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1KYX
Asym. Unit
Info
Asym.Unit (126 KB)
Biol.Unit 1 (120 KB)
Biol.Unit 2 (237 KB)
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(1)
Title
:
LUMAZINE SYNTHASE FROM S.POMBE BOUND TO CARBOXYETHYLLUMAZINE
Authors
:
S. Gerhardt, I. Haase, S. Steinbacher, J. T. Kaiser, M. Cushman, A. Bach R. Huber, M. Fischer
Date
:
06 Feb 02 (Deposition) - 24 Jul 02 (Release) - 23 Jan 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.60
Chains
:
Asym. Unit : A,B,C,D,E
Biol. Unit 1: A,B,C,D,E (1x)
Biol. Unit 2: A,B,C,D,E (2x)
Keywords
:
Riboflavin Biosynthesis, Lumazine Synthase, Schizosaccharomyces Pombe, Ligand Binding, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
S. Gerhardt, I. Haase, S. Steinbacher, J. T. Kaiser, M. Cushman, A. Bacher, R. Huber, M. Fischer
The Structural Basis Of Riboflavin Binding To Schizosaccharomyces Pombe 6, 7-Dimethyl-8-Ribityllumazine Synthase.
J. Mol. Biol. V. 318 1317 2002
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Hetero Components
(2, 10)
Info
All Hetero Components
1a: 3-[8-((2S,3S,4R)-2,3,4,5-TETRAHYDR... (CRMa)
1b: 3-[8-((2S,3S,4R)-2,3,4,5-TETRAHYDR... (CRMb)
1c: 3-[8-((2S,3S,4R)-2,3,4,5-TETRAHYDR... (CRMc)
1d: 3-[8-((2S,3S,4R)-2,3,4,5-TETRAHYDR... (CRMd)
1e: 3-[8-((2S,3S,4R)-2,3,4,5-TETRAHYDR... (CRMe)
2a: PHOSPHATE ION (PO4a)
2b: PHOSPHATE ION (PO4b)
2c: PHOSPHATE ION (PO4c)
2d: PHOSPHATE ION (PO4d)
2e: PHOSPHATE ION (PO4e)
View:
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Label:
No.
Name
Count
Type
Full Name
1
CRM
5
Ligand/Ion
3-[8-((2S,3S,4R)-2,3,4,5-TETRAHYDROXYPENTYL)-2,4,7-TRIOXO-1,3,8-TRIHYDROPTERIDIN-6-YL]PROPANOIC ACID
2
PO4
5
Ligand/Ion
PHOSPHATE ION
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Sites
(10, 10)
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)
View:
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No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
SER A:91 , THR A:92 , CRM A:501 , HOH A:1009 , HOH A:1010 , ARG E:133
BINDING SITE FOR RESIDUE PO4 A 1001
02
AC2
SOFTWARE
ARG A:133 , HOH A:1006 , HOH A:1013 , SER B:91 , THR B:92 , CRM B:502
BINDING SITE FOR RESIDUE PO4 A 1002
03
AC3
SOFTWARE
ARG B:133 , GLY C:90 , SER C:91 , THR C:92 , CRM C:503 , HOH C:1004 , HOH C:1007
BINDING SITE FOR RESIDUE PO4 C 1003
04
AC4
SOFTWARE
ARG C:133 , SER D:91 , THR D:92 , CRM D:504 , HOH D:1005 , HOH D:1006
BINDING SITE FOR RESIDUE PO4 D 1004
05
AC5
SOFTWARE
ARG D:133 , SER E:91 , THR E:92 , CRM E:505 , HOH E:1006
BINDING SITE FOR RESIDUE PO4 E 1005
06
AC6
SOFTWARE
TRP A:27 , ASN A:28 , GLY A:61 , SER A:62 , TRP A:63 , GLU A:64 , VAL A:86 , LEU A:87 , ILE A:88 , HIS A:94 , ILE A:98 , PO4 A:1001 , HOH A:1003 , HOH A:1011 , ILE E:118 , LEU E:119 , TRP E:146
BINDING SITE FOR RESIDUE CRM A 501
07
AC7
SOFTWARE
ILE A:118 , LEU A:119 , PO4 A:1002 , TRP B:27 , GLY B:61 , SER B:62 , TRP B:63 , GLU B:64 , VAL B:86 , LEU B:87 , ILE B:88 , HIS B:94 , PHE B:95 , ILE B:98 , HOH B:503
BINDING SITE FOR RESIDUE CRM B 502
08
AC8
SOFTWARE
ILE B:118 , LEU B:119 , TRP B:146 , TRP C:27 , ASN C:28 , GLY C:61 , SER C:62 , TRP C:63 , GLU C:64 , VAL C:86 , LEU C:87 , ILE C:88 , HIS C:94 , ILE C:98 , PO4 C:1003 , HOH C:1006
BINDING SITE FOR RESIDUE CRM C 503
09
AC9
SOFTWARE
ILE C:118 , LEU C:119 , TRP C:146 , TRP D:27 , ASN D:28 , GLY D:61 , SER D:62 , TRP D:63 , GLU D:64 , VAL D:86 , LEU D:87 , ILE D:88 , HIS D:94 , ILE D:98 , PO4 D:1004 , HOH D:1005 , HOH D:1007
BINDING SITE FOR RESIDUE CRM D 504
10
BC1
SOFTWARE
ILE D:118 , LEU D:119 , TRP D:146 , HOH D:1011 , TRP E:27 , ASN E:28 , GLY E:61 , SER E:62 , TRP E:63 , GLU E:64 , VAL E:86 , LEU E:87 , ILE E:88 , HIS E:94 , ILE E:98 , PO4 E:1005 , HOH E:1009
BINDING SITE FOR RESIDUE CRM E 505
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
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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, 5)
Info
All SCOP Domains
1a: SCOP_d1kyxa_ (A:)
1b: SCOP_d1kyxb_ (B:)
1c: SCOP_d1kyxc_ (C:)
1d: SCOP_d1kyxd_ (D:)
1e: SCOP_d1kyxe_ (E:)
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(
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Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
Lumazine synthase
(27)
Superfamily
:
Lumazine synthase
(27)
Family
:
Lumazine synthase
(26)
Protein domain
:
Lumazine synthase
(19)
Fission yeast (Schizosaccharomyces pombe) [TaxId: 4896]
(7)
1a
d1kyxa_
A:
1b
d1kyxb_
B:
1c
d1kyxc_
C:
1d
d1kyxd_
D:
1e
d1kyxe_
E:
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CATH Domains
(1, 5)
Info
all CATH domains
1a: CATH_1kyxE00 (E:7-158)
1b: CATH_1kyxC00 (C:11-159)
1c: CATH_1kyxA00 (A:12-158)
1d: CATH_1kyxB00 (B:12-158)
1e: CATH_1kyxD00 (D:12-158)
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)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
[code=3.40.50.960, no name defined]
(36)
Fission yeast (Schizosaccharomyces pombe)
(10)
1a
1kyxE00
E:7-158
1b
1kyxC00
C:11-159
1c
1kyxA00
A:12-158
1d
1kyxB00
B:12-158
1e
1kyxD00
D:12-158
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Pfam Domains
(1, 5)
Info
all PFAM domains
1a: PFAM_DMRL_synthase_1kyxE01 (E:15-157)
1b: PFAM_DMRL_synthase_1kyxE02 (E:15-157)
1c: PFAM_DMRL_synthase_1kyxE03 (E:15-157)
1d: PFAM_DMRL_synthase_1kyxE04 (E:15-157)
1e: PFAM_DMRL_synthase_1kyxE05 (E:15-157)
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(
)
Clan
:
no clan defined [family: DMRL_synthase]
(19)
Family
:
DMRL_synthase
(19)
Schizosaccharomyces pombe (strain ATCC 38366 / 972) (Fission yeast)
(7)
1a
DMRL_synthase-1kyxE01
E:15-157
1b
DMRL_synthase-1kyxE02
E:15-157
1c
DMRL_synthase-1kyxE03
E:15-157
1d
DMRL_synthase-1kyxE04
E:15-157
1e
DMRL_synthase-1kyxE05
E:15-157
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Asymmetric Unit 1
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Asym.Unit (126 KB)
Header - Asym.Unit
Biol.Unit 1 (120 KB)
Header - Biol.Unit 1
Biol.Unit 2 (237 KB)
Header - Biol.Unit 2
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