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= 043587
(285 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 = 35.8 bits (81), Expect = 0.025, Method: Compositional matrix adjust.
Identities = 41/136 (30%), Positives = 67/136 (49%), Gaps = 17/136 (12%)
Query: 98 VRHLMLIIGEGAIFPVSTRRIKRMRSLLIDGGRSDHSSLNGEILEELFRELTSLRALDFC 157
VR+L L G + +S + + LI G S NG +F +LT+L+ L
Sbjct: 65 VRYLAL--GGNKLHDISALKELTNLTYLILTGNQLQSLPNG-----VFDKLTNLKELVLV 117
Query: 158 ESYHSRSSLTPEIPRNI-EKLVHLRYLSLSFQHIEKLPETLCE-LYNLETLDISGCFDLE 215
E+ +P + +KL +L YL+L+ ++ LP+ + + L NL LD+S L+
Sbjct: 118 ENQLQ------SLPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLS-YNQLQ 170
Query: 216 ELPKGI-GKLVNMKHL 230
LP+G+ KL +K L
Sbjct: 171 SLPEGVFDKLTQLKDL 186
>pdb|3RFJ|A Chain A, Design Of A Binding Scaffold Based On Variable Lymphocyte
Receptors Of Jawless Vertebrates By Module Engineering
Length = 279
Score = 34.3 bits (77), Expect = 0.089, Method: Compositional matrix adjust.
Identities = 44/152 (28%), Positives = 73/152 (48%), Gaps = 20/152 (13%)
Query: 98 VRHLMLIIGEGAIFPVSTRRIKRMRSLLIDGGRSDHSSLNGEILEELFRELTSLRALDFC 157
VR+L L G + +S + + LI G S NG +F +LT+L+ L
Sbjct: 65 VRYLAL--GGNKLHDISALKELTNLTYLILTGNQLQSLPNG-----VFDKLTNLKELVLV 117
Query: 158 ESYHSRSSLTPEIPRNI-EKLVHLRYLSLSFQHIEKLPETLCE-LYNLETLDISGCFDLE 215
E+ +P + +KL +L YL L ++ LP+ + + L NL LD+ L+
Sbjct: 118 ENQLQ------SLPDGVFDKLTNLTYLYLYHNQLQSLPKGVFDKLTNLTRLDLDNN-QLQ 170
Query: 216 ELPKGI-GKLVNMKHL-LNSRTSSVRYMPVGI 245
LP+G+ KL +K L LN + ++ +P G+
Sbjct: 171 SLPEGVFDKLTQLKQLSLND--NQLKSVPDGV 200
>pdb|2Z63|A Chain A, Crystal Structure Of The Tv8 Hybrid Of Human Tlr4 And
Hagfish Vlrb.61
Length = 570
Score = 32.7 bits (73), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 32/103 (31%), Positives = 51/103 (49%), Gaps = 5/103 (4%)
Query: 145 FRELTSLRALDFCESYHSRSSLTPE-IPRNIEKLVHLRYLSLSFQHIEKLPETLCELYNL 203
F SLR L + + H+ + + I + L L+ SFQ LP+ EL NL
Sbjct: 414 FSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQE-NFLPDIFTELRNL 472
Query: 204 ETLDISGCFDLEEL-PKGIGKLVNMKHLLNSRTSSVRYMPVGI 245
LD+S C LE+L P L +++ +LN ++ ++ +P GI
Sbjct: 473 TFLDLSQC-QLEQLSPTAFNSLSSLQ-VLNMASNQLKSVPDGI 513
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 32.3 bits (72), Expect = 0.31, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 34/68 (50%), Gaps = 1/68 (1%)
Query: 163 RSSLTPEIPRNIEKLVHLRYLSLSFQHIEKLPETLCELYNLETLDISGCFDLEELPKGIG 222
RS P+ P +L HL++ ++ + +LP+T + LETL ++ L LP I
Sbjct: 89 RSVPLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARN-PLRALPASIA 147
Query: 223 KLVNMKHL 230
L ++ L
Sbjct: 148 SLNRLREL 155
Score = 32.3 bits (72), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 21/76 (27%), Positives = 35/76 (46%)
Query: 170 IPRNIEKLVHLRYLSLSFQHIEKLPETLCELYNLETLDISGCFDLEELPKGIGKLVNMKH 229
+P +I L +L+ L + + L + L LE LD+ GC L P G +K
Sbjct: 198 LPASIANLQNLKSLKIRNSPLSALGPAIHHLPKLEELDLRGCTALRNYPPIFGGRAPLKR 257
Query: 230 LLNSRTSSVRYMPVGI 245
L+ S++ +P+ I
Sbjct: 258 LILKDCSNLLTLPLDI 273
Score = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 14/32 (43%), Positives = 18/32 (56%)
Query: 193 LPETLCELYNLETLDISGCFDLEELPKGIGKL 224
LP + L LE LD+ GC +L LP I +L
Sbjct: 269 LPLDIHRLTQLEKLDLRGCVNLSRLPSLIAQL 300
>pdb|3E6J|A Chain A, Crystal Structure Of Variable Lymphocyte Receptor (Vlr)
Rbc36 In Complex With H-Trisaccharide
Length = 229
Score = 30.0 bits (66), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 11/26 (42%), Positives = 18/26 (69%)
Query: 169 EIPRNIEKLVHLRYLSLSFQHIEKLP 194
E+PR IE+L HL +L+L ++ +P
Sbjct: 126 ELPRGIERLTHLTHLALDQNQLKSIP 151
Score = 28.1 bits (61), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 19/57 (33%), Positives = 30/57 (52%), Gaps = 2/57 (3%)
Query: 175 EKLVHLRYLSLSFQHIEKLPETLCE-LYNLETLDISGCFDLEELPKGIGKLVNMKHL 230
+ L L L L + LP + + L +L+ L + C L ELP+GI +L ++ HL
Sbjct: 85 DSLTQLTVLDLGTNQLTVLPSAVFDRLVHLKELFMC-CNKLTELPRGIERLTHLTHL 140
>pdb|3Q6O|A Chain A, Oxidoreductase Fragment Of Human Qsox1
Length = 244
Score = 30.0 bits (66), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 12/31 (38%), Positives = 18/31 (58%)
Query: 106 GEGAIFPVSTRRIKRMRSLLIDGGRSDHSSL 136
G GA+FPV+ ++ +R LID S H +
Sbjct: 103 GSGAVFPVAGADVQTLRERLIDALESHHDTW 133
>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 = 29.6 bits (65), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 11/77 (14%)
Query: 136 LNGEILEELF--RELTSLRALDFCESYHSRSSLTPEIPRNIEKLVHLRYLSLSFQHIE-K 192
L GEI +EL + L +L LDF + LT EIP + +L ++SLS + +
Sbjct: 451 LEGEIPQELMYVKTLETL-ILDFND-------LTGEIPSGLSNCTNLNWISLSNNRLTGE 502
Query: 193 LPETLCELYNLETLDIS 209
+P+ + L NL L +S
Sbjct: 503 IPKWIGRLENLAILKLS 519
Score = 29.6 bits (65), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 1/76 (1%)
Query: 169 EIPRNIEKLVHLRYLSLSFQHIE-KLPETLCELYNLETLDISGCFDLEELPKGIGKLVNM 227
EIP+ + + L L L F + ++P L NL + +S E+PK IG+L N+
Sbjct: 454 EIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENL 513
Query: 228 KHLLNSRTSSVRYMPV 243
L S S +P
Sbjct: 514 AILKLSNNSFSGNIPA 529
>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 = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 25/73 (34%), Positives = 36/73 (49%), Gaps = 6/73 (8%)
Query: 160 YHSRSSLTPEIPRNIEKLVHLRYLSLSFQHIEKLPETLCELYNLETLDISGCFD--LEEL 217
Y + +SLT E+P I+ L +LR L LS + LP L + L+ FD + L
Sbjct: 253 YLNGNSLT-ELPAEIKNLSNLRVLDLSHNRLTSLPAELGSCFQLKYFYF---FDNMVTTL 308
Query: 218 PKGIGKLVNMKHL 230
P G L N++ L
Sbjct: 309 PWEFGNLCNLQFL 321
Score = 28.1 bits (61), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 32/75 (42%), Gaps = 3/75 (4%)
Query: 136 LNGEILEELFRELTSLRALDFCESYHSRSSLTPEIPRNIEKLVHLRYLSLSFQHIEKLPE 195
LNG L EL E+ +L L + H+R + +P + L+Y + LP
Sbjct: 254 LNGNSLTELPAEIKNLSNLRVLDLSHNRLT---SLPAELGSCFQLKYFYFFDNMVTTLPW 310
Query: 196 TLCELYNLETLDISG 210
L NL+ L + G
Sbjct: 311 EFGNLCNLQFLGVEG 325
>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 = 29.6 bits (65), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 40/77 (51%), Gaps = 11/77 (14%)
Query: 136 LNGEILEELF--RELTSLRALDFCESYHSRSSLTPEIPRNIEKLVHLRYLSLSFQHIE-K 192
L GEI +EL + L +L LDF + LT EIP + +L ++SLS + +
Sbjct: 454 LEGEIPQELMYVKTLETL-ILDFND-------LTGEIPSGLSNCTNLNWISLSNNRLTGE 505
Query: 193 LPETLCELYNLETLDIS 209
+P+ + L NL L +S
Sbjct: 506 IPKWIGRLENLAILKLS 522
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 23/76 (30%), Positives = 35/76 (46%), Gaps = 1/76 (1%)
Query: 169 EIPRNIEKLVHLRYLSLSFQHIE-KLPETLCELYNLETLDISGCFDLEELPKGIGKLVNM 227
EIP+ + + L L L F + ++P L NL + +S E+PK IG+L N+
Sbjct: 457 EIPQELMYVKTLETLILDFNDLTGEIPSGLSNCTNLNWISLSNNRLTGEIPKWIGRLENL 516
Query: 228 KHLLNSRTSSVRYMPV 243
L S S +P
Sbjct: 517 AILKLSNNSFSGNIPA 532
>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 = 28.9 bits (63), Expect = 3.6, Method: Compositional matrix adjust.
Identities = 30/90 (33%), Positives = 45/90 (50%), Gaps = 10/90 (11%)
Query: 144 LFRELTSLRALDFCESYHSRSSLTPEIPRNI-EKLVHLRYLSLSFQHIEKLPETLCE-LY 201
+F ELTSL L Y + L +P + KL L YL+LS ++ LP + + L
Sbjct: 47 VFDELTSLTQL-----YLGGNKLQ-SLPNGVFNKLTSLTYLNLSTNQLQSLPNGVFDKLT 100
Query: 202 NLETLDISGCFDLEELPKGI-GKLVNMKHL 230
L+ L ++ L+ LP G+ KL +K L
Sbjct: 101 QLKELALN-TNQLQSLPDGVFDKLTQLKDL 129
>pdb|1VHZ|A Chain A, Crystal Structure Of Adp Compounds Hydrolase
pdb|1VHZ|B Chain B, Crystal Structure Of Adp Compounds Hydrolase
Length = 198
Score = 28.5 bits (62), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 32/113 (28%), Positives = 46/113 (40%), Gaps = 20/113 (17%)
Query: 125 LIDGGRSDHSSLNGEILEEL---FRELTSLRALDFCESYHSRSSLTPEIPRNIEKLVHLR 181
LID G S + + N E+ EE+ +LT L+ L SY S NI L
Sbjct: 83 LIDPGESVYEAANRELKEEVGFGANDLTFLKKLSMAPSYFSSK-------MNIVVAQDLY 135
Query: 182 YLSLSFQHIEKLPETLCELYNL----------ETLDISGCFDLEELPKGIGKL 224
SL E LP+ L ++ E ++S F + E KG G++
Sbjct: 136 PESLEGDEPEPLPQVRWPLAHMMDLLEDPDFNEARNVSALFLVREWLKGQGRV 188
>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 = 27.7 bits (60), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 41/92 (44%), Gaps = 9/92 (9%)
Query: 145 FRELTSLRALDFCESYHSRSSLTPE-IPRNIEKLVHLRYLSLSFQHIEKLPETLCELYNL 203
F SLR L + + H+ + + I + L L+ SFQ LP+ EL NL
Sbjct: 414 FSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQE-NFLPDIFTELRNL 472
Query: 204 ETLDISGCFDLEEL-PKGIGKL-----VNMKH 229
LD+S C LE+L P L +NM H
Sbjct: 473 TFLDLSQC-QLEQLSPTAFNSLSSLQVLNMSH 503
>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 = 27.7 bits (60), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 30/92 (32%), Positives = 41/92 (44%), Gaps = 9/92 (9%)
Query: 145 FRELTSLRALDFCESYHSRSSLTPE-IPRNIEKLVHLRYLSLSFQHIEKLPETLCELYNL 203
F SLR L + + H+ + + I + L L+ SFQ LP+ EL NL
Sbjct: 438 FSVFLSLRNLIYLDISHTHTRVAFNGIFNGLSSLEVLKMAGNSFQE-NFLPDIFTELRNL 496
Query: 204 ETLDISGCFDLEEL-PKGIGKL-----VNMKH 229
LD+S C LE+L P L +NM H
Sbjct: 497 TFLDLSQC-QLEQLSPTAFNSLSSLQVLNMSH 527
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
0.322 0.139 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,327,005
Number of Sequences: 62578
Number of extensions: 270231
Number of successful extensions: 594
Number of sequences better than 100.0: 25
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 575
Number of HSP's gapped (non-prelim): 42
length of query: 285
length of database: 14,973,337
effective HSP length: 98
effective length of query: 187
effective length of database: 8,840,693
effective search space: 1653209591
effective search space used: 1653209591
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 51 (24.3 bits)