Contacts of the strand formed by residues 46 - 54 (chain C) in PDB entry 4I6N
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 ILE 46 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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40C ILE* 3.5 39.7 - - + +
43C LEU* 4.0 28.9 - - + +
44C LYS* 3.7 8.0 - - + +
45C PRO* 1.3 76.6 - - - +
47C HIS* 1.3 61.9 + - - +
48C GLY 3.4 22.7 - - - +
49C PHE* 4.2 9.4 - - + -
167C PRO* 5.1 0.9 - - - +
194C TRP* 2.9 38.6 + - + +
195C THR* 4.0 12.3 - - + -
220C ALA* 4.0 15.5 - - + -
221C VAL 3.8 6.1 - - - +
222C ILE* 4.0 3.4 - - + -
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Residues in contact with HIS 47 (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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28C LEU* 3.3 31.2 - - + +
45C PRO* 3.9 14.1 + - + +
46C ILE* 1.3 75.1 + - - +
48C GLY* 1.3 59.7 + - - +
93C LEU* 4.2 4.6 - - + +
97C CYS* 4.7 16.1 - - - -
99C HIS* 3.6 47.5 + + + +
101C ASP* 4.6 0.2 - - - +
102C VAL* 4.3 7.7 - - + +
166C VAL* 3.7 21.5 - - - +
167C PRO* 3.7 7.5 - - - +
194C TRP* 4.0 1.3 - - - -
221C VAL* 2.8 14.9 + - + +
222C ILE* 3.7 2.5 - - - -
223C SER* 2.8 36.5 + - - -
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Residues in contact with GLY 48 (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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46C ILE* 3.4 10.5 - - - +
47C HIS* 1.3 82.1 - - - +
49C PHE* 1.3 63.3 - - - -
93C LEU* 3.8 17.5 - - - -
165C TYR 3.1 13.2 - - - -
194C TRP* 3.7 8.3 - - - -
220C ALA* 3.6 0.5 - - - -
221C VAL* 2.9 25.0 + - - +
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Residues in contact with PHE 49 (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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33C LEU* 4.0 16.8 - - + -
40C ILE* 4.1 9.4 - - + -
46C ILE* 4.2 6.7 - - + -
48C GLY* 1.3 73.2 - - - -
50C ILE* 1.3 63.9 + - - +
51C PHE 4.1 0.2 - - - -
93C LEU* 3.9 3.7 - - - +
164C THR* 3.3 5.9 - - - -
165C TYR* 2.9 41.4 + - + +
194C TRP* 3.5 28.7 - + - -
195C THR* 4.0 27.6 - - + -
198C ALA* 3.9 20.6 - - + -
199C ILE* 4.0 19.3 - - + -
202C ILE* 4.7 3.6 - - + -
218C LEU* 3.9 21.8 - - + -
219C MSE 3.3 14.1 - - - +
220C ALA* 3.8 22.7 - - + -
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Residues in contact with ILE 50 (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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16C PHE* 4.2 14.1 - - + -
30C VAL* 5.7 1.3 - - + -
49C PHE* 1.3 74.3 - - - +
51C PHE* 1.3 61.9 + - - +
89C ALA* 4.5 2.2 - - + -
90C LEU* 3.9 32.8 - - + +
93C LEU* 4.0 6.1 - - + -
162C PHE* 3.7 24.5 - - + -
163C VAL 3.4 6.1 - - - +
164C THR* 3.6 21.8 - - - +
217C ASN 3.9 0.7 - - - +
218C LEU* 3.6 4.0 - - - +
219C MSE 2.8 63.5 + - + +
221C VAL* 4.2 18.4 - - + -
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Residues in contact with PHE 51 (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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49C PHE 4.1 0.2 - - - -
50C ILE* 1.3 75.2 - - - +
52C LEU* 1.3 70.4 + - - +
53C PHE* 3.8 27.8 - + + -
161C HIS 3.5 1.2 - - - +
162C PHE* 3.4 4.3 - - - -
163C VAL* 2.8 38.9 + - + +
165C TYR* 3.7 34.5 - + + -
202C ILE* 3.8 30.7 - - + -
205C LYS* 3.9 19.3 - - + -
206C ILE* 4.3 10.8 - - + -
216C PHE* 3.7 31.4 - + + -
217C ASN 3.3 15.7 - - - -
218C LEU* 4.1 16.6 - - + -
8D LEU* 4.8 4.9 - - + -
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Residues in contact with LEU 52 (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 SER* 4.2 2.0 - - - +
51C PHE* 1.3 77.7 - - - +
53C PHE* 1.3 66.3 + - - +
160C PHE* 3.8 26.9 - - + -
161C HIS 3.1 11.0 - - - +
162C PHE* 3.5 44.4 - - + -
215C ARG 4.6 0.9 - - - +
216C PHE* 3.3 8.5 - - - +
217C ASN* 2.9 46.0 + - + +
219C MSE 6.0 0.2 - - + -
73D LEU* 3.5 46.0 - - + +
75D GLY* 4.0 6.7 - - - -
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Residues in contact with PHE 53 (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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51C PHE* 3.8 20.4 - + + -
52C LEU* 1.3 78.7 - - - +
54C ARG* 1.3 66.2 + - - +
55C TRP* 3.3 25.3 + + + -
59C GLU* 3.5 20.9 - - - -
160C PHE* 3.9 6.5 - - - -
161C HIS* 2.9 51.0 + + - -
163C VAL* 3.7 28.5 - - + -
176C ASP* 4.4 2.2 - - - -
205C LYS* 3.8 24.9 - - + -
209C TYR* 3.4 19.5 - - - +
215C ARG 4.2 3.8 - - - -
216C PHE* 3.5 24.0 - - + -
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Residues in contact with ARG 54 (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* 1.3 71.6 - - - +
55C TRP* 1.3 64.0 + - - +
56C LEU* 3.4 21.9 + - - +
157C GLU* 2.8 48.6 + - - +
158C ASP* 4.3 9.0 - - - +
159C VAL 3.5 11.2 - - - +
160C PHE* 3.7 22.8 - - + -
209C TYR* 2.5 53.1 + - + -
213C GLU* 2.8 33.5 + - - +
215C ARG* 3.3 25.0 + - - +
216C PHE* 4.9 0.8 - - - -
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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