Contacts of the helix formed by residues 67 - 82 (chain B) 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 B).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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65B GLY 4.2 0.6 + - - -
66B LEU* 1.3 77.4 - - - +
68B TYR* 1.3 111.1 + + - +
69B ASP* 3.7 26.1 + - + +
70B THR* 3.1 29.8 + - - +
71B LEU* 3.2 12.6 + - - +
107B GLU* 5.7 4.5 - - + -
109B THR* 4.8 12.8 + - + +
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Residues in contact with TYR 68 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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58B PHE* 6.4 1.8 - - + -
66B LEU 3.6 2.3 + - - -
67B HIS* 1.3 100.5 + + - +
69B ASP* 1.3 88.8 + - - +
70B THR 3.4 0.2 - - - -
71B LEU* 3.7 13.8 + - + +
72B ALA* 3.3 21.7 + - - +
161B TYR* 3.5 30.5 + + + +
165B LEU* 4.4 12.3 - - - +
186B TRP* 3.3 46.2 - + + +
193B LEU* 5.6 0.2 - - - +
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Residues in contact with ASP 69 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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67B HIS* 3.1 25.7 + - + -
68B TYR* 1.3 101.5 - - - +
70B THR* 1.3 55.9 + - - +
71B LEU 3.2 0.4 - - - -
73B THR* 2.7 39.2 + - - +
107B GLU* 4.7 9.4 - - - +
159B HIS* 3.2 24.5 + - + +
161B TYR* 3.7 13.3 - - - +
162B GLN* 5.5 7.4 + - - +
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Residues in contact with THR 70 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66B LEU* 4.4 16.6 - - + -
67B HIS* 3.1 26.7 + - - +
69B ASP* 1.3 78.0 - - - +
71B LEU* 1.3 62.2 + - - +
73B THR 3.5 0.3 + - - -
74B GLY* 3.2 16.3 + - - -
100B LEU* 4.4 4.2 - - + +
103B ALA* 3.5 27.9 - - + +
104B GLY* 3.8 10.5 - - - +
107B GLU* 3.6 19.5 - - - +
109B THR* 3.1 29.2 + - - +
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Residues in contact with LEU 71 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B ILE* 4.2 6.9 - - + +
58B PHE* 4.0 46.7 - - + +
61B GLY* 3.6 27.4 - - - -
62B THR* 4.1 11.2 - - - +
66B LEU* 3.8 20.9 - - + +
67B HIS 3.2 12.1 + - - +
68B TYR* 3.8 13.7 - - - +
69B ASP 3.2 0.2 - - - -
70B THR* 1.3 77.2 - - - +
72B ALA* 1.3 58.2 + - - +
74B GLY* 3.2 3.3 + - - -
75B ILE* 3.0 34.8 + - + +
100B LEU* 3.9 15.3 - - + -
193B LEU* 5.9 0.7 - - + -
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Residues in contact with ALA 72 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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68B TYR 3.3 14.3 + - - +
69B ASP 3.2 1.2 + - - -
71B LEU* 1.3 76.6 - - - +
73B THR* 1.3 60.2 + - - +
75B ILE* 3.8 2.6 - - - +
76B ILE* 3.0 34.3 + - - +
159B HIS* 3.3 30.1 - - + +
161B TYR* 4.1 7.4 - - + -
193B LEU* 3.9 30.7 - - + +
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Residues in contact with THR 73 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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69B ASP 2.7 23.4 + - - -
70B THR 3.6 6.1 - - - -
72B ALA* 1.3 78.1 - - - +
74B GLY* 1.3 61.9 + - - +
76B ILE* 3.5 1.6 + - - +
77B TYR* 3.1 56.1 + - + +
103B ALA* 3.8 11.4 - - + -
106B VAL* 4.8 1.8 - - + -
107B GLU* 3.1 27.3 + - + +
155B LEU 4.5 0.2 - - - +
157B VAL* 3.7 11.9 - - + +
159B HIS* 2.9 18.8 + - - -
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Residues in contact with GLY 74 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57B ILE* 4.1 6.3 - - - -
70B THR 3.2 9.0 + - - -
71B LEU 3.2 3.3 + - - -
73B THR* 1.3 77.1 - - - +
75B ILE* 1.3 57.7 + - - +
77B TYR* 3.2 7.5 + - - +
78B PHE* 2.9 23.7 + - - +
99B CYS* 3.3 23.4 - - - +
100B LEU* 4.5 3.6 - - - -
103B ALA* 3.5 17.4 - - - +
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Residues in contact with ILE 75 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54B ALA* 3.8 26.7 - - + +
57B ILE* 4.1 19.5 - - + -
58B PHE* 4.6 14.8 - - + +
71B LEU* 3.0 20.0 + - + +
72B ALA* 3.8 5.6 - - - +
74B GLY* 1.3 75.9 - - - +
76B ILE* 1.3 58.0 + - - +
78B PHE* 3.1 9.6 + - + +
79B HIS* 2.9 38.4 + - + +
193B LEU* 3.3 58.1 - - + +
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Residues in contact with ILE 76 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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72B ALA 3.0 17.2 + - - +
73B THR* 3.8 4.9 - - - +
74B GLY 3.3 0.2 - - - -
75B ILE* 1.3 73.2 - - + +
77B TYR* 1.3 66.3 + - + +
79B HIS* 3.9 5.4 - - - +
80B ARG* 3.0 61.3 + - + +
157B VAL* 4.4 11.0 - - + -
158B GLU 4.4 8.1 - - - +
159B HIS* 3.4 31.0 - - + +
160B PRO* 6.0 2.5 - - + -
193B LEU* 5.0 8.3 - - + -
198B SER* 4.0 30.1 - - - +
199B LEU* 5.7 0.7 - - + -
203B PRO* 6.0 1.6 - - + -
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Residues in contact with TYR 77 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73B THR* 3.1 38.1 + - + +
74B GLY* 3.3 7.0 - - - +
76B ILE* 1.3 79.7 - - + +
78B PHE* 1.3 57.4 + - - +
80B ARG* 3.4 8.2 + - - +
81B PHE* 2.8 31.5 + - - +
99B CYS* 3.7 29.8 - - - -
102B LEU* 4.0 24.9 - - + -
103B ALA* 4.1 11.0 - - - -
106B VAL* 3.7 9.9 - - + +
147B LEU* 4.3 9.3 - - + +
151B ILE* 4.3 22.9 - - + +
154B ASP 4.3 11.0 - - - -
155B LEU* 2.4 39.7 + - - -
157B VAL* 4.4 9.9 - - + -
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Residues in contact with PHE 78 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
49B TYR 4.2 0.4 - - - -
50B ARG* 4.1 20.4 - - + -
53B GLY* 3.7 27.1 - - - -
54B ALA* 4.6 7.0 - - + -
57B ILE* 3.8 12.8 - - + -
74B GLY 2.9 12.8 + - - +
75B ILE* 3.1 8.7 + - - +
77B TYR* 1.3 77.4 - - - +
79B HIS* 1.3 76.2 + + - +
81B PHE* 3.4 8.2 + - - +
82B TYR* 3.3 57.9 - + - -
87B PHE* 3.9 13.9 - + - -
92B ARG* 3.5 24.5 - - + -
95B THR* 4.2 2.5 - - + -
96B GLY* 3.8 22.2 - - - -
99B CYS* 3.5 7.4 - - - -
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Residues in contact with HIS 79 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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50B ARG* 3.3 59.1 + - + +
54B ALA* 4.6 0.2 - - + -
75B ILE* 2.9 26.2 + - + +
76B ILE* 3.9 2.7 - - + +
78B PHE* 1.3 86.3 - + - +
80B ARG* 1.3 63.0 + - - +
81B PHE 3.5 0.3 + - - -
82B TYR 3.5 5.9 + - - -
83B MET* 3.5 13.3 + - - +
193B LEU* 2.7 30.0 + - + -
194B CYS 4.5 0.9 - - - -
195B THR 2.9 26.6 + - - -
198B SER* 3.5 17.0 - - - +
199B LEU* 3.6 24.2 - - + +
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Residues in contact with ARG 80 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24B TRP* 3.4 75.6 + - + +
25B TYR* 4.9 11.5 + - - -
26B TRP* 4.7 1.3 - - + -
76B ILE* 3.0 41.0 + - - +
77B TYR* 3.9 10.5 - - - +
79B HIS* 1.3 73.7 - - - +
81B PHE* 1.3 65.3 + - - +
83B MET* 3.2 14.6 + - - +
84B PHE* 3.2 18.9 - - - -
150B THR* 5.0 1.6 - - - -
151B ILE* 4.9 9.7 - - + +
154B ASP* 4.1 11.1 + - - -
157B VAL* 3.6 26.6 - - - +
198B SER 5.4 4.4 + - - -
199B LEU* 3.6 20.0 - - + +
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Residues in contact with PHE 81 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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77B TYR 2.8 19.0 + - - +
78B PHE* 3.5 8.7 - - - +
79B HIS 3.3 0.4 - - - -
80B ARG* 1.3 77.8 - - - +
82B TYR* 1.3 72.0 + + - +
83B MET 3.1 4.0 + - - -
84B PHE* 3.2 11.8 + - - +
85B HIS* 3.2 52.5 + + + -
90B PHE* 3.8 19.7 - + - -
95B THR* 3.5 30.7 - - + -
143B LEU* 4.1 21.1 - - + -
146B ILE* 4.3 9.6 - - + -
147B LEU* 3.7 28.5 - - + -
150B THR* 4.1 17.3 - - - -
151B ILE* 5.4 1.3 - - - +
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Residues in contact with TYR 82 (chain B).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34B THR* 4.2 6.8 - - - -
35B PRO* 4.0 4.9 - - - +
36B SER* 4.4 0.5 + - - -
46B GLU* 4.3 1.4 - - - +
50B ARG* 3.2 23.9 + - - +
78B PHE* 3.3 48.1 + + - +
79B HIS 3.5 1.0 + - - -
80B ARG 3.3 0.6 - - - -
81B PHE* 1.3 95.3 - + - +
83B MET* 1.3 58.4 + - - +
84B PHE 3.3 1.1 - - - -
85B HIS 3.4 26.3 - - - +
86B SER 3.8 9.2 - - - -
87B PHE* 3.5 53.2 - + + -
90B PHE* 3.0 23.6 + - + -
91B PRO 3.3 5.7 + - - -
92B ARG* 3.3 4.5 - - - -
95B THR* 2.8 27.2 + - + -
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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
------------------------------------------------------------
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