RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy13512
(170 letters)
>2x1d_A Acyl-coenzyme A\:6-aminopenicillanic-acid-acyltransferase 40 kDa
form; zymogen, NTN-hydrolase, penicillin biosynthesis;
1.64A {Penicillium chrysogenum} PDB: 2x1e_A* 2x1c_A
Length = 357
Score = 65.6 bits (159), Expect = 2e-13
Identities = 20/107 (18%), Positives = 40/107 (37%), Gaps = 6/107 (5%)
Query: 38 GRTFSGIIKSFLETSGPLNDTYLPLYETDAGRRVYDATLASVRENFPQYVEEIEGTADGA 97
G +I ++ + L + + ++V + E +P+Y EEI G A GA
Sbjct: 18 GSAAKAVIARSIDFAVDLIRGKTKKTDEEL-KQVLSQLGRVIEERWPKYYEEIRGIAKGA 76
Query: 98 KVPFHKLFLLHMDDITPNVVHRKSAVEGTVGCSSVCCNQKNEHYLGR 144
+ ++ +L+ + GC++ C N G+
Sbjct: 77 ERDVSEIVMLNTRTEFAYGLKAARD-----GCTTAYCQLPNGALQGQ 118
Score = 39.8 bits (92), Expect = 2e-04
Identities = 10/34 (29%), Positives = 15/34 (44%)
Query: 4 PFYDATLASVRENFPQYVEEIEGTADGAKVPFHK 37
+ E +P+Y EEI G A GA+ +
Sbjct: 49 QVLSQLGRVIEERWPKYYEEIRGIAKGAERDVSE 82
>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 = 38.9 bits (90), Expect = 4e-04
Identities = 26/139 (18%), Positives = 45/139 (32%), Gaps = 59/139 (42%)
Query: 29 DGAKVPFHKGR--TFSGIIKSFLETSGPLNDTYL-------------------------P 61
D +++PF + R FS FL + P + L P
Sbjct: 403 DQSRIPFSE-RKLKFS---NRFLPVASPFHSHLLVPASDLINKDLVKNNVSFNAKDIQIP 458
Query: 62 LYETDAGR--RVYDATLASVRENFPQYVEEIEGTADGAKVPFH-----KLFLLHMDDITP 114
+Y+T G RV +++ + V+ I ++P + H+ D P
Sbjct: 459 VYDTFDGSDLRVLSGSIS------ERIVDCI------IRLPVKWETTTQFKATHILDFGP 506
Query: 115 -------NVVHRKSAVEGT 126
+ HR +GT
Sbjct: 507 GGASGLGVLTHR--NKDGT 523
Score = 31.2 bits (70), Expect = 0.20
Identities = 23/102 (22%), Positives = 33/102 (32%), Gaps = 24/102 (23%)
Query: 2 NNP------FYDATLASVRENFPQYVEE--IEGTADGAKVPFHKGRTFSGIIKSFLETSG 53
NNP F +REN+ + E ++G K+ + F G
Sbjct: 1667 NNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYT--FRSEKG 1724
Query: 54 PLNDTYL--P--------LYET--DAGRRVYDATLA--SVRE 81
L+ T P +E G DAT A S+ E
Sbjct: 1725 LLSATQFTQPALTLMEKAAFEDLKSKGLIPADATFAGHSLGE 1766
>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 = 29.4 bits (65), Expect = 0.61
Identities = 24/185 (12%), Positives = 56/185 (30%), Gaps = 44/185 (23%)
Query: 3 NPFYDATLASVRENFPQYVEEIEGTADGAKVPFHKGRTFSGIIKSFLETSGPLNDTYLPL 62
NP + +A + T D K + II+S L P Y +
Sbjct: 326 NPRRLSIIAESIRDGL-------ATWDNWKHVNCD--KLTTIIESSLNVLEP--AEYRKM 374
Query: 63 YET------DAGRRVYDATLASVRENFPQYVEE-----------IEGTADGAKVPFHKLF 105
++ A + L+ + + + +E + + ++
Sbjct: 375 FDRLSVFPPSA--HIPTILLSLIWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIY 432
Query: 106 L---LHMDDITPNVVHRKSAVEGTVGCSSVCCNQKNE--------HYLGRYLKSDKHLDI 154
L + +++ +HR V+ + + ++G +LK+ +H +
Sbjct: 433 LELKVKLENEY--ALHRS-IVDHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPER 489
Query: 155 KEERR 159
R
Sbjct: 490 MTLFR 494
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 28.4 bits (62), Expect = 0.80
Identities = 9/35 (25%), Positives = 15/35 (42%), Gaps = 10/35 (28%)
Query: 45 IKSFLETSGPLNDTYLPLYETDAGRRVYDATLASV 79
+K L+ S L LY D+ + A A++
Sbjct: 22 LKK-LQAS-------LKLYADDSAPAL--AIKATM 46
>3dhf_A Nicotinamide phosphoribosyltransferase; NMPRTASE, NAMPRTASE,
visfatin, beryllium fluoride, nicotinamide
D-ribonucleotide, pyrophosphate; HET: NMN; 1.80A {Homo
sapiens} PDB: 3dgr_A* 3dhd_A* 3dkj_A* 3dkl_A* 2gvj_A*
2gvg_A* 2e5b_A 2e5c_A* 2e5d_A 2h3d_A* 2gvl_A 2h3b_A
2g95_A 2g96_A* 2g97_A* 3g8e_A*
Length = 484
Score = 27.8 bits (61), Expect = 1.9
Identities = 11/46 (23%), Positives = 18/46 (39%), Gaps = 2/46 (4%)
Query: 39 RTFSGIIKSFLETSGPLNDTYLPLYET--DAGRRVYDATLASVREN 82
RT +G + E G L + L T G+ + +R+N
Sbjct: 434 RTPAGNFVTLEEGKGDLEEYGQDLLHTVFKNGKVTKSYSFDEIRKN 479
>2nov_A DNA topoisomerase 4 subunit A; protein, PARC, TOPO IV,
GRAM-positive bacteria, quinolone target, DNA binding,
DNA cleavage; HET: DNA; 2.67A {Streptococcus pneumoniae}
PDB: 3foe_A* 3fof_A* 3k9f_A* 3ksa_A* 3ksb_A* 3ltn_A*
3rad_A* 3rae_A* 3raf_A*
Length = 496
Score = 25.9 bits (58), Expect = 7.2
Identities = 13/36 (36%), Positives = 20/36 (55%), Gaps = 5/36 (13%)
Query: 95 DGAKVPFHK--LFLLHMDDITPNVVHRKSAVEGTVG 128
DG K P + L+ ++ D T + +RKSA +VG
Sbjct: 35 DGLK-PVQRRILYSMNKDSNTFDKSYRKSA--KSVG 67
>2w6k_A COBE; biosynthetic protein, cobalamin, complete proteome, vitamin
B12; 1.70A {Pseudomonas aeruginosa} SCOP: c.151.1.1 PDB:
2bsn_A 2w6l_A
Length = 145
Score = 25.6 bits (56), Expect = 7.3
Identities = 11/40 (27%), Positives = 16/40 (40%)
Query: 94 ADGAKVPFHKLFLLHMDDITPNVVHRKSAVEGTVGCSSVC 133
A + P H L + D P ++ + GCSSV
Sbjct: 64 ATLLERPVHFLAPAVLHDYEPRLLSPSAVALRETGCSSVA 103
>2inr_A DNA topoisomerase 4 subunit A; topoisomerase II fold; HET: DNA;
2.80A {Staphylococcus aureus}
Length = 514
Score = 26.0 bits (58), Expect = 7.9
Identities = 13/36 (36%), Positives = 18/36 (50%), Gaps = 5/36 (13%)
Query: 95 DGAKVPFHK--LFLLHMDDITPNVVHRKSAVEGTVG 128
DG K P + L+ ++ T + RKSA TVG
Sbjct: 59 DGLK-PVQRRILYAMYSSGNTHDKNFRKSA--KTVG 91
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
0.316 0.135 0.395
Gapped
Lambda K H
0.267 0.0856 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,568,984
Number of extensions: 140866
Number of successful extensions: 387
Number of sequences better than 10.0: 1
Number of HSP's gapped: 386
Number of HSP's successfully gapped: 15
Length of query: 170
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 83
Effective length of database: 4,272,666
Effective search space: 354631278
Effective search space used: 354631278
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 (21.6 bits)
S2: 54 (24.3 bits)