Contacts of the helix formed by residues 118 - 139 (chain C) in PDB entry 3G33
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 PRO 118 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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115C PRO 5.4 0.9 - - - +
116C GLY 3.9 5.8 - - - +
117C LEU* 1.3 93.3 - - + +
119C ALA* 1.3 65.9 + - - +
120C GLU* 3.2 7.0 - - + +
121C THR* 3.2 26.0 + - + +
122C ILE* 3.2 18.4 + - - +
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Residues in contact with ALA 119 (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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118C PRO* 1.3 73.2 - - - +
120C GLU* 1.3 62.0 + - + +
122C ILE* 4.3 3.7 - - - +
123C LYS* 3.0 38.8 + - - +
213C PHE* 5.5 7.2 - - + -
270C GLU* 4.2 26.5 - - + +
299C TYR* 4.5 7.5 + - - +
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Residues in contact with GLU 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C PRO* 3.2 4.6 - - + +
119C ALA* 1.3 81.0 - - + +
121C THR* 1.3 59.2 + - - +
123C LYS* 3.3 35.7 + - - +
124C ASP* 2.9 29.1 + - - +
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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
----------------------------------------------------------
108C TYR* 3.9 21.1 - - - +
117C LEU* 4.1 19.7 - - + -
118C PRO* 3.2 31.1 + - + +
120C GLU* 1.3 75.4 - - - +
122C ILE* 1.3 61.4 + - - +
124C ASP* 3.4 6.1 + - - +
125C LEU* 3.0 31.1 + - + +
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Residues in contact with ILE 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117C LEU* 3.4 38.6 - - + +
118C PRO 3.2 7.8 + - - +
119C ALA 4.4 1.3 - - - +
121C THR* 1.3 73.4 - - - +
123C LYS* 1.3 66.9 + - - +
125C LEU* 3.3 7.8 + - - +
126C MET* 2.9 22.9 + - - +
209C PHE* 4.1 9.2 - - + -
212C MET* 3.4 50.9 - - + +
213C PHE* 3.6 46.4 - - + -
299C TYR* 4.8 1.3 - - - +
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Residues in contact with LYS 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
119C ALA* 3.0 32.3 + - - +
120C GLU* 3.3 37.3 + - - +
122C ILE* 1.3 80.7 - - - +
124C ASP* 1.3 56.4 + - - +
126C MET* 3.3 0.8 + - - -
127C ARG* 3.0 28.5 + - + +
270C GLU* 3.8 16.9 + - - -
299C TYR* 3.2 40.3 + - + +
300C LEU* 3.5 35.9 - - + +
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Residues in contact with ASP 124 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
120C GLU 2.9 17.6 + - - +
121C THR* 3.7 6.3 - - - +
123C LYS* 1.3 76.5 - - - +
125C LEU* 1.3 63.2 + - - +
127C ARG* 3.1 34.1 + - - +
128C GLN* 3.1 39.6 + - - +
157C GLY 4.8 4.0 - - - +
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Residues in contact with LEU 125 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
108C TYR* 4.6 19.1 - - + +
117C LEU* 4.9 4.0 - - + -
121C THR* 3.0 31.6 + - + +
122C ILE* 3.3 7.4 + - - +
124C ASP* 1.3 78.4 - - + +
126C MET* 1.3 56.1 - - - +
128C GLN* 3.6 1.1 + - - -
129C PHE* 3.0 29.0 + - - +
153C VAL* 6.2 3.6 - - + -
157C GLY 5.6 4.7 - - - +
159C VAL* 4.0 24.5 - - + +
212C MET* 4.2 19.2 - - + +
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Residues in contact with MET 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 ILE 2.9 19.9 + - - +
123C LYS* 3.7 4.3 - - - +
125C LEU* 1.3 74.8 - - - +
127C ARG* 1.3 64.6 + - - +
129C PHE* 3.5 12.1 - - + +
130C LEU* 3.1 41.6 + - + +
205C VAL* 3.7 28.5 - - + +
208C ILE* 5.4 0.9 - - - -
209C PHE* 3.3 53.8 - - + -
212C MET* 3.8 21.1 - - - +
276C LEU* 5.6 3.6 - - + -
280C MET* 4.1 5.8 - - + -
300C LEU* 4.4 14.1 - - + -
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Residues in contact with ARG 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 LYS 3.0 14.1 + - - +
124C ASP* 3.1 28.7 + - - +
126C MET* 1.3 78.6 - - - +
128C GLN* 1.3 65.5 + - - +
130C LEU 3.3 1.2 + - - -
131C ARG* 2.9 73.2 + - - +
295C LEU* 3.5 23.8 - - + +
300C LEU* 4.6 19.3 - - + +
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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 ASN* 3.2 42.1 - - - +
124C ASP* 3.1 43.9 + - - +
125C LEU* 4.1 1.1 - - - +
127C ARG* 1.3 84.3 - - - +
129C PHE* 1.3 64.3 + - - +
131C ARG* 3.9 5.6 - - - +
132C GLY* 3.2 10.4 + - - -
157C GLY 3.7 9.9 + - - +
158C THR* 3.3 13.2 - - - +
159C VAL* 2.9 39.0 + - + +
161C LEU* 5.9 0.3 - - - +
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Residues in contact with PHE 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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105C LEU* 5.4 3.6 - - + -
125C LEU 3.0 20.2 + - - +
126C MET* 3.5 17.3 - - - +
127C ARG 3.2 0.2 - - - -
128C GLN* 1.3 78.0 - - - +
130C LEU* 1.3 62.1 + - + +
132C GLY 3.9 0.2 + - - -
133C LEU* 3.4 22.8 + - + +
146C LEU* 4.2 18.4 - - + -
151C ILE* 3.0 45.8 - - + -
159C VAL* 4.3 9.3 - - + +
161C LEU* 3.6 30.3 - - + +
205C VAL* 3.4 48.2 - - + -
208C ILE* 4.3 11.0 - - + -
212C MET* 5.8 3.4 - - + -
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Residues in contact with LEU 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 MET* 3.1 33.7 + - + +
129C PHE* 1.3 77.4 - - + +
131C ARG* 1.3 61.3 + - - +
133C LEU* 3.8 4.8 - - + +
134C ASP* 3.0 30.3 + - - +
202C MET* 4.0 24.2 - - + -
205C VAL* 3.8 27.4 - - + -
276C LEU* 5.8 1.6 - - + -
280C MET* 5.6 1.6 - - - -
291C ALA* 4.0 16.4 - - + +
294C ALA* 3.9 21.5 - - + -
295C LEU* 4.0 13.8 - - + +
300C LEU* 3.8 25.1 - - + -
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Residues in contact with ARG 131 (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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73C HIS* 3.5 14.1 + - + +
74C PRO* 5.5 9.7 - - - +
75C ASN* 3.2 17.8 + - - +
127C ARG* 2.9 65.0 + - - +
128C GLN* 3.4 7.4 + - - +
130C LEU* 1.3 78.7 - - - +
132C GLY* 1.3 61.0 + - - +
134C ASP* 3.6 3.1 + - - +
135C PHE* 3.2 21.7 + - - +
295C LEU* 3.8 25.9 - - + +
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Residues in contact with GLY 132 (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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73C HIS* 3.6 18.0 - - - -
75C ASN* 3.6 18.8 - - - -
76C VAL* 4.3 2.0 - - - -
128C GLN 3.2 8.8 + - - -
129C PHE 4.4 0.9 - - - -
131C ARG* 1.3 76.1 - - - +
133C LEU* 1.3 59.8 + - - +
135C PHE* 3.2 3.9 + - - +
136C LEU* 2.9 32.7 + - - +
161C LEU* 4.1 7.2 - - - -
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Residues in contact with LEU 133 (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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129C PHE* 3.4 20.3 + - + +
130C LEU* 3.9 7.6 - - + +
131C ARG 3.4 0.4 - - - -
132C GLY* 1.3 73.9 - - - +
134C ASP* 1.3 64.9 + - - +
136C LEU* 3.0 13.0 + - + +
137C HIS* 2.9 54.2 + - + +
143C HIS* 4.9 1.6 - - + +
146C LEU* 3.9 22.7 - - + -
161C LEU* 3.9 16.1 - - + +
201C ASP* 4.0 11.9 - - + +
202C MET* 3.8 16.4 - - - -
205C VAL* 3.5 31.4 - - + -
291C ALA* 4.2 4.0 - - + -
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Residues in contact with ASP 134 (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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130C LEU 3.0 19.8 + - - +
131C ARG* 3.9 5.6 - - - +
133C LEU* 1.3 77.5 - - - +
135C PHE* 1.3 56.5 + - - +
137C HIS* 3.3 7.7 + - - +
138C ALA* 2.9 30.1 + - - +
291C ALA* 4.0 13.6 - - + +
292C PHE* 3.5 47.5 + - - +
295C LEU* 5.3 5.8 - - + +
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Residues in contact with PHE 135 (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* 3.9 24.5 - - + -
71C PHE* 3.7 40.4 - + + -
73C HIS* 3.4 42.6 - + + +
76C VAL* 4.2 8.3 - - + -
131C ARG 3.2 14.8 + - - +
132C GLY 3.3 8.1 - - - +
133C LEU 3.1 0.4 - - - -
134C ASP* 1.3 77.2 - - - +
136C LEU* 1.3 77.2 + - + +
138C ALA* 3.2 14.5 + - + +
139C ASN* 3.1 47.0 + - - -
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Residues in contact with LEU 136 (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* 4.2 12.1 - - + -
76C VAL* 3.3 30.1 - - + -
132C GLY 2.9 8.4 + - - +
133C LEU* 3.0 14.5 + - + +
135C PHE* 1.3 88.7 - - + +
137C HIS* 1.3 61.7 + - + +
139C ASN* 3.1 10.3 + - - -
140C CYS 3.3 0.2 + - - -
141C ILE* 2.9 49.3 + - + +
143C HIS* 4.8 11.0 - - + +
161C LEU* 4.1 25.1 - - + -
164C PHE* 4.1 30.3 - - + -
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Residues in contact with HIS 137 (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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133C LEU* 2.9 53.9 + - + +
134C ASP* 3.8 10.1 + - - +
136C LEU* 1.3 73.2 - - + +
138C ALA* 1.3 64.5 + - - +
140C CYS* 3.2 14.0 + - - +
141C ILE 4.0 12.8 + - - +
142C VAL* 4.3 1.1 - - + -
198C THR* 2.6 45.6 + - + +
201C ASP* 2.8 32.7 + - + -
202C MET* 5.5 3.6 - - + -
291C ALA* 4.6 7.0 + - + +
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Residues in contact with ALA 138 (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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134C ASP* 2.9 19.1 + - - +
135C PHE* 3.2 11.2 + - + +
137C HIS* 1.3 77.4 - - - +
139C ASN* 1.3 62.5 + - - +
140C CYS* 3.3 9.0 + - - -
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Residues in contact with ASN 139 (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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64C LEU* 4.8 10.3 - - + +
68C LEU* 4.1 21.5 - - + +
71C PHE* 4.0 20.4 - - - -
135C PHE* 3.1 55.3 + - - +
136C LEU* 3.1 6.8 + - - +
138C ALA* 1.3 80.1 - - - +
140C CYS* 1.3 72.1 + - - +
141C ILE* 3.3 11.5 + - + +
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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
------------------------------------------------------------
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