RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy3307
(130 letters)
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 194 bits (496), Expect = 3e-62
Identities = 75/119 (63%), Positives = 93/119 (78%), Gaps = 2/119 (1%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
F D++M EII NI L RY +PTPVQK+AIP+I RD+MACAQTGSGKTAAFL+PIL+Q
Sbjct: 17 FSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQTGSGKTAAFLLPILSQ 76
Query: 73 MYERGPLPTPPAGR--GYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129
+Y GP A + G R+K +P+ LVLAPTRELA QIY+EA+KF+YRS++RPCVV
Sbjct: 77 IYSDGPGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQIYEEARKFSYRSRVRPCVV 135
>1wrb_A DJVLGB; RNA helicase, DEAD BOX, VASA, structural genomics, NPPSFA,
N project on protein structural and functional analyses;
2.40A {Dugesia japonica} SCOP: c.37.1.19
Length = 253
Score = 186 bits (476), Expect = 4e-61
Identities = 59/117 (50%), Positives = 77/117 (65%), Gaps = 7/117 (5%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
FD++++ I NNI LA Y +PTP+QK AIP I+ RD+MACAQTGSGKTAAFL+PI+N
Sbjct: 25 FDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMACAQTGSGKTAAFLIPIINH 84
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129
+ + K +P L+LAPTRELA QI E++KF+ + LR CVV
Sbjct: 85 LVCQDLNQQRY-------SKTAYPKCLILAPTRELAIQILSESQKFSLNTPLRSCVV 134
>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 = 183 bits (468), Expect = 6e-58
Identities = 54/117 (46%), Positives = 77/117 (65%), Gaps = 11/117 (9%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
F + +II +N+ + Y PTP+QK +IPVI SGRD+MACAQTGSGKTAAFL+PIL++
Sbjct: 58 FTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSK 117
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129
+ E + P ++++PTRELA QI++EA+KFA+ S L+ +V
Sbjct: 118 LLEDPHE-----------LELGRPQVVIVSPTRELAIQIFNEARKFAFESYLKIGIV 163
>3fe2_A Probable ATP-dependent RNA helicase DDX5; DEAD, ADP, ATP-binding,
hydrolase, nucleotide- RNA-binding, methylation, mRNA
processing, mRNA S nucleus; HET: ADP; 2.60A {Homo
sapiens}
Length = 242
Score = 156 bits (398), Expect = 2e-49
Identities = 36/117 (30%), Positives = 59/117 (50%), Gaps = 11/117 (9%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
F + + + IA + +PT +Q PV +SG D++ AQTGSGKT ++L+P +
Sbjct: 31 FYEANFPANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVH 90
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129
+ + L + P+ LVLAPTRELA Q+ A ++ +L+ +
Sbjct: 91 INHQPFL-----------ERGDGPICLVLAPTRELAQQVQQVAAEYCRACRLKSTCI 136
>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 = 152 bits (387), Expect = 8e-48
Identities = 43/121 (35%), Positives = 65/121 (53%), Gaps = 19/121 (15%)
Query: 13 FDDIQMT----EIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVP 68
F + + NI A + PTP+Q AIPV++ GR+++A A TGSGKT AF +P
Sbjct: 27 FQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHGRELLASAPTGSGKTLAFSIP 86
Query: 69 ILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCV 128
IL Q+ + PA +G L+++PTRELA+QI+ E K + + R +
Sbjct: 87 ILMQLKQ-------PANKG--------FRALIISPTRELASQIHRELIKISEGTGFRIHM 131
Query: 129 V 129
+
Sbjct: 132 I 132
>3iuy_A Probable ATP-dependent RNA helicase DDX53; REC-A-like, DEAD-BOX,
structural genomics, structural genomi consortium, SGC,
ATP-binding, hydrolase; HET: AMP; 2.40A {Homo sapiens}
Length = 228
Score = 138 bits (350), Expect = 2e-42
Identities = 35/108 (32%), Positives = 54/108 (50%), Gaps = 11/108 (10%)
Query: 22 ITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPT 81
+ +I KPTP+Q A P+I+ G D++ AQTG+GKT ++L+P + +
Sbjct: 31 LLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISRE 90
Query: 82 PPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129
G P LVL PTRELA + E K++Y+ L+ +
Sbjct: 91 QRNG----------PGMLVLTPTRELALHVEAECSKYSYKG-LKSICI 127
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 134 bits (340), Expect = 3e-39
Identities = 20/110 (18%), Positives = 33/110 (30%), Gaps = 20/110 (18%)
Query: 20 EIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPL 79
E + T Q+ I+ G+ A TG GKT ++ L +G
Sbjct: 8 EDFRSFFKKKFGKDLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLA-RKGK- 65
Query: 80 PTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129
K ++ PT L Q + +K A ++
Sbjct: 66 -------------KS----ALVFPTVTLVKQTLERLQKLADEK-VKIFGF 97
>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 = 120 bits (304), Expect = 2e-35
Identities = 36/121 (29%), Positives = 58/121 (47%), Gaps = 12/121 (9%)
Query: 9 KKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVP 68
+ F D +++ + A+Y T +QK I + + G+DV+ A+TGSGKT AFLVP
Sbjct: 23 EITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVP 82
Query: 69 ILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCV 128
+L +Y T G L+++PTRELA Q ++ +K +
Sbjct: 83 VLEALYRLQWTSTDGLG------------VLIISPTRELAYQTFEVLRKVGKNHDFSAGL 130
Query: 129 V 129
+
Sbjct: 131 I 131
>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 = 116 bits (292), Expect = 2e-33
Identities = 40/117 (34%), Positives = 63/117 (53%), Gaps = 16/117 (13%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
F D+ +T+++ + KPT +Q AIP+ + GRD++ A+TGSGKT AF +PILN
Sbjct: 45 FKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNA 104
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129
+ E +++F LVL PTRELA QI ++ + ++ V+
Sbjct: 105 LLET--------------PQRLF--ALVLTPTRELAFQISEQFEALGSSIGVQSAVI 145
>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 = 116 bits (292), Expect = 3e-33
Identities = 33/125 (26%), Positives = 55/125 (44%), Gaps = 14/125 (11%)
Query: 7 SLKKQGFDD--IQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAA 64
+ + F + E I + T +Q +I ++ GRD++A A+TGSGKT A
Sbjct: 48 AFEDTSFASLCNLVNENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLA 107
Query: 65 FLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQL 124
FL+P + + + +P G L+L+PTRELA Q + K+
Sbjct: 108 FLIPAVELIVKLRFMPRNGTG------------VLILSPTRELAMQTFGVLKELMTHHVH 155
Query: 125 RPCVV 129
++
Sbjct: 156 TYGLI 160
>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 = 113 bits (284), Expect = 1e-30
Identities = 34/113 (30%), Positives = 50/113 (44%), Gaps = 14/113 (12%)
Query: 9 KKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFL 66
++ + + I I + TPVQ+ I I+S DV+A A+TG+GKT AFL
Sbjct: 19 LDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFL 78
Query: 67 VPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
+PI + +++APTR+LA QI E KK
Sbjct: 79 IPIFQHLINTKFDSQYMVK------------AVIVAPTRDLALQIEAEVKKIH 119
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 108 bits (271), Expect = 1e-30
Identities = 36/111 (32%), Positives = 53/111 (47%), Gaps = 16/111 (14%)
Query: 9 KKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVP 68
+ F I I R+ KPT +Q+ IP + G ++ +QTG+GKT A+L+P
Sbjct: 2 AETQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYLLP 61
Query: 69 ILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
I+ ++ P R + ++ APTRELATQIY E K
Sbjct: 62 IMEKI--------------KPERAE--VQAVITAPTRELATQIYHETLKIT 96
>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 = 112 bits (281), Expect = 3e-30
Identities = 34/115 (29%), Positives = 50/115 (43%), Gaps = 14/115 (12%)
Query: 7 SLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAA 64
++ + + I I + TPVQ+ I I+S DV+A A+TG+GKT A
Sbjct: 68 VTLDSLLEEGVLDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFA 127
Query: 65 FLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
FL+PI + +++APTR+LA QI E KK
Sbjct: 128 FLIPIFQHLINTKFDSQYMVK------------AVIVAPTRDLALQIEAEVKKIH 170
>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 = 103 bits (260), Expect = 5e-29
Identities = 37/107 (34%), Positives = 53/107 (49%), Gaps = 13/107 (12%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
F D + I + PTP+Q A+P+ + G+D++ A+TG+GKT AF +PI +
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
+ P+ GR P LVL PTRELA Q+ E A
Sbjct: 63 L-----APSQERGRK--------PRALVLTPTRELALQVASELTAVA 96
>1vec_A ATP-dependent RNA helicase P54; DEAD-box protein, RNA binding
protein; HET: TLA; 2.01A {Homo sapiens} SCOP: c.37.1.19
Length = 206
Score = 99.1 bits (248), Expect = 2e-27
Identities = 31/111 (27%), Positives = 58/111 (52%), Gaps = 16/111 (14%)
Query: 9 KKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVP 68
K F+D + + I ++KP+P+Q+ +IP+ +SGRD++A A+ G+GK+ A+L+P
Sbjct: 1 KGNEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIP 60
Query: 69 ILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
+L ++ + +V+ PTRELA Q+ + +
Sbjct: 61 LLERL--------------DLKKDN--IQAMVIVPTRELALQVSQICIQVS 95
>1t6n_A Probable ATP-dependent RNA helicase; RECA-like fold, PRE-mRNA
processing protein; HET: FLC; 1.94A {Homo sapiens} SCOP:
c.37.1.19
Length = 220
Score = 99.6 bits (249), Expect = 2e-27
Identities = 36/114 (31%), Positives = 53/114 (46%), Gaps = 16/114 (14%)
Query: 6 VSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65
VS+ GF D + + I ++ P+ VQ IP I G DV+ A++G GKTA F
Sbjct: 9 VSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVF 68
Query: 66 LVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
++ L Q+ P + LV+ TRELA QI E ++F+
Sbjct: 69 VLATLQQL--------------EPVTGQ--VSVLVMCHTRELAFQISKEYERFS 106
>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 = 101 bits (254), Expect = 5e-27
Identities = 30/99 (30%), Positives = 44/99 (44%), Gaps = 22/99 (22%)
Query: 31 YDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPS 90
+ T VQ IP+++ G++V+ A+TGSGKTAA+ +PIL E G
Sbjct: 14 FKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPIL----ELG------------- 56
Query: 91 RKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVV 129
LV+ PTREL Q+ + + V
Sbjct: 57 -----MKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEV 90
>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 = 101 bits (255), Expect = 5e-27
Identities = 37/114 (32%), Positives = 59/114 (51%), Gaps = 16/114 (14%)
Query: 6 VSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65
++ K F+D + + I A ++KP+P+Q+ AIPV I+GRD++A A+ G+GKTAAF
Sbjct: 16 LNTKGNTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAF 75
Query: 66 LVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
++P L ++ K L++ PTRELA Q +
Sbjct: 76 VIPTLEKV----------------KPKLNKIQALIMVPTRELALQTSQVVRTLG 113
>2oxc_A Probable ATP-dependent RNA helicase DDX20; DEAD, structural
genomics, structural genomics consortium, SGC,
hydrolase; HET: ADP; 1.30A {Homo sapiens} PDB: 3b7g_A*
Length = 230
Score = 98.5 bits (246), Expect = 8e-27
Identities = 28/114 (24%), Positives = 51/114 (44%), Gaps = 16/114 (14%)
Query: 6 VSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAF 65
+ + F+ + ++ + + A +++P+PVQ AIP+ G D++ A++G+GKT F
Sbjct: 19 LLAEPADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVF 78
Query: 66 LVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
L+ + L+LAPTRE+A QI+
Sbjct: 79 STIALDSL--------------VLENLS--TQILILAPTREIAVQIHSVITAIG 116
>1qde_A EIF4A, translation initiation factor 4A; DEAD box protein family,
gene regulation; 2.00A {Saccharomyces cerevisiae} SCOP:
c.37.1.19 PDB: 1qva_A
Length = 224
Score = 98.4 bits (246), Expect = 9e-27
Identities = 37/107 (34%), Positives = 55/107 (51%), Gaps = 16/107 (14%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
FDD+++ E + + +++P+ +Q+ AI II G DV+A AQ+G+GKT F + L +
Sbjct: 16 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 75
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
+ S K P L+LAPTRELA QI A
Sbjct: 76 I--------------DTSVKA--PQALMLAPTRELALQIQKVVMALA 106
>3bor_A Human initiation factor 4A-II; translation initiation, DEAD BOX,
structural genomics, helic binding, HOST-virus
interaction, hydrolase; 1.85A {Homo sapiens} PDB:
2g9n_A*
Length = 237
Score = 98.4 bits (246), Expect = 1e-26
Identities = 39/107 (36%), Positives = 53/107 (49%), Gaps = 16/107 (14%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
FDD+ + E + I ++KP+ +Q+ AI I G DV+A AQ+G+GKTA F + IL Q
Sbjct: 32 FDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQ 91
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
+ K+ LVLAPTRELA QI
Sbjct: 92 L--------------EIEFKE--TQALVLAPTRELAQQIQKVILALG 122
>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 = 99 bits (250), Expect = 2e-26
Identities = 32/121 (26%), Positives = 62/121 (51%), Gaps = 18/121 (14%)
Query: 6 VSLKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGR-DVMACAQTGSGKTAA 64
+ ++ F+++ +++ I N I ++KPT +Q IP+ ++ +++A A+TGSGKTA+
Sbjct: 1 MEVEYMNFNELNLSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTAS 60
Query: 65 FLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQL 124
F +P++ + + ++L PTRELA Q+ DE + L
Sbjct: 61 FAIPLIELV--------------NENNG---IEAIILTPTRELAIQVADEIESLKGNKNL 103
Query: 125 R 125
+
Sbjct: 104 K 104
>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 = 99 bits (250), Expect = 3e-26
Identities = 35/107 (32%), Positives = 53/107 (49%), Gaps = 16/107 (14%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
FDD+++ E + + +++P+ +Q+ AI II G DV+A AQ+G+GKT F + L +
Sbjct: 23 FDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQR 82
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
+ P L+LAPTRELA QI A
Sbjct: 83 I----------------DTSVKAPQALMLAPTRELALQIQKVVMALA 113
>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 = 99.6 bits (249), Expect = 4e-26
Identities = 35/108 (32%), Positives = 51/108 (47%), Gaps = 16/108 (14%)
Query: 12 GFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILN 71
GF D + + I ++ P+ VQ IP I G DV+ A++G GKTA F++ L
Sbjct: 9 GFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVLATLQ 68
Query: 72 QMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
Q+ P +V LV+ TRELA QI E ++F+
Sbjct: 69 QL--------------EPVTGQVS--VLVMCHTRELAFQISKEYERFS 100
>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 = 99.2 bits (248), Expect = 6e-26
Identities = 38/107 (35%), Positives = 52/107 (48%), Gaps = 16/107 (14%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
FDD+ ++E + I ++KP+ +Q+ AI I G DV+A AQ+G+GKTA F + IL Q
Sbjct: 42 FDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQ 101
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
+ LVLAPTRELA QI
Sbjct: 102 I----------------ELDLKATQALVLAPTRELAQQIQKVVMALG 132
>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 = 99.2 bits (248), Expect = 6e-26
Identities = 35/107 (32%), Positives = 52/107 (48%), Gaps = 16/107 (14%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQ 72
FD + + E + I ++KP+ +Q+ AI II GRDV+A +Q+G+GKTA F + +L
Sbjct: 39 FDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQC 98
Query: 73 MYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
+ + L+LAPTRELA QI
Sbjct: 99 L----------------DIQVRETQALILAPTRELAVQIQKGLLALG 129
>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 = 91.1 bits (227), Expect = 6e-23
Identities = 28/109 (25%), Positives = 58/109 (53%), Gaps = 18/109 (16%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 70
FD++ + + I ++ KP+ +Q+ A+P+++ R+++A +Q+G+GKTAAF + +L
Sbjct: 7 FDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTML 66
Query: 71 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
++ + + P + LAP+RELA Q + ++
Sbjct: 67 TRV----------------NPEDASPQAICLAPSRELARQTLEVVQEMG 99
>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 = 91.1 bits (227), Expect = 7e-23
Identities = 25/109 (22%), Positives = 59/109 (54%), Gaps = 18/109 (16%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 70
F+++++ + + +++P+ +Q+ A+P++++ ++++A +Q+G+GKTAAF++ +L
Sbjct: 27 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 86
Query: 71 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
+Q+ +P L L+PT ELA Q ++
Sbjct: 87 SQV----------------EPANKYPQCLCLSPTYELALQTGKVIEQMG 119
>3fmo_B ATP-dependent RNA helicase DDX19B; nuclear porin, nuclear pore
complex, nucleocytoplasmic trans mRNA export, protein
interaction, beta-propeller; HET: ADP; 2.51A {Homo
sapiens}
Length = 300
Score = 89.0 bits (221), Expect = 1e-22
Identities = 27/109 (24%), Positives = 61/109 (55%), Gaps = 18/109 (16%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 70
F+++++ + + +++P+ +Q+ A+P++++ ++++A +Q+G+GKTAAF++ +L
Sbjct: 94 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 153
Query: 71 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
+Q+ P+ K P L L+PT ELA Q ++
Sbjct: 154 SQV--------------EPANKY--PQCLCLSPTYELALQTGKVIEQMG 186
>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 = 89.7 bits (223), Expect = 3e-22
Identities = 25/109 (22%), Positives = 59/109 (54%), Gaps = 18/109 (16%)
Query: 13 FDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPIL 70
F+++++ + + +++P+ +Q+ A+P++++ ++++A +Q+G+GKTAAF++ +L
Sbjct: 94 FEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAML 153
Query: 71 NQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKFA 119
+Q+ +P L L+PT ELA Q ++
Sbjct: 154 SQV----------------EPANKYPQCLCLSPTYELALQTGKVIEQMG 186
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 86.5 bits (215), Expect = 3e-21
Identities = 25/85 (29%), Positives = 45/85 (52%), Gaps = 18/85 (21%)
Query: 37 VQKYAIPVIISG--RDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKV 94
+Q+ A+P+++S R+++ +Q+G+GKTAAF + +L+++
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV----------------DASVP 188
Query: 95 FPLGLVLAPTRELATQIYDEAKKFA 119
P + LAP+RELA QI D +
Sbjct: 189 KPQAICLAPSRELARQIMDVVTEMG 213
>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 = 46.7 bits (110), Expect = 3e-07
Identities = 17/86 (19%), Positives = 31/86 (36%), Gaps = 19/86 (22%)
Query: 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 92
+P Q+ + + TG GKT ++ ++ + G
Sbjct: 9 QPRIYQEVIYAKCK-ETNCLIVLPTGLGKTLIAMMIAEYRLTKYG--------------G 53
Query: 93 KVFPLGLVLAPTRELATQIYDEAKKF 118
KV L+LAPT+ L Q + ++
Sbjct: 54 KV----LMLAPTKPLVLQHAESFRRL 75
>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 = 44.8 bits (106), Expect = 2e-06
Identities = 18/84 (21%), Positives = 36/84 (42%), Gaps = 19/84 (22%)
Query: 36 PVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVF 95
P Q A+ + SG++++ T +GKT + ++ + + G K ++
Sbjct: 28 PPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKGG--------------KSLY 73
Query: 96 PLGLVLAPTRELATQIYDEAKKFA 119
+ P R LA + Y+ KK+
Sbjct: 74 -----VVPLRALAGEKYESFKKWE 92
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 44.3 bits (105), Expect = 2e-06
Identities = 18/85 (21%), Positives = 32/85 (37%), Gaps = 19/85 (22%)
Query: 36 PVQKYAIPVII-SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKV 94
P Q A+ + G ++ + TGSGKT + I++ + + G K
Sbjct: 33 PPQTEAVKKGLLEGNRLLLTSPTGSGKTLIAEMGIISFLLKNG--------------GKA 78
Query: 95 FPLGLVLAPTRELATQIYDEAKKFA 119
+ + P R L + Y K +
Sbjct: 79 ----IYVTPLRALTNEKYLTFKDWE 99
>3b6e_A Interferon-induced helicase C domain-containing P; DECH, DEXD/H
RNA-binding helicase, innate immunity, IFIH1, S
genomics; 1.60A {Homo sapiens}
Length = 216
Score = 43.7 bits (103), Expect = 3e-06
Identities = 16/81 (19%), Positives = 31/81 (38%), Gaps = 15/81 (18%)
Query: 38 QKYAIPVIISGRDVMACAQTGSGKTA-AFLVPILNQMYERGPLPTPPAGRGYPSRKKVFP 96
Q + G++++ C TGSGKT A + + ++ + KV
Sbjct: 38 QMEVAQPALEGKNIIICLPTGSGKTRVAVYI-AKD-HLDKKKKASE--------PGKV-- 85
Query: 97 LGLVLAPTRELATQIYDEAKK 117
+VL L Q++ + +
Sbjct: 86 --IVLVNKVLLVEQLFRKEFQ 104
>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 = 42.1 bits (99), Expect = 1e-05
Identities = 17/85 (20%), Positives = 35/85 (41%), Gaps = 19/85 (22%)
Query: 36 PVQKYAIPVII-SGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKV 94
P Q A+ I G++ + T SGKT + +++++ +G K V
Sbjct: 26 PPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQG-------------GKAV 72
Query: 95 FPLGLVLAPTRELATQIYDEAKKFA 119
+ + P + LA + + E + +
Sbjct: 73 Y-----IVPLKALAEEKFQEFQDWE 92
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 41.4 bits (96), Expect = 2e-05
Identities = 15/81 (18%), Positives = 27/81 (33%), Gaps = 14/81 (17%)
Query: 38 QKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPL 97
Q G++ + CA TG GKT L+ + ++ P + KV
Sbjct: 9 QLELALPAKKGKNTIICAPTGCGKTFVSLLICEH-HLKKFP---------CGQKGKV--- 55
Query: 98 GLVLAPTRELATQIYDEAKKF 118
+ A + Q ++
Sbjct: 56 -VFFANQIPVYEQQATVFSRY 75
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 38.4 bits (88), Expect = 2e-04
Identities = 18/86 (20%), Positives = 30/86 (34%), Gaps = 14/86 (16%)
Query: 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 92
KP Q + G++ + CA TG GKT L+ + ++ P +
Sbjct: 13 KPRNYQLELALPAMKGKNTIICAPTGCGKTFVSLLICEH-HLKKFP---------QGQKG 62
Query: 93 KVFPLGLVLAPTRELATQIYDEAKKF 118
KV + A + Q K+
Sbjct: 63 KV----VFFANQIPVYEQNKSVFSKY 84
>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 = 38.3 bits (88), Expect = 3e-04
Identities = 12/27 (44%), Positives = 14/27 (51%)
Query: 36 PVQKYAIPVIISGRDVMACAQTGSGKT 62
P Q AI I G V+ A T +GKT
Sbjct: 187 PFQDTAISCIDRGESVLVSAHTSAGKT 213
>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 = 38.2 bits (88), Expect = 4e-04
Identities = 12/27 (44%), Positives = 14/27 (51%)
Query: 36 PVQKYAIPVIISGRDVMACAQTGSGKT 62
P Q AI I G V+ A T +GKT
Sbjct: 89 PFQDTAISCIDRGESVLVSAHTSAGKT 115
>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 = 36.8 bits (84), Expect = 9e-04
Identities = 19/81 (23%), Positives = 30/81 (37%), Gaps = 14/81 (17%)
Query: 38 QKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPL 97
Q I+G++ + CA TGSGKT ++ + ++ P K VF
Sbjct: 12 QIELAQPAINGKNALICAPTGSGKTFVSILICEH-HFQNMPAGRK--------AKVVF-- 60
Query: 98 GLVLAPTRELATQIYDEAKKF 118
LA + Q + K
Sbjct: 61 ---LATKVPVYEQQKNVFKHH 78
>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 = 36.1 bits (82), Expect = 0.002
Identities = 20/86 (23%), Positives = 31/86 (36%), Gaps = 14/86 (16%)
Query: 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 92
K Q I+G++ + CA TGSGKT ++ + ++ P K
Sbjct: 248 KARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEH-HFQNMPAGRK--------AK 298
Query: 93 KVFPLGLVLAPTRELATQIYDEAKKF 118
VF LA + Q + K
Sbjct: 299 VVF-----LATKVPVYEQQKNVFKHH 319
>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 = 35.2 bits (81), Expect = 0.003
Identities = 16/77 (20%), Positives = 27/77 (35%), Gaps = 18/77 (23%)
Query: 36 PVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVF 95
P + + R + G+GKT L I+ + R +
Sbjct: 7 PDYEVDEDIFRKKRLTIMDLHPGAGKTKRILPSIVREALLRR--------------LRT- 51
Query: 96 PLGLVLAPTRELATQIY 112
L+LAPTR +A ++
Sbjct: 52 ---LILAPTRVVAAEME 65
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 34.7 bits (80), Expect = 0.004
Identities = 18/82 (21%), Positives = 26/82 (31%), Gaps = 18/82 (21%)
Query: 44 VIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAP 103
+ V + TGSGKT L L ER + KV L
Sbjct: 18 SLQKSYGVALESPTGSGKTIMALKSALQYSSER--------------KLKVL----YLVR 59
Query: 104 TRELATQIYDEAKKFAYRSQLR 125
T Q+ E + + ++R
Sbjct: 60 TNSQEEQVIKELRSLSSTMKIR 81
>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 = 34.4 bits (79), Expect = 0.006
Identities = 17/71 (23%), Positives = 28/71 (39%), Gaps = 18/71 (25%)
Query: 44 VIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAP 103
++ G + G+GKT FL IL + R + LVLAP
Sbjct: 4 MLKKGMTTVLDFHPGAGKTRRFLPQILAECARRR--------------LRT----LVLAP 45
Query: 104 TRELATQIYDE 114
TR + +++ +
Sbjct: 46 TRVVLSEMKEA 56
>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 = 33.6 bits (77), Expect = 0.010
Identities = 18/113 (15%), Positives = 29/113 (25%), Gaps = 26/113 (23%)
Query: 8 LKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKT--AAF 65
+ G + + Q+ A+ + + TGSGKT A
Sbjct: 68 FESNGIEFVDNAADPIPTPYFDAEISLRDYQEKALERWLVDKRGCIVLPTGSGKTHVAMA 127
Query: 66 LVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118
+ L L++ PT LA Q + F
Sbjct: 128 AINEL--------------------STPT----LIVVPTLALAEQWKERLGIF 156
>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 = 32.6 bits (73), Expect = 0.025
Identities = 20/86 (23%), Positives = 31/86 (36%), Gaps = 14/86 (16%)
Query: 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 92
K Q I+G++ + CA TGSGKT ++ + ++ P K
Sbjct: 248 KARSYQIELAQPAINGKNALICAPTGSGKTFVSILICEH-HFQNMPAGRK--------AK 298
Query: 93 KVFPLGLVLAPTRELATQIYDEAKKF 118
VF LA + Q + K
Sbjct: 299 VVF-----LATKVPVYEQQKNVFKHH 319
>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 = 32.7 bits (75), Expect = 0.025
Identities = 21/98 (21%), Positives = 39/98 (39%), Gaps = 19/98 (19%)
Query: 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 92
+P +QK I+ A A TG GKT+ F + + + +G K
Sbjct: 56 EPRAIQKMWAKRILRKESFAATAPTGVGKTS-FGLAMSLFLALKG--------------K 100
Query: 93 KVFPLGLVLAPTRELATQIYDEAKKFAYRSQLRPCVVL 130
+ V+ PT L Q + +K+A ++ + ++
Sbjct: 101 RC----YVIFPTSLLVIQAAETIRKYAEKAGVGTENLI 134
>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 = 32.1 bits (73), Expect = 0.040
Identities = 18/83 (21%), Positives = 28/83 (33%), Gaps = 26/83 (31%)
Query: 32 DKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSR 91
P ++K + V+ GSGKT L I+ R
Sbjct: 13 GSPNMLRKRQMTVLD--------LHPGSGKTRKILPQIIKD--------------AIQQR 50
Query: 92 KKVFPLGLVLAPTRELATQIYDE 114
+ VLAPTR +A ++ +
Sbjct: 51 LRT----AVLAPTRVVAAEMAEA 69
>4a4z_A Antiviral helicase SKI2; hydrolase, ATPase, mRNA degradation,
exosome; HET: ANP; 2.40A {Saccharomyces cerevisiae}
PDB: 4a4k_A
Length = 997
Score = 31.7 bits (71), Expect = 0.061
Identities = 10/28 (35%), Positives = 13/28 (46%)
Query: 36 PVQKYAIPVIISGRDVMACAQTGSGKTA 63
QK A+ + G V A T +GKT
Sbjct: 42 TFQKEAVYHLEQGDSVFVAAHTSAGKTV 69
>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 = 30.9 bits (70), Expect = 0.11
Identities = 20/96 (20%), Positives = 30/96 (31%), Gaps = 25/96 (26%)
Query: 33 KPTPVQKYAIP----VIISGRD----VMACAQTGSGKT--AAFLVPILNQMYERGPLPTP 82
P Q+ AI ++ G+ MA TG+GKT A + L
Sbjct: 178 SPRYYQQIAINRAVQSVLQGKKRSLITMA---TGTGKTVVAFQISWKL--------WSAR 226
Query: 83 PAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118
G + ++ L LA L D+
Sbjct: 227 WNRTGDYRKPRI----LFLADRNVLVDDPKDKTFTP 258
>2v6i_A RNA helicase; membrane, hydrolase, transmembrane, RNA replication,
viral replication, nucleotide-binding; 2.10A {Kokobera
virus} PDB: 2v6j_A
Length = 431
Score = 30.2 bits (68), Expect = 0.16
Identities = 12/57 (21%), Positives = 23/57 (40%), Gaps = 18/57 (31%)
Query: 55 AQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQI 111
G+GKT L ++ + R + ++LAPTR +A+++
Sbjct: 9 LHPGAGKTRRVLPQLVRE--------------AVKKRLRT----VILAPTRVVASEM 47
>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 = 29.9 bits (67), Expect = 0.21
Identities = 16/82 (19%), Positives = 28/82 (34%), Gaps = 18/82 (21%)
Query: 33 KPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRK 92
P + + R + G+GKT L I+ + R
Sbjct: 171 IGEPDYEVDEDIFRKKRLTIMDLHPGAGKTKRILPSIVRE--------------ALKRRL 216
Query: 93 KVFPLGLVLAPTRELATQIYDE 114
+ L+LAPTR +A ++ +
Sbjct: 217 RT----LILAPTRVVAAEMEEA 234
>3crv_A XPD/RAD3 related DNA helicase; XPD helicase DNA repair cancer
aging, hydrolase; HET: FLC; 2.00A {Sulfolobus
acidocaldarius} PDB: 3crw_1*
Length = 551
Score = 29.6 bits (66), Expect = 0.24
Identities = 18/97 (18%), Positives = 27/97 (27%), Gaps = 26/97 (26%)
Query: 33 KPTPVQK-YAIPV---IISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGY 88
K Q+ V + + V A TGSGKT L+ L +
Sbjct: 3 KLRDWQEKLKDKVIEGLRNNFLVALNAPTGSGKTLFSLLVSLEVKPK------------- 49
Query: 89 PSRKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQLR 125
L + T IY + K + +
Sbjct: 50 ---------VLFVVRTHNEFYPIYRDLTKIREKRNIT 77
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Length = 540
Score = 29.6 bits (66), Expect = 0.32
Identities = 16/78 (20%), Positives = 25/78 (32%), Gaps = 22/78 (28%)
Query: 45 IISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPT 104
+ G+ ++ A+ G GKT V G +KKV + T
Sbjct: 23 LKHGKTLLLNAKPGLGKTVFVEVL------------------GMQLKKKVL----IFTRT 60
Query: 105 RELATQIYDEAKKFAYRS 122
IY AK ++
Sbjct: 61 HSQLDSIYKNAKLLGLKT 78
>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 = 29.0 bits (66), Expect = 0.44
Identities = 19/64 (29%), Positives = 28/64 (43%), Gaps = 26/64 (40%)
Query: 57 TGSGKTA--AFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDE 114
TG+GKT + L+ +N+ PT LV+A + LA Q+Y E
Sbjct: 41 TGTGKTFTVSNLIKEVNK-------PT-----------------LVIAHNKTLAGQLYSE 76
Query: 115 AKKF 118
K+F
Sbjct: 77 FKEF 80
>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 = 28.7 bits (65), Expect = 0.47
Identities = 17/64 (26%), Positives = 25/64 (39%), Gaps = 26/64 (40%)
Query: 57 TGSGKTA--AFLVPILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDE 114
TG+GKT A ++ L + P LVLAP + LA Q+ E
Sbjct: 37 TGTGKTVTMAKVIEALGR-------PA-----------------LVLAPNKILAAQLAAE 72
Query: 115 AKKF 118
++
Sbjct: 73 FREL 76
>1e9r_A Conjugal transfer protein TRWB; coupling protein, bacterial
conjugation, F1-ATPase-like quaternary structure, ring
helicases; 2.4A {Escherichia coli} SCOP: c.37.1.11 PDB:
1e9s_A 1gki_A* 1gl7_A* 1gl6_A*
Length = 437
Score = 28.3 bits (63), Expect = 0.63
Identities = 10/48 (20%), Positives = 18/48 (37%), Gaps = 3/48 (6%)
Query: 32 DKPTPVQKYAIPVIISGRD--VMACAQTGSGKTAAFLVPILNQMYERG 77
+K V +P+ ++ TG+GK+ L + RG
Sbjct: 35 EKAKQVTVAGVPMPRDAEPRHLLVNGATGTGKS-VLLRELAYTGLLRG 81
>3rc3_A ATP-dependent RNA helicase SUPV3L1, mitochondrial; SUV3, nucleus,
hydrolase; HET: ANP; 2.08A {Homo sapiens} PDB: 3rc8_A
Length = 677
Score = 28.4 bits (62), Expect = 0.66
Identities = 15/94 (15%), Positives = 26/94 (27%), Gaps = 25/94 (26%)
Query: 32 DKPTPVQKYAIPVIISGRDVMACAQTGSGKT-AAFLVPILNQMYERGPLPTPPAGRGYPS 90
D P Y + + + T SGKT A
Sbjct: 139 DLRIPPNWYPDARAMQRKIIFHSGPTNSGKTYHAI------------------------Q 174
Query: 91 RKKVFPLGLVLAPTRELATQIYDEAKKFAYRSQL 124
+ G+ P + LA +I++++ L
Sbjct: 175 KYFSAKSGVYCGPLKLLAHEIFEKSNAAGVPCDL 208
>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 = 28.4 bits (63), Expect = 0.71
Identities = 15/79 (18%), Positives = 20/79 (25%), Gaps = 22/79 (27%)
Query: 36 PVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPAGRGYPSRKKVF 95
V S + A TGSGK+ + +G KV
Sbjct: 220 TDNSSPPAVPQSFQVAHLHAPTGSGKSTK----VPAAYAAQG--------------YKV- 260
Query: 96 PLGLVLAPTRELATQIYDE 114
LVL P+
Sbjct: 261 ---LVLNPSVAATLGFGAY 276
>3u4q_A ATP-dependent helicase/nuclease subunit A; helicase, nuclease,
double strand DNA repair, protein-DNA CO hydrolase-DNA
complex; HET: DNA; 2.80A {Bacillus subtilis} PDB:
3u44_A*
Length = 1232
Score = 27.6 bits (61), Expect = 1.4
Identities = 15/31 (48%), Positives = 18/31 (58%), Gaps = 6/31 (19%)
Query: 35 TPVQKYAIPVIISGRD--VMACAQTGSGKTA 63
T Q AI + +G+D V A A GSGKTA
Sbjct: 12 TDDQWNAI--VSTGQDILVAAAA--GSGKTA 38
>3g85_A Transcriptional regulator (LACI family); transcription regulator,
PSI-II, structural genomics structure initiative; 1.84A
{Clostridium acetobutylicum atcc 824}
Length = 289
Score = 26.8 bits (60), Expect = 1.9
Identities = 5/18 (27%), Positives = 9/18 (50%)
Query: 6 VSLKKQGFDDIQMTEIIT 23
+ + G +D + TE T
Sbjct: 218 IEIVAIGMNDREYTEFST 235
>3l7i_A Teichoic acid biosynthesis protein F; GT-B fold, monotopic
membrane protein, structural protein; 2.70A
{Staphylococcus epidermidis} PDB: 3l7j_A 3l7k_A*
3l7l_A* 3l7m_A*
Length = 729
Score = 27.3 bits (60), Expect = 1.9
Identities = 7/20 (35%), Positives = 10/20 (50%), Gaps = 3/20 (15%)
Query: 3 ECLVSLKKQGFDDIQMTEII 22
CL S+K+Q D +I
Sbjct: 19 GCLESIKQQRTQDF---NLI 35
>2fz4_A DNA repair protein RAD25; RECA-like domain, DNA damage recognition
domain, DNA binding; HET: DNA; 2.40A {Archaeoglobus
fulgidus} SCOP: c.37.1.19
Length = 237
Score = 26.6 bits (59), Expect = 2.1
Identities = 17/111 (15%), Positives = 29/111 (26%), Gaps = 22/111 (19%)
Query: 8 LKKQGFDDIQMTEIITNNIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLV 67
+ G + + Q+ A+ + + TGSGKT
Sbjct: 68 FESNGIEFVDNAADPIPTPYFDAEISLRDYQEKALERWLVDKRGCIVLPTGSGKT----H 123
Query: 68 PILNQMYERGPLPTPPAGRGYPSRKKVFPLGLVLAPTRELATQIYDEAKKF 118
+ + E L++ PT LA Q + F
Sbjct: 124 VAMAAINELS--------------TPT----LIVVPTLALAEQWKERLGIF 156
>1o54_A SAM-dependent O-methyltransferase; TM0748, structural genomi PSI,
protein structure initiative, joint center for structu
genomics; 1.65A {Thermotoga maritima} SCOP: c.66.1.13
Length = 277
Score = 26.9 bits (59), Expect = 2.1
Identities = 7/22 (31%), Positives = 13/22 (59%)
Query: 1 MQECLVSLKKQGFDDIQMTEII 22
+QE L L++ F I++ E +
Sbjct: 219 VQETLKKLQELPFIRIEVWESL 240
>1nlf_A Regulatory protein REPA; replicative DNA helicase structural
changes, replication; 1.95A {Escherichia coli} SCOP:
c.37.1.11 PDB: 1g8y_A 1olo_A
Length = 279
Score = 26.6 bits (58), Expect = 2.6
Identities = 8/36 (22%), Positives = 16/36 (44%)
Query: 27 ALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKT 62
L + P Y +P +++G + G+GK+
Sbjct: 9 ILEAFAAAPPPLDYVLPNMVAGTVGALVSPGGAGKS 44
>3b6u_A Kinesin-like protein KIF3B; structural genomics consortium, motor
domain, ADP, SGC, ATP-binding, coiled coil, microtubule,
motor protein; HET: ADP; 1.80A {Homo sapiens} PDB:
3b6v_A*
Length = 372
Score = 26.4 bits (59), Expect = 3.1
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 51 VMACAQTGSGKT 62
+ A QTG+GKT
Sbjct: 105 IFAYGQTGTGKT 116
>2owm_A Nckin3-434, related to kinesin-like protein KIF1C; motor domain,
ADP, NECK linker, motor PR; HET: ADP; 3.25A {Neurospora
crassa}
Length = 443
Score = 26.2 bits (58), Expect = 3.6
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 51 VMACAQTGSGKT 62
+ A QTGSGK+
Sbjct: 140 IFAYGQTGSGKS 151
>3f2b_A DNA-directed DNA polymerase III alpha chain; DNA polymerase C, DNA
polymerase III; HET: DGT; 2.39A {Geobacillus
kaustophilus} PDB: 3f2c_A* 3f2d_A*
Length = 1041
Score = 26.1 bits (58), Expect = 3.8
Identities = 9/80 (11%), Positives = 22/80 (27%), Gaps = 28/80 (35%)
Query: 1 MQECLVSLKKQGFDD-IQMTEIITNNIALARYDKPTPVQ--------KYAIPV---IISG 48
+++ L + + F + +Q+ L+ T V + +I
Sbjct: 749 VRQMLEETRPKTFSELVQI-------SGLSH---GTDVWLGNAQELIQNGTCTLSEVIGC 798
Query: 49 RD------VMACAQTGSGKT 62
RD + +
Sbjct: 799 RDDIMVYLIYRGLEPSLAFK 818
>3gbj_A KIF13B protein; kinesin, motor domain, ADP, structural genomics,
structural genomics consortium, SGC, ATP-binding,
microtubule, motor protein; HET: ADP; 2.10A {Homo
sapiens}
Length = 354
Score = 26.0 bits (58), Expect = 3.9
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 51 VMACAQTGSGKT 62
+ A QTGSGK+
Sbjct: 96 IFAYGQTGSGKS 107
>2v1x_A ATP-dependent DNA helicase Q1; DNA strand annealing, mismatch
repair, nucleotide-binding, DNA-binding, polymorphism,
nuclear protein, ATPase; HET: ADP; 2.00A {Homo sapiens}
PDB: 2wwy_A*
Length = 591
Score = 26.1 bits (58), Expect = 4.0
Identities = 10/26 (38%), Positives = 15/26 (57%)
Query: 36 PVQKYAIPVIISGRDVMACAQTGSGK 61
P+Q I V ++G++V TG GK
Sbjct: 47 PLQLETINVTMAGKEVFLVMPTGGGK 72
>2nr8_A Kinesin-like protein KIF9; motor domain, ADP, structural genomics,
structural genomics consortium, SGC, contractIle
protein; HET: ADP; 2.00A {Homo sapiens} PDB: 3nwn_A*
Length = 358
Score = 26.1 bits (58), Expect = 4.1
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 51 VMACAQTGSGKT 62
+M QTG+GKT
Sbjct: 107 IMCYGQTGAGKT 118
>1oyw_A RECQ helicase, ATP-dependent DNA helicase; winged helix,
helix-turn-helix, ATP binding, Zn(2+) binding,
hydrolase; 1.80A {Escherichia coli} SCOP: a.4.5.43
c.37.1.19 c.37.1.19 PDB: 1oyy_A*
Length = 523
Score = 25.9 bits (58), Expect = 4.1
Identities = 11/26 (42%), Positives = 15/26 (57%)
Query: 36 PVQKYAIPVIISGRDVMACAQTGSGK 61
P Q+ I ++SGRD + TG GK
Sbjct: 28 PGQEEIIDTVLSGRDCLVVMPTGGGK 53
>2rep_A Kinesin-like protein KIFC1; structural genomics consortium, motor
domain, ADP, binding, cell cycle, cell division,
endosome, microtubule; HET: ADP; 2.60A {Homo sapiens}
Length = 376
Score = 25.7 bits (57), Expect = 4.6
Identities = 7/7 (100%), Positives = 7/7 (100%)
Query: 56 QTGSGKT 62
QTGSGKT
Sbjct: 124 QTGSGKT 130
>1f9v_A Kinesin-like protein KAR3; kinesin-related protein, motor
protein, microtubinding proteinbule, contractIle
protein; HET: ADP; 1.30A {Saccharomyces cerevisiae}
SCOP: c.37.1.9 PDB: 1f9t_A* 1f9w_A* 1f9u_A* 3kar_A*
Length = 347
Score = 25.6 bits (57), Expect = 4.9
Identities = 7/7 (100%), Positives = 7/7 (100%)
Query: 56 QTGSGKT 62
QTGSGKT
Sbjct: 93 QTGSGKT 99
>2vvg_A Kinesin-2; motor protein, nucleotide-binding, microtubule,
ATP-binding; HET: ADP; 1.60A {Giardia intestinalis}
Length = 350
Score = 25.6 bits (57), Expect = 5.0
Identities = 7/12 (58%), Positives = 9/12 (75%)
Query: 51 VMACAQTGSGKT 62
+ A QTG+GKT
Sbjct: 93 IFAYGQTGAGKT 104
>4etp_A Kinesin-like protein KAR3; kinesin motor protein, kinesin motor
homology domain, karyog mitosis, microtubules; HET: ADP
EBC; 2.30A {Saccharomyces cerevisiae}
Length = 403
Score = 25.7 bits (57), Expect = 5.0
Identities = 7/7 (100%), Positives = 7/7 (100%)
Query: 56 QTGSGKT 62
QTGSGKT
Sbjct: 149 QTGSGKT 155
>3u06_A Protein claret segregational; motor domain, stalk rotation, power
stroke, kinesin-14, MICR binding, NCD, transport,
molecular motor; HET: ADP GOL; 2.35A {Drosophila
melanogaster} PDB: 2ncd_A* 1n6m_A* 1cz7_A* 3l1c_A*
Length = 412
Score = 25.7 bits (57), Expect = 5.1
Identities = 7/7 (100%), Positives = 7/7 (100%)
Query: 56 QTGSGKT 62
QTGSGKT
Sbjct: 147 QTGSGKT 153
>3t0q_A AGR253WP; kinesin, alpha and beta proteins, P-loop containing
nucleosi triphosphate hydrolases, microtubule motor
protein; HET: ADP; 2.35A {Ashbya gossypii}
Length = 349
Score = 25.6 bits (57), Expect = 5.3
Identities = 7/7 (100%), Positives = 7/7 (100%)
Query: 56 QTGSGKT 62
QTGSGKT
Sbjct: 94 QTGSGKT 100
>2h58_A Kinesin-like protein KIFC3 variant; motor domain, ADP, structural
genomics, structur Al genomics consortium, SGC; HET:
ADP; 1.85A {Homo sapiens}
Length = 330
Score = 25.6 bits (57), Expect = 5.8
Identities = 6/7 (85%), Positives = 7/7 (100%)
Query: 56 QTGSGKT 62
QTG+GKT
Sbjct: 89 QTGAGKT 95
>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 = 25.3 bits (55), Expect = 7.0
Identities = 16/88 (18%), Positives = 28/88 (31%), Gaps = 18/88 (20%)
Query: 25 NIALARYDKPTPVQKYAIPVIISGRDVMACAQTGSGKTAAFLVPILNQMYERGPLPTPPA 84
I + + Y ++ + + G+GKT L I+
Sbjct: 218 AIVQGERVEEPVPEAYNPEMLKKRQLTVLDLHPGAGKTRRILPQIIKD------------ 265
Query: 85 GRGYPSRKKVFPLGLVLAPTRELATQIY 112
R + VLAPTR +A ++
Sbjct: 266 --AIQKRLRT----AVLAPTRVVAAEMA 287
>3cob_A Kinesin heavy chain-like protein; motor, switch II, loop L11,
conformation, nucleotide, ATP-binding, microtubule,
motor protein; HET: ADP; 2.20A {Solanum tuberosum}
SCOP: c.37.1.9 PDB: 3cnz_A* 1sdm_A* 3h4s_A*
Length = 369
Score = 25.3 bits (56), Expect = 7.1
Identities = 7/7 (100%), Positives = 7/7 (100%)
Query: 56 QTGSGKT 62
QTGSGKT
Sbjct: 88 QTGSGKT 94
>3b9o_A Alkane monoxygenase; LADA, alkane hydroxylase, monooxygenase,
plasmid, oxidoreductase; HET: FMN; 1.90A {Geobacillus
thermodenitrificans} PDB: 3b9n_A*
Length = 440
Score = 24.9 bits (55), Expect = 8.7
Identities = 8/37 (21%), Positives = 18/37 (48%), Gaps = 2/37 (5%)
Query: 84 AGRGYPSRKKVFP-LGLVLAPTRELATQIYDEAKKFA 119
GR P K+F + +++ T + A + + +K+
Sbjct: 268 YGRN-PDHIKMFAGICVIVGKTHDEAMEKLNSFQKYW 303
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
0.321 0.138 0.407
Gapped
Lambda K H
0.267 0.0757 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,018,602
Number of extensions: 113254
Number of successful extensions: 482
Number of sequences better than 10.0: 1
Number of HSP's gapped: 426
Number of HSP's successfully gapped: 98
Length of query: 130
Length of database: 6,701,793
Length adjustment: 83
Effective length of query: 47
Effective length of database: 4,384,350
Effective search space: 206064450
Effective search space used: 206064450
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 (21.9 bits)
S2: 52 (23.8 bits)