Contacts of the strand formed by residues 145 - 155 (chain H) in PDB entry 1CZ8
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 THR 145 (chain H).
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144H GLY* 1.3 74.7 - - - -
146H ALA* 1.3 75.7 + - - +
193H THR* 3.4 28.6 - - + -
194H VAL 3.5 10.0 + - - +
195H PRO* 5.2 0.7 - - - +
196H SER* 4.6 2.3 - - - -
116L PHE* 4.0 18.2 - - + -
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Residues in contact with ALA 146 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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136H PRO* 4.6 6.1 - - + -
137H SER* 5.2 4.7 - - - +
144H GLY 4.2 0.4 + - - -
145H THR* 1.3 83.4 - - - +
147H ALA* 1.3 60.9 + - - +
193H THR* 3.2 0.9 - - - -
194H VAL* 2.9 39.7 + - + +
196H SER* 4.1 10.5 - - - -
199H LEU* 3.8 30.1 - - + -
116L PHE* 4.1 4.0 - - - -
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Residues in contact with ALA 147 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
136H PRO* 3.4 20.0 - - - +
137H SER 4.6 1.5 + - - +
146H ALA* 1.3 76.6 - - - +
148H LEU* 1.3 66.3 + - - +
192H VAL 3.5 7.9 - - - +
193H THR* 4.2 4.3 - - + -
116L PHE* 3.5 42.4 - - + -
118L PHE* 3.4 18.0 - - + -
135L LEU* 4.1 10.5 - - + -
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Residues in contact with LEU 148 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134H LEU* 3.4 14.4 - - - +
136H PRO* 3.9 17.5 - - + -
147H ALA* 1.3 75.7 - - - +
149H GLY* 1.3 60.9 + - - +
164H TRP* 3.6 28.3 - - + -
191H VAL* 3.3 8.2 - - - +
192H VAL* 2.9 47.6 + - + +
194H VAL* 3.9 27.4 - - + -
199H LEU* 4.0 13.5 - - + -
204H TYR* 3.9 28.5 - - + -
221H VAL* 4.2 11.0 - - + +
118L PHE* 4.0 3.1 - - - -
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Residues in contact with GLY 149 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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134H LEU* 2.8 42.6 + - - +
148H LEU* 1.3 79.0 - - - +
150H CYS* 1.3 57.2 + - - -
164H TRP* 3.4 14.4 - - - -
190H SER 3.0 14.8 - - - -
191H VAL* 4.1 0.9 - - - -
221H VAL* 3.5 13.0 - - - +
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Residues in contact with CYS 150 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131H VAL* 4.2 7.2 - - + -
132H PHE 3.2 7.2 - - - +
134H LEU* 3.8 4.6 - - - +
149H GLY* 1.3 72.4 - - - -
151H LEU* 1.3 60.7 + - - +
152H VAL* 3.9 8.4 + - + +
162H VAL* 5.4 0.2 - - + -
164H TRP* 3.8 2.2 - - + -
189H SER* 3.4 3.5 - - - -
190H SER* 2.9 34.2 + - - +
206H CYS* 2.0 52.7 - - + -
208H VAL* 5.1 0.2 - - + -
219H LYS* 4.1 9.0 - - - -
221H VAL* 3.6 25.6 - - - -
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Residues in contact with LEU 151 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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130H SER 3.5 2.3 - - - +
131H VAL* 3.4 4.5 - - - -
132H PHE* 2.7 60.8 + - + +
134H LEU* 4.2 14.5 - - + +
150H CYS* 1.3 72.8 - - - +
152H VAL* 1.3 60.7 + - - +
153H LYS* 4.2 11.0 - - + -
187H SER* 3.8 18.4 - - - +
188H LEU 3.6 9.6 - - - +
189H SER* 3.6 19.1 - - - +
124L GLN* 4.3 3.6 - - - +
131L SER* 3.6 33.7 - - - +
133L VAL* 4.8 11.9 - - + -
178L THR* 5.2 7.9 - - + +
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Residues in contact with VAL 152 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129H PRO* 3.6 29.8 - - + -
130H SER 3.6 3.8 - - - +
131H VAL* 4.6 5.6 - - + +
150H CYS* 4.4 8.7 - - + +
151H LEU* 1.3 73.2 - - - +
153H LYS* 1.3 58.5 + - - +
155H TYR* 3.6 6.7 - - + -
160H VAL* 4.2 15.3 - - + -
162H VAL* 4.3 7.0 - - + -
187H SER* 3.4 3.9 - - - -
188H LEU* 2.7 54.5 + - + +
190H SER* 5.8 0.2 - - - -
208H VAL* 3.9 36.8 - - + -
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Residues in contact with LYS 153 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
129H PRO* 3.3 2.9 - - - +
130H SER* 3.0 41.6 + - - +
132H PHE* 4.2 13.5 - - + -
151H LEU* 3.7 14.8 + - + -
152H VAL* 1.3 73.7 - - - +
154H ASP* 1.3 99.8 + - - +
155H TYR 3.7 1.3 - - - -
181H GLN* 3.2 21.7 + - - +
187H SER* 3.9 11.9 - - - +
124L GLN* 3.7 15.4 - - - +
129L THR* 4.8 10.8 + - - +
131L SER* 3.3 26.7 - - - +
178L THR* 5.9 2.5 - - - -
180L THR* 5.2 11.2 - - - +
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Residues in contact with ASP 154 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127H LYS* 3.3 19.0 - - - +
128H GLY 3.3 16.3 - - - +
130H SER* 5.7 3.8 + - - +
132H PHE* 6.0 0.7 - - - -
153H LYS* 1.3 100.9 + - - +
155H TYR* 1.3 57.8 + - - +
181H GLN* 2.9 22.0 + - - -
183H SER* 4.6 1.9 + - - -
185H LEU* 3.7 27.9 - - + +
186H TYR 3.0 13.9 + - - -
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Residues in contact with TYR 155 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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127H LYS* 3.2 13.5 - - - +
129H PRO* 3.6 28.3 - - + -
152H VAL* 3.6 26.9 - - + -
154H ASP* 1.3 76.3 - - - +
156H PHE* 1.3 65.4 + - - +
157H PRO 3.6 19.7 - - - -
158H GLU* 2.9 30.5 + - - -
160H VAL* 3.9 24.5 - - + +
178H ALA* 3.0 17.5 - - - +
185H LEU* 3.6 3.3 - - - -
186H TYR* 2.8 54.6 + + + +
187H SER* 3.9 2.2 - - - -
188H LEU* 3.7 12.9 - - + +
210H HIS* 3.8 7.4 - + - +
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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