Contacts of the helix formed by residues 58 - 83 (chain G) in PDB entry 1GN2
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 ALA 58 (chain G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58F ALA* 6.0 1.6 - - + -
61F LEU* 4.2 20.0 - - + -
55G ASP 4.8 0.8 + - - -
56G HIS* 3.1 1.2 - - - +
57G SER* 1.3 82.4 + - - +
59G ILE* 1.3 63.1 + - - -
60G LEU 3.3 2.9 - - - -
61G LEU* 3.2 14.5 + - + -
62G ASN* 3.0 35.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 59 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112E GLN* 3.8 32.3 - - + +
115E ALA* 4.0 10.5 - - + +
116E ALA* 4.0 16.4 - - - +
119E THR* 3.6 34.5 - - + +
141E GLN* 5.4 0.4 - - - +
47G LEU* 4.3 9.6 - - + -
56G HIS* 3.3 33.1 + - + +
57G SER 3.3 2.4 - - - +
58G ALA* 1.3 74.4 - - - +
60G LEU* 1.3 55.9 + - - +
62G ASN* 3.2 4.6 + - - +
63G GLU* 2.8 63.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 60 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119E THR* 3.6 29.6 - - - +
120E VAL* 5.0 0.2 - - - -
121E GLN* 4.0 32.5 - - + +
141E GLN* 3.7 25.9 - - - +
143E TYR* 4.5 13.0 - - + +
60F LEU* 5.7 3.4 - - + -
61F LEU* 3.8 29.2 - - + -
64F LYS* 4.5 17.5 - - + +
57G SER 5.3 0.2 + - - -
58G ALA 3.3 0.8 - - - -
59G ILE* 1.3 80.7 - - + +
61G LEU* 1.3 58.2 + - - +
63G GLU* 3.8 1.4 + - - +
64G LYS* 3.1 31.5 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 61 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57F SER 4.4 6.5 - - - +
58F ALA* 4.0 32.1 - - + -
60F LEU* 4.1 33.4 - - + +
61F LEU* 3.8 20.3 - - + +
58G ALA* 3.2 16.8 + - + +
60G LEU* 1.3 79.2 - - - +
62G ASN* 1.3 68.4 + - - +
63G GLU 3.2 0.2 - - - -
64G LYS* 3.7 2.4 - - - -
65G ASN* 2.8 62.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 62 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43G ALA* 4.5 4.4 + - - +
46G LYS* 3.6 43.0 - - - +
47G LEU* 3.8 28.0 - - + +
50G ALA* 4.3 12.0 - - - +
58G ALA* 3.0 28.9 + - - +
59G ILE* 3.8 4.5 + - - +
61G LEU* 1.3 90.3 - - - +
63G GLU* 1.3 61.0 + - - +
65G ASN* 3.8 8.4 - - - +
66G LEU* 3.2 23.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 63 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112E GLN* 3.2 23.3 + - - -
116E ALA* 4.3 2.5 - - + +
139E ILE* 2.6 40.4 - - - +
140E PHE* 3.6 9.4 - - - -
141E GLN* 4.0 27.5 + - + +
148E ASN* 4.0 3.9 + - - +
47G LEU* 5.0 2.9 - - - -
59G ILE* 2.8 40.4 + - + +
60G LEU 4.1 3.4 - - - +
62G ASN* 1.3 78.4 - - + +
64G LYS* 1.3 58.4 + - - +
66G LEU* 3.7 11.2 + - - +
67G ALA* 3.2 26.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 64 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143E TYR* 3.7 26.5 - - + +
148E ASN* 4.0 16.3 - - - +
60F LEU* 4.3 24.9 - - + +
64F LYS* 5.9 4.0 - - + -
60G LEU* 3.1 23.6 + - + +
61G LEU* 3.2 4.9 + - + +
63G GLU* 1.3 76.0 - - - +
65G ASN* 1.3 61.3 + - - +
67G ALA* 4.1 0.7 - - - +
68G PHE* 3.1 27.0 + - - +
146G GLN* 4.1 20.6 - - - +
121H GLN* 2.6 39.8 + - - +
143H TYR* 4.7 16.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 65 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39G GLY 5.6 0.2 - - - +
43G ALA* 4.0 14.1 - - + +
61G LEU* 2.8 46.5 + - - +
62G ASN* 3.8 10.3 - - - +
64G LYS* 1.3 76.8 - - - +
66G LEU* 1.3 62.6 + - - +
69G ASN* 2.8 44.7 + - - +
121H GLN* 3.0 22.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 66 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112E GLN* 6.1 0.2 - - - +
138E LEU* 4.5 23.6 - - + -
139E ILE 3.7 23.8 - - - +
140E PHE* 4.1 18.2 - - + -
4G TYR* 5.7 0.4 - - + -
40G ALA* 4.7 2.6 - - - +
43G ALA* 3.6 15.3 - - + -
44G VAL* 4.0 28.3 - - + +
47G LEU* 4.1 15.7 - - + -
62G ASN 3.2 15.3 + - - +
63G GLU* 3.7 10.5 - - - +
65G ASN* 1.3 80.6 - - - +
67G ALA* 1.3 57.0 + - - +
69G ASN* 5.4 0.2 - - - -
70G LEU* 2.9 45.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 67 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140E PHE* 4.4 13.0 - - + -
148E ASN* 3.2 47.1 - - - +
149E PHE* 4.0 4.5 - - - +
150E PRO* 4.6 2.3 - - - +
63G GLU 3.2 15.1 + - - +
64G LYS 4.1 0.9 - - - +
66G LEU* 1.3 76.8 - - - +
68G PHE* 1.3 63.1 + - - +
71G ALA* 2.9 32.1 + - - +
146G GLN* 3.8 3.8 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 68 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36G TYR* 4.0 21.1 - + - -
64G LYS 3.1 19.7 + - - +
65G ASN 4.1 0.2 - - - +
67G ALA* 1.3 79.3 - - - +
69G ASN* 1.3 69.8 + - - +
71G ALA* 3.6 2.1 - - - +
72G GLY 2.9 23.4 + - - -
144G ASP* 4.9 0.9 - - + -
145G HIS* 3.6 20.5 - + - -
146G GLN* 3.5 32.3 - - - +
162G TRP* 4.1 13.2 - + - -
120H VAL 5.0 1.1 - - - -
121H GLN* 3.4 68.0 - - + +
122H GLY 3.9 2.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 69 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35G THR* 4.3 4.3 - - - +
36G TYR* 3.5 30.4 - - - +
39G GLY* 3.6 23.7 + - - -
40G ALA* 3.4 22.7 - - - +
65G ASN* 2.8 41.9 + - - +
68G PHE* 1.3 86.4 - - - +
70G LEU* 1.3 67.0 + - - +
72G GLY 3.3 0.2 + - - -
73G HIS* 3.1 22.5 + - - +
121H GLN* 4.8 0.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 70 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131E ASP* 4.1 12.1 - - + +
133E LEU* 5.1 0.7 - - + -
138E LEU* 3.6 22.2 - - + -
140E PHE* 4.4 5.2 - - + -
150E PRO* 3.8 21.8 - - + -
4G TYR* 3.3 47.1 - - + +
40G ALA* 4.1 9.3 - - + +
66G LEU* 2.9 31.2 + - + +
69G ASN* 1.3 74.5 - - - +
71G ALA* 1.3 57.0 + - - +
73G HIS* 3.4 8.2 + - + +
74G VAL* 2.9 37.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 71 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150E PRO* 3.8 21.5 - - + +
67G ALA 2.9 21.3 + - - +
68G PHE 3.6 2.9 - - - +
70G LEU* 1.3 77.6 - - - +
72G GLY* 1.3 64.0 + - - +
73G HIS 3.2 0.2 - - - -
74G VAL* 4.5 0.9 - - - +
75G ASN* 3.0 32.6 + - - +
145G HIS* 3.6 26.0 - - + +
146G GLN* 3.7 9.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 72 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36G TYR* 4.0 11.7 - - - -
68G PHE 2.9 12.4 + - - -
69G ASN 3.3 0.8 + - - -
71G ALA* 1.3 77.8 - - - +
73G HIS* 1.3 64.3 + - - +
75G ASN* 3.3 0.4 + - - -
76G HIS* 2.8 33.4 + - - -
145G HIS* 3.2 33.8 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 73 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133E LEU* 3.6 23.2 - - + +
4G TYR* 3.7 37.8 - + + +
5G THR 3.4 25.9 + - - -
7G PRO* 4.5 1.8 - - + -
33G HIS* 3.1 22.8 + - - -
36G TYR* 3.8 12.1 - - + +
37G VAL* 3.5 17.3 - - + +
40G ALA* 5.0 1.1 - - + -
69G ASN 3.1 17.1 + - - +
70G LEU* 3.5 7.6 - - + +
72G GLY* 1.3 77.2 - - - +
74G VAL* 1.3 62.1 + - - +
77G THR* 2.8 44.7 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 74 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131E ASP* 4.6 5.6 - - - +
133E LEU* 4.0 29.6 - - + -
150E PRO* 4.0 16.6 - - + -
151E LEU* 4.0 23.3 - - + +
153E ILE* 6.3 0.2 - - + -
70G LEU* 2.9 30.9 + - + +
71G ALA* 4.0 5.4 - - - +
73G HIS* 1.3 75.1 - - - +
75G ASN* 1.3 70.8 + - - +
77G THR* 3.5 1.7 + - - -
78G ILE* 3.3 36.0 + - + +
155G PRO* 5.4 1.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 75 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
151E LEU* 3.6 27.1 + - - +
71G ALA 3.0 22.1 + - - +
72G GLY* 3.8 2.9 - - - +
73G HIS 3.1 0.2 - - - -
74G VAL* 1.3 83.6 - - - +
76G HIS* 1.3 56.8 + - - +
78G ILE* 3.2 5.7 + - - +
79G TRP* 2.9 25.5 + - - +
125G TRP* 3.4 43.8 - - + +
142G VAL* 5.1 1.2 - - - +
145G HIS* 3.2 28.1 + - - +
158G LEU* 3.9 14.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 76 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28G HIS* 3.0 29.0 + + - -
32G HIS* 5.2 0.6 - - - +
33G HIS* 3.0 39.7 - + + +
36G TYR* 3.6 26.5 - + - -
72G GLY 2.8 27.6 + - - +
75G ASN* 1.3 72.2 - - - +
77G THR* 1.3 65.1 + - - +
79G TRP* 3.9 11.4 - + - -
80G TRP* 2.9 33.8 + + - +
125G TRP* 3.8 15.4 - + - -
145G HIS* 3.8 9.4 - + - -
160G ASP* 3.6 1.5 + - - -
164G HIS* 4.0 1.0 + - - -
999G FE 2.3 28.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 77 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133E LEU* 3.9 19.8 - - + +
7G PRO* 4.5 14.0 - - + +
33G HIS* 3.4 8.4 + - - -
73G HIS* 2.8 47.9 + - + -
74G VAL* 3.6 8.3 - - - +
76G HIS* 1.3 79.9 - - - +
78G ILE* 1.3 64.7 + - + +
80G TRP* 3.8 5.0 + - - +
81G LYS* 3.7 22.1 + - + +
193G ARG* 5.1 1.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 78 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74G VAL* 3.4 20.9 - - + +
75G ASN 3.2 7.5 + - - +
76G HIS 3.1 0.4 - - - -
77G THR* 1.3 82.8 - - + +
79G TRP* 1.3 64.8 + - - +
81G LYS* 3.2 1.6 + - - +
82G ASN* 2.9 45.4 + - - +
155G PRO* 3.7 34.5 - - + +
156G LEU 4.6 5.8 - - - +
158G LEU* 4.3 15.5 - - + -
193G ARG* 3.9 33.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 79 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20G ILE* 4.5 10.1 - - + -
25G ASN* 5.3 2.0 + - - -
28G HIS* 3.5 27.6 + + - -
75G ASN 2.9 16.1 + - - +
76G HIS* 3.0 10.0 + + - +
78G ILE* 1.3 79.1 - - - +
80G TRP* 1.3 99.8 + + - +
82G ASN* 3.1 16.1 + - + +
83G LEU* 3.3 43.3 + - + +
125G TRP* 4.0 11.9 - + + -
158G LEU* 3.5 24.0 - - - -
159G LEU* 3.8 5.6 - - + -
160G ASP* 3.6 31.9 - - + -
165G ALA* 5.3 2.0 - - + -
177G PHE* 4.0 26.7 - + - -
181G PHE* 3.9 16.2 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 80 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7G PRO* 4.4 10.3 - - + -
8G ASP 5.8 0.4 - - - +
9G LEU* 3.5 27.8 - - + -
10G ASP* 5.7 2.0 + - - +
11G TRP* 3.5 43.3 + + + -
25G ASN* 3.9 25.8 - - + -
28G HIS* 3.6 35.9 - + + -
29G HIS* 3.6 36.7 - + + -
33G HIS* 2.9 31.0 + + - -
76G HIS* 2.9 23.7 + + + +
77G THR* 4.2 3.8 - - - +
79G TRP* 1.3 100.2 - + - +
81G LYS* 1.3 66.0 + - + +
83G LEU* 3.5 7.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 81 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8G ASP 5.1 6.3 - - - -
10G ASP* 2.7 40.0 + - - +
77G THR* 3.7 15.9 - - + +
78G ILE 3.2 3.2 + - - +
79G TRP 3.1 0.6 - - - -
80G TRP* 1.3 78.6 - - + +
82G ASN* 1.3 55.1 + - - +
83G LEU 3.0 11.4 + - - +
186G ASN* 3.1 25.8 + - - +
189G ASP* 3.7 23.3 - - - +
193G ARG* 3.8 17.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 82 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78G ILE* 2.9 32.3 + - - +
79G TRP* 3.1 7.7 + - + +
81G LYS* 1.3 74.7 - - - +
83G LEU* 1.3 62.7 + - + +
156G LEU 3.4 15.1 + - - -
157G LEU* 3.3 20.6 - - + +
158G LEU* 2.9 34.7 + - - +
181G PHE* 5.2 0.8 - - + -
185G VAL* 3.5 8.5 - - - +
186G ASN* 2.8 26.4 + - - -
189G ASP* 2.8 30.7 + - - -
190G VAL* 4.3 4.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 83 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11G TRP* 3.2 37.5 + - + -
16G LEU* 4.1 19.7 - - + -
20G ILE* 4.5 4.7 - - + -
25G ASN* 5.2 1.3 - - - +
79G TRP* 3.3 50.6 + - + +
80G TRP* 3.5 7.6 - - + +
81G LYS 3.0 7.1 - - - +
82G ASN* 1.3 86.2 - - - +
84G SER* 1.3 65.5 + - - +
181G PHE* 4.0 23.8 - - + -
184G VAL* 3.3 26.5 - - + +
186G ASN* 3.7 2.1 + - - -
----------------------------------------------------------
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