Contacts of the helix formed by residues 192 - 205 (chain A) in PDB entry 6TXC
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 SER 192 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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190A GLN 3.5 4.2 + - - -
191A ILE* 1.3 75.2 - - - +
193A GLU* 1.3 59.5 + - - +
194A ARG* 3.0 15.1 - - - +
195A ASP* 2.9 46.3 + - - +
196A VAL* 3.1 13.7 + - - +
294A LYS* 4.7 3.1 + - - -
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Residues in contact with GLU 193 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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192A SER* 1.3 72.0 - - - +
194A ARG* 1.3 57.3 + - - +
196A VAL* 3.7 14.4 - - + +
197A LEU* 3.1 34.3 + - + +
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Residues in contact with ARG 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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192A SER* 3.5 14.3 - - - +
193A GLU* 1.3 76.5 - - - +
195A ASP* 1.3 65.3 + - - +
197A LEU* 3.5 2.9 + - - +
198A CYS* 3.1 28.8 + - - -
257A TYR 5.8 1.1 - - - +
258A GLY 3.5 24.9 + - - +
259A LEU* 4.1 14.8 - - + +
260A ILE* 3.4 29.2 - - - +
263A GLU* 2.8 27.1 + - - +
264A ASP* 2.9 41.4 + - - +
290A ARG* 4.0 13.2 - - - +
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Residues in contact with ASP 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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179A VAL* 5.2 0.4 - - - -
191A ILE* 3.6 10.1 - - + -
192A SER* 2.9 34.9 + - - +
194A ARG* 1.3 78.3 + - - +
196A VAL* 1.3 62.7 + - - +
198A CYS* 3.3 2.5 + - - +
199A VAL* 3.0 28.7 + - - +
267A PHE* 4.5 0.4 - - - -
290A ARG* 3.0 36.6 + - - +
294A LYS* 3.0 28.0 + - - -
297A LEU* 3.9 21.0 - - + +
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Residues in contact with VAL 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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176A GLY* 4.8 5.8 - - - +
179A VAL* 4.0 27.8 - - + -
180A HIS* 4.9 19.1 - - + +
191A ILE* 4.0 14.4 - - + +
192A SER 3.1 13.1 + - - +
193A GLU* 3.7 14.4 - - + +
194A ARG 3.2 0.2 - - - -
195A ASP* 1.3 75.9 - - - +
197A LEU* 1.3 64.3 + - + +
199A VAL* 3.2 3.5 + - - +
200A GLN* 2.9 41.4 + - - +
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Residues in contact with LEU 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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129A HIS* 3.7 53.2 - - + +
131A LEU* 4.3 9.0 - - + -
132A LEU* 4.3 13.0 - - + -
193A GLU* 3.1 19.7 + - + +
194A ARG 3.8 3.8 - - - +
196A VAL* 1.3 78.4 - - + +
198A CYS* 1.3 59.4 + - - +
200A GLN* 3.3 18.4 + - - +
201A ILE* 2.8 40.2 + - + +
257A TYR* 4.4 8.3 - - + +
259A LEU* 3.9 25.8 - - + -
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Residues in contact with CYS 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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194A ARG 3.1 21.5 + - - +
195A ASP 3.6 1.6 - - - +
197A LEU* 1.3 76.4 - - - +
199A VAL* 1.3 62.1 + - - +
201A ILE* 3.5 3.1 + - - -
202A ALA* 3.1 18.5 + - - +
259A LEU* 3.7 14.6 - - - -
264A ASP* 3.5 41.3 - - - -
267A PHE* 3.5 24.0 - - + -
268A ILE* 3.6 15.5 - - + +
271A GLN* 3.4 9.3 - - - +
290A ARG* 3.9 4.5 - - - +
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Residues in contact with VAL 199 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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175A ALA* 3.7 32.0 - - + +
179A VAL* 4.1 10.3 - - + -
195A ASP 3.0 20.2 + - - +
196A VAL 3.6 3.8 - - - +
198A CYS* 1.3 72.7 - - - +
200A GLN* 1.3 66.2 + - - +
202A ALA* 3.3 3.3 + - - +
203A GLY 3.0 18.2 + - - -
267A PHE* 4.1 14.4 - - + -
271A GLN* 3.5 22.9 - - - +
297A LEU* 4.2 23.8 - - + +
300A ILE* 3.8 15.9 - - + -
301A VAL* 3.7 3.7 - - + +
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Residues in contact with GLN 200 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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127A GLU 4.9 8.7 + - - -
129A HIS* 5.1 3.1 - - - +
132A LEU* 3.8 27.9 - - + +
172A GLY* 3.7 20.3 + - - +
173A TYR* 5.2 5.3 + - - +
175A ALA* 4.4 0.9 - - - -
176A GLY* 3.7 25.8 - - - -
196A VAL* 2.9 33.4 + - - +
197A LEU* 3.6 23.9 - - - +
199A VAL* 1.3 78.2 - - - +
201A ILE* 1.3 56.3 + - - +
203A GLY* 3.3 1.9 + - - -
204A LEU* 2.8 31.0 + - - +
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Residues in contact with ILE 201 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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131A LEU* 3.7 30.5 - - + -
132A LEU* 3.4 19.5 - - + -
135A ILE* 3.8 21.8 - - + -
197A LEU 2.8 24.2 + - - +
198A CYS 3.8 4.3 - - - +
200A GLN* 1.3 72.8 - - - +
202A ALA* 1.3 63.1 + - - +
204A LEU* 3.3 6.5 + - - +
205A CYS* 3.0 27.2 + - - +
241A PHE* 3.9 22.2 - - + -
254A MET* 4.7 4.3 - - + -
259A LEU* 4.2 14.4 - - + -
268A ILE* 3.7 22.9 - - + -
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Residues in contact with ALA 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 CYS 3.1 8.9 + - - +
199A VAL 3.6 2.9 - - - +
201A ILE* 1.3 75.1 - - - +
203A GLY* 1.3 59.1 + - - +
205A CYS 3.3 1.9 + - - -
206A HIS* 2.9 32.1 + - - +
268A ILE* 4.0 19.7 - - + +
271A GLN* 3.3 47.3 - - + +
272A ILE* 4.1 6.1 - - + +
301A VAL* 4.0 4.2 - - + +
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Residues in contact with GLY 203 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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168A SER 3.8 0.9 - - - +
171A VAL* 3.4 16.9 - - - +
172A GLY* 3.7 11.2 - - - -
175A ALA* 4.5 0.4 - - - -
199A VAL 3.0 11.8 + - - -
200A GLN 3.6 3.4 - - - -
202A ALA* 1.3 76.9 - - - +
204A LEU* 1.3 57.7 + - - +
206A HIS* 2.9 27.0 + - - -
301A VAL* 3.6 23.4 - - - +
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Residues in contact with LEU 204 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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128A LEU* 5.2 4.9 - - + -
132A LEU* 3.9 43.5 - - + +
135A ILE* 4.9 9.4 - - + -
136A ILE* 4.0 14.4 - - + -
141A PHE* 3.2 32.5 - - + -
144A LEU* 5.2 0.2 - - - +
168A SER* 3.3 24.5 + - - +
169A LEU* 3.7 45.8 - - + +
172A GLY* 3.6 5.0 - - - -
200A GLN 2.8 14.5 + - - +
201A ILE* 3.5 7.0 - - - +
203A GLY* 1.3 75.2 - - - +
205A CYS* 1.3 60.1 + - - +
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Residues in contact with CYS 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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135A ILE* 3.8 26.5 - - - -
141A PHE* 4.7 3.6 - - - -
201A ILE* 3.0 21.2 + - - +
202A ALA* 3.6 2.7 - - - +
204A LEU* 1.3 81.5 - - - +
206A HIS* 1.3 62.2 + - - +
207A ASP 3.2 4.4 + - - -
208A LEU* 3.3 40.0 + - + +
237A SER* 3.8 6.8 - - - +
241A PHE* 3.8 30.3 - - + -
244A LEU* 5.0 0.2 - - - -
268A ILE* 5.5 0.2 - - + -
272A ILE* 4.0 9.8 - - + +
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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