Contacts of the helix formed by residues 24 - 46 (chain C) in PDB entry 2EG5
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 TYR 24 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C SER 3.4 3.0 + - - -
23C ALA* 1.3 77.4 - - - +
25C ASN* 1.3 61.6 + - - +
26C GLN 3.2 0.4 - - - -
27C LEU* 3.1 28.5 + - + +
28C VAL* 3.3 18.2 + - + +
158C TYR* 2.8 37.7 + + - -
295C VAL* 3.4 47.8 + - + +
296C LEU 4.1 7.9 - - - -
297C TYR* 3.6 33.0 - + - +
300C GLY 6.1 0.2 - - - +
301C PHE* 6.5 1.6 - - + -
316C SER* 5.1 1.6 - - - +
356C TYR* 3.3 19.2 - - - +
358C ASN* 4.3 0.3 + - - -
1502C XTS 3.2 39.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 25 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C TYR* 4.2 5.2 + - - -
22C SER* 3.6 14.9 + - - -
23C ALA 4.4 1.1 - - - +
24C TYR* 1.3 78.0 - - - +
26C GLN* 1.3 57.8 + - - +
27C LEU 3.3 0.2 - - - -
28C VAL* 3.4 8.4 + - - +
29C LEU* 3.0 34.3 + - + +
67C ASN* 3.1 23.1 - - - +
158C TYR* 4.0 13.1 - - - -
1501C SAH 3.9 19.0 + - - +
1502C XTS 3.1 54.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 26 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C ALA* 3.7 21.4 - - - +
24C TYR 3.2 0.8 - - - -
25C ASN* 1.3 75.4 - - - +
27C LEU* 1.3 61.9 + - + +
29C LEU* 3.5 9.1 + - - +
30C ALA* 2.8 28.2 + - - +
67C ASN* 4.6 9.5 + - - +
70C LEU* 5.6 6.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 27 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C ALA 3.9 13.2 - - - +
24C TYR* 3.1 13.4 + - + +
26C GLN* 1.3 76.7 - - + +
28C VAL* 1.3 64.9 + - - +
30C ALA* 3.2 10.7 + - + +
31C LYS* 3.1 24.6 + - - +
295C VAL* 4.0 19.7 - - + -
299C ALA* 3.8 19.1 - - + +
300C GLY* 3.5 37.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 28 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C TYR* 3.3 37.4 + - + +
25C ASN* 3.5 11.4 - - - +
26C GLN 3.4 0.2 - - - -
27C LEU* 1.3 76.7 - - - +
29C LEU* 1.3 58.7 + - + +
31C LYS* 2.9 6.9 + - - +
32C VAL* 2.9 28.4 + - + +
157C CYS* 3.8 28.3 - - - -
158C TYR* 3.9 19.3 - - + +
225C THR* 4.0 16.8 - - + -
293C PHE* 4.3 13.5 - - + -
295C VAL* 4.4 10.3 - - + +
358C ASN* 4.9 0.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 29 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C ASN 3.0 20.6 + - - +
26C GLN* 3.8 8.1 - - - +
28C VAL* 1.3 75.2 - - - +
30C ALA* 1.3 62.0 + - - +
32C VAL* 3.1 10.2 + - + +
33C LYS* 2.9 25.5 + - - +
67C ASN* 4.3 20.6 - - + +
70C LEU* 4.9 7.9 - - + -
71C THR* 3.6 31.0 - - + +
74C ASP* 4.5 13.8 - - - +
155C HIS* 5.3 4.3 - - + -
157C CYS* 3.8 31.6 - - + -
1501C SAH 3.9 12.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 30 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C GLN 2.8 15.6 + - - +
27C LEU* 3.2 16.4 + - + +
29C LEU* 1.3 76.8 - - - +
31C LYS* 1.3 59.4 + - + +
33C LYS* 3.6 10.0 + - - +
34C PRO* 3.4 16.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 31 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C LEU 3.1 12.5 + - - +
28C VAL 2.9 9.4 + - - +
30C ALA* 1.3 74.2 - - + +
32C VAL* 1.3 65.5 + - - +
34C PRO* 3.4 14.9 - - - +
35C VAL* 4.0 9.4 - - - +
291C GLU* 5.2 7.0 - - - +
293C PHE* 3.7 51.1 - - + -
294C LYS 5.8 0.9 - - - +
295C VAL* 5.1 3.1 - - + -
360C ILE* 4.4 3.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 32 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C VAL* 2.9 27.5 + - + +
29C LEU* 3.6 17.5 - - + +
31C LYS* 1.3 76.0 - - - +
33C LYS* 1.3 54.4 + - - +
35C VAL* 3.0 8.3 + - - +
36C LEU* 2.7 37.0 + - + -
155C HIS* 4.3 15.3 - - - +
157C CYS* 4.5 1.1 - - - -
223C LEU* 4.2 22.0 - - + -
225C THR* 3.6 37.0 - - + +
360C ILE* 4.0 12.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 33 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C LEU 2.9 16.2 + - - +
30C ALA* 3.7 9.2 - - - +
32C VAL* 1.3 76.0 - - - +
34C PRO* 1.4 65.8 - - + +
36C LEU* 3.1 13.1 + - + +
37C GLU* 2.8 56.6 + - + +
74C ASP* 4.0 36.3 - - + +
77C GLN* 4.6 11.2 + - - -
78C SER* 5.3 0.7 - - - +
81C LYS* 4.6 8.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 34 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C ALA 3.4 9.9 - - - +
31C LYS* 3.4 15.7 - - - +
33C LYS* 1.4 94.8 - - + +
35C VAL* 1.3 58.6 + - + +
37C GLU* 3.7 15.5 - - - +
38C GLN* 3.1 28.4 + - - +
41C ARG* 5.2 0.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 35 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C LYS 4.0 12.1 - - - +
32C VAL 3.0 9.6 + - - +
34C PRO* 1.3 75.2 - - + +
36C LEU* 1.3 55.4 + - - +
38C GLN* 3.2 16.4 + - - +
39C CYS* 2.8 36.8 + - - +
223C LEU* 4.0 11.4 - - + -
289C TYR* 3.7 43.3 - - + +
291C GLU* 4.0 10.5 - - - +
360C ILE* 3.9 24.7 - - + -
362C SER* 5.1 1.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 36 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C VAL* 2.7 21.1 + - + +
33C LYS* 3.2 14.8 - - + +
35C VAL* 1.3 71.5 - - - +
37C GLU* 1.4 56.4 + - - +
39C CYS* 3.2 3.7 + - - +
40C VAL* 2.9 46.8 + - + +
71C THR* 6.3 0.4 - - + -
74C ASP* 3.5 31.9 - - + +
75C ILE* 3.9 13.9 - - + +
78C SER* 3.3 20.0 - - - +
153C PHE* 3.7 25.4 - - + -
155C HIS* 4.8 5.8 - - + +
223C LEU* 3.5 19.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 37 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C LYS* 2.8 49.0 + - + +
34C PRO* 3.7 15.8 - - - +
36C LEU* 1.4 72.2 - - - +
38C GLN* 1.3 58.6 + - - +
40C VAL* 3.4 4.7 + - - +
41C ARG* 2.9 42.2 + - - +
78C SER* 3.5 26.9 - - - +
81C LYS* 3.1 36.4 + - + +
82C VAL* 5.3 0.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 38 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C PRO 3.1 13.1 + - - +
35C VAL* 3.2 21.2 + - - +
37C GLU* 1.3 78.3 - - - +
39C CYS* 1.3 85.9 + - - +
41C ARG* 3.4 26.2 + - - +
42C GLU* 3.1 53.0 + - + +
289C TYR* 3.9 28.2 - - - +
362C SER* 4.5 8.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 39 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C VAL 2.8 23.2 + - - +
36C LEU* 3.3 9.0 - - - +
38C GLN* 1.3 82.7 - - - +
40C VAL* 1.3 61.9 + - - +
42C GLU* 3.4 7.4 + - - +
43C LEU* 3.0 21.5 + - - +
153C PHE* 3.5 32.3 - - - -
221C ARG* 4.3 17.9 - - - +
222C MET 4.8 2.0 - - - -
223C LEU* 4.1 12.6 - - + -
362C SER* 3.9 18.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 40 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C LEU* 2.9 39.5 + - + +
37C GLU 3.6 8.3 - - - +
39C CYS* 1.3 69.5 - - - +
41C ARG* 1.3 64.9 + - - +
43C LEU* 3.4 13.1 - - + +
44C LEU* 2.9 35.4 + - + +
75C ILE* 5.2 1.8 - - + +
78C SER* 3.2 41.3 - - - +
79C ILE* 4.0 17.9 - - + +
82C VAL* 4.5 1.6 - - + -
153C PHE* 4.5 19.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 41 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C PRO 5.2 0.4 + - - -
37C GLU* 2.9 28.6 + - - +
38C GLN* 3.5 33.9 - - - +
40C VAL* 1.3 80.0 - - - +
42C GLU* 1.3 61.9 + - - +
44C LEU* 3.5 2.3 + - - +
45C ARG* 3.4 37.8 + - - +
81C LYS* 5.9 4.8 - - - +
82C VAL* 3.9 27.4 - - + +
84C GLN* 5.8 3.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 42 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C GLN* 3.1 42.6 + - + +
39C CYS* 3.8 5.3 - - - +
41C ARG* 1.3 74.6 - - + +
43C LEU* 1.3 64.3 + - - +
45C ARG* 3.6 39.2 + - - +
46C ALA* 3.1 22.5 + - - +
221C ARG* 4.5 14.8 + - - +
288C LEU* 4.1 23.0 - - - +
362C SER* 4.9 1.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 43 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C CYS 3.0 15.2 + - - +
40C VAL* 3.4 17.7 - - + +
42C GLU* 1.3 77.0 - - - +
44C LEU* 1.3 63.5 + - + +
46C ALA* 3.3 15.2 + - - +
47C ASN 3.9 2.9 + - - -
48C LEU* 3.9 28.6 - - + +
51C ILE* 3.9 14.4 - - + +
55C ILE* 4.0 26.9 - - + -
152C HIS* 4.0 11.0 - - + +
153C PHE* 4.2 17.9 - - + -
219C HIS 4.3 3.6 - - - +
221C ARG* 3.9 27.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 44 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C VAL* 2.9 20.1 + - + +
41C ARG 4.1 3.6 - - - +
42C GLU 3.4 0.4 - - - -
43C LEU* 1.3 78.0 - - + +
45C ARG* 1.3 59.0 + - - +
46C ALA 3.4 0.2 - - - -
47C ASN* 3.5 21.5 + - - +
51C ILE* 4.1 31.7 - - + +
52C ASN* 4.5 9.8 - - - +
55C ILE* 4.6 17.5 - - + -
79C ILE* 4.0 26.5 - - + +
82C VAL* 3.7 42.2 - - + -
93C PRO* 5.9 3.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 45 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C ARG* 3.4 30.3 + - - +
42C GLU* 3.6 40.3 + - - +
44C LEU* 1.3 75.9 - - - +
46C ALA* 1.3 59.3 + - - +
47C ASN* 3.0 13.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 46 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C GLU 3.1 16.7 + - - +
43C LEU* 3.3 9.3 + - - +
45C ARG* 1.3 76.8 - - - +
47C ASN* 1.3 69.5 + - - +
48C LEU* 4.1 14.2 - - + +
219C HIS* 4.7 10.2 - - + +
221C ARG* 3.9 22.7 - - - +
----------------------------------------------------------
Back to top of page
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