Contacts of the strand formed by residues 76 - 92 (chain A) in PDB entry 1BTG
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 TRP 76 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A SER 5.6 1.2 - - - +
71A ILE* 3.9 22.1 - - + +
72A ASP* 3.0 34.9 + - + +
73A SER* 3.9 13.2 - - - -
74A LYS 3.8 1.2 - - - -
75A HIS* 1.3 93.0 - + + +
77A ASN* 1.3 67.2 + - - +
78A SER 4.3 0.2 + - - -
112A LEU* 3.8 32.8 - - + -
113A SER* 3.2 5.2 - - - +
114A ARG* 3.1 57.4 - - + -
115A LYS* 3.3 20.8 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 77 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66A SER 5.5 2.0 - - - -
76A TRP* 1.3 78.5 - - - +
78A SER* 1.3 64.6 + - - +
112A LEU* 3.4 2.1 - - - -
113A SER* 2.4 51.5 + - - +
114A ARG 4.0 1.4 + - - -
115A LYS* 3.1 42.9 + - - +
116A ALA 4.9 1.4 - - - +
10B GLY* 3.7 12.9 - - - -
11B GLU 3.0 31.0 + - - +
12B PHE* 3.7 21.1 - - + -
----------------------------------------------------------
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
----------------------------------------------------------
62A ASN* 4.2 1.6 - - - +
66A SER 4.0 8.0 + - - +
67A GLY* 3.3 16.1 - - - -
68A CYS* 2.9 22.9 + - - -
71A ILE* 3.7 15.2 - - - +
76A TRP 4.3 0.2 + - - -
77A ASN* 1.3 78.0 - - - +
79A TYR* 1.3 71.0 + - - +
110A CYS* 3.7 7.6 - - - -
111A VAL 3.0 14.4 - - - -
112A LEU* 3.6 16.2 - - - -
12B PHE* 3.7 6.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 79 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61A SER 3.7 9.6 - - - +
62A ASN* 4.4 4.9 - - - +
67A GLY* 4.6 0.4 - - - -
68A CYS* 3.3 11.7 - - - +
78A SER* 1.3 76.6 - - - +
80A CYS* 1.3 68.2 + - - +
81A THR* 3.9 16.6 - - - +
111A VAL* 2.8 62.2 + - + +
12B PHE* 3.1 40.1 - + + -
69B ARG* 5.3 5.7 - - - -
76C TRP* 3.8 25.6 - + - -
114C ARG* 3.4 51.3 + - + -
----------------------------------------------------------
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
----------------------------------------------------------
14A VAL 3.7 0.9 - - - -
15A CYS* 2.0 51.4 - - - -
16A ASP 4.9 0.2 - - - -
58A CYS* 4.0 3.3 - - - -
60A ALA 3.8 7.4 - - - +
61A SER* 2.7 34.7 + - - +
63A PRO* 3.6 20.6 - - - -
68A CYS* 3.5 10.5 - - - -
79A TYR* 1.3 74.1 - - - +
81A THR* 1.3 63.9 + - - +
108A CYS* 3.6 14.4 - - - -
109A VAL 3.4 2.7 - - - -
114C ARG* 4.6 2.6 + - - -
118C ARG* 5.5 1.9 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 81 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
58A CYS* 3.3 7.2 - - - -
79A TYR* 3.9 15.5 + - + +
80A CYS* 1.3 77.9 - - - +
82A THR* 1.3 72.8 + - - +
83A THR* 4.5 2.9 - - + -
108A CYS* 3.0 2.3 - - - -
109A VAL* 2.7 45.5 + - + +
111A VAL* 3.7 25.4 - - + -
114C ARG* 3.7 16.9 + - - +
118C ARG* 6.5 0.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 82 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A THR 4.2 2.0 - - - +
57A LYS* 4.2 2.9 - - - +
58A CYS* 3.3 28.4 + - - +
81A THR* 1.3 82.4 + - - +
83A THR* 1.3 74.3 + - - +
84A HIS* 3.8 12.0 + - - +
105A ASP* 3.3 44.4 - - + +
107A ALA 2.9 9.1 + - - +
118C ARG* 5.9 1.7 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 83 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
81A THR* 4.2 5.2 - - + +
82A THR* 1.3 81.3 - - - +
84A HIS* 1.4 64.0 + - - +
105A ASP* 3.1 7.1 - - - -
106A THR* 2.6 33.1 + - - -
107A ALA* 2.6 27.6 + - - +
109A VAL* 3.5 34.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 84 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
82A THR* 3.8 18.6 - - + -
83A THR* 1.4 80.6 + - - +
85A THR* 1.3 60.6 + - - +
86A PHE* 5.1 11.4 - - + -
103A ARG* 3.9 38.8 - - + -
104A ILE 3.1 6.1 - - - +
105A ASP* 2.4 35.9 + - - -
106A THR* 3.7 6.5 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 85 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
84A HIS* 1.3 74.8 - - - +
86A PHE* 1.3 75.8 + - - +
87A VAL* 3.9 20.5 - - + +
103A ARG* 3.5 5.9 - - - -
104A ILE* 2.9 35.5 + - + +
106A THR* 3.3 30.7 + - + -
----------------------------------------------------------
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
----------------------------------------------------------
31A ILE* 4.1 36.1 - - + -
84A HIS* 5.1 9.6 - - + -
85A THR* 1.3 84.4 + - - +
87A VAL* 1.3 64.2 + - - +
101A PHE* 3.5 26.3 - - + -
102A ILE 3.4 16.4 - - - -
103A ARG* 3.8 36.6 - - + -
----------------------------------------------------------
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
----------------------------------------------------------
53A PHE* 3.3 40.6 - - + -
85A THR* 3.9 20.2 - - + +
86A PHE* 1.3 78.8 - - - +
88A LYS* 1.3 67.2 + - - +
89A ALA 3.4 0.5 + - - -
100A ARG 3.3 0.2 - - - +
101A PHE* 3.1 5.3 - - - -
102A ILE* 2.9 28.7 + - + +
104A ILE* 3.5 14.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 88 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53A PHE* 4.5 2.4 - - - -
87A VAL* 1.3 82.3 - - - +
89A ALA* 1.3 61.6 + - - +
99A TRP* 3.9 34.9 - - + +
100A ARG 3.2 7.9 - - - +
101A PHE* 3.2 49.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 89 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A VAL* 4.7 3.8 - - + -
51A GLN* 3.7 6.5 - - - +
53A PHE* 3.8 16.2 - - + -
88A LYS* 1.3 78.5 - - - +
90A LEU* 1.3 61.5 - - - +
91A THR* 3.4 7.9 + - + +
99A TRP* 3.0 9.5 - - - -
100A ARG 2.7 34.7 + - - +
102A ILE* 3.4 33.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 90 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38A VAL* 3.9 0.5 - - - +
39A LEU* 2.9 42.8 + - + +
41A GLU 5.3 0.9 - - - +
42A VAL* 4.0 24.0 - - + -
43A ASN 5.3 1.3 - - - +
44A ILE* 6.1 0.2 - - + -
51A GLN* 2.8 28.2 + - - +
89A ALA* 1.3 69.9 - - - +
91A THR* 1.3 61.9 + - - +
97A ALA* 4.6 3.4 - - + -
98A ALA* 2.9 37.9 - - - +
99A TRP* 3.2 29.7 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 91 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A VAL* 4.0 15.3 - - + -
37A THR 3.1 15.0 - - - +
38A VAL* 4.5 6.1 - - + -
39A LEU* 3.5 7.9 - - - +
89A ALA* 3.6 16.8 - - + +
90A LEU* 1.3 82.0 - - - +
92A THR* 1.4 60.8 + - - +
97A ALA* 3.4 6.2 - - - +
98A ALA 2.9 29.3 + - - -
100A ARG* 2.8 29.4 + - - +
102A ILE* 4.0 23.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 92 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36A VAL* 4.3 2.2 - - - -
37A THR* 2.8 45.8 + - + -
39A LEU* 3.8 17.0 - - + -
91A THR* 1.4 75.9 - - - +
93A ASP* 1.3 66.1 + - - +
94A GLU* 3.0 22.9 + - + +
95A LYS 4.9 0.2 - - - -
96A GLN 3.3 18.8 + - - -
97A ALA* 3.9 11.8 + - - +
100A ARG* 3.9 3.6 - - - +
----------------------------------------------------------
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