Contacts of the strand formed by residues 144 - 152 (chain K) in PDB entry 3EO1
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 ALA 144 (chain K).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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117J PHE* 3.6 39.8 - - + +
119J PHE* 3.8 11.1 - - - -
136J LEU* 5.3 4.5 - - + -
133K PRO* 5.2 0.5 - - - +
142K THR 5.3 0.4 - - - +
143K ALA* 1.3 75.3 - - - +
145K LEU* 1.3 73.0 + - - +
189K VAL 3.5 6.3 - - - +
190K THR* 3.3 35.0 - - + -
191K VAL* 4.3 0.9 - - - +
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Residues in contact with LEU 145 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119J PHE* 3.5 12.3 - - + -
131K LEU 3.1 10.1 - - - +
132K ALA 4.4 0.7 - - - -
133K PRO* 3.3 51.1 - - + -
143K ALA* 4.9 5.2 - - + +
144K ALA* 1.3 92.3 - - - +
146K GLY* 1.3 60.0 + - - +
161K TRP* 5.2 0.2 - - - -
188K VAL* 3.8 2.6 - - - +
189K VAL* 3.0 31.4 + - - +
191K VAL* 5.0 8.0 - - + +
196K LEU* 4.3 23.8 - - + -
201K TYR* 6.1 0.4 - - + -
218K VAL* 3.9 33.2 - - + -
219K GLU* 5.1 2.9 - - - +
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Residues in contact with GLY 146 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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119J PHE* 3.5 3.4 - - - -
130K PRO* 3.7 1.2 - - - +
131K LEU* 2.8 37.1 + - - +
145K LEU* 1.3 79.8 - - - +
147K CYS* 1.3 60.4 + - - +
161K TRP* 3.4 15.9 - - - -
187K SER 3.5 9.6 - - - -
188K VAL* 3.8 4.7 - - - -
218K VAL* 3.9 10.6 - - - +
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Residues in contact with CYS 147 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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128K VAL* 3.8 13.9 - - - -
129K PHE 3.5 14.1 - - - -
130K PRO* 4.5 1.6 - - + -
131K LEU* 3.1 14.9 - - - +
146K GLY* 1.3 72.9 - - - +
148K LEU* 1.3 72.5 + - - +
149K VAL* 5.1 1.1 - - - -
159K VAL* 5.2 0.2 - - - -
161K TRP* 3.3 19.6 - - + -
186K SER* 4.3 0.3 - - - -
187K SER* 2.6 34.4 + - - +
203K CYS* 2.0 50.5 - - + -
205K VAL* 4.4 1.1 - - - -
216K LYS* 4.8 1.8 - - - -
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Residues in contact with LEU 148 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125J GLN* 4.5 17.0 - - - +
132J SER* 5.8 2.9 - - - -
134J VAL* 4.3 22.2 - - + -
179J THR* 6.0 2.5 - - + -
127K SER 3.7 0.3 - - - +
128K VAL* 3.1 6.9 - - - +
129K PHE* 2.8 59.0 + - + +
131K LEU* 4.4 9.4 - - + -
147K CYS* 1.3 81.5 - - - +
149K VAL* 1.3 78.3 + - - +
150K LYS* 4.3 15.3 - - + +
184K SER* 5.2 1.3 - - - -
185K LEU 3.0 36.6 - - - +
186K SER* 4.1 8.1 - - - +
187K SER* 4.6 2.0 - - - +
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Residues in contact with VAL 149 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126K PRO* 3.3 34.1 - - + -
127K SER 4.0 2.2 - - - -
128K VAL* 4.4 3.6 - - + +
147K CYS* 5.1 1.3 - - - -
148K LEU* 1.3 81.5 - - - +
150K LYS* 1.3 58.1 + - - +
152K TYR* 3.8 16.2 - - + -
157K VAL* 4.8 6.5 - - + -
159K VAL* 4.0 13.5 - - + -
184K SER* 3.4 1.2 - - - -
185K LEU* 3.0 42.6 + - + +
187K SER* 6.2 0.9 - - - -
205K VAL* 3.4 42.0 - - + -
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Residues in contact with LYS 150 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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125J GLN* 5.4 4.5 - - - +
132J SER* 3.7 10.3 + - - +
179J THR* 5.5 2.2 - - - +
181J THR* 3.5 25.1 + - - +
126K PRO* 3.6 1.2 - - - +
127K SER* 2.7 49.5 + - - +
129K PHE* 4.3 14.1 - - + -
148K LEU* 4.5 14.1 - - + -
149K VAL* 1.3 76.1 - - - +
151K ASP* 1.3 95.0 + - - +
152K TYR* 3.6 2.7 - - - -
178K GLN* 2.9 29.8 + - - +
183K TYR 3.8 0.4 - - - -
184K SER* 3.5 16.3 + - - -
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Residues in contact with ASP 151 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124K LYS* 3.7 3.9 - - - +
125K GLY* 3.4 15.4 - - - -
127K SER* 4.5 8.4 + - - +
150K LYS* 1.3 106.2 - - - +
152K TYR* 1.3 57.1 + - - +
178K GLN* 3.7 9.0 + - - -
180K SER* 4.5 8.4 + - - -
182K LEU* 3.5 32.3 - - + +
183K TYR 2.9 12.4 + - - +
184K SER* 3.7 0.8 - - - -
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Residues in contact with TYR 152 (chain K).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124K LYS* 4.7 0.7 - - - -
125K GLY* 4.0 6.1 - - - -
126K PRO* 3.6 20.9 - - + -
149K VAL* 3.8 22.4 - - + -
150K LYS 4.3 0.7 - - - -
151K ASP* 1.3 75.6 - - - +
153K PHE* 1.3 64.7 + - - +
154K PRO 3.0 27.8 - - - -
155K GLU* 2.8 32.3 + - - -
157K VAL* 3.2 19.7 - - + +
175K ALA* 3.2 8.0 - - - +
182K LEU* 3.7 3.6 - - - -
183K TYR* 2.7 72.5 + - + +
184K SER* 3.3 12.1 - - - -
185K LEU* 3.1 24.9 - - + +
207K HIS* 3.8 8.3 - + + -
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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