Contacts of the helix formed by residues 44 - 62 (chain C) in PDB entry 3QS7
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 CYS 44 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
41C GLU* 3.0 7.1 + - + +
43C LEU* 1.3 89.7 - - - +
45C GLY* 1.3 56.3 + - - +
46C GLY 3.5 1.3 - - - -
47C LEU* 3.0 7.1 + - - +
48C TRP* 2.8 63.4 + - + -
126C ARG* 4.1 6.3 - - - -
127C CYS* 2.0 57.2 - - + -
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Residues in contact with GLY 45 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C LEU* 4.6 4.0 - - - +
39C GLN 5.2 1.6 - - - -
41C GLU 2.8 24.9 + - - -
42C GLU* 4.8 0.9 - - - -
43C LEU 3.6 0.6 - - - -
44C CYS* 1.3 72.0 - - - +
46C GLY* 1.3 61.8 + - - +
48C TRP* 3.2 24.4 + - - +
49C ARG* 3.3 13.5 + - - +
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Residues in contact with GLY 46 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
42C GLU 6.2 0.2 - - - -
43C LEU 5.4 0.8 + - - -
44C CYS 3.5 0.4 - - - -
45C GLY* 1.3 73.4 - - - +
47C LEU* 1.3 55.7 - - - +
49C ARG* 3.4 3.0 + - - +
50C LEU* 2.9 38.4 + - - +
111C GLN* 3.9 26.9 - - - -
115C LEU* 4.8 4.5 - - - -
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Residues in contact with LEU 47 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
4C CYS* 5.0 2.7 - - - -
6C PHE* 5.4 4.5 - - + -
43C LEU 4.6 2.7 + - - +
44C CYS* 3.0 15.4 + - - +
46C GLY* 1.3 73.2 - - - +
48C TRP* 1.3 56.5 + - - +
50C LEU* 3.4 4.8 + - - +
51C VAL* 3.0 34.7 + - - +
81C PHE* 4.6 7.2 - - + -
82C VAL* 4.4 18.8 - - + -
87C PHE* 3.7 26.5 - - + -
115C LEU* 3.8 27.5 - - + +
119C ILE* 4.8 7.6 - - + -
124C PHE* 3.6 35.4 - - + -
127C CYS* 3.8 15.3 - - + -
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Residues in contact with TRP 48 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C LEU* 3.7 28.0 - - + -
39C GLN* 3.4 45.5 - - + -
41C GLU* 3.9 15.9 - - + -
44C CYS* 2.8 32.3 + - + +
45C GLY* 3.2 17.2 + - - +
47C LEU* 1.3 71.0 - - - +
49C ARG* 1.3 57.0 + - - +
51C VAL* 3.3 8.3 + - - +
52C LEU* 3.1 32.5 + - - +
87C PHE* 4.4 4.5 - + - -
126C ARG 5.0 1.3 - - - -
127C CYS* 2.7 32.0 + - + -
129C GLU 3.5 15.9 - - - -
130C LEU* 3.4 33.6 - - + +
131C GLN* 3.6 22.0 - - + -
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Residues in contact with ARG 49 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C LEU* 4.3 8.5 - - + +
45C GLY 3.3 9.6 + - - +
46C GLY* 3.8 3.4 - - - +
48C TRP* 1.3 76.3 - - - +
50C LEU* 1.3 54.4 + - - +
52C LEU* 3.2 12.1 + - + +
53C ALA* 2.7 36.2 + - - +
104C LEU* 5.5 1.0 - - - +
107C GLU* 5.9 0.4 - - - +
111C GLN* 3.0 32.9 + - - +
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Residues in contact with LEU 50 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
46C GLY 2.9 16.8 + - - +
47C LEU* 3.7 5.2 - - - +
49C ARG* 1.3 73.4 - - - +
51C VAL* 1.3 56.5 + - - +
53C ALA* 3.6 2.7 - - - +
54C GLN* 2.7 36.7 + - - +
79C ILE* 3.9 29.2 - - + +
81C PHE* 4.4 9.9 - - + -
82C VAL* 4.1 12.3 - - + +
108C THR* 3.9 22.9 - - + +
111C GLN* 3.4 22.9 - - + +
112C LEU* 4.1 17.5 - - + -
115C LEU* 3.5 32.1 - - + -
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Residues in contact with VAL 51 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C LEU 3.0 20.8 + - - +
48C TRP* 3.4 9.9 - - - +
49C ARG 3.2 0.2 - - - -
50C LEU* 1.3 76.1 - - - +
52C LEU* 1.3 60.7 + - + +
54C GLN* 3.3 5.2 - - - +
55C ARG* 3.0 26.1 + - + +
82C VAL* 3.8 20.0 - - + -
87C PHE* 3.6 56.1 - - + -
130C LEU* 5.2 7.4 - - + -
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Residues in contact with LEU 52 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33C THR 6.1 1.1 - - - +
34C VAL* 6.2 2.0 - - - -
35C ALA* 3.8 35.4 - - + +
38C LEU* 4.1 12.6 - - + -
48C TRP 3.1 15.7 + - - +
49C ARG* 3.2 10.1 + - + +
51C VAL* 1.3 78.2 - - + +
53C ALA* 1.3 64.3 + - - +
55C ARG* 3.1 11.7 + - + +
56C TRP* 3.1 28.0 + - + +
90C PRO* 4.4 11.0 - - + -
94C LEU* 4.8 0.4 - - + -
96C PHE* 4.0 24.2 - - + -
104C LEU* 5.6 0.2 - - - -
130C LEU* 4.2 20.6 - - + -
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Residues in contact with ALA 53 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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49C ARG 2.7 20.6 + - - +
50C LEU* 3.7 8.1 - - - +
52C LEU* 1.3 71.6 - - - +
54C GLN* 1.3 57.9 + - - +
56C TRP* 3.0 20.3 + - - +
57C MET* 3.1 19.0 + - + +
79C ILE* 4.1 9.2 - - + -
104C LEU* 4.0 23.5 - - + +
108C THR* 3.3 26.5 - - - +
111C GLN* 4.9 1.1 - - - +
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Residues in contact with GLN 54 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
50C LEU 2.7 22.7 + - - +
51C VAL 3.3 7.0 - - - +
53C ALA* 1.3 72.8 - - - +
55C ARG* 1.3 66.8 + - - +
57C MET* 3.1 13.4 + - - +
58C GLU* 3.1 32.2 + - - +
76C ASN* 2.9 26.2 + - - +
79C ILE* 3.5 35.8 - - + +
80C HIS* 3.4 15.5 + - - -
82C VAL* 3.7 11.4 - - + +
83C THR* 3.6 20.4 - - - +
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Residues in contact with ARG 55 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
51C VAL 3.0 14.6 + - - +
52C LEU* 3.1 14.8 + - + +
54C GLN* 1.3 80.6 + - - +
56C TRP* 1.3 61.0 - - + +
58C GLU* 3.6 8.2 + - - +
59C ARG* 3.4 19.2 + - - +
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Residues in contact with TRP 56 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30C TYR* 4.4 7.2 - + - -
31C PRO 3.9 7.6 - - - -
32C VAL* 3.5 23.1 - - + -
33C THR* 3.0 62.2 + - + +
52C LEU* 3.1 18.4 + - + +
53C ALA 3.0 12.2 + - - +
55C ARG* 1.3 75.0 - - + +
57C MET* 1.3 58.2 + - + +
58C GLU 3.2 2.0 - - - -
59C ARG* 3.3 15.8 + - + -
60C LEU* 2.9 55.3 + - + +
104C LEU* 3.9 21.8 - - + -
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Residues in contact with MET 57 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22C LEU* 4.7 0.9 - - + -
53C ALA 3.1 19.6 + - - +
54C GLN 3.1 7.4 + - - +
56C TRP* 1.3 75.7 - - - +
58C GLU* 1.3 57.5 + - - +
60C LEU* 3.8 11.3 + - + +
61C LYS* 3.2 25.6 + - - +
72C LEU* 4.3 30.1 - - - +
75C VAL* 3.7 21.8 - - + -
76C ASN* 3.7 31.3 + - + +
79C ILE* 4.0 19.3 - - + -
101C ILE* 6.1 0.2 - - + -
104C LEU* 5.1 10.1 - - + -
105C LEU* 3.4 32.1 - - + -
108C THR* 5.1 8.1 - - + +
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Residues in contact with GLU 58 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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54C GLN* 3.1 37.3 + - - +
55C ARG* 3.7 9.6 - - - +
56C TRP 3.2 0.4 - - - -
57C MET* 1.3 76.1 - - - +
59C ARG* 1.3 64.1 + - - +
61C LYS* 3.2 19.8 + - - +
62C THR* 3.5 13.7 - - - +
76C ASN* 3.2 20.2 + - - +
80C HIS* 3.8 11.1 + - - -
307G ARG* 4.6 1.0 + - - -
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Residues in contact with ARG 59 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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55C ARG 3.4 9.9 + - - +
56C TRP* 3.3 26.1 + - + +
58C GLU* 1.3 77.3 - - - +
60C LEU* 1.3 59.1 + - - +
62C THR* 2.5 28.3 + - - -
63C VAL* 3.9 7.8 + - - +
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Residues in contact with LEU 60 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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30C TYR* 3.5 41.7 - - + +
32C VAL* 4.7 4.3 - - + -
56C TRP* 2.9 37.9 + - + +
57C MET* 3.9 11.2 - - + +
58C GLU 3.2 0.2 - - - -
59C ARG* 1.3 74.1 - - - +
61C LYS* 1.3 64.6 + - - +
63C VAL* 3.2 8.0 + - + +
64C ALA* 3.2 22.7 + - - +
72C LEU* 3.4 26.6 - - + +
101C ILE* 3.3 32.1 - - + -
104C LEU* 5.8 0.7 - - + -
27D LEU* 4.2 9.9 - - + +
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Residues in contact with LYS 61 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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57C MET 3.2 15.8 + - - +
58C GLU* 3.2 14.3 + - - +
60C LEU* 1.3 74.8 - - - +
62C THR* 1.3 61.4 + - + +
64C ALA* 3.3 8.1 + - - -
69C GLN* 3.0 37.0 + - + +
72C LEU* 3.5 17.7 - - + +
73C GLU* 5.7 6.1 - - + +
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Residues in contact with THR 62 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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62A THR* 3.3 42.7 + - - +
63A VAL* 4.6 12.3 - - + +
58C GLU 3.5 15.0 - - - +
59C ARG* 2.5 22.7 + - - +
61C LYS* 1.3 77.9 - - + +
63C VAL* 1.3 66.0 + - - +
64C ALA 3.5 1.7 - - - +
69C GLN* 4.9 3.7 + - - +
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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) + - + + + + + -
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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