Contacts of the helix formed by residues 212 - 225 (chain C) in PDB entry 5ZR1
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 212 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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136C SER 4.5 6.1 - - - +
137C PRO 5.0 5.3 + - - +
210C SER 3.9 1.0 + - - -
211C ILE* 1.3 86.6 - - - +
213C PHE* 1.3 63.7 + - - +
214C ASN* 4.9 0.8 - - - +
215C THR* 3.0 27.6 + - - +
216C LEU 3.5 14.0 + - - -
491D GLN* 3.3 43.5 - - - +
495D THR* 3.7 25.7 - - + +
496D MET* 4.8 5.6 - - + -
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Residues in contact with PHE 213 (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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208C VAL* 3.2 33.4 - - + -
209C ASP* 4.6 8.3 - - - -
211C ILE* 3.9 13.5 - - + -
212C ASN* 1.3 74.4 - - - +
214C ASN* 1.3 60.4 + - - +
215C THR 3.3 0.4 - - - -
216C LEU* 4.0 11.7 - - + +
217C ASP* 3.2 26.9 + - - +
247C ILE* 3.6 38.6 - - + -
250C ASN* 3.5 54.5 - - + +
251C LEU* 4.2 18.0 - - + +
495D THR* 4.8 5.0 + - - +
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Residues in contact with ASN 214 (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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212C ASN* 3.3 1.3 - - - +
213C PHE* 1.3 76.9 - - - +
215C THR* 1.3 63.7 + - - +
217C ASP* 3.9 2.2 - - - +
218C ASN* 2.8 47.7 + - - +
252C ARG* 3.9 19.2 - - - +
495D THR* 3.6 37.5 + - + +
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Residues in contact with THR 215 (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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136C SER* 4.6 5.8 - - - +
137C PRO 4.3 6.6 + - - -
138C ASN* 3.6 36.3 - - - +
139C VAL* 3.8 12.6 - - + +
142C MET* 3.6 17.5 - - - -
211C ILE* 5.2 1.6 - - - -
212C ASN* 3.0 32.7 + - - +
214C ASN* 1.3 77.3 - - - +
216C LEU* 1.3 59.3 + - - +
218C ASN* 3.3 3.2 + - - +
219C PHE* 3.0 27.5 + - - +
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Residues in contact with LEU 216 (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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142C MET* 4.8 3.8 - - + -
205C PHE* 4.2 19.5 - - + -
208C VAL* 3.7 26.5 - - + -
211C ILE* 3.8 25.4 - - + -
212C ASN 3.5 12.7 + - - +
213C PHE* 4.0 11.0 - - + -
214C ASN 3.5 0.2 - - - -
215C THR* 1.3 77.0 - - - +
217C ASP* 1.3 63.8 + - - +
219C PHE* 4.0 5.7 - - - +
220C ILE* 3.2 42.4 + - + +
238C PHE* 3.6 27.8 - - + -
247C ILE* 6.1 0.7 - - + -
251C LEU* 3.9 19.3 - - + -
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Residues in contact with ASP 217 (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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213C PHE 3.2 22.8 + - - +
214C ASN* 3.9 3.8 - - - +
215C THR 3.3 0.2 - - - -
216C LEU* 1.3 78.4 - - - +
218C ASN* 1.3 61.0 + - - +
219C PHE 3.3 0.2 + - - -
220C ILE* 3.5 4.3 + - - +
221C ILE* 3.2 25.5 + - - +
250C ASN 5.4 0.2 - - - +
251C LEU* 4.0 9.4 - - + +
252C ARG* 3.2 57.9 + - - +
255C THR* 2.4 32.0 + - - +
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Residues in contact with ASN 218 (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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139C VAL* 3.7 27.9 - - + +
214C ASN* 2.8 39.2 + - - +
215C THR* 3.3 0.4 + - - +
217C ASP* 1.3 77.1 - - - +
219C PHE* 1.3 57.1 + - - +
221C ILE* 4.1 6.9 - - - +
222C LEU* 3.2 24.9 + - - +
252C ARG* 3.2 23.9 + - - -
139E GLN* 4.8 11.2 + - + +
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Residues in contact with PHE 219 (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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131C LEU* 4.1 9.2 - - + -
139C VAL* 4.2 14.6 - - + -
142C MET* 3.6 44.2 - - + -
143C LEU* 3.8 25.6 - - + -
146C SER* 3.8 21.3 - - - -
203C PHE* 3.8 18.8 - + - -
205C PHE* 4.3 9.9 - + - -
215C THR 3.0 16.6 + - - +
216C LEU 4.0 3.8 - - - +
217C ASP 3.2 0.6 - - - -
218C ASN* 1.3 77.4 - - - +
220C ILE* 1.3 60.4 + - - +
221C ILE 3.3 0.2 - - - -
222C LEU* 3.3 11.3 + - + +
223C LEU* 2.9 55.1 + - + +
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Residues in contact with ILE 220 (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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102C PHE* 3.7 30.0 - - + -
205C PHE* 5.2 7.0 - - + -
216C LEU* 3.2 32.4 + - + +
217C ASP* 4.0 3.8 - - - +
219C PHE* 1.3 74.5 - - + +
221C ILE* 1.3 60.8 + - - +
223C LEU* 3.2 9.2 + - + +
224C LYS* 2.9 26.9 + - - +
236C LEU* 3.9 14.4 - - + -
238C PHE* 3.7 27.8 - - + -
251C LEU* 5.1 1.3 - - + -
255C THR* 4.2 20.4 - - + -
258C LEU* 4.0 10.2 - - + +
259C LEU* 4.4 10.3 - - + -
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Residues in contact with ILE 221 (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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217C ASP* 3.2 24.7 + - - +
218C ASN* 4.1 7.0 - - - +
220C ILE* 1.3 75.9 - - + +
222C LEU* 1.3 62.7 + - - +
224C LYS* 3.3 41.2 + - + +
225C SER* 3.8 7.3 + - - -
252C ARG* 3.4 31.0 - - - +
254C SER* 5.4 4.9 - - - +
255C THR* 4.0 12.3 - - + +
258C LEU* 5.4 2.9 - - + -
65E VAL* 5.6 6.9 - - + +
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Residues in contact with LEU 222 (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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139C VAL* 3.7 24.7 - - + +
143C LEU* 3.8 33.4 - - + -
185C LEU* 3.3 35.0 - - + +
218C ASN 3.2 16.1 + - - +
219C PHE* 3.4 14.8 - - + +
220C ILE 3.2 0.4 - - - -
221C ILE* 1.3 77.3 - - - +
223C LEU* 1.3 62.8 + - + +
225C SER* 3.4 14.2 + - - -
65E VAL* 4.1 15.5 - - - +
66E GLU* 4.9 1.1 - - - +
68E VAL* 3.7 26.5 - - + -
139E GLN* 3.8 16.8 - - - +
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Residues in contact with LEU 223 (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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102C PHE* 5.8 4.3 - - + -
143C LEU* 5.3 1.3 - - + -
147C MET* 5.5 0.2 - - + -
185C LEU* 4.4 22.2 - - + -
201C MET* 5.1 2.5 - - + -
203C PHE* 3.6 44.9 - - + -
205C PHE* 5.2 0.2 - - + -
219C PHE* 2.9 47.0 + - + +
220C ILE* 3.2 9.6 + - + +
222C LEU* 1.3 74.8 - - + +
224C LYS* 1.3 63.9 + - - +
225C SER 3.1 1.3 - - - -
226C ALA* 3.2 10.3 + - - +
227C PHE* 4.3 4.8 - - - -
234C ILE* 3.4 31.4 - - + +
236C LEU* 4.0 16.6 - - + -
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Residues in contact with LYS 224 (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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102C PHE* 5.4 0.4 - - - -
220C ILE 2.9 12.8 + - - +
221C ILE* 3.3 43.1 + - + +
222C LEU 3.2 0.6 - - - -
223C LEU* 1.3 76.8 - - - +
225C SER* 1.3 59.1 + - - +
226C ALA 3.1 5.5 + - - -
227C PHE* 3.4 32.2 + - + +
258C LEU* 3.7 37.7 - - + -
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Residues in contact with SER 225 (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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185C LEU* 4.5 2.5 - - - -
221C ILE 3.9 7.4 + - - -
222C LEU* 3.4 14.0 + - - -
223C LEU 3.1 0.8 - - - -
224C LYS* 1.3 79.2 + - - +
226C ALA* 1.3 53.4 + - - -
227C PHE 3.4 3.1 - - - -
228C LYS* 3.3 33.1 + - - +
229C TYR* 4.2 0.7 - - - -
65E VAL* 3.7 27.7 - - - +
66E GLU* 3.8 24.2 - - - +
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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