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= 048040
(178 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4FCG|A Chain A, Structure Of The Leucine-Rich Repeat Domain Of The Type
Iii Effector Xcv3220 (Xopl)
Length = 328
Score = 29.6 bits (65), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 16/51 (31%), Positives = 27/51 (52%), Gaps = 3/51 (5%)
Query: 69 PIPEFIGS---LSKLRYLNLSCGAPLEVPRTLRNFSGLEYLNLENSHLFSV 116
P+P+F LS L++ + E+P T + F+GLE L L + L ++
Sbjct: 92 PLPQFPDQAFRLSHLQHXTIDAAGLXELPDTXQQFAGLETLTLARNPLRAL 142
>pdb|1RJD|A Chain A, Structure Of Ppm1, A Leucine Carboxy Methyltransferase
Involved In The Regulation Of Protein Phosphatase 2a
Activity
pdb|1RJD|B Chain B, Structure Of Ppm1, A Leucine Carboxy Methyltransferase
Involved In The Regulation Of Protein Phosphatase 2a
Activity
pdb|1RJD|C Chain C, Structure Of Ppm1, A Leucine Carboxy Methyltransferase
Involved In The Regulation Of Protein Phosphatase 2a
Activity
pdb|1RJE|A Chain A, Structure Of Ppm1, A Leucine Carboxy Methyltransferase
Involved In The Regulation Of Protein Phosphatase 2a
Activity
pdb|1RJE|B Chain B, Structure Of Ppm1, A Leucine Carboxy Methyltransferase
Involved In The Regulation Of Protein Phosphatase 2a
Activity
pdb|1RJE|C Chain C, Structure Of Ppm1, A Leucine Carboxy Methyltransferase
Involved In The Regulation Of Protein Phosphatase 2a
Activity
pdb|1RJF|A Chain A, Structure Of Ppm1, A Leucine Carboxy Methyltransferase
Involved In The Regulation Of Protein Phosphatase 2a
Activity
pdb|1RJF|B Chain B, Structure Of Ppm1, A Leucine Carboxy Methyltransferase
Involved In The Regulation Of Protein Phosphatase 2a
Activity
pdb|1RJF|C Chain C, Structure Of Ppm1, A Leucine Carboxy Methyltransferase
Involved In The Regulation Of Protein Phosphatase 2a
Activity
pdb|1RJG|A Chain A, Structure Of Ppm1, A Leucine Carboxy Methyltransferase
Involved In The Regulation Of Protein Phosphatase 2a
Activity
Length = 334
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 26/42 (61%)
Query: 68 SPIPEFIGSLSKLRYLNLSCGAPLEVPRTLRNFSGLEYLNLE 109
+ I EF+ + K++ +NL CG+ L + L+ F L Y++++
Sbjct: 87 AAILEFLVANEKVQVVNLGCGSDLRMLPLLQMFPHLAYVDID 128
>pdb|2OB2|A Chain A, Ppm1 In The Absence Of 1,8-Ans (Cf 1jd)
pdb|2OB2|B Chain B, Ppm1 In The Absence Of 1,8-Ans (Cf 1jd)
pdb|2OB2|C Chain C, Ppm1 In The Absence Of 1,8-Ans (Cf 1jd)
Length = 327
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 26/42 (61%)
Query: 68 SPIPEFIGSLSKLRYLNLSCGAPLEVPRTLRNFSGLEYLNLE 109
+ I EF+ + K++ +NL CG+ L + L+ F L Y++++
Sbjct: 86 AAILEFLVANEKVQVVNLGCGSDLRMLPLLQMFPHLAYVDID 127
>pdb|2OB1|A Chain A, Ppm1 With 1,8-Ans
pdb|2OB1|B Chain B, Ppm1 With 1,8-Ans
pdb|2OB1|C Chain C, Ppm1 With 1,8-Ans
Length = 319
Score = 28.9 bits (63), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 13/42 (30%), Positives = 26/42 (61%)
Query: 68 SPIPEFIGSLSKLRYLNLSCGAPLEVPRTLRNFSGLEYLNLE 109
+ I EF+ + K++ +NL CG+ L + L+ F L Y++++
Sbjct: 78 AAILEFLVANEKVQVVNLGCGSDLRMLPLLQMFPHLAYVDID 119
>pdb|1OGQ|A Chain A, The Crystal Structure Of Pgip (Polygalacturonase
Inhibiting Protein), A Leucine Rich Repeat Protein
Involved In Plant Defense
Length = 313
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 24/79 (30%), Positives = 31/79 (39%), Gaps = 6/79 (7%)
Query: 7 DCCK--WRGVHCRNTTGHVKVLNLRTSDYEFARRKFLKGTISPAXXXXXXXXXXXXSNND 64
DCC W GV C T +V NL S + + ++ A NN
Sbjct: 32 DCCNRTWLGVLCDTDTQTYRVNNLDLSGLNLPKPYPIPSSL--ANLPYLNFLYIGGINNL 89
Query: 65 FGGSPIPEFIGSLSKLRYL 83
G PIP I L++L YL
Sbjct: 90 VG--PIPPAIAKLTQLHYL 106
>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 = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 28/55 (50%), Gaps = 1/55 (1%)
Query: 63 NDFGGSPIPEFIGSLSKLRYLNLS-CGAPLEVPRTLRNFSGLEYLNLENSHLFSV 116
N F + +P+ L L +L+LS C P + S L+ LN+ +++ FS+
Sbjct: 160 NSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSL 214
>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 = 28.1 bits (61), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 61 SNNDFGGSPIPEFIGSLSKLRYLNLS-CGAPLEVPRTLRNFSGLEYLNLENSHLFSV 116
+ N F + +P+ L L +L+LS C P + S L+ LN+ +++ FS+
Sbjct: 477 AGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSL 533
>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 = 28.1 bits (61), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 29/57 (50%), Gaps = 1/57 (1%)
Query: 61 SNNDFGGSPIPEFIGSLSKLRYLNLS-CGAPLEVPRTLRNFSGLEYLNLENSHLFSV 116
+ N F + +P+ L L +L+LS C P + S L+ LN+ +++ FS+
Sbjct: 453 AGNSFQENFLPDIFTELRNLTFLDLSQCQLEQLSPTAFNSLSSLQVLNMSHNNFFSL 509
>pdb|2GED|A Chain A, Signal Recognition Particle Receptor Beta-subunit In
Nucleotide-free Dimerized Form
pdb|2GED|B Chain B, Signal Recognition Particle Receptor Beta-subunit In
Nucleotide-free Dimerized Form
Length = 193
Score = 27.7 bits (60), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 13 GVHCRNTTGHVKVLNLRTSDYEFARRKFLKGTI 45
GV + GHVK L + SDY R KF+KG I
Sbjct: 92 GVTLVDFPGHVK-LRYKLSDYLKTRAKFVKGLI 123
>pdb|1NRJ|B Chain B, Signal Recognition Particle Receptor Beta-Subunit In
Complex With The Srx Domain From The Alpha-Subunit
Length = 218
Score = 27.3 bits (59), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 16/33 (48%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 13 GVHCRNTTGHVKVLNLRTSDYEFARRKFLKGTI 45
GV + GHVK L + SDY R KF+KG I
Sbjct: 56 GVTLVDFPGHVK-LRYKLSDYLKTRAKFVKGLI 87
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 0.447
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,320,356
Number of Sequences: 62578
Number of extensions: 130552
Number of successful extensions: 169
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 161
Number of HSP's gapped (non-prelim): 19
length of query: 178
length of database: 14,973,337
effective HSP length: 92
effective length of query: 86
effective length of database: 9,216,161
effective search space: 792589846
effective search space used: 792589846
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: 48 (23.1 bits)