Contacts of the strand formed by residues 86 - 97 (chain C) in PDB entry 5FL6
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 ARG 86 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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45C LEU* 5.9 3.8 - - - +
81C ALA* 3.4 1.9 - - - -
82C LEU* 3.0 58.5 + - + +
83C GLY* 2.9 18.5 + - - +
84C PRO* 3.8 13.5 - - - +
85C GLY* 1.3 75.0 - - - +
87C GLU* 1.3 59.0 + - - +
88C TYR* 3.6 15.3 + - + -
194C GLN* 5.1 10.1 + - - -
209C ILE* 3.8 26.7 - - - +
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Residues in contact with GLU 87 (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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50B LEU 4.0 4.9 - - - +
51B LEU* 3.8 23.1 - - + +
52B GLY* 2.9 30.4 + - - -
53B PHE* 5.0 1.0 + - - +
54B GLN* 3.3 24.6 + - - +
79C GLU* 4.8 2.1 - - + +
80C MET 3.3 5.2 - - - +
81C ALA* 4.2 13.7 - - + -
85C GLY* 3.4 19.1 + - - +
86C ARG* 1.3 76.4 - - - +
88C TYR* 1.3 71.3 + - - +
124C SER* 3.6 4.7 + - - -
125C THR* 3.1 41.0 + - + +
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Residues in contact with TYR 88 (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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79C GLU* 3.5 7.3 - - - +
80C MET* 2.7 50.4 + - + +
82C LEU* 3.7 17.9 - - + +
86C ARG* 3.6 24.2 + - + +
87C GLU* 1.3 80.4 - - - +
89C ARG* 1.3 60.0 + - - +
122C HIS* 3.7 18.2 - - + -
123C LEU 3.3 8.1 - - - -
124C SER* 3.2 29.3 - - - -
125C THR* 4.1 7.2 - - - +
138C GLY* 2.6 38.3 + - - -
139C GLY 4.1 0.4 - - - -
141C ALA* 3.5 28.3 - - + -
209C ILE* 3.7 10.6 - - - +
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Residues in contact with ARG 89 (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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76C PRO* 5.9 7.9 - - + +
77C GLY* 5.6 4.5 - - - +
78C LEU 3.2 12.1 - - - +
79C GLU* 5.3 4.3 - - + -
88C TYR* 1.3 75.6 - - - +
90C ALA* 1.3 64.1 + - - +
91C LEU* 3.6 18.9 + - + +
122C HIS* 3.2 4.7 - - - -
123C LEU* 2.8 62.3 + - + +
124C SER 5.5 0.8 + - - -
125C THR* 5.0 13.2 - - + +
127C PHE 5.0 2.8 + - - -
128C ALA* 3.2 26.7 + - - +
129C ARG* 5.1 0.2 - - - +
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Residues in contact with ALA 90 (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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53C PHE* 4.2 5.4 - - + -
74C LEU* 3.7 22.4 - - + +
75C PRO 4.0 15.6 - - - +
76C PRO* 5.7 0.5 - - - +
78C LEU* 2.9 31.2 + - + +
89C ARG* 1.3 75.4 + - - +
91C LEU* 1.3 63.5 + - - +
120C VAL* 4.4 1.6 - - + -
121C VAL 3.6 3.4 - - - +
122C HIS* 3.5 29.4 - - + +
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Residues in contact with LEU 91 (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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73C THR* 4.1 5.0 - - - +
74C LEU* 3.0 27.9 + - - +
89C ARG* 3.7 33.9 - - - +
90C ALA* 1.3 77.9 - - - +
92C GLN* 1.3 68.9 + - + +
121C VAL* 2.7 25.1 + - + +
122C HIS 4.4 3.6 - - - -
123C LEU* 3.9 22.7 - - + +
130C VAL* 3.2 36.1 - - + -
140C LEU* 5.1 1.8 - - + -
267C Y0R 5.8 2.5 - - - +
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Residues in contact with GLN 92 (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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71C GLN* 3.4 26.5 + - + +
72C LEU 3.2 16.4 - - - +
73C THR* 4.5 2.9 - - - +
74C LEU* 3.7 11.6 - - - +
91C LEU* 1.3 90.0 - - + +
93C LEU* 1.3 65.0 + - - +
94C HIS* 2.7 24.0 + - - -
120C VAL* 3.6 1.0 - - - -
121C VAL* 2.8 48.6 + - + +
267C Y0R 3.6 16.5 + - - +
1261C GOL 3.0 22.8 + - - -
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Residues in contact with LEU 93 (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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70C VAL 5.7 0.4 - - - +
71C GLN* 3.3 1.4 - - - -
72C LEU* 2.8 64.3 + - + +
74C LEU* 4.3 5.6 - - + -
92C GLN* 1.3 78.3 - - - +
94C HIS* 1.3 67.7 + - - +
95C LEU* 5.6 2.5 - - + -
118C ILE* 4.2 17.9 - - + -
119C HIS 3.1 14.1 - - - +
120C VAL* 4.1 14.4 - - + -
160C LEU* 4.3 15.3 - - + -
181C ILE* 3.8 30.1 - - + -
184C LEU* 3.8 15.9 - - + -
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Residues in contact with HIS 94 (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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69C SER* 3.5 8.1 - - - +
70C VAL 3.1 19.3 - - - +
71C GLN* 4.0 2.0 - - - -
92C GLN* 2.7 25.6 + - - +
93C LEU* 1.3 77.7 - - - +
95C LEU* 1.3 65.8 + - - +
96C HIS* 3.4 11.0 - + - -
118C ILE* 3.7 3.9 - - - +
119C HIS* 2.9 33.9 + - + +
121C VAL* 3.7 14.1 - - + -
267C Y0R 3.2 15.7 + - - -
1260C ZN 2.1 36.4 - - - -
1261C GOL 3.5 33.8 + - - +
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Residues in contact with LEU 95 (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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69C SER* 2.4 31.4 + - - -
70C VAL* 3.6 15.3 + - + +
93C LEU* 5.6 2.7 - - + -
94C HIS* 1.3 79.0 - - - +
96C HIS* 1.3 67.9 + - - +
97C TRP* 3.4 19.5 - - + -
117C GLU 3.3 4.3 - - - +
118C ILE* 3.6 41.5 - - + -
147C LEU* 4.2 15.7 - - + -
157C TYR* 4.3 10.5 - - + -
160C LEU* 5.3 13.2 - - + -
161C LEU* 5.1 6.1 - - + -
227C LEU* 3.6 29.8 - - + -
242C ASN* 3.4 2.3 + - - -
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Residues in contact with HIS 96 (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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11C TYR* 3.7 13.5 - - - -
68C HIS 5.5 0.2 - - - -
69C SER* 5.4 0.7 - - - -
94C HIS* 3.4 9.1 + + - -
95C LEU* 1.3 78.3 + - - +
97C TRP* 1.3 63.1 + - - +
104C GLY 3.4 7.5 - - - +
106C GLU* 3.2 30.5 + - + -
116C ALA* 3.2 7.4 - - - +
117C GLU* 2.9 38.3 + - + +
119C HIS* 3.2 20.9 - + - -
200C THR* 4.2 0.9 - - - -
201C THR* 5.1 0.4 - - + -
242C ASN* 2.7 31.3 + - - +
267C Y0R 3.9 4.0 - - - -
1260C ZN 2.1 36.0 - - - -
1261C GOL 4.4 7.0 - - - -
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Residues in contact with TRP 97 (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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69C SER* 3.8 7.0 - - - -
70C VAL* 3.7 18.4 - - + -
95C LEU* 3.4 45.5 - - + -
96C HIS* 1.3 75.5 - - - +
98C GLY* 1.3 73.4 + - - +
104C GLY* 3.3 17.0 + - - +
115C PRO 4.0 3.4 - - - +
116C ALA* 4.2 4.3 - - + -
227C LEU* 3.6 41.2 + - + -
228C SER* 3.6 18.4 - - - +
231C LEU* 3.7 26.7 - - + -
239C LEU* 2.9 42.1 + - + -
240C GLN* 3.7 2.9 - - - +
241C LEU* 3.1 13.7 + - - -
242C ASN* 2.7 38.6 + - - +
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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