Contacts of the helix formed by residues 190 - 203 (chain A) in PDB entry 2AN3
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 190 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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188A SER* 3.2 3.4 + - - -
189A PRO* 1.3 85.9 - - - +
191A LEU* 1.3 67.1 + - - +
192A ALA* 3.9 15.1 - - - +
193A SER* 3.2 20.5 + - - -
194A PHE* 3.1 18.5 + - - +
196A ARG* 5.2 0.7 + - - -
232A VAL* 3.6 15.0 - - - -
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Residues in contact with LEU 191 (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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190A ASP* 1.3 75.4 - - - +
192A ALA* 1.3 54.8 + - - +
194A PHE* 2.7 46.7 + - + +
195A GLN* 2.8 15.6 + - + +
232A VAL* 3.6 8.3 - - + +
233A PRO 6.0 0.4 - - - +
234A VAL* 4.6 13.2 - - + -
238A GLU* 4.1 45.8 - - + +
242A ALA* 5.2 4.0 - - + -
245A ARG* 5.8 5.8 - - - +
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Residues in contact with ALA 192 (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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190A ASP* 3.3 15.1 + - - +
191A LEU* 1.3 77.1 - - - +
193A SER* 1.3 63.3 + - - +
195A GLN* 3.1 18.0 + - - +
196A ARG* 3.1 33.9 + - - +
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Residues in contact with SER 193 (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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160A HIS* 3.7 14.2 + - - -
188A SER* 3.4 22.5 + - - -
189A PRO* 3.4 19.2 - - - +
190A ASP* 3.2 17.7 + - - -
192A ALA* 1.3 78.6 - - - +
194A PHE* 1.3 62.0 + - - +
196A ARG* 3.4 25.2 + - - +
197A ALA* 3.0 25.3 + - - +
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Residues in contact with PHE 194 (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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184A LEU* 3.5 33.5 - - + +
185A GLU* 3.5 38.4 - - + -
188A SER* 3.5 9.6 - - - -
190A ASP 3.1 12.5 + - - +
191A LEU* 2.7 33.3 + - + +
193A SER* 1.3 77.7 - - - +
195A GLN* 1.3 59.6 + - - -
197A ALA* 3.8 2.9 - - - +
198A LEU* 3.1 28.7 + - + +
213A LEU* 4.8 14.4 - - + -
232A VAL* 4.5 6.1 - - + -
234A VAL* 4.9 7.0 - - + -
238A GLU 5.2 0.2 - - - -
239A VAL* 4.9 20.4 - - + -
242A ALA* 4.1 22.9 - - + -
273A PHE* 5.0 4.5 - + - -
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Residues in contact with GLN 195 (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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191A LEU* 2.8 11.7 + - + +
192A ALA* 3.1 11.9 + - - +
194A PHE* 1.3 78.2 - - - +
196A ARG* 1.3 67.7 + - + +
198A LEU* 3.1 7.4 + - - +
199A ASP* 3.0 31.1 + - - +
242A ALA* 3.2 33.2 + - + +
245A ARG* 3.2 33.5 + - - +
246A SER* 2.9 29.3 + - - +
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Residues in contact with ARG 196 (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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190A ASP* 5.2 0.6 + - - -
192A ALA* 3.1 28.6 + - - +
193A SER* 3.6 33.0 + - - +
195A GLN* 1.3 74.0 - - + +
197A ALA* 1.3 56.4 + - - +
199A ASP* 2.9 13.5 + - - +
200A HIS* 2.7 58.5 + - + +
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Residues in contact with ALA 197 (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 VAL* 3.6 39.0 - - + +
160A HIS* 4.6 5.1 + - - +
184A LEU* 4.2 11.2 - - + -
188A SER* 4.2 10.5 - - - +
193A SER 3.0 17.7 + - - +
194A PHE 3.8 4.5 - - - +
196A ARG* 1.3 74.4 - - - +
198A LEU* 1.3 62.2 + - - +
200A HIS* 3.2 3.9 + - - +
201A ILE* 3.1 28.2 + - - +
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Residues in contact with LEU 198 (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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184A LEU* 3.8 23.7 - - + +
194A PHE* 3.1 20.6 + - + +
195A GLN* 3.3 12.1 - - - +
196A ARG 3.0 0.4 - - - -
197A ALA* 1.3 77.0 - - - +
199A ASP* 1.3 57.6 + - - +
201A ILE* 3.3 14.9 - - + +
202A THR* 2.6 37.8 + - - +
211A LEU* 4.2 18.2 - - + -
213A LEU* 4.9 3.8 - - + -
242A ALA* 3.5 29.4 - - + +
243A LEU* 3.9 15.7 - - + -
246A SER* 3.3 25.1 - - - +
248A TYR* 4.4 0.7 - - + -
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Residues in contact with ASP 199 (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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195A GLN* 3.0 26.6 + - - +
196A ARG* 2.9 15.5 + - - +
198A LEU* 1.3 75.5 - - - +
200A HIS* 1.3 67.9 + - + +
202A THR* 3.2 15.0 + - - -
203A THR* 3.1 22.0 + - + +
245A ARG 4.7 1.6 - - - +
246A SER* 2.8 35.2 + - - +
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Residues in contact with HIS 200 (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 VAL 2.6 30.2 + - - +
160A HIS* 2.9 28.6 + - - -
161A GLN 3.5 15.0 - - - +
162A PRO* 3.9 24.9 - - + +
164A PRO* 3.4 15.6 - - + +
196A ARG* 2.7 46.7 + - + +
197A ALA* 3.4 5.0 - - - +
198A LEU 3.2 0.2 - - - -
199A ASP* 1.3 78.1 - - + +
201A ILE* 1.3 57.2 + - - +
203A THR* 2.8 25.8 + - + -
204A LEU* 4.3 0.3 - - - +
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Residues in contact with ILE 201 (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 ILE* 3.8 35.0 - - + -
159A VAL* 3.7 29.2 - - + -
164A PRO* 4.2 7.4 - - + -
178A LEU* 3.4 16.9 - - + +
180A SER* 5.0 4.0 - - - -
184A LEU* 4.2 15.9 - - + -
197A ALA 3.1 12.8 + - - +
198A LEU* 3.3 28.3 - - + +
200A HIS* 1.3 73.3 - - - +
202A THR* 1.3 63.8 + - - +
203A THR 3.1 2.7 - - - -
204A LEU* 2.9 33.1 + - - +
211A LEU* 4.8 13.5 - - + -
213A LEU* 5.6 0.7 - - + -
248A TYR* 5.2 0.2 - - - +
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Residues in contact with THR 202 (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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178A LEU* 4.6 0.4 - - - -
198A LEU* 2.6 25.8 + - - +
199A ASP* 3.2 9.7 + - - -
201A ILE* 1.3 72.9 - - - +
203A THR* 1.3 56.1 + - - +
204A LEU 2.9 5.8 - - - -
205A LEU* 2.9 14.9 + - - +
246A SER* 4.2 14.1 - - - +
248A TYR* 2.9 47.8 + - + +
279A LYS* 2.8 45.3 + - + +
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Residues in contact with THR 203 (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 PRO 3.9 12.2 + - - +
163A GLN* 5.3 1.4 - - - +
164A PRO* 4.5 0.7 - - - +
174A PRO* 5.1 5.0 - - - +
199A ASP 3.1 18.1 + - - +
200A HIS* 2.8 20.4 + - - +
202A THR* 1.3 76.6 - - - +
204A LEU* 1.3 66.8 + - - +
205A LEU 3.3 3.1 + - - +
279A LYS* 4.4 5.6 + - - +
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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