Contacts of the strand formed by residues 152 - 166 (chain E) in PDB entry 5FHK
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 LEU 152 (chain E).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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135E PRO* 3.8 30.7 - - + -
141E ILE* 5.5 2.0 - - + -
147E GLN* 6.3 2.0 - - + -
149E ASP* 3.1 48.9 + - + +
150E SER* 3.6 5.9 - - - +
151E SER* 1.3 86.0 - - - +
153E ILE* 1.3 63.6 + - - +
154E ALA* 4.2 0.6 + - - -
267E LEU* 4.2 30.1 - - + -
268E TYR* 3.4 6.5 - - - +
269E ASN* 3.7 31.9 - - + +
270E HIS* 4.5 2.6 + - - -
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Residues in contact with ILE 153 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152E LEU* 1.3 73.5 - - - +
154E ALA* 1.3 68.7 + - - +
155E ARG* 6.1 0.9 - - + -
266E MET 3.6 1.6 - - - +
267E LEU* 3.4 7.3 - - - -
268E TYR* 3.0 71.8 + - + +
270E HIS* 3.7 32.8 - - + +
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Residues in contact with ALA 154 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147E GLN 5.6 7.0 - - - +
152E LEU* 5.8 0.4 - - + -
153E ILE* 1.3 80.9 - - - +
155E ARG* 1.3 61.7 + - - +
156E LYS 4.3 0.7 - - - -
265E TYR* 4.2 16.6 - - + -
266E MET 3.5 4.3 - - - -
267E LEU* 3.5 20.6 - - + -
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Residues in contact with ARG 155 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153E ILE* 6.1 1.6 - - + -
154E ALA* 1.3 75.4 - - - +
156E LYS* 1.3 75.9 + - - +
157E ILE* 3.3 10.0 + - + +
265E TYR* 4.0 3.1 - - - -
266E MET* 2.8 50.8 + - + +
268E TYR* 5.9 4.7 - - + -
286E ILE* 3.7 51.9 - - - +
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Residues in contact with LYS 156 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155E ARG* 1.3 81.9 + - - +
157E ILE* 1.3 60.9 + - - +
158E GLY* 3.7 18.8 - - - +
159E SER* 4.7 4.5 + - - -
263E ASP* 2.4 44.2 + - + +
264E ILE 3.5 6.7 - - - +
265E TYR* 3.8 22.7 - - + +
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Residues in contact with ILE 157 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105E MET* 6.3 0.7 - - + -
106E MET* 4.6 9.2 - - + -
109E MET* 5.5 1.3 - - + -
142E PHE* 3.5 34.1 - - + -
155E ARG* 3.3 14.6 + - + +
156E LYS* 1.3 77.1 - - - +
158E GLY* 1.3 58.4 + - - +
264E ILE* 2.8 34.5 + - + +
266E MET* 4.1 17.7 - - + +
285E VAL* 4.2 21.5 - - + +
286E ILE* 6.1 1.3 - - - -
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Residues in contact with GLY 158 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105E MET* 5.9 3.1 - - - -
156E LYS* 3.6 11.5 - - - +
157E ILE* 1.3 82.3 - - - +
159E SER* 1.3 65.5 + - - -
263E ASP* 3.4 9.2 - - - +
264E ILE* 3.0 28.4 + - - -
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Residues in contact with SER 159 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105E MET* 5.7 0.8 - - - -
156E LYS* 4.7 5.6 + - - -
158E GLY* 1.3 76.5 - - - -
160E VAL* 1.3 73.1 + - - +
238E ASP* 4.8 1.0 - - - +
239E VAL* 5.7 0.2 - - - +
262E ARG 3.3 10.5 - - - -
263E ASP* 3.4 18.6 - - - +
264E ILE* 4.4 1.7 - - - +
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Residues in contact with VAL 160 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101E LEU* 4.3 5.8 - - + -
105E MET* 3.9 20.6 - - - -
159E SER* 1.3 82.7 - - - +
161E LYS* 1.3 63.9 + - - +
237E PRO* 5.3 1.1 - - + -
238E ASP* 3.7 11.7 - - - +
239E VAL* 3.6 32.5 - - + +
260E ASN 4.0 0.2 - - - +
261E PRO* 3.5 1.0 - - - +
262E ARG* 3.0 72.3 + - + +
264E ILE* 4.0 11.2 - - + -
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Residues in contact with LYS 161 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160E VAL* 1.3 77.3 - - - +
162E ASP* 1.3 65.0 + - - +
163E ILE* 4.0 16.2 - - + -
237E PRO* 4.4 0.7 - - - -
238E ASP* 2.9 44.3 + - - +
252E ARG* 4.3 12.6 - - - +
258E SER* 3.7 29.4 + - - +
259E ALA 3.8 11.0 - - - +
260E ASN 4.1 0.4 - - - -
261E PRO* 3.9 16.8 - - + -
262E ARG* 4.0 4.9 - - - +
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Residues in contact with ASP 162 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161E LYS* 1.3 73.2 - - - +
163E ILE* 1.4 59.5 + - - +
194E LEU* 3.4 19.5 - - - +
235E LEU* 3.7 23.4 - - + +
236E MET 3.2 7.6 - - - +
237E PRO* 3.2 17.2 - - - +
258E SER* 3.3 10.2 - - - -
259E ALA* 2.9 35.8 + - + +
260E ASN* 2.8 25.7 + - - -
262E ARG* 3.1 32.9 + - - -
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Residues in contact with ILE 163 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161E LYS* 4.0 14.8 - - - -
162E ASP* 1.4 78.0 - - - +
164E LEU* 1.4 61.2 + - - +
165E VAL* 3.8 9.5 + - + +
234E THR 3.6 0.5 - - - +
235E LEU* 3.5 5.8 - - - -
236E MET* 2.9 35.7 + - - +
238E ASP* 3.8 25.1 - - + +
241E ILE* 4.0 19.7 - - + -
245E ILE* 4.7 12.1 - - + -
252E ARG* 3.3 51.1 - - - +
257E TRP 4.8 3.1 - - - -
258E SER* 5.0 0.2 - - - +
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Residues in contact with LEU 164 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163E ILE* 1.4 73.3 - - - +
165E VAL* 1.3 65.1 + - - +
183E LEU* 4.3 1.6 - - + -
197E TRP* 3.6 36.8 - - + -
199E LEU* 3.8 25.1 - - + -
233E ILE* 3.8 6.3 - - + -
234E THR 3.3 10.1 - - - +
235E LEU* 4.1 15.0 - - + -
252E ARG* 3.4 5.9 - - - +
253E ILE* 2.8 47.1 + - + +
254E LEU* 3.7 37.2 - - + +
257E TRP* 4.7 10.2 + - + +
258E SER* 6.0 0.4 - - - +
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Residues in contact with VAL 165 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163E ILE* 4.1 11.0 - - + +
164E LEU* 1.3 81.4 - - - +
166E ALA* 1.3 60.7 + - - +
227E CYS* 3.4 7.7 - - - -
233E ILE* 3.4 5.2 - - - -
234E THR* 3.0 52.3 + - + +
236E MET* 4.7 1.1 - - + -
241E ILE* 3.5 33.7 - - + -
245E ILE* 4.0 16.8 - - + -
250E LEU* 4.3 15.0 - - + -
251E VAL 3.1 13.7 - - - +
252E ARG* 4.2 2.0 - - - -
253E ILE* 4.3 4.7 - - - +
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Residues in contact with ALA 166 (chain E).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165E VAL* 1.3 75.4 - - - +
167E SER* 1.3 63.3 + - - +
170E TYR* 3.8 24.9 - - + -
171E VAL* 4.1 10.1 - - + -
227E CYS* 3.7 9.0 - - - -
232E GLY 3.5 13.0 - - - +
233E ILE* 4.0 8.7 - - + -
250E LEU* 4.1 4.9 - - - -
251E VAL* 2.7 37.1 + - - +
253E ILE* 4.5 4.4 - - + +
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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