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= psy173
(130 letters)
Database: pdbaa
62,578 sequences; 14,973,337 total letters
Searching..................................................done
>pdb|3PT5|A Chain A, Crystal Structure Of Nans
Length = 337
Score = 30.8 bits (68), Expect = 0.23, Method: Compositional matrix adjust.
Identities = 24/67 (35%), Positives = 38/67 (56%), Gaps = 10/67 (14%)
Query: 30 FLDEQEEAARQLEDEGEQEAEWLSTAGLSQLSDAYRSGLEIPDADLSRALRHLSSHQAQA 89
F+D Q++ AR L + +++ + LST AYRS P+ + + ALR SSH + A
Sbjct: 267 FVDFQQQGARGLTNAPDEDPDDLSTG---YYGSAYRS----PE-NWTTALR--SSHFSSA 316
Query: 90 VRRRVLS 96
RR ++S
Sbjct: 317 ARRGIIS 323
>pdb|2JLC|A Chain A, Crystal Structure Of E.Coli Mend,
2-Succinyl-5-Enolpyruvyl-
6-Hydroxy-3-Cyclohexadiene-1-Carboxylate Synthase -
Native Protein
pdb|2JLC|B Chain B, Crystal Structure Of E.Coli Mend,
2-Succinyl-5-Enolpyruvyl-
6-Hydroxy-3-Cyclohexadiene-1-Carboxylate Synthase -
Native Protein
Length = 577
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 39/86 (45%), Gaps = 12/86 (13%)
Query: 2 EADVSQDQDFQDYW-NEYRILQETKRL------DEFLDEQEE----AARQLEDEGEQEAE 50
+ +S Q D+W ++ L+E RL D F Q+ A R +EG++ A
Sbjct: 201 DTGLSWQQRLGDWWQDDKPWLREAPRLESEKQRDWFFWRQKRGVVVAGRMSAEEGKKVAL 260
Query: 51 WLSTAGLSQLSDAY-RSGLEIPDADL 75
W T G + D ++G +P ADL
Sbjct: 261 WAQTLGWPLIGDVLSQTGQPLPCADL 286
>pdb|3FLM|A Chain A, Crystal Structure Of Mend From E.Coli
pdb|3FLM|B Chain B, Crystal Structure Of Mend From E.Coli
pdb|3HWW|A Chain A, Crystal Structure Of Menaquinone Synthesis Protein Mend
From E. Coli In Complex With Oxoglutarate
pdb|3HWW|D Chain D, Crystal Structure Of Menaquinone Synthesis Protein Mend
From E. Coli In Complex With Oxoglutarate
pdb|3HWX|A Chain A, Crystal Structure Of Menaquinone Synthesis Protein Mend
From E. Coli In Complex With Thdp
pdb|3HWX|B Chain B, Crystal Structure Of Menaquinone Synthesis Protein Mend
From E. Coli In Complex With Thdp
pdb|3HWX|I Chain I, Crystal Structure Of Menaquinone Synthesis Protein Mend
From E. Coli In Complex With Thdp
pdb|3HWX|J Chain J, Crystal Structure Of Menaquinone Synthesis Protein Mend
From E. Coli In Complex With Thdp
pdb|3HWX|R Chain R, Crystal Structure Of Menaquinone Synthesis Protein Mend
From E. Coli In Complex With Thdp
pdb|3HWX|S Chain S, Crystal Structure Of Menaquinone Synthesis Protein Mend
From E. Coli In Complex With Thdp
pdb|3HWX|Z Chain Z, Crystal Structure Of Menaquinone Synthesis Protein Mend
From E. Coli In Complex With Thdp
pdb|3HWX|1 Chain 1, Crystal Structure Of Menaquinone Synthesis Protein Mend
From E. Coli In Complex With Thdp
Length = 556
Score = 28.1 bits (61), Expect = 1.2, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 39/86 (45%), Gaps = 12/86 (13%)
Query: 2 EADVSQDQDFQDYW-NEYRILQETKRL------DEFLDEQEE----AARQLEDEGEQEAE 50
+ +S Q D+W ++ L+E RL D F Q+ A R +EG++ A
Sbjct: 180 DTGLSWQQRLGDWWQDDKPWLREAPRLESEKQRDWFFWRQKRGVVVAGRMSAEEGKKVAL 239
Query: 51 WLSTAGLSQLSDAY-RSGLEIPDADL 75
W T G + D ++G +P ADL
Sbjct: 240 WAQTLGWPLIGDVLSQTGQPLPCADL 265
>pdb|2JLA|A Chain A, Crystal Structure Of E.Coli Mend,
2-Succinyl-5-Enolpyruvyl-
6-Hydroxy-3-Cyclohexadiene-1-Carboxylate Synthase -
Semet Protein
pdb|2JLA|B Chain B, Crystal Structure Of E.Coli Mend,
2-Succinyl-5-Enolpyruvyl-
6-Hydroxy-3-Cyclohexadiene-1-Carboxylate Synthase -
Semet Protein
pdb|2JLA|C Chain C, Crystal Structure Of E.Coli Mend,
2-Succinyl-5-Enolpyruvyl-
6-Hydroxy-3-Cyclohexadiene-1-Carboxylate Synthase -
Semet Protein
pdb|2JLA|D Chain D, Crystal Structure Of E.Coli Mend,
2-Succinyl-5-Enolpyruvyl-
6-Hydroxy-3-Cyclohexadiene-1-Carboxylate Synthase -
Semet Protein
Length = 558
Score = 28.1 bits (61), Expect = 1.5, Method: Compositional matrix adjust.
Identities = 25/86 (29%), Positives = 39/86 (45%), Gaps = 12/86 (13%)
Query: 2 EADVSQDQDFQDYW-NEYRILQETKRL------DEFLDEQEE----AARQLEDEGEQEAE 50
+ +S Q D+W ++ L+E RL D F Q+ A R +EG++ A
Sbjct: 182 DTGLSWQQRLGDWWQDDKPWLREAPRLESEKQRDWFFWRQKRGVVVAGRXSAEEGKKVAL 241
Query: 51 WLSTAGLSQLSDAY-RSGLEIPDADL 75
W T G + D ++G +P ADL
Sbjct: 242 WAQTLGWPLIGDVLSQTGQPLPCADL 267
>pdb|2H3G|X Chain X, Structure Of The Type Iii Pantothenate Kinase (Coax) From
Bacillus Anthracis
Length = 268
Score = 25.8 bits (55), Expect = 6.9, Method: Compositional matrix adjust.
Identities = 11/50 (22%), Positives = 30/50 (60%)
Query: 27 LDEFLDEQEEAARQLEDEGEQEAEWLSTAGLSQLSDAYRSGLEIPDADLS 76
L ++ + E +++++E +QE + ++T GL++L + +++ D L+
Sbjct: 193 LYGYVGQVEGIVKRMKEEAKQEPKVIATGGLAKLISEESNVIDVVDPFLT 242
>pdb|3O08|A Chain A, Crystal Structure Of Dimeric Klhxk1 In Crystal Form I
pdb|3O08|B Chain B, Crystal Structure Of Dimeric Klhxk1 In Crystal Form I
pdb|3O1B|A Chain A, Crystal Structure Of Dimeric Klhxk1 In Crystal Form Ii
pdb|3O1W|A Chain A, Crystal Structure Of Dimeric Klhxk1 In Crystal Form Iii
pdb|3O1W|B Chain B, Crystal Structure Of Dimeric Klhxk1 In Crystal Form Iii
pdb|3O4W|A Chain A, Crystal Structure Of Dimeric Klhxk1 In Crystal Form Iv
pdb|3O4W|B Chain B, Crystal Structure Of Dimeric Klhxk1 In Crystal Form Iv
pdb|3O5B|A Chain A, Crystal Structure Of Dimeric Klhxk1 In Crystal Form Vii
With Glucose Bound (Open State)
pdb|3O5B|B Chain B, Crystal Structure Of Dimeric Klhxk1 In Crystal Form Vii
With Glucose Bound (Open State)
pdb|3O6W|A Chain A, Crystal Structure Of Monomeric Klhxk1 In Crystal Form Viii
(Open State)
pdb|3O6W|B Chain B, Crystal Structure Of Monomeric Klhxk1 In Crystal Form Viii
(Open State)
pdb|3O80|A Chain A, Crystal Structure Of Monomeric Klhxk1 In Crystal Form Ix
(Open State)
pdb|3O8M|A Chain A, Crystal Structure Of Monomeric Klhxk1 In Crystal Form Xi
With Glucose Bound (Closed State)
Length = 485
Score = 25.4 bits (54), Expect = 9.1, Method: Composition-based stats.
Identities = 19/68 (27%), Positives = 29/68 (42%), Gaps = 1/68 (1%)
Query: 10 DFQDYWNEYRILQETKRLDEFLDEQEEAARQLEDEGEQEAEWLSTAGLSQLSDAYRSGLE 69
++ + NE+ +L TK D +DE+ Q E +L L D Y SG
Sbjct: 268 EYGSFDNEHLVLPRTK-YDVIIDEESPRPGQQAFEKMTSGYYLGEIMRLVLLDLYDSGFI 326
Query: 70 IPDADLSR 77
D D+S+
Sbjct: 327 FKDQDISK 334
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
0.314 0.129 0.363
Lambda K H
0.267 0.0410 0.140
Matrix: BLOSUM62
Gap Penalties: Existence: 11, Extension: 1
Number of Hits to DB: 3,634,343
Number of Sequences: 62578
Number of extensions: 127582
Number of successful extensions: 292
Number of sequences better than 100.0: 29
Number of HSP's better than 100.0 without gapping: 19
Number of HSP's successfully gapped in prelim test: 10
Number of HSP's that attempted gapping in prelim test: 271
Number of HSP's gapped (non-prelim): 29
length of query: 130
length of database: 14,973,337
effective HSP length: 88
effective length of query: 42
effective length of database: 9,466,473
effective search space: 397591866
effective search space used: 397591866
T: 11
A: 40
X1: 16 ( 7.2 bits)
X2: 38 (14.6 bits)
X3: 64 (24.7 bits)
S1: 42 (22.0 bits)
S2: 45 (21.9 bits)