Contacts of the strand formed by residues 32 - 40 (chain A) in PDB entry 3ZWG
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 LYS 32 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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23A LEU* 2.8 42.3 + - + +
24A GLU* 4.0 7.3 - - - +
26A LEU* 3.6 24.7 - - + -
27A GLY 2.8 23.5 + - - +
28A ASN* 4.9 0.8 + - - +
29A VAL* 3.6 20.2 - - + -
31A ARG* 1.3 77.6 - - - +
33A ILE* 1.3 59.8 + - - +
75A GLY 3.4 6.5 - - - +
76A GLN* 4.2 0.9 - - + +
86A VAL* 4.5 6.8 - - - +
106A VAL* 4.8 0.5 - - - +
168A GLY 3.2 7.3 + - - +
169A HIS* 3.5 43.5 + - + -
170A ALA* 2.8 25.6 + - - +
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Residues in contact with ILE 33 (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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23A LEU* 3.9 4.3 - - - -
26A LEU* 4.4 0.7 - - - +
32A LYS* 1.3 76.6 - - - +
34A ALA* 1.3 70.3 + - - +
35A VAL* 4.0 15.9 - - + -
74A ASN* 3.2 8.1 - - - +
75A GLY* 2.9 41.6 + - - +
86A VAL* 4.4 4.7 - - + -
104A PHE* 3.8 48.0 - - + -
106A VAL* 4.0 10.8 - - + -
164A MET* 3.8 22.4 - - + -
170A ALA* 3.4 17.3 - - + +
171A ILE 4.7 0.2 - - - +
172A LEU* 4.3 7.6 - - + +
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Residues in contact with ALA 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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19A LEU* 3.6 26.7 - - + +
22A VAL* 3.5 27.1 - - + -
23A LEU* 3.6 13.2 - - + +
33A ILE* 1.3 75.4 - - - +
35A VAL* 1.3 61.3 + - - +
73A TYR 3.7 4.5 - - - -
170A ALA 2.9 9.6 + - - +
171A ILE* 3.7 3.8 - - + -
172A LEU 3.1 24.8 + - - +
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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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19A LEU* 3.8 8.5 - - - +
22A VAL* 5.6 0.2 - - - +
33A ILE* 4.0 30.5 - - + -
34A ALA* 1.3 78.1 - - - +
36A GLY* 1.3 62.1 + - - +
37A ILE* 4.1 23.3 - - + -
71A LEU* 5.7 0.4 - - + -
72A LEU* 3.6 3.1 - - - +
73A TYR* 2.9 49.6 + - + +
90A ILE* 4.5 13.9 - - + -
102A VAL* 5.3 0.9 - - + -
104A PHE* 4.8 11.4 - - + -
172A LEU* 3.5 26.0 - - + +
174A ILE* 5.2 0.7 - - + -
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Residues in contact with GLY 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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14A LEU* 3.7 14.5 - - - +
19A LEU* 3.8 13.5 - - - +
35A VAL* 1.3 76.9 - - - +
37A ILE* 1.3 66.2 + - - +
71A LEU 3.3 11.2 - - - -
72A LEU* 4.5 0.4 - - - -
172A LEU 3.0 12.1 + - - +
173A GLU* 3.7 1.2 - - - -
174A ILE* 3.0 25.3 + - - +
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Residues in contact with ILE 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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14A LEU* 3.7 4.7 - - - +
35A VAL* 4.1 18.8 - - + -
36A GLY* 1.3 80.8 - - - +
38A ASP* 1.3 63.7 + - - +
39A ASN* 3.7 0.9 + - - +
45A TRP* 3.5 30.8 - - + -
69A LYS 4.2 0.2 - - - +
70A ALA* 3.1 2.6 - - - -
71A LEU* 3.0 56.1 + - + +
90A ILE* 4.9 11.4 - - + -
92A TYR* 5.4 1.6 - - + -
100A LEU* 4.8 3.8 - - + -
102A VAL* 4.1 28.0 - - + -
174A ILE* 3.4 22.2 - - + +
176A VAL* 4.6 3.1 - - + -
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Residues in contact with ASP 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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11A GLY* 3.2 30.1 - - - +
14A LEU* 3.7 5.9 - - + +
37A ILE* 1.3 71.4 - - - +
39A ASN* 1.3 64.8 + - - +
40A GLU* 2.7 37.4 + - - +
45A TRP* 3.8 5.7 - - - -
69A LYS 3.9 0.9 - - - +
70A ALA* 3.9 6.5 - - - -
174A ILE 2.9 7.9 + - - +
175A HIS* 3.1 40.6 + - + +
176A VAL 3.1 22.7 + - - +
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Residues in contact with ASN 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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37A ILE 3.7 0.8 + - - -
38A ASP* 1.3 72.1 + - - +
40A GLU* 1.3 54.9 + - - +
41A SER* 2.5 27.5 + - - -
43A LYS 3.0 20.8 + - - +
45A TRP* 3.0 28.0 - - + +
65A VAL* 3.1 33.3 + - + -
66A ALA 3.2 10.9 + - - +
67A HIS* 3.6 1.2 - - - -
68A GLY* 2.6 35.3 + - - -
69A LYS 2.8 20.2 + - - +
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Residues in contact with GLU 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 GLY* 4.1 3.5 - - - -
38A ASP* 2.7 35.9 - - - +
39A ASN* 1.3 74.1 - - - +
41A SER* 1.3 62.2 + - - +
42A GLY 3.3 4.1 + - - -
67A HIS* 3.4 28.2 + - + -
68A GLY* 3.3 20.8 - - - +
175A HIS* 5.7 0.4 - - - +
176A VAL 2.8 19.0 + - - +
177A THR* 3.8 19.3 - - + -
178A LYS* 3.3 19.1 + - - -
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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