Contacts of the strand formed by residues 156 - 167 (chain C) in PDB entry 4ZIN
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 ALA 156 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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82C TYR* 4.2 2.5 - - - -
152C PRO* 3.4 4.9 - - - +
153C GLU 3.0 31.6 + - - +
154C ASP* 4.5 3.1 - - + +
155C GLY* 1.3 78.6 - - - +
157C LEU* 1.3 60.8 + - - +
158C LYS* 4.1 4.5 - - - -
180C THR* 3.9 21.5 - - + -
181C TYR 3.8 11.2 - - - +
182C LYS* 3.9 16.6 - - + -
189C LEU* 3.5 11.2 - - - +
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Residues in contact with LEU 157 (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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82C TYR* 3.9 29.8 - - + -
83C LEU* 4.7 15.7 - - + -
150C MET* 3.8 27.1 - - + -
151C TYR 3.7 28.5 - - - +
152C PRO* 4.4 0.9 - - + -
156C ALA* 1.3 74.1 - - - +
158C LYS* 1.3 61.1 + - - +
180C THR* 3.6 2.4 - - - +
181C TYR* 2.8 43.5 + - + +
189C LEU* 3.8 2.8 - - + +
190C PRO* 3.5 35.7 - - + -
193C TYR* 4.5 8.5 - - - +
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Residues in contact with LYS 158 (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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149C ARG 3.8 0.5 - - - +
150C MET* 3.2 8.2 - - - +
151C TYR* 2.8 70.5 + - + +
153C GLU* 2.9 49.2 + - + +
154C ASP* 4.7 7.5 + - - -
156C ALA* 4.5 3.8 - - - -
157C LEU* 1.3 77.8 - - - +
159C GLY* 1.3 58.4 + - - +
178C LYS* 4.3 17.6 - - - +
179C THR 3.3 4.3 - - - +
180C THR* 3.3 34.6 + - - +
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Residues in contact with GLY 159 (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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148C GLU* 3.6 21.8 - - - +
149C ARG 3.3 7.2 - - - -
150C MET* 3.8 9.4 - - - -
158C LYS* 1.3 73.7 - - - +
160C GLU* 1.3 64.7 + - - +
161C ILE* 5.2 0.6 - - - +
177C VAL 3.9 0.3 - - - +
178C LYS* 3.4 4.7 - - - +
179C THR* 2.9 34.1 + - - -
181C TYR* 4.0 3.8 - - - -
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Residues in contact with GLU 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
148C GLU* 3.8 0.6 - - - +
149C ARG* 2.9 63.3 + - - +
151C TYR* 2.6 41.0 + - + +
159C GLY* 1.3 78.8 - - - +
161C ILE* 1.3 64.5 + - - +
177C VAL 3.3 7.6 - - - +
178C LYS* 4.0 20.0 + - + -
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Residues in contact with ILE 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
66C CH6 3.9 18.2 - - + -
95C ARG* 5.7 3.1 - - - +
146C SER* 3.8 10.1 - - - +
147C SER 3.7 13.0 - - - +
148C GLU* 3.4 37.7 - - + +
149C ARG* 3.2 6.1 - - - +
159C GLY 5.2 0.2 - - - -
160C GLU* 1.3 79.0 - - - +
162C LYS* 1.3 69.6 - - - +
163C GLN* 3.7 39.0 + - + +
176C GLU* 3.6 3.3 - - - +
177C VAL* 2.8 57.0 + - + +
179C THR* 5.6 0.4 - - - +
197C ILE* 5.2 0.2 - - + -
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Residues in contact with LYS 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146C SER* 4.5 5.7 - - - -
147C SER 4.8 0.7 + - - -
149C ARG* 3.5 29.0 - - - +
161C ILE* 1.3 80.4 - - - +
163C GLN* 1.3 61.8 + - - +
164C ARG* 4.1 5.5 + - + +
175C ALA 3.7 6.7 - - - +
176C GLU* 3.9 29.1 + - + +
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Residues in contact with GLN 163 (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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63C PRO* 4.9 5.5 - - - +
66C CH6 3.1 32.5 + - - -
97C MET* 5.0 1.7 - - + +
143C 4OO 3.9 38.9 + - + +
144C GLU 4.7 0.8 + - - -
146C SER* 3.3 27.9 + - - -
161C ILE* 3.7 15.8 - - + +
162C LYS* 1.3 73.6 - - - +
164C ARG* 1.3 63.5 + - - +
165C LEU 4.2 0.2 - - - -
174C ASP* 3.3 5.9 - - - +
175C ALA* 2.9 37.5 + - + +
177C VAL* 3.7 25.7 - - + +
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Residues in contact with ARG 164 (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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205A ASN* 5.6 5.2 - - - +
143C 4OO 3.5 8.5 - - - -
144C GLU* 3.0 64.8 + - + +
146C SER* 5.8 0.4 - - - -
162C LYS* 4.1 5.8 + - + +
163C GLN* 1.3 79.3 - - - +
165C LEU* 1.3 60.2 + - - +
172C HIS* 3.6 39.1 + - + +
173C TYR 3.7 3.1 - - - -
174C ASP* 3.4 26.0 - - - +
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Residues in contact with LEU 165 (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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59C ASP* 3.9 15.7 - - + -
60C ILE* 4.6 7.6 - - + -
99C PHE* 4.3 7.4 - - + -
140C THR* 4.1 31.0 - - + -
142C GLY 3.4 12.6 - - - +
143C 4OO 3.1 66.8 - - + +
144C GLU* 5.6 0.2 - - - -
163C GLN 4.2 0.4 - - - -
164C ARG* 1.3 73.4 - - - +
166C LYS* 1.3 62.4 + - - +
172C HIS* 3.1 5.9 - - - -
173C TYR* 2.8 53.7 + - + +
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Residues in contact with LYS 166 (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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34B GLU* 3.7 21.2 + - - +
36B ARG* 5.3 4.9 - - - +
43B THR* 5.5 11.2 + - + +
140C THR* 3.3 6.1 - - - -
141C MET* 2.8 66.3 + - + +
142C GLY* 2.7 25.6 + - - +
143C 4OO 4.0 14.0 + - - -
144C GLU* 3.6 36.4 + - + +
165C LEU* 1.3 74.5 - - - +
167C LEU* 1.3 60.2 + - - +
171C GLY 3.8 7.0 - - - +
172C HIS* 4.5 1.6 - - + +
198C LYS* 6.2 0.2 - - - +
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Residues in contact with LEU 167 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
134C PRO* 3.9 28.7 - - + -
139C LYS* 3.3 20.9 - - + +
140C THR* 4.2 2.9 - - + -
141C MET* 3.8 13.3 - - - +
166C LYS* 1.3 78.5 - - - +
168C LYS* 1.3 65.7 + - - +
169C ASP* 4.2 3.8 - - + +
170C GLY* 3.0 31.9 + - - +
171C GLY* 3.0 10.1 + - - +
172C HIS 3.5 36.1 - - - +
173C TYR* 4.1 11.2 - - + +
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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