RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9645
(98 letters)
>3f9v_A Minichromosome maintenance protein MCM; replicative helicase, DNA
replication, MCM complex, AAA+ Pro ATP-binding,
DNA-binding, helicase; 4.35A {Sulfolobus solfataricus}
Length = 595
Score = 140 bits (354), Expect = 9e-41
Identities = 34/65 (52%), Positives = 51/65 (78%)
Query: 32 EKHRVRGDINVLLCGDPGTAKSQFLKYMEKIGPRAIFTTGQGASAVGLTAYVGKHPTTKE 91
E R+RGDI++L+ GDPGTAKSQ L+++ ++ PRA++TTG+G++A GLTA V + T E
Sbjct: 320 EDTRIRGDIHILIIGDPGTAKSQMLQFISRVAPRAVYTTGKGSTAAGLTAAVVREKGTGE 379
Query: 92 WTVEA 96
+ +EA
Sbjct: 380 YYLEA 384
>3f8t_A Predicted ATPase involved in replication control, CDC46/MCM family;
helicase, MCM homolog, DNA replication, ATP-binding,
DNA-binding; 1.90A {Methanopyrus kandleri AV19}
Length = 506
Score = 114 bits (286), Expect = 2e-31
Identities = 14/84 (16%), Positives = 31/84 (36%), Gaps = 8/84 (9%)
Query: 13 MDDIKEWTNIPGNQQAGASEKHRVRGDINVLLCGDPGTAKSQFLKYMEKIGPRAIFTTGQ 72
+++ + + Q K+ ++VLL G P ++ + PR ++ +
Sbjct: 218 AEEVGKMLAL---QLFSCVGKNS--ERLHVLLAGYPVVCSEILHHVLDHLAPRGVYVDLR 272
Query: 73 GASAVGLTAYVGKHPTTKEWTVEA 96
LTA + + W + A
Sbjct: 273 RTELTDLTAVLKEDR---GWALRA 293
>2w0m_A SSO2452; RECA, SSPF, unknown FUN; 2.0A {Sulfolobus solfataricus
P2}
Length = 235
Score = 33.1 bits (76), Expect = 0.007
Identities = 11/40 (27%), Positives = 18/40 (45%), Gaps = 5/40 (12%)
Query: 36 VRGDINVLLCGDPGTAKS----QFLKYMEKIGPRAIFTTG 71
+G + L G+PGT K+ F+ + G I+ T
Sbjct: 21 PQGFF-IALTGEPGTGKTIFSLHFIAKGLRDGDPCIYVTT 59
>2dr3_A UPF0273 protein PH0284; RECA superfamily ATPase, hexamer,
structural genomics; HET: ADP; 2.00A {Pyrococcus
horikoshii}
Length = 247
Score = 32.0 bits (73), Expect = 0.017
Identities = 14/40 (35%), Positives = 19/40 (47%), Gaps = 5/40 (12%)
Query: 36 VRGDINVLLCGDPGTAKS----QFLKYMEKIGPRAIFTTG 71
++ VLL G PGT K+ QFL K+G I+
Sbjct: 21 PERNV-VLLSGGPGTGKTIFSQQFLWNGLKMGEPGIYVAL 59
>1tf7_A KAIC; homohexamer, hexamer, circadian clock protein; HET: ATP;
2.80A {Synechococcus SP} SCOP: c.37.1.11 c.37.1.11 PDB:
3s1a_A* 1u9i_A* 2gbl_A* 3dvl_A* 3k0a_A* 3k09_A* 3jzm_A*
3k0e_A* 4dug_A* 3ua2_A* 3k0c_A* 3k0f_A*
Length = 525
Score = 31.8 bits (72), Expect = 0.022
Identities = 10/35 (28%), Positives = 15/35 (42%), Gaps = 5/35 (14%)
Query: 42 VLLCGDPGTAKS----QFL-KYMEKIGPRAIFTTG 71
L+ G GT K+ QFL + + +F T
Sbjct: 42 TLVSGTSGTGKTLFSIQFLYNGIIEFDEPGVFVTF 76
Score = 29.1 bits (65), Expect = 0.17
Identities = 10/40 (25%), Positives = 16/40 (40%), Gaps = 5/40 (12%)
Query: 36 VRGDINVLLCGDPGTAKS----QFLKYMEKIGPRAIFTTG 71
+ I +L G GT K+ +F++ RAI
Sbjct: 279 FKDSI-ILATGATGTGKTLLVSRFVENACANKERAILFAY 317
>1g8p_A Magnesium-chelatase 38 kDa subunit; parallel beta sheet, P-loop,
rossman fold, AAA+, photosynthesis, metal transport;
2.10A {Rhodobacter capsulatus} SCOP: c.37.1.20 PDB:
2x31_G
Length = 350
Score = 30.1 bits (68), Expect = 0.081
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 41 NVLLCGDPGTAKS 53
VL+ GD GT KS
Sbjct: 47 GVLVFGDRGTGKS 59
>2ehv_A Hypothetical protein PH0186; KAIC, RECA ATPase, unknown function;
HET: ADP; 2.07A {Pyrococcus horikoshii} PDB: 2zts_A*
Length = 251
Score = 29.5 bits (66), Expect = 0.11
Identities = 15/41 (36%), Positives = 19/41 (46%), Gaps = 6/41 (14%)
Query: 36 VRGDINVLLCGDPGTAKS----QFL-KYMEKIGPRAIFTTG 71
G VLL G GT K+ QF+ K E+ G +F T
Sbjct: 28 PEGTT-VLLTGGTGTGKTTFAAQFIYKGAEEYGEPGVFVTL 67
>3vkg_A Dynein heavy chain, cytoplasmic; AAA+ protein, molecular motor,
microtubles, motor protein; HET: ADP SPM; 2.81A
{Dictyostelium discoideum} PDB: 3vkh_A* 3vkh_C*
Length = 3245
Score = 29.1 bits (65), Expect = 0.20
Identities = 7/22 (31%), Positives = 12/22 (54%)
Query: 36 VRGDINVLLCGDPGTAKSQFLK 57
+ ++LCG PG+ K+ L
Sbjct: 1301 LSEHRPLILCGPPGSGKTMTLT 1322
>4akg_A Glutathione S-transferase class-MU 26 kDa isozyme heavy chain
cytoplasmic; motor protein, AAA+ protein, ASCE protein,
P-loop ntpase; HET: ATP ADP; 3.30A {Schistosoma
japonicum} PDB: 4ai6_A* 4akh_A* 4aki_A* 3qmz_A
Length = 2695
Score = 28.3 bits (63), Expect = 0.37
Identities = 9/61 (14%), Positives = 20/61 (32%), Gaps = 13/61 (21%)
Query: 10 RTWMDDIKEWTNIPGNQQAGA-------SEKHR------VRGDINVLLCGDPGTAKSQFL 56
++ +I + + KH + ++LCG PG+ K+ +
Sbjct: 1225 SSFCSEIPSVSLEAHEVMRPDIVIPTIDTIKHEKIFYDLLNSKRGIILCGPPGSGKTMIM 1284
Query: 57 K 57
Sbjct: 1285 N 1285
>3ec2_A DNA replication protein DNAC; helicase loader, replication
initiation factor, ATP-binding, nucleotide-binding;
HET: DNA ADP; 2.70A {Aquifex aeolicus} PDB: 3ecc_A*
Length = 180
Score = 28.1 bits (63), Expect = 0.38
Identities = 10/36 (27%), Positives = 12/36 (33%), Gaps = 7/36 (19%)
Query: 41 NVLLCGDPGTAKSQFL------KYMEKIGPRAIFTT 70
+ G PG K+ L EK G R F
Sbjct: 40 GLTFVGSPGVGKT-HLAVATLKAIYEKKGIRGYFFD 74
>2cvh_A DNA repair and recombination protein RADB; filament formation,
homologous recombination, ATPase domain,
hyperthermophIle; HET: DNA; 2.20A {Thermococcus
kodakarensis} PDB: 2cvf_A*
Length = 220
Score = 27.1 bits (61), Expect = 0.67
Identities = 3/21 (14%), Positives = 7/21 (33%), Gaps = 1/21 (4%)
Query: 36 VRGDINVLLCGDPGTAKSQFL 56
G + + G + K+
Sbjct: 18 APGVL-TQVYGPYASGKTTLA 37
>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 = 27.5 bits (60), Expect = 0.69
Identities = 16/74 (21%), Positives = 25/74 (33%), Gaps = 12/74 (16%)
Query: 35 RVRGDINVLLCGDPGTAKS-------QFLKYMEKIGPRAIF--TTGQGASAVGLTAYVGK 85
+R NVL+ G G+ K+ K K+ IF S + + K
Sbjct: 146 ELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKM-DFKIFWLNLKNCNSPETVLEMLQK 204
Query: 86 --HPTTKEWTVEAD 97
+ WT +D
Sbjct: 205 LLYQIDPNWTSRSD 218
>2qgz_A Helicase loader, putative primosome component; structural genomics,
PSI-2, protein structure initiative; 2.40A
{Streptococcus pyogenes serotype M3}
Length = 308
Score = 26.0 bits (57), Expect = 2.0
Identities = 10/36 (27%), Positives = 13/36 (36%), Gaps = 7/36 (19%)
Query: 41 NVLLCGDPGTAKSQFL------KYMEKIGPRAIFTT 70
+ L GD G KS +L + EK G
Sbjct: 154 GLYLYGDMGIGKS-YLLAAMAHELSEKKGVSTTLLH 188
>4ag6_A VIRB4 ATPase, type IV secretory pathway VIRB4 components-like P;
hydrolase, type IV secretion, conjugation; 2.35A
{Thermoanaerobacter pseudethanolicus} PDB: 4ag5_A
Length = 392
Score = 26.1 bits (57), Expect = 2.2
Identities = 6/19 (31%), Positives = 8/19 (42%)
Query: 41 NVLLCGDPGTAKSQFLKYM 59
N + PG KS K +
Sbjct: 37 NWTILAKPGAGKSFTAKML 55
>3n70_A Transport activator; sigma-54, ntpase, PSI, MCSG, structural
genomics, center for structural genomics; 2.80A
{Escherichia coli}
Length = 145
Score = 25.6 bits (57), Expect = 2.7
Identities = 11/28 (39%), Positives = 15/28 (53%)
Query: 39 DINVLLCGDPGTAKSQFLKYMEKIGPRA 66
DI V L G PGT + +Y+ + G A
Sbjct: 24 DIAVWLYGAPGTGRMTGARYLHQFGRNA 51
>3k1j_A LON protease, ATP-dependent protease LON; ATP-binding,
nucleotide-binding, Pro hydrolase; HET: ADP PE8; 2.00A
{Thermococcus onnurineus}
Length = 604
Score = 25.8 bits (57), Expect = 3.1
Identities = 11/25 (44%), Positives = 16/25 (64%)
Query: 41 NVLLCGDPGTAKSQFLKYMEKIGPR 65
+VLL G+PGT KS + M ++ P
Sbjct: 62 HVLLIGEPGTGKSMLGQAMAELLPT 86
>1odk_A Purine nucleoside phosphorylase; alpha-beta protein, transferase,
riken structural genomics/proteomics initiative, RSGI;
1.9A {Thermus thermophilus} SCOP: c.56.2.1 PDB: 1odj_A*
1odi_A 1odl_A
Length = 235
Score = 25.5 bits (56), Expect = 3.1
Identities = 12/39 (30%), Positives = 16/39 (41%), Gaps = 5/39 (12%)
Query: 37 RGDI--NVLLCGDPGTAK---SQFLKYMEKIGPRAIFTT 70
GD+ VLL GDPG A+ FL+ +
Sbjct: 10 PGDVAERVLLPGDPGRAEWIAKTFLQNPRRYNDHRGLWG 48
>1fnn_A CDC6P, cell division control protein 6; ORC1, AAA protein, DNA
replication initation factor, cell cycle control
factor; HET: ADP; 2.00A {Pyrobaculum aerophilum} SCOP:
a.4.5.11 c.37.1.20
Length = 389
Score = 25.5 bits (55), Expect = 3.9
Identities = 7/19 (36%), Positives = 10/19 (52%)
Query: 41 NVLLCGDPGTAKSQFLKYM 59
L G PGT K+ L+ +
Sbjct: 46 RATLLGRPGTGKTVTLRKL 64
>2qi2_A Pelota, cell division protein pelota related protein; DOM34, cell
cycle; 2.90A {Thermoplasma acidophilum} SCOP: b.38.4.1
c.55.4.2 d.79.3.2
Length = 347
Score = 25.1 bits (54), Expect = 4.2
Identities = 11/56 (19%), Positives = 19/56 (33%), Gaps = 10/56 (17%)
Query: 21 NIPGNQQAGASEKHRVRGDIN---------VLLCGDPGTAKSQFLKYMEKIGPRAI 67
G G + I +++ G PG A+ +F +Y + G I
Sbjct: 162 GRSGKYAEGNYSEASYFDQIVNALKNYSNSIIILG-PGFARDRFARYCAQRGVNVI 216
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 24.9 bits (54), Expect = 5.2
Identities = 8/25 (32%), Positives = 13/25 (52%)
Query: 35 RVRGDINVLLCGDPGTAKSQFLKYM 59
R ++L+ G GT KS L+ +
Sbjct: 49 RDAEPRHLLVNGATGTGKSVLLREL 73
>3uaw_A PNP, purine nucleoside phosphorylase DEOD-type; necleoside
phosphorylase I (NP-I) family, transferase; HET: ADN
GOL; 1.20A {Bacillus cereus} PDB: 2ac7_A 3uav_A*
3uax_A* 1xe3_A 3uay_A* 3uaz_A*
Length = 235
Score = 24.8 bits (54), Expect = 5.3
Identities = 10/28 (35%), Positives = 17/28 (60%), Gaps = 2/28 (7%)
Query: 37 RGDI--NVLLCGDPGTAKSQFLKYMEKI 62
+G+I ++LL GDP AK ++E +
Sbjct: 9 QGEIAESILLPGDPLRAKYIAETFLEDV 36
>3ca8_A Protein YDCF; two domains, alpha/beta fold, helix bundle,
structural genom structure 2 function project, S2F,
unknown function; 1.80A {Escherichia coli}
Length = 266
Score = 24.7 bits (53), Expect = 5.6
Identities = 13/67 (19%), Positives = 23/67 (34%), Gaps = 6/67 (8%)
Query: 37 RGDINVLLCG-DPGTAKSQFLKYMEKIGPRAIFTTGQGASAVGLTAYVGKHPTTKEWTV- 94
+ D +L T + ++ P + + G G S L + + +HP
Sbjct: 36 QADCVILAGNAVMPTIDAACKIARDQQIPL-LISGGIGHSTTFLYSAIAQHPHYNTIRTT 94
Query: 95 ---EADI 98
EA I
Sbjct: 95 GRAEATI 101
>2qiw_A PEP phosphonomutase; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2; HET: P6G; 1.80A {Corynebacterium glutamicum atcc
13032}
Length = 255
Score = 24.5 bits (54), Expect = 5.8
Identities = 7/34 (20%), Positives = 11/34 (32%), Gaps = 6/34 (17%)
Query: 47 DPGTAKSQFLKYMEKIGPRAIFTTGQG-ASAVGL 79
D +A +E+ G + A A G
Sbjct: 29 DTWSAG-----LVEEAGFSGLTIGSHPVADATGS 57
>3nbx_X ATPase RAVA; AAA+ ATPase, alpha-beta-alpha structure, rossman
fold, hydro; HET: ADP; 2.91A {Escherichia coli}
Length = 500
Score = 24.7 bits (54), Expect = 6.0
Identities = 8/13 (61%), Positives = 9/13 (69%)
Query: 41 NVLLCGDPGTAKS 53
+V L G PG AKS
Sbjct: 43 SVFLLGPPGIAKS 55
>2qby_A CDC6 homolog 1, cell division control protein 6 homolog 1;
winged-helix domain, helix-turn-helix, AAA+ ATPase
domain, protein-DNA complex; HET: DNA SPD ADP; 3.35A
{Sulfolobus solfataricus}
Length = 386
Score = 24.6 bits (53), Expect = 6.1
Identities = 6/19 (31%), Positives = 12/19 (63%)
Query: 41 NVLLCGDPGTAKSQFLKYM 59
N+ + G GT K+ +K++
Sbjct: 47 NIFIYGLTGTGKTAVVKFV 65
>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 = 25.0 bits (54), Expect = 6.3
Identities = 21/108 (19%), Positives = 31/108 (28%), Gaps = 36/108 (33%)
Query: 15 DIKEWTNIPGNQQ-AGASEKH------------------------RVRGD-INVLLCGDP 48
D+K IP + AG H RG + V + D
Sbjct: 1746 DLKSKGLIPADATFAG----HSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPRDE 1801
Query: 49 GTAKSQFLKYMEKIGPRAIFTTGQGASAVGLTAYVGKHPTTKEWTVEA 96
+S + M I P + + + + VGK W VE
Sbjct: 1802 L-GRSNYG--MIAINPGRVAASFSQEALQYVVERVGKR---TGWLVEI 1843
>2qu8_A Putative nucleolar GTP-binding protein 1; GTPase, malaria,
structural genomics, structural genomics consortium,
SGC, unknown function; HET: GDP; 2.01A {Plasmodium
falciparum}
Length = 228
Score = 24.3 bits (53), Expect = 6.8
Identities = 9/33 (27%), Positives = 15/33 (45%), Gaps = 5/33 (15%)
Query: 42 VLLCGDPGTAKSQFLKYME----KIGPRAIFTT 70
++L G P KS F+ + + + FTT
Sbjct: 32 IILSGAPNVGKSSFMNIVSRANVDVQSYS-FTT 63
>2d0b_A RNAse HIII, ribonuclease HIII; RNA/DNA hybrid, hydrolase; 2.10A
{Geobacillus stearothermophilus} PDB: 2d0a_A 2d0c_A
3asm_A
Length = 310
Score = 24.5 bits (53), Expect = 7.0
Identities = 8/42 (19%), Positives = 13/42 (30%), Gaps = 7/42 (16%)
Query: 51 AKSQFLKYMEKIGPRAIFTTGQGASAVGLTAYVGKHPTTKEW 92
A+ FL+ ME++ +GA A
Sbjct: 245 ARYVFLEEMEQLSRAVGLLLPKGAGA-------IVDEAAARI 279
>3mb8_A Purine nucleoside phosphorylase; PNP, immucillin H, IMMH, TR;
HET: IMH; 1.90A {Toxoplasma gondii}
Length = 279
Score = 24.5 bits (53), Expect = 7.3
Identities = 7/28 (25%), Positives = 13/28 (46%), Gaps = 3/28 (10%)
Query: 37 RGDI--NVLLCGDPGTAKSQFLKYMEKI 62
+ D+ V++ GDP + + EK
Sbjct: 17 KEDVEPVVIIVGDPARTE-EVANMCEKK 43
>2ze3_A DFA0005; organic waste LEFT-OVER decomposition, alkaliphilic,
ICL/PEPM superfamily, alpha-ketoglutarate LIG
isomerase; HET: AKG; 1.65A {Deinococcus ficus}
Length = 275
Score = 24.2 bits (53), Expect = 8.2
Identities = 12/34 (35%), Positives = 15/34 (44%), Gaps = 6/34 (17%)
Query: 47 DPGTAKSQFLKYMEKIGPRAIFTTGQG-ASAVGL 79
D +A+ +E G AI TT G A A G
Sbjct: 25 DVASAR-----LLEAAGFTAIGTTSAGIAHARGR 53
>3u40_A Pnpase, purine nucleoside phosphorylase; structural genomics,
seattle structural genomics center for infectious
disease, ssgcid; HET: ADN; 2.05A {Entamoeba
histolytica} PDB: 3tl6_A*
Length = 242
Score = 24.0 bits (52), Expect = 9.1
Identities = 10/42 (23%), Positives = 15/42 (35%), Gaps = 5/42 (11%)
Query: 37 RGDI--NVLLCGDPGTAK---SQFLKYMEKIGPRAIFTTGQG 73
G+I VL+ GDP K +L + + G
Sbjct: 18 YGEIAETVLMAGDPLRVKLLADTYLTDVVQYNSVRGAVGYTG 59
>3lw7_A Adenylate kinase related protein (ADKA-like); AMP, PSI, MCSG,
structural genomics, midwest center for structural
genomics; HET: AMP; 2.30A {Sulfolobus solfataricus}
PDB: 3h0k_A
Length = 179
Score = 24.1 bits (52), Expect = 9.8
Identities = 9/22 (40%), Positives = 16/22 (72%)
Query: 42 VLLCGDPGTAKSQFLKYMEKIG 63
+L+ G PG+ KS+F K +++ G
Sbjct: 4 ILITGMPGSGKSEFAKLLKERG 25
>2vns_A Metalloreductase steap3; metal-binding, transmembrane, rossmann
fold, transport, cell cycle, transferrin, flavoprotein,
alternative splicing; HET: CIT; 2.0A {Homo sapiens} PDB:
2vq3_A*
Length = 215
Score = 24.2 bits (52), Expect = 9.9
Identities = 8/30 (26%), Positives = 13/30 (43%)
Query: 38 GDINVLLCGDPGTAKSQFLKYMEKIGPRAI 67
G+ V +CGD AK + +G +
Sbjct: 161 GNRQVPICGDQPEAKRAVSEMALAMGFMPV 190
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
0.316 0.133 0.411
Gapped
Lambda K H
0.267 0.0727 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 1,519,930
Number of extensions: 74348
Number of successful extensions: 289
Number of sequences better than 10.0: 1
Number of HSP's gapped: 289
Number of HSP's successfully gapped: 47
Length of query: 98
Length of database: 6,701,793
Length adjustment: 64
Effective length of query: 34
Effective length of database: 4,914,849
Effective search space: 167104866
Effective search space used: 167104866
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 (21.6 bits)
S2: 51 (23.4 bits)