RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12568
(114 letters)
>2e6m_A Werner syndrome ATP-dependent helicase homolog; APO form,
hydrolase; 2.00A {Mus musculus} PDB: 2e6l_A 2fby_A
2fbv_A 2fbx_A 2fbt_A 2fc0_A*
Length = 208
Score = 71.7 bits (176), Expect = 6e-17
Identities = 24/59 (40%), Positives = 29/59 (49%), Gaps = 2/59 (3%)
Query: 9 GSPQSLSTLVLKCFGKTLNK--QDQFSNWENRPLRPSQISYAALDAFCLLQVYQVLHDQ 65
SL+ LV GK L K + SNW N PL Q YAA DA+ L +YQ L +
Sbjct: 136 AETWSLNGLVKHVLGKQLLKDKSIRCSNWSNFPLTEDQKLYAATDAYAGLIIYQKLGNL 194
>1yt3_A Ribonuclease D, RNAse D; exoribonuclease, exonuclease, hydrolase,
tRNA processing, hydrolase,translation; 1.60A
{Escherichia coli} SCOP: a.60.8.3 a.60.8.3 c.55.3.5
Length = 375
Score = 70.1 bits (172), Expect = 1e-15
Identities = 18/62 (29%), Positives = 29/62 (46%)
Query: 9 GSPQSLSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVYQVLHDQCAR 68
+++V + G TL+K + ++W RPL Q YAA D + LL + L +
Sbjct: 113 PMSWGFASMVEEYSGVTLDKSESRTDWLARPLTERQCEYAAADVWYLLPITAKLMVETEA 172
Query: 69 QG 70
G
Sbjct: 173 SG 174
>2hbj_A Exosome complex exonuclease RRP6; RNA metabolism, RNA surveillance,
RNA processing, hydrolase, gene regulation; 2.10A
{Saccharomyces cerevisiae} SCOP: a.60.8.4 c.55.3.5 PDB:
2hbk_A 2hbl_A* 2hbm_A*
Length = 410
Score = 69.8 bits (171), Expect = 1e-15
Identities = 15/59 (25%), Positives = 25/59 (42%)
Query: 12 QSLSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVYQVLHDQCARQG 70
SL+ L+ +K+ Q ++W RPL + A D LL +Y L ++
Sbjct: 200 HSLAYLLENFANFKTSKKYQLADWRIRPLSKPMTAAARADTHFLLNIYDQLRNKLIESN 258
>3saf_A Exosome component 10; exoribonuclease, RNA exosome, hydrolase;
2.50A {Homo sapiens} PDB: 3sag_A 3sah_A 2cpr_A
Length = 428
Score = 69.9 bits (171), Expect = 2e-15
Identities = 19/59 (32%), Positives = 27/59 (45%)
Query: 12 QSLSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVYQVLHDQCARQG 70
SL L+ NKQ Q ++W RPL +SYA D LL +Y + + +G
Sbjct: 223 HSLDHLLKLYCNVDSNKQYQLADWRIRPLPEEMLSYARDDTHYLLYIYDKMRLEMWERG 281
>3cym_A Uncharacterized protein BAD_0989; structural genomics, unknown
function; 2.10A {Bifidobacterium adolescentis atcc
1570ORGANISM_TAXID}
Length = 440
Score = 68.8 bits (168), Expect = 4e-15
Identities = 18/58 (31%), Positives = 29/58 (50%)
Query: 13 SLSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVYQVLHDQCARQG 70
L+ + G TL K+ ++W RPL +YAALD L+++ + + RQG
Sbjct: 134 GLAAVTEHFLGLTLAKEHSAADWSYRPLPRDWRNYAALDVELLIELETKMRAELKRQG 191
>1vk0_A Hypothetical protein; homohexamer, AT5G06450, struc genomics,
protein structure initiative, center for eukaryot
structural genomics, CESG; 2.10A {Arabidopsis thaliana}
SCOP: c.55.3.5 PDB: 2q3s_A
Length = 206
Score = 55.0 bits (132), Expect = 1e-10
Identities = 11/54 (20%), Positives = 23/54 (42%), Gaps = 2/54 (3%)
Query: 13 SLSTLVLKCFGKTLNKQD-QFSNWENRPLRPSQISYAALDAFCLLQVYQVLHDQ 65
L + L + D + WE + Q+ AA++ + ++ V+ L D+
Sbjct: 154 GTRELAHRVLWSDLGQLDSIEAKWE-KAGPEEQLEAAAIEGWLIVNVWDQLSDE 206
>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 = 34.6 bits (79), Expect = 0.003
Identities = 37/147 (25%), Positives = 48/147 (32%), Gaps = 52/147 (35%)
Query: 9 GSPQSLSTLVL---KCFGKTLNKQDQ----FS----NWENR------P-----LRPSQ-- 44
G PQSL L L K K + DQ FS + NR P L P+
Sbjct: 381 GPPQSLYGLNLTLRK--AKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDL 438
Query: 45 ---------ISYAALDAFCLLQ--VYQVL--HDQCARQGIELGPLLTEVLSSHAV----T 87
+S+ A D +Q VY D G + + + + V T
Sbjct: 439 INKDLVKNNVSFNAKD----IQIPVYDTFDGSDLRVLSG-SISERIVDCIIRLPVKWETT 493
Query: 88 TKKST--ILYF--STVSGLDTKEHRQL 110
T+ IL F SGL HR
Sbjct: 494 TQFKATHILDFGPGGASGLGVLTHRNK 520
Score = 28.1 bits (62), Expect = 0.80
Identities = 24/156 (15%), Positives = 40/156 (25%), Gaps = 66/156 (42%)
Query: 2 LTDESQQGSPQSLSTLVLKCFGKT-LNKQD-----------------QFSNW-------- 35
L + S+ G + L L F L D +
Sbjct: 71 LVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITAR 130
Query: 36 --ENRPLRPSQISYAALDAFCLLQVYQVLHDQCAR-------QGI------EL------- 73
RP S AL ++ + + A+ QG EL
Sbjct: 131 IMAKRPFDKKSNS--AL--------FRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTY 180
Query: 74 GPLLTEVLSSHA------VTTKKSTILYFSTVSGLD 103
L+ +++ A + T F+ GL+
Sbjct: 181 HVLVGDLIKFSAETLSELIRTTLDAEKVFT--QGLN 214
>3pv8_A DNA polymerase I; DNA polymerase I, protein-DNA complex,
thymine-adenine, CLOS conformation; HET: DNA 2DT D3T;
1.52A {Geobacillus kaustophilus} PDB: 3px0_A* 3px4_A*
3px6_A* 3thv_A* 3ti0_A* 3tan_A* 3tap_A* 3taq_A* 3tar_A*
3hp6_A* 2hhw_A* 3ez5_A* 2hvh_A* 2hvi_A* 3eyz_A* 1nk4_A*
1l3t_A* 1l3u_A* 1l3v_A* 1l5u_A* ...
Length = 592
Score = 27.9 bits (63), Expect = 0.83
Identities = 7/43 (16%), Positives = 16/43 (37%), Gaps = 9/43 (20%)
Query: 47 YAALDAFCLLQVYQVLHDQCARQG-------IELGPLLTEVLS 82
+ A + ++ + D+ R +E PL +L+
Sbjct: 162 HLVRKAAAIWELERPFLDELRRNEQDRLLVELEQ-PLS-SILA 202
>1pjr_A PCRA; DNA repair, DNA replication, SOS response, helicase, ATP-
binding, DNA-binding; 2.50A {Geobacillus
stearothermophilus} SCOP: c.37.1.19 c.37.1.19 PDB:
1qhg_A* 3pjr_A* 2pjr_A* 1qhh_B* 1qhh_D* 1qhh_A* 1qhh_C*
2pjr_B*
Length = 724
Score = 25.6 bits (57), Expect = 4.2
Identities = 10/40 (25%), Positives = 15/40 (37%), Gaps = 2/40 (5%)
Query: 33 SNWENRPLRPSQISYAALDAF--CLLQVYQVLHDQCARQG 70
S +N L P Q + A + + VYQ + R
Sbjct: 149 SAAKNELLPPEQFAKRASTYYEKVVSDVYQEYQQRLLRNH 188
>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 = 25.6 bits (55), Expect = 5.8
Identities = 15/109 (13%), Positives = 34/109 (31%), Gaps = 52/109 (47%)
Query: 2 LTDESQQGSPQSLSTLVLKCFGKTLNKQDQFSNWENRPLRPSQISYAALDAFCLLQVYQV 61
L E +P L +++ +D + W+N ++
Sbjct: 318 LPREVLTTNP-----RRLSIIAESI--RDGLATWDN---------------------WK- 348
Query: 62 LHDQCARQGIELGPLLTEVLSSHAVTTKKSTILYFSTVSGLDTKEHRQL 110
H C + LT ++ S +++ L+ E+R++
Sbjct: 349 -HVNCDK--------LTTIIES--------------SLNVLEPAEYRKM 374
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 0.131 0.385
Gapped
Lambda K H
0.267 0.0610 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,455,273
Number of extensions: 66300
Number of successful extensions: 73
Number of sequences better than 10.0: 1
Number of HSP's gapped: 72
Number of HSP's successfully gapped: 13
Length of query: 114
Length of database: 6,701,793
Length adjustment: 77
Effective length of query: 37
Effective length of database: 4,551,876
Effective search space: 168419412
Effective search space used: 168419412
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 (21.8 bits)
S2: 51 (23.7 bits)