Contacts of the helix formed by residues 147 - 166 (chain A) in PDB entry 4LOU
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 ARG 147 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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53A PHE* 4.1 14.9 - - + -
54A ASP* 2.7 33.5 + - - +
57A VAL* 3.5 33.4 - - - +
58A ALA* 4.3 8.9 - - - +
61A GLN* 3.8 18.2 + - - +
139A LEU* 3.6 20.3 - - + +
145A LEU 5.5 3.0 + - - -
146A GLY* 1.3 71.3 - - - -
148A GLN* 1.3 67.9 + - - +
149A GLY 3.7 0.2 - - - -
150A PRO* 3.5 7.8 - - - +
151A THR* 2.7 34.4 + - + +
189A ALA* 5.2 8.3 - - + +
315A GLY* 5.9 4.6 - - - -
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Residues in contact with GLN 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
109A ILE* 6.0 0.7 - - - -
146A GLY* 3.3 3.5 - - - -
147A ARG* 1.3 94.9 + - - +
149A GLY* 1.3 69.2 - - - +
151A THR* 3.2 6.5 + - - -
152A VAL* 2.8 30.4 + - - +
186A LEU* 3.9 11.7 - - + -
189A ALA* 3.5 22.7 + - + +
190A PHE* 3.2 51.1 - - + -
317A PHE* 4.6 6.0 - - - -
355A GLY* 5.5 1.1 - - - -
357A PHE* 4.1 17.3 - - + +
358A ALA* 3.3 19.5 - - - +
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Residues in contact with GLY 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
107A SER* 3.1 31.1 - - - +
108A GLY* 4.3 1.2 - - - -
109A ILE* 5.2 6.7 - - - +
148A GLN* 1.3 79.4 - - - +
150A PRO* 1.3 71.6 - - - +
152A VAL* 3.3 3.3 + - - +
153A GLN* 3.3 16.8 + - - +
355A GLY* 3.9 16.1 - - - -
357A PHE* 6.1 0.2 - - - +
445A TYR* 6.0 0.4 - - - -
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Residues in contact with PRO 150 (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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53A PHE* 3.6 35.9 - - + -
107A SER 4.3 0.7 - - - +
131A LYS* 3.8 17.7 - - + +
135A GLY* 5.3 2.9 - - - -
139A LEU* 4.3 3.4 - - + -
146A GLY 3.5 20.0 - - - +
147A ARG 3.5 9.0 - - - +
148A GLN 3.7 0.7 - - - -
149A GLY* 1.3 88.9 - - - +
151A THR* 1.3 59.1 + - - +
153A GLN* 3.9 1.4 - - - +
154A ILE* 2.9 36.2 + - + +
353A PRO* 5.0 2.0 - - + -
354A GLY* 3.8 15.0 - - - +
355A GLY 3.6 8.7 - - - +
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Residues in contact with THR 151 (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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46A VAL* 4.5 3.0 - - + +
49A ALA* 5.2 0.4 - - + -
50A ALA* 3.5 41.3 - - + +
53A PHE* 4.9 12.1 - - + -
147A ARG* 2.7 18.3 + - + +
148A GLN 3.2 7.2 + - - -
150A PRO* 1.3 77.9 - - - +
152A VAL* 1.3 56.5 + - - +
154A ILE* 3.9 11.2 - - + +
155A GLY* 2.9 24.4 + - - -
185A GLY* 3.4 20.6 + - - +
189A ALA* 3.4 17.3 - - + +
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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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109A ILE* 4.0 23.1 - - + -
112A ILE* 4.3 3.9 - - + +
148A GLN 2.8 15.7 + - - +
149A GLY 4.0 2.5 - - - +
151A THR* 1.3 75.0 - - - +
153A GLN* 1.3 62.7 + - - +
155A GLY 3.2 0.9 + - - -
156A GLY* 2.9 23.7 + - - -
182A ALA* 3.4 43.2 - - + +
186A LEU* 3.4 39.3 - - + +
199A PHE* 4.9 2.7 - - + -
204A MET* 3.9 15.0 - - + -
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Residues in contact with GLN 153 (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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103A GLU* 3.2 31.7 + - - +
104A ALA* 4.0 1.8 - - - +
108A GLY* 3.1 26.9 + - - +
111A GLU* 3.9 14.8 - - - +
112A ILE* 3.7 13.4 - - + +
127A VAL* 4.1 15.1 - - + +
131A LYS* 2.7 42.2 + - + +
149A GLY 3.3 8.0 + - - +
150A PRO 4.0 1.6 - - - +
152A VAL* 1.3 74.6 - - - +
154A ILE* 1.3 68.4 + - - +
156A GLY* 3.1 1.7 + - - -
157A ASN* 3.0 41.2 + - - +
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Residues in contact with ILE 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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46A VAL* 6.0 0.9 - - + -
49A ALA* 4.4 13.5 - - + -
53A PHE* 4.3 11.9 - - + -
127A VAL* 5.6 0.9 - - - -
128A LEU* 3.5 20.8 - - + +
131A LYS* 3.8 21.0 - - + +
132A PHE* 3.9 42.4 - - + +
150A PRO 2.9 26.7 + - - +
151A THR* 3.9 10.5 - - + +
153A GLN* 1.3 75.9 - - - +
155A GLY* 1.3 58.1 + - - +
157A ASN* 3.5 1.4 + - - -
158A ILE* 3.0 51.6 + - + +
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Residues in contact with GLY 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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46A VAL* 3.5 20.0 - - - +
151A THR 2.9 18.0 + - - -
153A GLN 3.1 0.2 - - - -
154A ILE* 1.3 73.2 - - - +
156A GLY* 1.3 60.4 + - - +
158A ILE* 3.3 3.0 + - - +
159A GLY 2.9 23.6 + - - -
181A GLY* 3.1 31.2 - - - -
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Residues in contact with GLY 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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112A ILE* 3.9 6.7 - - - -
152A VAL 2.9 14.0 + - - -
153A GLN 3.1 3.1 + - - -
155A GLY* 1.3 75.0 - - - +
157A ASN* 1.3 57.6 + - - +
159A GLY* 3.0 4.0 + - - -
160A ARG* 2.9 22.7 + - - +
178A LEU* 3.3 41.3 - - - +
181A GLY 3.7 1.2 - - - -
182A ALA* 4.0 3.4 - - - -
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Residues in contact with ASN 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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112A ILE* 3.8 6.9 - - - +
122A VAL* 3.3 27.9 - - + +
123A ARG 3.7 2.6 + - - -
124A TRP* 3.4 19.1 + - + +
127A VAL* 3.3 29.7 - - + +
128A LEU* 3.7 19.5 - - + -
153A GLN* 3.0 38.2 + - - +
156A GLY* 1.3 72.5 - - - +
158A ILE* 1.3 53.2 + - - +
160A ARG* 3.0 3.8 + - - +
161A MET* 2.7 35.0 + - - +
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Residues in contact with ILE 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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42A VAL* 4.6 3.4 - - - +
45A LEU* 3.9 35.2 - - + +
46A VAL* 3.8 24.2 - - + -
49A ALA* 4.0 18.6 - - + -
128A LEU* 3.6 20.2 - - + -
154A ILE* 3.0 39.4 + - + +
155A GLY 3.6 4.9 - - - +
157A ASN* 1.3 74.7 - - - +
159A GLY* 1.3 62.5 + - - +
161A MET* 3.2 11.9 + - + +
162A VAL* 3.0 34.2 + - + +
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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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42A VAL* 3.7 16.1 - - - +
155A GLY 2.9 13.8 + - - -
156A GLY 3.0 3.8 + - - -
158A ILE* 1.3 78.1 - - - +
160A ARG* 1.3 59.5 + - - +
162A VAL* 3.7 2.6 + - - +
163A LEU* 3.5 18.0 + - - +
177A LEU* 3.3 37.4 - - - +
178A LEU 4.8 0.2 - - - -
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Residues in contact with ARG 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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122A VAL* 3.4 52.0 + - + +
124A TRP* 3.8 13.2 - - + -
156A GLY 2.9 6.7 + - - +
157A ASN 3.0 8.0 + - - +
159A GLY* 1.3 75.2 - - - +
161A MET* 1.3 65.7 + - - +
163A LEU* 3.1 47.3 + - - +
164A ASP* 2.5 40.0 + - - +
174A ARG* 4.6 19.1 - - - +
178A LEU* 5.1 5.4 - - + +
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Residues in contact with MET 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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45A LEU* 4.2 24.7 - - + -
124A TRP* 3.5 49.3 - - + +
128A LEU* 3.9 22.0 - - + -
157A ASN 2.7 16.7 + - - +
158A ILE* 3.2 9.4 + - + +
160A ARG* 1.3 74.0 - - - +
162A VAL* 1.3 68.7 + - + +
164A ASP* 3.6 1.9 + - - +
165A ILE* 3.1 47.2 + - + +
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Residues in contact with VAL 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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38A MET* 4.2 15.9 - - - +
41A VAL* 4.3 15.5 - - + -
42A VAL* 3.6 28.9 - - + -
45A LEU* 4.6 5.8 - - + -
158A ILE* 3.0 22.9 + - + +
159A GLY 4.3 0.4 - - - +
161A MET* 1.3 88.5 - - + +
163A LEU* 1.3 66.6 + - - +
165A ILE* 4.0 7.0 - - + -
166A PHE* 3.3 33.1 + - + +
168A LEU* 4.0 1.6 - - - +
177A LEU* 3.9 14.6 - - + -
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Residues in contact with LEU 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 3.5 13.1 + - - +
160A ARG* 3.1 46.4 + - - +
162A VAL* 1.3 78.1 - - - +
164A ASP* 1.3 55.1 + - - +
167A ARG* 2.8 35.2 + - - -
168A LEU* 3.3 45.6 + - + +
173A ALA* 3.9 26.5 - - + +
174A ARG* 4.0 24.7 - - + +
177A LEU* 4.4 5.4 - - + -
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Residues in contact with ASP 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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124A TRP* 2.7 37.2 + - + +
125A TRP* 4.5 5.7 - - - -
160A ARG* 2.5 45.3 + - - +
161A MET 3.9 3.8 - - - +
163A LEU* 1.3 81.2 - - - +
165A ILE* 1.3 63.1 + - - +
167A ARG* 3.1 33.8 + - - +
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Residues in contact with ILE 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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124A TRP* 5.2 9.2 - - + -
161A MET* 3.1 45.3 + - + +
162A VAL* 4.3 2.0 - - - -
164A ASP* 1.3 80.3 - - - +
166A PHE* 1.3 90.1 + - + +
167A ARG* 3.6 3.1 + - - +
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Residues in contact with PHE 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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38A MET* 4.0 31.2 - - + -
41A VAL* 5.3 7.2 - - + -
162A VAL* 3.3 29.0 + - + +
163A LEU 3.6 0.2 - - - -
165A ILE* 1.3 97.5 - - + +
167A ARG* 1.3 69.4 + - - +
168A LEU* 3.4 21.1 + - + +
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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