RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy521
(173 letters)
>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 = 38.3 bits (88), Expect = 7e-04
Identities = 29/162 (17%), Positives = 55/162 (33%), Gaps = 51/162 (31%)
Query: 6 SKKKVYMLFDLEPDRSLTGGTWYQDQDFEASKK--------KVYMLFDLEPDRSLTGGTW 57
K+ + + + + + ++ + K + DL P +
Sbjct: 421 PKESTISIPSIYLELKVK-----LENEYALHRSIVDHYNIPKTFDSDDLIPPY--LDQYF 473
Query: 58 YQ---------DQD-----FEVEFVDVLNQQCYRFLQLK--REKTANNTNGPLVA--QRL 99
Y + F + F+D +RFL+ K + TA N +G ++ Q+L
Sbjct: 474 YSHIGHHLKNIEHPERMTLFRMVFLD------FRFLEQKIRHDSTAWNASGSILNTLQQL 527
Query: 100 ACATPKEVRKFITDLGISKVELSEEDIRTILETLLFDGKIEQ 141
K + +I D E + IL+ F KIE+
Sbjct: 528 -----KFYKPYICD----NDPKYERLVNAILD---FLPKIEE 557
Score = 32.9 bits (74), Expect = 0.051
Identities = 9/71 (12%), Positives = 23/71 (32%), Gaps = 19/71 (26%)
Query: 77 RFLQLKREKTANNTNGPLVAQRLACATPKEVRKFITDLGI--------SKV------ELS 122
+ + +K ++ L P E RK L + + + ++
Sbjct: 346 NWKHVNCDKLTT-----IIESSLNVLEPAEYRKMFDRLSVFPPSAHIPTILLSLIWFDVI 400
Query: 123 EEDIRTILETL 133
+ D+ ++ L
Sbjct: 401 KSDVMVVVNKL 411
Score = 29.4 bits (65), Expect = 0.60
Identities = 19/137 (13%), Positives = 41/137 (29%), Gaps = 35/137 (25%)
Query: 1 MSEIASKKKVYMLFDLEPDRSLTGGTWYQDQDFEASKKKVYMLFDLEPDRSLTGGTWYQD 60
I SK+++ + D LF Q+
Sbjct: 42 PKSILSKEEIDHIIM-SKDA----------------VSGTLRLFWTLLS--------KQE 76
Query: 61 QDFEVEFVDVLNQQCYRFLQLKREKTANNTNGPLVAQRL--ACATP--KEVRKFITDLGI 116
+ + +FV+ + + Y+FL P + R+ + + F +
Sbjct: 77 EMVQ-KFVEEVLRINYKFLM---SPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF-AKYNV 131
Query: 117 SKVELSEEDIRTILETL 133
S+++ + +R L L
Sbjct: 132 SRLQPYLK-LRQALLEL 147
>2dk5_A DNA-directed RNA polymerase III 39 kDa polypeptide; structural
genomics, winged helix domain, NPPSFA; NMR {Homo
sapiens} SCOP: a.4.5.85
Length = 91
Score = 35.6 bits (82), Expect = 0.001
Identities = 11/20 (55%), Positives = 13/20 (65%)
Query: 32 DFEASKKKVYMLFDLEPDRS 51
ASKKKVYML++L S
Sbjct: 71 SVAASKKKVYMLYNLSGPSS 90
Score = 34.4 bits (79), Expect = 0.003
Identities = 11/17 (64%), Positives = 13/17 (76%)
Query: 5 ASKKKVYMLFDLEPDRS 21
ASKKKVYML++L S
Sbjct: 74 ASKKKVYMLYNLSGPSS 90
>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 = 30.4 bits (68), Expect = 0.37
Identities = 36/222 (16%), Positives = 67/222 (30%), Gaps = 89/222 (40%)
Query: 5 ASKKKVYMLFDLEPDRSLTGG-----TWYQD-QD-FEASKKKVYMLFD-----LEPDRSL 52
++ +F GG ++++ +D ++ V L L
Sbjct: 151 EGNAQLVAIF---------GGQGNTDDYFEELRDLYQTYHVLVGDLIKFSAETLSELIR- 200
Query: 53 TGGTWYQDQDFEVEFVDVLNQQCYRFLQ-LKREKTANNTN--------GPL--------- 94
D E F LN L+ L+ + + PL
Sbjct: 201 ------TTLDAEKVFTQGLN-----ILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHY 249
Query: 95 -VAQRLACATPKEVRKF-----------ITDLGISKVELSEED----IRTILETLLFDG- 137
V +L TP E+R + +T + I++ + S E +R + L F G
Sbjct: 250 VVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETD-SWESFFVSVRKAITVLFFIGV 308
Query: 138 -------------KIEQ--INNIDGTDMYRAVSPYFAVTGLS 164
I + + N +G SP +++ L+
Sbjct: 309 RCYEAYPNTSLPPSILEDSLENNEGVP-----SPMLSISNLT 345
Score = 29.2 bits (65), Expect = 0.69
Identities = 25/144 (17%), Positives = 40/144 (27%), Gaps = 40/144 (27%)
Query: 50 RSLT---GGTWYQDQDFEVEFVDVLNQQCYRFLQLKREKTAN---NTNGP---------- 93
R LT G E V + QL+ + T G
Sbjct: 7 RPLTLSHG-------SLEHVL-LVPTASFFIASQLQEQFNKILPEPTEGFAADDEPTTPA 58
Query: 94 -LVAQRLA-CAT---PKEVRKFITDLGISKVE-----LSEEDIRTILETLLFDGKIEQIN 143
LV + L ++ P +V +F L + E L DI + LL + +
Sbjct: 59 ELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVK 118
Query: 144 NIDGTDMYRAVSPYFAVTGLSTSP 167
+ Y ++ P
Sbjct: 119 T------KELIKNYITARIMAKRP 136
>1jub_A Dihydroorotate dehydrogenase A; homodimer, alpha-beta barrel,
flavoprotein, mutant enzyme, oxidoreductase; HET: FMN;
1.40A {Lactococcus lactis} SCOP: c.1.4.1 PDB: 1ovd_A*
1jue_A* 1dor_A* 2bsl_A* 2bx7_A* 2dor_A* 1jqv_A* 1jrb_A*
1jrc_A* 1jqx_A*
Length = 311
Score = 28.3 bits (64), Expect = 1.1
Identities = 11/48 (22%), Positives = 20/48 (41%), Gaps = 8/48 (16%)
Query: 86 TANNTNGPLVAQRLACATPKEVRKFITDLGISKVELSEEDIRTILETL 133
TA + GP + R+ KE+ + + G + D L++L
Sbjct: 272 TALHKEGPAIFDRII----KELEEIMNQKGYQSI----ADFHGKLKSL 311
>3oix_A Putative dihydroorotate dehydrogenase; dihydrooro oxidase; TIM
barrel, oxidoreductase; HET: MLY FMN; 2.40A
{Streptococcus mutans}
Length = 345
Score = 27.5 bits (61), Expect = 2.1
Identities = 13/48 (27%), Positives = 22/48 (45%), Gaps = 8/48 (16%)
Query: 86 TANNTNGPLVAQRLACATPKEVRKFITDLGISKVELSEEDIRTILETL 133
TA + GP + +R+ KE+ +T+ G + ED R L +
Sbjct: 305 TALHQEGPQIFKRIT----KELXAIMTEKGYETL----EDFRGKLNAM 344
>3m1a_A Putative dehydrogenase; short, PSI, MCSG, structural genomics,
midwest center for structural genomics, protein
structure initiative; 2.00A {Streptomyces avermitilis}
Length = 281
Score = 26.8 bits (60), Expect = 3.2
Identities = 13/68 (19%), Positives = 23/68 (33%), Gaps = 21/68 (30%)
Query: 120 ELSEEDIRTILETLLF-----------------DGKIEQINNIDGTDMYRAVSPY----F 158
E +E ++R + E +F G + I++ G + S Y
Sbjct: 97 ETTERELRDLFELHVFGPARLTRALLPQMRERGSGSVVNISSFGGQLSFAGFSAYSATKA 156
Query: 159 AVTGLSTS 166
A+ LS
Sbjct: 157 ALEQLSEG 164
>1cee_B Wiskott-aldrich syndrome protein WAsp; CDC42 actin regulator GTPase
and the GTPase binding domain of ITS effector WAsp; HET:
GCP; NMR {Homo sapiens}
Length = 59
Score = 25.2 bits (55), Expect = 3.4
Identities = 5/24 (20%), Positives = 13/24 (54%)
Query: 104 PKEVRKFITDLGISKVELSEEDIR 127
++R + GIS+ +L++ +
Sbjct: 35 DPDLRSLFSRAGISEAQLTDAETS 58
>2aus_C Pseudouridine synthase; isomerase, structural protein,
isomerase-structural protein; 2.10A {Pyrococcus abyssi}
PDB: 3lwr_A 3lwo_A* 3lwq_A* 3lwp_A 3lwv_A 3hax_A*
2hvy_A* 3hay_A* 2ey4_A 2rfk_A 3mqk_A 3hjw_A* 3hjy_A
Length = 334
Score = 26.9 bits (60), Expect = 3.5
Identities = 7/23 (30%), Positives = 15/23 (65%), Gaps = 2/23 (8%)
Query: 120 ELSEEDIRTILETLLFDGKIEQI 142
++ E+ IR +++ F+G+I Q
Sbjct: 119 DVPEDKIRAVMKE--FEGEIIQR 139
>3k9v_A 1,25-dihydroxyvitamin D(3) 24-hydroxylase, mitochondrial;
mitochondrial cytochrome P450, monotopic membrane
protein, monooxygenase; HET: HEM CPS; 2.50A {Rattus
norvegicus} PDB: 3k9y_A*
Length = 482
Score = 26.1 bits (58), Expect = 6.1
Identities = 7/44 (15%), Positives = 18/44 (40%), Gaps = 1/44 (2%)
Query: 94 LVAQRLACATPKEVRKFITDLGISKVELSEEDIRTILETLLFDG 137
+ RL + + F+ D+ + LS++++ + L
Sbjct: 253 CIDNRLQRYSQQPGADFLCDI-YQQDHLSKKELYAAVTELQLAA 295
>3ge6_A Nitroreductase; structural GENO joint center for structural
genomics, JCSG, protein structu initiative, PSI-2,
oxidoreductase; HET: FMN; 1.85A {Exiguobacterium
sibiricum 255-15}
Length = 212
Score = 25.7 bits (57), Expect = 7.2
Identities = 8/27 (29%), Positives = 16/27 (59%), Gaps = 5/27 (18%)
Query: 107 VRKFITDLGISKVELSEEDIRTILETL 133
+R + T+ V++S+E++ ILE
Sbjct: 20 IRNYDTN-----VKISKEEMTQILEEA 41
>3gbh_A NAD(P)H-flavin oxidoreductase; putative NAD(P)H:FMN oxidoreductase,
structural genomics, JO center for structural genomics;
HET: MSE FMN PGE; 2.00A {Staphylococcus epidermidis atcc
12228}
Length = 213
Score = 25.7 bits (57), Expect = 8.8
Identities = 4/27 (14%), Positives = 11/27 (40%), Gaps = 5/27 (18%)
Query: 107 VRKFITDLGISKVELSEEDIRTILETL 133
V+ F + ++ E++ I+
Sbjct: 21 VKVFDEN-----YKIPREEMDEIITKA 42
>3bem_A Putative NAD(P)H nitroreductase YDFN; 2632848, putative
nitroreductase YDFN, structural genomics, center for
structural genomics, JCSG; HET: MSE FMN; 1.65A {Bacillus
subtilis}
Length = 218
Score = 25.3 bits (56), Expect = 9.7
Identities = 4/27 (14%), Positives = 12/27 (44%), Gaps = 5/27 (18%)
Query: 107 VRKFITDLGISKVELSEEDIRTILETL 133
F++ +++ED+ + E +
Sbjct: 26 ASNFLSG-----HPITKEDLNEMFELV 47
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
0.318 0.136 0.401
Gapped
Lambda K H
0.267 0.0613 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,654,959
Number of extensions: 149770
Number of successful extensions: 523
Number of sequences better than 10.0: 1
Number of HSP's gapped: 521
Number of HSP's successfully gapped: 25
Length of query: 173
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 86
Effective length of database: 4,272,666
Effective search space: 367449276
Effective search space used: 367449276
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: 41 (21.7 bits)
S2: 54 (24.8 bits)