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= 037018
(663 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2R1F|A Chain A, Crystal Structure Of Predicted Aminodeoxychorismate Lyase
From Escherichia Coli
pdb|2R1F|B Chain B, Crystal Structure Of Predicted Aminodeoxychorismate Lyase
From Escherichia Coli
Length = 270
Score = 33.1 bits (74), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 50/116 (43%), Gaps = 28/116 (24%)
Query: 492 LRISGDLSHYHSGVSKSLCELHKLECLQLVHEGRMWQLSRMVLSEYQFPPCLTQLSLSNT 551
LRI DLSH+ +G + + E L+L+ G+ E QFP L L
Sbjct: 3 LRIEPDLSHFKAGTYRFTPQXTVREXLKLLESGK----------EAQFP-----LRLVEG 47
Query: 552 QLMEDPMPALEKLPHLEVLKLKQNSYSERKLACVGSGSFPQLKILHLKSMLWLEEW 607
+ D + L + P++ +++ S+ K A V + L L++ W+E W
Sbjct: 48 XRLSDYLKQLREAPYI------KHTLSDDKYATVA-------QALELENPEWIEGW 90
>pdb|1RIQ|A Chain A, The Crystal Structure Of The Catalytic Fragment Of The
Alanyl-Trna Synthetase
Length = 465
Score = 31.2 bits (69), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 16/61 (26%), Positives = 28/61 (45%), Gaps = 9/61 (14%)
Query: 214 FILHYGSMPLGSYFQGEAMPTIWRHIYSVMELPFHLKVCCLYLCVFRPSIEISTRQLYQL 273
F G+ G YF+ EA+ W + V++LP LY+ V++ + Y++
Sbjct: 90 FFEXLGNFSFGDYFKKEAIEYAWEFVTEVLKLPKE----KLYVSVYK-----DDEEAYRI 140
Query: 274 W 274
W
Sbjct: 141 W 141
>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 = 30.8 bits (68), Expect = 2.3, Method: Composition-based stats.
Identities = 22/62 (35%), Positives = 29/62 (46%), Gaps = 8/62 (12%)
Query: 543 LTQLSLSNTQLMEDPMPALEKLPHLEVLKLKQNSYSERKLACVGSGSFPQLKILHLKSML 602
LT+L L N QL P +KL L L L N +L + G+F LK L + +
Sbjct: 64 LTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDN-----QLKSIPRGAFDNLKSL---THI 115
Query: 603 WL 604
WL
Sbjct: 116 WL 117
>pdb|3HTZ|A Chain A, Crystal Structure Of The Catalytic Fragment Of Alanyl-Trna
Synthetase In Complex With L-Serine: Re-Refined
Length = 464
Score = 30.8 bits (68), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 9/56 (16%)
Query: 219 GSMPLGSYFQGEAMPTIWRHIYSVMELPFHLKVCCLYLCVFRPSIEISTRQLYQLW 274
G+ G YF+ EA+ W + V++LP LY+ V++ + Y++W
Sbjct: 94 GNFSFGDYFKKEAIEYAWEFVTEVLKLPKE----KLYVSVYK-----DDEEAYRIW 140
>pdb|1YFR|A Chain A, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With Atp And Magnesium
pdb|1YFR|B Chain B, Crystal Structure Of Alanyl-Trna Synthetase In Complex
With Atp And Magnesium
pdb|1YFS|A Chain A, The Crystal Structure Of Alanyl-Trna Synthetase In Complex
With L-Alanine
pdb|1YFS|B Chain B, The Crystal Structure Of Alanyl-Trna Synthetase In Complex
With L-Alanine
pdb|1YFT|A Chain A, The Crystal Structure Of The Catalytic Fragment Of Alanyl-
Trna Synthetase In Complex Wtih Glycine
pdb|1YGB|A Chain A, Crystal Structure Of The Catalytic Fragment Of Alanyl-Trna
Synthetase In Complex With L-Serine
Length = 465
Score = 30.8 bits (68), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 15/56 (26%), Positives = 27/56 (48%), Gaps = 9/56 (16%)
Query: 219 GSMPLGSYFQGEAMPTIWRHIYSVMELPFHLKVCCLYLCVFRPSIEISTRQLYQLW 274
G+ G YF+ EA+ W + V++LP LY+ V++ + Y++W
Sbjct: 95 GNFSFGDYFKKEAIEYAWEFVTEVLKLPKE----KLYVSVYK-----DDEEAYRIW 141
>pdb|2O6Q|A Chain A, Structural Diversity Of The Hagfish Variable Lymphocyte
Receptors A29
Length = 270
Score = 30.8 bits (68), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 24/64 (37%), Positives = 32/64 (50%), Gaps = 8/64 (12%)
Query: 543 LTQLSLSNTQLMEDPMPALEKLPHLEVLKLKQNSYSERKLACVGSGSFP---QLKILHLK 599
L +L L N QL P A +KL L+ LKL N +L V G+F +LK+L L+
Sbjct: 159 LKELRLYNNQLKRVPEGAFDKLTELKTLKLDNN-----QLKRVPEGAFDSLEKLKMLQLQ 213
Query: 600 SMLW 603
W
Sbjct: 214 ENPW 217
>pdb|3G39|A Chain A, Structure Of A Lamprey Variable Lymphocyte Receptor
Length = 170
Score = 30.4 bits (67), Expect = 2.9, Method: Composition-based stats.
Identities = 22/62 (35%), Positives = 29/62 (46%), Gaps = 8/62 (12%)
Query: 543 LTQLSLSNTQLMEDPMPALEKLPHLEVLKLKQNSYSERKLACVGSGSFPQLKILHLKSML 602
LT+L L N QL P +KL L L L N +L + G+F LK L + +
Sbjct: 56 LTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDN-----QLKSIPRGAFDNLKSL---THI 107
Query: 603 WL 604
WL
Sbjct: 108 WL 109
>pdb|3J0A|A Chain A, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
pdb|3J0A|B Chain B, Homology Model Of Human Toll-Like Receptor 5 Fitted Into
An Electron Microscopy Single Particle Reconstruction
Length = 844
Score = 30.4 bits (67), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 18/42 (42%), Positives = 27/42 (64%), Gaps = 2/42 (4%)
Query: 362 IDCENFCKKFKHLRVLNLGSA-ILYQYPPGLENLFHLKYLKL 402
ID E F + +LR+L+LGS+ I + +P + LFHL L+L
Sbjct: 64 IDKEAF-RNLPNLRILDLGSSKIYFLHPDAFQGLFHLFELRL 104
>pdb|1M10|B Chain B, Crystal Structure Of The Complex Of Glycoprotein Ib Alpha
And The Von Willebrand Factor A1 Domain
Length = 290
Score = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 23/36 (63%)
Query: 541 PCLTQLSLSNTQLMEDPMPALEKLPHLEVLKLKQNS 576
P L +LSL+N QL E P L L +L+ L L++NS
Sbjct: 148 PKLEKLSLANNQLTELPAGLLNGLENLDTLLLQENS 183
>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 = 29.6 bits (65), Expect = 5.4, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 23/36 (63%)
Query: 541 PCLTQLSLSNTQLMEDPMPALEKLPHLEVLKLKQNS 576
P L +LSL+N QL E P L L +L+ L L++NS
Sbjct: 148 PKLEKLSLANNQLTELPAGLLNGLENLDTLLLQENS 183
>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 = 29.6 bits (65), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 17/34 (50%), Positives = 21/34 (61%), Gaps = 1/34 (2%)
Query: 366 NFCKKFKHLRVLNLGSAILYQYPPGL-ENLFHLK 398
NF K HL +LNL S L + P G+ +NLF LK
Sbjct: 530 NFLKGLSHLHILNLESNGLDEIPVGVFKNLFELK 563
>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 = 29.6 bits (65), Expect = 5.8, Method: Composition-based stats.
Identities = 21/62 (33%), Positives = 29/62 (46%), Gaps = 8/62 (12%)
Query: 543 LTQLSLSNTQLMEDPMPALEKLPHLEVLKLKQNSYSERKLACVGSGSFPQLKILHLKSML 602
LT+L L N QL P +KL L L L N +L + G+F L+ L + +
Sbjct: 56 LTRLDLDNNQLTVLPAGVFDKLTQLTQLSLNDN-----QLKSIPRGAFDNLRSL---THI 107
Query: 603 WL 604
WL
Sbjct: 108 WL 109
>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 = 29.6 bits (65), Expect = 5.9, Method: Compositional matrix adjust.
Identities = 30/96 (31%), Positives = 41/96 (42%), Gaps = 12/96 (12%)
Query: 511 ELHKLECLQLVHEGRMWQLSRMVLSEYQFPPCLTQLSLSNTQLMEDPMPALEKLPHLEVL 570
+L L L L H QL + + LT+L LS QL P +KL L+ L
Sbjct: 131 KLTNLTYLNLAHN----QLQSLPKGVFDKLTNLTELDLSYNQLQSLPEGVFDKLTQLKDL 186
Query: 571 KLKQNSYSERKLACVGSGSFPQLKILHLKSMLWLEE 606
+L QN +L V G F +L L +WL +
Sbjct: 187 RLYQN-----QLKSVPDGVFDRLTSLQ---YIWLHD 214
>pdb|3P72|A Chain A, Structure Of Platelet Glycoprotein 1b Alpha With A Bound
Peptide Inhibitor
Length = 269
Score = 29.3 bits (64), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 20/51 (39%), Positives = 26/51 (50%)
Query: 541 PCLTQLSLSNTQLMEDPMPALEKLPHLEVLKLKQNSYSERKLACVGSGSFP 591
P L +LSL+N QL E P L L +L+ L L++NS GS P
Sbjct: 148 PKLEKLSLANNQLTELPAGLLNGLENLDTLLLQENSLYTIPKGFFGSHLLP 198
>pdb|1U0N|D Chain D, The Ternary Von Willebrand Factor A1-Glycoprotein Ibalpha-
Botrocetin Complex
Length = 265
Score = 29.3 bits (64), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 23/36 (63%)
Query: 541 PCLTQLSLSNTQLMEDPMPALEKLPHLEVLKLKQNS 576
P L +LSL+N QL E P L L +L+ L L++NS
Sbjct: 148 PKLEKLSLANNQLTELPAGLLNGLENLDTLLLQENS 183
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
0.325 0.139 0.437
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 18,903,727
Number of Sequences: 62578
Number of extensions: 754031
Number of successful extensions: 1988
Number of sequences better than 100.0: 31
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 21
Number of HSP's that attempted gapping in prelim test: 1966
Number of HSP's gapped (non-prelim): 43
length of query: 663
length of database: 14,973,337
effective HSP length: 105
effective length of query: 558
effective length of database: 8,402,647
effective search space: 4688677026
effective search space used: 4688677026
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 55 (25.8 bits)