Contacts of the strand formed by residues 152 - 166 (chain D) 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 D).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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135D PRO* 3.8 22.2 - - + -
141D ILE* 5.3 3.4 - - + -
147D GLN* 3.9 21.4 + - - +
149D ASP* 3.2 33.3 + - + +
150D SER 4.6 2.4 - - - +
151D SER* 1.3 86.3 - - - +
153D ILE* 1.3 72.4 + - - +
154D ALA* 3.8 3.7 + - - +
267D LEU* 4.0 26.5 - - + -
268D TYR* 3.3 17.3 - - - +
269D ASN* 3.4 31.6 - - - +
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Residues in contact with ILE 153 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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152D LEU* 1.3 78.1 - - - +
154D ALA* 1.3 67.1 + - - +
155D ARG* 5.7 2.5 - - + -
266D MET 3.5 1.7 - - - +
267D LEU* 3.3 5.9 - - - -
268D TYR* 2.8 72.0 + - + +
270D HIS* 4.0 38.4 - - + +
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Residues in contact with ALA 154 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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147D GLN* 3.6 27.6 - - - +
152D LEU 3.8 2.7 + - - +
153D ILE* 1.3 79.3 - - - +
155D ARG* 1.3 60.5 + - - +
265D TYR* 4.2 14.5 - - + -
266D MET 3.5 4.5 - - - -
267D LEU* 3.6 10.3 - - + -
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Residues in contact with ARG 155 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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153D ILE* 5.7 4.0 - - + -
154D ALA* 1.3 74.8 - - - +
156D LYS* 1.3 71.0 + - - +
157D ILE* 3.4 16.8 + - + +
265D TYR* 3.3 5.8 - - - -
266D MET* 2.9 53.1 + - + +
268D TYR* 6.1 1.8 - - + -
286D ILE* 3.6 57.5 + - - +
289D ASN* 5.1 7.3 + - - -
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Residues in contact with LYS 156 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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155D ARG* 1.3 81.1 + - - +
157D ILE* 1.3 61.9 + - - +
158D GLY* 3.6 23.7 + - - +
159D SER* 4.4 4.6 + - - -
263D ASP* 3.1 41.7 + - + +
264D ILE 3.6 11.0 - - - +
265D TYR* 3.8 22.6 - - + +
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Residues in contact with ILE 157 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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106D MET* 4.4 12.8 - - + -
109D MET* 5.8 0.7 - - + -
142D PHE* 3.5 37.2 - - + -
155D ARG* 3.6 35.9 - - + +
156D LYS* 1.3 72.3 - - - +
158D GLY* 1.3 57.9 + - - +
264D ILE* 2.9 33.5 + - + +
266D MET* 4.1 16.6 - - + +
285D VAL* 4.4 12.3 - - + -
289D ASN 5.2 9.6 - - - -
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Residues in contact with GLY 158 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105D MET* 5.9 2.7 - - - -
156D LYS* 3.6 16.4 + - - +
157D ILE* 1.3 79.7 - - - +
159D SER* 1.3 63.7 + - - -
263D ASP* 3.5 2.4 - - - -
264D ILE* 2.8 33.2 + - - +
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Residues in contact with SER 159 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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105D MET* 5.7 3.1 - - - +
156D LYS* 4.4 5.4 + - - -
158D GLY* 1.3 76.1 - - - -
160D VAL* 1.3 62.9 + - - +
238D ASP* 4.7 4.3 - - - +
239D VAL* 5.9 1.6 - - - +
242D LYS* 5.8 1.6 + - - -
262D ARG 3.3 7.6 - - - -
263D ASP* 3.5 20.0 - - - +
264D ILE* 4.5 4.4 - - - +
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Residues in contact with VAL 160 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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101D LEU* 4.2 8.5 - - + -
105D MET* 5.3 2.0 - - - -
159D SER* 1.3 75.9 - - - +
161D LYS* 1.3 62.3 + - - +
237D PRO* 4.0 25.1 - - + -
238D ASP* 2.9 24.7 - - - +
239D VAL* 4.1 16.8 - - + -
261D PRO* 3.6 0.5 - - - +
262D ARG* 2.9 70.3 + - + +
264D ILE* 4.2 17.9 - - + -
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Residues in contact with LYS 161 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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160D VAL* 1.3 76.5 - - - +
162D ASP* 1.3 60.2 + - - +
163D ILE* 4.0 16.6 - - + -
237D PRO* 4.3 0.4 - - - -
238D ASP* 2.8 45.9 + - - +
252D ARG* 4.6 11.9 - - - +
258D SER* 3.5 27.9 + - - +
259D ALA 3.8 10.1 - - - +
260D ASN 4.1 0.7 - - - -
261D PRO* 4.0 14.6 - - + -
262D ARG* 4.0 4.0 - - - +
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Residues in contact with ASP 162 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161D LYS* 1.3 71.5 - - - +
163D ILE* 1.3 59.6 + - - +
194D LEU* 3.1 34.5 - - - +
235D LEU* 3.7 21.1 - - + +
236D MET 3.3 7.9 - - - +
237D PRO* 3.3 13.4 - - - +
258D SER* 3.2 8.8 - - - -
259D ALA* 2.8 44.2 + - + +
260D ASN* 4.0 7.8 + - - +
262D ARG* 3.0 36.9 + - - -
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Residues in contact with ILE 163 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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161D LYS* 4.0 24.0 - - + +
162D ASP* 1.3 79.5 - - - +
164D LEU* 1.3 59.8 + - - +
165D VAL* 3.9 1.7 + - + -
234D THR 3.6 1.2 - - - +
235D LEU* 3.4 7.9 - - - +
236D MET* 2.8 37.7 + - - +
238D ASP* 3.8 22.7 - - + +
241D ILE* 4.1 11.5 - - + +
242D LYS* 5.9 0.9 - - + -
245D ILE* 3.5 32.1 - - + -
252D ARG* 3.5 42.6 - - - +
257D TRP 4.8 3.4 - - - -
258D SER* 4.3 0.7 - - - +
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Residues in contact with LEU 164 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163D ILE* 1.3 75.6 - - - +
165D VAL* 1.3 62.8 + - - +
183D LEU* 4.0 16.6 - - + -
197D TRP* 3.5 33.0 - - + -
199D LEU* 4.0 15.7 - - + -
233D ILE* 4.1 4.5 - - + -
234D THR 3.2 9.4 - - - +
235D LEU* 3.7 25.6 - - + -
252D ARG* 3.4 9.2 - - - +
253D ILE* 2.7 43.0 + - + +
254D LEU* 3.8 35.4 - - + +
257D TRP* 5.1 5.5 + - + +
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Residues in contact with VAL 165 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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163D ILE* 4.5 3.4 - - + +
164D LEU* 1.3 79.6 - - - +
166D ALA* 1.3 60.9 + - - +
227D CYS* 3.4 9.1 - - - -
233D ILE* 3.3 5.2 - - - -
234D THR* 3.0 51.7 + - + +
236D MET* 4.8 2.0 - - + -
241D ILE* 3.5 34.8 - - + -
245D ILE* 3.8 24.5 - - + -
250D LEU* 4.3 16.2 - - + -
251D VAL 3.1 13.2 - - - +
253D ILE* 3.8 4.9 - - - +
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Residues in contact with ALA 166 (chain D).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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165D VAL* 1.3 75.2 - - - +
167D SER* 1.3 63.1 + - - +
170D TYR* 3.9 22.2 - - + -
171D VAL* 4.1 4.3 - - + -
227D CYS* 3.7 8.1 - - - -
232D GLY 3.7 12.8 - - - +
233D ILE* 4.1 4.3 - - + -
250D LEU* 3.4 7.9 - - - -
251D VAL* 2.7 33.2 + - - +
253D ILE* 3.7 19.9 - - + +
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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