Contacts of the helix formed by residues 143 - 155 (chain L) 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 L).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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43L ARG* 5.1 2.2 - - - -
47L GLU* 3.5 14.1 - - - -
50L GLU* 5.9 0.4 - - - -
102L TYR* 3.1 9.6 - - - -
107L PRO* 5.9 0.2 - - - -
138L TRP* 3.8 3.2 - - - -
141L SER 5.1 1.1 - - - -
142L TYR* 1.3 87.0 - - - +
144L ILE* 1.3 69.0 + - - +
145L LYS* 2.8 36.9 + - - +
146L VAL* 2.9 29.4 + - - +
147L VAL* 3.1 15.8 + - - +
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Residues in contact with ILE 144 (chain L).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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44L LEU* 4.7 1.6 - - + -
47L GLU* 3.1 29.2 + - + +
62L TRP* 3.8 28.5 - - + -
75L TRP* 3.7 46.9 - - + +
96L ILE* 4.0 38.8 - - + -
98L CYS* 4.3 10.3 - - - -
102L TYR* 2.8 15.9 + - + +
107L PRO* 5.4 2.9 - - + -
143L SER* 1.3 73.5 - - - +
145L LYS* 1.4 52.9 + - - +
147L VAL* 3.3 8.1 + - - +
148L LEU* 2.7 39.7 + - + +
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Residues in contact with LYS 145 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47L GLU* 3.7 2.7 + - - +
50L GLU* 2.6 41.0 + - - +
55L VAL* 4.1 11.7 - - + -
62L TRP* 3.3 41.5 - - + -
143L SER* 2.8 25.0 + - - +
144L ILE* 1.4 75.9 - - - +
146L VAL* 1.3 68.6 + - + +
148L LEU* 3.3 4.7 + - - +
149L GLN* 2.8 62.5 + - + +
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Residues in contact with VAL 146 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134L VAL* 4.1 22.7 - - + -
141L SER 5.2 1.3 - - - +
142L TYR* 3.9 21.1 - - + -
143L SER* 2.9 32.8 - - - +
145L LYS* 1.3 86.8 - - + +
147L VAL* 1.3 56.1 + - - +
149L GLN* 2.9 10.6 + - - +
150L GLU* 2.7 41.1 + - + +
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Residues in contact with VAL 147 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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107L PRO* 4.4 9.9 - - + -
109L VAL* 4.2 22.2 - - + -
132L ILE* 5.2 0.7 - - + -
134L VAL* 4.2 19.1 - - + -
135L LEU* 4.3 18.2 - - + -
138L TRP* 3.8 24.0 - - + -
143L SER 3.1 13.9 + - - +
144L ILE* 3.6 7.2 - - - +
146L VAL* 1.3 80.0 - - + +
148L LEU* 1.3 67.9 + - + +
149L GLN 3.0 0.3 + - - -
150L GLU* 3.2 6.0 + - - +
151L LEU* 3.0 32.5 + - + +
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Residues in contact with LEU 148 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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60L VAL* 3.7 15.3 - - + -
61L SER 3.1 28.7 - - - +
62L TRP* 4.2 18.2 - - + -
77L GLY* 4.4 6.3 - - - -
78L MET 3.8 13.2 - - - +
79L ILE* 3.5 27.3 - - + +
94L LEU* 4.2 13.2 - - + -
96L ILE* 5.0 8.7 - - + -
109L VAL* 5.7 1.3 - - + -
144L ILE* 2.7 27.7 + - + +
145L LYS 3.6 7.0 - - - +
146L VAL 3.3 0.6 - - - -
147L VAL* 1.3 74.5 - - + +
149L GLN* 1.4 52.1 + - - +
151L LEU* 2.9 12.6 + - + -
152L ARG* 2.8 32.6 + - - +
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Residues in contact with GLN 149 (chain L).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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55L VAL* 4.5 5.9 - - - +
59L THR* 5.7 2.2 - - + +
60L VAL* 3.6 28.9 - - + +
145L LYS* 2.8 44.8 + - - +
146L VAL* 2.9 12.6 + - - +
148L LEU* 1.4 68.3 - - - +
150L GLU* 1.3 62.5 + - - +
152L ARG* 2.9 9.7 + - + +
153L ARG* 2.6 38.6 + - - +
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Residues in contact with GLU 150 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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132L ILE* 4.7 7.6 - - + -
133L SER* 4.8 9.6 - - - -
134L VAL* 3.7 40.2 - - + +
146L VAL* 2.7 20.4 + - - +
147L VAL 3.3 4.9 - - - +
149L GLN* 1.3 82.2 - - - +
151L LEU* 1.4 59.4 + - - +
153L ARG* 2.9 41.8 + - - -
154L LEU* 3.3 30.7 + - + +
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Residues in contact with LEU 151 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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79L ILE* 3.8 23.1 - - + -
94L LEU* 3.9 19.5 - - + -
109L VAL* 4.7 7.2 - - + -
111L PHE* 4.4 14.1 - - + -
117L MET* 3.4 14.6 - - + +
120L VAL* 6.0 1.6 - - + -
127L VAL* 4.4 19.7 - - + -
132L ILE* 4.1 25.1 - - + -
135L LEU* 6.0 0.2 - - + -
147L VAL* 3.0 28.7 + - + +
148L LEU* 2.9 14.8 + - + +
150L GLU* 1.4 73.4 - - - +
152L ARG* 1.4 62.0 + - - +
154L LEU* 3.4 15.9 - - + +
155L MET* 3.1 25.8 - - + +
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Residues in contact with ARG 152 (chain L).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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57L ASP* 5.1 2.4 + - - -
59L THR* 2.9 58.9 + - - +
60L VAL* 4.2 2.7 - - + -
79L ILE* 4.4 8.0 - - + +
80L LEU* 3.2 16.7 + - - +
81L GLY 3.5 4.8 + - - -
82L PRO* 2.5 52.1 - - + +
83L PRO* 3.8 9.5 - - - +
148L LEU 2.8 13.6 + - - +
149L GLN* 2.9 13.8 + - - +
151L LEU* 1.4 74.3 - - - +
153L ARG* 1.3 66.3 + - - +
155L MET* 3.5 22.5 + - - +
156L MET* 3.7 10.6 - - + +
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Residues in contact with ARG 153 (chain L).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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133L SER* 6.2 0.6 - - - -
149L GLN 2.6 17.9 + - - +
150L GLU* 2.9 40.8 + - - +
152L ARG* 1.3 66.9 - - - +
154L LEU* 1.4 66.6 - - - +
155L MET 2.6 4.0 + - - -
156L MET* 2.3 67.4 + - + +
157L SER* 4.0 3.9 + - - -
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Residues in contact with LEU 154 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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117L MET* 3.5 15.7 - - + -
118L ASN 6.2 0.2 - - - +
131L ALA 4.7 4.3 - - - +
132L ILE* 4.0 36.3 - - + -
133L SER* 5.4 2.9 - - - +
150L GLU* 3.3 25.7 + - + +
151L LEU* 3.4 9.2 + - - +
153L ARG* 1.4 90.4 - - - +
155L MET* 1.3 55.8 + - - +
156L MET 3.1 1.3 - - - -
157L SER* 2.9 35.6 + - - +
159L GLU* 4.8 5.2 - - - +
160L ASN* 3.4 15.7 - - - +
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Residues in contact with MET 155 (chain L).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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79L ILE* 3.3 39.5 - - + -
82L PRO* 3.8 24.0 - - + -
85L THR* 2.6 27.7 - - - +
87L TYR* 3.4 40.5 - - + -
92L TYR* 4.7 13.5 - - + -
111L PHE* 4.8 14.1 - - + -
115L ILE* 5.5 0.7 - - + -
117L MET* 4.2 12.3 - - + +
151L LEU* 3.1 21.3 - - + +
152L ARG* 3.5 12.3 - - - +
153L ARG 2.6 7.5 + - - -
154L LEU* 1.3 72.5 - - - +
156L MET* 1.4 55.4 + - - -
157L SER 3.3 0.2 - - - -
160L ASN* 4.1 7.6 - - - -
161L MET* 3.6 13.9 + - - -
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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