Contacts of the helix formed by residues 205 - 217 (chain C) in PDB entry 2ZHX
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 ARG 205 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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100C GLU* 2.8 40.7 + - - -
103C ALA* 3.5 18.0 - - - +
104C ASP* 3.1 37.9 - - - +
203C GLY* 3.0 24.7 - - - +
204C SER* 1.3 77.5 - - - +
206C PRO* 1.3 74.4 - - - +
208C SER* 4.1 3.6 - - - +
209C ARG* 3.2 22.1 + - + +
47I SER* 2.7 31.7 + - - -
48I ASN* 2.6 27.9 + - - +
51I ARG* 3.5 32.7 - - - +
54I THR* 5.2 3.0 + - - +
77I VAL* 6.2 0.4 - - + -
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Residues in contact with PRO 206 (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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100C GLU* 3.7 18.6 - - + -
104C ASP* 4.2 2.0 - - - +
166C ILE* 4.1 16.4 - - + +
168C TRP* 4.2 22.7 - - + +
187C ILE* 3.3 24.3 - - + +
201C PHE* 4.5 2.2 - - + -
204C SER* 3.6 17.5 - - - +
205C ARG* 1.3 89.9 - - - +
207C PHE* 1.3 77.1 + - + +
209C ARG* 5.6 0.2 - - - +
210C ALA* 3.0 29.5 + - - +
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Residues in contact with PHE 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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64C ILE* 4.8 2.2 - - + -
97C ILE* 3.7 27.1 - - + -
100C GLU* 4.3 1.8 - - + -
101C TYR* 3.3 46.9 - + + -
104C ASP* 3.1 12.7 + - + +
105C LEU* 4.1 11.7 - - + -
118C TRP* 3.7 25.4 - + - -
166C ILE* 5.0 2.5 - - + -
168C TRP* 4.5 14.6 - + - -
201C PHE* 5.7 0.4 - + - -
206C PRO* 1.3 90.9 - - + +
208C SER* 1.3 64.2 + - - +
210C ALA* 3.4 3.3 - - - +
211C ASN* 3.2 13.9 + - - +
224C TRP* 3.1 58.0 + + + +
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Residues in contact with SER 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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104C ASP* 2.6 39.1 + - - -
105C LEU* 3.8 13.5 - - - -
205C ARG* 3.5 6.4 + - - +
207C PHE* 1.3 70.9 - - - +
209C ARG* 1.3 61.0 + - - +
211C ASN* 3.0 8.9 + - - +
212C GLU* 2.7 52.3 + - - +
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Residues in contact with ARG 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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187C ILE* 3.6 44.8 - - + +
188C GLU 4.3 5.5 + - - -
204C SER* 2.9 29.2 + - - +
205C ARG* 3.2 18.4 + - + +
206C PRO 4.0 2.7 - - - +
208C SER* 1.3 82.5 + - - +
210C ALA* 1.3 52.8 + - - +
212C GLU* 3.7 14.8 - - - +
213C LEU* 2.7 41.7 + - + +
51I ARG* 4.9 2.5 - - - +
85I PRO* 4.4 7.8 - - + +
114I ASP* 3.0 32.4 + - - +
116I THR* 3.3 34.1 + - - +
117I PRO* 3.9 9.5 - - - +
120I GLN* 4.0 10.9 + - - -
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Residues in contact with ALA 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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62C VAL* 4.5 8.1 - - + -
164C VAL* 3.6 30.5 - - + +
166C ILE* 4.5 7.4 - - + -
187C ILE* 4.4 1.2 - - - +
206C PRO 3.0 20.0 + - - +
207C PHE* 3.4 8.7 - - - +
209C ARG* 1.3 76.7 - - - +
211C ASN* 1.3 57.7 + - - +
213C LEU* 3.4 2.1 - - - +
214C LEU* 2.8 35.6 + - - +
224C TRP* 4.5 12.3 - - + -
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Residues in contact with ASN 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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105C LEU* 5.5 2.4 - - - +
207C PHE 3.2 4.1 + - - +
208C SER* 3.0 13.7 + - - +
210C ALA* 1.3 80.5 - - - +
212C GLU* 1.3 52.8 + - + +
214C LEU* 3.1 7.6 + - - +
215C VAL* 2.7 40.4 + - + +
221C PRO* 3.4 11.9 - - + +
222C ILE* 2.6 55.3 + - - +
223C ASP 5.2 0.2 + - - -
224C TRP* 3.4 22.0 + - - +
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Residues in contact with GLU 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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208C SER* 2.7 30.8 + - - +
209C ARG* 3.7 13.6 - - - +
211C ASN* 1.3 69.9 - - + +
213C LEU* 1.3 58.4 + - - +
215C VAL* 4.3 5.2 - - - -
216C GLY* 2.9 27.4 + - - -
74I GLY 5.4 0.7 - - - +
77I VAL* 5.3 4.3 - - - +
84I ALA* 3.9 10.1 - - - +
85I PRO* 3.5 21.4 - - + +
86I ASP* 3.4 46.7 + - - +
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Residues in contact with LEU 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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164C VAL* 3.8 18.8 - - + -
185C VAL* 3.8 32.5 - - + -
187C ILE* 3.6 31.4 - - + -
209C ARG* 2.7 25.5 + - + +
210C ALA 3.4 4.5 - - - +
212C GLU* 1.3 72.4 - - - +
214C LEU* 1.3 65.6 + - - +
216C GLY* 3.3 1.7 + - - -
217C MET* 3.2 28.7 + - + +
85I PRO* 3.9 13.8 - - + +
112I ASN* 3.7 26.9 - - - +
114I ASP* 5.7 1.8 - - - +
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Residues in contact with LEU 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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61C ARG* 3.7 25.6 - - + +
62C VAL* 3.8 24.9 - - + -
162C PRO* 4.4 14.8 - - + -
164C VAL* 3.8 14.1 - - + +
210C ALA 2.8 19.1 + - - +
211C ASN* 3.2 15.0 - - - +
213C LEU* 1.3 72.2 - - - +
215C VAL* 1.3 57.3 + - - +
217C MET* 2.9 22.5 + - - +
218C GLY 3.4 0.2 + - - -
219C ALA* 3.0 36.6 + - + +
220C GLU 3.6 22.4 - - - +
221C PRO* 4.6 1.8 - - + -
222C ILE* 3.9 12.6 - - + -
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Residues in contact with VAL 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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211C ASN* 2.7 26.6 + - + +
212C GLU* 3.8 7.6 - - - +
214C LEU* 1.3 71.6 - - - +
216C GLY* 1.3 56.8 + - - +
218C GLY* 2.8 24.6 + - - -
219C ALA 3.7 8.7 - - - +
221C PRO* 4.1 28.3 - - + -
86I ASP* 4.7 11.2 - - + +
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Residues in contact with GLY 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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212C GLU 2.9 17.0 + - - -
213C LEU 3.8 2.7 - - - -
214C LEU 3.3 0.2 - - - -
215C VAL* 1.3 77.3 - - - +
217C MET* 1.3 59.5 + - - +
218C GLY 3.3 1.5 + - - -
85I PRO 5.1 3.1 - - - -
86I ASP* 4.6 14.3 - - - +
88I ARG* 6.0 1.6 - - - -
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Residues in contact with MET 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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162C PRO* 3.7 29.4 - - + +
163C LEU 4.2 5.4 - - - +
164C VAL* 3.9 16.4 - - + -
183C ASN* 3.4 26.7 - - - +
185C VAL* 3.6 29.2 - - + -
213C LEU* 3.2 27.9 + - + +
214C LEU* 2.9 12.3 + - - +
216C GLY* 1.3 80.5 - - - +
218C GLY* 1.3 61.0 + - - +
219C ALA 3.2 1.6 + - - -
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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