Contacts of the helix formed by residues 205 - 225 (chain A) in PDB entry 1AN4
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 205 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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204A HIS* 1.3 86.1 + - + +
206A GLU* 1.3 61.7 + - - +
207A VAL 3.4 0.3 + - - -
208A GLU* 4.0 7.7 + - - +
209A ARG* 4.0 19.5 + - - +
332D C 4.5 0.2 + - - -
333D G 2.5 34.7 + - - +
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Residues in contact with GLU 206 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A ALA* 6.1 1.9 - - - +
204A HIS 3.0 2.8 + - - -
205A ASN* 1.3 76.4 - - - +
207A VAL* 1.3 63.1 + - + +
210A ARG* 3.2 43.3 + - - +
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Residues in contact with VAL 207 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202A ALA 4.5 5.8 - - - +
203A GLN* 3.4 41.7 - - + +
204A HIS 2.8 16.4 + - - +
206A GLU* 1.3 77.4 - - + +
208A GLU* 1.3 66.7 + - + +
210A ARG* 3.1 36.3 + - - +
211A ARG* 4.0 2.1 + - - +
306C G 4.2 13.0 - - - -
307C G 4.2 15.6 + - - +
308C T 4.4 19.0 + - + +
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Residues in contact with GLU 208 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
204A HIS 3.9 4.7 + - - +
205A ASN 4.0 1.7 + - - +
206A GLU 3.7 0.4 - - - -
207A VAL* 1.3 77.7 - - + +
209A ARG* 1.3 55.0 + - - +
210A ARG 2.5 4.4 + - - -
211A ARG* 2.4 67.2 + - - +
212A ARG* 3.0 36.8 + - - +
308C T 3.5 14.9 - - - +
309C C 2.5 34.0 + - - -
334D T 3.5 19.4 - - + +
335D G 3.8 3.8 - - - +
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Residues in contact with ARG 209 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205A ASN 4.0 15.7 + - - +
208A GLU* 1.3 76.4 - - - +
210A ARG* 1.3 54.0 + - - +
211A ARG 3.0 0.4 - - - -
212A ARG* 3.4 22.1 - - - +
213A ASP* 2.6 67.4 + - + +
332D C 3.5 50.2 + - - +
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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
----------------------------------------------------------
206A GLU* 3.2 51.4 + - - +
207A VAL* 3.1 29.7 + - - +
208A GLU 2.5 8.1 + - - -
209A ARG* 1.3 77.7 - - - +
211A ARG* 1.3 47.8 + - - +
213A ASP* 4.0 3.2 - - - +
214A LYS* 2.7 34.1 + - + +
307C G 3.3 27.1 + - - -
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Residues in contact with ARG 211 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
207A VAL 4.0 1.5 + - - +
208A GLU* 2.4 44.6 + - - +
210A ARG* 1.3 65.9 - - - +
212A ARG* 1.3 79.0 + - + +
214A LYS* 2.7 29.1 + - - +
215A ILE* 3.3 20.2 + - - +
240B LYS* 6.2 0.8 - - - +
308C T 3.1 55.3 + - + +
309C C 2.5 76.4 + - - +
310C A 4.5 5.7 + - - -
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Residues in contact with ARG 212 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
208A GLU* 3.0 40.8 + - + +
209A ARG* 3.4 30.3 - - - +
211A ARG* 1.3 80.0 - - + +
213A ASP* 1.3 53.2 + - - +
214A LYS 2.5 1.9 + - - -
215A ILE* 2.4 48.8 + - + +
216A ASN* 3.2 3.1 + - - -
309C C 4.7 1.4 - - - +
310C A 4.0 12.3 + - - +
332D C 4.8 21.8 - - - +
333D G 2.6 40.5 + - - -
334D T 3.3 9.7 + - - +
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Residues in contact with ASP 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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209A ARG* 2.6 49.6 + - + +
210A ARG* 4.0 4.5 - - - +
212A ARG* 1.3 75.9 - - - +
214A LYS* 1.3 54.6 + - - +
216A ASN* 2.8 34.5 + - - +
217A ASN* 3.7 3.1 + - - +
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Residues in contact with LYS 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* 2.7 28.0 + - + +
211A ARG* 2.7 21.0 + - - +
212A ARG 2.5 5.9 + - - -
213A ASP* 1.3 71.5 - - - +
215A ILE* 1.3 55.0 + - - +
216A ASN 2.7 11.3 + - - -
217A ASN* 2.9 17.7 + - - +
218A TRP* 4.0 4.0 + - - +
308C T 4.6 19.1 + - - +
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Residues in contact with ILE 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 ARG* 3.3 31.2 + - - +
212A ARG* 2.4 27.5 + - + +
214A LYS* 1.3 74.0 - - - +
216A ASN* 1.3 57.0 + - - +
218A TRP* 2.5 48.3 + - + +
219A ILE* 2.7 17.2 - - + +
240B LYS* 4.5 17.0 - - + +
241B GLY* 4.5 7.2 - - - +
244B LEU* 3.5 19.5 - - + -
309C C 4.3 7.0 - - - +
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Residues in contact with ASN 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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212A ARG 3.2 3.4 + - - +
213A ASP* 2.8 24.5 + - - +
214A LYS 2.7 7.3 + - - -
215A ILE* 1.3 76.0 - - - +
217A ASN* 1.3 60.0 + - + +
218A TRP 3.4 1.2 + - - -
219A ILE* 3.6 15.8 + - - +
220A VAL* 2.9 26.3 + - - +
240A LYS* 5.2 4.2 - - - +
331D A 3.1 26.3 + - - -
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Residues in contact with ASN 217 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
213A ASP 3.7 3.2 + - - +
214A LYS 2.9 9.7 + - - +
216A ASN* 1.3 79.3 - - - +
218A TRP* 1.3 57.3 + - - -
220A VAL* 2.7 33.1 - - - +
221A GLN* 3.7 17.6 + - - +
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Residues in contact with TRP 218 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
214A LYS 4.0 2.5 + - - +
215A ILE* 2.5 54.4 + - + +
217A ASN* 1.3 76.0 - - - +
219A ILE* 1.4 94.0 + - + +
220A VAL 3.4 0.2 - - - -
221A GLN* 2.8 27.3 - - - +
222A LEU* 2.9 42.9 - - + +
218B TRP* 4.0 27.4 - + - -
240B LYS* 4.6 10.5 - - - -
244B LEU* 3.2 62.7 - - + +
245B SER* 4.7 5.2 - - - +
248B SER* 4.4 7.0 - - - +
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Residues in contact with ILE 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 ILE* 2.7 40.8 - - + +
216A ASN* 3.7 23.1 - - - +
218A TRP* 1.4 110.2 - - + +
220A VAL* 1.3 53.6 + - - +
221A GLN 2.6 17.6 + - - -
222A LEU* 3.0 19.8 + - + +
223A SER* 3.3 10.8 + - - -
240A LYS* 4.1 45.3 - - + +
243A ILE* 5.7 3.4 - - + -
218B TRP* 5.9 2.2 - - + -
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Residues in contact with VAL 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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216A ASN* 2.9 20.6 + - - +
217A ASN* 2.7 41.3 - - - +
219A ILE* 1.3 73.3 - - - +
221A GLN* 1.3 64.8 + - - +
223A SER* 4.0 9.9 - - - -
224A LYS* 3.5 18.5 + - + +
240A LYS* 6.3 0.4 - - - -
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Residues in contact with GLN 221 (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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217A ASN* 3.7 15.8 + - - +
218A TRP* 2.8 29.8 + - - +
219A ILE 2.6 4.8 + - - -
220A VAL* 1.3 78.9 - - - +
222A LEU* 1.3 73.3 + - + +
224A LYS* 3.7 0.9 - - - +
225A ILE* 2.8 30.3 + - + +
248B SER* 3.3 22.2 + - - +
251B ILE* 5.3 12.1 - - + -
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Residues in contact with LEU 222 (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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218A TRP* 2.9 48.2 - - + +
219A ILE* 3.5 8.3 - - + +
221A GLN* 1.3 82.6 - - + +
223A SER* 1.3 57.8 + - - +
225A ILE* 2.6 8.0 + - - +
226A ILE* 2.5 66.4 + - + -
243A ILE* 5.7 1.1 - - + -
247A ALA* 5.0 8.3 - - + -
251A ILE* 4.5 9.6 - - + -
247B ALA* 4.7 8.7 - - + +
248B SER* 5.3 2.2 - - - +
251B ILE* 4.1 21.8 - - + -
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Residues in contact with SER 223 (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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219A ILE* 3.3 12.1 + - - +
220A VAL* 4.0 10.5 - - - -
222A LEU* 1.3 79.7 - - - +
224A LYS* 1.3 64.4 + - - +
226A ILE 3.2 18.0 - - - +
228A ASP* 5.0 0.7 + - - +
240A LYS* 3.2 32.3 + - - +
243A ILE* 3.5 25.4 - - - +
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Residues in contact with LYS 224 (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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220A VAL* 3.5 14.1 + - + +
221A GLN 3.0 3.3 + - - +
222A LEU 3.0 0.4 + - - -
223A SER* 1.3 79.6 - - - +
225A ILE* 1.3 71.6 + - + +
226A ILE 3.3 5.9 + - - -
227A PRO* 4.6 3.1 - - - +
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Residues in contact with ILE 225 (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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221A GLN* 2.8 24.0 + - + +
222A LEU* 2.6 10.5 + - - +
224A LYS* 1.3 86.0 - - + +
226A ILE* 1.3 57.0 + - + +
227A PRO* 3.8 8.2 - - - +
250A TYR* 5.1 4.5 - - - -
251B ILE* 3.6 30.2 - - + +
255B ARG* 3.3 43.1 - - + +
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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
------------------------------------------------------------
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