Contacts of the helix formed by residues 133 - 147 (chain G) 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 G).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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86G SER* 4.5 2.5 - - - +
87G MET* 4.1 11.2 - - - -
131G THR* 2.9 19.3 + - - -
132G LYS* 1.3 88.7 + - - +
134G SER* 1.3 59.3 + - - +
135G GLU* 3.2 13.6 + - - +
136G GLU* 2.8 36.4 + - - +
137G LEU 3.1 13.9 + - - -
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Residues in contact with SER 134 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87G MET* 3.6 26.0 - - - +
133G ASN* 1.3 73.0 - - - +
135G GLU* 1.3 61.5 + - - +
137G LEU* 3.7 8.7 - - - +
138G ASN* 2.9 27.9 + - - +
157G ILE* 5.4 3.8 - - - -
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Residues in contact with GLU 135 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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133G ASN* 3.2 13.6 + - - +
134G SER* 1.3 79.1 + - - +
136G GLU* 1.3 64.8 + - - +
138G ASN* 3.5 7.1 + - - +
139G ASN* 3.2 35.0 + - - +
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Residues in contact with GLU 136 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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85G TYR* 4.0 5.5 + - - -
112G GLU* 3.9 11.8 - - - +
131G THR* 3.5 13.0 - - - -
132G LYS* 2.8 47.5 + - - +
133G ASN* 2.8 23.8 + - - +
135G GLU* 1.3 70.4 - - + +
137G LEU* 1.3 60.1 - - - +
139G ASN* 3.2 13.3 + - + +
140G PHE* 3.0 62.3 + - + -
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Residues in contact with LEU 137 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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87G MET* 3.9 17.3 - - + -
89G ALA* 4.2 8.3 - - + -
91G ILE* 4.7 4.9 - - + -
129G ILE* 3.9 30.7 - - + -
131G THR* 3.6 25.0 + - + +
133G ASN 3.1 8.9 + - - +
134G SER* 3.7 9.4 - - - +
135G GLU 3.3 0.2 - - - -
136G GLU* 1.3 73.8 - - - +
138G ASN* 1.3 65.7 + - - +
140G PHE* 3.1 4.8 + - - +
141G LEU* 2.9 42.3 + - + +
155G THR* 4.4 6.3 - - + -
157G ILE* 3.8 32.5 - - + -
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Residues in contact with ASN 138 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134G SER 2.9 19.0 + - - +
135G GLU* 3.5 7.4 - - - +
136G GLU 3.4 0.2 - - - -
137G LEU* 1.3 76.9 - - - +
139G ASN* 1.3 71.1 + - - +
141G LEU* 3.2 11.8 + - - +
142G ASP* 3.0 34.0 + - - -
172G LYS* 2.6 29.6 + - - +
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Residues in contact with ASN 139 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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135G GLU* 3.2 27.6 + - - +
136G GLU* 3.3 13.3 - - + +
138G ASN* 1.3 82.4 - - - +
140G PHE* 1.3 65.7 + - + +
142G ASP* 3.2 13.1 + - - +
143G LEU* 3.0 32.6 + - + +
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Residues in contact with PHE 140 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110G TYR* 3.8 30.3 - + + -
112G GLU* 3.3 40.6 - - + -
113G ILE* 5.8 0.4 - - + -
129G ILE* 3.7 24.2 - - + -
131G THR* 3.7 15.0 - - + -
136G GLU* 3.0 56.0 + - + -
137G LEU* 3.1 6.7 + - + +
139G ASN* 1.3 76.1 - - + +
141G LEU* 1.3 58.6 + - + +
143G LEU* 3.4 16.4 + - + +
144G ILE* 2.8 39.3 + - + +
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Residues in contact with LEU 141 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91G ILE* 3.7 28.9 - - + -
137G LEU* 2.9 37.6 + - + +
138G ASN* 3.2 8.5 + - - +
140G PHE* 1.3 73.0 - - - +
142G ASP* 1.3 61.6 + - - +
144G ILE* 3.9 3.4 - - + +
145G GLY* 2.8 26.7 + - - -
153G THR* 4.0 14.9 + - + +
155G THR* 3.3 31.0 - - + +
172G LYS* 3.8 37.9 - - + +
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Residues in contact with ASP 142 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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138G ASN* 3.0 28.2 + - - +
139G ASN* 3.5 12.8 + - - +
141G LEU* 1.3 73.9 - - - +
143G LEU* 1.3 64.5 + - + +
145G GLY* 3.4 2.5 + - - -
146G SER* 3.0 28.4 + - - -
172G LYS* 2.8 27.7 + - - -
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Residues in contact with LEU 143 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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110G TYR* 4.2 31.9 + - + +
139G ASN* 3.0 25.7 + - + +
140G PHE* 3.5 24.2 - - + +
142G ASP* 1.3 77.6 - - + +
144G ILE* 1.3 61.9 + - + +
146G SER* 3.2 17.0 + - - -
147G ILE* 3.3 15.5 + - - +
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Residues in contact with ILE 144 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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91G ILE* 3.8 29.4 - - + -
93G VAL* 5.1 6.3 - - + -
107G LEU* 3.8 26.7 - - + -
110G TYR* 5.5 5.8 - - + -
113G ILE* 4.2 18.6 - - + -
127G VAL* 5.6 0.4 - - + -
129G ILE* 4.6 0.4 - - + -
140G PHE* 2.8 36.3 + - + +
141G LEU* 3.9 6.1 - - + +
143G LEU* 1.3 69.4 - - + +
145G GLY* 1.3 66.6 + - - +
147G ILE* 3.2 25.4 + - + +
150G VAL* 3.4 15.9 - - + +
153G THR* 3.8 23.8 - - + -
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Residues in contact with GLY 145 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141G LEU 2.8 20.5 + - - -
142G ASP* 3.7 2.5 - - - -
144G ILE* 1.3 75.4 - - - +
146G SER* 1.3 59.1 + - - +
147G ILE 3.5 7.1 + - - +
150G VAL* 3.9 20.3 - - - +
152G GLY* 6.4 0.4 - - - -
153G THR* 5.1 3.3 - - - +
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Residues in contact with SER 146 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142G ASP 3.0 17.4 + - - -
143G LEU* 3.5 10.8 - - - -
144G ILE 3.1 0.6 - - - -
145G GLY* 1.3 74.6 - - - +
147G ILE* 1.3 64.4 + - - +
148G PRO* 3.4 7.6 - - - +
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Residues in contact with ILE 147 (chain G).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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102G GLU 5.4 0.4 - - - +
103G VAL* 3.9 18.6 - - + -
106G ASN* 3.8 41.3 - - + +
107G LEU* 3.7 34.8 - - + +
110G TYR* 5.2 5.2 - - + +
143G LEU 3.3 8.8 + - - +
144G ILE* 3.2 23.2 + - + +
145G GLY 3.6 3.6 - - - +
146G SER* 1.3 76.7 - - - +
148G PRO* 1.4 84.2 - - + +
149G GLY 3.5 0.2 + - - -
150G VAL* 3.2 24.4 + - + +
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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