Contacts of the helix formed by residues 205 - 217 (chain G) 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 G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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47C SER 3.5 14.7 + - - -
48C ASN* 2.2 42.1 + - - +
51C ARG* 3.4 55.8 - - - +
54C THR* 4.5 11.1 + - - +
100G GLU* 2.7 29.5 + - - -
103G ALA* 3.5 25.5 - - - +
104G ASP* 3.3 35.7 - - - +
203G GLY* 3.6 10.8 - - - +
204G SER* 1.3 78.0 - - - +
206G PRO* 1.3 69.9 - - - +
207G PHE 3.3 2.6 + - - -
208G SER* 4.0 4.7 - - - +
209G ARG* 3.1 23.8 + - + +
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Residues in contact with PRO 206 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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100G GLU* 3.8 14.8 - - + -
166G ILE* 4.6 8.8 - - + +
168G TRP* 4.4 25.8 - - + +
187G ILE* 3.8 24.6 - - + +
201G PHE* 4.6 3.8 - - + -
204G SER* 3.1 22.4 - - - +
205G ARG* 1.3 90.2 - - - +
207G PHE* 1.3 75.5 + - + +
209G ARG* 4.4 0.4 - - + -
210G ALA* 2.9 32.1 + - - +
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Residues in contact with PHE 207 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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64G ILE* 5.2 2.2 - - + -
97G ILE* 3.6 30.1 - - + -
100G GLU* 4.1 4.5 - - + -
101G TYR* 3.4 41.7 - + + -
104G ASP* 3.0 14.6 + - + +
105G LEU* 4.1 11.7 - - + -
118G TRP* 3.7 23.6 - + - -
166G ILE* 5.3 1.8 - - + -
168G TRP* 4.7 9.0 - + - -
201G PHE* 5.5 0.4 - + - -
206G PRO* 1.3 94.3 - - + +
208G SER* 1.3 66.1 + - - +
210G ALA* 3.7 1.7 - - - +
211G ASN* 3.2 15.8 + - - +
224G TRP* 3.2 60.2 + + + +
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Residues in contact with SER 208 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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104G ASP* 2.7 36.5 + - - -
105G LEU* 4.0 12.3 - - - +
205G ARG* 3.6 6.6 + - - +
207G PHE* 1.3 70.2 - - - +
209G ARG* 1.3 62.4 + - - +
211G ASN* 2.7 13.6 + - - +
212G GLU* 2.6 54.0 + - - +
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Residues in contact with ARG 209 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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51C ARG* 4.8 2.5 - - - +
85C PRO* 4.4 5.9 - - + +
114C ASP* 2.7 41.8 + - - +
116C THR* 3.3 30.9 + - - +
117C PRO* 4.4 6.7 - - - +
120C GLN* 4.1 11.7 + - - -
187G ILE* 3.9 40.8 - - + +
188G GLU 4.4 6.1 + - - -
204G SER* 2.9 27.8 + - - +
205G ARG* 3.1 20.9 + - + +
206G PRO* 4.0 3.3 - - + +
208G SER* 1.3 82.8 + - - +
210G ALA* 1.3 51.1 + - - +
212G GLU* 3.2 17.9 + - - +
213G LEU* 2.8 42.4 + - + +
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Residues in contact with ALA 210 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62G VAL* 4.6 11.9 - - + -
164G VAL* 3.7 29.0 - - + +
166G ILE* 4.5 10.3 - - + -
187G ILE* 4.7 2.1 - - + +
206G PRO 2.9 21.1 + - - +
207G PHE 3.7 4.7 - - - +
209G ARG* 1.3 74.8 - - - +
211G ASN* 1.3 57.1 + - - +
213G LEU* 3.3 5.6 + - - +
214G LEU* 2.9 33.7 + - - +
224G TRP* 4.7 7.6 - - + -
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Residues in contact with ASN 211 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105G LEU* 5.6 2.0 - - - +
207G PHE 3.2 9.6 + - - +
208G SER* 2.7 17.3 + - - +
210G ALA* 1.3 72.5 - - - +
212G GLU* 1.3 61.3 + - + +
214G LEU* 3.2 8.7 + - - +
215G VAL* 2.9 35.8 + - + +
221G PRO* 3.3 15.4 - - + +
222G ILE* 2.6 49.7 + - - +
223G ASP 4.9 0.4 + - - -
224G TRP* 3.4 17.0 + - - +
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Residues in contact with GLU 212 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77C VAL* 5.2 5.7 - - - +
84C ALA* 3.4 21.4 - - - +
85C PRO* 3.3 20.8 - - + +
86C ASP* 3.5 42.9 + - + +
208G SER* 2.6 35.4 + - - +
209G ARG* 3.6 17.0 + - - +
211G ASN* 1.3 72.9 - - + +
213G LEU* 1.3 61.8 + - - +
215G VAL* 3.5 3.2 + - - -
216G GLY* 3.1 18.0 + - - -
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Residues in contact with LEU 213 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85C PRO* 4.0 11.4 - - + -
112C ASN* 3.9 24.2 - - - +
164G VAL* 3.7 22.4 - - + -
185G VAL* 3.6 39.5 - - + -
187G ILE* 3.8 23.6 - - + -
209G ARG* 2.8 23.7 + - + +
210G ALA* 3.4 7.4 - - - +
212G GLU* 1.3 70.3 - - - +
214G LEU* 1.3 65.2 + - - +
216G GLY* 3.2 3.0 + - - -
217G MET* 3.0 31.3 + - + +
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Residues in contact with LEU 214 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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61G ARG* 3.4 39.5 - - + +
62G VAL* 4.1 16.8 - - + -
162G PRO 4.4 8.7 - - - +
164G VAL* 3.7 13.2 - - + -
210G ALA 2.9 20.0 + - - +
211G ASN* 3.5 17.7 - - - +
213G LEU* 1.3 72.9 - - - +
215G VAL* 1.3 57.4 + - - +
217G MET* 3.2 10.0 + - + +
218G GLY 3.0 5.2 + - - -
219G ALA* 2.7 36.9 + - + +
220G GLU 3.5 24.0 - - - +
221G PRO* 3.7 13.9 - - + -
222G ILE 4.0 4.3 - - - +
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Residues in contact with VAL 215 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86C ASP* 4.3 18.4 - - + +
211G ASN* 2.9 19.3 + - + +
212G GLU* 3.8 6.3 - - - +
214G LEU* 1.3 74.2 - - - +
216G GLY* 1.3 56.2 + - - +
218G GLY* 2.7 24.4 + - - -
219G ALA 3.8 9.6 - - - +
221G PRO* 4.4 19.5 - - + -
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Residues in contact with GLY 216 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85C PRO 5.2 2.9 - - - -
86C ASP* 4.6 12.7 - - - +
212G GLU 3.1 14.8 + - - -
213G LEU* 3.2 5.1 + - - -
215G VAL* 1.3 76.8 - - - +
217G MET* 1.3 60.2 + - - +
218G GLY 3.1 0.7 + - - -
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Residues in contact with MET 217 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162G PRO* 3.8 33.3 - - + +
163G LEU 4.3 2.7 - - - +
164G VAL* 3.5 32.3 - - + -
183G ASN* 3.3 27.4 - - - +
185G VAL* 3.7 26.7 - - + -
213G LEU* 3.0 22.5 + - + +
214G LEU* 3.2 4.0 + - - +
215G VAL 3.2 0.2 - - - -
216G GLY* 1.3 76.2 - - - +
218G GLY* 1.3 61.8 + - - +
219G ALA 3.6 0.2 - - - -
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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