Contacts of the helix formed by residues 111 - 130 (chain C) in PDB entry 5UWS
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 GLN 111 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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61C PRO* 3.5 35.4 - - + +
107C VAL* 3.0 32.1 + - + +
110C THR* 1.3 106.9 - - - +
112C LYS* 1.3 63.3 + - - +
113C ASN* 3.2 4.7 - - - +
114C LEU* 3.2 22.2 + - + +
115C ILE* 2.9 28.4 + - + +
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Residues in contact with LYS 112 (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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113A GLU* 5.1 7.0 - - - +
108C PHE* 3.0 58.1 + - + +
109C LYS* 3.9 23.1 - - - +
110C THR 3.6 2.6 + - - -
111C GLN* 1.3 75.1 - - - +
113C ASN* 1.3 59.4 + - - +
115C ILE* 3.3 7.4 + - + +
116C ASN* 2.9 45.8 + - - +
153C GLU* 3.8 11.0 + - - -
208C SER* 6.2 0.2 - - - -
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Residues in contact with ASN 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A ILE* 4.4 21.1 - - + +
82A GLN* 4.6 11.1 - - - +
110A ARG 5.0 2.2 - - - +
111A VAL* 2.9 34.0 + - + +
113A GLU* 5.7 1.7 - - - +
65C PHE* 4.4 15.0 - - + -
111C GLN* 3.2 1.7 - - - +
112C LYS* 1.3 79.9 - - - +
114C LEU* 1.3 63.2 + - - +
116C ASN* 3.7 7.5 + - - +
117C LYS* 2.9 25.4 + - - +
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Residues in contact with LEU 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C PRO* 4.0 19.1 - - + +
64C LYS* 3.5 52.9 - - + +
65C PHE* 3.7 18.1 - - - +
68C LEU* 4.0 13.7 - - + -
97C MET* 4.1 3.8 - - + -
101C MET* 4.0 22.0 - - - -
107C VAL* 5.9 0.9 - - + -
111C GLN* 3.2 25.7 + - + +
113C ASN* 1.3 80.1 - - - +
115C ILE* 1.3 57.2 + - - +
117C LYS* 3.5 3.8 + - - +
118C SER* 2.8 32.1 + - - -
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Residues in contact with ILE 115 (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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98C ILE* 5.3 1.3 - - + -
101C MET* 3.8 36.8 - - + -
102C CYS* 5.0 6.7 - - - -
107C VAL 3.7 6.7 - - - +
108C PHE* 3.6 48.9 - - + +
111C GLN* 2.9 18.2 + - + +
112C LYS* 3.8 7.9 - - + +
114C LEU* 1.3 76.0 - - - +
116C ASN* 1.3 62.8 + - - +
118C SER* 3.3 2.4 + - - -
119C ASP* 2.9 33.5 + - - +
154C ASN* 3.1 32.5 - - - +
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Residues in contact with ASN 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110A ARG* 4.3 17.3 + - + +
113A GLU* 3.6 31.8 + - - +
112C LYS* 2.9 32.2 + - - +
113C ASN* 3.7 7.0 + - - +
115C ILE* 1.3 76.7 - - - +
117C LYS* 1.3 58.5 + - - +
119C ASP* 3.3 9.5 + - - +
120C LEU* 2.9 28.6 + - - +
154C ASN* 4.9 0.3 - - - +
157C ILE* 3.6 34.9 - - + +
160C LYS* 6.4 0.2 - - - -
161C LEU* 4.2 4.2 - - + +
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Residues in contact with LYS 117 (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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77A ASP* 3.0 26.0 + - - +
65C PHE* 3.6 35.9 - - + -
68C LEU* 3.6 21.3 - - + -
69C SER* 3.3 42.0 + - - +
72C ASP* 5.0 11.6 + - - +
113C ASN 2.9 16.3 + - - +
114C LEU* 3.7 5.2 - - - +
116C ASN* 1.3 77.2 - - - +
118C SER* 1.3 56.2 + - - +
120C LEU* 3.3 19.4 + - + +
121C THR* 2.9 32.9 + - - +
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Residues in contact with SER 118 (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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68C LEU* 3.1 23.1 - - - +
94C VAL* 4.3 3.1 - - - +
97C MET* 3.6 9.9 - - - +
98C ILE* 3.5 30.1 - - - +
101C MET* 3.5 15.4 - - - +
114C LEU 2.8 21.9 + - - -
115C ILE 3.3 5.1 + - - -
117C LYS* 1.3 73.6 - - - +
119C ASP* 1.3 59.3 + - - +
121C THR* 3.3 5.8 + - - -
122C LEU 2.9 24.4 + - - -
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Residues in contact with ASP 119 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98C ILE* 3.8 13.8 - - - +
115C ILE* 2.9 21.1 + - - +
116C ASN* 3.5 8.9 - - - +
118C SER* 1.3 76.4 - - - +
120C LEU* 1.3 62.1 + - - +
122C LEU* 3.1 7.2 + - - +
123C VAL* 3.0 24.9 + - - +
154C ASN* 2.6 45.6 + - - +
157C ILE* 3.5 14.9 - - + +
158C VAL* 3.6 18.5 - - + +
161C LEU* 3.8 15.9 - - + -
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Residues in contact with LEU 120 (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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77A ASP* 5.5 2.9 - - - +
110A ARG* 3.6 45.8 - - + +
72C ASP* 5.0 8.7 - - - +
116C ASN 2.9 16.2 + - - +
117C LYS* 3.7 20.9 - - + +
118C SER 3.3 0.2 - - - -
119C ASP* 1.3 75.8 - - - +
121C THR* 1.3 63.9 + - - +
123C VAL* 3.0 6.1 + - + +
124C GLN* 3.0 44.4 + - - +
161C LEU* 3.8 21.0 - - + +
165C GLU* 4.5 7.0 - - + -
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Residues in contact with THR 121 (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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68C LEU* 3.7 39.1 + - + +
71C LEU* 4.3 11.9 - - + -
72C ASP* 4.9 7.5 + - - +
75C ILE* 3.7 22.4 - - + -
94C VAL* 4.5 9.2 - - + -
117C LYS* 2.9 18.8 + - - +
118C SER* 3.5 10.5 - - - -
119C ASP 3.3 0.2 - - - -
120C LEU* 1.3 77.0 - - - +
122C LEU* 1.3 62.3 + - - +
124C GLN* 3.2 19.2 + - - +
125C ILE* 3.3 13.9 + - + +
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Residues in contact with LEU 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94C VAL* 4.1 12.5 - - + +
95C VAL* 4.4 13.7 - - + -
98C ILE* 4.0 22.2 - - + -
118C SER 2.9 14.4 + - - +
119C ASP 3.1 7.6 + - - +
121C THR* 1.3 76.8 - - - +
123C VAL* 1.3 61.8 + - - +
125C ILE* 3.1 9.2 + - + +
126C LEU* 3.0 29.4 + - + +
134C TRP* 3.7 31.0 - - + -
137C PHE* 4.3 11.0 - - + -
158C VAL* 4.0 29.4 - - + -
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Residues in contact with VAL 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C ASP 3.0 18.5 + - - +
120C LEU* 3.0 10.3 + - + +
122C LEU* 1.3 76.1 - - - +
124C GLN* 1.3 64.1 + - - +
126C LEU* 3.2 10.2 + - + +
127C LYS* 3.0 23.7 + - + +
158C VAL* 3.7 33.9 - - + +
161C LEU* 3.9 13.7 - - + +
162C LEU* 4.0 24.7 - - + +
165C GLU* 3.8 31.0 - - + -
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Residues in contact with GLN 124 (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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72C ASP* 3.4 26.6 + - - +
75C ILE* 3.9 20.2 - - + -
76C THR* 3.9 14.2 + - - +
120C LEU* 3.0 34.9 + - - +
121C THR* 3.2 8.9 + - - +
123C VAL* 1.3 77.2 - - - +
125C ILE* 1.3 63.2 + - - +
127C LYS* 3.0 39.2 + - - +
128C GLN* 3.3 16.6 + - - +
165C GLU* 3.1 25.4 + - - +
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Residues in contact with ILE 125 (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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75C ILE* 3.6 30.1 - - + -
79C TRP* 4.4 11.9 - - + -
90C ILE* 4.3 4.0 - - + -
91C ARG* 4.0 32.1 - - + +
94C VAL* 4.3 24.2 - - + -
121C THR 3.6 12.3 - - - +
122C LEU* 3.1 10.7 + - + +
124C GLN* 1.3 75.5 - - - +
126C LEU* 1.3 57.7 + - - +
128C GLN* 3.0 6.1 + - - +
129C GLU* 2.8 40.5 + - + +
134C TRP* 3.9 22.4 - - + -
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Residues in contact with LEU 126 (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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122C LEU* 3.0 26.6 + - + +
123C VAL* 3.2 20.4 + - + +
125C ILE* 1.3 76.8 - - - +
127C LYS* 1.3 60.9 + - - +
130C TRP* 2.7 50.8 + - + +
134C TRP* 3.3 37.9 - - + -
137C PHE* 3.6 37.0 - - + -
158C VAL* 4.7 2.2 - - + -
162C LEU* 4.3 25.8 - - + -
182C LEU* 4.5 2.0 - - - +
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Residues in contact with LYS 127 (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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123C VAL* 3.0 23.9 + - + +
124C GLN* 3.0 30.3 + - - +
126C LEU* 1.3 75.3 - - - +
128C GLN* 1.3 55.1 + - + +
130C TRP 5.1 0.9 - - - +
132C GLN* 5.2 0.5 + - - -
162C LEU* 5.1 7.4 - - + -
165C GLU* 2.9 46.9 + - + +
166C VAL* 5.2 1.6 - - + -
173C GLN* 4.2 12.7 + - - +
174C MET* 4.1 21.8 - - - +
178C LYS* 2.4 39.0 + - - +
182C LEU* 4.2 28.8 - - + +
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Residues in contact with GLN 128 (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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75C ILE* 3.1 29.1 + - + +
76C THR* 4.0 12.9 + - - +
79C TRP* 3.5 36.7 - - + +
80C LYS* 2.9 37.5 + - - +
124C GLN 3.3 12.3 + - - +
125C ILE 3.0 8.8 + - - +
127C LYS* 1.3 82.7 - - + +
129C GLU* 1.3 62.9 + - - +
132C GLN* 3.1 15.6 + - - -
133C ASN* 5.1 1.0 + - - -
178C LYS* 4.1 11.0 + - - +
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Residues in contact with GLU 129 (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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79C TRP* 2.7 44.6 + - + +
87C ARG* 4.0 11.9 + - - +
91C ARG* 3.5 27.8 + - - +
125C ILE* 2.8 26.8 + - + +
128C GLN* 1.3 77.7 - - - +
130C TRP* 1.3 60.8 + - - +
132C GLN* 3.4 7.4 + - - +
133C ASN* 2.9 54.3 + - - +
134C TRP* 4.5 5.8 - - + -
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Residues in contact with TRP 130 (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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126C LEU* 2.7 40.5 + - + +
127C LYS 5.1 0.9 - - - +
128C GLN 3.8 0.2 - - - -
129C GLU* 1.3 71.6 - - - +
131C PRO* 1.3 77.3 - - + +
132C GLN* 3.3 12.1 + - - +
134C TRP* 3.3 31.4 + - + -
135C PRO 5.2 0.6 + - - -
137C PHE* 3.7 24.0 - + + +
138C ILE* 4.0 19.3 - - + +
162C LEU* 4.4 19.1 - - + -
166C VAL* 5.5 0.2 - - + -
181C HIS* 4.0 1.6 + - - -
182C LEU* 3.5 32.4 - - + +
185C SER* 3.7 27.6 - - - -
186C MET* 3.6 35.0 - - + -
189C GLU* 3.8 22.2 + - + -
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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