Contacts of the helix formed by residues 197 - 215 (chain A) in PDB entry 1I6P
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 ASN 197 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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168A TRP* 3.5 24.5 - - + +
195A ALA 3.6 0.8 - - - -
196A THR* 1.3 90.9 + - - +
198A ARG* 1.3 66.0 + - - +
199A GLU* 3.0 14.7 + - - +
200A THR* 2.8 39.0 + - - +
201A LEU* 3.0 22.9 + - - +
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Residues in contact with ARG 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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165A GLN* 2.5 70.9 + - - +
168A TRP* 3.5 28.8 - - - +
169A LYS* 3.0 33.9 - - - +
197A ASN* 1.3 76.9 - - - +
199A GLU* 1.3 62.2 + - - +
201A LEU* 3.5 5.4 - - - +
202A GLU* 3.5 24.9 + - - +
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Residues in contact with GLU 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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197A ASN* 3.0 13.1 + - - +
198A ARG* 1.3 76.5 - - - +
200A THR* 1.3 71.0 + - + +
201A LEU 3.3 0.3 + - - -
202A GLU* 3.3 7.6 + - - +
203A GLN* 3.0 28.6 + - + +
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Residues in contact with THR 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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194A THR 4.4 1.6 - - - -
195A ALA* 4.3 2.0 - - - -
196A THR* 2.9 40.7 + - - +
197A ASN* 2.8 28.5 + - - +
199A GLU* 1.3 75.3 - - + +
201A LEU* 1.3 59.1 + - - +
203A GLN* 3.7 16.8 - - - +
204A ARG* 2.8 47.2 + - + +
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Residues in contact with LEU 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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155A VAL* 4.0 26.7 - - + +
156A TYR* 4.2 16.8 - - + -
159A GLY* 3.6 30.7 - - - +
160A HIS* 3.6 28.0 - - + +
165A GLN* 4.3 4.3 - - - +
168A TRP* 4.1 7.6 - - + -
176A ILE* 5.3 0.2 - - + -
193A VAL 5.4 1.9 - - - +
195A ALA* 3.6 22.7 - - + -
197A ASN 3.0 18.7 + - - +
198A ARG* 3.5 7.2 - - - +
199A GLU 3.1 0.4 - - - -
200A THR* 1.3 77.1 + - - +
202A GLU* 1.3 64.8 + - - +
204A ARG* 4.4 0.5 - - - +
205A TYR* 3.1 27.0 + - + +
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Residues in contact with GLU 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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156A TYR* 2.6 24.7 + - - -
160A HIS* 2.8 35.0 + - - -
198A ARG 3.5 13.2 - - - +
199A GLU* 3.3 7.7 + - - +
201A LEU* 1.3 85.2 - - - +
203A GLN* 1.3 63.9 + - - +
205A TYR* 3.7 3.7 - - - +
206A ARG* 3.3 48.8 + - - +
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Residues in contact with GLN 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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199A GLU* 3.0 24.6 + - + +
200A THR* 4.0 12.7 - - - +
202A GLU* 1.3 79.5 - - - +
204A ARG* 1.3 77.8 + - - +
206A ARG* 3.4 7.3 + - - +
207A HIS* 3.0 26.0 + - + +
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Residues in contact with ARG 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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192A ASP* 2.7 47.3 + - - +
193A VAL* 3.6 29.3 - - - +
194A THR* 3.1 22.1 + - - +
200A THR* 2.8 35.5 + - - +
201A LEU 4.4 0.4 - - - +
203A GLN* 1.3 88.5 + - - +
205A TYR* 1.3 60.4 + - - +
207A HIS* 3.3 24.7 + - - +
208A GLY* 2.8 27.5 + - - -
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Residues in contact with TYR 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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129A LYS* 3.2 18.8 + - - -
130A HIS* 4.1 4.7 - - - -
152A MET* 4.2 16.3 - - + +
153A GLU* 2.7 35.5 + - - -
156A TYR* 3.6 52.7 - + + -
193A VAL* 4.7 9.3 + - + +
201A LEU* 3.1 21.9 + - + +
202A GLU 3.7 3.4 - - - +
203A GLN 3.2 0.2 - - - -
204A ARG* 1.3 76.4 - - - +
206A ARG* 1.3 79.8 + - + +
208A GLY* 3.2 3.3 + - - -
209A ILE* 3.1 44.4 + - + +
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Residues in contact with ARG 206 (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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156A TYR* 4.4 4.6 + - - -
202A GLU* 3.3 45.6 + - - +
203A GLN* 3.4 9.1 + - - +
204A ARG 3.4 0.2 - - - -
205A TYR* 1.3 91.9 - - + +
207A HIS* 1.3 58.0 + - - +
209A ILE* 3.3 7.9 + - - +
210A SER* 2.9 30.9 + - - -
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Residues in contact with HIS 207 (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* 2.5 41.1 + - - -
203A GLN* 3.0 17.6 + - + +
204A ARG* 3.3 34.0 + - - +
205A TYR 3.1 0.2 - - - -
206A ARG* 1.3 75.7 - - - +
208A GLY* 1.3 61.7 + - - +
210A SER* 3.2 9.8 + - - -
211A ASN* 2.9 58.2 + - - -
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Residues in contact with GLY 208 (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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152A MET* 3.4 33.3 - - - +
191A LEU 4.4 3.4 - - - -
193A VAL* 4.0 5.4 - - - -
204A ARG 2.8 17.2 + - - -
205A TYR 3.2 3.3 + - - -
207A HIS* 1.3 77.3 - - - +
209A ILE* 1.3 60.4 + - - +
211A ASN* 3.4 16.8 + - - +
212A LEU* 3.5 11.1 + - - +
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Residues in contact with ILE 209 (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 HIS* 3.8 19.1 - - + +
133A LEU* 3.8 19.4 - - + +
149A LEU* 3.6 27.6 - - + -
152A MET* 4.1 11.9 - - + -
153A GLU* 4.7 0.4 - - - +
205A TYR* 3.1 37.8 + - + +
206A ARG* 3.7 8.7 - - - +
208A GLY* 1.3 75.2 - - - +
210A SER* 1.3 62.2 + - - +
212A LEU* 3.1 17.0 + - - +
213A LYS* 3.3 17.8 + - + +
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Residues in contact with SER 210 (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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206A ARG 2.9 17.1 + - - -
207A HIS* 3.2 9.6 + - - -
209A ILE* 1.3 72.9 - - - +
211A ASN* 1.3 62.5 + - - +
212A LEU 3.0 4.9 - - - -
213A LYS* 3.0 27.1 + - - +
214A LEU* 3.4 16.5 + - - +
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Residues in contact with ASN 211 (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 5.2 0.8 + - - -
192A ASP* 4.3 6.5 + - - +
207A HIS* 2.9 62.0 + - - +
208A GLY* 3.7 9.0 - - - +
209A ILE 3.4 0.2 - - - -
210A SER* 1.3 75.9 + - - +
212A LEU* 1.3 60.5 + - + +
214A LEU* 3.8 18.8 + - - +
215A LYS* 3.3 23.4 + - - +
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Residues in contact with LEU 212 (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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133A LEU* 4.3 7.2 - - + -
137A MET* 3.1 27.8 - - + +
145A THR* 4.2 13.0 - - + +
148A GLU* 3.6 24.0 - - + +
149A LEU* 3.5 39.5 - - + +
152A MET* 4.4 14.1 - - + -
191A LEU* 6.4 0.4 - - + -
208A GLY 3.5 14.4 - - - +
209A ILE* 3.1 8.5 + - - +
210A SER 3.0 0.6 - - - -
211A ASN* 1.3 79.9 - - + +
213A LYS* 1.3 66.9 + - - +
214A LEU 3.0 3.4 + - - -
215A LYS* 3.3 28.8 + - + +
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Residues in contact with LYS 213 (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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132A SER* 4.9 6.1 - - - -
133A LEU* 4.1 35.3 - - + +
136A GLU* 3.8 41.5 + - - +
137A MET* 4.8 5.5 - - - +
209A ILE* 3.3 16.7 + - + +
210A SER* 3.0 15.2 + - - +
212A LEU* 1.3 79.1 - - - +
214A LEU* 1.3 68.1 + - + +
215A LYS 5.0 0.2 - - - -
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Residues in contact with LEU 214 (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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210A SER* 3.4 20.4 - - - +
211A ASN* 3.8 19.7 - - - +
213A LYS* 1.3 84.6 - - + +
215A LYS* 1.3 70.0 + - - +
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Residues in contact with LYS 215 (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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137A MET* 4.6 21.8 - - - -
141A ARG* 4.4 36.4 + - - +
144A ASP* 5.3 4.0 - - - +
145A THR* 3.8 20.0 + - - +
148A GLU* 3.1 32.7 + - - +
189A ARG* 4.7 17.0 - - - +
211A ASN 3.3 16.0 + - - +
212A LEU* 3.7 28.5 - - + +
213A LYS 5.0 0.2 - - - -
214A LEU* 1.3 86.5 - - - +
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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