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= psy6810
(168 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CLY|A Chain A, Subcomplex Of The Stator Of Bovine Mitochondrial Atp
Synthase
pdb|2CLY|D Chain D, Subcomplex Of The Stator Of Bovine Mitochondrial Atp
Synthase
Length = 214
Score = 85.1 bits (209), Expect = 2e-17, Method: Compositional matrix adjust.
Identities = 41/108 (37%), Positives = 72/108 (66%)
Query: 61 LASLKGAIENELWNQERSKAQAVLYEAKRENIQMQLEAVFRERALFAYQQVKNRLEYQAA 120
+ ++ AI+ E Q + + L++ +R NI M LE +RER Y++VKNRL+Y +
Sbjct: 101 IKQIQDAIDMEKSQQALVQKRHYLFDVQRNNIAMALEVTYRERLHRVYREVKNRLDYHIS 160
Query: 121 LESIQRRISQKHMVSWVVSHVLKSITPDQDKQSIKKCISDLKALAARA 168
++++ R+ Q+HM++WV V++SI+ Q+K++I KCI+DLK L+ +A
Sbjct: 161 VQNMMRQKEQEHMINWVEKRVVQSISAQQEKETIAKCIADLKLLSKKA 208
>pdb|4B2Q|T Chain T, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
pdb|4B2Q|TT Chain t, Model Of The Yeast F1fo-Atp Synthase Dimer Based On
Subtomogram Average
Length = 129
Score = 82.4 bits (202), Expect = 1e-16, Method: Compositional matrix adjust.
Identities = 40/107 (37%), Positives = 71/107 (66%)
Query: 61 LASLKGAIENELWNQERSKAQAVLYEAKRENIQMQLEAVFRERALFAYQQVKNRLEYQAA 120
+ ++ AI+ E Q + + L++ +R NI M LE +RER Y++VKNRL+Y +
Sbjct: 23 IKQIQDAIDMEKSQQALVQKRHYLFDVQRNNIAMALEVTYRERLHRVYREVKNRLDYHIS 82
Query: 121 LESIQRRISQKHMVSWVVSHVLKSITPDQDKQSIKKCISDLKALAAR 167
++++ R+ Q+HM++WV V++SI+ Q+K++I KCI+DLK L+ +
Sbjct: 83 VQNMMRQKEQEHMINWVEKRVVQSISAQQEKETIAKCIADLKLLSKK 129
>pdb|2WSS|T Chain T, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
pdb|2WSS|X Chain X, The Structure Of The Membrane Extrinsic Region Of Bovine
Atp Synthase
Length = 116
Score = 78.6 bits (192), Expect = 2e-15, Method: Compositional matrix adjust.
Identities = 39/108 (36%), Positives = 69/108 (63%)
Query: 61 LASLKGAIENELWNQERSKAQAVLYEAKRENIQMQLEAVFRERALFAYQQVKNRLEYQAA 120
+ ++ AI+ E Q + + L++ +R NI LE +RER Y++VKNRL+Y +
Sbjct: 3 IKQIQDAIDXEKSQQALVQKRHYLFDVQRNNIAXALEVTYRERLHRVYREVKNRLDYHIS 62
Query: 121 LESIQRRISQKHMVSWVVSHVLKSITPDQDKQSIKKCISDLKALAARA 168
+++ R+ Q+H ++WV V++SI+ Q+K++I KCI+DLK L+ +A
Sbjct: 63 VQNXXRQKEQEHXINWVEKRVVQSISAQQEKETIAKCIADLKLLSKKA 110
>pdb|4APY|A Chain A, Ethylene Glycol-bound Form Of P450 Cyp125a3 From
Mycobacterium Smegmatis
Length = 433
Score = 29.3 bits (64), Expect = 0.96, Method: Compositional matrix adjust.
Identities = 20/61 (32%), Positives = 30/61 (49%), Gaps = 4/61 (6%)
Query: 23 PIWVSDMAKCAQVMNRSVVLTWVMYQSHRAGKIRTNDKLASLKGAIENELWNQERSKAQA 82
P+W DM + A + R+V+L Q R KI + G +E+EL RS+AQ
Sbjct: 81 PVWPQDMTREAVDLQRAVLLNMDAPQHTRLRKIISRGFTPRAIGRLEDEL----RSRAQK 136
Query: 83 V 83
+
Sbjct: 137 I 137
>pdb|4DRT|A Chain A, Three Dimensional Structure Of De Novo Designed Serine
Hydrolase Osh26, Northeast Structural Genomics
Consortium (Nesg) Target Or89
Length = 361
Score = 28.1 bits (61), Expect = 2.2, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 21/37 (56%), Gaps = 5/37 (13%)
Query: 12 FDTIGPVSLG-----EPIWVSDMAKCAQVMNRSVVLT 43
F+T+ P+ +G EP+W D + + +++ V LT
Sbjct: 264 FETVNPLKVGKEFASEPVWFGDSDRASLGVDKDVYLT 300
>pdb|1HD8|A Chain A, Crystal Structure Of A Deacylation-Defective Mutant Of
Penicillin-Binding Protein 5 At 2.3 A Resolution
pdb|1NJ4|A Chain A, Crystal Structure Of A Deacylation-Defective Mutant Of
Penicillin-Binding Protein 5 At 1.9 A Resolution
pdb|1SDN|A Chain A, Crystal Structure Of A Deacylation-Defective Mutant Of
Penicillin-Binding Protein 5 Modified By Mercury
Length = 363
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 21/37 (56%), Gaps = 5/37 (13%)
Query: 12 FDTIGPVSLG-----EPIWVSDMAKCAQVMNRSVVLT 43
F+T+ P+ +G EP+W D + + +++ V LT
Sbjct: 263 FETVNPLKVGKEFASEPVWFGDSDRASLGVDKDVYLT 299
>pdb|1NZO|A Chain A, The Crystal Structure Of Wild Type Penicillin-Binding
Protein 5 From E. Coli
pdb|1NZU|A Chain A, Wild-Type Penicillin-Binding Protein 5 From E. Coli
Modified By Beta-Mercaptoethanol
pdb|1Z6F|A Chain A, Crystal Structure Of Penicillin-Binding Protein 5 From E.
Coli In Complex With A Boronic Acid Inhibitor
pdb|3BEB|A Chain A, Crystal Structure Of E. Coli Penicillin-Binding Protein 5
In Complex With A Peptide-Mimetic Penicillin
pdb|3BEC|A Chain A, Crystal Structure Of E. Coli Penicillin-binding Protein 5
In Complex With A Peptide-mimetic Cephalosporin
pdb|3MZD|A Chain A, Structure Of Penicillin-Binding Protein 5 From E. Coli:
Cloxacillin Acyl-Enzyme Complex
pdb|3MZE|A Chain A, Structure Of Penicillin-Binding Protein 5 From E.Coli:
Cefoxitin Acyl- Enzyme Complex
pdb|3MZF|A Chain A, Structure Of Penicillin-Binding Protein 5 From E. Coli:
Imipenem Acyl- Enzyme Complex
Length = 363
Score = 28.1 bits (61), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 11/37 (29%), Positives = 21/37 (56%), Gaps = 5/37 (13%)
Query: 12 FDTIGPVSLG-----EPIWVSDMAKCAQVMNRSVVLT 43
F+T+ P+ +G EP+W D + + +++ V LT
Sbjct: 263 FETVNPLKVGKEFASEPVWFGDSDRASLGVDKDVYLT 299
>pdb|3EF1|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
Phosphatase
Length = 442
Score = 27.3 bits (59), Expect = 4.0, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 16 GPVSLGEPIWVSDMAKCAQVMNRSVVLTWVMYQSHR-AGKIRT 57
G + LG + SD+AK A VVL + + +H A KIRT
Sbjct: 362 GVIPLGVDVLSSDIAKWAMSFGAEVVLDFSVPPTHLIAAKIRT 404
>pdb|3EF0|A Chain A, The Structure Of Fcp1, An Essential Rna Polymerase Ii Ctd
Phosphatase
Length = 372
Score = 27.3 bits (59), Expect = 4.7, Method: Compositional matrix adjust.
Identities = 17/43 (39%), Positives = 23/43 (53%), Gaps = 1/43 (2%)
Query: 16 GPVSLGEPIWVSDMAKCAQVMNRSVVLTWVMYQSHR-AGKIRT 57
G + LG + SD+AK A VVL + + +H A KIRT
Sbjct: 292 GVIPLGVDVLSSDIAKWAMSFGAEVVLDFSVPPTHLIAAKIRT 334
>pdb|3GVO|A Chain A, Structure And Rna Binding Of The Mouse Pumilio-2 Puf
Domain
pdb|3GVT|A Chain A, Structure And Rna Binding Of The Mouse Pumilio-2 Puf
Domain
pdb|3GVT|B Chain B, Structure And Rna Binding Of The Mouse Pumilio-2 Puf
Domain
Length = 351
Score = 26.6 bits (57), Expect = 6.4, Method: Compositional matrix adjust.
Identities = 16/41 (39%), Positives = 20/41 (48%), Gaps = 1/41 (2%)
Query: 118 QAALESIQRRISQKHMVSWVVSHVLKSITPDQDKQSIKKCI 158
Q ALESI Q MV + HVLK + ++KCI
Sbjct: 114 QKALESISSD-QQSEMVKELDGHVLKCVKDQNGNHVVQKCI 153
>pdb|3H3D|X Chain X, Drosophila Pumilio Rna Binding Domain (Puf Domain)
pdb|3H3D|Y Chain Y, Drosophila Pumilio Rna Binding Domain (Puf Domain)
Length = 323
Score = 26.6 bits (57), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 16/48 (33%), Positives = 24/48 (50%), Gaps = 1/48 (2%)
Query: 118 QAALESIQRRISQKHMVSWVVSHVLKSITPDQDKQSIKKCISDLKALA 165
Q ALESI Q+ +V + HVLK + ++KCI + +A
Sbjct: 114 QKALESISPE-QQQEIVHELDGHVLKCVKDQNGNHVVQKCIECVDPVA 160
>pdb|4DVQ|A Chain A, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Deoxycorticosterone
pdb|4DVQ|B Chain B, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Deoxycorticosterone
pdb|4DVQ|C Chain C, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Deoxycorticosterone
pdb|4DVQ|D Chain D, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Deoxycorticosterone
pdb|4DVQ|E Chain E, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Deoxycorticosterone
pdb|4DVQ|F Chain F, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Deoxycorticosterone
pdb|4DVQ|G Chain G, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Deoxycorticosterone
pdb|4DVQ|H Chain H, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Deoxycorticosterone
pdb|4DVQ|I Chain I, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Deoxycorticosterone
pdb|4DVQ|J Chain J, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Deoxycorticosterone
pdb|4DVQ|K Chain K, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Deoxycorticosterone
pdb|4DVQ|L Chain L, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Deoxycorticosterone
pdb|4FDH|A Chain A, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Fadrozole
pdb|4FDH|B Chain B, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Fadrozole
pdb|4FDH|C Chain C, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Fadrozole
pdb|4FDH|D Chain D, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Fadrozole
pdb|4FDH|E Chain E, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Fadrozole
pdb|4FDH|F Chain F, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Fadrozole
pdb|4FDH|G Chain G, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Fadrozole
pdb|4FDH|H Chain H, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Fadrozole
pdb|4FDH|I Chain I, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Fadrozole
pdb|4FDH|J Chain J, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Fadrozole
pdb|4FDH|K Chain K, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Fadrozole
pdb|4FDH|L Chain L, Structure Of Human Aldosterone Synthase, Cyp11b2, In
Complex With Fadrozole
Length = 483
Score = 26.6 bits (57), Expect = 7.4, Method: Compositional matrix adjust.
Identities = 19/58 (32%), Positives = 27/58 (46%), Gaps = 12/58 (20%)
Query: 9 HGKFDTIGPV---SLGEPIWVS-----DMAKCAQVMN----RSVVLTWVMYQSHRAGK 54
H F +GP+ +LG P V D+ K QV + R ++ WV Y+ HR K
Sbjct: 43 HQTFQELGPIFRYNLGGPRMVCVMLPEDVEKLQQVDSLHPCRMILEPWVAYRQHRGHK 100
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 0.128 0.368
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,185,082
Number of Sequences: 62578
Number of extensions: 127346
Number of successful extensions: 430
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 6
Number of HSP's successfully gapped in prelim test: 8
Number of HSP's that attempted gapping in prelim test: 424
Number of HSP's gapped (non-prelim): 14
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
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: 48 (23.1 bits)