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= 005639
(686 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 = 1e-06, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 66/149 (44%), Gaps = 14/149 (9%)
Query: 161 LCLDRCALGDIAIIGNLKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPN 220
L LDRC L + + G L L L L + ++ LP L L + D+S ++L +P
Sbjct: 61 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS-FNRLTSLPLG 119
Query: 221 LLSGLSRLEDLYMGNTSVKWEFEGL--------NVGRSNASLQELKL-----LSHLTTLE 267
L GL L++LY+ +K GL + +N +L EL L +L TL
Sbjct: 120 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLL 179
Query: 268 IQICDAMILPKGLFSKKLERYKIFIGDEW 296
+Q +PKG F L + G+ W
Sbjct: 180 LQENSLYTIPKGFFGSHLLPFAFLHGNPW 208
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 65/149 (43%), Gaps = 14/149 (9%)
Query: 161 LCLDRCALGDIAIIGNLKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPN 220
L LDRC L + + G L L L L + ++ LP L L + D+S ++L +P
Sbjct: 60 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS-FNRLTSLPLG 118
Query: 221 LLSGLSRLEDLYMGNTSVKWEFEGL--------NVGRSNASLQELKL-----LSHLTTLE 267
L GL L++LY+ +K GL + +N L EL L +L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTLL 178
Query: 268 IQICDAMILPKGLFSKKLERYKIFIGDEW 296
+Q +PKG F L + G+ W
Sbjct: 179 LQENSLYTIPKGFFGSHLLPFAFLHGNPW 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 = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 66/149 (44%), Gaps = 14/149 (9%)
Query: 161 LCLDRCALGDIAIIGNLKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPN 220
L LDRC L + + G L L L L + ++ LP L L + D+S ++L +P
Sbjct: 60 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS-FNRLTSLPLG 118
Query: 221 LLSGLSRLEDLYMGNTSVKWEFEGL--------NVGRSNASLQELKL-----LSHLTTLE 267
L GL L++LY+ +K GL + +N +L EL L +L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGLLNGLENLDTLL 178
Query: 268 IQICDAMILPKGLFSKKLERYKIFIGDEW 296
+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 = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 65/149 (43%), Gaps = 14/149 (9%)
Query: 161 LCLDRCALGDIAIIGNLKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPN 220
L LDRC L + + G L L L L + ++ LP L L + D+S ++L +P
Sbjct: 60 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS-FNRLTSLPLG 118
Query: 221 LLSGLSRLEDLYMGNTSVKWEFEGL--------NVGRSNASLQELKL-----LSHLTTLE 267
L GL L++LY+ +K GL + +N L EL L +L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTLL 178
Query: 268 IQICDAMILPKGLFSKKLERYKIFIGDEW 296
+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 = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 65/149 (43%), Gaps = 14/149 (9%)
Query: 161 LCLDRCALGDIAIIGNLKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPN 220
L LDRC L + + G L L L L + ++ LP L L + D+S ++L +P
Sbjct: 60 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS-FNRLTSLPLG 118
Query: 221 LLSGLSRLEDLYMGNTSVKWEFEGL--------NVGRSNASLQELKL-----LSHLTTLE 267
L GL L++LY+ +K GL + +N L EL L +L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTLL 178
Query: 268 IQICDAMILPKGLFSKKLERYKIFIGDEW 296
+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 = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 65/149 (43%), Gaps = 14/149 (9%)
Query: 161 LCLDRCALGDIAIIGNLKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPN 220
L LDRC L + + G L L L L + ++ LP L L + D+S ++L +P
Sbjct: 60 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS-FNRLTSLPLG 118
Query: 221 LLSGLSRLEDLYMGNTSVKWEFEGL--------NVGRSNASLQELKL-----LSHLTTLE 267
L GL L++LY+ +K GL + +N L EL L +L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNQLTELPAGLLNGLENLDTLL 178
Query: 268 IQICDAMILPKGLFSKKLERYKIFIGDEW 296
+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 = 51.2 bits (121), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 44/149 (29%), Positives = 65/149 (43%), Gaps = 14/149 (9%)
Query: 161 LCLDRCALGDIAIIGNLKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPN 220
L LDRC L + + G L L L L + ++ LP L L + D+S ++L +P
Sbjct: 60 LNLDRCELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVS-FNRLTSLPLG 118
Query: 221 LLSGLSRLEDLYMGNTSVKWEFEGL--------NVGRSNASLQELKL-----LSHLTTLE 267
L GL L++LY+ +K GL + +N L EL L +L TL
Sbjct: 119 ALRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNDLTELPAGLLNGLENLDTLL 178
Query: 268 IQICDAMILPKGLFSKKLERYKIFIGDEW 296
+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 = 42.7 bits (99), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 43/159 (27%), Positives = 62/159 (38%), Gaps = 34/159 (21%)
Query: 161 LCLDRCALGDIAIIGNLKKLEILSLVDSNIEQLP-------------EEMAQLTQLRLFD 207
L LDR L + + G L L L L + ++ LP +LT L L
Sbjct: 60 LNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGA 119
Query: 208 LSGC----------SKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQEL 257
L G ++LK +PP LL+ +LE L + N ++ GL L
Sbjct: 120 LRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGL-----------L 168
Query: 258 KLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEW 296
L +L TL +Q +PKG F L + G+ W
Sbjct: 169 NGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPW 207
>pdb|1OOK|G Chain G, Crystal Structure Of The Complex Of Platelet Receptor
Gpib-alpha And Human Alpha-thrombin
Length = 290
Score = 42.7 bits (99), Expect = 7e-04, Method: Compositional matrix adjust.
Identities = 43/159 (27%), Positives = 62/159 (38%), Gaps = 34/159 (21%)
Query: 161 LCLDRCALGDIAIIGNLKKLEILSLVDSNIEQLP-------------EEMAQLTQLRLFD 207
L LDR L + + G L L L L + ++ LP +LT L L
Sbjct: 60 LNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGA 119
Query: 208 LSGC----------SKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQEL 257
L G ++LK +PP LL+ +LE L + N ++ GL L
Sbjct: 120 LRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGL-----------L 168
Query: 258 KLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEW 296
L +L TL +Q +PKG F L + G+ W
Sbjct: 169 NGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPW 207
>pdb|3PMH|G Chain G, Mechanism Of Sulfotyrosine-Mediated Glycoprotein Ib
Interaction With Two Distinct Alpha-Thrombin Sites
Length = 290
Score = 42.4 bits (98), Expect = 8e-04, Method: Compositional matrix adjust.
Identities = 43/159 (27%), Positives = 62/159 (38%), Gaps = 34/159 (21%)
Query: 161 LCLDRCALGDIAIIGNLKKLEILSLVDSNIEQLP-------------EEMAQLTQLRLFD 207
L LDR L + + G L L L L + ++ LP +LT L L
Sbjct: 60 LNLDRAELTKLQVDGTLPVLGTLDLSHNQLQSLPLLGQTLPALTVLDVSFNRLTSLPLGA 119
Query: 208 LSGC----------SKLKVIPPNLLSGLSRLEDLYMGNTSVKWEFEGLNVGRSNASLQEL 257
L G ++LK +PP LL+ +LE L + N ++ GL L
Sbjct: 120 LRGLGELQELYLKGNELKTLPPGLLTPTPKLEKLSLANNNLTELPAGL-----------L 168
Query: 258 KLLSHLTTLEIQICDAMILPKGLFSKKLERYKIFIGDEW 296
L +L TL +Q +PKG F L + G+ W
Sbjct: 169 NGLENLDTLLLQENSLYTIPKGFFGSHLLPFAFLHGNPW 207
>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 = 36.6 bits (83), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 64/268 (23%), Positives = 112/268 (41%), Gaps = 52/268 (19%)
Query: 170 DIAIIGNLKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLE 229
+ A +L++LE+ + S +E P L LR L ++LK+IP + +GLS L
Sbjct: 51 EFASFPHLEELELNENIVSAVE--PGAFNNLFNLRTLGLRS-NRLKLIPLGVFTGLSNLT 107
Query: 230 DLYMGNTSVK----------WEFEGLNVGRSNASLQELKLLSHLTTLE---IQICDAMIL 276
L + + + + L VG ++ + S L +LE ++ C+ +
Sbjct: 108 KLDISENKIVILLDYMFQDLYNLKSLEVGDNDLVYISHRAFSGLNSLEQLTLEKCNLTSI 167
Query: 277 PK-------GLFSKKLERYKIFIGDEWDWSGNYKNKRVLKLKLYTSNVDEVIMQLKGIEE 329
P GL +L I + +Y KR+ +LK+ L+
Sbjct: 168 PTEALSHLHGLIVLRLRHLNI------NAIRDYSFKRLYRLKV-----------LEISHW 210
Query: 330 LYLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFILFIVDSMAWVR-----YNAFLLLES 384
YLD + N LY L++ L + H ++ P++ V + ++R YN +E
Sbjct: 211 PYLDTM--TPNCLYGLNLTS-LSITHCNLTAVPYL--AVRHLVYLRFLNLSYNPISTIEG 265
Query: 385 LVLHNLIHLEKICL--GQLRAESFYKLK 410
+LH L+ L++I L GQL Y +
Sbjct: 266 SMLHELLRLQEIQLVGGQLAVVEPYAFR 293
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 34.3 bits (77), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 22/76 (28%), Positives = 39/76 (51%), Gaps = 3/76 (3%)
Query: 172 AIIGNLKKLEILSLVDSNIEQ--LPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLE 229
I L LE+L + ++ ++ LP+ +L L DLS C +L+ + P + LS L+
Sbjct: 439 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQ 497
Query: 230 DLYMGNTSVKWEFEGL 245
L M + +K +G+
Sbjct: 498 VLNMASNQLKSVPDGI 513
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 33.9 bits (76), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 21/66 (31%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 172 AIIGNLKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDL 231
A I NL+ L+ L + +S + L + L +L DL GC+ L+ PP + G + L+ L
Sbjct: 200 ASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPP-IFGGRAPLKRL 258
Query: 232 YMGNTS 237
+ + S
Sbjct: 259 ILKDCS 264
Score = 31.6 bits (70), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 30/93 (32%), Positives = 41/93 (44%), Gaps = 3/93 (3%)
Query: 129 FAGMSNLRGLALSNMQXXXXXXXXXXXXXXQTLCLDRC-ALGDIA-IIGNLKKLEILSLV 186
A + NL+ L + N + L L C AL + I G L+ L L
Sbjct: 202 IANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKRLILK 261
Query: 187 D-SNIEQLPEEMAQLTQLRLFDLSGCSKLKVIP 218
D SN+ LP ++ +LTQL DL GC L +P
Sbjct: 262 DCSNLLTLPLDIHRLTQLEKLDLRGCVNLSRLP 294
>pdb|3CIG|A Chain A, Crystal Structure Of Mouse Tlr3 Ectodomain
pdb|3CIY|A Chain A, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
pdb|3CIY|B Chain B, Mouse Toll-Like Receptor 3 Ectodomain Complexed With
Double-Stranded Rna
Length = 697
Score = 33.1 bits (74), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 32/126 (25%), Positives = 57/126 (45%), Gaps = 4/126 (3%)
Query: 165 RCALGDIAIIGNLKKLEILSLVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSG 224
+ + A++ +L++L + + N++ P L L + DLS + + I +LL G
Sbjct: 444 QLSTSSFALVPSLQRLMLRRVALKNVDISPSPFRPLRNLTILDLSN-NNIANINEDLLEG 502
Query: 225 LSRLEDLYMGNTSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICDAMILPKGLFSKK 284
L LE L + ++ ++ N G + LK LSHL L ++ +P G+F
Sbjct: 503 LENLEILDFQHNNLARLWKRANPG---GPVNFLKGLSHLHILNLESNGLDEIPVGVFKNL 559
Query: 285 LERYKI 290
E I
Sbjct: 560 FELKSI 565
>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 = 32.0 bits (71), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 3/68 (4%)
Query: 172 AIIGNLKKLEILSLVDSNIEQ--LPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLE 229
I L LE+L + ++ ++ LP+ +L L DLS C +L+ + P + LS L+
Sbjct: 439 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQ 497
Query: 230 DLYMGNTS 237
L M + +
Sbjct: 498 VLNMSHNN 505
>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 = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 3/68 (4%)
Query: 172 AIIGNLKKLEILSLVDSNIEQ--LPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLE 229
I L LE+L + ++ ++ LP+ +L L DLS C +L+ + P + LS L+
Sbjct: 463 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQ 521
Query: 230 DLYMGNTS 237
L M + +
Sbjct: 522 VLNMSHNN 529
>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 = 32.0 bits (71), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 20/65 (30%), Positives = 33/65 (50%), Gaps = 3/65 (4%)
Query: 172 AIIGNLKKLEILSLVDSNIEQ--LPEEMAQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLE 229
I L LE+L + ++ ++ LP+ +L L DLS C +L+ + P + LS L+
Sbjct: 144 GIFNGLSSLEVLKMAGNSFQENFLPDIFTELRNLTFLDLSQC-QLEQLSPTAFNSLSSLQ 202
Query: 230 DLYMG 234
L M
Sbjct: 203 VLNMS 207
>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 = 31.2 bits (69), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 27/89 (30%), Positives = 43/89 (48%), Gaps = 6/89 (6%)
Query: 162 CLDRCALGDIAIIGNLKKLEILS---LVDSNIEQLPEEMAQLTQLRLFDLSGCSKLKVIP 218
LD L I N+ K + L+ L +++ +LP E+ L+ LR+ DLS ++L +P
Sbjct: 228 ALDLSNLQIFNISANIFKYDFLTRLYLNGNSLTELPAEIKNLSNLRVLDLSH-NRLTSLP 286
Query: 219 PNLLSGLSRLEDLYMGN--TSVKWEFEGL 245
L S + N T++ WEF L
Sbjct: 287 AELGSCFQLKYFYFFDNMVTTLPWEFGNL 315
>pdb|1XCD|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 1
pdb|1XEC|A Chain A, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
pdb|1XEC|B Chain B, Dimeric Bovine Tissue-Extracted Decorin, Crystal Form 2
Length = 329
Score = 30.8 bits (68), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 46/192 (23%), Positives = 86/192 (44%), Gaps = 24/192 (12%)
Query: 177 LKKLEILSLVDSNIEQLPEEMAQ-LTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN 235
L KLE L L + +++LPE+M + L +LR+ + +++ + ++ +GL+++ + +G
Sbjct: 99 LVKLERLYLSKNQLKELPEKMPKTLQELRVHE----NEITKVRKSVFNGLNQMIVVELGT 154
Query: 236 TSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICD-AMILPKGLFSKKLERYKIFIGD 294
+K G N + Q +K LS++ + I LP L L+ KI D
Sbjct: 155 NPLKSS------GIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVD 208
Query: 295 EWDWSG-NYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLD-----EVPGIKNVLYDLDIE 348
G N K L ++ + + + EL+L+ +VPG L
Sbjct: 209 AASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPG------GLADH 262
Query: 349 GFLQLKHLHVQN 360
++Q+ +LH N
Sbjct: 263 KYIQVVYLHNNN 274
>pdb|1XKU|A Chain A, Crystal Structure Of The Dimeric Protein Core Of Decorin,
The Archetypal Small Leucine-Rich Repeat Proteoglycan
Length = 330
Score = 30.8 bits (68), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 46/192 (23%), Positives = 86/192 (44%), Gaps = 24/192 (12%)
Query: 177 LKKLEILSLVDSNIEQLPEEMAQ-LTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDLYMGN 235
L KLE L L + +++LPE+M + L +LR+ + +++ + ++ +GL+++ + +G
Sbjct: 99 LVKLERLYLSKNQLKELPEKMPKTLQELRVHE----NEITKVRKSVFNGLNQMIVVELGT 154
Query: 236 TSVKWEFEGLNVGRSNASLQELKLLSHLTTLEIQICD-AMILPKGLFSKKLERYKIFIGD 294
+K G N + Q +K LS++ + I LP L L+ KI D
Sbjct: 155 NPLKSS------GIENGAFQGMKKLSYIRIADTNITTIPQGLPPSLTELHLDGNKITKVD 208
Query: 295 EWDWSG-NYKNKRVLKLKLYTSNVDEVIMQLKGIEELYLD-----EVPGIKNVLYDLDIE 348
G N K L ++ + + + EL+L+ +VPG L
Sbjct: 209 AASLKGLNNLAKLGLSFNSISAVDNGSLANTPHLRELHLNNNKLVKVPG------GLADH 262
Query: 349 GFLQLKHLHVQN 360
++Q+ +LH N
Sbjct: 263 KYIQVVYLHNNN 274
>pdb|1U17|A Chain A, 1.7 A Crystal Structure Of H60c Mutant Of Nitrophorin I.
Heme Complexed With Two Molecules Imidazole
pdb|1U17|B Chain B, 1.7 A Crystal Structure Of H60c Mutant Of Nitrophorin I.
Heme Complexed With Two Molecules Imidazole
pdb|1U18|A Chain A, 1.96 A Crystal Structure Of H60c Mutant Of Nitrophorin
Complexed With Histamine
pdb|1U18|B Chain B, 1.96 A Crystal Structure Of H60c Mutant Of Nitrophorin
Complexed With Histamine
Length = 185
Score = 30.4 bits (67), Expect = 3.3, Method: Composition-based stats.
Identities = 20/73 (27%), Positives = 37/73 (50%), Gaps = 5/73 (6%)
Query: 592 YCSSLESIVGKESGEEATTTFVFPKVTFLKLWNLSELKTFYPGTHTSKWPMLKKLEVYGC 651
YC++L + G SG+ + + T +++SEL+ PG +T+ + KK+E G
Sbjct: 41 YCAALAA--GTASGKLKEALYCYDPKTQDTFYDVSELQEESPGKYTANF---KKVEKNGN 95
Query: 652 DKVKIFTSRFLRF 664
KV + + + F
Sbjct: 96 VKVDVTSGNYYTF 108
>pdb|3IJI|A Chain A, Structure Of Dipeptide Epimerase From Bacteroides
Thetaiotaomicron Complexed With L-Ala-D-Glu;
Nonproductive Substrate Binding.
pdb|3IJI|B Chain B, Structure Of Dipeptide Epimerase From Bacteroides
Thetaiotaomicron Complexed With L-Ala-D-Glu;
Nonproductive Substrate Binding.
pdb|3IJL|A Chain A, Structure Of Dipeptide Epimerase From Bacteroides
Thetaiotaomicron Complexed With L-Pro-D-Glu;
Nonproductive Substrate Binding.
pdb|3IJL|B Chain B, Structure Of Dipeptide Epimerase From Bacteroides
Thetaiotaomicron Complexed With L-Pro-D-Glu;
Nonproductive Substrate Binding.
pdb|3IJQ|A Chain A, Structure Of Dipeptide Epimerase From Bacteroides
Thetaiotaomicron Complexed With L-Ala-D-Glu; Productive
Substrate Binding.
pdb|3IJQ|B Chain B, Structure Of Dipeptide Epimerase From Bacteroides
Thetaiotaomicron Complexed With L-Ala-D-Glu; Productive
Substrate Binding
Length = 338
Score = 29.3 bits (64), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 37/70 (52%), Gaps = 2/70 (2%)
Query: 307 VLKLKLYTSNVDEVIMQLKGIEEL--YLDEVPGIKNVLYDLDIEGFLQLKHLHVQNNPFI 364
+LK+KL N E+I ++ + +L +D G K+ Y LD+ +L+ K + + P
Sbjct: 151 ILKVKLGRDNDKEMIETIRSVTDLPIAVDANQGWKDRQYALDMIHWLKEKGIVMIEQPMP 210
Query: 365 LFIVDSMAWV 374
+D +AWV
Sbjct: 211 KEQLDDIAWV 220
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 29.3 bits (64), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 37/127 (29%), Positives = 60/127 (47%), Gaps = 22/127 (17%)
Query: 173 IIGNLKKLEILSLVDSNIEQLPEEM-AQLTQLRLFDLSGCSKLKVIPPNLLSGLSRLEDL 231
I + KKL++ S + + LP + +LT+LRL L+ +KL+ +P + L LE L
Sbjct: 35 IPADTKKLDLQS---NKLSSLPSKAFHRLTKLRLLYLND-NKLQTLPAGIFKELKNLETL 90
Query: 232 YMGNTSVKWEFEGLNVGRSNASLQELKL---------------LSHLTTLEIQICDAMIL 276
++ T K + + V +L EL+L L+ LT L + + L
Sbjct: 91 WV--TDNKLQALPIGVFDQLVNLAELRLDRNQLKSLPPRVFDSLTKLTYLSLGYNELQSL 148
Query: 277 PKGLFSK 283
PKG+F K
Sbjct: 149 PKGVFDK 155
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 0.420
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,310,271
Number of Sequences: 62578
Number of extensions: 772756
Number of successful extensions: 1581
Number of sequences better than 100.0: 48
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 47
Number of HSP's that attempted gapping in prelim test: 1515
Number of HSP's gapped (non-prelim): 78
length of query: 686
length of database: 14,973,337
effective HSP length: 105
effective length of query: 581
effective length of database: 8,402,647
effective search space: 4881937907
effective search space used: 4881937907
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: 55 (25.8 bits)