Contacts of the helix formed by residues 151 - 173 (chain A) in PDB entry 5EN4
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 ALA 151 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93A HIS* 3.9 12.6 - - + +
97A GLN* 3.9 4.2 + - - +
148A GLN* 3.4 29.3 + - + +
149A ALA 3.2 7.3 - - - +
150A GLN* 1.3 80.9 - - - +
152A VAL* 1.3 69.8 + - - +
153A PRO* 3.4 5.4 - - - -
154A TYR* 3.2 6.3 + - + +
155A VAL* 2.9 30.8 + - + +
302A 5Q6 3.8 3.8 - - - +
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Residues in contact with VAL 152 (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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97A GLN 5.0 2.2 + - - +
99A PRO* 4.7 23.6 - - + -
102A THR* 5.2 7.6 - - + +
107A PHE* 4.4 14.4 - - + -
148A GLN 5.2 1.3 + - - +
150A GLN* 6.3 0.2 - - - -
151A ALA* 1.3 76.0 - - - +
153A PRO* 1.3 80.5 - - + +
155A VAL* 3.9 4.1 - - - +
156A ALA* 3.0 23.7 + - + +
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Residues in contact with PRO 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97A GLN* 3.7 25.1 - - - +
102A THR* 3.9 22.0 - - + -
106A GLY 5.4 0.9 - - - +
107A PHE* 3.8 46.4 - - + +
110A LEU* 3.8 15.9 - - + -
151A ALA 3.7 2.2 - - - -
152A VAL* 1.3 95.2 - - + +
154A TYR* 1.3 63.3 + - - +
156A ALA* 3.3 3.6 + - - +
157A THR* 3.0 26.7 + - - +
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Residues in contact with TYR 154 (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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92A HIS 3.3 27.8 - - - -
93A HIS* 3.3 43.5 - + + +
94A PRO* 4.3 7.9 - - + -
97A GLN* 5.4 1.0 - - - +
110A LEU* 3.6 12.2 - - + +
114A ASN* 3.7 11.7 - - - -
141A SER* 3.8 0.2 - - - -
143A VAL* 3.6 21.1 - - + -
148A GLN* 4.1 1.6 - - - -
151A ALA* 3.2 10.3 + - + +
153A PRO* 1.3 79.6 - - - +
155A VAL* 1.3 64.0 + - - +
157A THR* 2.8 18.8 + - - -
158A LYS* 3.1 26.3 + - + +
301A NAD 2.7 28.8 + - - -
302A 5Q6 2.5 34.0 + - - -
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Residues in contact with VAL 155 (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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143A VAL* 3.5 31.0 - - + +
144A GLY* 4.1 5.4 - - - +
147A GLY* 4.3 7.9 - - - -
148A GLN* 3.8 37.9 - - + +
151A ALA* 2.9 23.3 + - + +
152A VAL* 3.9 4.5 - - - +
154A TYR* 1.3 77.4 - - - +
156A ALA* 1.3 65.0 + - - +
158A LYS* 3.2 3.0 + - - +
159A GLY* 2.9 21.5 + - - -
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Residues in contact with ALA 156 (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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107A PHE* 3.6 24.5 - - + -
111A LEU* 5.6 2.0 - - + -
152A VAL* 3.0 18.8 + - + +
153A PRO 3.6 4.3 - - - +
155A VAL* 1.3 78.3 - - - +
157A THR* 1.3 62.5 + - - +
159A GLY* 3.4 1.5 + - - -
160A ALA* 3.0 22.9 + - - +
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Residues in contact with THR 157 (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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107A PHE* 4.7 2.5 - - + -
110A LEU* 4.0 27.6 - - + +
111A LEU* 3.9 29.4 - - + +
114A ASN* 3.0 33.6 + - - +
115A LEU* 4.7 2.1 - - - +
153A PRO 3.0 16.0 + - - +
154A TYR* 2.8 16.6 + - - -
156A ALA* 1.3 76.0 - - - +
158A LYS* 1.3 60.4 + - - +
160A ALA* 3.3 8.5 + - - +
161A VAL* 3.1 29.7 + - - +
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Residues in contact with LYS 158 (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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90A ALA 5.4 1.0 + - - -
91A GLY* 5.2 0.6 - - - -
114A ASN* 4.3 17.6 + - + +
139A ILE 3.0 19.2 + - - -
140A SER* 3.1 34.0 + - - +
141A SER* 3.8 17.5 - - - -
144A GLY* 4.2 11.7 - - - +
154A TYR* 3.1 36.7 + - + +
155A VAL* 3.2 3.3 + - - +
157A THR* 1.3 79.7 - - - +
159A GLY* 1.3 64.9 + - - +
161A VAL* 3.2 8.2 + - + +
162A THR* 3.0 21.1 + - - -
301A NAD 2.9 43.6 + - - -
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Residues in contact with GLY 159 (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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144A GLY* 3.9 18.9 - - - -
155A VAL 2.9 14.8 + - - -
156A ALA* 3.8 3.4 - - - -
158A LYS* 1.3 75.7 - - - +
160A ALA* 1.3 62.1 + - - +
162A THR* 3.5 4.3 + - - -
163A ALA* 3.1 24.4 + - - +
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Residues in contact with ALA 160 (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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111A LEU* 5.5 1.3 - - + -
115A LEU* 3.8 29.6 - - + +
156A ALA 3.0 13.2 + - - +
157A THR* 3.4 11.0 - - - +
158A LYS 3.2 0.2 - - - -
159A GLY* 1.3 78.4 - - - +
161A VAL* 1.3 56.8 + - - +
163A ALA* 3.4 4.2 + - - +
164A MET* 2.8 32.6 + - - +
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Residues in contact with VAL 161 (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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114A ASN 3.4 25.4 - - - +
115A LEU* 4.1 13.9 - - + -
118A THR* 5.0 7.9 - - + +
138A ASN* 3.8 29.9 + - + +
139A ILE 4.5 3.8 - - - +
140A SER* 4.0 20.0 - - - +
157A THR 3.1 16.3 + - - +
158A LYS* 3.2 15.2 + - + +
160A ALA* 1.3 75.5 - - - +
162A THR* 1.3 62.3 + - - +
164A MET* 3.4 6.5 + - + +
165A THR* 2.8 29.2 + - - +
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Residues in contact with THR 162 (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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140A SER* 2.8 29.9 + - - -
141A SER 5.0 1.0 + - - -
144A GLY* 5.6 3.3 - - - -
158A LYS 3.0 9.8 + - - -
159A GLY* 4.0 5.6 - - - -
161A VAL* 1.3 76.2 - - - +
163A ALA* 1.3 64.3 - - - +
165A THR* 3.3 20.2 - - - -
166A LYS* 3.5 24.8 + - - +
181A CYS* 4.1 11.5 - - - -
183A SER* 4.1 0.3 + - - -
242A GLU* 3.8 34.2 + - + +
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Residues in contact with ALA 163 (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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159A GLY 3.1 17.7 + - - +
160A ALA* 3.8 4.9 - - - +
162A THR* 1.3 79.1 - - - +
164A MET* 1.3 64.1 + - - +
166A LYS* 3.0 22.8 + - - +
167A ALA* 3.2 12.0 + - - +
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Residues in contact with MET 164 (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 LEU* 3.9 25.1 - - + -
118A THR* 3.8 29.2 - - + -
119A TYR* 4.2 31.9 - - - +
122A THR* 5.9 0.2 - - - +
138A ASN* 5.0 2.9 - - - +
160A ALA 2.8 18.3 + - - +
161A VAL* 3.8 7.2 - - - +
163A ALA* 1.3 75.5 - - - +
165A THR* 1.3 63.0 + - - +
167A ALA* 3.2 9.3 + - + +
168A LEU* 2.9 44.8 + - + +
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Residues in contact with THR 165 (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 ASN* 2.9 21.1 + - - +
161A VAL 2.8 19.3 + - - -
162A THR 3.3 10.5 - - - -
164A MET* 1.3 76.8 - - - +
166A LYS* 1.3 58.5 + - + +
168A LEU* 3.5 0.4 + - - -
169A ALA* 3.0 27.4 + - - +
179A VAL* 3.6 21.7 - - + +
180A ASN* 3.5 32.5 - - - +
181A CYS* 3.7 18.4 - - + +
240A GLY* 4.6 4.5 - - - -
241A ILE 4.4 3.4 - - - +
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Residues in contact with LYS 166 (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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162A THR* 3.7 29.8 - - - +
163A ALA* 3.0 12.4 + - - +
165A THR* 1.3 73.4 - - + +
167A ALA* 1.3 66.0 + - - +
169A ALA* 3.4 7.3 + - - +
170A LEU* 3.2 28.5 + - + +
240A GLY* 3.7 25.4 - - - +
241A ILE 5.8 0.2 - - - -
242A GLU* 5.2 10.9 + - - +
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Residues in contact with ALA 167 (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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163A ALA 3.2 11.8 + - - +
164A MET* 3.6 12.8 - - + +
166A LYS* 1.3 76.4 - - - +
168A LEU* 1.3 62.6 + - + +
170A LEU* 3.2 13.6 + - - +
171A ASP* 3.1 28.4 + - - +
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Residues in contact with LEU 168 (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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119A TYR* 6.3 2.0 - - + -
122A THR* 4.1 30.3 - - + +
126A LEU* 4.7 14.6 - - + -
136A VAL* 5.7 0.2 - - + -
138A ASN* 4.9 4.9 - - - +
164A MET* 2.9 46.6 + - + +
165A THR* 3.9 3.8 - - - +
167A ALA* 1.3 74.2 - - + +
169A ALA* 1.3 66.4 + - - +
171A ASP* 3.1 10.7 + - + +
172A GLU* 2.9 34.4 + - + +
179A VAL* 4.0 22.0 - - + -
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Residues in contact with ALA 169 (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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165A THR 3.0 18.6 + - - +
166A LYS 3.6 5.8 - - - +
167A ALA 3.3 0.2 - - - -
168A LEU* 1.3 76.2 - - - +
170A LEU* 1.3 63.1 + - + +
172A GLU* 4.0 0.4 - - - -
173A SER* 3.1 26.7 + - - +
177A VAL 4.8 0.6 - - - +
179A VAL* 3.8 12.3 - - - +
239A THR* 3.5 28.2 + - + +
240A GLY* 3.6 20.2 - - - +
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Residues in contact with LEU 170 (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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166A LYS* 3.2 14.0 + - + +
167A ALA* 3.2 13.7 + - - +
169A ALA* 1.3 78.8 - - + +
171A ASP* 1.3 62.7 + - - +
173A SER* 3.0 21.8 + - - +
174A PRO* 3.8 3.6 - - - +
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Residues in contact with ASP 171 (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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167A ALA* 3.1 21.8 + - - +
168A LEU* 3.1 15.4 + - + +
170A LEU* 1.3 79.1 - - - +
172A GLU* 1.3 71.9 + - + +
174A PRO* 3.3 14.9 - - - +
175A TYR* 4.3 7.8 - - - -
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Residues in contact with GLU 172 (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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126A LEU* 3.6 33.5 - - + +
130A ARG* 2.7 50.7 + - - +
168A LEU* 2.9 23.7 + - + +
171A ASP* 1.3 87.9 - - + +
173A SER* 1.3 65.5 + - - +
174A PRO* 3.3 3.4 - - - -
175A TYR* 3.0 23.0 + - - +
177A VAL* 3.4 36.8 + - + +
179A VAL* 4.5 6.3 - - + -
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Residues in contact with SER 173 (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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169A ALA 3.1 16.7 + - - -
170A LEU* 3.0 20.1 + - - +
172A GLU* 1.3 77.6 - - - +
174A PRO* 1.3 68.0 - - - +
176A GLY* 3.0 14.9 + - - +
177A VAL 4.1 6.9 + - - +
239A THR* 5.3 9.4 - - - -
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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