Contacts of the helix formed by residues 197 - 211 (chain H) in PDB entry 2BZN
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 PRO 197 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16G LEU* 4.6 0.2 - - + -
334G ILE* 4.0 16.2 - - + -
336G VAL* 4.1 21.1 - - + -
9H SER* 3.9 27.8 - - - +
10H LEU 3.1 27.8 - - - +
11H ASP* 3.7 15.5 - - - +
189H ARG* 4.4 3.6 - - - +
196H TYR* 1.3 95.8 - - + +
198H GLN* 1.3 59.9 + - - +
199H LEU 3.4 1.3 - - - -
200H SER* 3.3 3.2 + - - -
201H ALA* 2.9 23.2 + - - +
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Residues in contact with GLN 198 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11H ASP* 3.2 15.1 + - - +
12H PHE* 3.6 29.2 - - + -
178H VAL* 3.0 24.8 + - - +
179H GLY* 3.3 21.8 - - - -
180H ILE 4.6 0.3 + - - -
182H PRO* 3.6 20.3 - - + +
189H ARG* 5.1 0.2 - - - +
196H TYR 3.3 5.4 + - - +
197H PRO* 1.3 69.0 - - - +
199H LEU* 1.3 66.4 + - - +
201H ALA* 3.2 7.0 + - - +
202H VAL* 2.9 31.2 + - - +
218H SER* 3.0 20.2 + - - +
219H ASP 3.6 6.1 + - - +
220H GLY 3.8 13.6 + - - +
221H GLY* 5.8 0.2 - - - -
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Residues in contact with LEU 199 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10H LEU* 3.1 31.7 + - + +
11H ASP* 3.9 12.0 - - - +
12H PHE* 4.0 23.1 - - + +
15H VAL* 3.6 34.5 - - + -
198H GLN* 1.3 78.5 - - - +
200H SER* 1.3 57.7 + - - +
202H VAL* 3.3 5.2 + - + +
203H MET* 3.0 47.1 + - + +
230H LYS* 3.9 13.5 - - + +
231H ALA* 4.8 0.7 - - - -
234H ALA* 3.7 26.5 - - + -
333H PHE* 4.2 5.4 - - + -
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Residues in contact with SER 200 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9H SER* 3.5 10.2 + - - -
10H LEU* 2.8 36.5 + - - +
196H TYR* 4.1 14.4 - - - -
197H PRO* 3.6 11.7 - - - -
199H LEU* 1.3 75.3 - - - +
201H ALA* 1.3 67.1 + - - +
203H MET* 3.3 10.9 + - - +
204H GLU* 3.0 27.5 + - - +
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Residues in contact with ALA 201 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
160H VAL* 3.7 28.5 - - + +
178H VAL* 3.7 20.2 - - + -
196H TYR* 3.8 11.0 - - + -
197H PRO 2.9 14.0 + - - +
198H GLN* 3.2 13.9 + - - +
200H SER* 1.3 77.7 - - - +
202H VAL* 1.3 56.7 + - - +
204H GLU* 3.9 1.0 - - - -
205H CYS* 2.9 35.0 + - - +
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Residues in contact with VAL 202 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12H PHE* 5.3 0.4 - - + -
178H VAL* 4.5 4.0 - - + -
198H GLN* 2.9 26.9 + - + +
199H LEU* 3.6 9.6 - - + +
201H ALA* 1.3 77.5 - - - +
203H MET* 1.3 64.1 + - - +
206H ALA* 2.8 29.5 + - - +
216H ILE* 3.8 10.0 - - + +
218H SER* 3.3 32.3 - - - +
231H ALA* 3.7 26.2 - - + +
234H ALA* 3.7 12.8 - - + +
236H ALA* 3.8 18.8 - - + +
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Residues in contact with MET 203 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10H LEU* 4.3 20.0 - - + -
199H LEU* 3.0 32.1 + - + +
200H SER* 3.3 11.0 + - - +
202H VAL* 1.3 77.6 - - - +
204H GLU* 1.3 62.7 + - - +
206H ALA* 3.8 1.2 - - - +
207H ASP* 3.3 30.3 + - - +
234H ALA* 3.8 21.0 - - + +
333H PHE* 3.2 42.0 - - + -
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Residues in contact with GLU 204 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18G ARG* 4.7 3.5 + - - -
160H VAL 4.6 0.9 - - - -
161H THR* 3.5 15.9 - - - +
162H GLY* 2.9 29.3 + - - +
196H TYR* 3.1 26.7 + - - -
200H SER 3.0 15.1 + - - +
201H ALA* 4.1 2.5 - - - +
203H MET* 1.3 79.2 - - - +
205H CYS* 1.3 61.4 + - - +
207H ASP* 3.8 5.2 - - - +
208H ALA* 3.2 20.8 + - - +
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Residues in contact with CYS 205 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160H VAL* 3.3 34.3 - - - -
161H THR* 3.5 6.1 - - - -
162H GLY* 4.9 0.2 - - - -
165H VAL* 3.5 27.1 - - + +
178H VAL* 3.5 29.4 - - + -
201H ALA 2.9 26.7 + - - +
202H VAL 4.3 0.7 - - - +
204H GLU* 1.3 72.0 - - - +
206H ALA* 1.3 60.4 + - - +
208H ALA* 3.4 4.4 + - - +
209H ALA* 2.9 31.2 + - - +
216H ILE* 3.6 4.2 - - + +
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Residues in contact with ALA 206 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
202H VAL 2.8 19.6 + - - +
203H MET 3.8 3.1 - - - +
205H CYS* 1.3 77.7 - - - +
207H ASP* 1.3 58.5 + - - +
209H ALA 3.2 0.5 + - - -
210H HIS* 2.8 45.0 + - + +
216H ILE* 3.6 16.9 - - + +
234H ALA 4.2 1.6 - - - +
235H GLY* 3.6 33.7 - - - +
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Residues in contact with ASP 207 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
203H MET* 3.3 18.8 + - - +
204H GLU* 3.8 5.8 - - - +
206H ALA* 1.3 77.4 - - - +
208H ALA* 1.3 63.0 + - - +
210H HIS* 4.2 6.1 + - - +
211H GLY* 3.1 21.5 + - - -
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Residues in contact with ALA 208 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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162H GLY* 3.7 33.2 - - - +
165H VAL* 4.2 6.7 - - + -
166H GLU* 4.1 20.3 - - + +
204H GLU 3.2 13.0 + - - +
205H CYS 3.6 8.1 - - - +
206H ALA 3.3 0.2 - - - -
207H ASP* 1.3 81.3 - - - +
209H ALA* 1.3 63.2 + - - +
211H GLY* 3.6 5.8 + - - -
212H LEU* 3.7 15.6 + - - +
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Residues in contact with ALA 209 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
165H VAL* 3.8 9.0 - - + -
169H ILE* 3.8 19.5 - - + -
205H CYS 2.9 18.1 + - - +
206H ALA 3.8 2.2 - - - +
208H ALA* 1.3 76.9 - - - +
210H HIS* 1.3 60.7 + - + +
212H LEU* 2.9 15.6 + - - +
214H GLY* 2.9 34.2 + - - -
215H HIS* 4.0 1.8 - - - +
216H ILE* 3.5 23.1 - - + -
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Residues in contact with HIS 210 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34H ARG* 6.3 0.2 - - - -
206H ALA* 2.8 30.8 + - + +
207H ASP* 4.2 6.6 + - - +
209H ALA* 1.3 77.3 - - + +
211H GLY* 1.3 59.9 - - - +
213H LYS* 3.1 18.6 + - - +
214H GLY 3.3 21.1 - - - -
215H HIS* 5.4 0.7 - + - -
235H GLY* 3.1 27.6 - - - -
237H ASP* 2.8 31.8 + - - -
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Residues in contact with GLY 211 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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207H ASP 3.1 16.1 + - - -
208H ALA 4.1 2.5 - - - -
209H ALA 3.2 0.6 - - - -
210H HIS* 1.3 75.8 - - - +
212H LEU* 1.3 63.6 + - - +
213H LYS* 3.4 3.0 + - - +
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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