Contacts of the strand formed by residues 154 - 163 (chain C) in PDB entry 1ZQ1
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 VAL 154 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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146C LYS* 3.3 4.4 - - - +
147C VAL 2.8 33.6 + - - +
149C THR* 5.0 0.4 - - + -
152C GLY 3.6 1.3 + - - +
153C ALA* 1.3 74.3 - - - +
155C GLY* 1.3 64.6 + - - +
156C ILE* 3.9 1.2 - - + +
192C THR* 3.3 33.0 - - + -
195C ASP* 4.3 8.7 - - - +
196C ILE* 3.7 21.1 - - + +
201C GLN* 3.2 31.0 - - + +
205C VAL* 3.8 30.1 - - + -
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Residues in contact with GLY 155 (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 GLY 3.8 8.7 - - - -
146C LYS* 4.2 2.0 - - - -
153C ALA 4.3 0.6 + - - -
154C VAL* 1.3 76.4 - - - +
156C ILE* 1.3 73.7 + - - +
157C PRO* 3.5 0.4 - - - -
192C THR* 3.4 11.8 - - - -
193C THR* 3.0 25.0 + - - -
195C ASP* 4.2 5.9 + - - -
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Residues in contact with ILE 156 (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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111C LEU* 5.1 7.6 - - + +
113C ALA* 5.5 0.2 - - + -
143C THR 4.1 0.7 - - - -
144C ASP* 3.3 2.9 + - - -
145C GLY* 2.9 38.6 + - - +
146C LYS* 4.3 1.3 - - - +
147C VAL* 3.8 30.7 - - + +
154C VAL* 3.9 10.8 - - + +
155C GLY* 1.3 92.6 - - - +
157C PRO* 1.3 64.6 - - - +
158C THR 3.9 14.6 - - - +
159C ILE* 3.9 21.3 - - + -
190C ILE* 4.0 20.9 - - + -
191C SER 3.4 13.0 - - - +
192C THR* 4.7 3.8 - - - +
205C VAL* 4.8 0.4 - - + -
209C ILE* 4.6 11.2 - - + -
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Residues in contact with PRO 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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143C THR* 3.5 11.1 - - - +
144C ASP* 3.4 27.5 + - - +
155C GLY* 3.5 0.7 - - - -
156C ILE* 1.3 84.1 - - - +
158C THR* 1.3 67.4 + - - +
191C SER* 3.1 13.9 - - - +
192C THR 3.2 8.3 - - - +
193C THR* 3.0 37.2 - - + +
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Residues in contact with THR 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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53A ASN* 4.0 13.6 + - - +
55A TYR* 5.8 0.7 - - + -
140C ILE* 3.4 28.1 - - + +
142C ALA 3.8 4.7 - - - +
143C THR* 4.6 0.7 - - - +
156C ILE* 3.3 3.5 - - - +
157C PRO* 1.3 89.5 + - - +
159C ILE* 1.3 70.2 + - - +
160C CYS* 3.2 31.0 - - - -
189C GLU* 3.9 2.5 - - - +
191C SER* 3.1 39.2 + - - +
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Residues in contact with ILE 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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104C ALA 4.9 3.6 - - - +
107C ILE* 5.3 1.3 - - + -
108C ALA* 3.4 24.2 - - + +
111C LEU* 4.3 16.2 - - + -
113C ALA* 3.4 31.4 - - + -
140C ILE* 3.7 2.8 - - - -
141C ILE* 2.8 30.3 + - + -
142C ALA* 3.1 23.0 + - + +
156C ILE* 3.9 14.4 - - + -
158C THR* 1.3 79.1 - - - +
160C CYS* 1.3 63.2 + - - +
188C ILE* 3.5 27.4 - - + -
189C GLU 3.5 4.5 - - - +
190C ILE* 4.7 8.3 - - + -
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Residues in contact with CYS 160 (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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55A TYR* 4.4 16.2 - - - -
138C THR* 4.2 11.0 - - + -
139C ALA 3.0 19.7 - - - +
140C ILE* 3.5 13.2 - - - -
141C ILE* 4.4 1.3 - - - +
158C THR* 3.2 33.2 - - - -
159C ILE* 1.3 72.7 - - - +
161C LEU* 1.3 58.4 + - - +
162C GLU* 4.0 2.6 + - - +
187C LEU 3.5 0.5 - - - +
188C ILE* 3.3 10.0 - - - +
189C GLU* 2.8 55.7 + - + +
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Residues in contact with LEU 161 (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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25C LEU* 3.8 26.9 - - + -
30C LEU* 3.6 26.7 - - + -
96C PRO* 4.4 5.8 - - + -
100C ALA* 4.0 2.0 - - + +
101C LEU* 3.8 26.5 - - + +
104C ALA* 4.2 5.8 - - + -
121C TYR* 2.6 34.6 + - - +
139C ALA 3.1 20.6 + - - -
141C ILE* 3.4 31.9 - - + +
160C CYS* 1.3 71.6 - - - +
162C GLU* 1.3 59.1 + - - +
186C PRO* 4.3 0.4 - - + -
187C LEU 3.3 18.8 - - - +
188C ILE* 4.7 2.2 - - + +
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Residues in contact with GLU 162 (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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55A TYR* 4.3 0.5 + - - -
22C HIS* 3.0 35.7 + - - -
30C LEU* 3.6 8.6 - - - +
124C LYS* 4.1 9.1 + - - -
136C GLN* 3.3 23.5 + - - +
137C ARG 3.4 5.6 - - - +
138C THR* 3.2 39.3 + - + +
160C CYS* 4.9 2.1 - - - +
161C LEU* 1.3 74.4 - - - +
163C GLU* 1.3 58.0 + - - +
186C PRO 3.6 0.5 - - - -
187C LEU* 2.7 56.0 + - + +
189C GLU* 3.4 15.6 - - + +
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Residues in contact with GLU 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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30C LEU* 3.9 17.0 - - + -
31C PHE* 3.5 6.0 - - + +
87C TYR* 2.8 39.6 + - + +
131C ASN* 5.0 4.5 - - - +
135C PHE 4.4 3.6 - - - +
136C GLN* 2.7 38.8 + - + +
137C ARG* 3.0 61.7 + - - +
162C GLU* 1.3 75.4 - - - +
164C ASP* 1.3 66.7 + - - +
165C ALA 4.0 0.3 + - - -
183C LEU* 5.6 2.7 - - + +
184C GLY* 4.6 4.7 - - - -
185C ILE 3.9 5.4 - - - -
187C LEU* 4.6 1.3 - - - +
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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