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= 039401
(168 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4GSL|C Chain C, Crystal Structure Of An Atg7-Atg3 Crosslinked Complex
pdb|4GSL|D Chain D, Crystal Structure Of An Atg7-Atg3 Crosslinked Complex
Length = 312
Score = 42.7 bits (99), Expect = 8e-05, Method: Compositional matrix adjust.
Identities = 26/88 (29%), Positives = 41/88 (46%), Gaps = 9/88 (10%)
Query: 60 CDKHYYDFHVIYNASYRVPVLYFRAYCSGGQPLVLDEIEKGLPSCSAKALSESKWTFITH 119
+ YYD ++ Y+ SYRVP +Y + S G PL E+ SA +++ T
Sbjct: 166 AQERYYDLYIAYSTSYRVPKMYIVGFNSNGSPL---SPEQMFEDISADYRTKTA----TI 218
Query: 120 EEHPYLNRPW--YKLHPCGTSEWMKLLF 145
E+ P+ +HPC + MK+L
Sbjct: 219 EKLPFYKNSVLSVSIHPCKHANVMKILL 246
>pdb|2DYT|A Chain A, The Crystal Structure Of Saccharomyces Cerevisiae Atg3
Length = 312
Score = 42.7 bits (99), Expect = 1e-04, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 41/86 (47%), Gaps = 9/86 (10%)
Query: 62 KHYYDFHVIYNASYRVPVLYFRAYCSGGQPLVLDEIEKGLPSCSAKALSESKWTFITHEE 121
+ YYD ++ Y+ SYRVP +Y + S G PL E+ SA +++ T E+
Sbjct: 168 ERYYDLYIAYSTSYRVPKMYIVGFNSNGSPL---SPEQMFEDISADYRTKTA----TIEK 220
Query: 122 HPYLNRPW--YKLHPCGTSEWMKLLF 145
P+ +HPC + MK+L
Sbjct: 221 LPFYKNSVLSVSIHPCKHANVMKILL 246
>pdb|3VX8|B Chain B, Crystal Structure Of Arabidopsis Thaliana Atg7ntd-Atg3
Complex
pdb|3VX8|C Chain C, Crystal Structure Of Arabidopsis Thaliana Atg7ntd-Atg3
Complex
Length = 292
Score = 29.6 bits (65), Expect = 0.74, Method: Compositional matrix adjust.
Identities = 20/85 (23%), Positives = 36/85 (42%), Gaps = 15/85 (17%)
Query: 65 YDFHVIYNASYRVPVLYFRAYCSGG---QP-LVLDEIEKGLPSCSAKALSESKWTFITHE 120
YD + Y+ Y+ P ++ Y QP LV++++ + + +T E
Sbjct: 174 YDLSITYDKYYQTPRVWLTGYDESRMLLQPELVMEDVSQ-----------DHARKTVTIE 222
Query: 121 EHPYLNRPWYKLHPCGTSEWMKLLF 145
+HP+L +HPC MK +
Sbjct: 223 DHPHLPGKHASVHPCRHGAVMKKII 247
>pdb|2RC7|A Chain A, Crystal Structure Of The Nr3a Ligand Binding Core Complex
With Glycine At 1.58 Angstrom Resolution
pdb|2RC8|A Chain A, Crystal Structure Of The Nr3a Ligand Binding Core Complex
With D- Serine At 1.45 Angstrom Resolution
pdb|2RC8|B Chain B, Crystal Structure Of The Nr3a Ligand Binding Core Complex
With D- Serine At 1.45 Angstrom Resolution
pdb|2RC9|A Chain A, Crystal Structure Of The Nr3a Ligand Binding Core Complex
With Acpc At 1.96 Angstrom Resolution
pdb|2RC9|B Chain B, Crystal Structure Of The Nr3a Ligand Binding Core Complex
With Acpc At 1.96 Angstrom Resolution
pdb|2RC7|B Chain B, Crystal Structure Of The Nr3a Ligand Binding Core Complex
With Glycine At 1.58 Angstrom Resolution
Length = 294
Score = 28.1 bits (61), Expect = 2.4, Method: Compositional matrix adjust.
Identities = 21/78 (26%), Positives = 34/78 (43%), Gaps = 10/78 (12%)
Query: 61 DKHYYDFHVIYNASYRVPVLYFRAYCSGGQPLVLDEIEKGLPSCS--AKALSESKWTFIT 118
DK D+ V +A ++ + G+P ++ GLP S +SE + +
Sbjct: 224 DKALLDYEVSIDADCKLLTV--------GKPFAIEGYGIGLPPNSPLTSNISELISQYKS 275
Query: 119 HEEHPYLNRPWYKLHPCG 136
H L+ WYK+ PCG
Sbjct: 276 HGFMDVLHDKWYKVVPCG 293
>pdb|2R2J|A Chain A, Crystal Structure Of Human Erp44
Length = 382
Score = 26.9 bits (58), Expect = 5.6, Method: Compositional matrix adjust.
Identities = 10/27 (37%), Positives = 15/27 (55%)
Query: 37 EEGTSCFKEEEPTDSATLVQNYDCDKH 63
EE + KEE P ++ + DCD+H
Sbjct: 45 EEASDVIKEEFPNENQVVFARVDCDQH 71
>pdb|3MTG|A Chain A, Crystal Structure Of Human S-Adenosyl Homocysteine
Hydrolase Protein
pdb|3MTG|B Chain B, Crystal Structure Of Human S-Adenosyl Homocysteine
Hydrolase Protein
Length = 444
Score = 26.2 bits (56), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 16/42 (38%), Positives = 21/42 (50%), Gaps = 1/42 (2%)
Query: 1 KQPWFGSREAEGYLSLENICLLSLRKEDRGEETCQGEEGTSC 42
KQ FG RE E + L+SLRK +GE+ G + C
Sbjct: 25 KQAEFGRREIE-IAEQDMSALISLRKRAQGEKPLAGAKIVGC 65
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
0.318 0.136 0.440
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,679,100
Number of Sequences: 62578
Number of extensions: 232919
Number of successful extensions: 478
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 474
Number of HSP's gapped (non-prelim): 9
length of query: 168
length of database: 14,973,337
effective HSP length: 92
effective length of query: 76
effective length of database: 9,216,161
effective search space: 700428236
effective search space used: 700428236
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.7 bits)
S2: 48 (23.1 bits)