Contacts of the strand formed by residues 182 - 191 (chain I) in PDB entry 1CL7
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 TYR 182 (chain I).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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110H THR* 4.5 14.5 + - + +
151I GLY 3.4 12.5 + - - -
152I TYR* 2.9 54.5 + - + +
153I PHE* 3.8 34.1 - + - -
154I PRO* 4.5 2.9 - - + -
155I GLU* 3.6 36.5 + - + -
175I ALA* 3.7 15.7 - - + -
176I VAL* 2.6 26.7 - - - -
177I LEU* 3.5 27.5 - - + +
181I LEU* 1.3 69.9 - - - +
183I THR* 1.3 63.6 + - - +
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Residues in contact with THR 183 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148I LEU* 4.0 11.0 - - + -
149I VAL 3.6 13.2 - - - +
150I LYS* 3.9 29.8 - - + +
151I GLY* 4.1 1.9 + - - -
174I PRO 4.1 0.9 - - - +
175I ALA* 3.0 22.2 - - - -
176I VAL* 3.0 23.3 + - - +
178I GLN* 3.7 31.2 + - - +
181I LEU* 3.9 1.3 + - - +
182I TYR* 1.3 77.6 + - - +
184I LEU* 1.3 65.6 + - - +
185I SER* 5.3 0.9 - - - +
178L THR* 6.2 3.4 - - + +
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Residues in contact with LEU 184 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148I LEU* 3.9 2.6 - - - +
149I VAL* 2.6 44.1 + - + +
152I TYR* 3.9 16.1 - - + +
155I GLU* 5.7 0.2 - - - +
157I VAL* 3.8 21.3 - - + +
159I VAL* 3.5 18.6 - - + -
172I THR* 3.5 20.2 - - + -
173I PHE* 3.1 27.8 - - - +
174I PRO 4.8 2.2 - - - -
175I ALA* 4.1 11.2 - - + +
183I THR* 1.3 78.9 - - - +
185I SER* 1.3 90.4 + - - +
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Residues in contact with SER 185 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
124H LEU* 5.1 0.9 - - - -
147I CYS 3.5 12.6 - - - -
148I LEU* 4.0 13.9 - - - +
172I THR* 3.3 1.4 - - - -
173I PHE* 2.8 36.8 + - - +
183I THR* 5.3 1.0 - - - +
184I LEU* 1.3 86.2 + - - +
186I SER* 1.3 63.8 + - - +
133L VAL* 4.8 4.0 - - - +
135L PHE* 4.1 22.9 - - - -
176L SER* 4.6 7.2 + - - -
178L THR* 4.7 9.7 + - - -
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Residues in contact with SER 186 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
146I GLY* 3.1 6.6 - - - -
147I CYS 3.0 30.2 + - - -
159I VAL* 3.4 27.2 - - - +
161I TRP* 2.7 30.8 + - - -
170I VAL* 4.6 0.2 - - - +
171I HIS 2.9 11.0 + - - -
172I THR* 3.2 16.7 + - - -
173I PHE* 4.7 0.7 - - - -
185I SER* 1.3 80.7 - - - +
187I SER* 1.3 59.8 + - - +
135L PHE* 3.7 3.9 - - - -
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Residues in contact with SER 187 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144I THR* 4.3 3.1 - - - -
145I LEU 3.6 5.6 - - - -
161I TRP* 4.4 2.5 - - - -
169I GLY 5.0 0.7 + - - -
170I VAL* 2.8 10.0 - - - +
171I HIS* 2.7 45.1 + - - +
173I PHE* 4.8 2.2 - - - -
186I SER* 1.3 73.2 + - - +
188I VAL* 1.3 62.3 + - - +
189I THR* 5.2 1.0 - - - +
135L PHE* 3.3 34.1 - - - -
137L ASN* 2.6 25.8 + - - -
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Residues in contact with VAL 188 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143I VAL 3.3 2.8 - - - +
144I THR* 4.1 0.2 - - - -
145I LEU* 2.9 38.6 + - + +
161I TRP* 3.5 41.3 - - + -
166I LEU* 3.6 40.2 - - + -
168I SER 3.9 7.0 - - - +
169I GLY 2.9 13.2 - - - +
170I VAL* 4.1 6.5 - - + -
187I SER* 1.3 76.5 - - - +
189I THR* 1.3 63.0 + - - +
190I VAL* 3.6 5.8 + - + -
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Residues in contact with THR 189 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142I MET* 3.1 33.6 - - - +
143I VAL 2.9 10.8 - - - -
144I THR* 2.8 29.8 - - + +
168I SER* 5.1 2.9 + - - +
169I GLY* 3.1 20.9 + - - +
187I SER* 5.2 0.7 - - - +
188I VAL* 1.3 72.7 - - - +
190I VAL* 1.3 62.8 + - - +
114L THR* 5.5 8.7 - - + -
137L ASN* 4.9 11.7 - - + +
138L ASN* 5.7 6.1 - - - +
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Residues in contact with VAL 190 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142I MET* 3.4 6.1 - - - -
143I VAL* 2.5 50.2 + - + +
145I LEU* 3.7 10.5 - - + -
166I LEU* 3.7 40.2 - - + -
188I VAL* 3.6 12.5 + - + -
189I THR* 1.3 77.4 - - - +
191I PRO* 1.4 70.4 - - + +
194I PRO* 5.2 1.3 - - + -
195I ARG* 3.4 35.0 - - + +
200I VAL* 4.6 5.2 - - + -
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Residues in contact with PRO 191 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141I SER 4.1 1.1 - - - +
142I MET* 4.0 17.4 - - + -
143I VAL* 3.6 0.3 - - - +
166I LEU* 6.1 1.6 - - + -
190I VAL* 1.4 101.8 - - + +
192I SER* 1.3 70.1 + - - +
193I SER* 4.1 4.7 - - - +
194I PRO* 3.3 34.9 - - + +
195I ARG 3.6 0.7 + - - -
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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