Contacts of the helix formed by residues 19 - 40 (chain C) in PDB entry 3ZJX
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 ASN 19 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C TYR* 3.5 6.6 - - - +
18C ASP* 1.3 93.8 + - - +
20C VAL* 1.3 63.3 + - - +
21C ASP* 3.2 22.4 + - - +
22C THR* 3.2 36.2 + - - +
23C LEU* 3.7 9.2 + - - +
121C VAL* 3.6 2.0 - - - +
122C GLY* 3.6 12.1 - - - -
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Residues in contact with VAL 20 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C ASN* 1.3 72.7 - - - +
21C ASP* 1.3 69.7 + - - +
23C LEU* 3.1 12.5 + - + +
24C ILE* 3.1 35.4 + - + +
121C VAL* 2.9 20.7 + - + +
122C GLY* 5.2 0.9 - - - +
124C SER* 4.2 2.5 - - - +
125C ILE* 3.4 41.5 - - + +
198C VAL* 3.9 21.1 - - + -
221C LEU* 4.4 10.0 - - + +
238C ILE* 4.0 17.5 - - + +
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Residues in contact with ASP 21 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C ASN* 3.2 11.2 + - - +
20C VAL* 1.3 77.4 - - - +
22C THR* 1.3 57.3 + - - +
24C ILE* 3.8 7.8 - - - +
25C GLU* 3.0 43.3 + - - +
122C GLY* 3.9 1.6 - - - -
123C THR* 2.8 36.1 + - - +
124C SER* 2.5 41.3 + - - +
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Residues in contact with THR 22 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C ASN* 3.2 34.5 + - - +
20C VAL 3.2 0.4 - - - -
21C ASP* 1.3 79.6 - - - +
23C LEU* 1.3 66.9 + - + +
25C GLU* 3.5 11.4 + - - +
26C LYS* 3.1 22.7 + - + +
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Residues in contact with LEU 23 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C TYR* 4.0 34.1 - - + -
19C ASN 4.0 12.1 - - - +
20C VAL* 3.1 13.3 + - + +
22C THR* 1.3 80.8 - - + +
24C ILE* 1.3 65.8 + - - +
26C LYS* 3.0 20.3 + - + +
27C GLY 3.0 10.9 + - - -
221C LEU* 4.0 20.9 - - + -
224C THR* 3.8 20.8 - - - +
225C VAL* 4.0 20.0 - - + -
236C ILE* 4.1 28.3 - - + -
238C ILE* 5.7 1.1 - - + -
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Residues in contact with ILE 24 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C VAL* 3.1 26.7 + - + +
21C ASP* 3.8 5.2 - - - +
22C THR 3.4 0.2 - - - -
23C LEU* 1.3 75.4 - - - +
25C GLU* 1.3 63.6 + - + +
27C GLY 3.4 0.9 + - - -
28C ARG* 3.1 52.4 + - - +
62C PHE* 3.8 28.7 - - + -
124C SER* 3.4 35.9 - - - +
202C GLU* 3.7 10.8 - - - +
219C PHE* 3.4 10.5 - - + -
221C LEU* 3.8 15.2 - - + +
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Residues in contact with GLU 25 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C ASP* 3.0 32.9 + - - +
22C THR* 3.8 10.1 + - - +
24C ILE* 1.3 74.4 - - + +
26C LYS* 1.3 59.3 + - - +
28C ARG* 3.7 20.8 + - - +
29C TYR* 3.0 27.0 + - - +
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Residues in contact with LYS 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 THR* 3.1 15.6 + - + +
23C LEU* 3.0 16.2 + - + +
25C GLU* 1.3 74.4 - - - +
27C GLY* 1.3 56.5 + - - +
29C TYR* 3.0 11.0 + - + +
30C ASN* 2.7 55.6 + - - +
224C THR* 3.6 26.2 - - - +
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Residues in contact with GLY 27 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C LEU 3.0 10.7 + - - -
26C LYS* 1.3 76.8 - - - +
28C ARG* 1.3 50.7 + - - +
30C ASN* 3.5 6.9 + - - +
31C THR* 2.6 36.6 + - - -
219C PHE* 3.6 31.2 - - - +
224C THR* 3.7 14.2 - - - +
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Residues in contact with ARG 28 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C ILE* 3.1 31.9 + - - +
25C GLU* 3.9 18.4 - - - +
27C GLY* 1.3 71.8 - - - +
29C TYR* 1.3 66.4 + - - +
31C THR* 3.3 6.0 + - - -
32C LYS* 3.1 26.0 + - + +
55C ILE* 3.9 31.4 - - + +
57C PRO* 3.7 24.2 - - - +
202C GLU* 2.8 43.6 + - - +
219C PHE* 3.7 4.0 - - + -
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Residues in contact with TYR 29 (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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25C GLU 3.0 20.4 + - - +
26C LYS* 3.0 11.9 + - + +
28C ARG* 1.3 76.3 - - - +
30C ASN* 1.3 74.2 + - - +
32C LYS* 3.4 4.2 + - - +
33C TYR* 2.8 60.9 + + + +
50C PHE* 3.3 37.8 - + + -
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Residues in contact with ASN 30 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C LYS* 2.7 38.7 + - - +
27C GLY* 3.6 9.4 - - - +
29C TYR* 1.3 84.7 - - - +
31C THR* 1.3 61.9 + - - +
33C TYR* 3.4 5.4 - - - +
34C ASN* 2.9 44.4 + - - +
223C ASP 5.2 2.8 + - - -
224C THR* 4.9 12.9 - - - +
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Residues in contact with THR 31 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C GLY 2.6 24.2 + - - -
28C ARG 3.6 5.2 - - - -
30C ASN* 1.3 73.9 - - - +
32C LYS* 1.3 65.0 + - - +
34C ASN* 4.1 4.8 - - - +
35C TYR* 3.2 22.9 + - - +
55C ILE* 4.0 6.5 - - + -
206C ILE* 4.0 15.5 - - + -
215C ASP* 4.6 8.2 - - - +
217C TYR* 3.8 35.0 - - + +
219C PHE* 4.0 16.3 - - - +
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Residues in contact with LYS 32 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C ARG* 3.1 18.3 + - + +
29C TYR* 3.7 4.9 - - - +
31C THR* 1.3 76.4 - - - +
33C TYR* 1.3 63.1 + - - +
35C TYR* 3.4 3.6 + - - +
36C LEU* 3.2 26.5 + - - +
50C PHE* 3.2 55.2 + - + -
51C ASP* 5.1 4.0 + - - +
53C VAL* 3.4 38.2 + - + +
55C ILE* 3.9 30.7 - - + +
206C ILE* 3.8 9.2 - - + -
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Residues in contact with TYR 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 TYR* 2.8 50.9 + + + +
30C ASN* 3.4 9.4 - - - +
31C THR 3.2 0.2 - - - -
32C LYS* 1.3 73.1 - - - +
34C ASN* 1.3 73.1 + - - +
36C LEU* 3.2 3.6 + - - -
37C LYS* 2.8 62.4 + - + +
47C MET* 3.4 32.5 - - + +
50C PHE* 3.8 9.4 - + + -
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Residues in contact with ASN 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 ASN* 2.9 32.9 + - - +
31C THR* 4.1 4.3 - - - +
33C TYR* 1.3 85.3 - - - +
35C TYR* 1.3 64.2 + - - +
37C LYS* 4.1 6.8 - - - +
38C ARG* 3.2 42.5 + - - +
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Residues in contact with TYR 35 (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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31C THR 3.2 17.1 + - - +
32C LYS 3.5 4.7 - - - +
33C TYR 3.2 0.2 - - - -
34C ASN* 1.3 76.7 - - - +
36C LEU* 1.3 76.9 + - + +
38C ARG* 3.7 17.6 + - - +
39C MET* 3.5 41.7 - - + +
53C VAL* 4.6 8.1 - - + -
206C ILE* 3.7 32.1 - - + +
207C PRO 4.5 2.9 + - - -
212C PHE* 3.5 22.5 + - + +
213C PRO* 2.6 36.2 + - + -
214C ARG 5.1 0.2 - - - -
215C ASP* 3.6 32.3 + - + +
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Residues in contact with LEU 36 (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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32C LYS 3.2 8.7 + - - +
33C TYR 3.2 2.7 + - - +
35C TYR* 1.3 89.7 - - + +
37C LYS* 1.3 65.8 + - - +
38C ARG 3.1 2.0 - - - -
39C MET* 3.0 25.1 + - - +
40C GLU* 3.0 11.6 + - - +
46C ALA* 3.8 28.8 - - + +
47C MET* 3.6 29.2 - - + -
49C TYR* 4.2 6.3 - - + -
50C PHE* 3.6 35.9 - - + +
53C VAL* 3.7 19.7 - - + -
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Residues in contact with LYS 37 (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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33C TYR* 2.8 54.9 + - + +
34C ASN* 3.5 9.8 + - - +
36C LEU* 1.3 72.9 - - - +
38C ARG* 1.3 62.8 + - - +
40C GLU* 2.9 52.9 + - - +
41C LYS 4.4 1.0 + - - -
47C MET* 4.3 6.2 - - - +
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Residues in contact with ARG 38 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C ASN* 3.2 38.8 + - - +
35C TYR* 3.7 14.4 + - - +
36C LEU 3.1 0.2 - - - -
37C LYS* 1.3 80.2 - - - +
39C MET* 1.3 61.3 + - + +
40C GLU 3.5 0.2 + - - -
41C LYS* 4.2 8.7 + - - +
42C TYR* 4.6 10.2 - - - -
215C ASP* 5.0 7.5 + - - -
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Residues in contact with MET 39 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C TYR* 3.5 52.5 - - + +
36C LEU* 3.0 17.8 + - - +
38C ARG* 1.3 75.2 - - + +
40C GLU* 1.3 57.6 + - - +
41C LYS 3.2 3.4 - - - -
42C TYR* 2.8 31.2 + - + +
43C TYR* 2.9 27.4 + - + -
46C ALA* 4.4 6.5 - - + -
212C PHE* 4.0 26.2 - - + -
213C PRO* 3.7 24.2 - - + -
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Residues in contact with GLU 40 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C LEU 3.0 9.7 + - - +
37C LYS* 2.9 54.4 + - - +
39C MET* 1.3 76.1 - - - +
41C LYS* 1.3 62.3 + - - +
43C TYR 3.1 24.0 - - - +
44C PRO* 3.3 28.1 - - + +
46C ALA* 4.1 6.7 - - + +
47C MET* 3.8 25.6 - - - +
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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) + - + + + + + -
------------------------------------------------------------
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