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= psy9058
(142 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1WDK|A Chain A, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form I (Native2)
pdb|1WDK|B Chain B, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form I (Native2)
pdb|1WDL|A Chain A, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form Ii (Native4)
pdb|1WDL|B Chain B, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form Ii (Native4)
pdb|1WDM|A Chain A, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form I (Native3)
pdb|1WDM|B Chain B, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form I (Native3)
pdb|2D3T|A Chain A, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form V
pdb|2D3T|B Chain B, Fatty Acid Beta-Oxidation Multienzyme Complex From
Pseudomonas Fragi, Form V
Length = 715
Score = 52.4 bits (124), Expect = 9e-08, Method: Composition-based stats.
Identities = 39/135 (28%), Positives = 62/135 (45%), Gaps = 5/135 (3%)
Query: 8 GRKSGKGYFVY---AKGSKARPVNDGALAILKKYSLQPQSALKDEDLQLRMVSRFVNEAV 64
G+K+GKG++ Y KG + + V+ L +LK + Q + DED+ M+ E V
Sbjct: 582 GQKNGKGFYAYEADKKGKQKKLVDSSVLEVLKPIVYE-QRDVTDEDIINWMMIPLCLETV 640
Query: 65 LCLEETILNSPTDGDVGAVXXXXXXXXXXXXXRWVDWYGADKLVQKMLSYENLYGAPFRP 124
CLE+ I+ + + D+G V R++D G + V Y L GA + P
Sbjct: 641 RCLEDGIVETAAEADMGLVYGIGFPLFRGGALRYIDSIGVAEFVALADQYAEL-GALYHP 699
Query: 125 CQLLLDHAKDSSKKF 139
L + AK+ F
Sbjct: 700 TAKLREMAKNGQSFF 714
>pdb|2WTB|A Chain A, Arabidopsis Thaliana Multifuctional Protein, Mfp2
Length = 725
Score = 40.4 bits (93), Expect = 4e-04, Method: Composition-based stats.
Identities = 33/134 (24%), Positives = 52/134 (38%), Gaps = 16/134 (11%)
Query: 8 GRKSGKGYFVYAKGSKARPVNDGALAILKKY----------SLQPQSA-LKDEDLQLRMV 56
G + KG+++Y KA+P + LKKY L P+ A L ++D+
Sbjct: 578 GEATRKGFYLYDDKRKAKPDPE-----LKKYIEKARSISGVKLDPKLANLSEKDIIEMTF 632
Query: 57 SRFVNEAVLCLEETILNSPTDGDVGAVXXXXXXXXXXXXXRWVDWYGADKLVQKMLSYEN 116
VNEA E I D D+ + W D G+ + ++ +
Sbjct: 633 FPVVNEACRVFAEGIAVKAADLDIAGIMGMGFPPYRGGIMFWADSIGSKYIYSRLDEWSK 692
Query: 117 LYGAPFRPCQLLLD 130
YG F+PC L +
Sbjct: 693 AYGEFFKPCAFLAE 706
>pdb|3K6J|A Chain A, Crystal Structure Of The Dehydrogenase Part Of
Multifuctional Enzyme 1 From C.Elegans
Length = 460
Score = 34.7 bits (78), Expect = 0.019, Method: Composition-based stats.
Identities = 24/113 (21%), Positives = 54/113 (47%), Gaps = 3/113 (2%)
Query: 8 GRKSGKGYFVYAKGSKARPVNDGALAILKKYSLQPQSALK---DEDLQLRMVSRFVNEAV 64
GRK+ KG++ Y ++ + + I+++ S +S ++ D+D+ M+ VNE
Sbjct: 312 GRKTNKGFYKYDDKTQRKENDTEMEQIIRRVSQNAKSNIQIINDQDVINFMLYPTVNEGY 371
Query: 65 LCLEETILNSPTDGDVGAVXXXXXXXXXXXXXRWVDWYGADKLVQKMLSYENL 117
C+EE ++++ + D+ + R+ G DK+ ++ + +L
Sbjct: 372 RCIEEGVISNESLIDIMFILGFGWPIHSGGPMRFGKTEGLDKIANMLVHWSSL 424
>pdb|1ZCJ|A Chain A, Crystal Structure Of 3-Hydroxyacyl-Coa Dehydrogenase
Length = 463
Score = 30.0 bits (66), Expect = 0.47, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 4/77 (5%)
Query: 8 GRKSGKGYFVYAKG----SKARPVNDGALAILKKYSLQPQSALKDEDLQLRMVSRFVNEA 63
G+K+GKG++ Y K K P L+ ++ Q + E++ R + +NEA
Sbjct: 312 GQKTGKGWYQYDKPLGRIHKPDPWLSTFLSQYREVHHIEQRTISKEEILERCLYSLINEA 371
Query: 64 VLCLEETILNSPTDGDV 80
LEE + P DV
Sbjct: 372 FRILEEGMAARPEHIDV 388
>pdb|2X58|A Chain A, The Crystal Structure Of Mfe1 Liganded With Coa
pdb|2X58|B Chain B, The Crystal Structure Of Mfe1 Liganded With Coa
Length = 727
Score = 29.3 bits (64), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 4/77 (5%)
Query: 8 GRKSGKGYFVYAKG----SKARPVNDGALAILKKYSLQPQSALKDEDLQLRMVSRFVNEA 63
G+K+GKG++ Y K K P L+ ++ Q + E++ R + +NEA
Sbjct: 576 GQKTGKGWYQYDKPLGRIHKPDPWLSTFLSQYREVHHIEQRTISKEEILERCLYSLINEA 635
Query: 64 VLCLEETILNSPTDGDV 80
LEE + P DV
Sbjct: 636 FRILEEGMAARPEHIDV 652
>pdb|3ZWB|A Chain A, Crystal Structure Of Rat Peroxisomal Multifunctional
Enzyme Type 1 (rpmfe1) Complexed With
2trans-hexenoyl-coa
pdb|3ZWB|B Chain B, Crystal Structure Of Rat Peroxisomal Multifunctional
Enzyme Type 1 (rpmfe1) Complexed With
2trans-hexenoyl-coa
Length = 742
Score = 29.3 bits (64), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 4/77 (5%)
Query: 8 GRKSGKGYFVYAKG----SKARPVNDGALAILKKYSLQPQSALKDEDLQLRMVSRFVNEA 63
G+K+GKG++ Y K K P L+ ++ Q + E++ R + +NEA
Sbjct: 591 GQKTGKGWYQYDKPLGRIHKPDPWLSTFLSQYREVHHIEQRTISKEEILERCLYSLINEA 650
Query: 64 VLCLEETILNSPTDGDV 80
LEE + P DV
Sbjct: 651 FRILEEGMAARPEHIDV 667
>pdb|3ZW8|A Chain A, Crystal Structure Of Rat Peroxisomal Multifunctional
Enzyme Type 1 (rpmfe1) In Apo Form
pdb|3ZW8|B Chain B, Crystal Structure Of Rat Peroxisomal Multifunctional
Enzyme Type 1 (rpmfe1) In Apo Form
pdb|3ZW9|A Chain A, Crystal Structure Of Rat Peroxisomal Multifunctional
Enzyme Type 1 (rpmfe1) Complexed With
(2s,3s)-3-hydroxy-2- Methylbutanoyl-coa
pdb|3ZW9|B Chain B, Crystal Structure Of Rat Peroxisomal Multifunctional
Enzyme Type 1 (rpmfe1) Complexed With
(2s,3s)-3-hydroxy-2- Methylbutanoyl-coa
pdb|3ZWA|A Chain A, Crystal Structure Of Rat Peroxisomal Multifunctional
Enzyme Type 1 (rpmfe1) Complexed With
3s-hydroxy-hexanoyl-coa
pdb|3ZWA|B Chain B, Crystal Structure Of Rat Peroxisomal Multifunctional
Enzyme Type 1 (rpmfe1) Complexed With
3s-hydroxy-hexanoyl-coa
pdb|3ZWC|A Chain A, Crystal Structure Of Rat Peroxisomal Multifunctional
Enzyme Type 1 (rpmfe1) Complexed With
3s-hydroxy-decanoyl-coa
pdb|3ZWC|B Chain B, Crystal Structure Of Rat Peroxisomal Multifunctional
Enzyme Type 1 (rpmfe1) Complexed With
3s-hydroxy-decanoyl-coa
Length = 742
Score = 29.3 bits (64), Expect = 0.79, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 35/77 (45%), Gaps = 4/77 (5%)
Query: 8 GRKSGKGYFVYAKG----SKARPVNDGALAILKKYSLQPQSALKDEDLQLRMVSRFVNEA 63
G+K+GKG++ Y K K P L+ ++ Q + E++ R + +NEA
Sbjct: 591 GQKTGKGWYQYDKPLGRIHKPDPWLSTFLSQYREVHHIEQRTISKEEILERCLYSLINEA 650
Query: 64 VLCLEETILNSPTDGDV 80
LEE + P DV
Sbjct: 651 FRILEEGMAARPEHIDV 667
>pdb|2XY7|A Chain A, Crystal Structure Of A Salicylic Aldehyde Base In The
Pre-Insertion Site Of Fragment Dna Polymerase I From
Bacillus Stearothermophilus
Length = 580
Score = 26.6 bits (57), Expect = 4.7, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 26 PVNDGALAILKKYSLQPQSALKDEDLQLRMVSRFVNEAVL 65
P+ A I+KK + + LK+E LQ R++ + +E +L
Sbjct: 499 PIQGSAADIIKKAMIDLNARLKEERLQARLLLQVHDELIL 538
>pdb|2XY6|A Chain A, Crystal Structure Of A Salicylic Aldehyde Basepair In
Complex With Fragment Dna Polymerase I From Bacillus
Stearothermophilus
Length = 581
Score = 26.6 bits (57), Expect = 4.7, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 26 PVNDGALAILKKYSLQPQSALKDEDLQLRMVSRFVNEAVL 65
P+ A I+KK + + LK+E LQ R++ + +E +L
Sbjct: 500 PIQGSAADIIKKAMIDLNARLKEERLQARLLLQVHDELIL 539
>pdb|2XY5|A Chain A, Crystal Structure Of An Artificial Salen-Copper Basepair
In Complex With Fragment Dna Polymerase I From Bacillus
Stearothermophilus
Length = 581
Score = 26.6 bits (57), Expect = 4.7, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 26 PVNDGALAILKKYSLQPQSALKDEDLQLRMVSRFVNEAVL 65
P+ A I+KK + + LK+E LQ R++ + +E +L
Sbjct: 500 PIQGSAADIIKKAMIDLNARLKEERLQARLLLQVHDELIL 539
>pdb|2XO7|A Chain A, Crystal Structure Of A Da:o-Allylhydroxylamine-Dc Basepair
In Complex With Fragment Dna Polymerase I From Bacillus
Stearothermophilus
Length = 580
Score = 26.6 bits (57), Expect = 4.7, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 26 PVNDGALAILKKYSLQPQSALKDEDLQLRMVSRFVNEAVL 65
P+ A I+KK + + LK+E LQ R++ + +E +L
Sbjct: 499 PIQGSAADIIKKAMIDLNARLKEERLQARLLLQVHDELIL 538
>pdb|2Y1I|A Chain A, Crystal Structure Of A S-Diastereomer Analogue Of The
Spore Photoproduct In Complex With Fragment Dna
Polymerase I From Bacillus Stearothermophilus
pdb|2Y1J|A Chain A, Crystal Structure Of A R-Diastereomer Analogue Of The
Spore Photoproduct In Complex With Fragment Dna
Polymerase I From Bacillus Stearothermophilus
Length = 580
Score = 26.6 bits (57), Expect = 4.8, Method: Composition-based stats.
Identities = 13/40 (32%), Positives = 23/40 (57%)
Query: 26 PVNDGALAILKKYSLQPQSALKDEDLQLRMVSRFVNEAVL 65
P+ A I+KK + + LK+E LQ R++ + +E +L
Sbjct: 499 PIQGSAADIIKKAMIDLNARLKEERLQARLLLQVHDELIL 538
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
0.319 0.137 0.429
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,183,967
Number of Sequences: 62578
Number of extensions: 144048
Number of successful extensions: 377
Number of sequences better than 100.0: 12
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 363
Number of HSP's gapped (non-prelim): 12
length of query: 142
length of database: 14,973,337
effective HSP length: 89
effective length of query: 53
effective length of database: 9,403,895
effective search space: 498406435
effective search space used: 498406435
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: 46 (22.3 bits)