Contacts of the helix formed by residues 91 - 105 (chain E) in PDB entry 2ZHX
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 PRO 91 (chain E).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70E TYR* 3.5 47.8 - - + +
75E HIS* 4.6 7.9 - - - +
83E VAL* 3.7 22.4 - - + -
87E VAL* 4.6 5.2 - - + -
89E PRO 4.5 1.3 - - - +
90E TRP* 1.3 87.8 - - + +
92E ARG* 1.3 61.8 + - - +
94E LEU* 2.8 28.2 + - + +
95E ALA 2.9 9.2 + - - -
19F GLN* 3.4 17.7 - - + +
20F GLU* 4.0 7.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 92 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89E PRO* 5.0 1.6 - - - +
90E TRP* 2.7 43.1 + - - +
91E PRO* 1.3 70.5 - - - +
93E SER* 1.3 56.2 + - - +
95E ALA* 2.9 38.7 + - - +
96E ASN* 2.8 34.3 + - - +
194E PRO* 3.6 21.8 - - + -
19F GLN* 3.9 3.3 + - - +
20F GLU* 3.3 5.0 + - - +
45F THR* 3.9 16.4 + - + +
46F ALA 5.1 0.2 - - - -
47F TYR* 3.1 63.4 - - + +
54F ASN* 3.0 29.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 93 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70E TYR* 5.1 5.2 - - - -
81E PHE* 4.7 10.5 - - - -
92E ARG* 1.3 71.6 - - - +
94E LEU* 1.3 57.4 + - - +
96E ASN* 3.4 2.4 + - - +
97E ILE* 2.9 34.1 + - - +
191E HIS* 3.2 29.2 - - - -
192E PRO* 3.9 15.7 - - - +
193E SER* 3.6 6.1 - - - +
194E PRO* 4.2 1.0 - - - +
20F GLU* 2.5 46.2 + - - -
22F ILE* 4.0 1.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 94 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70E TYR* 4.3 1.3 + - - +
81E PHE 3.4 26.9 - - - +
83E VAL* 4.0 13.9 - - + -
90E TRP* 4.6 6.3 - - + -
91E PRO* 2.8 24.1 + - + +
93E SER* 1.3 72.0 - - - +
95E ALA* 1.3 66.4 - - - +
97E ILE* 3.5 18.4 - - + +
98E PHE* 3.0 50.1 + - + +
113E GLY* 3.5 33.4 - - - +
115E LEU* 4.1 17.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 95 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90E TRP* 3.7 17.8 - - - +
91E PRO 2.9 5.5 + - - -
92E ARG* 2.9 44.0 - - - +
94E LEU* 1.3 78.3 - - - +
96E ASN* 1.3 66.0 + - - +
98E PHE* 3.1 5.7 + - - +
99E ASP* 3.0 25.5 + - - +
109E LEU* 5.2 0.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 96 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92E ARG* 2.8 13.3 + - - +
93E SER 3.7 0.9 - - - +
95E ALA* 1.3 78.7 - - - +
97E ILE* 1.3 64.0 + - - +
99E ASP* 2.8 22.7 + - - +
100E GLU 3.0 10.9 + - - -
192E PRO* 3.0 30.4 + - + +
194E PRO* 3.5 29.3 - - - +
197E ALA* 3.5 11.1 - - + +
201E PHE* 3.9 3.8 - - + -
202E PHE* 3.5 29.6 - - + -
54F ASN* 5.2 4.5 + - - +
73F GLN* 5.5 0.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 97 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81E PHE* 3.7 29.4 - - + -
93E SER 2.9 21.9 + - - +
94E LEU* 3.5 18.8 - - + +
96E ASN* 1.3 74.5 - - - +
98E PHE* 1.3 57.4 + - + +
100E GLU* 3.3 3.8 + - - +
101E TYR* 2.8 31.6 + - - +
115E LEU* 6.1 0.4 - - + -
118E TRP* 4.4 14.1 - - + -
168E TRP* 3.4 35.7 - - + -
192E PRO* 3.8 13.0 - - + -
201E PHE* 3.8 9.1 - - + -
207E PHE* 3.7 24.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 98 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90E TRP* 4.1 19.5 - + - -
94E LEU* 3.0 25.6 + - + -
95E ALA* 3.4 9.6 - - - +
97E ILE* 1.3 78.8 - - + +
99E ASP* 1.3 61.2 + - - +
101E TYR* 3.2 14.8 - + + +
102E THR* 2.9 29.1 + - - +
109E LEU* 3.8 14.8 - - + -
110E PRO* 3.4 35.0 - - + -
112E ASN 3.4 24.5 - - - -
113E GLY* 3.9 9.4 - - - -
115E LEU* 3.6 31.6 - - + -
118E TRP* 4.5 10.3 - + - -
226E LEU* 4.4 9.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 99 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95E ALA* 3.0 15.3 + - - +
96E ASN* 2.8 27.0 + - - +
98E PHE* 1.3 67.7 - - - +
100E GLU* 1.3 66.9 + - - +
102E THR* 2.8 23.7 + - - -
103E ALA* 2.9 12.2 + - - +
109E LEU* 4.2 14.6 - - - +
202E PHE* 4.0 12.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 100 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
96E ASN 3.0 2.8 + - - -
97E ILE 3.6 2.9 - - - +
99E ASP* 1.3 77.6 - - - +
101E TYR* 1.3 52.8 + - - +
103E ALA* 3.3 5.3 + - - +
104E ASP* 2.7 37.2 + - - +
201E PHE* 3.6 36.8 - - + +
202E PHE* 3.5 12.4 - - + +
203E GLY* 2.7 28.5 + - - -
205E ARG* 2.9 50.6 + - - -
206E PRO* 3.8 20.0 - - + -
207E PHE* 4.3 0.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 101 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97E ILE 2.8 10.0 + - - +
98E PHE* 3.2 20.2 - + + +
100E GLU* 1.3 76.4 - - - +
102E THR* 1.3 60.9 + - + +
105E LEU* 2.7 53.7 + - + +
107E TYR* 3.4 21.6 - + + +
108E PRO 3.7 19.7 + - - -
110E PRO* 3.9 10.3 - - + -
118E TRP* 4.1 20.2 - + - -
207E PHE* 3.1 26.7 - + + -
224E TRP* 4.5 0.7 - - + -
225E ARG* 3.3 35.2 - - - -
226E LEU* 3.4 26.8 + - + +
227E PRO* 3.8 5.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 102 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
98E PHE 2.9 12.8 + - - +
99E ASP* 2.8 24.6 + - - -
101E TYR* 1.3 84.5 - - + +
103E ALA* 1.3 56.2 + - - +
105E LEU 2.5 21.9 - - - +
106E GLY* 4.4 1.2 - - - +
107E TYR 3.3 22.6 - - - +
108E PRO* 3.6 2.9 - - + -
109E LEU* 3.5 35.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 103 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
99E ASP 2.9 12.0 + - - +
100E GLU* 3.5 13.5 - - - +
102E THR* 1.3 77.5 + - - +
104E ASP* 1.3 64.0 + - - +
105E LEU 4.2 0.9 - - - +
205E ARG* 3.8 29.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 104 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
100E GLU* 2.7 23.5 + - - +
101E TYR 3.8 2.9 - - - +
103E ALA* 1.3 75.0 - - - +
105E LEU* 1.3 63.5 + - - +
205E ARG* 3.1 33.1 - - - +
206E PRO 3.5 0.3 - - - -
207E PHE* 2.9 24.1 + - + +
208E SER* 2.5 50.3 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 105 (chain E).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
101E TYR* 2.7 31.4 + - + +
102E THR 2.5 30.1 - - - +
103E ALA 4.1 1.1 - - - +
104E ASP* 1.3 85.3 - - + +
106E GLY* 1.3 59.2 + - - +
107E TYR* 2.9 43.9 + - + -
207E PHE* 4.0 21.8 - - + -
208E SER* 4.1 13.7 - - - +
211E ASN* 5.6 1.6 - - - +
224E TRP* 3.7 29.8 - - + -
----------------------------------------------------------
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