Contacts of the helix formed by residues 15 - 41 (chain C) in PDB entry 3R45
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 ASP 15 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A HIS* 3.7 18.6 + - + -
14C GLU* 1.3 77.3 - - - +
16C ASP* 1.3 65.3 + - - +
17C GLN 3.1 0.7 - - - -
18C LEU* 3.2 15.0 + - - +
19C LEU* 3.3 26.9 + - - +
84C SO4 3.3 34.7 + - - -
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Residues in contact with ASP 16 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C GLU 4.6 0.8 - - - +
15C ASP* 1.3 79.6 + - - +
17C GLN* 1.3 67.3 + - + +
19C LEU* 3.6 9.5 + - - +
20C GLN* 3.4 20.8 + - - +
23C ARG* 5.2 1.7 + - - -
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Residues in contact with GLN 17 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C GLU* 3.5 45.6 - - + +
15C ASP 3.1 0.2 - - - -
16C ASP* 1.3 81.9 - - + +
18C LEU* 1.3 65.5 + - - +
20C GLN* 3.5 9.7 + - - +
21C LYS* 3.1 31.2 + - + +
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Residues in contact with LEU 18 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A LEU* 3.9 39.7 - - + +
112A LEU* 4.2 16.8 - - + -
115A HIS* 3.9 30.3 - - + +
132A ILE* 6.2 0.7 - - + -
14C GLU* 3.2 21.2 + - + +
15C ASP* 3.2 12.5 + - - +
17C GLN* 1.3 74.4 - - - +
19C LEU* 1.3 72.0 + - + +
21C LYS* 3.0 8.4 + - - +
22C LEU* 2.9 37.6 + - + +
84C SO4 5.0 8.1 - - - +
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Residues in contact with LEU 19 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15C ASP* 3.3 22.7 + - - +
16C ASP* 4.0 9.2 - - - +
17C GLN 3.4 0.2 - - - -
18C LEU* 1.3 84.3 - - + +
20C GLN* 1.3 56.5 + - - +
22C LEU* 3.2 20.7 + - + +
23C ARG* 2.9 48.9 + - + +
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Residues in contact with GLN 20 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C ASP* 3.4 13.2 + - - +
17C GLN* 3.7 11.2 - - - +
18C LEU 3.1 0.4 - - - -
19C LEU* 1.3 79.4 - - - +
21C LYS* 1.3 82.7 + - - +
23C ARG* 3.2 32.3 + - - +
24C ALA* 3.0 35.0 + - - +
27C ARG* 4.9 0.6 - - - +
81C SO4 3.8 16.8 + - - +
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Residues in contact with LYS 21 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A LEU* 3.6 33.6 - - + +
17C GLN* 3.1 18.5 + - + +
18C LEU* 3.0 10.6 + - - +
20C GLN* 1.3 100.1 + - - +
22C LEU* 1.3 57.8 + - - +
24C ALA* 3.4 7.9 + - + +
25C SER* 2.9 30.8 + - - -
28C ARG* 4.9 2.9 + - - +
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Residues in contact with LEU 22 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108A ASP* 3.8 34.0 - - + +
111A LEU* 3.7 19.7 - - + -
112A LEU* 5.1 3.6 - - + -
132A ILE* 4.1 34.8 - - + -
136A GLU* 4.2 11.6 - - - +
18C LEU* 2.9 34.7 + - + +
19C LEU* 3.2 21.3 + - + +
21C LYS* 1.3 76.0 - - - +
23C ARG* 1.3 56.1 + - + +
25C SER* 3.4 3.4 - - - -
26C ARG* 2.9 30.7 + - - +
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Residues in contact with ARG 23 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A GLU* 4.9 2.7 - - - +
16C ASP 5.2 1.2 + - - -
19C LEU* 2.9 35.6 + - + +
20C GLN* 3.2 34.8 - - - +
22C LEU* 1.3 74.0 - - + +
24C ALA* 1.3 65.3 + - - +
26C ARG* 3.6 21.4 + - - +
27C ARG* 3.2 39.5 + - - +
81C SO4 2.9 38.5 + - - +
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Residues in contact with ALA 24 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C GLN* 3.0 26.7 + - - +
21C LYS* 3.6 10.3 - - + +
22C LEU 3.3 0.2 - - - -
23C ARG* 1.3 76.0 - - - +
25C SER* 1.3 62.9 + - - +
27C ARG* 3.2 23.1 + - - +
28C ARG* 3.1 43.0 + - - +
86C GOL 4.9 1.0 - - - -
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Residues in contact with SER 25 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A HIS* 3.3 16.6 + - - -
107A GLU* 3.5 19.2 + - - +
108A ASP* 2.6 27.2 + - - -
111A LEU* 4.6 6.1 - - - -
21C LYS 2.9 18.9 + - - -
22C LEU* 3.4 5.6 - - - -
24C ALA* 1.3 73.5 - - - +
26C ARG* 1.3 66.6 + - - +
27C ARG 3.3 0.2 + - - -
28C ARG* 3.4 19.2 + - - +
29C PHE 3.1 17.0 + - - -
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Residues in contact with ARG 26 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A HIS* 3.7 15.8 - - + +
108A ASP* 6.0 0.2 - - - +
136A GLU* 3.3 38.7 + - - +
22C LEU 2.9 15.6 + - - +
23C ARG* 3.8 30.7 + - - +
25C SER* 1.3 75.1 + - - +
27C ARG* 1.3 78.7 + - - +
29C PHE* 3.1 6.1 + - + +
30C GLN* 2.9 65.0 + - + +
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Residues in contact with ARG 27 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C GLN* 4.9 1.0 - - - +
23C ARG* 3.2 26.2 + - - +
24C ALA* 3.6 26.4 - - - +
25C SER 3.2 0.4 - - - -
26C ARG* 1.3 98.2 - - - +
28C ARG* 1.3 66.2 + - - +
30C GLN* 3.2 10.8 + - - +
31C ARG* 2.9 27.6 + - + +
81C SO4 2.7 44.1 + - - -
86C GOL 3.9 16.5 + - - +
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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
----------------------------------------------------------
107A GLU* 2.8 35.0 + - - +
111A LEU* 6.3 0.4 - - - +
21C LYS* 4.9 2.6 + - - +
24C ALA* 3.1 27.5 + - - +
25C SER* 3.4 23.6 + - - +
27C ARG* 1.3 75.3 - - - +
29C PHE* 1.3 57.3 + - - +
31C ARG* 3.6 2.5 + - - +
32C ARG* 3.0 30.5 + - - +
35C ARG* 4.6 1.9 + - - -
86C GOL 3.4 32.7 - - - +
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Residues in contact with PHE 29 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100A ALA* 3.7 22.4 - - + -
101A PHE* 3.8 30.3 - + + -
104A HIS* 3.5 47.3 - + + +
133A ARG* 6.4 2.5 - - + -
61B PHE* 6.2 0.7 - + - -
25C SER 3.1 8.7 + - - +
26C ARG* 3.3 10.3 - - + +
27C ARG 3.1 0.2 - - - -
28C ARG* 1.3 76.6 - - - +
30C GLN* 1.3 58.2 + - + +
32C ARG* 3.2 7.2 + - + +
33C MET* 2.8 69.1 + - + +
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Residues in contact with GLN 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 ARG* 2.9 54.2 + - + +
27C ARG* 3.2 13.9 + - - +
29C PHE* 1.3 78.3 - - + +
31C ARG* 1.3 65.6 + - + +
33C MET* 3.3 6.9 + - - +
34C GLN* 3.0 24.8 + - - +
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Residues in contact with ARG 31 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C ARG* 2.9 16.7 + - + +
28C ARG 3.9 2.7 - - - +
30C GLN* 1.3 72.2 - - + +
32C ARG* 1.3 58.1 + - - +
34C GLN* 3.2 7.3 + - - +
35C ARG* 2.9 52.8 + - - +
86C GOL 3.4 33.6 + - - +
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Residues in contact with ARG 32 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96A GLU* 2.9 34.4 + - - +
100A ALA* 4.1 23.4 - - + +
28C ARG 3.0 19.4 + - - +
29C PHE* 3.4 8.7 - - + +
31C ARG* 1.3 77.2 - - - +
33C MET* 1.3 61.1 + - - +
35C ARG* 3.3 31.9 + - - +
36C LEU* 3.1 53.9 + - + +
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Residues in contact with MET 33 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A ALA* 4.2 13.9 - - + +
100A ALA* 4.2 9.6 - - - -
61B PHE* 6.0 1.6 - - + -
90B LEU* 4.2 37.7 - - + +
29C PHE* 2.8 60.0 + - + +
30C GLN* 3.8 6.5 - - - +
32C ARG* 1.3 72.8 - - - +
34C GLN* 1.3 57.9 + - - +
36C LEU* 3.3 17.6 + - + +
37C ILE* 2.9 40.5 + - + +
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Residues in contact with GLN 34 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91B LYS* 6.0 1.6 - - - +
30C GLN 3.0 17.3 + - - +
31C ARG* 3.6 7.0 - - - +
33C MET* 1.3 76.3 - - - +
35C ARG* 1.3 63.5 + - - +
37C ILE* 4.1 23.5 - - - +
38C GLU* 3.1 55.7 + - - +
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Residues in contact with ARG 35 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C ARG 4.6 2.4 + - - -
31C ARG* 2.9 32.7 + - - +
32C ARG* 3.6 50.3 - - - +
34C GLN* 1.3 76.3 - - - +
36C LEU* 1.3 59.0 + - - +
38C GLU* 3.5 10.0 + - - +
39C LYS* 3.0 31.3 + - - +
86C GOL 3.1 27.1 + - - -
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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
----------------------------------------------------------
93A ALA 5.0 0.9 - - - +
96A GLU* 3.4 31.6 - - + +
97A ALA* 3.5 42.4 - - + +
100A ALA* 4.6 1.3 - - + -
87B VAL* 4.7 0.4 - - - +
90B LEU* 5.4 4.7 - - + -
32C ARG* 3.1 37.7 + - - +
33C MET* 3.4 25.1 - - + +
35C ARG* 1.3 77.0 - - - +
37C ILE* 1.3 57.6 + - + +
39C LYS* 3.3 7.2 + - + -
40C TYR* 3.1 50.7 + - + +
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Residues in contact with ILE 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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87B VAL* 3.7 27.6 - - + +
90B LEU* 4.3 29.8 - - + -
91B LYS* 4.2 35.4 - - + +
33C MET* 2.9 30.0 + - + +
34C GLN* 3.9 26.7 - - - +
36C LEU* 1.3 73.7 - - + +
38C GLU* 1.3 65.8 + - + +
41C ASN* 3.1 26.6 + - + +
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Residues in contact with GLU 38 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C GLN* 3.1 48.3 + - - +
35C ARG* 4.0 9.3 - - - +
37C ILE* 1.3 77.1 - - + +
39C LYS* 1.3 61.5 + - - +
40C TYR 3.6 0.2 + - - -
41C ASN* 3.8 11.6 + - - +
42C GLN* 4.5 5.4 + - - -
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Residues in contact with LYS 39 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A HIS* 5.4 5.5 + - - -
96A GLU* 2.8 30.7 + - - -
35C ARG 3.0 18.8 + - - +
36C LEU* 3.7 8.3 - - + +
38C GLU* 1.3 78.9 - - - +
40C TYR* 1.3 85.7 + - + +
42C GLN* 2.9 26.4 + - - +
44C PHE* 3.8 5.0 - - - -
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Residues in contact with TYR 40 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A GLN* 3.3 39.0 + - - -
92A LEU* 3.7 15.8 - - + +
93A ALA* 3.6 34.1 - - + -
96A GLU* 2.5 32.2 + - - -
83B ALA* 3.5 14.7 - - + +
87B VAL* 3.7 16.6 - - + -
90B LEU* 6.4 1.1 - - + -
36C LEU* 3.1 38.7 + - + +
39C LYS* 1.3 100.7 + - + +
41C ASN* 1.3 57.6 + - - +
42C GLN 2.8 13.1 + - - +
44C PHE* 3.5 25.4 - + - -
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Residues in contact with ASN 41 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84B MET* 3.6 37.5 + - - +
87B VAL* 3.6 22.1 - - + +
91B LYS* 5.6 5.8 + - - +
37C ILE* 3.1 20.7 + - + +
38C GLU* 3.8 9.1 + - - +
39C LYS 3.5 2.0 - - - -
40C TYR* 1.3 74.4 - - - +
42C GLN* 1.3 58.9 + - - +
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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) + - + + + + + -
------------------------------------------------------------
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