Contacts of the helix formed by residues 121 - 140 (chain C) in PDB entry 5EGU
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 ASN 121 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60C THR* 6.0 2.9 - - + -
63C LEU* 3.7 14.0 - - - +
119C TYR* 3.3 16.9 - - - +
120C TRP* 1.3 90.2 + - - +
122C ALA* 1.3 64.5 + - - +
123C GLN* 3.2 13.7 + - - +
124C GLU* 3.0 41.1 + - - +
125C CYS 3.6 1.2 + - - -
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Residues in contact with ALA 122 (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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60C THR* 5.1 1.9 + - - +
62C GLN* 3.7 42.2 - - + +
63C LEU* 3.8 16.3 - - + +
66C LEU* 3.7 12.4 - - + +
121C ASN* 1.3 72.7 - - - +
123C GLN* 1.3 61.5 + - - +
125C CYS* 3.1 5.4 + - - +
126C ILE* 2.9 36.5 + - + +
164C LEU* 5.3 1.6 - - + -
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Residues in contact with GLN 123 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121C ASN* 3.2 12.1 + - - +
122C ALA* 1.3 79.3 - - - +
124C GLU* 1.3 57.9 + - - +
126C ILE* 3.2 30.3 + - - +
127C GLN* 2.8 58.7 + - - +
130C ASN* 5.5 2.6 - - - +
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Residues in contact with GLU 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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118C TYR* 3.9 21.0 + - - +
119C TYR* 3.7 22.3 - - + -
120C TRP* 2.9 41.3 + - - +
121C ASN* 3.0 22.6 + - - +
122C ALA 3.2 0.2 - - - -
123C GLN* 1.3 75.8 - - - +
125C CYS* 1.3 59.1 + - - +
127C GLN* 3.5 20.6 + - - +
128C ASP* 3.3 18.5 + - - +
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Residues in contact with CYS 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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63C LEU* 4.4 2.0 - - + -
66C LEU* 3.9 20.0 - - + -
110C ILE* 4.0 9.6 - - - -
114C LEU* 4.0 11.2 - - - -
119C TYR* 3.6 39.6 - - + -
121C ASN 3.6 3.1 + - - +
122C ALA 3.1 9.7 + - - +
124C GLU* 1.3 75.7 - - - +
126C ILE* 1.3 65.2 + - - +
128C ASP* 2.9 16.1 + - - +
129C PHE* 3.2 34.3 + - - -
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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
----------------------------------------------------------
66C LEU* 4.2 11.7 - - + -
122C ALA* 2.9 21.1 + - + +
123C GLN* 3.6 33.4 - - - +
125C CYS* 1.3 74.1 - - - +
127C GLN* 1.3 57.5 + - - +
129C PHE* 3.2 7.3 + - - +
130C ASN* 3.0 41.0 + - - +
157C PHE* 4.2 16.3 - - + -
161C ILE* 3.9 35.9 - - + -
164C LEU* 4.5 17.9 - - + -
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Residues in contact with GLN 127 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C GLN* 2.8 41.9 + - - +
124C GLU* 3.6 23.7 + - - +
125C CYS 3.1 0.2 - - - -
126C ILE* 1.3 75.8 - - - +
128C ASP* 1.3 58.9 + - - +
130C ASN* 3.4 9.5 + - - +
131C THR* 2.9 34.1 + - - +
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Residues in contact with ASP 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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105C MET* 3.3 26.2 - - + +
110C ILE* 3.7 18.2 - - + -
113C ARG* 2.8 32.5 + - - -
119C TYR* 2.5 27.7 + - - +
124C GLU* 3.3 9.5 + - - +
125C CYS 2.9 10.5 + - - +
127C GLN* 1.3 76.8 - - - +
129C PHE* 1.3 60.3 + - - +
131C THR* 3.3 4.8 + - - -
132C MET* 2.9 25.3 + - - +
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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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66C LEU* 4.5 6.5 - - + -
70C VAL* 4.2 14.4 - - + -
71C LEU* 4.3 17.9 - - + -
74C LEU* 3.9 23.6 - - + -
107C MET* 4.3 14.8 - - + -
110C ILE* 3.7 39.7 - - + -
125C CYS* 3.2 30.6 + - - -
126C ILE* 3.2 6.9 + - - +
128C ASP* 1.3 77.3 - - - +
130C ASN* 1.3 62.3 + - - +
132C MET* 3.2 15.6 + - + +
133C PHE* 3.1 30.9 + + + -
157C PHE* 3.3 41.7 - + + -
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Residues in contact with ASN 130 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C GLN* 5.5 2.2 - - - +
126C ILE* 3.0 35.5 + - - +
127C GLN* 3.9 8.4 - - - +
128C ASP 3.3 0.2 - - - -
129C PHE* 1.3 75.8 - - - +
131C THR* 1.3 51.6 + - - +
133C PHE* 3.3 10.9 + - - +
134C THR* 2.7 43.6 + - - +
154C GLU* 4.6 7.8 - - - +
157C PHE* 3.8 17.5 - - - -
158C LEU* 5.4 2.8 - - - +
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Residues in contact with THR 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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103C THR* 3.1 44.5 - - + +
105C MET* 4.0 8.1 - - + -
127C GLN* 2.9 19.8 + - - +
128C ASP* 3.6 8.6 + - - -
130C ASN* 1.3 73.6 - - - +
132C MET* 1.3 58.4 + - - +
134C THR* 4.2 6.7 - - + -
135C ASN* 2.7 46.0 + - - +
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Residues in contact with MET 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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74C LEU* 5.2 0.2 - - + -
83C PHE* 3.9 30.8 - - + -
105C MET* 3.4 27.1 - - + +
106C ASP* 3.8 5.2 - - - -
107C MET* 3.6 52.3 - - + -
110C ILE* 5.0 2.2 - - + -
128C ASP 2.9 14.6 + - - +
129C PHE* 3.4 20.2 - - + +
131C THR* 1.3 78.5 - - - +
133C PHE* 1.3 93.1 + - + +
135C ASN* 3.4 5.5 + - - +
136C CYS* 3.3 17.8 + - - +
153C LEU* 5.3 1.6 - - + -
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Residues in contact with PHE 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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74C LEU* 4.1 8.1 - - + -
83C PHE* 5.7 1.8 - + - -
129C PHE* 3.1 26.6 + - + -
130C ASN* 3.6 12.6 - - - +
132C MET* 1.3 96.7 - - + +
134C THR* 1.3 67.0 + - - +
136C CYS* 3.0 17.5 + - - +
137C TYR* 3.0 33.8 + - + +
150C ALA* 3.9 14.1 - - + -
153C LEU* 3.7 19.5 - - + -
154C GLU* 3.5 54.5 - - + +
157C PHE* 3.8 26.5 - + + -
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Residues in contact with THR 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 ASN* 2.7 26.3 + - - +
131C THR* 3.8 6.1 - - - +
133C PHE* 1.3 72.7 - - - +
135C ASN* 1.3 60.0 + - - +
137C TYR* 3.1 13.9 + - - +
138C ILE* 2.8 50.6 + - + +
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Residues in contact with ASN 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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97C TYR* 4.0 13.1 + - - +
101C ILE* 3.5 30.3 - - + +
103C THR* 2.7 30.7 + - - +
104C PRO* 3.5 14.8 - - - +
105C MET 3.5 9.1 + - - +
131C THR* 2.7 34.6 + - - +
132C MET* 3.6 7.2 - - - +
133C PHE 3.2 0.2 - - - -
134C THR* 1.3 76.7 - - - +
136C CYS* 1.3 57.2 + - - +
138C ILE* 4.5 5.2 - - - +
139C TYR* 3.1 31.2 + - - +
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Residues in contact with CYS 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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83C PHE* 4.3 11.7 - - + -
97C TYR* 5.5 1.6 - - - -
132C MET 3.3 8.8 + - - +
133C PHE 3.0 10.6 + - - +
135C ASN* 1.3 77.7 - - - +
137C TYR* 1.3 64.9 + - - +
139C TYR* 5.0 0.2 - - - -
140C ASN* 2.9 45.2 + - - +
146C ILE* 3.6 39.7 - - - -
147C VAL* 4.2 4.6 - - - +
150C ALA* 3.8 18.6 - - + -
201C 5NQ 4.5 6.3 - - + +
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Residues in contact with TYR 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 PHE* 3.0 26.2 + - + +
134C THR* 3.7 10.8 - - - +
136C CYS* 1.3 79.8 - - + +
138C ILE* 1.3 61.7 + - + +
140C ASN 3.2 14.7 - - - +
141C LYS* 5.3 0.3 - - - -
142C PRO* 5.7 1.7 - - - +
147C VAL* 3.9 23.0 - - + +
150C ALA* 3.5 25.9 + - + +
151C GLU* 3.4 40.3 + - + +
154C GLU* 2.6 32.9 + - - +
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Residues in contact with ILE 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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100C ILE* 4.0 24.7 - - + +
101C ILE* 4.1 9.9 - - + -
134C THR* 2.8 43.4 + - + +
135C ASN* 3.9 10.3 - - - +
137C TYR* 1.3 72.6 - - + +
139C TYR* 1.3 64.7 + - - +
140C ASN 3.9 2.8 - - - +
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Residues in contact with TYR 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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94C LEU* 3.0 39.8 - - + +
95C PRO* 2.7 35.4 + - - +
97C TYR* 3.7 44.6 - + + -
100C ILE* 3.9 30.1 - - + +
101C ILE* 4.3 4.7 - - + -
135C ASN 3.1 17.9 + - - +
137C TYR 3.5 0.2 - - - -
138C ILE* 1.3 80.5 - - - +
140C ASN* 1.3 88.7 + - - +
141C LYS* 4.0 12.6 - - - -
201C 5NQ 4.1 2.9 - - - +
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Residues in contact with ASN 140 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136C CYS* 2.9 32.0 + - - +
137C TYR 3.2 16.5 - - - +
138C ILE 3.9 2.9 - - - +
139C TYR* 1.3 91.9 - - - +
141C LYS* 1.3 78.2 + - - +
142C PRO* 4.6 1.2 - - - +
144C ASP* 3.5 9.2 - - - +
146C ILE* 3.4 16.4 - - + +
147C VAL* 3.8 11.7 - - + -
201C 5NQ 2.8 45.9 + - - +
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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
------------------------------------------------------------
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