RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12190
(105 letters)
>1z5z_A Helicase of the SNF2/RAD54 family; hydrolase, recombination,
hydrolase-recombination complex; 2.00A {Sulfolobus
solfataricus} SCOP: c.37.1.19
Length = 271
Score = 88.8 bits (221), Expect = 4e-23
Identities = 30/86 (34%), Positives = 49/86 (56%)
Query: 1 YIRIDGSVGSEERKSVVDQFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNPGIL 60
+ G + +ER ++ +FQ + VLS+ A GI LT+AN V+ + +WNP +
Sbjct: 140 VPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVE 199
Query: 61 TQAEDRAHRIGQQDSVLIQYLVAKQT 86
QA DR +RIGQ +V++ L++ T
Sbjct: 200 DQATDRVYRIGQTRNVIVHKLISVGT 225
>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 = 87.2 bits (217), Expect = 8e-22
Identities = 30/86 (34%), Positives = 49/86 (56%)
Query: 1 YIRIDGSVGSEERKSVVDQFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNPGIL 60
+ G + +ER ++ +FQ + VLS+ A GI LT+AN V+ + +WNP +
Sbjct: 369 VPFLYGELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVE 428
Query: 61 TQAEDRAHRIGQQDSVLIQYLVAKQT 86
QA DR +RIGQ +V++ L++ T
Sbjct: 429 DQATDRVYRIGQTRNVIVHKLISVGT 454
>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 = 84.4 bits (208), Expect = 1e-20
Identities = 25/101 (24%), Positives = 36/101 (35%)
Query: 1 YIRIDGSVGSEERKSVVDQFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNPGIL 60
+ ER F ED +L + G A+ +V +L +NP +L
Sbjct: 531 AAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPDLL 590
Query: 61 TQAEDRAHRIGQQDSVLIQYLVAKQTADDYLWPLVMTKLDV 101
Q R RIGQ + I ++TA L LD
Sbjct: 591 EQRIGRLDRIGQAHDIQIHVPYLEKTAQSVLVRWYHEGLDA 631
>3mwy_W Chromo domain-containing protein 1; SWI2/SNF2 ATPase, double
chromodomains, hydrolase; HET: ATG; 3.70A {Saccharomyces
cerevisiae}
Length = 800
Score = 76.0 bits (187), Expect = 1e-17
Identities = 37/88 (42%), Positives = 51/88 (57%), Gaps = 3/88 (3%)
Query: 1 YIRIDGSVGSEERKSVVDQFQYED--KFRVAVLSITAANSGITLTAANLVVFAELFWNPG 58
+ R+DG+V S +R+ +D F D F V +LS A GI L A+ VV + WNP
Sbjct: 599 FQRLDGTVPSAQRRISIDHFNSPDSNDF-VFLLSTRAGGLGINLMTADTVVIFDSDWNPQ 657
Query: 59 ILTQAEDRAHRIGQQDSVLIQYLVAKQT 86
QA RAHRIGQ++ V++ LV+K T
Sbjct: 658 ADLQAMARAHRIGQKNHVMVYRLVSKDT 685
>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 = 70.0 bits (172), Expect = 1e-15
Identities = 29/91 (31%), Positives = 48/91 (52%), Gaps = 9/91 (9%)
Query: 1 YIRIDGSVGSEERKSVVDQFQ--YEDKFRVAVLSITAANSGITLTAANLVVFAELF---W 55
Y+R+DG++ ++R +V++F +F + +LS A G+ L AN +V +F W
Sbjct: 443 YVRLDGTMSIKKRAKIVERFNNPSSPEF-IFMLSSKAGGCGLNLIGANRLV---MFDPDW 498
Query: 56 NPGILTQAEDRAHRIGQQDSVLIQYLVAKQT 86
NP QA R R GQ+ + I L++ T
Sbjct: 499 NPANDEQAMARVWRDGQKKTCYIYRLLSTGT 529
>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 = 37.9 bits (87), Expect = 2e-04
Identities = 23/96 (23%), Positives = 40/96 (41%), Gaps = 5/96 (5%)
Query: 3 RIDGSVGSEERKSVVDQFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNPGILTQ 62
D + E+K ++D+F +F V V + + G+ + +LVVF E + Q
Sbjct: 398 ENDRGLSQREQKLILDEFA-RGEFNVLV-ATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQ 455
Query: 63 AEDRAHRIGQQDSVLIQYLVAKQTADDYLWPLVMTK 98
R R ++ L+AK T D+ + K
Sbjct: 456 RRGRTGRHMPGRVII---LMAKGTRDEAYYWSSRQK 488
>3hgt_A HDA1 complex subunit 3; RECA-like domain, SWI2/SNF2 helical domain,
chromatin regulator, coiled coil, nucleus, repressor,
transcription; 2.20A {Saccharomyces cerevisiae} PDB:
3hgq_A
Length = 328
Score = 37.2 bits (86), Expect = 3e-04
Identities = 11/94 (11%), Positives = 22/94 (23%), Gaps = 11/94 (11%)
Query: 1 YIRIDGSVGSEERKSVVDQFQYEDKFRVAVLSITAANSGITLTAANLVVFAELF---WNP 57
R DG + + + ++++ +
Sbjct: 152 IKRYDGHSIKSAAAANDFSCTVHLFSSEGINFTKY--PIKSKARFDMLI---CLDTTVDT 206
Query: 58 GILT-QAEDRAHRI--GQQDSVLIQYLVAKQTAD 88
Q + R G + I LVA + D
Sbjct: 207 SQKDIQYLLQYKRERKGLERYAPIVRLVAINSID 240
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 29.9 bits (66), Expect = 0.11
Identities = 15/68 (22%), Positives = 27/68 (39%), Gaps = 1/68 (1%)
Query: 2 IRIDGSVGSEERKSVVDQFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNPGILT 61
+ G V +E R + + + V S ++GI++ + VV A + I+
Sbjct: 375 YYVSGEVDTETRNIMKTLAENGKG-IIIVASYGVFSTGISVKNLHHVVLAHGVKSKIIVL 433
Query: 62 QAEDRAHR 69
Q R R
Sbjct: 434 QTIGRVLR 441
>2r0h_A CGL3 lectin; galectin-related, sugar binding protein, chitotriose,
chitooligosaccharides; HET: CTO; 1.90A {Coprinus
cinereus} PDB: 2r0f_A*
Length = 164
Score = 27.0 bits (59), Expect = 0.91
Identities = 6/29 (20%), Positives = 9/29 (31%)
Query: 3 RIDGSVGSEERKSVVDQFQYEDKFRVAVL 31
S G EER + F + +
Sbjct: 76 PYGESRGPEERIPLEGTFGDRRDPSITIF 104
>2fwr_A DNA repair protein RAD25; DNA unwinding, XPB, DNA binding protein;
HET: DNA; 2.60A {Archaeoglobus fulgidus} SCOP: c.37.1.19
c.37.1.19 PDB: 2fzl_A*
Length = 472
Score = 27.1 bits (60), Expect = 1.3
Identities = 18/88 (20%), Positives = 37/88 (42%), Gaps = 3/88 (3%)
Query: 4 IDGSVGSEERKSVVDQFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNPGILTQA 63
I EER+ +++ F+ +FR ++S + GI + AN+ V + Q
Sbjct: 374 ITHRTSREEREEILEGFR-TGRFRA-IVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQR 431
Query: 64 EDRAHRIGQQ-DSVLIQYLVAKQTADDY 90
R R + ++ L+++ T +
Sbjct: 432 LGRILRPSKGKKEAVLYELISRGTGEVN 459
>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 = 26.1 bits (56), Expect = 2.7
Identities = 19/83 (22%), Positives = 32/83 (38%), Gaps = 5/83 (6%)
Query: 10 SEERKSVVDQFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNPGILTQAEDRAHR 69
+K V+D F+ K +++ + A+ GI + NLVV E N + Q R
Sbjct: 679 LPSQKGVLDAFK-TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGRGRA 737
Query: 70 IGQQDSVLIQYLVAKQTADDYLW 92
S I + +K +
Sbjct: 738 ---AGSKCI-LVTSKTEVVENEK 756
>2d7u_A Adenylosuccinate synthetase; structural genomics, conserved
hypothetical protein, NPPSFA; 2.50A {Pyrococcus
horikoshii}
Length = 339
Score = 25.7 bits (57), Expect = 3.5
Identities = 10/36 (27%), Positives = 14/36 (38%), Gaps = 4/36 (11%)
Query: 66 RAHRIGQQDSVLIQYLVAKQTADDYLWPLVMTKLDV 101
R R+G D + +Y A L +T LD
Sbjct: 256 RRRRVGWFDFEMARYSARINGATM----LAVTMLDK 287
>3pop_A GILR oxidase; FAD binding protein, gilvocarcin, gilvocarcin
biosynthesis, covalently bound FAD, oxidoreductase; HET:
FAD; 1.65A {Streptomyces griseoflavus} PDB: 3pqb_A*
Length = 501
Score = 25.2 bits (55), Expect = 4.5
Identities = 11/51 (21%), Positives = 19/51 (37%), Gaps = 8/51 (15%)
Query: 51 AELFW--------NPGILTQAEDRAHRIGQQDSVLIQYLVAKQTADDYLWP 93
ELFW N G++T E R+ + V + + ++P
Sbjct: 184 GELFWAHTGGGGGNFGVVTAYEFRSPEHLATEPVGLPRAAGRLHVQKVVFP 234
>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 = 25.4 bits (55), Expect = 5.5
Identities = 13/83 (15%), Positives = 24/83 (28%), Gaps = 29/83 (34%)
Query: 28 VAVLSITAANSGITLTAANLVVFAELFWNPGILTQAEDRAHRIGQQDSVLIQYLVAKQTA 87
V ++I +S + + LF+ IG + +
Sbjct: 278 VTAVAIAETDSWESFFVSVRKAITVLFF--------------IG---------VRCYEAY 314
Query: 88 -DDYLWPLVMTKL-----DVPSP 104
+ L P ++ VPSP
Sbjct: 315 PNTSLPPSILEDSLENNEGVPSP 337
>2wkk_A Galectin-2; sugar-binding protein, secreted, cell WALL, sugar
binding, sugar binding protein, beta-galactoside binding
lectin, fruiting BODY; HET: GAL NAG FUC; 1.50A
{Coprinopsis cinerea} PDB: 1ulc_A* 1ul9_A* 1ule_A*
1ulf_A* 1ulg_A* 1uld_A*
Length = 150
Score = 24.5 bits (53), Expect = 6.8
Identities = 8/36 (22%), Positives = 17/36 (47%), Gaps = 10/36 (27%)
Query: 5 DGSVGSEERKSVVDQFQ----------YEDKFRVAV 30
+G+ G EER ++F+ + D+F++
Sbjct: 69 NGAWGPEERIPYAEKFRPPNPSITVIDHGDRFQIRF 104
>3eye_A PTS system N-acetylgalactosamine-specific IIB component 1;
structural genomics, phosphotransferase, PSI-2, protein
structure initiative; 1.45A {Escherichia coli O157}
Length = 168
Score = 24.4 bits (53), Expect = 8.5
Identities = 8/42 (19%), Positives = 14/42 (33%)
Query: 16 VVDQFQYEDKFRVAVLSITAANSGITLTAANLVVFAELFWNP 57
VVD D + ++ ITA G + + +
Sbjct: 37 VVDDVVANDDIQQKLMGITAETYGFGIRFFTIEKTINVIGKA 78
>3i7j_A Beta-lactamase MB2281C; alpha-beta protein., structural genomics,
PSI-2, protein structure initiative; 2.20A
{Mycobacterium bovis}
Length = 280
Score = 24.3 bits (53), Expect = 8.6
Identities = 11/29 (37%), Positives = 14/29 (48%)
Query: 35 AANSGITLTAANLVVFAELFWNPGILTQA 63
AA G T T A+L VFA P ++
Sbjct: 144 AAGFGATSTVADLAVFAGDLLRPSTVSAQ 172
>3dqp_A Oxidoreductase YLBE; alpha-beta protein., structural genomics,
PSI-2, protein structure initiative; 1.40A {Lactococcus
lactis subsp}
Length = 219
Score = 24.2 bits (53), Expect = 8.7
Identities = 10/29 (34%), Positives = 12/29 (41%)
Query: 63 AEDRAHRIGQQDSVLIQYLVAKQTADDYL 91
+ IG L Y +AK AD YL
Sbjct: 109 SLQPEKWIGAGFDALKDYYIAKHFADLYL 137
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 0.388
Gapped
Lambda K H
0.267 0.0692 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,507,458
Number of extensions: 76498
Number of successful extensions: 162
Number of sequences better than 10.0: 1
Number of HSP's gapped: 159
Number of HSP's successfully gapped: 28
Length of query: 105
Length of database: 6,701,793
Length adjustment: 70
Effective length of query: 35
Effective length of database: 4,747,323
Effective search space: 166156305
Effective search space used: 166156305
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: 51 (23.5 bits)