Contacts of the helix formed by residues 120 - 149 (chain L) 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 L).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63H ILE* 4.4 10.5 - - + -
60L ILE* 4.1 18.8 - - + -
61L TYR 3.4 23.9 + - - +
62L GLY* 4.0 2.7 - - - -
64L GLU* 3.4 33.0 - - - +
65L PHE* 3.4 31.6 - - - +
68L VAL* 3.7 22.8 - - + +
119L THR* 1.3 71.7 - - - +
121L VAL* 1.3 67.6 + - + +
123L ALA* 3.2 5.3 + - - +
124L LEU* 2.9 35.7 + - + +
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Residues in contact with VAL 121 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63H ILE* 4.4 24.0 - - + -
119L THR* 4.0 11.2 - - - +
120L ILE* 1.3 79.0 - - + +
122L SER* 1.3 62.9 + - - +
125L ALA* 2.9 31.4 + - - +
175L LEU* 3.7 22.1 - - + +
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Residues in contact with SER 122 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118L ILE* 3.6 7.8 - - - +
119L THR* 2.7 24.0 + - - -
120L ILE 3.2 0.8 - - - -
121L VAL* 1.3 85.4 - - - +
123L ALA* 1.3 61.3 + - - +
125L ALA* 3.5 5.6 + - - +
126L ARG* 3.1 58.0 + - - +
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Residues in contact with ALA 123 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56L TYR* 3.8 24.4 - - + -
60L ILE* 3.6 25.6 - - + -
68L VAL* 5.9 0.2 - - + -
72L LEU* 5.5 1.8 - - + -
118L ILE* 3.7 10.0 - - + +
119L THR 2.9 17.6 + - - +
120L ILE 3.7 3.1 - - - +
122L SER* 1.3 77.2 - - - +
124L LEU* 1.3 66.5 + - + +
126L ARG* 3.1 4.9 + - - +
127L VAL* 3.0 27.7 + - + +
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Residues in contact with LEU 124 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63H ILE* 4.7 6.7 - - + -
68L VAL* 3.8 28.0 - - + -
71L LEU* 4.4 12.8 - - + -
72L LEU* 4.4 13.5 - - + -
75L TYR* 5.3 0.2 - - + -
120L ILE* 2.9 36.9 + - + +
123L ALA* 1.3 76.1 - - + +
125L ALA* 1.3 63.7 + - - +
127L VAL* 3.2 8.1 - - + +
128L LYS* 2.9 25.1 + - - +
171L LEU* 3.9 24.0 - - + +
174L THR* 3.8 22.4 - - + +
175L LEU* 3.8 19.5 - - + +
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Residues in contact with ALA 125 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121L VAL 2.9 19.4 + - - +
122L SER* 3.7 7.2 - - - +
124L LEU* 1.3 75.7 - - - +
126L ARG* 1.3 58.3 + - + +
128L LYS* 3.4 3.7 + - - +
129L ARG* 3.0 42.9 + - - +
175L LEU* 3.4 19.6 - - + +
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Residues in contact with ARG 126 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52L LYS* 5.4 3.1 - - - +
56L TYR* 3.3 24.9 - - - +
113L GLU* 2.7 40.6 + - - -
115L GLU* 3.5 25.2 + - - -
118L ILE* 3.2 20.8 - - - +
122L SER* 3.1 29.8 + - - +
123L ALA 3.1 6.5 + - - +
125L ALA* 1.3 74.6 - - + +
127L VAL* 1.3 65.0 + - - +
129L ARG* 3.2 26.7 + - - +
130L ASP* 3.0 27.0 + - - +
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Residues in contact with VAL 127 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49L LEU* 5.7 1.6 - - + -
53L LEU* 3.9 22.4 - - + -
56L TYR* 3.5 26.7 - - + -
72L LEU* 4.4 8.3 - - + -
75L TYR* 4.3 11.4 - - + -
123L ALA 3.0 16.4 + - - +
124L LEU* 3.2 17.9 - - + +
126L ARG* 1.3 72.8 - - - +
128L LYS* 1.3 65.9 + - - +
130L ASP* 3.2 8.6 + - - +
131L PHE* 2.7 39.4 + - + -
171L LEU* 3.3 23.1 - - + -
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Residues in contact with LYS 128 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124L LEU 2.9 18.1 + - - +
125L ALA* 3.5 6.1 - - - +
127L VAL* 1.3 77.3 - - - +
129L ARG* 1.3 57.5 + - - +
131L PHE* 3.2 4.3 + - - +
132L GLU* 2.9 67.6 + - + +
168L ILE* 3.7 15.4 - - + +
171L LEU* 3.6 21.1 - - + -
172L GLY* 3.5 38.1 - - - +
175L LEU* 4.2 12.3 - - + -
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Residues in contact with ARG 129 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125L ALA* 3.0 31.0 + - - +
126L ARG* 3.5 30.5 - - - +
127L VAL 3.2 0.4 - - - -
128L LYS* 1.3 77.4 - - - +
130L ASP* 1.3 60.8 + - - +
132L GLU* 3.3 15.5 + - - +
133L TYR* 2.9 27.5 + - + +
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Residues in contact with ASP 130 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49L LEU* 4.3 20.0 - - + +
52L LYS* 2.7 43.9 + - - +
56L TYR* 5.4 0.5 - - - -
110L ILE* 3.8 20.7 - - + +
111L ALA 5.4 0.3 + - - -
126L ARG 3.0 17.1 + - - +
127L VAL* 3.2 9.0 + - - +
129L ARG* 1.3 76.2 - - - +
131L PHE* 1.3 61.8 + - - +
133L TYR* 3.3 8.1 + - - +
134L LEU* 2.9 33.9 + - - +
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Residues in contact with PHE 131 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49L LEU* 3.7 30.5 - - + -
53L LEU* 4.9 3.4 - - + -
75L TYR* 3.8 45.3 - + + -
79L VAL* 4.5 10.3 - - + -
127L VAL* 2.7 24.4 + - + +
128L LYS 3.5 4.9 - - - +
130L ASP* 1.3 73.1 - - - +
132L GLU* 1.3 58.5 + - - +
134L LEU* 3.3 4.5 + - + +
135L SER* 2.8 29.1 + - - -
164L LEU* 3.8 24.9 - - + +
167L ALA* 3.8 28.7 - - + -
168L ILE* 3.6 17.8 - - + +
171L LEU* 3.8 19.1 - - + -
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Residues in contact with GLU 132 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128L LYS* 2.9 52.2 + - - +
129L ARG* 3.5 17.5 - - - +
131L PHE* 1.3 74.1 - - - +
133L TYR* 1.3 65.5 + - - +
135L SER* 3.1 4.5 + - - -
136L THR* 3.0 29.3 + - + +
168L ILE* 3.8 28.8 - - + +
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Residues in contact with TYR 133 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41L GLN* 3.5 9.7 + - - -
45L ASP* 3.2 28.4 + - - -
109L GLY* 3.3 31.4 + - - -
110L ILE* 3.7 26.9 - - + -
129L ARG* 2.9 17.6 + - + +
130L ASP* 3.3 9.2 + - - +
132L GLU* 1.3 77.2 - - - +
134L LEU* 1.3 67.7 + - + +
136L THR* 3.0 22.7 + - - -
137L ARG* 3.1 39.9 + - + +
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Residues in contact with LEU 134 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42L HIS* 5.2 3.6 - - - +
45L ASP* 3.7 33.4 - - + +
46L LEU* 3.6 21.3 - - + -
49L LEU* 3.5 32.5 - - + -
79L VAL* 5.6 0.7 - - + -
110L ILE* 4.3 8.5 - - + -
130L ASP 2.9 17.8 + - - +
131L PHE* 3.5 11.2 - - + +
133L TYR* 1.3 78.1 - - + +
135L SER* 1.3 53.1 + - - +
137L ARG* 3.2 5.7 + - + +
138L PHE* 2.7 63.7 + - + -
164L LEU* 4.0 7.6 - - + -
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Residues in contact with SER 135 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131L PHE 2.8 18.5 + - - -
132L GLU* 3.1 7.2 + - - -
134L LEU* 1.3 77.9 - - - +
136L THR* 1.3 59.4 + - - +
138L PHE 3.4 0.2 + - - -
139L SER* 2.9 35.2 + - - -
161L LEU* 3.7 16.0 + - - +
164L LEU* 3.9 13.4 - - - +
165L GLY* 5.6 1.6 + - - -
168L ILE* 4.0 17.7 - - - +
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Residues in contact with THR 136 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132L GLU* 3.0 14.3 + - + +
133L TYR* 3.0 14.8 + - - -
135L SER* 1.3 76.2 - - - +
137L ARG* 1.3 69.3 + - - +
139L SER* 3.4 7.3 + - - -
140L GLN* 3.2 30.0 + - - +
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Residues in contact with ARG 137 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38L GLN* 3.5 15.8 - - - +
41L GLN* 3.3 40.9 + - - +
42L HIS* 3.7 9.0 - - + +
133L TYR* 3.1 46.1 + - + +
134L LEU* 3.5 7.6 - - + +
136L THR* 1.3 84.7 + - - +
138L PHE* 1.3 61.0 + - - +
140L GLN* 2.9 39.4 + - - +
141L THR* 3.4 14.0 + - - -
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Residues in contact with PHE 138 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42L HIS* 3.3 40.4 - + + -
46L LEU* 3.9 21.5 - - + -
86L ILE* 3.3 25.1 - - + -
134L LEU* 2.7 46.7 + - + +
137L ARG* 1.3 69.6 - - - +
139L SER* 1.3 60.4 + - - +
141L THR* 3.0 3.3 + - - -
142L GLN 2.9 24.4 + - - -
157L ILE* 3.3 25.7 - - + +
160L ILE* 3.8 18.8 - - + -
161L LEU* 3.3 16.6 - - + -
164L LEU* 3.5 27.1 - - + -
----------------------------------------------------------
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Residues in contact with SER 139 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135L SER* 2.9 23.6 + - - -
136L THR* 3.6 8.0 - - - -
138L PHE* 1.3 76.4 - - - +
140L GLN* 1.3 63.9 + - - +
142L GLN* 3.2 11.1 + - - +
143L VAL* 2.9 29.9 + - - +
161L LEU* 3.9 15.7 - - - +
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Residues in contact with GLN 140 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38L GLN* 3.7 14.1 + - - +
136L THR* 3.2 19.2 + - - +
137L ARG* 2.9 45.3 + - - +
138L PHE 3.2 0.8 - - - -
139L SER* 1.3 76.8 - - - +
141L THR* 1.3 58.9 + - - +
143L VAL* 3.3 8.6 + - - +
144L LEU* 3.0 33.5 + - + +
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Residues in contact with THR 141 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35L ILE* 4.5 8.1 - - + -
38L GLN* 3.1 22.9 + - + +
39L LEU* 3.7 28.9 - - + -
42L HIS* 2.6 27.7 + - - +
137L ARG 3.4 0.4 + - - -
138L PHE 3.0 8.8 + - - -
140L GLN* 1.3 76.4 - - - +
142L GLN* 1.3 55.1 - - - +
144L LEU* 3.1 9.0 + - - +
145L ALA* 2.8 33.5 + - - +
153L THR* 4.4 7.6 - - + -
157L ILE* 4.1 14.1 - - + -
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Residues in contact with GLN 142 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149E GLY* 4.4 12.7 + - - -
151E ALA* 3.5 33.4 - - + +
138L PHE 2.9 11.7 + - - +
139L SER* 3.3 12.1 - - - +
141L THR* 1.3 76.1 - - - +
143L VAL* 1.3 78.2 + - - +
145L ALA* 3.8 5.4 - - - +
146L ALA* 2.8 33.0 + - - +
154L ASP* 2.8 29.8 - - - +
157L ILE* 3.8 16.0 - - + +
158L THR* 3.9 9.4 - - - +
161L LEU* 4.1 7.0 - - + -
----------------------------------------------------------
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Residues in contact with VAL 143 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149E GLY* 5.6 7.0 - - - +
139L SER* 2.9 20.1 + - - +
140L GLN* 3.5 10.8 - - - +
142L GLN* 1.3 91.1 - - - +
144L LEU* 1.3 65.4 + - + +
146L ALA* 3.3 2.5 + - - +
147L GLU* 2.9 55.7 + - + +
----------------------------------------------------------
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Residues in contact with LEU 144 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34L ALA* 4.2 28.9 - - + +
35L ILE* 4.0 12.6 - - + +
38L GLN* 3.9 29.2 - - + -
140L GLN* 3.0 19.6 + - + +
141L THR* 3.1 7.6 + - - +
143L VAL* 1.3 80.7 - - + +
145L ALA* 1.3 63.0 - - - +
147L GLU* 3.8 11.4 - - - +
148L SER* 3.0 27.1 + - - -
----------------------------------------------------------
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Residues in contact with ALA 145 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35L ILE* 3.8 7.6 - - + +
141L THR 2.8 19.7 + - - +
142L GLN* 3.8 3.8 - - - +
144L LEU* 1.3 73.4 - - - +
146L ALA* 1.3 63.3 + - - +
148L SER* 3.4 6.4 + - - -
149L GLY 3.1 3.6 + - - -
150L ASP* 2.8 50.7 + - + +
153L THR* 4.0 12.3 - - + -
154L ASP* 3.7 17.7 - - - +
----------------------------------------------------------
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Residues in contact with ALA 146 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142L GLN* 2.8 27.1 + - - +
143L VAL* 3.6 6.5 - - - +
144L LEU 3.3 0.2 - - - -
145L ALA* 1.3 77.6 - - - +
147L GLU* 1.3 63.7 + - + +
149L GLY* 3.3 11.4 + - - -
154L ASP* 3.5 21.0 + - - +
----------------------------------------------------------
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Residues in contact with GLU 147 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143L VAL* 2.9 40.9 + - + +
144L LEU* 4.0 10.5 - - - +
146L ALA* 1.3 78.6 - - + +
148L SER* 1.3 59.3 + - - +
149L GLY 3.7 0.5 + - - -
----------------------------------------------------------
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Residues in contact with SER 148 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27L PRO 4.7 5.2 - - - -
31L ALA* 3.6 28.7 - - - -
35L ILE* 3.5 16.8 - - - +
144L LEU 3.0 17.9 + - - -
145L ALA 3.4 5.5 + - - -
146L ALA 3.2 0.2 - - - -
147L GLU* 1.3 76.3 - - - +
149L GLY* 1.3 59.7 + - - +
150L ASP* 3.4 5.4 + - - +
----------------------------------------------------------
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Residues in contact with GLY 149 (chain L).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142C GLN* 4.2 14.6 + - - +
143C VAL* 5.5 6.4 - - - +
145L ALA 3.1 4.3 + - - -
146L ALA 3.3 9.9 + - - -
147L GLU 3.4 1.2 + - - -
148L SER* 1.3 78.2 - - - +
150L ASP* 1.3 59.0 + - - +
151L ALA* 2.8 14.7 + - - +
----------------------------------------------------------
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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