Contacts of the strand formed by residues 151 - 156 (chain L) in PDB entry 5FHX
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 151 (chain L).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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122L MET* 3.6 31.0 - - + -
141L CYS* 3.7 11.0 - - - -
147L ILE* 3.6 12.1 - - + -
149L VAL 2.9 9.1 + - - -
150L TRP* 1.3 74.3 - - - +
152L SER* 1.4 66.6 + - - +
153L TRP* 3.4 33.4 - - + +
166L ILE* 4.3 1.4 - - - +
167L TYR* 3.6 1.2 - - - -
168L LYS* 3.1 7.6 + - - +
169L ALA* 2.7 33.0 + - - +
189L PHE* 3.7 42.0 - - + -
206L CYS* 4.1 5.4 - - + -
207L GLN 3.3 10.3 - - - +
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Residues in contact with SER 152 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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108H PHE 5.1 2.1 + - - -
109H TYR* 4.1 8.5 - - - +
151L LEU* 1.4 73.4 - - - +
153L TRP* 1.4 62.7 + - - +
154L PHE* 4.0 4.5 - - - -
164L LEU* 3.8 17.7 - - - +
166L ILE 3.1 11.2 - - - -
167L TYR* 3.8 12.8 - - - +
168L LYS 4.6 0.7 + - - -
206L CYS* 3.2 8.3 - - - +
207L GLN* 2.8 54.6 + - - -
209L ALA* 5.9 2.3 - - - +
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Residues in contact with TRP 153 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124L GLN* 3.6 24.0 - - - -
139L LEU* 4.3 14.8 - - + -
140L THR 4.4 3.6 - - - -
141L CYS* 3.7 31.6 - - + -
151L LEU* 3.4 21.8 - - + +
152L SER* 1.4 75.3 - - - +
154L PHE* 1.3 56.1 + - - +
164L LEU* 3.7 3.8 - - - +
165L LEU* 2.8 36.7 + - + -
166L ILE* 2.7 38.5 + - + +
169L ALA 4.7 4.0 + - - -
182L GLY* 5.3 0.2 - - - -
183L SER 5.6 0.4 + - - -
189L PHE 4.5 0.2 - - - -
190L THR* 3.9 17.6 + - - +
191L LEU* 3.7 60.1 - - + -
204L TYR* 4.5 9.6 - - + -
205L TYR 3.4 19.7 - - - -
206L CYS* 4.0 5.8 - - + -
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Residues in contact with PHE 154 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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45H LEU* 5.4 0.7 - - + -
110H PHE* 3.8 26.5 - + + -
113H TRP* 3.9 19.3 - + - -
152L SER* 4.0 7.0 - - - -
153L TRP* 1.3 73.0 - - - +
155L GLN* 1.3 58.5 + - - +
162L PRO* 4.4 10.5 - - + -
163L LYS 3.2 14.1 - - - +
164L LEU* 3.6 43.7 - - + -
165L LEU* 4.3 4.7 - - - -
204L TYR* 3.2 8.3 - - - +
205L TYR* 2.8 50.5 + - + +
207L GLN* 3.1 41.7 - - + -
216L PHE* 3.6 19.1 - + - -
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Residues in contact with GLN 155 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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154L PHE* 1.3 73.0 - - - +
156L GLN* 1.3 61.3 + - - +
157L LYS* 4.1 18.8 + - + +
161L ILE 3.8 0.9 - - - +
162L PRO* 3.6 1.1 - - - +
163L LYS* 2.9 44.7 + - + +
165L LEU* 4.0 14.2 - - + +
180L PHE* 3.8 8.9 - - - -
199L GLU 4.0 1.2 + - - -
200L ASP* 3.9 6.1 - - - +
202L ALA* 3.7 12.3 - - + -
203L THR 3.6 4.0 - - - -
204L TYR* 2.9 40.2 + - + +
401L PO4 2.8 43.4 + - - -
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Residues in contact with GLN 156 (chain L).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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39H GLN* 2.7 44.3 + - - +
95H TYR* 3.2 8.9 + - - -
155L GLN* 1.3 73.0 - - - +
157L LYS* 1.3 65.0 + - - +
158L PRO* 3.9 1.6 - - - +
160L ASN 3.1 28.1 + - - +
161L ILE 3.8 11.2 - - - -
162L PRO* 3.9 16.1 - - + +
202L ALA* 3.9 2.5 - - - -
203L THR* 2.9 37.7 + - - +
205L TYR* 3.4 25.0 + - + -
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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