Contacts of the helix formed by residues 141 - 152 (chain C) in PDB entry 4OA5
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 141 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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116C GLU* 5.5 0.2 + - - -
118C LEU* 5.0 0.8 - - - +
138C ASN* 3.1 30.9 + - - -
140C SER* 1.3 78.8 + - - +
142C TYR* 1.3 64.4 + - - +
143C LEU 3.1 2.9 - - - -
144C ALA* 3.0 16.1 + - - +
145C TYR* 3.1 32.1 + - - -
312C IOD 3.3 27.7 - - - +
118E LEU* 4.7 3.1 - - - -
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Residues in contact with TYR 142 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C ILE* 3.5 29.1 + - + -
136C ASP* 3.9 8.3 + - - -
137C ALA 3.3 23.1 + - - -
138C ASN 3.5 9.9 - - - -
139C LYS* 3.2 37.0 + - + +
140C SER 3.6 0.8 - - - -
141C SER* 1.3 77.0 - - - +
143C LEU* 1.3 56.3 + - - +
145C TYR* 3.2 8.2 + + - +
146C LEU 2.9 24.3 + - - -
161C ALA* 3.8 13.9 - - + -
162C ASP 2.6 30.0 + - - -
163C ASN* 4.5 2.3 + - - +
164C THR* 4.3 1.1 - - + -
186C SER* 3.6 4.7 + - - +
187C MET* 3.6 26.9 - - + -
190C PHE* 3.5 36.7 - + + -
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Residues in contact with LEU 143 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
140C SER 5.7 0.7 - - - +
141C SER 3.1 1.2 - - - -
142C TYR* 1.3 76.1 - - - +
144C ALA* 1.3 59.0 + - - +
146C LEU* 3.2 12.9 + - + +
147C ASN* 2.9 28.2 + - - +
186C SER* 3.7 24.4 + - - +
189C ALA* 3.9 20.6 - - + +
190C PHE* 3.7 28.9 - - - +
193C GLU* 5.6 0.4 - - + -
313C IOD 4.2 12.7 - - + +
118E LEU* 3.9 13.9 - - + +
119E ALA* 3.9 29.4 - - + +
122E ASN* 4.0 20.0 - - + +
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Residues in contact with ALA 144 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
118C LEU* 4.0 25.4 - - + +
141C SER* 3.0 10.7 + - - +
143C LEU* 1.3 76.0 - - - +
145C TYR* 1.3 65.2 + - - +
147C ASN* 3.4 7.4 + - - +
148C TRP* 3.1 21.8 + - - +
312C IOD 4.3 3.6 - - + -
313C IOD 4.6 5.6 - - - -
118E LEU* 4.0 29.4 - - + +
144E ALA* 4.2 5.8 - - + -
147E ASN* 5.7 1.6 + - - +
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Residues in contact with TYR 145 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63C VAL* 4.0 11.7 - - + +
116C GLU* 4.1 2.3 + - - -
117C ALA* 3.5 32.1 - - + +
118C LEU* 4.3 14.6 - - + -
121C LEU* 3.8 19.3 - - + -
133C ILE* 4.4 8.6 - - + +
135C ILE* 3.8 37.9 - - + -
137C ALA 3.5 20.6 - - - -
138C ASN* 3.3 26.1 + - - +
141C SER* 3.1 33.9 + - - -
142C TYR* 3.6 6.7 - - - +
144C ALA* 1.3 77.1 - - - +
146C LEU* 1.3 57.0 + - - +
148C TRP* 3.2 8.2 + - - +
149C ALA* 3.0 27.5 + - - +
301C SAH 3.7 3.8 + - - -
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Residues in contact with LEU 146 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C ILE* 4.6 2.4 - - - +
142C TYR 2.9 13.2 + - - +
143C LEU* 3.2 13.7 + - + +
145C TYR* 1.3 78.2 - - - +
147C ASN* 1.3 56.7 + - - +
149C ALA* 3.0 4.8 + - - +
150C LYS* 2.9 35.9 + - + +
159C ILE* 3.9 24.7 - - + -
190C PHE* 3.8 32.5 - - + +
193C GLU* 3.5 33.7 - - + -
194C LEU* 3.8 24.0 - - + -
200C TYR* 4.5 7.2 - - - +
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Residues in contact with ASN 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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143C LEU 2.9 14.3 + - - +
144C ALA* 3.7 8.7 - - - +
145C TYR 3.3 0.2 - - - -
146C LEU* 1.3 78.5 - - - +
148C TRP* 1.3 62.6 + - - +
150C LYS* 3.5 26.0 + - - +
151C MET* 3.6 13.0 + - - +
313C IOD 4.5 8.3 - - + -
144E ALA 5.0 0.8 + - - -
147E ASN* 3.3 39.9 + - + +
148E TRP* 3.5 15.0 - - - +
151E MET* 3.4 21.5 - - - +
152E TYR* 4.4 7.9 - - - -
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Residues in contact with TRP 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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61C VAL* 4.0 11.7 - - + -
118C LEU* 5.8 2.0 - - + -
121C LEU* 3.1 63.6 + - + +
122C ASN* 4.9 0.7 - - - -
124C LEU* 4.2 9.6 - - + -
125C LYS* 4.1 8.2 - - + +
130C PHE* 3.9 20.4 - + - -
133C ILE* 4.0 21.1 - - + -
144C ALA 3.1 11.6 + - - +
145C TYR* 3.5 10.1 - - - +
146C LEU 3.2 0.2 - - - -
147C ASN* 1.3 77.3 - - - +
149C ALA* 1.3 64.6 + - - +
151C MET* 3.1 10.7 + - - +
152C TYR* 3.0 74.9 + + + -
153C ILE* 4.3 15.3 - - + -
147E ASN* 4.1 20.1 - - - +
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Residues in contact with ALA 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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133C ILE* 4.0 19.3 - - + -
135C ILE* 5.7 0.2 - - + -
145C TYR 3.0 13.9 + - - +
146C LEU* 3.0 11.6 + - + +
148C TRP* 1.3 78.6 - - - +
150C LYS* 1.3 63.5 - - - +
153C ILE* 3.0 48.9 + - + +
159C ILE* 4.2 14.8 - - + -
216C LYS* 3.4 5.7 - - - -
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Residues in contact with LYS 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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146C LEU* 2.9 30.6 + - + +
147C ASN* 3.6 22.0 - - - +
148C TRP 3.3 0.2 - - - -
149C ALA* 1.3 74.7 - - - +
151C MET* 1.3 59.3 + - - +
159C ILE* 5.8 0.4 - - + -
193C GLU* 3.3 13.2 + - + +
199C LYS* 4.7 3.6 - - - +
200C TYR* 3.2 30.0 + - + +
216C LYS* 3.3 26.9 + - - +
126D GLU* 2.8 39.8 + - - +
125E LYS* 5.9 1.8 - - - -
151E MET* 4.0 17.3 - - + -
152E TYR* 4.2 4.5 - - - -
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Residues in contact with MET 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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147C ASN* 3.6 18.8 + - - +
148C TRP* 3.1 8.1 + - - +
150C LYS* 1.3 80.0 - - - +
152C TYR* 1.3 98.4 + - + +
153C ILE 3.7 3.7 - - - +
319C IOD 3.9 13.2 - - - +
147E ASN* 3.9 38.1 - - + +
150E LYS* 4.5 14.4 - - - +
151E MET* 3.8 32.8 - - + -
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Residues in contact with TYR 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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125C LYS* 3.3 37.6 + - + +
128C ALA* 3.5 25.4 - - + -
129C PRO* 3.2 7.8 - - - +
130C PHE* 2.9 28.6 + - - -
148C TRP* 3.0 64.8 + + + +
151C MET* 1.3 106.7 - - + +
153C ILE* 1.3 64.5 + - - +
319C IOD 4.3 3.1 - - + -
147E ASN* 5.3 0.7 - - - -
150E LYS* 3.2 29.3 + - - -
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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