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2ZUV
Asym. Unit
Info
Asym.Unit (283 KB)
Biol.Unit 1 (276 KB)
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(1)
Title
:
CRYSTAL STRUCTURE OF GALACTO-N-BIOSE/LACTO-N-BIOSE I PHOSPHORYLASE IN COMPLEX WITH GLCNAC, ETHYLENE GLYCOL, AND NITRATE
Authors
:
M. Hidaka, M. Nishimoto, M. Kitaoka, T. Wakagi, H. Shoun, S. Fushinobu
Date
:
28 Oct 08 (Deposition) - 30 Dec 08 (Release) - 17 Mar 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.85
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Beta-Alpha-Barrel, Tim Barrel, Glycosyltransferase, Transferase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
M. Hidaka, M. Nishimoto, M. Kitaoka, T. Wakagi, H. Shoun, S. Fushinobu
The Crystal Structure Of Galacto-N-Biose/Lacto-N-Biose I Phosphorylase: A Large Deformation Of A Tim Barrel Scaffold
J. Biol. Chem. V. 284 7273 2009
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(4, 24)
Info
All Hetero Components
1a: 1,2-ETHANEDIOL (EDOa)
1b: 1,2-ETHANEDIOL (EDOb)
1c: 1,2-ETHANEDIOL (EDOc)
1d: 1,2-ETHANEDIOL (EDOd)
1e: 1,2-ETHANEDIOL (EDOe)
1f: 1,2-ETHANEDIOL (EDOf)
1g: 1,2-ETHANEDIOL (EDOg)
1h: 1,2-ETHANEDIOL (EDOh)
1i: 1,2-ETHANEDIOL (EDOi)
2a: MAGNESIUM ION (MGa)
2b: MAGNESIUM ION (MGb)
2c: MAGNESIUM ION (MGc)
2d: MAGNESIUM ION (MGd)
2e: MAGNESIUM ION (MGe)
2f: MAGNESIUM ION (MGf)
2g: MAGNESIUM ION (MGg)
2h: MAGNESIUM ION (MGh)
3a: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGa)
3b: 2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOP... (NDGb)
4a: NITRATE ION (NO3a)
4b: NITRATE ION (NO3b)
4c: NITRATE ION (NO3c)
4d: NITRATE ION (NO3d)
4e: NITRATE ION (NO3e)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
EDO
9
Ligand/Ion
1,2-ETHANEDIOL
2
MG
8
Ligand/Ion
MAGNESIUM ION
3
NDG
2
Ligand/Ion
2-(ACETYLAMINO)-2-DEOXY-A-D-GLUCOPYRANOSE
4
NO3
5
Ligand/Ion
NITRATE ION
[
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]
Sites
(24, 24)
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)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
TYR A:165 , PHE A:218 , TRP A:233 , PHE A:310 , LEU A:311 , GLY A:312 , ASP A:313 , HOH A:848 , HOH A:872 , HOH A:914 , HOH A:1007 , HOH A:1106 , EDO A:2008 , HOH B:1235
BINDING SITE FOR RESIDUE NDG A2001
02
AC2
SOFTWARE
ARG A:32 , ARG A:210 , THR A:212 , PHE A:310 , ARG A:358 , TYR A:362 , HOH A:872 , EDO A:2008
BINDING SITE FOR RESIDUE NO3 A2003
03
AC3
SOFTWARE
PRO A:463 , TYR A:468 , TYR A:471 , GLY A:472 , PRO A:671 , TYR A:672 , HOH A:1415 , EDO A:2012
BINDING SITE FOR RESIDUE NO3 A2004
04
AC4
SOFTWARE
TYR A:321 , LYS A:322 , TRP A:447 , LYS A:449 , MET A:450 , HOH A:902 , HOH A:1421 , EDO A:2011
BINDING SITE FOR RESIDUE NO3 A2005
05
AC5
SOFTWARE
ASN A:166 , TYR A:362 , HOH A:832 , NDG A:2001 , NO3 A:2003
BINDING SITE FOR RESIDUE EDO A2008
06
AC6
SOFTWARE
TRP A:315 , ILE A:316 , GLY A:317 , THR A:318 , GLU A:319
BINDING SITE FOR RESIDUE EDO A2009
07
AC7
SOFTWARE
TYR A:75 , LYS A:111 , ARG A:255 , LEU A:256 , HOH A:829
BINDING SITE FOR RESIDUE EDO A2010
08
AC8
SOFTWARE
GLY A:448 , LYS A:449 , SER A:488 , ASP A:491 , HOH A:1167 , NO3 A:2005
BINDING SITE FOR RESIDUE EDO A2011
09
AC9
SOFTWARE
ASP A:339 , LYS A:384 , HOH A:847 , NO3 A:2004
BINDING SITE FOR RESIDUE EDO A2012
10
BC1
SOFTWARE
HOH A:985 , HOH A:1525 , HOH A:1621 , HOH A:1639 , HOH A:1658 , HOH B:1649
BINDING SITE FOR RESIDUE MG A2017
11
BC2
SOFTWARE
HOH A:1343 , HOH A:1464 , HOH A:1466 , HOH A:1529 , HOH A:1757
BINDING SITE FOR RESIDUE MG A2021
12
BC3
SOFTWARE
HOH A:1318 , HOH A:1642 , HOH B:989 , HOH B:1490 , HOH B:1491
BINDING SITE FOR RESIDUE MG A2023
13
BC4
SOFTWARE
HOH A:1201 , TYR B:165 , PHE B:218 , TRP B:233 , PHE B:310 , LEU B:311 , GLY B:312 , ASP B:313 , HOH B:852 , HOH B:882 , HOH B:1022 , HOH B:1084 , HOH B:1093 , HOH B:1199 , HOH B:1206
BINDING SITE FOR RESIDUE NDG B2002
14
BC5
SOFTWARE
PRO B:463 , TYR B:468 , GLY B:472 , PRO B:671 , TYR B:672 , HOH B:1050 , HOH B:1091 , HOH B:1131
BINDING SITE FOR RESIDUE NO3 B2006
15
BC6
SOFTWARE
TYR B:321 , LYS B:322 , TRP B:447 , LYS B:449 , MET B:450 , HOH B:1214 , HOH B:1350 , EDO B:2014
BINDING SITE FOR RESIDUE NO3 B2007
16
BC7
SOFTWARE
TRP B:315 , ILE B:316 , GLY B:317 , THR B:318 , GLU B:319
BINDING SITE FOR RESIDUE EDO B2013
17
BC8
SOFTWARE
GLY B:448 , LYS B:449 , SER B:488 , ASP B:491 , HOH B:1368 , HOH B:1548 , NO3 B:2007
BINDING SITE FOR RESIDUE EDO B2014
18
BC9
SOFTWARE
LEU B:379 , HIS B:418 , ASP B:595 , PRO B:596 , ALA B:597 , ASP B:743 , HOH B:1225 , HOH B:1650 , MG B:2019
BINDING SITE FOR RESIDUE EDO B2015
19
CC1
SOFTWARE
GLY B:121 , ARG B:257 , HOH B:861
BINDING SITE FOR RESIDUE EDO B2016
20
CC2
SOFTWARE
HOH A:1661 , HOH B:797 , HOH B:986 , HOH B:1331 , HOH B:1358 , HOH B:1641
BINDING SITE FOR RESIDUE MG B2018
21
CC3
SOFTWARE
ASP B:595 , ASP B:743 , HOH B:1609 , HOH B:1640 , HOH B:1650 , EDO B:2015
BINDING SITE FOR RESIDUE MG B2019
22
CC4
SOFTWARE
HOH B:1253 , HOH B:1311 , HOH B:1499 , HOH B:1526 , HOH B:1663
BINDING SITE FOR RESIDUE MG B2020
23
CC5
SOFTWARE
ASP B:247 , HOH B:1135 , HOH B:1660
BINDING SITE FOR RESIDUE MG B2022
24
CC6
SOFTWARE
HOH A:1687 , HOH B:1688 , HOH B:1694 , HOH B:1705
BINDING SITE FOR RESIDUE MG B2024
[
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]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
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PROSITE Patterns/Profiles
(0, 0)
Info
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;
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End label:
Sorry, no Info available
[
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Exons
(0, 0)
Info
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All Exon Boundaries
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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
(0, 0)
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Sorry, no Info available
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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
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Info
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Sorry, no Info available
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Asymmetric Unit 1
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select :A, :C
select chains 'A' and 'C'
select [ALA]:A
select all 'ALA' residues (Alanines) in chain 'A'
select 5-10
select residue range 5 to 10 in all chains
select 5-10:A
select residue range 5 to 10 in chain 'A'
select protein & not helix & not sheet
select non-helix/non-sheet protein parts
set fontsize 20
set label size to 20 (allowed range: 1-58)
ssbonds 100
show SS bonds with a radius of 100 units (=0.4Å)
wireframe 100
show bonds with a radius of 100 units (=0.4Å)
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View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
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Asym.Unit (283 KB)
Header - Asym.Unit
Biol.Unit 1 (276 KB)
Header - Biol.Unit 1
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