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5A1A
Asym. Unit
Info
Asym.Unit (672 KB)
Biol.Unit 1 (665 KB)
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(1)
Title
:
2.2 A RESOLUTION CRYO-EM STRUCTURE OF BETA-GALACTOSIDASE IN COMPLEX WITH A CELL-PERMEANT INHIBITOR
Authors
:
A. Bartesaghi, A. Merk, S. Banerjee, D. Matthies, X. Wu, J. Milne, S. Sub
Date
:
29 Apr 15 (Deposition) - 06 May 15 (Release) - 24 Jun 15 (Revision)
Method
:
ELECTRON MICROSCOPY
Resolution
:
2.20
Chains
:
Asym. Unit : A,B,C,D
Biol. Unit 1: A,B,C,D (1x)
Keywords
:
Hydrolase, Near-Atomic, Near-Atomic Resolution Cryo-Electron Microscopy, Single- Particle Cryo-Em, Protein Complexes, Petg
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
A. Bartesaghi, A. Merk, S. Banerjee, D. Matthies, X. Wu, J. Milne, S. Subramaniam
2. 2 A Resolution Cryo-Em Structure Of Beta-Galactosidase In Complex With A Cell-Permeant Inhibitor
Science V. 348 1147 2015
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Hetero Components
(3, 20)
Info
All Hetero Components
1a: MAGNESIUM ION (MGa)
1b: MAGNESIUM ION (MGb)
1c: MAGNESIUM ION (MGc)
1d: MAGNESIUM ION (MGd)
1e: MAGNESIUM ION (MGe)
1f: MAGNESIUM ION (MGf)
1g: MAGNESIUM ION (MGg)
1h: MAGNESIUM ION (MGh)
2a: SODIUM ION (NAa)
2b: SODIUM ION (NAb)
2c: SODIUM ION (NAc)
2d: SODIUM ION (NAd)
2e: SODIUM ION (NAe)
2f: SODIUM ION (NAf)
2g: SODIUM ION (NAg)
2h: SODIUM ION (NAh)
3a: 2-PHENYLETHYL 1-THIO-BETA-D-GALACT... (PTQa)
3b: 2-PHENYLETHYL 1-THIO-BETA-D-GALACT... (PTQb)
3c: 2-PHENYLETHYL 1-THIO-BETA-D-GALACT... (PTQc)
3d: 2-PHENYLETHYL 1-THIO-BETA-D-GALACT... (PTQd)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
MG
8
Ligand/Ion
MAGNESIUM ION
2
NA
8
Ligand/Ion
SODIUM ION
3
PTQ
4
Ligand/Ion
2-PHENYLETHYL 1-THIO-BETA-D-GALACTOPYRANOSIDE
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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:
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Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
ASN A:102 , ASP A:201 , MET A:502 , TYR A:503 , GLU A:537 , HIS A:540 , ASP A:598 , PHE A:601 , TRP A:999 , NA A:4001 , HOH A:5037 , HOH A:5079
BINDING SITE FOR RESIDUE PTQ A2001
02
AC2
SOFTWARE
GLU A:416 , HIS A:418 , GLU A:461 , HOH A:5036 , HOH A:5037 , HOH A:5078
BINDING SITE FOR RESIDUE MG A3001
03
AC3
SOFTWARE
ASP A:15 , ASN A:18 , VAL A:21 , TYR A:161 , GLN A:163 , ASP A:193
BINDING SITE FOR RESIDUE MG A3002
04
AC4
SOFTWARE
ASP A:201 , PHE A:601 , ASN A:604 , PTQ A:2001 , HOH A:5013
BINDING SITE FOR RESIDUE NA A4001
05
AC5
SOFTWARE
PHE A:556 , TYR A:559 , PRO A:560 , LEU A:562 , HOH A:5082
BINDING SITE FOR RESIDUE NA A4002
06
AC6
SOFTWARE
ASN B:102 , ASP B:201 , MET B:502 , TYR B:503 , GLU B:537 , HIS B:540 , ASP B:598 , PHE B:601 , TRP B:999 , NA B:4001 , HOH B:5037 , HOH B:5079
BINDING SITE FOR RESIDUE PTQ B2001
07
AC7
SOFTWARE
GLU B:416 , HIS B:418 , GLU B:461 , HOH B:5036 , HOH B:5037 , HOH B:5078
BINDING SITE FOR RESIDUE MG B3001
08
AC8
SOFTWARE
ASP B:15 , ASN B:18 , VAL B:21 , TYR B:161 , GLN B:163 , ASP B:193
BINDING SITE FOR RESIDUE MG B3002
09
AC9
SOFTWARE
ASP B:201 , PHE B:601 , ASN B:604 , PTQ B:2001 , HOH B:5013
BINDING SITE FOR RESIDUE NA B4001
10
BC1
SOFTWARE
PHE B:556 , TYR B:559 , PRO B:560 , LEU B:562 , HOH B:5082
BINDING SITE FOR RESIDUE NA B4002
11
BC2
SOFTWARE
ASN C:102 , ASP C:201 , MET C:502 , TYR C:503 , GLU C:537 , HIS C:540 , ASP C:598 , PHE C:601 , TRP C:999 , NA C:4001 , HOH C:5037 , HOH C:5079
BINDING SITE FOR RESIDUE PTQ C2001
12
BC3
SOFTWARE
GLU C:416 , HIS C:418 , GLU C:461 , HOH C:5036 , HOH C:5037 , HOH C:5078
BINDING SITE FOR RESIDUE MG C3001
13
BC4
SOFTWARE
ASP C:15 , ASN C:18 , VAL C:21 , TYR C:161 , GLN C:163 , ASP C:193
BINDING SITE FOR RESIDUE MG C3002
14
BC5
SOFTWARE
ASP C:201 , PHE C:601 , ASN C:604 , PTQ C:2001 , HOH C:5013
BINDING SITE FOR RESIDUE NA C4001
15
BC6
SOFTWARE
PHE C:556 , TYR C:559 , PRO C:560 , LEU C:562 , HOH C:5082
BINDING SITE FOR RESIDUE NA C4002
16
BC7
SOFTWARE
ASN D:102 , ASP D:201 , MET D:502 , TYR D:503 , GLU D:537 , HIS D:540 , ASP D:598 , PHE D:601 , TRP D:999 , NA D:4001 , HOH D:5037 , HOH D:5079
BINDING SITE FOR RESIDUE PTQ D2001
17
BC8
SOFTWARE
GLU D:416 , HIS D:418 , GLU D:461 , HOH D:5036 , HOH D:5037 , HOH D:5078
BINDING SITE FOR RESIDUE MG D3001
18
BC9
SOFTWARE
ASP D:15 , ASN D:18 , VAL D:21 , TYR D:161 , GLN D:163 , ASP D:193
BINDING SITE FOR RESIDUE MG D3002
19
CC1
SOFTWARE
ASP D:201 , PHE D:601 , ASN D:604 , PTQ D:2001 , HOH D:5013
BINDING SITE FOR RESIDUE NA D4001
20
CC2
SOFTWARE
PHE D:556 , TYR D:559 , PRO D:560 , LEU D:562 , HOH D:5082
BINDING SITE FOR RESIDUE NA D4002
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SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
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PROSITE Patterns/Profiles
(0, 0)
Info
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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
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CATH Domains
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Sorry, no Info available
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Pfam Domains
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Sorry, no Info available
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Protein & NOT Site
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Chain A
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Chain D
Asymmetric Unit 1
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Example Command
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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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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") .
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Asym.Unit (672 KB)
Header - Asym.Unit
Biol.Unit 1 (665 KB)
Header - Biol.Unit 1
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