Contacts of the strand formed by residues 151 - 167 (chain A) in PDB entry 5I7L
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 LEU 151 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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140A GLN* 3.4 3.6 - - - +
141A VAL* 2.8 42.8 + - + +
149A SER* 3.9 5.6 - - - -
150A LEU* 1.3 81.9 - - + +
152A ARG* 1.3 69.7 + - - +
153A LEU* 4.2 9.6 - - + -
191A LEU* 3.5 15.0 - - + -
193A ASP 3.5 20.2 - - - +
200A ILE* 3.5 37.0 - - + -
203A LEU* 4.4 7.2 - - + -
204A LEU* 3.8 35.0 - - + +
207A LEU* 4.4 12.6 - - + -
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Residues in contact with ARG 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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111A THR* 4.3 12.2 + - - +
138A LYS* 4.1 21.3 - - + +
139A LEU 3.2 8.1 - - - +
140A GLN* 3.7 30.9 + - + +
149A SER* 5.5 5.6 - - - -
151A LEU* 1.3 82.9 - - - +
153A LEU* 1.3 69.3 + - - +
191A LEU* 3.6 3.5 - - - +
192A LEU* 3.0 59.4 + - + +
193A ASP* 3.3 22.7 + - - +
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Residues in contact with LEU 153 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
137A ILE 3.9 0.2 - - - +
138A LYS* 3.1 10.4 - - - +
139A LEU* 2.8 51.3 + - + +
141A VAL* 5.7 0.9 - - + -
151A LEU* 4.2 6.1 - - + -
152A ARG* 1.3 88.5 - - - +
154A ALA* 1.3 59.5 + - - +
155A VAL* 4.0 7.0 - - + -
189A ILE* 4.0 12.1 - - + -
190A SER 3.2 16.6 - - - +
191A LEU* 4.0 10.5 - - + -
192A LEU* 3.4 6.7 - - - +
204A LEU* 3.7 29.8 - - + -
207A LEU* 4.2 17.7 - - + -
208A THR* 5.4 0.4 - - - +
211A LEU* 4.0 26.9 - - + -
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Residues in contact with ALA 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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137A ILE 3.8 3.8 - - - -
138A LYS* 4.7 12.6 - - - +
153A LEU* 1.3 72.5 - - - +
155A VAL* 1.3 62.6 + - - +
156A LYS* 3.8 20.9 - - - +
188A GLN 3.3 4.9 - - - +
189A ILE* 3.4 1.9 - - - +
190A SER* 2.9 39.2 + - - -
192A LEU* 3.1 20.2 - - + +
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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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135A LEU 4.0 0.2 - - - +
136A GLY* 3.5 4.5 - - - -
137A ILE* 2.9 44.2 + - + +
139A LEU* 3.9 33.0 - - + -
153A LEU* 4.5 6.7 - - + -
154A ALA* 1.3 78.6 - - - +
156A LYS* 1.3 70.1 + - - +
157A LEU* 5.3 2.0 - - + -
187A LEU* 3.5 28.0 - - + -
188A GLN 3.1 3.4 - - - +
189A ILE* 4.1 15.7 - - + -
211A LEU* 4.3 3.1 - - + -
215A LEU* 3.6 18.4 - - + -
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Residues in contact with LYS 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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114A GLN* 5.8 3.4 - - - -
116A LEU* 5.2 16.8 - - + -
135A LEU 3.5 11.2 - - - +
136A GLY* 4.2 8.7 - - - -
137A ILE 5.4 1.0 + - - -
138A LYS* 5.3 5.3 - - - +
154A ALA* 3.8 26.8 - - - +
155A VAL* 1.3 81.9 + - - +
157A LEU* 1.3 63.0 + - - +
186A SER 3.2 6.1 - - - +
187A LEU* 3.3 6.1 - - - +
188A GLN* 2.8 46.5 + - + +
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Residues in contact with LEU 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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133A ILE 3.6 1.4 - - - +
135A LEU* 2.8 40.6 + - + +
155A VAL* 5.3 2.9 - - + -
156A LYS* 1.3 77.0 - - - +
158A ASP* 1.3 74.8 + - - +
159A ILE* 4.6 4.3 - - + -
182A HIS* 4.5 10.5 - - + -
183A SER 4.7 1.3 - - - +
186A SER* 3.3 24.0 + - - +
187A LEU* 4.0 25.8 - - + +
215A LEU* 4.8 2.9 - - + -
216A PRO* 4.0 19.7 - - + -
219A VAL* 3.6 43.5 - - + -
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Residues in contact with ASP 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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132A THR* 3.7 29.1 - - + +
133A ILE 3.6 2.9 - - - -
134A PRO* 3.4 19.0 - - - +
157A LEU* 1.3 81.3 + - - +
159A ILE* 1.3 61.0 + - - +
160A THR* 5.3 0.2 - - - +
182A HIS* 3.5 4.2 - - - -
183A SER* 2.7 48.5 + - - -
186A SER* 3.1 21.5 + - - +
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Residues in contact with ILE 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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131A VAL 3.5 2.1 - - - +
132A THR* 3.7 1.7 - - - -
133A ILE* 2.9 52.4 + - + +
135A LEU* 3.9 20.9 - - + -
157A LEU* 4.6 1.8 - - + -
158A ASP* 1.3 80.3 - - - +
160A THR* 1.3 66.8 + - - +
161A ALA 4.5 1.1 - - - +
180A CYS* 3.7 27.4 - - - -
181A THR 3.4 6.5 - - - +
182A HIS* 3.8 18.2 - - + -
219A VAL* 3.8 22.0 - - + -
220A GLN* 3.9 15.3 - - - +
223A VAL* 4.3 14.6 - - + -
224A CYS* 3.9 4.5 - - - -
227A VAL* 5.1 0.7 - - + -
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Residues in contact with THR 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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130A TYR* 4.7 19.7 - - + -
131A VAL 3.2 10.5 + - - +
132A THR* 4.4 10.0 + - - +
158A ASP 4.1 0.6 + - - -
159A ILE* 1.3 75.8 + - - +
161A ALA* 1.3 65.3 + - - +
162A GLU* 4.0 1.7 + - + +
179A ASP* 4.0 4.1 - - + +
180A CYS* 3.3 3.3 - - - -
181A THR* 2.8 41.7 + - - +
183A SER* 4.3 17.9 + - - -
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Residues in contact with ALA 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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130A TYR* 3.6 0.9 - - - -
131A VAL* 2.8 53.5 + - + +
133A ILE* 4.5 8.2 - - + +
159A ILE 3.9 1.8 - - - -
160A THR* 1.3 73.7 - - - +
162A GLU* 1.3 61.2 + - - +
163A ILE* 4.9 1.6 - - + -
177A LEU* 3.8 19.7 - - + -
179A ASP 3.8 4.0 - - - -
180A CYS* 4.1 9.4 - - - -
227A VAL* 3.9 18.6 - - + -
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Residues in contact with GLU 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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128A ARG* 3.9 4.0 - - + -
129A LEU 3.4 5.4 - - - +
130A TYR* 3.0 43.7 + - + -
160A THR* 4.0 2.8 + - + +
161A ALA* 1.3 72.5 - - - +
163A ILE* 1.3 61.3 + - - +
164A LEU* 3.5 25.7 - - + +
177A LEU* 3.7 4.6 - - - +
178A GLY* 2.7 36.4 + - - -
179A ASP* 2.9 49.8 + - + +
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Residues in contact with ILE 163 (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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51A LEU* 4.3 19.3 - - + -
55A LEU* 4.5 6.1 - - + -
128A ARG* 3.4 5.7 - - - -
129A LEU* 2.8 53.5 + - + +
131A VAL* 3.6 29.6 - - + -
161A ALA* 4.6 2.2 - - + +
162A GLU* 1.3 76.8 - - - +
164A LEU* 1.3 65.3 + - - +
175A LEU* 3.5 37.0 - - + -
176A VAL 3.5 5.6 - - - +
177A LEU* 5.0 2.2 - - + -
227A VAL* 6.3 0.2 - - + -
231A LEU* 3.8 28.9 - - + -
242A ILE* 5.4 0.4 - - + -
246A LEU* 4.3 3.4 - - + +
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Residues in contact with LEU 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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127A HIS 4.2 4.9 - - - +
128A ARG* 3.4 30.3 - - + -
162A GLU* 3.5 32.5 - - + +
163A ILE* 1.3 75.4 - - - +
165A ALA* 1.3 66.3 + - - +
166A VAL* 4.2 5.8 - - + -
175A LEU* 3.5 10.7 - - - +
176A VAL* 2.9 45.7 + - + +
178A GLY* 4.2 18.8 - - - +
246A LEU* 4.4 2.0 - - - -
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Residues in contact with ALA 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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127A HIS* 3.9 12.8 + - - +
164A LEU* 1.3 76.6 - - - +
166A VAL* 1.3 62.6 + - - +
173A ILE* 4.4 1.6 - - + -
174A HIS 3.2 5.2 - - - -
243A VAL* 3.6 41.5 - - + +
246A LEU* 3.8 16.8 - - + -
247A ILE* 3.4 21.6 - - + +
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Residues in contact with VAL 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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164A LEU* 5.3 7.2 - - + -
165A ALA* 1.3 76.7 - - - +
167A ARG* 1.3 66.6 + - - +
168A ASP 3.4 4.6 + - - +
173A ILE* 3.5 1.4 - - - -
174A HIS* 2.9 40.8 + - + +
176A VAL* 3.5 29.4 - - + -
247A ILE* 4.0 4.5 - - - +
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Residues in contact with ARG 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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166A VAL* 1.3 79.7 - - - +
168A ASP* 1.3 75.4 + - - +
169A LYS* 3.5 1.9 + - - -
171A GLU* 3.2 30.7 + - - +
172A ARG 3.8 2.7 - - - +
173A ILE* 4.2 13.5 - - + +
247A ILE* 3.6 45.2 + - + +
248A HIS* 4.6 11.1 + - - -
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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
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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