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= psy13774
(110 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 131 bits (330), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 66/85 (77%), Positives = 66/85 (77%)
Query: 10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
AR AAPCVLFFDELDSIAK INQILTEMDGM KKNVFIIGATNR
Sbjct: 566 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 625
Query: 70 PDIIDPAILRPGRLDQLIYIPLPDE 94
PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 626 PDIIDPAILRPGRLDQLIYIPLPDE 650
Score = 62.4 bits (150), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
A AP ++F DELD+IA ++Q+LT MDG+ + +V ++ ATNR
Sbjct: 293 AEKNAPAIIFIDELDAIAPKREKTHGEVERRI---VSQLLTLMDGLKQRAHVIVMAATNR 349
Query: 70 PDIIDPAILRPGRLDQLIYIPLPD 93
P+ IDPA+ R GR D+ + I +PD
Sbjct: 350 PNSIDPALRRFGRFDREVDIGIPD 373
>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 = 131 bits (330), Expect = 9e-32, Method: Compositional matrix adjust.
Identities = 66/85 (77%), Positives = 66/85 (77%)
Query: 10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
AR AAPCVLFFDELDSIAK INQILTEMDGM KKNVFIIGATNR
Sbjct: 566 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 625
Query: 70 PDIIDPAILRPGRLDQLIYIPLPDE 94
PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 626 PDIIDPAILRPGRLDQLIYIPLPDE 650
Score = 62.4 bits (150), Expect = 6e-11, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
A AP ++F DELD+IA ++Q+LT MDG+ + +V ++ ATNR
Sbjct: 293 AEKNAPAIIFIDELDAIAPKREKTHGEVERRI---VSQLLTLMDGLKQRAHVIVMAATNR 349
Query: 70 PDIIDPAILRPGRLDQLIYIPLPD 93
P+ IDPA+ R GR D+ + I +PD
Sbjct: 350 PNSIDPALRRFGRFDREVDIGIPD 373
>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 = 131 bits (329), Expect = 1e-31, Method: Compositional matrix adjust.
Identities = 66/85 (77%), Positives = 66/85 (77%)
Query: 10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
AR AAPCVLFFDELDSIAK INQILTEMDGM KKNVFIIGATNR
Sbjct: 104 ARQAAPCVLFFDELDSIAKARGGNIGDGGGAADRVINQILTEMDGMSTKKNVFIIGATNR 163
Query: 70 PDIIDPAILRPGRLDQLIYIPLPDE 94
PDIIDPAILRPGRLDQLIYIPLPDE
Sbjct: 164 PDIIDPAILRPGRLDQLIYIPLPDE 188
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 92.8 bits (229), Expect = 4e-20, Method: Compositional matrix adjust.
Identities = 43/83 (51%), Positives = 59/83 (71%), Gaps = 3/83 (3%)
Query: 10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
A+ +APCV+FFDE+D++ +NQ+LTEMDG+ A++ VFI+ ATNR
Sbjct: 99 AKNSAPCVIFFDEVDALCPRRSDRETGASVRV---VNQLLTEMDGLEARQQVFIMAATNR 155
Query: 70 PDIIDPAILRPGRLDQLIYIPLP 92
PDIIDPAILRPGRLD+ +++ LP
Sbjct: 156 PDIIDPAILRPGRLDKTLFVGLP 178
>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 = 89.0 bits (219), Expect = 7e-19, Method: Compositional matrix adjust.
Identities = 46/99 (46%), Positives = 60/99 (60%), Gaps = 7/99 (7%)
Query: 3 IATGASM-------ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGM 55
I GAS+ A+ AP ++F DE+D+IA + Q+L EMDG
Sbjct: 92 IGEGASLVKDIFKLAKEKAPSIIFIDEIDAIAAKRTDALTGGDREVQRTLMQLLAEMDGF 151
Query: 56 GAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
A+ +V IIGATNRPDI+DPAILRPGR D++I +P PDE
Sbjct: 152 DARGDVKIIGATNRPDILDPAILRPGRFDRIIEVPAPDE 190
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 86.3 bits (212), Expect = 4e-18, Method: Compositional matrix adjust.
Identities = 39/100 (39%), Positives = 58/100 (58%), Gaps = 7/100 (7%)
Query: 1 MRIATGAS-------MARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMD 53
M + GAS A+ AAPC++F DE+D++ + +NQ+L EMD
Sbjct: 84 MFVGVGASRVRDMFEQAKKAAPCIIFIDEIDAVGRQRGAGLGGGHDEREQTLNQMLVEMD 143
Query: 54 GMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 93
G + + +I ATNRPD++DPA+LRPGR D+ + + LPD
Sbjct: 144 GFEGNEGIIVIAATNRPDVLDPALLRPGRFDRQVVVGLPD 183
>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 = 84.0 bits (206), Expect = 2e-17, Method: Composition-based stats.
Identities = 36/86 (41%), Positives = 55/86 (63%)
Query: 8 SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGAT 67
+ A+A APC++F DE+D++ + +NQ+L EMDG +K+ + ++ AT
Sbjct: 102 AQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAAT 161
Query: 68 NRPDIIDPAILRPGRLDQLIYIPLPD 93
NRPDI+DPA+LRPGR D+ I + PD
Sbjct: 162 NRPDILDPALLRPGRFDKKIVVDPPD 187
>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 = 84.0 bits (206), Expect = 2e-17, Method: Composition-based stats.
Identities = 36/86 (41%), Positives = 55/86 (63%)
Query: 8 SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGAT 67
+ A+A APC++F DE+D++ + +NQ+L EMDG +K+ + ++ AT
Sbjct: 102 AQAKAHAPCIVFIDEIDAVGRHRGAGLGGGHDEREQTLNQLLVEMDGFDSKEGIIVMAAT 161
Query: 68 NRPDIIDPAILRPGRLDQLIYIPLPD 93
NRPDI+DPA+LRPGR D+ I + PD
Sbjct: 162 NRPDILDPALLRPGRFDKKIVVDPPD 187
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 82.8 bits (203), Expect = 4e-17, Method: Compositional matrix adjust.
Identities = 36/84 (42%), Positives = 54/84 (64%), Gaps = 1/84 (1%)
Query: 10 ARAAAPCVLFFDELDSIAKXXXXXXXX-XXXXXXXXINQILTEMDGMGAKKNVFIIGATN 68
ARA APC+++ DE+D++ K +NQ+L EMDGMG +V ++ +TN
Sbjct: 94 ARARAPCIVYIDEIDAVGKKRSTTMSGFSNTEEEQTLNQLLVEMDGMGTTDHVIVLASTN 153
Query: 69 RPDIIDPAILRPGRLDQLIYIPLP 92
R DI+D A++RPGRLD+ ++I LP
Sbjct: 154 RADILDGALMRPGRLDRHVFIDLP 177
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 79.0 bits (193), Expect = 7e-16, Method: Compositional matrix adjust.
Identities = 35/86 (40%), Positives = 50/86 (58%)
Query: 8 SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGAT 67
A+ APC++F DE+D++ + +NQ+L EMDG + ++ AT
Sbjct: 126 ETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAAT 185
Query: 68 NRPDIIDPAILRPGRLDQLIYIPLPD 93
NRPDI+DPA+LRPGR D+ I I PD
Sbjct: 186 NRPDILDPALLRPGRFDRQIAIDAPD 211
>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 = 78.6 bits (192), Expect = 8e-16, Method: Compositional matrix adjust.
Identities = 35/86 (40%), Positives = 50/86 (58%)
Query: 8 SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGAT 67
A+ APC++F DE+D++ + +NQ+L EMDG + ++ AT
Sbjct: 102 ETAKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAAT 161
Query: 68 NRPDIIDPAILRPGRLDQLIYIPLPD 93
NRPDI+DPA+LRPGR D+ I I PD
Sbjct: 162 NRPDILDPALLRPGRFDRQIAIDAPD 187
>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 = 78.2 bits (191), Expect = 1e-15, Method: Composition-based stats.
Identities = 35/84 (41%), Positives = 50/84 (59%)
Query: 10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
A+ APC++F DE+D++ + +NQ+L EMDG + ++ ATNR
Sbjct: 128 AKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNR 187
Query: 70 PDIIDPAILRPGRLDQLIYIPLPD 93
PDI+DPA+LRPGR D+ I I PD
Sbjct: 188 PDILDPALLRPGRFDRQIAIDAPD 211
>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 = 78.2 bits (191), Expect = 1e-15, Method: Composition-based stats.
Identities = 35/84 (41%), Positives = 50/84 (59%)
Query: 10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
A+ APC++F DE+D++ + +NQ+L EMDG + ++ ATNR
Sbjct: 119 AKRHAPCIVFIDEIDAVGRKRGSGVGGGNDEREQTLNQLLVEMDGFEKDTAIVVMAATNR 178
Query: 70 PDIIDPAILRPGRLDQLIYIPLPD 93
PDI+DPA+LRPGR D+ I I PD
Sbjct: 179 PDILDPALLRPGRFDRQIAIDAPD 202
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 76.6 bits (187), Expect = 3e-15, Method: Compositional matrix adjust.
Identities = 36/87 (41%), Positives = 51/87 (58%)
Query: 8 SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGAT 67
+ A+ PC++F DE+D+I + ++LT+MDG II AT
Sbjct: 268 AYAKEHEPCIIFMDEVDAIGGRRFSEGTSADREIQRTLMELLTQMDGFDNLGQTKIIMAT 327
Query: 68 NRPDIIDPAILRPGRLDQLIYIPLPDE 94
NRPD +DPA+LRPGRLD+ + IPLP+E
Sbjct: 328 NRPDTLDPALLRPGRLDRKVEIPLPNE 354
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 73.2 bits (178), Expect = 3e-14, Method: Composition-based stats.
Identities = 43/106 (40%), Positives = 56/106 (52%), Gaps = 5/106 (4%)
Query: 9 MARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATN 68
MAR AP ++F DE+DSI + ++L ++DG KN+ II ATN
Sbjct: 236 MAREHAPSIIFMDEIDSIGSTRVEGSGGGDSEVQRTMLELLNQLDGFETSKNIKIIMATN 295
Query: 69 RPDIIDPAILRPGRLDQLIYIPLPD-----EIWLILSDKFLYKRKI 109
R DI+DPA+LRPGR+D+ I P P EI I S K R I
Sbjct: 296 RLDILDPALLRPGRIDRKIEFPPPSVAARAEILRIHSRKMNLTRGI 341
>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 = 72.0 bits (175), Expect = 9e-14, Method: Compositional matrix adjust.
Identities = 38/102 (37%), Positives = 57/102 (55%), Gaps = 9/102 (8%)
Query: 1 MRIATGAS-------MARAAAPCVLFFDELDSIAKXXXXXXXXXXX-XXXXXINQILTEM 52
M + GAS A+ AP ++F DE+D+I K +NQ+L EM
Sbjct: 83 MFVGLGASRVRDLFETAKKQAPSIIFIDEIDAIGKSRAAGGVVSGNDEREQTLNQLLAEM 142
Query: 53 DGMGAKKN-VFIIGATNRPDIIDPAILRPGRLDQLIYIPLPD 93
DG G++ V ++ ATNRP+I+DPA++RPGR D+ + + PD
Sbjct: 143 DGFGSENAPVIVLAATNRPEILDPALMRPGRFDRQVLVDKPD 184
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 71.2 bits (173), Expect = 1e-13, Method: Composition-based stats.
Identities = 36/82 (43%), Positives = 48/82 (58%)
Query: 9 MARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATN 68
+AR AP ++F DE+DSIA + ++LT+MDG NV +I ATN
Sbjct: 260 LARENAPSIIFIDEVDSIATKRFDAQTGSDREVQRILIELLTQMDGFDQSTNVKVIMATN 319
Query: 69 RPDIIDPAILRPGRLDQLIYIP 90
R D +DPA+LRPGRLD+ I P
Sbjct: 320 RADTLDPALLRPGRLDRKIEFP 341
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 70.9 bits (172), Expect = 2e-13, Method: Compositional matrix adjust.
Identities = 30/86 (34%), Positives = 51/86 (59%)
Query: 8 SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGAT 67
MAR C++FFDE+D++ + +++T++DG + N+ ++ AT
Sbjct: 296 EMARTKKACIIFFDEIDAVGGARFDDGAGGDNEVQRTMLELITQLDGFDPRGNIKVMFAT 355
Query: 68 NRPDIIDPAILRPGRLDQLIYIPLPD 93
NRP+ +DPA+LRPGR+D+ + LPD
Sbjct: 356 NRPNTLDPALLRPGRIDRKVEFSLPD 381
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 68.9 bits (167), Expect = 7e-13, Method: Composition-based stats.
Identities = 37/101 (36%), Positives = 53/101 (52%), Gaps = 7/101 (6%)
Query: 1 MRIATGASMARAA-------APCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMD 53
M I GA + R A AP ++F DELD+I + ++L ++D
Sbjct: 254 MYIGEGAKLVRDAFALAKEKAPTIIFIDELDAIGTKRFDSEKSGDREVQRTMLELLNQLD 313
Query: 54 GMGAKKNVFIIGATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
G + V ++ ATNR D++DPA+LR GRLD+ I PLP E
Sbjct: 314 GFSSDDRVKVLAATNRVDVLDPALLRSGRLDRKIEFPLPSE 354
>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 = 62.8 bits (151), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
A AP ++F DELD+IA ++Q+LT MDG+ + +V ++ ATNR
Sbjct: 293 AEKNAPAIIFIDELDAIAPKREKTHGEVERRI---VSQLLTLMDGLKQRAHVIVMAATNR 349
Query: 70 PDIIDPAILRPGRLDQLIYIPLPD 93
P+ IDPA+ R GR D+ + I +PD
Sbjct: 350 PNSIDPALRRFGRFDREVDIGIPD 373
>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 = 62.8 bits (151), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
A AP ++F DELD+IA ++Q+LT MDG+ + +V ++ ATNR
Sbjct: 293 AEKNAPAIIFIDELDAIAPKREKTHGEVERRI---VSQLLTLMDGLKQRAHVIVMAATNR 349
Query: 70 PDIIDPAILRPGRLDQLIYIPLPD 93
P+ IDPA+ R GR D+ + I +PD
Sbjct: 350 PNSIDPALRRFGRFDREVDIGIPD 373
>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 = 62.8 bits (151), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
A AP ++F DELD+IA ++Q+LT MDG+ + +V ++ ATNR
Sbjct: 293 AEKNAPAIIFIDELDAIAPKREKTHGEVERRI---VSQLLTLMDGLKQRAHVIVMAATNR 349
Query: 70 PDIIDPAILRPGRLDQLIYIPLPD 93
P+ IDPA+ R GR D+ + I +PD
Sbjct: 350 PNSIDPALRRFGRFDREVDIGIPD 373
>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 = 62.4 bits (150), Expect = 5e-11, Method: Compositional matrix adjust.
Identities = 33/84 (39%), Positives = 49/84 (58%), Gaps = 3/84 (3%)
Query: 10 ARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNR 69
A AP ++F DELD+IA ++Q+LT MDG+ + +V ++ ATNR
Sbjct: 293 AEKNAPAIIFIDELDAIAPKREKTHGEVERRI---VSQLLTLMDGLKQRAHVIVMAATNR 349
Query: 70 PDIIDPAILRPGRLDQLIYIPLPD 93
P+ IDPA+ R GR D+ + I +PD
Sbjct: 350 PNSIDPALRRFGRFDREVDIGIPD 373
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 55.5 bits (132), Expect = 8e-09, Method: Composition-based stats.
Identities = 26/80 (32%), Positives = 45/80 (56%)
Query: 14 APCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKNVFIIGATNRPDII 73
AP ++F DE+D+I + ++L ++DG + +V +I ATN+ + +
Sbjct: 275 APSIVFIDEIDAIGTKRYDSNSGGEREIQRTMLELLNQLDGFDDRGDVKVIMATNKIETL 334
Query: 74 DPAILRPGRLDQLIYIPLPD 93
DPA++RPGR+D+ I PD
Sbjct: 335 DPALIRPGRIDRKILFENPD 354
>pdb|2RKO|A Chain A, Crystal Structure Of The Vps4p-Dimer
Length = 331
Score = 50.1 bits (118), Expect = 3e-07, Method: Composition-based stats.
Identities = 30/87 (34%), Positives = 47/87 (54%), Gaps = 6/87 (6%)
Query: 8 SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGA-KKNVFIIGA 66
+MAR P ++F DE+D++ ++L +M+G+G + V ++GA
Sbjct: 113 AMARENKPSIIFIDEVDALTGTRGEGESEASRRIK---TELLVQMNGVGNDSQGVLVLGA 169
Query: 67 TNRPDIIDPAILRPGRLDQLIYIPLPD 93
TN P +D AI R R ++ IYIPLPD
Sbjct: 170 TNIPWQLDSAIRR--RFERRIYIPLPD 194
>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 = 50.1 bits (118), Expect = 4e-07, Method: Composition-based stats.
Identities = 28/86 (32%), Positives = 45/86 (52%), Gaps = 6/86 (6%)
Query: 9 MARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKN-VFIIGAT 67
+AR P ++F DE+DS+ + L +M G+G + + ++GAT
Sbjct: 222 LARENKPSIIFIDEIDSLCGSRSENESEAARRIK---TEFLVQMQGVGVDNDGILVLGAT 278
Query: 68 NRPDIIDPAILRPGRLDQLIYIPLPD 93
N P ++D AI R R ++ IYIPLP+
Sbjct: 279 NIPWVLDSAIRR--RFEKRIYIPLPE 302
>pdb|3EIE|A Chain A, Crystal Structure Of S.Cerevisiae Vps4 In The So4-Bound
State
Length = 322
Score = 49.3 bits (116), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 29/87 (33%), Positives = 47/87 (54%), Gaps = 6/87 (6%)
Query: 8 SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGA-KKNVFIIGA 66
+MAR P ++F D++D++ ++L +M+G+G + V ++GA
Sbjct: 104 AMARENKPSIIFIDQVDALTGTRGEGESEASRRIK---TELLVQMNGVGNDSQGVLVLGA 160
Query: 67 TNRPDIIDPAILRPGRLDQLIYIPLPD 93
TN P +D AI R R ++ IYIPLPD
Sbjct: 161 TNIPWQLDSAIRR--RFERRIYIPLPD 185
>pdb|1XWI|A Chain A, Crystal Structure Of Vps4b
Length = 322
Score = 49.3 bits (116), Expect = 6e-07, Method: Compositional matrix adjust.
Identities = 28/86 (32%), Positives = 45/86 (52%), Gaps = 6/86 (6%)
Query: 9 MARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKN-VFIIGAT 67
+AR P ++F DE+DS+ + L +M G+G + + ++GAT
Sbjct: 100 LARENKPSIIFIDEIDSLCGSRSENESEAARRIK---TEFLVQMQGVGVDNDGILVLGAT 156
Query: 68 NRPDIIDPAILRPGRLDQLIYIPLPD 93
N P ++D AI R R ++ IYIPLP+
Sbjct: 157 NIPWVLDSAIRR--RFEKRIYIPLPE 180
>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 = 49.3 bits (116), Expect = 6e-07, Method: Composition-based stats.
Identities = 29/87 (33%), Positives = 47/87 (54%), Gaps = 6/87 (6%)
Query: 8 SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGA-KKNVFIIGA 66
+MAR P ++F D++D++ ++L +M+G+G + V ++GA
Sbjct: 137 AMARENKPSIIFIDQVDALTGTRGEGESEASRRIK---TELLVQMNGVGNDSQGVLVLGA 193
Query: 67 TNRPDIIDPAILRPGRLDQLIYIPLPD 93
TN P +D AI R R ++ IYIPLPD
Sbjct: 194 TNIPWQLDSAIRR--RFERRIYIPLPD 218
>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 = 48.9 bits (115), Expect = 8e-07, Method: Composition-based stats.
Identities = 29/87 (33%), Positives = 47/87 (54%), Gaps = 6/87 (6%)
Query: 8 SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGA-KKNVFIIGA 66
+MAR P ++F D++D++ ++L +M+G+G + V ++GA
Sbjct: 122 AMARENKPSIIFIDQVDALTGTRGEGESEASRRIK---TELLVQMNGVGNDSQGVLVLGA 178
Query: 67 TNRPDIIDPAILRPGRLDQLIYIPLPD 93
TN P +D AI R R ++ IYIPLPD
Sbjct: 179 TNIPWQLDSAIRR--RFERRIYIPLPD 203
>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 = 47.8 bits (112), Expect = 1e-06, Method: Compositional matrix adjust.
Identities = 29/88 (32%), Positives = 45/88 (51%), Gaps = 7/88 (7%)
Query: 8 SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDG--MGAKKNVFIIG 65
++AR P V+F DE+DS+ + L ++DG ++ + ++G
Sbjct: 170 AVARCQQPAVIFIDEIDSLLSQRGDGEHESSRRIK---TEFLVQLDGATTSSEDRILVVG 226
Query: 66 ATNRPDIIDPAILRPGRLDQLIYIPLPD 93
ATNRP ID A R RL + +YIPLP+
Sbjct: 227 ATNRPQEIDEAARR--RLVKRLYIPLPE 252
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 43.9 bits (102), Expect = 2e-05, Method: Composition-based stats.
Identities = 27/89 (30%), Positives = 44/89 (49%), Gaps = 7/89 (7%)
Query: 8 SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGM--GAKKNVFIIG 65
++AR P ++F D++DS+ + L E DG+ V ++G
Sbjct: 201 AVARELQPSIIFIDQVDSLLCERREGEHDASRRLK---TEFLIEFDGVQSAGDDRVLVMG 257
Query: 66 ATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
ATNRP +D A+LR R + +Y+ LP+E
Sbjct: 258 ATNRPQELDEAVLR--RFIKRVYVSLPNE 284
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 42.4 bits (98), Expect = 7e-05, Method: Compositional matrix adjust.
Identities = 27/90 (30%), Positives = 43/90 (47%), Gaps = 8/90 (8%)
Query: 8 SMARAAAPCVLFFDELDSIAKXXXXXXXXXXXXXXXXINQILTEMDGMGAKKN---VFII 64
++AR P ++F DE+DS+ + L E DG+ + + ++
Sbjct: 107 AVARHMQPSIIFIDEVDSLLSERSSSEHEASRRLK---TEFLVEFDGLPGNPDGDRIVVL 163
Query: 65 GATNRPDIIDPAILRPGRLDQLIYIPLPDE 94
ATNRP +D A LR R + +Y+ LPDE
Sbjct: 164 AATNRPQELDEAALR--RFTKRVYVSLPDE 191
>pdb|1YB1|A Chain A, Crystal Structure Of Human 17-Beta-Hydroxysteroid
Dehydrogenase Type Xi
pdb|1YB1|B Chain B, Crystal Structure Of Human 17-Beta-Hydroxysteroid
Dehydrogenase Type Xi
Length = 272
Score = 27.3 bits (59), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 10/32 (31%), Positives = 18/32 (56%)
Query: 45 INQILTEMDGMGAKKNVFIIGATNRPDIIDPA 76
+ + + G+GAK + F++ +NR DI A
Sbjct: 68 LEETAAKCKGLGAKVHTFVVDCSNREDIYSSA 99
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
0.326 0.143 0.424
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,575,444
Number of Sequences: 62578
Number of extensions: 79484
Number of successful extensions: 267
Number of sequences better than 100.0: 34
Number of HSP's better than 100.0 without gapping: 27
Number of HSP's successfully gapped in prelim test: 7
Number of HSP's that attempted gapping in prelim test: 196
Number of HSP's gapped (non-prelim): 36
length of query: 110
length of database: 14,973,337
effective HSP length: 74
effective length of query: 36
effective length of database: 10,342,565
effective search space: 372332340
effective search space used: 372332340
T: 11
A: 40
X1: 15 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 45 (21.9 bits)