Contacts of the helix formed by residues 118 - 148 (chain C) in PDB entry 4GCK
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 GLN 118 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C THR* 3.7 27.3 + - + +
114C LEU* 4.9 2.1 - - - +
117C GLU* 1.3 78.5 + - - +
119C ASP* 1.3 68.9 + - - +
120C ARG* 4.2 15.3 + - + +
121C LEU* 2.9 34.6 + - + +
122C GLN* 4.1 1.0 + - - +
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Residues in contact with ASP 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114C LEU 5.9 0.4 - - - -
115C MET* 5.7 2.4 - - - +
117C GLU 3.4 5.7 + - - +
118C GLN* 1.3 74.4 + - - +
120C ARG* 1.3 62.1 + - - +
122C GLN* 3.0 21.1 + - - +
123C GLY* 3.2 7.6 + - - -
29D SER* 3.2 28.5 + - - +
30D GLN* 4.7 11.3 - - - +
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Residues in contact with ARG 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C THR* 3.0 25.9 - - - +
57C ARG* 3.3 11.4 - - - +
60C ASP* 2.4 44.0 + - - -
118C GLN* 3.0 13.7 + - + +
119C ASP* 1.3 78.5 - - - +
121C LEU* 1.3 70.1 + - - +
123C GLY* 3.0 6.1 + - - +
124C ARG* 3.0 32.7 + - + +
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Residues in contact with LEU 121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56C THR* 4.2 8.5 - - + +
59C PHE* 3.8 17.9 - - + -
60C ASP* 3.4 42.2 - - - +
63C ILE* 3.8 20.8 - - + +
114C LEU* 3.9 13.7 - - + -
117C GLU* 3.6 30.7 - - + -
118C GLN* 2.9 21.0 + - + +
120C ARG* 1.3 83.6 - - - +
122C GLN* 1.3 66.0 + - - +
124C ARG* 2.9 17.1 + - + +
125C ILE* 3.0 15.6 + - - +
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Residues in contact with GLN 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109C LEU 5.4 0.2 - - - +
110C THR 5.6 0.2 - - - -
111C GLY* 3.3 35.5 + - - -
114C LEU* 3.8 19.8 - - + +
115C MET* 5.2 8.9 - - + +
118C GLN 4.1 0.8 + - - -
119C ASP* 3.0 14.3 + - - +
121C LEU* 1.3 78.3 - - - +
123C GLY* 1.3 59.2 + - - +
125C ILE* 3.1 13.8 + - - +
126C ASN* 2.8 57.6 + - - +
112D HIS* 5.8 0.8 - - - -
175D ARG* 4.3 19.7 - - - +
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Residues in contact with GLY 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C ASP 3.2 6.2 + - - -
120C ARG* 3.0 10.2 + - - -
121C LEU 3.0 0.6 - - - -
122C GLN* 1.3 79.7 - - - +
124C ARG* 1.3 60.6 + - - +
126C ASN* 3.3 10.6 + - - +
127C GLN* 3.0 31.1 + - - +
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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
----------------------------------------------------------
60C ASP* 3.5 29.0 + - - +
63C ILE* 4.0 21.4 - - + +
64C GLU* 2.9 48.6 + - - +
67C GLU* 4.9 7.6 - - - +
120C ARG* 3.0 29.5 + - + +
121C LEU* 2.9 13.0 + - - +
123C GLY* 1.3 76.2 - - - +
125C ILE* 1.3 64.5 + - - +
127C GLN* 3.2 17.9 + - - +
128C LEU* 3.0 20.8 + - - +
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Residues in contact with ILE 125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C ILE* 3.7 30.7 - - + -
66C ILE* 4.9 3.1 - - + -
108C ILE* 4.1 13.5 - - + +
109C LEU* 3.7 30.5 - - + +
114C LEU* 3.8 18.2 - - + -
121C LEU 3.0 14.4 + - - +
122C GLN* 3.5 22.0 - - - +
124C ARG* 1.3 72.6 - - - +
126C ASN* 1.3 65.8 + - - +
128C LEU* 2.9 21.3 + - + +
129C PHE* 2.9 38.5 + - + -
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Residues in contact with ASN 126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122C GLN* 2.8 36.0 + - - +
123C GLY* 3.6 8.6 - - - +
125C ILE* 1.3 73.1 - - - +
127C GLN* 1.3 58.2 + - + +
129C PHE* 3.2 3.1 + - - +
130C GLU* 2.9 36.8 + - + +
175D ARG* 2.9 66.8 + - - +
176D SER* 4.6 3.7 - - - +
177D GLU* 5.5 3.0 + - - +
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Residues in contact with GLN 127 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C GLU* 5.0 3.8 - - - +
123C GLY 3.0 19.2 + - - +
124C ARG* 3.3 22.9 - - - +
126C ASN* 1.3 75.9 - - - +
128C LEU* 1.3 57.2 + - - +
130C GLU* 3.3 8.8 + - - +
131C ARG* 2.8 29.1 + - - +
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Residues in contact with LEU 128 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C ILE 5.2 0.4 - - - +
66C ILE* 3.8 29.2 - - + -
67C GLU* 3.5 48.0 + - + +
70C LEU* 4.2 6.7 - - + -
71C ILE* 4.2 19.1 - - + -
109C LEU* 4.1 16.4 - - + -
124C ARG 3.0 11.1 + - - +
125C ILE* 2.9 17.5 + - + +
127C GLN* 1.3 75.3 - - - +
129C PHE* 1.3 67.3 + - + +
131C ARG* 3.1 5.6 + - + +
132C ILE* 2.9 39.4 + - + +
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Residues in contact with PHE 129 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C ILE* 5.9 4.9 - - + -
109C LEU* 3.3 51.8 - - + -
110C THR* 5.6 0.7 - - - -
125C ILE* 2.9 32.4 + - + -
126C ASN 3.6 6.1 - - - +
128C LEU* 1.3 76.0 - - + +
130C GLU* 1.3 58.7 + - - +
132C ILE* 3.3 14.6 + - + +
133C GLU* 2.9 30.8 + - - +
163C LEU* 3.7 25.6 - - + +
166C CYS* 6.3 0.7 - - + -
167C GLU* 3.9 23.8 - - + -
170C LEU* 5.3 7.4 - - + -
175D ARG* 3.6 45.8 - - - +
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Residues in contact with GLU 130 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C ASN* 2.9 21.4 + - + +
127C GLN* 3.5 11.2 - - - +
129C PHE* 1.3 76.8 - - - +
131C ARG* 1.3 60.5 + - - +
133C GLU* 3.4 16.0 + - - +
134C VAL* 2.8 39.2 + - + +
137C ARG* 5.1 5.2 + - - -
175D ARG* 4.8 7.1 + - - -
180D TYR* 2.7 36.5 + - - -
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Residues in contact with ARG 131 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67C GLU* 3.5 26.4 + - - +
71C ILE* 3.7 48.6 - - + +
127C GLN 2.8 14.2 + - - +
128C LEU* 3.1 11.6 + - + +
130C GLU* 1.3 76.7 - - - +
132C ILE* 1.3 64.3 + - - +
134C VAL* 3.3 8.1 + - - +
135C GLN* 3.1 26.1 + - + +
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Residues in contact with ILE 132 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70C LEU* 4.2 22.2 - - + -
71C ILE* 4.6 5.6 - - + -
74C ILE* 4.3 20.0 - - + -
91C ILE* 5.0 0.7 - - + -
95C ILE* 3.8 32.3 - - + -
109C LEU* 6.1 0.7 - - + -
128C LEU* 2.9 40.2 + - + +
129C PHE* 3.6 20.2 - - + +
131C ARG* 1.3 75.6 - - - +
133C GLU* 1.3 63.2 + - - +
135C GLN* 3.1 9.6 + - - +
136C LEU* 3.0 35.4 + - + +
163C LEU* 4.3 8.5 - - + -
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Residues in contact with GLU 133 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C PHE 2.9 16.3 + - - +
130C GLU* 3.8 19.7 - - - +
132C ILE* 1.3 76.4 - - - +
134C VAL* 1.3 58.1 + - - +
136C LEU* 3.3 11.9 + - - +
137C ARG* 2.9 49.3 + - - +
156C THR* 4.4 4.3 - - - +
159C ALA* 3.8 16.6 - - + +
160C SER* 3.3 18.2 + - - -
163C LEU* 3.1 19.6 - - + +
172D ARG* 2.9 32.9 + - - -
175D ARG* 4.8 1.2 + - - -
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Residues in contact with VAL 134 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130C GLU* 2.8 35.2 + - + +
131C ARG* 3.6 6.7 - - - +
133C GLU* 1.3 73.6 - - - +
135C GLN* 1.3 60.1 + - - +
137C ARG* 2.8 35.7 + - - +
138C GLN* 2.9 26.8 + - + +
141C ARG* 4.5 6.8 + - - +
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Residues in contact with GLN 135 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71C ILE* 6.1 2.9 - - + -
74C ILE* 4.3 18.6 - - + +
75C ASN* 3.7 15.8 + - - -
78C LEU* 3.2 33.4 - - - +
91C ILE* 5.7 2.2 - - + -
131C ARG* 3.1 16.7 + - + +
132C ILE* 3.1 13.5 + - - +
134C VAL* 1.3 75.9 - - - +
136C LEU* 1.3 54.8 + - + +
138C GLN* 3.1 22.0 + - - +
139C VAL* 2.7 39.0 + - + +
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Residues in contact with LEU 136 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C LEU* 3.8 22.1 - - + +
91C ILE* 3.9 31.2 - - + -
92C VAL* 5.3 3.6 - - + -
95C ILE* 5.6 2.0 - - + -
132C ILE* 3.0 31.2 + - + +
133C GLU* 3.5 13.7 - - - +
135C GLN* 1.3 76.7 - - + +
137C ARG* 1.3 58.0 + - - +
139C VAL* 3.3 7.8 + - - +
140C MET* 2.9 39.0 + - + +
159C ALA* 4.0 26.0 - - + +
162C LEU* 4.4 17.9 - - + -
163C LEU* 4.7 9.4 - - + +
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Residues in contact with ARG 137 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130C GLU* 5.1 5.7 + - - -
133C GLU* 2.9 42.3 + - - +
134C VAL* 2.8 47.0 + - - +
136C LEU* 1.3 77.9 - - - +
138C GLN* 1.3 58.1 + - - +
140C MET* 3.1 7.6 + - - +
141C ARG* 2.9 47.4 + - - +
155C GLU* 3.7 25.4 - - + +
156C THR* 3.6 36.6 + - - +
159C ALA* 4.0 7.6 - - + +
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Residues in contact with GLN 138 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C LEU* 5.3 2.8 - - - +
134C VAL* 2.9 15.7 + - + +
135C GLN* 3.1 27.4 + - - +
137C ARG* 1.3 76.3 - - - +
139C VAL* 1.3 63.4 + - - +
141C ARG* 3.3 26.8 + - - +
142C GLU* 2.7 68.7 + - - +
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Residues in contact with VAL 139 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78C LEU* 3.5 30.7 - - + -
84C THR* 3.8 24.6 + - + +
87C ARG* 4.1 20.1 + - + +
88C LEU* 3.5 24.2 - - + -
91C ILE* 4.5 13.5 - - + -
135C GLN* 2.7 25.0 + - - +
136C LEU 3.6 7.4 - - - +
138C GLN* 1.3 74.7 - - - +
140C MET* 1.3 63.3 + - - +
142C GLU* 3.2 19.7 + - - +
143C LYS 3.7 3.8 + - - -
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Residues in contact with MET 140 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C THR* 4.5 1.6 - - - -
88C LEU* 4.2 13.0 - - + -
136C LEU* 2.9 19.5 + - + +
137C ARG* 3.4 6.7 - - - +
139C VAL* 1.3 78.8 - - - +
141C ARG* 1.3 61.1 + - - +
143C LYS* 3.2 19.9 + - - +
144C LYS* 4.7 1.0 + - - +
150C GLY* 5.5 0.5 - - - -
151C TYR* 3.8 31.1 + - + -
155C GLU* 3.6 23.8 - - + +
158C LEU* 3.5 29.8 - - + +
159C ALA* 3.6 26.0 - - + +
162C LEU* 3.3 34.5 - - + -
197C LEU* 4.1 7.2 - - + -
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Residues in contact with ARG 141 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C VAL* 4.5 7.1 + - - +
137C ARG* 2.9 25.3 + - - +
138C GLN* 3.8 41.5 + - - +
139C VAL 3.3 0.4 - - - -
140C MET* 1.3 77.5 - - - +
142C GLU* 1.3 62.1 + - - +
143C LYS 3.3 0.8 + - - -
144C LYS* 4.0 13.1 + - - +
145C MET* 3.4 19.2 - - + +
155C GLU* 3.5 33.8 - - + +
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Residues in contact with GLU 142 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87C ARG* 4.4 6.4 + - - +
138C GLN* 2.7 46.8 + - - +
139C VAL* 3.2 13.4 + - - +
140C MET 3.1 0.6 - - - -
141C ARG* 1.3 79.3 + - - +
143C LYS* 1.3 65.1 + - - +
144C LYS 3.1 3.8 + - - -
145C MET* 3.2 21.7 + - + +
146C ARG* 3.0 64.6 + - + +
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Residues in contact with LYS 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84C THR* 3.6 22.6 + - + +
85C THR* 5.0 8.3 - - - -
139C VAL 3.7 3.0 + - - -
140C MET 3.2 15.6 + - - +
142C GLU* 1.3 76.9 - - - +
144C LYS* 1.3 64.4 + - - +
146C ARG* 4.7 0.4 - - - +
147C GLU* 2.8 63.3 + - + +
148C GLY 3.7 0.5 + - - -
149C GLU* 3.5 21.1 + - - +
150C GLY* 4.0 12.9 + - - -
151C TYR* 3.6 43.3 - - + +
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Residues in contact with LYS 144 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C MET 5.7 1.1 - - - +
141C ARG* 4.0 13.6 + - - +
142C GLU 3.1 0.2 - - - -
143C LYS* 1.3 77.1 - - - +
145C MET* 1.3 64.2 + - + +
148C GLY* 2.6 45.5 + - - +
150C GLY* 3.3 33.6 - - - +
151C TYR 3.2 27.1 + - - +
155C GLU* 3.7 16.0 + - - +
----------------------------------------------------------
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Residues in contact with MET 145 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141C ARG* 3.4 28.9 - - + +
142C GLU* 3.2 22.7 + - + +
144C LYS* 1.3 84.3 - - + +
146C ARG* 1.3 65.0 + - + +
147C GLU 3.6 0.2 + - - -
148C GLY 4.5 1.2 + - - -
----------------------------------------------------------
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Residues in contact with ARG 146 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82C LYS* 3.8 36.1 + - + +
84C THR* 4.2 11.7 - - - +
87C ARG* 3.2 32.2 - - - +
142C GLU* 3.0 49.9 + - + +
143C LYS* 4.1 2.0 - - - +
145C MET* 1.3 79.4 - - + +
147C GLU* 1.3 65.9 + - + +
----------------------------------------------------------
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Residues in contact with GLU 147 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C ASP* 3.7 20.6 - - - +
84C THR* 3.6 19.4 + - - -
85C THR* 5.1 0.7 + - - -
143C LYS* 2.8 54.5 + - + +
146C ARG* 1.3 79.3 - - + +
148C GLY* 1.3 61.3 + - - +
149C GLU* 3.3 8.2 + - - +
----------------------------------------------------------
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Residues in contact with GLY 148 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C LYS* 2.6 32.0 + - - +
145C MET 4.5 1.4 + - - -
146C ARG 3.9 0.4 - - - -
147C GLU* 1.3 68.5 - - - +
149C GLU* 1.3 59.8 + - - -
150C GLY 3.5 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