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= 004103
(773 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3MWY|W Chain W, Crystal Structure Of The Chromodomain-atpase Portion Of
The Yeast Chd1 Chromatin Remodeler
Length = 800
Score = 433 bits (1113), Expect = e-121, Method: Compositional matrix adjust.
Identities = 239/567 (42%), Positives = 346/567 (61%), Gaps = 51/567 (8%)
Query: 29 VLEWQNLTRSFILPQVTE--------------QPTLLQGGELRAYQLEGLQWMLSLFNNN 74
V +QN S ILPQ + QP ++GGELR +QL G+ WM L++
Sbjct: 196 VKHFQNRENSKILPQYSSNYTSQRPRFEKLSVQPPFIKGGELRDFQLTGINWMAFLWSKG 255
Query: 75 LNGILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAPKAVLPNWINEFSTWAPSIAAV 134
NGILADEMGLGKT+QT+A I++L+ + GPH+IV P + +P W++ F WAP + +
Sbjct: 256 DNGILADEMGLGKTVQTVAFISWLIFARRQNGPHIIVVPLSTMPAWLDTFEKWAPDLNCI 315
Query: 135 VYDGRPDERKAMRE-EFFSE---RGR----FNVLITHYDLIMRDRQYLKKVQWIYMIVDE 186
Y G R +RE EF++ +G+ FNVL+T Y+ I++DR L ++W +M VDE
Sbjct: 316 CYMGNQKSRDTIREYEFYTNPRAKGKKTMKFNVLLTTYEYILKDRAELGSIKWQFMAVDE 375
Query: 187 GHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEEWF 246
HRLKN E +L ++++ +++ R+L+TGTP+QN+++EL +L+NFL+P F + +
Sbjct: 376 AHRLKNAESSLYESLNSFKVANRMLITGTPLQNNIKELAALVNFLMPGRFTIDQEID--- 432
Query: 247 NAPFKDRGQVALTDEEQLLIIRRLHHVIRPFILRRKKDEVEKYLPGKSQVILKCDMSAWQ 306
F+++ DEEQ I LH I+PFILRR K +VEK LP K++ IL+ ++S Q
Sbjct: 433 ---FENQ------DEEQEEYIHDLHRRIQPFILRRLKKDVEKSLPSKTERILRVELSDVQ 483
Query: 307 KVYYQQVTDVGRVGLDTGT-GKSKSLQNLSMQLRKCCNHPYLF----------VGEYNMW 355
YY+ + L G G SL N+ +L+K NHPYLF G+ M
Sbjct: 484 TEYYKNILTKNYSALTAGAKGGHFSLLNIMNELKKASNHPYLFDNAEERVLQKFGDGKMT 543
Query: 356 RKE---EIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLD 412
R+ +I +SGK LLD+LL +L+K GHRVL+FSQM R++DIL YL + F RLD
Sbjct: 544 RENVLRGLIMSSGKMVLLDQLLTRLKKDGHRVLIFSQMVRMLDILGDYLSIKGINFQRLD 603
Query: 413 GSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAE 472
G+ + +R + FN+PDS F+FLLSTRAGGLG+NL TADTV+IFDSDWNPQ D QA
Sbjct: 604 GTVPSAQRRISIDHFNSPDSNDFVFLLSTRAGGLGINLMTADTVVIFDSDWNPQADLQAM 663
Query: 473 DRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAGLFN---TTSTAQDRR 529
RAHRIGQK V V+ LVS ++EE +LERA++KM ++ +I G+ + T +
Sbjct: 664 ARAHRIGQKNHVMVYRLVSKDTVEEEVLERARKKMILEYAIISLGVTDGNKYTKKNEPNA 723
Query: 530 EMLKEIMRRGTSSLGTDVPSEREINRL 556
L I++ G ++ T +++++ L
Sbjct: 724 GELSAILKFGAGNMFTATDNQKKLEDL 750
>pdb|1Z3I|X Chain X, Structure Of The Swi2SNF2 CHROMATIN REMODELING DOMAIN OF
EUKARYOTIC Rad54
Length = 644
Score = 245 bits (626), Expect = 6e-65, Method: Compositional matrix adjust.
Identities = 159/494 (32%), Positives = 259/494 (52%), Gaps = 35/494 (7%)
Query: 56 LRAYQLEGLQWMLSLFN-----NNLNGILADEMGLGKTIQTIALIAYLLENKGVTGPHV- 109
LR +Q EG++++ N+ I+ADEMGLGKT+Q I LI LL+ P +
Sbjct: 56 LRPHQREGVKFLWDCVTGRRIENSYGCIMADEMGLGKTLQCITLIWTLLKQSPDCKPEID 115
Query: 110 ---IVAPKAVLPNWINEFSTW-APSIAAVVYDG-RPDERKAMREEFFSERGR---FNVLI 161
+V+P +++ NW NE W + V DG DE + F S++G +LI
Sbjct: 116 KVIVVSPSSLVRNWYNEVGKWLGGRVQPVAIDGGSKDEIDSKLVNFISQQGMRIPTPILI 175
Query: 162 THYDLIMRDRQYLKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSL 221
Y+ + L K + +I DEGHRLKN + ++ QRR+L++GTPIQN L
Sbjct: 176 ISYETFRLHAEVLHKGKVGLVICDEGHRLKNSDNQTYLALNSMNAQRRVLISGTPIQNDL 235
Query: 222 QELWSLLNFLLPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHH---VIRPFI 278
E +SL++F+ I + + F++ F P +D+++ ++L ++ +
Sbjct: 236 LEYFSLVHFVNSGILGTAQEFKKRFEIPILKGRDADASDKDRAAGEQKLQELISIVNRCL 295
Query: 279 LRRKKDEVEKYLPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSKSLQNLSMQL 338
+RR D + KYLP K + ++ C+++ QK Y+ + TGK S+
Sbjct: 296 IRRTSDILSKYLPVKIEQVVCCNLTPLQKELYKLFLKQAKPVESLQTGKISVSSLSSITS 355
Query: 339 -RKCCNHPYL-----------FVGEYNMWRKEEIIRA-----SGKFELLDRLLPKLRKS- 380
+K CNHP L F G +++ + +A SGK +LD +L R +
Sbjct: 356 LKKLCNHPALIYEKCLTGEEGFDGALDLFPQNYSTKAVEPQLSGKMLVLDYILAMTRTTT 415
Query: 381 GHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLS 440
+V+L S T+ +D+ E + + ++RLDG+ ++R ++++FN P SP F+F+LS
Sbjct: 416 SDKVVLVSNYTQTLDLFEKLCRNRRYLYVRLDGTMSIKKRAKIVERFNNPSSPEFIFMLS 475
Query: 441 TRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVIL 500
++AGG GLNL A+ +++FD DWNP D+QA R R GQKK ++ L+S G+IEE IL
Sbjct: 476 SKAGGCGLNLIGANRLVMFDPDWNPANDEQAMARVWRDGQKKTCYIYRLLSTGTIEEKIL 535
Query: 501 ERAKQKMGIDAKVI 514
+R K + + V+
Sbjct: 536 QRQAHKKALSSCVV 549
>pdb|1Z6A|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE DOMAIN
Length = 500
Score = 226 bits (576), Expect = 4e-59, Method: Compositional matrix adjust.
Identities = 151/471 (32%), Positives = 252/471 (53%), Gaps = 36/471 (7%)
Query: 54 GELRAYQLEGLQWMLSLFNNNLNGILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAP 113
LR YQ++G WM + LAD+MGLGKT+QTIA+ + + +T P +++ P
Sbjct: 36 ANLRPYQIKGFSWMRFMNKLGFGICLADDMGLGKTLQTIAVFSDAKKENELT-PSLVICP 94
Query: 114 KAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMREEFFSERGRFNVLITHYDLIMRDRQY 173
+VL NW E S +AP + V+ ++R ++ E +++++T Y +++RD +
Sbjct: 95 LSVLKNWEEELSKFAPHLRFAVFH---EDRSKIKLE------DYDIILTTYAVLLRDTR- 144
Query: 174 LKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFLLP 233
LK+V+W Y+++DE +KN + + K + + + R+ LTGTPI+N + +LWS++ FL P
Sbjct: 145 LKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIMTFLNP 204
Query: 234 TIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHHVIRPFILRRKKDE--VEKYLP 291
+ S F+ F P K +A EE L +I PFILRR K + + LP
Sbjct: 205 GLLGSYSEFKSKFATPIKKGDNMA--KEE-------LKAIISPFILRRTKYDKAIINDLP 255
Query: 292 GKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSKSLQNLS--MQLRKCCNHPYLFV 349
K + + C+++ Q Y+ + +D+ TG + LS ++L++ +HP L
Sbjct: 256 DKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRKGMILSTLLKLKQIVDHPALLK 315
Query: 350 GEYNMWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILE--IYLKLN-DF 406
G E+ +R SGK ++ + G ++ +F+Q + I+ I +LN +
Sbjct: 316 G------GEQSVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNTEV 369
Query: 407 KFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQ 466
FL G +ER ++ +F S F+ +LS +AGG G+NL +A+ VI FD WNP
Sbjct: 370 PFLY--GELSKKERDDIISKFQNNPSVKFI-VLSVKAGGFGINLTSANRVIHFDRWWNPA 426
Query: 467 MDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAG 517
++ QA DR +RIGQ + V V L+SVG++EE I + K + +I +G
Sbjct: 427 VEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISSG 477
>pdb|1Z63|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
pdb|1Z63|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE CORE IN COMPLEX
With Dsdna
Length = 500
Score = 219 bits (557), Expect = 7e-57, Method: Compositional matrix adjust.
Identities = 153/473 (32%), Positives = 252/473 (53%), Gaps = 40/473 (8%)
Query: 54 GELRAYQLEGLQWMLSLFNNNLN-GI-LADEMGLGKTIQTIALIAYLLENKGVTGPHVIV 111
LR YQ++G W F N L GI LAD+ GLGKT+QTIA+ + + +T P +++
Sbjct: 36 ANLRPYQIKGFSWXR--FXNKLGFGICLADDXGLGKTLQTIAVFSDAKKENELT-PSLVI 92
Query: 112 APKAVLPNWINEFSTWAPSIAAVVYDGRPDERKAMREEFFSERGRFNVLITHYDLIMRDR 171
P +VL NW E S +AP + V+ ++R ++ E +++++T Y +++RD
Sbjct: 93 CPLSVLKNWEEELSKFAPHLRFAVFH---EDRSKIKLE------DYDIILTTYAVLLRDT 143
Query: 172 QYLKKVQWIYMIVDEGHRLKNHECALAKTISGYQIQRRLLLTGTPIQNSLQELWSLLNFL 231
+ LK+V+W Y+++DE +KN + + K + + + R+ LTGTPI+N + +LWS+ FL
Sbjct: 144 R-LKEVEWKYIVIDEAQNIKNPQTKIFKAVKELKSKYRIALTGTPIENKVDDLWSIXTFL 202
Query: 232 LPTIFNSVENFEEWFNAPFKDRGQVALTDEEQLLIIRRLHHVIRPFILRRKKDE--VEKY 289
P + S F+ F P K +G +E L +I PFILRR K + +
Sbjct: 203 NPGLLGSYSEFKSKFATPIK-KGDNXAKEE--------LKAIISPFILRRTKYDKAIIND 253
Query: 290 LPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSKSLQNLS--MQLRKCCNHPYL 347
LP K + + C+++ Q Y+ + +D+ TG + LS ++L++ +HP L
Sbjct: 254 LPDKIETNVYCNLTPEQAAXYKAEVENLFNNIDSVTGIKRKGXILSTLLKLKQIVDHPAL 313
Query: 348 FVGEYNMWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILE--IYLKLN- 404
G E+ +R SGK ++ + G ++ +F+Q I+ I +LN
Sbjct: 314 LKG------GEQSVRRSGKXIRTXEIIEEALDEGDKIAIFTQFVDXGKIIRNIIEKELNT 367
Query: 405 DFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWN 464
+ FL G +ER ++ +F S F+ +LS +AGG G+NL +A+ VI FD WN
Sbjct: 368 EVPFLY--GELSKKERDDIISKFQNNPSVKFI-VLSVKAGGFGINLTSANRVIHFDRWWN 424
Query: 465 PQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAG 517
P ++ QA DR +RIGQ + V V L+SVG++EE I + K + +I +G
Sbjct: 425 PAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISSG 477
>pdb|1Z5Z|A Chain A, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
pdb|1Z5Z|B Chain B, Sulfolobus Solfataricus Swi2SNF2 ATPASE C-Terminal Domain
Length = 271
Score = 98.6 bits (244), Expect = 1e-20, Method: Compositional matrix adjust.
Identities = 72/233 (30%), Positives = 121/233 (51%), Gaps = 14/233 (6%)
Query: 290 LPGKSQVILKCDMSAWQKVYYQQVTDVGRVGLDTGTGKSKSLQNLS--MQLRKCCNHPYL 347
LP K + + C+++ Q Y+ + +D+ TG + LS ++L++ +HP L
Sbjct: 25 LPDKIETNVYCNLTPEQAAMYKAEVENLFNNIDSVTGIKRKGMILSTLLKLKQIVDHPAL 84
Query: 348 FVGEYNMWRKEEIIRASGKFELLDRLLPKLRKSGHRVLLFSQMTRLMDILE--IYLKLN- 404
G E+ +R SGK ++ + G ++ +F+Q + I+ I +LN
Sbjct: 85 LKG------GEQSVRRSGKMIRTMEIIEEALDEGDKIAIFTQFVDMGKIIRNIIEKELNT 138
Query: 405 DFKFLRLDGSTKTEERGTLLKQFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWN 464
+ FL G +ER ++ +F S F+ +LS +AGG G+NL +A+ VI FD WN
Sbjct: 139 EVPFLY--GELSKKERDDIISKFQNNPSVKFI-VLSVKAGGFGINLTSANRVIHFDRWWN 195
Query: 465 PQMDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAG 517
P ++ QA DR +RIGQ + V V L+SVG++EE I + K + +I +G
Sbjct: 196 PAVEDQATDRVYRIGQTRNVIVHKLISVGTLEEKIDQLLAFKRSLFKDIISSG 248
>pdb|3DMQ|A Chain A, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
pdb|3DMQ|B Chain B, Crystal Structure Of Rapa, A Swi2SNF2 PROTEIN THAT
Recycles Rna Polymerase During Transcription
Length = 968
Score = 48.1 bits (113), Expect = 2e-05, Method: Compositional matrix adjust.
Identities = 47/176 (26%), Positives = 82/176 (46%), Gaps = 14/176 (7%)
Query: 78 ILADEMGLGKTIQTIALIAYLLENKGVTGPHVIVAPKAVLPNWINEFSTWAPSIAAVVYD 137
+LADE+GLGKTI+ ++ L + G +I+ P+ + W+ E ++ ++D
Sbjct: 174 LLADEVGLGKTIEAGXILHQQLLS-GAAERVLIIVPETLQHQWLVE-XLRRFNLRFALFD 231
Query: 138 GRPDERKA-MREEFFSERGRFNVLITHYDLIMRDRQ---YLKKVQWIYMIVDEGHRLKNH 193
DER A + + ++ ++I D R +Q +L + +W ++VDE H L
Sbjct: 232 ---DERYAEAQHDAYNPFDTEQLVICSLDFARRSKQRLEHLCEAEWDLLVVDEAHHLVWS 288
Query: 194 ECALAKTISGYQ-----IQRRLLLTGTPIQNSLQELWSLLNFLLPTIFNSVENFEE 244
E A ++ + + LLLT TP Q + ++ L L P F+ F E
Sbjct: 289 EDAPSREYQAIEQLAEHVPGVLLLTATPEQLGXESHFARLRLLDPNRFHDFAQFVE 344
Score = 35.8 bits (81), Expect = 0.091, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 27/51 (52%)
Query: 438 LLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVRVFV 488
LL + G G N Q A + FD +NP + +Q R RIGQ ++++ V
Sbjct: 560 LLCSEIGSEGRNFQFASHXVXFDLPFNPDLLEQRIGRLDRIGQAHDIQIHV 610
>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 = 37.0 bits (84), Expect = 0.040, Method: Composition-based stats.
Identities = 29/108 (26%), Positives = 49/108 (45%), Gaps = 9/108 (8%)
Query: 373 LLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLKQFNAPDS 432
LL L+K+ VL+F++ +D + YL L + + + G EER ++ F
Sbjct: 46 LLECLQKTPPPVLIFAEKKADVDAIHEYLLLKGVEAVAIHGGKDQEERTKAIEAFREGKK 105
Query: 433 PYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQ 480
L++T GL+ VI +D M ++ E+ HRIG+
Sbjct: 106 D---VLVATDVASKGLDFPAIQHVINYD------MPEEIENYVHRIGR 144
>pdb|3HGT|A Chain A, Structural And Functional Studies Of The Yeast Class Ii
Hda1 Hdac Complex
pdb|3HGT|B Chain B, Structural And Functional Studies Of The Yeast Class Ii
Hda1 Hdac Complex
Length = 328
Score = 30.8 bits (68), Expect = 2.9, Method: Compositional matrix adjust.
Identities = 25/95 (26%), Positives = 40/95 (42%), Gaps = 10/95 (10%)
Query: 329 KSLQNLSMQLRKCCNHPYLFVGEYNMWRKEEIIR--------ASGKFELLDRLLPKLRKS 380
+S++ + + HPYL + Y K I R SGKF +L L+ +++
Sbjct: 67 ESMKTMCLNGSLVATHPYLLIDHY--MPKSLITRDVPAHLAENSGKFSVLRDLINLVQEY 124
Query: 381 GHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGST 415
+ + R MD+LE L N R DG +
Sbjct: 125 ETETAIVCRPGRTMDLLEALLLGNKVHIKRYDGHS 159
>pdb|1JCU|A Chain A, Solution Structure Of Mth1692 Protein From
Methanobacterium Thermoautotrophicum
Length = 208
Score = 30.4 bits (67), Expect = 3.6, Method: Composition-based stats.
Identities = 21/93 (22%), Positives = 46/93 (49%), Gaps = 3/93 (3%)
Query: 467 MDQQAEDRAHRIGQKKEVRVFVLVSVGSIEEVILERAKQKMGIDAKVIQAGLFNTTSTAQ 526
+D+ A R R+ + + V + V ++E+ R + G ++++ L +
Sbjct: 44 LDEDAVRRLFRVKGRSPHKP-VSICVSCVDEI--PRFSRPSGDAMELMERILPGPYTVVL 100
Query: 527 DRREMLKEIMRRGTSSLGTDVPSEREINRLAAR 559
+R E++ +++ G+S +G VP + R+AAR
Sbjct: 101 ERNELIPDVITGGSSRVGIRVPDDEICRRIAAR 133
>pdb|3LU0|C Chain C, Molecular Model Of Escherichia Coli Core Rna Polymerase
Length = 1342
Score = 29.6 bits (65), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 47/88 (53%), Gaps = 5/88 (5%)
Query: 495 IEEVILERAKQKMGIDAKVIQAGLFN----TTSTAQDRREMLKEIMRRGTSSLG-TDVPS 549
IEE+ L++AK+ + + ++++AGLF+ E L ++ R LG TD
Sbjct: 948 IEEMQLKQAKKDLSEELQILEAGLFSRIRAVLVAGGVEAEKLDKLPRDRWLELGLTDEEK 1007
Query: 550 EREINRLAARSDEEFWLFEKMDEERRQK 577
+ ++ +LA + DE FEK E +R+K
Sbjct: 1008 QNQLEQLAEQYDELKHEFEKKLEAKRRK 1035
>pdb|3IYD|C Chain C, Three-Dimensional Em Structure Of An Intact
Activator-Dependent Transcription Initiation Complex
pdb|4IGC|C Chain C, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
pdb|4IGC|H Chain H, X-ray Crystal Structure Of Escherichia Coli Sigma70
Holoenzyme
Length = 1342
Score = 29.3 bits (64), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 47/88 (53%), Gaps = 5/88 (5%)
Query: 495 IEEVILERAKQKMGIDAKVIQAGLFN----TTSTAQDRREMLKEIMRRGTSSLG-TDVPS 549
IEE+ L++AK+ + + ++++AGLF+ E L ++ R LG TD
Sbjct: 948 IEEMQLKQAKKDLSEELQILEAGLFSRIRAVLVAGGVEAEKLDKLPRDRWLELGLTDEEK 1007
Query: 550 EREINRLAARSDEEFWLFEKMDEERRQK 577
+ ++ +LA + DE FEK E +R+K
Sbjct: 1008 QNQLEQLAEQYDELKHEFEKKLEAKRRK 1035
>pdb|2J0U|A Chain A, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 29.3 bits (64), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 30/123 (24%), Positives = 55/123 (44%), Gaps = 5/123 (4%)
Query: 366 KFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLK 425
KF+ L L L + + ++F R +D L ++ +F + G +ER +++K
Sbjct: 227 KFDTLCDLYDTLTIT--QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMK 284
Query: 426 QFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVR 485
+F + S L+ST GL++ +I +D N ++ R+ R G+K
Sbjct: 285 EFRSGAS---RVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAV 341
Query: 486 VFV 488
FV
Sbjct: 342 NFV 344
>pdb|2J0U|B Chain B, The Crystal Structure Of Eif4aiii-Barentsz Complex At 3.0
A Resolution
Length = 374
Score = 29.3 bits (64), Expect = 9.6, Method: Compositional matrix adjust.
Identities = 30/123 (24%), Positives = 55/123 (44%), Gaps = 5/123 (4%)
Query: 366 KFELLDRLLPKLRKSGHRVLLFSQMTRLMDILEIYLKLNDFKFLRLDGSTKTEERGTLLK 425
KF+ L L L + + ++F R +D L ++ +F + G +ER +++K
Sbjct: 227 KFDTLCDLYDTLTIT--QAVIFCNTKRKVDWLTEKMREANFTVSSMHGDMPQKERESIMK 284
Query: 426 QFNAPDSPYFMFLLSTRAGGLGLNLQTADTVIIFDSDWNPQMDQQAEDRAHRIGQKKEVR 485
+F + S L+ST GL++ +I +D N ++ R+ R G+K
Sbjct: 285 EFRSGAS---RVLISTDVWARGLDVPQVSLIINYDLPNNRELYIHRIGRSGRYGRKGVAV 341
Query: 486 VFV 488
FV
Sbjct: 342 NFV 344
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 0.135 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,124,554
Number of Sequences: 62578
Number of extensions: 927409
Number of successful extensions: 2260
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 22
Number of HSP's that attempted gapping in prelim test: 2215
Number of HSP's gapped (non-prelim): 34
length of query: 773
length of database: 14,973,337
effective HSP length: 106
effective length of query: 667
effective length of database: 8,340,069
effective search space: 5562826023
effective search space used: 5562826023
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: 55 (25.8 bits)