Contacts of the helix formed by residues 109 - 134 (chain C) in PDB entry 1FZB
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 109 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169B ARG* 2.9 39.0 + - - -
173B GLU* 2.8 24.2 + - - -
176B ARG* 5.7 0.3 + - - -
105C SER* 3.4 31.1 - - - +
106C SER* 4.3 4.7 - - - +
107C ILE 3.7 0.6 - - - +
108C ARG* 1.3 80.6 - - - +
110C LEU* 1.3 71.5 + - + +
111C GLN 3.2 3.9 + - - -
112C GLU* 3.3 43.2 + - - +
113C ILE* 3.8 13.6 + - + +
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Residues in contact with LEU 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A LEU* 4.1 14.3 - - + +
165B LEU* 4.1 8.5 - - + +
168B LEU* 3.4 28.8 - - + +
169B ARG* 3.5 48.9 - - + +
172B LEU* 3.3 31.9 - - + +
106C SER* 3.3 30.3 - - - +
107C ILE* 3.4 8.2 + - - +
108C ARG 3.3 0.8 - - - -
109C TYR* 1.3 89.1 - - + +
111C GLN* 1.3 57.5 + - - +
112C GLU 3.6 0.2 - - - -
113C ILE* 4.1 14.1 - - + +
114C TYR* 4.4 2.6 - - - +
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Residues in contact with GLN 111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A LEU* 3.9 23.2 - - + +
107C ILE* 3.5 17.3 - - - +
108C ARG* 3.9 7.4 - - - +
109C TYR 3.2 0.6 - - - -
110C LEU* 1.3 77.9 - - - +
112C GLU* 1.3 63.9 + - - +
113C ILE 3.3 1.6 - - - +
114C TYR* 3.9 12.1 - - + +
115C ASN* 3.1 46.0 + - - +
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Residues in contact with GLU 112 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108C ARG* 3.1 20.5 - - - +
109C TYR* 3.3 45.3 + - - +
111C GLN* 1.3 79.3 - - - +
113C ILE* 1.3 59.6 + - + +
115C ASN* 3.6 3.6 + - - +
116C SER* 3.0 30.4 + - - -
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Residues in contact with ILE 113 (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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172B LEU* 2.7 46.7 - - + +
173B GLU* 3.3 41.3 - - + +
176B ARG* 3.5 20.9 - - + +
109C TYR* 3.8 16.4 + - + +
110C LEU* 4.1 13.2 - - + -
111C GLN 3.3 0.4 - - - +
112C GLU* 1.3 77.9 - - + +
114C TYR* 1.3 57.3 + - - +
116C SER* 2.9 6.2 + - - +
117C ASN* 2.6 52.9 + - - +
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Residues in contact with TYR 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136A LEU* 5.5 7.0 - - + -
139A ASN* 2.9 60.2 + - + +
140A VAL* 4.0 18.2 - - + -
142A ALA* 5.7 0.7 - - - +
143A GLN* 3.8 24.0 + - + +
172B LEU* 3.8 20.1 - - + +
110C LEU 4.4 1.6 - - - +
111C GLN* 3.9 15.6 - - + -
112C GLU 3.5 0.2 - - - -
113C ILE* 1.3 79.2 - - - +
115C ASN* 1.3 72.2 + - - +
118C ASN* 2.9 47.9 + - + +
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Residues in contact with ASN 115 (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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111C GLN* 3.1 34.6 + - - +
112C GLU* 4.0 3.8 - - - +
113C ILE 3.2 0.4 - - - -
114C TYR* 1.3 94.2 - - - +
116C SER* 1.3 61.4 + - - +
118C ASN* 4.1 3.9 - - - +
119C GLN* 3.5 21.3 + - - +
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Residues in contact with SER 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176B ARG* 5.0 3.5 - - - +
112C GLU 3.0 16.8 + - - -
113C ILE* 2.9 15.9 + - - +
115C ASN* 1.3 75.0 - - - +
117C ASN* 1.3 80.9 + - - +
118C ASN 3.2 1.1 - - - -
119C GLN* 3.1 7.3 + - - +
120C LYS* 2.9 30.7 + - - +
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Residues in contact with ASN 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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143A GLN* 3.3 16.9 - - - +
172B LEU* 3.2 8.0 - - - +
175B LEU* 3.1 9.9 - - + +
176B ARG* 2.7 62.6 + - - +
179B ILE* 3.5 17.4 - - + +
113C ILE* 2.6 27.8 + - + +
116C SER* 1.3 78.8 + - - +
118C ASN* 1.3 64.5 - - - +
120C LYS* 3.0 17.5 + - - +
121C ILE* 3.2 12.7 + - + +
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Residues in contact with ASN 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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143A GLN* 3.3 23.2 + - - +
114C TYR* 2.9 39.0 + - + +
115C ASN* 4.1 6.1 - - - +
117C ASN* 1.3 81.4 - - - +
119C GLN* 1.3 64.9 + - - +
121C ILE* 3.2 9.7 + - - +
122C VAL* 3.1 31.3 + - - +
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Residues in contact with GLN 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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115C ASN 3.5 14.1 + - - +
116C SER* 3.1 11.1 + - - +
118C ASN* 1.3 79.4 - - - +
120C LYS* 1.3 63.0 + - + +
122C VAL* 3.1 36.3 + - - +
123C ASN* 3.2 13.4 + - + +
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Residues in contact with LYS 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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176B ARG* 4.2 13.5 + - - +
179B ILE* 3.5 34.7 - - + +
180B GLN* 4.1 12.0 + - - +
183B GLU* 3.3 29.1 + - - +
116C SER* 2.9 28.2 + - - +
117C ASN* 3.0 11.4 + - - +
119C GLN* 1.3 74.8 - - - +
121C ILE* 1.3 52.2 + - - +
123C ASN* 3.1 7.7 + - - +
124C LEU* 2.6 36.4 + - - +
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Residues in contact with ILE 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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143A GLN* 6.1 2.7 - - - +
146A ASP* 4.7 10.1 - - + +
147A MET* 3.2 35.0 - - + -
150A LEU* 3.6 17.0 - - + -
179B ILE* 3.2 40.6 - - + -
117C ASN* 3.2 6.8 + - + +
118C ASN* 3.2 13.4 + - - +
120C LYS* 1.3 76.5 - - - +
122C VAL* 1.3 62.3 + - + +
124C LEU* 3.6 7.0 - - + -
125C LYS* 2.6 62.2 + - + +
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Residues in contact with VAL 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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118C ASN* 3.1 31.9 + - - +
119C GLN* 3.2 27.8 - - - +
121C ILE* 1.3 79.0 - - + +
123C ASN* 1.3 60.7 + - + +
125C LYS* 3.5 17.5 - - + +
126C GLU* 3.4 28.0 + - - +
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Residues in contact with ASN 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C GLN* 3.2 8.2 + - + +
120C LYS* 3.1 8.8 + - - +
121C ILE 3.1 0.2 - - - -
122C VAL* 1.3 78.2 - - + +
124C LEU* 1.3 55.4 + - - +
125C LYS 3.1 0.2 - - - -
126C GLU* 2.8 26.0 + - - +
127C LYS* 2.7 36.1 + - - +
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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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150A LEU* 4.2 20.6 - - + -
154A ILE* 4.4 1.8 - - + -
179B ILE* 4.1 20.9 - - + -
182B LEU* 4.0 30.1 - - + +
183B GLU* 4.0 30.5 - - + +
186B VAL* 4.5 1.1 - - + -
120C LYS 2.6 21.4 + - - +
121C ILE* 2.8 11.9 + - + +
123C ASN* 1.3 74.2 - - - +
125C LYS* 1.3 62.9 + - - +
127C LYS* 2.9 27.9 + - + +
128C VAL* 2.9 31.7 + - + +
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Residues in contact with LYS 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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146A ASP* 3.5 22.4 + - - -
150A LEU* 4.7 18.0 - - + +
121C ILE* 2.6 39.9 + - + +
122C VAL* 3.5 19.7 - - + +
124C LEU* 1.3 70.6 - - - +
126C GLU* 1.3 63.9 + - + +
128C VAL* 3.2 14.1 - - - +
129C ALA* 3.1 22.6 + - - +
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Residues in contact with GLU 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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122C VAL* 3.4 20.2 + - - +
123C ASN* 2.8 37.9 + - - +
125C LYS* 1.3 81.8 - - + +
127C LYS* 1.3 59.8 + - - +
129C ALA* 3.1 19.8 - - - +
130C GLN* 3.2 16.5 + - - +
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Residues in contact with LYS 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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183B GLU* 2.7 32.7 + - + +
186B VAL* 3.4 18.9 - - + +
187B SER* 2.6 44.1 + - - +
190B MET* 4.5 6.8 - - - +
123C ASN* 2.7 18.4 + - - +
124C LEU* 2.9 20.4 + - + +
126C GLU* 1.3 72.7 - - - +
128C VAL* 1.3 58.2 + - - +
130C GLN* 2.9 38.7 + - - +
131C LEU* 3.1 9.2 + - - +
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Residues in contact with VAL 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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150A LEU* 5.0 4.3 - - + -
153A ASP* 4.6 15.0 - - - +
154A ILE* 3.8 28.7 - - + -
157A LYS* 4.6 12.3 - - + +
186B VAL* 3.7 26.9 - - + -
124C LEU* 2.9 17.2 + - + +
125C LYS* 3.2 18.2 - - - +
127C LYS* 1.3 74.8 - - - +
129C ALA* 1.3 60.4 + - - +
130C GLN 3.3 0.2 - - - -
131C LEU* 3.3 16.0 + - + +
132C GLU* 2.8 27.9 + - - +
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Residues in contact with ALA 129 (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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125C LYS 3.1 14.3 + - - +
126C GLU* 3.1 18.6 - - - +
127C LYS 3.0 0.4 - - - -
128C VAL* 1.3 79.2 - - - +
130C GLN* 1.3 63.2 + - + +
132C GLU* 3.4 12.6 + - - +
133C ALA* 3.2 19.1 + - - +
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Residues in contact with GLN 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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190B MET* 3.7 30.2 - - + +
126C GLU* 3.4 16.7 - - - +
127C LYS* 2.9 17.8 + - - +
129C ALA* 1.3 74.2 - - + +
131C LEU* 1.3 65.8 - - - +
133C ALA* 3.1 10.6 - - - +
134C GLN* 3.0 26.2 + - - +
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Residues in contact with LEU 131 (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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154A ILE* 5.9 0.7 - - + -
157A LYS* 4.5 12.6 - - + +
158A ILE* 3.7 30.3 - - + -
161A CYS* 3.6 17.5 - - - -
186B VAL* 4.4 17.9 - - + -
189B GLN* 3.4 33.7 - - + -
190B MET* 4.0 22.4 - - + +
193B CYS* 4.2 4.3 - - - -
127C LYS 3.1 6.3 + - - +
128C VAL* 3.3 20.4 - - + +
130C GLN* 1.3 74.8 - - - +
132C GLU* 1.3 66.8 + - - +
134C GLN* 2.9 14.9 + - + +
135C CYS* 3.1 17.6 + - - -
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Residues in contact with GLU 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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157A LYS* 3.6 33.6 - - + -
160A SER* 5.6 2.7 - - - +
261B ASP* 2.7 15.0 - - + +
263B GLY 4.2 2.4 - - - +
398B ASP* 2.7 27.7 - - - +
428B LYS* 5.6 0.7 + - - -
128C VAL 2.8 16.2 + - - +
129C ALA* 3.6 12.2 - - - +
130C GLN 3.3 0.2 - - - -
131C LEU* 1.3 76.0 - - - +
133C ALA* 1.3 64.5 + - - +
135C CYS* 3.0 27.1 - - - +
136C GLN* 3.1 18.8 + - - +
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Residues in contact with ALA 133 (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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129C ALA 3.2 10.2 + - - +
130C GLN* 3.1 13.8 + - - +
132C GLU* 1.3 81.5 - - - +
134C GLN* 1.3 67.9 + - - +
135C CYS 3.0 1.4 + - - -
136C GLN* 3.4 20.1 + - - +
137C GLU* 5.7 1.0 - - - +
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Residues in contact with GLN 134 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164A SER* 4.4 4.5 - - - -
165A CYS* 4.8 3.6 - - - -
190B MET* 3.3 22.4 - - + +
193B CYS* 3.6 39.1 + - + +
130C GLN* 3.0 21.7 + - - +
131C LEU* 2.9 14.5 + - + +
133C ALA* 1.3 77.6 - - - +
135C CYS* 1.3 58.2 + - - +
136C GLN 3.6 2.6 + - - -
137C GLU* 4.6 9.2 + - - +
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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
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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) + - + + + + + -
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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