Contacts of the helix formed by residues 74 - 92 (chain A) in PDB entry 2ACX
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 ARG 74 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A PHE* 3.6 25.2 - - - +
71A CYS 3.0 5.0 + - - +
72A ALA 3.2 1.1 - - - -
73A THR* 1.3 96.2 - - - +
75A PRO* 1.3 71.7 - - + +
76A GLU* 3.1 30.8 + - - +
77A LEU* 3.0 44.8 + - + +
78A SER* 3.0 11.9 + - - -
152A TYR* 5.0 3.4 + - - -
156A ALA* 6.4 0.2 - - - +
157A PRO* 5.0 4.8 - - - +
160A ASP* 2.9 29.0 + - - +
35B GLN* 3.4 27.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PRO 75 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A THR 4.3 4.2 - - - +
74A ARG* 1.3 81.7 - - + +
76A GLU* 1.3 71.6 + - - +
78A SER* 3.5 8.8 + - - +
79A ARG* 3.0 29.0 + - - +
32B GLN* 6.1 4.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 76 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74A ARG* 3.1 39.2 + - - +
75A PRO* 1.3 87.5 - - - +
77A LEU* 1.3 76.3 + - + +
79A ARG* 3.3 30.9 + - - +
80A CYS* 3.4 9.6 + - - -
117A LEU 5.1 0.5 - - - +
152A TYR* 4.3 11.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 77 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A PHE* 3.8 27.4 - - + -
71A CYS* 3.7 24.4 - - + +
74A ARG* 3.0 37.3 + - + +
76A GLU* 1.3 88.1 - - + +
78A SER* 1.3 62.7 + - - +
80A CYS* 3.2 17.2 + - - +
81A VAL* 3.2 15.1 + - - +
152A TYR* 3.8 22.0 - - + +
153A LEU* 4.4 4.0 - - + +
157A PRO* 3.7 32.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 78 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A CYS 3.4 17.7 + - - -
72A ALA* 4.1 14.1 - - - -
74A ARG 3.0 11.6 + - - -
75A PRO* 3.7 9.1 + - - +
77A LEU* 1.3 77.0 - - - +
79A ARG* 1.3 64.2 + - - +
81A VAL* 3.9 7.4 - - - +
82A ALA* 3.1 22.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 79 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A PRO* 3.0 15.4 + - - +
76A GLU* 3.3 22.4 + - - +
77A LEU 3.3 0.4 - - - -
78A SER* 1.3 72.8 + - - +
80A CYS* 1.3 63.8 + - - +
82A ALA* 3.1 7.4 + - - +
83A PHE* 2.9 29.3 + - - +
108A ASN 3.9 20.2 + - - -
109A PHE* 3.6 20.0 - - + +
115A PRO* 3.6 42.4 + - - +
116A ASP 4.3 15.7 + - - -
117A LEU* 4.3 20.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 80 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A GLU 3.4 13.7 + - - -
77A LEU* 3.2 10.2 + - - +
79A ARG* 1.3 82.8 - - - +
81A VAL* 1.3 58.5 - - - +
83A PHE* 3.2 9.6 + - - +
84A LEU* 2.9 32.9 + - - +
117A LEU* 4.0 10.5 - - - -
118A ILE* 3.8 28.9 - - - -
149A THR* 3.9 15.3 - - + +
152A TYR* 4.1 20.0 - - - -
153A LEU* 4.2 13.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 81 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
67A PHE* 5.5 2.5 - - + -
68A ARG* 3.8 46.0 - - + +
71A CYS* 4.0 27.1 - - + -
77A LEU 3.2 11.7 + - - +
78A SER* 3.9 8.3 - - - +
79A ARG 3.3 0.2 - - - -
80A CYS* 1.3 77.4 - - + +
82A ALA* 1.3 66.6 + - - +
84A LEU* 3.3 10.3 + - + +
85A ASP* 2.9 27.6 + - - +
153A LEU* 5.3 7.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 82 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A SER 3.1 16.5 + - - +
79A ARG* 3.1 10.5 + - - +
81A VAL* 1.3 78.1 - - - +
83A PHE* 1.3 58.0 + - - +
85A ASP* 3.5 9.4 - - - +
86A GLY* 2.8 25.3 + - - -
109A PHE* 3.8 20.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 83 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
79A ARG 2.9 12.6 + - - +
80A CYS 3.3 8.5 - - - +
82A ALA* 1.3 77.3 - - - +
84A LEU* 1.3 64.4 + - + +
86A GLY* 2.9 17.0 + - - -
87A VAL* 2.9 37.9 + - + +
105A LEU* 4.5 8.1 - - + -
109A PHE* 3.8 36.5 - + + -
110A LEU* 5.0 4.3 - - + -
117A LEU* 3.7 34.1 - - + -
142A PHE* 4.4 13.9 - + + -
145A LEU* 3.9 32.3 - - + -
146A THR* 4.1 9.6 - - - -
149A THR* 3.8 15.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 84 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
80A CYS 2.9 18.9 + - - +
81A VAL* 3.7 9.0 - - + +
83A PHE* 1.3 76.1 - - + +
85A ASP* 1.3 66.3 + - - +
87A VAL* 3.2 5.4 + - + +
88A ALA* 3.0 24.7 + - - +
146A THR* 4.0 24.2 - - + +
149A THR* 3.9 18.4 - - + -
150A HIS* 3.7 37.5 - - + +
153A LEU* 3.9 27.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 85 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
64A ARG* 4.8 0.3 + - - -
68A ARG* 2.3 39.5 + - - -
81A VAL* 2.9 21.4 + - - +
82A ALA* 3.5 11.3 - - - +
84A LEU* 1.3 73.8 - - - +
86A GLY* 1.3 63.0 + - - +
88A ALA* 3.8 6.2 - - - +
89A GLU* 3.1 23.6 + - - +
535B PRO* 3.5 35.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 86 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A ALA 2.8 18.4 + - - -
83A PHE 2.9 6.4 + - - -
85A ASP* 1.3 73.3 - - - +
87A VAL* 1.3 58.0 + - - +
89A GLU* 3.5 9.9 - - - +
90A TYR* 3.0 26.0 + - - +
101A CYS* 5.1 1.7 - - - -
105A LEU* 3.7 24.8 - - - +
109A PHE* 5.5 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 87 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83A PHE* 2.9 44.1 + - + +
84A LEU* 3.2 6.5 + - - +
86A GLY* 1.3 75.7 - - - +
88A ALA* 1.3 55.5 + - - +
90A TYR* 2.9 8.6 + - + +
91A GLU* 2.8 56.9 + - + +
105A LEU* 4.3 4.0 - - + -
139A LYS 5.7 0.2 - - - +
142A PHE* 3.8 30.1 - - + +
146A THR* 3.9 18.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 88 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A LEU 3.0 16.6 + - - +
85A ASP* 3.8 7.9 - - - +
87A VAL* 1.3 77.5 - - - +
89A GLU* 1.3 61.8 + - - +
91A GLU* 3.3 19.6 + - - +
92A VAL* 3.4 18.5 + - - +
535B PRO* 5.9 6.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 89 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85A ASP 3.1 16.6 + - - +
86A GLY* 3.5 8.9 - - - +
88A ALA* 1.3 75.5 - - - +
90A TYR* 1.3 59.4 + - - +
92A VAL* 3.3 20.0 + - + +
93A THR* 2.4 28.2 + - - +
101A CYS* 5.1 10.7 - - - -
535B PRO* 6.1 1.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 90 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
86A GLY 3.0 14.4 + - - +
87A VAL* 2.9 12.6 + - + +
89A GLU* 1.3 76.5 - - - +
91A GLU* 1.3 68.3 + - + +
93A THR* 3.1 23.0 + - - -
98A ARG* 3.2 54.4 - - + +
101A CYS* 3.8 10.7 - - - -
102A GLY* 3.8 19.7 - - - -
105A LEU* 4.2 4.3 - - + -
133A LEU* 4.4 3.8 - - + -
137A PRO* 2.9 15.1 + - - +
138A CYS 2.8 27.9 + - - -
139A LYS* 3.9 17.5 - - - -
141A LEU* 3.5 10.0 - - - +
142A PHE* 3.7 34.1 - + - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 91 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
87A VAL* 2.8 31.1 + - - +
88A ALA* 3.6 15.5 - - - +
89A GLU 3.2 0.4 - - - -
90A TYR* 1.3 82.4 - - + +
92A VAL* 1.3 60.2 + - + +
93A THR 3.7 1.0 + - - +
139A LYS* 3.4 59.2 + - + +
140A ASP* 5.4 1.4 - - - +
142A PHE* 5.7 2.3 - - - +
143A GLN* 5.8 5.0 - - - +
454A LYS* 3.6 40.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 92 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
88A ALA 3.6 13.0 - - - +
89A GLU* 3.4 18.6 - - + +
90A TYR 3.2 0.2 - - - -
91A GLU* 1.3 81.2 - - + +
93A THR* 1.3 58.8 + - - +
94A PRO* 3.7 0.9 - - - +
452A ASN* 5.1 1.6 - - - +
454A LYS* 4.0 26.5 - - + +
455A ARG* 3.0 35.6 + - + -
458A ALA* 4.3 8.3 - - + -
460A MET* 3.9 33.6 - - + +
----------------------------------------------------------
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