Contacts of the helix formed by residues 102 - 124 (chain G) in PDB entry 2OCP
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 GLU 102 (chain G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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98G MET* 2.9 13.5 + - - +
99G MET 3.7 2.2 - - - -
101G ARG* 1.3 86.0 - - + +
103G PRO* 1.3 61.0 - - - +
104G ALA 3.2 2.7 - - - -
105G ARG* 2.8 36.1 + - + +
106G TRP* 2.9 27.2 + - + -
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Residues in contact with PRO 103 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99G MET* 3.1 21.0 - - + +
100G TYR* 3.6 11.0 - - - +
101G ARG 3.5 8.7 - - - +
102G GLU* 1.3 87.8 - - - +
104G ALA* 1.3 64.1 + - + +
107G SER* 2.4 37.7 + - - +
155G LEU* 5.3 0.9 - - + -
160G SER* 3.2 22.1 - - - +
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Residues in contact with ALA 104 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102G GLU 3.2 1.0 - - - -
103G PRO* 1.3 83.0 - - + +
105G ARG* 1.3 58.5 + - - +
107G SER 4.9 0.2 - - - -
159G GLY 4.8 9.6 - - - +
160G SER* 3.5 17.3 - - - +
165G GLU* 4.6 3.5 - - - +
105H ARG* 3.1 18.7 + - - -
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Residues in contact with ARG 105 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102G GLU* 2.8 28.2 + - + +
104G ALA* 1.3 81.7 - - - +
106G TRP* 1.3 116.5 + - - +
107G SER 3.8 0.4 - - - -
108G TYR* 5.4 1.2 + - - +
109G THR* 4.3 5.7 + - - -
165G GLU* 5.1 2.2 - - - +
104H ALA 3.1 25.7 + - - -
105H ARG* 3.2 50.4 + - - +
165H GLU* 3.3 13.7 + - - -
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Residues in contact with TRP 106 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95G LEU* 4.5 7.6 - - + -
98G MET* 3.8 42.4 - - + +
99G MET* 3.9 21.8 - - - +
102G GLU* 2.9 23.0 + - + -
105G ARG* 1.3 131.9 - - + +
107G SER* 1.3 60.1 + - - +
108G TYR 3.4 2.5 - - - -
109G THR* 3.4 33.9 + - + -
110G PHE* 2.8 32.0 + - - +
162H SER* 4.2 12.1 - - - -
164H ILE* 5.5 5.4 - - + -
165H GLU* 3.8 23.1 - - + -
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Residues in contact with SER 107 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99G MET* 3.9 8.0 - - - +
103G PRO* 2.4 35.4 + - - +
104G ALA 4.9 0.2 - - - -
105G ARG 3.8 0.6 - - - -
106G TRP* 1.3 75.2 - - - +
108G TYR* 1.3 65.8 + - - +
110G PHE* 3.1 7.1 + - - +
111G GLN* 2.9 26.6 + - - +
155G LEU* 3.8 23.7 - - - +
160G SER* 3.4 23.0 - - - -
161G LEU* 3.9 7.4 - - - -
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Residues in contact with TYR 108 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105G ARG 5.4 0.6 + - - +
106G TRP 3.4 0.6 - - - -
107G SER* 1.3 76.8 - - - +
109G THR* 1.3 69.9 + - - +
111G GLN* 3.0 15.1 + - + +
112G THR* 3.0 38.3 + - + +
161G LEU* 3.2 16.0 - - + +
165G GLU* 3.3 57.5 + - + +
168G ILE* 3.0 16.9 - - + +
169G TYR* 3.9 22.2 - + + -
172G TRP* 4.3 5.0 - - - -
108H TYR* 4.1 12.8 - + - -
109H THR* 3.7 26.5 - - + -
112H THR* 2.6 32.3 + - - -
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Residues in contact with THR 109 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95G LEU* 4.4 7.9 - - + -
105G ARG* 4.3 6.5 + - - -
106G TRP* 3.4 42.9 + - + +
107G SER 3.3 0.4 - - - -
108G TYR* 1.3 79.7 - - - +
110G PHE* 1.3 62.8 + - - +
112G THR* 2.8 24.2 + - - -
113G PHE* 3.2 7.4 + - - +
108H TYR* 3.7 26.8 - - + -
164H ILE* 4.7 3.4 - - + -
165H GLU* 4.5 3.5 + - + -
168H ILE* 3.5 26.0 - - + -
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Residues in contact with PHE 110 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75G TRP* 4.1 37.9 - + + -
95G LEU* 3.8 36.5 - - + +
96G LEU* 3.7 31.9 - - + -
99G MET* 4.0 15.5 - - + -
106G TRP 2.8 21.4 + - - +
107G SER* 3.4 5.2 - - - +
109G THR* 1.3 73.3 - - - +
111G GLN* 1.3 67.3 + - - +
113G PHE* 2.9 14.1 + + - +
114G SER* 2.9 22.0 + - - -
301G DTP 3.4 51.8 - + - -
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Residues in contact with GLN 111 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107G SER 2.9 10.3 + - - +
108G TYR* 3.5 11.2 - - - +
110G PHE* 1.3 77.2 - - - +
112G THR* 1.3 58.3 + - - +
114G SER* 3.1 9.0 + - - -
115G PHE* 2.8 34.2 + - - +
147G ASP* 3.4 9.4 - - - +
151G PHE* 3.8 0.2 - - - +
152G ALA* 3.7 31.9 - - + -
155G LEU* 3.1 25.6 - - + +
161G LEU* 5.1 4.7 - - + -
169G TYR* 3.7 19.7 - - + -
301G DTP 2.8 49.1 + - - -
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Residues in contact with THR 112 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108G TYR* 3.0 52.8 + - + +
109G THR 2.8 13.3 + - - -
111G GLN* 1.3 76.6 - - + +
113G PHE* 1.3 59.9 + - - +
115G PHE* 4.6 4.3 - - - -
116G LEU* 3.3 13.5 + - - +
169G TYR* 5.2 5.2 - - + -
172G TRP* 6.3 1.3 - - + -
108H TYR* 2.6 28.0 + - + +
112H THR* 5.2 1.8 - - + -
168H ILE* 3.7 2.4 - - - +
172H TRP* 3.0 31.5 + - - +
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Residues in contact with PHE 113 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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71G PRO* 5.8 0.2 - - + -
74G THR* 3.9 25.1 - - + -
75G TRP* 3.1 39.0 - + - -
78G ILE* 4.5 11.4 - - + -
95G LEU* 3.9 25.8 - - + -
109G THR 3.2 3.1 + - - +
110G PHE* 2.9 9.4 + + - +
112G THR* 1.3 82.4 + - - +
114G SER* 1.3 63.3 + - - +
116G LEU* 3.9 8.3 - - + +
117G SER* 3.2 26.2 + - - -
167H HIS* 4.6 17.5 - + - -
168H ILE* 3.6 31.0 - - + -
171H ASP* 5.0 11.7 - - - -
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Residues in contact with SER 114 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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75G TRP* 4.3 17.7 - - - +
110G PHE* 2.9 27.6 + - - -
111G GLN* 3.1 19.6 + - - -
113G PHE* 1.3 75.7 - - - +
115G PHE* 1.3 60.4 + - - +
117G SER* 3.3 5.6 + - - -
118G ARG* 2.9 44.8 + - - +
147G ASP* 2.5 24.5 + - - -
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Residues in contact with PHE 115 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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111G GLN 2.8 19.7 + - - +
112G THR* 4.2 2.9 - - - +
114G SER* 1.3 78.0 + - - +
116G LEU* 1.3 61.6 + - - +
118G ARG* 3.3 1.9 + - - -
119G LEU* 2.9 32.6 + - + +
144G VAL* 3.7 29.6 - - + -
147G ASP* 3.5 18.6 - - + +
169G TYR* 4.3 9.9 - + + -
172G TRP* 4.6 4.7 - - + -
173G HIS* 3.3 55.6 - + - -
176G LEU* 4.2 11.0 - - + -
177G LEU* 4.2 14.8 - - + -
172H TRP* 3.6 32.3 - + - -
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Residues in contact with LEU 116 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112G THR 3.3 17.3 + - - +
113G PHE* 3.9 11.7 - - + +
115G PHE* 1.3 78.9 - - - +
117G SER* 1.3 59.1 + - - +
119G LEU* 3.2 5.3 + - + +
120G LYS* 2.8 37.7 + - + +
168H ILE* 5.5 0.2 - - + -
171H ASP* 3.2 40.8 - - + +
172H TRP* 3.5 46.8 - - + +
175H PHE* 3.6 34.8 - - + -
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Residues in contact with SER 117 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70G GLU* 5.2 0.2 + - - -
71G PRO* 3.0 36.1 - - - +
75G TRP* 4.7 5.3 - - - -
113G PHE* 3.2 23.0 + - - -
114G SER* 3.5 7.0 - - - -
115G PHE 3.2 0.2 - - - -
116G LEU* 1.3 82.5 - - - +
118G ARG* 1.3 63.2 + - - +
120G LYS* 3.2 11.4 + - - +
121G VAL* 3.2 22.7 + - - +
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Residues in contact with ARG 118 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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70G GLU* 3.0 39.0 + - - +
71G PRO* 6.4 0.2 - - - -
75G TRP* 3.9 10.9 - - + -
114G SER* 2.9 25.2 + - - +
115G PHE* 3.8 3.6 - - - +
117G SER* 1.3 73.9 - - - +
119G LEU* 1.3 59.8 + - - +
121G VAL* 3.0 27.4 - - + +
122G GLN* 3.2 14.3 + - - +
142G ARG* 3.8 21.4 - - - +
143G SER* 3.4 24.0 + - - +
144G VAL* 3.9 17.7 - - + +
147G ASP* 2.8 39.6 + - - +
151G PHE* 4.8 0.6 - - - -
301G DTP 2.8 47.2 + - - -
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Residues in contact with LEU 119 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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115G PHE* 2.9 24.6 + - + +
116G LEU* 3.6 5.2 - - + +
118G ARG* 1.3 74.3 - - - +
120G LYS* 1.3 67.4 + - - +
122G GLN* 3.2 2.8 + - - -
123G LEU* 3.1 39.7 + - + +
144G VAL* 3.6 15.9 - - + +
176G LEU* 4.0 24.2 - - + -
177G LEU* 4.2 10.1 - - + -
180G PHE* 4.0 28.3 - - + -
184G ILE* 3.9 26.2 - - + -
172H TRP* 5.1 3.4 - - + -
175H PHE* 4.2 12.6 - - + -
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Residues in contact with LYS 120 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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116G LEU* 2.8 26.8 + - + +
117G SER* 3.5 8.5 - - - +
119G LEU* 1.3 76.0 - - - +
121G VAL* 1.3 63.8 + - - +
123G LEU* 2.9 14.4 + - - +
124G GLU* 3.1 20.9 + - + +
171H ASP* 2.7 34.6 + - - -
175H PHE* 3.7 52.2 - - + -
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Residues in contact with VAL 121 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68G ALA* 3.6 28.5 - - + -
69G THR* 4.8 12.6 - - + +
70G GLU* 6.1 0.9 - - - +
71G PRO* 6.4 3.4 - - + -
117G SER 3.2 6.5 + - - +
118G ARG* 3.0 24.7 - - + +
120G LYS* 1.3 79.2 - - - +
122G GLN* 1.3 67.2 + - - +
123G LEU 3.4 0.5 + - - -
124G GLU* 3.5 34.7 + - - +
138G GLN* 5.6 1.4 + - - -
140G PHE* 3.6 22.2 - - + -
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Residues in contact with GLN 122 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40G ARG* 2.9 35.9 + - - +
118G ARG* 3.5 15.1 - - - +
119G LEU* 3.2 6.1 + - - +
120G LYS 3.2 0.8 - - - -
121G VAL* 1.3 81.3 - - - +
123G LEU* 1.3 60.7 + - - +
124G GLU 4.3 2.4 - - - +
140G PHE* 3.8 25.1 - - + -
142G ARG 4.9 0.2 - - - +
143G SER* 4.1 6.4 - - - -
144G VAL* 3.4 34.5 + - - +
145G TYR* 4.5 3.2 - - - -
183G ARG 3.3 9.0 - - - +
184G ILE* 3.2 35.3 + - + +
186G LEU* 3.8 24.9 - - + +
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Residues in contact with LEU 123 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119G LEU* 3.1 17.2 + - + +
120G LYS* 2.9 8.3 + - - +
122G GLN* 1.3 77.4 - - - +
124G GLU* 1.3 68.8 + - - +
125G PRO* 3.7 4.0 - - - +
180G PHE* 3.9 39.7 - - + -
183G ARG* 3.7 48.4 + - + +
184G ILE* 3.6 27.8 - - + -
175H PHE* 3.7 29.4 - - + -
179H GLU* 4.3 8.1 - - - +
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Residues in contact with GLU 124 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40G ARG* 5.5 1.0 + - - -
120G LYS* 3.1 15.5 + - + +
121G VAL* 3.5 38.5 + - - +
122G GLN 4.3 4.3 - - - +
123G LEU* 1.3 82.0 - - - +
125G PRO* 1.3 76.6 - - + +
126G PHE* 4.0 5.7 + - - -
138G GLN* 5.4 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
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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