Contacts of the helix formed by residues 66 - 89 (chain A) in PDB entry 1XUQ
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 66 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A HIS* 4.0 27.8 - - + +
49A GLU* 5.6 2.5 - - - +
50A LEU* 4.0 15.5 - - + -
64A GLU 3.6 7.8 - - - +
65A VAL* 1.3 91.1 - - + +
67A GLU* 1.3 67.4 + - - +
68A ALA* 4.5 5.6 - - + +
69A ILE* 3.1 9.7 + - + +
70A ARG* 3.0 18.6 + - - +
----------------------------------------------------------
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
----------------------------------------------------------
65A VAL 3.4 1.8 + - - -
66A PRO* 1.3 72.9 - - - +
68A ALA* 1.3 63.0 - - - +
69A ILE 3.1 1.4 + - - -
70A ARG* 3.2 49.7 + - - +
71A THR* 4.7 5.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 68 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47A HIS* 6.3 1.8 - - + -
66A PRO* 3.1 5.6 + - + +
67A GLU* 1.3 78.2 - - - +
69A ILE* 1.3 66.1 + - + +
71A THR 5.6 0.4 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 69 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43A ALA* 3.5 35.2 - - + +
44A LEU* 4.1 8.7 - - + -
47A HIS* 3.7 28.9 - - + +
50A LEU* 3.7 29.8 - - + -
65A VAL* 3.7 13.7 - - + -
66A PRO* 3.1 6.7 + - + +
68A ALA* 1.3 85.3 - - + +
70A ARG* 1.3 63.2 + - - +
71A THR 3.4 2.0 - - - -
72A ALA* 3.2 9.6 + - + +
73A VAL* 3.0 25.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 70 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
62A LEU* 3.5 34.4 + - + +
63A ASN* 3.3 21.4 + - - +
65A VAL* 2.8 35.3 + - + +
66A PRO* 3.0 10.8 + - - +
67A GLU* 3.2 51.4 + - - +
69A ILE* 1.3 77.3 - - - +
71A THR* 1.3 53.2 + - - +
73A VAL* 3.2 1.4 + - - +
74A ARG* 2.7 37.2 + - + +
----------------------------------------------------------
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
----------------------------------------------------------
67A GLU* 4.7 5.5 + - - -
68A ALA 5.6 0.2 + - - -
69A ILE 3.4 0.4 - - - -
70A ARG* 1.3 75.9 - - - +
72A ALA* 1.3 58.9 + - - +
74A ARG* 3.4 13.0 + - - +
75A ASN* 3.0 49.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 72 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A ASN 5.3 0.7 - - - +
40A LEU* 4.9 0.3 - - - +
43A ALA* 3.9 22.8 - - + +
69A ILE* 3.2 14.1 + - + +
71A THR* 1.3 81.0 - - - +
73A VAL* 1.3 57.9 + - - +
75A ASN* 5.0 0.9 - - - -
76A ASN* 3.0 47.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 73 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A LEU* 4.4 8.1 - - + -
43A ALA* 4.8 4.7 - - + -
44A LEU* 4.2 23.1 - - + -
58A LEU* 3.3 37.2 - - + -
59A VAL* 4.4 3.0 - - + +
62A LEU* 3.9 14.1 - - + -
65A VAL* 3.8 21.1 - - + -
69A ILE* 3.0 25.3 + - + +
70A ARG 3.8 3.1 - - - +
72A ALA* 1.3 75.4 - - - +
74A ARG* 1.3 60.0 + - - +
77A GLY* 2.8 33.4 + - - +
78A GLY 3.4 0.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 74 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A VAL* 5.3 1.2 - - - +
62A LEU* 3.7 33.2 - - + +
70A ARG* 2.7 21.4 + - + +
71A THR* 3.5 12.4 + - - +
73A VAL* 1.3 74.0 - - - +
75A ASN* 1.3 66.6 + - - +
78A GLY* 3.1 23.6 + - - -
148A PRO* 5.6 0.6 - - - +
150A GLN 3.8 6.6 - - - +
151A ASP* 2.9 43.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 75 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A TYR* 4.1 0.7 - - - -
71A THR* 3.0 37.4 + - - +
72A ALA* 4.3 1.8 - - - +
74A ARG* 1.3 91.2 + - - +
76A ASN* 1.3 66.7 + - - +
79A GLY* 3.0 19.8 + - - -
149A ASN* 5.3 2.3 - - - +
150A GLN* 3.3 16.7 + - - +
151A ASP* 5.0 2.4 - - - +
128B PHE* 3.4 57.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 76 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A TYR* 3.4 42.2 - - - +
39A ASN* 3.3 36.7 + - - +
40A LEU* 3.9 12.0 - - - +
72A ALA* 3.0 33.6 + - - +
75A ASN* 1.3 81.0 - - - +
77A GLY* 1.3 61.9 + - - +
78A GLY 3.3 0.2 - - - -
80A HIS* 2.9 29.3 + - - +
128B PHE* 4.9 3.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 77 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40A LEU* 3.7 18.4 - - - +
55A VAL* 3.4 18.5 - - - +
59A VAL* 3.4 11.0 - - - -
73A VAL* 2.8 24.4 + - - -
76A ASN* 1.3 70.2 - - - +
78A GLY* 1.3 62.2 + - - +
80A HIS 3.3 0.7 + - - -
81A ALA* 3.0 23.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 78 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
59A VAL* 3.6 14.6 - - - +
73A VAL 3.4 1.4 + - - -
74A ARG 3.1 16.7 + - - -
77A GLY* 1.3 75.4 - - - +
79A GLY* 1.3 55.7 + - - +
81A ALA* 4.7 1.6 - - - -
82A ASN* 2.8 36.5 + - - -
150A GLN* 3.2 25.8 - - - -
152A SER* 5.3 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 79 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A TYR* 3.8 17.9 - - - -
75A ASN 3.0 14.6 + - - -
76A ASN 3.5 1.5 + - - -
77A GLY 3.3 0.2 - - - -
78A GLY* 1.3 74.0 - - - +
80A HIS* 1.3 62.1 + - - +
83A HIS* 2.8 31.7 + - - +
150A GLN* 3.4 27.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 80 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4A HIS* 4.0 30.5 + - + +
5A GLU 3.6 21.7 + - - -
7A PRO* 4.2 3.6 - - + -
33A HIS* 2.9 30.5 + - - -
36A TYR* 4.0 2.6 - - + +
37A ILE* 3.6 17.5 - - + +
40A LEU* 4.2 7.0 - - + -
55A VAL* 3.8 30.3 - - + +
76A ASN 2.9 18.7 + - - +
77A GLY 3.8 3.4 - - - +
79A GLY* 1.3 76.8 - - - +
81A ALA* 1.3 56.7 + - - +
84A THR* 2.8 51.3 + - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 81 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A VAL* 4.0 24.6 - - + +
56A GLU* 4.7 15.1 - - + +
59A VAL* 4.5 15.3 - - + -
77A GLY 3.0 16.2 + - - +
78A GLY* 3.9 2.9 - - - +
80A HIS* 1.3 76.9 - - - +
82A ASN* 1.3 67.4 + - - +
84A THR* 3.7 4.0 - - - -
85A PHE* 3.1 24.5 + - - +
152A SER* 5.5 0.7 - - - +
154A LEU* 5.1 5.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 82 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A GLY 2.8 18.5 + - - +
79A GLY 4.1 0.2 - - - +
81A ALA* 1.3 75.3 - - - +
83A HIS* 1.3 56.6 + - - +
85A PHE* 3.4 7.5 + - - +
86A PHE* 3.0 26.9 + - - +
132A TRP* 3.6 32.4 - - + +
134A TRP* 3.5 23.9 - - + -
150A GLN* 3.2 46.9 + - - +
151A ASP 3.6 7.5 + - - -
152A SER* 3.7 17.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 83 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A HIS* 2.9 21.8 + + - -
33A HIS* 3.4 25.8 - + + +
36A TYR* 3.5 25.3 - + - -
79A GLY* 2.8 29.6 + - - +
82A ASN* 1.3 71.9 - - - +
84A THR* 1.3 66.2 + - - +
86A PHE* 3.1 5.4 + + - +
87A TRP* 3.0 42.1 + + + +
132A TRP* 3.8 13.8 - + - -
150A GLN* 3.5 15.5 - - - -
165A ASP* 3.1 2.7 + - - -
204A MN 2.1 36.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 84 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A PRO* 4.0 14.0 - - + +
33A HIS* 3.4 10.0 - - - -
55A VAL* 5.3 1.2 - - + +
56A GLU* 4.3 15.0 - - - +
80A HIS* 2.8 46.3 + - + -
81A ALA* 3.7 5.8 - - - -
83A HIS* 1.3 75.5 - - - +
85A PHE* 1.3 64.5 + - - +
87A TRP* 3.6 10.2 + - - +
88A THR* 3.4 21.4 - - + +
198A ARG* 6.2 0.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 85 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A ALA 3.1 14.3 + - - +
82A ASN* 3.5 10.8 - - - +
83A HIS 3.2 0.2 - - - -
84A THR* 1.3 76.4 - - - +
86A PHE* 1.3 69.1 + - + +
88A THR* 2.6 24.3 + - - -
89A ILE* 3.4 18.6 + - + +
132A TRP* 5.4 0.7 - + - -
134A TRP* 3.9 23.6 - + + -
160A PRO* 3.6 31.4 - - + -
161A VAL 3.7 22.7 - - - -
162A ILE* 3.9 0.7 - - - -
163A GLY* 3.6 22.4 - - - -
198A ARG* 3.4 49.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 86 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A PHE* 3.9 24.9 - + - -
25A MET* 6.1 0.2 - - - -
28A HIS* 4.3 10.3 - + - -
82A ASN 3.0 17.3 + - - +
83A HIS* 3.1 7.4 + + - +
85A PHE* 1.3 80.5 - - - +
87A TRP* 1.3 94.5 + + - +
88A THR 3.1 0.9 + - - -
89A ILE* 3.2 15.1 + - + +
90A LEU* 3.3 37.0 - - + +
132A TRP* 3.7 23.1 - + + -
163A GLY 3.5 25.8 - - - -
164A LEU* 3.9 20.9 - - + -
165A ASP* 3.9 14.8 - - + -
182A TYR* 4.1 6.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 87 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
7A PRO* 4.7 8.7 - - + -
8A ASN 5.6 2.0 - - - +
9A LEU* 3.6 26.0 - - + -
10A PRO* 3.7 11.4 - - + +
11A TYR* 2.8 35.1 + - - +
25A MET* 3.9 26.5 - - + -
28A HIS* 3.7 35.0 - + + -
29A HIS* 3.7 34.2 - + + -
33A HIS* 2.9 30.5 + + - -
83A HIS* 3.0 33.1 + + + -
84A THR* 4.1 7.9 - - - +
85A PHE 3.4 0.2 - - - -
86A PHE* 1.3 100.8 - + - +
88A THR* 1.3 62.4 + - + +
89A ILE 3.6 0.5 + - - -
90A LEU* 3.7 4.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 88 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A PRO* 4.6 12.3 - - + -
84A THR* 3.4 19.1 - - + +
85A PHE 2.6 18.2 + - - -
87A TRP* 1.3 78.5 - - + +
89A ILE* 1.3 55.4 + - - +
90A LEU 3.5 5.7 + - - +
191A ASP* 4.7 1.4 - - - +
194A ALA* 3.5 20.1 - - - +
198A ARG* 2.9 31.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 89 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
85A PHE* 3.4 30.2 + - + +
86A PHE* 3.2 16.1 + - + +
88A THR* 1.3 80.5 - - - +
90A LEU* 1.3 65.0 - - + +
161A VAL 3.9 21.3 - - - +
162A ILE* 4.7 5.4 - - + -
163A GLY 3.2 32.5 - - - +
186A PHE* 4.1 7.9 - - + -
190A VAL* 3.4 7.9 - - + +
191A ASP* 2.8 32.5 + - - +
194A ALA* 4.5 8.3 - - + -
195A ALA 5.0 3.4 - - - +
198A ARG* 4.0 16.8 - - - +
----------------------------------------------------------
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