RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4862
(81 letters)
>2vnu_D Exosome complex exonuclease RRP44; hydrolase-RNA complex, RNA
degradation, RNA-binding, RNA Pro; HET: 1PE; 2.30A
{Saccharomyces cerevisiae} SCOP: b.40.4.5 b.40.4.5
b.40.4.5 b.40.4.16
Length = 760
Score = 109 bits (275), Expect = 5e-30
Identities = 40/60 (66%), Positives = 46/60 (76%)
Query: 22 KKKSKKKGEVGVHIADVSHFIKPGTPLDEEAALRATTVYLVDKRIDMVPGLLSGNLCSLR 81
KK EVGVHIADV+HF+KPGT LD E A R T+VYLVDKRIDM+P LL +LCSL+
Sbjct: 316 KKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLLGTDLCSLK 375
>2wp8_J Exosome complex exonuclease DIS3; nucleus, hydrolase, RNA-binding,
exonucle binding, mitochondrion, rRNA processing; 3.00A
{Saccharomyces cerevisiae}
Length = 977
Score = 107 bits (268), Expect = 4e-29
Identities = 40/60 (66%), Positives = 46/60 (76%)
Query: 22 KKKSKKKGEVGVHIADVSHFIKPGTPLDEEAALRATTVYLVDKRIDMVPGLLSGNLCSLR 81
KK EVGVHIADV+HF+KPGT LD E A R T+VYLVDKRIDM+P LL +LCSL+
Sbjct: 533 KKLPNGNWEVGVHIADVTHFVKPGTALDAEGAARGTSVYLVDKRIDMLPMLLGTDLCSLK 592
>2r7d_A Ribonuclease II family protein; structural genomics, PSI-2,
structure initiative, northeast structural genomics
consort NESG; 1.80A {Deinococcus radiodurans R1} SCOP:
b.40.4.5 b.40.4.16 PDB: 2r7f_A
Length = 469
Score = 90.0 bits (224), Expect = 3e-23
Identities = 21/52 (40%), Positives = 29/52 (55%), Gaps = 1/52 (1%)
Query: 30 EVGVHIADVSHFIKPGTPLDEEAALRATTVYLVDKRIDMVPGLLSGNLCSLR 81
+ VH+ADV+ + P +PLD EA R T+YL D+ I M+P L L
Sbjct: 115 RLWVHVADVAALVAPDSPLDLEARARGATLYLPDRTIGMLPDELV-AKAGLG 165
>2id0_A Exoribonuclease 2; RNAse, exonuclease, hydrolyase, mRNA decay, RNR
family, hydrolase; 2.35A {Escherichia coli} SCOP:
b.40.4.5 b.40.4.5 b.40.4.5 b.40.4.16 PDB: 2ix0_A* 2ix1_A
Length = 644
Score = 88.8 bits (221), Expect = 1e-22
Identities = 24/52 (46%), Positives = 33/52 (63%)
Query: 30 EVGVHIADVSHFIKPGTPLDEEAALRATTVYLVDKRIDMVPGLLSGNLCSLR 81
++ V IAD + +I G+ LD+ A +RA T YL I M+P LS +LCSLR
Sbjct: 223 QLIVAIADPTAWIAEGSKLDKAAKIRAFTNYLPGFNIPMLPRELSDDLCSLR 274
>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 = 27.3 bits (60), Expect = 0.54
Identities = 7/29 (24%), Positives = 12/29 (41%), Gaps = 4/29 (13%)
Query: 47 PLDEEAALRATTVYLVDKRIDMVPGLLSG 75
P+ E + ++ +D PG SG
Sbjct: 487 PVKWETTTQFKATHI----LDFGPGGASG 511
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 26.3 bits (57), Expect = 1.2
Identities = 7/41 (17%), Positives = 19/41 (46%), Gaps = 5/41 (12%)
Query: 2 EEGE-----KEEERKGSEEPETKKRKKKSKKKGEVGVHIAD 37
+E E +EE+RK +E + + + + + + + +
Sbjct: 82 QEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEE 122
>1w98_B Cyclin E, G1/S-specific cyclin E1; cell cycle, transferase; HET:
TPO; 2.15A {Homo sapiens} SCOP: a.74.1.1 a.74.1.1
Length = 283
Score = 25.5 bits (56), Expect = 1.9
Identities = 7/47 (14%), Positives = 13/47 (27%), Gaps = 7/47 (14%)
Query: 10 RKGSEEPETKKRKKKSKKKGEVGVHIADVSHFIKPGTPLDEEAALRA 56
R+ R + + H + LD+ A +A
Sbjct: 244 RETGSSKLKHFRGVADEDAHNIQTHRDSLD-------LLDKARAKKA 283
>1b6a_A Methionine aminopeptidase; angiogenesis inhibitor; HET: TN4; 1.60A
{Homo sapiens} SCOP: a.4.5.25 d.127.1.1 PDB: 1qzy_A*
1boa_A* 1kq0_A 1kq9_A 1bn5_A* 1b59_A* 1yw9_A* 1r5g_A*
1r5h_A* 1r58_A* 1yw8_A* 1yw7_A* 2adu_A* 2ea2_A* 2ea4_A*
2ga2_A* 2oaz_A*
Length = 478
Score = 24.5 bits (53), Expect = 5.1
Identities = 12/27 (44%), Positives = 16/27 (59%)
Query: 2 EEGEKEEERKGSEEPETKKRKKKSKKK 28
E E +E+ G + T K+KKK KKK
Sbjct: 80 ERDEDDEDGDGDGDGATGKKKKKKKKK 106
>3kwu_A MUNC13-1; calcium binding protein, phospholipid binding protein,
metal binding protein; HET: GOL; 1.37A {Rattus
norvegicus} PDB: 3kwt_A*
Length = 148
Score = 24.0 bits (52), Expect = 6.5
Identities = 7/17 (41%), Positives = 9/17 (52%)
Query: 19 KKRKKKSKKKGEVGVHI 35
KR KS G + +HI
Sbjct: 127 DKRTDKSAVSGAIRLHI 143
>1uwv_A 23S rRNA (uracil-5-)-methyltransferase RUMA; RNA modification,
iron-sulfur cluster, RNA processing; 1.95A {Escherichia
coli} SCOP: b.40.4.12 c.66.1.40 PDB: 2bh2_A*
Length = 433
Score = 24.0 bits (53), Expect = 6.6
Identities = 3/21 (14%), Positives = 10/21 (47%)
Query: 20 KRKKKSKKKGEVGVHIADVSH 40
K+++ + + V + D+
Sbjct: 6 SAKRRTTTRQIITVSVNDLDS 26
>1tqx_A D-ribulose-5-phosphate 3-epimerase, putative; structural genomics,
protein structure initiative, PSI; 2.00A {Plasmodium
falciparum} SCOP: c.1.2.2
Length = 227
Score = 23.3 bits (51), Expect = 10.0
Identities = 7/28 (25%), Positives = 9/28 (32%), Gaps = 6/28 (21%)
Query: 42 IKPGTPLDEEAALRATTVYLVDKRIDMV 69
IKP T + L I+ V
Sbjct: 121 IKPKTDVQ------KLVPILDTNLINTV 142
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
0.308 0.130 0.355
Gapped
Lambda K H
0.267 0.0576 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,235,771
Number of extensions: 64520
Number of successful extensions: 228
Number of sequences better than 10.0: 1
Number of HSP's gapped: 217
Number of HSP's successfully gapped: 37
Length of query: 81
Length of database: 6,701,793
Length adjustment: 50
Effective length of query: 31
Effective length of database: 5,305,743
Effective search space: 164478033
Effective search space used: 164478033
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.6 bits)
S2: 51 (23.8 bits)