RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3153
(89 letters)
>2y69_E Cytochrome C oxidase subunit 5A; electron transport, complex IV,
proton pumps, membrane prote; HET: TPO HEA CHD PEK PGV
DMU; 1.95A {Bos taurus}
Length = 152
Score = 109 bits (273), Expect = 2e-32
Identities = 45/77 (58%), Positives = 59/77 (76%), Gaps = 1/77 (1%)
Query: 1 MNDLAQDDGVPDPVIIIAALKAARRLNDYALTIRLLEMVQEKCGKKKKVIWPYILGEIRP 60
MN L D VP+P II AAL+A RRLND+A +R+LE+V++K G K+ I+PY++ E+RP
Sbjct: 76 MNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKE-IYPYVIQELRP 134
Query: 61 TLTELGIETPEDLGYDK 77
TL ELGI TPE+LG DK
Sbjct: 135 TLNELGISTPEELGLDK 151
>1v54_E Cytochrome C oxidase polypeptide VA; oxidoreductase; HET: FME TPO
HEA TGL PGV CHD CDL PEK PSC DMU; 1.80A {Bos taurus}
SCOP: a.118.11.1 PDB: 1oco_E* 1occ_E* 1ocz_E* 1ocr_E*
1v55_E* 2dyr_E* 2dys_E* 2eij_E* 2eik_E* 2eil_E* 2eim_E*
2ein_E* 2occ_E* 2ybb_P* 2zxw_E* 3abk_E* 3abl_E* 3abm_E*
3ag1_E* 3ag2_E* ...
Length = 109
Score = 104 bits (261), Expect = 3e-31
Identities = 45/77 (58%), Positives = 59/77 (76%), Gaps = 1/77 (1%)
Query: 1 MNDLAQDDGVPDPVIIIAALKAARRLNDYALTIRLLEMVQEKCGKKKKVIWPYILGEIRP 60
MN L D VP+P II AAL+A RRLND+A +R+LE+V++K G K+ I+PY++ E+RP
Sbjct: 33 MNTLVGYDLVPEPKIIDAALRACRRLNDFASAVRILEVVKDKAGPHKE-IYPYVIQELRP 91
Query: 61 TLTELGIETPEDLGYDK 77
TL ELGI TPE+LG DK
Sbjct: 92 TLNELGISTPEELGLDK 108
>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 = 27.7 bits (61), Expect = 0.46
Identities = 11/63 (17%), Positives = 19/63 (30%), Gaps = 6/63 (9%)
Query: 11 PDPVIIIAALKAARRLNDYALTIRLLEMVQEKCGKKKKVIWPYILGEIRPTLTELGIETP 70
P + I + +R+ + M+ E K I EI T +
Sbjct: 1669 PVNLTIHFGGEKGKRIRE-----NYSAMIFETIVDGKLKTEK-IFKEINEHSTSYTFRSE 1722
Query: 71 EDL 73
+ L
Sbjct: 1723 KGL 1725
Score = 25.4 bits (55), Expect = 3.5
Identities = 16/55 (29%), Positives = 23/55 (41%), Gaps = 8/55 (14%)
Query: 15 IIIAALKAARR--L--ND-YALTIRLLEMVQEKCGKKKKVIWPYILGEI---RPT 61
++ L L ND +AL +LL+ K K++I YI I RP
Sbjct: 83 VLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITARIMAKRPF 137
>2vvm_A Monoamine oxidase N; FAD, peroxisome, flavoprotein,
oxidoreductase, enantioselectivity, directed evolution
variant; HET: FAD; 1.85A {Aspergillus niger} PDB:
2vvl_A* 2vvl_G*
Length = 495
Score = 27.2 bits (60), Expect = 0.70
Identities = 11/36 (30%), Positives = 13/36 (36%), Gaps = 3/36 (8%)
Query: 5 AQDDGVPDPVII---IAALKAARRLNDYALTIRLLE 37
DG D ++I L A R L LLE
Sbjct: 34 TDKDGPWDVIVIGGGYCGLTATRDLTVAGFKTLLLE 69
>3c6v_A Probable tautomerase/dehalogenase AU4130; aspergillus fumigatus
trimeric thermophilic probable tautomerase/dehalogenase;
HET: MSE; 1.90A {Aspergillus fumigatus AF293}
Length = 161
Score = 26.6 bits (58), Expect = 0.98
Identities = 12/77 (15%), Positives = 27/77 (35%), Gaps = 4/77 (5%)
Query: 10 VPDPVIIIAALKA--ARRLNDYALTIRLLEMVQEKCGKKKKVIWPYILGEIRPTL-TELG 66
P+ V + A ++ ++ + K + W Y + E L G
Sbjct: 79 HPNFVALTIYHLARTMTSDEQRQGFLKRIDAFLTPMFEPKGIDWEYFVTEAPRDLWKING 138
Query: 67 IETPEDLGYDKPELWCK 83
+ P G ++ ++W +
Sbjct: 139 LAPPAA-GSEEEKVWVR 154
>1s3e_A Amine oxidase [flavin-containing] B; human monoamine oxidase,
inhibitor binding, rasagiline, enantioselectivity,
oxidoreductase; HET: FAD RHP; 1.60A {Homo sapiens}
SCOP: c.3.1.2 d.16.1.5 PDB: 1gos_A* 1oj9_A* 1ojb_A*
1ojc_A* 1ojd_A* 1s2q_A* 1s2y_A* 1oja_A* 1s3b_A* 2bk3_A*
2byb_A* 2c64_A* 2c65_A* 2c66_A* 2c67_A* 2c70_A* 2v5z_A*
2v60_A* 2v61_A* 2vrl_A* ...
Length = 520
Score = 26.0 bits (57), Expect = 1.6
Identities = 8/28 (28%), Positives = 16/28 (57%), Gaps = 4/28 (14%)
Query: 14 VIIIAA----LKAARRLNDYALTIRLLE 37
V+++ + AA+ L+D L + +LE
Sbjct: 7 VVVVGGGISGMAAAKLLHDSGLNVVVLE 34
>3k7m_X 6-hydroxy-L-nicotine oxidase; enantiomeric substrates,
flavoenzymes, nicotine degradation, oxidoreductase;
HET: FAD GP7; 1.95A {Arthrobacter nicotinovorans} PDB:
3k7q_X* 3ng7_X* 3ngc_X* 3nh3_X* 3nho_X* 3nk0_X* 3nk1_X*
3nk2_X* 3nn0_X* 3nn6_X* 3k7t_A*
Length = 431
Score = 25.5 bits (56), Expect = 2.2
Identities = 10/28 (35%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 14 VIIIAA----LKAARRLNDYALTIRLLE 37
I++ LKAAR L + + LLE
Sbjct: 4 AIVVGGGFSGLKAARDLTNAGKKVLLLE 31
>3mf7_A CIS-3-chloroacrylic acid dehalogenase; beta-alpha-beta motif,
tautomerase, CIS-3-CHLO acid dehalogenase, isomerase,
hydrolase; HET: PR4; 1.65A {Coryneform bacterium} PDB:
3mf8_A 2flt_A 2flz_A
Length = 149
Score = 25.4 bits (55), Expect = 2.6
Identities = 14/64 (21%), Positives = 21/64 (32%), Gaps = 2/64 (3%)
Query: 10 VPDPVIIIAALKAARRLNDY--ALTIRLLEMVQEKCGKKKKVIWPYILGEIRPTLTELGI 67
I + L R D L R+++ V +K IW Y + E G
Sbjct: 58 QGGDTIFVHGLHREGRSADLKGQLAQRIVDDVSVAAEIDRKHIWVYFGEMPAQQMVEYGR 117
Query: 68 ETPE 71
P+
Sbjct: 118 FLPQ 121
>2z3y_A Lysine-specific histone demethylase 1; chromatin, nucleosome,
transcription, LSD1, alternative splicing, chromatin
regulator, coiled coil; HET: F2N; 2.25A {Homo sapiens}
SCOP: a.4.1.18 c.3.1.2 d.16.1.5 PDB: 2ejr_A* 2z5u_A*
3abt_A* 3abu_A* 2y48_A* 2v1d_A* 2h94_A* 2iw5_A* 2uxn_A*
2uxx_A* 2hko_A* 2dw4_A* 2x0l_A* 2l3d_A
Length = 662
Score = 25.6 bits (55), Expect = 2.8
Identities = 10/30 (33%), Positives = 17/30 (56%), Gaps = 3/30 (10%)
Query: 11 PDPVII---IAALKAARRLNDYALTIRLLE 37
+II ++ L AAR+L + + + LLE
Sbjct: 108 GKVIIIGSGVSGLAAARQLQSFGMDVTLLE 137
>2xag_A Lysine-specific histone demethylase 1; amine oxidase, chromatin
regulator, histone inhibitor binding, methylation,
nucleosome core, oxidoreductase; HET: FAD TCF; 3.10A
{Homo sapiens} PDB: 2xaf_A* 2xah_A* 2xaj_A* 2xaq_A*
2xas_A* 2com_A
Length = 852
Score = 25.3 bits (54), Expect = 3.3
Identities = 10/30 (33%), Positives = 17/30 (56%), Gaps = 3/30 (10%)
Query: 11 PDPVII---IAALKAARRLNDYALTIRLLE 37
+II ++ L AAR+L + + + LLE
Sbjct: 279 GKVIIIGSGVSGLAAARQLQSFGMDVTLLE 308
>2e1m_A L-glutamate oxidase; L-amino acid oxidase, FAD, L-GOX, flavo
oxidoreductase; HET: FAD; 2.80A {Streptomyces SP}
Length = 376
Score = 25.3 bits (54), Expect = 3.7
Identities = 12/51 (23%), Positives = 21/51 (41%), Gaps = 9/51 (17%)
Query: 3 DLAQDDGVPDP-----VIII----AALKAARRLNDYALTIRLLEMVQEKCG 44
D+ D+G+ P ++I+ A L A L + +LE + G
Sbjct: 31 DVLIDNGLNPPGPPKRILIVGAGIAGLVAGDLLTRAGHDVTILEANANRVG 81
>2yg5_A Putrescine oxidase; oxidoreductase, flavin; HET: FAD; 1.90A
{Rhodococcus erythropolis} PDB: 2yg6_A* 2yg3_A* 2yg4_A*
2yg7_A* 3rha_A*
Length = 453
Score = 25.1 bits (55), Expect = 4.1
Identities = 9/28 (32%), Positives = 14/28 (50%), Gaps = 4/28 (14%)
Query: 14 VIIIAA----LKAARRLNDYALTIRLLE 37
V I+ A L AA L L++ ++E
Sbjct: 8 VAIVGAGPSGLAAATALRKAGLSVAVIE 35
>3lfm_A Protein FTO; FAT MASS and obesity associated (FTO) protein,
Fe2+/2-oxoGlu (2-OG)-dependent oxidative DNA/RNA
demethylases, oxidoreduc; HET: 3DT OGA; 2.50A {Homo
sapiens}
Length = 495
Score = 24.4 bits (52), Expect = 7.4
Identities = 12/33 (36%), Positives = 19/33 (57%), Gaps = 1/33 (3%)
Query: 16 IIAALKAARRLNDYALTIRLLEMVQEKCGKKKK 48
I AA + +LNDY L I ++ ++E K+K
Sbjct: 122 IAAACETFLKLNDY-LQIETIQALEELAAKEKA 153
>1r9j_A Transketolase; domains, EACH of the alpha/beta type, thiamine
diphosphate binding domain, transferase; HET: TPP; 2.22A
{Leishmania mexicana mexicana} SCOP: c.36.1.6 c.36.1.10
c.48.1.1
Length = 673
Score = 24.0 bits (53), Expect = 8.3
Identities = 5/22 (22%), Positives = 8/22 (36%)
Query: 7 DDGVPDPVIIIAALKAARRLND 28
+G D + AL A+
Sbjct: 218 KNGDTDYEGLRKALAEAKATKG 239
>4a17_C RPL4, ribosomal protein L3; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_C 4a1c_C 4a1e_C
Length = 410
Score = 24.0 bits (51), Expect = 8.4
Identities = 5/24 (20%), Positives = 10/24 (41%)
Query: 25 RLNDYALTIRLLEMVQEKCGKKKK 48
+LN A ++ + K K+
Sbjct: 332 KLNPAAKIVKEQAKKAAEASKAKR 355
>2h3g_X Biosynthetic protein; pantothenate kinase, anthrax, type III
pantothenate kinase, COAX, COAA, askha; 2.00A {Bacillus
anthracis str}
Length = 268
Score = 23.8 bits (52), Expect = 9.3
Identities = 10/47 (21%), Positives = 18/47 (38%), Gaps = 5/47 (10%)
Query: 30 ALTIRLLEMVQEKCGKKKKVIWPYILGEIRPTLTELGIETPEDLGYD 76
+ L M ++ K P ++G T + E P ++G D
Sbjct: 68 PIMFALERMCEKYFKIK-----PLVVGPGIKTGLNIKYENPREVGAD 109
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 0.140 0.429
Gapped
Lambda K H
0.267 0.0485 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,510,204
Number of extensions: 81278
Number of successful extensions: 301
Number of sequences better than 10.0: 1
Number of HSP's gapped: 299
Number of HSP's successfully gapped: 25
Length of query: 89
Length of database: 6,701,793
Length adjustment: 57
Effective length of query: 32
Effective length of database: 5,110,296
Effective search space: 163529472
Effective search space used: 163529472
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 (24.0 bits)