Contacts of the helix formed by residues 186 - 197 (chain C) in PDB entry 2ATW
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 PRO 186 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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184C THR 3.3 5.1 - - - +
185C HIS* 1.3 95.8 - - + +
187C ASN* 1.3 59.5 + - - +
188C LEU 3.0 5.6 - - - -
189C VAL* 2.9 27.2 + - - +
190C ARG* 3.5 8.1 + - - +
210C VAL* 4.2 25.0 - - + +
212C ARG* 4.0 22.2 - - + +
315C ARG* 5.8 4.0 - - - +
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Residues in contact with ASN 187 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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166C TYR* 2.9 40.9 + - + -
185C HIS* 2.9 27.7 + - + -
186C PRO* 1.3 77.6 - - - +
188C LEU* 1.3 64.8 + - - +
189C VAL 3.1 0.2 - - - -
190C ARG* 3.2 30.7 + - + +
191C LYS* 3.0 27.9 + - + +
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Residues in contact with LEU 188 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114C ILE* 3.7 21.5 - - + -
164C ARG 3.8 15.9 - - - +
165C CYS 3.9 15.5 - - - -
166C TYR* 4.0 15.6 - - + +
182C SER 4.3 0.9 - - - +
183C ARG* 3.5 48.5 - - - +
185C HIS* 3.0 16.1 + - + +
186C PRO 3.0 0.6 - - - -
187C ASN* 1.3 78.9 - - - +
189C VAL* 1.3 56.5 + - - +
191C LYS* 3.5 1.9 + - - +
192C LEU* 3.1 44.9 + - + +
212C ARG* 4.1 2.7 - - - +
250C LEU* 3.8 21.5 - - + -
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Residues in contact with VAL 189 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186C PRO 2.9 9.6 + - - +
188C LEU* 1.3 76.1 - - - +
190C ARG* 1.3 65.9 + - - +
192C LEU* 3.4 7.2 + - - +
193C PHE* 3.1 43.8 + - + -
210C VAL* 4.7 8.7 - - + -
212C ARG* 3.8 35.0 - - - +
218C SER* 4.0 11.7 - - - +
220C ILE* 4.0 22.2 - - + -
246C VAL* 5.4 0.2 - - - -
250C LEU* 3.9 22.4 - - + -
255C ILE* 5.3 2.0 - - + -
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Residues in contact with ARG 190 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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186C PRO* 3.5 5.8 + - - +
187C ASN* 3.2 34.2 + - + +
189C VAL* 1.3 79.7 - - - +
191C LYS* 1.3 59.3 + - + +
193C PHE* 3.3 5.0 + - - +
194C SER* 3.0 25.3 + - - -
200C ILE* 4.9 1.2 - - - +
207C ILE* 3.0 53.8 + - + +
208C VAL 3.9 5.5 + - - -
209C ALA* 3.7 26.3 - - - +
210C VAL* 3.9 23.7 - - + +
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Residues in contact with LYS 191 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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112C GLY 3.5 21.6 + - - +
113C GLU* 4.1 11.3 + - - +
114C ILE* 3.5 47.9 - - + +
166C TYR* 4.3 11.2 - - + -
187C ASN* 3.0 19.3 + - + +
188C LEU* 4.0 0.9 - - - +
190C ARG* 1.3 75.5 - - + +
192C LEU* 1.3 65.3 + - - +
194C SER* 3.1 10.5 + - - -
195C LEU* 3.0 25.5 + - - +
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Residues in contact with LEU 192 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114C ILE* 3.7 9.6 - - + -
164C ARG* 3.6 30.5 - - + +
188C LEU* 3.1 31.0 + - + +
189C VAL* 3.9 2.9 - - - +
190C ARG 3.4 0.2 - - - -
191C LYS* 1.3 75.7 - - - +
193C PHE* 1.3 64.4 + - - +
195C LEU* 3.1 7.9 + - + +
196C GLU* 3.0 29.4 + - + +
246C VAL* 4.1 18.6 - - + -
249C GLU* 3.6 30.3 - - + -
250C LEU* 3.5 37.9 - - + -
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Residues in contact with PHE 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189C VAL* 3.1 38.3 + - + +
190C ARG 3.7 5.2 - - - +
191C LYS 3.2 0.2 - - - -
192C LEU* 1.3 75.6 - - - +
194C SER* 1.3 58.0 + - - +
196C GLU 4.4 0.2 - - - +
197C VAL* 2.7 52.6 + - + +
200C ILE* 3.9 19.7 - - + -
207C ILE* 4.0 6.1 - - + -
220C ILE* 3.9 23.1 - - + -
235C CYS* 3.7 29.4 - - + -
243C VAL* 3.9 15.9 - - + -
246C VAL* 4.0 31.9 - - + -
255C ILE* 3.9 27.1 - - + -
257C ILE* 4.3 2.5 - - + -
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Residues in contact with SER 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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190C ARG 3.0 13.3 + - - -
191C LYS* 3.1 15.7 + - - -
193C PHE* 1.3 78.5 - - - +
195C LEU* 1.3 63.6 + - - +
197C VAL 3.5 13.6 + - - +
198C PRO 4.6 0.2 - - - -
200C ILE* 3.9 19.0 - - - +
201C ALA* 3.6 26.3 - - - +
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Residues in contact with LEU 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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114C ILE* 4.3 24.0 - - + -
164C ARG* 3.9 33.7 - - - +
191C LYS 3.0 17.0 + - - +
192C LEU* 3.1 10.3 + - + +
194C SER* 1.3 80.2 - - - +
196C GLU* 1.3 67.5 + - + +
197C VAL 5.2 0.4 - - - -
198C PRO* 5.6 0.5 - - - +
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Residues in contact with GLU 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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164C ARG* 5.1 10.6 + - - -
192C LEU* 3.0 20.6 + - + +
193C PHE 4.1 2.0 - - - +
195C LEU* 1.3 85.2 - - + +
197C VAL* 1.3 67.6 + - + +
198C PRO* 3.4 11.0 - - - +
242C ARG* 3.7 29.9 + - + +
245C ASN* 3.0 40.6 + - + +
246C VAL* 3.9 20.9 - - + +
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Residues in contact with VAL 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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193C PHE* 2.7 43.7 + - + +
194C SER 3.5 6.2 - - - +
195C LEU 3.5 1.0 - - - -
196C GLU* 1.3 84.4 - - + +
198C PRO* 1.3 61.7 - - - +
199C GLU* 3.5 18.4 - - + +
200C ILE* 2.8 43.2 + - + +
201C ALA 2.9 9.0 + - - -
205C VAL* 5.7 0.2 - - + -
234C ALA* 3.3 33.2 - - + +
235C CYS* 4.1 10.3 - - - +
242C ARG* 3.7 3.6 - - + +
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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