Contacts of the helix formed by residues 184 - 199 (chain A) in PDB entry 3GUC
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 184 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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105A TYR* 5.8 0.4 + - - -
152A THR* 5.6 0.5 - - - +
182A VAL* 3.5 3.5 + - - +
183A ASP* 1.3 103.2 + - - +
185A PHE* 1.3 64.4 + - - +
186A GLU* 3.5 11.2 + - - +
187A ALA* 3.1 27.8 + - - +
188A ARG* 3.2 30.6 + - - +
402A ANP 3.0 27.7 + - - -
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Residues in contact with PHE 185 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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184A ASN* 1.3 72.2 - - - +
186A GLU* 1.3 62.6 + - + +
188A ARG* 3.0 11.4 + - - +
189A MET* 2.7 65.7 + - + +
227A PHE* 3.7 25.1 - + - -
232A PRO* 4.0 29.8 - - + -
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Residues in contact with GLU 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152A THR* 3.7 32.0 + - + +
184A ASN* 3.4 9.4 + - + +
185A PHE* 1.3 86.9 - - + +
187A ALA* 1.3 53.2 + - - +
189A MET* 3.4 5.0 + - + +
190A THR* 2.7 38.4 + - - +
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Residues in contact with ALA 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A ILE* 4.5 3.8 - - + +
152A THR* 4.0 5.8 - - - +
182A VAL* 3.8 21.5 - - + -
184A ASN* 3.1 16.0 + - - +
186A GLU* 1.3 76.9 - - - +
188A ARG* 1.3 57.2 + - - +
190A THR* 3.2 6.7 + - - -
191A ILE* 2.9 35.5 + - - +
402A ANP 3.6 34.1 - - + +
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Residues in contact with ARG 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180A SER* 4.0 6.1 - - - +
182A VAL* 3.1 37.3 + - + -
183A ASP* 3.8 15.4 + - - +
184A ASN* 3.2 21.8 + - - +
185A PHE* 3.0 8.4 + - - +
187A ALA* 1.3 77.4 - - - +
189A MET* 1.3 56.8 + - - +
191A ILE* 3.4 8.3 + - - +
192A ASN* 3.0 26.9 + - - +
202A TRP* 3.8 5.1 - - - -
204A GLU* 2.9 33.9 + - + +
205A SER 4.4 4.4 + - - -
206A GLY* 4.5 7.3 - - - -
207A VAL 5.5 1.4 + - - +
215A HIS* 3.8 16.4 - - - -
227A PHE* 3.7 33.3 - - + -
402A ANP 5.0 0.8 + - - -
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Residues in contact with MET 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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185A PHE* 2.7 52.7 + - + +
186A GLU* 3.8 5.4 - - - +
188A ARG* 1.3 72.5 - - - +
190A THR* 1.3 56.7 + - - +
192A ASN* 3.1 13.4 + - - +
193A THR* 2.8 39.8 + - - +
227A PHE* 3.6 28.4 - - + +
228A ALA* 3.8 25.8 - - + -
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Residues in contact with THR 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151A ILE* 3.3 39.0 - - + +
152A THR* 3.3 16.6 - - - +
157A PHE* 3.4 24.9 - - + -
160A PHE* 5.4 1.3 - - + -
186A GLU* 2.7 24.3 + - - +
187A ALA* 3.3 11.7 - - - -
188A ARG 3.2 0.2 - - - -
189A MET* 1.3 76.1 - - - +
191A ILE* 1.3 63.8 + - - +
193A THR* 3.2 7.0 + - - -
194A ALA* 3.2 17.5 + - - +
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Residues in contact with ILE 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79A VAL* 3.8 30.3 - - + -
151A ILE* 4.6 4.7 - - + -
160A PHE* 4.3 23.1 - - + -
178A VAL* 4.1 19.7 - - + -
180A SER* 3.4 30.3 - - - +
182A VAL* 4.4 3.6 - - + -
187A ALA 2.9 25.7 + - - +
188A ARG* 3.7 4.7 - - - +
190A THR* 1.3 73.7 - - - +
192A ASN* 1.3 57.9 + - - +
194A ALA* 3.3 2.9 + - - +
195A CYS* 3.0 31.0 + - - -
202A TRP* 3.8 26.2 - - + -
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Residues in contact with ASN 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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188A ARG 3.0 14.6 + - - +
189A MET* 3.1 15.2 + - - +
191A ILE* 1.3 74.1 - - - +
193A THR* 1.3 66.7 + - - +
195A CYS* 3.3 0.3 + - - +
196A ASN* 3.0 45.0 + - - +
202A TRP* 3.3 20.5 + - + -
226A CYS* 3.3 22.0 - - - +
227A PHE* 2.9 35.6 + - + -
228A ALA* 3.6 16.0 - - - +
305A ASP* 4.2 3.8 + - - -
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Residues in contact with THR 193 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A PHE* 4.0 18.1 - - + -
189A MET* 2.8 25.1 + - - +
190A THR* 3.2 8.3 + - - -
192A ASN* 1.3 76.1 + - - +
194A ALA* 1.3 62.7 + - - +
196A ASN* 4.1 1.7 - - - +
197A GLU* 3.2 26.0 + - - +
305A ASP* 4.0 16.5 + - - +
307A ASN* 5.0 4.5 + - - +
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Residues in contact with ALA 194 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A PHE* 3.6 27.3 - - + -
160A PHE* 4.0 17.7 - - + -
161A MET* 3.9 19.1 - - + -
164A ILE* 5.9 1.8 - - + -
190A THR 3.2 7.8 + - - +
191A ILE 3.6 7.4 - - - +
193A THR* 1.3 77.5 - - - +
195A CYS* 1.3 59.9 + - - +
197A GLU* 3.2 4.2 + - - +
198A LEU* 2.9 37.4 + - + +
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Residues in contact with CYS 195 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160A PHE* 6.0 1.3 - - - -
164A ILE* 5.4 3.8 - - - -
178A VAL* 4.6 7.0 - - - -
191A ILE* 3.0 27.1 + - - +
192A ASN 4.1 0.9 - - - +
194A ALA* 1.3 81.0 - - - +
196A ASN* 1.3 52.1 + - - +
199A GLY* 2.7 31.2 + - - -
200A GLN* 2.8 46.0 + - - +
202A TRP* 3.4 39.3 - - + +
221A PRO* 3.7 4.0 - - + +
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Residues in contact with ASN 196 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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192A ASN* 3.0 35.1 + - - +
193A THR 4.2 0.7 - - - +
195A CYS* 1.3 71.0 - - - +
197A GLU* 1.3 68.3 + - - +
199A GLY 3.5 0.9 + - - -
202A TRP* 5.4 0.2 + - - -
219A ILE* 5.1 0.3 - - - +
221A PRO* 3.3 27.8 - - - +
226A CYS* 3.4 22.3 - - - +
305A ASP* 3.1 28.1 + - - +
307A ASN* 3.7 26.0 - - + +
308A CYS* 3.7 13.5 - - - +
311A GLN* 3.2 19.4 - - - +
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Residues in contact with GLU 197 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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157A PHE* 4.8 4.5 - - - -
161A MET* 3.6 33.1 - - - +
193A THR* 3.2 17.4 + - - +
194A ALA 3.2 10.1 + - - +
196A ASN* 1.3 77.2 - - - +
198A LEU* 1.3 67.2 + - + +
199A GLY 3.6 0.2 + - - -
307A ASN* 3.9 25.1 + - - +
311A GLN* 4.5 2.6 - - - +
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Residues in contact with LEU 198 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161A MET* 4.0 34.3 - - + +
164A ILE* 4.0 22.4 - - + -
165A SER* 3.4 31.2 - - - +
194A ALA* 2.9 23.3 + - + +
195A CYS* 4.1 2.2 - - - +
197A GLU* 1.3 83.9 - - + +
199A GLY* 1.3 60.6 + - - +
200A GLN* 4.2 10.9 - - + +
311A GLN* 4.6 0.7 - - - -
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Residues in contact with GLY 199 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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195A CYS 2.7 13.3 + - - -
196A ASN 3.5 2.8 + - - -
197A GLU 3.4 3.6 + - - -
198A LEU* 1.3 75.6 - - - +
200A GLN* 1.3 58.4 + - - -
201A THR* 3.8 2.9 + - - -
221A PRO* 4.5 10.2 - - - +
311A GLN* 3.6 25.2 + - - -
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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