Contacts of the helix formed by residues 33 - 50 (chain A) in PDB entry 4OG6
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 ASP 33 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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2A GLY 4.4 1.7 + - - -
7A GLN* 3.1 25.6 + - - +
26A GLU* 2.8 21.1 + - - +
31A GLU 3.4 2.1 + - - +
32A PRO* 1.3 68.6 - - - +
34A LEU* 1.4 62.2 + - - +
35A VAL* 3.1 12.3 + - - +
36A LEU* 3.0 24.7 + - + -
37A LEU* 3.1 26.7 + - - +
90A TYR* 2.6 27.3 + - - -
166A GLN* 3.7 9.5 - - - +
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Residues in contact with LEU 34 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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32A PRO 3.2 5.5 + - - +
33A ASP* 1.4 71.3 - - - +
35A VAL* 1.3 57.5 + - - +
38A SER* 3.0 32.6 + - - -
143A LEU* 5.0 0.2 - - - -
159A PHE* 4.1 16.3 - - + -
162A VAL* 4.0 20.0 - - + -
163A GLY* 4.4 15.7 - - - +
166A GLN* 2.9 24.8 + - - +
232A ARG* 4.0 11.0 - - - +
235A GLU* 3.6 42.0 - - + +
236A VAL* 3.9 16.4 - - + -
239A MET* 3.7 22.6 - - + +
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Residues in contact with VAL 35 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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33A ASP* 3.1 7.9 + - - +
34A LEU* 1.3 75.9 - - + +
36A LEU* 1.3 66.9 + - - +
38A SER* 4.0 0.9 - - - -
39A LEU* 3.0 41.1 + - + +
90A TYR* 3.6 25.4 - - + +
93A PHE* 3.6 36.6 - - + -
94A THR* 5.0 1.6 - - + -
143A LEU* 3.8 15.9 - - + +
163A GLY* 3.6 26.2 - - - +
166A GLN* 4.3 2.4 + - - +
167A ALA* 4.6 8.5 - - + -
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Residues in contact with LEU 36 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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3A LEU* 3.9 22.2 - - + -
7A GLN* 3.9 17.5 - - + +
11A PHE* 4.1 12.8 - - + -
22A LEU* 4.3 22.9 - - + -
26A GLU* 3.7 29.2 - - + +
33A ASP* 3.0 22.9 + - - +
35A VAL* 1.3 78.3 - - - +
37A LEU* 1.3 63.1 + - - +
39A LEU* 3.3 3.3 + - - +
40A VAL* 3.0 28.9 + - + +
86A ILE* 3.7 29.2 - - + -
90A TYR* 3.7 12.2 - - + -
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Residues in contact with LEU 37 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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22A LEU* 4.1 15.9 - - + -
23A PHE* 3.8 41.0 - - + +
26A GLU* 3.9 37.2 - - + -
27A LEU* 5.8 0.4 - - + -
32A PRO* 4.2 4.3 - - + -
33A ASP 3.1 18.4 + - - +
35A VAL 3.3 0.2 - - - -
36A LEU* 1.3 80.3 - - + +
38A SER* 1.3 58.2 + - - +
40A VAL* 3.4 4.7 + - - +
41A LEU* 3.0 31.7 + - - +
236A VAL* 4.0 27.8 - - + -
239A MET* 3.5 18.6 - - + -
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Residues in contact with SER 38 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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34A LEU 3.0 19.6 + - - -
35A VAL 4.1 0.2 - - - -
37A LEU* 1.3 74.3 - - - +
39A LEU* 1.3 61.6 + - - +
41A LEU* 3.9 3.0 - - - +
42A GLY* 2.9 26.9 + - - -
142A SER* 3.5 13.4 - - - -
143A LEU* 2.9 32.0 + - - -
159A PHE* 3.6 25.0 - - - -
239A MET* 3.5 11.4 - - - +
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Residues in contact with LEU 39 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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35A VAL* 3.0 32.4 + - + +
36A LEU* 3.7 4.0 - - - +
38A SER* 1.3 76.3 - - - +
40A VAL* 1.3 57.2 + - - +
42A GLY* 3.4 0.5 + - - -
43A PHE* 2.9 31.6 + - - +
86A ILE* 4.5 11.8 - - + +
89A LEU* 3.8 23.1 - - + +
90A TYR* 3.5 42.6 - - + +
93A PHE* 5.0 2.0 - - + -
143A LEU* 3.7 34.8 - - + +
144A PHE* 3.7 13.0 - - + +
147A ILE* 4.5 7.9 - - + -
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Residues in contact with VAL 40 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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11A PHE* 4.2 7.2 - - + -
13A LEU* 3.7 22.7 - - + -
19A VAL* 4.1 24.2 - - + -
22A LEU* 3.9 22.9 - - + -
23A PHE* 4.9 2.7 - - + -
36A LEU* 3.0 21.4 + - + +
37A LEU* 3.7 5.6 - - - +
38A SER 3.3 0.2 - - - -
39A LEU* 1.3 75.5 - - - +
41A LEU* 1.4 62.3 + - - +
43A PHE* 3.3 1.7 + - - +
44A VAL* 3.0 28.5 + - + +
81A ALA* 5.4 1.3 - - + -
86A ILE* 4.0 31.0 - - + -
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Residues in contact with LEU 41 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A VAL* 4.4 4.3 - - + -
23A PHE* 3.6 33.9 - - + -
37A LEU 3.0 16.8 + - - +
38A SER* 4.0 3.8 - - - +
40A VAL* 1.4 75.6 - - - +
42A GLY* 1.3 58.4 + - - +
44A VAL* 3.3 5.2 - - + +
45A GLU* 2.8 33.7 + - - +
142A SER* 5.3 1.8 - - - -
239A MET* 3.7 41.5 - - + +
240A VAL* 4.3 1.8 - - + +
243A ILE* 3.9 24.0 - - + -
259A LEU* 4.1 14.4 - - + -
263A LEU* 3.9 14.6 - - + -
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Residues in contact with GLY 42 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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38A SER 2.9 11.7 + - - -
41A LEU* 1.3 74.5 - - - +
43A PHE* 1.3 59.7 + - - +
45A GLU* 4.0 5.7 - - - +
46A HIS* 2.9 31.4 + - - +
141A GLN* 6.4 0.2 - - - -
142A SER* 3.4 26.8 - - - -
144A PHE* 3.6 15.7 - - - -
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Residues in contact with PHE 43 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39A LEU 2.9 18.2 + - - +
40A VAL 3.6 3.1 - - - +
42A GLY* 1.3 77.4 - - - +
44A VAL* 1.3 74.9 + - + +
46A HIS* 3.2 2.1 + - - +
47A PHE* 3.2 50.9 + + - -
79A PRO* 3.6 26.9 - - + -
80A VAL 3.5 17.5 - - - -
81A ALA* 3.7 18.8 - - + -
85A ILE* 3.9 28.9 - - + -
86A ILE* 4.1 12.1 - - + -
89A LEU* 4.8 0.4 - - + -
144A PHE* 3.7 24.3 - + + -
609A DMS 3.8 19.3 - - + -
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Residues in contact with VAL 44 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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19A VAL* 4.4 9.4 - - + -
40A VAL* 3.0 20.7 + - + +
41A LEU* 3.3 17.3 - - + +
43A PHE* 1.3 88.7 - - + +
45A GLU* 1.3 61.2 + - - +
47A PHE 3.3 1.7 + - - -
48A LEU* 2.9 36.2 + - + +
78A PHE* 3.7 32.3 - - + -
79A PRO* 4.1 8.9 - - + +
81A ALA* 5.1 3.6 - - + -
256A LEU* 4.3 5.8 - - + -
259A LEU* 3.9 25.6 - - + -
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Residues in contact with GLU 45 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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41A LEU* 2.8 23.8 + - - +
42A GLY* 4.0 5.6 - - - +
44A VAL* 1.3 70.5 - - - +
46A HIS* 1.3 60.9 + - - +
49A ALA* 2.8 30.7 + - - +
50A VAL* 3.5 1.4 + - - +
139A HIS* 2.6 35.5 + - + +
141A GLN* 2.9 31.6 + - - +
243A ILE* 3.5 13.6 - - + +
244A ASN* 2.9 34.4 + - - +
256A LEU* 3.9 19.3 - - + -
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Residues in contact with HIS 46 (chain A).
Click here for Legend to table.
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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42A GLY 2.9 18.9 + - - +
43A PHE 3.2 4.7 + - - +
45A GLU* 1.3 76.1 - - - +
47A PHE* 1.3 87.0 + + - +
50A VAL* 2.9 45.3 + - + +
51A ASN* 2.8 29.9 + - + +
144A PHE* 3.4 28.0 - + + -
610A PEG 2.7 37.2 + - - -
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Residues in contact with PHE 47 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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43A PHE* 3.2 46.0 + + - +
44A VAL 3.7 0.4 - - - -
46A HIS* 1.3 102.5 - + - +
48A LEU* 1.3 63.4 + - - +
51A ASN* 3.3 24.5 - - + +
52A ARG* 3.8 9.5 - - - +
53A VAL 5.9 0.4 - - - -
75A LEU* 4.2 9.4 - - + +
79A PRO* 3.5 22.7 - - + -
144A PHE* 4.6 7.4 - + - -
609A DMS 3.4 49.6 - - + +
610A PEG 4.3 7.6 - - - -
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Residues in contact with LEU 48 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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44A VAL* 2.9 22.1 + - + +
47A PHE* 1.3 79.7 - - - +
49A ALA* 1.3 57.3 + - - +
52A ARG* 2.7 35.1 + - - +
75A LEU* 3.9 17.7 - - + -
77A TYR 4.7 2.5 - - - +
78A PHE* 4.1 15.5 - - + -
79A PRO* 3.8 27.6 - - + -
247A ILE* 4.0 0.3 - - - +
253A SER* 3.8 8.1 - - - +
255A GLU* 3.8 42.4 - - + -
256A LEU* 3.8 31.6 - - + +
259A LEU* 5.7 0.7 - - + -
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Residues in contact with ALA 49 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45A GLU 2.8 18.9 + - - +
48A LEU* 1.3 75.6 - - - +
50A VAL* 1.3 62.3 + - - +
51A ASN 3.7 0.4 - - - -
52A ARG* 4.8 2.6 - - - +
139A HIS* 3.6 28.8 + - + -
244A ASN 4.3 0.7 - - - +
245A PRO 4.4 0.4 - - - +
246A SER 3.6 9.3 - - - +
247A ILE* 3.8 33.8 - - + +
256A LEU* 3.7 16.4 - - + -
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Residues in contact with VAL 50 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45A GLU 3.5 1.8 + - - +
46A HIS* 2.9 48.6 + - + +
49A ALA* 1.3 80.0 - - - +
51A ASN* 1.3 57.4 + - - +
52A ARG* 4.2 0.9 - - - -
139A HIS* 3.6 40.8 - - + -
610A PEG 4.3 11.5 - - - +
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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
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Atomic class I II III IV V VI VII VIII
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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