Contacts of the helix formed by residues 120 - 148 (chain A) in PDB entry 2FJC
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 ILE 120 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60A ILE* 4.0 23.8 - - + -
61A TYR 3.4 22.5 + - - +
62A GLY* 4.0 2.2 - - - -
64A GLU* 3.4 28.9 - - + +
65A PHE* 3.4 31.4 - - - +
68A VAL* 3.6 23.1 - - + -
118A ILE 3.8 0.2 + - - -
119A THR* 1.3 72.8 - - + +
121A VAL* 1.3 67.9 + - + +
123A ALA* 3.2 2.4 + - - +
124A LEU* 2.9 35.3 + - + +
63J ILE* 4.3 14.6 - - + -
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Residues in contact with VAL 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A THR* 3.2 16.3 - - + +
120A ILE* 1.3 77.2 - - + +
122A SER* 1.3 62.7 + - - +
124A LEU* 4.6 0.7 - - - -
125A ALA* 2.9 31.0 + - - +
175A LEU* 3.7 23.7 - - + +
63J ILE* 4.3 24.7 - - + -
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Residues in contact with SER 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A ILE* 3.4 9.4 - - - +
119A THR* 3.4 23.1 - - - +
120A ILE 3.2 0.6 - - - -
121A VAL* 1.3 85.4 - - - +
123A ALA* 1.3 60.6 + - - +
125A ALA* 3.5 5.2 + - - +
126A ARG* 3.1 57.0 + - - +
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Residues in contact with ALA 123 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A TYR* 3.7 25.0 - - + -
60A ILE* 3.6 25.6 - - + -
72A LEU* 5.5 1.1 - - + -
118A ILE* 3.7 10.0 - - + +
119A THR 2.9 17.4 + - - +
120A ILE 3.7 2.9 - - - +
122A SER* 1.3 73.9 - - - +
124A LEU* 1.3 67.9 + - + +
126A ARG* 3.1 4.6 + - - +
127A VAL* 3.0 28.4 + - - +
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Residues in contact with LEU 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A VAL* 3.8 27.8 - - + -
71A LEU* 4.4 12.6 - - + -
72A LEU* 4.4 14.1 - - + -
120A ILE* 2.9 38.2 + - + +
121A VAL* 4.1 2.7 - - - +
123A ALA* 1.3 75.9 - - + +
125A ALA* 1.3 63.8 + - - +
127A VAL* 3.2 8.5 + - + +
128A LYS* 2.9 25.1 + - - +
171A LEU* 4.0 23.7 - - + +
174A THR* 3.8 21.3 - - + +
175A LEU* 3.8 15.2 - - + +
63J ILE* 4.7 6.3 - - + -
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Residues in contact with ALA 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121A VAL 2.9 20.0 + - - +
122A SER* 3.8 6.7 - - - +
124A LEU* 1.3 75.6 - - - +
126A ARG* 1.3 58.4 + - - +
128A LYS* 3.4 4.9 + - - +
129A ARG* 3.0 43.9 + - - +
175A LEU* 3.5 19.6 - - + +
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Residues in contact with ARG 126 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A LYS* 5.3 3.6 - - - +
56A TYR* 3.4 24.9 - - - +
113A GLU* 2.6 41.0 + - - -
115A GLU* 3.4 24.8 + - - -
118A ILE* 3.2 20.2 - - - +
122A SER* 3.1 29.8 + - - +
123A ALA 3.1 6.8 + - - +
125A ALA* 1.3 75.9 - - - +
127A VAL* 1.3 64.8 + - - +
129A ARG* 3.2 26.6 + - - +
130A ASP* 3.0 27.9 + - - -
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Residues in contact with VAL 127 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A LEU* 5.6 1.3 - - + -
53A LEU* 3.8 22.0 - - + -
56A TYR* 3.6 26.0 - - + -
72A LEU* 4.4 9.0 - - + -
75A TYR* 4.3 11.2 - - + -
123A ALA 3.0 15.8 + - - +
124A LEU* 3.2 16.4 - - + +
126A ARG* 1.3 75.1 - - - +
128A LYS* 1.3 57.2 + - - +
130A ASP* 3.2 8.3 + - - +
131A PHE* 2.7 44.8 + - + -
171A LEU* 3.3 23.3 - - + -
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Residues in contact with LYS 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124A LEU 2.9 17.9 + - - +
125A ALA* 3.6 6.7 - - - +
127A VAL* 1.3 76.6 - - - +
129A ARG* 1.3 58.5 + - - +
131A PHE* 3.2 4.3 + - - +
132A GLU* 2.9 66.9 + - + +
168A ILE* 3.8 14.8 - - + +
171A LEU* 3.6 21.8 - - + -
172A GLY* 3.5 37.7 - - - +
175A LEU* 4.2 11.9 - - + -
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Residues in contact with ARG 129 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A ALA* 3.0 34.7 + - - +
126A ARG* 3.4 26.6 - - - +
127A VAL 3.2 0.2 - - - -
128A LYS* 1.3 77.2 - - - +
130A ASP* 1.3 61.2 + - - +
132A GLU* 3.2 15.5 + - - +
133A TYR* 2.9 27.1 + - + +
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Residues in contact with ASP 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A LEU* 4.2 22.0 - - + +
52A LYS* 2.7 44.1 + - - +
56A TYR* 5.4 0.3 - - - -
110A ILE* 3.9 19.7 - - + +
111A ALA 5.4 0.2 + - - -
126A ARG 3.0 18.6 + - - +
127A VAL* 3.7 7.1 - - - +
129A ARG* 1.3 77.1 - - - +
131A PHE* 1.3 62.4 + - - +
133A TYR* 3.3 9.0 + - - +
134A LEU* 2.9 33.2 + - - +
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Residues in contact with PHE 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A LEU* 3.7 30.5 - - + -
53A LEU* 4.9 2.5 - - + -
75A TYR* 3.8 44.9 - + + -
79A VAL* 4.4 10.8 - - + -
127A VAL* 2.7 25.9 + - + +
128A LYS 3.5 5.2 - - - +
130A ASP* 1.3 72.3 - - + +
132A GLU* 1.3 58.9 + - - +
134A LEU* 3.3 4.2 + - + +
135A SER* 2.8 29.3 + - - -
164A LEU* 3.8 24.9 - - + +
167A ALA* 3.8 28.3 - - + -
168A ILE* 3.6 17.4 - - + +
171A LEU* 3.8 18.6 - - + -
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Residues in contact with GLU 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A LYS* 2.9 54.0 + - - +
129A ARG* 3.6 16.1 - - - +
131A PHE* 1.3 74.4 - - - +
133A TYR* 1.3 65.1 + - - +
135A SER* 3.2 3.9 + - - -
136A THR* 3.1 31.2 + - + +
168A ILE* 3.8 28.1 - - + +
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Residues in contact with TYR 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A GLN* 4.1 6.2 + - - -
45A ASP* 3.1 28.7 + - - -
109A GLY* 3.4 28.9 + - - -
110A ILE* 3.7 28.5 - - + -
129A ARG 2.9 13.4 + - - +
130A ASP* 3.6 10.8 - - - +
131A PHE 3.3 0.2 - - - -
132A GLU* 1.3 76.5 - - - +
134A LEU* 1.3 68.2 + - + +
136A THR* 3.0 24.0 + - - -
137A ARG* 3.1 38.8 + - + +
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Residues in contact with LEU 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A HIS* 5.2 3.4 - - - +
45A ASP* 3.7 34.1 - - + +
46A LEU* 3.5 26.7 - - + -
49A LEU* 3.6 25.6 - - + -
79A VAL* 5.6 0.9 - - + -
110A ILE* 4.3 7.6 - - + -
130A ASP 2.9 17.2 + - - +
131A PHE* 3.6 11.7 - - + +
133A TYR* 1.3 78.8 - - + +
135A SER* 1.3 53.0 + - - +
137A ARG* 3.2 6.4 + - + +
138A PHE* 2.7 64.8 + - + -
164A LEU* 4.0 7.6 - - + -
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Residues in contact with SER 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A PHE 2.8 17.2 + - - -
132A GLU* 3.2 6.5 + - - -
134A LEU* 1.3 77.0 - - - +
136A THR* 1.3 59.4 + - - +
139A SER* 2.9 35.0 + - - -
161A LEU* 3.6 14.4 + - - +
164A LEU* 3.9 14.0 - - - +
165A GLY* 5.7 1.4 + - - -
168A ILE* 4.0 18.4 - - - +
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Residues in contact with THR 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A GLU* 3.1 15.0 + - + +
133A TYR* 3.0 14.3 + - - -
135A SER* 1.3 76.9 - - - +
137A ARG* 1.3 69.2 + - - +
139A SER* 3.4 8.1 + - - -
140A GLN* 3.1 30.3 + - - +
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Residues in contact with ARG 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A GLN* 3.2 27.7 + - - +
41A GLN* 2.7 42.1 + - - +
42A HIS* 3.8 12.3 - - + +
45A ASP* 4.8 1.1 - - - +
133A TYR* 3.1 46.9 + - + +
134A LEU* 3.5 10.8 - - + +
136A THR* 1.3 85.0 + - - +
138A PHE* 1.3 62.6 + - - +
140A GLN* 2.9 51.2 + - - +
141A THR* 3.4 12.8 + - - -
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Residues in contact with PHE 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A HIS* 3.3 41.5 - + + -
46A LEU* 3.9 27.4 - - + -
86A ILE* 3.4 18.4 - - + -
134A LEU* 2.7 47.9 + - + +
137A ARG* 1.3 69.9 - - - +
139A SER* 1.3 60.9 - - - +
141A THR* 3.0 3.6 + - - -
142A GLN 2.9 23.4 + - - -
157A ILE* 3.3 24.8 - - + +
160A ILE* 3.8 17.5 - - + -
161A LEU* 3.3 18.2 - - + -
164A LEU* 3.5 28.0 - - + -
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Residues in contact with SER 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135A SER* 2.9 22.8 + - - -
136A THR* 3.6 9.1 - - - -
137A ARG 3.3 0.2 - - - -
138A PHE* 1.3 75.8 - - - +
140A GLN* 1.3 62.7 + - - +
142A GLN* 3.3 10.5 + - - +
143A VAL* 2.9 30.3 + - - +
161A LEU* 4.0 15.5 - - - +
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Residues in contact with GLN 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A GLN* 3.7 8.1 + - - +
136A THR* 3.1 19.2 + - - +
137A ARG* 2.9 50.8 + - - +
138A PHE 3.2 0.6 - - - -
139A SER* 1.3 77.1 - - - +
141A THR* 1.3 57.7 + - - +
143A VAL* 3.3 8.5 + - - +
144A LEU* 3.0 34.3 + - + +
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Residues in contact with THR 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A ILE* 4.6 8.5 - - + -
38A GLN* 3.1 21.3 + - + +
39A LEU* 3.7 28.5 - - + -
42A HIS* 2.6 27.2 + - - +
137A ARG 3.4 0.4 + - - -
138A PHE 3.0 8.4 + - - -
140A GLN* 1.3 76.3 - - - +
142A GLN* 1.3 54.3 + - - +
144A LEU* 3.1 10.2 + - - +
145A ALA* 2.8 33.6 + - - +
153A THR* 4.4 7.2 - - + -
157A ILE* 4.0 15.3 - - + -
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Residues in contact with GLN 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A PHE 2.9 13.2 + - - +
139A SER* 3.3 13.0 + - - +
141A THR* 1.3 74.8 - - - +
143A VAL* 1.3 78.0 + - - +
145A ALA* 3.4 6.0 + - - +
146A ALA* 2.8 33.0 + - - +
154A ASP* 2.9 28.9 - - - +
157A ILE* 3.8 15.0 - - + +
158A THR* 3.9 8.5 - - - +
161A LEU* 4.0 7.4 - - + -
149K GLY* 4.3 13.5 + - - -
151K ALA* 3.5 33.1 - - + +
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Residues in contact with VAL 143 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139A SER* 2.9 20.2 + - - +
140A GLN* 3.5 9.6 - - - +
141A THR 3.2 0.2 - - - -
142A GLN* 1.3 89.9 - - - +
144A LEU* 1.3 66.0 + - + +
146A ALA* 3.3 2.7 + - - +
147A GLU* 2.9 57.1 + - + +
149K GLY* 5.6 6.7 - - - +
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Residues in contact with LEU 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A ALA* 5.6 0.2 - - - +
34A ALA* 4.3 26.2 - - + +
35A ILE* 4.0 13.0 - - + -
38A GLN* 4.0 28.0 - - + -
140A GLN* 3.0 20.5 + - + +
141A THR* 3.1 7.8 + - - +
143A VAL* 1.3 79.4 - - + +
145A ALA* 1.3 62.4 - - - +
147A GLU* 3.9 11.4 - - - +
148A SER* 3.0 27.1 + - - -
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Residues in contact with ALA 145 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A ILE* 3.8 7.8 - - + +
141A THR 2.8 20.4 + - - +
142A GLN* 3.8 3.6 - - - +
144A LEU* 1.3 73.2 - - - +
146A ALA* 1.3 61.4 - - - +
148A SER* 3.4 6.9 + - - -
149A GLY 3.1 4.2 + - - -
150A ASP* 2.8 51.9 + - + +
153A THR* 4.0 11.9 - - + -
154A ASP* 3.7 17.3 - - - +
----------------------------------------------------------
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Residues in contact with ALA 146 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A GLN* 2.8 28.7 + - - +
143A VAL* 3.6 6.5 - - - +
145A ALA* 1.3 76.3 - - - +
147A GLU* 1.3 64.7 + - + +
149A GLY* 3.3 11.1 + - - -
150A ASP 5.8 0.2 - - - -
154A ASP* 3.5 20.4 + - - +
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Residues in contact with GLU 147 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143A VAL* 2.9 37.5 + - + +
144A LEU* 4.0 11.3 - - - +
146A ALA* 1.3 78.2 - - + +
148A SER* 1.3 58.8 + - - +
149A GLY 3.4 0.7 + - - -
----------------------------------------------------------
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Residues in contact with SER 148 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A ASP* 5.4 3.3 - - - +
31A ALA* 3.5 29.3 - - - +
35A ILE* 3.5 17.5 - - - +
144A LEU 3.0 19.1 + - - -
145A ALA* 3.4 6.1 + - - -
147A GLU* 1.3 76.5 - - - +
149A GLY* 1.3 59.0 + - - +
150A ASP* 3.4 4.7 + - - +
----------------------------------------------------------
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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