Contacts of the strand formed by residues 153 - 166 (chain C) 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 ILE 153 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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151C SER 5.8 0.2 - - - +
152C LEU* 1.3 75.2 - - - +
154C ALA* 1.3 66.9 - - - +
155C ARG* 4.8 6.7 - - - +
266C MET 3.4 1.7 - - - +
267C LEU* 3.0 26.4 - - - -
268C TYR* 2.9 48.7 + - + +
270C HIS* 3.9 26.7 - - + +
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Residues in contact with ALA 154 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147C GLN* 3.4 33.7 - - - +
152C LEU 3.8 1.2 + - - -
153C ILE* 1.3 79.9 - - - +
155C ARG* 1.3 63.1 + - - +
156C LYS 4.3 0.2 - - - -
265C TYR* 4.1 14.6 - - + -
266C MET 3.6 2.7 - - - -
267C LEU* 3.6 10.8 - - + -
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Residues in contact with ARG 155 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153C ILE* 4.8 6.1 - - - +
154C ALA* 1.3 77.3 + - - +
156C LYS* 1.3 73.7 + - - +
157C ILE* 3.5 3.4 + - + +
265C TYR* 3.2 5.5 - - - -
266C MET* 2.7 57.3 + - + +
268C TYR* 3.2 30.6 + - + -
282C ILE* 4.8 5.7 - - - +
286C ILE* 3.3 47.7 - - + +
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Residues in contact with LYS 156 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155C ARG* 1.3 81.4 - - - +
157C ILE* 1.3 64.8 + - - +
158C GLY* 3.8 22.2 - - - +
159C SER* 5.5 3.2 + - - -
263C ASP* 4.1 29.4 + - + +
264C ILE 3.5 7.6 - - - +
265C TYR* 3.8 17.7 - - + +
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Residues in contact with ILE 157 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105C MET* 4.4 9.0 - - + +
106C MET* 4.2 5.8 - - - -
109C MET* 4.1 16.8 - - + -
142C PHE* 3.5 33.2 - - + -
155C ARG* 3.8 12.6 - - + +
156C LYS* 1.3 79.3 - - - +
158C GLY* 1.3 58.8 + - - +
264C ILE* 2.9 37.3 + - + +
265C TYR 4.3 1.8 - - - +
266C MET* 3.9 11.4 - - + -
285C VAL* 3.7 26.5 - - + +
286C ILE* 5.5 1.6 - - + -
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Residues in contact with GLY 158 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105C MET* 4.0 9.0 - - - -
156C LYS* 3.7 16.5 - - - +
157C ILE* 1.3 81.1 - - - +
159C SER* 1.3 65.9 + - - -
263C ASP* 3.7 1.7 - - - -
264C ILE* 3.0 25.0 + - - +
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Residues in contact with SER 159 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
105C MET* 4.5 5.8 - - - +
156C LYS* 5.5 3.3 + - - -
158C GLY* 1.3 70.9 - - - -
160C VAL* 1.3 63.3 + - - +
238C ASP* 4.6 4.7 - - - +
239C VAL* 5.7 2.6 - - - +
262C ARG 3.3 9.9 - - - -
263C ASP* 3.1 29.0 + - - +
264C ILE* 4.3 4.5 - - - -
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Residues in contact with VAL 160 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101C LEU* 4.3 5.6 - - + -
105C MET* 5.4 1.3 - - - -
159C SER* 1.3 76.8 - - - +
161C LYS* 1.3 62.1 + - - +
237C PRO* 3.9 19.3 - - + -
238C ASP* 3.0 22.2 - - - +
239C VAL* 3.8 25.1 - - + -
260C ASN 3.9 0.3 - - - +
261C PRO* 3.4 2.1 - - - +
262C ARG* 2.8 71.1 + - + +
264C ILE* 4.1 17.9 - - + -
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Residues in contact with LYS 161 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160C VAL* 1.3 76.4 - - - +
162C ASP* 1.3 64.8 + - - +
163C ILE* 4.2 18.6 - - + -
237C PRO* 4.3 0.4 - - - -
238C ASP* 2.8 46.8 + - - +
252C ARG* 4.5 15.4 - - - +
258C SER* 3.7 21.9 + - - +
259C ALA 3.8 7.0 - - - +
260C ASN 4.2 3.4 - - - -
261C PRO* 4.0 19.5 - - + -
262C ARG* 4.2 0.7 - - - +
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Residues in contact with ASP 162 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161C LYS* 1.3 72.5 - - - +
163C ILE* 1.3 61.2 + - - +
194C LEU* 3.4 23.7 - - - +
235C LEU* 3.7 21.6 - - + +
236C MET 3.3 6.5 - - - +
237C PRO* 3.1 27.8 - - - +
258C SER* 3.2 10.2 - - - -
259C ALA* 2.9 38.4 + - + +
260C ASN* 3.2 22.3 + - - -
262C ARG* 3.2 20.8 + - - -
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Residues in contact with ILE 163 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161C LYS* 4.2 19.5 - - + +
162C ASP* 1.3 80.1 - - - +
164C LEU* 1.3 61.7 + - - +
165C VAL* 3.8 24.2 + - + +
234C THR 3.6 0.5 - - - +
235C LEU* 3.5 6.9 - - - -
236C MET* 2.8 38.6 + - - +
238C ASP* 4.1 21.5 - - + -
241C ILE* 4.2 10.3 - - + -
245C ILE* 4.2 11.9 - - + -
252C ARG* 3.4 47.8 - - - +
257C TRP 5.0 0.2 - - - -
258C SER* 4.4 2.5 - - - +
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Residues in contact with LEU 164 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163C ILE* 1.3 72.4 - - - +
165C VAL* 1.3 66.3 + - - +
183C LEU* 4.2 2.2 - - + -
197C TRP* 3.7 31.2 - - + -
199C LEU* 4.0 23.6 - - + -
233C ILE* 4.1 4.9 - - + -
234C THR 3.2 11.9 - - - +
235C LEU* 3.8 19.7 - - + -
252C ARG* 3.5 7.8 - - - +
253C ILE* 3.1 42.2 + - + +
254C LEU* 3.7 36.6 - - + +
257C TRP* 4.7 10.3 + - + +
258C SER* 6.2 0.2 - - - -
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Residues in contact with VAL 165 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163C ILE* 3.8 20.0 - - + +
164C LEU* 1.3 81.9 - - - +
166C ALA* 1.3 60.9 + - - +
227C CYS* 3.5 7.8 - - - -
233C ILE* 3.4 6.9 - - - +
234C THR* 3.0 53.1 + - + +
236C MET* 4.7 0.7 - - + -
241C ILE* 3.6 34.1 - - + -
245C ILE* 3.9 13.7 - - + -
250C LEU* 4.3 13.2 - - + -
251C VAL 3.2 11.0 - - - +
252C ARG* 4.2 0.7 - - - -
253C ILE* 4.1 2.8 - - - +
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Residues in contact with ALA 166 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165C VAL* 1.3 75.4 - - - +
167C SER* 1.3 66.2 + - - +
170C TYR* 3.9 24.5 - - + -
171C VAL* 3.9 14.8 - - + -
227C CYS* 3.7 8.5 - - - -
232C GLY 3.7 11.7 - - - +
233C ILE* 4.2 7.6 - - + -
250C LEU* 3.6 5.3 - - - -
251C VAL* 2.8 33.4 + - - +
253C ILE* 4.4 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