Contacts of the helix formed by residues 23 - 52 (chain C) in PDB entry 1S5H
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 23 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C SER* 1.3 77.7 - - - +
24C LEU* 1.3 67.6 + - - +
25C HIS* 3.4 32.5 - - + +
26C TRP* 3.4 14.5 + - + +
27C ARG* 3.2 17.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 24 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C SER 3.8 0.8 + - - -
23C ALA* 1.3 72.1 - - - +
25C HIS* 1.3 63.8 + - + +
27C ARG* 2.9 12.5 + - + +
28C ALA* 2.8 35.3 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 25 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
23C ALA* 3.4 19.2 - - + +
24C LEU* 1.3 81.4 - - + +
26C TRP* 1.3 100.1 + + - +
28C ALA* 3.5 7.2 + - - +
29C ALA* 3.0 27.9 + - - +
105C LEU* 4.5 1.3 - - - +
108C ALA 5.5 0.4 - - - -
109C ALA* 3.7 34.3 + - + +
112C THR* 3.6 34.5 - - + +
113C TRP* 4.4 8.5 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with TRP 26 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C SER* 5.2 7.2 - - - -
23C ALA* 3.4 23.0 + - + +
24C LEU 3.2 0.8 - - - -
25C HIS* 1.3 96.4 - + - +
27C ARG* 1.3 66.4 + - - +
29C ALA* 3.3 9.9 + - + +
30C GLY* 3.0 19.2 + - - -
106C VAL* 6.1 2.7 - - + -
109C ALA* 4.0 23.8 - - + -
110C LEU* 4.1 21.5 - - + -
113C TRP* 3.5 47.1 - + + -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 27 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C SER* 5.1 10.2 - - - +
23C ALA 3.2 10.7 + - - +
24C LEU* 2.9 14.9 + - + +
26C TRP* 1.3 80.7 - - - +
28C ALA* 1.3 56.8 + - - +
30C GLY* 3.3 2.9 + - - +
31C ALA* 2.9 28.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 28 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
24C LEU* 2.8 27.1 + - + +
25C HIS* 3.9 8.1 - - - +
27C ARG* 1.3 70.1 - - - +
29C ALA* 1.3 55.1 + - - +
31C ALA* 3.7 6.6 - - - +
32C ALA* 2.7 35.5 + - - +
105C LEU* 3.6 22.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 29 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
25C HIS 3.0 19.0 + - - +
26C TRP* 3.4 15.5 - - + +
27C ARG 3.2 0.2 - - - -
28C ALA* 1.3 77.0 - - - +
30C GLY* 1.3 63.6 + - - +
32C ALA* 3.1 4.8 + - - +
33C THR* 2.9 27.0 + - - -
105C LEU* 3.5 15.0 - - + +
106C VAL* 4.6 16.3 - - + +
109C ALA* 4.6 9.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 30 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C TRP 3.0 11.4 + - - -
27C ARG* 3.8 2.9 - - - -
29C ALA* 1.3 80.3 - - - +
31C ALA* 1.3 61.7 + - - +
33C THR* 2.9 18.4 + - - -
34C VAL* 3.0 20.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 31 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C ARG 2.9 17.0 + - - +
28C ALA* 3.7 8.1 - - - +
30C GLY* 1.3 75.2 - - - +
32C ALA* 1.3 62.5 + - - +
34C VAL* 3.4 8.0 + - - +
35C LEU* 2.9 29.4 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 32 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
28C ALA 2.7 21.7 + - - +
29C ALA 3.1 6.3 + - - +
31C ALA* 1.3 73.4 - - - +
33C THR* 1.3 57.5 + - - +
35C LEU* 3.4 8.2 + - - +
36C LEU* 2.9 23.9 + - - +
101C THR* 6.5 0.2 - - + -
102C SER* 3.4 34.6 + - - +
105C LEU* 4.2 19.5 - - + -
106C VAL* 5.8 0.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with THR 33 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
29C ALA 2.9 13.8 + - - -
30C GLY* 2.9 11.9 + - - -
32C ALA* 1.3 75.5 - - - +
34C VAL* 1.3 68.6 + - + +
36C LEU* 3.2 9.3 + - + +
37C VAL* 3.0 31.2 + - + +
102C SER* 5.6 0.9 - - - -
106C VAL* 5.1 8.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 34 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C GLY 3.0 16.9 + - - +
31C ALA* 3.9 7.9 - - - +
33C THR* 1.3 78.0 - - + +
35C LEU* 1.3 64.4 + - - +
37C VAL* 3.2 10.8 + - + +
38C ILE* 3.0 35.9 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 35 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C ALA* 2.9 19.2 + - + +
32C ALA* 3.6 8.3 - - - +
34C VAL* 1.3 76.5 - - - +
36C LEU* 1.3 59.8 + - - +
38C ILE* 3.1 22.1 + - + +
39C VAL* 2.9 40.4 + - + +
102C SER* 5.7 0.4 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 36 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
32C ALA 2.9 17.7 + - - +
33C THR* 3.2 9.2 + - + +
35C LEU* 1.3 75.3 - - - +
37C VAL* 1.3 60.5 + - + +
39C VAL* 3.0 9.4 + - + +
40C LEU* 2.8 47.4 + - + +
73C ALA* 4.2 14.1 - - + -
95C VAL 4.9 0.4 - - - +
98C ALA* 3.9 13.0 - - + -
99C GLY* 3.8 27.6 - - - +
102C SER* 3.8 16.6 + - - +
103C PHE* 4.1 30.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 37 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C THR* 3.0 24.2 + - + +
34C VAL* 3.4 11.2 - - + +
36C LEU* 1.3 77.6 - - + +
38C ILE* 1.3 64.1 + - + +
40C LEU* 3.3 14.8 + - + +
41C LEU* 3.1 40.1 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 38 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C VAL* 3.0 32.3 + - + +
35C LEU* 3.1 25.5 + - + +
37C VAL* 1.3 79.6 - - + +
39C VAL* 1.3 59.0 + - + +
41C LEU* 3.4 8.7 + - + +
42C ALA* 3.0 34.0 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 39 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
35C LEU* 2.9 25.7 + - + +
36C LEU* 3.0 10.1 + - + +
38C ILE* 1.3 78.1 - - + +
40C LEU* 1.3 55.2 + - - +
42C ALA* 4.7 3.4 - - - -
43C GLY* 2.7 33.1 + - - -
94C VAL* 4.4 15.0 - - + -
95C VAL* 4.0 25.5 - - + +
98C ALA* 3.8 32.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 40 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
36C LEU* 2.8 30.8 + - + +
37C VAL* 3.5 18.4 - - + +
38C ILE 3.2 0.2 - - - -
39C VAL* 1.3 76.3 - - - +
41C LEU* 1.3 59.3 + - + +
43C GLY 3.7 0.3 - - - -
44C SER* 2.8 35.3 + - - -
66C LEU* 4.2 7.9 - - + -
69C SER* 3.4 42.8 + - - +
70C VAL* 4.0 19.1 - - + +
73C ALA* 3.7 19.3 - - + -
95C VAL* 4.2 6.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 41 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C VAL* 3.1 32.1 + - + +
38C ILE* 3.8 8.3 - - + +
40C LEU* 1.3 76.5 - - + +
42C ALA* 1.3 65.2 + - - +
44C SER* 3.3 6.2 + - - -
45C TYR* 3.0 22.7 + - - +
66C LEU* 4.1 25.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 42 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C ILE* 3.0 21.5 + - + +
39C VAL* 4.1 4.0 - - - +
41C LEU* 1.3 76.2 - - - +
43C GLY* 1.3 58.7 + - - +
45C TYR* 3.3 6.3 + - - +
46C LEU* 2.8 47.6 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 43 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
39C VAL* 2.7 24.4 + - - -
40C LEU 3.7 0.9 - - - -
42C ALA* 1.3 73.8 - - - +
44C SER* 1.3 55.6 + - - +
46C LEU* 4.7 1.8 - - - -
47C ALA* 2.9 33.5 + - - +
68C TRP* 4.2 5.3 - - - -
69C SER* 5.1 0.2 - - - -
91C VAL* 3.7 21.2 - - - +
95C VAL* 4.4 9.9 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 44 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
40C LEU 2.8 27.1 + - - -
41C LEU* 3.6 5.4 - - - -
43C GLY* 1.3 73.8 - - - +
45C TYR* 1.3 64.8 + - - +
47C ALA* 3.5 1.7 + - - +
48C VAL* 3.4 25.3 + - - +
62C TYR* 4.6 7.2 - - - -
65C ALA* 3.4 13.5 + - - +
66C LEU* 2.9 46.2 + - - +
68C TRP* 5.1 0.2 - - - -
69C SER* 3.3 5.8 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with TYR 45 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30B THR* 3.6 39.1 + - + -
31B SER* 5.2 1.3 - - - -
52B ILE* 3.7 15.6 - - + +
54B SER* 2.8 23.2 + - - -
55B TYR* 3.8 18.6 - + + +
41C LEU 3.0 14.5 + - - +
42C ALA* 3.6 9.4 - - - +
44C SER* 1.3 78.6 - - - +
46C LEU* 1.3 81.9 + - + +
48C VAL* 3.5 4.3 + - - +
49C LEU* 3.3 29.1 + - + +
62C TYR* 3.9 24.6 + + + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 46 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
55B TYR* 5.2 6.5 - - + +
302B F09 4.0 40.0 - - + +
42C ALA* 2.8 35.9 + - + +
43C GLY* 4.1 2.2 - - - +
45C TYR* 1.3 87.2 - - + +
47C ALA* 1.3 60.8 + - - +
49C LEU* 3.3 18.1 + - + +
50C ALA* 2.9 30.7 + - - +
91C VAL* 4.0 18.1 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 47 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
43C GLY 2.9 18.0 + - - +
44C SER* 3.8 5.2 - - - +
45C TYR 3.4 0.2 - - - -
46C LEU* 1.3 75.9 - - - +
48C VAL* 1.3 57.7 + - - +
50C ALA* 3.2 5.0 + - - -
51C GLU* 2.8 38.0 + - + +
59C LEU* 3.7 31.6 - - + -
65C ALA* 5.1 0.7 - - + -
68C TRP* 3.7 15.7 - - + -
88C GLY* 5.0 3.6 - - - -
91C VAL* 4.4 8.0 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 48 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B TRP* 4.1 4.9 - - + -
44C SER 3.4 14.3 + - - +
45C TYR 3.7 1.1 - - - +
46C LEU 3.3 0.2 - - - -
47C ALA* 1.3 76.6 - - - +
49C LEU* 1.3 63.6 + - - +
52C ARG* 3.0 38.5 + - - +
59C LEU 3.7 9.4 - - - +
60C ILE 3.5 24.0 - - - +
61C THR 3.9 10.8 - - - -
62C TYR* 3.6 44.2 - - + +
65C ALA* 3.8 17.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 49 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33B TRP* 4.2 10.9 - - + -
52B ILE* 3.7 35.2 - - + -
55B TYR* 3.4 48.5 - - + +
57B ARG* 3.7 34.5 + - + +
302B F09 4.2 12.6 - - + +
45C TYR* 3.3 15.7 + - + +
46C LEU* 3.5 23.3 - - + +
47C ALA 3.2 0.4 - - - -
48C VAL* 1.3 82.1 - - - +
50C ALA* 1.3 59.6 + - - +
52C ARG* 4.1 6.6 - - - +
62C TYR* 5.4 0.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 50 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57B ARG* 4.5 6.8 + - - -
302B F09 3.8 16.8 - - + +
46C LEU 2.9 17.2 + - - +
47C ALA 3.7 2.9 - - - +
49C LEU* 1.3 79.4 - - - +
51C GLU* 1.3 59.8 + - - +
52C ARG 3.8 5.0 - - - +
54C ALA* 5.3 0.2 - - - +
85C THR* 3.6 15.3 + - - +
87C TRP* 3.8 17.3 - - + +
88C GLY* 3.6 29.6 - - - +
91C VAL* 5.3 0.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 51 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A TRP* 4.9 0.2 - - - +
47C ALA 2.8 25.9 + - - +
50C ALA* 1.3 71.7 - - - +
52C ARG* 1.3 66.3 + - - +
54C ALA* 3.0 21.8 + - - +
57C ALA* 3.6 17.5 - - + +
59C LEU* 3.4 33.0 - - + +
60C ILE* 4.1 2.2 - - + -
82C TYR 4.3 1.7 - - - +
83C PRO* 3.4 9.9 - - + +
84C VAL* 2.8 35.9 + - - +
85C THR* 2.6 36.8 + - - -
88C GLY* 3.4 12.6 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ARG 52 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
94A TRP* 3.9 11.0 - - + -
96A PHE* 3.9 12.2 - - - -
33B TRP* 3.4 35.6 - - + +
35B HIS* 4.0 1.6 + - - -
50B GLU* 2.9 30.7 + - - +
57B ARG* 3.8 7.6 + - - -
59B ASN* 3.4 24.1 + - - +
99B GLU* 2.7 44.0 + - - -
101B GLY* 3.8 14.3 + - - -
48C VAL* 3.0 25.9 + - + +
49C LEU 4.1 3.8 - - - +
50C ALA 3.6 7.5 - - - +
51C GLU* 1.3 76.3 - - - +
53C GLY* 1.3 58.4 + - - +
54C ALA 3.8 0.2 + - - -
60C ILE* 2.8 42.1 + - + +
61C THR* 4.0 1.0 - - - +
----------------------------------------------------------
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