RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3145
(396 letters)
>2yjt_D ATP-dependent RNA helicase SRMB, regulator of ribonuclease activity
A; hydrolase inhibitor-hydrolase complex, DEAD box RNA
helicase; 2.90A {Escherichia coli}
Length = 170
Score = 154 bits (391), Expect = 9e-46
Identities = 58/157 (36%), Positives = 91/157 (57%), Gaps = 1/157 (0%)
Query: 138 HLDRK-ALLAALVCRTFKDHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLES 196
L+ K ALL L+ + +++FV + HE+ L GI L G + Q R E+
Sbjct: 13 DLEHKTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEGEMVQGKRNEA 72
Query: 197 LRKFKDEETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVS 256
+++ + +VL+ATDVAARG+DI V V N+ MP S + Y+HR+GRTARAG+ G ++S
Sbjct: 73 IKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAIS 132
Query: 257 MAGEVDRKLVKQVIKNAKNPVKHRIIPPGYPRLKTPS 293
+ D L+ +V + + P+K R+I P+ + PS
Sbjct: 133 LVEAHDHLLLGKVGRYIEEPIKARVIDELRPKTRAPS 169
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 145 bits (368), Expect = 4e-42
Identities = 47/141 (33%), Positives = 78/141 (55%), Gaps = 6/141 (4%)
Query: 141 RKALLAALVCRTFKDHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKF 200
LL L + +IF K + +H L L G++A +HG Q R +++ F
Sbjct: 43 MVYLLECL--QKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAF 100
Query: 201 KDEETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVS-MAG 259
++ + DVL+ATDVA++GLD ++ VINY MP +E+Y+HR+GRT +G G++ + +
Sbjct: 101 REGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRTGCSGNTGIATTFINK 160
Query: 260 EVDRKLV---KQVIKNAKNPV 277
D ++ K ++ AK V
Sbjct: 161 ACDESVLMDLKALLLEAKQKV 181
>2jgn_A DBX, DDX3, ATP-dependent RNA helicase DDX3X; phosphorylation,
nucleotide-binding, hydrolase, RNA-binding, ATP-binding,
DNA-binding, nuclear protein; 1.91A {Homo sapiens}
Length = 185
Score = 145 bits (367), Expect = 5e-42
Identities = 49/131 (37%), Positives = 74/131 (56%)
Query: 141 RKALLAALVCRTFKDHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKF 200
R LL L T++FV TK+ A + L G +HG+ +Q R E+L +F
Sbjct: 33 RSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQF 92
Query: 201 KDEETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGE 260
+ ++ +L+AT VAARGLDI VK VIN+ +P +E Y+HR+GRT R G G++ S E
Sbjct: 93 RSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNE 152
Query: 261 VDRKLVKQVIK 271
+ + K ++
Sbjct: 153 RNINITKDLLD 163
>3eaq_A Heat resistant RNA dependent ATPase; DEAD box RNA helicase, dimer,
ATP-binding, helicase, hydrolase, nucleotide-binding;
2.30A {Thermus thermophilus} PDB: 3ear_A 3eas_A
Length = 212
Score = 142 bits (361), Expect = 9e-41
Identities = 64/197 (32%), Positives = 92/197 (46%), Gaps = 24/197 (12%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
D M+F TK E E+ L LG A LHG+L+Q R L F+ E VL+ATDVA
Sbjct: 32 DRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVA 91
Query: 215 ARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGEVDRKLVKQVIKNAK 274
ARGLDI V V++YR+P E Y HR GRT RAG+GG V + G +R+ V+ + +
Sbjct: 92 ARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVG 151
Query: 275 NPVKHRIIPPGYPRLKTPSFPPPPLAEIVDKYRAKVEAIEGEVQKILTEEKH------DR 328
K PP E+++ K + + ++ ++ R
Sbjct: 152 RRFKRV--------------NPPTPEEVLEA---KWRHLLARLARVPEKDYRLYQDFAGR 194
Query: 329 LLNKAD-EQVSKAEKML 344
L + E V+ +L
Sbjct: 195 LFAEGRVEVVAALLALL 211
>3i5x_A ATP-dependent RNA helicase MSS116; protein-RNA complex, RNA
helicase, DEAD-BOX, ATP-binding, HE hydrolase,
mitochondrion; HET: ANP; 1.90A {Saccharomyces
cerevisiae} PDB: 3i5y_A* 3i61_A* 3i62_A* 3sqx_A*
Length = 563
Score = 149 bits (378), Expect = 3e-40
Identities = 46/160 (28%), Positives = 79/160 (49%), Gaps = 4/160 (2%)
Query: 128 LLCFRIRKDTHLDRKALLAALVCRTFKDHTMIFVPTKREAHEMHILL---GLLGIKAGEL 184
++ + + + + R +IF PT + + +L + E
Sbjct: 313 VISEKFANSIFAAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEF 372
Query: 185 HGNLTQPSRLESLRKFKDEETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGR 244
HG +TQ R +++FK +E+ +L+ TDV ARG+D V V+ +P L +YIHR+GR
Sbjct: 373 HGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGR 432
Query: 245 TARAGKGGVSVSMAGEVDRKLVKQVIKNAKNPVKHRIIPP 284
TAR+GK G SV + + V++ +++AKN V +
Sbjct: 433 TARSGKEGSSVLFICKDELPFVRE-LEDAKNIVIAKQEKY 471
>3i32_A Heat resistant RNA dependent ATPase; RNA helicase, dimer, RNA
recognition motif, ATP-BIND helicase,
nucleotide-binding; 2.80A {Thermus thermophilus}
Length = 300
Score = 142 bits (361), Expect = 8e-40
Identities = 67/222 (30%), Positives = 99/222 (44%), Gaps = 26/222 (11%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
D M+F TK E E+ L LG A LHG+++Q R + F+ E VL+ATDVA
Sbjct: 29 DRAMVFTRTKAETEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVA 88
Query: 215 ARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGEVDRKLVKQVIKNAK 274
ARGLDI V V++YRMP E Y HR GRT RAG+GG V + G +R+ V+ + +
Sbjct: 89 ARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVG 148
Query: 275 NPVKHRIIPPGYPRLKTPSFPPPPLAEIVDKYRAKVEAIEGEVQKILTEEKH------DR 328
K PP E+++ K + + ++ ++ R
Sbjct: 149 RRFKRV--------------NPPTPEEVLEA---KWRHLLARLARVPEKDYRLYQDFAGR 191
Query: 329 LLNKAD-EQVSKAEKMLKEKKPLHEN--PPREWFQTKKERAA 367
L + E V+ +L P + E ++T K
Sbjct: 192 LFAEGRVEVVAALLALLLGGAPAERSLLTGEEGWRTYKATGP 233
>3sqw_A ATP-dependent RNA helicase MSS116, mitochondrial; RECA fold, RNA
dependent ATPase, RNA helicase; HET: ANP; 1.91A
{Saccharomyces cerevisiae S288C}
Length = 579
Score = 147 bits (373), Expect = 1e-39
Identities = 46/149 (30%), Positives = 77/149 (51%), Gaps = 8/149 (5%)
Query: 143 ALLAALVCRTFKDH----TMIFVPTKREAHEMHILL---GLLGIKAGELHGNLTQPSRLE 195
A + + + + +IF PT + + +L + E HG +TQ R
Sbjct: 273 AAVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTS 332
Query: 196 SLRKFKDEETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSV 255
+++FK +E+ +L+ TDV ARG+D V V+ +P L +YIHR+GRTAR+GK G SV
Sbjct: 333 LVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSV 392
Query: 256 SMAGEVDRKLVKQVIKNAKNPVKHRIIPP 284
+ + V++ +++AKN V +
Sbjct: 393 LFICKDELPFVRE-LEDAKNIVIAKQEKY 420
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 143 bits (363), Expect = 6e-39
Identities = 49/131 (37%), Positives = 74/131 (56%)
Query: 141 RKALLAALVCRTFKDHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKF 200
R LL L T++FV TK+ A + L G +HG+ +Q R E+L +F
Sbjct: 263 RSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQF 322
Query: 201 KDEETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGE 260
+ ++ +L+AT VAARGLDI VK VIN+ +P +E Y+HR+GRT R G G++ S E
Sbjct: 323 RSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGRVGNLGLATSFFNE 382
Query: 261 VDRKLVKQVIK 271
+ + K ++
Sbjct: 383 RNINITKDLLD 393
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 136 bits (344), Expect = 7e-39
Identities = 43/124 (34%), Positives = 68/124 (54%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
D +IF TK +++ L LG ++HG + Q R + + +FK E L+ATDVA
Sbjct: 36 DSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEYRYLVATDVA 95
Query: 215 ARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGEVDRKLVKQVIKNAK 274
ARG+DI + VINY +P E Y+HR GRT RAG G ++S +++ + + +
Sbjct: 96 ARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFEKRFLADIEEYIG 155
Query: 275 NPVK 278
++
Sbjct: 156 FEIQ 159
>1hv8_A Putative ATP-dependent RNA helicase MJ0669; RNA-binding protein,
ATPase, RNA binding protein; 3.00A {Methanocaldococcus
jannaschii} SCOP: c.37.1.19 c.37.1.19
Length = 367
Score = 139 bits (353), Expect = 6e-38
Identities = 48/121 (39%), Positives = 79/121 (65%)
Query: 158 MIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVAARG 217
++F TKR+ E+ +L +G KAG +HG+L+Q R + +R FK ++ +LIATDV +RG
Sbjct: 242 LVFCKTKRDTKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVMSRG 301
Query: 218 LDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGEVDRKLVKQVIKNAKNPV 277
+D+ + VINY +P + E Y+HR+GRT RAGK G ++S+ + K ++ + + K +
Sbjct: 302 IDVNDLNCVINYHLPQNPESYMHRIGRTGRAGKKGKAISIINRREYKKLRYIERAMKLKI 361
Query: 278 K 278
K
Sbjct: 362 K 362
>2db3_A ATP-dependent RNA helicase VASA; DEAD-BOX, protein-RNA complex,
ATPase, riken structural genomics/proteomics initiative,
RSGI; HET: ANP; 2.20A {Drosophila melanogaster}
Length = 434
Score = 139 bits (354), Expect = 1e-37
Identities = 53/132 (40%), Positives = 73/132 (55%), Gaps = 3/132 (2%)
Query: 141 RKALLAALVCRTFKDHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKF 200
R L+ L D T++FV TKR A + L +HG+ Q R ++LR F
Sbjct: 289 RSKLIEIL--SEQADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQREQALRDF 346
Query: 201 KDEETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVS-MAG 259
K+ VLIAT VA+RGLDI+ +K VINY MP ++ Y+HR+GRT R G G + S
Sbjct: 347 KNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFFDP 406
Query: 260 EVDRKLVKQVIK 271
E DR + ++K
Sbjct: 407 EKDRAIAADLVK 418
>1t5i_A C_terminal domain of A probable ATP-dependent RNA helicase;
RECA-like fold, PRE-mRNA processing protein; 1.90A {Homo
sapiens} SCOP: c.37.1.19
Length = 172
Score = 128 bits (324), Expect = 8e-36
Identities = 37/116 (31%), Positives = 61/116 (52%), Gaps = 1/116 (0%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
+ +IFV + + + LL A +H + Q RL ++FKD + +L+AT++
Sbjct: 32 NQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLF 91
Query: 215 ARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSM-AGEVDRKLVKQV 269
RG+DI V NY MP + Y+HRV R R G G++++ + E D K++ V
Sbjct: 92 GRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDV 147
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 135 bits (343), Expect = 1e-35
Identities = 44/162 (27%), Positives = 69/162 (42%), Gaps = 20/162 (12%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
++IF K A E+ + G L GNL R + F+ + VL+ T+V
Sbjct: 358 GQSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVI 417
Query: 215 ARGLDIRGVKTVINYRMP------HSLEHYIHRVGRTARAGKGGVSVSMAGEVDRKLVKQ 268
ARG+D+ V V+NY MP + Y+HR+GRT R G+ GVS++ V K +
Sbjct: 418 ARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINF---VHDKKSWE 474
Query: 269 VIKNAKNPVKHRIIPPGYPRLKTPSFPPPPLAEIVDKYRAKV 310
+ + + I R+ T E ++K
Sbjct: 475 EMNAIQEYFQRPI-----TRVPTDD------YEELEKVVKNA 505
>2z0m_A 337AA long hypothetical ATP-dependent RNA helicase DEAD;
ATP-binding, hydrolase, nucleotide-binding, RNA binding
protein, structural genomics; 1.90A {Sulfolobus
tokodaii}
Length = 337
Score = 129 bits (326), Expect = 2e-34
Identities = 46/121 (38%), Positives = 66/121 (54%), Gaps = 6/121 (4%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
++FV T+ + L L A EL G+L Q R ++ F++ E D+LI TDVA
Sbjct: 221 KGVIVFVRTRNRVAK----LVRLFDNAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVA 276
Query: 215 ARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGEVDRKL--VKQVIKN 272
+RGLDI V+ VIN+ P L YIHR+GRT R G+ G +++ VK+V +
Sbjct: 277 SRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNEYWLEKEVKKVSQK 336
Query: 273 A 273
A
Sbjct: 337 A 337
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 122 bits (309), Expect = 9e-34
Identities = 36/115 (31%), Positives = 66/115 (57%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
+IF T+R+ E+ L ++ +L Q R +++F+ + +LI+TD+
Sbjct: 31 TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLL 90
Query: 215 ARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGEVDRKLVKQV 269
ARG+D++ V VINY +P + E+YIHR+GR R G+ GV+++ D ++++
Sbjct: 91 ARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMREL 145
>1xti_A Probable ATP-dependent RNA helicase P47; alpha-beta fold, gene
regulation; 1.95A {Homo sapiens} SCOP: c.37.1.19
c.37.1.19 PDB: 1xtj_A* 1xtk_A
Length = 391
Score = 127 bits (321), Expect = 2e-33
Identities = 37/116 (31%), Positives = 62/116 (53%), Gaps = 1/116 (0%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
+ +IFV + + + LL A +H + Q RL ++FKD + +L+AT++
Sbjct: 251 NQVVIFVKSVQRCIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLF 310
Query: 215 ARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVS-MAGEVDRKLVKQV 269
RG+DI V NY MP + Y+HRV R R G G++++ ++ E D K++ V
Sbjct: 311 GRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKILNDV 366
>1s2m_A Putative ATP-dependent RNA helicase DHH1; ATP-binding, RNA-binding,
RNA binding protein; 2.10A {Saccharomyces cerevisiae}
SCOP: c.37.1.19 c.37.1.19 PDB: 2wax_A* 2way_A
Length = 400
Score = 126 bits (320), Expect = 5e-33
Identities = 30/113 (26%), Positives = 57/113 (50%)
Query: 157 TMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVAAR 216
+IF + + + LG H + Q R + +F+ + L+ +D+ R
Sbjct: 261 AIIFCNSTNRVELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTR 320
Query: 217 GLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGEVDRKLVKQV 269
G+DI+ V VIN+ P + E Y+HR+GR+ R G G+++++ DR + ++
Sbjct: 321 GIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFNLYKI 373
>3pey_A ATP-dependent RNA helicase DBP5; RECA, DEAD-BOX, ATPase, helicase,
mRNA-export, nuclear pore, hydrolase-RNA complex; HET:
ADP; 1.40A {Saccharomyces cerevisiae} PDB: 3pew_A*
3pex_A* 3pez_A* 3rrm_A* 3rrn_A* 2kbe_A 3gfp_A 2kbf_A
3pev_A* 3peu_A*
Length = 395
Score = 126 bits (319), Expect = 5e-33
Identities = 43/136 (31%), Positives = 70/136 (51%), Gaps = 6/136 (4%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
++IFV TK+ A+ ++ L G + LHG+L R + F++ + VLI T+V
Sbjct: 244 GSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVL 303
Query: 215 ARGLDIRGVKTVINYRMPHSL------EHYIHRVGRTARAGKGGVSVSMAGEVDRKLVKQ 268
ARG+DI V V+NY +P YIHR+GRT R G+ GV++S + + +
Sbjct: 304 ARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKNSFNILS 363
Query: 269 VIKNAKNPVKHRIIPP 284
I+ ++ +P
Sbjct: 364 AIQKYFGDIEMTRVPT 379
>2rb4_A ATP-dependent RNA helicase DDX25; rossmann fold, structural
genomics, structural consortium, SGC, alternative
initiation, ATP-binding, devel protein; 2.80A {Homo
sapiens}
Length = 175
Score = 120 bits (303), Expect = 7e-33
Identities = 38/118 (32%), Positives = 64/118 (54%), Gaps = 6/118 (5%)
Query: 157 TMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVAAR 216
+IF T+R A + + + G + L G LT R +++F+D + VLI T+V AR
Sbjct: 37 AIIFCQTRRNAKWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCAR 96
Query: 217 GLDIRGVKTVINYRMPHS------LEHYIHRVGRTARAGKGGVSVSMAGEVDRKLVKQ 268
G+D++ V V+N+ +P E Y+HR+GRT R GK G++ +M + + +
Sbjct: 97 GIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMK 154
>2j0s_A ATP-dependent RNA helicase DDX48; mRNA processing, phosphorylation,
rRNA processing, mRNA splicing, mRNA transport; HET:
ANP; 2.21A {Homo sapiens} SCOP: c.37.1.19 c.37.1.19 PDB:
2j0q_A* 2hyi_C* 3ex7_C* 2xb2_A* 2hxy_A 2j0u_A 2j0u_B
2zu6_A
Length = 410
Score = 124 bits (314), Expect = 3e-32
Identities = 38/115 (33%), Positives = 67/115 (58%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
+IF TKR+ + + +HG++ Q R +++F+ + VLI+TDV
Sbjct: 277 TQAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVW 336
Query: 215 ARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGEVDRKLVKQV 269
ARGLD+ V +INY +P++ E YIHR+GR+ R G+ GV+++ D ++++ +
Sbjct: 337 ARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRILRDI 391
>3eiq_A Eukaryotic initiation factor 4A-I; PDCD4, anti-oncogene, apoptosis,
cell cycle, nucleus, phosph RNA-binding, ATP-binding,
helicase, hydrolase; 3.50A {Homo sapiens}
Length = 414
Score = 124 bits (314), Expect = 4e-32
Identities = 39/115 (33%), Positives = 69/115 (60%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
+IF+ T+R+ + + +HG++ Q R +R+F+ + VLI TD+
Sbjct: 281 TQAVIFINTRRKVDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSSRVLITTDLL 340
Query: 215 ARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGEVDRKLVKQV 269
ARG+D++ V VINY +P + E+YIHR+GR R G+ GV+++M E D++ ++ +
Sbjct: 341 ARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRTLRDI 395
>1fuu_A Yeast initiation factor 4A; IF4A, helicase, DEAD-box protein,
translation; 2.50A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 2vso_A* 2vsx_A*
Length = 394
Score = 124 bits (313), Expect = 4e-32
Identities = 36/115 (31%), Positives = 66/115 (57%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
+IF T+R+ E+ L ++ +L Q R +++F+ + +LI+TD+
Sbjct: 260 TQAVIFCNTRRKVEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLL 319
Query: 215 ARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGEVDRKLVKQV 269
ARG+D++ V VINY +P + E+YIHR+GR R G+ GV+++ D ++++
Sbjct: 320 ARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMREL 374
>3fht_A ATP-dependent RNA helicase DDX19B; DBP5, DEAD-box helicase, RNA
dependent ATPase, mRNA export, nucleocytoplasmic
transport, NUP214, CAN; HET: ANP; 2.20A {Homo sapiens}
PDB: 3ews_A* 3g0h_A* 3fhc_B
Length = 412
Score = 120 bits (304), Expect = 9e-31
Identities = 37/109 (33%), Positives = 58/109 (53%), Gaps = 6/109 (5%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
MIF T++ A + L G + L G + R + +F++ + VL+ T+V
Sbjct: 267 AQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVC 326
Query: 215 ARGLDIRGVKTVINYRMP------HSLEHYIHRVGRTARAGKGGVSVSM 257
ARG+D+ V VIN+ +P E Y+HR+GRT R GK G++V+M
Sbjct: 327 ARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 375
>3fmp_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore
complex, nucleocytoplasmic trans mRNA export, protein
interaction, beta-propeller; HET: ADP; 3.19A {Homo
sapiens}
Length = 479
Score = 120 bits (304), Expect = 2e-30
Identities = 37/109 (33%), Positives = 58/109 (53%), Gaps = 6/109 (5%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
MIF T++ A + L G + L G + R + +F++ + VL+ T+V
Sbjct: 334 AQAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVC 393
Query: 215 ARGLDIRGVKTVINYRMP------HSLEHYIHRVGRTARAGKGGVSVSM 257
ARG+D+ V VIN+ +P E Y+HR+GRT R GK G++V+M
Sbjct: 394 ARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNM 442
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 107 bits (268), Expect = 7e-26
Identities = 38/174 (21%), Positives = 66/174 (37%), Gaps = 21/174 (12%)
Query: 147 ALVCRTFKDHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETD 206
+ F+D +IF T+ E E++ L GE + + FK + +
Sbjct: 245 VELLEIFRDGILIFAQTEEEGKELYEYLKRFKFNVGETWSEFEK-----NFEDFKVGKIN 299
Query: 207 VLIATDV----AARGLDIR-GVKTVINYRMPHSLEH--YIHRVGRTARAGKGGVS--VSM 257
+LI RG+D+ +K VI + P + YI GR++R G + VS+
Sbjct: 300 ILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQASGRSSRILNGVLVKGVSV 359
Query: 258 AGEVDRKLVKQVIKNAKNPVKHRIIPPGYPRLKTPSFPPPPLAEIVDKYRAKVE 311
E D ++ + + + II K L V++ R + E
Sbjct: 360 IFEEDEEIFESLKTRLLLIAEEEIIEEAEANWK-------ELVHEVEESRRRSE 406
>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 = 79.1 bits (194), Expect = 4e-16
Identities = 38/163 (23%), Positives = 58/163 (35%), Gaps = 13/163 (7%)
Query: 125 LLCLLCFRIRKDTHLDRKALLAALVCRTFKDHT----MIFVPTKREAHEMHILLGLLGIK 180
+ LL + L ++ + ++F + A ++ L GIK
Sbjct: 328 AISLLVQAKEIGLDHPKMDKLKEIIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIK 387
Query: 181 AGELHG--------NLTQPSRLESLRKFKDEETDVLIATDVAARGLDIRGVKTVINYRMP 232
A G L+Q + L +F E +VL+AT V GLD+ V V+ Y
Sbjct: 388 AKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPV 447
Query: 233 HSLEHYIHRVGRTARAGKGG-VSVSMAGEVDRKLVKQVIKNAK 274
S I R GRT R G + + G D + K
Sbjct: 448 PSAIRSIQRRGRTGRHMPGRVIILMAKGTRDEAYYWSSRQKEK 490
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.70A {Anas platyrhynchos}
Length = 936
Score = 60.7 bits (146), Expect = 4e-10
Identities = 42/233 (18%), Positives = 81/233 (34%), Gaps = 18/233 (7%)
Query: 156 HTMIFVPTKREAHEMHILL----GLLGIKAGELHG--------NLTQPSRLESLRKFKD- 202
T++F T+ + + L IK G L G +T PS+ L FK
Sbjct: 633 RTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTS 692
Query: 203 EETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGEVD 262
++ +LIAT VA G+DI V+ Y ++ I GR RA G + + + +
Sbjct: 693 KDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRA-AGSKCILVTSKTE 750
Query: 263 RKLVKQVIKNAKNPVKHRIIPPGYPRLKTPSFPPPPLAEIVDKYRAKVEAIEGEVQKILT 322
++ + + + + + + + K R ++ E++ +
Sbjct: 751 VVENEKCNRYKEEMMNKAV---EKIQKWDEETFAKKIHNLQMKERVLRDSRRKEIKPKVV 807
Query: 323 EEKHDRLLNKADEQVSKAEKMLKEKKPLHENPPREWFQTKKERAAIKTSQAGE 375
E + + L K + + K H + + + K Q
Sbjct: 808 EGQKNLLCGKCKAYACSTDDIRIIKDSHHIVLGEAFKERYTTKPHKKPMQFDG 860
>3o8b_A HCV NS3 protease/helicase; ntpase, RNA, translocation, protein-RNA
compl protease/ntpase/helicase, hydrolase; 1.95A
{Hepatitis c virus} PDB: 3o8c_A* 3o8d_A* 3o8r_A* 4a92_A*
1cu1_A 2zjo_A* 1a1v_A* 1hei_A 3kqn_A* 3kql_A* 3kqu_A*
3kqh_A 3kqk_A 8ohm_A 2f55_A 1jr6_A 1onb_A
Length = 666
Score = 60.0 bits (145), Expect = 6e-10
Identities = 24/116 (20%), Positives = 38/116 (32%), Gaps = 27/116 (23%)
Query: 156 HTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVAA 215
+IF +K++ E+ L LGI A + L + V++ATD
Sbjct: 398 RHLIFCHSKKKCDELAAKLSGLGINAVAYYRGLD-------VSVIPTIGDVVVVATDALM 450
Query: 216 RGL--DIRGV-------KTVINY-----------RMPHSLEHYIHRVGRTARAGKG 251
G D V +++ +P R GRT R +G
Sbjct: 451 TGYTGDFDSVIDCNTCVTQTVDFSLDPTFTIETTTVPQDAVSRSQRRGRTGRGRRG 506
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 59.1 bits (142), Expect = 1e-09
Identities = 34/130 (26%), Positives = 54/130 (41%), Gaps = 15/130 (11%)
Query: 156 HTMIFVPTKREAHEMHILL----GLLGIKAGELHG--------NLTQPSRLESLRKFK-D 202
T++FV T+ + + L +K G L G +T P++ L F+
Sbjct: 391 KTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNRATGMTLPAQKCVLEAFRAS 450
Query: 203 EETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMA-GEV 261
+ ++LIAT VA G+DI VI Y ++ I GR RA + + +V
Sbjct: 451 GDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGR-GRARDSKCFLLTSSADV 509
Query: 262 DRKLVKQVIK 271
K +IK
Sbjct: 510 IEKEKANMIK 519
>4a2p_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.00A {Anas platyrhynchos} PDB: 4a36_A*
Length = 556
Score = 59.2 bits (142), Expect = 1e-09
Identities = 32/122 (26%), Positives = 50/122 (40%), Gaps = 15/122 (12%)
Query: 156 HTMIFVPTKREAHEMHILL----GLLGIKAGELHG--------NLTQPSRLESLRKFKD- 202
T++F T+ + + L IK G L G +T PS+ L FK
Sbjct: 392 RTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTS 451
Query: 203 EETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGEVD 262
++ +LIAT VA G+DI V+ Y ++ I GR RA G + + + +
Sbjct: 452 KDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRA-AGSKCILVTSKTE 509
Query: 263 RK 264
Sbjct: 510 VV 511
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 57.3 bits (137), Expect = 4e-09
Identities = 44/236 (18%), Positives = 83/236 (35%), Gaps = 21/236 (8%)
Query: 144 LLAALVCRTFKDHTMIFVPTKREAHEMHILL----GLLGIKAGELHG--------NLTQP 191
+L + T++FV T+ + + L +K G L G +T P
Sbjct: 388 ILQEEYHLNPETITILFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLP 447
Query: 192 SRLESLRKFK-DEETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGK 250
++ L FK + ++LIAT VA G+DI VI Y ++ I GR RA +
Sbjct: 448 AQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GRA-R 505
Query: 251 GGVSVSMAGEVDRKLVKQVIKNAKNPVKHRIIPPGYPRLKTPSFPPPPLAEIVDKYRAKV 310
G + +Q+ + + I+ RL+T + + K
Sbjct: 506 GSKCFLLTSNAGVIEKEQINMYKEKMMNDSIL-----RLQTWDEAVFREKILHIQTHEKF 560
Query: 311 EAIEGEVQKILTEEKHDRLLNKA-DEQVSKAEKMLKEKKPLHENPPREWFQTKKER 365
E K + ++++ +LL + + + + + + R
Sbjct: 561 IRDSQEKPKPVPDKENKKLLCRKCKALACYTADVRVIEDCHYTVLGDAFKECFVSR 616
>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 = 57.3 bits (137), Expect = 4e-09
Identities = 32/124 (25%), Positives = 51/124 (41%), Gaps = 15/124 (12%)
Query: 154 KDHTMIFVPTKREAHEMHILL----GLLGIKAGELHG--------NLTQPSRLESLRKFK 201
+ T++F T+ + + L IK G L G +T PS+ L FK
Sbjct: 631 QTRTLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFK 690
Query: 202 D-EETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGE 260
++ +LIAT VA G+DI V+ Y ++ I GR RA G + + +
Sbjct: 691 TSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRA-AGSKCILVTSK 748
Query: 261 VDRK 264
+
Sbjct: 749 TEVV 752
>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 = 54.3 bits (130), Expect = 5e-08
Identities = 22/135 (16%), Positives = 52/135 (38%), Gaps = 4/135 (2%)
Query: 119 LLRPPVLLCLLCFRIRKDTHLDRKA-LLAALVCRTFKDHTMIFVPTKREAHEMH-ILLGL 176
+L P + + D + L + ++ A ++ +L
Sbjct: 467 MLYPERIYQEFEGDNATWWNFDPRVEWLMGYLTSHRSQKVLVICAKAATALQLEQVLRER 526
Query: 177 LGIKAGELHGNLTQPSRLESLRKFKDEETDV--LIATDVAARGLDIRGVKTVINYRMPHS 234
GI+A H ++ R + F +E+T L+ +++ + G + + ++ + +P +
Sbjct: 527 EGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFN 586
Query: 235 LEHYIHRVGRTARAG 249
+ R+GR R G
Sbjct: 587 PDLLEQRIGRLDRIG 601
>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 = 53.9 bits (129), Expect = 6e-08
Identities = 46/252 (18%), Positives = 82/252 (32%), Gaps = 71/252 (28%)
Query: 132 RIRKDTHLDRKALLAALVCRTFKDHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLT-- 189
RIR++ +A++ T D + +E +E + G L + T
Sbjct: 1683 RIREN--------YSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRS-EKGLL--SATQF 1731
Query: 190 -QPSRLESLRKFKDEETDVLIATDVAA-RGLDIRGVKTVINYRMPHSL-EHYIHRVGRTA 246
QP+ L + AA L +G+ HSL E Y A
Sbjct: 1732 TQPA---------------LTLMEKAAFEDLKSKGLIPADATFAGHSLGE-Y------AA 1769
Query: 247 RAGKGGV-SVSMAGEVDRKLVKQ--------VIKNAKNPVKHRIIPPGYPRLKTPSFPPP 297
A V S+ V ++V V ++ + +I P SF
Sbjct: 1770 LASLADVMSIESL--V--EVVFYRGMTMQVAVPRDELGRSNYGMIAIN-PGRVAASFSQE 1824
Query: 298 PLAEIVDKYRAK----VEA----IEGEVQKILTEEKHDRLLNKADEQVSKAEKMLKEKK- 348
L +V++ + VE +E + Q + + +A + V+ +K +K
Sbjct: 1825 ALQYVVERVGKRTGWLVEIVNYNVENQ-QYVAAGDL------RALDTVTNVLNFIKLQKI 1877
Query: 349 ---PLHENPPRE 357
L ++ E
Sbjct: 1878 DIIELQKSLSLE 1889
Score = 47.0 bits (111), Expect = 9e-06
Identities = 50/292 (17%), Positives = 91/292 (31%), Gaps = 93/292 (31%)
Query: 1 MQVDLLKTIEDDEEVPNYSDDSDKEVEGLRVYVETEACPKANLGWYPQTAIVPNLPRLK- 59
M +DL KT + ++V N +D+ K+ G + IV N P
Sbjct: 1631 MGMDLYKTSKAAQDVWNRADNHFKDTYGFSI-----------------LDIVINNPVNLT 1673
Query: 60 --FSSEYQPKKFKTKKITDFDNDFSFVSSIEEYNKDTEIV--VAYCWSKGTFQSNA---S 112
F E K K+I + + F + ++ K +I + + TF+S S
Sbjct: 1674 IHFGGE------KGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLS 1727
Query: 113 MTSF----LFLLRPPVLLCLLCFR-IRKDTHLDRKALLA--------ALVCR----TFKD 155
T F L L+ F ++ + A A AL + +
Sbjct: 1728 ATQFTQPALTLME------KAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIES 1781
Query: 156 ----------HTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKD--- 202
+ VP + G++ I G + + +Q E+L+ +
Sbjct: 1782 LVEVVFYRGMTMQVAVPRDELGRSNY---GMIAINPGRVAASFSQ----EALQYVVERVG 1834
Query: 203 EETDVLI-------------------ATDVAARGLDIRGVKTVINYRMPHSL 235
+ T L+ A D L+ ++ + + SL
Sbjct: 1835 KRTGWLVEIVNYNVENQQYVAAGDLRALDTVTNVLNFIKLQKIDIIELQKSL 1886
Score = 39.6 bits (92), Expect = 0.002
Identities = 55/314 (17%), Positives = 89/314 (28%), Gaps = 124/314 (39%)
Query: 11 DDEEVPNYSDDSDKEVE-----GLRVYVETEACPKANLGWYPQTAIVPNLPRLKFSSEYQ 65
D E ++ K + G+R Y EA YP T++ P++ L+ S E
Sbjct: 287 DSWE--SFFVSVRKAITVLFFIGVRCY---EA--------YPNTSLPPSI--LEDSLENN 331
Query: 66 -------------PKKFKTKKITDFDNDFSFVS---SIEEYNKDTEIVVAYCWSKGTFQS 109
++ + N I N +VV+ G
Sbjct: 332 EGVPSPMLSISNLTQEQVQDYVNKT-NSHLPAGKQVEISLVNGAKNLVVS-----G---- 381
Query: 110 NASMTSFLFLLRPPVLLCLLCFRIRK---DTHLD--------RKALLAA--LVCRTFKDH 156
PP L L +RK + LD RK + L
Sbjct: 382 ------------PPQSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLP------- 422
Query: 157 TMIFVP--TK--REAHEMHILLGLLG----IKAGELH--------GNLTQPSRLESLRKF 200
+ P + A ++ I L+ A ++ G LR
Sbjct: 423 --VASPFHSHLLVPASDL-INKDLVKNNVSFNAKDIQIPVYDTFDG--------SDLRVL 471
Query: 201 KDEETDVLIATDVAARGLDIRGVKTV-----INYRMPHSLEH---YIHRVGR-TARAGKG 251
++ ++ D R V ++ H L+ +G T R G
Sbjct: 472 SGSISERIV--DCIIR-------LPVKWETTTQFKATHILDFGPGGASGLGVLTHRNKDG 522
Query: 252 -GVSVSMAGEVDRK 264
GV V +AG +D
Sbjct: 523 TGVRVIVAGTLDIN 536
Score = 39.3 bits (91), Expect = 0.002
Identities = 45/267 (16%), Positives = 88/267 (32%), Gaps = 100/267 (37%)
Query: 118 FLLRPPV---LLCLL---CFRI-RKDTHLDR--------------KALLAALVC---RTF 153
+LL P+ L+ ++ + + K + L+ A+ ++
Sbjct: 230 YLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSW 289
Query: 154 KDHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRL--ESLRKFKDEETDVLIAT 211
+ F + R+A + +L +G++ E + N + P + +SL + + +L
Sbjct: 290 ES----FFVSVRKA--ITVLF-FIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPML--- 339
Query: 212 DVAARGLDIRGVKTVI---NYRMPHSLEHYIHRVGRTARAGKGGVSVSMAGEVDRKLVKQ 268
+ L V+ + N +P + V +S LV
Sbjct: 340 --SISNLTQEQVQDYVNKTNSHLPAG-KQ---------------VEIS--------LV-- 371
Query: 269 VIKNAKNPVKHRIIPPGYPRLKTPSFPPPPLAEIVDKYRAKVEAIEGEVQ-KI-LTEEK- 325
N K+ ++ S PP L + R K +A G Q +I +E K
Sbjct: 372 ---NGA---KNLVV----------SGPPQSLYGLNLTLR-KAKAPSGLDQSRIPFSERKL 414
Query: 326 -------------HDRLLNKADEQVSK 339
H LL A + ++K
Sbjct: 415 KFSNRFLPVASPFHSHLLVPASDLINK 441
Score = 33.5 bits (76), Expect = 0.15
Identities = 59/358 (16%), Positives = 102/358 (28%), Gaps = 122/358 (34%)
Query: 58 LKF-SSEYQPKKFKTKK------ITDFDNDF-------SFVSSIEEYNKDTEIVVAYCWS 103
L + SS +P K +T+F+N + + + + + DT +V
Sbjct: 65 LGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQ-ENDTTLVKTKELI 123
Query: 104 KGTFQSNASMTSFLFLLRPPVLLCLLCFRIRKDTHLDRKALLAAL------VCRTFKDHT 157
K + L + A L A+ F++
Sbjct: 124 KNYITARIMAKRPFDKKSNSALF---------RAVGEGNAQLVAIFGGQGNTDDYFEE-- 172
Query: 158 MIFVPTKREAHEM-HILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVAAR 216
+ R+ ++ H+L+G L + E L L + L A V +
Sbjct: 173 L------RDLYQTYHVLVGDLIKFSAET---------LSELIR------TTLDAEKVFTQ 211
Query: 217 GLDI----RGVKTV--INY--RMPHS--------LEHYI---HRVGRT---ARAGKGGVS 254
GL+I +Y +P S L HY+ +G T R+ G +
Sbjct: 212 GLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGAT 271
Query: 255 VSMAGEVDRKLVKQVI----------KNAKNPVK---------HRIIPPGYPRLKTPSFP 295
G V I + + + + YP S P
Sbjct: 272 GHSQGLV----TAVAIAETDSWESFFVSVRKAITVLFFIGVRCYE----AYPNT---SLP 320
Query: 296 P-------------P-PLAEIVDKYRAKVEAIEGEVQKILTEEKHDR--LLNKADEQV 337
P P P+ I + + +V+ + L K L+N A V
Sbjct: 321 PSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISLVNGAKNLV 378
>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 = 53.3 bits (127), Expect = 8e-08
Identities = 74/465 (15%), Positives = 132/465 (28%), Gaps = 151/465 (32%)
Query: 4 DLLKTIEDDEEVPNYSDDSDKEVEGLRVYVETEACPKANLGWYPQTAIVPNLPRL--KFS 61
D+ K+I EE+ + D LR++ + + + + + + N L
Sbjct: 40 DMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIK 99
Query: 62 SEY-QPKKFKTKKITDFD---ND---FS--FVSSIEEYNKDTEIVVAYCWSKGTFQSNAS 112
+E QP I D ND F+ VS ++ Y K
Sbjct: 100 TEQRQPSMMTRMYIEQRDRLYNDNQVFAKYNVSRLQPYLK-------------------- 139
Query: 113 MTSFLFLLRPPVLLCLLCFRIRKDTHLDR---KALLAALVCRTFKDHTM----IF---VP 162
+ L LRP + + K +A VC ++K IF +
Sbjct: 140 LRQALLELRPAKNVLI---------DGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLK 190
Query: 163 TKREAHE-MHILLGLLGIKAGELHGNLTQPSRL--------ESLRKF---KDEETDVLIA 210
+ +L LL S + LR+ K E +L+
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVL 250
Query: 211 TDV----AARGLDIRGVKTVI-------------NYRMPHSLEHYIHRVGRTARAGKG-- 251
+V A ++ K ++ SL+H H + T K
Sbjct: 251 LNVQNAKAWNAFNL-SCKILLTTRFKQVTDFLSAATTTHISLDH--HSMTLTPDEVKSLL 307
Query: 252 ----GVS---------------VSMAGE--------------VDRKLVKQVIK---NAKN 275
+S+ E V+ + +I+ N
Sbjct: 308 LKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLE 367
Query: 276 PVKHRIIPPGYPRLKTPSFP-----PPPLAEIVDKYRAKVEAIEGEVQKILTEEKHDRLL 330
P ++R + RL FP P L ++ + I+ +V ++ + L+
Sbjct: 368 PAEYR---KMFDRLSV--FPPSAHIPTILLSLI-----WFDVIKSDVMVVVNKLHKYSLV 417
Query: 331 NKA---------DEQVSKAEKMLKEKKPLHE------NPPREWFQ 360
K + K+ E LH N P+ +
Sbjct: 418 EKQPKESTISIPSIYLELKVKLENEYA-LHRSIVDHYNIPKTFDS 461
>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 = 52.5 bits (126), Expect = 1e-07
Identities = 30/174 (17%), Positives = 59/174 (33%), Gaps = 11/174 (6%)
Query: 88 EEYNKDTEIVVAYCWSKGTFQSNASMTSFLFLLR---PPVLLCLLCFRIRKDTHLDRKA- 143
EY K ++ + ++G A + + + L + + + K
Sbjct: 277 VEYEKREKVYKQFLRARGITLRRAEDFNKIVMASGYDERAYEALRAWEEARRIAFNSKNK 336
Query: 144 --LLAALVCRTFKDHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFK 201
L ++ R KD +IF + + + + I ++ R E L F+
Sbjct: 337 IRKLREILERHRKDKIIIFTRHNELVYRISKVFLIPAI-----THRTSREEREEILEGFR 391
Query: 202 DEETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKGGVSV 255
++++ V G+D+ + S YI R+GR R KG
Sbjct: 392 TGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSKGKKEA 445
>2whx_A Serine protease/ntpase/helicase NS3; transcription, hydrolase,
ATP-binding, reticulum, nucleotidyltransferase,
multifunctional enzyme; HET: ADP; 2.20A {Dengue virus 4}
PDB: 2vbc_A 2wzq_A
Length = 618
Score = 48.0 bits (114), Expect = 3e-06
Identities = 22/117 (18%), Positives = 37/117 (31%), Gaps = 23/117 (19%)
Query: 154 KDHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDV 213
+ T+ FVP+ + +++ L G + +L K K + D ++ TD+
Sbjct: 355 QGKTVWFVPSIKAGNDIANCLRKSGKRVIQLSRKTFD----TEYPKTKLTDWDFVVTTDI 410
Query: 214 AARGL--DIRGV-------KTVINYRMPHSLEHY----------IHRVGRTARAGKG 251
+ G V K VI P + R GR R
Sbjct: 411 SEMGANFRAGRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGRNPAQ 467
>2jlq_A Serine protease subunit NS3; ribonucleoprotein, nucleotide-binding,
viral nucleoprotein, endoplasmic reticulum, helicase,
hydrolase; 1.67A {Dengue virus 4} PDB: 2jly_A* 2jls_A*
2jlu_A 2jlv_A* 2jlw_A 2jlx_A* 2jlz_A* 2jlr_A* 2bmf_A
2bhr_A
Length = 451
Score = 47.1 bits (112), Expect = 7e-06
Identities = 22/117 (18%), Positives = 37/117 (31%), Gaps = 23/117 (19%)
Query: 154 KDHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDV 213
+ T+ FVP+ + +++ L G + +L K K + D ++ TD+
Sbjct: 188 QGKTVWFVPSIKAGNDIANCLRKSGKRVIQLSRKTFD----TEYPKTKLTDWDFVVTTDI 243
Query: 214 AARGL--DIRGV-------KTVINYRMPHSLEHY----------IHRVGRTARAGKG 251
+ G V K VI P + R GR R
Sbjct: 244 SEMGANFRAGRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGRNPAQ 300
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 44.9 bits (105), Expect = 3e-05
Identities = 15/118 (12%), Positives = 39/118 (33%), Gaps = 3/118 (2%)
Query: 137 THLDRKALLAALV--CRTFKDHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRL 194
R +A L ++ + + L+ K + G + +R
Sbjct: 328 GLSKRNKWIAKLAIKLAQKDENAFVMFKHVSHGKAIFDLIKNEYDKVYYVSGEVDTETRN 387
Query: 195 ESLRKFKDEETDVLIAT-DVAARGLDIRGVKTVINYRMPHSLEHYIHRVGRTARAGKG 251
++ + +++A+ V + G+ ++ + V+ S + +GR R
Sbjct: 388 IMKTLAENGKGIIIVASYGVFSTGISVKNLHHVVLAHGVKSKIIVLQTIGRVLRKHGS 445
>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 = 44.8 bits (106), Expect = 3e-05
Identities = 17/69 (24%), Positives = 31/69 (44%), Gaps = 5/69 (7%)
Query: 159 IFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVAARGL 218
F+P+ R A+ M L G L+ + K ++ D ++ATD+A G
Sbjct: 182 WFLPSIRAANVMAASLRKAGKSVVVLNRKTFE----REYPTIKQKKPDFILATDIAEMGA 237
Query: 219 DIRGVKTVI 227
++ V+ V+
Sbjct: 238 NL-CVERVL 245
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 43.3 bits (102), Expect = 1e-04
Identities = 37/194 (19%), Positives = 60/194 (30%), Gaps = 34/194 (17%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
T+ FV + ++ E+ L G K L+ + K K E+ D +I TD++
Sbjct: 172 GRTVWFVHSIKQGAEIGTCLQKAGKKVLYLNRKTFE----SEYPKCKSEKWDFVITTDIS 227
Query: 215 ARGL--DIRGV----KTVINYRMPHSLEHY----------IHRVGRTARAGKG-GVSVSM 257
G V KT+ + + R GR R + G +
Sbjct: 228 EMGANFKADRVIDPRKTIKPILLDGRVSMQGPIAITPASAAQRRGRIGRNPEKLGDIYAY 287
Query: 258 AGEVDRKLVKQVIKNAKNPVKHRIIPPGYPRLKTPSFPPPPLAEIVDKYRAKVEAIEGEV 317
+G V + H L +A++ R K EA EGE
Sbjct: 288 SGNVSS-----------DNEGHVSWTEARMLLDNVHVQGGVVAQLYTPEREKTEAYEGEF 336
Query: 318 QKILTEEKHDRLLN 331
+ L +
Sbjct: 337 K--LKTNQRKVFSE 348
>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 = 41.8 bits (98), Expect = 4e-04
Identities = 17/73 (23%), Positives = 32/73 (43%), Gaps = 5/73 (6%)
Query: 155 DHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA 214
T+ FV + + ++E+ L G + +L+ K K+ + D +I TD++
Sbjct: 411 GKTVWFVASVKMSNEIAQCLQRAGKRVIQLNRKSYD----TEYPKCKNGDWDFVITTDIS 466
Query: 215 ARGLDIRGVKTVI 227
G + G VI
Sbjct: 467 EMGANF-GASRVI 478
>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 = 40.6 bits (95), Expect = 7e-04
Identities = 18/71 (25%), Positives = 32/71 (45%), Gaps = 5/71 (7%)
Query: 157 TMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVAAR 216
T+ FV + + +E+ + L G K +L+ K K+ + D +I TD++
Sbjct: 193 TVWFVASVKMGNEIAMCLQRAGKKVIQLNRKSYDT----EYPKCKNGDWDFVITTDISEM 248
Query: 217 GLDIRGVKTVI 227
G + G VI
Sbjct: 249 GANF-GASRVI 258
>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix,
helix-turn-helix, ATP binding, Zn(2+) binding,
hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43
c.37.1.19 c.37.1.19 PDB: 1oyy_A*
Length = 523
Score = 40.2 bits (95), Expect = 0.001
Identities = 22/86 (25%), Positives = 42/86 (48%), Gaps = 5/86 (5%)
Query: 163 TKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA-ARGLDIR 221
++ + + L GI A H L R + KF+ ++ +++AT VA G++
Sbjct: 245 SRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVAT-VAFGMGINKP 303
Query: 222 GVKTVINYRMPHSLEHY---IHRVGR 244
V+ V+++ +P ++E Y R GR
Sbjct: 304 NVRFVVHFDIPRNIESYYQETGRAGR 329
>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch
repair, nucleotide-binding, DNA-binding, polymorphism,
nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens}
PDB: 2wwy_A*
Length = 591
Score = 39.2 bits (92), Expect = 0.002
Identities = 29/86 (33%), Positives = 47/86 (54%), Gaps = 5/86 (5%)
Query: 163 TKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVA-ARGLDIR 221
+++++ ++ + L LGI AG H NL + RK+ E V++AT VA G+D
Sbjct: 276 SQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVAT-VAFGMGIDKP 334
Query: 222 GVKTVINYRMPHSLEHY---IHRVGR 244
V+ VI++ M S+E+Y R GR
Sbjct: 335 DVRFVIHHSMSKSMENYYQESGRAGR 360
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 37.4 bits (87), Expect = 0.007
Identities = 20/116 (17%), Positives = 37/116 (31%), Gaps = 19/116 (16%)
Query: 148 LVCRTFKDH---------TMIFVPTKREAHEMHILLGLLGIKAGELHGNLT--------- 189
+ D T++F + A EM L L H +
Sbjct: 424 AFAKHLTDFMKRTDRFAKTIVFCVDQEHADEMRRALNNLNSDLSRKHPDYVARVTSEEGK 483
Query: 190 -QPSRLESLRKFKDEETDVLIATDVAARGLDIRGVKTVINYRMPHSLEHYIHRVGR 244
L ++ + +L + + G+D K V+ R+ +S+ + VGR
Sbjct: 484 IGKGHLSRFQELETSTPVILTTSQLLTTGVDAPTCKNVVLARVVNSMSEFKQIVGR 539
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 35.5 bits (81), Expect = 0.013
Identities = 16/66 (24%), Positives = 26/66 (39%), Gaps = 10/66 (15%)
Query: 314 EGEVQKILTEEKHDRLLNKADEQVSKAEKMLKEK--KPLHENPPREWFQTKKERAA--IK 369
E E + EE+ RL + D E+ +EK K L EW Q + E+
Sbjct: 83 EPESIRKWREEQRKRL-QELDAASKVMEQEWREKAKKDLE-----EWNQRQSEQVEKNKI 136
Query: 370 TSQAGE 375
++ +
Sbjct: 137 NNRIAD 142
Score = 28.2 bits (62), Expect = 3.4
Identities = 5/45 (11%), Positives = 21/45 (46%), Gaps = 5/45 (11%)
Query: 337 VSKAEKMLKEKKPLHENPPREWFQTKKERAAIKTSQAGEGLAALI 381
+++A+++ +E + + R+W + +++R + +
Sbjct: 74 IAQADRLTQEPESI-----RKWREEQRKRLQELDAASKVMEQEWR 113
>1hqm_D DNA-directed RNA polymerase; transferase, transcription, 3D-
structure; 3.30A {Thermus aquaticus} SCOP: i.8.1.1 PDB:
1i6v_D* 2gho_D
Length = 1265
Score = 36.5 bits (85), Expect = 0.016
Identities = 15/65 (23%), Positives = 31/65 (47%), Gaps = 8/65 (12%)
Query: 296 PPPLAEIVDKYRAKVEAIEGEVQK-ILTE-EKHDRLL---NKADEQVSKA-EKMLKEKKP 349
P +++ K+ IE + LT+ E++D+++ + E+V++A +E P
Sbjct: 698 PEEKQRYLEEADRKLRQIEQAYEMGFLTDRERYDQVIQLWTETTEKVTQAVFNNFEENYP 757
Query: 350 LHENP 354
NP
Sbjct: 758 F--NP 760
>1gku_B Reverse gyrase, TOP-RG; topoisomerase, DNA supercoiling, archaea,
helicase; 2.7A {Archaeoglobus fulgidus} SCOP: c.37.1.16
c.37.1.16 e.10.1.1 PDB: 1gl9_B*
Length = 1054
Score = 35.8 bits (83), Expect = 0.025
Identities = 18/74 (24%), Positives = 28/74 (37%), Gaps = 10/74 (13%)
Query: 151 RTFKDHTMIFVPTKREAHEMHILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIA 210
+I+ T EA E++ L + G + ++ KF + E D LI
Sbjct: 272 EKLGTGGIIYARTGEEAEEIYESLKN-KFRIGIVTA-----TKKGDYEKFVEGEIDHLIG 325
Query: 211 T----DVAARGLDI 220
T RGLD+
Sbjct: 326 TAHYYGTLVRGLDL 339
>2a6h_D DNA-directed RNA polymerase beta' chain; RNA polymerase holoenzyme,
streptolydigin, antibiotic, transcription regulation;
HET: STD; 2.40A {Thermus thermophilus} SCOP: e.29.1.2
PDB: 1smy_D* 1zyr_D* 1iw7_D* 2a69_D* 2a6e_D 2a68_D*
2be5_D* 2cw0_D 2o5i_D 2o5j_D* 2ppb_D* 3aoh_D* 3aoi_D*
3dxj_D* 3eql_D* 1ynj_D* 1l9z_D 1l9u_D* 1ynn_D* 2auj_D
Length = 1524
Score = 35.1 bits (81), Expect = 0.044
Identities = 17/65 (26%), Positives = 33/65 (50%), Gaps = 8/65 (12%)
Query: 296 PPPLAEIVDKYRAKVEAIEGEVQK-ILTE-EKHDRLL---NKADEQVSKA-EKMLKEKKP 349
P + +++ K+ IE + LT+ E++D++L + E+V++A K +E P
Sbjct: 957 PEEKKQYLEEADRKLLQIEQAYEMGFLTDRERYDQILQLWTETTEKVTQAVFKNFEENYP 1016
Query: 350 LHENP 354
NP
Sbjct: 1017 F--NP 1019
>2p6r_A Afuhel308 helicase; protein-DNA complex, SF2 helicase, archaeal
helicase, DNA repair,, DNA binding protein/DNA complex;
3.00A {Archaeoglobus fulgidus} SCOP: a.4.5.43 a.289.1.2
c.37.1.19 c.37.1.19 PDB: 2p6u_A
Length = 702
Score = 33.6 bits (77), Expect = 0.12
Identities = 32/179 (17%), Positives = 54/179 (30%), Gaps = 42/179 (23%)
Query: 141 RKALLAALVCRTFKDH--TMIFVPTKREAHEM---------------------------- 170
R+ LV ++ ++F T+R A +
Sbjct: 227 RRVKFEELVEECVAENGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGE 286
Query: 171 --HILLGLLGIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDVAARGLD-------IR 221
L + A H L R F+ V++AT A G++ +R
Sbjct: 287 MSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVR 346
Query: 222 GVKTVINYRMPHSLEHYIHRVGRTARAGKG--GVSVSMAGEVDR-KLVKQVIKNAKNPV 277
+ Y + Y GR R G G ++ + G+ DR VK+ I +
Sbjct: 347 SLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRDREIAVKRYIFGEPERI 405
>3lu0_D DNA-directed RNA polymerase subunit beta'; E. coli RNA polymerase,
nucleotidyltransferase, transcription, transferase;
11.20A {Escherichia coli} PDB: 3iyd_D*
Length = 1407
Score = 33.0 bits (76), Expect = 0.21
Identities = 15/56 (26%), Positives = 32/56 (57%), Gaps = 7/56 (12%)
Query: 296 PPPLAEIVDKYRAKVEAIEGEVQK-ILTE-EKHDRLL---NKADEQVSKAEKMLKE 346
P EI+ + A+V I+ + Q ++T E++++++ A+++VSKA M+
Sbjct: 647 PEKKHEIISEAEAEVAEIQEQFQSGLVTAGERYNKVIDIWAAANDRVSKA--MMDN 700
>3q8g_A CRAL-TRIO domain-containing protein YKL091C; string motif,
signaling protein, directed evoluti SEC14, phospholipid
transporter, lipid; HET: PEE; 1.80A {Saccharomyces
cerevisiae} PDB: 3b7n_A* 3b74_A* 3b7q_A* 3b7z_A*
Length = 320
Score = 32.5 bits (74), Expect = 0.22
Identities = 10/66 (15%), Positives = 25/66 (37%), Gaps = 5/66 (7%)
Query: 286 YPRLKTPSFPPPPLAEIVDKYRAKVEAIEGEVQKILTEEKHD-----RLLNKADEQVSKA 340
YP++ +P+ P + + + + + +E+ D R L ++ +
Sbjct: 19 YPQICSPNALPGTPGNLTKEQEEALLQFRSILLEKNYKERLDDSTLLRFLRARKFDINAS 78
Query: 341 EKMLKE 346
+M E
Sbjct: 79 VEMFVE 84
>1t1u_A Choline O-acetyltransferase; choline acetyltransferase; 1.55A
{Rattus norvegicus} SCOP: c.43.1.3 c.43.1.3 PDB: 1q6x_A
2fy2_A 2fy3_A 2fy4_A* 2fy5_A*
Length = 639
Score = 32.1 bits (72), Expect = 0.39
Identities = 13/68 (19%), Positives = 26/68 (38%), Gaps = 1/68 (1%)
Query: 292 PSFPPPPLAEIVDKYRAKVEAIEGEVQKILTEEKHDRLLNKADEQVSKAEKMLKEKKPLH 351
P P PPL + + Y ++ + E Q ++ R ++ L E++
Sbjct: 23 PKLPVPPLQQTLATYLQCMQHLVPEEQFRKSQAIVKRFG-APGGLGETLQEKLLERQEKT 81
Query: 352 ENPPREWF 359
N E++
Sbjct: 82 ANWVSEYW 89
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 30.7 bits (68), Expect = 0.42
Identities = 11/48 (22%), Positives = 16/48 (33%), Gaps = 22/48 (45%)
Query: 267 KQVIKNAKNPVKHRIIPPGYPRLKTPSFPP---PPLAEIVDKYRAKVE 311
KQ +K + LK + P LA I +A +E
Sbjct: 19 KQALKKLQA------------SLKL--YADDSAPALA-I----KATME 47
Score = 27.6 bits (60), Expect = 4.2
Identities = 10/49 (20%), Positives = 16/49 (32%), Gaps = 22/49 (44%)
Query: 324 EKHDRLLNKADEQVSKAEKMLKEKKPLHENPPREWFQTKKERA-AIKTS 371
EK + + K + LK ++ P A AIK +
Sbjct: 18 EK---------QALKKLQASLKLYAD--DSAP----------ALAIKAT 45
>1nm8_A Carnitine O-acetyltransferase; two equally sized domains,
anti-parallel beta-strand; 1.60A {Homo sapiens} SCOP:
c.43.1.3 c.43.1.3 PDB: 1s5o_A* 2h3u_A* 2h3p_A* 1t7q_A*
1t7n_A 1t7o_A* 1ndb_A 1ndf_A* 1ndi_A* 2h3w_A*
Length = 616
Score = 31.0 bits (69), Expect = 0.71
Identities = 18/74 (24%), Positives = 30/74 (40%), Gaps = 13/74 (17%)
Query: 292 PSFPPPPLAEIVDKYRAKVEAIEGEVQKILTEEKHDRLLNKADE------QVSKAEKMLK 345
P P PPL + +D Y ++ I++EE+ DE + +K L+
Sbjct: 15 PRLPVPPLQQSLDHYLKALQP-------IVSEEEWAHTKQLVDEFQASGGVGERLQKGLE 67
Query: 346 EKKPLHENPPREWF 359
+ EN EW+
Sbjct: 68 RRARKTENWLSEWW 81
>2rgh_A Alpha-glycerophosphate oxidase; flavoprotein oxidase,
oxidoreductase; HET: FAD; 2.30A {Streptococcus SP} PDB:
2rgo_A*
Length = 571
Score = 30.4 bits (69), Expect = 1.0
Identities = 12/41 (29%), Positives = 20/41 (48%), Gaps = 10/41 (24%)
Query: 188 LTQPSRLESLRKFKDEETDVLI----------ATDVAARGL 218
+ +R +S++K + EE D+LI A AA G+
Sbjct: 16 FSNKTRQDSIQKMQQEELDLLIIGGGITGAGVAVQAAASGI 56
>3da1_A Glycerol-3-phosphate dehydrogenase; NESG BHR167 Q9KDW6 X-RAY,
structural genomics, PSI-2, protein structure
initiative; HET: FAD; 2.70A {Bacillus halodurans}
Length = 561
Score = 29.6 bits (67), Expect = 1.8
Identities = 7/41 (17%), Positives = 17/41 (41%), Gaps = 10/41 (24%)
Query: 188 LTQPSRLESLRKFKDEETDVLI----------ATDVAARGL 218
+ R + + + +++ D+L+ A D RG+
Sbjct: 2 FSAKKRDKCIGEMSEKQLDLLVIGGGITGAGIALDAQVRGI 42
>1xl7_A COT, peroxisomal carnitine O-octanoyltransferase; selenomethionine,
hepes; HET: EPE; 2.00A {Mus musculus} SCOP: c.43.1.3
c.43.1.3 PDB: 1xl8_A* 1xmd_A* 1xmc_A*
Length = 612
Score = 29.4 bits (65), Expect = 2.5
Identities = 19/69 (27%), Positives = 28/69 (40%), Gaps = 3/69 (4%)
Query: 292 PSFPPPPLAEIVDKYRAKVEAIEGEVQKILTEEKHDRLLNKADEQVSKAEKMLKEKKPLH 351
PS P P L E + KY V+ E + TEE + A + + + L E+
Sbjct: 21 PSLPVPALEESLKKYLESVKPFANEDEYKKTEEIVQKFQEGAGK---RLHQKLLERARGK 77
Query: 352 ENPPREWFQ 360
N EW+
Sbjct: 78 RNWLEEWWL 86
>3ive_A Nucleotidase; structural genomics, PSI-2, protein structure
initiative, NEW YORK SGX research center for structural
genomics, nysgxrc; HET: CTN; 1.70A {Escherichia coli O6}
PDB: 3ivd_A*
Length = 509
Score = 28.8 bits (65), Expect = 3.0
Identities = 6/59 (10%), Positives = 18/59 (30%), Gaps = 12/59 (20%)
Query: 260 EVDRKLVKQVIKNAK-NPVKHRIIPPGYPRLKTPSFPPPPLAEIVDKYRAKVEAIEGEV 317
+ K +KN + + P +++D + K++ + +
Sbjct: 265 DYKEKPHNFTVKNFELKTIYADEWKPD-----------QQTKQVIDGWNKKLDEVVQQT 312
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A
{Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19
c.37.1.19
Length = 780
Score = 28.7 bits (65), Expect = 3.8
Identities = 11/36 (30%), Positives = 20/36 (55%)
Query: 178 GIKAGELHGNLTQPSRLESLRKFKDEETDVLIATDV 213
K G +HG L+Q + + +F + D+L++T V
Sbjct: 613 EFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTV 648
>2z1a_A 5'-nucleotidase; metal-binding, nucleotide-binding, hydrolase,
structural genomics, NPPSFA; HET: THM; 1.75A {Thermus
thermophilus} SCOP: d.114.1.1 d.159.1.2
Length = 552
Score = 28.1 bits (63), Expect = 5.5
Identities = 10/35 (28%), Positives = 13/35 (37%), Gaps = 2/35 (5%)
Query: 285 GYPRLKTPSFPP--PPLAEIVDKYRAKVEAIEGEV 317
G L TP P E + Y V A+ +V
Sbjct: 299 GEALLMTPEAAPEDFFAKEALLAYAQPVMALMQQV 333
>2gup_A ROK family protein; sugar kinase, streptococcus pneumoniae TIGR4,
AP sucrose, structural genomics, PSI; HET: SUC; 2.01A
{Streptococcus pneumoniae} SCOP: c.55.1.10 c.55.1.10
Length = 292
Score = 27.9 bits (63), Expect = 5.5
Identities = 9/45 (20%), Positives = 21/45 (46%), Gaps = 3/45 (6%)
Query: 232 PHSLEHYIHRVGRT-ARAGKGGVSVSMAGEVDRKLVKQVIKNAKN 275
P +LE + + + + G+++S+ G V+++ VI
Sbjct: 36 PENLEDLLAWLDQRLSEQDYSGIAMSVPGAVNQE--TGVIDGFSA 78
>2wdc_A SOXB, sulfur oxidation protein SOXB; sulfur-sulfur hydrolysis,
sulfur oxidation pathway, Cys S-thiosulfonate,
hydrolase; 1.50A {Thermus thermophilus} PDB: 2wdd_A*
2wde_A 2wdf_A
Length = 562
Score = 27.9 bits (62), Expect = 6.2
Identities = 18/88 (20%), Positives = 29/88 (32%), Gaps = 15/88 (17%)
Query: 233 HSLEHYIHRVGRT--ARAGKGGVSVSMAGEVDRKLVKQVIKNAKNPVKHRIIPPGYPRLK 290
H L RVG+T G ++ VD KL K I N ++ R++P +
Sbjct: 288 HDLTPRPWRVGKTWIVAGSAAGKAL---MRVDLKLWKGGIAN----LRVRVLP-----VL 335
Query: 291 TPSFPP-PPLAEIVDKYRAKVEAIEGEV 317
P + + A +
Sbjct: 336 AEHLPKAEDVEAFLKAQLAPHQDHLFTP 363
>1xiy_A Peroxiredoxin, pfaop; alpha-aneurysm, thioredoxin fold,
peroxiredoxin fold, oxidoreductase; 1.80A {Plasmodium
falciparum} SCOP: c.47.1.10
Length = 182
Score = 27.3 bits (61), Expect = 6.6
Identities = 3/31 (9%), Positives = 10/31 (32%)
Query: 315 GEVQKILTEEKHDRLLNKADEQVSKAEKMLK 345
+ K+ E+ + +S + +
Sbjct: 145 NILVKMFQEKDKQHNIQTDPYDISTVNNVKE 175
>3hjz_A Transaldolase B; parachlorococcus, marine, cyanobacteria; HET: MSE;
1.90A {Prochlorococcus marinus str}
Length = 334
Score = 27.6 bits (61), Expect = 6.9
Identities = 30/135 (22%), Positives = 53/135 (39%), Gaps = 22/135 (16%)
Query: 263 RKLVKQVIKNAKNPVKHRIIPPGYPRLKTPSFPPPPLAEIVDKYRAKV-EAIEGEVQKIL 321
KL+ + I++++N L + E VD+ + I + +
Sbjct: 50 VKLIDKAIESSEN------------TLPNGFSEIELIKETVDQVSVFFGKEILKIISGRV 97
Query: 322 TEEKHDRLLNKADEQVSKAEKMLKEKKPLHENPPREWFQTKKERAAIKTSQAGEGLAALI 381
+ E RL + V KA K++ L++N F +KER IK + EG+ A
Sbjct: 98 STEVDARLSFDTEATVKKARKLIN----LYKN-----FGIEKERILIKIAATWEGIKAAE 148
Query: 382 LYLQSHSKTLVCSLF 396
+ + K + LF
Sbjct: 149 ILEKEGIKCNLTLLF 163
>2deb_A CPT II, carnitine O-palmitoyltransferase II, mitochondrial; central
six-stranded beta-sheet; HET: BOG COA PLM; 1.60A {Rattus
norvegicus} PDB: 2fw3_A* 2fyo_A 2rcu_A* 2h4t_A*
Length = 653
Score = 27.9 bits (61), Expect = 7.1
Identities = 9/56 (16%), Positives = 17/56 (30%), Gaps = 7/56 (12%)
Query: 292 PSFPPPPLAEIVDKYRAKVEAIEGEVQKILTEEKHDRLLNKADEQVSKAEKMLKEK 347
P P P L + + +Y + +L + + R + K L
Sbjct: 45 PRLPIPKLEDTMKRYLNAQKP-------LLDDSQFRRTEALCKNFETGVGKELHAH 93
>1qo8_A Flavocytochrome C3 fumarate reductase; oxidoreductase; HET: HEM
FAD; 2.15A {Shewanella frigidimarina} SCOP: a.138.1.3
c.3.1.4 d.168.1.1
Length = 566
Score = 27.7 bits (62), Expect = 7.2
Identities = 15/104 (14%), Positives = 28/104 (26%), Gaps = 17/104 (16%)
Query: 259 GEVDRKLVKQVIKNAKNPVK---------HRIIPPG---YPRLKTPSFPPPPLAEIVDKY 306
+ D KLV + + + + V+ + G R P EI+D
Sbjct: 197 QQNDIKLVTILAEQSADGVQWLESLGANLDDLKRSGGARVDRTHRPHGGKSSGPEIIDTL 256
Query: 307 RAKVEAIEGEVQKILTEEKHDRLLNKADEQVS--KAEKMLKEKK 348
R + + + +L+ D V
Sbjct: 257 RKAAKEQGID---TRLNSRVVKLVVNDDHSVVGAVVHGKHTGYY 297
>3f1x_A Serine acetyltransferase; NESG X-RAY BVR62 A6KZB9 A6KZB9_BACV8,
structural genomics, P protein structure initiative;
2.00A {Bacteroides vulgatus atcc 8482}
Length = 310
Score = 27.4 bits (61), Expect = 8.0
Identities = 16/61 (26%), Positives = 24/61 (39%), Gaps = 7/61 (11%)
Query: 192 SRLESLRKFKDEETDVLIATDVAARGLD--IR---GVKTVINYRMPHSLEHYIHRVGRTA 246
S+L LR+ + + D AA I ++ + NYR+ H L I V
Sbjct: 121 SKLPELRRILATDVEAAYYGDPAATCFGEIISCYPAIRAISNYRIAHEL--LILGVPLIP 178
Query: 247 R 247
R
Sbjct: 179 R 179
>3q1x_A Serine acetyltransferase; cysteine biosynthesis, LEFT handed helix,
OASS; 1.59A {Entamoeba histolytica} PDB: 3p47_A 3p1b_A
Length = 313
Score = 27.4 bits (61), Expect = 8.9
Identities = 19/61 (31%), Positives = 26/61 (42%), Gaps = 7/61 (11%)
Query: 192 SRLESLRKFKDEETDVLIATDVAARGLD--IR---GVKTVINYRMPHSLEHYIHRVGRTA 246
+L S+++ + A D AA GL IR G + VI YR+ H L Y
Sbjct: 94 EKLPSIKRTLKTDLIAAYAGDPAAPGLSLIIRCYPGFQAVIVYRIAHVL--YECGERYYC 151
Query: 247 R 247
R
Sbjct: 152 R 152
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
0.318 0.135 0.393
Gapped
Lambda K H
0.267 0.0439 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,993,232
Number of extensions: 367581
Number of successful extensions: 1119
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1082
Number of HSP's successfully gapped: 90
Length of query: 396
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 300
Effective length of database: 4,021,377
Effective search space: 1206413100
Effective search space used: 1206413100
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 (21.7 bits)
S2: 58 (26.9 bits)