Contacts of the strand formed by residues 191 - 197 (chain H) in PDB entry 1FSK
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 SER 191 (chain H).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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31A PRO* 5.9 3.2 - - - +
149H LYS 3.5 2.3 + - - +
150H ILE* 3.6 2.9 - - - -
151H ASP* 2.8 44.9 + - - -
152H GLY 4.5 2.1 + - - -
189H HIS* 5.6 0.2 - - - +
190H ASN* 1.3 77.2 + - - +
192H TYR* 1.3 63.1 + - - +
193H THR* 4.1 3.7 - - - +
208H SER* 5.7 3.1 - - - -
209H PHE 3.4 9.9 - - - -
210H ASN* 3.6 19.1 - - - +
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Residues in contact with TYR 192 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117H ILE* 3.9 4.9 - - + +
132H VAL* 4.7 12.8 - - + -
148H TRP* 5.3 6.5 - + + -
149H LYS 3.9 0.7 - - - -
150H ILE* 3.2 35.8 - - + +
179H LEU* 6.0 2.9 - - + -
181H LEU* 4.7 9.0 - - + +
185H GLU 3.8 1.4 + - - -
186H TYR* 2.3 72.2 + + - -
189H HIS* 3.6 17.2 - - + +
190H ASN 3.8 15.0 - - - -
191H SER* 1.3 71.6 - - - +
193H THR* 1.3 55.2 + - - +
208H SER* 2.7 26.5 - - - -
209H PHE* 2.9 51.0 + + + -
211H ARG* 4.2 1.3 - - - -
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Residues in contact with THR 193 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
117H ILE* 4.1 4.0 - - - -
148H TRP* 3.4 14.3 - - - -
149H LYS* 2.7 76.4 + - + +
151H ASP 5.2 0.2 - - - +
152H GLY 5.0 4.0 - - - +
191H SER* 4.8 5.8 - - - +
192H TYR* 1.3 73.6 - - - +
194H CYS* 1.3 62.4 + - - +
195H GLU* 4.2 4.0 + - - -
206H VAL* 3.4 23.2 - - - +
207H LYS 3.6 0.2 - - - -
208H SER* 3.0 18.3 - - - -
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Residues in contact with CYS 194 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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115H VAL* 4.5 5.7 - - + +
117H ILE* 3.9 9.0 - - + -
134H CYS* 2.7 48.0 - - - -
136H LEU* 5.4 1.3 - - - -
146H VAL* 4.5 10.1 - - - -
147H LYS 3.8 1.1 - - - -
148H TRP* 4.0 16.2 - - + -
177H SER* 4.5 5.2 - - - -
193H THR* 1.3 76.2 + - - +
195H GLU* 1.3 64.1 + - - +
196H ALA* 3.9 0.6 + - - -
205H ILE 3.8 0.9 - - - +
206H VAL* 3.4 8.4 - - - +
207H LYS 2.6 38.1 + - - +
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Residues in contact with GLU 195 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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145H ASN 3.3 1.0 - - - +
146H VAL* 3.0 12.8 - - - +
147H LYS* 2.6 69.4 + - + +
149H LYS* 3.6 26.8 - - + +
193H THR* 4.2 1.1 + - - -
194H CYS* 1.3 72.0 - - - +
196H ALA* 1.3 59.5 + - - +
197H THR* 3.9 12.4 + - - +
204H PRO* 3.7 18.5 - - + +
206H VAL* 2.8 37.7 - - - +
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Residues in contact with ALA 196 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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113H PRO* 4.6 8.7 - - + -
115H VAL* 4.0 20.4 - - + -
136H LEU* 3.9 23.1 - - + -
144H ILE* 4.7 1.6 - - + -
145H ASN 3.5 4.0 - - - -
194H CYS* 3.9 1.1 + - - +
195H GLU* 1.3 73.4 - - - +
197H THR* 1.3 60.4 + - - +
198H HIS 3.5 5.7 + - - -
204H PRO* 3.5 2.6 - - - +
205H ILE* 2.9 48.1 + - + +
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Residues in contact with THR 197 (chain H).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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144H ILE* 4.1 1.3 - - - -
145H ASN* 3.0 48.3 + - + +
147H LYS* 5.9 0.9 - - - +
195H GLU* 3.9 10.9 + - - +
196H ALA* 1.3 68.9 - - - +
198H HIS* 1.3 69.3 + - - +
201H SER 5.5 4.7 - - - +
202H THR* 5.7 2.0 - - - +
204H PRO* 3.9 23.3 - - + +
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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