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= 001155
(1136 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2V1X|A Chain A, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2V1X|B Chain B, Crystal Structure Of Human Recq-Like Dna Helicase
pdb|2WWY|A Chain A, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
pdb|2WWY|B Chain B, Structure Of Human Recq-Like Helicase In Complex With A
Dna Substrate
Length = 591
Score = 371 bits (953), Expect = e-102, Method: Compositional matrix adjust.
Identities = 202/534 (37%), Positives = 294/534 (55%), Gaps = 46/534 (8%)
Query: 365 SNDQKWSSWDFPWTKKLEANNKKVFGNHSFRPNQREIINATMSGHDVFVLMPTGGGKSLT 424
S+ W+ DFPW+ K++ + VF FRP Q E IN TM+G +VF++MPTGGGKSL
Sbjct: 16 SSPAAWNKEDFPWSGKVKDILQNVFKLEKFRPLQLETINVTMAGKEVFLVMPTGGGKSLC 75
Query: 425 YQLPALICPGITLVISPLVSLIQDQIMHLLQANIPATFLSGNMEWTEQQEILRELNSDYC 484
YQLPAL G TLVI PL+SL++DQ+M L Q I AT L+ + + + E+ +
Sbjct: 76 YQLPALCSDGFTLVICPLISLMEDQLMVLKQLGISATMLNASSSKEHVKWVHAEMVNKNS 135
Query: 485 KYKLLYVTPEKVAKSDVLLRQLESLNARELLARIVIDEAHCVSQWGHDFRPDYQGLGILK 544
+ KL+YVTPEK+AKS + + +LE RI +DE HC SQWGHDFRPDY+ LGILK
Sbjct: 136 ELKLIYVTPEKIAKSKMFMSRLEKAYEARRFTRIAVDEVHCCSQWGHDFRPDYKALGILK 195
Query: 545 QKFPNTPVXXXXXXXXXSVKEDVVQALGLVNCIIFRQSFNRPNLWMDC-----------E 593
++FPN + V D + L + C F SFNRPNL+ + E
Sbjct: 196 RQFPNASLIGLTATATNHVLTDAQKILCIEKCFTFTASFNRPNLYYEVRQKPSNTEDFIE 255
Query: 594 KVAERL------QVGLSYGHFFLLKEFYVVSLE-CGHKAAFYHGSIDPAQRAFVQKQWSK 646
+ + + Q G+ Y E VSL+ G A YH +++P + V ++WS
Sbjct: 256 DIVKLINGRYKGQSGIIYCFSQKDSEQVTVSLQNLGIHAGAYHANLEPEDKTTVHRKWSA 315
Query: 647 DEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYYSYSD 706
+EI ++ ATVAFGMGI+KPDVRFVIHHS+ KS+E Y+QE GRAGRD ++ C+LYY + D
Sbjct: 316 NEIQVVVATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYYGFGD 375
Query: 707 FIRVKHMISQGVAEQSPFTPGHNRFNVANSGRVLETNTENLLRMVSYCENDVDCRRLLQL 766
R+ M+ + N G+ + L MVSYC+N CRR+L
Sbjct: 376 IFRISSMVV-----------------MENVGQ------QKLYEMVSYCQNISKCRRVLMA 412
Query: 767 VHFGEKFDSAHCKKTCDNCSKIKSFIEKDVTDTAKKLVELVKLTGQQFSSSHILEVFRGS 826
HF E ++S C K CDNC K +F K++T+ + L++++K + L++
Sbjct: 413 QHFDEVWNSEACNKMCDNCCKDSAFERKNITEYCRDLIKILKQAEELNEKLTPLKLIDSW 472
Query: 827 LNQYVKKHRHETLSLHGAGKHLAKSEASRILRHLVIEDFLMEEVKKSDVYGSVS 880
+ + K R + L + + +I+ H +I+ +L E+ + Y ++S
Sbjct: 473 MGKGAAKLRVAGV----VAPTLPREDLEKIIAHFLIQQYLKEDYSFT-AYATIS 521
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 293 bits (751), Expect = 3e-79, Method: Compositional matrix adjust.
Identities = 173/499 (34%), Positives = 273/499 (54%), Gaps = 48/499 (9%)
Query: 381 LEANNKKV----FGNHSFRPNQREIINATMSGHDVFVLMPTGGGKSLTYQLPALICPGIT 436
LE+ K+V FG FRP Q EII+ +SG D V+MPTGGGKSL YQ+PAL+ G+T
Sbjct: 9 LESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVMPTGGGKSLCYQIPALLLNGLT 68
Query: 437 LVISPLVSLIQDQIMHLLQANIPATFLSGNMEWTEQQEILRELNSDYCKYKLLYVTPEKV 496
+V+SPL+SL++DQ+ L + A L+ +Q E++ + + +LLY+ PE++
Sbjct: 69 VVVSPLISLMKDQVDQLQANGVAAACLNSTQTREQQLEVMTGCRTG--QIRLLYIAPERL 126
Query: 497 AKSDVLLRQLESLNARELLARIVIDEAHCVSQWGHDFRPDYQGLGILKQKFPNTPVXXXX 556
D L L N + +DEAHC+SQWGHDFRP+Y LG L+Q+FP P
Sbjct: 127 M-LDNFLEHLAHWNP----VLLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPFMALT 181
Query: 557 XXXXXSVKEDVVQALGLVNCIIFRQSFNRPNL-WMDCEKVA-----------ERLQVGLS 604
+ ++D+V+ LGL + +I SF+RPN+ +M EK +R + G+
Sbjct: 182 ATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYMLMEKFKPLDQLMRYVQEQRGKSGII 241
Query: 605 YGHFFLLKEFYVVSLEC-GHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGIN 663
Y + E L+ G AA YH ++ RA VQ+++ +D++ I+ ATVAFGMGIN
Sbjct: 242 YCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGIN 301
Query: 664 KPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYYSYSDFIRVKHMISQGVAEQSP 723
KP+VRFV+H +P++IE Y+QE GRAGRDG + +L+Y +D ++ + E+ P
Sbjct: 302 KPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLRRCL-----EEKP 356
Query: 724 FTPGHNRFNVANSGRVLETNTENLLRMVSYCENDVDCRRLLQLVHFGEKFDSAHCKKTCD 783
G++ + L M ++ E CRRL+ L +FGE ++ C
Sbjct: 357 ------------QGQLQDIERHKLNAMGAFAEAQT-CRRLVLLNYFGEGR-----QEPCG 398
Query: 784 NCSK-IKSFIEKDVTDTAKKLVELVKLTGQQFSSSHILEVFRGSLNQYVKKHRHETLSLH 842
NC + + D + A+ + + Q+F +++EV RG+ NQ ++ + H+ L ++
Sbjct: 399 NCDICLDPPKQYDGSTDAQIALSTIGRVNQRFGMGYVVEVIRGANNQRIRDYGHDKLKVY 458
Query: 843 GAGKHLAKSEASRILRHLV 861
G G+ + ++R L+
Sbjct: 459 GMGRDKSHEHWVSVIRQLI 477
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 280 bits (716), Expect = 3e-75, Method: Compositional matrix adjust.
Identities = 171/499 (34%), Positives = 267/499 (53%), Gaps = 48/499 (9%)
Query: 381 LEANNKKV----FGNHSFRPNQREIINATMSGHDVFVLMPTGGGKSLTYQLPALICPGIT 436
LE+ K+V FG FRP Q EII+ +SG D V+ PTGGGKSL YQ+PAL+ G+T
Sbjct: 9 LESGAKQVLQETFGYQQFRPGQEEIIDTVLSGRDCLVVXPTGGGKSLCYQIPALLLNGLT 68
Query: 437 LVISPLVSLIQDQIMHLLQANIPATFLSGNMEWTEQQEILRELNSDYCKYKLLYVTPEKV 496
+V+SPL+SL +DQ+ L + A L N T +Q++ + +LLY+ PE++
Sbjct: 69 VVVSPLISLXKDQVDQLQANGVAAACL--NSTQTREQQLEVXTGCRTGQIRLLYIAPERL 126
Query: 497 AKSDVLLRQLESLNARELLARIVIDEAHCVSQWGHDFRPDYQGLGILKQKFPNTPVXXXX 556
D L L N + +DEAHC+SQWGHDFRP+Y LG L+Q+FP P
Sbjct: 127 -XLDNFLEHLAHWNP----VLLAVDEAHCISQWGHDFRPEYAALGQLRQRFPTLPFXALT 181
Query: 557 XXXXXSVKEDVVQALGLVNCIIFRQSFNRPNL-WMDCEKVA-----------ERLQVGLS 604
+ ++D+V+ LGL + +I SF+RPN+ + EK +R + G+
Sbjct: 182 ATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYXLXEKFKPLDQLXRYVQEQRGKSGII 241
Query: 605 YGHFFLLKEFYVVSLEC-GHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGIN 663
Y + E L+ G AA YH ++ RA VQ+++ +D++ I+ ATVAFG GIN
Sbjct: 242 YCNSRAKVEDTAARLQSKGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXGIN 301
Query: 664 KPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYYSYSDFIRVKHMISQGVAEQSP 723
KP+VRFV+H +P++IE Y+QE GRAGRDG + L+Y +D ++ + E+ P
Sbjct: 302 KPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFYDPADXAWLRRCL-----EEKP 356
Query: 724 FTPGHNRFNVANSGRVLETNTENLLRMVSYCENDVDCRRLLQLVHFGEKFDSAHCKKTCD 783
G++ + L ++ E CRRL+ L +FGE ++ C
Sbjct: 357 ------------QGQLQDIERHKLNAXGAFAEAQT-CRRLVLLNYFGEGR-----QEPCG 398
Query: 784 NCSK-IKSFIEKDVTDTAKKLVELVKLTGQQFSSSHILEVFRGSLNQYVKKHRHETLSLH 842
NC + + D + A+ + + Q+F +++EV RG+ NQ ++ + H+ L ++
Sbjct: 399 NCDICLDPPKQYDGSTDAQIALSTIGRVNQRFGXGYVVEVIRGANNQRIRDYGHDKLKVY 458
Query: 843 GAGKHLAKSEASRILRHLV 861
G G+ + ++R L+
Sbjct: 459 GXGRDKSHEHWVSVIRQLI 477
>pdb|2RHF|A Chain A, D. Radiodurans Recq Hrdc Domain 3
Length = 77
Score = 58.9 bits (141), Expect = 2e-08, Method: Composition-based stats.
Identities = 31/74 (41%), Positives = 46/74 (62%), Gaps = 2/74 (2%)
Query: 950 SAKLYSSLRMLRTLLVKEAGEGVMAYHIFGNATLQHLSKRVPRTEEELLEINGIGKAKVS 1009
+A L +LR LR L KE G A+ +F NATL+ L+ R PRT EL E+ G+G+ ++
Sbjct: 4 NADLSEALRELRRELXKETGYS--AFVVFTNATLEALAARQPRTLAELAEVPGLGEKRIE 61
Query: 1010 KYGVRLLETIESTI 1023
YG R+L+ I + +
Sbjct: 62 AYGERILDAINTVL 75
>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 = 52.4 bits (124), Expect = 2e-06, Method: Composition-based stats.
Identities = 28/102 (27%), Positives = 53/102 (51%)
Query: 612 KEFYVVSLECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVI 671
KE + G KA HG + +QR V + + + +I I+ AT GI+ D+ VI
Sbjct: 252 KELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIATDVXSRGIDVNDLNCVI 311
Query: 672 HHSLPKSIEGYHQECGRAGRDGQRSSCVLYYSYSDFIRVKHM 713
++ LP++ E Y GR GR G++ + + ++ +++++
Sbjct: 312 NYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKLRYI 353
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 49.3 bits (116), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 29/107 (27%), Positives = 51/107 (47%), Gaps = 9/107 (8%)
Query: 628 YHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECG 687
+HG I +R + K++ KDE I+ T G++ P+V V+ +P + Y G
Sbjct: 321 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 380
Query: 688 RAGRDGQRSSCVLYYSYSD--FIR----VKHMISQGVAEQSPFTPGH 728
R R G+ S VL+ + F+R K+++ +A+Q + P
Sbjct: 381 RTARSGKEGSSVLFICKDELPFVRELEDAKNIV---IAKQEKYEPSE 424
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 48.9 bits (115), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 32/121 (26%), Positives = 52/121 (42%), Gaps = 8/121 (6%)
Query: 628 YHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECG 687
+HG I +R + K++ KDE I+ T G++ P+V V+ +P + Y G
Sbjct: 321 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 380
Query: 688 RAGRDGQRSSCVLYYSYSDFIRVKHMISQG---VAEQSPFTPGHNRFNVANSGRVLETNT 744
R R G+ S VL+ + V+ + +A+Q + P VLE T
Sbjct: 381 RTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPSEE-----IKSEVLEAVT 435
Query: 745 E 745
E
Sbjct: 436 E 436
>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 = 48.9 bits (115), Expect = 1e-05, Method: Compositional matrix adjust.
Identities = 27/103 (26%), Positives = 47/103 (45%), Gaps = 3/103 (2%)
Query: 628 YHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECG 687
+HG I +R + K++ KDE I+ T G++ P+V V+ +P + Y G
Sbjct: 372 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 431
Query: 688 RAGRDGQRSSCVLYYSYSDFIRVKHMISQG---VAEQSPFTPG 727
R R G+ S VL+ + V+ + +A+Q + P
Sbjct: 432 RTARSGKEGSSVLFICKDELPFVRELEDAKNIVIAKQEKYEPS 474
>pdb|4DB4|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
pdb|4DB4|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To A Chimaeric
Rna-Dna Duplex
Length = 256
Score = 48.1 bits (113), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 34/124 (27%), Positives = 56/124 (45%), Gaps = 14/124 (11%)
Query: 628 YHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECG 687
+HG I +R + K++ KDE I+ T G++ P+V V+ +P + Y G
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 688 RAGRDGQRSSCVLYYSYSD--FIR----VKHMISQGVAEQSPFTPGHNRFNVANSGRVLE 741
R R G+ S VL+ + F+R K+++ +A+Q + P VLE
Sbjct: 126 RTARSGKEGSSVLFICKDELPFVRELEDAKNIV---IAKQEKYEPSEE-----IKSEVLE 177
Query: 742 TNTE 745
TE
Sbjct: 178 AVTE 181
>pdb|4DB2|C Chain C, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|D Chain D, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 48.1 bits (113), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 34/124 (27%), Positives = 56/124 (45%), Gaps = 14/124 (11%)
Query: 628 YHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECG 687
+HG I +R + K++ KDE I+ T G++ P+V V+ +P + Y G
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 688 RAGRDGQRSSCVLYYSYSD--FIR----VKHMISQGVAEQSPFTPGHNRFNVANSGRVLE 741
R R G+ S VL+ + F+R K+++ +A+Q + P VLE
Sbjct: 126 RTARSGKEGSSVLFICKDELPFVRELEDAKNIV---IAKQEKYEPSEE-----IKSEVLE 177
Query: 742 TNTE 745
TE
Sbjct: 178 AVTE 181
>pdb|4DB2|A Chain A, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
pdb|4DB2|B Chain B, Mss116p Dead-Box Helicase Domain 2 Bound To An Rna Duplex
Length = 257
Score = 48.1 bits (113), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 34/124 (27%), Positives = 56/124 (45%), Gaps = 14/124 (11%)
Query: 628 YHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECG 687
+HG I +R + K++ KDE I+ T G++ P+V V+ +P + Y G
Sbjct: 66 FHGKITQNKRTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIG 125
Query: 688 RAGRDGQRSSCVLYYSYSD--FIR----VKHMISQGVAEQSPFTPGHNRFNVANSGRVLE 741
R R G+ S VL+ + F+R K+++ +A+Q + P VLE
Sbjct: 126 RTARSGKEGSSVLFICKDELPFVRELEDAKNIV---IAKQEKYEPSEE-----IKSEVLE 177
Query: 742 TNTE 745
TE
Sbjct: 178 AVTE 181
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 47.0 bits (110), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 53/116 (45%), Gaps = 5/116 (4%)
Query: 620 ECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSI 679
E + HG + +R + K++ ++ +T + G++ P V +I++ LP +
Sbjct: 262 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 321
Query: 680 EGYHQECGRAGRDGQRSSCVLYYSYSDFIRVKHMISQGVAEQSPFTPGHNRFNVAN 735
E Y GR+GR G++ V + D IRV I Q + Q P NVA+
Sbjct: 322 ELYIHRIGRSGRYGRKGVAVNFVKNDD-IRVLRDIEQYYSTQIDEMP----MNVAD 372
>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 = 47.0 bits (110), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 53/116 (45%), Gaps = 5/116 (4%)
Query: 620 ECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSI 679
E + HG + +R + K++ ++ +T + G++ P V +I++ LP +
Sbjct: 299 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 358
Query: 680 EGYHQECGRAGRDGQRSSCVLYYSYSDFIRVKHMISQGVAEQSPFTPGHNRFNVAN 735
E Y GR+GR G R + + +D IR+ I Q + Q P NVA+
Sbjct: 359 ELYIHRIGRSGRYG-RKGVAINFVKNDDIRILRDIEQYYSTQIDEMP----MNVAD 409
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 46.6 bits (109), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 31/116 (26%), Positives = 53/116 (45%), Gaps = 5/116 (4%)
Query: 620 ECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSI 679
E + HG + +R + K++ ++ +T + G++ P V +I++ LP +
Sbjct: 262 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 321
Query: 680 EGYHQECGRAGRDGQRSSCVLYYSYSDFIRVKHMISQGVAEQSPFTPGHNRFNVAN 735
E Y GR+GR G++ V + D IRV I Q + Q P NVA+
Sbjct: 322 ELYIHRIGRSGRYGRKGVAVNFVKNDD-IRVLRDIEQYYSTQIDEMP----MNVAD 372
>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 = 46.6 bits (109), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 53/116 (45%), Gaps = 5/116 (4%)
Query: 620 ECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSI 679
E + HG + +R + K++ ++ +T + G++ P V +I++ LP +
Sbjct: 299 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 358
Query: 680 EGYHQECGRAGRDGQRSSCVLYYSYSDFIRVKHMISQGVAEQSPFTPGHNRFNVAN 735
E Y GR+GR G R + + +D IR+ I Q + Q P NVA+
Sbjct: 359 ELYIHRIGRSGRYG-RKGVAINFVKNDDIRILRDIEQYYSTQIDEMP----MNVAD 409
>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 = 46.6 bits (109), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 53/116 (45%), Gaps = 5/116 (4%)
Query: 620 ECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSI 679
E + HG + +R + K++ ++ +T + G++ P V +I++ LP +
Sbjct: 298 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 357
Query: 680 EGYHQECGRAGRDGQRSSCVLYYSYSDFIRVKHMISQGVAEQSPFTPGHNRFNVAN 735
E Y GR+GR G R + + +D IR+ I Q + Q P NVA+
Sbjct: 358 ELYIHRIGRSGRYG-RKGVAINFVKNDDIRILRDIEQYYSTQIDEMP----MNVAD 408
>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 = 46.6 bits (109), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 30/116 (25%), Positives = 53/116 (45%), Gaps = 5/116 (4%)
Query: 620 ECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSI 679
E + HG + +R + K++ ++ +T + G++ P V +I++ LP +
Sbjct: 277 EANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTDVWARGLDVPQVSLIINYDLPNNR 336
Query: 680 EGYHQECGRAGRDGQRSSCVLYYSYSDFIRVKHMISQGVAEQSPFTPGHNRFNVAN 735
E Y GR+GR G R + + +D IR+ I Q + Q P NVA+
Sbjct: 337 ELYIHRIGRSGRYG-RKGVAINFVKNDDIRILRDIEQYYSTQIDEMP----MNVAD 387
>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 = 46.2 bits (108), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 32/106 (30%), Positives = 47/106 (44%), Gaps = 11/106 (10%)
Query: 620 ECGHK-AAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIH------ 672
EC K AAF+H + QR V+ + + I ++ AT G+N P R ++
Sbjct: 293 ECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFD 352
Query: 673 -HSLPKSIEGYHQECGRAGRDG--QRSSCVLYYSYSDF-IRVKHMI 714
+S + Y Q GRAGR G +R ++ D I VK I
Sbjct: 353 GYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRDREIAVKRYI 398
Score = 34.7 bits (78), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 18/63 (28%), Positives = 31/63 (49%), Gaps = 3/63 (4%)
Query: 390 GNHSFRPNQREIINATMSGHDVFVLMPTGGGKSLTYQLPAL---ICPGITLVISPLVSLI 446
G P Q E + SG ++ + MPT GK+L ++ + I G +L + PL +L
Sbjct: 22 GIEELFPPQAEAVEKVFSGKNLLLAMPTAAGKTLLAEMAMVREAIKGGKSLYVVPLRALA 81
Query: 447 QDQ 449
++
Sbjct: 82 GEK 84
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 45.4 bits (106), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 52/189 (27%), Positives = 84/189 (44%), Gaps = 29/189 (15%)
Query: 626 AFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPK-------- 677
A +HG + P + ++ +SK I ++ AT F MG+N P R VI S+ K
Sbjct: 403 AVHHGGLLPIVKELIEILFSKGFIKVLFATETFAMGLNLP-TRTVIFSSIRKHDGNGLRE 461
Query: 678 -SIEGYHQECGRAGRDGQRSS---CVLYYSYSDFIRVKHMISQGVAE--QSPFTPGHNRF 731
+ + Q GRAGR G S+ V+ Y+ I ++ GV QS F +N
Sbjct: 462 LTPGEFTQMAGRAGRRGLDSTGTVIVMAYNSPLSIATFKEVTMGVPTRLQSQFRLTYNM- 520
Query: 732 NVANSGRVLETNTENLLRMVSYCENDVDCRRLLQLVH------FGEKFDSAHCKKTCDNC 785
+ N R+ E +++ S+ EN + LQ H E+ + K+C+ C
Sbjct: 521 -ILNLLRIEALRVEEMIKY-SFSEN---AKETLQPEHEKQIKVLQEELQTIEY-KSCEIC 574
Query: 786 -SKIKSFIE 793
+ I+ F+E
Sbjct: 575 DNDIEKFLE 583
>pdb|1WUD|A Chain A, E. Coli Recq Hrdc Domain
pdb|1WUD|B Chain B, E. Coli Recq Hrdc Domain
pdb|1WUD|D Chain D, E. Coli Recq Hrdc Domain
Length = 89
Score = 43.9 bits (102), Expect = 5e-04, Method: Composition-based stats.
Identities = 23/65 (35%), Positives = 37/65 (56%), Gaps = 2/65 (3%)
Query: 948 NLSAKLYSSLRMLRTLLVKEAGEGVMAYHIFGNATLQHLSKRVPRTEEELLEINGIGKAK 1007
N KL++ LR LR + E+ V Y +F +ATL +++ P T E L +NG+G K
Sbjct: 10 NYDRKLFAKLRKLRKSIADESN--VPPYVVFNDATLIEXAEQXPITASEXLSVNGVGXRK 67
Query: 1008 VSKYG 1012
+ ++G
Sbjct: 68 LERFG 72
>pdb|3I32|A Chain A, Dimeric Structure Of A Hera Helicase Fragment Including
The C-Terminal Reca Domain, The Dimerization Domain, And
The Rna Binding Domain
Length = 300
Score = 43.5 bits (101), Expect = 7e-04, Method: Composition-based stats.
Identities = 27/84 (32%), Positives = 40/84 (47%)
Query: 619 LECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKS 678
L GH A HG + +R V + + E+ ++ AT G++ P V V+H+ +P
Sbjct: 49 LRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRMPDR 108
Query: 679 IEGYHQECGRAGRDGQRSSCVLYY 702
E Y GR GR G+ VL Y
Sbjct: 109 AEAYQHRSGRTGRAGRGGRVVLLY 132
>pdb|3EAQ|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAQ|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase Hera
Form 2, Complete Dimer, Symmetric
pdb|3EAR|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAR|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Partial Dimer
pdb|3EAS|A Chain A, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
pdb|3EAS|B Chain B, Novel Dimerization Motif In The Dead Box Rna Helicase
Hera: Form 1, Complete Dimer, Asymmetric
Length = 212
Score = 43.5 bits (101), Expect = 7e-04, Method: Composition-based stats.
Identities = 20/66 (30%), Positives = 31/66 (46%)
Query: 619 LECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKS 678
L GH A HG + +R V + + E+ ++ AT G++ P V V+H+ LP
Sbjct: 52 LRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAARGLDIPQVDLVVHYRLPDR 111
Query: 679 IEGYHQ 684
E Y
Sbjct: 112 AEAYQH 117
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/133 (21%), Positives = 53/133 (39%), Gaps = 19/133 (14%)
Query: 588 LWMDCEKVAERLQVGLS-YGHFFLLKEFYVVSLEC------------GHKAAFYHGSIDP 634
L+MDC+ A++ V YG + V+ + GH+ + HG +
Sbjct: 220 LYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQT 279
Query: 635 AQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG------YHQECGR 688
+R + + + ++ T GI+ P V V+++ LP G Y GR
Sbjct: 280 QERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGR 339
Query: 689 AGRDGQRSSCVLY 701
GR G++ + +
Sbjct: 340 TGRFGRKGVAISF 352
>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 = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 29/133 (21%), Positives = 53/133 (39%), Gaps = 19/133 (14%)
Query: 588 LWMDCEKVAERLQVGLS-YGHFFLLKEFYVVSLEC------------GHKAAFYHGSIDP 634
L+MDC+ A++ V YG + V+ + GH+ + HG +
Sbjct: 220 LYMDCKNEADKFDVLTELYGVMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQT 279
Query: 635 AQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG------YHQECGR 688
+R + + + ++ T GI+ P V V+++ LP G Y GR
Sbjct: 280 QERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGR 339
Query: 689 AGRDGQRSSCVLY 701
GR G++ + +
Sbjct: 340 TGRFGRKGVAISF 352
>pdb|2YJT|D Chain D, Crystal Structure Of E. Coli Dead-Box Protein Srmb Bound
To Regulator Of Ribonuclease Activity A (Rraa)
Length = 170
Score = 42.7 bits (99), Expect = 0.001, Method: Composition-based stats.
Identities = 21/80 (26%), Positives = 39/80 (48%)
Query: 620 ECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSI 679
E G + G + +R K+ ++ +N++ AT GI+ PDV V + +P+S
Sbjct: 52 EAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAARGIDIPDVSHVFNFDMPRSG 111
Query: 680 EGYHQECGRAGRDGQRSSCV 699
+ Y GR R G++ + +
Sbjct: 112 DTYLHRIGRTARAGRKGTAI 131
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 42.4 bits (98), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 29/133 (21%), Positives = 53/133 (39%), Gaps = 19/133 (14%)
Query: 588 LWMDCEKVAERLQVGLS-YGHFFLLKEFYVVSLEC------------GHKAAFYHGSIDP 634
L+MDC+ A++ V YG + V+ + GH+ + HG +
Sbjct: 12 LYMDCKNEADKFDVLTELYGLMTIGSSIIFVATKKTANVLYGKLKSEGHEVSILHGDLQT 71
Query: 635 AQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG------YHQECGR 688
+R + + + ++ T GI+ P V V+++ LP G Y GR
Sbjct: 72 QERDRLIDDFREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGR 131
Query: 689 AGRDGQRSSCVLY 701
GR G++ + +
Sbjct: 132 TGRFGRKGVAISF 144
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 41.6 bits (96), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 37/80 (46%), Gaps = 11/80 (13%)
Query: 625 AAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIH--HSLPKSIEGY 682
A++H + A R +++ + + +I +I AT G+N P +I + K I GY
Sbjct: 315 VAYHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGY 374
Query: 683 HQEC---------GRAGRDG 693
+ E GRAGR G
Sbjct: 375 YDEIPIMEYKQMSGRAGRPG 394
>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 = 40.8 bits (94), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 70/349 (20%), Positives = 125/349 (35%), Gaps = 67/349 (19%)
Query: 396 PNQREIINATMSGHDVFVLMPTGGGKSLTYQLPAL-----------ICPGITLVISPL-- 442
P Q+ I SG D+ TG GK+ + LP L + +++SP
Sbjct: 81 PIQKCSIPVISSGRDLMACAQTGSGKTAAFLLPILSKLLEDPHELELGRPQVVIVSPTRE 140
Query: 443 --VSLIQDQIMHLLQANIPATFLSGNMEWTEQQEILRELNSDYCKYKLLYVTPEKVAKSD 500
+ + + ++ + + G + Q E + + C ++ TP ++ D
Sbjct: 141 LAIQIFNEARKFAFESYLKIGIVYGGTSFRHQNECI----TRGCH--VVIATPGRLL--D 192
Query: 501 VLLRQLESLNARELLARIVIDEAHCVSQWGHD-----------FRPDYQGLGILKQKFPN 549
+ R + +V+DEA + G RP++Q L + FP
Sbjct: 193 FVDRTFITFEDTRF---VVLDEADRMLDMGFSEDMRRIMTHVTMRPEHQTL-MFSATFPE 248
Query: 550 TPVXXXXXXXXXSVKEDVVQALGLVN--CIIFRQSFNRPNLWMDCEKVAERLQ------- 600
+K V A+G+V C +Q+ N + K+ E L
Sbjct: 249 ----EIQRMAGEFLKNYVFVAIGIVGGACSDVKQTIYEVNKYAKRSKLIEILSEQADGTI 304
Query: 601 --VGLSYGHFFLL-----KEFYVVSLECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIIC 653
V G FL KEF S+ HG +QR + + + ++
Sbjct: 305 VFVETKRGADFLASFLSEKEFPTTSI---------HGDRLQSQREQALRDFKNGSMKVLI 355
Query: 654 ATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGRAGRDGQRSSCVLYY 702
AT G++ +++ VI++ +P I+ Y GR GR G ++
Sbjct: 356 ATSVASRGLDIKNIKHVINYDMPSKIDDYVHRIGRTGRVGNNGRATSFF 404
>pdb|2HJV|A Chain A, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
pdb|2HJV|B Chain B, Structure Of The Second Domain (Residues 207-368) Of The
Bacillus Subtilis Yxin Protein
Length = 163
Score = 40.4 bits (93), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 20/75 (26%), Positives = 34/75 (45%)
Query: 629 HGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQECGR 688
HG + R V ++ + E + AT GI+ ++ VI++ LP E Y GR
Sbjct: 66 HGGMIQEDRFDVMNEFKRGEYRYLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGR 125
Query: 689 AGRDGQRSSCVLYYS 703
GR G + + + +
Sbjct: 126 TGRAGNKGKAISFVT 140
>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 = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 6/84 (7%)
Query: 622 GHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG 681
GH+ A G + QRA V +++ + + ++ T GI+ V VI+ LP +G
Sbjct: 327 GHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDG 386
Query: 682 ------YHQECGRAGRDGQRSSCV 699
Y GR GR G+R V
Sbjct: 387 NPDNETYLHRIGRTGRFGKRGLAV 410
>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 = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 6/84 (7%)
Query: 622 GHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG 681
GH+ A G + QRA V +++ + + ++ T GI+ V VI+ LP +G
Sbjct: 357 GHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDG 416
Query: 682 ------YHQECGRAGRDGQRSSCV 699
Y GR GR G+R V
Sbjct: 417 NPDNETYLHRIGRTGRFGKRGLAV 440
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 6/84 (7%)
Query: 622 GHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG 681
GH+ A G + QRA V +++ + + ++ T GI+ V VI+ LP +G
Sbjct: 306 GHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDG 365
Query: 682 ------YHQECGRAGRDGQRSSCV 699
Y GR GR G+R V
Sbjct: 366 NPDNETYLHRIGRTGRFGKRGLAV 389
>pdb|2ZJ2|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 1
pdb|2ZJ5|A Chain A, Archaeal Dna Helicase Hjm Complexed With Adp In Form 1
pdb|2ZJ8|A Chain A, Archaeal Dna Helicase Hjm Apo State In Form 2
pdb|2ZJA|A Chain A, Archaeal Dna Helicase Hjm Complexed With Amppcp In Form 2
Length = 720
Score = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 24/75 (32%), Positives = 32/75 (42%), Gaps = 8/75 (10%)
Query: 625 AAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGY-- 682
AF+H + +R V++ + K I + AT GIN P R +I S G
Sbjct: 297 VAFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMER 356
Query: 683 ------HQECGRAGR 691
HQ GRAGR
Sbjct: 357 IPIIEVHQMLGRAGR 371
>pdb|2P6N|A Chain A, Human Dead-box Rna Helicase Ddx41, Helicase Domain
pdb|2P6N|B Chain B, Human Dead-box Rna Helicase Ddx41, Helicase Domain
Length = 191
Score = 40.0 bits (92), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 20/72 (27%), Positives = 37/72 (51%)
Query: 622 GHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG 681
G +A HG D +R + + + + +++ AT G++ P ++ VI++ +P+ IE
Sbjct: 78 GVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASKGLDFPAIQHVINYDMPEEIEN 137
Query: 682 YHQECGRAGRDG 693
Y GR G G
Sbjct: 138 YVHRIGRTGCSG 149
>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 = 40.0 bits (92), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 25/84 (29%), Positives = 38/84 (45%), Gaps = 6/84 (7%)
Query: 622 GHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG 681
GH+ A G + QRA V +++ + + ++ T GI+ V VI+ LP +G
Sbjct: 290 GHQVALLSGEMMVEQRAAVIERFREGKEKVLVTTNVCARGIDVEQVSVVINFDLPVDKDG 349
Query: 682 ------YHQECGRAGRDGQRSSCV 699
Y GR GR G+R V
Sbjct: 350 NPDNETYLHRIGRTGRFGKRGLAV 373
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 38.5 bits (88), Expect = 0.019, Method: Compositional matrix adjust.
Identities = 69/336 (20%), Positives = 131/336 (38%), Gaps = 40/336 (11%)
Query: 396 PNQREIINATMSGHDVFVLMPTGGGKSLTYQLPAL--ICPGI----TLVISPL--VSLIQ 447
P Q E I ++G D+ G GK+ + +P L + P + L++ P ++L
Sbjct: 46 PIQEEAIPVAITGRDILARAKNGTGKTAAFVIPTLEKVKPKLNKIQALIMVPTRELALQT 105
Query: 448 DQIMHLLQANIPATFLSGNMEWTEQQEILRELNSDYCKYKLLYVTPEKVAKSDVLLRQLE 507
Q++ L + + + + +ILR LN +L TP +V D+ R++
Sbjct: 106 SQVVRTLGKHCGISCMVTTGGTNLRDDILR-LNE---TVHILVGTPGRVL--DLASRKVA 159
Query: 508 SLNARELLARIVIDEAHCVSQWGHDFR-----------PDYQGLGILKQKFPNTPVXXXX 556
L+ L ++DEA DF+ P +Q L + FP T
Sbjct: 160 DLSDCSLF---IMDEAD--KMLSRDFKTIIEQILSFLPPTHQSL-LFSATFPLTVKEFMV 213
Query: 557 XXXXXSVKEDVVQAL---GLVNCIIF---RQSFNRPNLWMDCEKVAERLQVGLSYGHFFL 610
+ ++++ L G+ F RQ + N ++ + + S L
Sbjct: 214 KHLHKPYEINLMEELTLKGITQYYAFVEERQKLHCLNTLFSKLQINQAIIFCNSTNRVEL 273
Query: 611 LKEFYVVSLECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFV 670
L + + G+ + H + +R V ++ + ++ + + GI+ V V
Sbjct: 274 LAKKIT---DLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLTRGIDIQAVNVV 330
Query: 671 IHHSLPKSIEGYHQECGRAGRDGQRSSCVLYYSYSD 706
I+ PK+ E Y GR+GR G + +++D
Sbjct: 331 INFDFPKTAETYLHRIGRSGRFGHLGLAINLINWND 366
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 38.5 bits (88), Expect = 0.022, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 36/78 (46%), Gaps = 1/78 (1%)
Query: 624 KAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVR-FVIHHSLPKSIEGY 682
K HG + ++ V ++++ +I+ +T +GI+ P VI + +
Sbjct: 615 KLGLMHGRLSQEEKDRVMLEFAEGRYDILVSTTVIEVGIDVPRANVMVIENPERFGLAQL 674
Query: 683 HQECGRAGRDGQRSSCVL 700
HQ GR GR GQ + C L
Sbjct: 675 HQLRGRVGRGGQEAYCFL 692
>pdb|2JGN|A Chain A, Ddx3 Helicase Domain
pdb|2JGN|B Chain B, Ddx3 Helicase Domain
pdb|2JGN|C Chain C, Ddx3 Helicase Domain
Length = 185
Score = 38.5 bits (88), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 31/72 (43%)
Query: 622 GHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG 681
G+ HG R Q+ + I+ AT G++ +V+ VI+ LP IE
Sbjct: 70 GYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEE 129
Query: 682 YHQECGRAGRDG 693
Y GR GR G
Sbjct: 130 YVHRIGRTGRVG 141
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 37.7 bits (86), Expect = 0.034, Method: Compositional matrix adjust.
Identities = 22/72 (30%), Positives = 31/72 (43%)
Query: 622 GHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG 681
G+ HG R Q+ + I+ AT G++ +V+ VI+ LP IE
Sbjct: 300 GYACTSIHGDRSQRDREEALHQFRSGKSPILVATAVAARGLDISNVKHVINFDLPSDIEE 359
Query: 682 YHQECGRAGRDG 693
Y GR GR G
Sbjct: 360 YVHRIGRTGRVG 371
>pdb|2RRD|A Chain A, Structure Of Hrdc Domain From Human Bloom Syndrome Protein,
Blm
Length = 101
Score = 37.4 bits (85), Expect = 0.052, Method: Composition-based stats.
Identities = 16/50 (32%), Positives = 31/50 (62%)
Query: 971 GVMAYHIFGNATLQHLSKRVPRTEEELLEINGIGKAKVSKYGVRLLETIE 1020
GV ++IF TL+ L++ + E LL+I+G+ + K+ KYG ++ ++
Sbjct: 40 GVHYFNIFNTVTLKKLAESLSSDPEVLLQIDGVTEDKLEKYGAEVISVLQ 89
>pdb|2KV2|A Chain A, Solution Structure Of The Human Blm Hrdc Domain
Length = 85
Score = 37.0 bits (84), Expect = 0.056, Method: Compositional matrix adjust.
Identities = 16/50 (32%), Positives = 31/50 (62%)
Query: 971 GVMAYHIFGNATLQHLSKRVPRTEEELLEINGIGKAKVSKYGVRLLETIE 1020
GV ++IF TL+ L++ + E LL+I+G+ + K+ KYG ++ ++
Sbjct: 25 GVHYFNIFNTVTLKKLAESLSSDPEVLLQIDGVTEDKLEKYGAEVISVLQ 74
>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 = 37.0 bits (84), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 39/104 (37%)
Query: 620 ECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSI 679
+ G+ + H + R V + + T F GI+ V VI+ PK
Sbjct: 66 QLGYSCFYIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLA 125
Query: 680 EGYHQECGRAGRDGQRSSCVLYYSYSDFIRVKHMISQGVAEQSP 723
E Y GR+GR G + +Y D +K + Q E P
Sbjct: 126 ETYLHRIGRSGRFGHLGLAINLITYDDRFNLKSIEEQLGTEIKP 169
>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 = 36.6 bits (83), Expect = 0.086, Method: Composition-based stats.
Identities = 20/86 (23%), Positives = 37/86 (43%), Gaps = 6/86 (6%)
Query: 622 GHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG 681
GH+ + HG + +R + + + ++ T GI+ P V V+++ LP G
Sbjct: 60 GHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANG 119
Query: 682 ------YHQECGRAGRDGQRSSCVLY 701
Y GR GR G++ + +
Sbjct: 120 QADPATYIHRIGRTGRFGRKGVAISF 145
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 36.6 bits (83), Expect = 0.086, Method: Composition-based stats.
Identities = 20/86 (23%), Positives = 37/86 (43%), Gaps = 6/86 (6%)
Query: 622 GHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG 681
GH+ + HG + +R + + + ++ T GI+ P V V+++ LP G
Sbjct: 61 GHEVSILHGDLQTQERDRLIDDFREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANG 120
Query: 682 ------YHQECGRAGRDGQRSSCVLY 701
Y GR GR G++ + +
Sbjct: 121 QADPATYIHRIGRTGRFGRKGVAISF 146
>pdb|3AAF|A Chain A, Structure Of Wrn Rqc Domain Bound To Double-Stranded Dna
pdb|3AAF|B Chain B, Structure Of Wrn Rqc Domain Bound To Double-Stranded Dna
Length = 134
Score = 36.6 bits (83), Expect = 0.086, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 53/111 (47%), Gaps = 6/111 (5%)
Query: 795 DVTDTAKKLVELVKLTGQQFSSSHILEVFRGSLNQYV--KKHRHETLSLHGAGKHLAKSE 852
D A KL+ V + G++F + RGS +Q + + RH SL G GK +S
Sbjct: 13 DFGPQAFKLLSAVDILGEKFGIGLPILFLRGSNSQRLADQYRRH---SLFGTGKDQTESW 69
Query: 853 ASRILRHLVIEDFLMEEVKKSDVYGSVSSVLKVNQSKAHNLIIGRQNVVLR 903
R L+ E FL+ EV + + + + ++ K ++ H Q+++L+
Sbjct: 70 WKAFSRQLITEGFLV-EVSRYNKFMKICALTKKGRNWLHKANTESQSLILQ 119
>pdb|2AXL|A Chain A, Solution Structure Of A Multifunctional Dna- And Protein-
Binding Domain Of Human Werner Syndrome Protein
Length = 144
Score = 36.2 bits (82), Expect = 0.095, Method: Compositional matrix adjust.
Identities = 30/111 (27%), Positives = 53/111 (47%), Gaps = 6/111 (5%)
Query: 795 DVTDTAKKLVELVKLTGQQFSSSHILEVFRGSLNQYV--KKHRHETLSLHGAGKHLAKSE 852
D A KL+ V + G++F + RGS +Q + + RH SL G GK +S
Sbjct: 10 DFGPQAFKLLSAVDILGEKFGIGLPILFLRGSNSQRLADQYRRH---SLFGTGKDQTESW 66
Query: 853 ASRILRHLVIEDFLMEEVKKSDVYGSVSSVLKVNQSKAHNLIIGRQNVVLR 903
R L+ E FL+ EV + + + + ++ K ++ H Q+++L+
Sbjct: 67 WKAFSRQLITEGFLV-EVSRYNKFMKICALTKKGRNWLHKANTESQSLILQ 116
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 35.8 bits (81), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 36/146 (24%), Positives = 65/146 (44%), Gaps = 16/146 (10%)
Query: 389 FGNHSFRPNQREIINATMSGHDVFVLMPTGGGKSLTYQLPALICPGITLVISPLVSLIQD 448
G +F Q + I + G +V V TG GK+ Y +P L +LV++P L +
Sbjct: 12 MGFKNFTEVQSKTIPLMLQGKNVVVRAKTGSGKTAAYAIPILELGMKSLVVTPTRELTRQ 71
Query: 449 QIMHLLQ----ANIPATFLSGNMEWTEQQEILRELNSDYCKYKLLYVTPEKVAKSDVLLR 504
H+ + + G M + Q I R N+D ++ TP ++ D+ +
Sbjct: 72 VASHIRDIGRYMDTKVAEVYGGMPYKAQ--INRVRNAD-----IVVATPGRLL--DLWSK 122
Query: 505 QLESLNARELLARIVIDEAHCVSQWG 530
+ L++ E+ ++IDEA + + G
Sbjct: 123 GVIDLSSFEI---VIIDEADLMFEMG 145
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 35.4 bits (80), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 20/85 (23%), Positives = 37/85 (43%)
Query: 619 LECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKS 678
+E A H + +R +Q+ + I+ AT FG G++ V ++ +P+
Sbjct: 52 VEQNFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPED 111
Query: 679 IEGYHQECGRAGRDGQRSSCVLYYS 703
+ Y RAGR G + + + S
Sbjct: 112 SDTYLHRVARAGRFGTKGLAITFVS 136
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 35.0 bits (79), Expect = 0.26, Method: Compositional matrix adjust.
Identities = 20/79 (25%), Positives = 33/79 (41%), Gaps = 6/79 (7%)
Query: 622 GHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEG 681
GH A G+++ AQR + + ++ T GI+ V V+++ +P G
Sbjct: 381 GHTVACLTGNLEGAQRDAIMDSFRVGTSKVLVTTNVIARGIDVSQVNLVVNYDMPLDQAG 440
Query: 682 ------YHQECGRAGRDGQ 694
Y GR GR G+
Sbjct: 441 RPDPQTYLHRIGRTGRFGR 459
>pdb|2RB4|A Chain A, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
pdb|2RB4|B Chain B, Crystal Structure Of The Helicase Domain Of Human Ddx25
Rna Helicase
Length = 175
Score = 34.7 bits (78), Expect = 0.34, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 39/91 (42%), Gaps = 6/91 (6%)
Query: 612 KEFYVVSLECGHKAAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVI 671
K V ++ GH+ + G + QRA + +++ + ++ T GI+ V V+
Sbjct: 48 KWLTVEMIQDGHQVSLLSGELTVEQRASIIQRFRDGKEKVLITTNVCARGIDVKQVTIVV 107
Query: 672 HHSLP------KSIEGYHQECGRAGRDGQRS 696
+ LP E Y GR GR G++
Sbjct: 108 NFDLPVKQGEEPDYETYLHRIGRTGRFGKKG 138
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 34.7 bits (78), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 35/79 (44%)
Query: 625 AAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQ 684
A H + +R +Q+ + I+ AT FG G++ V ++ +P+ + Y
Sbjct: 276 AIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLH 335
Query: 685 ECGRAGRDGQRSSCVLYYS 703
RAGR G + + + S
Sbjct: 336 RVARAGRFGTKGLAITFVS 354
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 34.7 bits (78), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 35/79 (44%)
Query: 625 AAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQ 684
A H + +R +Q+ + I+ AT FG G++ V ++ +P+ + Y
Sbjct: 277 AIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLH 336
Query: 685 ECGRAGRDGQRSSCVLYYS 703
RAGR G + + + S
Sbjct: 337 RVARAGRFGTKGLAITFVS 355
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 34.3 bits (77), Expect = 0.36, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 41/90 (45%), Gaps = 17/90 (18%)
Query: 622 GHKAAFYHGSIDPAQRAFVQKQWS--KDEINIICATVAFGMGINKPDVRFVIHHSL---- 675
G ++A +GS+ P + K+++ D I+ AT A GMG+N +R +I +SL
Sbjct: 344 GLESAVIYGSLPPGTKLAQAKKFNDPNDPCKILVATDAIGMGLNL-SIRRIIFYSLIKPS 402
Query: 676 ----------PKSIEGYHQECGRAGRDGQR 695
P + Q GRAGR R
Sbjct: 403 INEKGERELEPITTSQALQIAGRAGRFSSR 432
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 34.3 bits (77), Expect = 0.38, Method: Compositional matrix adjust.
Identities = 19/79 (24%), Positives = 35/79 (44%)
Query: 625 AAFYHGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGYHQ 684
A H + +R +Q+ + I+ AT FG G++ V ++ +P+ + Y
Sbjct: 277 AIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGRGMDIERVNIAFNYDMPEDSDTYLH 336
Query: 685 ECGRAGRDGQRSSCVLYYS 703
RAGR G + + + S
Sbjct: 337 RVARAGRFGTKGLAITFVS 355
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 26/54 (48%)
Query: 629 HGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGY 682
HG +D +R + +++ ++ T GI+ V VI++ LP + E Y
Sbjct: 311 HGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENY 364
>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 = 32.3 bits (72), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 14/54 (25%), Positives = 26/54 (48%)
Query: 629 HGSIDPAQRAFVQKQWSKDEINIICATVAFGMGINKPDVRFVIHHSLPKSIEGY 682
HG +D +R + +++ ++ T GI+ V VI++ LP + E Y
Sbjct: 285 HGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENY 338
>pdb|4A9W|A Chain A, Flavin-Containing Monooxygenase From Stenotrophomonas
Maltophilia
pdb|4A9W|B Chain B, Flavin-Containing Monooxygenase From Stenotrophomonas
Maltophilia
Length = 357
Score = 32.3 bits (72), Expect = 1.7, Method: Composition-based stats.
Identities = 22/74 (29%), Positives = 34/74 (45%), Gaps = 5/74 (6%)
Query: 469 WTEQQEILRELNSDYCKYKLLYVTPEKVAKSDVLLRQLESL--NARELLARIVIDEAHCV 526
+ + E+L L KY L + P +V + +L + + R+ LAR VI
Sbjct: 72 YPARAEVLAYLAQYEQKYALPVLRPIRVQRVSHFGERLRVVARDGRQWLARAVIS---AT 128
Query: 527 SQWGHDFRPDYQGL 540
WG + P+YQGL
Sbjct: 129 GTWGEAYTPEYQGL 142
>pdb|2PL3|A Chain A, Human Dead-Box Rna Helicase Ddx10, Dead Domain In Complex
With Adp
Length = 236
Score = 32.0 bits (71), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 43/90 (47%), Gaps = 9/90 (10%)
Query: 344 SYPVEREPFIPKIIKVNYIEGSNDQKWSSWDFPWTKKLEANNKKVFGNHSFR---PNQRE 400
S VERE I ++++ NY + + ++ DFP +KK K +R Q++
Sbjct: 1 SMQVERES-ISRLMQ-NYEKINVNEITRFSDFPLSKK----TLKGLQEAQYRLVTEIQKQ 54
Query: 401 IINATMSGHDVFVLMPTGGGKSLTYQLPAL 430
I + G DV TG GK+L + +P L
Sbjct: 55 TIGLALQGKDVLGAAKTGSGKTLAFLVPVL 84
>pdb|3DKP|A Chain A, Human Dead-Box Rna-Helicase Ddx52, Conserved Domain I In
Complex With Adp
Length = 245
Score = 31.6 bits (70), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 12/36 (33%), Positives = 20/36 (55%)
Query: 396 PNQREIINATMSGHDVFVLMPTGGGKSLTYQLPALI 431
P Q + I + G ++ PTG GK+L + +P L+
Sbjct: 54 PIQMQAIPVMLHGRELLASAPTGSGKTLAFSIPILM 89
>pdb|3B6E|A Chain A, Crystal Structure Of Human Dech-Box Rna Helicase Mda5
(Melanoma Differentiation-Associated Protein 5),
Dech-Domain
Length = 216
Score = 31.2 bits (69), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 10/29 (34%), Positives = 17/29 (58%)
Query: 394 FRPNQREIINATMSGHDVFVLMPTGGGKS 422
RP Q E+ + G ++ + +PTG GK+
Sbjct: 34 LRPYQMEVAQPALEGKNIIICLPTGSGKT 62
>pdb|2PK3|A Chain A, Crystal Structure Of A Gdp-4-Keto-6-Deoxy-D-Mannose
Reductase
pdb|2PK3|B Chain B, Crystal Structure Of A Gdp-4-Keto-6-Deoxy-D-Mannose
Reductase
Length = 321
Score = 31.2 bits (69), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 21/74 (28%), Positives = 37/74 (50%), Gaps = 16/74 (21%)
Query: 221 LCPETSSHIQDMKDMLIAISNELLDNATN---LSPAQTEKL------------RQERLQL 265
+C + IQD+ D+L+A++N +D N L P++ L + R+ L
Sbjct: 248 VCSGIGTRIQDVLDLLLAMANVKIDTELNPLQLRPSEVPTLIGSNKRLKDSTGWKPRIPL 307
Query: 266 SKQI-QLLEGYRQA 278
K + ++L+ YRQA
Sbjct: 308 EKSLFEILQSYRQA 321
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 31.2 bits (69), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 37/144 (25%), Positives = 60/144 (41%), Gaps = 23/144 (15%)
Query: 394 FRPNQREIINATMSGHD-VFVLMPTGGGKSLTYQLPAL-----ICPGITLVISPLVSLIQ 447
F P Q ++ N + D VFV PTG GK++ + L G + I+P+ +L +
Sbjct: 927 FNPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYITPMEALAE 986
Query: 448 DQIMHLLQA-----NIPATFLSGNMEWTEQQEILRELNSDYCKYKLLYVTPEKVAKSDVL 502
M + N L+G E L+ L K ++ TPE K D+L
Sbjct: 987 QVYMDWYEKFQDRLNKKVVLLTG-----ETSTDLKLLG----KGNIIISTPE---KWDIL 1034
Query: 503 LRQLESLNARELLARIVIDEAHCV 526
R+ + + + V+DE H +
Sbjct: 1035 SRRWKQRKNVQNINLFVVDEVHLI 1058
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 30.8 bits (68), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 37/144 (25%), Positives = 60/144 (41%), Gaps = 23/144 (15%)
Query: 394 FRPNQREIINATMSGHD-VFVLMPTGGGKSLTYQLPAL-----ICPGITLVISPLVSLIQ 447
F P Q ++ N + D VFV PTG GK++ + L G + I+P+ +L +
Sbjct: 927 FNPIQTQVFNTVYNSDDNVFVGAPTGSGKTICAEFAILRMLLQSSEGRCVYITPMEALAE 986
Query: 448 DQIMHLLQA-----NIPATFLSGNMEWTEQQEILRELNSDYCKYKLLYVTPEKVAKSDVL 502
M + N L+G E L+ L K ++ TPE K D+L
Sbjct: 987 QVYMDWYEKFQDRLNKKVVLLTG-----ETSTDLKLLG----KGNIIISTPE---KWDIL 1034
Query: 503 LRQLESLNARELLARIVIDEAHCV 526
R+ + + + V+DE H +
Sbjct: 1035 SRRWKQRKNVQNINLFVVDEVHLI 1058
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
0.316 0.132 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 32,509,463
Number of Sequences: 62578
Number of extensions: 1310293
Number of successful extensions: 2675
Number of sequences better than 100.0: 68
Number of HSP's better than 100.0 without gapping: 54
Number of HSP's successfully gapped in prelim test: 14
Number of HSP's that attempted gapping in prelim test: 2579
Number of HSP's gapped (non-prelim): 98
length of query: 1136
length of database: 14,973,337
effective HSP length: 109
effective length of query: 1027
effective length of database: 8,152,335
effective search space: 8372448045
effective search space used: 8372448045
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (26.6 bits)