Contacts of the helix formed by residues 224 - 243 (chain E) 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 224 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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11E GLY* 3.7 32.0 - - - +
12E ILE* 3.7 21.1 - - + +
15E ALA* 4.0 1.2 - - - +
217E LYS* 3.6 8.9 + - - +
222E SER* 3.4 11.9 + - - +
223E ALA* 1.3 78.8 - - - +
225E LEU* 1.3 79.0 + - - +
226E SER 3.7 0.7 - - - -
227E MET* 3.5 3.3 + - - +
228E GLY* 2.8 24.6 + - - -
14G GLN* 4.3 5.2 + - - -
45G ASP* 2.9 10.9 + - - -
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Residues in contact with LEU 225 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11E GLY* 4.9 3.4 - - - +
15E ALA* 4.0 21.1 - - + +
224E THR* 1.3 83.9 + - - +
226E SER* 1.3 60.6 + - - +
228E GLY* 3.2 2.6 + - - -
229E GLN* 2.9 27.0 + - - +
14G GLN* 3.6 53.8 - - + +
15G ALA* 5.7 0.7 - - - -
18G LEU* 3.7 17.7 - - + +
42G VAL* 4.0 13.2 - - + -
45G ASP* 3.1 9.0 + - - +
46G LEU* 3.6 39.9 - - + -
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Residues in contact with SER 226 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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149E LEU* 3.6 19.1 - - - +
152E ILE* 3.8 1.7 - - - +
223E ALA* 4.0 8.5 - - - +
225E LEU* 1.3 73.3 - - - +
227E MET* 1.3 58.0 + - - +
229E GLN* 3.5 1.7 - - - +
230E ALA* 3.0 30.7 + - - +
45G ASP* 2.6 46.3 + - - -
48G HIS* 4.2 10.2 + - - +
49G ILE* 3.7 27.4 - - - +
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Residues in contact with MET 227 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12E ILE* 3.7 28.9 - - + -
117E ILE* 3.5 30.5 - - + +
146E VAL* 4.3 20.4 - - + +
149E LEU* 3.8 35.6 - - + +
177E HIS* 5.2 6.5 - - - +
223E ALA* 3.9 16.4 - - + +
224E THR 3.5 9.9 + - - +
225E LEU 3.2 0.6 - - - -
226E SER* 1.3 78.1 + - - +
228E GLY* 1.3 59.4 + - - +
230E ALA* 3.7 3.5 + - + -
231E ALA* 3.0 40.8 + - + +
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Residues in contact with GLY 228 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12E ILE* 4.0 8.4 - - - +
15E ALA* 4.0 3.1 - - - -
16E LEU* 3.8 27.6 - - - +
19E LEU* 3.9 7.4 - - - +
224E THR 2.8 18.3 + - - -
225E LEU 3.2 4.2 + - - -
227E MET* 1.3 72.2 - - - +
229E GLN* 1.3 55.9 + - - +
231E ALA* 3.4 2.4 + - - +
232E ALA* 2.9 30.5 + - - +
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Residues in contact with GLN 229 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19E LEU* 3.4 30.4 - - - +
23E GLN* 5.1 9.7 + - - +
152E ILE* 4.5 5.6 - - + -
225E LEU 2.9 13.2 + - - +
226E SER 3.5 8.5 - - - +
228E GLY* 1.3 74.9 - - - +
230E ALA* 1.3 52.0 + - - +
232E ALA* 3.2 6.6 + - - +
233E ARG* 2.8 34.6 + - + +
18G LEU* 3.5 14.2 - - - +
22G THR* 3.5 27.5 + - - +
49G ILE* 4.0 27.5 - - + +
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Residues in contact with ALA 230 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146E VAL* 4.9 0.4 - - - -
148E THR* 3.3 23.6 - - - +
149E LEU* 3.4 39.7 - - + +
152E ILE* 3.7 13.2 - - + +
226E SER 3.0 14.1 + - - +
227E MET* 3.9 6.3 - - + +
229E GLN* 1.3 74.7 - - - +
231E ALA* 1.3 64.0 + - - +
233E ARG* 3.4 3.0 + - - -
234E PHE* 3.2 17.2 + - - +
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Residues in contact with ALA 231 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12E ILE* 5.4 1.3 - - + -
16E LEU* 3.6 21.2 - - + +
74E LEU* 4.2 4.7 - - + +
117E ILE* 3.7 28.0 - - + -
146E VAL* 4.3 11.2 - - - +
227E MET* 3.0 26.5 + - + +
228E GLY* 3.7 2.0 - - - +
230E ALA* 1.3 73.6 - - - +
232E ALA* 1.3 56.2 + - - +
234E PHE* 3.4 2.3 + - - +
235E GLY* 2.7 31.7 + - - -
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Residues in contact with ALA 232 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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16E LEU* 3.3 12.9 - - + +
19E LEU* 3.7 29.6 - - + -
20E LEU* 4.4 6.9 - - + +
23E GLN* 5.7 1.1 - - - +
228E GLY 2.9 17.7 + - - +
229E GLN* 3.3 7.4 - - - +
231E ALA* 1.3 74.0 - - - +
233E ARG* 1.3 67.1 + - - +
235E GLY 3.2 0.6 + - - +
236E LEU* 2.9 39.3 + - + +
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Residues in contact with ARG 233 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148E THR* 3.9 12.5 - - + +
151E ILE* 4.0 17.7 - - - +
152E ILE* 4.0 16.0 - - + +
155E ASN* 4.1 2.0 - - - +
170E GLU* 2.6 41.4 + - - -
229E GLN* 2.8 15.6 + - + +
230E ALA* 3.6 10.3 - - - +
232E ALA* 1.3 77.1 - - - +
234E PHE* 1.3 62.0 + - - +
236E LEU* 3.4 7.0 + - - +
237E SER* 3.1 27.3 + - - +
240E ARG* 4.9 1.0 + - - -
249E VAL 5.0 2.6 + - - -
250E GLU* 2.7 35.9 + - - +
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Residues in contact with PHE 234 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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74E LEU* 4.7 5.2 - - + -
115E GLY* 4.9 3.1 - - - -
144E PHE* 3.6 40.4 - + + -
146E VAL* 4.0 27.8 - - + -
148E THR* 3.5 20.6 - - - +
230E ALA 3.2 8.6 + - - +
231E ALA 3.7 3.6 - - - +
233E ARG* 1.3 77.7 - - - +
235E GLY* 1.3 66.0 + - - +
237E SER* 3.4 5.6 + - - -
238E LEU* 3.0 51.3 + - + +
250E GLU* 3.4 32.8 - - + -
251E CYS 4.7 0.4 - - - -
252E ALA* 3.7 21.3 - - + -
270E LEU* 4.9 4.5 - - + -
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Residues in contact with GLY 235 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3E VAL* 6.2 1.3 - - - -
20E LEU* 5.1 5.2 - - - -
24E LEU* 5.7 0.2 - - - -
72E VAL* 5.2 2.6 - - - +
74E LEU* 4.4 19.5 - - - -
231E ALA 2.7 21.3 + - - -
232E ALA* 3.2 2.4 + - - -
234E PHE* 1.3 77.1 - - - +
236E LEU* 1.3 57.8 + - - +
238E LEU* 3.3 7.2 + - - +
239E VAL* 3.0 34.8 + - - +
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Residues in contact with LEU 236 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20E LEU* 4.2 10.3 - - + -
23E GLN* 3.7 55.9 - - + +
24E LEU* 3.7 26.0 - - + +
25E PRO* 4.8 3.6 - - + -
232E ALA* 2.9 31.6 + - + +
233E ARG* 3.9 5.8 - - - +
235E GLY* 1.3 72.8 - - - +
237E SER* 1.3 56.0 + - - +
239E VAL* 3.5 5.0 + - + +
240E ARG* 2.8 53.2 + - + +
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Residues in contact with SER 237 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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233E ARG* 3.1 12.6 + - - +
234E PHE 3.6 8.3 - - - -
236E LEU* 1.3 72.8 - - - +
238E LEU* 1.3 66.7 + - - +
240E ARG* 3.2 27.9 + - - +
241E ALA* 3.0 24.4 + - - +
248E VAL* 3.7 16.1 - - - +
250E GLU* 2.7 29.1 + - - -
270E LEU* 4.2 9.6 - - - -
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Residues in contact with LEU 238 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72E VAL* 3.7 31.4 - - + -
74E LEU* 4.9 4.0 - - + -
113E CYS* 3.9 25.1 - - + -
115E GLY 5.5 1.6 - - - +
144E PHE* 3.8 33.7 - - + -
234E PHE* 3.0 38.2 + - + +
235E GLY* 3.5 8.3 - - - +
237E SER* 1.3 76.3 - - - +
239E VAL* 1.3 58.1 + - - +
241E ALA* 3.3 3.0 + - + +
242E LEU* 2.8 36.6 + - + +
270E LEU* 4.1 18.5 - - + +
274E GLY* 5.0 3.4 - - - -
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Residues in contact with VAL 239 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1E MET* 3.9 24.7 - - + -
3E VAL* 3.8 29.2 - - + -
24E LEU* 4.2 8.3 - - + -
25E PRO* 4.2 19.7 - - + -
72E VAL* 4.0 13.5 - - + -
235E GLY 3.0 16.7 + - - +
236E LEU* 3.9 6.1 - - - +
238E LEU* 1.3 71.7 - - - +
240E ARG* 1.3 67.4 + - + +
242E LEU* 3.8 6.3 - - - +
243E GLN* 3.0 37.1 + - - +
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Residues in contact with ARG 240 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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25E PRO* 6.5 1.8 - - + -
233E ARG 4.9 1.0 + - - -
236E LEU* 2.8 48.8 + - + +
237E SER* 3.2 29.3 + - - +
239E VAL* 1.3 73.4 - - + +
241E ALA* 1.3 61.4 + - - +
243E GLN* 3.2 17.1 + - - +
244E GLY 3.4 0.3 + - - -
245E GLU* 3.1 60.9 + - + +
248E VAL* 4.0 15.7 - - + +
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Residues in contact with ALA 241 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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237E SER 3.0 13.8 + - - +
238E LEU* 3.7 3.4 - - + +
240E ARG* 1.3 75.6 - - - +
242E LEU* 1.3 62.4 + - - +
244E GLY* 3.1 13.9 + - - -
245E GLU 3.9 11.3 + - - +
248E VAL* 4.2 8.0 - - + +
270E LEU* 3.4 46.9 - - + +
271E GLY* 3.2 21.6 - - - +
272E LYS* 3.5 2.1 + - - -
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Residues in contact with LEU 242 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1E MET* 3.9 28.0 - - - +
71E ASP* 4.1 11.4 - - + +
72E VAL* 3.5 32.1 - - + -
113E CYS* 4.1 23.8 - - - -
142E LYS* 6.0 1.6 - - - -
238E LEU* 2.8 25.5 + - + +
239E VAL* 3.8 5.4 - - - +
240E ARG 3.3 0.2 - - - -
241E ALA* 1.3 76.2 - - - +
243E GLN* 1.3 61.0 + - - +
244E GLY 3.2 1.1 + - - -
271E GLY 3.8 10.3 - - - +
272E LYS* 3.5 36.3 - - - +
273E ASN* 4.8 0.4 - - - -
274E GLY* 4.2 2.7 - - - +
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Residues in contact with GLN 243 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1E MET* 3.4 34.9 - - + +
25E PRO* 3.8 29.8 - - - +
26E SER 6.0 0.2 + - - -
28E SER* 5.0 1.2 + - - -
239E VAL* 3.0 30.3 + - - +
240E ARG* 3.7 9.6 - - - +
241E ALA 3.2 0.4 - - - -
242E LEU* 1.3 76.8 - - - +
244E GLY* 1.3 56.6 + - - +
245E GLU* 3.6 1.1 - - + +
272E LYS* 4.7 4.2 + - - -
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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