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= 047507
(165 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1XHX|A Chain A, Phi29 Dna Polymerase, Orthorhombic Crystal Form
pdb|1XHX|B Chain B, Phi29 Dna Polymerase, Orthorhombic Crystal Form
pdb|1XHX|C Chain C, Phi29 Dna Polymerase, Orthorhombic Crystal Form
pdb|1XHX|D Chain D, Phi29 Dna Polymerase, Orthorhombic Crystal Form
pdb|1XHZ|A Chain A, Phi29 Dna Polymerase, Orthorhombic Crystal Form, Ssdna
Complex
pdb|1XHZ|B Chain B, Phi29 Dna Polymerase, Orthorhombic Crystal Form, Ssdna
Complex
pdb|1XHZ|C Chain C, Phi29 Dna Polymerase, Orthorhombic Crystal Form, Ssdna
Complex
pdb|1XHZ|D Chain D, Phi29 Dna Polymerase, Orthorhombic Crystal Form, Ssdna
Complex
pdb|1XI1|A Chain A, Phi29 Dna Polymerase Ssdna Complex, Monoclinic Crystal
Form
pdb|1XI1|B Chain B, Phi29 Dna Polymerase Ssdna Complex, Monoclinic Crystal
Form
pdb|2EX3|A Chain A, Bacteriophage Phi29 Dna Polymerase Bound To Terminal
Protein
pdb|2EX3|C Chain C, Bacteriophage Phi29 Dna Polymerase Bound To Terminal
Protein
pdb|2EX3|E Chain E, Bacteriophage Phi29 Dna Polymerase Bound To Terminal
Protein
pdb|2EX3|G Chain G, Bacteriophage Phi29 Dna Polymerase Bound To Terminal
Protein
pdb|2EX3|I Chain I, Bacteriophage Phi29 Dna Polymerase Bound To Terminal
Protein
pdb|2EX3|K Chain K, Bacteriophage Phi29 Dna Polymerase Bound To Terminal
Protein
pdb|2PY5|A Chain A, Phi29 Dna Polymerase Complexed With Single-stranded Dna
pdb|2PY5|B Chain B, Phi29 Dna Polymerase Complexed With Single-stranded Dna
pdb|2PYJ|A Chain A, Phi29 Dna Polymerase Complexed With Primer-Template Dna
And Incoming Nucleotide Substrates (Ternary Complex)
pdb|2PYJ|B Chain B, Phi29 Dna Polymerase Complexed With Primer-Template Dna
And Incoming Nucleotide Substrates (Ternary Complex)
pdb|2PYL|A Chain A, Phi29 Dna Polymerase Complexed With Primer-Template Dna
And Incoming Nucleotide Substrates (Ternary Complex)
pdb|2PZS|A Chain A, Phi29 Dna Polymerase Complexed With Primer-Template Dna
(Post-Translocation Binary Complex)
pdb|2PZS|B Chain B, Phi29 Dna Polymerase Complexed With Primer-Template Dna
(Post-Translocation Binary Complex)
pdb|2PZS|C Chain C, Phi29 Dna Polymerase Complexed With Primer-Template Dna
(Post-Translocation Binary Complex)
pdb|2PZS|D Chain D, Phi29 Dna Polymerase Complexed With Primer-Template Dna
(Post-Translocation Binary Complex)
Length = 575
Score = 32.0 bits (71), Expect = 0.16, Method: Compositional matrix adjust.
Identities = 18/41 (43%), Positives = 24/41 (58%), Gaps = 2/41 (4%)
Query: 97 LFDGDWVWDEKYPLY-QSKDCRF-LDEGFRCTENGRPDLFY 135
+F+G +VWDE YPL+ Q C F L EG+ T + FY
Sbjct: 270 VFEGKYVWDEDYPLHIQHIRCEFELKEGYIPTIQIKRSRFY 310
>pdb|1H0B|A Chain A, Endoglucanase Cel12a From Rhodothermus Marinus
pdb|1H0B|B Chain B, Endoglucanase Cel12a From Rhodothermus Marinus
Length = 256
Score = 27.7 bits (60), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 64 GKSERFKWLKVDGALMVDKTRVEFLSENGSGCDLFDGDWVWD 105
G +E WL +G +M +RV + G+ +++ DW W+
Sbjct: 121 GGAELMIWLNWNGGVMPGGSRVATVELAGATWEVWYADWDWN 162
>pdb|2BW8|A Chain A, Native Structure Of Endoglucanase 12a (Cel12a) From
Rhodothermus Marinus
pdb|2BW8|B Chain B, Native Structure Of Endoglucanase 12a (Cel12a) From
Rhodothermus Marinus
pdb|2BWA|A Chain A, Structure Of Endoglucanase 12a (Cel12a) From Rhodothermus
Marinus In Complex With Cellopentaose, 20 Minute Soak.
pdb|2BWA|B Chain B, Structure Of Endoglucanase 12a (Cel12a) From Rhodothermus
Marinus In Complex With Cellopentaose, 20 Minute Soak.
pdb|2BWC|A Chain A, Structure Of Endoglucanase 12a (Cel12a) From Rhodothermus
Marinus In Complex With Cellopentaose (5 Minute Soak)
pdb|2BWC|B Chain B, Structure Of Endoglucanase 12a (Cel12a) From Rhodothermus
Marinus In Complex With Cellopentaose (5 Minute Soak)
Length = 227
Score = 27.7 bits (60), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 12/42 (28%), Positives = 22/42 (52%)
Query: 64 GKSERFKWLKVDGALMVDKTRVEFLSENGSGCDLFDGDWVWD 105
G +E WL +G +M +RV + G+ +++ DW W+
Sbjct: 121 GGAELMIWLNWNGGVMPGGSRVATVELAGATWEVWYADWDWN 162
>pdb|1RLI|A Chain A, The Structure Of Trp Repressor Binding Protein From
Bacillus Subtilis
pdb|1RLI|B Chain B, The Structure Of Trp Repressor Binding Protein From
Bacillus Subtilis
pdb|1RLI|C Chain C, The Structure Of Trp Repressor Binding Protein From
Bacillus Subtilis
pdb|1RLI|D Chain D, The Structure Of Trp Repressor Binding Protein From
Bacillus Subtilis
Length = 184
Score = 27.3 bits (59), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 10/31 (32%), Positives = 18/31 (58%)
Query: 98 FDGDWVWDEKYPLYQSKDCRFLDEGFRCTEN 128
FD + ++ +KYP+ +D R GFR ++
Sbjct: 30 FDAEHIYLQKYPIQPIEDLRHAQGGFRPVQD 60
>pdb|3Q69|A Chain A, X-Ray Crystal Structure Of A Mucbp Domain Of The Protein
Lba1460 From Lactobacillus Acidophilus, Northeast
Structural Genomics Consortium Target Lar80a
Length = 122
Score = 26.9 bits (58), Expect = 5.0, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 19/39 (48%)
Query: 75 DGALMVDKTRVEFLSENGSGCDLFDGDWVWDEKYPLYQS 113
DGA+ D V + DL +G +WD K+ L Q+
Sbjct: 21 DGAVAHDDHVVSLIFTQSGKRDLTNGKEIWDSKWSLTQT 59
>pdb|2LFI|A Chain A, Solution Nmr Structure Of A Mucbp Domain (Fragment
187-294) Of The Protein Lba1460 From Lactobacillus
Acidophilus, Northeast Structural Genomics Consortium
Target Lar80a
Length = 122
Score = 26.9 bits (58), Expect = 5.1, Method: Compositional matrix adjust.
Identities = 13/39 (33%), Positives = 19/39 (48%)
Query: 75 DGALMVDKTRVEFLSENGSGCDLFDGDWVWDEKYPLYQS 113
DGA+ D V + DL +G +WD K+ L Q+
Sbjct: 21 DGAVAHDDHVVSLIFTQSGKRDLTNGKEIWDSKWSLTQT 59
>pdb|3P9D|C Chain C, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9D|K Chain K, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9E|CC Chain c, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|3P9E|KK Chain k, The Crystal Structure Of Yeast Cct Reveals Intrinsic
Asymmetry Of Eukaryotic Cytosolic Chaperonins
pdb|4D8Q|C Chain C, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8Q|K Chain K, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8R|CC Chain c, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
pdb|4D8R|KK Chain k, Molecular Architecture Of The Eukaryotic Chaperonin
TricCCT DERIVED By A Combination Of Chemical
Crosslinking And Mass-Spectrometry, Xl- Ms
Length = 590
Score = 26.6 bits (57), Expect = 6.8, Method: Composition-based stats.
Identities = 23/67 (34%), Positives = 33/67 (49%), Gaps = 15/67 (22%)
Query: 65 KSERFKWLKVDGALMVDKTRVEFLSEN--GSGCDLFDGDWVWDEKYPLYQSKDCRFLDEG 122
KS+ + +V GA +V+ RVE L E+ G+ C LF + + DE + FLD
Sbjct: 322 KSDNNRIARVTGATIVN--RVEDLKESDVGTNCGLFKVEMIGDEYF--------SFLDN- 370
Query: 123 FRCTENG 129
C E G
Sbjct: 371 --CKEPG 375
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
0.321 0.140 0.456
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,303,640
Number of Sequences: 62578
Number of extensions: 217849
Number of successful extensions: 378
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 1
Number of HSP's that attempted gapping in prelim test: 372
Number of HSP's gapped (non-prelim): 7
length of query: 165
length of database: 14,973,337
effective HSP length: 91
effective length of query: 74
effective length of database: 9,278,739
effective search space: 686626686
effective search space used: 686626686
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 47 (22.7 bits)