Contacts of the helix formed by residues 164 - 182 (chain A) in PDB entry 2IAG
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 164 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163A GLY* 1.3 72.1 - - - -
165A LEU* 1.3 57.5 + - - +
167A PHE* 3.3 12.6 - - + +
168A SER* 2.8 43.8 + - - +
293A PHE* 3.6 22.7 - - + +
296A LEU* 4.2 6.1 - - + -
297A LEU* 3.6 44.6 - - + +
300A LEU* 4.1 9.4 - - + -
464A LEU* 4.1 25.1 - - + -
491A ASP* 3.1 1.0 + - - -
492A VAL* 2.7 20.7 + - + +
494A VAL* 3.7 21.6 - - + +
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Residues in contact with LEU 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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164A LEU* 1.3 68.1 - - - +
166A ASP* 1.3 61.9 + - - +
168A SER 3.1 0.7 + - - -
169A TYR* 2.8 53.8 + - + +
208A ARG* 4.0 24.0 - - - +
290A PRO* 4.1 19.1 - - + -
293A PHE* 3.2 39.2 - - + -
487A GLN* 4.8 5.4 - - + +
488A PRO* 3.6 30.3 - - + +
491A ASP* 2.8 26.9 + - + +
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Residues in contact with ASP 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 MET* 3.8 13.2 - - + +
163A GLY* 3.6 14.0 + - - +
165A LEU* 1.3 80.9 - - - +
167A PHE* 1.3 56.9 + - - +
169A TYR* 4.9 2.2 - - - -
170A SER* 2.9 34.7 + - - -
204A PHE* 4.3 13.5 - - + -
208A ARG* 5.0 5.7 + - - -
212A ARG* 4.5 14.6 + - - -
491A ASP* 3.2 15.3 + - - +
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Residues in contact with PHE 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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148A LEU* 4.3 2.7 - - + -
162A MET* 3.6 18.0 - - + +
163A GLY 2.8 18.2 + - - +
164A LEU* 3.3 17.5 - - + +
165A LEU 3.1 0.2 - - - -
166A ASP* 1.3 77.0 - - - +
168A SER* 1.3 73.1 + - - +
171A PHE* 2.8 55.8 + + - -
296A LEU* 4.3 7.2 - - + -
454A PHE* 3.6 19.7 - + - -
458A VAL* 3.8 16.4 - - + -
462A LEU* 3.7 23.8 - - + -
464A LEU* 4.8 10.3 - - + -
494A VAL* 5.0 2.5 - - + -
496A TYR* 3.7 39.9 - + + -
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Residues in contact with SER 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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164A LEU* 2.8 22.2 + - - +
165A LEU 3.1 1.8 + - - -
167A PHE* 1.3 74.4 - - - +
169A TYR* 1.3 62.5 + - - +
172A LEU* 3.2 30.5 + - - +
289A GLY* 3.6 18.6 - - - -
292A ALA* 4.2 0.9 - - - -
293A PHE* 3.7 20.5 - - - -
296A LEU* 3.8 17.3 - - - +
454A PHE* 3.9 18.3 - - - -
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Residues in contact with TYR 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 LEU* 2.8 33.3 + - + +
166A ASP* 4.9 0.2 - - - -
168A SER* 1.3 70.3 - - - +
170A SER* 1.3 65.0 + - - +
173A LEU* 2.9 46.2 + - + +
204A PHE* 3.5 14.1 - + + -
207A PHE* 3.2 16.7 - + - -
208A ARG* 3.4 27.6 - - - -
211A ASP* 2.7 32.4 + - - -
285A GLN 3.5 20.9 - - - -
286A GLY* 3.4 14.6 + - - -
289A GLY* 3.7 15.2 - - - -
290A PRO* 3.8 27.8 - - + -
487A GLN* 4.0 2.0 - - - -
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Residues in contact with SER 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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162A MET* 4.9 6.6 - - - +
166A ASP 2.9 24.0 + - - -
167A PHE* 3.9 3.6 - - - -
169A TYR* 1.3 76.0 - - - +
171A PHE* 1.3 65.0 + - - +
173A LEU* 4.3 0.2 - - - +
174A ARG* 3.0 60.6 + - - +
204A PHE* 3.4 25.5 - - - -
205A HIS* 5.8 1.5 + - - -
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Residues in contact with PHE 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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144A LEU* 3.6 6.4 - - + +
147A VAL* 3.6 29.4 - - + +
148A LEU* 3.5 40.2 - - + -
151A ASP* 3.9 21.1 - - + -
162A MET* 4.8 7.4 - - + -
167A PHE* 2.8 60.8 + + - +
170A SER* 1.3 86.4 - - - +
172A LEU* 1.3 62.7 + - - +
174A ARG* 4.3 2.2 - - - +
175A ALA* 3.1 26.9 + - - +
454A PHE* 3.7 21.3 - + + -
496A TYR* 4.2 14.4 - + - -
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Residues in contact with LEU 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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140A MET* 4.8 1.7 - - + +
144A LEU* 3.8 17.7 - - + -
168A SER 3.2 17.8 + - - +
171A PHE* 1.3 75.0 - - - +
173A LEU* 1.3 61.3 + - - +
175A ALA* 3.8 0.7 - - - +
176A GLY* 2.8 28.8 + - - -
285A GLN* 3.7 2.9 - - - +
288A MET* 3.7 30.9 - - + +
289A GLY* 4.3 10.5 - - - +
292A ALA* 3.4 33.2 - - + -
450A SER* 3.9 33.2 - - - +
451A ILE* 4.8 4.0 - - + -
454A PHE* 3.6 21.5 - - + -
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Residues in contact with LEU 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 TYR* 2.9 32.1 + - + +
172A LEU* 1.3 73.6 - - - +
174A ARG* 1.3 56.4 + - + +
177A TYR* 2.7 41.9 + - + +
200A SER 5.0 0.2 - - - +
203A VAL* 4.3 15.0 - - + -
204A PHE* 3.9 37.9 - - + +
207A PHE* 3.3 43.3 - - + -
281A LEU* 4.9 3.8 - - + -
285A GLN* 3.7 34.2 + - + +
288A MET* 5.5 0.2 - - - -
289A GLY 5.6 0.2 - - - +
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Residues in contact with ARG 174 (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 VAL* 3.7 25.8 - - + +
151A ASP* 2.8 41.4 + - - -
170A SER* 3.0 40.5 + - - +
171A PHE* 4.3 2.0 - - - -
173A LEU* 1.3 77.8 - - + +
175A ALA* 1.3 63.1 + - - +
177A TYR* 3.7 2.9 - - - +
178A LEU* 3.1 31.7 + - - +
197A ARG* 2.7 34.6 + - - +
200A SER* 3.0 39.1 + - - +
201A ALA* 3.3 22.5 - - - +
204A PHE* 3.8 12.8 - - + -
205A HIS* 6.0 0.4 - - - -
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Residues in contact with ALA 175 (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 MET* 2.7 30.1 - - + -
143A ASN* 3.7 13.3 - - - +
144A LEU* 3.6 22.2 - - + +
147A VAL* 4.4 4.3 - - + +
171A PHE 3.1 20.5 + - - +
172A LEU 4.0 0.2 - - - +
174A ARG* 1.3 74.2 - - - +
176A GLY* 1.3 55.8 + - - +
178A LEU* 3.3 0.6 + - - -
179A THR* 2.6 37.6 + - - -
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Residues in contact with GLY 176 (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 MET* 3.7 3.3 - - - -
172A LEU 2.8 16.9 + - - -
175A ALA* 1.3 71.8 - - - +
177A TYR* 1.3 56.5 + - - +
179A THR* 3.4 1.4 + - - -
180A LEU* 3.0 35.0 + - - +
285A GLN* 3.3 23.6 - - - -
288A MET* 4.6 1.8 - - - -
446A TYR* 3.7 17.9 - - - -
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Residues in contact with TYR 177 (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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173A LEU* 2.7 26.5 + - + +
174A ARG* 3.7 5.8 - - - +
176A GLY* 1.3 72.8 - - - +
178A LEU* 1.3 70.0 + - + +
181A TYR* 2.7 81.2 + + + +
199A HIS* 2.5 45.3 + + - -
200A SER* 4.3 10.3 - - - -
203A VAL* 4.0 17.6 - - + +
240A LEU 4.8 1.4 + - - -
241A LEU* 4.0 21.3 - - + +
246A LEU* 4.3 8.8 - - - +
249A ARG* 4.1 11.7 + - - -
281A LEU* 4.0 20.0 - - + -
285A GLN* 3.9 4.6 + - - +
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Residues in contact with LEU 178 (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 ASN* 3.7 22.2 + - + +
146A ALA* 6.4 0.7 - - + -
147A VAL* 3.8 25.8 - - + -
174A ARG 3.1 23.2 + - - +
175A ALA 3.3 4.0 + - - +
177A TYR* 1.3 87.8 - - + +
179A THR* 1.3 58.7 + - - +
182A GLY* 3.0 30.7 + - - +
183A ILE* 3.9 8.7 - - + +
196A ASP* 3.5 48.5 - - + +
199A HIS* 4.9 0.7 - - + -
200A SER* 4.2 8.3 - - - -
249A ARG* 3.6 14.4 - - - +
251A HIS 4.9 1.0 - - - +
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Residues in contact with THR 179 (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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136A LEU* 3.6 40.4 - - + +
139A ALA* 3.8 11.9 - - + +
140A MET* 3.4 19.9 - - - +
143A ASN* 2.9 17.6 + - - +
175A ALA 2.6 22.3 + - - -
176A GLY 3.7 4.5 - - - -
178A LEU* 1.3 79.5 - - - +
180A LEU* 1.3 60.4 + - - +
251A HIS 4.1 10.9 - - - +
253A SER* 3.8 11.4 - - - -
446A TYR* 4.0 14.4 - - + +
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Residues in contact with LEU 180 (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 LEU* 4.9 1.1 - - + -
136A LEU* 3.6 32.5 - - + -
176A GLY 3.0 12.2 + - - +
179A THR* 1.3 77.4 - - - +
181A TYR* 1.3 71.4 + - + +
182A GLY 3.4 0.2 - - - -
253A SER* 2.9 34.3 + - - +
255A TRP* 3.8 27.8 - - + -
256A LEU* 3.5 10.4 - - - +
284A THR* 3.7 14.8 - - + +
285A GLN* 3.5 23.6 - - - +
446A TYR* 4.4 12.8 - - + +
600A HEM 3.8 17.7 - - + -
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Residues in contact with TYR 181 (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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177A TYR* 2.7 55.5 + + + +
180A LEU* 1.3 86.9 - - + +
182A GLY* 1.3 57.1 + - - +
241A LEU* 3.6 19.5 - - + -
246A LEU* 3.9 29.3 - - + +
249A ARG* 3.3 22.5 - - - +
252A ARG* 4.2 3.8 + - - +
255A TRP* 3.7 24.1 - + - -
256A LEU* 3.9 16.2 - - + +
277A LEU* 2.7 40.3 + - + -
280A GLN* 3.6 4.2 - - - +
281A LEU* 3.2 30.6 + - + -
284A THR* 4.8 1.3 - - - -
285A GLN* 5.3 0.4 - - - -
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Residues in contact with GLY 182 (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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177A TYR* 4.4 0.5 - - - +
178A LEU* 3.0 29.8 + - - +
179A THR 4.2 0.6 + - - -
180A LEU 3.4 2.8 + - - -
181A TYR* 1.3 78.7 - - - +
183A ILE* 1.3 52.6 + - - -
249A ARG* 2.7 32.1 + - - -
250A ALA 3.2 12.8 - - - -
251A HIS 3.9 10.1 - - - -
252A ARG* 4.1 4.0 - - - +
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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
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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