Contacts of the helix formed by residues 57 - 74 (chain B) in PDB entry 3ANX
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 GLU 57 (chain B).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39B GLU* 4.4 1.9 - - - +
43B PHE 3.2 0.6 + - - -
44B GLY* 3.3 9.0 - - - -
45B LYS* 2.6 53.7 + - - +
56B THR* 1.3 75.1 - - - +
58B ARG* 1.3 61.5 + - + +
59B ASP 2.7 15.7 + - - -
60B GLU* 3.2 17.4 + - - +
61B TYR* 4.5 1.4 + - - +
123B GLU* 3.9 32.1 - - + +
124B TRP* 3.5 18.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 58 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A THR* 2.1 72.1 + - - +
202A HIS* 3.1 9.1 + - - +
41B LYS 4.6 4.5 + - - -
42B GLY* 2.7 27.6 + - - -
43B PHE* 2.8 29.2 + - - +
44B GLY* 3.9 6.7 - - - +
56B THR* 4.6 0.4 - - + -
57B GLU* 1.3 76.2 - - + +
59B ASP* 1.3 58.7 + - - +
61B TYR* 3.6 20.8 - - - -
265B ARG* 5.0 1.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 59 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
201A THR* 4.6 14.4 - - + -
43B PHE* 4.4 7.9 - - + -
56B THR* 2.5 40.1 + - + +
57B GLU 2.7 6.7 + - - -
58B ARG* 1.3 77.0 - - - +
60B GLU* 1.3 62.5 + - - +
61B TYR* 3.1 9.2 - - - +
62B ILE* 3.2 19.1 + - + +
63B TYR* 3.8 3.3 + - - +
227B ILE* 3.1 18.9 - - - +
228B PRO* 3.5 8.0 - - + +
229B GLY* 3.0 27.8 + - - +
230B PHE* 5.7 1.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 60 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B SER* 3.5 17.0 - - - +
56B THR 2.9 20.9 + - - +
57B GLU* 3.2 12.1 + - - +
59B ASP* 1.3 75.7 - - - +
61B TYR* 1.3 74.0 + - - +
62B ILE 2.8 3.7 + - - -
63B TYR* 3.3 6.9 + - + +
64B HIS* 2.7 59.5 + - + +
90B ALA* 3.6 0.3 - - - +
93B ARG* 3.0 32.0 + - - -
123B GLU 3.9 9.7 - - - +
124B TRP* 3.4 22.2 - - + +
126B GLN* 5.4 0.2 - - - +
265B ARG* 5.9 0.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 61 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A LEU* 4.8 3.8 - - - +
201A THR* 5.3 4.9 - - + +
281A ASP* 2.6 38.5 + - + +
57B GLU 4.5 0.8 + - - -
58B ARG 3.6 24.7 - - - -
59B ASP* 3.1 1.1 - - - -
60B GLU* 1.3 92.4 - - - +
62B ILE* 1.4 84.5 + - + +
64B HIS* 3.9 1.2 - - - +
65B GLU* 2.9 39.3 + - + +
93B ARG* 4.2 10.2 + - - +
265B ARG* 3.0 54.5 - - + +
266B HIS* 3.4 19.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 62 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
200A LEU* 5.2 4.0 - - + -
201A THR* 5.1 4.9 - - + -
281A ASP* 3.7 2.7 - - - +
59B ASP* 3.6 12.8 - - + +
60B GLU 2.8 1.2 - - - -
61B TYR* 1.4 121.4 - - + +
63B TYR* 1.3 62.5 + - - +
65B GLU* 3.1 1.0 + - - +
66B THR* 2.3 37.6 + - - +
225B ASN* 4.1 4.7 - - - +
226B HIS 4.7 4.0 - - - +
227B ILE* 5.0 3.8 - - + -
228B PRO* 4.0 33.9 - - + -
266B HIS* 3.3 42.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 63 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54B GLN 5.6 4.3 - - - -
55B SER* 5.7 2.2 - - - +
59B ASP 3.8 1.2 + - - -
60B GLU* 3.3 11.4 + - - +
62B ILE* 1.3 81.1 - - - +
64B HIS* 1.3 87.1 + + - +
66B THR* 3.2 6.3 + - - -
67B LEU* 2.9 36.2 + - + +
88B GLU* 5.8 0.4 - - - -
158B ASP* 2.8 28.0 + - - -
194B GLN* 3.5 27.6 + - + +
227B ILE* 4.0 30.7 - - + +
230B PHE* 4.1 22.9 - + + -
234B PHE* 4.8 2.0 - + - -
236B PHE* 3.7 31.6 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 64 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B SER* 4.0 6.7 + - - -
60B GLU* 2.7 50.1 + - + +
63B TYR* 1.3 99.0 - + - +
65B GLU* 1.3 66.8 + - - +
67B LEU* 4.3 4.9 - - + -
68B VAL* 3.5 24.3 + - + +
88B GLU* 3.6 18.1 + - - -
90B ALA* 3.2 24.7 - - + +
91B THR* 3.4 25.6 + - - -
93B ARG* 4.1 5.4 - - - +
94B GLU* 3.7 21.4 - - + +
124B TRP* 3.9 9.2 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 65 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61B TYR* 2.9 28.9 + - + +
62B ILE 3.1 3.3 + - - +
64B HIS* 1.3 78.5 - - - +
66B THR* 1.3 62.7 + - - +
69B HIS* 3.4 21.8 + - + -
94B GLU* 4.0 15.9 - - - +
97B LYS* 5.0 2.3 + - - -
263B ALA 4.4 1.4 - - - +
264B LEU* 3.4 23.8 - - + +
265B ARG* 2.5 35.0 + - - +
266B HIS* 2.7 27.5 + - + +
267B LEU* 2.8 37.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 66 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62B ILE* 2.3 26.1 + - - +
63B TYR* 3.2 7.9 - - - -
65B GLU* 1.3 78.8 - - - +
67B LEU* 1.3 57.4 + - - +
70B PRO* 3.1 14.4 - - - +
223B TYR* 2.8 22.5 + - - -
225B ASN* 3.3 35.8 + - + +
227B ILE* 5.7 1.2 - - + +
236B PHE* 3.5 32.5 - - + -
266B HIS* 3.9 4.2 - - - -
267B LEU* 4.1 11.7 - - - -
275B MET* 3.9 12.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 67 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63B TYR* 2.9 25.4 + - + +
64B HIS* 3.9 6.7 - - + +
66B THR* 1.3 78.5 - - - +
68B VAL* 1.3 66.6 + - + +
71B ALA* 4.7 2.3 - - - +
91B THR* 3.9 20.4 - - + +
156B ILE* 3.9 21.7 - - + +
157B ILE 4.4 2.0 - - - +
158B ASP* 3.7 35.0 - - + +
192B GLY 4.8 2.9 - - - -
193B MET* 3.6 11.9 - - - +
194B GLN* 3.5 35.2 - - + +
223B TYR* 3.2 14.3 + - - -
236B PHE* 4.3 10.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 68 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64B HIS 3.5 15.5 - - - +
65B GLU 3.5 1.0 + - - -
66B THR 3.3 0.4 - - - -
67B LEU* 1.3 90.4 - - + +
69B HIS* 1.3 87.4 + - + +
70B PRO* 2.9 4.6 - - - +
71B ALA* 3.4 10.7 - - - +
72B MET* 3.2 24.6 + - + +
91B THR* 4.0 29.4 - - + +
94B GLU* 3.9 12.8 - - + -
95B VAL* 3.7 25.1 - - + -
156B ILE* 4.2 9.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 69 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B GLU* 3.4 21.4 + - - +
68B VAL* 1.3 74.4 - - - +
70B PRO* 1.3 60.3 - - + +
72B MET* 3.5 6.1 - - - -
73B LEU* 2.6 53.2 + - + +
94B GLU* 2.4 59.8 + - + -
98B HIS* 2.9 24.3 + + - -
262B LEU* 4.2 11.6 - - + +
264B LEU* 3.4 29.6 - - + +
267B LEU* 4.1 8.1 - - + -
272B LEU* 4.7 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 70 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65B GLU 3.8 3.1 - - - +
66B THR 3.1 25.8 - - - +
68B VAL 2.9 6.9 - - - +
69B HIS* 1.3 91.3 - - + +
71B ALA* 1.3 53.1 + - - +
73B LEU* 3.0 1.6 + - - +
74B THR* 2.6 45.0 + - - +
223B TYR* 3.1 28.7 - - + +
238B LEU* 3.9 11.2 - - + -
248B PHE* 6.5 0.2 - - + -
267B LEU* 4.4 3.1 - - + -
272B LEU* 4.3 18.4 - - + -
275B MET* 4.2 9.2 - - + -
276B PHE* 4.5 6.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 71 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67B LEU 4.7 0.9 - - - +
68B VAL 3.4 11.2 - - - +
70B PRO* 1.3 74.2 - - + +
72B MET* 1.3 63.2 + - - +
74B THR* 3.5 16.5 + - - -
75B HIS* 3.5 5.9 + - - +
154B VAL* 3.9 8.8 - - + +
156B ILE* 3.7 23.8 - - + -
190B VAL* 3.5 21.0 - - + +
192B GLY* 4.1 17.9 - - - +
238B LEU* 3.7 13.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 72 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68B VAL* 3.2 26.6 + - + +
69B HIS 3.8 2.7 - - - +
70B PRO 3.2 0.2 - - - -
71B ALA* 1.3 77.3 - - + +
73B LEU* 1.3 63.8 + - - +
75B HIS 3.1 20.3 + - - +
78B PRO* 3.7 11.0 - - + +
81B VAL* 4.0 12.1 - - + -
95B VAL* 4.0 15.9 - - + +
98B HIS* 3.0 55.2 - - + +
101B VAL* 3.9 22.4 - - + -
154B VAL* 3.9 32.1 - - - -
156B ILE* 5.4 0.9 - - + -
260B ARG* 3.1 10.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 73 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69B HIS* 2.6 41.7 + - + +
70B PRO* 4.0 1.6 - - + +
72B MET* 1.3 74.0 - - - +
74B THR* 1.4 59.2 + - - +
75B HIS 3.3 0.3 + - - +
98B HIS* 4.3 2.2 - - + -
253B ILE* 4.3 21.3 - - + +
256B ARG* 3.0 42.8 + - + +
257B ILE* 3.8 46.0 - - + +
260B ARG* 3.9 12.1 - - - +
262B LEU* 3.8 18.8 - - + -
264B LEU* 5.2 1.6 - - + -
267B LEU* 5.8 0.2 - - + -
272B LEU* 4.1 16.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 74 (chain B).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70B PRO 2.6 28.7 + - - +
71B ALA* 3.5 13.6 + - - +
72B MET 3.2 0.2 - - - -
73B LEU* 1.4 73.8 - - - +
75B HIS* 1.3 56.7 + - - +
76B PRO* 4.0 2.3 - - - +
190B VAL* 3.9 14.0 - - - +
238B LEU* 4.7 4.6 - - + +
243B PHE* 3.4 28.8 - - - -
245B PRO* 3.5 26.2 + - - +
248B PHE* 3.9 22.2 - - + -
253B ILE* 4.5 6.7 - - + -
256B ARG* 3.6 9.3 + - - +
272B LEU* 6.1 1.1 - - + -
----------------------------------------------------------
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