Contacts of the helix formed by residues 191 - 205 (chain A) in PDB entry 3ZG6
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 191 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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129A GLU 4.2 6.5 - - - +
130A LEU* 3.3 23.6 - - + +
132A GLY* 5.7 1.6 - - - +
138A GLU* 5.8 4.3 - - - +
145A GLN* 6.0 2.7 - - - +
184A LEU* 4.3 9.6 - - + -
189A SER 3.8 0.9 - - - +
190A LEU* 1.3 82.4 - - + +
192A ASP* 1.3 60.3 + - - +
193A ARG 3.3 2.4 + - - +
194A ASP* 3.4 31.8 + - + +
195A LEU* 2.9 30.4 + - - +
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Residues in contact with ASP 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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143A LYS* 3.6 25.2 + - - +
190A LEU 3.2 7.8 + - - +
191A PRO* 1.3 71.3 - - - +
193A ARG* 1.3 59.7 + - + +
195A LEU* 4.0 4.4 - - - +
196A ALA* 3.0 30.5 + - - +
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Residues in contact with ARG 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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124A ARG 5.2 6.9 + - - -
125A ASP* 5.1 15.8 + - - +
127A LEU 5.5 3.4 + - - -
191A PRO* 3.3 1.0 - - - +
192A ASP* 1.3 79.6 - - + +
194A ASP* 1.3 81.0 + - - +
196A ALA* 3.9 4.8 - - - +
197A LEU* 3.0 50.1 + - + +
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Residues in contact with ASP 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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127A LEU 4.3 4.3 - - - +
128A ALA* 3.5 15.0 - - + +
129A GLU* 3.0 29.9 + - - +
130A LEU* 3.7 12.3 - - + -
145A GLN* 5.3 6.6 + - - -
191A PRO* 3.4 31.0 + - + +
193A ARG* 1.3 90.3 + - - +
195A LEU* 1.3 57.2 + - - +
197A LEU* 3.4 5.1 + - - +
198A ALA* 2.9 29.5 + - - +
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Residues in contact with LEU 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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130A LEU* 3.6 13.1 - - + +
190A LEU* 4.0 26.0 - - + +
191A PRO 2.9 18.4 + - - +
192A ASP* 4.0 4.7 - - - +
194A ASP* 1.3 75.0 - - - +
196A ALA* 1.3 55.4 + - - +
198A ALA* 3.2 0.4 + - - -
199A ASP* 2.7 41.7 + - + +
219A PRO* 4.3 19.1 - - + -
223A LEU* 4.3 24.7 - - + -
7F ALA* 3.8 28.9 - - + -
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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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192A ASP 3.0 19.5 + - - +
193A ARG* 3.9 6.1 - - - +
195A LEU* 1.3 77.7 - - - +
197A LEU* 1.3 60.3 + - + +
199A ASP* 3.7 6.0 - - - +
200A GLU* 2.9 29.5 + - - +
203A ARG* 4.8 1.9 + - - -
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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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107A PHE* 3.8 26.7 - - + -
125A ASP 5.8 2.5 - - - +
127A LEU 5.9 1.8 - - - +
193A ARG* 3.0 61.6 + - + +
194A ASP* 3.8 4.9 - - - +
196A ALA* 1.3 76.2 - - + +
198A ALA* 1.3 60.7 + - - +
200A GLU* 3.2 19.8 + - - +
201A ALA* 2.9 30.3 + - - +
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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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107A PHE* 3.9 11.3 - - - -
109A VAL* 3.7 24.1 - - + +
128A ALA* 3.8 9.9 - - + -
130A LEU* 4.2 4.7 - - + -
194A ASP 2.9 18.4 + - - +
195A LEU 3.7 3.4 - - - +
197A LEU* 1.3 77.0 - - - +
199A ASP* 1.3 62.7 + - - +
201A ALA* 3.4 1.0 + - - +
202A SER* 2.9 30.6 + - - -
223A LEU* 3.8 16.6 - - + -
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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 LEU* 2.7 27.6 + - + +
196A ALA* 3.7 6.1 - - - +
198A ALA* 1.3 72.0 - - - +
200A GLU* 1.3 63.8 + - - +
202A SER* 3.2 2.0 + - - -
203A ARG* 2.9 58.6 + - - +
223A LEU* 3.6 26.0 - - + +
226A ALA* 5.2 3.5 - - - +
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Residues in contact with GLU 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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196A ALA 2.9 17.1 + - - +
197A LEU* 3.2 18.6 + - - +
199A ASP* 1.3 77.8 - - - +
201A ALA* 1.3 63.6 + - - +
203A ARG* 3.4 25.1 + - - +
204A ASN* 3.0 45.6 + - - +
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Residues in contact with ALA 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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44A SER* 4.9 0.7 + - - -
46A VAL* 3.5 19.2 - - + +
106A ARG* 5.1 6.0 - - + +
107A PHE* 3.7 38.8 - - + -
197A LEU 2.9 16.3 + - - +
198A ALA 3.9 2.0 - - - +
200A GLU* 1.3 78.4 + - - +
202A SER* 1.3 57.9 + - - +
204A ASN* 3.3 4.1 + - - +
205A ALA 3.0 24.3 + - - -
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Residues in contact with SER 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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46A VAL* 4.4 4.0 - - - +
48A HIS* 3.4 23.9 - - - -
109A VAL* 4.5 0.9 - - - +
198A ALA 2.9 21.5 + - - -
199A ASP* 3.7 4.3 - - - -
201A ALA* 1.3 74.8 - - - +
203A ARG* 1.3 66.9 + - - +
204A ASN 3.3 0.7 + - - -
205A ALA* 3.4 8.5 + - - -
208A SER* 4.8 2.2 - - - -
223A LEU* 3.3 34.4 - - - +
226A ALA* 3.9 5.8 - - - -
227A THR* 3.0 28.9 + - - -
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Residues in contact with ARG 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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196A ALA 4.8 1.4 + - - -
199A ASP* 2.9 42.6 + - - +
200A GLU* 3.6 39.6 + - - +
202A SER* 1.3 77.9 - - - +
204A ASN* 1.3 72.3 + - - +
205A ALA 3.5 0.2 - - - -
226A ALA* 3.9 22.7 - - + +
229A ARG* 6.2 2.0 - - - -
230A ARG* 3.0 23.1 - - - +
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Residues in contact with ASN 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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44A SER* 3.9 11.5 + - - +
106A ARG* 5.4 6.0 + - - +
200A GLU* 3.0 38.1 + - - +
201A ALA* 3.7 4.5 - - - +
202A SER 3.1 0.4 - - - -
203A ARG* 1.3 93.7 + - - +
205A ALA* 1.3 66.7 + - - +
206A ASP* 3.6 1.6 + - - +
230A ARG* 4.0 15.8 + - - +
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Residues in contact with ALA 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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44A SER* 3.5 19.5 - - - +
46A VAL* 3.8 13.5 - - + -
201A ALA 3.0 15.9 + - - +
202A SER 3.4 9.7 + - - +
204A ASN* 1.3 83.0 - - - +
206A ASP* 1.3 59.6 + - - +
207A LEU 3.6 15.0 - - - +
208A SER* 4.1 0.2 - - - +
227A THR* 3.2 23.2 - - + +
230A ARG* 3.1 14.8 + - - -
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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