Contacts of the helix formed by residues 30 - 55 (chain C) in PDB entry 3EXG
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 30 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3C ASN 4.3 1.5 + - - +
28C THR* 2.5 12.6 + - - +
29C ARG* 1.3 86.0 - - + +
31C ASP* 1.3 69.6 + - - +
33C LEU* 3.4 20.7 - - + +
34C LYS* 3.7 5.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 31 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C LEU* 4.2 6.5 - - + -
28C THR* 2.7 38.4 + - + +
30C GLU* 1.3 73.9 + - - +
32C GLY* 1.3 54.0 + - - +
33C LEU 2.9 4.5 - - - -
34C LYS* 2.6 54.0 + - - +
35C TYR* 3.0 30.8 + - + -
234C ARG* 4.9 2.8 + - - +
238C ARG* 5.9 0.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 32 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C LEU* 3.3 29.8 - - - +
28C THR 3.1 8.3 + - - -
29C ARG 4.0 0.4 - - - -
31C ASP* 1.3 75.2 - - - +
33C LEU* 1.3 56.6 + - - +
34C LYS 3.3 0.4 - - - -
35C TYR* 3.7 14.1 - - - -
36C TYR* 3.3 18.0 + - - +
291C LEU* 3.9 4.1 - - - +
295C MET* 2.9 22.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 33 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C ARG* 3.2 35.9 + - - +
30C GLU* 3.4 16.4 - - + +
31C ASP 2.8 1.0 + - - -
32C GLY* 1.3 78.0 - - - +
34C LYS* 1.3 58.5 + - - +
36C TYR* 3.8 3.3 - - - +
37C ARG* 3.3 25.5 + - - +
295C MET* 3.5 20.2 - - + -
300C LEU 5.1 0.7 - - - +
301C ALA* 3.9 17.5 - - + -
305C GLU* 5.0 7.2 - - + +
306C LEU* 4.3 12.8 - - + -
309C ILE* 4.6 12.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 34 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C GLU 4.4 4.3 - - - +
31C ASP* 2.6 29.3 + - - +
33C LEU* 1.3 79.5 - - - +
35C TYR* 1.3 69.2 + - - -
36C TYR 3.2 0.2 - - - -
37C ARG* 4.0 10.6 - - - +
38C MET* 3.1 60.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 35 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C LEU* 4.0 11.2 - - + -
31C ASP* 3.0 26.5 + - + -
32C GLY* 3.7 19.5 - - - +
34C LYS* 1.3 93.2 - - - +
36C TYR* 1.3 65.8 + - - +
38C MET* 4.0 12.7 - - + +
39C MET* 3.0 29.5 + - - +
73C VAL* 4.2 11.8 - - + +
77C ALA* 3.4 34.2 + - + +
230C ILE* 3.9 27.4 - - + -
231C LEU* 5.1 3.6 - - + -
234C ARG* 3.3 36.0 + - - -
238C ARG* 4.7 1.7 + - - -
291C LEU* 4.2 9.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 36 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C GLY 3.3 16.6 + - - +
33C LEU* 3.8 6.1 - - - +
34C LYS 3.2 0.6 - - - -
35C TYR* 1.3 82.1 - - - +
37C ARG* 1.3 69.2 + - - +
39C MET* 3.0 4.0 + - + +
40C GLN* 2.8 41.0 + - + +
288C ILE* 3.5 29.6 - - + +
291C LEU* 3.6 22.3 - - + +
292C LYS* 4.1 15.9 - - + +
295C MET* 5.0 1.3 - - + -
306C LEU* 4.0 42.5 - - + +
309C ILE* 3.7 22.2 - - + -
310C ASP* 2.8 34.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 37 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C LEU 3.3 15.7 + - - +
34C LYS* 3.5 10.7 + - - +
36C TYR* 1.3 82.7 - - - +
38C MET* 1.3 57.2 + - + +
40C GLN* 3.4 4.4 + - - +
41C THR* 2.7 42.1 + - - +
309C ILE* 2.9 39.0 - - + +
312C GLU* 3.1 32.9 + - - +
313C VAL* 4.1 13.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 38 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C LYS* 3.1 65.6 + - + +
35C TYR* 4.0 5.4 - - + -
36C TYR 3.0 0.4 + - - -
37C ARG* 1.3 73.8 - - + +
39C MET* 1.3 69.5 + - - +
40C GLN 2.8 2.5 + - - -
41C THR* 2.8 16.5 + - - -
42C VAL* 3.0 14.2 + - - +
73C VAL* 3.9 31.6 - - + -
76C GLU* 5.8 8.1 - - + -
96C PHE* 4.3 18.4 - - + -
97C THR* 4.9 17.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 39 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C TYR 3.0 12.7 + - - +
36C TYR* 3.0 5.4 + - - +
38C MET* 1.3 75.1 - - - +
40C GLN* 1.3 62.3 + - - +
42C VAL* 3.2 5.3 + - - +
43C ARG* 3.0 18.7 + - - +
69C GLU* 3.7 27.7 - - + +
70C ALA* 4.1 10.8 - - - -
73C VAL* 3.6 25.2 - - + +
230C ILE* 4.7 12.8 - - + -
287C PRO* 3.5 27.4 - - - +
288C ILE* 3.6 34.0 - - + +
291C LEU* 3.6 31.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 40 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C TYR* 2.8 54.2 + - + +
37C ARG* 3.6 6.1 - - - +
38C MET 2.8 1.6 + - - -
39C MET* 1.3 71.4 - - - +
41C THR* 1.3 63.7 + - - +
43C ARG* 3.0 18.8 + - - +
44C ARG* 3.0 53.1 + - - +
288C ILE* 3.8 24.0 - - + +
309C ILE 6.0 0.7 - - - +
310C ASP* 3.5 25.7 - - - +
313C VAL* 4.3 9.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 41 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C ARG* 2.7 25.9 + - - +
38C MET* 2.8 8.8 + - - -
40C GLN* 1.3 76.9 - - - +
42C VAL* 1.3 62.9 + - - +
43C ARG 3.3 0.2 + - - -
44C ARG* 3.4 2.1 + - - +
45C MET* 3.1 21.2 + - + +
96C PHE* 3.5 33.1 - - + -
102C VAL* 3.7 24.2 - - + -
313C VAL* 3.3 25.4 - - + +
316C GLU* 6.0 3.5 - - + +
317C ILE* 4.1 6.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 42 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C MET 3.0 13.5 + - - +
39C MET* 3.7 7.9 - - - +
41C THR* 1.3 75.1 - - - +
43C ARG* 1.3 63.6 + - - +
45C MET* 3.2 9.3 + - - +
46C GLU* 3.0 25.5 + - + +
65C CYS* 3.7 29.6 - - - -
69C GLU* 3.7 17.9 - - + -
72C CYS* 4.5 6.5 - - - -
73C VAL* 5.1 0.9 - - + -
93C GLY* 3.9 23.1 - - - +
96C PHE* 3.7 26.7 - - + -
97C THR* 4.4 8.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 43 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C MET 3.0 11.4 + - - +
40C GLN* 3.0 21.5 + - - +
42C VAL* 1.3 77.7 - - - +
44C ARG* 1.3 69.9 + - - +
45C MET 3.1 0.2 - - - -
46C GLU* 3.4 3.8 + - - +
47C LEU* 2.9 40.7 + - - +
66C ASP* 3.6 14.7 + - - +
67C GLY 3.9 0.2 - - - +
69C GLU* 2.6 47.2 + - - +
260C TYR* 3.6 16.4 - - - -
282C ARG* 4.6 8.4 - - - +
286C ASP* 2.8 37.9 + - - -
287C PRO* 4.1 3.8 - - - +
288C ILE* 3.8 14.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 44 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C GLN* 3.0 40.8 + - - +
41C THR 4.1 0.7 - - - +
43C ARG* 1.3 80.1 - - - +
45C MET* 1.3 62.8 + - - +
47C LEU* 3.5 33.7 - - - +
48C LYS* 3.2 21.5 + - - +
310C ASP 6.1 0.2 - - - +
313C VAL* 3.5 17.9 - - + -
314C ARG* 3.3 47.8 - - - +
317C ILE* 3.5 26.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 45 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C THR* 3.1 17.1 + - + +
42C VAL* 3.6 10.1 - - - +
43C ARG 3.1 0.2 - - - -
44C ARG* 1.3 77.7 - - - +
46C GLU* 1.3 66.2 + - - +
48C LYS* 2.9 7.4 + - - +
49C ALA* 2.8 33.5 + - + +
92C HIS* 4.7 11.4 - - - +
96C PHE* 4.5 7.4 - - + -
102C VAL* 3.4 51.8 - - + +
105C ILE* 3.5 38.4 - - + -
106C LEU* 4.4 13.6 - - + +
317C ILE* 3.8 11.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 46 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C VAL* 3.0 19.9 + - + +
43C ARG 3.7 4.7 - - - +
45C MET* 1.3 85.3 - - + +
47C LEU* 1.3 57.3 + - - +
49C ALA* 3.7 6.0 - - - +
50C ASP* 3.1 27.2 + - - +
63C HIS 3.5 0.9 - - - +
64C LEU* 3.1 26.7 - - + +
65C CYS* 2.7 46.9 + - - +
66C ASP* 4.4 16.8 - - + +
92C HIS* 2.9 39.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 47 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C ARG* 2.9 31.5 + - - +
44C ARG* 3.5 36.6 - - - +
45C MET 3.2 0.2 - - - -
46C GLU* 1.3 76.6 - - - +
48C LYS* 1.3 62.7 + - - +
50C ASP* 3.5 9.0 + - + +
51C GLN* 3.3 22.0 + - - +
66C ASP* 4.2 11.7 - - - +
261C HIS* 4.1 26.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 48 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44C ARG 3.2 16.0 + - - +
45C MET* 2.9 10.4 + - - +
47C LEU* 1.3 72.6 - - - +
49C ALA* 1.3 66.9 + - - +
51C GLN* 3.1 34.5 + - - +
52C LEU* 2.9 30.7 + - + +
106C LEU* 3.8 24.0 - - + -
317C ILE* 3.7 21.8 - - + -
318C GLU* 3.9 20.5 + - - -
321C ALA* 3.6 21.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 49 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C MET* 2.8 14.6 + - + +
46C GLU* 3.7 10.5 - - - +
48C LYS* 1.3 76.5 - - - +
50C ASP* 1.3 58.6 + - - +
52C LEU* 2.8 20.7 + - - +
53C TYR* 2.8 16.4 + - - +
58C ILE* 3.5 10.2 - - + +
62C CYS* 4.5 2.2 - - - -
64C LEU* 4.2 14.4 - - + -
106C LEU* 4.4 7.8 - - + +
109C LEU* 4.1 24.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 50 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C GLU 3.1 14.9 + - - +
47C LEU* 3.7 12.9 - - - +
48C LYS 3.3 0.2 - - - -
49C ALA* 1.3 80.4 - - - +
51C GLN* 1.3 60.1 + - - +
53C TYR* 3.5 10.9 + - - +
54C LYS* 3.0 50.4 + - - +
62C CYS* 5.4 0.2 - - - -
64C LEU* 3.5 18.8 - - + +
261C HIS* 3.7 29.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 51 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C LEU 3.3 10.8 + - - +
48C LYS* 3.1 39.6 + - - +
49C ALA 3.0 0.6 - - - -
50C ASP* 1.3 83.5 - - - +
52C LEU* 1.3 68.5 + - - +
54C LYS* 3.6 6.1 + - + +
55C GLN* 3.1 53.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 52 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C LYS* 2.9 33.1 + - + +
49C ALA 2.8 8.6 + - - +
51C GLN* 1.3 88.3 - - - +
53C TYR* 1.3 57.5 + - - +
55C GLN* 3.5 19.0 - - - +
56C LYS 3.2 4.7 + - - -
57C ILE* 3.0 35.6 + - + +
58C ILE* 3.5 14.7 + - + -
106C LEU* 4.6 15.5 - - + -
110C THR* 3.8 23.3 - - + -
321C ALA* 4.8 9.9 - - + -
324C ALA* 5.2 1.3 - - + -
325C THR* 4.3 21.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 53 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49C ALA 2.8 14.9 + - - +
50C ASP* 3.6 14.4 - - - +
52C LEU* 1.3 75.2 - - - +
54C LYS* 1.3 64.9 + - + +
55C GLN 3.1 1.3 - - - -
56C LYS* 2.8 27.8 + - - +
58C ILE* 3.7 34.5 - - + +
59C ARG* 4.7 1.1 - - - -
60C GLY 3.1 26.6 + - - -
61C PHE* 4.2 0.8 - - - -
62C CYS* 3.1 39.6 + - + -
64C LEU* 6.3 1.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 54 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C ASP* 3.0 42.9 + - - +
51C GLN* 4.0 7.0 - - - +
53C TYR* 1.3 80.2 - - + +
55C GLN* 1.3 61.6 + - + +
56C LYS* 3.6 10.4 + - - +
261C HIS* 5.6 3.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 55 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C GLN* 3.1 51.8 + - + +
52C LEU* 3.5 16.0 - - - +
54C LYS* 1.3 79.3 - - - +
56C LYS* 1.3 69.3 + - - +
57C ILE* 3.5 30.7 + - + +
----------------------------------------------------------
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