Contacts of the helix formed by residues 44 - 61 (chain A) in PDB entry 2WH6
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 ASP 44 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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3A TYR* 4.9 5.8 + - - -
40A LEU* 3.9 17.4 - - + +
41A SER* 3.0 28.4 + - - +
43A GLU* 1.3 78.1 - - - +
45A THR* 1.3 72.5 + - - +
46A VAL* 3.0 37.9 + - - +
47A VAL* 2.9 15.5 + - + +
48A LEU* 3.0 10.6 + - - +
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Residues in contact with THR 45 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43A GLU 3.5 2.6 + - - +
44A ASP* 1.3 77.4 + - - +
46A VAL* 1.3 59.0 + - - +
48A LEU* 3.2 14.9 + - + +
49A ARG* 2.9 47.7 + - - +
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Residues in contact with VAL 46 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3A TYR* 5.4 4.0 - - + -
8A ILE* 4.3 6.5 - - + -
40A LEU* 4.0 19.7 - - + -
44A ASP* 3.0 27.3 + - - +
45A THR* 1.3 79.2 + - - +
47A VAL* 1.3 62.2 + - + +
49A ARG* 3.5 6.0 + - - +
50A TYR* 3.0 59.8 + - + -
150A TRP* 5.2 0.2 - - + -
151A SER* 3.7 27.6 - - - +
154A ILE* 3.8 14.8 - - + -
155A GLU* 5.4 3.4 - - - +
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Residues in contact with VAL 47 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8A ILE* 4.6 6.1 - - + -
11A ALA* 3.7 30.5 - - + +
12A LEU* 3.5 15.3 - - + +
15A ARG* 4.0 7.6 - - + -
40A LEU* 3.7 31.2 - - + -
41A SER 3.4 18.6 - - - +
42A PRO 3.3 21.8 - - - +
44A ASP* 2.9 8.3 + - + +
46A VAL* 1.3 76.9 - - + +
48A LEU* 1.3 60.3 + - - +
50A TYR* 3.4 2.0 + - - -
51A HIS* 2.8 28.1 + - - +
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Residues in contact with LEU 48 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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15A ARG* 3.3 50.3 - - + +
42A PRO 3.8 8.1 - - - +
43A GLU* 3.7 21.3 - - + +
44A ASP 3.0 10.1 + - - +
45A THR* 3.2 15.9 + - + +
47A VAL* 1.3 74.8 - - - +
49A ARG* 1.3 64.6 + - + +
51A HIS* 3.3 5.6 + - + +
52A VAL* 3.1 29.2 + - + +
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Residues in contact with ARG 49 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45A THR* 2.9 33.7 + - - +
46A VAL* 3.8 6.7 - - - +
48A LEU* 1.3 76.0 - - + +
50A TYR* 1.3 65.0 + - - +
52A VAL* 3.3 9.6 + - - +
53A LEU* 3.3 21.8 + - - +
154A ILE* 3.4 47.6 + - + +
155A GLU* 3.7 13.8 + - - +
158A ILE 5.3 1.4 + - - -
1164A BR 3.2 35.1 - - - +
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Residues in contact with TYR 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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8A ILE* 3.5 22.0 - - + -
12A LEU* 3.8 23.8 - - + -
46A VAL* 3.0 36.6 + - + +
47A VAL* 4.7 0.4 - - - -
49A ARG* 1.3 75.2 - - - +
51A HIS* 1.3 63.7 + - - +
53A LEU* 3.1 11.5 + - + +
54A LEU* 2.9 29.2 + - + +
102A LEU* 3.9 25.4 - - + -
105A MET* 6.5 0.4 - - + -
150A TRP* 2.6 55.7 + + - -
153A LEU* 3.5 9.2 - - - +
154A ILE* 3.5 25.6 + - + -
158A ILE* 4.1 12.2 - - + +
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Residues in contact with HIS 51 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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12A LEU* 3.4 14.5 - - + +
15A ARG* 4.3 15.2 + - + +
16A ASP* 2.6 40.2 + - + +
19A VAL* 3.9 20.4 - - + -
20A HIS* 5.1 2.0 - - - -
47A VAL 2.8 19.0 + - - +
48A LEU* 3.6 9.3 + - - +
49A ARG 3.2 0.4 - - - -
50A TYR* 1.3 77.1 - - - +
52A VAL* 1.3 62.1 + - - +
54A LEU* 3.9 2.9 - - - +
55A GLU* 2.9 37.5 + - + +
109A MET* 3.5 26.5 - - + +
113A ARG* 5.1 0.7 - - - -
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Residues in contact with VAL 52 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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48A LEU 3.1 16.9 + - - +
49A ARG* 3.7 7.6 - - - +
50A TYR 3.2 0.4 - - - -
51A HIS* 1.3 80.7 - - - +
53A LEU* 1.3 63.7 + - + +
55A GLU* 3.3 6.8 + - + +
56A GLU* 2.9 44.0 + - + +
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Residues in contact with LEU 53 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49A ARG 3.3 12.4 + - - +
50A TYR* 3.1 16.8 + - + +
52A VAL* 1.3 80.0 - - + +
54A LEU* 1.3 67.4 + - + +
56A GLU* 3.3 21.3 + - - +
57A ILE* 3.1 27.4 + - + +
60A ARG* 4.7 0.5 + - - -
102A LEU* 4.3 10.5 - - + -
154A ILE* 3.3 30.3 - - + -
158A ILE* 3.8 36.8 - - + -
69B PHE* 5.3 7.1 - - + -
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Residues in contact with LEU 54 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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9A LEU* 5.5 0.2 - - + -
12A LEU* 3.7 29.8 - - + -
50A TYR* 2.9 20.8 + - + +
51A HIS 4.0 0.7 - - - +
53A LEU* 1.3 77.4 - - + +
55A GLU* 1.3 60.1 + - - +
57A ILE* 3.3 3.9 + - + +
58A ILE* 2.9 33.3 + - - +
102A LEU* 3.7 48.5 - - + +
105A MET* 3.9 26.2 - - + +
106A ALA* 3.9 10.6 - - + +
109A MET* 3.7 24.7 - - + -
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Residues in contact with GLU 55 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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20A HIS* 5.6 3.5 - - - -
51A HIS* 2.9 27.1 + - + +
52A VAL* 3.8 6.5 - - + +
54A LEU* 1.3 75.2 - - - +
56A GLU* 1.3 57.3 + - + +
58A ILE* 3.3 7.4 + - - +
59A GLU* 2.4 64.6 + - - +
109A MET* 4.1 2.6 - - + +
113A ARG* 2.7 44.1 + - - +
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Residues in contact with GLU 56 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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52A VAL* 2.9 36.1 + - + +
53A LEU* 3.5 25.7 - - - +
54A LEU 3.2 0.2 - - - -
55A GLU* 1.3 77.4 - - + +
57A ILE* 1.3 57.2 + - - +
59A GLU* 3.4 6.4 + - - +
60A ARG* 3.0 54.1 + - - +
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Residues in contact with ILE 57 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53A LEU 3.1 16.7 + - - +
54A LEU* 3.3 11.4 + - + +
56A GLU* 1.3 74.1 - - - +
58A ILE* 1.3 65.4 + - - +
60A ARG* 3.5 19.5 + - - +
61A ASN* 2.8 40.4 + - - +
65A PHE* 4.0 10.8 - - + -
99A GLY 5.5 0.4 - - - +
102A LEU* 3.6 39.5 - - + +
103A ALA* 4.5 4.3 - - - +
106A ALA* 3.7 15.7 - - + -
1166A BR 4.2 0.7 - - + -
65B ILE* 4.3 12.6 - - + -
69B PHE* 4.0 22.4 - - + -
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Residues in contact with ILE 58 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54A LEU 2.9 20.0 + - - +
55A GLU* 3.6 15.7 - - - +
57A ILE* 1.3 73.1 - - - +
59A GLU* 1.3 59.8 + - - +
61A ASN 3.2 2.6 + - - -
62A SER* 2.8 32.4 + - - -
65A PHE* 3.8 20.5 - - + -
106A ALA* 3.7 24.2 - - + +
109A MET* 3.7 25.6 - - + -
110A HIS* 3.8 31.6 - - + +
113A ARG* 4.1 13.7 - - - +
1161A BR 3.9 18.4 - - + -
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Residues in contact with GLU 59 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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55A GLU* 2.4 55.0 + - - +
56A GLU* 3.9 5.1 - - - +
58A ILE* 1.3 74.4 - - - +
60A ARG* 1.3 63.8 + - + +
61A ASN 3.3 0.3 + - - -
62A SER* 3.3 15.8 + - - -
1161A BR 4.1 17.7 - - + -
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Residues in contact with ARG 60 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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53A LEU 4.7 0.4 + - - -
56A GLU* 3.0 48.5 + - - +
57A ILE* 3.9 11.5 - - - +
58A ILE 3.3 0.2 - - - -
59A GLU* 1.3 76.4 - - + +
61A ASN* 1.3 73.2 + - - +
62A SER 3.5 1.1 + - - -
1166A BR 2.2 42.8 - - + +
69B PHE* 3.9 13.7 - - - -
72B TYR* 3.3 52.0 - - - -
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Residues in contact with ASN 61 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57A ILE 2.8 25.1 + - - +
58A ILE 3.2 3.8 - - - -
60A ARG* 1.3 82.4 + - - +
62A SER* 1.3 66.0 + - - +
63A GLU 3.3 2.2 - - - -
64A THR* 3.1 10.3 + - - -
65A PHE* 2.8 28.8 + - + +
1166A BR 3.3 21.3 - - - +
65B ILE* 3.5 45.0 - - + +
68B GLU* 6.2 0.8 - - - +
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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