Contacts of the strand formed by residues 169 - 178 (chain E) in PDB entry 3ZWG
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 HIS 169 (chain E).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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23E LEU* 3.8 19.8 - - + +
28E ASN* 4.4 11.9 - - - -
29E VAL 3.0 25.6 + - - -
30E LYS* 3.8 10.2 + - - -
32E LYS* 3.4 35.6 + - + -
165E ASN* 2.9 20.7 + - - -
167E SER* 3.8 4.9 - - - -
168E GLY* 1.3 81.9 - - - +
170E ALA* 1.3 60.1 + - - +
171E ILE* 5.1 0.2 - - - +
58F ASP* 3.5 15.8 + - - +
79F ARG* 4.7 16.2 + - - -
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Residues in contact with ALA 170 (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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23E LEU* 3.7 4.3 - - - +
32E LYS 2.8 10.6 + - - +
33E ILE* 3.4 23.0 - - + -
34E ALA 2.9 25.8 + - - -
106E VAL* 3.7 22.2 - - + -
115E ASN* 4.3 7.6 - - - +
164E MET* 4.0 8.7 - - + -
165E ASN* 3.2 10.1 - - - +
167E SER 4.3 1.3 - - - +
169E HIS* 1.3 72.6 - - - +
171E ILE* 1.3 65.5 + - - +
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Residues in contact with ILE 171 (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 PHE* 4.6 4.7 - - + +
19E LEU* 3.7 31.2 - - + -
20E LYS* 4.1 37.2 - - + +
23E LEU* 4.2 13.0 - - + -
34E ALA* 3.7 6.5 - - + -
163E PHE* 3.5 2.7 - - + +
164E MET* 3.3 25.4 - - - +
165E ASN* 2.8 17.1 + - + +
169E HIS 5.1 1.1 - - - +
170E ALA* 1.3 79.9 - - - +
172E LEU* 1.3 63.6 + - - +
173E GLU 4.7 0.2 - - - +
58F ASP* 3.5 26.7 - - + +
60F VAL* 3.9 21.5 - - + -
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Residues in contact with LEU 172 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19E LEU* 3.9 3.1 - - - +
33E ILE* 4.2 12.3 - - + +
34E ALA 3.0 12.1 + - - +
35E VAL* 3.5 18.2 - - + -
36E GLY 3.0 26.0 + - - +
102E VAL* 4.4 7.0 - - + -
104E PHE* 4.2 19.7 - - + -
117E TRP* 3.8 40.6 - - + -
163E PHE 3.3 15.5 - - - +
164E MET* 4.0 8.3 - - + -
170E ALA 4.2 0.2 - - - -
171E ILE* 1.3 72.1 - - - +
173E GLU* 1.3 59.8 + - - +
174E ILE* 3.7 32.3 - - + -
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Residues in contact with GLU 173 (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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14E LEU* 4.1 19.2 - - + +
15E GLY* 4.2 11.3 - - - -
16E PHE 4.1 9.5 + - - -
19E LEU* 3.8 12.0 - - + +
36E GLY 3.6 2.7 - - - -
149E TRP* 3.9 20.1 - - + -
161E ARG 3.8 0.2 - - - +
162E GLY* 3.0 3.5 - - - -
163E PHE 2.8 38.9 + - - +
171E ILE* 4.1 0.6 - - - +
172E LEU* 1.3 73.0 - - - +
174E ILE* 1.3 63.5 + - - +
175E HIS* 3.0 31.2 + - + +
60F VAL* 3.3 31.5 - - + +
63F HIS* 6.1 0.2 - - - +
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Residues in contact with ILE 174 (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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14E LEU* 4.1 1.0 - - - +
35E VAL* 5.3 0.4 - - + -
36E GLY 3.0 10.1 + - - +
37E ILE* 3.3 17.2 - - + -
38E ASP 2.9 24.4 + - - -
102E VAL* 3.6 34.1 - - + -
117E TRP* 4.1 11.2 - - + -
119E VAL* 3.8 25.1 - - + -
160E SER* 4.8 2.9 - - - -
161E ARG 3.2 9.4 - - - +
162E GLY* 4.3 0.4 - - - -
172E LEU* 3.7 29.2 - - + -
173E GLU* 1.3 79.6 - - - +
175E HIS* 1.3 76.0 + - - +
176E VAL* 4.3 13.2 - - + -
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Residues in contact with HIS 175 (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 5.0 1.8 - - - -
14E LEU* 4.5 14.7 - - + +
38E ASP* 3.1 37.7 + - + +
40E GLU* 5.7 0.4 - - - +
149E TRP* 4.5 2.2 - + - -
159E LYS 3.8 0.5 - - - +
160E SER* 3.7 1.4 - - - -
161E ARG* 2.6 79.8 + - - +
173E GLU* 3.0 36.5 + - + +
174E ILE* 1.3 78.5 - - - +
176E VAL* 1.3 63.9 + - - +
177E THR* 3.7 14.9 + - + +
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Residues in contact with VAL 176 (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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37E ILE* 4.6 1.3 - - + -
38E ASP 3.1 7.0 + - - +
40E GLU* 2.8 31.2 + - - +
41E SER* 3.2 15.0 + - - -
45E TRP* 3.6 37.9 - - + -
100E LEU* 4.1 19.1 - - + -
119E VAL* 4.7 1.6 - - + -
154E LEU* 4.3 12.3 - - + -
158E LEU* 4.3 11.7 - - + -
159E LYS 3.6 8.3 - - - +
160E SER* 4.6 10.1 - - - -
174E ILE* 4.3 15.7 - - + -
175E HIS* 1.3 73.2 - - - +
177E THR* 1.3 60.2 + - - +
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Residues in contact with THR 177 (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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40E GLU* 3.7 24.2 - - + -
41E SER* 4.4 4.7 - - - -
158E LEU* 3.5 3.8 - - - -
159E LYS* 3.0 51.9 + - - +
161E ARG* 5.8 3.8 - - + +
175E HIS* 4.0 19.2 + - + +
176E VAL* 1.3 78.8 - - - +
178E LYS* 1.3 73.7 + - - +
179E ALA 3.2 0.2 + - - -
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Residues in contact with LYS 178 (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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40E GLU 3.3 24.8 + - - -
41E SER* 3.6 15.5 - - - +
42E GLY* 4.2 10.6 - - - -
67E HIS* 3.8 24.8 + - - -
157E GLY 3.8 6.7 - - - +
158E LEU* 4.6 3.4 - - + -
159E LYS* 3.9 5.0 + - - -
177E THR* 1.3 81.8 + - - +
179E ALA* 1.3 65.3 + - - +
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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