Contacts of the strand formed by residues 37 - 46 (chain C) in PDB entry 2OV2
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 PHE 37 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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35C THR* 3.9 0.9 - - - -
36C VAL* 1.3 82.1 - - - +
38C ASP* 1.3 85.6 + - - +
39C ASN* 3.9 10.5 - - + -
56C TRP* 3.6 28.9 - + + -
57C ASP 3.3 26.2 - - - -
58C THR* 4.6 4.9 - - + -
67C LEU* 4.2 13.0 - - + -
71C SER* 3.1 24.9 - - - -
21K VAL* 3.8 20.0 - - + -
23K THR* 2.8 53.2 + - - +
36K PRO* 4.0 6.3 - - + -
39K TRP* 3.8 20.4 - + + -
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Residues in contact with ASP 38 (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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17C THR* 6.0 0.2 - - - +
35C THR* 3.6 18.0 + - - +
36C VAL 4.9 0.7 + - - -
37C PHE* 1.3 87.9 + - - +
39C ASN* 1.3 60.2 + - - +
40C TYR* 3.5 29.8 + - + +
57C ASP* 2.8 37.4 + - + +
107G HIS* 5.0 4.7 + - - -
19K HIS* 2.8 15.9 + - - -
21K VAL 3.3 4.9 - - - +
22K HIS* 2.7 36.3 + - - -
23K THR 5.0 0.7 - - - +
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Residues in contact with ASN 39 (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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37C PHE* 3.9 10.8 - - + -
38C ASP* 1.3 72.3 - - - +
40C TYR* 1.3 62.7 + - - +
41C SER* 5.3 0.7 + - - -
54C GLY* 4.6 1.6 - - - -
55C LEU 2.9 24.1 + - - +
56C TRP* 3.3 36.2 - - + +
19K HIS* 3.6 3.5 - - - -
20K ARG* 2.7 53.4 + - - +
21K VAL* 3.0 30.9 + - + +
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Residues in contact with TYR 40 (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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17C THR* 3.9 4.7 - - - +
20C LEU* 3.8 25.8 - - + -
21C ILE* 3.8 17.3 - - + -
24C THR* 5.4 1.1 - - + -
38C ASP* 3.5 27.1 + - + +
39C ASN* 1.3 82.5 + - - +
41C SER* 1.3 61.9 + - - +
54C GLY* 3.7 2.4 - - - -
55C LEU* 2.9 49.6 + - + +
57C ASP* 3.0 35.3 + - + -
107G HIS* 3.7 21.5 + + - -
17K PHE* 3.8 25.1 - + + -
18K GLU 3.2 8.1 - - - +
19K HIS* 3.8 22.9 - + - -
20K ARG* 4.5 2.0 - - - -
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Residues in contact with SER 41 (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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24C THR* 5.8 0.2 - - - -
39C ASN* 5.3 0.9 + - - -
40C TYR* 1.3 74.8 + - - +
42C ALA* 1.3 60.9 + - - +
52C ASN* 3.4 21.9 + - - -
53C LEU 3.5 6.1 + - - -
54C GLY* 4.6 4.2 - - - -
55C LEU* 5.5 0.9 - - - -
16K ASN 3.7 1.1 - - - +
17K PHE* 3.3 7.3 - - - -
18K GLU* 2.7 44.1 + - - -
20K ARG* 3.9 21.7 - - - +
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Residues in contact with ALA 42 (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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24C THR* 4.3 18.8 - - + +
41C SER* 1.3 74.8 - - - +
43C ASN* 1.3 62.7 + - - +
44C VAL* 5.1 0.4 - - + -
52C ASN* 3.7 4.8 - - - +
53C LEU* 2.8 42.5 + - + +
55C LEU* 5.3 2.0 - - + -
14K PRO* 4.0 21.3 - - + -
15K SER 3.6 12.1 - - - +
16K ASN 4.1 3.4 - - - -
17K PHE* 4.6 4.9 - - - -
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Residues in contact with ASN 43 (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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1C MET* 3.3 35.2 - - - +
42C ALA* 1.3 73.9 - - - +
44C VAL* 1.3 62.6 + - - +
45C MET* 5.7 5.6 - - + -
50C PRO* 5.6 2.2 - - - +
51C VAL 3.5 2.6 - - - +
52C ASN* 4.1 6.6 - - - +
13K ALA 4.1 0.2 - - - +
14K PRO* 3.2 7.4 - - - +
15K SER* 2.8 48.8 + - - +
16K ASN* 3.7 22.3 + - - +
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Residues in contact with VAL 44 (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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23C TYR* 4.0 17.7 - - - +
42C ALA* 4.6 1.1 - - + +
43C ASN* 1.3 80.3 - - - +
45C MET* 1.3 68.3 + - - +
46C VAL* 3.7 4.3 + - + -
50C PRO* 3.5 1.7 - - - +
51C VAL* 2.7 42.1 + - + +
53C LEU* 4.3 24.5 - - + -
173C ILE* 4.2 12.6 - - + -
11K ILE* 3.7 20.6 - - + -
12K SER* 3.2 30.1 - - - +
13K ALA 4.4 1.8 - - - +
14K PRO* 4.2 8.5 - - + -
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Residues in contact with MET 45 (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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43C ASN* 5.7 5.4 - - + -
44C VAL* 1.3 74.7 - - - +
46C VAL* 1.3 61.4 + - - +
47C ASP 4.1 0.4 - - - -
48C GLY* 4.0 25.1 - - - +
49C LYS 3.6 1.3 - - - -
50C PRO* 3.6 38.4 - - + -
10K GLU 3.6 2.1 - - - +
11K ILE* 3.3 4.7 - - - -
12K SER* 2.8 52.4 + - - +
15K SER* 6.1 0.9 - - - +
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Residues in contact with VAL 46 (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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44C VAL* 4.3 11.7 - - + +
45C MET* 1.3 73.8 - - - +
47C ASP* 1.3 84.4 + - + +
48C GLY 3.2 0.2 - - - -
49C LYS* 2.8 30.5 + - - +
51C VAL* 3.5 29.8 - - + -
173C ILE* 4.0 22.7 - - + -
177C LEU* 4.3 16.6 - - + -
178C GLY 6.1 0.9 - - - +
10K GLU 3.7 2.2 - - - -
11K ILE* 4.2 17.0 - - + -
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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