RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy9509
(231 letters)
>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 = 136 bits (345), Expect = 1e-37
Identities = 43/212 (20%), Positives = 83/212 (39%), Gaps = 23/212 (10%)
Query: 20 PSRPQRLLFSATLSHDPEKLHQLSLFQPKLFTSVVEPAGTGDTQPTSSEAGADNLSSGFI 79
+ LLFSATL +KL + + + + + + +
Sbjct: 262 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEA--------HERIDQSVV 313
Query: 80 GKFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNV 139
+E + Q+ + + + F T + L +L +
Sbjct: 314 -----ISEKFANSIFA---AVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKK 365
Query: 140 ATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYE 199
+ I E + + ++R +++ F++ + ++V +D ARG+D N+ V+
Sbjct: 366 -------DLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIG 418
Query: 200 APDNIKKYIHRIGRTARGGRQGTSVTLVTTHE 231
P + YIHRIGRTAR G++G+SV + E
Sbjct: 419 VPSELANYIHRIGRTARSGKEGSSVLFICKDE 450
>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 = 133 bits (336), Expect = 3e-36
Identities = 43/212 (20%), Positives = 83/212 (39%), Gaps = 23/212 (10%)
Query: 20 PSRPQRLLFSATLSHDPEKLHQLSLFQPKLFTSVVEPAGTGDTQPTSSEAGADNLSSGFI 79
+ LLFSATL +KL + + + + + + +
Sbjct: 211 ADNIKTLLFSATLDDKVQKLANNIMNKKECLFLDTVDKNEPEA--------HERIDQSVV 262
Query: 80 GKFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNV 139
+E + Q+ + + + F T + L +L +
Sbjct: 263 -----ISEKFANSIFA---AVEHIKKQIKERDSNYKAIIFAPTVKFTSFLCSILKNEFKK 314
Query: 140 ATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYE 199
+ I E + + ++R +++ F++ + ++V +D ARG+D N+ V+
Sbjct: 315 -------DLPILEFHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIG 367
Query: 200 APDNIKKYIHRIGRTARGGRQGTSVTLVTTHE 231
P + YIHRIGRTAR G++G+SV + E
Sbjct: 368 VPSELANYIHRIGRTARSGKEGSSVLFICKDE 399
>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 = 115 bits (290), Expect = 1e-32
Identities = 42/134 (31%), Positives = 73/134 (54%), Gaps = 14/134 (10%)
Query: 100 KPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLL--HHIDNVATKGAGTKMNIAEVYSDL 157
K +L L+++ + FV + H LA L I+N +G ++
Sbjct: 17 KTALLVHLLKQPEATRSIVFVRKRERVHELANWLREAGINNCYLEG------------EM 64
Query: 158 KFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTARG 217
+RN+ I+ +++++VA+D ARGID+ ++ V N++ P + Y+HRIGRTAR
Sbjct: 65 VQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARA 124
Query: 218 GRQGTSVTLVTTHE 231
GR+GT+++LV H+
Sbjct: 125 GRKGTAISLVEAHD 138
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 113 bits (286), Expect = 5e-32
Identities = 38/132 (28%), Positives = 65/132 (49%), Gaps = 10/132 (7%)
Query: 100 KPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKF 159
K +L ++ + F T + ++L L +++ +
Sbjct: 22 KFSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELD----------DLGYPCDKIHGGMIQ 71
Query: 160 DQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTARGGR 219
+ R ++ EF+R + +VA+D ARGID+ENI +VINY+ P + Y+HR GRT R G
Sbjct: 72 EDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGN 131
Query: 220 QGTSVTLVTTHE 231
+G +++ VT E
Sbjct: 132 KGKAISFVTAFE 143
>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 = 111 bits (281), Expect = 8e-31
Identities = 37/132 (28%), Positives = 62/132 (46%), Gaps = 10/132 (7%)
Query: 100 KPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKF 159
+ VL L+ + + F T +A+ L ++ DL
Sbjct: 18 RLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGL----------LRLGHPAQALHGDLSQ 67
Query: 160 DQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTARGGR 219
+R +++ FR+ ++ ++VA+D ARG+D+ +D+V++Y PD + Y HR GRT R GR
Sbjct: 68 GERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGR 127
Query: 220 QGTSVTLVTTHE 231
G V L E
Sbjct: 128 GGRVVLLYGPRE 139
>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 = 114 bits (287), Expect = 2e-30
Identities = 52/209 (24%), Positives = 92/209 (44%), Gaps = 45/209 (21%)
Query: 20 PSRPQRLLFSATLSHDPEKLHQLSLFQPKLFTSVVEPAGTGDTQPTSSEAGADNLSSGFI 79
+R LFSAT+ + K+ + + + +E N+ F+
Sbjct: 158 SNRKITGLFSATIPEEIRKVVKDFITNYEE----IEACIG-----------LANVEHKFV 202
Query: 80 GKFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNV 139
+ + + Q +R++ +GV+ FV T +L RL
Sbjct: 203 -------HVKDDWRS---------KVQALRENKDKGVIVFVRTRNRVAKLVRLFD----- 241
Query: 140 ATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYE 199
N E+ DL RN+ I FR + D+++ +D +RG+D+ ++ VIN++
Sbjct: 242 ---------NAIELRGDLPQSVRNRNIDAFREGEYDMLITTDVASRGLDIPLVEKVINFD 292
Query: 200 APDNIKKYIHRIGRTARGGRQGTSVTLVT 228
AP +++ YIHRIGRT R GR+G ++T +
Sbjct: 293 APQDLRTYIHRIGRTGRMGRKGEAITFIL 321
>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 = 112 bits (283), Expect = 3e-30
Identities = 36/137 (26%), Positives = 62/137 (45%), Gaps = 10/137 (7%)
Query: 95 CSTNLKPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVY 154
+ VL L+ + + F T +A+ L ++
Sbjct: 10 APVRGRLEVLSDLLYVASPDRAMVFTRTKAETEEIAQGL----------LRLGHPAQALH 59
Query: 155 SDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRT 214
D+ +R +++ FR+ ++ ++VA+D ARG+D+ +D+V++Y PD + Y HR GRT
Sbjct: 60 GDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRT 119
Query: 215 ARGGRQGTSVTLVTTHE 231
R GR G V L E
Sbjct: 120 GRAGRGGRVVLLYGPRE 136
>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 = 113 bits (286), Expect = 5e-30
Identities = 53/212 (25%), Positives = 89/212 (41%), Gaps = 37/212 (17%)
Query: 20 PSRPQRLLFSATLSHDPEKLHQLSLFQPKLFTSVVEPAGTGDTQPTSSEAGADNLSSGFI 79
P Q LLFSAT ++ L +P + L+ I
Sbjct: 192 PPTHQSLLFSATFPLTVKEFMVKHLHKPYEINL------------------MEELTLKGI 233
Query: 80 GKFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNV 139
++ E +KL L L K + + F N+ LA+ + +
Sbjct: 234 TQYYAFVEERQKLHC---------LNTLFSKLQINQAIIFCNSTNRVELLAKKITDLGYS 284
Query: 140 ATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYE 199
++ +K +RNK+ EFR+ K+ +V SD L RGID++ ++VVIN++
Sbjct: 285 C----------YYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVVINFD 334
Query: 200 APDNIKKYIHRIGRTARGGRQGTSVTLVTTHE 231
P + Y+HRIGR+ R G G ++ L+ ++
Sbjct: 335 FPKTAETYLHRIGRSGRFGHLGLAINLINWND 366
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 114 bits (287), Expect = 1e-29
Identities = 36/119 (30%), Positives = 58/119 (48%), Gaps = 16/119 (13%)
Query: 119 FVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVV 178
F A +AR + G +A + +L+ QR+ I+ FR ++V
Sbjct: 363 FCKKKDTAEEIARRMT------ADG----HTVACLTGNLEGAQRDAIMDSFRVGTSKVLV 412
Query: 179 ASDNLARGIDVENIDVVINYEAPDNIKK------YIHRIGRTARGGRQGTSVTLVTTHE 231
++ +ARGIDV +++V+NY+ P + Y+HRIGRT R GR G S+ V +
Sbjct: 413 TTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVHDKK 471
>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 = 112 bits (283), Expect = 1e-29
Identities = 52/212 (24%), Positives = 94/212 (44%), Gaps = 41/212 (19%)
Query: 20 PSRPQRLLFSATLSHDPEKLHQLSLFQPKLFTSVVEPAGTGDTQPTSSEAGADNLSSGFI 79
+ LLFSAT+ + L + +
Sbjct: 176 NKDKRILLFSATMPREILNLAKKYMGDYSFI----------------------------- 206
Query: 80 GKFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNV 139
K A + + + N + L +L++ G++ F T + LA +L
Sbjct: 207 -KAKINANIEQSYVEVNENERFEALCRLLKNKEFYGLV-FCKTKRDTKELASML------ 258
Query: 140 ATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYE 199
+ G ++ DL QR K+I+ F+++KI +++A+D ++RGIDV +++ VINY
Sbjct: 259 --RDIG--FKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVMSRGIDVNDLNCVINYH 314
Query: 200 APDNIKKYIHRIGRTARGGRQGTSVTLVTTHE 231
P N + Y+HRIGRT R G++G +++++ E
Sbjct: 315 LPQNPESYMHRIGRTGRAGKKGKAISIINRRE 346
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 105 bits (265), Expect = 7e-29
Identities = 41/113 (36%), Positives = 64/113 (56%), Gaps = 10/113 (8%)
Query: 119 FVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVV 178
F NT + L L + ++ +YSDL +R+ I++EFR +++
Sbjct: 36 FCNTRRKVEELTTKLRNDK----------FTVSAIYSDLPQQERDTIMKEFRSGSSRILI 85
Query: 179 ASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTARGGRQGTSVTLVTTHE 231
++D LARGIDV+ + +VINY+ P N + YIHRIGR R GR+G ++ VT +
Sbjct: 86 STDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNED 138
>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 = 105 bits (264), Expect = 1e-28
Identities = 32/132 (24%), Positives = 64/132 (48%), Gaps = 10/132 (7%)
Query: 100 KPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKF 159
K L+ L+ V+ FV + Q LA+LL + ++ +
Sbjct: 18 KNRKLFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQN----------FPAIAIHRGMPQ 67
Query: 160 DQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTARGGR 219
++R Q+F+ + ++VA++ RG+D+E +++ NY+ P++ Y+HR+ R R G
Sbjct: 68 EERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGT 127
Query: 220 QGTSVTLVTTHE 231
+G ++T V+
Sbjct: 128 KGLAITFVSDEN 139
>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 = 109 bits (276), Expect = 2e-28
Identities = 43/129 (33%), Positives = 69/129 (53%), Gaps = 10/129 (7%)
Query: 103 VLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKFDQR 162
L L ++ + F NT + L L + ++ +YSDL +R
Sbjct: 249 CLTDLYDSISVTQAVIFCNTRRKVEELTTKLRNDK----------FTVSAIYSDLPQQER 298
Query: 163 NKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTARGGRQGT 222
+ I++EFR +++++D LARGIDV+ + +VINY+ P N + YIHRIGR R GR+G
Sbjct: 299 DTIMKEFRSGSSRILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGV 358
Query: 223 SVTLVTTHE 231
++ VT +
Sbjct: 359 AINFVTNED 367
>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 = 109 bits (275), Expect = 2e-28
Identities = 44/212 (20%), Positives = 87/212 (41%), Gaps = 35/212 (16%)
Query: 20 PSRPQRLLFSATLSHDPEKLHQLSLFQPKLFTSVVEPAGTGDTQPTSSEAGADNLSSGFI 79
P Q ++FSATLS + + + + P E T +
Sbjct: 182 PHEKQVMMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHG----------------L 225
Query: 80 GKFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNV 139
++ + +EK L+ L+ V+ FV + Q LA+LL +
Sbjct: 226 QQYYVKLKDNEKNRK---------LFDLLDVLEFNQVVIFVKSVQRCIALAQLLVEQN-- 274
Query: 140 ATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYE 199
++ + ++R Q+F+ + ++VA++ RG+D+E +++ NY+
Sbjct: 275 --------FPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYD 326
Query: 200 APDNIKKYIHRIGRTARGGRQGTSVTLVTTHE 231
P++ Y+HR+ R R G +G ++T V+
Sbjct: 327 MPEDSDTYLHRVARAGRFGTKGLAITFVSDEN 358
>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 = 108 bits (273), Expect = 5e-28
Identities = 35/129 (27%), Positives = 65/129 (50%), Gaps = 10/129 (7%)
Query: 103 VLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKFDQR 162
L L + + F NT + L + + ++ ++ D+ +R
Sbjct: 266 TLCDLYDTLTITQAVIFCNTKRKVDWLTEKMREAN----------FTVSSMHGDMPQKER 315
Query: 163 NKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTARGGRQGT 222
I++EFR +++++D ARG+DV + ++INY+ P+N + YIHRIGR+ R GR+G
Sbjct: 316 ESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGV 375
Query: 223 SVTLVTTHE 231
++ V +
Sbjct: 376 AINFVKNDD 384
>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 = 108 bits (272), Expect = 6e-28
Identities = 41/129 (31%), Positives = 69/129 (53%), Gaps = 10/129 (7%)
Query: 103 VLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKFDQR 162
L L + + F+NT + L +H D ++ ++ D+ +R
Sbjct: 270 TLCDLYETLTITQAVIFINTRRKVDWLTEKMHARD----------FTVSAMHGDMDQKER 319
Query: 163 NKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTARGGRQGT 222
+ I++EFR +++ +D LARGIDV+ + +VINY+ P N + YIHRIGR R GR+G
Sbjct: 320 DVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGV 379
Query: 223 SVTLVTTHE 231
++ +VT +
Sbjct: 380 AINMVTEED 388
>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 = 102 bits (257), Expect = 1e-27
Identities = 33/119 (27%), Positives = 58/119 (48%), Gaps = 16/119 (13%)
Query: 119 FVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVV 178
F T + A L + ++ + +L +QR IIQ FR K +++
Sbjct: 40 FCQTRRNAKWLTVEMIQDG----------HQVSLLSGELTVEQRASIIQRFRDGKEKVLI 89
Query: 179 ASDNLARGIDVENIDVVINYEAPDNIKK------YIHRIGRTARGGRQGTSVTLVTTHE 231
++ ARGIDV+ + +V+N++ P + Y+HRIGRT R G++G + ++ E
Sbjct: 90 TTNVCARGIDVKQVTIVVNFDLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDE 148
>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 = 101 bits (254), Expect = 4e-27
Identities = 40/138 (28%), Positives = 63/138 (45%), Gaps = 11/138 (7%)
Query: 95 CSTNLKPLVLYQLIRKHAMQG-VLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEV 153
+ K L L+ L FV T +GA L L+H T +
Sbjct: 27 VEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTS----------I 76
Query: 154 YSDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGR 213
+ D R + + +FR K ++VA+ ARG+D+ N+ VIN++ P +I++Y+HRIGR
Sbjct: 77 HGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGR 136
Query: 214 TARGGRQGTSVTLVTTHE 231
T R G G + +
Sbjct: 137 TGRVGNLGLATSFFNERN 154
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 101 bits (254), Expect = 6e-27
Identities = 36/137 (26%), Positives = 59/137 (43%), Gaps = 11/137 (8%)
Query: 95 CSTNLKPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVY 154
K + L + ++K VL F + L + ++
Sbjct: 37 VKEEAKMVYLLECLQKTP-PPVLIFAEKKADVDAIHEYLLL----------KGVEAVAIH 85
Query: 155 SDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRT 214
++R K I+ FR K D++VA+D ++G+D I VINY+ P+ I+ Y+HRIGRT
Sbjct: 86 GGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIENYVHRIGRT 145
Query: 215 ARGGRQGTSVTLVTTHE 231
G G + T +
Sbjct: 146 GCSGNTGIATTFINKAC 162
>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 = 103 bits (258), Expect = 6e-26
Identities = 39/119 (32%), Positives = 62/119 (52%), Gaps = 16/119 (13%)
Query: 119 FVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVV 178
F +T + A LA L G +A + ++ +QR +I+ FR K ++V
Sbjct: 272 FCHTRKTASWLAAEL--------SKEG--HQVALLSGEMMVEQRAAVIERFREGKEKVLV 321
Query: 179 ASDNLARGIDVENIDVVINYEAPDNIKK------YIHRIGRTARGGRQGTSVTLVTTHE 231
++ ARGIDVE + VVIN++ P + Y+HRIGRT R G++G +V +V +
Sbjct: 322 TTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKH 380
>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 = 102 bits (257), Expect = 7e-26
Identities = 37/119 (31%), Positives = 64/119 (53%), Gaps = 16/119 (13%)
Query: 119 FVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVV 178
FV T + A+ L L K G ++ ++ DL+ +R+++I +FR + +++
Sbjct: 249 FVATKKTANVLYGKL--------KSEG--HEVSILHGDLQTQERDRLIDDFREGRSKVLI 298
Query: 179 ASDNLARGIDVENIDVVINYEAPDNIKK------YIHRIGRTARGGRQGTSVTLVTTHE 231
++ LARGID+ + +V+NY+ P YIHRIGRT R GR+G +++ V
Sbjct: 299 TTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVHDKN 357
>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 = 102 bits (256), Expect = 2e-25
Identities = 39/119 (32%), Positives = 62/119 (52%), Gaps = 16/119 (13%)
Query: 119 FVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVV 178
F +T + A LA L G +A + ++ +QR +I+ FR K ++V
Sbjct: 339 FCHTRKTASWLAAEL--------SKEG--HQVALLSGEMMVEQRAAVIERFREGKEKVLV 388
Query: 179 ASDNLARGIDVENIDVVINYEAPDNIKK------YIHRIGRTARGGRQGTSVTLVTTHE 231
++ ARGIDVE + VVIN++ P + Y+HRIGRT R G++G +V +V +
Sbjct: 389 TTNVCARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKH 447
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 98.8 bits (247), Expect = 2e-24
Identities = 40/135 (29%), Positives = 63/135 (46%), Gaps = 11/135 (8%)
Query: 95 CSTNLKPLVLYQLIRKHAMQG-VLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEV 153
+ K L L+ L FV T +GA L L+H T +
Sbjct: 257 VEESDKRSFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTS----------I 306
Query: 154 YSDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGR 213
+ D R + + +FR K ++VA+ ARG+D+ N+ VIN++ P +I++Y+HRIGR
Sbjct: 307 HGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEEYVHRIGR 366
Query: 214 TARGGRQGTSVTLVT 228
T R G G + +
Sbjct: 367 TGRVGNLGLATSFFN 381
>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 = 98.8 bits (247), Expect = 2e-24
Identities = 38/137 (27%), Positives = 67/137 (48%), Gaps = 11/137 (8%)
Query: 95 CSTNLKPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVY 154
+ K L +++ + G + FV T +GA LA L + T ++
Sbjct: 283 VNKYAKRSKLIEILSEQ-ADGTIVFVETKRGADFLASFLSEKEFPTTS----------IH 331
Query: 155 SDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRT 214
D QR + +++F+ + +++A+ +RG+D++NI VINY+ P I Y+HRIGRT
Sbjct: 332 GDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRT 391
Query: 215 ARGGRQGTSVTLVTTHE 231
R G G + + +
Sbjct: 392 GRVGNNGRATSFFDPEK 408
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 84.0 bits (208), Expect = 4e-19
Identities = 39/215 (18%), Positives = 73/215 (33%), Gaps = 33/215 (15%)
Query: 20 PSRPQRLLFSATLSHDPEKLHQLSLFQPKLFTSVVEPAGTGDTQPTSSEAGADNLSSGFI 79
P R FS + + L ++ + +L + +
Sbjct: 168 PEEIIRKAFSTIKQGKIYERPK------NLKPGILVVSSATAKPRGIRPLLFRDLLNFTV 221
Query: 80 GKFTTPAEL-SEKLTTCSTNLKPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDN 138
G+ + A + + + K + L ++ R G+L F T + L L
Sbjct: 222 GRLVSVARNITHVRISSRSKEKLVELLEIFRD----GILIFAQTEEEGKELYEYL----- 272
Query: 139 VATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVVASD----NLARGIDV-ENID 193
K N+ E +S+ K ++F+ KI++++ L RG+D+ E I
Sbjct: 273 ---KRFK--FNVGETWSE-----FEKNFEDFKVGKINILIGVQAYYGKLTRGVDLPERIK 322
Query: 194 VVINYEAPDNIK--KYIHRIGRTARGGRQGTSVTL 226
VI + P YI GR++R +
Sbjct: 323 YVIFWGTPSGPDVYTYIQASGRSSRILNGVLVKGV 357
>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 = 78.7 bits (193), Expect = 3e-17
Identities = 30/128 (23%), Positives = 58/128 (45%), Gaps = 7/128 (5%)
Query: 103 VLYQLIRKHAMQGVLCFVNTAQGAHRLARLL--HHIDNVATKGAGTKMNIAEVYSDLKFD 160
++ + +++ ++ F N + A ++ L I G +K N L
Sbjct: 351 IIREQLQRKQNSKIIVFTNYRETAKKIVNELVKDGIKAKRFVGQASKEN----DRGLSQR 406
Query: 161 QRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTARGGRQ 220
++ I+ EF R + +++VA+ G+DV +D+V+ YE + + I R GRT R
Sbjct: 407 EQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGR-HMP 465
Query: 221 GTSVTLVT 228
G + L+
Sbjct: 466 GRVIILMA 473
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 57.6 bits (138), Expect = 5e-10
Identities = 27/137 (19%), Positives = 53/137 (38%), Gaps = 9/137 (6%)
Query: 100 KPLVLYQLIRKHAMQG----VLCFVNTAQGAHRLARLLHHIDNVATKGAG--TKMNIAEV 153
K LY ++++ + FV T L + + ++ G T
Sbjct: 372 KLRDLYLVLQEEYHLKPETKTILFVKTRALVDALKKWIEENPALSFLKPGILTGRGRTNR 431
Query: 154 YSDLKFDQRNKIIQEFRRR-KIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIG 212
+ + + +++ FR ++++A+ GID+ ++VI YE N+ K I G
Sbjct: 432 ATGMTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRG 491
Query: 213 RTARGGRQGTSVTLVTT 229
R R R L ++
Sbjct: 492 R-GR-ARDSKCFLLTSS 506
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 57.7 bits (138), Expect = 6e-10
Identities = 31/173 (17%), Positives = 62/173 (35%), Gaps = 7/173 (4%)
Query: 61 DTQPTSSEAGADNLSSGFIGKFTTPAELSEKLTTCSTNLKPL--VLYQLIRKHAMQGVLC 118
+ + + +L+ F K +S + + L+ L +L + + +
Sbjct: 344 NVRAAGFDEIEQDLTQRFEEKLQELESVSRDPSNENPKLEDLCFILQEEYHLNPETITIL 403
Query: 119 FVNTAQGAHRLARLLHHIDNVATKGAG--TKMNIAEVYSDLKFDQRNKIIQEFRRR-KID 175
FV T L + ++ G T + + + I+ F+ +
Sbjct: 404 FVKTRALVDALKNWIEGNPKLSFLKPGILTGRGKTNQNTGMTLPAQKCILDAFKASGDHN 463
Query: 176 LVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTARGGRQGTSVTLVT 228
+++A+ GID+ ++VI YE N+ K I GR R R L +
Sbjct: 464 ILIATSVADEGIDIAQCNLVILYEYVGNVIKMIQTRGR-GR-ARGSKCFLLTS 514
>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 = 57.3 bits (137), Expect = 9e-10
Identities = 31/163 (19%), Positives = 57/163 (34%), Gaps = 7/163 (4%)
Query: 74 LSSGFIGKFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQG--VLCFVNTAQGAHRLAR 131
L++ F K LS+ T + L+ LV L F T L +
Sbjct: 590 LTAKFQEKEPELIALSKDETNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSALKK 649
Query: 132 LLHHIDNVATKGAG--TKMNIAEVYSDLKFDQRNKIIQEFRRRKI-DLVVASDNLARGID 188
+ + G + + + + ++ F+ K L++A+ GID
Sbjct: 650 CMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGID 709
Query: 189 VENIDVVINYEAPDNIKKYIHRIGRTARGGRQGTSVTLVTTHE 231
+ ++V+ YE N+ K I GR R + + + E
Sbjct: 710 IVQCNLVVLYEYSGNVTKMIQVRGR-GR-AAGSKCILVTSKTE 750
>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 = 56.5 bits (135), Expect = 2e-09
Identities = 24/119 (20%), Positives = 45/119 (37%), Gaps = 7/119 (5%)
Query: 116 VLCFVNTAQGAHRLARLLHHIDNVATKGAG--TKMNIAEVYSDLKFDQRNKIIQEFRRRK 173
L F T L + + + G + + + + ++ F+ K
Sbjct: 634 TLLFAKTRALVSALKKCMEENPILNYIKPGVLMGRGRRDQTTGMTLPSQKGVLDAFKTSK 693
Query: 174 I-DLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTARGGRQGTSVTLVTTHE 231
L++A+ GID+ ++V+ YE N+ K I GR GR S ++ T +
Sbjct: 694 DNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRGR----GRAAGSKCILVTSK 748
>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 = 53.8 bits (128), Expect = 1e-08
Identities = 32/168 (19%), Positives = 60/168 (35%), Gaps = 17/168 (10%)
Query: 73 NLSSGFIGKFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQG----VLCFVNTAQGAHR 128
+L++ F K LS+ + N K L ++ L F T
Sbjct: 348 HLTAKFQEKEPELIALSKDE--TNENPKLEELVCILDDAYRYNPQTRTLLFAKTRALVSA 405
Query: 129 LARLLHHIDNV----ATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKI-DLVVASDNL 183
L + + + G + + + + ++ F+ K L++A+
Sbjct: 406 LKKCMEENPILNYIKPGVLMG--RGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVA 463
Query: 184 ARGIDVENIDVVINYEAPDNIKKYIHRIGRTARGGRQGTSVTLVTTHE 231
GID+ ++V+ YE N+ K I GR GR S ++ T +
Sbjct: 464 DEGIDIVQCNLVVLYEYSGNVTKMIQVRGR----GRAAGSKCILVTSK 507
>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 = 49.4 bits (118), Expect = 3e-07
Identities = 26/134 (19%), Positives = 58/134 (43%), Gaps = 18/134 (13%)
Query: 100 KPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKF 159
K L +++ +H ++ F + +R++++ I +
Sbjct: 336 KIRKLREILERHRKDKIIIFTRHNELVYRISKVF---------------LIPAITHRTSR 380
Query: 160 DQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTAR--- 216
++R +I++ FR + +V+S L GIDV + +V + + ++YI R+GR R
Sbjct: 381 EEREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSK 440
Query: 217 GGRQGTSVTLVTTH 230
G ++ L++
Sbjct: 441 GKKEAVLYELISRG 454
>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 = 43.3 bits (101), Expect = 4e-05
Identities = 38/253 (15%), Positives = 76/253 (30%), Gaps = 69/253 (27%)
Query: 14 DTFLTYPSRPQR--LLFSATLSHDPEKLHQL---SLFQPKLFTSVVEPAGTGDTQPTSS- 67
D + LF TL E++ Q + + + ++ P T QP+
Sbjct: 52 DHIIMSKDAVSGTLRLFW-TLLSKQEEMVQKFVEEVLRIN-YKFLMSPIKTEQRQPSMMT 109
Query: 68 ---EAGADNLSSG---FIGKFTTPAELSEKLTTCSTNLKP---LVLY------------Q 106
D L + F + + KL L+P +++
Sbjct: 110 RMYIEQRDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALD 169
Query: 107 LIRKHAMQGVLCF---------VNTAQGA-HRLARLLHHIDNVATKGAGTKMNIAEVYSD 156
+ + +Q + F N+ + L +LL+ ID T + NI
Sbjct: 170 VCLSYKVQCKMDFKIFWLNLKNCNSPETVLEMLQKLLYQIDPNWTSRSDHSSNIKLRIHS 229
Query: 157 LKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTAR 216
++ + + + + + L+V L +V+N A +
Sbjct: 230 IQ--AELRRLLKSKPYENCLLV----LL---NVQNAKAW---NAFN-------------- 263
Query: 217 GGRQGTSVTLVTT 229
+ L+TT
Sbjct: 264 ----LSCKILLTT 272
>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 = 42.8 bits (100), Expect = 5e-05
Identities = 39/216 (18%), Positives = 77/216 (35%), Gaps = 23/216 (10%)
Query: 15 TFLTYPSRPQRLLFSATLSHDPE----KLHQLSLFQPKLFTSVVEPAGTGDTQPTSSEAG 70
+ L R+LF T + +LH + L P + + ++ +G + ++ +
Sbjct: 405 SMLMDRHGTSRVLFRNTRNGVKGFPKRELHTIKLPLPTQYQTAIKVSGIMGARKSAEDRA 464
Query: 71 ADNLSSGFIGKFTTPAELSEKLTTCSTNLKPLV--LYQLIRKHAMQGVLCFVNTAQGAHR 128
D L I + E N P V L + H Q VL A A +
Sbjct: 465 RDMLYPERI------YQEFEGDNATWWNFDPRVEWLMGYLTSHRSQKVLVICAKAATALQ 518
Query: 129 LARLLHHIDNVATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKID--LVVASDNLARG 186
L ++L + + A + + +R++ F +++ S+ + G
Sbjct: 519 LEQVLREREG---------IRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEG 569
Query: 187 IDVENIDVVINYEAPDNIKKYIHRIGRTARGGRQGT 222
+ + ++ ++ P N RIGR R G+
Sbjct: 570 RNFQFASHMVMFDLPFNPDLLEQRIGRLDRIGQAHD 605
>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 = 41.2 bits (96), Expect = 2e-04
Identities = 37/239 (15%), Positives = 62/239 (25%), Gaps = 110/239 (46%)
Query: 19 YPSRPQRLLFSATLSHD--------PEKLH----QLSLFQPKLFTSVVEPAGTGDTQPTS 66
Y +RP L TLSH P QL + F ++ +PT
Sbjct: 4 YSTRP---L---TLSHGSLEHVLLVPTASFFIASQLQ----EQFNKILP-------EPTE 46
Query: 67 SEAGADNLSSGFIGKFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQGVLCFVNTAQGA 126
A D ++ PAEL
Sbjct: 47 GFAADDEPTT--------PAEL-------------------------------------- 60
Query: 127 HRLARLLHHIDNVATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRR---RKID---LVVAS 180
+ + L ++ ++ + + +V L + EF D L
Sbjct: 61 --VGKFLGYVSSLVEPSKVGQFD--QV---LNL-----CLTEFENCYLEGNDIHALAAKL 108
Query: 181 DNLARGIDVENIDVVINY-EAPDNIKKYIHRIGR----------TAR-----GGRQGTS 223
V+ +++ NY A K+ + A+ GG QG +
Sbjct: 109 LQENDTTLVKTKELIKNYITARIMAKRPFDKKSNSALFRAVGEGNAQLVAIFGG-QGNT 166
Score = 41.2 bits (96), Expect = 2e-04
Identities = 49/232 (21%), Positives = 77/232 (33%), Gaps = 70/232 (30%)
Query: 14 DTFLTYPSRPQRLLFSATLSHDPEKLHQLS---LFQPKLFTSVV-------EPAGTGDTQ 63
D + TY L+ + E L +L L K+FT + P+ T D
Sbjct: 175 DLYQTYHVLVGDLIKFSA-----ETLSELIRTTLDAEKVFTQGLNILEWLENPSNTPDKD 229
Query: 64 PTSSEAGADNLSSGFIG-----------KFT--TPAELSEKLTTCSTNLKPLV------- 103
S +S IG K TP EL L + + + LV
Sbjct: 230 YLLSIP----ISCPLIGVIQLAHYVVTAKLLGFTPGELRSYLKGATGHSQGLVTAVAIAE 285
Query: 104 ------LYQLIRKHAMQGVLCFVNT-AQGAHRLARLLHHI--DNVA-TKGAGTKM-NIAE 152
+ +RK A+ VL F+ A+ L I D++ +G + M +I
Sbjct: 286 TDSWESFFVSVRK-AIT-VLFFIGVRCYEAYPNTSLPPSILEDSLENNEGVPSPMLSI-- 341
Query: 153 VYSDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNI 204
S+L +Q + + L G VE I ++N N+
Sbjct: 342 --SNLTQEQVQDYVNKTNSH----------LPAGKQVE-I-SLVN--GAKNL 377
Score = 35.4 bits (81), Expect = 0.014
Identities = 39/225 (17%), Positives = 73/225 (32%), Gaps = 69/225 (30%)
Query: 5 GVGGLVIM---------WDTFLTYPSRPQRLLFSATL-SHD--PEKLHQLSLFQPKLFTS 52
G ++ W++F + +LF + ++ P SL P +
Sbjct: 272 GHSQGLVTAVAIAETDSWESFFVSVRKAITVLFFIGVRCYEAYP----NTSL-PPSILED 326
Query: 53 VVEPAGTGDTQPTSSEAGADNLS-SGFIGKFTTPAELSEKLTTCSTNLKPLVLYQLIRKH 111
+E + P+ LS S T ++ + + +++L K
Sbjct: 327 SLEN---NEGVPSPM------LSISN-----LTQEQVQDYVNKTNSHLPA-------GKQ 365
Query: 112 AMQGVLCFVNTAQ-----G-AHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKFDQRN-K 164
+ VN A+ G L L + A + ++ + + F +R K
Sbjct: 366 V---EISLVNGAKNLVVSGPPQSLYGLNLTLRKAK---APSGLDQSRI----PFSERKLK 415
Query: 165 IIQEFRRRKIDLVVA----SDNLARGIDVENIDVV---INYEAPD 202
F L VA S L D+ N D+V +++ A D
Sbjct: 416 FSNRF------LPVASPFHSHLLVPASDLINKDLVKNNVSFNAKD 454
Score = 34.3 bits (78), Expect = 0.037
Identities = 36/238 (15%), Positives = 64/238 (26%), Gaps = 100/238 (42%)
Query: 5 GVGGLVI-------MWDTFLTYPSRPQRL-------LFSATLSHDPEKLHQLSLFQPKLF 50
G G I +++T + + +++ S T + L QP L
Sbjct: 1678 GEKGKRIRENYSAMIFETIVDGKLKTEKIFKEINEHSTSYTFRSEKGLLSATQFTQPALT 1737
Query: 51 TSVVEPA------GTGDTQPTSSEAG-------ADNLSS--GFI------------GKFT 83
+E A G ++ AG A L+S + G
Sbjct: 1738 L--MEKAAFEDLKSKGLIPADATFAGHSLGEYAA--LASLADVMSIESLVEVVFYRGMTM 1793
Query: 84 T-------------------PAELSEKLTTCSTNLKPLVLYQLIRKHAMQGVLCFVNTAQ 124
P ++ L+ +V + + K ++ VN
Sbjct: 1794 QVAVPRDELGRSNYGMIAINPGRVAASF--SQEALQYVV--ERVGKRT-GWLVEIVN--- 1845
Query: 125 GAHRLARLLHHIDNVATKG-----AGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLV 177
NV AG + V + L F K+ +KID++
Sbjct: 1846 ------------YNVE--NQQYVAAGDLRALDTVTNVLNF---IKL------QKIDII 1880
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 40.3 bits (93), Expect = 3e-04
Identities = 25/148 (16%), Positives = 48/148 (32%), Gaps = 11/148 (7%)
Query: 81 KFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARLLHHIDNVA 140
K T E + +T S K + + + + L+ + +
Sbjct: 315 KGKTYQEEIKIITGLSKRNKWIAKLAIKLAQKDENAFVMFKHVSHGKAIFDLIKNEYD-- 372
Query: 141 TKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVVASDNLA-RGIDVENIDVVINYE 199
+ V ++ + RN + K ++VAS + GI V+N+ V+
Sbjct: 373 --------KVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVFSTGISVKNLHHVVLAH 424
Query: 200 APDNIKKYIHRIGRTARGGRQGTSVTLV 227
+ + IGR R T T+
Sbjct: 425 GVKSKIIVLQTIGRVLRKHGSKTIATVW 452
>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 = 38.6 bits (90), Expect = 0.001
Identities = 36/160 (22%), Positives = 61/160 (38%), Gaps = 31/160 (19%)
Query: 103 VLYQLIRKHAMQG--VLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEV------- 153
+L+ + + VL F +T +GA + A L I + G + I E
Sbjct: 230 KFEELVEECVAENGGVLVFESTRRGAEKTAVKLSAITAKYVENEGLEKAILEENEGEMSR 289
Query: 154 -------------YSDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVI-NYE 199
++ L QR + FRR I +VVA+ LA G+++ V++ +
Sbjct: 290 KLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLY 349
Query: 200 APDNIKKYIHR------IGRTARGG--RQGTSVTLVTTHE 231
D K I GR R G +G ++ +V +
Sbjct: 350 RFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRD 389
>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 = 37.1 bits (86), Expect = 0.004
Identities = 37/162 (22%), Positives = 63/162 (38%), Gaps = 35/162 (21%)
Query: 103 VLYQLIRKHAMQGVLCFVNTAQGAHRLARLL-------------HHIDNVATKGAGTKMN 149
++Y IRK +G L FVN + A R+A L ++ +A N
Sbjct: 229 LVYDAIRKK--KGALIFVNMRRKAERVALELSKKVKSLLTKPEIRALNELADSLEENPTN 286
Query: 150 ----------IAEVYSDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVIN-- 197
+A ++ L D+R + + FR+ I VVA+ L+ GI+ V+I
Sbjct: 287 EKLAKAIRGGVAFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDI 346
Query: 198 YEAPDNIKKYIHR------IGRTARGG--RQGTSVTLVTTHE 231
+ D + I +GR R G + + T+ +
Sbjct: 347 WRYSDFGMERIPIIEVHQMLGRAGRPKYDEVGEGIIVSTSDD 388
>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 = 34.7 bits (80), Expect = 0.025
Identities = 16/92 (17%), Positives = 32/92 (34%), Gaps = 21/92 (22%)
Query: 115 GVLCFVNTAQGAHRLARLLHHIDNVATKGAGTKMNIAEVYSDLKFDQRNKIIQEFRRRKI 174
G + + T + A + L + + A K ++F +I
Sbjct: 277 GGIIYARTGEEAEEIYESLKNKFRIGIVTATKK----------------GDYEKFVEGEI 320
Query: 175 DLVVASDN----LARGIDV-ENIDVVINYEAP 201
D ++ + + L RG+D+ E I + P
Sbjct: 321 DHLIGTAHYYGTLVRGLDLPERIRFAVFVGCP 352
>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 = 31.4 bits (72), Expect = 0.17
Identities = 13/30 (43%), Positives = 18/30 (60%)
Query: 20 PSRPQRLLFSATLSHDPEKLHQLSLFQPKL 49
P + Q LLFSAT + + L +LSL P+
Sbjct: 200 PKKRQTLLFSATQTKSVKDLARLSLKNPEY 229
>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 = 31.4 bits (72), Expect = 0.18
Identities = 7/20 (35%), Positives = 13/20 (65%)
Query: 20 PSRPQRLLFSATLSHDPEKL 39
+ +R +FSAT ++D E+
Sbjct: 208 SHKVRRAMFSATFAYDVEQW 227
>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 = 31.1 bits (71), Expect = 0.26
Identities = 12/28 (42%), Positives = 18/28 (64%)
Query: 20 PSRPQRLLFSATLSHDPEKLHQLSLFQP 47
P+R Q +LFSAT + E L ++SL +
Sbjct: 230 PTRRQTMLFSATQTRKVEDLARISLKKE 257
>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 = 30.7 bits (70), Expect = 0.28
Identities = 10/29 (34%), Positives = 16/29 (55%)
Query: 20 PSRPQRLLFSATLSHDPEKLHQLSLFQPK 48
P + LFSAT++ +KL + +L P
Sbjct: 215 PRDRKTFLFSATMTKKVQKLQRAALKNPV 243
>1hh2_P NUSA, N utilization substance protein A; transcription regulation,
termination; 2.1A {Thermotoga maritima} SCOP: b.40.4.5
d.52.3.1 d.52.3.1 d.202.1.1 PDB: 1l2f_A
Length = 344
Score = 29.4 bits (67), Expect = 0.87
Identities = 11/72 (15%), Positives = 27/72 (37%), Gaps = 17/72 (23%)
Query: 161 QRNKIIQEFRRRKIDLV------VASDNLARGIDVENIDVVI---------NYEAPDNIK 205
++ K +++ K + V + I + ++ + +A D +K
Sbjct: 122 EKEKQFEKYSELKGTVTTAEVIRVMGEWAD--IRIGKLETRLPKKEWIPGEEIKAGDLVK 179
Query: 206 KYIHRIGRTARG 217
YI + +T +G
Sbjct: 180 VYIIDVVKTTKG 191
>3p9c_A Caffeic acid O-methyltransferase; S-adenosylmethionine dependent
O-methyltransferase; HET: SAH; 1.80A {Lolium perenne}
PDB: 3p9i_A* 3p9k_A*
Length = 364
Score = 29.4 bits (66), Expect = 1.0
Identities = 14/53 (26%), Positives = 26/53 (49%)
Query: 80 GKFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQGVLCFVNTAQGAHRLARL 132
GK TP E++ KL + + P ++ +++R A V+ + RL+R
Sbjct: 54 GKSLTPTEVAAKLPSAANPEAPDMVDRILRLLASYNVVTCLVEEGKDGRLSRS 106
>3lft_A Uncharacterized protein; ABC, ATPase, cassette, L-Trp, PSI, MCSG,
structural genomics center for structural genomics; HET:
MSE TRP; 1.35A {Streptococcus pneumoniae}
Length = 295
Score = 28.4 bits (63), Expect = 1.8
Identities = 7/38 (18%), Positives = 14/38 (36%), Gaps = 2/38 (5%)
Query: 149 NIAEVYSDLKFDQRN--KIIQEFRRRKIDLVVASDNLA 184
+ + + + DQ + ++ DLVV A
Sbjct: 36 QVKIDFMNSEGDQSKVATMSKQLVANGNDLVVGIATPA 73
>2qh8_A Uncharacterized protein; conserved domain protein, structural
genomics, PSI-2, MCSG, BIG_563.1, protein structure
initiative; HET: HIS; 2.20A {Vibrio cholerae o1 biovar
eltor str} PDB: 3lkv_A*
Length = 302
Score = 28.4 bits (63), Expect = 2.0
Identities = 9/51 (17%), Positives = 19/51 (37%), Gaps = 2/51 (3%)
Query: 136 IDNVATKGAGTKMNIAEVYSDLKFDQRN--KIIQEFRRRKIDLVVASDNLA 184
+D + KG N+ Y + + +I ++F D++V
Sbjct: 30 LDGLKAKGYEEGKNLEFDYKTAQGNPAIAVQIARQFVGENPDVLVGIATPT 80
>2lkg_A Acetylcholine receptor; transmembrane domain, SIGN protein; NMR
{Torpedo marmorata} PDB: 2lkh_A
Length = 140
Score = 27.5 bits (61), Expect = 2.4
Identities = 8/32 (25%), Positives = 12/32 (37%)
Query: 82 FTTPAELSEKLTTCSTNLKPLVLYQLIRKHAM 113
F P + EK+T + LK L +
Sbjct: 71 FYLPTDSGEKMTESKSVLKSLTEKLKKIVELI 102
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 28.2 bits (63), Expect = 3.0
Identities = 26/138 (18%), Positives = 50/138 (36%), Gaps = 27/138 (19%)
Query: 77 GFIGKFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQG-VLCFVNTAQGAHRLARLL-- 133
K + + TT + ++ + + G VL F N+ + A A +
Sbjct: 215 YPERKKKEYNVIFKDNTTKKVHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKIAN 274
Query: 134 ----------------HHIDNVATKGAGTKMNIAEVY--------SDLKFDQRNKIIQEF 169
+D++ G+ K + + + L R+ I + F
Sbjct: 275 YMNFVSLDENALSEILKQLDDIEEGGSDEKELLKSLISKGVAYHHAGLSKALRDLIEEGF 334
Query: 170 RRRKIDLVVASDNLARGI 187
R+RKI ++VA+ LA G+
Sbjct: 335 RQRKIKVIVATPTLAAGV 352
>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 = 27.9 bits (61), Expect = 3.5
Identities = 15/82 (18%), Positives = 34/82 (41%), Gaps = 15/82 (18%)
Query: 150 IAEVYSDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIH 209
I +S L + I F+ + ++ A++ + G+++ VV +++K+
Sbjct: 507 IGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVF-----TSVRKWDG 561
Query: 210 RIGR----------TARGGRQG 221
+ R + R GR+G
Sbjct: 562 QQFRWVSGGEYIQMSGRAGRRG 583
>1oed_C Acetylcholine receptor protein, delta chain; ION channel/receptor,
ION channel, tubular crystal, transmembrane; 4.0A
{Torpedo marmorata} SCOP: f.36.1.1 PDB: 1a11_A 1cek_A
1eq8_A
Length = 260
Score = 27.5 bits (60), Expect = 3.6
Identities = 9/33 (27%), Positives = 16/33 (48%)
Query: 82 FTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQ 114
F PAE EK++T + L ++ L+ +
Sbjct: 23 FYLPAESGEKMSTAISVLLAQAVFLLLTSQRLP 55
>3hno_A Pyrophosphate-dependent phosphofructokinase; structural genomics,
PSI-2, protein structure initiative; 2.00A {Nitrosospira
multiformis atcc 25196} PDB: 3k2q_A
Length = 419
Score = 27.8 bits (62), Expect = 3.8
Identities = 17/124 (13%), Positives = 39/124 (31%), Gaps = 26/124 (20%)
Query: 122 TAQGAHRLARLLHH-------------IDN-VA----TKGAGTKMNIA-----EVYSDLK 158
+A ++++L +DN + G G+ E D+
Sbjct: 116 SADTCLKVSQLSGTLGYPIQAIHVPKTVDNDLPITDCCPGFGSVAKYIAVSTLEASFDVA 175
Query: 159 FDQRNK---IIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIHRIGRTA 215
+ E R + A+ LA + E V++ E + +K++ ++
Sbjct: 176 SMSATSTKVFVLEVMGRHAGWIAAAGGLASSPEREIPVVILFPEISFDKQKFLAKVDSCV 235
Query: 216 RGGR 219
+
Sbjct: 236 KKFG 239
>1fl0_A Endothelial-monocyte activating polypeptide II; RNA-binding domain,
OB-fold, tRNA synthetase complex, RNA binding protein;
1.50A {Homo sapiens} SCOP: b.40.4.4 PDB: 1e7z_A 1euj_A
Length = 171
Score = 27.0 bits (60), Expect = 4.1
Identities = 10/43 (23%), Positives = 19/43 (44%), Gaps = 4/43 (9%)
Query: 76 SGFIGKFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQGVLC 118
SG + ++ ++ NLKP + + + AM V+C
Sbjct: 42 SG-LVNHVPLEQMQNRMVILLCNLKPAKM-RGVLSQAM--VMC 80
>1mkh_A Metrs;, C-terminal domain of methionyl-tRNA synthetase; beta
barrel, dimerization domain, ligase; 2.01A {Pyrococcus
abyssi} SCOP: b.40.4.4
Length = 107
Score = 26.4 bits (59), Expect = 4.2
Identities = 8/26 (30%), Positives = 13/26 (50%), Gaps = 1/26 (3%)
Query: 76 SGFIGKFTTPAELSEKLTTCSTNLKP 101
+G + K+ P EL + NL+P
Sbjct: 46 AG-LKKYYKPEELLNRYVVVVANLEP 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 = 27.4 bits (60), Expect = 4.4
Identities = 15/82 (18%), Positives = 34/82 (41%), Gaps = 15/82 (18%)
Query: 150 IAEVYSDLKFDQRNKIIQEFRRRKIDLVVASDNLARGIDVENIDVVINYEAPDNIKKYIH 209
I +S L + I F+ + ++ A++ + G+++ VV +++K+
Sbjct: 409 IGIHHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVF-----TSVRKWDG 463
Query: 210 RIGR----------TARGGRQG 221
+ R + R GR+G
Sbjct: 464 QQFRWVSGGEYIQMSGRAGRRG 485
>1k0r_A NUSA; two component arrangement, S1 domain, two K-homology
domains., structural genomics, PSI, protein structure
initiative; 1.70A {Mycobacterium tuberculosis} SCOP:
b.40.4.5 d.52.3.1 d.52.3.1 d.202.1.1
Length = 366
Score = 27.2 bits (61), Expect = 4.7
Identities = 14/77 (18%), Positives = 27/77 (35%), Gaps = 21/77 (27%)
Query: 162 RNKIIQEFRRRKIDLV------VASDNLARGIDVE------NIDVVI---------NYEA 200
+ EF R+ ++V + N + V + VI +YE
Sbjct: 119 NERTYGEFSTREGEIVAGVIQRDSRANARGLVVVRIGTETKASEGVIPAAEQVPGESYEH 178
Query: 201 PDNIKKYIHRIGRTARG 217
+ ++ Y+ + R AR
Sbjct: 179 GNRLRCYVVGVTRGARE 195
>1pyb_A Methionyl-tRNA synthetase beta subunit; oligonucleotide,
oligosaccharide-binding fold, OB-fold, beta-barrel, RNA
binding protein; 2.50A {Aquifex aeolicus} SCOP: b.40.4.4
Length = 111
Score = 26.0 bits (58), Expect = 5.0
Identities = 12/26 (46%), Positives = 14/26 (53%), Gaps = 1/26 (3%)
Query: 76 SGFIGKFTTPAELSEKLTTCSTNLKP 101
+G I K+ TP EL K NLKP
Sbjct: 50 AG-IAKYYTPEELVGKKIVIVANLKP 74
>2lly_A Neuronal acetylcholine receptor subunit alpha-4; transmembrane
domain, transport PROT; NMR {Homo sapiens}
Length = 137
Score = 26.3 bits (58), Expect = 5.4
Identities = 10/32 (31%), Positives = 17/32 (53%)
Query: 82 FTTPAELSEKLTTCSTNLKPLVLYQLIRKHAM 113
F P+E EK+T C + L L ++ L+ +
Sbjct: 29 FYLPSECGEKITLCISVLLSLTVFLLLITEII 60
>2dce_A KIAA1915 protein; swirm domain, structural genomics, NPPSFA,
national project on protein structural and functional
analyses; NMR {Homo sapiens}
Length = 111
Score = 26.0 bits (57), Expect = 6.4
Identities = 13/69 (18%), Positives = 22/69 (31%), Gaps = 16/69 (23%)
Query: 145 GTKMNIAEVYSDLKFDQRNKIIQEFRRRKIDLVVASD---NLARGIDVENIDVV------ 195
G + E Y + RN I+ ++ K + + L DV I +
Sbjct: 41 GRQAKTPERYLKI----RNYILDQWEICKPKYLNKTSVRPGLKNCGDVNCIGRIHTYLEL 96
Query: 196 ---INYEAP 201
IN+
Sbjct: 97 IGAINFGCE 105
>1jqn_A Pepcase, PEPC, phosphoenolpyruvate carboxylase; beta barrel, Mn2+
and DCDP complex, lyase; HET: DCO; 2.35A {Escherichia
coli} SCOP: c.1.12.3 PDB: 1fiy_A* 1qb4_A
Length = 883
Score = 27.0 bits (60), Expect = 6.9
Identities = 5/43 (11%), Positives = 12/43 (27%), Gaps = 5/43 (11%)
Query: 136 IDNVATKGAGTKMNIAEVYSDLKFDQR-----NKIIQEFRRRK 173
+ + A + +AE Y D+ ++
Sbjct: 764 LGMLEMVFAKADLWLAEYYDQRLVDKALWPLGKELRNLQEEDI 806
>1ntg_A Tyrrs, tyrosyl-tRNA synthetase; beta barrel, ligase; 2.21A {Homo
sapiens} SCOP: b.40.4.4
Length = 172
Score = 26.3 bits (58), Expect = 7.3
Identities = 13/43 (30%), Positives = 21/43 (48%), Gaps = 4/43 (9%)
Query: 76 SGFIGKFTTPAELSEKLTTCSTNLKPLVLYQLIRKHAMQGVLC 118
SG + +F EL ++L NLKP + + + M +LC
Sbjct: 46 SG-LVQFVPKEELQDRLVVVLCNLKPQKM-RGVESQGM--LLC 84
>2cwp_A Metrs related protein; structural GEN riken structural
genomics/proteomics initiative, RSGI; 2.10A {Pyrococcus
horikoshii}
Length = 112
Score = 25.6 bits (57), Expect = 7.4
Identities = 10/26 (38%), Positives = 11/26 (42%), Gaps = 1/26 (3%)
Query: 76 SGFIGKFTTPAELSEKLTTCSTNLKP 101
+G I P EL K NLKP
Sbjct: 50 TG-IADQIPPEELEGKKFIFVVNLKP 74
>3g13_A Putative conjugative transposon recombinase; resolvase, PSI-II,
target 11223F, structural genomics, prote structure
initiative; 2.00A {Clostridium difficile}
Length = 169
Score = 26.0 bits (58), Expect = 7.7
Identities = 8/39 (20%), Positives = 19/39 (48%), Gaps = 8/39 (20%)
Query: 148 MNIAEVYSD-----LKFDQR---NKIIQEFRRRKIDLVV 178
+A++Y+D + +R ++I + +ID+V
Sbjct: 42 WVLADIYADEAITGTQVTKREDFQRMINDCMNGEIDMVF 80
>2xs6_A Phosphatidylinositol 3-kinase regulatory subunit; structural
genomics consortium, SGC, transferase; 2.09A {Homo
sapiens}
Length = 214
Score = 26.3 bits (58), Expect = 7.8
Identities = 6/33 (18%), Positives = 9/33 (27%), Gaps = 5/33 (15%)
Query: 126 AHR--LARLLHHIDNVATKGAGTKM---NIAEV 153
L LL H+ VA + +
Sbjct: 133 HRALTLRFLLQHLGRVARRAPALGPAVRALGAT 165
>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 = 26.0 bits (58), Expect = 9.2
Identities = 11/29 (37%), Positives = 15/29 (51%)
Query: 20 PSRPQRLLFSATLSHDPEKLHQLSLFQPK 48
P Q LLFSATL ++L + + P
Sbjct: 173 PPSRQTLLFSATLPSWAKRLAERYMKNPV 201
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 26.0 bits (58), Expect = 9.6
Identities = 11/24 (45%), Positives = 13/24 (54%), Gaps = 3/24 (12%)
Query: 20 PSRPQRLLFSATLSHDPEKLHQLS 43
P Q L+FSAT+ PEKL
Sbjct: 179 PKDLQMLVFSATI---PEKLKPFL 199
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
0.320 0.135 0.390
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: 3,495,354
Number of extensions: 206031
Number of successful extensions: 773
Number of sequences better than 10.0: 1
Number of HSP's gapped: 747
Number of HSP's successfully gapped: 96
Length of query: 231
Length of database: 6,701,793
Length adjustment: 90
Effective length of query: 141
Effective length of database: 4,188,903
Effective search space: 590635323
Effective search space used: 590635323
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.1 bits)