Contacts of the helix formed by residues 148 - 157 (chain C) in PDB entry 7CE1
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 ASP 148 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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143C LYS 4.1 0.3 - - - +
144C ILE* 3.9 1.8 - - - +
145C GLU* 3.4 35.1 + - - +
147C ASN* 1.3 75.0 - - - +
149C PRO* 1.3 70.7 - - - +
150C ARG* 2.6 71.7 + - - +
151C VAL* 3.3 22.9 + - + -
152C ARG* 3.3 17.5 + - - +
169C MET* 3.0 14.5 - - - +
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Residues in contact with PRO 149 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123C SER* 5.2 8.3 - - - +
124C MET* 3.9 22.7 - - + +
145C GLU* 4.8 10.3 - - - +
147C ASN* 3.9 7.0 - - - +
148C ASP* 1.3 89.7 - - - +
150C ARG* 1.3 59.3 + - + +
152C ARG* 3.2 6.2 + - + +
153C PHE* 2.7 37.2 + - - +
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Residues in contact with ARG 150 (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 VAL* 4.6 7.3 - - - +
117C HIS* 5.0 6.3 + - - -
123C SER* 3.4 35.0 + - - +
124C MET* 3.8 23.8 - - - -
127C ILE* 3.7 24.9 - - + -
141C ILE* 3.9 30.8 - - + +
142C SER 2.8 31.4 + - - +
143C LYS* 3.0 14.6 + - - +
144C ILE* 3.9 4.0 - - - +
145C GLU* 5.5 0.4 - - - +
148C ASP* 2.6 37.0 + - - +
149C PRO* 1.3 75.6 - - + +
151C VAL* 1.3 60.7 + - - +
153C PHE* 4.4 1.8 - - - -
154C MET* 3.1 33.7 + - + +
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Residues in contact with VAL 151 (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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141C ILE* 4.4 3.8 - - + -
144C ILE* 4.4 9.9 - - + -
148C ASP* 3.3 29.8 + - + +
150C ARG* 1.3 78.2 - - - +
152C ARG* 1.3 52.1 + - - +
155C THR* 2.5 36.6 + - - +
161C PHE* 3.9 11.1 - - + -
163C THR* 4.4 12.1 - - + -
167C SER* 4.0 3.6 - - - +
169C MET* 3.5 24.7 - - + -
171C ILE* 4.4 9.4 - - + -
173C HIS* 3.3 33.7 - - + -
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Residues in contact with ARG 152 (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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147C ASN* 5.6 5.2 - - - +
148C ASP 3.3 9.2 + - - +
149C PRO* 3.2 9.0 + - + +
151C VAL* 1.3 76.4 - - - +
153C PHE* 1.3 67.5 + - - +
155C THR* 3.1 6.5 + - - -
156C GLU* 3.1 55.5 + - + +
169C MET* 4.3 4.2 - - - -
171C ILE* 4.0 14.4 - - + -
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Residues in contact with PHE 153 (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 MET* 3.4 28.3 - - + -
127C ILE* 3.7 14.6 - - + -
128C ARG* 4.2 32.3 - - + -
131C LEU* 3.8 17.3 - - + -
149C PRO 2.7 22.2 + - - +
150C ARG* 4.0 3.4 - - - +
152C ARG* 1.3 77.2 - - - +
154C MET* 1.3 56.7 + - - +
156C GLU* 3.8 6.4 - - + +
157C ARG* 2.9 80.4 + - + +
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Residues in contact with MET 154 (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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127C ILE* 3.8 28.3 - - + -
131C LEU* 4.0 13.7 - - + -
139C VAL* 4.1 25.8 - - - -
141C ILE* 3.8 23.6 - - + -
150C ARG* 3.1 23.6 + - + +
153C PHE* 1.3 73.7 - - - +
155C THR* 1.3 60.5 + - - +
157C ARG 4.4 0.7 - - - +
158C LYS* 3.0 7.1 + - - -
159C MET* 2.8 46.1 + - + +
161C PHE* 3.5 44.2 - - + -
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Residues in contact with THR 155 (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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151C VAL 2.5 23.9 + - - +
152C ARG* 3.1 14.9 + - - -
154C MET* 1.3 76.2 - - - +
156C GLU* 1.3 61.6 + - - +
158C LYS* 3.5 15.0 + - - +
161C PHE* 3.4 26.9 - - + -
171C ILE* 3.4 36.6 - - + +
172C GLU 4.6 3.8 - - - +
173C HIS* 4.5 3.8 - - + -
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Residues in contact with GLU 156 (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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152C ARG* 3.1 59.6 + - + +
153C PHE* 3.8 6.8 - - + +
155C THR* 1.3 80.8 - - - +
157C ARG* 1.3 61.1 + - + +
158C LYS* 3.2 10.3 + - - +
171C ILE* 6.0 1.3 - - + -
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Residues in contact with ARG 157 (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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131C LEU* 3.3 37.8 - - + +
132C GLU* 5.4 2.2 - - - +
153C PHE* 2.9 59.9 + - + +
154C MET 4.5 0.2 - - - +
156C GLU* 1.3 78.2 - - + +
158C LYS* 1.3 70.9 + - - +
159C MET* 3.2 2.8 + - - +
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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