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= 014177
(429 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 = 35.4 bits (80), Expect = 0.066, Method: Compositional matrix adjust.
Identities = 30/127 (23%), Positives = 57/127 (44%), Gaps = 16/127 (12%)
Query: 62 LCPDLQIVVGSRNREKGAAMVSTLGKNSEFA---EVNIYNEGSLLMALRDVDLVVHAAGP 118
L + + +G N E L K EFA +V+ N L+ +++ +LV+ A
Sbjct: 35 LKDEFDVYIGDVNNE-------NLEKVKEFATPLKVDASNFDKLVEVMKEFELVIGALPG 87
Query: 119 FQQAPKCTVLEAAIETKTAYIDVCDDTIYSQRAKSFKDRAIAANIPAITTGGIYPGVSNV 178
F ++AAI++K +D+ D + + +D A A + + G PG+SN+
Sbjct: 88 FLG---FKSIKAAIKSK---VDMVDVSFMPENPLELRDEAEKAQVTIVFDAGFAPGLSNI 141
Query: 179 MAAELVR 185
+ + +
Sbjct: 142 LMGRIFQ 148
>pdb|3PPI|A Chain A, Crystal Structure Of 3-Hydroxyacyl-Coa Dehydrogenase
Type-2 From Mycobacterium Avium
pdb|3PPI|B Chain B, Crystal Structure Of 3-Hydroxyacyl-Coa Dehydrogenase
Type-2 From Mycobacterium Avium
pdb|3PPI|C Chain C, Crystal Structure Of 3-Hydroxyacyl-Coa Dehydrogenase
Type-2 From Mycobacterium Avium
pdb|3PPI|D Chain D, Crystal Structure Of 3-Hydroxyacyl-Coa Dehydrogenase
Type-2 From Mycobacterium Avium
Length = 281
Score = 31.6 bits (70), Expect = 0.89, Method: Compositional matrix adjust.
Identities = 15/41 (36%), Positives = 23/41 (56%)
Query: 66 LQIVVGSRNREKGAAMVSTLGKNSEFAEVNIYNEGSLLMAL 106
L +V+ EKG A+ LG +EF N+ +E S+L A+
Sbjct: 55 LGVVIADLAAEKGKALADELGNRAEFVSTNVTSEDSVLAAI 95
>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 = 31.6 bits (70), Expect = 1.00, Method: Compositional matrix adjust.
Identities = 22/77 (28%), Positives = 36/77 (46%), Gaps = 9/77 (11%)
Query: 111 LVVHAAGPFQQAPKCTVLEAAIETKTAYIDVC-----DDTIYSQRAK-SFKDRAIAANIP 164
+V++ A P+Q T+ EA + T Y+D D + + + +F DR +
Sbjct: 79 IVLNIALPYQDL---TIXEACLRTGVPYLDTANYEHPDLAKFEYKEQWAFHDRYKEKGVX 135
Query: 165 AITTGGIYPGVSNVMAA 181
A+ G PGV+NV A
Sbjct: 136 ALLGSGFDPGVTNVFCA 152
>pdb|3V8V|A Chain A, Crystal Structure Of Bifunctional Methyltransferase Ycby
(Rlmlk) From Escherichia Coli, Sam Binding
pdb|3V8V|B Chain B, Crystal Structure Of Bifunctional Methyltransferase Ycby
(Rlmlk) From Escherichia Coli, Sam Binding
Length = 702
Score = 30.8 bits (68), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 67 QIVVGSRNREKGAAMVSTLGKNSEFAEVNIYN 98
++V+ +R R+KG LG+ EF EV YN
Sbjct: 476 KLVLKTRERQKGKNQYQKLGEKGEFLEVTEYN 507
>pdb|3V97|A Chain A, Crystal Structure Of Bifunctional Methyltransferase Ycby
(Rlmlk) From Escherichia Coli, Sah Binding
pdb|3V97|B Chain B, Crystal Structure Of Bifunctional Methyltransferase Ycby
(Rlmlk) From Escherichia Coli, Sah Binding
Length = 703
Score = 30.4 bits (67), Expect = 1.7, Method: Compositional matrix adjust.
Identities = 13/32 (40%), Positives = 19/32 (59%)
Query: 67 QIVVGSRNREKGAAMVSTLGKNSEFAEVNIYN 98
++V+ +R R+KG LG+ EF EV YN
Sbjct: 477 KLVLKTRERQKGKNQYQKLGEKGEFLEVTEYN 508
>pdb|1Z87|A Chain A, Solution Structure Of The Split Ph-Pdz Supramodule Of
Alpha- Syntrophin
Length = 263
Score = 30.4 bits (67), Expect = 1.9, Method: Compositional matrix adjust.
Identities = 16/53 (30%), Positives = 28/53 (52%), Gaps = 5/53 (9%)
Query: 369 AVLEGATQPGVWFPEEPEGIAIEAREVLLKRASQGTINFVM-----NKAPWMV 416
A L GA +PG P+ PE + ++ R V +++A G + + NK P ++
Sbjct: 55 AQLNGAAEPGAAPPQLPEALLLQRRRVTVRKADAGGLGISIKGGRENKMPILI 107
>pdb|1M7J|A Chain A, Crystal Structure Of D-Aminoacylase Defines A Novel Subset
Of Amidohydrolases
Length = 484
Score = 28.1 bits (61), Expect = 8.8, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 149 QRAKSFKDRAIAANIPAITTGGIYPGVSNVMAAELVRVAR 188
Q ++ D A+A+ I+TG YP ++ E++ V R
Sbjct: 170 QAMQALADDALASGAIGISTGAFYPPAAHASTEEIIEVCR 209
>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 = 9.1, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 149 QRAKSFKDRAIAANIPAITTGGIYPGVSNVMAAELVRVAR 188
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 = 9.3, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 149 QRAKSFKDRAIAANIPAITTGGIYPGVSNVMAAELVRVAR 188
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 = 9.4, Method: Compositional matrix adjust.
Identities = 12/40 (30%), Positives = 21/40 (52%)
Query: 149 QRAKSFKDRAIAANIPAITTGGIYPGVSNVMAAELVRVAR 188
Q ++ D A+A+ I+TG YP ++ E++ V R
Sbjct: 182 QAMQALADDALASGAIGISTGAFYPPAAHASTEEIIEVCR 221
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 0.393
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,444,143
Number of Sequences: 62578
Number of extensions: 391667
Number of successful extensions: 1102
Number of sequences better than 100.0: 10
Number of HSP's better than 100.0 without gapping: 8
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 1094
Number of HSP's gapped (non-prelim): 10
length of query: 429
length of database: 14,973,337
effective HSP length: 102
effective length of query: 327
effective length of database: 8,590,381
effective search space: 2809054587
effective search space used: 2809054587
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: 53 (25.0 bits)