BLASTP 2.2.26 [Sep-21-2011]
Reference: Altschul, Stephen F., Thomas L. Madden, Alejandro A. Schaffer,
Jinghui Zhang, Zheng Zhang, Webb Miller, and David J. Lipman (1997),
"Gapped BLAST and PSI-BLAST: a new generation of protein database search
programs", Nucleic Acids Res. 25:3389-3402.
Reference for compositional score matrix adjustment: Altschul, Stephen F.,
John C. Wootton, E. Michael Gertz, Richa Agarwala, Aleksandr Morgulis,
Alejandro A. Schaffer, and Yi-Kuo Yu (2005) "Protein database searches
using compositionally adjusted substitution matrices", FEBS J. 272:5101-5109.
Query= psy17644
(330 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A4D|A Chain A, Crystal Structure Of The N-Terminal Domain Of The Human
Dead-Box Rna Helicase Ddx5 (P68)
Length = 253
Score = 206 bits (525), Expect = 1e-53, Method: Compositional matrix adjust.
Identities = 103/205 (50%), Positives = 131/205 (63%)
Query: 126 EVEKNFYQPHEDIARLTPQEAQELRAKSGITVSGADPPYPVSSFGHFGFDEVLMKALRKC 185
+ EKNFYQ H D+AR T QE + R ITV G + P PV +F F +M + +
Sbjct: 2 KFEKNFYQEHPDLARRTAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQ 61
Query: 186 EYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLI 245
+T PT IQAQ P ALSG D++GVA+TGSGKT +++ P +VHI Q LE GDGP+ L+
Sbjct: 62 NFTEPTAIQAQGWPVALSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLV 121
Query: 246 LAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMV 305
LAPTREL+QQ+ A + + L C YGG K Q + LE G EI + TPGR+ID +
Sbjct: 122 LAPTRELAQQVQQVAAEYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFL 181
Query: 306 KMGATKLNRVTFLVLDEADRMFDMG 330
+ G T L R T+LVLDEADRM DMG
Sbjct: 182 ECGKTNLRRTTYLVLDEADRMLDMG 206
>pdb|3FE2|A Chain A, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
pdb|3FE2|B Chain B, Human Dead-Box Rna Helicase Ddx5 (P68), Conserved Domain I
In Complex With Adp
Length = 242
Score = 184 bits (468), Expect = 4e-47, Method: Compositional matrix adjust.
Identities = 93/189 (49%), Positives = 119/189 (62%)
Query: 142 TPQEAQELRAKSGITVSGADPPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAA 201
T QE + R ITV G + P PV +F F +M + + +T PT IQAQ P A
Sbjct: 4 TAQEVETYRRSKEITVRGHNCPKPVLNFYEANFPANVMDVIARQNFTEPTAIQAQGWPVA 63
Query: 202 LSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAK 261
LSG D++GVA+TGSGKT +++ P +VHI Q LE GDGP+ L+LAPTREL+QQ+ A
Sbjct: 64 LSGLDMVGVAQTGSGKTLSYLLPAIVHINHQPFLERGDGPICLVLAPTRELAQQVQQVAA 123
Query: 262 RFGKGYNLSVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLD 321
+ + L C YGG K Q + LE G EI + TPGR+ID ++ G T L R T+LVLD
Sbjct: 124 EYCRACRLKSTCIYGGAPKGPQIRDLERGVEICIATPGRLIDFLECGKTNLRRTTYLVLD 183
Query: 322 EADRMFDMG 330
EADRM DMG
Sbjct: 184 EADRMLDMG 192
>pdb|2DB3|A Chain A, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|B Chain B, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|C Chain C, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
pdb|2DB3|D Chain D, Structural Basis For Rna Unwinding By The Dead-Box Protein
Drosophila Vasa
Length = 434
Score = 145 bits (365), Expect = 4e-35, Method: Compositional matrix adjust.
Identities = 73/177 (41%), Positives = 107/177 (60%), Gaps = 2/177 (1%)
Query: 155 ITVSGADPPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTG 214
+ V+G+D P P+ F ++++ + K Y PTPIQ ++P SGRD++ A+TG
Sbjct: 44 VKVTGSDVPQPIQHFTSADLRDIIIDNVNKSGYKIPTPIQKCSIPVISSGRDLMACAQTG 103
Query: 215 SGKTGAFIWPMLVHIM-DQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVC 273
SGKT AF+ P+L ++ D ELE G P +I++PTREL+ QI+NEA++F L +
Sbjct: 104 SGKTAAFLLPILSKLLEDPHELELGR-PQVVIVSPTRELAIQIFNEARKFAFESYLKIGI 162
Query: 274 CYGGGSKWDQSKALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
YGG S Q++ + G +V+ TPGR++D V F+VLDEADRM DMG
Sbjct: 163 VYGGTSFRHQNECITRGCHVVIATPGRLLDFVDRTFITFEDTRFVVLDEADRMLDMG 219
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 138 bits (347), Expect = 4e-33, Method: Compositional matrix adjust.
Identities = 74/194 (38%), Positives = 104/194 (53%), Gaps = 19/194 (9%)
Query: 153 SGITVSGADPPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAK 212
S + +G + P + SF E++M + YT PTP+Q A+P RD++ A+
Sbjct: 1 SMVEATGNNCPPHIESFSDVEMGEIIMGNIELTRYTRPTPVQKHAIPIIKEKRDLMACAQ 60
Query: 213 TGSGKTGAFIWPMLVHIMDQKELEPGDG----------------PMGLILAPTRELSQQI 256
TGSGKT AF+ P+L I PG+ P+ L+LAPTREL+ QI
Sbjct: 61 TGSGKTAAFLLPILSQIYSDG---PGEALRAMKENGRYGRRKQYPISLVLAPTRELAVQI 117
Query: 257 YNEAKRFGKGYNLSVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMVKMGATKLNRVT 316
Y EA++F + YGG Q + LE G ++V TPGR++DM++ G L+
Sbjct: 118 YEEARKFSYRSRVRPCVVYGGADIGQQIRDLERGCHLLVATPGRLVDMMERGKIGLDFCK 177
Query: 317 FLVLDEADRMFDMG 330
+LVLDEADRM DMG
Sbjct: 178 YLVLDEADRMLDMG 191
>pdb|1WRB|A Chain A, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
pdb|1WRB|B Chain B, Crystal Structure Of The N-Terminal Reca-Like Domain Of
Djvlgb, A Pranarian Vasa-Like Rna Helicase
Length = 253
Score = 137 bits (345), Expect = 8e-33, Method: Compositional matrix adjust.
Identities = 70/185 (37%), Positives = 101/185 (54%), Gaps = 8/185 (4%)
Query: 154 GITVSGADPPYP----VSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIG 209
I VS P Y + +F D + + Y PTPIQ A+PA L RDI+
Sbjct: 6 SIPVSVTGPDYSATNVIENFDELKLDPTIRNNILLASYQRPTPIQKNAIPAILEHRDIMA 65
Query: 210 VAKTGSGKTGAFIWPMLVHI----MDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGK 265
A+TGSGKT AF+ P++ H+ ++Q+ P LILAPTREL+ QI +E+++F
Sbjct: 66 CAQTGSGKTAAFLIPIINHLVCQDLNQQRYSKTAYPKCLILAPTRELAIQILSESQKFSL 125
Query: 266 GYNLSVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADR 325
L YGG Q + +++G ++V TPGR++D ++ L ++VLDEADR
Sbjct: 126 NTPLRSCVVYGGADTHSQIREVQMGCHLLVATPGRLVDFIEKNKISLEFCKYIVLDEADR 185
Query: 326 MFDMG 330
M DMG
Sbjct: 186 MLDMG 190
>pdb|2GXQ|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 1
pdb|2GXS|A Chain A, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXS|B Chain B, Hera N-Terminal Domain In Complex With Amp, Crystal Form 2
pdb|2GXU|A Chain A, Hera N-Terminal Domain In Complex With Orthophosphate,
Crystal Form 1
Length = 207
Score = 124 bits (312), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 71/162 (43%), Positives = 94/162 (58%), Gaps = 4/162 (2%)
Query: 169 FGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVH 228
F F +++AL T+PTPIQA A+P AL G+D+IG A+TG+GKT AF P+
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIQAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 229 IMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALE 288
+ +E G P L+L PTREL+ Q+ +E +L VV YGG Q +AL
Sbjct: 63 LAPSQE--RGRKPRALVLTPTRELALQVASELTAVAP--HLKVVAVYGGTGYGKQKEALL 118
Query: 289 LGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
GA+ VV TPGR +D ++ G L+RV VLDEAD M MG
Sbjct: 119 RGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMG 160
>pdb|3MWJ|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWJ|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Apo Form
pdb|3MWK|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWK|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain, Complex
With 8-Oxo- Amp
pdb|3MWL|A Chain A, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3MWL|B Chain B, Q28e Mutant Of Hera N-Terminal Reca-Like Domain In Complex
With 8- Oxoadenosine
pdb|3NBF|A Chain A, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|B Chain B, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|C Chain C, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NBF|D Chain D, Q28e Mutant Of Hera Helicase N-Terminal Domain Bound To
8-Oxo-Adp
pdb|3NEJ|A Chain A, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
pdb|3NEJ|B Chain B, Q28e Mutant Of Hera Rna Helicase N-Terminal Domain -
Perfectly Twinned Hexagonal Form
Length = 207
Score = 123 bits (308), Expect = 2e-28, Method: Compositional matrix adjust.
Identities = 70/162 (43%), Positives = 94/162 (58%), Gaps = 4/162 (2%)
Query: 169 FGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVH 228
F F +++AL T+PTPI+A A+P AL G+D+IG A+TG+GKT AF P+
Sbjct: 3 FKDFPLKPEILEALHGRGLTTPTPIEAAALPLALEGKDLIGQARTGTGKTLAFALPIAER 62
Query: 229 IMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALE 288
+ +E G P L+L PTREL+ Q+ +E +L VV YGG Q +AL
Sbjct: 63 LAPSQE--RGRKPRALVLTPTRELALQVASELTAVAP--HLKVVAVYGGTGYGKQKEALL 118
Query: 289 LGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
GA+ VV TPGR +D ++ G L+RV VLDEAD M MG
Sbjct: 119 RGADAVVATPGRALDYLRQGVLDLSRVEVAVLDEADEMLSMG 160
>pdb|3BER|A Chain A, Human Dead-Box Rna-Helicase Ddx47, Conserved Domain I In
Complex With Amp
Length = 249
Score = 117 bits (293), Expect = 9e-27, Method: Compositional matrix adjust.
Identities = 66/163 (40%), Positives = 92/163 (56%), Gaps = 6/163 (3%)
Query: 168 SFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLV 227
+F G +VL +A + +T PT IQ +A+P AL GRDIIG+A+TGSGKTGAF P+L
Sbjct: 44 TFKDLGVTDVLCEACDQLGWTKPTKIQIEAIPLALQGRDIIGLAETGSGKTGAFALPILN 103
Query: 228 HIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKAL 287
+ LE L+L PTREL+ QI + + G + GG QS AL
Sbjct: 104 AL-----LETPQRLFALVLTPTRELAFQISEQFEALGSSIGVQSAVIVGGIDSMSQSLAL 158
Query: 288 ELGAEIVVGTPGRIIDMVK-MGATKLNRVTFLVLDEADRMFDM 329
I++ TPGR+ID ++ L + +LV+DEADR+ +M
Sbjct: 159 AKKPHIIIATPGRLIDHLENTKGFNLRALKYLVMDEADRILNM 201
>pdb|3IUY|A Chain A, Crystal Structure Of Ddx53 Dead-Box Domain
pdb|3IUY|B Chain B, Crystal Structure Of Ddx53 Dead-Box Domain
Length = 228
Score = 115 bits (288), Expect = 4e-26, Method: Compositional matrix adjust.
Identities = 61/154 (39%), Positives = 95/154 (61%), Gaps = 4/154 (2%)
Query: 178 LMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQK-ELE 236
L+K++ + PTPIQ+QA P L G D+I VA+TG+GKT +++ P +H+ Q E
Sbjct: 31 LLKSIIRVGILKPTPIQSQAWPIILQGIDLIVVAQTGTGKTLSYLMPGFIHLDSQPISRE 90
Query: 237 PGDGPMGLILAPTRELSQQIYNEAKRFG-KGYNLSVVCCYGGGSKWDQSKALELGAEIVV 295
+GP L+L PTREL+ + E ++ KG L +C YGG ++ Q + + G +I++
Sbjct: 91 QRNGPGMLVLTPTRELALHVEAECSKYSYKG--LKSICIYGGRNRNGQIEDISKGVDIII 148
Query: 296 GTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDM 329
TPGR+ D+ + L +T+LV+DEAD+M DM
Sbjct: 149 ATPGRLNDLQMNNSVNLRSITYLVIDEADKMLDM 182
>pdb|1HV8|A Chain A, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
pdb|1HV8|B Chain B, Crystal Structure Of A Dead Box Protein From The
Hyperthermophile Methanococcus Jannaschii
Length = 367
Score = 108 bits (269), Expect = 5e-24, Method: Compositional matrix adjust.
Identities = 59/164 (35%), Positives = 92/164 (56%), Gaps = 8/164 (4%)
Query: 168 SFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGR-DIIGVAKTGSGKTGAFIWPML 226
+F + ++ A+R + PT IQ + +P L+ +I+ A+TGSGKT +F P L
Sbjct: 7 NFNELNLSDNILNAIRNKGFEKPTDIQXKVIPLFLNDEYNIVAQARTGSGKTASFAIP-L 65
Query: 227 VHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKA 286
+ ++++ +G +IL PTREL+ Q+ +E + NL + YGG + + Q KA
Sbjct: 66 IELVNE-----NNGIEAIILTPTRELAIQVADEIESLKGNKNLKIAKIYGGKAIYPQIKA 120
Query: 287 LELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
L+ A IVVGTPGRI+D + G L V + +LDEAD + G
Sbjct: 121 LK-NANIVVGTPGRILDHINRGTLNLKNVKYFILDEADEXLNXG 163
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 103 bits (257), Expect = 1e-22, Method: Compositional matrix adjust.
Identities = 62/169 (36%), Positives = 95/169 (56%), Gaps = 9/169 (5%)
Query: 166 VSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPM 225
++ F F + +K L++ +Y T IQ Q + AL G+D++G AKTGSGKT AF+ P+
Sbjct: 24 ITRFSDFPLSKKTLKGLQEAQYRLVTEIQKQTIGLALQGKDVLGAAKTGSGKTLAFLVPV 83
Query: 226 LVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSK 285
L + + + DG LI++PTREL+ Q + ++ GK ++ S GG +++
Sbjct: 84 L-EALYRLQWTSTDGLGVLIISPTRELAYQTFEVLRKVGKNHDFSAGLIIGGKDLKHEAE 142
Query: 286 ALELGAEIVVGTPGRII----DMVKMGATKLNRVTFLVLDEADRMFDMG 330
+ I+V TPGR++ + V AT L LVLDEADR+ DMG
Sbjct: 143 RIN-NINILVCTPGRLLQHMDETVSFHATDLQ---MLVLDEADRILDMG 187
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 102 bits (255), Expect = 2e-22, Method: Compositional matrix adjust.
Identities = 54/162 (33%), Positives = 88/162 (54%), Gaps = 7/162 (4%)
Query: 167 SSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPML 226
++F F L+ + + + P+PIQ +A+P A++GRDI+ AK G+GKT AF+ P L
Sbjct: 21 NTFEDFYLKRELLMGIFEAGFEKPSPIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTL 80
Query: 227 VHIMDQKELEPGDGPM-GLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSK 285
++++P + LI+ PTREL+ Q + GK +S + GG + D
Sbjct: 81 ------EKVKPKLNKIQALIMVPTRELALQTSQVVRTLGKHCGISCMVTTGGTNLRDDIL 134
Query: 286 ALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMF 327
L I+VGTPGR++D+ L+ + ++DEAD+M
Sbjct: 135 RLNETVHILVGTPGRVLDLASRKVADLSDCSLFIMDEADKML 176
>pdb|1VEC|A Chain A, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
pdb|1VEC|B Chain B, Crystal Structure Of The N-Terminal Domain Of RckP54, A
Human Dead-Box Protein
Length = 206
Score = 102 bits (254), Expect = 3e-22, Method: Compositional matrix adjust.
Identities = 55/162 (33%), Positives = 92/162 (56%), Gaps = 6/162 (3%)
Query: 167 SSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPML 226
+ F + L+ + + + P+PIQ +++P ALSGRDI+ AK G+GK+GA++ P+L
Sbjct: 3 NEFEDYCLKRELLMGIFEMGWEKPSPIQEESIPIALSGRDILARAKNGTGKSGAYLIPLL 62
Query: 227 VHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGY-NLSVVCCYGGGSKWDQSK 285
+D K+ D +++ PTREL+ Q+ + K V+ GG + D
Sbjct: 63 ER-LDLKK----DNIQAMVIVPTRELALQVSQICIQVSKHMGGAKVMATTGGTNLRDDIM 117
Query: 286 ALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMF 327
L+ +V+ TPGRI+D++K G K++ V +VLDEAD++
Sbjct: 118 RLDDTVHVVIATPGRILDLIKKGVAKVDHVQMIVLDEADKLL 159
>pdb|1Q0U|A Chain A, Crystal Structure Of The Bstdead N-Terminal Domain
pdb|1Q0U|B Chain B, Crystal Structure Of The Bstdead N-Terminal Domain
Length = 219
Score = 102 bits (253), Expect = 4e-22, Method: Compositional matrix adjust.
Identities = 56/169 (33%), Positives = 90/169 (53%), Gaps = 11/169 (6%)
Query: 167 SSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPML 226
+ F F F +++A++ + PT IQ + +P AL G +G ++TG+GKT A++ P+
Sbjct: 4 TQFTRFPFQPFIIEAIKTLRFYKPTEIQERIIPGALRGESXVGQSQTGTGKTHAYLLPI- 62
Query: 227 VHIMDQKELEPGDGPM-GLILAPTRELSQQIYNEAKRFG----KGYNLSVVCCYGGGSKW 281
++++P + +I APTREL+ QIY+E + K + C GG K
Sbjct: 63 -----XEKIKPERAEVQAVITAPTRELATQIYHETLKITKFCPKDRXIVARCLIGGTDKQ 117
Query: 282 DQSKALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
+ L + IV+GTPGRI D ++ A ++ LV+DEAD D G
Sbjct: 118 KALEKLNVQPHIVIGTPGRINDFIREQALDVHTAHILVVDEADLXLDXG 166
>pdb|2HYI|C Chain C, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|2HYI|I Chain I, Structure Of The Human Exon Junction Complex With A
Trapped Dead-Box Helicase Bound To Rna
pdb|3EX7|C Chain C, The Crystal Structure Of Ejc In Its Transition State
pdb|3EX7|H Chain H, The Crystal Structure Of Ejc In Its Transition State
Length = 413
Score = 100 bits (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 55/163 (33%), Positives = 86/163 (52%), Gaps = 5/163 (3%)
Query: 168 SFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLV 227
+F G E L++ + + P+ IQ +A+ + GRD+I +++G+GKT F +L
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVL- 97
Query: 228 HIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKAL 287
+D + E LILAPTREL+ QI G N+ C GG + + + L
Sbjct: 98 QCLDIQVRET----QALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 153
Query: 288 ELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
+ G +V GTPGR+ DM++ + + + LVLDEAD M + G
Sbjct: 154 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKG 196
>pdb|2J0Q|A Chain A, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0Q|B Chain B, The Crystal Structure Of The Exon Junction Complex At 3.2
A Resolution
pdb|2J0S|A Chain A, The Crystal Structure Of The Exon Junction Complex At 2.2
A Resolution
Length = 410
Score = 100 bits (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 55/163 (33%), Positives = 86/163 (52%), Gaps = 5/163 (3%)
Query: 168 SFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLV 227
+F G E L++ + + P+ IQ +A+ + GRD+I +++G+GKT F +L
Sbjct: 38 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVL- 96
Query: 228 HIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKAL 287
+D + E LILAPTREL+ QI G N+ C GG + + + L
Sbjct: 97 QCLDIQVRET----QALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 152
Query: 288 ELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
+ G +V GTPGR+ DM++ + + + LVLDEAD M + G
Sbjct: 153 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKG 195
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 100 bits (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 58/169 (34%), Positives = 91/169 (53%), Gaps = 9/169 (5%)
Query: 163 PYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFI 222
P +S F F L++A+ C + P+ +Q + +P A+ G D++ AK+G GKT F+
Sbjct: 3 PGHMSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVFV 62
Query: 223 WPMLVHIMDQKELEPGDGPMG-LILAPTRELSQQIYNEAKRFGKGY-NLSVVCCYGGGSK 280
L ++LEP G + L++ TREL+ QI E +RF K N+ V +GG S
Sbjct: 63 LATL------QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLSI 116
Query: 281 WDQSKALELGA-EIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFD 328
+ L+ IVVGTPGRI+ + + + L + +LDEAD+M +
Sbjct: 117 KKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDEADKMLE 165
>pdb|2XB2|A Chain A, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
pdb|2XB2|X Chain X, Crystal Structure Of The Core Mago-Y14-Eif4aiii-Barentsz-
Upf3b Assembly Shows How The Ejc Is Bridged To The Nmd
Machinery
Length = 411
Score = 100 bits (249), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 55/163 (33%), Positives = 86/163 (52%), Gaps = 5/163 (3%)
Query: 168 SFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLV 227
+F G E L++ + + P+ IQ +A+ + GRD+I +++G+GKT F +L
Sbjct: 39 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVL- 97
Query: 228 HIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKAL 287
+D + E LILAPTREL+ QI G N+ C GG + + + L
Sbjct: 98 QCLDIQVRET----QALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 153
Query: 288 ELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
+ G +V GTPGR+ DM++ + + + LVLDEAD M + G
Sbjct: 154 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKG 196
>pdb|2HXY|A Chain A, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|B Chain B, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|C Chain C, Crystal Structure Of Human Apo-Eif4aiii
pdb|2HXY|D Chain D, Crystal Structure Of Human Apo-Eif4aiii
Length = 391
Score = 100 bits (248), Expect = 1e-21, Method: Compositional matrix adjust.
Identities = 55/163 (33%), Positives = 86/163 (52%), Gaps = 5/163 (3%)
Query: 168 SFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLV 227
+F G E L++ + + P+ IQ +A+ + GRD+I +++G+GKT F +L
Sbjct: 17 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSISVL- 75
Query: 228 HIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKAL 287
+D + E LILAPTREL+ QI G N+ C GG + + + L
Sbjct: 76 QCLDIQVRET----QALILAPTRELAVQIQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 131
Query: 288 ELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
+ G +V GTPGR+ DM++ + + + LVLDEAD M + G
Sbjct: 132 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKG 174
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 99.4 bits (246), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 65/191 (34%), Positives = 106/191 (55%), Gaps = 15/191 (7%)
Query: 149 LRAKSGITVSGADPPYPVSSFGH----FGFDEVLMKALRKCEYTSPTPIQAQAVPAALSG 204
LR K I V G D P P+++F + + L++ + + PTPIQ QA+P L G
Sbjct: 7 LRNKHKIHVQGTDLPDPIATFQQLDQEYKINSRLLQNILDAGFQMPTPIQMQAIPVMLHG 66
Query: 205 RDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGD-GPMGLILAPTRELSQQIYNEAKRF 263
R+++ A TGSGKT AF P+L+ + +P + G LI++PTREL+ QI+ E +
Sbjct: 67 RELLASAPTGSGKTLAFSIPILMQLK-----QPANKGFRALIISPTRELASQIHRELIKI 121
Query: 264 --GKGYNLSVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMVKMG--ATKLNRVTFLV 319
G G+ + ++ +K K+ + +I+V TP R+I ++K L V +LV
Sbjct: 122 SEGTGFRIHMIHKAAVAAKKFGPKSSK-KFDILVTTPNRLIYLLKQDPPGIDLASVEWLV 180
Query: 320 LDEADRMFDMG 330
+DE+D++F+ G
Sbjct: 181 VDESDKLFEDG 191
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 99.4 bits (246), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 54/163 (33%), Positives = 86/163 (52%), Gaps = 5/163 (3%)
Query: 168 SFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLV 227
+F G E L++ + + P+ IQ +A+ + GRD+I +++G+GKT F +L
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVL- 60
Query: 228 HIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKAL 287
+D + E LILAPTREL+ Q+ G N+ C GG + + + L
Sbjct: 61 QCLDIQVRET----QALILAPTRELAVQVQKGLLALGDYMNVQCHACIGGTNVGEDIRKL 116
Query: 288 ELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
+ G +V GTPGR+ DM++ + + + LVLDEAD M + G
Sbjct: 117 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKG 159
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 99.4 bits (246), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 57/170 (33%), Positives = 90/170 (52%), Gaps = 9/170 (5%)
Query: 162 PPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAF 221
P + S F F L++A+ C + P+ +Q + +P A+ G D++ AK+G GKT F
Sbjct: 3 PGHMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVF 62
Query: 222 IWPMLVHIMDQKELEPGDGPMG-LILAPTRELSQQIYNEAKRFGKGY-NLSVVCCYGGGS 279
+ L ++LEP G + L++ TREL+ QI E +RF K N+ V +GG S
Sbjct: 63 VLATL------QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLS 116
Query: 280 KWDQSKALELGA-EIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFD 328
+ L+ IVVGTPGRI+ + + + L + +LDE D+M +
Sbjct: 117 IKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLE 166
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 99.0 bits (245), Expect = 3e-21, Method: Compositional matrix adjust.
Identities = 57/170 (33%), Positives = 90/170 (52%), Gaps = 9/170 (5%)
Query: 162 PPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAF 221
P + S F F L++A+ C + P+ +Q + +P A+ G D++ AK+G GKT F
Sbjct: 3 PGHMSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKSGMGKTAVF 62
Query: 222 IWPMLVHIMDQKELEPGDGPMG-LILAPTRELSQQIYNEAKRFGKGY-NLSVVCCYGGGS 279
+ L ++LEP G + L++ TREL+ QI E +RF K N+ V +GG S
Sbjct: 63 VLATL------QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKVAVFFGGLS 116
Query: 280 KWDQSKALELGA-EIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFD 328
+ L+ IVVGTPGRI+ + + + L + +LDE D+M +
Sbjct: 117 IKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLE 166
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 98.6 bits (244), Expect = 4e-21, Method: Compositional matrix adjust.
Identities = 54/163 (33%), Positives = 86/163 (52%), Gaps = 5/163 (3%)
Query: 168 SFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLV 227
+F G E L++ + + P+ IQ +A+ + GRD+I +++G+GKT F +L
Sbjct: 2 TFDTMGLREDLLRGIYAYGFEKPSAIQQRAIKQIIKGRDVIAQSQSGTGKTATFSVSVL- 60
Query: 228 HIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKAL 287
+D + E LILAPTREL+ Q+ G N+ C GG + + + L
Sbjct: 61 QCLDIQVRET----QALILAPTRELAVQVQKGLLALGDYMNVQSHACIGGTNVGEDIRKL 116
Query: 288 ELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
+ G +V GTPGR+ DM++ + + + LVLDEAD M + G
Sbjct: 117 DYGQHVVAGTPGRVFDMIRRRSLRTRAIKMLVLDEADEMLNKG 159
>pdb|1T6N|A Chain A, Crystal Structure Of The N-Terminal Domain Of Human Uap56
pdb|1T6N|B Chain B, Crystal Structure Of The N-Terminal Domain Of Human Uap56
Length = 220
Score = 97.4 bits (241), Expect = 9e-21, Method: Compositional matrix adjust.
Identities = 60/178 (33%), Positives = 93/178 (52%), Gaps = 9/178 (5%)
Query: 154 GITVSGADPPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKT 213
G V G+ S F F L++A+ C + P+ +Q + +P A+ G D++ AK+
Sbjct: 1 GSDVKGSYVSIHSSGFRDFLLKPELLRAIVDCGFEHPSEVQHECIPQAILGMDVLCQAKS 60
Query: 214 GSGKTGAFIWPMLVHIMDQKELEPGDGPMG-LILAPTRELSQQIYNEAKRFGKGY-NLSV 271
G GKT F+ L ++LEP G + L++ TREL+ QI E +RF K N+ V
Sbjct: 61 GMGKTAVFVLATL------QQLEPVTGQVSVLVMCHTRELAFQISKEYERFSKYMPNVKV 114
Query: 272 VCCYGGGS-KWDQSKALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFD 328
+GG S K D+ + IVVGTPGRI+ + + + L + +LDE D+M +
Sbjct: 115 AVFFGGLSIKKDEEVLKKNCPHIVVGTPGRILALARNKSLNLKHIKHFILDECDKMLE 172
>pdb|3LY5|A Chain A, Ddx18 Dead-Domain
pdb|3LY5|B Chain B, Ddx18 Dead-Domain
Length = 262
Score = 96.7 bits (239), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 56/157 (35%), Positives = 90/157 (57%), Gaps = 2/157 (1%)
Query: 175 DEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKE 234
+E +KA+++ +T+ T IQ +++ L GRD++ AKTGSGKT AF+ P V ++ +
Sbjct: 62 NENTLKAIKEMGFTNMTEIQHKSIRPLLEGRDLLAAAKTGSGKTLAFLIPA-VELIVKLR 120
Query: 235 LEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALELGAEIV 294
P +G LIL+PTREL+ Q + K + + GG ++ +++ L G I+
Sbjct: 121 FMPRNGTGVLILSPTRELAMQTFGVLKELMTHHVHTYGLIMGGSNRSAEAQKLGNGINII 180
Query: 295 VGTPGRIID-MVKMGATKLNRVTFLVLDEADRMFDMG 330
V TPGR++D M + LV+DEADR+ D+G
Sbjct: 181 VATPGRLLDHMQNTPGFMYKNLQCLVIDEADRILDVG 217
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 95.9 bits (237), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 54/157 (34%), Positives = 90/157 (57%), Gaps = 12/157 (7%)
Query: 174 FDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQK 233
+E + +A+R+ + + T +Q++ +P L G++++ AKTGSGKT A+ P+L
Sbjct: 1 MNEKIEQAIREMGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPIL------- 53
Query: 234 ELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALELGAEI 293
EL G L++ PTREL++Q+ + + G+ + V YGG Q + A+I
Sbjct: 54 EL----GMKSLVVTPTRELTRQVASHIRDIGRYMDTKVAEVYGGMPYKAQINRVR-NADI 108
Query: 294 VVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
VV TPGR++D+ G L+ +++DEAD MF+MG
Sbjct: 109 VVATPGRLLDLWSKGVIDLSSFEIVIIDEADLMFEMG 145
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 95.9 bits (237), Expect = 3e-20, Method: Compositional matrix adjust.
Identities = 59/165 (35%), Positives = 94/165 (56%), Gaps = 9/165 (5%)
Query: 174 FDEVLMKALRKCEYTSPTPIQAQAVPAALSG--RDIIGVAKTGSGKTGAFIWPMLVHIMD 231
D+ + KA+ + E+ TP+Q + + LS D+I AKTG+GKT AF+ P+ H+++
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 232 QKELEPGDGPMGLILAPTRELSQQIYNEAKRFGK-GYNLSVVCCYG--GGSKWD--QSKA 286
K + +I+APTR+L+ QI E K+ Y L C GG+ + +K
Sbjct: 88 TK-FDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKM 146
Query: 287 LELGAEIVVGTPGRIIDMVKMGATKLNR-VTFLVLDEADRMFDMG 330
+L IV+ TPGR+ID+++ + K R V + VLDEADR+ ++G
Sbjct: 147 NKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIG 191
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 95.5 bits (236), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 57/166 (34%), Positives = 83/166 (50%), Gaps = 6/166 (3%)
Query: 166 VSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPM 225
V SF E L++ + + P+ IQ +A+ + G D+I A++G+GKT F
Sbjct: 39 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFA--- 95
Query: 226 LVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSK 285
+ I+ Q EL+ L+LAPTREL+QQI G S C GG + + +
Sbjct: 96 -ISILQQIELDLK-ATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 153
Query: 286 ALELGA-EIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
L++ A I+VGTPGR+ DM+ + VLDEAD M G
Sbjct: 154 KLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRG 199
>pdb|2ZU6|A Chain A, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|C Chain C, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|D Chain D, Crystal Structure Of The Eif4a-Pdcd4 Complex
pdb|2ZU6|F Chain F, Crystal Structure Of The Eif4a-Pdcd4 Complex
Length = 388
Score = 95.1 bits (235), Expect = 5e-20, Method: Compositional matrix adjust.
Identities = 57/166 (34%), Positives = 83/166 (50%), Gaps = 6/166 (3%)
Query: 166 VSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPM 225
V SF E L++ + + P+ IQ +A+ + G D+I A++G+GKT F
Sbjct: 13 VDSFDDMNLSESLLRGIYAYGFEKPSAIQQRAILPCIKGYDVIAQAQSGTGKTATFA--- 69
Query: 226 LVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSK 285
+ I+ Q EL+ L+LAPTREL+QQI G S C GG + + +
Sbjct: 70 -ISILQQIELDLK-ATQALVLAPTRELAQQIQKVVMALGDYMGASCHACIGGTNVRAEVQ 127
Query: 286 ALELGA-EIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
L++ A I+VGTPGR+ DM+ + VLDEAD M G
Sbjct: 128 KLQMEAPHIIVGTPGRVFDMLNRRYLSPKYIKMFVLDEADEMLSRG 173
>pdb|3I5X|A Chain A, Structure Of Mss116p Bound To Ssrna And Amp-Pnp
pdb|3I5Y|A Chain A, Structure Of Mss116p Bound To Ssrna Containing A Single
5-Bru And Amp- Pnp
pdb|3I61|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-beryllium
Fluoride
pdb|3I62|A Chain A, Structure Of Mss116p Bound To Ssrna And Adp-aluminum
Fluoride
Length = 563
Score = 94.7 bits (234), Expect = 6e-20, Method: Compositional matrix adjust.
Identities = 59/165 (35%), Positives = 94/165 (56%), Gaps = 9/165 (5%)
Query: 174 FDEVLMKALRKCEYTSPTPIQAQAVPAALSG--RDIIGVAKTGSGKTGAFIWPMLVHIMD 231
D+ + KA+ + E+ TP+Q + + LS D+I AKTG+GKT AF+ P+ H+++
Sbjct: 79 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 138
Query: 232 QKELEPGDGPMGLILAPTRELSQQIYNEAKRFGK-GYNLSVVCCYG--GGSKWD--QSKA 286
K + +I+APTR+L+ QI E K+ Y L C GG+ + +K
Sbjct: 139 TK-FDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKM 197
Query: 287 LELGAEIVVGTPGRIIDMVKMGATKLNR-VTFLVLDEADRMFDMG 330
+L IV+ TPGR+ID+++ + K R V + VLDEADR+ ++G
Sbjct: 198 NKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIG 242
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 94.4 bits (233), Expect = 8e-20, Method: Compositional matrix adjust.
Identities = 59/165 (35%), Positives = 94/165 (56%), Gaps = 9/165 (5%)
Query: 174 FDEVLMKALRKCEYTSPTPIQAQAVPAALSG--RDIIGVAKTGSGKTGAFIWPMLVHIMD 231
D+ + KA+ + E+ TP+Q + + LS D+I AKTG+GKT AF+ P+ H+++
Sbjct: 28 LDKEIHKAITRMEFPGLTPVQQKTIKPILSSEDHDVIARAKTGTGKTFAFLIPIFQHLIN 87
Query: 232 QKELEPGDGPMGLILAPTRELSQQIYNEAKRFGK-GYNLSVVCCYG--GGSKWD--QSKA 286
K + +I+APTR+L+ QI E K+ Y L C GG+ + +K
Sbjct: 88 TK-FDSQYMVKAVIVAPTRDLALQIEAEVKKIHDMNYGLKKYACVSLVGGTDFRAAMNKM 146
Query: 287 LELGAEIVVGTPGRIIDMVKMGATKLNR-VTFLVLDEADRMFDMG 330
+L IV+ TPGR+ID+++ + K R V + VLDEADR+ ++G
Sbjct: 147 NKLRPNIVIATPGRLIDVLEKYSNKFFRFVDYKVLDEADRLLEIG 191
>pdb|2VSO|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSO|B Chain B, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|B Chain B, Crystal Structure Of A Translation Initiation Complex
Length = 395
Score = 94.0 bits (232), Expect = 1e-19, Method: Compositional matrix adjust.
Identities = 54/165 (32%), Positives = 84/165 (50%), Gaps = 6/165 (3%)
Query: 166 VSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPM 225
V F DE L++ + + P+ IQ +A+ + G D++ A++G+GKTG F
Sbjct: 21 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 80
Query: 226 LVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSK 285
L Q+ P L+LAPTREL+ QI ++ V C GG S + ++
Sbjct: 81 L-----QRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE 135
Query: 286 ALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
L A+IVVGTPGR+ D ++ + +++ +LDEAD M G
Sbjct: 136 GLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSG 179
>pdb|2KBE|A Chain A, Solution Structure Of Amino-Terminal Domain Of Dbp5p
Length = 226
Score = 93.2 bits (230), Expect = 2e-19, Method: Compositional matrix adjust.
Identities = 52/170 (30%), Positives = 90/170 (52%), Gaps = 13/170 (7%)
Query: 162 PPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSG--RDIIGVAKTGSGKTG 219
P Y SF G L+K + ++ P+ IQ +A+P L R++I +++G+GKT
Sbjct: 17 PLYSAKSFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTA 76
Query: 220 AFIWPMLVHIMDQKELEPGDG-PMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGG 278
AF ML + P D P + LAP+REL++Q + GK ++
Sbjct: 77 AFSLTMLTRV------NPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDS 130
Query: 279 SKWDQSKALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFD 328
++++K ++ A+++VGTPG ++D+++ +L ++ VLDEAD M D
Sbjct: 131 --FEKNK--QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLD 176
>pdb|1QDE|A Chain A, Crystal Structure Of The Atpase Domain Of Translation
Initiation Factor 4a From Saccharomyces Cerevisiae-The
Prototype Of The Dead Box Protein Family
Length = 224
Score = 92.8 bits (229), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 54/165 (32%), Positives = 84/165 (50%), Gaps = 6/165 (3%)
Query: 166 VSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPM 225
V F DE L++ + + P+ IQ +A+ + G D++ A++G+GKTG F
Sbjct: 13 VYKFDDMELDENLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 72
Query: 226 LVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSK 285
L Q+ P L+LAPTREL+ QI ++ V C GG S + ++
Sbjct: 73 L-----QRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE 127
Query: 286 ALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
L A+IVVGTPGR+ D ++ + +++ +LDEAD M G
Sbjct: 128 GLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSG 171
>pdb|1QVA|A Chain A, Yeast Initiation Factor 4a N-Terminal Domain
Length = 223
Score = 92.4 bits (228), Expect = 3e-19, Method: Compositional matrix adjust.
Identities = 54/165 (32%), Positives = 84/165 (50%), Gaps = 6/165 (3%)
Query: 166 VSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPM 225
V F DE L++ + + P+ IQ +A+ + G D++ A++G+GKTG F
Sbjct: 20 VYKFDDMELDEQLLRGVFGYGFEEPSAIQQRAIMPIIEGHDVLAQAQSGTGKTGTFSIAA 79
Query: 226 LVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSK 285
L Q+ P L+LAPTREL+ QI ++ V C GG S + ++
Sbjct: 80 L-----QRIDTSVKAPQALMLAPTRELALQIQKVVMALAFHMDIKVHACIGGTSFVEDAE 134
Query: 286 ALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
L A+IVVGTPGR+ D ++ + +++ +LDEAD M G
Sbjct: 135 GLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKMFILDEADEMLSSG 178
>pdb|2G9N|A Chain A, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
pdb|2G9N|B Chain B, Structure Of The Dead Domain Of Human Eukaryotic
Initiation Factor 4a, Eif4a
Length = 221
Score = 91.7 bits (226), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 56/166 (33%), Positives = 82/166 (49%), Gaps = 6/166 (3%)
Query: 166 VSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPM 225
V SF E L++ + + P+ IQ +A+ + G D+I A++G+G T F
Sbjct: 14 VDSFDDMNLSESLLRGIYAYGFEXPSAIQQRAILPCIXGYDVIAQAQSGTGXTATFA--- 70
Query: 226 LVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSK 285
+ I+ Q EL+ L+LAPTREL+QQI G S C GG + + +
Sbjct: 71 -ISILQQIELDL-XATQALVLAPTRELAQQIQXVVMALGDYMGASCHACIGGTNVRAEVQ 128
Query: 286 ALELGA-EIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
L++ A I+VGTPGR+ DM+ + VLDEAD M G
Sbjct: 129 XLQMEAPHIIVGTPGRVFDMLNRRYLSPXYIXMFVLDEADEMLSRG 174
>pdb|3BOR|A Chain A, Crystal Structure Of The Deadc Domain Of Human Translation
Initiation Factor 4a-2
Length = 237
Score = 91.7 bits (226), Expect = 6e-19, Method: Compositional matrix adjust.
Identities = 56/166 (33%), Positives = 84/166 (50%), Gaps = 6/166 (3%)
Query: 166 VSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPM 225
V +F E L++ + + P+ IQ +A+ + G D+I A++G+GKT F
Sbjct: 29 VDNFDDMNLKESLLRGIYAYGFEKPSAIQQRAIIPCIKGYDVIAQAQSGTGKTATFA--- 85
Query: 226 LVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSK 285
+ I+ Q E+E + L+LAPTREL+QQI G + C GG + ++ +
Sbjct: 86 -ISILQQLEIEFKE-TQALVLAPTRELAQQIQKVILALGDYMGATCHACIGGTNVRNEMQ 143
Query: 286 ALELGA-EIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
L+ A IVVGTPGR+ DM+ + VLDEAD M G
Sbjct: 144 KLQAEAPHIVVGTPGRVFDMLNRRYLSPKWIKMFVLDEADEMLSRG 189
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 89.7 bits (221), Expect = 2e-18, Method: Compositional matrix adjust.
Identities = 53/165 (32%), Positives = 82/165 (49%), Gaps = 6/165 (3%)
Query: 166 VSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPM 225
V F DE L++ + + P+ IQ +A+ + G D++ A++G+GKTG F
Sbjct: 20 VYKFDDXELDENLLRGVFGYGFEEPSAIQQRAIXPIIEGHDVLAQAQSGTGKTGTFSIAA 79
Query: 226 LVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSK 285
L Q+ P L LAPTREL+ QI ++ V C GG S + ++
Sbjct: 80 L-----QRIDTSVKAPQALXLAPTRELALQIQKVVXALAFHXDIKVHACIGGTSFVEDAE 134
Query: 286 ALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFDMG 330
L A+IVVGTPGR+ D ++ + +++ +LDEAD G
Sbjct: 135 GLR-DAQIVVGTPGRVFDNIQRRRFRTDKIKXFILDEADEXLSSG 178
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 87.8 bits (216), Expect = 8e-18, Method: Compositional matrix adjust.
Identities = 50/164 (30%), Positives = 88/164 (53%), Gaps = 13/164 (7%)
Query: 168 SFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSG--RDIIGVAKTGSGKTGAFIWPM 225
SF G L+K + ++ P+ IQ +A+P L R++I +++G+GKT AF M
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 226 LVHIMDQKELEPGDG-PMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQS 284
L + P D P + LAP+REL++Q + GK ++ ++++
Sbjct: 66 LTRV------NPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDS--FEKN 117
Query: 285 KALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFD 328
K ++ A+++VGTPG ++D+++ +L ++ VLDEAD M D
Sbjct: 118 K--QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLD 159
>pdb|3PEW|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Rna And Adp Bef3
pdb|3RRM|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Nup159, Gle1 H337r, Ip6
And Adp
pdb|3RRN|A Chain A, S. Cerevisiae Dbp5 L327v Bound To Gle1 H337r And Ip6
Length = 395
Score = 87.4 bits (215), Expect = 9e-18, Method: Compositional matrix adjust.
Identities = 50/164 (30%), Positives = 88/164 (53%), Gaps = 13/164 (7%)
Query: 168 SFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSG--RDIIGVAKTGSGKTGAFIWPM 225
SF G L+K + ++ P+ IQ +A+P L R++I +++G+GKT AF M
Sbjct: 6 SFDELGLAPELLKGIYAMKFQKPSKIQERALPLLLHNPPRNMIAQSQSGTGKTAAFSLTM 65
Query: 226 LVHIMDQKELEPGDG-PMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQS 284
L + P D P + LAP+REL++Q + GK ++ ++++
Sbjct: 66 LTRV------NPEDASPQAICLAPSRELARQTLEVVQEMGKFTKITSQLIVPDS--FEKN 117
Query: 285 KALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLDEADRMFD 328
K ++ A+++VGTPG ++D+++ +L ++ VLDEAD M D
Sbjct: 118 K--QINAQVIVGTPGTVLDLMRRKLMQLQKIKIFVLDEADNMLD 159
>pdb|2OXC|A Chain A, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|2OXC|B Chain B, Human Dead-Box Rna Helicase Ddx20, Dead Domain In Complex
With Adp
pdb|3B7G|A Chain A, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
pdb|3B7G|B Chain B, Human Dead-Box Rna Helicase Ddx20, Conserved Domain I
(Dead) In Complex With Amppnp
(Adenosine-(Beta,Gamma)-Imidotriphosphate)
Length = 230
Score = 77.4 bits (189), Expect = 1e-14, Method: Compositional matrix adjust.
Identities = 57/189 (30%), Positives = 90/189 (47%), Gaps = 10/189 (5%)
Query: 142 TPQEAQELRAKSGITVSGADPPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAA 201
T Q+ R ++G V A+P + F +++ LR + P+P+Q +A+P
Sbjct: 4 TAQDLSSPRTRTG-DVLLAEP----ADFESLLLSRPVLEGLRAAGFERPSPVQLKAIPLG 58
Query: 202 LSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEAK 261
G D+I AK+G+GKT F L D LE + LILAPTRE++ QI++
Sbjct: 59 RCGLDLIVQAKSGTGKTCVFSTIAL----DSLVLENLSTQI-LILAPTREIAVQIHSVIT 113
Query: 262 RFGKGYNLSVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMVKMGATKLNRVTFLVLD 321
G + GG+ Q K I VG+PGRI ++++ + +LD
Sbjct: 114 AIGIKMEGLECHVFIGGTPLSQDKTRLKKCHIAVGSPGRIKQLIELDYLNPGSIRLFILD 173
Query: 322 EADRMFDMG 330
EAD++ + G
Sbjct: 174 EADKLLEEG 182
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 74.3 bits (181), Expect = 8e-14, Method: Compositional matrix adjust.
Identities = 49/142 (34%), Positives = 73/142 (51%), Gaps = 19/142 (13%)
Query: 193 IQAQAVPAALSG--RDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDG----PMGLIL 246
IQ +A+P LS R++IG +++G+GKT AF ML + D P + L
Sbjct: 145 IQEKALPLLLSNPPRNMIGQSQSGTGKTAAFALTMLSRV---------DASVPKPQAICL 195
Query: 247 APTRELSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMVK 306
AP+REL++QI + GK + G K K ++ A+IV+GTPG ++D++K
Sbjct: 196 APSRELARQIMDVVTEMGKYTEVKT----AFGIKDSVPKGAKIDAQIVIGTPGTVMDLMK 251
Query: 307 MGATKLNRVTFLVLDEADRMFD 328
+ VLDEAD M D
Sbjct: 252 RRQLDARDIKVFVLDEADNMLD 273
>pdb|3FMO|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 300
Score = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 51/170 (30%), Positives = 86/170 (50%), Gaps = 12/170 (7%)
Query: 162 PPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSG--RDIIGVAKTGSGKTG 219
P Y V SF L++ + + P+ IQ A+P L+ +++I +++G+GKT
Sbjct: 87 PLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTA 146
Query: 220 AFIWPMLVHIMDQKELEPGDG-PMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGG 278
AF+ ML + EP + P L L+PT EL+ Q ++ GK Y + G
Sbjct: 147 AFVLAMLSQV------EPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG 200
Query: 279 SKWDQSKALELGAEIVVGTPGRIIDMV-KMGATKLNRVTFLVLDEADRMF 327
+K ++ + ++ +IV+GTPG ++D K+ ++ VLDEAD M
Sbjct: 201 NKLERGQ--KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 248
>pdb|3FMP|B Chain B, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
pdb|3FMP|D Chain D, Crystal Structure Of The Nucleoporin Nup214 In Complex
With The Dead- Box Helicase Ddx19
Length = 479
Score = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 51/170 (30%), Positives = 87/170 (51%), Gaps = 12/170 (7%)
Query: 162 PPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSG--RDIIGVAKTGSGKTG 219
P Y V SF L++ + + P+ IQ A+P L+ +++I +++G+GKT
Sbjct: 87 PLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTA 146
Query: 220 AFIWPMLVHIMDQKELEPGDG-PMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGG 278
AF+ ML ++EP + P L L+PT EL+ Q ++ GK Y + G
Sbjct: 147 AFVLAML------SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG 200
Query: 279 SKWDQSKALELGAEIVVGTPGRIIDMV-KMGATKLNRVTFLVLDEADRMF 327
+K ++ + ++ +IV+GTPG ++D K+ ++ VLDEAD M
Sbjct: 201 NKLERGQ--KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 248
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 73.9 bits (180), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 51/170 (30%), Positives = 87/170 (51%), Gaps = 12/170 (7%)
Query: 162 PPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSG--RDIIGVAKTGSGKTG 219
P Y V SF L++ + + P+ IQ A+P L+ +++I +++G+GKT
Sbjct: 36 PLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTA 95
Query: 220 AFIWPMLVHIMDQKELEPGDG-PMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGG 278
AF+ ML ++EP + P L L+PT EL+ Q ++ GK Y + G
Sbjct: 96 AFVLAML------SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG 149
Query: 279 SKWDQSKALELGAEIVVGTPGRIIDMV-KMGATKLNRVTFLVLDEADRMF 327
+K ++ + ++ +IV+GTPG ++D K+ ++ VLDEAD M
Sbjct: 150 NKLERGQ--KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 197
>pdb|3EWS|A Chain A, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
pdb|3EWS|B Chain B, Human Dead-Box Rna-Helicase Ddx19 In Complex With Adp
Length = 445
Score = 73.6 bits (179), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 51/170 (30%), Positives = 87/170 (51%), Gaps = 12/170 (7%)
Query: 162 PPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSG--RDIIGVAKTGSGKTG 219
P Y V SF L++ + + P+ IQ A+P L+ +++I +++G+GKT
Sbjct: 57 PLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTA 116
Query: 220 AFIWPMLVHIMDQKELEPGDG-PMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGG 278
AF+ ML ++EP + P L L+PT EL+ Q ++ GK Y + G
Sbjct: 117 AFVLAML------SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG 170
Query: 279 SKWDQSKALELGAEIVVGTPGRIIDMV-KMGATKLNRVTFLVLDEADRMF 327
+K ++ + ++ +IV+GTPG ++D K+ ++ VLDEAD M
Sbjct: 171 NKLERGQ--KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 218
>pdb|3FHT|A Chain A, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
pdb|3FHT|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Amppnp And
Rna
Length = 412
Score = 73.6 bits (179), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 51/170 (30%), Positives = 87/170 (51%), Gaps = 12/170 (7%)
Query: 162 PPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSG--RDIIGVAKTGSGKTG 219
P Y V SF L++ + + P+ IQ A+P L+ +++I +++G+GKT
Sbjct: 20 PLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKTA 79
Query: 220 AFIWPMLVHIMDQKELEPGDG-PMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGGG 278
AF+ ML ++EP + P L L+PT EL+ Q ++ GK Y + G
Sbjct: 80 AFVLAML------SQVEPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVRG 133
Query: 279 SKWDQSKALELGAEIVVGTPGRIIDMV-KMGATKLNRVTFLVLDEADRMF 327
+K ++ + ++ +IV+GTPG ++D K+ ++ VLDEAD M
Sbjct: 134 NKLERGQ--KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 181
>pdb|3FHC|B Chain B, Crystal Structure Of Human Dbp5 In Complex With Nup214
Length = 235
Score = 73.6 bits (179), Expect = 1e-13, Method: Compositional matrix adjust.
Identities = 51/171 (29%), Positives = 86/171 (50%), Gaps = 12/171 (7%)
Query: 161 DPPYPVSSFGHFGFDEVLMKALRKCEYTSPTPIQAQAVPAALSG--RDIIGVAKTGSGKT 218
P Y V SF L++ + + P+ IQ A+P L+ +++I +++G+GKT
Sbjct: 19 SPLYSVKSFEELRLKPQLLQGVYAMGFNRPSKIQENALPLMLAEPPQNLIAQSQSGTGKT 78
Query: 219 GAFIWPMLVHIMDQKELEPGDG-PMGLILAPTRELSQQIYNEAKRFGKGYNLSVVCCYGG 277
AF+ ML + EP + P L L+PT EL+ Q ++ GK Y +
Sbjct: 79 AAFVLAMLSQV------EPANKYPQCLCLSPTYELALQTGKVIEQMGKFYPELKLAYAVR 132
Query: 278 GSKWDQSKALELGAEIVVGTPGRIIDMV-KMGATKLNRVTFLVLDEADRMF 327
G+K ++ + ++ +IV+GTPG ++D K+ ++ VLDEAD M
Sbjct: 133 GNKLERGQ--KISEQIVIGTPGTVLDWCSKLKFIDPKKIKVFVLDEADVMI 181
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 41.2 bits (95), Expect = 9e-04, Method: Compositional matrix adjust.
Identities = 40/136 (29%), Positives = 63/136 (46%), Gaps = 14/136 (10%)
Query: 193 IQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTREL 252
I + + A + + V TG GKT L+ +M + G L+LAPT+ L
Sbjct: 12 IYQEVIYAKCKETNCLIVLPTGLGKT-------LIAMMIAEYRLTKYGGKVLMLAPTKPL 64
Query: 253 SQQIYNEAKRFGKGYNL---SVVCCYGGGSKWDQSKALELGAEIVVGTPGRIIDMVKMGA 309
+ A+ F + +NL +V G S ++SKA A+++V TP I + + G
Sbjct: 65 ---VLQHAESFRRLFNLPPEKIVALTGEKSPEERSKAWA-RAKVIVATPQTIENDLLAGR 120
Query: 310 TKLNRVTFLVLDEADR 325
L V+ +V DEA R
Sbjct: 121 ISLEDVSLIVFDEAHR 136
>pdb|2P6R|A Chain A, Crystal Structure Of Superfamily 2 Helicase Hel308 In
Complex With Unwound Dna
pdb|2P6U|A Chain A, Apo Structure Of The Hel308 Superfamily 2 Helicase
Length = 702
Score = 32.7 bits (73), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 35/132 (26%), Positives = 61/132 (46%), Gaps = 14/132 (10%)
Query: 192 PIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTRE 251
P QA+AV SG++++ T +GKT +L + + E G L + P R
Sbjct: 28 PPQAEAVEKVFSGKNLLLAMPTAAGKT------LLAEMAMVR--EAIKGGKSLYVVPLRA 79
Query: 252 LSQQIYNEAKRFGKGYNLSVVCCYGGGSKWDQSKALELG-AEIVVGTPGRIIDMVKMGAT 310
L+ + Y K++ K L + G D+ LG +I+V T + +++ A+
Sbjct: 80 LAGEKYESFKKWEK-IGLRIGISTGDYESRDE----HLGDCDIIVTTSEKADSLIRNRAS 134
Query: 311 KLNRVTFLVLDE 322
+ V+ LV+DE
Sbjct: 135 WIKAVSCLVVDE 146
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 29.6 bits (65), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 21/41 (51%)
Query: 187 YTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLV 227
Y P Q + + LSGRD + V TG GK+ + P L+
Sbjct: 23 YQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALL 63
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 29.6 bits (65), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 21/41 (51%)
Query: 187 YTSPTPIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLV 227
Y P Q + + LSGRD + V TG GK+ + P L+
Sbjct: 23 YQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALL 63
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 29.6 bits (65), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 18/48 (37%), Positives = 26/48 (54%), Gaps = 1/48 (2%)
Query: 192 PIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKEL-EPG 238
P Q + AL G++II TGSGKT ++ H+ +K+ EPG
Sbjct: 36 PYQMEVAQPALEGKNIIICLPTGSGKTRVAVYIAKDHLDKKKKASEPG 83
>pdb|4AE0|A Chain A, Crystal Structure Of Diphtheria Toxin Mutant Crm197
pdb|4AE1|A Chain A, Crystal Structure Of Diphtheria Toxin Mutant Crm197 In
Complex With Nicotinamide
pdb|4AE1|B Chain B, Crystal Structure Of Diphtheria Toxin Mutant Crm197 In
Complex With Nicotinamide
Length = 535
Score = 29.3 bits (64), Expect = 3.0, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 46/101 (45%), Gaps = 17/101 (16%)
Query: 215 SGKTGAFI---WPMLVHIMDQK--ELEPGDGPMGLILAPTRELSQQIYNE--AKRFGKGY 267
SGK G + +P L ++ K E +GL L T L +Q+ E KRFG G
Sbjct: 74 SGKAGGVVKVTYPGLTKVLALKVDNAETIKKELGLSL--TEPLMEQVGTEEFIKRFGDGA 131
Query: 268 NLSVVCC-YGGGS-------KWDQSKALELGAEIVVGTPGR 300
+ V+ + GS W+Q+KAL + EI T G+
Sbjct: 132 SRVVLSLPFAEGSSSVEYINNWEQAKALSVELEINFETRGK 172
>pdb|1MDT|A Chain A, The Refined Structure Of Monomeric Diphtheria Toxin At 2.3
Angstroms Resolution
pdb|1MDT|B Chain B, The Refined Structure Of Monomeric Diphtheria Toxin At 2.3
Angstroms Resolution
pdb|1TOX|A Chain A, Diphtheria Toxin Dimer Complexed With Nad
pdb|1TOX|B Chain B, Diphtheria Toxin Dimer Complexed With Nad
pdb|1XDT|T Chain T, Complex Of Diphtheria Toxin And Heparin-Binding Epidermal
Growth Factor
pdb|1F0L|A Chain A, 1.55 Angstrom Crystal Structure Of Wild Type Diphtheria
Toxin
pdb|1F0L|B Chain B, 1.55 Angstrom Crystal Structure Of Wild Type Diphtheria
Toxin
pdb|1DDT|A Chain A, The Refined Structure Of Dimeric Diphtheria Toxin At 2.0
Angstroms Resolution
pdb|1SGK|A Chain A, Nucleotide-Free Diphtheria Toxin
Length = 535
Score = 29.3 bits (64), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 32/101 (31%), Positives = 46/101 (45%), Gaps = 17/101 (16%)
Query: 215 SGKTGAFI---WPMLVHIMDQK--ELEPGDGPMGLILAPTRELSQQIYNE--AKRFGKGY 267
SGK G + +P L ++ K E +GL L T L +Q+ E KRFG G
Sbjct: 74 SGKAGGVVKVTYPGLTKVLALKVDNAETIKKELGLSL--TEPLMEQVGTEEFIKRFGDGA 131
Query: 268 NLSVVCC-YGGGS-------KWDQSKALELGAEIVVGTPGR 300
+ V+ + GS W+Q+KAL + EI T G+
Sbjct: 132 SRVVLSLPFAEGSSSVEYINNWEQAKALSVELEINFETRGK 172
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 28.9 bits (63), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 20/67 (29%), Positives = 33/67 (49%), Gaps = 4/67 (5%)
Query: 192 PIQAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKEL-EPGDGPMGLILAPTR 250
P Q + AL G++II TG GKT ++ H+ +K+ EPG ++L
Sbjct: 10 PYQMEVAQPALEGKNIIICLPTGCGKTRVAVYIAKDHLDKKKKASEPGK---VIVLVNKV 66
Query: 251 ELSQQIY 257
L +Q++
Sbjct: 67 LLVEQLF 73
>pdb|1DTP|A Chain A, The Structure Of The Isolated Catalytic Domain Of
Diphtheria Toxin
Length = 190
Score = 28.5 bits (62), Expect = 5.3, Method: Compositional matrix adjust.
Identities = 30/99 (30%), Positives = 44/99 (44%), Gaps = 13/99 (13%)
Query: 215 SGKTGAFI---WPMLVHIMDQKELEPGDGPMGLILAPTRELSQQIYNEA--KRFGKGYNL 269
SGK G + +P L ++ K L L+ T L +Q+ E KRFG G +
Sbjct: 74 SGKAGGVVKVTYPGLTKVLALKVDNAETIKKELGLSLTEPLMEQVGTEEFIKRFGDGASR 133
Query: 270 SVVCC-YGGGS-------KWDQSKALELGAEIVVGTPGR 300
V+ + GS W+Q+KAL + EI T G+
Sbjct: 134 VVLSLPFAEGSSSVEYINNWEQAKALSVELEINFETRGK 172
>pdb|4A2W|A Chain A, Structure Of Full-Length Duck Rig-I
pdb|4A2W|B Chain B, Structure Of Full-Length Duck Rig-I
Length = 936
Score = 28.1 bits (61), Expect = 7.2, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 6/132 (4%)
Query: 194 QAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTRELS 253
Q + A++G++ + A TGSGKT I H + + G + LA +
Sbjct: 253 QIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQN---MPAGRKAKVVFLATKVPVY 309
Query: 254 QQIYNEAKRFGKGYNLSVVCCYGGG-SKWDQSKALELGAEIVVGTPGRIIDMVKMGA-TK 311
+Q N K + SV G S K +E ++I+V TP +++ + G T
Sbjct: 310 EQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIE-DSDIIVVTPQILVNSFEDGTLTS 368
Query: 312 LNRVTFLVLDEA 323
L+ T ++ DE
Sbjct: 369 LSIFTLMIFDEC 380
>pdb|4A2P|A Chain A, Structure Of Duck Rig-I Helicase Domain
pdb|4A36|A Chain A, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
pdb|4A36|B Chain B, Structure Of Duck Rig-I Helicase Domain Bound To 19-Mer
Dsrna And Atp Transition State Analogue
Length = 556
Score = 27.7 bits (60), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 6/132 (4%)
Query: 194 QAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTRELS 253
Q + A++G++ + A TGSGKT I H + + G + LA +
Sbjct: 12 QIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQN---MPAGRKAKVVFLATKVPVY 68
Query: 254 QQIYNEAKRFGKGYNLSVVCCYGGG-SKWDQSKALELGAEIVVGTPGRIIDMVKMGA-TK 311
+Q N K + SV G S K +E ++I+V TP +++ + G T
Sbjct: 69 EQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIE-DSDIIVVTPQILVNSFEDGTLTS 127
Query: 312 LNRVTFLVLDEA 323
L+ T ++ DE
Sbjct: 128 LSIFTLMIFDEC 139
>pdb|3BT7|A Chain A, Structure Of E. Coli 5-Methyluridine Methyltransferase
Trma In Complex With 19 Nucleotide T-Arm Analogue
pdb|3BT7|B Chain B, Structure Of E. Coli 5-Methyluridine Methyltransferase
Trma In Complex With 19 Nucleotide T-Arm Analogue
Length = 369
Score = 27.7 bits (60), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 16/57 (28%), Positives = 26/57 (45%), Gaps = 10/57 (17%)
Query: 79 ENPNAGLQDNDSDVDLEYDEDGNPIAPKKSKYIDPLPPIDHSTIVYEEVEKNFYQPH 135
+N N L + +E D+D YID P+ ++Y +VE +F QP+
Sbjct: 149 QNLNVHLIGRATKTKIELDQD----------YIDERLPVAGKEMIYRQVENSFTQPN 195
>pdb|4A2Q|A Chain A, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|B Chain B, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|D Chain D, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
pdb|4A2Q|E Chain E, Structure Of Duck Rig-I Tandem Cards And Helicase Domain
Length = 797
Score = 27.7 bits (60), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 34/132 (25%), Positives = 57/132 (43%), Gaps = 6/132 (4%)
Query: 194 QAQAVPAALSGRDIIGVAKTGSGKTGAFIWPMLVHIMDQKELEPGDGPMGLILAPTRELS 253
Q + A++G++ + A TGSGKT I H + + G + LA +
Sbjct: 253 QIELAQPAINGKNALICAPTGSGKTFVSILICEHHFQN---MPAGRKAKVVFLATKVPVY 309
Query: 254 QQIYNEAKRFGKGYNLSVVCCYGGG-SKWDQSKALELGAEIVVGTPGRIIDMVKMGA-TK 311
+Q N K + SV G S K +E ++I+V TP +++ + G T
Sbjct: 310 EQQKNVFKHHFERQGYSVQGISGENFSNVSVEKVIE-DSDIIVVTPQILVNSFEDGTLTS 368
Query: 312 LNRVTFLVLDEA 323
L+ T ++ DE
Sbjct: 369 LSIFTLMIFDEC 380
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.314 0.135 0.394
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,633,670
Number of Sequences: 62578
Number of extensions: 472671
Number of successful extensions: 940
Number of sequences better than 100.0: 66
Number of HSP's better than 100.0 without gapping: 46
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 796
Number of HSP's gapped (non-prelim): 66
length of query: 330
length of database: 14,973,337
effective HSP length: 99
effective length of query: 231
effective length of database: 8,778,115
effective search space: 2027744565
effective search space used: 2027744565
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.9 bits)
S2: 52 (24.6 bits)