Contacts of the helix formed by residues 201 - 220 (chain A) in PDB entry 1TQ6
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 ASP 201 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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192A GLU* 4.7 0.2 - - - +
199A THR 4.3 0.6 + - - -
200A PHE* 1.3 82.8 - - - +
202A LYS* 1.3 57.5 + - - +
203A GLU* 2.5 56.3 + - - +
204A LYS* 3.0 31.1 + - + +
205A VAL* 2.8 40.1 + - - +
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Residues in contact with LYS 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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189A ILE* 3.6 33.4 - - + -
200A PHE* 3.3 34.0 + - - -
201A ASP* 1.3 75.6 + - - +
203A GLU* 1.3 81.2 + - + +
205A VAL* 4.2 3.6 - - - -
206A LEU* 2.8 41.6 + - + +
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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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201A ASP* 2.5 39.6 + - - +
202A LYS* 1.3 99.8 - - + +
204A LYS* 1.3 55.1 + - + +
206A LEU* 3.4 11.6 - - + +
207A GLN* 3.1 27.9 + - - +
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Residues in contact with LYS 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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201A ASP* 3.0 33.2 + - + +
203A GLU* 1.3 76.1 - - + +
205A VAL* 1.3 66.7 + - + +
207A GLN* 3.2 9.8 + - - +
208A ASP* 3.0 31.0 + - - +
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Residues in contact with VAL 205 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
188A ASP* 4.1 22.4 - - + +
189A ILE* 4.3 7.4 - - + -
192A GLU* 3.7 36.6 - - + +
200A PHE* 4.3 4.3 - - + -
201A ASP 2.8 28.8 + - - +
202A LYS* 3.7 6.5 - - - +
204A LYS* 1.3 72.2 - - + +
206A LEU* 1.3 64.8 + - - +
208A ASP* 3.3 9.6 + - - +
209A ILE* 3.0 46.2 + - + +
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Residues in contact with LEU 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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185A VAL* 3.4 33.7 - - + -
189A ILE* 3.6 19.5 - - + -
202A LYS* 2.8 25.8 + - + +
203A GLU* 3.4 11.2 - - + +
205A VAL* 1.3 76.0 - - - +
207A GLN* 1.3 64.5 + - - +
209A ILE* 3.0 9.7 + - + +
210A ARG* 3.0 28.1 + - - +
229A LEU* 3.7 14.6 - - + +
238A TYR* 4.4 22.4 - - + -
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Residues in contact with GLN 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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203A GLU 3.1 11.4 + - - +
204A LYS* 3.2 11.6 + - - +
206A LEU* 1.3 79.8 - - - +
208A ASP* 1.3 67.2 + - - +
210A ARG* 3.1 13.9 + - + +
211A LEU* 2.9 42.1 + - + +
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Residues in contact with ASP 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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204A LYS* 3.0 22.0 + - - +
205A VAL* 3.5 10.3 - - - +
207A GLN* 1.3 80.2 + - - +
209A ILE* 1.3 63.3 + - + +
211A LEU* 3.2 5.4 + - - +
212A ASN* 2.6 41.1 + - - +
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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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182A ARG* 3.7 31.4 - - - +
185A VAL* 4.2 18.6 - - + -
188A ASP* 3.6 36.3 - - + +
205A VAL* 3.0 27.6 + - + +
206A LEU* 3.4 6.7 - - - +
208A ASP* 1.3 76.9 - - + +
210A ARG* 1.3 60.8 + - - +
212A ASN* 3.5 8.4 + - + +
213A CYS* 3.2 23.6 + - - -
229A LEU* 3.9 17.9 - - + -
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Residues in contact with ARG 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 LEU* 3.0 20.7 + - - +
207A GLN* 3.1 15.3 + - - +
209A ILE* 1.3 73.8 - - - +
211A LEU* 1.3 70.4 + - + +
212A ASN 3.1 1.8 - - - -
213A CYS* 3.1 9.1 + - - +
214A VAL* 3.0 37.4 + - + +
227A ILE* 4.5 15.0 + - + +
229A LEU* 3.9 22.4 - - + +
239A ASP* 3.2 35.7 + - - -
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Residues in contact with LEU 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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207A GLN* 2.9 35.7 + - + +
208A ASP* 4.0 6.1 - - - +
210A ARG* 1.3 87.8 - - + +
212A ASN* 1.3 62.1 + - - +
214A VAL* 3.7 17.5 - - + +
215A ASN* 3.1 38.4 + - - +
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Residues in contact with ASN 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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160A PHE* 5.1 1.1 - - - -
208A ASP* 2.6 35.5 + - - +
209A ILE* 3.7 8.8 - - + +
210A ARG 3.1 0.6 - - - -
211A LEU* 1.3 82.1 + - - +
213A CYS* 1.3 61.7 + - - +
215A ASN* 4.2 5.4 + - - +
216A THR* 2.9 31.7 + - - -
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Residues in contact with CYS 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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160A PHE* 3.9 18.8 - - + -
180A PHE* 3.9 23.6 - - + -
182A ARG* 4.1 16.8 - - - -
209A ILE* 3.2 22.7 - - - -
210A ARG 3.1 7.9 + - - +
212A ASN* 1.3 77.9 - - - +
214A VAL* 1.3 65.2 + - - +
216A THR* 3.3 2.1 + - - -
217A PHE* 2.9 31.6 + - + -
227A ILE* 3.8 18.4 - - + -
229A LEU* 4.4 9.0 - - - -
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Residues in contact with VAL 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 ARG* 3.0 29.0 + - + +
211A LEU* 3.7 19.7 - - + +
212A ASN 3.3 0.2 - - - -
213A CYS* 1.3 80.0 - - - +
215A ASN* 1.3 64.9 + - - +
217A PHE* 3.3 6.0 + - - +
218A ARG* 2.8 35.5 + - + +
224A GLU* 3.2 35.3 - - - +
227A ILE* 3.8 19.7 - - + -
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Residues in contact with ASN 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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211A LEU* 3.1 23.6 + - - +
212A ASN* 4.2 5.9 + - - +
214A VAL* 1.3 80.9 - - - +
216A THR* 1.3 60.2 + - - +
218A ARG* 3.7 14.7 - - + +
219A GLU* 2.6 52.5 + - + +
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Residues in contact with THR 216 (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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160A PHE* 3.7 31.1 - - + +
165A ILE* 3.3 32.2 - - + +
212A ASN 2.9 22.4 + - - -
213A CYS 3.3 4.9 + - - -
215A ASN* 1.3 77.7 - - - +
217A PHE* 1.3 63.6 + - + +
219A GLU* 4.5 6.6 + - - -
220A ASN* 2.6 32.5 + - - +
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Residues in contact with PHE 217 (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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154A ILE* 6.3 0.2 - - + -
160A PHE* 3.9 20.0 - + - -
165A ILE* 5.1 4.3 - - + -
168A ALA* 4.2 10.3 - - + -
178A PHE* 4.1 14.8 - + - -
180A PHE* 3.5 41.1 - + + -
213A CYS 2.9 24.0 + - - -
214A VAL* 3.6 6.1 - - - +
215A ASN 3.1 0.2 - - - -
216A THR* 1.3 78.2 - - + +
218A ARG* 1.3 60.1 + - - +
220A ASN 3.4 1.0 + - - -
221A GLY 3.3 2.1 + - - -
222A ILE* 2.7 64.1 + - + +
224A GLU* 4.2 12.6 - - - -
225A PRO* 3.6 20.0 - - + -
227A ILE* 3.9 20.6 - - + -
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Residues in contact with ARG 218 (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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214A VAL* 2.8 31.1 + - - +
215A ASN* 3.7 14.3 - - - +
217A PHE* 1.3 74.7 - - - +
219A GLU* 1.3 57.1 + - + +
221A GLY* 2.7 27.6 + - - -
222A ILE 4.0 7.4 - - - -
224A GLU* 3.1 37.6 + - - +
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Residues in contact with GLU 219 (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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215A ASN* 2.6 40.7 + - + +
216A THR* 3.8 4.7 + - - +
218A ARG* 1.3 73.5 - - + +
220A ASN* 1.3 67.4 + - - +
221A GLY 3.5 1.9 + - - -
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Residues in contact with ASN 220 (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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162A LYS* 3.8 13.9 - - - +
165A ILE* 3.6 25.8 - - + +
169A LYS* 4.0 25.1 - - - +
216A THR* 2.6 31.6 + - - +
217A PHE 3.4 0.2 + - - -
218A ARG 3.1 1.0 - - - -
219A GLU* 1.3 81.3 - - - +
221A GLY* 1.3 63.8 + - - +
222A ILE* 3.3 21.8 + - + +
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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