Contacts of the helix formed by residues 19 - 40 (chain A) in PDB entry 1OWG
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 SER 19 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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13A PHE* 4.0 2.7 - - - -
18A LEU* 1.3 77.5 - - - +
20A LYS* 1.3 64.2 + - - +
21A ARG* 3.2 12.9 + - - +
22A ASP* 2.8 34.8 + - - +
23A ALA* 2.9 21.8 + - - +
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Residues in contact with LYS 20 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9A SER* 5.5 1.2 - - - -
10A GLU* 3.3 23.6 + - - +
13A PHE* 3.2 50.6 - - + -
19A SER* 1.3 71.4 - - - +
21A ARG* 1.3 64.0 + - - +
23A ALA* 4.0 5.6 - - - +
24A LYS* 3.2 25.5 + - - +
50C C 4.9 11.4 - - - -
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Residues in contact with ARG 21 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A SER* 3.0 11.3 + - - +
20A LYS* 1.3 79.3 - - - +
22A ASP* 1.3 73.7 + - - +
24A LYS* 3.2 7.8 + - - +
25A GLU* 3.1 24.9 + - + +
16B HIS* 6.1 3.4 - - - -
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Residues in contact with ASP 22 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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18A LEU* 4.5 8.5 - - + +
19A SER* 2.8 30.6 + - - +
21A ARG* 1.3 82.1 - - - +
23A ALA* 1.3 60.4 + - - +
24A LYS 3.1 2.0 - - - -
25A GLU* 4.2 5.2 - - - +
26A LEU* 2.9 40.2 + - + +
16B HIS* 4.3 9.5 + - - +
17B ILE* 3.5 33.1 - - + +
18B PRO* 6.0 1.4 - - - +
21B THR* 6.2 1.3 - - + -
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Residues in contact with ALA 23 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9A SER* 3.2 38.4 + - - +
12A LEU* 3.6 22.4 - - + +
13A PHE* 4.1 7.4 - - + +
18A LEU* 4.4 7.3 - - + +
19A SER 2.9 16.6 + - - +
20A LYS* 4.0 8.7 - - - +
22A ASP* 1.3 76.9 - - - +
24A LYS* 1.3 57.9 + - - +
26A LEU 4.2 0.4 - - - -
27A VAL* 3.2 20.4 + - - +
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Residues in contact with LYS 24 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9A SER* 3.6 14.1 + - - +
20A LYS 3.2 17.2 + - - +
21A ARG* 3.5 5.8 - - - +
22A ASP 3.1 0.4 - - - -
23A ALA* 1.3 78.8 - - - +
25A GLU* 1.3 66.1 + - - +
26A LEU 3.3 0.2 - - - -
27A VAL* 3.5 4.2 + - - +
28A GLU* 3.2 21.2 + - + +
47E A 4.2 22.6 + - - +
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Residues in contact with GLU 25 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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21A ARG* 3.1 15.6 + - + +
22A ASP* 4.2 4.5 - - - +
24A LYS* 1.3 77.5 - - - +
26A LEU* 1.3 59.9 + - - +
28A GLU* 3.2 7.5 + - + +
29A LEU* 2.8 52.2 + - + +
14B GLN* 3.3 28.8 + - - +
16B HIS* 3.3 10.5 + - - -
17B ILE* 3.3 20.4 - - - +
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Residues in contact with LEU 26 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12A LEU* 4.3 10.8 - - + -
18A LEU* 3.7 21.3 - - + -
22A ASP* 2.9 23.6 + - + +
25A GLU* 1.3 77.3 - - - +
27A VAL* 1.3 58.7 + - - +
29A LEU* 3.2 13.1 + - + +
30A PHE* 2.8 30.6 + - - +
10B LEU* 5.0 8.6 - - + +
14B GLN* 6.1 0.2 - - + -
17B ILE* 4.4 17.9 - - + -
21B THR* 4.6 10.3 - - + +
22B VAL* 4.2 28.3 - - + +
25B ALA* 3.5 31.0 - - + -
26B VAL* 6.0 0.4 - - + -
29B MET* 4.1 5.6 - - + +
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Residues in contact with VAL 27 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5A LYS* 3.8 39.0 - - + +
8A MET* 3.9 9.6 - - + -
9A SER* 3.8 20.0 - - - +
12A LEU* 3.6 17.3 - - + -
23A ALA 3.2 18.1 + - - +
24A LYS 3.5 6.7 + - - +
25A GLU 3.3 0.4 - - - -
26A LEU* 1.3 76.1 - - - +
28A GLU* 1.3 66.1 + - - +
30A PHE* 3.2 16.1 + - - +
31A PHE* 3.3 20.9 + - + -
29B MET* 3.8 13.7 - - - -
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Residues in contact with GLU 28 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5A LYS* 2.8 38.8 + - + +
24A LYS* 3.2 11.2 + - + +
25A GLU* 3.2 12.6 + - + +
27A VAL* 1.3 81.6 - - - +
29A LEU* 1.3 60.9 + - + +
31A PHE* 3.4 3.8 + - - +
32A GLU* 2.9 26.2 + - + +
35A ARG* 3.3 23.6 + - - -
47E A 4.3 2.1 + - - -
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Residues in contact with LEU 29 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25A GLU* 2.8 43.4 + - + +
26A LEU* 3.7 14.8 - - + +
28A GLU* 1.3 73.0 - - + +
30A PHE* 1.3 58.4 + - - +
32A GLU* 3.5 13.0 - - + +
33A GLU* 2.7 37.6 + - - +
10B LEU* 3.8 19.6 - - + +
13B GLN* 4.6 13.7 - - - +
14B GLN* 3.6 36.8 - - + +
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Residues in contact with PHE 30 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8A MET* 4.6 2.9 - - + -
26A LEU 2.8 13.6 + - - +
27A VAL 3.2 8.7 + - - +
29A LEU* 1.3 78.9 - - - +
31A PHE* 1.3 89.4 + + - +
33A GLU* 3.5 3.5 + - - +
34A ILE* 3.4 37.1 + - + +
46A LEU* 4.8 0.7 - - + -
6B LEU* 3.6 28.7 - - + +
10B LEU* 4.1 10.5 - - + +
26B VAL* 4.0 19.3 - - + -
29B MET* 3.5 32.3 - - + -
30B LEU* 3.7 30.5 - - + -
33B MET* 3.9 21.5 - - + -
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Residues in contact with PHE 31 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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5A LYS* 4.4 5.4 - - + -
8A MET* 3.8 26.5 - - - -
27A VAL* 3.3 30.0 + - + -
28A GLU* 4.0 5.6 - - - +
29A LEU 3.3 0.2 - - - -
30A PHE* 1.3 97.9 - + - +
32A GLU* 1.3 66.7 + - - +
34A ILE* 3.0 9.3 + - + +
35A ARG* 2.9 30.8 + - - +
33B MET* 4.0 17.7 - - + -
45B ILE* 3.4 41.5 - - + -
48B PHE* 3.6 50.8 - + + -
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Residues in contact with GLU 32 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28A GLU* 2.9 24.7 + - + +
29A LEU* 3.5 15.9 - - + +
31A PHE* 1.3 77.9 - - - +
33A GLU* 1.3 58.0 + - - +
35A ARG* 2.5 36.5 + - - +
36A ARG* 2.9 48.8 + - - +
89B ARG* 2.9 38.2 + - - -
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Residues in contact with GLU 33 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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29A LEU* 2.7 20.5 + - - +
30A PHE 3.8 0.4 - - - +
32A GLU* 1.3 75.3 - - - +
34A ILE* 1.3 57.6 + - - +
36A ARG* 3.3 35.9 + - - +
37A ALA* 3.1 27.4 + - - +
1B MET* 4.1 7.9 - - - +
6B LEU* 3.3 27.1 - - + -
9B ARG* 3.5 26.5 + - + -
10B LEU* 3.4 14.1 - - + +
13B GLN* 3.0 31.1 + - - +
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Residues in contact with ILE 34 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30A PHE* 3.4 42.4 - - + +
31A PHE* 3.0 9.3 + - + +
33A GLU* 1.3 75.7 - - - +
35A ARG* 1.3 66.8 + - - +
37A ALA* 3.4 2.6 + - - +
38A LEU* 3.1 36.4 + - + +
44A VAL* 4.3 6.6 - - + +
46A LEU* 4.2 18.2 - - + -
52A PHE* 4.5 17.5 - - + -
1B MET* 4.2 20.0 - - + -
6B LEU* 4.4 3.4 - - + -
48B PHE* 3.5 31.4 - - + -
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Residues in contact with ARG 35 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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28A GLU* 3.3 22.8 + - - -
31A PHE* 2.9 10.1 + - - +
32A GLU* 2.5 42.0 + - - +
34A ILE* 1.3 76.6 - - - +
36A ARG* 1.3 52.4 + - - +
38A LEU* 3.1 3.3 + - - +
39A GLU* 2.7 36.2 + - - +
46B ARG 5.1 2.0 + - - -
47B GLY* 3.6 28.7 + - - -
48B PHE* 3.9 18.7 - - + +
85B GLU* 3.5 33.0 + - - -
86B LEU* 3.4 37.8 - - + +
89B ARG* 3.6 16.5 - - + +
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Residues in contact with ARG 36 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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32A GLU* 2.9 47.1 + - - +
33A GLU* 3.3 39.7 + - - +
34A ILE 3.2 0.2 - - - -
35A ARG* 1.3 74.2 - - - +
37A ALA* 1.3 66.5 + - - +
39A GLU* 3.1 13.5 + - - +
40A ASN* 3.1 35.6 + - - +
9B ARG* 5.7 0.8 - - - +
13B GLN* 3.7 22.6 + - - +
89B ARG* 3.4 7.9 - - - +
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Residues in contact with ALA 37 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33A GLU* 3.1 14.1 + - - +
34A ILE 3.4 4.5 + - - +
36A ARG* 1.3 78.9 - - - +
38A LEU* 1.3 56.9 + - - +
40A ASN* 3.5 9.2 + - - +
42A GLU* 2.8 51.6 + - - +
44A VAL* 3.9 18.4 - - + -
1B MET* 4.1 7.9 - - + -
9B ARG* 4.0 13.7 - - - +
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Residues in contact with LEU 38 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34A ILE* 3.1 31.6 + - + +
35A ARG* 3.3 8.7 - - - +
36A ARG 3.0 0.2 - - - -
37A ALA* 1.3 75.3 - - - +
39A GLU* 1.3 58.1 + - - +
40A ASN 3.0 4.9 - - - -
41A GLY* 2.8 21.0 + - - -
42A GLU 3.7 15.3 - - - +
44A VAL* 4.2 6.5 - - + -
52A PHE* 3.9 27.8 - - + +
54A LEU* 3.5 36.5 - - + +
77A ARG* 5.3 0.3 + - - -
79A VAL* 4.0 17.3 - - + -
86B LEU* 3.7 29.8 - - + -
90B ALA* 4.5 7.4 - - + +
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Residues in contact with GLU 39 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35A ARG 2.7 14.1 + - - +
36A ARG* 3.1 17.0 + - - +
38A LEU* 1.3 73.3 - - - +
40A ASN* 1.3 66.7 + - - +
41A GLY 3.1 2.9 + - - -
77A ARG* 6.1 0.2 - - - -
89B ARG* 2.5 81.8 + - + +
90B ALA* 4.2 2.4 - - - +
92B ILE* 4.8 12.3 - - - +
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Residues in contact with ASN 40 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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36A ARG* 3.1 29.2 + - - +
37A ALA* 3.8 7.9 - - - +
38A LEU 3.0 1.2 - - - -
39A GLU* 1.3 85.0 + - - +
41A GLY* 1.3 62.5 + - - +
42A GLU* 3.3 6.6 + - + +
77A ARG* 5.4 0.2 - - - -
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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