Contacts of the helix formed by residues 147 - 166 (chain A) in PDB entry 2IWR
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 147 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A ASP* 4.6 1.6 - - - +
80A ARG* 3.4 29.8 + - - +
144A SER* 3.0 10.9 + - - +
145A LEU 3.4 1.2 - - - -
146A GLU* 1.3 94.0 - - - +
148A GLU* 1.3 67.0 - - - +
149A ASN* 3.1 18.1 + - - +
150A SER* 2.8 46.3 + - - -
151A PHE* 3.2 10.6 + - - +
190A VAL* 3.8 1.7 - - - +
191A VAL* 4.6 1.3 - - - -
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Residues in contact with GLU 148 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147A ASP* 1.3 72.2 - - - +
149A ASN* 1.3 62.2 + - - +
151A PHE* 3.2 8.8 + - - +
152A GLN* 2.8 46.8 + - + +
190A VAL* 3.7 19.5 - - + +
191A VAL* 4.2 8.3 - - - +
195A ARG* 2.8 44.9 + - - -
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Residues in contact with ASN 149 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A ASP* 4.1 4.5 - - - +
147A ASP* 3.1 13.8 + - - +
148A GLU* 1.3 81.7 - - - +
150A SER* 1.3 59.1 + - - +
152A GLN* 3.3 8.9 + - - +
153A ALA* 2.8 30.0 + - - +
156A ARG* 5.3 0.9 + - - -
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Residues in contact with SER 150 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A ASP* 2.8 34.2 + - - -
80A ARG* 4.9 1.3 - - - -
81A SER* 3.6 3.8 - - - -
142A VAL 4.7 1.0 - - - +
143A PHE* 3.3 15.6 - - - +
144A SER* 3.0 27.9 + - - -
147A ASP* 2.8 31.7 + - - -
149A ASN* 1.3 72.0 - - - +
151A PHE* 1.3 63.1 + - - +
153A ALA* 3.3 14.6 + - - +
154A VAL* 3.6 5.2 + - - +
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Residues in contact with PHE 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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143A PHE* 3.6 36.3 - + + +
147A ASP 3.2 3.2 + - - +
148A GLU* 3.2 8.7 + - - +
150A SER* 1.3 77.3 - - - +
152A GLN* 1.3 71.9 + - - +
154A VAL* 3.2 19.4 + - - +
155A SER* 3.9 2.8 + - - -
176A LEU* 4.8 0.2 - - + -
191A VAL* 3.8 30.3 - - + -
195A ARG* 3.6 61.9 - - + -
196A ALA* 3.9 15.0 - - - -
199A LEU* 3.5 30.5 - - + +
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Residues in contact with GLN 152 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148A GLU* 2.8 47.6 + - + +
149A ASN* 3.7 9.0 - - - +
151A PHE* 1.3 83.0 - - - +
153A ALA* 1.3 63.7 + - - +
154A VAL 3.2 0.7 + - - -
155A SER* 3.2 24.3 + - - +
156A ARG* 3.5 17.3 + - - +
195A ARG* 3.4 14.6 - - - +
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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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78A ASP* 4.3 23.1 - - + +
149A ASN 2.8 14.0 + - - +
150A SER 3.5 11.4 - - - +
151A PHE 3.2 0.6 - - - -
152A GLN* 1.3 77.3 - - - +
154A VAL* 1.3 57.0 + - - +
156A ARG* 3.2 27.8 + - - +
157A LEU* 2.8 42.4 + - + +
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Residues in contact with VAL 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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77A GLY* 5.6 0.4 - - - -
141A PHE* 3.8 29.1 - - + -
142A VAL 3.8 20.2 - - - +
143A PHE* 3.9 10.1 - - + -
150A SER 3.8 13.5 - - - +
151A PHE 3.2 9.4 + - - +
152A GLN 3.1 0.6 - - - -
153A ALA* 1.3 76.9 - - - +
155A SER* 1.3 57.9 + - - +
157A LEU* 3.2 10.5 + - + +
158A HIS* 2.8 29.1 + - - +
176A LEU* 3.8 22.9 - - + -
199A LEU* 3.9 13.0 - - + -
203A MET* 3.9 10.5 - - - -
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Residues in contact with SER 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 PHE 3.9 3.1 + - - -
152A GLN* 3.2 20.4 + - - -
154A VAL* 1.3 80.6 - - - +
156A ARG* 1.3 62.6 + - - +
158A HIS* 3.5 5.6 + - - +
159A GLY* 3.1 19.2 + - - -
199A LEU* 3.5 27.4 - - - +
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Residues in contact with ARG 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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149A ASN 5.3 0.8 + - - -
152A GLN* 3.5 14.6 + - - +
153A ALA* 3.2 29.9 + - - +
155A SER* 1.3 75.7 - - - +
157A LEU* 1.3 67.6 + - + +
159A GLY* 3.3 2.5 + - - -
160A GLN* 3.0 48.1 + - + +
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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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76A LEU* 4.2 9.8 - - + +
77A GLY* 3.6 37.9 - - - +
78A ASP* 4.4 2.2 - - + +
126A GLY* 3.4 28.7 - - - +
127A ALA* 3.9 3.1 - - - -
128A PRO* 3.8 18.5 - - + +
141A PHE* 3.9 14.2 - - + -
153A ALA* 2.8 28.9 + - + +
154A VAL* 3.8 6.7 - - - +
156A ARG* 1.3 79.8 - - + +
158A HIS* 1.3 57.4 + - - +
160A GLN* 3.3 13.3 + - - +
161A LEU* 2.9 28.9 + - - +
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Residues in contact with HIS 158 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141A PHE* 3.6 21.0 - + + -
154A VAL 2.8 16.9 + - - +
155A SER* 3.8 5.6 + - - +
157A LEU* 1.3 75.0 - - - +
159A GLY* 1.3 61.7 + - - +
161A LEU* 3.2 6.4 + - + +
162A SER* 2.9 51.9 + - - -
172A LEU* 6.3 0.4 - - + +
174A LEU* 3.9 10.9 - - + +
202A ASP 5.0 2.5 - - - -
203A MET* 3.3 62.6 + - - +
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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
----------------------------------------------------------
155A SER 3.1 14.2 + - - -
156A ARG* 3.3 3.5 + - - -
158A HIS* 1.3 79.8 + - - +
160A GLN* 1.3 61.5 + - - +
162A SER* 3.5 5.9 + - - -
163A SER* 3.1 25.3 + - - -
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Residues in contact with GLN 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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127A ALA* 3.6 29.4 - - + +
128A PRO* 3.7 15.6 - - + +
156A ARG* 3.0 38.8 + - + +
157A LEU* 3.6 19.7 - - - +
158A HIS 3.3 0.2 - - - -
159A GLY* 1.3 72.7 - - - +
161A LEU* 1.3 66.6 + - - +
163A SER* 3.0 19.6 + - - -
164A LEU* 3.1 18.5 + - + +
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Residues in contact with LEU 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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76A LEU* 4.5 2.2 - - + -
128A PRO* 3.8 11.8 - - + +
132A PHE* 4.1 20.6 - - + -
133A SER* 4.0 27.8 - - - +
136A ALA* 5.9 0.9 - - + -
139A VAL* 3.8 18.2 - - + -
141A PHE* 3.8 21.1 - - + -
157A LEU 2.9 17.4 + - - +
158A HIS* 3.5 8.3 - - + +
160A GLN* 1.3 76.1 - - - +
162A SER* 1.3 59.7 + - - +
164A LEU* 3.2 4.5 + - - +
165A ARG* 2.9 37.2 + - + +
172A LEU* 3.6 30.1 - - + -
174A LEU* 4.9 0.4 - - + -
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Residues in contact with SER 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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158A HIS* 2.9 40.9 + - - -
159A GLY* 3.8 7.0 - - - -
161A LEU* 1.3 79.2 - - - +
163A SER* 1.3 61.2 + - - +
165A ARG* 4.2 3.8 - - - +
166A GLY* 3.1 24.4 + - - +
167A GLU* 4.8 11.0 - - - +
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Residues in contact with SER 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 14.7 + - - -
160A GLN* 3.0 16.6 + - - -
161A LEU 3.3 0.2 - - - -
162A SER* 1.3 77.4 - - - +
164A LEU* 1.3 63.3 + - - +
166A GLY* 4.1 5.0 + - - -
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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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128A PRO* 3.2 42.6 - - + +
129A ASP* 3.8 10.5 - - - +
130A ALA* 4.3 19.5 - - + +
133A SER* 3.5 20.5 + - - +
160A GLN* 3.1 23.1 + - + +
161A LEU* 3.6 1.3 - - - +
163A SER* 1.3 83.3 + - - +
165A ARG* 1.3 62.4 + - - +
166A GLY* 3.6 0.5 + - - -
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Residues in contact with ARG 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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133A SER* 3.6 31.5 + - - +
136A ALA* 4.7 5.0 + - - -
161A LEU* 2.9 22.7 + - - +
162A SER* 4.2 3.6 - - - +
164A LEU* 1.3 79.2 - - - +
166A GLY* 1.3 72.8 + - - +
167A GLU* 5.9 1.6 + - - +
168A GLY 5.0 0.7 + - - -
169A ARG* 3.6 48.0 + - - +
170A GLY 2.9 28.9 + - - +
171A GLY 3.5 14.3 + - - -
172A LEU* 3.8 44.3 - - - +
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Residues in contact with GLY 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 SER* 3.1 14.3 + - - +
163A SER 4.1 3.8 + - - -
164A LEU 3.4 2.5 - - - -
165A ARG* 1.3 99.2 + - - +
167A GLU* 1.3 73.2 + - - +
168A GLY 3.5 2.1 + - - -
169A ARG 4.8 1.0 + - - -
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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
------------------------------------------------------------
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