RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy14926
(140 letters)
>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase,
ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET:
ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*
Length = 773
Score = 132 bits (333), Expect = 6e-37
Identities = 34/75 (45%), Positives = 51/75 (68%), Gaps = 1/75 (1%)
Query: 5 DFFLIYL-QVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPVE 63
D + L QV+ RR DLK+I+ SAT+DA+KF +F + P +PGRT+PV++++
Sbjct: 225 DILMGLLKQVVKRRPDLKIIIMSATLDAEKFQRYFNDAPLLAVPGRTYPVELYYTPEFQR 284
Query: 64 DYVDSAVKQALQIHL 78
DY+DSA++ LQIH
Sbjct: 285 DYLDSAIRTVLQIHA 299
>3llm_A ATP-dependent RNA helicase A; alpha-beta-alpha, structural
genomics, structural genomics consortium, SGC,
activator, ATP-binding, DNA-binding; HET: ADP; 2.80A
{Homo sapiens}
Length = 235
Score = 73.5 bits (181), Expect = 5e-17
Identities = 13/43 (30%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 5 DFFLIYL-QVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHI 46
DF L+ L V+ ++++++ SAT+D F +F N P +
Sbjct: 193 DFLLVVLRDVVQAYPEVRIVLMSATIDTSMFCEYFFNCPIIEV 235
>2z83_A Helicase/nucleoside triphosphatase; hydrolase, membrane,
nucleotide-binding, RNA replication, transmembrane,
viral protein; 1.80A {Japanese encephalitis virus} PDB:
2v8o_A 2qeq_A
Length = 459
Score = 44.0 bits (104), Expect = 4e-06
Identities = 9/77 (11%), Positives = 19/77 (24%), Gaps = 18/77 (23%)
Query: 3 TADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDV-FFAKNP 61
+ Y+ + I +AT PG T P +
Sbjct: 127 ASIAARGYIATKVELGEAAAIFMTAT-----------------PPGTTDPFPDSNAPIHD 169
Query: 62 VEDYVDSAVKQALQIHL 78
++D + + +
Sbjct: 170 LQDEIPDRAWSSGYEWI 186
>1yks_A Genome polyprotein [contains: flavivirin protease NS3 catalytic
subunit]; helicase, flavivirus, DEAD-BOX, ATPase,
rtpase, hydrolase; 1.80A {Yellow fever virus} SCOP:
c.37.1.14 c.37.1.14 PDB: 1ymf_A*
Length = 440
Score = 36.4 bits (84), Expect = 0.002
Identities = 9/75 (12%), Positives = 17/75 (22%), Gaps = 19/75 (25%)
Query: 3 TADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPV 62
+ + AR + I+ +AT PG + +
Sbjct: 114 ASIAARGWAAHRARANESATILMTAT-----------------PPGTSDEFPHSNG--EI 154
Query: 63 EDYVDSAVKQALQIH 77
ED +
Sbjct: 155 EDVQTDIPSEPWNTG 169
>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3
catalytic subunit; nucleotide-binding, capsid protein;
2.75A {Murray valley encephalitis virus}
Length = 673
Score = 36.1 bits (83), Expect = 0.002
Identities = 8/77 (10%), Positives = 17/77 (22%), Gaps = 18/77 (23%)
Query: 3 TADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDV-FFAKNP 61
+ Y+ + I +AT PG + P +
Sbjct: 347 ASIAARGYIATRVEAGEAAAIFMTAT-----------------PPGTSDPFPDTNSPVHD 389
Query: 62 VEDYVDSAVKQALQIHL 78
V + + +
Sbjct: 390 VSSEIPDRAWSSGFEWI 406
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 34.0 bits (78), Expect = 0.011
Identities = 7/54 (12%), Positives = 14/54 (25%), Gaps = 1/54 (1%)
Query: 3 TADFFLIYLQVIARRQDLKLIVTSATMDADKFSNFFGNVPTFHIPGRTFPVDVF 56
+ Y++ D I +AT + F + P +
Sbjct: 108 ASVAARGYIETRVSMGDAGAIFMTATPPGTTEA-FPPSNSPIIDEETRIPDKAW 160
>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 = 31.6 bits (71), Expect = 0.088
Identities = 16/97 (16%), Positives = 29/97 (29%), Gaps = 26/97 (26%)
Query: 49 RTFPV--DVFFAKNPVEDYVDSAVKQALQIHLI----PNPDQKYPWPCFQKVRFGRYSGP 102
+T DV+ + D+ K ++ NP + FG G
Sbjct: 1637 KTSKAAQDVW-------NRADNHFKDTYGFSILDIVINNPVNLT-------IHFGGEKGK 1682
Query: 103 KLR--YLGLCIEKA----QKELALFTTLPLATGRSNF 133
++R Y + E K +F + + F
Sbjct: 1683 RIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTF 1719
>1aym_1 HRV16, human rhinovirus 16 coat protein; RNA, site-directed
mutagenesis, icosahedral virus; HET: MYR DAO; 2.15A
{Human rhinovirus SP} SCOP: b.121.4.1 PDB: 1ayn_1*
1c8m_1* 1ncr_A* 1nd2_A* 1nd3_A* 1qju_1* 1qjx_1* 1qjy_1*
1d3e_1 1fpn_1* 1v9u_1* 3dpr_A* 3tn9_1 1r1a_1* 2hwd_1*
2hwe_1* 2hwf_1*
Length = 285
Score = 27.0 bits (59), Expect = 2.0
Identities = 12/28 (42%), Positives = 17/28 (60%), Gaps = 3/28 (10%)
Query: 60 NPVEDYVDSAVKQALQIHLIPNPDQKYP 87
NPVE YVD + + L +PN +Q +P
Sbjct: 1 NPVERYVDEVLNEVLV---VPNINQSHP 25
>2nyt_A Probable C->U-editing enzyme apobec-2; cytidine deaminase,
zinc-ION binding, hydrolase; 2.50A {Homo sapiens} PDB:
2rpz_A
Length = 190
Score = 25.6 bits (56), Expect = 5.6
Identities = 10/30 (33%), Positives = 14/30 (46%)
Query: 22 LIVTSATMDADKFSNFFGNVPTFHIPGRTF 51
+IVT + A+ F F NV +TF
Sbjct: 6 MIVTGERLPANFFKFQFRNVEYSSGRNKTF 35
>4eql_A 4-substituted benzoates-glutamate ligase GH3.12; firefly luciferase
family, acyl adenylase, amino acid conjug ligase; HET:
AMP SAL; 1.80A {Arabidopsis thaliana} PDB: 4epm_A*
4eq4_A* 4ewv_A*
Length = 581
Score = 26.1 bits (56), Expect = 5.7
Identities = 12/54 (22%), Positives = 18/54 (33%)
Query: 28 TMDADKFSNFFGNVPTFHIPGRTFPVDVFFAKNPVEDYVDSAVKQALQIHLIPN 81
D + F+ N P F R V + E+ + AV QA +
Sbjct: 402 VGDIVLVTGFYNNAPQFKFVRRENVVLSIDSDKTNEEDLFKAVSQAKLVLESSG 455
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
0.327 0.142 0.439
Gapped
Lambda K H
0.267 0.0419 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,151,467
Number of extensions: 116331
Number of successful extensions: 337
Number of sequences better than 10.0: 1
Number of HSP's gapped: 337
Number of HSP's successfully gapped: 15
Length of query: 140
Length of database: 6,701,793
Length adjustment: 84
Effective length of query: 56
Effective length of database: 4,356,429
Effective search space: 243960024
Effective search space used: 243960024
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.7 bits)
S2: 52 (24.6 bits)