Contacts of the helix formed by residues 232 - 248 (chain C) in PDB entry 6TXA
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 THR 232 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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218C ASP* 4.2 6.7 - - - -
230C LYS 5.4 0.9 - - - -
231C TRP* 1.3 97.8 - - - +
233C HIS* 1.3 65.2 + - - +
234C GLU* 3.2 19.6 + - - +
235C GLN* 3.3 35.2 + - - +
236C GLY 3.3 15.8 + - - -
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Residues in contact with HIS 233 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206C HIS* 4.4 2.6 + - - -
207C ASP* 2.5 38.3 + - - -
209C GLY* 3.6 15.5 - - - +
210C HIS* 3.2 46.6 + + + +
215C HIS* 3.8 14.4 - + - -
218C ASP* 3.2 23.8 + - + +
231C TRP* 4.5 3.6 - - + -
232C THR* 1.3 73.6 - - - +
234C GLU* 1.3 91.6 + - + +
236C GLY* 3.3 3.8 + - - -
237C SER* 2.9 27.5 + - - -
311C ASP* 5.4 3.7 + - - -
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Residues in contact with GLU 234 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
206C HIS 5.1 1.6 - - - +
218C ASP* 5.0 0.2 - - - +
232C THR* 3.4 21.1 + - - +
233C HIS* 1.3 106.9 + - - +
235C GLN* 1.3 65.1 + - - +
237C SER* 2.9 20.6 + - - -
238C VAL* 3.1 10.6 + - - +
272C ILE* 4.0 21.4 - - + +
273C VAL* 3.3 24.9 - - + +
302C SER* 5.9 0.4 - - - +
304C LYS* 5.4 6.6 + - - +
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Residues in contact with GLN 235 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
230C LYS* 3.3 26.6 + - - +
231C TRP* 3.7 19.5 - - + +
232C THR* 3.3 31.2 + - - +
234C GLU* 1.3 78.0 - - - +
236C GLY* 1.3 61.9 + - - +
238C VAL* 3.4 5.1 + - - +
239C MET* 3.2 29.0 + - - +
273C VAL* 3.7 13.0 - - + +
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Residues in contact with GLY 236 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
209C GLY* 3.6 12.1 - - - -
231C TRP* 4.0 20.3 - - - +
232C THR 3.3 8.2 + - - -
233C HIS 3.5 4.7 - - - -
234C GLU 3.1 0.6 - - - -
235C GLN* 1.3 80.6 - - - +
237C SER* 1.3 55.1 + - - +
239C MET* 3.3 8.0 + - - +
240C MET* 2.8 32.4 + - - +
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Residues in contact with SER 237 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
205C CYS 3.8 11.8 - - - +
206C HIS 2.9 27.2 + - - -
207C ASP* 3.5 2.1 - - - -
208C LEU* 3.3 6.7 + - - +
209C GLY* 2.9 25.1 + - - +
233C HIS 2.9 11.9 + - - -
234C GLU 2.9 9.7 + - - -
236C GLY* 1.3 73.8 - - - +
238C VAL* 1.3 56.1 + - - +
240C MET* 3.6 0.7 - - - +
241C PHE* 2.7 37.1 + - - +
272C ILE* 3.9 9.4 - - - -
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Residues in contact with VAL 238 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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234C GLU 3.1 3.2 + - - +
235C GLN* 3.6 8.5 - - - +
236C GLY 3.3 0.2 - - - -
237C SER* 1.3 76.0 - - - +
239C MET* 1.3 66.7 + - + +
241C PHE* 3.3 6.6 + - - +
242C GLU* 3.1 22.2 + - - +
269C LYS* 3.7 47.8 - - + +
272C ILE* 4.4 7.0 - - + -
273C VAL* 3.4 40.8 - - + -
276C LEU* 4.9 6.7 - - + -
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Residues in contact with MET 239 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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231C TRP* 5.2 9.4 - - - -
235C GLN* 3.2 17.7 + - - +
236C GLY* 3.7 9.4 - - - +
238C VAL* 1.3 79.8 - - + +
240C MET* 1.3 58.6 + - - +
242C GLU* 3.4 8.5 + - - +
243C HIS* 3.0 27.1 + - - +
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Residues in contact with MET 240 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C GLN* 3.6 35.0 - - + +
143C ARG* 4.5 27.6 - - - +
208C LEU* 3.8 35.4 - - + +
209C GLY* 4.7 2.0 - - - +
236C GLY 2.8 21.6 + - - +
237C SER 3.9 2.5 - - - +
239C MET* 1.3 71.4 - - - +
241C PHE* 1.3 59.1 + - - +
243C HIS* 3.4 13.6 + - + -
244C LEU* 2.9 27.5 + - - +
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Residues in contact with PHE 241 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135C ILE* 5.1 3.1 - - + -
201C ILE* 3.8 24.5 - - + -
205C CYS* 3.8 26.5 - - + -
208C LEU* 4.0 10.0 - - + +
237C SER 2.7 23.2 + - - +
238C VAL* 3.5 5.2 - - - +
240C MET* 1.3 69.9 - - - +
242C GLU* 1.3 66.3 + - - +
244C LEU* 3.2 7.3 + - + +
245C ILE* 3.0 55.5 + - + +
254C MET* 5.5 1.3 - - + -
265C ILE* 4.1 21.1 - - + -
268C ILE* 3.5 40.6 - - + -
269C LYS* 4.2 18.2 - - + -
272C ILE* 5.3 3.6 - - + -
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Residues in contact with GLU 242 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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238C VAL 3.1 13.0 + - - +
239C MET* 3.5 11.4 - - - +
241C PHE* 1.3 76.1 - - - +
243C HIS* 1.3 62.5 + - - +
245C ILE* 3.3 8.6 + - - +
246C ASN* 3.0 54.5 + - - +
251C LYS* 4.6 7.1 + - - -
265C ILE* 4.2 9.6 - - - +
269C LYS* 2.8 36.2 + - - +
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Residues in contact with HIS 243 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C GLN* 3.4 32.3 + - + -
239C MET 3.0 16.0 + - - +
240C MET* 3.7 15.9 - - + +
242C GLU* 1.3 75.3 - - - +
244C LEU* 1.3 52.6 + - - +
246C ASN* 4.7 5.4 - - - +
247C SER* 2.7 59.7 + - - -
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Residues in contact with LEU 244 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C ILE* 4.0 29.6 - - + +
138C THR* 3.4 38.8 - - + +
140C GLN* 3.8 20.6 - - + +
141C PHE* 4.1 7.6 - - + +
205C CYS* 5.0 1.1 - - - -
208C LEU* 4.0 20.6 - - + -
240C MET 2.9 13.8 + - - +
241C PHE* 3.4 11.0 - - + +
243C HIS* 1.3 76.2 - - - +
245C ILE* 1.3 69.0 + - + +
247C SER* 4.0 0.9 - - - -
248C ASN* 2.8 35.0 + - - +
250C ILE* 4.1 13.2 - - + -
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Residues in contact with ILE 245 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135C ILE* 5.1 4.0 - - + -
241C PHE* 3.0 53.3 + - + +
242C GLU* 3.6 10.1 - - - +
244C LEU* 1.3 79.9 - - + +
246C ASN* 1.3 62.7 + - - +
249C GLY* 3.2 19.6 + - - -
250C ILE* 3.2 39.0 + - + -
251C LYS* 3.7 44.0 + - + +
254C MET* 4.1 9.0 - - - -
265C ILE* 4.1 10.8 - - + -
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Residues in contact with ASN 246 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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242C GLU* 3.0 45.2 + - - +
243C HIS* 4.2 5.2 - - - +
245C ILE* 1.3 79.1 - - - +
247C SER* 1.3 62.9 + - - +
248C ASN 3.2 1.2 + - - -
249C GLY* 3.7 6.9 + - - -
251C LYS* 3.2 27.4 + - - -
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Residues in contact with SER 247 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C GLN* 3.7 13.9 + - - -
243C HIS* 2.7 40.6 + - - -
246C ASN* 1.3 77.2 - - - +
248C ASN* 1.3 75.7 + - - +
249C GLY 3.8 0.4 - - - -
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Residues in contact with ASN 248 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134C ARG* 3.9 16.4 + - - +
137C ASN 5.4 0.2 - - - +
138C THR* 3.6 25.5 - - + +
139C PRO* 4.1 10.6 - - - +
140C GLN* 3.0 25.1 + - - -
244C LEU 2.8 28.0 + - - +
246C ASN 3.2 0.4 - - - -
247C SER* 1.3 87.5 + - - +
249C GLY* 1.3 66.7 + - - +
250C ILE* 3.4 19.5 + - + +
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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