RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy12984
(178 letters)
>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 = 133 bits (336), Expect = 3e-39
Identities = 62/124 (50%), Positives = 78/124 (62%), Gaps = 6/124 (4%)
Query: 17 EKKKLKILQSKEKSKPAEKDSDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVC 76
L +S + D +EDE + ++ + L G+ T F +L V
Sbjct: 9 SGVDLGTENLYFQSMNNVEKPDNDEDESEVPSLPLGLTGAF------EDTSFASLCNLVN 62
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 136
ENTLKAI +MGFT MTEIQ ++I PLLEGRDL+ +AKTGSGKTLAFL+PAVELI L+FM
Sbjct: 63 ENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPAVELIVKLRFM 122
Query: 137 PRNG 140
PRNG
Sbjct: 123 PRNG 126
>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 = 129 bits (327), Expect = 7e-36
Identities = 36/142 (25%), Positives = 63/142 (44%), Gaps = 4/142 (2%)
Query: 1 MSKDTEKHLMNKITKREKKKLKILQSKEKSKPAEKDSDANEDEDQTNAVEVQLPGSDVAL 60
++D N+ + + + +D D + T + + +P D +
Sbjct: 7 GNRDQRNFGRNQRNNNSNRYRNSRFNSRPRTRSREDDDEVHFDKTTFSKLIHVPKEDNSK 66
Query: 61 EILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL--EGRDLVGSAKTGSGK 118
E+ + E + + KAI M F +T +Q +TI P+L E D++ AKTG+GK
Sbjct: 67 EVTLDSLLEEGV--LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGK 124
Query: 119 TLAFLVPAVELIYNLKFMPRNG 140
T AFL+P + + N KF +
Sbjct: 125 TFAFLIPIFQHLINTKFDSQYM 146
>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 = 119 bits (300), Expect = 5e-34
Identities = 36/104 (34%), Positives = 60/104 (57%), Gaps = 7/104 (6%)
Query: 37 SDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQA 96
S E E + ++ + + + T+F + + TLK + + + +TEIQ
Sbjct: 1 SMQVERESISRLMQ-----NYEKINVNEITRFSDFP--LSKKTLKGLQEAQYRLVTEIQK 53
Query: 97 RTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNG 140
+TI L+G+D++G+AKTGSGKTLAFLVP +E +Y L++ +G
Sbjct: 54 QTIGLALQGKDVLGAAKTGSGKTLAFLVPVLEALYRLQWTSTDG 97
>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 = 123 bits (309), Expect = 3e-33
Identities = 31/96 (32%), Positives = 51/96 (53%), Gaps = 4/96 (4%)
Query: 47 NAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL--E 104
++ + +P D + E+ + E + + KAI M F +T +Q +TI P+L E
Sbjct: 2 SSKLIHVPKEDNSKEVTLDSLLEEGV--LDKEIHKAITRMEFPGLTPVQQKTIKPILSSE 59
Query: 105 GRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNG 140
D++ AKTG+GKT AFL+P + + N KF +
Sbjct: 60 DHDVIARAKTGTGKTFAFLIPIFQHLINTKFDSQYM 95
>1q0u_A Bstdead; DEAD protein, RNA binding protein; 1.85A {Geobacillus
stearothermophilus} SCOP: c.37.1.19
Length = 219
Score = 92.6 bits (231), Expect = 5e-24
Identities = 28/67 (41%), Positives = 39/67 (58%), Gaps = 2/67 (2%)
Query: 64 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFL 123
+ TQF ++AI + F K TEIQ R IP L G +VG ++TG+GKT A+L
Sbjct: 2 AETQFTRFP--FQPFIIEAIKTLRFYKPTEIQERIIPGALRGESMVGQSQTGTGKTHAYL 59
Query: 124 VPAVELI 130
+P +E I
Sbjct: 60 LPIMEKI 66
>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 = 89.3 bits (222), Expect = 2e-22
Identities = 30/114 (26%), Positives = 48/114 (42%), Gaps = 4/114 (3%)
Query: 25 QSKEKSKPAEKDSDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIA 84
S + + + + V E + F+ L V + +A
Sbjct: 4 HHHHSSGVDLGTENLYFQSMEEHDSPTEASQPIVEEEETKT--FKDLG--VTDVLCEACD 59
Query: 85 DMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPR 138
+G+TK T+IQ IP L+GRD++G A+TGSGKT AF +P + +
Sbjct: 60 QLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILNALLETPQRLF 113
>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 = 85.7 bits (213), Expect = 2e-21
Identities = 24/65 (36%), Positives = 38/65 (58%), Gaps = 2/65 (3%)
Query: 66 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVP 125
+FE + L I +MG+ K + IQ +IP L GRD++ AK G+GK+ A+L+P
Sbjct: 3 NEFEDYC--LKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIP 60
Query: 126 AVELI 130
+E +
Sbjct: 61 LLERL 65
>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 = 88.0 bits (219), Expect = 4e-21
Identities = 21/101 (20%), Positives = 50/101 (49%), Gaps = 9/101 (8%)
Query: 30 SKPAEKDSDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFT 89
+ + + E++ E + +++ + F+ + + E+ L+ I GF
Sbjct: 8 TSGSARKRLLKEEDMTKVEFE-----TSEEVDVTPT--FDTMG--LREDLLRGIYAYGFE 58
Query: 90 KMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
K + IQ R I +++GRD++ +++G+GKT F + ++ +
Sbjct: 59 KPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVLQCL 99
>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 = 87.6 bits (218), Expect = 4e-21
Identities = 26/106 (24%), Positives = 46/106 (43%), Gaps = 15/106 (14%)
Query: 25 QSKEKSKPAEKDSDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIA 84
+S+ D E ++N E+ F+ + E+ L+ I
Sbjct: 12 SQDSRSRDNGPDGMEPEGVIESNWNEI-------------VDSFDDMNLS--ESLLRGIY 56
Query: 85 DMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
GF K + IQ R I P ++G D++ A++G+GKT F + ++ I
Sbjct: 57 AYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFAISILQQI 102
>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 = 84.2 bits (209), Expect = 1e-20
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 2/67 (2%)
Query: 64 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFL 123
FE+L L+ + GF + + +Q + IP G DL+ AK+G+GKT F
Sbjct: 22 EPADFESLLLS--RPVLEGLRAAGFERPSPVQLKAIPLGRCGLDLIVQAKSGTGKTCVFS 79
Query: 124 VPAVELI 130
A++ +
Sbjct: 80 TIALDSL 86
>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 = 86.1 bits (214), Expect = 1e-20
Identities = 25/66 (37%), Positives = 35/66 (53%), Gaps = 2/66 (3%)
Query: 65 STQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLV 124
FE K L I + GF K + IQ IP + GRD++ AK G+GKT AF++
Sbjct: 20 GNTFEDFYLK--RELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVI 77
Query: 125 PAVELI 130
P +E +
Sbjct: 78 PTLEKV 83
>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 = 83.8 bits (208), Expect = 2e-20
Identities = 23/107 (21%), Positives = 45/107 (42%), Gaps = 15/107 (14%)
Query: 24 LQSKEKSKPAEKDSDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAI 83
+ ++ ++N E+ F+ + K E+ L+ I
Sbjct: 1 MHHHHHHSSGRENLYFQGGVIESNWNEI-------------VDNFDDMNLK--ESLLRGI 45
Query: 84 ADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
GF K + IQ R I P ++G D++ A++G+GKT F + ++ +
Sbjct: 46 YAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFAISILQQL 92
>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 = 86.0 bits (214), Expect = 2e-20
Identities = 29/98 (29%), Positives = 51/98 (52%), Gaps = 15/98 (15%)
Query: 33 AEKDSDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMT 92
+E +D E + QTN +V +F+ ++ EN L+ + GF + +
Sbjct: 1 SEGITDIEESQIQTNYDKV-------------VYKFDDMELD--ENLLRGVFGYGFEEPS 45
Query: 93 EIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
IQ R I P++EG D++ A++G+GKT F + A++ I
Sbjct: 46 AIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAALQRI 83
>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 = 82.6 bits (205), Expect = 3e-20
Identities = 27/63 (42%), Positives = 38/63 (60%), Gaps = 2/63 (3%)
Query: 68 FEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAV 127
F+ + L+A+ G T T IQA +P LEG+DL+G A+TG+GKTLAF +P
Sbjct: 3 FKDFP--LKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIA 60
Query: 128 ELI 130
E +
Sbjct: 61 ERL 63
>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 = 83.0 bits (206), Expect = 4e-20
Identities = 35/96 (36%), Positives = 52/96 (54%), Gaps = 8/96 (8%)
Query: 37 SDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKG--KVCENTLKAIADMGFTKMTEI 94
N ++ + + VQ G+D+ I + F+ L K+ L+ I D GF T I
Sbjct: 2 MKINFLRNK-HKIHVQ--GTDLPDPIAT---FQQLDQEYKINSRLLQNILDAGFQMPTPI 55
Query: 95 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
Q + IP +L GR+L+ SA TGSGKTLAF +P + +
Sbjct: 56 QMQAIPVMLHGRELLASAPTGSGKTLAFSIPILMQL 91
>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 = 84.9 bits (211), Expect = 4e-20
Identities = 27/68 (39%), Positives = 39/68 (57%), Gaps = 3/68 (4%)
Query: 64 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGR-DLVGSAKTGSGKTLAF 122
F L + +N L AI + GF K T+IQ + IP L ++V A+TGSGKT +F
Sbjct: 4 EYMNFNELN--LSDNILNAIRNKGFEKPTDIQMKVIPLFLNDEYNIVAQARTGSGKTASF 61
Query: 123 LVPAVELI 130
+P +EL+
Sbjct: 62 AIPLIELV 69
>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 = 84.1 bits (209), Expect = 5e-20
Identities = 26/52 (50%), Positives = 39/52 (75%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVE 128
E +AI +MGF TE+Q++TIP +L+G+++V AKTGSGKT A+ +P +E
Sbjct: 3 EKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILE 54
>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 = 84.3 bits (209), Expect = 1e-19
Identities = 24/108 (22%), Positives = 50/108 (46%), Gaps = 4/108 (3%)
Query: 25 QSKEKSKPAEKDSDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIA 84
+ KE + N +V++ D + S FE L+ + L+ +
Sbjct: 51 EEKEDRAAQSLLNKLIRSNLVDNTNQVEVLQRDPNSPLYSVKSFEELR--LKPQLLQGVY 108
Query: 85 DMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLAFLVPAVELI 130
MGF + ++IQ +P +L ++L+ +++G+GKT AF++ + +
Sbjct: 109 AMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQV 156
>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 = 81.4 bits (202), Expect = 1e-19
Identities = 22/65 (33%), Positives = 40/65 (61%), Gaps = 2/65 (3%)
Query: 66 TQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVP 125
+F+ ++ EN L+ + GF + + IQ R I P++EG D++ A++G+GKT F +
Sbjct: 14 YKFDDMELD--ENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIA 71
Query: 126 AVELI 130
A++ I
Sbjct: 72 ALQRI 76
>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 = 81.1 bits (201), Expect = 1e-19
Identities = 21/67 (31%), Positives = 35/67 (52%), Gaps = 2/67 (2%)
Query: 64 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFL 123
S+ F + L+AI D GF +E+Q IP + G D++ AK+G GKT F+
Sbjct: 12 HSSGFRDFL--LKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFV 69
Query: 124 VPAVELI 130
+ ++ +
Sbjct: 70 LATLQQL 76
>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 = 80.7 bits (200), Expect = 4e-19
Identities = 28/97 (28%), Positives = 41/97 (42%), Gaps = 5/97 (5%)
Query: 49 VEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDL 108
V V P I + F+ LK + I + + T IQ IP +LE RD+
Sbjct: 9 VSVTGPDYSATNVIEN---FDELK--LDPTIRNNILLASYQRPTPIQKNAIPAILEHRDI 63
Query: 109 VGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQG 145
+ A+TGSGKT AFL+P + + +
Sbjct: 64 MACAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAY 100
>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 = 81.1 bits (201), Expect = 1e-18
Identities = 22/66 (33%), Positives = 35/66 (53%), Gaps = 2/66 (3%)
Query: 65 STQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLV 124
S+ F K L+AI D GF +E+Q IP + G D++ AK+G GKT F++
Sbjct: 7 SSGFRDFLLK--PELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFVL 64
Query: 125 PAVELI 130
++ +
Sbjct: 65 ATLQQL 70
>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 = 78.8 bits (195), Expect = 1e-18
Identities = 22/51 (43%), Positives = 35/51 (68%)
Query: 80 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
LK+I +G K T IQ++ P +L+G DL+ A+TG+GKTL++L+P +
Sbjct: 32 LKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHL 82
>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 = 79.4 bits (196), Expect = 2e-18
Identities = 24/108 (22%), Positives = 50/108 (46%), Gaps = 4/108 (3%)
Query: 25 QSKEKSKPAEKDSDANEDEDQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIA 84
+ KE + N +V++ D + S FE L+ + L+ +
Sbjct: 51 EEKEDRAAQSLLNKLIRSNLVDNTNQVEVLQRDPNSPLYSVKSFEELR--LKPQLLQGVY 108
Query: 85 DMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLAFLVPAVELI 130
MGF + ++IQ +P +L ++L+ +++G+GKT AF++ + +
Sbjct: 109 AMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTAAFVLAMLSQV 156
>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 = 77.6 bits (192), Expect = 4e-18
Identities = 29/63 (46%), Positives = 40/63 (63%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFM 136
N + IA FT+ T IQA+ P L G D+VG A+TGSGKTL++L+PA+ I + F+
Sbjct: 38 ANVMDVIARQNFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFL 97
Query: 137 PRN 139
R
Sbjct: 98 ERG 100
>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 = 79.1 bits (196), Expect = 5e-18
Identities = 27/89 (30%), Positives = 47/89 (52%), Gaps = 6/89 (6%)
Query: 44 DQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL 103
D TN VEV + L S FE L+ K L+ + MGF + ++IQ +P +L
Sbjct: 5 DNTNQVEVLQRDPNSPLY--SVKSFEELRLK--PQLLQGVYAMGFNRPSKIQENALPLML 60
Query: 104 EG--RDLVGSAKTGSGKTLAFLVPAVELI 130
++L+ +++G+GKT AF++ + +
Sbjct: 61 AEPPQNLIAQSQSGTGKTAAFVLAMLSQV 89
>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 = 78.8 bits (195), Expect = 8e-18
Identities = 21/69 (30%), Positives = 37/69 (53%), Gaps = 4/69 (5%)
Query: 64 SSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEG--RDLVGSAKTGSGKTLA 121
+ F+ L + LK I M F K ++IQ R +P LL R+++ +++G+GKT A
Sbjct: 3 MAKSFDELG--LAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAA 60
Query: 122 FLVPAVELI 130
F + + +
Sbjct: 61 FSLTMLTRV 69
>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 = 78.4 bits (194), Expect = 1e-17
Identities = 29/89 (32%), Positives = 46/89 (51%), Gaps = 5/89 (5%)
Query: 44 DQTNAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLL 103
+ N + V++ GSDV I F + + + + + G+ T IQ +IP +
Sbjct: 37 SKYNNIPVKVTGSDVPQPIQH---FTSAD--LRDIIIDNVNKSGYKIPTPIQKCSIPVIS 91
Query: 104 EGRDLVGSAKTGSGKTLAFLVPAVELIYN 132
GRDL+ A+TGSGKT AFL+P + +
Sbjct: 92 SGRDLMACAQTGSGKTAAFLLPILSKLLE 120
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 77.8 bits (192), Expect = 2e-17
Identities = 12/54 (22%), Positives = 21/54 (38%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELI 130
E+ +T Q +++G+ A TG GKT ++ A+ L
Sbjct: 8 EDFRSFFKKKFGKDLTGYQRLWAKRIVQGKSFTMVAPTGVGKTTFGMMTALWLA 61
>2i4i_A ATP-dependent RNA helicase DDX3X; DEAD, structural genomics, SGC,
structural GE consortium, hydrolase; HET: AMP; 2.20A
{Homo sapiens}
Length = 417
Score = 77.6 bits (192), Expect = 2e-17
Identities = 30/86 (34%), Positives = 46/86 (53%), Gaps = 7/86 (8%)
Query: 47 NAVEVQLPGSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGR 106
+ VE G++ I S F ++ + E + I +T+ T +Q IP + E R
Sbjct: 1 SMVEAT--GNNCPPHIES---FSDVE--MGEIIMGNIELTRYTRPTPVQKHAIPIIKEKR 53
Query: 107 DLVGSAKTGSGKTLAFLVPAVELIYN 132
DL+ A+TGSGKT AFL+P + IY+
Sbjct: 54 DLMACAQTGSGKTAAFLLPILSQIYS 79
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 61.8 bits (151), Expect = 6e-12
Identities = 13/40 (32%), Positives = 26/40 (65%), Gaps = 2/40 (5%)
Query: 93 EIQARTIPPLLEG--RDLVGSAKTGSGKTLAFLVPAVELI 130
+IQ + +P LL R+++G +++G+GKT AF + + +
Sbjct: 144 KIQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV 183
>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 = 44.5 bits (104), Expect = 7e-06
Identities = 32/214 (14%), Positives = 67/214 (31%), Gaps = 53/214 (24%)
Query: 4 DTEKHLMNKITKREKKKLKILQSKEKSKPAEKDSDANEDEDQTNAV----EV----QLP- 54
D E + + K L + + + D + +D ++ E+
Sbjct: 8 DFE---TGEHQYQYKDILSVFEDAFV-----DNFDCKDVQDMPKSILSKEEIDHIIMSKD 59
Query: 55 ---GSDVALEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGS 111
G+ L S Q E ++ K E L+ + F M+ I+ P + R +
Sbjct: 60 AVSGTLRLFWTLLSKQEEMVQ-KFVEEVLR--INYKFL-MSPIKTEQRQPSMMTRMYIEQ 115
Query: 112 AKTGSGKTLAFL---VPAVELIYNLKF---------------MPRNGKSW--------QG 145
F V ++ L+ + +GK+W
Sbjct: 116 RDRLYNDNQVFAKYNVSRLQPYLKLRQALLELRPAKNVLIDGVLGSGKTWVALDVCLSYK 175
Query: 146 KLRPLTNGVYLVACNVFKSTQPPTVIK-VQTLIF 178
+ ++ + N+ P TV++ +Q L++
Sbjct: 176 VQCKMDFKIFWL--NLKNCNSPETVLEMLQKLLY 207
Score = 27.9 bits (61), Expect = 2.4
Identities = 17/111 (15%), Positives = 37/111 (33%), Gaps = 21/111 (18%)
Query: 13 ITKREKKKLKILQSKEKSKPAEKDSDANEDEDQT-----NAVEV---QLP-----GSDVA 59
+T R K+ L + + + D+ ++ LP +
Sbjct: 270 LTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLPREVLTTNPRR 329
Query: 60 LEILSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPL--LEGRDL 108
L I++ E+++ + T + K+T I ++ L E R +
Sbjct: 330 LSIIA----ESIRDGL--ATWDNWKHVNCDKLTTIIESSLNVLEPAEYRKM 374
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 40.5 bits (95), Expect = 1e-04
Identities = 17/47 (36%), Positives = 24/47 (51%), Gaps = 1/47 (2%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAF 122
N ++ I G K+ Q + LLEG L+ ++ TGSGKTL
Sbjct: 17 SNVIEIIKKRGIKKLNPPQTEAVKKGLLEGNRLLLTSPTGSGKTLIA 63
>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 = 37.5 bits (87), Expect = 0.001
Identities = 10/43 (23%), Positives = 22/43 (51%)
Query: 80 LKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAF 122
+ + + G ++ QA + + G++L+ + T +GKTL
Sbjct: 15 VGILKEEGIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLA 57
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna;
HET: CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 34.9 bits (79), Expect = 0.006
Identities = 10/22 (45%), Positives = 12/22 (54%), Gaps = 5/22 (22%)
Query: 17 EKKKLKILQSKEK-----SKPA 33
EK+ LK LQ+ K S PA
Sbjct: 18 EKQALKKLQASLKLYADDSAPA 39
>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 = 33.7 bits (77), Expect = 0.027
Identities = 16/60 (26%), Positives = 24/60 (40%), Gaps = 1/60 (1%)
Query: 77 ENTLKAIADMGFTKMTEIQARTIPP-LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF 135
E + + G QA + +LEG++ + S T SGKTL + V I
Sbjct: 10 ERIKSTLKERGIESFYPPQAEALKSGILEGKNALISIPTASGKTLIAEIAMVHRILTQGG 69
>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 = 32.3 bits (73), Expect = 0.087
Identities = 27/159 (16%), Positives = 44/159 (27%), Gaps = 41/159 (25%)
Query: 6 EKHLMN-------KITKREKKKLKILQSKEKSKPAEKDSDANEDEDQTNAVEVQLPGSDV 58
+ H + I L I EK K ++ A E +
Sbjct: 1650 DNHFKDTYGFSILDIVINNPVNLTIHFGGEKGKRIRENYSAMIFETIVDGKLKTEKIFKE 1709
Query: 59 ALEILSSTQFEALKGKVC--ENTLKAIADMGFTKMTEIQARTIPPLLEGRD--------- 107
E +S F + KG + + T A+ M +++++ + P D
Sbjct: 1710 INEHSTSYTFRSEKGLLSATQFTQPALTLMEKAAFEDLKSKGLIPA----DATFAGHSLG 1765
Query: 108 ----LVGSAKTGS-------------GKTLAFLVPAVEL 129
L A G T+ VP EL
Sbjct: 1766 EYAALASLA--DVMSIESLVEVVFYRGMTMQVAVPRDEL 1802
>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 = 31.8 bits (71), Expect = 0.11
Identities = 20/86 (23%), Positives = 32/86 (37%), Gaps = 8/86 (9%)
Query: 93 EIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTN 152
Q P + G++ + A TGSGKT ++ + + G+ K+ L
Sbjct: 10 SYQIELAQPAINGKNALICAPTGSGKTFV----SILICEHHFQNMPAGRK--AKVVFLAT 63
Query: 153 GVYLVA--CNVFKSTQPPTVIKVQTL 176
V + NVFK VQ +
Sbjct: 64 KVPVYEQQKNVFKHHFERQGYSVQGI 89
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 31.5 bits (70), Expect = 0.16
Identities = 15/86 (17%), Positives = 34/86 (39%), Gaps = 8/86 (9%)
Query: 93 EIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTN 152
Q P ++G++ + A TG GKT ++ + + + + + +GK+ N
Sbjct: 16 NYQLELALPAMKGKNTIICAPTGCGKTFV----SLLICEH--HLKKFPQGQKGKVVFFAN 69
Query: 153 GVYLVA--CNVFKSTQPPTVIKVQTL 176
+ + +VF +V +
Sbjct: 70 QIPVYEQNKSVFSKYFERHGYRVTGI 95
>4a15_A XPD helicase, ATP-dependent DNA helicase TA0057; hydrolase,
nucleotide excision repair,; 2.20A {Thermoplasma
acidophilum} PDB: 2vsf_A*
Length = 620
Score = 30.8 bits (70), Expect = 0.22
Identities = 9/27 (33%), Positives = 15/27 (55%)
Query: 102 LLEGRDLVGSAKTGSGKTLAFLVPAVE 128
L + + + TGSGKT+ L A++
Sbjct: 19 LQKSYGVALESPTGSGKTIMALKSALQ 45
>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 = 30.9 bits (69), Expect = 0.24
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 95 QARTIPPLLEGRDLVGSAKTGSGKTL 120
Q I + G ++ SA T +GKT+
Sbjct: 91 QDTAISCIDRGESVLVSAHTSAGKTV 116
>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 = 30.6 bits (68), Expect = 0.26
Identities = 9/26 (34%), Positives = 14/26 (53%)
Query: 95 QARTIPPLLEGRDLVGSAKTGSGKTL 120
Q I + G ++ SA T +GKT+
Sbjct: 189 QDTAISCIDRGESVLVSAHTSAGKTV 214
>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 = 30.7 bits (68), Expect = 0.27
Identities = 34/176 (19%), Positives = 59/176 (33%), Gaps = 18/176 (10%)
Query: 4 DTEKHLMNKITKREKKKLKILQSKEKSKPAEKDSDANEDEDQTNAVEVQLPGSDVAL-EI 62
+ + ++ +L ++ + +DA+ED + + + D L E
Sbjct: 170 KSLQLALDTTGYYRASELWDIREDNAKDVDSEMTDASEDCLEASMTYSEEAEPDDNLSEN 229
Query: 63 LSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAF 122
L S K T KA Q P + G++ + A TGSGKT
Sbjct: 230 LGSAAEGIGKPPPVYETKKA---------RSYQIELAQPAINGKNALICAPTGSGKTFV- 279
Query: 123 LVPAVELIYNLKFMPRNGKSWQGKLRPLTNGVYLVA--CNVFKSTQPPTVIKVQTL 176
++ + + G+ K+ L V + NVFK VQ +
Sbjct: 280 ---SILICEHHFQNMPAGRK--AKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGI 330
>4a2w_A RIG-I, retinoic acid inducible protein I; hydrolase, superfamily 2
RNA helicase, ATP and dsRNA binding antiviral signalling
pathway; 3.70A {Anas platyrhynchos}
Length = 936
Score = 30.3 bits (67), Expect = 0.39
Identities = 34/163 (20%), Positives = 55/163 (33%), Gaps = 18/163 (11%)
Query: 17 EKKKLKILQSKEKSKPAEKDSDANEDEDQTNAVEVQLPGSDVAL-EILSSTQFEALKGKV 75
+L ++ + +DA+ED + + + D L E L S K
Sbjct: 183 RASELWDIREDNAKDVDSEMTDASEDCLEASMTYSEEAEPDDNLSENLGSAAEGIGKPPP 242
Query: 76 CENTLKAIADMGFTKMTEIQARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKF 135
T KA Q P + G++ + A TGSGKT ++ + +
Sbjct: 243 VYETKKA---------RSYQIELAQPAINGKNALICAPTGSGKTFV----SILICEHHFQ 289
Query: 136 MPRNGKSWQGKLRPLTNGVYLVA--CNVFKSTQPPTVIKVQTL 176
G+ K+ L V + NVFK VQ +
Sbjct: 290 NMPAGRK--AKVVFLATKVPVYEQQKNVFKHHFERQGYSVQGI 330
>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 = 29.2 bits (65), Expect = 0.75
Identities = 11/27 (40%), Positives = 16/27 (59%)
Query: 102 LLEGRDLVGSAKTGSGKTLAFLVPAVE 128
L + +A TGSGKTL L+ ++E
Sbjct: 19 LRNNFLVALNAPTGSGKTLFSLLVSLE 45
>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 = 28.2 bits (63), Expect = 1.1
Identities = 14/52 (26%), Positives = 24/52 (46%), Gaps = 6/52 (11%)
Query: 95 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGK 146
Q P LEG++++ TGSGKT AV + + + + K+ +
Sbjct: 38 QMEVAQPALEGKNIIICLPTGSGKTRV----AVYIAKD--HLDKKKKASEPG 83
>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 = 28.6 bits (65), Expect = 1.2
Identities = 13/33 (39%), Positives = 19/33 (57%)
Query: 95 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAV 127
Q I +L GRD + TG GK+L + +PA+
Sbjct: 30 QEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPAL 62
>3lvg_D LCB, clathrin light chain B; SELF assembly, coated PIT, cytoplasmic
vesicle, membrane, Ca structural protein; 7.94A {Bos
taurus}
Length = 190
Score = 27.8 bits (61), Expect = 1.5
Identities = 8/39 (20%), Positives = 17/39 (43%), Gaps = 3/39 (7%)
Query: 6 EKHLMNKITKREKKKLKILQSKEKSKPAEKDSDANEDED 44
+K L ++ ++ K +K ++ A+K D D
Sbjct: 117 KKDLEEWNQRQSEQVEK---NKINNRIADKAFYQQPDAD 152
Score = 27.8 bits (61), Expect = 1.7
Identities = 11/37 (29%), Positives = 18/37 (48%), Gaps = 3/37 (8%)
Query: 12 KITK-RE--KKKLKILQSKEKSKPAEKDSDANEDEDQ 45
I K RE +K+L+ L + K E A +D ++
Sbjct: 86 SIRKWREEQRKRLQELDAASKVMEQEWREKAKKDLEE 122
>2vl7_A XPD; helicase, unknown function; 2.25A {Sulfolobus tokodaii}
Length = 540
Score = 28.4 bits (63), Expect = 1.5
Identities = 12/38 (31%), Positives = 19/38 (50%)
Query: 102 LLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRN 139
L G+ L+ +AK G GKT+ V ++L + R
Sbjct: 23 LKHGKTLLLNAKPGLGKTVFVEVLGMQLKKKVLIFTRT 60
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 26.8 bits (58), Expect = 4.6
Identities = 14/84 (16%), Positives = 31/84 (36%), Gaps = 8/84 (9%)
Query: 95 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKLRPLTNGV 154
Q P +G++ + A TG GKT ++ + + + + +GK+ N +
Sbjct: 9 QLELALPAKKGKNTIICAPTGCGKTFV----SLLICEH--HLKKFPCGQKGKVVFFANQI 62
Query: 155 YLVA--CNVFKSTQPPTVIKVQTL 176
+ VF + ++
Sbjct: 63 PVYEQQATVFSRYFERLGYNIASI 86
>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 = 26.7 bits (59), Expect = 5.4
Identities = 5/18 (27%), Positives = 8/18 (44%)
Query: 102 LLEGRDLVGSAKTGSGKT 119
+ R + G+GKT
Sbjct: 16 FRKKRLTIMDLHPGAGKT 33
>2px0_A Flagellar biosynthesis protein FLHF; SRP GTPase, flagellum, protein
transport, biosynthetic protein; HET: GNP; 3.00A
{Bacillus subtilis} PDB: 2px3_A* 3syn_A*
Length = 296
Score = 26.6 bits (59), Expect = 5.4
Identities = 14/121 (11%), Positives = 37/121 (30%), Gaps = 12/121 (9%)
Query: 7 KHLMNKITKREKKKLKILQSKEKSKPAEKDSDANEDEDQTNAVEVQLPGSDV----ALEI 62
H + + + +++ Q + + + + + + E L + +
Sbjct: 3 HHHHHHSSPKIEERTYPPQIPAQQELGDFSAYQSVLPEPLRKAEKLLQETGIKESTKTNT 62
Query: 63 LSSTQFEALKGKVCENTLKAIADMGFTKMTEIQARTIPPLLEGRD----LVGSAKTGSGK 118
L +++ T + + + ++ L GS TG+GK
Sbjct: 63 LKKLLRFSVEAGG--LTEENVVGKLQEILCDMLPSADKWQEPIHSKYIVLFGS--TGAGK 118
Query: 119 T 119
T
Sbjct: 119 T 119
>3sqn_A Conserved domain protein; structural genomics, PSI-biology,
midwest center for structu genomics, MCSG, MGA family;
2.31A {Enterococcus faecalis}
Length = 485
Score = 26.4 bits (58), Expect = 6.1
Identities = 5/29 (17%), Positives = 13/29 (44%)
Query: 1 MSKDTEKHLMNKITKREKKKLKILQSKEK 29
M ++ + K R+ + L+ L + +
Sbjct: 4 MYSMLKRVITEKDLLRQIRLLEQLLNVPQ 32
>2iuj_A Lipoxygenase L-5; dioxygenase, metal-binding, oxidoreductase,
soybean lipoxygenase-B, fatty acid biosynthesis, lipid
synthesis; 2.4A {Glycine max}
Length = 853
Score = 26.4 bits (57), Expect = 7.5
Identities = 9/29 (31%), Positives = 19/29 (65%)
Query: 51 VQLPGSDVALEILSSTQFEALKGKVCENT 79
V S ++++++S+T+ + KGKV + T
Sbjct: 49 VTFLASSISIQLISATKADGGKGKVGKAT 77
>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 = 8.4
Identities = 11/33 (33%), Positives = 19/33 (57%)
Query: 95 QARTIPPLLEGRDLVGSAKTGSGKTLAFLVPAV 127
Q TI + G+++ TG GK+L + +PA+
Sbjct: 49 QLETINVTMAGKEVFLVMPTGGGKSLCYQLPAL 81
>1yb1_A 17-beta-hydroxysteroid dehydrogenase type XI; short chain
dehydrogenase, HUM structural genomics, structural
genomics consortium, SGC; HET: AE2; 1.95A {Homo sapiens}
SCOP: c.2.1.2
Length = 272
Score = 25.7 bits (57), Expect = 9.3
Identities = 9/33 (27%), Positives = 13/33 (39%)
Query: 115 GSGKTLAFLVPAVELIYNLKFMPRNGKSWQGKL 147
GS E +Y MP+ KS G++
Sbjct: 1 GSSHHHHHHSSGRENLYFQGHMPKRRKSVTGEI 33
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
0.313 0.130 0.357
Gapped
Lambda K H
0.267 0.0765 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Sequences: 27921
Number of Hits to DB: 2,489,307
Number of extensions: 141489
Number of successful extensions: 352
Number of sequences better than 10.0: 1
Number of HSP's gapped: 338
Number of HSP's successfully gapped: 73
Length of query: 178
Length of database: 6,701,793
Length adjustment: 87
Effective length of query: 91
Effective length of database: 4,272,666
Effective search space: 388812606
Effective search space used: 388812606
Neighboring words threshold: 11
Window for multiple hits: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 54 (24.5 bits)