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= psy3476
(1417 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3KX2|B Chain B, Crystal Structure Of Prp43p In Complex With Adp
pdb|3KX2|A Chain A, Crystal Structure Of Prp43p In Complex With Adp
Length = 767
Score = 247 bits (631), Expect = 3e-65, Method: Compositional matrix adjust.
Identities = 162/455 (35%), Positives = 240/455 (52%), Gaps = 26/455 (5%)
Query: 310 EVAADNFLSSYDVLVLDEIHERHLHGDFLLGVIKCLLHSTAEVKIILMSATINIELFHTY 369
E D+ LS Y ++LDE HER L D L+G++K ++ ++KII+MSAT++ E F Y
Sbjct: 199 EAMEDHDLSRYSCIILDEAHERTLATDILMGLLKQVVKRRPDLKIIIMSATLDAEKFQRY 258
Query: 370 FNRIAKIIKVPGRLYPIQLEYHPIVELDRTKSEKLDPGPYIRILSIIDKKYPRTERGDVL 429
FN A ++ VPGR YP++L Y P + D S IR + I + E GD+L
Sbjct: 259 FND-APLLAVPGRTYPVELYYTPEFQRDYLDSA-------IRTVLQI---HATEEAGDIL 307
Query: 430 IFMSGISEISSIVR-----AAQEYNEKSQGWI-VLPLHSTLSLEEQDRVFHYAPEGL--- 480
+F++G EI VR Q E+ G + V PL+ +L +Q R+F APE
Sbjct: 308 LFLTGEDEIEDAVRKISLEGDQLVREEGCGPLSVYPLYGSLPPHQQQRIFEPAPESHNGR 367
Query: 481 --RKCIVSTNIAETSITIDGIRFVVDSGKVKEMSYDVTAKMSTLQEFWISKASAEQRKGR 538
RK ++STNIAETS+TIDGI +VVD G K+ Y+ ++ +L ISKASA+QR GR
Sbjct: 368 PGRKVVISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGR 427
Query: 539 AGRTGPGVCYRLYSEEQYSL-LAEYSTPEIRRVSIDSLLLSLVCMGLGDVRKFPFLEAPP 597
AGRT PG C+RLY+EE + L E S PEI R ++ S +L L +G+ D+ F F++ P
Sbjct: 428 AGRTRPGKCFRLYTEEAFQKELIEQSYPEILRSNLSSTVLELKKLGIDDLVHFDFMDPPA 487
Query: 598 AENIESSVRSLTQHGAIDSKERVTSLGRFLSDLPVDIPLGKMLVFGSMFHQIDTVLSLAA 657
E + ++ L +D + +T LGR S P+D L ML+ F +L++ A
Sbjct: 488 PETMMRALEELNYLACLDDEGNLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVA 547
Query: 658 VLSVQSPFTNRAFRDPDCETARKELESNHGDPLTVLNAYKEWLGVKKDRVRSKKWCKRRG 717
+LSV + F + A+ GD +T+LN Y + + KWC+
Sbjct: 548 MLSVPNVFIRPTKDKKRADDAKNIFAHPDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHY 607
Query: 718 IEEQRFYEVTKLRSQFKQVLGDSGL---ITDIPGP 749
+ + +RSQ ++++ L TD P
Sbjct: 608 LNYRSLSAADNIRSQLERLMNRYNLELNTTDYESP 642
Score = 88.6 bits (218), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 45/121 (37%), Positives = 73/121 (60%), Gaps = 8/121 (6%)
Query: 24 KFSTLMKIRETQNSLPVAQYKQEIIDTVLKERVVIIAGDTGCGKSTQIPQYLV-----QA 78
K+ ++KIR LPV + E + ++++ G+TG GK+TQIPQ+++
Sbjct: 82 KYVDILKIR---RELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFVLFDEMPHL 138
Query: 79 GFQRIACTQPRRIACISLSKRVAYETLSQYSNLVGYQIRFEKHRREKTKIVFITEGLLLR 138
++ACTQPRR+A +S+++RVA E + VGY IRFE KT + ++T+G+LLR
Sbjct: 139 ENTQVACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKTILKYMTDGMLLR 198
Query: 139 Q 139
+
Sbjct: 199 E 199
Score = 71.6 bits (174), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 43/120 (35%), Positives = 65/120 (54%), Gaps = 2/120 (1%)
Query: 809 RTGPGVCYRLYSEEQYSL-LAEYSTPEIRRVSIDSLLLSLVCMGLGDVRKFPFLEAPPAE 867
RT PG C+RLY+EE + L E S PEI R ++ S +L L +G+ D+ F F++ P E
Sbjct: 430 RTRPGKCFRLYTEEAFQKELIEQSYPEILRSNLSSTVLELKKLGIDDLVHFDFMDPPAPE 489
Query: 868 NIESSVRSLTQHGAIDSKERVTTLGRFLSDLPVDIPLGKMLVFGSMFHQIDTMLLLDLAL 927
+ ++ L +D + +T LGR S P+D L ML+ GS Q +L +A+
Sbjct: 490 TMMRALEELNYLACLDDEGNLTPLGRLASQFPLDPMLAVMLI-GSFEFQCSQEILTIVAM 548
Score = 58.9 bits (141), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 32/84 (38%), Positives = 51/84 (60%), Gaps = 1/84 (1%)
Query: 1094 RLESMDANEVEFRLKHDPKQVQVA-ADNFLSSYDVLVLDEIHERHLHGDFLLGVIKCLLH 1152
R E+ +N+ + D ++ A D+ LS Y ++LDE HER L D L+G++K ++
Sbjct: 177 RFENKTSNKTILKYMTDGMLLREAMEDHDLSRYSCIILDEAHERTLATDILMGLLKQVVK 236
Query: 1153 STAEVKIILMSATINIELFHTYFN 1176
++KII+MSAT++ E F YFN
Sbjct: 237 RRPDLKIIIMSATLDAEKFQRYFN 260
Score = 33.5 bits (75), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 15/29 (51%), Positives = 20/29 (68%)
Query: 231 DNFLSSYDILILDEVHERHLYGDFLLGVI 259
D+ LS Y +ILDE HER L D L+G++
Sbjct: 203 DHDLSRYSCIILDEAHERTLATDILMGLL 231
>pdb|2XAU|A Chain A, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
pdb|2XAU|B Chain B, Crystal Structure Of The Prp43p Deah-Box Rna Helicase In
Complex With Adp
Length = 773
Score = 247 bits (631), Expect = 3e-65, Method: Compositional matrix adjust.
Identities = 162/455 (35%), Positives = 240/455 (52%), Gaps = 26/455 (5%)
Query: 310 EVAADNFLSSYDVLVLDEIHERHLHGDFLLGVIKCLLHSTAEVKIILMSATINIELFHTY 369
E D+ LS Y ++LDE HER L D L+G++K ++ ++KII+MSAT++ E F Y
Sbjct: 199 EAMEDHDLSRYSCIILDEAHERTLATDILMGLLKQVVKRRPDLKIIIMSATLDAEKFQRY 258
Query: 370 FNRIAKIIKVPGRLYPIQLEYHPIVELDRTKSEKLDPGPYIRILSIIDKKYPRTERGDVL 429
FN A ++ VPGR YP++L Y P + D S IR + I + E GD+L
Sbjct: 259 FND-APLLAVPGRTYPVELYYTPEFQRDYLDSA-------IRTVLQI---HATEEAGDIL 307
Query: 430 IFMSGISEISSIVR-----AAQEYNEKSQGWI-VLPLHSTLSLEEQDRVFHYAPEGL--- 480
+F++G EI VR Q E+ G + V PL+ +L +Q R+F APE
Sbjct: 308 LFLTGEDEIEDAVRKISLEGDQLVREEGCGPLSVYPLYGSLPPHQQQRIFEPAPESHNGR 367
Query: 481 --RKCIVSTNIAETSITIDGIRFVVDSGKVKEMSYDVTAKMSTLQEFWISKASAEQRKGR 538
RK ++STNIAETS+TIDGI +VVD G K+ Y+ ++ +L ISKASA+QR GR
Sbjct: 368 PGRKVVISTNIAETSLTIDGIVYVVDPGFSKQKVYNPRIRVESLLVSPISKASAQQRAGR 427
Query: 539 AGRTGPGVCYRLYSEEQYSL-LAEYSTPEIRRVSIDSLLLSLVCMGLGDVRKFPFLEAPP 597
AGRT PG C+RLY+EE + L E S PEI R ++ S +L L +G+ D+ F F++ P
Sbjct: 428 AGRTRPGKCFRLYTEEAFQKELIEQSYPEILRSNLSSTVLELKKLGIDDLVHFDFMDPPA 487
Query: 598 AENIESSVRSLTQHGAIDSKERVTSLGRFLSDLPVDIPLGKMLVFGSMFHQIDTVLSLAA 657
E + ++ L +D + +T LGR S P+D L ML+ F +L++ A
Sbjct: 488 PETMMRALEELNYLACLDDEGNLTPLGRLASQFPLDPMLAVMLIGSFEFQCSQEILTIVA 547
Query: 658 VLSVQSPFTNRAFRDPDCETARKELESNHGDPLTVLNAYKEWLGVKKDRVRSKKWCKRRG 717
+LSV + F + A+ GD +T+LN Y + + KWC+
Sbjct: 548 MLSVPNVFIRPTKDKKRADDAKNIFAHPDGDHITLLNVYHAFKSDEAYEYGIHKWCRDHY 607
Query: 718 IEEQRFYEVTKLRSQFKQVLGDSGL---ITDIPGP 749
+ + +RSQ ++++ L TD P
Sbjct: 608 LNYRSLSAADNIRSQLERLMNRYNLELNTTDYESP 642
Score = 88.6 bits (218), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 45/121 (37%), Positives = 73/121 (60%), Gaps = 8/121 (6%)
Query: 24 KFSTLMKIRETQNSLPVAQYKQEIIDTVLKERVVIIAGDTGCGKSTQIPQYLV-----QA 78
K+ ++KIR LPV + E + ++++ G+TG GK+TQIPQ+++
Sbjct: 82 KYVDILKIR---RELPVHAQRDEFLKLYQNNQIMVFVGETGSGKTTQIPQFVLFDEMPHL 138
Query: 79 GFQRIACTQPRRIACISLSKRVAYETLSQYSNLVGYQIRFEKHRREKTKIVFITEGLLLR 138
++ACTQPRR+A +S+++RVA E + VGY IRFE KT + ++T+G+LLR
Sbjct: 139 ENTQVACTQPRRVAAMSVAQRVAEEMDVKLGEEVGYSIRFENKTSNKTILKYMTDGMLLR 198
Query: 139 Q 139
+
Sbjct: 199 E 199
Score = 71.6 bits (174), Expect = 3e-12, Method: Compositional matrix adjust.
Identities = 43/120 (35%), Positives = 65/120 (54%), Gaps = 2/120 (1%)
Query: 809 RTGPGVCYRLYSEEQYSL-LAEYSTPEIRRVSIDSLLLSLVCMGLGDVRKFPFLEAPPAE 867
RT PG C+RLY+EE + L E S PEI R ++ S +L L +G+ D+ F F++ P E
Sbjct: 430 RTRPGKCFRLYTEEAFQKELIEQSYPEILRSNLSSTVLELKKLGIDDLVHFDFMDPPAPE 489
Query: 868 NIESSVRSLTQHGAIDSKERVTTLGRFLSDLPVDIPLGKMLVFGSMFHQIDTMLLLDLAL 927
+ ++ L +D + +T LGR S P+D L ML+ GS Q +L +A+
Sbjct: 490 TMMRALEELNYLACLDDEGNLTPLGRLASQFPLDPMLAVMLI-GSFEFQCSQEILTIVAM 548
Score = 58.9 bits (141), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 32/84 (38%), Positives = 51/84 (60%), Gaps = 1/84 (1%)
Query: 1094 RLESMDANEVEFRLKHDPKQVQVA-ADNFLSSYDVLVLDEIHERHLHGDFLLGVIKCLLH 1152
R E+ +N+ + D ++ A D+ LS Y ++LDE HER L D L+G++K ++
Sbjct: 177 RFENKTSNKTILKYMTDGMLLREAMEDHDLSRYSCIILDEAHERTLATDILMGLLKQVVK 236
Query: 1153 STAEVKIILMSATINIELFHTYFN 1176
++KII+MSAT++ E F YFN
Sbjct: 237 RRPDLKIIIMSATLDAEKFQRYFN 260
Score = 33.5 bits (75), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 15/29 (51%), Positives = 20/29 (68%)
Query: 231 DNFLSSYDILILDEVHERHLYGDFLLGVI 259
D+ LS Y +ILDE HER L D L+G++
Sbjct: 203 DHDLSRYSCIILDEAHERTLATDILMGLL 231
>pdb|3LLM|A Chain A, Crystal Structure Analysis Of A Rna Helicase
pdb|3LLM|B Chain B, Crystal Structure Analysis Of A Rna Helicase
Length = 235
Score = 89.4 bits (220), Expect = 1e-17, Method: Composition-based stats.
Identities = 49/127 (38%), Positives = 74/127 (58%), Gaps = 8/127 (6%)
Query: 21 QKEKFSTLMKIRETQNSLPVAQYKQEIIDTVLKERVVIIAGDTGCGKSTQIPQYLVQAGF 80
Q E+ L I + + LPV +++ EI++ + + VVII G TGCGK+TQ+PQ+++
Sbjct: 43 QLEQDHDLQAILQERELLPVKKFESEILEAISQNSVVIIRGATGCGKTTQVPQFILDDFI 102
Query: 81 Q-------RIACTQPRRIACISLSKRVAYETLSQYSNLVGYQIRFEK-HRREKTKIVFIT 132
Q I TQPRRI+ +S+++RVA+E + GY +RFE R I F T
Sbjct: 103 QNDRAAECNIVVTQPRRISAVSVAERVAFERGEEPGKSCGYSVRFESILPRPHASIXFCT 162
Query: 133 EGLLLRQ 139
G+LLR+
Sbjct: 163 VGVLLRK 169
Score = 49.3 bits (116), Expect = 2e-05, Method: Composition-based stats.
Identities = 22/48 (45%), Positives = 35/48 (72%)
Query: 323 LVLDEIHERHLHGDFLLGVIKCLLHSTAEVKIILMSATINIELFHTYF 370
+++DEIHER ++ DFLL V++ ++ + EV+I+L SATI+ F YF
Sbjct: 180 VIVDEIHERDINTDFLLVVLRDVVQAYPEVRIVLXSATIDTSXFCEYF 227
Score = 49.3 bits (116), Expect = 2e-05, Method: Composition-based stats.
Identities = 22/48 (45%), Positives = 35/48 (72%)
Query: 1128 LVLDEIHERHLHGDFLLGVIKCLLHSTAEVKIILMSATINIELFHTYF 1175
+++DEIHER ++ DFLL V++ ++ + EV+I+L SATI+ F YF
Sbjct: 180 VIVDEIHERDINTDFLLVVLRDVVQAYPEVRIVLXSATIDTSXFCEYF 227
Score = 31.2 bits (69), Expect = 4.5, Method: Composition-based stats.
Identities = 13/30 (43%), Positives = 23/30 (76%)
Query: 282 LVLDEIHERHLHGDFLLGVIKCLLHSTVEV 311
+++DEIHER ++ DFLL V++ ++ + EV
Sbjct: 180 VIVDEIHERDINTDFLLVVLRDVVQAYPEV 209
>pdb|3I4U|A Chain A, Crystal Structure Analysis Of A Helicase Associated Domain
Length = 270
Score = 59.3 bits (142), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 38/142 (26%), Positives = 68/142 (47%), Gaps = 7/142 (4%)
Query: 597 PAENIESSVRSLTQHGAIDSKERVTSLGRFLSDLPVDIPLGKMLVFGSMFHQIDTVLSLA 656
P E + +++ L GA+D + +T LGR +++ P++ L KML+ + +L++
Sbjct: 16 PMETLITAMEQLYTLGALDDEGLLTRLGRRMAEFPLEPMLCKMLIMSVHLGCSEEMLTIV 75
Query: 657 AVLSVQSPFTNRAFRDPDCETARKELESNHGDPLTVLNAYKEWLGVKKDRVRSKKWCKRR 716
++LSVQ+ F + + + + GD LT+L Y W K+ S WC
Sbjct: 76 SMLSVQNVFYRPKDKQALADQKKAKFHQTEGDHLTLLAVYNSW----KNNKFSNPWCYEN 131
Query: 717 GIEEQRFYEVTKLRSQFKQVLG 738
I+ + +R KQ+LG
Sbjct: 132 FIQARSLRRAQDIR---KQMLG 150
Score = 32.0 bits (71), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 15/45 (33%), Positives = 28/45 (62%)
Query: 865 PAENIESSVRSLTQHGAIDSKERVTTLGRFLSDLPVDIPLGKMLV 909
P E + +++ L GA+D + +T LGR +++ P++ L KML+
Sbjct: 16 PMETLITAMEQLYTLGALDDEGLLTRLGRRMAEFPLEPMLCKMLI 60
>pdb|3PEU|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
H337r And Ip6
pdb|3PEV|A Chain A, S. Cerevisiae Dbp5 L327v C-Terminal Domain Bound To Gle1
And Ip6
Length = 188
Score = 41.2 bits (95), Expect = 0.004, Method: Composition-based stats.
Identities = 39/128 (30%), Positives = 57/128 (44%), Gaps = 20/128 (15%)
Query: 424 ERGDVLIFMSGISEI-SSIVRAAQEYNE-------KSQGWIVLPLHSTLSLEEQDRVFHY 475
++ DVL + G+ I SSI+ A + KS+G V LH L +E+DR+
Sbjct: 22 DKFDVLTELYGVXTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDD 81
Query: 476 APEGLRKCIVSTNIAETSITIDGIRFVVDSGKVKEMSYDVTAKMSTLQEFWISKASAEQR 535
EG K +++TN+ I I + VV+ YD + TL A+ R
Sbjct: 82 FREGRSKVLITTNVLARGIDIPTVSXVVN--------YD----LPTLANGQADPATYIHR 129
Query: 536 KGRAGRTG 543
GR GR G
Sbjct: 130 IGRTGRFG 137
>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 = 41.2 bits (95), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 46/164 (28%), Positives = 73/164 (44%), Gaps = 26/164 (15%)
Query: 424 ERGDVLIFMSGISEI-SSIVRAAQEYNE-------KSQGWIVLPLHSTLSLEEQDRVFHY 475
++ DVL + G+ I SSI+ A + KS+G V LH L +E+DR+
Sbjct: 229 DKFDVLTELYGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDD 288
Query: 476 APEGLRKCIVSTNIAETSITIDGIRFVVDSGKVKEMSYDVTAKMSTLQEFWISKASAEQR 535
EG K +++TN+ I I + VV+ YD + TL A+ R
Sbjct: 289 FREGRSKVLITTNVLARGIDIPTVSMVVN--------YD----LPTLANGQADPATYIHR 336
Query: 536 KGRAGRTG-PGVCYR-LYSEEQYSLLAE----YSTPEIRRVSID 573
GR GR G GV ++ + +++L+ + E+ RV D
Sbjct: 337 IGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVPTD 380
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 40.8 bits (94), Expect = 0.006, Method: Composition-based stats.
Identities = 39/128 (30%), Positives = 57/128 (44%), Gaps = 20/128 (15%)
Query: 424 ERGDVLIFMSGISEI-SSIVRAAQEYNE-------KSQGWIVLPLHSTLSLEEQDRVFHY 475
++ DVL + G+ I SSI+ A + KS+G V LH L +E+DR+
Sbjct: 23 DKFDVLTELYGLXTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDD 82
Query: 476 APEGLRKCIVSTNIAETSITIDGIRFVVDSGKVKEMSYDVTAKMSTLQEFWISKASAEQR 535
EG K +++TN+ I I + VV+ YD + TL A+ R
Sbjct: 83 FREGRSKVLITTNVLARGIDIPTVSXVVN--------YD----LPTLANGQADPATYIHR 130
Query: 536 KGRAGRTG 543
GR GR G
Sbjct: 131 IGRTGRFG 138
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 40.4 bits (93), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 46/164 (28%), Positives = 73/164 (44%), Gaps = 26/164 (15%)
Query: 424 ERGDVLIFMSGISEI-SSIVRAAQEYNE-------KSQGWIVLPLHSTLSLEEQDRVFHY 475
++ DVL + G+ I SSI+ A + KS+G V LH L +E+DR+
Sbjct: 229 DKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDD 288
Query: 476 APEGLRKCIVSTNIAETSITIDGIRFVVDSGKVKEMSYDVTAKMSTLQEFWISKASAEQR 535
EG K +++TN+ I I + VV+ YD + TL A+ R
Sbjct: 289 FREGRSKVLITTNVLARGIDIPTVSMVVN--------YD----LPTLANGQADPATYIHR 336
Query: 536 KGRAGRTG-PGVCYR-LYSEEQYSLLAE----YSTPEIRRVSID 573
GR GR G GV ++ + +++L+ + E+ RV D
Sbjct: 337 IGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVPTD 380
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 39.7 bits (91), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 46/164 (28%), Positives = 73/164 (44%), Gaps = 26/164 (15%)
Query: 424 ERGDVLIFMSGISEI-SSIVRAAQEYNE-------KSQGWIVLPLHSTLSLEEQDRVFHY 475
++ DVL + G+ I SSI+ A + KS+G V LH L +E+DR+
Sbjct: 21 DKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDD 80
Query: 476 APEGLRKCIVSTNIAETSITIDGIRFVVDSGKVKEMSYDVTAKMSTLQEFWISKASAEQR 535
EG K +++TN+ I I + VV +YD + TL A+ R
Sbjct: 81 FREGRSKVLITTNVLARGIDIPTVSMVV--------NYD----LPTLANGQADPATYIHR 128
Query: 536 KGRAGRTG-PGVCYR-LYSEEQYSLLAE----YSTPEIRRVSID 573
GR GR G GV ++ + +++L+ + E+ RV D
Sbjct: 129 IGRTGRFGRKGVAISFVHDKNSFNILSAIQKYFGDIEMTRVPTD 172
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 33.9 bits (76), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 42/170 (24%), Positives = 62/170 (36%), Gaps = 53/170 (31%)
Query: 413 LSIIDKKYP-RTERGDVLIFMSGISEISSIVRAAQEYNEKSQGWIVLPL----------- 460
+++ID+ P R E +L+ M ++E+ VR QE Q +IV PL
Sbjct: 541 VTVIDEMPPGRKEVQTMLVPMDRVNEVYEFVR--QEVMRGGQAFIVYPLIEESDKLNVKS 598
Query: 461 ---------------------HSTLSLEEQDRVFHYAPEGLRKCIVSTNIAETSITIDGI 499
H LS EE+DRV EG +VST + E I +
Sbjct: 599 AVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRA 658
Query: 500 RFVVDSGKVKEMSYDVTAKMSTLQEFWISKASAEQRKGRAGRTG-PGVCY 548
+V + + F + A Q +GR GR G C+
Sbjct: 659 NVMV---------------IENPERFGL--AQLHQLRGRVGRGGQEAYCF 691
>pdb|4B3F|X Chain X, Crystal Structure Of 1ghmbp2 Helicase
Length = 646
Score = 33.1 bits (74), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 35/60 (58%), Gaps = 2/60 (3%)
Query: 44 KQEIIDTVLKERVVIIAGDTGCGKSTQIPQYLVQAGFQ--RIACTQPRRIACISLSKRVA 101
K+ ++ + ++ + II G G GK+T + + ++QA Q ++ C P IA +L +R+A
Sbjct: 195 KEAVLFALSQKELAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPSNIAVDNLVERLA 254
>pdb|4B3G|A Chain A, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
pdb|4B3G|B Chain B, Crystal Structure Of Ighmbp2 Helicase In Complex With Rna
Length = 646
Score = 33.1 bits (74), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 18/60 (30%), Positives = 35/60 (58%), Gaps = 2/60 (3%)
Query: 44 KQEIIDTVLKERVVIIAGDTGCGKSTQIPQYLVQAGFQ--RIACTQPRRIACISLSKRVA 101
K+ ++ + ++ + II G G GK+T + + ++QA Q ++ C P IA +L +R+A
Sbjct: 195 KEAVLFALSQKELAIIHGPPGTGKTTTVVEIILQAVKQGLKVLCCAPSNIAVDNLVERLA 254
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 32.3 bits (72), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 23/90 (25%), Positives = 40/90 (44%), Gaps = 18/90 (20%)
Query: 454 GWIVLPLHSTLSLEEQDRVFHYAPEGLRKCIVSTNIAETSITIDGIRFVVDSGKVKEMSY 513
G+ +H+ + E ++RVFH GL + +V T++ I I + V++ +
Sbjct: 68 GYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVIN--------F 119
Query: 514 DVTAKMSTLQEFWISKASAEQRKGRAGRTG 543
D L E ++ R GR+GR G
Sbjct: 120 D----FPKLAETYL------HRIGRSGRFG 139
>pdb|3VKW|A Chain A, Crystal Structure Of The Superfamily 1 Helicase From
Tomato Mosaic Virus
Length = 446
Score = 30.8 bits (68), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 24/88 (27%), Positives = 41/88 (46%), Gaps = 8/88 (9%)
Query: 55 RVVIIAGDTGCGKSTQIPQYLVQAGFQRIACTQPRRIACISLSKR-----VAYETLSQYS 109
+VV++ G GCGK+ +I L + F+ P R A + +R + T
Sbjct: 162 KVVLVDGVPGCGKTKEI---LSRVNFEEDLILVPGRQAAEMIRRRANASGIIVATKDNVR 218
Query: 110 NLVGYQIRFEKHRREKTKIVFITEGLLL 137
+ + + + K R + K +FI EGL+L
Sbjct: 219 TVDSFLMNYGKGARCQFKRLFIDEGLML 246
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
0.322 0.138 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 37,626,374
Number of Sequences: 62578
Number of extensions: 1461908
Number of successful extensions: 3279
Number of sequences better than 100.0: 17
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 6
Number of HSP's that attempted gapping in prelim test: 3228
Number of HSP's gapped (non-prelim): 44
length of query: 1417
length of database: 14,973,337
effective HSP length: 111
effective length of query: 1306
effective length of database: 8,027,179
effective search space: 10483495774
effective search space used: 10483495774
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 58 (26.9 bits)