PLEASE WAIT...
Getting 'Biological Unit' information from database.
PLEASE WAIT...
Getting 'Hetero Component' information from database.
PLEASE WAIT...
Getting 'Site' information from database.
PLEASE WAIT...
No precomputed SNP/Variant structure found.
Calculating the structure may take several minutes.
PLEASE WAIT...
Getting 'PROSITE' information from database.
PLEASE WAIT...
Getting 'Exon' information from database.
1EQ2
Asym. Unit
Info
Asym.Unit (525 KB)
Biol.Unit 1 (255 KB)
Biol.Unit 2 (268 KB)
(using Jmol or JSmol)
spin
show selected part
auto zoom/center
Standard Views
(
Basic
|
Advanced
Interface
)
(
Basic
|
Advanced
Interface
)
Help
(1)
Title
:
THE CRYSTAL STRUCTURE OF ADP-L-GLYCERO-D-MANNOHEPTOSE 6-EPIMERASE
Authors
:
A. M. Deacon, Y. S. Ni, W. G. Coleman Jr. , S. E. Ealick
Date
:
31 Mar 00 (Deposition) - 08 Nov 00 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
2.00
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
:
N-Terminal Domain Rossmann Fold, C-Terminal Mixed Alpha/Beta Domain, Short-Chain Dehydrogenase/Reductase Fold, Isomerase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. M. Deacon, Y. S. Ni, W. G. Coleman Jr. , S. E. Ealick
The Crystal Structure Of Adp-L-Glycero-D-Mannoheptose 6-Epimerase: Catalysis With A Twist.
Structure Fold. Des. V. 8 453 2000
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(3, 30)
Info
All Hetero Components
1a: ADENOSINE-5'-DIPHOSPHATE-GLUCOSE (ADQa)
1b: ADENOSINE-5'-DIPHOSPHATE-GLUCOSE (ADQb)
1c: ADENOSINE-5'-DIPHOSPHATE-GLUCOSE (ADQc)
1d: ADENOSINE-5'-DIPHOSPHATE-GLUCOSE (ADQd)
1e: ADENOSINE-5'-DIPHOSPHATE-GLUCOSE (ADQe)
1f: ADENOSINE-5'-DIPHOSPHATE-GLUCOSE (ADQf)
1g: ADENOSINE-5'-DIPHOSPHATE-GLUCOSE (ADQg)
1h: ADENOSINE-5'-DIPHOSPHATE-GLUCOSE (ADQh)
1i: ADENOSINE-5'-DIPHOSPHATE-GLUCOSE (ADQi)
1j: ADENOSINE-5'-DIPHOSPHATE-GLUCOSE (ADQj)
2a: S-HYDROXYCYSTEINE (CSOa)
2b: S-HYDROXYCYSTEINE (CSOb)
2c: S-HYDROXYCYSTEINE (CSOc)
2d: S-HYDROXYCYSTEINE (CSOd)
2e: S-HYDROXYCYSTEINE (CSOe)
2f: S-HYDROXYCYSTEINE (CSOf)
2g: S-HYDROXYCYSTEINE (CSOg)
2h: S-HYDROXYCYSTEINE (CSOh)
2i: S-HYDROXYCYSTEINE (CSOi)
2j: S-HYDROXYCYSTEINE (CSOj)
3a: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPa)
3b: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPb)
3c: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPc)
3d: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPd)
3e: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPe)
3f: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPf)
3g: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPg)
3h: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPh)
3i: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPi)
3j: NADP NICOTINAMIDE-ADENINE-DINUCLEO... (NAPj)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
ADQ
10
Ligand/Ion
ADENOSINE-5'-DIPHOSPHATE-GLUCOSE
2
CSO
10
Mod. Amino Acid
S-HYDROXYCYSTEINE
3
NAP
10
Ligand/Ion
NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE
[
close Hetero Component info
]
Sites
(20, 20)
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)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
GLY A:6 , GLY A:9 , PHE A:10 , ILE A:11 , ASP A:31 , ASN A:32 , LYS A:38 , LYS A:53 , GLU A:75 , GLY A:76 , ALA A:77 , SER A:79 , ASN A:92 , TYR A:96 , ALA A:114 , SER A:115 , SER A:116 , TYR A:140 , LYS A:144 , TYR A:167 , PHE A:168 , VAL A:170 , HIS A:177 , LYS A:178 , HOH A:848 , HOH A:1285
BINDING SITE FOR RESIDUE NAP A 2400
02
AC2
SOFTWARE
THR A:81 , ASN A:169 , SER A:180 , ALA A:182 , HIS A:187 , ARG A:209 , PHE A:243
BINDING SITE FOR RESIDUE ADQ A 2500
03
AC3
SOFTWARE
GLY B:6 , GLY B:9 , PHE B:10 , ILE B:11 , ASP B:31 , ASN B:32 , LYS B:38 , LYS B:53 , GLU B:75 , GLY B:76 , ALA B:77 , SER B:79 , ASN B:92 , TYR B:96 , ALA B:114 , SER B:115 , SER B:116 , TYR B:140 , LYS B:144 , TYR B:167 , PHE B:168 , VAL B:170 , HIS B:177 , LYS B:178 , HOH B:648 , HOH B:679 , ADQ B:2501
BINDING SITE FOR RESIDUE NAP B 2401
04
AC4
SOFTWARE
PHE B:168 , ASN B:169 , SER B:180 , ALA B:182 , HIS B:187 , LEU B:200 , PHE B:201 , SER B:204 , ARG B:209 , PHE B:243 , TYR B:272 , GLN B:273 , THR B:276 , HOH B:841 , HOH B:981 , NAP B:2401
BINDING SITE FOR RESIDUE ADQ B 2501
05
AC5
SOFTWARE
GLY C:6 , GLY C:9 , PHE C:10 , ILE C:11 , ASP C:31 , ASN C:32 , LYS C:38 , LYS C:53 , GLU C:75 , GLY C:76 , ALA C:77 , SER C:79 , ASN C:92 , TYR C:96 , ALA C:114 , SER C:115 , SER C:116 , TYR C:140 , LYS C:144 , TYR C:167 , PHE C:168 , VAL C:170 , HIS C:177 , LYS C:178 , HOH C:607
BINDING SITE FOR RESIDUE NAP C 2402
06
AC6
SOFTWARE
THR C:81 , ASN C:169 , SER C:180 , MET C:181 , ALA C:182 , VAL C:184 , HIS C:187 , ARG C:209 , PHE C:243 , TYR C:272
BINDING SITE FOR RESIDUE ADQ C 2502
07
AC7
SOFTWARE
GLY D:6 , GLY D:9 , PHE D:10 , ILE D:11 , ASP D:31 , ASN D:32 , LYS D:38 , LYS D:53 , GLU D:75 , GLY D:76 , ALA D:77 , SER D:79 , ASN D:92 , TYR D:96 , ALA D:114 , SER D:115 , SER D:116 , TYR D:140 , LYS D:144 , TYR D:167 , PHE D:168 , VAL D:170 , HIS D:177 , LYS D:178 , HOH D:601 , HOH D:674 , HOH D:720 , ADQ D:2503
BINDING SITE FOR RESIDUE NAP D 2403
08
AC8
SOFTWARE
SER D:79 , THR D:81 , SER D:116 , TYR D:140 , ASN D:169 , LYS D:178 , SER D:180 , MET D:181 , ALA D:182 , VAL D:184 , HIS D:187 , PHE D:201 , SER D:204 , ARG D:209 , PHE D:243 , TYR D:272 , HOH D:820 , HOH D:829 , HOH D:960 , HOH D:1087 , NAP D:2403
BINDING SITE FOR RESIDUE ADQ D 2503
09
AC9
SOFTWARE
GLY E:6 , GLY E:9 , PHE E:10 , ILE E:11 , ASP E:31 , ASN E:32 , LYS E:38 , LYS E:53 , GLU E:75 , GLY E:76 , ALA E:77 , SER E:79 , ASN E:92 , TYR E:96 , ALA E:114 , SER E:115 , SER E:116 , TYR E:140 , LYS E:144 , TYR E:167 , PHE E:168 , VAL E:170 , HIS E:177 , LYS E:178 , HOH E:639 , HOH E:671
BINDING SITE FOR RESIDUE NAP E 2404
10
BC1
SOFTWARE
ASN E:169 , SER E:180 , ALA E:182 , VAL E:184 , HIS E:187 , LEU E:200 , PHE E:201 , SER E:204 , ARG E:209 , PHE E:243 , TYR E:272 , GLN E:273 , HOH E:1624
BINDING SITE FOR RESIDUE ADQ E 2504
11
BC2
SOFTWARE
GLY F:6 , GLY F:9 , PHE F:10 , ILE F:11 , ASP F:31 , ASN F:32 , LYS F:38 , LYS F:53 , GLU F:75 , GLY F:76 , ALA F:77 , SER F:79 , ASN F:92 , TYR F:96 , ALA F:114 , SER F:115 , SER F:116 , TYR F:140 , LYS F:144 , TYR F:167 , PHE F:168 , VAL F:170 , HIS F:177 , LYS F:178 , HOH F:661 , HOH F:782 , HOH F:809 , ADQ F:2505
BINDING SITE FOR RESIDUE NAP F 2405
12
BC3
SOFTWARE
ALA F:117 , TYR F:167 , PHE F:168 , ASN F:169 , SER F:180 , ALA F:182 , HIS F:187 , LEU F:200 , PHE F:201 , SER F:204 , ARG F:209 , PHE F:243 , LEU F:268 , TYR F:272 , GLN F:273 , THR F:276 , HOH F:702 , HOH F:965 , HOH F:1071 , HOH F:1262 , NAP F:2405
BINDING SITE FOR RESIDUE ADQ F 2505
13
BC4
SOFTWARE
GLY G:6 , GLY G:9 , PHE G:10 , ILE G:11 , ASP G:31 , ASN G:32 , LYS G:38 , LYS G:53 , GLU G:75 , GLY G:76 , ALA G:77 , SER G:79 , ASN G:92 , TYR G:96 , ALA G:114 , SER G:115 , SER G:116 , TYR G:140 , LYS G:144 , TYR G:167 , PHE G:168 , VAL G:170 , HIS G:177 , LYS G:178 , HOH G:620 , HOH G:819
BINDING SITE FOR RESIDUE NAP G 2406
14
BC5
SOFTWARE
THR G:81 , ASN G:169 , SER G:180 , MET G:181 , ALA G:182 , VAL G:184 , HIS G:187 , PHE G:201 , SER G:204 , ARG G:209 , PHE G:243 , TYR G:272 , HOH G:799 , HOH G:1338 , HOH G:1546
BINDING SITE FOR RESIDUE ADQ G 2506
15
BC6
SOFTWARE
GLY H:6 , GLY H:9 , PHE H:10 , ILE H:11 , ASP H:31 , ASN H:32 , LYS H:38 , LYS H:53 , GLU H:75 , GLY H:76 , ALA H:77 , SER H:79 , TYR H:88 , ASN H:92 , TYR H:96 , ALA H:114 , SER H:115 , SER H:116 , TYR H:140 , LYS H:144 , TYR H:167 , PHE H:168 , VAL H:170 , HIS H:177 , LYS H:178 , HOH H:615
BINDING SITE FOR RESIDUE NAP H 2407
16
BC7
SOFTWARE
ASN H:169 , SER H:180 , VAL H:184 , HIS H:187 , LEU H:200 , PHE H:201 , SER H:204 , ARG H:209 , PHE H:243 , TYR H:272 , HOH H:1218 , HOH H:1650
BINDING SITE FOR RESIDUE ADQ H 2507
17
BC8
SOFTWARE
GLY I:6 , GLY I:9 , PHE I:10 , ILE I:11 , ASP I:31 , ASN I:32 , LYS I:38 , LYS I:53 , GLU I:75 , GLY I:76 , ALA I:77 , SER I:79 , ASN I:92 , TYR I:96 , ALA I:114 , SER I:115 , SER I:116 , TYR I:140 , LYS I:144 , TYR I:167 , PHE I:168 , VAL I:170 , HIS I:177 , LYS I:178 , HOH I:624 , HOH I:633 , HOH I:928 , HOH I:947
BINDING SITE FOR RESIDUE NAP I 2408
18
BC9
SOFTWARE
THR I:81 , ASN I:169 , SER I:180 , MET I:181 , ALA I:182 , VAL I:184 , HIS I:187 , PHE I:201 , SER I:204 , ARG I:209 , PHE I:243 , LEU I:268 , TYR I:272 , HOH I:742 , HOH I:1164 , HOH I:1401 , HOH I:1561
BINDING SITE FOR RESIDUE ADQ I 2508
19
CC1
SOFTWARE
GLY J:6 , GLY J:9 , PHE J:10 , ILE J:11 , ASP J:31 , ASN J:32 , LYS J:38 , LYS J:53 , GLU J:75 , GLY J:76 , ALA J:77 , SER J:79 , ASN J:92 , TYR J:96 , ALA J:114 , SER J:115 , SER J:116 , TYR J:140 , LYS J:144 , TYR J:167 , PHE J:168 , VAL J:170 , HIS J:177 , LYS J:178 , HOH J:602
BINDING SITE FOR RESIDUE NAP J 2409
20
CC2
SOFTWARE
ASN J:169 , SER J:180 , ALA J:182 , VAL J:184 , HIS J:187 , LEU J:200 , PHE J:201 , SER J:204 , ARG J:209 , PHE J:243 , TYR J:272 , HOH J:1602
BINDING SITE FOR RESIDUE ADQ J 2509
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
close SNP/Variant info
]
PROSITE Patterns/Profiles
(0, 0)
Info
All PROSITE Patterns/Profiles
;
View:
Select:
Label:
End label:
Sorry, no Info available
[
close PROSITE info
]
Exons
(0, 0)
Info
All Exons
View:
Select:
Label:
All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(1, 10)
Info
All SCOP Domains
1a: SCOP_d1eq2a_ (A:)
1b: SCOP_d1eq2b_ (B:)
1c: SCOP_d1eq2c_ (C:)
1d: SCOP_d1eq2d_ (D:)
1e: SCOP_d1eq2e_ (E:)
1f: SCOP_d1eq2f_ (F:)
1g: SCOP_d1eq2g_ (G:)
1h: SCOP_d1eq2h_ (H:)
1i: SCOP_d1eq2i_ (I:)
1j: SCOP_d1eq2j_ (J:)
View:
Select:
Label:
Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
NAD(P)-binding Rossmann-fold domains
(1604)
Superfamily
:
NAD(P)-binding Rossmann-fold domains
(1604)
Family
:
Tyrosine-dependent oxidoreductases
(503)
Protein domain
:
ADP-L-glycero-D-mannoheptose 6-epimerase
(1)
Escherichia coli [TaxId: 562]
(1)
1a
d1eq2a_
A:
1b
d1eq2b_
B:
1c
d1eq2c_
C:
1d
d1eq2d_
D:
1e
d1eq2e_
E:
1f
d1eq2f_
F:
1g
d1eq2g_
G:
1h
d1eq2h_
H:
1i
d1eq2i_
I:
1j
d1eq2j_
J:
[
close SCOP info
]
CATH Domains
(2, 20)
Info
all CATH domains
1a: CATH_1eq2A01 (A:1-167,A:214-236,A:280-292)
1b: CATH_1eq2B01 (B:1-167,B:214-236,B:280-292)
1c: CATH_1eq2C01 (C:1-167,C:214-236,C:280-292)
1d: CATH_1eq2D01 (D:1-167,D:214-236,D:280-292)
1e: CATH_1eq2E01 (E:1-167,E:214-236,E:280-292)
1f: CATH_1eq2F01 (F:1-167,F:214-236,F:280-292)
1g: CATH_1eq2G01 (G:1-167,G:214-236,G:280-292)
1h: CATH_1eq2H01 (H:1-167,H:214-236,H:280-292)
1i: CATH_1eq2I01 (I:1-167,I:214-236,I:280-292)
1j: CATH_1eq2J01 (J:1-167,J:214-236,J:280-292)
2a: CATH_1eq2D02 (D:168-213,D:237-279,D:293-304)
2b: CATH_1eq2F02 (F:168-213,F:237-279,F:293-304)
2c: CATH_1eq2G02 (G:168-213,G:237-279,G:293-304)
2d: CATH_1eq2I02 (I:168-213,I:237-279,I:293-304)
2e: CATH_1eq2B02 (B:168-213,B:237-279,B:293-304)
2f: CATH_1eq2E02 (E:168-213,E:237-279,E:293-304)
2g: CATH_1eq2J02 (J:168-213,J:237-279,J:293-304)
2h: CATH_1eq2H02 (H:168-213,H:237-279,H:293-304)
2i: CATH_1eq2A02 (A:168-213,A:237-279,A:293-307)
2j: CATH_1eq2C02 (C:168-213,C:237-279,C:293-304)
View:
Select:
Label:
Classes
(
)
(
)
Architectures
(
)
(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
3-Layer(aba) Sandwich
(12045)
Topology
:
Rossmann fold
(7312)
Homologous Superfamily
:
NAD(P)-binding Rossmann-like Domain
(1244)
Escherichia coli. Organism_taxid: 562.
(49)
1a
1eq2A01
A:1-167,A:214-236,A:280-292
1b
1eq2B01
B:1-167,B:214-236,B:280-292
1c
1eq2C01
C:1-167,C:214-236,C:280-292
1d
1eq2D01
D:1-167,D:214-236,D:280-292
1e
1eq2E01
E:1-167,E:214-236,E:280-292
1f
1eq2F01
F:1-167,F:214-236,F:280-292
1g
1eq2G01
G:1-167,G:214-236,G:280-292
1h
1eq2H01
H:1-167,H:214-236,H:280-292
1i
1eq2I01
I:1-167,I:214-236,I:280-292
1j
1eq2J01
J:1-167,J:214-236,J:280-292
Architecture
:
Alpha-Beta Complex
(3881)
Topology
:
UDP-galactose 4-epimerase; domain 1
(99)
Homologous Superfamily
:
UDP-galactose 4-epimerase, domain 1
(99)
Escherichia coli. Organism_taxid: 562.
(15)
2a
1eq2D02
D:168-213,D:237-279,D:293-304
2b
1eq2F02
F:168-213,F:237-279,F:293-304
2c
1eq2G02
G:168-213,G:237-279,G:293-304
2d
1eq2I02
I:168-213,I:237-279,I:293-304
2e
1eq2B02
B:168-213,B:237-279,B:293-304
2f
1eq2E02
E:168-213,E:237-279,E:293-304
2g
1eq2J02
J:168-213,J:237-279,J:293-304
2h
1eq2H02
H:168-213,H:237-279,H:293-304
2i
1eq2A02
A:168-213,A:237-279,A:293-307
2j
1eq2C02
C:168-213,C:237-279,C:293-304
[
close CATH info
]
Pfam Domains
(0, 0)
Info
all PFAM domains
View:
Select:
Label:
Sorry, no Info available
[
close Pfam info
]
Atom Selection
(currently selected atoms:
all
)
Protein
Nucleic
Backbone
Sidechain
Hetero
Ligand
Solvent
All Atoms
Protein & NOT Variant
Protein & NOT Site
Protein & NOT PROSITE
Chain A
Chain B
Chain C
Chain D
Chain E
Chain F
Chain G
Chain H
Chain I
Chain J
Asymmetric Unit 1
Rendering
(selected part)
Molecule Coloring
(selected part)
by Chain (Asym. Unit)
by Chain (Biol. Unit)
by Secondary Structure
by Atom (CPK)
by SCOP Domain
by CATH Domain
by Pfam Domain
by Asymmetric Unit
by Exon
by Amino Acid
by Nucleotide
by Temperature
by Charge
by Rainbow (Group)
by Custom Color
Background Coloring
Choose
molecule
background
color...
[
close
]
RGB value
(e.g.: "#3cb371" or "60,179,113")
Stereo
Graphics Window
x
pixel
Miscellaneous
Script
Example Commands
Example Command
Action
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)
[
close Script example commands
]
Log
Note:
In this "Basic Interface" any change in the selection of a pulldown menu automatically triggers an action (one-step mechanism).
View and selection are coupled in the structure specific controls (e.g. "Hetero","PROSITE") .
Note:
In this "Advanced Interface" any change in the selection of a pulldown menu only sets the target for the corresponding control buttons (two-step mechanism).
View and selection are set independently in the structure specific controls (e.g. "Hetero","PROSITE") .
QuickSearch:
by PDB,NDB,UniProt,PROSITE Code or
Search Term(s)
Show PDB file:
Asym.Unit (525 KB)
Header - Asym.Unit
Biol.Unit 1 (255 KB)
Header - Biol.Unit 1
Biol.Unit 2 (268 KB)
Header - Biol.Unit 2
Plain Text
HTML (compressed size)
use JSmol [Javascript]
use Jmol [Java applet]
Upload:
Select a local file
OR
Enter a remote file address
You can upload any molecular structure file format that is recognized by Jmol,
e.g.: PDB, mmCif, CIF, CML, MOL, XYZ
(also compressed with 'gzip', see the
Jmol documentation
for a complete list)
JenaLib Atlas Page
|
Sequence/Alignment View
1EQ2
Jmol Script Commands
|
Jmol Color Schemes
|
Jmol Mouse Manual
|
Jmol Wiki
controls:
collapse
expand
Home
JenaLib
Jmol Scripting
Contact
Help