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= 002426
(924 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 215 bits (547), Expect = 1e-55, Method: Compositional matrix adjust.
Identities = 148/479 (30%), Positives = 246/479 (51%), Gaps = 60/479 (12%)
Query: 23 DVDVIVLDEVHYLSDISRGTVWEEIIIYCPKEVQIICLSATVANADELAGWIGQIHGKT- 81
DV+ ++ DEVHY++D RG VWEE+II P+ V+ I LSATV N E A WIG+ K
Sbjct: 147 DVEFVIFDEVHYVNDQDRGVVWEEVIIMLPQHVKFILLSATVPNTYEFANWIGRTKQKNI 206
Query: 82 ELITSSRRPVPLTWYFSTKTALLPLLDEKGKHM--NRKLSLNYLQLSTSEVKPYK----- 134
+I++ +RPVPL K L+P++++ + + N + L +++ P K
Sbjct: 207 YVISTPKRPVPLEINIWAKKELIPVINQNSEFLEANFRKHKEILNGESAKGAPSKTDNGR 266
Query: 135 ---------------DG-GSRRRNSRKHADMNSNNIVTSFGQHQLSKNSINAIRRSQVPQ 178
DG G R ++R A+ + + G ++ + + + P+
Sbjct: 267 GGSTARGGRGGSNTRDGRGGRGNSTRGGANRGGSRGAGAIGSNKRKFFTQDGPSKKTWPE 326
Query: 179 VIDTLWHLRSRDMLPAIWFIFNRRGCDAAVQYLEDCNLLDECEMSEVELALKRFRILYPD 238
+++ +LR R++LP + F+F+++ C+ +LE N + E S++ + +++
Sbjct: 327 IVN---YLRKRELLPMVVFVFSKKRCEEYADWLEGINFCNNKEKSQIHMFIEKSITRLKK 383
Query: 239 AVRE-PAI---KGLL-KGVAAHHAGCLPIWKSFIEELFQRGLVKVVFATETLAAGINMPA 293
R+ P I + LL +G+A HH G LPI K IE LF +G +KV+FATET A G+N+P
Sbjct: 384 EDRDLPQILKTRSLLERGIAVHHGGLLPIVKELIEILFSKGFIKVLFATETFAMGLNLPT 443
Query: 294 RTAVLSSLSKRTASGRIQLTSNELFQMAGRAGRRGIDNRGHVVLVQTPYEGAEECCKLLF 353
RT + SS+ K +G +LT E QMAGRAGRRG+D+ G V+++ + K +
Sbjct: 444 RTVIFSSIRKHDGNGLRELTPGEFTQMAGRAGRRGLDSTGTVIVMAYNSPLSIATFKEVT 503
Query: 354 AGVEP-LVSQFTASYGMVLNLLAGAKVMHLSNESDDMKALQAGRSLEEARKLVEQSFGNY 412
GV L SQF +Y M+LNLL ++AL+ ++++ SF
Sbjct: 504 MGVPTRLQSQFRLTYNMILNLLR-------------IEALR-------VEEMIKYSFSEN 543
Query: 413 VGSNVMLAAKDELCKIQKETDVL---TSEISDDAIDRKSRRLLSEAAYKE-MANLQEEL 467
+ + ++ +Q+E + + EI D+ I++ +L AYKE NL +E+
Sbjct: 544 AKETLQPEHEKQIKVLQEELQTIEYKSCEICDNDIEKFLELML---AYKEATVNLMQEM 599
Score = 34.3 bits (77), Expect = 0.33, Method: Compositional matrix adjust.
Identities = 36/145 (24%), Positives = 61/145 (42%), Gaps = 29/145 (20%)
Query: 740 VIHETRALDINTQVIFPLGETAAAIRGENELWLAMVLRNKILLDLKPAQLAAVCASLVSE 799
V+ +T +D N V+ G A I EL L ++ + L +P ++ A+ + V E
Sbjct: 808 VLKDTEFIDQNHNVLLK-GRVACEINSGYELVLTELILDNFLGSFEPEEIVALLSVFVYE 866
Query: 800 G---------IKVRLWKNNSSIYEPSTTVINVINV----LDEHRSSFLELQEKHGVEIPC 846
G + RL K I E ++ V N L + + FL+ +
Sbjct: 867 GKTREEEPPIVTPRLAKGKQRIEEIYKKMLCVFNTHQIPLTQDEAEFLDRK--------- 917
Query: 847 CLDSQFSGM--VEAWASGLTWREMM 869
+F+ M V WA GL+++E+M
Sbjct: 918 ----RFAMMNVVYEWARGLSFKEIM 938
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 174 bits (440), Expect = 3e-43, Method: Compositional matrix adjust.
Identities = 111/356 (31%), Positives = 172/356 (48%), Gaps = 28/356 (7%)
Query: 27 IVLDEVHYLSDISRGTVWEEIIIYCPKEVQIICLSATVANADELAGWIGQIHGKT-ELIT 85
++ DEVHY+ D RG VWEE II P +V+ + LSAT+ NA E A WI +IH + ++
Sbjct: 294 VIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVY 353
Query: 86 SSRRPVPLTWYF--STKTALLPLLDEKGKHMNRKLSLNYLQLSTSEVKPYKDGGSRRRNS 143
++ RP PL Y + + ++DEK +S +
Sbjct: 354 TNFRPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASIS----------------N 397
Query: 144 RKHADMNSNNIVTSFGQHQLSKNSINAIRRSQVPQVIDTLWHLRSRDMLPAIWFIFNRRG 203
+ D NS + GQ S + + +++ +W + P I F F++R
Sbjct: 398 QIGDDPNSTDSRGKKGQ-TYKGGSAKGDAKGDIYKIVKMIWKKKYN---PVIVFSFSKRD 453
Query: 204 CDAAVQYLEDCNLLDECEMSEVELALKRFRILYPDAVRE-PAIKGLL----KGVAAHHAG 258
C+ + + + E + L P+ RE P IK +L +G+ HH+G
Sbjct: 454 CEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGIGIHHSG 513
Query: 259 CLPIWKSFIEELFQRGLVKVVFATETLAAGINMPARTAVLSSLSKRTASGRIQLTSNELF 318
LPI K IE LFQ G +KV+FATET + G+NMPA+T V +S+ K ++ E
Sbjct: 514 LLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYI 573
Query: 319 QMAGRAGRRGIDNRGHVVLVQTPYEGAEECCKLLFAGVEPLVSQFTASYGMVLNLL 374
QM+GRAGRRG+D+RG V+++ + ++ + L S F Y M+LNL+
Sbjct: 574 QMSGRAGRRGLDDRGIVIMMIDEKMEPQVAKGMVKGQADRLDSAFHLGYNMILNLM 629
>pdb|2XGJ|A Chain A, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
pdb|2XGJ|B Chain B, Structure Of Mtr4, A Dexh Helicase Involved In Nuclear Rna
Processing And Surveillance
Length = 1010
Score = 173 bits (439), Expect = 4e-43, Method: Compositional matrix adjust.
Identities = 111/356 (31%), Positives = 172/356 (48%), Gaps = 28/356 (7%)
Query: 27 IVLDEVHYLSDISRGTVWEEIIIYCPKEVQIICLSATVANADELAGWIGQIHGKT-ELIT 85
++ DEVHY+ D RG VWEE II P +V+ + LSAT+ NA E A WI +IH + ++
Sbjct: 196 VIFDEVHYMRDKERGVVWEETIILLPDKVRYVFLSATIPNAMEFAEWICKIHSQPCHIVY 255
Query: 86 SSRRPVPLTWYF--STKTALLPLLDEKGKHMNRKLSLNYLQLSTSEVKPYKDGGSRRRNS 143
++ RP PL Y + + ++DEK +S +
Sbjct: 256 TNFRPTPLQHYLFPAHGDGIYLVVDEKSTFREENFQKAMASIS----------------N 299
Query: 144 RKHADMNSNNIVTSFGQHQLSKNSINAIRRSQVPQVIDTLWHLRSRDMLPAIWFIFNRRG 203
+ D NS + GQ S + + +++ +W + P I F F++R
Sbjct: 300 QIGDDPNSTDSRGKKGQ-TYKGGSAKGDAKGDIYKIVKMIWKKKYN---PVIVFSFSKRD 355
Query: 204 CDAAVQYLEDCNLLDECEMSEVELALKRFRILYPDAVRE-PAIKGLL----KGVAAHHAG 258
C+ + + + E + L P+ RE P IK +L +G+ HH+G
Sbjct: 356 CEELALKMSKLDFNSDDEKEALTKIFNNAIALLPETDRELPQIKHILPLLRRGIGIHHSG 415
Query: 259 CLPIWKSFIEELFQRGLVKVVFATETLAAGINMPARTAVLSSLSKRTASGRIQLTSNELF 318
LPI K IE LFQ G +KV+FATET + G+NMPA+T V +S+ K ++ E
Sbjct: 416 LLPILKEVIEILFQEGFLKVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYI 475
Query: 319 QMAGRAGRRGIDNRGHVVLVQTPYEGAEECCKLLFAGVEPLVSQFTASYGMVLNLL 374
QM+GRAGRRG+D+RG V+++ + ++ + L S F Y M+LNL+
Sbjct: 476 QMSGRAGRRGLDDRGIVIMMIDEKMEPQVAKGMVKGQADRLDSAFHLGYNMILNLM 531
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 112 bits (280), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 102/364 (28%), Positives = 168/364 (46%), Gaps = 68/364 (18%)
Query: 21 LFDVDVIVLDEVHYLSDISRGTVWEEIIIYCPKEVQIICLSATVANADELAGWIGQIHGK 80
L +V+ VLDE+HYL+D RG V E + I K ++ LSAT++N ++A W+G
Sbjct: 143 LNEVNYFVLDELHYLNDPERGPVVESVTIRA-KRRNLLALSATISNYKQIAKWLG----- 196
Query: 81 TELITSSRRPVPLTWYFSTKTALLPLLDEKGKHMNRKLSLNYLQLSTSEVKPYKDGGSRR 140
E + ++ RPVPL + + P + K K N +KD +++
Sbjct: 197 AEPVATNWRPVPLI-----EGVIYP--ERKKKEYN---------------VIFKDNTTKK 234
Query: 141 RNSRKHADMNSNNIVTSFGQHQLSKNSINAIRRSQVPQVIDTLWHLRSRDMLPAIWFIFN 200
++ ++ + ++ LSKN + R+ T + A + F
Sbjct: 235 --------VHGDDAIIAYTLDSLSKNGQVLVFRNSRKMAESTALKI-------ANYMNFV 279
Query: 201 RRGCDAAVQYLEDCNLLDECEMSEVELALKRFRILYPDAVREPAIKGLL-KGVAAHHAGC 259
+A + L+ + ++E E EL +K L+ KGVA HHAG
Sbjct: 280 SLDENALSEILKQLDDIEEGGSDEKEL-----------------LKSLISKGVAYHHAGL 322
Query: 260 LPIWKSFIEELFQRGLVKVVFATETLAAGINMPARTAVLSSL---SKRTASGRIQLTSNE 316
+ IEE F++ +KV+ AT TLAAG+N+PART ++ + +K+ A ++ E
Sbjct: 323 SKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIME 382
Query: 317 LFQMAGRAGRRGIDNRGHVVLVQTPYEGAEECC-KLLFAGVEPLVSQFT---ASYGMVLN 372
QM+GRAGR G D G ++V E + K + + VEP+ S+ A Y +L
Sbjct: 383 YKQMSGRAGRPGFDQIGESIVVVRDKEDVDRVFKKYVLSDVEPIESKLGSERAFYTFLLG 442
Query: 373 LLAG 376
+L+
Sbjct: 443 ILSA 446
>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 = 84.0 bits (206), Expect = 3e-16, Method: Compositional matrix adjust.
Identities = 44/90 (48%), Positives = 61/90 (67%), Gaps = 3/90 (3%)
Query: 250 KGVAAHHAGCLPIWKSFIEELFQRGLVKVVFATETLAAGINMPARTAVLSSLSKRTA-SG 308
KG A HHAG L + +E+ F+RG +KVV AT TLAAG+N+PAR ++ SL + S
Sbjct: 297 KGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSK 356
Query: 309 RIQLTSNELFQMAGRAGRRGIDNRGHVVLV 338
RI+++ E QMAGRAGR G+D RG +++
Sbjct: 357 RIKVS--EYKQMAGRAGRPGMDERGEAIII 384
Score = 39.7 bits (91), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 25/74 (33%), Positives = 36/74 (48%), Gaps = 8/74 (10%)
Query: 24 VDVIVLDEVHYLSDISRGTVWEEIII---YCPKEVQIICLSATVANADELAGWIGQIHGK 80
V +V+DE+H L RG E ++ K +++I LSAT N E+A W+
Sbjct: 139 VSCLVVDEIHLLDSEKRGATLEILVTKMRRMNKALRVIGLSATAPNVTEIAEWL-----D 193
Query: 81 TELITSSRRPVPLT 94
+ S RPVPL
Sbjct: 194 ADYYVSDWRPVPLV 207
>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 = 77.0 bits (188), Expect = 5e-14, Method: Compositional matrix adjust.
Identities = 47/132 (35%), Positives = 70/132 (53%), Gaps = 3/132 (2%)
Query: 244 AIKGLLKGVAAHHAGCLPIWKSFIEELFQRGLVKVVFATETLAAGINMPARTAVLSSLSK 303
AI+G GVA HHAG + +EE F++G++K V AT TL+AGIN PA ++ + +
Sbjct: 292 AIRG---GVAFHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWR 348
Query: 304 RTASGRIQLTSNELFQMAGRAGRRGIDNRGHVVLVQTPYEGAEECCKLLFAGVEPLVSQF 363
+ G ++ E+ QM GRAGR D G ++V T + E +F E L SQ
Sbjct: 349 YSDFGMERIPIIEVHQMLGRAGRPKYDEVGEGIIVSTSDDPREVMNHYIFGKPEKLFSQL 408
Query: 364 TASYGMVLNLLA 375
+ + +LA
Sbjct: 409 SNESNLRSQVLA 420
Score = 54.7 bits (130), Expect = 3e-07, Method: Compositional matrix adjust.
Identities = 30/71 (42%), Positives = 40/71 (56%), Gaps = 5/71 (7%)
Query: 23 DVDVIVLDEVHYLSDISRGTVWEEIIIYCPKEVQIICLSATVANADELAGWIGQIHGKTE 82
DV ++V DE+H + RG E I+ + + QII LSAT+ N +ELA W+ E
Sbjct: 138 DVKILVADEIHLIGSRDRGATLEVILAHMLGKAQIIGLSATIGNPEELAEWLN-----AE 192
Query: 83 LITSSRRPVPL 93
LI S RPV L
Sbjct: 193 LIVSDWRPVKL 203
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 63.9 bits (154), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 35/99 (35%), Positives = 58/99 (58%), Gaps = 3/99 (3%)
Query: 245 IKGLLK-GVAAHHAGCLPIWKSFIEELFQRGLVKVVFATETLAAGINMPARTAVLSSLSK 303
+K LL G A HHAG + ++ +E+LF ++V+ +T TLA G+N+PA T ++
Sbjct: 373 LKDLLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQV 432
Query: 304 RTA-SGR-IQLTSNELFQMAGRAGRRGIDNRGHVVLVQT 340
+ GR +L + ++ QM GRAGR D +G +L+ +
Sbjct: 433 YSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITS 471
Score = 60.5 bits (145), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 75/337 (22%), Positives = 135/337 (40%), Gaps = 99/337 (29%)
Query: 23 DVDVIVLDEVHYLSDISRGTVWEEI---IIYCPKEVQ----IICLSATVANADELAGWIG 75
++++ V+DEVH + G V E I + Y +++ I+ LS++++NA ++A W+G
Sbjct: 1046 NINLFVVDEVHLIGG-ENGPVLEVICSRMRYISSQIERPIRIVALSSSLSNAKDVAHWLG 1104
Query: 76 QIHGKTELITSSRRPVPLTWYFS------TKTALL----PLLDEKGKHMNRKLSLNYLQL 125
T + RPVPL + T+T LL P+ KH +K + ++
Sbjct: 1105 CSATSTFNFHPNVRPVPLELHIQGFNISHTQTRLLSMAKPVYHAITKHSPKKPVIVFVP- 1163
Query: 126 STSEVKPYKDGGSRRRNSRKHADMNSNNIVTSFGQHQLSKNSINAIRRSQVPQVIDTLWH 185
SRK + + +I+T+ I+R + H
Sbjct: 1164 -----------------SRKQTRLTAIDILTTCAAD---------IQRQR-------FLH 1190
Query: 186 LRSRDMLPAIWFIFNRRGCDAAVQYLEDCNLLDECEMSEVELALKRFRILYPDAVREPAI 245
+D++P YLE L + + E
Sbjct: 1191 CTEKDLIP----------------YLEK---LSDSTLKET-------------------- 1211
Query: 246 KGLLKGVAAHHAGCLPIWKSFIEELFQRGLVKVVFATETLAAGINMPARTAVLSSLSKRT 305
LL GV H G P+ + +E+LF G ++VV A+ +L G+N+ A ++ + +
Sbjct: 1212 --LLNGVGYLHEGLSPMERRLVEQLFSSGAIQVVVASRSLCWGMNVAAHLVII--MDTQY 1267
Query: 306 ASGRIQLTSN----ELFQMAGRAGRRGIDNRGHVVLV 338
+G+I + ++ QM G A R D+ G V++
Sbjct: 1268 YNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIM 1304
Score = 37.4 bits (85), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 9/78 (11%)
Query: 24 VDVIVLDEVHYLSDISRGTVWEEIII-------YCPKEVQIICLSATVANADELAGWIGQ 76
V +I+LDE+H L D RG V E ++ ++V++I LSAT+ N +++A ++
Sbjct: 208 VRLIILDEIHLLHD-DRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYEDVATFLRV 266
Query: 77 IHGKTEL-ITSSRRPVPL 93
K +S RPVPL
Sbjct: 267 DPAKGLFYFDNSFRPVPL 284
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 63.9 bits (154), Expect = 4e-10, Method: Compositional matrix adjust.
Identities = 35/99 (35%), Positives = 58/99 (58%), Gaps = 3/99 (3%)
Query: 245 IKGLLK-GVAAHHAGCLPIWKSFIEELFQRGLVKVVFATETLAAGINMPARTAVLSSLSK 303
+K LL G A HHAG + ++ +E+LF ++V+ +T TLA G+N+PA T ++
Sbjct: 373 LKDLLPYGFAIHHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLPAHTVIIKGTQV 432
Query: 304 RTA-SGR-IQLTSNELFQMAGRAGRRGIDNRGHVVLVQT 340
+ GR +L + ++ QM GRAGR D +G +L+ +
Sbjct: 433 YSPEKGRWTELGALDILQMLGRAGRPQYDTKGEGILITS 471
Score = 60.5 bits (145), Expect = 4e-09, Method: Compositional matrix adjust.
Identities = 75/337 (22%), Positives = 135/337 (40%), Gaps = 99/337 (29%)
Query: 23 DVDVIVLDEVHYLSDISRGTVWEEI---IIYCPKEVQ----IICLSATVANADELAGWIG 75
++++ V+DEVH + G V E I + Y +++ I+ LS++++NA ++A W+G
Sbjct: 1046 NINLFVVDEVHLIGG-ENGPVLEVICSRMRYISSQIERPIRIVALSSSLSNAKDVAHWLG 1104
Query: 76 QIHGKTELITSSRRPVPLTWYFS------TKTALL----PLLDEKGKHMNRKLSLNYLQL 125
T + RPVPL + T+T LL P+ KH +K + ++
Sbjct: 1105 CSATSTFNFHPNVRPVPLELHIQGFNISHTQTRLLSMAKPVYHAITKHSPKKPVIVFVP- 1163
Query: 126 STSEVKPYKDGGSRRRNSRKHADMNSNNIVTSFGQHQLSKNSINAIRRSQVPQVIDTLWH 185
SRK + + +I+T+ I+R + H
Sbjct: 1164 -----------------SRKQTRLTAIDILTTCAAD---------IQRQR-------FLH 1190
Query: 186 LRSRDMLPAIWFIFNRRGCDAAVQYLEDCNLLDECEMSEVELALKRFRILYPDAVREPAI 245
+D++P YLE L + + E
Sbjct: 1191 CTEKDLIP----------------YLEK---LSDSTLKET-------------------- 1211
Query: 246 KGLLKGVAAHHAGCLPIWKSFIEELFQRGLVKVVFATETLAAGINMPARTAVLSSLSKRT 305
LL GV H G P+ + +E+LF G ++VV A+ +L G+N+ A ++ + +
Sbjct: 1212 --LLNGVGYLHEGLSPMERRLVEQLFSSGAIQVVVASRSLCWGMNVAAHLVII--MDTQY 1267
Query: 306 ASGRIQLTSN----ELFQMAGRAGRRGIDNRGHVVLV 338
+G+I + ++ QM G A R D+ G V++
Sbjct: 1268 YNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGRCVIM 1304
Score = 37.4 bits (85), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 27/78 (34%), Positives = 43/78 (55%), Gaps = 9/78 (11%)
Query: 24 VDVIVLDEVHYLSDISRGTVWEEIII-------YCPKEVQIICLSATVANADELAGWIGQ 76
V +I+LDE+H L D RG V E ++ ++V++I LSAT+ N +++A ++
Sbjct: 208 VRLIILDEIHLLHD-DRGPVLEALVARAIRNIEMTQEDVRLIGLSATLPNYEDVATFLRV 266
Query: 77 IHGKTEL-ITSSRRPVPL 93
K +S RPVPL
Sbjct: 267 DPAKGLFYFDNSFRPVPL 284
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 39.3 bits (90), Expect = 0.009, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 41/83 (49%), Gaps = 12/83 (14%)
Query: 250 KGV--AAHHAGCLPIWKSFIEELFQRGLVKVVFATETLAAGINMP-ARTAVLSSLSKRTA 306
KG+ AA+HAG ++ ++E FQR +++V AT GIN P R V + +
Sbjct: 259 KGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGXGINKPNVRFVVHFDIPRNIE 318
Query: 307 SGRIQLTSNELFQMAGRAGRRGI 329
S +Q GRAGR G+
Sbjct: 319 S---------YYQETGRAGRDGL 332
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 38.9 bits (89), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 28/83 (33%), Positives = 41/83 (49%), Gaps = 12/83 (14%)
Query: 250 KGV--AAHHAGCLPIWKSFIEELFQRGLVKVVFATETLAAGINMP-ARTAVLSSLSKRTA 306
KG+ AA+HAG ++ ++E FQR +++V AT GIN P R V + +
Sbjct: 259 KGISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVAFGMGINKPNVRFVVHFDIPRNIE 318
Query: 307 SGRIQLTSNELFQMAGRAGRRGI 329
S +Q GRAGR G+
Sbjct: 319 S---------YYQETGRAGRDGL 332
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 35.0 bits (79), Expect = 0.22, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 277 KVVFATETLAAGINMPARTAVLSSLSKRTASGRIQ-----LTSNELFQMAGRAGR 326
K++ AT+ + G+N+ R + SL K + + + + +T+++ Q+AGRAGR
Sbjct: 374 KILVATDAIGXGLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGR 428
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 34.7 bits (78), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 277 KVVFATETLAAGINMPARTAVLSSLSKRTASGRIQ-----LTSNELFQMAGRAGR 326
K++ AT+ + G+N+ R + SL K + + + + +T+++ Q+AGRAGR
Sbjct: 374 KILVATDAIGMGLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGR 428
Score = 30.0 bits (66), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 20/69 (28%), Positives = 33/69 (47%), Gaps = 4/69 (5%)
Query: 9 SCSVGMVSSESGLFDVDVIVLDEVHYLSDISRGTVWEEIII-YCPKEVQIICLSATVANA 67
SC+V M S + +V V+DE+ + D +RG W ++ C +EV + A +
Sbjct: 228 SCTVEMCSVTT---PYEVAVIDEIQMIRDPARGWAWTRALLGLCAEEVHLCGEPAAIDLV 284
Query: 68 DELAGWIGQ 76
EL G+
Sbjct: 285 MELMYTTGE 293
>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 = 31.6 bits (70), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 22/75 (29%), Positives = 34/75 (45%), Gaps = 10/75 (13%)
Query: 253 AAHHAGCLPIWKSFIEELFQRGLVKVVFATETLAAGINMP-ARTAVLSSLSKRTASGRIQ 311
A+HA P K+ + + ++VV AT GI+ P R + S+SK
Sbjct: 295 GAYHANLEPEDKTTVHRKWSANEIQVVVATVAFGMGIDKPDVRFVIHHSMSK-------- 346
Query: 312 LTSNELFQMAGRAGR 326
+ +Q +GRAGR
Sbjct: 347 -SMENYYQESGRAGR 360
>pdb|3IBG|A Chain A, Crystal Structure Of Aspergillus Fumigatus Get3 With Bound
Adp
pdb|3IBG|B Chain B, Crystal Structure Of Aspergillus Fumigatus Get3 With Bound
Adp
pdb|3IBG|C Chain C, Crystal Structure Of Aspergillus Fumigatus Get3 With Bound
Adp
pdb|3IBG|D Chain D, Crystal Structure Of Aspergillus Fumigatus Get3 With Bound
Adp
pdb|3IBG|E Chain E, Crystal Structure Of Aspergillus Fumigatus Get3 With Bound
Adp
pdb|3IBG|F Chain F, Crystal Structure Of Aspergillus Fumigatus Get3 With Bound
Adp
Length = 348
Score = 31.2 bits (69), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 34/156 (21%), Positives = 71/156 (45%), Gaps = 11/156 (7%)
Query: 360 VSQFTASYGMVLNLLAGAKVMHLSNESDDMKALQAGRSLEEARKLVEQSFGNYVGSNVML 419
+SQ ++ +G +LN + GA+ ++ D + LQ SL E V F N + +
Sbjct: 182 LSQLSSQFGPMLNSILGARGGLPGGQNID-ELLQKMESLRETISEVNTQFKNPDMTTFVC 240
Query: 420 AAKDELCKIQKETDVLTSEISDDAIDRKSRRLLSEAAYKEMANLQEELKAEKRFRTELRR 479
E + ET+ + E++ ID + ++++ + + + E+ A RR
Sbjct: 241 VCIAEFLSL-YETERMIQELTSYGIDTHAI-VVNQLLFPKEGSGCEQCNA--------RR 290
Query: 480 RMELKRFSALKDILKDFENGHLPFLCLQYKDSEGVE 515
+M+ K ++++ +DF +P L + + E +E
Sbjct: 291 KMQKKYLEQIEELYEDFNVVRMPLLVEEVRGKEKLE 326
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 30.8 bits (68), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 271 FQRGLVKVVFATETLAAGINMPARTAVLSSLSKRTASGRIQ-LTSNELFQMAGRAGRRGI 329
F+ G KV+ T LA GI++P + V++ A+G+ T GR GR+G+
Sbjct: 81 FREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGV 140
>pdb|4DZS|A Chain A, Crystal Structure Of Yeast Puf4p Rna Binding Domain In
Complex With Ho-4be Mutant Rna
pdb|4DZS|B Chain B, Crystal Structure Of Yeast Puf4p Rna Binding Domain In
Complex With Ho-4be Mutant Rna
Length = 357
Score = 30.0 bits (66), Expect = 6.1, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 39/84 (46%), Gaps = 7/84 (8%)
Query: 396 RSLEEARKLVEQSFGNYVGSNVMLAAKDELCK-IQKETDVLTSEISDDAIDRKSRRLLSE 454
R +EE+ + + Y+GS L C+ +QK+ D+L S+ + DAI +++ E
Sbjct: 17 RKIEESSRFADAVLDQYIGSIHSLCKDQHGCRFLQKQLDILGSKAA-DAIFEETKDYTVE 75
Query: 455 AAYKEMAN-----LQEELKAEKRF 473
N L EE+ E+R
Sbjct: 76 LMTDSFGNYLIQKLLEEVTTEQRI 99
>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 = 30.0 bits (66), Expect = 6.5, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 271 FQRGLVKVVFATETLAAGINMPARTAVLSSLSKRTASGRIQ-LTSNELFQMAGRAGRRGI 329
F+ G KV+ T LA GI++P + V++ A+G+ T GR GR+G+
Sbjct: 82 FREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGV 141
>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 = 30.0 bits (66), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 271 FQRGLVKVVFATETLAAGINMPARTAVLSSLSKRTASGRIQ-LTSNELFQMAGRAGRRGI 329
F+ G KV+ T LA GI++P + V++ A+G+ T GR GR+G+
Sbjct: 289 FREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGV 348
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 30.0 bits (66), Expect = 6.6, Method: Composition-based stats.
Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 271 FQRGLVKVVFATETLAAGINMPARTAVLSSLSKRTASGRIQ-LTSNELFQMAGRAGRRGI 329
F+ G KV+ T LA GI++P + V++ A+G+ T GR GR+G+
Sbjct: 83 FREGRSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGV 142
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 30.0 bits (66), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 19/60 (31%), Positives = 30/60 (50%), Gaps = 1/60 (1%)
Query: 271 FQRGLVKVVFATETLAAGINMPARTAVLSSLSKRTASGRIQ-LTSNELFQMAGRAGRRGI 329
F+ G KV+ T LA GI++P + V++ A+G+ T GR GR+G+
Sbjct: 289 FREGRSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQADPATYIHRIGRTGRFGRKGV 348
>pdb|2JAN|A Chain A, Tyrosyl-Trna Synthetase From Mycobacterium Tuberculosis In
Unliganded State
pdb|2JAN|B Chain B, Tyrosyl-Trna Synthetase From Mycobacterium Tuberculosis In
Unliganded State
pdb|2JAN|C Chain C, Tyrosyl-Trna Synthetase From Mycobacterium Tuberculosis In
Unliganded State
pdb|2JAN|D Chain D, Tyrosyl-Trna Synthetase From Mycobacterium Tuberculosis In
Unliganded State
Length = 432
Score = 29.6 bits (65), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 36/79 (45%), Gaps = 4/79 (5%)
Query: 744 TRALDINTQVIFPLGETAAAIRGENELWLAMVLRNKILLDLKPAQLAAVCASLVSEGIKV 803
T A++ ++ +F GE A +E LA LR + +LKP + LV+ G+
Sbjct: 314 TAAVEHASRALFGRGELARL----DEATLAAALRETTVAELKPGSPDGIVDLLVASGLSA 369
Query: 804 RLWKNNSSIYEPSTTVINV 822
+I+E +V N+
Sbjct: 370 SKGAARRTIHEGGVSVNNI 388
>pdb|2YXM|A Chain A, Crystal Structure Of I-Set Domain Of Human Myosin Binding
Proteinc
pdb|2YUV|A Chain A, Solution Structure Of 2nd Immunoglobulin Domain Of Slow
Type Myosin-Binding Protein C
Length = 100
Score = 29.6 bits (65), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 9/42 (21%), Positives = 24/42 (57%), Gaps = 1/42 (2%)
Query: 180 IDTLWHLRSRDMLPAIWFIFNRRGCDAAVQYLEDCNLLDECE 221
++ W+ +++ P+ +IF +GC + ++ +C + D+ E
Sbjct: 37 LEVKWYKNGQEIRPSTKYIFEHKGCQ-RILFINNCQMTDDSE 77
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
0.319 0.133 0.390
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 25,019,305
Number of Sequences: 62578
Number of extensions: 982584
Number of successful extensions: 2640
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 14
Number of HSP's successfully gapped in prelim test: 20
Number of HSP's that attempted gapping in prelim test: 2597
Number of HSP's gapped (non-prelim): 50
length of query: 924
length of database: 14,973,337
effective HSP length: 108
effective length of query: 816
effective length of database: 8,214,913
effective search space: 6703369008
effective search space used: 6703369008
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 56 (26.2 bits)