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= 003746
(798 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MQP|A Chain A, Crystal Structure Of Human Bfl-1 In Complex With Noxa Bh3
Peptide, Northeast Structural Genomics Consortium Target
Hr2930
Length = 161
Score = 30.4 bits (67), Expect = 4.2, Method: Composition-based stats.
Identities = 21/86 (24%), Positives = 40/86 (46%), Gaps = 14/86 (16%)
Query: 375 SVEKARALFDAMIEKD----VVSWSTMISGYAQHDQFSETLSLFMEMQHHGIRPDEATLV 430
SV+ AR LF+ ++EK+ +++W +++ +A L ++ I PD T
Sbjct: 73 SVDTARTLFNQVMEKEFEDGIINWGRIVTIFAFEG------ILIKKLLRQQIAPDVDTYK 126
Query: 431 SVISACTHLVALDQGKWIHAYIRKNG 456
+ + + G+W IR+NG
Sbjct: 127 EISYFVAEFIMNNTGEW----IRQNG 148
>pdb|3I1H|A Chain A, Crystal Structure Of Human Bfl-1 In Complex With Bak Bh3
Peptide
Length = 161
Score = 30.4 bits (67), Expect = 4.2, Method: Composition-based stats.
Identities = 21/86 (24%), Positives = 40/86 (46%), Gaps = 14/86 (16%)
Query: 375 SVEKARALFDAMIEKD----VVSWSTMISGYAQHDQFSETLSLFMEMQHHGIRPDEATLV 430
SV+ AR LF+ ++EK+ +++W +++ +A L ++ I PD T
Sbjct: 73 SVDTARTLFNQVMEKEFEDGIINWGRIVTIFAFEG------ILIKKLLRQQIAPDVDTYK 126
Query: 431 SVISACTHLVALDQGKWIHAYIRKNG 456
+ + + G+W IR+NG
Sbjct: 127 EISYFVAEFIMNNTGEW----IRQNG 148
>pdb|2VM6|A Chain A, Human Bcl2-A1 In Complex With Bim-Bh3 Peptide
Length = 150
Score = 30.4 bits (67), Expect = 4.2, Method: Composition-based stats.
Identities = 21/86 (24%), Positives = 40/86 (46%), Gaps = 14/86 (16%)
Query: 375 SVEKARALFDAMIEKD----VVSWSTMISGYAQHDQFSETLSLFMEMQHHGIRPDEATLV 430
SV+ AR LF+ ++EK+ +++W +++ +A L ++ I PD T
Sbjct: 64 SVDTARTLFNQVMEKEFEDGIINWGRIVTIFAFEG------ILIKKLLRQQIAPDVDTYK 117
Query: 431 SVISACTHLVALDQGKWIHAYIRKNG 456
+ + + G+W IR+NG
Sbjct: 118 EISYFVAEFIMNNTGEW----IRQNG 139
>pdb|2FM4|A Chain A, Nmr Structure Of The Phosphoryl Carrier Domain Of Pyruvate
Phosphate Dikinase
Length = 128
Score = 30.4 bits (67), Expect = 4.5, Method: Composition-based stats.
Identities = 19/55 (34%), Positives = 25/55 (45%), Gaps = 1/55 (1%)
Query: 579 LKEAEELIESMPMSPDVATWGALLGACKKHGDHEMGERVGRKLVELQP-DHDGFH 632
LK E + ++P SP A A + HE GERV +E P D +G H
Sbjct: 3 LKAGEVIGSALPASPGAAAGKVYFTADEAKAAHEKGERVILVRLETSPEDIEGMH 57
>pdb|3SPA|A Chain A, Crystal Structure Of Human Mitochondrial Rna Polymerase
Length = 1134
Score = 30.0 bits (66), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 23/92 (25%), Positives = 43/92 (46%), Gaps = 11/92 (11%)
Query: 473 KLGCVDNALEVFHGTEEK----GVSSWNALIIGFAMNGLADKSLEMFSEMKKSGVTPNEI 528
+L + L V HG +K + +NA+++G+A G + + + +K +G+TP+ +
Sbjct: 142 QLPLAHHLLVVHHGQRQKRKLLTLDMYNAVMLGWARQGAFKELVYVLFMVKDAGLTPDLL 201
Query: 529 TFVGVLGACRHMGLVDEG----HRHFNSMIQE 556
++ L MG D+ R M QE
Sbjct: 202 SYAAALQC---MGRQDQDAGTIERCLEQMSQE 230
>pdb|4HXZ|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And
Topoisomerase Iv, Part I: Structure Guided Discovery And
Optimization Of Dual Targeting Agents With Potent,
Broad-spectrum Enzymatic Activity.
pdb|4HXZ|B Chain B, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And
Topoisomerase Iv, Part I: Structure Guided Discovery And
Optimization Of Dual Targeting Agents With Potent,
Broad-spectrum Enzymatic Activity.
pdb|4HY1|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And
Topoisomerase Iv, Part I: Structure Guided Discovery And
Optimization Of Dual Targeting Agents With Potent,
Broad-spectrum Enzymatic Activity.
pdb|4HY1|B Chain B, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And
Topoisomerase Iv, Part I: Structure Guided Discovery And
Optimization Of Dual Targeting Agents With Potent,
Broad-spectrum Enzymatic Activity.
pdb|4HYM|A Chain A, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And
Topoisomerase Iv, Part I: Structure Guided Discovery And
Optimization Of Dual Targeting Agents With Potent,
Broad-spectrum Enzymatic Activity.
pdb|4HYM|B Chain B, Pyrrolopyrimidine Inhibitors Of Dna Gyrase B And
Topoisomerase Iv, Part I: Structure Guided Discovery And
Optimization Of Dual Targeting Agents With Potent,
Broad-spectrum Enzymatic Activity
Length = 390
Score = 29.6 bits (65), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 21/83 (25%), Positives = 36/83 (43%), Gaps = 3/83 (3%)
Query: 397 MISGYAQHDQFSETLSLFMEMQHHGIRPDEATLVSVISACTHLVALDQGKW--IHAYIRK 454
+I ++ D + + + + E I+ L+ TH+ L G + I AYI K
Sbjct: 237 IIDNFSNGDSYLDAVFCWCEDPSESIKNSYVNLIPTPQDGTHVTGLKNGIYDAIKAYIEK 296
Query: 455 NGLKINSILGTTLIDMYMKLGCV 477
N L + +I T D + +L V
Sbjct: 297 NSLSVKNI-KITANDSFAQLNYV 318
>pdb|2DIK|A Chain A, R337a Mutant Of Pyruvate Phosphate Dikinase
Length = 873
Score = 29.3 bits (64), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 6/65 (9%)
Query: 579 LKEAEELIESMPMSPDVATWGALLGACKKHGDHEMGERVGRKLVELQPDHDGFHVLLSNI 638
LK E + ++P SP A A + HE GERV +E P+ + +
Sbjct: 385 LKAGEVIGSALPASPGAAAGKVYFTADEAKAAHEKGERVILVRLETSPED------IEGM 438
Query: 639 HASKG 643
HA++G
Sbjct: 439 HAAEG 443
>pdb|1KBL|A Chain A, Pyruvate Phosphate Dikinase
pdb|1KC7|A Chain A, Pyruvate Phosphate Dikinase With Bound
Mg-Phosphonopyruvate
Length = 873
Score = 29.3 bits (64), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 6/65 (9%)
Query: 579 LKEAEELIESMPMSPDVATWGALLGACKKHGDHEMGERVGRKLVELQPDHDGFHVLLSNI 638
LK E + ++P SP A A + HE GERV +E P+ + +
Sbjct: 385 LKAGEVIGSALPASPGAAAGKVYFTADEAKAAHEKGERVILVRLETSPED------IEGM 438
Query: 639 HASKG 643
HA++G
Sbjct: 439 HAAEG 443
>pdb|1JDE|A Chain A, K22a Mutant Of Pyruvate, Phosphate Dikinase
Length = 873
Score = 29.3 bits (64), Expect = 9.7, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 6/65 (9%)
Query: 579 LKEAEELIESMPMSPDVATWGALLGACKKHGDHEMGERVGRKLVELQPDHDGFHVLLSNI 638
LK E + ++P SP A A + HE GERV +E P+ + +
Sbjct: 385 LKAGEVIGSALPASPGAAAGKVYFTADEAKAAHEKGERVILVRLETSPED------IEGM 438
Query: 639 HASKG 643
HA++G
Sbjct: 439 HAAEG 443
>pdb|1DIK|A Chain A, Pyruvate Phosphate Dikinase
Length = 874
Score = 29.3 bits (64), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 6/65 (9%)
Query: 579 LKEAEELIESMPMSPDVATWGALLGACKKHGDHEMGERVGRKLVELQPDHDGFHVLLSNI 638
LK E + ++P SP A A + HE GERV +E P+ + +
Sbjct: 386 LKAGEVIGSALPASPGAAAGKVYFTADEAKAAHEKGERVILVRLETSPED------IEGM 439
Query: 639 HASKG 643
HA++G
Sbjct: 440 HAAEG 444
>pdb|2R82|A Chain A, Pyruvate Phosphate Dikinase (Ppdk) Triple Mutant
R219eE271RS262D Adapts A Second Conformational State
Length = 874
Score = 29.3 bits (64), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 6/65 (9%)
Query: 579 LKEAEELIESMPMSPDVATWGALLGACKKHGDHEMGERVGRKLVELQPDHDGFHVLLSNI 638
LK E + ++P SP A A + HE GERV +E P+ + +
Sbjct: 386 LKAGEVIGSALPASPGAAAGKVYFTADEAKAAHEKGERVILVRLETSPED------IEGM 439
Query: 639 HASKG 643
HA++G
Sbjct: 440 HAAEG 444
>pdb|1GGO|A Chain A, T453a Mutant Of Pyruvate, Phosphate Dikinase
Length = 873
Score = 29.3 bits (64), Expect = 10.0, Method: Compositional matrix adjust.
Identities = 19/65 (29%), Positives = 29/65 (44%), Gaps = 6/65 (9%)
Query: 579 LKEAEELIESMPMSPDVATWGALLGACKKHGDHEMGERVGRKLVELQPDHDGFHVLLSNI 638
LK E + ++P SP A A + HE GERV +E P+ + +
Sbjct: 385 LKAGEVIGSALPASPGAAAGKVYFTADEAKAAHEKGERVILVRLETSPED------IEGM 438
Query: 639 HASKG 643
HA++G
Sbjct: 439 HAAEG 443
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
0.322 0.136 0.407
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,421,308
Number of Sequences: 62578
Number of extensions: 880959
Number of successful extensions: 2003
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 13
Number of HSP's that attempted gapping in prelim test: 1996
Number of HSP's gapped (non-prelim): 20
length of query: 798
length of database: 14,973,337
effective HSP length: 107
effective length of query: 691
effective length of database: 8,277,491
effective search space: 5719746281
effective search space used: 5719746281
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 55 (25.8 bits)