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1JQ3
Asym. Unit
Info
Asym.Unit (212 KB)
Biol.Unit 1 (208 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF SPERMIDINE SYNTHASE IN COMPLEX WITH TRANSITION STATE ANALOGUE ADODATO
Authors
:
S. Korolev, Y. Ikeguchi, T. Skarina, S. Beasley, A. Edwards, A. Joachimiak, A. E. Pegg, A. Savchenko, Midwest Center For Structural Genomics (Mcsg)
Date
:
03 Aug 01 (Deposition) - 21 Nov 01 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.80
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Aminopropyltransferase, Homo-Tetramer, Thermophyle, Transition-State Analogue, Beta-Barrel, Structural Genomics, Psi, Protein Structure Initiative, Midwest Center For Structural Genomics, Mcsg
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
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)
Reference
:
S. Korolev, Y. Ikeguchi, T. Skarina, S. Beasley, C. Arrowsmith, A. Edwards, A. Joachimiak, A. E. Pegg, A. Savchenko
The Crystal Structure Of Spermidine Synthase With A Multisubstrate Adduct Inhibitor.
Nat. Struct. Biol. V. 9 27 2002
(for further references see the
PDB file header
)
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Hetero Components
(1, 3)
Info
All Hetero Components
1a: S-ADENOSYL-1,8-DIAMINO-3-THIOOCTAN... (AATa)
1b: S-ADENOSYL-1,8-DIAMINO-3-THIOOCTAN... (AATb)
1c: S-ADENOSYL-1,8-DIAMINO-3-THIOOCTAN... (AATc)
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Label:
No.
Name
Count
Type
Full Name
1
AAT
3
Ligand/Ion
S-ADENOSYL-1,8-DIAMINO-3-THIOOCTANE
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Sites
(3, 3)
Info
All Sites
1: AC1 (SOFTWARE)
2: AC2 (SOFTWARE)
3: AC3 (SOFTWARE)
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Label:
No.
Name
Evidence
Residues
Description
1
AC1
SOFTWARE
GLN A:46 , LEU A:62 , THR A:66 , MET A:67 , TYR A:76 , HIS A:77 , GLY A:98 , GLY A:99 , ASP A:101 , CYS A:120 , GLU A:121 , VAL A:122 , VAL A:126 , ASN A:152 , GLY A:153 , ASP A:170 , SER A:171 , THR A:172 , ASP A:173 , GLN A:178 , GLY A:179 , TYR A:239 , TRP A:244 , HOH A:802 , HOH A:899 , HOH A:906
BINDING SITE FOR RESIDUE AAT A 800
2
AC2
SOFTWARE
GLN C:46 , LEU C:62 , THR C:66 , MET C:67 , THR C:68 , TYR C:76 , HIS C:77 , GLY C:98 , GLY C:99 , GLY C:100 , ASP C:101 , CYS C:120 , GLU C:121 , VAL C:122 , VAL C:126 , ALA C:151 , GLY C:153 , ASP C:170 , SER C:171 , THR C:172 , ASP C:173 , LEU C:182 , TYR C:239 , TRP C:244 , HOH C:803 , HOH C:888
BINDING SITE FOR RESIDUE AAT C 801
3
AC3
SOFTWARE
GLN D:46 , LEU D:62 , MET D:67 , TYR D:76 , HIS D:77 , GLY D:98 , GLY D:99 , ASP D:101 , CYS D:120 , GLU D:121 , VAL D:122 , VAL D:126 , ASN D:152 , GLY D:153 , ASP D:170 , SER D:171 , THR D:172 , ASP D:173 , GLY D:177 , GLN D:178 , GLY D:179 , TYR D:239 , TRP D:244 , HOH D:803 , HOH D:885
BINDING SITE FOR RESIDUE AAT D 802
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SAPs(SNPs)/Variants
(0, 0)
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(mutated residues are not available)
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PROSITE Patterns/Profiles
(2, 8)
Info
All PROSITE Patterns/Profiles
1: PABS_2 (A:16-251,B:16-251,C:16-251,D:16-25...)
2: PABS_1 (A:94-107,B:94-107,C:94-107,D:94-10...)
;
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PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
PABS_2
PS51006
Polyamine biosynthesis (PABS) domain profile.
SPEE_THEMA
16-251
4
A:16-251
B:16-251
C:16-251
D:16-251
2
PABS_1
PS01330
Polyamine biosynthesis (PABS) domain signature.
SPEE_THEMA
94-107
4
A:94-107
B:94-107
C:94-107
D:94-107
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Exons
(0, 0)
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 4)
Info
All SCOP Domains
1a: SCOP_d1jq3a_ (A:)
1b: SCOP_d1jq3b_ (B:)
1c: SCOP_d1jq3c_ (C:)
1d: SCOP_d1jq3d_ (D:)
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Protein Domains
(
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(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
S-adenosyl-L-methionine-dependent methyltransferases
(533)
Superfamily
:
S-adenosyl-L-methionine-dependent methyltransferases
(533)
Family
:
Spermidine synthase
(17)
Protein domain
:
Spermidine synthase
(11)
Thermotoga maritima [TaxId: 2336]
(2)
1a
d1jq3a_
A:
1b
d1jq3b_
B:
1c
d1jq3c_
C:
1d
d1jq3d_
D:
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1jq3B01 (B:68-296)
1b: CATH_1jq3A01 (A:68-296)
1c: CATH_1jq3C01 (C:68-252)
1d: CATH_1jq3D01 (D:68-252)
2a: CATH_1jq3A02 (A:4-67)
2b: CATH_1jq3C02 (C:4-67)
2c: CATH_1jq3D02 (D:4-67)
2d: CATH_1jq3B02 (B:2-67)
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Homologous Superfamilies
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(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
Vaccinia Virus protein VP39
(378)
Thermotoga maritima. Organism_taxid: 2336.
(4)
1a
1jq3B01
B:68-296
1b
1jq3A01
A:68-296
1c
1jq3C01
C:68-252
1d
1jq3D01
D:68-252
Class
:
Mainly Beta
(13760)
Architecture
:
Roll
(1513)
Topology
:
Spermidine Synthase; Chain: A, domain 2
(12)
Homologous Superfamily
:
[code=2.30.140.10, no name defined]
(9)
Thermotoga maritima. Organism_taxid: 2336.
(2)
2a
1jq3A02
A:4-67
2b
1jq3C02
C:4-67
2c
1jq3D02
D:4-67
2d
1jq3B02
B:2-67
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Asymmetric Unit 1
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Asym.Unit (212 KB)
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