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= psy9917
(219 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2XND|H Chain H, Crystal Structure Of Bovine F1-C8 Sub-Complex Of Atp
Synthase
Length = 131
Score = 117 bits (292), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 54/95 (56%), Positives = 73/95 (76%)
Query: 20 QMDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQK 79
QM FT AS +VF+ + NV+QVDVP+ +GAFGIL HVPTL +L+PG++ V+ +G + K
Sbjct: 1 QMSFTFASPTQVFFNSANVRQVDVPTQTGAFGILAAHVPTLQVLRPGLVVVHAEDGTTSK 60
Query: 80 IFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAAR 114
FVSSG++TVN DSSVQ++AEEA +D LD AA+
Sbjct: 61 YFVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAK 95
Score = 47.4 bits (111), Expect = 6e-06, Method: Compositional matrix adjust.
Identities = 23/36 (63%), Positives = 29/36 (80%)
Query: 147 KIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAAR 182
K FVSSG++TVN DSSVQ++AEEA +D LD AA+
Sbjct: 60 KYFVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAK 95
>pdb|2W6I|H Chain H, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
4b.
pdb|2W6J|H Chain H, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
5.
pdb|2W6H|H Chain H, Low Resolution Structures Of Bovine Mitochondrial
F1-Atpase During Controlled Dehydration: Hydration State
4a
Length = 168
Score = 115 bits (287), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 53/94 (56%), Positives = 72/94 (76%)
Query: 21 MDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKI 80
M FT AS +VF+ + NV+QVDVP+ +GAFGIL HVPTL +L+PG++ V+ +G + K
Sbjct: 38 MSFTFASPTQVFFNSANVRQVDVPTQTGAFGILAAHVPTLQVLRPGLVVVHAEDGTTSKY 97
Query: 81 FVSSGTITVNDDSSVQIIAEEAHPVDSLDASAAR 114
FVSSG++TVN DSSVQ++AEEA +D LD AA+
Sbjct: 98 FVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAK 131
Score = 47.4 bits (111), Expect = 5e-06, Method: Compositional matrix adjust.
Identities = 23/36 (63%), Positives = 29/36 (80%)
Query: 147 KIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAAR 182
K FVSSG++TVN DSSVQ++AEEA +D LD AA+
Sbjct: 96 KYFVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAK 131
>pdb|1E79|H Chain H, Bovine F1-Atpase Inhibited By Dccd
(Dicyclohexylcarbodiimide)
pdb|1H8E|H Chain H, (Adp.Alf4)2(Adp.So4) Bovine F1-Atpase (All Three Catalytic
Sites Occupied)
pdb|2CK3|H Chain H, Azide Inhibited Bovine F1-Atpase
pdb|2JDI|H Chain H, Ground State Structure Of F1-Atpase From Bovine Heart
Mitochondria (Bovine F1-Atpase Crystallised In The
Absence Of Azide)
pdb|2V7Q|H Chain H, The Structure Of F1-Atpase Inhibited By I1-60his, A
Monomeric Form Of The Inhibitor Protein, If1.
pdb|2WSS|H Chain H, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
pdb|2WSS|Q Chain Q, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
pdb|4ASU|H Chain H, F1-Atpase In Which All Three Catalytic Sites Contain Bound
Nucleotide, With Magnesium Ion Released In The Empty
Site
Length = 146
Score = 115 bits (287), Expect = 3e-26, Method: Compositional matrix adjust.
Identities = 53/94 (56%), Positives = 72/94 (76%)
Query: 21 MDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKI 80
M FT AS +VF+ + NV+QVDVP+ +GAFGIL HVPTL +L+PG++ V+ +G + K
Sbjct: 16 MSFTFASPTQVFFNSANVRQVDVPTQTGAFGILAAHVPTLQVLRPGLVVVHAEDGTTSKY 75
Query: 81 FVSSGTITVNDDSSVQIIAEEAHPVDSLDASAAR 114
FVSSG++TVN DSSVQ++AEEA +D LD AA+
Sbjct: 76 FVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAK 109
Score = 47.4 bits (111), Expect = 7e-06, Method: Compositional matrix adjust.
Identities = 23/36 (63%), Positives = 29/36 (80%)
Query: 147 KIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAAR 182
K FVSSG++TVN DSSVQ++AEEA +D LD AA+
Sbjct: 74 KYFVSSGSVTVNADSSVQLLAEEAVTLDMLDLGAAK 109
>pdb|2XOK|H Chain H, Refined Structure Of Yeast F1c10 Atpase Complex To 3 A
Resolution
Length = 160
Score = 67.8 bits (164), Expect = 4e-12, Method: Compositional matrix adjust.
Identities = 35/96 (36%), Positives = 54/96 (56%), Gaps = 1/96 (1%)
Query: 21 MDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKI 80
+ A ++ Y+ V QV++P+ SG G+L NHVPT+ L PGV+ V E S+K
Sbjct: 32 LKLQFALPHETLYSGSEVTQVNLPAKSGRIGVLANHVPTVEQLLPGVVEVMEGSN-SKKF 90
Query: 81 FVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDV 116
F+S G TV DS + + A EA P++S +++
Sbjct: 91 FISGGFATVQPDSQLCVTAIEAFPLESFSQENIKNL 126
>pdb|2HLD|H Chain H, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|Q Chain Q, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|2HLD|Z Chain Z, Crystal Structure Of Yeast Mitochondrial F1-Atpase
pdb|3FKS|H Chain H, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|Q Chain Q, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|3FKS|Z Chain Z, Yeast F1 Atpase In The Absence Of Bound Nucleotides
pdb|2WPD|H Chain H, The Mg.Adp Inhibited State Of The Yeast F1c10 Atp Synthase
pdb|3OEE|H Chain H, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|Q Chain Q, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEE|Z Chain Z, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-F405s
pdb|3OEH|H Chain H, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|Q Chain Q, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OEH|Z Chain Z, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Beta-V279f
pdb|3OFN|H Chain H, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3OFN|Q Chain Q, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Alpha-N67i
pdb|3ZRY|H Chain H, Rotor Architecture In The F(1)-C(10)-Ring Complex Of The
Yeast F-Atp Synthase
pdb|3ZIA|H Chain H, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
pdb|3ZIA|R Chain R, The Structure Of F1-atpase From Saccharomyces Cerevisiae
Inhibited By Its Regulatory Protein If1
Length = 138
Score = 67.8 bits (164), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 35/88 (39%), Positives = 51/88 (57%), Gaps = 1/88 (1%)
Query: 21 MDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKI 80
+ A ++ Y+ V QV++P+ SG G+L NHVPT+ L PGV+ V E S+K
Sbjct: 10 LKLQFALPHETLYSGSEVTQVNLPAKSGRIGVLANHVPTVEQLLPGVVEVMEGSN-SKKF 68
Query: 81 FVSSGTITVNDDSSVQIIAEEAHPVDSL 108
F+S G TV DS + + A EA P++S
Sbjct: 69 FISGGFATVQPDSQLCVTAIEAFPLESF 96
>pdb|3OE7|H Chain H, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|Q Chain Q, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
pdb|3OE7|Z Chain Z, Structure Of Four Mutant Forms Of Yeast F1 Atpase:
Gamma-I270t
Length = 137
Score = 67.8 bits (164), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 35/88 (39%), Positives = 51/88 (57%), Gaps = 1/88 (1%)
Query: 21 MDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKI 80
+ A ++ Y+ V QV++P+ SG G+L NHVPT+ L PGV+ V E S+K
Sbjct: 9 LKLQFALPHETLYSGSEVTQVNLPAKSGRIGVLANHVPTVEQLLPGVVEVMEGSN-SKKF 67
Query: 81 FVSSGTITVNDDSSVQIIAEEAHPVDSL 108
F+S G TV DS + + A EA P++S
Sbjct: 68 FISGGFATVQPDSQLCVTAIEAFPLESF 95
>pdb|4B2Q|H Chain H, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|HH Chain h, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
Length = 132
Score = 67.4 bits (163), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 35/96 (36%), Positives = 54/96 (56%), Gaps = 1/96 (1%)
Query: 21 MDFTLASGNKVFYTNQNVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKI 80
+ A ++ Y+ V QV++P+ SG G+L NHVPT+ L PGV+ V E S+K
Sbjct: 4 LKLQFALPHETLYSGSEVTQVNLPAKSGRIGVLANHVPTVEQLLPGVVEVMEGSN-SKKF 62
Query: 81 FVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDV 116
F+S G TV DS + + A EA P++S +++
Sbjct: 63 FISGGFATVQPDSQLCVTAIEAFPLESFSQENIKNL 98
>pdb|1BSH|A Chain A, Solution Structure Of The Epsilon Subunit Of The F1-
Atpsynthase From Escherichia Coli And Orientation Of The
Subunit Relative To The Beta Subunits Of The Complex
pdb|1BSN|A Chain A, Solution Structure Of The Epsilon Subunit Of The F1-
Atpsynthase From Escherichia Coli And Orientation Of The
Subunit Relative To The Beta Subunits Of The Complex
pdb|1FS0|E Chain E, Complex Of GammaEPSILON ATP SYNTHASE FROM E.COLI
pdb|3OAA|H Chain H, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|P Chain P, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|X Chain X, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
pdb|3OAA|FF Chain f, Structure Of The E.Coli F1-Atp Synthase Inhibited By
Subunit Epsilon
Length = 138
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 1/78 (1%)
Query: 38 VKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKIFVSSGTITVNDDSSVQI 97
V+++ V G GI P H P L +KPG+I + + G + I++S G + V +V +
Sbjct: 20 VEKIQVTGSEGELGIYPGHAPLLTAIKPGMIRIVKQHGHEEFIYLSGGILEVQ-PGNVTV 78
Query: 98 IAEEAHPVDSLDASAARD 115
+A+ A LD + A +
Sbjct: 79 LADTAIRGQDLDEARAME 96
>pdb|1QO1|J Chain J, Molecular Architecture Of The Rotary Motor In Atp Synthase
From Yeast Mitochondria
pdb|1AQT|A Chain A, Epsilon Subunit Of F1f0-Atp Synthase From Escherichia Coli
Length = 138
Score = 45.1 bits (105), Expect = 3e-05, Method: Compositional matrix adjust.
Identities = 24/78 (30%), Positives = 41/78 (52%), Gaps = 1/78 (1%)
Query: 38 VKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKIFVSSGTITVNDDSSVQI 97
V+++ V G GI P H P L +KPG+I + + G + I++S G + V +V +
Sbjct: 20 VEKIQVTGSEGELGIYPGHAPLLTAIKPGMIRIVKQHGHEEFIYLSGGILEVQ-PGNVTV 78
Query: 98 IAEEAHPVDSLDASAARD 115
+A+ A LD + A +
Sbjct: 79 LADTAIRGQDLDEARAME 96
>pdb|2E5Y|A Chain A, Epsilon Subunit And Atp Complex Of F1f0-Atp Synthase From
The Thermophilic Bacillus Ps3
pdb|2E5Y|B Chain B, Epsilon Subunit And Atp Complex Of F1f0-Atp Synthase From
The Thermophilic Bacillus Ps3
Length = 133
Score = 43.1 bits (100), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 31/82 (37%), Positives = 45/82 (54%), Gaps = 5/82 (6%)
Query: 37 NVKQVDVPSFSGAFGILPNHVPTLAILKPGVITVYETEGVSQKIFVSSGTITVNDDSSVQ 96
+V+ V V + SG GILP H+P +A L+ + + G +Q I VS G + V D V
Sbjct: 19 DVEMVSVKAKSGELGILPGHIPLVAPLEISAARLKKG-GKTQYIAVSGGFLEVRPD-KVT 76
Query: 97 II---AEEAHPVDSLDASAARD 115
I+ AE A +D L A AA++
Sbjct: 77 ILAQAAERAEDIDVLRAKAAKE 98
>pdb|2RQ7|A Chain A, Solution Structure Of The Epsilon Subunit Chimera
Combining The N-Terminal Beta-Sandwich Domain From T.
Elongatus Bp-1 F1 And The C-Terminal Alpha-Helical
Domain From Spinach Chloroplast F1
Length = 134
Score = 36.6 bits (83), Expect = 0.012, Method: Compositional matrix adjust.
Identities = 26/77 (33%), Positives = 42/77 (54%), Gaps = 4/77 (5%)
Query: 39 KQVDVPSFSGAFGILPNHVPTLAILKPGVITVYE-TEGVSQKIFVSSGTITVNDDSSVQI 97
++V +PS +G GIL NH P L L+ GV+ V + E V+ I + G V +++ V I
Sbjct: 20 EEVILPSTTGQLGILSNHAPLLTALETGVMRVRQDREWVA--IALMGGFAEV-ENNEVTI 76
Query: 98 IAEEAHPVDSLDASAAR 114
+ A D++D A+
Sbjct: 77 LVNGAERGDTIDPQEAQ 93
>pdb|2RQ6|A Chain A, Solution Structure Of The Epsilon Subunit Of The
F1-Atpase From Thermosynechococcus Elongatus Bp-1
Length = 138
Score = 34.7 bits (78), Expect = 0.041, Method: Compositional matrix adjust.
Identities = 15/34 (44%), Positives = 22/34 (64%)
Query: 39 KQVDVPSFSGAFGILPNHVPTLAILKPGVITVYE 72
++V +PS +G GIL NH P L L+ GV+ V +
Sbjct: 20 EEVILPSTTGQLGILSNHAPLLTALETGVMRVRQ 53
>pdb|2KFS|A Chain A, Nmr Structure Of Rv2175c
Length = 148
Score = 29.3 bits (64), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 17/57 (29%), Positives = 30/57 (52%), Gaps = 6/57 (10%)
Query: 65 PGVITV-----YETEGVSQKIFVSSGTITVNDDSSVQIIAEEAHPVDSLDASAARDV 116
PG++T+ Y + + +F ++T+ D S ++ A PVD+L A AR+V
Sbjct: 84 PGLLTILHDGGYRDTEIMRWLFTPDPSLTITRDGSRDAVSN-ARPVDALHAHQAREV 139
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
0.314 0.128 0.344
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,914,343
Number of Sequences: 62578
Number of extensions: 129657
Number of successful extensions: 244
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 12
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 228
Number of HSP's gapped (non-prelim): 18
length of query: 219
length of database: 14,973,337
effective HSP length: 95
effective length of query: 124
effective length of database: 9,028,427
effective search space: 1119524948
effective search space used: 1119524948
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 49 (23.5 bits)