Contacts of the helix formed by residues 143 - 155 (chain C) in PDB entry 2C2V
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 SER 143 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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43C ARG* 4.8 4.3 - - - -
47C GLU* 2.8 31.9 - - - -
50C GLU* 6.0 1.3 - - - -
102C TYR* 3.4 9.9 - - - -
138C TRP* 3.9 3.1 - - - -
141C SER 5.0 1.1 + - - -
142C TYR* 1.3 77.1 - - - +
144C ILE* 1.3 50.5 + - - +
145C LYS* 3.7 11.9 + - - +
146C VAL* 2.5 41.7 + - - +
147C VAL* 2.7 21.9 + - - +
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Residues in contact with ILE 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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44C LEU* 4.9 0.9 - - + -
47C GLU* 3.5 22.4 - - + +
62C TRP* 3.8 28.9 - - + -
75C TRP* 3.9 43.1 - - + -
96C ILE* 4.4 25.4 - - + -
98C CYS* 4.9 8.3 - - - -
102C TYR* 3.8 7.1 + - + +
107C PRO* 5.3 4.4 - - + +
143C SER* 1.3 70.0 - - - +
145C LYS* 1.3 72.5 + - - +
147C VAL* 2.8 20.1 + - + +
148C LEU* 3.0 22.4 + - + +
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Residues in contact with LYS 145 (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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47C GLU* 3.7 3.6 + - - +
50C GLU* 3.0 36.6 + - - +
60C VAL* 5.1 1.3 - - + -
62C TRP* 3.6 39.3 - - + -
143C SER* 3.2 12.5 + - - +
144C ILE* 1.3 81.0 - - - +
146C VAL* 1.3 69.6 + - - +
148C LEU* 3.4 3.4 + - - +
149C GLN* 3.0 50.7 + - + +
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Residues in contact with VAL 146 (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 VAL* 4.0 18.8 - - + -
141C SER 5.4 1.1 - - - +
142C TYR* 4.4 19.7 - - + -
143C SER* 2.5 40.8 + - - +
145C LYS* 1.3 81.7 - - + +
147C VAL* 1.3 61.8 + - + +
149C GLN* 3.1 14.0 + - - +
150C GLU* 2.9 31.7 + - - +
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Residues in contact with VAL 147 (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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96C ILE* 6.0 1.6 - - + -
107C PRO* 4.7 12.1 - - + -
109C VAL* 4.3 19.1 - - + -
134C VAL* 4.1 19.2 - - + +
135C LEU* 4.9 8.7 - - + -
138C TRP* 4.3 19.1 - - + -
143C SER 2.7 18.4 + - - +
144C ILE* 2.8 11.7 + - + +
146C VAL* 1.3 71.5 - - + +
148C LEU* 1.3 65.9 + - + +
150C GLU* 2.7 17.8 + - - +
151C LEU* 2.9 30.5 + - + +
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Residues in contact with LEU 148 (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 VAL* 3.9 17.4 - - + +
61C SER 3.6 31.9 - - - +
62C TRP* 4.3 7.2 - - + -
77C GLY* 4.3 4.9 - - - -
78C MET 4.4 1.6 - - - +
79C ILE* 3.6 17.1 - - + +
94C LEU* 4.1 33.4 - - + -
96C ILE* 4.1 17.7 - - + -
109C VAL* 5.6 0.7 - - + -
144C ILE* 3.0 26.2 + - + +
145C LYS 3.7 5.8 - - - +
147C VAL* 1.3 85.1 - - + +
149C GLN* 1.3 62.3 + - - +
151C LEU* 3.4 1.9 + - + -
152C ARG* 3.2 17.2 + - - +
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Residues in contact with GLN 149 (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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59C THR* 5.6 5.9 - - - +
60C VAL* 4.2 24.0 - - + +
145C LYS* 3.0 44.2 + - - +
146C VAL* 3.1 14.4 + - - +
148C LEU* 1.3 76.4 - - - +
150C GLU* 1.3 67.9 + - - +
152C ARG* 3.2 4.8 + - + +
153C ARG* 2.8 23.8 + - - +
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Residues in contact with GLU 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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132C ILE* 5.8 2.2 - - + -
133C SER* 5.9 1.1 - - - +
134C VAL* 3.8 33.6 - - + +
146C VAL* 2.9 25.9 + - - +
147C VAL 2.7 8.6 + - - +
149C GLN* 1.3 83.7 - - - +
151C LEU* 1.4 52.9 - - + +
153C ARG* 2.9 54.6 + - + +
154C LEU* 3.0 28.3 + - + +
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Residues in contact with LEU 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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79C ILE* 3.9 12.3 - - + -
94C LEU* 3.9 27.1 - - + -
109C VAL* 4.6 10.8 - - + -
111C PHE* 4.4 17.7 - - + -
117C MET* 4.7 10.4 - - + +
120C VAL* 5.9 0.9 - - + -
127C VAL* 4.9 12.6 - - + -
132C ILE* 4.5 22.4 - - + -
135C LEU* 5.9 2.0 - - + -
147C VAL* 2.9 31.5 + - + +
148C LEU* 3.9 7.9 - - + +
150C GLU* 1.4 73.2 - - + +
152C ARG* 1.3 65.2 + - - +
154C LEU* 3.0 19.4 + - + +
155C MET* 3.1 15.3 + - + +
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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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59C THR* 2.9 35.9 + - - +
60C VAL* 4.2 6.5 - - - -
79C ILE* 3.6 22.0 - - + +
80C LEU* 2.6 24.8 + - - +
81C GLY 3.8 0.8 + - - -
82C PRO* 3.4 39.7 - - + +
83C PRO* 3.7 10.9 - - - +
148C LEU 3.2 13.8 + - - +
149C GLN* 3.7 5.6 - - - +
150C GLU 3.1 0.4 - - - -
151C LEU* 1.3 83.0 - - - +
153C ARG* 1.3 64.3 + - - +
154C LEU 3.0 0.3 + - - -
155C MET* 3.1 18.7 + - - +
156C MET* 3.8 10.4 + - - +
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Residues in contact with ARG 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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149C GLN 2.8 17.9 + - - +
150C GLU* 2.9 34.2 + - + +
152C ARG* 1.3 67.8 - - - +
154C LEU* 1.3 55.4 + - + +
156C MET* 2.5 47.6 + - - +
157C SER 3.8 0.4 + - - -
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Residues in contact with LEU 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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117C MET* 4.9 8.7 - - - -
118C ASN 5.8 3.6 - - - +
132C ILE* 4.1 30.5 - - + -
133C SER 5.7 2.2 - - - +
150C GLU* 3.0 21.3 + - + +
151C LEU* 3.3 16.6 - - + +
152C ARG 2.9 0.4 - - - -
153C ARG* 1.3 82.4 - - + +
155C MET* 1.3 52.3 + - - +
156C MET 2.8 1.0 + - - -
157C SER* 2.5 43.8 + - - +
160C ASN* 4.1 11.9 - - - +
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Residues in contact with MET 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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79C ILE* 4.2 21.3 - - + -
81C GLY* 4.8 0.4 - - - -
82C PRO* 3.7 24.0 - - + -
85C THR* 3.4 15.4 - - - +
87C TYR* 3.6 40.9 - - + -
92C TYR* 3.9 26.0 - - + -
111C PHE* 4.3 17.0 - - + -
115C ILE* 4.1 15.7 - - + -
117C MET* 3.9 16.5 - - + -
151C LEU 3.1 11.8 + - - +
152C ARG* 3.1 13.9 + - - +
154C LEU* 1.3 74.2 - - - +
156C MET* 1.3 58.7 + - - +
157C SER 3.5 1.1 - - - +
160C ASN* 4.8 0.7 - - - -
161C MET* 4.2 4.3 - - - +
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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