Contacts of the helix formed by residues 174 - 189 (chain g) 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 g).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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172g TYR 3.9 1.8 + - - -
173g PHE* 1.3 75.6 - - - +
175g LYS* 1.3 55.4 + - - +
176g ASP* 3.2 7.9 - - - -
177g GLU* 2.9 13.1 + - - +
178g ILE* 2.7 34.2 + - - +
25h VAL* 4.9 12.2 - - - +
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Residues in contact with LYS 175 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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173g PHE 4.0 0.2 + - - -
174g SER* 1.3 72.9 - - - +
176g ASP* 1.3 57.7 + - - +
178g ILE* 3.1 10.3 + - - +
179g TYR* 2.9 26.7 + - - +
201g GLU 5.1 10.5 - - - +
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Residues in contact with ASP 176 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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174g SER* 3.2 5.2 - - - -
175g LYS* 1.3 77.6 - - - +
177g GLU* 1.3 58.2 + - - +
179g TYR* 3.1 9.8 + - - +
180g GLN* 2.9 26.9 + - - +
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Residues in contact with GLU 177 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145g PHE* 5.1 14.4 - - + -
173g PHE* 3.9 12.7 - - + +
174g SER* 2.9 26.3 + - - +
176g ASP* 1.3 78.9 - - - +
178g ILE* 1.3 56.6 + - - +
180g GLN* 3.4 7.5 + - - +
181g ILE* 2.9 28.9 + - - +
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Residues in contact with ILE 178 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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170g LEU* 6.0 6.3 - - + +
173g PHE* 4.5 8.7 - - + +
174g SER 2.7 15.8 + - - +
175g LYS* 3.4 13.0 - - - +
177g GLU* 1.3 72.7 - - - +
179g TYR* 1.3 60.0 + - - +
181g ILE* 3.3 7.0 + - - +
182g LEU* 2.9 29.5 + - - +
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Residues in contact with TYR 179 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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175g LYS 2.9 12.9 + - - +
176g ASP* 3.1 11.9 + - - +
178g ILE* 1.3 76.6 - - - +
180g GLN* 1.3 57.3 + - - +
182g LEU* 3.3 6.7 + - - +
183g GLU* 2.9 30.2 + - - +
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Residues in contact with GLN 180 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19Y ASN* 4.1 32.9 + - + +
20Y ASN 5.4 0.4 - - - +
176g ASP 2.9 16.0 + - - +
177g GLU* 3.7 8.3 - - - +
178g ILE 3.3 0.4 - - - -
179g TYR* 1.3 76.1 - - - +
181g ILE* 1.3 57.8 + - - +
183g GLU* 3.9 5.4 - - - +
184g TYR* 2.9 30.5 + - - +
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Residues in contact with ILE 181 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148g ILE* 6.6 0.2 - - + -
177g GLU 2.9 17.6 + - - +
178g ILE* 3.7 7.6 - - - +
179g TYR 3.3 0.4 - - - -
180g GLN* 1.3 73.6 - - - +
182g LEU* 1.3 59.9 + - - +
184g TYR* 3.5 5.5 + - - +
185g THR* 2.9 28.8 + - - -
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Residues in contact with LEU 182 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17g GLY* 5.6 6.0 + - - -
178g ILE 2.9 17.1 + - - +
179g TYR* 3.8 6.5 - - - +
181g ILE* 1.3 76.8 - - - +
183g GLU* 1.3 57.6 + - - +
185g THR* 3.2 6.7 + - - -
186g LYS* 2.9 28.6 + - - +
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Residues in contact with GLU 183 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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179g TYR 2.9 18.3 + - - +
180g GLN* 3.9 6.3 - - - +
182g LEU* 1.3 76.2 - - - +
184g TYR* 1.3 58.5 + - - +
186g LYS* 3.3 7.4 + - - +
187g LEU* 2.9 29.0 + - - +
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Residues in contact with TYR 184 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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17Y TYR 5.5 6.1 - - - +
18Y LYS* 5.7 1.8 - - + -
19Y ASN 5.4 8.5 - - - +
180g GLN 2.9 18.3 + - - +
181g ILE* 3.8 6.5 - - - +
183g GLU* 1.3 76.3 - - - +
185g THR* 1.3 57.3 + - - +
187g LEU* 3.8 6.9 - - - +
188g SER* 2.9 30.7 + - - -
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Residues in contact with THR 185 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16g LEU* 4.7 2.5 - - - +
17g GLY* 4.3 21.3 - - - -
181g ILE 2.9 19.1 + - - -
182g LEU* 3.6 7.9 - - - -
184g TYR* 1.3 74.8 - - - +
186g LYS* 1.3 60.0 + - - +
188g SER* 3.3 5.0 + - - +
189g GLN* 2.9 27.0 + - - -
190g ALA* 3.8 13.8 + - - +
192g VAL* 5.2 9.0 - - - -
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Residues in contact with LYS 186 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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46Z THR* 5.3 0.3 - - - -
70Z ASP* 3.5 27.4 - - + +
16g LEU* 4.6 16.8 - - + +
17g GLY 5.2 0.2 - - - +
182g LEU 2.9 16.7 + - - +
183g GLU* 3.7 7.4 - - - +
185g THR* 1.3 76.6 - - - +
187g LEU* 1.3 60.6 + - - +
189g GLN* 3.7 8.9 + - - +
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Residues in contact with LEU 187 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53Y MET* 4.0 22.5 - - + +
46Z THR* 3.3 36.8 + - - +
47Z ASP* 3.9 0.5 + - - -
70Z ASP* 5.0 2.9 - - - -
183g GLU 2.9 16.8 + - - +
184g TYR* 3.8 7.4 - - - +
185g THR 3.2 0.2 - - - -
186g LYS* 1.3 78.1 - - - +
188g SER* 1.3 60.0 + - - +
189g GLN* 3.7 1.0 + - - +
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Residues in contact with SER 188 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47Z ASP* 3.9 16.0 - - - +
152g LEU* 5.7 7.4 - - - -
156g LYS* 5.1 15.1 - - - +
184g TYR 2.9 18.0 + - - -
185g THR* 3.3 5.4 + - - -
187g LEU* 1.3 75.6 - - - +
189g GLN* 1.3 62.0 + - - +
190g ALA* 3.0 20.2 + - - +
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Residues in contact with GLN 189 (chain g).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45Z THR* 5.5 9.0 - - - -
46Z THR 6.1 0.9 - - - +
47Z ASP* 4.7 9.4 - - + +
16g LEU* 4.7 8.5 + - - +
185g THR 2.9 9.4 + - - -
186g LYS* 3.7 8.0 + - - +
187g LEU 3.4 4.7 - - - +
188g SER* 1.3 75.9 - - - +
190g ALA* 1.3 64.9 + - - +
191g ASP* 3.8 1.0 + - - +
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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