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1LS3
Asym. Unit
Info
Asym.Unit (280 KB)
Biol.Unit 1 (272 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF THE COMPLEX BETWEEN RABBIT CYTOSOLIC SERINE HYDROXYMETHYLTRANSFERASE AND TRIGLU-5-FORMYL-TETRAHYDROFOLATE
Authors
:
T. F. Fu, J. N. Scarsdale, G. Kazanina, V. Schirch, H. T. Wright
Date
:
16 May 02 (Deposition) - 04 Feb 03 (Release) - 21 Aug 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.70
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Asymmetric Tetramer, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
T. F. Fu, J. N. Scarsdale, G. Kazanina, V. Schirch, H. T. Wright
Location Of The Pteroylpolyglutamate Binding Site On Rabbit Cytosolic Serine Hydroxymethyltransferase
J. Biol. Chem. V. 278 2645 2003
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Hetero Components
(4, 12)
Info
All Hetero Components
1a: GLYCINE (GLYa)
1b: GLYCINE (GLYb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
3a: PYRIDOXAL-5'-PHOSPHATE (PLPa)
3b: PYRIDOXAL-5'-PHOSPHATE (PLPb)
3c: PYRIDOXAL-5'-PHOSPHATE (PLPc)
3d: PYRIDOXAL-5'-PHOSPHATE (PLPd)
4a: 2-[4-(4-{4-[(2-AMINO-5-FORMYL-4-OX... (TGFa)
4b: 2-[4-(4-{4-[(2-AMINO-5-FORMYL-4-OX... (TGFb)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GLY
2
Mod. Amino Acid
GLYCINE
2
GOL
4
Ligand/Ion
GLYCEROL
3
PLP
4
Ligand/Ion
PYRIDOXAL-5'-PHOSPHATE
4
TGF
2
Ligand/Ion
2-[4-(4-{4-[(2-AMINO-5-FORMYL-4-OXO-3,4,5,6,7,8-HEXAHYDRO-PTERIDIN-6-YLMETHYL)-AMINO]-BENZOYLAMINO}-4-CARBOXY-BUTYRYLAMINO)-4-CARBOXY-BUTYRYLAMINO]-PENTANEDIOIC ACID
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Sites
(12, 12)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:97 , GLY A:98 , SER A:99 , HIS A:126 , THR A:174 , SER A:175 , ASP A:200 , ALA A:202 , HIS A:203 , THR A:226 , HIS A:228 , LYS A:229 , GLY A:420B , HOH A:506 , HOH A:515 , TYR B:55 , GLY B:262 , GLY B:263
BINDING SITE FOR RESIDUE PLP A 419A
02
AC2
SOFTWARE
SER A:35 , HIS A:126 , SER A:175 , LYS A:229 , ARG A:363 , PLP A:419A , HOH A:515 , TYR B:65
BINDING SITE FOR RESIDUE GLY A 420B
03
AC3
SOFTWARE
SER C:97 , GLY C:98 , SER C:99 , HIS C:126 , THR C:174 , SER C:175 , ASP C:200 , ALA C:202 , HIS C:203 , THR C:226 , HIS C:228 , LYS C:229 , GLY C:420B , TYR D:55 , GLY D:262 , GLY D:263
BINDING SITE FOR RESIDUE PLP C 419A
04
AC4
SOFTWARE
SER C:35 , SER C:175 , HIS C:203 , LYS C:229 , ARG C:363 , PLP C:419A , TYR D:65
BINDING SITE FOR RESIDUE GLY C 420B
05
AC5
SOFTWARE
TYR A:55 , GLY A:262 , GLY A:263 , SER B:97 , GLY B:98 , SER B:99 , HIS B:126 , THR B:174 , SER B:175 , ASP B:200 , ALA B:202 , HIS B:203 , THR B:226 , HIS B:228 , LYS B:229
BINDING SITE FOR RESIDUE PLP B 419A
06
AC6
SOFTWARE
GLU A:57 , TYR A:64 , TYR A:65 , PHE A:257 , LEU B:121 , GLY B:124 , GLY B:125 , HIS B:126 , LEU B:127 , LYS B:134A , SER B:175 , ASN B:345 , LEU B:357 , HOH B:739
BINDING SITE FOR RESIDUE TGF B 420C
07
AC7
SOFTWARE
TYR C:55 , GLY C:262 , GLY C:263 , SER D:97 , GLY D:98 , SER D:99 , HIS D:126 , THR D:174 , SER D:175 , ASP D:200 , ALA D:202 , HIS D:203 , THR D:226 , HIS D:228 , LYS D:229
BINDING SITE FOR RESIDUE PLP D 419A
08
AC8
SOFTWARE
GLU C:57 , TYR C:64 , TYR C:65 , GLY D:124 , GLY D:125 , HIS D:126 , LEU D:127 , LYS D:134A , SER D:175 , CYS D:176 , GLY D:331 , ASN D:345 , LYS D:346 , ASN D:347 , ALA D:356 , LEU D:357 , PRO D:359 , HOH D:740
BINDING SITE FOR RESIDUE TGF D 420F
09
AC9
SOFTWARE
ASP D:182
BINDING SITE FOR RESIDUE GOL D 421
10
BC1
SOFTWARE
PHE B:418J , ASP C:156 , HOH C:679
BINDING SITE FOR RESIDUE GOL C 421
11
BC2
SOFTWARE
LEU B:181 , ASP B:182
BINDING SITE FOR RESIDUE GOL B 421
12
BC3
SOFTWARE
SER A:49 , ILE B:19 , PRO B:418H , PHE B:418J
BINDING SITE FOR RESIDUE GOL B 422
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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: SHMT (A:221-237,B:221-237,C:221-237,D:22...)
;
View:
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End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
SHMT
PS00096
Serine hydroxymethyltransferase pyridoxal-phosphate attachment site.
GLYC_RABIT
249-265
4
A:221-237
B:221-237
C:221-237
D:221-237
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Exons
(0, 0)
Info
All Exons
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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_d1ls3a_ (A:)
1b: SCOP_d1ls3b_ (B:)
1c: SCOP_d1ls3c_ (C:)
1d: SCOP_d1ls3d_ (D:)
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Protein Domains
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(
)
Organisms
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(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
PLP-dependent transferase-like
(627)
Superfamily
:
PLP-dependent transferases
(625)
Family
:
GABA-aminotransferase-like
(167)
Protein domain
:
Serine hydroxymethyltransferase
(50)
Rabbit (Oryctolagus cuniculus) [TaxId: 9986]
(6)
1a
d1ls3a_
A:
1b
d1ls3b_
B:
1c
d1ls3c_
C:
1d
d1ls3d_
D:
[
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CATH Domains
(2, 8)
Info
all CATH domains
1a: CATH_1ls3D02 (D:37-289)
1b: CATH_1ls3B02 (B:37-289)
1c: CATH_1ls3C02 (C:37-289)
1d: CATH_1ls3A02 (A:37-289)
2a: CATH_1ls3B01 (B:12-36,B:290-418)
2b: CATH_1ls3A01 (A:12-36,A:290-418)
2c: CATH_1ls3C01 (C:12-36,C:290-418)
2d: CATH_1ls3D01 (D:12-36,D:290-418)
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(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Aspartate Aminotransferase; domain 2
(384)
Homologous Superfamily
:
Type I PLP-dependent aspartate aminotransferase-like (Major domain)
(384)
Rabbit (Oryctolagus cuniculus)
(6)
1a
1ls3D02
D:37-289
1b
1ls3B02
B:37-289
1c
1ls3C02
C:37-289
1d
1ls3A02
A:37-289
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
Aspartate Aminotransferase, domain 1
(355)
Homologous Superfamily
:
Aspartate Aminotransferase, domain 1
(354)
Rabbit (Oryctolagus cuniculus)
(6)
2a
1ls3B01
B:12-36,B:290-418
2b
1ls3A01
A:12-36,A:290-418
2c
1ls3C01
C:12-36,C:290-418
2d
1ls3D01
D:12-36,D:290-418
[
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Pfam Domains
(1, 4)
Info
all PFAM domains
1a: PFAM_SHMT_1ls3D01 (D:6-386)
1b: PFAM_SHMT_1ls3D02 (D:6-386)
1c: PFAM_SHMT_1ls3D03 (D:6-386)
1d: PFAM_SHMT_1ls3D04 (D:6-386)
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Clan
:
PLP_aminotran
(240)
Family
:
SHMT
(45)
Oryctolagus cuniculus (Rabbit)
(4)
1a
SHMT-1ls3D01
D:6-386
1b
SHMT-1ls3D02
D:6-386
1c
SHMT-1ls3D03
D:6-386
1d
SHMT-1ls3D04
D:6-386
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Asymmetric Unit 1
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