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= 026168
(242 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 = 187 bits (475), Expect = 4e-48, Method: Compositional matrix adjust.
Identities = 105/247 (42%), Positives = 145/247 (58%), Gaps = 21/247 (8%)
Query: 1 MALTATATQSVRLDILKALRIPHALVLETSFDRPNLKYEVIGK---SKEALKQIGQLIKD 57
+ LTATAT V D K L I SF+RPNL YEV K +++ ++ I +LI
Sbjct: 204 IGLTATATNHVLTDAQKILCIEKCFTFTASFNRPNLYYEVRQKPSNTEDFIEDIVKLING 263
Query: 58 RFKDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVC 117
R+K Q GIIYC S+ + +V+ L Q I YHA L + V +KW ++Q+V
Sbjct: 264 RYKGQSGIIYCFSQKDSEQVTVSL-QNLGIHAGAYHANLEPEDKTTVHRKWSANEIQVVV 322
Query: 118 ATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDFSRV--- 174
AT+AFGMGIDKPDVRFVIH+++SKS+E+YYQESGRAGRD++ + CI+ Y D R+
Sbjct: 323 ATVAFGMGIDKPDVRFVIHHSMSKSMENYYQESGRAGRDDMKADCILYYGFGDIFRISSM 382
Query: 175 VCMLRNGQGFKSEAFKTAMAQAKKMQQYCEQKAECRRQTLLEHFGESFDRKACKNGSNPC 234
V M GQ + +M YC+ ++CRR + +HF E ++ +AC + C
Sbjct: 383 VVMENVGQ-----------QKLYEMVSYCQNISKCRRVLMAQHFDEVWNSEAC---NKMC 428
Query: 235 DNCLKTS 241
DNC K S
Sbjct: 429 DNCCKDS 435
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 161 bits (408), Expect = 3e-40, Method: Compositional matrix adjust.
Identities = 96/239 (40%), Positives = 143/239 (59%), Gaps = 13/239 (5%)
Query: 1 MALTATATQSVRLDILKALRIPHALVLETSFDRPNLKYEVIGKSKEALKQIGQLIKDRFK 60
MALTATA + R DI++ L + L+ +SFDRPN++Y ++ K K L Q+ + ++++ +
Sbjct: 178 MALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYMLMEKFK-PLDQLMRYVQEQ-R 235
Query: 61 DQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATI 120
+ GIIYC S+ + + + L K I YHAGL R VQ+K+ D+QIV AT+
Sbjct: 236 GKSGIIYCNSRAKVEDTAARLQSK-GISAAAYHAGLENNVRADVQEKFQRDDLQIVVATV 294
Query: 121 AFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDFSRV-VCMLR 179
AFGMGI+KP+VRFV+H + ++IESYYQE+GRAGRD LP+ ++ Y D + + C+
Sbjct: 295 AFGMGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAMLFYDPADMAWLRRCLEE 354
Query: 180 NGQGFKSEAFKTAMAQAKKMQQYCEQKAECRRQTLLEHFGESFDRKACKNGSNPCDNCL 238
QG + + + M + E + CRR LL +FGE ++ C N CD CL
Sbjct: 355 KPQGQLQDIERHKL---NAMGAFAEAQT-CRRLVLLNYFGEG-RQEPCGN----CDICL 404
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 152 bits (383), Expect = 2e-37, Method: Compositional matrix adjust.
Identities = 93/238 (39%), Positives = 138/238 (57%), Gaps = 13/238 (5%)
Query: 2 ALTATATQSVRLDILKALRIPHALVLETSFDRPNLKYEVIGKSKEALKQIGQLIKDRFKD 61
ALTATA + R DI++ L + L+ +SFDRPN++Y + K K L Q+ + ++++ +
Sbjct: 179 ALTATADDTTRQDIVRLLGLNDPLIQISSFDRPNIRYXLXEKFK-PLDQLXRYVQEQ-RG 236
Query: 62 QCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIA 121
+ GIIYC S+ + + + L K I YHAGL R VQ+K+ D+QIV AT+A
Sbjct: 237 KSGIIYCNSRAKVEDTAARLQSK-GISAAAYHAGLENNVRADVQEKFQRDDLQIVVATVA 295
Query: 122 FGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDFSRV-VCMLRN 180
FG GI+KP+VRFV+H + ++IESYYQE+GRAGRD LP+ + Y D + + C+
Sbjct: 296 FGXGINKPNVRFVVHFDIPRNIESYYQETGRAGRDGLPAEAXLFYDPADXAWLRRCLEEK 355
Query: 181 GQGFKSEAFKTAMAQAKKMQQYCEQKAECRRQTLLEHFGESFDRKACKNGSNPCDNCL 238
QG + + + + E + CRR LL +FGE ++ C N CD CL
Sbjct: 356 PQGQLQDIERHKL---NAXGAFAEAQT-CRRLVLLNYFGEG-RQEPCGN----CDICL 404
>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 = 48.5 bits (114), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 34/112 (30%), Positives = 57/112 (50%), Gaps = 10/112 (8%)
Query: 68 CLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIAFGMGID 127
L +NE E+S L + + ++HAGL QR VV+ + G++++V AT G++
Sbjct: 279 ILEENEG-EMSRKLAECVRKGAAFHHAGLLNGQRRVVEDAFRRGNIKVVVATPTLAAGVN 337
Query: 128 KPDVRFVIH-----NTLSKSIE--SYYQESGRAGRDNLP--SVCIVLYQKKD 170
P R ++ + SK I+ Y Q +GRAGR + I++ K+D
Sbjct: 338 LPARRVIVRSLYRFDGYSKRIKVSEYKQMAGRAGRPGMDERGEAIIIVGKRD 389
>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 = 45.8 bits (107), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 30/115 (26%), Positives = 57/115 (49%), Gaps = 1/115 (0%)
Query: 60 KDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCAT 119
K+ G+++C +K + E+++ L + K H L+ QR V + + ++I+ AT
Sbjct: 237 KEFYGLVFCKTKRDTKELASXL-RDIGFKAGAIHGDLSQSQREKVIRLFKQKKIRILIAT 295
Query: 120 IAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDFSRV 174
GID D+ VI+ L ++ ESY GR GR I + ++++ ++
Sbjct: 296 DVXSRGIDVNDLNCVINYHLPQNPESYXHRIGRTGRAGKKGKAISIINRREYKKL 350
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 45.1 bits (105), Expect = 4e-05, Method: Compositional matrix adjust.
Identities = 28/98 (28%), Positives = 48/98 (48%), Gaps = 14/98 (14%)
Query: 91 YYHAGLAARQRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNT--LSKSIESYYQ 148
Y+HAGL+ R ++++ + ++++ AT G++ P +I + +K I YY
Sbjct: 317 YHHAGLSKALRDLIEEGFRQRKIKVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYD 376
Query: 149 E---------SGRAGR---DNLPSVCIVLYQKKDFSRV 174
E SGRAGR D + +V+ K+D RV
Sbjct: 377 EIPIMEYKQMSGRAGRPGFDQIGESIVVVRDKEDVDRV 414
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 24/73 (32%), Positives = 37/73 (50%), Gaps = 8/73 (10%)
Query: 91 YYHAGLAARQRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKS-------- 142
++HAGL +RV+V++ + G ++ V AT GI+ P R +I + S
Sbjct: 299 FHHAGLGRDERVLVEENFRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIP 358
Query: 143 IESYYQESGRAGR 155
I +Q GRAGR
Sbjct: 359 IIEVHQMLGRAGR 371
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/111 (22%), Positives = 51/111 (45%), Gaps = 7/111 (6%)
Query: 64 GIIYCLSKNECVEVSNFLNQKCK---IKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATI 120
+I+C +K + ++L +K + H + ++R + K++ +G +++ +T
Sbjct: 280 AVIFCNTKRKV----DWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTD 335
Query: 121 AFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDF 171
+ G+D P V +I+ L + E Y GR+GR V I + D
Sbjct: 336 VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 386
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/111 (22%), Positives = 51/111 (45%), Gaps = 7/111 (6%)
Query: 64 GIIYCLSKNECVEVSNFLNQKCK---IKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATI 120
+I+C +K + ++L +K + H + ++R + K++ +G +++ +T
Sbjct: 280 AVIFCNTKRKV----DWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTD 335
Query: 121 AFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDF 171
+ G+D P V +I+ L + E Y GR+GR V I + D
Sbjct: 336 VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 386
>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 = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 25/111 (22%), Positives = 51/111 (45%), Gaps = 7/111 (6%)
Query: 64 GIIYCLSKNECVEVSNFLNQKCK---IKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATI 120
+I+C +K + ++L +K + H + ++R + K++ +G +++ +T
Sbjct: 279 AVIFCNTKRKV----DWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTD 334
Query: 121 AFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDF 171
+ G+D P V +I+ L + E Y GR+GR V I + D
Sbjct: 335 VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 385
>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 = 42.7 bits (99), Expect = 2e-04, Method: Compositional matrix adjust.
Identities = 25/111 (22%), Positives = 51/111 (45%), Gaps = 7/111 (6%)
Query: 64 GIIYCLSKNECVEVSNFLNQKCK---IKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATI 120
+I+C +K + ++L +K + H + ++R + K++ +G +++ +T
Sbjct: 258 AVIFCNTKRKV----DWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTD 313
Query: 121 AFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDF 171
+ G+D P V +I+ L + E Y GR+GR V I + D
Sbjct: 314 VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAINFVKNDDI 364
>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 = 2e-04, Method: Compositional matrix adjust.
Identities = 27/106 (25%), Positives = 46/106 (43%), Gaps = 1/106 (0%)
Query: 65 IIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIAFGM 124
I++ + E++N+L ++ I Y + +R K+ G V ++ AT
Sbjct: 34 IVFVRKRERVHELANWL-REAGINNCYLEGEMVQGKRNEAIKRLTEGRVNVLVATDVAAR 92
Query: 125 GIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKD 170
GID PDV V + + +S ++Y GR R I L + D
Sbjct: 93 GIDIPDVSHVFNFDMPRSGDTYLHRIGRTARAGRKGTAISLVEAHD 138
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 42.4 bits (98), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/111 (21%), Positives = 51/111 (45%), Gaps = 7/111 (6%)
Query: 64 GIIYCLSKNECVEVSNFLNQKCK---IKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATI 120
+I+C +K + ++L +K + H + ++R + K++ +G +++ +T
Sbjct: 243 AVIFCNTKRKV----DWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTD 298
Query: 121 AFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDF 171
+ G+D P V +I+ L + E Y GR+GR V + + D
Sbjct: 299 VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDI 349
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 42.0 bits (97), Expect = 3e-04, Method: Compositional matrix adjust.
Identities = 24/111 (21%), Positives = 51/111 (45%), Gaps = 7/111 (6%)
Query: 64 GIIYCLSKNECVEVSNFLNQKCK---IKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATI 120
+I+C +K + ++L +K + H + ++R + K++ +G +++ +T
Sbjct: 243 AVIFCNTKRKV----DWLTEKMREANFTVSSMHGDMPQKERESIMKEFRSGASRVLISTD 298
Query: 121 AFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDF 171
+ G+D P V +I+ L + E Y GR+GR V + + D
Sbjct: 299 VWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAVNFVKNDDI 349
>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 = 41.6 bits (96), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 31/99 (31%), Positives = 46/99 (46%), Gaps = 10/99 (10%)
Query: 61 DQCGIIYCLSK---NECVEVSNFLNQKC-KIKTVYYHAGLAARQRVVVQKKWHTGDVQIV 116
D C II+C +K N+ + + L C KI H G+ R V ++ G+ + +
Sbjct: 36 DSC-IIFCRTKEHVNQLTDELDDLGYPCDKI-----HGGMIQEDRFDVMNEFKRGEYRYL 89
Query: 117 CATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGR 155
AT GID ++ VI+ L ESY +GR GR
Sbjct: 90 VATDVAARGIDIENISLVINYDLPLEKESYVHRTGRTGR 128
>pdb|2I4I|A Chain A, Crystal Structure Of Human Dead-Box Rna Helicase Ddx3x
Length = 417
Score = 39.7 bits (91), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 42/96 (43%), Gaps = 1/96 (1%)
Query: 60 KDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCAT 119
KD +++ +K + +FL + T H + R R ++ +G I+ AT
Sbjct: 275 KDSLTLVFVETKKGADSLEDFLYHEGYACTSI-HGDRSQRDREEALHQFRSGKSPILVAT 333
Query: 120 IAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGR 155
G+D +V+ VI+ L IE Y GR GR
Sbjct: 334 AVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 369
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 38.9 bits (89), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 36/178 (20%), Positives = 79/178 (44%), Gaps = 5/178 (2%)
Query: 1 MALTATATQSVRLDILKALRIPHALVL--ETSFDRPNLK-YEVIGKSKEALKQIGQLIKD 57
M +AT ++ +R K ++ P + + ET L+ Y V K E +++ L+ D
Sbjct: 188 MMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL-D 246
Query: 58 RFKDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVC 117
+ +I+ S C+ ++ L ++ + H G+ +R+ +++ +I+
Sbjct: 247 VLEFNQVVIFVKSVQRCIALAQLLVEQ-NFPAIAIHRGMPQEERLSRYQQFKDFQRRILV 305
Query: 118 ATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDFSRVV 175
AT FG G+D V + + + ++Y RAGR + I ++ ++++
Sbjct: 306 ATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 363
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 36/178 (20%), Positives = 79/178 (44%), Gaps = 5/178 (2%)
Query: 1 MALTATATQSVRLDILKALRIPHALVL--ETSFDRPNLK-YEVIGKSKEALKQIGQLIKD 57
M +AT ++ +R K ++ P + + ET L+ Y V K E +++ L+ D
Sbjct: 188 MMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL-D 246
Query: 58 RFKDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVC 117
+ +I+ S C+ ++ L ++ + H G+ +R+ +++ +I+
Sbjct: 247 VLEFNQVVIFVKSVQRCIALAQLLVEQ-NFPAIAIHRGMPQEERLSRYQQFKDFQRRILV 305
Query: 118 ATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDFSRVV 175
AT FG G+D V + + + ++Y RAGR + I ++ ++++
Sbjct: 306 ATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 363
>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 = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 22/91 (24%), Positives = 44/91 (48%), Gaps = 1/91 (1%)
Query: 65 IIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIAFGM 124
I++ +K +++FL++K + T H QR + + G ++++ AT
Sbjct: 304 IVFVETKRGADFLASFLSEK-EFPTTSIHGDRLQSQREQALRDFKNGSMKVLIATSVASR 362
Query: 125 GIDKPDVRFVIHNTLSKSIESYYQESGRAGR 155
G+D +++ VI+ + I+ Y GR GR
Sbjct: 363 GLDIKNIKHVINYDMPSKIDDYVHRIGRTGR 393
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 38.9 bits (89), Expect = 0.003, Method: Compositional matrix adjust.
Identities = 36/178 (20%), Positives = 79/178 (44%), Gaps = 5/178 (2%)
Query: 1 MALTATATQSVRLDILKALRIPHALVL--ETSFDRPNLK-YEVIGKSKEALKQIGQLIKD 57
M +AT ++ +R K ++ P + + ET L+ Y V K E +++ L+ D
Sbjct: 187 MMFSATLSKEIRPVCRKFMQDPMEIFVDDETKLTLHGLQQYYVKLKDNEKNRKLFDLL-D 245
Query: 58 RFKDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVC 117
+ +I+ S C+ ++ L ++ + H G+ +R+ +++ +I+
Sbjct: 246 VLEFNQVVIFVKSVQRCIALAQLLVEQ-NFPAIAIHRGMPQEERLSRYQQFKDFQRRILV 304
Query: 118 ATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDFSRVV 175
AT FG G+D V + + + ++Y RAGR + I ++ ++++
Sbjct: 305 ATNLFGRGMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 362
>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 = 0.003, Method: Compositional matrix adjust.
Identities = 26/96 (27%), Positives = 42/96 (43%), Gaps = 1/96 (1%)
Query: 60 KDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCAT 119
KD +++ +K + +FL + T H + R R ++ +G I+ AT
Sbjct: 45 KDSLTLVFVETKKGADSLEDFLYHEGYACTSI-HGDRSQRDREEALHQFRSGKSPILVAT 103
Query: 120 IAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGR 155
G+D +V+ VI+ L IE Y GR GR
Sbjct: 104 AVAARGLDISNVKHVINFDLPSDIEEYVHRIGRTGR 139
>pdb|1WP9|A Chain A, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|B Chain B, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|C Chain C, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|D Chain D, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|E Chain E, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
pdb|1WP9|F Chain F, Crystal Structure Of Pyrococcus Furiosus Hef Helicase
Domain
Length = 494
Score = 37.4 bits (85), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 28/108 (25%), Positives = 52/108 (48%), Gaps = 17/108 (15%)
Query: 95 GLAARQRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVI-HNTLSKSIESYYQESGRA 153
GL+ R++ ++ ++ G+ ++ AT G+D P+V V+ + + +I S Q GR
Sbjct: 402 GLSQREQKLILDEFARGEFNVLVATSVGEEGLDVPEVDLVVFYEPVPSAIRS-IQRRGRT 460
Query: 154 GRDNLPSVCIVLYQKKDFSRVVCMLRNGQGFKSEAFKTAMAQAKKMQQ 201
GR ++P I+L K G + EA+ + Q +K+ Q
Sbjct: 461 GR-HMPGRVIILMAK--------------GTRDEAYYWSSRQKEKIMQ 493
>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 = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 33/123 (26%), Positives = 56/123 (45%), Gaps = 2/123 (1%)
Query: 64 GIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIAFG 123
+++ +K E E++ L + H L+ +R V + G+V+++ AT
Sbjct: 34 AMVFTRTKAETEEIAQGL-LRLGHPAQALHGDLSQGERERVLGAFRQGEVRVLVATDVAA 92
Query: 124 MGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDFSRVVCMLRN-GQ 182
G+D P V V+H L E+Y SGR GR ++LY ++ V + R G+
Sbjct: 93 RGLDIPQVDLVVHYRLPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVGR 152
Query: 183 GFK 185
FK
Sbjct: 153 RFK 155
>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 = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 22/90 (24%), Positives = 41/90 (45%), Gaps = 1/90 (1%)
Query: 65 IIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIAFGM 124
+I+ K + + +L K ++ V H G +R + + G ++ AT
Sbjct: 58 LIFAEKKADVDAIHEYLLLK-GVEAVAIHGGKDQEERTKAIEAFREGKKDVLVATDVASK 116
Query: 125 GIDKPDVRFVIHNTLSKSIESYYQESGRAG 154
G+D P ++ VI+ + + IE+Y GR G
Sbjct: 117 GLDFPAIQHVINYDMPEEIENYVHRIGRTG 146
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 21/111 (18%), Positives = 50/111 (45%), Gaps = 1/111 (0%)
Query: 65 IIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIAFGM 124
+I+ S C+ ++ L ++ + H G+ +R+ +++ +I+ AT FG
Sbjct: 35 VIFVKSVQRCIALAQLLVEQ-NFPAIAIHRGMPQEERLSRYQQFKDFQRRILVATNLFGR 93
Query: 125 GIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDFSRVV 175
G+D V + + + ++Y RAGR + I ++ ++++
Sbjct: 94 GMDIERVNIAFNYDMPEDSDTYLHRVARAGRFGTKGLAITFVSDENDAKIL 144
>pdb|4A4Z|A Chain A, Crystal Structure Of The S. Cerevisiae Dexh Helicase Ski2
Bound To Amppnp
Length = 997
Score = 36.2 bits (82), Expect = 0.016, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 42/83 (50%), Gaps = 10/83 (12%)
Query: 92 YHAGLAARQRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSK---------S 142
+H GL + +++ + G ++++ AT F MG++ P R VI +++ K +
Sbjct: 405 HHGGLLPIVKELIEILFSKGFIKVLFATETFAMGLNLP-TRTVIFSSIRKHDGNGLRELT 463
Query: 143 IESYYQESGRAGRDNLPSVCIVL 165
+ Q +GRAGR L S V+
Sbjct: 464 PGEFTQMAGRAGRRGLDSTGTVI 486
>pdb|2VSO|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSO|B Chain B, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|A Chain A, Crystal Structure Of A Translation Initiation Complex
pdb|2VSX|B Chain B, Crystal Structure Of A Translation Initiation Complex
Length = 395
Score = 36.2 bits (82), Expect = 0.018, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 64 GIIYCLSKNECVEVSNFL-NQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIAF 122
+I+C ++ + E++ L N K + +Y + L ++R + K++ +G +I+ +T
Sbjct: 263 AVIFCNTRRKVEELTTKLRNDKFTVSAIY--SDLPQQERDTIMKEFRSGSSRILISTDLL 320
Query: 123 GMGIDKPDVRFVIHNTLSKSIESYYQE 149
GID V VI+ L + E+Y
Sbjct: 321 ARGIDVQQVSLVINYDLPANKENYIHR 347
>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 = 35.8 bits (81), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 31/122 (25%), Positives = 56/122 (45%), Gaps = 2/122 (1%)
Query: 65 IIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIAFGM 124
+++ +K E E++ L + H ++ +R V + G+V+++ AT
Sbjct: 32 MVFTRTKAETEEIAQGL-LRLGHPAQALHGDMSQGERERVMGAFRQGEVRVLVATDVAAR 90
Query: 125 GIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDFSRVVCMLRN-GQG 183
G+D P V V+H + E+Y SGR GR ++LY ++ V + R G+
Sbjct: 91 GLDIPQVDLVVHYRMPDRAEAYQHRSGRTGRAGRGGRVVLLYGPRERRDVEALERAVGRR 150
Query: 184 FK 185
FK
Sbjct: 151 FK 152
>pdb|1FUU|A Chain A, Yeast Initiation Factor 4a
pdb|1FUU|B Chain B, Yeast Initiation Factor 4a
Length = 394
Score = 35.8 bits (81), Expect = 0.020, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 64 GIIYCLSKNECVEVSNFL-NQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIAF 122
+I+C ++ + E++ L N K + +Y + L ++R + K++ +G +I+ +T
Sbjct: 262 AVIFCNTRRKVEELTTKLRNDKFTVSAIY--SDLPQQERDTIXKEFRSGSSRILISTDLL 319
Query: 123 GMGIDKPDVRFVIHNTLSKSIESYYQE 149
GID V VI+ L + E+Y
Sbjct: 320 ARGIDVQQVSLVINYDLPANKENYIHR 346
>pdb|1FUK|A Chain A, Crystal Structure Of The Carboxy Terminal Domain Of Yeast
Eif4a
Length = 165
Score = 35.8 bits (81), Expect = 0.024, Method: Compositional matrix adjust.
Identities = 22/87 (25%), Positives = 44/87 (50%), Gaps = 3/87 (3%)
Query: 64 GIIYCLSKNECVEVSNFL-NQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIAF 122
+I+C ++ + E++ L N K + +Y + L ++R + K++ +G +I+ +T
Sbjct: 33 AVIFCNTRRKVEELTTKLRNDKFTVSAIY--SDLPQQERDTIMKEFRSGSSRILISTDLL 90
Query: 123 GMGIDKPDVRFVIHNTLSKSIESYYQE 149
GID V VI+ L + E+Y
Sbjct: 91 ARGIDVQQVSLVINYDLPANKENYIHR 117
>pdb|1S2M|A Chain A, Crystal Structure Of The Dead Box Protein Dhh1p
Length = 400
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 27/92 (29%), Positives = 41/92 (44%), Gaps = 1/92 (1%)
Query: 64 GIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIAFG 123
II+C S N VE+ Y HA + ++R V ++ G V+ + +
Sbjct: 261 AIIFCNSTNR-VELLAKKITDLGYSCYYSHARMKQQERNKVFHEFRQGKVRTLVCSDLLT 319
Query: 124 MGIDKPDVRFVIHNTLSKSIESYYQESGRAGR 155
GID V VI+ K+ E+Y GR+GR
Sbjct: 320 RGIDIQAVNVVINFDFPKTAETYLHRIGRSGR 351
>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 = 35.4 bits (80), Expect = 0.029, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 42/83 (50%), Gaps = 10/83 (12%)
Query: 92 YHAGLAARQRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSK---------S 142
+H+GL + V++ + G ++++ AT F +G++ P + V+ ++ K S
Sbjct: 412 HHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMP-AKTVVFTSVRKWDGQQFRWVS 470
Query: 143 IESYYQESGRAGRDNLPSVCIVL 165
Y Q SGRAGR L IV+
Sbjct: 471 GGEYIQMSGRAGRRGLDDRGIVI 493
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 35.4 bits (80), Expect = 0.031, Method: Compositional matrix adjust.
Identities = 24/83 (28%), Positives = 42/83 (50%), Gaps = 10/83 (12%)
Query: 92 YHAGLAARQRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSK---------S 142
+H+GL + V++ + G ++++ AT F +G++ P + V+ ++ K S
Sbjct: 510 HHSGLLPILKEVIEILFQEGFLKVLFATETFSIGLNMP-AKTVVFTSVRKWDGQQFRWVS 568
Query: 143 IESYYQESGRAGRDNLPSVCIVL 165
Y Q SGRAGR L IV+
Sbjct: 569 GGEYIQMSGRAGRRGLDDRGIVI 591
>pdb|1T5L|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
pdb|1T5L|B Chain B, Crystal Structure Of The Dna Repair Protein Uvrb Point
Mutant Y96a Revealing A Novel Fold For Domain 2
Length = 658
Score = 33.9 bits (76), Expect = 0.074, Method: Compositional matrix adjust.
Identities = 23/111 (20%), Positives = 50/111 (45%), Gaps = 6/111 (5%)
Query: 51 IGQLIKDRFKDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHT 110
IG++ + +++ ++ L+K +++++L + IK Y H+ + +R+ + +
Sbjct: 435 IGEIRERVERNERTLVTTLTKKMAEDLTDYLKE-AGIKVAYLHSEIKTLERIEIIRDLRL 493
Query: 111 GDVQIVCATIAFGMGIDKPDVRFVI-----HNTLSKSIESYYQESGRAGRD 156
G ++ G+D P+V V +S S Q GRA R+
Sbjct: 494 GKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN 544
>pdb|2FDC|A Chain A, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
pdb|2FDC|B Chain B, Structural Basis Of Dna Damage Recognition And Processing
By Uvrb: Crystal Structure Of A UvrbDNA COMPLEX
Length = 658
Score = 33.9 bits (76), Expect = 0.075, Method: Compositional matrix adjust.
Identities = 23/111 (20%), Positives = 50/111 (45%), Gaps = 6/111 (5%)
Query: 51 IGQLIKDRFKDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHT 110
IG++ + +++ ++ L+K +++++L + IK Y H+ + +R+ + +
Sbjct: 435 IGEIRERVERNERTLVTTLTKKMAEDLTDYLKE-AGIKVAYLHSEIKTLERIEIIRDLRL 493
Query: 111 GDVQIVCATIAFGMGIDKPDVRFVI-----HNTLSKSIESYYQESGRAGRD 156
G ++ G+D P+V V +S S Q GRA R+
Sbjct: 494 GKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN 544
>pdb|1D9X|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb
Length = 658
Score = 33.9 bits (76), Expect = 0.079, Method: Compositional matrix adjust.
Identities = 23/111 (20%), Positives = 50/111 (45%), Gaps = 6/111 (5%)
Query: 51 IGQLIKDRFKDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHT 110
IG++ + +++ ++ L+K +++++L + IK Y H+ + +R+ + +
Sbjct: 435 IGEIRERVERNERTLVTTLTKKMAEDLTDYLKE-AGIKVAYLHSEIKTLERIEIIRDLRL 493
Query: 111 GDVQIVCATIAFGMGIDKPDVRFVI-----HNTLSKSIESYYQESGRAGRD 156
G ++ G+D P+V V +S S Q GRA R+
Sbjct: 494 GKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN 544
>pdb|1D9Z|A Chain A, Crystal Structure Of The Dna Repair Protein Uvrb In
Complex With Atp
Length = 657
Score = 33.9 bits (76), Expect = 0.081, Method: Compositional matrix adjust.
Identities = 23/111 (20%), Positives = 50/111 (45%), Gaps = 6/111 (5%)
Query: 51 IGQLIKDRFKDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHT 110
IG++ + +++ ++ L+K +++++L + IK Y H+ + +R+ + +
Sbjct: 434 IGEIRERVERNERTLVTTLTKKMAEDLTDYLKE-AGIKVAYLHSEIKTLERIEIIRDLRL 492
Query: 111 GDVQIVCATIAFGMGIDKPDVRFVI-----HNTLSKSIESYYQESGRAGRD 156
G ++ G+D P+V V +S S Q GRA R+
Sbjct: 493 GKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN 543
>pdb|3UWX|B Chain B, Crystal Structure Of Uvra-Uvrb Complex
Length = 683
Score = 33.9 bits (76), Expect = 0.084, Method: Compositional matrix adjust.
Identities = 23/111 (20%), Positives = 50/111 (45%), Gaps = 6/111 (5%)
Query: 51 IGQLIKDRFKDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHT 110
IG++ + +++ ++ L+K +++++L + IK Y H+ + +R+ + +
Sbjct: 460 IGEIHERVERNERTLVTTLTKKMAEDLTDYLKE-AGIKVAYLHSEIKTLERIEIIRDLRL 518
Query: 111 GDVQIVCATIAFGMGIDKPDVRFVI-----HNTLSKSIESYYQESGRAGRD 156
G ++ G+D P+V V +S S Q GRA R+
Sbjct: 519 GKYDVLVGINLLREGLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN 569
>pdb|1GM5|A Chain A, Structure Of Recg Bound To Three-Way Dna Junction
Length = 780
Score = 33.9 bits (76), Expect = 0.087, Method: Compositional matrix adjust.
Identities = 32/137 (23%), Positives = 56/137 (40%), Gaps = 13/137 (9%)
Query: 62 QCGIIYCLSKNE-------CVEVSNFLNQKC--KIKTVYYHAGLAARQRVVVQKKWHTGD 112
Q I+Y L + VE+ +L+++ + K H L+ ++ V ++ G
Sbjct: 580 QAFIVYPLIEESDKLNVKSAVEMYEYLSKEVFPEFKLGLMHGRLSQEEKDRVMLEFAEGR 639
Query: 113 VQIVCATIAFGMGIDKPDVR-FVIHNTLSKSIESYYQESGRAGRDNLPSVCIVL---YQK 168
I+ +T +GID P VI N + +Q GR GR + C ++ +
Sbjct: 640 YDILVSTTVIEVGIDVPRANVMVIENPERFGLAQLHQLRGRVGRGGQEAYCFLVVGDVGE 699
Query: 169 KDFSRVVCMLRNGQGFK 185
+ R+ N GFK
Sbjct: 700 EAMERLRFFTLNTDGFK 716
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 32.7 bits (73), Expect = 0.17, Method: Compositional matrix adjust.
Identities = 26/115 (22%), Positives = 52/115 (45%), Gaps = 10/115 (8%)
Query: 47 ALKQIGQLIKDRFKDQCGIIYCLSKNECVEVSNFL-----NQ-KCKIKTVYYHAGLAARQ 100
A++ I + IK+R + II+ V+ ++FL N+ K + + +H + +
Sbjct: 274 AVEHIKKQIKERDSNYKAIIFA----PTVKFTSFLCSILKNEFKKDLPILEFHGKITQNK 329
Query: 101 RVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGR 155
R + K++ + I+ T G+D P+V V+ + + +Y GR R
Sbjct: 330 RTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 384
>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 = 32.7 bits (73), Expect = 0.18, Method: Compositional matrix adjust.
Identities = 26/115 (22%), Positives = 52/115 (45%), Gaps = 10/115 (8%)
Query: 47 ALKQIGQLIKDRFKDQCGIIYCLSKNECVEVSNFL-----NQ-KCKIKTVYYHAGLAARQ 100
A++ I + IK+R + II+ V+ ++FL N+ K + + +H + +
Sbjct: 325 AVEHIKKQIKERDSNYKAIIFA----PTVKFTSFLCSILKNEFKKDLPILEFHGKITQNK 380
Query: 101 RVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGR 155
R + K++ + I+ T G+D P+V V+ + + +Y GR R
Sbjct: 381 RTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 435
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 26/115 (22%), Positives = 52/115 (45%), Gaps = 10/115 (8%)
Query: 47 ALKQIGQLIKDRFKDQCGIIYCLSKNECVEVSNFL-----NQ-KCKIKTVYYHAGLAARQ 100
A++ I + IK+R + II+ V+ ++FL N+ K + + +H + +
Sbjct: 274 AVEHIKKQIKERDSNYKAIIFA----PTVKFTSFLCSILKNEFKKDLPILEFHGKITQNK 329
Query: 101 RVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGR 155
R + K++ + I+ T G+D P+V V+ + + +Y GR R
Sbjct: 330 RTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 384
>pdb|2WAX|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAX|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|A Chain A, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
pdb|2WAY|C Chain C, Structure Of The Human Ddx6 C-Terminal Domain In Complex
With An Edc3-Fdf Peptide
Length = 193
Score = 32.7 bits (73), Expect = 0.19, Method: Compositional matrix adjust.
Identities = 21/65 (32%), Positives = 28/65 (43%)
Query: 91 YYHAGLAARQRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQES 150
Y HA + R V + G + + T F GID V VI+ K E+Y
Sbjct: 73 YIHAKMRQEHRNRVFHDFRNGLCRNLVCTDLFTRGIDIQAVNVVINFDFPKLAETYLHRI 132
Query: 151 GRAGR 155
GR+GR
Sbjct: 133 GRSGR 137
>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 = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 26/115 (22%), Positives = 52/115 (45%), Gaps = 10/115 (8%)
Query: 47 ALKQIGQLIKDRFKDQCGIIYCLSKNECVEVSNFL-----NQ-KCKIKTVYYHAGLAARQ 100
A++ I + IK+R + II+ V+ ++FL N+ K + + +H + +
Sbjct: 19 AVEHIKKQIKERDSNYKAIIFA----PTVKFTSFLCSILKNEFKKDLPILEFHGKITQNK 74
Query: 101 RVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGR 155
R + K++ + I+ T G+D P+V V+ + + +Y GR R
Sbjct: 75 RTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 129
>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 = 32.3 bits (72), Expect = 0.25, Method: Compositional matrix adjust.
Identities = 26/115 (22%), Positives = 52/115 (45%), Gaps = 10/115 (8%)
Query: 47 ALKQIGQLIKDRFKDQCGIIYCLSKNECVEVSNFL-----NQ-KCKIKTVYYHAGLAARQ 100
A++ I + IK+R + II+ V+ ++FL N+ K + + +H + +
Sbjct: 19 AVEHIKKQIKERDSNYKAIIFA----PTVKFTSFLCSILKNEFKKDLPILEFHGKITQNK 74
Query: 101 RVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGR 155
R + K++ + I+ T G+D P+V V+ + + +Y GR R
Sbjct: 75 RTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 129
>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 = 32.3 bits (72), Expect = 0.27, Method: Compositional matrix adjust.
Identities = 26/115 (22%), Positives = 52/115 (45%), Gaps = 10/115 (8%)
Query: 47 ALKQIGQLIKDRFKDQCGIIYCLSKNECVEVSNFL-----NQ-KCKIKTVYYHAGLAARQ 100
A++ I + IK+R + II+ V+ ++FL N+ K + + +H + +
Sbjct: 19 AVEHIKKQIKERDSNYKAIIFA----PTVKFTSFLCSILKNEFKKDLPILEFHGKITQNK 74
Query: 101 RVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGR 155
R + K++ + I+ T G+D P+V V+ + + +Y GR R
Sbjct: 75 RTSLVKRFKKDESGILVCTDVGARGMDFPNVHEVLQIGVPSELANYIHRIGRTAR 129
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 37/162 (22%), Positives = 64/162 (39%), Gaps = 30/162 (18%)
Query: 91 YYHAGLAARQRVVVQKKWHTGDVQIVCA--TIAFGMGIDKPDVRFV--------IHNTLS 140
Y H GL+ +R +V++ + +G +Q+V A ++ +GM + V + IH +
Sbjct: 1218 YLHEGLSPMERRLVEQLFSSGAIQVVVASRSLCWGMNVAAHLVIIMDTQYYNGKIHAYVD 1277
Query: 141 KSIESYYQESGRAGRDNLPSVCIVLYQKKDFSRVVCMLRNGQGFKSEAFKTAMAQAKKMQ 200
I Q G A R + D R V M QG K + FK + + ++
Sbjct: 1278 YPIYDVLQMVGHANRP----------LQDDEGRCVIMC---QGSKKDFFKKFLYEPLPVE 1324
Query: 201 QYCEQKAECRRQTLLEHFGESFDRKACKNGSNPCDNCLKTSL 242
+ + C + +HF K +N + D T L
Sbjct: 1325 SHLDH---C----MHDHFNAEIVTKTIENKQDAVDYLTWTFL 1359
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 92 YHAGLAARQRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESG 151
+HAG+ R +V+ + +Q++ +T G++ P H + K + Y E G
Sbjct: 384 HHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLP-----AHTVIIKGTQVYSPEKG 438
Query: 152 R 152
R
Sbjct: 439 R 439
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 32.0 bits (71), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 37/162 (22%), Positives = 64/162 (39%), Gaps = 30/162 (18%)
Query: 91 YYHAGLAARQRVVVQKKWHTGDVQIVCA--TIAFGMGIDKPDVRFV--------IHNTLS 140
Y H GL+ +R +V++ + +G +Q+V A ++ +GM + V + IH +
Sbjct: 1218 YLHEGLSPMERRLVEQLFSSGAIQVVVASRSLCWGMNVAAHLVIIMDTQYYNGKIHAYVD 1277
Query: 141 KSIESYYQESGRAGRDNLPSVCIVLYQKKDFSRVVCMLRNGQGFKSEAFKTAMAQAKKMQ 200
I Q G A R + D R V M QG K + FK + + ++
Sbjct: 1278 YPIYDVLQMVGHANRP----------LQDDEGRCVIMC---QGSKKDFFKKFLYEPLPVE 1324
Query: 201 QYCEQKAECRRQTLLEHFGESFDRKACKNGSNPCDNCLKTSL 242
+ + C + +HF K +N + D T L
Sbjct: 1325 SHLDH---C----MHDHFNAEIVTKTIENKQDAVDYLTWTFL 1359
Score = 32.0 bits (71), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 15/61 (24%), Positives = 28/61 (45%), Gaps = 5/61 (8%)
Query: 92 YHAGLAARQRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESG 151
+HAG+ R +V+ + +Q++ +T G++ P H + K + Y E G
Sbjct: 384 HHAGMTRVDRTLVEDLFADKHIQVLVSTATLAWGVNLP-----AHTVIIKGTQVYSPEKG 438
Query: 152 R 152
R
Sbjct: 439 R 439
>pdb|2Q8Q|A Chain A, Crystal Structure Of S. Aureus Isde Complexed With Heme
Length = 260
Score = 32.0 bits (71), Expect = 0.35, Method: Compositional matrix adjust.
Identities = 17/55 (30%), Positives = 30/55 (54%)
Query: 110 TGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIV 164
+G+ +IV T+A M +DK D+ V T K++ + Y++ G+ P+V V
Sbjct: 2 SGEFRIVPTTVALTMTLDKLDLPIVGKPTSYKTLPNRYKDVPEIGQPMEPNVEAV 56
>pdb|3G9D|A Chain A, Crystal Structure Glycohydrolase
pdb|3G9D|B Chain B, Crystal Structure Glycohydrolase
pdb|3O5T|A Chain A, Structure Of Drag-Glnz Complex With Adp
Length = 297
Score = 31.2 bits (69), Expect = 0.48, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 132 RFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKDFSR 173
RF++H TLS+ Y+ +G A R NLP L F R
Sbjct: 108 RFIMHGTLSEPESEYHAGNGAAMR-NLPVALATLGDDAAFER 148
>pdb|3V4R|A Chain A, Crystal Structure Of A Uvrb Dimer-Dna Complex
pdb|3V4R|B Chain B, Crystal Structure Of A Uvrb Dimer-Dna Complex
Length = 667
Score = 30.8 bits (68), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 21/97 (21%), Positives = 42/97 (43%), Gaps = 6/97 (6%)
Query: 65 IIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIAFGM 124
++ L+K +++++L + IK Y H+ + +R+ + + G ++
Sbjct: 455 LVTTLTKKMSEDLTDYLKE-IGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 513
Query: 125 GIDKPDVRFVI-----HNTLSKSIESYYQESGRAGRD 156
G+D P+V V +S S Q GRA R+
Sbjct: 514 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN 550
>pdb|2D7D|A Chain A, Structural Insights Into The Cryptic Dna Dependent Atp-Ase
Activity Of Uvrb
pdb|2NMV|A Chain A, Damage Detection By The Uvrabc Pathway: Crystal Structure
Of Uvrb Bound To Fluorescein-Adducted Dna
Length = 661
Score = 30.8 bits (68), Expect = 0.68, Method: Compositional matrix adjust.
Identities = 21/97 (21%), Positives = 42/97 (43%), Gaps = 6/97 (6%)
Query: 65 IIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAARQRVVVQKKWHTGDVQIVCATIAFGM 124
++ L+K +++++L + IK Y H+ + +R+ + + G ++
Sbjct: 449 LVTTLTKKMSEDLTDYLKE-IGIKVNYLHSEIKTLERIEIIRDLRLGKYDVLVGINLLRE 507
Query: 125 GIDKPDVRFVI-----HNTLSKSIESYYQESGRAGRD 156
G+D P+V V +S S Q GRA R+
Sbjct: 508 GLDIPEVSLVAILDADKEGFLRSERSLIQTIGRAARN 544
>pdb|3EIQ|A Chain A, Crystal Structure Of Pdcd4-eif4a
pdb|3EIQ|D Chain D, Crystal Structure Of Pdcd4-eif4a
Length = 414
Score = 30.4 bits (67), Expect = 0.95, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 38/78 (48%)
Query: 93 HAGLAARQRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGR 152
H + ++R V+ +++ +G +++ T GID V VI+ L + E+Y GR
Sbjct: 311 HGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGR 370
Query: 153 AGRDNLPSVCIVLYQKKD 170
GR V I + ++D
Sbjct: 371 GGRFGRKGVAINMVTEED 388
>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 = 30.4 bits (67), Expect = 1.0, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 38/78 (48%)
Query: 93 HAGLAARQRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGR 152
H + ++R V+ +++ +G +++ T GID V VI+ L + E+Y GR
Sbjct: 285 HGDMDQKERDVIMREFRSGSSRVLITTDLLARGIDVQQVSLVINYDLPTNRENYIHRIGR 344
Query: 153 AGRDNLPSVCIVLYQKKD 170
GR V I + ++D
Sbjct: 345 GGRFGRKGVAINMVTEED 362
>pdb|2Q8P|A Chain A, Crystal Structure Of Selenomethionine Labelled S. Aureus
Isde Complexed With Heme
Length = 260
Score = 29.6 bits (65), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 16/55 (29%), Positives = 29/55 (52%)
Query: 110 TGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIV 164
+G+ +IV T+A +DK D+ V T K++ + Y++ G+ P+V V
Sbjct: 2 SGEFRIVPTTVALTXTLDKLDLPIVGKPTSYKTLPNRYKDVPEIGQPXEPNVEAV 56
>pdb|2FZL|A Chain A, Structure Of C-Terminal Domain Of Archaeoglobus Fulgidus
Xpb
Length = 219
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 30/128 (23%), Positives = 54/128 (42%), Gaps = 15/128 (11%)
Query: 44 SKEALKQIGQLIKDRFKDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAAR---- 99
SK ++++ ++++ KD+ II NE V +I V+ + R
Sbjct: 98 SKNKIRKLREILERHRKDK--IIIFTRHNELV---------YRISKVFLIPAITHRTSRE 146
Query: 100 QRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLP 159
+R + + + TG + + ++ GID PD + + S S Y Q GR R +
Sbjct: 147 EREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSKG 206
Query: 160 SVCIVLYQ 167
VLY+
Sbjct: 207 KKEAVLYE 214
>pdb|1PU6|A Chain A, Crystal Structure Of H.Pylori 3-Methyladenine Dna
Glycosylase (Magiii)
pdb|1PU6|B Chain B, Crystal Structure Of H.Pylori 3-Methyladenine Dna
Glycosylase (Magiii)
pdb|1PU7|A Chain A, Crystal Structure Of H.pylori 3-methyladenine Dna
Glycosylase (magiii) Bound To 3,9-dimethyladenine
pdb|1PU7|B Chain B, Crystal Structure Of H.pylori 3-methyladenine Dna
Glycosylase (magiii) Bound To 3,9-dimethyladenine
pdb|1PU8|A Chain A, Crystal Structure Of H.Pylori 3-Methyladenine Dna
Glycosylase (Magiii) Bound To 1,N6-Ethenoadenine
pdb|1PU8|B Chain B, Crystal Structure Of H.Pylori 3-Methyladenine Dna
Glycosylase (Magiii) Bound To 1,N6-Ethenoadenine
Length = 218
Score = 29.3 bits (64), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 32/82 (39%), Positives = 37/82 (45%), Gaps = 8/82 (9%)
Query: 13 LDILK---ALRIPHALVLETSFD---RPNLKYEVIGKSKEALKQIGQLIKDRFKDQCGII 66
LD+LK A P+AL E N K+E + KS E LK L D + I
Sbjct: 14 LDLLKNAPAWWWPNALKFEALLGAVLTQNTKFEAVLKSLENLKNAFILENDDEINLKKIA 73
Query: 67 YC-LSK-NECVEVSNFLNQKCK 86
Y SK ECV S F NQK K
Sbjct: 74 YIEFSKLAECVRPSGFYNQKAK 95
>pdb|2FWR|A Chain A, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|B Chain B, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|C Chain C, Structure Of Archaeoglobus Fulgidis Xpb
pdb|2FWR|D Chain D, Structure Of Archaeoglobus Fulgidis Xpb
Length = 472
Score = 28.9 bits (63), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 30/128 (23%), Positives = 54/128 (42%), Gaps = 15/128 (11%)
Query: 44 SKEALKQIGQLIKDRFKDQCGIIYCLSKNECVEVSNFLNQKCKIKTVYYHAGLAAR---- 99
SK ++++ ++++ KD+ II NE V +I V+ + R
Sbjct: 333 SKNKIRKLREILERHRKDK--IIIFTRHNELV---------YRISKVFLIPAITHRTSRE 381
Query: 100 QRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLP 159
+R + + + TG + + ++ GID PD + + S S Y Q GR R +
Sbjct: 382 EREEILEGFRTGRFRAIVSSQVLDEGIDVPDANVGVIMSGSGSAREYIQRLGRILRPSKG 441
Query: 160 SVCIVLYQ 167
VLY+
Sbjct: 442 KKEAVLYE 449
>pdb|3R9W|A Chain A, Crystal Structure Of Era In Complex With Mggdpnp And
Nucleotides 1506- 1542 Of 16s Ribosomal Rna
pdb|3R9X|A Chain A, Crystal Structure Of Era In Complex With Mggdpnp,
Nucleotides 1506- 1542 Of 16s Ribosomal Rna, And Ksga
Length = 307
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%), Gaps = 2/34 (5%)
Query: 22 PHALVL--ETSFDRPNLKYEVIGKSKEALKQIGQ 53
P+ LV+ E DR NLK +IGK + LK+IG+
Sbjct: 234 PNMLVIKGEIIVDRENLKPIIIGKKGQRLKEIGK 267
>pdb|3IEV|A Chain A, Crystal Structure Of Era In Complex With Mggnp And The 3'
End Of 16s Rrna
Length = 308
Score = 28.9 bits (63), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 16/34 (47%), Positives = 22/34 (64%), Gaps = 2/34 (5%)
Query: 22 PHALVL--ETSFDRPNLKYEVIGKSKEALKQIGQ 53
P+ LV+ E DR NLK +IGK + LK+IG+
Sbjct: 235 PNMLVIKGEIIVDRENLKPIIIGKKGQRLKEIGK 268
>pdb|3T8S|A Chain A, Apo And Insp3-Bound Crystal Structures Of The
Ligand-Binding Domain Of An Insp3 Receptor
pdb|3T8S|B Chain B, Apo And Insp3-Bound Crystal Structures Of The
Ligand-Binding Domain Of An Insp3 Receptor
Length = 585
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 26 VLETSFDRPNLKYEVIGKSKEALKQIGQLIKDRFKDQCG 64
VLE F +PN + + + + + LKQI +L++ F D CG
Sbjct: 477 VLEVVFSKPNRERQKLMREQNILKQIFKLLQAPFTD-CG 514
>pdb|1N4K|A Chain A, Crystal Structure Of The Inositol 1,4,5-Trisphosphate
Receptor Binding Core In Complex With Ip3
Length = 381
Score = 28.5 bits (62), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 24/39 (61%), Gaps = 1/39 (2%)
Query: 26 VLETSFDRPNLKYEVIGKSKEALKQIGQLIKDRFKDQCG 64
VLE F +PN + + + + + LKQI +L++ F D CG
Sbjct: 271 VLEVVFSKPNRERQKLMREQNILKQIFKLLQAPFTD-CG 308
>pdb|1QB4|A Chain A, Crystal Structure Of Mn(2+)-Bound Phosphoenolpyruvate
Carboxylase
pdb|1JQN|A Chain A, Crystal Structure Of E.Coli Phosphoenolpyruvate
Carboxylase In Complex With Mn2+ And Dcdp
pdb|1FIY|A Chain A, Three-Dimensional Structure Of Phosphoenolpyruvate
Carboxylase From Escherichia Coli At 2.8 A Resolution
Length = 883
Score = 27.7 bits (60), Expect = 6.0, Method: Composition-based stats.
Identities = 17/69 (24%), Positives = 34/69 (49%), Gaps = 6/69 (8%)
Query: 91 YYHAGLAARQRVVVQKKWHTGDVQIVCATIAFGMGIDKPDVRF-VIHNTLSKSIESYYQE 149
Y H L R R ++ + WHT +++ + + +D+ F V+ N+L + + +Y +E
Sbjct: 169 YEHNQLMRRLRQLIAQSWHTDEIRKLRPS-----PVDEAKWGFAVVENSLWQGVPNYLRE 223
Query: 150 SGRAGRDNL 158
+NL
Sbjct: 224 LNEQLEENL 232
>pdb|3UJ0|A Chain A, Crystal Structure Of The Inositol 1,4,5-Trisphosphate
Receptor With Ligand Bound Form.
pdb|3UJ0|B Chain B, Crystal Structure Of The Inositol 1,4,5-Trisphosphate
Receptor With Ligand Bound Form.
pdb|3UJ4|A Chain A, Crystal Structure Of The Apo-Inositol 1,4,5-Trisphosphate
Receptor
pdb|3UJ4|B Chain B, Crystal Structure Of The Apo-Inositol 1,4,5-Trisphosphate
Receptor
Length = 604
Score = 27.3 bits (59), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 13/36 (36%), Positives = 22/36 (61%)
Query: 26 VLETSFDRPNLKYEVIGKSKEALKQIGQLIKDRFKD 61
VLE F +PN + + + + + LKQI +L++ F D
Sbjct: 494 VLEVVFSKPNRERQKLMREQNILKQIFKLLQAPFTD 529
>pdb|4GL2|A Chain A, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
pdb|4GL2|B Chain B, Structural Basis For Dsrna Duplex Backbone Recognition By
Mda5
Length = 699
Score = 27.3 bits (59), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 43/204 (21%), Positives = 79/204 (38%), Gaps = 44/204 (21%)
Query: 64 GIIYCLSKNECVEVSNFLNQKCKIKTV---YYH---AGLAARQRVVVQK-------KWHT 110
GII+ ++ +S ++ + K V +H AG ++ + + Q K+ T
Sbjct: 403 GIIFTKTRQSAYALSQWITENEKFAEVGVKAHHLIGAGHSSEFKPMTQNEQKEVISKFRT 462
Query: 111 GDVQIVCATIAFGMGIDKPDVRFVIHNTLSKSIESYYQESGRAGRDNLPSVCIVLYQKKD 170
G + ++ AT G+D + VI L + + Q GRA + D
Sbjct: 463 GKINLLIATTVAEEGLDIKECNIVIRYGLVTNEIAMVQARGRA--------------RAD 508
Query: 171 FSRVVCMLRNGQG---------FKSEAFKTAM--AQAKKMQQYCEQKAECRRQTLLEHFG 219
S V + +G G F+ + A+ Q K ++Y + E + Q+++E
Sbjct: 509 ESTYVLVAHSGSGVIERETVNDFREKMMYKAIHCVQNMKPEEYAHKILELQMQSIMEKKM 568
Query: 220 ESFDRKACKNGSNP------CDNC 237
++ A +NP C NC
Sbjct: 569 KTKRNIAKHYKNNPSLITFLCKNC 592
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.134 0.400
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 6,710,835
Number of Sequences: 62578
Number of extensions: 255069
Number of successful extensions: 648
Number of sequences better than 100.0: 65
Number of HSP's better than 100.0 without gapping: 48
Number of HSP's successfully gapped in prelim test: 17
Number of HSP's that attempted gapping in prelim test: 589
Number of HSP's gapped (non-prelim): 67
length of query: 242
length of database: 14,973,337
effective HSP length: 96
effective length of query: 146
effective length of database: 8,965,849
effective search space: 1309013954
effective search space used: 1309013954
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (22.0 bits)
S2: 50 (23.9 bits)