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= 039257
(210 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3TSY|A Chain A, 4-Coumaroyl-Coa Ligase::stilbene Synthase Fusion Protein
Length = 979
Score = 31.2 bits (69), Expect = 0.39, Method: Compositional matrix adjust.
Identities = 21/58 (36%), Positives = 26/58 (44%), Gaps = 3/58 (5%)
Query: 67 NVRRLSLMQNQIETLSEVPTCPHFVTLFL--DFNGELKMIADGFFQLMPSLKVLKMSN 122
N +L + QN + L +P CP FV FL F G A+ FF K K SN
Sbjct: 104 NFHKLGVNQNDVVMLL-LPNCPEFVLSFLAASFRGATATAANPFFTPAEIAKQAKASN 160
>pdb|2FT3|A Chain A, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|B Chain B, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|C Chain C, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|D Chain D, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|E Chain E, Crystal Structure Of The Biglycan Dimer Core Protein
pdb|2FT3|F Chain F, Crystal Structure Of The Biglycan Dimer Core Protein
Length = 332
Score = 30.0 bits (66), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 30/107 (28%), Positives = 51/107 (47%), Gaps = 6/107 (5%)
Query: 45 KINFLVCAGAGLEEAP-DVKEWENVRRLSLMQNQIET--LSEVPTCPHFVTLFLDFNGEL 101
K+N+L + A L P D+ E N L L N+I+ L ++ L L N ++
Sbjct: 173 KLNYLRISEAKLTGIPKDLPETLN--ELHLDHNKIQAIELEDLLRYSKLYRLGLGHN-QI 229
Query: 102 KMIADGFFQLMPSLKVLKMSNCWNLKFLVGMSKLGSLQLLDISQNAI 148
+MI +G +P+L+ L + N + G+ L LQ++ + N I
Sbjct: 230 RMIENGSLSFLPTLRELHLDNNKLSRVPAGLPDLKLLQVVYLHTNNI 276
>pdb|4AW4|A Chain A, Engineered Variant Of Listeria Monocytogenes Inlb
Internalin Domain With An Additional Leucine Rich
Repeat Inserted
pdb|4AW4|B Chain B, Engineered Variant Of Listeria Monocytogenes Inlb
Internalin Domain With An Additional Leucine Rich
Repeat Inserted
pdb|4AW4|C Chain C, Engineered Variant Of Listeria Monocytogenes Inlb
Internalin Domain With An Additional Leucine Rich
Repeat Inserted
Length = 311
Score = 28.5 bits (62), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 14/60 (23%), Positives = 29/60 (48%)
Query: 39 CETEKEKINFLVCAGAGLEEAPDVKEWENVRRLSLMQNQIETLSEVPTCPHFVTLFLDFN 98
+ E I+ ++ + ++ ++ N+ L+L NQI +S + P+ LFL+ N
Sbjct: 39 TQNELNSIDQIIANNSDIKSVQGIQYLPNLTSLNLSNNQITDISPIQYLPNVTKLFLNGN 98
>pdb|2Z7X|B Chain B, Crystal Structure Of The Tlr1-Tlr2 Heterodimer Induced By
Binding Of A Tri-Acylated Lipopeptide
Length = 520
Score = 28.1 bits (61), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 20/68 (29%), Positives = 35/68 (51%), Gaps = 6/68 (8%)
Query: 87 CPHFVTLFLDFNGELKMIADGFFQLMPSLK-----VLKMSNCWNLKFLVGMS-KLGSLQL 140
CP ++ FL + ++ D F+ L +L+M+ L + M+ ++ SLQ
Sbjct: 319 CPSKISPFLHLDFSNNLLTDTVFENCGHLTELETLILQMNQLKELSKIAEMTTQMKSLQQ 378
Query: 141 LDISQNAI 148
LDISQN++
Sbjct: 379 LDISQNSV 386
>pdb|1YQ2|A Chain A, Beta-Galactosidase From Arthrobacter Sp. C2-2 (Isoenzyme
C2- 2-1)
pdb|1YQ2|B Chain B, Beta-Galactosidase From Arthrobacter Sp. C2-2 (Isoenzyme
C2- 2-1)
pdb|1YQ2|C Chain C, Beta-Galactosidase From Arthrobacter Sp. C2-2 (Isoenzyme
C2- 2-1)
pdb|1YQ2|D Chain D, Beta-Galactosidase From Arthrobacter Sp. C2-2 (Isoenzyme
C2- 2-1)
pdb|1YQ2|E Chain E, Beta-Galactosidase From Arthrobacter Sp. C2-2 (Isoenzyme
C2- 2-1)
pdb|1YQ2|F Chain F, Beta-Galactosidase From Arthrobacter Sp. C2-2 (Isoenzyme
C2- 2-1)
Length = 1024
Score = 28.1 bits (61), Expect = 3.5, Method: Composition-based stats.
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 2/43 (4%)
Query: 25 KMLDVVRDMALWIACETEKEKINFLVCAGAGLEEAPDVKEWEN 67
++LD+ +M W+ E + E F AG +E DV W +
Sbjct: 376 RLLDLADEMGFWVILECDLETHGFE--AGGWVENPSDVPAWRD 416
>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 = 27.3 bits (59), Expect = 6.0, Method: Compositional matrix adjust.
Identities = 28/106 (26%), Positives = 49/106 (46%), Gaps = 4/106 (3%)
Query: 46 INFLVCAGAGLEEAPDVKEWENVRRLSLMQNQIETLSE--VPTCPHFVTLFLDFNGELKM 103
+ +L G L + +KE N+ L L NQ+++L + L L N +L+
Sbjct: 65 VRYLALGGNKLHDISALKELTNLTYLILTGNQLQSLPNGVFDKLTNLKELVLVEN-QLQS 123
Query: 104 IADGFFQLMPSLKVLKMSNCWNLKFLVGM-SKLGSLQLLDISQNAI 148
+ DG F + +L L +++ G+ KL +L LD+S N +
Sbjct: 124 LPDGVFDKLTNLTYLNLAHNQLQSLPKGVFDKLTNLTELDLSYNQL 169
>pdb|4FMZ|A Chain A, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
pdb|4FMZ|B Chain B, Crystal Structure Of An Internalin (Inlf) From Listeria
Monocytogenes Str. 4b F2365 At 1.91 A Resolution
Length = 347
Score = 27.3 bits (59), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 26/108 (24%), Positives = 52/108 (48%), Gaps = 14/108 (12%)
Query: 46 INFLVCAGAGLEEAPDVKEWENVRRLSLMQNQIETLSEVP--TCPHFVTLFLDFNGELKM 103
+N+L + +++ + ++ LSL NQIE +S + T H+ T +++ ++
Sbjct: 157 LNYLTVTESKVKDVTPIANLTDLYSLSLNYNQIEDISPLASLTSLHYFTAYVNQITDITP 216
Query: 104 IADGFFQLMPSLKVLKMSN--CWNLKFLVGMSKL-----GSLQLLDIS 144
+A+ L LK+ N +L L +S+L G+ Q+ DI+
Sbjct: 217 VAN-----XTRLNSLKIGNNKITDLSPLANLSQLTWLEIGTNQISDIN 259
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 0.138 0.413
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,318,848
Number of Sequences: 62578
Number of extensions: 176878
Number of successful extensions: 338
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 2
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 332
Number of HSP's gapped (non-prelim): 13
length of query: 210
length of database: 14,973,337
effective HSP length: 95
effective length of query: 115
effective length of database: 9,028,427
effective search space: 1038269105
effective search space used: 1038269105
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: 49 (23.5 bits)