Contacts of the helix formed by residues 71 - 89 (chain A) in PDB entry 3OE0
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 SER 71 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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72A MET* 1.3 65.1 + - - +
73A THR* 3.7 8.5 + - - -
74A ASP* 3.1 41.4 + - - +
75A LYS* 3.2 13.0 + - - +
236A LYS* 4.5 17.8 + - - +
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Residues in contact with MET 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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71A SER* 1.3 71.8 + - - +
73A THR* 1.3 62.6 + - - +
75A LYS* 3.0 24.9 + - - +
76A TYR* 3.3 21.1 + - + -
133A ASP* 3.7 12.1 - - - +
145A GLN* 4.6 4.9 - - + +
148A ARG* 3.4 44.8 - - + +
149A LYS* 3.4 51.1 - - + +
152A ALA* 4.0 22.9 - - - -
153A GLU* 5.4 1.6 - - - +
236A LYS* 5.0 4.6 - - - +
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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
----------------------------------------------------------
71A SER* 3.2 7.8 + - - -
72A MET* 1.3 76.3 + - - +
74A ASP* 1.3 62.4 + - - +
76A TYR* 3.7 9.3 + - - +
77A ARG* 3.3 31.6 + - - +
130A ILE* 3.9 17.9 - - + +
133A ASP* 4.0 3.4 + - - +
134A ARG* 3.6 32.8 + - - +
236A LYS* 5.2 2.3 - - - -
237A ALA 5.8 1.3 - - - +
241A THR* 3.6 23.1 - - - +
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Residues in contact with ASP 74 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A MET* 3.6 30.5 - - + +
71A SER* 3.1 29.6 + - - +
73A THR* 1.3 77.5 - - - +
75A LYS* 1.3 66.9 + - - +
77A ARG* 2.8 18.9 + - - +
78A LEU* 2.8 12.7 + - - +
302A TYR* 2.8 31.5 + - - -
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Residues in contact with LYS 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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71A SER 3.2 9.2 + - - +
72A MET* 3.0 20.2 + - - +
74A ASP* 1.3 76.4 - - - +
76A TYR* 1.3 64.3 + - + +
78A LEU* 3.1 40.0 + - + +
79A HIS* 3.3 22.3 + - + +
152A ALA* 4.6 22.1 + - + +
153A GLU* 3.4 30.1 - - - +
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Residues in contact with TYR 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 MET* 3.3 21.8 + - + -
73A THR* 4.0 4.7 - - - +
74A ASP 3.2 0.4 - - - -
75A LYS* 1.3 78.1 - - + +
77A ARG* 1.3 57.2 + - - +
79A HIS* 3.2 12.4 - + - +
80A LEU 2.9 22.9 + - - -
126A ILE* 3.4 18.4 - - + +
129A PHE* 3.7 31.6 - + + -
130A ILE* 3.4 33.9 - - + -
133A ASP* 3.8 28.8 + - + +
148A ARG 4.5 0.7 + - - -
151A LEU* 3.3 40.0 + - - +
152A ALA* 3.3 24.5 + - + +
156A VAL* 4.3 16.6 - - + -
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Residues in contact with ARG 77 (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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59A VAL* 4.5 4.7 - - + +
63A MET* 6.4 0.2 - - + -
73A THR* 3.3 25.6 + - - +
74A ASP* 2.8 8.9 + - - +
76A TYR* 1.3 73.6 - - - +
78A LEU* 1.3 60.3 + - - +
80A LEU* 3.7 9.2 - - + -
81A SER* 2.9 31.4 + - - -
130A ILE* 4.4 14.1 - - + -
240A PRO* 5.0 17.1 + - - +
241A THR* 6.1 0.2 - - - -
244A LEU* 3.9 21.1 - - + +
298A ASN* 3.0 50.4 + - - +
301A LEU* 3.9 17.6 - - - +
302A TYR* 3.2 43.3 + - + +
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Residues in contact with LEU 78 (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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59A VAL* 4.6 6.5 - - + +
60A ILE* 4.5 21.8 - - + +
63A MET* 4.5 12.7 - - + +
64A GLY* 4.0 35.0 - - - +
74A ASP 2.8 10.8 + - - +
75A LYS* 3.1 30.0 + - + +
77A ARG* 1.3 78.0 - - - +
79A HIS* 1.3 67.9 + - + +
81A SER* 3.1 4.1 + - - -
82A VAL* 3.0 26.8 + - + +
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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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75A LYS* 3.3 32.9 + - + +
76A TYR* 3.2 13.8 + + - +
78A LEU* 1.3 82.8 - - + +
80A LEU* 1.3 63.3 + - - +
82A VAL* 2.8 19.9 + - - +
83A ALA* 2.9 13.3 + - - +
126A ILE* 4.5 11.0 - - + -
152A ALA 4.6 6.3 + - - -
156A VAL* 3.9 24.5 - - + +
157A TYR* 3.8 31.9 + + - -
161A TRP* 3.0 40.7 + - + -
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Residues in contact with LEU 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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76A TYR 2.9 18.6 + - - +
77A ARG* 3.7 10.8 - - + +
78A LEU 3.3 0.2 - - - -
79A HIS* 1.3 73.6 - - - +
81A SER* 1.3 57.8 + - - +
83A ALA* 3.1 5.3 + - - +
84A ASP* 3.0 44.0 + - - +
123A SER* 3.6 41.1 - - - +
126A ILE* 4.2 16.3 - - + +
127A LEU* 3.8 24.0 - - + -
130A ILE* 5.2 0.9 - - + -
244A LEU* 4.2 14.8 - - + -
248A PHE* 5.6 3.8 - - + -
298A ASN* 4.1 22.4 - - + +
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Residues in contact with SER 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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56A ASN* 2.7 44.4 + - - +
59A VAL* 3.5 21.2 - - - +
60A ILE* 3.9 5.8 - - - +
77A ARG 2.9 18.0 + - - -
78A LEU 3.7 3.4 - - - -
80A LEU* 1.3 74.4 - - - +
82A VAL* 1.3 59.9 + - - +
84A ASP* 4.1 0.7 - - - -
85A LEU* 3.1 26.5 + - - +
298A ASN* 3.4 13.2 + - - +
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Residues in contact with VAL 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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60A ILE* 3.4 28.5 - - + -
78A LEU* 3.0 20.5 + - + +
79A HIS* 2.8 11.7 + - - +
81A SER* 1.3 73.9 - - - +
83A ALA* 1.3 65.7 + - - +
85A LEU* 3.8 2.2 - - - +
86A LEU* 3.1 28.9 + - + +
161A TRP* 4.6 12.1 - - + -
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Residues in contact with ALA 83 (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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79A HIS 2.9 10.8 + - - +
80A LEU* 3.3 13.0 - - - +
82A VAL* 1.3 79.0 - - - +
84A ASP* 1.3 59.8 + - - +
86A LEU* 3.8 6.8 + - - +
87A PHE 3.6 11.3 + - - -
115A ILE* 5.6 0.2 - - - +
119A ASN* 3.1 24.3 + - - +
122A SER* 3.6 24.0 - - - +
123A SER* 4.8 4.3 - - - +
126A ILE* 4.5 4.5 - - + -
161A TRP* 3.8 16.4 - - + -
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Residues in contact with ASP 84 (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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56A ASN* 3.8 19.7 + - - +
80A LEU* 3.0 36.3 + - - +
81A SER* 4.1 3.2 - - - +
82A VAL 3.3 0.2 - - - -
83A ALA* 1.3 74.3 - - - +
85A LEU* 1.3 67.3 + - - +
87A PHE* 3.1 4.2 + - - +
88A VAL* 2.9 28.1 + - - +
119A ASN* 3.1 20.2 + - - +
123A SER* 4.2 6.4 - - - -
294A HIS* 3.6 19.2 + - - +
295A CYS* 3.8 26.4 - - + +
298A ASN* 4.4 4.0 + - - +
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Residues in contact with LEU 85 (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 ILE* 4.2 24.5 - - + +
56A ASN* 4.2 13.6 + - + -
57A GLY* 4.4 7.9 - - - +
60A ILE* 3.4 27.4 - - + -
81A SER 3.1 19.2 + - - +
82A VAL 3.8 4.7 - - - +
83A ALA 3.4 0.2 - - - -
84A ASP* 1.3 76.1 - - - +
86A LEU* 1.3 65.0 + - - +
88A VAL* 2.9 40.7 + - + +
89A ILE* 3.2 16.2 + - + +
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Residues in contact with LEU 86 (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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82A VAL* 3.1 18.1 + - + +
83A ALA* 4.0 6.5 - - - +
85A LEU* 1.3 78.6 - - - +
87A PHE* 1.3 60.9 + - - +
89A ILE* 3.5 30.7 - - + +
90A THR 4.1 1.2 + - - -
115A ILE* 3.4 43.5 - - + +
118A VAL* 6.0 8.7 - - + -
161A TRP* 6.1 4.7 - - + -
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Residues in contact with PHE 87 (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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83A ALA 3.6 2.5 + - - +
84A ASP 3.1 8.2 + - - +
85A LEU 3.0 0.4 - - - -
86A LEU* 1.3 78.7 - - - +
88A VAL* 1.3 58.6 + - - +
89A ILE 3.2 0.4 - - - -
90A THR* 2.7 49.6 + - + +
91A LEU* 4.0 23.1 - - + -
94A TRP* 4.8 4.5 - - - -
115A ILE* 3.8 7.3 - - + +
116A TYR* 3.9 35.7 - + + -
119A ASN* 3.8 36.8 - - + +
292A PHE* 3.8 39.5 - + + -
294A HIS* 5.2 4.0 - - - -
295A CYS* 3.6 28.0 - - - -
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Residues in contact with VAL 88 (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 ILE 4.9 1.8 - - - +
49A PHE* 3.6 9.2 - - + -
52A GLY* 4.4 9.6 - - - -
53A ILE* 4.0 20.9 - - + +
56A ASN* 4.3 6.5 - - - +
84A ASP 2.9 23.6 + - - +
85A LEU* 2.9 34.8 + - + +
87A PHE* 1.3 71.2 - - + +
89A ILE* 1.3 65.6 + - + +
91A LEU* 2.8 44.4 + - + +
92A PRO* 3.6 3.8 - - - +
295A CYS* 3.9 28.5 - - + -
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Residues in contact with ILE 89 (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 PHE* 4.5 10.1 - - + -
53A ILE* 4.7 14.1 - - + -
85A LEU* 3.6 17.9 - - + +
86A LEU* 3.5 35.9 - - + +
88A VAL* 1.3 86.7 - - + +
90A THR* 1.3 58.0 + - - +
91A LEU 3.4 0.4 - - - -
92A PRO* 3.8 9.9 - - - +
93A PHE* 3.8 14.7 - - - -
115A ILE* 5.8 2.9 - - + -
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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