Contacts of the helix formed by residues 67 - 82 (chain A) in PDB entry 4UN0
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 67 (chain A).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65A GLY 4.2 0.2 + - - -
66A LEU* 1.3 76.9 - - - +
68A TYR* 1.3 104.7 + + - +
69A ASP* 2.8 41.7 + - + +
70A THR* 3.1 28.8 + - - +
71A LEU* 3.3 11.3 + - - +
109A THR* 4.7 14.1 + - + +
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Residues in contact with TYR 68 (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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58A PHE* 6.1 1.7 - - + -
66A LEU 3.6 1.9 + - - -
67A HIS* 1.3 97.3 + + - +
69A ASP* 1.3 91.2 + - - +
71A LEU* 3.8 14.4 + - + +
72A ALA* 3.4 20.6 + - - +
161A TYR* 3.5 43.5 + + + +
162A GLN* 5.4 1.3 - - - -
165A LEU* 4.5 11.6 - - - +
186A TRP* 3.6 31.8 - + + +
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Residues in contact with ASP 69 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A HIS* 2.8 25.6 + - + +
68A TYR* 1.3 100.4 - - - +
70A THR* 1.3 53.6 + - - +
71A LEU 3.2 0.4 - - - -
72A ALA 3.2 0.3 + - - -
73A THR* 2.7 41.7 + - - -
107A GLU* 4.6 13.8 - - + +
159A HIS* 3.3 21.5 + - + +
161A TYR* 3.9 11.3 - - - +
162A GLN* 5.4 6.4 + - - +
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Residues in contact with THR 70 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A LEU* 4.2 18.6 - - + -
67A HIS* 3.1 25.4 + - - +
69A ASP* 1.3 78.4 - - - +
71A LEU* 1.3 62.5 + - - +
73A THR 3.5 0.2 + - - -
74A GLY* 3.3 17.2 + - - -
100A LEU* 4.4 4.1 - - + +
103A ALA* 3.6 26.9 - - + +
104A GLY* 3.9 10.8 - - - +
107A GLU* 3.5 19.2 - - - +
109A THR* 3.1 28.7 + - - +
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Residues in contact with LEU 71 (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* 4.1 10.5 - - - +
58A PHE* 3.9 39.3 - - + +
61A GLY* 3.6 29.2 - - - -
62A THR* 3.8 22.2 - - - +
66A LEU* 3.8 22.4 - - + +
67A HIS 3.3 11.0 + - - +
68A TYR* 3.8 12.8 - - + +
69A ASP 3.2 0.4 - - - -
70A THR* 1.3 77.4 - - - +
72A ALA* 1.3 62.6 + - - +
74A GLY* 3.3 3.1 + - - -
75A ILE* 3.1 28.6 + - - +
100A LEU* 4.2 9.0 - - + -
193A LEU* 5.9 0.7 - - + -
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Residues in contact with ALA 72 (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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68A TYR 3.4 12.8 + - - +
69A ASP 3.2 0.8 + - - -
71A LEU* 1.3 75.5 - - - +
73A THR* 1.3 65.7 + - - +
75A ILE* 3.8 2.0 - - - +
76A ILE* 3.0 22.7 + - - +
159A HIS* 3.3 37.9 - - + +
161A TYR* 4.0 7.2 - - + -
193A LEU* 3.7 31.5 - - + +
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Residues in contact with THR 73 (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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69A ASP 2.7 27.1 + - - -
70A THR 3.7 5.6 - - - -
72A ALA* 1.3 74.6 - - - +
74A GLY* 1.3 62.4 + - - +
76A ILE* 3.4 3.1 + - - +
77A TYR* 3.1 54.5 + - + +
103A ALA* 3.9 10.1 - - + -
106A VAL* 4.8 1.3 - - + -
107A GLU* 2.8 31.3 + - + +
155A LEU 4.5 0.7 - - - +
157A VAL* 3.7 11.3 - - + +
159A HIS* 2.9 17.5 + - - -
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Residues in contact with GLY 74 (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* 4.0 11.2 - - - -
70A THR 3.3 8.8 + - - -
71A LEU 3.3 2.9 + - - -
72A ALA 3.3 0.2 - - - -
73A THR* 1.3 80.2 - - - +
75A ILE* 1.3 55.2 + - - +
77A TYR* 3.1 6.6 + - - +
78A PHE* 2.8 24.4 + - - +
99A CYS* 3.4 21.1 - - - +
100A LEU* 4.6 1.8 - - - -
103A ALA* 3.6 15.8 - - - +
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Residues in contact with ILE 75 (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 ALA* 3.7 32.5 - - + +
57A ILE* 4.1 11.9 - - + -
58A PHE* 4.6 14.8 - - + +
71A LEU 3.1 20.9 + - - +
72A ALA* 3.8 5.8 - - - +
73A THR 3.3 0.2 - - - -
74A GLY* 1.3 75.4 - - - +
76A ILE* 1.3 58.7 + - + +
78A PHE* 3.1 8.9 + - + +
79A HIS* 2.8 39.1 + - + +
193A LEU* 3.2 58.6 - - + +
194A CYS* 6.3 0.4 - - - -
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Residues in contact with ILE 76 (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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72A ALA 3.0 17.6 + - - +
73A THR* 3.8 4.7 - - - +
75A ILE* 1.3 73.4 - - + +
77A TYR* 1.3 67.5 + - + +
79A HIS* 3.5 5.9 + - - +
80A ARG* 3.0 62.4 + - + +
157A VAL* 4.3 12.1 - - + -
158A GLU 4.5 7.2 - - - +
159A HIS* 3.4 30.7 - - + +
160A PRO* 6.1 1.6 - - + -
193A LEU* 5.1 7.9 - - + -
198A SER* 4.1 28.9 - - - +
199A LEU* 5.8 0.9 - - + -
203A PRO* 6.1 1.6 - - + -
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Residues in contact with TYR 77 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A THR* 3.1 38.3 + - + +
74A GLY* 3.3 7.9 - - - +
76A ILE* 1.3 81.5 - - + +
78A PHE* 1.3 57.0 + - - +
80A ARG* 3.5 7.7 + - - +
81A PHE* 2.9 31.2 + - - +
99A CYS* 3.7 30.4 - - - -
102A LEU* 4.0 28.5 - - + -
103A ALA* 4.1 7.6 - - - -
106A VAL* 3.6 10.5 - - + +
147A LEU* 4.3 8.4 - - + +
151A ILE* 4.3 26.9 - - + +
154A ASP 4.3 8.3 - - - -
155A LEU* 2.4 39.6 + - - -
157A VAL* 4.6 8.7 - - + -
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Residues in contact with PHE 78 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49A TYR 4.2 0.7 - - - -
50A ARG* 4.1 21.8 - - + -
53A GLY* 3.6 26.0 - - - -
54A ALA* 4.4 7.4 - - - -
57A ILE* 3.7 12.3 - - + -
74A GLY 2.8 13.4 + - - +
75A ILE 3.1 8.5 + - - +
77A TYR* 1.3 77.9 - - - +
79A HIS* 1.3 76.8 + + - +
81A PHE* 3.4 7.5 + - - +
82A TYR* 3.2 55.7 - + - -
87A PHE* 3.9 14.6 - + - -
92A ARG* 3.5 24.9 - - + -
95A THR* 4.3 2.9 - - + -
96A GLY* 3.9 20.6 - - - -
99A CYS* 3.5 7.2 - - - -
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Residues in contact with HIS 79 (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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50A ARG* 3.2 62.7 + - + +
54A ALA* 4.4 0.2 - - + -
75A ILE* 2.8 29.9 + - + +
76A ILE 4.0 3.4 - - - +
78A PHE* 1.3 84.8 - + - +
80A ARG* 1.3 63.6 + - - +
81A PHE 3.5 0.3 + - - -
82A TYR 3.5 7.1 + - - -
83A MET* 3.5 11.8 - - - +
193A LEU* 2.7 29.9 + - + -
194A CYS 4.5 0.9 - - - -
195A THR 2.9 23.8 + - - -
196A THR* 5.2 0.2 - - - -
198A SER* 3.4 18.2 - - - +
199A LEU* 3.6 18.6 - - + +
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Residues in contact with ARG 80 (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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24A TRP* 3.3 77.0 + - + +
25A TYR* 5.1 9.5 + - - -
26A TRP* 4.8 0.7 - - + -
76A ILE* 3.0 43.2 + - + +
77A TYR* 3.9 8.8 - - - +
79A HIS* 1.3 74.1 - - - +
81A PHE* 1.3 65.4 + - - +
83A MET* 3.2 13.9 + - - +
84A PHE* 3.2 20.1 - - - -
150A THR* 4.8 1.8 - - - -
151A ILE* 4.9 10.7 - - + +
154A ASP* 4.2 10.7 + - - -
157A VAL* 3.6 26.8 - - - +
198A SER 5.5 4.4 + - - -
199A LEU* 3.7 20.2 - - + +
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Residues in contact with PHE 81 (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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77A TYR 2.9 19.5 + - - +
78A PHE* 3.5 8.5 - - - +
79A HIS 3.3 0.4 - - - -
80A ARG* 1.3 78.0 - - - +
82A TYR* 1.3 77.4 + + - +
83A MET 3.1 4.2 + - - -
84A PHE* 3.2 11.3 + - - +
85A HIS* 3.2 46.3 + + + -
90A PHE* 3.6 33.0 - + + -
95A THR* 3.6 27.1 - - + -
143A LEU* 4.2 15.9 - - + -
146A ILE* 4.3 9.6 - - + -
147A LEU* 3.7 30.3 - - + -
150A THR* 3.9 16.8 - - + -
151A ILE* 5.3 0.8 - - - +
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Residues in contact with TYR 82 (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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34A THR* 4.3 3.5 - - - -
35A PRO* 4.2 4.2 - - - +
36A SER* 4.6 0.9 + - - -
46A GLU* 4.3 5.7 - - - +
50A ARG* 3.2 28.6 + - - +
78A PHE* 3.2 50.7 + + - +
79A HIS 3.5 0.4 + - - -
80A ARG 3.3 0.8 - - - -
81A PHE* 1.3 98.8 - + - +
83A MET* 1.3 59.1 + - - +
84A PHE 3.3 1.3 - - - -
85A HIS 3.4 24.2 - - - +
86A SER 3.9 5.2 - - - -
87A PHE* 3.4 54.5 - + + -
90A PHE* 3.0 21.4 + - + -
92A ARG* 3.3 8.7 - - - -
95A THR* 2.9 24.9 + - + -
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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