Contacts of the strand formed by residues 142 - 152 (chain H) in PDB entry 5TZ2
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 142 (chain H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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141H GLY* 1.3 77.1 + - - +
143H ALA* 1.3 60.4 + - - +
190H THR* 3.8 32.1 - - + -
191H VAL 4.1 7.6 - - - +
192H PRO* 4.9 0.9 - - + -
193H SER* 4.9 0.7 - - - -
114L SER* 6.5 0.2 - - - -
116L PHE* 3.6 22.4 - - + -
137L ASN* 5.8 0.9 - - - +
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Residues in contact with ALA 143 (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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133H PRO* 4.7 5.2 - - + -
141H GLY 3.9 1.4 + - - -
142H THR* 1.3 78.1 - - - +
144H ALA* 1.3 61.5 + - - +
190H THR* 3.3 4.5 - - - -
191H VAL* 2.8 39.9 + - - +
193H SER* 3.9 12.3 - - - -
196H LEU* 3.7 33.2 - - + -
116L PHE* 4.6 1.6 - - - -
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Residues in contact with ALA 144 (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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133H PRO* 3.3 19.5 - - - +
143H ALA* 1.3 75.9 - - - +
145H LEU* 1.3 63.3 + - - +
189H VAL 3.6 5.4 - - - +
190H THR* 4.0 8.7 - - + -
116L PHE* 3.6 43.7 - - + -
118L PHE* 3.4 15.2 - - + -
135L LEU* 4.0 14.4 - - + -
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Residues in contact with LEU 145 (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 LEU* 3.4 14.6 - - - +
133H PRO* 3.8 15.3 - - + -
144H ALA* 1.3 75.6 - - - +
146H GLY* 1.3 61.9 + - - +
161H TRP* 3.9 17.9 - - + -
188H VAL* 3.3 6.1 - - - +
189H VAL* 2.8 53.5 + - + +
191H VAL* 3.8 9.2 - - + -
196H LEU* 3.7 24.0 - - + -
201H TYR* 3.6 37.0 - - + -
218H VAL* 4.1 12.6 - - + +
220H PRO* 6.4 0.4 - - + -
118L PHE* 4.2 2.9 - - - -
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Residues in contact with GLY 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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131H LEU* 2.7 41.9 + - - +
145H LEU* 1.3 79.8 - - - +
147H CYS* 1.3 56.5 + - - -
161H TRP* 3.5 13.9 - - - -
187H SER 3.1 13.7 - - - -
188H VAL* 4.0 2.0 - - - -
218H VAL* 3.4 14.7 - - - +
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Residues in contact with CYS 147 (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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128H VAL* 4.0 10.1 - - + -
129H PHE 3.3 11.4 - - - +
130H PRO* 4.7 2.5 - - + -
131H LEU* 3.7 8.5 - - - +
146H GLY* 1.3 74.8 - - - +
148H LEU* 1.3 59.4 - - - +
149H VAL* 3.8 4.5 + - - +
159H VAL* 4.2 2.0 - - - -
161H TRP* 3.8 8.5 - - - -
186H SER* 3.8 2.4 - - - -
187H SER* 2.9 42.0 + - - -
203H CYS* 2.0 50.3 - - + -
205H VAL* 4.5 4.7 - - - -
216H LYS* 5.4 0.4 - - + -
218H VAL* 4.8 1.1 - - + -
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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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127H SER 3.2 8.0 - - - +
128H VAL* 3.5 1.6 - - - -
129H PHE* 2.5 46.8 + - + +
131H LEU* 4.1 13.2 - - + +
147H CYS* 1.3 72.2 - - - +
149H VAL* 1.3 58.0 + - - +
150H LYS* 3.4 16.1 + - + -
184H SER* 4.0 14.1 - - - +
185H LEU 3.5 8.3 - - - +
186H SER* 3.3 24.7 - - - +
124L GLN* 4.3 13.5 - - - +
131L SER* 3.7 32.8 - - - +
133L VAL* 4.6 14.6 - - + -
178L THR* 4.6 6.1 - - + +
301L GOL 5.7 0.4 - - - -
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Residues in contact with VAL 149 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
126H PRO* 3.6 27.4 - - + -
127H SER 3.9 2.7 - - - -
128H VAL* 4.8 3.8 - - + +
147H CYS* 3.8 9.6 + - - +
148H LEU* 1.3 71.4 - - - +
150H LYS* 1.3 56.9 + - - +
152H TYR* 3.7 14.8 - - + -
157H VAL* 4.3 8.3 - - + -
159H VAL* 4.0 15.9 - - + -
184H SER* 3.4 2.9 - - - -
185H LEU* 2.6 54.1 + - + +
205H VAL* 3.8 37.9 - - + -
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Residues in contact with LYS 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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126H PRO* 3.7 1.4 - - - +
127H SER* 3.1 33.7 + - - +
129H PHE* 4.3 11.9 - - + -
148H LEU* 3.4 15.0 + - + -
149H VAL* 1.3 75.6 - - - +
151H ASP* 1.3 92.0 + - - +
152H TYR* 3.7 2.0 - - - -
178H GLN* 2.5 37.1 + - - +
184H SER* 3.8 14.3 + - - +
124L GLN* 3.7 23.1 - - - +
129L THR* 4.4 13.5 - - - -
131L SER* 3.9 16.9 + - - +
178L THR* 6.1 1.0 - - - +
180L THR* 4.4 14.8 + - - +
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Residues in contact with ASP 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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124H LYS* 3.7 12.2 - - + +
125H GLY 3.6 15.6 - - - +
127H SER* 4.7 3.7 + - - +
150H LYS* 1.3 99.2 - - - +
152H TYR* 1.3 55.5 + - - +
178H GLN* 2.8 28.4 + - - -
180H SER* 4.7 1.0 + - - -
182H LEU* 3.7 27.1 - - + +
183H TYR 2.9 14.1 + - - -
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Residues in contact with TYR 152 (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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124H LYS* 3.5 13.2 - - - +
126H PRO* 3.5 23.8 - - + -
149H VAL* 3.7 28.7 - - + -
151H ASP* 1.3 77.2 - - - +
153H PHE* 1.3 62.6 + - - +
154H PRO 3.4 20.0 - - - -
155H GLU* 3.1 26.8 + - - -
156H PRO 4.5 0.4 - - - -
157H VAL* 3.3 32.5 - - + +
175H ALA* 3.2 18.7 - - - +
182H LEU* 3.8 3.3 - - - -
183H TYR* 2.9 58.1 + - + +
184H SER 4.1 1.1 - - - -
185H LEU* 3.9 4.6 - - - +
207H HIS* 3.6 10.5 - + - +
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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