Contacts of the helix formed by residues 59 - 75 (chain A) 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 ASP 59 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A PHE* 4.3 8.3 - - + -
55A SER* 5.1 1.2 + - - -
56A THR* 3.0 28.3 + - - +
57A GLU 3.2 0.6 + - - -
58A ARG* 1.3 79.9 - - - +
60A GLU* 1.3 74.5 + - - +
61A TYR* 3.0 8.1 - - - -
62A ILE* 3.0 25.1 + - + +
63A TYR* 3.6 3.1 + - - +
227A ILE* 3.4 12.8 - - - +
228A PRO* 2.9 24.0 - - + +
229A GLY* 2.8 33.2 + - - +
230A PHE* 5.4 1.4 - - - -
201B THR* 5.8 0.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 60 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A SER* 3.7 11.0 - - - +
56A THR 3.1 12.1 + - - +
57A GLU* 3.3 22.2 - - - +
59A ASP* 1.3 81.2 + - - +
61A TYR* 1.3 62.2 + - + +
63A TYR* 3.1 6.0 + - - +
64A HIS* 2.6 74.7 + - + +
93A ARG* 2.8 46.6 + - - -
123A GLU* 3.7 11.1 - - - +
124A TRP* 4.1 12.4 - - + +
126A GLN* 5.0 0.9 - - - +
265A ARG* 5.6 1.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 61 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A GLU 5.6 0.2 - - - -
58A ARG 3.4 27.6 - - - -
59A ASP* 3.0 2.1 - - - -
60A GLU* 1.3 89.1 - - + +
62A ILE* 1.4 85.5 + - + +
64A HIS* 3.7 0.7 - - - +
65A GLU* 2.8 48.3 + - - +
93A ARG* 4.3 11.7 - - - +
94A GLU* 5.3 0.7 - - - +
265A ARG* 3.4 61.7 - - + +
266A HIS* 3.5 15.7 - - + -
200B LEU* 5.1 4.7 - - - +
281B ASP* 2.6 43.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 62 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A ASP* 3.0 12.9 + - + +
61A TYR* 1.4 114.8 - - + +
63A TYR* 1.3 60.8 + - - +
65A GLU* 3.8 0.5 - - - +
66A THR* 2.7 33.1 + - - -
225A ASN* 3.6 10.5 - - - +
226A HIS 4.5 7.6 - - - +
227A ILE* 4.4 9.6 - - + -
228A PRO* 3.6 32.5 - - + -
266A HIS* 3.3 43.5 - - + +
281B ASP* 4.4 3.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 63 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A GLN 5.9 2.0 - - - -
55A SER* 5.3 4.0 - - - +
59A ASP* 3.6 2.6 + - - +
60A GLU* 3.1 11.2 + - - +
62A ILE* 1.3 81.3 - - - +
64A HIS* 1.3 82.3 + + - +
66A THR* 3.7 2.6 - - - -
67A LEU* 3.0 40.4 + - + +
88A GLU* 6.1 0.4 - - - -
158A ASP* 2.3 34.0 + - - -
159A LEU 5.2 0.2 + - - -
194A GLN* 3.3 24.2 - - + +
227A ILE* 4.1 25.0 - - + +
230A PHE* 4.0 29.6 - + + -
234A PHE* 4.8 6.3 - + - -
236A PHE* 4.0 24.2 - + - -
315A MTA 6.0 0.5 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 64 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A SER* 3.7 13.0 + - - -
60A GLU* 2.6 59.8 + - + +
61A TYR 4.3 1.3 - - - +
63A TYR* 1.3 90.1 - + - +
65A GLU* 1.3 57.8 + - - +
67A LEU* 3.6 3.5 + - + -
68A VAL* 2.7 34.5 + - + +
88A GLU* 4.1 13.7 + - - -
90A ALA* 3.2 32.1 - - + +
91A THR* 3.7 21.4 + - - +
93A ARG* 4.6 2.0 - - - +
94A GLU* 3.9 19.7 - - + +
124A TRP* 4.3 5.8 - + - -
158A ASP* 4.9 1.6 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 65 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A TYR* 2.8 28.6 + - - +
62A ILE 3.8 2.5 - - - +
64A HIS* 1.3 71.3 - - - +
66A THR* 1.4 64.7 + - - +
68A VAL 3.1 0.9 + - - -
69A HIS* 3.0 45.6 + - + +
70A PRO* 3.4 0.2 - - - +
94A GLU* 3.7 12.2 - - - +
97A LYS* 4.4 8.0 + - - -
264A LEU* 3.7 12.2 - - - +
265A ARG* 3.0 28.0 + - - +
266A HIS* 2.9 13.4 + - + +
267A LEU* 2.7 51.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 66 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A ILE 2.7 19.8 + - - -
63A TYR* 3.7 4.0 - - - -
65A GLU* 1.4 78.0 - - - +
67A LEU* 1.3 55.5 + - - -
70A PRO* 3.2 10.4 - - - +
223A TYR* 3.0 25.0 + - + -
225A ASN* 2.6 30.5 + - + +
227A ILE* 5.1 0.2 - - - -
236A PHE* 3.8 28.4 - - + -
266A HIS* 3.9 4.9 - - - -
267A LEU* 3.7 9.5 - - - +
275A MET* 3.6 25.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 67 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
63A TYR* 3.0 27.0 + - + +
64A HIS* 4.1 4.3 - - + +
65A GLU 3.1 0.4 - - - -
66A THR* 1.3 79.5 - - - +
68A VAL* 1.3 65.4 + - + +
70A PRO* 3.8 1.6 - - - +
71A ALA* 4.8 2.4 - - - +
91A THR* 3.9 19.5 - - + +
156A ILE* 3.8 28.3 - - + +
157A ILE 3.9 4.7 - - - +
158A ASP* 3.5 33.9 - - + +
192A GLY* 4.9 3.6 - - - -
193A MET* 3.9 6.5 - - - -
194A GLN* 3.5 33.7 - - + +
223A TYR* 4.1 8.9 + - - -
236A PHE* 4.2 9.6 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 68 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A HIS* 2.7 22.0 - - - +
65A GLU 3.1 1.0 + - - +
67A LEU* 1.3 79.4 - - + +
69A HIS* 1.3 60.7 - - + +
70A PRO* 3.2 2.2 - - - -
71A ALA* 2.8 30.0 + - - +
72A MET* 3.1 23.7 + - + +
91A THR* 3.9 26.9 - - + -
94A GLU* 4.1 17.9 - - + +
95A VAL* 3.4 38.1 - - + +
156A ILE* 4.0 6.2 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 69 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A GLU* 3.0 40.9 + - + +
68A VAL* 1.3 77.2 - - + +
70A PRO* 1.4 63.3 - - + +
71A ALA 3.1 0.2 - - - -
72A MET* 4.3 5.4 - - - +
73A LEU* 2.7 47.5 + - + +
94A GLU* 2.9 46.7 + - + +
97A LYS* 4.3 3.1 - - + -
98A HIS* 2.9 30.9 + + - -
262A LEU* 4.1 10.9 - - + +
264A LEU* 3.7 22.2 - - + +
267A LEU* 4.0 9.6 - - + -
272A LEU* 4.6 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 70 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
65A GLU 3.4 5.2 - - - +
66A THR* 3.2 28.5 - - - +
67A LEU 3.8 1.3 - - - -
68A VAL 3.2 7.2 - - - +
69A HIS* 1.4 89.7 - - + +
71A ALA* 1.3 61.0 + - - +
73A LEU* 4.1 1.0 - - + +
74A THR* 3.1 27.2 + - - +
223A TYR* 3.7 18.2 - - + +
238A LEU* 4.0 8.7 - - + +
253A ILE* 5.8 0.2 - - - +
267A LEU* 4.7 2.2 - - + -
272A LEU* 4.1 20.6 - - + -
275A MET* 3.8 20.2 - - + -
276A PHE* 4.6 11.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 71 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A LEU 4.8 1.1 + - - +
68A VAL 2.8 10.7 + - - +
70A PRO* 1.3 79.8 - - - +
72A MET* 1.3 64.2 + - - +
74A THR* 3.2 9.8 + - - +
75A HIS* 3.3 10.0 + - - +
154A VAL* 3.7 11.4 - - + -
156A ILE* 3.6 22.0 - - + -
190A VAL* 3.5 20.1 - - + +
192A GLY* 4.2 6.3 - - - -
238A LEU* 3.6 22.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 72 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
68A VAL* 3.1 26.4 + - + +
69A HIS* 4.2 1.1 - - - +
71A ALA* 1.3 71.6 - - - +
73A LEU* 1.3 68.4 + - - +
74A THR 3.0 0.7 + - - -
75A HIS* 3.2 12.9 + - - +
78A PRO* 3.8 15.7 - - + +
81A VAL* 3.9 20.0 - - + -
95A VAL* 3.7 19.1 - - + -
98A HIS* 3.1 43.5 - - + +
101A VAL* 3.6 30.7 - - + -
154A VAL* 4.1 17.9 - - - -
156A ILE* 5.1 1.6 - - + -
260A ARG* 2.8 17.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 73 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A HIS* 2.7 34.7 + - + +
70A PRO 4.2 1.8 - - - +
72A MET* 1.3 74.5 - - - +
74A THR* 1.3 56.4 + - - +
75A HIS 3.5 1.0 + - - +
98A HIS* 4.2 2.0 - - + -
253A ILE* 4.1 17.5 - - + +
256A ARG* 2.8 59.8 + - + -
257A ILE* 3.6 29.8 - - + +
260A ARG* 4.0 11.2 - - - +
262A LEU* 3.9 27.1 - - + -
264A LEU* 5.1 2.7 - - + -
267A LEU* 6.0 0.2 - - + -
272A LEU* 3.6 22.7 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 74 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A PRO 3.1 20.0 + - - +
71A ALA 3.2 7.6 + - - +
72A MET 3.0 0.8 - - - -
73A LEU* 1.3 78.0 - - - +
75A HIS* 1.3 57.7 + - - +
76A PRO* 4.0 1.9 - - - +
190A VAL* 4.0 15.7 - - + -
238A LEU* 4.0 7.6 - - + -
243A PHE* 3.7 17.0 - - + -
245A PRO* 2.7 46.3 + - + +
247A ALA 5.6 0.3 + - - -
248A PHE* 4.1 12.6 - - - -
253A ILE* 4.4 6.0 - - - +
256A ARG* 3.8 10.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 75 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A ALA 3.3 10.1 + - - +
72A MET 3.2 6.2 + - - +
73A LEU 3.9 0.2 - - - +
74A THR* 1.3 79.7 - - - +
76A PRO* 1.4 74.6 - - + +
77A GLU* 3.0 34.3 + - + -
78A PRO* 2.9 29.4 - - + +
153A ASP* 3.4 44.3 + - + +
154A VAL* 4.1 9.6 - - + -
187A PRO 5.4 0.4 + - - -
188A GLY* 3.1 31.6 + - - -
189A GLY* 4.1 0.9 - - - -
190A VAL* 4.5 3.8 - - + -
243A PHE* 5.0 2.0 - - - -
256A ARG* 4.3 1.6 - - - -
260A ARG* 3.0 19.1 + - - -
----------------------------------------------------------
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