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= 038338
(421 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 40.4 bits (93), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 33/90 (36%), Positives = 47/90 (52%), Gaps = 6/90 (6%)
Query: 169 FEGTEELKVLSLIGIHFSS--LPSSLGRLINLQTLCLDWCQLEDVA--AIGQLKKLEILN 224
F G L+VL + G F LP L NL L L CQLE ++ A L L++LN
Sbjct: 441 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLN 500
Query: 225 LADSNIEQLPLEI-GQLTGLRLLDL-TNCW 252
+A + ++ +P I +LT L+ + L TN W
Sbjct: 501 MASNQLKSVPDGIFDRLTSLQKIWLHTNPW 530
>pdb|3FXI|A Chain A, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
pdb|3FXI|B Chain B, Crystal Structure Of The Human Tlr4-Human Md-2-E.Coli Lps
Ra Complex
Length = 605
Score = 37.0 bits (84), Expect = 0.021, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 44/88 (50%), Gaps = 9/88 (10%)
Query: 169 FEGTEELKVLSLIGIHFSS--LPSSLGRLINLQTLCLDWCQLEDVA--AIGQLKKLEILN 224
F G L+VL + G F LP L NL L L CQLE ++ A L L++LN
Sbjct: 441 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLN 500
Query: 225 LADSN---IEQLPLEIGQLTGLRLLDLT 249
++ +N ++ P + L L++LD +
Sbjct: 501 MSHNNFFSLDTFPYKC--LNSLQVLDYS 526
>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 = 37.0 bits (84), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 44/88 (50%), Gaps = 9/88 (10%)
Query: 169 FEGTEELKVLSLIGIHFSS--LPSSLGRLINLQTLCLDWCQLEDVA--AIGQLKKLEILN 224
F G L+VL + G F LP L NL L L CQLE ++ A L L++LN
Sbjct: 465 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLN 524
Query: 225 LADSN---IEQLPLEIGQLTGLRLLDLT 249
++ +N ++ P + L L++LD +
Sbjct: 525 MSHNNFFSLDTFPYKC--LNSLQVLDYS 550
>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 = 36.2 bits (82), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 29/86 (33%), Positives = 43/86 (50%), Gaps = 9/86 (10%)
Query: 169 FEGTEELKVLSLIGIHFSS--LPSSLGRLINLQTLCLDWCQLEDVA--AIGQLKKLEILN 224
F G L+VL + G F LP L NL L L CQLE ++ A L L++LN
Sbjct: 146 FNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLN 205
Query: 225 LADSN---IEQLPLEIGQLTGLRLLD 247
++ +N ++ P + L L++LD
Sbjct: 206 MSHNNFFSLDTFPYKC--LNSLQVLD 229
>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 = 35.0 bits (79), Expect = 0.085, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 37/64 (57%), Gaps = 2/64 (3%)
Query: 214 IGQLKKLEILNLADSNIE-QLPLEIGQLTGLRLLDLTNCWSLQVIAPNVISKLSRLEELY 272
IG + L ILNL ++I +P E+G L GL +LDL++ L P +S L+ L E+
Sbjct: 649 IGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSN-KLDGRIPQAMSALTMLTEID 707
Query: 273 MDNS 276
+ N+
Sbjct: 708 LSNN 711
Score = 28.5 bits (62), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 46/152 (30%), Positives = 63/152 (41%), Gaps = 20/152 (13%)
Query: 140 LPERLQCPNLQLFLLFRQGYGPVQISDLFFEGTEELKVLSLIGIHFS-SLPSSLGRLINL 198
LP Q P L L+ Q G EL L L + S ++PSSLG L L
Sbjct: 382 LPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKL 441
Query: 199 QTLCLDWCQLEDVAAIGQLKKLEILNLADSNIEQLPLEIGQLTGLRLLDLTNCWSLQVIA 258
+ L L W + + +L ++ L E L L+ LTG L+NC +L I+
Sbjct: 442 RDLKL-WLNMLEGEIPQELMYVKTL-------ETLILDFNDLTGEIPSGLSNCTNLNWIS 493
Query: 259 ----------PNVISKLSRLEELYM-DNSFSG 279
P I +L L L + +NSFSG
Sbjct: 494 LSNNRLTGEIPKWIGRLENLAILKLSNNSFSG 525
>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 = 34.7 bits (78), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 37/64 (57%), Gaps = 2/64 (3%)
Query: 214 IGQLKKLEILNLADSNIE-QLPLEIGQLTGLRLLDLTNCWSLQVIAPNVISKLSRLEELY 272
IG + L ILNL ++I +P E+G L GL +LDL++ L P +S L+ L E+
Sbjct: 652 IGSMPYLFILNLGHNDISGSIPDEVGDLRGLNILDLSSN-KLDGRIPQAMSALTMLTEID 710
Query: 273 MDNS 276
+ N+
Sbjct: 711 LSNN 714
Score = 28.1 bits (61), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 46/152 (30%), Positives = 63/152 (41%), Gaps = 20/152 (13%)
Query: 140 LPERLQCPNLQLFLLFRQGYGPVQISDLFFEGTEELKVLSLIGIHFS-SLPSSLGRLINL 198
LP Q P L L+ Q G EL L L + S ++PSSLG L L
Sbjct: 385 LPNLCQNPKNTLQELYLQNNGFTGKIPPTLSNCSELVSLHLSFNYLSGTIPSSLGSLSKL 444
Query: 199 QTLCLDWCQLEDVAAIGQLKKLEILNLADSNIEQLPLEIGQLTGLRLLDLTNCWSLQVIA 258
+ L L W + + +L ++ L E L L+ LTG L+NC +L I+
Sbjct: 445 RDLKL-WLNMLEGEIPQELMYVKTL-------ETLILDFNDLTGEIPSGLSNCTNLNWIS 496
Query: 259 ----------PNVISKLSRLEELYM-DNSFSG 279
P I +L L L + +NSFSG
Sbjct: 497 LSNNRLTGEIPKWIGRLENLAILKLSNNSFSG 528
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 34.3 bits (77), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 38/122 (31%), Positives = 56/122 (45%), Gaps = 27/122 (22%)
Query: 170 EGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVA-AIGQLKKLEILNLAD- 227
+G L+ L L SLP+S+ L NL++L + L + AI L KLE L+L
Sbjct: 180 QGLVNLQSLRLEWTGIRSLPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGC 239
Query: 228 ------------------------SNIEQLPLEIGQLTGLRLLDLTNCWSLQVIAPNVIS 263
SN+ LPL+I +LT L LDL C +L + P++I+
Sbjct: 240 TALRNYPPIFGGRAPLKRLILKDCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRL-PSLIA 298
Query: 264 KL 265
+L
Sbjct: 299 QL 300
>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 = 32.3 bits (72), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 49/177 (27%), Positives = 74/177 (41%), Gaps = 35/177 (19%)
Query: 103 ETRMFNIPNVA--DLEKKMEETIRKDPIAISLPQRNIQELPERLQCPNLQLFLLFRQGYG 160
+ R+ +P A L K E +R +PI S+P +P + L L L R Y
Sbjct: 92 DNRLTTVPTQAFEYLSKLRELWLRNNPIE-SIPSYAFNRVPSLRR---LDLGELKRLEY- 146
Query: 161 PVQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKL 220
IS+ FEG L+NL+ L L C L+D+ + L +L
Sbjct: 147 ---ISEAAFEG-----------------------LVNLRYLNLGMCNLKDIPNLTALVRL 180
Query: 221 EILNLADSNIEQL-PLEIGQLTGLRLLDLTNCWSLQVIAPNVISKLSRLEELYMDNS 276
E L L+ + ++ + P LT LR L L + + I N L LEEL + ++
Sbjct: 181 EELELSGNRLDLIRPGSFQGLTSLRKLWLMHA-QVATIERNAFDDLKSLEELNLSHN 236
>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 = 32.3 bits (72), Expect = 0.52, Method: Compositional matrix adjust.
Identities = 49/177 (27%), Positives = 74/177 (41%), Gaps = 35/177 (19%)
Query: 103 ETRMFNIPNVA--DLEKKMEETIRKDPIAISLPQRNIQELPERLQCPNLQLFLLFRQGYG 160
+ R+ +P A L K E +R +PI S+P +P + L L L R Y
Sbjct: 92 DNRLTTVPTQAFEYLSKLRELWLRNNPIE-SIPSYAFNRVPSLRR---LDLGELKRLEY- 146
Query: 161 PVQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKL 220
IS+ FEG L+NL+ L L C L+D+ + L +L
Sbjct: 147 ---ISEAAFEG-----------------------LVNLRYLNLGMCNLKDIPNLTALVRL 180
Query: 221 EILNLADSNIEQL-PLEIGQLTGLRLLDLTNCWSLQVIAPNVISKLSRLEELYMDNS 276
E L L+ + ++ + P LT LR L L + + I N L LEEL + ++
Sbjct: 181 EELELSGNRLDLIRPGSFQGLTSLRKLWLMHA-QVATIERNAFDDLKSLEELNLSHN 236
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 32.0 bits (71), Expect = 0.70, Method: Compositional matrix adjust.
Identities = 34/104 (32%), Positives = 53/104 (50%), Gaps = 5/104 (4%)
Query: 174 ELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDVAA--IGQLKKLEILNLADSNI 230
+ K L L SSLPS + RL L+ L L+ +L+ + A +LK LE L + D+ +
Sbjct: 38 DTKKLDLQSNKLSSLPSKAFHRLTKLRLLYLNDNKLQTLPAGIFKELKNLETLWVTDNKL 97
Query: 231 EQLPLEI-GQLTGLRLLDLTNCWSLQVIAPNVISKLSRLEELYM 273
+ LP+ + QL L L L L+ + P V L++L L +
Sbjct: 98 QALPIGVFDQLVNLAELRLDRN-QLKSLPPRVFDSLTKLTYLSL 140
>pdb|4AY2|A Chain A, Capturing 5' Tri-Phosphorylated Rna Duplex By Rig-I
Length = 687
Score = 32.0 bits (71), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 6/70 (8%)
Query: 328 RIGDKLEYEIDQLLVKSEALRLMMLKGLEKVSILQEND-GTKMLLQRTEDLWLVKLEGVQ 386
RI DK +Y I QL+ +E+L + K LE +S +Q + GT+ Q W+V ++
Sbjct: 228 RISDKFKYIIAQLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQ-----WIVTVQKAC 282
Query: 387 NVVHELDDGE 396
V D E
Sbjct: 283 MVFQMPDKDE 292
>pdb|3TMI|A Chain A, Structural Basis For Rna Recognition And Activation Of
Rig-I
Length = 695
Score = 32.0 bits (71), Expect = 0.73, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 6/70 (8%)
Query: 328 RIGDKLEYEIDQLLVKSEALRLMMLKGLEKVSILQEND-GTKMLLQRTEDLWLVKLEGVQ 386
RI DK +Y I QL+ +E+L + K LE +S +Q + GT+ Q W+V ++
Sbjct: 236 RISDKFKYIIAQLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQ-----WIVTVQKAC 290
Query: 387 NVVHELDDGE 396
V D E
Sbjct: 291 MVFQMPDKDE 300
>pdb|2YKG|A Chain A, Structural Insights Into Rna Recognition By Rig-I
Length = 696
Score = 32.0 bits (71), Expect = 0.75, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 35/70 (50%), Gaps = 6/70 (8%)
Query: 328 RIGDKLEYEIDQLLVKSEALRLMMLKGLEKVSILQEND-GTKMLLQRTEDLWLVKLEGVQ 386
RI DK +Y I QL+ +E+L + K LE +S +Q + GT+ Q W+V ++
Sbjct: 237 RISDKFKYIIAQLMRDTESLAKRICKDLENLSQIQNREFGTQKYEQ-----WIVTVQKAC 291
Query: 387 NVVHELDDGE 396
V D E
Sbjct: 292 MVFQMPDKDE 301
>pdb|3KJ4|A Chain A, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
pdb|3KJ4|D Chain D, Structure Of Rat Nogo Receptor Bound To 1d9 Antagonist
Antibody
Length = 286
Score = 30.8 bits (68), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 36/150 (24%), Positives = 62/150 (41%), Gaps = 35/150 (23%)
Query: 128 IAISLPQRNIQELPERLQCPNLQLFLLFRQGYGPVQISDLFFEGTEELKVL-----SLIG 182
+ S PQ+ +Q +P + + ++FL G + F+ L +L +L G
Sbjct: 13 VTTSCPQQGLQAVPTGIPASSQRIFL---HGNRISYVPAASFQSCRNLTILWLHSNALAG 69
Query: 183 IHFSSL---------------------PSSLGRLINLQTLCLDWCQLEDVAA--IGQLKK 219
I ++ P++ L +L TL LD C L+++ L
Sbjct: 70 IDAAAFTGLTLLEQLDLSDNAQLRVVDPTTFRGLGHLHTLHLDRCGLQELGPGLFRGLAA 129
Query: 220 LEILNLADSNIEQLP----LEIGQLTGLRL 245
L+ L L D+N++ LP ++G LT L L
Sbjct: 130 LQYLYLQDNNLQALPDNTFRDLGNLTHLFL 159
>pdb|2OMZ|A Chain A, Crystal Structure Of Inla Y369a/hec1 Complex
Length = 466
Score = 30.4 bits (67), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 37/110 (33%), Positives = 50/110 (45%), Gaps = 12/110 (10%)
Query: 163 QISDLF-FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 221
QIS+L G +L L L S++ S L L L L L+ QLED++ I LK L
Sbjct: 253 QISNLAPLSGLTKLTELKLGANQISNI-SPLAGLTALTNLELNENQLEDISPISNLKNLT 311
Query: 222 ILNLADSNIEQLPLEIGQLTGLRLLDLTNCWSLQVIAPNVISKLSRLEEL 271
L L +NI + + LT L+ L A N +S +S L L
Sbjct: 312 YLTLYFNNISDIS-PVSSLTKLQRL---------FFANNKVSDVSSLANL 351
>pdb|4EI5|C Chain C, Crystal Structure Of Xv19 Tcr In Complex With
Cd1d-Sulfatide C24:1
pdb|4EI5|G Chain G, Crystal Structure Of Xv19 Tcr In Complex With
Cd1d-Sulfatide C24:1
pdb|4EI6|A Chain A, Structure Of Xv19 Valpha1-Vbeta16 Type-Ii Natural Killer T
Cell Receptor
pdb|4EI6|C Chain C, Structure Of Xv19 Valpha1-Vbeta16 Type-Ii Natural Killer T
Cell Receptor
pdb|4ELK|A Chain A, Crystal Structure Of The Hy19.3 Type Ii Nkt Tcr
pdb|4ELK|C Chain C, Crystal Structure Of The Hy19.3 Type Ii Nkt Tcr
pdb|4ELM|E Chain E, Crystal Structure Of The Mouse Cd1d-lysosulfatide-hy19.3
Tcr Complex
pdb|4ELM|G Chain G, Crystal Structure Of The Mouse Cd1d-lysosulfatide-hy19.3
Tcr Complex
Length = 208
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 15/58 (25%), Positives = 31/58 (53%), Gaps = 2/58 (3%)
Query: 119 MEETIRKDPIAISLPQRNIQELPERLQCPNLQLFLLFRQ--GYGPVQISDLFFEGTEE 174
M++ +++ P ++S+P+ + L N Q F +RQ G GP + +F +G ++
Sbjct: 1 MQQKVQQSPESLSVPEGGMASLNCTSSDRNFQYFWWYRQHSGEGPKALMSIFSDGDKK 58
>pdb|2OMV|A Chain A, Crystal Structure Of Inla S192n Y369s/hec1 Complex
pdb|2OMW|A Chain A, Crystal Structure Of Inla S192n Y369s/mec1 Complex
Length = 461
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 37/110 (33%), Positives = 51/110 (46%), Gaps = 12/110 (10%)
Query: 163 QISDLF-FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 221
QIS+L G +L L L S++ S L L L L L+ QLED++ I LK L
Sbjct: 249 QISNLAPLSGLTKLTELKLGANQISNI-SPLAGLTALTNLELNENQLEDISPISNLKNLT 307
Query: 222 ILNLADSNIEQLPLEIGQLTGLRLLDLTNCWSLQVIAPNVISKLSRLEEL 271
L L +NI + + LT L+ L +N N +S +S L L
Sbjct: 308 YLTLYFNNISDIS-PVSSLTKLQRLFFSN---------NKVSDVSSLANL 347
>pdb|2OMU|A Chain A, Crystal Structure Of Inla G194s+s Y369s/hec1 Complex
Length = 462
Score = 30.4 bits (67), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 37/110 (33%), Positives = 51/110 (46%), Gaps = 12/110 (10%)
Query: 163 QISDLF-FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 221
QIS+L G +L L L S++ S L L L L L+ QLED++ I LK L
Sbjct: 250 QISNLAPLSGLTKLTELKLGANQISNI-SPLAGLTALTNLELNENQLEDISPISNLKNLT 308
Query: 222 ILNLADSNIEQLPLEIGQLTGLRLLDLTNCWSLQVIAPNVISKLSRLEEL 271
L L +NI + + LT L+ L +N N +S +S L L
Sbjct: 309 YLTLYFNNISDIS-PVSSLTKLQRLFFSN---------NKVSDVSSLANL 348
>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 = 30.4 bits (67), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Query: 190 SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILNLADSNIEQLPLEIGQLTGLRLLDLT 249
++L L L LD C+L + G L L L+L+ + ++ LPL L L +LD++
Sbjct: 49 ATLMPYTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS 108
Query: 250 NCWSLQVIAPNVISKLSRLEELYM 273
L + + L L+ELY+
Sbjct: 109 -FNRLTSLPLGALRGLGELQELYL 131
>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 = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Query: 190 SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILNLADSNIEQLPLEIGQLTGLRLLDLT 249
++L L L LD C+L + G L L L+L+ + ++ LPL L L +LD++
Sbjct: 49 ATLMPYTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS 108
Query: 250 NCWSLQVIAPNVISKLSRLEELYM 273
L + + L L+ELY+
Sbjct: 109 -FNRLTSLPLGALRGLGELQELYL 131
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 30.4 bits (67), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Query: 190 SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILNLADSNIEQLPLEIGQLTGLRLLDLT 249
++L L L LD C+L + G L L L+L+ + ++ LPL L L +LD++
Sbjct: 49 ATLMPYTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS 108
Query: 250 NCWSLQVIAPNVISKLSRLEELYM 273
L + + L L+ELY+
Sbjct: 109 -FNRLTSLPLGALRGLGELQELYL 131
>pdb|1P8V|A Chain A, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Alpha-thrombin At 2.6a
Length = 279
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Query: 190 SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILNLADSNIEQLPLEIGQLTGLRLLDLT 249
++L L L LD C+L + G L L L+L+ + ++ LPL L L +LD++
Sbjct: 49 ATLMPYTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS 108
Query: 250 NCWSLQVIAPNVISKLSRLEELYM 273
L + + L L+ELY+
Sbjct: 109 -FNRLTSLPLGALRGLGELQELYL 131
>pdb|1O6S|A Chain A, Internalin (Listeria Monocytogenes) E-Cadherin (Human)
Recognition Complex
pdb|1O6T|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|A Chain A, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
pdb|1O6V|B Chain B, Internalin (Inla,Listeria Monocytogenes) - Functional
Domain, Uncomplexed
Length = 466
Score = 30.0 bits (66), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 31/85 (36%), Positives = 42/85 (49%), Gaps = 3/85 (3%)
Query: 163 QISDLF-FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 221
QIS+L G +L L L S++ S L L L L L+ QLED++ I LK L
Sbjct: 254 QISNLAPLSGLTKLTELKLGANQISNI-SPLAGLTALTNLELNENQLEDISPISNLKNLT 312
Query: 222 ILNLADSNIEQLPLEIGQLTGLRLL 246
L L +NI + + LT L+ L
Sbjct: 313 YLTLYFNNISDIS-PVSSLTKLQRL 336
>pdb|2OMY|A Chain A, Crystal Structure Of Inla S192n/hec1 Complex
Length = 461
Score = 30.0 bits (66), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 31/85 (36%), Positives = 42/85 (49%), Gaps = 3/85 (3%)
Query: 163 QISDLF-FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 221
QIS+L G +L L L S++ S L L L L L+ QLED++ I LK L
Sbjct: 249 QISNLAPLSGLTKLTELKLGANQISNI-SPLAGLTALTNLELNENQLEDISPISNLKNLT 307
Query: 222 ILNLADSNIEQLPLEIGQLTGLRLL 246
L L +NI + + LT L+ L
Sbjct: 308 YLTLYFNNISDIS-PVSSLTKLQRL 331
>pdb|2OMX|A Chain A, Crystal Structure Of Inla S192n G194s+sHEC1 COMPLEX
Length = 462
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 31/85 (36%), Positives = 42/85 (49%), Gaps = 3/85 (3%)
Query: 163 QISDLF-FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 221
QIS+L G +L L L S++ S L L L L L+ QLED++ I LK L
Sbjct: 250 QISNLAPLSGLTKLTELKLGANQISNI-SPLAGLTALTNLELNENQLEDISPISNLKNLT 308
Query: 222 ILNLADSNIEQLPLEIGQLTGLRLL 246
L L +NI + + LT L+ L
Sbjct: 309 YLTLYFNNISDIS-PVSSLTKLQRL 332
>pdb|2OMT|A Chain A, Crystal Structure Of Inla G194s+sHEC1 COMPLEX
Length = 462
Score = 30.0 bits (66), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 31/85 (36%), Positives = 42/85 (49%), Gaps = 3/85 (3%)
Query: 163 QISDLF-FEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKLE 221
QIS+L G +L L L S++ S L L L L L+ QLED++ I LK L
Sbjct: 250 QISNLAPLSGLTKLTELKLGANQISNI-SPLAGLTALTNLELNENQLEDISPISNLKNLT 308
Query: 222 ILNLADSNIEQLPLEIGQLTGLRLL 246
L L +NI + + LT L+ L
Sbjct: 309 YLTLYFNNISDIS-PVSSLTKLQRL 332
>pdb|1GWB|B Chain B, Structure Of Glycoprotein 1b
pdb|1GWB|A Chain A, Structure Of Glycoprotein 1b
Length = 281
Score = 29.6 bits (65), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Query: 190 SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILNLADSNIEQLPLEIGQLTGLRLLDLT 249
++L L L LD C+L + G L L L+L+ + ++ LPL L L +LD++
Sbjct: 50 ATLMPYTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS 109
Query: 250 NCWSLQVIAPNVISKLSRLEELYM 273
L + + L L+ELY+
Sbjct: 110 -FNRLTSLPLGALRGLGELQELYL 132
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 29.6 bits (65), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Query: 190 SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILNLADSNIEQLPLEIGQLTGLRLLDLT 249
++L L L LD C+L + G L L L+L+ + ++ LPL L L +LD++
Sbjct: 49 ATLMPYTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS 108
Query: 250 NCWSLQVIAPNVISKLSRLEELYM 273
L + + L L+ELY+
Sbjct: 109 -FNRLTSLPLGALRGLGELQELYL 131
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 29.6 bits (65), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 41/84 (48%), Gaps = 1/84 (1%)
Query: 190 SSLGRLINLQTLCLDWCQLEDVAAIGQLKKLEILNLADSNIEQLPLEIGQLTGLRLLDLT 249
++L L L LD C+L + G L L L+L+ + ++ LPL L L +LD++
Sbjct: 49 ATLMPYTRLTQLNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS 108
Query: 250 NCWSLQVIAPNVISKLSRLEELYM 273
L + + L L+ELY+
Sbjct: 109 -FNRLTSLPLGALRGLGELQELYL 131
>pdb|3T6Q|A Chain A, Crystal Structure Of Mouse Rp105MD-1 Complex
pdb|3T6Q|B Chain B, Crystal Structure Of Mouse Rp105MD-1 Complex
Length = 606
Score = 29.3 bits (64), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 33/111 (29%), Positives = 48/111 (43%), Gaps = 11/111 (9%)
Query: 157 QGYGPVQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQ 216
Q + IS F L+ L L H S LPS L L L+ L L + E++ I
Sbjct: 262 QKHYFFNISSNTFHCFSGLQELDLTATHLSELPSGLVGLSTLKKLVLSANKFENLCQISA 321
Query: 217 LKKLEILNLA-DSNIEQLPLEIG---QLTGLRLLDL-------TNCWSLQV 256
+ +L+ N ++L L G L LR LDL ++C +LQ+
Sbjct: 322 SNFPSLTHLSIKGNTKRLELGTGCLENLENLRELDLSHDDIETSDCCNLQL 372
>pdb|1BDF|A Chain A, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
pdb|1BDF|B Chain B, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
pdb|1BDF|C Chain C, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
pdb|1BDF|D Chain D, Structure Of Escherichia Coli Rna Polymerase Alpha Subunit
N-Terminal Domain
Length = 235
Score = 29.3 bits (64), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 41/84 (48%), Gaps = 3/84 (3%)
Query: 116 EKKMEETIRKDPIAISLPQRNIQELPERLQCPNLQLFLLFRQGYGPVQISDLFFEGTEEL 175
E +E +++D + I L N++ L R+Q + + L + G GPV +D+ +G E+
Sbjct: 67 EYSTKEGVQEDILEILL---NLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEI 123
Query: 176 KVLSLIGIHFSSLPSSLGRLINLQ 199
+ H + +S+ I +Q
Sbjct: 124 VKPQHVICHLTDENASISMRIKVQ 147
>pdb|2DBY|A Chain A, Crystal Structure Of The Gtp-Binding Protein Ychf In
Complexed With Gdp
Length = 368
Score = 28.9 bits (63), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 28/111 (25%), Positives = 52/111 (46%), Gaps = 2/111 (1%)
Query: 307 VRDAEILLPDFVSVELQRYRIRIGDKLEYEIDQLLVKSEALRLMMLKGLEKVSILQENDG 366
V + E+LL D ++E + R+R + + E LL +E L + + +G + ++
Sbjct: 130 VVETELLLADLATLERRLERLRKEARADRERLPLLEAAEGLYVHLQEG-KPARTFPPSEA 188
Query: 367 TKMLLQRTEDLWLVKLEGVQNVVHE-LDDGEGFPRLKHLHVESCYEIVHIV 416
L+ T L + V NV E L DG G P+++ + ++ E +V
Sbjct: 189 VARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVV 239
>pdb|2DWQ|A Chain A, Thermus Thermophilus Ychf Gtp-Binding Protein
pdb|2DWQ|B Chain B, Thermus Thermophilus Ychf Gtp-Binding Protein
Length = 368
Score = 28.9 bits (63), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 28/111 (25%), Positives = 52/111 (46%), Gaps = 2/111 (1%)
Query: 307 VRDAEILLPDFVSVELQRYRIRIGDKLEYEIDQLLVKSEALRLMMLKGLEKVSILQENDG 366
V + E+LL D ++E + R+R + + E LL +E L + + +G + ++
Sbjct: 130 VVETELLLADLATLERRLERLRKEARADRERLPLLEAAEGLYVHLQEG-KPARTFPPSEA 188
Query: 367 TKMLLQRTEDLWLVKLEGVQNVVHE-LDDGEGFPRLKHLHVESCYEIVHIV 416
L+ T L + V NV E L DG G P+++ + ++ E +V
Sbjct: 189 VARFLKETPLLTAKPVIYVANVAEEDLPDGRGNPQVEAVRRKALEEGAEVV 239
>pdb|3IYD|A Chain A, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|3IYD|B Chain B, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|3LU0|A Chain A, Molecular Model Of Escherichia Coli Core Rna Polymerase
pdb|3LU0|B Chain B, Molecular Model Of Escherichia Coli Core Rna Polymerase
pdb|4IGC|A Chain A, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|B Chain B, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|F Chain F, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|G Chain G, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
Length = 329
Score = 28.5 bits (62), Expect = 6.6, Method: Compositional matrix adjust.
Identities = 21/84 (25%), Positives = 41/84 (48%), Gaps = 3/84 (3%)
Query: 116 EKKMEETIRKDPIAISLPQRNIQELPERLQCPNLQLFLLFRQGYGPVQISDLFFEGTEEL 175
E +E +++D + I L N++ L R+Q + + L + G GPV +D+ +G E+
Sbjct: 67 EYSTKEGVQEDILEILL---NLKGLAVRVQGKDEVILTLNKSGIGPVTAADITHDGDVEI 123
Query: 176 KVLSLIGIHFSSLPSSLGRLINLQ 199
+ H + +S+ I +Q
Sbjct: 124 VKPQHVICHLTDENASISMRIKVQ 147
>pdb|3OJA|A Chain A, Crystal Structure Of Lrim1APL1C COMPLEX
Length = 487
Score = 28.5 bits (62), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 31/97 (31%), Positives = 49/97 (50%), Gaps = 17/97 (17%)
Query: 186 SSLPSSLGRLI----NLQTLCLDWCQLEDVAA--IGQLKKLEILNLADSNIEQLPLEIGQ 239
SSL +L L N++ L L L ++A + KLE+LNL+ SN+ L++
Sbjct: 20 SSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLS-SNVLYETLDLES 78
Query: 240 LTGLRLLDLTNCWSLQVI----------APNVISKLS 266
L+ LR LDL N + +++ A N IS++S
Sbjct: 79 LSTLRTLDLNNNYVQELLVGPSIETLHAANNNISRVS 115
>pdb|1H6U|A Chain A, Internalin H: Crystal Structure Of Fused N-Terminal
Domains
Length = 308
Score = 28.1 bits (61), Expect = 8.6, Method: Compositional matrix adjust.
Identities = 29/95 (30%), Positives = 48/95 (50%), Gaps = 5/95 (5%)
Query: 195 LINLQTLCLDWCQLEDVAAIGQLKKLEILNLADSNIEQLPLEIGQLTGLRLLDLTNCWSL 254
L NL L L Q+ D+A + L K+ L L+ + ++ + I L ++ LDLT S
Sbjct: 62 LNNLIGLELKDNQITDLAPLKNLTKITELELSGNPLKNVS-AIAGLQSIKTLDLT---ST 117
Query: 255 QVIAPNVISKLSRLEELYMD-NSFSGWEKVEGGSN 288
Q+ ++ LS L+ LY+D N + + G +N
Sbjct: 118 QITDVTPLAGLSNLQVLYLDLNQITNISPLAGLTN 152
>pdb|3ZYJ|A Chain A, Netring1 In Complex With Ngl1
pdb|3ZYJ|C Chain C, Netring1 In Complex With Ngl1
Length = 440
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 48/177 (27%), Positives = 71/177 (40%), Gaps = 41/177 (23%)
Query: 103 ETRMFNIPNVA--DLEKKMEETIRKDPIAISLPQRNIQELPERLQCPNLQLFLLFRQGYG 160
+ R+ IPN A L K E +R +PI S+P +P + L L L R Y
Sbjct: 121 DNRLTTIPNGAFVYLSKLKELWLRNNPIE-SIPSYAFNRIPSLRR---LDLGELKRLSY- 175
Query: 161 PVQISDLFFEGTEELKVLSLIGIHFSSLPSSLGRLINLQTLCLDWCQLEDVAAIGQLKKL 220
IS+ FEG L NL+ L L C L ++ + L KL
Sbjct: 176 ---ISEGAFEG-----------------------LSNLRYLNLAMCNLREIPNLTPLIKL 209
Query: 221 EILNLADSNIEQLPLEIGQLTGLRLLDLTNCW----SLQVIAPNVISKLSRLEELYM 273
+ L+L+ +++ + G G L+ L W +QVI N L L E+ +
Sbjct: 210 DELDLSGNHLSA--IRPGSFQG--LMHLQKLWMIQSQIQVIERNAFDNLQSLVEINL 262
>pdb|3O53|A Chain A, Crystal Structure Of Lrim1 Leucine-Rich Repeat Domain
pdb|3O53|B Chain B, Crystal Structure Of Lrim1 Leucine-Rich Repeat Domain
Length = 317
Score = 28.1 bits (61), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 26/73 (35%), Positives = 39/73 (53%), Gaps = 7/73 (9%)
Query: 186 SSLPSSLGRL----INLQTLCLDWCQLEDVAA--IGQLKKLEILNLADSNIEQLPLEIGQ 239
SSL +L L N++ L L L ++A + KLE+LNL+ SN+ L++
Sbjct: 20 SSLKQALASLRQSAWNVKELDLSGNPLSQISAADLAPFTKLELLNLS-SNVLYETLDLES 78
Query: 240 LTGLRLLDLTNCW 252
L+ LR LDL N +
Sbjct: 79 LSTLRTLDLNNNY 91
>pdb|3M18|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor
Vlra.R2.1 In Complex With Hen Egg Lysozyme
Length = 251
Score = 28.1 bits (61), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 22/60 (36%), Positives = 32/60 (53%), Gaps = 3/60 (5%)
Query: 169 FEGTEELKVLSLIGIHFSSLPS-SLGRLINLQTLCLDWCQLEDV--AAIGQLKKLEILNL 225
F+ +LK L L S+P+ + +L NLQTL L QL+ V A +L KL+ + L
Sbjct: 127 FDRLTKLKELRLNTNQLQSIPAGAFDKLTNLQTLSLSTNQLQSVPHGAFDRLGKLQTITL 186
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.321 0.139 0.402
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 11,563,112
Number of Sequences: 62578
Number of extensions: 451952
Number of successful extensions: 1045
Number of sequences better than 100.0: 54
Number of HSP's better than 100.0 without gapping: 20
Number of HSP's successfully gapped in prelim test: 34
Number of HSP's that attempted gapping in prelim test: 1013
Number of HSP's gapped (non-prelim): 67
length of query: 421
length of database: 14,973,337
effective HSP length: 101
effective length of query: 320
effective length of database: 8,652,959
effective search space: 2768946880
effective search space used: 2768946880
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 53 (25.0 bits)