Contacts of the helix formed by residues 191 - 205 (chain A) in PDB entry 3O75
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 191 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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101A ASP* 4.8 0.9 - - - +
125A SER 4.5 2.5 - - - +
126A CYS* 4.2 29.6 - - + +
127A LEU 5.4 2.9 - - - +
149A ARG* 3.5 41.1 - - + +
188A ARG* 2.8 35.4 + - + +
190A GLU* 1.3 99.4 - - + +
192A SER* 1.3 67.1 + - - +
193A VAL* 4.2 8.5 - - + -
194A SER* 3.1 9.6 + - - +
195A GLN* 2.9 21.0 + - - +
220A PHE* 4.1 7.4 - - + -
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Residues in contact with SER 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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149A ARG* 5.9 4.4 - - - +
150A ARG* 3.9 34.9 + - - +
190A GLU 3.6 2.0 + - - -
191A LEU* 1.3 75.7 - - - +
193A VAL* 1.3 63.5 + - - +
195A GLN* 3.2 14.8 + - - +
196A ALA* 3.0 23.2 + - - +
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Residues in contact with VAL 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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1A F1X 4.0 17.5 - - - +
148A ASP* 4.3 12.8 - - - +
149A ARG* 4.3 19.2 - - + +
163A ASP* 3.1 22.0 - - - +
191A LEU* 4.2 14.4 - - + -
192A SER* 1.3 78.9 - - - +
194A SER* 1.3 73.2 + - - +
196A ALA* 3.6 4.8 + - - +
197A ARG* 3.0 59.0 + - - +
220A PHE* 4.7 4.0 - - + -
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Residues in contact with SER 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
187A ALA 2.8 24.1 + - - -
188A ARG 3.1 22.5 + - - -
189A PRO* 4.1 8.1 - - - -
191A LEU* 3.1 9.1 + - - +
193A VAL* 1.3 78.2 - - - +
195A GLN* 1.3 59.6 + - - +
197A ARG* 3.3 7.6 + - - +
198A ALA* 2.9 32.1 + - - +
216A GLN* 4.5 6.0 - - - +
220A PHE* 3.4 17.0 - - - -
246A THR* 6.3 1.1 - - - -
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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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164A ARG* 5.0 2.3 + - - -
189A PRO 3.3 13.4 + - - +
190A GLU* 2.8 29.5 + - - +
191A LEU 2.9 15.0 + - - +
192A SER* 3.2 12.0 + - - +
194A SER* 1.3 77.9 - - - +
196A ALA* 1.3 56.3 + - - +
198A ALA* 3.7 5.0 + - - +
199A GLY* 3.0 24.6 + - - -
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Residues in contact with ALA 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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163A ASP* 3.9 17.5 - - + +
164A ARG* 3.5 29.8 + - + +
192A SER* 3.0 15.2 + - - +
193A VAL* 3.8 6.3 - - - +
195A GLN* 1.3 77.8 - - - +
197A ARG* 1.3 56.9 + - - +
199A GLY* 3.3 1.2 + - - -
200A GLY 3.0 23.7 + - - -
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Residues in contact with ARG 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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1A F1X 2.5 41.6 + - - -
148A ASP* 4.6 1.2 + - - -
163A ASP* 3.0 33.0 + - + -
167A SER* 2.7 29.4 + - - +
184A LEU* 4.9 3.4 - - - +
193A VAL* 3.0 36.6 + - - +
194A SER* 3.3 7.1 + - - +
196A ALA* 1.3 74.2 - - - +
198A ALA* 1.3 64.8 + - - +
201A PHE* 3.3 10.4 + - - +
220A PHE* 4.8 5.8 - - - -
246A THR* 2.6 57.1 + - + -
247A SER* 4.7 0.2 - - - -
273A PHE* 3.6 30.8 - - + -
322A ARG* 3.3 7.5 - - - +
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Residues in contact with ALA 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* 3.9 24.2 - - + +
194A SER 2.9 17.6 + - - +
195A GLN* 4.0 5.6 - - - +
197A ARG* 1.3 76.1 - - - +
199A GLY* 1.3 56.9 + - - +
201A PHE* 3.4 3.5 + - - +
202A ASP* 3.0 37.5 + - - +
214A ARG* 6.2 2.2 - - - -
216A GLN* 4.3 18.4 - - - +
246A THR* 5.5 0.6 - - - +
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Residues in contact with GLY 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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164A ARG* 3.6 26.8 + - - -
195A GLN 3.0 15.0 + - - -
196A ALA 3.3 2.4 + - - -
197A ARG 3.2 0.4 - - - -
198A ALA* 1.3 75.3 - - - +
200A GLY* 1.3 64.1 + - - +
202A ASP* 3.1 9.9 + - - +
203A GLU* 3.0 26.9 + - - +
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Residues in contact with GLY 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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164A ARG* 3.4 33.0 - - - +
167A SER* 4.2 0.2 - - - -
168A ARG* 3.2 25.1 - - - +
196A ALA 3.0 12.8 + - - -
197A ARG 4.2 1.6 - - - -
198A ALA 3.5 0.2 - - - -
199A GLY* 1.3 73.8 - - - +
201A PHE* 1.3 60.9 + - - +
203A GLU* 3.4 4.9 + - - +
204A ALA* 3.1 17.8 + - - +
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Residues in contact with PHE 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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167A SER* 3.6 7.9 + - - +
171A ALA* 3.8 24.9 - - + -
182A ILE* 4.3 12.1 - - + -
183A ALA* 3.9 19.3 - - - -
184A LEU* 3.8 47.3 - - + -
197A ARG 3.3 14.1 + - - +
198A ALA* 3.5 7.9 - - - +
200A GLY* 1.3 74.0 - - - +
202A ASP* 1.3 76.1 + - - +
204A ALA* 3.4 4.9 + - - +
205A LEU* 3.3 47.3 + - + +
212A VAL* 4.2 8.1 - - + -
214A ARG* 4.1 13.7 - - + -
244A VAL* 4.1 14.8 - - + -
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Residues in contact with ASP 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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198A ALA* 3.0 24.4 + - - +
199A GLY* 3.1 11.5 + - - +
201A PHE* 1.3 81.4 - - - +
203A GLU* 1.3 61.4 + - + +
205A LEU* 3.0 19.8 + - - +
206A GLN* 3.5 9.1 + - - +
214A ARG* 2.7 42.2 + - - +
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Residues in contact with GLU 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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164A ARG* 2.8 45.7 + - - +
168A ARG* 3.2 33.3 + - - -
199A GLY 3.0 14.8 + - - +
200A GLY* 3.6 8.1 - - - +
201A PHE 3.2 0.4 - - - -
202A ASP* 1.3 71.9 - - + +
204A ALA* 1.3 63.9 + - - +
205A LEU 2.9 5.7 + - - -
206A GLN* 3.2 38.3 + - - +
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Residues in contact with ALA 204 (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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168A ARG* 3.6 31.3 - - + +
171A ALA* 3.8 16.8 - - + -
172A ALA* 3.8 14.0 - - + +
175A LEU* 3.1 20.6 - - + +
200A GLY 3.1 7.9 + - - +
201A PHE 3.8 8.7 - - - +
202A ASP 3.4 0.2 - - - -
203A GLU* 1.3 78.6 - - - +
205A LEU* 1.3 58.1 + - - +
206A GLN 3.4 4.6 + - - +
208A TYR* 5.5 0.2 - - - +
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Residues in contact with LEU 205 (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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171A ALA* 5.0 1.1 - - + -
175A LEU* 3.7 32.5 - - + -
182A ILE* 4.1 14.6 - - + -
201A PHE* 3.3 32.5 + - + +
202A ASP* 3.0 12.3 + - - +
203A GLU 2.9 1.4 - - - -
204A ALA* 1.3 80.0 - - + +
206A GLN* 1.3 66.0 + - - +
207A GLY 3.2 0.5 + - - -
208A TYR* 2.9 33.3 + - + +
212A VAL* 3.3 42.0 - - + -
214A ARG* 4.3 7.4 - - - +
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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