RPS-BLAST 2.2.26 [Sep-21-2011]
Database: pdb70
27,921 sequences; 6,701,793 total letters
Searching..................................................done
Query= psy17587
(231 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 = 195 bits (499), Expect = 6e-61
Identities = 47/121 (38%), Positives = 70/121 (57%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ L GY C S+HG Q DR+ + F++GK +L+AT+VAARGLD+ ++ V+N+
Sbjct: 292 LEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINF 351
Query: 98 DCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKMWA 157
D P+ E+YVHR GRTGR GN G A +F +++ L + +P L+ M
Sbjct: 352 DLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENMAY 411
Query: 158 E 158
E
Sbjct: 412 E 412
>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 = 190 bits (485), Expect = 1e-58
Identities = 53/116 (45%), Positives = 78/116 (67%), Gaps = 1/116 (0%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ L + +P S+HG Q R+ + DFKNG +++LIATSVA+RGLD+K++ V+NY
Sbjct: 316 LASFLSEKEFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASRGLDIKNIKHVINY 375
Query: 98 DCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERH-AGEIIRALEASGVPIPEDL 152
D P+ +DYVHR GRTGR GN G A +F E++R A ++++ LE SG +P+ L
Sbjct: 376 DMPSKIDDYVHRIGRTGRVGNNGRATSFFDPEKDRAIAADLVKILEGSGQTVPDFL 431
>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 = 165 bits (420), Expect = 5e-52
Identities = 46/118 (38%), Positives = 69/118 (58%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ L GY C S+HG Q DR+ + F++GK +L+AT+VAARGLD+ ++ V+N+
Sbjct: 62 LEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINF 121
Query: 98 DCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKM 155
D P+ E+YVHR GRTGR GN G A +F +++ L + +P L+ M
Sbjct: 122 DLPSDIEEYVHRIGRTGRVGNLGLATSFFNERNINITKDLLDLLVEAKQEVPSWLENM 179
>2p6n_A ATP-dependent RNA helicase DDX41; DEAD, structural genomics,
structural genomic consortium, SGC, hydrolase; 2.60A
{Homo sapiens}
Length = 191
Score = 159 bits (404), Expect = 2e-49
Identities = 47/120 (39%), Positives = 67/120 (55%), Gaps = 1/120 (0%)
Query: 37 AIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVN 96
AI + L+ G +++HGG DQ +R I F+ GK +L+AT VA++GLD + V+N
Sbjct: 69 AIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVIN 128
Query: 97 YDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQ-ERHAGEIIRALEASGVPIPEDLDKM 155
YD P E+YVHR GRTG +GN G A TFI E ++ L + +P L +
Sbjct: 129 YDMPEEIENYVHRIGRTGCSGNTGIATTFINKACDESVLMDLKALLLEAKQKVPPVLQVL 188
>2hjv_A ATP-dependent RNA helicase DBPA; parallel alpha-beta, hydrolase;
1.95A {Bacillus subtilis}
Length = 163
Score = 146 bits (370), Expect = 1e-44
Identities = 59/137 (43%), Positives = 82/137 (59%), Gaps = 6/137 (4%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
+ + DS I+ F K V + EL GYPC +HGG+ Q DR + +FK G+
Sbjct: 30 LMTENPDSCII-FCRTKEH--VNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFKRGEY 86
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERH 133
R L+AT VAARG+D+++++LV+NYD P E YVHR GRTGRAGNKG A +F+T ++R
Sbjct: 87 RYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISFVTAFEKRF 146
Query: 134 AGEIIRALEASGVPIPE 150
+I G I +
Sbjct: 147 LADIEE---YIGFEIQK 160
>3fho_A ATP-dependent RNA helicase DBP5; mRNA export, ATPase, translation
termination, binding, hydrolase, membrane, mRNA
transport; 2.80A {Schizosaccharomyces pombe}
Length = 508
Score = 152 bits (386), Expect = 1e-43
Identities = 43/161 (26%), Positives = 71/161 (44%), Gaps = 20/161 (12%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
+I+ F K I + + G+ L G ++ RD+ + F+ G
Sbjct: 352 YGLLTIGQSII-FCKKKDT--AEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTS 408
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNH------YEDYVHRCGRTGRAGNKGFAYTFIT 127
++L+ T+V ARG+DV +NLVVNYD P + Y+HR GRTGR G G + F+
Sbjct: 409 KVLVTTNVIARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRTGRFGRVGVSINFVH 468
Query: 128 LEQ--------ERHAGEIIRALEASGVPIPEDLDKMWAEDL 160
++ + + I + E+L+K+ L
Sbjct: 469 DKKSWEEMNAIQEYFQRPITRVP---TDDYEELEKVVKNAL 506
>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 = 150 bits (380), Expect = 1e-43
Identities = 44/141 (31%), Positives = 72/141 (51%), Gaps = 3/141 (2%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
+ + I+ F N R V + K++ GY C H + Q +R+ +F+ GKV
Sbjct: 253 FSKLQINQAII-FCNSTNR--VELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKV 309
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERH 133
R L+ + + RG+D++ +N+V+N+D P E Y+HR GR+GR G+ G A I +
Sbjct: 310 RTLVCSDLLTRGIDIQAVNVVINFDFPKTAETYLHRIGRSGRFGHLGLAINLINWNDRFN 369
Query: 134 AGEIIRALEASGVPIPEDLDK 154
+I + L IP +DK
Sbjct: 370 LYKIEQELGTEIAAIPATIDK 390
>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 = 147 bits (373), Expect = 1e-42
Identities = 41/142 (28%), Positives = 79/142 (55%), Gaps = 4/142 (2%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
+D + + ++ F R A+ + L++ +P +++H G+ Q +R S FK+ +
Sbjct: 245 LDVLEFNQVVI-FVKSVQR--CIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQR 301
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERH 133
R+L+AT++ RG+D++ +N+ NYD P + Y+HR R GR G KG A TF++ E +
Sbjct: 302 RILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAK 361
Query: 134 A-GEIIRALEASGVPIPEDLDK 154
++ E + +P+++D
Sbjct: 362 ILNDVQDRFEVNISELPDEIDI 383
>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 = 142 bits (360), Expect = 1e-42
Identities = 56/185 (30%), Positives = 86/185 (46%), Gaps = 7/185 (3%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
+ D +V F K I + L++ G+P +LHG + Q +R+ + F+ G+V
Sbjct: 26 LYVASPDRAMV-FTRTKAE--TEEIAQGLLRLGHPAQALHGDLSQGERERVLGAFRQGEV 82
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERH 133
R+L+AT VAARGLD+ ++LVV+Y P+ E Y HR GRTGRAG G + R
Sbjct: 83 RVLVATDVAARGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRD 142
Query: 134 AGEIIRA----LEASGVPIPEDLDKMWAEDLIVRTFCFRAGNKGFAYTFITLEQERHAGE 189
+ RA + P PE++ + L+ R + F E
Sbjct: 143 VEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARLARVPEKDYRLYQDFAGRLFAEGRVE 202
Query: 190 IIRAL 194
++ AL
Sbjct: 203 VVAAL 207
>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 = 141 bits (357), Expect = 1e-42
Identities = 41/142 (28%), Positives = 79/142 (55%), Gaps = 4/142 (2%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
+D + + ++ F R A+ + L++ +P +++H G+ Q +R S FK+ +
Sbjct: 26 LDVLEFNQVVI-FVKSVQR--CIALAQLLVEQNFPAIAIHRGMPQEERLSRYQQFKDFQR 82
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERH 133
R+L+AT++ RG+D++ +N+ NYD P + Y+HR R GR G KG A TF++ E +
Sbjct: 83 RILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAK 142
Query: 134 A-GEIIRALEASGVPIPEDLDK 154
++ E + +P+++D
Sbjct: 143 ILNDVQDRFEVNISELPDEIDI 164
>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 = 142 bits (361), Expect = 9e-42
Identities = 56/185 (30%), Positives = 86/185 (46%), Gaps = 7/185 (3%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
+ D +V F K I + L++ G+P +LHG + Q +R+ + F+ G+V
Sbjct: 23 LYVASPDRAMV-FTRTKAE--TEEIAQGLLRLGHPAQALHGDMSQGERERVMGAFRQGEV 79
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERH 133
R+L+AT VAARGLD+ ++LVV+Y P+ E Y HR GRTGRAG G + R
Sbjct: 80 RVLVATDVAARGLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRD 139
Query: 134 AGEIIRA----LEASGVPIPEDLDKMWAEDLIVRTFCFRAGNKGFAYTFITLEQERHAGE 189
+ RA + P PE++ + L+ R + F E
Sbjct: 140 VEALERAVGRRFKRVNPPTPEEVLEAKWRHLLARLARVPEKDYRLYQDFAGRLFAEGRVE 199
Query: 190 IIRAL 194
++ AL
Sbjct: 200 VVAAL 204
>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 = 138 bits (350), Expect = 1e-41
Identities = 43/132 (32%), Positives = 65/132 (49%), Gaps = 9/132 (6%)
Query: 14 IDQYDRDSTIVDF---KNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKN 70
+ Q + +IV F + L L +AG L G + Q R+ I
Sbjct: 25 LKQPEATRSIV-FVRKRERVHEL-----ANWLREAGINNCYLEGEMVQGKRNEAIKRLTE 78
Query: 71 GKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQ 130
G+V +L+AT VAARG+D+ ++ V N+D P + Y+HR GRT RAG KG A + +
Sbjct: 79 GRVNVLVATDVAARGIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAHD 138
Query: 131 ERHAGEIIRALE 142
G++ R +E
Sbjct: 139 HLLLGKVGRYIE 150
>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 = 144 bits (366), Expect = 1e-41
Identities = 43/142 (30%), Positives = 77/142 (54%), Gaps = 3/142 (2%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
D ++ F N + + V + +L + +++ + Q +RD+ + +F++G
Sbjct: 254 YDSISVTQAVI-FCNTRRK--VEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSS 310
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERH 133
R+LI+T + ARG+DV+ ++LV+NYD P + E+Y+HR GR GR G KG A F+T E
Sbjct: 311 RILISTDLLARGIDVQQVSLVINYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGA 370
Query: 134 AGEIIRALEASGVPIPEDLDKM 155
E+ + +P D+ +
Sbjct: 371 MRELEKFYSTQIEELPSDIATL 392
>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 = 143 bits (362), Expect = 8e-41
Identities = 47/138 (34%), Positives = 79/138 (57%), Gaps = 3/138 (2%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
D ++ F N K + V + +++ +A + S+HG + Q +R+S + +F++G
Sbjct: 271 YDTLTITQAVI-FCNTKRK--VDWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGAS 327
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERH 133
R+LI+T V ARGLDV ++L++NYD PN+ E Y+HR GR+GR G KG A F+ + R
Sbjct: 328 RVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDIRI 387
Query: 134 AGEIIRALEASGVPIPED 151
+I + +P +
Sbjct: 388 LRDIEQYYSTQIDEMPMN 405
>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 = 141 bits (359), Expect = 2e-40
Identities = 44/138 (31%), Positives = 77/138 (55%), Gaps = 3/138 (2%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
+ ++ F N + + V + +++ + ++HG +DQ +RD + +F++G
Sbjct: 275 YETLTITQAVI-FINTRRK--VDWLTEKMHARDFTVSAMHGDMDQKERDVIMREFRSGSS 331
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERH 133
R+LI T + ARG+DV+ ++LV+NYD P + E+Y+HR GR GR G KG A +T E +R
Sbjct: 332 RVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGRGGRFGRKGVAINMVTEEDKRT 391
Query: 134 AGEIIRALEASGVPIPED 151
+I S +P +
Sbjct: 392 LRDIETFYNTSIEEMPLN 409
>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 = 138 bits (349), Expect = 3e-39
Identities = 46/127 (36%), Positives = 65/127 (51%), Gaps = 4/127 (3%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
+ + + F K + L G+ ++HG + Q R+ I FK K+
Sbjct: 234 LKNKEFYGLV--FCKTKRD--TKELASMLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKI 289
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERH 133
R+LIAT V +RG+DV LN V+NY P + E Y+HR GRTGRAG KG A + I + +
Sbjct: 290 RILIATDVMSRGIDVNDLNCVINYHLPQNPESYMHRIGRTGRAGKKGKAISIINRREYKK 349
Query: 134 AGEIIRA 140
I RA
Sbjct: 350 LRYIERA 356
>1fuk_A Eukaryotic initiation factor 4A; helicase, DEAD-box protein,
translation; 1.75A {Saccharomyces cerevisiae} SCOP:
c.37.1.19
Length = 165
Score = 131 bits (333), Expect = 5e-39
Identities = 40/121 (33%), Positives = 70/121 (57%)
Query: 35 VCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLV 94
V + +L + +++ + Q +RD+ + +F++G R+LI+T + ARG+DV+ ++LV
Sbjct: 43 VEELTTKLRNDKFTVSAIYSDLPQQERDTIMKEFRSGSSRILISTDLLARGIDVQQVSLV 102
Query: 95 VNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDK 154
+NYD P + E+Y+HR GR GR G KG A F+T E E+ + +P D+
Sbjct: 103 INYDLPANKENYIHRIGRGGRFGRKGVAINFVTNEDVGAMRELEKFYSTQIEELPSDIAT 162
Query: 155 M 155
+
Sbjct: 163 L 163
>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 = 136 bits (344), Expect = 7e-39
Identities = 42/116 (36%), Positives = 60/116 (51%), Gaps = 7/116 (6%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
+ + IV F + R V +L++ + L G + Q R+ I F+ G+
Sbjct: 215 LRENKDKGVIV-FVRTRNR------VAKLVRLFDNAIELRGDLPQSVRNRNIDAFREGEY 267
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLE 129
+LI T VA+RGLD+ + V+N+D P Y+HR GRTGR G KG A TFI E
Sbjct: 268 DMLITTDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFILNE 323
>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 = 130 bits (328), Expect = 3e-38
Identities = 42/120 (35%), Positives = 66/120 (55%), Gaps = 6/120 (5%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ E+++ G+ L G + R S I F++GK ++LI T+V ARG+DVK + +VVN+
Sbjct: 50 LTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVVNF 109
Query: 98 DCPN------HYEDYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPED 151
D P YE Y+HR GRTGR G KG A+ I +++ +I +S + +
Sbjct: 110 DLPVKQGEEPDYETYLHRIGRTGRFGKKGLAFNMIEVDELPSLMKIQDHFNSSIKQLNAE 169
>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 = 135 bits (342), Expect = 6e-38
Identities = 39/132 (29%), Positives = 67/132 (50%), Gaps = 17/132 (12%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ EL K G+ L G + R + I F+ GK ++L+ T+V ARG+DV+ +++V+N+
Sbjct: 282 LAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINF 341
Query: 98 DCPN------HYEDYVHRCGRTGRAGNKGFAYTFITLEQ--------ERHAGEIIRALEA 143
D P E Y+HR GRTGR G +G A + + + H + I L+
Sbjct: 342 DLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDT 401
Query: 144 SGVPIPEDLDKM 155
++++K+
Sbjct: 402 ---DDLDEIEKI 410
>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 = 134 bits (341), Expect = 8e-38
Identities = 44/135 (32%), Positives = 71/135 (52%), Gaps = 12/135 (8%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
S+I+ F K + +L G+ LHG + +RD I DF+ G+
Sbjct: 238 YGLMTIGSSII-FVATKKT--ANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRS 294
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNH------YEDYVHRCGRTGRAGNKGFAYTFIT 127
++LI T+V ARG+D+ +++VVNYD P Y+HR GRTGR G KG A +F+
Sbjct: 295 KVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGVAISFVH 354
Query: 128 LEQERHAGEIIRALE 142
++++ I+ A++
Sbjct: 355 ---DKNSFNILSAIQ 366
>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 = 136 bits (344), Expect = 9e-38
Identities = 39/132 (29%), Positives = 67/132 (50%), Gaps = 17/132 (12%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNY 97
+ EL K G+ L G + R + I F+ GK ++L+ T+V ARG+DV+ +++V+N+
Sbjct: 349 LAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINF 408
Query: 98 DCPN------HYEDYVHRCGRTGRAGNKGFAYTFITLEQ--------ERHAGEIIRALEA 143
D P E Y+HR GRTGR G +G A + + + H + I L+
Sbjct: 409 DLPVDKDGNPDNETYLHRIGRTGRFGKRGLAVNMVDSKHSMNILNRIQEHFNKKIERLDT 468
Query: 144 SGVPIPEDLDKM 155
++++K+
Sbjct: 469 ---DDLDEIEKI 477
>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 = 134 bits (340), Expect = 6e-37
Identities = 39/137 (28%), Positives = 65/137 (47%), Gaps = 4/137 (2%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
++ I+ K +C+I+K K P L HG I Q R S + FK +
Sbjct: 334 KERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDES 393
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERH 133
+L+ T V ARG+D +++ V+ P+ +Y+HR GRT R+G +G + FI ++
Sbjct: 394 GILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPF 453
Query: 134 AGEIIRALEASGVPIPE 150
+R LE + +
Sbjct: 454 ----VRELEDAKNIVIA 466
>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 = 134 bits (338), Expect = 2e-36
Identities = 39/137 (28%), Positives = 65/137 (47%), Gaps = 4/137 (2%)
Query: 14 IDQYDRDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKV 73
++ I+ K +C+I+K K P L HG I Q R S + FK +
Sbjct: 283 KERDSNYKAIIFAPTVKFTSFLCSILKNEFKKDLPILEFHGKITQNKRTSLVKRFKKDES 342
Query: 74 RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFITLEQERH 133
+L+ T V ARG+D +++ V+ P+ +Y+HR GRT R+G +G + FI ++
Sbjct: 343 GILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTARSGKEGSSVLFICKDELPF 402
Query: 134 AGEIIRALEASGVPIPE 150
+R LE + +
Sbjct: 403 ----VRELEDAKNIVIA 415
>3oiy_A Reverse gyrase helicase domain; topoisomerase, DNA supercoiling,
archaea, isomeras; 2.35A {Thermotoga maritima} PDB:
3p4y_A 3p4x_A*
Length = 414
Score = 93.3 bits (232), Expect = 2e-22
Identities = 26/152 (17%), Positives = 52/152 (34%), Gaps = 17/152 (11%)
Query: 19 RDSTIVDFKNGKVRLLVCAIVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIA 78
RD ++ F + + + L + + + + DFK GK+ +LI
Sbjct: 252 RDGILI-FAQTEEE--GKELYEYLKRFKFNVGETWS-----EFEKNFEDFKVGKINILIG 303
Query: 79 TSV----AARGLDVKH-LNLVVNYDCPNH--YEDYVHRCGRTGRAGNKGF--AYTFITLE 129
RG+D+ + V+ + P+ Y+ GR+ R N + I E
Sbjct: 304 VQAYYGKLTRGVDLPERIKYVIFWGTPSGPDVYTYIQASGRSSRILNGVLVKGVSVIFEE 363
Query: 130 QERHAGEIIRALEASGVPIPEDLDKMWAEDLI 161
E + L + + ++L+
Sbjct: 364 DEEIFESLKTRLLLIAEEEIIEEAEANWKELV 395
Score = 30.5 bits (69), Expect = 0.51
Identities = 6/52 (11%), Positives = 20/52 (38%), Gaps = 3/52 (5%)
Query: 32 RLLVCAIVKELMKAGYPCLS---LHGGIDQYDRDSTIVDFKNGKVRLLIATS 80
LV ++ L K + + + + +++ F+ +L+ ++
Sbjct: 74 VTLVKQTLERLQKLADEKVKIFGFYSSMKKEEKEKFEKSFEEDDYHILVFST 125
>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 = 87.5 bits (216), Expect = 3e-20
Identities = 32/104 (30%), Positives = 46/104 (44%), Gaps = 9/104 (8%)
Query: 32 RLLVCAIVKELMKAGYPCLSLHG--------GIDQYDRDSTIVDFKNGKVRLLIATSVAA 83
R IV EL+K G G G+ Q ++ + +F G+ +L+ATSV
Sbjct: 371 RETAKKIVNELVKDGIKAKRFVGQASKENDRGLSQREQKLILDEFARGEFNVLVATSVGE 430
Query: 84 RGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFIT 127
GLDV ++LVV Y+ + R GRTGR G +
Sbjct: 431 EGLDVPEVDLVVFYEPVPSAIRSIQRRGRTGRHMP-GRVIILMA 473
>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 = 61.1 bits (147), Expect = 4e-11
Identities = 25/70 (35%), Positives = 33/70 (47%), Gaps = 2/70 (2%)
Query: 53 HGGIDQYDRDSTIVDFKNGKV-RLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCG 111
G+ + + FK K RLLIATSVA G+D+ NLVV Y+ + + G
Sbjct: 433 TTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVTKMIQVRG 492
Query: 112 RTGRAGNKGF 121
R GRA
Sbjct: 493 R-GRAAGSKC 501
>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 = 60.4 bits (145), Expect = 8e-11
Identities = 30/94 (31%), Positives = 40/94 (42%), Gaps = 4/94 (4%)
Query: 46 GYPCLSLHGGIDQYDRDSTIVDFKNGKV-RLLIATSVAARGLDVKHLNLVVNYDCPNHYE 104
G G+ + + FK K RLLIATSVA G+D+ NLVV Y+ +
Sbjct: 667 GRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVT 726
Query: 105 DYVHRCGRTGRAGNKGFAYTFITLEQERHAGEII 138
+ GR GRA G +T + E E
Sbjct: 727 KMIQVRGR-GRA--AGSKCILVTSKTEVVENEKC 757
>3tbk_A RIG-I helicase domain; DECH helicase, ATP binding, hydrolase; HET:
ANP; 2.14A {Mus musculus}
Length = 555
Score = 59.5 bits (143), Expect = 1e-10
Identities = 21/65 (32%), Positives = 34/65 (52%), Gaps = 2/65 (3%)
Query: 55 GIDQYDRDSTIVDFK-NGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRT 113
G+ + + F+ +G +LIATSVA G+D+ NLV+ Y+ + + GR
Sbjct: 434 GMTLPAQKCVLEAFRASGDNNILIATSVADEGIDIAECNLVILYEYVGNVIKMIQTRGR- 492
Query: 114 GRAGN 118
GRA +
Sbjct: 493 GRARD 497
>2ykg_A Probable ATP-dependent RNA helicase DDX58; hydrolase, innate
immunity; 2.50A {Homo sapiens} PDB: 3tmi_A*
Length = 696
Score = 59.6 bits (143), Expect = 1e-10
Identities = 25/98 (25%), Positives = 41/98 (41%), Gaps = 3/98 (3%)
Query: 46 GYPCLSLHGGIDQYDRDSTIVDFK-NGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYE 104
G + + G+ + + FK +G +LIATSVA G+D+ NLV+ Y+ +
Sbjct: 434 GRGKTNQNTGMTLPAQKCILDAFKASGDHNILIATSVADEGIDIAQCNLVILYEYVGNVI 493
Query: 105 DYVHRCGRTGRAGNKGFAYTFITLEQERHAGEIIRALE 142
+ GR GRA + + +I E
Sbjct: 494 KMIQTRGR-GRARGSKC-FLLTSNAGVIEKEQINMYKE 529
>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 = 57.7 bits (138), Expect = 5e-10
Identities = 30/94 (31%), Positives = 40/94 (42%), Gaps = 4/94 (4%)
Query: 46 GYPCLSLHGGIDQYDRDSTIVDFKNGKV-RLLIATSVAARGLDVKHLNLVVNYDCPNHYE 104
G G+ + + FK K RLLIATSVA G+D+ NLVV Y+ +
Sbjct: 667 GRGRRDQTTGMTLPSQKGVLDAFKTSKDNRLLIATSVADEGIDIVQCNLVVLYEYSGNVT 726
Query: 105 DYVHRCGRTGRAGNKGFAYTFITLEQERHAGEII 138
+ GR GRA G +T + E E
Sbjct: 727 KMIQVRGR-GRA--AGSKCILVTSKTEVVENEKC 757
>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 = 51.2 bits (122), Expect = 1e-07
Identities = 19/131 (14%), Positives = 41/131 (31%), Gaps = 12/131 (9%)
Query: 42 LMKAGYPCLSLHGGIDQYDRDSTIVDFKN--GKVRLLIATSVAARGLDVKHLNLVVNYDC 99
+ G H G+ +RD F ++L+ + + + G + + + +V +D
Sbjct: 524 REREGIRAAVFHEGMSIIERDRAAAWFAEEDTGAQVLLCSEIGSEGRNFQFASHMVMFDL 583
Query: 100 PNHYEDYVHRCGRTGRAGNKG--FAYTFIT--------LEQERHAGEIIRALEASGVPIP 149
P + + R GR R G + + + +G I
Sbjct: 584 PFNPDLLEQRIGRLDRIGQAHDIQIHVPYLEKTAQSVLVRWYHEGLDAFEHTCPTGRTIY 643
Query: 150 EDLDKMWAEDL 160
+ + L
Sbjct: 644 DSVYNDLINYL 654
>2oca_A DAR protein, ATP-dependent DNA helicase UVSW; ATP-dependant
helicase, T4-bacteriophage, recombination, hydrolase;
2.70A {Enterobacteria phage T4}
Length = 510
Score = 36.8 bits (84), Expect = 0.005
Identities = 18/79 (22%), Positives = 32/79 (40%), Gaps = 1/79 (1%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIAT-SVAARGLDVKHLNLVVN 96
I + + G +D R+ +NGK +++A+ V + G+ VK+L+ VV
Sbjct: 363 IFDLIKNEYDKVYYVSGEVDTETRNIMKTLAENGKGIIIVASYGVFSTGISVKNLHHVVL 422
Query: 97 YDCPNHYEDYVHRCGRTGR 115
+ GR R
Sbjct: 423 AHGVKSKIIVLQTIGRVLR 441
>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 = 36.0 bits (83), Expect = 0.008
Identities = 21/124 (16%), Positives = 35/124 (28%), Gaps = 22/124 (17%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGL--DVKH----- 90
+ L KAG + L+ + + K K ++AT +A G V+
Sbjct: 193 MAASLRKAGKSVVVLNRKTFERE----YPTIKQKKPDFILATDIAEMGANLCVERVLDCR 248
Query: 91 LNLVVNYDCPNHYEDYVH-----------RCGRTGRAGNKGFAYTFITLEQERHAGEIIR 139
R GR GR N+ + + + +
Sbjct: 249 TAFKPVLVDEGRKVAIKGPLRISASSAAQRRGRIGRNPNRDGDSYYYSEPTSENNAHHVC 308
Query: 140 ALEA 143
LEA
Sbjct: 309 WLEA 312
>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 = 36.0 bits (83), Expect = 0.009
Identities = 11/75 (14%), Positives = 33/75 (44%), Gaps = 2/75 (2%)
Query: 23 IVDFKNGKVRLLVCAIVKEL--MKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATS 80
I++ ++ + + + + ++ + +R+ + F+ G+ R ++++
Sbjct: 343 ILERHRKDKIIIFTRHNELVYRISKVFLIPAITHRTSREEREEILEGFRTGRFRAIVSSQ 402
Query: 81 VAARGLDVKHLNLVV 95
V G+DV N+ V
Sbjct: 403 VLDEGIDVPDANVGV 417
>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 = 35.4 bits (81), Expect = 0.014
Identities = 18/135 (13%), Positives = 33/135 (24%), Gaps = 34/135 (25%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAAR------------G 85
+ +L G ++ + G+D + +++AT
Sbjct: 412 LAAKLSGLGINAVAYYRGLD-------VSVIPTIGDVVVVATDALMTGYTGDFDSVIDCN 464
Query: 86 LDVKHLNLVVNYDCPNH-----------YEDYVHRCGRTGRAGNKGFAYTFITLEQERHA 134
V V++ R GRTGR G +G E+
Sbjct: 465 TCVTQ---TVDFSLDPTFTIETTTVPQDAVSRSQRRGRTGR-GRRGIYRFVTPGERPSGM 520
Query: 135 GEIIRALEASGVPIP 149
+ E
Sbjct: 521 FDSSVLCECYDAGCA 535
>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 = 34.8 bits (80), Expect = 0.018
Identities = 20/105 (19%), Positives = 37/105 (35%), Gaps = 11/105 (10%)
Query: 53 HGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHR--- 109
H G+ R F+ G +++++AT A G+++ V+ ++ Y R
Sbjct: 303 HAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNL-PARRVIVRS-LYRFDGYSKRIKV 360
Query: 110 ------CGRTGRAGNKGFAYTFITLEQERHAGEIIRALEASGVPI 148
GR GR G I + + + R + I
Sbjct: 361 SEYKQMAGRAGRPGMDERGEAIIIVGKRDREIAVKRYIFGEPERI 405
>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 = 34.8 bits (80), Expect = 0.023
Identities = 17/107 (15%), Positives = 35/107 (32%), Gaps = 12/107 (11%)
Query: 53 HGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHR--- 109
H G+ + +R +F+ G ++ ++AT + G++ V+ D Y D+
Sbjct: 301 HAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINT-PAFRVIIRD-IWRYSDFGMERIP 358
Query: 110 -------CGRTGRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIP 149
GR GR I + + + +
Sbjct: 359 IIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPREVMNHYIFGKPEKLF 405
>1gm5_A RECG; helicase, replication restart; HET: DNA ADP; 3.24A
{Thermotoga maritima} SCOP: a.24.21.1 b.40.4.9 c.37.1.19
c.37.1.19
Length = 780
Score = 33.0 bits (76), Expect = 0.079
Identities = 12/37 (32%), Positives = 25/37 (67%)
Query: 52 LHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDV 88
+HG + Q ++D +++F G+ +L++T+V G+DV
Sbjct: 619 MHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDV 655
Score = 26.4 bits (59), Expect = 8.8
Identities = 8/26 (30%), Positives = 17/26 (65%)
Query: 10 LHGGIDQYDRDSTIVDFKNGKVRLLV 35
+HG + Q ++D +++F G+ +LV
Sbjct: 619 MHGRLSQEEKDRVMLEFAEGRYDILV 644
>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 = 32.9 bits (74), Expect = 0.089
Identities = 37/284 (13%), Positives = 79/284 (27%), Gaps = 85/284 (29%)
Query: 8 LSLHG--GI------DQYDRDSTIVDFKNGKV---RLLVCAIVKELMKAGYPCLSLHGGI 56
+ + G G + + K+ L C + +++ L I
Sbjct: 153 VLIDGVLGSGKTWVALDVCLSYKVQCKMDFKIFWLNLKNCNSPETVLE---MLQKLLYQI 209
Query: 57 DQ-----YDRDSTI---VDFKNGKVRLLIATSVAARGL----DVKHLNLVVNYDCPNHYE 104
D D S I + ++R L+ + L +V++ +
Sbjct: 210 DPNWTSRSDHSSNIKLRIHSIQAELRRLLKSKPYENCLLVLLNVQN---------AKAWN 260
Query: 105 DYVHRCGR---TGRAGN-----KGFAYTFITLEQERHA---GE----IIRALEASGVPIP 149
+ C + T R T I+L+ E +++ L+ +P
Sbjct: 261 AFNLSC-KILLTTRFKQVTDFLSAATTTHISLDHHSMTLTPDEVKSLLLKYLDCRPQDLP 319
Query: 150 EDLDK-------MWAEDLIVRTFCFRAGNKGFAYTFITLEQERHAGEI-IRALEAS---- 197
++ + AE + R N + + ++ E + LE +
Sbjct: 320 REVLTTNPRRLSIIAESI--RDGLATWDN----WKHVNCDKLTTIIESSLNVLEPAEYRK 373
Query: 198 ----------GVPIPEDLDKILAEGLVWLRDYKQRVDQRIAREL 231
IP L ++ W D + + +L
Sbjct: 374 MFDRLSVFPPSAHIPTILLSLI-----WF-DVIKSDVMVVVNKL 411
Score = 28.3 bits (62), Expect = 2.6
Identities = 32/211 (15%), Positives = 57/211 (27%), Gaps = 67/211 (31%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVR---LLIATSVAARGLDVKHLNLV 94
+V +L K SL +++ K + + + V H ++V
Sbjct: 407 VVNKLHK-----YSL---VEK--------QPKESTISIPSIYLELKVKLENEYALHRSIV 450
Query: 95 VNYDCPNHYE----------DYV------H--RCGRTGRAGNKGFAYTFIT---LEQE-R 132
+Y+ P ++ Y H R F F+ LEQ+ R
Sbjct: 451 DHYNIPKTFDSDDLIPPYLDQYFYSHIGHHLKNIEHPERM--TLFRMVFLDFRFLEQKIR 508
Query: 133 HAGEIIRALEASGVPIPEDLDK-------------MWAEDLIVRTFCFRAGNKGFAYTFI 179
H A S + + L ++ F + +
Sbjct: 509 HDSTAWNA-SGSILNTLQQLKFYKPYICDNDPKYERLVNAIL--DFLPKIEENLICSKYT 565
Query: 180 TLEQERHAGEIIRALEASGVPIPEDLDKILA 210
L + AL A I E+ K +
Sbjct: 566 DLLR--------IALMAEDEAIFEEAHKQVQ 588
>2va8_A SSO2462, SKI2-type helicase; hydrolase, DNA repair, ATP-bindin
nucleotide-binding; 2.30A {Sulfolobus solfataricus}
Length = 715
Score = 32.4 bits (74), Expect = 0.13
Identities = 22/114 (19%), Positives = 40/114 (35%), Gaps = 24/114 (21%)
Query: 53 HGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNL---VVNYDCPNHYEDYVHR 109
H G+ + RD F+ K+++++AT A G +NL V + +
Sbjct: 319 HAGLSKALRDLIEEGFRQRKIKVIVATPTLAAG-----VNLPARTVIIGDIYRFNKKIAG 373
Query: 110 -------------CGRTGRAG--NKGFAYTFITLEQERHAGEIIRALEASGVPI 148
GR GR G G + + ++E + + + PI
Sbjct: 374 YYDEIPIMEYKQMSGRAGRPGFDQIGESIV-VVRDKEDVDRVFKKYVLSDVEPI 426
>1qzv_F Plant photosystem I: subunit PSAF; photosynthesis,plant
photosynthetic reaction center, peripheral antenna; HET:
CL1 PQN; 4.44A {Pisum sativum} SCOP: i.5.1.1
Length = 154
Score = 31.1 bits (69), Expect = 0.18
Identities = 9/29 (31%), Positives = 16/29 (55%), Gaps = 11/29 (37%)
Query: 131 ERHAGEIIRALEASGVPIPEDLDKMWAED 159
E+ A ++ L+AS L K++A+D
Sbjct: 18 EKQA---LKKLQAS-------L-KLYADD 35
>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 = 31.9 bits (73), Expect = 0.18
Identities = 18/91 (19%), Positives = 37/91 (40%), Gaps = 10/91 (10%)
Query: 40 KELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGL-----DVKHLNLV 94
L G + H ++ D+ + + ++++++AT A G+ DV+ V
Sbjct: 285 VSLQNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVVAT--VAFGMGIDKPDVR---FV 339
Query: 95 VNYDCPNHYEDYVHRCGRTGRAGNKGFAYTF 125
+++ E+Y GR GR K +
Sbjct: 340 IHHSMSKSMENYYQESGRAGRDDMKADCILY 370
>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 = 30.4 bits (68), Expect = 0.57
Identities = 25/159 (15%), Positives = 57/159 (35%), Gaps = 42/159 (26%)
Query: 3 AGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLVCAIVK-ELMKAGYPCLSLHGGIDQYDR 61
A +S+ ++ +V F G + A+ + EL ++ Y ++++ G
Sbjct: 1774 ADV--MSIESLVE-------VV-FYRGM--TMQVAVPRDELGRSNYGMIAINPG------ 1815
Query: 62 DSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGF 121
F ++ ++ G V+ +VNY+ N + YV AG+
Sbjct: 1816 -RVAASFSQEALQYVVERVGKRTGWLVE----IVNYNVEN--QQYV--A-----AGDL-- 1859
Query: 122 AYTFITLEQERHAGEIIRALEASGVPIPEDLDKMWAEDL 160
L+ ++ ++ + I E + E++
Sbjct: 1860 ----RALDT---VTNVLNFIKLQKIDIIELQKSLSLEEV 1891
Score = 27.7 bits (61), Expect = 4.0
Identities = 35/209 (16%), Positives = 61/209 (29%), Gaps = 74/209 (35%)
Query: 27 KNGKVRLLVCAI----------VKELMKAGYPCLSLHGGIDQYDRDSTIVD--FKNGKVR 74
G +L AI +EL D Y +V K
Sbjct: 150 GEGNAQL--VAIFGGQGNTDDYFEEL-------------RDLYQTYHVLVGDLIKFSAET 194
Query: 75 L--LIATSVAA-----RGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTFIT 127
L LI T++ A +GL++ L + P+ +DY+ + I
Sbjct: 195 LSELIRTTLDAEKVFTQGLNILEW-LENPSNTPD--KDYLLSIP---------ISCPLIG 242
Query: 128 LEQERHAGEIIRALEASGVPIPEDLDKMWAEDLIVRTFCFRAGNKGFAYTFITLEQERHA 187
+ Q H + + G P +L R+ KG T H+
Sbjct: 243 VIQLAH---YVVTAKLLGFT-PGEL---------------RSYLKG-----ATG----HS 274
Query: 188 GEIIRALEASGVPIPEDLDKILAEGLVWL 216
++ A+ + E + + + L
Sbjct: 275 QGLVTAVAIAETDSWESFFVSVRKAITVL 303
Score = 27.7 bits (61), Expect = 4.7
Identities = 16/89 (17%), Positives = 30/89 (33%), Gaps = 20/89 (22%)
Query: 148 IPEDLDKMWAED-------LIVR--TFCFRAGNKGFAYTFITL------EQERH--AGEI 190
+PE + A+D L+ + + F + E E G
Sbjct: 41 LPEPTEGFAADDEPTTPAELVGKFLGYVSSLVEPSKVGQFDQVLNLCLTEFENCYLEGND 100
Query: 191 IRALEASGVPIPEDLDKILAEGLVWLRDY 219
I AL A + ++ D L + +++Y
Sbjct: 101 IHALAAK---LLQENDTTLVKTKELIKNY 126
>1xg8_A Hypothetical protein SA0798; structural genomics, protein structure
initative, MCSG, PSI, protein structure initiative;
2.10A {Staphylococcus aureus subsp} SCOP: c.47.1.17
Length = 111
Score = 28.8 bits (64), Expect = 0.58
Identities = 22/102 (21%), Positives = 42/102 (41%), Gaps = 24/102 (23%)
Query: 143 ASGVPIPEDLDKM-WAEDLIVRTFCFRAGNKGFAYTFITLEQE-----RHAGEIIRALEA 196
AS V P D W + L+ R + N F YT+I + ++ H + I +
Sbjct: 20 ASCVNAPTSKDIYDWLQPLLKRKY----PNISFKYTYIDITKDNDNLTDHDLQFIERI-- 73
Query: 197 SGVPIPEDL--------DKILAEGLVWLRDYKQRVDQRIARE 230
++L D+ +A+G + + + +DQ++ E
Sbjct: 74 ----EQDELFYPLITMNDEYVADGYIQTKQITRFIDQKLVNE 111
>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 = 30.2 bits (68), Expect = 0.59
Identities = 28/168 (16%), Positives = 44/168 (26%), Gaps = 33/168 (19%)
Query: 5 YPCLSLHGGIDQYDRDSTIVDFKNGKVRLLV-CAIVKE-------LMKAGYPCLSLHGGI 56
P L I S + + A VK L +AG + L+
Sbjct: 165 APIHDLQDEIPDRAWSSGYEWITEYAGKTVWFVASVKMGNEIAMCLQRAGKKVIQLNRKS 224
Query: 57 DQYDRDSTIVDFKNGKVRLLIATSVAARGL--DVKH-------LNLVVNYDCPNHYEDYV 107
+ KNG +I T ++ G + + +
Sbjct: 225 YD----TEYPKCKNGDWDFVITTDISEMGANFGASRVIDCRKSVKPTILEEGEGRVILGN 280
Query: 108 H----------RCGRTGRAGNK-GFAYTFITLEQERHAGEIIRALEAS 144
R GR GR N+ G Y + E + + EA
Sbjct: 281 PSPITSASAAQRRGRVGRNPNQVGDEYHYGGATSEDDSN-LAHWTEAK 327
>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 = 30.2 bits (69), Expect = 0.64
Identities = 24/93 (25%), Positives = 39/93 (41%), Gaps = 10/93 (10%)
Query: 38 IVKELMKAGYPCLSLHGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGL-----DVKHLN 92
L G + H G++ R F+ +++++AT A G+ +V+
Sbjct: 252 TAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATV--AFGMGINKPNVR--- 306
Query: 93 LVVNYDCPNHYEDYVHRCGRTGRAGNKGFAYTF 125
VV++D P + E Y GR GR G A F
Sbjct: 307 FVVHFDIPRNIESYYQETGRAGRDGLPAEAMLF 339
>3tb6_A Arabinose metabolism transcriptional repressor; transcription
regulation, arabinose binding, DNA binding Pro; HET:
ARB; 2.21A {Bacillus subtilis}
Length = 298
Score = 29.1 bits (66), Expect = 1.2
Identities = 17/89 (19%), Positives = 28/89 (31%), Gaps = 22/89 (24%)
Query: 130 QERHAGEIIRALEASGVPIPEDLDKMWAEDLIVRTFCFRAGNKGFAYTFITLEQERH--- 186
+R G I+A + D+ IV +K TLE+
Sbjct: 152 VKRMNG-FIQAHRERELFPSPDM--------IVTFTTEEKESKLLEKVKATLEKNSKHMP 202
Query: 187 ----------AGEIIRALEASGVPIPEDL 205
A ++I L + +PED+
Sbjct: 203 TAILCYNDEIALKVIDMLREMDLKVPEDM 231
>2j7u_A RNA dependent RNA polymerase; nucleoside binding site, flavivirus,
high-throughput assay, protein; HET: PGE; 1.85A {Dengue
virus} PDB: 2j7w_A*
Length = 635
Score = 28.1 bits (62), Expect = 2.5
Identities = 13/80 (16%), Positives = 28/80 (35%), Gaps = 15/80 (18%)
Query: 106 YVHRCGRTGRAGNKGFAYTFITLEQERHAGE---------------IIRALEASGVPIPE 150
Y ++ + R G I+ + +R +G+ ++R +E GV
Sbjct: 307 YQNKVVKVQRPTPTGTVMDIISRKDQRGSGQVGTYGLNTFTNMEAQLVRQMEGEGVLTKA 366
Query: 151 DLDKMWAEDLIVRTFCFRAG 170
DL+ + + + G
Sbjct: 367 DLENPHLLEKKITQWLETKG 386
>3lg3_A Isocitrate lyase; conserved, CD, proteomics evidence (cytopl
periplasmic), drug target functions; 1.40A {Yersinia
pestis} PDB: 1igw_A
Length = 435
Score = 28.1 bits (62), Expect = 2.7
Identities = 17/139 (12%), Positives = 37/139 (26%), Gaps = 21/139 (15%)
Query: 57 DQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRA 116
D + ++ + L+ + D + + + + + G A
Sbjct: 222 DVLGVPTLLIARTDADAADLLTSDCDPY--DREFITGDRTAEGFFRTRAGIEQAISRGLA 279
Query: 117 GNKGFAYTFITLEQERHAGEIIRAL-EASGVPIPEDLDKMWAEDLI-------------V 162
+ E + + +A P K+ A + +
Sbjct: 280 YAPYADLVWC--ETSTPDLALAKRFADAVHAQFP---GKLLAYNCSPSFNWKKNLTDQQI 334
Query: 163 RTFCFRAGNKGFAYTFITL 181
+F G+ Y FITL
Sbjct: 335 ASFQDELSAMGYKYQFITL 353
>2eyq_A TRCF, transcription-repair coupling factor; MFD, SF2 ATPase,
hydrolase; HET: EPE; 3.20A {Escherichia coli} SCOP:
b.34.18.1 c.37.1.19 c.37.1.19 c.37.1.19 c.37.1.19
d.315.1.1
Length = 1151
Score = 28.1 bits (63), Expect = 3.0
Identities = 15/83 (18%), Positives = 36/83 (43%), Gaps = 23/83 (27%)
Query: 53 HGGIDQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRC-- 110
HG + + + + + DF + + +L+ T++ G+D+ N ++ + R
Sbjct: 845 HGQMRERELERVMNDFHHQRFNVLVCTTIIETGIDIPTANTII-----------IERADH 893
Query: 111 ----------GRTGRAGNKGFAY 123
GR GR+ ++ +A+
Sbjct: 894 FGLAQLHQLRGRVGRSHHQAYAW 916
>3zwc_A Peroxisomal bifunctional enzyme; beta oxidation pathway,
oxidoreductase, lipid metabolism, LY isomerase,
peroxisome, fatty acid metabolism; HET: NAD HSC; 2.30A
{Rattus norvegicus} PDB: 3zw9_A* 3zw8_A* 3zwa_A* 3zwb_A*
2x58_A*
Length = 742
Score = 28.0 bits (63), Expect = 3.0
Identities = 3/24 (12%), Positives = 8/24 (33%)
Query: 125 FITLEQERHAGEIIRALEASGVPI 148
F G ++ ++ P+
Sbjct: 86 FSAFTPGLALGSLVDEIQRYQKPV 109
Score = 28.0 bits (63), Expect = 3.0
Identities = 3/24 (12%), Positives = 8/24 (33%)
Query: 178 FITLEQERHAGEIIRALEASGVPI 201
F G ++ ++ P+
Sbjct: 86 FSAFTPGLALGSLVDEIQRYQKPV 109
>3kxe_C Antitoxin protein PARD-1; complex, TA system, protein binding;
2.60A {Caulobacter crescentus NA1000}
Length = 88
Score = 26.3 bits (58), Expect = 3.5
Identities = 15/65 (23%), Positives = 24/65 (36%), Gaps = 6/65 (9%)
Query: 100 PNHYEDYVHRCGRTGRAGNKG-FAYTFITLEQERHAG-EIIRAL----EASGVPIPEDLD 153
+H++ ++ GR G+ + L +E A +RA E SG D D
Sbjct: 11 GDHFQAFIDSQVADGRYGSASEVIRAGLRLLEENEAKLAALRAALIEGEESGFIEDFDFD 70
Query: 154 KMWAE 158
E
Sbjct: 71 AFIEE 75
>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 = 27.3 bits (61), Expect = 5.3
Identities = 11/40 (27%), Positives = 16/40 (40%), Gaps = 4/40 (10%)
Query: 55 GIDQYDRDSTIVDFKNGKVRLLIATS----VAARGLDVKH 90
GI + F G++ LI T+ RGLD+
Sbjct: 302 GIVTATKKGDYEKFVEGEIDHLIGTAHYYGTLVRGLDLPE 341
>2hsg_A Glucose-resistance amylase regulator; CCPA, transcriptional
regulator, transcription regulator; 2.50A {Bacillus
megaterium} SCOP: a.35.1.5 c.93.1.1 PDB: 1rzr_G 2jcg_A
1zvv_A 3oqo_A* 3oqm_A* 3oqn_A*
Length = 332
Score = 27.1 bits (61), Expect = 5.6
Identities = 17/87 (19%), Positives = 34/87 (39%), Gaps = 22/87 (25%)
Query: 130 QERHAGEIIRALEASGVPIPEDLDKMWAEDLIVRT-FCFRAGNKGFAYTFITLEQERHA- 187
++ G RAL SG+P+ + IV + + +G + + +++ A
Sbjct: 194 AKKVKG-YKRALTESGLPVRDSY--------IVEGDYTYDSGIEA-VEKLLEEDEKPTAI 243
Query: 188 ---------GEIIRALEASGVPIPEDL 205
G +I + G+ +P DL
Sbjct: 244 FVGTDEMALG-VIHGAQDRGLNVPNDL 269
>2h0a_A TTHA0807, transcriptional regulator; repressor, structural
genomics, NPPSFA, national project on protein structural
and functional analyses; 2.80A {Thermus thermophilus}
Length = 276
Score = 26.7 bits (60), Expect = 6.4
Identities = 16/101 (15%), Positives = 26/101 (25%), Gaps = 22/101 (21%)
Query: 116 AGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLDKMWAEDLIVRT-FCFRAGNKGF 174
+ T+ ER AG AL+ +G P D + T G
Sbjct: 121 VEEEPDRAFRRTVFAERMAG-FQEALKEAGRPFS--------PDRLYITRHSQEGGRLA- 170
Query: 175 AYTFITLEQERHA----------GEIIRALEASGVPIPEDL 205
F+ G ++ G+ D+
Sbjct: 171 LRHFLEKASPPLNVFAGADQVALG-VLEEAVRLGLTPGRDV 210
>3c3k_A Alanine racemase; structural genomics, protein structure
initiative, NEW YORK research center for structural
genomics, nysgxrc; 1.99A {Actinobacillus succinogenes}
Length = 285
Score = 26.7 bits (60), Expect = 6.9
Identities = 17/90 (18%), Positives = 30/90 (33%), Gaps = 21/90 (23%)
Query: 126 ITLEQERHAGEIIRALEASGVPIPEDLDKMWAEDLIVRTFCFRAGNKGFAYTFITLEQER 185
Q R +G + L+ G+ + AG ++ + +
Sbjct: 136 YQYAQHRESG-YLNRLKFHGLDYSRIS--------YAENLDYMAGKLA-TFSLLKSAVKP 185
Query: 186 HA----------GEIIRALEASGVPIPEDL 205
A G I+AL SG+ IP+D+
Sbjct: 186 DAIFAISDVLAAG-AIQALTESGLSIPQDV 214
>1ffy_A Isoleucyl-tRNA synthetase; protein-RNA complex, metal IONS, editing
tRNA synthetase, double-sieve, ligase/RNA, mupiroci;
HET: MRC; 2.20A {Staphylococcus aureus} SCOP: a.27.1.1
b.51.1.1 c.26.1.1 PDB: 1qu2_A* 1qu3_A*
Length = 917
Score = 26.7 bits (60), Expect = 7.1
Identities = 15/75 (20%), Positives = 23/75 (30%), Gaps = 15/75 (20%)
Query: 147 PIPEDLDKMWAEDLIVRTFCFRAGNKGFAYTFITLEQERHAGEIIRALEASGVPI---PE 203
+ + L W + +R RA LE R+ I ++LEA V I +
Sbjct: 789 EVDQALLDKWRTFMNLRDDVNRA-----------LETARNEKVIGKSLEAK-VTIASNDK 836
Query: 204 DLDKILAEGLVWLRD 218
L
Sbjct: 837 FNASEFLTSFDALHQ 851
>1a9x_A Carbamoyl phosphate synthetase (large chain); amidotransferase,
thioester; HET: CYG ADP; 1.80A {Escherichia coli} SCOP:
a.92.1.1 c.24.1.1 c.30.1.1 c.30.1.1 d.142.1.2 d.142.1.2
PDB: 1ce8_A* 1m6v_A* 1c30_A* 1bxr_A* 1c3o_A* 1cs0_A*
1jdb_B* 1kee_A* 1t36_A*
Length = 1073
Score = 26.7 bits (60), Expect = 8.7
Identities = 13/25 (52%), Positives = 18/25 (72%), Gaps = 6/25 (24%)
Query: 139 RALEASGVPI----PEDLDKMWAED 159
RALEA+GVP+ P+ +D+ AED
Sbjct: 652 RALEAAGVPVIGTSPDAIDR--AED 674
>2qh5_A PMI, ALGA, mannose-6-phosphate isomerase; structural genomics, PSI,
protein structure initi nysgrc; 2.30A {Helicobacter
pylori}
Length = 308
Score = 26.4 bits (59), Expect = 8.8
Identities = 10/42 (23%), Positives = 18/42 (42%), Gaps = 7/42 (16%)
Query: 165 FCFRAGNKGFAYTFITLEQERHAGEIIRALEASGVPIPEDLD 206
F F+AG F+ E ++HA I++ E + +
Sbjct: 191 FVFQAG------VFLD-ELKKHAPTILKGCERAFESLENAYF 225
>1f8m_A Isocitrate lyase, ICL; alpha-beta barrel, helix-swapping, closed
conformation, bromopyuvate modification, structural
genomics; 1.80A {Mycobacterium tuberculosis H37RV} SCOP:
c.1.12.7 PDB: 1f61_A 1f8i_A
Length = 429
Score = 26.5 bits (58), Expect = 8.8
Identities = 25/139 (17%), Positives = 43/139 (30%), Gaps = 21/139 (15%)
Query: 57 DQYDRDSTIVDFKNGKVRLLIATSVAARGLDVKHLNLVVNYDCPNHYEDYVHRCGRTGRA 116
D D + ++ + + LI + V R D + + ++ + C +A
Sbjct: 218 DVADVPTVVIARTDAEAATLITSDVDER--DQPFITGERTREGFYRTKNGIEPCIARAKA 275
Query: 117 GNKGFAYTFITLEQERHAGEIIRAL-EASGVPIPEDLDKMWAEDLI-------------V 162
++ E E R EA P D+M A + +
Sbjct: 276 YAPFADLIWM--ETGTPDLEAARQFSEAVKAEYP---DQMLAYNCSPSFNWKKHLDDATI 330
Query: 163 RTFCFRAGNKGFAYTFITL 181
F GF + FITL
Sbjct: 331 AKFQKELAAMGFKFQFITL 349
>3kke_A LACI family transcriptional regulator; structural genomics,
DNA-binding, transcription regulation, PSI-2; 2.20A
{Mycobacterium smegmatis str}
Length = 303
Score = 26.4 bits (59), Expect = 8.8
Identities = 16/91 (17%), Positives = 27/91 (29%), Gaps = 25/91 (27%)
Query: 130 QERHAGEIIRALEASGVPIPEDLDKMWAEDLIVRT-FCFRAGNKGFA--YTFITLEQERH 186
Q R G + L ++G+ +V + AG+ Y L +
Sbjct: 147 QRRKEG-YLETLASAGLRSEAAW--------VVDAGWEADAGSAALNTLYRGANLGKPDG 197
Query: 187 ------------AGEIIRALEASGVPIPEDL 205
G + G+ +PEDL
Sbjct: 198 PTAVVVASVNAAVG-ALSTALRLGLRVPEDL 227
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
0.323 0.142 0.431
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: 3,941,847
Number of extensions: 254664
Number of successful extensions: 1106
Number of sequences better than 10.0: 1
Number of HSP's gapped: 1053
Number of HSP's successfully gapped: 158
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 ( 7.5 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 56 (26.1 bits)