RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9061
(99 letters)
>3k6j_A Protein F01G10.3, confirmed by transcript evidenc; rossmann fold,
oxidoreductase; 2.20A {Caenorhabditis elegans}
Length = 460
Score = 78.1 bits (193), Expect = 1e-18
Identities = 17/72 (23%), Positives = 37/72 (51%), Gaps = 3/72 (4%)
Query: 8 GRKSGKGYFVYAKGSKARPVNDGALAILKKYSLQ---PQSALKDEDLQLRMVSRFVNEAV 64
GRK+ KG++ Y ++ + + I+++ S + D+D+ M+ VNE
Sbjct: 312 GRKTNKGFYKYDDKTQRKENDTEMEQIIRRVSQNAKSNIQIINDQDVINFMLYPTVNEGY 371
Query: 65 LCLEETILNSPA 76
C+EE ++++ +
Sbjct: 372 RCIEEGVISNES 383
>3zwc_A Peroxisomal bifunctional enzyme; beta oxidation pathway,
oxidoreductase, lipid metabolism, LY isomerase,
peroxisome, fatty acid metabolism; HET: NAD HSC; 2.30A
{Rattus norvegicus} PDB: 3zw9_A* 3zw8_A* 3zwa_A* 3zwb_A*
2x58_A*
Length = 742
Score = 76.5 bits (189), Expect = 5e-18
Identities = 18/74 (24%), Positives = 31/74 (41%), Gaps = 4/74 (5%)
Query: 7 PGRKSGKGYFVY-AKGSKARPVNDGALAILKKYSLQ---PQSALKDEDLQLRMVSRFVNE 62
G+K+GKG++ Y + + L +Y Q + E++ R + +NE
Sbjct: 590 FGQKTGKGWYQYDKPLGRIHKPDPWLSTFLSQYREVHHIEQRTISKEEILERCLYSLINE 649
Query: 63 AVLCLEETILNSPA 76
A LEE + P
Sbjct: 650 AFRILEEGMAARPE 663
Score = 25.3 bits (56), Expect = 4.6
Identities = 6/16 (37%), Positives = 10/16 (62%)
Query: 54 RMVSRFVNEAVLCLEE 69
RM++ + N+ LEE
Sbjct: 502 RMLAPYYNQGFFLLEE 517
>1zcj_A Peroxisomal bifunctional enzyme; peroxisomal multifunctional enzyme
type 1, L-bifunction enzyme, MFE-1, fatty acid beta
oxidation; 1.90A {Rattus norvegicus}
Length = 463
Score = 75.4 bits (186), Expect = 9e-18
Identities = 18/73 (24%), Positives = 31/73 (42%), Gaps = 4/73 (5%)
Query: 8 GRKSGKGYFVY-AKGSKARPVNDGALAILKKYSLQ---PQSALKDEDLQLRMVSRFVNEA 63
G+K+GKG++ Y + + L +Y Q + E++ R + +NEA
Sbjct: 312 GQKTGKGWYQYDKPLGRIHKPDPWLSTFLSQYREVHHIEQRTISKEEILERCLYSLINEA 371
Query: 64 VLCLEETILNSPA 76
LEE + P
Sbjct: 372 FRILEEGMAARPE 384
Score = 25.3 bits (56), Expect = 4.0
Identities = 6/16 (37%), Positives = 10/16 (62%)
Query: 54 RMVSRFVNEAVLCLEE 69
RM++ + N+ LEE
Sbjct: 223 RMLAPYYNQGFFLLEE 238
>1wdk_A Fatty oxidation complex alpha subunit; alpha2BETA2 heterotetrameric
complex, lyase, oxidoreductase/transferase complex,
lyase; HET: ACO NAD N8E; 2.50A {Pseudomonas fragi} SCOP:
a.100.1.3 a.100.1.3 c.2.1.6 c.14.1.3 PDB: 1wdl_A*
1wdm_A* 2d3t_A*
Length = 715
Score = 73.4 bits (181), Expect = 4e-17
Identities = 23/72 (31%), Positives = 36/72 (50%), Gaps = 4/72 (5%)
Query: 8 GRKSGKGYFVYAKGSKARP---VNDGALAILKKYSLQPQSALKDEDLQLRMVSRFVNEAV 64
G+K+GKG++ Y K + V+ L +LK Q + DED+ M+ E V
Sbjct: 582 GQKNGKGFYAYEADKKGKQKKLVDSSVLEVLKPIVY-EQRDVTDEDIINWMMIPLCLETV 640
Query: 65 LCLEETILNSPA 76
CLE+ I+ + A
Sbjct: 641 RCLEDGIVETAA 652
Score = 25.3 bits (56), Expect = 3.7
Identities = 1/16 (6%), Positives = 5/16 (31%)
Query: 54 RMVSRFVNEAVLCLEE 69
R++ + +
Sbjct: 502 RVLFPYFGGFAKLVSA 517
>2wtb_A MFP2, fatty acid multifunctional protein (ATMFP2); oxidoreductase,
peroxisomes, beta-oxidation, fatty acid oxidation; 2.50A
{Arabidopsis thaliana}
Length = 725
Score = 70.0 bits (172), Expect = 8e-16
Identities = 17/77 (22%), Positives = 29/77 (37%), Gaps = 8/77 (10%)
Query: 7 PGRKSGKGYFVYAKGSKARPVNDGALAILKKYSLQ-------PQSALKDEDLQLRMVSRF 59
G + KG+++Y KA+P + ++K + L ++D+
Sbjct: 577 AGEATRKGFYLYDDKRKAKP-DPELKKYIEKARSISGVKLDPKLANLSEKDIIEMTFFPV 635
Query: 60 VNEAVLCLEETILNSPA 76
VNEA E I A
Sbjct: 636 VNEACRVFAEGIAVKAA 652
Score = 24.9 bits (55), Expect = 4.8
Identities = 4/16 (25%), Positives = 7/16 (43%)
Query: 54 RMVSRFVNEAVLCLEE 69
RM + A+ +E
Sbjct: 500 RMFFPYTQAAMFLVEC 515
>1zej_A HBD-9, 3-hydroxyacyl-COA dehydrogenase; structural genomics, joint
center for structural genomics, J protein structure
initiative, PSI; HET: PE8; 2.00A {Archaeoglobus
fulgidus}
Length = 293
Score = 33.4 bits (77), Expect = 0.006
Identities = 7/21 (33%), Positives = 10/21 (47%)
Query: 8 GRKSGKGYFVYAKGSKARPVN 28
G K+GKG + Y + V
Sbjct: 261 GVKAGKGIYEYGPKAYEERVE 281
>1aih_A HP1 integrase; DNA integration, recombination; 2.50A {Haemophilus
phage HP1} SCOP: d.163.1.1
Length = 170
Score = 29.8 bits (68), Expect = 0.093
Identities = 9/30 (30%), Positives = 12/30 (40%), Gaps = 2/30 (6%)
Query: 12 GKGYFVYAKGSKAR--PVNDGALAILKKYS 39
K F K K R P++D +L K
Sbjct: 55 YKITFTNTKSKKNRTVPISDELFDMLPKKR 84
>3mog_A Probable 3-hydroxybutyryl-COA dehydrogenase; structural genomics,
PSI, protein structure initiative, NYSG oxidoreductase;
2.20A {Escherichia coli}
Length = 483
Score = 28.8 bits (65), Expect = 0.26
Identities = 6/36 (16%), Positives = 14/36 (38%)
Query: 8 GRKSGKGYFVYAKGSKARPVNDGALAILKKYSLQPQ 43
G+KSG G + + +A + ++ +
Sbjct: 275 GKKSGLGVYDWRAEREAVVGLEAVSDSFSPMKVEKK 310
>1ksk_A Ribosomal small subunit pseudouridine synthase A; RSUA, lyase;
2.00A {Escherichia coli} SCOP: d.265.1.3 d.66.1.5 PDB:
1ksl_A 1ksv_A*
Length = 234
Score = 26.3 bits (59), Expect = 1.8
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 83 HLDGNLEPGHSRHVTSH 99
LD +L PG R +T
Sbjct: 212 TLDADLAPGEYRPLTEE 228
>1f0y_A HCDH, L-3-hydroxyacyl-COA dehydrogenase; abortive ternary complex,
oxidoreductase; HET: CAA NAD; 1.80A {Homo sapiens} SCOP:
a.100.1.3 c.2.1.6 PDB: 3rqs_A 1lsj_A* 1il0_A* 1lso_A*
1m76_A* 1m75_A* 1f14_A 1f12_A 1f17_A* 3had_A* 2hdh_A*
3hdh_A*
Length = 302
Score = 26.0 bits (58), Expect = 2.1
Identities = 5/11 (45%), Positives = 10/11 (90%)
Query: 8 GRKSGKGYFVY 18
G+K+G+G++ Y
Sbjct: 291 GKKTGEGFYKY 301
>1k20_A Manganese-dependent inorganic pyrophosphatase; family II ppase,
binuclear metal centre, hydrolas; 1.50A {Streptococcus
gordonii} SCOP: c.107.1.1 PDB: 1wpp_A 2enx_A* 1i74_A
Length = 310
Score = 24.4 bits (53), Expect = 7.2
Identities = 6/19 (31%), Positives = 9/19 (47%)
Query: 79 VYDHHLDGNLEPGHSRHVT 97
V DHH N E + ++
Sbjct: 95 VVDHHRVANFETANPLYMR 113
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.317 0.135 0.417
Gapped
Lambda K H
0.267 0.0748 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,511,369
Number of extensions: 75204
Number of successful extensions: 151
Number of sequences better than 10.0: 1
Number of HSP's gapped: 145
Number of HSP's successfully gapped: 17
Length of query: 99
Length of database: 6,701,793
Length adjustment: 65
Effective length of query: 34
Effective length of database: 4,886,928
Effective search space: 166155552
Effective search space used: 166155552
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.4 bits)