Contacts of the helix formed by residues 145 - 155 (chain E) 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 E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
141E ILE 3.0 18.6 + - - -
142E ASP 4.4 1.5 - - - -
143E LYS 3.5 1.6 - - - -
144E ILE* 1.3 79.1 - - - +
146E LEU* 1.3 61.4 + - - -
147E GLU* 3.4 8.7 - - - -
148E ASN 3.3 2.8 + - - -
149E TYR* 2.8 29.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 146 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C LYS 5.6 1.8 - - - +
82E HIS* 6.2 1.3 - - - +
83E THR* 5.0 7.4 - - - -
84E LYS* 5.1 9.9 - - + +
141E ILE* 3.6 37.4 + - + +
145E GLY* 1.3 71.2 - - - -
147E GLU* 1.3 71.5 + - - +
149E TYR* 3.0 4.7 + - + +
150E LEU* 2.7 66.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 147 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C LYS 4.1 13.6 - - - +
144C ILE* 3.5 37.8 - - - +
145C GLY* 5.7 0.2 - - - -
148C ASN* 3.8 8.9 + - - +
145E GLY* 4.3 5.4 - - - -
146E LEU* 1.3 95.7 + - - +
148E ASN* 1.3 58.0 + - - +
150E LEU* 3.9 0.8 - - - +
151E GLN* 3.0 28.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 148 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148C ASN* 3.4 23.7 + - - +
144E ILE* 3.0 41.5 + - + +
145E GLY 3.3 2.6 + - - -
147E GLU* 1.3 77.1 + - - +
149E TYR* 1.3 65.8 + - - +
151E GLN* 3.3 12.1 + - - +
152E SER* 2.9 27.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 149 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40E LEU* 3.5 30.4 - - + +
83E THR* 4.3 12.8 - - + -
87E LEU* 5.0 2.8 - - + +
137E GLN* 2.8 47.5 + - + +
140E LEU* 4.4 17.7 - - + -
141E ILE* 3.6 33.7 - - + -
144E ILE* 3.5 18.6 - - + +
145E GLY 2.8 17.6 + - - +
146E LEU* 3.0 4.9 + - + +
148E ASN* 1.3 77.4 - - - +
150E LEU* 1.3 68.9 + - + +
152E SER* 3.1 14.7 + - - -
153E GLN* 3.2 44.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 150 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
143C LYS* 4.1 39.9 - - + +
144C ILE* 3.8 13.2 - - + -
37E LEU* 3.6 24.7 - - + +
40E LEU* 5.1 1.8 - - + -
83E THR* 3.3 38.4 - - + +
146E LEU* 2.7 42.8 + - + +
147E GLU 3.9 0.2 - - - +
149E TYR* 1.3 74.0 - - + +
151E GLN* 1.3 67.4 + - - +
153E GLN* 2.9 16.3 + - - +
154E MET* 3.2 12.3 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 151 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
144C ILE* 3.9 12.9 - - + +
148C ASN* 2.9 46.2 + - + +
151C GLN* 3.2 26.0 + - - +
152C SER* 3.3 19.1 + - - +
147E GLU 3.0 19.8 + - - +
148E ASN* 3.4 14.2 - - - +
150E LEU* 1.3 76.7 - - - +
152E SER* 1.3 65.0 + - - +
154E MET* 3.1 28.2 + - - +
155E ASP* 4.3 1.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 152 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39E LYS* 3.7 11.3 - - - +
144E ILE* 4.5 8.8 - - - +
148E ASN* 2.9 14.6 + - - +
149E TYR* 3.1 12.3 + - - -
151E GLN* 1.3 78.6 + - - +
153E GLN* 1.3 68.7 + - - +
154E MET 3.4 0.2 - - - -
155E ASP* 3.7 14.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 153 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37E LEU* 4.1 12.6 - - + -
38E GLU 3.3 4.2 + - - -
39E LYS* 2.8 52.5 + - + +
40E LEU* 3.5 37.2 - - + +
133E TRP* 5.6 1.0 - - - -
137E GLN* 4.7 3.2 + - - +
149E TYR* 3.2 50.8 + - + +
150E LEU* 2.9 9.2 + - - +
152E SER* 1.3 89.1 + - - +
154E MET* 1.3 59.7 + - - +
155E ASP 3.5 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 154 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C LYS* 5.4 6.1 - - - +
137C GLN* 5.2 0.7 - - - +
140C LEU* 3.2 43.3 - - + -
144C ILE* 3.7 26.2 - - + -
149C TYR* 4.2 15.3 - - + -
152C SER* 4.1 15.3 - - - +
153C GLN* 4.5 8.3 - - - +
36E GLY 3.4 14.3 - - - +
37E LEU* 4.1 10.5 - - + +
38E GLU* 3.0 33.1 + - - +
150E LEU 3.2 10.6 + - - +
151E GLN* 3.1 16.5 + - - +
153E GLN* 1.3 75.4 - - - +
155E ASP* 1.3 61.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 155 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C LYS* 3.3 31.8 + - - +
38E GLU* 3.5 22.2 - - - +
39E LYS* 3.1 43.1 + - - +
151E GLN 4.3 3.0 + - - +
152E SER 3.7 5.5 + - - +
154E MET* 1.3 82.8 - - + +
----------------------------------------------------------
Back to top of page
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
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
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