RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy2050
(131 letters)
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 108 bits (271), Expect = 1e-28
Identities = 31/68 (45%), Positives = 48/68 (70%), Gaps = 2/68 (2%)
Query: 8 RNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHL 67
+ +L +QL G+NW+A + ++ GILADEMGLGKT+Q ++F+++L A R PH+
Sbjct: 233 KGGELRDFQLTGINWMAFLWSKGDNGILADEMGLGKTVQTVAFISWLIFAR--RQNGPHI 290
Query: 68 IIVPSSTL 75
I+VP ST+
Sbjct: 291 IVVPLSTM 298
>1z63_A Helicase of the SNF2/RAD54 hamily; protein-DNA complex,
hydrolase/DNA complex complex; 3.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19 c.37.1.19 PDB: 1z6a_A
Length = 500
Score = 92.6 bits (231), Expect = 3e-23
Identities = 21/59 (35%), Positives = 32/59 (54%), Gaps = 3/59 (5%)
Query: 15 YQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSS 73
YQ+ G +W+ M+ LAD+MGLGKT+Q I+ + + +P L+I P S
Sbjct: 41 YQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVFSDAKKEN---ELTPSLVICPLS 96
>1z3i_X Similar to RAD54-like; recombination ATPase helicase,
recombination-DNA binding COM; 3.00A {Danio rerio} SCOP:
c.37.1.19 c.37.1.19
Length = 644
Score = 90.1 bits (224), Expect = 3e-22
Identities = 21/72 (29%), Positives = 34/72 (47%), Gaps = 7/72 (9%)
Query: 11 KLAGYQLVGLNWLAVMHN-----QQLCGILADEMGLGKTIQVISFLAYLHEAG-LSRP-K 63
L +Q G+ +L I+ADEMGLGKT+Q I+ + L + +P
Sbjct: 55 VLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSPDCKPEI 114
Query: 64 SPHLIIVPSSTL 75
+++ PSS +
Sbjct: 115 DKVIVVSPSSLV 126
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 75.5 bits (185), Expect = 3e-17
Identities = 22/71 (30%), Positives = 34/71 (47%), Gaps = 5/71 (7%)
Query: 5 LKARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKS 64
L+ + L +QL + + H ++ LADE+GLGKTI+ L +G +
Sbjct: 147 LRGQRTSLIPHQLNIAHDVGRRHAPRVL--LADEVGLGKTIEAGMILHQQLLSGAAE--- 201
Query: 65 PHLIIVPSSTL 75
LIIVP +
Sbjct: 202 RVLIIVPETLQ 212
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication,
DNA repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 33.6 bits (76), Expect = 0.011
Identities = 15/73 (20%), Positives = 27/73 (36%), Gaps = 9/73 (12%)
Query: 5 LKARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKS 64
L+ ++ YQ V N ++ GLGKT+ + Y L++
Sbjct: 3 LRRDLIQPRIYQEVIYAK-CKETN----CLIVLPTGLGKTLIAMMIAEYR----LTKYGG 53
Query: 65 PHLIIVPSSTLCK 77
L++ P+ L
Sbjct: 54 KVLMLAPTKPLVL 66
>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 = 32.9 bits (74), Expect = 0.025
Identities = 21/113 (18%), Positives = 35/113 (30%), Gaps = 25/113 (22%)
Query: 6 KARNLKLAGYQLVGLNWLAVMHNQQLCGILADEM-GLGKT---IQVISFLAYLHEAG--- 58
L+ A +L + + G + G GKT + V +
Sbjct: 136 PYLKLRQALLELRPAKNVLI-D-----G-----VLGSGKTWVALDVCLSYKVQCKMDFKI 184
Query: 59 ----LSRPKSPHLIIVPSSTLCKYKVPSRWRTSNCDKTSPVKPQTITVAQLRV 107
L SP ++ L Y++ W TS D +S + I Q +
Sbjct: 185 FWLNLKNCNSPETVLEMLQKLL-YQIDPNW-TSRSDHSSNI-KLRIHSIQAEL 234
Score = 26.0 bits (56), Expect = 4.7
Identities = 23/136 (16%), Positives = 41/136 (30%), Gaps = 50/136 (36%)
Query: 32 CGIL--------ADEMGLGKTIQVIS---------------FLAYLHEAGLSRPK----- 63
C IL D + T + L YL P+
Sbjct: 266 CKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTT 325
Query: 64 SPHLI-IVPSST---LCKYKVPSRWRTSNCDKTSPVKPQTI--TVAQLRVPECDQSPSQE 117
+P + I+ S L + W+ NCDK + I ++ L E +
Sbjct: 326 NPRRLSIIAESIRDGLATWD---NWKHVNCDKLT----TIIESSLNVLEPAEYRKM---- 374
Query: 118 VGYNDIIMY---LNIP 130
++ + ++ +IP
Sbjct: 375 --FDRLSVFPPSAHIP 388
>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 = 0.26
Identities = 23/96 (23%), Positives = 37/96 (38%), Gaps = 23/96 (23%)
Query: 2 TY--ELKARNLKLAGYQ----LVGLNWLAVMHNQQLCGILADEMGLGKTI-QVISFLAYL 54
Y EL R+L YQ LVG L + L ++ + K Q ++ L +L
Sbjct: 168 DYFEEL--RDL----YQTYHVLVGD--LIKFSAETLSELIRTTLDAEKVFTQGLNILEWL 219
Query: 55 HEAGLSRPKSPHLIIVPSS-------TLCKYKVPSR 83
+ P +L+ +P S L Y V ++
Sbjct: 220 ENPS-NTPDKDYLLSIPISCPLIGVIQLAHYVVTAK 254
>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 = 29.6 bits (67), Expect = 0.27
Identities = 21/98 (21%), Positives = 36/98 (36%), Gaps = 27/98 (27%)
Query: 24 AVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKSPHLIIVPSSTLCKYKVPSR 83
A+ N + I+ G GKT QV ++ + + ++ IV
Sbjct: 72 AISQNSVV--IIRGATGCGKTTQVPQ---FILDDFIQNDRAAECNIV-----V------- 114
Query: 84 WRTSNCDKTSPVKPQTITVAQLRV-PECDQSPSQEVGY 120
T P + ++VA+ RV E + P + GY
Sbjct: 115 --------TQPRRISAVSVAE-RVAFERGEEPGKSCGY 143
>3dzo_A Rhoptry kinase domain; parasitic disease, transferase, structural
genomics, structural genomics consortium, SGC; 1.80A
{Toxoplasma gondii}
Length = 413
Score = 28.1 bits (62), Expect = 0.81
Identities = 12/30 (40%), Positives = 13/30 (43%)
Query: 30 QLCGILADEMGLGKTIQVISFLAYLHEAGL 59
L L T+QVI LA LH GL
Sbjct: 203 STHKSLVHHARLQLTLQVIRLLASLHHYGL 232
>2o5u_A Thioesterase; putative thioesterese,, hydrolase; 1.91A
{Pseudomonas aeruginosa} SCOP: d.38.1.1 PDB: 2av9_A
2o6t_A 2o6b_A 2o6u_A
Length = 148
Score = 27.4 bits (61), Expect = 0.94
Identities = 9/33 (27%), Positives = 14/33 (42%)
Query: 52 AYLHEAGLSRPKSPHLIIVPSSTLCKYKVPSRW 84
YL E G + +I + S+ C Y P +
Sbjct: 47 TYLIERGGLDIQGGEVIGLVVSSSCDYFAPVAF 79
>3byv_A Rhoptry kinase; malaria, transferase, structural genomics,
structural genomics consortium, SGC; 1.80A {Toxoplasma
gondii} PDB: 2w1z_A
Length = 377
Score = 26.5 bits (58), Expect = 3.5
Identities = 12/33 (36%), Positives = 14/33 (42%)
Query: 27 HNQQLCGILADEMGLGKTIQVISFLAYLHEAGL 59
+ L L T+QVI LA LH GL
Sbjct: 195 SHSSTHKSLVHHARLQLTLQVIRLLASLHHYGL 227
>3q60_A ROP5B; pseudokinase, transferase; HET: ATP; 1.72A {Toxoplasma
gondii} PDB: 3q5z_A*
Length = 371
Score = 26.2 bits (57), Expect = 3.6
Identities = 8/27 (29%), Positives = 9/27 (33%)
Query: 33 GILADEMGLGKTIQVISFLAYLHEAGL 59
G T Q+I A L GL
Sbjct: 189 GDEGILALHILTAQLIRLAANLQSKGL 215
>2nuj_A Thioesterase superfamily; YP_509914.1, structural genomics,
protein structure initiative, joint center for
structural G JCSG, hydrolase; 2.00A {Jannaschia} SCOP:
d.38.1.1
Length = 163
Score = 25.1 bits (55), Expect = 6.3
Identities = 4/33 (12%), Positives = 8/33 (24%)
Query: 52 AYLHEAGLSRPKSPHLIIVPSSTLCKYKVPSRW 84
+L ++ +V C Y
Sbjct: 59 PFLKARHVTDYGPTSPRLVLKQVHCTYLAEMGM 91
>4a2q_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.40A {Anas platyrhynchos}
Length = 797
Score = 25.3 bits (54), Expect = 9.6
Identities = 11/73 (15%), Positives = 21/73 (28%), Gaps = 4/73 (5%)
Query: 5 LKARNLKLAGYQLVGLNWLAVMHNQQLCGILADEMGLGKTIQVISFLAYLHEAGLSRPKS 64
K YQ+ N +C G GKT I + + + K+
Sbjct: 242 PVYETKKARSYQIELAQPAINGKNALIC----APTGSGKTFVSILICEHHFQNMPAGRKA 297
Query: 65 PHLIIVPSSTLCK 77
+ + + +
Sbjct: 298 KVVFLATKVPVYE 310
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
0.320 0.135 0.414
Gapped
Lambda K H
0.267 0.0435 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,914,055
Number of extensions: 96519
Number of successful extensions: 217
Number of sequences better than 10.0: 1
Number of HSP's gapped: 211
Number of HSP's successfully gapped: 18
Length of query: 131
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 48
Effective length of database: 4,384,350
Effective search space: 210448800
Effective search space used: 210448800
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 (21.8 bits)
S2: 52 (24.6 bits)