Contacts of the helix formed by residues 115 - 139 (chain C) in PDB entry 2Q7M
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 GLY 115 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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90C TYR* 5.0 2.5 - - - -
93C VAL* 4.0 19.9 - - - +
113C ILE* 4.6 0.8 - - - +
114C PHE* 1.3 71.8 - - - +
116C LYS* 1.3 65.6 + - - +
117C ARG* 3.0 6.7 - - - -
118C ILE* 2.8 26.2 + - - +
119C ILE* 3.2 15.1 + - - +
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Residues in contact with LYS 116 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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502A 2CS 3.8 52.1 + - + +
113C ILE* 4.5 16.4 - - + +
114C PHE 3.6 2.8 + - - -
115C GLY* 1.3 74.1 - - - +
117C ARG* 1.3 68.0 + - - +
119C ILE* 3.5 10.3 - - - +
120C LEU* 2.9 33.3 + - + +
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Residues in contact with ARG 117 (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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115C GLY* 2.8 4.8 + - - +
116C LYS* 1.3 93.7 - - + +
118C ILE* 1.3 73.0 + - + +
120C LEU* 3.4 9.5 - - - +
121C PHE* 2.8 31.3 + - - +
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Residues in contact with ILE 118 (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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86C ALA* 3.5 22.9 - - + +
89C MET* 3.6 12.8 - - + -
90C TYR* 3.3 49.1 - - + +
93C VAL* 3.4 19.7 - - + -
115C GLY* 2.8 15.5 + - - +
117C ARG* 1.3 89.7 - - + +
119C ILE* 1.3 54.5 + - - +
121C PHE* 2.9 10.8 + - - +
122C LEU* 2.7 47.4 + - + +
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Residues in contact with ILE 119 (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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502A 2CS 3.1 47.9 - - + +
66C THR 4.0 5.8 - - - +
67C PHE* 3.8 35.4 - - + -
70C VAL* 3.7 18.2 - - + +
90C TYR* 3.5 24.9 - - + +
114C PHE 4.0 3.6 - - - +
115C GLY 3.2 24.7 - - - +
116C LYS 3.5 8.1 - - - +
118C ILE* 1.3 73.1 - - + +
120C LEU* 1.3 57.8 + - - +
122C LEU* 4.3 0.4 - - - -
123C PHE* 2.8 32.9 + - - +
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Residues in contact with LEU 120 (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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502A 2CS 3.2 39.2 - - + +
116C LYS* 2.9 23.1 + - + +
117C ARG* 3.4 9.9 - - - +
119C ILE* 1.3 79.2 - - - +
121C PHE* 1.3 62.8 + - + +
123C PHE* 3.1 3.1 + - + +
124C LEU* 2.8 59.8 + - + +
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Residues in contact with PHE 121 (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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82C PRO* 4.5 10.5 - - + -
86C ALA* 3.7 29.6 - - + -
117C ARG 2.8 13.6 + - - +
118C ILE* 2.9 9.6 + - - +
120C LEU* 1.3 78.0 - - + +
122C LEU* 1.3 58.3 + - - +
124C LEU* 2.6 39.2 + - + +
125C MET* 3.1 43.4 + - + -
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Residues in contact with LEU 122 (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 PHE* 4.5 7.4 - - + -
70C VAL* 3.0 42.8 - - + +
71C LEU* 4.1 15.9 - - + -
74C ALA* 2.8 15.6 - - - +
83C ALA 3.8 6.5 - - - +
86C ALA* 3.3 24.7 - - + -
87C GLY* 4.1 13.9 - - - +
118C ILE* 2.7 34.5 + - + +
119C ILE* 4.8 0.2 - - - -
121C PHE* 1.3 73.1 - - + +
123C PHE* 1.3 52.4 + - - +
125C MET* 3.0 32.5 + - + -
126C SER* 2.7 20.9 + - - -
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Residues in contact with PHE 123 (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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17A LEU* 3.0 45.9 - - + +
20A VAL* 3.7 14.4 - - + -
21A VAL* 4.5 11.7 - - + -
502A 2CS 3.8 21.3 - - + -
70C VAL* 3.7 10.0 - - + +
119C ILE 2.8 19.8 + - - +
120C LEU* 3.2 9.9 - - + +
122C LEU* 1.3 77.0 - - - +
124C LEU* 1.3 79.9 + - + +
126C SER* 3.1 9.6 + - - -
127C VAL* 3.0 35.9 + - + +
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Residues in contact with LEU 124 (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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120C LEU* 2.8 54.0 + - + +
121C PHE* 2.6 24.8 + - + +
123C PHE* 1.3 97.5 - - + +
125C MET* 1.3 58.0 + - - +
126C SER 3.3 0.4 - - - -
127C VAL* 3.0 14.5 - - + +
128C ALA* 2.9 26.5 + - - +
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Residues in contact with MET 125 (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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74C ALA* 3.1 32.3 - - + +
77C LEU 3.7 0.3 - - - +
78C CYS* 3.4 26.5 - - - +
82C PRO* 3.6 23.3 - - - -
83C ALA* 3.1 30.1 - - - -
121C PHE* 3.2 42.0 - - + +
122C LEU* 3.0 14.6 + - + -
124C LEU* 1.3 77.1 - - - +
126C SER* 1.3 59.1 + - - +
128C ALA* 2.9 24.0 - - - +
129C GLY 3.0 9.0 + - - -
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Residues in contact with SER 126 (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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17A LEU* 3.6 14.6 - - - +
70C VAL* 4.2 0.9 - - - +
73C SER* 2.8 49.3 + - - -
74C ALA* 3.6 0.6 - - - +
77C LEU* 4.1 5.2 - - - +
122C LEU 2.7 18.8 + - - -
123C PHE* 3.1 15.2 - - - -
125C MET* 1.3 71.3 - - - +
127C VAL* 1.3 55.2 + - - +
128C ALA 3.0 4.7 - - - -
130C ILE* 3.0 32.8 + - - +
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Residues in contact with VAL 127 (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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17A LEU* 4.7 4.9 - - + +
123C PHE* 3.0 32.7 + - + +
124C LEU* 3.0 35.9 - - + +
126C SER* 1.3 75.0 - - - +
128C ALA* 1.3 63.7 + - - +
130C ILE* 3.7 12.7 - - + +
131C PHE* 3.6 18.5 + - + +
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Residues in contact with ALA 128 (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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78C CYS* 4.8 6.7 - - + -
124C LEU 2.9 16.8 + - - +
125C MET* 2.9 15.9 - - - +
126C SER 3.0 0.8 - - - -
127C VAL* 1.3 76.2 - - - +
129C GLY* 1.3 67.6 + - - +
131C PHE* 3.0 15.3 + - - -
132C ASN* 2.9 22.7 + - - +
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Residues in contact with GLY 129 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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6A VAL* 6.3 0.4 - - - -
77C LEU* 2.9 25.3 + - - -
78C CYS* 4.2 2.8 - - - +
125C MET 3.0 6.7 + - - -
128C ALA* 1.3 79.6 - - - +
130C ILE* 1.3 55.1 + - - +
132C ASN* 3.9 11.3 - - - +
133C TYR* 2.7 37.9 + - - +
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Residues in contact with ILE 130 (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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6A VAL* 6.2 0.4 - - - -
10A VAL* 3.0 29.2 - - + +
13A ALA* 4.5 4.3 - - + -
14A ILE* 3.0 43.5 - - + +
17A LEU* 6.1 3.4 - - + -
77C LEU* 4.3 20.5 + - + +
126C SER 3.0 20.5 + - - +
127C VAL* 3.7 19.7 - - + +
129C GLY* 1.3 75.8 - - - +
131C PHE* 1.3 69.1 + - + +
133C TYR* 3.8 12.5 - - - +
134C TYR* 3.8 10.5 + - + -
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Residues in contact with PHE 131 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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127C VAL* 3.7 10.1 - - + +
128C ALA* 3.0 15.3 + - - +
130C ILE* 1.3 82.8 - - + +
132C ASN* 1.3 68.7 + - + +
133C TYR 2.7 5.4 + - - -
134C TYR* 2.5 41.7 + - + +
135C LEU* 3.2 45.2 + - + -
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Residues in contact with ASN 132 (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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128C ALA 2.9 13.2 + - - +
129C GLY* 3.9 9.8 - - - +
131C PHE* 1.3 97.2 - - + +
133C TYR* 1.3 60.4 + - - +
135C LEU* 3.3 15.5 + - - +
136C ILE* 2.8 43.2 + - - +
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Residues in contact with TYR 133 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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3A GLN* 3.0 44.2 + - - +
6A VAL* 3.5 16.8 - - + -
7A GLY* 3.1 23.3 + - - -
10A VAL* 3.2 30.7 - - + -
129C GLY 2.7 18.0 + - - +
130C ILE* 3.8 3.6 - - - +
131C PHE 2.7 0.2 + - - -
132C ASN* 1.3 76.2 + - - +
134C TYR* 1.3 102.7 + + - +
135C LEU 3.0 0.2 - - - -
136C ILE* 3.2 12.1 + - + -
137C PHE* 2.9 38.0 + + + +
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Residues in contact with TYR 134 (chain C).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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10A VAL* 3.2 24.0 - - + +
11A LEU* 5.2 3.3 - - - +
14A ILE* 3.8 12.1 - - + +
130C ILE* 3.9 9.6 - - + -
131C PHE* 2.5 21.0 + - + +
133C TYR* 1.3 113.8 - + - +
135C LEU* 1.3 61.5 + - + +
137C PHE* 3.4 13.6 - + + +
138C PHE* 3.0 42.7 + + + +
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Residues in contact with LEU 135 (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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131C PHE* 3.2 46.9 - - + +
132C ASN* 3.4 13.2 - - - +
133C TYR 3.0 0.4 - - - -
134C TYR* 1.3 83.1 - - + +
136C ILE* 1.3 55.9 + - + +
137C PHE 2.9 3.8 - - - -
138C PHE* 2.6 9.1 + - + -
139C PHE* 2.4 54.3 + - + +
140C GLY 3.0 3.1 + - - -
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Residues in contact with ILE 136 (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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3A GLN* 3.3 38.2 + - + +
132C ASN* 2.8 45.5 - - - +
133C TYR* 3.2 7.4 + - + -
135C LEU* 1.3 76.7 - - + +
137C PHE* 1.3 58.9 - - - +
140C GLY* 3.7 25.4 - - - +
141C SER* 3.9 6.1 + - - -
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Residues in contact with PHE 137 (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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3A GLN* 3.6 11.0 - - - +
133C TYR* 2.9 38.4 + + + +
134C TYR* 3.4 15.5 - + - +
135C LEU 2.9 0.4 - - - -
136C ILE* 1.3 79.7 - - - +
138C PHE* 1.3 90.9 + + - +
141C SER* 3.7 10.1 + - - -
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Residues in contact with PHE 138 (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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134C TYR* 3.0 22.7 + + + +
135C LEU* 2.6 10.5 + - + -
137C PHE* 1.3 119.6 - + - +
139C PHE* 1.3 87.5 + + + +
140C GLY 3.6 0.2 - - - -
141C SER* 3.3 13.5 + - - -
142C ASP* 3.7 10.7 - - - +
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Residues in contact with PHE 139 (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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135C LEU* 2.4 41.1 + - + +
138C PHE* 1.3 100.6 - + + +
140C GLY* 1.3 63.5 + - - +
141C SER 3.0 2.7 - - - -
142C ASP* 2.9 32.0 + - + +
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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
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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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