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4KQ6
Biol. Unit 1
Info
Asym.Unit (276 KB)
Biol.Unit 1 (139 KB)
Biol.Unit 2 (134 KB)
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(1)
Title
:
PRODUCT COMPLEX OF LUMAZINE SYNTHASE FROM CANDIDA GLABRATA
Authors
:
M. Shankar, S. M. Wilbanks, Y. Nakatani, B. C. Monk, J. D. A. Tyndall
Date
:
14 May 13 (Deposition) - 29 May 13 (Release) - 28 Aug 13 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.24
Chains
:
Asym. Unit : A,B,C,D,E,F,G,H,I,J
Biol. Unit 1: A,B,C,D,E (1x)
Biol. Unit 2: F,G,H,I,J (1x)
Keywords
:
Lumazine Synthase, Riboflavin Biosynthesis, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Shankar, S. M. Wilbanks, Y. Nakatani, B. C. Monk, J. D. Tyndall
Catalysis Product Captured In Lumazine Synthase From The Fungal Pathogen Candida Glabrata.
Acta Crystallogr. , Sect. D V. 69 1580 2013
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Hetero Components
(3, 14)
Info
All Hetero Components
1a: 1-DEOXY-1-(6,7-DIMETHYL-2,4-DIOXO-... (DLZa)
1b: 1-DEOXY-1-(6,7-DIMETHYL-2,4-DIOXO-... (DLZb)
2a: GLYCEROL (GOLa)
2b: GLYCEROL (GOLb)
2c: GLYCEROL (GOLc)
2d: GLYCEROL (GOLd)
2e: GLYCEROL (GOLe)
3a: SULFATE ION (SO4a)
3b: SULFATE ION (SO4b)
3c: SULFATE ION (SO4c)
3d: SULFATE ION (SO4d)
3e: SULFATE ION (SO4e)
3f: SULFATE ION (SO4f)
3g: SULFATE ION (SO4g)
3h: SULFATE ION (SO4h)
3i: SULFATE ION (SO4i)
3j: SULFATE ION (SO4j)
3k: SULFATE ION (SO4k)
3l: SULFATE ION (SO4l)
3m: SULFATE ION (SO4m)
3n: SULFATE ION (SO4n)
3o: SULFATE ION (SO4o)
3p: SULFATE ION (SO4p)
3q: SULFATE ION (SO4q)
3r: SULFATE ION (SO4r)
3s: SULFATE ION (SO4s)
3t: SULFATE ION (SO4t)
3u: SULFATE ION (SO4u)
3v: SULFATE ION (SO4v)
3w: SULFATE ION (SO4w)
3x: SULFATE ION (SO4x)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
DLZ
1
Ligand/Ion
1-DEOXY-1-(6,7-DIMETHYL-2,4-DIOXO-3,4-DIHYDROPTERIDIN-8(2H)-YL)-D-RIBITOL
2
GOL
2
Ligand/Ion
GLYCEROL
3
SO4
11
Ligand/Ion
SULFATE ION
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Sites
(14, 14)
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)
View:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TRP A:27 , ASN A:28 , ARG A:29 , HOH A:398
BINDING SITE FOR RESIDUE SO4 A 201
02
AC2
SOFTWARE
GLY A:94 , SER A:95 , THR A:96 , HOH A:322 , HOH A:326 , ARG B:137
BINDING SITE FOR RESIDUE SO4 A 202
03
AC3
SOFTWARE
TRP B:27 , ASN B:28 , ARG B:29 , HOH B:303
BINDING SITE FOR RESIDUE SO4 B 201
04
AC4
SOFTWARE
SER B:95 , THR B:96 , HOH B:324 , HOH B:355 , HOH B:378 , HOH B:410 , ARG C:137
BINDING SITE FOR RESIDUE SO4 B 202
05
AC5
SOFTWARE
MET C:146 , HIS C:147
BINDING SITE FOR RESIDUE SO4 C 201
06
AC6
SOFTWARE
GLY C:94 , SER C:95 , THR C:96 , DLZ C:204 , HOH C:332 , HOH C:370 , HOH C:387 , HOH C:388 , ARG D:137 , HOH E:341
BINDING SITE FOR RESIDUE SO4 C 202
07
AC7
SOFTWARE
ARG C:26 , ARG C:29 , THR C:57 , HOH C:334 , HOH C:383 , GLY D:7 , GLN D:8 , LEU D:9 , ASP D:10
BINDING SITE FOR RESIDUE SO4 C 203
08
AC8
SOFTWARE
ALA C:25 , TRP C:27 , GLY C:60 , SER C:61 , PHE C:62 , GLU C:63 , VAL C:90 , LEU C:91 , ILE C:92 , HIS C:98 , SO4 C:202 , HOH C:313 , ILE D:122 , PHE D:123
BINDING SITE FOR RESIDUE DLZ C 204
09
AC9
SOFTWARE
TRP D:27 , ASN D:28 , ARG D:29
BINDING SITE FOR RESIDUE SO4 D 201
10
BC1
SOFTWARE
SER D:95 , THR D:96 , HOH D:370 , HOH D:403 , ARG E:137
BINDING SITE FOR RESIDUE SO4 D 202
11
BC2
SOFTWARE
GLU D:63 , HIS D:98 , HOH D:372 , HOH D:392 , ILE E:122 , PHE E:123
BINDING SITE FOR RESIDUE GOL D 203
12
BC3
SOFTWARE
ARG A:137 , SER E:95 , THR E:96 , HOH E:323 , HOH E:352 , HOH E:371 , HOH E:404
BINDING SITE FOR RESIDUE SO4 E 201
13
BC4
SOFTWARE
TRP E:27 , ASN E:28 , ARG E:29 , HOH E:394
BINDING SITE FOR RESIDUE SO4 E 202
14
BC5
SOFTWARE
ILE A:122 , PHE A:123 , GLY E:60 , GLU E:63 , HOH E:316 , HOH E:372
BINDING SITE FOR RESIDUE GOL E 203
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are only available for the asymmetric unit)
All SNPs/Variants
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PROSITE Patterns/Profiles
(, 0)
Info
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;
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Sorry, no Info available
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Exons
(0, 0)
Info
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Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
(no "Exon" information available for biological units yet)
SCOP Domains
(1, 10)
Info
All SCOP Domains
1a: SCOP_d4kq6a_ (A:)
1b: SCOP_d4kq6b_ (B:)
1c: SCOP_d4kq6c_ (C:)
1d: SCOP_d4kq6d_ (D:)
1e: SCOP_d4kq6e_ (E:)
1f: SCOP_d4kq6f_ (F:)
1g: SCOP_d4kq6g_ (G:)
1h: SCOP_d4kq6h_ (H:)
1i: SCOP_d4kq6i_ (I:)
1j: SCOP_d4kq6j_ (J:)
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Classes
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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
:
automated matches
(7)
Candida glabrata [TaxId: 284593]
(1)
1a
d4kq6a_
A:
1b
d4kq6b_
B:
1c
d4kq6c_
C:
1d
d4kq6d_
D:
1e
d4kq6e_
E:
1f
d4kq6f_
F:
1g
d4kq6g_
G:
1h
d4kq6h_
H:
1i
d4kq6i_
I:
1j
d4kq6j_
J:
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CATH Domains
(0, 0)
Info
all CATH domains
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Sorry, no Info available
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Pfam Domains
(0, 0)
Info
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Sorry, no Info available
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Chain A
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Chain C
Chain D
Chain E
Asymmetric Unit 1
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select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
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select residue range 5 to 10 in all chains
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select residue range 5 to 10 in chain 'A'
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select non-helix/non-sheet protein parts
set fontsize 20
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show SS bonds with a radius of 100 units (=0.4Å)
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Show PDB file:
Asym.Unit (276 KB)
Header - Asym.Unit
Biol.Unit 1 (139 KB)
Header - Biol.Unit 1
Biol.Unit 2 (134 KB)
Header - Biol.Unit 2
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