Contacts of the strand formed by residues 183 - 192 (chain A) in PDB entry 4LEO
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 183 (chain A).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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41A PRO* 6.1 1.0 - - - +
91A THR* 4.8 9.7 - - - +
115A LEU* 6.0 0.7 - - - +
117A THR* 4.1 16.3 + - + -
151A ASP* 3.0 23.9 + - - -
152A TYR* 2.8 49.5 + - + +
153A PHE* 4.4 20.2 - + - -
154A PRO* 4.6 1.8 - - + -
155A GLU* 3.7 47.4 - - + +
175A ALA* 4.0 10.5 - - + -
176A VAL 3.6 3.1 - - - -
177A LEU* 3.7 44.0 - - + +
182A LEU* 1.3 71.7 - - - +
184A SER* 1.3 61.7 + - - +
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Residues in contact with SER 184 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A LEU* 4.6 7.6 - - - +
149A VAL 3.4 13.6 + - - -
150A LYS* 3.6 16.8 - - - +
152A TYR* 3.7 1.7 - - - -
174A PRO 4.6 0.2 - - - +
175A ALA* 4.3 0.7 - - - -
176A VAL* 2.8 46.7 + - - +
178A GLN* 3.6 26.1 + - - -
183A TYR* 1.3 78.6 - - - +
185A LEU* 1.3 65.4 + - - +
184B THR* 6.0 1.4 - - - +
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Residues in contact with LEU 185 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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148A LEU* 3.8 5.5 - - - +
149A VAL* 2.9 51.1 + - + +
152A TYR* 3.2 25.3 - - + +
155A GLU* 4.9 0.7 - - - +
157A VAL* 3.8 15.3 - - + -
159A VAL* 4.5 10.3 - - + -
172A THR* 4.2 14.8 - - + -
173A PHE* 3.4 24.2 - - - +
174A PRO* 4.1 2.9 - - + +
175A ALA* 3.7 17.0 - - + +
184A SER* 1.3 76.9 + - - +
186A SER* 1.3 74.0 + - - +
187A SER 4.8 0.2 - - - +
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Residues in contact with SER 186 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A LEU* 4.5 14.8 - - - -
147A CYS 3.5 9.9 - - - -
148A LEU* 4.5 10.5 - - - -
173A PHE* 3.0 42.1 + - - +
185A LEU* 1.3 81.1 - - - +
187A SER* 1.3 62.1 + - - +
188A VAL* 4.2 3.8 - - - +
139B VAL* 5.2 3.8 - - - -
182B SER* 2.9 26.3 + - - -
184B THR* 5.6 1.8 - - - -
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Residues in contact with SER 187 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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146A GLY* 3.1 3.3 - - - -
147A CYS* 3.1 33.5 + - - -
149A VAL* 5.8 0.7 - - - -
159A VAL* 3.5 22.9 - - - +
161A TRP* 3.1 27.0 + - - -
170A VAL* 4.3 1.9 - - - +
171A HIS 3.5 4.6 + - - -
172A THR* 2.8 28.1 + - - -
185A LEU* 5.0 1.3 - - - -
186A SER* 1.3 76.2 - - - +
188A VAL* 1.3 61.1 + - - +
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Residues in contact with VAL 188 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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131A LEU* 4.3 20.9 - - + -
144A ALA* 5.7 0.2 - - + -
145A LEU 3.3 10.1 - - - +
161A TRP* 4.8 0.4 - - - -
170A VAL* 3.5 4.5 - - - +
171A HIS* 2.9 50.9 + - + +
173A PHE* 3.7 21.5 - - + -
186A SER* 4.2 3.6 - - - +
187A SER* 1.3 78.8 - - - +
189A VAL* 1.3 66.9 + - - +
190A THR* 6.3 1.1 - - + -
124B PHE* 4.8 6.5 - - + -
139B VAL* 6.0 1.8 - - + -
141B LEU* 3.7 35.9 - - + -
143B ASN* 5.1 1.1 - - - +
182B SER* 5.8 0.9 - - - +
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Residues in contact with VAL 189 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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143A ALA 3.9 0.7 - - - +
144A ALA* 3.7 1.1 - - - -
145A LEU* 2.8 61.3 + - + +
161A TRP* 4.0 22.4 - - + -
166A LEU* 3.9 19.3 - - + -
168A SER 4.0 9.4 - - - +
169A GLY 3.4 9.9 - - - +
170A VAL* 3.9 23.6 - - + -
188A VAL* 1.3 79.4 - - - +
190A THR* 1.3 66.5 + - - +
191A VAL* 3.9 13.3 + - + +
201A TYR* 5.5 0.4 - - + -
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Residues in contact with THR 190 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142A THR* 4.9 13.9 - - - +
143A ALA 3.4 6.1 - - - +
144A ALA* 3.9 23.6 - - + -
168A SER 4.5 6.8 - - - +
169A GLY* 3.5 16.5 + - - +
171A HIS* 5.9 0.2 - - - -
188A VAL* 6.3 0.9 - - + -
189A VAL* 1.3 77.1 - - - +
191A VAL* 1.3 66.0 + - - +
192A PRO* 4.9 0.3 - - - +
122B PHE* 4.5 10.3 - - + -
141B LEU* 5.5 2.2 - - + -
143B ASN* 3.4 30.3 + - - +
144B ASN* 5.5 1.6 + - - -
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Residues in contact with VAL 191 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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142A THR* 4.4 4.7 - - - -
143A ALA* 2.7 35.2 + - - +
145A LEU* 3.8 25.4 - - + -
166A LEU* 4.8 8.1 - - + -
168A SER 5.6 0.7 - - - +
189A VAL* 4.1 14.4 - - + +
190A THR* 1.3 79.5 - - - +
192A PRO* 1.3 74.9 - - + +
195A SER* 3.9 0.2 - - - +
196A LEU* 4.5 4.9 - - + -
201A TYR* 3.4 47.8 - - + +
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Residues in contact with PRO 192 (chain A).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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141A GLY 4.1 6.7 - - - +
142A THR* 4.3 10.5 - - + -
190A THR 4.9 0.7 - - - +
191A VAL* 1.3 95.8 - - + +
193A SER* 1.3 63.2 + - - +
194A SER* 3.8 17.3 - - - +
195A SER* 2.7 31.9 + - - +
196A LEU* 3.9 4.0 + - - +
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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