Contacts of the helix formed by residues 132 - 144 (chain C) in PDB entry 5H1C
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 132 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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130C ARG 3.4 2.0 - - - -
131C THR* 1.3 73.6 - - - +
133C LYS* 1.3 57.6 + - - +
134C THR 3.4 1.8 - - - -
135C GLN* 3.1 12.9 - - - +
136C ILE* 3.0 33.2 + - - +
310C ARG* 3.4 1.4 - - - +
327C PHE* 5.5 0.6 - - - -
329C ILE* 3.9 15.9 - - - +
401C ANP 2.5 30.8 + - - -
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Residues in contact with LYS 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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125C MET* 3.8 18.7 - - + +
127C GLY* 5.0 9.8 - - - -
128C GLU 5.0 2.4 + - - -
129C PHE* 4.2 13.1 - - - +
131C THR* 3.3 19.1 + - - +
132C GLY* 1.3 75.5 - - - +
134C THR* 1.3 66.5 + - + +
136C ILE* 3.2 8.0 + - - +
137C CYS* 3.0 30.8 + - - -
222C ASP* 5.2 1.8 - - - -
266C THR* 3.3 31.6 - - + -
267C ASN 4.7 13.2 - - - +
268C GLN* 4.3 16.7 + - - +
302C LEU* 4.2 11.4 - - + -
401C ANP 2.4 51.9 + - - +
402C MG 4.4 1.8 - - - -
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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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133C LYS* 1.3 76.8 - - + +
135C GLN* 1.3 61.5 + - - +
137C CYS* 3.1 12.2 + - - +
138C HIS* 2.9 41.6 + - - -
159C TYR* 4.9 4.7 + - - -
165C THR* 4.6 5.9 + - - +
222C ASP* 2.1 31.2 - - - +
266C THR* 5.0 0.4 - - + -
401C ANP 2.9 20.0 + - - +
402C MG 1.6 37.2 - - - -
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Residues in contact with GLN 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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132C GLY* 3.1 22.1 + - - +
134C THR* 1.3 82.3 + - - +
136C ILE* 1.3 57.8 + - - +
138C HIS* 2.9 26.4 + - - +
139C THR* 3.0 18.0 + - + +
170C ARG* 2.6 52.5 + - - +
329C ILE* 3.7 24.3 - - + +
333C GLY* 4.4 10.4 - - - -
334C VAL* 4.8 7.2 - - + +
401C ANP 3.4 29.1 + - - +
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Residues in contact with ILE 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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104C THR* 5.8 7.0 - - + +
109C LEU* 5.0 9.0 - - + -
125C MET* 4.0 18.4 - - + -
132C GLY 3.0 13.8 + - - +
133C LYS* 3.2 6.5 + - - +
135C GLN* 1.3 78.7 - - - +
137C CYS* 1.3 63.4 - - - +
139C THR* 2.9 22.6 + - - +
140C LEU* 2.9 33.0 + - + +
300C LEU* 6.6 0.2 - - + -
302C LEU* 4.2 20.4 - - + -
327C PHE* 3.8 25.8 - - + -
334C VAL* 3.7 20.6 - - + -
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Residues in contact with CYS 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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125C MET* 5.1 4.0 - - - -
133C LYS 3.0 20.5 + - - -
134C THR* 3.1 15.0 + - - +
136C ILE* 1.3 78.3 - - - +
138C HIS* 1.3 60.8 + - - +
140C LEU* 3.6 4.8 + - - +
141C ALA* 3.0 24.4 + - - +
159C TYR* 4.2 11.4 - - + +
220C ILE* 3.3 38.1 - - + +
222C ASP* 5.1 3.1 - - - -
264C VAL* 4.5 13.9 - - - -
266C THR* 3.9 20.9 - - - -
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Residues in contact with HIS 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 THR* 2.9 34.8 + - - -
135C GLN* 2.9 18.8 + - - +
137C CYS* 1.3 77.3 - - - +
139C THR* 1.3 59.7 + - + +
141C ALA* 2.8 23.5 + - - +
142C VAL* 3.0 11.1 + - - +
159C TYR* 4.3 9.4 + - - -
165C THR 4.5 3.6 + - - -
166C PHE* 3.7 23.1 - + - -
167C ARG* 3.3 40.9 + - - +
170C ARG* 4.2 20.6 - - + -
171C LEU* 3.8 26.7 - - + +
174C VAL* 5.2 1.6 - - + -
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Residues in contact with THR 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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104C THR 3.9 16.3 + - - -
105C GLY* 5.9 0.9 - - - -
135C GLN* 3.0 18.0 + - - +
136C ILE* 2.9 21.3 + - - +
138C HIS* 1.3 76.5 - - + +
140C LEU* 1.3 58.0 + - - +
142C VAL* 3.4 1.4 + - - +
143C THR* 2.8 37.6 + - - +
174C VAL* 4.0 27.8 - - + -
177C ARG* 5.5 2.9 - - - +
178C TYR* 6.0 1.1 - - - -
332C ASP 4.3 12.1 - - - +
334C VAL* 4.0 22.5 - - + +
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Residues in contact with LEU 140 (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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102C ILE* 5.0 7.4 - - + +
103C THR 3.9 8.5 - - - +
104C THR* 3.8 36.3 - - + +
117C ILE* 3.6 29.2 - - + -
125C MET* 5.2 0.4 - - + -
136C ILE* 2.9 37.1 + - + +
137C CYS* 3.9 6.7 - - - +
139C THR* 1.3 77.7 + - - +
141C ALA* 1.3 63.6 + - - +
143C THR* 3.2 4.2 + - - +
144C CYS* 3.0 32.2 + - - -
218C LEU* 4.0 15.0 - - + -
220C ILE* 4.8 0.4 - - + -
264C VAL* 4.7 18.2 - - + -
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Residues in contact with ALA 141 (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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137C CYS 3.0 14.9 + - - +
138C HIS* 2.8 15.3 + - - +
140C LEU* 1.3 77.3 - - - +
142C VAL* 1.3 58.7 + - - +
144C CYS* 4.3 4.2 + - - +
145C GLN* 4.6 5.5 - - - +
157C ALA* 3.9 25.6 - - + +
159C TYR* 5.0 9.0 - - + -
166C PHE* 5.9 1.3 - - + -
171C LEU* 4.6 8.5 - - + -
189C VAL* 4.5 18.1 - - + +
218C LEU* 4.9 0.9 - - - -
220C ILE* 3.9 16.4 - - + +
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Residues in contact with VAL 142 (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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138C HIS 3.0 5.2 + - - +
139C THR 4.0 1.3 - - - +
141C ALA* 1.3 76.1 - - - +
143C THR* 1.3 59.5 + - - +
144C CYS 3.2 2.5 - - - -
145C GLN* 3.0 28.3 + - - +
146C LEU* 4.3 2.9 + - + +
171C LEU* 3.5 38.8 - - + +
174C VAL* 3.6 37.7 - - + +
175C ALA* 4.7 1.8 - - - +
178C TYR* 4.9 6.5 - - + -
180C LEU* 5.8 5.0 - - + +
185C VAL* 3.8 36.3 - - + -
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Residues in contact with THR 143 (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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102C ILE* 4.4 5.0 - - - +
103C THR* 3.8 21.4 + - - +
104C THR 4.9 0.5 - - - -
105C GLY* 4.7 10.8 - - - -
139C THR* 2.8 26.2 + - - +
140C LEU* 3.1 14.9 + - - +
142C VAL* 1.3 73.5 - - - +
144C CYS* 1.3 63.3 + - - +
145C GLN 3.0 2.2 + - - -
146C LEU* 3.5 26.3 + - + +
152C GLY* 3.5 11.6 - - - -
174C VAL* 4.7 1.1 - - + -
178C TYR* 3.4 39.5 - - + +
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Residues in contact with CYS 144 (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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102C ILE* 3.6 29.8 - - + -
140C LEU* 3.0 21.8 + - - +
141C ALA* 4.5 7.2 - - - +
142C VAL 3.2 0.6 + - - -
143C THR* 1.3 77.7 - - - +
145C GLN* 1.3 59.4 + - + +
146C LEU 3.3 0.4 - - - -
152C GLY* 3.4 5.1 - - - -
153C GLY 3.0 22.8 + - - +
154C GLU* 3.0 10.2 + - - -
155C GLY 3.9 6.8 + - - +
157C ALA* 5.0 3.4 - - + -
217C ALA* 3.6 18.4 - - + -
218C LEU* 3.7 31.0 - - - -
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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