Contacts of the helix formed by residues 105 - 132 (chain C) in PDB entry 2R6C
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 TYR 105 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C ALA* 4.4 5.4 - - - +
19C ALA* 3.7 22.4 - - + -
20C VAL* 3.9 15.0 - - + -
23C ALA* 6.1 1.1 - - + -
96C VAL* 6.0 1.6 - - + -
98C THR 5.4 2.2 - - - -
101C ASN* 3.1 41.3 - - + -
102C VAL* 3.1 18.8 - - - +
104C TYR* 1.3 78.2 + + - -
106C ALA* 1.3 71.2 + - - +
108C ILE* 2.9 17.2 + - + +
109C VAL* 2.9 24.0 + - - +
66D ASP* 2.4 30.3 + - - -
68D VAL* 2.9 46.8 + - + +
69D THR* 3.6 9.0 - - - -
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Residues in contact with ALA 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20C VAL* 3.7 2.6 - - + +
34C ALA* 4.6 9.4 - - - -
37C ILE* 3.8 25.1 - - + -
38C LEU* 3.4 27.1 - - + +
102C VAL 2.5 23.6 + - - +
103C GLU* 3.6 8.1 - - - -
104C TYR* 3.1 5.9 - - - +
105C TYR* 1.3 75.1 - - - +
107C ARG* 1.3 57.9 + - - +
109C VAL 3.0 0.7 + - - -
110C GLU* 2.8 24.8 + - - +
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Residues in contact with ARG 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C ILE* 3.9 14.5 - - + +
103C GLU* 3.1 41.8 + - - +
104C TYR* 2.9 22.7 - - - +
106C ALA* 1.3 76.2 - - - +
108C ILE* 1.3 57.6 + - + +
110C GLU* 3.7 19.2 - - - +
111C GLU* 2.9 39.4 + - + +
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Residues in contact with ILE 108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C ALA* 3.5 19.7 - - + -
104C TYR* 3.5 14.3 + - + +
105C TYR* 2.9 37.9 + - + +
107C ARG* 1.3 73.1 - - - +
109C VAL* 1.3 66.5 + - - +
111C GLU* 3.1 13.3 + - - +
112C LYS* 3.0 42.6 + - + +
63D GLU* 4.9 6.3 - - - +
69D THR* 4.7 5.8 - - - +
72D ALA* 3.8 29.4 - - + -
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Residues in contact with VAL 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16C ALA* 4.0 8.1 - - + +
17C GLU* 3.8 50.3 - - + +
20C VAL* 4.4 6.3 - - + -
38C LEU* 3.8 12.3 - - + -
42C ASP 3.4 25.1 - - - +
43C PHE* 4.2 7.4 - - + -
105C TYR 2.9 14.3 + - - +
106C ALA 3.5 4.9 - - - +
108C ILE* 1.3 75.6 - - - +
110C GLU* 1.3 56.9 + - - +
112C LYS* 3.4 6.1 + - - +
113C SER* 2.8 27.9 + - - -
116C ARG* 5.1 0.3 + - - -
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Residues in contact with GLU 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C ILE* 3.5 34.8 - - + +
38C LEU* 3.6 11.8 - - + +
42C ASP* 4.7 7.0 - - - +
106C ALA 2.8 19.5 + - - +
107C ARG* 3.7 14.4 - - - +
109C VAL* 1.3 72.0 - - - +
111C GLU* 1.3 60.8 + - - +
113C SER* 3.2 9.0 - - - -
114C VAL* 3.0 48.1 + - + +
117C ARG* 6.1 1.3 - - - +
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Residues in contact with GLU 111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107C ARG* 2.9 26.1 + - + +
108C ILE* 3.1 11.2 + - - +
110C GLU* 1.3 76.2 - - + +
112C LYS* 1.3 66.8 + - + +
113C SER 3.0 1.1 - - - -
114C VAL* 2.8 26.3 + - - +
115C LEU* 2.9 13.9 + - - +
133F GLU 4.3 5.9 - - - +
134F ASP 5.4 0.7 + - - -
136F ILE* 3.5 42.1 - - + +
137F ASP* 5.1 4.7 - - - +
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Residues in contact with LYS 112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108C ILE* 3.0 33.4 + - + +
109C VAL* 4.1 5.4 - - - +
111C GLU* 1.3 80.0 - - - +
113C SER* 1.3 59.7 + - - +
115C LEU* 3.9 10.8 - - + +
116C ARG* 3.1 39.1 + - - +
72D ALA* 4.5 6.5 + - - -
75D ALA* 5.5 2.8 - - - +
76D ALA* 4.1 17.0 - - - +
133F GLU* 2.7 56.1 + - + +
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Residues in contact with SER 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C GLU 4.5 1.6 + - - -
42C ASP* 2.8 43.8 + - - -
109C VAL 2.8 14.5 + - - -
110C GLU 3.2 10.5 - - - -
112C LYS* 1.3 74.9 - - - +
114C VAL* 1.3 65.2 - - - +
116C ARG* 3.4 19.2 + - - +
117C ARG* 3.2 32.9 + - - +
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Residues in contact with VAL 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110C GLU* 3.0 32.6 + - + +
111C GLU* 2.8 12.4 + - - +
113C SER* 1.3 69.3 - - - +
115C LEU* 1.3 67.9 + - + +
117C ARG* 3.1 36.1 + - + +
118C LEU* 2.9 21.2 + - + +
136F ILE* 4.0 13.0 - - + -
140F LEU* 3.6 36.1 - - + -
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Residues in contact with LEU 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C GLU 2.9 9.1 + - - +
112C LYS* 3.9 13.5 - - + +
114C VAL* 1.3 78.4 - - + +
116C ARG* 1.3 63.6 + - - +
118C LEU* 3.1 14.4 + - + +
119C ILE* 2.9 29.9 + - + +
129F GLY* 3.7 16.6 - - - +
133F GLU* 3.5 36.3 - - + -
136F ILE* 3.7 43.7 - - + +
139F LEU* 3.9 22.4 - - + -
140F LEU* 6.0 0.7 - - + -
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Residues in contact with ARG 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17C GLU* 5.2 0.8 + - - -
41C GLU 3.9 5.9 + - - -
42C ASP 3.0 31.9 + - - -
43C PHE 3.8 10.5 + - - -
44C TYR* 3.9 41.7 - - - +
109C VAL* 5.1 0.4 + - - +
112C LYS* 3.1 35.5 + - - +
113C SER* 3.6 15.9 + - - +
114C VAL 3.3 0.2 - - - -
115C LEU* 1.3 76.2 - - - +
117C ARG* 1.3 50.9 + - + +
119C ILE* 3.2 11.2 + - - +
120C ARG* 2.8 36.3 + - - +
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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
----------------------------------------------------------
42C ASP* 4.9 6.3 + - - -
110C GLU* 6.1 1.0 - - - +
113C SER* 3.2 21.9 + - - +
114C VAL* 3.1 39.3 + - + +
116C ARG* 1.3 75.0 - - + +
118C LEU* 1.3 66.6 + - - +
120C ARG* 3.2 9.2 + - - +
121C THR* 2.9 34.3 + - + +
149C GLU 4.4 21.4 + - - -
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Residues in contact with LEU 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114C VAL* 2.9 13.5 + - + +
115C LEU* 3.3 18.8 - - + +
117C ARG* 1.3 77.9 - - - +
119C ILE* 1.3 59.6 + - + +
121C THR* 3.1 5.9 + - - +
122C ALA* 2.8 31.2 + - - +
147C ILE* 4.1 26.9 - - + +
125F ILE* 3.7 19.7 - - + +
129F GLY* 5.4 3.8 - - - -
139F LEU* 3.7 38.6 - - + +
140F LEU* 4.1 26.9 - - + +
143F ALA* 4.2 8.7 - - + -
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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
----------------------------------------------------------
115C LEU* 2.9 18.4 + - + +
116C ARG* 3.5 9.6 - - - +
118C LEU* 1.3 77.6 - - + +
120C ARG* 1.3 53.8 + - - +
122C ALA* 3.7 4.8 - - - +
123C THR* 2.7 51.7 + - - +
125F ILE 5.1 0.2 - - - +
126F ALA* 4.1 22.0 - - + +
129F GLY* 3.9 23.8 - - - +
130F TYR* 3.4 47.8 - - + +
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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
----------------------------------------------------------
116C ARG 2.8 19.2 + - - +
117C ARG* 3.6 10.3 - - - +
118C LEU 3.2 0.2 - - - -
119C ILE* 1.3 75.5 - - - +
121C THR* 1.3 59.8 + - + +
123C THR* 3.8 4.5 - - - -
124C SER* 2.9 31.0 + - - -
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Residues in contact with THR 121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117C ARG* 2.9 26.2 + - + +
118C LEU* 3.2 13.3 + - - +
120C ARG* 1.3 75.6 - - + +
122C ALA* 1.3 59.2 + - - +
124C SER* 4.0 7.8 - - - -
125C ILE* 3.1 30.4 + - - +
146C LYS* 4.1 37.1 + - + +
147C ILE* 4.4 10.7 - - - +
149C GLU 6.3 2.0 - - - -
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Residues in contact with ALA 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C LEU 2.8 17.3 + - - +
119C ILE* 3.7 5.2 - - - +
121C THR* 1.3 76.7 + - - +
123C THR* 1.3 64.5 + - - +
125C ILE* 3.0 21.2 + - - +
126C ALA* 3.2 10.4 + - - +
147C ILE* 5.1 7.2 - - + -
122F ALA* 4.1 27.1 - - - +
125F ILE* 4.2 20.0 - - + -
126F ALA* 4.6 5.4 - - + +
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Residues in contact with THR 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C ILE* 2.7 40.6 + - - +
120C ARG* 3.8 4.9 - - - -
122C ALA* 1.3 72.5 - - - +
124C SER* 1.3 57.2 + - - +
126C ALA* 3.1 9.0 + - + +
127C GLN* 2.8 33.4 + - + +
126F ALA* 4.3 11.8 - - - +
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Residues in contact with SER 124 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120C ARG* 2.9 20.1 + - - -
121C THR* 4.1 8.3 - - - -
122C ALA 3.3 0.2 - - - -
123C THR* 1.3 74.9 - - - +
125C ILE* 1.3 57.2 + - - +
127C GLN* 4.2 8.5 - - - +
128C ASP* 2.8 45.7 + - - +
146C LYS* 4.6 16.6 - - - -
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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
----------------------------------------------------------
121C THR 3.1 18.4 + - - +
122C ALA* 3.0 11.9 + - - +
124C SER* 1.3 76.9 - - - +
126C ALA* 1.3 61.6 + - - +
128C ASP* 3.2 7.3 + - - +
129C GLY* 2.8 25.6 + - - -
139C LEU* 4.5 4.8 - - + +
143C ALA* 3.8 38.8 - - + +
146C LYS* 4.9 13.7 - - + +
147C ILE* 4.0 16.4 - - + -
118F LEU* 4.1 27.5 - - + +
122F ALA* 4.0 16.8 - - + -
147F ILE* 4.6 6.5 - - + -
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Residues in contact with ALA 126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122C ALA 3.2 7.3 + - - +
123C THR* 3.1 10.8 + - + +
125C ILE* 1.3 76.8 - - - +
127C GLN* 1.3 59.4 + - - +
129C GLY* 2.6 25.7 + - - +
130C TYR* 3.3 18.3 - - + -
119F ILE* 4.6 17.2 - - + +
122F ALA* 4.5 8.3 - - + +
123F THR* 4.4 17.5 - - - +
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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
----------------------------------------------------------
123C THR* 2.8 25.4 + - + +
124C SER* 4.1 8.3 - - - +
126C ALA* 1.3 72.5 - - - +
128C ASP* 1.3 67.6 + - - +
129C GLY 3.4 0.3 + - - -
130C TYR* 3.7 15.9 + - - +
131C THR* 3.9 25.4 - - - +
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Residues in contact with ASP 128 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124C SER* 2.8 37.7 + - - +
125C ILE* 3.4 9.0 - - - +
126C ALA 3.1 0.2 - - - -
127C GLN* 1.3 78.9 - - - +
129C GLY* 1.3 62.4 + - - +
130C TYR 3.2 2.3 + - - -
131C THR* 3.9 11.3 + - - -
132C ARG* 3.1 51.8 + - - +
139C LEU* 3.6 21.2 - - + +
142C GLU* 4.8 0.5 - - - -
146C LYS* 4.3 12.4 + - - +
----------------------------------------------------------
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Residues in contact with GLY 129 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
125C ILE 2.8 8.9 + - - -
126C ALA 2.6 21.2 + - - -
128C ASP* 1.3 71.9 - - - +
130C TYR* 1.3 61.9 + - - +
133C GLU* 4.2 11.3 - - - +
139C LEU* 4.4 11.9 - - - +
115F LEU* 4.1 21.2 - - - +
118F LEU* 5.3 2.5 - - - -
119F ILE* 4.5 16.8 - - - +
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Residues in contact with TYR 130 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126C ALA* 3.3 26.2 - - + -
127C GLN* 3.7 9.4 + - - +
128C ASP 3.2 0.2 - - - -
129C GLY* 1.3 80.2 - - - +
131C THR* 1.3 67.4 + - + +
132C ARG 3.3 9.2 - - - +
133C GLU* 4.2 13.9 - - - +
119F ILE* 3.5 35.0 - - + +
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Residues in contact with THR 131 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127C GLN* 3.9 28.2 - - - +
128C ASP* 3.8 18.7 + - - -
130C TYR* 1.3 75.3 - - + +
132C ARG* 1.3 72.1 + - - +
134C ASP* 4.1 6.6 - - - +
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Residues in contact with ARG 132 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128C ASP* 3.1 33.9 + - - +
130C TYR 3.3 4.0 - - - +
131C THR* 1.3 88.5 + - - +
133C GLU* 1.3 77.3 + - - +
134C ASP* 3.2 14.1 - - - +
135C GLU* 2.6 49.6 + - - +
138C VAL* 5.2 0.6 - - - +
139C LEU* 3.4 34.7 - - + +
142C GLU* 3.2 31.3 + - - -
146C LYS* 5.0 0.2 - - - +
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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