Contacts of the helix formed by residues 179 - 195 (chain A) in PDB entry 1ATT
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 179 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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175A ASP* 2.7 32.3 + - + +
178A GLY* 1.3 71.8 - - - -
180A ALA* 1.3 56.2 + - - -
181A GLU* 3.5 1.9 - - - +
182A GLN* 3.1 35.1 + - + +
183A SER* 2.8 25.7 + - - +
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Residues in contact with ALA 180 (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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176A PHE 2.9 24.7 + - - +
178A GLY 3.1 6.6 + - - +
179A ASN* 1.3 67.9 - - - +
181A GLU* 1.3 60.6 + - - +
183A SER* 2.9 9.8 + - - -
184A ARG* 2.8 27.0 + - - +
208A ILE* 3.4 30.0 - - + +
209A ASN* 3.5 19.5 - - - +
210A GLU 4.4 0.9 - - - +
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Residues in contact with GLU 181 (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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179A ASN* 3.5 1.6 + - - +
180A ALA* 1.3 74.4 - - - +
182A GLN* 1.3 64.1 + - - +
184A ARG* 2.9 50.1 + - - +
185A LEU* 3.3 17.8 + - + +
205A PRO* 2.7 28.0 - - - +
208A ILE 4.7 5.8 + - - +
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Residues in contact with GLN 182 (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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179A ASN* 3.1 37.3 + - + +
180A ALA 3.2 0.6 - - - -
181A GLU* 1.3 78.9 - - - +
183A SER* 1.3 60.4 + - - +
185A LEU* 3.0 41.8 + - - +
186A THR* 3.2 19.9 + - - +
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Residues in contact with SER 183 (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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174A LEU* 3.8 10.9 - - - +
175A ASP 3.4 28.6 + - - -
176A PHE* 3.4 27.2 + - - -
179A ASN* 2.8 22.3 + - - +
180A ALA* 2.9 7.6 + - - -
182A GLN* 1.3 74.9 - - - +
184A ARG* 1.3 61.5 + - - +
186A THR* 3.2 7.3 + - - -
187A ILE* 3.2 26.1 + - - +
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Residues in contact with ARG 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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180A ALA 2.8 15.7 + - - +
181A GLU* 2.9 42.7 + - - +
183A SER* 1.3 71.2 - - - +
185A LEU* 1.3 84.8 + - - +
187A ILE* 3.3 2.3 + - - +
188A ASN* 3.0 37.6 + - - +
201A ASP* 5.4 2.8 - - - +
203A ILE* 2.8 50.5 + - + +
204A PRO 3.6 14.6 - - - -
205A PRO* 3.3 29.9 - - - +
207A ALA 4.9 2.2 - - - +
208A ILE* 4.3 18.8 - - + +
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Residues in contact with LEU 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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181A GLU* 3.4 15.5 - - - +
182A GLN* 3.0 35.1 + - - +
184A ARG* 1.3 104.1 - - - +
186A THR* 1.3 61.6 + - - +
188A ASN* 3.7 7.3 - - + +
189A GLN* 3.0 27.0 + - - +
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Residues in contact with THR 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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148A PHE* 4.9 3.0 - - + -
172A GLN* 4.4 15.3 - - - +
174A LEU* 4.1 22.2 - - + -
182A GLN* 3.2 18.2 + - - +
183A SER* 3.2 10.5 + - - -
185A LEU* 1.3 77.5 - - - +
187A ILE* 1.3 60.8 + - - +
189A GLN* 4.0 5.6 - - - +
190A TRP* 3.2 20.3 + - - +
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Residues in contact with ILE 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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148A PHE* 3.8 23.3 - - + -
174A LEU* 3.6 14.1 - - + -
176A PHE* 3.9 18.4 - - + -
183A SER 3.2 16.3 + - - +
184A ARG* 4.0 2.5 - - - +
186A THR* 1.3 74.1 - - - +
188A ASN* 1.3 63.4 - - - +
190A TRP* 2.9 13.3 + - - +
191A ILE* 3.1 23.0 + - + +
203A ILE* 3.8 10.8 - - + -
208A ILE* 4.0 12.1 - - + -
215A VAL* 3.6 29.2 - - + -
217A VAL* 3.5 30.5 - - + -
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Residues in contact with ASN 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 ARG* 3.0 34.9 + - - +
185A LEU* 3.7 7.8 - - + +
187A ILE* 1.3 78.8 - - - +
189A GLN* 1.3 59.4 + - - +
191A ILE* 3.5 10.7 - - - +
192A SER* 3.3 18.4 + - - -
201A ASP* 3.6 36.2 + - + +
202A VAL* 3.3 5.4 + - - +
203A ILE* 2.8 54.2 + - - +
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Residues in contact with GLN 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 LEU 3.0 18.4 + - - +
186A THR* 4.0 6.0 - - - +
188A ASN* 1.3 75.0 - - - +
190A TRP* 1.3 65.4 + - - +
191A ILE 3.2 0.2 - - - -
192A SER* 2.9 19.8 + - - +
193A ASN* 2.9 31.3 + - - +
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Residues in contact with TRP 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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144A ALA* 3.1 42.6 - - + -
145A ASN 4.5 2.2 - - - -
146A ARG* 3.3 47.9 - - + +
148A PHE* 3.9 19.7 - + + -
172A GLN* 5.0 2.5 - - - -
186A THR 3.2 13.3 + - - +
187A ILE 2.9 9.7 + - - +
189A GLN* 1.3 74.0 - - - +
191A ILE* 1.3 87.4 + - + +
193A ASN* 2.9 8.0 + - + +
194A LYS* 2.8 60.0 + - + +
217A VAL* 3.8 19.1 - - + -
219A THR* 4.1 6.5 - - + -
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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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187A ILE* 3.1 35.9 - - + +
188A ASN* 3.5 15.5 - - - +
190A TRP* 1.3 83.7 - - + +
192A SER* 1.3 54.7 + - - +
194A LYS 3.3 2.3 + - - +
195A THR* 2.7 32.0 + - - -
199A ILE* 3.9 10.1 - - + +
202A VAL* 3.9 15.0 - - + -
203A ILE* 5.2 0.4 - - + -
217A VAL* 3.2 27.8 - - + -
219A THR* 3.4 18.6 - - + -
386A SER* 3.0 31.4 - - - +
388A VAL* 4.9 4.9 - - + -
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Residues in contact with SER 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 ASN 3.3 10.6 + - - -
189A GLN* 2.9 18.2 + - - +
191A ILE* 1.3 73.8 - - - +
193A ASN* 1.3 73.4 + - - +
195A THR* 2.9 10.1 + - - -
197A GLY* 2.9 35.6 + - - -
199A ILE 3.5 14.8 + - - -
200A THR* 4.7 11.8 + - - -
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Residues in contact with ASN 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 GLN* 2.9 25.7 + - - +
190A TRP* 3.4 10.3 - - + +
192A SER* 1.3 88.6 + - - +
194A LYS* 1.3 63.5 + - + +
195A THR 2.9 4.3 + - - -
196A GLU* 3.0 16.5 + - - +
197A GLY* 4.8 1.6 - - - +
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Residues in contact with LYS 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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142A VAL* 4.9 8.0 - - - +
144A ALA* 3.5 21.0 - - + +
146A ARG* 6.2 0.2 - - - +
190A TRP* 2.8 54.1 + - + +
191A ILE 3.6 4.0 - - - +
193A ASN* 1.3 78.1 - - + +
195A THR* 1.3 60.2 + - - +
196A GLU 3.6 0.8 + - - -
219A THR* 4.0 24.5 + - + +
221A TYR* 4.4 8.8 - - - +
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Residues in contact with THR 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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191A ILE 2.7 17.5 + - - +
192A SER 2.9 4.9 + - - -
194A LYS* 1.3 80.3 - - - +
196A GLU* 1.3 69.8 + - - +
197A GLY 3.2 0.2 - - - -
198A ARG* 3.1 16.5 + - - +
199A ILE* 3.2 42.0 + - + +
219A THR* 4.0 13.9 - - + -
220A ILE 4.1 12.1 - - - +
221A TYR* 3.4 13.4 - - - -
384A ALA* 4.1 4.9 - - + -
385A ALA 3.8 15.7 - - - +
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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