Contacts of the helix formed by residues 123 - 143 (chain A) in PDB entry 3HEG
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 THR 123 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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121A LYS 4.1 0.6 - - - -
122A LEU* 1.3 77.6 - - - +
124A ASP* 1.3 75.7 + - + +
125A ASP* 2.9 27.6 - - + +
126A HIS* 3.2 25.5 + - + +
127A VAL* 3.2 23.9 + - - +
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Residues in contact with ASP 124 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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123A THR* 1.3 75.0 - - + +
125A ASP* 1.3 57.8 + - - +
126A HIS 3.3 0.2 - - - -
127A VAL* 3.9 7.0 - - - -
128A GLN* 2.4 62.9 + - - +
217A LEU* 4.3 8.7 - - + +
278A ASN* 3.3 32.8 + - - +
307A TYR* 2.8 23.9 + - - -
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Residues in contact with ASP 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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123A THR* 2.9 16.9 - - + +
124A ASP* 1.3 76.8 + - - +
126A HIS* 1.3 72.1 + - + +
128A GLN* 3.4 14.3 - - - +
129A PHE* 3.0 26.9 + - - +
310A GLN* 5.5 2.1 - - - +
311A TYR* 2.6 31.5 + - - -
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Residues in contact with HIS 126 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120A GLN* 4.4 17.8 + - - -
121A LYS 5.0 0.4 - - - -
122A LEU* 3.8 28.5 - - + -
123A THR* 3.2 38.0 + - + +
125A ASP* 1.3 85.2 + - - +
127A VAL* 1.3 59.0 + - - +
129A PHE* 3.2 5.3 + - - +
130A LEU* 2.8 42.5 + - + +
162A CYS* 5.4 16.7 - - + +
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Residues in contact with VAL 127 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
122A LEU* 4.4 7.6 - - + +
123A THR 3.2 18.1 + - - +
124A ASP* 3.9 2.2 - - - +
125A ASP 3.4 0.2 - - - -
126A HIS* 1.3 73.5 - - - +
128A GLN* 1.3 63.4 + - - +
131A ILE* 3.0 44.4 + - + +
213A MET* 4.1 8.3 - - + -
216A LEU* 4.1 37.9 - - + +
217A LEU* 3.8 32.5 - - + -
307A TYR* 3.4 20.0 - - + +
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Residues in contact with GLN 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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124A ASP* 2.4 50.3 + - - +
125A ASP* 3.4 16.9 - - - +
127A VAL* 1.3 77.0 - - - +
129A PHE* 1.3 52.9 + - - +
132A TYR* 2.9 35.4 + - - +
278A ASN* 4.6 4.0 - - - +
307A TYR* 3.5 46.8 + - + +
308A PHE* 3.4 5.7 - - - -
310A GLN* 4.0 18.2 - - - +
311A TYR* 3.8 20.3 - - + -
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Residues in contact with PHE 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 ASP* 3.0 17.5 + - - +
126A HIS* 3.8 6.1 - - - +
128A GLN* 1.3 75.1 - - - +
130A LEU* 1.3 64.1 + - + +
132A TYR* 3.5 6.8 + + - +
133A GLN* 3.1 59.1 + - + +
161A ASP 4.1 8.3 - - - -
162A CYS* 3.3 35.4 - - + -
163A GLU* 4.3 9.0 - - + -
311A TYR* 3.4 42.8 - + - +
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Residues in contact with LEU 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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113A LEU* 4.3 16.6 - - + -
116A ILE* 5.0 1.8 - - + -
122A LEU* 4.1 18.6 - - + -
126A HIS* 2.8 34.4 + - + +
129A PHE* 1.3 74.0 - - + +
131A ILE* 1.3 58.3 + - - +
133A GLN* 3.4 5.9 + - - +
134A ILE* 3.1 32.3 + - + +
158A VAL* 4.1 17.9 - - + -
162A CYS* 3.5 37.9 - - + +
164A LEU* 3.6 14.9 - - + +
216A LEU* 4.0 26.0 - - + -
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Residues in contact with ILE 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 VAL* 3.0 22.5 + - + +
130A LEU* 1.3 71.1 - - - +
132A TYR* 1.3 65.7 + - - +
134A ILE* 3.8 22.3 - - + +
135A LEU* 3.0 27.3 + - + +
209A VAL* 3.8 23.1 - - + +
212A ILE* 4.2 3.4 - - + -
213A MET* 3.0 66.9 - - + +
216A LEU* 3.8 14.8 - - + -
288A MET* 4.7 0.4 - - + -
308A PHE* 3.7 9.9 - - + -
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Residues in contact with TYR 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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128A GLN 2.9 25.8 + - - +
129A PHE* 3.5 11.2 - + - +
131A ILE* 1.3 71.6 - - - +
133A GLN* 1.3 69.0 + - + +
135A LEU* 4.9 1.6 - - - -
136A ARG* 2.9 51.0 + - + +
303A LEU* 3.8 16.7 - - + +
308A PHE* 3.4 26.9 - + + -
311A TYR* 3.5 38.5 + + + -
312A HIS* 3.8 14.4 - - + -
313A ASP* 3.8 2.6 + - - +
316A ASP 4.3 1.6 + - - -
317A GLU* 2.3 40.5 + - - +
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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
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82A ASN* 3.4 37.8 + - - +
129A PHE* 3.1 48.8 + - + +
130A LEU* 3.7 5.5 - - - +
131A ILE 3.2 0.4 - - - -
132A TYR* 1.3 82.1 - - + +
134A ILE* 1.3 68.1 + - - +
136A ARG* 4.5 0.4 - - - +
137A GLY* 3.0 18.5 + - - -
162A CYS 2.9 25.7 + - - -
163A GLU* 3.4 9.5 - - - +
164A LEU* 3.0 34.7 + - + +
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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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113A LEU* 5.4 1.8 - - + -
130A LEU* 3.1 17.9 + - + +
131A ILE* 3.8 29.2 - - + +
132A TYR 3.4 0.2 - - - -
133A GLN* 1.3 75.4 - - - +
135A LEU* 1.3 57.1 + - - +
138A LEU* 2.9 29.1 + - + +
151A LEU* 4.7 5.6 - - + -
156A LEU* 3.7 28.7 - - + -
164A LEU* 3.5 25.5 - - + +
166A ILE* 3.3 17.8 - - + +
209A VAL* 3.8 29.8 - - + -
212A ILE* 4.4 10.8 - - + -
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Residues in contact with LEU 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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131A ILE* 3.0 22.5 + - + +
132A TYR 5.1 0.2 - - - +
134A ILE* 1.3 75.1 - - - +
136A ARG* 1.3 58.8 + - - +
138A LEU* 3.7 4.3 - - + +
139A LYS* 2.8 30.7 + - - +
206A ILE* 3.6 31.0 - - + -
209A VAL* 3.9 23.1 - - + -
288A MET* 3.9 12.1 - - + -
299A ALA* 3.8 10.2 - - + +
302A ALA* 3.6 25.4 - - + -
303A LEU* 3.4 19.1 - - + +
308A PHE* 3.6 26.2 - - + -
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Residues in contact with ARG 136 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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80A HIS* 3.5 18.6 + - + +
81A GLU* 3.5 33.7 + - - +
82A ASN* 2.8 35.4 + - - +
132A TYR* 2.9 43.7 + - + +
133A GLN* 3.9 1.3 - - - +
134A ILE 3.4 0.2 - - - -
135A LEU* 1.3 75.9 - - - +
137A GLY* 1.3 62.3 + - - +
139A LYS* 3.4 2.8 + - - +
140A TYR 3.4 15.1 + - - -
303A LEU* 3.5 15.0 - - + +
316A ASP* 2.7 49.1 + - - -
317A GLU* 4.0 16.4 - - + +
318A PRO* 3.8 12.0 - - - +
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Residues in contact with GLY 137 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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80A HIS* 3.7 14.4 + - - -
82A ASN* 3.8 8.7 - - - +
83A VAL* 3.7 16.6 - - - +
133A GLN 3.0 11.3 + - - -
134A ILE 3.8 2.7 - - - -
136A ARG* 1.3 76.5 - - - +
138A LEU* 1.3 62.0 + - - +
140A TYR* 3.2 5.5 + - - +
141A ILE* 3.0 25.2 + - - +
166A ILE* 3.9 9.2 - - - -
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Residues in contact with LEU 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 ILE* 2.9 16.6 + - + +
135A LEU* 3.7 8.1 - - + +
137A GLY* 1.3 73.2 - - - +
139A LYS* 1.3 67.2 + - - +
141A ILE* 4.3 10.8 - - + +
142A HIS* 2.8 47.3 + - + +
148A HIS* 4.6 6.1 - - + -
151A LEU* 3.8 25.6 - - + -
166A ILE* 3.6 14.4 - - + +
205A ASP* 4.1 23.1 - - + +
206A ILE* 4.4 10.1 - - + -
209A VAL* 3.5 32.1 - - + -
299A ALA* 4.2 5.4 - - + -
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Residues in contact with LYS 139 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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135A LEU 2.8 20.9 + - - +
136A ARG 3.6 6.5 - - - +
138A LEU* 1.3 75.2 - - - +
140A TYR* 1.3 62.7 + - - +
142A HIS* 4.0 3.5 - - - +
143A SER* 3.2 22.5 + - - -
299A ALA* 3.8 11.6 - - + +
300A ALA* 3.9 31.2 - - + +
303A LEU* 3.8 21.5 - - + -
314A PRO 5.3 4.0 + - - -
317A GLU* 2.8 39.8 + - + +
318A PRO 4.6 2.0 - - - +
319A VAL* 3.9 20.0 - - + +
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Residues in contact with TYR 140 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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77A HIS* 3.0 14.2 + - - -
78A MET* 3.8 25.7 - - + +
79A LYS* 2.9 41.4 + - - +
80A HIS* 3.4 42.2 - - + +
83A VAL* 4.1 10.1 - - + -
136A ARG 3.4 1.4 + - - -
137A GLY 3.2 7.6 + - - +
138A LEU 3.1 0.6 - - - -
139A LYS* 1.3 81.0 - - - +
141A ILE* 1.3 64.4 + - + +
143A SER* 2.6 22.8 + - - -
144A ALA 3.6 0.3 + - - -
318A PRO* 3.8 11.8 + - + +
319A VAL 3.6 8.5 - - - -
320A ALA* 3.3 47.5 - - + +
321A ASP 4.9 1.3 + - - -
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Residues in contact with ILE 141 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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1A BAX 3.6 37.9 - - + -
78A MET* 4.1 10.8 - - - -
83A VAL* 3.6 21.5 - - + -
137A GLY 3.0 23.8 + - - +
138A LEU* 3.1 11.2 + - + +
140A TYR* 1.3 73.5 - - + +
142A HIS* 1.3 71.8 + - + +
144A ALA* 3.0 18.8 + - - +
146A ILE* 3.3 44.4 + - + +
147A ILE 4.7 0.2 - - - +
148A HIS* 4.8 6.1 - - + +
166A ILE* 4.1 15.3 - - + -
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Residues in contact with HIS 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 LEU* 2.8 34.5 + - + +
139A LYS* 4.0 4.5 - - - +
141A ILE* 1.3 80.6 - - + +
143A SER* 1.3 56.7 + - - +
144A ALA 3.1 0.2 - - - -
145A ASP* 3.0 11.1 + - - -
146A ILE 3.3 20.4 - - - -
147A ILE* 4.5 0.4 - - - -
202A GLN* 2.7 70.7 + - + +
203A THR* 6.1 0.4 - - + +
205A ASP* 2.8 33.8 + - + +
206A ILE* 4.8 8.5 - - + -
298A THR* 6.3 0.2 - - - -
299A ALA* 4.4 12.2 + - + +
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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
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139A LYS 3.2 14.5 + - - -
140A TYR 2.6 19.8 + - - -
141A ILE 3.1 0.4 - - - -
142A HIS* 1.3 73.7 - - - +
144A ALA* 1.3 57.2 + - - +
145A ASP 3.1 5.1 + - - -
319A VAL* 3.6 21.1 - - - +
320A ALA* 3.0 28.2 + - - +
321A ASP 5.2 0.3 - - - +
322A PRO* 5.9 1.6 - - - +
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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