Contacts of the helix formed by residues 17 - 35 (chain C) in PDB entry 2CHT
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with GLU 17 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16C THR* 1.3 71.4 + - - +
18C GLU* 1.3 65.4 + - - +
19C GLU 3.0 1.2 + - - -
21C LEU* 3.0 43.0 + - + +
55C ALA* 3.5 12.6 - - + +
56C VAL* 3.7 35.1 - - + +
60C LYS* 3.4 29.3 + - - -
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Residues in contact with GLU 18 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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14C ARG* 5.6 1.9 + - - -
16C THR* 3.6 26.8 + - + +
17C GLU* 1.3 79.0 - - - +
19C GLU* 1.3 63.1 + - + +
21C LEU* 4.7 3.2 - - - +
22C GLN* 3.2 32.0 + - - +
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Residues in contact with GLU 19 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C VAL* 3.6 8.6 - - + +
13C GLU* 2.8 30.2 + - - +
14C ARG* 3.0 52.3 + - - +
16C THR* 3.0 20.5 + - + +
18C GLU* 1.3 81.8 - - + +
20C ILE* 1.3 62.6 + - - +
21C LEU 3.2 1.1 - - - -
22C GLN* 3.1 7.5 + - - +
23C LYS* 2.9 49.4 + - + +
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Residues in contact with ILE 20 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A MET* 5.5 0.4 - - + -
12C VAL* 3.8 25.8 - - + +
15C ASP* 3.5 24.9 - - - +
16C THR 3.1 7.7 + - - +
19C GLU* 1.3 73.8 - - - +
21C LEU* 1.3 60.5 + - - +
23C LYS* 4.3 0.5 - - - +
24C THR* 2.8 31.4 + - - -
53C LEU* 4.0 16.8 - - + -
55C ALA* 3.9 9.0 - - + +
56C VAL* 3.6 39.5 - - + +
58C PRO* 3.8 23.8 - - + -
89C ILE* 3.7 18.2 - - + -
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Residues in contact with LEU 21 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C GLU* 3.0 47.2 + - + +
18C GLU* 4.7 3.4 - - - +
20C ILE* 1.3 75.4 - - - +
22C GLN* 1.3 56.8 + - - +
24C THR* 4.6 0.2 - - - -
25C LYS* 3.0 27.2 + - - +
56C VAL* 3.7 25.8 - - + -
57C PHE 3.9 11.0 - - - +
58C PRO* 4.7 2.2 - - + +
60C LYS* 3.9 25.8 - - + -
61C ALA* 3.5 18.4 - - + +
64C GLU* 3.5 29.2 - - - +
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Residues in contact with GLN 22 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C GLU* 3.2 24.0 + - - +
19C GLU* 3.1 10.0 + - - +
21C LEU* 1.3 75.4 - - - +
23C LYS* 1.3 82.3 + - - +
25C LYS* 3.5 7.0 + - + +
26C GLN* 3.2 38.0 + - - +
64C GLU* 5.4 1.3 - - - -
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Residues in contact with LYS 23 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C THR* 3.9 18.3 + - + +
11C THR 3.7 15.3 - - - +
12C VAL* 3.7 25.1 - - + -
19C GLU* 2.9 33.7 + - + +
20C ILE 4.3 0.2 - - - +
22C GLN* 1.3 89.7 + - - +
24C THR* 1.3 58.7 + - - +
26C GLN* 3.0 41.9 + - - +
27C LEU* 3.0 28.6 + - - +
89C ILE* 5.5 0.2 - - + -
109C LEU* 5.6 0.3 - - - +
110C GLU* 4.1 24.5 - - + +
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Residues in contact with THR 24 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C THR* 4.8 2.5 - - - -
20C ILE 2.8 20.7 + - - -
23C LYS* 1.3 73.5 - - - +
25C LYS* 1.3 64.2 + - - +
27C LEU* 3.5 7.3 + - + +
28C LEU* 3.0 36.9 + - + +
47C LEU* 3.8 25.1 - - + -
58C PRO* 3.5 26.6 - - + +
61C ALA* 3.7 11.9 - - + -
89C ILE* 3.6 24.7 - - + +
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Residues in contact with LYS 25 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21C LEU 3.0 18.4 + - - +
22C GLN* 3.8 7.9 - - + +
23C LYS 3.4 0.2 - - - -
24C THR* 1.3 72.9 - - - +
26C GLN* 1.3 52.3 + - - +
28C LEU* 3.1 8.8 + - - +
29C GLU* 2.9 72.0 + - - +
61C ALA* 3.8 8.4 - - + +
64C GLU* 3.5 45.8 - - + +
65C LEU* 3.9 12.9 - - + +
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Residues in contact with GLN 26 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22C GLN* 3.2 20.8 + - - +
23C LYS* 3.0 40.2 + - - +
25C LYS* 1.3 75.3 - - - +
27C LEU* 1.3 64.2 + - - +
29C GLU* 3.5 11.9 + - - +
30C LYS* 3.2 24.1 + - - +
109C LEU* 4.3 9.4 - - + +
110C GLU* 4.3 13.5 + - - -
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Residues in contact with LEU 27 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8C GLY* 4.0 7.9 - - - -
9C ALA* 3.8 27.8 - - - +
10C THR* 3.9 20.6 - - + +
23C LYS 3.0 13.8 + - - +
24C THR* 3.8 5.8 - - - +
26C GLN* 1.3 80.2 - - - +
28C LEU* 1.3 64.4 + - + +
30C LYS* 3.6 1.0 + - - +
31C ILE* 3.3 30.0 + - + +
47C LEU* 5.6 2.0 - - + -
89C ILE* 4.5 10.1 - - + +
91C VAL* 4.3 16.8 - - + +
107C VAL* 3.5 26.7 - - + +
109C LEU* 3.7 20.8 - - + +
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Residues in contact with LEU 28 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C THR* 3.0 36.8 + - + +
25C LYS* 3.1 4.5 + - - +
27C LEU* 1.3 74.5 - - + +
29C GLU* 1.3 67.9 + - - +
31C ILE* 3.4 4.3 + - - +
32C ILE* 2.9 32.3 + - + +
45C MET* 3.8 24.9 - - + -
47C LEU* 5.3 0.9 - - + -
61C ALA 4.8 1.1 - - - -
62C VAL* 3.8 31.4 - - + +
65C LEU* 3.8 24.5 - - + -
68C TRP* 5.8 0.9 - - + -
91C VAL* 4.0 18.8 - - + -
93C MET* 3.9 17.7 - - + -
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Residues in contact with GLU 29 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C LYS* 2.9 58.8 + - - +
26C GLN* 3.7 11.4 + - - +
28C LEU* 1.3 77.4 - - - +
30C LYS* 1.3 63.3 + - - +
32C ILE* 3.5 7.1 - - + +
33C GLU* 2.9 32.7 + - - +
65C LEU* 3.6 20.8 - - + +
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Residues in contact with LYS 30 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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26C GLN 3.2 14.5 + - - +
27C LEU 3.9 4.3 - - - +
28C LEU 3.4 0.2 - - - -
29C GLU* 1.3 78.0 - - - +
31C ILE* 1.3 56.3 + - - +
33C GLU* 3.2 22.0 + - - +
34C GLU* 2.9 65.9 + - + +
107C VAL* 3.6 26.0 - - + -
109C LEU* 4.6 13.9 - - + -
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Residues in contact with ILE 31 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C ILE* 3.6 26.5 - - + -
7C ARG 4.1 4.7 - - - +
8C GLY* 3.9 18.2 - - - +
27C LEU* 3.3 18.7 + - + +
28C LEU* 3.7 6.7 - - - +
29C GLU 3.3 0.2 - - - -
30C LYS* 1.3 75.3 - - - +
32C ILE* 1.3 62.8 + - - +
35C ASN* 3.0 31.9 + - - +
37C THR* 4.8 0.2 - - - +
91C VAL* 3.4 33.4 - - + -
93C MET* 3.7 24.9 - - + -
107C VAL* 3.7 26.2 - - + +
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Residues in contact with ILE 32 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28C LEU* 2.9 32.1 + - + +
29C GLU* 3.5 7.6 - - + +
31C ILE* 1.3 70.1 - - - +
33C GLU* 1.3 55.8 + - - +
36C HIS* 2.7 30.3 + - - -
37C THR* 2.8 40.4 + - - +
39C PRO* 5.8 0.4 - - + -
65C LEU* 4.1 18.8 - - + -
68C TRP* 3.4 44.9 - - + +
93C MET* 4.5 6.5 - - + -
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Residues in contact with GLU 33 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29C GLU* 2.9 22.7 + - - +
30C LYS* 3.2 38.4 + - - +
32C ILE* 1.3 76.2 - - - +
34C GLU* 1.3 61.2 - - - +
36C HIS* 3.0 30.3 + - - -
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Residues in contact with GLU 34 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30C LYS* 2.9 67.6 + - + +
31C ILE 4.1 1.3 - - - +
33C GLU* 1.3 80.1 - - - +
35C ASN* 1.3 62.5 + - - +
36C HIS* 5.1 3.8 + - - -
105C ARG* 3.0 58.8 + - + +
107C VAL* 4.2 11.6 - - + +
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Residues in contact with ASN 35 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6C ILE* 3.6 26.3 - - + +
31C ILE* 3.0 26.4 + - - +
34C GLU* 1.3 81.0 - - - +
36C HIS* 1.3 71.8 + - - +
37C THR* 3.1 13.5 + - - +
97C THR* 5.8 0.2 + - - -
99C VAL* 5.8 3.8 - - - +
103C GLN 4.7 0.5 - - - +
104C ILE* 3.9 7.3 - - + +
105C ARG* 2.9 52.9 + - - +
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il