Contacts of the helix formed by residues 174 - 189 (chain H) in PDB entry 6QXT
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 SER 174 (chain H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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25G VAL* 4.9 11.6 - - - +
172H TYR 3.9 2.0 + - - -
173H PHE* 1.3 75.3 - - - +
175H LYS* 1.3 62.5 + - - +
176H ASP* 3.2 6.7 - - - -
177H GLU* 3.0 12.4 + - - +
178H ILE* 2.8 28.0 + - - +
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Residues in contact with LYS 175 (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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173H PHE 4.1 0.4 + - - -
174H SER* 1.3 72.9 - - - +
176H ASP* 1.3 57.4 + - - +
178H ILE* 3.2 9.4 + - - +
179H TYR* 2.9 27.4 + - - +
201H GLU 4.8 13.7 - - - +
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Residues in contact with ASP 176 (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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174H SER* 3.2 5.4 - - - -
175H LYS* 1.3 77.6 - - - +
177H GLU* 1.3 58.9 + - - +
179H TYR* 3.1 9.5 + - - +
180H GLN* 2.9 26.9 + - - +
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Residues in contact with GLU 177 (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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145H PHE* 5.1 14.4 - - + -
173H PHE* 4.0 11.2 - - + -
174H SER* 3.0 25.6 + - - +
176H ASP* 1.3 78.3 - - - +
178H ILE* 1.3 55.6 + - - +
180H GLN* 3.2 8.7 + - - +
181H ILE* 2.9 27.9 + - - +
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Residues in contact with ILE 178 (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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170H LEU* 6.0 6.1 - - + +
173H PHE* 4.5 9.8 - - + +
174H SER 2.8 12.2 + - - +
175H LYS* 3.5 11.7 - - - +
177H GLU* 1.3 72.3 - - - +
179H TYR* 1.3 61.2 + - - +
181H ILE* 3.2 7.5 + - - +
182H LEU* 2.9 30.1 + - - +
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Residues in contact with TYR 179 (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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175H LYS 2.9 13.1 + - - +
176H ASP* 3.4 13.0 - - - +
178H ILE* 1.3 77.0 - - - +
180H GLN* 1.3 56.4 + - - +
182H LEU* 4.0 4.2 - - - +
183H GLU* 2.9 31.4 + - - +
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Residues in contact with GLN 180 (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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176H ASP 2.9 13.1 + - - +
177H GLU* 3.6 11.0 - - - +
178H ILE 3.2 0.2 - - - -
179H TYR* 1.3 76.7 - - - +
181H ILE* 1.3 59.0 + - - +
183H GLU* 4.1 4.2 - - - +
184H TYR* 2.9 32.1 + - - +
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Residues in contact with ILE 181 (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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177H GLU 2.9 16.8 + - - +
178H ILE* 3.2 8.5 + - - +
180H GLN* 1.3 78.3 - - - +
182H LEU* 1.3 57.9 + - - +
184H TYR* 3.5 4.1 + - - +
185H THR* 2.9 28.6 + - - -
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Residues in contact with LEU 182 (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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17H GLY* 5.6 6.8 + - - -
178H ILE 2.9 16.3 + - - +
179H TYR* 4.0 5.4 - - - +
181H ILE* 1.3 75.6 - - - +
183H GLU* 1.3 60.0 + - - +
185H THR* 3.0 8.6 + - - -
186H LYS* 2.9 28.1 + - - +
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Residues in contact with GLU 183 (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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179H TYR 2.9 19.7 + - - +
180H GLN* 4.1 4.7 - - - +
182H LEU* 1.3 76.8 - - - +
184H TYR* 1.3 60.7 + - - +
186H LYS* 3.6 8.5 + - - +
187H LEU* 3.5 17.3 + - - +
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Residues in contact with TYR 184 (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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152H LEU* 6.3 3.1 - - + -
180H GLN 2.9 21.1 + - - +
181H ILE* 3.9 4.5 - - - +
183H GLU* 1.3 74.2 - - - +
185H THR* 1.3 60.4 + - - +
187H LEU* 3.2 8.6 + - - +
188H SER* 2.9 29.2 + - - -
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Residues in contact with THR 185 (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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16H LEU* 4.3 5.0 - - - +
17H GLY* 4.2 22.9 - - - -
152H LEU* 6.3 2.5 - - - -
181H ILE 2.9 18.1 + - - -
182H LEU* 3.0 9.4 + - - -
184H TYR* 1.3 75.5 - - - +
186H LYS* 1.3 62.0 + - - +
188H SER* 3.8 6.4 - - - +
189H GLN* 3.0 22.7 + - - -
190H ALA* 4.0 10.4 + - - +
192H VAL* 5.4 7.0 - - - -
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Residues in contact with LYS 186 (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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16H LEU* 4.4 15.3 - - + +
182H LEU 2.9 11.8 + - - +
183H GLU* 3.8 11.4 - - - +
184H TYR 3.2 0.2 - - - -
185H THR* 1.3 78.2 - - - +
187H LEU* 1.3 60.0 + - - +
189H GLN* 3.8 8.1 + - - +
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Residues in contact with LEU 187 (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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183H GLU 3.5 8.5 + - - +
184H TYR* 3.2 10.6 + - - +
186H LYS* 1.3 80.4 - - - +
188H SER* 1.3 62.4 + - - +
189H GLN* 3.2 3.6 + - - +
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Residues in contact with SER 188 (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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49D SER* 4.8 8.1 - - - +
152H LEU* 4.8 15.3 - - - -
156H LYS* 5.9 2.8 - - - +
184H TYR 2.9 16.8 + - - -
185H THR* 3.3 6.7 + - - -
187H LEU* 1.3 74.8 - - - +
189H GLN* 1.3 63.3 + - - +
190H ALA* 2.9 20.7 + - - +
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Residues in contact with GLN 189 (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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49D SER* 4.5 19.3 - - - -
16H LEU* 4.9 7.6 + - - +
185H THR 3.0 10.7 + - - -
186H LYS* 3.8 6.7 + - - +
187H LEU 3.2 5.9 - - - +
188H SER* 1.3 76.5 - - - +
190H ALA* 1.3 65.0 + - - +
191H ASP* 3.8 1.2 + - - +
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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