Contacts of the helix formed by residues 195 - 213 (chain C) in PDB entry 1Z10
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 195 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191C PHE* 3.9 14.8 - - - +
192C ASP* 2.9 29.8 + - + +
193C TYR 4.7 1.7 - - - +
194C LYS* 1.3 75.0 - - - +
196C LYS* 1.3 62.7 + - - +
197C GLU* 2.7 40.6 + - - +
198C PHE* 3.1 19.4 + - + +
199C LEU* 3.1 19.4 + - - +
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Residues in contact with LYS 196 (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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194C LYS 3.2 10.0 + - - +
195C ASP* 1.3 70.6 + - - +
197C GLU* 1.3 60.9 + - - +
199C LEU* 3.3 12.6 + - + +
200C SER* 3.0 27.7 + - - -
203C ARG* 4.7 2.6 + - - -
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Residues in contact with GLU 197 (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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191C PHE* 5.8 1.6 - - + -
195C ASP* 2.7 18.5 + - - +
196C LYS* 1.3 75.0 - - - +
198C PHE* 1.3 60.9 + - - +
200C SER* 3.0 23.9 + - - +
201C LEU* 3.1 14.9 + - + +
247C PHE* 3.4 40.2 - - + -
250C LYS* 6.0 2.1 - - - +
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Residues in contact with PHE 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176C ARG* 3.4 57.2 - - + -
179C SER* 3.7 22.2 - - - -
180C ASN* 3.7 15.7 - - - -
191C PHE* 3.3 55.9 - + + -
192C ASP 3.8 11.4 - - - -
193C TYR* 4.7 2.5 - + - -
195C ASP* 3.1 20.0 + - + +
196C LYS 3.2 0.2 - - - -
197C GLU* 1.3 75.8 - - - +
199C LEU* 1.3 65.8 + - - +
201C LEU* 3.2 12.7 + - + +
202C LEU* 3.1 27.9 + - + +
299C PHE* 5.1 1.6 - + - -
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Residues in contact with LEU 199 (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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172C PHE* 3.6 41.1 - - + -
176C ARG* 5.8 7.0 - - + -
193C TYR 6.1 0.9 - - - +
195C ASP 3.1 12.8 + - - +
196C LYS* 3.3 12.5 + - + +
198C PHE* 1.3 78.8 - - - +
200C SER* 1.3 57.5 + - - +
202C LEU* 3.2 10.1 + - + +
203C ARG* 2.9 54.8 + - - +
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Residues in contact with SER 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
196C LYS 3.0 13.2 + - - -
197C GLU* 3.0 22.3 + - - +
198C PHE 3.2 0.2 - - - -
199C LEU* 1.3 78.0 - - - +
201C LEU* 1.3 56.2 + - - +
203C ARG* 3.3 26.4 + - - +
204C MET* 3.0 47.2 + - - +
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Residues in contact with LEU 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
191C PHE* 4.1 9.6 - - + -
197C GLU* 3.1 22.7 + - + +
198C PHE* 3.2 10.3 + - + +
200C SER* 1.3 73.1 - - - +
202C LEU* 1.3 66.8 + - - +
204C MET* 3.1 22.2 + - + +
205C MET* 3.0 26.6 + - - +
243C GLY 4.5 0.2 - - - +
244C LEU* 3.8 17.5 - - + +
247C PHE* 3.6 64.8 - - + -
299C PHE* 4.0 23.8 - - + -
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Residues in contact with LEU 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
172C PHE* 3.8 19.6 - - + -
175C SER* 3.6 21.0 - - - +
176C ARG* 3.4 37.2 - - + -
179C SER* 3.6 32.5 - - - +
198C PHE* 3.1 25.2 + - + +
199C LEU* 3.6 10.8 - - - +
201C LEU* 1.3 77.7 - - + +
203C ARG* 1.3 63.6 + - - +
205C MET* 3.4 8.4 + - - +
206C LEU* 3.0 23.9 + - - +
299C PHE* 5.6 0.9 - - + -
303C THR* 3.9 13.9 - - + -
304C GLU* 4.6 3.0 - - - +
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Residues in contact with ARG 203 (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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172C PHE* 3.6 26.4 - - + -
196C LYS 4.7 2.2 + - - -
199C LEU* 2.9 45.8 + - - +
200C SER* 3.5 33.9 - - - +
201C LEU 3.2 0.2 - - - -
202C LEU* 1.3 78.1 - - - +
204C MET* 1.3 58.4 + - - +
206C LEU* 3.8 3.7 - - + +
207C GLY* 2.9 26.7 + - - -
240C LEU* 4.8 2.3 - - - +
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Residues in contact with MET 204 (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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200C SER* 3.0 40.6 + - - +
201C LEU* 3.1 15.0 + - + +
203C ARG* 1.3 76.4 - - + +
205C MET* 1.3 58.0 + - - +
207C GLY* 3.3 1.7 + - - -
208C ILE* 3.0 35.3 + - - +
240C LEU* 3.7 41.2 - - + +
243C GLY* 3.7 37.5 - - - +
244C LEU* 3.7 16.2 - - + -
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Residues in contact with MET 205 (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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201C LEU 3.0 14.1 + - - +
202C LEU* 3.8 10.1 - - - +
203C ARG 3.3 0.2 - - - -
204C MET* 1.3 73.5 - - - +
206C LEU* 1.3 64.9 + - - +
208C ILE* 3.3 8.1 + - - +
209C PHE* 3.1 26.0 + - - +
244C LEU* 4.0 13.2 - - + -
299C PHE* 3.3 45.1 - - + +
300C ILE* 3.3 40.4 - - + +
303C THR* 3.8 29.6 - - - -
304C GLU* 3.6 19.9 - - + +
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Residues in contact with LEU 206 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
171C THR* 4.4 11.7 - - + -
172C PHE* 4.0 26.2 - - + -
202C LEU 3.0 16.6 + - - +
203C ARG* 3.8 5.2 - - + +
205C MET* 1.3 77.1 - - - +
207C GLY* 1.3 59.3 + - - +
209C PHE* 3.4 2.6 + - + +
210C GLN* 2.9 53.1 + - - +
304C GLU* 3.5 24.7 + - - +
311C ARG* 3.9 24.7 - - - +
483C ILE* 5.8 1.8 - - + -
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Residues in contact with GLY 207 (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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203C ARG 2.9 15.9 + - - -
204C MET 3.6 4.0 - - - -
206C LEU* 1.3 77.6 - - - +
208C ILE* 1.3 55.6 + - - +
210C GLN* 3.5 6.1 + - - +
211C PHE* 2.8 30.5 + - - +
240C LEU* 3.7 16.9 - - - +
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Residues in contact with ILE 208 (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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106C THR* 4.7 5.6 - - + -
107C PHE* 3.5 33.7 - - + -
204C MET 3.0 17.7 + - - +
205C MET* 3.9 4.9 - - - +
206C LEU 3.3 0.2 - - - -
207C GLY* 1.3 73.9 - - - +
209C PHE* 1.4 66.1 + - + +
211C PHE* 3.9 4.7 - - - +
212C THR* 3.0 31.9 + - + +
237C ALA* 4.2 9.6 - - + +
240C LEU* 3.8 23.8 - - + -
241C LEU* 3.6 22.9 - - + +
244C LEU* 3.4 30.3 - - + -
300C ILE* 5.2 3.6 - - + -
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Residues in contact with PHE 209 (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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107C PHE* 4.2 17.5 - + - -
205C MET 3.1 17.0 + - - +
206C LEU* 4.0 3.8 - - + +
208C ILE* 1.4 79.0 - - + +
210C GLN* 1.3 58.8 + - - +
212C THR* 3.2 9.4 + - - -
213C SER* 2.7 28.6 + - - -
300C ILE* 3.8 27.4 - - + -
304C GLU* 3.5 36.6 - - + +
305C THR* 4.1 19.7 - - + -
308C THR* 4.6 7.2 - - - +
365C VAL* 5.0 2.9 - - + -
366C ILE* 4.0 20.9 - - + -
480C PHE* 4.0 11.9 - + - -
481C ALA* 3.7 17.7 - - + +
483C ILE* 3.8 11.4 - - + +
501C COU 4.2 9.6 - + - -
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Residues in contact with GLN 210 (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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206C LEU* 2.9 41.7 + - - +
207C GLY* 3.6 7.2 - - - +
209C PHE* 1.3 76.6 - - - +
211C PHE* 1.3 66.6 + - - +
213C SER* 3.0 13.2 + - - -
214C THR* 3.4 14.3 + - - +
311C ARG* 5.2 0.2 + - - -
476C LYS* 2.7 39.0 - - - +
477C HIS* 3.4 24.0 - - + +
483C ILE* 3.8 23.8 - - - +
486C ASN* 4.6 1.0 + - - -
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Residues in contact with PHE 211 (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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106C THR* 3.3 31.2 - - + -
207C GLY 2.8 22.0 + - - +
208C ILE 3.9 2.7 - - - +
210C GLN* 1.3 72.1 - - - +
212C THR* 1.3 65.6 + - + +
214C THR* 3.1 30.4 + - + +
216C THR* 4.0 8.7 - - + -
217C GLY* 3.3 35.0 - - - -
220C TYR* 4.5 4.3 - + + -
233C PRO* 3.8 24.2 - - + -
234C GLN* 3.6 37.2 - - + -
237C ALA* 3.4 27.4 - - + -
238C PHE* 5.7 0.9 - + - -
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Residues in contact with THR 212 (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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104C GLN* 4.0 9.6 - - - +
106C THR* 3.6 39.3 - - + +
107C PHE* 4.2 14.2 - - + -
208C ILE* 3.0 21.6 + - + +
209C PHE* 3.2 10.9 + - - -
211C PHE* 1.3 76.2 - - + +
213C SER* 1.3 56.5 + - - +
214C THR 3.4 1.1 - - - -
217C GLY* 4.4 6.8 - - - -
218C GLN* 3.1 26.5 - - - +
480C PHE* 3.1 32.3 + - - +
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Residues in contact with SER 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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52C GLU 4.9 1.9 - - - +
209C PHE 2.7 22.8 + - - -
210C GLN 3.0 7.1 + - - -
212C THR* 1.3 76.5 - - - +
214C THR* 1.3 60.8 + - - +
218C GLN* 5.1 0.2 - - - -
477C HIS* 3.5 19.2 + - - +
478C VAL 3.2 26.5 + - - +
479C GLY* 3.7 9.9 - - - -
481C ALA* 2.9 41.6 + - - +
483C ILE* 3.8 5.4 - - - -
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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