Contacts of the helix formed by residues 75 - 90 (chain C) in PDB entry 1Z1G
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 THR 75 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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74C VAL* 1.3 99.8 - - + +
76C LEU* 1.3 65.7 + - - +
78C SER* 2.5 42.9 + - - +
79C TRP* 2.9 20.3 + - - +
113C ASP* 3.1 27.5 + - - -
114C ALA 3.2 10.1 - - - -
116C LEU* 3.5 2.6 - - - +
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Residues in contact with LEU 76 (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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75C THR* 1.3 71.5 + - - +
77C HIS* 1.3 66.1 + - + +
79C TRP* 3.0 11.6 + - + -
80C LEU* 2.8 57.0 + - + +
107C ILE* 4.9 7.4 - - + -
111C LEU* 4.1 22.2 - - + -
112C PRO 3.8 21.5 - - - +
113C ASP* 3.5 0.6 + - - +
114C ALA 2.8 17.6 + - - +
116C LEU* 3.5 10.7 - - + +
119C ILE* 3.4 31.4 - - + -
147C LEU* 5.4 8.7 - - + -
151C PHE* 5.6 4.0 - - + -
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Residues in contact with HIS 77 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C LEU* 1.3 77.1 - - + +
78C SER* 1.3 53.6 + - - -
80C LEU* 3.2 11.8 + - + -
81C ASP* 2.9 37.8 + - - +
107C ILE* 6.2 0.4 - - + -
108C ARG* 2.8 70.3 + - + +
111C LEU* 3.2 13.1 + - + -
112C PRO 4.1 2.5 - - - -
113C ASP* 2.5 52.6 + - + +
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Residues in contact with SER 78 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C VAL* 4.5 2.6 - - - +
75C THR* 2.5 38.6 + - - +
77C HIS* 1.3 77.1 - - - +
79C TRP* 1.3 57.4 + - - +
81C ASP* 3.5 10.6 - - - +
82C ARG* 3.4 15.4 + - - +
113C ASP* 3.9 3.4 + - - -
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Residues in contact with TRP 79 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
74C VAL* 3.7 15.7 - - + -
75C THR 2.9 18.1 + - - +
76C LEU* 3.8 7.2 - - + +
78C SER* 1.3 69.6 - - - +
80C LEU* 1.3 65.7 + - + +
81C ASP 3.0 1.8 - - - -
82C ARG* 2.8 21.1 + - + +
83C TYR* 2.3 40.7 + + + +
86C ILE* 4.3 17.5 - - + -
116C LEU* 3.9 19.0 - - + +
150C ALA* 3.1 21.6 + - - +
151C PHE* 5.0 0.6 - - - +
153C GLU* 3.6 13.0 - - + -
154C ALA* 2.9 50.2 - - + +
157C GLU* 4.0 25.4 - - + -
159C HIS* 4.4 13.5 - + - -
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Residues in contact with LEU 80 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
76C LEU* 2.8 50.9 - - + +
77C HIS* 3.5 18.4 - - + +
79C TRP* 1.3 81.1 - - + +
81C ASP* 1.3 54.7 + - - +
83C TYR* 2.7 10.9 + - + +
84C GLU* 2.6 41.2 + - - +
104C ILE* 4.6 18.8 - - + +
107C ILE* 5.0 14.8 - - + -
108C ARG* 4.2 12.1 - - - +
147C LEU* 5.0 8.3 - - + -
150C ALA* 4.6 17.7 - - + -
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Residues in contact with ASP 81 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
77C HIS* 2.9 16.4 + - - +
78C SER* 3.5 15.3 + - - +
79C TRP 3.0 0.2 - - - -
80C LEU* 1.3 76.8 - - - +
82C ARG* 1.3 60.3 + - - +
84C GLU* 3.2 24.4 - - - +
85C LYS* 3.7 8.7 + - - +
108C ARG* 2.5 34.8 + - - +
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Residues in contact with ARG 82 (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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129B ASN* 4.8 9.3 + - - +
78C SER 3.4 6.6 + - - +
79C TRP* 2.8 25.0 + - + +
81C ASP* 1.3 78.6 - - - +
83C TYR* 1.3 69.6 + - - +
84C GLU 3.0 1.3 - - - -
85C LYS* 3.0 20.5 + - + +
86C ILE* 3.0 29.9 + - + +
157C GLU* 2.7 40.6 + - - -
159C HIS* 5.3 4.9 + - - -
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Residues in contact with TYR 83 (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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79C TRP* 2.3 36.6 + + + +
80C LEU* 3.0 21.1 - - + +
82C ARG* 1.3 69.8 - - - +
84C GLU* 1.3 62.8 + - - +
86C ILE* 2.7 17.9 + - + +
87C LEU* 2.5 62.6 - - + +
90C ARG* 5.9 0.2 - - - -
100C TYR* 5.2 2.4 - - - -
104C ILE* 4.6 17.5 - - + -
146C THR* 3.9 21.1 - - + +
149C ASP* 2.3 40.7 + - - +
150C ALA* 3.1 42.0 - - + -
153C GLU* 4.9 9.4 - - + -
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Residues in contact with GLU 84 (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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80C LEU 2.6 29.2 + - - +
81C ASP* 3.2 15.6 - - - +
83C TYR* 1.3 73.1 - - - +
85C LYS* 1.3 57.2 + - + +
87C LEU* 2.7 40.7 + - - +
88C ALA* 3.2 5.2 + - - +
101C MSE 3.3 45.0 - - + +
104C ILE* 3.7 20.2 - - + +
108C ARG* 3.7 22.2 + - - -
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Residues in contact with LYS 85 (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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81C ASP 3.7 8.1 + - - +
82C ARG* 3.0 17.7 + - + +
84C GLU* 1.3 80.8 - - + +
86C ILE* 1.3 63.6 + - + +
88C ALA* 3.0 25.5 + - + +
89C SER* 3.4 7.1 + - - -
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Residues in contact with ILE 86 (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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129B ASN* 6.2 0.2 - - - +
169B ARG* 5.6 1.6 - - - +
79C TRP* 4.3 16.4 - - + -
82C ARG* 3.0 48.0 - - + +
83C TYR* 2.7 18.8 + - + +
85C LYS* 1.3 73.2 - - + +
87C LEU* 1.3 70.2 + - + +
89C SER* 3.1 21.9 - - - -
90C ARG* 3.4 11.4 + - + +
153C GLU* 4.1 26.5 - - + +
157C GLU* 4.4 12.6 - - - +
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Residues in contact with LEU 87 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
83C TYR* 2.5 82.1 - - + +
84C GLU* 2.7 11.6 + - - +
86C ILE* 1.3 83.0 - - + +
88C ALA* 1.3 51.9 + - - +
89C SER 2.7 12.5 + - - -
90C ARG* 2.7 40.8 + - - +
91C GLY 4.3 0.7 + - - -
92C ILE* 4.2 8.8 - - + +
97C LEU* 5.7 6.1 - - + -
100C TYR* 3.7 34.5 - - + -
101C MSE 6.2 1.6 - - - -
104C ILE* 5.1 4.7 - - + -
149C ASP* 5.5 0.4 - - - +
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Residues in contact with ALA 88 (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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84C GLU 3.2 3.5 + - - +
85C LYS* 3.0 21.4 + - + +
87C LEU* 1.3 77.1 - - - +
89C SER* 1.3 57.8 + - - +
91C GLY* 4.2 6.2 + - - -
92C ILE 5.6 0.5 + - - -
97C LEU* 4.8 19.4 - - + +
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Residues in contact with SER 89 (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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132B ILE* 4.7 14.0 - - - +
133B ASP* 5.1 4.2 + - - -
85C LYS 3.4 4.8 + - - -
86C ILE* 3.1 19.3 - - - -
87C LEU 2.7 4.4 + - - -
88C ALA* 1.3 71.8 - - - +
90C ARG* 1.3 56.5 + - - -
91C GLY* 2.8 14.0 + - - -
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Residues in contact with ARG 90 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
169B ARG* 3.7 41.3 - - - +
83C TYR* 5.9 0.2 - - - -
86C ILE* 3.7 9.6 - - + +
87C LEU* 2.7 41.7 + - - +
89C SER* 1.3 71.8 - - - +
91C GLY* 1.3 63.5 + - - +
92C ILE* 3.7 16.8 - - + +
100C TYR* 4.7 6.0 + - - -
149C ASP* 3.7 22.9 + - - -
153C GLU* 3.7 13.3 + - - -
18L T 3.4 40.2 + - - -
19L A 3.6 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