RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy6093
(350 letters)
>2xau_A PRE-mRNA-splicing factor ATP-dependent RNA helica; hydrolase,
ribosome biogenesis, ATPase, ATP-binding, OB-fold; HET:
ADP; 1.90A {Saccharomyces cerevisiae} PDB: 3kx2_B*
Length = 773
Score = 227 bits (580), Expect = 3e-68
Identities = 97/335 (28%), Positives = 153/335 (45%), Gaps = 63/335 (18%)
Query: 19 HLQNKSVFE--------LGVRKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIA 70
H Q + +FE RK+V++TNIAETS+TID IVYVVD G +K ++ + +
Sbjct: 351 HQQQR-IFEPAPESHNGRPGRKVVISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVE 409
Query: 71 TLKPEWISLANAKQRRGRAGRVQEGVCYHLYS-RAREQTFQDYPLPEIQRTRLDEVVRTL 129
+L IS A+A+QR GRAGR + G C+ LY+ A ++ + PEI R+ L V L
Sbjct: 410 SLLVSPISKASAQQRAGRAGRTRPGKCFRLYTEEAFQKELIEQSYPEILRSNLSSTVLEL 469
Query: 130 ESKKFKMVSRRFKVMLNTAFTPYVWVPKQVLDPPDPASVQLSLKLLRLIDALDDDEHLTP 189
+ + F + +DPP P ++ +L+ L + LDD+ +LTP
Sbjct: 470 KKLGIDDL-VHF---------DF-------MDPPAPETMMRALEELNYLACLDDEGNLTP 512
Query: 190 LGYHLAKLPLDPQIGKMLLMASIFSCVDPVFTVAASLGFKDAFYCPMIGKMLLMASIFSC 249
LG ++ PLDP + ML+ + F C + T+ A ML S+ +
Sbjct: 513 LGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVA---------------ML---SVPNV 554
Query: 250 VDPVFTVAASLGFKDAFYCPMNMEKDVDKQKNILAQGAKSDYVVLINAMQGWEQA-LEHN 308
F P +K D KNI A D++ L+N ++
Sbjct: 555 ----------------FIRPTKDKKRADDAKNIFAH-PDGDHITLLNVYHAFKSDEAYEY 597
Query: 309 YAHDYCRENFLTNNTLLLLRDMKDQFSRTMHEMNF 343
H +CR+++L +L +++ Q R M+ N
Sbjct: 598 GIHKWCRDHYLNYRSLSAADNIRSQLERLMNRYNL 632
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 114 bits (287), Expect = 1e-28
Identities = 20/92 (21%), Positives = 32/92 (34%), Gaps = 4/92 (4%)
Query: 29 GVRKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQRRGR 88
V+ T+I+E V+D + + ++ P I+ A+A QRRGR
Sbjct: 216 EKWDFVITTDISEMGANFK-ADRVIDPR-KTIKPILLDGRVSMQGPIAITPASAAQRRGR 273
Query: 89 AGRVQEGV--CYHLYSRAREQTFQDYPLPEIQ 118
GR E + Y E +
Sbjct: 274 IGRNPEKLGDIYAYSGNVSSDNEGHVSWTEAR 305
>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 = 112 bits (281), Expect = 8e-28
Identities = 20/94 (21%), Positives = 37/94 (39%), Gaps = 5/94 (5%)
Query: 29 GVRKIVLATNIAETSITIDDIVYVVDCG--KTKMSNFDVKDNIATLKPEWISLANAKQRR 86
V+ T+I+E V+D + D + + P ++ A+A QRR
Sbjct: 233 TDWDFVVTTDISEMGANFR-AGRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAAQRR 291
Query: 87 GRAGRVQEGVCY-HLYSRAREQTFQDYPL-PEIQ 118
GR GR +++S + +D+ E +
Sbjct: 292 GRIGRNPAQEDDQYVFSGDPLKNDEDHAHWTEAK 325
>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 = 113 bits (283), Expect = 1e-27
Identities = 20/94 (21%), Positives = 37/94 (39%), Gaps = 5/94 (5%)
Query: 29 GVRKIVLATNIAETSITIDDIVYVVDCG--KTKMSNFDVKDNIATLKPEWISLANAKQRR 86
V+ T+I+E V+D + D + + P ++ A+A QRR
Sbjct: 400 TDWDFVVTTDISEMGANFR-AGRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAAQRR 458
Query: 87 GRAGRVQEGVCY-HLYSRAREQTFQDYPL-PEIQ 118
GR GR +++S + +D+ E +
Sbjct: 459 GRIGRNPAQEDDQYVFSGDPLKNDEDHAHWTEAK 492
>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 = 109 bits (274), Expect = 1e-26
Identities = 21/85 (24%), Positives = 30/85 (35%), Gaps = 4/85 (4%)
Query: 24 SVFELGVRKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDN---IATLKPEWISLA 80
SV +V+AT+ T T D V+DC D +
Sbjct: 433 SVIPTIGDVVVVATDALMTGYTGD-FDSVIDCNTCVTQTVDFSLDPTFTIETTTVPQDAV 491
Query: 81 NAKQRRGRAGRVQEGVCYHLYSRAR 105
+ QRRGR GR + G+ + R
Sbjct: 492 SRSQRRGRTGRGRRGIYRFVTPGER 516
>3i4u_A ATP-dependent RNA helicase DHX8; splicing, ATP-binding, hydrolase,
mRNA processing, splicing, nucleotide-binding, nucleus,
phosphoprotein, SPLI; 2.10A {Homo sapiens}
Length = 270
Score = 101 bits (254), Expect = 4e-25
Identities = 43/192 (22%), Positives = 83/192 (43%), Gaps = 41/192 (21%)
Query: 160 LDPPDPA-SVQLSLKLLRLIDALDDDEHLTPLGYHLAKLPLDPQIGKMLLMASIFSCVDP 218
P ++ +++ L + ALDD+ LT LG +A+ PL+P + KML+M+ C +
Sbjct: 11 GTRGSPMETLITAMEQLYTLGALDDEGLLTRLGRRMAEFPLEPMLCKMLIMSVHLGCSEE 70
Query: 219 VFTVAASLGFKDAFYCPMIGKMLLMASIFSCVDPVFTVAASLGFKDAFYCPMNMEKDVDK 278
+ T+ + ML V V FY P + + D+
Sbjct: 71 MLTIVS---------------ML-------SVQNV------------FYRPKDKQALADQ 96
Query: 279 QKNILAQGAKSDYVVLINAMQGWEQALEHNYAHDYCRENFLTNNTLLLLRDMKDQFSRTM 338
+K Q + D++ L+ W+ + +++ +C ENF+ +L +D++ Q M
Sbjct: 97 KKAKFHQ-TEGDHLTLLAVYNSWK---NNKFSNPWCYENFIQARSLRRAQDIRKQMLGIM 152
Query: 339 --HEMNFISSRT 348
H+++ +S
Sbjct: 153 DRHKLDVVSCGK 164
>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 = 102 bits (256), Expect = 2e-24
Identities = 25/93 (26%), Positives = 37/93 (39%), Gaps = 4/93 (4%)
Query: 29 GVRKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDN-IATLKPEWISLANAKQRRG 87
+LAT+IAE + + V+DC + +A P IS ++A QRRG
Sbjct: 222 KKPDFILATDIAEMGANL-CVERVLDCRTAFKPVLVDEGRKVAIKGPLRISASSAAQRRG 280
Query: 88 RAGRV--QEGVCYHLYSRAREQTFQDYPLPEIQ 118
R GR ++G Y+ E E
Sbjct: 281 RIGRNPNRDGDSYYYSEPTSENNAHHVCWLEAS 313
>2wv9_A Flavivirin protease NS2B regulatory subunit, FLAV protease NS3
catalytic subunit; nucleotide-binding, capsid protein;
2.75A {Murray valley encephalitis virus}
Length = 673
Score = 102 bits (256), Expect = 3e-24
Identities = 22/83 (26%), Positives = 32/83 (38%), Gaps = 5/83 (6%)
Query: 29 GVRKIVLATNIAETSITIDDIVYVVDCG--KTKMSNFDVKDNIATLKPEWISLANAKQRR 86
G V+ T+I+E V+DC + + + P I+ A+A QRR
Sbjct: 455 GDWDFVITTDISEMGANFG-ASRVIDCRKSVKPTILDEGEGRVILSVPSAITSASAAQRR 513
Query: 87 GRAGRVQEGVC--YHLYSRAREQ 107
GR GR + YH E
Sbjct: 514 GRVGRNPSQIGDEYHYGGGTSED 536
>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 = 101 bits (253), Expect = 5e-24
Identities = 24/83 (28%), Positives = 33/83 (39%), Gaps = 5/83 (6%)
Query: 29 GVRKIVLATNIAETSITIDDIVYVVDCGK--TKMSNFDVKDNIATLKPEWISLANAKQRR 86
G V+ T+I+E V+DC K + + + P I+ A+A QRR
Sbjct: 235 GDWDFVITTDISEMGANF-GASRVIDCRKSVKPTILEEGEGRVILGNPSPITSASAAQRR 293
Query: 87 GRAGRVQEGV--CYHLYSRAREQ 107
GR GR V YH E
Sbjct: 294 GRVGRNPNQVGDEYHYGGATSED 316
>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 = 51.4 bits (122), Expect = 3e-07
Identities = 42/273 (15%), Positives = 80/273 (29%), Gaps = 101/273 (36%)
Query: 17 LKHLQNKSV---FELGVRKIVLAT----------NIAETSITIDDIVYVVDCGKTK---- 59
L ++QN F L KI+L T T I++D + + K
Sbjct: 250 LLNVQNAKAWNAFNLSC-KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLL 308
Query: 60 ----MSNFDVKDNIATLKPEWISLANAKQRRGRAGRVQEGVCYHLYSRAREQTFQDYPLP 115
D+ + T P +S+ R G A ++
Sbjct: 309 KYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLA---------------TWDNWKHVNCD 353
Query: 116 EIQRTRLDEVVRTLESKKFKMVSRRFKVMLNTAFTPYVWVPKQVL--------------- 160
++ ++ + LE +++ + F + + F P +P +L
Sbjct: 354 KLTTI-IESSLNVLEPAEYR---KMFDRL--SVFPPSAHIPTILLSLIWFDVIKSDVMVV 407
Query: 161 ------------DPPDPA----SVQLSLKLL---------RLIDALD-----DDEHLTP- 189
P + S+ L LK+ ++D + D + L P
Sbjct: 408 VNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALHRSIVDHYNIPKTFDSDDLIPP 467
Query: 190 ---------LGYHLAKLPLDPQIGKMLLMASIF 213
+G+HL + +M L +F
Sbjct: 468 YLDQYFYSHIGHHLKNI---EHPERMTLFRMVF 497
Score = 50.2 bits (119), Expect = 7e-07
Identities = 38/269 (14%), Positives = 87/269 (32%), Gaps = 69/269 (25%)
Query: 110 QDYPLPEIQRTRLDEVVR-------------TLESKKFKMVSRRFKVMLNTAFTPYVWVP 156
QD P + + +D ++ TL SK+ +MV + + +L Y ++
Sbjct: 39 QDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQKFVEEVLRIN---YKFLM 95
Query: 157 KQV-LDPPDPASVQLSLKLLRLIDALD----DDEHLTPLGYHLAKLPLDPQIGKMLLMAS 211
+ + P S+ I+ D D++ Y++++L ++ + LL
Sbjct: 96 SPIKTEQRQP-----SMMTRMYIEQRDRLYNDNQVFAK--YNVSRLQPYLKLRQALLELR 148
Query: 212 IFSCVDPVFTVAASLGFKDAFYCPMIGKMLLMASIFSCVDPVFTVAASLGFKDAFYCP-- 269
+ LG GK + V S +
Sbjct: 149 ----PAKNVLIDGVLGS---------GKTWVALD----------VCLSYKVQCKMDFKIF 185
Query: 270 -MNM------EKDVDKQKNILAQGAKSDYVVLINAMQGWEQALEHNYAHDYCRENFLT-- 320
+N+ E ++ + +L Q ++ + + + R +
Sbjct: 186 WLNLKNCNSPETVLEMLQKLLYQ-IDPNWTSRSDHSSNIKLRIHS--IQAELRRLLKSKP 242
Query: 321 -NNTLLLLRDMKDQFSRTMHEMNFISSRT 348
N LL+L ++++ ++ + N S +
Sbjct: 243 YENCLLVLLNVQN--AKAWNAFNL-SCKI 268
Score = 47.2 bits (111), Expect = 5e-06
Identities = 56/395 (14%), Positives = 109/395 (27%), Gaps = 113/395 (28%)
Query: 17 LKHLQNKSVFELGVRKIVLATNIAETSITIDDIV----------YVVDCGKTKMSN---- 62
L ++ V + + + ID I+ + +K
Sbjct: 22 LSVFEDAFVDNFDCKDVQDMPKSILSKEEIDHIIMSKDAVSGTLRLFWTLLSKQEEMVQK 81
Query: 63 FDVKDNIATLKP--EWISLANAKQRRGRAGRVQEGVCYHLYSRARE------QTFQDYPL 114
F V++ L+ +++ ++R + +Y R+ Q F Y +
Sbjct: 82 F-VEE---VLRINYKFLMSPIKTEQRQPSMM------TRMYIEQRDRLYNDNQVFAKYNV 131
Query: 115 PEIQR-TRLDEVVRTLESKKF----------K-----MVSRRFKVMLNTAFTPYVWV--- 155
+Q +L + + L K K V +KV F + W+
Sbjct: 132 SRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIF-WLNLK 190
Query: 156 ----PKQVLDPPDPASVQLSLKLLRLIDALDDDEH-LTPLGYHLAKLPLDPQIGKMLLMA 210
P+ VL+ Q+ D + + + + L +L LL+
Sbjct: 191 NCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLV- 249
Query: 211 SIFSCVDPVFT--VAASLGFKDAFYCPMIGKMLLMASIFSCVDPVFTVAASLGFKDAFYC 268
+ V + C K+LL V L +
Sbjct: 250 -----LLNVQNAKAWNAFNLS----C----KILLTTRFKQ-------VTDFLSAATTTHI 289
Query: 269 PMNMEKDV---DKQKNILAQGAKSDY------VVLIN----AMQG---------WEQALE 306
++ D+ K++L + V+ N ++ W+
Sbjct: 290 SLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRRLSIIAESIRDGLATWD---- 345
Query: 307 HNYAHDYC------RENFLTNNTLLLLRDMKDQFS 335
N+ H C E+ L R M D+ S
Sbjct: 346 -NWKHVNCDKLTTIIESSLNVLEPAEYRKMFDRLS 379
>1lfp_A Hypothetical protein AQ_1575; NEW fold, thermostability, structural
genomics, BSGC structure funded by NIH, protein
structure initiative, PSI; 1.72A {Aquifex aeolicus}
SCOP: e.39.1.1
Length = 249
Score = 33.7 bits (78), Expect = 0.072
Identities = 13/64 (20%), Positives = 24/64 (37%), Gaps = 14/64 (21%)
Query: 122 LDEVVRTLESKKFKMVSRRFKVMLNTAFTPYVWVPKQVLDPPDPASVQLSLKLLRLIDAL 181
L EV LE + W P + D + Q K+++L++AL
Sbjct: 180 LYEVKENLEKLGVPIEK-----------AQITWKPISTVQINDEETAQ---KVIKLLNAL 225
Query: 182 DDDE 185
++ +
Sbjct: 226 EELD 229
>1wp9_A ATP-dependent RNA helicase, putative; ATPase, DNA replication, DNA
repair, DNA recombina hydrolase; 2.90A {Pyrococcus
furiosus} SCOP: c.37.1.19 c.37.1.19
Length = 494
Score = 33.6 bits (76), Expect = 0.088
Identities = 17/82 (20%), Positives = 31/82 (37%), Gaps = 18/82 (21%)
Query: 26 FELGVRKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQR 85
F G +++AT++ E + + ++ VV ++ + I QR
Sbjct: 415 FARGEFNVLVATSVGEEGLDVPEVDLVV--------FYEPVPSA-------IRSI---QR 456
Query: 86 RGRAGRVQEGVCYHLYSRAREQ 107
RGR GR G L ++
Sbjct: 457 RGRTGRHMPGRVIILMAKGTRD 478
>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 = 31.9 bits (72), Expect = 0.42
Identities = 63/427 (14%), Positives = 92/427 (21%), Gaps = 218/427 (51%)
Query: 98 YHLYSRAREQTFQDYPLPEIQRTRLDEVVRTLESKKFKMVSRRFKVMLNTAFTPYVWVPK 157
+ + S+ +EQ + P P DE E L F YV
Sbjct: 27 FFIASQLQEQFNKILPEPTEGFAADDEPTTPAE--------------LVGKFLGYV---S 69
Query: 158 QVLDPPDPASVQLSLKL---------LRLID------ALDDDEHLTPLG-------Y--- 192
+++P L L L D L + T + Y
Sbjct: 70 SLVEPSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKNYITA 129
Query: 193 -HLAKLPLDPQIGKMLLMAS---------IF---------------------SCVDPVFT 221
+AK P D + L A IF V +
Sbjct: 130 RIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVGDLIK 189
Query: 222 VAASL-----------------GFK------------DAFY-------CPMIG------- 238
+A G D Y CP+IG
Sbjct: 190 FSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIGVIQLAHY 249
Query: 239 -------------------------KMLLMASIFSCVD--PVFTVAASLGFKDAFY---- 267
+ L+ A + D F V+ F+
Sbjct: 250 VVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVR 309
Query: 268 --------------------------CPM---------NMEKDVDKQKNILAQGAKSDYV 292
PM ++ V+K N K +
Sbjct: 310 CYEAYPNTSLPPSILEDSLENNEGVPSPMLSISNLTQEQVQDYVNKT-NSHLPAGKQVEI 368
Query: 293 VLINAMQGWEQALEHNYAHDYCRENF-LTNN--TL----LLLRDMK-----DQFSRTMHE 340
L+N +N ++ +L L LR K DQ SR
Sbjct: 369 SLVNG-----------------AKNLVVSGPPQSLYGLNLTLRKAKAPSGLDQ-SRIPF- 409
Query: 341 MNFISSR 347
S R
Sbjct: 410 ----SER 412
>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 = 30.3 bits (67), Expect = 1.0
Identities = 21/163 (12%), Positives = 52/163 (31%), Gaps = 21/163 (12%)
Query: 32 KIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQRRGRAGR 91
++++AT++A+ I I VV ++ N + Q RGR R
Sbjct: 696 RLLIATSVADEGIDIVQCNLVV--------LYEYSGN-------VTKMI---QVRGRG-R 736
Query: 92 VQEGVCYHLYSRAREQTFQDYPLPEIQRTRLDEVVRTLESKKFKMVSRRFKVMLNTAFTP 151
C + S+ ++ + +++ V ++ + +++ +
Sbjct: 737 AAGSKCILVTSKTEVV--ENEKCNRYKEEMMNKAVEKIQKWDEETFAKKIHNLQMKERVL 794
Query: 152 YVWVPKQVLDPPDPASVQLSLKLLRLIDALDDDEHLTPLGYHL 194
K++ L + DD + +H+
Sbjct: 795 RDSRRKEIKPKVVEGQKNLLCGKCKAYACSTDDIRIIKDSHHI 837
>3eaq_A Heat resistant RNA dependent ATPase; DEAD box RNA helicase, dimer,
ATP-binding, helicase, hydrolase, nucleotide-binding;
2.30A {Thermus thermophilus} PDB: 3ear_A 3eas_A
Length = 212
Score = 29.2 bits (66), Expect = 1.7
Identities = 25/124 (20%), Positives = 42/124 (33%), Gaps = 39/124 (31%)
Query: 26 FELGVRKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEW----ISLAN 81
F G ++++AT++A + I + VV ++ + D E
Sbjct: 77 FRQGEVRVLVATDVAARGLDIPQVDLVV--------HYRLPDR-----AEAYQHRSG--- 120
Query: 82 AKQRRGRAGRVQEGVCYHLYS-----------RAREQTFQDYPLP---EIQRTRLDEVVR 127
R GRAGR G LY RA + F+ P E+ + ++
Sbjct: 121 ---RTGRAGR--GGRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLA 175
Query: 128 TLES 131
L
Sbjct: 176 RLAR 179
>1kon_A Protein YEBC, YEBC; alpha/beta, two-domains, montreal-kingston
bacterial structural genomics initiative, BSGI,
structural genomics; 2.20A {Escherichia coli} SCOP:
e.39.1.1
Length = 249
Score = 29.0 bits (66), Expect = 1.8
Identities = 15/64 (23%), Positives = 23/64 (35%), Gaps = 15/64 (23%)
Query: 122 LDEVVRTLESKKFKMVSRRFKVMLNTAFTPYVWVPKQVLDPPDPASVQLSLKLLRLIDAL 181
+ +V LE+ K S +P D + KL+RLID L
Sbjct: 182 MGKVRDALEAAGLKADS-----------AEVSMIP-STKADMDAETAP---KLMRLIDML 226
Query: 182 DDDE 185
+D +
Sbjct: 227 EDCD 230
>1mw7_A Hypothetical protein HP0162; structural genomics, PSI, protein
structure initiative, northeast structural genomics
consortium, NESG; 2.00A {Helicobacter pylori} SCOP:
e.39.1.1
Length = 240
Score = 29.0 bits (66), Expect = 1.8
Identities = 8/68 (11%), Positives = 20/68 (29%), Gaps = 23/68 (33%)
Query: 122 LDEVVRTLESKKFKMVSRRFKVMLNTAFTPYVWVPKQVLDPPDPASVQLSL----KLLRL 177
+ ES K ++ + ++L+ +L
Sbjct: 182 FKLLNEGFESLKLPILKASL-----------QRIATT--------PIELNDEQMELTEKL 222
Query: 178 IDALDDDE 185
+D ++DD+
Sbjct: 223 LDRIEDDD 230
>4f3q_A Transcriptional regulatory protein CBU_1566; YEBC family; 2.15A
{Coxiella burnetii}
Length = 247
Score = 29.1 bits (66), Expect = 2.0
Identities = 7/64 (10%), Positives = 20/64 (31%), Gaps = 15/64 (23%)
Query: 122 LDEVVRTLESKKFKMVSRRFKVMLNTAFTPYVWVPKQVLDPPDPASVQLSLKLLRLIDAL 181
+++ +++ + D S + ++LRL + L
Sbjct: 183 FEKIRNAMKAADLNPSH-----------AEVTVLA-STEVGLDKDSAE---QMLRLTEML 227
Query: 182 DDDE 185
+D +
Sbjct: 228 EDLD 231
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 29.3 bits (66), Expect = 2.3
Identities = 24/154 (15%), Positives = 46/154 (29%), Gaps = 33/154 (21%)
Query: 75 EWISLANAKQRRGRAGRVQ---EGVCYHLYSRAREQTFQDY-----PLPEIQ-------- 118
+ I + KQ GRAGR G + + + I+
Sbjct: 376 DEIPIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVDRVFKKYVLSDVEPIESKLGSERA 435
Query: 119 -RTRLDEVVRTLESKKFKMVSRRFKVMLNTAFTPYVWVPKQVLDPPDPASVQLSLKLL-- 175
T L ++ + K + + KQ++D +++ L
Sbjct: 436 FYTFLLGILSAEGNLSEKQLENFAY---ESLLA------KQLVDV----YFDRAIRWLLE 482
Query: 176 -RLIDALDDDEHLTPLGYHLAKLPLDPQIGKMLL 208
I + LT G +A L ++P ++
Sbjct: 483 HSFIKEEGNTFALTNFGKRVADLYINPFTADIIR 516
>3i32_A Heat resistant RNA dependent ATPase; RNA helicase, dimer, RNA
recognition motif, ATP-BIND helicase,
nucleotide-binding; 2.80A {Thermus thermophilus}
Length = 300
Score = 28.9 bits (65), Expect = 2.4
Identities = 25/124 (20%), Positives = 42/124 (33%), Gaps = 39/124 (31%)
Query: 26 FELGVRKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEW----ISLAN 81
F G ++++AT++A + I + VV ++ + D E
Sbjct: 74 FRQGEVRVLVATDVAARGLDIPQVDLVV--------HYRMPDR-----AEAYQHRSG--- 117
Query: 82 AKQRRGRAGRVQEGVCYHLYS-----------RAREQTFQDYPLP---EIQRTRLDEVVR 127
R GRAGR G LY RA + F+ P E+ + ++
Sbjct: 118 ---RTGRAGR--GGRVVLLYGPRERRDVEALERAVGRRFKRVNPPTPEEVLEAKWRHLLA 172
Query: 128 TLES 131
L
Sbjct: 173 RLAR 176
>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 = 28.4 bits (62), Expect = 3.9
Identities = 16/109 (14%), Positives = 40/109 (36%), Gaps = 21/109 (19%)
Query: 32 KIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQRRGRAGR 91
++++AT++A+ I I VV ++ N + Q RGR R
Sbjct: 696 RLLIATSVADEGIDIVQCNLVV--------LYEYSGN-------VTKMI---QVRGRG-R 736
Query: 92 VQEGVCYHLYSRAREQTFQDYPLPEIQRTRLDEVVRTLESKKFKMVSRR 140
C + S+ ++ + +++ V ++ + +++
Sbjct: 737 AAGSKCILVTSKTEVV--ENEKCNRYKEEMMNKAVEKIQKWDEETFAKK 783
>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 = 28.4 bits (62), Expect = 4.3
Identities = 16/111 (14%), Positives = 40/111 (36%), Gaps = 21/111 (18%)
Query: 32 KIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQRRGRAGR 91
++++AT++A+ I I VV ++ N + Q RGR R
Sbjct: 455 RLLIATSVADEGIDIVQCNLVV--------LYEYSGN-------VTKMI---QVRGRG-R 495
Query: 92 VQEGVCYHLYSRAREQTFQDYPLPEIQRTRLDEVVRTLESKKFKMVSRRFK 142
C + S+ ++ + +++ V ++ + +++
Sbjct: 496 AAGSKCILVTSKTEVV--ENEKCNRYKEEMMNKAVEKIQKWDEETFAKKIH 544
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 27.9 bits (63), Expect = 5.7
Identities = 21/87 (24%), Positives = 37/87 (42%), Gaps = 19/87 (21%)
Query: 26 FELGVRKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQR 85
F G I++AT +A + I ++ +V+ NFD+ +I E++ R
Sbjct: 322 FRSGKSPILVATAVAARGLDISNVKHVI--------NFDLPSDIE----EYV------HR 363
Query: 86 RGRAGRV-QEGVCYHLYSRAREQTFQD 111
GR GRV G+ ++ +D
Sbjct: 364 IGRTGRVGNLGLATSFFNERNINITKD 390
>2rbc_A Sugar kinase, AGR_C_4560P; ribokinase family, ATP-binding site,
structura genomics, PSI-2, protein structu initiative;
HET: MSE GOL; 1.90A {Agrobacterium tumefaciens str}
Length = 343
Score = 27.6 bits (62), Expect = 6.9
Identities = 7/31 (22%), Positives = 10/31 (32%), Gaps = 7/31 (22%)
Query: 159 VLDPPDPASVQLSLKLLRLIDALDDDEHLTP 189
+LD D A V+ L H+
Sbjct: 186 ILDG-DVAPVETLEGLAPAAT------HIVF 209
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 27.5 bits (62), Expect = 7.0
Identities = 25/127 (19%), Positives = 43/127 (33%), Gaps = 37/127 (29%)
Query: 26 FELGVRKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDV-KDNIATLKPEW----ISLA 80
F +G K+++ TN+ I + + VV N+D+ D P+ I
Sbjct: 403 FRVGTSKVLVTTNVIARGIDVSQVNLVV--------NYDMPLDQAGRPDPQTYLHRIG-- 452
Query: 81 NAKQRRGRAGRVQEGVCYHL-YSRAREQTFQDYPLPEIQR---TRLDEV-------VRTL 129
R GR GR GV + + + + + IQ + V + +
Sbjct: 453 ----RTGRFGR--VGVSINFVHDKKSWEE-----MNAIQEYFQRPITRVPTDDYEELEKV 501
Query: 130 ESKKFKM 136
KM
Sbjct: 502 VKNALKM 508
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 27.2 bits (61), Expect = 7.2
Identities = 10/44 (22%), Positives = 22/44 (50%), Gaps = 8/44 (18%)
Query: 26 FELGVRKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNI 69
F G + +++AT++A + I +V+ N+D+ + I
Sbjct: 100 FREGKKDVLVATDVASKGLDFPAIQHVI--------NYDMPEEI 135
>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 = 27.5 bits (62), Expect = 7.4
Identities = 19/85 (22%), Positives = 38/85 (44%), Gaps = 19/85 (22%)
Query: 26 FELGVRKIVLATNIAETSITIDDIVYVVDCGKTKMSNFDVKDNIATLKPEWISLANAKQR 85
F+ G K+++AT++A + I +I +V+ N+D+ I +++ R
Sbjct: 346 FKNGSMKVLIATSVASRGLDIKNIKHVI--------NYDMPSKID----DYV------HR 387
Query: 86 RGRAGRV-QEGVCYHLYSRAREQTF 109
GR GRV G + +++
Sbjct: 388 IGRTGRVGNNGRATSFFDPEKDRAI 412
>2xr1_A Cleavage and polyadenylation specificity factor 1 subunit;
hydrolase, metallo-beta-lactamase, beta-CAsp, RNA
processing; 2.59A {Methanosarcina mazei}
Length = 640
Score = 27.7 bits (62), Expect = 7.6
Identities = 15/78 (19%), Positives = 31/78 (39%), Gaps = 2/78 (2%)
Query: 124 EVVRTLESKKFKMVSRRFKVMLNTAFTPYVWVPKQVLDPPDPASVQLSLKLLRLIDALDD 183
EV+ +E++K +V + L W+PK V PP + +++ + +
Sbjct: 105 EVI--IEAEKPGLVIGKHGATLREITKQIGWIPKVVRTPPIKSRTVKNIREFMRNNLKER 162
Query: 184 DEHLTPLGYHLAKLPLDP 201
E L +G + +
Sbjct: 163 KEILKTVGRKIHRECTSK 180
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
0.324 0.137 0.415
Gapped
Lambda K H
0.267 0.0807 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,345,992
Number of extensions: 317638
Number of successful extensions: 859
Number of sequences better than 10.0: 1
Number of HSP's gapped: 830
Number of HSP's successfully gapped: 36
Length of query: 350
Length of database: 6,701,793
Length adjustment: 94
Effective length of query: 256
Effective length of database: 4,077,219
Effective search space: 1043768064
Effective search space used: 1043768064
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 58 (26.0 bits)