Contacts of the helix formed by residues 120 - 149 (chain J) 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 J).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63G ILE* 4.3 14.4 - - + -
60J ILE* 4.2 17.5 - - + -
61J TYR 3.3 23.2 + - - +
62J GLY* 4.0 2.9 - - - -
64J GLU* 3.2 29.8 - - - +
65J PHE* 3.5 30.5 - - - +
68J VAL* 3.6 22.9 - - + -
118J ILE 3.8 0.4 + - - -
119J THR* 1.3 72.6 - - - +
121J VAL* 1.3 61.4 + - + +
123J ALA* 3.2 5.7 + - - +
124J LEU* 2.9 41.3 + - + +
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Residues in contact with VAL 121 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63G ILE* 4.5 21.1 - - + -
119J THR* 3.8 11.7 - - - +
120J ILE* 1.3 78.6 - - + +
122J SER* 1.3 63.7 + - - +
124J LEU* 4.6 0.2 - - - -
125J ALA* 3.0 30.7 + - - +
175J LEU* 3.8 24.4 - - + +
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Residues in contact with SER 122 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118J ILE* 3.9 9.2 - - - -
119J THR* 2.8 22.7 + - - -
121J VAL* 1.3 85.5 - - - +
123J ALA* 1.3 61.8 + - - +
125J ALA* 3.5 4.9 + - - +
126J ARG* 3.2 54.7 + - - +
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Residues in contact with ALA 123 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56J TYR* 3.8 24.8 - - + -
60J ILE* 3.6 26.0 - - + -
72J LEU* 5.5 1.1 - - + -
118J ILE* 3.7 10.3 - - + +
119J THR 2.9 17.2 + - - +
120J ILE 3.6 2.9 - - - +
122J SER* 1.3 77.2 - - - +
124J LEU* 1.3 66.1 + - + +
126J ARG* 3.1 5.1 + - - +
127J VAL* 3.0 28.1 + - + +
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Residues in contact with LEU 124 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63G ILE* 4.8 6.3 - - + -
68J VAL* 3.8 27.8 - - + -
71J LEU* 4.4 9.9 - - + -
72J LEU* 4.4 16.2 - - + -
75J TYR* 5.2 0.2 - - + -
120J ILE* 2.9 37.0 + - + +
123J ALA* 1.3 73.5 - - + +
125J ALA* 1.3 61.2 + - - +
127J VAL* 3.2 7.9 + - + +
128J LYS* 2.9 30.5 + - - +
171J LEU* 3.9 24.6 - - + +
174J THR* 3.8 22.2 - - - +
175J LEU* 3.8 18.1 - - + +
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Residues in contact with ALA 125 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121J VAL 3.0 19.2 + - - +
122J SER* 3.7 7.4 - - - +
124J LEU* 1.3 76.4 - - - +
126J ARG* 1.3 57.6 + - - +
128J LYS* 3.4 4.3 + - - +
129J ARG* 3.0 44.9 + - - +
175J LEU* 3.5 18.1 - - + +
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Residues in contact with ARG 126 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52J LYS* 5.4 2.0 - - - +
56J TYR* 3.4 24.0 - - - +
113J GLU* 2.7 37.4 + - - -
115J GLU* 3.4 24.2 + - - -
118J ILE* 3.2 22.5 - - - +
122J SER* 3.2 29.9 + - - +
123J ALA 3.1 7.4 + - - +
125J ALA* 1.3 74.5 - - - +
127J VAL* 1.3 64.6 + - - +
129J ARG* 3.2 30.7 + - - +
130J ASP* 3.0 28.6 + - - +
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Residues in contact with VAL 127 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49J LEU* 5.5 2.0 - - + -
53J LEU* 3.8 21.1 - - + -
56J TYR* 3.6 26.7 - - + -
72J LEU* 4.4 8.3 - - + -
75J TYR* 4.2 12.1 - - + -
123J ALA 3.0 16.2 + - - +
124J LEU* 3.3 15.3 - - + +
126J ARG* 1.3 76.6 - - - +
128J LYS* 1.3 57.4 + - - +
130J ASP* 3.1 8.3 + - - +
131J PHE* 2.7 45.2 + - + -
171J LEU* 3.3 23.1 - - + -
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Residues in contact with LYS 128 (chain J).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124J LEU 2.9 17.6 + - - +
125J ALA* 3.6 6.3 - - - +
127J VAL* 1.3 78.4 - - - +
129J ARG* 1.3 56.5 + - - +
131J PHE* 3.2 4.4 + - - +
132J GLU* 2.8 67.6 + - + +
168J ILE* 3.8 14.5 - - + +
171J LEU* 3.7 22.9 - - + -
172J GLY* 3.5 36.6 - - - +
175J LEU* 4.2 12.1 - - + -
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Residues in contact with ARG 129 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125J ALA* 3.0 35.7 + - - +
126J ARG* 3.4 31.9 - - - +
128J LYS* 1.3 77.2 - - - +
130J ASP* 1.3 59.3 + - - +
132J GLU* 3.2 16.7 + - - +
133J TYR* 2.9 27.4 + - - +
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Residues in contact with ASP 130 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49J LEU* 4.2 22.5 - - + +
52J LYS* 2.7 42.6 + - - +
56J TYR* 5.3 0.7 - - - -
110J ILE* 3.9 20.5 - - + +
111J ALA 5.4 0.3 + - - -
126J ARG 3.0 17.8 + - - +
127J VAL* 3.7 7.5 - - - +
129J ARG* 1.3 75.8 - - - +
131J PHE* 1.3 62.7 + - - +
133J TYR* 3.2 9.0 + - - +
134J LEU* 2.9 32.8 + - - +
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Residues in contact with PHE 131 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49J LEU* 3.6 32.8 - - + -
53J LEU* 4.8 1.1 - - + -
75J TYR* 3.8 46.4 - + + -
79J VAL* 4.4 10.1 - - + -
127J VAL* 2.7 25.9 + - + +
128J LYS 3.5 5.2 - - - +
130J ASP* 1.3 73.3 - - + +
132J GLU* 1.3 57.0 + - - +
134J LEU* 3.3 4.7 + - + +
135J SER* 2.8 28.4 + - - -
164J LEU* 3.8 24.4 - - + +
167J ALA* 3.8 28.5 - - + -
168J ILE* 3.6 17.8 - - + +
171J LEU* 3.8 18.8 - - + -
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Residues in contact with GLU 132 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128J LYS* 2.8 53.7 + - - +
129J ARG* 3.5 17.6 - - - +
131J PHE* 1.3 74.3 - - - +
133J TYR* 1.3 67.3 + - - +
135J SER* 3.2 3.2 + - - -
136J THR* 3.0 30.2 + - + +
168J ILE* 3.8 28.9 - - + +
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Residues in contact with TYR 133 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41J GLN* 3.7 10.9 + - - -
45J ASP* 3.2 28.5 + - - -
109J GLY* 3.4 31.0 - - - -
110J ILE* 3.7 25.8 - - + -
129J ARG 2.9 14.2 + - - +
130J ASP* 3.6 12.3 - - - +
132J GLU* 1.3 76.2 - - - +
134J LEU* 1.3 67.7 + - + +
136J THR* 3.0 23.8 + - - -
137J ARG* 3.0 38.5 + - + +
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Residues in contact with LEU 134 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42J HIS* 5.2 2.9 - - - +
45J ASP* 3.7 31.6 - - + +
46J LEU* 3.6 20.9 - - + -
49J LEU* 3.5 31.6 - - + -
79J VAL* 5.6 0.7 - - + -
110J ILE* 4.3 7.6 - - + -
130J ASP 2.9 17.9 + - - +
131J PHE* 3.6 10.5 - - + +
133J TYR* 1.3 80.9 - - + +
135J SER* 1.3 53.3 + - - +
137J ARG* 3.2 5.8 + - + +
138J PHE* 2.7 65.1 + - + -
164J LEU* 4.0 7.6 - - + -
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Residues in contact with SER 135 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131J PHE 2.8 18.3 + - - -
132J GLU* 3.4 5.8 - - - -
134J LEU* 1.3 76.9 - - - +
136J THR* 1.3 59.0 + - - +
139J SER* 2.9 35.3 + - - -
161J LEU* 3.6 16.3 + - - +
164J LEU* 3.9 14.8 - - - +
168J ILE* 4.0 17.6 - - - +
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Residues in contact with THR 136 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132J GLU* 3.0 15.3 + - + +
133J TYR* 3.0 15.3 + - - -
135J SER* 1.3 76.7 - - - +
137J ARG* 1.3 67.4 + - - +
139J SER* 3.3 8.1 + - - -
140J GLN* 3.2 29.8 + - - +
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Residues in contact with ARG 137 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38J GLN* 3.5 25.8 - - - +
41J GLN* 4.6 19.6 + - + +
42J HIS* 3.8 15.0 - - + +
45J ASP* 4.8 2.5 - - - +
133J TYR* 3.0 49.1 + - + +
134J LEU* 3.5 11.4 - - + +
136J THR* 1.3 85.2 + - - +
138J PHE* 1.3 62.4 + - - +
140J GLN* 2.8 46.1 + - - +
141J THR* 3.4 13.5 + - - -
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Residues in contact with PHE 138 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42J HIS* 3.3 39.9 - + + -
46J LEU* 3.9 21.1 - - + -
86J ILE* 3.3 24.9 - - + -
134J LEU* 2.7 48.3 + - + +
137J ARG* 1.3 72.9 - - - +
139J SER* 1.3 57.7 + - - +
141J THR* 3.0 3.5 + - - -
142J GLN 2.9 23.7 + - - -
157J ILE* 3.3 25.6 - - + +
160J ILE* 3.9 17.7 - - + -
161J LEU* 3.3 16.4 - - + -
164J LEU* 3.5 26.5 - - + -
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Residues in contact with SER 139 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149F GLY 6.0 1.6 - - - -
135J SER* 2.9 25.6 + - - -
136J THR* 3.6 8.4 - - - -
137J ARG 3.2 0.2 - - - -
138J PHE* 1.3 77.3 - - - +
140J GLN* 1.3 63.6 + - - +
142J GLN* 3.2 6.0 + - - +
143J VAL* 3.0 30.3 + - - +
161J LEU* 4.0 20.5 - - - +
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Residues in contact with GLN 140 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38J GLN* 3.6 12.2 + - - +
136J THR* 3.2 18.3 + - - +
137J ARG* 2.8 46.0 + - - +
138J PHE 3.2 0.4 - - - -
139J SER* 1.3 75.8 - - - +
141J THR* 1.3 63.9 + - - +
143J VAL* 3.2 10.1 + - - +
144J LEU* 3.0 29.0 + - + +
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Residues in contact with THR 141 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35J ILE* 4.4 7.4 - - + -
38J GLN* 3.1 22.0 + - + +
39J LEU* 3.7 29.4 - - + -
42J HIS* 2.6 27.6 + - - +
137J ARG 3.4 0.4 + - - -
138J PHE 3.0 8.6 + - - -
140J GLN* 1.3 75.8 - - - +
142J GLN* 1.3 61.3 + - - +
144J LEU* 3.1 10.7 + - - +
145J ALA* 2.8 27.9 + - - +
153J THR* 4.4 7.0 - - + -
157J ILE* 4.0 13.5 - - + -
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Residues in contact with GLN 142 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149F GLY* 4.1 19.6 + - - +
151F ALA* 3.5 28.6 - - + +
138J PHE 2.9 8.2 + - - +
139J SER* 3.2 10.0 + - - +
141J THR* 1.3 76.0 - - - +
143J VAL* 1.3 75.8 + - + +
145J ALA* 3.8 5.8 - - - +
146J ALA* 2.8 33.7 + - - +
154J ASP* 2.8 32.1 - - - +
157J ILE* 3.6 27.1 - - + +
158J THR* 4.4 3.8 - - - +
161J LEU* 4.2 8.3 - - + -
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Residues in contact with VAL 143 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149F GLY* 5.4 9.0 - - - +
139J SER* 3.0 20.9 + - - +
140J GLN* 3.5 10.1 - - - +
142J GLN* 1.3 93.2 - - + +
144J LEU* 1.3 65.5 + - + +
146J ALA* 3.3 2.0 + - - +
147J GLU* 2.9 55.2 + - + +
----------------------------------------------------------
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Residues in contact with LEU 144 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31J ALA* 5.5 2.4 - - + +
34J ALA* 4.4 28.5 - - + +
35J ILE* 4.0 13.2 - - + -
38J GLN* 3.9 28.7 - - + -
140J GLN* 3.0 18.8 + - + +
141J THR* 3.1 8.7 + - - +
143J VAL* 1.3 79.3 - - + +
145J ALA* 1.3 63.2 + - - +
147J GLU* 3.4 11.3 + - - +
148J SER* 3.0 27.3 + - - -
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Residues in contact with ALA 145 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35J ILE* 3.8 8.0 - - + +
141J THR 2.8 19.0 + - - +
142J GLN* 3.8 4.5 - - - +
144J LEU* 1.3 72.8 - - - +
146J ALA* 1.3 62.4 + - - +
148J SER* 3.3 6.6 + - - -
149J GLY 3.1 4.2 + - - -
150J ASP* 2.8 51.0 + - + +
153J THR* 4.0 12.3 - - + -
154J ASP* 3.7 18.2 - - - +
----------------------------------------------------------
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Residues in contact with ALA 146 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142J GLN* 2.8 30.3 + - - +
143J VAL* 3.6 4.3 - - - +
145J ALA* 1.3 76.9 - - - +
147J GLU* 1.3 64.0 + - + +
149J GLY* 3.4 11.3 + - - -
154J ASP* 3.6 20.4 + - - +
----------------------------------------------------------
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Residues in contact with GLU 147 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143J VAL* 2.9 42.0 + - + +
144J LEU* 4.0 11.5 - - - +
146J ALA* 1.3 78.0 - - + +
148J SER* 1.3 59.7 + - - +
149J GLY 3.7 0.2 + - - -
----------------------------------------------------------
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Residues in contact with SER 148 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28J ASP* 4.8 8.0 - - - +
31J ALA* 3.5 28.9 - - - +
35J ILE* 3.5 17.0 - - - +
144J LEU 3.0 18.0 + - - -
145J ALA 3.3 5.9 + - - -
147J GLU* 1.3 77.4 - - - +
149J GLY* 1.3 60.8 + - - +
150J ASP* 3.5 4.5 + - - +
----------------------------------------------------------
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Residues in contact with GLY 149 (chain J).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142B GLN* 4.3 15.4 + - - +
143B VAL* 5.5 7.0 - - - +
145J ALA 3.1 5.0 + - - -
146J ALA 3.4 9.5 + - - -
147J GLU 3.4 1.2 + - - -
148J SER* 1.3 79.3 - - - +
150J ASP* 1.3 59.3 + - - +
151J ALA* 2.8 14.3 + - - +
----------------------------------------------------------
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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