Contacts of the helix formed by residues 115 - 143 (chain A) in PDB entry 2G7S
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 115 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A TYR* 3.4 44.2 - - + +
51A SER* 3.6 23.3 - - - -
113A VAL 4.2 2.0 - - - +
114A LEU* 1.3 89.9 - - + +
116A GLU* 1.3 66.1 + - - +
117A THR* 4.0 6.1 - - - +
118A VAL* 3.0 22.9 + - + +
119A VAL* 3.0 11.1 + - - +
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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
----------------------------------------------------------
114A LEU 3.4 3.7 + - - +
115A PRO* 1.3 71.8 - - - +
117A THR* 1.3 65.2 + - + +
119A VAL* 3.2 10.5 + - - +
120A LEU* 3.0 28.4 + - + +
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Residues in contact with THR 117 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51A SER* 4.2 8.7 + - - -
55A CYS* 3.4 25.6 - - - -
115A PRO* 4.0 10.9 - - - +
116A GLU* 1.3 79.9 - - + +
118A VAL* 1.3 61.5 + - - +
120A LEU* 3.4 25.1 + - + +
121A GLU* 3.5 12.0 + - - +
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Residues in contact with VAL 118 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A TYR* 4.4 0.9 - - + -
51A SER* 3.8 23.3 - - - +
54A VAL* 3.9 30.5 - - + -
55A CYS* 3.8 9.4 - - - +
58A VAL* 4.8 4.0 - - + -
107A LEU* 4.3 4.5 - - + -
114A LEU* 4.1 22.9 - - + -
115A PRO* 3.0 33.0 + - + +
117A THR* 1.3 73.7 - - - +
119A VAL* 1.3 68.4 + - - +
121A GLU* 3.0 6.8 + - - +
122A VAL* 3.0 29.1 + - + +
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Residues in contact with VAL 119 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A ILE* 3.8 30.3 - - + +
114A LEU* 3.7 24.2 - - + +
115A PRO 3.0 14.4 + - - +
116A GLU* 3.2 12.1 + - - +
118A VAL* 1.3 77.4 - - - +
120A LEU* 1.4 63.2 + - + +
122A VAL* 3.2 6.5 + - - +
123A ARG* 2.9 64.8 + - + +
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Residues in contact with LEU 120 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
116A GLU* 3.0 22.3 + - + +
117A THR* 3.5 19.1 - - + +
118A VAL 3.2 0.4 - - - -
119A VAL* 1.4 78.7 - - + +
121A GLU* 1.3 63.6 + - + +
123A ARG* 3.5 7.0 + - - +
124A ALA* 3.0 24.8 + - - +
127A ARG* 4.9 1.9 + - - -
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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
----------------------------------------------------------
55A CYS* 4.2 23.2 - - - +
58A VAL* 3.6 18.4 - - + -
59A SER* 3.6 31.8 + - - -
62A ARG* 3.3 36.6 + - - +
117A THR 3.5 11.6 + - - +
118A VAL* 3.0 9.0 + - - +
120A LEU* 1.3 75.5 - - + +
122A VAL* 1.3 65.8 + - - +
124A ALA* 3.3 2.1 + - - +
125A HIS 3.1 17.0 + - - -
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Residues in contact with VAL 122 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A VAL* 4.7 2.7 - - + -
104A CYS* 3.5 34.8 - - - +
107A LEU* 3.7 34.3 - - + -
108A ALA* 3.9 21.1 - - + +
111A ILE* 4.3 9.4 - - + -
114A LEU* 4.7 2.2 - - + -
118A VAL* 3.0 23.3 + - + +
119A VAL* 3.2 9.4 + - - +
121A GLU* 1.3 78.1 - - - +
123A ARG* 1.3 62.8 + - - +
125A HIS* 3.1 12.5 + - - +
126A PHE* 3.2 18.3 + - + -
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Residues in contact with ARG 123 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111A ILE* 3.8 32.1 - - + +
119A VAL* 2.9 42.9 + - + +
120A LEU* 4.1 7.0 - - - +
122A VAL* 1.3 76.2 - - - +
124A ALA* 1.3 62.1 + - - +
126A PHE* 3.1 10.2 + - - +
127A ARG* 3.0 37.3 + - + +
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Residues in contact with ALA 124 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ARG* 3.0 36.4 + - - +
120A LEU 3.0 17.3 + - - +
121A GLU* 3.6 0.9 - - - +
122A VAL 3.2 0.2 - - - -
123A ARG* 1.3 77.5 - - - +
125A HIS* 1.3 60.9 + - - +
127A ARG* 3.6 27.2 + - - +
128A SER* 3.0 26.7 + - - -
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Residues in contact with HIS 125 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A TYR* 4.2 15.8 - + - -
62A ARG* 3.4 26.6 - - - +
65A ALA* 4.4 15.1 - - + +
66A GLU* 6.1 1.8 - - - +
102A CYS* 3.9 14.6 - - - -
104A CYS* 3.5 35.2 - - + -
121A GLU 3.1 4.8 + - - -
122A VAL 3.1 10.1 + - - +
124A ALA* 1.3 75.6 - - - +
126A PHE* 1.3 78.8 + + - +
128A SER* 3.7 2.8 - - - -
129A LEU* 2.9 50.6 + - + +
164A HIS* 4.9 3.2 + - - -
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Residues in contact with PHE 126 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
104A CYS* 3.7 18.8 - - + -
105A ALA* 4.1 6.3 - - - -
108A ALA* 3.5 32.5 - - + -
122A VAL* 3.2 18.3 + - + -
123A ARG* 3.1 11.7 + - - +
125A HIS* 1.3 87.8 - + - +
127A ARG* 1.3 64.4 + - + +
130A SER* 3.0 25.8 + - - -
160A MSE 3.5 29.6 - - + +
164A HIS* 3.6 31.0 - + - -
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Residues in contact with ARG 127 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ARG* 5.5 0.6 - - - +
120A LEU 4.9 1.8 + - - -
123A ARG* 3.0 22.0 + - + +
124A ALA* 3.6 38.0 + - - +
126A PHE* 1.3 78.1 - - + +
128A SER* 1.3 57.5 + - - +
130A SER* 3.4 5.4 + - - -
131A ASP* 2.9 40.6 + - - +
153A ARG* 5.7 0.2 - - - +
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Residues in contact with SER 128 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ARG* 4.2 10.3 - - - -
66A GLU* 3.3 30.1 + - - +
124A ALA 3.0 20.0 + - - -
125A HIS* 3.8 4.9 - - - -
127A ARG* 1.3 74.3 - - - +
129A LEU* 1.3 59.7 + - - +
131A ASP* 3.1 11.9 + - - +
132A TRP* 2.9 28.2 + - - +
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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
----------------------------------------------------------
69A ILE* 4.5 12.6 - - + -
86A TYR* 3.5 37.7 - - + +
125A HIS* 2.9 45.4 + - + +
128A SER* 1.3 71.6 + - - +
130A SER* 1.3 62.8 + - - +
132A TRP* 3.2 13.0 + - + +
133A LEU* 2.9 40.7 + - + +
160A MSE 3.7 29.6 - - + -
163A VAL* 5.9 0.2 - - + -
164A HIS* 4.2 8.7 - - - +
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Residues in contact with SER 130 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126A PHE 3.0 19.9 + - - -
127A ARG* 3.5 5.8 - - - -
129A LEU* 1.3 76.5 - - - +
131A ASP* 1.3 57.7 + - - +
133A LEU* 3.4 6.2 + - - -
134A THR* 2.7 34.8 + - - -
153A ARG* 2.8 25.5 + - - -
156A ALA* 3.7 6.5 - - - +
157A GLU* 2.7 31.4 + - - +
160A MSE 3.9 11.6 - - - -
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Residues in contact with ASP 131 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
127A ARG* 2.9 27.8 + - - +
128A SER* 3.1 11.5 + - - +
130A SER* 1.3 75.8 - - - +
132A TRP* 1.3 63.2 + - - +
134A THR* 3.4 4.5 + - - -
135A ALA* 3.0 24.1 + - - +
153A ARG* 2.9 34.1 + - - +
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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
----------------------------------------------------------
69A ILE* 3.5 61.7 + - + -
70A ALA* 5.4 0.7 - - - -
72A LEU* 4.5 4.9 - - + -
73A GLU* 2.9 33.3 + - + -
82A GLN* 4.3 27.4 - - + -
83A LEU* 4.7 2.0 - - + -
86A TYR* 4.2 22.9 - + + -
128A SER 2.9 12.4 + - - +
129A LEU* 3.7 9.2 - - + +
131A ASP* 1.3 74.6 - - - +
133A LEU* 1.3 101.0 + - + +
135A ALA* 3.1 9.3 + - + +
136A VAL* 2.9 48.4 + - + +
139A ARG* 5.5 0.4 - - - -
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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
----------------------------------------------------------
83A LEU* 3.7 20.1 - - + +
86A TYR* 4.5 7.2 - - + +
129A LEU* 2.9 32.2 + - + +
130A SER* 4.7 0.7 - - - -
132A TRP* 1.3 97.8 - - + +
134A THR* 1.3 57.3 + - - +
136A VAL* 3.3 3.7 + - - +
137A LEU* 2.9 36.4 + - + +
156A ALA* 3.8 33.2 - - + +
159A PHE* 3.6 33.2 - - + -
160A MSE 3.9 18.8 - - + -
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Residues in contact with THR 134 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
130A SER 2.7 23.7 + - - -
131A ASP* 3.6 5.8 - - - +
133A LEU* 1.3 77.6 - - - +
135A ALA* 1.3 58.0 + - - +
137A LEU* 3.3 3.0 + - - +
138A GLU* 2.9 53.8 + - - +
152A ALA* 3.8 4.4 - - + +
153A ARG* 3.4 49.8 + - + +
156A ALA* 3.2 17.9 - - - +
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Residues in contact with ALA 135 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
131A ASP 3.0 17.8 + - - +
132A TRP* 3.1 7.2 + - + +
134A THR* 1.3 75.3 - - - +
136A VAL* 1.3 64.5 + - - +
138A GLU* 3.3 15.2 + - - +
139A ARG* 2.9 43.9 + - - +
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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
----------------------------------------------------------
79A PRO* 3.3 33.6 - - + +
82A GLN* 3.7 10.8 - - + +
83A LEU* 3.6 23.3 - - + -
132A TRP* 2.9 47.5 + - + +
133A LEU 3.7 5.6 - - - +
135A ALA* 1.3 75.5 - - - +
137A LEU* 1.4 59.0 + - - +
139A ARG* 3.2 25.2 + - - +
140A GLY 2.9 24.1 + - - -
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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
----------------------------------------------------------
83A LEU* 3.9 15.7 - - + -
133A LEU* 2.9 23.2 + - + +
134A THR 3.7 3.6 - - - +
136A VAL* 1.4 76.0 - - - +
138A GLU* 1.3 62.7 + - - +
140A GLY* 3.1 2.1 + - - -
141A ILE* 2.9 26.7 + - - +
146A LEU* 3.7 24.0 - - + +
148A LEU* 4.2 14.5 - - + +
152A ALA* 3.5 19.3 - - + +
155A ASN* 3.9 10.8 - - + +
156A ALA* 3.5 33.2 - - - +
159A PHE* 5.6 2.5 - - + -
186A MSE 5.0 4.3 - - + -
190A ILE* 3.9 20.4 - - + -
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Residues in contact with GLU 138 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134A THR* 2.9 32.6 + - - +
135A ALA* 3.5 21.5 + - - +
137A LEU* 1.3 78.3 - - - +
139A ARG* 1.4 59.0 + - + +
141A ILE* 3.2 9.0 + - - +
142A ALA* 2.8 28.5 + - - +
152A ALA* 3.5 18.0 - - + +
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Residues in contact with ARG 139 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A GLU* 3.5 35.0 + - - +
79A PRO* 3.7 12.7 - - + +
82A GLN* 2.7 33.1 + - - +
132A TRP* 5.8 0.4 - - - -
135A ALA* 2.9 45.4 + - - +
136A VAL* 3.4 20.3 - - - +
138A GLU* 1.4 76.0 - - + +
140A GLY* 1.3 57.6 + - - +
142A ALA* 4.2 7.0 - - - -
143A GLN* 2.9 46.9 + - - +
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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
----------------------------------------------------------
79A PRO* 3.5 20.1 - - - +
136A VAL 2.9 11.9 + - - -
137A LEU 3.1 3.8 + - - -
139A ARG* 1.3 77.6 - - - +
141A ILE* 1.3 59.6 + - - +
143A GLN 3.5 0.3 + - - -
144A GLY 3.2 2.6 + - - -
145A ARG* 2.8 33.4 + - - -
146A LEU* 3.4 20.8 + - - -
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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
----------------------------------------------------------
137A LEU 2.9 17.9 + - - +
138A GLU* 3.5 9.4 - - - +
140A GLY* 1.3 75.2 - - - +
142A ALA* 1.3 68.0 + - - +
144A GLY* 3.0 13.9 + - - -
146A LEU* 3.4 23.8 - - + +
147A VAL* 4.4 0.7 - - - -
148A LEU* 4.1 37.7 - - + +
152A ALA* 5.9 1.6 - - + -
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Residues in contact with ALA 142 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
138A GLU 2.8 19.8 + - - +
139A ARG* 3.2 9.4 + - + +
141A ILE* 1.3 76.1 - - - +
143A GLN* 1.3 61.1 + - + +
144A GLY 3.4 0.6 + - - -
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Residues in contact with GLN 143 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77A SER 4.1 9.2 + - - +
78A ASP* 4.8 0.9 - - - -
79A PRO* 3.2 29.5 - - - +
139A ARG* 2.9 35.2 + - - +
140A GLY 4.1 0.2 - - - +
142A ALA* 1.3 81.0 - - + +
144A GLY* 1.3 61.9 + - - +
145A ARG* 3.2 22.7 + - + +
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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