Contacts of the helix formed by residues 145 - 152 (chain H) in PDB entry 3ISE
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 GLY 145 (chain H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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147B GLU* 3.8 12.2 + - - -
141H ILE 3.0 16.4 + - - -
142H GLN 4.5 0.8 - - - -
143H LYS 3.7 1.2 - - - -
144H VAL* 1.3 80.2 - - - +
146H LEU* 1.3 67.5 + - - -
147H GLU 3.1 3.3 + - - -
148H ASN 3.4 2.0 + - - -
149H TYR* 3.1 22.3 + - - +
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Residues in contact with LEU 146 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143F LYS 5.6 2.0 - - - +
82H ASN* 6.4 2.7 - - - -
83H THR* 4.9 7.4 - - - -
84H GLN* 5.0 11.4 - - + +
141H ILE* 3.9 39.0 + - + +
145H GLY* 1.3 72.7 - - - +
147H GLU* 1.3 66.0 + - + +
149H TYR* 3.5 2.3 + - + +
150H LEU* 3.1 49.9 + - + +
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Residues in contact with GLU 147 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142F GLN 4.4 5.7 - - - +
143F LYS 4.1 12.2 - - - +
144F VAL* 2.8 46.4 - - - +
145F GLY* 3.7 10.2 + - - -
148F ASN* 3.7 10.1 + - - +
145H GLY 3.2 0.6 - - - -
146H LEU* 1.3 83.4 - - + +
148H ASN* 1.3 57.8 + - - +
150H LEU* 3.5 0.6 + - - -
151H GLN* 2.9 28.1 + - - +
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Residues in contact with ASN 148 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147B GLU* 3.4 20.4 + - - +
148B ASN* 3.1 20.6 + - - +
151B GLN* 3.0 30.4 + - - +
162B K 3.1 15.1 - - - -
148F ASN* 3.4 12.1 + - - +
144H VAL* 3.0 32.8 + - + +
145H GLY* 3.4 1.4 + - - -
147H GLU* 1.3 75.5 - - - +
149H TYR* 1.3 68.3 + - - +
151H GLN* 3.1 2.1 + - - -
152H SER* 2.9 21.2 + - - -
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Residues in contact with TYR 149 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154B MET* 4.3 10.1 - - + -
40H LEU* 3.8 25.3 - - + +
83H THR* 4.4 6.7 - - + -
87H LEU* 4.5 2.1 - - + +
137H GLN* 2.3 54.7 + - + +
140H LEU* 4.0 25.6 - - + -
141H ILE* 3.8 28.3 - - + -
144H VAL* 3.8 9.4 - - + +
145H GLY 3.1 15.8 + - - +
146H LEU 3.8 3.6 - - - +
148H ASN* 1.3 82.6 - - - +
150H LEU* 1.3 72.2 + - + +
152H SER* 3.3 4.8 + - - -
153H HIS* 2.8 53.1 + + - -
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Residues in contact with LEU 150 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143F LYS* 3.7 32.3 - - + +
144F VAL* 3.7 14.1 - - + -
37H LEU* 3.5 27.9 - - + +
40H LEU* 4.5 3.4 - - + -
83H THR* 3.3 42.8 - - + +
146H LEU* 3.1 36.0 + - + +
147H GLU 4.0 0.4 - - - +
149H TYR* 1.3 79.4 - - + +
151H GLN* 1.3 67.6 + - - +
153H HIS* 2.9 12.1 + - - -
154H MET* 3.3 8.7 + - - +
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Residues in contact with GLN 151 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151B GLN* 2.9 14.4 + - - -
162B K 2.8 22.5 - - - -
144F VAL* 3.8 9.6 - - + +
148F ASN* 3.2 33.3 + - + +
151F GLN* 2.7 28.7 + - - +
152F SER* 3.0 31.4 + - - +
147H GLU 2.9 19.1 + - - +
148H ASN* 3.1 4.1 + - - +
150H LEU* 1.3 77.3 - - - +
152H SER* 1.3 57.4 + - - +
153H HIS 3.1 4.5 + - - -
154H MET* 3.3 23.7 + - - +
155H HIS* 4.8 1.7 + - - -
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Residues in contact with SER 152 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151B GLN* 2.8 40.3 + - - +
154B MET* 4.5 7.0 - - - -
155B HIS* 3.2 32.9 - - - -
39H ARG* 4.0 8.0 + - - -
148H ASN 2.9 10.7 + - - -
149H TYR 3.8 4.9 - - - -
150H LEU 3.1 0.4 - - - -
151H GLN* 1.3 74.6 - - - +
153H HIS* 1.3 65.1 + - - +
154H MET 3.6 0.4 - - - -
155H HIS 4.6 2.1 - - - +
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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