Contacts of the helix formed by residues 119 - 145 (chain C) in PDB entry 1JI5
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 119 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C VAL* 4.1 14.9 - - + +
59C ARG* 3.3 14.8 + - - -
63C ILE* 4.4 10.2 - - - +
114C ALA* 2.8 30.4 + - - +
115C GLN 4.2 1.0 + - - -
117C SER 4.1 5.2 - - - +
118C ASP* 1.3 75.9 - - - +
120C GLU* 1.3 61.1 + - - +
121C MET* 3.3 8.5 - - - +
122C THR* 2.6 38.3 + - - -
123C SER 3.3 10.7 + - - -
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Residues in contact with GLU 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C GLN* 4.9 12.7 - - + +
118C ASP* 4.0 1.7 - - - +
119C ASP* 1.3 72.2 - - - +
121C MET* 1.3 76.2 + - + +
123C SER* 3.3 11.8 - - - -
124C ASP* 2.7 35.5 + - - +
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Residues in contact with MET 121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59C ARG* 3.0 28.0 - - - +
118C ASP 5.8 0.7 - - - +
119C ASP* 3.0 6.9 - - - +
120C GLU* 1.3 103.1 - - + +
122C THR* 1.3 65.5 + - - +
124C ASP* 2.8 18.2 + - - +
125C LEU* 3.0 11.7 + - - +
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Residues in contact with THR 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C VAL* 3.8 12.9 - - + +
9C LEU* 3.5 40.9 - - + +
59C ARG* 3.0 26.5 + - + +
63C ILE* 4.4 2.1 - - - +
114C ALA* 4.6 1.6 - - + -
119C ASP* 2.6 30.7 + - - -
121C MET* 1.3 78.1 - - - +
123C SER* 1.3 63.3 + - - +
125C LEU* 3.2 6.1 + - + +
126C LEU* 2.9 30.5 + - + +
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Residues in contact with SER 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120B GLU* 4.4 4.3 + - - -
111C MET* 3.3 29.1 - - - +
114C ALA* 4.0 15.8 - - - +
115C GLN* 3.9 16.6 + - - +
119C ASP 3.3 5.9 + - - -
120C GLU* 3.2 22.2 + - - -
121C MET 3.0 0.8 - - - -
122C THR* 1.3 78.9 - - - +
124C ASP* 1.3 52.0 + - - +
126C LEU* 3.2 4.1 + - - +
127C LEU* 2.7 35.1 + - - +
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Residues in contact with ASP 124 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124B ASP* 4.2 14.9 - - - +
120C GLU 2.7 17.4 + - - +
121C MET* 3.2 11.7 - - - +
123C SER* 1.3 73.8 - - - +
125C LEU* 1.3 64.5 + - - +
127C LEU* 3.1 17.0 + - - +
128C GLY* 3.1 18.7 + - - -
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Residues in contact with LEU 125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C LEU* 5.6 0.4 - - + -
55C GLU* 4.4 25.4 - - + +
56C ILE* 4.3 18.8 - - + +
59C ARG* 3.7 37.0 - - + -
121C MET 3.0 10.3 + - - +
122C THR* 3.4 9.9 - - - +
124C ASP* 1.3 80.7 + - - +
126C LEU* 1.3 74.6 + - + +
128C GLY* 3.2 9.0 + - - -
129C ILE* 3.5 19.7 + - + +
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Residues in contact with LEU 126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5C VAL* 6.0 0.4 - - + -
8C VAL* 4.3 13.2 - - + -
9C LEU* 3.7 22.2 - - + -
12C GLN* 5.4 5.4 - - + -
56C ILE* 5.8 1.8 - - + -
107C LEU* 3.7 24.6 - - + +
110C GLY* 3.8 36.1 - - - +
111C MET* 3.9 12.8 - - + +
122C THR* 2.9 28.1 + - + +
123C SER 3.5 7.0 - - - +
125C LEU* 1.3 84.7 - - + +
127C LEU* 1.3 66.9 + - - +
129C ILE* 3.2 16.2 + - + +
130C TYR* 3.0 20.6 + - - +
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Residues in contact with LEU 127 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120B GLU* 4.3 14.8 - - - +
121B MET* 3.1 39.7 - - + -
124B ASP* 3.9 35.4 - - + +
111C MET* 3.9 11.6 - - - -
123C SER* 2.7 21.4 + - - +
124C ASP* 3.3 20.0 - - - +
126C LEU* 1.3 72.4 - - - +
128C GLY* 1.3 64.7 + - - +
130C TYR* 3.1 5.2 - - - +
131C THR* 3.0 31.0 + - - +
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Residues in contact with GLY 128 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124C ASP 3.1 11.8 + - - -
125C LEU 3.2 5.3 + - - -
127C LEU* 1.3 79.5 - - - +
129C ILE* 1.3 60.6 - - - +
131C THR* 3.1 9.4 + - - -
132C GLU* 2.9 22.5 + - - +
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Residues in contact with ILE 129 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C GLN* 3.8 17.3 - - - +
16C TRP* 3.6 29.8 - - + +
52C HIS* 4.0 24.5 - - + +
55C GLU* 5.5 0.9 - - - +
56C ILE* 4.1 22.2 - - + -
103C MET* 4.4 0.7 - - + -
107C LEU* 4.3 12.1 - - + -
125C LEU* 3.5 24.0 + - + +
126C LEU* 3.2 17.7 + - + +
128C GLY* 1.3 72.3 - - - +
130C TYR* 1.3 58.0 + - - +
132C GLU* 3.1 7.1 + - - +
133C LEU* 2.8 41.9 + - + +
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Residues in contact with TYR 130 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B ARG* 5.1 0.2 - - - -
121B MET* 3.4 29.8 - - + -
104C LEU* 3.4 41.7 - - + +
107C LEU* 3.9 8.9 - - + +
108C LYS* 3.2 44.3 + - + +
111C MET* 3.7 17.0 - - + -
126C LEU 3.0 12.1 + - - +
127C LEU* 3.1 14.8 - - - +
129C ILE* 1.3 77.7 - - - +
131C THR* 1.3 63.3 + - - +
134C GLU* 3.0 62.1 + - + +
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Residues in contact with THR 131 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B ARG* 4.9 13.1 + - - +
121B MET* 3.8 13.4 + - + +
124B ASP* 5.8 0.7 + - - +
127C LEU* 3.0 24.8 + - - +
128C GLY* 3.4 10.4 - - - -
130C TYR* 1.3 82.0 - - - +
132C GLU* 1.3 66.0 + - - +
134C GLU* 3.4 7.2 + - - +
135C LYS* 3.3 19.0 + - + +
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Residues in contact with GLU 132 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C TRP* 4.6 0.5 - - - -
48C GLU* 3.7 27.1 - - - +
52C HIS* 2.5 40.5 + - - -
128C GLY 2.9 13.0 + - - +
129C ILE* 3.1 8.7 + - - +
131C THR* 1.3 79.7 - - - +
133C LEU* 1.3 77.2 + - - +
135C LYS* 3.3 7.3 + - - +
136C HIS* 3.2 32.0 + - + +
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Residues in contact with LEU 133 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C TRP* 3.7 21.1 - - + -
100C TYR* 4.0 49.2 - - + +
103C MET* 4.1 31.0 - - + -
104C LEU* 4.0 10.5 - - + -
107C LEU* 4.4 7.2 - - + -
129C ILE* 2.8 25.9 + - + +
130C TYR 4.0 2.9 - - - +
132C GLU* 1.3 94.3 - - + +
134C GLU* 1.3 53.3 + - - +
136C HIS* 3.0 8.7 + - + +
137C ALA* 2.7 35.8 + - - +
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Residues in contact with GLU 134 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59B ARG* 2.4 47.0 + - - +
62B ALA* 3.8 21.5 - - + +
63B ILE* 4.4 7.0 - - - +
121B MET* 4.2 0.5 - - - +
104C LEU* 3.8 16.8 - - + +
130C TYR* 3.0 52.8 + - + +
131C THR* 3.6 5.3 - - - +
133C LEU* 1.3 76.1 - - - +
135C LYS* 1.3 62.8 + - - +
137C ALA* 3.5 7.7 + - - +
138C TRP* 3.2 21.5 + - - +
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Residues in contact with LYS 135 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58B GLU* 3.4 32.5 + - + +
62B ALA* 4.1 10.7 - - + +
131C THR 3.3 8.3 + - - +
132C GLU* 3.3 11.1 + - - +
133C LEU 3.2 0.2 - - - -
134C GLU* 1.3 74.6 - - - +
136C HIS* 1.3 68.6 + - + +
138C TRP* 3.0 31.6 + - + +
139C MET* 3.0 29.7 + - + +
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Residues in contact with HIS 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C LYS* 4.2 7.5 + - - -
44C GLU* 4.1 12.1 - - - -
45C LEU* 3.4 22.9 - - + +
48C GLU* 2.7 34.1 + - - -
100C TYR* 3.8 28.9 - + + -
132C GLU* 3.2 29.2 + - + +
133C LEU* 3.0 9.8 + - + +
135C LYS* 1.3 80.3 - - + +
137C ALA* 1.3 53.5 + - - +
139C MET* 3.0 21.8 + - + +
140C LEU* 2.6 43.4 + - + +
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Residues in contact with ALA 137 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C MET* 4.1 7.9 - - + +
100C TYR* 4.7 7.8 - - + -
101C GLU* 4.5 14.6 - - + +
104C LEU* 5.5 4.5 - - + -
133C LEU 2.7 18.6 + - - +
134C GLU* 3.6 9.4 - - - +
136C HIS* 1.3 72.3 - - - +
138C TRP* 1.3 53.8 + - - +
140C LEU* 3.8 7.0 - - - +
141C ARG* 2.7 58.7 + - - +
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Residues in contact with TRP 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A TRP* 4.4 8.4 + - - -
30A VAL 5.7 0.2 + - - -
31A LYS* 5.2 5.9 - - - +
35A PHE* 4.0 15.8 - + - -
39A HIS* 3.9 13.0 - + - -
58B GLU* 3.4 49.6 - - + -
61B LEU* 3.3 47.5 - - + +
62B ALA* 4.0 13.5 - - + +
134C GLU 3.2 9.4 + - - +
135C LYS* 3.0 40.0 + - + +
137C ALA* 1.3 79.3 - - - +
139C MET* 1.3 68.8 + - + +
141C ARG* 3.3 15.6 + - - +
142C ALA* 2.7 45.0 + - + +
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Residues in contact with MET 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A PHE* 3.5 33.9 - - + -
36A PHE* 3.7 14.0 - - + -
39A HIS* 4.9 9.4 - - - -
41C LYS* 3.1 32.5 - - - +
135C LYS* 3.0 22.4 + - + +
136C HIS* 3.0 27.7 + - + +
138C TRP* 1.3 96.8 - - + +
140C LEU* 1.3 68.1 + - + +
142C ALA* 3.3 1.9 + - - +
143C PHE* 3.0 23.2 + - - +
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Residues in contact with LEU 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A PHE* 4.0 23.1 - - + -
38C LEU* 6.0 1.8 - - + -
41C LYS* 5.1 11.9 - - + -
42C PHE* 6.3 1.8 - - + -
45C LEU* 5.1 8.1 - - + -
93C VAL* 3.6 28.6 - - + +
96C ILE* 4.2 23.3 - - + -
97C MET* 4.1 13.9 - - + -
100C TYR* 4.3 18.2 - - + -
136C HIS* 2.6 32.0 + - + +
137C ALA 3.8 3.8 - - - +
139C MET* 1.3 73.0 - - + +
141C ARG* 1.3 63.3 + - - +
143C PHE* 3.0 19.7 - - - +
144C LEU* 3.2 14.6 + - - +
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Residues in contact with ARG 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B ALA 5.6 2.8 + - - -
97C MET* 3.8 18.3 - - + +
101C GLU* 2.4 34.2 + - - +
137C ALA* 2.7 44.3 + - - +
138C TRP* 3.4 17.8 - - - +
140C LEU* 1.3 73.3 - - - +
142C ALA* 1.3 57.4 + - - +
144C LEU* 2.9 20.5 + - - +
145C ASN* 2.9 45.1 + - + +
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Residues in contact with ALA 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A VAL 4.2 7.6 - - - +
31A LYS* 3.5 17.5 - - + +
32A GLY 2.8 25.0 + - - -
35A PHE* 3.9 25.1 - - + -
138C TRP* 2.7 30.7 + - + +
139C MET 3.3 4.5 + - - +
141C ARG* 1.3 74.7 - - - +
143C PHE* 1.3 58.3 + - - +
144C LEU 3.4 0.2 + - - -
145C ASN* 3.5 10.8 - - - +
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Residues in contact with PHE 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A GLY* 3.0 36.2 - - - +
33A PRO* 3.3 34.9 - - + +
35A PHE* 4.1 5.6 - - + -
36A PHE* 4.0 27.8 - + + -
34C GLN* 3.6 15.3 - - + -
37C THR* 5.1 0.7 - - - -
38C LEU* 3.5 27.6 - - + -
89C ALA* 5.9 1.1 - - + -
90C GLU* 5.1 10.3 - - - -
93C VAL* 3.9 28.5 - - + -
139C MET 3.0 13.1 + - - +
140C LEU* 3.0 15.0 - - - +
141C ARG 3.0 0.2 - - - -
142C ALA* 1.3 77.7 - - - +
144C LEU* 1.3 77.5 + - + +
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Residues in contact with LEU 144 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A GLY* 4.8 2.4 - - - -
33A PRO* 5.8 0.3 - - - +
90C GLU* 4.4 22.2 - - + +
93C VAL* 3.7 22.7 - - + -
94C GLU* 4.2 24.2 - - + +
97C MET* 4.3 14.4 - - + -
140C LEU 3.2 22.6 + - - +
141C ARG* 2.9 5.5 + - - +
143C PHE* 1.3 102.2 - - + +
145C ASN* 1.3 79.9 + - - +
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Residues in contact with ASN 145 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A LYS* 4.0 21.1 - - + +
32A GLY* 4.0 4.0 + - - -
97C MET* 6.3 0.4 - - - +
141C ARG* 2.9 42.4 + - + +
142C ALA* 3.5 16.0 - - - +
144C LEU* 1.3 86.4 - - - +
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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