Contacts of the helix formed by residues 82 - 112 (chain C) in PDB entry 1JGC
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 GLY 82 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C TRP* 3.5 12.7 - - - -
80C GLY 3.3 1.6 - - - -
81C GLU* 1.3 81.9 - - - +
83C PRO* 1.3 80.1 - - - +
84C ARG 3.4 2.7 - - - -
85C GLU* 3.2 15.6 + - - -
86C THR* 3.1 21.0 + - - +
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Residues in contact with PRO 83 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C TRP* 3.7 13.9 - - + -
37C LEU* 3.6 31.0 - - + -
40C MET* 3.6 18.6 - - + +
82C GLY* 1.3 80.9 - - - +
84C ARG* 1.3 63.5 + - - +
85C GLU* 4.9 0.4 - - - +
86C THR* 2.6 26.0 + - - +
87C LEU* 3.5 3.6 + - - +
141C TYR* 3.9 22.4 - - + +
149C PHE* 5.1 2.7 - - + -
150C ALA* 5.6 6.3 - - + -
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Residues in contact with ARG 84 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C GLY 3.4 0.4 - - - -
83C PRO* 1.3 80.2 - - - +
85C GLU* 1.3 75.5 + - - +
87C LEU* 3.1 11.6 + - + +
88C GLU* 2.8 51.3 + - + +
138C ILE* 3.8 18.5 - - + +
141C TYR* 3.4 45.7 + - + +
142C ASP* 3.0 39.6 + - - -
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Residues in contact with GLU 85 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80C GLY* 3.7 19.5 - - - -
81C GLU* 3.8 8.8 - - + +
82C GLY* 3.2 25.3 + - - +
83C PRO* 4.9 0.5 - - - +
84C ARG* 1.3 87.1 + - - +
86C THR* 1.3 52.3 + - - +
88C GLU* 3.0 11.0 + - + +
89C CYS* 2.7 39.8 + - - -
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Residues in contact with THR 86 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C HIS* 3.4 42.6 - - + +
31C LEU* 5.5 0.2 - - + -
32C GLN* 3.3 22.3 + - - +
35C TRP* 4.1 15.0 - - + -
40C MET* 3.8 2.1 - - - +
80C GLY* 3.8 15.5 - - - +
82C GLY 3.1 12.8 + - - +
83C PRO* 2.6 21.5 + - - +
85C GLU* 1.3 75.4 - - - +
87C LEU* 1.3 57.2 + - - +
90C ASP* 2.9 37.5 + - - +
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Residues in contact with LEU 87 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C GLN* 5.6 0.9 - - - +
40C MET* 3.7 30.1 - - + -
83C PRO 3.8 3.6 - - - +
84C ARG* 3.1 9.9 + - + +
86C THR* 1.3 81.3 + - - +
88C GLU* 1.3 58.0 + - - +
90C ASP* 3.8 7.3 - - - +
91C LEU* 2.9 29.8 + - - +
133C PHE* 5.9 1.6 - - + -
134C LEU* 4.0 23.1 - - + +
137C GLN* 4.3 19.3 - - + +
138C ILE* 3.8 30.4 - - + +
141C TYR* 4.2 23.3 - - + -
149C PHE* 4.3 10.1 - - + -
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Residues in contact with GLU 88 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C ARG* 2.8 53.1 + - + +
85C GLU* 3.0 12.0 + - + +
87C LEU* 1.3 75.1 - - - +
89C CYS* 1.3 61.0 + - - +
91C LEU* 3.3 11.9 + - - +
92C ALA* 2.8 31.0 + - - +
138C ILE* 3.6 21.8 - - + +
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Residues in contact with CYS 89 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C GLN* 3.2 7.9 + - - -
28C HIS* 4.0 4.7 - - + -
78C ARG* 3.1 45.3 - - + +
79C ILE 4.1 1.3 - - - -
80C GLY* 3.8 16.8 - - - -
85C GLU* 2.7 23.9 + - - +
86C THR 3.8 3.4 - - - +
88C GLU* 1.3 75.1 - - - +
90C ASP* 1.3 62.2 + - - +
92C ALA* 3.2 8.5 + - - +
93C GLY 3.0 18.5 + - - -
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Residues in contact with ASP 90 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C GLN* 3.0 22.9 + - - +
25C TYR* 3.5 37.9 + - + -
28C HIS* 3.0 23.5 + - - +
32C GLN* 5.2 1.4 + - - -
44C SER* 4.8 4.5 + - - -
47C GLU* 5.1 1.4 - - - +
86C THR* 2.9 24.8 + - - +
87C LEU* 3.8 6.3 - - - +
89C CYS* 1.3 74.4 - - - +
91C LEU* 1.3 63.9 + - - +
93C GLY* 3.2 3.1 + - - -
94C GLU* 3.0 25.5 + - - +
134C LEU* 3.8 17.2 - - + +
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Residues in contact with LEU 91 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87C LEU 2.9 17.9 + - - +
88C GLU* 3.6 12.8 - - - +
90C ASP* 1.3 75.8 - - - +
92C ALA* 1.3 64.0 + - - +
94C GLU* 3.1 11.8 + - - +
95C HIS* 3.2 43.0 + - + +
131C VAL* 4.1 23.6 - - + -
134C LEU* 3.6 20.5 - - + +
135C GLU* 4.4 15.5 - - + +
138C ILE* 3.7 24.5 - - + -
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Residues in contact with ALA 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C ARG* 3.6 30.0 + - - +
88C GLU 2.8 17.1 + - - +
89C CYS* 3.5 7.2 - - - +
91C LEU* 1.3 77.2 - - - +
93C GLY* 1.3 61.9 + - - +
95C HIS* 3.4 9.1 + - - +
96C ASP* 3.3 20.1 + - - +
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Residues in contact with GLY 93 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C SER* 5.3 0.3 + - - -
24C GLN* 5.0 6.5 - - - -
78C ARG* 3.5 16.1 - - - +
89C CYS 3.0 13.8 + - - -
90C ASP 3.2 3.3 + - - -
92C ALA* 1.3 75.7 - - - +
94C GLU* 1.3 62.5 + - - +
96C ASP* 3.5 2.5 + - - +
97C ALA* 3.1 23.2 + - - +
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Residues in contact with GLU 94 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C TYR* 2.6 25.5 + - - +
51C GLU* 5.9 0.4 - - - -
90C ASP 3.0 15.8 + - - +
91C LEU 3.1 6.7 + - - +
93C GLY* 1.3 74.9 - - - +
95C HIS* 1.3 60.6 + - - +
97C ALA* 3.2 4.7 + - - +
98C LEU* 2.8 35.2 + - - +
127C GLU* 2.8 32.2 - - + +
130C HIS* 3.0 31.6 + - - +
131C VAL* 3.7 21.3 - - + -
134C LEU* 4.0 15.5 - - + +
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Residues in contact with HIS 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B MET* 5.1 10.1 - - + +
91C LEU* 3.2 40.7 + - + +
92C ALA* 3.8 10.4 - - - +
94C GLU* 1.3 79.9 - - - +
96C ASP* 1.3 64.2 + - - +
98C LEU* 3.4 12.2 + - + +
99C LYS* 3.0 22.9 + - - +
131C VAL* 4.3 20.4 - - + +
135C GLU* 4.7 5.9 + - - -
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Residues in contact with ASP 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C ARG* 2.7 37.3 + - - +
92C ALA 3.3 9.3 + - - +
93C GLY* 3.8 6.5 - - - +
94C GLU 3.3 0.4 - - - -
95C HIS* 1.3 78.8 - - - +
97C ALA* 1.3 63.9 + - - +
99C LYS* 3.3 14.1 + - - +
100C LEU* 3.0 22.7 + - - +
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Residues in contact with ALA 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C SER* 3.7 23.5 + - - +
18C GLU* 5.4 1.3 - - - +
93C GLY 3.1 18.2 + - - +
94C GLU* 3.5 7.0 - - - +
96C ASP* 1.3 78.0 - - - +
98C LEU* 1.3 57.3 + - - +
100C LEU* 3.1 7.0 + - - +
101C TYR* 2.8 54.0 + - + +
127C GLU* 4.4 8.1 - - + +
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Residues in contact with LEU 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B MET* 4.6 6.5 - - - -
94C GLU 2.8 20.5 + - - +
95C HIS* 3.8 12.6 - - + +
97C ALA* 1.3 73.0 - - - +
99C LYS* 1.3 63.8 + - - +
101C TYR* 3.7 4.3 - - + -
102C ARG* 2.9 58.2 + - - +
124C ILE* 3.6 43.7 - - + +
127C GLU* 3.7 16.2 - - + -
128C GLU* 4.0 11.4 - - + -
131C VAL* 3.8 28.3 - - + -
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Residues in contact with LYS 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C HIS 3.0 13.1 + - - +
96C ASP* 3.3 17.3 - - - +
98C LEU* 1.3 79.3 - - - +
100C LEU* 1.3 64.0 + - - +
102C ARG* 3.5 9.2 + - - +
103C GLU* 3.3 36.3 + - - +
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Residues in contact with LEU 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C PHE* 4.2 24.9 - - + +
13C ALA* 3.8 40.8 - - + +
14C ALA* 3.9 9.6 - - + +
17C SER* 4.2 12.8 - - - +
75C ASP* 6.0 0.7 - - - +
96C ASP 3.0 13.0 + - - +
97C ALA* 3.5 7.4 - - - +
99C LYS* 1.3 76.1 - - - +
101C TYR* 1.3 65.0 + - + +
103C GLU* 3.3 11.8 + - + +
104C ALA* 2.9 26.6 + - + +
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Residues in contact with TYR 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14C ALA* 3.6 28.9 + - + -
17C SER* 4.2 5.1 + - - -
18C GLU* 2.9 38.1 + - - +
97C ALA* 2.8 36.4 + - + +
98C LEU* 3.8 5.2 - - - +
100C LEU* 1.3 79.2 - - + +
102C ARG* 1.3 55.9 + - - +
104C ALA* 3.8 0.9 - - - +
105C ARG* 2.8 36.7 + - - +
120C PHE* 4.0 26.8 - + + +
123C LEU* 3.9 33.2 - - + -
124C ILE* 3.6 19.5 - - + -
127C GLU* 3.2 23.9 + - + -
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Residues in contact with ARG 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
1B MET* 3.8 20.0 - - - +
112B GLY 4.7 13.3 + - - +
113B ASP* 6.2 0.2 - - - +
114B ILE* 5.3 5.4 - - + +
98C LEU* 2.9 46.3 + - - +
99C LYS* 3.9 7.6 - - - +
101C TYR* 1.3 76.1 - - - +
103C GLU* 1.3 57.4 + - - +
105C ARG* 3.7 3.5 - - - +
106C ASP* 3.1 36.9 + - - +
124C ILE* 3.8 24.5 - - + +
128C GLU* 2.9 36.4 + - - +
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Residues in contact with GLU 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C PHE* 4.0 23.8 - - + -
99C LYS* 3.3 30.4 + - - +
100C LEU* 3.4 16.8 - - - +
101C TYR 3.1 0.4 - - - -
102C ARG* 1.3 76.8 - - - +
104C ALA* 1.3 66.0 + - - +
106C ASP* 3.2 9.1 + - - +
107C TYR* 3.1 20.4 + - - +
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Residues in contact with ALA 104 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10C PHE* 3.4 35.5 - - + +
100C LEU* 2.9 16.9 + - + +
101C TYR 3.8 0.9 - - - +
103C GLU* 1.3 76.0 - - - +
105C ARG* 1.3 63.5 + - - +
107C TYR* 3.1 4.3 + - - +
108C CYS* 2.9 26.0 + - - -
120C PHE* 3.5 38.1 - - + -
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Residues in contact with ARG 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114B ILE* 3.5 24.5 - - - +
117B LYS* 3.9 11.7 - - - +
101C TYR 2.8 22.4 + - - +
102C ARG* 3.7 4.9 - - - +
104C ALA* 1.3 72.8 - - - +
106C ASP* 1.3 94.5 + - - +
108C CYS* 3.2 6.4 + - - +
109C ALA* 3.1 36.0 + - - +
117C LYS* 4.0 23.3 - - + +
120C PHE* 3.7 17.6 - - + -
121C GLU* 2.9 43.4 + - + -
124C ILE* 4.1 9.6 - - + -
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Residues in contact with ASP 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112B GLY* 5.9 2.6 - - - -
114B ILE* 5.5 1.0 - - - +
102C ARG* 3.1 22.0 + - - +
103C GLU* 3.2 9.3 + - - +
105C ARG* 1.3 99.9 + - - +
107C TYR* 1.3 63.7 + - - +
109C ALA* 3.1 5.4 + - - +
110C GLU* 2.9 22.8 + - - +
----------------------------------------------------------
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Residues in contact with TYR 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C ASP* 2.9 32.6 + - - -
6C LYS* 3.5 36.1 - - + +
7C VAL* 3.8 14.4 - - + -
10C PHE* 3.5 36.1 - + + -
103C GLU 3.1 5.1 + - - +
104C ALA 3.1 4.9 + - - +
106C ASP* 1.3 80.0 - - - +
108C CYS* 1.3 63.3 + - - +
110C GLU* 3.3 24.3 + - - +
111C VAL* 3.0 48.1 + - + +
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Residues in contact with CYS 108 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7C VAL* 4.0 20.4 - - - -
10C PHE* 5.8 1.1 - - - -
104C ALA* 2.9 17.7 + - - -
105C ARG 3.2 8.0 + - - +
107C TYR* 1.3 78.9 - - - +
109C ALA* 1.3 58.2 + - - +
111C VAL* 3.4 0.7 + - - -
112C GLY 2.9 23.4 + - - -
113C ASP* 2.9 20.8 + - + +
116C SER* 3.7 25.8 - - - -
117C LYS* 3.7 20.0 - - + +
120C PHE* 3.8 22.0 - - - -
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Residues in contact with ALA 109 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105C ARG* 3.1 28.8 + - - +
106C ASP 3.4 9.0 - - - +
108C CYS* 1.3 77.1 - - - +
110C GLU* 1.3 64.6 + - - +
112C GLY* 3.0 14.8 + - - -
113C ASP 5.8 0.2 - - - -
114C ILE* 5.9 2.3 - - - +
117C LYS* 3.9 23.5 - - + +
----------------------------------------------------------
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Residues in contact with GLU 110 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106C ASP 2.9 13.2 + - - +
107C TYR* 3.6 29.8 - - - +
109C ALA* 1.3 79.0 - - - +
111C VAL* 1.3 65.1 + - + +
112C GLY* 3.4 0.5 + - - -
----------------------------------------------------------
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Residues in contact with VAL 111 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C ASP* 3.8 29.4 - - + +
7C VAL* 4.6 4.7 - - + -
107C TYR* 3.0 57.1 + - + +
108C CYS* 4.1 2.7 - - - +
110C GLU* 1.3 79.3 - - + +
112C GLY* 1.3 58.7 + - - +
113C ASP* 4.4 7.9 - - + +
----------------------------------------------------------
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Residues in contact with GLY 112 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ARG* 4.8 12.5 + - - +
106A ASP* 6.0 1.8 - - - -
108C CYS 2.9 4.8 + - - -
109C ALA 3.0 13.8 + - - -
110C GLU 3.2 0.6 + - - -
111C VAL* 1.3 79.9 - - - +
113C ASP* 1.3 58.9 + - - +
114C ILE* 3.0 25.3 + - - +
----------------------------------------------------------
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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