Contacts of the helix formed by residues 117 - 144 (chain C) in PDB entry 4CKG
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 LEU 117 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C VAL* 3.8 26.5 - - + +
31C LEU* 6.0 6.1 - - + -
32C GLU* 4.2 22.9 - - + +
35C LEU* 5.4 8.1 - - + -
112C LEU 4.2 4.8 + - - +
113C VAL* 4.4 13.2 + - + +
115C GLU 3.3 0.6 - - - -
116C GLY* 1.4 82.6 - - - +
118C ARG* 1.4 56.3 + - - +
119C GLY 3.6 1.8 - - - -
120C PHE* 3.8 19.4 + - + +
121C ARG* 3.0 70.7 + - - +
180C ILE* 4.6 19.1 - - + -
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Residues in contact with ARG 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125A ARG* 5.0 7.0 - - - +
129A ARG* 0.6 187.9 - - - +
169A ARG* 4.5 7.3 - - - +
114C LYS* 3.5 19.6 + - - +
115C GLU* 2.6 67.4 + - - +
117C LEU* 1.4 76.0 - - - +
119C GLY* 1.3 60.2 + - - +
121C ARG* 3.5 4.1 + - - +
122C GLU* 3.0 32.4 + - + +
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Residues in contact with GLY 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129A ARG* 5.6 0.7 - - - -
115C GLU 4.7 1.0 + - - -
116C GLY 5.4 0.8 - - - -
117C LEU 3.6 0.2 - - - -
118C ARG* 1.3 77.2 - - - +
120C PHE* 1.3 59.1 + - - +
122C GLU* 3.8 6.3 + - - +
123C ALA* 3.1 27.4 + - - +
176C GLN* 3.9 21.3 + - - -
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Residues in contact with PHE 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C VAL* 5.1 0.7 - - + -
25C GLU* 5.6 8.3 - - - -
28C VAL* 4.2 24.0 - - + -
116C GLY 5.5 2.0 + - - +
117C LEU* 3.9 29.1 - - + +
118C ARG 3.5 0.2 - - - -
119C GLY* 1.3 72.1 - - - +
121C ARG* 1.3 62.4 + - + +
123C ALA* 3.2 3.9 + - + +
124C ARG* 2.9 29.1 + - + +
173C TYR* 3.4 63.3 - + - -
176C GLN* 3.8 34.7 + - + +
177C ILE* 3.5 27.1 - - + -
180C ILE* 5.3 5.6 - - + -
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Residues in contact with ARG 121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C GLU* 5.6 6.3 + - - +
28C VAL* 3.9 23.4 - - - +
29C SER* 4.5 9.7 + - - -
32C GLU* 2.6 47.6 + - - +
113C VAL 6.0 0.4 + - - -
117C LEU* 3.0 48.1 + - + +
118C ARG* 3.5 4.2 + - - +
120C PHE* 1.3 76.0 - - + +
122C GLU* 1.4 58.7 + - + +
124C ARG* 3.3 14.3 + - + +
125C ARG* 2.9 27.9 + - - +
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Residues in contact with GLU 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A GLU* 1.6 33.1 - - - +
125A ARG* 1.7 35.1 + - - +
129A ARG* 5.6 0.4 - - - +
118C ARG* 3.0 26.1 + - + +
119C GLY* 3.9 6.7 - - - +
121C ARG* 1.4 75.9 - - - +
123C ALA* 1.3 58.8 + - - +
125C ARG* 2.6 37.1 + - - +
126C ASP* 3.5 16.3 + - - +
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Residues in contact with ALA 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C GLY 3.1 20.2 + - - +
120C PHE* 3.2 8.5 + - + +
122C GLU* 1.3 71.5 - - - +
124C ARG* 1.4 59.1 + - - +
126C ASP* 3.8 3.9 + - - +
127C PHE* 3.0 32.7 + - - +
169C ARG* 5.1 2.0 - - - +
172C ASP* 4.5 9.6 - - + -
173C TYR* 4.4 25.6 - - + +
176C GLN* 4.5 10.3 - - + -
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Residues in contact with ARG 124 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C GLU* 2.8 45.3 + - - +
120C PHE* 2.9 19.4 + - + +
121C ARG* 3.3 18.6 - - + +
123C ALA* 1.4 71.5 - - - +
125C ARG* 1.4 63.9 + - - +
127C PHE* 4.2 5.4 - - - -
128C TRP* 3.2 70.8 + - - +
173C TYR* 4.4 23.4 - - + -
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Residues in contact with ARG 125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A ARG* 4.9 2.4 - - - +
122A GLU* 1.6 63.5 + - - +
121C ARG 2.9 16.4 + - - +
122C GLU* 2.6 27.0 + - - +
123C ALA 3.4 0.8 - - - -
124C ARG* 1.4 79.8 - - - +
126C ASP* 1.3 60.2 + - - +
128C TRP* 3.4 3.8 + - - +
129C ARG* 2.9 50.6 + - + +
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Residues in contact with ASP 126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122C GLU 3.5 12.5 + - - +
123C ALA* 4.2 3.6 - - - +
125C ARG* 1.3 79.9 - - - +
127C PHE* 1.4 56.8 + - - +
129C ARG* 2.7 31.6 + - - +
130C GLY 2.9 26.2 + - - -
169C ARG* 2.6 58.4 + - + +
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Residues in contact with PHE 127 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C PHE* 3.9 18.8 - + - -
21C ILE* 3.6 40.6 - - + -
123C ALA 3.0 24.7 + - - +
124C ARG* 3.8 3.1 - - - +
125C ARG 3.5 0.2 - - - -
126C ASP* 1.4 70.0 - - - +
128C TRP* 1.4 73.6 + + - +
130C GLY* 3.6 0.7 + - - -
131C ALA* 3.1 19.4 + - - +
166C TYR* 3.6 33.2 - + - -
169C ARG* 3.9 16.2 - - + +
170C ALA* 3.5 41.1 - - + -
173C TYR* 3.8 29.8 - + + -
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Residues in contact with TRP 128 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21C ILE* 4.7 17.9 - - + +
22C GLU* 6.2 4.7 - - + -
25C GLU* 4.8 4.8 + - - -
124C ARG* 3.2 67.8 + - + +
125C ARG* 3.9 3.4 - - - +
127C PHE* 1.4 93.7 - + - +
129C ARG* 1.4 60.5 + - - +
131C ALA* 3.4 9.7 + - + +
132C GLU* 3.1 26.5 + - - +
173C TYR* 5.8 1.0 - - - -
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Residues in contact with ARG 129 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115A GLU* 5.8 0.2 - - - +
118A ARG* 0.6 214.7 - - - +
119A GLY* 5.0 2.6 - - - +
122A GLU* 5.7 1.2 - - - +
125C ARG* 2.9 30.2 + - - +
126C ASP* 2.7 36.3 + - - +
128C TRP* 1.4 78.4 - - - +
130C GLY* 1.3 49.8 + - - +
132C GLU* 3.4 15.6 - - - +
133C SER* 2.9 30.1 + - - -
169C ARG* 3.9 7.0 - - - +
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Residues in contact with GLY 130 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C ASP 2.9 14.6 + - - -
127C PHE 3.8 2.5 - - - -
129C ARG* 1.3 69.1 - - - +
131C ALA* 1.4 58.0 + - - +
132C GLU 3.3 0.2 - - - -
133C SER* 3.8 4.9 - - - -
134C LEU* 2.9 27.4 + - - +
162C ALA* 4.8 2.3 - - - +
166C TYR* 3.7 14.5 - - - +
169C ARG* 3.5 29.1 - - - +
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Residues in contact with ALA 131 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C ARG* 4.7 17.4 + - - +
127C PHE 3.1 14.9 + - - +
128C TRP* 3.4 15.2 + - + +
130C GLY* 1.4 73.5 - - - +
132C GLU* 1.3 52.9 + - - +
134C LEU* 3.2 6.2 + - - +
135C GLU* 2.8 37.9 + - - +
166C TYR* 3.7 19.7 - - + +
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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
----------------------------------------------------------
114A LYS* 5.5 4.3 + - - -
128C TRP 3.1 14.2 + - - +
129C ARG* 3.4 19.1 - - - +
131C ALA* 1.3 75.9 - - - +
133C SER* 1.3 59.1 + - - +
135C GLU* 3.4 6.5 + - - +
136C ALA* 3.1 24.0 + - + +
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Residues in contact with SER 133 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114A LYS* 6.2 2.5 - - - +
115A GLU* 5.3 8.3 + - - -
129C ARG 2.9 16.5 + - - -
130C GLY* 3.8 11.0 - - - -
131C ALA 3.4 0.2 - - - -
132C GLU* 1.3 73.9 - - - +
134C LEU* 1.4 58.1 + - - +
136C ALA* 4.0 3.3 - - - +
137C ALA* 3.0 30.6 + - - +
162C ALA* 4.4 12.0 - - - +
169C ARG* 4.9 6.3 - - - -
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Residues in contact with LEU 134 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13C ASP* 4.4 0.7 - - - +
18C ARG* 4.2 19.3 - - - +
130C GLY 2.9 19.5 + - - +
131C ALA* 3.2 5.8 + - - +
133C SER* 1.4 74.6 - - - +
135C GLU* 1.4 56.9 + - - +
137C ALA* 3.4 3.7 - - - +
138C LEU* 2.8 38.8 + - + +
159C LEU* 3.8 21.8 - - + -
162C ALA* 4.1 4.0 - - + +
163C ARG* 3.4 64.2 - - - +
166C TYR* 4.0 18.8 - - + -
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Residues in contact with GLU 135 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C ARG* 5.5 4.9 + - - -
131C ALA 2.8 19.5 + - - +
132C GLU* 3.4 7.5 + - + +
134C LEU* 1.4 72.3 - - - +
136C ALA* 1.4 57.3 + - - +
138C LEU* 3.4 15.4 + - + +
139C THR* 2.7 35.4 + - - +
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Residues in contact with ALA 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C GLU 3.1 15.7 + - - +
133C SER* 4.3 3.8 - - - +
135C GLU* 1.4 72.0 - - - +
137C ALA* 1.3 55.2 + - - +
139C THR* 3.7 8.7 - - - -
140C HIS* 2.7 55.8 + - + +
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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
----------------------------------------------------------
133C SER 3.0 20.3 + - - +
134C LEU* 3.4 5.2 - - - +
136C ALA* 1.3 74.9 - - - +
138C LEU* 1.4 61.6 + - - +
140C HIS* 4.0 3.6 - - - +
141C ASN* 3.1 24.3 + - - +
155C ALA 4.9 2.8 - - - +
158C ALA* 4.6 4.7 - - + +
159C LEU* 4.0 23.0 - - + +
162C ALA* 3.5 24.5 - - + -
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Residues in contact with LEU 138 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C LEU* 2.8 33.2 + - + +
135C GLU* 3.7 16.2 - - + +
137C ALA* 1.4 73.0 - - - +
139C THR* 1.4 53.4 + - - +
141C ASN* 3.2 5.3 + - - +
142C ALA* 2.8 37.2 + - - +
159C LEU* 4.1 18.6 - - + -
163C ARG* 4.0 22.7 - - - +
254D GLU* 4.2 3.6 - - - +
273D PHE* 4.3 15.1 - - + -
285D ARG* 3.8 28.9 - - - +
343D ASP* 3.8 21.1 - - - +
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Residues in contact with THR 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C GLU* 2.7 31.3 + - - +
136C ALA* 3.1 10.9 + - - -
138C LEU* 1.4 72.8 - - - +
140C HIS* 1.3 64.4 + - + +
142C ALA* 3.4 3.2 + - - -
143C GLU* 3.1 42.0 + - + +
273D PHE* 5.0 5.6 - - - -
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Residues in contact with HIS 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
106A GLN* 6.5 0.2 - - + -
136C ALA* 2.7 40.7 + - + +
137C ALA* 4.5 3.1 - - - +
139C THR* 1.3 83.5 - - + +
141C ASN* 1.4 58.4 + - - +
143C GLU* 4.0 8.5 + - - +
144C VAL* 4.1 11.8 + - - +
155C ALA* 3.9 21.2 - - + +
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Residues in contact with ASN 141 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137C ALA 3.1 20.4 + - - +
138C LEU* 3.2 4.4 + - - +
140C HIS* 1.4 76.2 - - - +
142C ALA* 1.3 63.7 + - - +
144C VAL* 3.7 5.4 - - - +
155C ALA* 4.7 7.6 - - - +
156C GLY* 3.6 20.7 + - - -
159C LEU* 3.5 28.3 - - + +
326D ARG* 2.6 53.0 + - - +
327D PHE* 4.4 1.7 - - - -
341D GLN* 4.9 0.2 + - - -
343D ASP* 3.4 33.7 + - - +
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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
----------------------------------------------------------
138C LEU 2.8 20.4 + - - +
139C THR* 4.1 2.9 - - - +
141C ASN* 1.3 78.1 - - - +
143C GLU* 1.4 63.5 + - - +
144C VAL* 3.5 5.9 + - - +
273D PHE* 3.9 25.6 - - + -
325D ARG* 3.5 11.1 + - - +
326D ARG* 5.0 0.3 - - - +
341D GLN* 2.8 42.2 + - - +
342D ALA 6.0 0.9 - - - +
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Residues in contact with GLU 143 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
139C THR* 3.1 33.0 + - + +
140C HIS* 4.0 4.0 + - - +
141C ASN 3.6 0.6 - - - -
142C ALA* 1.4 76.5 - - + +
144C VAL* 1.4 62.3 + - - +
145C PRO* 3.7 6.6 - - - +
283D TRP* 4.1 15.9 - - - +
325D ARG* 2.6 46.8 + - - +
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Residues in contact with VAL 144 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C HIS 4.1 11.9 + - - +
141C ASN* 3.7 10.8 - - - +
142C ALA 3.5 2.8 - - - +
143C GLU* 1.4 75.5 - - - +
145C PRO* 1.4 77.0 - - + +
146C ARG 3.9 0.9 + - - -
148C ARG* 4.0 11.2 - - + +
151C GLU* 4.6 4.9 - - + -
152C ALA* 3.7 38.6 - - + +
155C ALA* 5.7 1.3 - - + -
325D ARG* 5.3 1.7 - - - -
326D ARG* 3.5 42.4 + - - +
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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