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= psy1966
(59 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GGJ|A Chain A, Crystal Structure Of Zucchini From Mouse (Mzuc PLD6
MITOPLD)
pdb|4GGK|A Chain A, Crystal Structure Of Zucchini From Mouse (Mzuc PLD6
MITOPLD) BOUND To Tungstate
Length = 196
Score = 50.1 bits (118), Expect = 3e-07, Method: Composition-based stats.
Identities = 19/34 (55%), Positives = 26/34 (76%)
Query: 19 MHHKFVLIDSSLVLQGSMNWTTQACSGNYENVVI 52
MHHKF ++D +++ GS+NWTTQA N ENV+I
Sbjct: 123 MHHKFAIVDKKVLITGSLNWTTQAIQNNRENVLI 156
>pdb|4GEL|A Chain A, Crystal Structure Of Zucchini
pdb|4GEL|B Chain B, Crystal Structure Of Zucchini
Length = 220
Score = 46.2 bits (108), Expect = 4e-06, Method: Composition-based stats.
Identities = 24/70 (34%), Positives = 34/70 (48%), Gaps = 20/70 (28%)
Query: 5 QLNIPVRLTGPPYIMHHKFVLIDS--------------------SLVLQGSMNWTTQACS 44
QL +PVR+ +MH+KF +ID S+V+ GS+NWT
Sbjct: 121 QLGVPVRVPITTNLMHNKFCIIDGFERVEEIRLLRKLKFMRPCYSIVISGSVNWTALGLG 180
Query: 45 GNYENVVITG 54
GN+EN +IT
Sbjct: 181 GNWENCIITA 190
>pdb|4GEM|A Chain A, Crystal Structure Of Zucchini (K171a)
pdb|4GEM|B Chain B, Crystal Structure Of Zucchini (K171a)
Length = 220
Score = 43.9 bits (102), Expect = 2e-05, Method: Composition-based stats.
Identities = 23/70 (32%), Positives = 33/70 (47%), Gaps = 20/70 (28%)
Query: 5 QLNIPVRLTGPPYIMHHKFVLIDS--------------------SLVLQGSMNWTTQACS 44
QL +PVR+ +MH+ F +ID S+V+ GS+NWT
Sbjct: 121 QLGVPVRVPITTNLMHNAFCIIDGFERVEEIRLLRKLKFMRPCYSIVISGSVNWTALGLG 180
Query: 45 GNYENVVITG 54
GN+EN +IT
Sbjct: 181 GNWENCIITA 190
>pdb|4H4A|A Chain A, Crystal Structure Of The C-Terminal Domain Of Drosophila
Melanogaster Zucchini
Length = 169
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 20/71 (28%)
Query: 4 VQLNIPVRLTGPPYIMHHKFVLIDS--------------------SLVLQGSMNWTTQAC 43
QL +PVR+ + H+KF +ID S+V+ GS+NWT
Sbjct: 69 AQLGVPVRVPITTNLXHNKFCIIDGFERVEEIRLLRKLKFXRPCYSIVISGSVNWTALGL 128
Query: 44 SGNYENVVITG 54
GN+EN +IT
Sbjct: 129 GGNWENCIITA 139
>pdb|4GEN|A Chain A, Crystal Structure Of Zucchini (Monomer)
Length = 169
Score = 41.6 bits (96), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 23/71 (32%), Positives = 33/71 (46%), Gaps = 20/71 (28%)
Query: 4 VQLNIPVRLTGPPYIMHHKFVLIDS--------------------SLVLQGSMNWTTQAC 43
QL +PVR+ + H+KF +ID S+V+ GS+NWT
Sbjct: 72 AQLGVPVRVPITTNLXHNKFCIIDGFERVEEIRLLRKLKFXRPCYSIVISGSVNWTALGL 131
Query: 44 SGNYENVVITG 54
GN+EN +IT
Sbjct: 132 GGNWENCIITA 142
>pdb|1BYR|A Chain A, Crystal Structure Of A Phospholipase D Family Member, Nuc
From Salmonella Typhimurium
pdb|1BYS|A Chain A, Crystal Structure Of Nuc Complexed With Tungstate
Length = 155
Score = 34.7 bits (78), Expect = 0.013, Method: Compositional matrix adjust.
Identities = 17/45 (37%), Positives = 25/45 (55%)
Query: 8 IPVRLTGPPYIMHHKFVLIDSSLVLQGSMNWTTQACSGNYENVVI 52
IP+R I H K +++D+ V GS N+T A + N EN V+
Sbjct: 82 IPLRTDSNFPIQHDKVIIVDNVTVETGSFNFTKAAETKNSENAVV 126
>pdb|1V0R|A Chain A, Tungstate-Inhibited Phospholipase D From Streptomyces Sp.
Strain Pmf
pdb|1V0S|A Chain A, Uninhibited Form Of Phospholipase D From Streptomyces Sp.
Strain Pmf
pdb|1V0T|A Chain A, Phospholipase D From Streptomyces Sp. Strain Pmf Soaked
With The Product Glycerophosphate
pdb|1V0U|A Chain A, Phospholipase D From Streptomyces Sp. Strain Pmf Soaked
With The Product Glycerophosphate.
pdb|1V0V|A Chain A, Phospholipase D From Streptomyces Sp. Strain Pmf Soaked
With The Substrate Dibutyrylphosphatidylcholine.
pdb|1V0W|A Chain A, Phospholipase D From Streptomyces Sp. Strain Pmf Soaked
With The Substrate Dibutyrylphosphatidylcholine.
pdb|1V0Y|A Chain A, Phospholipase D From Streptomyces Sp. Strain Pmf Soaked
With The Substrate Dibutyrylphosphatidylcholine
Length = 506
Score = 29.6 bits (65), Expect = 0.46, Method: Composition-based stats.
Identities = 13/24 (54%), Positives = 14/24 (58%)
Query: 14 GPPYIMHHKFVLIDSSLVLQGSMN 37
G PY HHK V +DSS GS N
Sbjct: 434 GHPYAQHHKLVSVDSSTFYIGSKN 457
>pdb|1F0I|A Chain A, The First Crystal Structure Of A Phospholipase D
Length = 504
Score = 29.6 bits (65), Expect = 0.47, Method: Composition-based stats.
Identities = 13/24 (54%), Positives = 14/24 (58%)
Query: 14 GPPYIMHHKFVLIDSSLVLQGSMN 37
G PY HHK V +DSS GS N
Sbjct: 432 GHPYAQHHKLVSVDSSTFYIGSKN 455
>pdb|2ZE9|A Chain A, Crystal Structure Of H168a Mutant Of Phospholipase D From
Streptomyces Antibioticus, As A Complex With
Phosphatidylcholine
Length = 509
Score = 29.3 bits (64), Expect = 0.52, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 14 GPPYIMHHKFVLIDSSLVLQGSMN 37
G PY +HHK V +D S GS N
Sbjct: 436 GKPYALHHKLVSVDDSAFYIGSKN 459
>pdb|2ZE4|A Chain A, Crystal Structure Of Phospholipase D From Streptomyces
Antibioticus
Length = 509
Score = 29.3 bits (64), Expect = 0.54, Method: Composition-based stats.
Identities = 12/24 (50%), Positives = 14/24 (58%)
Query: 14 GPPYIMHHKFVLIDSSLVLQGSMN 37
G PY +HHK V +D S GS N
Sbjct: 436 GKPYALHHKLVSVDDSAFYIGSKN 459
>pdb|4HZP|A Chain A, The Structure Of The Bifunctional
Acetyltransferase/decarboxylase Lnmk From The Leinamycin
Biosynthetic Pathway Revealing Novel Activity For A
Double Hot Dog Fold
Length = 318
Score = 26.6 bits (57), Expect = 3.9, Method: Composition-based stats.
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 27 DSSLVLQGSMNWTTQACSGNYENVVITGTPGIK 59
D SL ++ W T++ G+ E++V + PG +
Sbjct: 129 DGSLYVENFNRWVTRSAPGSNEDLVKSSPPGFR 161
>pdb|4HZO|A Chain A, The Structure Of The Bifunctional
Acetyltransferase/decarboxylase Lnmk From The Leinamycin
Biosynthetic Pathway Revealing Novel Activity For A
Double Hot Dog Fold
Length = 318
Score = 26.6 bits (57), Expect = 3.9, Method: Composition-based stats.
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 27 DSSLVLQGSMNWTTQACSGNYENVVITGTPGIK 59
D SL ++ W T++ G+ E++V + PG +
Sbjct: 129 DGSLYVENFNRWVTRSAPGSNEDLVKSSPPGFR 161
>pdb|4HZN|A Chain A, The Structure Of The Bifunctional
Acetyltransferase/decarboxylase Lnmk From The Leinamycin
Biosynthetic Pathway Revealing Novel Activity For A
Double Hot Dog Fold
Length = 333
Score = 26.6 bits (57), Expect = 3.9, Method: Composition-based stats.
Identities = 10/33 (30%), Positives = 19/33 (57%)
Query: 27 DSSLVLQGSMNWTTQACSGNYENVVITGTPGIK 59
D SL ++ W T++ G+ E++V + PG +
Sbjct: 144 DGSLYVENFNRWVTRSAPGSNEDLVKSSPPGFR 176
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 0.425
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 1,903,150
Number of Sequences: 62578
Number of extensions: 51776
Number of successful extensions: 118
Number of sequences better than 100.0: 13
Number of HSP's better than 100.0 without gapping: 13
Number of HSP's successfully gapped in prelim test: 0
Number of HSP's that attempted gapping in prelim test: 101
Number of HSP's gapped (non-prelim): 13
length of query: 59
length of database: 14,973,337
effective HSP length: 30
effective length of query: 29
effective length of database: 13,095,997
effective search space: 379783913
effective search space used: 379783913
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: 45 (21.9 bits)