Contacts of the helix formed by residues 111 - 137 (chain C) in PDB entry 5A31
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 SER 111 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79C GLU* 4.2 26.0 + - - +
80C ASP* 3.8 15.4 + - - -
83C ASP* 3.1 26.6 + - - -
87C TYR* 6.1 0.9 - - - -
109C CYS 3.7 0.4 - - - -
110C ASN* 1.3 80.4 - - - +
112C LYS* 1.3 62.8 + - - +
113C LYS* 3.4 16.1 + - - +
114C ALA* 4.0 9.8 + - - +
115C TYR* 2.8 29.9 + - - +
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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
----------------------------------------------------------
46C ARG* 6.2 0.2 - - - +
79C GLU* 4.7 15.1 + - - +
110C ASN 3.6 3.4 + - - -
111C SER* 1.3 73.4 + - - +
113C LYS* 1.3 66.5 + - + +
115C TYR* 3.4 7.4 + - - +
116C PHE* 3.1 22.9 + - - +
166C GLU* 3.9 20.7 + - - +
167C LEU* 6.4 0.2 - - - -
168C ASP* 4.6 25.4 - - + +
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Residues in contact with LYS 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C LEU* 5.7 2.2 - - - -
45C GLU* 4.2 15.3 + - - +
46C ARG* 3.5 47.0 - - - +
74C PRO* 5.6 8.1 - - - +
80C ASP* 3.6 33.9 + - - +
87C TYR* 3.7 23.6 - - + -
111C SER* 3.3 6.0 - - - +
112C LYS* 1.3 78.3 - - + +
114C ALA* 1.3 64.5 + - - +
116C PHE* 3.4 4.3 + - - +
117C LEU* 3.1 22.3 + - - +
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Residues in contact with ALA 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C ASP* 3.8 11.0 - - + +
87C TYR* 4.1 16.9 - - + -
106C LEU* 3.9 16.8 - - + +
109C CYS* 3.7 29.6 - - + -
111C SER* 3.3 11.9 + - - +
113C LYS* 1.3 77.4 - - - +
115C TYR* 1.3 59.5 + - - +
117C LEU* 3.2 3.3 + - - +
118C TYR* 2.8 30.9 + - - +
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Residues in contact with TYR 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109C CYS 5.0 12.0 + - - +
110C ASN* 5.3 2.7 - - - +
111C SER 2.8 18.3 + - - +
112C LYS* 3.6 7.6 - - - +
113C LYS 3.3 0.2 - - - -
114C ALA* 1.3 76.5 - - - +
116C PHE* 1.3 67.3 + - - +
118C TYR* 3.3 29.5 + + - +
119C MET* 3.0 46.4 + - + +
157C GLU* 4.7 2.1 - - - +
158C LEU* 4.4 13.8 - - + +
161C LEU* 2.7 46.0 - - + +
167C LEU* 4.5 12.8 - - + -
171C GLY* 6.4 0.2 - - - -
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Residues in contact with PHE 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C ARG* 3.6 33.9 - - + +
48C LEU* 3.6 40.8 - - + -
112C LYS 3.1 11.4 + - - +
113C LYS* 3.6 7.0 - - - +
115C TYR* 1.3 84.2 - - + +
117C LEU* 1.3 61.5 + - - +
119C MET* 3.1 3.8 + - + +
120C TYR* 2.8 48.7 + + + -
170C PHE* 3.7 27.4 - - + -
171C GLY* 3.8 15.5 - - - +
173C TYR* 5.0 2.5 - + - -
174C LEU* 3.6 28.0 - - + -
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Residues in contact with LEU 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45C GLU 4.7 4.9 - - - +
46C ARG* 4.1 17.7 - - - +
87C TYR* 4.8 14.6 - - + +
91C LYS* 3.9 37.9 - - + +
94C PHE* 3.5 34.3 - - + -
102C ALA* 4.9 2.5 - - + -
106C LEU* 3.6 21.5 - - + -
113C LYS 3.1 11.6 + - - +
114C ALA* 3.2 7.2 + - - +
116C PHE* 1.3 85.0 - - + +
118C TYR* 1.3 58.4 + - - +
120C TYR* 4.4 2.7 - - - -
121C SER* 2.8 29.9 + - - -
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Residues in contact with TYR 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C ALA* 3.4 31.2 - - + -
106C LEU* 3.6 25.8 - - + +
107C HIS* 3.4 36.9 + + - -
114C ALA 2.8 14.2 + - - +
115C TYR* 3.4 26.7 - + - +
117C LEU* 1.3 74.8 - - - +
119C MET* 1.3 70.2 + - + +
121C SER* 2.7 21.0 + - - -
122C ARG* 2.9 53.9 + - - +
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Residues in contact with MET 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C TYR* 3.0 34.4 + - + +
116C PHE* 3.6 8.5 - - + +
118C TYR* 1.3 90.4 - - + +
120C TYR* 1.3 59.3 + - - +
122C ARG* 3.1 38.0 + - - +
123C TYR* 2.9 27.4 + - - +
154C LEU* 4.2 12.7 - - + +
157C GLU* 3.5 30.7 - - + -
158C LEU* 3.8 28.0 - - + -
174C LEU* 4.0 15.7 - - + -
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Residues in contact with TYR 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A GLU* 5.7 4.0 + - - +
46C ARG 4.3 3.6 - - - -
47C GLY 3.8 15.4 + - - -
48C LEU* 3.6 28.6 - - + +
49C LEU 5.5 0.5 + - - -
94C PHE* 3.8 14.4 - + - -
116C PHE* 2.8 41.7 + + + +
117C LEU* 4.0 2.7 - - - +
119C MET* 1.3 73.7 - - - +
121C SER* 1.3 55.4 + - - +
123C TYR* 3.2 22.0 + + - +
124C LEU* 2.9 63.0 + - + +
173C TYR* 5.4 8.5 - + - -
174C LEU* 3.7 23.3 - - + +
177C VAL* 6.3 0.2 - - + -
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Residues in contact with SER 121 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C PHE* 4.1 17.9 - - - -
99C TYR* 3.6 24.7 - - - +
102C ALA* 4.6 0.4 - - - -
103C ALA* 3.3 20.6 - - - +
117C LEU* 2.8 32.1 + - - +
118C TYR* 2.7 21.1 + - - -
120C TYR* 1.3 72.7 - - - +
122C ARG* 1.3 56.9 + - - +
124C LEU* 3.2 1.5 + - - +
125C SER* 2.9 31.0 + - - -
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Residues in contact with ARG 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
103C ALA* 4.8 8.7 - - + -
118C TYR* 2.9 43.0 + - - +
119C MET* 3.1 45.5 + - - +
121C SER* 1.3 82.7 + - - +
123C TYR* 1.3 60.4 + - - +
125C SER* 2.8 23.2 + - - +
126C GLY 3.3 4.7 + - - -
150C ALA* 3.7 10.2 - - + +
153C GLU* 4.1 27.5 + - - +
154C LEU* 3.8 17.8 - - + +
157C GLU* 3.9 21.6 + - - +
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Residues in contact with TYR 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C MET 2.9 12.4 + - - +
120C TYR* 3.3 28.5 - + - +
122C ARG* 1.3 79.1 - - - +
124C LEU* 1.3 79.5 + - + +
126C GLY* 3.2 3.5 + - - -
127C GLU* 2.8 27.7 + - - +
148C ASN* 3.5 23.1 + - - -
150C ALA* 4.5 1.8 - - - -
151C LEU* 3.7 20.4 - - + -
154C LEU* 3.6 13.9 - - + +
174C LEU* 4.3 7.0 - - + -
177C VAL* 3.6 24.2 - - + +
178C VAL* 4.0 8.1 - - + -
181C LYS* 2.5 40.9 + - + +
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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
----------------------------------------------------------
94C PHE* 3.8 5.6 - - + -
99C TYR* 3.8 45.8 - - + +
120C TYR* 2.9 62.7 + - + +
121C SER 3.2 0.4 + - - +
123C TYR* 1.3 90.4 - - + +
125C SER* 1.3 57.4 + - - +
127C GLU* 2.8 10.8 + - + +
128C LYS* 2.6 35.3 + - - +
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Residues in contact with SER 125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99C TYR* 4.0 12.5 - - - +
100C ASP* 3.4 36.3 + - - +
121C SER 2.9 14.2 + - - -
122C ARG* 2.8 25.2 + - - +
124C LEU* 1.3 75.1 - - - +
126C GLY* 1.3 60.8 + - - +
128C LYS* 4.0 4.2 - - - +
129C LYS* 3.2 35.1 + - - +
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Residues in contact with GLY 126 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122C ARG 3.3 2.0 + - - -
123C TYR 3.2 6.7 + - - -
124C LEU 3.1 0.6 - - - -
125C SER* 1.3 84.8 + - - +
127C GLU* 1.3 55.2 + - - +
129C LYS* 3.5 10.9 + - - +
130C LYS* 2.9 22.3 + - - +
148C ASN* 2.5 34.1 - - - +
150C ALA* 4.0 12.1 - - - -
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Residues in contact with GLU 127 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A SER* 4.7 7.0 + - - +
123C TYR* 2.8 23.4 + - + +
124C LEU* 2.8 20.8 + - + +
126C GLY* 1.3 75.2 - - - +
128C LYS* 1.3 64.6 + - - +
130C LYS* 3.2 34.7 + - - +
131C ASP* 2.9 41.0 + - - +
148C ASN* 2.7 21.5 + - - +
181C LYS* 2.6 37.6 + - - +
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Residues in contact with LYS 128 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C LYS* 4.1 25.0 + - - +
98C GLU* 5.2 1.4 - - - +
99C TYR* 3.9 30.1 - - + -
100C ASP* 6.0 2.5 - - - +
124C LEU 2.6 18.7 + - - +
125C SER* 4.0 5.4 - - - +
127C GLU* 1.3 70.3 - - - +
129C LYS* 1.3 58.3 + - + +
131C ASP* 3.2 7.3 + - + +
132C ASP* 2.9 52.3 + - - +
326P ILE 5.3 2.5 - - - -
327P ASP* 3.2 32.3 + - - +
329P TYR 5.3 6.4 + - - +
330P ARG* 5.7 2.2 - - - +
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Residues in contact with LYS 129 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100C ASP* 4.0 18.9 + - - +
125C SER* 3.2 25.2 + - - +
126C GLY* 3.7 8.9 - - - +
127C GLU 3.2 0.4 - - - -
128C LYS* 1.3 78.2 - - + +
130C LYS* 1.3 60.2 + - - +
132C ASP* 3.3 7.5 + - - +
133C GLU* 2.9 31.7 + - - +
148C ASN 5.7 0.2 - - - +
149C GLU* 4.1 22.4 - - - +
153O LYS* 6.2 2.0 - - - +
325P GLU* 3.9 32.6 + - + +
326P ILE 5.1 5.4 - - - +
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Residues in contact with LYS 130 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A GLN* 3.4 35.9 + - + +
44A PRO* 5.0 11.7 + - - -
46A SER* 5.9 0.8 + - - -
126C GLY 2.9 17.8 + - - +
127C GLU* 3.2 35.6 + - - +
129C LYS* 1.3 75.5 - - - +
131C ASP* 1.3 72.3 + - - +
133C GLU* 3.2 11.6 + - - +
134C THR* 2.8 43.3 + - - +
146C VAL* 4.1 9.9 - - + +
147C LYS* 3.9 32.8 - - - +
148C ASN* 4.2 3.8 - - + +
181C LYS* 6.3 0.4 - - - -
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Residues in contact with ASP 131 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A GLN* 5.0 1.2 - - - +
127C GLU* 2.9 35.5 + - - +
128C LYS* 3.7 6.6 - - + +
130C LYS* 1.3 93.1 + - - +
132C ASP* 1.3 63.9 - - - +
134C THR* 3.7 8.0 + - - -
135C VAL* 3.3 26.0 + - - +
10M ARG* 4.3 34.4 + - + +
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Residues in contact with ASP 132 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128C LYS* 2.9 43.0 + - - +
129C LYS* 3.9 6.6 + - - +
131C ASP* 1.3 76.4 - - - +
133C GLU* 1.3 63.6 + - - +
135C VAL* 3.5 13.1 + - - +
136C ASP 3.7 5.9 + - - -
8M ASP* 5.0 1.7 - - - +
10M ARG* 4.3 12.0 + - - +
327P ASP* 5.9 0.2 - - - -
328P LYS* 3.1 32.3 + - - +
329P TYR* 3.1 44.3 + - + -
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Residues in contact with GLU 133 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129C LYS 2.9 17.3 + - - +
130C LYS* 3.5 6.0 - - - +
132C ASP* 1.3 72.9 - - - +
134C THR* 1.3 65.1 + - - +
135C VAL 3.1 2.6 + - - -
136C ASP* 2.8 26.7 - - - +
137C SER* 3.0 15.6 + - - -
146C VAL* 3.6 34.0 - - + +
147C LYS 4.5 9.7 + - - +
149C GLU* 4.5 11.4 - - - +
153O LYS* 5.6 13.5 - - + +
328P LYS* 3.7 6.2 - - - +
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Residues in contact with THR 134 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A GLN* 3.2 30.3 + - - +
130C LYS 2.8 29.4 + - - -
131C ASP* 3.7 11.2 + - - -
133C GLU* 1.3 73.5 - - - +
135C VAL* 1.3 66.5 + - + +
136C ASP 3.5 0.2 + - - -
137C SER* 3.6 1.9 + - - -
141C LEU 5.3 1.1 - - - +
142C GLU 4.6 0.9 - - - +
143C LYS* 3.1 54.2 + - + +
146C VAL* 3.7 12.6 - - - +
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Residues in contact with VAL 135 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131C ASP 3.3 17.5 - - - +
132C ASP 3.8 8.1 - - - +
133C GLU 3.1 1.0 - - - -
134C THR* 1.3 85.6 - - + +
136C ASP* 1.3 58.4 + - - +
143C LYS* 4.2 5.9 + - - +
10M ARG* 3.8 27.6 - - + +
13M ASP* 3.7 37.4 - - + +
14M LEU* 4.1 25.1 - - + +
329P TYR* 4.3 4.3 - - - +
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Residues in contact with ASP 136 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132C ASP 3.7 2.5 + - - +
133C GLU* 2.8 33.1 + - - +
135C VAL* 1.3 79.8 - - - +
137C SER* 1.3 61.2 + - - +
138C LEU* 5.7 0.2 - - - +
13M ASP* 4.9 9.6 - - - +
147O SER* 4.0 11.4 + - - +
149O SER* 3.5 20.3 + - - -
150O GLN* 2.3 41.0 + - - +
328P LYS* 3.4 23.6 + - + +
329P TYR* 5.0 3.1 - - - +
----------------------------------------------------------
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Residues in contact with SER 137 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C GLU* 3.0 22.4 + - - -
134C THR 3.6 2.4 + - - -
135C VAL 3.6 2.2 - - - -
136C ASP* 1.3 82.9 + - - +
138C LEU* 1.3 63.6 + - - +
139C GLY* 3.6 5.0 + - - +
143C LYS* 2.9 42.2 + - - +
146C VAL* 3.8 21.4 - - - +
150O GLN* 3.9 6.1 - - - +
----------------------------------------------------------
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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