Contacts of the helix formed by residues 49 - 67 (chain C) in PDB entry 2G33
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 SER 49 (chain C).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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47C HIS 2.3 19.4 + - - +
48C ALA* 1.3 75.7 - - - +
50C PRO* 1.3 76.2 - - - +
51C HIS* 3.3 19.5 + - - +
52C HIS* 2.5 37.0 + - - +
53C THR* 3.0 16.2 + - - -
50D PRO* 6.5 0.2 - - - -
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Residues in contact with PRO 50 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C PHE* 4.0 18.6 - - + -
49C SER* 1.3 86.6 - - - +
51C HIS* 1.3 78.4 + - + +
52C HIS 3.0 0.5 + - - -
53C THR* 3.1 9.9 + - + +
54C ALA* 2.7 27.8 + - - +
47D HIS* 3.8 36.1 - - + +
50D PRO* 5.9 4.7 - - + -
53D THR* 4.3 15.7 - - + +
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Residues in contact with HIS 51 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C PHE* 3.5 24.8 - + - -
49C SER* 3.4 13.0 - - - +
50C PRO* 1.3 86.1 - - + +
52C HIS* 1.3 68.2 + - - +
55C LEU* 3.0 22.6 + - - +
103C PHE* 4.5 9.0 - + - -
104C HIS* 3.0 29.6 + + - +
107C ALA* 4.0 21.5 - - + +
108C LEU* 3.3 30.4 - - + +
112C ARG* 3.4 31.6 + - + +
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Residues in contact with HIS 52 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
38C TYR* 6.0 3.1 - + + -
41C ALA* 4.9 14.0 - - + +
42C LEU* 4.3 19.5 - - + -
47C HIS 5.0 1.6 - - - -
48C ALA* 3.9 20.5 - - + +
49C SER* 2.5 46.0 + - - +
51C HIS* 1.3 83.4 - - - +
53C THR* 1.3 70.0 + - - +
54C ALA 3.0 0.2 + - - -
55C LEU* 3.0 10.9 + - - +
56C ARG* 3.1 36.7 + - - +
108C LEU* 3.8 30.1 - - + +
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Residues in contact with THR 53 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C HIS* 3.2 10.9 + - - +
49C SER 3.0 13.9 + - - -
50C PRO* 3.3 11.9 - - - +
52C HIS* 1.3 79.6 - - - +
54C ALA* 1.3 70.7 + - - +
56C ARG* 3.3 16.8 - - - +
57C GLN* 3.8 8.7 + - - +
8D GLU* 2.5 40.2 + - - +
9D PHE* 4.8 5.8 - - + -
50D PRO* 4.1 31.0 - - + +
53D THR* 4.9 3.1 - - - -
54D ALA* 5.0 6.5 - - + +
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Residues in contact with ALA 54 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
9C PHE* 4.3 2.9 - - + -
50C PRO 2.7 19.2 + - - +
51C HIS 3.8 2.0 - - - +
53C THR* 1.3 78.5 - - - +
55C LEU* 1.3 70.1 + - - +
57C GLN* 2.6 23.0 + - - +
104C HIS* 4.1 13.9 - - + -
53D THR* 3.6 24.2 - - + +
54D ALA* 5.3 0.2 - - - +
57D GLN* 4.0 26.5 - - - +
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Residues in contact with LEU 55 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
34C ALA* 6.2 2.0 - - + -
42C LEU* 4.5 18.6 - - + -
51C HIS 3.0 18.5 + - - +
52C HIS* 3.0 7.2 + - - +
54C ALA* 1.3 75.4 - - - +
56C ARG* 1.3 92.3 + - + +
58C ALA* 2.6 32.1 + - + +
59C ILE* 2.9 18.5 - - + +
100C LEU* 5.9 0.7 - - - -
101C LEU* 5.2 5.2 - - + +
104C HIS* 3.9 33.7 + - + -
105C ILE* 4.4 18.6 - - + +
108C LEU* 5.4 8.1 - - + -
57D GLN* 4.4 2.2 + - - -
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Residues in contact with ARG 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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41C ALA 3.3 21.0 + - - -
42C LEU* 2.6 44.4 + - + +
44C SER 3.2 13.9 + - - -
46C GLU 3.3 21.7 + - - -
47C HIS* 4.8 0.6 - - - +
52C HIS* 3.1 26.6 - - - +
53C THR 3.3 16.7 - - - +
54C ALA 2.8 2.4 + - - -
55C LEU* 1.3 90.5 - - + +
57C GLN* 1.3 71.5 + - - +
59C ILE* 3.1 14.4 + - - +
60C LEU* 3.4 17.7 + - + +
3D ILE* 5.2 13.0 - - + +
4D ASP 5.0 10.9 + - - -
5D PRO* 5.9 5.2 - - + -
7D LYS* 6.0 0.2 - - - +
8D GLU* 3.9 28.2 + - - +
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Residues in contact with GLN 57 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
53C THR* 4.2 8.2 + - - +
54C ALA 2.6 21.6 + - - +
56C ARG* 1.3 76.0 - - - +
58C ALA* 1.3 65.7 + - - +
60C LEU* 2.8 17.5 + - - +
61C ALA* 2.9 16.6 + - + -
5D PRO* 4.2 26.8 + - - +
8D GLU* 5.8 1.4 + - - -
9D PHE* 6.0 2.8 - - - -
54D ALA* 4.3 24.0 - - - +
57D GLN* 3.6 29.4 - - + -
58D ALA* 4.6 9.8 - - - +
100D LEU* 3.5 25.8 - - - +
104D HIS* 5.4 3.6 + - - -
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Residues in contact with ALA 58 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
54C ALA 3.9 0.2 + - - -
55C LEU* 2.6 25.8 + - + +
57C GLN* 1.3 74.6 - - - +
59C ILE* 1.3 68.8 + - + +
61C ALA* 3.4 3.8 + - - +
62C TRP* 2.9 22.4 + - - +
97C PHE* 3.5 18.4 - - + -
100C LEU* 4.5 22.0 - - + -
101C LEU* 5.0 9.4 - - + -
57D GLN* 4.7 10.3 + - - +
61D ALA* 6.1 0.4 - - - -
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Residues in contact with ILE 59 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
31C LEU* 5.5 13.9 - - + -
55C LEU* 2.9 47.6 - - + +
56C ARG* 3.4 9.9 - - - +
57C GLN 2.8 3.0 + - - -
58C ALA* 1.3 73.2 - - + +
60C LEU* 1.3 63.6 + - + +
62C TRP* 2.6 17.4 + - + +
63C GLY* 2.4 37.5 + - - +
101C LEU* 5.5 9.9 - - + -
1D MET* 5.8 8.7 - - + +
3D ILE* 5.7 3.8 - - + -
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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
----------------------------------------------------------
56C ARG 3.6 14.8 - - - +
57C GLN* 2.8 11.0 + - - +
59C ILE* 1.3 79.2 - - + +
61C ALA* 1.3 60.6 + - - +
63C GLY* 3.7 4.4 - - - +
64C ASP* 2.8 35.1 + - - +
1D MET 5.0 4.9 - - - +
3D ILE* 3.3 43.7 - - + +
5D PRO* 3.3 39.3 - - + -
96D LYS* 6.3 0.7 - - - +
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Residues in contact with ALA 61 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
57C GLN* 2.9 13.7 + - + +
58C ALA* 3.7 8.5 - - - +
60C LEU* 1.3 76.4 - - - +
62C TRP* 1.3 57.0 + - - +
64C ASP* 3.6 15.0 - - - +
65C LEU* 3.2 23.7 - - - +
97C PHE* 4.7 2.0 - - + -
57D GLN 5.4 0.7 - - - +
58D ALA* 6.0 1.8 - - - -
61D ALA* 3.6 31.3 - - + +
65D LEU* 5.9 1.9 - - - +
97D PHE* 4.1 19.3 - - + -
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Residues in contact with TRP 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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27C VAL* 3.7 42.3 - - + +
31C LEU* 4.6 10.7 - - + +
58C ALA 2.9 12.9 + - - +
59C ILE* 2.6 22.6 + - + +
61C ALA* 1.3 69.6 - - - +
63C GLY* 1.3 62.6 + - - -
64C ASP 2.9 1.6 - - - -
65C LEU* 2.5 50.7 + - + +
66C MET* 3.0 42.7 + - + +
89C VAL* 5.1 12.1 - - + -
90C ASN* 4.8 11.2 - - - -
93C VAL* 5.5 2.2 - - + -
94C GLY* 4.1 23.6 - - - -
97C PHE* 3.6 32.7 - + + -
101C LEU* 5.8 5.8 - - + -
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Residues in contact with GLY 63 (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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59C ILE* 2.4 27.1 + - - -
60C LEU* 3.2 5.8 + - - -
62C TRP* 1.3 74.2 - - - +
64C ASP* 1.3 56.2 + - - +
66C MET* 3.3 6.3 + - - +
67C THR* 2.9 36.2 + - - -
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Residues in contact with ASP 64 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
60C LEU* 2.8 29.4 + - - +
61C ALA* 3.6 13.8 - - - +
62C TRP 2.9 0.6 - - - -
63C GLY* 1.3 76.5 - - - +
65C LEU* 1.3 61.0 + - + +
67C THR* 3.5 14.2 - - - +
68C LEU* 3.0 22.5 + - - +
88D TYR* 4.3 6.7 + - - +
93D VAL* 4.9 11.2 - - + -
96D LYS* 3.0 43.1 + - - +
97D PHE* 4.2 9.4 - - + -
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Residues in contact with LEU 65 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
61C ALA 3.2 21.5 - - - +
62C TRP* 2.5 39.8 + - + +
64C ASP* 1.3 78.5 - - + +
66C MET* 1.3 56.1 + - + +
67C THR 3.0 4.9 - - - -
68C LEU* 3.1 22.0 - - + +
69C ALA* 2.8 31.5 + - - +
89C VAL* 6.3 4.3 - - + -
93C VAL* 6.2 6.7 - - + -
97C PHE* 5.0 7.9 - - + -
61D ALA* 6.0 1.3 - - + +
65D LEU* 4.3 27.8 - - + -
68D LEU* 6.4 0.2 - - + -
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Residues in contact with MET 66 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
27C VAL* 5.8 0.4 - - - -
28C ARG* 4.2 23.6 - - - +
31C LEU* 5.3 3.6 - - - -
62C TRP* 3.0 44.8 + - + +
63C GLY* 3.3 7.8 + - - +
65C LEU* 1.3 76.4 - - + +
67C THR* 1.3 56.7 + - - +
68C LEU 3.2 1.8 - - - -
69C ALA* 4.3 7.0 - - + +
70C THR* 3.3 26.2 + - - +
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Residues in contact with THR 67 (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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63C GLY 2.9 19.9 + - - -
64C ASP* 3.5 15.7 - - - +
65C LEU 3.0 0.2 - - - -
66C MET* 1.3 76.2 - - - +
68C LEU* 1.3 58.8 + - - +
70C THR* 3.6 12.3 + - - +
71C TRP* 4.3 7.4 - - - +
88D TYR* 3.8 13.0 + - - +
92D ASN* 6.3 0.9 - - - +
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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