RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy7726
(96 letters)
>1w07_A Acyl-COA oxidase; oxidoreductase, peroxisomal beta-oxidation, FAD
cofactor; HET: FAD; 2.0A {Arabidopsis thaliana} SCOP:
a.29.3.2 a.29.3.2 e.6.1.2 PDB: 2fon_A*
Length = 659
Score = 90.4 bits (224), Expect = 5e-23
Identities = 33/93 (35%), Positives = 48/93 (51%), Gaps = 4/93 (4%)
Query: 1 MMFSHYWVPRCSLLARFSSVSPQGDYSSLIPDPGLRFASSLIPLFLGRWCVLGCTWGNLL 60
+MF H +PR +L R S V+ +G+Y L + + + R ++ L
Sbjct: 242 LMFDHVRIPRDQMLMRLSKVTREGEYVPSDVPKQLVYGT----MVYVRQTIVADASNALS 297
Query: 61 KATLIAVRYSTVRKQFGEDREGRETSVIEYQTQ 93
+A IA RYS VR+QFG G ET VI+Y+TQ
Sbjct: 298 RAVCIATRYSAVRRQFGAHNGGIETQVIDYKTQ 330
>2ddh_A Acyl-COA oxidase; beta barrel, alpha UP-DOWN bundle,
oxidoreductase; HET: FAD HXD; 2.07A {Rattus norvegicus}
SCOP: a.29.3.2 a.29.3.2 e.6.1.2 PDB: 1is2_A*
Length = 661
Score = 86.1 bits (213), Expect = 2e-21
Identities = 25/93 (26%), Positives = 47/93 (50%), Gaps = 5/93 (5%)
Query: 1 MMFSHYWVPRCSLLARFSSVSPQGDYSSLIPDPGLRFASSLIPLFLGRWCVLGCTWGNLL 60
+ +Y +PR ++L +++ V P G Y + + + + R ++G +L
Sbjct: 240 LKMDNYRIPRENMLMKYAQVKPDGTYVKPLSNK-----LTYGTMVFVRSFLVGNAAQSLS 294
Query: 61 KATLIAVRYSTVRKQFGEDREGRETSVIEYQTQ 93
KA IA+RYS VR+Q + E ++++QTQ
Sbjct: 295 KACTIAIRYSAVRRQSEIKQSEPEPQILDFQTQ 327
>2uxw_A VERY-long-chain specific acyl-COA dehydrogenase; fatty acid
metabolism, transit peptide, disease mutation, LI
metabolism, coenzyme A dehydrogenase; HET: FAD TH3;
1.45A {Homo sapiens} PDB: 3b96_A*
Length = 607
Score = 27.3 bits (61), Expect = 0.78
Identities = 7/13 (53%), Positives = 9/13 (69%)
Query: 65 IAVRYSTVRKQFG 77
AV ++T R QFG
Sbjct: 310 KAVDHATNRTQFG 322
>3owa_A Acyl-COA dehydrogenase; structural genomics, center for structural
genomics of infec diseases, csgid, alpha-structure,
beta-barrel; HET: MSE FAD 1PE; 1.97A {Bacillus
anthracis}
Length = 597
Score = 26.9 bits (60), Expect = 0.93
Identities = 4/12 (33%), Positives = 8/12 (66%)
Query: 66 AVRYSTVRKQFG 77
+ +Y+ R+QF
Sbjct: 287 SAQYANQRQQFK 298
>1siq_A GCD, glutaryl-COA dehydrogenase; acyl-COA dehydrogenase,
decarboxylation, flavin protein, oxidoreductase; HET:
FAD; 2.10A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1 PDB:
2r0n_A* 1sir_A* 2r0m_A*
Length = 392
Score = 26.8 bits (60), Expect = 0.99
Identities = 13/48 (27%), Positives = 16/48 (33%), Gaps = 10/48 (20%)
Query: 34 GLRFASSLIPLFLGR----WCVLGCTWGNLLKATLIAVRYSTVRKQFG 77
L L R W VLG + A +Y+ R QFG
Sbjct: 236 SLGGPFGC--LNNARYGIAWGVLGASEF----CLHTARQYALDRMQFG 277
>2z1q_A Acyl-COA dehydrogenase; FAD, structural genomics, NPPSFA, Na
project on protein structural and functional analyses;
HET: FAD; 2.30A {Thermus thermophilus}
Length = 577
Score = 26.9 bits (60), Expect = 1.0
Identities = 6/12 (50%), Positives = 9/12 (75%)
Query: 66 AVRYSTVRKQFG 77
+ +Y+T R QFG
Sbjct: 282 SAQYATQRVQFG 293
>2d29_A Acyl-COA dehydrogenase; structural genomics, NPPSFA, national
project protein structural and functional analyses; HET:
FAD; 1.65A {Thermus thermophilus} SCOP: a.29.3.1 e.6.1.1
PDB: 1ws9_A 2cx9_A*
Length = 387
Score = 26.7 bits (60), Expect = 1.3
Identities = 5/12 (41%), Positives = 8/12 (66%)
Query: 66 AVRYSTVRKQFG 77
A+ Y+ R+ FG
Sbjct: 267 ALAYAKGREAFG 278
>2eba_A Putative glutaryl-COA dehydrogenase; thermus thermophilius, FAD,
STRU genomics, NPPSFA; HET: FAD; 2.21A {Thermus
thermophilus}
Length = 385
Score = 26.4 bits (59), Expect = 1.4
Identities = 12/48 (25%), Positives = 16/48 (33%), Gaps = 10/48 (20%)
Query: 34 GLRFASSLIPLFLGR----WCVLGCTWGNLLKATLIAVRYSTVRKQFG 77
GL+ S L R W +G AV ++ R FG
Sbjct: 233 GLKAPLSC--LTQARFGIAWGAMGALEA----VYEEAVAFAKSRSTFG 274
>2ix5_A Acyl-coenzyme A oxidase 4, peroxisomal; FAD, ACX4, flavin,
peroxisome, glyoxysome, fatty acid metabo lipid
metabolism, acyl-COA oxidase; HET: CAA FAD; 2.7A
{Arabidopsis thaliana} PDB: 2ix6_A*
Length = 436
Score = 26.5 bits (59), Expect = 1.5
Identities = 13/48 (27%), Positives = 19/48 (39%), Gaps = 10/48 (20%)
Query: 34 GLRFASSLIPLFLGR----WCVLGCTWGNLLKATLIAVRYSTVRKQFG 77
+ S + L + R W +G + G + RY RKQFG
Sbjct: 276 SFQDTSKV--LAVSRVMVAWQPIGISMG----IYDMCHRYLKERKQFG 317
>1rx0_A Acyl-COA dehydrogenase family member 8, mitochondrial;
flavoprotein, coenzyme A, oxidoreductase; HET: FAD 2MC;
1.77A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1
Length = 393
Score = 26.3 bits (59), Expect = 1.5
Identities = 6/12 (50%), Positives = 7/12 (58%)
Query: 66 AVRYSTVRKQFG 77
+ VRKQFG
Sbjct: 273 TRDHLNVRKQFG 284
>2c12_A Nitroalkane oxidase; oxidoreductase, flavoenzyme, acyl-COA
dehydrogenase, long cell EDGE, FAD, inhibitor,
flavoprotein; HET: SPM FAD PE4; 2.07A {Fusarium
oxysporum} SCOP: a.29.3.1 e.6.1.1 PDB: 2c0u_A* 2zaf_A*
2reh_A* 3d9g_A* 3d9f_A* 3d9d_A* 3d9e_A* 3fcj_A*
Length = 439
Score = 26.5 bits (59), Expect = 1.5
Identities = 2/13 (15%), Positives = 6/13 (46%)
Query: 66 AVRYSTVRKQFGE 78
A+ ++ + G
Sbjct: 295 ALVFAKSDTRGGS 307
>2vig_A Short-chain specific acyl-COA dehydrogenase,; fatty acid
metabolism, FAD, polymorphism, flavoprotein,
mitochondrion, disease mutation; HET: FAD COS; 1.9A
{Homo sapiens} PDB: 1jqi_A*
Length = 391
Score = 26.3 bits (59), Expect = 1.6
Identities = 6/12 (50%), Positives = 7/12 (58%)
Query: 66 AVRYSTVRKQFG 77
AV Y+ R FG
Sbjct: 262 AVNYAENRMAFG 273
>3pfd_A Acyl-COA dehydrogenase; structural genomics, seattle structural
genomics center for infectious disease, ssgcid; HET:
FDA; 2.10A {Mycobacterium thermoresistibile}
Length = 393
Score = 26.3 bits (59), Expect = 1.6
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 66 AVRYSTVRKQFG 77
A+ Y+ RKQFG
Sbjct: 274 AIAYTKERKQFG 285
>3mkh_A Nitroalkane oxidase; oxidoreductase flavoenzyme, acyl-COA
dehydrogen flavoprotein, oxidoreductase; HET: FAD; 2.00A
{Podospora anserina}
Length = 438
Score = 26.1 bits (58), Expect = 1.7
Identities = 2/12 (16%), Positives = 7/12 (58%)
Query: 66 AVRYSTVRKQFG 77
A++++ + G
Sbjct: 292 ALKFAKEDNRGG 303
>2dvl_A Acyl-COA dehydrogenase; structural genomics, NPPSFA, national
project on protein STR and functional analyses; HET:
FAD; 2.50A {Thermus thermophilus}
Length = 372
Score = 26.3 bits (59), Expect = 1.8
Identities = 6/12 (50%), Positives = 8/12 (66%)
Query: 66 AVRYSTVRKQFG 77
A Y+ R+QFG
Sbjct: 254 AKAYAEEREQFG 265
>1egd_A Medium chain acyl-COA dehydrogenase; flavoprotein, electron
transfer; HET: FAD; 2.40A {Homo sapiens} SCOP: a.29.3.1
e.6.1.1 PDB: 1egc_A* 1ege_A* 1t9g_A* 2a1t_A* 1udy_A*
3mdd_A* 3mde_A*
Length = 396
Score = 26.3 bits (59), Expect = 1.8
Identities = 6/12 (50%), Positives = 8/12 (66%)
Query: 66 AVRYSTVRKQFG 77
A +Y+ RK FG
Sbjct: 274 ATKYALERKTFG 285
>1buc_A Butyryl-COA dehydrogenase; acyl-COA dehydrogenase short-chain
acyl-COA dehydrogenase, flavoprotein, oxidoreductase;
HET: CAA FAD; 2.50A {Megasphaera elsdenii} SCOP:
a.29.3.1 e.6.1.1
Length = 383
Score = 26.3 bits (59), Expect = 1.8
Identities = 8/12 (66%), Positives = 8/12 (66%)
Query: 66 AVRYSTVRKQFG 77
AV YS R QFG
Sbjct: 265 AVEYSKQRVQFG 276
>1r2j_A Protein FKBI; polyketide synthase, polyketide, acyl-COA
dehydrogenase, , aldehyde dehydrogenase, oxidoreductase;
HET: FAD; 2.10A {Streptomyces hygroscopicus} SCOP:
a.29.3.1 e.6.1.1
Length = 366
Score = 25.9 bits (58), Expect = 1.8
Identities = 6/12 (50%), Positives = 9/12 (75%)
Query: 66 AVRYSTVRKQFG 77
AV ++ R+QFG
Sbjct: 244 AVAHARTREQFG 255
>1ukw_A Acyl-COA dehydrogenase; oxidoreductase, riken structural
genomics/proteomics initiative, RSGI, structural
genomics; HET: FAD; 2.40A {Thermus thermophilus} SCOP:
a.29.3.1 e.6.1.1
Length = 379
Score = 25.9 bits (58), Expect = 2.0
Identities = 5/12 (41%), Positives = 8/12 (66%)
Query: 66 AVRYSTVRKQFG 77
A +Y+ R+ FG
Sbjct: 260 ARKYAKEREAFG 271
>3nf4_A Acyl-COA dehydrogenase; seattle structural genomics center for
infectious disease, S FAD, FADH, tuberculosis,
oxidoredu; HET: FAD; 2.35A {Mycobacterium
thermoresistibile}
Length = 387
Score = 25.9 bits (58), Expect = 2.1
Identities = 6/12 (50%), Positives = 7/12 (58%)
Query: 66 AVRYSTVRKQFG 77
AV Y+ R FG
Sbjct: 269 AVAYANERTAFG 280
>1ivh_A Isovaleryl-COA dehydrogenase; oxidoreductase, acyl-COA
dehydrogenase, flavoprotein, isovaleric acidemia; HET:
FAD COS; 2.60A {Homo sapiens} SCOP: a.29.3.1 e.6.1.1
Length = 394
Score = 25.9 bits (58), Expect = 2.3
Identities = 5/13 (38%), Positives = 7/13 (53%)
Query: 65 IAVRYSTVRKQFG 77
+ Y VR+ FG
Sbjct: 272 HTIPYLHVREAFG 284
>2jif_A Short/branched chain specific acyl-COA dehydrogen; mitochondrion,
oxidoreductase, transit peptide, fatty acid metabolism,
FAD, flavoprotein; HET: FAD COS; 2.0A {Homo sapiens}
Length = 404
Score = 26.0 bits (58), Expect = 2.3
Identities = 5/12 (41%), Positives = 6/12 (50%)
Query: 66 AVRYSTVRKQFG 77
+ Y R QFG
Sbjct: 284 TIPYIKERIQFG 295
>3mpi_A Glutaryl-COA dehydrogenase; alpha-beta fold, oxidoreductase; HET:
FAD GRA; 2.05A {Desulfococcus multivorans} PDB: 3mpj_A*
Length = 397
Score = 26.0 bits (58), Expect = 2.4
Identities = 6/12 (50%), Positives = 9/12 (75%)
Query: 66 AVRYSTVRKQFG 77
A++Y R+QFG
Sbjct: 264 AIKYCNERRQFG 275
>3ii9_A Glutaryl-COA dehydrogenase; slipchip, microfluidics, screening,
optimization, protein crystallization, structural
genomics; HET: PGE PG4; 1.74A {Burkholderia pseudomallei
1710B} PDB: 3eon_A* 3eom_A* 3gqt_A* 3gnc_A* 3d6b_A
Length = 396
Score = 25.6 bits (57), Expect = 2.9
Identities = 7/12 (58%), Positives = 8/12 (66%)
Query: 66 AVRYSTVRKQFG 77
A +Y RKQFG
Sbjct: 273 ARQYVLDRKQFG 284
>3m9v_A FAD-dependent oxidoreductase; KIJD3, fatty acyl-COA dehydrogenase
family, kijanose, kijani FAD, flavoprotein; HET: TYD;
2.05A {Actinomadura kijaniata}
Length = 439
Score = 25.3 bits (56), Expect = 3.2
Identities = 3/12 (25%), Positives = 4/12 (33%)
Query: 66 AVRYSTVRKQFG 77
AV R +
Sbjct: 278 AVAALERRPEPP 289
>3swo_A Glutaryl-COA dehydrogenase; ssgcid, glutaryl-COA dehdrogenase,
mycobacerium smegmatis, S genomics; HET: FDA; 1.45A
{Mycobacterium smegmatis}
Length = 399
Score = 25.2 bits (56), Expect = 3.4
Identities = 11/47 (23%), Positives = 16/47 (34%), Gaps = 8/47 (17%)
Query: 34 GLRFASSLIPLFLGRWCVLGCTWGNL---LKATLIAVRYSTVRKQFG 77
GL S L R G +G L + + Y+ R+ F
Sbjct: 245 GLSAPLSC--LNEAR---FGIVFGALGAARDSLETTIAYTQSREVFD 286
>3sf6_A Glutaryl-COA dehydrogenase; ssgcid, NIH, niaid, SBRI, UW, emerald
biostructures, structu genomics; HET: FDA; 1.70A
{Mycobacterium smegmatis}
Length = 403
Score = 25.2 bits (56), Expect = 3.6
Identities = 10/48 (20%), Positives = 14/48 (29%), Gaps = 10/48 (20%)
Query: 34 GLRFASSLIPLFLGR----WCVLGCTWGNLLKATLIAVRYSTVRKQFG 77
L L R + LG A+ Y+ R+QF
Sbjct: 250 SLGAPLRC--LNEARFGIVFGALGAARD----CLETALAYACSREQFD 291
>3bbo_D Ribosomal protein L1; large ribosomal subunit, spinach
chloroplast ribosome, ribonucleoprotein particle,
macromolecular complex; 9.40A {Spinacea oleracea}
Length = 352
Score = 25.3 bits (55), Expect = 3.8
Identities = 17/81 (20%), Positives = 19/81 (23%)
Query: 9 PRCSLLARFSSVSPQGDYSSLIPDPGLRFASSLIPLFLGRWCVLGCTWGNLLKATLIAVR 68
P SL SS Q D S L SSL L L + W +
Sbjct: 7 PSLSLCYASSSFQYQQDPSFQTHFKPLLLNSSLCRLTLNQRERSCLKWVDFTSQKQSPKS 66
Query: 69 YSTVRKQFGEDREGRETSVIE 89
S E
Sbjct: 67 VSFRVLAAVAAEAEVADMEEE 87
>2kou_A Dicer-like protein 4; ATP-binding, endonuclease, helicase,
hydrolase, nuclease, nucleotide-binding, nucleus, RNA-
binding; NMR {Arabidopsis thaliana}
Length = 102
Score = 24.7 bits (54), Expect = 4.3
Identities = 7/59 (11%), Positives = 17/59 (28%), Gaps = 8/59 (13%)
Query: 12 SLLARFSSVSPQGDYSSLIP--------DPGLRFASSLIPLFLGRWCVLGCTWGNLLKA 62
S++ ++ S P ++ P + G +P + + A
Sbjct: 8 SMMYKYCSRLPHDEFFQPKPEFQFKPVDEFGGTICRITLPANAPISEIESSLLPSTEAA 66
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
0.325 0.139 0.452
Gapped
Lambda K H
0.267 0.0794 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,416,617
Number of extensions: 66558
Number of successful extensions: 140
Number of sequences better than 10.0: 1
Number of HSP's gapped: 138
Number of HSP's successfully gapped: 30
Length of query: 96
Length of database: 6,701,793
Length adjustment: 62
Effective length of query: 34
Effective length of database: 4,970,691
Effective search space: 169003494
Effective search space used: 169003494
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (23.3 bits)