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= psy1374
(263 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4B4T|J Chain J, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 405
Score = 35.8 bits (81), Expect = 0.023, Method: Compositional matrix adjust.
Identities = 15/22 (68%), Positives = 18/22 (81%)
Query: 1 MSTQALTILDPALVRPGRVDLK 22
M+T L ILDPAL+RPGR+D K
Sbjct: 292 MATNRLDILDPALLRPGRIDRK 313
>pdb|4B4T|I Chain I, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 33.9 bits (76), Expect = 0.092, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 17/22 (77%)
Query: 1 MSTQALTILDPALVRPGRVDLK 22
M+T + LDPAL+RPGR+D K
Sbjct: 326 MATNKIETLDPALIRPGRIDRK 347
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 32.3 bits (72), Expect = 0.28, Method: Compositional matrix adjust.
Identities = 15/37 (40%), Positives = 21/37 (56%)
Query: 2 STQALTILDPALVRPGRVDLKEYIGFCSRHQLEQMYK 38
+T +LDPAL+RPGR D + +G EQ+ K
Sbjct: 156 ATNRPDVLDPALLRPGRFDRQVVVGLPDVRGREQILK 192
>pdb|4B4T|L Chain L, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 437
Score = 31.2 bits (69), Expect = 0.63, Method: Compositional matrix adjust.
Identities = 17/50 (34%), Positives = 25/50 (50%)
Query: 1 MSTQALTILDPALVRPGRVDLKEYIGFCSRHQLEQMYKRFYQDVDNASKF 50
M+T LDPAL+RPGR+D K I + +++K V +F
Sbjct: 325 MATNRPDTLDPALLRPGRLDRKVEIPLPNEAGRLEIFKIHTAKVKKTGEF 374
>pdb|4B4T|K Chain K, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 428
Score = 30.4 bits (67), Expect = 0.93, Method: Compositional matrix adjust.
Identities = 13/22 (59%), Positives = 16/22 (72%)
Query: 1 MSTQALTILDPALVRPGRVDLK 22
M+T LDPAL+RPGR+D K
Sbjct: 316 MATNRADTLDPALLRPGRLDRK 337
>pdb|2X8A|A Chain A, Human Nuclear Valosin Containing Protein Like (Nvl), C-
Terminal Aaa-Atpase Domain
Length = 274
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 10/20 (50%), Positives = 16/20 (80%)
Query: 8 ILDPALVRPGRVDLKEYIGF 27
I+DPA++RPGR+D ++G
Sbjct: 158 IIDPAILRPGRLDKTLFVGL 177
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 30.0 bits (66), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 2 STQALTILDPALVRPGRVDLKEYI---GFCSRHQLEQMYKR---FYQDVDNA 47
+T ILDPAL+RPGR D + I R Q+ +++ R +DVD A
Sbjct: 184 ATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLA 235
>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 = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 2 STQALTILDPALVRPGRVDLKEYI---GFCSRHQLEQMYKR---FYQDVDNA 47
+T ILDPAL+RPGR D + I R Q+ +++ R +DVD A
Sbjct: 175 ATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLA 226
>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 = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 2 STQALTILDPALVRPGRVDLKEYI---GFCSRHQLEQMYKR---FYQDVDNA 47
+T ILDPAL+RPGR D + I R Q+ +++ R +DVD A
Sbjct: 184 ATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLA 235
>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 = 29.6 bits (65), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 20/52 (38%), Positives = 28/52 (53%), Gaps = 6/52 (11%)
Query: 2 STQALTILDPALVRPGRVDLKEYI---GFCSRHQLEQMYKR---FYQDVDNA 47
+T ILDPAL+RPGR D + I R Q+ +++ R +DVD A
Sbjct: 160 ATNRPDILDPALLRPGRFDRQIAIDAPDVKGREQILRIHARGKPLAEDVDLA 211
>pdb|4B4T|M Chain M, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 434
Score = 29.3 bits (64), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 18/43 (41%), Positives = 26/43 (60%), Gaps = 7/43 (16%)
Query: 2 STQALTILDPALVRPGRVDLKEYIGFC-----SRHQLEQMYKR 39
+T + +LDPAL+R GR+D K I F SR Q+ Q++ R
Sbjct: 326 ATNRVDVLDPALLRSGRLDRK--IEFPLPSEDSRAQILQIHSR 366
>pdb|4B4T|H Chain H, Near-Atomic Resolution Structural Model Of The Yeast 26s
Proteasome
Length = 467
Score = 28.9 bits (63), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 12/21 (57%), Positives = 15/21 (71%)
Query: 2 STQALTILDPALVRPGRVDLK 22
+T LDPAL+RPGR+D K
Sbjct: 354 ATNRPNTLDPALLRPGRIDRK 374
>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 = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 15/21 (71%)
Query: 2 STQALTILDPALVRPGRVDLK 22
+T ILDPAL+RPGR D K
Sbjct: 160 ATNRPDILDPALLRPGRFDKK 180
>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 = 28.9 bits (63), Expect = 2.8, Method: Compositional matrix adjust.
Identities = 13/21 (61%), Positives = 15/21 (71%)
Query: 2 STQALTILDPALVRPGRVDLK 22
+T ILDPAL+RPGR D K
Sbjct: 160 ATNRPDILDPALLRPGRFDKK 180
>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 = 28.5 bits (62), Expect = 4.1, Method: Compositional matrix adjust.
Identities = 12/19 (63%), Positives = 14/19 (73%)
Query: 2 STQALTILDPALVRPGRVD 20
+T ILDPAL+RPGR D
Sbjct: 157 ATNRPEILDPALMRPGRFD 175
>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 = 28.1 bits (61), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 2 STQALTILDPALVRPGRVDLKEYI 25
+T I+DPA++RPGR+D YI
Sbjct: 622 ATNRPDIIDPAILRPGRLDQLIYI 645
>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 = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 2 STQALTILDPALVRPGRVDLKEYI 25
+T I+DPA++RPGR+D YI
Sbjct: 160 ATNRPDIIDPAILRPGRLDQLIYI 183
>pdb|1R7R|A Chain A, The Crystal Structure Of Murine P97VCP AT 3.6A
Length = 816
Score = 28.1 bits (61), Expect = 4.6, Method: Compositional matrix adjust.
Identities = 12/24 (50%), Positives = 17/24 (70%)
Query: 2 STQALTILDPALVRPGRVDLKEYI 25
+T I+DPA++RPGR+D YI
Sbjct: 622 ATNRPDIIDPAILRPGRLDQLIYI 645
>pdb|3ZF7|R Chain R, High-resolution Cryo-electron Microscopy Structure Of The
Trypanosoma Brucei Ribosome
Length = 166
Score = 28.1 bits (61), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 18/51 (35%), Positives = 26/51 (50%), Gaps = 4/51 (7%)
Query: 181 RDRSLFFNILEEARTLALKQYEGKTVMYTALGSEWRPFGHPKRRRPLNSVV 231
+ + L+ +L + R + K+Y GK + TA EW G K R P SVV
Sbjct: 43 KAQQLYRQVLAKTRCIPFKRYNGK-IGNTAQAKEW---GQTKGRWPRKSVV 89
>pdb|2YIU|B Chain B, X-Ray Structure Of The Dimeric Cytochrome Bc1 Complex From
The Soil Bacterium Paracoccus Denitrificans At 2.7
Angstrom Resolution
pdb|2YIU|E Chain E, X-Ray Structure Of The Dimeric Cytochrome Bc1 Complex From
The Soil Bacterium Paracoccus Denitrificans At 2.7
Angstrom Resolution
Length = 263
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 21/106 (19%), Positives = 43/106 (40%), Gaps = 12/106 (11%)
Query: 127 TGYVKTKYDFIPSIGTHLFSYQGNWIRVERSRESTTLDIQQGIPWETVTLTAFGRDRSLF 186
TGY + + ++ H ++ GNWI++ + + G P T+ D + F
Sbjct: 159 TGYDGEEKEEAGAVLYHNAAFAGNWIQMAAPLSDDQVTYEDGTP---ATVDQMATDVAAF 215
Query: 187 FNILEEARTLALKQYEGKTVMYTALGSE---------WRPFGHPKR 223
E + + KQ +V++ + + W+P HP++
Sbjct: 216 LMWTAEPKMMDRKQVGFVSVIFLIVLAALLYLTNKKLWQPIKHPRK 261
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 28.1 bits (61), Expect = 4.8, Method: Compositional matrix adjust.
Identities = 13/43 (30%), Positives = 25/43 (58%)
Query: 2 STQALTILDPALVRPGRVDLKEYIGFCSRHQLEQMYKRFYQDV 44
ST ILD AL+RPGR+D +I + + +++++ + +
Sbjct: 151 STNRADILDGALMRPGRLDRHVFIDLPTLQERREIFEQHLKSL 193
Database: pdbaa
Posted date: Mar 3, 2013 10:34 PM
Number of letters in database: 14,973,337
Number of sequences in database: 62,578
Lambda K H
0.322 0.137 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,071,626
Number of Sequences: 62578
Number of extensions: 260327
Number of successful extensions: 589
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 570
Number of HSP's gapped (non-prelim): 21
length of query: 263
length of database: 14,973,337
effective HSP length: 97
effective length of query: 166
effective length of database: 8,903,271
effective search space: 1477942986
effective search space used: 1477942986
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.9 bits)
S2: 50 (23.9 bits)