Services
Research
Training
Industry
About us
Protein Data Bank
in Europe
Bringing Structure to Biology
Chemical Components in the PDB
pdbe.org/chem
Feedback
Share
Summary
Atoms
Bonds
In PDB Entries
Names
Descriptors
Complete Listing
Modify Search
Download Links
Molfile:
Ideal
Representative
PDB:
Ideal
Representative
Other:
mmCif
CML
Related compounds
LLT
(Stereoisomer)
3D-Views
Ideal
Representative
PDB Links
PDB entries
PDBeChem : Chemical Bonds
Molecule :
THM
Bonds between two atoms of the molecule
Total Number of Bonds: 32
50
10 per page
20 per page
Show all
Record
First Atom
Second Atom
First Element
Second Element
Bond Order Type
Bond Length
Bond Stereochemistry
Is Aromatic
1
O5'
C5'
O
C
sing
1.43
N
N
2
O5'
HO5'
O
H
sing
0.97
N
N
3
C5'
C4'
C
C
sing
1.53
N
N
4
C5'
H5'1
C
H
sing
1.09
N
N
5
C5'
H5'2
C
H
sing
1.09
N
N
6
C4'
O4'
C
O
sing
1.45
N
N
7
C4'
C3'
C
C
sing
1.55
N
N
8
C4'
H4'
C
H
sing
1.09
N
N
9
O4'
C1'
O
C
sing
1.44
N
N
10
C3'
O3'
C
O
sing
1.43
N
N
11
C3'
C2'
C
C
sing
1.55
N
N
12
C3'
H3'
C
H
sing
1.09
N
N
13
O3'
HO3'
O
H
sing
0.97
N
N
14
C2'
C1'
C
C
sing
1.54
N
N
15
C2'
H2'1
C
H
sing
1.09
N
N
16
C2'
H2'2
C
H
sing
1.09
N
N
17
C1'
N1
C
N
sing
1.46
N
N
18
C1'
H1'
C
H
sing
1.09
N
N
19
N1
C2
N
C
sing
1.34
N
N
20
N1
C6
N
C
sing
1.37
N
N
21
C2
O2
C
O
doub
1.22
N
N
22
C2
N3
C
N
sing
1.35
N
N
23
N3
C4
N
C
sing
1.35
N
N
24
N3
HN3
N
H
sing
0.97
N
N
25
C4
O4
C
O
doub
1.22
N
N
26
C4
C5
C
C
sing
1.41
N
N
27
C5
C5M
C
C
sing
1.51
N
N
28
C5
C6
C
C
doub
1.35
N
N
29
C5M
HM51
C
H
sing
1.09
N
N
30
C5M
HM52
C
H
sing
1.09
N
N
31
C5M
HM53
C
H
sing
1.09
N
N
32
C6
H6
C
H
sing
1.08
N
N