Contacts of the helix formed by residues 149 - 165 (chain A) in PDB entry 3CWM
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 ASP 149 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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146A ASN* 3.5 11.7 + - - +
147A PHE 4.1 2.2 - - - -
148A GLY* 1.3 75.3 - - - +
150A THR* 1.3 66.4 + - - +
151A GLU* 3.4 14.7 + - - +
152A GLU* 3.7 25.2 + - + +
153A ALA* 3.0 24.8 + - - +
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Residues in contact with THR 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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147A PHE 4.5 8.5 + - - -
148A GLY 3.9 3.4 + - - -
149A ASP* 1.3 74.0 + - - +
151A GLU* 1.3 62.7 + - - +
153A ALA* 4.1 3.3 - - - +
154A LYS* 2.9 57.5 + - - +
176A LEU* 3.6 35.5 + - + +
177A ASP 5.5 0.2 - - - -
178A ARG* 5.1 11.3 - - - +
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Residues in contact with GLU 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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149A ASP* 3.3 7.8 + - - +
150A THR* 1.3 80.2 - - - +
152A GLU* 1.3 56.6 + - - +
154A LYS* 3.5 29.8 + - - +
155A LYS* 2.9 33.7 + - - +
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Residues in contact with GLU 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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145A VAL* 4.8 1.2 - - - +
146A ASN* 3.7 31.8 + - - +
149A ASP* 3.4 24.7 + - + +
150A THR 3.4 0.4 - - - -
151A GLU* 1.3 78.6 - - - +
153A ALA* 1.3 66.1 + - - +
155A LYS* 3.4 4.0 + - - +
156A GLN* 2.9 51.0 + - - +
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Residues in contact with ALA 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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145A VAL* 4.6 9.9 - - + +
146A ASN 3.7 15.7 - - - +
147A PHE* 3.9 27.4 - - + -
149A ASP 3.0 18.7 + - - +
150A THR* 4.1 2.2 - - - +
152A GLU* 1.3 80.9 + - - +
154A LYS* 1.3 59.4 + - - +
156A GLN* 3.4 4.8 + - - +
157A ILE* 3.0 35.3 + - - +
176A LEU* 4.2 4.9 - - + -
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Residues in contact with LYS 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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150A THR* 2.9 44.8 + - - +
151A GLU* 3.5 28.2 + - - +
153A ALA* 1.3 77.5 - - - +
155A LYS* 1.3 57.0 + - - +
157A ILE* 3.5 4.3 + - - +
158A ASN* 3.1 40.5 + - - +
173A VAL* 3.4 38.4 - - + +
174A LYS 3.8 20.4 + - - +
175A GLU* 4.3 5.0 - - - +
176A LEU* 4.0 16.9 - - + +
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Residues in contact with LYS 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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151A GLU 2.9 20.0 + - - +
152A GLU* 4.0 4.5 - - - +
154A LYS* 1.3 77.4 - - - +
156A GLN* 1.3 56.6 + - - +
157A ILE 3.2 0.4 - - - -
158A ASN* 3.8 5.7 - - + +
159A ASP* 2.8 55.6 + - - +
162A GLU* 5.8 0.4 + - - -
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Residues in contact with GLN 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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119A PHE* 4.1 8.5 - - - -
145A VAL* 4.0 22.4 - - + +
152A GLU* 2.9 35.7 + - - +
153A ALA* 3.7 5.6 - - - +
155A LYS* 1.3 76.0 - - - +
157A ILE* 1.3 58.9 + - - +
159A ASP* 4.0 10.2 - - + +
160A TYR* 3.8 15.6 + - - +
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Residues in contact with ILE 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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119A PHE* 3.6 42.0 - - + -
145A VAL* 5.2 2.2 - - + -
147A PHE* 4.1 24.2 - - + -
153A ALA* 3.0 22.3 + - + +
154A LYS* 3.8 3.8 - - - +
155A LYS 3.2 0.2 - - - -
156A GLN* 1.3 76.7 - - - +
158A ASN* 1.3 66.5 + - - +
159A ASP 3.2 1.8 - - - -
160A TYR* 3.3 13.7 + - - +
161A VAL* 3.5 16.2 + - + +
172A LEU* 5.9 0.2 - - + -
173A VAL* 3.8 30.1 - - + -
176A LEU* 4.4 10.1 - - + -
183A ALA* 4.7 8.5 - - + -
185A VAL* 4.0 17.0 - - + -
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Residues in contact with ASN 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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154A LYS* 3.1 24.3 + - - +
155A LYS* 4.2 5.9 - - + +
157A ILE* 1.3 73.4 - - - +
159A ASP* 1.3 58.4 + - - +
160A TYR 3.3 0.2 - - - -
161A VAL* 3.6 9.0 + - - +
162A GLU* 3.2 27.8 + - - +
169A ILE 4.5 2.3 - - - +
171A ASP* 3.9 23.5 + - - +
172A LEU* 3.5 15.0 + - - +
173A VAL* 2.7 55.5 + - - +
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Residues in contact with ASP 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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155A LYS* 2.8 45.1 + - - +
156A GLN* 4.0 9.8 - - + +
157A ILE 3.2 0.2 - - - -
158A ASN* 1.3 76.7 - - - +
160A TYR* 1.3 62.1 + - - +
161A VAL 3.2 0.7 - - - -
162A GLU* 3.2 26.0 + - - +
163A LYS* 3.3 21.7 + - - +
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Residues in contact with TYR 160 (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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116A ASN 3.0 20.4 + - - -
117A GLY* 3.6 21.1 - - - -
119A PHE* 3.6 21.8 - + + -
141A GLU* 2.5 34.7 + - + -
143A PHE* 3.6 26.0 - + + -
156A GLN 3.8 12.9 + - - +
157A ILE 3.3 7.0 + - - +
159A ASP* 1.3 80.4 - - - +
161A VAL* 1.3 67.7 + - + +
163A LYS* 3.8 6.2 + - + +
164A GLY* 3.1 22.1 + - - -
185A VAL* 5.1 1.3 - - + -
187A TYR* 3.5 31.0 + + - -
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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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157A ILE 3.5 15.4 + - - +
158A ASN* 3.6 8.0 + - - +
159A ASP 3.2 0.4 - - - -
160A TYR* 1.3 83.5 - - + +
162A GLU* 1.3 53.6 + - - +
163A LYS 3.4 0.2 - - - -
164A GLY 3.9 0.9 - - - +
165A THR* 2.5 44.3 + - + -
169A ILE* 3.6 35.2 - - + +
172A LEU* 3.8 27.1 - - + -
185A VAL* 4.0 6.7 - - + -
187A TYR* 3.9 28.0 - - + -
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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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155A LYS* 5.8 0.5 + - - -
158A ASN 3.2 16.2 + - - +
159A ASP* 3.2 28.6 + - - +
161A VAL* 1.3 78.3 - - - +
163A LYS* 1.3 58.3 + - - +
165A THR* 4.2 0.2 - - - -
166A GLN 3.7 0.5 - - - -
167A GLY* 2.9 37.8 + - - +
169A ILE 3.7 6.1 - - - +
170A VAL* 3.4 34.8 - - + +
171A ASP 5.4 0.4 - - - +
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Residues in contact with LYS 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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159A ASP 3.3 11.3 + - - +
160A TYR* 4.1 7.2 - - + +
162A GLU* 1.3 77.3 - - - +
164A GLY* 1.3 65.9 + - - +
166A GLN* 3.3 18.5 + - - +
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Residues in contact with GLY 164 (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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113A THR* 3.0 22.3 - - - +
160A TYR* 3.1 14.6 + - - -
161A VAL 4.1 0.4 - - - -
162A GLU 3.4 0.2 - - - -
163A LYS* 1.3 78.0 - - - +
165A THR* 1.3 59.1 + - - +
166A GLN* 3.3 7.6 + - - -
187A TYR* 3.4 26.5 - - - -
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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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113A THR* 4.0 7.6 - - + -
161A VAL* 2.5 23.9 + - + +
162A GLU 3.8 1.6 + - - -
163A LYS 3.3 0.2 - - - -
164A GLY* 1.3 73.8 - - - +
166A GLN* 1.3 66.0 + - - +
167A GLY 2.9 9.4 + - - -
168A LYS* 2.9 24.3 + - - +
169A ILE* 2.8 48.6 + - + -
187A TYR* 3.6 28.7 - - + -
189A PHE* 4.9 12.3 - - + -
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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