Contacts of the strand formed by residues 144 - 150 (chain I) 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 GLY 144 (chain I).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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135H PHE* 4.8 1.6 - - - -
129I LEU* 2.7 35.5 + - - +
143I LEU* 1.3 83.0 - - - +
145I CYS* 1.3 60.2 + - - -
159I TRP* 3.1 19.5 - - - -
184I SER 2.9 16.8 - - - -
185I SER* 3.6 1.8 - - - -
215I ILE* 3.8 1.9 - - - +
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Residues in contact with CYS 145 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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126I VAL* 4.3 9.4 - - + -
127I PHE 3.4 14.6 - - - +
128I PRO* 3.6 12.3 - - + -
129I LEU* 3.6 7.6 - - - +
144I GLY* 1.3 75.5 - - - +
146I LEU* 1.3 62.9 + - - +
147I VAL* 4.3 6.3 + - - +
157I VAL* 6.3 2.2 - - - -
159I TRP* 4.0 3.4 - - - -
183I SER* 3.7 1.2 - - - -
184I SER* 2.9 31.4 + - - +
200I CYS* 2.6 46.2 - - - -
202I VAL* 6.0 0.9 - - - -
215I ILE* 4.2 2.7 - - + -
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Residues in contact with LEU 146 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124H GLN* 5.5 2.5 - - - +
131H SER* 4.4 22.4 - - - +
133H VAL* 4.5 13.2 - - + -
178H THR* 5.3 4.5 - - + +
125I SER 3.5 1.4 - - - +
126I VAL* 3.4 3.0 - - - -
127I PHE* 2.9 69.1 + - + +
129I LEU* 4.0 17.0 - - + +
145I CYS* 1.3 76.3 - - - +
147I VAL* 1.3 67.2 + - - +
148I LYS* 4.6 16.4 - - + +
181I THR* 5.2 5.8 - - - +
182I LEU 3.7 4.3 - - - +
183I SER* 4.0 16.4 - - - +
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Residues in contact with VAL 147 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124I PRO* 3.2 35.9 - - + -
125I SER 3.6 3.4 - - - +
126I VAL* 4.5 9.2 - - + +
145I CYS* 5.5 5.2 - - - +
146I LEU* 1.3 75.3 - - - +
148I LYS* 1.3 60.7 + - - +
150I TYR* 3.8 15.3 - - + -
155I VAL* 4.7 5.6 - - + -
157I VAL* 4.6 5.2 - - + -
181I THR* 3.2 4.0 + - - -
182I LEU* 2.7 60.0 + - + +
202I VAL* 3.6 30.5 - - + -
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Residues in contact with LYS 148 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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124H GLN* 4.7 5.6 - - - +
131H SER* 4.4 15.1 + - - +
180H THR* 4.3 24.3 + - - +
124I PRO* 3.5 1.2 - - - +
125I SER* 2.8 43.3 + - - +
127I PHE* 4.6 18.8 - - + -
146I LEU* 3.8 17.4 + - + +
147I VAL* 1.3 76.0 - - - +
149I GLY* 1.3 71.4 + - - +
150I TYR* 3.6 3.4 - - - -
176I GLN* 6.0 3.4 - - - +
180I TYR 3.8 0.7 - - - -
181I THR* 3.8 26.7 + - + +
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Residues in contact with GLY 149 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122I THR* 3.3 11.8 + - - -
123I PRO 3.3 9.7 - - - +
125I SER* 5.7 0.2 + - - -
148I LYS* 1.3 82.4 - - - +
150I TYR* 1.3 56.4 + - - -
179I LEU* 3.5 30.1 - - - +
180I TYR 3.0 13.4 + - - -
181I THR* 3.9 1.7 - - - +
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Residues in contact with TYR 150 (chain I).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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122I THR* 3.1 13.7 - - - +
124I PRO* 3.4 26.5 - - + -
147I VAL* 3.8 24.2 - - + -
148I LYS 4.4 2.0 - - - -
149I GLY* 1.3 73.9 - - - -
151I PHE* 1.3 66.6 + - - +
152I PRO 3.6 12.6 - - - -
153I GLU* 3.4 16.0 + - - -
155I VAL* 3.9 19.8 - - + +
173I ALA* 3.4 23.9 - - - +
179I LEU* 3.6 1.6 - - - -
180I TYR* 2.8 62.2 + - + +
181I THR* 3.6 8.3 - - - -
182I LEU* 3.8 12.9 - - + +
204I HIS* 3.6 18.2 - + - +
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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