RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2304
(85 letters)
>1sxj_E Activator 1 40 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 354
Score = 66.1 bits (161), Expect = 1e-14
Identities = 22/64 (34%), Positives = 37/64 (57%)
Query: 1 MESDIKNTPSKKKIDIMTTASNYHIEVNPNDAGIYDRVVVMELIKNVAQTNQLDPNGQRD 60
++ T S +K+++ +S YH+E+ P+D G DR+V+ EL+K VAQ Q+D +D
Sbjct: 70 IDVRQFVTASNRKLELNVVSSPYHLEITPSDMGNNDRIVIQELLKEVAQMEQVDFQDSKD 129
Query: 61 FKGK 64
Sbjct: 130 GLAH 133
>1sxj_D Activator 1 41 kDa subunit; clamp loader, processivity clamp, DNA
sliding clamp, AAA+ at polymerase, DNA-binding protein;
HET: AGS ADP; 2.85A {Saccharomyces cerevisiae} SCOP:
a.80.1.1 c.37.1.20
Length = 353
Score = 33.3 bits (76), Expect = 0.005
Identities = 8/52 (15%), Positives = 18/52 (34%), Gaps = 5/52 (9%)
Query: 11 KKKIDIMTTASNYHIEVNPNDAGIYDRVVVMELIKNVAQTNQLDPNGQRDFK 62
K +I + + I + + R+ V + K + L+ +K
Sbjct: 89 KSRILELNASDERGISIVREKVKNFARLTVSKPSK-----HDLENYPCPPYK 135
>1iqp_A RFCS; clamp loader, extended AAA-ATPase domain, complex with ADP,
replication; HET: ADP; 2.80A {Pyrococcus furiosus} SCOP:
a.80.1.1 c.37.1.20
Length = 327
Score = 30.8 bits (70), Expect = 0.035
Identities = 8/37 (21%), Positives = 17/37 (45%), Gaps = 2/37 (5%)
Query: 21 SNYHIEVNPNDAGIYDRVVVMELIKNVAQTNQLDPNG 57
+ +E+N +D + V+ E +K A+T +
Sbjct: 76 RHNFLELNASDERGIN--VIREKVKEFARTKPIGGAS 110
>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 = 29.6 bits (66), Expect = 0.10
Identities = 11/45 (24%), Positives = 15/45 (33%), Gaps = 17/45 (37%)
Query: 42 ELIKNVAQTNQLDP----------NGQRDFKGKFVARGP---LVG 73
++ V +TN P NG + V GP L G
Sbjct: 348 QVQDYVNKTNSHLPAGKQVEISLVNGAK----NLVVSGPPQSLYG 388
>2ck3_D ATP synthase subunit beta\, mitochondrial; hydrolase; HET: ANP ADP;
1.9A {Bos taurus} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB:
1cow_D* 1bmf_D* 1e1q_D* 1e1r_D* 1efr_D* 1e79_D* 1h8h_D*
1ohh_D* 1qo1_D 1w0j_D* 1w0k_D* 1h8e_D* 2jdi_D* 2jiz_D*
2jj1_D* 2jj2_D* 2v7q_D* 2wss_D* 2w6j_D 2w6e_D ...
Length = 482
Score = 26.4 bits (59), Expect = 1.00
Identities = 10/18 (55%), Positives = 14/18 (77%)
Query: 32 AGIYDRVVVMELIKNVAQ 49
AG+ V++MELI NVA+
Sbjct: 162 AGVGKTVLIMELINNVAK 179
>1sky_E F1-ATPase, F1-ATP synthase; F1FO ATP synthase, alpha3BETA3 SUBC
F1-ATPase, hydrolase; 3.20A {Bacillus SP} SCOP: a.69.1.1
b.49.1.1 c.37.1.11
Length = 473
Score = 26.5 bits (59), Expect = 1.0
Identities = 9/18 (50%), Positives = 13/18 (72%)
Query: 32 AGIYDRVVVMELIKNVAQ 49
AG+ V++ ELI N+AQ
Sbjct: 160 AGVGKTVLIQELIHNIAQ 177
>1fx0_B ATP synthase beta chain; latent ATPase, thermal stability,
potential tentoxin binding hydrolase; 3.20A {Spinacia
oleracea} SCOP: a.69.1.1 b.49.1.1 c.37.1.11 PDB: 1kmh_B*
Length = 498
Score = 26.5 bits (59), Expect = 1.2
Identities = 9/18 (50%), Positives = 14/18 (77%)
Query: 32 AGIYDRVVVMELIKNVAQ 49
AG+ V++MELI N+A+
Sbjct: 174 AGVGKTVLIMELINNIAK 191
>3mc6_A Sphingosine-1-phosphate lyase; carboxy-lyase activity, pyridoxyl
phosphate; HET: LLP; 3.15A {Saccharomyces cerevisiae}
Length = 497
Score = 25.6 bits (56), Expect = 2.1
Identities = 7/29 (24%), Positives = 11/29 (37%)
Query: 14 IDIMTTASNYHIEVNPNDAGIYDRVVVME 42
I + T A + N ++ V ME
Sbjct: 81 IHLQTIAYEKYCVANQLHPDVFPAVRKME 109
>2kan_A Uncharacterized protein AR3433A; ubiquitin fold, alpha+beta,
structural genomics, protein structure initiative; NMR
{Arabidopsis thaliana}
Length = 94
Score = 24.3 bits (53), Expect = 4.0
Identities = 6/58 (10%), Positives = 16/58 (27%), Gaps = 8/58 (13%)
Query: 8 TPSKKKIDIMTTASNYHIEVNPNDAGIYDRVVVMELIKNVAQTNQLDPNGQR-DFKGK 64
K + + + + +EV+ + V L + + + G
Sbjct: 12 AVRKIHVTVKFPSKQFTVEVDRTET-------VSSLKDKIHIVENTPIKRMQLYYSGI 62
>1qfo_A Protein (sialoadhesin); immunoglobulin superfamily, carbohydrate
binding, immune system; HET: SIA GAL GLC; 1.85A {Mus
musculus} SCOP: b.1.1.1 PDB: 1od7_A* 1oda_A* 1od9_A*
1qfp_A 2bve_A* 1url_A*
Length = 119
Score = 24.4 bits (53), Expect = 4.4
Identities = 7/29 (24%), Positives = 13/29 (44%)
Query: 56 NGQRDFKGKFVARGPLVGNPWHRASSLQI 84
+ +F R L+GN H+ +L +
Sbjct: 55 GDPKLVDKRFRGRAELMGNMDHKVCNLLL 83
>1nko_A Sialic acid binding IG-like lectin 7; immunoglobulin, siglec7,
immune system; 1.45A {Homo sapiens} SCOP: b.1.1.1 PDB:
2g5r_A* 1o7v_A* 2df3_A* 1o7s_A* 2hrl_A*
Length = 132
Score = 24.5 bits (53), Expect = 4.6
Identities = 9/35 (25%), Positives = 16/35 (45%), Gaps = 4/35 (11%)
Query: 50 TNQLDPNGQRDFKGKFVARGPLVGNPWHRASSLQI 84
TN Q + + +F L+G+P + +L I
Sbjct: 62 TNNPAWAVQEETRDRFH----LLGDPQTKNCTLSI 92
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
0.314 0.132 0.381
Gapped
Lambda K H
0.267 0.0825 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,290,433
Number of extensions: 66242
Number of successful extensions: 135
Number of sequences better than 10.0: 1
Number of HSP's gapped: 135
Number of HSP's successfully gapped: 14
Length of query: 85
Length of database: 6,701,793
Length adjustment: 53
Effective length of query: 32
Effective length of database: 5,221,980
Effective search space: 167103360
Effective search space used: 167103360
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: 42 (22.0 bits)
S2: 51 (23.2 bits)