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= 029787
(188 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|2R8V|A Chain A, Native Structure Of N-Acetylglutamate Synthase From
Neisseria Gonorrhoeae
pdb|3B8G|A Chain A, Crysta Structure Of N-Acetylglutamate Synthase From
Neisseria Gonorrhoeae Complexed With Coenzyme A And
N-Acetyl-Glutamate
pdb|3D2P|A Chain A, Crystal Structure Of N-acetylglutamate Synthase From
Neisseria Gonorrhoeae Complexed With Coenzyme A And
L-arginine
pdb|3D2P|B Chain B, Crystal Structure Of N-acetylglutamate Synthase From
Neisseria Gonorrhoeae Complexed With Coenzyme A And
L-arginine
pdb|3D2M|A Chain A, Crystal Structure Of N-Acetylglutamate Synthase From
Neisseria Gonorrhoeae Complexed With Coenzyme A And
L-Glutamate
pdb|4I49|A Chain A, Structure Of Ngnags Bound With Bisubstrate Analog Coa-Nag
Length = 456
Score = 29.3 bits (64), Expect = 1.3, Method: Compositional matrix adjust.
Identities = 25/80 (31%), Positives = 36/80 (45%), Gaps = 8/80 (10%)
Query: 12 KSLNLQLRCFSQAAAAILPDDPSAPLTYL---DGLPRPDPRYDETILAIPRASPGTRVSV 68
K+ NL + QAAA++ + L YL DG+ RPD ET+ A S +
Sbjct: 200 KTFNLDM---VQAAASVAVSLQAEKLVYLTLSDGISRPDGTLAETLSAQEAQSLAEHAAS 256
Query: 69 KERKAGRVPSIVFEQEDGQH 88
+ R+ + S V E G H
Sbjct: 257 ETRRL--ISSAVAALEGGVH 274
>pdb|2XFG|A Chain A, Reassembly And Co-Crystallization Of A Family 9 Processive
Endoglucanase From Separately Expressed Gh9 And Cbm3c
Modules
Length = 466
Score = 28.1 bits (61), Expect = 3.3, Method: Compositional matrix adjust.
Identities = 14/46 (30%), Positives = 25/46 (54%), Gaps = 5/46 (10%)
Query: 43 LPRPDPRYDETILAIPRASPGTRVSVKERKAGRVPSIVFEQEDGQH 88
+P P Y + R+SPG+ V + A + SI+F++ DG++
Sbjct: 155 MPMERPSY-----KVDRSSPGSTVVAETSAALAIASIIFKKVDGEY 195
>pdb|3EZ9|A Chain A, Partition Protein
pdb|3EZ9|B Chain B, Partition Protein
pdb|3EZF|A Chain A, Partition Protein
Length = 403
Score = 26.6 bits (57), Expect = 8.5, Method: Compositional matrix adjust.
Identities = 15/46 (32%), Positives = 25/46 (54%), Gaps = 2/46 (4%)
Query: 40 LDGLPRPDPRYDETILAIPRASPGTRVSVKERK--AGRVPSIVFEQ 83
LDG R +D I A P++ PG+ ++K+ + A R VF++
Sbjct: 349 LDGFERCGESFDTVISANPQSYPGSAEALKKARTEAERFTKAVFDR 394
>pdb|2P9H|A Chain A, High Resolution Structure Of The Lactose Repressor Bound
To Iptg
pdb|2P9H|B Chain B, High Resolution Structure Of The Lactose Repressor Bound
To Iptg
pdb|2PAF|A Chain A, Crystal Structure Of The Lactose Repressor Bound To Anti-
Inducer Onpf In Induced State
pdb|2PAF|B Chain B, Crystal Structure Of The Lactose Repressor Bound To Anti-
Inducer Onpf In Induced State
Length = 269
Score = 26.6 bits (57), Expect = 8.9, Method: Compositional matrix adjust.
Identities = 12/32 (37%), Positives = 18/32 (56%)
Query: 76 VPSIVFEQEDGQHGGNKRLISVQTNQIRKLVG 107
+ SI+F EDG G + L+++ QI L G
Sbjct: 95 INSIIFSHEDGTRLGVEHLVALGHQQIALLAG 126
>pdb|1JYE|A Chain A, Structure Of A Dimeric Lac Repressor With C-Terminal
Deletion And K84l Substitution
Length = 349
Score = 26.6 bits (57), Expect = 9.4, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 76 VPSIVFEQEDGQHGGNKRLISVQTNQIRKLVGHL 109
+ SI+F EDG G + L+++ QI L G L
Sbjct: 156 INSIIFSHEDGTRLGVEHLVALGHQQIALLAGPL 189
>pdb|1TLF|A Chain A, Unprecedented Quaternary Structure Of E. Coli Lac
Repressor Core Tetramer: Implications For Dna Looping
pdb|1TLF|B Chain B, Unprecedented Quaternary Structure Of E. Coli Lac
Repressor Core Tetramer: Implications For Dna Looping
pdb|1TLF|C Chain C, Unprecedented Quaternary Structure Of E. Coli Lac
Repressor Core Tetramer: Implications For Dna Looping
pdb|1TLF|D Chain D, Unprecedented Quaternary Structure Of E. Coli Lac
Repressor Core Tetramer: Implications For Dna Looping
Length = 301
Score = 26.6 bits (57), Expect = 9.5, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 76 VPSIVFEQEDGQHGGNKRLISVQTNQIRKLVGHL 109
+ SI+F EDG G + L+++ QI L G L
Sbjct: 97 INSIIFSHEDGTRLGVEHLVALGHQQIALLAGPL 130
>pdb|1JYF|A Chain A, Structure Of The Dimeric Lac Repressor With An 11-Residue
C-Terminal Deletion
Length = 349
Score = 26.6 bits (57), Expect = 9.8, Method: Compositional matrix adjust.
Identities = 13/34 (38%), Positives = 19/34 (55%)
Query: 76 VPSIVFEQEDGQHGGNKRLISVQTNQIRKLVGHL 109
+ SI+F EDG G + L+++ QI L G L
Sbjct: 156 INSIIFSHEDGTRLGVEHLVALGHQQIALLAGPL 189
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
0.320 0.139 0.401
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 5,658,452
Number of Sequences: 62578
Number of extensions: 228272
Number of successful extensions: 424
Number of sequences better than 100.0: 14
Number of HSP's better than 100.0 without gapping: 11
Number of HSP's successfully gapped in prelim test: 3
Number of HSP's that attempted gapping in prelim test: 413
Number of HSP's gapped (non-prelim): 14
length of query: 188
length of database: 14,973,337
effective HSP length: 93
effective length of query: 95
effective length of database: 9,153,583
effective search space: 869590385
effective search space used: 869590385
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: 48 (23.1 bits)