Contacts of the helix formed by residues 115 - 129 (chain C) in PDB entry 5FLZ
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 115 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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69C MET* 6.3 0.7 - - + -
93C TRP* 3.7 26.8 - - + +
95C ALA* 4.7 5.5 - - - +
111C ILE* 3.0 28.8 + - - +
112C GLY* 3.4 6.9 - - - +
114C ARG* 1.4 117.3 + - - +
116C GLN* 1.4 61.3 + - - -
117C ASP 3.3 1.8 - - - -
118C ASP* 3.3 27.2 + - + +
119C ILE* 3.3 28.8 + - + +
150C LEU* 5.3 3.9 - - + +
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Residues in contact with GLN 116 (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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109C TYR* 4.7 3.6 + - - -
112C GLY 3.1 11.0 + - - +
113C THR* 3.3 28.8 + - + +
114C ARG 3.3 2.6 - - - -
115C ASN* 1.4 75.1 - - - +
117C ASP* 1.4 68.7 + - - +
119C ILE* 3.3 29.9 - - + +
120C LEU* 3.3 14.0 + - + +
153C ASN* 3.3 43.8 + - - +
157C ALA* 4.9 9.5 - - + +
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Residues in contact with ASP 117 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114C ARG 5.1 5.5 - - - +
116C GLN* 1.4 79.7 - - - +
118C ASP* 1.4 60.1 + - - +
120C LEU* 3.4 10.8 + - - +
121C ASN* 2.9 41.3 + - - +
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Residues in contact with ASP 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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90C ARG* 5.3 0.9 + - - -
93C TRP* 3.6 35.6 - - + +
114C ARG 4.2 3.5 - - - +
115C ASN* 3.3 33.2 + - + +
116C GLN 3.4 0.6 - - - -
117C ASP* 1.4 80.0 + - - +
119C ILE* 1.4 62.2 + - - +
121C ASN* 3.2 11.7 + - - +
122C LYS* 3.2 21.3 + - - +
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Residues in contact with ILE 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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69C MET* 5.0 2.2 - - + -
93C TRP* 3.8 23.8 - - + +
112C GLY 4.8 1.3 - - - +
115C ASN* 3.3 14.8 + - + +
116C GLN* 3.3 34.1 - - + +
118C ASP* 1.4 71.7 - - - +
120C LEU* 1.4 62.5 + - + +
122C LYS* 3.1 16.4 + - - +
123C ILE* 2.9 41.2 + - + +
150C LEU* 4.1 26.2 - - + -
153C ASN* 5.0 0.4 - - + -
154C LEU* 4.1 33.9 - - + +
157C ALA* 5.5 5.2 - - + -
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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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116C GLN* 3.3 16.5 + - + +
117C ASP* 3.8 9.4 - - + +
119C ILE* 1.4 83.4 - - + +
121C ASN* 1.4 70.2 + - - +
123C ILE* 3.3 1.1 + - - -
124C ASP* 2.9 32.1 + - + +
157C ALA* 6.1 5.8 - - + -
161C ARG* 3.3 46.0 + - + +
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Residues in contact with ASN 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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90C ARG* 4.3 12.2 + - - +
117C ASP* 2.9 30.0 + - - +
118C ASP* 3.2 9.4 + - - +
120C LEU* 1.4 86.6 - - - +
122C LYS* 1.3 65.5 + - - +
124C ASP* 3.5 5.5 + - - +
125C LYS* 3.1 23.7 + - - +
300D ASP* 5.3 7.9 - - - +
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Residues in contact with LYS 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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8C LEU* 5.7 0.4 - - - -
67C ILE* 3.3 32.0 - - + +
68C MET 4.0 2.4 + - - -
69C MET* 4.0 17.8 - - - +
90C ARG* 3.4 26.7 - - - +
91C ASN 3.8 11.7 - - - +
93C TRP* 3.6 46.1 - - + +
118C ASP 3.2 9.8 + - - +
119C ILE* 3.1 20.9 + - - +
121C ASN* 1.3 78.0 - - - +
123C ILE* 1.3 67.7 + - - +
125C LYS* 3.4 1.6 + - - +
126C GLU* 3.1 46.4 + - - +
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Residues in contact with ILE 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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6C ILE* 4.7 0.4 - - + +
8C LEU* 4.5 7.6 - - + -
67C ILE* 4.4 19.5 - - + -
119C ILE* 2.9 25.2 + - + +
120C LEU* 3.5 4.7 - - - +
122C LYS* 1.3 79.6 - - - +
124C ASP* 1.3 58.5 + - - +
125C LYS 3.3 0.2 + - - -
126C GLU* 3.4 4.0 + - - +
127C ILE* 2.9 47.7 + - + +
136C PHE* 4.0 16.2 - - + -
154C LEU* 4.0 27.6 - - + -
157C ALA* 6.4 0.9 - - + -
158C LEU* 4.2 15.7 - - + -
161C ARG* 3.5 26.2 - - - +
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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
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120C LEU* 2.9 20.6 + - + +
121C ASN* 3.9 7.2 - - - +
122C LYS 3.4 0.2 - - - -
123C ILE* 1.3 76.9 - - - +
125C LYS* 1.4 49.4 + - - +
127C ILE* 3.3 9.6 + - - +
128C ASP* 2.7 55.0 + - - +
161C ARG* 3.7 10.9 + - - +
162C TYR* 3.2 23.7 + - - -
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Residues in contact with LYS 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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90C ARG* 3.8 43.0 - - + +
121C ASN 3.1 17.7 + - - +
122C LYS* 3.6 3.1 - - - +
123C ILE 3.3 0.2 - - - -
124C ASP* 1.4 72.9 - - - +
126C GLU* 1.4 62.9 + - - +
128C ASP* 3.1 10.7 + - - +
129C SER* 2.9 40.0 + - - +
294D VAL* 5.4 0.5 - - - +
295D MET* 5.8 12.4 - - - +
298D LEU* 5.2 18.4 - - + -
300D ASP* 4.8 22.6 - - - +
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Residues in contact with GLU 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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6C ILE* 3.9 18.3 - - + +
55C ARG* 4.9 5.6 - - - +
65C ARG* 4.7 3.6 + - - +
67C ILE* 3.7 13.2 - - + +
90C ARG* 4.4 5.4 + - - +
91C ASN* 3.1 54.4 - - - +
122C LYS* 3.1 30.6 + - - +
123C ILE 3.8 6.5 - - - +
125C LYS* 1.4 85.1 - - - +
127C ILE* 1.4 56.2 - - - +
129C SER* 3.3 17.3 + - - -
130C THR* 2.7 25.1 + - - -
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Residues in contact with ILE 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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6C ILE* 4.1 14.4 - - + -
123C ILE* 2.9 39.6 + - + +
124C ASP* 3.7 10.3 - - - +
126C GLU* 1.4 71.2 - - - +
128C ASP* 1.3 67.6 + - - +
130C THR* 3.1 24.4 + - - +
133C PHE* 4.1 26.9 - - + +
136C PHE* 4.1 12.1 - - + -
162C TYR* 3.6 35.0 - - + +
165C LYS* 6.0 2.9 - - - -
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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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124C ASP* 2.7 40.8 + - - +
125C LYS* 3.1 10.2 + - - +
127C ILE* 1.3 75.9 - - - +
129C SER* 1.3 62.1 + - - +
130C THR 3.1 7.0 + - - +
131C ASP* 5.6 0.2 - - - +
294D VAL* 3.9 30.3 - - + +
298D LEU* 4.6 18.4 - - + +
344D PHE* 6.5 1.3 - - - -
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Residues in contact with SER 129 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55C ARG* 5.2 18.1 + - - -
65C ARG* 5.6 1.1 + - - -
125C LYS* 2.9 21.9 + - - +
126C GLU* 3.5 12.9 + - - -
127C ILE 3.1 0.4 - - - -
128C ASP* 1.3 75.4 - - - +
130C THR* 1.4 59.5 + - - +
131C ASP* 4.2 5.2 + - - +
291D SER* 5.6 8.7 + - - +
294D VAL* 4.5 16.2 - - - +
295D MET* 6.1 0.3 - - - +
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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