Contacts of the helix formed by residues 91 - 105 (chain G) 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 G).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70G TYR* 3.6 42.2 - - + +
75G HIS* 4.5 6.7 - - - +
83G VAL* 3.8 20.6 - - + -
87G VAL* 4.7 3.6 - - + -
90G TRP* 1.4 88.2 - - + +
92G ARG* 1.3 66.3 + - - +
93G SER 3.3 0.2 - - - -
94G LEU* 3.0 19.8 + - + +
95G ALA 3.1 8.7 + - - -
19H GLN* 3.3 25.3 - - + +
20H GLU* 3.5 13.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 92 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89G PRO* 4.8 2.0 - - - +
90G TRP* 2.4 46.2 + - - +
91G PRO* 1.3 67.7 - - - +
93G SER* 1.3 67.3 + - - +
95G ALA* 2.8 34.2 + - - +
96G ASN* 2.9 20.0 + - - +
194G PRO* 3.7 22.2 - - + -
19H GLN* 3.9 3.2 + - - +
20H GLU* 3.4 4.9 + - - +
45H THR* 4.2 12.7 + - + +
46H ALA 5.3 0.2 - - - -
47H TYR* 3.4 57.0 - - + +
49H GLU* 5.6 0.4 + - - -
54H ASN* 3.1 27.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with SER 93 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70G TYR* 5.3 3.1 - - - -
81G PHE* 4.9 10.1 - - - -
92G ARG* 1.3 72.3 - - - +
94G LEU* 1.3 50.6 + - - +
96G ASN* 3.2 5.2 + - - +
97G ILE* 2.7 36.7 + - - +
191G HIS* 3.3 30.7 - - - -
192G PRO* 3.8 15.9 - - - +
193G SER* 3.5 7.4 - - - +
194G PRO* 4.1 1.0 - - - +
20H GLU* 2.8 40.3 + - - -
22H ILE* 4.0 1.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 94 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70G TYR* 4.2 6.3 + - - +
81G PHE* 3.4 30.5 - - + +
83G VAL* 4.0 12.6 - - + -
90G TRP* 4.7 5.8 - - + -
91G PRO* 3.0 16.7 + - + +
93G SER* 1.3 75.0 - - - +
95G ALA* 1.3 55.8 + - - +
97G ILE* 3.0 23.3 + - + +
98G PHE* 2.8 61.4 + - + -
113G GLY* 3.7 31.4 - - - +
115G LEU* 4.0 11.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 95 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90G TRP* 3.8 17.9 - - - +
91G PRO 3.1 4.8 + - - -
92G ARG* 2.8 43.4 + - - +
94G LEU* 1.3 75.9 - - - +
96G ASN* 1.3 64.6 + - - +
98G PHE* 3.1 8.3 + - - +
99G ASP* 2.9 27.5 + - - +
109G LEU* 5.4 0.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 96 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
92G ARG* 2.9 14.4 + - - +
93G SER 3.3 2.7 - - - +
95G ALA* 1.3 73.9 - - - +
97G ILE* 1.3 66.1 + - - +
99G ASP* 2.9 21.3 + - - +
100G GLU 3.0 11.6 + - - -
192G PRO* 2.8 31.1 + - + +
194G PRO* 3.4 30.1 - - - +
197G ALA* 3.7 4.8 - - + +
201G PHE* 3.8 4.9 - - + -
202G PHE* 3.2 32.3 - - + -
54H ASN* 5.3 2.1 + - - +
73H GLN* 5.4 0.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 97 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81G PHE* 3.7 31.0 - - + -
93G SER 2.7 23.7 + - - +
94G LEU* 3.0 19.0 + - + +
96G ASN* 1.3 72.8 - - - +
98G PHE* 1.3 55.6 + - + +
100G GLU* 3.3 3.6 + - - +
101G TYR* 2.8 33.6 + - - +
118G TRP* 4.5 13.5 - - + -
168G TRP* 3.3 35.2 - - + -
192G PRO* 3.6 18.2 - - + -
201G PHE* 3.9 8.0 - - + -
207G PHE* 3.6 25.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 98 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90G TRP* 4.2 20.2 - + - -
94G LEU* 2.8 33.6 + - + -
95G ALA* 3.5 8.3 - - - +
97G ILE* 1.3 77.2 - - + +
99G ASP* 1.3 58.5 + - - +
101G TYR* 3.0 15.0 - + + +
102G THR* 2.8 30.1 + - - +
109G LEU* 3.9 8.7 - - + -
110G PRO* 3.4 37.7 - - + -
112G ASN 3.3 27.1 - - - -
113G GLY* 3.7 10.5 - - - -
115G LEU* 3.6 32.5 - - + -
118G TRP* 4.3 12.6 - + - -
226G LEU* 4.5 7.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 99 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
95G ALA* 2.9 17.7 + - - +
96G ASN* 2.9 19.7 + - - +
98G PHE* 1.3 73.4 - - - +
100G GLU* 1.3 61.6 + - - +
102G THR* 3.0 11.5 + - - -
103G ALA* 2.9 29.3 + - - +
109G LEU* 4.2 15.6 - - - +
202G PHE* 4.0 14.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 100 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C THR* 5.2 0.2 - - - +
96G ASN 3.0 5.4 + - - +
97G ILE 3.7 3.6 - - - +
99G ASP* 1.3 76.9 - - - +
101G TYR* 1.3 56.9 + - - +
103G ALA* 4.1 3.1 - - - +
104G ASP* 2.7 34.1 + - - +
201G PHE* 3.6 36.1 - - + +
202G PHE* 3.3 13.3 - - + +
203G GLY* 2.8 26.7 + - - -
205G ARG* 2.7 50.6 + - - -
206G PRO* 3.8 22.9 - - + -
207G PHE* 4.1 1.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 101 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97G ILE 2.8 15.3 + - - +
98G PHE* 3.0 20.2 - + + +
100G GLU* 1.3 79.2 - - - +
102G THR* 1.3 80.9 + - + +
104G ASP* 3.8 1.2 - - - +
105G LEU* 3.0 37.0 + - + +
107G TYR* 3.3 29.3 - + + +
108G PRO 3.5 20.4 - - - -
110G PRO* 4.0 10.3 - - + -
118G TRP* 3.9 20.9 - + - -
207G PHE* 3.4 20.2 - + + -
224G TRP* 4.4 0.9 - - + -
225G ARG* 3.2 39.3 - - - -
226G LEU* 3.9 15.0 - - + -
227G PRO* 3.5 12.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 102 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C SER* 3.8 5.5 + - - -
98G PHE 2.8 20.8 + - - +
99G ASP* 3.0 17.3 + - - -
101G TYR* 1.3 78.9 - - + +
103G ALA* 1.3 58.3 + - - +
105G LEU 2.4 21.1 - - - +
106G GLY* 4.5 1.4 - - - -
107G TYR 3.2 26.3 - - - +
108G PRO* 3.5 2.9 - - + -
109G LEU* 3.4 34.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 103 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C SER* 2.6 36.1 + - - +
48C ASN* 4.3 1.7 - - - +
99G ASP 2.9 16.4 + - - +
100G GLU* 3.6 11.4 - - - +
102G THR* 1.3 78.1 + - - +
104G ASP* 1.3 62.0 + - - +
205G ARG* 3.5 27.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 104 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
48C ASN* 5.0 7.8 + - - -
100G GLU 2.7 21.6 + - - +
101G TYR 3.8 2.0 - - - +
103G ALA* 1.3 75.6 - - - +
105G LEU* 1.3 61.1 + - - +
205G ARG* 3.3 36.9 - - - +
207G PHE* 3.0 22.9 + - + +
208G SER* 2.7 52.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 105 (chain G).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C SER* 4.5 1.4 + - - -
101G TYR* 3.0 19.8 + - + +
102G THR 2.4 31.0 - - - +
103G ALA 4.0 1.2 - - - +
104G ASP* 1.3 98.5 - - + +
106G GLY* 1.3 59.7 + - - +
107G TYR* 3.1 45.2 + - + +
207G PHE* 4.1 8.7 - - + -
208G SER* 4.0 18.8 - - - +
211G ASN* 5.6 2.0 - - - +
223G ASP 4.9 0.2 - - - +
224G TRP* 3.8 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