Contacts of the helix formed by residues 127 - 152 (chain A) in PDB entry 2CHP
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 127 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A GLN* 5.7 0.9 - - - +
13A VAL* 4.3 5.2 - - + +
67A ARG* 2.9 26.9 + - - -
71A ILE* 3.9 16.1 - - - +
122A ALA* 2.9 27.9 + - + +
123A GLU* 4.6 1.5 + - - +
125A ASN* 4.2 13.7 - - + +
126A GLN* 1.3 74.1 - - - +
128A ASN* 1.3 63.0 + - - +
129A ALA 3.7 1.4 + - - -
130A THR* 2.7 32.0 + - - +
131A ALA* 3.3 15.1 + - - +
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Residues in contact with ASN 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123A GLU* 5.3 10.8 - - - +
126A GLN* 3.6 15.2 + - - +
127A ASP* 1.3 76.9 + - - +
129A ALA* 1.3 59.2 + - - +
131A ALA* 3.4 8.3 + - - +
132A ASP* 2.8 29.3 + - - +
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Residues in contact with ALA 129 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A ARG* 3.6 29.8 + - - +
127A ASP* 3.3 1.4 + - - +
128A ASN* 1.3 79.4 - - - +
130A THR* 1.3 61.3 + - - +
132A ASP* 3.3 8.7 + - - +
133A LEU* 3.1 21.7 + - - +
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Residues in contact with THR 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A VAL* 4.3 4.0 - - + -
17A LEU* 3.7 36.6 - - + -
67A ARG* 2.9 29.8 + - + +
71A ILE* 4.0 4.3 - - - +
118A VAL* 4.6 1.6 - - + -
122A ALA* 4.1 12.1 - - + -
127A ASP* 2.7 34.9 + - - +
129A ALA* 1.3 71.9 - - - +
131A ALA* 1.3 67.3 + - - +
133A LEU* 3.2 11.9 + - - +
134A PHE* 3.4 20.6 - - + -
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Residues in contact with ALA 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118A VAL 5.8 0.2 - - - -
119A ILE* 3.8 20.0 - - + +
122A ALA* 3.8 14.8 - - + +
123A GLU* 4.1 24.2 - - + +
127A ASP 3.3 12.9 + - - +
128A ASN* 3.6 11.0 - - - +
130A THR* 1.3 78.1 - - - +
132A ASP* 1.3 61.7 + - - +
134A PHE* 3.1 5.5 + - - +
135A VAL* 2.9 28.1 + - + +
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Residues in contact with ASP 132 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
128A ASN 2.8 17.7 + - - +
129A ALA* 3.6 8.6 - - - +
130A THR 3.2 0.2 - - - -
131A ALA* 1.3 75.3 - - - +
133A LEU* 1.3 65.7 + - - +
135A VAL* 3.2 10.7 + - - +
136A GLY* 3.1 18.9 + - - -
132C ASP* 4.2 15.6 - - - +
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Residues in contact with LEU 133 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A LEU* 5.7 0.2 - - + -
60A THR* 6.1 0.2 - - + -
63A THR* 3.5 36.3 - - + +
64A ILE* 4.2 11.0 - - + -
67A ARG* 3.6 34.1 - - + -
129A ALA 3.1 12.9 + - - +
130A THR* 3.2 9.4 + - - +
132A ASP* 1.3 78.8 + - - +
134A PHE* 1.3 74.2 + - + +
136A GLY* 3.4 2.3 + - - -
137A LEU* 3.0 41.3 + - + +
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Residues in contact with PHE 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A LEU* 3.8 35.2 - - + -
20A GLN* 3.9 29.8 - - + -
24A TRP* 5.5 0.7 - - - -
64A ILE* 4.0 21.3 - - + -
115A SER* 3.7 39.7 - - - +
118A VAL* 3.7 15.0 - - + -
119A ILE* 4.1 5.4 - - + -
130A THR* 3.4 17.9 - - + +
131A ALA* 3.1 7.1 + - - +
133A LEU* 1.3 89.0 - - + +
135A VAL* 1.4 64.6 + - - +
137A LEU* 3.2 21.6 + - + +
138A ILE* 3.0 30.1 + - - +
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Residues in contact with VAL 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119A ILE* 3.7 22.6 - - + +
131A ALA* 2.9 23.6 + - + +
132A ASP* 3.2 13.2 + - - +
134A PHE* 1.4 77.2 - - - +
136A GLY* 1.3 61.8 + - - +
138A ILE* 3.3 7.1 + - - +
139A GLU* 3.2 24.8 + - - +
128C ASN* 3.8 23.8 - - + +
129C ALA* 4.0 5.6 - - - +
132C ASP* 3.6 36.1 - - + -
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Residues in contact with GLY 136 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
132A ASP* 3.1 10.8 + - - -
133A LEU 3.7 3.8 - - - -
135A VAL* 1.3 78.7 - - - +
137A LEU* 1.3 65.5 + - - +
139A GLU* 3.4 19.6 + - - +
140A GLU* 3.2 21.0 + - - +
132C ASP* 5.3 1.3 - - - -
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Residues in contact with LEU 137 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A TRP* 4.3 16.4 - - + +
56A HIS* 4.4 11.9 - - + +
60A THR* 3.6 42.6 - - + +
63A THR* 6.4 0.2 - - + -
64A ILE* 4.2 6.5 - - + -
111A ILE* 5.9 0.2 - - + -
115A SER* 5.0 6.1 - - - +
133A LEU* 3.0 30.6 + - + +
134A PHE* 3.2 37.6 + - + +
136A GLY* 1.3 77.3 - - - +
138A ILE* 1.3 57.4 + - - +
140A GLU* 3.2 4.7 + - + +
141A VAL* 2.9 35.7 + - + +
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Residues in contact with ILE 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A SER* 3.8 11.0 - - - +
115A SER* 3.8 21.5 - - - -
116A LYS* 3.5 28.7 - - + -
119A ILE* 3.5 32.1 - - + -
134A PHE 3.0 11.7 + - - +
135A VAL* 3.3 8.3 + - - +
137A LEU* 1.3 74.0 - - - +
139A GLU* 1.3 57.8 + - - +
141A VAL* 4.2 7.6 - - - -
142A GLU* 2.8 64.2 + - - +
67C ARG* 4.9 0.4 - - - +
128C ASN* 5.9 1.8 - - + -
129C ALA* 3.9 16.4 - - + +
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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
----------------------------------------------------------
135A VAL* 3.2 14.2 + - - +
136A GLY* 3.5 15.5 - - - +
138A ILE* 1.3 78.1 - - - +
140A GLU* 1.3 63.1 + - - +
142A GLU* 4.0 1.2 - - - +
143A LYS* 3.1 22.5 + - - +
67C ARG* 4.5 12.6 + - - +
129C ALA* 3.2 24.8 - - + +
132C ASP* 2.5 42.1 - - - +
133C LEU* 4.2 5.7 + - - -
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Residues in contact with GLU 140 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A LEU* 5.8 0.3 - - - +
56A HIS* 3.5 38.8 - - + +
136A GLY 3.2 7.2 + - - +
137A LEU* 3.2 10.3 + - + +
139A GLU* 1.3 81.3 - - - +
141A VAL* 1.3 61.6 + - - +
143A LYS* 3.3 23.3 + - - +
144A GLN* 2.8 52.7 + - + +
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Residues in contact with VAL 141 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A TRP* 3.8 35.9 - - + -
56A HIS* 5.0 3.6 - - + -
108A TYR* 3.8 42.5 - - + +
111A ILE* 4.5 4.9 - - + -
112A SER* 3.8 20.2 - - - +
137A LEU* 2.9 25.0 + - + +
138A ILE* 3.7 9.2 - - - +
140A GLU* 1.3 72.7 - - - +
142A GLU* 1.3 62.1 + - - +
144A GLN* 3.3 5.7 + - - +
145A VAL* 2.9 30.9 + - + +
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Residues in contact with GLU 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
112A SER* 2.8 21.4 + - - +
116A LYS* 2.7 31.3 + - - -
138A ILE* 2.8 26.6 + - - +
139A GLU 4.2 0.2 - - - +
141A VAL* 1.3 75.2 - - - +
143A LYS* 1.3 63.6 + - - +
145A VAL* 3.8 10.2 - - + +
146A TRP* 3.2 16.5 + - - +
67C ARG* 3.0 38.0 + - - +
70C ALA* 3.6 25.2 - - + +
71C ILE* 4.7 2.3 - - - +
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Residues in contact with LYS 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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139A GLU 3.1 15.1 + - - +
140A GLU* 3.4 24.7 + - - +
142A GLU* 1.3 73.6 - - - +
144A GLN* 1.3 81.7 + - - +
146A TRP* 3.1 11.5 + - + +
147A MET* 3.0 42.7 + - + +
66C GLU* 4.3 22.8 + - + +
70C ALA* 4.3 9.4 - - - +
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Residues in contact with GLN 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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49A LYS* 2.7 38.1 + - - +
53A LEU* 3.8 19.7 - - + +
56A HIS* 6.2 1.6 - - + +
108A TYR* 4.3 21.8 - - + -
140A GLU* 2.8 39.7 + - + +
141A VAL* 3.8 7.4 - - - +
143A LYS* 1.3 90.7 - - - +
145A VAL* 1.3 60.2 + - - +
147A MET* 3.9 8.4 - - - +
148A LEU* 2.9 39.1 + - + +
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Residues in contact with VAL 145 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A VAL* 4.3 8.5 - - + +
108A TYR* 3.5 26.5 - - + +
109A LYS* 3.3 50.3 - - + +
112A SER* 6.2 0.2 - - - -
141A VAL* 2.9 23.5 + - + +
142A GLU* 3.8 11.4 - - + +
143A LYS 3.3 0.2 - - - -
144A GLN* 1.3 74.6 - - - +
146A TRP* 1.3 58.7 + - - +
148A LEU* 4.2 5.1 - - - +
149A SER* 2.8 41.7 + - - +
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Residues in contact with TRP 146 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
142A GLU 3.2 12.2 + - - +
143A LYS* 3.1 15.3 + - + +
145A VAL* 1.3 76.3 - - - +
147A MET* 1.3 84.2 + - + +
149A SER* 3.9 5.4 - - - -
150A SER* 2.7 48.6 + - - -
66C GLU* 3.9 32.5 - - + -
69C LEU* 3.7 47.0 - - + +
70C ALA* 4.1 14.4 - - + -
35D HIS 4.5 0.9 - - - -
36D TRP* 3.5 23.6 + - - -
38D VAL 5.5 0.2 - - - -
43D PHE* 3.9 17.0 - + - -
47D HIS* 3.8 23.6 - + - -
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Residues in contact with MET 147 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A LYS* 3.9 11.7 - - - +
143A LYS* 3.0 39.5 + - + +
144A GLN* 3.8 25.1 - - - +
146A TRP* 1.3 92.3 - - + +
148A LEU* 1.3 58.2 + - + +
150A SER* 3.2 3.8 + - - -
151A TYR* 2.9 27.9 + - - +
66C GLU* 5.3 0.2 - - - +
43D PHE* 3.7 26.8 - - + -
44D PHE* 4.0 16.7 - - + -
47D HIS* 3.6 36.8 - - + +
48D GLU* 5.9 1.8 - - - +
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Residues in contact with LEU 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A LEU* 5.7 0.4 - - + -
49A LYS* 5.0 5.2 - - + -
50A PHE* 5.3 2.2 - - + -
53A LEU* 4.5 10.1 - - + -
101A VAL* 3.6 24.0 - - + +
104A LEU* 4.1 23.3 - - + -
105A VAL* 3.6 20.4 - - + -
108A TYR* 3.9 32.5 - - + -
144A GLN* 2.9 27.3 + - + +
145A VAL* 4.2 0.7 - - - +
147A MET* 1.3 79.7 - - + +
149A SER* 1.3 59.1 + - - +
151A TYR* 3.3 8.8 + - - +
152A LEU* 3.3 24.3 + - - +
44D PHE* 3.9 22.7 - - + -
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Residues in contact with SER 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105A VAL* 4.0 16.3 - - - +
109A LYS* 4.4 6.7 + - - -
145A VAL* 2.8 39.3 + - - +
146A TRP* 3.9 5.4 - - - -
148A LEU* 1.3 70.3 - - - +
150A SER* 1.4 61.8 + - - +
152A LEU* 3.2 11.8 + - - +
153A GLY* 3.1 19.1 + - - -
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Residues in contact with SER 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146A TRP* 2.7 46.7 + - - -
147A MET 3.2 4.7 + - - -
149A SER* 1.4 72.4 - - - +
151A TYR* 1.4 62.5 + - - +
153A GLY* 3.1 8.0 + - - +
38D VAL 4.2 7.5 + - - -
39D LYS* 3.7 6.9 - - - -
40D GLY 2.8 26.5 + - - -
43D PHE* 3.6 26.2 - - - -
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Residues in contact with TYR 151 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A HIS* 3.3 29.2 - + + -
45A THR* 5.8 1.3 - - + -
46A LEU* 3.6 29.3 - - + +
97A ALA* 3.9 7.3 - - - +
98A SER* 4.3 10.4 + - - -
101A VAL* 4.0 17.9 - - + -
147A MET 2.9 15.9 + - - +
148A LEU* 3.3 10.5 + - - +
150A SER* 1.4 71.6 - - - +
152A LEU* 1.3 80.9 + - + +
40D GLY* 3.1 28.3 - - - -
41D PRO* 3.1 41.9 - - + +
43D PHE* 4.0 4.3 - - + +
44D PHE* 3.9 29.8 - + + -
1154D PO4 5.6 0.4 - - - -
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Residues in contact with LEU 152 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98A SER* 3.7 40.8 - - - +
101A VAL* 3.7 20.6 - - + -
102A GLN* 3.5 37.5 - - + +
105A VAL* 4.3 7.9 - - + -
148A LEU 3.3 10.5 + - - +
149A SER* 3.2 11.6 + - - +
150A SER 3.2 0.4 - - - -
151A TYR* 1.3 89.1 - - + +
153A GLY* 1.3 63.1 + - - +
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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