Contacts of the helix formed by residues 120 - 148 (chain A) in PDB entry 2CWE
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 120 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A PHE* 1.3 73.9 - - - +
121A GLU* 1.3 63.6 + - - +
122A ASN* 2.7 54.1 + - - +
123A GLU* 2.8 46.6 + - + +
124A LEU* 3.3 10.4 + - - +
189A ILE* 5.6 1.1 - - - +
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Residues in contact with GLU 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A ILE* 4.1 14.0 - - + +
113A LYS* 2.8 33.0 + - + -
119A PHE* 2.8 31.9 + - + +
120A GLU* 1.3 81.3 - - - +
122A ASN* 1.3 62.4 + - - +
124A LEU* 3.8 3.3 - - - +
125A LEU* 3.0 32.6 + - - +
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Residues in contact with ASN 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A GLU* 2.7 38.5 + - - +
121A GLU* 1.3 80.8 + - - +
123A GLU* 1.3 63.6 + - - +
124A LEU 3.0 0.9 - - - -
125A LEU* 3.3 3.4 + - - +
126A ASN* 2.9 35.8 + - - +
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Residues in contact with GLU 123 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A GLU* 2.8 27.1 + - + +
122A ASN* 1.3 71.9 - - - +
124A LEU* 1.3 57.5 + - - +
126A ASN* 3.4 10.6 - - + +
127A ILE* 3.0 41.4 + - + +
185A ARG* 2.7 43.5 + - - +
189A ILE* 3.5 15.7 - - + +
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Residues in contact with LEU 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A ILE* 3.3 26.7 - - + -
112A PHE* 3.9 8.3 - - + -
119A PHE* 3.3 38.8 - - + -
120A GLU 3.3 14.4 + - - +
121A GLU* 3.8 4.7 - - - +
122A ASN 3.0 0.2 - - - -
123A GLU* 1.3 75.9 - - - +
125A LEU* 1.3 60.7 + - - +
127A ILE* 3.0 7.1 + - + +
128A MET* 2.8 45.1 + - + +
186A LEU* 4.3 15.7 - - + -
189A ILE* 3.8 28.8 - - + +
190A LEU* 4.6 5.4 - - + -
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Residues in contact with LEU 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ARG* 3.8 30.5 - - - +
105A LEU* 3.7 33.0 - - + -
106A LYS* 3.8 37.7 - - + +
109A ILE* 3.8 10.0 - - + +
121A GLU 3.0 20.6 + - - +
122A ASN* 4.0 3.4 - - - +
124A LEU* 1.3 74.6 - - - +
126A ASN* 1.3 59.4 + - - +
128A MET* 3.2 6.7 + - - +
129A ASP* 2.9 30.1 + - - +
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Residues in contact with ASN 126 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102A ARG* 3.6 21.4 + - - +
122A ASN* 2.9 26.6 + - - +
123A GLU* 3.4 12.0 - - - +
125A LEU* 1.3 78.5 - - - +
127A ILE* 1.3 56.9 + - + +
129A ASP* 3.8 1.3 - - - +
130A ARG* 2.9 51.7 + - - +
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Residues in contact with ILE 127 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A GLU* 3.0 24.8 + - + +
124A LEU* 3.0 10.5 + - + +
126A ASN* 1.3 75.9 - - + +
128A MET* 1.3 67.3 + - - +
130A ARG* 4.5 4.7 - - - +
131A MET* 2.8 48.6 + - + +
182A LEU* 3.8 21.1 - - + +
185A ARG* 3.4 31.6 - - + -
186A LEU* 4.1 14.1 - - + +
189A ILE* 3.9 22.0 - - + -
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Residues in contact with MET 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A LEU* 3.2 53.6 - - + +
108A LYS* 3.9 5.6 - - + -
109A ILE* 3.4 12.6 - - + -
112A PHE* 3.6 26.9 - - + -
124A LEU* 2.8 42.5 + - + +
125A LEU* 3.5 13.5 - - + +
127A ILE* 1.3 76.5 - - - +
129A ASP* 1.3 53.2 + - - +
131A MET* 3.6 6.0 - - - +
132A SER* 2.7 36.9 + - - -
186A LEU* 5.1 7.9 - - - -
190A LEU* 5.3 0.4 - - - -
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Residues in contact with ASP 129 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A TYR* 2.9 27.4 + - - -
98A ARG* 2.5 32.6 + - - -
101A ALA* 4.4 4.2 - - - +
102A ARG* 3.2 35.5 + - - +
105A LEU* 3.6 15.4 - - + +
125A LEU 2.9 17.9 + - - +
126A ASN* 3.8 3.6 - - - +
128A MET* 1.3 76.8 - - - +
130A ARG* 1.3 53.6 + - + +
132A SER 3.2 0.5 + - - -
133A GLN* 2.6 39.0 + - - +
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Residues in contact with ARG 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A ASN* 2.9 38.5 + - - +
127A ILE* 4.0 2.7 - - - +
129A ASP* 1.3 75.4 - - + +
131A MET* 1.3 61.5 + - - +
133A GLN* 3.7 14.1 + - - +
134A LYS* 3.2 28.5 + - - +
178A GLU* 5.0 10.5 + - - +
182A LEU* 3.5 31.3 - - + +
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Residues in contact with MET 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A ILE* 2.8 38.6 + - + +
128A MET* 3.6 4.7 - - - +
130A ARG* 1.3 75.8 - - - +
132A SER* 1.3 60.1 + - - +
134A LYS* 3.1 6.2 + - - +
135A GLU* 2.8 39.2 + - - +
179A TYR* 3.7 27.7 - - + +
182A LEU* 3.5 27.8 - - + +
183A LEU* 3.7 31.9 - - + -
186A LEU* 3.6 31.4 - - + -
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Residues in contact with SER 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A TYR* 3.5 14.8 + - - -
105A LEU* 4.5 13.4 - - - +
128A MET 2.7 23.8 + - - -
129A ASP* 4.4 0.2 - - - -
131A MET* 1.3 71.9 - - - +
133A GLN* 1.3 65.7 + - - +
135A GLU* 3.4 17.8 + - - +
136A PHE* 2.9 52.9 + - - -
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Residues in contact with GLN 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91A TYR* 3.6 45.7 + - + +
98A ARG* 4.2 16.8 + - - +
129A ASP* 2.6 21.7 + - - +
130A ARG* 3.8 15.0 - - - +
132A SER* 1.3 73.0 - - - +
134A LYS* 1.3 62.3 + - + +
136A PHE* 3.3 2.1 + - - +
137A ASP* 2.9 47.0 + - - +
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Residues in contact with LYS 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130A ARG* 3.2 15.7 - - - +
131A MET 3.1 7.9 + - - +
133A GLN* 1.3 79.5 - - + +
135A GLU* 1.3 64.8 + - - +
137A ASP* 4.0 7.2 - - - +
138A ALA* 3.0 27.4 + - - +
173A LEU* 3.5 14.4 - - + +
176A ASP* 2.5 38.0 + - + +
178A GLU* 2.3 49.2 + - - +
179A TYR* 4.3 15.3 - - + +
182A LEU* 4.8 2.2 - - + -
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Residues in contact with GLU 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A MET* 2.8 31.2 + - - +
132A SER* 3.4 22.3 + - - +
134A LYS* 1.3 75.4 - - - +
136A PHE* 1.3 65.5 + - + +
138A ALA* 3.8 1.6 - - - +
139A THR* 3.0 29.8 + - - +
169A SER* 4.1 0.5 + - - -
173A LEU* 4.0 26.9 - - + +
179A TYR* 3.5 17.5 + - + -
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Residues in contact with PHE 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A ILE* 3.2 47.6 - - + +
89A ASN* 5.3 0.9 - - - +
90A LEU* 3.8 31.4 - - + +
91A TYR* 3.7 21.5 - + + +
104A ARG* 4.1 16.6 - - - -
132A SER* 2.9 45.4 + - - +
133A GLN 3.7 3.6 - - - +
135A GLU* 1.3 82.6 - - + +
137A ASP* 1.3 58.7 + - - +
139A THR* 3.4 5.3 + - + -
140A VAL* 2.8 36.1 + - + +
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Residues in contact with ASP 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89A ASN* 3.6 17.5 + - - +
91A TYR* 4.5 10.9 - - - +
133A GLN* 2.9 41.1 + - - +
134A LYS* 4.0 7.1 + - - +
135A GLU 3.4 0.2 - - - -
136A PHE* 1.3 75.6 - - - +
138A ALA* 1.3 58.0 + - - +
140A VAL* 3.5 8.0 + - - +
141A ARG* 2.9 29.0 + - - +
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Residues in contact with ALA 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134A LYS 3.0 18.9 + - - +
135A GLU 3.8 1.8 - - - +
137A ASP* 1.3 75.8 - - - +
139A THR* 1.3 60.3 + - - +
141A ARG* 2.8 9.9 + - - +
142A ILE* 2.8 32.7 + - - +
169A SER* 3.8 13.5 - - - +
172A GLU* 4.0 24.7 - - + +
173A LEU* 4.0 16.6 - - + -
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Residues in contact with THR 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87A TYR* 3.3 38.1 - - + -
135A GLU* 3.0 18.5 + - - +
136A PHE* 4.0 5.8 - - + -
138A ALA* 1.3 73.1 - - - +
140A VAL* 1.3 63.4 + - + +
142A ILE* 4.2 2.5 - - - +
143A SER* 2.8 28.2 + - - -
165A ILE* 4.1 8.6 - - + +
166A GLU* 5.9 0.3 - - - -
169A SER* 2.7 26.4 + - - -
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Residues in contact with VAL 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A VAL* 4.3 10.9 - - + +
87A TYR* 5.6 2.9 - - + -
88A ILE 4.0 9.2 - - - +
89A ASN* 3.6 52.5 - - + +
136A PHE 2.8 25.3 + - - +
137A ASP* 3.5 8.3 - - - +
139A THR* 1.3 77.8 - - + +
141A ARG* 1.3 61.9 + - - +
143A SER* 3.3 5.5 + - - -
144A LYS* 2.9 53.6 + - + +
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Residues in contact with ARG 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A ASP 2.9 14.4 + - - +
138A ALA* 2.8 13.9 + - - +
140A VAL* 1.3 81.7 - - + +
142A ILE* 1.3 65.3 + - + +
144A LYS* 3.5 15.6 + - - +
145A TYR* 3.6 6.9 + - - +
172A GLU* 3.4 39.5 + - + +
175A ARG* 5.7 0.6 - - - +
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Residues in contact with ILE 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138A ALA 2.8 16.6 + - - +
139A THR 4.2 2.5 - - - +
141A ARG* 1.3 76.0 - - + +
143A SER* 1.3 63.5 + - - +
145A TYR* 3.4 11.4 + - + +
146A ILE* 3.1 27.8 + - + +
165A ILE* 3.2 61.5 - - + +
168A LEU* 3.8 28.5 - - + -
169A SER* 3.8 22.0 - - - +
172A GLU* 4.1 15.9 - - + -
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Residues in contact with SER 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A VAL* 4.2 4.0 - - - +
7A VAL* 3.1 21.6 - - - +
87A TYR* 3.9 30.2 - - - +
139A THR 2.8 23.4 + - - -
140A VAL* 3.3 4.0 + - - -
142A ILE* 1.3 77.4 - - - +
144A LYS* 1.3 68.4 + - - +
146A ILE* 3.0 11.1 + - - +
147A GLU* 2.9 25.3 + - - +
165A ILE* 4.3 7.9 - - - -
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Residues in contact with LYS 144 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A VAL* 4.5 15.4 - - + +
9A THR* 4.9 5.5 - - - +
89A ASN* 4.9 4.2 - - - +
140A VAL* 2.9 43.4 + - + +
141A ARG* 3.5 8.7 - - - +
143A SER* 1.3 82.1 + - - +
145A TYR* 1.3 64.3 + - - +
147A GLU* 3.1 38.8 + - - +
148A GLU* 3.5 9.7 + - - +
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Residues in contact with TYR 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A ARG 3.6 6.6 + - - +
142A ILE* 3.4 13.9 + - - +
144A LYS* 1.3 79.1 - - - +
146A ILE* 1.3 69.2 + - + +
148A GLU* 2.8 44.0 + - - +
149A LYS* 3.3 48.3 + - + +
168A LEU* 6.0 4.5 - - + -
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Residues in contact with ILE 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A VAL* 4.1 22.7 - - + -
142A ILE* 3.1 30.7 - - + +
143A SER* 3.0 14.8 + - - +
145A TYR* 1.3 82.8 - - + +
147A GLU* 1.3 58.9 + - - +
148A GLU 2.9 2.2 - - - -
149A LYS* 2.6 27.6 + - + +
150A GLU* 3.2 11.6 + - + +
153A LEU* 3.5 32.3 - - + -
161A ILE* 4.4 6.5 - - + -
164A ALA* 6.4 1.6 - - + -
165A ILE* 4.2 9.0 - - + -
168A LEU* 4.8 10.5 - - + -
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Residues in contact with GLU 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
2A ALA* 4.5 13.4 + - + +
5A VAL* 3.6 26.4 - - + +
6A LYS* 3.5 7.3 - - - +
7A VAL* 2.9 36.2 + - - +
143A SER 2.9 13.6 + - - +
144A LYS* 3.1 31.9 + - - +
146A ILE* 1.3 75.0 - - - +
148A GLU* 1.3 58.9 + - + +
149A LYS 3.6 0.2 + - - -
150A GLU* 3.8 24.6 + - - +
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Residues in contact with GLU 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144A LYS 3.5 5.6 + - - +
145A TYR* 2.8 43.2 + - - +
146A ILE 2.9 1.2 - - - -
147A GLU* 1.3 80.9 - - + +
149A LYS* 1.3 84.3 + - + +
150A GLU 3.6 1.1 - - - -
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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