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= psy2759
(229 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 = 124 bits (310), Expect = 6e-29, Method: Compositional matrix adjust.
Identities = 77/213 (36%), Positives = 111/213 (52%), Gaps = 1/213 (0%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGTVI 74
++LFATETFAMG+N+P RTV F S RK+DG+ R+L P E+ QMAGRAGRRGLD +GTVI
Sbjct: 427 KVLFATETFAMGLNLPTRTVIFSSIRKHDGNGLRELTPGEFTQMAGRAGRRGLDSTGTVI 486
Query: 75 IMCKEELPGQEALKKMMLGKQTKLVSQFRLTYAMILNLXXXXXXXXXXXXXXXFKEFGSR 134
+M K++ +G T+L SQFRLTY MILNL F E ++
Sbjct: 487 VMAYNSPLSIATFKEVTMGVPTRLQSQFRLTYNMILNLLRIEALRVEEMIKYSFSE-NAK 545
Query: 135 FRMQKNKEDLAQLEAKVRQGGEVRQAQDTDVLFENFFDQAKRFFEIRDSYMSLVEKTAEF 194
+Q E ++ + Q E + + D E F + + E + M + K+
Sbjct: 546 ETLQPEHEKQIKVLQEELQTIEYKSCEICDNDIEKFLELMLAYKEATVNLMQEMVKSPSI 605
Query: 195 KNAIVPGIVLHIWTLEHRDKLGLLLKVDHRRAL 227
+ + G ++ KLG + KV + A+
Sbjct: 606 LHILKEGRLVAFRDPNDCLKLGFVFKVSLKDAV 638
Score = 31.2 bits (69), Expect = 0.45, Method: Compositional matrix adjust.
Identities = 11/20 (55%), Positives = 15/20 (75%)
Query: 2 AHTWPFELDVFQKQILFATE 21
A +WPFELD FQK+ ++ E
Sbjct: 33 ARSWPFELDTFQKEAVYHLE 52
>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 = 110 bits (274), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 77/208 (37%), Positives = 116/208 (55%), Gaps = 7/208 (3%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGTVI 74
++LFATETF++G+NMPA+TV F S RK+DG + R ++ EYIQM+GRAGRRGLD+ G VI
Sbjct: 434 KVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDRGIVI 493
Query: 75 IMCKEELPGQEALKKMMLGKQTKLVSQFRLTYAMILNLXXXXXXXXXXXXXXXFKEFGSR 134
+M E++ Q A K M+ G+ +L S F L Y MILNL F +F +
Sbjct: 494 MMIDEKMEPQVA-KGMVKGQADRLDSAFHLGYNMILNLMRVEGISPEFMLEHSFFQFQNV 552
Query: 135 FRMQKNKEDLAQLEAKVRQGGEVRQAQDTDVLFENFFDQAKRFFEIRDSYMSLVEKTAEF 194
+ ++ LA+L+ K G EV ++ E +QA + + R+ +V A
Sbjct: 553 ISVPVMEKKLAELK-KDFDGIEVEDEENVKEYHE--IEQAIKGY--REDVRQVVTHPANA 607
Query: 195 KNAIVPGIVLHIWTLEHRDKLGLLLKVD 222
+ + PG ++ I ++ +D G VD
Sbjct: 608 LSFLQPGRLVEI-SVNGKDNYGWGAVVD 634
>pdb|3L9O|A Chain A, Crystal Structure Of Mtr4, A Co-Factor Of The Nuclear
Exosome
Length = 1108
Score = 110 bits (274), Expect = 9e-25, Method: Compositional matrix adjust.
Identities = 77/208 (37%), Positives = 116/208 (55%), Gaps = 7/208 (3%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGTVI 74
++LFATETF++G+NMPA+TV F S RK+DG + R ++ EYIQM+GRAGRRGLD+ G VI
Sbjct: 532 KVLFATETFSIGLNMPAKTVVFTSVRKWDGQQFRWVSGGEYIQMSGRAGRRGLDDRGIVI 591
Query: 75 IMCKEELPGQEALKKMMLGKQTKLVSQFRLTYAMILNLXXXXXXXXXXXXXXXFKEFGSR 134
+M E++ Q A K M+ G+ +L S F L Y MILNL F +F +
Sbjct: 592 MMIDEKMEPQVA-KGMVKGQADRLDSAFHLGYNMILNLMRVEGISPEFMLEHSFFQFQNV 650
Query: 135 FRMQKNKEDLAQLEAKVRQGGEVRQAQDTDVLFENFFDQAKRFFEIRDSYMSLVEKTAEF 194
+ ++ LA+L+ K G EV ++ E +QA + + R+ +V A
Sbjct: 651 ISVPVMEKKLAELK-KDFDGIEVEDEENVKEYHE--IEQAIKGY--REDVRQVVTHPANA 705
Query: 195 KNAIVPGIVLHIWTLEHRDKLGLLLKVD 222
+ + PG ++ I ++ +D G VD
Sbjct: 706 LSFLQPGRLVEI-SVNGKDNYGWGAVVD 732
>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 = 65.1 bits (157), Expect = 3e-11, Method: Composition-based stats.
Identities = 37/96 (38%), Positives = 59/96 (61%), Gaps = 5/96 (5%)
Query: 10 DVFQK---QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRG 66
D F++ +++ AT T A GVN+PAR V S ++DG +R + +EY QMAGRAGR G
Sbjct: 316 DAFRRGNIKVVVATPTLAAGVNLPARRVIVRSLYRFDGYSKR-IKVSEYKQMAGRAGRPG 374
Query: 67 LDESGTVIIMCKEELPGQEALKKMMLGKQTKLVSQF 102
+DE G II+ + + A+K+ + G+ ++ S+
Sbjct: 375 MDERGEAIIIVGKR-DREIAVKRYIFGEPERITSKL 409
>pdb|2VA8|A Chain A, Dna Repair Helicase Hel308
pdb|2VA8|B Chain B, Dna Repair Helicase Hel308
Length = 715
Score = 54.3 bits (129), Expect = 6e-08, Method: Compositional matrix adjust.
Identities = 34/105 (32%), Positives = 56/105 (53%), Gaps = 8/105 (7%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYD---GSERRDLNPAEYIQMAGRAGRRGLDESG 71
+++ AT T A GVN+PARTV +++ ++ EY QM+GRAGR G D+ G
Sbjct: 340 KVIVATPTLAAGVNLPARTVIIGDIYRFNKKIAGYYDEIPIMEYKQMSGRAGRPGFDQIG 399
Query: 72 TVIIMCKEELPGQEALKKMMLGK----QTKLVSQFRLTYAMILNL 112
I++ +++ KK +L ++KL S+ R Y +L +
Sbjct: 400 ESIVVVRDKEDVDRVFKKYVLSDVEPIESKLGSE-RAFYTFLLGI 443
>pdb|4F91|B Chain B, Brr2 Helicase Region
Length = 1724
Score = 51.2 bits (121), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 48/91 (52%), Gaps = 3/91 (3%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSERR--DLNPAEYIQMAGRAGRRGLDESGT 72
Q+L +T T A GVN+PA TV T+ Y + R +L + +QM GRAGR D G
Sbjct: 406 QVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQYDTKGE 465
Query: 73 -VIIMCKEELPGQEALKKMMLGKQTKLVSQF 102
++I EL +L L ++++VS+
Sbjct: 466 GILITSHGELQYYLSLLNQQLPIESQMVSKL 496
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEY--IQMAGRAGRRGLDESGT 72
Q++ A+ + G+N+ A V T+ Y+G ++ Y +QM G A R D+ G
Sbjct: 1241 QVVVASRSLCWGMNVAAHLVIIMDTQYYNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGR 1300
Query: 73 VIIMCK 78
+IMC+
Sbjct: 1301 CVIMCQ 1306
>pdb|4F92|B Chain B, Brr2 Helicase Region S1087l
pdb|4F93|B Chain B, Brr2 Helicase Region S1087l, Mg-Atp
Length = 1724
Score = 51.2 bits (121), Expect = 5e-07, Method: Compositional matrix adjust.
Identities = 32/91 (35%), Positives = 48/91 (52%), Gaps = 3/91 (3%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSERR--DLNPAEYIQMAGRAGRRGLDESGT 72
Q+L +T T A GVN+PA TV T+ Y + R +L + +QM GRAGR D G
Sbjct: 406 QVLVSTATLAWGVNLPAHTVIIKGTQVYSPEKGRWTELGALDILQMLGRAGRPQYDTKGE 465
Query: 73 -VIIMCKEELPGQEALKKMMLGKQTKLVSQF 102
++I EL +L L ++++VS+
Sbjct: 466 GILITSHGELQYYLSLLNQQLPIESQMVSKL 496
Score = 39.7 bits (91), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 20/66 (30%), Positives = 34/66 (51%), Gaps = 2/66 (3%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEY--IQMAGRAGRRGLDESGT 72
Q++ A+ + G+N+ A V T+ Y+G ++ Y +QM G A R D+ G
Sbjct: 1241 QVVVASRSLCWGMNVAAHLVIIMDTQYYNGKIHAYVDYPIYDVLQMVGHANRPLQDDEGR 1300
Query: 73 VIIMCK 78
+IMC+
Sbjct: 1301 CVIMCQ 1306
>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 = 48.1 bits (113), Expect = 4e-06, Method: Compositional matrix adjust.
Identities = 38/96 (39%), Positives = 49/96 (51%), Gaps = 8/96 (8%)
Query: 12 FQKQIL---FATETFAMGVNMPA-RTVAFDSTRKYD-GSERRDLNPAEYIQMAGRAGRRG 66
F+K I+ AT T + G+N PA R + D R D G ER + E QM GRAGR
Sbjct: 316 FRKGIIKAVVATPTLSAGINTPAFRVIIRDIWRYSDFGMERIPI--IEVHQMLGRAGRPK 373
Query: 67 LDESGTVIIMCKEELPGQEALKKMMLGKQTKLVSQF 102
DE G II+ + P +E + + GK KL SQ
Sbjct: 374 YDEVGEGIIVSTSDDP-REVMNHYIFGKPEKLFSQL 408
>pdb|3RC8|A Chain A, Human Mitochondrial Helicase Suv3 In Complex With Short
Rna Fragment
Length = 677
Score = 37.7 bits (86), Expect = 0.005, Method: Compositional matrix adjust.
Identities = 27/73 (36%), Positives = 41/73 (56%), Gaps = 6/73 (8%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSER--RDLNP---AEYIQMAGRAGR-RGLD 68
+IL AT+ MG+N+ R + F S K +E+ R+L P ++ +Q+AGRAGR
Sbjct: 374 KILVATDAIGMGLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGRFSSRF 433
Query: 69 ESGTVIIMCKEEL 81
+ G V M E+L
Sbjct: 434 KEGEVTTMNHEDL 446
>pdb|3RC3|A Chain A, Human Mitochondrial Helicase Suv3
Length = 677
Score = 35.4 bits (80), Expect = 0.028, Method: Compositional matrix adjust.
Identities = 21/55 (38%), Positives = 33/55 (60%), Gaps = 5/55 (9%)
Query: 15 QILFATETFAMGVNMPARTVAFDSTRKYDGSER--RDLNP---AEYIQMAGRAGR 64
+IL AT+ G+N+ R + F S K +E+ R+L P ++ +Q+AGRAGR
Sbjct: 374 KILVATDAIGXGLNLSIRRIIFYSLIKPSINEKGERELEPITTSQALQIAGRAGR 428
>pdb|3SQW|A Chain A, Structure Of Mss116p (Nte Deletion) Bound To Ssrna And
Amp-Pnp
Length = 579
Score = 35.0 bits (79), Expect = 0.037, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 53 AEYIQMAGRAGRRGLDESGTVIIMCKEELP---GQEALKKMMLGKQTK 97
A YI GR R G E +V+ +CK+ELP E K +++ KQ K
Sbjct: 373 ANYIHRIGRTARSG-KEGSSVLFICKDELPFVRELEDAKNIVIAKQEK 419
>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 = 34.7 bits (78), Expect = 0.044, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 53 AEYIQMAGRAGRRGLDESGTVIIMCKEELP---GQEALKKMMLGKQTK 97
A YI GR R G E +V+ +CK+ELP E K +++ KQ K
Sbjct: 424 ANYIHRIGRTARSG-KEGSSVLFICKDELPFVRELEDAKNIVIAKQEK 470
>pdb|3SQX|A Chain A, Structure Of Mss116p (Nte And C-Tail Double Deletion)
Bound To Ssrna And Amp-Pnp
Length = 512
Score = 34.3 bits (77), Expect = 0.053, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 53 AEYIQMAGRAGRRGLDESGTVIIMCKEELP---GQEALKKMMLGKQTK 97
A YI GR R G E +V+ +CK+ELP E K +++ KQ K
Sbjct: 373 ANYIHRIGRTARSG-KEGSSVLFICKDELPFVRELEDAKNIVIAKQEK 419
>pdb|1OYY|A Chain A, Structure Of The Recq Catalytic Core Bound To Atp-Gamma-S
Length = 523
Score = 34.3 bits (77), Expect = 0.058, Method: Compositional matrix adjust.
Identities = 23/55 (41%), Positives = 25/55 (45%), Gaps = 12/55 (21%)
Query: 15 QILFATETFAMGVNMPAR--TVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGL 67
QI+ AT F MG+N P V FD R N Y Q GRAGR GL
Sbjct: 288 QIVVATVAFGMGINKPNVRFVVHFDIPR----------NIESYYQETGRAGRDGL 332
>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 = 34.3 bits (77), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 53 AEYIQMAGRAGRRGLDESGTVIIMCKEELP---GQEALKKMMLGKQTK 97
A YI GR R G E +V+ +CK+ELP E K +++ KQ K
Sbjct: 118 ANYIHRIGRTARSG-KEGSSVLFICKDELPFVRELEDAKNIVIAKQEK 164
>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 = 34.3 bits (77), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 53 AEYIQMAGRAGRRGLDESGTVIIMCKEELP---GQEALKKMMLGKQTK 97
A YI GR R G E +V+ +CK+ELP E K +++ KQ K
Sbjct: 118 ANYIHRIGRTARSG-KEGSSVLFICKDELPFVRELEDAKNIVIAKQEK 164
>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 = 34.3 bits (77), Expect = 0.065, Method: Compositional matrix adjust.
Identities = 19/48 (39%), Positives = 26/48 (54%), Gaps = 4/48 (8%)
Query: 53 AEYIQMAGRAGRRGLDESGTVIIMCKEELP---GQEALKKMMLGKQTK 97
A YI GR R G E +V+ +CK+ELP E K +++ KQ K
Sbjct: 118 ANYIHRIGRTARSG-KEGSSVLFICKDELPFVRELEDAKNIVIAKQEK 164
>pdb|1XTJ|A Chain A, Structure Of Human Uap56 In Complex With Adp
Length = 386
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 8/55 (14%)
Query: 12 FQKQILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRG 66
FQ++IL AT F G+++ +AF+ YD E D Y+ RAGR G
Sbjct: 299 FQRRILVATNLFGRGMDIERVNIAFN----YDMPEDSD----TYLHRVARAGRFG 345
>pdb|1XTI|A Chain A, Structure Of Wildtype Human Uap56
Length = 391
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 8/55 (14%)
Query: 12 FQKQILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRG 66
FQ++IL AT F G+++ +AF+ YD E D Y+ RAGR G
Sbjct: 299 FQRRILVATNLFGRGMDIERVNIAFN----YDMPEDSD----TYLHRVARAGRFG 345
>pdb|1XTK|A Chain A, Structure Of Decd To Dead Mutation Of Human Uap56
Length = 390
Score = 33.1 bits (74), Expect = 0.14, Method: Compositional matrix adjust.
Identities = 20/55 (36%), Positives = 28/55 (50%), Gaps = 8/55 (14%)
Query: 12 FQKQILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRG 66
FQ++IL AT F G+++ +AF+ YD E D Y+ RAGR G
Sbjct: 298 FQRRILVATNLFGRGMDIERVNIAFN----YDMPEDSD----TYLHRVARAGRFG 344
>pdb|1T5I|A Chain A, Crystal Structure Of The C-Terminal Domain Of Uap56
Length = 172
Score = 32.7 bits (73), Expect = 0.15, Method: Compositional matrix adjust.
Identities = 23/69 (33%), Positives = 32/69 (46%), Gaps = 10/69 (14%)
Query: 12 FQKQILFATETFAMGVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESG 71
FQ++IL AT F G+++ +AF+ YD E D Y+ RAGR G G
Sbjct: 80 FQRRILVATNLFGRGMDIERVNIAFN----YDMPEDSD----TYLHRVARAGRFG--TKG 129
Query: 72 TVIIMCKEE 80
I +E
Sbjct: 130 LAITFVSDE 138
>pdb|1OYW|A Chain A, Structure Of The Recq Catalytic Core
Length = 523
Score = 32.0 bits (71), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 22/55 (40%), Positives = 24/55 (43%), Gaps = 12/55 (21%)
Query: 15 QILFATETFAMGVNMPAR--TVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGL 67
QI+ AT F G+N P V FD R N Y Q GRAGR GL
Sbjct: 288 QIVVATVAFGXGINKPNVRFVVHFDIPR----------NIESYYQETGRAGRDGL 332
>pdb|3GFP|A Chain A, Structure Of The C-Terminal Domain Of The Dead-Box Protein
Dbp5
Length = 189
Score = 31.2 bits (69), Expect = 0.55, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 13 QKQILFATETFAMGVNMP--ARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRG 66
+ ++L T A G+++P + V +D +G +PA YI GR GR G
Sbjct: 87 RSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQA----DPATYIHRIGRTGRFG 138
>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 = 30.8 bits (68), Expect = 0.57, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 13 QKQILFATETFAMGVNMP--ARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRG 66
+ ++L T A G+++P + V +D +G +PA YI GR GR G
Sbjct: 86 RSKVLITTNVLARGIDIPTVSXVVNYDLPTLANGQA----DPATYIHRIGRTGRFG 137
>pdb|2KBF|A Chain A, Solution Structure Of Carboxyl-Terminal Domain Of Dbp5p
Length = 187
Score = 30.8 bits (68), Expect = 0.59, Method: Compositional matrix adjust.
Identities = 17/56 (30%), Positives = 27/56 (48%), Gaps = 6/56 (10%)
Query: 13 QKQILFATETFAMGVNMP--ARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRG 66
+ ++L T A G+++P + V +D +G +PA YI GR GR G
Sbjct: 85 RSKVLITTNVLARGIDIPTVSMVVNYDLPTLANGQA----DPATYIHRIGRTGRFG 136
>pdb|3PEY|A Chain A, S. Cerevisiae Dbp5 Bound To Rna And Adp Bef3
Length = 395
Score = 30.8 bits (68), Expect = 0.66, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 6/54 (11%)
Query: 15 QILFATETFAMGVNMP--ARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRG 66
++L T A G+++P + V +D +G +PA YI GR GR G
Sbjct: 295 KVLITTNVLARGIDIPTVSMVVNYDLPTLANGQA----DPATYIHRIGRTGRFG 344
>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 = 30.8 bits (68), Expect = 0.67, Method: Compositional matrix adjust.
Identities = 17/54 (31%), Positives = 26/54 (48%), Gaps = 6/54 (11%)
Query: 15 QILFATETFAMGVNMP--ARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRG 66
++L T A G+++P + V +D +G +PA YI GR GR G
Sbjct: 295 KVLITTNVLARGIDIPTVSMVVNYDLPTLANGQA----DPATYIHRIGRTGRFG 344
>pdb|2WW8|A Chain A, Structure Of The Pilus Adhesin (Rrga) From Streptococcus
Pneumoniae
Length = 893
Score = 30.4 bits (67), Expect = 0.78, Method: Composition-based stats.
Identities = 16/51 (31%), Positives = 23/51 (45%), Gaps = 3/51 (5%)
Query: 132 GSRFRMQKNKEDLAQLEAKVRQGG---EVRQAQDTDVLFENFFDQAKRFFE 179
G+ F +QK D + + Q G VR +D + F+N D R FE
Sbjct: 753 GAVFSLQKQHPDYPDIYGAIDQNGTYQNVRTGEDGKLTFKNLSDGKYRLFE 803
>pdb|3N23|A Chain A, Crystal Structure Of The High Affinity Complex Between
Ouabain And The E2p Form Of The Sodium-Potassium Pump
pdb|3N23|C Chain C, Crystal Structure Of The High Affinity Complex Between
Ouabain And The E2p Form Of The Sodium-Potassium Pump
pdb|3N2F|A Chain A, Crystal Structure Of The Sodium-Potassium Pump
pdb|3N2F|C Chain C, Crystal Structure Of The Sodium-Potassium Pump
Length = 992
Score = 28.1 bits (61), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 3/57 (5%)
Query: 34 VAFDSTRKYDGSERRDLNPAE--YIQMAGRAGRRGLDESGTVIIMCKEELPGQEALK 88
+ F+ST KY S ++ N AE ++ + A R LD +++I KE+ P E LK
Sbjct: 449 IPFNSTNKYQLSIHKNPNTAEPRHLLVMKGAPERILDRCSSILIHGKEQ-PLDEELK 504
>pdb|3B8E|A Chain A, Crystal Structure Of The Sodium-Potassium Pump
pdb|3B8E|C Chain C, Crystal Structure Of The Sodium-Potassium Pump
pdb|3KDP|A Chain A, Crystal Structure Of The Sodium-potassium Pump
pdb|3KDP|C Chain C, Crystal Structure Of The Sodium-potassium Pump
Length = 998
Score = 28.1 bits (61), Expect = 4.2, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 31/57 (54%), Gaps = 3/57 (5%)
Query: 34 VAFDSTRKYDGSERRDLNPAE--YIQMAGRAGRRGLDESGTVIIMCKEELPGQEALK 88
+ F+ST KY S ++ N AE ++ + A R LD +++I KE+ P E LK
Sbjct: 455 IPFNSTNKYQLSIHKNPNTAEPRHLLVMKGAPERILDRCSSILIHGKEQ-PLDEELK 510
>pdb|2GDR|A Chain A, Crystal Structure Of A Bacterial Glutathione Transferase
pdb|2GDR|B Chain B, Crystal Structure Of A Bacterial Glutathione Transferase
pdb|2GDR|C Chain C, Crystal Structure Of A Bacterial Glutathione Transferase
pdb|2GDR|D Chain D, Crystal Structure Of A Bacterial Glutathione Transferase
pdb|2GDR|E Chain E, Crystal Structure Of A Bacterial Glutathione Transferase
pdb|2GDR|F Chain F, Crystal Structure Of A Bacterial Glutathione Transferase
Length = 202
Score = 27.3 bits (59), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 14/60 (23%), Positives = 27/60 (45%)
Query: 26 GVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGTVIIMCKEELPGQE 85
G+N V S + G + ++NPA Y+ R L E ++ +++PG++
Sbjct: 22 GLNFELVQVDLASKKTASGQDYLEVNPAGYVPCLQLDDGRTLTEGPAIVQYVADQVPGKQ 81
>pdb|2DSA|A Chain A, Ternary Complex Of Bphk, A Bacterial Gst
pdb|2DSA|B Chain B, Ternary Complex Of Bphk, A Bacterial Gst
pdb|2DSA|C Chain C, Ternary Complex Of Bphk, A Bacterial Gst
pdb|2DSA|D Chain D, Ternary Complex Of Bphk, A Bacterial Gst
Length = 203
Score = 27.3 bits (59), Expect = 6.8, Method: Compositional matrix adjust.
Identities = 14/60 (23%), Positives = 27/60 (45%)
Query: 26 GVNMPARTVAFDSTRKYDGSERRDLNPAEYIQMAGRAGRRGLDESGTVIIMCKEELPGQE 85
G+N V S + G + ++NPA Y+ R L E ++ +++PG++
Sbjct: 22 GLNFELVQVDLASKKTASGQDYLEVNPAGYVPCLQLDDGRTLTEGPAIVQYVADQVPGKQ 81
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
0.324 0.137 0.396
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,763,571
Number of Sequences: 62578
Number of extensions: 207616
Number of successful extensions: 661
Number of sequences better than 100.0: 32
Number of HSP's better than 100.0 without gapping: 10
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 625
Number of HSP's gapped (non-prelim): 41
length of query: 229
length of database: 14,973,337
effective HSP length: 95
effective length of query: 134
effective length of database: 9,028,427
effective search space: 1209809218
effective search space used: 1209809218
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.5 bits)
S2: 50 (23.9 bits)