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= 000973
(1205 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3CF1|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF1|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPADP.ALFX
pdb|3CF2|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF2|D Chain D, Structure Of P97VCP IN COMPLEX WITH ADPAMP-Pnp
pdb|3CF3|A Chain A, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|B Chain B, Structure Of P97VCP IN COMPLEX WITH ADP
pdb|3CF3|C Chain C, Structure Of P97VCP IN COMPLEX WITH ADP
Length = 806
Score = 232 bits (591), Expect = 1e-60, Method: Compositional matrix adjust.
Identities = 151/404 (37%), Positives = 221/404 (54%), Gaps = 29/404 (7%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V +DDIGG + + +KEMV PL +P F + + PPRG+LL GPPGTGKTLIARA+A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA- 259
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
++ G F++ G +++SK GE+E L+ FEEA++N P+IIF DE+D +AP R
Sbjct: 260 --NETG--AFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREK 315
Query: 496 KQEQIHNSIVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLPGCE 555
++ IVS LL LMDGL R V+++ ATNR ++ID ALRR GRFDRE + +P
Sbjct: 316 THGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Query: 556 ARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKYPQVYTSD 615
R EIL IHT+ K +L+ ++A G+ GADL ALC+EAA++A R+K + D
Sbjct: 376 GRLEILQIHTKNMKLADDVDLE-QVANETHGHVGADLAALCSEAALQAIRKKMDLIDLED 434
Query: 616 DKFLIDV-DSVTVEKYHFIEAMSTITPAAHRGATVHSRPLSLVVAPCLQ---RHLQKAMN 671
+ +V +S+ V F A+S P+A R V ++ L+ R LQ+ +
Sbjct: 435 ETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQ 494
Query: 672 YISDIFPPLGMSSELTKLCML-SHGSAIPLVYRPRLLLCGSEGTGVDHLGPAILHELEKF 730
Y P+ + K M S G +L G G G L AI +E +
Sbjct: 495 Y------PVEHPDKFLKFGMTPSKG----------VLFYGPPGCGKTLLAKAIANECQAN 538
Query: 731 PVHSLGLPALLSDPSAKTPEEALVHIFGEARRTTPSILYIPQFN 774
+ G P LL+ ++ E + IF +AR+ P +L+ + +
Sbjct: 539 FISIKG-PELLTMWFGES-EANVREIFDKARQAAPCVLFFDELD 580
Score = 163 bits (412), Expect = 5e-40, Method: Compositional matrix adjust.
Identities = 88/231 (38%), Positives = 139/231 (60%), Gaps = 15/231 (6%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALA- 434
V+++DIGGL + L+E+V +P+ +PD F + +TP +GVL GPPG GKTL+A+A+A
Sbjct: 474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
Query: 435 -CAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVR 493
C A+ F KG ++L+ W GE+E ++ +F++A++ P ++FFDE+D +A R
Sbjct: 534 ECQAN-------FISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKAR 586
Query: 494 SSKQEQIHNS---IVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFP 550
+ +++ +L MDG+ ++ V +IGATNR D ID A+ RPGR D+ P
Sbjct: 587 GGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIP 646
Query: 551 LPGCEARAEILDIHTRKWKQPPSRELKSE-LAASCVGYCGADLKALCTEAA 600
LP ++R IL + R K P ++++ E LA G+ GADL +C A
Sbjct: 647 LPDEKSRVAILKANLR--KSPVAKDVDLEFLAKMTNGFSGADLTEICQRAC 695
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 231 bits (590), Expect = 2e-60, Method: Compositional matrix adjust.
Identities = 150/404 (37%), Positives = 221/404 (54%), Gaps = 29/404 (7%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V +DD+GG + + +KEMV PL +P F + + PPRG+LL GPPGTGKTLIARA+A
Sbjct: 201 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA- 259
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
++ G F++ G +++SK GE+E L+ FEEA++N P+IIF DE+D +AP R
Sbjct: 260 --NETG--AFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREK 315
Query: 496 KQEQIHNSIVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLPGCE 555
++ IVS LL LMDGL R V+++ ATNR ++ID ALRR GRFDRE + +P
Sbjct: 316 THGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Query: 556 ARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKYPQVYTSD 615
R EIL IHT+ K +L+ ++A G+ GADL ALC+EAA++A R+K + D
Sbjct: 376 GRLEILQIHTKNMKLADDVDLE-QVANETHGHVGADLAALCSEAALQAIRKKMDLIDLED 434
Query: 616 DKFLIDV-DSVTVEKYHFIEAMSTITPAAHRGATVHSRPLSLVVAPCLQ---RHLQKAMN 671
+ +V +S+ V F A+S P+A R V ++ L+ R LQ+ +
Sbjct: 435 ETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVEVPQVTWEDIGGLEDVKRELQELVQ 494
Query: 672 YISDIFPPLGMSSELTKLCML-SHGSAIPLVYRPRLLLCGSEGTGVDHLGPAILHELEKF 730
Y P+ + K M S G +L G G G L AI +E +
Sbjct: 495 Y------PVEHPDKFLKFGMTPSKG----------VLFYGPPGCGKTLLAKAIANECQAN 538
Query: 731 PVHSLGLPALLSDPSAKTPEEALVHIFGEARRTTPSILYIPQFN 774
+ G P LL+ ++ E + IF +AR+ P +L+ + +
Sbjct: 539 FISIKG-PELLTMWFGES-EANVREIFDKARQAAPCVLFFDELD 580
Score = 163 bits (413), Expect = 4e-40, Method: Compositional matrix adjust.
Identities = 88/231 (38%), Positives = 139/231 (60%), Gaps = 15/231 (6%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALA- 434
V+++DIGGL + L+E+V +P+ +PD F + +TP +GVL GPPG GKTL+A+A+A
Sbjct: 474 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 533
Query: 435 -CAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVR 493
C A+ F KG ++L+ W GE+E ++ +F++A++ P ++FFDE+D +A R
Sbjct: 534 ECQAN-------FISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKAR 586
Query: 494 SSKQEQIHNS---IVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFP 550
+ +++ +L MDG+ ++ V +IGATNR D ID A+ RPGR D+ P
Sbjct: 587 GGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIP 646
Query: 551 LPGCEARAEILDIHTRKWKQPPSRELKSE-LAASCVGYCGADLKALCTEAA 600
LP ++R IL + R K P ++++ E LA G+ GADL +C A
Sbjct: 647 LPDEKSRVAILKANLR--KSPVAKDVDLEFLAKMTNGFSGADLTEICQRAC 695
>pdb|3HU3|A Chain A, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
pdb|3HU3|B Chain B, Structure Of P97 N-D1 R155h Mutant In Complex With Atpgs
Length = 489
Score = 224 bits (570), Expect = 3e-58, Method: Compositional matrix adjust.
Identities = 122/276 (44%), Positives = 171/276 (61%), Gaps = 7/276 (2%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V +DDIGG + + +KEMV PL +P F + + PPRG+LL GPPGTGKTLIARA+A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA- 259
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
++ G F++ G +++SK GE+E L+ FEEA++N P+IIF DE+D +AP R
Sbjct: 260 --NETG--AFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREK 315
Query: 496 KQEQIHNSIVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLPGCE 555
++ IVS LL LMDGL R V+++ ATNR ++ID ALRR GRFDRE + +P
Sbjct: 316 THGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Query: 556 ARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKYPQVYTSD 615
R EIL IHT+ K +L+ ++A G+ GADL ALC+EAA++A R+K + D
Sbjct: 376 GRLEILQIHTKNMKLADDVDLE-QVANETHGHVGADLAALCSEAALQAIRKKMDLIDLED 434
Query: 616 DKFLIDV-DSVTVEKYHFIEAMSTITPAAHRGATVH 650
+ +V +S+ V F A+S P+A R V
Sbjct: 435 ETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVE 470
>pdb|3HU2|A Chain A, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|B Chain B, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|C Chain C, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|D Chain D, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|E Chain E, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
pdb|3HU2|F Chain F, Structure Of P97 N-D1 R86a Mutant In Complex With Atpgs
Length = 489
Score = 224 bits (570), Expect = 3e-58, Method: Compositional matrix adjust.
Identities = 122/276 (44%), Positives = 171/276 (61%), Gaps = 7/276 (2%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V +DDIGG + + +KEMV PL +P F + + PPRG+LL GPPGTGKTLIARA+A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA- 259
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
++ G F++ G +++SK GE+E L+ FEEA++N P+IIF DE+D +AP R
Sbjct: 260 --NETG--AFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREK 315
Query: 496 KQEQIHNSIVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLPGCE 555
++ IVS LL LMDGL R V+++ ATNR ++ID ALRR GRFDRE + +P
Sbjct: 316 THGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Query: 556 ARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKYPQVYTSD 615
R EIL IHT+ K +L+ ++A G+ GADL ALC+EAA++A R+K + D
Sbjct: 376 GRLEILQIHTKNMKLADDVDLE-QVANETHGHVGADLAALCSEAALQAIRKKMDLIDLED 434
Query: 616 DKFLIDV-DSVTVEKYHFIEAMSTITPAAHRGATVH 650
+ +V +S+ V F A+S P+A R V
Sbjct: 435 ETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVE 470
>pdb|3HU1|A Chain A, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|B Chain B, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|C Chain C, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|D Chain D, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|E Chain E, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
pdb|3HU1|F Chain F, Structure Of P97 N-D1 R95g Mutant In Complex With Atpgs
Length = 489
Score = 224 bits (570), Expect = 3e-58, Method: Compositional matrix adjust.
Identities = 122/276 (44%), Positives = 171/276 (61%), Gaps = 7/276 (2%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V +DDIGG + + +KEMV PL +P F + + PPRG+LL GPPGTGKTLIARA+A
Sbjct: 201 VGYDDIGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA- 259
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
++ G F++ G +++SK GE+E L+ FEEA++N P+IIF DE+D +AP R
Sbjct: 260 --NETG--AFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREK 315
Query: 496 KQEQIHNSIVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLPGCE 555
++ IVS LL LMDGL R V+++ ATNR ++ID ALRR GRFDRE + +P
Sbjct: 316 THGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Query: 556 ARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKYPQVYTSD 615
R EIL IHT+ K +L+ ++A G+ GADL ALC+EAA++A R+K + D
Sbjct: 376 GRLEILQIHTKNMKLADDVDLE-QVANETHGHVGADLAALCSEAALQAIRKKMDLIDLED 434
Query: 616 DKFLIDV-DSVTVEKYHFIEAMSTITPAAHRGATVH 650
+ +V +S+ V F A+S P+A R V
Sbjct: 435 ETIDAEVMNSLAVTMDDFRWALSQSNPSALRETVVE 470
>pdb|1E32|A Chain A, Structure Of The N-Terminal Domain And The D1 Aaa Domain
Of Membrane Fusion Atpase P97
pdb|1S3S|A Chain A, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|B Chain B, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|C Chain C, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|D Chain D, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|E Chain E, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
pdb|1S3S|F Chain F, Crystal Structure Of Aaa Atpase P97VCP ND1 IN COMPLEX WITH
P47 C
Length = 458
Score = 217 bits (553), Expect = 3e-56, Method: Compositional matrix adjust.
Identities = 117/263 (44%), Positives = 166/263 (63%), Gaps = 7/263 (2%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V +DD+GG + + +KEMV PL +P F + + PPRG+LL GPPGTGKTLIARA+A
Sbjct: 201 VGYDDVGGCRKQLAQIKEMVELPLRHPALFKAIGVKPPRGILLYGPPGTGKTLIARAVA- 259
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
++ G F++ G +++SK GE+E L+ FEEA++N P+IIF DE+D +AP R
Sbjct: 260 --NETG--AFFFLINGPEIMSKLAGESESNLRKAFEEAEKNAPAIIFIDELDAIAPKREK 315
Query: 496 KQEQIHNSIVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLPGCE 555
++ IVS LL LMDGL R V+++ ATNR ++ID ALRR GRFDRE + +P
Sbjct: 316 THGEVERRIVSQLLTLMDGLKQRAHVIVMAATNRPNSIDPALRRFGRFDREVDIGIPDAT 375
Query: 556 ARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKYPQVYTSD 615
R EIL IHT+ K +L+ ++A G+ GADL ALC+EAA++A R+K + D
Sbjct: 376 GRLEILQIHTKNMKLADDVDLE-QVANETHGHVGADLAALCSEAALQAIRKKMDLIDLED 434
Query: 616 DKFLIDV-DSVTVEKYHFIEAMS 637
+ +V +S+ V F A+S
Sbjct: 435 ETIDAEVMNSLAVTMDDFRWALS 457
>pdb|3H4M|A Chain A, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
pdb|3H4M|B Chain B, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
pdb|3H4M|C Chain C, Aaa Atpase Domain Of The Proteasome- Activating
Nucleotidase
Length = 285
Score = 184 bits (468), Expect = 2e-46, Method: Composition-based stats.
Identities = 105/245 (42%), Positives = 152/245 (62%), Gaps = 13/245 (5%)
Query: 368 QPLQVDE--SVSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTG 425
+ ++VDE +V ++DIGGL + + ++E+V PL +P+ F I PP+G+LL GPPGTG
Sbjct: 4 KAMEVDERPNVRYEDIGGLEKQMQEIREVVELPLKHPELFEKVGIEPPKGILLYGPPGTG 63
Query: 426 KTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDE 485
KTL+A+A+A + +F G++++ K++GE +K +F+ A+ PSIIF DE
Sbjct: 64 KTLLAKAVATETN-----ATFIRVVGSELVKKFIGEGASLVKDIFKLAKEKAPSIIFIDE 118
Query: 486 IDGLAPVRSSK----QEQIHNSIVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPG 541
ID +A R+ ++ +++ LLA MDG D+RG V +IGATNR D +D A+ RPG
Sbjct: 119 IDAIAAKRTDALTGGDREVQRTLMQ-LLAEMDGFDARGDVKIIGATNRPDILDPAILRPG 177
Query: 542 RFDREFNFPLPGCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAI 601
RFDR P P + R EIL IHTRK L+ E+A G GA+LKA+CTEA +
Sbjct: 178 RFDRIIEVPAPDEKGRLEILKIHTRKMNLAEDVNLE-EIAKMTEGCVGAELKAICTEAGM 236
Query: 602 RAFRE 606
A RE
Sbjct: 237 NAIRE 241
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 182 bits (462), Expect = 9e-46, Method: Compositional matrix adjust.
Identities = 100/252 (39%), Positives = 151/252 (59%), Gaps = 11/252 (4%)
Query: 377 SFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALACA 436
++D +GGL++ I +KE++ P+ +P+ F S I P+GV+L GPPGTGKTL+ARA+A
Sbjct: 146 TYDMVGGLTKQIKEIKEVIELPVKHPELFESLGIAQPKGVILYGPPGTGKTLLARAVAHH 205
Query: 437 ASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSSK 496
+VS GA+++ K++GE R ++ LF A+ + PSIIF DEID + R
Sbjct: 206 TDCKFIRVS-----GAELVQKYIGEGSRMVRELFVMAREHAPSIIFMDEIDSIGSTRVEG 260
Query: 497 QEQIHNSIVSTLLAL---MDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLPG 553
+ + T+L L +DG ++ + +I ATNR+D +D AL RPGR DR+ FP P
Sbjct: 261 SGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATNRLDILDPALLRPGRIDRKIEFPPPS 320
Query: 554 CEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKYPQVYT 613
ARAEIL IH+RK L+ ++A G GAD+K +CTEA + A RE+ +++
Sbjct: 321 VAARAEILRIHSRKMNLTRGINLR-KVAEKMNGCSGADVKGVCTEAGMYALRER--RIHV 377
Query: 614 SDDKFLIDVDSV 625
+ + F + V V
Sbjct: 378 TQEDFELAVGKV 389
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 178 bits (452), Expect = 1e-44, Method: Compositional matrix adjust.
Identities = 105/254 (41%), Positives = 149/254 (58%), Gaps = 13/254 (5%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V++ D+GG + I+ L+E+V PLL P+ FA+ I PP+G+LL GPPGTGKTL ARA+A
Sbjct: 206 VTYSDVGGCKDQIEKLREVVELPLLSPERFATLGIDPPKGILLYGPPGTGKTLCARAVAN 265
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
+F G++++ K+VGE R ++ LFE A+ + IIFFDEID + R
Sbjct: 266 RTD-----ATFIRVIGSELVQKYVGEGARMVRELFEMARTKKACIIFFDEIDAVGGARFD 320
Query: 496 KQEQIHNSIVSTLLAL---MDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLP 552
N + T+L L +DG D RG + ++ ATNR + +D AL RPGR DR+ F LP
Sbjct: 321 DGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFATNRPNTLDPALLRPGRIDRKVEFSLP 380
Query: 553 GCEARAEILDIHTRKWKQPPSRELKSELAAS-CVGYCGADLKALCTEAAIRAFREKYPQV 611
E RA I IH++ R ++ EL + C GA+L+++CTEA + A R + +V
Sbjct: 381 DLEGRANIFRIHSKSMSV--ERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRARR-KV 437
Query: 612 YTSDDKFLIDVDSV 625
T D FL VD V
Sbjct: 438 ATEKD-FLKAVDKV 450
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 177 bits (450), Expect = 3e-44, Method: Compositional matrix adjust.
Identities = 96/243 (39%), Positives = 138/243 (56%), Gaps = 9/243 (3%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
++FD IGGL+E I L+E++ PL P+ F I PP+GVLL GPPGTGKTL+A+A+A
Sbjct: 178 ITFDGIGGLTEQIRELREVIELPLKNPEIFQRVGIKPPKGVLLYGPPGTGKTLLAKAVAA 237
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
+F + ++ K++GE+ R ++ +F A+ ++P IIF DE+D + R S
Sbjct: 238 TIG-----ANFIFSPASGIVDKYIGESARIIREMFAYAKEHEPCIIFMDEVDAIGGRRFS 292
Query: 496 KQEQIHNSIVSTLLAL---MDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLP 552
+ I TL+ L MDG D+ GQ +I ATNR D +D AL RPGR DR+ PLP
Sbjct: 293 EGTSADREIQRTLMELLTQMDGFDNLGQTKIIMATNRPDTLDPALLRPGRLDRKVEIPLP 352
Query: 553 GCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKYPQVY 612
R EI IHT K K+ + ++ + S G+ GAD++ TEA A R+ +
Sbjct: 353 NEAGRLEIFKIHTAKVKKTGEFDFEAAVKMSD-GFNGADIRNCATEAGFFAIRDDRDHIN 411
Query: 613 TSD 615
D
Sbjct: 412 PDD 414
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 173 bits (438), Expect = 7e-43, Method: Compositional matrix adjust.
Identities = 96/244 (39%), Positives = 137/244 (56%), Gaps = 9/244 (3%)
Query: 377 SFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALACA 436
S+ DIGGL I +KE V PL +P+ + I PP+GV+L G PGTGKTL+A+A+A
Sbjct: 180 SYSDIGGLESQIQEIKESVELPLTHPELYEEMGIKPPKGVILYGAPGTGKTLLAKAVANQ 239
Query: 437 ASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSSK 496
S +F G++++ K++G+ R + +F+ A N PSI+F DEID + R
Sbjct: 240 TS-----ATFLRIVGSELIQKYLGDGPRLCRQIFKVAGENAPSIVFIDEIDAIGTKRYDS 294
Query: 497 QEQIHNSIVSTLLAL---MDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLPG 553
I T+L L +DG D RG V +I ATN+++ +D AL RPGR DR+ F P
Sbjct: 295 NSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETLDPALIRPGRIDRKILFENPD 354
Query: 554 CEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKYPQVYT 613
+ +IL IHT K L++ L + GAD++A+CTEA + A RE+ QV
Sbjct: 355 LSTKKKILGIHTSKMNLSEDVNLET-LVTTKDDLSGADIQAMCTEAGLLALRERRMQVTA 413
Query: 614 SDDK 617
D K
Sbjct: 414 EDFK 417
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 170 bits (431), Expect = 4e-42, Method: Compositional matrix adjust.
Identities = 101/269 (37%), Positives = 154/269 (57%), Gaps = 14/269 (5%)
Query: 375 SVSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALA 434
+V++ DIG L + + L + P+ PD F + + P GVLL GPPG GKTL+A+A+A
Sbjct: 6 NVTWADIGALEDIREELTMAILAPVRNPDQFKALGLVTPAGVLLAGPPGCGKTLLAKAVA 65
Query: 435 CAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRS 494
+++G ++F KG ++L+ +VGE+ER ++ +F+ A+ + P +IFFDE+D L P RS
Sbjct: 66 ---NESG--LNFISVKGPELLNMYVGESERAVRQVFQRAKNSAPCVIFFDEVDALCPRRS 120
Query: 495 SKQEQIHNSIVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLPGC 554
++ +V+ LL MDGL++R QV ++ ATNR D ID A+ RPGR D+ LP
Sbjct: 121 DRETGASVRVVNQLLTEMDGLEARQQVFIMAATNRPDIIDPAILRPGRLDKTLFVGLPPP 180
Query: 555 EARAEILDIHTRKWKQPP-SRELKSELAAS---CVGYCGADLKALCTEAAIRAFREKYPQ 610
R IL T+ +PP ++ E A C Y GADL AL EA+I A R++ +
Sbjct: 181 ADRLAILKTITKNGTKPPLDADVNLEAIAGDLRCDCYTGADLSALVREASICALRQEMAR 240
Query: 611 VYTSDDKFLIDVDSVTVEKYHFIEAMSTI 639
+ ++K + V HF EA +
Sbjct: 241 QKSGNEK-----GELKVSHKHFEEAFKKV 264
>pdb|3CF0|A Chain A, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|B Chain B, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|C Chain C, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|D Chain D, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|E Chain E, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|F Chain F, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|G Chain G, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|H Chain H, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|I Chain I, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|J Chain J, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|K Chain K, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|L Chain L, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|M Chain M, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
pdb|3CF0|N Chain N, Structure Of D2 Subdomain Of P97VCP IN COMPLEX WITH ADP
Length = 301
Score = 162 bits (411), Expect = 7e-40, Method: Compositional matrix adjust.
Identities = 88/231 (38%), Positives = 139/231 (60%), Gaps = 15/231 (6%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALA- 434
V+++DIGGL + L+E+V +P+ +PD F + +TP +GVL GPPG GKTL+A+A+A
Sbjct: 12 VTWEDIGGLEDVKRELQELVQYPVEHPDKFLKFGMTPSKGVLFYGPPGCGKTLLAKAIAN 71
Query: 435 -CAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVR 493
C A +F KG ++L+ W GE+E ++ +F++A++ P ++FFDE+D +A R
Sbjct: 72 ECQA-------NFISIKGPELLTMWFGESEANVREIFDKARQAAPCVLFFDELDSIAKAR 124
Query: 494 SSKQEQIHNS---IVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFP 550
+ +++ +L MDG+ ++ V +IGATNR D ID A+ RPGR D+ P
Sbjct: 125 GGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIP 184
Query: 551 LPGCEARAEILDIHTRKWKQPPSRELKSE-LAASCVGYCGADLKALCTEAA 600
LP ++R IL + R K P ++++ E LA G+ GADL +C A
Sbjct: 185 LPDEKSRVAILKANLR--KSPVAKDVDLEFLAKMTNGFSGADLTEICQRAC 233
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 159 bits (403), Expect = 7e-39, Method: Compositional matrix adjust.
Identities = 93/254 (36%), Positives = 138/254 (54%), Gaps = 11/254 (4%)
Query: 367 IQPLQVDE--SVSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGT 424
++ ++VDE + ++ D+GGL + I+ L E + P+ D F I P+G L+ GPPGT
Sbjct: 167 VKAMEVDEKPTETYSDVGGLDKQIEELVEAIVLPMKRADKFKDMGIRAPKGALMYGPPGT 226
Query: 425 GKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFD 484
GKTL+ARA CAA +F ++ ++GE + ++ F A+ P+IIF D
Sbjct: 227 GKTLLARA--CAAQT---NATFLKLAAPQLVQMYIGEGAKLVRDAFALAKEKAPTIIFID 281
Query: 485 EIDGLAPVRSSKQEQIHNSIVSTLLALM---DGLDSRGQVVLIGATNRVDAIDGALRRPG 541
E+D + R ++ + T+L L+ DG S +V ++ ATNRVD +D AL R G
Sbjct: 282 ELDAIGTKRFDSEKSGDREVQRTMLELLNQLDGFSSDDRVKVLAATNRVDVLDPALLRSG 341
Query: 542 RFDREFNFPLPGCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAI 601
R DR+ FPLP ++RA+IL IH+RK + ELA S + GA LKA+ EA +
Sbjct: 342 RLDRKIEFPLPSEDSRAQILQIHSRKMTTDDDINWQ-ELARSTDEFNGAQLKAVTVEAGM 400
Query: 602 RAFREKYPQVYTSD 615
A R V D
Sbjct: 401 IALRNGQSSVKHED 414
>pdb|2CE7|A Chain A, Edta Treated
pdb|2CE7|B Chain B, Edta Treated
pdb|2CE7|C Chain C, Edta Treated
pdb|2CE7|D Chain D, Edta Treated
pdb|2CE7|E Chain E, Edta Treated
pdb|2CE7|F Chain F, Edta Treated
pdb|2CEA|A Chain A, Cell Division Protein Ftsh
pdb|2CEA|B Chain B, Cell Division Protein Ftsh
pdb|2CEA|C Chain C, Cell Division Protein Ftsh
pdb|2CEA|D Chain D, Cell Division Protein Ftsh
pdb|2CEA|E Chain E, Cell Division Protein Ftsh
pdb|2CEA|F Chain F, Cell Division Protein Ftsh
Length = 476
Score = 159 bits (401), Expect = 1e-38, Method: Compositional matrix adjust.
Identities = 98/253 (38%), Positives = 146/253 (57%), Gaps = 12/253 (4%)
Query: 373 DESVSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARA 432
++ V+F D+GG E I+ LKE+V F L P F P+G+LL GPPGTGKTL+ARA
Sbjct: 10 NKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGKTLLARA 68
Query: 433 LACAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPV 492
+A A+ V F+ G+D + +VG +++ LF +A+ + P I+F DEID +
Sbjct: 69 VAGEAN-----VPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRH 123
Query: 493 RSSKQEQIHNS---IVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNF 549
R + H+ ++ LL MDG DS+ ++++ ATNR D +D AL RPGRFD++
Sbjct: 124 RGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVV 183
Query: 550 PLPGCEARAEILDIHTRKWKQPPSRELKSELAASCV-GYCGADLKALCTEAAIRAFREKY 608
P R +IL+IHTR +P + ++ E+ A G+ GADL+ L EAA+ A RE
Sbjct: 184 DPPDMLGRKKILEIHTR--NKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGR 241
Query: 609 PQVYTSDDKFLID 621
++ D + ID
Sbjct: 242 DKITMKDFEEAID 254
>pdb|3KDS|E Chain E, Apo-ftsh Crystal Structure
pdb|3KDS|F Chain F, Apo-ftsh Crystal Structure
pdb|3KDS|G Chain G, Apo-ftsh Crystal Structure
Length = 465
Score = 156 bits (395), Expect = 5e-38, Method: Compositional matrix adjust.
Identities = 97/253 (38%), Positives = 145/253 (57%), Gaps = 12/253 (4%)
Query: 373 DESVSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARA 432
++ V+F D+GG E I+ LKE+V F L P F P+G+LL GPPGTG TL+ARA
Sbjct: 10 NKRVTFKDVGGAEEAIEELKEVVEF-LKDPSKFNRIGARMPKGILLVGPPGTGATLLARA 68
Query: 433 LACAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPV 492
+A A+ V F+ G+D + +VG +++ LF +A+ + P I+F DEID +
Sbjct: 69 VAGEAN-----VPFFHISGSDFVELFVGVGAARVRDLFAQAKAHAPCIVFIDEIDAVGRH 123
Query: 493 RSSKQEQIHNS---IVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNF 549
R + H+ ++ LL MDG DS+ ++++ ATNR D +D AL RPGRFD++
Sbjct: 124 RGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAATNRPDILDPALLRPGRFDKKIVV 183
Query: 550 PLPGCEARAEILDIHTRKWKQPPSRELKSELAASCV-GYCGADLKALCTEAAIRAFREKY 608
P R +IL+IHTR +P + ++ E+ A G+ GADL+ L EAA+ A RE
Sbjct: 184 DPPDMLGRKKILEIHTR--NKPLAEDVNLEIIAKRTPGFVGADLENLVNEAALLAAREGR 241
Query: 609 PQVYTSDDKFLID 621
++ D + ID
Sbjct: 242 DKITMKDFEEAID 254
>pdb|2QP9|X Chain X, Crystal Structure Of S.Cerevisiae Vps4
pdb|2QPA|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
pdb|2QPA|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Adp
Length = 355
Score = 151 bits (382), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 140/250 (56%), Gaps = 16/250 (6%)
Query: 375 SVSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALA 434
+V ++D+ GL +ALKE V P+ +P F P G+LL GPPGTGK+ +A+A+A
Sbjct: 47 NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNR-KPTSGILLYGPPGTGKSYLAKAVA 105
Query: 435 CAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRS 494
A+ +F+ +D++SKW+GE+E+ +K LF A+ N+PSIIF D++D L R
Sbjct: 106 TEANS-----TFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRG 160
Query: 495 SKQEQIHNSIVSTLLALMDGL--DSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLP 552
+ + I + LL M+G+ DS+G V+++GATN +D A+RR RF+R PLP
Sbjct: 161 EGESEASRRIKTELLVQMNGVGNDSQG-VLVLGATNIPWQLDSAIRR--RFERRIYIPLP 217
Query: 553 GCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFRE-----K 607
AR + +I+ ++E L A GY G+D+ + +A ++ R+
Sbjct: 218 DLAARTTMFEINVGDTPSVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATH 277
Query: 608 YPQVYTSDDK 617
+ V T DD+
Sbjct: 278 FKDVSTEDDE 287
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 151 bits (381), Expect = 2e-36, Method: Compositional matrix adjust.
Identities = 89/251 (35%), Positives = 136/251 (54%), Gaps = 11/251 (4%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
VSF D+ G+ E ++E V + L P+ F P+G LL GPPG GKTL+A+A+A
Sbjct: 3 VSFKDVAGMHEAKLEVREFVDY-LKSPERFLQLGAKVPKGALLLGPPGCGKTLLAKAVAT 61
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
A +V F GA+ + G +++ LF+EA+ P I++ DEID + RS+
Sbjct: 62 EA-----QVPFLAMAGAEFVEVIGGLGAARVRSLFKEARARAPCIVYIDEIDAVGKKRST 116
Query: 496 KQEQIHNS----IVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPL 551
N+ ++ LL MDG+ + V+++ +TNR D +DGAL RPGR DR L
Sbjct: 117 TMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTNRADILDGALMRPGRLDRHVFIDL 176
Query: 552 PGCEARAEILDIHTRKWKQPPSRELKSE-LAASCVGYCGADLKALCTEAAIRAFREKYPQ 610
P + R EI + H + K S S+ LA G+ GAD+ +C EAA+ A RE +
Sbjct: 177 PTLQERREIFEQHLKSLKLTQSSTFYSQRLAELTPGFSGADIANICNEAALHAAREGHTS 236
Query: 611 VYTSDDKFLID 621
V+T + ++ ++
Sbjct: 237 VHTLNFEYAVE 247
>pdb|2ZAM|A Chain A, Crystal Structure Of Mouse Skd1VPS4B APO-Form
pdb|2ZAN|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ATP-Form
pdb|2ZAO|A Chain A, Crystal Structure Of Mouse Skd1VPS4B ADP-Form
Length = 444
Score = 150 bits (380), Expect = 3e-36, Method: Compositional matrix adjust.
Identities = 86/234 (36%), Positives = 134/234 (57%), Gaps = 10/234 (4%)
Query: 375 SVSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALA 434
+V + D+ GL +ALKE V P+ +P F TP RG+LL GPPGTGK+ +A+A+A
Sbjct: 130 NVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKR-TPWRGILLFGPPGTGKSYLAKAVA 188
Query: 435 CAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRS 494
A+ + +F+ +D++SKW+GE+E+ +K LF+ A+ N+PSIIF DEID L RS
Sbjct: 189 TEANNS----TFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRS 244
Query: 495 SKQEQIHNSIVSTLLALMD--GLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLP 552
+ + I + L M G+D+ G ++++GATN +D A+RR RF++ PLP
Sbjct: 245 ENESEAARRIKTEFLVQMQGVGVDNDG-ILVLGATNIPWVLDSAIRR--RFEKRIYIPLP 301
Query: 553 GCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFRE 606
ARA + +H + + EL GY GAD+ + +A ++ R+
Sbjct: 302 EAHARAAMFRLHLGSTQNSLTEADFQELGRKTDGYSGADISIIVRDALMQPVRK 355
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 150 bits (378), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 97/264 (36%), Positives = 138/264 (52%), Gaps = 13/264 (4%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V++ D+GGL ++E V PL+ D + I PPRGVLL GPPGTGKT++ +A+A
Sbjct: 169 VTYADVGGLDMQKQEIREAVELPLVQADLYEQIGIDPPRGVLLYGPPGTGKTMLVKAVAN 228
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
+ K +F G++ + K++GE R ++ +F A+ N PSIIF DE+D +A R
Sbjct: 229 ST-----KAAFIRVNGSEFVHKYLGEGPRMVRDVFRLARENAPSIIFIDEVDSIATKRFD 283
Query: 496 KQ---EQIHNSIVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFP-L 551
Q ++ I+ LL MDG D V +I ATNR D +D AL RPGR DR+ FP L
Sbjct: 284 AQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATNRADTLDPALLRPGRLDRKIEFPSL 343
Query: 552 PGCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKYPQV 611
R I K P +L S L GA + A+ EA +RA R+ +
Sbjct: 344 RDRRERRLIFGTIASKMSLAPEADLDS-LIIRNDSLSGAVIAAIMQEAGLRAVRKNRYVI 402
Query: 612 YTSD--DKFLIDVDS-VTVEKYHF 632
SD + + V + TV+K+ F
Sbjct: 403 LQSDLEEAYATQVKTDNTVDKFDF 426
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 150 bits (378), Expect = 5e-36, Method: Compositional matrix adjust.
Identities = 89/250 (35%), Positives = 140/250 (56%), Gaps = 16/250 (6%)
Query: 375 SVSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALA 434
+V ++D+ GL +ALKE V P+ +P F P G+LL GPPGTGK+ +A+A+A
Sbjct: 23 NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNR-KPTSGILLYGPPGTGKSYLAKAVA 81
Query: 435 CAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRS 494
A+ +F+ +D++SKW+GE+E+ +K LF A+ N+PSIIF DE+D L R
Sbjct: 82 TEANS-----TFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDEVDALTGTRG 136
Query: 495 SKQEQIHNSIVSTLLALMDGL--DSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLP 552
+ + I + LL M+G+ DS+G V+++GATN +D A+RR RF+R PLP
Sbjct: 137 EGESEASRRIKTELLVQMNGVGNDSQG-VLVLGATNIPWQLDSAIRR--RFERRIYIPLP 193
Query: 553 GCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFRE-----K 607
AR + +I+ ++E L A GY G+D+ + +A ++ R+
Sbjct: 194 DLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATH 253
Query: 608 YPQVYTSDDK 617
+ V T DD+
Sbjct: 254 FKDVSTEDDE 263
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 149 bits (375), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/234 (37%), Positives = 133/234 (56%), Gaps = 10/234 (4%)
Query: 375 SVSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALA 434
+V + D+ GL +ALKE V P+ +P F TP RG+LL GPPGTGK+ +A+A+A
Sbjct: 8 NVKWSDVAGLEGAKEALKEAVILPIKFPHLFTGKR-TPWRGILLFGPPGTGKSYLAKAVA 66
Query: 435 CAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRS 494
A+ + +F+ +D++SKW+GE+E+ +K LF+ A+ N+PSIIF DEID L RS
Sbjct: 67 TEANNS----TFFSISSSDLVSKWLGESEKLVKNLFQLARENKPSIIFIDEIDSLCGSRS 122
Query: 495 SKQEQIHNSIVSTLLALMD--GLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLP 552
+ + I + L M G+D+ G +VL GATN +D A+RR RF++ PLP
Sbjct: 123 ENESEAARRIKTEFLVQMQGVGVDNDGILVL-GATNIPWVLDSAIRR--RFEKRIYIPLP 179
Query: 553 GCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFRE 606
ARA + +H + + EL GY GAD+ + +A ++ R+
Sbjct: 180 EPHARAAMFKLHLGTTQNSLTEADFRELGRKTDGYSGADISIIVRDALMQPVRK 233
>pdb|3EIH|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|B Chain B, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
pdb|3EIH|C Chain C, Crystal Structure Of S.Cerevisiae Vps4 In The Presence Of
Atpgammas
Length = 340
Score = 148 bits (374), Expect = 1e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 140/250 (56%), Gaps = 16/250 (6%)
Query: 375 SVSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALA 434
+V ++D+ GL +ALKE V P+ +P F P G+LL GPPGTGK+ +A+A+A
Sbjct: 32 NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNR-KPTSGILLYGPPGTGKSYLAKAVA 90
Query: 435 CAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRS 494
A+ +F+ +D++SKW+GE+E+ +K LF A+ N+PSIIF D++D L R
Sbjct: 91 TEANS-----TFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRG 145
Query: 495 SKQEQIHNSIVSTLLALMDGL--DSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLP 552
+ + I + LL M+G+ DS+G V+++GATN +D A+RR RF+R PLP
Sbjct: 146 EGESEASRRIKTELLVQMNGVGNDSQG-VLVLGATNIPWQLDSAIRR--RFERRIYIPLP 202
Query: 553 GCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFRE-----K 607
AR + +I+ ++E L A GY G+D+ + +A ++ R+
Sbjct: 203 DLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATH 262
Query: 608 YPQVYTSDDK 617
+ V T DD+
Sbjct: 263 FKDVSTEDDE 272
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 148 bits (373), Expect = 2e-35, Method: Compositional matrix adjust.
Identities = 88/250 (35%), Positives = 140/250 (56%), Gaps = 16/250 (6%)
Query: 375 SVSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALA 434
+V ++D+ GL +ALKE V P+ +P F P G+LL GPPGTGK+ +A+A+A
Sbjct: 14 NVKWEDVAGLEGAKEALKEAVILPVKFPHLFKGNR-KPTSGILLYGPPGTGKSYLAKAVA 72
Query: 435 CAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRS 494
A+ +F+ +D++SKW+GE+E+ +K LF A+ N+PSIIF D++D L R
Sbjct: 73 TEANS-----TFFSVSSSDLVSKWMGESEKLVKQLFAMARENKPSIIFIDQVDALTGTRG 127
Query: 495 SKQEQIHNSIVSTLLALMDGL--DSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLP 552
+ + I + LL M+G+ DS+G V+++GATN +D A+RR RF+R PLP
Sbjct: 128 EGESEASRRIKTELLVQMNGVGNDSQG-VLVLGATNIPWQLDSAIRR--RFERRIYIPLP 184
Query: 553 GCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFRE-----K 607
AR + +I+ ++E L A GY G+D+ + +A ++ R+
Sbjct: 185 DLAARTTMFEINVGDTPCVLTKEDYRTLGAMTEGYSGSDIAVVVKDALMQPIRKIQSATH 244
Query: 608 YPQVYTSDDK 617
+ V T DD+
Sbjct: 245 FKDVSTEDDE 254
>pdb|3D8B|A Chain A, Crystal Structure Of Human Fidgetin-Like Protein 1 In
Complex With Adp
pdb|3D8B|B Chain B, Crystal Structure Of Human Fidgetin-Like Protein 1 In
Complex With Adp
Length = 357
Score = 144 bits (362), Expect = 4e-34, Method: Compositional matrix adjust.
Identities = 85/232 (36%), Positives = 127/232 (54%), Gaps = 10/232 (4%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V+++DI G+ +KE+V +P+L PD F PP+G+LL GPPGTGKTLI + C
Sbjct: 81 VNWEDIAGVEFAKATIKEIVVWPMLRPDIFTGLR-GPPKGILLFGPPGTGKTLIGK---C 136
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
AS++G +F+ + + SKWVGE E+ ++ LF A+ QP++IF DEID L R
Sbjct: 137 IASQSG--ATFFSISASSLTSKWVGEGEKMVRALFAVARCQQPAVIFIDEIDSLLSQRGD 194
Query: 496 KQEQIHNSIVSTLLALMDG--LDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLPG 553
+ + I + L +DG S +++++GATNR ID A RR R + PLP
Sbjct: 195 GEHESSRRIKTEFLVQLDGATTSSEDRILVVGATNRPQEIDEAARR--RLVKRLYIPLPE 252
Query: 554 CEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFR 605
AR +I+ K + S E ++ + GAD+ LC EA++ R
Sbjct: 253 ASARKQIVINLMSKEQCCLSEEEIEQIVQQSDAFSGADMTQLCREASLGPIR 304
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 140 bits (353), Expect = 4e-33, Method: Composition-based stats.
Identities = 88/232 (37%), Positives = 127/232 (54%), Gaps = 10/232 (4%)
Query: 377 SFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALACA 436
+F D+ G E + + E+V + L P F P+GVL+ GPPGTGKTL+A+A+A
Sbjct: 10 TFADVAGCDEAKEEVAELVEY-LREPSRFQKLGGKIPKGVLMVGPPGTGKTLLAKAIAGE 68
Query: 437 ASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSSK 496
A KV F+ G+D + +VG +++ +FE+A++ P IIF DEID + R +
Sbjct: 69 A-----KVPFFTISGSDFVEMFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAG 123
Query: 497 QEQIHNSIVSTL---LALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFNFPLPG 553
H+ TL L MDG + +++I ATNR D +D AL RPGRFDR+ LP
Sbjct: 124 LGGGHDEREQTLNQMLVEMDGFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPD 183
Query: 554 CEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFR 605
R +IL +H R+ P + + +A G+ GADL L EAA+ A R
Sbjct: 184 VRGREQILKVHMRRVPLAPDID-AAIIARGTPGFSGADLANLVNEAALFAAR 234
>pdb|2R62|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R62|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh
pdb|2R65|A Chain A, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|B Chain B, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|C Chain C, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|D Chain D, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
pdb|2R65|E Chain E, Crystal Structure Of Helicobacter Pylori Atp Dependent
Protease, Ftsh Adp Complex
Length = 268
Score = 139 bits (350), Expect = 9e-33, Method: Composition-based stats.
Identities = 95/246 (38%), Positives = 134/246 (54%), Gaps = 20/246 (8%)
Query: 375 SVSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALA 434
+V F D+ G E + + E+V F L YP+ +A+ P+GVLL GPPGTGKTL+A+A+A
Sbjct: 7 NVRFKDMAGNEEAKEEVVEIVDF-LKYPERYANLGAKIPKGVLLVGPPGTGKTLLAKAVA 65
Query: 435 CAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRS 494
A V F+ G+ + +VG +++ LFE A++ PSIIF DEID + R+
Sbjct: 66 GEA-----HVPFFSMGGSSFIEMFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRA 120
Query: 495 S--------KQEQIHNSIVSTLLALMDGLDSR-GQVVLIGATNRVDAIDGALRRPGRFDR 545
+ ++EQ N LLA MDG S V+++ ATNR + +D AL RPGRFDR
Sbjct: 121 AGGVVSGNDEREQTLNQ----LLAEMDGFGSENAPVIVLAATNRPEILDPALMRPGRFDR 176
Query: 546 EFNFPLPGCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFR 605
+ P R EIL +H + K L+ E+A G GADL + EAA+ A R
Sbjct: 177 QVLVDKPDFNGRVEILKVHIKGVKLANDVNLQ-EVAKLTAGLAGADLANIINEAALLAGR 235
Query: 606 EKYPQV 611
+V
Sbjct: 236 NNQKEV 241
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 139 bits (350), Expect = 9e-33, Method: Compositional matrix adjust.
Identities = 87/238 (36%), Positives = 129/238 (54%), Gaps = 10/238 (4%)
Query: 375 SVSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALA 434
+V FDDI G AL+E+V P L P+ F P RG+LL GPPG GKT++A+A+A
Sbjct: 111 AVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLR-APARGLLLFGPPGNGKTMLAKAVA 169
Query: 435 CAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRS 494
++ +F+ A + SK+VGE E+ ++ LF A+ QPSIIF D++D L R
Sbjct: 170 AESN-----ATFFNISAASLTSKYVGEGEKLVRALFAVARELQPSIIFIDQVDSLLCERR 224
Query: 495 SKQEQIHNSIVSTLLALMDGLDSRG--QVVLIGATNRVDAIDGALRRPGRFDREFNFPLP 552
+ + + L DG+ S G +V+++GATNR +D A+ R RF + LP
Sbjct: 225 EGEHDASRRLKTEFLIEFDGVQSAGDDRVLVMGATNRPQELDEAVLR--RFIKRVYVSLP 282
Query: 553 GCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKYPQ 610
E R +L K P +++ ++LA GY G+DL AL +AA+ RE P+
Sbjct: 283 NEETRLLLLKNLLCKQGSPLTQKELAQLARMTDGYSGSDLTALAKDAALGPIRELKPE 340
>pdb|4EIW|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|4EIW|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 508
Score = 127 bits (319), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 97/248 (39%), Positives = 135/248 (54%), Gaps = 20/248 (8%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V+F D+ G E + LKE+V F L P F P+GVLL GPPG GKT +ARA+A
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG 95
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
A +V F G+D + +VG +++ LFE A+R+ P I+F DEID + R S
Sbjct: 96 EA-----RVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGS 150
Query: 496 -------KQEQIHNSIVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFN 548
++EQ N LL MDG + +V++ ATNR D +D AL RPGRFDR+
Sbjct: 151 GVGGGNDEREQTLNQ----LLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIA 206
Query: 549 FPLPGCEARAEILDIHTRKWKQPPSRELK-SELAASCVGYCGADLKALCTEAAIRAFREK 607
P + R +IL IH R +P + ++ + LA G+ GADL+ L EAA+ A RE
Sbjct: 207 IDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG 264
Query: 608 YPQVYTSD 615
++ D
Sbjct: 265 RRKITMKD 272
>pdb|2DHR|A Chain A, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|B Chain B, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|C Chain C, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|D Chain D, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|E Chain E, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
pdb|2DHR|F Chain F, Whole Cytosolic Region Of Atp-Dependent Metalloprotease
Ftsh (G399l)
Length = 499
Score = 127 bits (318), Expect = 4e-29, Method: Compositional matrix adjust.
Identities = 97/248 (39%), Positives = 135/248 (54%), Gaps = 20/248 (8%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V+F D+ G E + LKE+V F L P F P+GVLL GPPG GKT +ARA+A
Sbjct: 28 VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG 86
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
A +V F G+D + +VG +++ LFE A+R+ P I+F DEID + R S
Sbjct: 87 EA-----RVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGS 141
Query: 496 -------KQEQIHNSIVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFN 548
++EQ N LL MDG + +V++ ATNR D +D AL RPGRFDR+
Sbjct: 142 GVGGGNDEREQTLNQ----LLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIA 197
Query: 549 FPLPGCEARAEILDIHTRKWKQPPSRELK-SELAASCVGYCGADLKALCTEAAIRAFREK 607
P + R +IL IH R +P + ++ + LA G+ GADL+ L EAA+ A RE
Sbjct: 198 IDAPDVKGREQILRIHAR--GKPLAEDVDLALLAKRTPGFVGADLENLLNEAALLAAREG 255
Query: 608 YPQVYTSD 615
++ D
Sbjct: 256 RRKITMKD 263
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 126 bits (317), Expect = 7e-29, Method: Compositional matrix adjust.
Identities = 97/247 (39%), Positives = 132/247 (53%), Gaps = 18/247 (7%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V+F D+ G E + LKE+V F L P F P+GVLL GPPG GKT +ARA+A
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG 95
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
A +V F G+D + +VG +++ LFE A+R+ P I+F DEID + R S
Sbjct: 96 EA-----RVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGS 150
Query: 496 -------KQEQIHNSIVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFN 548
++EQ N LL MDG + +V++ ATNR D +D AL RPGRFDR+
Sbjct: 151 GVGGGNDEREQTLNQ----LLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIA 206
Query: 549 FPLPGCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKY 608
P + R +IL IH R +L + LA G+ GADL+ L EAA+ A RE
Sbjct: 207 IDAPDVKGREQILRIHARGKPLAEDVDL-ALLAKRTPGFVGADLENLLNEAALLAAREGR 265
Query: 609 PQVYTSD 615
++ D
Sbjct: 266 RKITMKD 272
>pdb|1IXZ|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
pdb|1IY0|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Amp-Pnp
From Thermus Thermophilus
pdb|1IY1|A Chain A, Crystal Structure Of The Ftsh Atpase Domain With Adp From
Thermus Thermophilus
Length = 254
Score = 126 bits (316), Expect = 8e-29, Method: Compositional matrix adjust.
Identities = 97/247 (39%), Positives = 132/247 (53%), Gaps = 18/247 (7%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V+F D+ G E + LKE+V F L P F P+GVLL GPPG GKT +ARA+A
Sbjct: 13 VTFKDVAGAEEAKEELKEIVEF-LKNPSRFHEMGARIPKGVLLVGPPGVGKTHLARAVAG 71
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
A +V F G+D + +VG +++ LFE A+R+ P I+F DEID + R S
Sbjct: 72 EA-----RVPFITASGSDFVEMFVGVGAARVRDLFETAKRHAPCIVFIDEIDAVGRKRGS 126
Query: 496 -------KQEQIHNSIVSTLLALMDGLDSRGQVVLIGATNRVDAIDGALRRPGRFDREFN 548
++EQ N LL MDG + +V++ ATNR D +D AL RPGRFDR+
Sbjct: 127 GVGGGNDEREQTLNQ----LLVEMDGFEKDTAIVVMAATNRPDILDPALLRPGRFDRQIA 182
Query: 549 FPLPGCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKY 608
P + R +IL IH R +L + LA G+ GADL+ L EAA+ A RE
Sbjct: 183 IDAPDVKGREQILRIHARGKPLAEDVDL-ALLAKRTPGFVGADLENLLNEAALLAAREGR 241
Query: 609 PQVYTSD 615
++ D
Sbjct: 242 RKITMKD 248
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 123 bits (308), Expect = 7e-28, Method: Compositional matrix adjust.
Identities = 86/234 (36%), Positives = 120/234 (51%), Gaps = 11/234 (4%)
Query: 376 VSFDDIGGLSEYIDALKEMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLIARALAC 435
V + DI G AL+EMV P + P+ F P +G+LL GPPG GKTL+ARA+A
Sbjct: 18 VEWTDIAGQDVAKQALQEMVILPSVRPELFTGLR-APAKGLLLFGPPGNGKTLLARAVAT 76
Query: 436 AASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSS 495
S +F A + SK+VG+ E+ ++ LF A+ QPSIIF DE+D L RSS
Sbjct: 77 ECS-----ATFLNISAASLTSKYVGDGEKLVRALFAVARHMQPSIIFIDEVDSLLSERSS 131
Query: 496 KQEQIHNSIVSTLLALMDGLDSR---GQVVLIGATNRVDAIDGALRRPGRFDREFNFPLP 552
+ + + + L DGL ++V++ ATNR +D A R RF + LP
Sbjct: 132 SEHEASRRLKTEFLVEFDGLPGNPDGDRIVVLAATNRPQELDEAALR--RFTKRVYVSLP 189
Query: 553 GCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFRE 606
+ R +L+ +K P E LA GY G+DL AL +AA+ RE
Sbjct: 190 DEQTRELLLNRLLQKQGSPLDTEALRRLAKITDGYSGSDLTALAKDAALEPIRE 243
>pdb|3LXJ|A Chain A, Crystal Structure Of The Bromodomain Of Human Aaa Domain
Containing 2b (Atad2b)
pdb|3LXJ|B Chain B, Crystal Structure Of The Bromodomain Of Human Aaa Domain
Containing 2b (Atad2b)
pdb|3LXJ|C Chain C, Crystal Structure Of The Bromodomain Of Human Aaa Domain
Containing 2b (Atad2b)
pdb|3LXJ|D Chain D, Crystal Structure Of The Bromodomain Of Human Aaa Domain
Containing 2b (Atad2b)
Length = 136
Score = 99.0 bits (245), Expect = 2e-20, Method: Composition-based stats.
Identities = 48/125 (38%), Positives = 79/125 (63%), Gaps = 2/125 (1%)
Query: 890 EAEQHALRRLRMCLRDVCNRMLYDKRFSAFHYPVTDEDAPNYRSIIQNPMDLATLLQRVD 949
+ E++ LR LR+ LRDV R+ DKRF+ F PV E+ +Y +I+ PMDL+T++ ++D
Sbjct: 4 DQEENTLRELRLFLRDVTKRLATDKRFNIFSKPVDIEEVSDYLEVIKEPMDLSTVITKID 63
Query: 950 SGHYVTCSAFLQDVDLIVTNAKAYNGNDYNGTRIVS-RGYELRDAVHGML-SQMDPALVS 1007
+Y+T FL+D+DLI +NA YN + G +I+ R L+D H ++ +++DP
Sbjct: 64 KHNYLTAKDFLKDIDLICSNALEYNPDKDPGDKIIRHRACTLKDTAHAIIAAELDPEFNK 123
Query: 1008 YCDKI 1012
C++I
Sbjct: 124 LCEEI 128
>pdb|2DKW|A Chain A, Solution Structure Of The Bromodomain Of Human Protein
Kiaa1240
Length = 131
Score = 91.7 bits (226), Expect = 3e-18, Method: Composition-based stats.
Identities = 47/121 (38%), Positives = 75/121 (61%), Gaps = 7/121 (5%)
Query: 894 HALRRLRMCLRDVCNRMLYDKRFSAFHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHY 953
+ LR LR+ LRDV R+ DKRF+ F PV+D Y +I+ PMDL+T++ ++D +Y
Sbjct: 8 NTLRELRLFLRDVTKRLATDKRFNIFSKPVSD-----YLEVIKEPMDLSTVITKIDKHNY 62
Query: 954 VTCSAFLQDVDLIVTNAKAYNGNDYNGTRIVS-RGYELRDAVHGML-SQMDPALVSYCDK 1011
+T FL+D+DLI +NA YN + G +I+ R L+D H ++ +++DP C++
Sbjct: 63 LTAKDFLKDIDLICSNALEYNPDKDPGDKIIRHRACTLKDTAHAIIAAELDPEFNKLCEE 122
Query: 1012 I 1012
I
Sbjct: 123 I 123
>pdb|3DAI|A Chain A, Crystal Structure Of The Bromodomain Of The Human Atad2
Length = 130
Score = 89.0 bits (219), Expect = 1e-17, Method: Compositional matrix adjust.
Identities = 43/123 (34%), Positives = 75/123 (60%), Gaps = 2/123 (1%)
Query: 892 EQHALRRLRMCLRDVCNRMLYDKRFSAFHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSG 951
E+ R LR+ LR+V +R+ DKRF F PV ++ P+Y ++I+ PMDL++++ ++D
Sbjct: 4 EEDTFRELRIFLRNVTHRLAIDKRFRVFTKPVDPDEVPDYVTVIKQPMDLSSVISKIDLH 63
Query: 952 HYVTCSAFLQDVDLIVTNAKAYNGNDYNGTRIV-SRGYELRDAVHGML-SQMDPALVSYC 1009
Y+T +L+D+DLI +NA YN + G R++ R LRD + ++ ++D C
Sbjct: 64 KYLTVKDYLRDIDLICSNALEYNPDRDPGDRLIRHRACALRDTAYAIIKEELDEDFEQLC 123
Query: 1010 DKI 1012
++I
Sbjct: 124 EEI 126
>pdb|3AAD|A Chain A, Structure Of The Histone Chaperone Cia/asf1-double
Bromodomain Complex Linking Histone Modifications And
Site-specific Histone Eviction
Length = 292
Score = 58.9 bits (141), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 48/87 (55%), Gaps = 3/87 (3%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDY 978
FH+PV + P+Y +I NPMDL T+ + + Y + +FL DV+LI+ N+ YNG +
Sbjct: 191 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 250
Query: 979 NGTRIVSRGYELRDAVHGMLSQMDPAL 1005
T+ E+ + + L++ D L
Sbjct: 251 QYTKTAQ---EIVNVCYQTLTEYDEHL 274
Score = 47.4 bits (111), Expect = 5e-05, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 39/74 (52%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDY 978
FH PV + +Y II PMDL TL + V Y + F + ++LIV N+ YNG +
Sbjct: 68 FHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKH 127
Query: 979 NGTRIVSRGYELRD 992
+ T+I +L D
Sbjct: 128 SLTQISQSMLDLCD 141
>pdb|3UV4|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
pdb|3UV4|B Chain B, Crystal Structure Of The Second Bromodomain Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
Length = 158
Score = 58.5 bits (140), Expect = 2e-08, Method: Composition-based stats.
Identities = 29/87 (33%), Positives = 48/87 (55%), Gaps = 3/87 (3%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDY 978
FH+PV + P+Y +I NPMDL T+ + + Y + +FL DV+LI+ N+ YNG +
Sbjct: 51 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 110
Query: 979 NGTRIVSRGYELRDAVHGMLSQMDPAL 1005
T+ E+ + + L++ D L
Sbjct: 111 QYTKTAQ---EIVNVCYQTLTEYDEHL 134
>pdb|1EQF|A Chain A, Crystal Structure Of The Double Bromodomain Module From
Human Tafii250
Length = 280
Score = 56.6 bits (135), Expect = 7e-08, Method: Composition-based stats.
Identities = 29/87 (33%), Positives = 48/87 (55%), Gaps = 3/87 (3%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDY 978
FH+PV + P+Y +I NPMDL T+ + + Y + +FL DV+LI+ N+ YNG +
Sbjct: 170 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 229
Query: 979 NGTRIVSRGYELRDAVHGMLSQMDPAL 1005
T+ E+ + + L++ D L
Sbjct: 230 QYTKTAQ---EIVNVCYQTLTEYDEHL 253
Score = 47.8 bits (112), Expect = 4e-05, Method: Composition-based stats.
Identities = 27/74 (36%), Positives = 39/74 (52%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDY 978
FH PV + +Y II PMDL TL + V Y + F + ++LIV N+ YNG +
Sbjct: 47 FHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKH 106
Query: 979 NGTRIVSRGYELRD 992
+ T+I +L D
Sbjct: 107 SLTQISQSMLDLCD 120
>pdb|3UV5|A Chain A, Crystal Structure Of The Tandem Bromodomains Of Human
Transcription Initiation Factor Tfiid Subunit 1 (Taf1)
Length = 265
Score = 56.6 bits (135), Expect = 7e-08, Method: Composition-based stats.
Identities = 29/87 (33%), Positives = 48/87 (55%), Gaps = 3/87 (3%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDY 978
FH+PV + P+Y +I NPMDL T+ + + Y + +FL DV+LI+ N+ YNG +
Sbjct: 158 FHHPVNKKFVPDYYKVIVNPMDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 217
Query: 979 NGTRIVSRGYELRDAVHGMLSQMDPAL 1005
T+ E+ + + L++ D L
Sbjct: 218 QYTKTAQ---EIVNVCYQTLTEYDEHL 241
Score = 47.8 bits (112), Expect = 4e-05, Method: Composition-based stats.
Identities = 27/74 (36%), Positives = 39/74 (52%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDY 978
FH PV + +Y II PMDL TL + V Y + F + ++LIV N+ YNG +
Sbjct: 35 FHTPVNAKVVKDYYKIITRPMDLQTLRENVRKRLYPSREEFREHLELIVKNSATYNGPKH 94
Query: 979 NGTRIVSRGYELRD 992
+ T+I +L D
Sbjct: 95 SLTQISQSMLDLCD 108
>pdb|3QZS|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form I
pdb|3QZS|B Chain B, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form I
Length = 115
Score = 55.8 bits (133), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 51/99 (51%), Gaps = 7/99 (7%)
Query: 879 GPKASELKAKVEAEQHALRRLRMCLRDVCNRMLYDKRFSAFHYPVTDEDAPNYRSIIQNP 938
GP S L E + L+R+ L+ ++M + F PV DAP+Y +I+ P
Sbjct: 1 GPLGSVLTPLTEKDYEGLKRVLRSLQ--AHKMAW-----PFLEPVDPNDAPDYYGVIKEP 53
Query: 939 MDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGND 977
MDLAT+ +RV +Y + F+ D+ I N + YN +D
Sbjct: 54 MDLATMEERVQRRYYEKLTEFVADMTAIFDNCRYYNPSD 92
>pdb|3HMH|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Tbp-Associated Factor Rna Polymerase 1-Like (Taf1l)
Length = 155
Score = 55.5 bits (132), Expect = 2e-07, Method: Composition-based stats.
Identities = 24/64 (37%), Positives = 39/64 (60%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDY 978
FH+PV + P+Y +I NP+DL T+ + + Y + +FL DV+LI+ N+ YNG +
Sbjct: 48 FHHPVNKKFVPDYYKMIVNPVDLETIRKNISKHKYQSRESFLDDVNLILANSVKYNGPES 107
Query: 979 NGTR 982
T+
Sbjct: 108 QYTK 111
>pdb|3QZT|A Chain A, Crystal Structure Of Bptf Bromo In Complex With Histone
H4k16ac - Form Ii
Length = 115
Score = 55.5 bits (132), Expect = 2e-07, Method: Compositional matrix adjust.
Identities = 33/99 (33%), Positives = 51/99 (51%), Gaps = 7/99 (7%)
Query: 879 GPKASELKAKVEAEQHALRRLRMCLRDVCNRMLYDKRFSAFHYPVTDEDAPNYRSIIQNP 938
GP S L E + L+R+ L+ ++M + F PV DAP+Y +I+ P
Sbjct: 1 GPLGSVLTPLTEKDYEGLKRVLRSLQ--AHKMAW-----PFLEPVDPNDAPDYYGVIKEP 53
Query: 939 MDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGND 977
MDLAT+ +RV +Y + F+ D+ I N + YN +D
Sbjct: 54 MDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSD 92
>pdb|3Q2E|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Bromodomain And Wd Repeat-Containing Protein 1 Isoform A
(Wdr9)
Length = 123
Score = 53.9 bits (128), Expect = 5e-07, Method: Composition-based stats.
Identities = 25/58 (43%), Positives = 36/58 (62%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGN 976
F PV + P+YR II PMD T+ + +D+G+Y + F +D+ LI +NAKAY N
Sbjct: 31 FRQPVDLVEYPDYRDIIDTPMDFGTVRETLDAGNYDSPLEFCKDIRLIFSNAKAYTPN 88
>pdb|3D7C|A Chain A, Crystal Structure Of The Bromodomain Of Human Gcn5, The
General Control Of Amino-Acid Synthesis Protein 5-Like 2
pdb|3D7C|B Chain B, Crystal Structure Of The Bromodomain Of Human Gcn5, The
General Control Of Amino-Acid Synthesis Protein 5-Like 2
Length = 112
Score = 52.8 bits (125), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 38/67 (56%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDY 978
F PV +AP+Y +I+ P+DL T+ +R+ S +YVT F+ D+ ++ N + YN D
Sbjct: 28 FMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPDS 87
Query: 979 NGTRIVS 985
R S
Sbjct: 88 EYCRCAS 94
>pdb|3RCW|A Chain A, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|B Chain B, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|C Chain C, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|D Chain D, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|E Chain E, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|F Chain F, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|G Chain G, Crystal Structure Of The Bromodomain Of Human Brd1
pdb|3RCW|H Chain H, Crystal Structure Of The Bromodomain Of Human Brd1
Length = 135
Score = 52.4 bits (124), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 31/94 (32%), Positives = 48/94 (51%), Gaps = 3/94 (3%)
Query: 899 LRMCLRDVCNRMLYDKRFSAFHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSA 958
L + LR V +++ F PV+ ++ P+Y I++PMD AT+ +R+++ Y
Sbjct: 14 LTVLLRSVLDQLQDKDPARIFAQPVSLKEVPDYLDHIKHPMDFATMRKRLEAQGYKNLHE 73
Query: 959 FLQDVDLIVTNAKAYNGNDYNGTRIVSRGYELRD 992
F +D DLI+ N YN D R R LRD
Sbjct: 74 FEEDFDLIIDNCMKYNARDTVFYRAAVR---LRD 104
>pdb|3UV2|A Chain A, Crystal Structure Of The Bromodomain Of Human
Nucleosome-Remodeling Factor Subunit Bptf
Length = 126
Score = 52.0 bits (123), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 35/59 (59%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGND 977
F PV DAP+Y +I+ PMDLAT+ +RV +Y + F+ D+ I N + YN +D
Sbjct: 41 FLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSD 99
>pdb|3HMF|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 52.0 bits (123), Expect = 2e-06, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 32/46 (69%)
Query: 929 PNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN 974
P+Y +II+ P+DL T+ QR+ +G Y + A +D+DL+ NAK YN
Sbjct: 43 PDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYN 88
>pdb|3LJW|A Chain A, Crystal Structure Of The Second Bromodomain Of Human
Polybromo
pdb|3LJW|B Chain B, Crystal Structure Of The Second Bromodomain Of Human
Polybromo
Length = 120
Score = 51.6 bits (122), Expect = 2e-06, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 32/46 (69%)
Query: 929 PNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN 974
P+Y +II+ P+DL T+ QR+ +G Y + A +D+DL+ NAK YN
Sbjct: 45 PDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYN 90
>pdb|2KTB|B Chain B, Solution Structure Of The Second Bromodomain Of Human
Polybr Complex With An Acetylated Peptide From Histone 3
Length = 121
Score = 51.6 bits (122), Expect = 2e-06, Method: Composition-based stats.
Identities = 21/46 (45%), Positives = 32/46 (69%)
Query: 929 PNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN 974
P+Y +II+ P+DL T+ QR+ +G Y + A +D+DL+ NAK YN
Sbjct: 46 PDYYAIIKEPIDLKTIAQRIQNGSYKSIHAMAKDIDLLAKNAKTYN 91
>pdb|2RI7|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain Y17e
Mutant From Human Bptf In The H3(1-9)k4me2 Bound State
Length = 174
Score = 51.6 bits (122), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 35/59 (59%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGND 977
F PV DAP+Y +I+ PMDLAT+ +RV +Y + F+ D+ I N + YN +D
Sbjct: 93 FLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSD 151
>pdb|3QZV|A Chain A, Crystal Structure Of Bptf Phd-Linker-Bromo In Complex With
Histone H4k12ac Peptide
Length = 174
Score = 51.2 bits (121), Expect = 3e-06, Method: Compositional matrix adjust.
Identities = 24/59 (40%), Positives = 35/59 (59%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGND 977
F PV DAP+Y +I+ PMDLAT+ +RV +Y + F+ D+ I N + YN +D
Sbjct: 93 FLEPVDPNDAPDYYGVIKEPMDLATMEERVQRRYYEKLTEFVADMTKIFDNCRYYNPSD 151
>pdb|1F68|A Chain A, Nmr Solution Structure Of The Bromodomain From Human Gcn5
Length = 103
Score = 51.2 bits (121), Expect = 3e-06, Method: Composition-based stats.
Identities = 24/67 (35%), Positives = 38/67 (56%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDY 978
F PV +AP+Y +I+ P+DL T+ +R+ S +YVT F+ D+ ++ N + YN D
Sbjct: 24 FMEPVKKSEAPDYYEVIRFPIDLKTMTERLRSRYYVTRKLFVADLQRVIANCREYNPPDS 83
Query: 979 NGTRIVS 985
R S
Sbjct: 84 EYCRCAS 90
>pdb|3NXB|A Chain A, Crystal Structure Of The Bromodomain Of Human Cecr2
pdb|3NXB|B Chain B, Crystal Structure Of The Bromodomain Of Human Cecr2
Length = 116
Score = 50.8 bits (120), Expect = 4e-06, Method: Composition-based stats.
Identities = 22/65 (33%), Positives = 38/65 (58%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDY 978
F PV + APNY II+ PMD++++ ++++ G Y T F+ D+ + N + YNG
Sbjct: 37 FLEPVDESYAPNYYQIIKAPMDISSMEKKLNGGLYCTKEEFVNDMKTMFRNCRKYNGESS 96
Query: 979 NGTRI 983
T++
Sbjct: 97 EYTKM 101
>pdb|3HME|A Chain A, Crystal Structure Of Human Bromodomain Containing 9
Isoform 1 (Brd9)
pdb|3HME|B Chain B, Crystal Structure Of Human Bromodomain Containing 9
Isoform 1 (Brd9)
Length = 123
Score = 50.8 bits (120), Expect = 4e-06, Method: Composition-based stats.
Identities = 30/95 (31%), Positives = 45/95 (47%), Gaps = 3/95 (3%)
Query: 883 SELKAKVEAEQHALRRLRMCLRDVCNRMLYDKRFSAFHYPVTDEDAPNYRSIIQNPMDLA 942
S LK E E +++L L ++ F +PVTD AP Y II++PMD
Sbjct: 1 SMLKLSAENESTPIQQL---LEHFLRQLQRKDPHGFFAFPVTDAIAPGYSMIIKHPMDFG 57
Query: 943 TLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGND 977
T+ ++ + Y + + F D L+ NA YN D
Sbjct: 58 TMKDKIVANEYKSVTEFKADFKLMCDNAMTYNRPD 92
>pdb|2L5E|A Chain A, Complex Between Bd1 Of Brd3 And Gata-1 C-Tail
Length = 128
Score = 50.4 bits (119), Expect = 6e-06, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 46/75 (61%), Gaps = 3/75 (4%)
Query: 903 LRDVCNRMLYDKRFS-AFHYPV--TDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAF 959
+++V + L+ +F+ F+ PV + P+Y II+NPMD+ T+ +R+++ +Y + S
Sbjct: 23 MQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASEC 82
Query: 960 LQDVDLIVTNAKAYN 974
+QD + + TN YN
Sbjct: 83 MQDFNTMFTNCYIYN 97
>pdb|2NXB|A Chain A, Crystal Structure Of Human Bromodomain Containing Protein
3 (Brd3)
pdb|2NXB|B Chain B, Crystal Structure Of Human Bromodomain Containing Protein
3 (Brd3)
pdb|3S91|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd3
In Complex With The Inhibitor Jq1
Length = 123
Score = 50.4 bits (119), Expect = 6e-06, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 46/75 (61%), Gaps = 3/75 (4%)
Query: 903 LRDVCNRMLYDKRFS-AFHYPV--TDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAF 959
+++V + L+ +F+ F+ PV + P+Y II+NPMD+ T+ +R+++ +Y + S
Sbjct: 21 MQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASEC 80
Query: 960 LQDVDLIVTNAKAYN 974
+QD + + TN YN
Sbjct: 81 MQDFNTMFTNCYIYN 95
>pdb|1E6I|A Chain A, Bromodomain From Gcn5 Complexed With Acetylated H4 Peptide
Length = 121
Score = 50.1 bits (118), Expect = 7e-06, Method: Composition-based stats.
Identities = 22/68 (32%), Positives = 37/68 (54%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDY 978
F PV E+ P+Y I+ PMDL+T+ +++S Y F+ D L+ N + YNG +
Sbjct: 34 FLQPVNKEEVPDYYDFIKEPMDLSTMEIKLESNKYQKMEDFIYDARLVFNNCRMYNGENT 93
Query: 979 NGTRIVSR 986
+ + +R
Sbjct: 94 SYYKYANR 101
>pdb|3MB3|A Chain A, Crystal Structure Of The Second Bromodomain Of Pleckstrin
Homology Domain Interacting Protein (Phip)
Length = 135
Score = 50.1 bits (118), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 31/91 (34%), Positives = 48/91 (52%), Gaps = 6/91 (6%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDY 978
F PV + P+YR II PMD AT+ + +++G+Y + +DV LI +N+KAY +
Sbjct: 42 FRQPVDLLEYPDYRDIIDTPMDFATVRETLEAGNYESPMELCKDVRLIFSNSKAYTPS-- 99
Query: 979 NGTRIVSRGYEL----RDAVHGMLSQMDPAL 1005
+RI S L + + +LS AL
Sbjct: 100 KRSRIYSMSLRLSAFFEEHISSVLSDYKSAL 130
>pdb|2YW5|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Containing Protein 3
Length = 138
Score = 49.7 bits (117), Expect = 1e-05, Method: Composition-based stats.
Identities = 24/75 (32%), Positives = 46/75 (61%), Gaps = 3/75 (4%)
Query: 903 LRDVCNRMLYDKRFS-AFHYPV--TDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAF 959
+++V + L+ +F+ F+ PV + P+Y II+NPMD+ T+ +R+++ +Y + S
Sbjct: 25 MQNVVVKTLWKHQFAWPFYQPVDAIKLNLPDYHKIIKNPMDMGTIKKRLENNYYWSASEC 84
Query: 960 LQDVDLIVTNAKAYN 974
+QD + + TN YN
Sbjct: 85 MQDFNTMFTNCYIYN 99
>pdb|1N72|A Chain A, Structure And Ligand Of A Histone Acetyltransferase
Bromodomain
pdb|1JM4|B Chain B, Nmr Structure Of PCAF BROMODOMAIN IN COMPLEX WITH HIV-1
Tat Peptide
pdb|1WUG|A Chain A, Complex Structure Of Pcaf Bromodomain With Small Chemical
Ligand Np1
pdb|1WUM|A Chain A, Complex Structure Of Pcaf Bromodomain With Small Chemical
Ligand Np2
pdb|1ZS5|A Chain A, Structure-Based Evaluation Of Selective And Non-Selective
Small Molecules That Block Hiv-1 Tat And Pcaf
Association
pdb|2RNW|A Chain A, The Structural Basis For Site-Specific Lysine-Acetylated
Histone Recognition By The Bromodomains Of The Human
Transcriptional Co-Activators Pcaf And Cbp
pdb|2RNX|A Chain A, The Structural Basis For Site-Specific Lysine-Acetylated
Histone Recognition By The Bromodomains Of The Human
Transcriptional Co-Activators Pcaf And Cbp
Length = 118
Score = 49.3 bits (116), Expect = 1e-05, Method: Composition-based stats.
Identities = 22/56 (39%), Positives = 34/56 (60%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN 974
F PV +AP Y +I+ PMDL T+ +R+ + +YV+ F+ D+ + TN K YN
Sbjct: 34 FMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYN 89
>pdb|3GG3|A Chain A, Crystal Structure Of The Bromodomain Of Human Pcaf
pdb|3GG3|B Chain B, Crystal Structure Of The Bromodomain Of Human Pcaf
Length = 119
Score = 48.9 bits (115), Expect = 2e-05, Method: Composition-based stats.
Identities = 22/56 (39%), Positives = 34/56 (60%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN 974
F PV +AP Y +I+ PMDL T+ +R+ + +YV+ F+ D+ + TN K YN
Sbjct: 36 FMEPVKRTEAPGYYEVIRFPMDLKTMSERLKNRYYVSKKLFMADLQRVFTNCKEYN 91
>pdb|2I7K|A Chain A, Solution Structure Of The Bromodomain Of Human Brd7
Protein
Length = 117
Score = 48.5 bits (114), Expect = 2e-05, Method: Composition-based stats.
Identities = 26/67 (38%), Positives = 38/67 (56%), Gaps = 1/67 (1%)
Query: 909 RMLYDKRFSAF-HYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIV 967
R L K SAF +PVTD AP Y II++PMD +T+ +++ + Y + + L+
Sbjct: 18 RQLQRKDPSAFFSFPVTDFIAPGYSMIIKHPMDFSTMKEKIKNNDYQSIEELKDNFKLMC 77
Query: 968 TNAKAYN 974
TNA YN
Sbjct: 78 TNAMIYN 84
>pdb|2E7O|A Chain A, Solution Structure Of The Bromodomain From Human
Bromodomain Adjacent To Zinc Finger Domain 2b
Length = 112
Score = 48.5 bits (114), Expect = 2e-05, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 33/59 (55%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGND 977
F PV + P Y+ +I+ PMD +T+ +++ SG Y F DV L+ N + +N +D
Sbjct: 31 FLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDD 89
>pdb|3G0L|A Chain A, Crystal Structure Of Human Bromodomain Adjacent To Zinc
Finger Domain 2b (Baz2b)
pdb|3Q2F|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With A Triazolo Ligand
pdb|4IR3|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With 1-
[7-amino-1-(pyrimidin-2-yl)indolizin-3-yl]ethanone
(gsk2833282a)
pdb|4IR4|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With 1-
[7-(morpholin-4-yl)-1-(pyridin-2-yl)indolizin-3-
yl]ethanone (gsk2834113a)
pdb|4IR5|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With 1-
{1-[2-(hydroxymethyl)phenyl]-7-phenoxyindolizin-3-
yl}ethanone (gsk2847449a)
pdb|4IR6|A Chain A, Crystal Structure Of The Bromodomain Of Human Baz2b In
Complex With 1-
{1-[2-(methylsulfonyl)phenyl]-7-phenoxyindolizin-3-
yl}ethanone (gsk2838097a)
Length = 117
Score = 47.8 bits (112), Expect = 4e-05, Method: Composition-based stats.
Identities = 20/59 (33%), Positives = 33/59 (55%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGND 977
F PV + P Y+ +I+ PMD +T+ +++ SG Y F DV L+ N + +N +D
Sbjct: 34 FLLPVNLKLVPGYKKVIKKPMDFSTIREKLSSGQYPNLETFALDVRLVFDNCETFNEDD 92
>pdb|2F6J|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6J|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6J|C Chain C, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me3 Bound State
pdb|2F6N|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The Free Form
pdb|2F6N|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The Free Form
pdb|2FSA|A Chain A, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
pdb|2FSA|B Chain B, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
pdb|2FSA|C Chain C, Crystal Structure Of Phd Finger-Linker-Bromodomain
Fragment Of Human Bptf In The H3(1-15)k4me2 Bound State
Length = 174
Score = 47.4 bits (111), Expect = 5e-05, Method: Composition-based stats.
Identities = 26/75 (34%), Positives = 37/75 (49%)
Query: 903 LRDVCNRMLYDKRFSAFHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQD 962
L+ V + K F PV DAP+Y +I+ P DLAT +RV +Y + F+ D
Sbjct: 77 LKRVLRSLQAHKXAWPFLEPVDPNDAPDYYGVIKEPXDLATXEERVQRRYYEKLTEFVAD 136
Query: 963 VDLIVTNAKAYNGND 977
I N + YN +D
Sbjct: 137 XTKIFDNCRYYNPSD 151
>pdb|3I3J|A Chain A, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|B Chain B, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|C Chain C, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|D Chain D, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|E Chain E, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|F Chain F, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|G Chain G, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|H Chain H, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|I Chain I, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|J Chain J, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|K Chain K, Crystal Structure Of The Bromodomain Of Human Ep300
pdb|3I3J|L Chain L, Crystal Structure Of The Bromodomain Of Human Ep300
Length = 124
Score = 47.0 bits (110), Expect = 6e-05, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 44/80 (55%), Gaps = 8/80 (10%)
Query: 929 PNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDYNGTRIVSRGY 988
P+Y I+++PMDL+T+ +++D+G Y ++ D+ L+ NA YN R SR Y
Sbjct: 50 PDYFDIVKSPMDLSTIKRKLDTGQYQEPWQYVDDIWLMFNNAWLYN-------RKTSRVY 102
Query: 989 ELRDAVHGMLSQ-MDPALVS 1007
+ + + Q +DP + S
Sbjct: 103 KYCSKLSEVFEQEIDPVMQS 122
>pdb|2E7N|A Chain A, Solution Structure Of The Second Bromodomain From Human
Bromodomain-Containing Protein 3
Length = 117
Score = 47.0 bits (110), Expect = 6e-05, Method: Composition-based stats.
Identities = 32/109 (29%), Positives = 55/109 (50%), Gaps = 11/109 (10%)
Query: 899 LRMCLRDVCNRMLYDKRFSAFHYPV---TDEDA---PNYRSIIQNPMDLATLLQRVDSGH 952
LR C D R + K+ +A+ +P D +A +Y II++PMDL+T+ +++D
Sbjct: 14 LRYC--DSILREMLSKKHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGRE 71
Query: 953 YVTCSAFLQDVDLIVTNAKAYNGNDYNGTRIVSRGYELRDAVHGMLSQM 1001
Y F DV L+ +N YN D+ +V+ +L+D ++M
Sbjct: 72 YPDAQGFAADVRLMFSNCYKYNPPDH---EVVAMARKLQDVFEMRFAKM 117
>pdb|2OO1|A Chain A, Crystal Structure Of The Bromo Domain 2 Of Human Bromodomain
Containing Protein 3 (Brd3)
pdb|2OO1|B Chain B, Crystal Structure Of The Bromo Domain 2 Of Human Bromodomain
Containing Protein 3 (Brd3)
pdb|2OO1|C Chain C, Crystal Structure Of The Bromo Domain 2 Of Human Bromodomain
Containing Protein 3 (Brd3)
pdb|2OO1|D Chain D, Crystal Structure Of The Bromo Domain 2 Of Human Bromodomain
Containing Protein 3 (Brd3)
pdb|3S92|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd3 In
Complex With The Inhibitor Jq1
Length = 113
Score = 47.0 bits (110), Expect = 7e-05, Method: Composition-based stats.
Identities = 32/109 (29%), Positives = 55/109 (50%), Gaps = 11/109 (10%)
Query: 899 LRMCLRDVCNRMLYDKRFSAFHYPV---TDEDA---PNYRSIIQNPMDLATLLQRVDSGH 952
LR C D R + K+ +A+ +P D +A +Y II++PMDL+T+ +++D
Sbjct: 9 LRYC--DSILREMLSKKHAAYAWPFYKPVDAEALELHDYHDIIKHPMDLSTVKRKMDGRE 66
Query: 953 YVTCSAFLQDVDLIVTNAKAYNGNDYNGTRIVSRGYELRDAVHGMLSQM 1001
Y F DV L+ +N YN D+ +V+ +L+D ++M
Sbjct: 67 YPDAQGFAADVRLMFSNCYKYNPPDH---EVVAMARKLQDVFEMRFAKM 112
>pdb|2D9E|A Chain A, Solution Structure Of The Bromodomain Of Peregrin
pdb|2RS9|B Chain B, Solution Structure Of The Bromodomain Of Human Brpf1 In
Complex With Histone H4k5ac Peptide
Length = 121
Score = 46.6 bits (109), Expect = 9e-05, Method: Compositional matrix adjust.
Identities = 21/59 (35%), Positives = 32/59 (54%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGND 977
F PV + P+Y I+ PMD T+ Q +++ Y+ F +D +LIV+N YN D
Sbjct: 28 FSEPVPLSEVPDYLDHIKKPMDFFTMKQNLEAYRYLNFDDFEEDFNLIVSNCLKYNAKD 86
>pdb|2RFJ|A Chain A, Crystal Structure Of The Bromo Domain 1 In Human Bromodomain
Containing Protein, Testis Specific (Brdt)
pdb|2RFJ|B Chain B, Crystal Structure Of The Bromo Domain 1 In Human Bromodomain
Containing Protein, Testis Specific (Brdt)
pdb|2RFJ|C Chain C, Crystal Structure Of The Bromo Domain 1 In Human Bromodomain
Containing Protein, Testis Specific (Brdt)
pdb|4FLP|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brdt In
Complex With The Inhibitor Jq1
pdb|4FLP|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brdt In
Complex With The Inhibitor Jq1
Length = 119
Score = 46.6 bits (109), Expect = 9e-05, Method: Composition-based stats.
Identities = 33/102 (32%), Positives = 50/102 (49%), Gaps = 6/102 (5%)
Query: 903 LRDVCNRMLYDKRFS-AFHYPV--TDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAF 959
L+ V + L+ FS F PV P+Y +II+NPMDL T+ +R+++ +Y S
Sbjct: 17 LQKVVLKDLWKHSFSWPFQRPVDAVKLQLPDYYTIIKNPMDLNTIKKRLENKYYAKASEC 76
Query: 960 LQDVDLIVTNAKAYNGNDYNGTRIVSRGYELRDAVHGMLSQM 1001
++D + + +N YN G IV L LSQM
Sbjct: 77 IEDFNTMFSNCYLYNK---PGDDIVLMAQALEKLFMQKLSQM 115
>pdb|1JSP|B Chain B, Nmr Structure Of Cbp Bromodomain In Complex With P53 Peptide
pdb|2D82|A Chain A, Target Structure-Based Discovery Of Small Molecules That
Block Human P53 And Creb Binding Protein (Cbp)
Association
pdb|2RNY|A Chain A, Complex Structures Of Cbp Bromodomain With H4 Ack20 Peptide
pdb|2L84|A Chain A, Solution Nmr Structures Of Cbp Bromodomain With Small
Molecule J28
pdb|2L85|A Chain A, Solution Nmr Structures Of Cbp Bromodomain With Small
Molecule Of Hbs
Length = 121
Score = 45.8 bits (107), Expect = 2e-04, Method: Composition-based stats.
Identities = 27/80 (33%), Positives = 44/80 (55%), Gaps = 8/80 (10%)
Query: 929 PNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDYNGTRIVSRGY 988
P+Y I++NPMDL+T+ +++D+G Y ++ DV L+ NA YN R SR Y
Sbjct: 47 PDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYN-------RKTSRVY 99
Query: 989 ELRDAVHGMLSQ-MDPALVS 1007
+ + + Q +DP + S
Sbjct: 100 KFCSKLAEVFEQEIDPVMQS 119
>pdb|3DWY|A Chain A, Crystal Structure Of The Bromodomain Of Human Crebbp
pdb|3DWY|B Chain B, Crystal Structure Of The Bromodomain Of Human Crebbp
pdb|3P1C|A Chain A, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With Acetylated Lysine
pdb|3P1C|B Chain B, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With Acetylated Lysine
pdb|3P1D|A Chain A, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With N-Methyl-2-Pyrrolidone (Nmp)
pdb|3P1D|B Chain B, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With N-Methyl-2-Pyrrolidone (Nmp)
pdb|3P1E|A Chain A, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With Dimethyl Sulfoxide (Dmso)
pdb|3P1E|B Chain B, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With Dimethyl Sulfoxide (Dmso)
pdb|3P1F|A Chain A, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With A Hydroquinazolin Ligand
pdb|3P1F|B Chain B, Crystal Structure Of The Bromodomain Of Human Crebbp In
Complex With A Hydroquinazolin Ligand
pdb|3SVH|A Chain A, Crystal Structure Of The Bromdomain Of Human Crebbp In
Complex With A 3,5-Dimethylisoxazol Ligand
pdb|3SVH|B Chain B, Crystal Structure Of The Bromdomain Of Human Crebbp In
Complex With A 3,5-Dimethylisoxazol Ligand
pdb|4A9K|A Chain A, Bromodomain Of Human Crebbp With N-(4-Hydroxyphenyl)
Acetamide
pdb|4A9K|B Chain B, Bromodomain Of Human Crebbp With N-(4-Hydroxyphenyl)
Acetamide
Length = 119
Score = 45.4 bits (106), Expect = 2e-04, Method: Composition-based stats.
Identities = 27/80 (33%), Positives = 44/80 (55%), Gaps = 8/80 (10%)
Query: 929 PNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGNDYNGTRIVSRGY 988
P+Y I++NPMDL+T+ +++D+G Y ++ DV L+ NA YN R SR Y
Sbjct: 45 PDYFDIVKNPMDLSTIKRKLDTGQYQEPWQYVDDVWLMFNNAWLYN-------RKTSRVY 97
Query: 989 ELRDAVHGMLSQ-MDPALVS 1007
+ + + Q +DP + S
Sbjct: 98 KFCSKLAEVFEQEIDPVMQS 117
>pdb|2YDW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd2
With The Inhibitor Gw841819x
pdb|2YDW|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brd2
With The Inhibitor Gw841819x
pdb|2YDW|C Chain C, Crystal Structure Of The First Bromodomain Of Human Brd2
With The Inhibitor Gw841819x
pdb|2YEK|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd2
With The Inhibitor Gsk525762 (Ibet)
pdb|2YEK|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brd2
With The Inhibitor Gsk525762 (Ibet)
pdb|2YEK|C Chain C, Crystal Structure Of The First Bromodomain Of Human Brd2
With The Inhibitor Gsk525762 (Ibet)
pdb|4AKN|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
Tbutyl-Phenyl-Amino-
Dimethyl-Oxazolyl-Quinoline-Carboxylic Acid
pdb|4AKN|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
Tbutyl-Phenyl-Amino-
Dimethyl-Oxazolyl-Quinoline-Carboxylic Acid
pdb|4AKN|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
Tbutyl-Phenyl-Amino-
Dimethyl-Oxazolyl-Quinoline-Carboxylic Acid
Length = 153
Score = 44.7 bits (104), Expect = 3e-04, Method: Composition-based stats.
Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 9/78 (11%)
Query: 903 LRDVCNRMLYDKRFS-AFHYPVTDEDA-----PNYRSIIQNPMDLATLLQRVDSGHYVTC 956
L V + L+ +F+ F PV DA P+Y II+ PMD+ T+ +R+++ +Y
Sbjct: 36 LHKVVMKALWKHQFAWPFRQPV---DAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAA 92
Query: 957 SAFLQDVDLIVTNAKAYN 974
S +QD + + TN YN
Sbjct: 93 SECMQDFNTMFTNCYIYN 110
>pdb|4A9E|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
3-Methyl-1,2,3,4- Tetrahydroquinazolin-2-One
pdb|4A9E|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
3-Methyl-1,2,3,4- Tetrahydroquinazolin-2-One
pdb|4A9E|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
3-Methyl-1,2,3,4- Tetrahydroquinazolin-2-One
pdb|4A9F|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
1-Methylpyrrolidin-2-One
pdb|4A9F|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
1-Methylpyrrolidin-2-One
pdb|4A9F|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
1-Methylpyrrolidin-2-One
pdb|4A9H|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
1-(2-Methyl-1,2,3, 4-Tetrahydroquinolin-1-Yl)ethan-1-One
pdb|4A9H|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
1-(2-Methyl-1,2,3, 4-Tetrahydroquinolin-1-Yl)ethan-1-One
pdb|4A9H|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
1-(2-Methyl-1,2,3, 4-Tetrahydroquinolin-1-Yl)ethan-1-One
pdb|4A9I|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
3-Methyl-1,2,3,4- Tetrahydroquinazolin-2-One
pdb|4A9I|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
3-Methyl-1,2,3,4- Tetrahydroquinazolin-2-One
pdb|4A9I|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
3-Methyl-1,2,3,4- Tetrahydroquinazolin-2-One
pdb|4A9J|A Chain A, N-Terminal Bromodomain Of Human Brd2 With N-(4-
Hydroxyphenyl)acetamide
pdb|4A9J|B Chain B, N-Terminal Bromodomain Of Human Brd2 With N-(4-
Hydroxyphenyl)acetamide
pdb|4A9J|C Chain C, N-Terminal Bromodomain Of Human Brd2 With N-(4-
Hydroxyphenyl)acetamide
pdb|4A9M|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
N-Cyclopentyl-5-(
3,5-Dimethyl-1,2-Oxazol-4-Yl)-2-Methylbenzene-1-
Sulfonamide
pdb|4A9M|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
N-Cyclopentyl-5-(
3,5-Dimethyl-1,2-Oxazol-4-Yl)-2-Methylbenzene-1-
Sulfonamide
pdb|4A9M|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
N-Cyclopentyl-5-(
3,5-Dimethyl-1,2-Oxazol-4-Yl)-2-Methylbenzene-1-
Sulfonamide
pdb|4A9N|A Chain A, N-Terminal Bromodomain Of Human Brd2 With
N-Cyclopropyl-5-(
3,5-Dimethyl-1,2-Oxazol-4-Yl)-2-Methylbenzene-1-
Sulfonamide
pdb|4A9N|B Chain B, N-Terminal Bromodomain Of Human Brd2 With
N-Cyclopropyl-5-(
3,5-Dimethyl-1,2-Oxazol-4-Yl)-2-Methylbenzene-1-
Sulfonamide
pdb|4A9N|C Chain C, N-Terminal Bromodomain Of Human Brd2 With
N-Cyclopropyl-5-(
3,5-Dimethyl-1,2-Oxazol-4-Yl)-2-Methylbenzene-1-
Sulfonamide
pdb|4A9O|A Chain A, N-Terminal Bromodomain Of Human Brd2 With 5
Ethyl-3-Methyl- 4-Phenyl-1,2-Oxazole
pdb|4A9O|B Chain B, N-Terminal Bromodomain Of Human Brd2 With 5
Ethyl-3-Methyl- 4-Phenyl-1,2-Oxazole
pdb|4A9O|C Chain C, N-Terminal Bromodomain Of Human Brd2 With 5
Ethyl-3-Methyl- 4-Phenyl-1,2-Oxazole
pdb|4ALH|A Chain A, N-Terminal Bromodomain Of Human Brd2 With 3,5 Dimethyl-4-
Phenyl-1,2-Oxazole
pdb|4ALH|B Chain B, N-Terminal Bromodomain Of Human Brd2 With 3,5 Dimethyl-4-
Phenyl-1,2-Oxazole
pdb|4ALH|C Chain C, N-Terminal Bromodomain Of Human Brd2 With 3,5 Dimethyl-4-
Phenyl-1,2-Oxazole
pdb|4ALG|A Chain A, N-Terminal Bromodomain Of Human Brd2 With Ibet-151
Length = 154
Score = 44.7 bits (104), Expect = 3e-04, Method: Composition-based stats.
Identities = 26/78 (33%), Positives = 42/78 (53%), Gaps = 9/78 (11%)
Query: 903 LRDVCNRMLYDKRFS-AFHYPVTDEDA-----PNYRSIIQNPMDLATLLQRVDSGHYVTC 956
L V + L+ +F+ F PV DA P+Y II+ PMD+ T+ +R+++ +Y
Sbjct: 36 LHKVVMKALWKHQFAWPFRQPV---DAVKLGLPDYHKIIKQPMDMGTIKRRLENNYYWAA 92
Query: 957 SAFLQDVDLIVTNAKAYN 974
S +QD + + TN YN
Sbjct: 93 SECMQDFNTMFTNCYIYN 110
>pdb|2WP2|A Chain A, Structure Of Brdt Bromodomain Bd1 Bound To A Diacetylated
Histone H4 Peptide.
pdb|2WP2|B Chain B, Structure Of Brdt Bromodomain Bd1 Bound To A Diacetylated
Histone H4 Peptide
Length = 120
Score = 44.3 bits (103), Expect = 4e-04, Method: Composition-based stats.
Identities = 32/102 (31%), Positives = 49/102 (48%), Gaps = 6/102 (5%)
Query: 903 LRDVCNRMLYDKRFS-AFHYPV--TDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAF 959
L+ V + L+ FS F PV P+Y +II+ PMDL T+ +R+++ +Y S
Sbjct: 18 LQRVVLKALWKHGFSWPFQQPVDAVKLKLPDYYTIIKTPMDLNTIKKRLENKYYEKASEC 77
Query: 960 LQDVDLIVTNAKAYNGNDYNGTRIVSRGYELRDAVHGMLSQM 1001
++D + + +N YN G IV L LSQM
Sbjct: 78 IEDFNTMFSNCYLYNK---TGDDIVVMAQALEKLFMQKLSQM 116
>pdb|2KRK|A Chain A, Solution Nmr Structure Of 26s Protease Regulatory Subunit
8 From H.Sapiens, Northeast Structural Genomics
Consortium Target Target Hr3102a
Length = 86
Score = 44.3 bits (103), Expect = 4e-04, Method: Compositional matrix adjust.
Identities = 27/74 (36%), Positives = 42/74 (56%), Gaps = 3/74 (4%)
Query: 552 PGCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKYPQV 611
P EAR +IL IH+RK L+ ++A G GA++K +CTEA + A RE+ +V
Sbjct: 11 PNEEARLDILKIHSRKMNLTRGINLR-KIAELMPGASGAEVKGVCTEAGMYALRER--RV 67
Query: 612 YTSDDKFLIDVDSV 625
+ + + F + V V
Sbjct: 68 HVTQEDFEMAVAKV 81
>pdb|2WP1|A Chain A, Structure Of Brdt Bromodomain 2 Bound To An Acetylated
Histone H3 Peptide
pdb|2WP1|B Chain B, Structure Of Brdt Bromodomain 2 Bound To An Acetylated
Histone H3 Peptide
Length = 126
Score = 44.3 bits (103), Expect = 5e-04, Method: Composition-based stats.
Identities = 32/101 (31%), Positives = 49/101 (48%), Gaps = 11/101 (10%)
Query: 898 RLRMCLRDVCNRMLYDKRFS---AFHYPVTDEDA---PNYRSIIQNPMDLATLLQRVDSG 951
+L+ C ++ ML K F+ PV D DA NY +++NPMDL T+ ++D+
Sbjct: 15 QLKHC-SEILKEMLAKKHLPYAWPFYNPV-DADALGLHNYYDVVKNPMDLGTIKGKMDNQ 72
Query: 952 HYVTCSAFLQDVDLIVTNAKAYNGNDYNGTRIVSRGYELRD 992
Y F DV L+ N YN D+ +V+ L+D
Sbjct: 73 EYKDAYEFAADVRLMFMNCYKYNPPDH---EVVAMARTLQD 110
>pdb|3O33|A Chain A, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|B Chain B, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|C Chain C, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O33|D Chain D, Crystal Structure Of Trim24 Phd-Bromo In The Free State
pdb|3O34|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(13-32)k23ac Peptide
pdb|3O35|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O35|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(23-31)k27ac Peptide
pdb|3O36|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O36|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H4(14-19)k16ac Peptide
pdb|3O37|A Chain A, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|B Chain B, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|C Chain C, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
pdb|3O37|D Chain D, Crystal Structure Of Trim24 Phd-Bromo Complexed With
H3(1-10)k4 Peptide
Length = 184
Score = 43.9 bits (102), Expect = 5e-04, Method: Composition-based stats.
Identities = 41/139 (29%), Positives = 61/139 (43%), Gaps = 14/139 (10%)
Query: 871 PKVPTVESGPKASELKAKVEAEQHALRRLRMCLRDVCNRML---YDKRFS-AFHYPVTDE 926
P+V P + K K E L +L + C R+L Y S AF PV
Sbjct: 54 PEVEYDCDAPSHNSEKKKTEG----LVKLTPIDKRKCERLLLFLYCHEMSLAFQDPVP-L 108
Query: 927 DAPNYRSIIQNPMDLATLLQRV--DSGHYVTCSAFLQDVDLIVTNAKAYNGNDYNGTRIV 984
P+Y II+NPMDL+T+ +R+ D Y F+ D LI N +N D + +
Sbjct: 109 TVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFVADFRLIFQNCAEFNEPD---SEVA 165
Query: 985 SRGYELRDAVHGMLSQMDP 1003
+ G +L + +L + P
Sbjct: 166 NAGIKLENYFEELLKNLYP 184
>pdb|3U5M|A Chain A, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|B Chain B, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|C Chain C, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|D Chain D, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|E Chain E, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|F Chain F, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|G Chain G, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|H Chain H, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|I Chain I, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|J Chain J, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|K Chain K, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5M|L Chain L, Crystal Structure Of Trim33 Phd-Bromo In The Free State
pdb|3U5N|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
pdb|3U5N|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-20) K9me3k14ac Histone Peptide
pdb|3U5O|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|C Chain C, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|D Chain D, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|E Chain E, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|F Chain F, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|G Chain G, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5O|H Chain H, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-22) K9me3k14ack18ac Histone Peptide
pdb|3U5P|A Chain A, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|B Chain B, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|C Chain C, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|D Chain D, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|E Chain E, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|F Chain F, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|G Chain G, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
pdb|3U5P|H Chain H, Crystal Structure Of The Complex Of Trim33 Phd-Bromo And
H3(1-28) K9me3k14ack18ack23ac Histone Peptide
Length = 207
Score = 43.9 bits (102), Expect = 5e-04, Method: Composition-based stats.
Identities = 30/75 (40%), Positives = 38/75 (50%), Gaps = 8/75 (10%)
Query: 907 CNRML---YDKRFS-AFHYPVTDEDAPNYRSIIQNPMDLATL---LQRVDSGHYVTCSAF 959
C R+L Y S F PV PNY II+ PMDL+T+ LQ+ S HY F
Sbjct: 86 CERLLLYLYCHELSIEFQEPVP-ASIPNYYKIIKKPMDLSTVKKKLQKKHSQHYQIPDDF 144
Query: 960 LQDVDLIVTNAKAYN 974
+ DV LI N + +N
Sbjct: 145 VADVRLIFKNCERFN 159
>pdb|4DON|A Chain A, Brd4 Bromodomain 1 Complex With A Fragment
3,4-dihydro-3-methyl-2(1h)- Quinazolinon
Length = 145
Score = 43.1 bits (100), Expect = 8e-04, Method: Composition-based stats.
Identities = 27/85 (31%), Positives = 47/85 (55%), Gaps = 6/85 (7%)
Query: 898 RLRMCLRDVCNRMLYDKRFS-AFHYPV--TDEDAPNYRSIIQNPMDLATLLQRVDSGHYV 954
+L+ LR V + L+ +F+ F PV + P+Y II+ PMD+ T+ +R+++ +Y
Sbjct: 41 QLQYLLR-VVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYW 99
Query: 955 TCSAFLQDVDLIVTNAKAYN--GND 977
+QD + + TN YN G+D
Sbjct: 100 NAQECIQDFNTMFTNCYIYNKPGDD 124
>pdb|2G4A|A Chain A, Solution Structure Of A Bromodomain From Ring3 Protein
Length = 116
Score = 42.7 bits (99), Expect = 0.001, Method: Composition-based stats.
Identities = 30/110 (27%), Positives = 58/110 (52%), Gaps = 11/110 (10%)
Query: 898 RLRMCLRDVCNRMLYDKRFSAFHYPV---TDEDA---PNYRSIIQNPMDLATLLQRVDSG 951
+L+ C +V + L K+ +A+ +P D A +Y II++PMDL+T+ +++++
Sbjct: 2 QLKHC--NVILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENR 59
Query: 952 HYVTCSAFLQDVDLIVTNAKAYNGNDYNGTRIVSRGYELRDAVHGMLSQM 1001
Y F DV L+ +N YN D++ +V+ +L+D ++M
Sbjct: 60 DYRDAQEFAADVRLMFSNCYKYNPPDHD---VVAMARKLQDVFEFRYAKM 106
>pdb|2OSS|A Chain A, Crystal Structure Of The Bromo Domain 1 In Human
Bromodomain Containing Protein 4 (Brd4)
pdb|3MXF|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With The Inhibitor Jq1
pdb|3P5O|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Ibet Inhibitor
pdb|2YEL|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
With The Inhibitor Gw841819x
pdb|3SVF|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Dihydro-Quinazolin Ligand
pdb|3SVG|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A 3,5-Dimethylisoxazol Ligand
pdb|3ZYU|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With I-Bet151(Gsk1210151a)
pdb|3ZYU|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With I-Bet151(Gsk1210151a)
pdb|3U5J|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Alprazolam
pdb|3U5K|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Midazolam
pdb|3U5K|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Midazolam
pdb|3U5K|C Chain C, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Midazolam
pdb|3U5K|D Chain D, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Midazolam
pdb|3U5L|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Benzo-Triazepine Ligand (Bzt-7)
pdb|4A9L|A Chain A, N-Terminal Bromodomain Of Human Brd4 With 1,3-Dimethyl-6-(
Morpholine-4-Sulfonyl)-1,2,3,
4-Tetrahydroquinazolin-2-One
pdb|3UVW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k5ack8ac)
pdb|3UVY|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k16ack20ac)
pdb|3UVX|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k12ack16ac)
pdb|3UW9|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k8ack12ac)
pdb|3UW9|B Chain B, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k8ack12ac)
pdb|3UW9|C Chain C, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k8ack12ac)
pdb|3UW9|D Chain D, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Diacetylated Histone 4 Peptide
(H4k8ack12ac)
pdb|4E96|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With The Inhibitor Pfi-1
pdb|4F3I|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With Ms417 Inhibitor
pdb|4GPJ|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Isoxazolylbenzimidazole Ligand
pdb|4HBV|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazolin Ligand
pdb|4HBX|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazolin Ligand
pdb|4HBY|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazolin Ligand
pdb|4J0R|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A 3,5-dimethylisoxazol Ligand
pdb|4J0S|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A 3,5-dimethylisoxazol Ligand
Length = 127
Score = 42.7 bits (99), Expect = 0.001, Method: Composition-based stats.
Identities = 27/85 (31%), Positives = 47/85 (55%), Gaps = 6/85 (7%)
Query: 898 RLRMCLRDVCNRMLYDKRFS-AFHYPV--TDEDAPNYRSIIQNPMDLATLLQRVDSGHYV 954
+L+ LR V + L+ +F+ F PV + P+Y II+ PMD+ T+ +R+++ +Y
Sbjct: 21 QLQYLLR-VVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYW 79
Query: 955 TCSAFLQDVDLIVTNAKAYN--GND 977
+QD + + TN YN G+D
Sbjct: 80 NAQECIQDFNTMFTNCYIYNKPGDD 104
>pdb|3JVJ|A Chain A, Crystal Structure Of The Bromodomain 1 In Mouse Brd4
pdb|3JVK|A Chain A, Crystal Structure Of Bromodomain 1 Of Mouse Brd4 In
Complex With Histone H3-K(Ac)14
pdb|3MUK|A Chain A, Crystal Structure Of Brd4 Bromodomain 1 With Propionylated
Histone H3- K(Prop)23
pdb|3MUL|A Chain A, Crystal Structure Of Brd4 Bromodomain 1 With Butyrylated
Histone H3- K(Buty)14
Length = 131
Score = 42.7 bits (99), Expect = 0.001, Method: Composition-based stats.
Identities = 27/85 (31%), Positives = 47/85 (55%), Gaps = 6/85 (7%)
Query: 898 RLRMCLRDVCNRMLYDKRFS-AFHYPV--TDEDAPNYRSIIQNPMDLATLLQRVDSGHYV 954
+L+ LR V + L+ +F+ F PV + P+Y II+ PMD+ T+ +R+++ +Y
Sbjct: 25 QLQYLLR-VVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYW 83
Query: 955 TCSAFLQDVDLIVTNAKAYN--GND 977
+QD + + TN YN G+D
Sbjct: 84 NAQECIQDFNTMFTNCYIYNKPGDD 108
>pdb|4HBW|A Chain A, Crystal Structure Of The First Bromodomain Of Human Brd4
In Complex With A Quinazoline Ligand
Length = 127
Score = 42.7 bits (99), Expect = 0.001, Method: Composition-based stats.
Identities = 27/85 (31%), Positives = 47/85 (55%), Gaps = 6/85 (7%)
Query: 898 RLRMCLRDVCNRMLYDKRFS-AFHYPV--TDEDAPNYRSIIQNPMDLATLLQRVDSGHYV 954
+L+ LR V + L+ +F+ F PV + P+Y II+ PMD+ T+ +R+++ +Y
Sbjct: 21 QLQYLLR-VVLKTLWKHQFAWPFQQPVDAVKLNLPDYYKIIKTPMDMGTIKKRLENNYYW 79
Query: 955 TCSAFLQDVDLIVTNAKAYN--GND 977
+QD + + TN YN G+D
Sbjct: 80 NAQECIQDFNTMFTNCYIYNKPGDD 104
>pdb|2C9O|A Chain A, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|B Chain B, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
pdb|2C9O|C Chain C, 3d Structure Of The Human Ruvb-Like Helicase Ruvbl1
Length = 456
Score = 42.7 bits (99), Expect = 0.001, Method: Compositional matrix adjust.
Identities = 48/183 (26%), Positives = 75/183 (40%), Gaps = 43/183 (23%)
Query: 414 RGVLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEA 473
R VLL GPPGTGKT +A A+ A + G KV F G++V S + + E +L E
Sbjct: 64 RAVLLAGPPGTGKTALALAI---AQELGSKVPFCPMVGSEVYSTEIKKTE----VLMENF 116
Query: 474 QR------NQPSIIFFDEIDGLAPVRSSKQEQIHNSIVSTLLALMDGLDSRGQVVL---- 523
+R + ++ E+ L P + + +S ++ + Q+ L
Sbjct: 117 RRAIGLRIKETKEVYEGEVTELTPCETENPMGGYGKTISHVIIGLKTAKGTKQLKLDPSI 176
Query: 524 ----------IGATNRVDAIDGALRRPGRFD---REFNF------PLPGCEARAEILDIH 564
G ++A GA++R GR D EF+ PLP D+H
Sbjct: 177 FESLQKERVEAGDVIYIEANSGAVKRQGRCDTYATEFDLEAEEYVPLPKG-------DVH 229
Query: 565 TRK 567
+K
Sbjct: 230 KKK 232
>pdb|2DVV|A Chain A, Crystal Structure Of The Second Bromodomain Of The Human
Brd2 Protein
pdb|2E3K|A Chain A, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
pdb|2E3K|B Chain B, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
pdb|2E3K|C Chain C, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
pdb|2E3K|D Chain D, Crystal Structure Of The Human Brd2 Second Bromodomain In
Complexed With The Acetylated Histone H4 Peptide
Length = 112
Score = 42.4 bits (98), Expect = 0.002, Method: Composition-based stats.
Identities = 29/104 (27%), Positives = 54/104 (51%), Gaps = 12/104 (11%)
Query: 907 CN---RMLYDKRFSAFHYPV---TDEDA---PNYRSIIQNPMDLATLLQRVDSGHYVTCS 957
CN + L K+ +A+ +P D A +Y II++PMDL+T+ +++++ Y
Sbjct: 10 CNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQ 69
Query: 958 AFLQDVDLIVTNAKAYNGNDYNGTRIVSRGYELRDAVHGMLSQM 1001
F DV L+ +N YN D++ +V+ +L+D ++M
Sbjct: 70 EFAADVRLMFSNCYKYNPPDHD---VVAMARKLQDVFEFRYAKM 110
>pdb|3ONI|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd2 In
Complex With The Inhibitor Jq1
Length = 114
Score = 42.4 bits (98), Expect = 0.002, Method: Composition-based stats.
Identities = 29/104 (27%), Positives = 54/104 (51%), Gaps = 12/104 (11%)
Query: 907 CN---RMLYDKRFSAFHYPV---TDEDA---PNYRSIIQNPMDLATLLQRVDSGHYVTCS 957
CN + L K+ +A+ +P D A +Y II++PMDL+T+ +++++ Y
Sbjct: 12 CNGILKELLSKKHAAYAWPFYKPVDASALGLHDYHDIIKHPMDLSTVKRKMENRDYRDAQ 71
Query: 958 AFLQDVDLIVTNAKAYNGNDYNGTRIVSRGYELRDAVHGMLSQM 1001
F DV L+ +N YN D++ +V+ +L+D ++M
Sbjct: 72 EFAADVRLMFSNCYKYNPPDHD---VVAMARKLQDVFEFRYAKM 112
>pdb|3KW6|A Chain A, Crystal Structure Of A Domain Of 26s Proteasome Regulatory
Subunit 8 From Homo Sapiens. Northeast Structural
Genomics Consortium Target Id Hr3102a
Length = 78
Score = 42.0 bits (97), Expect = 0.002, Method: Compositional matrix adjust.
Identities = 26/66 (39%), Positives = 35/66 (53%), Gaps = 1/66 (1%)
Query: 550 PLPGCEARAEILDIHTRKWKQPPSRELKSELAASCVGYCGADLKALCTEAAIRAFREKYP 609
P P EAR +IL IH+RK L+ ++A G GA++K +CTEA A RE+
Sbjct: 1 PPPNEEARLDILKIHSRKXNLTRGINLR-KIAELXPGASGAEVKGVCTEAGXYALRERRV 59
Query: 610 QVYTSD 615
V D
Sbjct: 60 HVTQED 65
>pdb|2YYN|A Chain A, Crystal Sturcture Of Human Bromodomain Protein
pdb|2YYN|B Chain B, Crystal Sturcture Of Human Bromodomain Protein
pdb|2YYN|C Chain C, Crystal Sturcture Of Human Bromodomain Protein
pdb|2YYN|D Chain D, Crystal Sturcture Of Human Bromodomain Protein
Length = 135
Score = 41.6 bits (96), Expect = 0.003, Method: Composition-based stats.
Identities = 33/103 (32%), Positives = 49/103 (47%), Gaps = 10/103 (9%)
Query: 907 CNRML---YDKRFS-AFHYPVTDEDAPNYRSIIQNPMDLATLLQRV--DSGHYVTCSAFL 960
C R+L Y S AF PV P+Y II+NPMDL+T+ +R+ D Y F+
Sbjct: 25 CERLLLFLYCHEMSLAFQDPVP-LTVPDYYKIIKNPMDLSTIKKRLQEDYSMYSKPEDFV 83
Query: 961 QDVDLIVTNAKAYNGNDYNGTRIVSRGYELRDAVHGMLSQMDP 1003
D LI N +N D + + + G +L + +L + P
Sbjct: 84 ADFRLIFQNCAEFNEPD---SEVANAGIKLENYFEELLKNLYP 123
>pdb|3FKM|X Chain X, Plasmodium Falciparum Bromodomain-Containing Protein
Pf10_0328
Length = 166
Score = 41.2 bits (95), Expect = 0.003, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 29/52 (55%)
Query: 926 EDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGND 977
++ P+Y +I+NP + + ++ G Y S F++DV LI N YN ++
Sbjct: 51 QNCPDYYDVIKNPXSFSCIKTKLKKGQYAYPSEFVKDVQLIFDNCSLYNTSN 102
>pdb|2I8N|A Chain A, Solution Structure Of The Second Bromodomain Of Brd4
Length = 114
Score = 40.8 bits (94), Expect = 0.004, Method: Composition-based stats.
Identities = 25/99 (25%), Positives = 52/99 (52%), Gaps = 9/99 (9%)
Query: 909 RMLYDKRFSAFHYPV---TDEDA---PNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQD 962
+ ++ K+ +A+ +P D +A +Y II++PMD++T+ ++++ Y F D
Sbjct: 11 KEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGAD 70
Query: 963 VDLIVTNAKAYNGNDYNGTRIVSRGYELRDAVHGMLSQM 1001
V L+ +N YN D+ +V+ +L+D ++M
Sbjct: 71 VRLMFSNCYKYNPPDH---EVVAMARKLQDVFEMRFAKM 106
>pdb|3JVL|A Chain A, Crystal Structure Of Bromodomain 2 Of Mouse Brd4
pdb|3JVM|A Chain A, Crystal Structure Of Bromodomain 2 Of Mouse Brd4
Length = 120
Score = 40.8 bits (94), Expect = 0.004, Method: Composition-based stats.
Identities = 26/99 (26%), Positives = 52/99 (52%), Gaps = 9/99 (9%)
Query: 909 RMLYDKRFSAFHYPV---TDEDA---PNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQD 962
+ ++ K+ +A+ +P D +A +Y II++PMD++T+ +++S Y F D
Sbjct: 19 KEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLESREYRDAQEFGAD 78
Query: 963 VDLIVTNAKAYNGNDYNGTRIVSRGYELRDAVHGMLSQM 1001
V L+ +N YN D+ +V+ +L+D ++M
Sbjct: 79 VRLMFSNCYKYNPPDH---EVVAMARKLQDVFEMRFAKM 114
>pdb|2XSZ|A Chain A, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|B Chain B, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|C Chain C, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 367
Score = 40.4 bits (93), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 23/50 (46%), Positives = 30/50 (60%), Gaps = 3/50 (6%)
Query: 414 RGVLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAE 463
R VLL GPPGTGKT +A A+ A + G KV F G++V S + + E
Sbjct: 78 RAVLLAGPPGTGKTALALAI---AQELGSKVPFCPXVGSEVYSTEIKKTE 124
>pdb|3ZUH|A Chain A, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|B Chain B, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|C Chain C, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|D Chain D, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|E Chain E, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
pdb|3ZUH|F Chain F, Negative Stain Em Map Of The Aaa Protein Cbbx, A Red-Type
Rubisco Activase From R. Sphaeroides
Length = 289
Score = 40.4 bits (93), Expect = 0.006, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 56/130 (43%), Gaps = 17/130 (13%)
Query: 409 HITPPRGVLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGA-------DVLSKWVGE 461
H TP + G PGTGKT +A +A + G Y+RKG D++ +++G
Sbjct: 56 HETPTLHMSFTGNPGTGKTTVALKMAGLLHRLG-----YVRKGHLVSVTRDDLVGQYIGH 110
Query: 462 AERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSSKQEQIHNSIVSTLLALMDGLDSRGQV 521
+ K E +R ++F DE L R + + LL +M+ V
Sbjct: 111 TAPKTK---EVLKRAMGGVLFIDEAYYL--YRPDNERDYGQEAIEILLQVMENNRDDLVV 165
Query: 522 VLIGATNRVD 531
+L G +R++
Sbjct: 166 ILAGYADRME 175
>pdb|4A3V|B Chain B, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3 In Complex With Rpt1 C-Terminal Fragment
pdb|4A3V|D Chain D, Yeast Regulatory Particle Proteasome Assembly Chaperone
Hsm3 In Complex With Rpt1 C-Terminal Fragment
Length = 95
Score = 40.4 bits (93), Expect = 0.007, Method: Compositional matrix adjust.
Identities = 29/76 (38%), Positives = 41/76 (53%), Gaps = 5/76 (6%)
Query: 551 LPGCEARAEILDIHTRKWKQPPSRELKSELAAS-CVGYCGADLKALCTEAAIRAFREKYP 609
LP E RA I IH++ R ++ EL + C GA+L+++CTEA + A R +
Sbjct: 7 LPDLEGRANIFRIHSKS--MSVERGIRWELISRLCPNSTGAELRSVCTEAGMFAIRAR-R 63
Query: 610 QVYTSDDKFLIDVDSV 625
+V T D FL VD V
Sbjct: 64 KVATEKD-FLKAVDKV 78
>pdb|3SYL|A Chain A, Crystal Structure Of The Aaa+ Protein Cbbx, Native
Structure
pdb|3SYL|B Chain B, Crystal Structure Of The Aaa+ Protein Cbbx, Native
Structure
Length = 309
Score = 40.0 bits (92), Expect = 0.008, Method: Compositional matrix adjust.
Identities = 34/130 (26%), Positives = 56/130 (43%), Gaps = 17/130 (13%)
Query: 409 HITPPRGVLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGA-------DVLSKWVGE 461
H TP + G PGTGKT +A +A + G Y+RKG D++ +++G
Sbjct: 63 HETPTLHMSFTGNPGTGKTTVALKMAGLLHRLG-----YVRKGHLVSVTRDDLVGQYIGH 117
Query: 462 AERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSSKQEQIHNSIVSTLLALMDGLDSRGQV 521
+ K E +R ++F DE L R + + LL +M+ V
Sbjct: 118 TAPKTK---EVLKRAMGGVLFIDEAYYL--YRPDNERDYGQEAIEILLQVMENNRDDLVV 172
Query: 522 VLIGATNRVD 531
+L G +R++
Sbjct: 173 ILAGYADRME 182
>pdb|1X0J|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2
pdb|1X0J|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2
pdb|1X0J|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2
pdb|2DVQ|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVQ|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVQ|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVR|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVR|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVR|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVS|A Chain A, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVS|B Chain B, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
pdb|2DVS|C Chain C, Crystal Structure Analysis Of The N-Terminal Bromodomain
Of Human Brd2 Complexed With Acetylated Histone H4
Peptide
Length = 122
Score = 39.7 bits (91), Expect = 0.011, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 9/78 (11%)
Query: 903 LRDVCNRMLYDKRFS-AFHYPVTDEDA-----PNYRSIIQNPMDLATLLQRVDSGHYVTC 956
L V + L+ +F+ F PV DA P+Y II+ P D T+ +R+++ +Y
Sbjct: 10 LHKVVXKALWKHQFAWPFRQPV---DAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAA 66
Query: 957 SAFLQDVDLIVTNAKAYN 974
S QD + TN YN
Sbjct: 67 SECXQDFNTXFTNCYIYN 84
>pdb|1KSF|X Chain X, Crystal Structure Of Clpa, An Hsp100 Chaperone And
Regulator Of Clpap Protease: Structural Basis Of
Differences In Function Of The Two Aaa+ Atpase Domains
pdb|1R6B|X Chain X, High Resolution Crystal Structure Of Clpa
Length = 758
Score = 39.3 bits (90), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 41/158 (25%), Positives = 72/158 (45%), Gaps = 21/158 (13%)
Query: 417 LLCGPPGTGKTLIARALACAASKAG-----QKVSFYMRKGADVL--SKWVGEAERQLKLL 469
LL G G GKT IA LA + + Y +L +K+ G+ E++ K L
Sbjct: 211 LLVGESGVGKTAIAEGLAWRIVQGDVPEVMADCTIYSLDIGSLLAGTKYRGDFEKRFKAL 270
Query: 470 FEEAQRNQPSIIFFDEIDGLAPVRSSKQEQIHNSIVSTLLALMDGLDSRGQVVLIGAT-- 527
++ +++ SI+F DEI + ++ Q+ + L+ L S G++ +IG+T
Sbjct: 271 LKQLEQDTNSILFIDEIHTIIGAGAASGGQVDAA------NLIKPLLSSGKIRVIGSTTY 324
Query: 528 ---NRVDAIDGALRRPGRFDREFNFPLPGCEARAEILD 562
+ + D AL R RF + + P E +I++
Sbjct: 325 QEFSNIFEKDRALAR--RFQK-IDITEPSIEETVQIIN 359
>pdb|3QMZ|A Chain A, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
pdb|3QMZ|B Chain B, Crystal Structure Of The Cytoplasmic Dynein Heavy Chain
Motor Domain
Length = 2486
Score = 39.3 bits (90), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 26/43 (60%), Gaps = 11/43 (25%)
Query: 388 IDALK-EMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLI 429
ID +K E +F+ LL RG++LCGPPG+GKT+I
Sbjct: 1032 IDTIKHEKIFYDLL----------NSKRGIILCGPPGSGKTMI 1064
>pdb|3AQA|A Chain A, Crystal Structure Of The Human Brd2 Bd1 Bromodomain In
Complex With A Brd2-Interactive Compound, Bic1
pdb|3AQA|B Chain B, Crystal Structure Of The Human Brd2 Bd1 Bromodomain In
Complex With A Brd2-Interactive Compound, Bic1
pdb|3AQA|C Chain C, Crystal Structure Of The Human Brd2 Bd1 Bromodomain In
Complex With A Brd2-Interactive Compound, Bic1
Length = 128
Score = 39.3 bits (90), Expect = 0.015, Method: Composition-based stats.
Identities = 25/78 (32%), Positives = 38/78 (48%), Gaps = 9/78 (11%)
Query: 903 LRDVCNRMLYDKRFS-AFHYPVTDEDA-----PNYRSIIQNPMDLATLLQRVDSGHYVTC 956
L V + L+ +F+ F PV DA P+Y II+ P D T+ +R+++ +Y
Sbjct: 16 LHKVVXKALWKHQFAWPFRQPV---DAVKLGLPDYHKIIKQPXDXGTIKRRLENNYYWAA 72
Query: 957 SAFLQDVDLIVTNAKAYN 974
S QD + TN YN
Sbjct: 73 SECXQDFNTXFTNCYIYN 90
>pdb|4AI6|A Chain A, Dynein Motor Domain - Adp Complex
pdb|4AI6|B Chain B, Dynein Motor Domain - Adp Complex
pdb|4AKG|A Chain A, Dynein Motor Domain - Atp Complex
pdb|4AKG|B Chain B, Dynein Motor Domain - Atp Complex
pdb|4AKH|A Chain A, Dynein Motor Domain - Amppnp Complex
pdb|4AKH|B Chain B, Dynein Motor Domain - Amppnp Complex
pdb|4AKI|A Chain A, Dynein Motor Domain - Luac Derivative
pdb|4AKI|B Chain B, Dynein Motor Domain - Luac Derivative
Length = 2695
Score = 39.3 bits (90), Expect = 0.015, Method: Compositional matrix adjust.
Identities = 19/43 (44%), Positives = 26/43 (60%), Gaps = 11/43 (25%)
Query: 388 IDALK-EMVFFPLLYPDFFASYHITPPRGVLLCGPPGTGKTLI 429
ID +K E +F+ LL RG++LCGPPG+GKT+I
Sbjct: 1251 IDTIKHEKIFYDLL----------NSKRGIILCGPPGSGKTMI 1283
>pdb|2OUO|A Chain A, Crystal Structure Of The Bromo Domain 2 In Human Bromodomain
Containing Protein 4 (Brd4)
pdb|2YEM|A Chain A, Crystal Structure Of The Second Bromodomain Of Human Brd4
With The Inhibitor Gw841819x
pdb|2YEM|B Chain B, Crystal Structure Of The Second Bromodomain Of Human Brd4
With The Inhibitor Gw841819x
Length = 130
Score = 38.9 bits (89), Expect = 0.016, Method: Composition-based stats.
Identities = 25/99 (25%), Positives = 52/99 (52%), Gaps = 9/99 (9%)
Query: 909 RMLYDKRFSAFHYPV---TDEDA---PNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQD 962
+ ++ K+ +A+ +P D +A +Y II++PMD++T+ ++++ Y F D
Sbjct: 32 KEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGAD 91
Query: 963 VDLIVTNAKAYNGNDYNGTRIVSRGYELRDAVHGMLSQM 1001
V L+ +N YN D+ +V+ +L+D ++M
Sbjct: 92 VRLMFSNCYKYNPPDH---EVVAMARKLQDVFEMRFAKM 127
>pdb|2LSP|B Chain B, Solution Structures Of Brd4 Second Bromodomain With
Nf-Kb-K310ac Peptide
Length = 128
Score = 38.9 bits (89), Expect = 0.016, Method: Composition-based stats.
Identities = 25/99 (25%), Positives = 52/99 (52%), Gaps = 9/99 (9%)
Query: 909 RMLYDKRFSAFHYPV---TDEDA---PNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQD 962
+ ++ K+ +A+ +P D +A +Y II++PMD++T+ ++++ Y F D
Sbjct: 30 KEMFAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPMDMSTIKSKLEAREYRDAQEFGAD 89
Query: 963 VDLIVTNAKAYNGNDYNGTRIVSRGYELRDAVHGMLSQM 1001
V L+ +N YN D+ +V+ +L+D ++M
Sbjct: 90 VRLMFSNCYKYNPPDH---EVVAMARKLQDVFEMRFAKM 125
>pdb|1OFH|A Chain A, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|B Chain B, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFH|C Chain C, Asymmetric Complex Between Hslv And I-domain Deleted Hslu
(h. Influenzae)
pdb|1OFI|A Chain A, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|B Chain B, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
pdb|1OFI|C Chain C, Asymmetric Complex Between Hslv And I-Domain Deleted Hslu
(H. Influenzae)
Length = 310
Score = 37.4 bits (85), Expect = 0.049, Method: Compositional matrix adjust.
Identities = 31/87 (35%), Positives = 43/87 (49%), Gaps = 10/87 (11%)
Query: 409 HITPPRGVLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVG-EAERQLK 467
H P+ +L+ GP G GKT IAR LA A+ KV K +V +VG E + ++
Sbjct: 46 HEVTPKNILMIGPTGVGKTEIARRLAKLANAPFIKVE--ATKFTEV--GYVGKEVDSIIR 101
Query: 468 LLFEEA-----QRNQPSIIFFDEIDGL 489
L + A Q I+F DEID +
Sbjct: 102 DLTDSAGGAIDAVEQNGIVFIDEIDKI 128
>pdb|1QVR|A Chain A, Crystal Structure Analysis Of Clpb
pdb|1QVR|B Chain B, Crystal Structure Analysis Of Clpb
pdb|1QVR|C Chain C, Crystal Structure Analysis Of Clpb
Length = 854
Score = 37.0 bits (84), Expect = 0.061, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 54/120 (45%), Gaps = 15/120 (12%)
Query: 417 LLCGPPGTGKTLIARALACAASKA-------GQKVSFYMRKGADVLSKWVGEAERQLKLL 469
+L G PG GKT I LA K G+++ +K+ GE E +LK +
Sbjct: 195 VLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLKAV 254
Query: 470 FEEAQRNQPSIIFF-DEIDGLAPVRSSKQEQIHNSIVSTLLALMDGLDSRGQVVLIGATN 528
+E ++Q +I F DE+ + ++ +++ LA RG++ LIGAT
Sbjct: 255 IQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA-------RGELRLIGATT 307
Score = 35.4 bits (80), Expect = 0.21, Method: Compositional matrix adjust.
Identities = 40/128 (31%), Positives = 56/128 (43%), Gaps = 34/128 (26%)
Query: 412 PPRGVLLCGPPGTGKTLIARALACA---ASKAGQKVSF--YMRKGADVLSKWVG------ 460
P L GP G GKT +A+ LA +A ++ YM K A +S+ +G
Sbjct: 587 PIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHA--VSRLIGAPPGYV 644
Query: 461 --EAERQLKLLFEEAQRNQP-SIIFFDEIDGLAPVRSSKQEQIHNSIVSTLLALMDG--- 514
E QL EA R +P S+I FDEI E+ H + + LL ++D
Sbjct: 645 GYEEGGQLT----EAVRRRPYSVILFDEI-----------EKAHPDVFNILLQILDDGRL 689
Query: 515 LDSRGQVV 522
DS G+ V
Sbjct: 690 TDSHGRTV 697
>pdb|4HSE|A Chain A, Crystal Structure Of Clpb Nbd1 In Complex With Guanidinium
Chloride And Adp
Length = 397
Score = 37.0 bits (84), Expect = 0.062, Method: Compositional matrix adjust.
Identities = 33/120 (27%), Positives = 54/120 (45%), Gaps = 15/120 (12%)
Query: 417 LLCGPPGTGKTLIARALACAASKA-------GQKVSFYMRKGADVLSKWVGEAERQLKLL 469
+L G PG GKT I LA K G+++ +K+ GE E +LK +
Sbjct: 58 VLIGEPGVGKTAIVEGLAQRIVKGDVPEGLKGKRIVSLQMGSLLAGAKYRGEFEERLKAV 117
Query: 470 FEEAQRNQPSIIFF-DEIDGLAPVRSSKQEQIHNSIVSTLLALMDGLDSRGQVVLIGATN 528
+E ++Q +I F DE+ + ++ +++ LA RG++ LIGAT
Sbjct: 118 IQEVVQSQGEVILFIDELHTVVGAGKAEGAVDAGNMLKPALA-------RGELRLIGATT 170
>pdb|3MQM|A Chain A, Crystal Structure Of The Bromodomain Of Human Ash1l
pdb|3MQM|B Chain B, Crystal Structure Of The Bromodomain Of Human Ash1l
Length = 126
Score = 37.0 bits (84), Expect = 0.072, Method: Compositional matrix adjust.
Identities = 23/84 (27%), Positives = 44/84 (52%), Gaps = 6/84 (7%)
Query: 898 RLRMCLRDVCNRMLYDKRFS--AFHYPVTD----EDAPNYRSIIQNPMDLATLLQRVDSG 951
RL +++C+ ++ K S A P+ + + +Y I +P+DL T+ +++ +G
Sbjct: 9 RLAQIFKEICDGIISYKDSSRQALAAPLLNLPPKKKNADYYEKISDPLDLITIEKQILTG 68
Query: 952 HYVTCSAFLQDVDLIVTNAKAYNG 975
+Y T AF D+ + NA+ Y G
Sbjct: 69 YYKTVEAFDADMLKVFRNAEKYYG 92
>pdb|3HWS|A Chain A, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|B Chain B, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|C Chain C, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|D Chain D, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|E Chain E, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
pdb|3HWS|F Chain F, Crystal Structure Of Nucleotide-Bound Hexameric Clpx
Length = 363
Score = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 42/81 (51%), Gaps = 11/81 (13%)
Query: 416 VLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVL-SKWVGE-AERQLKLLFE-- 471
+LL GP G+GKTL+A LA V F M + + +VGE E ++ L +
Sbjct: 54 ILLIGPTGSGKTLLAETLARLLD-----VPFTMADATTLTEAGYVGEDVENIIQKLLQKC 108
Query: 472 --EAQRNQPSIIFFDEIDGLA 490
+ Q+ Q I++ D+ID ++
Sbjct: 109 DYDVQKAQRGIVYIDQIDKIS 129
>pdb|3HTE|A Chain A, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|B Chain B, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|C Chain C, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|D Chain D, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|E Chain E, Crystal Structure Of Nucleotide-Free Hexameric Clpx
pdb|3HTE|F Chain F, Crystal Structure Of Nucleotide-Free Hexameric Clpx
Length = 363
Score = 36.2 bits (82), Expect = 0.10, Method: Compositional matrix adjust.
Identities = 26/81 (32%), Positives = 42/81 (51%), Gaps = 11/81 (13%)
Query: 416 VLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVL-SKWVGE-AERQLKLLFE-- 471
+LL GP G+GKTL+A LA V F M + + +VGE E ++ L +
Sbjct: 54 ILLIGPTGSGKTLLAETLARLLD-----VPFTMADATTLTEAGYVGEDVENIIQKLLQKC 108
Query: 472 --EAQRNQPSIIFFDEIDGLA 490
+ Q+ Q I++ D+ID ++
Sbjct: 109 DYDVQKAQRGIVYIDQIDKIS 129
>pdb|3TLP|A Chain A, Crystal Structure Of The Fourth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
pdb|3TLP|B Chain B, Crystal Structure Of The Fourth Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 150
Score = 36.2 bits (82), Expect = 0.11, Method: Composition-based stats.
Identities = 19/66 (28%), Positives = 32/66 (48%), Gaps = 3/66 (4%)
Query: 924 TDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN---GNDYNG 980
+ +D P+Y II PMDL + + + Y ++D+ L+ NA+ YN YN
Sbjct: 57 SKKDYPDYYKIILEPMDLKIIEHNIRNDKYAGEEGMIEDMKLMFRNARHYNEEGSQVYND 116
Query: 981 TRIVSR 986
I+ +
Sbjct: 117 AHILEK 122
>pdb|1UM8|A Chain A, Crystal Structure Of Helicobacter Pylori Clpx
Length = 376
Score = 36.2 bits (82), Expect = 0.12, Method: Compositional matrix adjust.
Identities = 34/114 (29%), Positives = 52/114 (45%), Gaps = 24/114 (21%)
Query: 415 GVLLCGPPGTGKTLIARALA------CAASKAGQKVSFYMRKGADVLSKWVGE-AERQLK 467
+LL GP G+GKTL+A+ LA A S A + +VGE E L
Sbjct: 74 NILLIGPTGSGKTLMAQTLAKHLDIPIAISDATSLTE----------AGYVGEDVENILT 123
Query: 468 LLFE----EAQRNQPSIIFFDEIDGLAPV---RSSKQEQIHNSIVSTLLALMDG 514
L + Q+ Q I+F DEID ++ + RS ++ + LL +++G
Sbjct: 124 RLLQASDWNVQKAQKGIVFIDEIDKISRLSENRSITRDVSGEGVQQALLKIVEG 177
>pdb|2R0V|A Chain A, Structure Of The Rsc4 Tandem Bromodomain Acetylated At K25
pdb|2R0V|B Chain B, Structure Of The Rsc4 Tandem Bromodomain Acetylated At K25
pdb|2R0V|C Chain C, Structure Of The Rsc4 Tandem Bromodomain Acetylated At K25
Length = 346
Score = 36.2 bits (82), Expect = 0.12, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 28/52 (53%)
Query: 923 VTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN 974
V ++ P Y I+ +PM L+ + Q ++ G Y F+ D+ L+ NA +N
Sbjct: 223 VDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFN 274
Score = 32.3 bits (72), Expect = 1.8, Method: Composition-based stats.
Identities = 19/49 (38%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 929 PNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGND 977
P Y IQ PM + + R D + S FL DV+L+ N +AYN D
Sbjct: 96 PQYYYKIQQPMSINEIKSR-DYEYEDGPSNFLLDVELLTKNCQAYNEYD 143
>pdb|2R10|A Chain A, Structure Of An Acetylated Rsc4 Tandem Bromodomain Histone
Chimera
pdb|2R10|B Chain B, Structure Of An Acetylated Rsc4 Tandem Bromodomain Histone
Chimera
Length = 361
Score = 35.8 bits (81), Expect = 0.14, Method: Composition-based stats.
Identities = 16/52 (30%), Positives = 28/52 (53%)
Query: 923 VTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN 974
V ++ P Y I+ +PM L+ + Q ++ G Y F+ D+ L+ NA +N
Sbjct: 238 VDKDELPEYYEIVHSPMALSIVKQNLEIGQYSKIYDFIIDMLLVFQNAHIFN 289
Score = 32.0 bits (71), Expect = 2.1, Method: Composition-based stats.
Identities = 19/49 (38%), Positives = 25/49 (51%), Gaps = 1/49 (2%)
Query: 929 PNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGND 977
P Y IQ PM + + R D + S FL DV+L+ N +AYN D
Sbjct: 111 PQYYYKIQQPMSINEIKSR-DYEYEDGPSNFLLDVELLTKNCQAYNEYD 158
>pdb|1G3I|A Chain A, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|B Chain B, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|C Chain C, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|D Chain D, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|E Chain E, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|F Chain F, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|S Chain S, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|T Chain T, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|U Chain U, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|V Chain V, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|W Chain W, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G3I|X Chain X, Crystal Structure Of The Hsluv Protease-Chaperone Complex
pdb|1G41|A Chain A, Crystal Structure Of Hslu Haemophilus Influenzae
pdb|1KYI|A Chain A, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|B Chain B, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|C Chain C, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|D Chain D, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|E Chain E, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|F Chain F, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|S Chain S, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|T Chain T, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|U Chain U, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|V Chain V, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|W Chain W, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
pdb|1KYI|X Chain X, Hsluv (h. Influenzae)-nlvs Vinyl Sulfone Inhibitor Complex
Length = 444
Score = 35.0 bits (79), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 19/30 (63%)
Query: 409 HITPPRGVLLCGPPGTGKTLIARALACAAS 438
H P+ +L+ GP G GKT IAR LA A+
Sbjct: 46 HEVTPKNILMIGPTGVGKTEIARRLAKLAN 75
>pdb|1DO2|A Chain A, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|B Chain B, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|C Chain C, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO2|D Chain D, Trigonal Crystal Form Of Heat Shock Locus U (Hslu) From
Escherichia Coli
pdb|1DO0|A Chain A, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|B Chain B, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|C Chain C, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|D Chain D, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|E Chain E, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
pdb|1DO0|F Chain F, Orthorhombic Crystal Form Of Heat Shock Locus U (Hslu)
From Escherichia Coli
Length = 442
Score = 34.7 bits (78), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 19/30 (63%)
Query: 409 HITPPRGVLLCGPPGTGKTLIARALACAAS 438
H P+ +L+ GP G GKT IAR LA A+
Sbjct: 45 HEVTPKNILMIGPTGVGKTEIARRLAKLAN 74
>pdb|1E94|E Chain E, Hslv-Hslu From E.Coli
pdb|1E94|F Chain F, Hslv-Hslu From E.Coli
pdb|1HT2|E Chain E, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|F Chain F, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|G Chain G, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT2|H Chain H, Nucleotide-dependent Conformational Changes In A
Protease-associated Atpase Hslu
pdb|1HT1|E Chain E, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|F Chain F, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|G Chain G, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HT1|I Chain I, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HQY|E Chain E, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
pdb|1HQY|F Chain F, Nucleotide-Dependent Conformational Changes In A
Protease-Associated Atpase Hslu
Length = 449
Score = 34.7 bits (78), Expect = 0.29, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 19/30 (63%)
Query: 409 HITPPRGVLLCGPPGTGKTLIARALACAAS 438
H P+ +L+ GP G GKT IAR LA A+
Sbjct: 52 HEVTPKNILMIGPTGVGKTEIARRLAKLAN 81
>pdb|1G4A|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4A|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|E Chain E, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|F Chain F, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|K Chain K, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1G4B|L Chain L, Crystal Structures Of The Hslvu Peptidase-Atpase Complex
Reveal An Atp-Dependent Proteolysis Mechanism
pdb|1YYF|A Chain A, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
pdb|1YYF|B Chain B, Correction Of X-Ray Intensities From An Hslv-Hslu Co-
Crystal Containing Lattice Translocation Defects
Length = 443
Score = 34.7 bits (78), Expect = 0.30, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 19/30 (63%)
Query: 409 HITPPRGVLLCGPPGTGKTLIARALACAAS 438
H P+ +L+ GP G GKT IAR LA A+
Sbjct: 46 HEVTPKNILMIGPTGVGKTEIARRLAKLAN 75
>pdb|3SYK|A Chain A, Crystal Structure Of The Aaa+ Protein Cbbx,
Selenomethionine Structure
pdb|3SYK|B Chain B, Crystal Structure Of The Aaa+ Protein Cbbx,
Selenomethionine Structure
Length = 309
Score = 34.3 bits (77), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 33/130 (25%), Positives = 52/130 (40%), Gaps = 17/130 (13%)
Query: 409 HITPPRGVLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGA-------DVLSKWVGE 461
H TP G PGTGKT +A A + G Y+RKG D++ +++G
Sbjct: 63 HETPTLHXSFTGNPGTGKTTVALKXAGLLHRLG-----YVRKGHLVSVTRDDLVGQYIGH 117
Query: 462 AERQLKLLFEEAQRNQPSIIFFDEIDGLAPVRSSKQEQIHNSIVSTLLALMDGLDSRGQV 521
+ K E +R ++F DE L R + + LL + + V
Sbjct: 118 TAPKTK---EVLKRAXGGVLFIDEAYYL--YRPDNERDYGQEAIEILLQVXENNRDDLVV 172
Query: 522 VLIGATNRVD 531
+L G +R +
Sbjct: 173 ILAGYADRXE 182
>pdb|2P65|A Chain A, Crystal Structure Of The First Nucleotide Binding Domain
Of Chaperone Clpb1, Putative, (Pv089580) From Plasmodium
Vivax
Length = 187
Score = 34.3 bits (77), Expect = 0.46, Method: Compositional matrix adjust.
Identities = 35/121 (28%), Positives = 55/121 (45%), Gaps = 16/121 (13%)
Query: 417 LLCGPPGTGKTLIARALACAASKAGQKVSFYMRK--GADVLS-----KWVGEAERQLKLL 469
+L G PG GKT I LA + S RK D+ S K+ G+ E +LK +
Sbjct: 47 ILLGDPGVGKTAIVEGLAIKIVQGDVPDSLKGRKLVSLDLSSLIAGAKYRGDFEERLKSI 106
Query: 470 FEEAQRNQPSII-FFDEIDGLAPVRSSKQEQIH-NSIVSTLLALMDGLDSRGQVVLIGAT 527
+E Q + ++ F DEI + + + + +I+ +LA RG++ IGAT
Sbjct: 107 LKEVQDAEGQVVMFIDEIHTVVGAGAVAEGALDAGNILKPMLA-------RGELRCIGAT 159
Query: 528 N 528
Sbjct: 160 T 160
>pdb|3VLF|B Chain B, Crystal Structure Of Yeast Proteasome Interacting Protein
pdb|3VLF|D Chain D, Crystal Structure Of Yeast Proteasome Interacting Protein
Length = 88
Score = 33.9 bits (76), Expect = 0.50, Method: Composition-based stats.
Identities = 27/72 (37%), Positives = 38/72 (52%), Gaps = 5/72 (6%)
Query: 555 EARAEILDIHTRKWKQPPSRELKSELAAS-CVGYCGADLKALCTEAAIRAFREKYPQVYT 613
E RA I IH++ R ++ EL + C GA+L+++CTEA A R + +V T
Sbjct: 4 EGRANIFRIHSKS--XSVERGIRWELISRLCPNSTGAELRSVCTEAGXFAIRARR-KVAT 60
Query: 614 SDDKFLIDVDSV 625
D FL VD V
Sbjct: 61 EKD-FLKAVDKV 71
>pdb|2GRC|A Chain A, 1.5 A Structure Of Bromodomain From Human Brg1 Protein, A
Central Atpase Of SwiSNF REMODELING COMPLEX
Length = 129
Score = 33.9 bits (76), Expect = 0.56, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 28/49 (57%)
Query: 926 EDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN 974
++ P Y +I+ P+D + +R+ + Y + + +DV L+ NA+ +N
Sbjct: 46 KELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFN 94
>pdb|2DWW|A Chain A, Crystal Structure Of Bromodomain-Containing Protein 4
Length = 114
Score = 33.9 bits (76), Expect = 0.60, Method: Composition-based stats.
Identities = 24/87 (27%), Positives = 44/87 (50%), Gaps = 9/87 (10%)
Query: 912 YDKRFSAFHYPV---TDEDA---PNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDL 965
+ K+ +A+ +P D +A +Y II++P D +T+ +++S Y F DV L
Sbjct: 20 FAKKHAAYAWPFYKPVDVEALGLHDYCDIIKHPXDXSTIKSKLESREYRDAQEFGADVRL 79
Query: 966 IVTNAKAYNGNDYNGTRIVSRGYELRD 992
+N YN D+ +V+ +L+D
Sbjct: 80 XFSNCYKYNPPDH---EVVAXARKLQD 103
>pdb|3PXI|A Chain A, Structure Of Meca108:clpc
pdb|3PXI|B Chain B, Structure Of Meca108:clpc
pdb|3PXI|C Chain C, Structure Of Meca108:clpc
Length = 758
Score = 33.5 bits (75), Expect = 0.81, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 417 LLCGPPGTGKTLIARALACAASKAGQKVSFYMRKG----ADVLSKWVGEAERQLKLLFEE 472
+L G PG GKT IA LA +V +R D+ +K+ GE E +LK + +E
Sbjct: 205 VLIGEPGVGKTAIAEGLAQQI--INNEVPEILRDKRVMTLDMGTKYRGEFEDRLKKVMDE 262
Query: 473 AQRNQPSIIFFD 484
++ I+F D
Sbjct: 263 IRQAGNIILFID 274
Score = 30.8 bits (68), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 40/144 (27%), Positives = 61/144 (42%), Gaps = 30/144 (20%)
Query: 412 PPRGVLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFE 471
P + GP G GKT +ARAL A S G + S ++ + K + L E
Sbjct: 520 PIGSFIFLGPTGVGKTELARAL--AESIFGDEESMIRIDMSEYMEKHSTSGGQ----LTE 573
Query: 472 EAQRNQPSIIFFDEIDGLAPVRSSKQEQIHNSIVSTLLALM-DG--LDSRGQVV------ 522
+ +R S++ D I E+ H + + LL ++ DG DS+G+ V
Sbjct: 574 KVRRKPYSVVLLDAI-----------EKAHPDVFNILLQVLEDGRLTDSKGRTVDFRNTI 622
Query: 523 LIGATN----RVDAIDGALRRPGR 542
LI +N D + G L+R R
Sbjct: 623 LIMTSNVGASEKDKVMGELKRAFR 646
>pdb|1IM2|A Chain A, Hslu, Haemophilus Influenzae, Selenomethionine Variant
Length = 444
Score = 33.5 bits (75), Expect = 0.83, Method: Compositional matrix adjust.
Identities = 15/30 (50%), Positives = 18/30 (60%)
Query: 409 HITPPRGVLLCGPPGTGKTLIARALACAAS 438
H P+ +L GP G GKT IAR LA A+
Sbjct: 46 HEVTPKNILXIGPTGVGKTEIARRLAKLAN 75
>pdb|2R0S|A Chain A, Crystal Structure Of The Rsc4 Tandem Bromodomain
Length = 285
Score = 33.1 bits (74), Expect = 0.90, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 27/56 (48%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN 974
F V ++ P Y I+ +P L+ + Q ++ G Y F+ D L+ NA +N
Sbjct: 178 FXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFN 233
>pdb|3PVS|A Chain A, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|B Chain B, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|C Chain C, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
pdb|3PVS|D Chain D, Structure And Biochemical Activities Of Escherichia Coli
Mgsa
Length = 447
Score = 33.1 bits (74), Expect = 0.91, Method: Compositional matrix adjust.
Identities = 21/75 (28%), Positives = 39/75 (52%), Gaps = 16/75 (21%)
Query: 416 VLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQR 475
++L GPPGTGKT +A +A A+ +++S V ++++ E A++
Sbjct: 53 MILWGPPGTGKTTLAEVIARYANADVERISA------------VTSGVKEIREAIERARQ 100
Query: 476 NQP----SIIFFDEI 486
N+ +I+F DE+
Sbjct: 101 NRNAGRRTILFVDEV 115
>pdb|2R0Y|A Chain A, Structure Of The Rsc4 Tandem Bromodomain In Complex With
An Acetylated H3 Peptide
Length = 311
Score = 33.1 bits (74), Expect = 0.91, Method: Composition-based stats.
Identities = 16/56 (28%), Positives = 27/56 (48%)
Query: 919 FHYPVTDEDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN 974
F V ++ P Y I+ +P L+ + Q ++ G Y F+ D L+ NA +N
Sbjct: 184 FXELVDKDELPEYYEIVHSPXALSIVKQNLEIGQYSKIYDFIIDXLLVFQNAHIFN 239
>pdb|4FCT|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|A Chain A, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|B Chain B, Crystal Structure Of The C-Terminal Domain Of Clpb
pdb|4FD2|D Chain D, Crystal Structure Of The C-Terminal Domain Of Clpb
Length = 308
Score = 33.1 bits (74), Expect = 0.99, Method: Compositional matrix adjust.
Identities = 39/128 (30%), Positives = 55/128 (42%), Gaps = 34/128 (26%)
Query: 412 PPRGVLLCGPPGTGKTLIARALACA---ASKAGQKVSF--YMRKGADVLSKWVG------ 460
P L GP G GKT +A+ LA +A ++ YM K A +S+ +G
Sbjct: 43 PIGSFLFLGPTGVGKTELAKTLAATLFDTEEAMIRIDMTEYMEKHA--VSRLIGAPPGYV 100
Query: 461 --EAERQLKLLFEEAQRNQP-SIIFFDEIDGLAPVRSSKQEQIHNSIVSTLLALMDG--- 514
E QL EA R +P S+I FD I E+ H + + LL ++D
Sbjct: 101 GYEEGGQLT----EAVRRRPYSVILFDAI-----------EKAHPDVFNILLQILDDGRL 145
Query: 515 LDSRGQVV 522
DS G+ V
Sbjct: 146 TDSHGRTV 153
>pdb|3PXG|A Chain A, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|B Chain B, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|C Chain C, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|D Chain D, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|E Chain E, Structure Of Meca121 And Clpc1-485 Complex
pdb|3PXG|F Chain F, Structure Of Meca121 And Clpc1-485 Complex
Length = 468
Score = 32.7 bits (73), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 24/72 (33%), Positives = 36/72 (50%), Gaps = 6/72 (8%)
Query: 417 LLCGPPGTGKTLIARALACAASKAGQKVSFYMRKG----ADVLSKWVGEAERQLKLLFEE 472
+L G PG GKT IA LA +V +R D+ +K+ GE E +LK + +E
Sbjct: 205 VLIGEPGVGKTAIAEGLAQQI--INNEVPEILRDKRVMTLDMGTKYRGEFEDRLKKVMDE 262
Query: 473 AQRNQPSIIFFD 484
++ I+F D
Sbjct: 263 IRQAGNIILFID 274
>pdb|2DAT|A Chain A, Solution Structure Of The Bromodomain Of Human SwiSNF
Related Matrix Associated Actin Dependent Regulator Of
Cromatin Subfamily A Member 2
Length = 123
Score = 32.7 bits (73), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 13/49 (26%), Positives = 27/49 (55%)
Query: 926 EDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN 974
++ P Y +I+ P+D + +R+ + Y + +DV L+ NA+ +N
Sbjct: 47 KELPEYYELIRKPVDFKKIKERIRNHKYRSLGDLEKDVMLLCHNAQTFN 95
>pdb|3IU5|A Chain A, Crystal Structure Of The First Bromodomain Of Human
Poly-Bromodomain Containing Protein 1 (Pb1)
Length = 116
Score = 32.7 bits (73), Expect = 1.4, Method: Composition-based stats.
Identities = 14/51 (27%), Positives = 25/51 (49%)
Query: 927 DAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYNGND 977
+ P+Y ++ P+DL + Q++ Y + D L+ NAK+Y D
Sbjct: 40 NQPDYYEVVSQPIDLMKIQQKLKMEEYDDVNLLTADFQLLFNNAKSYYKPD 90
>pdb|1NSF|A Chain A, D2 Hexamerization Domain Of N-Ethylmaleimide Sensitive
Factor (Nsf)
Length = 273
Score = 32.3 bits (72), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 44/83 (53%), Gaps = 12/83 (14%)
Query: 411 TPPRGVLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAE----RQL 466
TP VLL GPP +GKT + A+K ++ +F K K +G +E + +
Sbjct: 61 TPLVSVLLEGPPHSGKTAL-------AAKIAEESNFPFIKICSP-DKMIGFSETAKCQAM 112
Query: 467 KLLFEEAQRNQPSIIFFDEIDGL 489
K +F++A ++Q S + D+I+ L
Sbjct: 113 KKIFDDAYKSQLSCVVVDDIERL 135
>pdb|3UK6|A Chain A, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|B Chain B, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|C Chain C, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|D Chain D, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|E Chain E, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|F Chain F, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|G Chain G, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|H Chain H, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|I Chain I, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|J Chain J, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|K Chain K, Crystal Structure Of The Tip48 (Tip49b) Hexamer
pdb|3UK6|L Chain L, Crystal Structure Of The Tip48 (Tip49b) Hexamer
Length = 368
Score = 32.3 bits (72), Expect = 1.8, Method: Compositional matrix adjust.
Identities = 19/50 (38%), Positives = 26/50 (52%), Gaps = 3/50 (6%)
Query: 414 RGVLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAE 463
R VL+ G PGTGKT IA +A A G F G+++ S + + E
Sbjct: 71 RAVLIAGQPGTGKTAIAMGMAQA---LGPDTPFTAIAGSEIFSLEMSKTE 117
>pdb|1D2N|A Chain A, D2 Domain Of N-Ethylmaleimide-Sensitive Fusion Protein
Length = 272
Score = 32.3 bits (72), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 26/83 (31%), Positives = 44/83 (53%), Gaps = 12/83 (14%)
Query: 411 TPPRGVLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAE----RQL 466
TP VLL GPP +GKT + A+K ++ +F K K +G +E + +
Sbjct: 62 TPLVSVLLEGPPHSGKTAL-------AAKIAEESNFPFIKICSP-DKMIGFSETAKCQAM 113
Query: 467 KLLFEEAQRNQPSIIFFDEIDGL 489
K +F++A ++Q S + D+I+ L
Sbjct: 114 KKIFDDAYKSQLSCVVVDDIERL 136
>pdb|3QF4|B Chain B, Crystal Structure Of A Heterodimeric Abc Transporter In
Its Inward- Facing Conformation
Length = 598
Score = 32.0 bits (71), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 13/27 (48%), Positives = 17/27 (62%)
Query: 407 SYHITPPRGVLLCGPPGTGKTLIARAL 433
++HI P + V L GP G+GKT I L
Sbjct: 375 TFHIKPGQKVALVGPTGSGKTTIVNLL 401
>pdb|2H60|A Chain A, Solution Structure Of Human Brg1 Bromodomain
Length = 128
Score = 32.0 bits (71), Expect = 2.3, Method: Composition-based stats.
Identities = 13/49 (26%), Positives = 28/49 (57%)
Query: 926 EDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN 974
++ P Y +I+ P+D + +R+ + Y + + +DV L+ NA+ +N
Sbjct: 42 KELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFN 90
>pdb|3UVD|A Chain A, Crystal Structure Of The Bromodomain Of Human
Transcription Activator Brg1 (Smarca4) In Complex With
N-Methyl-2-Pyrrolidone
Length = 124
Score = 32.0 bits (71), Expect = 2.3, Method: Composition-based stats.
Identities = 13/49 (26%), Positives = 28/49 (57%)
Query: 926 EDAPNYRSIIQNPMDLATLLQRVDSGHYVTCSAFLQDVDLIVTNAKAYN 974
++ P Y +I+ P+D + +R+ + Y + + +DV L+ NA+ +N
Sbjct: 47 KELPEYYELIRKPVDFKKIKERIRNHKYRSLNDLEKDVMLLCQNAQTFN 95
>pdb|1IQP|A Chain A, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|B Chain B, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|C Chain C, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|D Chain D, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|E Chain E, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
pdb|1IQP|F Chain F, Crystal Structure Of The Clamp Loader Small Subunit From
Pyrococcus Furiosus
Length = 327
Score = 31.6 bits (70), Expect = 2.5, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 35/83 (42%), Gaps = 18/83 (21%)
Query: 416 VLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFE---E 472
+L GPPG GKT A ALA + +F +D ER + ++ E E
Sbjct: 49 LLFAGPPGVGKTTAALALARELFGENWRHNFLELNASD---------ERGINVIREKVKE 99
Query: 473 AQRNQP------SIIFFDEIDGL 489
R +P IIF DE D L
Sbjct: 100 FARTKPIGGASFKIIFLDEADAL 122
>pdb|2CHG|A Chain A, Replication Factor C Domains 1 And 2
pdb|2CHG|B Chain B, Replication Factor C Domains 1 And 2
pdb|2CHG|C Chain C, Replication Factor C Domains 1 And 2
pdb|2CHG|D Chain D, Replication Factor C Domains 1 And 2
Length = 226
Score = 31.2 bits (69), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 35/83 (42%), Gaps = 18/83 (21%)
Query: 416 VLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLL---FEE 472
+L GPPGTGKT A ALA + +F +D ER + ++ +E
Sbjct: 41 LLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASD---------ERGIDVVRHKIKE 91
Query: 473 AQRNQP------SIIFFDEIDGL 489
R P IIF DE D L
Sbjct: 92 FARTAPIGGAPFKIIFLDEADAL 114
>pdb|2CHQ|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHQ|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHQ|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|A Chain A, Replication Factor C Adpnp Complex
pdb|2CHV|B Chain B, Replication Factor C Adpnp Complex
pdb|2CHV|C Chain C, Replication Factor C Adpnp Complex
pdb|2CHV|D Chain D, Replication Factor C Adpnp Complex
pdb|2CHV|E Chain E, Replication Factor C Adpnp Complex
pdb|2CHV|F Chain F, Replication Factor C Adpnp Complex
Length = 319
Score = 30.8 bits (68), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 27/83 (32%), Positives = 35/83 (42%), Gaps = 18/83 (21%)
Query: 416 VLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLL---FEE 472
+L GPPGTGKT A ALA + +F +D ER + ++ +E
Sbjct: 41 LLFSGPPGTGKTATAIALARDLFGENWRDNFIEMNASD---------ERGIDVVRHKIKE 91
Query: 473 AQRNQP------SIIFFDEIDGL 489
R P IIF DE D L
Sbjct: 92 FARTAPIGGAPFKIIFLDEADAL 114
>pdb|2YYZ|A Chain A, Crystal Structure Of Sugar Abc Transporter, Atp-Binding
Protein
Length = 359
Score = 30.8 bits (68), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 48/215 (22%), Positives = 82/215 (38%), Gaps = 16/215 (7%)
Query: 406 ASYHITPPRGVLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAERQ 465
S+ + V L GP G GKT LA ++ F DVL + R+
Sbjct: 22 VSFEVKDGEFVALLGPSGCGKTTTLLMLAGIYKPTSGEIYF-----DDVLVNDIPPKYRE 76
Query: 466 LKLLFEEAQRNQPSIIFFDEIDGLAPVRSSKQEQIHNSIVSTLLALM-DGLDSRGQVVLI 524
+ ++F+ P + F+ I R ++++ +V L+ D L R L
Sbjct: 77 VGMVFQNYAL-YPHMTVFENIAFPLRARRISKDEVEKRVVEIARKLLIDNLLDRKPTQLS 135
Query: 525 GATNRVDAIDGALRRPGRFDREFNFPLPGCEARAEILDIHTRKWKQPPSRELKSELAASC 584
G + A+ AL + + F+ PL LD + R + + L+ EL +
Sbjct: 136 GGQQQRVALARALVKQPKV-LLFDEPLSN-------LDANLRMIMRAEIKHLQQELGITS 187
Query: 585 VGYCGADLKALCTEAAIRAFRE-KYPQVYTSDDKF 618
V +A+ + I F + K Q T D+ +
Sbjct: 188 VYVTHDQAEAMTMASRIAVFNQGKLVQYGTPDEVY 222
>pdb|1IN7|A Chain A, Thermotoga Maritima Ruvb R170a
Length = 334
Score = 30.8 bits (68), Expect = 5.2, Method: Compositional matrix adjust.
Identities = 34/142 (23%), Positives = 57/142 (40%), Gaps = 24/142 (16%)
Query: 416 VLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQR 475
VLL GPPG GKT +A +A ++ V S V + + + +R
Sbjct: 54 VLLAGPPGLGKTTLAHIIASE-----------LQTNIHVTSGPVLVKQGDMAAILTSLER 102
Query: 476 NQPSIIFFDEIDGLAPVRSSKQEQIHNSIVSTLLALMDGLDSRGQVV--------LIGAT 527
++F DEI L + +E ++++I + +M G + + L+GAT
Sbjct: 103 GD--VLFIDEIHRL---NKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGAT 157
Query: 528 NRVDAIDGALRRPGRFDREFNF 549
R + LR E +F
Sbjct: 158 TRSGLLSSPLRSAFGIILELDF 179
>pdb|2XSZ|D Chain D, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|E Chain E, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
pdb|2XSZ|F Chain F, The Dodecameric Human Ruvbl1:ruvbl2 Complex With Truncated
Domains Ii
Length = 378
Score = 30.4 bits (67), Expect = 5.5, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 22/43 (51%), Gaps = 3/43 (6%)
Query: 414 RGVLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLS 456
R VL+ G PGTGKT IA A A G F G+++ S
Sbjct: 86 RAVLIAGQPGTGKTAIAXGXAQA---LGPDTPFTAIAGSEIFS 125
>pdb|3M6A|A Chain A, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|B Chain B, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|C Chain C, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|D Chain D, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|E Chain E, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
pdb|3M6A|F Chain F, Crystal Structure Of Bacillus Subtilis Lon C-Terminal
Domain
Length = 543
Score = 30.0 bits (66), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 24/95 (25%), Positives = 50/95 (52%), Gaps = 8/95 (8%)
Query: 403 DFFASYHITPP-RGVLLC--GPPGTGKTLIARALACAASKAGQKVSF-YMRKGADVLSK- 457
++ A +T +G +LC GPPG GKT +A+++A + + ++S +R +++
Sbjct: 95 EYLAVQKLTKSLKGPILCLAGPPGVGKTSLAKSIAKSLGRKFVRISLGGVRDESEIRGHR 154
Query: 458 --WVGEAERQLKLLFEEAQRNQPSIIFFDEIDGLA 490
+VG ++ ++A + P + DEID ++
Sbjct: 155 RTYVGAMPGRIIQGMKKAGKLNP-VFLLDEIDKMS 188
>pdb|1WA5|B Chain B, Crystal Structure Of The Exportin Cse1p Complexed With Its
Cargo (Kap60p) And Rangtp
Length = 530
Score = 30.0 bits (66), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 23/83 (27%), Positives = 37/83 (44%), Gaps = 4/83 (4%)
Query: 92 LEDYTDSSGSEDEDLMRPSYRPLRNRMRNNMSQDELSPSKRKKVVEAKPTPRREGLRPRR 151
+++ TDSS S+ P YR + + S DEL + + VE + R E L RR
Sbjct: 1 MDNGTDSSTSK----FVPEYRRTNFKNKGRFSADELRRRRDTQQVELRKAKRDEALAKRR 56
Query: 152 SMVATRKQLNLDSGDEQGSSEEK 174
+ + + D DE S ++
Sbjct: 57 NFIPPTDGADSDEEDESSVSADQ 79
>pdb|1IN4|A Chain A, Thermotoga Maritima Ruvb Holliday Junction Branch
Migration Motor
Length = 334
Score = 30.0 bits (66), Expect = 9.0, Method: Compositional matrix adjust.
Identities = 34/142 (23%), Positives = 57/142 (40%), Gaps = 24/142 (16%)
Query: 416 VLLCGPPGTGKTLIARALACAASKAGQKVSFYMRKGADVLSKWVGEAERQLKLLFEEAQR 475
VLL GPPG GKT +A +A ++ V S V + + + +R
Sbjct: 54 VLLAGPPGLGKTTLAHIIASE-----------LQTNIHVTSGPVLVKQGDMAAILTSLER 102
Query: 476 NQPSIIFFDEIDGLAPVRSSKQEQIHNSIVSTLLALMDGLDSRGQVV--------LIGAT 527
++F DEI L + +E ++++I + +M G + + L+GAT
Sbjct: 103 GD--VLFIDEIHRL---NKAVEELLYSAIEDFQIDIMIGKGPSAKSIRIDIQPFTLVGAT 157
Query: 528 NRVDAIDGALRRPGRFDREFNF 549
R + LR E +F
Sbjct: 158 TRSGLLSSPLRSRFGIILELDF 179
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.317 0.134 0.389
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 33,100,337
Number of Sequences: 62578
Number of extensions: 1316739
Number of successful extensions: 3475
Number of sequences better than 100.0: 161
Number of HSP's better than 100.0 without gapping: 117
Number of HSP's successfully gapped in prelim test: 44
Number of HSP's that attempted gapping in prelim test: 3214
Number of HSP's gapped (non-prelim): 193
length of query: 1205
length of database: 14,973,337
effective HSP length: 110
effective length of query: 1095
effective length of database: 8,089,757
effective search space: 8858283915
effective search space used: 8858283915
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 57 (26.6 bits)