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= 020891
(320 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|1D3Y|A Chain A, Structure Of The Dna Topoisomerase Vi A Subunit
pdb|1D3Y|B Chain B, Structure Of The Dna Topoisomerase Vi A Subunit
Length = 301
Score = 30.0 bits (66), Expect = 1.6, Method: Compositional matrix adjust.
Identities = 15/39 (38%), Positives = 22/39 (56%), Gaps = 3/39 (7%)
Query: 263 KGLEFARYSL---DYHTIRNYLHVNRAWGKKRADKHMPS 298
K LEFA+ L D+ T+R +V++ WG+ R D S
Sbjct: 13 KMLEFAKQLLETDDFSTLREAYYVSKNWGEARFDDQQAS 51
>pdb|4AMU|A Chain A, Structure Of Ornithine Carbamoyltransferase From
Mycoplasma Penetrans With A P321 Space Group
pdb|4AMU|B Chain B, Structure Of Ornithine Carbamoyltransferase From
Mycoplasma Penetrans With A P321 Space Group
pdb|4AMU|C Chain C, Structure Of Ornithine Carbamoyltransferase From
Mycoplasma Penetrans With A P321 Space Group
pdb|4AMU|D Chain D, Structure Of Ornithine Carbamoyltransferase From
Mycoplasma Penetrans With A P321 Space Group
pdb|4ANF|A Chain A, Structure Of The Ornithine Carbamoyltransferase From
Mycoplasma Penetrans With A P23 Space Group
pdb|4ANF|B Chain B, Structure Of The Ornithine Carbamoyltransferase From
Mycoplasma Penetrans With A P23 Space Group
pdb|4ANF|C Chain C, Structure Of The Ornithine Carbamoyltransferase From
Mycoplasma Penetrans With A P23 Space Group
pdb|4ANF|D Chain D, Structure Of The Ornithine Carbamoyltransferase From
Mycoplasma Penetrans With A P23 Space Group
Length = 365
Score = 28.9 bits (63), Expect = 4.3, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 22/46 (47%)
Query: 163 YTNALADLVVGYMGVPKYTGISMTQHPQYITVRNERGKEMLSLVKN 208
+ + D +V Y GVP + G++ +HP I KE +KN
Sbjct: 135 FAQSDVDALVKYSGVPVWNGLTDDEHPTQIIADFMTMKEKFGNLKN 180
>pdb|1R8K|A Chain A, Pdxa Protein; Nad-Dependent DehydrogenaseCARBOXYLASE;
Subunit Of Pyridoxine Phosphate Biosynthetic Protein
Pdxj- Pdxa [salmonella Typhimurium]
pdb|1R8K|B Chain B, Pdxa Protein; Nad-Dependent DehydrogenaseCARBOXYLASE;
Subunit Of Pyridoxine Phosphate Biosynthetic Protein
Pdxj- Pdxa [salmonella Typhimurium]
Length = 329
Score = 28.5 bits (62), Expect = 5.8, Method: Compositional matrix adjust.
Identities = 21/79 (26%), Positives = 35/79 (44%), Gaps = 11/79 (13%)
Query: 136 IEEVPYFCLPANDLVDVIAPSCYSCFDYTNALADLVVG--YMGVPKYTGISMTQHPQYIT 193
+E PY +V+ +A +C C + A L+ G + GV GIS T H ++
Sbjct: 91 VENGPY-------VVETLARACDGCLN--GEFAALITGPVHKGVINDAGISFTGHTEFFE 141
Query: 194 VRNERGKEMLSLVKNLLEI 212
R++ K + L L +
Sbjct: 142 ERSQAKKVVXXLATEELRV 160
>pdb|2HI4|A Chain A, Crystal Structure Of Human Microsomal P450 1a2 In Complex
With Alpha-Naphthoflavone
Length = 495
Score = 27.7 bits (60), Expect = 9.1, Method: Compositional matrix adjust.
Identities = 14/24 (58%), Positives = 15/24 (62%)
Query: 197 ERGKEMLSLVKNLLEITPTISSGD 220
E EMLSLVKN E T SSG+
Sbjct: 187 ESSDEMLSLVKNTHEFVETASSGN 210
>pdb|2B1X|A Chain A, Crystal Structure Of Naphthalene 1,2-dioxygenase From
Rhodococcus Sp.
pdb|2B1X|C Chain C, Crystal Structure Of Naphthalene 1,2-dioxygenase From
Rhodococcus Sp.
pdb|2B1X|E Chain E, Crystal Structure Of Naphthalene 1,2-dioxygenase From
Rhodococcus Sp.
pdb|2B24|A Chain A, Crystal Structure Of Naphthalene 1,2-Dioxygenase From
Rhodococcus Sp. Bound To Indole
pdb|2B24|C Chain C, Crystal Structure Of Naphthalene 1,2-Dioxygenase From
Rhodococcus Sp. Bound To Indole
pdb|2B24|E Chain E, Crystal Structure Of Naphthalene 1,2-Dioxygenase From
Rhodococcus Sp. Bound To Indole
Length = 470
Score = 27.7 bits (60), Expect = 9.9, Method: Compositional matrix adjust.
Identities = 18/69 (26%), Positives = 28/69 (40%)
Query: 234 NAKMGRGPSQPAPKFVGNLIAFFINLVGPKGLEFARYSLDYHTIRNYLHVNRAWGKKRAD 293
N +MGRG +P P + G A+ ++ F Y + + L + G AD
Sbjct: 394 NYQMGRGVLEPDPNWTGPGEAYPLDYAEANQRNFLEYWMQLMLAESPLRDGNSNGSGTAD 453
Query: 294 KHMPSYAKK 302
P+ AK
Sbjct: 454 ASTPAAAKS 462
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
0.319 0.136 0.406
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 9,740,398
Number of Sequences: 62578
Number of extensions: 408033
Number of successful extensions: 862
Number of sequences better than 100.0: 8
Number of HSP's better than 100.0 without gapping: 3
Number of HSP's successfully gapped in prelim test: 5
Number of HSP's that attempted gapping in prelim test: 859
Number of HSP's gapped (non-prelim): 8
length of query: 320
length of database: 14,973,337
effective HSP length: 99
effective length of query: 221
effective length of database: 8,778,115
effective search space: 1939963415
effective search space used: 1939963415
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: 51 (24.3 bits)