RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9487
(101 letters)
>2gmh_A Electron transfer flavoprotein-ubiquinone oxidoreductase; HET: BHG
FAD UQ5; 2.50A {Sus scrofa} SCOP: c.3.1.2 d.16.1.8
d.58.1.6 PDB: 2gmj_A*
Length = 584
Score = 165 bits (420), Expect = 3e-50
Identities = 75/98 (76%), Positives = 86/98 (87%)
Query: 4 GMPMNNHGNYVVRLGHVVKWLGEQAEAMGVEIYPGIPASEVLYHGDGSVKGIATGDVGIA 63
G+PMNNHGNYVVRLGH+V W+GEQAEA+GVE+YPG A+E+L+H DGSVKGIAT DVGI
Sbjct: 130 GLPMNNHGNYVVRLGHLVSWMGEQAEALGVEVYPGYAAAEILFHEDGSVKGIATNDVGIQ 189
Query: 64 KDGSPKDTFARGMELHAKVTIFAEGCHGHLTKSLSSRF 101
KDG+PK TF RG+ELHAKVTIFAEGCHGHL K L +F
Sbjct: 190 KDGAPKTTFERGLELHAKVTIFAEGCHGHLAKQLYKKF 227
>3jsk_A Cypbp37 protein; octameric thiazole synthase, biosynthetic protein;
HET: AHZ; 2.70A {Neurospora crassa}
Length = 344
Score = 68.6 bits (167), Expect = 3e-15
Identities = 11/95 (11%), Positives = 22/95 (23%), Gaps = 4/95 (4%)
Query: 7 MNNHGNYVVRLGHVVKWLGEQAEAMGVEIYPGIPASEVLYHGDGSVKGIATGDVGIAKDG 66
+ + V + + A E + G+ T ++
Sbjct: 171 LQRPNVKLFNATTVEDLITRKHHAESSSSSDD---GEAEDEAKVRIAGVVTNWTLVSMHH 227
Query: 67 SPKDTFARGMELHAKVTIFAEGCHGHLTKSLSSRF 101
+ ++A V I G G R
Sbjct: 228 DDQSAM-DPNTINAPVIISTTGHDGPFGAFSVKRL 261
>3atr_A Conserved archaeal protein; saturating double bonds, archaeal
membrane precursor, like 2 geranylgeranylglyceryl
phosphate; HET: FDA; 1.80A {Sulfolobus acidocaldarius}
PDB: 3atq_A*
Length = 453
Score = 42.5 bits (100), Expect = 4e-06
Identities = 16/88 (18%), Positives = 34/88 (38%), Gaps = 11/88 (12%)
Query: 13 YVVRLGHVVKWLGEQAEAMGVEIYPGIPASEVLYHGDGSVKGIATGDVGIAKDGSPKDTF 72
+ + + + ++A+ GVEI+ A + ++ DG VKG + ++
Sbjct: 95 FELNAPLYNQRVLKEAQDRGVEIWDLTTAMKPIFE-DGYVKGAVLFNRRTNEEL------ 147
Query: 73 ARGMELHAKVTIFAEGCHGHLTKSLSSR 100
+++KV + A G L
Sbjct: 148 ----TVYSKVVVEATGYSRSFRSKLPPE 171
>2gjc_A Thiazole biosynthetic enzyme, mitochondrial; glutathione reductase
type II family, thiazole synthase, mitochondria DNA
repair; HET: AHZ; 1.82A {Saccharomyces cerevisiae} SCOP:
c.3.1.6 PDB: 3fpz_A*
Length = 326
Score = 36.7 bits (84), Expect = 4e-04
Identities = 18/120 (15%), Positives = 39/120 (32%), Gaps = 22/120 (18%)
Query: 3 FGMPMNNHGNYVVRL---GHVVKWLGEQAEAMGVEIYPGIPASEVLYH-----GDGSVKG 54
+P + G+YVV + L + + V+++ +++ G+ +V G
Sbjct: 129 LEIPYEDEGDYVVVKHAALFISTVLSKVLQLPNVKLFNATCVEDLVTRPPTEKGEVTVAG 188
Query: 55 IATG--------------DVGIAKDGSPKDTFARGMELHAKVTIFAEGCHGHLTKSLSSR 100
+ T D + + K+ R + V + G G + R
Sbjct: 189 VVTNWTLVTQAHGTQCCMDPNVIELAGYKNDGTRDLSQKHGVILSTTGHDGPFGAFCAKR 248
>3cgv_A Geranylgeranyl reductase related protein; NP_393992.1,
geranylgeranyl bacteriochlorophyll reductase- like FIXC
homolog; HET: MSE FAD UNL; 1.60A {Thermoplasma
acidophilum dsm 1728} PDB: 3oz2_A*
Length = 397
Score = 36.2 bits (84), Expect = 7e-04
Identities = 16/76 (21%), Positives = 27/76 (35%), Gaps = 13/76 (17%)
Query: 22 KWLGEQAEAMGVEIYPGIPASEVLYHGDGSVKGIATGDVGIAKDGSPKDTFARGMELHAK 81
K L A G +++ PA V+ +G V G I + ++ AK
Sbjct: 106 KHLAALAAKAGADVWVKSPALGVIKE-NGKVAG-----AKIRHNNEIV-------DVRAK 152
Query: 82 VTIFAEGCHGHLTKSL 97
+ I A+G +
Sbjct: 153 MVIAADGFESEFGRWA 168
>3nix_A Flavoprotein/dehydrogenase; structural genomics, PSI-2, NES protein
structure initiative, northeast structural genomics
consortium; HET: FAD; 2.60A {Cytophaga hutchinsonii}
Length = 421
Score = 34.4 bits (79), Expect = 0.003
Identities = 16/85 (18%), Positives = 32/85 (37%), Gaps = 13/85 (15%)
Query: 13 YVVRLGHVVKWLGEQAEAMGVEIYPGIPASEVLYHGDGSVKGIATGDVGIAKDGSPKDTF 72
+ V G+ K L ++A GV++ + +++ + G SV I +
Sbjct: 101 WQVPRGNFDKTLADEAARQGVDVEYEVGVTDIKFFGTDSVTTIEDIN------------- 147
Query: 73 ARGMELHAKVTIFAEGCHGHLTKSL 97
E+ A+ I A G + +
Sbjct: 148 GNKREIEARFIIDASGYGRVIPRMF 172
>3i3l_A Alkylhalidase CMLS; flavin-dependent halogenase, chloramphenicol
biosynthesis, halogenation reaction, structural
genomics; HET: FAD; 2.20A {Streptomyces venezuelae}
Length = 591
Score = 32.3 bits (73), Expect = 0.016
Identities = 12/76 (15%), Positives = 26/76 (34%), Gaps = 13/76 (17%)
Query: 22 KWLGEQAEAMGVEIYPGIPASEVLYHGDGSVKGIATGDVGIAKDGSPKDTFARGMELHAK 81
K L ++A + G+ ++ P ++V V + + +
Sbjct: 132 KLLLDEARSRGITVHEETPVTDVDLSDPDRVVLTVRRG-------------GESVTVESD 178
Query: 82 VTIFAEGCHGHLTKSL 97
I A G G +++ L
Sbjct: 179 FVIDAGGSGGPISRKL 194
>1d4d_A Flavocytochrome C fumarate reductase; oxidoreductase; HET: HEM FAD;
2.50A {Shewanella oneidensis} SCOP: a.138.1.3 c.3.1.4
d.168.1.1 PDB: 1d4e_A* 1d4c_A*
Length = 572
Score = 30.5 bits (69), Expect = 0.074
Identities = 13/71 (18%), Positives = 22/71 (30%), Gaps = 11/71 (15%)
Query: 18 GHVVKWLGEQAEAMGVEIYPGIPASEVLYHGDGSVKGIATGDVGIAKDGSPKDTFARGME 77
HV + L + A G +I +L G V G+ + +
Sbjct: 255 AHVAQVLWDNAVKRGTDIRLNSRVVRILEDASGKVTGV----LVKGEYTGYY-------V 303
Query: 78 LHAKVTIFAEG 88
+ A + A G
Sbjct: 304 IKADAVVIAAG 314
>1qo8_A Flavocytochrome C3 fumarate reductase; oxidoreductase; HET: HEM
FAD; 2.15A {Shewanella frigidimarina} SCOP: a.138.1.3
c.3.1.4 d.168.1.1
Length = 566
Score = 30.4 bits (69), Expect = 0.075
Identities = 7/38 (18%), Positives = 17/38 (44%)
Query: 18 GHVVKWLGEQAEAMGVEIYPGIPASEVLYHGDGSVKGI 55
++ L + A+ G++ +++ + D SV G
Sbjct: 250 PEIIDTLRKAAKEQGIDTRLNSRVVKLVVNDDHSVVGA 287
>4at0_A 3-ketosteroid-delta4-5alpha-dehydrogenase; oxidoreductase,
dehydogenase, steroid catabolism; HET: FAD; 1.60A
{Rhodococcus jostii} PDB: 4at2_A*
Length = 510
Score = 29.6 bits (67), Expect = 0.13
Identities = 13/58 (22%), Positives = 21/58 (36%), Gaps = 5/58 (8%)
Query: 18 GHVVKWLGEQAEAMGVEIYPGIPASEVLYHGDGSVKGIATGDVGIAKDGSPKDTFARG 75
++K L E AE +GV + ++ G V G + + G AR
Sbjct: 202 YMLMKPLVETAEKLGVRAEYDMRVQTLVTDDTGRVVG-----IVAKQYGKEVAVRARR 254
>1y0p_A Fumarate reductase flavoprotein subunit; flavocytochrome,
mesaconate, oxidoreductase; HET: HEM FAD; 1.50A
{Shewanella frigidimarina} SCOP: a.138.1.3 c.3.1.4
d.168.1.1 PDB: 1qjd_A* 2b7s_A* 1jry_A* 2b7r_A* 1ksu_A*
1jrz_A* 1jrx_A* 1m64_A* 1p2h_A* 1p2e_A* 1kss_A* 1e39_A*
1q9i_A* 1lj1_A*
Length = 571
Score = 28.9 bits (65), Expect = 0.23
Identities = 17/71 (23%), Positives = 25/71 (35%), Gaps = 11/71 (15%)
Query: 18 GHVVKWLGEQAEAMGVEIYPGIPASEVLYHGDGSVKGIATGDVGIAKDGSPKDTFARGME 77
HVV+ L + A +++ EVL G+VKGI +
Sbjct: 255 AHVVQVLYDNAVKRNIDLRMNTRGIEVLKDDKGTVKGI----LVKGMYKGYY-------W 303
Query: 78 LHAKVTIFAEG 88
+ A I A G
Sbjct: 304 VKADAVILATG 314
>3stj_A Protease DEGQ; serine protease, PDZ domain, protease, chaperone,
DEGP, DEGQ hydrolase; 2.60A {Escherichia coli}
Length = 345
Score = 28.7 bits (65), Expect = 0.28
Identities = 23/92 (25%), Positives = 42/92 (45%), Gaps = 15/92 (16%)
Query: 3 FGMPMNNHGNYVVRL---GHVVK-WLG--------EQAEAMGVEIYPGIPASEVLYHGDG 50
F +P N +L G + + LG + A+A +++ G SEVL
Sbjct: 217 FAIPSNMARTLAQQLIDFGEIKRGLLGIKGTEMSADIAKAFNLDVQRGAFVSEVLPGSGS 276
Query: 51 SVKGIATGDVGIAKDGSPKDTFARGMELHAKV 82
+ G+ GD+ + +G P ++FA EL +++
Sbjct: 277 AKAGVKAGDIITSLNGKPLNSFA---ELRSRI 305
>2pff_B Fatty acid synthase subunit beta; fatty acid synthase,
acyl-carrier-protein, beta-ketoacyl RED beta-ketoacyl
synthase, dehydratase; 4.00A {Saccharomyces cerevisiae}
Length = 2006
Score = 28.1 bits (62), Expect = 0.44
Identities = 17/72 (23%), Positives = 26/72 (36%), Gaps = 18/72 (25%)
Query: 25 GEQAEAMGVEIYPGIP-ASEVLYHGDGSVK---GIATGDVGIAKDGSPKDTFARGMELHA 80
G Q + MG+++Y A +V D K G + D I + +P
Sbjct: 1625 GSQEQGMGMDLYKTSKAAQDVWNRADNHFKDTYGFSILD--IVIN-NPV----------- 1670
Query: 81 KVTIFAEGCHGH 92
+TI G G
Sbjct: 1671 NLTIHFGGEKGK 1682
Score = 25.0 bits (54), Expect = 6.1
Identities = 19/112 (16%), Positives = 37/112 (33%), Gaps = 38/112 (33%)
Query: 19 HVVKWLGEQAEAMGVEIYPGIPASEVL--------Y----------HGD---------GS 51
++++WL + + IP S L Y G+ G
Sbjct: 214 NILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGH 273
Query: 52 VKGIATGDVGIAKDGSPKDTF----ARGMELHAKVTIFAEGCHGHLTKSLSS 99
+G+ T V IA+ S ++F + + + +F G + +S
Sbjct: 274 SQGLVTA-VAIAETDS-WESFFVSVRKAITV-----LFFIGVRCYEAYPNTS 318
>1pj5_A N,N-dimethylglycine oxidase; channelling, FAD binding, folate
binding, amine oxidase, oxidoreductase; HET: FAD; 1.61A
{Arthrobacter globiformis} SCOP: b.44.2.1 c.3.1.2
d.16.1.5 d.250.1.1 PDB: 1pj6_A* 1pj7_A* 3gsi_A*
Length = 830
Score = 26.6 bits (59), Expect = 1.7
Identities = 9/38 (23%), Positives = 16/38 (42%), Gaps = 1/38 (2%)
Query: 20 VVKWLGEQAEAMGVEIYPGIPASEVLYHGDGSVKGIAT 57
V+ L ++ E+ GV + + G V G+ T
Sbjct: 153 AVQLLIKRTESAGVTYRGSTTVTGIEQSGGR-VTGVQT 189
>1ryi_A Glycine oxidase; flavoprotein, protein-inhibitor complex,
oxidoreductase; HET: FAD; 1.80A {Bacillus subtilis}
SCOP: c.3.1.2 d.16.1.3 PDB: 3if9_A* 1ng4_A* 1ng3_A*
Length = 382
Score = 25.2 bits (56), Expect = 4.7
Identities = 12/41 (29%), Positives = 16/41 (39%), Gaps = 2/41 (4%)
Query: 19 HVVKWLGEQAEAMGVEIYPGIPASEVLYHGDGSVKGIATGD 59
V K + A+ +G EI+ P V DG I T
Sbjct: 165 FVCKAYVKAAKMLGAEIFEHTPVLHV--ERDGEALFIKTPS 203
>1hyu_A AHPF, alkyl hydroperoxide reductase subunit F; thiol-thiolate
hydrogen bond, nucleotide binding fold, thior reductase,
thioredoxin; HET: FAD; 2.00A {Salmonella typhimurium}
SCOP: c.3.1.5 c.3.1.5 c.47.1.2 c.47.1.2 PDB: 1zyn_A
1zyp_A
Length = 521
Score = 25.3 bits (56), Expect = 4.7
Identities = 14/66 (21%), Positives = 20/66 (30%), Gaps = 16/66 (24%)
Query: 24 LGEQAEAMGVEIYPGIPASEVLYHGDGSVKGIATGDVGIAKDGSPKD-TFARGMELHAKV 82
L V++ AS++ V A +G A G L A+
Sbjct: 273 LKAHVSDYDVDVIDSQSASKL---------------VPAATEGGLHQIETASGAVLKARS 317
Query: 83 TIFAEG 88
I A G
Sbjct: 318 IIIATG 323
>1fl2_A Alkyl hydroperoxide reductase subunit F; reactive oxygen, FAD,
disulphi oxidoreductase, oxidoreductase; HET: FAD; 1.90A
{Escherichia coli} SCOP: c.3.1.5 c.3.1.5
Length = 310
Score = 24.8 bits (55), Expect = 5.2
Identities = 12/64 (18%), Positives = 20/64 (31%), Gaps = 16/64 (25%)
Query: 26 EQAEAMGVEIYPGIPASEVLYHGDGSVKGIATGDVGIAKDGSPKD-TFARGMELHAKVTI 84
+ V++ AS++ + A +G A G L A+ I
Sbjct: 64 VHVDEYDVDVIDSQSASKL---------------IPAAVEGGLHQIETASGAVLKARSII 108
Query: 85 FAEG 88
A G
Sbjct: 109 VATG 112
>1qxy_A Methionyl aminopeptidase; PITA bread fold, hydrolase; HET: M2C;
1.04A {Staphylococcus aureus} SCOP: d.127.1.1 PDB:
1qxw_A* 1qxz_A*
Length = 252
Score = 24.4 bits (54), Expect = 6.8
Identities = 10/29 (34%), Positives = 14/29 (48%), Gaps = 5/29 (17%)
Query: 38 GIPASEVLYHGDGSVKGIATGDVGIAKDG 66
GIP+ V+ GD + DV K+G
Sbjct: 77 GIPSKRVIREGD-----LVNIDVSALKNG 100
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
0.319 0.137 0.421
Gapped
Lambda K H
0.267 0.0722 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,649,046
Number of extensions: 92320
Number of successful extensions: 272
Number of sequences better than 10.0: 1
Number of HSP's gapped: 268
Number of HSP's successfully gapped: 40
Length of query: 101
Length of database: 6,701,793
Length adjustment: 67
Effective length of query: 34
Effective length of database: 4,831,086
Effective search space: 164256924
Effective search space used: 164256924
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 51 (23.4 bits)