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= 018848
(349 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3ABI|A Chain A, Crystal Structure Of L-Lysine Dehydrogenase From
Hyperthermophilic Archaeon Pyrococcus Horikoshii
pdb|3ABI|B Chain B, Crystal Structure Of L-Lysine Dehydrogenase From
Hyperthermophilic Archaeon Pyrococcus Horikoshii
Length = 365
Score = 33.9 bits (76), Expect = 0.13, Method: Compositional matrix adjust.
Identities = 26/105 (24%), Positives = 50/105 (47%), Gaps = 9/105 (8%)
Query: 4 TLGKNSEFA---EVNIYNEGSLLMALRDVDLVVHAAGPFQQAPKCTVLEAAIETKTAYID 60
L K EFA +V+ N L+ +++ +LV+ A F ++AAI++K +D
Sbjct: 50 NLEKVKEFATPLKVDASNFDKLVEVMKEFELVIGALPGFLG---FKSIKAAIKSK---VD 103
Query: 61 VCDDTIYSQRAKSFKDRAIAANIPAITTGGIYPGVSNVMAAELVR 105
+ D + + +D A A + + G PG+SN++ + +
Sbjct: 104 MVDVSFMPENPLELRDEAEKAQVTIVFDAGFAPGLSNILMGRIFQ 148
>pdb|4INA|A Chain A, Crystal Structure Of The Q7mss8_wolsu Protein From
Wolinella Succinogenes. Northeast Structural Genomics
Consortium Target Wsr35
pdb|4INA|B Chain B, Crystal Structure Of The Q7mss8_wolsu Protein From
Wolinella Succinogenes. Northeast Structural Genomics
Consortium Target Wsr35
Length = 405
Score = 31.2 bits (69), Expect = 0.82, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 9/77 (11%)
Query: 31 LVVHAAGPFQQAPKCTVLEAAIETKTAYIDVC-----DDTIYSQRAK-SFKDRAIAANIP 84
+V++ A P+Q T+ EA + T Y+D D + + + +F DR +
Sbjct: 79 IVLNIALPYQDL---TIXEACLRTGVPYLDTANYEHPDLAKFEYKEQWAFHDRYKEKGVX 135
Query: 85 AITTGGIYPGVSNVMAA 101
A+ G PGV+NV A
Sbjct: 136 ALLGSGFDPGVTNVFCA 152
>pdb|1Z87|A Chain A, Solution Structure Of The Split Ph-Pdz Supramodule Of
Alpha- Syntrophin
Length = 263
Score = 30.8 bits (68), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 5/53 (9%)
Query: 289 AVLEGATQPGVWFPEEPEGIAIEAREVLLKRASQGTINFVM-----NKAPWMV 336
A L GA +PG P+ PE + ++ R V +++A G + + NK P ++
Sbjct: 55 AQLNGAAEPGAAPPQLPEALLLQRRRVTVRKADAGGLGISIKGGRENKMPILI 107
>pdb|1RJP|A Chain A, Crystal Structure Of D-Aminoacylase In Complex With 100mm
Cucl2
pdb|1RK6|A Chain A, The Enzyme In Complex With 50mm Cdcl2
pdb|1V51|A Chain A, The Functional Role Of The Binuclear Metal Center In D-
Aminoacylase. One-Metal Activation And Second-Metal
Attenuation
Length = 496
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 69 QRAKSFKDRAIAANIPAITTGGIYPGVSNVMAAELVRVAR 108
Q ++ D A+A+ I+TG YP ++ E++ V R
Sbjct: 182 QAMQALADDALASGAIGISTGAFYPPAAHASTEEIIEVCR 221
>pdb|1RJQ|A Chain A, The Crystal Structure Of The D-Aminoacylase Mutant D366a
pdb|1RJR|A Chain A, The Crystal Structure Of The D-Aminoacylase D366a Mutant
In Complex With 100mm Zncl2
pdb|1RK5|A Chain A, The D-Aminoacylase Mutant D366a In Complex With 100mm
Cucl2
Length = 496
Score = 28.1 bits (61), Expect = 7.5, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 69 QRAKSFKDRAIAANIPAITTGGIYPGVSNVMAAELVRVAR 108
Q ++ D A+A+ I+TG YP ++ E++ V R
Sbjct: 182 QAMQALADDALASGAIGISTGAFYPPAAHASTEEIIEVCR 221
>pdb|1V4Y|A Chain A, The Functional Role Of The Binuclear Metal Center In D-
Aminoacylase. One-Metal Activation And Second-Metal
Attenuation
Length = 496
Score = 28.1 bits (61), Expect = 7.6, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 69 QRAKSFKDRAIAANIPAITTGGIYPGVSNVMAAELVRVAR 108
Q ++ D A+A+ I+TG YP ++ E++ V R
Sbjct: 182 QAMQALADDALASGAIGISTGAFYPPAAHASTEEIIEVCR 221
>pdb|1M7J|A Chain A, Crystal Structure Of D-Aminoacylase Defines A Novel Subset
Of Amidohydrolases
Length = 484
Score = 28.1 bits (61), Expect = 7.8, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 69 QRAKSFKDRAIAANIPAITTGGIYPGVSNVMAAELVRVAR 108
Q ++ D A+A+ I+TG YP ++ E++ V R
Sbjct: 170 QAMQALADDALASGAIGISTGAFYPPAAHASTEEIIEVCR 209
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 0.136 0.395
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,367,847
Number of Sequences: 62578
Number of extensions: 361096
Number of successful extensions: 1041
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 5
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 1036
Number of HSP's gapped (non-prelim): 10
length of query: 349
length of database: 14,973,337
effective HSP length: 100
effective length of query: 249
effective length of database: 8,715,537
effective search space: 2170168713
effective search space used: 2170168713
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: 52 (24.6 bits)