RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy8808
(152 letters)
>3nt1_A Prostaglandin-endoperoxide synthase 2; prostaglandin H2 synthase,
cyclooxygenase-2, naproxen, oxido; HET: NAG BOG NPS HEM;
1.73A {Mus musculus} PDB: 3ln1_A* 3mqe_A* 3ln0_A*
3ntb_A* 3q7d_A* 1pxx_A* 3pgh_A* 1cx2_A* 4cox_A* 5cox_A*
6cox_A* 3qh0_A* 3qmo_A* 4e1g_A* 3olu_A* 3olt_A* 3hs5_A*
3hs6_A* 3hs7_A* 3krk_A* ...
Length = 587
Score = 80.5 bits (198), Expect = 1e-18
Identities = 19/65 (29%), Positives = 31/65 (47%)
Query: 30 NPGYTPAEQMIQVKHNRIATVLGHLNPHWDDETLYQEARKILIAEYSHINYYEWLPIVVV 89
PG + +HNR+ +L +P W DE L+Q +R ILI E I +++ +
Sbjct: 264 VPGLMMYATIWLREHNRVCDILKQEHPEWGDEQLFQTSRLILIGETIKIVIEDYVQHLSG 323
Query: 90 THWMD 94
H+
Sbjct: 324 YHFKL 328
Score = 60.5 bits (146), Expect = 1e-11
Identities = 14/66 (21%), Positives = 25/66 (37%), Gaps = 2/66 (3%)
Query: 89 VTHWMDASLVYGSDDELAAKLREFNGGRLAVEFRDGRPWPPAAANKSAVC--DSKNDALP 146
+ H +D + +YG + KLR F G+L + G +PP +
Sbjct: 193 LGHGVDLNHIYGETLDRQHKLRLFKDGKLKYQVIGGEVYPPTVKDTQVEMIYPPHIPENL 252
Query: 147 CYQFGK 152
+ G+
Sbjct: 253 QFAVGQ 258
>1d2v_C Myeloperoxidase; heme-protein, oxidoreductase, peroxidase-bromide;
HET: NAG BMA MAN FUC HEM; 1.75A {Homo sapiens} SCOP:
a.93.1.2 PDB: 1cxp_C* 1d5l_C* 1d7w_C* 1dnu_C* 1dnw_C*
1mhl_C* 1myp_C* 4dl1_C* 3zs0_C* 3f9p_C* 3zs1_C*
Length = 466
Score = 78.7 bits (193), Expect = 4e-18
Identities = 30/71 (42%), Positives = 39/71 (54%)
Query: 23 TDIDQGCNPGYTPAEQMIQVKHNRIATVLGHLNPHWDDETLYQEARKILIAEYSHINYYE 82
D P T ++ +HNR+AT L LNP WD E LYQEARKI+ A I Y +
Sbjct: 124 GDTRSSEMPELTSMHTLLLREHNRLATELKSLNPRWDGERLYQEARKIVGAMVQIITYRD 183
Query: 83 WLPIVVVTHWM 93
+LP+V+ M
Sbjct: 184 YLPLVLGPTAM 194
Score = 63.3 bits (153), Expect = 1e-12
Identities = 27/154 (17%), Positives = 41/154 (26%), Gaps = 56/154 (36%)
Query: 2 PDDDPVYSKFRQVCMNFVRSTTDIDQGCNPGYTPAEQMIQVKHNRIATVLGHLNPHWDDE 61
P +DP + C+ F RS T Q+ +
Sbjct: 19 PPNDPRIK-NQADCIPFFRSCPACPGS---NITIRNQINAL------------------- 55
Query: 62 TLYQEARKILIAEYSHINYYEWLPIVVVTHWMDASLVYGSDDELAAKLREFNGGRLAVEF 121
T ++DAS+VYGS++ LA LR + +
Sbjct: 56 ----------------------------TSFVDASMVYGSEEPLARNLRNMSNQLGLLAV 87
Query: 122 -----RDGRPWPPAAANKSAVCDSKNDALPCYQF 150
+GR P C N + F
Sbjct: 88 NQRFQDNGRALLPFDNLHDDPCLLTNRSARIPCF 121
>3q9k_A Lactoperoxidase, LPO; bovine lactoperoxidase, oxidoreductase,
phenyl isothiocyanat iodide, PEG, edman reagent; HET:
SEP HEM NAG; 1.70A {Bos taurus} PDB: 2ips_A* 2nqx_A*
2pum_A* 2qpk_A* 2qqt_A* 2qrb_A* 2pt3_A* 3eri_A* 3gc1_A*
3gcj_A* 3gck_A* 3gcl_A* 3i6n_A* 3bxi_A* 3krq_A* 3ogw_A*
3py4_A* 3nyh_A* 3ql6_A* 3r4x_A* ...
Length = 595
Score = 78.9 bits (193), Expect = 4e-18
Identities = 28/93 (30%), Positives = 38/93 (40%)
Query: 2 PDDDPVYSKFRQVCMNFVRSTTDIDQGCNPGYTPAEQMIQVKHNRIATVLGHLNPHWDDE 61
D A ++ +HNR+A L LNPHW+ E
Sbjct: 231 NKKPSPCEFINTTARVPCFLAGDFRASEQILLATAHTLLLREHNRLARELKKLNPHWNGE 290
Query: 62 TLYQEARKILIAEYSHINYYEWLPIVVVTHWMD 94
LYQEARKIL A I + ++LPIV+ +
Sbjct: 291 KLYQEARKILGAFIQIITFRDYLPIVLGSEMQK 323
Score = 46.1 bits (108), Expect = 9e-07
Identities = 29/156 (18%), Positives = 43/156 (27%), Gaps = 54/156 (34%)
Query: 1 MPDDDPVYSKFRQVCMNFVRSTTDIDQGCNPGYTPAEQMIQVKHNRIATVLGHLNPHWDD 60
P +DP + CM F R+ EQ+ V
Sbjct: 144 FPKNDPKLKTQGK-CMPFFRAGFVCPTPPYQS-LAREQINAV------------------ 183
Query: 61 ETLYQEARKILIAEYSHINYYEWLPIVVVTHWMDASLVYGSDDELAAKLREFNGGRL--- 117
T ++DASLVYGS+ LA++LR +
Sbjct: 184 -----------------------------TSFLDASLVYGSEPSLASRLRNLSSPLGLMA 214
Query: 118 --AVEFRDGRPWPPAAANKSAVCDSKNDALPCYQFG 151
+ G + P K + C+ N F
Sbjct: 215 VNQEAWDHGLAYLPFNNKKPSPCEFINTTARVPCFL 250
>1q4g_A Prostaglandin G/H synthase 1; cyclooxygenase, non-steroidal
anti-inflammatory drug, peroxi prostaglandin synthase,
EGF-like domain; HET: BOG NAG NDG BMA MAN BFL HEM; 2.00A
{Ovis aries} SCOP: a.93.1.2 g.3.11.1 PDB: 1diy_A*
2ayl_A* 3kk6_A* 3n8v_A* 3n8w_A* 3n8x_A* 3n8y_A* 3n8z_A*
2oyu_P* 2oye_P* 1eqg_A* 1cqe_A* 1eqh_A* 1igz_A* 1igx_A*
1fe2_A* 1pge_A* 1pgf_A* 1pgg_A* 3n8w_B* ...
Length = 553
Score = 77.4 bits (190), Expect = 1e-17
Identities = 23/78 (29%), Positives = 36/78 (46%), Gaps = 3/78 (3%)
Query: 30 NPGYTPAEQMIQVKHNRIATVLGHLNPHWDDETLYQEARKILIAEYSHINYYEWLPIVVV 89
PG + +HNR+ +L +P W DE L+Q AR ILI E I E++ +
Sbjct: 264 LPGLMLYATIWLREHNRVCDLLKAEHPTWGDEQLFQTARLILIGETIKIVIEEYVQQLSG 323
Query: 90 THWM---DASLVYGSDDE 104
D L++G+ +
Sbjct: 324 YFLQLKFDPELLFGAQFQ 341
Score = 62.0 bits (150), Expect = 3e-12
Identities = 15/62 (24%), Positives = 26/62 (41%)
Query: 89 VTHWMDASLVYGSDDELAAKLREFNGGRLAVEFRDGRPWPPAAANKSAVCDSKNDALPCY 148
+ H +D +YG + E +LR F G+L + +G +PP+ + P
Sbjct: 193 LGHGVDLGHIYGDNLERQYQLRLFKDGKLKYQMLNGEVYPPSVEEAPVLMHYPRGIPPQS 252
Query: 149 QF 150
Q
Sbjct: 253 QM 254
>1vt4_I APAF-1 related killer DARK; drosophila apoptosome, apoptosis,
programmed cell death; HET: DTP; 6.90A {Drosophila
melanogaster} PDB: 3iz8_A*
Length = 1221
Score = 33.7 bits (76), Expect = 0.017
Identities = 17/112 (15%), Positives = 33/112 (29%), Gaps = 27/112 (24%)
Query: 30 NPGYTPAEQMIQVKHNRIATVLGHLNPHWDDETLYQEARKI------LIAEY-----SHI 78
+ TP E + + L + L +E +IAE +
Sbjct: 295 SMTLTPDEVK-----SLLLKYLDC-----RPQDLPREVLTTNPRRLSIIAESIRDGLATW 344
Query: 79 NYYEWLPIVVVTHWMDASLVYGSDDELAAKLREFNGGRLAVEFRDGRPWPPA 130
+ ++ + +T +++SL E L+V F P
Sbjct: 345 DNWKHVNCDKLTTIIESSLNVLEPAEYRKMFDR-----LSV-FPPSAHIPTI 390
Score = 32.5 bits (73), Expect = 0.040
Identities = 12/69 (17%), Positives = 26/69 (37%), Gaps = 17/69 (24%)
Query: 3 DDDPVYSKFRQVCMNFVRSTTDIDQGCNPGYTPAEQMIQVKHNRIATVLGHLNPHWDDET 62
D+DP Y + ++F+ E +I K+ + + + E
Sbjct: 536 DNDPKYERLVNAILDFLPK-------------IEENLICSKYTDLLR-IALMAED---EA 578
Query: 63 LYQEARKIL 71
+++EA K +
Sbjct: 579 IFEEAHKQV 587
Score = 27.5 bits (60), Expect = 2.2
Identities = 19/121 (15%), Positives = 31/121 (25%), Gaps = 42/121 (34%)
Query: 35 PAEQMIQVKHNRIATVLGHLNPH----WDDETLYQEARKILIAEYSHINYYEWLPIVVVT 90
E + H I + H N DD + YSHI +
Sbjct: 438 KLENEYAL-HRSI---VDHYNIPKTFDSDDLIPPYLDQYF----YSHIGH---------- 479
Query: 91 HWMDA---------SLVYGSDDELAAKLREFNGGRLAVEFRDGRPWPPAAANKSAVCDSK 141
H + +V+ L K+R D W + + + + K
Sbjct: 480 HLKNIEHPERMTLFRMVFLDFRFLEQKIR-----------HDSTAWNASGSILNTLQQLK 528
Query: 142 N 142
Sbjct: 529 F 529
>3cgg_A SAM-dependent methyltransferase; NP_600671.1, methyltransferase
domain, structural genomics; HET: NHE CIT; 2.00A
{Corynebacterium glutamicum atcc 13032}
Length = 195
Score = 31.7 bits (72), Expect = 0.052
Identities = 8/44 (18%), Positives = 14/44 (31%), Gaps = 5/44 (11%)
Query: 93 MDASLVYGSDDELAAKLREFN-----GGRLAVEFRDGRPWPPAA 131
+ + ++D L + GR + F GR W
Sbjct: 114 AGNVMGFLAEDGREPALANIHRALGADGRAVIGFGAGRGWVFGD 157
>2zzd_B Thiocyanate hydrolase subunit beta; scnase, cobalt, metalloprotein,
sulfenic acid, sulfinic acid, nitrIle hydratase,
carbonyl sulfide; HET: FRU TLA BGC; 1.78A {Thiobacillus
thioparus} PDB: 2dd4_B 2dxb_B 2dd5_B* 2dxc_B*
Length = 157
Score = 29.7 bits (66), Expect = 0.29
Identities = 19/86 (22%), Positives = 29/86 (33%), Gaps = 5/86 (5%)
Query: 47 IATVLGHLNPHWDDETLYQEARKILIAEYSHINYYE-WLPIVVVTHWMDASLVYGSDDEL 105
L +E ++ + Y + YY WL + +D V + EL
Sbjct: 75 TCECLAWRGVWTAEERRRKQNCDVGQTVYLGMPYYGRWL-LTAARILVDKQFV--TLTEL 131
Query: 106 AAKLREFNGGRLAVEFRDGRPWPPAA 131
K+ E R+A G PP A
Sbjct: 132 HNKIVEMR-ERVASGQGLGEYLPPKA 156
>2ex3_B Protein GP3, DNA terminal protein; DNA polymerase: protein primer
complex, transferase-replicat complex; HET: DNA; 3.00A
{Bacillus phage PHI29} SCOP: a.263.1.1
Length = 230
Score = 29.4 bits (65), Expect = 0.39
Identities = 22/96 (22%), Positives = 39/96 (40%), Gaps = 15/96 (15%)
Query: 2 PDDDPVYSKFRQVCMNFVRSTTDID-------QGCNPGYTPAEQMIQVKHNRIATVLGHL 54
P ++ + VRS + + +P Y ++MIQ++ N I +V G
Sbjct: 100 PAHVTGINRPHDFDFSKVRSYSRLRTLEESMEMRTDPQYY-EKKMIQLQLNFIKSVEGSF 158
Query: 55 NPHWDDETLYQEARKI-------LIAEYSHINYYEW 83
N + L +E +KI L S I++ E+
Sbjct: 159 NSFDAADELIEELKKIPPDDFYELFLRISEISFEEF 194
>1uqv_A STE50 protein; SAM, sterIle alpha motif, helical, protein-protein
interaction domain, growth arrest, signaling protein;
NMR {Saccharomyces cerevisiae} SCOP: a.60.1.2 PDB:
1z1v_A
Length = 85
Score = 26.6 bits (58), Expect = 1.5
Identities = 10/33 (30%), Positives = 17/33 (51%), Gaps = 1/33 (3%)
Query: 79 NYYEWLPIVVVTHWMDASLVYGSDDELAAKLRE 111
++ +W V+T W ++L D L +LRE
Sbjct: 8 DFSQWSVDDVIT-WCISTLEVEETDPLCQRLRE 39
>2aq6_A Pyridoxine 5'-phosphate oxidase; pyridoxal 5'-phosphate, STR
genomics, PSI, protein structure initiative, TB
structural consortium; HET: PLP; 1.70A {Mycobacterium
tuberculosis} SCOP: b.45.1.1 PDB: 1xxo_A 1y30_A* 1w9a_A*
Length = 147
Score = 26.5 bits (58), Expect = 2.6
Identities = 11/26 (42%), Positives = 14/26 (53%)
Query: 101 SDDELAAKLREFNGGRLAVEFRDGRP 126
DD+L A + + G LA DGRP
Sbjct: 6 FDDKLLAVISGNSIGVLATIKHDGRP 31
>2zzv_A ABC transporter, solute-binding protein; periplasmic substrate
binding protein, calcium, lactate, trap transporter,
transport protein; 1.40A {Thermus thermophilus} PDB:
2zzw_A 2zzx_A
Length = 361
Score = 26.6 bits (59), Expect = 3.4
Identities = 7/34 (20%), Positives = 16/34 (47%)
Query: 88 VVTHWMDASLVYGSDDELAAKLREFNGGRLAVEF 121
+ T W ++ Y + +++E G+L V+
Sbjct: 38 IQTAWDAGTVGYSLFQKFTERVKELTDGQLEVQP 71
>2e0z_A Virus-like particle; bacteriophage, HK97; 3.60A {Pyrococcus
furiosus}
Length = 345
Score = 26.2 bits (57), Expect = 4.6
Identities = 10/25 (40%), Positives = 13/25 (52%)
Query: 58 WDDETLYQEARKILIAEYSHINYYE 82
+ E L + R +IAE IN YE
Sbjct: 15 YTKEELMEILRLAIIAELDAINLYE 39
>1zkp_A Hypothetical protein BA1088; zinc binding protein, structural
genomics, PSI, protein STRU initiative; 1.50A {Bacillus
anthracis str} SCOP: d.157.1.9
Length = 268
Score = 26.1 bits (58), Expect = 4.7
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 5/35 (14%)
Query: 36 AEQMIQVKHNRIATVLGHLNPHWDDETLYQEARKI 70
A+ VK +L HL + L EA++I
Sbjct: 223 AKDA-NVKE----LLLTHLPHTGNPADLVTEAKQI 252
>1rfe_A Hypothetical protein RV2991; structural genomics, TB, FMN BIN PSI,
protein structure initiative, TB structural genomics
consortium; 2.00A {Mycobacterium tuberculosis} SCOP:
b.45.1.1
Length = 162
Score = 25.5 bits (56), Expect = 5.7
Identities = 9/27 (33%), Positives = 13/27 (48%)
Query: 101 SDDELAAKLREFNGGRLAVEFRDGRPW 127
S+ E+A + G LA DG+P
Sbjct: 11 SEAEIADFVNSSRTGTLATIGPDGQPH 37
>1vpy_A Protein (hypothetical protein EF0366); TIM alpha/beta barrel fold,
structural genomics, joint cente structural genomics,
JCSG; 2.52A {Enterococcus faecalis} SCOP: c.1.32.1 PDB:
1ztv_A
Length = 289
Score = 25.7 bits (56), Expect = 6.3
Identities = 8/40 (20%), Positives = 16/40 (40%), Gaps = 4/40 (10%)
Query: 99 YGSDDELAAKLREF----NGGRLAVEFRDGRPWPPAAANK 134
+G E A L++ +A+E R+ + P +
Sbjct: 125 FGCTKENVAYLQKIRHWFKDLPIAIELRNNSWYQPNFVKQ 164
>2rgh_A Alpha-glycerophosphate oxidase; flavoprotein oxidase,
oxidoreductase; HET: FAD; 2.30A {Streptococcus SP} PDB:
2rgo_A*
Length = 571
Score = 25.7 bits (57), Expect = 7.0
Identities = 12/54 (22%), Positives = 20/54 (37%), Gaps = 7/54 (12%)
Query: 71 LIAEYSHINYYEWLPIVVVTHWMDASLVYGSD----DELAAKLREFNGGRLAVE 120
+ E + L T+ D YG++ ELA ++ + G LA
Sbjct: 443 TVTELAKEGVAAGLEEEDATYIADF---YGTNARRIFELAKEMAPYPGLSLAES 493
>4eis_A Polysaccharide monooxygenase-3; GH61, PMO, cellulase, biofuels,
CBM33, copper monooxygenase, peroxide, superoxide,
CBP21, beta-sandwich fold; HET: HIC DAH NAG; 1.37A
{Neurospora crassa} PDB: 4eis_B*
Length = 225
Score = 25.4 bits (55), Expect = 9.6
Identities = 8/41 (19%), Positives = 12/41 (29%)
Query: 17 NFVRSTTDIDQGCNPGYTPAEQMIQVKHNRIATVLGHLNPH 57
V T + CN PA+ T+ + P
Sbjct: 40 GPVEDVTSLAIQCNADSAPAKLHASAAAGSTVTLRWTIWPD 80
>3f7e_A Pyridoxamine 5'-phosphate oxidase-related, FMN- binding; F420
dependent reductase, unknown function; HET: MSE; 1.23A
{Mycobacterium smegmatis}
Length = 131
Score = 24.8 bits (54), Expect = 9.8
Identities = 7/27 (25%), Positives = 9/27 (33%)
Query: 101 SDDELAAKLREFNGGRLAVEFRDGRPW 127
+ + L G LA DG P
Sbjct: 4 VPEGYESLLERPLYGHLATVRPDGTPQ 30
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
0.320 0.136 0.442
Gapped
Lambda K H
0.267 0.0547 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,567,356
Number of extensions: 148798
Number of successful extensions: 414
Number of sequences better than 10.0: 1
Number of HSP's gapped: 411
Number of HSP's successfully gapped: 33
Length of query: 152
Length of database: 6,701,793
Length adjustment: 85
Effective length of query: 67
Effective length of database: 4,328,508
Effective search space: 290010036
Effective search space used: 290010036
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 (21.8 bits)
S2: 53 (24.6 bits)