Contacts of the helix formed by residues 120 - 145 (chain A) in PDB entry 1EIA
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 PRO 120 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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118A MET 3.8 1.8 - - - +
119A GLU* 1.3 87.6 - - + +
121A ALA* 1.3 58.9 + - + +
122A PHE 3.0 0.2 - - - -
123A ASP* 3.0 44.7 + - - +
124A GLN 4.7 0.2 + - - -
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Residues in contact with ALA 121 (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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100A ILE* 5.4 6.4 - - + +
119A GLU* 3.2 20.2 - - + +
120A PRO* 1.3 82.2 - - + +
122A PHE* 1.3 57.5 + - - +
123A ASP 3.4 0.2 - - - -
124A GLN* 4.7 3.7 + - - +
125A PHE* 3.5 19.2 - - - -
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Residues in contact with PHE 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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50A SER* 3.3 29.6 - - - -
100A ILE* 4.5 10.8 - - + -
106A PHE 3.4 23.1 - - - -
109A GLY* 4.2 0.4 - - - -
112A VAL* 3.7 25.1 - - + -
116A ARG 3.4 19.5 - - - +
117A GLN* 3.5 40.4 - - + +
119A GLU* 3.1 8.3 + - + +
120A PRO 3.0 1.0 - - - -
121A ALA* 1.3 77.5 - - - +
123A ASP* 1.3 57.7 + - - +
124A GLN 3.2 2.7 - - - -
125A PHE* 2.6 58.5 + + + +
126A ARG* 3.1 25.8 + - + -
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Residues in contact with ASP 123 (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 MET 5.0 2.3 - - - +
119A GLU 3.8 3.3 - - - +
120A PRO* 3.0 39.1 + - - +
122A PHE* 1.3 75.6 - - - +
124A GLN* 1.3 65.9 + - + +
126A ARG* 2.9 40.1 + - - +
127A GLN* 3.0 34.5 + - - +
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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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102A MET* 4.1 26.4 - - + +
120A PRO 4.7 0.4 + - - -
121A ALA 4.7 2.6 + - - +
122A PHE 3.2 1.0 - - - -
123A ASP* 1.3 80.7 - - + +
125A PHE* 1.3 71.4 + - + +
127A GLN* 3.6 12.0 - - - +
128A THR* 2.9 30.5 + - - +
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Residues in contact with PHE 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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100A ILE* 3.3 41.1 - - + -
101A PRO 3.9 5.2 - - - -
102A MET* 3.8 46.9 - - + -
106A PHE* 3.8 16.8 - - + -
107A ILE* 3.4 23.4 - - + +
121A ALA 3.5 21.5 - - - -
122A PHE* 2.6 51.5 + + + +
124A GLN* 1.3 76.6 - - + +
126A ARG* 1.3 59.3 + - - +
128A THR* 3.4 0.3 + - - -
129A TYR* 3.0 19.4 + - - +
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Residues in contact with ARG 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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47A ASP* 3.6 41.9 + - - +
48A CYS 3.4 21.5 + - - +
49A THR* 4.2 7.4 - - - +
50A SER* 3.9 16.8 - - - +
53A MET* 3.3 9.8 - - - +
117A GLN 4.4 7.7 + - - -
122A PHE* 3.1 23.7 + - + +
123A ASP* 2.9 45.2 + - - +
125A PHE* 1.3 79.4 - - - +
127A GLN* 1.3 80.2 + - - +
129A TYR* 4.3 1.1 - - - -
130A ARG* 3.0 24.4 + - - +
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Residues in contact with GLN 127 (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 ASP* 3.0 33.1 + - - +
124A GLN* 3.6 10.3 - - - +
126A ARG* 1.3 99.7 + - - +
128A THR* 1.3 66.2 + - - +
130A ARG* 3.4 12.9 + - - +
131A GLN* 3.2 26.1 + - - +
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Residues in contact with THR 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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81A TRP* 4.9 10.6 - - + -
102A MET* 3.9 11.7 - - - +
107A ILE* 4.1 13.0 - - + -
124A GLN* 2.9 19.5 + - - +
125A PHE 3.7 4.5 - - - -
127A GLN* 1.3 75.8 - - - +
129A TYR* 1.3 55.4 + - - +
131A GLN* 2.7 31.2 + - + +
132A TRP* 2.8 43.4 + - + +
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Residues in contact with TYR 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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50A SER* 3.7 27.6 - - - +
53A MET* 3.8 13.0 - - + -
54A ASN* 2.6 34.4 + - - -
57A LEU* 4.1 9.2 - - - +
74A ILE* 4.1 16.8 - - + +
107A ILE* 3.3 22.9 - - + +
108A ARG* 3.7 39.4 + - + -
125A PHE 3.0 8.8 + - - +
126A ARG 3.8 4.3 - - - +
128A THR* 1.3 80.0 - - - +
130A ARG* 1.3 62.4 + - - +
132A TRP* 3.0 22.3 + + + +
133A ILE* 2.9 44.8 + - + +
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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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41A PHE* 3.9 3.4 - - + -
42A GLY* 2.8 35.8 + - - -
45A SER* 2.8 45.2 + - - +
46A VAL* 4.0 15.8 - - - +
47A ASP 4.9 2.7 - - - +
53A MET* 3.7 21.2 - - - +
126A ARG 3.0 16.0 + - - +
127A GLN* 3.4 15.0 + - - +
128A THR 3.2 0.2 - - - -
129A TYR* 1.3 75.3 - - - +
131A GLN* 1.3 76.9 + - - +
133A ILE* 3.4 3.1 + - - +
134A ILE* 3.1 45.4 + - - +
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Residues in contact with GLN 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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127A GLN 3.5 13.6 + - - +
128A THR* 2.7 16.1 + - + +
130A ARG* 1.3 100.6 - - - +
132A TRP* 1.3 54.8 + - + +
134A ILE* 3.0 18.9 + - - +
135A GLU* 2.7 54.1 + - - +
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Residues in contact with TRP 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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74A ILE* 4.9 9.4 - - + -
77A ILE* 3.7 30.3 - - + +
78A ALA* 3.7 25.8 - - + -
81A TRP* 3.5 38.0 - + + +
104A ALA* 3.7 26.9 - - + -
107A ILE* 3.6 32.8 - - + -
108A ARG* 4.4 4.0 - - + -
128A THR* 2.8 36.4 + - + +
129A TYR* 3.2 32.3 - + + +
131A GLN* 1.3 74.4 - - + +
133A ILE* 1.3 57.4 + - - +
135A GLU* 3.3 14.9 + - - +
136A ALA* 2.7 31.0 + - - +
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Residues in contact with ILE 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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41A PHE* 3.5 41.1 - - + -
53A MET* 3.9 22.9 - - + +
57A LEU* 4.5 19.3 - - + -
70A LEU* 4.7 10.1 - - + -
74A ILE* 4.2 11.2 - - + -
129A TYR* 2.9 46.7 + - + +
130A ARG 3.8 1.1 - - - +
132A TRP* 1.3 75.4 - - - +
134A ILE* 1.3 52.4 + - - +
136A ALA* 3.2 6.3 + - - +
137A MET* 2.7 46.2 + - + +
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Residues in contact with ILE 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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38A GLN* 4.6 14.8 - - + +
41A PHE* 4.1 15.5 - - + -
42A GLY* 4.9 6.5 - - - -
130A ARG* 3.1 50.5 + - - +
131A GLN* 3.0 25.9 + - - +
133A ILE* 1.3 76.3 - - - +
135A GLU* 1.3 60.5 + - + +
137A MET* 3.2 10.1 + - + +
138A SER* 2.8 29.7 + - - -
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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
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77A ILE* 3.5 35.4 - - + +
131A GLN* 2.7 40.3 + - + +
132A TRP* 3.6 9.3 - - - +
134A ILE* 1.3 71.2 - - + +
136A ALA* 1.3 66.6 + - - +
138A SER* 3.0 9.2 + - - -
139A GLU* 2.9 27.6 + - + +
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Residues in contact with ALA 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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70A LEU* 3.3 25.3 - - + +
73A ALA* 3.8 21.5 - - + +
74A ILE* 3.4 21.8 - - + +
77A ILE* 3.8 4.4 - - + +
132A TRP 2.7 22.5 + - - +
133A ILE 3.3 2.5 - - - +
135A GLU* 1.3 74.9 - - - +
137A MET* 1.3 64.5 + - - +
139A GLU* 3.1 3.3 + - - +
140A GLY* 2.9 20.3 + - - -
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Residues in contact with MET 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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23A TRP* 4.7 8.7 - - + -
32A LEU* 4.5 11.2 - - - +
33A LEU* 4.2 12.1 - - + +
37A SER 4.5 1.6 - - - +
38A GLN* 4.1 33.4 - - + +
41A PHE* 3.2 46.9 - - + -
70A LEU* 3.9 25.4 - - + -
133A ILE* 2.7 31.2 + - + +
134A ILE* 3.6 7.0 - - - +
136A ALA* 1.3 71.8 - - - +
138A SER* 1.3 57.2 + - - +
140A GLY* 3.3 1.1 + - - +
141A ILE* 2.8 37.2 + - + +
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Residues in contact with SER 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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38A GLN* 4.0 17.5 + - - -
134A ILE* 2.8 19.3 + - - -
135A GLU* 3.0 12.5 + - - -
137A MET* 1.3 73.2 - - - +
139A GLU* 1.3 63.7 + - - +
141A ILE* 3.2 6.5 + - - +
142A LYS* 3.0 37.3 + - - +
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Residues in contact with GLU 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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69A ILE* 5.3 0.2 - - - -
73A ALA* 4.7 8.7 - - + -
76A LYS* 4.8 18.3 - - - +
77A ILE* 5.6 2.5 - - + -
135A GLU* 2.9 17.8 + - + +
136A ALA* 3.6 8.7 - - - +
138A SER* 1.3 74.1 + - - +
140A GLY* 1.3 65.8 + - - +
142A LYS* 3.0 36.9 + - - +
143A VAL* 3.1 25.0 + - - +
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Residues in contact with GLY 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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33A LEU* 3.6 28.4 - - - +
69A ILE* 3.7 17.9 - - - +
70A LEU 5.7 0.2 - - - -
73A ALA* 5.4 0.4 - - - +
136A ALA 2.9 14.2 + - - -
137A MET 3.7 2.5 - - - -
139A GLU* 1.3 77.1 - - - +
141A ILE* 1.3 53.2 + - - +
143A VAL* 2.8 31.7 + - - +
144A MET 3.2 4.0 + - - -
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Residues in contact with ILE 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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32A LEU 5.3 0.7 - - - +
33A LEU* 3.6 31.5 - - + +
34A ASN* 3.7 22.0 - - - +
35A GLU* 3.7 13.0 - - + +
38A GLN* 3.5 42.4 - - + +
137A MET* 2.8 20.8 + - + +
138A SER* 3.5 5.2 - - - +
140A GLY* 1.3 74.3 - - - +
142A LYS* 1.3 58.4 + - + +
144A MET* 3.0 4.5 + - + +
145A ILE* 2.9 43.1 + - + +
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Residues in contact with LYS 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 SER* 3.0 29.0 + - - +
139A GLU* 3.0 39.1 + - - +
140A GLY 3.2 0.2 - - - -
141A ILE* 1.3 77.4 - - + +
143A VAL* 1.3 64.2 + - + +
145A ILE* 3.5 26.9 + - + +
146A GLY* 3.7 3.5 + - - -
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Residues in contact with VAL 143 (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 ILE* 4.4 28.0 - - + -
139A GLU 3.1 19.3 - - - +
140A GLY* 2.8 15.3 + - - +
142A LYS* 1.3 78.2 - - - +
144A MET* 1.3 61.3 + - + +
146A GLY* 3.4 9.2 + - - -
147A LYS* 3.3 30.2 + - + +
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Residues in contact with MET 144 (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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30A ASN* 5.4 8.3 - - - +
33A LEU* 3.6 40.8 - - + +
66A GLN* 3.7 33.0 - - + +
69A ILE* 4.7 11.2 - - - -
140A GLY 3.7 6.1 - - - +
141A ILE* 3.0 6.7 + - + +
143A VAL* 1.3 74.0 - - - +
145A ILE* 1.3 58.0 + - - +
146A GLY 2.9 2.2 - - - -
147A LYS* 2.4 56.5 + - + +
148A PRO* 4.9 0.2 - - - +
149A LYS* 4.4 19.3 - - - +
152A ASN* 5.8 0.5 + - - -
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Residues in contact with ILE 145 (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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35A GLU* 5.5 6.1 - - - +
141A ILE* 2.9 34.9 + - + +
142A LYS* 3.7 20.6 - - + +
143A VAL 3.4 0.2 - - - -
144A MET* 1.3 75.6 - - + +
146A GLY* 1.3 59.8 + - - +
147A LYS 3.4 0.5 + - - -
148A PRO* 3.5 15.6 - - - +
152A ASN* 5.1 8.4 + - - +
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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
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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