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= psy10446
(158 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2CY7|A Chain A, The Crystal Structure Of Human Atg4b
Length = 396
Score = 116 bits (290), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 48/94 (51%), Positives = 72/94 (76%), Gaps = 1/94 (1%)
Query: 27 GRDWQWNVNSKE-EAYLKILKMFEDRRTAPYSIHQIALTGASEGKAVGEWFGPNTVAQVL 85
GRDW+W ++ ++Y +L F DR+ + YSIHQIA G EGK++G+W+GPNTVAQVL
Sbjct: 96 GRDWRWTQRKRQPDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVL 155
Query: 86 RKLAKYDDWSSIVFHVALDNTLVVNQVKKLCTTN 119
+KLA +D WSS+ H+A+DNT+V+ ++++LC T+
Sbjct: 156 KKLAVFDTWSSLAVHIAMDNTVVMEEIRRLCRTS 189
>pdb|2D1I|A Chain A, Structure Of Human Atg4b
pdb|2D1I|B Chain B, Structure Of Human Atg4b
Length = 398
Score = 116 bits (290), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 48/94 (51%), Positives = 72/94 (76%), Gaps = 1/94 (1%)
Query: 27 GRDWQWNVNSKE-EAYLKILKMFEDRRTAPYSIHQIALTGASEGKAVGEWFGPNTVAQVL 85
GRDW+W ++ ++Y +L F DR+ + YSIHQIA G EGK++G+W+GPNTVAQVL
Sbjct: 98 GRDWRWTQRKRQPDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVL 157
Query: 86 RKLAKYDDWSSIVFHVALDNTLVVNQVKKLCTTN 119
+KLA +D WSS+ H+A+DNT+V+ ++++LC T+
Sbjct: 158 KKLAVFDTWSSLAVHIAMDNTVVMEEIRRLCRTS 191
>pdb|2ZZP|A Chain A, The Crystal Structure Of Human Atg4b(C74s)- Lc3(1-124)
Complex
Length = 357
Score = 116 bits (290), Expect = 6e-27, Method: Compositional matrix adjust.
Identities = 48/94 (51%), Positives = 72/94 (76%), Gaps = 1/94 (1%)
Query: 27 GRDWQWNVNSKE-EAYLKILKMFEDRRTAPYSIHQIALTGASEGKAVGEWFGPNTVAQVL 85
GRDW+W ++ ++Y +L F DR+ + YSIHQIA G EGK++G+W+GPNTVAQVL
Sbjct: 96 GRDWRWTQRKRQPDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVL 155
Query: 86 RKLAKYDDWSSIVFHVALDNTLVVNQVKKLCTTN 119
+KLA +D WSS+ H+A+DNT+V+ ++++LC T+
Sbjct: 156 KKLAVFDTWSSLAVHIAMDNTVVMEEIRRLCRTS 189
>pdb|2Z0D|A Chain A, The Crystal Structure Of Human Atg4b- Lc3(1-120) Complex
pdb|2Z0E|A Chain A, The Crystal Structure Of Human Atg4b- Lc3(1-124) Complex
Length = 357
Score = 116 bits (290), Expect = 7e-27, Method: Compositional matrix adjust.
Identities = 48/94 (51%), Positives = 72/94 (76%), Gaps = 1/94 (1%)
Query: 27 GRDWQWNVNSKE-EAYLKILKMFEDRRTAPYSIHQIALTGASEGKAVGEWFGPNTVAQVL 85
GRDW+W ++ ++Y +L F DR+ + YSIHQIA G EGK++G+W+GPNTVAQVL
Sbjct: 96 GRDWRWTQRKRQPDSYFSVLNAFIDRKDSYYSIHQIAQMGVGEGKSIGQWYGPNTVAQVL 155
Query: 86 RKLAKYDDWSSIVFHVALDNTLVVNQVKKLCTTN 119
+KLA +D WSS+ H+A+DNT+V+ ++++LC T+
Sbjct: 156 KKLAVFDTWSSLAVHIAMDNTVVMEEIRRLCRTS 189
>pdb|2P82|A Chain A, Cysteine Protease Atg4a
pdb|2P82|B Chain B, Cysteine Protease Atg4a
pdb|2P82|C Chain C, Cysteine Protease Atg4a
pdb|2P82|D Chain D, Cysteine Protease Atg4a
Length = 355
Score = 112 bits (280), Expect = 9e-26, Method: Compositional matrix adjust.
Identities = 48/91 (52%), Positives = 69/91 (75%), Gaps = 1/91 (1%)
Query: 27 GRDWQWNVNSKE-EAYLKILKMFEDRRTAPYSIHQIALTGASEGKAVGEWFGPNTVAQVL 85
GRDW W ++ + Y +IL+ F DR+ YSIHQ+A G EGK++GEWFGPNTVAQVL
Sbjct: 92 GRDWSWEKQKEQPKEYQRILQCFLDRKDCCYSIHQMAQMGVGEGKSIGEWFGPNTVAQVL 151
Query: 86 RKLAKYDDWSSIVFHVALDNTLVVNQVKKLC 116
+KLA +D+W+S+ +V++DNT+V+ +KK+C
Sbjct: 152 KKLALFDEWNSLAVYVSMDNTVVIEDIKKMC 182
>pdb|2ZQY|A Chain A, T-State Structure Of Allosteric L-Lactate Dehydrogenase
From Lactobacillus Casei
pdb|2ZQY|B Chain B, T-State Structure Of Allosteric L-Lactate Dehydrogenase
From Lactobacillus Casei
pdb|2ZQY|C Chain C, T-State Structure Of Allosteric L-Lactate Dehydrogenase
From Lactobacillus Casei
pdb|2ZQY|D Chain D, T-State Structure Of Allosteric L-Lactate Dehydrogenase
From Lactobacillus Casei
pdb|2ZQZ|A Chain A, R-State Structure Of Allosteric L-Lactate Dehydrogenase
From Lactobacillus Casei
pdb|2ZQZ|B Chain B, R-State Structure Of Allosteric L-Lactate Dehydrogenase
From Lactobacillus Casei
pdb|2ZQZ|C Chain C, R-State Structure Of Allosteric L-Lactate Dehydrogenase
From Lactobacillus Casei
pdb|2ZQZ|D Chain D, R-State Structure Of Allosteric L-Lactate Dehydrogenase
From Lactobacillus Casei
pdb|2ZQZ|E Chain E, R-State Structure Of Allosteric L-Lactate Dehydrogenase
From Lactobacillus Casei
pdb|2ZQZ|F Chain F, R-State Structure Of Allosteric L-Lactate Dehydrogenase
From Lactobacillus Casei
pdb|3VKV|A Chain A, Complex Structure Of Lactobacillus Casei Lactate
Dehydrogenase With Fructose-1,6-Bisphosphate
pdb|3VKV|B Chain B, Complex Structure Of Lactobacillus Casei Lactate
Dehydrogenase With Fructose-1,6-Bisphosphate
pdb|3VKV|C Chain C, Complex Structure Of Lactobacillus Casei Lactate
Dehydrogenase With Fructose-1,6-Bisphosphate
pdb|3VKV|D Chain D, Complex Structure Of Lactobacillus Casei Lactate
Dehydrogenase With Fructose-1,6-Bisphosphate
pdb|3VKV|E Chain E, Complex Structure Of Lactobacillus Casei Lactate
Dehydrogenase With Fructose-1,6-Bisphosphate
pdb|3VKV|F Chain F, Complex Structure Of Lactobacillus Casei Lactate
Dehydrogenase With Fructose-1,6-Bisphosphate
Length = 326
Score = 27.7 bits (60), Expect = 2.6, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 9/70 (12%)
Query: 43 KILKMFEDRRTAPYSIHQIALTGASEGKAVGEWFGPNTVAQVLRKLAKYDDWSSIVFHVA 102
K++KMFED R A Y I I L GA+ ++G T + K D+ + + V
Sbjct: 213 KLVKMFEDVRDAAYEI--IKLKGAT-------FYGIATALARISKAILNDENAVLPLSVY 263
Query: 103 LDNTLVVNQV 112
+D +N +
Sbjct: 264 MDGQYGLNDI 273
>pdb|1LLC|A Chain A, Structure Determination Of The Allosteric L-Lactate
Dehydrogenase From Lactobacillus Casei At 3.0 Angstroms
Resolution
Length = 325
Score = 27.7 bits (60), Expect = 2.7, Method: Compositional matrix adjust.
Identities = 21/70 (30%), Positives = 33/70 (47%), Gaps = 9/70 (12%)
Query: 43 KILKMFEDRRTAPYSIHQIALTGASEGKAVGEWFGPNTVAQVLRKLAKYDDWSSIVFHVA 102
K++KMFED R A Y I I L GA+ ++G T + K D+ + + V
Sbjct: 212 KLVKMFEDVRDAAYEI--IKLKGAT-------FYGIATALARISKAILNDENAVLPLSVY 262
Query: 103 LDNTLVVNQV 112
+D +N +
Sbjct: 263 MDGQYGINDL 272
>pdb|2BMA|A Chain A, The Crystal Structure Of Plasmodium Falciparum Glutamate
Dehydrogenase, A Putative Target For Novel Antimalarial
Drugs
pdb|2BMA|B Chain B, The Crystal Structure Of Plasmodium Falciparum Glutamate
Dehydrogenase, A Putative Target For Novel Antimalarial
Drugs
pdb|2BMA|C Chain C, The Crystal Structure Of Plasmodium Falciparum Glutamate
Dehydrogenase, A Putative Target For Novel Antimalarial
Drugs
pdb|2BMA|D Chain D, The Crystal Structure Of Plasmodium Falciparum Glutamate
Dehydrogenase, A Putative Target For Novel Antimalarial
Drugs
pdb|2BMA|E Chain E, The Crystal Structure Of Plasmodium Falciparum Glutamate
Dehydrogenase, A Putative Target For Novel Antimalarial
Drugs
pdb|2BMA|F Chain F, The Crystal Structure Of Plasmodium Falciparum Glutamate
Dehydrogenase, A Putative Target For Novel Antimalarial
Drugs
Length = 470
Score = 27.3 bits (59), Expect = 3.4, Method: Compositional matrix adjust.
Identities = 13/45 (28%), Positives = 23/45 (51%)
Query: 12 LIDWKGVTFEPSSFSGRDWQWNVNSKEEAYLKILKMFEDRRTAPY 56
L D G +EP+ F+ + ++ ++ KEE +I + TA Y
Sbjct: 281 LSDSNGYVYEPNGFTHENLEFLIDLKEEKKGRIKEYLNHSSTAKY 325
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 0.133 0.415
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 4,823,369
Number of Sequences: 62578
Number of extensions: 181191
Number of successful extensions: 415
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 7
Number of HSP's successfully gapped in prelim test: 2
Number of HSP's that attempted gapping in prelim test: 399
Number of HSP's gapped (non-prelim): 14
length of query: 158
length of database: 14,973,337
effective HSP length: 91
effective length of query: 67
effective length of database: 9,278,739
effective search space: 621675513
effective search space used: 621675513
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: 47 (22.7 bits)