Contacts of the helix formed by residues 111 - 128 (chain C) in PDB entry 2G33
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 111 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107C ALA 2.7 20.7 + - - -
109C THR 3.9 0.2 - - - -
110C PHE* 1.3 72.4 - - - +
112C ARG* 1.3 68.6 + - - -
113C GLU 3.2 3.1 - - - -
114C THR* 2.9 16.4 + - - -
115C VAL* 2.9 15.6 + - - +
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Residues in contact with ARG 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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8C GLU 5.3 0.4 + - - -
9C PHE* 4.0 40.8 + - - +
10C GLY* 4.7 4.9 - - - +
51C HIS* 3.4 32.0 + - + +
103C PHE* 5.8 2.2 - - - -
107C ALA* 4.0 12.7 - - - +
111C GLY* 1.3 70.0 - - - +
113C GLU* 1.3 87.3 + - + +
115C VAL* 3.0 17.9 - - - +
116C LEU* 3.1 23.3 + - - +
47D HIS* 4.7 17.6 - - - -
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Residues in contact with GLU 113 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
111C GLY 3.2 0.8 - - - -
112C ARG* 1.3 101.7 + - + +
114C THR* 1.3 56.3 + - - +
115C VAL 2.7 15.6 + - - -
116C LEU* 3.0 26.2 + - - +
117C GLU* 3.2 23.6 + - - +
146C THR* 3.7 34.6 - - + +
147C THR* 5.6 1.7 + - - -
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Residues in contact with THR 114 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110C PHE* 2.4 43.7 + - + +
111C GLY* 2.9 7.0 + - - -
113C GLU* 1.3 73.9 - - - +
115C VAL* 1.3 61.8 + - - +
117C GLU* 4.1 9.6 - - - +
118C TYR* 3.6 13.0 + - - +
140C LEU* 5.3 8.3 - - + +
141C SER 4.8 12.8 - - - +
142C THR* 5.0 5.0 + - - +
145C GLU* 2.8 40.6 + - + +
146C THR* 4.2 1.7 + - - -
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Residues in contact with VAL 115 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
102C TRP* 5.2 10.3 - - + -
103C PHE* 5.0 17.7 - - + +
106C SER* 4.5 8.1 - - - -
107C ALA* 3.6 34.1 - - + +
110C PHE* 4.5 7.2 - - + -
111C GLY 3.1 16.6 - - - +
112C ARG* 3.0 8.3 - - - +
113C GLU 2.7 4.6 + - - -
114C THR* 1.3 69.9 - - - +
116C LEU* 1.3 65.3 + - + +
117C GLU 3.1 1.6 - - - -
118C TYR* 2.4 42.3 + - + +
119C LEU* 2.7 16.4 - - + +
140C LEU* 5.9 2.0 - - + -
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Residues in contact with LEU 116 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C PHE 4.6 7.2 - - - +
10C GLY* 3.6 25.4 - - - +
11C ALA* 4.5 12.3 - - + -
15C LEU* 5.8 2.5 - - + -
103C PHE* 5.0 9.6 - - + -
112C ARG* 3.3 27.1 - - - +
113C GLU* 3.0 21.0 + - - +
115C VAL* 1.3 84.5 - - + +
117C GLU* 1.3 59.2 + - + +
118C TYR 2.9 2.1 + - - -
119C LEU* 3.0 22.4 - - + +
120C VAL* 2.7 31.3 + - + +
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Residues in contact with GLU 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
113C GLU* 3.2 25.0 + - - +
114C THR* 4.1 7.0 - - - +
115C VAL 3.1 0.8 - - - -
116C LEU* 1.3 79.4 - - + +
118C TYR* 1.3 66.4 + - - +
120C VAL* 3.7 8.9 - - - +
121C SER* 3.2 22.5 + - - -
145C GLU* 4.4 13.2 - - - +
146C THR* 3.5 15.2 + - - -
147C THR* 3.2 38.9 + - - +
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Residues in contact with TYR 118 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C LEU* 6.2 2.5 - - + -
23C PHE* 4.7 16.0 - + - -
102C TRP* 5.6 12.6 - + - -
114C THR 3.6 7.5 + - - +
115C VAL* 2.4 37.3 + - + +
117C GLU* 1.3 72.3 - - - +
119C LEU* 1.3 87.5 + - + +
121C SER* 3.6 0.7 - - - -
122C PHE* 2.7 54.5 + + + +
138C PRO 3.8 3.1 - - - -
139C ILE* 2.9 44.8 - - + +
140C LEU* 3.0 48.2 - - + -
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Residues in contact with LEU 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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15C LEU* 3.2 43.5 - - + -
16C LEU* 4.0 11.7 - - + -
18C PHE* 4.7 5.3 - - + -
19C LEU* 5.1 14.4 - - + -
102C TRP* 5.0 13.7 - - + -
103C PHE* 6.3 2.9 - - + -
115C VAL* 2.7 49.4 - - + +
116C LEU* 3.0 17.7 - - + +
118C TYR* 1.3 86.2 - - + +
120C VAL* 1.3 74.7 + - + +
122C PHE* 2.8 1.6 + - - -
123C GLY* 2.4 25.9 + - - +
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Residues in contact with VAL 120 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37B LEU* 3.9 35.4 - - + -
109B THR* 6.1 4.9 - - + -
15C LEU* 6.3 2.7 - - + -
18C PHE* 4.8 2.1 - - - -
116C LEU* 2.7 35.7 - - + +
117C GLU* 3.7 8.3 - - - +
119C LEU* 1.3 89.8 - - + +
121C SER* 1.3 55.3 + - - +
122C PHE 2.8 7.1 + - - -
123C GLY* 3.2 1.0 + - - -
124C VAL* 2.8 28.1 - - + +
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Residues in contact with SER 121 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
110B PHE* 6.0 2.4 - - - -
142B THR* 4.8 9.5 + - - -
117C GLU 3.2 11.6 + - - -
118C TYR* 3.0 3.6 + - - -
120C VAL* 1.3 80.2 - - - +
122C PHE* 1.3 59.1 + - - +
124C VAL* 4.2 8.6 - - - +
125C TRP* 3.9 10.4 + - - +
138C PRO* 5.3 10.9 - - - +
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Residues in contact with PHE 122 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C LEU* 4.6 10.1 - - + -
20C PRO* 6.1 0.9 - - + -
23C PHE* 4.1 27.4 - + - -
118C TYR* 2.7 60.7 + + + +
119C LEU* 3.5 2.0 - - - +
120C VAL 2.8 2.4 + - - -
121C SER* 1.3 69.7 - - - +
123C GLY* 1.3 60.0 + - - +
124C VAL 2.3 6.4 + - - -
125C TRP* 2.2 43.8 + + + +
126C ILE* 3.6 18.9 + - + -
137C ALA* 3.4 29.4 - - + -
138C PRO* 3.7 18.4 - - + +
139C ILE* 4.7 4.0 - - + -
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Residues in contact with GLY 123 (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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18C PHE* 3.0 36.2 - - - -
19C LEU* 4.1 7.0 - - - -
119C LEU 2.4 21.4 + - - -
122C PHE* 1.3 77.5 - - - +
124C VAL* 1.3 54.1 + - - +
126C ILE* 3.3 7.8 - - - +
127C ARG* 3.0 26.0 + - - +
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Residues in contact with VAL 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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33B THR* 5.0 15.0 - - + -
37B LEU* 6.1 4.5 - - + -
106B SER* 5.9 3.1 - - - +
18C PHE* 4.5 9.2 - - + -
120C VAL* 2.8 26.7 - - + +
121C SER* 4.2 9.2 - - - +
122C PHE 2.3 11.3 + - - -
123C GLY* 1.3 71.0 - - - -
125C TRP* 1.3 66.9 + - - +
126C ILE 3.3 0.4 - - - -
127C ARG* 3.7 8.7 - - + -
128C THR* 2.7 41.1 + - - +
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Residues in contact with TRP 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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121C SER 3.9 5.0 + - - +
122C PHE* 2.2 38.2 + + + +
124C VAL* 1.3 72.6 - - - +
126C ILE* 1.3 76.4 + - + +
128C THR* 2.9 25.0 + - - +
133C ARG* 3.4 47.3 + - + +
134C PRO* 3.0 47.1 + - + +
135C PRO 3.6 14.8 - - - -
136C ASN* 2.9 22.3 + - - -
137C ALA* 3.9 21.1 - - + -
138C PRO* 3.6 21.5 - - + -
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Residues in contact with ILE 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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18C PHE 5.9 0.7 - - - +
19C LEU* 5.5 0.9 - - + -
20C PRO* 4.3 28.9 - - + -
122C PHE* 4.3 15.5 - - + -
123C GLY* 3.3 22.2 - - - +
125C TRP* 1.3 82.1 - - + +
127C ARG* 1.3 69.3 + - + +
128C THR 2.9 8.7 + - - +
133C ARG* 3.3 21.4 + - - +
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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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25B PRO* 3.3 24.0 - - + +
29B ASP* 3.1 48.9 + - + +
30B LEU 5.0 0.2 - - - +
32B ASP* 3.7 28.4 + - - +
33B THR* 3.3 20.9 - - + +
17C SER 4.7 2.4 + - - -
18C PHE* 3.1 54.9 + - + +
123C GLY 3.0 19.0 + - - +
124C VAL* 3.2 12.2 + - + +
126C ILE* 1.3 83.8 - - - +
128C THR* 1.3 58.5 + - - +
129C PRO* 4.1 0.2 - - - +
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Residues in contact with THR 128 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23B PHE* 5.9 4.3 - - + -
25B PRO* 4.5 6.4 - - + +
139B ILE* 6.0 0.7 - - + -
124C VAL* 2.7 34.8 + - - +
125C TRP* 2.9 17.8 + - - +
126C ILE 3.6 1.2 - - - +
127C ARG* 1.3 78.9 - - - +
129C PRO* 1.3 81.2 - - + +
132C TYR* 3.8 24.2 - - + +
133C ARG* 3.1 19.2 + - + -
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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