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= 001731
(1019 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 219 bits (557), Expect = 8e-57, Method: Compositional matrix adjust.
Identities = 161/557 (28%), Positives = 275/557 (49%), Gaps = 65/557 (11%)
Query: 300 IGNMLFPHQREGLRWLWSLHC-----QGKGGILGDDMGLGKTMQICGFLAGLFHSRL--- 351
+ +L PHQREG+++LW G I+ D+MGLGKT+Q + L
Sbjct: 52 LSKVLRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSPDCK 111
Query: 352 --IKRALVVAPKTLLSHWIKELTAVGLSAKIREYF---GTCVKTRQYELQYVLQDKGVLL 406
I + +VV+P +L+ +W E+ L +++ G+ + + ++ Q +
Sbjct: 112 PEIDKVIVVSPSSLVRNWYNEV-GKWLGGRVQPVAIDGGSKDEIDSKLVNFISQQGMRIP 170
Query: 407 TTYDIVRNNSKSLRGSSFISDEAGDDDAIWDYMILDEGHLIKNPSTQRAKSLLEIPSAHR 466
T I+ + L + G +I DEGH +KN Q +L + + R
Sbjct: 171 TPILIISYETFRLHAEVLHKGKVG-------LVICDEGHRLKNSDNQTYLALNSMNAQRR 223
Query: 467 IIISGTPIQNNLKELWALFNFCCPELLGDNKWFKEKYELPILRGNDKHALDREKRIGSAV 526
++ISGTPIQN+L E ++L +F +LG + FK+++E+PIL+G D A D+++ G
Sbjct: 224 VLISGTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDADASDKDRAAGEQK 283
Query: 527 AKELRERIQPYFLRRLKNEVFHEDDVTSSATLSKKNEMIVWLRLTSCQRQLYEAFLNSEI 586
+EL + +RR + + S L K E +V LT Q++LY+ FL
Sbjct: 284 LQELISIVNRCLIRRTSDIL--------SKYLPVKIEQVVCCNLTPLQKELYKLFLKQAK 335
Query: 587 VLSAFDGSPLAALTIL-----KKICDHPLLLTKRA--AEDVLDGMDSML--NPEDAALAE 637
+ + ++ ++ KK+C+HP L+ ++ E+ DG + N A+
Sbjct: 336 PVESLQTGKISVSSLSSITSLKKLCNHPALIYEKCLTGEEGFDGALDLFPQNYSTKAVEP 395
Query: 638 KLA--MHIADVAEKDDFQEQHDNISCKISFILSLLDKLIPEGHNVLIFSQTRKMLNLIQE 695
+L+ M + D +IL++ + V++ S + L+L ++
Sbjct: 396 QLSGKMLVLD-------------------YILAMTRTTTSD--KVVLVSNYTQTLDLFEK 434
Query: 696 SIGSKGYKFLRIDGTTKASDRVKIVNDFQEGDVAP--IFLLTSQVGGLGLTLTKADRVIV 753
++ Y ++R+DGT R KIV F +P IF+L+S+ GG GL L A+R+++
Sbjct: 435 LCRNRRYLYVRLDGTMSIKKRAKIVERFNNPS-SPEFIFMLSSKAGGCGLNLIGANRLVM 493
Query: 754 VDPAWNPSTDNQSVDRAYRIGQKKDVVVYRLMTCGTVEEKIYRKQIFKGGLFKTATEHKE 813
DP WNP+ D Q++ R +R GQKK +YRL++ GT+EEKI ++Q K L + ++
Sbjct: 494 FDPDWNPANDEQAMARVWRDGQKKTCYIYRLLSTGTIEEKILQRQAHKKALSSCVVDEEQ 553
Query: 814 QI-RYFSQQDLRELLSL 829
+ R+FS +LREL SL
Sbjct: 554 DVERHFSLGELRELFSL 570
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 218 bits (554), Expect = 2e-56, Method: Compositional matrix adjust.
Identities = 164/519 (31%), Positives = 242/519 (46%), Gaps = 73/519 (14%)
Query: 297 PGKIGNMLFPHQREGLRWLWSLHCQGKGGILGDDMGLGKTMQICGFLAGL-FHSRLIKRA 355
P G L Q G+ W+ L +G GIL D+MGLGKT+Q F++ L F R
Sbjct: 230 PFIKGGELRDFQLTGINWMAFLWSKGDNGILADEMGLGKTVQTVAFISWLIFARRQNGPH 289
Query: 356 LVVAPKTLLSHWIKELTAVGLSAKIREYFGTCVK---TRQYELQYVLQDKG-------VL 405
++V P + + W+ Y G R+YE + KG VL
Sbjct: 290 IIVVPLSTMPAWLDTFEKWAPDLNCICYMGNQKSRDTIREYEFYTNPRAKGKKTMKFNVL 349
Query: 406 LTTYDIVRNNSKSLRGSSFISDEAGDDDAIWDYMILDEGHLIKNPSTQRAKSLLEIPSAH 465
LTTY+ + + D A W +M +DE H +KN + +SL A+
Sbjct: 350 LTTYEYI------------LKDRAELGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVAN 397
Query: 466 RIIISGTPIQNNLKELWALFNFCCPELLGDNKWFKEKYELPILRGNDKHALDREKRIGSA 525
R++I+GTP+QNN+KEL AL NF P I + D D E+
Sbjct: 398 RMLITGTPLQNNIKELAALVNFLMPG------------RFTIDQEIDFENQDEEQ---EE 442
Query: 526 VAKELRERIQPYFLRRLKNEVFHEDDVTSSATLSKKNEMIVWLRLTSCQRQLYEAFL--N 583
+L RIQP+ LRRLK +V +L K E I+ + L+ Q + Y+ L N
Sbjct: 443 YIHDLHRRIQPFILRRLKKDV--------EKSLPSKTERILRVELSDVQTEYYKNILTKN 494
Query: 584 SEIVLSAFDGSPLAALTI---LKKICDHPLLLTKRAAEDVLDGM-DSMLNPEDAALAEKL 639
+ + G + L I LKK +HP L A E VL D + E+ +
Sbjct: 495 YSALTAGAKGGHFSLLNIMNELKKASNHPYLFDN-AEERVLQKFGDGKMTRENVLRGLIM 553
Query: 640 AMHIADVAEKDDFQEQHDNISCKISFILSLLDKLIPEGHNVLIFSQTRKMLNLIQESIGS 699
+ S K+ + LL +L +GH VLIFSQ +ML+++ + +
Sbjct: 554 S-------------------SGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSI 594
Query: 700 KGYKFLRIDGTTKASDRVKIVNDFQEGDVAP-IFLLTSQVGGLGLTLTKADRVIVVDPAW 758
KG F R+DGT ++ R ++ F D +FLL+++ GGLG+ L AD V++ D W
Sbjct: 595 KGINFQRLDGTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDW 654
Query: 759 NPSTDNQSVDRAYRIGQKKDVVVYRLMTCGTVEEKIYRK 797
NP D Q++ RA+RIGQK V+VYRL++ TVEE++ +
Sbjct: 655 NPQADLQAMARAHRIGQKNHVMVYRLVSKDTVEEEVLER 693
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 209 bits (532), Expect = 6e-54, Method: Compositional matrix adjust.
Identities = 164/564 (29%), Positives = 263/564 (46%), Gaps = 98/564 (17%)
Query: 290 PRSTYML--------PGKIGNMLFPHQREGLRWLWSLHCQGKGGILGDDMGLGKTMQICG 341
PR ++M P I L P+Q +G W+ ++ G G L DDMGLGKT+Q
Sbjct: 16 PRGSHMASKSFQLLEPYNIKANLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIA 75
Query: 342 FLAGLFHSRLIKRALVVAPKTLLSHWIKELTAVGLSAKIREYFGTCVKTRQYELQYVLQD 401
+ + +LV+ P ++L +W +EL+ + + K + L+D
Sbjct: 76 VFSDAKKENELTPSLVICPLSVLKNWEEELSKFAPHLRFAVFHEDRSKIK-------LED 128
Query: 402 KGVLLTTYDIVRNNSKSLRGSSFISDEAGDDDAIWDYMILDEGHLIKNPSTQRAKSLLEI 461
++LTTY ++ LR + E W Y+++DE IKNP T+ K++ E+
Sbjct: 129 YDIILTTYAVL------LRDTRLKEVE-------WKYIVIDEAQNIKNPQTKIFKAVKEL 175
Query: 462 PSAHRIIISGTPIQNNLKELWALFNFCCPELLGDNKWFKEKYELPILRGNDKHALDREKR 521
S +RI ++GTPI+N + +LW++ F P LLG FK K+ PI +G++
Sbjct: 176 KSKYRIALTGTPIENKVDDLWSIMTFLNPGLLGSYSEFKSKFATPIKKGDN--------- 226
Query: 522 IGSAVAKELRERIQPYFLRRLKNEVFHEDDVTSSATLSKKNEMIVWLRLTSCQRQLYEA- 580
+EL+ I P+ LRR K + +D L K E V+ LT Q +Y+A
Sbjct: 227 ---MAKEELKAIISPFILRRTKYDKAIIND------LPDKIETNVYCNLTPEQAAMYKAE 277
Query: 581 ----FLNSEIVLSA-FDGSPLAALTILKKICDHPLLLTKRAAEDVLDGMDSMLNPEDAAL 635
F N + V G L+ L LK+I DHP LL
Sbjct: 278 VENLFNNIDSVTGIKRKGMILSTLLKLKQIVDHPALLKG--------------------- 316
Query: 636 AEKLAMHIADVAEKDDFQEQHDNISCKISFILSLLDKLIPEGHNVLIFSQTRKM----LN 691
EQ S K+ + ++++ + EG + IF+Q M N
Sbjct: 317 -----------------GEQSVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRN 359
Query: 692 LIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQEGDVAPIFLLTSQVGGLGLTLTKADRV 751
+I++ + ++ FL G +R I++ FQ +L+ + GG G+ LT A+RV
Sbjct: 360 IIEKELNTE-VPFLY--GELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRV 416
Query: 752 IVVDPAWNPSTDNQSVDRAYRIGQKKDVVVYRLMTCGTVEEKIYRKQIFKGGLFK-TATE 810
I D WNP+ ++Q+ DR YRIGQ ++V+V++L++ GT+EEKI + FK LFK +
Sbjct: 417 IHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISS 476
Query: 811 HKEQIRYFSQQDLRELLSLPKQGF 834
I S ++LR+++ L G+
Sbjct: 477 GDSWITELSTEELRKVIELSVGGY 500
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
Length = 500
Score = 200 bits (508), Expect = 4e-51, Method: Compositional matrix adjust.
Identities = 162/564 (28%), Positives = 258/564 (45%), Gaps = 98/564 (17%)
Query: 290 PRSTYML--------PGKIGNMLFPHQREGLRWLWSLHCQGKGGILGDDMGLGKTMQICG 341
PR ++M P I L P+Q +G W + G G L DD GLGKT+Q
Sbjct: 16 PRGSHMASKSFQLLEPYNIKANLRPYQIKGFSWXRFXNKLGFGICLADDXGLGKTLQTIA 75
Query: 342 FLAGLFHSRLIKRALVVAPKTLLSHWIKELTAVGLSAKIREYFGTCVKTRQYELQYVLQD 401
+ + +LV+ P ++L +W +EL+ + + K + L+D
Sbjct: 76 VFSDAKKENELTPSLVICPLSVLKNWEEELSKFAPHLRFAVFHEDRSKIK-------LED 128
Query: 402 KGVLLTTYDIVRNNSKSLRGSSFISDEAGDDDAIWDYMILDEGHLIKNPSTQRAKSLLEI 461
++LTTY ++ LR + E W Y+++DE IKNP T+ K++ E+
Sbjct: 129 YDIILTTYAVL------LRDTRLKEVE-------WKYIVIDEAQNIKNPQTKIFKAVKEL 175
Query: 462 PSAHRIIISGTPIQNNLKELWALFNFCCPELLGDNKWFKEKYELPILRGNDKHALDREKR 521
S +RI ++GTPI+N + +LW++ F P LLG FK K+ PI +G++
Sbjct: 176 KSKYRIALTGTPIENKVDDLWSIXTFLNPGLLGSYSEFKSKFATPIKKGDN--------- 226
Query: 522 IGSAVAKELRERIQPYFLRRLKNEVFHEDDVTSSATLSKKNEMIVWLRLTSCQRQLYEA- 580
+EL+ I P+ LRR K + +D L K E V+ LT Q Y+A
Sbjct: 227 ---XAKEELKAIISPFILRRTKYDKAIIND------LPDKIETNVYCNLTPEQAAXYKAE 277
Query: 581 ----FLNSEIVLSA-FDGSPLAALTILKKICDHPLLLTKRAAEDVLDGMDSMLNPEDAAL 635
F N + V G L+ L LK+I DHP LL
Sbjct: 278 VENLFNNIDSVTGIKRKGXILSTLLKLKQIVDHPALLKG--------------------- 316
Query: 636 AEKLAMHIADVAEKDDFQEQHDNISCKISFILSLLDKLIPEGHNVLIFSQT----RKMLN 691
EQ S K ++++ + EG + IF+Q + + N
Sbjct: 317 -----------------GEQSVRRSGKXIRTXEIIEEALDEGDKIAIFTQFVDXGKIIRN 359
Query: 692 LIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQEGDVAPIFLLTSQVGGLGLTLTKADRV 751
+I++ + ++ FL G +R I++ FQ +L+ + GG G+ LT A+RV
Sbjct: 360 IIEKELNTE-VPFLY--GELSKKERDDIISKFQNNPSVKFIVLSVKAGGFGINLTSANRV 416
Query: 752 IVVDPAWNPSTDNQSVDRAYRIGQKKDVVVYRLMTCGTVEEKIYRKQIFKGGLFK-TATE 810
I D WNP+ ++Q+ DR YRIGQ ++V+V++L++ GT+EEKI + FK LFK +
Sbjct: 417 IHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISS 476
Query: 811 HKEQIRYFSQQDLRELLSLPKQGF 834
I S ++LR+++ L G+
Sbjct: 477 GDSWITELSTEELRKVIELSVGGY 500
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 101 bits (252), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 84/291 (28%), Positives = 135/291 (46%), Gaps = 52/291 (17%)
Query: 555 SATLSKKNEMIVWLRLTSCQRQLYEA-----FLNSEIVLSA-FDGSPLAALTILKKICDH 608
++ L K E V+ LT Q +Y+A F N + V G L+ L LK+I DH
Sbjct: 22 ASDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRKGMILSTLLKLKQIVDH 81
Query: 609 PLLLTKRAAEDVLDGMDSMLNPEDAALAEKLAMHIADVAEKDDFQEQHDNISCKISFILS 668
P LL EQ S K+ +
Sbjct: 82 PALLKG--------------------------------------GEQSVRRSGKMIRTME 103
Query: 669 LLDKLIPEGHNVLIFSQTRKM----LNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQ 724
++++ + EG + IF+Q M N+I++ + ++ FL G +R I++ FQ
Sbjct: 104 IIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTE-VPFLY--GELSKKERDDIISKFQ 160
Query: 725 EGDVAPIFLLTSQVGGLGLTLTKADRVIVVDPAWNPSTDNQSVDRAYRIGQKKDVVVYRL 784
+L+ + GG G+ LT A+RVI D WNP+ ++Q+ DR YRIGQ ++V+V++L
Sbjct: 161 NNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKL 220
Query: 785 MTCGTVEEKIYRKQIFKGGLFKTATEHKEQ-IRYFSQQDLRELLSLPKQGF 834
++ GT+EEKI + FK LFK + I S ++LR+++ L G+
Sbjct: 221 ISVGTLEEKIDQLLAFKRSLFKDIISSGDSWITELSTEELRKVIELSVGGY 271
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 40.8 bits (94), Expect = 0.004, Method: Compositional matrix adjust.
Identities = 41/189 (21%), Positives = 76/189 (40%), Gaps = 29/189 (15%)
Query: 326 ILGDDMGLGKTMQICGFLAGLFHSRLIKRALVVAPKTLLSHWIKELTAVGLSAKIREY-- 383
+L D++GLGKT++ L S +R L++ P+TL W+ E +R +
Sbjct: 174 LLADEVGLGKTIEAGXILHQQLLSGAAERVLIIVPETLQHQWLVE--------XLRRFNL 225
Query: 384 -FGTCVKTRQYELQY----VLQDKGVLLTTYDIVRNNSKSLRGSSFISDEAGDDDAIWDY 438
F R E Q+ + +++ + D R + + L +A WD
Sbjct: 226 RFALFDDERYAEAQHDAYNPFDTEQLVICSLDFARRSKQRLEHLC---------EAEWDL 276
Query: 439 MILDEGH--LIKNPSTQRAKSLLEIPSAH---RIIISGTPIQNNLKELWALFNFCCPELL 493
+++DE H + + R +E + H ++++ TP Q + +A P
Sbjct: 277 LVVDEAHHLVWSEDAPSREYQAIEQLAEHVPGVLLLTATPEQLGXESHFARLRLLDPNRF 336
Query: 494 GDNKWFKEK 502
D F E+
Sbjct: 337 HDFAQFVEE 345
Score = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 27/60 (45%)
Query: 723 FQEGDVAPIFLLTSQVGGLGLTLTKADRVIVVDPAWNPSTDNQSVDRAYRIGQKKDVVVY 782
F E D LL S++G G A + D +NP Q + R RIGQ D+ ++
Sbjct: 550 FAEEDTGAQVLLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIGQAHDIQIH 609
>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 = 0.021, Method: Compositional matrix adjust.
Identities = 34/116 (29%), Positives = 57/116 (49%), Gaps = 6/116 (5%)
Query: 660 SCKISFILSLLDKLIPEGHNVLIFSQTRKMLNLIQESIGSKGYKFLRIDGTTKASDRVKI 719
S K SF+L LL+ + L+F +T+K + +++ + +GY I G DR +
Sbjct: 30 SDKRSFLLDLLNATGKDSL-TLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEA 88
Query: 720 VNDFQEGDVAPIFLLTSQVGGLGLTLTKADRVIVVDPAWNPSTDNQSVDRAYRIGQ 775
++ F+ G +PI L+ + V GL ++ VI D PS + V R R G+
Sbjct: 89 LHQFRSGK-SPI-LVATAVAARGLDISNVKHVINFDL---PSDIEEYVHRIGRTGR 139
>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 = 37.7 bits (86), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 29/118 (24%), Positives = 53/118 (44%), Gaps = 4/118 (3%)
Query: 667 LSLL-DKLIPEG-HNVLIFSQTRKMLNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQ 724
SLL D L+ E + +IF +T++ +N + + + GY +I G DR ++N+F+
Sbjct: 23 FSLLKDVLMTENPDSCIIFCRTKEHVNQLTDELDDLGYPCDKIHGGMIQEDRFDVMNEFK 82
Query: 725 EGDVAPIFLLTSQVGGLGLTLTKADRVIVVDPAWNPSTDNQSVDRAYRIGQKKDVVVY 782
G+ +L+ + V G+ + VI D + R R G K + +
Sbjct: 83 RGEYR--YLVATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGRAGNKGKAISF 138
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 37.0 bits (84), Expect = 0.064, Method: Compositional matrix adjust.
Identities = 33/114 (28%), Positives = 56/114 (49%), Gaps = 6/114 (5%)
Query: 662 KISFILSLLDKLIPEGHNVLIFSQTRKMLNLIQESIGSKGYKFLRIDGTTKASDRVKIVN 721
K SF+L LL+ + L+F +T+K + +++ + +GY I G DR + ++
Sbjct: 262 KRSFLLDLLNATGKDSLT-LVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALH 320
Query: 722 DFQEGDVAPIFLLTSQVGGLGLTLTKADRVIVVDPAWNPSTDNQSVDRAYRIGQ 775
F+ G +PI + T+ V GL ++ VI D PS + V R R G+
Sbjct: 321 QFRSGK-SPILVATA-VAARGLDISNVKHVINFD---LPSDIEEYVHRIGRTGR 369
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 36.2 bits (82), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 59/117 (50%), Gaps = 9/117 (7%)
Query: 666 ILSLLDKLIPEGHNVLIFSQTRKMLNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQE 725
+L+ L L+ G ++ IF T+K N++ + S+G++ + G + +R ++++DF+E
Sbjct: 25 VLTELYGLMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFRE 83
Query: 726 GDVAPIFLLTSQVGGLGLTLTKADRVIVVD-PAW-----NPSTDNQSVDRAYRIGQK 776
G L+T+ V G+ + V+ D P +P+T + R R G+K
Sbjct: 84 G--RSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRK 138
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 30/117 (25%), Positives = 59/117 (50%), Gaps = 9/117 (7%)
Query: 666 ILSLLDKLIPEGHNVLIFSQTRKMLNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQE 725
+L+ L L+ G ++ IF T+K N++ + S+G++ + G + +R ++++DF+E
Sbjct: 233 VLTELYGLMTIGSSI-IFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFRE 291
Query: 726 GDVAPIFLLTSQVGGLGLTLTKADRVIVVD-PAW-----NPSTDNQSVDRAYRIGQK 776
G L+T+ V G+ + V+ D P +P+T + R R G+K
Sbjct: 292 GRSK--VLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRK 346
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 51/102 (50%), Gaps = 8/102 (7%)
Query: 681 LIFSQTRKMLNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQEGDVAPIFLLTSQVGG 740
+IF T+K N++ + S+G++ + G + +R ++++DF+EG L+T+ V
Sbjct: 41 IIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREG--RSKVLITTNVLA 98
Query: 741 LGLTLTKADRVIVVD-PAW-----NPSTDNQSVDRAYRIGQK 776
G+ + V+ D P +P+T + R R G+K
Sbjct: 99 RGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRK 140
>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 = 35.8 bits (81), Expect = 0.11, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 51/102 (50%), Gaps = 8/102 (7%)
Query: 681 LIFSQTRKMLNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQEGDVAPIFLLTSQVGG 740
+IF T+K N++ + S+G++ + G + +R ++++DF+EG L+T+ V
Sbjct: 40 IIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREG--RSKVLITTNVLA 97
Query: 741 LGLTLTKADRVIVVD-PAW-----NPSTDNQSVDRAYRIGQK 776
G+ + V+ D P +P+T + R R G+K
Sbjct: 98 RGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRK 139
>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 = 35.8 bits (81), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 26/102 (25%), Positives = 51/102 (50%), Gaps = 8/102 (7%)
Query: 681 LIFSQTRKMLNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQEGDVAPIFLLTSQVGG 740
+IF T+K N++ + S+G++ + G + +R ++++DF+EG L+T+ V
Sbjct: 247 IIFVATKKTANVLYGKLKSEGHEVSILHGDLQTQERDRLIDDFREGRSK--VLITTNVLA 304
Query: 741 LGLTLTKADRVIVVD-PAW-----NPSTDNQSVDRAYRIGQK 776
G+ + V+ D P +P+T + R R G+K
Sbjct: 305 RGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRK 346
>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 = 33.5 bits (75), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 47/104 (45%), Gaps = 12/104 (11%)
Query: 681 LIFSQTRKMLNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQEGDVAPIFLLTSQVGG 740
+IF TRK + + + +G++ + G R ++ F+EG L+T+ V
Sbjct: 337 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEK--VLVTTNVCA 394
Query: 741 LGLTLTKADRVI----VVDPAWNPSTDNQS----VDRAYRIGQK 776
G+ + + VI VD NP DN++ + R R G++
Sbjct: 395 RGIDVEQVSVVINFDLPVDKDGNP--DNETYLHRIGRTGRFGKR 436
>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 = 33.1 bits (74), Expect = 0.72, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 47/104 (45%), Gaps = 12/104 (11%)
Query: 681 LIFSQTRKMLNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQEGDVAPIFLLTSQVGG 740
+IF TRK + + + +G++ + G R ++ F+EG L+T+ V
Sbjct: 270 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEK--VLVTTNVCA 327
Query: 741 LGLTLTKADRVI----VVDPAWNPSTDNQS----VDRAYRIGQK 776
G+ + + VI VD NP DN++ + R R G++
Sbjct: 328 RGIDVEQVSVVINFDLPVDKDGNP--DNETYLHRIGRTGRFGKR 369
>pdb|3G0H|A Chain A, Human Dead-box Rna Helicase Ddx19, In Complex With An
Atp-analogue And Rna
Length = 424
Score = 33.1 bits (74), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 47/104 (45%), Gaps = 12/104 (11%)
Query: 681 LIFSQTRKMLNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQEGDVAPIFLLTSQVGG 740
+IF TRK + + + +G++ + G R ++ F+EG L+T+ V
Sbjct: 286 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEK--VLVTTNVCA 343
Query: 741 LGLTLTKADRVI----VVDPAWNPSTDNQS----VDRAYRIGQK 776
G+ + + VI VD NP DN++ + R R G++
Sbjct: 344 RGIDVEQVSVVINFDLPVDKDGNP--DNETYLHRIGRTGRFGKR 385
>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 = 33.1 bits (74), Expect = 0.77, Method: Compositional matrix adjust.
Identities = 26/104 (25%), Positives = 47/104 (45%), Gaps = 12/104 (11%)
Query: 681 LIFSQTRKMLNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQEGDVAPIFLLTSQVGG 740
+IF TRK + + + +G++ + G R ++ F+EG L+T+ V
Sbjct: 307 MIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEK--VLVTTNVCA 364
Query: 741 LGLTLTKADRVI----VVDPAWNPSTDNQS----VDRAYRIGQK 776
G+ + + VI VD NP DN++ + R R G++
Sbjct: 365 RGIDVEQVSVVINFDLPVDKDGNP--DNETYLHRIGRTGRFGKR 406
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 32.0 bits (71), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 32/146 (21%), Positives = 61/146 (41%), Gaps = 10/146 (6%)
Query: 630 PEDAALAEKLAMHIADVAEKDDFQEQHDNISCKISFILSLLDKLIPEGHNVLIFSQTRKM 689
P + L E+L + + + F E+ + C + +L KL + + +IF +
Sbjct: 219 PYEINLMEELTLK--GITQYYAFVEERQKLHC----LNTLFSKL--QINQAIIFCNSTNR 270
Query: 690 LNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQEGDVAPIFLLTSQVGGLGLTLTKAD 749
+ L+ + I GY K +R K+ ++F++G V L+ S + G+ + +
Sbjct: 271 VELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRT--LVCSDLLTRGIDIQAVN 328
Query: 750 RVIVVDPAWNPSTDNQSVDRAYRIGQ 775
VI D T + R+ R G
Sbjct: 329 VVINFDFPKTAETYLHRIGRSGRFGH 354
>pdb|2OQ0|A Chain A, Crystal Structure Of The First Hin-200 Domain Of
Interferon-Inducible Protein 16
pdb|2OQ0|B Chain B, Crystal Structure Of The First Hin-200 Domain Of
Interferon-Inducible Protein 16
pdb|2OQ0|C Chain C, Crystal Structure Of The First Hin-200 Domain Of
Interferon-Inducible Protein 16
pdb|2OQ0|D Chain D, Crystal Structure Of The First Hin-200 Domain Of
Interferon-Inducible Protein 16
Length = 206
Score = 32.0 bits (71), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 23/70 (32%), Positives = 38/70 (54%), Gaps = 8/70 (11%)
Query: 269 VLDDYSD-DSVLE--DEGSITLSGPRSTYMLPGKIGNMLFPHQREGLRWLWSLHCQGKGG 325
++ DY + DS+LE +E +++ +GP T+ +P KI N +E L+ + LH Q G
Sbjct: 73 IISDYLEYDSLLEVNEESTVSEAGPNQTFEVPNKIIN----RAKETLK-IDILHKQASGN 127
Query: 326 ILGDDMGLGK 335
I+ L K
Sbjct: 128 IVYGVFXLHK 137
>pdb|3LDV|A Chain A, 1.77 Angstrom Resolution Crystal Structure Of Orotidine
5'- Phosphate Decarboxylase From Vibrio Cholerae O1
Biovar Eltor Str. N16961
pdb|3LDV|B Chain B, 1.77 Angstrom Resolution Crystal Structure Of Orotidine
5'- Phosphate Decarboxylase From Vibrio Cholerae O1
Biovar Eltor Str. N16961
pdb|3UWQ|A Chain A, 1.80 Angstrom Resolution Crystal Structure Of Orotidine
5'-Phosphate Decarboxylase From Vibrio Cholerae O1
Biovar Eltor Str. N16961 In Complex With
Uridine-5'-Monophosphate (Ump)
pdb|3UWQ|B Chain B, 1.80 Angstrom Resolution Crystal Structure Of Orotidine
5'-Phosphate Decarboxylase From Vibrio Cholerae O1
Biovar Eltor Str. N16961 In Complex With
Uridine-5'-Monophosphate (Ump)
Length = 255
Score = 31.2 bits (69), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 30/122 (24%), Positives = 47/122 (38%), Gaps = 23/122 (18%)
Query: 526 VAKELRERIQPYFLRRLKNE--------VFHEDDVTSSATLSKKNEMIVWL--------- 568
V KE+ P F+R L FH+ T S + E+ VW+
Sbjct: 58 VGKEMFTLFGPDFVRELHKRGFSVFLDLKFHDIPNTCSKAVKAAAELGVWMVNVHASGGE 117
Query: 569 RLTSCQRQLYEAF------LNSEIVLSAFDGSPLAALTILKKICDHPLLLTKRAAEDVLD 622
R+ + R++ E + L VL++ + + L + IL DH L L LD
Sbjct: 118 RMMAASREILEPYGKERPLLIGVTVLTSMESADLQGIGILSAPQDHVLRLATLTKNAGLD 177
Query: 623 GM 624
G+
Sbjct: 178 GV 179
>pdb|2Z0M|A Chain A, Crystal Structure Of Hypothetical Atp-Dependent Rna
Helicase From Sulfolobus Tokodaii
Length = 337
Score = 30.0 bits (66), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 27/109 (24%), Positives = 51/109 (46%), Gaps = 14/109 (12%)
Query: 680 VLIFSQTR----KMLNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQEGDVAPIFLLT 735
V++F +TR K++ L +I + G S R + ++ F+EG+ L+T
Sbjct: 223 VIVFVRTRNRVAKLVRLFDNAI--------ELRGDLPQSVRNRNIDAFREGEYD--MLIT 272
Query: 736 SQVGGLGLTLTKADRVIVVDPAWNPSTDNQSVDRAYRIGQKKDVVVYRL 784
+ V GL + ++VI D + T + R R+G+K + + + L
Sbjct: 273 TDVASRGLDIPLVEKVINFDAPQDLRTYIHRIGRTGRMGRKGEAITFIL 321
>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 = 30.0 bits (66), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 22/96 (22%), Positives = 42/96 (43%), Gaps = 2/96 (2%)
Query: 681 LIFSQTRKMLNLIQESIGSKGYKFLRIDGTTKASDRVKIVNDFQEGDVAPIFLLTSQVGG 740
L+F +T++ + + G+K I G S R K++ F++ + L+ + V
Sbjct: 242 LVFCKTKRDTKELASXLRDIGFKAGAIHGDLSQSQREKVIRLFKQKKIR--ILIATDVXS 299
Query: 741 LGLTLTKADRVIVVDPAWNPSTDNQSVDRAYRIGQK 776
G+ + + VI NP + + R R G+K
Sbjct: 300 RGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKK 335
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
0.315 0.135 0.386
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 30,011,516
Number of Sequences: 62578
Number of extensions: 1276279
Number of successful extensions: 3121
Number of sequences better than 100.0: 33
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 3089
Number of HSP's gapped (non-prelim): 38
length of query: 1019
length of database: 14,973,337
effective HSP length: 108
effective length of query: 911
effective length of database: 8,214,913
effective search space: 7483785743
effective search space used: 7483785743
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.5 bits)
S2: 56 (26.2 bits)