Contacts of the helix formed by residues 145 - 152 (chain N) in PDB entry 3IS7
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 N).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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141N ILE 3.0 15.1 + - - -
142N GLN 4.3 1.9 + - - -
143N LYS 3.6 1.6 - - - -
144N VAL* 1.3 83.1 - - - +
146N LEU* 1.3 67.5 + - - -
147N GLU 3.3 2.6 + - - -
148N ASN 3.6 1.3 + - - -
149N TYR* 2.9 19.8 + - - +
147P GLU* 3.7 17.1 + - - -
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Residues in contact with LEU 146 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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83N THR* 5.3 4.3 - - - -
84N GLN* 5.1 13.5 - - + +
141N ILE* 3.6 37.7 + - + -
145N GLY* 1.3 71.7 - - - -
147N GLU* 1.3 70.6 + - + +
149N TYR* 3.1 3.1 + - - -
150N LEU* 3.0 57.5 + - + +
143T LYS 5.7 0.9 - - - +
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Residues in contact with GLU 147 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145N GLY 3.3 0.8 - - - -
146N LEU* 1.3 84.2 - - + +
148N ASN* 1.3 57.0 + - - +
150N LEU* 3.3 2.3 + - - +
151N GLN* 2.9 28.6 + - - +
142T GLN 4.2 7.4 - - - +
143T LYS 3.3 24.4 - - - +
144T VAL* 3.4 26.7 - - - +
145T GLY* 4.1 10.8 + - - -
148T ASN* 3.6 8.6 + - - +
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Residues in contact with ASN 148 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144N VAL* 3.2 31.5 + - + +
145N GLY 3.6 1.4 + - - -
146N LEU 3.4 0.2 - - - -
147N GLU* 1.3 73.0 - - - +
149N TYR* 1.3 65.8 + - - +
151N GLN* 3.2 1.0 + - - +
152N SER* 2.9 22.7 + - - -
160N K 2.9 18.0 - - - -
147P GLU* 3.5 21.3 + - - +
148P ASN* 3.0 21.3 + - - +
151P GLN* 3.1 29.7 + - - +
148T ASN* 2.9 16.6 + - - +
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Residues in contact with TYR 149 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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40N LEU* 3.8 28.4 - - + +
83N THR* 4.4 5.6 - - + -
87N LEU* 4.4 2.6 - - + +
137N GLN* 2.5 59.9 + - + +
140N LEU* 3.9 21.5 - - + -
141N ILE* 3.5 34.1 - - + -
144N VAL* 3.8 9.6 - - + +
145N GLY 2.9 18.8 + - - +
146N LEU 3.1 3.8 + - - +
148N ASN* 1.3 76.4 - - - +
150N LEU* 1.3 71.2 + - + +
152N SER* 3.4 5.0 + - - -
153N HIS* 2.8 50.0 + + - -
154P MET* 4.5 6.3 - - + -
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Residues in contact with LEU 150 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37N LEU* 3.5 20.2 - - + +
40N LEU* 4.7 2.5 - - + -
83N THR* 3.6 40.2 - - + +
146N LEU* 3.0 39.0 + - + +
147N GLU 3.8 1.1 - - - +
149N TYR* 1.3 81.7 - - + +
151N GLN* 1.3 68.5 + - - +
153N HIS* 2.8 15.8 + - - -
154N MET* 3.2 8.8 + - - +
143T LYS* 3.8 36.6 - - + +
144T VAL* 3.6 17.0 - - + -
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Residues in contact with GLN 151 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147N GLU 2.9 14.9 + - - +
148N ASN* 3.2 6.6 + - - +
150N LEU* 1.3 77.1 - - - +
152N SER* 1.3 59.1 + - - +
153N HIS 3.1 1.2 + - - -
154N MET* 3.2 23.5 + - - +
155N HIS* 4.8 1.9 + - - -
160N K 3.1 12.5 - - - -
151P GLN* 2.7 26.4 + - - +
144T VAL* 3.7 11.6 - - + +
148T ASN* 2.9 38.9 + - + +
151T GLN* 2.9 27.0 + - - +
152T SER* 3.1 24.5 + - - +
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Residues in contact with SER 152 (chain N).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39N ARG* 3.6 7.8 - - - -
148N ASN 2.9 11.0 + - - -
149N TYR 3.6 6.1 - - - -
150N LEU 3.2 0.2 - - - -
151N GLN* 1.3 75.3 - - - +
153N HIS* 1.3 63.5 + - - +
154N MET 3.5 0.4 - - - -
155N HIS 4.6 3.1 + - - +
151P GLN* 3.1 35.2 + - - +
154P MET* 3.9 20.3 - - - -
155P HIS* 3.4 24.8 - - - -
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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