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1F3W
Asym. Unit
Info
Asym.Unit (644 KB)
Biol.Unit 1 (322 KB)
Biol.Unit 2 (324 KB)
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(1)
Title
:
RECOMBINANT RABBIT MUSCLE PYRUVATE KINASE
Authors
:
J. O. Wooll, R. H. E. Friesen, M. A. White, S. J. Watowich, R. O. Fox, J. C. Lee, E. W. Czerwinski
Date
:
06 Jun 00 (Deposition) - 03 Oct 01 (Release) - 06 Oct 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
3.00
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H
Biol. Unit 1: A,B,C,D (1x)
Biol. Unit 2: E,F,G,H (1x)
Keywords
:
Pyruvate Kinase, Recombinant, Muscle Isozyme, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
J. O. Wooll, R. H. Friesen, M. A. White, S. J. Watowich, R. O. Fox, J. C. Lee, E. W. Czerwinski
Structural And Functional Linkages Between Subunit Interfaces In Mammalian Pyruvate Kinase.
J. Mol. Biol. V. 312 525 2001
(for further references see the
PDB file header
)
[
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Hetero Components
(3, 24)
Info
All Hetero Components
1a: POTASSIUM ION (Ka)
1b: POTASSIUM ION (Kb)
1c: POTASSIUM ION (Kc)
1d: POTASSIUM ION (Kd)
1e: POTASSIUM ION (Ke)
1f: POTASSIUM ION (Kf)
1g: POTASSIUM ION (Kg)
1h: POTASSIUM ION (Kh)
2a: MANGANESE (II) ION (MNa)
2b: MANGANESE (II) ION (MNb)
2c: MANGANESE (II) ION (MNc)
2d: MANGANESE (II) ION (MNd)
2e: MANGANESE (II) ION (MNe)
2f: MANGANESE (II) ION (MNf)
2g: MANGANESE (II) ION (MNg)
2h: MANGANESE (II) ION (MNh)
3a: PYRUVIC ACID (PYRa)
3b: PYRUVIC ACID (PYRb)
3c: PYRUVIC ACID (PYRc)
3d: PYRUVIC ACID (PYRd)
3e: PYRUVIC ACID (PYRe)
3f: PYRUVIC ACID (PYRf)
3g: PYRUVIC ACID (PYRg)
3h: PYRUVIC ACID (PYRh)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
K
8
Ligand/Ion
POTASSIUM ION
2
MN
8
Ligand/Ion
MANGANESE (II) ION
3
PYR
8
Ligand/Ion
PYRUVIC ACID
[
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]
Sites
(24, 24)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:74 , SER A:76 , ASP A:112 , THR A:113
BINDING SITE FOR RESIDUE K A 531
02
AC2
SOFTWARE
GLU A:271 , ASP A:295 , PYR A:541
BINDING SITE FOR RESIDUE MN A 532
03
AC3
SOFTWARE
ASN B:74 , SER B:76 , ASP B:112 , THR B:113
BINDING SITE FOR RESIDUE K B 532
04
AC4
SOFTWARE
GLU B:271 , ASP B:295 , PYR B:542
BINDING SITE FOR RESIDUE MN B 533
05
AC5
SOFTWARE
ASN C:74 , SER C:76 , ASP C:112 , THR C:113
BINDING SITE FOR RESIDUE K C 533
06
AC6
SOFTWARE
GLU C:271 , ASP C:295 , PYR C:543
BINDING SITE FOR RESIDUE MN C 532
07
AC7
SOFTWARE
ASN D:74 , SER D:76 , ASP D:112 , THR D:113
BINDING SITE FOR RESIDUE K D 534
08
AC8
SOFTWARE
GLU D:271 , ASP D:295 , PYR D:544
BINDING SITE FOR RESIDUE MN D 532
09
AC9
SOFTWARE
ASN E:74 , SER E:76 , ASP E:112 , THR E:113
BINDING SITE FOR RESIDUE K E 535
10
BC1
SOFTWARE
GLU E:271 , ASP E:295 , PYR E:545
BINDING SITE FOR RESIDUE MN E 532
11
BC2
SOFTWARE
ASN F:74 , SER F:76 , ASP F:112 , THR F:113
BINDING SITE FOR RESIDUE K F 536
12
BC3
SOFTWARE
GLU F:271 , ASP F:295 , PYR F:546
BINDING SITE FOR RESIDUE MN F 532
13
BC4
SOFTWARE
ASN G:74 , SER G:76 , ASP G:112 , THR G:113
BINDING SITE FOR RESIDUE K G 537
14
BC5
SOFTWARE
GLU G:271 , ASP G:295 , PYR G:547
BINDING SITE FOR RESIDUE MN G 532
15
BC6
SOFTWARE
ASN H:74 , SER H:76 , ASP H:112 , THR H:113
BINDING SITE FOR RESIDUE K H 538
16
BC7
SOFTWARE
GLU H:271 , ASP H:295 , PYR H:548
BINDING SITE FOR RESIDUE MN H 532
17
BC8
SOFTWARE
LYS A:269 , GLU A:271 , ALA A:292 , GLY A:294 , ASP A:295 , THR A:327 , MET A:359 , MN A:532
BINDING SITE FOR RESIDUE PYR A 541
18
BC9
SOFTWARE
LYS B:269 , GLU B:271 , ALA B:292 , GLY B:294 , ASP B:295 , THR B:327 , MET B:359 , MN B:533
BINDING SITE FOR RESIDUE PYR B 542
19
CC1
SOFTWARE
LYS C:269 , GLU C:271 , ALA C:292 , GLY C:294 , ASP C:295 , THR C:327 , MET C:359 , MN C:532
BINDING SITE FOR RESIDUE PYR C 543
20
CC2
SOFTWARE
LYS D:269 , GLU D:271 , ALA D:292 , GLY D:294 , ASP D:295 , THR D:327 , MET D:359 , MN D:532
BINDING SITE FOR RESIDUE PYR D 544
21
CC3
SOFTWARE
LYS E:269 , GLU E:271 , ALA E:292 , GLY E:294 , ASP E:295 , THR E:327 , MET E:359 , MN E:532
BINDING SITE FOR RESIDUE PYR E 545
22
CC4
SOFTWARE
LYS F:269 , GLU F:271 , ALA F:292 , GLY F:294 , ASP F:295 , THR F:327 , MET F:359 , MN F:532
BINDING SITE FOR RESIDUE PYR F 546
23
CC5
SOFTWARE
LYS G:269 , GLU G:271 , ALA G:292 , GLY G:294 , ASP G:295 , THR G:327 , MET G:359 , MN G:532
BINDING SITE FOR RESIDUE PYR G 547
24
CC6
SOFTWARE
LYS H:269 , GLU H:271 , ALA H:292 , GLY H:294 , ASP H:295 , THR H:327 , MET H:359 , MN H:532
BINDING SITE FOR RESIDUE PYR H 548
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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PROSITE Patterns/Profiles
(1, 8)
Info
All PROSITE Patterns/Profiles
1: PYRUVATE_KINASE (A:264-276,B:264-276,C:264-276,D:26...)
;
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.
KPYM_RABIT
265-277
8
A:264-276
B:264-276
C:264-276
D:264-276
E:264-276
F:264-276
G:264-276
H:264-276
[
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]
Exons
(0, 0)
Info
All Exons
View:
Select:
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All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(3, 24)
Info
All SCOP Domains
1a: SCOP_d1f3wa1 (A:116-217)
1b: SCOP_d1f3wb1 (B:116-217)
1c: SCOP_d1f3wc1 (C:116-217)
1d: SCOP_d1f3wd1 (D:116-217)
1e: SCOP_d1f3we1 (E:116-217)
1f: SCOP_d1f3wf1 (F:116-217)
1g: SCOP_d1f3wg1 (G:116-217)
1h: SCOP_d1f3wh1 (H:116-217)
2a: SCOP_d1f3wa3 (A:396-530)
2b: SCOP_d1f3wb3 (B:396-530)
2c: SCOP_d1f3wc3 (C:396-530)
2d: SCOP_d1f3wd3 (D:396-530)
2e: SCOP_d1f3we3 (E:396-530)
2f: SCOP_d1f3wf3 (F:396-530)
2g: SCOP_d1f3wg3 (G:396-530)
2h: SCOP_d1f3wh3 (H:396-530)
3a: SCOP_d1f3wa2 (A:12-115,A:218-395)
3b: SCOP_d1f3wb2 (B:12-115,B:218-395)
3c: SCOP_d1f3wc2 (C:12-115,C:218-395)
3d: SCOP_d1f3wd2 (D:12-115,D:218-395)
3e: SCOP_d1f3we2 (E:12-115,E:218-395)
3f: SCOP_d1f3wf2 (F:12-115,F:218-395)
3g: SCOP_d1f3wg2 (G:12-115,G:218-395)
3h: SCOP_d1f3wh2 (H:12-115,H:218-395)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
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)
Rabbit (Oryctolagus cuniculus) [TaxId: 9986]
(7)
1a
d1f3wa1
A:116-217
1b
d1f3wb1
B:116-217
1c
d1f3wc1
C:116-217
1d
d1f3wd1
D:116-217
1e
d1f3we1
E:116-217
1f
d1f3wf1
F:116-217
1g
d1f3wg1
G:116-217
1h
d1f3wh1
H:116-217
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)
Rabbit (Oryctolagus cuniculus) [TaxId: 9986]
(7)
2a
d1f3wa3
A:396-530
2b
d1f3wb3
B:396-530
2c
d1f3wc3
C:396-530
2d
d1f3wd3
D:396-530
2e
d1f3we3
E:396-530
2f
d1f3wf3
F:396-530
2g
d1f3wg3
G:396-530
2h
d1f3wh3
H:396-530
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
Phosphoenolpyruvate/pyruvate domain
(92)
Family
:
Pyruvate kinase
(28)
Protein domain
:
Pyruvate kinase, N-terminal domain
(28)
Rabbit (Oryctolagus cuniculus) [TaxId: 9986]
(7)
3a
d1f3wa2
A:12-115,A:218-395
3b
d1f3wb2
B:12-115,B:218-395
3c
d1f3wc2
C:12-115,C:218-395
3d
d1f3wd2
D:12-115,D:218-395
3e
d1f3we2
E:12-115,E:218-395
3f
d1f3wf2
F:12-115,F:218-395
3g
d1f3wg2
G:12-115,G:218-395
3h
d1f3wh2
H:12-115,H:218-395
[
close SCOP info
]
CATH Domains
(3, 24)
Info
all CATH domains
1a: CATH_1f3wA01 (A:12-41,A:385-530)
1b: CATH_1f3wB01 (B:12-41,B:385-530)
1c: CATH_1f3wC01 (C:12-41,C:385-530)
1d: CATH_1f3wD01 (D:12-41,D:385-530)
1e: CATH_1f3wE01 (E:12-41,E:385-530)
1f: CATH_1f3wF01 (F:12-41,F:385-530)
1g: CATH_1f3wG01 (G:12-41,G:385-530)
1h: CATH_1f3wH01 (H:12-41,H:385-530)
2a: CATH_1f3wA02 (A:42-115,A:219-384)
2b: CATH_1f3wB02 (B:42-115,B:219-384)
2c: CATH_1f3wC02 (C:42-115,C:219-384)
2d: CATH_1f3wD02 (D:42-115,D:219-384)
2e: CATH_1f3wE02 (E:42-115,E:219-384)
2f: CATH_1f3wF02 (F:42-115,F:219-384)
2g: CATH_1f3wG02 (G:42-115,G:219-384)
2h: CATH_1f3wH02 (H:42-115,H:219-384)
3a: CATH_1f3wA03 (A:116-218)
3b: CATH_1f3wB03 (B:116-218)
3c: CATH_1f3wC03 (C:116-218)
3d: CATH_1f3wD03 (D:116-218)
3e: CATH_1f3wE03 (E:116-218)
3f: CATH_1f3wF03 (F:116-218)
3g: CATH_1f3wG03 (G:116-218)
3h: CATH_1f3wH03 (H:116-218)
View:
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Classes
(
)
(
)
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(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Pyruvate Kinase; Chain: A, domain 1
(36)
Homologous Superfamily
:
[code=3.40.1380.20, no name defined]
(20)
Rabbit (Oryctolagus cuniculus)
(7)
1a
1f3wA01
A:12-41,A:385-530
1b
1f3wB01
B:12-41,B:385-530
1c
1f3wC01
C:12-41,C:385-530
1d
1f3wD01
D:12-41,D:385-530
1e
1f3wE01
E:12-41,E:385-530
1f
1f3wF01
F:12-41,F:385-530
1g
1f3wG01
G:12-41,G:385-530
1h
1f3wH01
H:12-41,H:385-530
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Phosphoenolpyruvate-binding domains
(67)
Rabbit (Oryctolagus cuniculus)
(7)
2a
1f3wA02
A:42-115,A:219-384
2b
1f3wB02
B:42-115,B:219-384
2c
1f3wC02
C:42-115,C:219-384
2d
1f3wD02
D:42-115,D:219-384
2e
1f3wE02
E:42-115,E:219-384
2f
1f3wF02
F:42-115,F:219-384
2g
1f3wG02
G:42-115,G:219-384
2h
1f3wH02
H:42-115,H:219-384
Class
:
Mainly Beta
(13760)
Architecture
:
Beta Barrel
(4804)
Topology
:
M1 Pyruvate Kinase; Domain 3
(24)
Homologous Superfamily
:
M1 Pyruvate Kinase; Domain 3
(20)
Rabbit (Oryctolagus cuniculus)
(7)
3a
1f3wA03
A:116-218
3b
1f3wB03
B:116-218
3c
1f3wC03
C:116-218
3d
1f3wD03
D:116-218
3e
1f3wE03
E:116-218
3f
1f3wF03
F:116-218
3g
1f3wG03
G:116-218
3h
1f3wH03
H:116-218
[
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Pfam Domains
(0, 0)
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