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3E0V
Biol. Unit 2
Info
Asym.Unit (479 KB)
Biol.Unit 1 (313 KB)
Biol.Unit 2 (313 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF PYRUVATE KINASE FROM LEISHMANIA MEXICANA IN COMPLEX WITH SULPHATE IONS
Authors
:
L. B. Tulloch, L. A. Gillmore, M. D. Walkinshaw
Date
:
01 Aug 08 (Deposition) - 19 Aug 08 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.30
Chains
:
Asym. Unit : A,B,C,D,E,F
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F (2x)
Keywords
:
Pyruvate, Kinase, Nad+ Nadh, Adp, Phosphoenolpyruvate, Pep, Glycolysis, Trypanosomatid, Leishmania, Mexicana, Allosteric Enzyme, Magnesium, Metal-Binding, Transferase
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)
Reference
:
L. B. Tulloch, H. P. Morgan, V. Hannaert, P. A. Michels, L. A. Fothergill-Gilmore, M. D. Walkinshaw
Sulphate Removal Induces A Major Conformational Change In Leishmania Mexicana Pyruvate Kinase In The Crystalline State.
J. Mol. Biol. V. 383 615 2008
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Hetero Components
(2, 26)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
2a: SULFATE ION (SO4a)
2aa: SULFATE ION (SO4aa)
2ab: SULFATE ION (SO4ab)
2ac: SULFATE ION (SO4ac)
2ad: SULFATE ION (SO4ad)
2ae: SULFATE ION (SO4ae)
2af: SULFATE ION (SO4af)
2ag: SULFATE ION (SO4ag)
2ah: SULFATE ION (SO4ah)
2ai: SULFATE ION (SO4ai)
2aj: SULFATE ION (SO4aj)
2ak: SULFATE ION (SO4ak)
2al: SULFATE ION (SO4al)
2am: SULFATE ION (SO4am)
2an: SULFATE ION (SO4an)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
2h: SULFATE ION (SO4h)
2i: SULFATE ION (SO4i)
2j: SULFATE ION (SO4j)
2k: SULFATE ION (SO4k)
2l: SULFATE ION (SO4l)
2m: SULFATE ION (SO4m)
2n: SULFATE ION (SO4n)
2o: SULFATE ION (SO4o)
2p: SULFATE ION (SO4p)
2q: SULFATE ION (SO4q)
2r: SULFATE ION (SO4r)
2s: SULFATE ION (SO4s)
2t: SULFATE ION (SO4t)
2u: SULFATE ION (SO4u)
2v: SULFATE ION (SO4v)
2w: SULFATE ION (SO4w)
2x: SULFATE ION (SO4x)
2y: SULFATE ION (SO4y)
2z: SULFATE ION (SO4z)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
2
Ligand/Ion
GLYCEROL
2
SO4
24
Ligand/Ion
SULFATE ION
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Sites
(13, 13)
Info
All Sites
01: DC2 (SOFTWARE)
02: DC3 (SOFTWARE)
03: DC4 (SOFTWARE)
04: DC5 (SOFTWARE)
05: DC6 (SOFTWARE)
06: DC7 (SOFTWARE)
07: DC8 (SOFTWARE)
08: DC9 (SOFTWARE)
09: EC1 (SOFTWARE)
10: EC2 (SOFTWARE)
11: EC3 (SOFTWARE)
12: EC4 (SOFTWARE)
13: EC7 (SOFTWARE)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
DC2
SOFTWARE
ARG E:49 , ASN E:51 , LYS E:238
BINDING SITE FOR RESIDUE SO4 E 501
02
DC3
SOFTWARE
GLN E:297 , SER E:330 , GLY E:331 , GLU E:332
BINDING SITE FOR RESIDUE SO4 E 502
03
DC4
SOFTWARE
SER E:53 , HIS E:54 , ARG E:174
BINDING SITE FOR RESIDUE SO4 E 503
04
DC5
SOFTWARE
GLN E:2 , HOH E:3040 , HOH E:4135 , GLN F:2
BINDING SITE FOR RESIDUE SO4 E 504
05
DC6
SOFTWARE
HIS E:54 , ARG E:90 , ARG E:175
BINDING SITE FOR RESIDUE SO4 E 506
06
DC7
SOFTWARE
SER E:400 , ASN E:401 , THR E:402 , GLY E:403 , ARG E:404 , SER E:405 , ALA E:481 , ASP E:482
BINDING SITE FOR RESIDUE SO4 E 507
07
DC8
SOFTWARE
ARG F:49 , ASN F:51 , ASP F:83 , LYS F:238 , SO4 F:506
BINDING SITE FOR RESIDUE SO4 F 501
08
DC9
SOFTWARE
GLN F:297 , GLU F:300 , GLY F:331 , GLU F:332
BINDING SITE FOR RESIDUE SO4 F 502
09
EC1
SOFTWARE
SER F:53 , HIS F:54 , ARG F:174
BINDING SITE FOR RESIDUE SO4 F 503
10
EC2
SOFTWARE
HIS F:54 , ARG F:90 , ARG F:175 , SO4 F:501
BINDING SITE FOR RESIDUE SO4 F 506
11
EC3
SOFTWARE
SER F:400 , ASN F:401 , THR F:402 , GLY F:403 , ARG F:404 , SER F:405 , ALA F:481 , ASP F:482
BINDING SITE FOR RESIDUE SO4 F 507
12
EC4
SOFTWARE
LYS F:453 , ARG F:456
BINDING SITE FOR RESIDUE SO4 F 508
13
EC7
SOFTWARE
PHE A:115 , LYS A:123 , GLY E:55 , SER E:56 , HOH E:3046 , HOH E:4110
BINDING SITE FOR RESIDUE GOL E 508
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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Sorry, no Info available
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PROSITE Patterns/Profiles
(1, 4)
Info
All PROSITE Patterns/Profiles
1: PYRUVATE_KINASE (E:233-245,F:233-245)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PYRUVATE_KINASE
PS00110
Pyruvate kinase active site signature.
KPYK_LEIME
234-246
4
-
-
-
-
E:233-245
F:233-245
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Exons
(0, 0)
Info
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(3, 18)
Info
All SCOP Domains
1a: SCOP_d3e0va1 (A:88-186)
1b: SCOP_d3e0vb1 (B:88-186)
1c: SCOP_d3e0vc1 (C:88-186)
1d: SCOP_d3e0vd1 (D:88-186)
1e: SCOP_d3e0ve1 (E:88-186)
1f: SCOP_d3e0vf1 (F:88-186)
2a: SCOP_d3e0va3 (A:358-498)
2b: SCOP_d3e0vb3 (B:358-498)
2c: SCOP_d3e0vc3 (C:358-498)
2d: SCOP_d3e0vd3 (D:358-498)
2e: SCOP_d3e0ve3 (E:358-498)
2f: SCOP_d3e0vf3 (F:358-498)
3a: SCOP_d3e0va2 (A:1-87,A:187-357)
3b: SCOP_d3e0vb2 (B:1-87,B:187-357)
3c: SCOP_d3e0vc2 (C:1-87,C:187-357)
3d: SCOP_d3e0vd2 (D:1-87,D:187-357)
3e: SCOP_d3e0ve2 (E:1-87,E:187-357)
3f: SCOP_d3e0vf2 (F:1-87,F:187-357)
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Protein Domains
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Organisms
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Class
:
All beta proteins
(24004)
Fold
:
PK beta-barrel domain-like
(31)
Superfamily
:
PK beta-barrel domain-like
(31)
Family
:
Pyruvate kinase beta-barrel domain
(28)
Protein domain
:
Pyruvate kinase (PK)
(28)
Trypanosome (Leishmania mexicana) [TaxId: 5665]
(11)
1a
d3e0va1
A:88-186
1b
d3e0vb1
B:88-186
1c
d3e0vc1
C:88-186
1d
d3e0vd1
D:88-186
1e
d3e0ve1
E:88-186
1f
d3e0vf1
F:88-186
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Pyruvate kinase C-terminal domain-like
(59)
Superfamily
:
PK C-terminal domain-like
(30)
Family
:
Pyruvate kinase, C-terminal domain
(28)
Protein domain
:
Pyruvate kinase, C-terminal domain
(28)
Trypanosome (Leishmania mexicana) [TaxId: 5665]
(11)
2a
d3e0va3
A:358-498
2b
d3e0vb3
B:358-498
2c
d3e0vc3
C:358-498
2d
d3e0vd3
D:358-498
2e
d3e0ve3
E:358-498
2f
d3e0vf3
F:358-498
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Phosphoenolpyruvate/pyruvate domain
(92)
Family
:
Pyruvate kinase
(28)
Protein domain
:
Pyruvate kinase, N-terminal domain
(28)
Trypanosome (Leishmania mexicana) [TaxId: 5665]
(11)
3a
d3e0va2
A:1-87,A:187-357
3b
d3e0vb2
B:1-87,B:187-357
3c
d3e0vc2
C:1-87,C:187-357
3d
d3e0vd2
D:1-87,D:187-357
3e
d3e0ve2
E:1-87,E:187-357
3f
d3e0vf2
F:1-87,F:187-357
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CATH Domains
(0, 0)
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Pfam Domains
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