Contacts of the strand formed by residues 97 - 114 (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 ALA 97 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39A LEU* 5.0 11.4 - - + -
90A LEU* 4.6 3.1 - - + -
91A THR 3.4 10.8 - - - +
92A THR* 3.9 12.8 + - - +
96A GLN* 1.3 72.3 - - - +
98A ALA* 1.3 64.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 98 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
90A LEU* 3.2 11.3 - - - +
91A THR* 2.9 35.9 + - - -
96A GLN* 5.0 2.9 - - + -
97A ALA* 1.3 77.2 - - - +
99A TRP* 1.3 69.4 + - - +
100A ARG* 3.7 19.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 99 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42A VAL* 3.5 33.9 - - + -
44A ILE* 4.4 16.2 - - + -
51A GLN* 4.0 4.5 - - - -
88A LYS* 3.9 32.4 - - + +
89A ALA* 3.0 32.3 - - - -
90A LEU* 3.2 28.5 - - + +
98A ALA* 1.3 79.5 - - - +
100A ARG* 1.3 63.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 100 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A ASP* 3.8 30.0 + - + +
31A ILE* 6.1 1.3 - - + -
34A LYS* 6.2 1.4 - - - +
36A VAL* 4.4 10.0 - - - +
87A VAL 3.3 0.9 - - - +
88A LYS* 4.0 6.1 - - - -
89A ALA* 2.7 34.1 + - - +
91A THR* 2.8 45.6 + - + +
92A THR* 3.9 3.6 - - - +
93A ASP* 3.6 23.3 + - - +
96A GLN* 3.1 40.0 + - - +
98A ALA* 3.6 15.3 + - + +
99A TRP* 1.3 77.3 - - - +
101A PHE* 1.3 66.1 + - - +
102A ILE* 3.7 3.8 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 101 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A ASP* 3.3 3.8 - - - +
31A ILE* 2.7 54.5 + - + +
86A PHE* 3.5 31.6 - - + -
87A VAL* 3.1 10.3 - - - -
88A LYS* 3.2 61.7 - - + -
100A ARG* 1.3 75.3 - - - +
102A ILE* 1.3 54.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 102 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A LYS* 5.1 2.0 - - + -
28A ALA* 4.0 22.0 - - + -
29A THR 3.2 12.6 - - - +
30A ASP* 3.9 5.8 - - + +
36A VAL* 4.7 3.6 - - + -
38A VAL* 4.9 4.7 - - + -
53A PHE* 3.8 13.0 - - + -
86A PHE* 3.4 8.7 - - - -
87A VAL 2.9 24.8 + - - +
89A ALA* 3.4 23.6 - - + -
91A THR* 4.0 20.4 - - + -
100A ARG* 4.0 9.6 - - + +
101A PHE* 1.3 77.8 - - - +
103A ARG* 1.3 66.9 + - - +
104A ILE* 3.0 30.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 103 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A LYS* 5.2 4.2 + - - -
28A ALA* 4.9 4.9 - - - +
29A THR* 2.7 41.1 + - - +
30A ASP 3.4 10.3 + - - +
31A ILE 3.0 26.1 + - - -
32A LYS 4.3 0.8 - - - -
33A GLY* 3.6 13.9 - - - +
84A HIS* 3.9 32.5 - - + -
85A THR 3.5 5.2 - - - -
86A PHE* 3.8 21.0 - - + -
102A ILE* 1.3 78.5 - - - +
104A ILE* 1.3 69.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 104 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A LYS* 4.6 6.7 - - + -
53A PHE* 3.8 19.7 - - + -
54A PHE 3.7 19.1 - - - +
55A GLU* 3.8 20.9 - - + +
84A HIS* 3.1 3.6 - - - -
85A THR* 2.9 38.0 + - + +
87A VAL* 3.5 24.2 - - + -
102A ILE* 3.0 45.5 - - + +
103A ARG* 1.3 74.6 - - - +
105A ASP* 1.3 76.1 + - - +
106A THR* 3.9 5.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 105 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55A GLU* 3.5 9.0 + - - +
56A THR 3.1 29.2 + - - +
57A LYS* 2.8 33.2 + - - -
82A THR* 3.3 24.3 - - + +
83A THR 3.1 5.4 - - - -
84A HIS* 2.4 37.0 + - - -
104A ILE* 1.3 85.6 - - - +
106A THR* 1.3 57.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 106 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54A PHE 4.7 6.7 - - - +
56A THR* 3.2 23.5 + - - +
83A THR* 2.6 16.7 + - - -
84A HIS* 3.7 16.6 + - - -
85A THR* 3.3 35.8 - - + -
104A ILE* 3.3 4.9 + - + +
105A ASP* 1.3 75.7 - - - +
107A ALA* 1.3 62.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 107 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
56A THR* 3.5 15.2 + - - -
82A THR* 2.9 7.8 - - - +
83A THR* 2.6 43.9 + - - +
106A THR* 1.3 86.1 + - - +
108A CYS* 1.3 61.8 + - - +
109A VAL* 3.9 12.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 108 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A SER* 5.6 1.2 + - - -
15A CYS* 3.5 23.1 - - + +
16A ASP 3.9 4.3 - - - -
17A SER* 3.8 18.7 - - - -
56A THR* 4.6 1.8 - - - +
58A CYS* 2.0 58.8 - - - +
60A ALA 4.8 0.2 - - - -
80A CYS* 3.6 19.3 - - - -
81A THR 3.0 3.4 - - - -
107A ALA* 1.3 75.3 - - - +
109A VAL* 1.3 60.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 109 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A VAL* 6.1 0.4 - - - -
15A CYS* 3.7 5.4 - - - -
80A CYS* 3.4 0.9 - - - -
81A THR* 2.7 43.0 + - + +
83A THR* 3.5 29.2 - - + +
107A ALA* 4.2 17.9 - - + -
108A CYS* 1.3 78.6 - - - +
110A CYS* 1.3 62.6 + - - +
111A VAL* 4.9 3.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 110 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
14A VAL* 3.9 15.3 - - + +
15A CYS* 3.7 8.0 - - - -
68A CYS* 2.0 48.7 - - - -
71A ILE* 4.2 7.0 - - - -
78A SER* 3.7 15.3 - - - -
79A TYR 3.3 4.7 - - - -
109A VAL* 1.3 76.1 - - - +
111A VAL* 1.3 62.7 + - - +
112A LEU* 4.0 13.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 111 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
78A SER* 3.0 6.8 - - - -
79A TYR* 2.8 66.1 + - + +
81A THR* 3.7 29.6 - - + -
109A VAL* 4.7 4.5 - - + +
110A CYS* 1.3 76.8 - - - +
112A LEU* 1.3 65.6 + - - +
12B PHE* 4.2 6.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 112 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
71A ILE* 4.5 16.4 - - + -
76A TRP* 3.8 35.9 - - + -
77A ASN 3.4 4.5 - - - +
78A SER* 3.6 23.3 - - - -
110A CYS* 4.0 14.5 + - - +
111A VAL* 1.3 82.1 - - - +
113A SER* 1.3 61.6 + - - +
12B PHE* 4.3 3.3 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 113 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76A TRP* 3.2 5.3 - - - -
77A ASN* 2.4 58.0 + - - +
112A LEU* 1.3 77.1 - - - +
114A ARG* 1.3 68.3 + - - +
11B GLU 3.9 5.7 + - - -
12B PHE* 3.5 27.7 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 114 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
75A HIS* 3.1 43.5 + - - +
76A TRP* 3.1 45.6 - - + -
77A ASN* 4.0 1.4 + - - -
113A SER* 1.3 81.8 + - - +
115A LYS* 1.3 71.4 + - - +
116A ALA* 3.3 4.9 + - - +
----------------------------------------------------------
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