Contacts of the helix formed by residues 192 - 203 (chain C) in PDB entry 4KZX
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 ALA 192 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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191C SER* 1.3 75.2 - - - +
193C PRO* 1.3 64.7 - - + +
194C VAL* 4.4 0.7 - - + +
195C PRO* 2.3 46.3 - - + +
196C LYS* 2.7 16.3 + - - +
221C PHE* 4.3 7.2 - - + -
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Residues in contact with PRO 193 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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191C SER 3.8 1.7 - - - +
192C ALA* 1.3 87.7 - - + +
194C VAL* 1.3 65.1 + - + +
196C LYS* 2.9 29.6 - - + +
197C LYS* 3.1 14.2 + - + +
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Residues in contact with VAL 194 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92C LEU* 4.0 39.9 - - + +
192C ALA* 6.0 0.7 - - + -
193C PRO* 1.3 77.3 - - + +
195C PRO* 1.3 71.6 - - + +
197C LYS* 3.3 15.3 + - - +
198C LEU* 3.4 11.4 + - - +
218C LEU* 5.5 12.6 - - + +
221C PHE* 3.7 18.8 - - + -
222C ALA* 4.6 6.5 - - + -
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Residues in contact with PRO 195 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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178C VAL* 6.0 1.8 - - + -
191C SER* 3.5 11.7 - - - +
192C ALA* 2.3 50.7 - - + +
194C VAL* 1.3 82.5 - - + +
196C LYS* 1.3 56.8 + - - +
198C LEU* 3.3 6.2 + - + +
199C LEU* 3.0 34.7 + - + +
209C THR* 6.2 0.4 - - + -
221C PHE* 2.4 47.6 - - + -
225C THR* 4.8 12.9 + - + +
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Residues in contact with LYS 196 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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189C ILE* 3.7 38.6 - - + +
191C SER* 4.0 5.6 - - - +
192C ALA 2.7 17.9 + - - +
193C PRO* 2.9 21.5 - - + +
195C PRO* 1.3 71.8 - - - +
197C LYS* 1.3 69.2 + - + +
199C LEU* 3.4 1.2 + - - +
200C LEU* 2.7 54.4 + - + +
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Residues in contact with LYS 197 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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90C LYS* 4.2 34.9 - - + +
92C LEU* 4.6 14.6 - - + +
114C ALA* 6.1 0.9 - - - -
193C PRO* 3.1 15.2 + - + +
194C VAL* 3.5 11.4 - - - +
196C LYS* 1.3 85.9 - - + +
198C LEU* 1.3 60.0 - - - +
200C LEU* 2.2 64.5 - - + +
201C MET* 3.2 6.2 + - - +
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Residues in contact with LEU 198 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92C LEU* 5.6 5.3 - - + +
114C ALA* 5.0 17.5 - - + -
122C VAL* 4.2 9.6 - - + -
124C LEU* 4.9 6.1 - - + -
194C VAL* 3.4 7.8 + - + +
195C PRO* 3.3 8.7 + - + +
197C LYS* 1.3 76.0 - - - +
199C LEU* 1.3 74.5 + - + +
201C MET* 3.2 7.8 + - - +
202C ALA* 3.0 17.7 + - + -
222C ALA* 3.7 13.0 - - + +
225C THR* 3.2 31.0 - - + -
226C PHE* 3.3 39.7 - - + -
229C ILE* 4.0 15.3 - - + -
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Residues in contact with LEU 199 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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180C LEU* 3.8 29.6 - - + -
189C ILE* 3.9 32.5 - - + -
191C SER* 3.9 9.4 - - - +
195C PRO* 3.0 19.1 + - + +
196C LYS 3.8 3.4 - - - +
198C LEU* 1.3 79.6 - - + +
200C LEU* 1.3 62.0 + - - +
202C ALA* 3.3 5.4 + - + +
203C GLY 3.1 4.7 + - - -
204C ILE* 3.1 37.6 + - + +
207C CYS* 4.6 11.0 - - + -
209C THR* 4.3 2.2 - - + -
225C THR* 4.2 10.3 - - - +
229C ILE* 3.5 32.5 - - + -
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Residues in contact with LEU 200 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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118C TYR* 4.3 16.2 - - + -
189C ILE* 4.7 7.2 - - + +
196C LYS* 2.7 35.4 + - + +
197C LYS* 2.2 70.4 - - + +
199C LEU* 1.3 73.7 - - - +
201C MET* 1.3 98.0 + - + +
203C GLY* 2.9 20.6 + - - -
204C ILE 4.2 7.6 + - - +
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Residues in contact with MET 201 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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88C LYS* 3.9 40.2 - - + +
90C LYS* 5.0 14.8 - - + -
114C ALA* 5.6 5.4 - - + +
115C ILE* 4.5 4.3 - - - +
116C GLY* 3.8 21.8 - - - +
117C ASP 3.2 27.1 - - - +
118C TYR* 3.3 25.8 - - + +
121C HIS 3.7 1.7 - - - +
122C VAL* 3.4 14.7 - - + +
197C LYS 3.8 4.3 - - - +
198C LEU* 3.2 9.1 + - - +
200C LEU* 1.3 106.2 - - + +
202C ALA* 1.3 66.4 + - - +
203C GLY 2.9 2.7 + - - -
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Residues in contact with ALA 202 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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120C GLY* 2.8 29.7 + - - -
121C HIS 4.2 0.9 - - - -
122C VAL* 2.9 31.2 - - + +
150C VAL* 3.8 16.7 - - + +
198C LEU* 3.0 13.4 + - + +
199C LEU* 3.3 17.0 - - + +
201C MET* 1.3 76.1 - - - +
203C GLY* 1.3 60.3 + - - +
204C ILE* 4.3 9.4 - - + -
229C ILE* 5.0 2.7 - - + -
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Residues in contact with GLY 203 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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118C TYR* 2.7 24.2 - - - -
119C ASN* 4.4 0.4 - - - -
152C ARG* 3.4 21.5 + - - +
200C LEU 2.9 13.3 + - - -
201C MET 2.9 0.4 - - - -
202C ALA* 1.3 82.4 - - - +
204C ILE* 1.3 66.4 + - - +
205C ASP* 3.7 7.8 + - - +
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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