Contacts of the helix formed by residues 91 - 111 (chain C) in PDB entry 4WYV
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 TRP 91 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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24C ILE* 4.1 18.8 - - + -
28C VAL* 4.0 10.1 - - + -
31C LEU* 6.0 0.9 - - + -
72C LEU* 6.5 0.2 - - + -
75C LEU* 4.1 13.9 - - + -
79C PHE* 3.7 31.4 - + - -
84C TYR* 3.4 52.0 + + - -
87C PHE* 3.1 33.9 - - + -
88C HIS* 3.0 19.8 + + - -
90C HIS* 1.3 77.6 - - - +
92C ARG* 1.3 60.9 + - - +
93C PHE 3.3 2.2 - - - -
94C VAL* 3.9 18.8 - - + +
95C LEU* 2.9 47.9 + - + +
133C PHE* 3.2 35.5 - + - -
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Residues in contact with ARG 92 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88C HIS* 3.1 41.1 + - + +
89C GLU* 3.3 39.4 + - - +
90C HIS 3.6 1.4 - - - -
91C TRP* 1.3 76.6 - - - +
93C PHE* 1.3 66.6 + - - +
95C LEU* 4.1 2.3 - - - +
96C GLN* 3.2 38.4 + - - +
139C ASP* 3.8 10.8 - - - +
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Residues in contact with PHE 93 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C GLU* 3.8 29.4 - - + +
89C GLU 4.9 1.6 + - - +
90C HIS 5.2 2.8 + - - +
91C TRP 3.3 0.4 - - - -
92C ARG* 1.3 84.8 - - - +
94C VAL* 1.3 69.6 + - - +
96C GLN* 3.1 8.1 + - - +
97C ARG* 3.0 61.4 + - + +
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Residues in contact with VAL 94 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C VAL* 4.0 16.2 - - + -
31C LEU* 4.0 22.2 - - + +
32C GLU* 3.7 41.5 + - + +
35C ALA* 4.4 5.2 - - + -
90C HIS 5.6 0.2 + - - -
91C TRP* 3.5 26.4 - - + +
93C PHE* 1.3 84.7 - - + +
95C LEU* 1.3 61.1 + - - +
97C ARG* 3.2 5.8 + - + +
98C LEU* 2.8 41.1 + - + +
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Residues in contact with LEU 95 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
72C LEU* 5.4 7.4 - - + -
84C TYR* 3.5 24.9 - - - +
91C TRP* 2.9 35.2 + - + +
92C ARG* 4.1 3.4 - - - +
94C VAL* 1.3 78.5 - - + +
96C GLN* 1.3 57.6 + - - +
98C LEU* 3.4 10.0 + - + +
99C VAL* 3.0 30.6 + - - +
123C LEU* 4.1 24.0 - - + -
125C ILE* 5.6 2.7 - - + -
133C PHE* 4.1 15.9 - - + -
134C HIS 4.4 1.6 - - - +
135C LEU* 4.1 23.1 - - + -
139C ASP* 4.1 15.9 - - + +
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Residues in contact with GLN 96 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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92C ARG* 3.2 25.5 + - - +
93C PHE* 3.1 11.6 + - - +
95C LEU* 1.3 75.1 - - - +
97C ARG* 1.3 66.2 + - - +
99C VAL* 3.3 4.0 + - - +
100C PHE* 3.0 22.0 + - - +
138C GLU 4.3 0.8 + - - -
139C ASP* 3.1 48.8 + - + +
142C SER* 3.2 24.1 + - - -
143C GLY* 3.6 4.3 - - - -
146C ILE* 4.3 12.6 - - + +
194C ARG* 3.4 23.2 + - - +
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Residues in contact with ARG 97 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32C GLU* 4.8 1.8 + - - +
35C ALA* 3.9 35.2 + - + +
36C ARG* 4.2 20.2 - - - +
39C LEU* 4.3 21.5 - - - +
93C PHE* 3.0 51.4 + - + +
94C VAL* 3.2 10.5 + - - +
96C GLN* 1.3 76.0 - - - +
98C LEU* 1.3 51.3 + - - +
100C PHE* 3.2 27.4 + - - +
101C LEU* 2.7 43.6 + - + +
146C ILE* 4.7 8.9 - - + +
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Residues in contact with LEU 98 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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31C LEU* 4.4 12.6 - - + +
35C ALA* 3.9 26.9 - - + +
38C ILE* 4.8 1.3 - - + -
65C PHE* 4.4 9.2 - - + -
68C VAL* 3.8 40.6 - - + -
72C LEU* 4.8 7.2 - - + -
94C VAL* 2.8 38.7 + - + +
95C LEU* 3.7 12.8 - - + +
97C ARG* 1.3 70.0 - - - +
99C VAL* 1.3 56.8 + - - +
101C LEU* 3.3 8.5 + - + +
102C ALA* 2.7 37.2 + - - +
123C LEU* 3.9 18.2 - - + -
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Residues in contact with VAL 99 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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95C LEU 3.0 20.6 + - - +
96C GLN 3.6 7.0 - - - +
97C ARG 3.3 0.2 - - - -
98C LEU* 1.3 74.9 - - - +
100C PHE* 1.3 53.9 + - - +
102C ALA* 3.2 2.1 + - - +
103C ALA* 2.8 35.2 + - + +
114C VAL* 5.1 0.3 - - - +
119C VAL* 4.1 22.6 - - + +
123C LEU* 4.9 3.1 - - + +
135C LEU* 3.6 30.1 - - + -
139C ASP 4.3 7.6 - - - +
140C TYR* 3.6 41.7 - - + +
143C GLY* 3.7 9.0 - - - -
144C VAL* 4.5 2.2 - - + +
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Residues in contact with PHE 100 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39C LEU* 3.7 19.1 - - + -
96C GLN 3.0 13.4 + - - +
97C ARG* 3.2 24.2 - - - +
99C VAL* 1.3 76.1 - - - +
101C LEU* 1.3 81.8 + - + +
103C ALA* 3.3 3.8 + - - +
104C PHE* 2.8 40.8 + + + +
143C GLY* 3.6 18.3 - - - +
146C ILE* 3.5 23.3 - - + -
147C LEU* 3.5 24.9 - - + -
150C GLU* 3.5 42.6 - - + -
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Residues in contact with LEU 101 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35C ALA* 3.5 37.7 - - + +
38C ILE* 3.8 23.6 - - + -
39C LEU* 3.7 29.8 - - + +
42C LEU* 4.0 9.0 - - + +
65C PHE* 4.2 6.1 - - + -
97C ARG* 2.7 29.9 + - + +
98C LEU* 3.7 10.1 - - + +
100C PHE* 1.3 96.9 - - + +
102C ALA* 1.3 62.0 + - - +
104C PHE* 3.3 5.8 + - + +
105C VAL* 3.0 27.5 + - - +
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Residues in contact with ALA 102 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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65C PHE* 3.8 17.3 - - + -
98C LEU 2.7 20.9 + - - +
99C VAL 3.5 3.6 - - - +
101C LEU* 1.3 70.9 - - - +
103C ALA* 1.3 64.3 + - - +
105C VAL* 3.1 8.7 + - - +
106C VAL* 3.0 26.5 + - - +
114C VAL* 4.7 0.4 - - - -
119C VAL* 4.1 22.2 - - + -
122C ILE* 4.3 23.7 - - + +
123C LEU* 5.0 1.1 - - + -
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Residues in contact with ALA 103 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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99C VAL* 2.8 24.7 + - + +
100C PHE* 3.6 5.8 - - - +
102C ALA* 1.3 71.8 - - - +
104C PHE* 1.3 57.0 + - - +
106C VAL* 3.2 2.1 + - - +
107C TYR* 2.8 30.8 + - - +
112C THR 4.6 2.3 - - - +
113C LEU* 4.8 7.4 - - + -
114C VAL* 3.5 28.1 - - + +
143C GLY 5.4 0.9 - - - +
144C VAL* 5.4 3.8 - - + -
147C LEU* 4.0 22.2 - - + +
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Residues in contact with PHE 104 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39C LEU* 5.4 0.9 - - + -
42C LEU* 3.5 40.8 - - + -
43C GLN* 4.6 3.4 - - + -
45C VAL* 4.3 21.1 - - + -
46C HIS* 5.5 0.7 - - - -
100C PHE* 2.8 32.4 + + + +
101C LEU* 3.4 9.2 - - + +
103C ALA* 1.3 75.5 - - - +
105C VAL* 1.3 63.8 + - - +
107C TYR* 3.2 3.1 + - + -
108C LEU* 2.9 44.7 + - + +
147C LEU* 3.9 22.4 - - + +
150C GLU* 3.7 28.3 - - + -
151C LEU* 4.1 20.4 - - + -
154C LEU* 4.5 4.9 - - + -
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Residues in contact with VAL 105 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42C LEU* 3.8 22.2 - - + -
58C CYS* 4.0 10.7 - - - +
61C ALA* 3.9 21.3 - - + -
62C ARG* 3.5 24.5 - - + +
65C PHE* 4.4 11.7 - - + -
101C LEU 3.0 17.1 + - - +
102C ALA* 3.4 9.4 - - - +
104C PHE* 1.3 74.2 - - - +
106C VAL* 1.3 64.1 + - + +
108C LEU* 3.1 5.6 + - - +
109C GLU* 3.0 44.5 + - + +
122C ILE* 6.3 0.2 - - + -
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Residues in contact with VAL 106 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62C ARG* 4.5 11.2 - - - +
102C ALA 3.0 13.6 + - - +
103C ALA 3.7 5.8 - - - +
105C VAL* 1.3 77.2 - - - +
107C TYR* 1.3 57.0 + - - +
109C GLU* 4.3 6.3 - - - +
110C THR* 2.8 54.9 + - + +
112C THR* 3.8 17.7 - - + +
114C VAL* 3.9 33.0 - - + +
122C ILE* 4.3 14.4 - - + -
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Residues in contact with TYR 107 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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103C ALA 2.8 21.5 + - - +
104C PHE* 3.2 6.9 + + - +
106C VAL* 1.3 73.2 - - - +
108C LEU* 1.3 69.2 + - + +
111C GLU* 2.7 64.4 + - + +
112C THR 3.7 9.3 + - - +
147C LEU* 4.9 9.4 - - + -
151C LEU* 3.9 26.9 - - + -
154C LEU* 5.3 0.4 - - + -
166C ARG* 4.4 18.4 + - - +
169C HIS* 3.8 12.5 + - - +
170C ILE* 3.6 34.8 + - + +
173C PHE* 3.6 39.9 - + + +
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Residues in contact with LEU 108 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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42C LEU* 3.8 28.7 - - + +
45C VAL* 4.7 20.4 - - + -
54C ILE* 4.0 24.6 - - + +
57C ARG* 6.0 1.8 - - + -
58C CYS* 3.7 16.4 - - - -
104C PHE* 2.9 43.3 + - + +
105C VAL 3.7 6.7 - - - +
107C TYR* 1.3 81.2 - - + +
109C GLU* 1.3 61.3 + - - +
111C GLU* 4.9 2.4 + - - +
154C LEU* 4.3 17.0 - - + -
166C ARG* 4.5 20.4 + - - +
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Residues in contact with GLU 109 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54C ILE* 5.9 0.2 - - - -
55C PRO* 6.3 0.4 - - + -
58C CYS* 3.8 22.5 - - + +
59C LEU* 5.9 0.9 - - - +
62C ARG* 3.2 44.9 + - - -
105C VAL* 3.0 24.3 + - - +
106C VAL* 3.7 8.1 - - - +
108C LEU* 1.3 79.9 - - - +
110C THR* 1.3 71.4 + - + +
111C GLU* 5.8 0.4 - - - -
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Residues in contact with THR 110 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106C VAL* 2.8 22.8 + - + +
109C GLU* 1.3 93.7 - - + +
111C GLU* 1.3 70.3 + - - +
112C THR* 2.8 34.1 + - + +
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Residues in contact with GLU 111 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107C TYR* 2.7 56.3 + - + +
108C LEU 5.5 2.7 - - - +
109C GLU 3.7 0.2 - - - -
110C THR* 1.3 72.9 - - - +
112C THR* 1.3 58.1 + - - +
166C ARG* 4.5 13.8 + - - +
169C HIS* 3.5 44.0 + - - +
173C PHE* 4.5 5.5 - - - -
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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