Contacts of the helix formed by residues 114 - 142 (chain A) in PDB entry 2OZ6
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 ASP 114 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11A LYS* 5.1 3.6 - - - -
12A HIS* 3.6 36.0 + - + +
15A LYS* 2.9 39.1 + - - +
110A LEU 3.0 13.8 + - - +
111A SER* 2.8 20.6 - - - +
113A GLN* 1.3 87.1 - - - +
115A SER* 1.3 64.8 + - - +
116A GLU 3.3 2.1 + - - +
117A ILE* 3.5 12.9 + - + +
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Residues in contact with SER 115 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A SER 3.3 11.5 + - - -
112A GLN 4.7 1.5 + - - -
113A GLN 4.2 0.8 - - - -
114A ASP* 1.3 68.2 - - - +
116A GLU* 1.3 66.5 + - - +
117A ILE 3.1 3.1 - - - -
118A LEU* 3.1 12.5 + - - +
119A TYR* 3.0 21.1 + - - +
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Residues in contact with GLU 116 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A MET* 2.9 35.5 + - - +
9A LYS* 3.2 43.9 + - - +
12A HIS* 3.5 17.0 - - + +
114A ASP 3.3 1.4 - - - -
115A SER* 1.3 80.6 + - - +
117A ILE* 1.3 61.3 + - - +
119A TYR* 3.3 13.7 + - + +
120A THR* 3.0 23.3 + - - +
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Residues in contact with ILE 117 (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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8A MET* 4.1 22.2 - - + +
12A HIS* 3.6 44.0 - - + +
15A LYS* 5.4 4.0 - - + -
16A LEU* 4.3 7.9 - - + -
71A PHE* 4.7 1.3 - - + -
107A PHE* 3.6 30.2 - - + -
110A LEU* 3.8 30.7 - - + +
111A SER* 4.2 5.8 - - - +
114A ASP* 3.7 18.8 - - + +
115A SER 3.1 0.6 - - - -
116A GLU* 1.3 78.4 - - - +
118A LEU* 1.3 61.8 + - - +
120A THR* 3.4 5.2 + - - -
121A LEU* 3.2 19.4 + - - +
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Residues in contact with LEU 118 (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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77A LEU* 5.2 1.3 - - + -
78A PHE* 4.2 26.0 - - + -
107A PHE* 4.7 8.7 - - + -
111A SER* 4.2 22.4 + - - +
112A GLN* 5.7 5.4 - - - +
114A ASP 4.4 0.6 + - - -
115A SER* 3.1 13.0 + - - +
117A ILE* 1.3 77.5 - - - +
119A TYR* 1.3 55.9 + - - +
121A LEU* 3.1 17.9 + - + +
122A GLY* 2.8 32.8 + - - +
125A MET* 5.8 0.7 - - + -
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Residues in contact with TYR 119 (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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115A SER 3.0 13.1 + - - +
116A GLU* 3.5 18.4 - - + +
118A LEU* 1.3 79.1 - - - +
120A THR* 1.3 59.1 + - - +
122A GLY* 3.3 2.5 + - - +
123A SER* 2.9 30.8 + - - -
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Residues in contact with THR 120 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A MET* 3.0 44.6 + - + +
71A PHE* 4.4 9.9 - - + -
116A GLU* 3.0 10.9 + - - +
117A ILE 3.6 8.1 - - - -
119A TYR* 1.3 76.1 - - - +
121A LEU* 1.3 66.4 + - - +
123A SER* 3.2 7.9 + - - -
124A GLN* 3.1 44.0 + - + +
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Residues in contact with LEU 121 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41A LEU* 4.5 1.8 - - + -
71A PHE* 3.5 41.0 - - + -
74A GLU* 3.7 26.9 - - + -
77A LEU* 4.0 16.2 - - + -
78A PHE* 4.1 14.8 - - + -
107A PHE* 3.7 28.5 - - + -
117A ILE 3.2 11.1 + - - +
118A LEU* 3.1 12.5 + - + +
120A THR* 1.3 79.5 - - - +
122A GLY* 1.3 63.8 + - - +
124A GLN* 3.1 7.7 + - + +
125A MET* 3.0 28.2 + - + +
128A ARG* 5.7 0.7 - - - +
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Residues in contact with GLY 122 (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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118A LEU* 2.8 16.9 + - - -
119A TYR* 3.7 3.8 - - - -
120A THR 3.2 0.2 - - - -
121A LEU* 1.3 76.2 - - - +
123A SER* 1.3 61.1 + - - +
125A MET* 3.6 19.2 - - - +
126A ALA* 3.1 24.4 + - - +
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Residues in contact with SER 123 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A TYR* 2.9 22.0 + - - -
120A THR* 3.4 14.1 - - - -
121A LEU 3.1 0.2 - - - -
122A GLY* 1.3 78.2 - - - +
124A GLN* 1.3 59.6 + - - +
126A ALA* 3.4 7.6 + - - +
127A ASP* 3.0 26.7 + - - +
130A ARG* 5.3 1.2 + - - -
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Residues in contact with GLN 124 (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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69A GLY 3.1 23.0 + - - -
70A ASP* 3.4 14.3 + - - +
71A PHE* 2.8 39.0 + - - +
120A THR* 3.1 32.4 + - + +
121A LEU* 3.6 8.5 - - + +
123A SER* 1.3 76.2 - - - +
125A MET* 1.3 66.2 + - - +
127A ASP* 3.1 7.9 + - - +
128A ARG* 2.9 47.9 + - - +
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Residues in contact with MET 125 (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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74A GLU* 3.7 29.4 - - + +
75A LEU* 4.5 12.3 - - + -
78A PHE* 3.6 40.2 - - + -
118A LEU* 5.8 1.6 - - + -
121A LEU* 3.0 15.6 + - + +
122A GLY* 3.6 27.6 - - - +
124A GLN* 1.3 76.0 - - - +
126A ALA* 1.3 57.9 + - - +
128A ARG* 3.2 11.4 + - - +
129A LEU* 2.8 30.9 + - - +
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Residues in contact with ALA 126 (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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122A GLY 3.1 19.7 + - - +
123A SER* 3.5 7.6 - - - +
124A GLN 3.2 0.2 - - - -
125A MET* 1.3 76.3 - - - +
127A ASP* 1.3 62.7 + - - +
129A LEU* 3.2 9.7 + - - +
130A ARG* 3.2 39.8 + - - +
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Residues in contact with ASP 127 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A SER 3.0 14.1 + - - +
124A GLN* 3.1 12.3 + - - +
126A ALA* 1.3 75.3 - - - +
128A ARG* 1.3 58.6 + - + +
130A ARG* 3.4 20.4 + - - +
131A LYS* 3.1 52.4 + - - +
134A ARG* 5.0 2.9 + - - -
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Residues in contact with ARG 128 (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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66A LEU* 3.6 32.6 - - + +
70A ASP* 3.8 4.2 + - - +
71A PHE* 2.5 33.5 + - - +
74A GLU* 3.1 29.8 + - - -
124A GLN* 2.9 51.5 + - - +
125A MET* 3.2 9.1 + - - +
127A ASP* 1.3 76.7 - - + +
129A LEU* 1.3 59.0 + - - +
131A LYS* 3.7 10.0 - - + +
132A THR* 2.7 36.9 + - - -
301A CMP 3.6 39.7 + - + +
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Residues in contact with LEU 129 (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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125A MET 2.8 16.7 + - - +
126A ALA* 3.2 9.1 + - - +
128A ARG* 1.3 75.5 - - - +
130A ARG* 1.3 55.4 + - - +
132A THR* 3.8 5.3 - - + -
133A THR* 2.6 46.2 + - - +
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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
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123A SER 5.3 0.6 + - - -
126A ALA* 3.2 20.7 + - - +
127A ASP* 3.5 30.2 + - - +
129A LEU* 1.3 76.8 - - - +
131A LYS* 1.3 67.1 + - - +
133A THR* 3.1 7.4 + - - -
134A ARG* 2.9 49.2 + - - +
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Residues in contact with LYS 131 (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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63A ILE 6.2 0.4 - - - +
65A TYR 5.9 3.6 - - - +
127A ASP* 3.1 38.4 + - - +
128A ARG* 3.7 11.4 - - + +
130A ARG* 1.3 79.2 - - - +
132A THR* 1.3 57.8 + - - +
134A ARG* 3.2 30.8 + - - +
135A LYS* 3.0 24.7 + - - +
158A GLN* 5.6 5.4 - - - -
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Residues in contact with THR 132 (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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63A ILE* 4.4 12.9 + - + +
128A ARG 2.7 22.7 + - - -
129A LEU* 4.0 8.1 - - + -
131A LYS* 1.3 73.9 - - - +
133A THR* 1.3 60.1 + - - +
135A LYS* 3.1 13.2 + - + +
136A VAL* 3.0 33.4 + - + +
301A CMP 2.8 34.1 + - - +
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Residues in contact with THR 133 (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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129A LEU* 2.6 36.1 + - - +
130A ARG* 3.1 7.1 + - - -
132A THR* 1.3 75.9 - - - +
134A ARG* 1.3 61.7 - - + +
136A VAL* 3.3 12.0 + - + +
137A GLY* 3.2 17.0 + - - -
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Residues in contact with ARG 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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127A ASP* 5.0 2.6 + - - -
130A ARG* 2.9 45.8 + - - +
131A LYS* 3.4 44.0 - - - +
132A THR 3.1 0.2 - - - -
133A THR* 1.3 76.3 - - + +
135A LYS* 1.3 60.6 + - - +
137A GLY* 3.2 2.5 + - - +
138A ASP* 2.9 37.8 + - - +
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Residues in contact with LYS 135 (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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61A MET* 3.8 21.8 - - - -
62A ILE 2.7 28.6 + - - -
63A ILE* 4.1 31.2 + - + +
131A LYS 3.0 13.6 + - - +
132A THR* 3.4 16.2 - - + +
134A ARG* 1.3 79.1 - - - +
136A VAL* 1.3 56.5 + - + +
138A ASP* 3.2 13.5 + - + +
139A LEU* 2.9 41.6 + - + +
180A ILE* 3.0 32.2 + - - +
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Residues in contact with VAL 136 (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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132A THR* 3.0 23.0 + - + +
133A THR* 3.4 15.0 - - + +
134A ARG 3.2 0.2 - - - -
135A LYS* 1.3 78.2 - - - +
137A GLY* 1.3 59.2 + - - +
139A LEU* 3.3 8.8 + - + +
140A ALA* 2.8 35.7 + - + +
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Residues in contact with GLY 137 (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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133A THR 3.2 10.2 + - - -
134A ARG* 3.2 4.2 + - - -
136A VAL* 1.3 83.2 - - - +
138A ASP* 1.3 52.9 + - - +
140A ALA* 4.2 1.6 - - - -
141A PHE* 2.7 59.1 + - - +
142A LEU* 5.2 0.2 - - - +
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Residues in contact with ASP 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A ARG* 2.9 22.9 + - - +
135A LYS* 3.2 17.0 + - + +
137A GLY* 1.3 76.6 - - - +
139A LEU* 1.3 60.6 + - + +
142A LEU* 2.9 48.4 + - - +
147A ARG* 3.5 19.3 - - + -
150A ARG* 3.3 42.4 + - - +
154A ASP* 5.1 2.8 - - - +
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Residues in contact with LEU 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A MET* 4.0 27.6 - - + -
135A LYS* 2.9 35.4 + - + +
136A VAL* 3.8 7.9 - - + +
138A ASP* 1.3 77.1 - - + +
140A ALA* 1.3 60.0 + - - +
142A LEU 4.6 4.3 - - - +
147A ARG* 3.9 20.8 + - - +
180A ILE 5.6 0.7 - - - +
181A VAL* 3.5 24.7 - - - +
182A GLY* 5.3 0.4 - - - -
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Residues in contact with ALA 140 (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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136A VAL* 2.8 24.7 + - + +
137A GLY* 3.7 5.6 - - - +
139A LEU* 1.3 80.0 - - - +
141A PHE* 1.3 79.6 + - + +
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Residues in contact with PHE 141 (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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137A GLY* 2.7 39.3 + - - +
140A ALA* 1.3 90.6 - - + +
142A LEU* 1.3 66.9 + - + +
143A ASP 4.1 1.0 + - - -
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Residues in contact with LEU 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 ASP* 2.9 46.6 + - - +
139A LEU 4.6 3.8 - - - +
141A PHE* 1.3 80.6 - - + +
143A ASP* 1.3 67.0 + - - +
146A GLY* 4.2 24.7 - - - +
147A ARG* 3.2 32.0 + - + +
150A ARG* 4.1 25.1 - - - +
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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