RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13543
(184 letters)
>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 = 95.4 bits (236), Expect = 3e-23
Identities = 28/88 (31%), Positives = 42/88 (47%), Gaps = 5/88 (5%)
Query: 98 TIPEPTRCLHSSWGTNPHFRGSYSCRSLTT-----ERLNTSAADLGAPVSNGQGKPVLLF 152
+P+P + S W +P RGSYS + + + + + Q P L F
Sbjct: 739 AVPQPKETVVSRWRADPWARGSYSYVAAGSSGNDYDLMAQPITPGPSIPGAPQPIPRLFF 798
Query: 153 AGEATSEHQYSTVNGAVETGWREADRIL 180
AGE T + +TV+GA+ +G REA RI
Sbjct: 799 AGEHTIRNYPATVHGALLSGLREAGRIA 826
>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 = 94.2 bits (233), Expect = 5e-23
Identities = 28/91 (30%), Positives = 42/91 (46%), Gaps = 5/91 (5%)
Query: 95 PKVTIPEPTRCLHSSWGTNPHFRGSYSCRSLTT-----ERLNTSAADLGAPVSNGQGKPV 149
+P+P + S W +P RGSYS + + + + + Q P
Sbjct: 565 GSSAVPQPKETVVSRWRADPWARGSYSYVAAGSSGNDYDLMAQPITPGPSIPGAPQPIPR 624
Query: 150 LLFAGEATSEHQYSTVNGAVETGWREADRIL 180
L FAGE T + +TV+GA+ +G REA RI
Sbjct: 625 LFFAGEHTIRNYPATVHGALLSGLREAGRIA 655
>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 = 90.2 bits (224), Expect = 1e-21
Identities = 27/88 (30%), Positives = 35/88 (39%), Gaps = 9/88 (10%)
Query: 93 HGPKVTIPEPTRCLHSSWGTNPHFRGSYSCRSLTTERLNTSAADLGAPVSNGQGKPVLLF 152
GPK EP S WG+ RG Y+ S L+ AD PV + F
Sbjct: 370 LGPKA--EEPVVYYESDWGSEEWTRGCYAA-SFDLGGLHRYGADSRTPVGP------IHF 420
Query: 153 AGEATSEHQYSTVNGAVETGWREADRIL 180
+ + Y V+GAV G R A I+
Sbjct: 421 SCSDIAAEGYQHVDGAVRMGQRTAADII 448
>1b37_A Protein (polyamine oxidase); flavin-dependent amine oxidase,
oxidoreductase; HET: NAG FCA MAN FAD; 1.90A {Zea mays}
SCOP: c.3.1.2 d.16.1.5 PDB: 1b5q_A* 1h81_A* 1h82_A*
1h83_A* 1h84_A* 1h86_A* 3kpf_A* 3ku9_A* 3l1r_A*
Length = 472
Score = 88.4 bits (219), Expect = 4e-21
Identities = 23/88 (26%), Positives = 37/88 (42%), Gaps = 8/88 (9%)
Query: 95 PKVTIPEPTRCLHSSWGTNPHFRGSYSCRSLTTERLNTSAADLGAPVSNGQGKPVLLFAG 154
P +P+ T L W ++ ++G++S L APV + F G
Sbjct: 378 PGKDVPDATDILVPRWWSDRFYKGTFSNWP--VGVNRYEYDQLRAPVGR------VYFTG 429
Query: 155 EATSEHQYSTVNGAVETGWREADRILTL 182
E TSEH V+GA +G A+ ++
Sbjct: 430 EHTSEHYNGYVHGAYLSGIDSAEILINC 457
>1rsg_A FMS1 protein; FAD binding motif, oxidoreductase; HET: FAD; 1.90A
{Saccharomyces cerevisiae} PDB: 1z6l_A* 3bi2_A* 3bi4_A*
3bi5_A* 3bnm_B* 3bnu_B* 3cn8_B* 3cnd_B* 3cnp_B* 3cns_A*
3cnt_B* 1yy5_A* 1xpq_A*
Length = 516
Score = 87.9 bits (217), Expect = 7e-21
Identities = 24/85 (28%), Positives = 34/85 (40%), Gaps = 6/85 (7%)
Query: 98 TIPEPTRCLHSSWGTNPHFRGSYSCRSLTTERLNTSAADLGAPVSNGQGKPVLLFAGEAT 157
P + S+W +P+ RG+YS + ++ A + FAGE T
Sbjct: 428 NKPVLRNIIVSNWTRDPYSRGAYSACFPGDDPVDMVVAMSNGQD------SRIRFAGEHT 481
Query: 158 SEHQYSTVNGAVETGWREADRILTL 182
GA E+G REA RI L
Sbjct: 482 IMDGAGCAYGAWESGRREATRISDL 506
>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 = 84.5 bits (209), Expect = 1e-19
Identities = 23/86 (26%), Positives = 30/86 (34%), Gaps = 7/86 (8%)
Query: 95 PKVTIPEPTRCLHSSWGTNPHFRGSYSCRSLTTERLNTSAADLGAPVSNGQGKPVLLFAG 154
+ EP +W + G Y+ L L PV + FAG
Sbjct: 373 GSLEALEPVHYEEKNWCEEQYSGGCYTT-YFPPGILTQYGRVLRQPVDR------IYFAG 425
Query: 155 EATSEHQYSTVNGAVETGWREADRIL 180
T+ H + GAVE G R A IL
Sbjct: 426 TETATHWSGYMEGAVEAGERAAREIL 451
>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 = 79.6 bits (196), Expect = 6e-18
Identities = 14/82 (17%), Positives = 29/82 (35%), Gaps = 8/82 (9%)
Query: 99 IPEPTRCLHSSWGTNPHFRGSYSCRSLTTERLNTSAADLGAPVSNGQGKPVLLFAGEATS 158
R + +W + +G++ ++ L ++FA +
Sbjct: 409 TFGVKRLVFHNWVKDEFAKGAWFF--SRPGMVSECLQGLREKHGG------VVFANSDWA 460
Query: 159 EHQYSTVNGAVETGWREADRIL 180
S ++GA+E G R A +L
Sbjct: 461 LGWRSFIDGAIEEGTRAARVVL 482
>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 = 74.1 bits (182), Expect = 4e-16
Identities = 19/94 (20%), Positives = 32/94 (34%), Gaps = 11/94 (11%)
Query: 87 EAQADNHGPKVTIPEPTRCLHSSWGTNPHFRGSYSCRSLTTERLNTSAADLGAPVSNGQG 146
+ + P+V E + W +P F G + + + +LG P
Sbjct: 341 KDAVLYYLPEV---EVLGIDYHDWIADPLFEGPWVA--PRVGQFSRVHKELGEPAGR--- 392
Query: 147 KPVLLFAGEATSEHQYSTVNGAVETGWREADRIL 180
+ F G S + GA+ET + IL
Sbjct: 393 ---IHFVGSDVSLEFPGYIEGALETAECAVNAIL 423
>2jae_A L-amino acid oxidase; oxidoreductase, dimerisation mode, hydride
transfer mechanism, GR2-family, flavoenzyme, FAD
containing; HET: FAD; 1.25A {Rhodococcus opacus} PDB:
2jb1_A* 2jb2_A* 2jb3_A*
Length = 489
Score = 64.9 bits (158), Expect = 7e-13
Identities = 15/92 (16%), Positives = 27/92 (29%), Gaps = 12/92 (13%)
Query: 93 HGPKVTIPEPTRCLHSSWGTNPHFRGSYSC----RSLTTERLNTSAADLGAPVSNGQGKP 148
HG K + + SW + +++ L PV
Sbjct: 399 HGEKY-TRDISSSFSGSWRRTKYSESAWANWAGSGGSHGGAATPEYEKLLEPVDK----- 452
Query: 149 VLLFAGEATSEHQYSTVNGAVETGWREADRIL 180
+ FAG+ S + +GA+ + I
Sbjct: 453 -IYFAGDHLSNA-IAWQHGALTSARDVVTHIH 482
>2iid_A L-amino-acid oxidase; flavoenzyme, FAD binding domain, reaction
mechanism, sustrat binding, oxidoreductase; HET: NAG FUC
PHE FAD; 1.80A {Calloselasma rhodostoma} SCOP: c.3.1.2
d.16.1.5 PDB: 1f8s_A* 1f8r_A* 1reo_A* 1tdk_A* 1tdn_A*
1tdo_A* 3kve_A* 4e0v_A*
Length = 498
Score = 57.6 bits (139), Expect = 2e-10
Identities = 13/81 (16%), Positives = 29/81 (35%), Gaps = 9/81 (11%)
Query: 100 PEPTRCLHSSWGTNPHFRGSYSCRSLTTERLNTSAADLGAPVSNGQGKPVLLFAGEATSE 159
+ W + + G + T + + L A + FAGE T++
Sbjct: 410 SFCYPSVIQKWSLDKYAMGGITT--FTPYQFQHFSDPLTASQGR------IYFAGEYTAQ 461
Query: 160 HQYSTVNGAVETGWREADRIL 180
+ ++ +++G R A +
Sbjct: 462 A-HGWIDSTIKSGLRAARDVN 481
>2e1m_C L-glutamate oxidase; L-amino acid oxidase, FAD, L-GOX, flavo
oxidoreductase; HET: FAD; 2.80A {Streptomyces SP}
Length = 181
Score = 54.1 bits (130), Expect = 1e-09
Identities = 22/94 (23%), Positives = 36/94 (38%), Gaps = 9/94 (9%)
Query: 87 EAQADNHGPKVTIPEPTRCLHSSWGTNPHFRGSYSCRSLTTERLNTSAADLGAPVSNGQG 146
E HG ++ + SW +P+ G + T ++ D+ P
Sbjct: 65 ENLQSVHGRRIEVFYTGAGQTQSWLRDPYACGEAAV--YTPHQMTAFHLDVVRPEGP--- 119
Query: 147 KPVLLFAGEATSEHQYSTVNGAVETGWREADRIL 180
+ FAGE S ++ + GAVET R A +
Sbjct: 120 ---VYFAGEHVSLK-HAWIEGAVETAVRAAIAVN 149
>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 = 32.7 bits (74), Expect = 0.064
Identities = 28/168 (16%), Positives = 47/168 (27%), Gaps = 74/168 (44%)
Query: 55 RNLSKSG-QNTAKRSN-HL-----------N--QTFCVA----SL----SHLRTGEAQA- 90
NL++ Q+ ++N HL N + V+ SL LR +A +
Sbjct: 342 SNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSG 401
Query: 91 -DNH-------GPK-------VTIPEPTRCLHSSWGTNPHFRGSYS--CRSLTTERLNTS 133
D K V P HS + + L ++ +
Sbjct: 402 LDQSRIPFSERKLKFSNRFLPVASP-----FHS-----HLLVPASDLINKDLVKNNVSFN 451
Query: 134 AADLGAPVSNGQGKPVLLFAGEATSEHQYSTVNGAVETGWREADRILT 181
A D+ PV Y T +G+ R ++
Sbjct: 452 AKDIQIPV--------------------YDTFDGSD---LRVLSGSIS 476
Score = 28.9 bits (64), Expect = 1.2
Identities = 12/59 (20%), Positives = 21/59 (35%), Gaps = 16/59 (27%)
Query: 120 YSCRSLT---TERLNTSAADLGAPVSNGQGKPVLLFAGEATSEHQYSTVNGAVETGWRE 175
+ R + ++ + SA L V G + V +F G Q G + + E
Sbjct: 127 ITARIMAKRPFDKKSNSA--LFRAVGEGNAQLVAIFGG------Q-----GNTDDYFEE 172
>4ubp_A Protein (urease (chain A)); bacillus pasteurii, nickel,
acetohydroxamic acid, metalloenzyme, hydrolase; HET:
KCX; 1.55A {Sporosarcina pasteurii} SCOP: d.8.1.1 PDB:
3ubp_A* 2ubp_A* 1ubp_A* 1s3t_A* 1ie7_A* 1ejx_A* 1a5l_A
1a5k_A 1a5n_A 1a5o_A 1ef2_C* 1ejr_A* 1ejs_A* 1ejt_A*
1eju_A* 1ejv_A* 1a5m_A* 1ejw_A* 1fwa_A* 1fwb_A* ...
Length = 101
Score = 27.9 bits (62), Expect = 0.92
Identities = 9/27 (33%), Positives = 12/27 (44%)
Query: 34 EKHKLIIVGAGAIAENRQKNGRNLSKS 60
EK KL I A + R+ G L+
Sbjct: 8 EKEKLQIFLASELLLRRKARGLKLNYP 34
>3ha2_A NADPH-quinone reductase; structural genomics, PSI-2, protein
structure initiative, no structural genomics,
consortium, NESG; HET: MSE; 1.80A {Pediococcus
pentosaceus atcc 25745}
Length = 177
Score = 26.3 bits (58), Expect = 4.5
Identities = 9/45 (20%), Positives = 11/45 (24%), Gaps = 4/45 (8%)
Query: 12 VDYVWWKHLMYGGGGGGGGDAPEKHKLIIVGAGAIAENRQKNGRN 56
+D V G G K I+V G Q
Sbjct: 74 MDTVMTTKFATGHQYALEG----KELGIVVSTGDNGNAFQAGAAE 114
>2ecv_A Tripartite motif-containing protein 5; metal binding protein,
structural genomics, NPPSFA; NMR {Homo sapiens}
Length = 85
Score = 25.3 bits (56), Expect = 5.4
Identities = 5/18 (27%), Positives = 9/18 (50%)
Query: 105 CLHSSWGTNPHFRGSYSC 122
CL ++ + +G SC
Sbjct: 45 CLTANHKKSMLDKGESSC 62
>2ecw_A Tripartite motif-containing protein 30; metal binding protein,
structural genomics, NPPSFA; NMR {Mus musculus}
Length = 85
Score = 25.0 bits (55), Expect = 6.7
Identities = 4/18 (22%), Positives = 10/18 (55%)
Query: 105 CLHSSWGTNPHFRGSYSC 122
C+ ++ +N + G +C
Sbjct: 45 CITLNYESNRNTDGKGNC 62
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
0.314 0.131 0.408
Gapped
Lambda K H
0.267 0.0626 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,797,486
Number of extensions: 153163
Number of successful extensions: 428
Number of sequences better than 10.0: 1
Number of HSP's gapped: 412
Number of HSP's successfully gapped: 22
Length of query: 184
Length of database: 6,701,793
Length adjustment: 88
Effective length of query: 96
Effective length of database: 4,244,745
Effective search space: 407495520
Effective search space used: 407495520
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: 42 (22.0 bits)
S2: 54 (24.8 bits)