Contacts of the helix formed by residues 10 - 37 (chain A) in PDB entry 1BG7
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 10 (chain A).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A ARG* 3.9 14.4 - - - +
8A PHE 3.7 1.6 + - - -
9A HIS* 1.3 83.0 + - + +
11A ASP* 1.3 58.0 + - - +
12A CYS 3.5 0.2 - - - -
13A GLU* 3.6 7.3 - - - +
14A ALA* 3.1 27.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 11 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9A HIS* 3.0 29.4 + - + +
10A ARG* 1.3 77.6 - - - +
12A CYS* 1.4 61.8 + - - +
14A ALA* 3.5 5.8 + - - +
15A ALA* 3.0 28.1 + - - +
18A ARG* 4.4 4.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with CYS 12 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A PHE* 3.7 24.5 - - + -
9A HIS* 3.0 25.8 + - - +
11A ASP* 1.4 73.8 - - - +
13A GLU* 1.3 59.7 + - - +
15A ALA* 3.3 6.4 + - - +
16A ILE* 3.0 36.6 + - + +
113A LEU* 5.0 4.0 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 13 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
5A ARG* 2.7 40.3 + - - +
8A PHE* 3.9 7.3 - - + -
9A HIS 3.1 8.2 + - - +
10A ARG* 3.6 12.3 - - - +
12A CYS* 1.3 79.8 - - - +
14A ALA* 1.3 61.5 + - - +
17A ASN* 3.3 12.4 + - - +
69A GLN* 3.1 44.4 + - - +
74A GLY* 3.6 2.1 - - - -
75A ARG* 2.8 37.9 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 14 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
10A ARG 3.1 17.5 + - - +
11A ASP* 3.9 6.1 - - - +
12A CYS 3.4 0.2 - - - -
13A GLU* 1.3 76.8 - - - +
15A ALA* 1.3 61.4 + - - +
17A ASN* 3.4 11.3 + - - +
18A ARG* 3.1 38.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 15 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A ASP 3.0 18.4 + - - +
12A CYS* 3.3 6.9 + - - +
14A ALA* 1.3 74.0 - - - +
16A ILE* 1.4 60.0 + - - +
18A ARG* 3.2 28.9 + - - +
19A MET* 2.9 31.2 + - - +
113A LEU* 3.5 25.3 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 16 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
8A PHE* 3.6 34.8 - - + -
12A CYS* 3.0 16.8 + - + +
15A ALA* 1.4 73.7 - - - +
17A ASN* 1.3 63.7 + - - +
19A MET* 3.2 8.1 + - - +
20A VAL* 3.0 25.8 + - + +
65A LEU* 3.8 38.6 - - + +
68A ASP* 5.3 7.2 - - + -
69A GLN* 3.5 30.1 - - + +
72A ARG* 5.9 0.9 - - + -
113A LEU* 4.3 14.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 17 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
13A GLU* 3.3 15.7 + - - +
14A ALA* 3.6 11.8 - - - +
15A ALA 3.3 0.2 - - - -
16A ILE* 1.3 78.0 - - - +
18A ARG* 1.3 60.6 + - - +
20A VAL* 3.2 18.3 + - - +
21A ASN* 3.3 13.2 + - - +
69A GLN* 3.1 15.1 + - - +
75A ARG 3.2 20.4 + - - -
76A ILE* 3.5 8.7 - - - +
77A VAL* 3.2 46.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 18 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11A ASP* 4.4 4.0 + - - +
14A ALA* 3.1 25.8 + - - +
15A ALA* 3.2 43.3 + - - +
17A ASN* 1.3 72.8 - - - +
19A MET* 1.3 60.1 + - + +
21A ASN* 3.4 6.4 + - - +
22A MET* 3.1 38.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 19 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
15A ALA 2.9 15.5 + - - +
16A ILE* 3.2 9.8 + - - +
18A ARG* 1.3 75.6 - - + +
20A VAL* 1.3 58.5 + - - +
22A MET* 3.4 9.4 + - + +
23A GLU* 3.0 54.9 + - + +
65A LEU* 3.8 17.0 - - + -
106A VAL* 4.3 10.1 - - + +
109A ALA* 3.5 36.6 - - - +
110A LEU* 3.8 26.2 - - + -
113A LEU* 3.8 26.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 20 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
16A ILE* 3.0 23.4 + - + +
17A ASN* 3.2 13.0 + - - +
19A MET* 1.3 74.1 - - - +
21A ASN* 1.3 63.8 + - - +
23A GLU* 3.3 5.2 + - - +
24A LEU* 3.0 37.5 + - + +
62A ALA* 4.0 8.0 - - + +
65A LEU* 3.8 28.5 - - + -
66A MET* 3.8 37.2 - - + +
69A GLN* 6.3 0.2 - - + -
76A ILE* 5.6 2.0 - - + -
77A VAL 6.1 0.4 - - - +
78A LEU* 4.3 12.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 21 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
17A ASN 3.3 9.5 + - - +
18A ARG* 3.4 9.4 + - - +
19A MET 3.3 0.2 - - - -
20A VAL* 1.3 81.4 - - - +
22A MET* 1.3 56.9 + - - +
24A LEU* 3.3 9.9 + - - +
25A TYR* 2.8 31.2 + - - +
79A GLN* 3.4 34.4 + - + +
80A ASP 3.0 28.2 + - - +
81A VAL* 4.3 9.2 - - - +
82A GLN* 5.5 2.6 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 22 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18A ARG* 3.1 27.9 + - + +
19A MET* 3.6 14.4 - - + +
21A ASN* 1.3 76.3 + - - +
23A GLU* 1.3 57.6 + - - +
25A TYR* 3.3 12.5 + - + +
26A ALA* 2.9 27.7 + - - +
102A LEU* 5.8 0.2 - - - +
105A THR* 4.2 25.1 - - + +
106A VAL* 4.2 18.4 - - + -
109A ALA* 3.5 32.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 23 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19A MET* 3.0 30.8 + - + +
20A VAL 3.7 4.5 - - - +
22A MET* 1.3 72.3 - - - +
24A LEU* 1.3 59.7 + - - +
26A ALA* 3.3 4.7 + - - +
27A SER* 3.0 27.4 + - - -
58A GLU* 2.6 39.3 - - - +
61A HIS* 3.5 31.0 + - + +
62A ALA* 3.8 15.9 - - + -
65A LEU* 4.1 12.3 - - + +
106A VAL* 3.7 23.6 - - - +
110A LEU* 5.2 3.3 - - - +
137A GLN* 4.8 1.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 24 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
20A VAL* 3.0 34.0 + - + +
21A ASN* 3.6 11.2 - - - +
23A GLU* 1.3 71.8 - - - +
25A TYR* 1.3 64.8 + - - +
27A SER* 3.3 7.0 + - - -
28A TYR* 3.0 24.1 + - - +
59A ARG* 4.5 18.8 - - + -
62A ALA* 3.7 20.2 - - + -
63A GLU* 6.4 0.9 - - + -
66A MET* 5.7 3.6 - - - -
78A LEU* 4.9 11.7 - - + -
79A GLN 5.8 0.9 - - - +
81A VAL* 3.8 28.9 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 25 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
21A ASN* 2.8 19.0 + - - +
22A MET* 3.4 16.2 - - + +
24A LEU* 1.3 76.8 - - - +
26A ALA* 1.3 63.2 + - - +
28A TYR* 3.2 4.2 + - + +
29A THR* 3.1 43.5 + - + +
81A VAL* 3.8 9.6 - - + +
82A GLN* 3.3 42.0 - - + +
83A LYS 3.7 11.2 + - - -
84A PRO* 4.7 0.2 - - + -
85A GLU* 3.6 33.6 + - - +
102A LEU* 4.3 17.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 26 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22A MET 2.9 19.4 + - - +
23A GLU* 3.6 9.0 - - - +
24A LEU 3.3 0.2 - - - -
25A TYR* 1.3 72.0 - - - +
27A SER* 1.3 64.1 + - - +
29A THR* 3.3 3.0 + - - -
30A TYR* 3.0 30.1 + - + -
58A GLU* 3.9 16.6 - - + -
102A LEU* 4.1 31.1 - - + +
103A GLU* 5.8 0.4 - - - +
106A VAL* 4.3 12.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 27 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23A GLU 3.0 14.3 + - - -
24A LEU* 3.3 13.0 + - - -
26A ALA* 1.3 76.9 - - - +
28A TYR* 1.3 56.4 + - - +
30A TYR 3.4 0.3 + - - -
31A LEU* 2.9 15.8 + - - +
55A SER* 2.7 51.8 + - - +
58A GLU* 3.8 6.8 - - - +
59A ARG* 3.7 22.5 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 28 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24A LEU 3.0 15.5 + - - +
25A TYR 3.2 5.4 + - - +
27A SER* 1.3 73.6 - - - +
29A THR* 1.3 61.0 + - - +
31A LEU* 3.4 23.9 + - + +
32A SER* 3.0 28.2 + - - -
81A VAL* 4.0 22.9 - - + -
82A GLN 3.5 18.6 - - - +
83A LYS* 3.9 20.0 - - + +
84A PRO* 3.6 14.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with THR 29 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25A TYR* 3.1 31.8 + - + +
26A ALA 3.6 7.0 - - - -
28A TYR* 1.3 76.8 - - - +
30A TYR* 1.3 57.5 + - - +
32A SER* 3.2 4.7 + - - -
33A MET* 3.0 40.8 + - + +
84A PRO* 3.8 18.7 - - + +
85A GLU* 5.6 0.9 - - + +
89A TRP* 3.7 27.3 - - + -
102A LEU* 4.1 20.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 30 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26A ALA* 3.0 21.8 + - + +
27A SER 3.7 0.2 - - - +
29A THR* 1.3 75.4 - - - +
31A LEU* 1.3 57.1 + - - +
33A MET* 3.2 10.0 + - - +
34A ALA* 2.8 30.0 + - - +
50A PHE* 5.9 0.4 - + - -
51A PHE* 3.5 40.6 - + - +
54A GLN* 3.8 28.8 - - + +
55A SER* 3.7 9.9 - - - -
58A GLU* 3.8 22.0 - - + -
99A ALA* 3.7 32.3 + - + +
102A LEU* 3.8 20.4 - - + +
103A GLU* 2.9 40.0 + - - +
144A LEU* 4.4 2.6 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 31 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27A SER 2.9 14.9 + - - +
28A TYR* 3.5 30.7 - - + +
29A THR 3.3 0.2 - - - -
30A TYR* 1.3 76.9 - - - +
32A SER* 1.3 61.6 + - - +
34A ALA* 3.3 8.0 + - + +
35A PHE* 3.1 54.7 + - + -
52A LYS* 5.4 7.0 - - + -
55A SER* 3.7 15.2 + - - +
56A HIS* 5.8 5.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 32 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28A TYR* 3.0 13.8 + - - -
29A THR* 3.3 10.1 - - - -
31A LEU* 1.3 78.4 - - - +
33A MET* 1.3 60.8 + - - +
35A PHE* 3.5 3.9 + - - +
36A TYR* 3.1 23.0 + - - +
84A PRO* 3.9 16.1 - - - +
86A ARG 4.0 8.1 + - - -
87A ASP* 4.7 5.9 + - - +
89A TRP* 3.2 18.1 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with MET 33 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29A THR* 3.0 25.7 + - + +
30A TYR* 3.2 22.0 + - + +
32A SER* 1.3 72.5 - - - +
34A ALA* 1.3 65.5 + - - +
36A TYR* 3.2 9.9 + - - +
37A PHE* 3.2 20.7 + - + -
51A PHE* 3.8 39.7 - - + -
89A TRP* 3.7 54.5 - - + -
95A ALA* 3.9 11.7 - - + +
98A ALA* 3.8 20.0 - - + -
99A ALA* 4.1 8.1 - - - +
102A LEU* 5.4 0.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 34 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30A TYR 2.8 16.3 + - - +
31A LEU* 3.3 13.2 + - - +
33A MET* 1.3 73.2 - - - +
35A PHE* 1.3 68.6 + - + +
36A TYR 3.4 0.2 + - - -
37A PHE 3.4 3.3 + - - -
38A ASP* 3.4 3.3 + - - +
48A ALA* 3.3 32.5 - - - +
51A PHE* 3.6 8.7 - - - +
52A LYS* 3.6 34.5 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 35 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31A LEU* 3.1 43.5 + - + +
32A SER* 3.9 4.0 - - - +
34A ALA* 1.3 79.9 - - + +
36A TYR* 1.3 64.0 + - - +
38A ASP* 3.5 32.8 + - + +
39A ARG* 3.6 13.5 + - - +
52A LYS* 4.2 25.8 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 36 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32A SER 3.1 14.7 + - - +
33A MET 3.2 7.8 + - - +
35A PHE* 1.3 76.9 - - - +
37A PHE* 1.3 87.7 + + - +
39A ARG* 3.2 55.1 + - - +
42A ILE* 3.4 32.1 - - + +
87A ASP 4.3 4.7 - - - +
88A GLU* 3.8 16.5 + - + +
89A TRP* 3.5 38.1 - - + -
90A GLY* 2.7 38.0 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with PHE 37 (chain A).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33A MET* 3.2 25.0 + - + +
34A ALA 3.4 0.2 + - - -
36A TYR* 1.3 95.0 - + - +
38A ASP* 1.3 56.2 + - - +
39A ARG 3.3 0.2 - - - -
42A ILE* 3.6 20.4 - - + -
43A ALA* 3.1 8.6 + - - -
44A LEU* 3.0 55.5 + - + +
45A HIS* 4.6 0.2 + - - -
47A VAL* 3.7 17.7 - - + -
48A ALA* 3.9 15.5 - - + +
51A PHE* 3.7 13.2 - + - -
89A TRP* 4.7 2.7 - - + -
91A ASN* 3.8 12.1 - - - -
92A THR* 3.9 25.4 - - - -
95A ALA* 3.5 34.1 - - + -
----------------------------------------------------------
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