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2IHU
Asym. Unit
Info
Asym.Unit (373 KB)
Biol.Unit 1 (364 KB)
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(1)
Title
:
CARBOXYETHYLARGININE SYNTHASE FROM STREPTOMYCES CLAVULIGERUS: PUTATIVE REACTION INTERMEDIATE COMPLEX
Authors
:
M. E. Caines, C. J. Schofield
Date
:
27 Sep 06 (Deposition) - 27 Nov 07 (Release) - 13 Jul 11 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.05
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Thiamin Diphosphate Complex, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. E. Caines, J. L. Sorensen, C. J. Schofield
Structural And Mechanistic Studies On N(2)-(2-Carboxyethyl)Arginine Synthase.
Biochem. Biophys. Res. Commun. V. 385 512 2009
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Hetero Components
(6, 18)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
2a: POTASSIUM ION (Ka)
2b: POTASSIUM ION (Kb)
2c: POTASSIUM ION (Kc)
2d: POTASSIUM ION (Kd)
2e: POTASSIUM ION (Ke)
2f: POTASSIUM ION (Kf)
3a: MAGNESIUM ION (MGa)
3b: MAGNESIUM ION (MGb)
3c: MAGNESIUM ION (MGc)
3d: MAGNESIUM ION (MGd)
4a: D(-)-TARTARIC ACID (TARa)
4b: D(-)-TARTARIC ACID (TARb)
5a: 5-(2-{[HYDROXY(PHOSPHONOOXY)PHOSPH... (TP8a)
6a: (3Z)-4-{[(4-AMINO-2-METHYLPYRIMIDI... (TP9a)
6b: (3Z)-4-{[(4-AMINO-2-METHYLPYRIMIDI... (TP9b)
6c: (3Z)-4-{[(4-AMINO-2-METHYLPYRIMIDI... (TP9c)
6d: (3Z)-4-{[(4-AMINO-2-METHYLPYRIMIDI... (TP9d)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
1
Ligand/Ion
GLYCEROL
2
K
6
Ligand/Ion
POTASSIUM ION
3
MG
4
Ligand/Ion
MAGNESIUM ION
4
TAR
2
Ligand/Ion
D(-)-TARTARIC ACID
5
TP8
1
Ligand/Ion
5-(2-{[HYDROXY(PHOSPHONOOXY)PHOSPHORYL]OXY}ETHYL)-2-[(1Z)-1-HYDROXY-3-(PHOSPHONOOXY)PROP-1-EN-1-YL]-3-{[(4Z)-4-IMINO-2-METHYL-4,5-DIHYDROPYRIMIDIN-5-YL]METHYL}-4-METHYL-1,3-THIAZOL-3-IUM
6
TP9
4
Ligand/Ion
(3Z)-4-{[(4-AMINO-2-METHYLPYRIMIDIN-5-YL)METHYL]AMINO}-3-MERCAPTOPENT-3-EN-1-YL TRIHYDROGEN DIPHOSPHATE
[
close Hetero Component info
]
Sites
(18, 18)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASP A:463 , ASN A:490 , THR A:492 , TP9 A:600 , HOH A:1755
BINDING SITE FOR RESIDUE MG A 601
02
AC2
SOFTWARE
GLU A:396 , GLU A:397 , ALA A:399
BINDING SITE FOR RESIDUE K A 602
03
AC3
SOFTWARE
ASP B:463 , ASN B:490 , THR B:492 , TP9 B:600 , HOH B:868
BINDING SITE FOR RESIDUE MG B 601
04
AC4
SOFTWARE
GLU B:396 , GLU B:397 , ALA B:399 , HOH B:898
BINDING SITE FOR RESIDUE K B 602
05
AC5
SOFTWARE
ASP C:463 , ASN C:490 , THR C:492 , TP8 C:600 , HOH C:1733
BINDING SITE FOR RESIDUE MG C 601
06
AC6
SOFTWARE
GLU C:396 , GLU C:397 , ALA C:399
BINDING SITE FOR RESIDUE K C 602
07
AC7
SOFTWARE
ASP D:463 , ASN D:490 , THR D:492 , TP9 D:600 , HOH D:827
BINDING SITE FOR RESIDUE MG D 601
08
AC8
SOFTWARE
GLU D:396 , GLU D:397 , ALA D:399
BINDING SITE FOR RESIDUE K D 602
09
AC9
SOFTWARE
HIS A:56 , SER A:468 , HOH A:1536 , HOH A:1751 , HIS B:56 , SER B:468 , HOH B:652 , HOH B:929
BINDING SITE FOR RESIDUE K A 1501
10
BC1
SOFTWARE
HIS C:56 , SER C:468 , HOH C:1537 , HOH C:1723 , HIS D:56 , SER D:468 , HOH D:675 , HOH D:789
BINDING SITE FOR RESIDUE K C 1502
11
BC2
SOFTWARE
ILE A:410 , GLY A:411 , PHE A:412 , PHE A:413 , SER A:436 , SER A:437 , PHE A:438 , GLY A:462 , ASP A:463 , GLY A:464 , GLY A:465 , ASN A:490 , THR A:492 , ASN A:493 , GLY A:494 , LEU A:495 , TYR A:561 , MG A:601 , TAR A:603 , HOH A:1750 , HOH A:1755 , VAL B:34 , GLY B:35 , GLU B:57 , THR B:80 , PRO B:83 , ASN B:87
BINDING SITE FOR RESIDUE TP9 A 600
12
BC3
SOFTWARE
GLY A:35 , GLU A:57 , THR A:80 , PRO A:83 , ASN A:87 , ILE B:410 , GLY B:411 , PHE B:412 , PHE B:413 , SER B:436 , SER B:437 , PHE B:438 , GLY B:462 , ASP B:463 , GLY B:464 , GLY B:465 , ASN B:490 , THR B:492 , ASN B:493 , GLY B:494 , LEU B:495 , TYR B:561 , MG B:601 , HOH B:864 , HOH B:868
BINDING SITE FOR RESIDUE TP9 B 600
13
BC4
SOFTWARE
ILE C:410 , GLY C:411 , PHE C:412 , PHE C:413 , SER C:436 , SER C:437 , PHE C:438 , GLY C:462 , ASP C:463 , GLY C:464 , GLY C:465 , ASN C:490 , THR C:492 , ASN C:493 , GLY C:494 , LEU C:495 , ILE C:496 , TYR C:499 , TYR C:561 , TP8 C:600 , MG C:601 , HOH C:1676 , HOH C:1687 , HOH C:1733 , HOH C:1794 , GLY D:35 , GLU D:57 , THR D:80 , PRO D:83 , ASN D:87 , HIS D:120 , GLN D:121
BINDING SITE FOR RESIDUE TP8 C 600
14
BC5
SOFTWARE
ILE C:410 , GLY C:411 , PHE C:412 , PHE C:413 , SER C:436 , SER C:437 , PHE C:438 , GLY C:462 , ASP C:463 , GLY C:464 , GLY C:465 , ASN C:490 , THR C:492 , ASN C:493 , GLY C:494 , LEU C:495 , ILE C:496 , TYR C:499 , TYR C:561 , TP8 C:600 , MG C:601 , HOH C:1676 , HOH C:1687 , HOH C:1733 , HOH C:1794 , GLY D:35 , GLU D:57 , THR D:80 , PRO D:83 , ASN D:87 , HIS D:120 , GLN D:121
BINDING SITE FOR RESIDUE TP8 C 600
15
BC6
SOFTWARE
VAL C:34 , GLY C:35 , GLU C:57 , THR C:80 , PRO C:83 , ASN C:87 , ILE D:410 , GLY D:411 , PHE D:412 , PHE D:413 , SER D:436 , SER D:437 , PHE D:438 , GLY D:462 , ASP D:463 , GLY D:464 , GLY D:465 , ASN D:490 , THR D:492 , ASN D:493 , GLY D:494 , LEU D:495 , TYR D:561 , MG D:601 , TAR D:603 , HOH D:825 , HOH D:827
BINDING SITE FOR RESIDUE TP9 D 600
16
BC7
SOFTWARE
TYR A:271 , ILE A:410 , ARG A:414 , HIS A:415 , LEU A:495 , TP9 A:600 , HOH A:1581 , HOH A:1614 , HOH A:1615 , HIS B:120 , GLN B:121
BINDING SITE FOR RESIDUE TAR A 603
17
BC8
SOFTWARE
HIS C:120 , GLN C:121 , TYR D:271 , ILE D:410 , ARG D:414 , HIS D:415 , SER D:436 , LEU D:495 , TP9 D:600 , HOH D:869
BINDING SITE FOR RESIDUE TAR D 603
18
BC9
SOFTWARE
ARG B:367 , GLU B:370 , PHE B:371 , ASP B:374
BINDING SITE FOR RESIDUE GOL B 603
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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: TPP_ENZYMES (A:446-465,B:446-465,C:446-465,D:44...)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
TPP_ENZYMES
PS00187
Thiamine pyrophosphate enzymes signature.
CEAS_STRCL
446-465
4
A:446-465
B:446-465
C:446-465
D:446-465
[
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Exons
(0, 0)
Info
All Exons
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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, 12)
Info
All SCOP Domains
1a: SCOP_d2ihua1 (A:198-374)
1b: SCOP_d2ihub2 (B:198-374)
1c: SCOP_d2ihuc2 (C:198-374)
1d: SCOP_d2ihud2 (D:198-374)
2a: SCOP_d2ihua3 (A:375-572)
2b: SCOP_d2ihub3 (B:375-562)
2c: SCOP_d2ihuc3 (C:375-561)
2d: SCOP_d2ihud3 (D:375-561)
3a: SCOP_d2ihua2 (A:11-197)
3b: SCOP_d2ihub1 (B:11-197)
3c: SCOP_d2ihuc1 (C:11-197)
3d: SCOP_d2ihud1 (D:11-197)
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Classes
(
)
(
)
Folds
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)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
DHS-like NAD/FAD-binding domain
(176)
Superfamily
:
DHS-like NAD/FAD-binding domain
(176)
Family
:
Pyruvate oxidase and decarboxylase, middle domain
(74)
Protein domain
:
Carboxyethylarginine synthase
(6)
Streptomyces clavuligerus [TaxId: 1901]
(6)
1a
d2ihua1
A:198-374
1b
d2ihub2
B:198-374
1c
d2ihuc2
C:198-374
1d
d2ihud2
D:198-374
Fold
:
Thiamin diphosphate-binding fold (THDP-binding)
(289)
Superfamily
:
Thiamin diphosphate-binding fold (THDP-binding)
(289)
Family
:
Pyruvate oxidase and decarboxylase PP module
(43)
Protein domain
:
Carboxyethylarginine synthase
(6)
Streptomyces clavuligerus [TaxId: 1901]
(6)
2a
d2ihua3
A:375-572
2b
d2ihub3
B:375-562
2c
d2ihuc3
C:375-561
2d
d2ihud3
D:375-561
Family
:
Pyruvate oxidase and decarboxylase Pyr module
(43)
Protein domain
:
Carboxyethylarginine synthase
(6)
Streptomyces clavuligerus [TaxId: 1901]
(6)
3a
d2ihua2
A:11-197
3b
d2ihub1
B:11-197
3c
d2ihuc1
C:11-197
3d
d2ihud1
D:11-197
[
close SCOP info
]
CATH Domains
(2, 12)
Info
all CATH domains
1a: CATH_2ihuA03 (A:360-572)
1b: CATH_2ihuA01 (A:11-195)
1c: CATH_2ihuB01 (B:11-195)
1d: CATH_2ihuC01 (C:11-195)
1e: CATH_2ihuD01 (D:11-195)
1f: CATH_2ihuB03 (B:360-562)
1g: CATH_2ihuC03 (C:360-561)
1h: CATH_2ihuD03 (D:360-561)
2a: CATH_2ihuA02 (A:196-359)
2b: CATH_2ihuB02 (B:196-359)
2c: CATH_2ihuC02 (C:196-359)
2d: CATH_2ihuD02 (D:196-359)
View:
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Classes
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)
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)
Architectures
(
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(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.970, no name defined]
(144)
Streptomyces clavuligerus. Organism_taxid: 1901.
(3)
1a
2ihuA03
A:360-572
1b
2ihuA01
A:11-195
1c
2ihuB01
B:11-195
1d
2ihuC01
C:11-195
1e
2ihuD01
D:11-195
1f
2ihuB03
B:360-562
1g
2ihuC03
C:360-561
1h
2ihuD03
D:360-561
Homologous Superfamily
:
TPP-binding domain
(120)
Streptomyces clavuligerus. Organism_taxid: 1901.
(3)
2a
2ihuA02
A:196-359
2b
2ihuB02
B:196-359
2c
2ihuC02
C:196-359
2d
2ihuD02
D:196-359
[
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]
Pfam Domains
(0, 0)
Info
all PFAM domains
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Sorry, no Info available
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