Contacts of the helix formed by residues 145 - 153 (chain G) in PDB entry 2FL0
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 G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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147F GLU* 4.0 8.2 + - - -
141G ILE 2.8 17.9 + - - -
142G ASP 4.5 1.3 - - - -
143G LYS 3.6 1.2 - - - -
144G ILE* 1.3 79.0 - - - +
146G LEU* 1.3 60.1 + - - -
147G GLU* 3.3 8.5 + - - -
148G ASN* 3.3 2.5 + - - -
149G TYR* 2.8 30.8 + - - +
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Residues in contact with LEU 146 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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82G HIS* 6.1 2.9 - - - +
83G THR* 5.1 1.8 - - - -
84G LYS* 4.9 18.2 - - + +
141G ILE* 3.9 41.4 + - + +
145G GLY* 1.3 70.6 - - - -
147G GLU* 1.3 71.6 + - - +
149G TYR* 3.7 2.2 - - + +
150G LEU* 2.8 62.8 + - + +
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Residues in contact with GLU 147 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145G GLY* 4.3 5.0 - - - -
146G LEU* 1.3 92.8 + - - +
148G ASN* 1.3 62.4 + - - +
150G LEU* 3.2 5.7 + - - +
151G GLN* 2.9 29.0 + - - +
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Residues in contact with ASN 148 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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1603A FE2 2.6 29.6 - - - -
147F GLU* 4.1 15.4 + - - +
148F ASN* 3.3 13.4 + - - +
151F GLN* 2.7 36.3 + - - +
144G ILE* 3.2 33.2 + - + +
145G GLY 3.3 2.0 + - - -
147G GLU* 1.3 80.4 + - - +
149G TYR* 1.3 63.6 + - - +
151G GLN* 3.2 4.9 + - - +
152G SER* 3.1 12.1 + - - -
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Residues in contact with TYR 149 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154F MET* 4.4 11.2 - - + -
40G LEU* 3.4 30.1 - - + +
83G THR* 4.3 9.0 - - + -
87G LEU* 4.6 1.4 - - + +
137G GLN* 2.7 46.3 + - + +
140G LEU* 4.2 17.0 - - + -
141G ILE* 3.7 32.1 - - + -
144G ILE* 3.5 14.5 - - + +
145G GLY 2.8 22.0 + - - +
146G LEU* 3.7 3.6 - - + +
148G ASN* 1.3 74.0 - - - +
150G LEU* 1.3 71.4 + - + +
152G SER* 3.2 14.4 + - - -
153G GLN* 3.2 42.9 + - + +
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Residues in contact with LEU 150 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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37G LEU* 3.6 34.3 - - + +
40G LEU* 4.5 3.6 - - + -
83G THR* 3.4 39.9 - - + +
146G LEU* 2.8 45.7 + - + +
147G GLU* 3.8 5.2 - - - +
149G TYR* 1.3 77.1 - - + +
151G GLN* 1.3 67.5 + - - +
153G GLN* 3.1 10.4 + - - -
154G MET* 3.5 8.6 + - - +
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Residues in contact with GLN 151 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A ASN* 5.8 1.4 + - - -
1603A FE2 3.1 23.2 - - - -
151F GLN* 3.2 14.5 + - - +
147G GLU 2.9 14.5 + - - +
148G ASN* 3.2 9.0 + - - +
150G LEU* 1.3 76.3 - - - +
152G SER* 1.3 64.8 + - - +
154G MET* 3.2 45.3 + - + +
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Residues in contact with SER 152 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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151F GLN* 3.2 31.7 + - - +
154F MET* 4.2 15.3 - - - -
155F ASP* 5.7 1.8 - - - -
39G LYS* 3.6 21.6 + - - +
148G ASN 3.1 5.5 + - - -
149G TYR* 3.4 12.8 - - - -
150G LEU 3.1 0.2 - - - -
151G GLN* 1.3 77.6 - - - +
153G GLN* 1.3 68.4 + - - +
154G MET 3.6 4.8 + - - +
155G ASP 4.8 0.7 - - - +
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Residues in contact with GLN 153 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154F MET* 4.5 4.8 - - - +
37G LEU* 4.2 7.9 - - + -
38G GLU 3.2 7.1 + - - -
39G LYS* 2.9 54.4 + - - +
40G LEU* 3.6 39.2 + - + +
133G TRP* 5.7 1.4 - - - -
137G GLN* 4.7 2.0 + - - -
149G TYR* 3.2 62.7 + - + +
150G LEU* 3.1 9.9 + - - +
152G SER* 1.3 86.8 + - - +
154G MET* 1.3 59.7 + - - +
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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