Contacts of the helix formed by residues 82 - 100 (chain A) in PDB entry 4OWW
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 GLY 82 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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79A VAL 3.4 7.5 - - - +
80A CYS 3.0 6.1 + - - -
81A LYS* 1.3 81.4 - - - +
83A LEU* 1.3 68.8 - - - -
84A PRO* 3.6 4.5 - - - -
85A GLN* 3.5 4.7 + - - -
86A HIS* 3.1 19.9 + - - +
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Residues in contact with LEU 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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82A GLY* 1.3 70.3 - - - -
84A PRO* 1.3 69.8 - - + +
86A HIS* 3.0 11.1 + - - +
87A GLU* 2.8 29.2 + - - +
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Residues in contact with PRO 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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51A ARG* 5.8 0.2 + - - -
82A GLY* 3.6 1.3 - - - -
83A LEU* 1.3 94.2 - - + +
85A GLN* 1.3 72.4 + - - +
87A GLU* 3.4 9.6 + - + +
88A GLU* 2.9 41.1 + - - +
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Residues in contact with GLN 85 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A TYR* 3.4 53.2 - - + +
79A VAL* 4.7 0.4 - - - -
81A LYS* 3.4 29.5 + - + +
82A GLY* 3.5 13.5 + - - +
83A LEU 3.2 0.2 - - - -
84A PRO* 1.3 94.3 - - - +
86A HIS* 1.3 66.4 + - - +
88A GLU* 3.3 6.8 + - - +
89A ILE* 3.1 29.4 + - - +
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Residues in contact with HIS 86 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A VAL* 3.5 36.9 + - + +
82A GLY 3.1 15.3 + - - +
83A LEU* 3.0 14.2 + - - +
85A GLN* 1.3 77.0 - - - +
87A GLU* 1.3 64.7 + - - +
89A ILE* 3.4 2.6 + - - +
90A CYS* 3.1 42.8 + - - -
114A VAL 3.8 3.8 - - - -
116A ARG* 3.1 36.9 + - + +
117A ASP* 3.5 31.2 - - + -
121A ILE* 4.8 7.8 - - + +
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Residues in contact with GLU 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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51A ARG* 2.2 44.1 + - - +
83A LEU 2.8 15.2 + - - +
84A PRO* 3.7 9.2 - - + +
86A HIS* 1.3 81.8 + - - +
88A GLU* 1.3 55.9 + - - +
90A CYS* 4.0 0.3 - - - +
91A LEU* 2.9 43.9 + - + +
121A ILE* 4.4 29.2 - - + +
125A LYS* 5.4 0.2 + - - -
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Residues in contact with GLU 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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51A ARG* 5.6 4.7 - - - +
55A CYS* 3.3 34.0 - - + +
58A ILE* 4.0 22.3 - - + +
78A TYR* 2.6 33.0 + - + -
84A PRO* 2.9 31.7 + - - +
85A GLN* 3.3 9.6 + - - +
87A GLU* 1.3 77.4 - - - +
89A ILE* 1.3 57.9 + - - +
92A GLY* 2.9 23.6 + - - -
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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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58A ILE* 4.7 3.6 - - + -
59A VAL* 3.7 12.2 - - + +
62A MET* 3.8 10.5 - - + -
75A LEU* 3.7 32.1 - - + -
78A TYR* 3.5 28.9 - - + -
79A VAL* 3.7 25.1 - - + -
85A GLN 3.1 16.6 + - - +
86A HIS 3.8 4.3 - - - +
88A GLU* 1.3 74.2 - - - +
90A CYS* 1.3 61.3 + - - +
92A GLY* 3.1 1.7 + - - -
93A LEU* 2.9 49.4 + - + +
114A VAL* 4.2 7.6 - - + -
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Residues in contact with CYS 90 (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 VAL* 6.1 0.2 - - - -
86A HIS* 3.1 47.1 + - - +
89A ILE* 1.3 78.3 - - - +
91A LEU* 1.3 58.2 + - - +
93A LEU* 3.8 2.0 - - - +
94A PHE* 2.9 30.1 + - - +
111A LEU* 3.8 31.1 - - + +
114A VAL* 4.7 6.1 - - - -
115A SER* 4.2 15.0 - - - -
121A ILE* 3.4 23.3 - - + -
122A VAL* 4.0 4.2 - - + +
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Residues in contact with LEU 91 (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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51A ARG* 3.6 41.1 - - - +
52A LEU* 3.6 22.7 - - + -
55A CYS* 3.9 18.6 - - + -
87A GLU* 2.9 22.5 + - + +
90A CYS* 1.3 77.2 - - - +
92A GLY* 1.3 55.9 + - - +
94A PHE* 3.5 7.7 - - + +
95A THR* 2.9 33.1 + - - -
121A ILE* 3.5 35.2 - - + +
122A VAL* 4.9 2.9 - - - -
125A LYS* 4.0 22.0 - - + +
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Residues in contact with GLY 92 (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 CYS* 3.6 31.6 - - - +
56A MET* 3.7 3.8 - - - -
59A VAL* 3.6 7.6 - - - -
88A GLU 2.9 11.4 + - - -
89A ILE 3.1 3.3 + - - -
91A LEU* 1.3 74.6 - - - +
93A LEU* 1.3 59.6 + - - +
95A THR* 3.4 3.0 + - - -
96A LEU* 3.0 32.5 + - - +
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Residues in contact with LEU 93 (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* 4.0 20.0 - - + -
75A LEU* 4.6 9.9 - - + -
89A ILE* 2.9 28.3 + - + +
90A CYS 3.8 3.1 - - - +
92A GLY* 1.3 72.1 - - - +
94A PHE* 1.3 66.1 - - - +
96A LEU* 3.1 5.5 + - - +
97A ILE* 2.9 30.4 + - - +
106A LYS* 6.3 0.4 - - - +
107A CYS* 3.9 34.2 - - + +
110A ASP* 4.1 11.4 - - + +
111A LEU* 3.7 35.9 - - + +
114A VAL* 3.8 18.4 - - + -
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Residues in contact with PHE 94 (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 LEU* 4.1 7.2 - - + -
90A CYS 2.9 19.3 + - - +
91A LEU* 3.5 12.3 - - + +
93A LEU* 1.3 74.7 - - - +
95A THR* 1.3 67.2 + - - +
97A ILE* 3.2 15.7 + - - +
98A LEU* 3.1 44.7 + - + +
111A LEU* 4.6 1.5 - - - +
122A VAL* 3.8 20.6 - - + -
125A LYS* 4.0 23.6 - - + -
126A ILE* 3.6 31.9 - - + -
129A ILE* 3.7 25.6 - - + -
145A LEU* 4.3 3.1 - - + -
148A LEU* 3.6 24.7 - - + -
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Residues in contact with THR 95 (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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36A LEU* 4.3 13.9 - - + -
52A LEU* 3.2 49.1 + - + +
53A GLU* 4.8 1.6 - - + +
56A MET* 3.6 25.4 - - + -
91A LEU 2.9 18.6 + - - -
92A GLY 3.8 4.0 - - - -
93A LEU 3.3 0.2 - - - -
94A PHE* 1.3 78.4 - - - +
96A LEU* 1.3 53.0 + - - +
98A LEU* 3.4 6.4 + - - +
99A THR* 2.5 42.9 + - + +
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Residues in contact with LEU 96 (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 MET* 3.6 24.9 - - + -
59A VAL* 3.6 31.6 - - + -
60A THR* 4.3 15.5 - - + -
63A THR* 5.8 0.2 - - - +
92A GLY 3.0 16.0 + - - +
93A LEU* 3.1 9.6 + - - +
95A THR* 1.3 74.3 - - - +
97A ILE* 1.3 58.4 + - - +
99A THR* 3.8 1.8 - - - -
100A GLU* 2.7 52.5 + - + +
103A GLN* 4.0 18.8 - - - +
104A ALA* 5.4 0.2 - - - -
107A CYS* 3.6 27.8 - - - -
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Residues in contact with ILE 97 (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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93A LEU 2.9 24.9 + - - +
94A PHE* 3.2 12.3 + - - +
96A LEU* 1.3 76.9 - - - +
98A LEU* 1.3 60.3 + - + +
100A GLU 4.1 1.9 + - - -
104A ALA* 3.8 19.3 - - + +
107A CYS* 3.7 15.0 - - + +
108A TYR* 4.0 28.7 - - + +
111A LEU* 4.1 14.8 - - + -
144A GLN* 3.1 31.6 + - - +
147A TRP* 3.9 29.8 - - + -
148A LEU* 4.3 22.9 - - + -
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Residues in contact with LEU 98 (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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36A LEU* 3.8 26.9 - - + -
94A PHE* 3.1 48.6 + - + +
95A THR* 3.8 7.6 - - - +
96A LEU 3.2 0.2 - - - -
97A ILE* 1.3 78.3 - - + +
99A THR* 1.3 60.7 + - - +
129A ILE* 4.1 9.2 - - + -
137A LEU* 5.3 3.4 - - + -
140A THR* 4.0 1.7 + - - +
141A CYS* 3.5 29.6 + - + +
144A GLN* 3.4 19.9 - - + +
145A LEU* 3.6 47.6 - - + +
148A LEU* 4.7 4.7 - - + -
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Residues in contact with THR 99 (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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35A ARG 3.8 35.4 - - - +
36A LEU* 3.9 21.5 - - + -
56A MET* 3.3 22.8 - - + -
95A THR* 2.5 27.7 + - + +
96A LEU* 3.8 1.4 - - - -
98A LEU* 1.3 80.3 - - - +
100A GLU* 1.3 73.6 + - - +
101A PRO* 3.8 7.9 - - - +
140A THR* 5.2 3.9 + - - +
141A CYS* 4.2 2.7 - - - -
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Residues in contact with GLU 100 (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 MET* 5.1 3.4 - - - +
96A LEU* 2.7 38.7 + - + +
97A ILE 4.3 1.6 - - - -
98A LEU 3.6 0.6 - - - -
99A THR* 1.3 93.3 + - - +
101A PRO* 1.3 69.5 - - - +
102A ALA* 3.3 4.7 + - + +
103A GLN* 3.1 31.1 + - + +
104A ALA* 3.1 17.8 + - - +
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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