Contacts of the helix formed by residues 168 - 184 (chain C) in PDB entry 5BZZ
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 ILE 168 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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93C HIS* 3.5 59.7 - - + +
166C VAL 3.8 0.2 - - - -
167C THR* 1.3 84.5 - - - +
169C PRO* 1.3 70.3 - - + +
170C SER* 4.0 4.7 - - - +
171C GLN* 3.1 33.8 + - + +
172C ARG* 3.1 11.0 + - - +
272C HIS* 5.8 0.2 - - + -
326C ASP* 3.7 27.6 - - + +
330C LYS* 6.1 6.1 - - - +
401C TLA 4.1 4.0 - - - +
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Residues in contact with PRO 169 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
167C THR 3.4 8.3 - - - +
168C ILE* 1.3 85.1 - - + +
170C SER* 1.3 51.7 + - - +
171C GLN 3.3 0.2 - - - -
172C ARG* 3.7 12.5 - - + +
173C ARG* 2.8 38.2 + - - +
323C ASN 3.7 20.0 - - - +
324C ASP* 3.6 23.6 - - - +
325C LEU 3.7 9.2 - - - +
326C ASP* 3.4 17.5 - - - +
329C ASN* 3.7 25.1 - - - +
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Residues in contact with SER 170 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C HIS 5.7 0.2 - - - -
95C PRO* 3.9 13.2 - - - -
168C ILE* 3.3 3.5 + - - -
169C PRO* 1.3 72.0 - - - +
171C GLN* 1.3 65.6 + - - +
173C ARG* 3.2 13.1 + - - +
174C TYR* 3.1 30.3 + - - -
273C PHE* 3.8 0.3 - - - -
274C TRP* 3.1 37.3 + - - -
326C ASP* 2.7 37.2 + - - -
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Residues in contact with GLN 171 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C HIS 3.7 7.7 - - - -
94C ASN 3.1 34.4 + - - +
95C PRO* 4.0 5.8 - - - -
129C GLY* 3.4 24.5 - - - -
130C ARG* 3.9 11.7 - - - +
133C VAL* 3.6 15.6 - - + +
166C VAL* 3.5 16.3 - - + +
167C THR 4.9 0.2 + - - -
168C ILE* 3.1 30.0 + - + +
170C SER* 1.3 78.6 - - - +
172C ARG* 1.3 59.9 + - - +
174C TYR* 3.4 9.7 + - - +
175C VAL* 3.4 17.0 + - - +
401C TLA 2.7 26.1 + - - +
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Residues in contact with ARG 172 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
149C GLN* 4.4 20.0 - - - +
152C LEU* 3.8 44.7 + - + +
153C ASP* 4.7 6.7 + - - -
166C VAL* 2.7 49.0 + - + +
167C THR* 4.0 16.1 - - - +
168C ILE 3.1 10.0 + - - +
169C PRO* 3.7 12.1 - - + +
171C GLN* 1.3 73.4 - - - +
173C ARG* 1.3 66.9 + - - +
175C VAL* 3.2 6.2 + - - +
176C TYR* 3.1 36.9 + - + -
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Residues in contact with ARG 173 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169C PRO* 2.8 18.8 + - - +
170C SER* 3.2 36.0 + - - +
172C ARG* 1.3 75.0 - - - +
174C TYR* 1.3 53.0 + - + +
176C TYR* 2.9 13.4 + - + +
177C TYR* 2.7 68.8 + - + -
273C PHE* 4.2 3.8 - - - +
274C TRP 2.7 40.3 + - - +
275C VAL* 4.3 4.5 - - - -
318C LEU* 6.0 0.7 - - - -
320C LEU* 3.7 19.1 - - - +
324C ASP* 2.7 45.7 + - - +
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Residues in contact with TYR 174 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95C PRO* 3.3 27.6 - - + -
96C PRO* 3.2 37.0 - - + -
98C LEU* 4.0 25.8 - - + -
101C ILE* 3.9 10.1 - - + +
133C VAL* 4.7 1.8 - - + -
170C SER 3.1 22.2 + - - +
171C GLN 3.4 4.2 + - - +
172C ARG 3.3 0.4 - - - -
173C ARG* 1.3 78.1 - - + +
175C VAL* 1.3 60.4 + - - +
177C TYR* 3.5 25.4 - + - +
178C TYR* 3.0 27.5 + - - +
252C ASP* 3.0 33.8 + - - +
274C TRP* 4.0 23.3 - - + +
275C VAL 3.8 14.6 + - - -
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Residues in contact with VAL 175 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
133C VAL* 3.9 33.7 - - + +
136C CYS* 4.0 15.3 - - + -
137C ALA* 4.5 4.7 - - - +
140C LEU* 3.5 25.1 - - + +
148C ALA* 4.0 15.5 - - + +
152C LEU* 4.1 18.4 - - + -
171C GLN 3.4 15.0 - - - +
172C ARG 3.2 6.9 + - - +
173C ARG 3.2 0.2 - - - -
174C TYR* 1.3 78.0 - - - +
176C TYR* 1.3 57.9 + - - +
178C TYR* 4.0 4.3 - - - +
179C SER* 2.9 29.8 + - - -
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Residues in contact with TYR 176 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147C LYS* 6.4 0.2 - - + -
148C ALA* 3.6 22.9 - - + -
149C GLN* 3.3 34.6 + - + +
152C LEU* 3.9 19.1 - - + -
172C ARG* 3.1 36.7 + - + -
173C ARG* 2.9 11.8 + - + +
175C VAL* 1.3 73.2 - - - +
177C TYR* 1.3 63.1 + - + +
179C SER* 3.5 2.8 + - - -
180C TYR* 2.9 28.5 + - - +
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Residues in contact with TYR 177 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C LEU* 4.1 7.4 - - + -
173C ARG* 2.7 46.6 + - + -
174C TYR* 3.5 38.1 - + - +
176C TYR* 1.3 72.6 - - + +
178C TYR* 1.3 66.3 + - - +
180C TYR* 3.0 13.6 + - + +
181C LEU* 3.0 17.0 + - - +
275C VAL* 3.7 7.8 - - - +
276C ASN* 3.1 43.1 + - + -
279C PHE* 3.4 54.5 - + + +
318C LEU* 5.2 2.6 - - - +
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Residues in contact with TYR 178 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C LEU* 4.7 3.5 - - + +
101C ILE* 3.5 36.6 - - + -
102C LYS* 3.6 36.6 + - + +
105C CYS* 3.9 10.3 - - - -
137C ALA* 3.8 27.6 - - + -
140C LEU* 5.2 0.9 - - + -
141C HIS* 3.0 25.6 + - + -
174C TYR 3.0 15.2 + - - +
175C VAL 4.0 3.6 - - - +
177C TYR* 1.3 77.7 - - - +
179C SER* 1.3 62.3 + - - +
181C LEU* 3.1 24.3 + - + +
182C LEU* 3.0 56.9 + - + +
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Residues in contact with SER 179 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C LEU* 4.0 20.5 - - - +
146C LEU 4.6 5.7 + - - -
147C LYS* 4.6 0.9 - - - -
148C ALA* 3.9 20.4 + - - +
175C VAL 2.9 19.5 + - - -
176C TYR* 3.6 5.8 - - - -
178C TYR* 1.3 77.7 - - - +
180C TYR* 1.3 57.2 + - - +
182C LEU* 3.5 12.3 + - - +
183C LYS* 3.0 31.7 + - - +
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Residues in contact with TYR 180 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
176C TYR 2.9 15.2 + - - +
177C TYR* 3.0 14.8 + - + +
179C SER* 1.3 74.5 - - - +
181C LEU* 1.3 63.3 + - - +
183C LYS* 4.6 3.1 - - + -
184C ASN* 2.9 52.5 + - - +
186C LEU* 3.4 23.4 - - + +
278C PHE* 5.2 2.9 - + - -
279C PHE* 3.9 26.5 - + + -
283C PRO* 5.6 10.3 - - + -
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Residues in contact with LEU 181 (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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98C LEU* 3.8 28.5 - - + -
177C TYR 3.0 16.7 + - - +
178C TYR* 3.5 27.8 - - + +
180C TYR* 1.3 76.4 - - - +
182C LEU* 1.3 56.6 + - - +
185C HIS* 3.1 9.7 + - - -
186C LEU* 3.0 52.6 + - + +
188C TYR* 4.1 15.7 - - + +
278C PHE* 3.8 22.4 - - + -
279C PHE* 3.7 21.5 - - + -
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Residues in contact with LEU 182 (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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140C LEU* 3.7 17.0 - - + +
141C HIS* 3.7 44.4 - - + +
178C TYR* 3.0 52.4 + - + +
179C SER* 3.7 7.4 - - - +
181C LEU* 1.3 75.4 - - + +
183C LYS* 1.3 65.4 + - - +
184C ASN 3.3 0.9 + - - -
185C HIS* 3.4 18.2 + - - +
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Residues in contact with LYS 183 (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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146C LEU 5.8 4.3 - - - +
179C SER* 3.0 20.8 + - - +
180C TYR* 4.0 5.4 - - + +
182C LEU* 1.3 78.3 - - - +
184C ASN* 1.3 75.5 + - - +
185C HIS* 3.8 12.8 + - - -
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Residues in contact with ASN 184 (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 TYR* 2.9 60.5 + - - +
183C LYS* 1.3 98.8 - - - +
185C HIS* 1.3 75.7 + - - +
186C LEU* 3.2 26.7 + - + +
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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
------------------------------------------------------------
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