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= 041338
(269 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2V7B|A Chain A, Crystal Structures Of A Benzoate Coa Ligase From
Burkholderia Xenovorans Lb400
pdb|2V7B|B Chain B, Crystal Structures Of A Benzoate Coa Ligase From
Burkholderia Xenovorans Lb400
Length = 529
Score = 30.4 bits (67), Expect = 1.1, Method: Compositional matrix adjust.
Identities = 25/76 (32%), Positives = 38/76 (50%), Gaps = 8/76 (10%)
Query: 145 LMWTLNLYARPKLTRSQFAVILPLA---VAHTLGNLLTNISLVTVNVSFTHTIKAMEPFF 201
L WT LYA+P L ++ V+ A A+ LGN LT ++V T + A P
Sbjct: 208 LYWTAELYAKPILGIAENDVVFSAAKLFFAYGLGNGLT----FPLSVGATAILMAERPTA 263
Query: 202 TVLFAALFLGEKPTIW 217
+FA L + +PT++
Sbjct: 264 DAIFARL-VEHRPTVF 278
>pdb|2V8Z|A Chain A, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
pdb|2V8Z|B Chain B, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
pdb|2V8Z|C Chain C, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
pdb|2V8Z|D Chain D, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
Length = 343
Score = 29.3 bits (64), Expect = 2.3, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 33/86 (38%), Gaps = 10/86 (11%)
Query: 151 LYARPKLTRSQFAVILPLAVAHTLGNLL---TNISLVTVNVSFTHTIKAMEPFFTV---- 203
LY P LT L +A + N++ I V S HT+K P FTV
Sbjct: 162 LYNFPALTGQDLTPALVKTLADSRSNIIGIKDTIDSVAHLRSMIHTVKGAHPHFTVLCGY 221
Query: 204 ---LFAALFLGEKPTIWLASSLVPIV 226
LF L LG I + + P V
Sbjct: 222 DDHLFNTLLLGGDGAISASGNFAPQV 247
>pdb|2V9D|A Chain A, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
pdb|2V9D|B Chain B, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
pdb|2V9D|C Chain C, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
pdb|2V9D|D Chain D, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12
Length = 343
Score = 28.9 bits (63), Expect = 3.2, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 33/86 (38%), Gaps = 10/86 (11%)
Query: 151 LYARPKLTRSQFAVILPLAVAHTLGNLL---TNISLVTVNVSFTHTIKAMEPFFTV---- 203
LY P LT L +A + N++ I V S HT+K P FTV
Sbjct: 162 LYNFPALTGQDLTPALVKTLADSRSNIIGIKDTIDSVAHLRSXIHTVKGAHPHFTVLCGY 221
Query: 204 ---LFAALFLGEKPTIWLASSLVPIV 226
LF L LG I + + P V
Sbjct: 222 DDHLFNTLLLGGDGAISASGNFAPQV 247
>pdb|3NEV|A Chain A, Crystal Structure Of Yage, A Prophage Protein From E. Coli
K12 In Complex With Kdgal
pdb|3NEV|B Chain B, Crystal Structure Of Yage, A Prophage Protein From E. Coli
K12 In Complex With Kdgal
pdb|3NEV|C Chain C, Crystal Structure Of Yage, A Prophage Protein From E. Coli
K12 In Complex With Kdgal
pdb|3NEV|D Chain D, Crystal Structure Of Yage, A Prophage Protein From E. Coli
K12 In Complex With Kdgal
Length = 298
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 33/86 (38%), Gaps = 10/86 (11%)
Query: 151 LYARPKLTRSQFAVILPLAVAHTLGNLL---TNISLVTVNVSFTHTIKAMEPFFTV---- 203
LY P LT L +A + N++ I V S HT+K P FTV
Sbjct: 133 LYNFPALTGQDLTPALVKTLADSRSNIIGIKDTIDSVAHLRSMIHTVKGAHPHFTVLCGY 192
Query: 204 ---LFAALFLGEKPTIWLASSLVPIV 226
LF L LG I + + P V
Sbjct: 193 DDHLFNTLLLGGDGAISASGNFAPQV 218
>pdb|3N2X|A Chain A, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12 In Complex With Pyruvate
pdb|3N2X|B Chain B, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12 In Complex With Pyruvate
pdb|3N2X|C Chain C, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12 In Complex With Pyruvate
pdb|3N2X|D Chain D, Crystal Structure Of Yage, A Prophage Protein Belonging To
The Dihydrodipicolinic Acid Synthase Family From E. Coli
K12 In Complex With Pyruvate
Length = 298
Score = 28.9 bits (63), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 26/86 (30%), Positives = 33/86 (38%), Gaps = 10/86 (11%)
Query: 151 LYARPKLTRSQFAVILPLAVAHTLGNLL---TNISLVTVNVSFTHTIKAMEPFFTV---- 203
LY P LT L +A + N++ I V S HT+K P FTV
Sbjct: 133 LYNFPALTGQDLTPALVKTLADSRSNIIGIXDTIDSVAHLRSMIHTVKGAHPHFTVLCGY 192
Query: 204 ---LFAALFLGEKPTIWLASSLVPIV 226
LF L LG I + + P V
Sbjct: 193 DDHLFNTLLLGGDGAISASGNFAPQV 218
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
0.324 0.134 0.398
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 7,000,365
Number of Sequences: 62578
Number of extensions: 254295
Number of successful extensions: 660
Number of sequences better than 100.0: 9
Number of HSP's better than 100.0 without gapping: 0
Number of HSP's successfully gapped in prelim test: 9
Number of HSP's that attempted gapping in prelim test: 660
Number of HSP's gapped (non-prelim): 9
length of query: 269
length of database: 14,973,337
effective HSP length: 97
effective length of query: 172
effective length of database: 8,903,271
effective search space: 1531362612
effective search space used: 1531362612
T: 11
A: 40
X1: 15 ( 7.0 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 40 (21.6 bits)
S2: 51 (24.3 bits)