Contacts of the helix formed by residues 160 - 176 (chain B) in PDB entry 2IG7
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 GLU 160 (chain B).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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156B GLN 4.3 3.3 - - - +
157B GLU* 3.1 39.0 + - - +
159B ARG* 1.3 78.9 - - + +
161B PRO* 1.3 64.7 - - + +
162B VAL* 3.2 2.8 + - + +
163B LEU* 3.3 26.0 + - + +
164B SER* 2.8 34.1 + - - -
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Residues in contact with PRO 161 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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159B ARG 3.3 8.0 - - - +
160B GLU* 1.3 84.9 - - + +
162B VAL* 1.3 61.5 + - + +
164B SER* 4.5 0.4 - - - -
165B ALA* 3.0 17.8 + - - +
311B HIS* 2.7 43.4 + - + +
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Residues in contact with VAL 162 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160B GLU* 3.3 3.2 - - + +
161B PRO* 1.3 76.0 - - + +
163B LEU* 1.3 66.1 + - + +
165B ALA* 3.4 6.7 + - - +
166B ALA* 3.0 27.3 + - + +
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Residues in contact with LEU 163 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
153B LEU* 3.9 22.2 - - + -
157B GLU* 3.7 39.5 - - + +
160B GLU* 3.3 26.8 + - + +
162B VAL* 1.3 78.9 - - + +
164B SER* 1.3 67.2 + - - +
166B ALA* 3.2 6.2 + - + +
167B ILE* 2.9 30.3 + - + +
250B LEU* 4.7 9.2 - - + -
259B SER* 5.5 2.0 - - - +
260B LEU* 4.0 31.6 - - + -
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Residues in contact with SER 164 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
158B LEU 3.5 19.9 + - - -
159B ARG 4.8 1.3 - - - -
160B GLU 2.8 23.3 + - - -
161B PRO 4.0 2.9 - - - -
163B LEU* 1.3 71.8 - - - +
165B ALA* 1.3 58.0 + - - +
167B ILE* 3.3 6.9 + - - +
168B ALA* 3.0 29.3 + - - +
280B HIS* 5.3 1.1 + - - -
284B TRP* 3.9 14.1 - - - -
308B GLN 4.9 0.9 + - - -
311B HIS* 4.3 11.5 - - - -
312B PHE* 3.5 28.1 - - - +
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Residues in contact with ALA 165 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
161B PRO 3.0 18.1 + - - +
162B VAL* 3.6 6.5 - - - +
163B LEU 3.2 0.2 - - - -
164B SER* 1.3 76.8 - - - +
166B ALA* 1.3 56.4 + - - +
168B ALA* 3.5 2.9 + - - +
169B THR* 3.0 32.3 + - - -
311B HIS* 3.9 6.6 + - + +
312B PHE* 5.6 0.2 - - - +
315B HIS* 3.6 45.0 - - + +
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Residues in contact with ALA 166 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
162B VAL* 3.0 19.3 + - + +
163B LEU* 3.7 7.6 - - + +
165B ALA* 1.3 71.9 - - - +
167B ILE* 1.3 64.6 + - - +
169B THR* 3.5 7.0 + - - -
170B LYS* 3.0 26.0 + - - +
259B SER* 5.7 2.2 - - - +
260B LEU* 3.8 20.8 - - + +
1019B UNX 4.3 10.5 - - - -
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Residues in contact with ILE 167 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153B LEU* 3.9 10.5 - - + -
158B LEU* 3.7 33.2 - - + -
163B LEU 2.9 26.1 + - - +
164B SER* 3.7 8.3 - - - +
166B ALA* 1.3 74.6 - - - +
168B ALA* 1.3 58.1 + - - +
170B LYS* 3.3 4.6 + - - +
171B MSE 2.8 32.9 + - + +
243B ILE* 4.2 18.2 - - + -
248B ILE* 3.9 14.4 - - + -
260B LEU* 3.9 17.0 - - + -
280B HIS* 3.8 28.5 - - + +
312B PHE* 4.1 6.5 - - + -
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Residues in contact with ALA 168 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
164B SER 3.0 17.0 + - - +
165B ALA 3.6 5.4 - - - +
167B ILE* 1.3 76.6 - - - +
169B THR* 1.3 55.3 + - - +
171B MSE 3.4 0.6 + - - +
172B ALA* 2.9 30.0 + - - +
312B PHE* 3.3 52.1 - - + +
315B HIS* 4.1 3.1 - - + -
316B TYR* 3.6 17.8 - - - +
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Residues in contact with THR 169 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165B ALA 3.0 18.2 + - - -
166B ALA* 3.7 8.0 - - - -
167B ILE 3.3 0.2 - - - -
168B ALA* 1.3 74.6 - - - +
170B LYS* 1.3 57.2 + - - +
172B ALA* 3.3 4.3 + - - +
173B GLN* 3.0 45.4 + - - +
315B HIS* 4.1 16.5 + - - +
319B GLU* 3.5 31.8 - - + +
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Residues in contact with LYS 170 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131B LEU* 5.8 5.3 - - - +
166B ALA 3.0 16.6 + - - +
167B ILE* 3.7 5.4 - - - +
169B THR* 1.3 74.1 - - - +
171B MSE 1.3 66.1 + - - +
173B GLN* 3.1 21.2 + - - +
174B PHE* 3.1 46.9 + - + -
248B ILE* 6.1 1.3 - - + -
258B ASP* 2.6 43.7 + - - -
260B LEU* 3.0 26.7 + - + +
261B MSE 4.6 1.0 - - - +
262B LEU* 4.0 26.7 - - + +
1019B UNX 3.5 6.1 - - - -
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Residues in contact with MSE 171 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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167B ILE* 2.8 20.6 + - + +
168B ALA 3.7 4.3 - - - +
170B LYS* 1.3 76.0 - - - +
172B ALA* 1.3 61.8 + - - +
174B PHE* 3.4 5.3 + - - +
175B HIS* 3.0 48.2 + - + +
243B ILE* 3.6 35.4 - - + -
262B LEU* 5.5 2.9 - - - +
276B ASP* 4.0 4.5 - - - +
277B ILE* 3.7 33.9 - - - -
280B HIS* 3.9 24.7 - - + -
312B PHE* 3.5 24.2 - - + -
316B TYR* 4.2 4.3 - - + -
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Residues in contact with ALA 172 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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168B ALA 2.9 21.0 + - - +
169B THR 3.3 4.9 + - - +
171B MSE 1.3 71.8 - - - +
173B GLN* 1.3 63.0 + - - +
175B HIS* 3.2 5.7 + - - +
176B GLY* 3.2 17.8 + - - -
316B TYR* 3.5 41.6 - - + +
319B GLU* 3.6 15.0 - - + -
320B ALA* 4.0 11.3 - - + +
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Residues in contact with GLN 173 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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169B THR* 3.0 31.7 + - - +
170B LYS* 3.1 32.4 + - - +
172B ALA* 1.3 75.1 - - - +
174B PHE* 1.3 64.9 + - + +
176B GLY* 3.2 13.3 + - - -
177B MSE 3.4 25.8 - - + +
258B ASP* 4.7 3.7 + - - +
319B GLU* 3.5 25.5 + - - +
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Residues in contact with PHE 174 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126B LEU* 3.8 22.7 - - + -
131B LEU* 4.3 26.5 - - + -
170B LYS* 3.1 42.6 + - + +
171B MSE 3.9 6.1 - - - +
173B GLN* 1.3 81.4 - - + +
175B HIS* 1.3 57.9 + - + +
176B GLY 3.1 0.2 - - - -
177B MSE 3.0 50.4 + - + +
238B PHE* 3.5 25.1 - + + +
240B HIS* 6.1 2.5 - - + +
262B LEU* 4.1 21.3 - - + -
265B PHE* 3.4 40.8 - + + -
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Residues in contact with HIS 175 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171B MSE 3.0 36.9 + - + +
172B ALA* 3.2 10.3 + - - +
174B PHE* 1.3 77.8 - - + +
176B GLY* 1.3 57.9 + - - +
177B MSE 3.4 1.4 + - - +
237B VAL* 3.4 42.8 - - + +
238B PHE 3.1 26.9 + - - -
239B CYS* 4.0 2.2 - - - -
240B HIS 5.3 0.2 - - - -
273B ARG* 4.2 9.2 - - - -
276B ASP* 2.8 39.5 + - + +
316B TYR* 2.6 33.6 + + - +
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Residues in contact with GLY 176 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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172B ALA 3.2 8.1 + - - -
173B GLN 3.2 9.4 + - - -
174B PHE 3.1 1.2 - - - -
175B HIS* 1.3 75.5 - - - +
177B MSE 1.3 63.7 + - - +
178B GLU* 4.0 0.7 + - - +
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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