Contacts of the helix formed by residues 138 - 161 (chain C) in PDB entry 3E2A
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 SER 138 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C LEU* 1.3 74.4 - - - +
139C PRO* 1.3 76.5 - - - +
140C GLU* 2.4 34.9 + - - -
141C LYS* 3.0 17.3 + - - +
142C ARG* 3.5 6.2 + - - +
219C ASN* 3.6 35.9 + - - -
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Residues in contact with PRO 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108C MET* 5.2 2.6 - - - +
137C LEU 3.3 4.0 - - - +
138C SER* 1.3 89.4 - - - +
140C GLU* 1.3 63.2 + - - +
142C ARG* 3.1 51.1 + - - +
143C ALA* 4.5 1.7 + - - +
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Residues in contact with GLU 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138C SER* 2.4 37.5 + - - -
139C PRO* 1.3 76.7 - - - +
141C LYS* 1.3 74.6 + - + +
143C ALA* 5.0 5.1 + - - +
144C ASP* 5.5 1.4 + - - +
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Residues in contact with LYS 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C LEU* 3.9 15.3 - - + +
138C SER* 3.0 12.6 + - - +
140C GLU* 1.3 100.1 - - + +
142C ARG* 1.3 64.7 + - - +
143C ALA 3.4 2.6 + - - -
144C ASP* 3.6 8.5 + - - +
145C MET* 3.3 20.1 + - - +
218C GLU* 3.8 38.0 + - - +
219C ASN 4.1 9.9 - - - +
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Residues in contact with ARG 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108C MET* 3.6 19.5 - - + -
127C TRP* 5.3 12.6 - - - +
134C LEU* 3.0 35.2 + - + +
135C GLY* 3.3 22.3 + - - -
137C LEU* 2.9 32.5 + - + -
138C SER 3.9 5.8 - - - +
139C PRO* 3.1 42.8 + - - +
141C LYS* 1.3 77.4 - - - +
143C ALA* 1.3 53.1 + - - +
145C MET* 3.2 3.8 + - - +
146C LEU* 2.8 36.0 + - - +
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Residues in contact with ALA 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104C ILE* 3.8 2.8 - - + +
105C HIS* 3.7 33.7 - - + +
108C MET* 3.6 28.0 - - + +
139C PRO 4.5 1.6 + - - -
140C GLU 5.0 4.2 + - - +
141C LYS 3.4 0.4 - - - -
142C ARG* 1.3 79.2 - - - +
144C ASP* 1.3 52.6 + - - +
146C LEU* 3.3 1.7 + - - +
147C THR* 2.7 38.8 + - - -
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Residues in contact with ASP 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C THR* 3.3 31.9 - - - +
105C HIS* 5.6 0.2 - - - -
140C GLU 5.5 1.1 + - - +
141C LYS* 3.6 11.4 + - - +
142C ARG 3.4 0.2 - - - -
143C ALA* 1.3 77.2 - - - +
145C MET* 1.3 62.0 + - - +
147C THR* 3.5 7.9 + - - +
148C LYS* 3.2 50.4 + - - +
180C VAL* 5.4 0.3 - - - +
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Residues in contact with MET 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C LEU* 3.8 7.4 - - + -
134C LEU* 3.5 18.4 - - + -
137C LEU* 3.4 30.3 - - + -
141C LYS 3.3 3.9 + - - +
142C ARG 3.2 5.5 + - - +
144C ASP* 1.3 80.2 + - - +
146C LEU* 1.3 56.4 + - - +
148C LYS* 3.1 19.1 + - + +
149C ILE* 3.0 40.2 + - + +
212C LEU* 3.8 44.0 - - + +
215C LEU* 4.2 14.4 - - + -
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Residues in contact with LEU 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104C ILE* 3.8 12.3 - - + -
107C ALA 6.0 0.2 - - - -
108C MET* 3.6 32.5 - - + -
123C ILE* 3.9 22.9 - - + +
126C ILE* 4.2 13.9 - - + -
127C TRP* 4.0 30.7 - - + +
134C LEU* 4.0 25.1 - - + +
142C ARG 2.8 20.9 + - - +
143C ALA* 3.8 5.2 - - - +
145C MET* 1.3 73.9 - - - +
147C THR* 1.3 56.7 + - - +
149C ILE* 4.4 5.8 - - + -
150C ASN* 2.8 33.6 + - + +
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Residues in contact with THR 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C GLY* 4.8 2.2 - - - -
98C HIS 3.2 41.0 + - - +
99C THR* 4.6 2.7 - - - +
100C ASN 5.6 0.3 + - - -
101C CYS* 4.5 4.9 + - + +
104C ILE* 3.8 27.5 - - + +
105C HIS* 5.4 1.9 - - - -
143C ALA 2.7 22.6 + - - -
144C ASP* 3.5 12.8 - - - +
145C MET 3.2 0.2 - - - -
146C LEU* 1.3 74.8 - - - +
148C LYS* 1.3 62.9 + - - +
150C ASN* 3.6 4.1 + - - +
151C VAL* 3.1 23.7 + - - +
180C VAL* 4.4 11.0 - - + -
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Residues in contact with LYS 148 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C THR* 6.1 0.4 - - - -
144C ASP* 3.2 39.4 + - - +
145C MET* 3.1 21.2 + - + +
147C THR* 1.3 75.6 - - - +
149C ILE* 1.3 64.1 + - - +
151C VAL* 3.1 13.9 + - - +
152C ALA* 3.2 12.3 + - - +
180C VAL* 4.3 16.6 - - + -
191C GLN* 3.2 36.4 - - - +
212C LEU* 4.3 22.5 - - + +
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Residues in contact with ILE 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C ILE* 3.7 13.0 - - + -
130C HIS* 3.4 55.0 - - + +
133C LEU* 4.1 14.1 - - + -
134C LEU* 4.2 12.6 - - + -
145C MET* 3.0 37.7 + - + +
146C LEU* 4.0 5.4 - - + +
148C LYS* 1.3 71.6 - - - +
150C ASN* 1.3 67.5 + - - +
152C ALA* 3.1 5.8 + - - +
153C GLU* 2.9 22.4 + - + +
209C ILE* 4.7 3.8 - - + -
212C LEU* 3.9 23.1 - - + -
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Residues in contact with ASN 150 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67C ALA 3.0 27.1 + - - -
68C ASN* 3.4 16.0 + - - +
104C ILE* 4.0 18.0 - - + +
123C ILE* 3.2 20.0 - - + +
126C ILE* 3.6 7.8 - - + +
146C LEU* 2.8 22.8 + - + +
147C THR* 3.6 6.0 + - - +
149C ILE* 1.3 78.1 - - - +
151C VAL* 1.3 63.7 + - - +
153C GLU* 3.2 6.6 + - - +
154C GLN* 2.7 55.6 + - - +
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Residues in contact with VAL 151 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C ASN* 4.1 8.5 - - - +
95C ILE* 4.3 5.8 - - + +
96C CYS 4.6 0.7 - - - -
97C GLY* 3.6 22.4 - - - +
147C THR 3.1 18.6 + - - +
148C LYS 3.1 8.5 + - - +
150C ASN* 1.3 75.0 - - - +
152C ALA* 1.3 63.9 + - - +
154C GLN* 3.2 8.0 + - - +
155C VAL* 3.1 26.6 + - + +
178C GLY* 3.5 40.2 - - - +
179C TRP 3.5 17.0 - - - +
180C VAL* 3.8 5.6 - - + -
191C GLN* 3.9 12.3 - - + -
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Residues in contact with ALA 152 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148C LYS 3.2 7.7 + - - +
149C ILE* 3.1 10.8 + - - +
151C VAL* 1.3 80.9 - - - +
153C GLU* 1.3 61.9 + - - +
155C VAL* 3.4 5.2 + - - +
156C TYR* 3.1 21.3 + - - +
191C GLN* 5.0 5.4 - - + +
193C VAL* 3.8 26.6 - - + +
205C TYR* 4.0 6.7 - - + -
208C ALA* 4.8 4.7 - - + -
209C ILE* 4.1 22.4 - - + -
212C LEU* 4.8 4.5 - - + -
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Residues in contact with GLU 153 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C ILE* 3.7 40.4 - - + +
129C LYS* 3.1 24.2 + - - +
130C HIS* 2.5 31.2 + - - +
149C ILE* 2.9 20.6 + - + +
150C ASN 3.7 1.1 - - - +
152C ALA* 1.3 76.3 - - + +
154C GLN* 1.3 58.5 + - - +
156C TYR* 3.3 11.8 - - - +
157C ASN* 2.9 35.1 + - - +
205C TYR* 2.7 27.0 + - + -
209C ILE* 4.3 0.6 - - + +
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Residues in contact with GLN 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68C ASN* 3.4 21.5 - - - +
69C GLN* 3.5 18.9 + - - +
70C VAL* 2.9 27.8 + - - +
71C ILE* 5.5 0.3 - - - +
95C ILE* 3.3 26.1 - - + +
126C ILE* 3.3 21.4 - - - +
150C ASN* 2.7 46.6 + - - +
151C VAL* 3.2 4.5 + - - +
153C GLU* 1.3 73.4 - - - +
155C VAL* 1.3 61.4 + - - +
157C ASN* 3.3 19.2 + - - +
158C LEU* 3.0 22.9 + - - +
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Residues in contact with VAL 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C ILE* 3.7 12.1 - - + -
151C VAL* 3.1 17.8 + - + +
152C ALA* 3.7 7.2 - - - +
154C GLN* 1.3 74.8 - - - +
156C TYR* 1.3 58.7 + - - +
158C LEU* 3.2 5.0 + - + +
159C GLY 2.9 24.4 + - - -
176C LEU* 3.9 28.8 - - + +
177C HIS 3.7 6.3 - - - +
178C GLY* 3.6 29.4 - - - -
193C VAL* 3.6 33.9 - - + +
195C ALA* 5.3 0.7 - - + -
201C LEU* 3.7 5.7 - - + +
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Residues in contact with TYR 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C LYS* 4.9 6.1 - - - -
152C ALA 3.1 13.4 + - - +
153C GLU* 3.3 15.5 - - - +
155C VAL* 1.3 76.7 - - - +
157C ASN* 1.3 62.6 + - - +
159C GLY* 3.2 2.8 + - - -
160C ARG* 3.0 64.5 + - - +
193C VAL* 4.8 0.8 - - - +
198C ARG* 3.9 12.8 + - - -
201C LEU* 3.9 19.5 - - + +
202C GLU* 2.3 40.2 + - - -
205C TYR* 3.7 55.1 - + + -
231C SO4 5.0 2.3 + - - -
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Residues in contact with ASN 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C VAL* 3.2 30.1 + - + +
71C ILE* 5.1 1.4 - - - +
72C HIS* 3.1 33.8 + - + +
126C ILE* 5.4 2.6 - - - +
153C GLU* 2.9 22.2 + - - +
154C GLN* 3.3 24.4 + - - +
155C VAL 3.3 0.2 - - - -
156C TYR* 1.3 76.4 - - - +
158C LEU* 1.3 62.3 + - - +
160C ARG* 3.2 25.9 + - - +
161C THR* 3.2 15.9 + - - +
121D LEU* 4.9 0.2 - - - +
125D ASP* 5.2 0.2 - - - +
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Residues in contact with LEU 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C ILE* 4.7 1.1 - - + -
70C VAL* 4.1 17.2 - - + +
81C VAL* 3.9 39.5 - - + -
93C ILE* 3.4 32.5 - - + +
95C ILE* 4.0 20.6 - - + -
154C GLN 3.0 16.9 + - - +
155C VAL* 3.4 5.8 - - + +
156C TYR 3.2 0.2 - - - -
157C ASN* 1.3 76.4 - - - +
159C GLY* 1.3 60.5 + - - +
161C THR* 2.8 27.5 + - + +
164C VAL* 3.3 13.2 - - + +
176C LEU* 3.9 25.8 - - + -
177C HIS 5.6 0.4 - - - +
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Residues in contact with GLY 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
155C VAL 2.9 10.7 + - - -
158C LEU* 1.3 75.8 - - - +
160C ARG* 1.3 55.9 + - - +
161C THR 3.5 0.2 - - - -
164C VAL* 4.1 2.8 - - - +
165C LYS* 3.4 20.1 - - - +
168C TRP* 3.6 15.5 - - - -
176C LEU* 3.5 19.4 - - - +
198C ARG* 3.8 2.3 - - - -
201C LEU* 3.5 26.2 - - - +
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Residues in contact with ARG 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C HIS* 3.7 4.9 - - - -
129C LYS* 6.0 1.0 - - - +
156C TYR* 3.0 52.9 + - - +
157C ASN* 3.2 26.6 + - - +
158C LEU 3.1 0.4 - - - -
159C GLY* 1.3 78.7 - - - +
161C THR* 1.3 66.9 + - - +
162C SER 3.6 0.5 + - - -
165C LYS* 3.6 17.5 - - - +
198C ARG* 3.8 11.9 - - - +
201C LEU* 4.2 1.6 - - + -
231C SO4 2.7 42.9 + - - +
112D ASP* 5.2 0.2 - - - +
117D ASN* 6.0 1.6 - - - +
121D LEU* 3.6 39.2 + - + +
124D ARG* 4.3 4.9 - - - +
125D ASP* 2.9 30.7 + - - +
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Residues in contact with THR 161 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C VAL* 4.5 11.0 - - + -
72C HIS* 5.5 6.3 - - - +
78C LEU* 3.5 29.6 - - + +
81C VAL* 4.7 0.3 - - - +
157C ASN 3.2 14.2 + - - +
158C LEU* 2.8 26.4 + - + +
160C ARG* 1.3 81.0 - - - +
162C SER* 1.3 64.8 + - - +
163C ILE* 3.9 4.2 - - - +
164C VAL* 3.2 19.4 + - - +
165C LYS* 3.2 20.4 + - - +
118D ASN* 3.3 11.4 - - - +
121D LEU* 4.5 3.1 - - + -
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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