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= 006503
(643 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4HZ5|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|4HZ5|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|4HZ5|C Chain C, 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|4HZ5|D Chain D, 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|4HZ5|E Chain E, 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|4HZ5|F Chain F, 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|4HZ5|G Chain G, 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|4HZ5|H Chain H, 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|4HZ5|J Chain J, 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 = 216
Score = 30.0 bits (66), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 31/104 (29%), Positives = 47/104 (45%), Gaps = 12/104 (11%)
Query: 88 SLEHARVHPKFLHSNATSHKWAFGAIAELLDNAVDEVQNGATFVKVDRVNIMKDNSPALV 147
LE R P ++ +T + + E++DNAVDE +G + V I KDNS +
Sbjct: 2 GLEAVRKRPG-MYIGSTDSRGLHHLVYEIVDNAVDEALSG--YGNEINVTIQKDNS--IC 56
Query: 148 FIDDGGGMDPESLRK----CMSLGYSTKKANKTIGQYGNGFKTS 187
D G GM P + + + ++ A GQ G+KTS
Sbjct: 57 VADSGRGM-PTGMHASGIPTVEVIFTVLHAGGKFGQ--GGYKTS 97
>pdb|4EM7|A Chain A, Crystal Structure Of A Topoisomerase Atp Inhibitor
pdb|4EMV|A Chain A, Crystal Structure Of A Topoisomerase Atp Inhibitor
Length = 226
Score = 29.3 bits (64), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 26/80 (32%), Positives = 42/80 (52%), Gaps = 13/80 (16%)
Query: 113 IAELLDNAVDEVQNGATFVKVDRVNIMKDNSPALVFIDDGGGMDPESLRKCMSLGYSTKK 172
+ E++DNAVDE +G DR+++ + +L D G GM P + ++G T +
Sbjct: 45 VWEIVDNAVDEALSGFG----DRIDVTINKDGSLTVQDHGRGM-PTGMH---AMGIPTVE 96
Query: 173 ANKTI----GQYG-NGFKTS 187
TI G++G G+KTS
Sbjct: 97 VIFTILHAGGKFGQGGYKTS 116
>pdb|3LMI|A Chain A, Crystal Structure Of The Inactive Alpha-Kinase Domain Of
Myosin Heavy Chain Kinase A (D766a) Complex With Atp
pdb|3LMI|B Chain B, Crystal Structure Of The Inactive Alpha-Kinase Domain Of
Myosin Heavy Chain Kinase A (D766a) Complex With Atp
pdb|3LMI|C Chain C, Crystal Structure Of The Inactive Alpha-Kinase Domain Of
Myosin Heavy Chain Kinase A (D766a) Complex With Atp
pdb|3LMI|D Chain D, Crystal Structure Of The Inactive Alpha-Kinase Domain Of
Myosin Heavy Chain Kinase A (D766a) Complex With Atp
Length = 307
Score = 29.3 bits (64), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 6/67 (8%)
Query: 263 SPFASKSELLQQFEDIGPHGTKVII--YNLWMNDEGVYELSFDDDEEDICLRDEANSGSL 320
SP + +E + Q ++ GTK ++ Y + EL F+D + + RD N +
Sbjct: 90 SPISKNNEAMTQLKN----GTKFVLKLYKKEAEQQASRELYFEDVKMQMVCRDWGNKFNQ 145
Query: 321 KKLPKKV 327
KK PKK+
Sbjct: 146 KKPPKKI 152
>pdb|3LMH|A Chain A, Crystal Structure Of The Alpha-Kinase Domain Of Myosin
Heavy Chain Kinase A Complex With Adp
pdb|3LMH|B Chain B, Crystal Structure Of The Alpha-Kinase Domain Of Myosin
Heavy Chain Kinase A Complex With Adp
Length = 307
Score = 29.3 bits (64), Expect = 7.1, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 6/67 (8%)
Query: 263 SPFASKSELLQQFEDIGPHGTKVII--YNLWMNDEGVYELSFDDDEEDICLRDEANSGSL 320
SP + +E + Q ++ GTK ++ Y + EL F+D + + RD N +
Sbjct: 90 SPISKNNEAMTQLKN----GTKFVLKLYKKEAEQQASRELYFEDVKMQMVCRDWGNKFNQ 145
Query: 321 KKLPKKV 327
KK PKK+
Sbjct: 146 KKPPKKI 152
>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 = 29.3 bits (64), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 25/43 (58%), Gaps = 4/43 (9%)
Query: 113 IAELLDNAVDEVQNGATFVKVDRVNIMKDNSPALVFIDDGGGM 155
I E++DN+VDEV G F + + +DNS + DDG GM
Sbjct: 35 IQEIIDNSVDEVLAG--FASKINITLYEDNSIEVA--DDGRGM 73
>pdb|3LKM|A Chain A, 1.6 Angstrom Crystal Structure Of The Alpha-Kinase Domain
Of Myosin Heavy Chain Kinase A Complex With Amp
pdb|3LLA|A Chain A, Crystal Structure Of The Alpha-Kinase Domain Of Myosin
Heavy Chain Kinase A Complex With Amppcp
pdb|3LLA|B Chain B, Crystal Structure Of The Alpha-Kinase Domain Of Myosin
Heavy Chain Kinase A Complex With Amppcp
Length = 307
Score = 29.3 bits (64), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 6/67 (8%)
Query: 263 SPFASKSELLQQFEDIGPHGTKVII--YNLWMNDEGVYELSFDDDEEDICLRDEANSGSL 320
SP + +E + Q ++ GTK ++ Y + EL F+D + + RD N +
Sbjct: 90 SPISKNNEAMTQLKN----GTKFVLKLYKKEAEQQASRELYFEDVKMQMVCRDWGNKFNQ 145
Query: 321 KKLPKKV 327
KK PKK+
Sbjct: 146 KKPPKKI 152
>pdb|3PDT|A Chain A, Crystal Structure Of The C-Terminal Truncated Alpha-Kinase
Domain Of Myosin Heavy Chain Kinase
Length = 275
Score = 29.3 bits (64), Expect = 7.7, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 6/67 (8%)
Query: 263 SPFASKSELLQQFEDIGPHGTKVII--YNLWMNDEGVYELSFDDDEEDICLRDEANSGSL 320
SP + +E + Q ++ GTK ++ Y + EL F+D + + RD N +
Sbjct: 90 SPISKNNEAMTQLKN----GTKFVLKLYKKEAEQQASRELYFEDVKMQMVCRDWGNKFNQ 145
Query: 321 KKLPKKV 327
KK PKK+
Sbjct: 146 KKPPKKI 152
>pdb|2E0A|A Chain A, Crystal Structure Of Human Pyruvate Dehydrogenase Kinase 4
In Complex With Amppnp
pdb|2E0A|B Chain B, Crystal Structure Of Human Pyruvate Dehydrogenase Kinase 4
In Complex With Amppnp
pdb|2ZDX|A Chain A, Inhibitor-Bound Structures Of Human Pyruvate Dehydrogenase
Kinase 4
pdb|2ZDX|B Chain B, Inhibitor-Bound Structures Of Human Pyruvate Dehydrogenase
Kinase 4
pdb|2ZDY|A Chain A, Inhibitor-Bound Structures Of Human Pyruvate Dehydrogenase
Kinase 4
pdb|2ZDY|B Chain B, Inhibitor-Bound Structures Of Human Pyruvate Dehydrogenase
Kinase 4
Length = 394
Score = 29.3 bits (64), Expect = 8.0, Method: Compositional matrix adjust.
Identities = 26/138 (18%), Positives = 50/138 (36%), Gaps = 9/138 (6%)
Query: 59 VNEAPESRSFWKAGTYAANITIKSTPVQGSLEHARVHPKFLHSNATSHKWAFGAIAELLD 118
V +A E Y ++ +K T V G +H ++ S+ H F +
Sbjct: 187 VQDAFECSRMLCDQYYLSSPELKLTQVNGKFPDQPIHIVYVPSHL--HHMLFELFKNAMR 244
Query: 119 NAVDEVQNGATFVKVDRVNIMKDNSPALVFIDDGGGMDPESLRKCMSLGYSTKKA----- 173
V+ +N + ++ + ++ + D GGG+ + + S YST
Sbjct: 245 ATVEHQENQPSLTPIEVIVVLGKEDLTIKISDRGGGVPLRIIDRLFSYTYSTAPTPVMDN 304
Query: 174 --NKTIGQYGNGFKTSTM 189
N + +G G S +
Sbjct: 305 SRNAPLAGFGYGLPISRL 322
>pdb|1KYP|A Chain A, Crystal Structure Of An Apo Green Fluorescent Protein Zn
Biosensor
pdb|1KYR|A Chain A, Crystal Structure Of A Cu-Bound Green Fluorescent Protein
Zn Biosensor
pdb|1KYS|A Chain A, Crystal Structure Of A Zn-Bound Green Fluorescent Protein
Biosensor
Length = 237
Score = 28.9 bits (63), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 28/97 (28%), Positives = 43/97 (44%), Gaps = 36/97 (37%)
Query: 458 FERSTLFVRLESKLKQMTLEYWKAYYHLIGHQLPASSSYNMESGGSVLSPVGHGPDMQKQ 517
FE TL R+E LK + +K +++GH+L YN SG ++
Sbjct: 113 FEGDTLVNRIE--LKGID---FKEDGNILGHKL----EYNFNSGNVYIT----------- 152
Query: 518 PADQHKLGLASNFQEDMHLDVPSVALQGKVRHNLENG 554
AD+ K G+ +NF K+RHN+E+G
Sbjct: 153 -ADKQKNGIKANF---------------KIRHNIEDG 173
>pdb|4DG7|A Chain A, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|B Chain B, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|C Chain C, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|D Chain D, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|E Chain E, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|F Chain F, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|G Chain G, Low Resolution Structure Of Drosophila Translin
pdb|4DG7|H Chain H, Low Resolution Structure Of Drosophila Translin
Length = 255
Score = 28.9 bits (63), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 19/64 (29%), Positives = 34/64 (53%), Gaps = 4/64 (6%)
Query: 581 ISADQICEENIQLFIKCEEHLQRETEINQLIELLEKEVTQAKLKCAKLSAYVE--ARKKQ 638
I +Q ENI++ ++ EHL +E +I ++++ +++Q C VE A+K Q
Sbjct: 37 IDNEQEVRENIRIVVREIEHLSKEAQIK--LQIIHSDLSQISAACGLARKQVELCAQKYQ 94
Query: 639 KTME 642
K E
Sbjct: 95 KLAE 98
>pdb|2ZKJ|A Chain A, Crystal Structure Of Human Pdk4-Adp Complex
pdb|2ZKJ|B Chain B, Crystal Structure Of Human Pdk4-Adp Complex
pdb|3D2R|A Chain A, Crystal Structure Of Pyruvate Dehydrogenase Kinase Isoform
4 In Complex With Adp
pdb|3D2R|B Chain B, Crystal Structure Of Pyruvate Dehydrogenase Kinase Isoform
4 In Complex With Adp
Length = 394
Score = 28.9 bits (63), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 26/138 (18%), Positives = 50/138 (36%), Gaps = 9/138 (6%)
Query: 59 VNEAPESRSFWKAGTYAANITIKSTPVQGSLEHARVHPKFLHSNATSHKWAFGAIAELLD 118
V +A E Y ++ +K T V G +H ++ S+ H F +
Sbjct: 187 VQDAFECSRMLCDQYYLSSPELKLTQVNGKFPDQPIHIVYVPSHL--HHMLFELFKNAMR 244
Query: 119 NAVDEVQNGATFVKVDRVNIMKDNSPALVFIDDGGGMDPESLRKCMSLGYSTKKA----- 173
V+ +N + ++ + ++ + D GGG+ + + S YST
Sbjct: 245 ATVEHQENQPSLTPIEVIVVLGKEDLTIKISDRGGGVPLRIIDRLFSYTYSTAPTPVMDN 304
Query: 174 --NKTIGQYGNGFKTSTM 189
N + +G G S +
Sbjct: 305 SRNAPLAGFGYGLPISRL 322
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
0.314 0.131 0.381
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 19,748,681
Number of Sequences: 62578
Number of extensions: 870959
Number of successful extensions: 1585
Number of sequences better than 100.0: 26
Number of HSP's better than 100.0 without gapping: 1
Number of HSP's successfully gapped in prelim test: 25
Number of HSP's that attempted gapping in prelim test: 1579
Number of HSP's gapped (non-prelim): 28
length of query: 643
length of database: 14,973,337
effective HSP length: 105
effective length of query: 538
effective length of database: 8,402,647
effective search space: 4520624086
effective search space used: 4520624086
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 55 (25.8 bits)