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= 032818
(133 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4DL0|J Chain J, Crystal Structure Of The Heterotrimeric Egchead Peripheral
Stalk Complex Of The Yeast Vacuolar Atpase
pdb|4DL0|E Chain E, Crystal Structure Of The Heterotrimeric Egchead Peripheral
Stalk Complex Of The Yeast Vacuolar Atpase
pdb|4EFA|E Chain E, Crystal Structure Of The Heterotrimeric Egchead Peripheral
Stalk Complex Of The Yeast Vacuolar Atpase - Second
Conformation
Length = 233
Score = 66.2 bits (160), Expect = 5e-12, Method: Compositional matrix adjust.
Identities = 39/116 (33%), Positives = 70/116 (60%)
Query: 6 VSKQIQQMVRFIRQEAEEKANEISVSAEEEFNIEKLQLVEAEKKKIRQEYERKEKQVEIR 65
V+ ++ +M FIR+EAEEKA EI + A++E+ IEK +V E I ++ K K+ +
Sbjct: 13 VNDELNKMQAFIRKEAEEKAKEIQLKADQEYEIEKTNIVRNETNNIDGNFKSKLKKAMLS 72
Query: 66 KKIEYSMQLNASRIKVLQAQDDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQA 121
++I S N R+KVL A++ + + E +++ ++ + + YK +L+ LIV+A
Sbjct: 73 QQITKSTIANKMRLKVLSAREQSLDGIFEETKEKLSGIANNRDEYKPILQSLIVEA 128
>pdb|2KZ9|A Chain A, Structure Of E1-69 Of Yeast V-Atpase
Length = 69
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/57 (40%), Positives = 36/57 (63%)
Query: 6 VSKQIQQMVRFIRQEAEEKANEISVSAEEEFNIEKLQLVEAEKKKIRQEYERKEKQV 62
V+ ++ +M FIR+EAEEKA EI + A++E+ IEK +V E I ++ K K+
Sbjct: 13 VNDELNKMQAFIRKEAEEKAKEIQLKADQEYEIEKTNIVRNETNNIDGNFKSKLKKA 69
>pdb|3QKT|A Chain A, Rad50 Abc-Atpase With Adjacent Coiled-Coil Region In
Complex With Amp- Pnp
pdb|3QKT|B Chain B, Rad50 Abc-Atpase With Adjacent Coiled-Coil Region In
Complex With Amp- Pnp
pdb|3QKT|C Chain C, Rad50 Abc-Atpase With Adjacent Coiled-Coil Region In
Complex With Amp- Pnp
pdb|3QKT|D Chain D, Rad50 Abc-Atpase With Adjacent Coiled-Coil Region In
Complex With Amp- Pnp
Length = 339
Score = 28.5 bits (62), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 24/56 (42%), Positives = 31/56 (55%), Gaps = 7/56 (12%)
Query: 66 KKIEYSMQLNASRIKVLQAQDDLVSNMMEAASK---EVLNVSRDHNSYKKL--LKG 116
K I Y++ LNA I+ Q Q D + EA K EVLN+ + +YKKL LKG
Sbjct: 125 KLIPYNIFLNAIYIR--QGQIDAILESDEAREKVVREVLNLDKFETAYKKLSELKG 178
>pdb|3QKU|A Chain A, Mre11 Rad50 Binding Domain In Complex With Rad50 And
Amp-Pnp
pdb|3QKU|B Chain B, Mre11 Rad50 Binding Domain In Complex With Rad50 And
Amp-Pnp
Length = 359
Score = 27.3 bits (59), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 5/51 (9%)
Query: 66 KKIEYSMQLNASRIKVLQAQDDLVSNMMEAASK---EVLNVSRDHNSYKKL 113
K I Y++ LNA I+ Q Q D + EA K EVLN+ + +YKKL
Sbjct: 125 KLIPYNIFLNAIYIR--QGQIDAILESDEAREKVVREVLNLDKFETAYKKL 173
>pdb|3QKR|A Chain A, Mre11 Rad50 Binding Domain Bound To Rad50
pdb|3QKS|A Chain A, Mre11 Rad50 Binding Domain Bound To Rad50
Length = 203
Score = 26.9 bits (58), Expect = 3.5, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 5/51 (9%)
Query: 66 KKIEYSMQLNASRIKVLQAQDDLVSNMMEAASK---EVLNVSRDHNSYKKL 113
K I Y++ LNA I + Q Q D + EA K EVLN+ + +YKKL
Sbjct: 125 KLIPYNIFLNA--IYIRQGQIDAILESDEAREKVVREVLNLDKFETAYKKL 173
>pdb|1II8|A Chain A, Crystal Structure Of The P. Furiosus Rad50 Atpase Domain
Length = 195
Score = 26.9 bits (58), Expect = 3.7, Method: Compositional matrix adjust.
Identities = 21/51 (41%), Positives = 28/51 (54%), Gaps = 5/51 (9%)
Query: 66 KKIEYSMQLNASRIKVLQAQDDLVSNMMEAASK---EVLNVSRDHNSYKKL 113
K I Y++ LNA I + Q Q D + EA K EVLN+ + +YKKL
Sbjct: 125 KLIPYNIFLNA--IYIRQGQIDAILESDEAREKVVREVLNLDKFETAYKKL 173
>pdb|1HUV|A Chain A, Crystal Structure Of A Soluble Mutant Of The
Membrane-Associated (S)- Mandelate Dehydrogenase From
Pseudomonas Putida At 2.15a Resolution
pdb|1P4C|A Chain A, High Resolution Structure Of Oxidized Active Mutant Of
(S)- Mandelate Dehydrogenase
pdb|1P5B|A Chain A, High Resolution Structure Of Reduced Active Mutant Of
(S)-Mandelate Dehydrogenase
Length = 380
Score = 25.8 bits (55), Expect = 8.1, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 82 LQAQDDLVSNMMEAA-SKEVLNVSRDHNSYKKLLKGLIVQAERASCVTE 129
L+ Q L+S M+A+ + E L RD +K L+KGL+ + C+ E
Sbjct: 197 LEMQAALMSRQMDASFNWEALRWLRDLWPHKLLVKGLLSAEDADRCIAE 245
>pdb|2A7N|A Chain A, Crystal Structure Of The G81a Mutant Of The Active Chimera
Of (S)- Mandelate Dehydrogenase
pdb|2A7P|A Chain A, Crystal Structure Of The G81a Mutant Of The Active Chimera
Of (S)- Mandelate Dehydrogenase In Complex With Its
Substrate 3-Indolelactate
pdb|2A85|A Chain A, Crystal Structure Of The G81a Mutant Of The Active Chimera
Of (S)- Mandelate Dehydrogenase In Complex With Its
Substrate 2- Hydroxyoctanoate
pdb|3GIY|A Chain A, Crystal Structures Of The G81a Mutant Of The Active
Chimera Of (S)-Mandelate Dehydrogenase And Its Complex
With Two Of Its Substrates
Length = 380
Score = 25.8 bits (55), Expect = 8.4, Method: Compositional matrix adjust.
Identities = 17/49 (34%), Positives = 27/49 (55%), Gaps = 1/49 (2%)
Query: 82 LQAQDDLVSNMMEAA-SKEVLNVSRDHNSYKKLLKGLIVQAERASCVTE 129
L+ Q L+S M+A+ + E L RD +K L+KGL+ + C+ E
Sbjct: 197 LEMQAALMSRQMDASFNWEALRWLRDLWPHKLLVKGLLSAEDADRCIAE 245
>pdb|1WR6|A Chain A, Crystal Structure Of Gga3 Gat Domain In Complex With
Ubiquitin
pdb|1WR6|B Chain B, Crystal Structure Of Gga3 Gat Domain In Complex With
Ubiquitin
pdb|1WR6|C Chain C, Crystal Structure Of Gga3 Gat Domain In Complex With
Ubiquitin
pdb|1WR6|D Chain D, Crystal Structure Of Gga3 Gat Domain In Complex With
Ubiquitin
Length = 111
Score = 25.4 bits (54), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 13/46 (28%), Positives = 28/46 (60%), Gaps = 6/46 (13%)
Query: 86 DDLVSNMMEAASKEVLNVSRDHNSYKKLLKGLIVQAERASCVTEMP 131
D+ + ++++A+ N+SR NSYK +++G ++ E A+ +P
Sbjct: 65 DNSLGDILQASD----NLSRVINSYKTIIEGQVINGEVATLT--LP 104
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
0.310 0.124 0.306
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 2,802,797
Number of Sequences: 62578
Number of extensions: 83366
Number of successful extensions: 398
Number of sequences better than 100.0: 54
Number of HSP's better than 100.0 without gapping: 21
Number of HSP's successfully gapped in prelim test: 33
Number of HSP's that attempted gapping in prelim test: 365
Number of HSP's gapped (non-prelim): 64
length of query: 133
length of database: 14,973,337
effective HSP length: 88
effective length of query: 45
effective length of database: 9,466,473
effective search space: 425991285
effective search space used: 425991285
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.8 bits)
S2: 46 (22.3 bits)