Contacts of the helix formed by residues 147 - 163 (chain G) in PDB entry 2PWZ
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 THR 147 (chain G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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121G VAL* 4.7 1.1 - - + -
145G GLY 3.2 13.9 + - - +
146G VAL* 1.3 73.1 - - - +
148G THR* 1.3 59.6 + - - +
149G LEU 3.2 3.4 - - - -
150G ASP* 3.0 33.1 + - - +
151G ILE* 3.6 9.1 - - - +
173G VAL* 6.4 0.9 - - - -
176G GLY 4.9 3.1 - - - -
177G HIS* 3.7 33.0 - - + -
234G PHE* 6.1 0.2 - - - -
251G CYS 3.6 15.9 + - - -
252G ALA* 3.8 1.9 - - - +
253G TYR* 3.9 20.0 - - + +
265G SER* 3.5 22.3 + - - +
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Residues in contact with THR 148 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146G VAL* 3.5 6.1 - - - +
147G THR* 1.3 74.4 + - - +
149G LEU* 1.3 65.7 + - - +
151G ILE* 3.1 13.6 + - + +
152G ILE* 3.0 23.2 + - + +
230G ALA* 3.6 30.5 - - - +
233G ARG* 3.6 36.6 - - + +
234G PHE* 3.3 30.2 - - - +
250G GLU* 4.3 6.3 - - - +
251G CYS 4.5 5.4 + - - -
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Residues in contact with LEU 149 (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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147G THR 3.2 1.2 + - - -
148G THR* 1.3 75.1 - - - +
150G ASP* 1.3 62.3 + - - +
152G ILE* 3.8 13.2 - - + -
153G ARG* 3.0 71.5 + - + +
177G HIS* 4.5 11.4 - - + +
223G ALA* 4.2 8.5 - - + -
226G SER* 3.5 36.1 - - - +
227G MET* 3.7 35.3 - - + +
230G ALA* 3.3 15.2 - - + +
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Residues in contact with ASP 150 (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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147G THR* 3.0 14.8 + - - +
149G LEU* 1.3 76.1 - - - +
151G ILE* 1.3 58.1 + - + +
153G ARG* 3.8 19.3 + - - +
154G SER* 2.9 32.8 + - - -
173G VAL* 3.9 21.2 - - + +
176G GLY 3.9 6.1 - - - +
177G HIS* 2.7 43.7 + - - +
182G ILE* 3.8 28.5 - - + +
206G ILE* 4.5 6.6 - - + +
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Residues in contact with ILE 151 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
147G THR* 3.6 21.8 - - - +
148G THR* 3.1 14.5 + - + +
150G ASP* 1.3 74.1 - - + +
152G ILE* 1.3 61.1 + - - +
154G SER* 3.1 3.6 + - - -
155G ASN* 3.0 40.1 + - - +
170G GLU* 3.3 26.9 - - - +
171G VAL 3.7 19.7 - - - +
173G VAL* 3.6 29.6 - - + +
233G ARG* 4.0 13.7 - - - +
250G GLU* 5.8 1.6 - - - +
251G CYS* 4.0 27.6 - - + +
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Residues in contact with ILE 152 (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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48E HIS 3.7 11.9 - - - +
49E ILE* 4.5 6.1 - - + -
50E PRO* 3.6 24.2 - - + +
148G THR* 3.0 19.7 + - + +
149G LEU* 3.6 20.4 - - + +
151G ILE* 1.3 74.7 - - - +
153G ARG* 1.3 63.5 + - - +
155G ASN* 3.4 8.3 + - - +
156G THR* 3.0 27.2 + - - -
226G SER 3.7 23.1 - - - +
229G GLN* 4.4 11.9 - - + -
230G ALA* 4.1 11.9 - - + +
233G ARG* 4.0 34.1 - - + +
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Residues in contact with ARG 153 (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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48E HIS* 3.2 41.4 + - + +
149G LEU* 3.0 55.3 + - + +
150G ASP* 3.8 18.7 + - - +
152G ILE* 1.3 71.8 - - - +
154G SER* 1.3 66.4 + - - +
156G THR* 3.3 1.9 + - - -
157G PHE* 3.1 43.1 + - + -
177G HIS* 5.7 2.0 - - - -
182G ILE* 6.1 0.8 - - - +
206G ILE* 4.8 9.5 + - + -
209G ALA* 3.6 16.6 + - - +
210G GLY* 3.6 37.2 - - - +
213G VAL* 4.5 1.2 - - - +
223G ALA* 3.9 16.8 - - - +
226G SER* 5.1 0.2 + - - -
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Residues in contact with SER 154 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
150G ASP 2.9 19.9 + - - -
151G ILE 3.1 9.1 + - - -
153G ARG* 1.3 74.9 - - - +
155G ASN* 1.3 65.1 + - - +
157G PHE* 3.9 0.4 - - - -
158G VAL* 3.0 30.4 + - - +
171G VAL* 3.6 26.9 - - - -
173G VAL* 3.5 14.0 - - - +
184G PRO* 3.9 2.1 - - - +
206G ILE* 3.5 30.7 - - - +
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Residues in contact with ASN 155 (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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50E PRO* 4.0 18.0 - - + +
151G ILE* 3.0 25.3 + - - +
152G ILE* 3.6 11.8 - - - +
153G ARG 3.3 0.2 - - - -
154G SER* 1.3 75.3 - - - +
156G THR* 1.3 56.8 + - - +
159G ALA* 2.9 33.4 + - - +
166G PRO 4.2 2.4 + - - +
169G VAL* 3.3 29.3 + - - +
170G GLU* 3.1 26.5 + - - -
171G VAL* 2.8 29.3 + - - +
233G ARG* 4.1 5.3 - - - +
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Residues in contact with THR 156 (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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47E SER 3.2 24.2 - - - +
48E HIS 3.1 8.7 + - - -
49E ILE 4.5 4.3 - - - +
50E PRO* 3.1 27.2 - - + +
152G ILE 3.0 14.7 + - - -
153G ARG 3.7 7.2 - - - -
154G SER 3.3 0.2 - - - -
155G ASN* 1.3 77.0 - - - +
157G PHE* 1.3 68.3 + - + +
159G ALA* 3.9 3.5 - - - +
160G GLU* 3.0 32.0 + - + +
166G PRO* 5.0 4.1 - - + +
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Residues in contact with PHE 157 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47E SER 5.2 0.4 - - - -
48E HIS* 3.8 37.9 - + - -
153G ARG* 3.1 31.6 + - + +
154G SER* 4.0 2.7 - - - +
156G THR* 1.3 88.8 - - + +
158G VAL* 1.3 59.0 + - - +
160G GLU* 3.5 11.1 + - - +
161G LEU* 3.1 27.7 + - - +
202G LEU* 3.8 20.9 - - + +
205G ARG* 3.6 62.8 - - + +
206G ILE* 3.8 18.6 - - + -
209G ALA* 4.1 11.2 - - + -
212G GLU* 4.4 0.2 - - - -
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Residues in contact with VAL 158 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
154G SER* 3.0 21.5 + - - +
155G ASN 4.1 1.8 - - - +
157G PHE* 1.3 73.7 - - - +
159G ALA* 1.3 67.5 + - - +
160G GLU 3.2 0.3 + - - -
161G LEU* 3.2 6.9 + - - +
162G LYS* 2.9 29.8 + - + +
164G LYS* 6.2 0.2 - - + -
169G VAL* 3.8 22.2 - - + -
171G VAL* 4.0 6.7 - - + -
186G LEU* 3.7 30.1 - - + -
189G VAL* 4.4 8.7 - - + -
192G VAL* 4.8 2.9 - - + -
194G PHE* 3.8 27.1 - - + -
202G LEU* 4.4 8.5 - - + -
206G ILE* 5.6 0.9 - - + -
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Residues in contact with ALA 159 (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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155G ASN 2.9 20.6 + - - +
156G THR 3.9 2.7 - - - +
158G VAL* 1.3 78.0 - - - +
160G GLU* 1.3 56.1 + - - +
163G GLY* 3.0 24.4 + - - -
164G LYS* 3.0 26.2 + - - +
166G PRO* 3.4 33.9 - - + -
169G VAL* 3.9 15.7 - - + -
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Residues in contact with GLU 160 (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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156G THR* 3.0 21.0 + - + +
157G PHE* 3.6 13.2 - - - +
159G ALA* 1.3 76.3 - - - +
161G LEU* 1.3 66.4 + - - +
162G LYS 3.3 0.3 + - - -
163G GLY* 3.5 6.8 + - - -
166G PRO* 6.0 0.2 - - - +
205G ARG* 3.1 28.5 + - - -
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Residues in contact with LEU 161 (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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157G PHE 3.1 17.2 + - - +
158G VAL* 3.6 5.2 - - - +
160G GLU* 1.3 78.9 - - - +
162G LYS* 1.3 76.4 + - + +
163G GLY 3.7 0.2 + - - -
194G PHE* 4.1 2.0 - - + -
198G GLU* 3.7 38.1 - - + +
202G LEU* 3.7 31.9 - - + -
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Residues in contact with LYS 162 (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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158G VAL* 2.9 19.9 + - + +
161G LEU* 1.3 92.3 - - + +
163G GLY* 1.3 63.2 + - - +
164G LYS* 3.4 25.0 + - + +
192G VAL* 4.0 21.8 - - + -
193G SER 2.9 28.2 + - - +
194G PHE* 3.8 25.1 - - + -
198G GLU* 3.4 17.1 + - - -
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Residues in contact with GLY 163 (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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159G ALA 3.0 8.2 + - - -
160G GLU 3.5 5.4 + - - -
161G LEU 3.5 3.6 + - - -
162G LYS* 1.3 79.0 - - - +
164G LYS* 1.3 63.9 + - - +
165G GLN* 4.3 3.0 + - - +
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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
------------------------------------------------------------
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