Contacts of the helix formed by residues 133 - 147 (chain C) in PDB entry 2ZNZ
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 ASN 133 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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86C SER* 4.4 3.1 - - - +
87C MET* 4.2 10.3 - - - -
131C THR* 2.9 20.1 + - - -
132C LYS* 1.3 84.7 - - - +
134C SER* 1.3 62.2 + - - +
135C GLU* 3.1 16.0 + - - +
136C GLU* 3.0 29.4 + - - +
137C LEU 3.2 8.1 + - - -
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Residues in contact with SER 134 (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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87C MET* 3.6 25.0 - - - +
133C ASN* 1.3 73.0 - - - +
135C GLU* 1.3 61.4 + - - +
136C GLU 3.4 0.2 - - - -
137C LEU* 3.6 7.8 - - - +
138C ASN* 3.0 28.6 + - - +
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Residues in contact with GLU 135 (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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133C ASN* 3.1 17.0 + - - +
134C SER* 1.3 82.2 + - - +
136C GLU* 1.3 60.5 + - + +
138C ASN* 3.4 8.0 + - + +
139C ASN* 3.1 38.8 + - - +
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Residues in contact with GLU 136 (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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131C THR* 4.0 13.2 - - + -
132C LYS* 3.9 28.0 - - + +
133C ASN* 3.0 22.6 + - - +
134C SER 3.4 0.2 - - - -
135C GLU* 1.3 79.4 - - + +
137C LEU* 1.3 64.0 + - - +
139C ASN* 3.2 18.8 + - - +
140C PHE* 3.0 38.0 + - + -
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Residues in contact with LEU 137 (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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87C MET* 4.2 13.5 - - + -
89C ALA* 4.2 6.1 - - + -
91C ILE* 4.5 4.9 - - + -
129C ILE* 3.7 32.5 - - + -
131C THR* 3.7 24.5 - - + +
133C ASN 3.2 7.3 + - - +
134C SER* 3.6 11.0 - - - +
136C GLU* 1.3 78.3 - - - +
138C ASN* 1.3 57.7 + - - +
140C PHE* 3.1 4.8 + - - +
141C LEU* 2.8 49.7 + - + +
155C THR* 4.1 9.0 - - + -
157C ILE* 3.4 33.2 - - + -
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Residues in contact with ASN 138 (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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134C SER 3.0 17.6 + - - +
135C GLU* 3.6 8.7 + - - +
136C GLU 3.3 0.2 - - - -
137C LEU* 1.3 76.4 - - - +
139C ASN* 1.3 66.0 + - - +
141C LEU* 3.4 10.3 + - + +
142C ASP* 3.1 34.2 + - - +
172C LYS* 2.8 30.1 + - - +
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Residues in contact with ASN 139 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
135C GLU* 3.1 26.6 + - - +
136C GLU* 3.2 24.6 + - - +
138C ASN* 1.3 81.5 - - - +
140C PHE* 1.3 65.0 + - + +
142C ASP* 3.4 15.1 + - - +
143C LEU* 3.1 29.2 + - + +
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Residues in contact with PHE 140 (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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110C TYR* 3.8 31.9 - + - -
112C GLU* 3.2 47.1 - - + -
113C ILE* 5.8 0.4 - - + -
129C ILE* 3.9 25.8 - - + -
131C THR* 4.1 14.6 - - + -
136C GLU* 3.0 32.6 + - + -
137C LEU 3.6 6.5 - - - +
139C ASN* 1.3 76.0 - - + +
141C LEU* 1.3 55.4 + - + +
143C LEU* 3.2 18.1 + - + +
144C ILE* 2.8 45.0 + - + +
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Residues in contact with LEU 141 (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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91C ILE* 3.7 32.3 - - + -
137C LEU* 2.8 42.6 + - + +
138C ASN* 3.7 10.1 - - - +
139C ASN 3.4 0.2 - - - -
140C PHE* 1.3 69.1 - - - +
142C ASP* 1.3 60.3 + - - +
144C ILE* 3.9 4.7 - - + +
145C GLY* 2.9 25.5 + - - -
153C THR* 3.9 12.8 + - + +
155C THR* 3.3 30.7 - - - +
172C LYS* 3.7 36.5 - - + +
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Residues in contact with ASP 142 (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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138C ASN* 3.1 29.4 + - - +
139C ASN* 3.4 15.9 + - - +
141C LEU* 1.3 75.1 - - - +
143C LEU* 1.3 62.4 + - + +
145C GLY* 3.3 3.0 + - - -
146C SER* 3.1 24.8 + - - -
172C LYS* 2.7 27.9 + - - -
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Residues in contact with LEU 143 (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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110C TYR* 4.0 30.7 + - + +
139C ASN* 3.1 17.2 + - + +
140C PHE* 3.2 27.8 + - + +
142C ASP* 1.3 80.4 - - + +
144C ILE* 1.3 60.9 + - - +
146C SER* 3.1 24.0 + - - +
147C ILE* 3.4 9.5 + - - +
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Residues in contact with ILE 144 (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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91C ILE* 3.8 29.8 - - + -
93C VAL* 4.7 7.0 - - + -
107C LEU* 3.8 27.1 - - + -
110C TYR* 4.9 6.5 - - + -
113C ILE* 4.2 20.4 - - + -
127C VAL* 5.4 1.1 - - + -
129C ILE* 4.6 4.9 - - + -
140C PHE* 2.8 28.9 + - + +
141C LEU* 3.9 7.0 - - + +
143C LEU* 1.3 72.1 - - + +
145C GLY* 1.3 61.6 + - - +
147C ILE* 3.3 26.1 + - + +
150C VAL* 3.4 15.1 - - + +
153C THR* 3.7 25.1 - - + -
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Residues in contact with GLY 145 (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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141C LEU 2.9 15.8 + - - -
142C ASP 3.3 5.6 + - - -
144C ILE* 1.3 77.5 - - - +
146C SER* 1.3 60.3 + - - +
147C ILE 3.6 6.4 + - - +
150C VAL* 4.1 18.9 - - - +
152C GLY* 6.4 0.2 - - - -
153C THR* 5.2 2.7 - - - +
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Residues in contact with SER 146 (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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142C ASP 3.1 13.9 + - - -
143C LEU* 3.1 17.4 + - - +
145C GLY* 1.3 74.6 - - - +
147C ILE* 1.3 67.5 + - - +
148C PRO* 3.1 9.4 - - - +
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Residues in contact with ILE 147 (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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102C GLU 5.3 0.4 - - - +
103C VAL* 4.4 10.8 - - + +
106C ASN* 3.5 48.7 - - + +
107C LEU* 3.8 30.3 - - + -
110C TYR* 4.6 8.5 - - + +
143C LEU 3.8 7.4 - - - +
144C ILE* 3.3 23.7 + - - +
145C GLY 3.7 3.6 - - - +
146C SER* 1.3 77.3 - - - +
148C PRO* 1.4 82.3 - - + +
149C GLY 3.3 0.2 + - - -
150C VAL* 3.1 30.2 + - + +
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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