Contacts of the strand formed by residues 66 - 83 (chain A) in PDB entry 2XAC
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 LEU 66 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A CYS* 3.2 22.8 - - + +
62A PRO* 4.0 25.8 - - + -
63A ASP* 3.1 23.7 + - + +
64A ASP 3.5 3.2 - - - +
65A GLY* 1.3 76.1 - - - +
67A GLU* 1.3 60.0 + - - +
103A CYS* 4.6 9.0 - - + +
104A ARG* 3.2 5.6 - - - +
105A PRO* 3.5 33.7 - - + -
106A LYS* 4.4 1.7 - - - -
150C GLU* 5.6 0.2 - - - +
199C TYR* 3.8 31.6 - - + +
202C ILE* 4.4 15.0 - - + +
224C ARG* 4.2 15.3 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 67 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A CYS* 3.3 4.7 - - - -
65A GLY 3.7 0.2 + - - -
66A LEU* 1.3 74.3 - - - +
68A CYS* 1.3 57.6 + - - +
69A VAL* 3.2 29.4 + - + +
104A ARG* 2.5 45.3 + - - +
105A PRO 4.4 4.7 - - - +
106A LYS* 3.4 42.4 - - + +
107A LYS* 5.0 12.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 68 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A CYS* 2.0 57.0 - - + -
57A CYS* 3.7 30.3 - - - +
58A GLY 3.1 21.1 - - - +
59A GLY 4.8 8.3 - - - +
60A CYS* 5.1 0.4 - - - -
61A CYS* 3.2 9.8 - - - +
67A GLU* 1.3 69.3 - - - +
69A VAL* 1.3 62.5 + - - +
102A GLU 3.7 0.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 69 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57A CYS* 3.6 5.1 - - - -
67A GLU* 3.5 31.6 - - + +
68A CYS* 1.3 78.8 - - - +
70A PRO* 1.4 72.6 - - + +
71A THR* 5.7 0.7 - - + -
101A CYS* 3.3 1.7 - - - -
102A GLU* 2.6 55.1 + - + +
104A ARG* 3.7 38.6 - - + +
----------------------------------------------------------
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
----------------------------------------------------------
57A CYS* 3.4 13.5 - - + -
68A CYS 4.9 0.2 - - - +
69A VAL* 1.4 94.0 - - + +
71A THR* 1.3 62.3 + - - +
72A GLY 3.5 3.8 - - - +
73A GLN* 4.5 16.3 + - + +
98A HIS* 3.4 46.2 - - + +
100A GLN 3.3 9.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 71 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
69A VAL* 3.8 1.3 + - + +
70A PRO* 1.3 75.4 - - - +
72A GLY* 1.3 56.0 + - - +
73A GLN* 5.9 0.7 - - - -
100A GLN* 2.7 29.6 + - - +
101A CYS 3.7 7.3 + - - -
102A GLU* 3.4 44.9 + - + +
104A ARG* 5.3 7.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 72 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A PRO* 3.5 0.8 - - - +
71A THR* 1.3 81.5 + - - +
73A GLN* 1.3 60.2 + - - +
98A HIS* 3.5 2.6 - - - +
99A SER* 2.7 34.1 + - - -
100A GLN* 2.9 27.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 73 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
70A PRO* 4.5 16.7 + - + +
71A THR 5.9 0.7 - - - -
72A GLY* 1.3 76.1 - - - +
74A HIS* 1.3 69.8 + - - +
75A GLN* 4.8 3.8 - - - +
96A GLU* 2.9 36.7 + - - +
97A GLU 3.2 13.5 - - - +
98A HIS* 3.7 17.8 + - + -
99A SER* 3.5 6.2 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 74 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A GLN* 5.1 2.5 - - - -
73A GLN* 1.3 83.0 - - - +
75A GLN* 1.3 71.1 + - - +
76A VAL* 4.1 4.5 - - + +
96A GLU 3.8 0.2 - - - -
97A GLU* 2.7 77.9 + - + +
98A HIS 4.6 0.4 - - - -
99A SER* 3.9 24.1 + - - -
11B GLN 3.8 36.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 75 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
73A GLN* 4.8 2.6 - - - +
74A HIS* 1.3 76.7 - - - +
76A VAL* 1.3 61.5 + - - +
94A SER* 4.1 11.5 + - - -
95A LEU* 3.0 33.8 - - - +
96A GLU* 3.0 30.4 - - - +
11B GLN* 3.3 48.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 76 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A VAL* 4.7 1.8 - - + -
74A HIS* 4.5 5.4 - - + +
75A GLN* 1.3 70.5 - - - +
77A ARG* 1.3 62.6 + - - +
78A MET* 3.6 24.9 + - + -
93A MET 3.1 13.5 - - - +
94A SER* 3.1 12.2 - - - -
95A LEU* 3.1 27.3 + - + +
97A GLU* 3.3 48.9 - - + +
11B GLN 5.5 3.4 - - - +
13B LYS 5.3 3.1 - - - +
15B VAL* 4.1 17.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 77 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A VAL* 1.3 72.3 - - - +
78A MET* 1.3 59.6 + - - +
92A GLU* 3.4 36.2 + - + +
93A MET 3.4 4.5 - - - -
94A SER* 3.4 16.2 - - - +
11B GLN* 3.3 48.5 + - - +
12B ARG 4.4 9.0 + - - -
13B LYS* 3.9 4.3 + - - +
14B VAL* 3.2 36.6 - - + +
15B VAL* 2.9 25.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 78 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
52A VAL* 3.7 37.5 - - + -
53A THR 4.4 13.7 - - - +
54A VAL* 5.3 1.6 - - + -
76A VAL* 4.0 32.1 - - + +
77A ARG* 1.3 74.0 - - - +
79A GLN* 1.3 60.5 + - - +
80A ILE* 3.7 5.0 - - + +
92A GLU* 4.5 0.4 - - - -
93A MET* 2.7 53.4 + - + +
95A LEU* 4.3 7.9 - - + -
97A GLU* 5.7 1.8 - - - +
14B VAL* 4.2 2.0 - - - -
15B VAL* 3.6 21.8 - - + +
20B VAL* 3.6 23.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 79 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A MET* 1.3 72.8 - - - +
80A ILE* 1.3 62.1 + - - +
90A LEU* 4.2 25.7 - - + +
91A GLY 3.1 13.9 - - - +
92A GLU* 4.3 3.6 - - + +
14B VAL* 4.0 18.2 - - + +
15B VAL 3.3 7.3 + - - +
16B SER* 3.3 17.9 + - - +
17B TRP* 3.0 52.5 - - + +
20B VAL* 3.5 14.6 - - - +
141X GLU* 3.4 17.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 80 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35A LEU* 4.3 13.2 - - + -
39A LEU* 4.1 12.3 - - + -
47A LEU* 3.8 29.6 - - + -
48A VAL 4.2 7.9 - - - +
49A PRO* 4.5 4.3 - - + +
52A VAL* 3.9 15.3 - - + -
78A MET* 3.7 11.2 - - + +
79A GLN* 1.3 80.7 - - - +
81A LEU* 1.3 74.7 + - - +
82A MET* 3.6 2.6 + - + +
90A LEU* 3.5 4.2 - - - -
91A GLY 2.7 35.7 + - - +
93A MET* 3.6 33.9 - - + -
17B TRP* 3.9 3.8 - - - -
20B VAL* 3.9 6.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 81 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46A GLN 3.5 1.2 - - - +
47A LEU* 3.4 7.8 - - - -
48A VAL* 3.0 36.1 + - + +
80A ILE* 1.3 72.5 - - - +
82A MET* 1.3 59.7 + - - +
83A ILE* 3.7 17.3 + - + +
88A SER* 4.4 4.5 - - - -
89A GLN 3.8 7.0 - - - +
90A LEU* 3.8 10.5 - - + -
17B TRP* 3.4 23.2 - - + +
141X GLU 5.3 0.2 - - - +
142X ILE* 3.8 37.9 - - + -
143X PRO* 4.1 20.2 - - + -
145X ILE* 4.4 6.1 - - + -
221X LEU* 3.6 31.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 82 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A LEU* 5.3 4.7 - - - -
42A THR* 3.4 30.3 - - - -
44A ALA* 3.8 11.9 - - + -
46A GLN 3.8 5.4 - - - -
47A LEU* 4.0 15.9 - - + -
80A ILE* 4.0 9.2 - - + +
81A LEU* 1.3 74.6 - - - +
83A ILE* 1.3 66.4 + - - +
84A ARG* 3.1 22.4 + - - +
88A SER* 4.1 2.0 - - - -
89A GLN* 2.8 62.7 + - + +
91A GLY* 3.5 31.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 83 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
45A LYS* 2.7 47.8 + - + +
46A GLN* 3.2 36.9 + - + +
48A VAL* 3.6 27.6 - - + -
81A LEU* 4.0 16.4 - - + +
82A MET* 1.3 69.4 - - - +
84A ARG* 1.3 57.2 + - - +
88A SER* 3.1 19.7 + - - +
145X ILE* 4.2 26.9 - - + -
147X HIS* 6.3 0.2 - - - +
221X LEU* 4.4 15.0 - - + -
223X HIS* 5.1 3.8 - - + +
----------------------------------------------------------
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