Contacts of the strand formed by residues 29 - 44 (chain E) in PDB entry 6UWZ
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 29 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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20E ILE* 3.9 22.4 - - + -
21E PRO* 4.1 10.5 - - + +
22E ALA* 3.8 23.3 - - + +
27E HIS* 3.9 24.0 - - + +
28E ILE* 1.3 69.2 - - - +
30E ASP* 1.3 58.9 + - - +
31E VAL* 3.1 20.5 + - + -
60E TRP* 4.3 15.7 - - + -
61E ASN* 4.3 15.0 - - + +
86E TRP* 4.3 10.5 - - + -
155E GLU 2.8 19.8 + - - +
156E VAL* 3.2 11.2 - - + +
157E ASN 2.8 23.5 + - - -
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Residues in contact with ASP 30 (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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27E HIS* 5.9 0.2 - - - -
28E ILE* 3.3 10.2 + - - +
29E ILE* 1.3 70.9 - - - +
31E VAL* 1.3 60.6 + - - +
32E THR* 3.8 4.2 + - - -
59E GLN 3.8 6.4 - - - +
60E TRP* 3.9 11.1 - - - +
61E ASN 4.9 0.7 + - - -
157E ASN* 2.6 39.6 + - - +
159E GLN* 3.5 21.1 - - - +
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Residues in contact with VAL 31 (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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29E ILE* 3.1 25.7 + - + +
30E ASP* 1.3 71.7 - - - +
32E THR* 1.3 62.7 + - - +
33E LEU* 3.9 4.2 + - + +
58E ILE* 4.0 24.9 - - + -
59E GLN 3.5 3.4 - - - +
60E TRP* 4.2 5.8 - - + -
86E TRP* 4.9 0.4 - - + -
88E PRO* 4.0 27.4 - - + -
90E VAL* 4.4 4.9 - - + -
156E VAL* 4.2 9.6 - - + -
157E ASN 3.0 9.9 + - - +
158E LEU* 3.4 24.2 - - + -
159E GLN 2.9 26.0 + - - +
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Residues in contact with THR 32 (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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30E ASP 3.8 1.7 + - - -
31E VAL* 1.3 70.3 - - - +
33E LEU* 1.3 58.1 + - - +
57E GLU 3.4 2.1 - - - +
58E ILE* 4.6 0.4 - - - -
59E GLN* 2.7 59.5 + - + +
159E GLN* 3.2 33.0 + - - +
160E LEU 3.9 1.4 + - - +
161E SER* 3.3 42.0 - - - +
162E ALA 4.9 1.1 - - - +
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Residues in contact with LEU 33 (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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31E VAL* 4.1 10.3 - - + +
32E THR* 1.3 75.0 - - - +
34E LYS* 1.3 61.7 + - - +
56E ILE* 3.6 23.8 - - + -
57E GLU 3.1 4.9 - - - -
58E ILE* 3.6 21.1 - - + -
90E VAL* 4.2 9.0 - - + -
146E PHE* 4.0 23.3 - - + -
158E LEU* 4.5 13.9 - - + -
159E GLN 3.2 15.8 + - - +
160E LEU* 3.7 11.6 - - - +
161E SER* 3.6 17.3 + - - -
209E ILE* 3.6 24.5 - - + -
211E PHE* 4.3 12.1 - - + -
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Residues in contact with LYS 34 (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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33E LEU* 1.3 72.4 - - - +
35E LEU* 1.3 68.1 + - - +
36E THR* 4.2 15.7 - - - +
55E TRP 3.9 0.5 - - - +
56E ILE* 3.3 5.4 - - - +
57E GLU* 2.6 62.5 + - + +
160E LEU* 5.5 0.7 - - - -
161E SER* 3.1 22.4 - - - +
163E GLU* 2.6 37.7 + - - +
168E VAL* 4.3 18.8 - - + +
172E HIS* 4.5 14.9 + - - +
211E PHE* 4.5 5.8 - - - -
31G ALA 5.1 4.7 + - - -
33G CYS* 4.5 9.7 - - - +
34G SER* 3.6 13.9 - - - +
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Residues in contact with LEU 35 (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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34E LYS* 1.3 76.7 - - - +
36E THR* 1.3 67.6 + - - +
37E LEU* 4.2 1.6 - - + +
54E VAL* 4.0 30.7 - - + -
55E TRP 4.0 0.4 - - - -
56E ILE* 3.7 28.0 - - + -
144E LEU* 4.4 10.8 - - + -
146E PHE* 3.8 24.5 - - + -
170E TRP 4.5 1.8 + - - +
171E ILE* 4.0 21.6 - - + -
172E HIS* 3.1 24.6 + - - +
211E PHE* 3.6 46.1 - - + -
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Residues in contact with THR 36 (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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34E LYS* 4.2 9.5 - - - +
35E LEU* 1.3 78.9 + - - +
37E LEU* 1.3 67.8 + - - +
38E THR* 3.4 3.1 + - - +
54E VAL* 3.3 4.4 - - - -
55E TRP* 2.8 55.1 + - + -
57E GLU* 6.1 0.5 - - - +
119E LEU* 5.8 1.5 - - - +
171E ILE* 4.6 0.2 - - - -
172E HIS* 3.4 27.4 - - + +
173E ILE* 5.5 0.4 - - - -
174E ASP 5.6 0.9 - - - +
31G ALA* 3.8 35.9 + - + +
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Residues in contact with LEU 37 (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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35E LEU* 5.6 1.1 - - + -
36E THR* 1.3 75.6 - - - +
38E THR* 1.3 61.6 + - - +
39E ASN 3.9 20.0 - - - +
40E LEU* 4.7 7.4 - - + +
52E THR* 4.1 14.8 - - + -
53E ASN 4.1 0.7 - - - -
54E VAL* 3.8 22.4 - - + -
144E LEU* 6.3 0.2 - - + -
171E ILE* 3.7 19.7 - - + +
172E HIS 3.0 12.6 + - - +
173E ILE* 3.9 14.3 - - + +
174E ASP 4.8 1.9 + - - -
178E PHE* 4.0 22.8 - - + +
186E ILE* 3.6 31.2 - - + -
213E LEU* 4.1 21.3 - - + -
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Residues in contact with THR 38 (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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93D TYR 4.3 12.6 - - - +
94D ASN* 5.5 1.6 - - - -
36E THR* 3.8 3.8 + - - +
37E LEU* 1.3 74.9 - - - +
39E ASN* 1.3 86.7 + - - +
53E ASN* 2.8 29.9 + - - +
55E TRP* 3.3 40.3 + - + +
177E ASP 4.9 4.5 - - - +
178E PHE* 3.5 19.6 - - - -
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Residues in contact with ASN 39 (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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94D ASN* 4.9 4.4 - - - +
95D ASN 3.8 8.3 + - - -
96D ALA* 4.4 0.6 - - - +
127D TYR* 3.6 54.8 - - + +
37E LEU* 3.8 9.0 - - - +
38E THR* 1.3 110.7 - - - +
40E LEU* 1.3 59.4 + - - +
41E ILE* 3.8 9.1 + - + +
52E THR* 3.6 4.2 - - - -
53E ASN* 3.1 40.8 + - + +
178E PHE* 4.3 5.2 - - - -
179E THR* 4.8 7.7 + - - +
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Residues in contact with LEU 40 (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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127D TYR* 3.5 7.7 + - - -
37E LEU* 4.7 7.2 - - + -
39E ASN* 1.3 70.5 - - - +
41E ILE* 1.3 57.8 + - - +
42E SER 4.1 8.3 - - - +
50E LEU* 3.9 29.4 - - + -
51E THR 4.0 3.1 - - - +
52E THR* 4.9 4.3 - - + +
178E PHE* 4.5 8.5 - - + -
179E THR 5.2 1.6 + - - -
180E GLU* 5.9 0.7 - - - +
181E ASN* 2.6 58.6 - - + +
184E TRP* 4.5 15.3 - - + +
186E ILE* 4.1 20.2 - - + -
213E LEU* 4.5 12.8 - - + -
215E ILE* 4.1 27.6 - - + -
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Residues in contact with ILE 41 (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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47D ASN* 3.0 32.6 - - + +
49D ILE* 4.1 22.7 - - + -
96D ALA* 2.9 36.3 - - + +
97D ASP* 4.4 6.7 - - + +
127D TYR* 4.5 10.5 - - + -
39E ASN* 4.2 14.1 - - + +
40E LEU* 1.3 75.9 - - - +
42E SER* 1.3 62.5 + - - +
51E THR* 3.0 34.6 + - + +
52E THR 4.2 1.3 - - - +
53E ASN* 4.1 21.3 - - + +
123E ILE* 5.1 0.9 - - + -
181E ASN* 3.9 9.7 + - - +
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Residues in contact with SER 42 (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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47D ASN* 4.0 18.6 + - - -
40E LEU* 3.6 6.8 - - - +
41E ILE* 1.3 84.3 - - - +
43E LEU* 1.3 61.7 + - - +
44E ASN* 3.9 13.3 + - - +
49E ALA 4.4 0.2 - - - -
50E LEU* 3.5 9.9 - - - +
51E THR* 2.9 38.3 + - - -
181E ASN* 4.5 5.8 - - - +
184E TRP* 5.7 0.2 - - - -
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Residues in contact with LEU 43 (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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42E SER* 1.3 75.9 + - - +
44E ASN* 1.3 61.1 + - - +
45E GLU* 3.0 24.4 + - - +
49E ALA 3.4 21.1 - - - +
50E LEU* 4.0 8.1 - - + +
128E CYS* 3.4 25.1 - - - -
130E ILE* 4.0 16.8 - - + -
140E GLN* 3.9 11.9 - - + -
142E CYS* 3.8 11.7 - - - -
183E GLU* 5.6 0.5 - - - +
184E TRP* 3.7 42.3 + - + +
215E ILE* 3.7 22.0 - - + -
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Residues in contact with ASN 44 (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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42E SER* 3.9 9.7 + - - +
43E LEU* 1.3 70.1 - - - +
45E GLU* 1.3 59.9 + - - +
46E LYS* 3.2 21.3 + - - +
47E GLU* 3.9 36.1 + - + +
48E GLU* 2.6 35.9 + - - -
49E ALA* 3.0 13.5 + - + +
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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