Contacts of the helix formed by residues 186 - 201 (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 HIS 186 (chain B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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55A GLU* 5.6 4.3 - - + -
182B THR* 4.6 11.9 - - + -
184B GLU* 2.2 57.5 + - + +
185B PRO* 1.3 75.2 - - + +
187B TRP* 1.3 59.8 + - - +
188B LEU 3.3 0.6 + - - -
189B PHE* 3.9 1.2 + - - +
190B GLY* 2.8 33.3 + - - -
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Residues in contact with TRP 187 (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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184B GLU 4.7 0.6 + - - -
185B PRO* 3.2 1.8 - - - +
186B HIS* 1.3 79.2 - - - +
188B LEU* 1.3 84.1 + - + +
191B THR* 2.6 52.3 + - - +
241B ASN* 3.7 17.5 - - + -
267B TYR* 3.5 24.4 + - + -
268B SER 4.8 0.4 - - - -
269B SER* 2.9 34.5 - - - +
270B TYR 3.8 8.7 + - - +
271B ASN* 3.4 31.0 - - + -
275B PHE* 3.9 14.8 - + - -
352B PHE* 3.4 38.8 - + - -
1002B UNX 3.0 25.7 - - - -
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Residues in contact with LEU 188 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
185B PRO 4.3 2.3 + - - +
186B HIS 3.4 0.6 - - - -
187B TRP* 1.3 96.9 - - + +
189B PHE* 1.3 81.8 + - + +
191B THR* 4.1 0.9 - - - -
192B MSE 3.1 49.2 + - + +
229B LEU* 4.2 6.3 - - + -
271B ASN* 3.7 15.3 + - - +
272B TYR* 4.2 24.2 - - + -
275B PHE* 3.7 32.3 - - + -
345B TYR* 4.8 2.5 - - + -
348B ALA* 4.0 20.0 - - + -
352B PHE* 4.5 3.8 - - + -
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Residues in contact with PHE 189 (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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186B HIS 3.9 1.8 + - - +
188B LEU* 1.3 102.1 - - + +
190B GLY* 1.3 61.1 + - - +
192B MSE 3.4 24.4 - - + +
193B GLU* 2.9 38.4 + - - +
222B MSE 3.7 22.0 - - + -
225B LEU* 4.1 4.7 - - + -
226B ARG* 3.5 78.3 - - + +
229B LEU* 4.0 20.9 - - + -
272B TYR* 5.5 6.1 - + - -
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Residues in contact with GLY 190 (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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186B HIS* 2.8 24.8 + - - -
187B TRP* 5.1 0.2 - - - -
189B PHE* 1.3 72.5 - - - +
191B THR* 1.3 62.1 + - - +
193B GLU* 3.8 10.4 - - - +
194B ARG* 3.1 25.1 + - - +
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Residues in contact with THR 191 (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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187B TRP* 2.6 46.2 + - - +
190B GLY* 1.3 75.5 - - - +
192B MSE 1.3 60.0 + - - +
194B ARG* 3.2 24.5 + - - +
195B TYR* 2.9 65.0 + - + +
267B TYR* 6.5 0.2 - - + -
352B PHE* 3.7 17.5 - - + -
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Residues in contact with MSE 192 (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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188B LEU* 3.1 31.3 + - + +
189B PHE* 3.4 46.2 - - + +
191B THR* 1.3 76.0 - - - +
193B GLU* 1.3 58.5 + - - +
195B TYR* 3.3 5.9 + - + +
196B LEU* 2.8 30.8 + - - +
222B MSE 4.0 11.9 - - + -
225B LEU* 4.2 9.0 - - + -
348B ALA* 4.4 2.9 - - + +
351B PHE* 3.9 17.5 - - - -
352B PHE* 3.7 46.9 - - + -
355B LEU* 3.8 18.2 - - + +
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Residues in contact with GLU 193 (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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189B PHE* 2.9 24.0 + - - +
190B GLY* 3.8 10.2 - - - +
192B MSE 1.3 78.0 - - - +
194B ARG* 1.3 56.9 + - - +
196B LEU* 3.7 4.5 - - - +
197B LYS* 3.0 30.0 + - - +
222B MSE 4.1 19.3 - - + -
226B ARG* 2.4 35.3 + - - +
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Residues in contact with ARG 194 (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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109B ILE 5.2 4.4 + - - -
115B SER* 5.2 6.9 + - - -
190B GLY 3.1 14.3 + - - +
191B THR* 3.2 33.6 + - - +
193B GLU* 1.3 78.3 - - - +
195B TYR* 1.3 77.4 + - - +
197B LYS* 3.4 7.2 + - + +
198B GLN* 3.0 45.2 + - + +
1005B UNX 3.2 24.2 - - - -
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Residues in contact with TYR 195 (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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109B ILE* 4.0 12.1 + - + +
191B THR* 2.9 42.0 + - + +
192B MSE 3.6 6.3 - - - +
194B ARG* 1.3 84.6 + - - +
196B LEU* 1.3 59.9 + - - +
198B GLN* 3.2 5.5 + - - +
199B ILE* 2.8 38.2 + - + +
267B TYR* 4.0 13.5 - - - -
352B PHE* 3.8 20.5 - + - -
355B LEU* 4.3 14.8 - - + +
356B TRP* 3.5 47.4 - + + -
359B LEU* 3.5 24.2 - - + -
1005B UNX 3.6 20.2 - - - -
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Residues in contact with LEU 196 (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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192B MSE 2.8 22.3 + - - +
193B GLU 3.7 4.7 - - - +
195B TYR* 1.3 72.7 - - - +
197B LYS* 1.3 63.7 + - - +
199B ILE* 3.3 6.9 + - + +
200B GLN* 3.0 37.7 + - - +
213B LEU* 3.7 31.4 - - + -
218B LEU* 4.7 9.9 - - + +
219B LYS* 4.1 28.3 - - + +
222B MSE 3.4 30.1 - - + -
351B PHE* 6.2 0.4 - - + -
355B LEU* 4.1 23.0 - - + +
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Residues in contact with LYS 197 (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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193B GLU 3.0 17.0 + - - +
194B ARG* 3.7 7.2 - - - +
196B LEU* 1.3 76.5 - - - +
198B GLN* 1.3 63.0 + - + +
200B GLN* 3.3 17.6 + - - +
201B ASP* 3.2 32.7 + - - +
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Residues in contact with GLN 198 (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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194B ARG* 3.0 37.6 + - + +
195B TYR* 3.7 5.7 - - - +
197B LYS* 1.3 74.0 - - + +
199B ILE* 1.3 63.8 + - - +
201B ASP* 3.2 15.8 + - - +
202B LEU* 3.2 18.7 + - + +
359B LEU* 3.4 27.5 - - + +
363B MSE 5.6 3.8 - - - +
1005B UNX 2.6 29.4 - - - -
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Residues in contact with ILE 199 (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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195B TYR 2.8 27.4 + - - +
196B LEU* 3.7 5.8 - - - +
198B GLN* 1.3 71.5 - - - +
200B GLN* 1.3 57.8 + - - +
202B LEU* 3.0 33.4 + - + +
213B LEU* 4.0 22.7 - - + -
355B LEU* 3.3 49.4 - - + +
358B ILE* 3.5 28.7 - - + -
359B LEU* 4.0 21.8 - - + +
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Residues in contact with GLN 200 (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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196B LEU* 3.0 41.4 + - - +
197B LYS* 3.5 17.7 - - - +
198B GLN 3.3 0.2 - - - -
199B ILE* 1.3 77.8 - - - +
201B ASP* 1.3 66.2 + - - +
202B LEU 3.8 2.9 + - - +
213B LEU* 3.5 22.9 - - + +
219B LYS* 4.3 16.2 - - - +
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Residues in contact with ASP 201 (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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197B LYS* 3.2 26.5 + - - +
198B GLN* 3.2 9.6 + - - +
199B ILE 3.2 0.8 - - - -
200B GLN* 1.3 84.4 - - - +
202B LEU* 1.3 63.5 + - - +
203B PRO* 3.7 3.8 - - - +
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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