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= 007277
(609 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1N80|A Chain A, Bacteriophage T4 Baseplate Structural Protein Gp8
pdb|1N80|B Chain B, Bacteriophage T4 Baseplate Structural Protein Gp8
pdb|1N80|C Chain C, Bacteriophage T4 Baseplate Structural Protein Gp8
pdb|1N80|D Chain D, Bacteriophage T4 Baseplate Structural Protein Gp8
pdb|1N8B|A Chain A, Bacteriophage T4 Baseplate Structural Protein Gp8
pdb|1N8B|B Chain B, Bacteriophage T4 Baseplate Structural Protein Gp8
pdb|1N8B|C Chain C, Bacteriophage T4 Baseplate Structural Protein Gp8
pdb|1N8B|D Chain D, Bacteriophage T4 Baseplate Structural Protein Gp8
pdb|1PDM|A Chain A, Fitting Of Gp8 Structure Into The Cryoem Reconstruction
Of The Bacteriophage T4 Baseplate
pdb|1PDM|B Chain B, Fitting Of Gp8 Structure Into The Cryoem Reconstruction
Of The Bacteriophage T4 Baseplate
pdb|1PDM|C Chain C, Fitting Of Gp8 Structure Into The Cryoem Reconstruction
Of The Bacteriophage T4 Baseplate
pdb|1PDM|D Chain D, Fitting Of Gp8 Structure Into The Cryoem Reconstruction
Of The Bacteriophage T4 Baseplate
pdb|1PDM|E Chain E, Fitting Of Gp8 Structure Into The Cryoem Reconstruction
Of The Bacteriophage T4 Baseplate
pdb|1PDM|F Chain F, Fitting Of Gp8 Structure Into The Cryoem Reconstruction
Of The Bacteriophage T4 Baseplate
pdb|1PDM|G Chain G, Fitting Of Gp8 Structure Into The Cryoem Reconstruction
Of The Bacteriophage T4 Baseplate
pdb|1PDM|H Chain H, Fitting Of Gp8 Structure Into The Cryoem Reconstruction
Of The Bacteriophage T4 Baseplate
pdb|1PDM|I Chain I, Fitting Of Gp8 Structure Into The Cryoem Reconstruction
Of The Bacteriophage T4 Baseplate
pdb|1PDM|J Chain J, Fitting Of Gp8 Structure Into The Cryoem Reconstruction
Of The Bacteriophage T4 Baseplate
pdb|1PDM|K Chain K, Fitting Of Gp8 Structure Into The Cryoem Reconstruction
Of The Bacteriophage T4 Baseplate
pdb|1PDM|L Chain L, Fitting Of Gp8 Structure Into The Cryoem Reconstruction
Of The Bacteriophage T4 Baseplate
pdb|1TJA|A Chain A, Fitting Of Gp8, Gp9, And Gp11 Into The Cryo-em
Reconstruction Of The Bacteriophage T4 Contracted Tail
pdb|1TJA|B Chain B, Fitting Of Gp8, Gp9, And Gp11 Into The Cryo-em
Reconstruction Of The Bacteriophage T4 Contracted Tail
Length = 334
Score = 32.0 bits (71), Expect = 0.97, Method: Compositional matrix adjust.
Identities = 14/38 (36%), Positives = 21/38 (55%), Gaps = 2/38 (5%)
Query: 22 LNPPSPVDEVINLLDKVEHLLANVEQAPSRSMRDALLP 59
PP P D V+ + D H++ V+ P SM DA++P
Sbjct: 56 FAPPYPTDSVLGVTDMWTHMMGTVKVLP--SMLDAVIP 91
>pdb|2NYG|A Chain A, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|B Chain B, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|C Chain C, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|D Chain D, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|E Chain E, Crystal Structure Of Yokd Protein From Bacillus Subtilis
pdb|2NYG|F Chain F, Crystal Structure Of Yokd Protein From Bacillus Subtilis
Length = 273
Score = 30.4 bits (67), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/24 (45%), Positives = 18/24 (75%)
Query: 153 VVEMFQHFLKVIRSNHPHFVFAAM 176
+VE+F+ + +V RSNHP++ F A
Sbjct: 115 IVELFRSYPEVKRSNHPNYSFVAW 138
>pdb|3P9D|E Chain E, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9D|M Chain M, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9E|EE Chain e, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9E|MM Chain m, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|4D8Q|E Chain E, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8Q|M Chain M, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8R|EE Chain e, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8R|MM Chain m, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
Length = 562
Score = 28.9 bits (63), Expect = 8.7, Method: Compositional matrix adjust.
Identities = 13/53 (24%), Positives = 29/53 (54%), Gaps = 10/53 (18%)
Query: 155 EMFQHFL----------KVIRSNHPHFVFAAMETIMTLVIDESEDVSWDLLRI 197
E+F+ FL K++ +H F A+E ++ ++ + +DV +DL+++
Sbjct: 174 ELFRDFLLRAAKTSLGSKIVSKDHDRFAEMAVEAVINVMDKDRKDVDFDLIKM 226
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
0.311 0.128 0.358
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 17,220,035
Number of Sequences: 62578
Number of extensions: 658648
Number of successful extensions: 1164
Number of sequences better than 100.0: 3
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1163
Number of HSP's gapped (non-prelim): 3
length of query: 609
length of database: 14,973,337
effective HSP length: 105
effective length of query: 504
effective length of database: 8,402,647
effective search space: 4234934088
effective search space used: 4234934088
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 54 (25.4 bits)