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= 007454
(603 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2EP7|A Chain A, Structural Study Of Project Id Aq_1065 From Aquifex
Aeolicus Vf5
pdb|2EP7|B Chain B, Structural Study Of Project Id Aq_1065 From Aquifex
Aeolicus Vf5
Length = 342
Score = 35.4 bits (80), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 22/84 (26%), Positives = 44/84 (52%), Gaps = 2/84 (2%)
Query: 488 WKREKIEPVLVQKLADRENIS--LSYGSLHHIWFSDKYQKEKDNVLEKTDREAKSKSDNN 545
W RE+IE V + L D ++++ L Y S+H I+ K+ V++ + + ++ D +
Sbjct: 22 WGREEIEIVAINDLTDAKHLAHLLKYDSVHGIFKGSVEAKDDSIVVDGKEIKVFAQKDPS 81
Query: 546 RKDKANLGITVVTASLGYLANFED 569
+ +LG+ VV + G + E+
Sbjct: 82 QIPWGDLGVDVVIEATGVFRDREN 105
>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 = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 150 SVSYKTGNLKTQLLHGGQESGLESAMKKRIMDFLN--ISENDYVYDYESEAVEAMIRTSE 207
++++ +G L+ + H + G + A+ + + + I E DY YD EAVE ++ E
Sbjct: 179 NIAFVSGTLEEPINHAKKVKGYKRALTESGLPVRDSYIVEGDYTYDSGIEAVEKLLEEDE 238
Query: 208 KRGA 211
K A
Sbjct: 239 KPTA 242
>pdb|1RZR|D Chain D, Crystal Structure Of Transcriptional Regulator-
Phosphoprotein-Dna Complex
Length = 332
Score = 30.0 bits (66), Expect = 3.9, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 150 SVSYKTGNLKTQLLHGGQESGLESAMKKRIMDFLN--ISENDYVYDYESEAVEAMIRTSE 207
++++ +G L+ + H + G + A+ + + + I E DY YD EAVE ++ E
Sbjct: 179 NIAFVSGTLEEPINHAKKVKGYKRALTESGLPVRDSYIVEGDYTYDSGIEAVEKLLEEDE 238
Query: 208 KRGA 211
K A
Sbjct: 239 KPTA 242
>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 = 30.0 bits (66), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 150 SVSYKTGNLKTQLLHGGQESGLESAMKKRIMDFLN--ISENDYVYDYESEAVEAMIRTSE 207
++++ +G L+ + H + G + A+ + + + I E DY YD EAVE ++ E
Sbjct: 127 NIAFVSGTLEEPINHAKKVKGYKRALTESGLPVRDSYIVEGDYTYDSGIEAVEKLLEEDE 186
Query: 208 KRGA 211
K A
Sbjct: 187 KPTA 190
>pdb|2HSG|A Chain A, Structure Of Transcription Regulator Ccpa In Its Dna-Free
State
Length = 332
Score = 29.6 bits (65), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 150 SVSYKTGNLKTQLLHGGQESGLESAMKKRIMDFLN--ISENDYVYDYESEAVEAMIRTSE 207
++++ +G L+ + H + G + A+ + + + I E DY YD EAVE ++ E
Sbjct: 179 NIAFVSGTLEEPINHAKKVKGYKRALTESGLPVRDSYIVEGDYTYDSGIEAVEKLLEEDE 238
Query: 208 KRGA 211
K A
Sbjct: 239 KPTA 242
>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 = 29.6 bits (65), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 150 SVSYKTGNLKTQLLHGGQESGLESAMKKRIMDFLN--ISENDYVYDYESEAVEAMIRTSE 207
++++ +G L+ + H + G + A+ + + + I E DY YD EAVE ++ E
Sbjct: 179 NIAFVSGTLEEPINHAKKVKGYKRALTESGLPVRDSYIVEGDYTYDSGIEAVEKLLEEDE 238
Query: 208 KRGA 211
K A
Sbjct: 239 KPTA 242
>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 = 29.6 bits (65), Expect = 4.9, Method: Compositional matrix adjust.
Identities = 18/64 (28%), Positives = 33/64 (51%), Gaps = 2/64 (3%)
Query: 150 SVSYKTGNLKTQLLHGGQESGLESAMKKRIMDFLN--ISENDYVYDYESEAVEAMIRTSE 207
++++ +G L+ + H + G + A+ + + + I E DY YD EAVE ++ E
Sbjct: 127 NIAFVSGTLEEPINHAKKVKGYKRALTESGLPVRDSYIVEGDYTYDSGIEAVEKLLEEDE 186
Query: 208 KRGA 211
K A
Sbjct: 187 KPTA 190
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
0.318 0.133 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 16,203,068
Number of Sequences: 62578
Number of extensions: 617945
Number of successful extensions: 1293
Number of sequences better than 100.0: 7
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 1290
Number of HSP's gapped (non-prelim): 10
length of query: 603
length of database: 14,973,337
effective HSP length: 104
effective length of query: 499
effective length of database: 8,465,225
effective search space: 4224147275
effective search space used: 4224147275
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 54 (25.4 bits)