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= 040332
(1210 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 45.4 bits (106), Expect = 2e-04, Method: Composition-based stats.
Identities = 37/122 (30%), Positives = 63/122 (51%), Gaps = 10/122 (8%)
Query: 584 KLLDISGIGDLKKLEFLCLRGCDIRQLPIEV-GELICLKLLDLRDCSKLEVIPPHILSNL 642
KL DIS + +L L +L L G ++ LP V +L LK L L + ++L+ +P + L
Sbjct: 74 KLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE-NQLQSLPDGVFDKL 132
Query: 643 SHLEELNIGDNSFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINCLPRGLFFEKLERYR 702
++L LN+ N ++ + ++L +LT L L + LP G+ F+KL + +
Sbjct: 133 TNLTYLNLAHN-------QLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGV-FDKLTQLK 184
Query: 703 IL 704
L
Sbjct: 185 DL 186
>pdb|3SFZ|A Chain A, Crystal Structure Of Full-Length Murine Apaf-1
Length = 1249
Score = 43.9 bits (102), Expect = 6e-04, Method: Compositional matrix adjust.
Identities = 56/214 (26%), Positives = 83/214 (38%), Gaps = 37/214 (17%)
Query: 180 IYGMGGIGKTMLAEEVARKIKS-DKIFDQVVFAEVSQSQD----IRKIQG---------E 225
IYGM G GK++LA E R + F V QD + K+Q
Sbjct: 152 IYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEES 211
Query: 226 IADKLGLKFHEESEPGR-----EEKKILVILDNIWENLDLRVVGIPHGDDHRGCKILLTA 280
+ +L L E + R + + L+ILD++W+ L+ C+ILLT
Sbjct: 212 FSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFD-------NQCQILLTT 264
Query: 281 RSLDVLSRKMDSQQNFAV----GILKEVEAWSLFKKMAGDYIEGSEFQLVAREVEKECAG 336
R V M + V G K +E SLF M + + A + KEC G
Sbjct: 265 RDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAE-----AHSIIKECKG 319
Query: 337 LPVSIVTVARALRNNKSLFDWKDALEQLRRPPLK 370
P+ + + LR+ + W L QL+ K
Sbjct: 320 SPLVVSLIGALLRDFPN--RWAYYLRQLQNKQFK 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 = 43.1 bits (100), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 55/214 (25%), Positives = 87/214 (40%), Gaps = 37/214 (17%)
Query: 180 IYGMGGIGKTMLAEEVARKIKS-DKIFDQVVFAEVSQSQD----IRKIQG---------E 225
I+GM G GK++LA E R + F V QD + K+Q
Sbjct: 158 IHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDES 217
Query: 226 IADKLGLKFHEESEPGR-----EEKKILVILDNIWENLDLRVVGIPHGDDHRGCKILLTA 280
+ +L L E + R + + L+ILD++W++ L+ C+ILLT
Sbjct: 218 FSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFD-------SQCQILLTT 270
Query: 281 RSLDVLSRKMDSQQNFAV----GILKEVEAWSLFKKMAGDYIEGSEFQLVAREVEKECAG 336
R V M + V G K +E SLF M + ++ A + KEC G
Sbjct: 271 RDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNM-----KKADLPEQAHSIIKECKG 325
Query: 337 LPVSIVTVARALRNNKSLFDWKDALEQLRRPPLK 370
P+ + + LR+ + W+ L+QL+ K
Sbjct: 326 SPLVVSLIGALLRDFPN--RWEYYLKQLQNKQFK 357
>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 = 0.002, Method: Compositional matrix adjust.
Identities = 55/214 (25%), Positives = 87/214 (40%), Gaps = 37/214 (17%)
Query: 180 IYGMGGIGKTMLAEEVARKIKS-DKIFDQVVFAEVSQSQD----IRKIQG---------E 225
I+GM G GK++LA E R + F V QD + K+Q
Sbjct: 152 IHGMAGCGKSVLAAEAVRDHSLLEGCFPGGVHWVSVGKQDKSGLLMKLQNLCTRLDQDES 211
Query: 226 IADKLGLKFHEESEPGR-----EEKKILVILDNIWENLDLRVVGIPHGDDHRGCKILLTA 280
+ +L L E + R + + L+ILD++W++ L+ C+ILLT
Sbjct: 212 FSQRLPLNIEEAKDRLRILMLRKHPRSLLILDDVWDSWVLKAFD-------SQCQILLTT 264
Query: 281 RSLDVLSRKMDSQQNFAV----GILKEVEAWSLFKKMAGDYIEGSEFQLVAREVEKECAG 336
R V M + V G K +E SLF M + ++ A + KEC G
Sbjct: 265 RDKSVTDSVMGPKYVVPVESSLGKEKGLEILSLFVNM-----KKADLPEQAHSIIKECKG 319
Query: 337 LPVSIVTVARALRNNKSLFDWKDALEQLRRPPLK 370
P+ + + LR+ + W+ L+QL+ K
Sbjct: 320 SPLVVSLIGALLRDFPN--RWEYYLKQLQNKQFK 351
>pdb|3SHF|A Chain A, Crystal Structure Of The R265s Mutant Of Full-Length
Murine Apaf-1
Length = 1256
Score = 41.2 bits (95), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 55/214 (25%), Positives = 82/214 (38%), Gaps = 37/214 (17%)
Query: 180 IYGMGGIGKTMLAEEVARKIKS-DKIFDQVVFAEVSQSQD----IRKIQG---------E 225
IYGM G GK++LA E R + F V QD + K+Q
Sbjct: 159 IYGMAGCGKSVLAAEAVRDHSLLEGCFSGGVHWVSIGKQDKSGLLMKLQNLCMRLDQEES 218
Query: 226 IADKLGLKFHEESEPGR-----EEKKILVILDNIWENLDLRVVGIPHGDDHRGCKILLTA 280
+ +L L E + R + + L+ILD++W+ L+ C+ILLT
Sbjct: 219 FSQRLPLNIEEAKDRLRVLMLRKHPRSLLILDDVWDPWVLKAFD-------NQCQILLTT 271
Query: 281 RSLDVLSRKMDSQQNFAV----GILKEVEAWSLFKKMAGDYIEGSEFQLVAREVEKECAG 336
V M + V G K +E SLF M + + A + KEC G
Sbjct: 272 SDKSVTDSVMGPKHVVPVESGLGREKGLEILSLFVNMKKEDLPAE-----AHSIIKECKG 326
Query: 337 LPVSIVTVARALRNNKSLFDWKDALEQLRRPPLK 370
P+ + + LR+ + W L QL+ K
Sbjct: 327 SPLVVSLIGALLRDFPN--RWAYYLRQLQNKQFK 358
>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 = 0.005, Method: Composition-based stats.
Identities = 36/122 (29%), Positives = 62/122 (50%), Gaps = 10/122 (8%)
Query: 584 KLLDISGIGDLKKLEFLCLRGCDIRQLPIEV-GELICLKLLDLRDCSKLEVIPPHILSNL 642
KL DIS + +L L +L L G ++ LP V +L LK L L + ++L+ +P + L
Sbjct: 74 KLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVE-NQLQSLPDGVFDKL 132
Query: 643 SHLEELNIGDNSFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINCLPRGLFFEKLERYR 702
++L L Y + ++ + ++L +LT L L + LP G+ F+KL + +
Sbjct: 133 TNLTYL-------YLYHNQLQSLPKGVFDKLTNLTRLDLDNNQLQSLPEGV-FDKLTQLK 184
Query: 703 IL 704
L
Sbjct: 185 QL 186
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 37.7 bits (86), Expect = 0.038, Method: Composition-based stats.
Identities = 27/62 (43%), Positives = 34/62 (54%), Gaps = 2/62 (3%)
Query: 590 GIGDLKKLEFLCLRGCD-IRQLPIEVGELICLKLLDLRDCSKLEVIPPHILSNLSHLEEL 648
I L KLE L LRGC +R P G LK L L+DCS L +P I L+ LE+L
Sbjct: 224 AIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDI-HRLTQLEKL 282
Query: 649 NI 650
++
Sbjct: 283 DL 284
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 36.2 bits (82), Expect = 0.13, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 43/81 (53%), Gaps = 7/81 (8%)
Query: 629 SKLEVIPPHILSNLSHLEELNIGDNSFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINC 688
++L+ +PP +L+ LE+L++ +N ++ + LN L++L +L L+ +
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLANN-------QLTELPAGLLNGLENLDTLLLQENSLYT 186
Query: 689 LPRGLFFEKLERYRILIGDFW 709
+P+G F L + L G+ W
Sbjct: 187 IPKGFFGSHLLPFAFLHGNPW 207
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 36.2 bits (82), Expect = 0.13, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 43/81 (53%), Gaps = 7/81 (8%)
Query: 629 SKLEVIPPHILSNLSHLEELNIGDNSFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINC 688
++L+ +PP +L+ LE+L++ +N ++ + LN L++L +L L+ +
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLANN-------QLTELPAGLLNGLENLDTLLLQENSLYT 186
Query: 689 LPRGLFFEKLERYRILIGDFW 709
+P+G F L + L G+ W
Sbjct: 187 IPKGFFGSHLLPFAFLHGNPW 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 = 36.2 bits (82), Expect = 0.13, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 43/81 (53%), Gaps = 7/81 (8%)
Query: 629 SKLEVIPPHILSNLSHLEELNIGDNSFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINC 688
++L+ +PP +L+ LE+L++ +N ++ + LN L++L +L L+ +
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLANN-------QLTELPAGLLNGLENLDTLLLQENSLYT 186
Query: 689 LPRGLFFEKLERYRILIGDFW 709
+P+G F L + L G+ W
Sbjct: 187 IPKGFFGSHLLPFAFLHGNPW 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 = 36.2 bits (82), Expect = 0.13, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 43/81 (53%), Gaps = 7/81 (8%)
Query: 629 SKLEVIPPHILSNLSHLEELNIGDNSFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINC 688
++L+ +PP +L+ LE+L++ +N ++ + LN L++L +L L+ +
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLANN-------QLTELPAGLLNGLENLDTLLLQENSLYT 186
Query: 689 LPRGLFFEKLERYRILIGDFW 709
+P+G F L + L G+ W
Sbjct: 187 IPKGFFGSHLLPFAFLHGNPW 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 = 36.2 bits (82), Expect = 0.13, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 42/81 (51%), Gaps = 7/81 (8%)
Query: 629 SKLEVIPPHILSNLSHLEELNIGDNSFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINC 688
++L+ +PP +L+ LE+L++ +N+ + LN L++L +L L+ +
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLANNNLTE-------LPAGLLNGLENLDTLLLQENSLYT 186
Query: 689 LPRGLFFEKLERYRILIGDFW 709
+P+G F L + L G+ W
Sbjct: 187 IPKGFFGSHLLPFAFLHGNPW 207
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 35.8 bits (81), Expect = 0.13, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 42/81 (51%), Gaps = 7/81 (8%)
Query: 629 SKLEVIPPHILSNLSHLEELNIGDNSFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINC 688
++L+ +PP +L+ LE+L++ +N+ + LN L++L +L L+ +
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLANNNLTE-------LPAGLLNGLENLDTLLLQENSLYT 186
Query: 689 LPRGLFFEKLERYRILIGDFW 709
+P+G F L + L G+ W
Sbjct: 187 IPKGFFGSHLLPFAFLHGNPW 207
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 35.8 bits (81), Expect = 0.13, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 42/81 (51%), Gaps = 7/81 (8%)
Query: 629 SKLEVIPPHILSNLSHLEELNIGDNSFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINC 688
++L+ +PP +L+ LE+L++ +N+ + LN L++L +L L+ +
Sbjct: 135 NELKTLPPGLLTPTPKLEKLSLANNNLTE-------LPAGLLNGLENLDTLLLQENSLYT 187
Query: 689 LPRGLFFEKLERYRILIGDFW 709
+P+G F L + L G+ W
Sbjct: 188 IPKGFFGSHLLPFAFLHGNPW 208
>pdb|1OOK|G Chain G, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Human Alpha-thrombin
Length = 290
Score = 35.8 bits (81), Expect = 0.13, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 42/81 (51%), Gaps = 7/81 (8%)
Query: 629 SKLEVIPPHILSNLSHLEELNIGDNSFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINC 688
++L+ +PP +L+ LE+L++ +N+ + LN L++L +L L+ +
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLANNNLTE-------LPAGLLNGLENLDTLLLQENSLYT 186
Query: 689 LPRGLFFEKLERYRILIGDFW 709
+P+G F L + L G+ W
Sbjct: 187 IPKGFFGSHLLPFAFLHGNPW 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 = 35.8 bits (81), Expect = 0.14, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 43/81 (53%), Gaps = 7/81 (8%)
Query: 629 SKLEVIPPHILSNLSHLEELNIGDNSFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINC 688
++L+ +PP +L+ LE+L++ +N ++ + LN L++L +L L+ +
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLANN-------DLTELPAGLLNGLENLDTLLLQENSLYT 186
Query: 689 LPRGLFFEKLERYRILIGDFW 709
+P+G F L + L G+ W
Sbjct: 187 IPKGFFGSHLLPFAFLHGNPW 207
>pdb|3PMH|G Chain G, Mechanism Of Sulfotyrosine-Mediated Glycoprotein Ib
Interaction With Two Distinct Alpha-Thrombin Sites
Length = 290
Score = 35.8 bits (81), Expect = 0.14, Method: Composition-based stats.
Identities = 21/81 (25%), Positives = 42/81 (51%), Gaps = 7/81 (8%)
Query: 629 SKLEVIPPHILSNLSHLEELNIGDNSFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINC 688
++L+ +PP +L+ LE+L++ +N+ + LN L++L +L L+ +
Sbjct: 134 NELKTLPPGLLTPTPKLEKLSLANNNLTE-------LPAGLLNGLENLDTLLLQENSLYT 186
Query: 689 LPRGLFFEKLERYRILIGDFW 709
+P+G F L + L G+ W
Sbjct: 187 IPKGFFGSHLLPFAFLHGNPW 207
>pdb|2QGZ|A Chain A, Crystal Structure Of A Putative Primosome Component From
Streptococcus Pyogenes Serotype M3. Northeast Structural
Genomics Target Dr58
Length = 308
Score = 35.0 bits (79), Expect = 0.24, Method: Compositional matrix adjust.
Identities = 37/141 (26%), Positives = 61/141 (43%), Gaps = 8/141 (5%)
Query: 68 EENVENWLASANNVIVEADKFTDDEATANKRCFKGFCPNLNTRRGLNKEVERQKKAIVKV 127
+E + L+ N +VE K+ + + KG+ P L G + K +V+
Sbjct: 43 QEQINLSLSKFNQFLVERQKYQLKDPS---YIAKGYQPILAMNEGYADVSYLETKELVEA 99
Query: 128 -REAGRFDRISYRTAPEDIRLISSKDYEAFE-SRMPTLRSILSALED-PDVNMLGIYGMG 184
++A +RI + P+ R I D + SRM +IL +E P G+Y G
Sbjct: 100 QKQAAISERIQLVSLPKSYRHIHLSDIDVNNASRMEAFSAILDFVEQYPSAEQKGLYLYG 159
Query: 185 --GIGKTMLAEEVARKIKSDK 203
GIGK+ L +A ++ K
Sbjct: 160 DMGIGKSYLLAAMAHELSEKK 180
>pdb|3A79|B Chain B, Crystal Structure Of Tlr2-Tlr6-Pam2csk4 Complex
Length = 562
Score = 34.3 bits (77), Expect = 0.43, Method: Compositional matrix adjust.
Identities = 34/120 (28%), Positives = 51/120 (42%), Gaps = 12/120 (10%)
Query: 591 IGDLKKLEFLCLRGCDIRQLPIEVGELICLKLLDLRDCSKLEVIPPHILSNLSHLEELNI 650
G+L KL FL L RQL +L+ + L L C L+++ HI E L I
Sbjct: 142 FGNLTKLTFLGLSAAKFRQL-----DLLPVAHLHL-SCILLDLVSYHIKG--GETESLQI 193
Query: 651 GDNSFYHWEVEVDGV----KNASLNELKHLTSLQLRIKDINCLPRGLFFEKLERYRILIG 706
+ + H + + N S+N L HL +++ D NC F +L R L+
Sbjct: 194 PNTTVLHLVFHPNSLFSVQVNMSVNALGHLQLSNIKLNDENCQRLMTFLSELTRGPTLLN 253
>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 = 34.3 bits (77), Expect = 0.47, Method: Composition-based stats.
Identities = 24/82 (29%), Positives = 41/82 (50%), Gaps = 9/82 (10%)
Query: 623 LDLRDCSKLEVIPPHILSNLSHLEELNIGDNSFYHWEVEVDGVKNASLNELKHLTSLQLR 682
LDL + + L+ +P + L+ L +L +G N ++ + N N+L LT L L
Sbjct: 33 LDL-ETNSLKSLPNGVFDELTSLTQLYLGGN-------KLQSLPNGVFNKLTSLTYLNLS 84
Query: 683 IKDINCLPRGLFFEKLERYRIL 704
+ LP G+ F+KL + + L
Sbjct: 85 TNQLQSLPNGV-FDKLTQLKEL 105
>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 = 33.9 bits (76), Expect = 0.58, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 41/83 (49%), Gaps = 7/83 (8%)
Query: 594 LKKLEFLCLRGCDIRQ--LPIEVGELICLKLLDLRDCSKLEVIPPHILSNLSHLEELNIG 651
L LE L + G ++ LP EL L LDL C +LE + P ++LS L+ LN+
Sbjct: 149 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMS 207
Query: 652 DNSFYHWEVEVDGVKNASLNELK 674
N+F+ +D LN L+
Sbjct: 208 HNNFF----SLDTFPYKCLNSLQ 226
>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 = 33.9 bits (76), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 41/83 (49%), Gaps = 7/83 (8%)
Query: 594 LKKLEFLCLRGCDIRQ--LPIEVGELICLKLLDLRDCSKLEVIPPHILSNLSHLEELNIG 651
L LE L + G ++ LP EL L LDL C +LE + P ++LS L+ LN+
Sbjct: 444 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMS 502
Query: 652 DNSFYHWEVEVDGVKNASLNELK 674
N+F+ +D LN L+
Sbjct: 503 HNNFF----SLDTFPYKCLNSLQ 521
>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 = 33.9 bits (76), Expect = 0.60, Method: Compositional matrix adjust.
Identities = 29/85 (34%), Positives = 42/85 (49%), Gaps = 7/85 (8%)
Query: 594 LKKLEFLCLRGCDIRQ--LPIEVGELICLKLLDLRDCSKLEVIPPHILSNLSHLEELNIG 651
L LE L + G ++ LP EL L LDL C +LE + P ++LS L+ LN+
Sbjct: 468 LSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQVLNMS 526
Query: 652 DNSFYHWEVEVDGVKNASLNELKHL 676
N+F+ +D LN L+ L
Sbjct: 527 HNNFF----SLDTFPYKCLNSLQVL 547
>pdb|1GKL|A Chain A, S954a Mutant Of The Feruloyl Esterase Module From
Clostridium Thermocellum Complexed With Ferulic Acid
pdb|1GKL|B Chain B, S954a Mutant Of The Feruloyl Esterase Module From
Clostridium Thermocellum Complexed With Ferulic Acid
pdb|1WB4|A Chain A, S954a Mutant Of The Feruloyl Esterase Module From
Clostridium Thermocellum Complexed With Sinapinate
pdb|1WB4|B Chain B, S954a Mutant Of The Feruloyl Esterase Module From
Clostridium Thermocellum Complexed With Sinapinate
pdb|1WB5|A Chain A, S954a Mutant Of The Feruloyl Esterase Module From
Clostridium Thermocellum Complexed With Syringate
pdb|1WB5|B Chain B, S954a Mutant Of The Feruloyl Esterase Module From
Clostridium Thermocellum Complexed With Syringate
pdb|1WB6|A Chain A, S954a Mutant Of The Feruloyl Esterase Module From
Clostridium Thermocellum Complexed With Vanillate
pdb|1WB6|B Chain B, S954a Mutant Of The Feruloyl Esterase Module From
Clostridium Thermocellum Complexed With Vanillate
Length = 297
Score = 32.7 bits (73), Expect = 1.3, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 350 NNKSLFDWKDALEQLRRPPLKNFMNIQPNAHKAIKLSYDNLGGEELKNVFLLIGY 404
N S F ++ A++ RP +++N P A + +K +Y + G + NV+L GY
Sbjct: 11 NPSSSFKYESAVQY--RPAPDSYLNPCPQAGRIVKETYTGINGTKSLNVYLPYGY 63
>pdb|1GKK|A Chain A, Feruloyl Esterase Domain Of Xyny From Clostridium
Thermocellum
pdb|1GKK|B Chain B, Feruloyl Esterase Domain Of Xyny From Clostridium
Thermocellum
pdb|4H35|A Chain A, Feruloyl Esterase Domain Of Xyny From Clostridium
Thermocellum Before Exposure To 266nm Uv Laser
pdb|4H35|B Chain B, Feruloyl Esterase Domain Of Xyny From Clostridium
Thermocellum Before Exposure To 266nm Uv Laser
Length = 297
Score = 32.7 bits (73), Expect = 1.3, Method: Composition-based stats.
Identities = 17/55 (30%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 350 NNKSLFDWKDALEQLRRPPLKNFMNIQPNAHKAIKLSYDNLGGEELKNVFLLIGY 404
N S F ++ A++ RP +++N P A + +K +Y + G + NV+L GY
Sbjct: 11 NPSSSFKYESAVQY--RPAPDSYLNPCPQAGRIVKETYTGINGTKSLNVYLPYGY 63
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 32.0 bits (71), Expect = 2.4, Method: Composition-based stats.
Identities = 34/120 (28%), Positives = 52/120 (43%), Gaps = 13/120 (10%)
Query: 594 LKKLEFLCLRGCDIRQLPIEV-GELICLKLLDLRDCSKLEVIPPHILSNLSHLEELNIGD 652
L L+ L L + LP+ V L L +LDL ++L V+P + L HL+EL +
Sbjct: 63 LINLKELYLGSNQLGALPVGVFDSLTQLTVLDL-GTNQLTVLPSAVFDRLVHLKELFMCC 121
Query: 653 NSFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINCLPRGLFFEKLER--YRILIGDFWN 710
N + L HLT L L + +P G F++L + L G+ W+
Sbjct: 122 NKLTELP--------RGIERLTHLTHLALDQNQLKSIPHGA-FDRLSSLTHAYLFGNPWD 172
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 31.6 bits (70), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 53/121 (43%), Gaps = 22/121 (18%)
Query: 592 GDLKKLEFLCLRGCDIRQLPIEV-GELICLKLLDLRDCSKLEVIPPHILSNLSHLEELNI 650
D KKL+ L+ + LP + L L+LL L D +KL+ +P I L +LE L +
Sbjct: 37 ADTKKLD---LQSNKLSSLPSKAFHRLTKLRLLYLND-NKLQTLPAGIFKELKNLETLWV 92
Query: 651 GDNSFYHWEVEV-DGVKNAS----------------LNELKHLTSLQLRIKDINCLPRGL 693
DN + V D + N + + L LT L L ++ LP+G+
Sbjct: 93 TDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSLPKGV 152
Query: 694 F 694
F
Sbjct: 153 F 153
>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 = 31.6 bits (70), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 37/66 (56%), Gaps = 2/66 (3%)
Query: 591 IGDLKKLEFLCLRGCDIR-QLPIEVGELICLKLLDLRDCSKLEVIPPHILSNLSHLEELN 649
IG + L L L DI +P EVG+L L +LDL +KL+ P +S L+ L E++
Sbjct: 649 IGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSS-NKLDGRIPQAMSALTMLTEID 707
Query: 650 IGDNSF 655
+ +N+
Sbjct: 708 LSNNNL 713
>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 = 31.2 bits (69), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 24/66 (36%), Positives = 37/66 (56%), Gaps = 2/66 (3%)
Query: 591 IGDLKKLEFLCLRGCDIR-QLPIEVGELICLKLLDLRDCSKLEVIPPHILSNLSHLEELN 649
IG + L L L DI +P EVG+L L +LDL +KL+ P +S L+ L E++
Sbjct: 652 IGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSS-NKLDGRIPQAMSALTMLTEID 710
Query: 650 IGDNSF 655
+ +N+
Sbjct: 711 LSNNNL 716
>pdb|3RJ5|A Chain A, Structure Of Alcohol Dehydrogenase From Drosophila
Lebanonesis T114v Mutant Complexed With Nad+
pdb|3RJ5|B Chain B, Structure Of Alcohol Dehydrogenase From Drosophila
Lebanonesis T114v Mutant Complexed With Nad+
pdb|3RJ9|A Chain A, Structure Of Alcohol Dehydrogenase From Drosophila
Lebanonesis T114v Mutant Complexed With Nad+
pdb|3RJ9|B Chain B, Structure Of Alcohol Dehydrogenase From Drosophila
Lebanonesis T114v Mutant Complexed With Nad+
pdb|3RJ9|C Chain C, Structure Of Alcohol Dehydrogenase From Drosophila
Lebanonesis T114v Mutant Complexed With Nad+
pdb|3RJ9|D Chain D, Structure Of Alcohol Dehydrogenase From Drosophila
Lebanonesis T114v Mutant Complexed With Nad+
pdb|3RJ9|E Chain E, Structure Of Alcohol Dehydrogenase From Drosophila
Lebanonesis T114v Mutant Complexed With Nad+
pdb|3RJ9|F Chain F, Structure Of Alcohol Dehydrogenase From Drosophila
Lebanonesis T114v Mutant Complexed With Nad+
Length = 254
Score = 30.8 bits (68), Expect = 4.8, Method: Composition-based stats.
Identities = 28/103 (27%), Positives = 48/103 (46%), Gaps = 16/103 (15%)
Query: 176 NMLGIYGMGGIGKTMLAEEVARKIKSDKIFDQV----VFAEVSQSQDIRKIQGEIADKLG 231
N++ + +GGIG E V R +K+ I D+V AE+ I K+
Sbjct: 7 NVIFVAALGGIGLDTSRELVKRNLKNFVILDRVENPTALAELKA----------INPKVN 56
Query: 232 LKFH--EESEPGREEKKILVILDNIWENLDLRVVGIPHGDDHR 272
+ FH + + P E KK+L + + + +D+ + G DDH+
Sbjct: 57 ITFHTYDVTVPVAESKKLLKKIFDQLKTVDILINGAGILDDHQ 99
>pdb|1A4U|A Chain A, Alcohol Dehydrogenase From Drosophila Lebanonensis
pdb|1A4U|B Chain B, Alcohol Dehydrogenase From Drosophila Lebanonensis
pdb|1B16|A Chain A, Alcohol Dehydrogenase From Drosophila Lebanonensis Ternary
Complex With Nad-3-pentanone
pdb|1B16|B Chain B, Alcohol Dehydrogenase From Drosophila Lebanonensis Ternary
Complex With Nad-3-pentanone
pdb|1B14|A Chain A, Alcohol Dehydrogenase From Drosophila Lebanonensis Binary
Complex With Nad+
pdb|1B14|B Chain B, Alcohol Dehydrogenase From Drosophila Lebanonensis Binary
Complex With Nad+
pdb|1B15|A Chain A, Alcohol Dehydrogenase From Drosophila Lebanonensis Ternary
Complex With Nad-Acetone
pdb|1B15|B Chain B, Alcohol Dehydrogenase From Drosophila Lebanonensis Ternary
Complex With Nad-Acetone
pdb|1B2L|A Chain A, Alcohol Dehydrogenase From Drosophila Lebanonensis:
Ternary Complex With Nad-Cyclohexanone
pdb|1SBY|A Chain A, Alcohol Dehydrogenase From Drosophila Lebanonensis
Complexed With Nad+ And 2,2,2-Trifluoroethanol At 1.1 A
Resolution
pdb|1SBY|B Chain B, Alcohol Dehydrogenase From Drosophila Lebanonensis
Complexed With Nad+ And 2,2,2-Trifluoroethanol At 1.1 A
Resolution
Length = 254
Score = 30.8 bits (68), Expect = 4.8, Method: Composition-based stats.
Identities = 28/103 (27%), Positives = 48/103 (46%), Gaps = 16/103 (15%)
Query: 176 NMLGIYGMGGIGKTMLAEEVARKIKSDKIFDQV----VFAEVSQSQDIRKIQGEIADKLG 231
N++ + +GGIG E V R +K+ I D+V AE+ I K+
Sbjct: 7 NVIFVAALGGIGLDTSRELVKRNLKNFVILDRVENPTALAELKA----------INPKVN 56
Query: 232 LKFH--EESEPGREEKKILVILDNIWENLDLRVVGIPHGDDHR 272
+ FH + + P E KK+L + + + +D+ + G DDH+
Sbjct: 57 ITFHTYDVTVPVAESKKLLKKIFDQLKTVDILINGAGILDDHQ 99
>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 = 30.8 bits (68), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 55/112 (49%), Gaps = 11/112 (9%)
Query: 594 LKKLEFLCLRGCDIRQLPIEVGELICLKLLDLRDCSKLEVIPPHILSNLSHLEELNIGDN 653
L L +L L C+++ +P + L+ L+ L+L ++L++I P L+ L +L
Sbjct: 155 LVNLRYLNLGMCNLKDIP-NLTALVRLEELELSG-NRLDLIRPGSFQGLTSLRKL----- 207
Query: 654 SFYHWEVEVDGVKNASLNELKHLTSLQLRIKDINCLPRGLF--FEKLERYRI 703
+ +V ++ + ++LK L L L ++ LP LF +LER +
Sbjct: 208 --WLMHAQVATIERNAFDDLKSLEELNLSHNNLMSLPHDLFTPLHRLERVHL 257
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 30.8 bits (68), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 40/155 (25%), Positives = 67/155 (43%), Gaps = 31/155 (20%)
Query: 180 IYGMGGIGKTMLAEEVARKIKSDKIFDQVVFAEVSQS---------QDIRKIQGEIA--- 227
+YG G GKT+LA+ VA + + F ++V +E+ Q + I K+ GE A
Sbjct: 221 LYGAPGTGKTLLAKAVANQTSA--TFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSI 278
Query: 228 ------DKLGLKFHEESEPG-REEKKILVILDNIWENLDLRVVGIPHGDDHRGCKILLTA 280
D +G K ++ + G RE ++ ++ L N + D R GD K+++
Sbjct: 279 VFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDR------GD----VKVIMAT 328
Query: 281 RSLDVLSRKMDSQQNFAVGILKEVEAWSLFKKMAG 315
++ L + IL E S KK+ G
Sbjct: 329 NKIETLDPALIRPGRIDRKILFENPDLSTKKKILG 363
>pdb|1F48|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1IHU|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase In Complex With
Mg-Adp-Alf3
pdb|1II0|A Chain A, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II0|B Chain B, Crystal Structure Of The Escherichia Coli
Arsenite-Translocating Atpase
pdb|1II9|A Chain A, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
pdb|1II9|B Chain B, Crystal Structure Of The Escherichia Coli Arsenite-
Translocating Atpase In Complex With Amp-Pnp
Length = 589
Score = 30.8 bits (68), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 16/58 (27%), Positives = 33/58 (56%), Gaps = 1/58 (1%)
Query: 149 SSKDYEAFESRMPTLRSILSALEDPDVNMLGIYGMGGIGKTMLAEEVARKIKSDKIFD 206
SS +Y +P+L +++ + + ++ + G GG+GKT +A +A ++ +D FD
Sbjct: 301 SSDEYLQQRPDIPSLSALVDDIARNEHGLIMLMGKGGVGKTTMAAAIAVRL-ADMGFD 357
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
0.320 0.136 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 31,877,776
Number of Sequences: 62578
Number of extensions: 1253568
Number of successful extensions: 3749
Number of sequences better than 100.0: 63
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 59
Number of HSP's that attempted gapping in prelim test: 3719
Number of HSP's gapped (non-prelim): 82
length of query: 1210
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1100
effective length of database: 8,089,757
effective search space: 8898732700
effective search space used: 8898732700
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: 57 (26.6 bits)