Contacts of the helix formed by residues 27 - 51 (chain C) in PDB entry 1C03
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 PHE 27 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A HIS* 3.8 29.4 - + - -
67A LYS* 3.9 18.2 - - + -
68A GLY* 4.2 17.7 - - - -
71A ALA* 4.7 2.9 - - + -
17C ILE* 3.7 31.6 - - + -
20C MET* 3.5 39.7 - - + -
21C ASP* 3.2 9.9 - - - +
24C ASP* 3.2 31.3 + - + +
25C SER 3.3 2.8 + - - -
26C ASP* 1.3 74.4 - - - +
28C SER* 1.3 65.8 + - - +
30C GLY* 2.7 21.1 + - - -
31C LEU* 3.0 32.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 28 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C LEU* 5.6 2.0 - - - -
17C ILE* 4.2 23.6 - - - -
18C ILE* 4.3 8.5 - - - -
21C ASP* 2.7 36.5 + - - -
27C PHE* 1.3 76.3 - - - +
29C LYS* 1.3 65.1 + - - +
30C GLY 3.1 0.3 + - - -
31C LEU* 3.2 5.8 + - - +
32C ILE* 3.0 27.1 + - - +
73C LEU* 5.7 0.2 - - - +
163C TYR* 2.8 31.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 29 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C ASP* 4.9 0.2 + - - -
25C SER 5.7 0.9 - - - +
26C ASP* 3.8 30.0 + - + +
27C PHE 3.2 0.8 - - - +
28C SER* 1.3 81.4 + - - +
30C GLY* 1.3 58.0 + - - +
32C ILE* 3.7 5.8 - - + +
33C ILE* 3.1 53.5 + - + +
163C TYR* 3.6 37.6 + - + +
165C THR* 3.5 29.5 - - - +
167C LEU* 5.0 6.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 30 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A HIS* 5.4 9.0 - - - -
26C ASP 3.2 13.8 + - - -
27C PHE 2.7 10.4 + - - -
29C LYS* 1.3 78.0 - - - +
31C LEU* 1.3 58.6 + - - -
33C ILE* 3.4 7.6 + - - +
34C GLN* 3.0 28.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 31 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A HIS* 5.0 9.2 - - + +
68A GLY* 4.3 24.5 - - - +
17C ILE* 3.8 33.4 - - + -
27C PHE* 3.0 34.7 + - + +
28C SER 3.2 6.5 + - - +
30C GLY* 1.3 73.3 - - - +
32C ILE* 1.3 55.6 + - - +
34C GLN* 2.9 25.4 + - - +
35C PHE* 2.8 33.8 + - - +
73C LEU* 4.0 24.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 32 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C LEU* 5.2 8.5 - - + -
28C SER 3.0 14.5 + - - +
29C LYS* 3.7 6.3 - - - +
31C LEU* 1.3 75.0 - - + +
33C ILE* 1.3 58.5 + - - +
35C PHE* 3.2 6.0 + - + +
36C ILE* 3.0 43.8 + - + +
73C LEU* 4.1 21.5 - - + +
159C LEU* 4.1 32.8 - - + -
163C TYR* 3.5 46.4 - - + +
167C LEU* 4.1 14.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 33 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C LYS* 3.1 52.2 + - + +
30C GLY* 3.9 6.7 - - - +
32C ILE* 1.3 74.3 - - - +
34C GLN* 1.3 65.4 + - - +
36C ILE* 3.7 10.9 + - + +
37C ASP* 3.6 17.3 + - - +
167C LEU* 4.5 18.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 34 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A HIS* 5.0 13.9 + - - -
65A PHE* 5.6 8.7 - - - +
30C GLY 3.0 13.7 + - - +
31C LEU* 2.9 26.5 + - - +
33C ILE* 1.3 75.8 - - - +
35C PHE* 1.3 65.1 + - - +
37C ASP* 3.2 7.0 + - - +
38C GLN* 3.1 41.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 35 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C LEU 2.8 6.3 + - - +
32C ILE* 3.4 10.8 - - + +
34C GLN* 1.3 78.0 - - - +
36C ILE* 1.3 58.2 + - + +
38C GLN* 4.4 9.9 - - - +
39C ALA* 2.8 45.0 + - + +
66C LEU* 3.5 27.1 - - + -
69C SER* 3.8 25.4 - - - -
70C SER* 4.0 13.9 - - - -
73C LEU* 3.5 22.9 - - + -
75C LEU* 3.4 31.4 - - + -
78C ILE* 4.0 18.2 - - + -
152C PHE* 3.8 22.2 - + - -
155C ALA* 5.7 0.4 - - + -
159C LEU* 6.3 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 36 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C ILE* 3.0 38.2 + - + +
33C ILE* 3.9 12.6 - - + +
34C GLN 3.3 0.2 - - - -
35C PHE* 1.3 79.7 - - + +
37C ASP* 1.3 59.2 + - - +
40C GLN* 3.4 41.4 + - - +
152C PHE* 3.5 18.5 - - + -
156C ARG* 3.5 27.4 - - + +
159C LEU* 6.2 1.1 - - + -
167C LEU* 3.5 32.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 37 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45B GLN* 4.1 17.9 + - - -
48B ARG* 4.6 8.3 + - - -
33C ILE 3.6 8.3 + - - +
34C GLN* 3.2 8.8 + - - +
35C PHE 3.2 0.4 - - - -
36C ILE* 1.3 78.8 - - - +
38C GLN* 1.3 65.9 + - - +
40C GLN* 3.5 14.7 + - - +
41C THR* 2.9 36.0 + - - -
----------------------------------------------------------
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 GLN* 3.1 35.8 + - + +
35C PHE* 3.2 12.8 + - + +
37C ASP* 1.3 77.4 + - - +
39C ALA* 1.3 57.3 + - - +
41C THR* 2.8 23.1 + - - -
42C THR* 2.9 20.3 + - - +
65C PHE* 3.4 35.4 - - + -
66C LEU* 5.7 0.7 - - + -
69C SER* 3.4 20.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 39 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C PHE* 2.8 36.5 + - + +
38C GLN* 1.3 71.5 - - - +
40C GLN* 1.3 62.8 + - - +
41C THR 3.1 0.3 + - - -
42C THR* 3.2 1.9 + - - -
43C PHE* 3.0 36.2 + - + -
66C LEU* 4.0 16.9 - - + +
152C PHE* 3.5 29.8 - - + -
----------------------------------------------------------
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
----------------------------------------------------------
48B ARG* 3.2 47.8 + - - +
36C ILE* 3.4 30.7 + - - +
37C ASP* 3.8 12.5 + - - +
38C GLN 3.3 0.6 - - - -
39C ALA* 1.3 79.0 - - - +
41C THR* 1.3 62.1 + - - +
43C PHE* 4.0 9.0 - - + +
44C ALA* 3.4 14.6 + - - +
152C PHE* 3.7 10.7 - - + -
156C ARG* 3.2 28.1 + - - +
----------------------------------------------------------
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
----------------------------------------------------------
41B THR* 4.2 25.1 - - + -
45B GLN* 4.7 6.4 + - + -
48B ARG* 3.2 22.4 + - - +
37C ASP* 2.9 21.1 + - - -
38C GLN* 2.8 11.9 + - - -
40C GLN* 1.3 78.9 - - - +
42C THR* 1.3 59.2 + - + +
44C ALA* 3.3 5.8 + - + +
45C GLN* 3.0 36.9 + - + +
48C ARG* 5.3 0.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 42 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C GLN* 2.9 16.5 + - - +
39C ALA* 3.4 2.1 + - - -
41C THR* 1.3 74.8 - - + +
43C PHE* 1.3 59.6 + - - +
44C ALA 3.1 0.4 - - - -
45C GLN* 2.9 13.8 + - - +
46C MET* 2.7 41.7 + - - +
62C LEU* 4.5 16.2 - - + -
65C PHE* 3.5 36.1 - - + -
66C LEU* 3.1 28.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 43 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C ALA* 3.0 21.0 + - + +
40C GLN* 4.0 7.4 - - + +
42C THR* 1.3 82.0 + - - +
44C ALA* 1.3 57.1 + - - +
46C MET* 3.3 7.4 + - - +
47C GLN* 2.9 29.3 + - - +
66C LEU* 3.4 29.2 - - + -
78C ILE* 5.1 7.0 - - + -
82C CYS* 5.6 1.3 - - - -
145C LEU* 3.4 25.3 - - + +
148C SER* 3.6 37.5 - - - -
149C ARG* 4.2 24.4 + - + +
152C PHE* 3.8 36.6 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 44 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
44B ALA* 5.1 1.3 - - + -
48B ARG* 3.9 13.9 - - - +
40C GLN 3.4 11.2 + - - +
41C THR* 3.3 9.5 + - + +
42C THR 3.1 0.8 - - - -
43C PHE* 1.3 79.1 - - - +
45C GLN* 1.3 56.6 + - - +
47C GLN* 3.4 7.4 + - - +
48C ARG* 3.0 51.3 + - - +
149C ARG* 5.7 0.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 45 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B ASP* 4.1 21.6 + - - -
41B THR* 4.7 7.1 + - + +
41C THR* 3.0 30.9 + - + +
42C THR* 2.9 16.1 + - - +
44C ALA* 1.3 74.3 - - - +
46C MET* 1.3 64.9 + - - +
48C ARG* 3.5 23.3 + - - +
49C GLN* 3.4 23.6 + - - +
62C LEU* 4.0 28.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 46 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C THR* 2.7 29.4 + - - +
43C PHE* 3.5 10.1 - - + +
45C GLN* 1.3 73.0 - - - +
47C GLN* 1.3 61.8 + - - +
49C GLN* 3.2 4.9 + - - +
50C LEU* 3.1 25.9 + - - +
59C LEU* 3.6 18.6 - - + +
62C LEU* 3.5 26.5 - - + +
63C GLY* 3.5 34.8 - - - +
66C LEU* 4.5 9.9 - - + -
82C CYS* 5.2 1.6 - - - -
85C ILE* 4.2 24.7 - - + -
141C ILE* 6.3 1.3 - - + -
145C LEU* 3.9 27.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 47 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C PHE 2.9 17.7 + - - +
44C ALA* 3.7 9.0 - - - +
45C GLN 3.3 0.2 - - - -
46C MET* 1.3 73.3 - - - +
48C ARG* 1.3 64.4 + - - +
49C GLN 3.2 0.2 - - - -
50C LEU* 3.6 11.7 + - - +
51C ASP* 3.2 43.4 + - - +
122C GLU* 3.3 26.5 - - + +
123C GLU 5.3 2.6 - - - +
142C ALA* 6.3 0.4 - - - +
145C LEU* 3.8 9.7 - - + +
149C ARG* 2.7 37.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 48 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B ASP* 4.6 9.2 + - - -
40B GLN* 3.2 52.9 + - - +
41B THR* 3.3 30.3 + - - +
44B ALA* 3.9 13.5 - - - +
48B ARG* 5.3 0.2 - - - +
41C THR 5.3 0.2 + - - -
44C ALA* 3.0 43.6 + - - +
45C GLN* 3.6 23.7 - - - +
46C MET 3.2 0.2 - - - -
47C GLN* 1.3 77.3 - - - +
49C GLN* 1.3 58.8 + - - +
51C ASP* 3.9 5.9 - - - +
52C GLY* 3.1 22.0 + - - -
53C GLU 4.3 0.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 49 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C GLN 3.4 11.9 + - - +
46C MET* 3.2 9.4 + - - +
47C GLN 3.2 0.2 - - - -
48C ARG* 1.3 78.1 - - - +
50C LEU* 1.3 66.8 + - - +
51C ASP 3.0 1.6 - - - -
52C GLY 3.0 5.9 + - - +
53C GLU* 3.1 41.3 + - - +
54C LYS* 2.8 27.0 + - - +
55C ASN* 3.3 28.8 - - - +
58C GLU* 3.5 27.0 + - + +
59C LEU* 3.9 14.6 - - + -
62C LEU* 4.8 4.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 50 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C MET 3.1 17.8 + - - +
47C GLN* 3.8 19.7 - - - +
49C GLN* 1.3 78.5 - - - +
51C ASP* 1.3 59.6 + - - +
54C LYS* 2.9 32.2 + - - +
59C LEU* 3.9 25.4 - - + -
126C ILE* 5.1 1.9 - - - +
138C LEU* 3.9 25.7 - - + +
141C ILE* 4.0 11.0 - - + -
142C ALA* 4.0 29.2 - - + +
145C LEU* 3.7 26.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 51 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C GLN* 3.2 40.0 + - - +
48C ARG* 3.9 5.3 - - - +
49C GLN 3.0 0.4 - - - -
50C LEU* 1.3 80.8 - - - +
52C GLY* 1.3 59.1 + - - +
54C LYS* 4.5 6.0 - - - +
123C GLU 5.5 2.9 - - - +
125C LYS* 5.7 5.7 + - - +
----------------------------------------------------------
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