHRTYVYVLIVTE--VLEDWEDSVNIGRKREWFKIEDAIK 149
>pdb|2WQX|A Chain A, Inlb321_4r: S199r, D200r, G206r, A227r, C242a Mutant Of
The Listeria Monocytogenes Inlb Internalin Domain
pdb|2WQX|B Chain B, Inlb321_4r: S199r, D200r, G206r, A227r, C242a Mutant Of
The Listeria Monocytogenes Inlb Internalin Domain
Length = 289
Score = 31.6 bits (70), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 29/119 (24%), Positives = 51/119 (42%), Gaps = 39/119 (32%)
Query: 457 QTLCLDQCVVGDISIIGNLKKLEILSLVDSDIERLPNEIGQLTQLRCLDLSFCRNLKVIP 516
++L L + DI+++ L KL+ LSL D+ I R ++P
Sbjct: 135 ESLYLGNNKITDITVLSRLTKLDTLSLEDNQIRR-----------------------IVP 171
Query: 517 PNVISKLTQLEELYMGNTSVKWEFEGLNIERSNASLQELRHLSQLTTLEIQIQDAMILP 575
+++LT+L+ LY+ + + L+ LR L L LE+ Q+A+ P
Sbjct: 172 ---LARLTKLQNLYLSKNHI-------------SDLRALRGLKNLDVLELFSQEALNKP 214
>pdb|2YT2|A Chain A, Solution Structure Of The Chimera Of The Ptb Domain Of
Snt-2 Residue Peptide (Aa 1571-1589) Of Halk
pdb|2KUQ|A Chain A, Solution Structure Of The Chimera Of The Ptb Domain Of
Snt-2 Residue Peptide (Aa 1571-1589) Of Halk
Length = 153
Score = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 23/46 (50%), Gaps = 1/46 (2%)
Query: 721 NVFSFSIARGLPQLQTITVIKCKNVEEIFMMERDGYVDCKEVNKIE 766
N+FSF R Q I KC EEIF + +D + C +N +E
Sbjct: 70 NLFSFESGRRCQTGQGIFAFKCSRAEEIFNLLQD-LMQCNSINVME 114
>pdb|2YS5|A Chain A, Solution Structure Of The Complex Of The Ptb Domain Of
Snt-2 Residue Peptide (Aa 1571-1589) Of Halk
pdb|2KUP|A Chain A, Solution Structure Of The Complex Of The Ptb Domain Of
Snt-2 Residue Peptide (Aa 1571-1589) Of Halk
Length = 146
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/47 (36%), Positives = 23/47 (48%), Gaps = 1/47 (2%)
Query: 720 KNVFSFSIARGLPQLQTITVIKCKNVEEIFMMERDGYVDCKEVNKIE 766
N+FSF R Q I KC EEIF + +D + C +N +E
Sbjct: 69 SNLFSFESGRRCQTGQGIFAFKCSRAEEIFNLLQD-LMQCNSINVME 114
>pdb|2O6R|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors B61
Length = 177
Score = 31.6 bits (70), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 32/119 (26%), Positives = 54/119 (45%), Gaps = 14/119 (11%)
Query: 481 LSLVDSDIERLPNEI-GQLTQLRCLDLSFCRNLKVIPPNVISKLTQLEELYMGNTSVKWE 539
L L + ++ LP+ + +LTQL L LS ++ +P V KLT+L LY+ ++
Sbjct: 33 LELESNKLQSLPHGVFDKLTQLTKLSLSQ-NQIQSLPDGVFDKLTKLTILYLHENKLQSL 91
Query: 540 FEGLNIERSNASLQELRHLSQLTTLEIQIQDAMILPKGLFSKKLERYKIYI-GDEWDWS 597
G+ L+QL L + +P G+F + KI++ + WD S
Sbjct: 92 PNGV-----------FDKLTQLKELALDTNQLKSVPDGIFDRLTSLQKIWLHTNPWDCS 139
>pdb|2DUK|A Chain A, Crystal Structure Of Ms0616
pdb|2DUK|B Chain B, Crystal Structure Of Ms0616
Length = 138
Score = 30.8 bits (68), Expect = 2.9, Method: Composition-based stats.
Identities = 17/53 (32%), Positives = 28/53 (52%), Gaps = 9/53 (16%)
Query: 308 LGLFEGIYTMQERRDRVYALVHILKDSCLLLD-------GRTEDWFSMHDIVR 353
LG GI+ Q+R+ R Y V++L + +L D GR +WF + D ++
Sbjct: 69 LGRLLGIFENQDRKHRTY--VYVLTVTEILEDWEDSVNIGRKREWFKVEDAIK 119
>pdb|3R8F|A Chain A, Protein-Dna Complex
pdb|3R8F|B Chain B, Protein-Dna Complex
pdb|3R8F|C Chain C, Protein-Dna Complex
pdb|3R8F|D Chain D, Protein-Dna Complex
Length = 324
Score = 30.4 bits (67), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 42/88 (47%), Gaps = 18/88 (20%)
Query: 57 NMIGVYGIGGVGKTALMHEVLFEAKKQNLFDQVIFVLASSTANVKRIQDEIADQLCLELC 116
N I +YG G GKT L+ EAKK+ +VI+ A D+ A + L
Sbjct: 38 NPIFIYGSVGTGKTHLLQAAGNEAKKRGY--RVIYSSA----------DDFAQAMVEHLK 85
Query: 117 KGTESERARTLFDRLWKENKILVILDDI 144
KGT +E F ++K +L +LDD+
Sbjct: 86 KGTINE-----FRNMYKSVDLL-LLDDV 107
>pdb|2HCB|A Chain A, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
pdb|2HCB|B Chain B, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
pdb|2HCB|C Chain C, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
pdb|2HCB|D Chain D, Structure Of Amppcp-Bound Dnaa From Aquifex Aeolicus
Length = 323
Score = 30.4 bits (67), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 42/88 (47%), Gaps = 18/88 (20%)
Query: 57 NMIGVYGIGGVGKTALMHEVLFEAKKQNLFDQVIFVLASSTANVKRIQDEIADQLCLELC 116
N I +YG G GKT L+ EAKK+ +VI+ A D+ A + L
Sbjct: 37 NPIFIYGSVGTGKTHLLQAAGNEAKKRGY--RVIYSSA----------DDFAQAMVEHLK 84
Query: 117 KGTESERARTLFDRLWKENKILVILDDI 144
KGT +E F ++K +L +LDD+
Sbjct: 85 KGTINE-----FRNMYKSVDLL-LLDDV 106
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 30.0 bits (66), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 33/55 (60%), Gaps = 2/55 (3%)
Query: 470 SIIGNLKKLEILSLVD-SDIERLPNEIGQLTQLRCLDLSFCRNLKVIPPNVISKL 523
I G L+ L L D S++ LP +I +LTQL LDL C NL + P++I++L
Sbjct: 247 PIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRL-PSLIAQL 300
>pdb|1IKF|L Chain L, A Conformation Of Cyclosporin A In Aqueous Environment
Revealed By The X-Ray Structure Of A Cyclosporin-Fab
Complex
Length = 214
Score = 29.6 bits (65), Expect = 7.9, Method: Composition-based stats.
Identities = 24/89 (26%), Positives = 38/89 (42%), Gaps = 11/89 (12%)
Query: 472 IGNLKKLEILSLVDSDIERLPNEIGQLTQLRCLDLSFCRNLKVIPPNVISKLTQ------ 525
I NL++ +I + R+P G T+L L + + PP+ +LT
Sbjct: 75 ISNLEQEDIATYFCQQGSRIPPTFGGGTKLEILRADAAPTVSIFPPSS-EQLTSGGASVV 133
Query: 526 --LEELYMGNTSVKWEFEGLNIERSNASL 552
L Y + +VKW+ +G ER N L
Sbjct: 134 CFLNNFYPKDINVKWKIDG--SERQNGVL 160
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 29.6 bits (65), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 37/138 (26%), Positives = 67/138 (48%), Gaps = 24/138 (17%)
Query: 470 SIIGNLKKLEILSLVDSDIERLPNE-IGQLTQLRCLDLSFCRNLKVIPPNVISKLTQLEE 528
+I + KKL++ S + + LP++ +LT+LR L L+ + L+ +P + +L LE
Sbjct: 34 NIPADTKKLDLQS---NKLSSLPSKAFHRLTKLRLLYLNDNK-LQTLPAGIFKELKNLET 89
Query: 529 LYMGNTSVKWEFEGLNIERSNASLQELR---------------HLSQLTTLEIQIQDAMI 573
L++ T K + + + +L ELR L++LT L + +
Sbjct: 90 LWV--TDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQS 147
Query: 574 LPKGLFSK--KLERYKIY 589
LPKG+F K L+ ++Y
Sbjct: 148 LPKGVFDKLTSLKELRLY 165
>pdb|2R6F|A Chain A, Crystal Structure Of Bacillus Stearothermophilus Uvra
pdb|2R6F|B Chain B, Crystal Structure Of Bacillus Stearothermophilus Uvra
Length = 972
Score = 29.3 bits (64), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 54 PNVNMIGVYGIGGVGKTALMHEVLFEAKKQNL 85
P + V G+ G GK+ L++EVL++A Q L
Sbjct: 648 PLGTFVAVTGVSGSGKSTLVNEVLYKALAQKL 679
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 0.139 0.417
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 23,651,357
Number of Sequences: 62578
Number of extensions: 949215
Number of successful extensions: 2495
Number of sequences better than 100.0: 65
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 61
Number of HSP's that attempted gapping in prelim test: 2448
Number of HSP's gapped (non-prelim): 101
length of query: 839
length of database: 14,973,337
effective HSP length: 107
effective length of query: 732
effective length of database: 8,277,491
effective search space: 6059123412
effective search space used: 6059123412
T: 11
A: 40
X1: 16 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 56 (26.2 bits)