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= 000139
(2062 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 4e-56, Method: Compositional matrix adjust.
Identities = 116/308 (37%), Positives = 176/308 (57%), Gaps = 20/308 (6%)
Query: 518 PFLLKFPLREYQHIGLDWLVTMYEKRLNGILADEMGLGKTIMTIAMLAHLACEKGIWGPH 577
PF+ LR++Q G++W+ ++ K NGILADEMGLGKT+ T+A ++ L + GPH
Sbjct: 230 PFIKGGELRDFQLTGINWMAFLWSKGDNGILADEMGLGKTVQTVAFISWLIFARRQNGPH 289
Query: 578 LIVVPTSVMLNWETEFLKWCPAFKILTYFGSAKERKFKRQGWLKPN---------SFHVC 628
+IVVP S M W F KW P + Y G+ K R R+ N F+V
Sbjct: 290 IIVVPLSTMPAWLDTFEKWAPDLNCICYMGNQKSRDTIREYEFYTNPRAKGKKTMKFNVL 349
Query: 629 ITTYRLIIQDSKVFKRKKWKYLILDEAHLIKNWKSQRWQTLLNFNSKRRILLTGTPLQND 688
+TTY I++D KW+++ +DEAH +KN +S +++L +F R+L+TGTPLQN+
Sbjct: 350 LTTYEYILKDRAELGSIKWQFMAVDEAHRLKNAESSLYESLNSFKVANRMLITGTPLQNN 409
Query: 689 LMELWSLMHFLMPHIFQSHQEFKDWFCNPISGMVEGQEKVNKEVVDRLHNVLRPFILRRL 748
+ EL +L++FLMP F QE E Q++ +E + LH ++PFILRRL
Sbjct: 410 IKELAALVNFLMPGRFTIDQEID----------FENQDEEQEEYIHDLHRRIQPFILRRL 459
Query: 749 KRDVEKQLPMKQEHVIYCRLSKRQRNLYEDFIASSETQATL-ASANFFGMISVIMQLRKV 807
K+DVEK LP K E ++ LS Q Y++ + + + T A F +++++ +L+K
Sbjct: 460 KKDVEKSLPSKTERILRVELSDVQTEYYKNILTKNYSALTAGAKGGHFSLLNIMNELKKA 519
Query: 808 CNHPDLFE 815
NHP LF+
Sbjct: 520 SNHPYLFD 527
Score = 158 bits (400), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 76/160 (47%), Positives = 109/160 (68%), Gaps = 1/160 (0%)
Query: 1059 RLIQFDCGKLQELAILLRKLKSDGHRALIFTQMTKMLDILEEFISLYGYTYMRLDGSTQP 1118
R + GK+ L LL +LK DGHR LIF+QM +MLDIL +++S+ G + RLDG+
Sbjct: 549 RGLIMSSGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLDGTVPS 608
Query: 1119 EERQTLMQRFNT-NPKIFLFILSTRSGGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHR 1177
+R+ + FN+ + F+F+LSTR+GG+GINL+ ADTV+ +DSDWNP D QA R HR
Sbjct: 609 AQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAMARAHR 668
Query: 1178 IGQTREVHIYRLISESTIEENILKKANQKRALDDLVIQSG 1217
IGQ V +YRL+S+ T+EE +L++A +K L+ +I G
Sbjct: 669 IGQKNHVMVYRLVSKDTVEEEVLERARKKMILEYAIISLG 708
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 168 bits (425), Expect = 3e-41, Method: Compositional matrix adjust.
Identities = 106/321 (33%), Positives = 174/321 (54%), Gaps = 27/321 (8%)
Query: 503 PTGITFSTTQVRTKFPFLLKFPLREYQHIGLDWLVTMYEKRLNGILADEMGLGKTIMTIA 562
P G ++ + P+ +K LR YQ G W+ M + LAD+MGLGKT+ TIA
Sbjct: 16 PRGSHMASKSFQLLEPYNIKANLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIA 75
Query: 563 MLAHLACEKGIWGPHLIVVPTSVMLNWETEFLKWCPAFKILTYFGSAKERKFKRQGWLKP 622
+ + E + P L++ P SV+ NWE E K+ P + F E + K +K
Sbjct: 76 VFSDAKKENEL-TPSLVICPLSVLKNWEEELSKFAPHLR----FAVFHEDRSK----IKL 126
Query: 623 NSFHVCITTYRLIIQDSKVFKRKKWKYLILDEAHLIKNWKSQRWQTLLNFNSKRRILLTG 682
+ + +TTY ++++D+++ K +WKY+++DEA IKN +++ ++ + SK RI LTG
Sbjct: 127 EDYDIILTTYAVLLRDTRL-KEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTG 185
Query: 683 TPLQNDLMELWSLMHFLMPHIFQSHQEFKDWFCNPISGMVEGQEKVNKEVVDRLHNVLRP 742
TP++N + +LWS+M FL P + S+ EFK F PI +K + + L ++ P
Sbjct: 186 TPIENKVDDLWSIMTFLNPGLLGSYSEFKSKFATPI-------KKGDNMAKEELKAIISP 238
Query: 743 FILRRLKRD--VEKQLPMKQEHVIYCRLSKRQRNLY----EDFIASSETQATLASANFFG 796
FILRR K D + LP K E +YC L+ Q +Y E+ + ++ + G
Sbjct: 239 FILRRTKYDKAIINDLPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRK---G 295
Query: 797 MI-SVIMQLRKVCNHPDLFEG 816
MI S +++L+++ +HP L +G
Sbjct: 296 MILSTLLKLKQIVDHPALLKG 316
Score = 102 bits (255), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 58/153 (37%), Positives = 86/153 (56%), Gaps = 1/153 (0%)
Query: 1066 GKLQELAILLRKLKSDGHRALIFTQMTKMLDILEEFISLYGYTYM-RLDGSTQPEERQTL 1124
GK+ ++ + +G + IFTQ M I+ I T + L G +ER +
Sbjct: 325 GKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDDI 384
Query: 1125 MQRFNTNPKIFLFILSTRSGGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQTREV 1184
+ +F NP + +LS ++GG GINL A+ VI +D WNPA++ QA DR +RIGQTR V
Sbjct: 385 ISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNV 444
Query: 1185 HIYRLISESTIEENILKKANQKRALDDLVIQSG 1217
+++LIS T+EE I + KR+L +I SG
Sbjct: 445 IVHKLISVGTLEEKIDQLLAFKRSLFKDIISSG 477
>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 = 158 bits (399), Expect = 3e-38, Method: Compositional matrix adjust.
Identities = 100/320 (31%), Positives = 168/320 (52%), Gaps = 25/320 (7%)
Query: 503 PTGITFSTTQVRTKFPFLLKFPLREYQHIGLDWLVTMYEKRLNGILADEMGLGKTIMTIA 562
P G ++ + P+ +K LR YQ G W + LAD+ GLGKT+ TIA
Sbjct: 16 PRGSHMASKSFQLLEPYNIKANLRPYQIKGFSWXRFXNKLGFGICLADDXGLGKTLQTIA 75
Query: 563 MLAHLACEKGIWGPHLIVVPTSVMLNWETEFLKWCPAFKILTYFGSAKERKFKRQGWLKP 622
+ + E + P L++ P SV+ NWE E K+ P + F E + K +K
Sbjct: 76 VFSDAKKENEL-TPSLVICPLSVLKNWEEELSKFAPHLR----FAVFHEDRSK----IKL 126
Query: 623 NSFHVCITTYRLIIQDSKVFKRKKWKYLILDEAHLIKNWKSQRWQTLLNFNSKRRILLTG 682
+ + +TTY ++++D+++ K +WKY+++DEA IKN +++ ++ + SK RI LTG
Sbjct: 127 EDYDIILTTYAVLLRDTRL-KEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTG 185
Query: 683 TPLQNDLMELWSLMHFLMPHIFQSHQEFKDWFCNPISGMVEGQEKVNKEVVDRLHNVLRP 742
TP++N + +LWS+ FL P + S+ EFK F PI +K + + L ++ P
Sbjct: 186 TPIENKVDDLWSIXTFLNPGLLGSYSEFKSKFATPI-------KKGDNXAKEELKAIISP 238
Query: 743 FILRRLKRD--VEKQLPMKQEHVIYCRLSKRQRNLY----EDFIASSETQATLASANFFG 796
FILRR K D + LP K E +YC L+ Q Y E+ + ++ +
Sbjct: 239 FILRRTKYDKAIINDLPDKIETNVYCNLTPEQAAXYKAEVENLFNNIDSVTGIKRKG--X 296
Query: 797 MISVIMQLRKVCNHPDLFEG 816
++S +++L+++ +HP L +G
Sbjct: 297 ILSTLLKLKQIVDHPALLKG 316
Score = 100 bits (248), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 55/138 (39%), Positives = 79/138 (57%), Gaps = 1/138 (0%)
Query: 1081 DGHRALIFTQMTKMLDILEEFISLYGYTYM-RLDGSTQPEERQTLMQRFNTNPKIFLFIL 1139
+G + IFTQ I+ I T + L G +ER ++ +F NP + +L
Sbjct: 340 EGDKIAIFTQFVDXGKIIRNIIEKELNTEVPFLYGELSKKERDDIISKFQNNPSVKFIVL 399
Query: 1140 STRSGGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQTREVHIYRLISESTIEENI 1199
S ++GG GINL A+ VI +D WNPA++ QA DR +RIGQTR V +++LIS T+EE I
Sbjct: 400 SVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKI 459
Query: 1200 LKKANQKRALDDLVIQSG 1217
+ KR+L +I SG
Sbjct: 460 DQLLAFKRSLFKDIISSG 477
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 127 bits (319), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 98/320 (30%), Positives = 161/320 (50%), Gaps = 26/320 (8%)
Query: 518 PFLLKFPLREYQHIGLDWL---VT--MYEKRLNGILADEMGLGKTIMTIAMLAHLACEKG 572
P L K LR +Q G+ +L VT E I+ADEMGLGKT+ I ++ L +
Sbjct: 50 PVLSKV-LRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSP 108
Query: 573 IWGPHL----IVVPTSVMLNWETEFLKWCPA-FKILTYFGSAKERK-------FKRQGWL 620
P + +V P+S++ NW E KW + + G +K+ +QG
Sbjct: 109 DCKPEIDKVIVVSPSSLVRNWYNEVGKWLGGRVQPVAIDGGSKDEIDSKLVNFISQQGMR 168
Query: 621 KPNSFHVCITTYRLIIQDSKVFKRKKWKYLILDEAHLIKNWKSQRWQTLLNFNSKRRILL 680
P + I +Y ++V + K +I DE H +KN +Q + L + N++RR+L+
Sbjct: 169 IPTP--ILIISYETFRLHAEVLHKGKVGLVICDEGHRLKNSDNQTYLALNSMNAQRRVLI 226
Query: 681 TGTPLQNDLMELWSLMHFLMPHIFQSHQEFKDWFCNPI-----SGMVEGQEKVNKEVVDR 735
+GTP+QNDL+E +SL+HF+ I + QEFK F PI + + ++ +
Sbjct: 227 SGTPIQNDLLEYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDADASDKDRAAGEQKLQE 286
Query: 736 LHNVLRPFILRRLKRDVEKQLPMKQEHVIYCRLSKRQRNLYEDFIASSETQATLASAN-F 794
L +++ ++RR + K LP+K E V+ C L+ Q+ LY+ F+ ++ +L +
Sbjct: 287 LISIVNRCLIRRTSDILSKYLPVKIEQVVCCNLTPLQKELYKLFLKQAKPVESLQTGKIS 346
Query: 795 FGMISVIMQLRKVCNHPDLF 814
+S I L+K+CNHP L
Sbjct: 347 VSSLSSITSLKKLCNHPALI 366
Score = 119 bits (298), Expect = 2e-26, Method: Compositional matrix adjust.
Identities = 67/174 (38%), Positives = 103/174 (59%), Gaps = 8/174 (4%)
Query: 1066 GKLQELAILL---RKLKSDGHRALIFTQMTKMLDILEEFISLYGYTYMRLDGSTQPEERQ 1122
GK+ L +L R SD + ++ + T+ LD+ E+ Y Y+RLDG+ ++R
Sbjct: 399 GKMLVLDYILAMTRTTTSD--KVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRA 456
Query: 1123 TLMQRFNTNPKI--FLFILSTRSGGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQ 1180
+++RFN NP F+F+LS+++GG G+NL+GA+ ++ +D DWNPA D+QA R R GQ
Sbjct: 457 KIVERFN-NPSSPEFIFMLSSKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQ 515
Query: 1181 TREVHIYRLISESTIEENILKKANQKRALDDLVIQSGGYNTEFFKKLDPMELFS 1234
+ +IYRL+S TIEE IL++ K+AL V+ F + ELFS
Sbjct: 516 KKTCYIYRLLSTGTIEEKILQRQAHKKALSSCVVDEEQDVERHFSLGELRELFS 569
>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 = 102 bits (254), Expect = 2e-21, Method: Compositional matrix adjust.
Identities = 58/154 (37%), Positives = 86/154 (55%), Gaps = 1/154 (0%)
Query: 1065 CGKLQELAILLRKLKSDGHRALIFTQMTKMLDILEEFISLYGYTYM-RLDGSTQPEERQT 1123
GK+ ++ + +G + IFTQ M I+ I T + L G +ER
Sbjct: 95 SGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEVPFLYGELSKKERDD 154
Query: 1124 LMQRFNTNPKIFLFILSTRSGGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQTRE 1183
++ +F NP + +LS ++GG GINL A+ VI +D WNPA++ QA DR +RIGQTR
Sbjct: 155 IISKFQNNPSVKFIVLSVKAGGFGINLTSANRVIHFDRWWNPAVEDQATDRVYRIGQTRN 214
Query: 1184 VHIYRLISESTIEENILKKANQKRALDDLVIQSG 1217
V +++LIS T+EE I + KR+L +I SG
Sbjct: 215 VIVHKLISVGTLEEKIDQLLAFKRSLFKDIISSG 248
>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 = 43.9 bits (102), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 51/207 (24%), Positives = 89/207 (42%), Gaps = 31/207 (14%)
Query: 547 ILADEMGLGKTIMTIAMLAHLACEKGIWGPHLIVVPTSVMLNWETEFLKWCPAFKILTYF 606
+LADE+GLGKTI +L H G LI+VP ++ W E L+ + F
Sbjct: 174 LLADEVGLGKTIEAGXIL-HQQLLSGAAERVLIIVPETLQHQWLVEXLR-----RFNLRF 227
Query: 607 GSAKERKFKRQGWLKPNSFHVCITTYRLIIQDSKVFKRKK----------WKYLILDEAH 656
+ ++ N F T +L+I +R K W L++DEAH
Sbjct: 228 ALFDDERYAEAQHDAYNPF----DTEQLVICSLDFARRSKQRLEHLCEAEWDLLVVDEAH 283
Query: 657 LI---KNWKSQRWQTL--LNFNSKRRILLTGTPLQNDLMELWSLMHFLMPHIFQSHQEF- 710
+ ++ S+ +Q + L + +LLT TP Q ++ + L P+ F +F
Sbjct: 284 HLVWSEDAPSREYQAIEQLAEHVPGVLLLTATPEQLGXESHFARLRLLDPNRFHDFAQFV 343
Query: 711 --KDWFC---NPISGMVEGQEKVNKEV 732
+ +C + ++ ++ G + N E+
Sbjct: 344 EEQKNYCPVADAVAXLLAGNKLSNDEL 370
Score = 31.2 bits (69), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 17/64 (26%), Positives = 31/64 (48%)
Query: 1138 ILSTRSGGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQTREVHIYRLISESTIEE 1197
+L + G G N A + +D +NP + +Q R RIGQ ++ I+ E T +
Sbjct: 560 LLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIGQAHDIQIHVPYLEKTAQS 619
Query: 1198 NILK 1201
+++
Sbjct: 620 VLVR 623
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 38.5 bits (88), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 32/131 (24%), Positives = 58/131 (44%), Gaps = 12/131 (9%)
Query: 1086 LIFTQMTKMLDILEEFISLYGYTYMRLDGSTQPEERQTLMQRFNTNPKIFLFILSTRSGG 1145
L+F + K D LE+F+ GY + G +R+ + +F + L ++T
Sbjct: 280 LVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFRSGKSPIL--VATAVAA 337
Query: 1146 VGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQTREVHIYRLISESTIEENILKKANQ 1205
G+++ VI +D + ++ HRIG+T V L + E NI N
Sbjct: 338 RGLDISNVKHVINFD------LPSDIEEYVHRIGRTGRVGNLGLATSFFNERNI----NI 387
Query: 1206 KRALDDLVIQS 1216
+ L DL++++
Sbjct: 388 TKDLLDLLVEA 398
>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 = 0.036, Method: Compositional matrix adjust.
Identities = 36/147 (24%), Positives = 65/147 (44%), Gaps = 14/147 (9%)
Query: 1072 AILLRKLKSDGHRAL--IFTQMTKMLDILEEFISLYGYTYMRLDGSTQPEERQTLMQRFN 1129
+ LL L + G +L +F + K D LE+F+ GY + G +R+ + +F
Sbjct: 34 SFLLDLLNATGKDSLTLVFVETKKGADSLEDFLYHEGYACTSIHGDRSQRDREEALHQFR 93
Query: 1130 TNPKIFLFILSTRSGGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQTREVHIYRL 1189
+ L ++T G+++ VI +D + ++ HRIG+T V L
Sbjct: 94 SGKSPIL--VATAVAARGLDISNVKHVINFD------LPSDIEEYVHRIGRTGRVGNLGL 145
Query: 1190 ISESTIEENILKKANQKRALDDLVIQS 1216
+ E NI N + L DL++++
Sbjct: 146 ATSFFNERNI----NITKDLLDLLVEA 168
>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 = 38.5 bits (88), Expect = 0.038, Method: Compositional matrix adjust.
Identities = 29/112 (25%), Positives = 50/112 (44%), Gaps = 8/112 (7%)
Query: 1070 ELAILLRKLKSDGHRALIFTQMTKMLDILEEFISLYGYTYMRLDGSTQPEERQTLMQRFN 1129
++ LL L+ LIF + +D + E++ L G + + G EER ++ F
Sbjct: 42 KMVYLLECLQKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFR 101
Query: 1130 TNPKIFLFILSTRSGGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQT 1181
K L ++T G++ VI YD M ++ ++ HRIG+T
Sbjct: 102 EGKKDVL--VATDVASKGLDFPAIQHVINYD------MPEEIENYVHRIGRT 145
>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 = 1.3, Method: Compositional matrix adjust.
Identities = 28/102 (27%), Positives = 44/102 (43%), Gaps = 10/102 (9%)
Query: 1084 RALIFTQMTKMLDILEEFISLYGYTYMRLDGSTQPEERQTLMQRFNTNPKIFLFILSTRS 1143
+A+IF K L +S G+ L G E+R +++RF + L ++T
Sbjct: 335 QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVL--VTTNV 392
Query: 1144 GGVGINLVGADTVIFY----DSDWNPAMDQQAQDRCHRIGQT 1181
GI++ VI + D D NP + HRIG+T
Sbjct: 393 CARGIDVEQVSVVINFDLPVDKDGNP----DNETYLHRIGRT 430
>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 = 1.8, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 2/98 (2%)
Query: 1084 RALIFTQMTKMLDILEEFISLYGYTYMRLDGSTQPEERQTLMQRFNTNPKIFLFILSTRS 1143
+A+IF K L +S G+ L G E+R +++RF + L ++T
Sbjct: 268 QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVL--VTTNV 325
Query: 1144 GGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQT 1181
GI++ VI +D + + + HRIG+T
Sbjct: 326 CARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRT 363
>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 = 1.8, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 2/98 (2%)
Query: 1084 RALIFTQMTKMLDILEEFISLYGYTYMRLDGSTQPEERQTLMQRFNTNPKIFLFILSTRS 1143
+A+IF K L +S G+ L G E+R +++RF + L ++T
Sbjct: 284 QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVL--VTTNV 341
Query: 1144 GGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQT 1181
GI++ VI +D + + + HRIG+T
Sbjct: 342 CARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRT 379
>pdb|3MV2|A Chain A, Crystal Structure Of A-Cop In Complex With E-Cop
pdb|3MV2|C Chain C, Crystal Structure Of A-Cop In Complex With E-Cop
pdb|3MV2|E Chain E, Crystal Structure Of A-Cop In Complex With E-Cop
Length = 325
Score = 32.7 bits (73), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 55/214 (25%), Positives = 89/214 (41%), Gaps = 42/214 (19%)
Query: 1636 KRVLMIKPEKLKK--GNVW--SRDCVPSPDVWLPQEDAILCAV--------VHEYGPNWS 1683
K+V ++K E LKK N++ R +PS LP + + A + Y P
Sbjct: 53 KQVGVVKLEPLKKYFTNIYEGCRTYIPSTPCELPAQLGYVRAYDDTVSEDQILPYVPGLD 112
Query: 1684 LVSDILYGMTASGYYRGRYRHPVHCCERFRELIQRYILSVPDNSINEKTSNVGSGKALLK 1743
+V++ + GY + P E FRE I R L + D++ +EK ++ K
Sbjct: 113 VVNEKM----NEGYKNFKLNKPDIAIECFREAIYRITLLMVDDAEDEKLAH--------K 160
Query: 1744 VTEDNVRTLLNVAAEQEDNELL---------LQKHFT-ALLSSVWRMKS-RMGCRQNFSS 1792
+ E +L ++ E E L L +FT A LS + R + ++ Q+F
Sbjct: 161 ILETAREYILGLSIELERRSLKEGNTVRMLELAAYFTKAKLSPIHRTNALQVAMSQHF-K 219
Query: 1793 SRNGL---YLGGSFFSSVTQTSCKSTREPARRVK 1823
+N L Y G F + S E AR++K
Sbjct: 220 HKNFLQASYFAGEFLKII---SSGPRAEQARKIK 250
>pdb|2K9N|A Chain A, Solution Nmr Structure Of The R2r3 Dna Binding Domain Of
Myb1 Protein From Protozoan Parasite Trichomonas
Vaginalis
pdb|2KDZ|A Chain A, Structure Of The R2r3 Dna Binding Domain Of Myb1 Protein
From Protozoan Parasite Trichomonas Vaginalis In Complex
With Mre-1MRE-2r Dna
Length = 107
Score = 32.7 bits (73), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/29 (44%), Positives = 17/29 (58%)
Query: 1661 DVWLPQEDAILCAVVHEYGPNWSLVSDIL 1689
D W P+ED +L EYGP W+ +S L
Sbjct: 54 DPWSPEEDMLLDQKYAEYGPKWNKISKFL 82
>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 = 32.7 bits (73), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 25/98 (25%), Positives = 43/98 (43%), Gaps = 2/98 (2%)
Query: 1084 RALIFTQMTKMLDILEEFISLYGYTYMRLDGSTQPEERQTLMQRFNTNPKIFLFILSTRS 1143
+A+IF K L +S G+ L G E+R +++RF + L ++T
Sbjct: 305 QAMIFCHTRKTASWLAAELSKEGHQVALLSGEMMVEQRAAVIERFREGKEKVL--VTTNV 362
Query: 1144 GGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQT 1181
GI++ VI +D + + + HRIG+T
Sbjct: 363 CARGIDVEQVSVVINFDLPVDKDGNPDNETYLHRIGRT 400
>pdb|3OSF|A Chain A, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-2f-13 Dna
pdb|3OSF|D Chain D, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-2f-13 Dna
pdb|3OSG|A Chain A, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-1-12 Dna
pdb|3OSG|D Chain D, The Structure Of Protozoan Parasite Trichomonas Vaginalis
Myb2 In Complex With Mre-1-12 Dna
Length = 126
Score = 32.3 bits (72), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 11/31 (35%), Positives = 18/31 (58%)
Query: 1663 WLPQEDAILCAVVHEYGPNWSLVSDILYGMT 1693
W +EDA+L + EYG W++++ G T
Sbjct: 65 WTAEEDALLVQKIQEYGRQWAIIAKFFPGRT 95
>pdb|2KG4|A Chain A, Three-Dimensional Structure Of Human Gadd45alpha In Solution
By Nmr
Length = 165
Score = 32.3 bits (72), Expect = 3.1, Method: Compositional matrix adjust.
Identities = 19/49 (38%), Positives = 29/49 (59%), Gaps = 2/49 (4%)
Query: 1727 SINEKTSNVGSGKA--LLKVTEDNVRTLLNVAAEQEDNELLLQKHFTAL 1773
+++++T VG +A LL V DNV L A E +D ++ LQ HFT +
Sbjct: 30 ALSQRTITVGVYEAAKLLNVDPDNVVLCLLAADEDDDRDVALQIHFTLI 78
>pdb|3FHO|A Chain A, Structure Of S. Pombe Dbp5
pdb|3FHO|B Chain B, Structure Of S. Pombe Dbp5
Length = 508
Score = 32.0 bits (71), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 23/98 (23%), Positives = 44/98 (44%), Gaps = 2/98 (2%)
Query: 1084 RALIFTQMTKMLDILEEFISLYGYTYMRLDGSTQPEERQTLMQRFNTNPKIFLFILSTRS 1143
+++IF + + + ++ G+T L G+ + +R +M F L ++T
Sbjct: 359 QSIIFCKKKDTAEEIARRMTADGHTVACLTGNLEGAQRDAIMDSFRVGTSKVL--VTTNV 416
Query: 1144 GGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQT 1181
GI++ + V+ YD + A Q HRIG+T
Sbjct: 417 IARGIDVSQVNLVVNYDMPLDQAGRPDPQTYLHRIGRT 454
>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 = 31.6 bits (70), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 27/123 (21%), Positives = 53/123 (43%), Gaps = 10/123 (8%)
Query: 1063 FDCGKLQELAILLRKLKSDGHRALIFTQMTKMLDILEEFISLYGYTYMRLDGSTQPEERQ 1122
++ K + + L+ L ++F + + D L F+S + + G +R+
Sbjct: 281 YEVNKYAKRSKLIEILSEQADGTIVFVETKRGADFLASFLSEKEFPTTSIHGDRLQSQRE 340
Query: 1123 TLMQRF-NTNPKIFLFILSTRSGGVGINLVGADTVIFYDSDWNPAMDQQAQDRCHRIGQT 1181
++ F N + K+ +++T G+++ VI YD M + D HRIG+T
Sbjct: 341 QALRDFKNGSMKV---LIATSVASRGLDIKNIKHVINYD------MPSKIDDYVHRIGRT 391
Query: 1182 REV 1184
V
Sbjct: 392 GRV 394
>pdb|3MV3|A Chain A, Crystal Structure Of A-Cop In Complex With E-Cop
pdb|3MV3|C Chain C, Crystal Structure Of A-Cop In Complex With E-Cop
pdb|3MV3|E Chain E, Crystal Structure Of A-Cop In Complex With E-Cop
Length = 325
Score = 31.6 bits (70), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 53/213 (24%), Positives = 82/213 (38%), Gaps = 40/213 (18%)
Query: 1636 KRVLMIKPEKLKK--GNVW--SRDCVPSPDVWLPQEDAILCAV--------VHEYGPNWS 1683
K+V ++K E LKK N++ R +PS LP + + A + Y P
Sbjct: 53 KQVGVVKLEPLKKYFTNIYEGCRTYIPSTPCELPAQLGYVRAYDDTVSEDQILPYVPGLD 112
Query: 1684 LVSDILYGMTASGYYRGRYRHPVHCCERFRELIQRYILSVPDNSINEKTSNVGSGKALLK 1743
+V++ GY + P E FRE I R L D++ +EK ++ K
Sbjct: 113 VVNE----KXNEGYKNFKLNKPDIAIECFREAIYRITLLXVDDAEDEKLAH--------K 160
Query: 1744 VTEDNVRTLLNVAAEQEDNELL---------LQKHFT-ALLSSVWRMKSRMGCRQNFSSS 1793
+ E +L ++ E E L L +FT A LS + R +
Sbjct: 161 ILETAREYILGLSIELERRSLKEGNTVRXLELAAYFTKAKLSPIHRTNALQVAXSQHFKH 220
Query: 1794 RNGL---YLGGSFFSSVTQTSCKSTREPARRVK 1823
+N L Y G F + S E AR++K
Sbjct: 221 KNFLQASYFAGEFLKII---SSGPRAEQARKIK 250
>pdb|3GHG|B Chain B, Crystal Structure Of Human Fibrinogen
pdb|3GHG|E Chain E, Crystal Structure Of Human Fibrinogen
pdb|3GHG|H Chain H, Crystal Structure Of Human Fibrinogen
pdb|3GHG|K Chain K, Crystal Structure Of Human Fibrinogen
Length = 461
Score = 30.8 bits (68), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 6/80 (7%)
Query: 1244 MQKEKAINNGNEVSLSNADVEAALKCVEDEADYMALKR----AEQEEAVDNQEFTEEAVG 1299
+Q+E+ I N V N +VEA + YM L + Q++ DN+ E
Sbjct: 87 LQQERPIRN--SVDELNNNVEAVSQTSSSSFQYMYLLKDLWQKRQKQVKDNENVVNEYSS 144
Query: 1300 RPEDDELVIEDTVRTDEPTD 1319
E +L I++TV ++ PT+
Sbjct: 145 ELEKHQLYIDETVNSNIPTN 164
>pdb|3H32|B Chain B, Crystal Structure Of D-Dimer From Human Fibrin Complexed
With Gly-His- Arg-Pro-Tyr-Amide
pdb|3H32|E Chain E, Crystal Structure Of D-Dimer From Human Fibrin Complexed
With Gly-His- Arg-Pro-Tyr-Amide
Length = 458
Score = 30.4 bits (67), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 23/80 (28%), Positives = 38/80 (47%), Gaps = 6/80 (7%)
Query: 1244 MQKEKAINNGNEVSLSNADVEAALKCVEDEADYMALKR----AEQEEAVDNQEFTEEAVG 1299
+Q+E+ I N V N +VEA + YM L + Q++ DN+ E
Sbjct: 87 LQQERPIRN--SVDELNNNVEAVSQTSSSSFQYMYLLKDLWQKRQKQVKDNENVVNEYSS 144
Query: 1300 RPEDDELVIEDTVRTDEPTD 1319
E +L I++TV ++ PT+
Sbjct: 145 ELEKHQLYIDETVNSNIPTN 164
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
0.317 0.132 0.387
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 52,795,539
Number of Sequences: 62578
Number of extensions: 2011301
Number of successful extensions: 4489
Number of sequences better than 100.0: 35
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 24
Number of HSP's that attempted gapping in prelim test: 4447
Number of HSP's gapped (non-prelim): 45
length of query: 2062
length of database: 14,973,337
effective HSP length: 114
effective length of query: 1948
effective length of database: 7,839,445
effective search space: 15271238860
effective search space used: 15271238860
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 59 (27.3 bits)