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= 040592
(350 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PER|A Chain A, Crystal Structure Of Boxb With Phosphate Bound To The
Diiron Center
pdb|3PER|B Chain B, Crystal Structure Of Boxb With Phosphate Bound To The
Diiron Center
pdb|3PF7|A Chain A, Crystal Structure Of Boxb With Malonate Bound To The
Diiron Center
pdb|3PF7|B Chain B, Crystal Structure Of Boxb With Malonate Bound To The
Diiron Center
pdb|3PM5|A Chain A, Crystal Structure Of Boxb In Mixed Valent State With Bound
Benzoyl-Coa
pdb|3PM5|B Chain B, Crystal Structure Of Boxb In Mixed Valent State With Bound
Benzoyl-Coa
pdb|3PM5|C Chain C, Crystal Structure Of Boxb In Mixed Valent State With Bound
Benzoyl-Coa
pdb|3PM5|D Chain D, Crystal Structure Of Boxb In Mixed Valent State With Bound
Benzoyl-Coa
pdb|3Q1G|A Chain A, Crystal Structure Of Boxb Crystallized With Peg
pdb|3Q1G|B Chain B, Crystal Structure Of Boxb Crystallized With Peg
pdb|3Q1G|C Chain C, Crystal Structure Of Boxb Crystallized With Peg
pdb|3Q1G|D Chain D, Crystal Structure Of Boxb Crystallized With Peg
Length = 481
Score = 30.8 bits (68), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 28/112 (25%), Positives = 49/112 (43%), Gaps = 7/112 (6%)
Query: 15 GASGSYTDENSIAWIGDDDLIQNGESKVVQ-SGNALSDDHVMSTLRVFSTRKKNCYTILA 73
G G + +E IGDD +QN E +V+ +G+ + HV L + R ++ +
Sbjct: 314 GLKGRFEEEK----IGDDHKLQNSEYEVMDVAGDKILTRHV-PALSALNERLRDDWITDV 368
Query: 74 SKGGQVLVRASFNYGNYDKKSSPPSFDLHFDGNLWATVKTSSEGLVYYEAIY 125
G R +G +D + + P H ++A V S +G + EA +
Sbjct: 369 QAGVDRWNRIPAKFG-FDFRFTLPHKGFHRKIGMFADVHVSPDGRLISEAEW 419
>pdb|1V5C|A Chain A, The Crystal Structure Of The Inactive Form Chitosanase
From Bacillus Sp. K17 At Ph3.7
pdb|1V5D|A Chain A, The Crystal Structure Of The Active Form Chitosanase From
Bacillus Sp. K17 At Ph6.4
pdb|1V5D|B Chain B, The Crystal Structure Of The Active Form Chitosanase From
Bacillus Sp. K17 At Ph6.4
Length = 386
Score = 29.3 bits (64), Expect = 3.8, Method: Compositional matrix adjust.
Identities = 18/57 (31%), Positives = 30/57 (52%), Gaps = 4/57 (7%)
Query: 140 NPNQLPFISAIEVRSLG---SHMYSHVDAAYALFLRSRTAYGANGTIRYSDDGYDRI 193
NPN + ++ A ++ G S +D AY+L L + +G+NGT+ Y + D I
Sbjct: 112 NPNLMGWVVADSKKAQGHFDSATDGDLDIAYSLLL-AHKQWGSNGTVNYLKEAQDMI 167
>pdb|3AHC|A Chain A, Resting Form Of Phosphoketolase From Bifidobacterium Breve
pdb|3AHD|A Chain A, Phosphoketolase From Bifidobacterium Breve Complexed With
2-Acetyl- Thiamine Diphosphate
pdb|3AHE|A Chain A, Phosphoketolase From Bifidobacterium Breve Complexed With
Dihydroxyethyl Thiamine Diphosphate
pdb|3AHF|A Chain A, Phosphoketolase From Bifidobacterium Breve Complexed With
Inorganic Phosphate
Length = 845
Score = 28.5 bits (62), Expect = 6.2, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 257 YFSEVTELDSTQKRAFQFRINNK---PDSDTIVPPYGKVTELYVSNMTASS 304
Y ++ EL++ +K+AFQF ++N P+ V P KV E + + TA++
Sbjct: 790 YADKIDELNAFRKKAFQFAVDNGYDIPEFTDWVYPDVKVDETQMLSATAAT 840
>pdb|3AHJ|A Chain A, H553a Mutant Of Phosphoketolase From Bifidobacterium Breve
Length = 845
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 257 YFSEVTELDSTQKRAFQFRINNK---PDSDTIVPPYGKVTELYVSNMTASS 304
Y ++ EL++ +K+AFQF ++N P+ V P KV E + + TA++
Sbjct: 790 YADKIDELNAFRKKAFQFAVDNGYDIPEFTDWVYPDVKVDETQMLSATAAT 840
>pdb|3AHI|A Chain A, H320a Mutant Of Phosphoketolase From Bifidobacterium Breve
Complexed With Acetyl Thiamine Diphosphate
Length = 845
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 257 YFSEVTELDSTQKRAFQFRINNK---PDSDTIVPPYGKVTELYVSNMTASS 304
Y ++ EL++ +K+AFQF ++N P+ V P KV E + + TA++
Sbjct: 790 YADKIDELNAFRKKAFQFAVDNGYDIPEFTDWVYPDVKVDETQMLSATAAT 840
>pdb|3AHH|A Chain A, H142a Mutant Of Phosphoketolase From Bifidobacterium Breve
Complexed With Acetyl Thiamine Diphosphate
Length = 845
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 257 YFSEVTELDSTQKRAFQFRINNK---PDSDTIVPPYGKVTELYVSNMTASS 304
Y ++ EL++ +K+AFQF ++N P+ V P KV E + + TA++
Sbjct: 790 YADKIDELNAFRKKAFQFAVDNGYDIPEFTDWVYPDVKVDETQMLSATAAT 840
>pdb|3AHG|A Chain A, H64a Mutant Of Phosphoketolase From Bifidobacterium Breve
Complexed With A Tricyclic Ring Form Of Thiamine
Diphosphate
Length = 845
Score = 28.5 bits (62), Expect = 6.3, Method: Compositional matrix adjust.
Identities = 17/51 (33%), Positives = 30/51 (58%), Gaps = 3/51 (5%)
Query: 257 YFSEVTELDSTQKRAFQFRINNK---PDSDTIVPPYGKVTELYVSNMTASS 304
Y ++ EL++ +K+AFQF ++N P+ V P KV E + + TA++
Sbjct: 790 YADKIDELNAFRKKAFQFAVDNGYDIPEFTDWVYPDVKVDETQMLSATAAT 840
>pdb|4FO0|A Chain A, Human Actin-Related Protein Arp8 In Its Atp-Bound State
Length = 593
Score = 28.5 bits (62), Expect = 6.5, Method: Compositional matrix adjust.
Identities = 15/38 (39%), Positives = 19/38 (50%), Gaps = 1/38 (2%)
Query: 89 NYDKKSSPPSFDLHFDGNLWATVKTSSEGLVYYEAIYV 126
+Y+K+ P D H GN W E LV EA+YV
Sbjct: 107 SYNKQMRPAILD-HCSGNKWTNTSHHPEYLVGEEALYV 143
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
0.315 0.131 0.385
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 10,263,284
Number of Sequences: 62578
Number of extensions: 398430
Number of successful extensions: 917
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: 917
Number of HSP's gapped (non-prelim): 9
length of query: 350
length of database: 14,973,337
effective HSP length: 100
effective length of query: 250
effective length of database: 8,715,537
effective search space: 2178884250
effective search space used: 2178884250
T: 11
A: 40
X1: 16 ( 7.3 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 41 (21.6 bits)
S2: 52 (24.6 bits)