Contacts of the helix formed by residues 183 - 195 (chain A) in PDB entry 3UON
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 183 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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180A PHE 3.7 3.0 + - - +
181A PHE 3.1 2.0 - - - +
182A SER* 1.3 80.6 + - - +
184A ALA* 1.3 69.1 + - - +
185A ALA* 3.3 20.3 + - - +
186A VAL* 3.1 38.2 + - + +
187A THR* 3.2 13.2 + - - -
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Residues in contact with ALA 184 (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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181A PHE 4.8 1.3 - - - -
182A SER 3.6 4.6 + - - -
183A ASN* 1.3 74.2 + - - +
185A ALA* 1.3 63.4 + - - +
187A THR* 3.0 9.9 + - - -
188A PHE* 2.9 24.2 + - - +
407A VAL* 5.4 0.5 - - - +
410A ASN* 3.8 32.1 - - - +
411A THR* 4.6 13.6 + - - +
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Residues in contact with ALA 185 (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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183A ASN* 3.2 18.2 + - - +
184A ALA* 1.3 78.4 - - - +
186A VAL* 1.3 58.5 + - + +
188A PHE* 3.4 7.4 + - - +
189A GLY* 2.9 26.5 + - - -
411A THR* 4.6 7.3 + - - +
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Residues in contact with VAL 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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180A PHE* 3.8 31.4 - - + +
181A PHE* 4.9 0.2 - - + -
183A ASN* 3.1 36.3 + - + +
185A ALA* 1.3 75.9 - - + +
187A THR* 1.3 58.0 + - - +
189A GLY* 3.4 2.0 + - - -
190A THR* 2.9 41.1 + - - +
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Residues in contact with THR 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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181A PHE* 2.9 54.4 + - + +
183A ASN 3.2 2.4 + - - -
184A ALA* 3.0 11.5 + - - -
186A VAL* 1.3 76.0 - - - +
188A PHE* 1.3 60.3 + - - +
190A THR* 3.3 3.3 + - - -
191A ALA* 2.9 26.2 + - - +
407A VAL* 4.1 17.3 - - + -
410A ASN* 6.2 1.6 - - - +
1162A QNB 3.7 20.1 - - + -
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Residues in contact with PHE 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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184A ALA 2.9 12.4 + - - +
185A ALA* 3.7 7.4 - - - +
187A THR* 1.3 74.9 - - - +
189A GLY* 1.3 66.4 + - - +
191A ALA* 3.0 13.9 + - + +
192A ILE* 3.0 41.1 + - + +
196A TYR* 4.1 14.4 - + - -
407A VAL* 3.8 16.1 - - + +
408A LEU* 3.4 50.7 - - + -
411A THR* 4.1 25.4 - - + +
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Residues in contact with GLY 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 ALA 2.9 16.9 + - - -
186A VAL* 3.8 3.1 - - - -
188A PHE* 1.3 77.3 - - - +
190A THR* 1.3 61.1 + - - +
192A ILE* 3.3 13.4 + - - +
193A ALA* 3.2 22.5 + - - +
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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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155A TRP* 3.3 35.7 - - + -
180A PHE* 5.0 3.3 - - + -
181A PHE* 3.6 18.7 - - + -
186A VAL* 2.9 26.7 + - - +
187A THR 3.6 5.2 - - - -
188A PHE 3.1 0.2 - - - -
189A GLY* 1.3 72.5 - - - +
191A ALA* 1.3 60.4 + - - +
193A ALA* 3.4 5.4 + - + +
194A ALA* 2.8 29.7 + - + +
1162A QNB 3.5 8.3 - - + -
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Residues in contact with ALA 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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187A THR 2.9 14.0 + - - +
188A PHE* 3.0 13.2 + - + +
190A THR* 1.3 77.6 - - - +
192A ILE* 1.3 53.8 + - - +
195A PHE* 2.7 33.1 + - - +
196A TYR* 3.2 19.5 + - + -
404A ASN* 4.0 14.8 - - - +
407A VAL* 4.3 11.9 - - + -
1162A QNB 3.3 21.5 - - + -
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Residues in contact with ILE 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 PHE* 3.0 53.8 + - + +
189A GLY* 3.5 12.1 - - - +
191A ALA* 1.3 76.3 - - - +
193A ALA* 1.3 60.1 + - - +
196A TYR* 3.1 21.6 + - + -
197A LEU* 2.8 48.6 + - + +
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Residues in contact with ALA 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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189A GLY 3.2 11.8 + - - +
190A THR* 4.0 5.8 - - - +
192A ILE* 1.3 80.3 - - - +
194A ALA* 1.3 60.6 + - - +
197A LEU* 4.3 16.5 - - + +
198A PRO* 3.6 12.8 - - - +
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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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108A ASN* 4.8 7.0 - - - +
111A VAL* 4.1 9.0 - - - +
155A TRP* 4.0 26.0 - - + -
190A THR* 2.8 19.0 + - + +
193A ALA* 1.3 78.8 - - + +
195A PHE* 1.3 59.1 + - - +
198A PRO* 3.1 14.2 - - - +
1162A QNB 3.9 31.0 - - + -
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Residues in contact with PHE 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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111A VAL* 5.0 1.3 - - + -
191A ALA 2.7 16.0 + - - +
193A ALA 3.6 0.2 - - - -
194A ALA* 1.3 72.9 - - - +
196A TYR* 1.3 82.0 + + - +
198A PRO* 3.0 16.5 - - - +
199A VAL* 3.1 33.6 - - + +
396A PHE* 3.4 26.5 - + - -
397A ILE* 5.1 7.0 - - + -
400A TRP* 3.3 56.8 - + + -
401A ALA* 4.1 8.7 - - + -
404A ASN* 3.4 29.6 - - + +
1162A QNB 3.0 19.5 - + + +
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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