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= psy13328
(68 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2W3C|A Chain A, Globular Head Region Of The Human General Vesicular
Transport Factor P115
Length = 577
Score = 65.9 bits (159), Expect = 6e-12, Method: Composition-based stats.
Identities = 30/42 (71%), Positives = 33/42 (78%)
Query: 24 VGEQFTEIFIKNHENVSLVLGYLEEFDFRVRWSAVKLLTGLL 65
+G QFTEIFIK ENV+L+L LEEFDF VRW VKLLT LL
Sbjct: 57 LGSQFTEIFIKQQENVTLLLSLLEEFDFHVRWPGVKLLTSLL 98
>pdb|3GQ2|A Chain A, Crystal Structure Of The Dimer Of The P115 Tether Globular
Head Domain
pdb|3GQ2|B Chain B, Crystal Structure Of The Dimer Of The P115 Tether Globular
Head Domain
pdb|3GRL|A Chain A, Crystal Structure Of The Monomer Of The P115 Tether
Globular Head Domain
Length = 651
Score = 65.9 bits (159), Expect = 6e-12, Method: Composition-based stats.
Identities = 30/42 (71%), Positives = 33/42 (78%)
Query: 24 VGEQFTEIFIKNHENVSLVLGYLEEFDFRVRWSAVKLLTGLL 65
+G QFTEIFIK ENV+L+L LEEFDF VRW VKLLT LL
Sbjct: 109 LGSQFTEIFIKQQENVTLLLSLLEEFDFHVRWPGVKLLTSLL 150
>pdb|1ZVV|A Chain A, Crystal Structure Of A Ccpa-Crh-Dna Complex
pdb|1ZVV|B Chain B, Crystal Structure Of A Ccpa-Crh-Dna Complex
pdb|1ZVV|G Chain G, Crystal Structure Of A Ccpa-Crh-Dna Complex
pdb|2JCG|A Chain A, Apo Form Of The Catabolite Control Protein A (Ccpa) From
Bacillus Megaterium, With The Dna Binding Domain
Length = 332
Score = 25.4 bits (54), Expect = 8.3, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 9 STTKLPEGAIHREISVGEQFTEIFIKNHENVSLVLGYLEE 48
ST ++P I E + + + H+N++ V G LEE
Sbjct: 150 STNQIPSVTIDYEQAAFDAVQSLIDSGHKNIAFVSGTLEE 189
>pdb|2HSG|A Chain A, Structure Of Transcription Regulator Ccpa In Its Dna-Free
State
Length = 332
Score = 25.4 bits (54), Expect = 8.5, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 9 STTKLPEGAIHREISVGEQFTEIFIKNHENVSLVLGYLEE 48
ST ++P I E + + + H+N++ V G LEE
Sbjct: 150 STNQIPSVTIDYEQAAFDAVQSLIDSGHKNIAFVSGTLEE 189
>pdb|1SXG|A Chain A, Structural Studies On The Apo Transcription Factor Form B.
Megaterium
pdb|1SXG|D Chain D, Structural Studies On The Apo Transcription Factor Form B.
Megaterium
pdb|1SXG|B Chain B, Structural Studies On The Apo Transcription Factor Form B.
Megaterium
pdb|1SXG|I Chain I, Structural Studies On The Apo Transcription Factor Form B.
Megaterium
pdb|1SXG|P Chain P, Structural Studies On The Apo Transcription Factor Form B.
Megaterium
pdb|1SXG|F Chain F, Structural Studies On The Apo Transcription Factor Form B.
Megaterium
pdb|2NZU|G Chain G, Structural Mechanism For The Fine-Tuning Of Ccpa Function
By The Small Molecule Effectors G6p And Fbp
pdb|2NZV|G Chain G, Structural Mechanism For The Fine-Tuning Of Ccpa Function
By The Small Molecule Effectors G6p And Fbp
pdb|2OEN|G Chain G, Structural Mechanism For The Fine-Tuning Of Ccpa Function
By The Small Molecule Effectors Glucose-6-Phosphate And
Fructose-1,6-Bisphosphate
Length = 280
Score = 25.4 bits (54), Expect = 8.6, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 9 STTKLPEGAIHREISVGEQFTEIFIKNHENVSLVLGYLEE 48
ST ++P I E + + + H+N++ V G LEE
Sbjct: 98 STNQIPSVTIDYEQAAFDAVQSLIDSGHKNIAFVSGTLEE 137
>pdb|1RZR|G Chain G, Crystal Structure Of Transcriptional Regulator-
Phosphoprotein-Dna Complex
pdb|1RZR|C Chain C, Crystal Structure Of Transcriptional Regulator-
Phosphoprotein-Dna Complex
pdb|1RZR|A Chain A, Crystal Structure Of Transcriptional Regulator-
Phosphoprotein-Dna Complex
Length = 332
Score = 25.4 bits (54), Expect = 8.6, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 9 STTKLPEGAIHREISVGEQFTEIFIKNHENVSLVLGYLEE 48
ST ++P I E + + + H+N++ V G LEE
Sbjct: 150 STNQIPSVTIDYEQAAFDAVQSLIDSGHKNIAFVSGTLEE 189
>pdb|1RZR|D Chain D, Crystal Structure Of Transcriptional Regulator-
Phosphoprotein-Dna Complex
Length = 332
Score = 25.4 bits (54), Expect = 8.6, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 9 STTKLPEGAIHREISVGEQFTEIFIKNHENVSLVLGYLEE 48
ST ++P I E + + + H+N++ V G LEE
Sbjct: 150 STNQIPSVTIDYEQAAFDAVQSLIDSGHKNIAFVSGTLEE 189
>pdb|1SXH|A Chain A, Apo Structure Of B. Megaterium Transcription Regulator
pdb|1SXH|D Chain D, Apo Structure Of B. Megaterium Transcription Regulator
pdb|1SXI|A Chain A, Structure Of Apo Transcription Regulator B. Megaterium
pdb|1SXI|D Chain D, Structure Of Apo Transcription Regulator B. Megaterium
pdb|1SXI|B Chain B, Structure Of Apo Transcription Regulator B. Megaterium
pdb|1SXI|I Chain I, Structure Of Apo Transcription Regulator B. Megaterium
pdb|1SXI|R Chain R, Structure Of Apo Transcription Regulator B. Megaterium
pdb|1SXI|T Chain T, Structure Of Apo Transcription Regulator B. Megaterium
pdb|1SXI|L Chain L, Structure Of Apo Transcription Regulator B. Megaterium
pdb|1SXI|K Chain K, Structure Of Apo Transcription Regulator B. Megaterium
pdb|1SXI|W Chain W, Structure Of Apo Transcription Regulator B. Megaterium
pdb|1SXI|G Chain G, Structure Of Apo Transcription Regulator B. Megaterium
pdb|1SXI|N Chain N, Structure Of Apo Transcription Regulator B. Megaterium
pdb|1SXI|M Chain M, Structure Of Apo Transcription Regulator B. Megaterium
Length = 280
Score = 25.4 bits (54), Expect = 8.8, Method: Composition-based stats.
Identities = 12/40 (30%), Positives = 20/40 (50%)
Query: 9 STTKLPEGAIHREISVGEQFTEIFIKNHENVSLVLGYLEE 48
ST ++P I E + + + H+N++ V G LEE
Sbjct: 98 STNQIPSVTIDYEQAAFDAVQSLIDSGHKNIAFVSGTLEE 137
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
0.320 0.137 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,039,603
Number of Sequences: 62578
Number of extensions: 63555
Number of successful extensions: 141
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 132
Number of HSP's gapped (non-prelim): 9
length of query: 68
length of database: 14,973,337
effective HSP length: 38
effective length of query: 30
effective length of database: 12,595,373
effective search space: 377861190
effective search space used: 377861190
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: 45 (21.9 bits)