Contacts of the strand formed by residues 153 - 162 (chain C) in PDB entry 6A5T
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 153 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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50C ILE* 5.8 1.8 - - + -
52C MET 3.6 8.7 - - - +
53C ASN* 4.6 15.9 - - + +
55C SER* 5.1 2.2 - - - -
62C ILE* 4.0 28.0 - - + -
100C LEU* 5.0 4.9 - - + -
101C SER* 3.1 5.5 + - - -
102C ALA 2.9 37.3 + - - +
113C VAL* 5.1 11.0 - - + -
144C LEU* 6.5 0.4 - - + -
145C CYS* 4.4 19.7 - - + -
147C LEU* 4.3 14.6 - - + -
152C GLU* 1.3 77.8 - - - +
154C ASN* 1.3 71.5 + - - +
155C ILE* 3.5 34.5 - - + -
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Residues in contact with ASN 154 (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 LYS* 3.3 22.1 + - - +
52C MET* 2.9 46.5 + - + +
99C GLU* 5.8 4.2 - - - +
100C LEU 3.5 4.1 - - - +
101C SER* 3.1 28.8 + - - +
103C ARG* 5.5 1.6 - - - +
152C GLU* 4.3 10.9 + - - +
153C LEU* 1.3 73.8 - - - +
155C ILE* 1.3 70.1 + - - +
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Residues in contact with ILE 155 (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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48C VAL* 5.2 4.0 - - + -
49C GLU 4.5 4.7 - - - -
50C ILE* 3.8 26.0 - - + -
51C LYS* 4.6 2.2 - - - +
62C ILE* 4.6 9.9 - - + -
66C LEU* 3.6 33.9 - - + -
98C LEU 4.2 0.2 - - - +
99C GLU* 3.5 4.8 - - - +
100C LEU* 2.9 66.9 + - + +
144C LEU* 6.0 1.6 - - + -
153C LEU* 3.5 24.7 - - + -
154C ASN* 1.3 83.5 + - - +
156C ARG* 1.3 62.9 + - - +
157C CYS* 5.1 3.6 - - - -
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Residues in contact with ARG 156 (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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47C LEU 4.8 0.2 - - - -
48C VAL* 3.7 1.4 - - - +
49C GLU* 3.0 54.7 + - + +
51C LYS* 4.7 23.6 - - + +
90C TYR* 3.3 37.3 + - - -
97C VAL* 3.6 25.1 - - + +
98C LEU 3.7 2.9 - - - -
99C GLU* 3.2 33.2 + - + +
155C ILE* 1.3 74.4 - - - +
157C CYS* 1.3 72.8 + - - +
158C ILE* 5.7 1.5 - - + +
66L MET* 5.7 2.8 - - - -
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Residues in contact with CYS 157 (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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45C ILE* 4.2 22.9 - - + -
47C LEU 3.9 3.6 - - - -
48C VAL* 4.4 9.4 - - - -
66C LEU* 4.0 28.3 - - - -
97C VAL* 3.2 10.8 - - - +
98C LEU* 2.9 47.9 + - + +
118C LEU* 5.3 4.9 - - - -
155C ILE* 5.0 6.1 - - - -
156C ARG* 1.3 87.4 - - - +
158C ILE* 1.3 70.7 + - - +
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Residues in contact with ILE 158 (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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45C ILE* 3.4 9.7 - - - +
46C ASP 3.2 18.8 + - - -
47C LEU* 3.3 32.4 + - + +
49C GLU* 5.4 2.2 - - - +
90C TYR* 3.3 55.0 - - + -
95C SER* 4.1 8.3 - - - -
96C VAL 4.1 0.2 - - - -
97C VAL* 3.5 22.7 - - + -
156C ARG* 5.7 0.9 - - + +
157C CYS* 1.3 78.9 - - - +
159C ALA* 1.3 63.5 + - - +
160C LYS* 3.6 37.2 - - + -
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Residues in contact with ALA 159 (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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43C LEU* 4.3 9.3 - - + +
44C ALA 3.2 20.0 - - - +
45C ILE* 4.4 2.0 - - + +
46C ASP 4.4 0.4 - - - +
71C LEU* 4.5 10.1 - - + -
79C MET* 4.2 3.1 - - - +
95C SER* 3.3 9.5 - - - -
96C VAL* 3.1 39.8 + - + +
98C LEU* 4.1 13.5 - - + -
130C GLY* 6.0 0.7 - - - -
158C ILE* 1.3 77.0 - - - +
160C LYS* 1.3 63.7 + - - +
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Residues in contact with LYS 160 (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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43C LEU* 3.2 9.9 - - - +
44C ALA 2.9 30.4 + - - +
46C ASP* 3.6 27.9 + - + +
47C LEU* 3.9 19.8 - - - +
79C MET* 5.1 0.2 - - - -
82C SER* 3.0 34.5 + - - +
89C ASP* 4.3 11.3 + - - -
90C TYR* 4.9 10.2 - - - +
94C CYS* 4.1 18.2 - - - +
158C ILE* 3.6 23.6 - - + -
159C ALA* 1.3 78.9 - - - +
161C LYS* 1.3 62.0 + - - +
162C GLY 4.0 0.4 - - - -
170C TRP* 3.3 9.4 + - + -
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Residues in contact with LYS 161 (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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41C PRO* 3.6 27.8 - - + -
42C THR 3.2 14.4 - - - +
43C LEU* 3.8 9.6 - - + -
76C VAL* 2.6 37.4 + - + +
77C GLU* 3.0 24.3 + - - +
79C MET* 3.2 31.5 + - + +
80C LYS 4.7 7.6 + - - +
81C TYR* 3.6 33.5 - - + -
82C SER* 4.5 10.3 + - - +
94C CYS 5.5 0.4 + - - -
160C LYS* 1.3 75.8 - - - +
162C GLY* 1.3 59.7 + - - +
170C TRP* 3.7 0.9 - - - -
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Residues in contact with GLY 162 (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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41C PRO* 3.5 3.8 - - - +
42C THR 3.0 15.5 + - - -
81C TYR* 4.7 3.1 - - - -
161C LYS* 1.3 75.2 - - - +
163C ILE* 1.3 64.0 + - - -
166C GLU* 3.4 15.9 - - - -
170C TRP* 2.8 39.9 - - - +
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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