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= psy13368
(182 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>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 = 90.5 bits (223), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 46/127 (36%), Positives = 77/127 (60%), Gaps = 9/127 (7%)
Query: 52 PEYYQNLG-AKYTPSEQK-LYNKEELFDRMCMALGGRAAEAIVFNRITSGAQNDLKKVTE 109
P Y+ LG + P E K L ++ EL D++ LGGRAAE +VF +TSGA ND+++ TE
Sbjct: 302 PRGYKALGYTLHLPEEDKYLVSRNELLDKLTALLGGRAAEEVVFGDVTSGAANDIERATE 361
Query: 110 MANMQIRQFGMNENIGLVSFPKDDNR-------QSIRPYSKRLAALMDEEASKLIAQCYM 162
+A + Q GM+E +G +++ K++ +R YS+ +A+ +DEE K++ CY
Sbjct: 362 IARNMVCQLGMSEELGPLAWGKEEQEVFLGKEITRLRNYSEEVASKIDEEVKKIVTNCYE 421
Query: 163 HTEKVLR 169
++++R
Sbjct: 422 RAKEIIR 428
Score = 34.3 bits (77), Expect = 0.035, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 23/39 (58%)
Query: 23 GGRGVKFSDVAGLREAKVEVMEFVDYLKRPEYYQNLGAK 61
G + V F DV G EA E+ E V++LK P + +GA+
Sbjct: 9 GNKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGAR 47
>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 = 90.5 bits (223), Expect = 5e-19, Method: Compositional matrix adjust.
Identities = 46/127 (36%), Positives = 77/127 (60%), Gaps = 9/127 (7%)
Query: 52 PEYYQNLG-AKYTPSEQK-LYNKEELFDRMCMALGGRAAEAIVFNRITSGAQNDLKKVTE 109
P Y+ LG + P E K L ++ EL D++ LGGRAAE +VF +TSGA ND+++ TE
Sbjct: 302 PRGYKALGYTLHLPEEDKYLVSRNELLDKLTALLGGRAAEEVVFGDVTSGAANDIERATE 361
Query: 110 MANMQIRQFGMNENIGLVSFPKDDNR-------QSIRPYSKRLAALMDEEASKLIAQCYM 162
+A + Q GM+E +G +++ K++ +R YS+ +A+ +DEE K++ CY
Sbjct: 362 IARNMVCQLGMSEELGPLAWGKEEQEVFLGKEITRLRNYSEEVASKIDEEVKKIVTNCYE 421
Query: 163 HTEKVLR 169
++++R
Sbjct: 422 RAKEIIR 428
Score = 34.3 bits (77), Expect = 0.036, Method: Compositional matrix adjust.
Identities = 16/39 (41%), Positives = 23/39 (58%)
Query: 23 GGRGVKFSDVAGLREAKVEVMEFVDYLKRPEYYQNLGAK 61
G + V F DV G EA E+ E V++LK P + +GA+
Sbjct: 9 GNKRVTFKDVGGAEEAIEELKEVVEFLKDPSKFNRIGAR 47
>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 = 73.9 bits (180), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 37/120 (30%), Positives = 72/120 (60%), Gaps = 7/120 (5%)
Query: 70 YNKEELFDRMCMALGGRAAEAIVFNRITSGAQNDLKKVTEMANMQIRQFGMNENIGLVSF 129
++++ L D++ +AL GRAAE IVF+ +T+GA+ND ++ TE+A I ++GM+ G V++
Sbjct: 335 WSRKRLLDQIAVALAGRAAEEIVFDDVTTGAENDFRQATELARRMITEWGMHPEFGPVAY 394
Query: 130 PKDDNR----QSIRPYSKRLAALMDEEASKLIAQCYMHTEKVL---RDNMDKLTLSFLSK 182
++ +R YS+ A +DE +LI + Y + +L R+ ++++ + L +
Sbjct: 395 AVREDTYLGGYDVRQYSEETAKRIDEAVRRLIEEQYQRVKALLLEKREVLERVAETLLER 454
Score = 28.5 bits (62), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 23/35 (65%)
Query: 27 VKFSDVAGLREAKVEVMEFVDYLKRPEYYQNLGAK 61
V F DVAG EAK E+ E V++LK P + +GA+
Sbjct: 28 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGAR 62
>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 = 73.9 bits (180), Expect = 4e-14, Method: Compositional matrix adjust.
Identities = 37/120 (30%), Positives = 72/120 (60%), Gaps = 7/120 (5%)
Query: 70 YNKEELFDRMCMALGGRAAEAIVFNRITSGAQNDLKKVTEMANMQIRQFGMNENIGLVSF 129
++++ L D++ +AL GRAAE IVF+ +T+GA+ND ++ TE+A I ++GM+ G V++
Sbjct: 344 WSRKRLLDQIAVALAGRAAEEIVFDDVTTGAENDFRQATELARRMITEWGMHPEFGPVAY 403
Query: 130 PKDDNR----QSIRPYSKRLAALMDEEASKLIAQCYMHTEKVL---RDNMDKLTLSFLSK 182
++ +R YS+ A +DE +LI + Y + +L R+ ++++ + L +
Sbjct: 404 AVREDTYLGGYDVRQYSEETAKRIDEAVRRLIEEQYQRVKALLLEKREVLERVAETLLER 463
Score = 28.5 bits (62), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 23/35 (65%)
Query: 27 VKFSDVAGLREAKVEVMEFVDYLKRPEYYQNLGAK 61
V F DVAG EAK E+ E V++LK P + +GA+
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGAR 71
>pdb|2DI4|A Chain A, Crystal Structure Of The Ftsh Protease Domain
pdb|2DI4|B Chain B, Crystal Structure Of The Ftsh Protease Domain
Length = 238
Score = 62.4 bits (150), Expect = 1e-10, Method: Compositional matrix adjust.
Identities = 36/125 (28%), Positives = 71/125 (56%), Gaps = 18/125 (14%)
Query: 64 PSEQK-LYNKEELFDRMCMALGGRAAEAIVFNR--ITSGAQNDLKKVTEMANMQIRQFGM 120
P E K +Y+K++L++++ + LGGRAAE + F + IT+GA+NDL++ T++A + +GM
Sbjct: 58 PIEDKHIYDKKDLYNKILVLLGGRAAEEVFFGKDGITTGAENDLQRATDLAYRMVSMWGM 117
Query: 121 NENIGLVSFPKDDNRQSIRPY----------SKRLAALMDEEASKLIAQCYMHTEKVLRD 170
++ +G ++ R+ P+ S L +DEE ++I + Y + ++ +
Sbjct: 118 SDKVGPIAI-----RRVANPFLGGMTTAVDTSPDLLREIDEEVKRIITEQYEKAKAIVEE 172
Query: 171 NMDKL 175
+ L
Sbjct: 173 YKEPL 177
>pdb|2QZ4|A Chain A, Human Paraplegin, Aaa Domain In Complex With Adp
Length = 262
Score = 55.1 bits (131), Expect = 2e-08, Method: Compositional matrix adjust.
Identities = 25/36 (69%), Positives = 28/36 (77%)
Query: 26 GVKFSDVAGLREAKVEVMEFVDYLKRPEYYQNLGAK 61
GV F DVAG+ EAK+EV EFVDYLK PE + LGAK
Sbjct: 2 GVSFKDVAGMHEAKLEVREFVDYLKSPERFLQLGAK 37
>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 = 48.5 bits (114), Expect = 2e-06, Method: Compositional matrix adjust.
Identities = 23/35 (65%), Positives = 27/35 (77%)
Query: 27 VKFSDVAGLREAKVEVMEFVDYLKRPEYYQNLGAK 61
V+F D+AG EAK EV+E VD+LK PE Y NLGAK
Sbjct: 8 VRFKDMAGNEEAKEEVVEIVDFLKYPERYANLGAK 42
>pdb|1LV7|A Chain A, Crystal Structure Of The Aaa Domain Of Ftsh
Length = 257
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 19/34 (55%), Positives = 23/34 (67%)
Query: 29 FSDVAGLREAKVEVMEFVDYLKRPEYYQNLGAKY 62
F+DVAG EAK EV E V+YL+ P +Q LG K
Sbjct: 11 FADVAGCDEAKEEVAELVEYLREPSRFQKLGGKI 44
>pdb|2WUX|A Chain A, The Crystal Structure Of Recombinant Baculovirus Polyhedra
Length = 245
Score = 29.3 bits (64), Expect = 1.4, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 28/60 (46%)
Query: 18 DPLVGGGRGVKFSDVAGLREAKVEVMEFVDYLKRPEYYQNLGAKYTPSEQKLYNKEELFD 77
DP +G G+ K + +R K + M+ V K E+Y+ ++ + N +E+ D
Sbjct: 58 DPFLGPGKNQKLTLFKEIRNVKPDTMKLVVGWKGKEFYRETWTRFMEDSFPIVNDQEVMD 117
>pdb|2WUY|A Chain A, The Crystal Structure Of Wild-Type Baculovirus Polyhedra
Length = 245
Score = 28.9 bits (63), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 15/60 (25%), Positives = 28/60 (46%)
Query: 18 DPLVGGGRGVKFSDVAGLREAKVEVMEFVDYLKRPEYYQNLGAKYTPSEQKLYNKEELFD 77
DP +G G+ K + +R K + M+ V K E+Y+ ++ + N +E+ D
Sbjct: 58 DPFLGPGKNQKLTLFKEIRNVKPDTMKLVVGWKGKEFYRETWTRFMEDSFPIVNDQEVMD 117
>pdb|3B9P|A Chain A, Spastin
Length = 297
Score = 28.9 bits (63), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/46 (36%), Positives = 26/46 (56%), Gaps = 1/46 (2%)
Query: 16 LVDPLVGGGRGVKFSDVAGLREAKVEVMEFVDYLK-RPEYYQNLGA 60
++D +V GG V+++D+AG AK + E V RPE + L A
Sbjct: 7 ILDEIVEGGAKVEWTDIAGQDVAKQALQEMVILPSVRPELFTGLRA 52
>pdb|3VFD|A Chain A, Human Spastin Aaa Domain
Length = 389
Score = 28.9 bits (63), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 20/57 (35%), Positives = 28/57 (49%), Gaps = 1/57 (1%)
Query: 5 FQNQMSRAKFTLVDPLVGGGRGVKFSDVAGLREAKVEVMEFVDYLK-RPEYYQNLGA 60
F+N S +++ +V G VKF D+AG AK + E V RPE + L A
Sbjct: 90 FRNVDSNLANLIMNEIVDNGTAVKFDDIAGQDLAKQALQEIVILPSLRPELFTGLRA 146
>pdb|1IY2|A Chain A, Crystal Structure Of The Ftsh Atpase Domain From Thermus
Thermophilus
Length = 278
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 17/35 (48%), Positives = 23/35 (65%)
Query: 27 VKFSDVAGLREAKVEVMEFVDYLKRPEYYQNLGAK 61
V F DVAG EAK E+ E V++LK P + +GA+
Sbjct: 37 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGAR 71
>pdb|3PTR|B Chain B, Phf2 Jumonji Domain
pdb|3PU3|A Chain A, Phf2 Jumonji Domain-Nog Complex
pdb|3PU3|B Chain B, Phf2 Jumonji Domain-Nog Complex
pdb|3PU8|B Chain B, Phf2 Jumonji-Nog-Fe(Ii) Complex
pdb|3PU8|A Chain A, Phf2 Jumonji-Nog-Fe(Ii) Complex
pdb|3PUA|A Chain A, Phf2 Jumonji-Nog-Ni(Ii)
pdb|3PUS|A Chain A, Phf2 Jumonji-Nog-Ni(Ii)
pdb|3PUS|B Chain B, Phf2 Jumonji-Nog-Ni(Ii)
Length = 392
Score = 28.5 bits (62), Expect = 2.0, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 20/32 (62%)
Query: 17 VDPLVGGGRGVKFSDVAGLREAKVEVMEFVDY 48
V+ VG R V +DV ++ K+++ EFVDY
Sbjct: 90 VENYVGPERSVDVTDVTKQKDCKMKLKEFVDY 121
>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 = 28.5 bits (62), Expect = 2.1, Method: Compositional matrix adjust.
Identities = 17/36 (47%), Positives = 23/36 (63%)
Query: 27 VKFSDVAGLREAKVEVMEFVDYLKRPEYYQNLGAKY 62
V F DVAG EAK E+ E V++LK P + +GA+
Sbjct: 13 VTFKDVAGAEEAKEELKEIVEFLKNPSRFHEMGARI 48
>pdb|3SZY|A Chain A, Crystal Structure Of Phosphonoacetate Hydrolase From
Sinorhizobium Meliloti 1021 In Apo Form
pdb|3SZZ|A Chain A, Crystal Structure Of Phosphonoacetate Hydrolase From
Sinorhizobium Meliloti 1021 In Complex With Acetate
pdb|3T00|A Chain A, Crystal Structure Of Phosphonoacetate Hydrolase From
Sinorhizobium Meliloti 1021 In Complex With Vanadate
pdb|3T01|A Chain A, Crystal Structure Of Phosphonoacetate Hydrolase From
Sinorhizobium Meliloti 1021 In Complex With
Phosphonoformate
Length = 427
Score = 27.3 bits (59), Expect = 4.4, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 7/58 (12%)
Query: 35 LREAKVEVMEFVDYLKRPEYYQNLGAKYTPSEQKLYNKEELFDRMCMALGGRAAEAIV 92
LRE + ++M YL +Y Q+ KY P + + E+FDR L G A +V
Sbjct: 200 LREFRPDIM----YLTTTDYVQH---KYAPGVPEANSFYEMFDRYLAELDGLGAAIVV 250
>pdb|3T02|A Chain A, Crystal Structure Of Phosphonoacetate Hydrolase From
Sinorhizobium Meliloti 1021 In Complex With
Phosphonoacetate
Length = 427
Score = 27.3 bits (59), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 28/58 (48%), Gaps = 7/58 (12%)
Query: 35 LREAKVEVMEFVDYLKRPEYYQNLGAKYTPSEQKLYNKEELFDRMCMALGGRAAEAIV 92
LRE + ++M YL +Y Q+ KY P + + E+FDR L G A +V
Sbjct: 200 LREFRPDIM----YLTTTDYVQH---KYAPGVPEANSFYEMFDRYLAELDGLGAAIVV 250
>pdb|3IPW|A Chain A, Crystal Structure Of Hydrolase Tatd Family Protein From
Entamoeba Histolytica
Length = 325
Score = 26.2 bits (56), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 21/67 (31%), Positives = 29/67 (43%), Gaps = 8/67 (11%)
Query: 96 ITSGAQNDLKKVTEMANMQIRQFGMNENIGLVS----FPKDDNRQSIRPYSKRLAALMDE 151
ITSG ND KK E+ N ++ NI LV+ P N Y L L ++
Sbjct: 71 ITSGCLNDFKKAIEIIN----KYQNLTNIKLVTTIGVHPTRTNELKQEGYLDELLLLCEK 126
Query: 152 EASKLIA 158
K++A
Sbjct: 127 NIDKVVA 133
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
0.320 0.135 0.377
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,930,098
Number of Sequences: 62578
Number of extensions: 188488
Number of successful extensions: 455
Number of sequences better than 100.0: 21
Number of HSP's better than 100.0 without gapping: 16
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 429
Number of HSP's gapped (non-prelim): 26
length of query: 182
length of database: 14,973,337
effective HSP length: 93
effective length of query: 89
effective length of database: 9,153,583
effective search space: 814668887
effective search space used: 814668887
T: 11
A: 40
X1: 16 ( 7.4 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.8 bits)
S2: 48 (23.1 bits)