RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3552
(92 letters)
>1w1n_A Phosphatidylinositol 3-kinase TOR1; target of rapamycin, Ser/Thr
kinase, redox-regulation, disulfide bond, transferase;
NMR {Saccharomyces cerevisiae} PDB: 2kio_A 2kit_A
Length = 33
Score = 58.4 bits (142), Expect = 9e-14
Identities = 15/30 (50%), Positives = 20/30 (66%)
Query: 62 LSVEGQTKKLIEEATSLDNLCQMYHGWAAY 91
L V Q KLI++ATS++ LCQ Y GW +
Sbjct: 3 LDVPEQVDKLIQQATSIERLCQHYIGWCPF 32
>2iu8_A LPXD, UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltransferase;
UDP-3- O-acyl-glucosamine N-acyltransferase, lipid A
biosynthesis; HET: PLM UD1; 2.2A {Chlamydia trachomatis}
PDB: 2iu9_A* 2iua_A*
Length = 374
Score = 28.0 bits (63), Expect = 0.35
Identities = 14/44 (31%), Positives = 20/44 (45%), Gaps = 7/44 (15%)
Query: 49 GKVRSG-----GQNTTIPLSVEGQTKKLIEEATSLDNLCQMYHG 87
GKV G NTTI + ++ E + +DNL Q+ H
Sbjct: 227 GKVIIEDDVEIGANTTIDRGRFKHS--VVREGSKIDNLVQIAHQ 268
>3pmo_A UDP-3-O-[3-hydroxymyristoyl] glucosamine N-acyltr; lipid A
biosynthesis pathway, transferase; 1.30A {Pseudomonas
aeruginosa}
Length = 372
Score = 27.2 bits (61), Expect = 0.74
Identities = 15/44 (34%), Positives = 16/44 (36%), Gaps = 7/44 (15%)
Query: 49 GKVRSG-----GQNTTIPLSVEGQTKKLIEEATSLDNLCQMYHG 87
G V G G NTTI T LI LDN + H
Sbjct: 221 GGVTIGDDVEIGANTTIDRGALSDT--LIGNGVKLDNQIMIAHN 262
>3eh0_A UDP-3-O-[3-hydroxymyristoyl] glucosamine N- acyltransferase; LPXD,
LEFT-handed parallel beta helix, acyl carrier protein,
antibiotic resistance; 2.60A {Escherichia coli}
Length = 341
Score = 27.2 bits (61), Expect = 0.78
Identities = 14/44 (31%), Positives = 18/44 (40%), Gaps = 7/44 (15%)
Query: 49 GKVRSG-----GQNTTIPLSVEGQTKKLIEEATSLDNLCQMYHG 87
G+V G G TTI T +I +DN CQ+ H
Sbjct: 199 GRVIIGDRVEIGACTTIDRGALDDT--IIGNGVIIDNQCQIAHN 240
>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 = 26.6 bits (58), Expect = 1.2
Identities = 11/59 (18%), Positives = 23/59 (38%), Gaps = 15/59 (25%)
Query: 27 RCTCQVY----LIAKIFLENIEGRLQGKVRSGGQNTTIP-LSVEGQTKKLIEEATSLDN 80
RC + Y L I +++E + P LS+ T++ +++ + N
Sbjct: 309 RCY-EAYPNTSLPPSILEDSLEN---------NEGVPSPMLSISNLTQEQVQDYVNKTN 357
>1x9n_A DNA ligase I; 5'-adenylated nicked DNA, protein-DNA complex, L
complex; HET: DNA DOC AMP; 3.00A {Homo sapiens} SCOP:
a.235.1.1 b.40.4.6 d.142.2.1
Length = 688
Score = 26.1 bits (57), Expect = 2.2
Identities = 5/17 (29%), Positives = 9/17 (52%)
Query: 70 KLIEEATSLDNLCQMYH 86
K E+AT+ + +Y
Sbjct: 651 KQPEQATTSAQVACLYR 667
>1uil_A Double-stranded RNA-binding motif; structural genomics, DSRM,
riken structural genomics/proteomics initiative, RSGI
RNA binding protein; NMR {Mus musculus} SCOP: d.50.1.1
PDB: 2rs7_A
Length = 113
Score = 25.4 bits (55), Expect = 2.3
Identities = 9/32 (28%), Positives = 14/32 (43%)
Query: 55 GQNTTIPLSVEGQTKKLIEEATSLDNLCQMYH 86
I G KKL ++ +L + Q+YH
Sbjct: 68 QLGRRIFAREHGSNKKLAAQSCALSLVRQLYH 99
>3e9c_A ZGC:56074; histidine phosphatase, hydrolase; 2.00A {Danio rerio}
PDB: 3e9d_A 3e9e_A
Length = 265
Score = 25.6 bits (56), Expect = 2.5
Identities = 10/37 (27%), Positives = 14/37 (37%), Gaps = 11/37 (29%)
Query: 42 NIEGRLQGKVRSGGQNTTIPLSVEGQTKKLIEEATSL 78
N + LQ GQ PLS G ++A +
Sbjct: 17 NRDKLLQ------GQGIDTPLSDTG-----HQQAAAA 42
>3gde_A DNA ligase; DNA-binding domain, adenylation domain, OB-fold domain,
ATP-binding, cell cycle, cell division, DNA damage, DNA
recombination; HET: DNA; 2.30A {Archaeoglobus fulgidus}
Length = 558
Score = 25.4 bits (56), Expect = 3.2
Identities = 4/17 (23%), Positives = 11/17 (64%)
Query: 70 KLIEEATSLDNLCQMYH 86
K ++EA +++ + +Y
Sbjct: 534 KDVDEADTIERVENLYK 550
>3l2p_A DNA ligase 3; DNA ligase, DNA repair, ATP-binding, cell cycle, cell
divisi damage; HET: DNA AMP; 3.00A {Homo sapiens}
Length = 579
Score = 25.5 bits (56), Expect = 3.2
Identities = 6/17 (35%), Positives = 10/17 (58%)
Query: 70 KLIEEATSLDNLCQMYH 86
K + AT+L L ++Y
Sbjct: 560 KDWKSATNLPQLKELYQ 576
>2cfm_A Thermostable DNA ligase; protein-nucleotide complex, cell cycle,
cell division, DNA damage, DNA recombination, DNA
repair, DNA replication; HET: AMP; 1.8A {Pyrococcus
furiosus} PDB: 3rr5_A*
Length = 561
Score = 25.4 bits (56), Expect = 3.3
Identities = 5/17 (29%), Positives = 11/17 (64%)
Query: 70 KLIEEATSLDNLCQMYH 86
K E+A +++ + Q+Y
Sbjct: 534 KGPEDADTIERIAQLYE 550
>2hiv_A Thermostable DNA ligase; ATP-dependent, open conformation; 2.05A
{Sulfolobus solfataricus} PDB: 2hix_A*
Length = 621
Score = 25.2 bits (55), Expect = 4.1
Identities = 7/17 (41%), Positives = 12/17 (70%)
Query: 70 KLIEEATSLDNLCQMYH 86
K E+AT+ D + +MY+
Sbjct: 589 KSPEDATTTDEILEMYN 605
>2yzs_A Putative uncharacterized protein; uncharacterized conserved
protein, structural genomics, unknown function, NPPSFA;
2.00A {Aquifex aeolicus}
Length = 315
Score = 24.3 bits (53), Expect = 7.6
Identities = 7/38 (18%), Positives = 16/38 (42%), Gaps = 2/38 (5%)
Query: 37 KIFLENIEGRLQGKV--RSGGQNTTIPLSVEGQTKKLI 72
K+FL+ L+ + + + ++ + KLI
Sbjct: 260 KVFLKAFNELLETTIFYPKLNRKVSHRTLIKLELYKLI 297
>2yue_A Protein neuralized; structure genomics, NEUZ(NHR) domain,
structural genomics, NPPSFA; NMR {Drosophila
melanogaster}
Length = 168
Score = 24.1 bits (52), Expect = 8.5
Identities = 4/22 (18%), Positives = 9/22 (40%)
Query: 1 MVDLTGTSDQVRLTVCVLIRYQ 22
++D+ G + + YQ
Sbjct: 147 VIDIYGNCTGIEFLDSRIYMYQ 168
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
0.322 0.136 0.403
Gapped
Lambda K H
0.267 0.0755 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,354,357
Number of extensions: 64769
Number of successful extensions: 107
Number of sequences better than 10.0: 1
Number of HSP's gapped: 107
Number of HSP's successfully gapped: 15
Length of query: 92
Length of database: 6,701,793
Length adjustment: 59
Effective length of query: 33
Effective length of database: 5,054,454
Effective search space: 166796982
Effective search space used: 166796982
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 (21.9 bits)
S2: 51 (23.4 bits)