RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy4150
(395 letters)
>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 = 151 bits (382), Expect = 2e-41
Identities = 72/225 (32%), Positives = 121/225 (53%), Gaps = 13/225 (5%)
Query: 23 RMIQRDFHVTHSLASALENLVTYGLRSFYNNLVEVSKEDGSCPILGKDNDLQNLLQQLKP 82
R + + L A+E L T GL + + ++ +E + + +++K
Sbjct: 270 RGLLLYHAMALKLHHAIELLETQGLSALRAYIKKLYEEAKAGSTKASKEIFSD--KRMKK 327
Query: 83 KLDINIMSSEYAWSHLKFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKP 142
+ + + + E H K +L+EI+ ++ + +K+I+F NYR +I + L
Sbjct: 328 AISLLVQAKEIGLDHPKMDKLKEIIREQL----QRKQNSKIIVFTNYRETAKKIVNELV- 382
Query: 143 LEPMVKASMFVGQSS-----GVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLV 197
+ +KA FVGQ+S G++Q+EQK I+ +F GEFN L+ATSVGEEGLD+ E+DLV
Sbjct: 383 -KDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLV 441
Query: 198 ICFDAQKSPIKMVQRLGRTGRKRNGRCVILLTQGREAHNFQTSMQ 242
+ ++ S I+ +QR GRTGR GR +IL+ +G + S +
Sbjct: 442 VFYEPVPSAIRSIQRRGRTGRHMPGRVIILMAKGTRDEAYYWSSR 486
>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 = 140 bits (354), Expect = 3e-37
Identities = 53/237 (22%), Positives = 105/237 (44%), Gaps = 18/237 (7%)
Query: 16 HINRDLDRMIQRDFHVTHSL---ASALENLVTYGLRSFYNNLVEVSKEDGSCPILGKDND 72
+ R+ + F T L AL + + L E + P +
Sbjct: 289 EDKEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQH 348
Query: 73 LQNLLQQLKPKLDINIMSSEYAWSHLKFIRLREILESHFRLHAEKGETTKVIIFANYRVV 132
L Q+ +P+L +S + + K L IL+ +R + + T+ ++FA R +
Sbjct: 349 LTAKFQEKEPEL--IALSKDETNENPKLEELVCILDDAYRYNPQ----TRTLLFAKTRAL 402
Query: 133 VAEIFDVLKPLEPM--VKASMFVGQSS-----GVTQQEQKEIMKKFRAGEFNT-LIATSV 184
V+ + ++ + +K + +G+ G+T QK ++ F+ + N LIATSV
Sbjct: 403 VSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSV 462
Query: 185 GEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRKRNGRCVILLTQGREAHNFQTSM 241
+EG+DI + +LV+ ++ + KM+Q GR GR +C+++ ++ N + +
Sbjct: 463 ADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAAGSKCILVTSKTEVVENEKCNR 518
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 137 bits (346), Expect = 4e-36
Identities = 60/248 (24%), Positives = 102/248 (41%), Gaps = 18/248 (7%)
Query: 17 INRDLDRMIQRDFHVTHSL---ASALENLVTYGLRSFYNNLVEVSKEDGSCPILGKDNDL 73
+ R+ + F T L AL + N L + + +L
Sbjct: 289 DKEEESRVCKALFLYTSHLRKYNDALIISEDAQMTDALNYLKAFFHDVREAAFDETEREL 348
Query: 74 QNLLQQLKPKLDINIMSSEYAWSHLKFIRLREILESHFRLHAEKGETTKVIIFANYRVVV 133
++ +L+ + K L +L+ + TK I+F R +V
Sbjct: 349 TRRFEEKLEELEKVSRDPS--NENPKLRDLYLVLQEEYH----LKPETKTILFVKTRALV 402
Query: 134 AEIFDVLK--PLEPMVKASMFVGQSS-----GVTQQEQKEIMKKFRA-GEFNTLIATSVG 185
+ ++ P +K + G+ G+T QK +++ FRA G+ N LIATSV
Sbjct: 403 DALKKWIEENPALSFLKPGILTGRGRTNRATGMTLPAQKCVLEAFRASGDNNILIATSVA 462
Query: 186 EEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRKRNGRCVILLTQGREAHNFQTSMQTCK 245
+EG+DI E +LVI ++ + IKM+Q GR GR R+ +C +L + + +M K
Sbjct: 463 DEGIDIAECNLVILYEYVGNVIKMIQTRGR-GRARDSKCFLLTSSADVIEKEKANMIKEK 521
Query: 246 SYVEKIIN 253
E I+
Sbjct: 522 IMNESILR 529
>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 = 137 bits (344), Expect = 3e-35
Identities = 66/355 (18%), Positives = 136/355 (38%), Gaps = 32/355 (9%)
Query: 16 HINRDLDRMIQRDFHVTHSL---ASALENLVTYGLRSFYNNLVEVSKEDGSCPILGKDND 72
+ R+ + F T L AL + + L E + P +
Sbjct: 530 EDKEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQH 589
Query: 73 LQNLLQQLKPKLDINIMSSEYAWSHLKFIRLREILESHFRLHAEKGETTKVIIFANYRVV 132
L Q+ +P ++ +S + + K L IL+ +R T+ ++FA R +
Sbjct: 590 LTAKFQEKEP--ELIALSKDETNENPKLEELVCILDDAYR----YNPQTRTLLFAKTRAL 643
Query: 133 VAEIFDVLKPLEPM--VKASMFVGQSS-----GVTQQEQKEIMKKFRAGEFNT-LIATSV 184
V+ + ++ + +K + +G+ G+T QK ++ F+ + N LIATSV
Sbjct: 644 VSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSV 703
Query: 185 GEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRKRNGRCVILLTQGREAHNFQTSMQTC 244
+EG+DI + +LV+ ++ + KM+Q GR GR +C+++ ++ N + +
Sbjct: 704 ADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAAGSKCILVTSKTEVVENEKCNR--- 759
Query: 245 KSYVEKIINNKSIYANLAKNGPRMIPAHVTPRIKCLHIVVKDRVTPAKPSKKKPKENEKA 304
Y E+++N + + +I L + + + K +
Sbjct: 760 --YKEEMMNKAV------EKIQKWDEETFAKKIHNLQMKERVLRDSRRKEIKPKVVEGQK 811
Query: 305 NKKSKKKLETDGNSE---PAGKQNKTNAKKTKKQPMMTQSNDIRTCFENITKKKK 356
N K +++ + + K+ T+ + F+ KK K
Sbjct: 812 NLLCGKCKAYACSTDDIRIIKDSHHIVLGEAFKERYTTKPHKKPMQFDGFEKKSK 866
>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 = 132 bits (333), Expect = 6e-34
Identities = 52/237 (21%), Positives = 100/237 (42%), Gaps = 18/237 (7%)
Query: 16 HINRDLDRMIQRDFHVTHSL---ASALENLVTYGLRSFYNNLVEVSKEDGSCPILGKDND 72
+ R+ + F T L AL + + L E + P +
Sbjct: 530 EDKEEESRICRALFICTEHLRKYNDALIISEDARIIDALSYLTEFFTNVKNGPYTELEQH 589
Query: 73 LQNLLQQLKPKLDINIMSSEYAWSHLKFIRLREILESHFRLHAEKGETTKVIIFANYRVV 132
L Q+ +P+L + K L IL+ +R T+ ++FA R +
Sbjct: 590 LTAKFQEKEPELIALSKDETN--ENPKLEELVCILDDAYR----YNPQTRTLLFAKTRAL 643
Query: 133 VAEIFDVLKPLEPM--VKASMFVGQSS-----GVTQQEQKEIMKKFRAGEFNT-LIATSV 184
V+ + ++ + +K + +G+ G+T QK ++ F+ + N LIATSV
Sbjct: 644 VSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSV 703
Query: 185 GEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRKRNGRCVILLTQGREAHNFQTSM 241
+EG+DI + +LV+ ++ + KM+Q GR GR +C+++ ++ N + +
Sbjct: 704 ADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR-GRAAGSKCILVTSKTEVVENEKCNR 759
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 129 bits (325), Expect = 6e-33
Identities = 73/323 (22%), Positives = 128/323 (39%), Gaps = 31/323 (9%)
Query: 9 KSKAQFPHINRDLDRMIQRDFHVTHS----LASALENLVTYGLRSFYNNLVEVSKEDGSC 64
K+ F ++D + I + + S AL ++ + L + +
Sbjct: 289 KACMVFQMPDKDEESRICKALFLYTSHLRKYNDALIISEHARMKDALDYLKDFFSNVRAA 348
Query: 65 PILGKDNDLQNLLQQLKPKLDINIMSSEYAWSHLKFIRLREILESHFRLHAEKGETTKVI 124
+ DL ++ +L +S + + + K L IL+ + L+ E T I
Sbjct: 349 GFDEIEQDLTQRFEEKLQEL--ESVSRDPSNENPKLEDLCFILQEEYHLNPE----TITI 402
Query: 125 IFANYRVVVAEIFDVLKPLEPM--VKASMFVGQSS-----GVTQQEQKEIMKKFRA-GEF 176
+F R +V + + ++ + +K + G+ G+T QK I+ F+A G+
Sbjct: 403 LFVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDH 462
Query: 177 NTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRKRNGRCVILLTQGREAHN 236
N LIATSV +EG+DI + +LVI ++ + IKM+Q GR GR R +C +L +
Sbjct: 463 NILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GRARGSKCFLLTSNAGVIEK 521
Query: 237 FQTSMQTCKSYVEKIINNKSIYANLAKNGPRMIPAHVTPRIKCLHIVVKDRVTPAKPSKK 296
Q +M Y EK++N+ A +I + K + K
Sbjct: 522 EQINM-----YKEKMMNDS------ILRLQTWDEAVFREKILHIQTHEKFIRDSQEKPKP 570
Query: 297 KPKENEKANKKSK-KKLETDGNS 318
P + K K K L
Sbjct: 571 VPDKENKKLLCRKCKALACYTAD 593
>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 = 67.6 bits (166), Expect = 1e-13
Identities = 33/127 (25%), Positives = 58/127 (45%), Gaps = 12/127 (9%)
Query: 92 EYAWSHLKFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASM 151
+ K L ++L + G+ + ++F + + D L E S+
Sbjct: 25 VWVEESDKRSFLLDLLNAT-------GKDSLTLVFVETKKGADSLEDFLY-HEGYACTSI 76
Query: 152 FVGQSSGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQ 211
+Q++++E + +FR+G+ L+AT+V GLDI + VI FD + V
Sbjct: 77 H----GDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVH 132
Query: 212 RLGRTGR 218
R+GRTGR
Sbjct: 133 RIGRTGR 139
>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 = 71.0 bits (174), Expect = 1e-13
Identities = 35/132 (26%), Positives = 63/132 (47%), Gaps = 19/132 (14%)
Query: 99 KFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG 158
K +LREILE H K+IIF + +V I V ++S
Sbjct: 336 KIRKLREILERH--------RKDKIIIFTRHNELVYRISKVFL-------IPAITHRTS- 379
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
++E++EI++ FR G F ++++ V +EG+D+ + ++ + S + +QRLGR R
Sbjct: 380 --REEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILR 437
Query: 219 -KRNGRCVILLT 229
+ + +L
Sbjct: 438 PSKGKKEAVLYE 449
>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 = 67.3 bits (165), Expect = 3e-13
Identities = 36/139 (25%), Positives = 59/139 (42%), Gaps = 17/139 (12%)
Query: 119 ETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSS-----GVTQQEQKEIMKKFRA 173
+ ++F + EI L L G + ++Q E++ ++ FR
Sbjct: 30 SPDRAMVFTRTKAETEEIAQGLLRL----------GHPAQALHGDLSQGERERVLGAFRQ 79
Query: 174 GEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRK-RNGRCVILLTQGR 232
GE L+AT V GLDI ++DLV+ + R GRTGR R GR +LL R
Sbjct: 80 GEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRV-VLLYGPR 138
Query: 233 EAHNFQTSMQTCKSYVEKI 251
E + + + +++
Sbjct: 139 ERRDVEALERAVGRRFKRV 157
>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 = 66.1 bits (162), Expect = 4e-13
Identities = 26/154 (16%), Positives = 60/154 (38%), Gaps = 14/154 (9%)
Query: 99 KFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG 158
K +L ++L+ E +V+IF + +L A G
Sbjct: 18 KNRKLFDLLDVL--------EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI-----HRG 64
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
+ Q+E+ ++F+ + L+AT++ G+DI +++ +D + + R+ R GR
Sbjct: 65 MPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGR 124
Query: 219 -KRNGRCVILLTQGREAHNFQTSMQTCKSYVEKI 251
G + ++ +A + + ++
Sbjct: 125 FGTKGLAITFVSDENDAKILNDVQDRFEVNISEL 158
>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 = 66.7 bits (163), Expect = 1e-12
Identities = 37/136 (27%), Positives = 59/136 (43%), Gaps = 17/136 (12%)
Query: 122 KVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSS-----GVTQQEQKEIMKKFRAGEF 176
+ ++F + EI L L G + ++Q E++ +M FR GE
Sbjct: 30 RAMVFTRTKAETEEIAQGLLRL----------GHPAQALHGDMSQGERERVMGAFRQGEV 79
Query: 177 NTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRK-RNGRCVILLTQGREAH 235
L+AT V GLDI ++DLV+ + R GRTGR R GR +LL RE
Sbjct: 80 RVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRV-VLLYGPRERR 138
Query: 236 NFQTSMQTCKSYVEKI 251
+ + + +++
Sbjct: 139 DVEALERAVGRRFKRV 154
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 67.6 bits (166), Expect = 2e-12
Identities = 34/146 (23%), Positives = 56/146 (38%), Gaps = 29/146 (19%)
Query: 99 KFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG 158
K+ L E+ + IIF + EI M V +G
Sbjct: 344 KYNVLVELYGLL--------TIGQSIIFCKKKDTAEEI------ARRMTADGHTVACLTG 389
Query: 159 -VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKM-------- 209
+ ++ IM FR G L+ T+V G+D+ +++LV+ +D P+
Sbjct: 390 NLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDM---PLDQAGRPDPQT 446
Query: 210 -VQRLGRTGRK-RNGRCVILLTQGRE 233
+ R+GRTGR R G I ++
Sbjct: 447 YLHRIGRTGRFGRVGV-SINFVHDKK 471
>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 = 66.8 bits (164), Expect = 2e-12
Identities = 33/137 (24%), Positives = 66/137 (48%), Gaps = 7/137 (5%)
Query: 116 EKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGE 175
+ T+ +IF N + V + + ++ V + + Q+E++ IMK+FR+G
Sbjct: 272 DTLTITQAVIFCNTKRKVDWLTEKMREANFTVSSM-----HGDMPQKERESIMKEFRSGA 326
Query: 176 FNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRK-RNGRCVILLTQGREA 234
LI+T V GLD+ ++ L+I +D + + R+GR+GR R G I + +
Sbjct: 327 SRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGV-AINFVKNDDI 385
Query: 235 HNFQTSMQTCKSYVEKI 251
+ Q + ++++
Sbjct: 386 RILRDIEQYYSTQIDEM 402
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 64.2 bits (157), Expect = 2e-12
Identities = 40/127 (31%), Positives = 58/127 (45%), Gaps = 14/127 (11%)
Query: 92 EYAWSHLKFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASM 151
EY K + L E L+ V+IFA + V I + L L V+A
Sbjct: 35 EYVKEEAKMVYLLECLQKT---------PPPVLIFAEKKADVDAIHEYL--LLKGVEAVA 83
Query: 152 FVGQSSGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQ 211
G G Q+E+ + ++ FR G+ + L+AT V +GLD I VI +D + V
Sbjct: 84 IHG---GKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVH 140
Query: 212 RLGRTGR 218
R+GRTG
Sbjct: 141 RIGRTGC 147
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 63.3 bits (155), Expect = 3e-12
Identities = 36/120 (30%), Positives = 55/120 (45%), Gaps = 13/120 (10%)
Query: 99 KFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG 158
KF L+++L + IIF + V ++ D L L G
Sbjct: 22 KFSLLKDVLMTE--------NPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIH-----GG 68
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
+ Q+++ ++M +F+ GE+ L+AT V G+DI I LVI +D V R GRTGR
Sbjct: 69 MIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGR 128
>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 = 66.0 bits (162), Expect = 4e-12
Identities = 41/154 (26%), Positives = 71/154 (46%), Gaps = 15/154 (9%)
Query: 99 KFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG 158
K+ L ++ +S T+ +IF N R V E+ L+ + V A S
Sbjct: 246 KYECLTDLYDSI--------SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI-----YSD 292
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
+ QQE+ IMK+FR+G LI+T + G+D+ ++ LVI +D + + R+GR GR
Sbjct: 293 LPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGR 352
Query: 219 K-RNGRCVILLTQGREAHNFQTSMQTCKSYVEKI 251
R G I + + + + +E++
Sbjct: 353 FGRKGV-AINFVTNEDVGAMRELEKFYSTQIEEL 385
>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 = 66.1 bits (162), Expect = 4e-12
Identities = 26/154 (16%), Positives = 60/154 (38%), Gaps = 14/154 (9%)
Query: 99 KFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG 158
K +L ++L+ E +V+IF + +L A G
Sbjct: 237 KNRKLFDLLDVL--------EFNQVVIFVKSVQRCIALAQLLVEQNFPAIAI-----HRG 283
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
+ Q+E+ ++F+ + L+AT++ G+DI +++ +D + + R+ R GR
Sbjct: 284 MPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGR 343
Query: 219 K-RNGRCVILLTQGREAHNFQTSMQTCKSYVEKI 251
G + ++ +A + + ++
Sbjct: 344 FGTKGLAITFVSDENDAKILNDVQDRFEVNISEL 377
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 63.0 bits (154), Expect = 5e-12
Identities = 34/100 (34%), Positives = 53/100 (53%), Gaps = 5/100 (5%)
Query: 119 ETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNT 178
T+ +IF N R V E+ L+ + V A S + QQE+ IMK+FR+G
Sbjct: 29 SVTQAVIFCNTRRKVEELTTKLRNDKFTVSAI-----YSDLPQQERDTIMKEFRSGSSRI 83
Query: 179 LIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
LI+T + G+D+ ++ LVI +D + + R+GR GR
Sbjct: 84 LISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGR 123
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 65.3 bits (160), Expect = 7e-12
Identities = 32/129 (24%), Positives = 57/129 (44%), Gaps = 16/129 (12%)
Query: 92 EYAWSHLKFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASM 151
+ K L ++L + G+ + ++F + + D L
Sbjct: 255 VWVEESDKRSFLLDLLNAT-------GKDSLTLVFVETKKGADSLEDFLYHEG------- 300
Query: 152 FVGQS--SGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKM 209
+ S +Q++++E + +FR+G+ L+AT+V GLDI + VI FD +
Sbjct: 301 YACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEY 360
Query: 210 VQRLGRTGR 218
V R+GRTGR
Sbjct: 361 VHRIGRTGR 369
>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 = 64.9 bits (159), Expect = 1e-11
Identities = 34/137 (24%), Positives = 62/137 (45%), Gaps = 7/137 (5%)
Query: 116 EKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGE 175
E T+ +IF N R V + + + + V A + Q+E+ IM++FR+G
Sbjct: 276 ETLTITQAVIFINTRRKVDWLTEKMHARDFTVSAM-----HGDMDQKERDVIMREFRSGS 330
Query: 176 FNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRK-RNGRCVILLTQGREA 234
LI T + G+D+ ++ LVI +D + + R+GR GR R G I + +
Sbjct: 331 SRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGV-AINMVTEEDK 389
Query: 235 HNFQTSMQTCKSYVEKI 251
+ + +E++
Sbjct: 390 RTLRDIETFYNTSIEEM 406
>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 = 64.4 bits (157), Expect = 2e-11
Identities = 28/119 (23%), Positives = 52/119 (43%), Gaps = 5/119 (4%)
Query: 114 HAEKGETTKVIIFANYRVVVAEIFDVLK-PLEPMVKASMFVGQSSGVTQQEQKEIMKKFR 172
E+ K IIFA + + +LK + + F G+ + Q ++ ++K+F+
Sbjct: 333 IKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKIT---QNKRTSLVKRFK 389
Query: 173 AGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRK-RNGRCVILLTQ 230
E L+ T VG G+D + V+ + R+GRT R + G V+ + +
Sbjct: 390 KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICK 448
>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 = 63.0 bits (154), Expect = 4e-11
Identities = 36/150 (24%), Positives = 65/150 (43%), Gaps = 7/150 (4%)
Query: 116 EKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGE 175
K + + IIF N V + + L S + + QQE+ ++ +FR G+
Sbjct: 254 SKLQINQAIIFCNSTNRVELLAKKITDLGYSCYYS-----HARMKQQERNKVFHEFRQGK 308
Query: 176 FNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRK-RNGRCVILLTQGREA 234
TL+ + + G+DI +++VI FD K+ + R+GR+GR G + L+ +
Sbjct: 309 VRTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLIN-WNDR 367
Query: 235 HNFQTSMQTCKSYVEKIINNKSIYANLAKN 264
N Q + + I +A+N
Sbjct: 368 FNLYKIEQELGTEIAAIPATIDKSLYVAEN 397
>2rb4_A ATP-dependent RNA helicase DDX25; rossmann fold, structural
genomics, structural consortium, SGC, alternative
initiation, ATP-binding, devel protein; 2.80A {Homo
sapiens}
Length = 175
Score = 60.3 bits (147), Expect = 4e-11
Identities = 26/104 (25%), Positives = 47/104 (45%), Gaps = 11/104 (10%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLI 180
+ IIF R + + V S +T +++ I+++FR G+ LI
Sbjct: 35 GQAIIFCQTRRNAKWLTVEMIQDGHQVSLL-----SGELTVEQRASIIQRFRDGKEKVLI 89
Query: 181 ATSVGEEGLDIGEIDLVICFD------AQKSPIKMVQRLGRTGR 218
T+V G+D+ ++ +V+ FD + + R+GRTGR
Sbjct: 90 TTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGR 133
>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 = 62.5 bits (152), Expect = 7e-11
Identities = 29/118 (24%), Positives = 52/118 (44%), Gaps = 5/118 (4%)
Query: 114 HAEKGETTKVIIFANYRVVVAEIFDVLK-PLEPMVKASMFVGQSSGVTQQEQKEIMKKFR 172
E+ K IIFA + + +LK + + F G+ +TQ ++ ++K+F+
Sbjct: 282 IKERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGK---ITQNKRTSLVKRFK 338
Query: 173 AGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRK-RNGRCVILLT 229
E L+ T VG G+D + V+ + R+GRT R + G V+ +
Sbjct: 339 KDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFIC 396
>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 = 61.4 bits (150), Expect = 1e-10
Identities = 32/155 (20%), Positives = 72/155 (46%), Gaps = 18/155 (11%)
Query: 99 KFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG 158
+F L +L++ + ++F + E+ +L+ G G
Sbjct: 226 RFEALCRLLKN---------KEFYGLVFCKTKRDTKELASMLR------DIGFKAGAIHG 270
Query: 159 -VTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTG 217
++Q +++++++ F+ + LIAT V G+D+ +++ VI + ++P + R+GRTG
Sbjct: 271 DLSQSQREKVIRLFKQKKIRILIATDVMSRGIDVNDLNCVINYHLPQNPESYMHRIGRTG 330
Query: 218 RK-RNGRCVILLTQGREAHNFQTSMQTCKSYVEKI 251
R + G+ I + RE + + K ++K+
Sbjct: 331 RAGKKGKA-ISIINRREYKKLRYIERAMKLKIKKL 364
>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 = 61.4 bits (150), Expect = 1e-10
Identities = 38/140 (27%), Positives = 54/140 (38%), Gaps = 19/140 (13%)
Query: 99 KFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQS-- 156
K +L EIL + I+F + + L E F S
Sbjct: 288 KRSKLIEILSE---------QADGTIVFVETKRGADFLASFLSEKE-------FPTTSIH 331
Query: 157 SGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRT 216
Q ++++ ++ F+ G LIATSV GLDI I VI +D V R+GRT
Sbjct: 332 GDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRT 391
Query: 217 GRKRN-GRCVILLTQGREAH 235
GR N GR ++
Sbjct: 392 GRVGNNGRATSFFDPEKDRA 411
>3dmq_A RNA polymerase-associated protein RAPA; SWF2/SNF2, transcription
factor, RNA polymerase recycling, activator,
ATP-binding, DNA-binding; 3.20A {Escherichia coli K12}
Length = 968
Score = 60.9 bits (147), Expect = 3e-10
Identities = 32/203 (15%), Positives = 77/203 (37%), Gaps = 19/203 (9%)
Query: 34 SLASALENLVTYGLRSFYNNLVEVSKEDGSCPILGKDNDLQNLLQQLKPKLDINIMSSEY 93
+ + L + Y ++VS G+ ++ +++L + + ++ +
Sbjct: 427 GFPKRELHTIKLPLPTQYQTAIKVSGIMGA--RKSAEDRARDMLYPERIYQEFEGDNATW 484
Query: 94 AWSHLKFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFV 153
+ L L SH + KV++ ++ VL+ E + +A++F
Sbjct: 485 WNFDPRVEWLMGYLTSH--------RSQKVLVICAKAATALQLEQVLREREGI-RAAVFH 535
Query: 154 GQSSGVTQQEQKEIMKKFRAGE--FNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQ 211
G++ E+ F + L+ + +G EG + ++ FD +P + Q
Sbjct: 536 E---GMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDLPFNPDLLEQ 592
Query: 212 RLGRT---GRKRNGRCVILLTQG 231
R+GR G+ + + + +
Sbjct: 593 RIGRLDRIGQAHDIQIHVPYLEK 615
>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 = 60.3 bits (147), Expect = 3e-10
Identities = 25/105 (23%), Positives = 49/105 (46%), Gaps = 13/105 (12%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG-VTQQEQKEIMKKFRAGEFNTL 179
+ +IF + R + + + K V SG + +++ ++++FR G+ L
Sbjct: 267 AQAMIFCHTRKTASWLA------AELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVL 320
Query: 180 IATSVGEEGLDIGEIDLVICFDAQKSPIKM------VQRLGRTGR 218
+ T+V G+D+ ++ +VI FD + R+GRTGR
Sbjct: 321 VTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 365
>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 = 59.6 bits (145), Expect = 6e-10
Identities = 25/105 (23%), Positives = 49/105 (46%), Gaps = 13/105 (12%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG-VTQQEQKEIMKKFRAGEFNTL 179
+ +IF + R + + + K V SG + +++ ++++FR G+ L
Sbjct: 334 AQAMIFCHTRKTASWLA------AELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVL 387
Query: 180 IATSVGEEGLDIGEIDLVICFDAQKSPIKM------VQRLGRTGR 218
+ T+V G+D+ ++ +VI FD + R+GRTGR
Sbjct: 388 VTTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGR 432
>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 = 59.1 bits (144), Expect = 7e-10
Identities = 25/105 (23%), Positives = 40/105 (38%), Gaps = 13/105 (12%)
Query: 121 TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG-VTQQEQKEIMKKFRAGEFNTL 179
IIF + + + V G + QE+ ++ FR G L
Sbjct: 244 GSSIIFVATKKTANVL------YGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSKVL 297
Query: 180 IATSVGEEGLDIGEIDLVICFDAQKSPIKM------VQRLGRTGR 218
I T+V G+DI + +V+ +D + R+GRTGR
Sbjct: 298 ITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGR 342
>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 = 55.3 bits (134), Expect = 2e-09
Identities = 21/59 (35%), Positives = 32/59 (54%)
Query: 160 TQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGR 218
Q ++ E +K+ G N L+AT V G+DI ++ V FD +S + R+GRT R
Sbjct: 65 VQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTAR 123
>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 = 57.4 bits (138), Expect = 5e-09
Identities = 55/300 (18%), Positives = 94/300 (31%), Gaps = 115/300 (38%)
Query: 1 MLAKDKYVKSKAQFPHINRDL-DRMIQRDFHVTHSLASALENLVT---------YG---- 46
M D Y SKA +D+ +R D H + ++ ++V +G
Sbjct: 1631 M-GMDLYKTSKAA-----QDVWNRA---DNHFKDTYGFSILDIVINNPVNLTIHFGGEKG 1681
Query: 47 --LRSFYNNLVEVSKEDGSCPILGKDNDLQNLLQQLKPKLDINIMSSEYAWSHLKFIRLR 104
+R Y+ ++ + DG L+ K +IN S+ Y + K
Sbjct: 1682 KRIRENYSAMIFETIVDGK-------------LKTEKIFKEINEHSTSYTFRSEK----- 1723
Query: 105 EILESHFRLHAEKGET--TKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQ 162
+L T T+ + + A F+ LK + + F G S
Sbjct: 1724 GLLS----------ATQFTQPALTL---MEKA-AFEDLKSKGLIPADATFAGHS------ 1763
Query: 163 EQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICF-DAQKSPIKMV-QRLGRT---- 216
GE+ L + + V+ +++V R G T
Sbjct: 1764 ----------LGEYAALASLA-D-----------VMSIESL----VEVVFYR-GMTMQVA 1796
Query: 217 ------GRKRNGRCVILLTQGREAHNFQTSMQTCKSYVEKIINNK----SIYANLAKNGP 266
GR G +I + GR A +F S + + VE++ I N N
Sbjct: 1797 VPRDELGRSNYG--MIAINPGRVAASF--SQEALQYVVERVGKRTGWLVEI-VNY--NVE 1849
Score = 44.7 bits (105), Expect = 5e-05
Identities = 68/447 (15%), Positives = 129/447 (28%), Gaps = 169/447 (37%)
Query: 7 YVKSKAQFPHINRDLDRMIQ---RDFHVT-------HSLASALENLVTYG-------LRS 49
YV S + P D+++ +F H+LA+ L +++
Sbjct: 67 YVSSLVE-PSKVGQFDQVLNLCLTEFENCYLEGNDIHALAAKLLQENDTTLVKTKELIKN 125
Query: 50 FYNNLVEVSK--------------EDGSCPIL------GKDND----LQNLLQQLKPKLD 85
+ + + +G+ ++ G +D L++L Q +
Sbjct: 126 YITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGGQGNTDDYFEELRDLYQTYHVLVG 185
Query: 86 INIMSSEYAWSHLK-FIRLREILESHFR----LHA--EKGETTK------------VII- 125
I +++ L IR E F + E T +I
Sbjct: 186 DLI---KFSAETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKDYLLSIPISCPLIG 242
Query: 126 ---FANYRVVVAEIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLIAT 182
A+Y VV A++ P E G T Q + A IA
Sbjct: 243 VIQLAHY-VVTAKLLG-FTPGE-------LRSYLKGATGHSQGLVT----A----VAIAE 285
Query: 183 SVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRKRNGRCVI--LLTQGREAHNFQ-- 238
+ E F + + I ++ +G + + + + +N
Sbjct: 286 TDSWESF----------FVSVRKAITVLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVP 335
Query: 239 TSMQTCKSY----VEKIIN--------NKSIYANLAKNGPRMIPAHVTPRIKCLHIVVKD 286
+ M + + V+ +N K + +L NG + ++VV
Sbjct: 336 SPMLSISNLTQEQVQDYVNKTNSHLPAGKQVEISL-VNGAK-------------NLVV-- 379
Query: 287 RVTPAKPSKKKPKENEKANKKSKKKLETDGNSEPAGKQNKTNAKKTKKQPMMTQSNDIRT 346
+ P P +S L +K K + QS R
Sbjct: 380 ----SGP----P--------QSLYGL-------------NLTLRKAKAPSGLDQS---RI 407
Query: 347 CFENITKKKKTFID-FLTQSSGEPVSA 372
F +++K F + FL PV++
Sbjct: 408 PF---SERKLKFSNRFL------PVAS 425
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 56.3 bits (136), Expect = 7e-09
Identities = 31/138 (22%), Positives = 50/138 (36%), Gaps = 29/138 (21%)
Query: 99 KFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG 158
K + L EI ++IFA E+++ LK + G
Sbjct: 243 KLVELLEIFRD------------GILIFAQTEEEGKELYEYLK----------RFKFNVG 280
Query: 159 VTQQEQKEIMKKFRAGEFNTLIATSVGEE----GLDIGE-IDLVICFDA--QKSPIKMVQ 211
T E ++ + F+ G+ N LI G+D+ E I VI + +Q
Sbjct: 281 ETWSEFEKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQ 340
Query: 212 RLGRTGRKRNGRCVILLT 229
GR+ R NG V ++
Sbjct: 341 ASGRSSRILNGVLVKGVS 358
Score = 27.8 bits (62), Expect = 6.7
Identities = 5/27 (18%), Positives = 17/27 (62%)
Query: 157 SGVTQQEQKEIMKKFRAGEFNTLIATS 183
S + ++E+++ K F +++ L+ ++
Sbjct: 99 SSMKKEEKEKFEKSFEEDDYHILVFST 125
>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 = 55.2 bits (134), Expect = 1e-08
Identities = 33/116 (28%), Positives = 52/116 (44%), Gaps = 12/116 (10%)
Query: 116 EKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG-VTQQEQKEIMKKFRAG 174
+ + VI+F R VA++ + + G + Q + + FR G
Sbjct: 216 RENKDKGVIVFVRTRNRVAKLVRLFDNAIEL----------RGDLPQSVRNRNIDAFREG 265
Query: 175 EFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRK-RNGRCVILLT 229
E++ LI T V GLDI ++ VI FDA + + R+GRTGR R G + +
Sbjct: 266 EYDMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFIL 321
>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 = 45/280 (16%), Positives = 84/280 (30%), Gaps = 72/280 (25%)
Query: 13 QFPHINRD-LDRMIQRDFHVTHSLASALENLVTYGLRSFYNNLVEVSKEDGSCP-----I 66
+ H+N D L +I+ S+L L R ++ L V P +
Sbjct: 346 NWKHVNCDKLTTIIE----------SSLNVLEPAEYRKMFDRLS-VFPPSAHIPTILLSL 394
Query: 67 L---GKDNDLQNLLQQLKPKLDINIMSSEYAWS-HLKFIRLREILESHFRLHAEKGETTK 122
+ +D+ ++ +L + E S ++ L+ LE+ + LH +
Sbjct: 395 IWFDVIKSDVMVVVNKLHKYSLVEKQPKESTISIPSIYLELKVKLENEYALH-------R 447
Query: 123 VIIFANYRVVVA-EIFDVLKPLEPMVKASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLIA 181
I+ +Y + + D++ P S +G + ++ F +
Sbjct: 448 SIV-DHYNIPKTFDSDDLIPPYLDQYFYS-HIGHHLKNIEHPER-------MTLFRMVF- 497
Query: 182 TSVGEEGLDIGEIDLVICFDAQKSPIKMVQRLGRTGRKRNGRCVILLTQGREAHNFQTSM 241
LD F + Q++ N IL T +
Sbjct: 498 -------LDFR-------F--------LEQKIRHDSTAWNASGSILNT-----------L 524
Query: 242 QTCKSYVEKIINNKSIYANLAKNGPRMIPAHVTPRIKCLH 281
Q K Y I +N Y L +P I +
Sbjct: 525 QQLKFYKPYICDNDPKYERLVNAILDFLPKIEENLICSKY 564
Score = 44.1 bits (103), Expect = 6e-05
Identities = 57/361 (15%), Positives = 113/361 (31%), Gaps = 85/361 (23%)
Query: 6 KYVKSKAQFPHINRDLDRMIQRDFHVTHSLASALENLVTY----GLRSFYNNLVEVSKED 61
K + SK + HI D + + +L S E +V LR Y L+ K +
Sbjct: 43 KSILSKEEIDHIIMSKDA-VSGTLRLFWTLLSKQEEMVQKFVEEVLRINYKFLMSPIKTE 101
Query: 62 GSCPILGKD------NDLQNLLQQLKPKLDINIMSSEYAWSHLKFIRLREILESHFRLHA 115
P + + L N Q K +++ + +++LR+ L L
Sbjct: 102 QRQPSMMTRMYIEQRDRLYNDNQVF-AKYNVSRLQ--------PYLKLRQALL---ELRP 149
Query: 116 EK----------GETTKVI-IFANYRVVVA---EIF-----------DVLKPLEPM---V 147
K G+T + + +Y+V +IF VL+ L+ + +
Sbjct: 150 AKNVLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQI 209
Query: 148 KASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPI 207
+ + + ++ E L+ + E L + + V ++
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQA----ELRRLLKSKPYENCLLV--LLNV------QNA- 256
Query: 208 KMVQRLGRTGRKRNGRCVILL-TQGREAHNFQTSMQTCKSYVEKII------NNKSIYAN 260
K N C ILL T+ ++ +F ++ T ++ KS+
Sbjct: 257 KAWNAF-------NLSCKILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLK 309
Query: 261 LAKNGPRMIPAHVTPRIKCLHI-----VVKDRVTPAKPSKKKPKEN-EKANKKSKKKLET 314
P+ +P + ++D + K + + S LE
Sbjct: 310 YLDCRPQDLP-REVLTTNPRRLSIIAESIRDGLATWDNWKHVNCDKLTTIIESSLNVLEP 368
Query: 315 D 315
Sbjct: 369 A 369
>2d7d_A Uvrabc system protein B; helicase, protein-DNA-ADP ternary complex,
hydrolase/DNA complex; HET: ADP; 2.10A {Bacillus
subtilis} PDB: 2nmv_A* 2fdc_A* 1t5l_A 3uwx_B 1d9z_A*
1d9x_A 2d7d_B* 2nmv_B*
Length = 661
Score = 46.8 bits (112), Expect = 8e-06
Identities = 26/70 (37%), Positives = 40/70 (57%), Gaps = 6/70 (8%)
Query: 163 EQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQK-----SPIKMVQRLGRTG 217
E+ EI++ R G+++ L+ ++ EGLDI E+ LV DA K S ++Q +GR
Sbjct: 483 ERIEIIRDLRLGKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAA 542
Query: 218 RKRNGRCVIL 227
R GR VI+
Sbjct: 543 RNAEGR-VIM 551
>1c4o_A DNA nucleotide excision repair enzyme UVRB; uvrabc, helicase,
hypertherm protein, replication; HET: DNA BOG; 1.50A
{Thermus thermophilus} SCOP: c.37.1.19 c.37.1.19 PDB:
1d2m_A*
Length = 664
Score = 46.4 bits (111), Expect = 1e-05
Identities = 22/70 (31%), Positives = 37/70 (52%), Gaps = 6/70 (8%)
Query: 163 EQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQK-----SPIKMVQRLGRTG 217
+++ +++ R G ++ L+ ++ EGLDI E+ LV DA K S ++Q +GR
Sbjct: 477 KRQALIRDLRLGHYDCLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAA 536
Query: 218 RKRNGRCVIL 227
R G V L
Sbjct: 537 RNARGE-VWL 545
>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 = 46.2 bits (109), Expect = 1e-05
Identities = 22/108 (20%), Positives = 30/108 (27%), Gaps = 29/108 (26%)
Query: 157 SGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVI--------CFDAQKSPIK 208
G+ I ++AT G D VI D P
Sbjct: 428 RGLDVSVIPTIGDVV-------VVATDALMTGYTGD-FDSVIDCNTCVTQTVDFSLDPTF 479
Query: 209 MV-------------QRLGRTGRKRNGRCVILLTQGREAHNFQTSMQT 243
+ QR GRTGR R G + R + F +S+
Sbjct: 480 TIETTTVPQDAVSRSQRRGRTGRGRRGIYRFVTPGERPSGMFDSSVLC 527
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 43.0 bits (100), Expect = 1e-04
Identities = 25/135 (18%), Positives = 48/135 (35%), Gaps = 9/135 (6%)
Query: 89 MSSEYAWSHLKFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVK 148
E R + I + +L + + + IFD++K V
Sbjct: 319 YQEEIKIITGLSKRNKWIAKLAIKLAQKDE---NAFVMFKHVSHGKAIFDLIKNEYDKV- 374
Query: 149 ASMFVGQSSGVTQQEQKEIMKKFRAGEFNTLIAT-SVGEEGLDIGEIDLVICFDAQKSPI 207
+V S V + + + G+ ++A+ V G+ + + V+ KS I
Sbjct: 375 --YYV--SGEVDTETRNIMKTLAENGKGIIIVASYGVFSTGISVKNLHHVVLAHGVKSKI 430
Query: 208 KMVQRLGRTGRKRNG 222
++Q +GR RK
Sbjct: 431 IVLQTIGRVLRKHGS 445
>3h1t_A Type I site-specific restriction-modification system, R
(restriction) subunit; hydrolase, restriction enzyme
HSDR, ATP-binding; 2.30A {Vibrio vulnificus}
Length = 590
Score = 41.7 bits (98), Expect = 4e-04
Identities = 21/123 (17%), Positives = 40/123 (32%), Gaps = 13/123 (10%)
Query: 102 RLREILESHFRLHAEKGETTKVIIF------ANYRVVVAEIFDVLKPLEPMVKASMFVGQ 155
R + K I+F A+ + + L + K +V +
Sbjct: 421 RTDAFAKHLTDFMKRTDRFAKTIVFCVDQEHADE---MRRALNNLNS-DLSRKHPDYVAR 476
Query: 156 SSGVTQQEQKEIMKKFRAGEFNTL-IATSVG--EEGLDIGEIDLVICFDAQKSPIKMVQR 212
+ + K + +F+ E +T I T+ G+D V+ S + Q
Sbjct: 477 VTSEEGKIGKGHLSRFQELETSTPVILTTSQLLTTGVDAPTCKNVVLARVVNSMSEFKQI 536
Query: 213 LGR 215
+GR
Sbjct: 537 VGR 539
>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 = 40.7 bits (95), Expect = 7e-04
Identities = 14/79 (17%), Positives = 20/79 (25%), Gaps = 21/79 (26%)
Query: 180 IATSVGEEGLDIGEIDLVICFDAQKSPIK--------------------MVQRLGRTGRK 219
+ T + E G + VI P+ QR GR GR
Sbjct: 406 VTTDISEMGANFR-AGRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGRN 464
Query: 220 RNGRCVILLTQGREAHNFQ 238
+ G N +
Sbjct: 465 PAQEDDQYVFSGDPLKNDE 483
>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 = 40.2 bits (94), Expect = 0.001
Identities = 14/79 (17%), Positives = 20/79 (25%), Gaps = 21/79 (26%)
Query: 180 IATSVGEEGLDIGEIDLVICFDAQKSPIK--------------------MVQRLGRTGRK 219
+ T + E G + VI P+ QR GR GR
Sbjct: 239 VTTDISEMGANFR-AGRVIDPRRCLKPVILTDGPERVILAGPIPVTPASAAQRRGRIGRN 297
Query: 220 RNGRCVILLTQGREAHNFQ 238
+ G N +
Sbjct: 298 PAQEDDQYVFSGDPLKNDE 316
>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 = 38.3 bits (89), Expect = 0.003
Identities = 14/94 (14%), Positives = 29/94 (30%), Gaps = 20/94 (21%)
Query: 162 QEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQKSPIK------------- 208
+ + + + + ++AT + E G ++ ++ V+ P+
Sbjct: 210 KTFEREYPTIKQKKPDFILATDIAEMGANLC-VERVLDCRTAFKPVLVDEGRKVAIKGPL 268
Query: 209 ------MVQRLGRTGRKRNGRCVILLTQGREAHN 236
QR GR GR N + N
Sbjct: 269 RISASSAAQRRGRIGRNPNRDGDSYYYSEPTSEN 302
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A
{Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19
c.37.1.19
Length = 780
Score = 36.1 bits (84), Expect = 0.019
Identities = 10/30 (33%), Positives = 21/30 (70%)
Query: 162 QEQKEIMKKFRAGEFNTLIATSVGEEGLDI 191
+E+ +M +F G ++ L++T+V E G+D+
Sbjct: 626 EEKDRVMLEFAEGRYDILVSTTVIEVGIDV 655
>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 = 35.3 bits (81), Expect = 0.032
Identities = 18/95 (18%), Positives = 30/95 (31%), Gaps = 21/95 (22%)
Query: 162 QEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVI----------CFDA-------QK 204
+ K + G+++ +I T + E G + G VI +
Sbjct: 443 KSYDTEYPKCKNGDWDFVITTDISEMGANFG-ASRVIDCRKSVKPTILDEGEGRVILSVP 501
Query: 205 SPI---KMVQRLGRTGRKRNGRCVILLTQGREAHN 236
S I QR GR GR + G + +
Sbjct: 502 SAITSASAAQRRGRVGRNPSQIGDEYHYGGGTSED 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 = 35.2 bits (81), Expect = 0.038
Identities = 15/79 (18%), Positives = 24/79 (30%), Gaps = 21/79 (26%)
Query: 180 IATSVGEEGLDIGEIDLVICF-------DAQKSPIKMV-------------QRLGRTGRK 219
I T + E G + G VI ++ +++ QR GR GR
Sbjct: 241 ITTDISEMGANFG-ASRVIDCRKSVKPTILEEGEGRVILGNPSPITSASAAQRRGRVGRN 299
Query: 220 RNGRCVILLTQGREAHNFQ 238
N G + +
Sbjct: 300 PNQVGDEYHYGGATSEDDS 318
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 34.0 bits (78), Expect = 0.077
Identities = 16/76 (21%), Positives = 21/76 (27%), Gaps = 18/76 (23%)
Query: 180 IATSVGEEGLDIGEIDLVIC-------FDA-------QKSPI---KMVQRLGRTGRKRNG 222
I T + E G + D VI I QR GR GR
Sbjct: 222 ITTDISEMGANFK-ADRVIDPRKTIKPILLDGRVSMQGPIAITPASAAQRRGRIGRNPEK 280
Query: 223 RCVILLTQGREAHNFQ 238
I G + + +
Sbjct: 281 LGDIYAYSGNVSSDNE 296
>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase,
hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP:
b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19
d.315.1.1
Length = 1151
Score = 33.1 bits (76), Expect = 0.19
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 166 EIMKKFRAGEFNTLIATSVGEEGLDI 191
+M F FN L+ T++ E G+DI
Sbjct: 855 RVMNDFHHQRFNVLVCTTIIETGIDI 880
>1x9n_A DNA ligase I; 5'-adenylated nicked DNA, protein-DNA complex, L
complex; HET: DNA DOC AMP; 3.00A {Homo sapiens} SCOP:
a.235.1.1 b.40.4.6 d.142.2.1
Length = 688
Score = 33.0 bits (75), Expect = 0.21
Identities = 18/115 (15%), Positives = 34/115 (29%), Gaps = 10/115 (8%)
Query: 288 VTPAKPSKKKPKENEKANKKSKKKLETDGNSEPAGKQNKTNAKKTKKQPMMTQSN----D 343
+TP KP+ KK + E+ K+ K N +
Sbjct: 1 MTPRKPAVKKEVKEEEPGAPGKEGAAEGPLDPSGYNPAKNNYHPVEDACWKPGQKVPYLA 60
Query: 344 IRTCFENI------TKKKKTFIDFLTQSSGEPVSAMDDEVVIVQNKIKPMQRKRK 392
+ FE I + +T + L + + + N + P Q+ +
Sbjct: 61 VARTFEKIEEVSARLRMVETLSNLLRSVVALSPPDLLPVLYLSLNHLGPPQQGLE 115
>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 = 31.5 bits (70), Expect = 0.21
Identities = 7/21 (33%), Positives = 11/21 (52%), Gaps = 5/21 (23%)
Query: 306 KKSKKKLETD-----GNSEPA 321
K++ KKL+ +S PA
Sbjct: 19 KQALKKLQASLKLYADDSAPA 39
Score = 26.8 bits (58), Expect = 9.2
Identities = 6/27 (22%), Positives = 11/27 (40%), Gaps = 6/27 (22%)
Query: 245 KSYVEKIINNKSIYANLAKNGPRMIPA 271
K ++K+ + +YA PA
Sbjct: 19 KQALKKLQASLKLYA------DDSAPA 39
>2gen_A Probable transcriptional regulator; APC6095, TETR family,
structural genomics, PSI, protein structure initiative;
1.70A {Pseudomonas aeruginosa PAO1} SCOP: a.4.1.9
a.121.1.1
Length = 197
Score = 31.6 bits (72), Expect = 0.29
Identities = 7/85 (8%), Positives = 24/85 (28%), Gaps = 24/85 (28%)
Query: 102 RLREILESHFRLHAEKGETTKVII------------------FANYRVVVAEIFD----- 138
+R ++ S+ + + I+ + +
Sbjct: 83 TVRLLVTSYIDWVVANPDWARFILHSRGRVEAGELGERLRADNQAHFARIHAALAGYRAE 142
Query: 139 -VLKPLEPMVKASMFVGQSSGVTQQ 162
+ + + AS+ +G + + +Q
Sbjct: 143 GLFREMPDDCFASVVIGPAHDLARQ 167
>3hgt_A HDA1 complex subunit 3; RECA-like domain, SWI2/SNF2 helical domain,
chromatin regulator, coiled coil, nucleus, repressor,
transcription; 2.20A {Saccharomyces cerevisiae} PDB:
3hgq_A
Length = 328
Score = 31.1 bits (70), Expect = 0.54
Identities = 19/140 (13%), Positives = 43/140 (30%), Gaps = 19/140 (13%)
Query: 99 KFIRLREILESHFRLHAEKGETTKVIIFANYRVVVAEIFDVLKPLEPMVKASMFVGQSSG 158
KF LR+++ + T+ I D+L+ L ++ + + + G
Sbjct: 110 KFSVLRDLINLV------QEYETETAIVCRP----GRTMDLLEAL--LLGNKVHIKRYDG 157
Query: 159 VTQQEQKEI-MKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFD----AQKSPIKMVQRL 213
+ + F++ D++IC D + I+ + +
Sbjct: 158 HSIKSAAAANDFSCTVHLFSSEGINFTKYPIKSKARFDMLICLDTTVDTSQKDIQYLLQY 217
Query: 214 GRTGRKRNGRCVI--LLTQG 231
R + I L+
Sbjct: 218 KRERKGLERYAPIVRLVAIN 237
>1kxf_A Sindbis virus capsid protein; chymotrypsin-like serine proteinase,
wild type, viral protein; 2.38A {Sindbis virus} SCOP:
b.47.1.3 PDB: 1ld4_A 3j0f_A
Length = 264
Score = 30.9 bits (69), Expect = 0.65
Identities = 12/76 (15%), Positives = 24/76 (31%), Gaps = 4/76 (5%)
Query: 266 PRMIPAHVTPRIKCLHIVVK----DRVTPAKPSKKKPKENEKANKKSKKKLETDGNSEPA 321
P + +I+ L V + T + + +P +K + +
Sbjct: 31 PMPARNGLASQIQQLTTAVSALVIGQATRPQNPRPRPPPRQKKQAPKQPPKPKKPKPQEK 90
Query: 322 GKQNKTNAKKTKKQPM 337
K+ K K+Q M
Sbjct: 91 KKKQPAKTKPGKRQRM 106
>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 = 30.5 bits (69), Expect = 0.95
Identities = 20/93 (21%), Positives = 36/93 (38%), Gaps = 12/93 (12%)
Query: 157 SGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVI-----CFDAQKSPIK--- 208
+G+ +++ + FR G ++AT G+++ VI FD IK
Sbjct: 304 AGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNL-PARRVIVRSLYRFDGYSKRIKVSE 362
Query: 209 ---MVQRLGRTGRKRNGRCVILLTQGREAHNFQ 238
M R GR G G +I++ + +
Sbjct: 363 YKQMAGRAGRPGMDERGEAIIIVGKRDREIAVK 395
>3ppb_A Putative TETR family transcription regulator; DNA-binding,
helix-turn-helix motif, HTH motif, DNA/RNA-BIND helical
bundle fold; HET: MSE PG4; 2.10A {Shewanella loihica}
Length = 195
Score = 28.5 bits (64), Expect = 2.9
Identities = 6/82 (7%), Positives = 13/82 (15%), Gaps = 22/82 (26%)
Query: 102 RLREILESHFRLHAEKGETTKVIIFA----------------NYRVVVAEIFD------V 139
++ + +AE+
Sbjct: 85 DAEQLWFAALTWAMANPLKQAFFQLYSMSPTVEQSVRDQAMHGILGFIAELIRQGQASGE 144
Query: 140 LKPLEPMVKASMFVGQSSGVTQ 161
L + GQ T+
Sbjct: 145 LAEYPIELMQDNCHGQYLAATR 166
>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 = 28.3 bits (63), Expect = 5.5
Identities = 19/94 (20%), Positives = 33/94 (35%), Gaps = 13/94 (13%)
Query: 157 SGVTQQEQKEIMKKFRAGEFNTLIATSVGEEGLDIGEIDLVICFDAQK------SPIK-- 208
+G+ + E+ + + FR G ++AT G++ VI D + I
Sbjct: 302 AGLGRDERVLVEENFRKGIIKAVVATPTLSAGINT-PAFRVIIRDIWRYSDFGMERIPII 360
Query: 209 ----MVQRLGRTGRKRNGRCVILLTQGREAHNFQ 238
M+ R GR G +I+ T
Sbjct: 361 EVHQMLGRAGRPKYDEVGEGIIVSTSDDPREVMN 394
Database: pdb70
Posted date: Sep 4, 2012 3:40 AM
Number of letters in database: 6,701,793
Number of sequences in database: 27,921
Lambda K H
0.316 0.132 0.369
Gapped
Lambda K H
0.267 0.0443 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 5,645,411
Number of extensions: 328441
Number of successful extensions: 901
Number of sequences better than 10.0: 1
Number of HSP's gapped: 850
Number of HSP's successfully gapped: 81
Length of query: 395
Length of database: 6,701,793
Length adjustment: 96
Effective length of query: 299
Effective length of database: 4,021,377
Effective search space: 1202391723
Effective search space used: 1202391723
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 58 (26.8 bits)