Contacts of the helix formed by residues 147 - 155 (chain C) in PDB entry 6O81
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 THR 147 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32C GLU* 4.1 9.2 - - - +
143C GLU 3.7 4.0 + - - -
144C LEU* 3.3 22.9 - - - +
145C GLU 3.6 1.0 - - - -
146C GLY* 1.3 74.1 - - - +
148C MET* 1.3 65.8 + - + +
149C GLU 3.3 0.4 - - - -
150C ASN* 3.2 3.1 + - - +
151C ILE* 2.9 34.8 + - - +
270C PRO* 3.6 21.3 - - + +
271C MET 5.8 0.2 - - - -
272C PHE* 4.2 20.6 - - + -
327C ASN* 3.5 32.3 - - - +
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Residues in contact with MET 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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32C GLU* 5.0 15.5 - - - +
145C GLU 5.0 1.7 + - - +
146C GLY* 4.6 0.2 - - - -
147C THR* 1.3 81.1 - - + +
149C GLU* 1.3 63.9 + - + +
151C ILE* 3.4 8.9 + - + +
152C ALA* 2.9 28.6 + - - +
172C ARG* 4.0 17.7 - - - +
173C THR* 4.5 20.2 - - + +
176C ALA* 3.7 32.5 - - + -
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Residues in contact with GLU 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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145C GLU 5.2 0.8 + - - +
146C GLY* 3.5 23.4 - - - +
147C THR 4.3 0.2 - - - +
148C MET* 1.3 81.3 - - + +
150C ASN* 1.3 82.9 + - - +
152C ALA* 3.7 7.2 - - - +
153C ALA* 2.9 30.5 + - - +
59L ASN* 4.0 6.8 - - - +
63L ARG* 4.2 33.1 + - - +
64L ILE 5.7 1.9 + - - -
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Residues in contact with ASN 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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143C GLU 5.5 0.2 + - - -
146C GLY 2.6 22.8 + - - +
147C THR 3.2 6.1 + - - +
149C GLU* 1.3 90.1 + - - +
151C ILE* 1.3 60.2 + - - +
153C ALA* 3.2 8.2 + - - +
154C GLN* 3.0 33.4 + - - +
327C ASN* 3.5 33.4 + - + +
59L ASN* 3.2 36.8 + - - +
60L LYS* 4.0 11.9 + - - +
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Residues in contact with ILE 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 THR* 2.9 31.1 + - - +
148C MET* 3.7 7.4 - - + +
150C ASN* 1.3 74.8 - - - +
152C ALA* 1.3 58.6 + - - +
154C GLN* 3.4 9.0 + - - +
155C ALA* 2.9 27.5 + - - +
173C THR* 3.9 30.1 - - + +
177C PHE* 3.6 27.8 - - + -
268C CYS* 4.4 2.7 - - + -
269C ALA 4.5 12.3 - - - +
270C PRO* 4.5 2.5 - - + -
325C ILE* 4.0 25.1 - - + +
326C SER 4.0 20.6 - - - +
327C ASN 4.6 0.2 - - - +
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Residues in contact with ALA 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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148C MET* 2.9 19.2 + - + +
149C GLU* 3.7 8.7 - - - +
150C ASN 3.3 0.2 - - - -
151C ILE* 1.3 78.1 - - - +
153C ALA* 1.3 61.0 + - - +
155C ALA* 3.5 6.6 + - - +
156C LEU* 3.6 5.4 - - - +
176C ALA* 5.2 4.9 - - + +
177C PHE* 5.3 4.7 - - - +
180C GLU* 2.8 50.4 - - + +
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Residues in contact with ALA 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 GLU* 2.9 20.7 + - - +
150C ASN* 3.2 12.3 + - - +
152C ALA* 1.3 79.2 - - - +
154C GLN* 1.3 59.0 + - - +
155C ALA 3.3 0.7 + - - -
156C LEU* 3.9 15.1 + - - +
157C GLU* 4.1 4.3 - - - +
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Residues in contact with GLN 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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150C ASN 3.0 20.7 + - - +
151C ILE* 3.4 11.0 - - - +
153C ALA* 1.3 74.5 - - - +
155C ALA* 1.3 59.8 + - - +
156C LEU 3.2 2.7 - - - -
157C GLU* 3.2 34.3 - - + +
158C HIS* 3.5 10.0 + - - -
325C ILE* 3.4 26.3 - - + +
326C SER 2.4 31.1 + - - -
327C ASN* 3.8 7.1 + - - +
328C ILE 4.3 0.2 - - - -
329C GLY* 3.3 33.7 - - - +
330C GLY 3.7 0.9 + - - -
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Residues in contact with ALA 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 ILE 2.9 16.1 + - - +
152C ALA* 4.0 0.2 - - - -
153C ALA 3.3 1.8 - - - -
154C GLN* 1.3 77.6 - - - +
156C LEU* 1.3 62.9 + - - +
157C GLU 3.2 1.0 + - - -
158C HIS* 3.4 13.5 + - - +
159C ILE* 4.0 15.1 + - - +
177C PHE* 3.6 35.7 - - + +
180C GLU* 3.3 26.7 - - - +
181C ALA* 4.9 4.1 - - + +
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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