RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12410
(615 letters)
>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 = 476 bits (1228), Expect = e-165
Identities = 112/315 (35%), Positives = 169/315 (53%), Gaps = 14/315 (4%)
Query: 284 PFRKDFYVEVPEIARMTPEEVEKYKEELE-------GIRVKGKGCPRPIKTWAQCGVSKK 336
F +FY+ + ++V G P+PI+ + +
Sbjct: 7 EFPGEFYIPPEPSNDAIEIFSSGIASGIHFSKYNNIPVKVTGSDVPQPIQHFTSADLRDI 66
Query: 337 ILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEE 396
I+D + K Y+ PTPIQ +IP I SGRDL+ A+TGSGKT AF+LP+L +L+ P E
Sbjct: 67 IIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELE 126
Query: 397 TDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCT 456
P +I+SPTREL +QI EA+KF L++ VYGGT Q + RG +++ T
Sbjct: 127 LGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECITRGCHVVIAT 186
Query: 457 PGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNV--RPDRQTVMFS 514
PGR++D + ++VLDEADRM DMGF + RI+ +V RP+ QT+MFS
Sbjct: 187 PGRLLDFVDR---TFITFEDTRFVVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTLMFS 243
Query: 515 ATFPRQMEALARRILNKPIEIQVGGRSVVCKEVEQHVIVLDEEQKMLKLLELLGIYQDQG 574
ATFP +++ +A L + + +G C +V+Q + +++ K KL+E+L +
Sbjct: 244 ATFPEEIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILS--EQAD 301
Query: 575 SVIVFVDKQENADSL 589
IVFV+ + AD L
Sbjct: 302 GTIVFVETKRGADFL 316
>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding,
hydrolase, nucleotide- RNA-binding, methylation, mRNA
processing, mRNA S nucleus; HET: ADP; 2.60A {Homo
sapiens}
Length = 242
Score = 448 bits (1156), Expect = e-157
Identities = 111/246 (45%), Positives = 165/246 (67%), Gaps = 4/246 (1%)
Query: 297 ARMTPEEVEKYKEELEGIRVKGKGCPRPIKTWAQCGVSKKILDALKKQNYEKPTPIQAQA 356
+ T +EVE Y+ E I V+G CP+P+ + + ++D + +QN+ +PT IQAQ
Sbjct: 1 SMRTAQEVETYRRSKE-ITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQG 59
Query: 357 IPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRELCMQIG 416
P +SG D++G+A+TGSGKT++++LP + HI QP LE DGP+ ++++PTREL Q+
Sbjct: 60 WPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQ 119
Query: 417 KEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRR 476
+ A ++ ++ L+ C+YGG QI +L+RG EI + TPGR+ID L TNLRR
Sbjct: 120 QVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECG---KTNLRR 176
Query: 477 VTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQTVMFSATFPRQMEALARRILNKPIEIQ 536
TY+VLDEADRM DMGFEPQ+ +I+D +RPDRQT+M+SAT+P+++ LA L I I
Sbjct: 177 TTYLVLDEADRMLDMGFEPQIRKIVDQIRPDRQTLMWSATWPKEVRQLAEDFLKDYIHIN 236
Query: 537 VGGRSV 542
+G +
Sbjct: 237 IGALEL 242
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 445 bits (1146), Expect = e-152
Identities = 114/293 (38%), Positives = 173/293 (59%), Gaps = 20/293 (6%)
Query: 314 IRVKGKGCPRPIKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTG 373
+ G CP I++++ + + I+ ++ Y +PTP+Q AIP I RDL+ A+TG
Sbjct: 3 VEATGNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTG 62
Query: 374 SGKTVAFVLPLLRHILDQPPLE-------------ETDGPMAIIMSPTRELCMQIGKEAK 420
SGKT AF+LP+L I P E P++++++PTREL +QI +EA+
Sbjct: 63 SGKTAAFLLPILSQIYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEAR 122
Query: 421 KFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYI 480
KF+ +R VYGG I +QI +L+RG ++V TPGR++DM+ G+ L Y+
Sbjct: 123 KFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMM--ERGK-IGLDFCKYL 179
Query: 481 VLDEADRMFDMGFEPQVMRIID--NVRPD--RQTVMFSATFPRQMEALARRILNKPIEIQ 536
VLDEADRM DMGFEPQ+ RI++ + P R T+MFSATFP++++ LAR L++ I +
Sbjct: 180 VLDEADRMLDMGFEPQIRRIVEQDTMPPKGVRHTMMFSATFPKEIQMLARDFLDEYIFLA 239
Query: 537 VGGRSVVCKEVEQHVIVLDEEQKMLKLLELLGIYQDQGSVIVFVDKQENADSL 589
VG + + Q V+ ++E K LL+LL +VFV+ ++ ADSL
Sbjct: 240 VGRVGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSL 292
>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX,
structural genomics, structural genomi consortium, SGC,
ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}
Length = 228
Score = 413 bits (1065), Expect = e-143
Identities = 91/231 (39%), Positives = 146/231 (63%), Gaps = 7/231 (3%)
Query: 310 ELEGIRV-KGKGCPRPIKTWAQC-GVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLI 367
+ ++ + + P+P + +L ++ + KPTPIQ+QA P I+ G DLI
Sbjct: 2 TCDDLKSGEKRLIPKPTCRFKDAFQQYPDLLKSIIRVGILKPTPIQSQAWPIILQGIDLI 61
Query: 368 GIAKTGSGKTVAFVLPLLRHILDQP-PLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSL 426
+A+TG+GKT+++++P H+ QP E+ +GP ++++PTREL + + E K++
Sbjct: 62 VVAQTGTGKTLSYLMPGFIHLDSQPISREQRNGPGMLVLTPTRELALHVEAECSKYSYK- 120
Query: 427 GLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEAD 486
GL+ +C+YGG + QI ++ +G +II+ TPGR+ D+ NS NLR +TY+V+DEAD
Sbjct: 121 GLKSICIYGGRNRNGQIEDISKGVDIIIATPGRLNDLQMNNS---VNLRSITYLVIDEAD 177
Query: 487 RMFDMGFEPQVMRIIDNVRPDRQTVMFSATFPRQMEALARRILNKPIEIQV 537
+M DM FEPQ+ +I+ +VRPDRQTVM SAT+P + LA L P+ + V
Sbjct: 178 KMLDMEFEPQIRKILLDVRPDRQTVMTSATWPDTVRQLALSYLKDPMIVYV 228
>3dkp_A Probable ATP-dependent RNA helicase DDX52; DEAD, ADP, structural
genomics, structural GEN consortium, SGC, rRNA,
ATP-binding, hydrolase; HET: ADP; 2.10A {Homo sapiens}
Length = 245
Score = 379 bits (976), Expect = e-129
Identities = 76/249 (30%), Positives = 133/249 (53%), Gaps = 15/249 (6%)
Query: 302 EEVEKYKEELEGIRVKGKGCPRPIKTWAQC----GVSKKILDALKKQNYEKPTPIQAQAI 357
++ + + + I V+G P PI T+ Q ++ ++L + ++ PTPIQ QAI
Sbjct: 2 MKINFLRNKHK-IHVQGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAI 60
Query: 358 PAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRELCMQIGK 417
P ++ GR+L+ A TGSGKT+AF +P+L + G A+I+SPTREL QI +
Sbjct: 61 PVMLHGRELLASAPTGSGKTLAFSIPILMQLKQPAN----KGFRALIISPTRELASQIHR 116
Query: 418 EAKKFTKSLGLRVVCVYGGTGISEQIS-ELKRGAEIIVCTPGRMIDMLAANSGRVTNLRR 476
E K ++ G R+ ++ +++ + + +I+V TP R+I +L + + +L
Sbjct: 117 ELIKISEGTGFRIHMIHKAAVAAKKFGPKSSKKFDILVTTPNRLIYLLKQDPPGI-DLAS 175
Query: 477 VTYIVLDEADRMFD---MGFEPQVMRIIDNVRPD-RQTVMFSATFPRQMEALARRILNKP 532
V ++V+DE+D++F+ GF Q+ I + MFSATF +E + L+
Sbjct: 176 VEWLVVDESDKLFEDGKTGFRDQLASIFLACTSHKVRRAMFSATFAYDVEQWCKLNLDNV 235
Query: 533 IEIQVGGRS 541
I + +G R+
Sbjct: 236 ISVSIGARN 244
>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA,
N project on protein structural and functional analyses;
2.40A {Dugesia japonica} SCOP: c.37.1.19
Length = 253
Score = 378 bits (972), Expect = e-129
Identities = 97/257 (37%), Positives = 153/257 (59%), Gaps = 15/257 (5%)
Query: 305 EKYKEELEGIRVKGK--GCPRPIKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMS 362
+KY + + + V G I+ + + + I + + +Y++PTPIQ AIPAI+
Sbjct: 2 DKY-DSIP-VSVTGPDYSATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILE 59
Query: 363 GRDLIGIAKTGSGKTVAFVLPLLRHIL----DQPPLEETDGPMAIIMSPTRELCMQIGKE 418
RD++ A+TGSGKT AF++P++ H++ +Q +T P +I++PTREL +QI E
Sbjct: 60 HRDIMACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSE 119
Query: 419 AKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVT 478
++KF+ + LR VYGG QI E++ G ++V TPGR++D + ++ +L
Sbjct: 120 SQKFSLNTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFI--EKNKI-SLEFCK 176
Query: 479 YIVLDEADRMFDMGFEPQVMRIIDNVRP----DRQTVMFSATFPRQMEALARRILNKPIE 534
YIVLDEADRM DMGFEPQ+ +II+ +RQT+MFSATFP++++ LA L I
Sbjct: 177 YIVLDEADRMLDMGFEPQIRKIIEESNMPSGINRQTLMFSATFPKEIQKLAADFLYNYIF 236
Query: 535 IQVGGRSVVCKEVEQHV 551
+ VG ++Q +
Sbjct: 237 MTVGRVGSTSDSIKQEI 253
>3ber_A Probable ATP-dependent RNA helicase DDX47; DEAD, AMP, structural
genomics, structural GEN consortium, SGC, ATP-binding,
hydrolase; HET: AMP PGE; 1.40A {Homo sapiens}
Length = 249
Score = 268 bits (686), Expect = 3e-86
Identities = 82/214 (38%), Positives = 129/214 (60%), Gaps = 7/214 (3%)
Query: 324 PIKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLP 383
KT+ GV+ + +A + + KPT IQ +AIP + GRD+IG+A+TGSGKT AF LP
Sbjct: 41 ETKTFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALP 100
Query: 384 LLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQI 443
+L +L+ P A++++PTREL QI ++ + S+G++ + GG Q
Sbjct: 101 ILNALLETPQ-----RLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQS 155
Query: 444 SELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDN 503
L + II+ TPGR+ID L + + NLR + Y+V+DEADR+ +M FE +V +I+
Sbjct: 156 LALAKKPHIIIATPGRLIDHL--ENTKGFNLRALKYLVMDEADRILNMDFETEVDKILKV 213
Query: 504 VRPDRQTVMFSATFPRQMEALARRILNKPIEIQV 537
+ DR+T +FSAT ++++ L R L P++ V
Sbjct: 214 IPRDRKTFLFSATMTKKVQKLQRAALKNPVKCAV 247
>2gxq_A Heat resistant RNA dependent ATPase; RNA helicase, atomic
resolution, AMP complex, ribosome biogenesis,
thermophilic, hydrolase; HET: AMP; 1.20A {Thermus
thermophilus HB27} PDB: 2gxs_A* 2gxu_A 3mwj_A 3mwk_A*
3mwl_A* 3nbf_A* 3nej_A
Length = 207
Score = 257 bits (658), Expect = 1e-82
Identities = 90/211 (42%), Positives = 124/211 (58%), Gaps = 7/211 (3%)
Query: 327 TWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLR 386
+ + +IL+AL + PTPIQA A+P + G+DLIG A+TG+GKT+AF LP+
Sbjct: 2 EFKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAE 61
Query: 387 HILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISEL 446
+ P E P A++++PTREL +Q+ E L+VV VYGGTG +Q L
Sbjct: 62 RL--APSQERGRKPRALVLTPTRELALQVASELTAVAP--HLKVVAVYGGTGYGKQKEAL 117
Query: 447 KRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRP 506
RGA+ +V TPGR +D L G + +L RV VLDEAD M MGFE +V ++ P
Sbjct: 118 LRGADAVVATPGRALDYL--RQGVL-DLSRVEVAVLDEADEMLSMGFEEEVEALLSATPP 174
Query: 507 DRQTVMFSATFPRQMEALARRILNKPIEIQV 537
RQT++FSAT P + LA R + P+ I V
Sbjct: 175 SRQTLLFSATLPSWAKRLAERYMKNPVLINV 205
>2pl3_A Probable ATP-dependent RNA helicase DDX10; DEAD, structural
genomics, structural genomic consortium, SGC, hydrolase;
HET: ADP; 2.15A {Homo sapiens}
Length = 236
Score = 257 bits (660), Expect = 2e-82
Identities = 80/236 (33%), Positives = 124/236 (52%), Gaps = 10/236 (4%)
Query: 302 EEVEKYKEELEGIRVKGKGCPRPIKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIM 361
E + + + E I V I ++ +SKK L L++ Y T IQ Q I +
Sbjct: 7 ESISRLMQNYEKINVN------EITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLAL 60
Query: 362 SGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKK 421
G+D++G AKTGSGKT+AF++P+L L + TDG +I+SPTREL Q + +K
Sbjct: 61 QGKDVLGAAKTGSGKTLAFLVPVL-EALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRK 119
Query: 422 FTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIV 481
K+ + GG + + + I+VCTPGR++ + + + +V
Sbjct: 120 VGKNHDFSAGLIIGGKDLKHEAERIN-NINILVCTPGRLLQHMDETVS--FHATDLQMLV 176
Query: 482 LDEADRMFDMGFEPQVMRIIDNVRPDRQTVMFSATFPRQMEALARRILNKPIEIQV 537
LDEADR+ DMGF + +I+N+ RQT++FSAT + ++ LAR L P + V
Sbjct: 177 LDEADRILDMGFADTMNAVIENLPKKRQTLLFSATQTKSVKDLARLSLKNPEYVWV 232
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 255 bits (655), Expect = 6e-82
Identities = 67/216 (31%), Positives = 111/216 (51%), Gaps = 12/216 (5%)
Query: 326 KTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLL 385
+ + I++A+K + KPT IQ + IP + G ++G ++TG+GKT A++LP++
Sbjct: 4 TQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLPIM 63
Query: 386 RHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSL----GLRVVCVYGGTGISE 441
I E A+I +PTREL QI E K TK + C+ GGT +
Sbjct: 64 EKI-K----PERAEVQAVITAPTRELATQIYHETLKITKFCPKDRMIVARCLIGGTDKQK 118
Query: 442 QISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRII 501
+ +L I++ TPGR+ D + + ++ +V+DEAD M DMGF V +I
Sbjct: 119 ALEKLNVQPHIVIGTPGRINDFI--REQAL-DVHTAHILVVDEADLMLDMGFITDVDQIA 175
Query: 502 DNVRPDRQTVMFSATFPRQMEALARRILNKPIEIQV 537
+ D Q ++FSAT P +++ ++ + P + V
Sbjct: 176 ARMPKDLQMLVFSATIPEKLKPFLKKYMENPTFVHV 211
>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 = 259 bits (664), Expect = 3e-81
Identities = 87/266 (32%), Positives = 148/266 (55%), Gaps = 17/266 (6%)
Query: 325 IKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSGR-DLIGIAKTGSGKTVAFVLP 383
+ + +S IL+A++ + +EKPT IQ + IP ++ +++ A+TGSGKT +F +P
Sbjct: 5 YMNFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASFAIP 64
Query: 384 LLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQI 443
L+ + E +G AII++PTREL +Q+ E + + L++ +YGG I QI
Sbjct: 65 LIELV------NENNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQI 118
Query: 444 SELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDN 503
LK I+V TPGR++D + N G + NL+ V Y +LDEAD M +MGF V +I++
Sbjct: 119 KALKNA-NIVVGTPGRILDHI--NRGTL-NLKNVKYFILDEADEMLNMGFIKDVEKILNA 174
Query: 504 VRPDRQTVMFSATFPRQMEALARRILNKPIEIQVGGRSVVCKEVEQHVIVLDEEQKMLKL 563
D++ ++FSAT PR++ LA++ + I+ + +EQ + ++E ++ L
Sbjct: 175 CNKDKRILLFSATMPREILNLAKKYMGDYSFIKAKINA----NIEQSYVEVNENERFEAL 230
Query: 564 LELLGIYQDQGSVIVFVDKQENADSL 589
LL + G +VF + + L
Sbjct: 231 CRLLKNKEFYG--LVFCKTKRDTKEL 254
>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 = 257 bits (659), Expect = 7e-81
Identities = 72/247 (29%), Positives = 135/247 (54%), Gaps = 21/247 (8%)
Query: 334 SKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPP 393
++KI A+++ ++ T +Q++ IP ++ G++++ AKTGSGKT A+ +P+L
Sbjct: 2 NEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILEL------ 55
Query: 394 LEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEII 453
G +++++PTREL Q+ + + + +V VYGG QI+ + R A+I+
Sbjct: 56 -----GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRV-RNADIV 109
Query: 454 VCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQTVMF 513
V TPGR++D+ + G + +L +++DEAD MF+MGF + I+ + T +F
Sbjct: 110 VATPGRLLDLW--SKGVI-DLSSFEIVIIDEADLMFEMGFIDDIKIILAQTSNRKITGLF 166
Query: 514 SATFPRQMEALARRILNKPIEIQVGGRSVVCKEVEQHVIVLDEEQKMLKLLELLGIYQDQ 573
SAT P ++ + + + EI+ + VE + + ++ + ++ L +D+
Sbjct: 167 SATIPEEIRKVVKDFITNYEEIEA---CIGLANVEHKFVHVKDDWR--SKVQALRENKDK 221
Query: 574 GSVIVFV 580
G VIVFV
Sbjct: 222 G-VIVFV 227
>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 = 258 bits (662), Expect = 2e-80
Identities = 81/258 (31%), Positives = 140/258 (54%), Gaps = 10/258 (3%)
Query: 332 GVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQ 391
+ +++L + + +EKP+PIQ +AIP ++GRD++ AK G+GKT AFV+P L +
Sbjct: 27 YLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKV-K- 84
Query: 392 PPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAE 451
+ + A+IM PTREL +Q + + K G+ + GGT + + I L
Sbjct: 85 ---PKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDILRLNETVH 141
Query: 452 IIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQTV 511
I+V TPGR++D+ S +V +L + ++DEAD+M F+ + +I+ + P Q++
Sbjct: 142 ILVGTPGRVLDLA---SRKVADLSDCSLFIMDEADKMLSRDFKTIIEQILSFLPPTHQSL 198
Query: 512 MFSATFPRQMEALARRILNKPIEIQVGGRSVVCKEVEQHVIVLDEEQKMLKLLELLGIYQ 571
+FSATFP ++ + L+KP EI + + K + Q+ ++E QK+ L L Q
Sbjct: 199 LFSATFPLTVKEFMVKHLHKPYEINL-MEELTLKGITQYYAFVEERQKLHCLNTLFSKLQ 257
Query: 572 DQGSVIVFVDKQENADSL 589
++I F + + L
Sbjct: 258 INQAII-FCNSTNRVELL 274
>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 = 258 bits (662), Expect = 2e-80
Identities = 78/254 (30%), Positives = 129/254 (50%), Gaps = 9/254 (3%)
Query: 325 IKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPL 384
T+ G+ + +L + +EKP+ IQ +AI I+ GRD+I +++G+GKT F + +
Sbjct: 36 TPTFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISV 95
Query: 385 LRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQIS 444
L+ + D + A+I++PTREL +QI K + ++ GGT + E I
Sbjct: 96 LQCL-D----IQVRETQALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIR 150
Query: 445 ELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNV 504
+L G ++ TPGR+ DM+ R R + +VLDEAD M + GF+ Q+ + +
Sbjct: 151 KLDYGQHVVAGTPGRVFDMI---RRRSLRTRAIKMLVLDEADEMLNKGFKEQIYDVYRYL 207
Query: 505 RPDRQTVMFSATFPRQMEALARRILNKPIEIQVGGRSVVCKEVEQ-HVIVLDEEQKMLKL 563
P Q V+ SAT P ++ + + + PI I V + + ++Q V V EE K L
Sbjct: 208 PPATQVVLISATLPHEILEMTNKFMTDPIRILVKRDELTLEGIKQFFVAVEREEWKFDTL 267
Query: 564 LELLGIYQDQGSVI 577
+L +VI
Sbjct: 268 CDLYDTLTITQAVI 281
>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding
protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19
Length = 206
Score = 248 bits (636), Expect = 2e-79
Identities = 68/210 (32%), Positives = 120/210 (57%), Gaps = 9/210 (4%)
Query: 327 TWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLR 386
+ + +++L + + +EKP+PIQ ++IP +SGRD++ AK G+GK+ A+++PLL
Sbjct: 4 EFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLLE 63
Query: 387 HILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSL-GLRVVCVYGGTGISEQISE 445
+ D + D A+++ PTREL +Q+ + + +K + G +V+ GGT + + I
Sbjct: 64 RL-D----LKKDNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIMR 118
Query: 446 LKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVR 505
L +++ TPGR++D++ V + V IVLDEAD++ F + II +
Sbjct: 119 LDDTVHVVIATPGRILDLI---KKGVAKVDHVQMIVLDEADKLLSQDFVQIMEDIILTLP 175
Query: 506 PDRQTVMFSATFPRQMEALARRILNKPIEI 535
+RQ +++SATFP ++ L KP EI
Sbjct: 176 KNRQILLYSATFPLSVQKFMNSHLEKPYEI 205
>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 = 254 bits (652), Expect = 4e-79
Identities = 76/267 (28%), Positives = 131/267 (49%), Gaps = 11/267 (4%)
Query: 324 PIKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLP 383
+ + + + +L + +E+P+ IQ +AI I+ G D++ A++G+GKT F +
Sbjct: 19 VVYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIA 78
Query: 384 LLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQI 443
L+ I D P A++++PTREL +QI K + ++V GGT E
Sbjct: 79 ALQRI-D----TSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDA 133
Query: 444 SELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDN 503
L+ A+I+V TPGR+ D + R ++ +LDEAD M GF+ Q+ +I
Sbjct: 134 EGLR-DAQIVVGTPGRVFDNI---QRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTL 189
Query: 504 VRPDRQTVMFSATFPRQMEALARRILNKPIEIQVGGRSVVCKEVEQ-HVIVLDEEQKMLK 562
+ P Q V+ SAT P + + + + P+ I V + + ++Q +V V +EE K
Sbjct: 190 LPPTTQVVLLSATMPNDVLEVTTKFMRNPVRILVKKDELTLEGIKQFYVNVEEEEYKYEC 249
Query: 563 LLELLGIYQDQGSVIVFVDKQENADSL 589
L +L +VI F + + + L
Sbjct: 250 LTDLYDSISVTQAVI-FCNTRRKVEEL 275
>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 = 254 bits (650), Expect = 1e-78
Identities = 76/258 (29%), Positives = 130/258 (50%), Gaps = 11/258 (4%)
Query: 325 IKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPL 384
+ ++ +S+ +L + +EKP+ IQ +AI + G D+I A++G+GKT F + +
Sbjct: 39 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISI 98
Query: 385 LRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQIS 444
L+ I + + A++++PTREL QI K +G GGT + ++
Sbjct: 99 LQQI-E----LDLKATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 153
Query: 445 ELKR-GAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDN 503
+L+ IIV TPGR+ DML + R + + + VLDEAD M GF+ Q+ I
Sbjct: 154 KLQMEAPHIIVGTPGRVFDML---NRRYLSPKYIKMFVLDEADEMLSRGFKDQIYDIFQK 210
Query: 504 VRPDRQTVMFSATFPRQMEALARRILNKPIEIQVGGRSVVCKEVEQ-HVIVLDEEQKMLK 562
+ + Q V+ SAT P + + ++ + PI I V + + + Q ++ V EE K+
Sbjct: 211 LNSNTQVVLLSATMPSDVLEVTKKFMRDPIRILVKKEELTLEGIRQFYINVEREEWKLDT 270
Query: 563 LLELLGIYQDQGSVIVFV 580
L +L +VI F+
Sbjct: 271 LCDLYETLTITQAVI-FI 287
>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 = 253 bits (649), Expect = 7e-77
Identities = 73/279 (26%), Positives = 129/279 (46%), Gaps = 28/279 (10%)
Query: 326 KTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSG--RDLIGIAKTGSGKTVAFVLP 383
+ + K+I A+ + + TP+Q + I I+S D+I AKTG+GKT AF++P
Sbjct: 72 SLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIP 131
Query: 384 LLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTK----SLGLRVVCVYGGTGI 439
+ L + A+I++PTR+L +QI E KK V + GGT
Sbjct: 132 IF-QHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDF 190
Query: 440 SEQISEL-KRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVM 498
++++ K I++ TPGR+ID+L R V Y VLDEADR+ ++GF +
Sbjct: 191 RAAMNKMNKLRPNIVIATPGRLIDVL--EKYSNKFFRFVDYKVLDEADRLLEIGFRDDLE 248
Query: 499 RIIDNV-------RPDRQTVMFSATFPRQMEALARRILNKPIEIQVG----GRSVVCKEV 547
I + + +T++FSAT +++ LA I+NK + + + +
Sbjct: 249 TISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERI 308
Query: 548 EQHVIVLDEEQKMLKLL------ELLGIYQDQGSVIVFV 580
+Q V++ ++ + ++ + I+F
Sbjct: 309 DQSVVISEKFANSIFAAVEHIKKQIKERDSNY-KAIIFA 346
>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 = 252 bits (645), Expect = 4e-76
Identities = 73/279 (26%), Positives = 129/279 (46%), Gaps = 28/279 (10%)
Query: 326 KTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSG--RDLIGIAKTGSGKTVAFVLP 383
+ + K+I A+ + + TP+Q + I I+S D+I AKTG+GKT AF++P
Sbjct: 21 SLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIP 80
Query: 384 LLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTK----SLGLRVVCVYGGTGI 439
+ L + A+I++PTR+L +QI E KK V + GGT
Sbjct: 81 IF-QHLINTKFDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDF 139
Query: 440 SEQISEL-KRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVM 498
++++ K I++ TPGR+ID+L R V Y VLDEADR+ ++GF +
Sbjct: 140 RAAMNKMNKLRPNIVIATPGRLIDVL--EKYSNKFFRFVDYKVLDEADRLLEIGFRDDLE 197
Query: 499 RIIDNV-------RPDRQTVMFSATFPRQMEALARRILNKPIEIQVG----GRSVVCKEV 547
I + + +T++FSAT +++ LA I+NK + + + +
Sbjct: 198 TISGILNEKNSKSADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEAHERI 257
Query: 548 EQHVIVLDEEQKMLKLL------ELLGIYQDQGSVIVFV 580
+Q V++ ++ + ++ + I+F
Sbjct: 258 DQSVVISEKFANSIFAAVEHIKKQIKERDSNY-KAIIFA 295
Score = 40.6 bits (95), Expect = 0.002
Identities = 11/70 (15%), Positives = 21/70 (30%)
Query: 3 RSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSK 62
+ S + E +++ RS++ + E R + RR K
Sbjct: 509 IRDYSSRDGNNKSYDYDDDSEISFRGNKNYNNRSQNRDYDDEPFRRSNNNRRSFSRSNDK 568
Query: 63 RRSRSREAER 72
SR +
Sbjct: 569 NNYSSRNSNI 578
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 245 bits (627), Expect = 2e-75
Identities = 41/281 (14%), Positives = 92/281 (32%), Gaps = 44/281 (15%)
Query: 334 SKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPP 393
+ KK+ + T Q I+ G+ +A TG GKT ++ L
Sbjct: 7 YEDFRSFFKKKFGKDLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLA----- 61
Query: 394 LEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKR----G 449
G + ++ PT L Q + +K +++ Y E+ K
Sbjct: 62 ---RKGKKSALVFPTVTLVKQTLERLQKLADE-KVKIFGFYSSMKKEEKEKFEKSFEEDD 117
Query: 450 AEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQ 509
I+V + + N ++ + +R ++ +D+ D + + ++ + +
Sbjct: 118 YHILVFSTQFVSK----NREKL-SQKRFDFVFVDDVDAVLKASRNIDTLLMMVGIPEEII 172
Query: 510 TVMFSATFPRQMEALARRI---------------------LNKPIEIQVGGRSVVCKEVE 548
FS ++ + + + VG V + +
Sbjct: 173 RKAFSTIKQGKIYERPKNLKPGILVVSSATAKPRGIRPLLFRDLLNFTVGRLVSVARNIT 232
Query: 549 QHVIVLDEEQKMLKLLELLGIYQDQGSVIVFVDKQENADSL 589
I ++K+++LLE+ +++F +E L
Sbjct: 233 HVRISSRSKEKLVELLEIFR-----DGILIFAQTEEEGKEL 268
>3ly5_A ATP-dependent RNA helicase DDX18; alpha-beta, structural genomics,
structural genomics consort ATP-binding, hydrolase,
nucleotide-binding, RNA-B; 2.80A {Homo sapiens}
Length = 262
Score = 239 bits (613), Expect = 4e-75
Identities = 75/204 (36%), Positives = 120/204 (58%), Gaps = 4/204 (1%)
Query: 333 VSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQP 392
V++ L A+K+ + T IQ ++I ++ GRDL+ AKTGSGKT+AF++P + ++ +
Sbjct: 61 VNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAV-ELIVKL 119
Query: 393 PLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEI 452
+G +I+SPTREL MQ K+ + GG+ S + +L G I
Sbjct: 120 RFMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINI 179
Query: 453 IVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQTVM 512
IV TPGR++D + N+ + + +V+DEADR+ D+GFE ++ +II + RQT++
Sbjct: 180 IVATPGRLLDHM-QNTPGF-MYKNLQCLVIDEADRILDVGFEEELKQIIKLLPTRRQTML 237
Query: 513 FSATFPRQMEALARRILNK-PIEI 535
FSAT R++E LAR L K P+ +
Sbjct: 238 FSATQTRKVEDLARISLKKEPLYV 261
>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX,
structural genomics, helic binding, HOST-virus
interaction, hydrolase; 1.85A {Homo sapiens} PDB:
2g9n_A*
Length = 237
Score = 235 bits (603), Expect = 6e-74
Identities = 64/214 (29%), Positives = 108/214 (50%), Gaps = 9/214 (4%)
Query: 325 IKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPL 384
+ + + + +L + +EKP+ IQ +AI + G D+I A++G+GKT F + +
Sbjct: 29 VDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISI 88
Query: 385 LRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQIS 444
L+ + + E A++++PTREL QI K +G GGT + ++
Sbjct: 89 LQQL-E----IEFKETQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQ 143
Query: 445 ELK-RGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDN 503
+L+ I+V TPGR+ DML + R + + + VLDEAD M GF+ Q+ I
Sbjct: 144 KLQAEAPHIVVGTPGRVFDML---NRRYLSPKWIKMFVLDEADEMLSRGFKDQIYEIFQK 200
Query: 504 VRPDRQTVMFSATFPRQMEALARRILNKPIEIQV 537
+ Q V+ SAT P + + ++ + PI I V
Sbjct: 201 LNTSIQVVLLSATMPTDVLEVTKKFMRDPIRILV 234
>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family,
gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 1qva_A
Length = 224
Score = 234 bits (599), Expect = 2e-73
Identities = 65/213 (30%), Positives = 108/213 (50%), Gaps = 9/213 (4%)
Query: 325 IKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPL 384
+ + + + +L + +E+P+ IQ +AI I+ G D++ A++G+GKT F +
Sbjct: 13 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 72
Query: 385 LRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQIS 444
L+ I D P A++++PTREL +QI K + ++V GGT E
Sbjct: 73 LQRI-D----TSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE 127
Query: 445 ELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNV 504
L R A+I+V TPGR+ D + R ++ +LDEAD M GF+ Q+ +I +
Sbjct: 128 GL-RDAQIVVGTPGRVFDNI---QRRRFRTDKIKMFILDEADEMLSSGFKEQIYQIFTLL 183
Query: 505 RPDRQTVMFSATFPRQMEALARRILNKPIEIQV 537
P Q V+ SAT P + + + + P+ I V
Sbjct: 184 PPTTQVVLLSATMPNDVLEVTTKFMRNPVRILV 216
>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 = 237 bits (608), Expect = 2e-72
Identities = 66/270 (24%), Positives = 132/270 (48%), Gaps = 16/270 (5%)
Query: 325 IKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSG--RDLIGIAKTGSGKTVAFVL 382
+K++ + + ++L + + +P+ IQ A+P +++ ++LI +++G+GKT AFVL
Sbjct: 24 VKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVL 83
Query: 383 PLLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSL-GLRVVCVYGGTGISE 441
+L + + P + +SPT EL +Q GK ++ K L++ G +
Sbjct: 84 AMLSQV-E----PANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRGNKLER 138
Query: 442 QISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFD-MGFEPQVMRI 500
K +I++ TPG ++D + + + +++ VLDEAD M G + Q +RI
Sbjct: 139 G---QKISEQIVIGTPGTVLDWC--SKLKFIDPKKIKVFVLDEADVMIATQGHQDQSIRI 193
Query: 501 IDNVRPDRQTVMFSATFPRQMEALARRILNKPIEIQVGGRSVVCKEVEQ-HVIVLDEEQK 559
+ + Q ++FSATF + A++++ P I++ ++Q +V+ ++K
Sbjct: 194 QRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLKREEETLDTIKQYYVLCSSRDEK 253
Query: 560 MLKLLELLGIYQDQGSVIVFVDKQENADSL 589
L L G ++I F ++ A L
Sbjct: 254 FQALCNLYGAITIAQAMI-FCHTRKTASWL 282
>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA
processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP:
c.37.1.19
Length = 220
Score = 229 bits (586), Expect = 8e-72
Identities = 63/209 (30%), Positives = 112/209 (53%), Gaps = 11/209 (5%)
Query: 332 GVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQ 391
+ ++L A+ +E P+ +Q + IP + G D++ AK+G GKT FVL L+ + +
Sbjct: 20 LLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQQL--E 77
Query: 392 PPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSL-GLRVVCVYGGTGISEQISELKRGA 450
P + ++M TREL QI KE ++F+K + ++V +GG I + LK+
Sbjct: 78 PVTGQ---VSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEVLKKNC 134
Query: 451 E-IIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFD-MGFEPQVMRIIDNVRPDR 508
I+V TPGR++ + + NL+ + + +LDE D+M + + V I ++
Sbjct: 135 PHIVVGTPGRILALA---RNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRMTPHEK 191
Query: 509 QTVMFSATFPRQMEALARRILNKPIEIQV 537
Q +MFSAT +++ + R+ + P+EI V
Sbjct: 192 QVMMFSATLSKEIRPVCRKFMQDPMEIFV 220
>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 = 235 bits (601), Expect = 1e-71
Identities = 75/267 (28%), Positives = 137/267 (51%), Gaps = 13/267 (4%)
Query: 327 TWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLR 386
+ + ++L A+ +E P+ +Q + IP + G D++ AK+G GKT FVL L+
Sbjct: 9 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 68
Query: 387 HILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSL-GLRVVCVYGGTGISEQISE 445
+ + T ++M TREL QI KE ++F+K + ++V +GG I +
Sbjct: 69 QL-E----PVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSIKKDEEV 123
Query: 446 LKRGAE-IIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFD-MGFEPQVMRIIDN 503
LK+ I+V TPGR++ + + NL+ + + +LDE D+M + + V I
Sbjct: 124 LKKNCPHIVVGTPGRILALA---RNKSLNLKHIKHFILDECDKMLEQLDMRRDVQEIFRM 180
Query: 504 VRPDRQTVMFSATFPRQMEALARRILNKPIEIQVGGRSVVCKE-VEQHVIVLDEEQKMLK 562
++Q +MFSAT +++ + R+ + P+EI V + + ++Q+ + L + +K K
Sbjct: 181 TPHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRK 240
Query: 563 LLELLGIYQDQGSVIVFVDKQENADSL 589
L +LL + + VI FV + +L
Sbjct: 241 LFDLLDVLEFNQVVI-FVKSVQRCIAL 266
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 237 bits (607), Expect = 3e-71
Identities = 76/242 (31%), Positives = 122/242 (50%), Gaps = 17/242 (7%)
Query: 352 IQAQAIPAIMSG--RDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTR 409
IQ +A+P ++S R++IG +++G+GKT AF L +L + D P AI ++P+R
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV-D----ASVPKPQAICLAPSR 199
Query: 410 ELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSG 469
EL QI + K V +G K A+I++ TPG ++D++
Sbjct: 200 ELARQIMDVVTEMGK--YTEVKTAFGIKDS--VPKGAKIDAQIVIGTPGTVMDLM---KR 252
Query: 470 RVTNLRRVTYIVLDEADRMFDM-GFEPQVMRIIDNVRPDRQTVMFSATFPRQMEALARRI 528
R + R + VLDEAD M D G Q MRI + + Q V+FSATF ++E A R
Sbjct: 253 RQLDARDIKVFVLDEADNMLDQQGLGDQSMRIKHLLPRNTQIVLFSATFSERVEKYAERF 312
Query: 529 LNKPIEIQVGGRSVVCKEVEQ-HVIVLDEEQKMLKLLELLGIYQDQGSVIVFVDKQENAD 587
EI++ + + ++Q ++ EE K L+EL G+ G I+F K++ A+
Sbjct: 313 APNANEIRLKTEELSVEGIKQLYMDCQSEEHKYNVLVELYGL-LTIGQSIIFCKKKDTAE 371
Query: 588 SL 589
+
Sbjct: 372 EI 373
>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 = 236 bits (603), Expect = 6e-71
Identities = 75/352 (21%), Positives = 160/352 (45%), Gaps = 23/352 (6%)
Query: 250 SEEEQEDLTSTAANLASKQKKELSKVDHSTIEYLPFRKDFYVEVPE-------IARMTPE 302
+ +EQE + +NL K++K + + ++ + E E + ++
Sbjct: 9 AVDEQEAAAESLSNLHLKEEKIKPDTNGAVVKTNANAEKTDEEEKEDRAAQSLLNKLIRS 68
Query: 303 EVEKYKEELEGIRVKGKGCPRPIKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMS 362
+ ++E ++ +K++ + + ++L + + +P+ IQ A+P +++
Sbjct: 69 NLVDNTNQVEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLA 128
Query: 363 G--RDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAK 420
++LI +++G+GKT AFVL +L + + P + +SPT EL +Q GK +
Sbjct: 129 EPPQNLIAQSQSGTGKTAAFVLAMLSQV-E----PANKYPQCLCLSPTYELALQTGKVIE 183
Query: 421 KFTKSL-GLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTY 479
+ K L++ G + K +I++ TPG ++D + + + +++
Sbjct: 184 QMGKFYPELKLAYAVRGNKLERG---QKISEQIVIGTPGTVLDWC--SKLKFIDPKKIKV 238
Query: 480 IVLDEADRMFD-MGFEPQVMRIIDNVRPDRQTVMFSATFPRQMEALARRILNKPIEIQVG 538
VLDEAD M G + Q +RI + + Q ++FSATF + A++++ P I++
Sbjct: 239 FVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKLK 298
Query: 539 GRSVVCKEVEQ-HVIVLDEEQKMLKLLELLGIYQDQGSVIVFVDKQENADSL 589
++Q +V+ ++K L L G ++F ++ A L
Sbjct: 299 REEETLDTIKQYYVLCSSRDEKFQALCNLYGA-ITIAQAMIFCHTRKTASWL 349
>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 = 232 bits (593), Expect = 2e-70
Identities = 76/270 (28%), Positives = 141/270 (52%), Gaps = 19/270 (7%)
Query: 325 IKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSG--RDLIGIAKTGSGKTVAFVL 382
K++ + G++ ++L + ++KP+ IQ +A+P ++ R++I +++G+GKT AF L
Sbjct: 4 AKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSL 63
Query: 383 PLLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVV-CVYGGTGISE 441
+L + + E P AI ++P+REL Q + ++ K + V ++
Sbjct: 64 TMLTRV-N----PEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDSFEKNK 118
Query: 442 QISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDM-GFEPQVMRI 500
QI A++IV TPG ++D++ ++ L+++ VLDEAD M D G Q +R+
Sbjct: 119 QI-----NAQVIVGTPGTVLDLM---RRKLMQLQKIKIFVLDEADNMLDQQGLGDQCIRV 170
Query: 501 IDNVRPDRQTVMFSATFPRQMEALARRILNKPIEIQVGGRSVVCKEVEQ-HVIVLDEEQK 559
+ D Q V+FSATF + A++I+ +++ V ++Q ++ +E K
Sbjct: 171 KRFLPKDTQLVLFSATFADAVRQYAKKIVPNANTLELQTNEVNVDAIKQLYMDCKNEADK 230
Query: 560 MLKLLELLGIYQDQGSVIVFVDKQENADSL 589
L EL G+ GS I+FV ++ A+ L
Sbjct: 231 FDVLTELYGL-MTIGSSIIFVATKKTANVL 259
>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural
genomics, structural genomics consortium, SGC,
hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*
Length = 230
Score = 223 bits (570), Expect = 3e-69
Identities = 59/213 (27%), Positives = 105/213 (49%), Gaps = 11/213 (5%)
Query: 327 TWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLR 386
+ +S+ +L+ L+ +E+P+P+Q +AIP G DLI AK+G+GKT F L
Sbjct: 25 DFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFSTIALD 84
Query: 387 HILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSL-GLRVVCVYGGTGISEQISE 445
+ E +I++PTRE+ +QI + GL GGT +S+ +
Sbjct: 85 SL-V----LENLSTQILILAPTREIAVQIHSVITAIGIKMEGLECHVFIGGTPLSQDKTR 139
Query: 446 LKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMG-FEPQVMRIIDNV 504
LK+ I V +PGR+ ++ N + +LDEAD++ + G F+ Q+ I ++
Sbjct: 140 LKK-CHIAVGSPGRIKQLI---ELDYLNPGSIRLFILDEADKLLEEGSFQEQINWIYSSL 195
Query: 505 RPDRQTVMFSATFPRQMEALARRILNKPIEIQV 537
+Q + SAT+P + + + P +++
Sbjct: 196 PASKQMLAVSATYPEFLANALTKYMRDPTFVRL 228
>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore
complex, nucleocytoplasmic trans mRNA export, protein
interaction, beta-propeller; HET: ADP; 2.51A {Homo
sapiens}
Length = 300
Score = 223 bits (570), Expect = 2e-68
Identities = 66/299 (22%), Positives = 141/299 (47%), Gaps = 21/299 (7%)
Query: 250 SEEEQEDLTSTAANLASKQKKELSKVDHSTIEYLPFRKDFYVEVPE-------IARMTPE 302
+ +EQE + +NL K++K + + ++ + E E + ++
Sbjct: 9 AVDEQEAAAESLSNLHLKEEKIKPDTNGAVVKTNANAEKTDEEEKEDRAAQSLLNKLIRS 68
Query: 303 EVEKYKEELEGIRVKGKGCPRPIKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIPAIMS 362
+ ++E ++ +K++ + + ++L + + +P+ IQ A+P +++
Sbjct: 69 NLVDNTNQVEVLQRDPNSPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLA 128
Query: 363 G--RDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAK 420
++LI +++G+GKT AFVL +L + + P + +SPT EL +Q GK +
Sbjct: 129 EPPQNLIAQSQSGTGKTAAFVLAMLSQV-E----PANKYPQCLCLSPTYELALQTGKVIE 183
Query: 421 KFTKSL-GLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTY 479
+ K L++ G + K +I++ TPG ++D + + + +++
Sbjct: 184 QMGKFYPELKLAYAVRGNKLERG---QKISEQIVIGTPGTVLDWC--SKLKFIDPKKIKV 238
Query: 480 IVLDEADRMFD-MGFEPQVMRIIDNVRPDRQTVMFSATFPRQMEALARRILNKPIEIQV 537
VLDEAD M G + Q +RI + + Q ++FSATF + A++++ P I++
Sbjct: 239 FVLDEADVMIATQGHQDQSIRIQRMLPRNCQMLLFSATFEDSVWKFAQKVVPDPNVIKL 297
>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 = 88.3 bits (218), Expect = 1e-18
Identities = 47/230 (20%), Positives = 95/230 (41%), Gaps = 13/230 (5%)
Query: 343 KQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMA 402
+++ +P Q + + + TG GKT+ ++ + + L + G
Sbjct: 4 RRDLIQPRIYQEVIYAKCK-ETNCLIVLPTGLGKTLIAMM-IAEYRLTKY------GGKV 55
Query: 403 IIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMID 462
++++PT+ L +Q + ++ ++V + G E+ S+ A++IV TP + +
Sbjct: 56 LMLAPTKPLVLQHAESFRRLFNLPPEKIVALTGEKSPEER-SKAWARAKVIVATPQTIEN 114
Query: 463 MLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQTVMFSATFPRQME 522
L +GR+ +L V+ IV DEA R + R + + +A+ E
Sbjct: 115 DL--LAGRI-SLEDVSLIVFDEAHRAVGNYAYVFIAREYKRQAKNPLVIGLTASPGSTPE 171
Query: 523 ALARRILNKPIEIQVGGRSVVCKEVEQHVIVLDEEQKMLKLLELLGIYQD 572
+ I N IE + RS +V +V + E + L E+ +
Sbjct: 172 KIMEVINNLGIE-HIEYRSENSPDVRPYVKGIRFEWVRVDLPEIYKEVRK 220
>2zj8_A DNA helicase, putative SKI2-type helicase; RECA fold, ATP-binding,
hydrolase, nucleotide- binding; 2.00A {Pyrococcus
furiosus} PDB: 2zj5_A* 2zj2_A 2zja_A*
Length = 720
Score = 77.2 bits (190), Expect = 6e-15
Identities = 55/262 (20%), Positives = 103/262 (39%), Gaps = 37/262 (14%)
Query: 332 GVSKKILDALKKQNYEKPTPIQAQAIP-AIMSGRDLIGIAKTGSGKTVAFVLPLLRHILD 390
V ++I LK++ E P QA+A+ I+ G++ + T SGKT+ + ++ IL
Sbjct: 7 RVDERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILT 66
Query: 391 QPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGA 450
G A+ + P + L + +E + + + +GLRV G E
Sbjct: 67 -------QGGKAVYIVPLKALAEEKFQEFQDW-EKIGLRVAMATGDYDSK---DEWLGKY 115
Query: 451 EIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQT 510
+II+ T + +L S ++ V +V DE + + I+ ++ Q
Sbjct: 116 DIIIATAEKFDSLLRHGSSW---IKDVKILVADEIHLIGSRDRGATLEVILAHMLGKAQI 172
Query: 511 VMFSATFPRQMEALAR-----------RILNKPIEIQVGGRSVVCK-EVEQHVIVLDEEQ 558
+ SAT E LA R P++++ R V + V +D
Sbjct: 173 IGLSATIG-NPEELAEWLNAELIVSDWR----PVKLR---RGVFYQGFVTWEDGSIDRFS 224
Query: 559 KMLKLLELLGIYQDQGSVIVFV 580
+L+ + + ++FV
Sbjct: 225 SWEELVYDA--IRKKKGALIFV 244
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 69.5 bits (170), Expect = 1e-13
Identities = 31/142 (21%), Positives = 58/142 (40%), Gaps = 7/142 (4%)
Query: 348 KPTPIQAQAIPAIMSGRDLIGIAKTGSGKT-VAFVLPLLRHILDQPPLEETDGPMAIIMS 406
+ P Q + + G+++I TGSGKT VA + + LD+ G I++
Sbjct: 33 QLRPYQMEVAQPALEGKNIIICLPTGSGKTRVAVYI--AKDHLDKKKKASEPGK-VIVLV 89
Query: 407 PTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAA 466
L Q+ ++ + RV+ + G T + E+ + +II+ T + + L
Sbjct: 90 NKVLLVEQLFRKEFQPFLKKWYRVIGLSGDTQLKISFPEVVKSCDIIISTAQILENSLLN 149
Query: 467 NSGR---VTNLRRVTYIVLDEA 485
L + I++DE
Sbjct: 150 LENGEDAGVQLSDFSLIIIDEC 171
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 73.2 bits (180), Expect = 1e-13
Identities = 39/164 (23%), Positives = 72/164 (43%), Gaps = 18/164 (10%)
Query: 322 PRPIKTWAQCGVSKKILDALKKQNYEKPTPIQAQAIP-AIMSGRDLIGIAKTGSGKTVAF 380
PI+ + +++ +KK+ +K P Q +A+ ++ G L+ + TGSGKT+
Sbjct: 7 WMPIEDL---KLPSNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIA 63
Query: 381 VLPLLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGIS 440
+ ++ +L +G AI ++P R L + K + + +G +V G
Sbjct: 64 EMGIISFLLK-------NGGKAIYVTPLRALTNEKYLTFKDW-ELIGFKVAMTSGDYDTD 115
Query: 441 EQISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDE 484
+ +II+ T ++ D L + L V Y VLDE
Sbjct: 116 ---DAWLKNYDIIITTYEKL-DSLWRHRPEW--LNEVNYFVLDE 153
>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 = 70.2 bits (172), Expect = 9e-13
Identities = 35/153 (22%), Positives = 72/153 (47%), Gaps = 15/153 (9%)
Query: 332 GVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQ 391
+S + LK++ E+ P QA+A+ + SG++L+ T +GKT+ + ++R +
Sbjct: 9 SISSYAVGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAI-- 66
Query: 392 PPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAE 451
G ++ + P R L + + KK+ + +GLR+ G + E +
Sbjct: 67 ------KGGKSLYVVPLRALAGEKYESFKKW-EKIGLRIGISTGDYESRD---EHLGDCD 116
Query: 452 IIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDE 484
IIV T + ++ + ++ V+ +V+DE
Sbjct: 117 IIVTTSEKADSLIRNRASW---IKAVSCLVVDE 146
>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 = 66.2 bits (160), Expect = 2e-11
Identities = 42/283 (14%), Positives = 94/283 (33%), Gaps = 11/283 (3%)
Query: 232 EKAKGELMEENQDGLEYSSEEEQEDLTSTAANLASKQKKELSKVDHSTI-EYLPFRKDFY 290
E + + + EN+ ++ + S + + L + E R+D
Sbjct: 136 ECEEIQQISENRSKAAGITKLIECLCRSDKEHWPKSLQLALDTTGYYRASELWDIREDNA 195
Query: 291 VEVPEIARMTPEEVEKYKEELEGIRVKGKGCPRPIKTWAQCGVSKKILDALKKQNYEKPT 350
+V E+ + + + P + ++ I +K
Sbjct: 196 KDVDSEMTDASEDCLE-----ASMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKAR 250
Query: 351 PIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRE 410
Q + ++G++ + A TGSGKT +L H + P + ++
Sbjct: 251 SYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMP---AGRKAKVVFLATKVP 307
Query: 411 LCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGR 470
+ Q K + G V + G + + ++ ++IIV TP +++ G
Sbjct: 308 VYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSF--EDGT 365
Query: 471 VTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQTVMF 513
+T+L T ++ DE +M + + + +
Sbjct: 366 LTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLP 408
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 65.8 bits (159), Expect = 2e-11
Identities = 34/152 (22%), Positives = 61/152 (40%), Gaps = 5/152 (3%)
Query: 348 KPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSP 407
KP Q + M G++ I A TG GKT +L + H L + P + + +
Sbjct: 13 KPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLL-ICEHHLKKFP--QGQKGKVVFFAN 69
Query: 408 TRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAAN 467
+ Q K+ + G RV + G T + + ++ +II+ TP +++ L
Sbjct: 70 QIPVYEQNKSVFSKYFERHGYRVTGISGATAENVPVEQIVENNDIIILTPQILVNNL--K 127
Query: 468 SGRVTNLRRVTYIVLDEADRMFDMGFEPQVMR 499
G + +L T ++ DE +M
Sbjct: 128 KGTIPSLSIFTLMIFDECHNTSKQHPYNMIMF 159
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 65.3 bits (158), Expect = 3e-11
Identities = 30/136 (22%), Positives = 56/136 (41%), Gaps = 5/136 (3%)
Query: 353 QAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRELC 412
Q + G++ I A TG GKT +L + H L + P + + +
Sbjct: 9 QLELALPAKKGKNTIICAPTGCGKTFVSLL-ICEHHLKKFP--CGQKGKVVFFANQIPVY 65
Query: 413 MQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGRVT 472
Q ++ + LG + + G T S + + +II+ TP +++ L N+G +
Sbjct: 66 EQQATVFSRYFERLGYNIASISGATSDSVSVQHIIEDNDIIILTPQILVNNL--NNGAIP 123
Query: 473 NLRRVTYIVLDEADRM 488
+L T ++ DE
Sbjct: 124 SLSVFTLMIFDECHNT 139
>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 = 64.2 bits (155), Expect = 7e-11
Identities = 30/166 (18%), Positives = 62/166 (37%), Gaps = 5/166 (3%)
Query: 348 KPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSP 407
K Q + ++G++ + A TGSGKT +L H + P + ++
Sbjct: 7 KARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMP---AGRKAKVVFLAT 63
Query: 408 TRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAAN 467
+ Q K + G V + G + + ++ ++IIV TP +++
Sbjct: 64 KVPVYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSF--E 121
Query: 468 SGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQTVMF 513
G +T+L T ++ DE +M + + + +
Sbjct: 122 DGTLTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLP 167
>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 = 61.5 bits (148), Expect = 5e-10
Identities = 42/283 (14%), Positives = 94/283 (33%), Gaps = 11/283 (3%)
Query: 232 EKAKGELMEENQDGLEYSSEEEQEDLTSTAANLASKQKKELSKVDHSTI-EYLPFRKDFY 290
E + + + EN+ ++ + S + + L + E R+D
Sbjct: 136 ECEEIQQISENRSKAAGITKLIECLCRSDKEHWPKSLQLALDTTGYYRASELWDIREDNA 195
Query: 291 VEVPEIARMTPEEVEKYKEELEGIRVKGKGCPRPIKTWAQCGVSKKILDALKKQNYEKPT 350
+V E+ + + + P + ++ I +K
Sbjct: 196 KDVDSEMTDASEDCLE-----ASMTYSEEAEPDDNLSENLGSAAEGIGKPPPVYETKKAR 250
Query: 351 PIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRE 410
Q + ++G++ + A TGSGKT +L H + P + ++
Sbjct: 251 SYQIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQNMP---AGRKAKVVFLATKVP 307
Query: 411 LCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGR 470
+ Q K + G V + G + + ++ ++IIV TP +++ G
Sbjct: 308 VYEQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIEDSDIIVVTPQILVNSF--EDGT 365
Query: 471 VTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQTVMF 513
+T+L T ++ DE +M + + + +
Sbjct: 366 LTSLSIFTLMIFDECHNTTGNHPYNVLMTRYLEQKFNSASQLP 408
>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 = 61.4 bits (148), Expect = 6e-10
Identities = 72/427 (16%), Positives = 138/427 (32%), Gaps = 98/427 (22%)
Query: 187 MQGVHEEMRKVNKPAVPTTADVKPADSGSKPAGVVIVTGVVKKSVEKAKGELMEENQ--- 243
Q ++++ V + A D K K I++ K+ ++ +
Sbjct: 14 HQYQYKDILSVFEDAFVDNFDCKDVQDMPKS----ILS---KEEIDHIIMSKDAVSGTLR 66
Query: 244 --DGLEYSSEEEQEDLTSTAAN-----LASKQKKELSKVDHSTIEYLPFRKDFYVEVPEI 296
L EE + L S K E + T Y+ R Y +
Sbjct: 67 LFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTEQRQPSMMTRMYIEQRDRLYNDNQVF 126
Query: 297 ARMT---PEEVEKYKEEL------EGIRVKG-KGCPRPIKTWAQCGVSKKILDALKKQNY 346
A+ + K ++ L + + + G G KTW LD +Y
Sbjct: 127 AKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSG---KTWV-------ALDVC--LSY 174
Query: 347 EKPTPIQAQAIPAIMSGRDL-IGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIM 405
+ +Q + M + + + S +TV +L L + +D +D I +
Sbjct: 175 K----VQCK-----MDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKL 225
Query: 406 SPT------RELCMQIGKEAKKFTKSL-GLRVVCVYGGTGISEQISELKRGAEIIVCTPG 458
R L K + L L V ++ + +I++ T
Sbjct: 226 RIHSIQAELRRLLKS-----KPYENCLLVLLNVQ------NAKAWNAFNLSCKILLTTRF 274
Query: 459 RMI-DMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIID---NVRPD---RQTV 511
+ + D L+A T+I LD +V ++ + RP R+ +
Sbjct: 275 KQVTDFLSAA--------TTTHISLDHHSMTLT---PDEVKSLLLKYLDCRPQDLPREVL 323
Query: 512 MFSATFPRQMEALARRILNKPIEIQVGGRSVVCKEVEQHVI-----VLD-EEQKMLKLLE 565
T PR++ +A I + + V C ++ +I VL+ E + K+ +
Sbjct: 324 ---TTNPRRLSIIAESIRDGLATWD-NWKHVNCDKLT-TIIESSLNVLEPAEYR--KMFD 376
Query: 566 LLGIYQD 572
L ++
Sbjct: 377 RLSVFPP 383
Score = 44.8 bits (105), Expect = 9e-05
Identities = 50/381 (13%), Positives = 86/381 (22%), Gaps = 127/381 (33%)
Query: 29 DRDRRRRSRSHERRSERDRDRDLERRKEKSRG--------SKR---------------RS 65
D + R H + R L + K + + R
Sbjct: 218 DHSSNIKLRIHS---IQAELRRLLKSKPYENCLLVLLNVQNAKAWNAFNLSCKILLTTRF 274
Query: 66 RS----REAERSKDHSKKEEKDKREKEEEEAAF------DPSKLDKEVEATR-LELEM-- 112
+ A + S +E ++ P L +EV T L +
Sbjct: 275 KQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIA 334
Query: 113 ---QKRRDRIERWRAERKKKDIETIKKDIKSNLSSGLGGSAPMKKWNLEDDSDEDENDNK 169
+ + W+ K I+ + L + E
Sbjct: 335 ESIRDGLATWDNWKHVNCDKLTTIIESSLN-VL-----------------EPAEYRKMFD 376
Query: 170 DENGKTAEEDIDPLDAFMQGVHEEMRKVNKPAVPTT------ADVKPADSGSKPAGVVIV 223
L F H +PT DV +D V+V
Sbjct: 377 R------------LSVFPPSAH----------IPTILLSLIWFDVIKSDVM------VVV 408
Query: 224 TGVVKKSVEKAKGELMEENQDGLEYSSEEEQEDLTSTAANLASKQKK------ELSKVDH 277
+ K S L+E+ S +L N + + D
Sbjct: 409 NKLHKYS-------LVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDS 461
Query: 278 STIEYLPFRKDFYVEVPEIAR-MTPEEVEKYKEELEGI---------RVKGKGCPRPIKT 327
+ +P D Y I + E + + +++
Sbjct: 462 DDL--IPPYLDQYF-YSHIGHHLKNIEHPERMTLFRMVFLDFRFLEQKIRHDSTA----- 513
Query: 328 WAQCGVSKKILDALKKQNYEK 348
W G L LK Y+
Sbjct: 514 WNASGSILNTLQQLKF--YKP 532
Score = 37.5 bits (86), Expect = 0.014
Identities = 18/103 (17%), Positives = 37/103 (35%), Gaps = 25/103 (24%)
Query: 491 MGFEPQVMR-----IIDNVRPDRQTVMFSATFP-RQMEALARRILNKPIEIQVGGRSVVC 544
M FE + I+ F F + ++ + + IL+K
Sbjct: 7 MDFETGEHQYQYKDILSVFEDA-----FVDNFDCKDVQDMPKSILSK------------- 48
Query: 545 KEVEQHVIVLDEEQKMLKLLELLGIYQDQGSVIVFVDKQENAD 587
+E++ ++ D L+L L Q++ V FV++ +
Sbjct: 49 EEIDHIIMSKDAVSGTLRLFWTLLSKQEEM-VQKFVEEVLRIN 90
>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 = 60.4 bits (146), Expect = 1e-09
Identities = 59/305 (19%), Positives = 101/305 (33%), Gaps = 82/305 (26%)
Query: 287 KDFYVEVPEIARMTPEEVEKYKEELEGIRVKG--KGCPRPIKTWAQCGV-SKKILDALKK 343
D Y + + A+ + + ++ G + P + T G K+I +
Sbjct: 1633 MDLY-KTSKAAQDVWNRADNHFKDTYGFSILDIVINNPVNL-TIHFGGEKGKRI-----R 1685
Query: 344 QNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILD-----QPPLEETD 398
+NY + + I + I + F + +L QP L
Sbjct: 1686 ENYSA---MIFETIVDGKLKTEKIFKEINEHSTSYTFRSE--KGLLSATQFTQPAL---- 1736
Query: 399 GPMAIIMSPTRELCMQIGKEAKKFTK-------SLG----LRVVCVYGGTGIS-EQISEL 446
+ + +L K SLG L + +S E + E+
Sbjct: 1737 --TLMEKAAFEDL-----KSKGLIPADATFAGHSLGEYAAL--ASL-ADV-MSIESLVEV 1785
Query: 447 --KRGAEIIVCTP----GR-MIDMLAANSGRVT---NLRRVTYIVLDEADRMFDMGFEPQ 496
RG + V P GR M+A N GRV + + Y+V R
Sbjct: 1786 VFYRGMTMQVAVPRDELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKR------TGW 1839
Query: 497 VMRII-DNVRPDRQTVMFSATFPRQMEAL--ARRILN-------KPIEIQVGGRSVVCKE 546
++ I+ NV ++Q V + + AL +LN IE+Q S+ +E
Sbjct: 1840 LVEIVNYNV-ENQQYVA-AGD----LRALDTVTNVLNFIKLQKIDIIELQK---SLSLEE 1890
Query: 547 VEQHV 551
VE H+
Sbjct: 1891 VEGHL 1895
Score = 44.3 bits (104), Expect = 1e-04
Identities = 83/520 (15%), Positives = 152/520 (29%), Gaps = 170/520 (32%)
Query: 156 NLEDDSDEDENDNKDENGKTAEEDIDPLDA-FMQGVHEEMRKVNKPAVPTTADVKPADSG 214
L + ++ D DE AE L F+ + ++ V+P+ G
Sbjct: 40 ILPEPTEGFAAD--DEPTTPAE-----LVGKFLG--Y------------VSSLVEPSKVG 78
Query: 215 SKPAGVVIVTGVVKKSVEKAKGELMEENQDGLEYSSEEEQEDLTSTAANLASKQKKELSK 274
V+ + + + +E N D+ + AA L + L K
Sbjct: 79 QFDQ-------VLNLCLTEFENCYLEGN-------------DIHALAAKLLQENDTTLVK 118
Query: 275 VDHSTIEYLPFRKDFYVEVPEIARMTPEEVEKYKEE---LEGIRVKGKGCPRPIKTWAQC 331
I+ Y+ AR+ + K + +G + A
Sbjct: 119 T-KELIKN-------YIT----ARIMAKRPFDKKSNSALFRAVG-EGN-----AQLVAIF 160
Query: 332 ---GVSKKILDALKKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAF-----VLP 383
G + + L+ Y+ + I S L + +T F +L
Sbjct: 161 GGQGNTDDYFEELRDL-YQTYHVLVGDLIKF--SAETLSELIRTTLDAEKVFTQGLNILE 217
Query: 384 LLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQI 443
L + + P + ++ P S L + V Q+
Sbjct: 218 WLENPSNTPDKD------YLLSIPI----------------SCPL--IGVI-------QL 246
Query: 444 SELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDN 503
+ A+++ TPG + L +G L VT + + E D F V + I
Sbjct: 247 AHYVVTAKLLGFTPGELRSYLKGATGHSQGL--VTAVAIAETDSWES--FFVSVRKAI-- 300
Query: 504 VRPDRQTVMFSA------TFPRQMEALARRILNKPIEIQVGGRS---VVC----KEVEQH 550
TV+F +P +L IL +E G S + ++V+ +
Sbjct: 301 ------TVLFFIGVRCYEAYPNT--SLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDY 352
Query: 551 V----IVLDEEQKM-LKL---------------LELLGIY---------QDQGSVIVFVD 581
V L +++ + L L L + DQ S I F +
Sbjct: 353 VNKTNSHLPAGKQVEISLVNGAKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ-SRIPFSE 411
Query: 582 KQENAD-SLL-----FHS--MDPCLEFLPLPAGITRFIWQ 613
++ L FHS + P + + +
Sbjct: 412 RKLKFSNRFLPVASPFHSHLLVPASDLINKDLVKNNVSFN 451
Score = 41.6 bits (97), Expect = 8e-04
Identities = 51/370 (13%), Positives = 116/370 (31%), Gaps = 130/370 (35%)
Query: 237 ELMEENQDGLEYSSEE-EQEDLTSTAANLASKQKKELSKVDHSTIEYLPFRKDFYVEVPE 295
+L E+ L +E +D +T A L K +L +
Sbjct: 32 QLQEQFNKILPEPTEGFAADDEPTTPAELVGK--------------FLGY---------- 67
Query: 296 IARMT-PEEVEKYKEELEGIRVKGKGCPRPIKTWAQCGVSKKILDALKKQNYEKPTPIQA 354
++ + P +V ++ + V L +
Sbjct: 68 VSSLVEPSKVGQFDQ-----------------------VLNLCLTEFENC---------- 94
Query: 355 QAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTR---EL 411
+ G D+ H L L+E D + +
Sbjct: 95 -----YLEGNDI--------------------HALAAKLLQENDTTLVKTKELIKNYITA 129
Query: 412 CMQIGKEAKKFTKSL--------GLRVVCVYGGTGISEQ-ISELKRGAEIIVCTPGRMI- 461
+ + K + S ++V ++GG G ++ EL+ + T ++
Sbjct: 130 RIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRD----LYQTYHVLVG 185
Query: 462 DMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDN--VRPDRQTVMFSA--TF 517
D++ ++ ++ L R T +A+++F G ++ ++N PD + + S +
Sbjct: 186 DLIKFSAETLSELIRTT----LDAEKVFTQGL--NILEWLENPSNTPD-KDYLLSIPISC 238
Query: 518 P----RQME--ALARRILNK-PIEI--QVGGRSVVCKEVEQHVIV---------LDEEQK 559
P Q+ + ++L P E+ + G + + + V + +K
Sbjct: 239 PLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRK 298
Query: 560 MLKLLELLGI 569
+ +L +G+
Sbjct: 299 AITVLFFIGV 308
Score = 39.6 bits (92), Expect = 0.003
Identities = 32/151 (21%), Positives = 54/151 (35%), Gaps = 37/151 (24%)
Query: 481 VLDEADRMF--DMGFEPQVMRIIDNVR--PDRQTVMFSATFPRQM-EALARRILNKPIEI 535
V + AD F GF I+D V P T+ F +++ E + I ++
Sbjct: 1645 VWNRADNHFKDTYGF-----SILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDG 1699
Query: 536 QVGGRSVVCKEVEQHV--IVLDEEQKMLKLLE-----LLGIYQDQGSVIVFVD-KQE--- 584
++ + KE+ +H E+ +L + L + F D K +
Sbjct: 1700 KLKTEKIF-KEINEHSTSYTFRSEKGLLSATQFTQPALTLM-----EKAAFEDLKSKGLI 1753
Query: 585 NADSLLF--HSMDPCL-EF--LPLPAGITRF 610
AD+ F HS L E+ L A +
Sbjct: 1754 PADA-TFAGHS----LGEYAALASLADVMSI 1779
Score = 33.1 bits (75), Expect = 0.37
Identities = 45/279 (16%), Positives = 72/279 (25%), Gaps = 119/279 (42%)
Query: 188 QGVHE-----EMRKVNKPAVPTTADV-KPADSGSKPA-GVVIVTGVVKKSVEKA------ 234
QG E ++ K A DV AD+ K G I+ V+ V
Sbjct: 1624 QGSQEQGMGMDLYK-TSKAA---QDVWNRADNHFKDTYGFSILDIVINNPVNLTIHFGGE 1679
Query: 235 KGELMEENQDGLEYSS------------------------EEEQEDLTST-----AANLA 265
KG+ + EN + + + E+ L++T A L
Sbjct: 1680 KGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALTLM 1739
Query: 266 SK------QKKELSKVD-----HSTIEY---------LPF---------R-KDFYVEVPE 295
K + K L D HS EY + R V VP
Sbjct: 1740 EKAAFEDLKSKGLIPADATFAGHSLGEYAALASLADVMSIESLVEVVFYRGMTMQVAVPR 1799
Query: 296 ---------IARMTPEEV------EKYKEELEGIRVKGKG--------CPRPIKTWAQ-- 330
+ + P V E + +E + + Q
Sbjct: 1800 DELGRSNYGMIAINPGRVAASFSQEALQYVVERVGKRTGWLVEIVNYNVEN-----QQYV 1854
Query: 331 CG-----VSK--KILDALKKQNYEKPTPIQAQAIPAIMS 362
+ +L+ +K Q I + +S
Sbjct: 1855 AAGDLRALDTVTNVLNFIKLQK------IDIIELQKSLS 1887
Score = 31.6 bits (71), Expect = 1.1
Identities = 16/92 (17%), Positives = 28/92 (30%), Gaps = 21/92 (22%)
Query: 49 RDLER-----RKEKSRGSKRRSRSREAERSKD------------HSK--KEEKDKREKE- 88
+ L RK K+ +SR +ER HS D K+
Sbjct: 384 QSLYGLNLTLRKAKAPSGLDQSRIPFSERKLKFSNRFLPVASPFHSHLLVPASDLINKDL 443
Query: 89 -EEEAAFDPSKLDKEVEATRLELEMQKRRDRI 119
+ +F+ + V T +++ I
Sbjct: 444 VKNNVSFNAKDIQIPVYDTFDGSDLRVLSGSI 475
>3pgw_S U1-70K; protein-RNA complex, U1 snRNA, SM fold, SM core, RRM,
splici SNRNPS, splicing factors; HET: DNA; 4.40A {Homo
sapiens} PDB: 3cw1_K 2l5i_A 2l5j_A*
Length = 437
Score = 55.2 bits (132), Expect = 3e-08
Identities = 25/151 (16%), Positives = 49/151 (32%)
Query: 3 RSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSK 62
+R+ SRSR + + KE R D S + + + +L K
Sbjct: 287 DRKRRSSRSRERARRERERKEELRGGGGDMAEPSEAGDAPPDDGPPGELGPDGPDGPEEK 346
Query: 63 RRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERW 122
R R RE RS ++ +D+ + + + E + + +E
Sbjct: 347 GRDRDRERRRSHRSERERRRDRDRDRDRDREHKRGERGSERGRDEARGGGGGQDNGLEGL 406
Query: 123 RAERKKKDIETIKKDIKSNLSSGLGGSAPMK 153
+ + +E+ D +G A +
Sbjct: 407 GNDSRDMYMESEGGDGYLAPENGYLMEAAPE 437
Score = 55.2 bits (132), Expect = 3e-08
Identities = 34/169 (20%), Positives = 60/169 (35%)
Query: 3 RSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSK 62
RSR + + + R +D++ RRRSR + +RDR R R +E++R +
Sbjct: 244 RSRERDKERERRRSRSRDRRRRSRSRDKEERRRSRERSKDKDRDRKRRSSRSRERARRER 303
Query: 63 RRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERW 122
R E D + P D E R ++R R ER
Sbjct: 304 ERKEELRGGGGDMAEPSEAGDAPPDDGPPGELGPDGPDGPEEKGRDRDRERRRSHRSERE 363
Query: 123 RAERKKKDIETIKKDIKSNLSSGLGGSAPMKKWNLEDDSDEDENDNKDE 171
R + +D + ++ + S G +D+ E ++ +
Sbjct: 364 RRRDRDRDRDRDREHKRGERGSERGRDEARGGGGGQDNGLEGLGNDSRD 412
Score = 54.1 bits (129), Expect = 8e-08
Identities = 36/177 (20%), Positives = 63/177 (35%)
Query: 3 RSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSK 62
R RR+ S R KE RR + + R +RRS R R+R R+ K
Sbjct: 252 RERRRSRSRDRRRRSRSRDKEERRRSRERSKDKDRDRKRRSSRSRERARRERERKEELRG 311
Query: 63 RRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERW 122
E + D + + + D++ E R ++RR +R
Sbjct: 312 GGGDMAEPSEAGDAPPDDGPPGELGPDGPDGPEEKGRDRDRERRRSHRSERERRRDRDRD 371
Query: 123 RAERKKKDIETIKKDIKSNLSSGLGGSAPMKKWNLEDDSDEDENDNKDENGKTAEED 179
R ++ + + + G GG L +DS + +++ +G A E+
Sbjct: 372 RDRDREHKRGERGSERGRDEARGGGGGQDNGLEGLGNDSRDMYMESEGGDGYLAPEN 428
Score = 43.7 bits (102), Expect = 1e-04
Identities = 26/128 (20%), Positives = 42/128 (32%)
Query: 3 RSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSK 62
S +R + RDK+R+RRR RR R RD++ RR + K
Sbjct: 225 PSPLPHRDRDRDRERERRERSRERDKERERRRSRSRDRRRRSRSRDKEERRRSRERSKDK 284
Query: 63 RRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERW 122
R R R + RS++ +++E + K E +
Sbjct: 285 DRDRKRRSSRSRERARRERERKEELRGGGGDMAEPSEAGDAPPDDGPPGELGPDGPDGPE 344
Query: 123 RAERKKKD 130
R +
Sbjct: 345 EKGRDRDR 352
>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 = 54.2 bits (130), Expect = 7e-08
Identities = 32/243 (13%), Positives = 66/243 (27%), Gaps = 54/243 (22%)
Query: 351 PIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRE 410
+ S + A TGSGK+ + P G ++++P+
Sbjct: 220 TDNSSPPAVPQSFQVAHLHAPTGSGKS--------TKV---PAAYAAQGYKVLVLNPSVA 268
Query: 411 LCMQIGKE-AKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSG 469
+ G +K +R + + GA + T G+ +
Sbjct: 269 ATLGFGAYMSKAHGIDPNIRT-----------GVRTITTGAPVTYSTYGKFLAD------ 311
Query: 470 RVTNLRRVTYIVLDEADRM---FDMGFEPQVMRIIDNVRPDRQTVMFSATFPRQMEALAR 526
+ I+ DE +G V+ + + +AT P
Sbjct: 312 GGCSGGAYDIIICDECHSTDSTTILGIG-TVLDQAETAGARLVVLA-TATPP------GS 363
Query: 527 RILNKPIEIQVGGRSVVCKEVEQHVIVLDEEQKMLKLLELLGIYQDQGSVIVFVDKQENA 586
+ P +V + I ++ + G ++F ++
Sbjct: 364 VTVPHPNIEEVALSNTGEIPFYGKAIPIEAIR--------------GGRHLIFCHSKKKC 409
Query: 587 DSL 589
D L
Sbjct: 410 DEL 412
>3l9o_A ATP-dependent RNA helicase DOB1; REC-A fold,
winged-helix-turn-helix, antiparallel-coiled-COI domain,
ATP-binding, helicase, hydrolase; 3.39A {Saccharomyces
cerevisiae}
Length = 1108
Score = 54.1 bits (129), Expect = 1e-07
Identities = 62/350 (17%), Positives = 102/350 (29%), Gaps = 43/350 (12%)
Query: 177 EEDIDPLDAFMQGVHEEMRKVNKPAVPTTADVKPADSGSKPAGVVIVTGVVKKSVEKAKG 236
+ IDP FM ++ V + + + V
Sbjct: 26 FQGIDPFTEFMDS--TDLFDVFEETPVELPTDSNGEKNADT-------NVGDTPDHTQDK 76
Query: 237 ELMEENQDGLEYSSEEEQEDLTSTAANLASKQKKELSKVDHSTIEYLPFRKDFYVEVPEI 296
+ E + + E + + S + K KK + V + E R+ +
Sbjct: 77 KHGLEEEKEEHEENNSENKKIKSNKSKTEDKNKKVVVPVLADSFEQEASREVDASKGLTN 136
Query: 297 ARMTPEEVEKYKEELEGIRVKGKGCPRPIKTWAQCGVSKKILDALKKQNYEKPTPIQAQA 356
+ E + +R + P K ++ + + P Q A
Sbjct: 137 SETLQVEQDGKVRLSHQVRHQ---VALPPNYDYTPIAEHKRVNEARTYPFT-LDPFQDTA 192
Query: 357 IPAIMSGRDLIGIAKTGSGKTV----AFVLPLLRHILDQPPLEETDGPMAIIMSPTRELC 412
I I G ++ A T +GKTV A L I SP + L
Sbjct: 193 ISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKN------------KQRVIYTSPIKALS 240
Query: 413 MQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGRVT 472
Q +E +G G+ + A +V T + ML S
Sbjct: 241 NQKYRELLA-----------EFGDVGLMTGDITINPDAGCLVMTTEILRSMLYRGSEV-- 287
Query: 473 NLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQTVMFSATFPRQME 522
+R V +++ DE M D I + + V SAT P ME
Sbjct: 288 -MREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAME 336
>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 = 49.5 bits (119), Expect = 4e-07
Identities = 15/57 (26%), Positives = 27/57 (47%)
Query: 533 IEIQVGGRSVVCKEVEQHVIVLDEEQKMLKLLELLGIYQDQGSVIVFVDKQENADSL 589
+ + + + Q V+ ++E K LL+LL +VFV+ ++ ADSL
Sbjct: 6 HHENLYFQGSTSENITQKVVWVEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSL 62
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 48.8 bits (117), Expect = 9e-07
Identities = 16/68 (23%), Positives = 32/68 (47%), Gaps = 9/68 (13%)
Query: 529 LNKPIEIQVGGRSVV-------CKEVEQHVIVLDEEQKMLKLLELLGIYQDQGSVIVFVD 581
+ + +G ++ +V Q V + EE KM+ LLE L + V++F +
Sbjct: 5 HHHSSGVDLGTENLYFQSMGAASLDVIQEVEYVKEEAKMVYLLECLQ--KTPPPVLIFAE 62
Query: 582 KQENADSL 589
K+ + D++
Sbjct: 63 KKADVDAI 70
>2xgj_A ATP-dependent RNA helicase DOB1; hydrolase-RNA complex, hydrolase,
tramp, exosome, DEAD, nucleotide-binding; HET: ADP;
2.90A {Saccharomyces cerevisiae}
Length = 1010
Score = 49.8 bits (118), Expect = 2e-06
Identities = 42/176 (23%), Positives = 58/176 (32%), Gaps = 30/176 (17%)
Query: 351 PIQAQAIPAIMSGRDLIGIAKTGSGKTV----AFVLPLLRHILDQPPLEETDGPMAIIMS 406
P Q AI I G ++ A T +GKTV A L I S
Sbjct: 89 PFQDTAISCIDRGESVLVSAHTSAGKTVVAEYAIAQSLKN------------KQRVIYTS 136
Query: 407 PTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAA 466
P + L Q +E +G G+ + A +V T + ML
Sbjct: 137 PIKALSNQKYRELLA-----------EFGDVGLMTGDITINPDAGCLVMTTEILRSMLYR 185
Query: 467 NSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQTVMFSATFPRQME 522
S +R V +++ DE M D I + + V SAT P ME
Sbjct: 186 GSEV---MREVAWVIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAME 238
>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 = 47.1 bits (112), Expect = 1e-05
Identities = 31/236 (13%), Positives = 64/236 (27%), Gaps = 51/236 (21%)
Query: 359 AIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKE 418
+ G + G+GKT F+ +L + ++++PTR + ++ +
Sbjct: 4 MLKKGMTTVLDFHPGAGKTRRFLPQILAECARR-------RLRTLVLAPTRVVLSEMKEA 56
Query: 419 AKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVT 478
+ +G I + + T +
Sbjct: 57 FHGLDVKFHTQAFSAHGSGREV-----------IDAMCHATLTYRMLEP----TRVVNWE 101
Query: 479 YIVLDE-----ADRMFDMGFEPQVMRIIDNVRPDRQTVMFSATFPRQMEALARRILNKPI 533
I++DE + G+ R + T++ +AT P + N I
Sbjct: 102 VIIMDEAHFLDPASIAARGWAAHRAR-----ANESATILMTATPPGTSDEFPHS--NGEI 154
Query: 534 EIQVGGRSVVCKEVEQHVIVLDEEQKMLKLLELLGIYQDQGSVIVFVDKQENADSL 589
E + E D I D+ F+ A+ +
Sbjct: 155 EDV--QTDI---PSEPWNTGHDW------------ILADKRPTAWFLPSIRAANVM 193
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 44.0 bits (103), Expect = 4e-05
Identities = 13/75 (17%), Positives = 33/75 (44%), Gaps = 5/75 (6%)
Query: 20 RPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREAERSKDHSKK 79
+ ++ + R+ R E + +R ++ D + + ++ + E E ++ S++
Sbjct: 76 QADRLTQEPESIRKWR----EEQRKRLQELDAASKVMEQEWREKAKKDLE-EWNQRQSEQ 130
Query: 80 EEKDKREKEEEEAAF 94
EK+K + AF
Sbjct: 131 VEKNKINNRIADKAF 145
Score = 37.8 bits (87), Expect = 0.004
Identities = 13/69 (18%), Positives = 28/69 (40%), Gaps = 5/69 (7%)
Query: 73 SKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAERKKKDIE 132
++ +E + K EE +LD + E + ++D +E W + E
Sbjct: 75 AQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKD-LEEWNQRQS----E 129
Query: 133 TIKKDIKSN 141
++K+ +N
Sbjct: 130 QVEKNKINN 138
Score = 36.3 bits (83), Expect = 0.014
Identities = 15/85 (17%), Positives = 34/85 (40%), Gaps = 14/85 (16%)
Query: 52 ERRKEKSRGSKRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELE 111
+R ++ S R+ R + +R +E D K E+ +E LE
Sbjct: 78 DRLTQEPE-SIRKWREEQRKRL------QELDAASKVMEQEW-------REKAKKDLEEW 123
Query: 112 MQKRRDRIERWRAERKKKDIETIKK 136
Q++ +++E+ + + D ++
Sbjct: 124 NQRQSEQVEKNKINNRIADKAFYQQ 148
Score = 35.1 bits (80), Expect = 0.033
Identities = 11/75 (14%), Positives = 32/75 (42%), Gaps = 16/75 (21%)
Query: 22 KESRRD--KDRDRRRRSRSHERRSERDRDRD--LERRKEKSRGSKRRSRSREAERSKDHS 77
+E +R ++ D + E R + +D + +R+ E+ E++K ++
Sbjct: 91 REEQRKRLQELDAASKVMEQEWREKAKKDLEEWNQRQSEQ------------VEKNKINN 138
Query: 78 KKEEKDKREKEEEEA 92
+ +K ++ + +
Sbjct: 139 RIADKAFYQQPDADI 153
Score = 29.4 bits (65), Expect = 2.6
Identities = 11/54 (20%), Positives = 21/54 (38%), Gaps = 8/54 (14%)
Query: 151 PMKKWNLEDDS-----DEDENDNKDENGKTAEEDIDPLDAFMQGVHEEMRKVNK 199
++KW E D + E + A++D L+ + Q E++ K
Sbjct: 86 SIRKWREEQRKRLQELDAASKVMEQEWREKAKKD---LEEWNQRQSEQVEKNKI 136
>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 = 45.1 bits (107), Expect = 7e-05
Identities = 45/260 (17%), Positives = 92/260 (35%), Gaps = 42/260 (16%)
Query: 348 KPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSP 407
+P IQ I+ A TG GKT F L + + + G ++ P
Sbjct: 56 EPRAIQKMWAKRILRKESFAATAPTGVGKTS-FGLAMSLFLALK-------GKRCYVIFP 107
Query: 408 TRELCMQIGKEAKKFTKSLGL----RVVCVYGGTGISEQISELKRGAE--IIVCTPGRMI 461
T L +Q + +K+ + G+ + +G E+ + ++ I++ T +
Sbjct: 108 TSLLVIQAAETIRKYAEKAGVGTENLIGYYHGRIPKREKENFMQNLRNFKIVITTTQFLS 167
Query: 462 DMLAANSGRVTNLRRVTYIVLDEAD----------RMFD-MGFEPQVMRIIDNVRPDRQT 510
L +I +D+ D ++ +GF +
Sbjct: 168 K-------HYRELGHFDFIFVDDVDAILKASKNVDKLLHLLGFHYDLKTKSWVGEARGCL 220
Query: 511 VMFSATFPR-QMEALARRILNKPIEIQVGGRSVVCKEVEQHVIVLDEEQKMLKLLELLGI 569
++ +AT + + L R++LN +G + + VE + + + +LE LG
Sbjct: 221 MVSTATAKKGKKAELFRQLLN----FDIGSSRITVRNVEDVAVNDESISTLSSILEKLG- 275
Query: 570 YQDQGSVIVFVDKQENADSL 589
I++ E A+ +
Sbjct: 276 ----TGGIIYARTGEEAEEI 291
>1i84_S Smooth muscle myosin heavy chain; muscle protein, myosin subfragment
2, heavy meromyosin, essential light chain, motor
protein; HET: MLY; 20.00A {Gallus gallus} SCOP: i.15.1.1
PDB: 3j04_A 3dtp_B 3dtp_A
Length = 1184
Score = 44.8 bits (106), Expect = 9e-05
Identities = 57/317 (17%), Positives = 121/317 (38%), Gaps = 31/317 (9%)
Query: 1 MVRSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRG 60
+++ R+ ++ +R KE ++ + + + + H + E + + E
Sbjct: 849 LLKVTRQEEEMQAKDEELQRTKERQQKAEAELKELEQKHTQLCEEKNLLQEKLQAETELY 908
Query: 61 S-KRRSRSREAERSKDHSKK-EEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDR 118
+ R R A + ++ + E + R +EEEE + E +++ +M ++
Sbjct: 909 AEAEEMRVRLAAKKQELEEILHEMEARIEEEEE-----RSQQLQAEKKKMQQQMLDLEEQ 963
Query: 119 IERWRAERKKKDIETIKKDIKSNLSSGLGGSAPMKKWNLEDDSDEDENDNKDENGKTAEE 178
+E A R+K +E + D K +KK + ED+N+ + K EE
Sbjct: 964 LEEEEAARQKLQLEKVTADGK------------IKKMEDDILIMEDQNNKLTKERKLLEE 1011
Query: 179 DIDPLDAFMQGVHEEMRKVNKPAVPTTADVKPADSGSKPAGVVIVTGVVKKSVEKAKGEL 238
+ L + E+ + + K K S+ + ++ +EK K +L
Sbjct: 1012 RVSDLTTNLAEEEEKAKNLTK------LKNKHESMISELEVRLKKEEKSRQELEKIKRKL 1065
Query: 239 MEENQDGLEYSSEEEQEDLTSTAANLASKQKKELSKVDHSTIEYLPFRKDFYVEVPEIAR 298
E+ D L E Q + A LA K+ +EL + + + ++ E+
Sbjct: 1066 EGESSD-LHEQIAELQAQIAELKAQLAKKE-EELQAALARLEDETSQKNNALKKIRELE- 1122
Query: 299 MTPEEVEKYKEELEGIR 315
+ +E+LE +
Sbjct: 1123 ---SHISDLQEDLESEK 1136
Score = 42.9 bits (101), Expect = 3e-04
Identities = 40/251 (15%), Positives = 89/251 (35%), Gaps = 35/251 (13%)
Query: 28 KDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREAERSKDHSKKEEKDKREK 87
+ + +R + + D +++ ++ + ++ ER + +
Sbjct: 962 EQLEEEEAARQKLQLEKVTADGKIKKMEDDILIMEDQNNKLTKERKLLEERVSDLTTNLA 1021
Query: 88 EEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAERKKKDIETIKKDIKSNLSSGLG 147
EEEE A + +KL + E+ ELE++ +++ R E+ K+ +E D+ ++
Sbjct: 1022 EEEEKAKNLTKLKNKHESMISELEVRLKKEEKSRQELEKIKRKLEGESSDLHEQIAELQA 1081
Query: 148 GSAPM----KKWNLEDDSDEDENDNKDENGKTAEEDIDPLDAFMQGVHEEMRKVNKPAVP 203
A + K E + +++ A + I L++ + + E++
Sbjct: 1082 QIAELKAQLAKKEEELQAALARLEDETSQKNNALKKIRELESHISDLQEDLESEKA---- 1137
Query: 204 TTADVKPADSGSKPAGVVIVTGVVKKSVEKAKGELMEENQDGLEYSSE-EEQEDLTSTAA 262
+ EK K +L EE + +E E+ D T+T
Sbjct: 1138 -----------------------ARNKAEKQKRDLSEELE---ALKTELEDTLDTTATQQ 1171
Query: 263 NLASKQKKELS 273
L K+
Sbjct: 1172 ELRGSDYKDDD 1182
Score = 40.2 bits (94), Expect = 0.002
Identities = 27/136 (19%), Positives = 59/136 (43%), Gaps = 13/136 (9%)
Query: 42 RSERDRDRDLERRKEKSRGSKRRSRSREAERSKDHSKKEEKDKREKEEE---------EA 92
+ E ++LE+ K K G + AE ++ + + + KEEE +
Sbjct: 1049 KKEEKSRQELEKIKRKLEGESSDLHEQIAELQAQIAELKAQLAK-KEEELQAALARLEDE 1107
Query: 93 AFDPSKLDKEV---EATRLELEMQKRRDRIERWRAERKKKDIETIKKDIKSNLSSGLGGS 149
+ K++ E+ +L+ ++ R +AE++K+D+ + +K+ L L +
Sbjct: 1108 TSQKNNALKKIRELESHISDLQEDLESEKAARNKAEKQKRDLSEELEALKTELEDTLDTT 1167
Query: 150 APMKKWNLEDDSDEDE 165
A ++ D D+D+
Sbjct: 1168 ATQQELRGSDYKDDDD 1183
>2dfs_A Myosin-5A; myosin-V, inhibited state, cryoelectron tomograp
contractIle protein-transport protein complex; 24.00A
{Gallus gallus}
Length = 1080
Score = 44.3 bits (105), Expect = 1e-04
Identities = 34/276 (12%), Positives = 86/276 (31%), Gaps = 36/276 (13%)
Query: 1 MVRSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRS---ERDRDRDLERRKEK 57
R R R + + + R + + E +S ++ L R
Sbjct: 825 FQRMYVVRKRYQCMRDATIALQALLRGYLVRNKYQMMLREHKSIIIQKHVRGWLARVHYH 884
Query: 58 SRGSKRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRD 117
+ + + + K+ K E + KL +E ++L+ +K +
Sbjct: 885 ----RTLKAIVYLQCCYRRMMAKRELKKLKIEARSVERYKKLHIGLENKIMQLQ-RKIDE 939
Query: 118 RIERWRA-ERKKKDIETIKKDIKSNLSSGLGGSAPMKKWNLEDDSDEDENDNKDENGKTA 176
+ + +++ K ++E L + E+E N +
Sbjct: 940 QNKEYKSLLEKMNNLEITYSTETEKL----------RSDVERLRMSEEEAKNATNRVLSL 989
Query: 177 EEDIDPLDAFMQGVHEEMRKVNKPAVPTTADVKPADSGSKPAGVVIVTGVVKKSVEKAKG 236
+E+I L + E + + + A + + + +++
Sbjct: 990 QEEIAKLRKELHQTQTEKKTIEEWADKYKHETE----------------QLVSELKEQNT 1033
Query: 237 ELMEENQDGLEYSSEEEQEDLTSTAANLASKQKKEL 272
L E ++ L ++ +++T T ++ K+L
Sbjct: 1034 LLKTEKEE-LNRRIHDQAKEITETMEKKLVEETKQL 1068
Score = 34.3 bits (79), Expect = 0.14
Identities = 14/98 (14%), Positives = 34/98 (34%), Gaps = 3/98 (3%)
Query: 22 KESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREAERSKDHSKKEE 81
+ R E + + +E +K + + S E++ ++E
Sbjct: 981 NATNRVLSLQEEIAKLRKELHQTQTEKKTIEEWADKYKHETEQLVSELKEQNTLLKTEKE 1040
Query: 82 KDKREKEEEEAAFDPS---KLDKEVEATRLELEMQKRR 116
+ R ++ + KL +E + L+L ++ R
Sbjct: 1041 ELNRRIHDQAKEITETMEKKLVEETKQLELDLNDERLR 1078
>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 = 42.9 bits (101), Expect = 2e-04
Identities = 35/262 (13%), Positives = 68/262 (25%), Gaps = 51/262 (19%)
Query: 351 PIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRE 410
P R I G+GKT + ++R L + +I++PTR
Sbjct: 7 PDYEVDEDIFRKKRLTIMDLHPGAGKTKRILPSIVREALLR-------RLRTLILAPTRV 59
Query: 411 LCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGR 470
+ ++ + + S+ + + L ++
Sbjct: 60 VAAEMEEALRGLP-----------IRYQTPAVKSDHTGREIVDLMCHATFTTRLLSS--- 105
Query: 471 VTNLRRVTYIVLDEA-----DRMFDMGFEPQVMRIIDNVRPDRQTVMFSATFPRQMEALA 525
T + IV+DEA + G+ + + + +AT P +
Sbjct: 106 -TRVPNYNLIVMDEAHFTDPCSVAARGYISTRVE-----MGEAAAIFMTATPPGSTDPFP 159
Query: 526 RRILNKPIEIQVGGRSVVCKEVEQHVIVLDEEQKMLKLLELLGIYQDQGSVIVFVDKQEN 585
+ N PIE I QG + FV +
Sbjct: 160 QS--NSPIEDIEREIPERSWNTGFDWIT-----------------DYQGKTVWFVPSIKA 200
Query: 586 ADSLLFHSMDPCLEFLPLPAGI 607
+ + + L
Sbjct: 201 GNDIANCLRKSGKRVIQLSRKT 222
>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 = 39.0 bits (91), Expect = 0.004
Identities = 30/186 (16%), Positives = 55/186 (29%), Gaps = 36/186 (19%)
Query: 306 KYKEELEGIRVKGKGCPRPIKTWAQCGV------SKKILDALKKQNYEKPTPIQAQAIPA 359
K+ R I+ + G+ + I Q +A+
Sbjct: 46 KFDSRSGTYRALAFRYRDIIEYFESNGIEFVDNAADPIPTPYFDAEIS-LRDYQEKALER 104
Query: 360 IMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEA 419
+ + + TGSGKT + + + +I+ PT L Q +
Sbjct: 105 WLVDKRGCIVLPTGSGKTHVAMA-AINEL----------STPTLIVVPTLALAEQWKERL 153
Query: 420 KKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTY 479
F + V + G +K + V T D N+ ++ N R
Sbjct: 154 GIFGEE----YVGEFSG--------RIKELKPLTVST----YDSAYVNAEKLGN--RFML 195
Query: 480 IVLDEA 485
++ DE
Sbjct: 196 LIFDEV 201
>2zuo_A MVP, major vault protein; repeat domains, protein-protein complex,
cytoplasm, ribonucleoprotein, structural protein; 3.50A
{Rattus norvegicus} PDB: 2zv4_N 2zv5_a 2qzv_A
Length = 861
Score = 38.6 bits (89), Expect = 0.005
Identities = 20/114 (17%), Positives = 45/114 (39%), Gaps = 6/114 (5%)
Query: 22 KESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSR---EAERSKDHSK 78
+ +R R + E + +R ++++RG R + EAE+++
Sbjct: 648 QRTRDALQRSVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELL 707
Query: 79 KEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAERKKKDIE 132
+ E E A ++ + EA R+E E + +++ +A + + E
Sbjct: 708 ELEAMSMAVESTGNA--KAEAESRAEAARIEGEGSVLQAKLKA-QALAIETEAE 758
Score = 38.6 bits (89), Expect = 0.006
Identities = 20/118 (16%), Positives = 38/118 (32%), Gaps = 1/118 (0%)
Query: 19 KRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREAERSKDHSK 78
+ ++ + R + ER+ D+ + RKE +K ++
Sbjct: 668 SQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEAE 727
Query: 79 KEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAERKKKDIETIKK 136
+ R + E K T ELE K+ +E R + ++E K
Sbjct: 728 SRAEAARIEGEGSVLQAKLKAQALAIETEAELERVKKVREMEL-IYARAQLELEVSKA 784
Score = 37.5 bits (86), Expect = 0.014
Identities = 17/137 (12%), Positives = 48/137 (35%)
Query: 1 MVRSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRG 60
V+ + + + + + + ++ R+ + +E+ R LE
Sbjct: 657 SVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMAV 716
Query: 61 SKRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIE 120
+ EAE + ++ E + + + +A + + E+E + EM+ R +
Sbjct: 717 ESTGNAKAEAESRAEAARIEGEGSVLQAKLKAQALAIETEAELERVKKVREMELIYARAQ 776
Query: 121 RWRAERKKKDIETIKKD 137
K + + ++
Sbjct: 777 LELEVSKAQQLANVEAK 793
Score = 35.2 bits (80), Expect = 0.070
Identities = 15/108 (13%), Positives = 32/108 (29%)
Query: 22 KESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREAERSKDHSKKEE 81
E+ E R+E R + ++ + EAE + +E
Sbjct: 709 LEAMSMAVESTGNAKAEAESRAEAARIEGEGSVLQAKLKAQALAIETEAELERVKKVREM 768
Query: 82 KDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAERKKK 129
+ + + E ++ VEA + + + R A +
Sbjct: 769 ELIYARAQLELEVSKAQQLANVEAKKFKEMTEALGPGTIRDLAVAGPE 816
Score = 34.8 bits (79), Expect = 0.098
Identities = 13/147 (8%), Positives = 44/147 (29%), Gaps = 1/147 (0%)
Query: 2 VRSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGS 61
+ + R +++R++ + +
Sbjct: 680 LEQEARGRLERQKILDQSEAEKARKELLELEAMSMAVESTGNAKAEAESRAEAARIEGEG 739
Query: 62 KRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIER 121
+A+ ++ E + ++ E E + ++L+ EV + ++ ++ +
Sbjct: 740 SVLQAKLKAQALAIETEAELERVKKVREMELIYARAQLELEVSKAQQLANVEAKKFKEMT 799
Query: 122 WRAERKK-KDIETIKKDIKSNLSSGLG 147
+D+ +++ L LG
Sbjct: 800 EALGPGTIRDLAVAGPEMQVKLLQSLG 826
Score = 33.2 bits (75), Expect = 0.26
Identities = 20/138 (14%), Positives = 49/138 (35%), Gaps = 6/138 (4%)
Query: 5 RRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRR 64
+ P+ D + ++R+ R ++ E + S+
Sbjct: 613 GPDGTLLPKARDQAVFPQNGLVVSSVDVQSVEPV-DQRTRDALQRSVQLAIEITTNSQEA 671
Query: 65 SRSREAERSKDHSKKE---EKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIER 121
+ EA+R + ++ +K + E E+A + L+ E + +E + + R
Sbjct: 672 AAKHEAQRLEQEARGRLERQKILDQSEAEKARKE--LLELEAMSMAVESTGNAKAEAESR 729
Query: 122 WRAERKKKDIETIKKDIK 139
A R + + ++ +K
Sbjct: 730 AEAARIEGEGSVLQAKLK 747
Score = 32.9 bits (74), Expect = 0.37
Identities = 15/114 (13%), Positives = 37/114 (32%), Gaps = 5/114 (4%)
Query: 19 KRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRK---EKSRGSKRRSRSREAERSKD 75
+ + + + ++ +R E++ LER+K + R+ S
Sbjct: 656 RSVQLAIEITTNSQEAAAKHEAQRLEQEARGRLERQKILDQSEAEKARKELLELEAMSMA 715
Query: 76 HSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAERKKK 129
+ EAA + + V +L+ + E R ++ ++
Sbjct: 716 VESTGNAKAEAESRAEAA--RIEGEGSVLQAKLKAQALAIETEAELERVKKVRE 767
>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 = 38.4 bits (89), Expect = 0.008
Identities = 34/249 (13%), Positives = 68/249 (27%), Gaps = 52/249 (20%)
Query: 347 EKPTPIQAQAIPAIMS-GRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIM 405
E+ + I R I G+GKT + ++R L + +I+
Sbjct: 169 ERIGEPDYEVDEDIFRKKRLTIMDLHPGAGKTKRILPSIVREALKR-------RLRTLIL 221
Query: 406 SPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLA 465
+PTR + ++ + + S+ + + L
Sbjct: 222 APTRVVAAEMEEALRGLP-----------IRYQTPAVKSDHTGREIVDLMCHATFTTRLL 270
Query: 466 ANSGRVTNLRRVTYIVLDE-----ADRMFDMGFEPQVMRIIDNVRPDRQTVMFSATFPRQ 520
++ T + IV+DE + G+ + + + +AT P
Sbjct: 271 SS----TRVPNYNLIVMDEAHFTDPCSVAARGYISTRVE-----MGEAAAIFMTATPPGS 321
Query: 521 MEALARRILNKPIEIQVGGRSVVCKEVEQHVIVLDEEQKMLKLLELLGIYQDQGSVIVFV 580
+ + N PIE I QG + FV
Sbjct: 322 TDPFPQS--NSPIEDIEREIPERSWNTGFDWIT-----------------DYQGKTVWFV 362
Query: 581 DKQENADSL 589
+ + +
Sbjct: 363 PSIKAGNDI 371
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 38.1 bits (89), Expect = 0.009
Identities = 13/77 (16%), Positives = 33/77 (42%), Gaps = 7/77 (9%)
Query: 359 AIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKE 418
++ + + TGSGKT+ + L++ ++ + + T Q+ KE
Sbjct: 18 SLQKSYGVALESPTGSGKTIMALKSALQYSSERK-------LKVLYLVRTNSQEEQVIKE 70
Query: 419 AKKFTKSLGLRVVCVYG 435
+ + ++ +R + + G
Sbjct: 71 LRSLSSTMKIRAIPMQG 87
>2qag_C Septin-7; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 418
Score = 37.5 bits (86), Expect = 0.013
Identities = 20/120 (16%), Positives = 54/120 (45%), Gaps = 3/120 (2%)
Query: 3 RSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSK 62
+ +++ K P ++ R+ + + E E+ + ++ + +K + S+
Sbjct: 298 VTYNGVDNNKNKGQLTKSPLAQMEEERREHVAKMKKMEMEMEQVFEMKVKEKVQKLKDSE 357
Query: 63 RRSRSREAERSKDH---SKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRI 119
+ R + K+ K+ E+ +R+ E+E+A ++ + E + + LE K++ +I
Sbjct: 358 AELQRRHEQMKKNLEAQHKELEEKRRQFEDEKANWEAQQRILEQQNSSRTLEKNKKKGKI 417
Score = 32.5 bits (73), Expect = 0.45
Identities = 22/114 (19%), Positives = 45/114 (39%), Gaps = 2/114 (1%)
Query: 25 RRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREAERSK--DHSKKEEK 82
R K + + + L + +E+ R + + E E + + KE+
Sbjct: 291 RSRKLAAVTYNGVDNNKNKGQLTKSPLAQMEEERREHVAKMKKMEMEMEQVFEMKVKEKV 350
Query: 83 DKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAERKKKDIETIKK 136
K + E E ++ K +EA ELE ++R+ E+ E +++ +E
Sbjct: 351 QKLKDSEAELQRRHEQMKKNLEAQHKELEEKRRQFEDEKANWEAQQRILEQQNS 404
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 35.4 bits (82), Expect = 0.033
Identities = 31/220 (14%), Positives = 65/220 (29%), Gaps = 39/220 (17%)
Query: 272 LSKVDHSTIEYLPFRKDFYVEVPEIARMTPEEVEKYKEELEGIRVKGKGCPRPIKTWAQ- 330
+ + H + + + + V A + K+ R I + +
Sbjct: 15 VPRGSHMQMIAEIYYERGTIVVKGDAHV---PHAKFDSRSGTYRALAFRYRD-IIEYFES 70
Query: 331 --CGVSKKILDALKKQNYEKPTPI---QAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLL 385
D + ++ + Q +A+ + + + TGSGKT + +
Sbjct: 71 NGIEFVDNAADPIPTPYFDAEISLRDYQEKALERWLVDKRGCIVLPTGSGKTH-VAMAAI 129
Query: 386 RHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISE 445
+ +I+ PT L Q + F + V + G
Sbjct: 130 NEL----------STPTLIVVPTLALAEQWKERLGIFGEE----YVGEFSG--------R 167
Query: 446 LKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEA 485
+K + V T D N+ ++ R ++ DE
Sbjct: 168 IKELKPLTVST----YDSAYVNAEKL--GNRFMLLIFDEV 201
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 35.6 bits (82), Expect = 0.044
Identities = 21/161 (13%), Positives = 45/161 (27%), Gaps = 32/161 (19%)
Query: 363 GRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKEAKKF 422
+ G+GKT + L+R +I++PTR + ++ +
Sbjct: 2 RELTVLDLHPGAGKTRRVLPQLVRE-------AVKKRLRTVILAPTRVVASEMYEA---- 50
Query: 423 TKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVL 482
L + Y + + + + L + ++
Sbjct: 51 ---LRGEPI-RYMTPAVQSERT---GNEIVDFMCHSTFTMKLLQG----VRVPNYNLYIM 99
Query: 483 DEA-----DRMFDMGFEPQVMRIIDNVRPDRQTVMFSATFP 518
DEA + G+ + D + +AT P
Sbjct: 100 DEAHFLDPASVAARGYIETRVS-----MGDAGAIFMTATPP 135
>1rif_A DAR protein, DNA helicase UVSW; bacteriophage, RECG, SF2, DNA
binding protein; HET: DNA; 2.00A {Enterobacteria phage
T4} SCOP: c.37.1.23
Length = 282
Score = 35.0 bits (79), Expect = 0.050
Identities = 27/178 (15%), Positives = 55/178 (30%), Gaps = 20/178 (11%)
Query: 342 KKQNYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPM 401
+P Q A+ + R I T +G+++ L L R+ L+ +
Sbjct: 107 SGNKRIEPHWYQKDAVFEGLVNRRRILNLPTSAGRSLIQAL-LARYYLENYEGK------ 159
Query: 402 AIIMSPTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMI 461
+I+ PT L Q+ + + + + GG + + K A ++V T ++
Sbjct: 160 ILIIVPTTALTTQMADDFVDYRLFSHAMIKKIGGGA---SKDDKYKNDAPVVVGTWQTVV 216
Query: 462 DMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQTVMFSATFPR 519
+ ++ DE II + S +
Sbjct: 217 KQ------PKEWFSQFGMMMNDECHLATGKSIS----SIISGLNNCMFKFGLSGSLRD 264
>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 = 35.0 bits (81), Expect = 0.080
Identities = 18/55 (32%), Positives = 30/55 (54%), Gaps = 2/55 (3%)
Query: 334 SKKILDALKKQ-NYEKPTPIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLP-LLR 386
S K+ D L+ EK P+Q + I M+G+++ + TG GK++ + LP L
Sbjct: 29 SGKVKDILQNVFKLEKFRPLQLETINVTMAGKEVFLVMPTGGGKSLCYQLPALCS 83
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae} PDB:
4a4k_A
Length = 997
Score = 35.2 bits (80), Expect = 0.082
Identities = 36/228 (15%), Positives = 77/228 (33%), Gaps = 31/228 (13%)
Query: 351 PIQAQAIPAIMSGRDLIGIAKTGSGKTV----AFVLPLLRHILDQPPLEETDGPMAIIMS 406
Q +A+ + G + A T +GKTV A + I S
Sbjct: 42 TFQKEAVYHLEQGDSVFVAAHTSAGKTVVAEYAIAMAHRN------------MTKTIYTS 89
Query: 407 PTRELCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAA 466
P + L Q ++ F ++ + G+ ++ A ++ T + ML
Sbjct: 90 PIKALSNQKFRD---FKETFDDVNI------GLITGDVQINPDANCLIMTTEILRSMLYR 140
Query: 467 NSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQTVMFSATFPRQMEALAR 526
+ +R V +++ DE + D +I + + ++ SAT P E
Sbjct: 141 GA---DLIRDVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLSATVPNTYEFANW 197
Query: 527 RILNKPIEIQVGGRSVVCKEVEQHVIVLDEEQKMLKLLELLGIYQDQG 574
K I V +E ++ +++++ ++ + +
Sbjct: 198 IGRTKQKNIYVISTPKRPVPLEINIWA---KKELIPVINQNSEFLEAN 242
>4dyl_A Tyrosine-protein kinase FES/FPS; structural genomics, structural
genomics consortium, BCR, CR associated substrate,
transferase; 2.18A {Homo sapiens}
Length = 406
Score = 34.8 bits (79), Expect = 0.086
Identities = 15/109 (13%), Positives = 42/109 (38%), Gaps = 3/109 (2%)
Query: 52 ERRKEKSRGSKRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELE 111
E E + + A ++ +++E + ++E + + + V+
Sbjct: 301 ELTVESVQHTLTSVTDELAVATEMVFRRQEMVTQLQQELRNEEENTHPRERVQLLGKRQV 360
Query: 112 MQKRRDRIERWRAERKKKDIETIKKDIKSNLSSGLGGSAPMKKWNLEDD 160
+Q+ ++ + K ++ ++ +++ L LG P L+DD
Sbjct: 361 LQEALQGLQVALCSQAK--LQAQQELLQTKLEH-LGPGEPPPVLLLQDD 406
>3uwp_A Histone-lysine N-methyltransferase, H3 lysine-79; epigenetics,
tubercidin, structu genomics, structural genomics
consortium, SGC; HET: 5ID; 2.05A {Homo sapiens} PDB:
4eqz_A* 3sx0_A* 4er0_A* 4er7_A* 1nw3_A* 4er6_A* 4er5_A*
3qow_A* 3qox_A* 4er3_A* 3sr4_A*
Length = 438
Score = 34.8 bits (79), Expect = 0.088
Identities = 17/106 (16%), Positives = 36/106 (33%), Gaps = 3/106 (2%)
Query: 28 KDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREAERSKDHSKKEEKDKREK 87
DR S + + +++ RR+++ + + K +
Sbjct: 335 IDRTILENYFSSLKNPKLREEQEAARRRQQRESKSNAATPTKGPEGKVAGPADAPMDSGA 394
Query: 88 EEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAERKKKDIET 133
EEE+A K +A + +L ++ R R + K + T
Sbjct: 395 EEEKAGAATVKKPSPSKARKKKL---NKKGRKMAGRKRGRPKKMNT 437
Score = 29.4 bits (65), Expect = 4.0
Identities = 12/77 (15%), Positives = 32/77 (41%), Gaps = 7/77 (9%)
Query: 3 RSRRKRSRSRSPSPSH------KRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKE 56
R +++ S+S + +P+ P ++ D + + + ++ + R ++ +
Sbjct: 361 RRQQRESKSNAATPTKGPEGKVAGPADAPMDSGAEEEKAGAATVKKPSPSKARK-KKLNK 419
Query: 57 KSRGSKRRSRSREAERS 73
K R R R R + +
Sbjct: 420 KGRKMAGRKRGRPKKMN 436
>2qag_B Septin-6, protein NEDD5; cell cycle, cell division, GTP-binding,
nucleotide-binding, phosphorylation, acetylation,
alternative splicing, coiled coil; HET: GDP GTP; 4.00A
{Homo sapiens}
Length = 427
Score = 34.3 bits (78), Expect = 0.12
Identities = 20/113 (17%), Positives = 44/113 (38%), Gaps = 9/113 (7%)
Query: 23 ESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREAERSKDHSKKEEK 82
E KD D + S + E R+ L ++K ++ R E+ + + E++
Sbjct: 304 EEMGFKDTDPDSKPFSLQETYEAKRNEFLGELQKKEEEMRQMFVQRVKEKEAELKEAEKE 363
Query: 83 DKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAERKKKDIETIK 135
+ + L K + + +LE +K+ E +++K E ++
Sbjct: 364 LHEKFDR---------LKKLHQDEKKKLEDKKKSLDDEVNAFKQRKTAAELLQ 407
Score = 29.3 bits (65), Expect = 3.6
Identities = 28/110 (25%), Positives = 50/110 (45%), Gaps = 13/110 (11%)
Query: 35 RSRSHERRSERDRDRDLERRKEKSRGSKRRSRSR----EAERSKDHSK--KEEKDKREKE 88
R ++H R E R LE K + S EA+R++ + K+E++ R+
Sbjct: 287 REQTHTRHYELYRRCKLEEMGFKDTDPDSKPFSLQETYEAKRNEFLGELQKKEEEMRQM- 345
Query: 89 EEEAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAERKKKDIETIKKDI 138
F +KE E E E+ ++ DR+++ + +KK +E KK +
Sbjct: 346 -----FVQRVKEKEAELKEAEKELHEKFDRLKK-LHQDEKKKLEDKKKSL 389
>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 = 32.6 bits (73), Expect = 0.15
Identities = 10/36 (27%), Positives = 15/36 (41%), Gaps = 7/36 (19%)
Query: 268 QKKELSKVDHSTIEYLPFRKDFYVEVPEIA-RMTPE 302
+K+ L K+ S Y D P +A + T E
Sbjct: 18 EKQALKKLQASLKLYAD---D---SAPALAIKATME 47
>1nrz_A PTS system, sorbose-specific IIB component; beta sheet core,
flanking helices, right handed beta-alpha-B crossover,
transferase; 1.75A {Klebsiella pneumoniae} SCOP:
c.38.1.1
Length = 164
Score = 32.4 bits (74), Expect = 0.19
Identities = 13/73 (17%), Positives = 34/73 (46%), Gaps = 3/73 (4%)
Query: 499 RIIDNVRPDRQTVMFSATFPRQMEALARRILNKPIEIQVGGRSVV--CKEVEQHVIVLDE 556
+ N + +TV + T P + + R+ + + +GG + K++ + V + +
Sbjct: 67 AVYHNPQYQDETVFYLFTNPHDVLTMVRQGVQIA-TLNIGGMAWRPGKKQLTKAVSLDPQ 125
Query: 557 EQKMLKLLELLGI 569
+ + + L+ LG+
Sbjct: 126 DIQAFRELDKLGV 138
>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 = 33.3 bits (76), Expect = 0.25
Identities = 28/233 (12%), Positives = 58/233 (24%), Gaps = 45/233 (19%)
Query: 359 AIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKE 418
+ + + GSGKT + +++ + Q +++PTR + ++ +
Sbjct: 17 MLRKRQMTVLDLHPGSGKTRKILPQIIKDAIQQ-------RLRTAVLAPTRVVAAEMAEA 69
Query: 419 --AKKFTKSLGLRVVCVYGGTGISEQISELKRGAEIIVCTPGRMIDMLAANSGRVTNLRR 476
G + V + L + +
Sbjct: 70 LRGLPVRYQTSAVQREHQGNEIVD-------------VMCHATLTHRLMSP----NRVPN 112
Query: 477 VTYIVLDEADRMFDMGFEPQVMRIIDNVRPDRQTVMFSATFPRQMEALARRILNKPIEIQ 536
V+DEA + + + +AT P + N PI
Sbjct: 113 YNLFVMDEAHFTDPASIAARGYIATKVELGEAAAIFMTATPPGTTDPFPDS--NAPIHDL 170
Query: 537 VGGRSVVCKEVEQHVIVLDEEQKMLKLLELLGIYQDQGSVIVFVDKQENADSL 589
DE I + G + FV + + +
Sbjct: 171 Q-----------------DEIPDRAWSSGYEWITEYAGKTVWFVASVKMGNEI 206
>1p90_A NAFY protein, hypothetical protein; ribonuclease H motif, protein
binding; 1.80A {Azotobacter vinelandii} SCOP: c.55.5.2
Length = 145
Score = 31.9 bits (72), Expect = 0.25
Identities = 9/38 (23%), Positives = 14/38 (36%)
Query: 411 LCMQIGKEAKKFTKSLGLRVVCVYGGTGISEQISELKR 448
+ IG A G+ + G E I+EL+
Sbjct: 72 YVVSIGGPAAAKVVRAGIHPLKKPKGCAAQEAIAELQT 109
>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 = 32.9 bits (76), Expect = 0.31
Identities = 17/58 (29%), Positives = 31/58 (53%), Gaps = 13/58 (22%)
Query: 351 PIQAQAIPAIMSGRDLIGIAKTGSGKTVAFVLP-LLRHILDQPPLEETDGPMAIIMSP 407
P Q + I ++SGRD + + TG GK++ + +P LL +G + +++SP
Sbjct: 28 PGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALLL-----------NG-LTVVVSP 73
>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 = 31.8 bits (73), Expect = 0.34
Identities = 11/43 (25%), Positives = 24/43 (55%), Gaps = 1/43 (2%)
Query: 547 VEQHVIVLDEEQKMLKLLELLGIYQDQGSVIVFVDKQENADSL 589
++Q+ + L + +K KL +LL + + V++FV + +L
Sbjct: 6 LQQYYVKLKDNEKNRKLFDLLDVLEF-NQVVIFVKSVQRCIAL 47
>1ble_A Fructose permease; phosphotransferase, sugar transport; 2.90A
{Bacillus subtilis} SCOP: c.38.1.1
Length = 163
Score = 31.6 bits (72), Expect = 0.36
Identities = 13/76 (17%), Positives = 31/76 (40%), Gaps = 3/76 (3%)
Query: 496 QVMRIIDNVRPDRQTVMFSATFPRQMEALARRILNKPIEIQVGGRSVV--CKEVEQHVIV 553
++ + + R + T M P + +L + + VGG +++ + V V
Sbjct: 65 KMAKAFHSPRYEGVTAMLLFENPSDIVSLIEAGVPIK-TVNVGGMRFENHRRQITKSVSV 123
Query: 554 LDEEQKMLKLLELLGI 569
+++ K + L G+
Sbjct: 124 TEQDIKAFETLSDKGV 139
>2xzm_7 Plectin/S10 domain containing protein; ribosome, translation; 3.93A
{Tetrahymena thermophila} PDB: 2xzn_7
Length = 162
Score = 31.2 bits (70), Expect = 0.49
Identities = 12/58 (20%), Positives = 21/58 (36%)
Query: 17 SHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREAERSK 74
+ K + K+ D R R + R +RD ++ RG++R E
Sbjct: 91 TFKASNVNFISKEEDEEERPRRQFNKGGRTGERDGRNKRGVGRGTRREGEEAAKEEGA 148
>1lxi_A Bone morphogenetic protein 7; cystine-knot growth factor,
hormone-growth factor complex; HET: NAG; 2.00A {Homo
sapiens} SCOP: g.17.1.2 PDB: 1lx5_A* 1bmp_A* 1m4u_L*
2qcw_A 2r53_A
Length = 139
Score = 30.4 bits (68), Expect = 0.73
Identities = 5/40 (12%), Positives = 18/40 (45%)
Query: 4 SRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRS 43
++RS++RS +P ++ + + ++ ++
Sbjct: 3 GSKQRSQNRSKTPKNQEALRMANVAENSSSDQRQACKKHE 42
Score = 27.7 bits (61), Expect = 5.6
Identities = 6/38 (15%), Positives = 13/38 (34%)
Query: 3 RSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHE 40
+ R + + R + D+R+ + HE
Sbjct: 5 KQRSQNRSKTPKNQEALRMANVAENSSSDQRQACKKHE 42
Score = 27.7 bits (61), Expect = 5.8
Identities = 6/42 (14%), Positives = 14/42 (33%)
Query: 24 SRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRS 65
S K R + R + + R + ++ + K+
Sbjct: 1 STGSKQRSQNRSKTPKNQEALRMANVAENSSSDQRQACKKHE 42
>1dkg_A Nucleotide exchange factor GRPE; HSP70, GRPE, nucleotide exchange
factor, coiled-coil, complex (HSP24/HSP70); 2.80A
{Escherichia coli} SCOP: b.73.1.1 h.1.9.1
Length = 197
Score = 30.8 bits (70), Expect = 0.78
Identities = 19/74 (25%), Positives = 26/74 (35%), Gaps = 6/74 (8%)
Query: 69 EAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAE--- 125
+A + EE + E E DP +L + RD I R +AE
Sbjct: 12 QAPEEIIMDQHEEIEAVEPEASAEQVDPRDEKVANLEAQLAEAQTRERDGILRVKAEMEN 71
Query: 126 ---RKKKDIETIKK 136
R + DIE K
Sbjct: 72 LRRRTELDIEKAHK 85
>2pyq_A Uncharacterized protein; structural genomics, joint center for
structural genomics, J protein structure initiative,
PSI-2, unknown function; HET: MSE; 1.50A {Jannaschia SP}
SCOP: a.279.1.1
Length = 114
Score = 29.9 bits (67), Expect = 0.97
Identities = 18/91 (19%), Positives = 34/91 (37%), Gaps = 3/91 (3%)
Query: 112 MQKRRDRIERWRAERKKKDIETIKKDIKSNLSSGLGGSAPMKKWNLEDDSDEDENDNKDE 171
M KR D I ++ + + K + ++ G G + + + SD E + +
Sbjct: 2 MGKRDDLIAQYADDLRNKCGMEPDMALLEKVTKGCGPAIYNRDASTVAGSDTAELETIKK 61
Query: 172 N---GKTAEEDIDPLDAFMQGVHEEMRKVNK 199
N K D + L +Q V E + +
Sbjct: 62 NFLMKKLGLADSESLMGGIQSVIETYGRSER 92
>1qvr_A CLPB protein; coiled coil, AAA ATPase, chaperone; HET: ANP; 3.00A
{Thermus thermophilus} SCOP: a.174.1.1 c.37.1.20
c.37.1.20
Length = 854
Score = 31.4 bits (72), Expect = 1.1
Identities = 15/63 (23%), Positives = 30/63 (47%)
Query: 54 RKEKSRGSKRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQ 113
+KEK S+ R ++ EAE +K + + + E E + ++ R E+E+
Sbjct: 421 KKEKDPDSQERLKAIEAEIAKLTEEIAKLRAEWEREREILRKLREAQHRLDEVRREIELA 480
Query: 114 KRR 116
+R+
Sbjct: 481 ERQ 483
>2wt7_B Transcription factor MAFB; transcription, transcription regulation,
nucleus, activator, repressor, DNA-binding,
phosphoprotein, differentiation; 2.30A {Mus musculus}
PDB: 2wty_A* 1k1v_A
Length = 90
Score = 29.2 bits (65), Expect = 1.1
Identities = 14/78 (17%), Positives = 28/78 (35%), Gaps = 9/78 (11%)
Query: 39 HERRSERDRDRDLERRKEKSRGSKRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSK 98
+ +RR K+RG + R + + ++K E E+ + +
Sbjct: 16 RGFTKDEVIRLKQKRRTLKNRGYAQSCRYK---------RVQQKHHLENEKTQLIQQVEQ 66
Query: 99 LDKEVEATRLELEMQKRR 116
L +EV E + K +
Sbjct: 67 LKQEVSRLARERDAYKVK 84
>4ani_A Protein GRPE; chaperone cycle, complementary assay; 4.09A
{Geobacillus kaustophilus}
Length = 213
Score = 30.5 bits (69), Expect = 1.4
Identities = 15/113 (13%), Positives = 41/113 (36%), Gaps = 6/113 (5%)
Query: 40 ERRSERDRDRDLERRKEKSRGSKRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKL 99
+ + + + + + + E E ++ ++ + E+A
Sbjct: 3 QGEKQVMEQATYDEPEREQPIEEEAAPQPEEESGGVPLEEAGGEEAAEPAEKAPTAEELA 62
Query: 100 DKEVEATRLELEMQKRRDRIERWRAE------RKKKDIETIKKDIKSNLSSGL 146
+ + LE ++ + R R A+ R ++++E +K +L+S L
Sbjct: 63 AAKAQIAELEAKLSEMEHRYLRLYADFENFRRRTRQEMEAAEKYRAQSLASDL 115
>3pdy_A Plectin; cytoskeleton, plakin, intermediate filament, spectrin
repeat structural protein, crosslinking; 2.22A {Homo
sapiens}
Length = 210
Score = 29.9 bits (67), Expect = 1.7
Identities = 22/107 (20%), Positives = 40/107 (37%), Gaps = 7/107 (6%)
Query: 22 KESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEK--SRGSKRRSRSREAERSKDHSKK 79
++ ++ R + R + RD L+ + K + R + K
Sbjct: 57 FRAKIERARSDEGQLSPATRGAYRDCLGRLDLQYAKLLNSSKARLRSLESLHSFVAAATK 116
Query: 80 EEKDKREKEEEEAAFDPSKLDKEVEATR-----LELEMQKRRDRIER 121
E EKEEEE FD S + + A + L E++ + +I+
Sbjct: 117 ELMWLNEKEEEEVGFDWSDRNTNMTAKKESYSALMRELELKEKKIKE 163
>1vsq_C Mannose-specific phosphotransferase enzyme IIB component; sugar
transport, complex (transferase/phosphocarrier,
cytoplasm, membrane; HET: NEP; NMR {Escherichia coli}
PDB: 2jzn_C 2jzo_D 2jzh_A
Length = 165
Score = 29.7 bits (67), Expect = 1.7
Identities = 18/76 (23%), Positives = 34/76 (44%), Gaps = 3/76 (3%)
Query: 496 QVMRIIDNVRPDRQTVMFSATFPRQMEALARRILNKPIEIQVGGRSVV--CKEVEQHVIV 553
+++R+ +N + + VM T P +E L + + VGG + +V V V
Sbjct: 67 KMIRVYNNPKYAGERVMLLFTNPTDVERLVEGGVKIT-SVNVGGMAFRQGKTQVNNAVSV 125
Query: 554 LDEEQKMLKLLELLGI 569
+++ + K L GI
Sbjct: 126 DEKDIEAFKKLNARGI 141
>3pxg_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 3.65A {Bacillus subtilis}
Length = 468
Score = 30.6 bits (70), Expect = 1.8
Identities = 13/76 (17%), Positives = 35/76 (46%), Gaps = 1/76 (1%)
Query: 64 RSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRI-ERW 122
+ R R + + E+K ++E++AA + +K E ++++ + + W
Sbjct: 384 KVRLRSFTTPPNLKELEQKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLREQVEDTKKSW 443
Query: 123 RAERKKKDIETIKKDI 138
+ ++ +++ E DI
Sbjct: 444 KEKQGQENSEVTVDDI 459
>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 = 30.3 bits (68), Expect = 1.9
Identities = 16/73 (21%), Positives = 27/73 (36%), Gaps = 10/73 (13%)
Query: 341 LKKQNYEKPTPIQAQAIPAIMSGRD--LIGIAKTGSGKTVAFVLPLLRHILDQPPLEETD 398
LK+ EK + +P L+ TG+GK+V L L +
Sbjct: 29 LKRMTREKAKQVTVAGVPMPRDAEPRHLLVNGATGTGKSVLLR-ELAYTGLLRG------ 81
Query: 399 GPMAIIMSPTREL 411
M +I+ P ++
Sbjct: 82 DRM-VIVDPNGDM 93
>3r6n_A Desmoplakin; spectrin repeat, SH3 domain, cell adhesion, desmosome;
2.95A {Homo sapiens}
Length = 450
Score = 30.4 bits (68), Expect = 1.9
Identities = 13/101 (12%), Positives = 35/101 (34%), Gaps = 5/101 (4%)
Query: 30 RDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREAERSKDHSKKEEKDKREKEE 89
R + + ++ R + E +R R+ + + +E + EE
Sbjct: 55 RWQLDKIKADLREKSAIYQLEEEYENLLKASFERMDHLRQLQNIIQATSREIMWINDCEE 114
Query: 90 EEAAFDPSKLDKEVEATR-----LELEMQKRRDRIERWRAE 125
EE +D S + + + +++ + + + + E
Sbjct: 115 EELLYDWSDKNTNIAQKQEAFSIRMSQLEVKEKELNKLKQE 155
>3u5c_H RP30, RP40, 40S ribosomal protein S7-A; translation, ribosome,
ribosomal, ribosomal R ribosomal protein, eukaryotic
ribosome, RNA-protein C; 3.00A {Saccharomyces
cerevisiae} PDB: 3u5g_H
Length = 190
Score = 30.1 bits (67), Expect = 2.0
Identities = 7/108 (6%), Positives = 21/108 (19%), Gaps = 5/108 (4%)
Query: 3 RSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSK 62
+ ++ K +E + + + + R+ + +
Sbjct: 28 ENSSPELKAELRPLQFKSIREIDVAGGKKALAIFVPVPSLAGFHKVQTKLTRELEKKFQD 87
Query: 63 RRSRSREAERSKDHSKKEEK-----DKREKEEEEAAFDPSKLDKEVEA 105
R R + + + L E
Sbjct: 88 RHVIFLAERRILPKPSRTSRQVQKRPRSRTLTAVHDKILEDLVFPTEI 135
Score = 28.9 bits (64), Expect = 4.8
Identities = 7/110 (6%), Positives = 21/110 (19%), Gaps = 5/110 (4%)
Query: 7 KRSRSRSPSPSHKRPKESRRDKDRDRRR-RSRSHERRSERDRDRDLERRKEKSRGSKRRS 65
+ + ++ R + +D R +
Sbjct: 45 SIREIDVAGGK--KALAIFVPVPSLAGFHKVQTKLTRELEKKFQDRHVIFLAERRILPKP 102
Query: 66 RSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKR 115
SR + + + + + E L + +
Sbjct: 103 -SRTSRQVQKRPRSRTLTAVHDKILEDL-VFPTEIVGKRVRYLVGGNKIQ 150
>3beg_B Splicing factor, arginine/serine-rich 1; kinase, SR protein kinase,
SR protein, PRE-mRNA splicing, at binding, chromosome
partition; HET: SEP ANP; 2.90A {Homo sapiens} SCOP:
d.58.7.1 PDB: 2o3d_A 1wg4_A
Length = 115
Score = 28.6 bits (64), Expect = 2.2
Identities = 12/38 (31%), Positives = 14/38 (36%)
Query: 10 RSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDR 47
RS ++ R K R RSRS R R R
Sbjct: 77 RSHEGETAYIRVKVDGPRSPSYGRSRSRSRSRSRSRSR 114
>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer
aging, hydrolase; HET: FLC; 2.00A {Sulfolobus
acidocaldarius} PDB: 3crw_1*
Length = 551
Score = 30.0 bits (67), Expect = 2.8
Identities = 14/77 (18%), Positives = 26/77 (33%), Gaps = 11/77 (14%)
Query: 359 AIMSGRDLIGIAKTGSGKTVAFVLPLLRHILDQPPLEETDGPMAIIMSPTRELCMQIGKE 418
+ + + A TGSGKT+ +L L P + + T I ++
Sbjct: 18 GLRNNFLVALNAPTGSGKTLFSLLVSLEV-----------KPKVLFVVRTHNEFYPIYRD 66
Query: 419 AKKFTKSLGLRVVCVYG 435
K + + + G
Sbjct: 67 LTKIREKRNITFSFLVG 83
>4a17_S RPL26, 60S ribosomal protein L21; eukaryotic ribosome, ribosome,
eukaryotic initiation factor 60S, translation, large
ribosomal subunit; 3.52A {Tetrahymena thermophila} PDB:
4a1a_S 4a1c_S 4a1e_S
Length = 135
Score = 28.5 bits (63), Expect = 3.2
Identities = 29/130 (22%), Positives = 51/130 (39%), Gaps = 7/130 (5%)
Query: 1 MVRSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRG 60
+ +RRK+ ++ SPSH R +D R + +D + + R K K
Sbjct: 7 VSSARRKQRKAHFASPSHLRQTLMSAHLSKDLRSKYNVRSMPVRKDDEVLIVRGKFKGNK 66
Query: 61 SKRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIE 120
K R+ H +K K+K + S+ + T+L+L+ + R+ +
Sbjct: 67 GKVTQVYRKKWAI--HVEKISKNKLNGAPYQIPLSASQ----LVLTKLKLD-KSRQSLLT 119
Query: 121 RWRAERKKKD 130
R A K K
Sbjct: 120 RKAASLKTKG 129
>3na7_A HP0958; flagellar biogenesis, flagellum export, C4 Zn-ribbon,
coiled post-transcriptional, gene regulation, chaperone;
HET: EPE; 2.20A {Helicobacter pylori}
Length = 256
Score = 29.3 bits (65), Expect = 3.2
Identities = 15/113 (13%), Positives = 35/113 (30%), Gaps = 3/113 (2%)
Query: 31 DRRRRSRSHERRSERDRDRDLERRKE--KSRGSKRRSRSREAERSKDHSKKEEKDKREKE 88
D+ S R +R KE + +++ +D K
Sbjct: 17 DKEIDSLEPLIREKRKDLDKALNDKEAKNKAILNLEEEKLALKLQVSKNEQTLQDTNAKI 76
Query: 89 EE-EAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAERKKKDIETIKKDIKS 140
+ K ++E+ + +E ++ K R E + +I+ + +
Sbjct: 77 ASIQKKMSEIKSERELRSLNIEEDIAKERSNQANREIENLQNEIKRKSEKQED 129
>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 = 28.7 bits (65), Expect = 3.2
Identities = 13/45 (28%), Positives = 19/45 (42%)
Query: 545 KEVEQHVIVLDEEQKMLKLLELLGIYQDQGSVIVFVDKQENADSL 589
K++ Q D+ + LL L + IVFV K+E L
Sbjct: 2 KKIHQWYYRADDLEHKTALLVHLLKQPEATRSIVFVRKRERVHEL 46
>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 = 29.0 bits (65), Expect = 3.2
Identities = 13/76 (17%), Positives = 31/76 (40%), Gaps = 4/76 (5%)
Query: 496 QVMRIIDNVRPDRQTVMFSATFPRQMEALARRILNKPIEIQVGGRSVV--CKEVEQHVIV 553
+ + +I P Q + P+ + L ++ ++ VG K++ V V
Sbjct: 70 KTINVIGKAAPH-QKIFLICRTPQTVRKLVEGGIDLK-DVNVGNMHFSEGKKQISSKVYV 127
Query: 554 LDEEQKMLKLLELLGI 569
D++ L+ ++ G+
Sbjct: 128 DDQDLTDLRFIKQRGV 143
>3m05_A Uncharacterized protein PEPE_1480; structural genomics, PSI-2,
protein structure initiative, midwest center for
structural genomics; 3.15A {Pediococcus pentosaceus}
Length = 114
Score = 28.2 bits (63), Expect = 3.5
Identities = 24/101 (23%), Positives = 40/101 (39%), Gaps = 18/101 (17%)
Query: 458 GRMIDMLAANSGRVTNL---------RRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPDR 508
+ D + R T L T+++ E +R+ P+V+ II R
Sbjct: 19 NYLSDQFIDQNVRATKLSTTGGFLQSGNTTFMIGIEEERV------PEVLEIIKKASHTR 72
Query: 509 QTVMFSATFPRQMEALARRILNKPIEIQVGGRSVVCKEVEQ 549
+ M T M+ PI++QVGG +V+ V+Q
Sbjct: 73 EEFM---TPSVNMDVNMEGTTAYPIKVQVGGATVLVLPVDQ 110
>3err_A Fusion protein of microtubule binding domain from mouse cytoplasmic
dynein and seryl-tRNA...; coiled coil, ligase; HET: AMP;
2.27A {Mus musculus}
Length = 536
Score = 29.6 bits (67), Expect = 3.6
Identities = 12/93 (12%), Positives = 26/93 (27%), Gaps = 1/93 (1%)
Query: 20 RPKESRRDKDRDRRRRSRSHERRSERD-RDRDLERRKEKSRGSKRRSRSREAERSKDHSK 78
R R + S + R+ ++ + R+ K
Sbjct: 112 RSIIMRENFIPTIVNFSAEEISDAIREKMKKNYMSNPSYNYEIVNRASLAAGPMVKWAIA 171
Query: 79 KEEKDKREKEEEEAAFDPSKLDKEVEATRLELE 111
+ K E + KL+ + + + +LE
Sbjct: 172 QLNYADMLKRVEPLRNELQKLEDDAKDNQQKLE 204
>3do6_A Formate--tetrahydrofolate ligase; TM1766, putative
formyltetrahydrofolate synthetase, structural genomics;
HET: MSE; 1.85A {Thermotoga maritima}
Length = 543
Score = 29.5 bits (67), Expect = 3.9
Identities = 11/43 (25%), Positives = 16/43 (37%), Gaps = 2/43 (4%)
Query: 207 DVKPADSGSKPAGVVIVTGV--VKKSVEKAKGELMEENQDGLE 247
D G P V+V V +K + EEN + L+
Sbjct: 301 DFVSRVGGFYPNAAVLVATVRALKYHGGANLKNIHEENLEALK 343
>1h2v_C 80 kDa nuclear CAP binding protein; CAP-binding-complex, RNP
domain, MIF4G domain, RNA maturation, RNA export,
nuclear protein, RNA-binding; 2.0A {Homo sapiens} SCOP:
a.118.1.14 a.118.1.14 a.118.1.14 PDB: 1n52_A* 1n54_A
3fex_A 3fey_A 1h6k_A 1h2t_C* 1h2u_A*
Length = 771
Score = 29.4 bits (65), Expect = 4.0
Identities = 15/100 (15%), Positives = 37/100 (37%), Gaps = 1/100 (1%)
Query: 232 EKAKGELMEENQDGLEYSSEEEQEDLTSTAANLASKQKKELSKVDHSTIEYL-PFRKDFY 290
+ E +E Q+ +E + E++ + L + + L P+ K+
Sbjct: 666 DGVLEEQIERLQEKVESAQSEQKNLFLVIFQRFIMILTEHLVRCETDGTSVLTPWYKNCI 725
Query: 291 VEVPEIARMTPEEVEKYKEELEGIRVKGKGCPRPIKTWAQ 330
+ +I + +++Y LE + + P + + Q
Sbjct: 726 ERLQQIFLQHHQIIQQYMVTLENLLFTAELDPHILAVFQQ 765
>3bg2_A DGTP triphosphohydrolase; structural genomics, NYSGXRC, target
10395N, triphosphohydro PSI-2, protein structure
initiative; 1.95A {Leeuwenhoekiella blandensis}
Length = 444
Score = 29.3 bits (66), Expect = 4.1
Identities = 9/28 (32%), Positives = 12/28 (42%), Gaps = 2/28 (7%)
Query: 24 SRRDKDRDRRRRSRSHERRS--ERDRDR 49
+R D +R R + R E D DR
Sbjct: 10 LKRQGDTAKRLRIEQDDTRLGFEVDYDR 37
>1a0r_P Phosducin, MEKA, PP33; transducin, beta-gamma, signal
transduction, regulation, phosphorylation, G proteins,
thioredoxin, vision; HET: FAR; 2.80A {Bos taurus} SCOP:
c.47.1.6 PDB: 1b9y_C 1b9x_C
Length = 245
Score = 28.9 bits (64), Expect = 4.1
Identities = 13/63 (20%), Positives = 23/63 (36%)
Query: 30 RDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREAERSKDHSKKEEKDKREKEE 89
D R+ E + R+ S S+ S+E K ++ E ++KE+
Sbjct: 27 NDWRKFKLESEDSDSVAHSKKEILRQMSSPQSRDDKDSKERFSRKMSVQEYELIHKDKED 86
Query: 90 EEA 92
E
Sbjct: 87 ENC 89
>3a6m_A Protein GRPE, HSP-70 cofactor; coiled-coil, four-helix bundle,
dimer, chaperone, STRE response; 3.23A {Thermus
thermophilus}
Length = 177
Score = 28.4 bits (64), Expect = 4.3
Identities = 12/75 (16%), Positives = 35/75 (46%), Gaps = 8/75 (10%)
Query: 78 KKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAE------RKKKDI 131
++ ++ EK+ E + L++ ++A E E++ +D+ R A+ R ++++
Sbjct: 3 ERNHENTLEKDLEAVGQEAQALEERLKA--AEEELKGLKDKYLRLLADFDNYRKRMEEEL 60
Query: 132 ETIKKDIKSNLSSGL 146
+ +++ L
Sbjct: 61 KAREREGVLKALRAL 75
>1f5n_A Interferon-induced guanylate-binding protein 1; GBP, GTP
hydrolysis, GDP, GMP, dynamin related, large GTPase
family. GMPPNP, GPPNHP.; HET: GNP; 1.70A {Homo sapiens}
SCOP: a.114.1.1 c.37.1.8 PDB: 1dg3_A* 2b8w_A* 2b92_A*
2bc9_A* 2d4h_A*
Length = 592
Score = 29.2 bits (64), Expect = 4.3
Identities = 16/125 (12%), Positives = 42/125 (33%), Gaps = 5/125 (4%)
Query: 17 SHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREAERSKDH 76
S + ++ D+ + + E + + K + ERS
Sbjct: 467 SKESMTDAILQTDQTLTEKEKEIEVERVKAESAQASAKMLHEMQRKNEQMMEQKERSYQE 526
Query: 77 SKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIERWRAERKKKDIETIKK 136
K+ +K E + + K + A +L+ E ++ + + K +I+ ++
Sbjct: 527 HLKQLTEKMENDRVQLL----KEQERTLALKLQ-EQEQLLKEGFQKESRIMKNEIQDLQT 581
Query: 137 DIKSN 141
++
Sbjct: 582 KMRRR 586
>2xzm_Y RPS6E; ribosome, translation; 3.93A {Tetrahymena thermophila} PDB:
2xzn_Y
Length = 293
Score = 29.1 bits (64), Expect = 4.4
Identities = 20/129 (15%), Positives = 46/129 (35%), Gaps = 4/129 (3%)
Query: 6 RKRSRSRSPSPSHKRPKESRR-DKDRDRRRRSRSHERRSERDRDRDLERRKEK---SRGS 61
R+ ++ K PK R +R R++ E+ + + EK
Sbjct: 162 RRTFKTAKGKDRTKCPKIQRLITPERILRKKVYKAEKTQRYVKTNAAKEEYEKFLSEWKK 221
Query: 62 KRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIER 121
+R +++ A + K+ + ++ + + A P+ AT++ + Q +
Sbjct: 222 QRAAKAHAASAPVVEAPKKVEAPKKVDPKAAKTTPAATKATPAATKVAPKTQAAKTTTPA 281
Query: 122 WRAERKKKD 130
+ KK
Sbjct: 282 PAVKDAKKT 290
>3lvh_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 9.00A {Bos
taurus}
Length = 205
Score = 28.7 bits (63), Expect = 4.8
Identities = 13/84 (15%), Positives = 31/84 (36%), Gaps = 5/84 (5%)
Query: 11 SRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREA 70
+ + ++ + R+ R +R E D + ++ + + K
Sbjct: 82 PADGYAAIAQADRLTQEPESIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLE----- 136
Query: 71 ERSKDHSKKEEKDKREKEEEEAAF 94
E ++ S++ EK+K + AF
Sbjct: 137 EWNQRQSEQVEKNKINNRIADKAF 160
>3u5e_Y L33, YL33, 60S ribosomal protein L26-A; translation, ribosome,
ribosomal R ribosomal protein, STM1, eukaryotic
ribosome; 3.00A {Saccharomyces cerevisiae} PDB: 2wwa_L
2ww9_L 2wwb_L 3o5h_X 3o58_X 3u5i_Y 1s1i_U 3izc_Y 3izs_Y
3jyw_U
Length = 127
Score = 27.7 bits (61), Expect = 4.9
Identities = 26/127 (20%), Positives = 47/127 (37%), Gaps = 7/127 (5%)
Query: 1 MVRSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRG 60
+ RRK ++ +PS +R ++ R + RD + + R +K +
Sbjct: 8 VSSDRRKARKAYFTAPSSQRRVLLSAPLSKELRAQYGIKALPIRRDDEVLVVRGSKKGQE 67
Query: 61 SKRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIE 120
K S R K K+K PSK + T+L L+ + R+ I+
Sbjct: 68 GKISSVYRLKFAV--QVDKVTKEKVNGASVPINLHPSK----LVITKLHLD-KDRKALIQ 120
Query: 121 RWRAERK 127
R + +
Sbjct: 121 RKGGKLE 127
>2j1d_G DAAM1, disheveled-associated activator of morphogenesis; actin
assembly, protein binding; 2.55A {Homo sapiens} PDB:
2z6e_A
Length = 483
Score = 29.1 bits (65), Expect = 5.0
Identities = 14/69 (20%), Positives = 29/69 (42%), Gaps = 1/69 (1%)
Query: 49 RDLERRKEKSRGSKRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLD-KEVEATR 107
++ E ++K +RR+R + + +++ + +E EE FD + E
Sbjct: 393 QENENMRKKKEEEERRARMEAQLKEQRERERKMRKAKENSEESGEFDDLVSALRSGEVFD 452
Query: 108 LELEMQKRR 116
+L KR
Sbjct: 453 KDLSKLKRN 461
>3iz5_Y 60S ribosomal protein L26 (L24P); eukaryotic ribosome,homology
modeling,de novo modeling,ribos proteins,novel ribosomal
proteins, ribosome; 5.50A {Triticum aestivum} PDB:
3izr_Y
Length = 150
Score = 28.2 bits (62), Expect = 5.0
Identities = 27/147 (18%), Positives = 49/147 (33%), Gaps = 8/147 (5%)
Query: 1 MVRSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRG 60
+ SRRK ++ +PS R + R + +D + + R K R
Sbjct: 7 VTSSRRKCRKAHFTAPSSVRRVLMSAALSTELRHKYNVRSIPIRKDDEVQVVRGSYKGRE 66
Query: 61 SKRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIE 120
K R H ++ ++K PSK+ +L++ K R I
Sbjct: 67 GKVVQVYRRRWVI--HVERITREKVNGSTVNVGIHPSKV------VVTKLKLDKDRKAIL 118
Query: 121 RWRAERKKKDIETIKKDIKSNLSSGLG 147
+A + D K + ++G
Sbjct: 119 DRKASGRAADKAKGKFTAEDVAAAGAS 145
>3pxi_A Negative regulator of genetic competence CLPC/MEC; CLPB,
proteolysis, CLPX, HSP100/CLP, AAA+ proteins, PR
binding; 6.93A {Bacillus subtilis}
Length = 758
Score = 29.1 bits (66), Expect = 5.1
Identities = 13/76 (17%), Positives = 36/76 (47%), Gaps = 1/76 (1%)
Query: 64 RSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIER-W 122
+ R R + + E+K ++E++AA + +K E ++++ + ++ W
Sbjct: 384 KVRLRSFTTPPNLKELEQKLDEVRKEKDAAVQSQEFEKAASLRDTEQRLREQVEDTKKSW 443
Query: 123 RAERKKKDIETIKKDI 138
+ ++ +++ E DI
Sbjct: 444 KEKQGQENSEVTVDDI 459
>2x7l_M HIV REV; nuclear export, immune system, post-transcriptional
regulation; 3.17A {Human immunodeficiency virus type 3}
Length = 115
Score = 27.6 bits (62), Expect = 5.5
Identities = 19/47 (40%), Positives = 26/47 (55%), Gaps = 10/47 (21%)
Query: 104 EATRLELEMQKRRDRIERWRAERKKKDIETIKKDIKSNLSSGLGGSA 150
E TR Q RR+R RWR +++ I +I + I LS+ LG SA
Sbjct: 31 EGTR-----QARRNRRRRWRERQRQ--IHSISERI---LSTYLGRSA 67
>3mca_A HBS1, elongation factor 1 alpha-like protein; protein protein
complex, translation regulation; 2.74A
{Schizosaccharomyces pombe}
Length = 592
Score = 28.9 bits (65), Expect = 5.6
Identities = 22/167 (13%), Positives = 53/167 (31%), Gaps = 7/167 (4%)
Query: 158 EDDSDEDENDNKDENGKTAEEDIDPLDAFMQGVHEEM-------RKVNKPAVPTTADVKP 210
D D+ E D + + EE + + + V E + +++ DV+
Sbjct: 9 NLDLDDYELDEEPGEEELTEEQEEEFRSAVATVRETLLGVPISEKEIADTVWYYYFDVEK 68
Query: 211 ADSGSKPAGVVIVTGVVKKSVEKAKGELMEENQDGLEYSSEEEQEDLTSTAANLASKQKK 270
+ + K++ + K + ++++ L + + E +K +
Sbjct: 69 SVNYLLQKASSKAGAKEKQNTDSQKEKKQNKSKEALADAKDPLDESSNGIKNLSLNKNDE 128
Query: 271 ELSKVDHSTIEYLPFRKDFYVEVPEIARMTPEEVEKYKEELEGIRVK 317
+ + D E +I + P ++ E E K
Sbjct: 129 PAFQTNGEVKMKNSSESDNQPEKKKIKKQNPTDLVSVPEIFEQSNPK 175
>2r52_A BMP-6, bone morphogenetic protein 6; TGF-beta ligand,
chondrogenesis, cleavage on PAIR of basic residues,
cytokine, developmental protein; 2.50A {Homo sapiens}
Length = 143
Score = 28.1 bits (62), Expect = 5.7
Identities = 5/35 (14%), Positives = 12/35 (34%)
Query: 3 RSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSR 37
R ++ R+RS + S + + +
Sbjct: 10 RRQQSRNRSTQSQDVARVSSASDYNSSELKTACRK 44
Score = 27.7 bits (61), Expect = 6.1
Identities = 5/36 (13%), Positives = 11/36 (30%)
Query: 2 VRSRRKRSRSRSPSPSHKRPKESRRDKDRDRRRRSR 37
SRR++ + S + S ++
Sbjct: 6 ASSRRRQQSRNRSTQSQDVARVSSASDYNSSELKTA 41
>3pzx_A Formate--tetrahydrofolate ligase; HET: TOE; 2.20A {Moorella
thermoacetica} PDB: 1fp7_A 1fpm_A* 3qb6_A* 3qus_A*
3rbo_A* 3sin_A* 1eg7_A
Length = 557
Score = 28.7 bits (65), Expect = 5.8
Identities = 16/43 (37%), Positives = 20/43 (46%), Gaps = 2/43 (4%)
Query: 207 DVKPADSGSKPAGVVIVTGV--VKKSVEKAKGELMEENQDGLE 247
DVK +G KP VIV V +K K +L EN + L
Sbjct: 315 DVKCRYAGFKPDATVIVATVRALKMHGGVPKSDLATENLEALR 357
>2iak_A Bullous pemphigoid antigen 1, isoform 5; triple helical bundle,
spectrin repeat, cell adhesion; 3.00A {Mus musculus}
Length = 224
Score = 28.4 bits (63), Expect = 6.0
Identities = 20/107 (18%), Positives = 40/107 (37%), Gaps = 7/107 (6%)
Query: 22 KESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEK--SRGSKRRSRSREAERSKDHSKK 79
ES + + + + + S D+ LE + K + + +
Sbjct: 72 FESSLKEAKISEIQMTAPLKLSYTDKLHRLESQYAKLLNTSRNQERHLDTLHNFVTRATN 131
Query: 80 EEKDKREKEEEEAAFDPSKLDKEVEATR-----LELEMQKRRDRIER 121
E EKEE E A+D S+ + V + L E++++ + I+
Sbjct: 132 ELIWLNEKEESEVAYDWSERNSSVARKKSYHAELMRELEQKEESIKA 178
>1j7n_A Lethal factor precursor; anthrax, lethal toxin, zinc
metalloprotease, mapkk, MEK; 2.30A {Bacillus anthracis}
SCOP: d.92.1.14 d.92.1.14 d.166.1.1 PDB: 1jky_A 1pwp_A*
1pwq_A* 1pwv_A 1zxv_A* 1pwu_A* 1pww_A 3kwv_C
Length = 776
Score = 28.8 bits (63), Expect = 6.0
Identities = 28/236 (11%), Positives = 81/236 (34%), Gaps = 17/236 (7%)
Query: 62 KRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELEMQKRRDRIER 121
+ +E + ++ K EE++K ++E KE+ +++E+ K + +++
Sbjct: 8 GMHVKEKEKNKDENKRKDEERNKTQEEHL----------KEIMKHIVKIEV-KGEEAVKK 56
Query: 122 WRAERKKKDIETIKKDIKSNLSSGLGGSAPMKKWNLEDDSDEDENDNKDENGKTAEEDID 181
AE+ + + + ++ +GG + ++ + + K
Sbjct: 57 EAAEKLLEKVPSDVLEMYKA----IGGKIYIVDGDITKHISLEALSEDKKKIKDIYGKDA 112
Query: 182 PLDAFM--QGVHEEMRKVNKPAVPTTADVKPADSGSKPAGVVIVTGVVKKSVEKAKGELM 239
L E V + + + + A + G ++ ++ K + + L
Sbjct: 113 LLHEHYVYAKEGYEPVLVIQSSEDYVENTEKALNVYYEIGKILSRDILSKINQPYQKFLD 172
Query: 240 EENQDGLEYSSEEEQEDLTSTAANLASKQKKELSKVDHSTIEYLPFRKDFYVEVPE 295
N S+ + T+ + E + + + ++ + + Y P+
Sbjct: 173 VLNTIKNASDSDGQDLLFTNQLKEHPTDFSVEFLEQNSNEVQEVFAKAFAYYIEPQ 228
>1ci6_A Transcription factor ATF-4; BZIP; 2.60A {Homo sapiens} SCOP:
h.1.3.1
Length = 63
Score = 26.2 bits (58), Expect = 6.3
Identities = 10/64 (15%), Positives = 26/64 (40%), Gaps = 9/64 (14%)
Query: 52 ERRKEKSRGSKRRSRSREAERSKDHSKKEEKDKREKEEEEAAFDPSKLDKEVEATRLELE 111
++ E+++ + R R + K+ E++ E +E L + ++ E++
Sbjct: 4 LKKMEQNKTAATRYRQK---------KRAEQEALTGECKELEKKNEALKERADSLAKEIQ 54
Query: 112 MQKR 115
K
Sbjct: 55 YLKD 58
>3qc1_A Immunoglobulin-binding protein 1; PP2A, signaling protein; 2.35A
{Mus musculus}
Length = 243
Score = 28.6 bits (63), Expect = 6.3
Identities = 16/110 (14%), Positives = 36/110 (32%), Gaps = 17/110 (15%)
Query: 15 SPSHKRPKESRRDKDRDRRRRSRSHERRSERDRDRDLERRKEKSRGSKRRSRSREAERSK 74
+ K + + + + + R +ER K+K +E E
Sbjct: 144 EFQLPQTKTNSAENNTASSSMAYPNLVAMASQRQAKIERYKQK----------KEVEHRL 193
Query: 75 DHSKKEEKDKREKEEEEAAFDPSKLDK-------EVEATRLELEMQKRRD 117
K + + +E + L + E+E+ E+++ K +D
Sbjct: 194 SALKSAVESGQADDERVREYHLLHLRRWIAVSLEELESIDQEIKILKEKD 243
>2p6p_A Glycosyl transferase; X-RAY-diffraction,urdamycina-biosynthesis;
1.88A {Streptomyces fradiae}
Length = 384
Score = 28.6 bits (64), Expect = 7.4
Identities = 9/82 (10%), Positives = 23/82 (28%), Gaps = 8/82 (9%)
Query: 448 RGAEIIVCTPGRMIDMLAANSGRVTNLRRVTYIVLDEADRMFDMGFEPQVMRIIDNVRPD 507
G ++++ M ++ G + + + + + + P
Sbjct: 27 AGHQVVMAANQDMGPVVTG-VG-------LPAVATTDLPIRHFITTDREGRPEAIPSDPV 78
Query: 508 RQTVMFSATFPRQMEALARRIL 529
Q F R + R+L
Sbjct: 79 AQARFTGRWFARMAASSLPRML 100
>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 = 28.0 bits (63), Expect = 8.9
Identities = 17/69 (24%), Positives = 34/69 (49%), Gaps = 13/69 (18%)
Query: 452 IIVCTPG---RMIDMLAANSGRVTNLRRVTYIVLDEA-DRMFDMGFEPQVMRIIDNVRPD 507
I+ CT G R ++ +R ++++++DE +R + F V+R + P+
Sbjct: 158 IMFCTVGVLLRKLE---------AGIRGISHVIVDEIHERDINTDFLLVVLRDVVQAYPE 208
Query: 508 RQTVMFSAT 516
+ V+ SAT
Sbjct: 209 VRIVLMSAT 217
>3lph_A Protein REV; helix-loop-helix, RNA-binding arginine rich motif,
protein oligomerization, AIDS, HOST cytoplasm, HOST
nucleus; 2.50A {Human immunodeficiency virus type 1}
Length = 72
Score = 26.1 bits (58), Expect = 9.1
Identities = 18/47 (38%), Positives = 25/47 (53%), Gaps = 10/47 (21%)
Query: 104 EATRLELEMQKRRDRIERWRAERKKKDIETIKKDIKSNLSSGLGGSA 150
E TR Q RR+R RWR +++ I +I + I S+ LG SA
Sbjct: 34 EGTR-----QARRNRRRRWRERQRQ--IHSISERI---RSTYLGRSA 70
>1ns5_A Hypothetical protein YBEA; structural genomics, PSI, protein
structure initiative, northeast structural genomics
consortium, NESG; 1.68A {Escherichia coli} SCOP:
c.116.1.3
Length = 155
Score = 27.4 bits (62), Expect = 9.4
Identities = 6/34 (17%), Positives = 13/34 (38%), Gaps = 3/34 (8%)
Query: 550 HVIVLDEEQKML---KLLELLGIYQDQGSVIVFV 580
++ LD K +L L ++ G + +
Sbjct: 68 RIVTLDIPGKPWDTPQLAAELERWKLDGRDVSLL 101
>3oqs_A Importin subunit alpha-2; importin alpha, karyopherin alpha,
nuclear localisation SIGN recognition, chloride
intracellular channel 4, CLIC4 NLS; 2.00A {Mus
musculus} PDB: 3rz9_A 3rzx_A 1q1s_C 1q1t_C 3tpo_A
3knd_A 1ejy_I 1iq1_C 1ejl_I 1pjn_B 1pjm_B 3q5u_A 3fey_C
3fex_C 1ial_A 1y2a_C 3btr_C 3l3q_A* 3ve6_A 2c1m_A ...
Length = 510
Score = 28.1 bits (62), Expect = 9.8
Identities = 2/30 (6%), Positives = 7/30 (23%), Gaps = 1/30 (3%)
Query: 25 RRDKDRDRRRRSRSHERRSERDRDRDLERR 54
R ++ +R ++
Sbjct: 6 HHSSGLVPRGSGMKETAAAKFERQH-MDSP 34
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
0.314 0.132 0.369
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: 9,452,438
Number of extensions: 615457
Number of successful extensions: 2538
Number of sequences better than 10.0: 1
Number of HSP's gapped: 2116
Number of HSP's successfully gapped: 315
Length of query: 615
Length of database: 6,701,793
Length adjustment: 99
Effective length of query: 516
Effective length of database: 3,937,614
Effective search space: 2031808824
Effective search space used: 2031808824
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 60 (27.6 bits)