Contacts of the helix formed by residues 144 - 152 (chain C) in PDB entry 4ZCU
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 TRP 144 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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88C GLU* 4.2 17.7 - - + -
91C MET* 3.9 2.2 - - + -
92C LYS* 3.5 64.0 - - + +
95C PHE* 3.3 37.4 - + + -
104C GLY* 3.9 2.5 + - - +
143C ASP* 1.3 74.6 - - - +
145C ASN* 1.3 73.5 + - - +
147C TRP* 3.5 21.5 - + - -
148C ARG* 2.9 54.3 + - + +
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Residues in contact with ASN 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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143C ASP* 3.3 15.1 + - - +
144C TRP* 1.3 89.0 + - - +
146C GLU* 1.3 61.1 + - + +
148C ARG* 3.6 12.5 + - - +
149C ASP* 2.9 40.1 + - - +
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Residues in contact with GLU 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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134C ILE* 4.4 9.0 - - - +
135C ASP* 2.9 30.3 - - - +
136C VAL* 3.7 14.5 - - + +
137C ASP* 3.0 18.2 - - - +
141C THR 3.9 0.5 - - - +
142C VAL* 3.2 19.2 - - + +
143C ASP* 3.1 40.0 + - - +
144C TRP 3.4 0.2 - - - -
145C ASN* 1.3 73.4 - - + +
147C TRP* 1.3 60.2 + - - +
149C ASP* 4.0 5.6 - - - +
150C TYR* 2.9 32.6 + - - +
1004C CA 4.0 3.8 - - - -
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Residues in contact with TRP 147 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C MET* 2.9 26.9 + - + +
94C ALA* 3.9 12.3 - - + -
95C PHE* 3.4 27.6 - + + -
98C LEU* 3.5 31.6 - - + -
106C ILE* 3.9 15.3 - - + -
111C ILE* 6.2 0.9 - - + -
131C LEU* 6.3 2.2 - - + -
134C ILE* 4.5 8.3 - - + -
142C VAL* 4.2 11.5 - - + +
143C ASP 3.4 6.8 + - - +
144C TRP* 3.5 28.3 - + - +
145C ASN 3.3 0.6 - - - -
146C GLU* 1.3 78.4 - - - +
148C ARG* 1.3 63.0 + - - +
150C TYR* 3.2 4.5 + - - +
151C PHE* 2.9 56.8 + + - +
159C ILE* 4.9 0.2 - - + -
162C ILE* 3.5 29.2 - - + -
166C TRP* 4.1 17.0 - + - -
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Residues in contact with ARG 148 (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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88C GLU* 3.2 28.9 + - - +
91C MET* 5.6 2.6 - - - +
144C TRP* 2.9 49.2 + - + +
145C ASN* 3.6 12.1 + - - +
147C TRP* 1.3 78.9 - - - +
149C ASP* 1.3 86.9 + - - +
151C PHE* 3.7 1.2 - - - -
152C LEU* 2.9 50.4 + - + +
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Residues in contact with ASP 149 (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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145C ASN* 2.9 25.3 + - - +
146C GLU* 4.0 5.8 - - - +
148C ARG* 1.3 114.0 + - - +
150C TYR* 1.3 64.5 + - - +
152C LEU* 3.6 19.0 + - - +
153C PHE* 4.8 2.1 + - - -
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Residues in contact with TYR 150 (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 SER* 3.6 25.6 + - - -
134C ILE* 3.4 39.6 - - + +
135C ASP 5.3 0.4 - - - -
146C GLU 2.9 19.7 + - - +
147C TRP 3.2 3.3 + - - +
149C ASP* 1.3 78.7 - - - +
151C PHE* 1.3 78.3 + + - +
152C LEU 3.7 0.2 + - - -
153C PHE 4.8 0.5 + - - -
154C ASN* 3.7 12.7 + - - +
165C PHE* 3.6 37.7 - + - -
166C TRP* 5.8 0.2 - - - -
169C SER* 4.2 9.0 + - - -
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Residues in contact with PHE 151 (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 HIS* 2.4 34.9 + - - -
91C MET* 3.5 22.4 - - + -
134C ILE* 4.0 14.1 - - + -
147C TRP* 2.9 65.5 + + - +
148C ARG 3.7 1.6 - - - +
150C TYR* 1.3 95.4 - + + +
152C LEU* 1.3 54.1 + - - +
153C PHE 3.3 2.7 - - - -
154C ASN* 2.9 30.6 - - - +
156C VAL* 3.6 25.4 - - + -
162C ILE* 3.8 25.8 - - + -
165C PHE* 4.3 6.5 - + - -
166C TRP* 4.1 3.1 - - - -
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Residues in contact with LEU 152 (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 TYR* 6.0 1.1 - - + -
27C LEU* 4.4 10.8 - - + -
83C TYR* 5.4 1.0 + - - -
84C LEU* 3.9 25.9 - - + +
87C HIS* 3.0 20.3 - - - -
88C GLU* 2.9 38.4 - - + +
148C ARG* 2.9 35.1 + - - +
149C ASP* 3.7 15.3 - - - +
150C TYR 3.4 2.2 - - - -
151C PHE* 1.3 77.1 - - - +
153C PHE* 1.3 89.1 + - + +
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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