Contacts of the strand formed by residues 149 - 155 (chain C) in PDB entry 3C6M
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 149 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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142C ASP* 3.4 21.6 + - - -
143C GLU 3.7 6.0 + - - -
144C ASP* 3.0 29.5 + - - +
148C GLN* 1.3 73.4 - - - +
150C ILE* 1.3 64.9 + - - +
151C LYS* 2.8 35.9 + - - +
163C ILE 3.8 1.6 - - - +
164C LEU* 3.5 6.1 - - - -
165C SER* 3.0 37.3 + - - +
166C GLY 5.0 4.0 + - - -
107D ARG* 4.4 3.2 - - - +
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Residues in contact with ILE 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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141C TYR* 3.6 24.7 - - + -
142C ASP* 3.4 2.8 - - - -
143C GLU 2.9 37.5 + - - +
145C SER* 3.9 12.1 - - - -
148C GLN* 3.7 12.3 - - + +
149C ASN* 1.3 75.8 - - - +
151C LYS* 1.3 60.3 + - - +
152C ILE* 5.0 0.9 - - + -
162C LEU* 4.0 25.1 - - + -
163C ILE 4.1 2.2 - - - -
164C LEU* 4.0 13.0 - - + -
222C ASP* 3.7 10.8 - - - +
224C MET* 3.8 13.0 - - + +
225C VAL* 3.4 36.3 - - + +
228C GLY* 6.0 1.1 - - - -
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Residues in contact with LYS 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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121C ASP* 5.7 2.0 - - + -
124C TRP* 3.6 36.8 - - + -
141C TYR 3.1 5.6 - - - +
142C ASP* 3.5 15.4 + - + +
149C ASN* 2.8 30.5 + - - +
150C ILE* 1.3 74.7 - - - +
152C ILE* 1.3 66.0 + - - +
153C LEU* 4.2 17.9 - - + -
161C ILE 3.7 0.8 - - - +
162C LEU* 3.7 2.3 - - - +
163C ILE* 3.0 47.5 + - + +
166C GLY* 5.9 2.7 - - - +
107D ARG* 2.7 46.2 - - - +
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Residues in contact with ILE 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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140C VAL* 2.8 43.5 + - + -
141C TYR* 2.5 40.3 + - + +
150C ILE* 5.2 0.4 - - + -
151C LYS* 1.3 78.6 - - - +
153C LEU* 1.3 65.6 + - - +
160C ASN* 3.8 27.4 - - + +
161C ILE 3.2 7.0 - - - +
162C LEU* 3.8 23.1 - - + -
228C GLY* 3.4 33.9 - - - +
232C TYR* 3.8 9.9 - - + -
233C MET* 4.2 10.3 - - + -
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Residues in contact with LEU 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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121C ASP* 3.8 12.6 - - + +
124C TRP* 3.4 36.8 - - + +
136C ILE* 3.7 23.6 - - + -
138C GLU 3.5 2.5 - - - -
139C VAL* 4.2 29.4 - - + -
141C TYR 4.8 0.2 - - - +
151C LYS* 4.3 20.4 - - + -
152C ILE* 1.3 85.3 - - - +
154C HIS* 1.3 60.2 + - - +
160C ASN* 3.4 3.7 - - - -
161C ILE* 2.6 43.1 + - + +
163C ILE* 3.4 23.3 - - + -
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Residues in contact with HIS 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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136C ILE* 3.3 7.5 - - - -
137C ASP* 3.1 58.3 + - - +
138C GLU* 2.9 25.5 + - + +
140C VAL* 3.9 11.3 - - + +
153C LEU* 1.3 70.8 - - - +
155C SER* 1.3 77.7 + - - +
156C LYS* 4.1 8.1 + - - -
159C GLY* 3.6 16.6 - - - -
160C ASN* 3.0 28.9 + - - +
172C GLU* 5.2 1.3 - - - -
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Residues in contact with SER 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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135C ASP* 2.8 29.4 + - - -
136C ILE* 3.9 3.6 - - - -
153C LEU 3.7 0.8 + - - -
154C HIS* 1.3 80.5 + - - +
156C LYS* 1.3 64.4 + - - +
158C PHE* 2.9 32.3 + - - +
159C GLY 2.8 34.9 + - - +
161C ILE* 3.9 17.7 - - - -
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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