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= 048172
(158 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1SIR|A Chain A, The Crystal Structure And Mechanism Of Human Glutaryl-Coa
Dehydrogenase
pdb|2R0N|A Chain A, The Effect Of A Glu370asp Mutation In Glutaryl-Coa
Dehydrogenase On Proton Transfer To The Dienolate
Intermediate
Length = 394
Score = 29.3 bits (64), Expect = 0.98, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 78 EKDRVES---SKMYVKVSMDGAPFLRKIDLGMHQGY-PDLAMALEKLFGCFGLSE--ALK 131
E +RV+S S M V+ S+ P Q Y P LA +L GCFGL+E +
Sbjct: 85 ELERVDSGYRSAMSVQSSLVMHPIYAYGSEEQRQKYLPQLAKG--ELLGCFGLTEPNSGS 142
Query: 132 DADSSEFVPIYEDKDGDWMLAGDVPW 157
D S E Y + + L G W
Sbjct: 143 DPSSMETRAHYNSSNKSYTLNGTKTW 168
>pdb|2R0M|A Chain A, The Effect Of A Glu370asp Mutation In Glutaryl-Coa
Dehydrogenase On Proton Transfer To The Dienolate
Intermediate
Length = 394
Score = 29.3 bits (64), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 78 EKDRVES---SKMYVKVSMDGAPFLRKIDLGMHQGY-PDLAMALEKLFGCFGLSE--ALK 131
E +RV+S S M V+ S+ P Q Y P LA +L GCFGL+E +
Sbjct: 85 ELERVDSGYRSAMSVQSSLVMHPIYAYGSEEQRQKYLPQLAKG--ELLGCFGLTEPNSGS 142
Query: 132 DADSSEFVPIYEDKDGDWMLAGDVPW 157
D S E Y + + L G W
Sbjct: 143 DPSSMETRAHYNSSNKSYTLNGTKTW 168
>pdb|1SIQ|A Chain A, The Crystal Structure And Mechanism Of Human Glutaryl-Coa
Dehydrogenase
Length = 392
Score = 29.3 bits (64), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 37/86 (43%), Gaps = 8/86 (9%)
Query: 78 EKDRVES---SKMYVKVSMDGAPFLRKIDLGMHQGY-PDLAMALEKLFGCFGLSE--ALK 131
E +RV+S S M V+ S+ P Q Y P LA +L GCFGL+E +
Sbjct: 83 ELERVDSGYRSAMSVQSSLVMHPIYAYGSEEQRQKYLPQLAKG--ELLGCFGLTEPNSGS 140
Query: 132 DADSSEFVPIYEDKDGDWMLAGDVPW 157
D S E Y + + L G W
Sbjct: 141 DPSSMETRAHYNSSNKSYTLNGTKTW 166
>pdb|2D1G|A Chain A, Structure Of Francisella Tularensis Acid Phosphatase A
(Acpa) Bound To Orthovanadate
pdb|2D1G|B Chain B, Structure Of Francisella Tularensis Acid Phosphatase A
(Acpa) Bound To Orthovanadate
Length = 498
Score = 28.9 bits (63), Expect = 1.1, Method: Composition-based stats.
Identities = 15/43 (34%), Positives = 21/43 (48%)
Query: 107 HQGYPDLAMALEKLFGCFGLSEALKDADSSEFVPIYEDKDGDW 149
H GY + E L + KD DS+ + IY+D DGD+
Sbjct: 350 HGGYSNPLDEQEWLVNTINRIQQSKDWDSTAIIIIYDDSDGDY 392
>pdb|3GQT|A Chain A, Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei With Fragment
(1,4-Dimethyl-1,2,3,4-
Tetrahydroquinoxalin-6-Yl)methylamine
pdb|3GQT|B Chain B, Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei With Fragment
(1,4-Dimethyl-1,2,3,4-
Tetrahydroquinoxalin-6-Yl)methylamine
pdb|3GQT|C Chain C, Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei With Fragment
(1,4-Dimethyl-1,2,3,4-
Tetrahydroquinoxalin-6-Yl)methylamine
pdb|3GQT|D Chain D, Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei With Fragment
(1,4-Dimethyl-1,2,3,4-
Tetrahydroquinoxalin-6-Yl)methylamine
pdb|3GNC|A Chain A, Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei With Fragment 6421
pdb|3GNC|B Chain B, Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei With Fragment 6421
pdb|3GNC|C Chain C, Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei With Fragment 6421
pdb|3GNC|D Chain D, Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei With Fragment 6421
Length = 399
Score = 28.5 bits (62), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 48/124 (38%), Gaps = 7/124 (5%)
Query: 39 DICDEANYETNGERKI-NPTKSQVVGWPPVCSYRRKNSFNEKDRVES---SKMYVKVSMD 94
+ D A + GE + PT + G P + E +RV+S S M V+ S+
Sbjct: 52 ETTDAAIFREMGEIGLLGPTIPEQYGGPGLDYVSYGLIAREVERVDSGYRSMMSVQSSLV 111
Query: 95 GAPFLRKIDLGMHQGY-PDLAMALEKLFGCFGLSEALKDADSSEFVPIYEDKDGDWMLAG 153
P + Y P LA + GCFGL+E +D V G + L+G
Sbjct: 112 MVPIFEFGSDAQKEKYLPKLATG--EWIGCFGLTEPNHGSDPGSMVTRARKVPGGYSLSG 169
Query: 154 DVPW 157
W
Sbjct: 170 SKMW 173
>pdb|2P1N|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiqutin
Ligase
pdb|2P1N|F Chain F, Mechanism Of Auxin Perception By The Tir1 Ubiqutin
Ligase
pdb|2P1O|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiquitin
Ligase
pdb|2P1Q|C Chain C, Mechanism Of Auxin Perception By The Tir1 Ubiquitin
Ligase
Length = 13
Score = 28.5 bits (62), Expect = 1.9, Method: Composition-based stats.
Identities = 10/13 (76%), Positives = 12/13 (92%)
Query: 60 QVVGWPPVCSYRR 72
QVVGWPPV +YR+
Sbjct: 1 QVVGWPPVRNYRK 13
>pdb|3D6B|A Chain A, 2.2 A Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei
pdb|3D6B|B Chain B, 2.2 A Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei
pdb|3D6B|C Chain C, 2.2 A Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei
pdb|3D6B|D Chain D, 2.2 A Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei
Length = 395
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 48/124 (38%), Gaps = 7/124 (5%)
Query: 39 DICDEANYETNGERKI-NPTKSQVVGWPPVCSYRRKNSFNEKDRVES---SKMYVKVSMD 94
+ D A + GE + PT + G P + E +RV+S S M V+ S+
Sbjct: 48 ETTDAAIFREMGEIGLLGPTIPEQYGGPGLDYVSYGLIAREVERVDSGYRSMMSVQSSLV 107
Query: 95 GAPFLRKIDLGMHQGY-PDLAMALEKLFGCFGLSEALKDADSSEFVPIYEDKDGDWMLAG 153
P + Y P LA + GCFGL+E +D V G + L+G
Sbjct: 108 MVPIFEFGSDAQKEKYLPKLATG--EWIGCFGLTEPNHGSDPGSMVTRARKVPGGYSLSG 165
Query: 154 DVPW 157
W
Sbjct: 166 SKMW 169
>pdb|3EOM|A Chain A, 2.4 A Crystal Structure Of Native Glutaryl-Coa
Dehydrogenase From Burkholderia Pseudomallei
pdb|3EOM|B Chain B, 2.4 A Crystal Structure Of Native Glutaryl-Coa
Dehydrogenase From Burkholderia Pseudomallei
pdb|3EOM|C Chain C, 2.4 A Crystal Structure Of Native Glutaryl-Coa
Dehydrogenase From Burkholderia Pseudomallei
pdb|3EOM|D Chain D, 2.4 A Crystal Structure Of Native Glutaryl-Coa
Dehydrogenase From Burkholderia Pseudomallei
pdb|3EON|A Chain A, 2.55a Crystal Structure Of Native Glutaryl-Coa
Dehydrogenase From Burkholderia Pseudomallei In Complex
With A Small Molecule
pdb|3EON|B Chain B, 2.55a Crystal Structure Of Native Glutaryl-Coa
Dehydrogenase From Burkholderia Pseudomallei In Complex
With A Small Molecule
pdb|3EON|C Chain C, 2.55a Crystal Structure Of Native Glutaryl-Coa
Dehydrogenase From Burkholderia Pseudomallei In Complex
With A Small Molecule
pdb|3EON|D Chain D, 2.55a Crystal Structure Of Native Glutaryl-Coa
Dehydrogenase From Burkholderia Pseudomallei In Complex
With A Small Molecule
pdb|3II9|A Chain A, Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei At 1.73 Angstrom
pdb|3II9|B Chain B, Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei At 1.73 Angstrom
pdb|3II9|C Chain C, Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei At 1.73 Angstrom
pdb|3II9|D Chain D, Crystal Structure Of Glutaryl-Coa Dehydrogenase From
Burkholderia Pseudomallei At 1.73 Angstrom
Length = 396
Score = 28.1 bits (61), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 33/124 (26%), Positives = 48/124 (38%), Gaps = 7/124 (5%)
Query: 39 DICDEANYETNGERKI-NPTKSQVVGWPPVCSYRRKNSFNEKDRVES---SKMYVKVSMD 94
+ D A + GE + PT + G P + E +RV+S S M V+ S+
Sbjct: 49 ETTDAAIFREMGEIGLLGPTIPEQYGGPGLDYVSYGLIAREVERVDSGYRSMMSVQSSLV 108
Query: 95 GAPFLRKIDLGMHQGY-PDLAMALEKLFGCFGLSEALKDADSSEFVPIYEDKDGDWMLAG 153
P + Y P LA + GCFGL+E +D V G + L+G
Sbjct: 109 MVPIFEFGSDAQKEKYLPKLATG--EWIGCFGLTEPNHGSDPGSMVTRARKVPGGYSLSG 166
Query: 154 DVPW 157
W
Sbjct: 167 SKMW 170
>pdb|2EWF|A Chain A, Crystal Structure Of The Site-specific Dna Nickase
N.bspd6i
Length = 610
Score = 26.9 bits (58), Expect = 5.0, Method: Composition-based stats.
Identities = 12/37 (32%), Positives = 22/37 (59%)
Query: 69 SYRRKNSFNEKDRVESSKMYVKVSMDGAPFLRKIDLG 105
+Y+++ +F+ +DRV K Y V +D +LR + G
Sbjct: 66 TYKKEAAFSTRDRVAPMKTYGFVFVDEEGYLRITEAG 102
>pdb|2F8S|A Chain A, Crystal Structure Of Aa-Ago With Externally-Bound Sirna
pdb|2F8S|B Chain B, Crystal Structure Of Aa-Ago With Externally-Bound Sirna
pdb|2F8T|A Chain A, Crystal Structure Of Aa-Ago With Externally-Bound Sirna
pdb|2F8T|B Chain B, Crystal Structure Of Aa-Ago With Externally-Bound Sirna
pdb|2NUB|A Chain A, Structure Of Aquifex Aeolicus Argonuate
Length = 706
Score = 26.6 bits (57), Expect = 5.7, Method: Composition-based stats.
Identities = 21/95 (22%), Positives = 45/95 (47%), Gaps = 1/95 (1%)
Query: 51 ERKINPTKSQVVGWPPVCSYRRKNSFNEKDRVESSKMYVKVSMDGAPFLRKIDLGMHQGY 110
+ K+N + +V + ++RR++ F +VE +Y+ +S L+++ +G+
Sbjct: 32 KEKLNKVRWRVFLQTGLPTFRREDEFWCAGKVEKDTLYLTLSNGEIVELKRVGEEEFRGF 91
Query: 111 PDLAMALEKLFGCFGLSEALKDADSSEFVPIYEDK 145
+ ++LF F +KD S+F + DK
Sbjct: 92 QN-ERECQELFRDFLTKTKVKDKFISDFYKKFRDK 125
>pdb|1YVU|A Chain A, Crystal Structure Of A. Aeolicus Argonaute
Length = 706
Score = 26.6 bits (57), Expect = 5.7, Method: Composition-based stats.
Identities = 21/95 (22%), Positives = 45/95 (47%), Gaps = 1/95 (1%)
Query: 51 ERKINPTKSQVVGWPPVCSYRRKNSFNEKDRVESSKMYVKVSMDGAPFLRKIDLGMHQGY 110
+ K+N + +V + ++RR++ F +VE +Y+ +S L+++ +G+
Sbjct: 32 KEKLNKVRWRVFLQTGLPTFRREDEFWCAGKVEKDTLYLTLSNGEIVELKRVGEEEFRGF 91
Query: 111 PDLAMALEKLFGCFGLSEALKDADSSEFVPIYEDK 145
+ ++LF F +KD S+F + DK
Sbjct: 92 QN-ERECQELFRDFLTKTKVKDKFISDFYKKFRDK 125
>pdb|3MPI|A Chain A, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
Glutaryl-Coa Complex
pdb|3MPI|B Chain B, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
Glutaryl-Coa Complex
pdb|3MPI|C Chain C, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
Glutaryl-Coa Complex
pdb|3MPI|D Chain D, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
Glutaryl-Coa Complex
pdb|3MPJ|A Chain A, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
pdb|3MPJ|B Chain B, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
pdb|3MPJ|D Chain D, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
pdb|3MPJ|E Chain E, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
pdb|3MPJ|F Chain F, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
pdb|3MPJ|G Chain G, Structure Of The Glutaryl-Coenzyme A Dehydrogenase
Length = 397
Score = 26.6 bits (57), Expect = 5.7, Method: Compositional matrix adjust.
Identities = 15/47 (31%), Positives = 21/47 (44%), Gaps = 2/47 (4%)
Query: 111 PDLAMALEKLFGCFGLSEALKDADSSEFVPIYEDKDGDWMLAGDVPW 157
P L+ A + G FG++E +D EDK W+L G W
Sbjct: 115 PKLSSA--EFLGGFGITEPDAGSDVMAMSSTAEDKGDHWLLNGSKTW 159
>pdb|2EAP|A Chain A, Solution Structure Of The N-Terminal Sam-Domain Of Human
Lymphocyte Cytosolic Protein 2
Length = 90
Score = 26.6 bits (57), Expect = 6.7, Method: Compositional matrix adjust.
Identities = 21/64 (32%), Positives = 34/64 (53%), Gaps = 8/64 (12%)
Query: 56 PTKSQVVGWPP--VCSYRRKNSFNEKDRVESSKMYVKVSMDGAPFLRKIDLGMHQGYPDL 113
P +S+V+GW P + Y +K N KD ++ K Y +DGA FL + + Q +P L
Sbjct: 14 PFRSEVLGWDPDSLADYFKK--LNYKDCEKAVKKY---HIDGARFLNLTENDI-QKFPKL 67
Query: 114 AMAL 117
+ +
Sbjct: 68 RVPI 71
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
0.317 0.137 0.426
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,670,435
Number of Sequences: 62578
Number of extensions: 171334
Number of successful extensions: 326
Number of sequences better than 100.0: 16
Number of HSP's better than 100.0 without gapping: 9
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 317
Number of HSP's gapped (non-prelim): 16
length of query: 158
length of database: 14,973,337
effective HSP length: 91
effective length of query: 67
effective length of database: 9,278,739
effective search space: 621675513
effective search space used: 621675513
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 47 (22.7 bits)