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= 003892
(788 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|4AM1|A Chain A, Crystal Structure Of The Marine Crustacean Decapod Shrimp
(Litopenaeus Vannamei) Arginine Kinase In The Absence Of
Substrate Or Ligands
Length = 356
Score = 30.4 bits (67), Expect = 4.5, Method: Compositional matrix adjust.
Identities = 27/96 (28%), Positives = 41/96 (42%), Gaps = 10/96 (10%)
Query: 147 NSSVNDSP------GSRVRSGREMKGFPNTPKKPTKPDRGSLSINTKSSSGKSCNEMKVP 200
NS VN P +RVR GR M+G+P P T+ + S+ E+K
Sbjct: 108 NSFVNVDPEGKFVISTRVRCGRSMQGYPFNP-MLTESQYKEMEAKVSSTLSSLEGELKGT 166
Query: 201 TKPSSETSEGVDDKPIEE---MKEIDLLDETSNGAQ 233
P + S+ V K I++ KE D + +N +
Sbjct: 167 YYPLTGMSKEVQQKLIDDHFLFKEGDRFLQAANAMR 202
>pdb|3K7T|A Chain A, Crystal Structure Of Apo-Form 6-Hydroxy-L-Nicotine
Oxidase, Crystal Form P3121
pdb|3K7T|B Chain B, Crystal Structure Of Apo-Form 6-Hydroxy-L-Nicotine
Oxidase, Crystal Form P3121
Length = 425
Score = 29.6 bits (65), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 40/88 (45%), Gaps = 14/88 (15%)
Query: 679 RLSGDSARSFPYTAAPVEYNP------PSSSDVA------EKVAEAGGKSHLLRNVSSVQ 726
RL+ + R TAA E+ P++ D A E VA LLR+ +
Sbjct: 67 RLAAELDRYGIPTAAASEFTSFRHRLGPTAVDQAFPIPGSEAVAVEAATYTLLRDAHRID 126
Query: 727 RKGYTSDDELEELDSPLSSIIDK--LPP 752
+ + +LE+LD PL+ +DK LPP
Sbjct: 127 LEKGLENQDLEDLDIPLNEYVDKLDLPP 154
>pdb|3K7M|X Chain X, Crystal Structure Of 6-Hydroxy-L-Nicotine Oxidase From
Arthrobacter Nicotinovorans
pdb|3K7Q|X Chain X, Crystal Structure Of Substrate-Bound 6-Hydroxy-L-Nicotine
Oxidase From Arthrobacter Nicotinovorans
pdb|3NG7|X Chain X, Complex Of Dithionite-Reduced 6-Hydroxy-L-Nicotine Oxidase
With Substrate Bound At Active Site And Inhibitor At
Exit Cavity
pdb|3NGC|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Intermediate
Methylmyosmine Product Formed During Catalytic Turnover
pdb|3NH3|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Final Ketone
Product Formed During Catalytic Turnover
pdb|3NHO|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Product Bound
At Active Site
pdb|3NK0|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Inhibitor
Bound At Active Site And Turnover Product At Exit Cavity
pdb|3NK1|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Serotonin
pdb|3NK2|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Dopamine
pdb|3NN6|X Chain X, Crystal Structure Of Inhibitor-Bound In Active Centre
6-Hydroxy-L- Nicotine Oxidase From Arthrobacter
Nicotinovorans
pdb|3NN0|X Chain X, Complex Of 6-Hydroxy-L-Nicotine Oxidase With Nicotinamide
Length = 431
Score = 29.6 bits (65), Expect = 7.0, Method: Compositional matrix adjust.
Identities = 27/88 (30%), Positives = 40/88 (45%), Gaps = 14/88 (15%)
Query: 679 RLSGDSARSFPYTAAPVEYNP------PSSSDVA------EKVAEAGGKSHLLRNVSSVQ 726
RL+ + R TAA E+ P++ D A E VA LLR+ +
Sbjct: 67 RLAAELDRYGIPTAAASEFTSFRHRLGPTAVDQAFPIPGSEAVAVEAATYTLLRDAHRID 126
Query: 727 RKGYTSDDELEELDSPLSSIIDK--LPP 752
+ + +LE+LD PL+ +DK LPP
Sbjct: 127 LEKGLENQDLEDLDIPLNEYVDKLDLPP 154
>pdb|2R6A|A Chain A, Crystal Form Bh1
pdb|2R6A|B Chain B, Crystal Form Bh1
pdb|2R6E|A Chain A, Crystal Form B2
pdb|2R6E|B Chain B, Crystal Form B2
pdb|2R6C|A Chain A, Crystal Form Bh2
pdb|2R6C|B Chain B, Crystal Form Bh2
pdb|2R6C|C Chain C, Crystal Form Bh2
pdb|2R6C|D Chain D, Crystal Form Bh2
pdb|2R6C|E Chain E, Crystal Form Bh2
pdb|2R6C|F Chain F, Crystal Form Bh2
pdb|2R6D|A Chain A, Crystal Form B1
pdb|2R6D|B Chain B, Crystal Form B1
pdb|2R6D|C Chain C, Crystal Form B1
pdb|2R6D|D Chain D, Crystal Form B1
pdb|2R6D|E Chain E, Crystal Form B1
pdb|2R6D|F Chain F, Crystal Form B1
pdb|4ESV|A Chain A, A New Twist On The Translocation Mechanism Of Helicases
From The Structure Of Dnab With Its Substrates
pdb|4ESV|B Chain B, A New Twist On The Translocation Mechanism Of Helicases
From The Structure Of Dnab With Its Substrates
pdb|4ESV|C Chain C, A New Twist On The Translocation Mechanism Of Helicases
From The Structure Of Dnab With Its Substrates
pdb|4ESV|D Chain D, A New Twist On The Translocation Mechanism Of Helicases
From The Structure Of Dnab With Its Substrates
pdb|4ESV|E Chain E, A New Twist On The Translocation Mechanism Of Helicases
From The Structure Of Dnab With Its Substrates
pdb|4ESV|F Chain F, A New Twist On The Translocation Mechanism Of Helicases
From The Structure Of Dnab With Its Substrates
pdb|4ESV|G Chain G, A New Twist On The Translocation Mechanism Of Helicases
From The Structure Of Dnab With Its Substrates
pdb|4ESV|H Chain H, A New Twist On The Translocation Mechanism Of Helicases
From The Structure Of Dnab With Its Substrates
pdb|4ESV|I Chain I, A New Twist On The Translocation Mechanism Of Helicases
From The Structure Of Dnab With Its Substrates
pdb|4ESV|J Chain J, A New Twist On The Translocation Mechanism Of Helicases
From The Structure Of Dnab With Its Substrates
pdb|4ESV|K Chain K, A New Twist On The Translocation Mechanism Of Helicases
From The Structure Of Dnab With Its Substrates
pdb|4ESV|L Chain L, A New Twist On The Translocation Mechanism Of Helicases
From The Structure Of Dnab With Its Substrates
Length = 454
Score = 29.3 bits (64), Expect = 8.2, Method: Compositional matrix adjust.
Identities = 18/49 (36%), Positives = 25/49 (51%), Gaps = 7/49 (14%)
Query: 691 TAAPVEYNPPSSSDVAEKVAEAGGKSHLLRNVSSVQRKGYTSDDELEEL 739
TAA VEY A V E L+R +S+ + GYT +DE++ L
Sbjct: 98 TAANVEY-------YARIVEEKSVLRRLIRTATSIAQDGYTREDEIDVL 139
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
0.309 0.127 0.362
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 22,767,870
Number of Sequences: 62578
Number of extensions: 925296
Number of successful extensions: 1649
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 4
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 1644
Number of HSP's gapped (non-prelim): 16
length of query: 788
length of database: 14,973,337
effective HSP length: 107
effective length of query: 681
effective length of database: 8,277,491
effective search space: 5636971371
effective search space used: 5636971371
T: 11
A: 40
X1: 16 ( 7.1 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (21.7 bits)
S2: 55 (25.8 bits)